Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 249 of 259
Found at i:78080852 original size:16 final size:17
Alignment explanation
Indices: 78080823--78080877 Score: 58
Period size: 17 Copynumber: 3.1 Consensus size: 17
78080813 ATAATAAAAA
78080823 AATAATTTTATAATTTTT
1 AATAATTTT-TAATTTTT
*
78080841 -TTAATTTTTAATAATTTT
1 AATAATTTTTAAT--TTTT
*
78080859 AATGATTTTTAATTTTT
1 AATAATTTTTAATTTTT
78080876 AA
1 AA
78080878 AAAGAATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
16 4 0.13
17 13 0.42
18 4 0.13
19 10 0.32
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (17 bp):
AATAATTTTTAATTTTT
Found at i:78080855 original size:10 final size:10
Alignment explanation
Indices: 78080823--78080871 Score: 52
Period size: 9 Copynumber: 5.3 Consensus size: 10
78080813 ATAATAAAAA
78080823 AATAA-TTTT
1 AATAATTTTT
78080832 -ATAATTTTT
1 AATAATTTTT
*
78080841 -TTAATTTTT
1 AATAATTTTT
78080850 AATAA-TTTT
1 AATAATTTTT
*
78080859 AATGATTTTT
1 AATAATTTTT
78080869 AAT
1 AAT
78080872 TTTTAAAAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
8 4 0.12
9 20 0.59
10 10 0.29
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (10 bp):
AATAATTTTT
Found at i:78080889 original size:39 final size:39
Alignment explanation
Indices: 78080843--78080919 Score: 95
Period size: 39 Copynumber: 2.0 Consensus size: 39
78080833 TAATTTTTTT
*
78080843 AATTTTTAATAATTTTAATG-ATTTTT-AATTTTTAAAAAG
1 AATTTTT-ATAATTTT-ATGAATTTTTAAAATTTTAAAAAG
* *
78080882 AATTTTTATTATTTTTTGAATTTTTAAAATTTTAAAAA
1 AATTTTTATAATTTTATGAATTTTTAAAATTTTAAAAA
78080920 AATAATTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
37 2 0.06
38 13 0.39
39 18 0.55
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (39 bp):
AATTTTTATAATTTTATGAATTTTTAAAATTTTAAAAAG
Found at i:78081448 original size:41 final size:40
Alignment explanation
Indices: 78081403--78081492 Score: 137
Period size: 40 Copynumber: 2.2 Consensus size: 40
78081393 TAAAAAATAT
*
78081403 TTATATTAAAAAAACTACCATAAATATAATAAATGTTTTTA
1 TTATATTAAAAAAACTACCATAAATATAATAAAT-ATTTTA
*
78081444 TTATATT-AAAAAACTACTATAAATATAATAAATATTTTA
1 TTATATTAAAAAAACTACCATAAATATAATAAATATTTTA
*
78081483 TTTTATTAAA
1 TTATATTAAA
78081493 TATGAACTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
39 11 0.24
40 27 0.60
41 7 0.16
ACGTcount: A:0.51, C:0.06, G:0.01, T:0.42
Consensus pattern (40 bp):
TTATATTAAAAAAACTACCATAAATATAATAAATATTTTA
Found at i:78082052 original size:14 final size:14
Alignment explanation
Indices: 78082033--78082059 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
78082023 AGTTATAACT
78082033 TAACAACAAAATAA
1 TAACAACAAAATAA
78082047 TAACAACAAAATA
1 TAACAACAAAATA
78082060 GTAGTAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.70, C:0.15, G:0.00, T:0.15
Consensus pattern (14 bp):
TAACAACAAAATAA
Found at i:78088997 original size:24 final size:25
Alignment explanation
Indices: 78088970--78089018 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
78088960 TTAAAAATAA
* *
78088970 AAATGA-ACATGTGAATTTAGTGTT
1 AAATGATACATGTAAATTAAGTGTT
*
78088994 AAATGATATATGTAAATTAAGTGTT
1 AAATGATACATGTAAATTAAGTGTT
78089019 TATGTTATGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.41, C:0.02, G:0.18, T:0.39
Consensus pattern (25 bp):
AAATGATACATGTAAATTAAGTGTT
Found at i:78089801 original size:20 final size:20
Alignment explanation
Indices: 78089772--78089819 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
78089762 ATATTTTATG
*
78089772 ATTA-TTTAATTAGATATAT
1 ATTATTTTAATGAGATATAT
*
78089791 ATTATTTTAATGAGATATTT
1 ATTATTTTAATGAGATATAT
78089811 ATTATTTTA
1 ATTATTTTA
78089820 TTATTATTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 4 0.15
20 22 0.85
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (20 bp):
ATTATTTTAATGAGATATAT
Found at i:78089815 original size:3 final size:3
Alignment explanation
Indices: 78089809--78089853 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
78089799 AATGAGATAT
*
78089809 TTA TTA TT- TTA TTA TTA TT- TCA TTA TTA TT- TTA TTA TTAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA
78089852 TT
1 TT
78089854 TAGTATAAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
2 5 0.14
3 28 0.78
4 3 0.08
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:78089825 original size:11 final size:11
Alignment explanation
Indices: 78089809--78089847 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
78089799 AATGAGATAT
78089809 TTATTATTTTA
1 TTATTATTTTA
*
78089820 TTATTATTTCA
1 TTATTATTTTA
78089831 TTATTATTTTA
1 TTATTATTTTA
78089842 TTATTA
1 TTATTA
78089848 ATTATTTAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:78092008 original size:21 final size:21
Alignment explanation
Indices: 78091984--78092055 Score: 56
Period size: 21 Copynumber: 3.2 Consensus size: 21
78091974 CTCTCTGAAA
78091984 TGAAATGTGTAAGACCATGGT
1 TGAAATGTGTAAGACCATGGT
* * * *
78092005 TGAAA-GATATCATGGCAACATGAT
1 TGAAATG-TGT-A-AG-ACCATGGT
78092029 TAGAAATGTGTAAGACCATGGT
1 T-GAAATGTGTAAGACCATGGT
78092051 TGAAA
1 TGAAA
78092056 GATACCGTGG
Statistics
Matches: 37, Mismatches: 8, Indels: 12
0.65 0.14 0.21
Matches are distributed among these distances:
20 1 0.03
21 11 0.30
22 8 0.22
23 2 0.05
24 8 0.22
25 6 0.16
26 1 0.03
ACGTcount: A:0.39, C:0.10, G:0.25, T:0.26
Consensus pattern (21 bp):
TGAAATGTGTAAGACCATGGT
Found at i:78092037 original size:46 final size:46
Alignment explanation
Indices: 78091983--78092469 Score: 703
Period size: 46 Copynumber: 10.6 Consensus size: 46
78091973 GCTCTCTGAA
*
78091983 ATGAAATGTGTAAGACCATGGTTGAAAGATATCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
78092029 -TAGAAATGTGTAAGACCATGGTTGAAAGATACCGTGGCAACATGAT
1 AT-GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * * *
78092075 ATAAAATGTGTAAGACCATGGTTGAAAGATACTATGGCAACGTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** *
78092121 ATGAAA-GAATAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
78092166 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAA
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
78092212 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** * *
78092258 ATGAAA-GAATAAGACCATGGTTGAAAGATACCATGACAACATGTT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** * * *
78092303 ATGAAATGTCCAAGACCATGCTTAAAAGATACCATGGCAACCTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
78092349 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
78092395 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
78092441 A-GAAAATGAGTAAGACCATAGTTGAAAGA
1 ATG-AAATGTGTAAGACCATGGTTGAAAGA
78092470 CACTATGACA
Statistics
Matches: 395, Mismatches: 41, Indels: 10
0.89 0.09 0.02
Matches are distributed among these distances:
45 81 0.21
46 313 0.79
47 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:78092239 original size:137 final size:137
Alignment explanation
Indices: 78091993--78092469 Score: 733
Period size: 137 Copynumber: 3.5 Consensus size: 137
78091983 ATGAAATGTG
*
78091993 TAAGACCATGGTTGAAAGATATCATGGCAACATGAT-TAGAAATGTGTAAGACCATGGTTGAAAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGATAT-GAAATGTGTAAGACCATGGTTGAAAG
* * *
78092057 ATACCGTGGCAACATGATATAAAATGTGTAAGACCATGGTTGAAAGATACTATGGCAACGTGACA
65 ATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACA
78092122 TGAAAGAA
130 TGAAAGAA
*
78092130 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGA
*
78092195 TACCATGGCAACATGAAATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACAT
66 TACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACAT
78092260 GAAAGAA
131 GAAAGAA
* * ** * *
78092267 TAAGACCATGGTTGAAAGATACCATGACAACATGTTATGAAATGTCCAAGACCATGCTTAAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGA
* * *
78092332 TACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATAT
66 TACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACAT
**
78092397 GAAATGTG
131 GAAA-GAA
* * *
78092405 TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGATATG-AAATGTGTAAGACCATGGTTGAAAG
78092469 A
65 A
78092470 CACTATGACA
Statistics
Matches: 309, Mismatches: 28, Indels: 5
0.90 0.08 0.01
Matches are distributed among these distances:
137 253 0.82
138 56 0.18
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.22
Consensus pattern (137 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGA
TACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACAT
GAAAGAA
Found at i:78093840 original size:5 final size:5
Alignment explanation
Indices: 78093830--78093863 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
78093820 GATAATATGA
78093830 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
78093864 CGTAGGCTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:78099856 original size:21 final size:21
Alignment explanation
Indices: 78099832--78099877 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
78099822 TTCCATCACT
*
78099832 AGAACTTGAATTTCCTCCACC
1 AGAACTTGAAGTTCCTCCACC
*
78099853 AGAACTTGAAGTTCCTCCACT
1 AGAACTTGAAGTTCCTCCACC
78099874 AGAA
1 AGAA
78099878 ACACTAGGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (21 bp):
AGAACTTGAAGTTCCTCCACC
Found at i:78103955 original size:71 final size:71
Alignment explanation
Indices: 78103876--78104010 Score: 189
Period size: 71 Copynumber: 1.9 Consensus size: 71
78103866 TTAGGTTCAA
* * * * * * *
78103876 AATAAGCACTAATATTATAATAATAAATGTTAGTATCAGCATCAGTAACATGAAATGAGCAGCAG
1 AATAAGCACTAATACTACAATAATAAATATCAATATCAGCACCAGTAACATGAAACGAGCAGCAG
78103941 TAACAC
66 TAACAC
* *
78103947 AATAAGCACTAGTACTACAATAATAAATATCAATATCAGCACCAGTAACATGAGACGAGCAGCA
1 AATAAGCACTAATACTACAATAATAAATATCAATATCAGCACCAGTAACATGAAACGAGCAGCA
78104011 ACAACATGAT
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
71 55 1.00
ACGTcount: A:0.47, C:0.17, G:0.14, T:0.22
Consensus pattern (71 bp):
AATAAGCACTAATACTACAATAATAAATATCAATATCAGCACCAGTAACATGAAACGAGCAGCAG
TAACAC
Found at i:78113722 original size:52 final size:51
Alignment explanation
Indices: 78113651--78113957 Score: 400
Period size: 52 Copynumber: 6.1 Consensus size: 51
78113641 ATCAAGTGAT
* *
78113651 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-G
* * *
78113703 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTG---A-T-
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* * *
78113749 AAAGTGATAAGTTATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
78113795 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-G
*
78113847 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
