Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 ID=Chr07-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: 60982465
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 868082 characters in sequence are not A, C, G, or T
File 112 of 204
Found at i:34155644 original size:174 final size:174
Alignment explanation
Indices: 34155355--34155866 Score: 832
Period size: 174 Copynumber: 2.9 Consensus size: 174
34155345 ATACATAAAT
34155355 TACATAACTTACATTAATATTATACATAAATTACATAACTTAGTTAATTAATATTATACATAACT
1 TACATAACTTACATTAATATTATACATAAATTACATAACTTAGTTAATTAATATTATACATAACT
*
34155420 TACATTAATATTATACATAAATTACATAACTTAATTAGTTAATTTACATAAATTACATAACATAA
66 TACATTAATATTATACATAAATTACATAACTTAATTAGTTAATATACATAAATTACATAACATAA
34155485 TTAGTTAATATACATAAATTACATAACTTAGTTATTTAATATTA
131 TTAGTTAATATACATAAATTACATAACTTAGTTATTTAATATTA
34155529 TACATAACTTACATTAATATTATACATAAATTACATAACTTAGTTAATTAATATTATACATAACT
1 TACATAACTTACATTAATATTATACATAAATTACATAACTTAGTTAATTAATATTATACATAACT
34155594 TACATTAATATTATACATAAATTACATAACTTAATTAGTTAATATACATAAATTACATAACATAC
66 TACATTAATATTATACATAAATTACATAACTTAATTAGTTAATATACATAAATTACATAACATA-
* *
34155659 ATTA-ATATTATACATAAATTACATAACTTAGTTATTTAATATTA
130 ATTAGTTAATATACATAAATTACATAACTTAGTTATTTAATATTA
* *
34155703 TACATAACTTACATTAACATTATACATAAATTACATAACATAATTAGTTAATATACATA-AATTA
1 TACATAACTTACATTAATATTATACATAAATTACATAAC----TTAGTTAAT-TA-ATATTA-TA
* * *
34155767 CATAACATA-ATTAGTTAATATACATAAATTACATAACTTAATTAGTTAATATACATAAATTACA
59 CATAACTTACATTA-ATATTATACATAAATTACATAACTTAATTAGTTAATATACATAAATTACA
*
34155831 TAACTTAATTAGTTAATTATACATAAATTACATAAC
123 TAACATAATTAGTTAA-TATACATAAATTACATAAC
34155867 ATACATTAAT
Statistics
Matches: 316, Mismatches: 11, Indels: 15
0.92 0.03 0.04
Matches are distributed among these distances:
174 204 0.65
175 4 0.01
178 9 0.03
179 11 0.03
180 69 0.22
181 19 0.06
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.39
Consensus pattern (174 bp):
TACATAACTTACATTAATATTATACATAAATTACATAACTTAGTTAATTAATATTATACATAACT
TACATTAATATTATACATAAATTACATAACTTAATTAGTTAATATACATAAATTACATAACATAA
TTAGTTAATATACATAAATTACATAACTTAGTTATTTAATATTA
Found at i:34155724 original size:22 final size:22
Alignment explanation
Indices: 34155694--34155743 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
34155684 ACTTAGTTAT
* *
34155694 TTAATATTATACATAACTTACA
1 TTAACATTATACATAAATTACA
34155716 TTAACATTATACATAAATTACA
1 TTAACATTATACATAAATTACA
34155738 -TAACAT
1 TTAACAT
34155744 AATTAGTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 6 0.23
22 20 0.77
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (22 bp):
TTAACATTATACATAAATTACA
Found at i:34155934 original size:22 final size:22
Alignment explanation
Indices: 34155906--34155950 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
34155896 ACTTAGTTAT
*
34155906 TTAATATTATACATAACTTACA
1 TTAATATTATACATAAATTACA
34155928 TTAATATTATACATAAATTACA
1 TTAATATTATACATAAATTACA
34155950 T
1 T
34155951 AACTTAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (22 bp):
TTAATATTATACATAAATTACA
Found at i:34155940 original size:56 final size:56
Alignment explanation
Indices: 34155647--34155818 Score: 184
Period size: 56 Copynumber: 3.0 Consensus size: 56
34155637 ATACATAAAT
* * *
34155647 TACATAACATACATTAATATTATACATAAATTACATAACTTAGTTATTTAATATTA
