Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 ID=Chr01-JGI_221_v2.0
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: 55868233
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 983842 characters in sequence are not A, C, G, or T
File 156 of 187
Found at i:46202382 original size:22 final size:22
Alignment explanation
Indices: 46202357--46202399 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
46202347 TCAAAGGTTG
*
46202357 ATTTTGATTTGCAACCAATTTT
1 ATTTTGATTTGAAACCAATTTT
46202379 ATTTTGATTTGAAACCAATTT
1 ATTTTGATTTGAAACCAATTT
46202400 ACCCTGTGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.12, G:0.09, T:0.49
Consensus pattern (22 bp):
ATTTTGATTTGAAACCAATTTT
Found at i:46203538 original size:89 final size:89
Alignment explanation
Indices: 46203374--46203634 Score: 330
Period size: 89 Copynumber: 2.9 Consensus size: 89
46203364 TTCTAGAGAA
* * * ** * *
46203374 ATTACTATTC-AAAATTTTTGTATTATTTTTGTATCTGTAAATCAAATTTATTCTGTATTATTTG
1 ATTAATATTCTAAAATGTTTGTATT-TTCTTGTATCTGTAAATTTAATTTAGTCCGTATTATTTG
*
46203438 TTGTTCAAATTTTATATTTTCATGT
65 TTGTTCGAATTTTATATTTTCATGT
* * *
46203463 ATTCATTTTTTAAAATGTTTGTATTTTCTTGTATCTGTAAATTTAATTTAGTCCGTATTATTTGT
1 ATTAATATTCTAAAATGTTTGTATTTTCTTGTATCTGTAAATTTAATTTAGTCCGTATTATTTGT
46203528 TGTTCGAATTTTATATTTTCATGT
66 TGTTCGAATTTTATATTTTCATGT
* * *
46203552 ATTAATATTCTAGAATGTTTGTATTTTCTTGTATATGTAAATTTAATTT-GTTGCGTATTATTAT
1 ATTAATATTCTAAAATGTTTGTATTTTCTTGTATCTGTAAATTTAATTTAG-TCCGTATTATT-T
* *
46203616 -TTTTTCGAATTATATATTT
64 GTTGTTCGAATTTTATATTT
46203635 GTTTTGTTAA
Statistics
Matches: 150, Mismatches: 19, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
88 1 0.01
89 135 0.90
90 14 0.09
ACGTcount: A:0.26, C:0.07, G:0.10, T:0.57
Consensus pattern (89 bp):
ATTAATATTCTAAAATGTTTGTATTTTCTTGTATCTGTAAATTTAATTTAGTCCGTATTATTTGT
TGTTCGAATTTTATATTTTCATGT
Found at i:46205930 original size:94 final size:93
Alignment explanation
Indices: 46205825--46206120 Score: 425
Period size: 93 Copynumber: 3.2 Consensus size: 93
46205815 TTTAAAGGAA
* * * * *
46205825 AAAAATTAAATAAATAAGGGTTTAGGGTTTCTTAATTAAATTAATTATAATTTTAAAAAATTAGA
1 AAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAATTTTAAAAAATTAGA
46205890 TTAGGGTTTAGTGTTTATGGTTTTTAAGG
66 TTAGGGTTTAGTGTTTA-GGTTTTTAAGG
* * *
46205919 AAAAATCAAATAAATTAGGGTTTAGGGTAACTTGAGTAAATTAATTATAA-ATTAAAAAAATAGA
1 AAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAATTTTAAAAAATTAGA
* *
46205983 TTAGAGTTTAGTGTTTAGGGTTTTTAGGG
66 TTAGGGTTTAGTGTTTA-GGTTTTTAAGG
46206012 AAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTAAAAAAATTA
1 AAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAT-AATTTT-AAAAAATTA
* *
46206077 GATTGGGGTTTAGTATTTAGAGTTTTTAAGG
64 GATTAGGGTTTAGTGTTTAG-GTTTTTAAGG
46206108 -AAAATCAAATAAA
1 AAAAATCAAATAAA
46206121 GCTAGTTGTT
Statistics
Matches: 180, Mismatches: 18, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
93 85 0.47
94 46 0.26
95 16 0.09
96 33 0.18
ACGTcount: A:0.42, C:0.02, G:0.18, T:0.38
Consensus pattern (93 bp):
AAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAATTTTAAAAAATTAGA
TTAGGGTTTAGTGTTTAGGTTTTTAAGG
Found at i:46205940 original size:43 final size:43
Alignment explanation
Indices: 46205889--46206036 Score: 111
Period size: 43 Copynumber: 3.3 Consensus size: 43
46205879 AAAAAATTAG
46205889 ATTAGGGTTTAGTGTTTATGGTTTTTAAGGAAAAATCAAATAA
1 ATTAGGGTTTAGTGTTTATGGTTTTTAAGGAAAAATCAAATAA
* ** *** *
46205932 ATTAGGGTTTAGGGTAACTTGAGTAAATTAATTATAAATTAAAA--AAATAG
1 ATTAGGGTTTAGTGT---TT-A-T-GGTT--TT-TAAGGAAAAATCAAATAA
* * *
46205982 ATTAGAGTTTAGTGTTTAGGGTTTTTAGGGAAAAATCAAATAA
1 ATTAGGGTTTAGTGTTTATGGTTTTTAAGGAAAAATCAAATAA
46206025 ATTAGGGTTTAG
1 ATTAGGGTTTAG
46206037 GGTTACTTGA
Statistics
Matches: 76, Mismatches: 18, Indels: 22
0.66 0.16 0.19
Matches are distributed among these distances:
41 6 0.08
42 2 0.03
43 30 0.39
44 2 0.03
46 3 0.04
47 3 0.04
48 1 0.01
49 2 0.03
50 18 0.24
51 2 0.03
52 7 0.09
ACGTcount: A:0.39, C:0.02, G:0.22, T:0.37
Consensus pattern (43 bp):
ATTAGGGTTTAGTGTTTATGGTTTTTAAGGAAAAATCAAATAA
Found at i:46207054 original size:109 final size:108
Alignment explanation
Indices: 46206923--46207142 Score: 316
Period size: 109 Copynumber: 2.0 Consensus size: 108
46206913 GTTAAACGAG
*
46206923 AAATCGAAACCCAGCACCTTAGGGCACGTTCCTCGAATTTCCAAAC-GCAAAACATTGCCTTATT
1 AAATCGAAACCCAGCACCTTAGGGCACATTCCTCGAATTTCCAAACGGC-AAACATTGCCTTATT
*
46206987 TTGAAATTTTTAAGAAGGATATTAAGCCATTTAGTTGAACGAGAA
65 TTGAAATTTTTAA-AAGGATATTAAGCCATTGAGTTGAACGAGAA
* * * * *
46207032 AAATCGACACCCAGCACCTTAGGGCATATTTCTCGAATTTCTAAACGGCAAACGTTGCCTTATTT
1 AAATCGAAACCCAGCACCTTAGGGCACATTCCTCGAATTTCCAAACGGCAAACATTGCCTTATTT
* * * *
46207097 TGAAATTTTTGAAAGGATATTTAGCTATTGGGTTGAACGAGAA
66 TGAAATTTTTAAAAGGATATTAAGCCATTGAGTTGAACGAGAA
46207140 AAA
1 AAA
46207143 NNNNNNNNNN
Statistics
Matches: 99, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
108 30 0.30
109 67 0.68
110 2 0.02
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.29
Consensus pattern (108 bp):
AAATCGAAACCCAGCACCTTAGGGCACATTCCTCGAATTTCCAAACGGCAAACATTGCCTTATTT
TGAAATTTTTAAAAGGATATTAAGCCATTGAGTTGAACGAGAA
Found at i:46208881 original size:6 final size:6
Alignment explanation
Indices: 46208870--46208907 Score: 58
Period size: 6 Copynumber: 6.0 Consensus size: 6
46208860 TGACCTCTCC
46208870 TTTTCT TTTTCT TTTTCTT TTTTCT TCTTTCT TTTTCT
1 TTTTCT TTTTCT TTTTC-T TTTTCT T-TTTCT TTTTCT
46208908 CCTATTTTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 18 0.60
7 12 0.40
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTCT
Found at i:46208893 original size:13 final size:13
Alignment explanation
Indices: 46208870--46208905 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 13
46208860 TGACCTCTCC
46208870 TTTTC-TTTTTCT
1 TTTTCTTTTTTCT
46208882 TTTTCTTTTTTCT
1 TTTTCTTTTTTCT
46208895 TCTTTCTTTTT
1 T-TTTCTTTTT
46208906 CTCCTATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 5 0.23
13 8 0.36
14 9 0.41
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTCTTTTTTCT
Found at i:46208906 original size:13 final size:12
Alignment explanation
Indices: 46208870--46208907 Score: 58
Period size: 13 Copynumber: 3.0 Consensus size: 12
46208860 TGACCTCTCC
46208870 TTTTCTTTTTCT
1 TTTTCTTTTTCT
46208882 TTTTCTTTTTTCT
1 TTTTC-TTTTTCT
46208895 TCTTTCTTTTTCT
1 T-TTTCTTTTTCT
46208908 CCTATTTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.21
13 15 0.62
14 4 0.17
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTTCTTTTTCT
Found at i:46208944 original size:7 final size:7
Alignment explanation
Indices: 46208932--46208972 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
46208922 TGATTGATTG
46208932 TATTTTT
1 TATTTTT
*
46208939 TATTTTG
1 TATTTTT
46208946 TATTTTT
1 TATTTTT
46208953 TA--TTT
1 TATTTTT
46208958 TATTTTT
1 TATTTTT
*
46208965 GATTTTT
1 TATTTTT
46208972 T
1 T
46208973 CTTTCTCTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
5 5 0.18
7 23 0.82
ACGTcount: A:0.15, C:0.00, G:0.05, T:0.80
Consensus pattern (7 bp):
TATTTTT
Found at i:46208948 original size:14 final size:14
Alignment explanation
Indices: 46208929--46208970 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
46208919 CTTTGATTGA
46208929 TTGTATTTTTTATT
1 TTGTATTTTTTATT
46208943 TTGTATTTTTTA-T
1 TTGTATTTTTTATT
*
46208956 TT-TATTTTTGATT
1 TTGTATTTTTTATT
46208969 TT
1 TT
46208971 TTCTTTCTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 8 0.31
13 6 0.23
14 12 0.46
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.79
Consensus pattern (14 bp):
TTGTATTTTTTATT
Found at i:46208960 original size:19 final size:19
Alignment explanation
Indices: 46208936--46208972 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
46208926 TGATTGTATT
46208936 TTTTA-TTTTGTATTTTTTA
1 TTTTATTTTTG-ATTTTTTA
46208955 TTTTATTTTTGATTTTTT
1 TTTTATTTTTGATTTTTT
46208973 CTTTCTCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.14, C:0.00, G:0.05, T:0.81
Consensus pattern (19 bp):
TTTTATTTTTGATTTTTTA
Found at i:46212669 original size:110 final size:110
Alignment explanation
Indices: 46212430--46212747 Score: 455
Period size: 110 Copynumber: 2.9 Consensus size: 110
46212420 TAAATTCAAT
* * *
46212430 AGGATATTTGGCAATTTGGTTAAACGAG--AAATCGAAACCCAGCACCTTAGGGCACG-TTCCTC
1 AGGATATTTAGCAATTTGGTTGAACGAGAAAAATCGAAACCCAGCACCTTAGGGCACGTTTTCTC
*
46212492 GAATTTCCAAACGTAAAACATTGCCTTATTTTGAAATTTTTAAGA
66 GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTAAGA
* * * * *
46212537 AGGATATTAAGCCATTTAGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTC
1 AGGATATTTAGCAATTTGGTTGAACGAGAAAAATCGAAACCCAGCACCTTAGGGCACGTTTTCTC
* *
46212602 GAATTTCTAAACGGCAAAACATTGCCTTATTTTGAAATTTTTGA-A
66 GAATTTCCAAAC-GCAAAACATTGCCTTATTTTGAAATTTTTAAGA
* *
46212647 AGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
1 AGGATATTTAGCAATTTGGTTGAACGAGAAAAATCGAAACCCAGCACCTTAGGGCACGTTTTCTC
* * *
46212712 GAATTTCCAAAAGCTAAACATTGCCTTATTTAGAAA
66 GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAA
46212748 AATTTTCCTT
Statistics
Matches: 186, Mismatches: 21, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
107 23 0.12
109 48 0.26
110 86 0.46
111 29 0.16
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (110 bp):
AGGATATTTAGCAATTTGGTTGAACGAGAAAAATCGAAACCCAGCACCTTAGGGCACGTTTTCTC
GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTAAGA
Found at i:46214654 original size:10 final size:10
Alignment explanation
Indices: 46214626--46214661 Score: 54
Period size: 10 Copynumber: 3.4 Consensus size: 10
46214616 GGCCATCTGA
46214626 TTTGGGTTTG
1 TTTGGGTTTG
46214636 TAATTGGGTTTG
1 T--TTGGGTTTG
46214648 TTTGGGTTTG
1 TTTGGGTTTG
46214658 TTTG
1 TTTG
46214662 CCTGGGTCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 14 0.58
12 10 0.42
ACGTcount: A:0.06, C:0.00, G:0.36, T:0.58
Consensus pattern (10 bp):
TTTGGGTTTG
Found at i:46215063 original size:44 final size:43
Alignment explanation
Indices: 46215015--46215653 Score: 343
Period size: 44 Copynumber: 14.7 Consensus size: 43
46215005 TTTTAACTTA
*
46215015 CTCCACTGTAACTTCAGGGAGATAAGACTTGTATCTTCAACCTG
1 CTCCACTGTAACTTCAGGGAGATAAGA-TTGTATCTTCAATCTG
* * ** *
46215059 CTCCACTGCAACTTCAGGGAGATAAGGTTTGATAT-TTTGATCCG
1 CTCCACTGTAACTTCAGGGAGATAA-GATTG-TATCTTCAATCTG
* * * * * *
46215103 CTTCACTGCAACTTCAGGAAGATAGGATTGATTTCTTCAATCTA
1 CTCCACTGTAACTTCAGGGAGATAAGATTG-TATCTTCAATCTG
* * * *
46215147 CTCCACTGCAACTTCAGGGAGATAAGATTGGA--TGCGATCTG
1 CTCCACTGTAACTTCAGGGAGATAAGATTGTATCTTCAATCTG
* * * * * *
46215188 CTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTGTT-AATCCG
1 CTCCACTGTAACTTCAGGGAGATAAGAT-TGT-ATCTTCAATCTG
* * * *
46215232 CTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTTC-GTCTG
1 CTCCACTGTAACTTCAGGGAGATAAGATT-GTATC-TTCAATCTG
* * ** *
46215276 CTCCACTGCAACTTCAGGGAGATAAGATCTGAAATTCTTCGGTCTA
1 CTCCACTGTAACTTCAGGGAGATAAGAT-TG-TA-TCTTCAATCTG
* * * * * *
46215322 CTCCACTGTAACCTCAGGGAGATAAGACCTG-A--TGCGATTTA
1 CTCCACTGTAACTTCAGGGAGATAAGA-TTGTATCTTCAATCTG
** * * * *
46215363 CTCTGCTGTAACTTCAGAGAGATAAGATCCTTTAT-TTTAATCCG
1 CTCCACTGTAACTTCAGGGAGATAAGAT--TGTATCTTCAATCTG
* * * *
46215407 CTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTG
1 CTCCACTGTAACTTCAGGGAGATAAGATTGTATCTTCAATCTG
** * **
46215450 CTCTGCTGTAA-TCTCAGGGAGATAAGATCTCTGGCTTCAATCTG
1 CTCCACTGTAACT-TCAGGGAGATAAGAT-TGTATCTTCAATCTG
* * ** *
46215494 CTCCACTGTAACCTCAGGGAGATAAGATATGAAATTCTTCGGTCTA
1 CTCCACTGTAACTTCAGGGAGATAAGAT-TG-TA-TCTTCAATCTG
* * * * *
46215540 CTCCACTGTAACCTCAGGGAGATAAGACCTG-A--TGCGATCTA
1 CTCCACTGTAACTTCAGGGAGATAAGA-TTGTATCTTCAATCTG
* ** * * * *
46215581 ATCTGCTGTAACTTCAGAGAGATAAGATCCTTTAT-TTTAATCCG
1 CTCCACTGTAACTTCAGGGAGATAAGAT--TGTATCTTCAATCTG
* *
46215625 CTCTACTGTAACTTCAGGGAGATAGGATT
1 CTCCACTGTAACTTCAGGGAGATAAGATT
46215654 ATCGACTTCA
Statistics
Matches: 459, Mismatches: 106, Indels: 62
0.73 0.17 0.10
Matches are distributed among these distances:
41 90 0.20
42 8 0.02
43 40 0.09