78113898 AAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTG
1 -AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC-AAGTG
78113951 ATAAGTG
1 A-AAGTG
78113958 GCTACACTTA
Statistics
Matches: 231, Mismatches: 13, Indels: 21
0.87 0.05 0.08
Matches are distributed among these distances:
46 86 0.37
48 1 0.00
49 1 0.00
51 1 0.00
52 132 0.57
53 10 0.04
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:78113757 original size:98 final size:97
Alignment explanation
Indices: 78113637--78113957 Score: 436
Period size: 98 Copynumber: 3.3 Consensus size: 97
78113627 TTTGAGTACT
* **
78113637 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGT-
* * *
78113702 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
65 GAAAGTGATAAGTGATAGCTTCAGCTACACTTA
* *
78113735 TCTGATCAAGTGATAAAGTGATAAGTTATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
78113795 AAAGTGATAAGTGATAGCTTCAGCTACACTTA
66 AAAGTGATAAGTGATAGCTTCAGCTACACTTA
78113827 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 TCTGATCAAGTG---A-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
*
78113892 CAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTA
60 CAAGTG-AAAGTGATAAGTGATAGCTTCAGCTACACTTA
* *
78113931 TCTGATCAAGAGACAAAGTGATAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTG
78113958 GCTACACTTA
Statistics
Matches: 198, Mismatches: 13, Indels: 24
0.84 0.06 0.10
Matches are distributed among these distances:
92 41 0.21
95 1 0.01
96 1 0.01
98 112 0.57
101 1 0.01
104 42 0.21
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (97 bp):
TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
AAAGTGATAAGTGATAGCTTCAGCTACACTTA
Found at i:78113965 original size:37 final size:37
Alignment explanation
Indices: 78113921--78114030 Score: 195
Period size: 37 Copynumber: 3.0 Consensus size: 37
78113911 GATAGCTTTA
78113921 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
78113958 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
78113995 GCTACACTTATCTGATCAAGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
78114031 ATCATACGTA
Statistics
Matches: 70, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
36 12 0.17
37 58 0.83
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:78115346 original size:49 final size:49
Alignment explanation
Indices: 78115285--78115477 Score: 323
Period size: 49 Copynumber: 3.9 Consensus size: 49
78115275 ATGTGAACAT
78115285 GTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
78115335 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* *
78115384 GTGATATGTGACTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* * * *
78115433 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCG
78115478 AGAAAATGAA
Statistics
Matches: 136, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
49 132 0.97
50 4 0.03
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (49 bp):
GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
Found at i:78118685 original size:52 final size:51
Alignment explanation
Indices: 78118614--78118920 Score: 391
Period size: 52 Copynumber: 6.1 Consensus size: 51
78118604 ATCAAGTGAT
* *
78118614 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-G
* * *
78118666 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTG---A-T-
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* * *
78118712 AAAGTGATAAGTTATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
78118758 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-G
*
78118810 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* * *
78118861 AAAAGTGAAAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTG
1 -AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC-AAGTG
78118914 ATAAGTG
1 A-AAGTG
78118921 GCTACACTTA
Statistics
Matches: 230, Mismatches: 14, Indels: 21
0.87 0.05 0.08
Matches are distributed among these distances:
46 86 0.37
48 1 0.00
49 1 0.00
51 1 0.00
52 131 0.57
53 10 0.04
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:78118720 original size:98 final size:97
Alignment explanation
Indices: 78118600--78118920 Score: 427
Period size: 98 Copynumber: 3.3 Consensus size: 97
78118590 TTTGAGTACT
* **
78118600 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGT-
* * *
78118665 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
65 GAAAGTGATAAGTGATAGCTTCAGCTACACTTA
* *
78118698 TCTGATCAAGTGATAAAGTGATAAGTTATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
78118758 AAAGTGATAAGTGATAGCTTCAGCTACACTTA
66 AAAGTGATAAGTGATAGCTTCAGCTACACTTA
78118790 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 TCTGATCAAGTG---A-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
* *
78118855 CAAGTGAAAAGTGAAAAGTGATAGCTTTAGCTACACTTA
60 CAAGTG-AAAGTGATAAGTGATAGCTTCAGCTACACTTA
* *
78118894 TCTGATCAAGAGACAAAGTGATAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTG
78118921 GCTACACTTA
Statistics
Matches: 197, Mismatches: 14, Indels: 24
0.84 0.06 0.10
Matches are distributed among these distances:
92 41 0.21
95 1 0.01
96 1 0.01
98 112 0.57
101 1 0.01
104 41 0.21
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (97 bp):
TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
AAAGTGATAAGTGATAGCTTCAGCTACACTTA
Found at i:78118929 original size:37 final size:37
Alignment explanation
Indices: 78118884--78118993 Score: 195
Period size: 37 Copynumber: 3.0 Consensus size: 37
78118874 GATAGCTTTA
78118884 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
78118921 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
78118958 GCTACACTTATCTGATCAAGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
78118994 ATCATACGTA
Statistics
Matches: 70, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
36 12 0.17
37 58 0.83
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:78121189 original size:37 final size:37
Alignment explanation
Indices: 78121143--78121222 Score: 151
Period size: 37 Copynumber: 2.2 Consensus size: 37
78121133 AATGATGTTA
*
78121143 ATGCCTAAGTTAATCTAAAGTAAGTTTATAAACACAT
1 ATGCATAAGTTAATCTAAAGTAAGTTTATAAACACAT
78121180 ATGCATAAGTTAATCTAAAGTAAGTTTATAAACACAT
1 ATGCATAAGTTAATCTAAAGTAAGTTTATAAACACAT
78121217 ATGCAT
1 ATGCAT
78121223 GTAATGGTAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.44, C:0.12, G:0.11, T:0.33
Consensus pattern (37 bp):
ATGCATAAGTTAATCTAAAGTAAGTTTATAAACACAT
Found at i:78124153 original size:28 final size:30
Alignment explanation
Indices: 78124099--78124167 Score: 92
Period size: 29 Copynumber: 2.4 Consensus size: 30
78124089 TACACATGCA
*
78124099 TTTTTCATATTA-ATATATATATATATATG
1 TTTTTAATATTATATATATATATATATATG
*
78124128 TTTTTAATATTATAT-TAT-TATGTATATG
1 TTTTTAATATTATATATATATATATATATG
78124156 -TTTTAATATTAT
1 TTTTTAATATTAT
78124168 TAGCTATCTA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
27 12 0.32
28 9 0.24
29 14 0.38
30 2 0.05
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.59
Consensus pattern (30 bp):
TTTTTAATATTATATATATATATATATATG
Found at i:78124601 original size:27 final size:27
Alignment explanation
Indices: 78124561--78124622 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
78124551 GATGTTATAT
**
78124561 TATATATGCATTTTTT-ATATATTATG
1 TATATATATATTTTTTAATATATTATG
* *
78124587 TATATATATATTTTTTAATATTTTATT
1 TATATATATATTTTTTAATATATTATG
*
78124614 TTTATATAT
1 TATATATAT
78124623 CATGCATATA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 14 0.47
27 16 0.53
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (27 bp):
TATATATATATTTTTTAATATATTATG
Found at i:78124666 original size:20 final size:19
Alignment explanation
Indices: 78124629--78124670 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
78124619 ATATCATGCA
78124629 TATATTTTGAATACTATAT
1 TATATTTTGAATACTATAT
* *
78124648 TATATTTTTACATATTATAT
1 TATATTTTGA-ATACTATAT
78124668 TAT
1 TAT
78124671 GTATATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (19 bp):
TATATTTTGAATACTATAT
Found at i:78131686 original size:15 final size:15
Alignment explanation
Indices: 78131668--78131726 Score: 84
Period size: 15 Copynumber: 3.9 Consensus size: 15
78131658 GAAGCCCAGA
*
78131668 ATAAAGAAATCCAAG
1 ATAAGGAAATCCAAG
78131683 ATAAGGAAATCCATA-
1 ATAAGGAAATCCA-AG
*
78131698 ATAAGGAAATCCATG
1 ATAAGGAAATCCAAG
78131713 ATAAGGAAATCCAA
1 ATAAGGAAATCCAA
78131727 TTTACAGCAC
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
15 38 0.97
16 1 0.03
ACGTcount: A:0.54, C:0.14, G:0.15, T:0.17
Consensus pattern (15 bp):
ATAAGGAAATCCAAG
Found at i:78131701 original size:30 final size:30
Alignment explanation
Indices: 78131667--78131725 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
78131657 AGAAGCCCAG
78131667 AATAAAGAAATCCAAGATAAGGAAATCCAT
1 AATAAAGAAATCCAAGATAAGGAAATCCAT
* *
78131697 AATAAGGAAATCCATGATAAGGAAATCCA
1 AATAAAGAAATCCAAGATAAGGAAATCCA
78131726 ATTTACAGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.54, C:0.14, G:0.15, T:0.17
Consensus pattern (30 bp):
AATAAAGAAATCCAAGATAAGGAAATCCAT
Found at i:78142311 original size:9 final size:9
Alignment explanation
Indices: 78142280--78142317 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
78142270 TATTATAGGT
78142280 TTTTATATA
1 TTTTATATA
78142289 TTTT-TA-A
1 TTTTATATA
*
78142296 TTGTATATA
1 TTTTATATA
78142305 TTTTATATA
1 TTTTATATA
78142314 TTTT
1 TTTT
78142318 TAAAATAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
7 4 0.16
8 4 0.16
9 17 0.68
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (9 bp):
TTTTATATA
Found at i:78145806 original size:20 final size:20
Alignment explanation
Indices: 78145783--78145820 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
78145773 GGTCTTTAGT
* *
78145783 GGCCTTTGTCTATACTTGAG
1 GGCCTTTGCCTAGACTTGAG
78145803 GGCCTTTGCCTAGACTTG
1 GGCCTTTGCCTAGACTTG
78145821 GGTGGTCTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.24, G:0.26, T:0.37
Consensus pattern (20 bp):
GGCCTTTGCCTAGACTTGAG
Found at i:78154544 original size:10 final size:9
Alignment explanation
Indices: 78154509--78154560 Score: 52
Period size: 9 Copynumber: 5.7 Consensus size: 9
78154499 ATTTTTAAAA
78154509 TTTAAATTT
1 TTTAAATTT
*
78154518 TTTATATATT
1 TTTAAAT-TT
*
78154528 CTT-AATTAT
1 TTTAAATT-T
78154537 TTTAAATTT
1 TTTAAATTT
*
78154546 TTTAAAATT
1 TTTAAATTT
78154555 TTTAAA
1 TTTAAA
78154561 ATTAATTAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
8 1 0.03
9 26 0.74
10 8 0.23
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (9 bp):
TTTAAATTT