1 TACATAACATACATTAATATTATACAGAAATTACATAACTTAATTAGTTAATATTA
* * * *
34155703 TACATAACTTACATTAACATTATACATAAATTACATAACATAATTAGTTAATATACATAAA
1 TACATAACATACATTAATATTATACAGAAATTACATAACTTAATTAGTTAATAT---T--A
* * *
34155764 TTACATAACATA-ATTAGTTAATATACATAAATTACATAACTTAATTAGTTAATAT
1 -TACATAACATACATTA-ATATTATACAGAAATTACATAACTTAATTAGTTAATAT
34155819 ACATAAATTA
Statistics
Matches: 99, Mismatches: 10, Indels: 8
0.85 0.09 0.07
Matches are distributed among these distances:
56 49 0.49
59 1 0.01
61 5 0.05
62 44 0.44
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.38
Consensus pattern (56 bp):
TACATAACATACATTAATATTATACAGAAATTACATAACTTAATTAGTTAATATTA
Found at i:34156016 original size:56 final size:57
Alignment explanation
Indices: 34155821--34156016 Score: 211
Period size: 56 Copynumber: 3.4 Consensus size: 57
34155811 GTTAATATAC
34155821 ATAAATTACATAACTTAATTAGTTAATTATACATAAATTACATAACATACATTAATATT
1 ATAAATTACATAACTTAATTAGTTAATTATACATAAATTACATAACATACA-TAATA-T
* * * * * *
34155880 ATACAGAAATTACATAACTTAGTTATTTAATATTATACATAACTTACATTA-AT--ATTATAC
1 AT----AAATTACATAACTTAATTAGTT-A-ATTATACATAAATTACATAACATACATAATAT
34155940 ATAAATTACATAACTTAATTAGTTAA-TATACATAAATTACATAACATACATAATAT
1 ATAAATTACATAACTTAATTAGTTAATTATACATAAATTACATAACATACATAATAT
* * *
34155996 ATAACTTACGTAGCTTAATTA
1 ATAAATTACATAACTTAATTA
34156017 TACTTATTCC
Statistics
Matches: 113, Mismatches: 15, Indels: 21
0.76 0.10 0.14
Matches are distributed among these distances:
53 16 0.14
54 3 0.03
55 1 0.01
56 43 0.38
59 2 0.02
60 2 0.02
61 4 0.04
62 1 0.01
63 20 0.18
64 3 0.03
65 18 0.16
ACGTcount: A:0.47, C:0.11, G:0.03, T:0.38
Consensus pattern (57 bp):
ATAAATTACATAACTTAATTAGTTAATTATACATAAATTACATAACATACATAATAT
Found at i:34161543 original size:66 final size:65
Alignment explanation
Indices: 34161436--34161607 Score: 229
Period size: 66 Copynumber: 2.6 Consensus size: 65
34161426 GAGCAAATTA
* * * *
34161436 CACAACTTAAAGCGGAGGCAACATCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCA
1 CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTCCA
34161500 G
65 G
* *
34161501 CTACAACTGAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCA
1 C-ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCA
34161566 G
65 G
* * *
34161567 CAGCAGCTTAAAGCAGATGCAGCAGCAAGAGAAGCAGAGGT
1 CA-CAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGT
34161608 GGCAGCAAGA
Statistics
Matches: 94, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
65 2 0.02
66 88 0.94
67 4 0.04
ACGTcount: A:0.41, C:0.19, G:0.27, T:0.13
Consensus pattern (65 bp):
CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAG
Found at i:34161650 original size:21 final size:21
Alignment explanation
Indices: 34161577--34161668 Score: 78
Period size: 21 Copynumber: 4.4 Consensus size: 21
34161567 CAGCAGCTTA
* *
34161577 AAGCAGATGCAGCAGCAAGAG
1 AAGCAGAGGCTGCAGCAAGAG
34161598 AAGCAGAGG-TGGCAGCAAGAG
1 AAGCAGAGGCT-GCAGCAAGAG
* * * *
34161619 AAGTACAGGCTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCAAGAG
** * *
34161640 AAGCAGAGGCTAAAGCGAGGG
1 AAGCAGAGGCTGCAGCAAGAG
34161661 AAGCAGAG
1 AAGCAGAG
34161669 TAGCGTCAAA
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
21 58 0.98
22 1 0.02
ACGTcount: A:0.38, C:0.16, G:0.40, T:0.05
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCAAGAG
Found at i:34162047 original size:43 final size:43
Alignment explanation
Indices: 34162000--34162161 Score: 204
Period size: 43 Copynumber: 3.8 Consensus size: 43
34161990 GTTTTTCGTC
* *
34162000 AAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAA
1 AAAGCGCCGCTAAAGATCAGGGTCTTTAGCGGCGTTTGTGGAG
* *
34162043 AAAGCGCCACTAAAGATCATGGTCTTTAGCGGCGTTTGT-GAG
1 AAAGCGCCGCTAAAGATCAGGGTCTTTAGCGGCGTTTGTGGAG
* * * *
34162085 AAAGCGCCGCTACAGATCAGAGTCTATT-GTGGCGTTT-TAGGCG
1 AAAGCGCCGCTAAAGATCAGGGTCT-TTAGCGGCGTTTGT-GGAG
*
34162128 AAAGTGCCGCTAAAGATCAGGGTCTTTAGCGGCG
1 AAAGCGCCGCTAAAGATCAGGGTCTTTAGCGGCG
34162162 CTTCCACTAA
Statistics
Matches: 101, Mismatches: 14, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
41 1 0.01
42 33 0.33
43 67 0.66
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (43 bp):
AAAGCGCCGCTAAAGATCAGGGTCTTTAGCGGCGTTTGTGGAG
Found at i:34162119 original size:85 final size:85
Alignment explanation
Indices: 34162000--34162161 Score: 211
Period size: 85 Copynumber: 1.9 Consensus size: 85
34161990 GTTTTTCGTC
* *
34162000 AAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGT-GGAAAAAGCGCCACTAAAGATCATG
1 AAAGCGCCGCTAAAGATAAGAGTCTTTAGCGGCGTTT-TAGGAAAAAGCGCCACTAAAGATCAGG
34162064 GTCTTTAGCGGCGTTTGTGAG
65 GTCTTTAGCGGCGTTTGTGAG
* * * ** * *
34162085 AAAGCGCCGCTACAGATCAGAGTCTATT-GTGGCGTTTTAGGCGAAAGTGCCGCTAAAGATCAGG
1 AAAGCGCCGCTAAAGATAAGAGTCT-TTAGCGGCGTTTTAGGAAAAAGCGCCACTAAAGATCAGG
34162149 GTCTTTAGCGGCG
65 GTCTTTAGCGGCG
34162162 CTTCCACTAA
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
84 1 0.02
85 63 0.95
86 2 0.03
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (85 bp):
AAAGCGCCGCTAAAGATAAGAGTCTTTAGCGGCGTTTTAGGAAAAAGCGCCACTAAAGATCAGGG
TCTTTAGCGGCGTTTGTGAG
Found at i:34162174 original size:85 final size:85
Alignment explanation
Indices: 34162000--34162209 Score: 210
Period size: 85 Copynumber: 2.5 Consensus size: 85
34161990 GTTTTTCGTC
* *
34162000 AAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAAAAAGCGCCACTAAAGATCATGG
1 AAAGCGCCGCTAAAGATAAGAGTCTTTAGCGGCGTTTGTGGAAAAAGCGCCACTAAAGATCAGGG
* **
34162065 TCTTTAGCGGCGTTTGTGAG
66 TCTTTAGCGGCGCTTGCCAG
* * * ** * *
34162085 AAAGCGCCGCTACAGATCAGAGTCTATT-GTGGCGTTT-TAGGCGAAAGTGCCGCTAAAGATCAG
1 AAAGCGCCGCTAAAGATAAGAGTCT-TTAGCGGCGTTTGT-GGAAAAAGCGCCACTAAAGATCAG
*
34162148 GGTCTTTAGCGGCGCTT-CCACT
64 GGTCTTTAGCGGCGCTTGCCA-G
* *** *
34162170 AAAGCGCCGCTAAAGGTCTTACTCTTTAGCGGCGTTTGTG
1 AAAGCGCCGCTAAAGATAAGAGTCTTTAGCGGCGTTTGTG
34162210 CTAGTAGCGC
Statistics
Matches: 101, Mismatches: 19, Indels: 10
0.78 0.15 0.08
Matches are distributed among these distances:
84 4 0.04
85 94 0.93
86 3 0.03
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (85 bp):
AAAGCGCCGCTAAAGATAAGAGTCTTTAGCGGCGTTTGTGGAAAAAGCGCCACTAAAGATCAGGG
TCTTTAGCGGCGCTTGCCAG
Found at i:34162182 original size:42 final size:41
Alignment explanation
Indices: 34162000--34162184 Score: 183
Period size: 43 Copynumber: 4.4 Consensus size: 41
34161990 GTTTTTCGTC
* *
34162000 AAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAA
1 AAAGCGCCGCTAAAGATCAGGGTCTTTAGCGGCGTTT-T-GAG
* *
34162043 AAAGCGCCACTAAAGATCATGGTCTTTAGCGGCGTTTGTGAG
1 AAAGCGCCGCTAAAGATCAGGGTCTTTAGCGGCGTTT-TGAG
* * * *
34162085 AAAGCGCCGCTACAGATCAGAGTCTATT-GTGGCGTTTTAGGCG