44 243 0.53
45 9 0.02
46 69 0.15
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (43 bp):
CTCCACTGTAACTTCAGGGAGATAAGATTGTATCTTCAATCTG
Found at i:46215231 original size:129 final size:130
Alignment explanation
Indices: 46215013--46215303 Score: 372
Period size: 129 Copynumber: 2.2 Consensus size: 130
46215003 GATTTTAACT
* * * *
46215013 TACTCCACTGTAACTTCAGGGAGATAAGACTTGTATCTTCAACCTGCTCCACTGCAACTTCAGGG
1 TACTCCACTGCAACTTCAGGGAGATAAGA-TTGGA-CTGCAACCTGCTCCACTGCAACTTCAGAG
* * * * *
46215078 AGATAAGGTTTGATATTTTGATCCGCTTCACTGCAACTTCAGGAAGATAGGATTGATTTC-TTCA
64 AGATAAGATCTGATATGTTAATCCGCTCCACTGCAACTTCAGGAAGATAGGATTGATTTCTTTC-
46215142 ATC
128 ATC
* * *
46215145 TACTCCACTGCAACTTCAGGGAGATAAGATTGGA-TGCGATCTGCTCTACTGCAACTTCAGAGAG
1 TACTCCACTGCAACTTCAGGGAGATAAGATTGGACTGCAACCTGCTCCACTGCAACTTCAGAGAG
* * * *
46215209 ATAAGATCTG-TGGTGTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTTCGT
66 ATAAGATCTGAT-ATGTTAATCCGCTCCACTGCAACTTCAGGAAGATAGGATTGATTTCTTTCAT
46215273 C
130 C
*
46215274 TGCTCCACTGCAACTTCAGGGAGATAAGAT
1 TACTCCACTGCAACTTCAGGGAGATAAGAT
46215304 CTGAAATTCT
Statistics
Matches: 140, Mismatches: 17, Indels: 7
0.85 0.10 0.04
Matches are distributed among these distances:
128 1 0.01
129 104 0.74
130 3 0.02
131 4 0.03
132 28 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (130 bp):
TACTCCACTGCAACTTCAGGGAGATAAGATTGGACTGCAACCTGCTCCACTGCAACTTCAGAGAG
ATAAGATCTGATATGTTAATCCGCTCCACTGCAACTTCAGGAAGATAGGATTGATTTCTTTCATC
Found at i:46215322 original size:129 final size:129
Alignment explanation
Indices: 46215013--46215653 Score: 372
Period size: 131 Copynumber: 4.9 Consensus size: 129
46215003 GATTTTAACT
* * * * * * *
46215013 TACTCCACTGTAACTTCAGGGAGATAAGACTTGTATCTTCAACCTGCTCCACTGCAACTTCAGGG
1 TACTCCACTGCAACTTCAGGGAGATAAGA-TTG-A-ATGCGATCTGCTCTACTGCAACTTCAGAG
* * * * *
46215078 AGATAAGGTTTGATATTTTGATCCGCTTCACTGCAACTTCAGGAAGATAGGATTGATTTCTTCAA
63 AGATAAGATCTGATATGTTAATCCGCTCCACTGCAACTTCAGGAAGATAGGATTGATTTCTTCAA
46215143 TC
128 TC
*
46215145 TACTCCACTGCAACTTCAGGGAGATAAGATTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGA
1 TACTCCACTGCAACTTCAGGGAGATAAGATTGAATGCGATCTGCTCTACTGCAACTTCAGAGAGA
* * * *
46215210 TAAGATCTG-TGGTGTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTTC-GT
66 TAAGATCTGAT-ATGTTAATCCGCTCCACTGCAACTTCAGGAAGATAGGATTGATTTC-TTCAAT
46215273 C
129 C
* * * * * * *
46215274 TGCTCCACTGCAACTTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAG
1 TACTCCACTGCAACTTCAGGGAGATAAGAT-TG-AA---TGCGATCTGCTCTACTGCAACTTCAG
* * ** * ** * * ** *
46215339 GGAGATAAGACCTGATGCGATT--T--ACTCTGCTGTAACTTCA-GAGAGATAAGA-TCCTTTAT
61 AGAGATAAGATCTGATATG-TTAATCCGCTCCACTGCAACTTCAGGA-AGATAGGATTGATTT-C
*
46215398 TTTAATC
123 TTCAATC
** * * ** * * * *
46215405 CGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCTGCTGTAA-TCTCAGGG
1 TACTCCACTGCAACTTCAGGGAGATAAGAT--TGAATGCGATCTGCTCTACTGCAACT-TCAGAG
* * * * * * * *
46215469 AGATAAGATCT-CT-GGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATATGAAATTCT
63 AGATAAGATCTGATATG-TT-AATCCGCTCCACTGCAACTTCAGGAAGATAGGAT-TG-ATTTCT
**
46215532 TCGGTC
124 TCAATC
* * * ** * *
46215538 TACTCCACTGTAACCTCAGGGAGATAAGACCTG-ATGCGATCTAATCTGCTGTAACTTCAGAGAG
1 TACTCCACTGCAACTTCAGGGAGATAAGA-TTGAATGCGATCTGCTCTACTGCAACTTCAGAGAG
* * * * *
46215602 ATAAGATCCT-TTATTTTAATCCGCTCTACTGTAACTTCAGGGAGATAGGATT
65 ATAAGAT-CTGATATGTTAATCCGCTCCACTGCAACTTCAGGAAGATAGGATT
46215654 ATCGACTTCA
Statistics
Matches: 399, Mismatches: 83, Indels: 56
0.74 0.15 0.10
Matches are distributed among these distances:
126 3 0.01
127 1 0.00
128 33 0.08
129 105 0.26
130 13 0.03
131 135 0.34
132 39 0.10
133 31 0.08
134 36 0.09
135 3 0.01
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (129 bp):
TACTCCACTGCAACTTCAGGGAGATAAGATTGAATGCGATCTGCTCTACTGCAACTTCAGAGAGA
TAAGATCTGATATGTTAATCCGCTCCACTGCAACTTCAGGAAGATAGGATTGATTTCTTCAATC
Found at i:46215386 original size:175 final size:174
Alignment explanation
Indices: 46215013--46215520 Score: 554
Period size: 175 Copynumber: 2.9 Consensus size: 174
46215003 GATTTTAACT
* *
46215013 TACTCCACTGTAACTTCAGGGAGATAAGA-CTTGTATCTTCAA-CCTGCTCCACTGCAACTTCAG
1 TACTCTACTGTAACTTCAGAGAGATAAGATCTTG-ATCTT-AATCC-GCTCCACTGCAACTTCAG
* * * * * * *
46215076 GGAGATAAGGTTTGATAT-TTT-GATCCGCTTCACTGCAACTTCAGGAAGATAGGAT-TGATTTC
63 GGAGAT-AGGATTGGTATCTTTCGATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGAATTC
* * *
46215138 TTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTGGATGCGATC
127 TTCAATCTACTCCACTGTAACCTCAGGGAGATAAGACTGGATGCGATC
* * * *
46215186 TGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTGTTAATCCGCTCCACTGCAACTTCAGGG
1 TACTCTACTGTAACTTCAGAGAGATAAGATCT-TGATCTTAATCCGCTCCACTGCAACTTCAGGG
*
46215251 AGATAGGATTGGTTTCTTTCG-TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGAAATTCTT
65 AGATAGGATTGGTATCTTTCGATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTG-AATTCTT
** *
46215315 CGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCT-GATGCGATT
129 CAATCTACTCCACTGTAACCTCAGGGAGATAAGA-CTGGATGCGATC
* * * *
46215361 TACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGG
1 TACTCTACTGTAACTTCAGAGAGATAAGAT-CTTGATCTTAATCCGCTCCACTGCAACTTCAGGG
* * ** * * *
46215426 AGATAGGA-TAGTGTC-TTCGATCTGCTCTGCTGTAA-TCTCAGGGAGATAAGATCT--CTGGCT
65 AGATAGGATTGGTATCTTTCGATCTGCTCCACTGCAACT-TCAGGGAGATAAGATCTGAAT-TCT
*
46215486 TCAATCTGCTCCACTGTAACCTCAGGGAGATAAGA
128 TCAATCTACTCCACTGTAACCTCAGGGAGATAAGA
46215521 TATGAAATTC
Statistics
Matches: 286, Mismatches: 37, Indels: 25
0.82 0.11 0.07
Matches are distributed among these distances:
171 1 0.00
172 42 0.15
173 87 0.30
174 44 0.15
175 109 0.38
176 3 0.01
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.30
Consensus pattern (174 bp):
TACTCTACTGTAACTTCAGAGAGATAAGATCTTGATCTTAATCCGCTCCACTGCAACTTCAGGGA
GATAGGATTGGTATCTTTCGATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGAATTCTTCA
ATCTACTCCACTGTAACCTCAGGGAGATAAGACTGGATGCGATC
Found at i:46215456 original size:87 final size:87
Alignment explanation
Indices: 46215147--46215522 Score: 307
Period size: 87 Copynumber: 4.3 Consensus size: 87
46215137 CTTCAATCTA
* *
46215147 CTCCACTGCAACTTCAGGGAGATAAGAT--TGGATGCGATCTGCTCTACTGCAACTTCAGAGAGA
1 CTCCACTGTAACTTCAGGGAGATAAGATAGTGTATGCGATCTGCTCTACTGCAACTTCAGAGAGA
* *
46215210 TAAGATCTGTGGTGTTAATCCG
66 TAAGATCTGTGATTTTAATCCG
* * * * * * * *
46215232 CTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTTCG-TCTGCTCCACTGCAACTTCAGGGA
1 CTCCACTGTAACTTCAGGGAGATAAGA-TAGTGT-ATGCGATCTGCTCTACTGCAACTTCAGAGA
** ** **
46215296 GATAAGATCTGAAATTCTTCGGTCTA
64 GATAAGATCTGTGATT-TT-AATCCG
* ** * * * *
46215322 CTCCACTGTAACCTCAGGGAGATAAGA-CCTG-ATGCGATTTACTCTGCTGTAACTTCAGAGAGA
1 CTCCACTGTAACTTCAGGGAGATAAGATAGTGTATGCGATCTGCTCTACTGCAACTTCAGAGAGA
*
46215385 TAAGATCCT-TTATTTTAATCCG
66 TAAGAT-CTGTGATTTTAATCCG
* * * * * *
46215407 CTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCTGCTGTAA-TCTCAGGGAG
1 CTCCACTGTAACTTCAGGGAGATAAGATAGTGTATGCGATCTGCTCTACTGCAACT-TCAGAGAG
* ** * *
46215471 ATAAGATCTCTGGCTTCAATCTG
65 ATAAGATCTGTGATTTTAATCCG
*
46215494 CTCCACTGTAACCTCAGGGAGATAAGATA
1 CTCCACTGTAACTTCAGGGAGATAAGATA
46215523 TGAAATTCTT
Statistics
Matches: 228, Mismatches: 51, Indels: 22
0.76 0.17 0.07
Matches are distributed among these distances:
85 53 0.23
86 11 0.05
87 95 0.42
88 38 0.17
89 5 0.02
90 26 0.11
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (87 bp):
CTCCACTGTAACTTCAGGGAGATAAGATAGTGTATGCGATCTGCTCTACTGCAACTTCAGAGAGA
TAAGATCTGTGATTTTAATCCG
Found at i:46215822 original size:43 final size:43
Alignment explanation
Indices: 46215772--46215909 Score: 122
Period size: 43 Copynumber: 3.2 Consensus size: 43
46215762 TACAACCGAT
46215772 GAAGGCAAGGCTTTGTTTTTGATCTGCTTCGCTGTTAATGCAG
1 GAAGGCAAGGCTTTGTTTTTGATCTGCTTCGCTGTTAATGCAG
* * * * * * * * *
46215815 GAAGGCAA-GATCTGCTTCTTTAACCAGCTCCACTG-CAA-CCGATG
1 GAAGGCAAGGCTTTG-TT-TTTGATCTGCTTCGCTGTTAATGC-A-G
*
46215859 G-AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAG
1 GAAGGCAAGGCTTTGTTTTTGATCTGCTTCGCTGTTAATGCAG
46215901 GAAGGCAAG
1 GAAGGCAAG
46215910 ATCTGCTATC
Statistics
Matches: 68, Mismatches: 19, Indels: 16
0.66 0.18 0.16
Matches are distributed among these distances:
42 18 0.26
43 31 0.46
44 19 0.28
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (43 bp):
GAAGGCAAGGCTTTGTTTTTGATCTGCTTCGCTGTTAATGCAG
Found at i:46215823 original size:87 final size:87
Alignment explanation
Indices: 46215668--46216524 Score: 1275
Period size: 87 Copynumber: 9.9 Consensus size: 87
46215658 ACTTCAATTT
* * *
46215668 GCTCAACTGCAACCGATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGTAGTAAGG
1 GCTCCACTGCAACCGATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
* *
46215733 CAAGATCTACGATCTTTAACCA
66 CAAGATCTGCTATCTTTAACCA
* * *
46215755 GCTCCACTACAACCGATGAAGGCAAGGCTTTGTTTTTGATCTGCTTCGCTGTTAATGCAGGAAGG
1 GCTCCACTGCAACCGATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
46215820 CAAGATCTGCT-TCTTTAACCA
66 CAAGATCTGCTATCTTTAACCA
* *
46215841 GCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGG
1 GCTCCACTGCAACCGATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
46215906 CAAGATCTGCTATCTTTAACCA
66 CAAGATCTGCTATCTTTAACCA
* * * *
46215928 GCTCCACTGCAACCAATGGAGGCAAGGCTTTGTCTTCGATCTGCTTCACTGTTAACGCAGGAAGG
1 GCTCCACTGCAACCGATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
46215993 CAAGATCTGCTATCTTTAACCA
66 CAAGATCTGCTATCTTTAACCA
* * * * * *
46216015 GCTCCACTGCAACCAATGGAGGCAAGGCTTTGTCTTCGATCTGCTTCACTGTTAACGCAAGAAAG
1 GCTCCACTGCAACCGATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
*
46216080 CAAGATCTGCTATCTTCAACCA
66 CAAGATCTGCTATCTTTAACCA
*
46216102 GCTCCACTGCAACCGAT-AGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAG
1 GCTCCACTGCAACCGATGA-AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAG
46216166 GCAAGATCTGCTATCTTTAACCA
65 GCAAGATCTGCTATCTTTAACCA
* * ** *
46216189 GCTCCACTGCAACCAATGGAGGCAAGATTTTG-CTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
1 GCTCCACTGCAACCGATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
*
46216253 CAAGATCTGCGT-TCTTCAACCA
66 CAAGATCTGC-TATCTTTAACCA
* ** *
46216275 GCTCCACTGCAACCGATGGAGGCAAGATTTTGTTTTTGATCTGCTTCGCTGTTAACGCAGGAAGG
1 GCTCCACTGCAACCGATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
* *
46216340 CAAGATCTGCTTTCTTCAACCA
66 CAAGATCTGCTATCTTTAACCA
46216362 GCTCCACTGCAACCGAT-AGAGGCAAGGC--T-TTTTCGATCTGCTTCGCTGTTAACGCAGGAAG
1 GCTCCACTGCAACCGATGA-AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAG
46216423 GCAAGATCTGCT-TCTTTAACCA
65 GCAAGATCTGCTATCTTTAACCA
* * *
46216445 GCTCTACTGCAACCAATAAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
1 GCTCCACTGCAACCGATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
*
46216510 CAATATCTGCT-TCTT
66 CAAGATCTGCTATCTT
46216525 CACTGATCTG
Statistics
Matches: 715, Mismatches: 44, Indels: 23
0.91 0.06 0.03
Matches are distributed among these distances:
83 33 0.05
84 44 0.06
85 2 0.00
86 211 0.30
87 425 0.59
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (87 bp):
GCTCCACTGCAACCGATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
CAAGATCTGCTATCTTTAACCA
Found at i:46216227 original size:260 final size:259
Alignment explanation
Indices: 46215668--46216524 Score: 1355
Period size: 260 Copynumber: 3.3 Consensus size: 259
46215658 ACTTCAATTT
* * * * *
46215668 GCTCAACTGCAACCGATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGTAGTAAGG
1 GCTCCACTGCAACCAATGAAGGCAAGGCTTTGTCTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
* * * *
46215733 CAAGATCTACGATCTTTAACCAGCTCCACTACAACCGATGAAGGCAAGGCTTTGTTTTTGATCTG
66 CAAGATCTGC-TTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTTGATCTG
* * *
46215798 CTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGG
130 CTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTCAACCAGCTCCACTGCAACCGATAGAGG
46215863 CAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCA
195 CAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCA
* *
46215928 GCTCCACTGCAACCAATGGAGGCAAGGCTTTGTCTTCGATCTGCTTCACTGTTAACGCAGGAAGG
1 GCTCCACTGCAACCAATGAAGGCAAGGCTTTGTCTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
* * *
46215993 CAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCAATGGAGGCAAGGCTTTGTCTTCGATCTG
66 CAAGATCTGCT-TCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTTGATCTG
* * *
46216058 CTTCACTGTTAACGCAAGAAAGCAAGATCTGCTATCTTCAACCAGCTCCACTGCAACCGATAGAG
130 CTTCGCTGTTAACGCAGGAAGGCAAGATCTGCT-TCTTCAACCAGCTCCACTGCAACCGATAGAG
46216123 GCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAACC
194 GCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAACC
46216188 A
259 A
* **
46216189 GCTCCACTGCAACCAATGGAGGCAAGATTTTG-CTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
1 GCTCCACTGCAACCAATGAAGGCAAGGCTTTGTCTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
* **
46216253 CAAGATCTGCGTTCTTCAACCAGCTCCACTGCAACCGATGGAGGCAAGATTTTGTTTTTGATCTG
66 CAAGATCTGC-TTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTTGATCTG
46216318 CTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTTTCTTCAACCAGCTCCACTGCAACCGATAGAG
130 CTTCGCTGTTAACGCAGGAAGGCAAGATCTGC-TTCTTCAACCAGCTCCACTGCAACCGATAGAG
*
46216383 GCAAGGC--T-TTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCT-TCTTTAACC
194 GCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAACC
46216444 A
259 A
* * *
46216445 GCTCTACTGCAACCAATAAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
1 GCTCCACTGCAACCAATGAAGGCAAGGCTTTGTCTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
*
46216510 CAATATCTGCTTCTT
66 CAAGATCTGCTTCTT
46216525 CACTGATCTG
Statistics
Matches: 552, Mismatches: 40, Indels: 14
0.91 0.07 0.02
Matches are distributed among these distances:
256 42 0.08
257 83 0.15
258 1 0.00
260 299 0.54
261 127 0.23
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (259 bp):
GCTCCACTGCAACCAATGAAGGCAAGGCTTTGTCTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
CAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTTGATCTGC
TTCGCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTCAACCAGCTCCACTGCAACCGATAGAGGC
AAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCA
Found at i:46216318 original size:347 final size:346
Alignment explanation
Indices: 46215668--46216524 Score: 1323
Period size: 347 Copynumber: 2.5 Consensus size: 346
46215658 ACTTCAATTT
* * *
46215668 GCTCAACTGCAACCGATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACG-TAGTAAG
1 GCTCCACTGCAACCGATGGAGGCAAGGCTTTG-TTTCGATCTGCTTCGCTGTTAACGCAAG-AAG
* * * *
46215732 GCAAGATCTACGATCTTTAACCAGCTCCACTACAACCGAT-GAAGGCAAGGCTTTGTTTTTGATC
64 GCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATAG-AGGCAAGGCTTTGTTTTCGATC
*
46215796 TGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGA
128 TGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCAATGGA
* * * *
46215861 GGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAAC
193 GGCAAGACTTTGTCTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTCAAC
*
46215926 CAGCTCCACTGCAACCAATGGAGGCAAGGCTTTGTCTTCGATCTGCTTCACTGTTAACGCAGGAA
258 CAGCTCCACTGCAACCAATGGAGGCAAGACTTTGTCTTCGATCTGCTTCACTGTTAACGCAGGAA
*
46215991 GGCAAGATCTGCTATCTTTAACCA
323 GGCAAGATCTGCTATCTTCAACCA
* * *
46216015 GCTCCACTGCAACCAATGGAGGCAAGGCTTTGTCTTCGATCTGCTTCACTGTTAACGCAAGAAAG
1 GCTCCACTGCAACCGATGGAGGCAAGGCTTTGT-TTCGATCTGCTTCGCTGTTAACGCAAGAAGG
*
46216080 CAAGATCTGCTATCTTCAACCAGCTCCACTGCAACCGATAGAGGCAAGGCTTTGTTTTCGATCTG
65 CAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATAGAGGCAAGGCTTTGTTTTCGATCTG
46216145 CTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCAATGGAG
130 CTTCGCTGTTAATGCAGGAAGGCAAGATCTGCT-TCTTTAACCAGCTCCACTGCAACCAATGGAG
*
46216210 GCAAGATTTTG-CTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCGT-TCTTCAAC
194 GCAAGACTTTGTCTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGC-TATCTTCAAC
* * * * *
46216273 CAGCTCCACTGCAACCGATGGAGGCAAGATTTTGTTTTTGATCTGCTTCGCTGTTAACGCAGGAA
258 CAGCTCCACTGCAACCAATGGAGGCAAGACTTTGTCTTCGATCTGCTTCACTGTTAACGCAGGAA
*
46216338 GGCAAGATCTGCTTTCTTCAACCA
323 GGCAAGATCTGCTATCTTCAACCA
* *
46216362 GCTCCACTGCAACCGATAGAGGCAAGGC-TT-TTTCGATCTGCTTCGCTGTTAACGCAGGAAGGC
1 GCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTCGATCTGCTTCGCTGTTAACGCAAGAAGGC
* * *
46216425 AAGATCTGCT-TCTTTAACCAGCTCTACTGCAACCAATAAAGGCAAGGCTTTGTTTTCGATCTGC
66 AAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATAGAGGCAAGGCTTTGTTTTCGATCTGC
* *
46216489 TTCGCTGTTAACGCAGGAAGGCAATATCTGCTTCTT
131 TTCGCTGTTAATGCAGGAAGGCAAGATCTGCTTCTT
46216525 CACTGATCTG
Statistics
Matches: 469, Mismatches: 36, Indels: 15
0.90 0.07 0.03
Matches are distributed among these distances:
342 4 0.01
343 80 0.17
344 39 0.08
345 1 0.00
346 3 0.01
347 299 0.64
348 43 0.09
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (346 bp):
GCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTCGATCTGCTTCGCTGTTAACGCAAGAAGGC
AAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATAGAGGCAAGGCTTTGTTTTCGATCTGC
TTCGCTGTTAATGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCAATGGAGGC
AAGACTTTGTCTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTCAACCAG
CTCCACTGCAACCAATGGAGGCAAGACTTTGTCTTCGATCTGCTTCACTGTTAACGCAGGAAGGC
AAGATCTGCTATCTTCAACCA
Found at i:46217826 original size:7 final size:7
Alignment explanation
Indices: 46217816--46217913 Score: 178
Period size: 7 Copynumber: 13.7 Consensus size: 7
46217806 TTTTTTTTAC
46217816 TTTTTCA
1 TTTTTCA
46217823 TTTTTTCA
1 -TTTTTCA
46217831 TTTTTCA
1 TTTTTCA
46217838 TTTTTCA
1 TTTTTCA
46217845 TTTTTCA
1 TTTTTCA
46217852 TTTTTCA
1 TTTTTCA
46217859 TTTTTCA
1 TTTTTCA
46217866 TTTTTCA
1 TTTTTCA
46217873 TTTTTCA
1 TTTTTCA
46217880 TTTTTCA
1 TTTTTCA
46217887 TTTTTCA
1 TTTTTCA
46217894 TTTTTCA
1 TTTTTCA
46217901 TTTTTTCA
1 -TTTTTCA
46217909 TTTTT
1 TTTTT
46217914 TCATCTCTTT
Statistics
Matches: 89, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
7 75 0.84
8 14 0.16
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTTTCA
Found at i:46222813 original size:20 final size:18
Alignment explanation
Indices: 46222775--46222813 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
46222765 AAAATAAAGG
*
46222775 AAAATATAAAAAATTTAT
1 AAAATATAAAAAATGTAT
46222793 AAAATATGAAAAATATGTAT
1 AAAATAT-AAAAA-ATGTAT
46222813 A
1 A
46222814 TGTATATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 5 0.28
20 6 0.33
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (18 bp):
AAAATATAAAAAATGTAT
Found at i:46222910 original size:14 final size:14
Alignment explanation
Indices: 46222891--46222953 Score: 65
Period size: 14 Copynumber: 4.4 Consensus size: 14
46222881 GAGTACATAG
46222891 ATATATGTAAATAA
1 ATATATGTAAATAA
* *
46222905 ATATATATATATAA
1 ATATATGTAAATAA
*
46222919 ATATATATTAAATAA
1 ATATAT-GTAAATAA
*
46222934 ATTATATG-AAATAT
1 A-TATATGTAAATAA
46222948 ATATAT
1 ATATAT
46222954 AAAAGCACTT
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
13 5 0.12
14 24 0.59
15 7 0.17
16 5 0.12
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (14 bp):
ATATATGTAAATAA
Found at i:46222967 original size:27 final size:24
Alignment explanation
Indices: 46222902--46222956 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 24
46222892 TATATGTAAA
*
46222902 TAAATATATATATATAAATATATAT
1 TAAATAAAT-TATATAAATATATAT
46222927 TAAATAAATTATATGAAATATATAT
1 TAAATAAATTATAT-AAATATATAT
46222952 ATAAA
1 -TAAA
46222957 AGCACTTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 5 0.19
25 18 0.67
26 4 0.15
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (24 bp):
TAAATAAATTATATAAATATATAT
Found at i:46223097 original size:3 final size:3
Alignment explanation
Indices: 46223025--46223078 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
46223015 TTATTAATGG
46223025 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
46223073 AAT AAT
1 AAT AAT
46223079 GGTAACATTA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:46224565 original size:11 final size:11
Alignment explanation
Indices: 46224515--46224540 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
46224505 GTTAGACTTA
46224515 ATAAATAATTT
1 ATAAATAATTT
46224526 ATAAATAATTT
1 ATAAATAATTT
46224537 ATAA
1 ATAA
46224541 TTTTTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
ATAAATAATTT
Found at i:46224932 original size:16 final size:16
Alignment explanation
Indices: 46224911--46224942 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
46224901 TAAAACTCCA
46224911 TTTTTCATGTCAATTT
1 TTTTTCATGTCAATTT
*
46224927 TTTTTCATTTCAATTT
1 TTTTTCATGTCAATTT
46224943 CTTCTTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.12, G:0.03, T:0.66
Consensus pattern (16 bp):
TTTTTCATGTCAATTT
Found at i:46225124 original size:138 final size:135
Alignment explanation
Indices: 46224901--46225896 Score: 1146
Period size: 134 Copynumber: 7.4 Consensus size: 135
46224891 TTATTTGCCC
* * **
46224901 TAAAACTCCATTTTTCATGTCAA-TTTTTTTTCATTTCAATTTCTTCTTAAAATTCATTCCAATT
1 TAAAACTTCATTTGTCATGTCAATTTTTTTTTCATTTCAATTTCTTCTTAAAATTCATTTGAATT
*
46224965 TCATTTTTTTCTCATGTTATTTGAATTTCATTTCAATTTAAATTTCATTTTCACTTTTTTTTATT
66 TCATTTTTTTCTCATGTTATTTGAATTTCATTTCAATTTAAATTTCA-TTTCAC--TTTTTTACT
46225030 TTTTTAAT
128 TTTTTAAT
* * * *
46225038 TTAAACTTCATTTGTGATGTCAATTTTTTTTTCATTTTAATTTTTTTCTTAAAATTCATTTGAAT
1 TAAAACTTCATTTGTCATGTCAATTTTTTTTTCATTTCAA-TTTCTTCTTAAAATTCATTTGAAT
* * * * *
46225103 TTCA-ATTTTTCTCATGTTATTTAAATTTCATTTAAATTTTAATTTCATTTCACTTTTTTCCTTT
65 TTCATTTTTTTCTCATGTTATTTGAATTTCATTTCAATTTAAATTTCATTTCACTTTTTTACTTT
46225167 TTTAAT
130 TTTAAT
46225173 TAAAACTTCATTTGTCATGTCAATTTTTTTTTCATTTCAATTTCTTCTTAAAATTCATTTGAATT
1 TAAAACTTCATTTGTCATGTCAATTTTTTTTTCATTTCAATTTCTTCTTAAAATTCATTTGAATT
*
46225238 TCATTTTTTTTTCTCATGTTATTTGAATTTCATTTCACTTT---TTT--TTT--C-----T--TT
66 TCA--TTTTTTTCTCATGTTATTTGAATTTCATTTCAATTTAAATTTCATTTCACTTTTTTACTT
46225289 TTTTAAT
129 TTTTAAT
* * * *
46225296 TAAAACTTCATTTGTGATGTCAA-TTTTTTTTCATTTTAATTTTTTTCTTAAAACTCATTTGAAT
1 TAAAACTTCATTTGTCATGTCAATTTTTTTTTCATTTCAA-TTTCTTCTTAAAATTCATTTGAAT
* * * *
46225360 TTCA-TTTTTTCTCAGGTTATTTAAATTTCATTTCAATTTTAATTTCATTTCACTTTTTTTCTTT
65 TTCATTTTTTTCTCATGTTATTTGAATTTCATTTCAATTTAAATTTCATTTCACTTTTTTACTTT
46225424 TTTAAT
130 TTTAAT
*
46225430 TAAAACTTCATTTGTCATGTCAATTTTTTTTTTCATTTCAATTTCTTCTTAAAATTCGTTTGAAT
1 TAAAACTTCATTTGTCATGTCAA-TTTTTTTTTCATTTCAATTTCTTCTTAAAATTCATTTGAAT
* * *
46225495 TTCATTTTTTTGCTCATGTTATTTGAATTTCATTTTAATTTGAATTTCATTTCACTTTTTTTCTT
65 TTCATTTTTTT-CTCATGTTATTTGAATTTCATTTCAATTTAAATTTCATTTCACTTTTTTACTT
46225560 TTTTAAT
129 TTTTAAT
* * * * *
46225567 TAAAAAATT-ATTTCTTATGTC-A-CTTTTTTTCCTTTCAATTTCTTCTTAAAATTCATTTGAAT
1 T-AAAACTTCATTTGTCATGTCAATTTTTTTTTCATTTCAATTTCTTCTTAAAATTCATTTGAAT
* *** * *
46225629 TTTATTTTTTTCTCATGTTATTTTTTTTCTCATGTT--ATTTGAATTTCATTTCACTTTTTTTTC
65 TTCATTTTTTTCTCATGTTATTTGAATT-TCAT-TTCAATTTAAATTTCATTTCAC-TTTTTTAC
46225692 TTTTTTAAT
127 TTTTTTAAT
* * * * * *
46225701 TAAAATTTTATTTCTCATGTCAATTTTTTTTTCATTTCAATTTCTTTTTAAATTTAATTTGAATT
1 TAAAACTTCATTTGTCATGTCAATTTTTTTTTCATTTCAATTTCTTCTTAAAATTCATTTGAATT
* * * * **
46225766 TCATGATTTTTATCATGTTATTTGAATTTCATTTAAATTTTAATTTCATTT-AAATTTTTA-TTT
66 TCAT-TTTTTTCTCATGTTATTTGAATTTCATTTCAATTTAAATTTCATTTCACTTTTTTACTTT
46225829 TTTAAT
130 TTTAAT
* * * **
46225835 TAAAACTTCATTTG-AATTTCATTTTTTTCTTTTTCATTTCAATTT-TAATTAAAATTTCATTT
1 TAAAACTTCATTTGTCATGTCA--ATTTT-TTTTTCATTTCAATTTCTTCTTAAAA-TTCATTT
46225897 CAGCCAAAAC
Statistics
Matches: 746, Mismatches: 75, Indels: 77
0.83 0.08 0.09
Matches are distributed among these distances:
120 32 0.04
122 15 0.02
123 60 0.08
125 4 0.01
127 1 0.00
130 1 0.00
132 4 0.01
133 43 0.06
134 161 0.22
135 97 0.13
136 88 0.12
137 155 0.21
138 60 0.08
139 25 0.03
ACGTcount: A:0.24, C:0.12, G:0.04, T:0.60
Consensus pattern (135 bp):
TAAAACTTCATTTGTCATGTCAATTTTTTTTTCATTTCAATTTCTTCTTAAAATTCATTTGAATT
TCATTTTTTTCTCATGTTATTTGAATTTCATTTCAATTTAAATTTCATTTCACTTTTTTACTTTT
TTAAT