Found at i:78161035 original size:21 final size:21
Alignment explanation
Indices: 78161002--78161048 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
78160992 CCCTAAATTA
*
78161002 TAAACCTTGAACTCAAAACCC
1 TAAACCTTAAACTCAAAACCC
* *
78161023 TAAATCTTAAACTCCAAACCC
1 TAAACCTTAAACTCAAAACCC
*
78161044 AAAAC
1 TAAAC
78161049 ATGAATCTTA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.47, C:0.32, G:0.02, T:0.19
Consensus pattern (21 bp):
TAAACCTTAAACTCAAAACCC
Found at i:78162296 original size:29 final size:28
Alignment explanation
Indices: 78162254--78162309 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 28
78162244 TTAGATCAAA
* *
78162254 TTAATCTTTTTATTATTAAATAAATTAAT
1 TTAATCATTGTATTATTAAA-AAATTAAT
78162283 TTAATCATTGTATTATTAAAAAATTAA
1 TTAATCATTGTATTATTAAAAAATTAA
78162310 ATAAGTTGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 7 0.28
29 18 0.72
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.50
Consensus pattern (28 bp):
TTAATCATTGTATTATTAAAAAATTAAT
Found at i:78190508 original size:35 final size:35
Alignment explanation
Indices: 78190469--78190631 Score: 211
Period size: 35 Copynumber: 4.7 Consensus size: 35
78190459 CATGGAAAAT
*
78190469 TTGTGAAACGTAGGTATGGTATCATCCATACTGAG
1 TTGTGAAACGTAGGTATGGTATTATCCATACTGAG
* *
78190504 TTGTGAAAGGTAGGTATGGTATTAACCATACTGAG
1 TTGTGAAACGTAGGTATGGTATTATCCATACTGAG
*
78190539 TTGTGAAACGGAGGTATGGTATTATCCATACTGAG
1 TTGTGAAACGTAGGTATGGTATTATCCATACTGAG
** ** *
78190574 TTAAGAAACGTAGGTATGACATT-TCTCATACCGAG
1 TTGTGAAACGTAGGTATGGTATTATC-CATACTGAG
* *
78190609 TTGTAAAATGTAGGTATGGTATT
1 TTGTGAAACGTAGGTATGGTATT
78190632 TCAATGAGGA
Statistics
Matches: 109, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
34 2 0.02
35 107 0.98
ACGTcount: A:0.31, C:0.11, G:0.26, T:0.33
Consensus pattern (35 bp):
TTGTGAAACGTAGGTATGGTATTATCCATACTGAG
Found at i:78192020 original size:35 final size:35
Alignment explanation
Indices: 78191989--78192076 Score: 133
Period size: 35 Copynumber: 2.5 Consensus size: 35
78191979 CGTACCTATA
78191989 TTTCACAACTCAGTATGGGAAATGCCATACCTACG
1 TTTCACAACTCAGTATGGGAAATGCCATACCTACG
* * *
78192024 TTCCATC-ACTCGGTATGGGAAATGTCATACCTACG
1 TTTCA-CAACTCAGTATGGGAAATGCCATACCTACG
78192059 TTTCACAACTCAGTATGG
1 TTTCACAACTCAGTATGG
78192077 TTTTCTTTAC
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
34 1 0.02
35 44 0.96
36 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.28
Consensus pattern (35 bp):
TTTCACAACTCAGTATGGGAAATGCCATACCTACG
Found at i:78194065 original size:21 final size:21
Alignment explanation
Indices: 78194041--78194084 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
78194031 TTATATATGA
*
78194041 TTAATTAAGC-TTTAGTTAATC
1 TTAATTAA-CTTTTAATTAATC
78194062 TTAATTAACTTTTAATTAATC
1 TTAATTAACTTTTAATTAATC
78194083 TT
1 TT
78194085 TTCTTATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.34, C:0.09, G:0.05, T:0.52
Consensus pattern (21 bp):
TTAATTAACTTTTAATTAATC
Found at i:78195893 original size:25 final size:25
Alignment explanation
Indices: 78195854--78195903 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
78195844 TATGACCTGT
78195854 TAGGCCAATACGAGCCTAAAGAGGA
1 TAGGCCAATACGAGCCTAAAGAGGA
78195879 TAGGCCAAT-CTGAGCCTAAAGAGGA
1 TAGGCCAATAC-GAGCCTAAAGAGGA
78195904 ACTAACGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 1 0.04
25 23 0.96
ACGTcount: A:0.38, C:0.20, G:0.28, T:0.14
Consensus pattern (25 bp):
TAGGCCAATACGAGCCTAAAGAGGA
Found at i:78206646 original size:27 final size:27
Alignment explanation
Indices: 78206616--78206670 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
78206606 TACACTTTAA
*
78206616 TTCCTTCAATTAAAAAAATTATAAATT
1 TTCCTCCAATTAAAAAAATTATAAATT
*
78206643 TTCCTCCAATTCAAAAAATTATAAATT
1 TTCCTCCAATTAAAAAAATTATAAATT
78206670 T
1 T
78206671 CTAACAAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.45, C:0.15, G:0.00, T:0.40
Consensus pattern (27 bp):
TTCCTCCAATTAAAAAAATTATAAATT
Found at i:78206738 original size:31 final size:31
Alignment explanation
Indices: 78206702--78206779 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 31
78206692 GATGAGTAAA
*
78206702 TTTATAATTT-AGTCATTTAATTATTAATAAT
1 TTTATAATTTGA-TCACTTAATTATTAATAAT
*
78206733 TTTATAATTTGATCACTTAATTATTAATAAA
1 TTTATAATTTGATCACTTAATTATTAATAAT
* *
78206764 ATTGTAATTTGATCAC
1 TTTATAATTTGATCAC
78206780 GCTTAGCAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
31 41 0.98
32 1 0.02
ACGTcount: A:0.38, C:0.06, G:0.05, T:0.50
Consensus pattern (31 bp):
TTTATAATTTGATCACTTAATTATTAATAAT
Found at i:78209515 original size:6 final size:6
Alignment explanation
Indices: 78209504--78209549 Score: 65
Period size: 6 Copynumber: 7.5 Consensus size: 6
78209494 ATAATTTAAT
* *
78209504 AAATAA AAATAA AAATAA AATCTAA AACTAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AA-ATAA AAATAA AAATAA AAATAA AAA
78209550 ACATATAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
6 32 0.86
7 5 0.14
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:78209549 original size:19 final size:18
Alignment explanation
Indices: 78209504--78209549 Score: 65
Period size: 19 Copynumber: 2.5 Consensus size: 18
78209494 ATAATTTAAT
78209504 AAATAAAAATAAAAATAA
1 AAATAAAAATAAAAATAA
* *
78209522 AATCTAAAACTAAAAATAA
1 AA-ATAAAAATAAAAATAA
78209541 AAATAAAAA
1 AAATAAAAA
78209550 ACATATAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.17
Consensus pattern (18 bp):
AAATAAAAATAAAAATAA
Found at i:78209583 original size:9 final size:9
Alignment explanation
Indices: 78209569--78209627 Score: 64
Period size: 9 Copynumber: 6.6 Consensus size: 9
78209559 TTTATAAAAA
78209569 TAATTCGGT
1 TAATTCGGT
*
78209578 TAATTCGGG
1 TAATTCGGT
**
78209587 TAATTTTGT
1 TAATTCGGT
**
78209596 TAATTCTAT
1 TAATTCGGT
*
78209605 TAATTCGAT
1 TAATTCGGT
78209614 TAATTCGGT
1 TAATTCGGT
78209623 TAATT
1 TAATT
78209628 TTATACTTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 42 1.00
ACGTcount: A:0.27, C:0.08, G:0.15, T:0.49
Consensus pattern (9 bp):
TAATTCGGT
Found at i:78213240 original size:21 final size:19
Alignment explanation
Indices: 78213201--78213240 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
78213191 ATTTAAATTT
*
78213201 TAAAATTATTAATATAATA
1 TAAAATTATTAAAATAATA
78213220 TAAAATTATTCAAAAATAATA
1 TAAAATTATT--AAAATAATA
78213241 ATATCTCTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
21 8 0.44
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (19 bp):
TAAAATTATTAAAATAATA
Found at i:78220252 original size:14 final size:15
Alignment explanation
Indices: 78220235--78220263 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
78220225 TTAATTTTTT
78220235 TTTAAAAAT-TATAA
1 TTTAAAAATATATAA
78220249 TTTAAAAATATATAA
1 TTTAAAAATATATAA
78220264 ATTTTAGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TTTAAAAATATATAA
Found at i:78220294 original size:19 final size:19
Alignment explanation
Indices: 78220259--78220314 Score: 71
Period size: 18 Copynumber: 3.0 Consensus size: 19
78220249 TTTAAAAATA
*
78220259 TATAAAT-TTTAGAATTTT
1 TATAAATATTTTGAATTTT
78220277 TATAAATATTTTGAA-TTT
1 TATAAATATTTTGAATTTT
*
78220295 TAAAAATTATTTTGAATTTT
1 TATAAA-TATTTTGAATTTT
78220315 CTAAGTTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 15 0.45
19 15 0.45
20 3 0.09
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (19 bp):
TATAAATATTTTGAATTTT
Found at i:78220330 original size:20 final size:19
Alignment explanation
Indices: 78220264--78220314 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 19
78220254 AAATATATAA
*
78220264 ATTTTAGAATTTTTATAAA-T
1 ATTTT-GAA-TTTTAAAAATT
78220284 ATTTTGAATTTTAAAAATT
1 ATTTTGAATTTTAAAAATT
78220303 ATTTTGAATTTT
1 ATTTTGAATTTT
78220315 CTAAGTTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 8 0.28
19 16 0.55
20 5 0.17
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (19 bp):
ATTTTGAATTTTAAAAATT
Found at i:78224899 original size:60 final size:62
Alignment explanation
Indices: 78224787--78224934 Score: 192
Period size: 60 Copynumber: 2.4 Consensus size: 62
78224777 CTTTAAGGTT
* * * *
78224787 TTTAAGGATTAACTTGAACAAAAAAGAGAGGTTAAAGTCCCAATGTGAGAACAATTGCTAAG
1 TTTAAGGCTTAACTTGAACAAAAAAGAGAGGTTAAAGTCCCAATGTGAGAACAACTGCCAAA
* * * *
78224849 TTTAAGGCCTAACTTGAATAAAAAA-A-AGGTTCAGGTCCCAATGTGAGAACAACTGCCAAA
1 TTTAAGGCTTAACTTGAACAAAAAAGAGAGGTTAAAGTCCCAATGTGAGAACAACTGCCAAA
78224909 TTTAAGGCTTAACTTAGACACAAAAA
1 TTTAAGGCTTAACTT-GA-ACAAAAA
78224935 TTTAACTCCC
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
60 43 0.58
61 3 0.04
62 28 0.38
ACGTcount: A:0.43, C:0.15, G:0.18, T:0.24
Consensus pattern (62 bp):
TTTAAGGCTTAACTTGAACAAAAAAGAGAGGTTAAAGTCCCAATGTGAGAACAACTGCCAAA
Found at i:78226101 original size:6 final size:6
Alignment explanation
Indices: 78226092--78226117 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
78226082 AAAGAAAAAA
78226092 GGGTAT GGGTAT GGGTAT GGGTAT GG
1 GGGTAT GGGTAT GGGTAT GGGTAT GG
78226118 AGGAAACTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.54, T:0.31
Consensus pattern (6 bp):
GGGTAT
Found at i:78233741 original size:2 final size:2
Alignment explanation
Indices: 78233736--78233772 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
78233726 ATATATACAC
78233736 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
78233773 TGTACCTTGT
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:78243701 original size:18 final size:18
Alignment explanation
Indices: 78243674--78243730 Score: 96
Period size: 18 Copynumber: 3.2 Consensus size: 18
78243664 TATGACCGTT
78243674 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
78243692 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
78243710 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
78243728 TAC
1 TAC
78243731 AGTAGTTGGG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.32
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:78252240 original size:21 final size:22
Alignment explanation
Indices: 78252211--78252257 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
78252201 CAGAAGGAGT
*
78252211 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
78252233 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
78252254 GAGT
1 GAGT
78252258 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:78254256 original size:31 final size:32
Alignment explanation
Indices: 78254215--78254278 Score: 96
Period size: 31 Copynumber: 2.0 Consensus size: 32
78254205 TTACTTCGAC
*