1 AAAGCGCCGCTAAAGATCAGGGTCT-TTAGCGGCGTTTT--GAG
* * ** *
34162128 AAAGTGCCGCTAAAGATCAGGGTCTTTAGCGGCGCTTCCACT
1 AAAGCGCCGCTAAAGATCAGGGTCTTTAGCGGCGTTTTGA-G
34162170 AAAGCGCCGCTAAAG
1 AAAGCGCCGCTAAAG
34162185 GTCTTACTCT
Statistics
Matches: 117, Mismatches: 20, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
41 1 0.01
42 47 0.40
43 69 0.59
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.23
Consensus pattern (41 bp):
AAAGCGCCGCTAAAGATCAGGGTCTTTAGCGGCGTTTTGAG
Found at i:34164979 original size:5 final size:5
Alignment explanation
Indices: 34164969--34164994 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
34164959 AGTATTACAG
34164969 ATAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA A
34164995 ACAATGTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:34180053 original size:36 final size:36
Alignment explanation
Indices: 34180006--34180078 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
34179996 ACACCGGTTT
34180006 CACCTGCTATTAAGATTGGATCTTAAAGCCGCTTGA
1 CACCTGCTATTAAGATTGGATCTTAAAGCCGCTTGA
34180042 CACCTGCTATTAAGATTGGATCTTAAAGCCGCTTGA
1 CACCTGCTATTAAGATTGGATCTTAAAGCCGCTTGA
34180078 C
1 C
34180079 TGGGGACGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.30
Consensus pattern (36 bp):
CACCTGCTATTAAGATTGGATCTTAAAGCCGCTTGA
Found at i:34183716 original size:50 final size:50
Alignment explanation
Indices: 34183623--34183759 Score: 150
Period size: 50 Copynumber: 2.7 Consensus size: 50
34183613 GATAATAACA
* * * ** **
34183623 TGCCAAAGCCATGTCCCAAACATGGTCTTACATGGGAGTTCTCATATTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATCAG
* * *
34183673 TGCCCATGCCATGTCCCAGACATGGTCTTAC-GGGGAACCTCTCATCTCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGG-ACCTCTCATATCAG
* *
34183723 TGCCAACGCCATGTCCCAGACATGGTTTTACACGGGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGA
34183760 TCTCATCCCC
Statistics
Matches: 72, Mismatches: 13, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
49 3 0.04
50 66 0.92
51 3 0.04
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.25
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATCAG
Found at i:34190941 original size:20 final size:20
Alignment explanation
Indices: 34190916--34190954 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
34190906 TACTTTTTTC
34190916 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
34190936 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
34190955 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:34191299 original size:50 final size:50
Alignment explanation
Indices: 34191245--34191348 Score: 127
Period size: 50 Copynumber: 2.1 Consensus size: 50
34191235 ACATGAGAGT
* * * * *
34191245 TCTCATATCGGTTCCCATGCCATGTCCCAGACATAGTCTTACGGGGGACC
1 TCTCATATCGGTGCCAAGGCCAAGTCCCAAACATAGTCTTACGGGGGACC
* * * *
34191295 TCTCATCTCGGTGCCAAGGCCAAGTCCCAAACATGGTCTTATGTGGGACC
1 TCTCATATCGGTGCCAAGGCCAAGTCCCAAACATAGTCTTACGGGGGACC
34191345 TCTC
1 TCTC
34191349 CTAACCTCAA
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.20, C:0.32, G:0.22, T:0.26
Consensus pattern (50 bp):
TCTCATATCGGTGCCAAGGCCAAGTCCCAAACATAGTCTTACGGGGGACC
Found at i:34201229 original size:50 final size:50
Alignment explanation
Indices: 34201174--34201367 Score: 185
Period size: 50 Copynumber: 3.9 Consensus size: 50
34201164 TATTGAGATT