Found at i:46225268 original size:120 final size:117
Alignment explanation
Indices: 46225138--46225399 Score: 373
Period size: 123 Copynumber: 2.2 Consensus size: 117
46225128 TTTCATTTAA
*
46225138 ATTTTAATTTCATTTCACTTTTTTCCTTTTTTAATTAAAACTTCATTTGTCATGTCAATTTTTTT
1 ATTTAAATTTCATTTCACTTTTTTCCTTTTTTAATTAAAACTTCATTTGTCATGTCAA-TTTTTT
* *
46225203 TTCATTTCAA-TTTCTTCTTAAAATTCATTTGAATTTCATTTTTTTTTCTCATGTT
65 TTCATTTCAATTTTCTTCTTAAAACTCATTTGAATTTCA---TTTTTTCTCAGGTT
* * *
46225258 ATTTGAATTTCATTTCACTTTTTTTTTCTTTTTTTAATTAAAACTTCATTTGTGATGTCAATTTT
1 ATTTAAATTTCATTTCAC---TTTTTTCCTTTTTTAATTAAAACTTCATTTGTCATGTCAATTTT
* *
46225323 TTTTCATTTTAATTTTTTTCTTAAAACTCATTTGAATTTCATTTTTTCTCAGGTT
63 TTTTCATTTCAATTTTCTTCTTAAAACTCATTTGAATTTCATTTTTTCTCAGGTT
*
46225378 ATTTAAATTTCATTTCAATTTT
1 ATTTAAATTTCATTTCACTTTT
46225400 AATTTCATTT
Statistics
Matches: 129, Mismatches: 9, Indels: 11
0.87 0.06 0.07
Matches are distributed among these distances:
117 4 0.03
120 46 0.36
122 15 0.12
123 64 0.50
ACGTcount: A:0.23, C:0.13, G:0.04, T:0.60
Consensus pattern (117 bp):
ATTTAAATTTCATTTCACTTTTTTCCTTTTTTAATTAAAACTTCATTTGTCATGTCAATTTTTTT
TCATTTCAATTTTCTTCTTAAAACTCATTTGAATTTCATTTTTTCTCAGGTT
Found at i:46225403 original size:17 final size:17
Alignment explanation
Indices: 46225378--46225416 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
46225368 TTCTCAGGTT
*
46225378 ATTTAAATTTCATTTCA
1 ATTTTAATTTCATTTCA
46225395 ATTTTAATTTCATTTCA
1 ATTTTAATTTCATTTCA
*
46225412 CTTTT
1 ATTTT
46225417 TTTCTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.28, C:0.13, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTAATTTCATTTCA
Found at i:46225505 original size:257 final size:255
Alignment explanation
Indices: 46225000--46225799 Score: 1052
Period size: 257 Copynumber: 3.1 Consensus size: 255
46224990 TTTCATTTCA
* * *
46225000 ATTTAAATTTCATTTTCAC-TTTTTTTTATTTTTTTAATTTAAACTTCATTTGTGATGTCAATTT
1 ATTTGAATTTCA-TTTCACTTTTTTTTTCTTTTTTTAATTAAAACTTCATTTGTGATGTCAA-TT
*
46225064 TTTTTTCATTTTAATTTTTTTCTTAAAATTCATTTGAATTTCAATTTTTCTCATGTTATTTAAAT
64 TTTTTTCATTTTAATTTTTTTCTTAAAATTCATTTGAATTTCATTTTTTCTCATGTTATTTAAAT
*
46225129 TTCATTTAAATTTTAATTTCATTTCACTTTTTTCCTTTTTTAATTAAAACTTCATTTGTCATGTC
129 TTCATTT-AATTTTAATTTCATTTCACTTTTTTTCTTTTTTAATTAAAACTTCATTTGTCATGTC
46225194 AATTTTTTTTTCATTTCAATTTCTTCTTAAAATTCATTTGAATTTCATTTTTTTTTCTCATGTT
193 AATTTTTTTTTCATTTCAATTTCTTCTTAAAATTCATTTGAATTTCA-TTTTTTTTCTCATGTT
46225258 ATTTGAATTTCATTTCACTTTTTTTTTCTTTTTTTAATTAAAACTTCATTTGTGATGTCAATTTT
1 ATTTGAATTTCATTTCACTTTTTTTTTCTTTTTTTAATTAAAACTTCATTTGTGATGTCAATTTT
* *
46225323 TTTTCATTTTAATTTTTTTCTTAAAACTCATTTGAATTTCATTTTTTCTCAGGTTATTTAAATTT
66 TTTTCATTTTAATTTTTTTCTTAAAATTCATTTGAATTTCATTTTTTCTCATGTTATTTAAATTT
46225388 CATTTCAATTTTAATTTCATTTCACTTTTTTTCTTTTTTAATTAAAACTTCATTTGTCATGTCAA
131 CATTT-AATTTTAATTTCATTTCACTTTTTTTCTTTTTTAATTAAAACTTCATTTGTCATGTCAA
* *
46225453 TTTTTTTTTTCATTTCAATTTCTTCTTAAAATTCGTTTGAATTTCATTTTTTTGCTCATGTT
195 -TTTTTTTTTCATTTCAATTTCTTCTTAAAATTCATTTGAATTTCATTTTTTTTCTCATGTT
* * *
46225515 ATTTGAATTTCATTTTAATTTGAATTTCATTTCACTTTTTTTCTTTTTTAATTAAAAAATT-ATT
1 ATTTGAATTTCATTTCACTTT---TTT--TTT--C------T-TTTTTTAATT-AAAACTTCATT
* * * * * * *
46225579 TCTTATGTC-ACTTTTTTTCCTTTCAA-TTTCTTCTTAAAATTCATTTGAATTTTATTTTTTTCT
51 TGTGATGTCAATTTTTTTTCATTTTAATTTTTTTCTTAAAATTCATTTGAATTTCA-TTTTTTCT
*** *
46225642 CATGTTATTTTTTTTCTCATGTT-ATTTGAATTTCATTTCACTTTTTTTTCTTTTTTAATTAAAA
115 CATGTTATTTAAATT-TCAT-TTAATTTTAATTTCATTTCAC-TTTTTTTCTTTTTTAATTAAAA
* * * * * * *
46225706 TTTTATTTCTCATGTCAATTTTTTTTTCATTTCAATTTCTTTTTAAATTTAATTTGAATTTCATG
177 CTTCATTTGTCATGTCAATTTTTTTTTCATTTCAATTTCTTCTTAAAATTCATTTGAATTTCATT
* *
46225771 ATTTTTATCATGTT
242 TTTTTTCTCATGTT
46225785 ATTTGAATTTCATTT
1 ATTTGAATTTCATTT
46225800 AAATTTTAAT
Statistics
Matches: 484, Mismatches: 37, Indels: 30
0.88 0.07 0.05
Matches are distributed among these distances:
257 169 0.35
258 95 0.20
260 3 0.01
262 3 0.01
264 1 0.00
269 25 0.05
270 119 0.25
271 61 0.13
272 8 0.02
ACGTcount: A:0.24, C:0.12, G:0.04, T:0.60
Consensus pattern (255 bp):
ATTTGAATTTCATTTCACTTTTTTTTTCTTTTTTTAATTAAAACTTCATTTGTGATGTCAATTTT
TTTTCATTTTAATTTTTTTCTTAAAATTCATTTGAATTTCATTTTTTCTCATGTTATTTAAATTT
CATTTAATTTTAATTTCATTTCACTTTTTTTCTTTTTTAATTAAAACTTCATTTGTCATGTCAAT
TTTTTTTTCATTTCAATTTCTTCTTAAAATTCATTTGAATTTCATTTTTTTTCTCATGTT
Found at i:46225655 original size:17 final size:17
Alignment explanation
Indices: 46225633--46225668 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
46225623 TTGAATTTTA
46225633 TTTTTTTCTCATGTTAT
1 TTTTTTTCTCATGTTAT
46225650 TTTTTTTCTCATGTTAT
1 TTTTTTTCTCATGTTAT
46225667 TT
1 TT
46225669 GAATTTCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.11, C:0.11, G:0.06, T:0.72
Consensus pattern (17 bp):
TTTTTTTCTCATGTTAT
Found at i:46225740 original size:17 final size:17
Alignment explanation
Indices: 46225704--46225749 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
46225694 TTTTAATTAA
*
46225704 AATTTTATTTCTCATGTC
1 AATTTT-TTTTTCATGTC
*
46225722 AATTTTTTTTTCATTTC
1 AATTTTTTTTTCATGTC
46225739 AATTTCTTTTT
1 AATTT-TTTTT
46225750 AAATTTAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 14 0.56
18 11 0.44
ACGTcount: A:0.20, C:0.13, G:0.02, T:0.65
Consensus pattern (17 bp):
AATTTTTTTTTCATGTC
Found at i:46225810 original size:17 final size:17
Alignment explanation
Indices: 46225785--46225828 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
46225775 TTATCATGTT
*
46225785 ATTTGAATTTCATTTAA
1 ATTTTAATTTCATTTAA
46225802 ATTTTAATTTCATTTAA
1 ATTTTAATTTCATTTAA
*
46225819 ATTTTTATTT
1 ATTTTAATTT
46225829 TTTAATTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (17 bp):
ATTTTAATTTCATTTAA
Found at i:46226040 original size:2 final size:2
Alignment explanation
Indices: 46226033--46226068 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
46226023 TGCCAAATCA
46226033 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
46226069 TTTTTTCTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:46226407 original size:6 final size:6
Alignment explanation
Indices: 46226398--46226489 Score: 109
Period size: 6 Copynumber: 15.7 Consensus size: 6
46226388 ATATAAATTC
* *
46226398 ATTTCA ATTTC- ATTTCA ATTTCA ATTTCA ATTTTA ATTCCA ATTTCA
1 ATTTCA ATTTCA ATTTCA ATTTCA ATTTCA ATTTCA ATTTCA ATTTCA
* * *
46226445 ATTTCA AATTGA ATTTCA A-TTCA A-TACA AGTTTCA ATTTCA ATTT
1 ATTTCA ATTTCA ATTTCA ATTTCA ATTTCA A-TTTCA ATTTCA ATTT
46226490 TTTTATATAT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
5 14 0.19
6 55 0.75
7 4 0.05
ACGTcount: A:0.35, C:0.15, G:0.02, T:0.48
Consensus pattern (6 bp):
ATTTCA
Found at i:46236758 original size:18 final size:19
Alignment explanation
Indices: 46236726--46236763 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
46236716 TTTAATCTAA
* *
46236726 TATATTTTATGTAA-TATT
1 TATATTTGATATAATTATT
46236744 TATATTTGATATAATTATT
1 TATATTTGATATAATTATT
46236763 T
1 T
46236764 TCATATTGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (19 bp):
TATATTTGATATAATTATT
Found at i:46236808 original size:22 final size:22
Alignment explanation
Indices: 46236783--46236828 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
46236773 AATTTACTTC
46236783 AAATATATAACA-TTATATATTT
1 AAATATATAACAGTTATAT-TTT
* *
46236805 AAATTTATAATAGTTATATTTT
1 AAATATATAACAGTTATATTTT
46236827 AA
1 AA
46236829 TAATATTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (22 bp):
AAATATATAACAGTTATATTTT
Found at i:46239053 original size:3 final size:3
Alignment explanation
Indices: 46239045--46239101 Score: 96
Period size: 3 Copynumber: 18.7 Consensus size: 3
46239035 CCTTCCCTAT
*
46239045 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
46239093 GATA ATA AT
1 -ATA ATA AT
46239102 GTACTGGGTT
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
3 49 0.96
4 2 0.04
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:46240655 original size:30 final size:28
Alignment explanation
Indices: 46240615--46240692 Score: 88
Period size: 30 Copynumber: 2.8 Consensus size: 28
46240605 TATTATTCGC
46240615 TATT-ATATTGTTACTATTTTGTTTTAT
1 TATTAATATTGTTACTATTTTGTTTTAT
* *
46240642 TGTTTGAATATTGTATAAT-TTTTGTTTTAT
1 T-ATT-AATATTGT-TACTATTTTGTTTTAT
*
46240672 TATTAATTTTGTTACTATTTT
1 TATTAATATTGTTACTATTTT
46240693 AGAGGTATTT
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
27 4 0.10
28 13 0.32
29 2 0.05
30 19 0.46
31 3 0.07
ACGTcount: A:0.23, C:0.03, G:0.09, T:0.65
Consensus pattern (28 bp):
TATTAATATTGTTACTATTTTGTTTTAT
Found at i:46247059 original size:35 final size:35
Alignment explanation
Indices: 46247013--46247129 Score: 135
Period size: 35 Copynumber: 3.3 Consensus size: 35
46247003 ACTCTCTGTT
* *
46247013 TTGGTGTGTTTTGGTTGGACTAGCTTTTATGAGTA
1 TTGGTGTGTTTTGGATGGACTAGCTTTTATGAGCA
* * *
46247048 TTGGTGTGTTTTGGAGGGATTAGCTCTTATGAGCA
1 TTGGTGTGTTTTGGATGGACTAGCTTTTATGAGCA
*** * *
46247083 TTGGTGTGTTTCAAATGGACTGGCTTTTACGAGCA
1 TTGGTGTGTTTTGGATGGACTAGCTTTTATGAGCA
46247118 TCTGGTGTGTTT
1 T-TGGTGTGTTT
46247130 GGGCGGTTTT
Statistics
Matches: 68, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
35 58 0.85
36 10 0.15
ACGTcount: A:0.15, C:0.09, G:0.32, T:0.44
Consensus pattern (35 bp):
TTGGTGTGTTTTGGATGGACTAGCTTTTATGAGCA
Found at i:46248987 original size:250 final size:250
Alignment explanation
Indices: 46248542--46249031 Score: 702
Period size: 250 Copynumber: 2.0 Consensus size: 250
46248532 CCTCTGGTTT
*
46248542 CCAACCCTGTCACCCTTGTTGCACCAATAAGAACCATTCCTCCCAGCTACTCTGACTTCACTAGT
1 CCAACCCTGTCACCCTTGTTGCACCAATAAGAACCATTCCTCCCAGCTACTCTGACTCCACTAGT
* *
46248607 TATCGTAATGCCTCAACTGCAAACTATTGTGTCCCCTCATGGACCTTTAGACCAGATAACTCATT
66 TATCGTAATGCCTCAACTGCAAACTATTGTGTCCCCTCATGGACCCTTAAACCAGATAACTCATT
* **
46248672 GTTTATAAGAGGACATAACTTGTCTCACAACCATGCTTACTCCACCAACCATGACTCTTACTCCC
131 GTTTATAAGAGGACATAACTTGTCTCACAACCATGCATACTCCACCAACCATGACTCACACTCCC
* **
46248737 TTAAACCT-GGGTTTTAACCAACAGACGTTGGGTCTTCAACCTCACCCTTGTTGCA
196 TTAAA-CTAGGGTTTTAACCAACAAACGTAAGGTCTTCAACCTCACCCTTGTTGCA
* *
46248792 CCAACCCTGTCACCCTTGTTGCACCAATAGGAACCATTCC-CCTCAGTTACTCTGACTCCACTAG
1 CCAACCCTGTCACCCTTGTTGCACCAATAAGAACCATTCCTCC-CAGCTACTCTGACTCCACTAG
* *
46248856 TTATCGTAGTGCCTCAATTGC-AACT-TGGTGTGTCCCCT-ATTGGACCCTTAAACCAGATAACT
65 TTATCGTAATGCCTCAACTGCAAACTAT--TGTGTCCCCTCA-TGGACCCTTAAACCAGATAACT
* * * * * * *
46248918 CATTTTTTGTATGAGGACATAACTTGTCTCACAACCATGCATGCTCCACCAATCGTTACTCACAC
127 CATTGTTTATAAGAGGACATAACTTGTCTCACAACCATGCATACTCCACCAACCATGACTCACAC
* *
46248983 TCCCTTAAACTAGGGTTTTCACCAGCAAACGTAAGGTCTTCAACCTCAC
192 TCCCTTAAACTAGGGTTTTAACCAACAAACGTAAGGTCTTCAACCTCAC
46249032 GGCTTAAAAG
Statistics
Matches: 213, Mismatches: 22, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
248 1 0.00
249 9 0.04
250 203 0.95
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.29
Consensus pattern (250 bp):
CCAACCCTGTCACCCTTGTTGCACCAATAAGAACCATTCCTCCCAGCTACTCTGACTCCACTAGT
TATCGTAATGCCTCAACTGCAAACTATTGTGTCCCCTCATGGACCCTTAAACCAGATAACTCATT
GTTTATAAGAGGACATAACTTGTCTCACAACCATGCATACTCCACCAACCATGACTCACACTCCC
TTAAACTAGGGTTTTAACCAACAAACGTAAGGTCTTCAACCTCACCCTTGTTGCA
Found at i:46253973 original size:40 final size:42
Alignment explanation
Indices: 46253904--46254040 Score: 112
Period size: 40 Copynumber: 3.5 Consensus size: 42
46253894 GCCGTTTGGA
* *
46253904 TAAAAAACACCGCTAAAAATC-AATCATTAGCGGCT-C-TATC
1 TAAAAAACGCCGCTAAAAATCGAGT-ATTAGCGGCTGCTTATC
* * *
46253944 TAAAAAACGCCGCTAAAGATCGAGTATTAGTGG-TGCTTTTC
1 TAAAAAACGCCGCTAAAAATCGAGTATTAGCGGCTGCTTATC
* * *
46253985 T-AAAAATGCCGCTAAAAAT-GAGAATTAGCGGC-G-TTTTC
1 TAAAAAACGCCGCTAAAAATCGAGTATTAGCGGCTGCTTATC
* *
46254023 CAAAAAGCGCCGC-AAAAA
1 TAAAAAACGCCGCTAAAAA
46254041 CCTAAACCTA
Statistics
Matches: 80, Mismatches: 12, Indels: 12
0.77 0.12 0.12
Matches are distributed among these distances:
38 10 0.12
39 21 0.26
40 43 0.54
41 6 0.08
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.23
Consensus pattern (42 bp):
TAAAAAACGCCGCTAAAAATCGAGTATTAGCGGCTGCTTATC