78254215 TATTTGTTAAAAAGTTAATGGA-TAAATTTAAT
1 TATTTGTTAAAAAGTTAAT-GACGAAATTTAAT
78254247 TATTT-TTAAAAAGTTAATGACGAAATTTAAT
1 TATTTGTTAAAAAGTTAATGACGAAATTTAAT
78254278 T
1 T
78254279 CGAAAAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 2 0.07
31 23 0.77
32 5 0.17
ACGTcount: A:0.44, C:0.02, G:0.11, T:0.44
Consensus pattern (32 bp):
TATTTGTTAAAAAGTTAATGACGAAATTTAAT
Found at i:78254935 original size:42 final size:45
Alignment explanation
Indices: 78254888--78254980 Score: 108
Period size: 42 Copynumber: 2.2 Consensus size: 45
78254878 TTTATCATTA
* * *
78254888 TAAATAAAATAATTATTAATT-AAAAA-TATAAATTAAA-AATTT
1 TAAATAAAATAATTATTAATTAAAAAATTAGAAATAAAATAATAT
*
78254930 TAAAT---ATATTTATTAATTAAAAAATTAGAAATAAAATAATAT
1 TAAATAAAATAATTATTAATTAAAAAATTAGAAATAAAATAATAT
78254972 TAAATAAAA
1 TAAATAAAA
78254981 AATACAAATA
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
39 12 0.29
40 5 0.12
41 9 0.22
42 14 0.34
45 1 0.02
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (45 bp):
TAAATAAAATAATTATTAATTAAAAAATTAGAAATAAAATAATAT
Found at i:78265282 original size:18 final size:18
Alignment explanation
Indices: 78265255--78265347 Score: 150
Period size: 18 Copynumber: 5.2 Consensus size: 18
78265245 TACGACCGTT
*
78265255 TACGGTACTATTTACGTA
1 TACGGTACTATTCACGTA
*
78265273 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
78265291 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
78265309 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
78265327 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
78265345 TAC
1 TAC
78265348 AGTAGTTGGG
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 69 1.00
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:78265302 original size:36 final size:36
Alignment explanation
Indices: 78265255--78265347 Score: 168
Period size: 36 Copynumber: 2.6 Consensus size: 36
78265245 TACGACCGTT
*
78265255 TACGGTACTATTTACGTATACGGCACTATTCACGTA
1 TACGGTACTATTCACGTATACGGCACTATTCACGTA
78265291 TACGGTACTATTCACGTATACGGCACTATTCACGTA
1 TACGGTACTATTCACGTATACGGCACTATTCACGTA
*
78265327 TACGGTACTGTTCACGTATAC
1 TACGGTACTATTCACGTATAC
78265348 AGTAGTTGGG
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 55 1.00
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (36 bp):
TACGGTACTATTCACGTATACGGCACTATTCACGTA
Found at i:78274355 original size:17 final size:16
Alignment explanation
Indices: 78274328--78274360 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
78274318 TATAATTACC
78274328 ATATAATTTAAATATT
1 ATATAATTTAAATATT
78274344 ATATATATTTAAATATT
1 ATATA-ATTTAAATATT
78274361 TTTACATTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATATAATTTAAATATT
Found at i:78277929 original size:17 final size:17
Alignment explanation
Indices: 78277909--78277941 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
78277899 TCATACTCAT
*
78277909 ATTTGACACTTAACTCG
1 ATTTGAAACTTAACTCG
78277926 ATTTGAAACTTAACTC
1 ATTTGAAACTTAACTC
78277942 AAAACCGATA
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:0.33, C:0.21, G:0.09, T:0.36
Consensus pattern (17 bp):
ATTTGAAACTTAACTCG
Found at i:78278313 original size:16 final size:17
Alignment explanation
Indices: 78278278--78278316 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
78278268 AGAAATAAAG
78278278 AAAATAAGTAATTTATA
1 AAAATAAGTAATTTATA
78278295 AAAATAATGT-ATTTA-A
1 AAAATAA-GTAATTTATA
78278311 AAAATA
1 AAAATA
78278317 TTTAGAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.33
17 12 0.57
18 2 0.10
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (17 bp):
AAAATAAGTAATTTATA
Found at i:78279342 original size:48 final size:47
Alignment explanation
Indices: 78279278--78279389 Score: 136
Period size: 48 Copynumber: 2.3 Consensus size: 47
78279268 AGTGATAATT
* *
78279278 TTAAATTTTCAATACTATTCGATATTTTTTTAATTTATACAAATT-TAA
1 TTAAA-TTTCAATACTATTCGATATTTTATTAATTAATAC-AATTATAA
* * *
78279326 TTAAATTTGCAATACTATTTGATATTTTATTCATTAATGCAATTATAA
1 TTAAATTT-CAATACTATTCGATATTTTATTAATTAATACAATTATAA
78279374 TTAAAATTTCAATACT
1 TT-AAATTTCAATACT
78279390 GCTTGATTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
47 7 0.12
48 43 0.77
49 6 0.11
ACGTcount: A:0.38, C:0.09, G:0.04, T:0.49
Consensus pattern (47 bp):
TTAAATTTCAATACTATTCGATATTTTATTAATTAATACAATTATAA
Found at i:78279396 original size:48 final size:46
Alignment explanation
Indices: 78279278--78279406 Score: 129
Period size: 48 Copynumber: 2.7 Consensus size: 46
78279268 AGTGATAATT
* * *
78279278 TTAAATTTTCAATACTATTCGATATTTTTTTAATTTATACAAATTTAA
1 TTAAAATTTCAATACTATT-GATA-TTTTTTCATTAATACAAATTTAA
*
78279326 TT-AAATTTGCAATACTATTTGATATTTTATTCATTAATGC-AATTATAA
1 TTAAAATTT-CAATACTA-TTGATATTTT-TTCATTAATACAAATT-TAA
*
78279374 TTAAAATTTCAATACTGCTTGAT-TTTTTTCATT
1 TTAAAATTTCAATACT-ATTGATATTTTTTCATT
78279407 TATGATGTTT
Statistics
Matches: 70, Mismatches: 5, Indels: 14
0.79 0.06 0.16
Matches are distributed among these distances:
46 6 0.09
47 17 0.24
48 39 0.56
49 8 0.11
ACGTcount: A:0.35, C:0.09, G:0.05, T:0.51
Consensus pattern (46 bp):
TTAAAATTTCAATACTATTGATATTTTTTCATTAATACAAATTTAA
Found at i:78280389 original size:7 final size:7
Alignment explanation
Indices: 78280377--78280409 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
78280367 TAGTCTTTTC
78280377 GTATTTA
1 GTATTTA
78280384 GTATTTA
1 GTATTTA
78280391 GTATTTA
1 GTATTTA
78280398 GTATTTA
1 GTATTTA
78280405 GTATT
1 GTATT
78280410 ATGTATTATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:78281026 original size:18 final size:18
Alignment explanation
Indices: 78281003--78281041 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
78280993 ATGCTAGGTG
*
78281003 TGTATCCTATCCCTTATA
1 TGTATCCTAACCCTTATA
78281021 TGTATCCTAACCCTTATA
1 TGTATCCTAACCCTTATA
78281039 TGT
1 TGT
78281042 TTCTTTTTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.23, C:0.26, G:0.08, T:0.44
Consensus pattern (18 bp):
TGTATCCTAACCCTTATA
Found at i:78285025 original size:126 final size:126
Alignment explanation
Indices: 78284882--78285136 Score: 377
Period size: 126 Copynumber: 2.0 Consensus size: 126
78284872 TTATAGCCTC
* * * * *
78284882 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCAACGTGGGAGTTTTTTTCAGAAATTTTGCTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGCCAACGTGGGAGCTTTTTTCAAAAATTTTACAG
* * * * *
78284947 ACAGTGCATTC-TGCTTGAAGCGTTTTCAACACTATTTGTTCATAATCGTCTACTCAGAATT
66 ACAGTACA-TCATGCTTGAAGCGTTTTCAACACTATTTGTTCAAAAACGTCAACTCAAAATT
* *
78285008 ATTTTTCTATGAACTACTGTAGCAAAAGAGCGCCCACGTGGGAGCTTTTTTCAAAAATTTTACAG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGCCAACGTGGGAGCTTTTTTCAAAAATTTTACAG
*
78285073 ACAGTACATCATGCTTGAAGCGTTTTCGACACTATTTGTTCAAAAACGTCAACTCAAAATT
66 ACAGTACATCATGCTTGAAGCGTTTTCAACACTATTTGTTCAAAAACGTCAACTCAAAATT
78285134 ATT
1 ATT
78285137 CTTGCAGAAA
Statistics
Matches: 115, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
125 2 0.02
126 113 0.98
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.35
Consensus pattern (126 bp):
ATTTTTCTACGAACTACTGTAGCAAAAGAGCGCCAACGTGGGAGCTTTTTTCAAAAATTTTACAG
ACAGTACATCATGCTTGAAGCGTTTTCAACACTATTTGTTCAAAAACGTCAACTCAAAATT
Found at i:78285239 original size:19 final size:20
Alignment explanation
Indices: 78285208--78285245 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
78285198 CTAATACCCT
78285208 AAACATAAATTT-ATTTAAA
1 AAACATAAATTTAATTTAAA
78285227 AAAC-TAAACTTTAATTTAA
1 AAACATAAA-TTTAATTTAA
78285246 TTAATTAACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.24
19 7 0.41
20 6 0.35
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATAAATTTAATTTAAA
Found at i:78286184 original size:6 final size:6
Alignment explanation
Indices: 78286169--78286212 Score: 70
Period size: 6 Copynumber: 7.3 Consensus size: 6
78286159 CTACATTTGC
* *
78286169 GCGTTG GCGTTT GCGTTT GCGTTT GCGCTT GCGTTT GCGTTT GC
1 GCGTTT GCGTTT GCGTTT GCGTTT GCGTTT GCGTTT GCGTTT GC
78286213 AATATAAGAG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.00, C:0.20, G:0.36, T:0.43
Consensus pattern (6 bp):
GCGTTT
Found at i:78297348 original size:30 final size:30
Alignment explanation
Indices: 78297307--78297369 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
78297297 GTTACGTTTA
78297307 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
* * *
78297337 TTGTTATTTTTGTTATTATTTTAGAGGTAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
78297367 TTG
1 TTG
78297370 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.22, C:0.02, G:0.16, T:0.60
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:78297523 original size:12 final size:12
Alignment explanation
Indices: 78297493--78297524 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
78297483 TATATATTTT
78297493 AAAATT-ATATA
1 AAAATTAATATA
78297504 AAAA-TAATATA
1 AAAATTAATATA
78297515 AAAATTAATA
1 AAAATTAATA
78297525 CAGACAGGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 1 0.05
11 13 0.68
12 5 0.26
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:78298441 original size:15 final size:16
Alignment explanation
Indices: 78298421--78298458 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
78298411 TTTATTTGCA
*
78298421 AATA-ATTTTTCTAAG
1 AATATATTTTTATAAG
78298436 AATAATATTTTTATAAG
1 AAT-ATATTTTTATAAG
78298453 AATATA
1 AATATA
78298459 CAATAAGGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 3 0.15
16 4 0.20
17 13 0.65
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (16 bp):
AATATATTTTTATAAG
Found at i:78299592 original size:15 final size:15
Alignment explanation
Indices: 78299572--78299600 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
78299562 GATATAAATA
78299572 AAATTTATTATTTTT
1 AAATTTATTATTTTT
78299587 AAATTTATTATTTT
1 AAATTTATTATTTT
78299601 GAATAGTACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
AAATTTATTATTTTT
Found at i:78320394 original size:11 final size:11
Alignment explanation
Indices: 78320364--78320395 Score: 57
Period size: 10 Copynumber: 3.0 Consensus size: 11
78320354 TTTATGTTAT
78320364 AATTTGATGAA
1 AATTTGATGAA
78320375 AATTT-ATGAA
1 AATTTGATGAA
78320385 AATTTGATGAA
1 AATTTGATGAA
78320396 TGCACGAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.47, C:0.00, G:0.16, T:0.38
Consensus pattern (11 bp):
AATTTGATGAA
Found at i:78320682 original size:38 final size:38
Alignment explanation
Indices: 78320639--78320753 Score: 221
Period size: 38 Copynumber: 3.0 Consensus size: 38
78320629 TTCAGTTTCA
78320639 TATTTATGATCCATGGGTGGACATGTACATTTACATGC