* * * *
34201174 ATGAGAGGTCCAATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAG
** * *
34201224 ATGAGAGGTCCCCCGTAAGACCATGTCTAGGACATGGCATGGGCACCGAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAG
** * * * *
34201274 ATGAGAACTCTCATGTAAGACCATATCTAGGATATGGCATTGGCA--GTG
1 ATGAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAG
* * * * * *
34201322 CAAGAAATGTCCCATGTAATACCATGTCTGGGACATGGCTTTGGCA
1 -ATGAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGGCA
34201368 TGTTATTATC
Statistics
Matches: 115, Mismatches: 28, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
48 1 0.01
49 35 0.30
50 79 0.69
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAG
Found at i:34208376 original size:45 final size:44
Alignment explanation
Indices: 34208316--34208475 Score: 164
Period size: 45 Copynumber: 3.6 Consensus size: 44
34208306 TACGTGTACT
* * *
34208316 AGGTACCATTGATTATAAAGGTGGTTGTTGTCTACTGATTCCACC
1 AGGTATCATTAATTATAAAGGTGGTTGTTGTGT-CTGATTCCACC
*
34208361 AGGTATCATTAATTATAAAGGTGGTTGTTGTGTGCTGATTCCACT
1 AGGTATCATTAATTATAAAGGTGGTTGTTGTGT-CTGATTCCACC
* * *
34208406 GGGTA-CTATTAATTATGAAGGTGGGTTCTATGTGT-TGATTCCACC
1 AGGTATC-ATTAATTATAAAGGT-GGTTGT-TGTGTCTGATTCCACC
* *
34208451 -GAGTATCATTAACTATAAGGGTGGT
1 AG-GTATCATTAATTATAAAGGTGGT
34208476 GCTATGTGCT
Statistics
Matches: 98, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
44 5 0.05
45 82 0.84
46 6 0.06
47 5 0.05
ACGTcount: A:0.25, C:0.13, G:0.25, T:0.37
Consensus pattern (44 bp):
AGGTATCATTAATTATAAAGGTGGTTGTTGTGTCTGATTCCACC
Found at i:34209054 original size:88 final size:88
Alignment explanation
Indices: 34208944--34209123 Score: 306
Period size: 88 Copynumber: 2.0 Consensus size: 88
34208934 TGAGATAAAA
*
34208944 TTTATATTTCTAGAATCCTGAATGAGTCTATTTTCAAAAGAAATAAACGAGATTATTATCCGAAT
1 TTTATATTTCTAGAATCCTGAATGAGTCTATTTTCAAAAGAAATAAACGAGAGTATTATCCGAAT
*
34209009 TCTGTACTATGAAATAATTAGTT
66 TCTGTACTATGAAATAATTAATT
* * * *
34209032 TTTATATTTTTAGAATCCTGAATGAGTTTATTTTCAAAATAAATAAACGAGAGTATTATCTGAAT
1 TTTATATTTCTAGAATCCTGAATGAGTCTATTTTCAAAAGAAATAAACGAGAGTATTATCCGAAT
34209097 TCTGTACTATGAAATAATTAATT
66 TCTGTACTATGAAATAATTAATT
34209120 TTTA
1 TTTA
34209124 GTTAAGAAAG
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 86 1.00
ACGTcount: A:0.38, C:0.09, G:0.12, T:0.41
Consensus pattern (88 bp):
TTTATATTTCTAGAATCCTGAATGAGTCTATTTTCAAAAGAAATAAACGAGAGTATTATCCGAAT
TCTGTACTATGAAATAATTAATT
Found at i:34220211 original size:50 final size:50
Alignment explanation
Indices: 34220100--34220297 Score: 243
Period size: 50 Copynumber: 3.8 Consensus size: 50
34220090 ATTTGGGTAA
* *
34220100 AGAGATCCCATGTAAGACCATGTCTGGGACATGGAATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAG---ATG
*
34220156 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
34220206 AGAGGTCCCCCGTAAGACCAGGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** *
34220256 AGAACTCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
34220298 TGTTATTATC
Statistics
Matches: 126, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
50 82 0.65
53 3 0.02
55 2 0.02
56 39 0.31
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:34220290 original size:100 final size:103
Alignment explanation
Indices: 34220111--34220297 Score: 272
Period size: 100 Copynumber: 1.8 Consensus size: 103