Found at i:46254200 original size:21 final size:23
Alignment explanation
Indices: 46254175--46254219 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
46254165 TAATTTGTTT
46254175 ATTTATAT-TAAATGAA-ATTTA
1 ATTTATATCTAAATGAATATTTA
* *
46254196 ATTTATTTCTAATTGAATATTTA
1 ATTTATATCTAAATGAATATTTA
46254219 A
1 A
46254220 AATCTTCAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 7 0.35
23 6 0.30
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.51
Consensus pattern (23 bp):
ATTTATATCTAAATGAATATTTA
Found at i:46254475 original size:15 final size:15
Alignment explanation
Indices: 46254438--46254471 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
46254428 AGGATTTTTA
46254438 GTTTAGGGAGTATGG
1 GTTTAGGGAGTATGG
*
46254453 GTTTAGGGATTAT-G
1 GTTTAGGGAGTATGG
46254467 GTTTA
1 GTTTA
46254472 AGGGTTGGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.21, C:0.00, G:0.38, T:0.41
Consensus pattern (15 bp):
GTTTAGGGAGTATGG
Found at i:46254492 original size:21 final size:20
Alignment explanation
Indices: 46254458--46254498 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
46254448 TATGGGTTTA
*
46254458 GGGATTATGGTTTAAGGGTT
1 GGGATTAAGGTTTAAGGGTT
*
46254478 GGGATTTAAGGTTTAGGGGTT
1 GGGA-TTAAGGTTTAAGGGTT
46254499 AAAAGGTTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (20 bp):
GGGATTAAGGTTTAAGGGTT
Found at i:46254521 original size:15 final size:15
Alignment explanation
Indices: 46254466--46254523 Score: 64
Period size: 15 Copynumber: 3.9 Consensus size: 15
46254456 TAGGGATTAT
46254466 GGTTTAAGGGTT-GG
1 GGTTTAAGGGTTAGG
* *
46254480 GATTTAAGGTTTAGG
1 GGTTTAAGGGTTAGG
* *
46254495 GGTTAAAAGGTTAGG
1 GGTTTAAGGGTTAGG
*
46254510 GGTTTAGGGGTTAG
1 GGTTTAAGGGTTAG
46254524 ACGTGTTAGG
Statistics
Matches: 34, Mismatches: 9, Indels: 1
0.77 0.20 0.02
Matches are distributed among these distances:
14 10 0.29
15 24 0.71
ACGTcount: A:0.22, C:0.00, G:0.43, T:0.34
Consensus pattern (15 bp):
GGTTTAAGGGTTAGG
Found at i:46254726 original size:15 final size:15
Alignment explanation
Indices: 46254706--46254737 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
46254696 TATTTTAAGG
46254706 TTTAGGGAGTATGGA
1 TTTAGGGAGTATGGA
*
46254721 TTTAGGGATTATGGA
1 TTTAGGGAGTATGGA
46254736 TT
1 TT
46254738 AGCGATTATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.00, G:0.34, T:0.41
Consensus pattern (15 bp):
TTTAGGGAGTATGGA
Found at i:46254744 original size:14 final size:15
Alignment explanation
Indices: 46254715--46254752 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
46254705 GTTTAGGGAG
*
46254715 TATGGATTTAGGGAT
1 TATGGATTTAGCGAT
46254730 TATGGA-TTAGCGAT
1 TATGGATTTAGCGAT
46254744 TATGG-TTTA
1 TATGGATTTA
46254753 AGGGTTAGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.26, C:0.03, G:0.29, T:0.42
Consensus pattern (15 bp):
TATGGATTTAGCGAT
Found at i:46254760 original size:21 final size:21
Alignment explanation
Indices: 46254699--46254834 Score: 65
Period size: 21 Copynumber: 6.7 Consensus size: 21
46254689 GAGTTCATAT
*
46254699 TTTAAGGTTT-AGGGAGTATGGA
1 TTTAAGGTTTAAGGG-TTA-GGA
* * * *
46254721 TTTAGGGATTATGGATTAGCGA
1 TTTAAGGTTTAAGGGTTAG-GA
*
46254743 -TTATGGTTTAAGGGTTAGGA
1 TTTAAGGTTTAAGGGTTAGGA
*
46254763 TTTAAGGTTTAGGGGTTAGG-
1 TTTAAGGTTTAAGGGTTAGGA
* *
46254783 -----GGTTCAGGGGTTA-GA
1 TTTAAGGTTTAAGGGTTAGGA
* *
46254798 TGTTAGGGTTTAAGAGTTACGGA
1 T-TTAAGGTTTAAGGGTTA-GGA
46254821 TTTAAGGTTTAAGG
1 TTTAAGGTTTAAGG
46254835 ATTTAGGGGT
Statistics
Matches: 85, Mismatches: 17, Indels: 24
0.67 0.13 0.19
Matches are distributed among these distances:
14 1 0.01
15 12 0.14
20 2 0.02
21 42 0.49
22 23 0.27
23 5 0.06
ACGTcount: A:0.25, C:0.02, G:0.36, T:0.37
Consensus pattern (21 bp):
TTTAAGGTTTAAGGGTTAGGA
Found at i:46254766 original size:14 final size:14
Alignment explanation
Indices: 46254749--46254845 Score: 52
Period size: 15 Copynumber: 6.7 Consensus size: 14
46254739 GCGATTATGG
46254749 TTTAAGGGTTAGGA
1 TTTAAGGGTTAGGA
* *
46254763 TTTAAGGTTTAGGG
1 TTTAAGGGTTAGGA
* * *
46254777 GTTAGGGGTTCAGGG
1 TTTAAGGGTT-AGGA
* * *
46254792 GTT-AGATGTTAGGG
1 TTTAAG-GGTTAGGA
*
46254806 TTTAAGAGTTACGGA
1 TTTAAGGGTTA-GGA
*
46254821 TTTAAGGTTTAAGGA
1 TTTAAGGGTT-AGGA
*
46254836 TTTAGGGGTT
1 TTTAAGGGTT
46254846 GGGTTAAGGT
Statistics
Matches: 64, Mismatches: 14, Indels: 9
0.74 0.16 0.10
Matches are distributed among these distances:
14 30 0.47
15 33 0.52
16 1 0.02
ACGTcount: A:0.24, C:0.02, G:0.37, T:0.37
Consensus pattern (14 bp):
TTTAAGGGTTAGGA
Found at i:46258390 original size:7 final size:7
Alignment explanation
Indices: 46258380--46258412 Score: 52
Period size: 6 Copynumber: 5.0 Consensus size: 7
46258370 TTTATTATTT
46258380 TAAATTC
1 TAAATTC
46258387 TAAATT-
1 TAAATTC
46258393 TAAATTC
1 TAAATTC
46258400 TAAATT-
1 TAAATTC
46258406 TAAATTC
1 TAAATTC
46258413 ATTAATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 12 0.50
7 12 0.50
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.45
Consensus pattern (7 bp):
TAAATTC
Found at i:46258394 original size:13 final size:13
Alignment explanation
Indices: 46258378--46258412 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
46258368 AATTTATTAT
46258378 TTTAAATTCTAAA
1 TTTAAATTCTAAA
46258391 TTTAAATTCTAAA
1 TTTAAATTCTAAA
46258404 TTTAAATTC
1 TTTAAATTC
46258413 ATTAATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (13 bp):
TTTAAATTCTAAA
Found at i:46258780 original size:43 final size:43
Alignment explanation
Indices: 46258572--46258796 Score: 265
Period size: 43 Copynumber: 5.3 Consensus size: 43
46258562 GCGTTTTCAA
* *
46258572 AAAAGCGCCGCTAAAGGTCTAT--TCTATAGCGACGTTTGTGTG
1 AAAAGCGCCGCTAAAGGTCT-TGGTCTTTAGCGACGTTTGTGGG
* * * * * **
46258614 AAAAGTGCCGCTAAAGGTCATGGTCTTTAGTGACATTTGCGAA
1 AAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGACGTTTGTGGG
* * * *
46258657 AAAAGTGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTTGG
1 AAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGACGTTTGTGGG
* *
46258700 AAAAGCGCCGCTAAAGGTCTTGATCTTTAGCGCCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGACGTTTGTGGG
* * *
46258743 AATAGCGCCGCTAAAGCTCTTGGTCTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGACGTTTGTGGG
46258786 AAAAGCGCCGC
1 AAAAGCGCCGC
46258797 AAATAGTTTT
Statistics
Matches: 156, Mismatches: 25, Indels: 3
0.85 0.14 0.02
Matches are distributed among these distances:
41 1 0.01
42 18 0.12
43 137 0.88
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.28
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGACGTTTGTGGG
Found at i:46258848 original size:22 final size:22
Alignment explanation
Indices: 46258816--46258859 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
46258806 TAGCGGCGCT
*
46258816 AAAAAACGCCGCTAAAGGCCTA
1 AAAAAACGCCGCTAAAAGCCTA
*
46258838 AAAAAATGCCGCTAAAAGCCTA
1 AAAAAACGCCGCTAAAAGCCTA
46258860 TTTTGGTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.48, C:0.25, G:0.16, T:0.11
Consensus pattern (22 bp):
AAAAAACGCCGCTAAAAGCCTA
Found at i:46260535 original size:50 final size:51
Alignment explanation
Indices: 46260449--46260556 Score: 175
Period size: 50 Copynumber: 2.1 Consensus size: 51
46260439 GATCAATGAT
*
46260449 AAGTGATAAGTGGTAGCTGTAGCTACACTTATCTGATCAGTGG-CAAGTGGC
1 AAGTGATAAGTGGTAGCTGTAGCTACACTTATCTGATCAG-GGACAAGTGAC
*
46260500 AAGTGATAAGTGGTAGCT-TAGCTACACTTATCTGATCAGGGACAAGTGAT
1 AAGTGATAAGTGGTAGCTGTAGCTACACTTATCTGATCAGGGACAAGTGAC
46260550 AAGTGAT
1 AAGTGAT
46260557 CATACGTAAG
Statistics
Matches: 54, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
49 2 0.04
50 34 0.63
51 18 0.33
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (51 bp):
AAGTGATAAGTGGTAGCTGTAGCTACACTTATCTGATCAGGGACAAGTGAC
Found at i:46270767 original size:14 final size:14
Alignment explanation
Indices: 46270748--46270787 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
46270738 TTGATAGCCA
46270748 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
46270762 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
46270776 GGAAAATGTTTT
1 GTAAAATGTTTT
46270788 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:46270796 original size:20 final size:20
Alignment explanation
Indices: 46270771--46270810 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
46270761 CGTAAAATGA
*
46270771 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
46270791 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
46270811 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:46270800 original size:34 final size:35
Alignment explanation
Indices: 46270756--46270822 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
46270746 CAGTAAAATG
*
46270756 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
46270790 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
46270823 CTGATGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:46280529 original size:15 final size:16
Alignment explanation
Indices: 46280499--46280531 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
46280489 AAAAAATTTG
46280499 TTGAAAAAACAACAAA
1 TTGAAAAAACAACAAA
*
46280515 TTGAAGAAA-AACAAA
1 TTGAAAAAACAACAAA
46280530 TT
1 TT
46280532 TCAAAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.64, C:0.09, G:0.09, T:0.18
Consensus pattern (16 bp):
TTGAAAAAACAACAAA
Found at i:46286298 original size:24 final size:24
Alignment explanation
Indices: 46286253--46286298 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
46286243 TTCTTCTCCC
* * * *
46286253 CTTTCCCCTTCTCCTTCTCCTTCA
1 CTTTCCCCTACCCCTACCCCTTCA
46286277 CTTTCCCCTACCCCTACCCCTT
1 CTTTCCCCTACCCCTACCCCTT
46286299 TCCCCTTCTC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.07, C:0.54, G:0.00, T:0.39
Consensus pattern (24 bp):
CTTTCCCCTACCCCTACCCCTTCA
Found at i:46286306 original size:31 final size:31
Alignment explanation
Indices: 46286271--46286329 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
46286261 TTCTCCTTCT
*
46286271 CCTTCACTTTCCCCTACCCCTACCCCTTTCC
1 CCTTCACCTTCCCCTACCCCTACCCCTTTCC
* * *
46286302 CCTTCTCCTTCCCTTTCCCCTACCCCTT
1 CCTTCACCTTCCCCTACCCCTACCCCTT
46286330 CCTTTTCCTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.07, C:0.58, G:0.00, T:0.36
Consensus pattern (31 bp):
CCTTCACCTTCCCCTACCCCTACCCCTTTCC
Found at i:46286306 original size:37 final size:36
Alignment explanation
Indices: 46286257--46286328 Score: 117
Period size: 37 Copynumber: 2.0 Consensus size: 36
46286247 TCTCCCCTTT
*
46286257 CCCCTTCTCCTTCTCCTTCACTTTCCCCTACCCCTA
1 CCCCTTCCCCTTCTCCTTCACTTTCCCCTACCCCTA
*
46286293 CCCCTTTCCCCTTCTCCTTCCCTTTCCCCTACCCCT
1 CCCC-TTCCCCTTCTCCTTCACTTTCCCCTACCCCT
46286329 TCCTTTTCCT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
36 4 0.12
37 29 0.88
ACGTcount: A:0.06, C:0.58, G:0.00, T:0.36
Consensus pattern (36 bp):
CCCCTTCCCCTTCTCCTTCACTTTCCCCTACCCCTA
Found at i:46286317 original size:18 final size:18
Alignment explanation
Indices: 46286271--46286337 Score: 80
Period size: 18 Copynumber: 3.7 Consensus size: 18
46286261 TTCTCCTTCT
*
46286271 CCTTCACTTTCCCCTACC
1 CCTTCCCTTTCCCCTACC
* * *
46286289 CCTACCCCTTTCCCCTTCT
1 CCT-TCCCTTTCCCCTACC
46286308 CCTTCCCTTTCCCCTACC
1 CCTTCCCTTTCCCCTACC
*
46286326 CCTTCCTTTTCC
1 CCTTCCCTTTCC
46286338 TGTTCCGAAG
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
18 26 0.65
19 14 0.35
ACGTcount: A:0.06, C:0.57, G:0.00, T:0.37
Consensus pattern (18 bp):
CCTTCCCTTTCCCCTACC
Found at i:46287673 original size:30 final size:30
Alignment explanation
Indices: 46287637--46287694 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
46287627 GCATTTGTAC
* *
46287637 AAGACCATAAGTTCCAATTTGCTATGACAT
1 AAGACCATAAGTACCAACTTGCTATGACAT
46287667 AAGACCATAAGTACCAACTTGCTATGAC
1 AAGACCATAAGTACCAACTTGCTATGAC
46287695 TGGCATGGTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.26
Consensus pattern (30 bp):
AAGACCATAAGTACCAACTTGCTATGACAT
Found at i:46293588 original size:30 final size:30
Alignment explanation