1 TATTTATGATCCATGGGTGGACATGTACATTTACATGC
78320677 TATTTATGATCCATGGGTGGACATGTACATTTACATGC
1 TATTTATGATCCATGGGTGGACATGTACATTTACATGC
*
78320715 TATTTATGATCCATAGGTGGACATGTACATTTACATGC
1 TATTTATGATCCATGGGTGGACATGTACATTTACATGC
78320753 T
1 T
78320754 TGCGTCGGTA
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
38 76 1.00
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (38 bp):
TATTTATGATCCATGGGTGGACATGTACATTTACATGC
Found at i:78327818 original size:24 final size:24
Alignment explanation
Indices: 78327786--78327831 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
78327776 CCCCGGACGT
78327786 ATAGAAATTATTTTAAAATGCTCG
1 ATAGAAATTATTTTAAAATGCTCG
78327810 ATAGAAATTATTTTAAAATGCT
1 ATAGAAATTATTTTAAAATGCT
78327832 GGCGACTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (24 bp):
ATAGAAATTATTTTAAAATGCTCG
Found at i:78328673 original size:24 final size:24
Alignment explanation
Indices: 78328615--78328661 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
78328605 AATTTTCAAT
*
78328615 TTGAGTTTTAAATATTAATGGGTA
1 TTGAATTTTAAATATTAATGGGTA
*
78328639 TTGAATTTTAAATTTTAATGGGT
1 TTGAATTTTAAATATTAATGGGT
78328662 TTGGACTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.49
Consensus pattern (24 bp):
TTGAATTTTAAATATTAATGGGTA
Found at i:78332485 original size:47 final size:47
Alignment explanation
Indices: 78332376--78332486 Score: 127
Period size: 47 Copynumber: 2.4 Consensus size: 47
78332366 CCGGGATAAG
* * *
78332376 CACATAGTGCTTCATCGGAATAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
* * * *
78332423 CACAAAGTACTTCATCGGAACAAATCTGAAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTA-TAGTA
78332470 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
78332487 ACTCAATGTC
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
46 1 0.02
47 50 0.94
48 2 0.04
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
Found at i:78333889 original size:31 final size:31
Alignment explanation
Indices: 78333854--78333917 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
78333844 ATGTATAAAA
78333854 TTACACATTAGGTCAAAGTTCATGCATGATT
1 TTACACATTAGGTCAAAGTTCATGCATGATT
78333885 TTACACATTAGGTCAAAGTTCATGCATGATT
1 TTACACATTAGGTCAAAGTTCATGCATGATT
78333916 TT
1 TT
78333918 GAGATTTATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.38
Consensus pattern (31 bp):
TTACACATTAGGTCAAAGTTCATGCATGATT
Found at i:78335607 original size:22 final size:22
Alignment explanation
Indices: 78335582--78335623 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
78335572 AATAATAGAC
78335582 ATTTATGTCAAGACTGAAATAT
1 ATTTATGTCAAGACTGAAATAT
* *
78335604 ATTTATGTCAGGATTGAAAT
1 ATTTATGTCAAGACTGAAAT
78335624 TTTAAAATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.38, C:0.07, G:0.17, T:0.38
Consensus pattern (22 bp):
ATTTATGTCAAGACTGAAATAT
Found at i:78344027 original size:17 final size:17
Alignment explanation
Indices: 78344005--78344039 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
78343995 TACCAGAAAG
78344005 AACATGGAGAGCAAGAA
1 AACATGGAGAGCAAGAA
78344022 AACATGGAGAGCAAGAA
1 AACATGGAGAGCAAGAA
78344039 A
1 A
78344040 CTAGTGCCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.54, C:0.11, G:0.29, T:0.06
Consensus pattern (17 bp):
AACATGGAGAGCAAGAA
Found at i:78346767 original size:23 final size:23
Alignment explanation
Indices: 78346737--78346782 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
78346727 AATTTGAAGA
78346737 AGAATTCAAACAAAACAACCCTT
1 AGAATTCAAACAAAACAACCCTT
78346760 AGAATTCAAACAAAACAACCCTT
1 AGAATTCAAACAAAACAACCCTT
78346783 TTTATATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.52, C:0.26, G:0.04, T:0.17
Consensus pattern (23 bp):
AGAATTCAAACAAAACAACCCTT
Found at i:78351120 original size:30 final size:31
Alignment explanation
Indices: 78351076--78351139 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 31
78351066 ATAATTTATA
*
78351076 TTTTTGTAAGTTTTAAAAGATAAAAT-TAAT
1 TTTTTATAAGTTTTAAAAGATAAAATGTAAT
* ** *
78351106 TTTTTATAATTTTTAAGGGTTAAAATGTAAT
1 TTTTTATAAGTTTTAAAAGATAAAATGTAAT
78351137 TTT
1 TTT
78351140 ATATTTATTA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 21 0.75
31 7 0.25
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.52
Consensus pattern (31 bp):
TTTTTATAAGTTTTAAAAGATAAAATGTAAT
Found at i:78351185 original size:15 final size:15
Alignment explanation
Indices: 78351135--78351187 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
78351125 TTAAAATGTA
* * *
78351135 ATTTTATATTTATTA
1 ATTTTAAATTTTTTT
**
78351150 ATTTTAAATTTTAAAT
1 ATTTTAAATTTT-TTT
78351166 ATTTTAAATTTTTTT
1 ATTTTAAATTTTTTT
78351181 ATTTTAA
1 ATTTTAA
78351188 GATGTTGAGA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
15 18 0.60
16 12 0.40
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
ATTTTAAATTTTTTT
Found at i:78361005 original size:21 final size:22
Alignment explanation
Indices: 78360991--78361036 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
78360981 TTTTATTCTT
78360991 CTTTTTTTCCC-TTTTTCATAA
1 CTTTTTTTCCCTTTTTTCATAA
78361012 CTTTTTTTCCC-TTTTTCATAA
1 CTTTTTTTCCCTTTTTTCATAA
78361033 CTTT
1 CTTT
78361037 AAGTGTTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.13, C:0.24, G:0.00, T:0.63
Consensus pattern (22 bp):
CTTTTTTTCCCTTTTTTCATAA
Found at i:78361969 original size:69 final size:69
Alignment explanation
Indices: 78361896--78362035 Score: 183
Period size: 69 Copynumber: 2.0 Consensus size: 69
78361886 GGGAGGGGGT
* * *
78361896 GAAGGGGATGGAGGAGGTGGGGACTTGTAATAGTAGGGTGGTGGTGGAGAGTGGA-CTGGTGGTG
1 GAAGGGGATGGAGGAGGTGGAGACTTGTAATAGTAGGGTGGTGGTGGAGA-TGGAGATGGAGGTG
78361960 GTGGA
65 GTGGA
* * * * * *
78361965 GAAGGTGATGGGGGAGGTGGAGATTTGTAGTAGTATGGTGGTGGTGGTGATGGAGATGGAGGTGG
1 GAAGGGGATGGAGGAGGTGGAGACTTGTAATAGTAGGGTGGTGGTGGAGATGGAGATGGAGGTGG
78362030 TGGA
66 TGGA
78362034 GA
1 GA
78362036 TTTGTAGTAG
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
68 4 0.07
69 57 0.93
ACGTcount: A:0.21, C:0.01, G:0.54, T:0.24
Consensus pattern (69 bp):
GAAGGGGATGGAGGAGGTGGAGACTTGTAATAGTAGGGTGGTGGTGGAGATGGAGATGGAGGTGG
TGGA
Found at i:78362004 original size:48 final size:48
Alignment explanation
Indices: 78361952--78362887 Score: 561
Period size: 48 Copynumber: 19.2 Consensus size: 48
78361942 GAGAGTGGAC
* * *
78361952 TGGTGGTGGTGGAGAAGGTGATGGGGGAGGTGGAGATTTGTAGTAGTA
1 TGGTGGTGGTGGAGATGGTGATGGTGGTGGTGGAGATTTGTAGTAGTA
* * *
78362000 TGGTGGTGGTGGTGATGGAGATGGAGGTGGTGGAGATTTGTAGTAGTA
1 TGGTGGTGGTGGAGATGGTGATGGTGGTGGTGGAGATTTGTAGTAGTA
* * * * * * *
78362048 GGGAGGAGGAGGAGATGGTGATGGGGGAGGAGGAGATTTGTAGTAGTA
1 TGGTGGTGGTGGAGATGGTGATGGTGGTGGTGGAGATTTGTAGTAGTA
* *** * * *
78362096 TGGTGGTGGTGGCGATGGACTTGGAGGAGGTGGGGATTTGTAGTAGTA
1 TGGTGGTGGTGGAGATGGTGATGGTGGTGGTGGAGATTTGTAGTAGTA
* * * * * * *
78362144 TGGTGGCGGTGGTGATGGTGATGGTGGAGGAGGGGAGTTGTAGTGGTA
1 TGGTGGTGGTGGAGATGGTGATGGTGGTGGTGGAGATTTGTAGTAGTA
* * * *** * * * *
78362192 AGCTGGTGCTGGA-ACCTTCACTGGAGGTGGTGGTGATTTGTAATAGTA
1 TGGTGGTGGTGGAGATGGTGA-TGGTGGTGGTGGAGATTTGTAGTAGTA
* * * * * * *
78362240 TGATGGTGGAGGGGAAT--AGACTGGTGGTGGTGGGGACTTGTAATAGTA
1 TGGTGGTGGTGGAG-ATGGTGA-TGGTGGTGGTGGAGATTTGTAGTAGTA
* * * * * *
78362288 TGGTGGTGGAGGAGATGGAGAAGGAGGAGGTGGTGATTTGTAGTAGTA
1 TGGTGGTGGTGGAGATGGTGATGGTGGTGGTGGAGATTTGTAGTAGTA
* * *
78362336 TGGTGGTGGAGGAGAAT-G-AATTGGTGGTGGTGGAGATTTGTAATAGTA
1 TGGTGGTGGTGGAG-ATGGTGA-TGGTGGTGGTGGAGATTTGTAGTAGTA
78362384 TGGTGGTGGTGGAGA--GTGGACTGGTGGTGGTGGAGATTTGTAGTAGTA
1 TGGTGGTGGTGGAGATGGT-GA-TGGTGGTGGTGGAGATTTGTAGTAGTA
* *
78362432 TGGTGGTGGTGGAGA--GTGGACTGGTGGTGGTGGGGACTTGTAGTAGTA
1 TGGTGGTGGTGGAGATGGT-GA-TGGTGGTGGTGGAGATTTGTAGTAGTA
* * * * * * * *
78362480 AGGTGGAGGTGGAGATGGCGACGGTGGAGGAGGGGATTTGTAATAGTA
1 TGGTGGTGGTGGAGATGGTGATGGTGGTGGTGGAGATTTGTAGTAGTA
* *
78362528 TGGAGGTGGTGGTGATGGAGATGGAGATGGAGATGGAGGTGGTGGGGATTTGTAGTAGTA
1 T---GGTGGT-G-G-TGGAGAT-G-G-T---GATGGTGGTGGTGGAGATTTGTAGTAGTA
* * * * * * * * * * *
78362588 AGGAGGAGGAGGAGATGATGATGGTGGAGGAGGGGAGTTGTAATGGTA
1 TGGTGGTGGTGGAGATGGTGATGGTGGTGGTGGAGATTTGTAGTAGTA
* * * * *
78362636 -GGT--TGGTGCAG-GGGCCTTCACTGGAGGTGGTGGTGATTTGTAGTAGTA
1 TGGTGGTGGTGGAGATGG---TGA-TGGTGGTGGTGGAGATTTGTAGTAGTA
* * * * * *
78362684 TGGCGGTGGAGGAGATGGTGAAGGAGGTGGAGGTGATTTGTAGTAGTA
1 TGGTGGTGGTGGAGATGGTGATGGTGGTGGTGGAGATTTGTAGTAGTA
* * * * * * * *
78362732 TGGTGGAGGTGGTGAAGGAGAAGGTGGTGGTGGAGACTTGTAATAATA
1 TGGTGGTGGTGGAGATGGTGATGGTGGTGGTGGAGATTTGTAGTAGTA
* * * * * * * * *
78362780 TGGTGGAGGTGGTGAAGGAGAAGGTAGTGGTGGAGACTTGTAATAATA
1 TGGTGGTGGTGGAGATGGTGATGGTGGTGGTGGAGATTTGTAGTAGTA
* *
78362828 TGGTGGGGGTGGAGA--GTGGACTGGTGGAGGTGGAGATTTGTAGTAGTA
1 TGGTGGTGGTGGAGATGGT-GA-TGGTGGTGGTGGAGATTTGTAGTAGTA
*
78362876 TGGTGGAGGTGG
1 TGGTGGTGGTGG
78362888 TGGTGACTTG
Statistics
Matches: 703, Mismatches: 152, Indels: 66
0.76 0.17 0.07
Matches are distributed among these distances:
44 1 0.00
45 5 0.01
46 2 0.00
47 13 0.02
48 607 0.86
49 11 0.02
50 2 0.00
51 12 0.02
52 3 0.00
53 2 0.00
54 13 0.02
55 2 0.00
56 2 0.00
57 4 0.01
60 24 0.03
ACGTcount: A:0.21, C:0.03, G:0.49, T:0.27
Consensus pattern (48 bp):
TGGTGGTGGTGGAGATGGTGATGGTGGTGGTGGAGATTTGTAGTAGTA
Found at i:78362408 original size:21 final size:21
Alignment explanation
Indices: 78362384--78362464 Score: 92
Period size: 21 Copynumber: 3.6 Consensus size: 21
78362374 TGTAATAGTA
78362384 TGGTGGTGGTGGAGAGTGGAC
1 TGGTGGTGGTGGAGAGTGGAC
78362405 TGGTGGTGGTGGAGATTTGTAGTAGTA-
1 TGGTGGTGGTGGAGA---GT-G--G-AC
78362432 TGGTGGTGGTGGAGAGTGGAC
1 TGGTGGTGGTGGAGAGTGGAC
78362453 TGGTGGTGGTGG
1 TGGTGGTGGTGG
78362465 GGACTTGTAG
Statistics
Matches: 52, Mismatches: 0, Indels: 16
0.76 0.00 0.24
Matches are distributed among these distances:
20 1 0.02
21 28 0.54
23 1 0.02
24 4 0.08
25 1 0.02
27 16 0.31
28 1 0.02
ACGTcount: A:0.14, C:0.02, G:0.54, T:0.30
Consensus pattern (21 bp):
TGGTGGTGGTGGAGAGTGGAC
Found at i:78362484 original size:27 final size:25
Alignment explanation
Indices: 78362262--78362495 Score: 120
Period size: 27 Copynumber: 9.6 Consensus size: 25
78362252 GGAATAGACT
* *
78362262 GGTGGTGGTGGGGACTTGTAATAGTA
1 GGTGGTGGTGGAGA-TTGTAGTAGTA
* * * *
78362288 TGGTGGTGGAGGAGA-TGGAGAAGGA
1 -GGTGGTGGTGGAGATTGTAGTAGTA
* *
78362313 GGAGGTGGT-GA-TTTGTAGTAGTA
1 GGTGGTGGTGGAGATTGTAGTAGTA
* * *
78362336 TGGTGGTGGAGGAGAATG-A--A-TT
1 -GGTGGTGGTGGAGATTGTAGTAGTA
*
78362358 GGTGGTGGTGGAGATTTGTAATAGTA
1 GGTGGTGGTGGAGA-TTGTAGTAGTA
* *
78362384 TGGTGGTGGTGGAGA--GT-GGACT-
1 -GGTGGTGGTGGAGATTGTAGTAGTA