34220101 GAGATCCCAT
* * **
34220111 GTAAGACCATGTCTGGGACATGGAATTGGCATCCTTGAGATCATGAGAGGTCCCATGTAAGACCA
1 GTAAGACCAGGTCTGGGACATGGAATGGGCATCC-T--GATCATGAGAACTCCCATGTAAGACCA
34220176 TGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCC
63 TGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCC
*
34220217 GTAAGACCAGGTCTGGGACATGGCATGGGCA-CC-GAT-ATGAGAACTCCCATGTAAGACCATGT
1 GTAAGACCAGGTCTGGGACATGGAATGGGCATCCTGATCATGAGAACTCCCATGTAAGACCATGT
*
34220279 CTGGGACATGGCTTTGGCA
66 CTGGGACATGGCGTTGGCA
34220298 TGTTATTATC
Statistics
Matches: 75, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
100 42 0.56
101 3 0.04
105 2 0.03
106 28 0.37
ACGTcount: A:0.25, C:0.22, G:0.31, T:0.21
Consensus pattern (103 bp):
GTAAGACCAGGTCTGGGACATGGAATGGGCATCCTGATCATGAGAACTCCCATGTAAGACCATGT
CTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCC
Found at i:34222957 original size:50 final size:50
Alignment explanation
Indices: 34222850--34223091 Score: 193
Period size: 50 Copynumber: 4.7 Consensus size: 50
34222840 GGGAATGAGA
34222850 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGGTTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--TGA-G--ATGAGAGG
* *
34222906 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATGGGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGG
** ** * ** * * **
34222956 TCCCCCGTAAGATAATGTTTGGGACATGGCAAGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGG
* * * * **
34223006 TCCCATGTAAGACCATATCTGGGACAT-GCTATTGGCAGT-ACA-GAAAACA
1 TCCCATGTAAGACCATGTCTGGGACATGGC-ATTGGCACTGAGATG-AGAGG
* * *
34223055 TCCCATGTAAGACTATGTCTGGGACATAGCTTTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
34223092 TGTATTATCA
Statistics
Matches: 151, Mismatches: 32, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
48 1 0.01
49 37 0.25
50 72 0.48
52 1 0.01
53 3 0.02
55 1 0.01
56 36 0.24
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGG
Found at i:34230667 original size:16 final size:16
Alignment explanation
Indices: 34230634--34230667 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
34230624 AAACATTTGG
**
34230634 AATGGAATGGTTGGTA
1 AATGGAATGGTTCATA
34230650 AATGGAATGGTTCATA
1 AATGGAATGGTTCATA
34230666 AA
1 AA
34230668 CTTATGAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.29, T:0.29
Consensus pattern (16 bp):
AATGGAATGGTTCATA
Found at i:34237596 original size:25 final size:25
Alignment explanation
Indices: 34237568--34237628 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
34237558 TTCAACTCAT
*
34237568 ATGAGCTTACCGATACTCAGCTCGC
1 ATGAGCTTACCGATACTCAGCTCGA
* * * *
34237593 ATGAGCTTATCGTTATTCAGCTTGA
1 ATGAGCTTACCGATACTCAGCTCGA
*
34237618 AAGAGCTTACC
1 ATGAGCTTACC
34237629 AATTATAGCT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.30
Consensus pattern (25 bp):
ATGAGCTTACCGATACTCAGCTCGA
Found at i:34247421 original size:33 final size:33
Alignment explanation
Indices: 34247384--34247449 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
34247374 AACCTTACCA
*
34247384 CCCTTTTATGATTACAAGCATATTTTCATCTAG
1 CCCTTTTATGATCACAAGCATATTTTCATCTAG
34247417 CCCTTTTATGATCACAAGCATATTTTCATCTAG
1 CCCTTTTATGATCACAAGCATATTTTCATCTAG
34247450 ACATTTACCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.27, C:0.23, G:0.09, T:0.41
Consensus pattern (33 bp):