Indices: 46293552--46293610 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
46293542 CTCAATTGTT
*
46293552 TGAAGCAAAATTAGAGATTGGGATTTTCAG
1 TGAAGCAAAATTACAGATTGGGATTTTCAG
46293582 TGAAGCAAAATTACAGATTGGGATTTTCA
1 TGAAGCAAAATTACAGATTGGGATTTTCA
46293611 ATGCTTGATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.37, C:0.08, G:0.24, T:0.31
Consensus pattern (30 bp):
TGAAGCAAAATTACAGATTGGGATTTTCAG
Found at i:46297564 original size:69 final size:69
Alignment explanation
Indices: 46297444--46297692 Score: 288
Period size: 69 Copynumber: 3.6 Consensus size: 69
46297434 ATTCTATCAT
* * * * *
46297444 CCTACAATTACATACAAAAAGTTATATTA-CTCCACCACTACATCCAATTACACATACAAAAAGT
1 CCTACAATTACATATAAAAAGTTATATTAGC-CCACCACCACACCCATTTACACATAAAAAAAGT
46297508 GACAA
65 GACAA
* *
46297513 CCTACAATTACATATAAAAAGTGATATTAGCCCACCACCACACCCATTTACACATAGAAAAAGTG
1 CCTACAATTACATATAAAAAGTTATATTAGCCCACCACCACACCCATTTACACATAAAAAAAGTG
*
46297578 TCAA
66 ACAA
*** * *
46297582 CCTACAATTACATATAAAAAGTTATATTAGTTTACCACCACACGCATTTACACATAAAAAAAGTA
1 CCTACAATTACATATAAAAAGTTATATTAGCCCACCACCACACCCATTTACACATAAAAAAAGTG
46297647 ACAA
66 ACAA
* ** * *
46297651 CCCT-CTATGGCATACAAAAAGTTATATTCA-TCCACCACCACA
1 -CCTACAATTACATATAAAAAGTTATATT-AGCCCACCACCACA
46297693 GCTACATGGG
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
69 151 0.97
70 5 0.03
ACGTcount: A:0.44, C:0.26, G:0.06, T:0.24
Consensus pattern (69 bp):
CCTACAATTACATATAAAAAGTTATATTAGCCCACCACCACACCCATTTACACATAAAAAAAGTG
ACAA
Found at i:46297692 original size:138 final size:138
Alignment explanation
Indices: 46297444--46297692 Score: 324
Period size: 138 Copynumber: 1.8 Consensus size: 138
46297434 ATTCTATCAT
* * *
46297444 CCTACAATTACATACAAAAAGTTATATTACTCCACCACTACATCCAATTACACATACAAAAAGTG
1 CCTACAATTACATACAAAAAGTTATATTACTCCACCACCACATCCAATTACACATAAAAAAAGTA
* *
46297509 ACAACCTACAATTACATATAAAAAGTGATATTAGCCCACCACCACACCCATTTACACATAGAAAA
66 ACAACCTACAATGACATACAAAAAGTGATATTAGCCCACCACCACACCCATTTACACATAGAAAA
46297574 AGTGTCAA
131 AGTGTCAA
* * ** *
46297582 CCTACAATTACATATAAAAAGTTATATTAGTTTACCACCACA-CGCATTTACACATAAAAAAAGT
1 CCTACAATTACATACAAAAAGTTATATTACTCCACCACCACATC-CAATTACACATAAAAAAAGT
* * * *
46297646 AACAACCCT-CTATGGCATACAAAAAGTTATATTCA-TCCACCACCACA
65 AACAA-CCTACAATGACATACAAAAAGTGATATT-AGCCCACCACCACA
46297693 GCTACATGGG
Statistics
Matches: 94, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
137 1 0.01
138 89 0.95
139 4 0.04
ACGTcount: A:0.44, C:0.26, G:0.06, T:0.24
Consensus pattern (138 bp):
CCTACAATTACATACAAAAAGTTATATTACTCCACCACCACATCCAATTACACATAAAAAAAGTA
ACAACCTACAATGACATACAAAAAGTGATATTAGCCCACCACCACACCCATTTACACATAGAAAA
AGTGTCAA
Found at i:46304108 original size:21 final size:22
Alignment explanation
Indices: 46304049--46304108 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
46304039 CAGAAGCAGT
* *
46304049 ATACCACACATAAAGTGCCTGA
1 ATACGACACATATAGTGCCTGA
** *
46304071 A-ACGACACACGTGGTGCCT-A
1 ATACGACACATATAGTGCCTGA
46304091 ATACGACACATATAGTGC
1 ATACGACACATATAGTGC
46304109 ATGATCGGCA
Statistics
Matches: 29, Mismatches: 8, Indels: 3
0.73 0.20 0.08
Matches are distributed among these distances:
20 2 0.07
21 26 0.90
22 1 0.03
ACGTcount: A:0.37, C:0.27, G:0.18, T:0.18
Consensus pattern (22 bp):
ATACGACACATATAGTGCCTGA
Found at i:46304590 original size:17 final size:18
Alignment explanation
Indices: 46304558--46304591 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
46304548 AATTTCTTTT
46304558 CAATTTATACCCTAATTC
1 CAATTTATACCCTAATTC
*
46304576 CAATTTA-ATCCTAATT
1 CAATTTATACCCTAATT
46304592 AACTCATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.35, C:0.24, G:0.00, T:0.41
Consensus pattern (18 bp):
CAATTTATACCCTAATTC
Found at i:46305222 original size:30 final size:32
Alignment explanation
Indices: 46305188--46305257 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 32
46305178 TGTCATGTTT
*
46305188 TAATATAAATATCT-TTTTCTT-AATAATAAA
1 TAATATAAATATCTATTTACTTAAATAATAAA
*
46305218 T-A-ATAAATATCTATTTACTTAAATAATAAG
1 TAATATAAATATCTATTTACTTAAATAATAAA
*
46305248 TAATTTAAAT
1 TAATATAAAT
46305258 CCATGAATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
28 10 0.30
29 7 0.21
30 10 0.30
31 1 0.03
32 5 0.15
ACGTcount: A:0.49, C:0.06, G:0.01, T:0.44
Consensus pattern (32 bp):
TAATATAAATATCTATTTACTTAAATAATAAA
Found at i:46311389 original size:2 final size:2
Alignment explanation
Indices: 46311382--46311410 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
46311372 TACTTTAATC
46311382 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
46311411 AATACAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:46316681 original size:3 final size:3
Alignment explanation
Indices: 46316673--46316750 Score: 156
Period size: 3 Copynumber: 26.0 Consensus size: 3
46316663 TATTCTCCTA
46316673 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
46316721 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
46316751 ATAATCTATA
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 75 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:46318238 original size:26 final size:26
Alignment explanation
Indices: 46318209--46318270 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
46318199 CATCATCTTC
46318209 TTCTTCAGAGCAACTGAAGAAGACGA
1 TTCTTCAGAGCAACTGAAGAAGACGA
*
46318235 TTCTTCAGAGGAACTGAAGAAGACGA
1 TTCTTCAGAGCAACTGAAGAAGACGA
*
46318261 TGCTTCAGAG
1 TTCTTCAGAG
46318271 AAAAAAATTG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.35, C:0.18, G:0.26, T:0.21
Consensus pattern (26 bp):
TTCTTCAGAGCAACTGAAGAAGACGA
Found at i:46319155 original size:10 final size:10
Alignment explanation
Indices: 46319140--46319235 Score: 76
Period size: 10 Copynumber: 9.7 Consensus size: 10
46319130 TTTGTTAAAT
46319140 TTAAAAATTA
1 TTAAAAATTA
46319150 TTAAAAA-TA
1 TTAAAAATTA
46319159 -TAAAAATTTA
1 TTAAAAA-TTA
46319169 TTTAAAAATTA
1 -TTAAAAATTA
*
46319180 TTAAGAATTA
1 TTAAAAATTA
46319190 -TAAGAAATTA
1 TTAA-AAATTA
* * *
46319200 TAAAAAAGTG
1 TTAAAAATTA
46319210 TGT--AAATTA
1 T-TAAAAATTA
46319219 TTAAAAATTA
1 TTAAAAATTA
*
46319229 ATAAAAA
1 TTAAAAA
46319236 AATTTAAAAT
Statistics
Matches: 68, Mismatches: 9, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
8 7 0.10
9 10 0.15
10 40 0.59
11 5 0.07
12 6 0.09
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.35
Consensus pattern (10 bp):
TTAAAAATTA
Found at i:46319173 original size:30 final size:32
Alignment explanation
Indices: 46319138--46319198 Score: 99
Period size: 30 Copynumber: 2.0 Consensus size: 32
46319128 TTTTTGTTAA
46319138 ATTTAAAAATTATTAA-AAATATAA-AAATTT
1 ATTTAAAAATTATTAAGAAATATAAGAAATTT
*
46319168 ATTTAAAAATTATTAAGAATTATAAGAAATT
1 ATTTAAAAATTATTAAGAAATATAAGAAATT
46319199 ATAAAAAAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 16 0.57
31 7 0.25
32 5 0.18
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.39
Consensus pattern (32 bp):
ATTTAAAAATTATTAAGAAATATAAGAAATTT
Found at i:46319245 original size:29 final size:29
Alignment explanation
Indices: 46319180--46319247 Score: 70
Period size: 29 Copynumber: 2.3 Consensus size: 29
46319170 TTAAAAATTA
*
46319180 TTAAGAATTATAAGAAATTATAAAAAAGTG
1 TTAA-AATTATAAGAAATTATAAAAAAATG
46319210 TGT-AAATTATTAA-AAATTAATAAAAAAAT-
1 T-TAAAATTA-TAAGAAATT-ATAAAAAAATG
46319239 TTAAAATTA
1 TTAAAATTA
46319248 CAATAACATT
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
28 1 0.03
29 17 0.52
30 14 0.42
31 1 0.03
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (29 bp):
TTAAAATTATAAGAAATTATAAAAAAATG
Found at i:46320935 original size:2 final size:2
Alignment explanation
Indices: 46320928--46320963 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
46320918 TAATGTATTA
46320928 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
46320964 GAAAATTAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:46337447 original size:17 final size:16
Alignment explanation
Indices: 46337389--46337449 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 16
46337379 ATGTTTATTT
*
46337389 TTTAATTTAACTCGAA
1 TTTAATTTCACTCGAA
*
46337405 --CAATTTCACTCG-A
1 TTTAATTTCACTCGAA
46337418 TTTAA-TTCGACTCGAA
1 TTTAATTTC-ACTCGAA
46337434 TTTTAATTTCACTCGA
1 -TTTAATTTCACTCGA
46337450 CTCGATTCAA
Statistics
Matches: 36, Mismatches: 3, Indels: 11
0.72 0.06 0.22
Matches are distributed among these distances:
13 1 0.03
14 13 0.36
15 7 0.19
16 1 0.03
17 11 0.31
18 3 0.08
ACGTcount: A:0.31, C:0.20, G:0.08, T:0.41
Consensus pattern (16 bp):
TTTAATTTCACTCGAA
Found at i:46341488 original size:15 final size:15
Alignment explanation
Indices: 46341468--46341497 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
46341458 TCTTTAGGCA
*
46341468 CGCATTTCATGCATT
1 CGCATTACATGCATT
46341483 CGCATTACATGCATT
1 CGCATTACATGCATT
46341498 AAAGTCCATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.27, G:0.13, T:0.37
Consensus pattern (15 bp):
CGCATTACATGCATT
Found at i:46344411 original size:23 final size:23
Alignment explanation
Indices: 46344385--46344459 Score: 114
Period size: 23 Copynumber: 3.3 Consensus size: 23
46344375 GTGTTATTGA
46344385 TCAGTGGTAGCTTCGGCTACGTT
1 TCAGTGGTAGCTTCGGCTACGTT
46344408 TCAGTGGTAGCTTCGGCTACGTT
1 TCAGTGGTAGCTTCGGCTACGTT
* * * *
46344431 ACAGTGGTAGCTTTGGCTACATA
1 TCAGTGGTAGCTTCGGCTACGTT
46344454 TCAGTG
1 TCAGTG
46344460 TTGCACTTAT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.17, C:0.20, G:0.29, T:0.33
Consensus pattern (23 bp):
TCAGTGGTAGCTTCGGCTACGTT
Found at i:46349156 original size:87 final size:87
Alignment explanation
Indices: 46348886--46349270 Score: 578
Period size: 87 Copynumber: 4.4 Consensus size: 87
46348876 AGATCAGTGA
* * * *
46348886 AGATCAGAAAAC-AAAGCCTTGCCTCAATCGGTTGTAGTGGAGCTGGTTAAATATAGCGGATCTT
1 AGATC-GAAAACGAAA-CCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAACAGATCTT
*
46348950 GCATTCCTGCATTAACAGCGAAGC
64 GCCTTCCTGCATTAACAGCGAAGC
* *
46348974 AGATCGAAAAC-AAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGCTAAAGA-AACAGATCTTG
1 AGATCGAAAACGAAA-CCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAACAGATCTTG
*
46349037 TCTTCCTGCATTAACAGCGAAGC
65 CCTTCCTGCATTAACAGCGAAGC
46349060 AGATCGAAAACGAAACCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAACAGATCTTGC
1 AGATCGAAAACGAAACCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAACAGATCTTGC
* *
46349125 CTTCCTACATTAACAGCGAAGT
66 CTTCCTGCATTAACAGCGAAGC
* *
46349147 AGATCGAAAACGAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACGAAACCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAACAGATCTTGC
*
46349212 CTTCCTGCGTTAACAGCGAAGC
66 CTTCCTGCATTAACAGCGAAGC
* * *
46349234 AGATAGAAAACGAAGCCTTGCCTCCATCGGTTATAGT
1 AGATCGAAAACGAAACCTTGCCTCCATCGGTTGTAGT
46349271 AGCAGATTTT
Statistics
Matches: 275, Mismatches: 20, Indels: 5
0.92 0.07 0.02
Matches are distributed among these distances:
86 76 0.28
87 194 0.71
88 5 0.02
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (87 bp):
AGATCGAAAACGAAACCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAACAGATCTTGC
CTTCCTGCATTAACAGCGAAGC
Found at i:46349191 original size:173 final size:174
Alignment explanation
Indices: 46348886--46349270 Score: 594
Period size: 173 Copynumber: 2.2 Consensus size: 174
46348876 AGATCAGTGA
* * * *
46348886 AGATCAGAAAAC-AAAGCCTTGCCTCAATCGGTTGTAGTGGAGCTGGTTAAATATAGCGGATCTT
1 AGATC-GAAAACGAAA-CCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAACAGATCTT
*
46348950 GCATTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAG
64 GCATTCCTACATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAG
*
46349015 CTGGCTAAAGA-AACAGATCTTGTCTTCCTGCATTAACAGCGAAGC
129 CTGGCTAAAGATAACAGATCTTGCCTTCCTGCATTAACAGCGAAGC
46349060 AGATCGAAAACGAAACCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAACAGATCTTGC
1 AGATCGAAAACGAAACCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAACAGATCTTGC
* * * *
46349125 CTTCCTACATTAACAGCGAAGTAGATCGAAAACGAAGCCTTGCCTCCATCGGTTGTAGTGGAGCT
66 ATTCCTACATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCT
* * *