78362406 GGTGGTGGTGGAGATTTGTAGTAGTA
1 GGTGGTGGTGGAGA-TTGTAGTAGTA
* *
78362432 TGGTGGTGGTGGAGA--GT-GGACT-
1 -GGTGGTGGTGGAGATTGTAGTAGTA
*
78362454 GGTGGTGGTGGGGACTTGTAGTAGTAA
1 GGTGGTGGTGGAGA-TTGTAGTAGT-A
*
78362481 GGTGGAGGTGGAGAT
1 GGTGGTGGTGGAGAT
78362496 GGCGACGGTG
Statistics
Matches: 153, Mismatches: 32, Indels: 45
0.67 0.14 0.20
Matches are distributed among these distances:
21 40 0.26
22 3 0.02
23 16 0.10
24 22 0.14
25 16 0.10
26 4 0.03
27 52 0.34
ACGTcount: A:0.21, C:0.02, G:0.49, T:0.29
Consensus pattern (25 bp):
GGTGGTGGTGGAGATTGTAGTAGTA
Found at i:78362550 original size:6 final size:6
Alignment explanation
Indices: 78362541--78362565 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
78362531 AGGTGGTGGT
78362541 GATGGA GATGGA GATGGA GATGGA G
1 GATGGA GATGGA GATGGA GATGGA G
78362566 GTGGTGGGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.52, T:0.16
Consensus pattern (6 bp):
GATGGA
Found at i:78362784 original size:27 final size:27
Alignment explanation
Indices: 78362754--78362842 Score: 73
Period size: 27 Copynumber: 3.5 Consensus size: 27
78362744 TGAAGGAGAA
78362754 GGTGGTGGTGGAGACTTGTAATAATAT
1 GGTGGTGGTGGAGACTTGTAATAATAT
* ** * *
78362781 GGTGGAGGT-G-G---TG-AAGGAGAA
1 GGTGGTGGTGGAGACTTGTAATAATAT
*
78362802 GGTAGTGGTGGAGACTTGTAATAATAT
1 GGTGGTGGTGGAGACTTGTAATAATAT
*
78362829 GGTGGGGGTGGAGA
1 GGTGGTGGTGGAGA
78362843 GTGGACTGGT
Statistics
Matches: 43, Mismatches: 13, Indels: 12
0.63 0.19 0.18
Matches are distributed among these distances:
21 11 0.26
22 3 0.07
23 1 0.02
25 1 0.02
26 3 0.07
27 24 0.56
ACGTcount: A:0.26, C:0.02, G:0.46, T:0.26
Consensus pattern (27 bp):
GGTGGTGGTGGAGACTTGTAATAATAT
Found at i:78362923 original size:36 final size:36
Alignment explanation
Indices: 78362883--78363028 Score: 135
Period size: 36 Copynumber: 4.2 Consensus size: 36
78362873 GTATGGTGGA
* *
78362883 GGTGGTGGTGACTTGTAAACATAGGTAGGGCTTGGT
1 GGTGGTGGTGACTTATAAACATAAGTAGGGCTTGGT
*
78362919 GGTGGTGGTGACTTATAAACATAAGTGGGGCTTGGT
1 GGTGGTGGTGACTTATAAACATAAGTAGGGCTTGGT
* * * * *
78362955 GGTGGCGGGGACTTAT--A-AT-AGCATGG--TGGA
1 GGTGGTGGTGACTTATAAACATAAGTAGGGCTTGGT
* * *
78362985 GGAGGTGGTGACTTGTAAACATAAGTA-GGCGATGGT
1 GGTGGTGGTGACTTATAAACATAAGTAGGGC-TTGGT
78363021 GGTGGTGG
1 GGTGGTGG
78363029 AGAGGTATAA
Statistics
Matches: 87, Mismatches: 16, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
30 15 0.17
32 5 0.06
33 6 0.07
34 4 0.05
36 57 0.66
ACGTcount: A:0.22, C:0.08, G:0.42, T:0.27
Consensus pattern (36 bp):
GGTGGTGGTGACTTATAAACATAAGTAGGGCTTGGT
Found at i:78364206 original size:27 final size:27
Alignment explanation
Indices: 78364176--78364262 Score: 78
Period size: 27 Copynumber: 3.4 Consensus size: 27
78364166 ATGTGGAGGA
*
78364176 GGTGGCGGAGATTTATAGTAGTAAGGT
1 GGTGGTGGAGATTTATAGTAGTAAGGT
* *
78364203 GGTGGAGGAG----ATGGT-G-AAGGT
1 GGTGGTGGAGATTTATAGTAGTAAGGT
* * *
78364224 GGTGGTGGAGACTTGTAGTAGTAAGGA
1 GGTGGTGGAGATTTATAGTAGTAAGGT
78364251 GGTGGTGGAGAT
1 GGTGGTGGAGAT
78364263 GGTGATGGTG
Statistics
Matches: 47, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
21 14 0.30
22 1 0.02
23 4 0.09
25 3 0.06
26 1 0.02
27 24 0.51
ACGTcount: A:0.24, C:0.02, G:0.48, T:0.25
Consensus pattern (27 bp):
GGTGGTGGAGATTTATAGTAGTAAGGT
Found at i:78364294 original size:96 final size:96
Alignment explanation
Indices: 78364176--78364969 Score: 596
Period size: 96 Copynumber: 8.3 Consensus size: 96
78364166 ATGTGGAGGA
* * * * * * *
78364176 GGTGGCGGAGATTTATAGTAGTAAGGTGGTGGAGGAGATGGTGAAGGTGGTGGTGGAGACTTGTA
1 GGTGGGGGAGACTTGTAGTAGTATGGTGGTGGTGGAGATGGTGATGGAGGTGGTGGAGACTTGTA
* *
78364241 GTAGTAAGGAGGTGGTGGAGATGGTGATGGT
66 GTAGTAAGGAGGAGGTGGAGATGGAGATGGT
* * * *
78364272 GGTGGGGGAGACTTGTAATAGTATGGTGGTGGGGGAGACT--TCACTGGAGGTGGTGGCGACTTG
1 GGTGGGGGAGACTTGTAGTAGTATGGTGGTGGTGGAGA-TGGTGA-TGGAGGTGGTGGAGACTTG
* * * *
78364335 TAGTAGTAAGGTGGTGGTGGAGATGGTGAGGGT
64 TAGTAGTAAGGAGGAGGTGGAGATGGAGATGGT
* * * * *
78364368 GGTGGTGGAGATTTGTAGTAGTA-AGTAGGTGGTGGAGATGGTGATGGTGGTGGTGGAGACTTAT
1 GGTGGGGGAGACTTGTAGTAGTATGGT-GGTGGTGGAGATGGTGATGGAGGTGGTGGAGACTTGT
* * * * * *
78364432 AATAGTAAGGTGGGGGTGGTGAAGGAGAAGGT
65 AGTAGTAAGGAGGAGGTGGAGATGGAGATGGT
* * * * *
78364464 GGAGGGGGAGACTTATAGTAGTATGGTGGTGGGGGAGACT--TCACTGGAGGTGGTGGGGACTTG
1 GGTGGGGGAGACTTGTAGTAGTATGGTGGTGGTGGAGA-TGGTGA-TGGAGGTGGTGGAGACTTG
* * * * *
78364527 TAGTAGTAAGGTGGTGGTGGGGAAGGAGATGGA
64 TAGTAGTAAGGAGGAGGTGGAGATGGAGATGGT
* * * * * * * * **
78364560 GGTGGCGGG-GATTTGTAGTAGTAAGGAGGAGATGGTGATGGGGACGGTTGTGGTGGAGACTTGT
1 GGTGG-GGGAGACTTGTAGTAGTATGGTGGTGGTGGAGATGGTGATGGAGGTGGTGGAGACTTGT
* * * *
78364624 AGTAATATGGAGGAAGTGGAGATGGAGATGGA
65 AGTAGTAAGGAGGAGGTGGAGATGGAGATGGT
* * * * * * * *
78364656 GGAGGTGGG-GACTTGTAGTAGTATGGAGGAGGTGGGGAAGGAGATGGAGGTGGTGGGGATTTGT
1 GGTGG-GGGAGACTTGTAGTAGTATGGTGGTGGTGGAGATGGTGATGGAGGTGGTGGAGACTTGT
* * * * *
78364720 AGTAATAAGGAGGAGGTGGTGACAGG-GACGGA
65 AGTAGTAAGGAGGAGGTGGAGA-TGGAGATGGT
* * * * * * * *
78364752 GGTGGTGGAGACTTATAGTAATATGGAGGAGGTGGGGATGGGGACGGAGGTGGTGGAGACTTGTA
1 GGTGGGGGAGACTTGTAGTAGTATGGTGGTGGTGGAGATGGTGATGGAGGTGGTGGAGACTTGTA
* * * *
78364817 GTAGTACGGGGGAGGTGGTGATGGGGATGGT
66 GTAGTAAGGAGGAGGTGGAGATGGAGATGGT
* * * * * * * * * *
78364848 GGTGGTGGAGACTTGTAGTAGTATAGAGGAGGTGGTGACGGGGATGGTGGTGGAGGAGACTTATA
1 GGTGGGGGAGACTTGTAGTAGTATGGTGGTGGTGGAGATGGTGATGGAGGTGGTGGAGACTTGTA
* * * * *
78364913 ATAGTATGGAGGAGGAGGTGATGGAGACGGT
66 GTAGTAAGGAGGAGGTGGAGATGGAGATGGT
* * * *
78364944 GGTGGTGGAGATTTATAGTGGTATGG
1 GGTGGGGGAGACTTGTAGTAGTATGG
78364970 AGGGTTCAGT
Statistics
Matches: 568, Mismatches: 116, Indels: 28
0.80 0.16 0.04
Matches are distributed among these distances:
95 12 0.02
96 544 0.96
97 12 0.02
ACGTcount: A:0.23, C:0.04, G:0.49, T:0.24
Consensus pattern (96 bp):
GGTGGGGGAGACTTGTAGTAGTATGGTGGTGGTGGAGATGGTGATGGAGGTGGTGGAGACTTGTA
GTAGTAAGGAGGAGGTGGAGATGGAGATGGT
Found at i:78364323 original size:24 final size:27
Alignment explanation
Indices: 78364266--78364327 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
78364256 TGGAGATGGT
*
78364266 GATGGTGGTGGGGGAGACTTGTAATAG
1 GATGGTGGTGGGGGAGACTTGCAATAG
* *
78364293 TATGGTGGTGGGGGAGACTT-CACT-G
1 GATGGTGGTGGGGGAGACTTGCAATAG
78364318 GA-GGTGGTGG
1 GATGGTGGTGG
78364328 CGACTTGTAG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
24 8 0.26
25 2 0.06
26 2 0.06
27 19 0.61
ACGTcount: A:0.18, C:0.06, G:0.50, T:0.26
Consensus pattern (27 bp):
GATGGTGGTGGGGGAGACTTGCAATAG
Found at i:78364477 original size:144 final size:144
Alignment explanation
Indices: 78364176--78364972 Score: 697
Period size: 144 Copynumber: 5.5 Consensus size: 144
78364166 ATGTGGAGGA
* * * * * * * *
78364176 GGTGGCGGAGATTTATAGTAGTAAGGTGGTGGAGGAGATGGTGAAGGTGGTGGTGGAGACTTGTA
1 GGTGGTGGAGACTTATAGTAGTATGGAGGAGGTGGAGATGGTGACGGAGGTGGTGGAGACTTGTA
* * * * * *
78364241 GTAGTAAGGAGGTGGTGGAGATGGTGATGGTGGTGGGGGAGACTTGTAATAGTATGGTGGTGG-G
66 GTAGTAAGGAGGTGGTGGAGATGGAGATGGTGGTGGTGGAGACTTGTAGTAGTAAGGAGGAGGTG
**** *
78364305 G-GAGACTTCACTGGA
131 GTGA-AGGAGAC-GGT
* * * * * * * *
78364320 GGTGGTGGCGACTTGTAGTAGTAAGGTGGTGGTGGAGATGGTGAGGGTGGTGGTGGAGATTTGTA
1 GGTGGTGGAGACTTATAGTAGTATGGAGGAGGTGGAGATGGTGACGGAGGTGGTGGAGACTTGTA
* * * * * *
78364385 GTAGTAAGTAGGTGGTGGAGATGGTGATGGTGGTGGTGGAGACTTATAATAGTAAGGTGGGGGTG
66 GTAGTAAGGAGGTGGTGGAGATGGAGATGGTGGTGGTGGAGACTTGTAGTAGTAAGGAGGAGGTG
*
78364450 GTGAAGGAGAAGGT
131 GTGAAGGAGACGGT
* * * * * * *
78364464 GGAGGGGGAGACTTATAGTAGTATGGTGGTGGGGGAGACT--TCACTGGAGGTGGTGGGGACTTG
1 GGTGGTGGAGACTTATAGTAGTATGGAGGAGGTGGAGA-TGGTGAC-GGAGGTGGTGGAGACTTG
* * * * * * * *
78364527 TAGTAGTAAGGTGGTGGTGGGGAAGGAGATGGAGGTGGCGGGGATTTGTAGTAGTAAGGAGGAGA
64 TAGTAGTAAGGAGGTGGTGGAGATGGAGATGGTGGTGGTGGAGACTTGTAGTAGTAAGGAGGAGG
* *
78364592 TGGTGATGGGGACGGT
129 TGGTGAAGGAGACGGT
* * * * * * * *
78364608 TGTGGTGGAGACTTGTAGTAATATGGAGGAAGTGGAGATGGAGATGGAGGAGGTGGGGACTTGTA
1 GGTGGTGGAGACTTATAGTAGTATGGAGGAGGTGGAGATGGTGACGGAGGTGGTGGAGACTTGTA
* * * * * * * *
78364673 GTAGTATGGAGGAGGTGGGGAAGGAGATGGAGGTGGTGGGGATTTGTAGTAATAAGGAGGAGGTG
66 GTAGTAAGGAGGTGGTGGAGATGGAGATGGTGGTGGTGGAGACTTGTAGTAGTAAGGAGGAGGTG
*
78364738 GTGACAGG-GACGGA
131 GTGA-AGGAGACGGT
* * *
78364752 GGTGGTGGAGACTTATAGTAATATGGAGGAGGTGGGGATGGGGACGGAGGTGGTGGAGACTTGTA
1 GGTGGTGGAGACTTATAGTAGTATGGAGGAGGTGGAGATGGTGACGGAGGTGGTGGAGACTTGTA
* * * * *
78364817 GTAGTACGGGGGAGGTGGTGATGGGGATGGTGGTGGTGGAGACTTGTAGTAGTATA-GAGGAGGT
66 GTAGTAAGGAGGTGGTGGAGATGGAGATGGTGGTGGTGGAGACTTGTAGTAGTA-AGGAGGAGGT
* * *
78364881 GGTGACGGGGATGGT
130 GGTGAAGGAGACGGT
* * * * * * * *
78364896 GGTGGAGGAGACTTATAATAGTATGGAGGAGGAGGTGATGGAGACGGTGGTGGTGGAGATTTATA
1 GGTGGTGGAGACTTATAGTAGTATGGAGGAGGTGGAGATGGTGACGGAGGTGGTGGAGACTTGTA
* *
78364961 GTGGTATGGAGG
66 GTAGTAAGGAGG
78364973 GTTCAGTACT
Statistics
Matches: 545, Mismatches: 99, Indels: 18
0.82 0.15 0.03
Matches are distributed among these distances:
143 5 0.01
144 529 0.97
145 9 0.02
146 2 0.00
ACGTcount: A:0.23, C:0.04, G:0.49, T:0.24
Consensus pattern (144 bp):
GGTGGTGGAGACTTATAGTAGTATGGAGGAGGTGGAGATGGTGACGGAGGTGGTGGAGACTTGTA
GTAGTAAGGAGGTGGTGGAGATGGAGATGGTGGTGGTGGAGACTTGTAGTAGTAAGGAGGAGGTG
GTGAAGGAGACGGT
Found at i:78364691 original size:27 final size:26
Alignment explanation
Indices: 78364611--78364738 Score: 87
Period size: 27 Copynumber: 5.2 Consensus size: 26
78364601 GGACGGTTGT
* *
78364611 GGTGGAGACTTGTAGTAATATGGAGGA
1 GGTGGGGA-TTGTAGTAGTATGGAGGA
* *
78364638 AGTGGAGA-TG--G-AG-ATGGAGGA
1 GGTGGGGATTGTAGTAGTATGGAGGA
78364659 GGTGGGGACTTGTAGTAGTATGGAGGA
1 GGTGGGGA-TTGTAGTAGTATGGAGGA
* *
78364686 GGTGGGGA----AGGAG-ATGGAGGT
1 GGTGGGGATTGTAGTAGTATGGAGGA
* *
78364707 GGTGGGGATTTGTAGTAATAAGGAGGA
1 GGTGGGGA-TTGTAGTAGTATGGAGGA
78364734 GGTGG
1 GGTGG
78364739 TGACAGGGAC
Statistics
Matches: 79, Mismatches: 10, Indels: 24
0.70 0.09 0.21
Matches are distributed among these distances:
21 29 0.37
22 5 0.06
23 3 0.04
25 3 0.04
26 5 0.06
27 34 0.43
ACGTcount: A:0.27, C:0.02, G:0.50, T:0.22
Consensus pattern (26 bp):
GGTGGGGATTGTAGTAGTATGGAGGA
Found at i:78364703 original size:21 final size:21
Alignment explanation
Indices: 78364630--78364714 Score: 71
Period size: 21 Copynumber: 3.8 Consensus size: 21
78364620 TTGTAGTAAT
* * *
78364630 ATGGAGGAAGTGGAGATGGAG
1 ATGGAGGAGGTGGGGAAGGAG
*
78364651 ATGGAGGAGGTGGGGACTTGTAGTAG
1 ATGGAGGAGGTGGGGA-----AGGAG
78364677 TATGGAGGAGGTGGGGAAGGAG
1 -ATGGAGGAGGTGGGGAAGGAG
*
78364699 ATGGAGGTGGTGGGGA
1 ATGGAGGAGGTGGGGA
78364715 TTTGTAGTAA
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