CCCTTTTATGATCACAAGCATATTTTCATCTAG
Found at i:34247471 original size:33 final size:33
Alignment explanation
Indices: 34247397--34247476 Score: 90
Period size: 33 Copynumber: 2.4 Consensus size: 33
34247387 TTTTATGATT
* * **
34247397 ACAAGCATATTTTCATCTAGCCCTTTTATGATC
1 ACAAGCATATTTTCATCTAGCACATTTACCATC
34247430 ACAAGCATATTTTCATCTAG-ACATTTACCATC
1 ACAAGCATATTTTCATCTAGCACATTTACCATC
*
34247462 TCAATGCATAATTTT
1 ACAA-GCAT-ATTTT
34247477 ATAAGTTTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
32 11 0.28
33 24 0.60
34 5 0.12
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (33 bp):
ACAAGCATATTTTCATCTAGCACATTTACCATC
Found at i:34248613 original size:23 final size:22
Alignment explanation
Indices: 34248570--34248613 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
34248560 TTCTAAGTCG
34248570 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
34248593 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
34248614 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:34248730 original size:45 final size:45
Alignment explanation
Indices: 34248666--34248751 Score: 154
Period size: 45 Copynumber: 1.9 Consensus size: 45
34248656 CTCGGTGGAT
*
34248666 TCAGCACATAGCAACCACCTTATTAATCAATGATGTCCGGTAGAA
1 TCAGCACATAGCAACCACCTTACTAATCAATGATGTCCGGTAGAA
*
34248711 TCAGCACATAGCAACCACCTTACTAATCAATGATGTTCGGT
1 TCAGCACATAGCAACCACCTTACTAATCAATGATGTCCGGT
34248752 TCACATAGTA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.26
Consensus pattern (45 bp):
TCAGCACATAGCAACCACCTTACTAATCAATGATGTCCGGTAGAA
Found at i:34257154 original size:45 final size:45
Alignment explanation
Indices: 34257073--34257247 Score: 187
Period size: 45 Copynumber: 3.9 Consensus size: 45
34257063 AATCGTTACA
* * * *
34257073 CGGTGG-ATCAGCACATGGC-ACCACCCTTATAATCAATTATATT
1 CGGTGGAATCAGCACATAGCAACCACCTTTATATTCAATGATATT
*
34257116 CGGTGGAATCAGCACATAGCAACCACCTTTATTTTCAATGAT-TT
1 CGGTGGAATCAGCACATAGCAACCACCTTTATATTCAATGATATT
* * * **
34257160 CCGGTGGAGTCAACACATAGCAACCACCTTTATAATT-AATGGTACC
1 -CGGTGGAATCAGCACATAGCAACCACCTTTAT-ATTCAATGATATT
* * *
34257206 CGGTGGAATTAGCATATAGCAACCACCTTTATAATCAATGAT
1 CGGTGGAATCAGCACATAGCAACCACCTTTATATTCAATGAT
34257248 TCTCAGTACA
Statistics
Matches: 109, Mismatches: 17, Indels: 10
0.80 0.12 0.07
Matches are distributed among these distances:
43 6 0.06
44 16 0.15
45 85 0.78
46 2 0.02
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTTATATTCAATGATATT
Found at i:34257245 original size:90 final size:88
Alignment explanation
Indices: 34257073--34257248 Score: 226
Period size: 90 Copynumber: 2.0 Consensus size: 88
34257063 AATCGTTACA
* * * **
34257073 CGGTGGATCAGCACATGGCACCACCCTTATAATCAATTATATTCGGTGGAATCAGCACATAGCAA
1 CGGTGGATCAACACATAGCACCACCCTTATAATCAATGATACCCGGTGGAATCAGCACATAGCAA
**
34257138 CCACCTTTATTTTCAATGATTTC
66 CCACCTTTATAATCAATGATTTC
* * * * *
34257161 CGGTGGAGTCAACACATAGCAACCACCTTTATAATTAATGGTACCCGGTGGAATTAGCATATAGC
1 CGGTGGA-TCAACACATAGC-ACCACCCTTATAATCAATGATACCCGGTGGAATCAGCACATAGC
34257226 AACCACCTTTATAATCAATGATT
64 AACCACCTTTATAATCAATGATT
34257249 CTCAGTACAC
Statistics
Matches: 74, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
88 7 0.09
89 10 0.14
90 57 0.77
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.28
Consensus pattern (88 bp):