46349190 GGTTAAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGC
131 GGCTAAAGATAACAGATCTTGCCTTCCTGCATTAACAGCGAAGC
* * *
46349234 AGATAGAAAACGAAGCCTTGCCTCCATCGGTTATAGT
1 AGATCGAAAACGAAACCTTGCCTCCATCGGTTGTAGT
46349271 AGCAGATTTT
Statistics
Matches: 193, Mismatches: 16, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
173 120 0.62
174 73 0.38
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (174 bp):
AGATCGAAAACGAAACCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAACAGATCTTGC
ATTCCTACATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCT
GGCTAAAGATAACAGATCTTGCCTTCCTGCATTAACAGCGAAGC
Found at i:46349423 original size:44 final size:43
Alignment explanation
Indices: 46349297--46349433 Score: 147
Period size: 40 Copynumber: 3.2 Consensus size: 43
46349287 CAGCATTAAC
* *
46349297 AGTGGAGCAGAAGAAAAAAAACCAGATCTTATCTCCCTAGGCAGT
1 AGTGGAGCAGACG--AAAAAACCAGATCTTATCTCCCTAAGCAGT
* * * *
46349342 AGTGGAGCAGATC---ACATCAAG-TCTTATCTCCCCAAGCAGT
1 AGTGGAGCAGA-CGAAAAAACCAGATCTTATCTCCCTAAGCAGT
*
46349382 AGTGGAGCAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAAT
1 AGTGGAGCAGACGAAA-AAACCAGATCTTATCTCCCTAAGCAGT
46349426 AGTGGAGC
1 AGTGGAGC
46349434 GGATCGAAGA
Statistics
Matches: 75, Mismatches: 11, Indels: 13
0.76 0.11 0.13
Matches are distributed among these distances:
39 1 0.01
40 28 0.37
41 5 0.07
42 1 0.01
43 4 0.05
44 25 0.33
45 11 0.15
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.19
Consensus pattern (43 bp):
AGTGGAGCAGACGAAAAAACCAGATCTTATCTCCCTAAGCAGT
Found at i:46349505 original size:87 final size:87
Alignment explanation
Indices: 46349410--46349837 Score: 730
Period size: 87 Copynumber: 4.9 Consensus size: 87
46349400 AACCAGATCT
46349410 TATCTCCCTAAGCAATAGTGGAGCGGATCGAAGACGGCGAATCTCATCTTCCCCAGGAGTAGGGA
1 TATCTCCCTAAGCAATAGTGGAGCGGATCGAAGACGGCGAATCTCATCTTCCCCAGGAGTAGGGA
46349475 AACAGATTTAAGCCATTAATCC
66 AACAGATTTAAGCCATTAATCC
* ** *
46349497 TATCTCCCTAAGCAATAGTGAAGCGGATCGAAGACGGAAAATCTCATCTTCCCCAAGAGTAGGGA
1 TATCTCCCTAAGCAATAGTGGAGCGGATCGAAGACGGCGAATCTCATCTTCCCCAGGAGTAGGGA
46349562 AACAGATTTAAGCCATTAATCC
66 AACAGATTTAAGCCATTAATCC
* * * * * *
46349584 TATCTCCCTAAGTAATAGTGGAGTGGATCGAAGATGGTGAATCCCATCTTCCCCAGAAGTAGGGA
1 TATCTCCCTAAGCAATAGTGGAGCGGATCGAAGACGGCGAATCTCATCTTCCCCAGGAGTAGGGA
46349649 AACAGATTTAAGCCATTAATCC
66 AACAGATTTAAGCCATTAATCC
*
46349671 TATCTCCCTAAGCAATAGTGGAGCGGATCGAAGACGGCGAATCTCATCTTCCCTAGGAGTAGGGA
1 TATCTCCCTAAGCAATAGTGGAGCGGATCGAAGACGGCGAATCTCATCTTCCCCAGGAGTAGGGA
46349736 AACAGATTTAAGCCATTAATCC
66 AACAGATTTAAGCCATTAATCC
* *
46349758 TATCTCCCTAAGCAATAGTGGAGCGGATCGAAGATGGCGAATCTCATCTTCCCCAAGAGTAGGGA
1 TATCTCCCTAAGCAATAGTGGAGCGGATCGAAGACGGCGAATCTCATCTTCCCCAGGAGTAGGGA
*
46349823 AACAGATTCAAGCCA
66 AACAGATTTAAGCCA
46349838 CAAATACTAC
Statistics
Matches: 317, Mismatches: 24, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 317 1.00
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.22
Consensus pattern (87 bp):
TATCTCCCTAAGCAATAGTGGAGCGGATCGAAGACGGCGAATCTCATCTTCCCCAGGAGTAGGGA
AACAGATTTAAGCCATTAATCC
Found at i:46359642 original size:2 final size:2
Alignment explanation
Indices: 46359635--46359661 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
46359625 GACTTTGTCT
46359635 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
46359662 TAGTATCTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:46360143 original size:16 final size:16
Alignment explanation
Indices: 46360124--46360162 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
46360114 GCTGAGTTCT
* *
46360124 TTTCTTTTGTTTTTTC
1 TTTCTTTCGTTTTTGC
*
46360140 TTTCATTCGTTTTTGC
1 TTTCTTTCGTTTTTGC
46360156 TTTCTTT
1 TTTCTTT
46360163 GCTACTGCCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.03, C:0.15, G:0.08, T:0.74
Consensus pattern (16 bp):
TTTCTTTCGTTTTTGC
Found at i:46365727 original size:15 final size:17
Alignment explanation
Indices: 46365684--46365727 Score: 58
Period size: 15 Copynumber: 2.7 Consensus size: 17
46365674 TTGAATCGAG
46365684 TCGAGTGAAATTAAAAT
1 TCGAGTGAAATTAAAAT
46365701 TCGAGTCG-AATT-AAA-
1 TCGAGT-GAAATTAAAAT
46365716 TCGAGTGAAATT
1 TCGAGTGAAATT
46365728 GTTCGAGTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 1 0.04
15 10 0.40
16 3 0.12
17 10 0.40
18 1 0.04
ACGTcount: A:0.41, C:0.09, G:0.20, T:0.30
Consensus pattern (17 bp):
TCGAGTGAAATTAAAAT
Found at i:46378212 original size:26 final size:25
Alignment explanation
Indices: 46378163--46378212 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
46378153 GTTTATAAAT
*
46378163 TTTCTTTGAGTTTTCTTTTTAAGAA
1 TTTCTTTGAGTTTTCTTTTGAAGAA
46378188 TTTCTCTTGAG-TTTCTTTTAGAAGA
1 TTTCT-TTGAGTTTTCTTTT-GAAGA
46378213 GTTTTAACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.20, C:0.10, G:0.14, T:0.56
Consensus pattern (25 bp):
TTTCTTTGAGTTTTCTTTTGAAGAA
Found at i:46378811 original size:50 final size:51
Alignment explanation
Indices: 46378683--46378819 Score: 163
Period size: 51 Copynumber: 2.7 Consensus size: 51
46378673 CAAAACACCA
* * * * * *
46378683 TTTGTGGACAAGTCACCACTGATTTGCAGATAAACTGCCACTGATAACACT
1 TTTGTGGACAAGCCACCACTAATTTGCAGATATATTACCACTAATAACACT
46378734 TTTGTGGACAAGCCACCACTGAA-TTGCAGATATATTACCACTAATATA-A-T
1 TTTGTGGACAAGCCACCACT-AATTTGCAGATATATTACCACTAATA-ACACT
* *
46378784 TTTGTGGACATGCCACCACTAATTTGCAGGTATATT
1 TTTGTGGACAAGCCACCACTAATTTGCAGATATATT
46378820 GCCATTGCTT
Statistics
Matches: 75, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
49 2 0.03
50 32 0.43
51 39 0.52
52 2 0.03
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (51 bp):
TTTGTGGACAAGCCACCACTAATTTGCAGATATATTACCACTAATAACACT
Found at i:46381375 original size:20 final size:20
Alignment explanation
Indices: 46381350--46381389 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
46381340 CCGAGCACAC
* *
46381350 TTTTTCATTGGAAATGACTA
1 TTTTTCATTAGAAACGACTA
46381370 TTTTTCATTAGAAACGACTA
1 TTTTTCATTAGAAACGACTA
46381390 ACCTCAGCCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (20 bp):
TTTTTCATTAGAAACGACTA
Found at i:46382085 original size:14 final size:15
Alignment explanation
Indices: 46382061--46382089 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
46382051 TTTTTCTGTG
46382061 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
46382076 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
46382090 AGTTTCGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:46382308 original size:15 final size:14
Alignment explanation
Indices: 46382284--46382337 Score: 56
Period size: 14 Copynumber: 3.8 Consensus size: 14
46382274 AGTTTTTATA
*
46382284 ATAATTATAAAGGTT
1 ATAATAATAAA-GTT
*
46382299 ATAATAATAAA-TA
1 ATAATAATAAAGTT
*
46382312 ATATATTATAAAGTT
1 ATA-ATAATAAAGTT
46382327 ATAATAATAAA
1 ATAATAATAAA
46382338 AACAAACATA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
13 4 0.12
14 14 0.44
15 14 0.44
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (14 bp):
ATAATAATAAAGTT
Found at i:46382327 original size:28 final size:28
Alignment explanation
Indices: 46382281--46382337 Score: 98
Period size: 28 Copynumber: 2.0 Consensus size: 28
46382271 TATAGTTTTT
46382281 ATAATAATTATAAAGGTTATAATAATAA
1 ATAATAATTATAAAGGTTATAATAATAA
46382309 ATAATATATTATAAA-GTTATAATAATAA
1 ATAATA-ATTATAAAGGTTATAATAATAA
46382337 A
1 A
46382338 AACAAACATA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 20 0.71
29 8 0.29
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (28 bp):
ATAATAATTATAAAGGTTATAATAATAA
Found at i:46384216 original size:15 final size:15
Alignment explanation
Indices: 46384196--46384226 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
46384186 GCTAAGTGCC
46384196 GGTGATCTGAATCAG
1 GGTGATCTGAATCAG
46384211 GGTGATCTGAATCAG
1 GGTGATCTGAATCAG
46384226 G
1 G
46384227 TTATAAACCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.13, G:0.35, T:0.26
Consensus pattern (15 bp):
GGTGATCTGAATCAG
Found at i:46384224 original size:56 final size:56
Alignment explanation
Indices: 46384155--46384267 Score: 217
Period size: 56 Copynumber: 2.0 Consensus size: 56
46384145 GCTAAGTGTC
46384155 GGTGATCTAAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAATCAG
1 GGTGATCTAAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAATCAG
*
46384211 GGTGATCTGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAATCAG
1 GGTGATCTAAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAATCAG
46384267 G
1 G
46384268 CTATAAGCCT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (56 bp):
GGTGATCTAAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAATCAG
Found at i:46384273 original size:41 final size:41
Alignment explanation
Indices: 46384211--46384297 Score: 147
Period size: 41 Copynumber: 2.1 Consensus size: 41
46384201 TCTGAATCAG
*
46384211 GGTGATCTGAATCAGGTTATAAACCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
* *
46384252 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCT
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
46384293 GGTGA
1 GGTGA
46384298 ATATGTTAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (41 bp):
GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
Found at i:46387068 original size:19 final size:21
Alignment explanation
Indices: 46387044--46387082 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
46387034 AAAAATAAGA
46387044 AAACTC-AAAGAGAA-TTTAT
1 AAACTCAAAAGAGAAGTTTAT
46387063 AAACTCAAAAGAGAAGTTTA
1 AAACTCAAAAGAGAAGTTTA
46387083 ATAATCATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
20 8 0.44
21 4 0.22
ACGTcount: A:0.54, C:0.10, G:0.13, T:0.23
Consensus pattern (21 bp):
AAACTCAAAAGAGAAGTTTAT
Found at i:46388785 original size:5 final size:5
Alignment explanation
Indices: 46388775--46388799 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
46388765 TATGAATATT
46388775 CAATA CAATA CAATA CAATA CAATA
1 CAATA CAATA CAATA CAATA CAATA
46388800 ATATATCTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.20, G:0.00, T:0.20
Consensus pattern (5 bp):
CAATA
Found at i:46390495 original size:17 final size:17
Alignment explanation
Indices: 46390473--46390517 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
46390463 GAATATTTTT
46390473 TATTTTTTTATTTTTC-A
1 TATTTTTTT-TTTTTCGA
*
46390490 TATTTTCTTTTTTTCGA
1 TATTTTTTTTTTTTCGA
46390507 TAATTTTTTTT
1 T-ATTTTTTTT
46390518 GTCAAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 6 0.25
17 10 0.42
18 8 0.33
ACGTcount: A:0.16, C:0.07, G:0.02, T:0.76
Consensus pattern (17 bp):
TATTTTTTTTTTTTCGA
Found at i:46393733 original size:46 final size:44
Alignment explanation
Indices: 46393626--46393987 Score: 364
Period size: 46 Copynumber: 8.6 Consensus size: 44
46393616 TACGTATGAT
*
46393626 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCTAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTA-GCTAC
46393669 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-A-GCTAC
* * *
46393715 CACTTATCATTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-A-GCTAC
*
46393761 CACTTATTACTTTGTCACTTGATCAGATAA--GTA--TAG----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGCTAC
*
46393797 CACTTATCACTTTTTCACTTGATCAGATAA--GTA--TAG----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGCTAC
*
46393833 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT--AGCTAC
*
46393879 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-TAG----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGCTAC
46393915 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT--AGCTAC
*
46393961 CACTTATCACTTTATCTA-TTGATCAGA
1 CACTTATCACTTTGTC-ACTTGATCAGA
46393988 AGTACTCAAA
Statistics
Matches: 282, Mismatches: 13, Indels: 45
0.83 0.04 0.13
Matches are distributed among these distances:
36 93 0.33
38 5 0.02
39 1 0.00
40 5 0.02
41 1 0.00
42 6 0.02
43 11 0.04
44 10 0.04
45 20 0.07
46 129 0.46
47 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (44 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGCTAC
Found at i:46393809 original size:36 final size:36