21 29 0.56
22 4 0.08
26 3 0.06
27 16 0.31
ACGTcount: A:0.26, C:0.01, G:0.55, T:0.18
Consensus pattern (21 bp):
ATGGAGGAGGTGGGGAAGGAG
Found at i:78364825 original size:27 final size:27
Alignment explanation
Indices: 78364747--78364834 Score: 62
Period size: 27 Copynumber: 3.5 Consensus size: 27
78364737 GGTGACAGGG
* * *
78364747 ACGGAGGTGGTGGAGACTTATAGTAAT
1 ACGGAGGAGGTGGAGACTTGTAGTAGT
* * *
78364774 ATGGAGGAGGTGGGGA--TG--G--GG
1 ACGGAGGAGGTGGAGACTTGTAGTAGT
*
78364795 ACGGAGGTGGTGGAGACTTGTAGTAGT
1 ACGGAGGAGGTGGAGACTTGTAGTAGT
*
78364822 ACGGGGGAGGTGG
1 ACGGAGGAGGTGG
78364835 TGATGGGGAT
Statistics
Matches: 43, Mismatches: 12, Indels: 12
0.64 0.18 0.18
Matches are distributed among these distances:
21 13 0.30
23 3 0.07
25 2 0.05
27 25 0.58
ACGTcount: A:0.23, C:0.06, G:0.51, T:0.20
Consensus pattern (27 bp):
ACGGAGGAGGTGGAGACTTGTAGTAGT
Found at i:78364879 original size:48 final size:48
Alignment explanation
Indices: 78364209--78364972 Score: 490
Period size: 48 Copynumber: 15.9 Consensus size: 48
78364199 AGGTGGTGGA
* *
78364209 GGAGATGGTGAAGGTGGTGGTGGAGACTTGTAGTAGTA-AGGAGGTGGT
1 GGAGATGGTGATGGTGGTGGTGGAGACTTGTAGTAGTATA-GAGGAGGT
* * * * * *
78364257 GGAGATGGTGATGGTGGTGGGGGAGACTTGTAATAGTATGGTGGTGGG
1 GGAGATGGTGATGGTGGTGGTGGAGACTTGTAGTAGTATAGAGGAGGT
* * * * *
78364305 GGAGACT--TCACTGGAGGTGGTGGCGACTTGTAGTAGTA-AGGTGGTGGT
1 GGAGA-TGGTGA-TGGTGGTGGTGGAGACTTGTAGTAGTATA-GAGGAGGT
* * *
78364353 GGAGATGGTGAGGGTGGTGGTGGAGATTTGTAGTAGTA-AGTAGGTGGT
1 GGAGATGGTGATGGTGGTGGTGGAGACTTGTAGTAGTATAG-AGGAGGT
* * * *
78364401 GGAGATGGTGATGGTGGTGGTGGAGACTTATAATAGTA-AGGTGGGGGT
1 GGAGATGGTGATGGTGGTGGTGGAGACTTGTAGTAGTATA-GAGGAGGT
* * * * * * * * * * *
78364449 GGTGAAGGAGAAGGTGGAGGGGGAGACTTATAGTAGTATGGTGGTGGG
1 GGAGATGGTGATGGTGGTGGTGGAGACTTGTAGTAGTATAGAGGAGGT
* * * * *
78364497 GGAGACT--TCACTGGAGGTGGTGGGGACTTGTAGTAGTA-AGGTGGTGGT
1 GGAGA-TGGTGA-TGGTGGTGGTGGAGACTTGTAGTAGTATA-GAGGAGGT
* * * * * * * *
78364545 GGGGAAGGAGATGGAGGTGGCGGGGATTTGTAGTAGTA-AGGAGGAGAT
1 GGAGATGGTGATGGTGGTGGTGGAGACTTGTAGTAGTATA-GAGGAGGT
* * * * * * *
78364593 GGTGATGGGGACGGTTGTGGTGGAGACTTGTAGTAATATGGAGGAAGT
1 GGAGATGGTGATGGTGGTGGTGGAGACTTGTAGTAGTATAGAGGAGGT
* * * * *
78364641 GGAGATGGAGATGGAGGAGGTGGGGACTTGTAGTAGTATGGAGGAGGT
1 GGAGATGGTGATGGTGGTGGTGGAGACTTGTAGTAGTATAGAGGAGGT
* * * * * * *
78364689 GGGGAAGGAGATGGAGGTGGTGGGGATTTGTAGTAATA-AGGAGGAGGT
1 GGAGATGGTGATGGTGGTGGTGGAGACTTGTAGTAGTATA-GAGGAGGT
* * * * * * *
78364737 GGTGACAGG-GACGGAGGTGGTGGAGACTTATAGTAATATGGAGGAGGT
1 GGAGA-TGGTGATGGTGGTGGTGGAGACTTGTAGTAGTATAGAGGAGGT
* * * * ** *
78364785 GGGGATGGGGACGGAGGTGGTGGAGACTTGTAGTAGTACGGGGGAGGT
1 GGAGATGGTGATGGTGGTGGTGGAGACTTGTAGTAGTATAGAGGAGGT
* *
78364833 GGTGATGGGGATGGTGGTGGTGGAGACTTGTAGTAGTATAGAGGAGGT
1 GGAGATGGTGATGGTGGTGGTGGAGACTTGTAGTAGTATAGAGGAGGT
* * * * * * * *
78364881 GGTGACGGGGATGGTGGTGGAGGAGACTTATAATAGTATGGAGGAGGA
1 GGAGATGGTGATGGTGGTGGTGGAGACTTGTAGTAGTATAGAGGAGGT
* * * * * * *
78364929 GGTGATGGAGACGGTGGTGGTGGAGATTTATAGTGGTATGGAGG
1 GGAGATGGTGATGGTGGTGGTGGAGACTTGTAGTAGTATAGAGG
78364973 GTTCAGTACT
Statistics
Matches: 582, Mismatches: 115, Indels: 38
0.79 0.16 0.05
Matches are distributed among these distances:
47 7 0.01
48 567 0.97
49 8 0.01
ACGTcount: A:0.23, C:0.04, G:0.50, T:0.24
Consensus pattern (48 bp):
GGAGATGGTGATGGTGGTGGTGGAGACTTGTAGTAGTATAGAGGAGGT
Found at i:78365051 original size:48 final size:48
Alignment explanation
Indices: 78364995--78365130 Score: 173
Period size: 48 Copynumber: 2.8 Consensus size: 48
78364985 ATGTTTCGGT
* *
78364995 GGAGGTGGTGGTGACTTATACACATAAGGTGGTGGTGGAGAAGGCGAA
1 GGAGGTGGTGGTGACTTATACACATAAGGTGGTGGAGGAGAAGGAGAA
* * * * * *
78365043 GGAGGTGGTGGAGATTTATACACGTATGGTGGTGGGGGAGATGGAGAA
1 GGAGGTGGTGGTGACTTATACACATAAGGTGGTGGAGGAGAAGGAGAA
* * *
78365091 GGTGGTGGAGGTGACTTATACTCATAAGGTGGTGGAGGAG
1 GGAGGTGGTGGTGACTTATACACATAAGGTGGTGGAGGAG
78365131 GTGAAGAGTA
Statistics
Matches: 73, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 73 1.00
ACGTcount: A:0.25, C:0.07, G:0.46, T:0.23
Consensus pattern (48 bp):
GGAGGTGGTGGTGACTTATACACATAAGGTGGTGGAGGAGAAGGAGAA
Found at i:78366993 original size:14 final size:15
Alignment explanation
Indices: 78366970--78366999 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
78366960 ATAATTTTTA
78366970 TATTTAAATTTAAAT
1 TATTTAAATTTAAAT
78366985 TATTT-AATTTAAAT
1 TATTTAAATTTAAAT
78366999 T
1 T
78367000 GGGGTTGCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TATTTAAATTTAAAT
Found at i:78366994 original size:20 final size:21
Alignment explanation
Indices: 78366956--78366999 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 21
78366946 TTGTATTATT
78366956 ATTTATAATTTTTATATTTAA
1 ATTTATAATTTTTATATTTAA
78366977 ATTTA-AATTATTTA-ATTTAA
1 ATTTATAATT-TTTATATTTAA
78366997 ATT
1 ATT
78367000 GGGGTTGCAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
ATTTATAATTTTTATATTTAA
Found at i:78369298 original size:21 final size:22
Alignment explanation
Indices: 78369256--78369298 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
78369246 TTTTCCATCC
** *
78369256 TCTTCTGCTTCTCTCTCTATTT
1 TCTTCTGCTTCTCGATCCATTT
78369278 TCTTCT-CTTCTCGATCCATTT
1 TCTTCTGCTTCTCGATCCATTT
78369299 CTTTGAACAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.07, C:0.33, G:0.05, T:0.56
Consensus pattern (22 bp):
TCTTCTGCTTCTCGATCCATTT
Found at i:78369987 original size:39 final size:39
Alignment explanation
Indices: 78369933--78370011 Score: 108
Period size: 39 Copynumber: 2.0 Consensus size: 39
78369923 GTGTTAATAA
* *
78369933 ATGGAAAATATAGAAAAACTAAA-TTAAAAGAA-ATAGAAG
1 ATGGAAAATAAAGAAAAA--AAAGTTAAAAGAACATAAAAG
78369972 ATGGAAAATAAAGAAAAAAAAGTTAAAAGAACATAAAAG
1 ATGGAAAATAAAGAAAAAAAAGTTAAAAGAACATAAAAG
78370011 A
1 A
78370012 AAAGAATTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
37 3 0.08
38 9 0.25
39 24 0.67
ACGTcount: A:0.67, C:0.03, G:0.15, T:0.15
Consensus pattern (39 bp):
ATGGAAAATAAAGAAAAAAAAGTTAAAAGAACATAAAAG
Found at i:78371337 original size:25 final size:26
Alignment explanation
Indices: 78371292--78371340 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
78371282 CTTAATAATA
*
78371292 ACTTAAAATCTATATATTTTTATTAC
1 ACTTAAAATCTATATAATTTTATTAC
78371318 ACTTAAATATC-AT-TAATTTTATT
1 ACTTAAA-ATCTATATAATTTTATT
78371341 TTGTTACCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 9 0.43
26 9 0.43
27 3 0.14
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.51
Consensus pattern (26 bp):
ACTTAAAATCTATATAATTTTATTAC
Found at i:78373587 original size:17 final size:19
Alignment explanation
Indices: 78373557--78373593 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
78373547 TTATAAATTT
78373557 CAAGTCAAAATAT-ACCAA
1 CAAGTCAAAATATAACCAA
*
78373575 CAAG-CAAACTATAACCAA
1 CAAGTCAAAATATAACCAA
78373593 C
1 C
78373594 TCAGTTGCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.54, C:0.27, G:0.05, T:0.14
Consensus pattern (19 bp):
CAAGTCAAAATATAACCAA
Found at i:78377160 original size:20 final size:20
Alignment explanation
Indices: 78377135--78377173 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
78377125 GAATATCTAT
*
78377135 CTTTATCAATTATATTAAAA
1 CTTTATCAACTATATTAAAA
*
78377155 CTTTATTAACTATATTAAA
1 CTTTATCAACTATATTAAA
78377174 TTGAGTGGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (20 bp):
CTTTATCAACTATATTAAAA
Found at i:78391048 original size:16 final size:17
Alignment explanation
Indices: 78391016--78391049 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
78391006 AATATTAATA
*
78391016 TTTAGAGTTTTATAATT
1 TTTAGAGTTTTAAAATT
78391033 TTTAGAG-TTTAAAATT
1 TTTAGAGTTTTAAAATT
78391049 T
1 T
78391050 AAGATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (17 bp):
TTTAGAGTTTTAAAATT
Found at i:78395023 original size:43 final size:43
Alignment explanation
Indices: 78394975--78395183 Score: 310
Period size: 43 Copynumber: 4.9 Consensus size: 43
78394965 TTATGAGGCA
* * *
78394975 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTACCCAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTAACCAC
* * *
78395018 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCCTTACCCGC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTAACCAC
* *
78395061 AAACGCTGCTAAAGAACATGATCTTTAGCGGCGCTTTAAACAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTAACCAC
* *
78395104 AAATGCCGCTAAAGAACATGATCTTTAGCGACGCTTTAACCAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTAACCAC
* *
78395147 AAACGCCGCTAAAAAACATGATCTTTAGCGACGCTTT
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTT
78395184 TGATAAAAGC
Statistics
Matches: 151, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 151 1.00
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTAACCAC
Found at i:78399582 original size:16 final size:16
Alignment explanation
Indices: 78399549--78399588 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
78399539 TTTCGGGTAT
78399549 GGGAA-AAA-TTGAAG
1 GGGAATAAATTTGAAG
*
78399563 GGGAATAAATTTGGAG
1 GGGAATAAATTTGAAG
78399579 GGGAATAAAT
1 GGGAATAAAT
78399589 ATTTCAACCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 5 0.22
15 3 0.13
16 15 0.65
ACGTcount: A:0.45, C:0.00, G:0.35, T:0.20
Consensus pattern (16 bp):
GGGAATAAATTTGAAG
Found at i:78399966 original size:47 final size:48
Alignment explanation
Indices: 78399908--78400006 Score: 182
Period size: 47 Copynumber: 2.1 Consensus size: 48
78399898 CATAGTTTTG
*
78399908 TTTAAGTAATATTTATAAAAATTAGATAAAATTATAAATTTTAGT-TT
1 TTTAAGTAATATTTATAAAAATTAGATAAAATTAAAAATTTTAGTGTT
78399955 TTTAAGTAATATTTATAAAAATTAGATAAAATTAAAAATTTTAGTGTT
1 TTTAAGTAATATTTATAAAAATTAGATAAAATTAAAAATTTTAGTGTT
78400003 TTTA
1 TTTA
78400007 TTTCATTTTT
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
47 44 0.88
48 6 0.12
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (48 bp):
TTTAAGTAATATTTATAAAAATTAGATAAAATTAAAAATTTTAGTGTT
Found at i:78400020 original size:25 final size:26
Alignment explanation
Indices: 78399992--78400044 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 26
78399982 AAAATTAAAA
* *
78399992 ATTTTAGTGTTTTTATTTCATTT-TT
1 ATTTTAGTATTTTAATTTCATTTCTT
* *
78400017 ATTTTTGTATTTTAATTTTATTTCTT
1 ATTTTAGTATTTTAATTTCATTTCTT
78400043 AT
1 AT
78400045 AATTTGGTCC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.19, C:0.04, G:0.06, T:0.72
Consensus pattern (26 bp):
ATTTTAGTATTTTAATTTCATTTCTT
Found at i:78400027 original size:19 final size:18
Alignment explanation