Alignment explanation
Indices: 46393761--46393951 Score: 238
Period size: 36 Copynumber: 5.0 Consensus size: 36
46393751 CTAAGGCTAA
*
46393761 CACTTATTACTTTGTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
*
46393797 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
*
46393833 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAG
1 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--T--AG
* *
46393875 CTACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
1 ----CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
*
46393915 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
46393951 C
1 C
46393952 TAAAGCTACC
Statistics
Matches: 139, Mismatches: 6, Indels: 20
0.84 0.04 0.12
Matches are distributed among these distances:
36 100 0.72
38 3 0.02
40 3 0.02
42 3 0.02
44 2 0.01
46 28 0.20
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
Found at i:46393883 original size:82 final size:82
Alignment explanation
Indices: 46393669--46393987 Score: 383
Period size: 82 Copynumber: 3.9 Consensus size: 82
46393659 GCTAGGCTAC
*
46393669 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTACCACTTATCA-TTTTCTCAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTT-TCAC
46393733 TTGATCAGATAAGTGTAGCTAAGG
65 TTGATCAGATAA--GTA--T-A-G
*
46393757 CTAACACTTATTACTTTGTCACTTGATCAGATAA--GTA--T--AG----CACTTATCACTTTTT
1 ----CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTTT
46393812 CACTTGATCAGATAAGTATAG
62 CACTTGATCAGATAAGTATAG
* * *
46393833 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTTTCACT
*
46393898 TGATCAGATAAGTGTAG
66 TGATCAGATAAGTATAG
*
46393915 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTA-
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTTTC-AC
46393979 TTGATCAGA
65 TTGATCAGA
46393988 AGTACTCAAA
Statistics
Matches: 205, Mismatches: 10, Indels: 34
0.82 0.04 0.14
Matches are distributed among these distances:
72 28 0.14
74 3 0.01
76 2 0.01
77 1 0.00
78 3 0.01
80 3 0.01
82 127 0.62
83 4 0.02
86 1 0.00
88 1 0.00
90 3 0.01
92 29 0.14
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.36
Consensus pattern (82 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTTTCACT
TGATCAGATAAGTATAG
Found at i:46393923 original size:118 final size:118
Alignment explanation
Indices: 46393715--46393951 Score: 395
Period size: 118 Copynumber: 2.0 Consensus size: 118
46393705 CTAAGGCTAC
* *
46393715 CACTTATCATTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAACACTTATTACTTTGTCACT
1 CACTTATCATTTTCTCACTTGATCAGATAAGTGTAGCTAAAGCTAACACTTATCACTTTGTCACT
*
46393780 TGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATAAGTATAG
66 TGATCAGATAAGTATAGCACTTATCACTTTGTCACTTGATCAGATAAGTATAG
* *
46393833 CACTTATCACTTTT-TCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTC
1 CACTTATCA-TTTTCTCACTTGATCAGATAAGTGTAGCTAAAGCTAACACTTATCACTTTGTCAC
* *
46393897 TTGATCAGATAAGTGTAGCACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
65 TTGATCAGATAAGTATAGCACTTATCACTTTGTCACTTGATCAGATAAGTATAG
46393951 C
1 C
46393952 TAAAGCTACC
Statistics
Matches: 111, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
118 107 0.96
119 4 0.04
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (118 bp):
CACTTATCATTTTCTCACTTGATCAGATAAGTGTAGCTAAAGCTAACACTTATCACTTTGTCACT
TGATCAGATAAGTATAGCACTTATCACTTTGTCACTTGATCAGATAAGTATAG
Found at i:46401762 original size:8 final size:8
Alignment explanation
Indices: 46401751--46401786 Score: 56
Period size: 8 Copynumber: 4.5 Consensus size: 8
46401741 AATAAAAAAA
46401751 TATTATTT
1 TATTATTT
46401759 TATT-TTT
1 TATTATTT
46401766 TATATATTT
1 TAT-TATTT
46401775 TATTATTT
1 TATTATTT
46401783 TATT
1 TATT
46401787 TAATGTATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 6 0.23
8 14 0.54
9 6 0.23
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (8 bp):
TATTATTT
Found at i:46404620 original size:17 final size:16
Alignment explanation
Indices: 46404575--46404625 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 16
46404565 GCAATTAATT
46404575 TTTTTAAAATATATTTA
1 TTTTTAAAATA-ATTTA
*
46404592 TACTTTTTAAATAATTCTA
1 T--TTTTAAAATAATT-TA
46404611 TTTTTAAAATAATTT
1 TTTTTAAAATAATTT
46404626 TTTGAATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
16 1 0.03
17 13 0.45
18 3 0.10
19 12 0.41
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (16 bp):
TTTTTAAAATAATTTA
Found at i:46405805 original size:18 final size:18
Alignment explanation
Indices: 46405767--46405802 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
46405757 TTATTATTTT
*
46405767 TAAAATTTACTATTAAAA
1 TAAAATTTAATATTAAAA
46405785 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
46405803 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:46405994 original size:27 final size:25
Alignment explanation
Indices: 46405939--46405994 Score: 58
Period size: 27 Copynumber: 2.2 Consensus size: 25
46405929 AATTTTAAAT
*
46405939 ATTTTTAAAAATAAAAATAAAATTT
1 ATTTTTAAAAATAAAAATAAAATTG
* * *
46405964 ATTTTTAATATAATAATATTAAACTTG
1 ATTTTTAA-A-AATAAAAATAAAATTG
46405991 ATTT
1 ATTT
46405995 AAGTTAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 8 0.32
26 1 0.04
27 16 0.64
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (25 bp):
ATTTTTAAAAATAAAAATAAAATTG
Found at i:46418626 original size:21 final size:20
Alignment explanation
Indices: 46418602--46418641 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
46418592 AAATTATGGG
46418602 AAAAAAATATAAAATTTATAA
1 AAAAAAATAT-AAATTTATAA
* *
46418623 AAAAAGATATATATTTATA
1 AAAAAAATATAAATTTATA
46418642 TATGATACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (20 bp):
AAAAAAATATAAATTTATAA
Found at i:46418768 original size:24 final size:22
Alignment explanation
Indices: 46418725--46418783 Score: 55
Period size: 24 Copynumber: 2.6 Consensus size: 22
46418715 ATATACGTAC
* *
46418725 ATATATATATATAAGTTAATAA
1 ATATATAGATATAAGATAATAA
*
46418747 ATATATAGATCATAAAGATAATGA
1 ATATATAGAT-AT-AAGATAATAA
* *
46418771 TTATATATATATA
1 ATATATAGATATA
46418784 GAAATTATAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
22 10 0.33
23 4 0.13
24 16 0.53
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.39
Consensus pattern (22 bp):
ATATATAGATATAAGATAATAA
Found at i:46418805 original size:104 final size:102
Alignment explanation
Indices: 46418669--46418989 Score: 448
Period size: 104 Copynumber: 3.1 Consensus size: 102
46418659 AATAAAGAAA
* * * *
46418669 ATATACATATAGAAATTATAAAATGTGGATAGAAAGTATAATACATATATACGTACATATATATA
1 ATATATATATAGAAATTATAAAATATGTATAGAAAGTATAATATATATATACGTAC--ATATATA
* *
46418734 TATAAGTTAATAAATATATAGATCATAAAGATAATGATT
64 TATAAGGTAATAAATATATAAATCATAAAGATAATGATT
* *
46418773 ATATATATATAGAAATTATAAAATATGTATAGAAAGCATTATATATATATACGTAC--ATATATA
1 ATATATATATAGAAATTATAAAATATGTATAGAAAGTATAATATATATATACGTACATATATATA
*
46418836 TAAGGTAATAAATATGTAAATCATAAAGATAATGATTATAT
66 TAAGGTAATAAATATATAAATCATAAAGATAATG---AT-T
46418877 ATATATATATAGAAATTATAAAATATGTATAGAAAGTATAATATATATATATACGTACATATATA
1 ATATATATATAGAAATTATAAAATATGTATAGAAAGTAT-A-ATATATATATACGTACATATATA
* *
46418942 TATAAGGTAATAAATATATAAATCATAAAAATAATAATT
64 TATAAGGTAATAAATATATAAATCATAAAGATAATGATT
*
46418981 ACATATATA
1 ATATATATA
46418990 AACTTAAAAA
Statistics
Matches: 194, Mismatches: 15, Indels: 16
0.86 0.07 0.07
Matches are distributed among these distances:
100 38 0.20
103 2 0.01
104 98 0.51
105 2 0.01
106 16 0.08
108 38 0.20
ACGTcount: A:0.52, C:0.04, G:0.09, T:0.35
Consensus pattern (102 bp):
ATATATATATAGAAATTATAAAATATGTATAGAAAGTATAATATATATATACGTACATATATATA
TAAGGTAATAAATATATAAATCATAAAGATAATGATT
Found at i:46418818 original size:20 final size:20
Alignment explanation
Indices: 46418770--46418823 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
46418760 AAAGATAATG
**
46418770 ATTATATATATATAGAAATT
1 ATTATATATATATAGAAAGC
* * *
46418790 ATAAAATATGTATAGAAAGC
1 ATTATATATATATAGAAAGC
46418810 ATTATATATATATA
1 ATTATATATATATA
46418824 CGTACATATA
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.39
Consensus pattern (20 bp):
ATTATATATATATAGAAAGC
Found at i:46418878 original size:56 final size:55
Alignment explanation
Indices: 46418816--46418987 Score: 162
Period size: 56 Copynumber: 3.1 Consensus size: 55
46418806 AAGCATTATA
46418816 TATATATACGTACATATATATAAGGTAATAAATATGTAAATCATAAAGATAATGAT
1 TATATATACGTACATATATATAAGGTAATAAATATGTAAATCATAAAGATAAT-AT
* * * *
46418872 TATATATA--T--ATATATAGAA-ATTATAAAATATGT--AT-AGAAAGTATAATAT
1 TATATATACGTACATATATATAAGGTAAT-AAATATGTAAATCATAAAG-ATAATAT
* *
46418921 ATATATATACGTACATATATATATAAGGTAATAAATATATAAATCATAAAAATAATAAT
1 -TATATATACGTAC--ATATATATAAGGTAATAAATATGTAAATCATAAAGATAAT-AT
*
46418980 TACATATA
1 TATATATA
46418988 TAAACTTAAA
Statistics
Matches: 91, Mismatches: 11, Indels: 26
0.71 0.09 0.20
Matches are distributed among these distances:
49 7 0.08
50 15 0.16
51 3 0.03
52 18 0.20
54 1 0.01
56 24 0.26
57 3 0.03
58 14 0.15
59 6 0.07
ACGTcount: A:0.53, C:0.04, G:0.08, T:0.35
Consensus pattern (55 bp):
TATATATACGTACATATATATAAGGTAATAAATATGTAAATCATAAAGATAATAT
Found at i:46418907 original size:20 final size:20
Alignment explanation
Indices: 46418879--46418927 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
46418869 GATTATATAT
*
46418879 ATATATATAGAAATTATAAA
1 ATATATATAGAAAGTATAAA
* *
46418899 ATATGTATAGAAAGTATAAT
1 ATATATATAGAAAGTATAAA
46418919 ATATATATA
1 ATATATATA
46418928 TACGTACATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.37
Consensus pattern (20 bp):
ATATATATAGAAAGTATAAA
Found at i:46418958 original size:16 final size:16
Alignment explanation
Indices: 46418915--46418962 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
46418905 ATAGAAAGTA
46418915 TAATATATATATATACG
1 TAATATATATATA-ACG
*
46418932 TACATATATATATAAGG
1 TA-ATATATATATAACG
*
46418949 TAATAAATATATAA
1 TAATATATATATAA
46418963 ATCATAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 11 0.39
17 6 0.21
18 11 0.39
ACGTcount: A:0.52, C:0.04, G:0.06, T:0.38
Consensus pattern (16 bp):
TAATATATATATAACG
Found at i:46418989 original size:48 final size:48
Alignment explanation
Indices: 46418725--46418885 Score: 141
Period size: 48 Copynumber: 3.3 Consensus size: 48
46418715 ATATACGTAC
* *
46418725 ATATATATATATAAGTTAATAAATATATAGATCATAAAGATAATGATT
1 ATATATATATATAAGATAATAAATATATAAATCATAAAGATAATGATT
* * ** *
46418773 ATATATATATAGAA-ATTATAAA-ATATGTAT-AGAAAGCATTATAT-ATAT
1 ATATATATATATAAGATAATAAATATATAAATCATAAAG-A-TA-ATGAT-T
* *
46418821 ATACGTACATATATATAAGGTAATAAATATGTAAATCATAAAGATAATGATT
1 ATA--T--ATATATATAAGATAATAAATATATAAATCATAAAGATAATGATT
46418873 ATATATATATATA
1 ATATATATATATA
46418886 TAGAAATTAT
Statistics
Matches: 88, Mismatches: 13, Indels: 24
0.70 0.10 0.19
Matches are distributed among these distances:
45 5 0.06
46 7 0.08
47 10 0.11
48 28 0.32
50 2 0.02
52 15 0.17
53 10 0.11
54 6 0.07
55 5 0.06
ACGTcount: A:0.52, C:0.03, G:0.09, T:0.37
Consensus pattern (48 bp):
ATATATATATATAAGATAATAAATATATAAATCATAAAGATAATGATT
Found at i:46419535 original size:3 final size:3
Alignment explanation
Indices: 46419527--46419568 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
46419517 CCAAGGAGAA
*
46419527 AAT AAT AAT AAA AAT AAT AAT AAT AAT AAT AA- AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
46419569 AAAAATAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 4 0.11
3 31 0.89
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:46419542 original size:12 final size:11
Alignment explanation
Indices: 46419525--46419576 Score: 61
Period size: 12 Copynumber: 4.6 Consensus size: 11
46419515 TGCCAAGGAG
46419525 AAAATAATAATA
1 AAAATAATAA-A
46419537 AAAATAATAATA
1 AAAATAATAA-A
*
46419549 ATAATAATAAA
1 AAAATAATAAA
*
46419560 ATAA-AATAAA
1 AAAATAATAAA
46419570 AAAATAA
1 AAAATAA
46419577 AAGAACACAG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
10 9 0.24
11 7 0.19
12 21 0.57
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (11 bp):
AAAATAATAAA
Done.