Indices: 78399991--78400044 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
78399981 TAAAATTAAA
78399991 AATTTTAGTGTTTTTATTTC
1 AATTTTA-T-TTTTTATTTC
* *
78400011 ATTTTTATTTTTGTATTTT
1 AATTTTATTTTT-TATTTC
*
78400030 AATTTTATTTCTTAT
1 AATTTTATTTTTTAT
78400045 AATTTGGTCC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 7 0.24
19 16 0.55
20 6 0.21
ACGTcount: A:0.20, C:0.04, G:0.06, T:0.70
Consensus pattern (18 bp):
AATTTTATTTTTTATTTC
Found at i:78400396 original size:7 final size:7
Alignment explanation
Indices: 78400362--78400416 Score: 56
Period size: 7 Copynumber: 7.7 Consensus size: 7
78400352 ATCCTTAAGT
78400362 CCTAACC
1 CCTAACC
* *
78400369 CTTAAATC
1 CCT-AACC
*
78400377 CCTAACT
1 CCTAACC
*
78400384 CTTAACC
1 CCTAACC
78400391 CCTAACC
1 CCTAACC
78400398 CCTAACC
1 CCTAACC
*
78400405 ACTAACC
1 CCTAACC
78400412 CCTAA
1 CCTAA
78400417 ACCTTAAATC
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
7 32 0.86
8 5 0.14
ACGTcount: A:0.33, C:0.45, G:0.00, T:0.22
Consensus pattern (7 bp):
CCTAACC
Found at i:78400430 original size:21 final size:21
Alignment explanation
Indices: 78400361--78400441 Score: 65
Period size: 21 Copynumber: 3.8 Consensus size: 21
78400351 AATCCTTAAG
* *
78400361 TCCTAACCCTTAAATCCCTAAC
1 TCCTAACCCCTAAA-CCCTAAA
* *
78400383 TCTTAACCCCTAACCCCT-AA
1 TCCTAACCCCTAAACCCTAAA
* *
78400403 CCACTAACCCCTAAACCTTAAA
1 TC-CTAACCCCTAAACCCTAAA
**
78400425 TCCTAACCTTTAAACCC
1 TCCTAACCCCTAAACCC
78400442 ATAATCCATA
Statistics
Matches: 45, Mismatches: 12, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
20 2 0.04
21 29 0.64
22 14 0.31
ACGTcount: A:0.33, C:0.42, G:0.00, T:0.25
Consensus pattern (21 bp):
TCCTAACCCCTAAACCCTAAA
Found at i:78400731 original size:26 final size:26
Alignment explanation
Indices: 78400695--78400748 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
78400685 GCCCTAAATC
* *
78400695 CCTAACTCTTAACATCTAACCCCTAA
1 CCTAACCCTTAACACCTAACCCCTAA
* *
78400721 CCTAACCCTTAACCCCTAACCCTTAA
1 CCTAACCCTTAACACCTAACCCCTAA
78400747 CC
1 CC
78400749 CATAAACCTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.31, C:0.44, G:0.00, T:0.24
Consensus pattern (26 bp):
CCTAACCCTTAACACCTAACCCCTAA
Found at i:78400749 original size:14 final size:14
Alignment explanation
Indices: 78400694--78400760 Score: 66
Period size: 14 Copynumber: 4.9 Consensus size: 14
78400684 AGCCCTAAAT
*
78400694 CCCTAACTCTTAAC
1 CCCTAACCCTTAAC
** *
78400708 ATCTAACCCCTAA-
1 CCCTAACCCTTAAC
78400721 -CCTAACCCTTAAC
1 CCCTAACCCTTAAC
78400734 CCCTAACCCTTAAC
1 CCCTAACCCTTAAC
* *
78400748 CCATAAACCTTAA
1 CCCTAACCCTTAA
78400761 ATCACATTAA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
12 10 0.23
14 33 0.77
ACGTcount: A:0.34, C:0.42, G:0.00, T:0.24
Consensus pattern (14 bp):
CCCTAACCCTTAAC
Found at i:78400777 original size:7 final size:7
Alignment explanation
Indices: 78400711--78400760 Score: 50
Period size: 7 Copynumber: 7.4 Consensus size: 7
78400701 TCTTAACATC
*
78400711 TAACCCC
1 TAACCCT
78400718 TAA-CC-
1 TAACCCT
78400723 TAACCCT
1 TAACCCT
*
78400730 TAACCCC
1 TAACCCT
78400737 TAACCCT
1 TAACCCT
*
78400744 TAACCCA
1 TAACCCT
*
78400751 TAAACCT
1 TAACCCT
78400758 TAA
1 TAA
78400761 ATCACATTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
5 3 0.08
6 4 0.11
7 29 0.81
ACGTcount: A:0.36, C:0.42, G:0.00, T:0.22
Consensus pattern (7 bp):
TAACCCT
Found at i:78400802 original size:14 final size:15
Alignment explanation
Indices: 78400783--78400815 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
78400773 CTTAAATCAG
78400783 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
78400797 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
78400812 AATC
1 AATC
78400816 TATAAAACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:78401952 original size:283 final size:279
Alignment explanation
Indices: 78401381--78402028 Score: 1066
Period size: 291 Copynumber: 2.3 Consensus size: 279
78401371 ATTTGGGAAA
78401381 TTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTA
1 TTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTA
*
78401446 GCGGCGCTTCTTATAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTAT
66 GCGGCGCTTCTTACAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTAT
78401511 TCTAAATTTTTTTTATAAATTGATTTATTTTTTGCGGCGTTTATATAGGAAACGCCGCTATTGCT
131 TCTAAATTTTTTTTATAAATTGATTTATTTTTTGCGGCGTTTATATAGGAAACGCCGCTATTGCT
78401576 TACCTTTAGCGGCGCTTCTTATAAAGCGCCGCAAAATTTTTTCATTTTGAAAAAACGACGCCGTT
196 TACCTTTAGCGGCGCTTCTTATAAAGCGCCGCAAAATTTTTTCATTTTGAAAAAACGACGCCGTT
78401641 TTGCTATTCTAACAATTTTTTAT
261 TTGCTATTCTAACAA----TTAT
*
78401664 TTTTTTATAAGTTGATTTATTTTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTA
1 TTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTA
*
78401729 GCGGCGCTTCTTACAAAGCGCCGCAAAATTTTTTTATTTTGAACAAAACGACGCCGTTTTGCTAT
66 GCGGCGCTTCTTACAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTAT
78401794 TCTAAAATTTTTTTATTTTTTTATAAATTGATTTATTTTTTGCGGCGTTT-TATAGGAAACGCCG
131 TCT-AAA------T-TTTTTTTATAAATTGATTTATTTTTTGCGGCGTTTATATAGGAAACGCCG
78401858 CTATTGCTTACCTTTAGCGGCGCTTCTTATAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAAC
188 CTATTGCTTACCTTTAGCGGCGCTTCTTATAAAGCGCCGCAAAATTTTTTCATTTTGAA-AAAAC
*
78401923 GACGCCGTTTTGCTATTCTAA-ATTTTTTTTAT
252 GACGCCGTTTTGCTATTCTAACA-----ATTAT
*
78401955 TTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGGAAACGCCGCTATTGCTTACCTTTA
1 TTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTA
*
78402020 GCGACGCTT
66 GCGGCGCTT
78402029 TACGAAAAAC
Statistics
Matches: 344, Mismatches: 7, Indels: 20
0.93 0.02 0.05
Matches are distributed among these distances:
283 130 0.38
284 3 0.01
290 75 0.22
291 136 0.40
ACGTcount: A:0.24, C:0.17, G:0.15, T:0.43
Consensus pattern (279 bp):
TTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTA
GCGGCGCTTCTTACAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTAT
TCTAAATTTTTTTTATAAATTGATTTATTTTTTGCGGCGTTTATATAGGAAACGCCGCTATTGCT
TACCTTTAGCGGCGCTTCTTATAAAGCGCCGCAAAATTTTTTCATTTTGAAAAAACGACGCCGTT
TTGCTATTCTAACAATTAT
Found at i:78402068 original size:145 final size:145
Alignment explanation
Indices: 78401381--78402028 Score: 1134
Period size: 145 Copynumber: 4.5 Consensus size: 145
78401371 ATTTGGGAAA
*
78401381 TTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTA
1 TTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGGAAACGCCGCTATTGCTTACCTTTA
78401446 GCGGCGCTTCTTATAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTAT
66 GCGGCGCTTCTTATAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTAT
78401511 TCTAAA------T-T
131 TCTAAATTTTTTTAT
*
78401519 TTTTTTATAAATTGATTTATTTTTTGCGGCGTTTATATAGGAAACGCCGCTATTGCTTACCTTTA
1 TTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGGAAACGCCGCTATTGCTTACCTTTA
78401584 GCGGCGCTTCTTATAAAGCGCCGCAAAATTTTTTCATTTTGAA-AAAACGACGCCGTTTTGCTAT
66 GCGGCGCTTCTTATAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTAT
*
78401648 TCTAACAATTTTTTAT
131 TCTAA-ATTTTTTTAT
* *
78401664 TTTTTTATAAGTTGATTTATTTTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTA
1 TTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGGAAACGCCGCTATTGCTTACCTTTA
* *
78401729 GCGGCGCTTCTTACAAAGCGCCGCAAAATTTTTTTATTTTGAACAAAACGACGCCGTTTTGCTAT
66 GCGGCGCTTCTTATAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTAT
78401794 TCTAAAATTTTTTTAT
131 TCT-AAATTTTTTTAT
78401810 TTTTTTATAAATTGATTTATTTTTTGCGGCG-TTTTATAGGAAACGCCGCTATTGCTTACCTTTA
1 TTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGGAAACGCCGCTATTGCTTACCTTTA
78401874 GCGGCGCTTCTTATAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTAT
66 GCGGCGCTTCTTATAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTAT
78401939 TCTAAATTTTTTTTAT
131 TCTAAA-TTTTTTTAT
78401955 TTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGGAAACGCCGCTATTGCTTACCTTTA
1 TTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGGAAACGCCGCTATTGCTTACCTTTA
*
78402020 GCGACGCTT
66 GCGGCGCTT
78402029 TACGAAAAAC
Statistics
Matches: 485, Mismatches: 13, Indels: 16
0.94 0.03 0.03
Matches are distributed among these distances:
137 26 0.05
138 107 0.22
144 4 0.01
145 242 0.50
146 104 0.21
147 2 0.00
ACGTcount: A:0.24, C:0.17, G:0.15, T:0.43
Consensus pattern (145 bp):
TTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGGAAACGCCGCTATTGCTTACCTTTA
GCGGCGCTTCTTATAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTAT
TCTAAATTTTTTTAT
Found at i:78402143 original size:73 final size:72
Alignment explanation
Indices: 78402024--78402192 Score: 203
Period size: 73 Copynumber: 2.3 Consensus size: 72
78402014 CCTTTAGCGA
* * ** * *
78402024 CGCTTTACGAAAAACGCCGCTAAATCTCTGAAAGTTCAGAAAACGGCATCGTTGGGCTTGGGTTT
1 CGCTTTACCAAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAACGGCATCGTTGGGCTTAGG-TT
*
78402089 TTTTGCGG
65 ATTTGCGG
* * * *
78402097 CGCTTTTCCAAAAGCGCCGCTAAATCCCCAAAAGCTCAGAAAACGGCGTTGTTGGGCTTAGGTTA
1 CGCTTTACCAAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAACGGCATCGTTGGGCTTAGGTTA
78402162 TTTGCGG
66 TTTGCGG
* *
78402169 CGCTTTGCTCAAAAATGCCGCTAA
1 CGCTTTAC-CAAAAACGCCGCTAA
78402193 TACTTTTTTT
Statistics
Matches: 81, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
72 16 0.20
73 65 0.80
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (72 bp):
CGCTTTACCAAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAACGGCATCGTTGGGCTTAGGTTA
TTTGCGG
Found at i:78403763 original size:93 final size:91
Alignment explanation
Indices: 78403604--78403824 Score: 307
Period size: 93 Copynumber: 2.4 Consensus size: 91
78403594 TTCGACATGA
* * * * *
78403604 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCATTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTGTCACGTTGCCATGGTATCATTCAAC
** * *
78403669 CATGGTCTTATTCATTTCCCCGTCACGT
65 CATGGTCTTACACATTT-CACATCACGT
*
78403697 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCACGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TGTCACGTTGCCATGGTATCATTCAAC
* *
78403762 CATGGTCTTACACATTTCATATCAGGT
65 CATGGTCTTACACATTTCACATCACGT
78403789 TGCCATGGTATCTTTCAACCATGGTCTTACACATTT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTT
78403825 TCTATCAGAG
Statistics
Matches: 115, Mismatches: 12, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
92 46 0.40
93 69 0.60
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.39
Consensus pattern (91 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTGTCACGTTGCCATGGTATCATTCAACC
ATGGTCTTACACATTTCACATCACGT
Done.