CGGTGGATCAACACATAGCACCACCCTTATAATCAATGATACCCGGTGGAATCAGCACATAGCAA
CCACCTTTATAATCAATGATTTC
Found at i:34260655 original size:17 final size:17
Alignment explanation
Indices: 34260633--34260672 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
34260623 TATGTTTAAT
34260633 ATTTAACT-ATAAAATTA
1 ATTTAACTCA-AAAATTA
*
34260650 ATTTAATTCAAAAATTA
1 ATTTAACTCAAAAATTA
34260667 ATTTAA
1 ATTTAA
34260673 TTCATGTGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 20 0.95
18 1 0.05
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (17 bp):
ATTTAACTCAAAAATTA
Found at i:34260673 original size:17 final size:17
Alignment explanation
Indices: 34260643--34260676 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
34260633 ATTTAACTAT
34260643 AAAATTAATTTAATTCA
1 AAAATTAATTTAATTCA
34260660 AAAATTAATTTAATTCA
1 AAAATTAATTTAATTCA
34260677 TGTGACAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (17 bp):
AAAATTAATTTAATTCA
Found at i:34262742 original size:15 final size:15
Alignment explanation
Indices: 34262722--34262751 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
34262712 GTGGTTTGTT
34262722 TTATAACCCAAAAGA
1 TTATAACCCAAAAGA
34262737 TTATAACCCAAAAGA
1 TTATAACCCAAAAGA
34262752 GCAAATTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.20, G:0.07, T:0.20
Consensus pattern (15 bp):
TTATAACCCAAAAGA
Found at i:34269205 original size:12 final size:12
Alignment explanation
Indices: 34269188--34269212 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
34269178 TAGGCTTCCA
34269188 AAAATGGAAATG
1 AAAATGGAAATG
34269200 AAAATGGAAATG
1 AAAATGGAAATG
34269212 A
1 A
34269213 TTCATTTGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.24, T:0.16
Consensus pattern (12 bp):
AAAATGGAAATG
Found at i:34269626 original size:23 final size:23
Alignment explanation
Indices: 34269596--34269661 Score: 96
Period size: 23 Copynumber: 2.9 Consensus size: 23
34269586 CTAGTAGGAA
*
34269596 TACTAGGGTGTGCCGTCCACTCC
1 TACTAGGGTGTGTCGTCCACTCC
* *
34269619 TACTAGGGTGTGTCATCCACTTC
1 TACTAGGGTGTGTCGTCCACTCC
*
34269642 TATTAGGGTGTGTCGTCCAC
1 TACTAGGGTGTGTCGTCCAC
34269662 CCTTGTCTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.15, C:0.27, G:0.26, T:0.32
Consensus pattern (23 bp):
TACTAGGGTGTGTCGTCCACTCC
Found at i:34278649 original size:28 final size:28
Alignment explanation
Indices: 34278613--34278671 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
34278603 TTTATTTTTA
*
34278613 TTTTCGTTTGTA-TTTTTTTTGTTTTTGT
1 TTTTCGTTT-TACTTTTTTTAGTTTTTGT
*
34278641 TTTTTGTTTTACTTTTTTTAGTTTTTGT
1 TTTTCGTTTTACTTTTTTTAGTTTTTGT
34278669 TTT
1 TTT
34278672 CTTTCTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 2 0.07
28 26 0.93
ACGTcount: A:0.05, C:0.03, G:0.12, T:0.80
Consensus pattern (28 bp):
TTTTCGTTTTACTTTTTTTAGTTTTTGT
Found at i:34278650 original size:21 final size:21
Alignment explanation
Indices: 34278625--34278703 Score: 72
Period size: 22 Copynumber: 3.6 Consensus size: 21
34278615 TTCGTTTGTA
*
34278625 TTTTTTTTGTTTTTGTTTTTTG
1 TTTTCTTT-TTTTTGTTTTTTG
*
34278647 TTTTACTTTTTTTAG-TTTTTG
1 TTTT-CTTTTTTTTGTTTTTTG
*
34278668 TTTTCTTTCTTTTTCTTTTTCT-
1 TTTTCTTT-TTTTTGTTTTT-TG
34278690 TTTTCTTTTATTTT
1 TTTTCTTTT-TTTT
34278704 ATTATGCACT
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
20 4 0.08
21 15 0.31
22 25 0.52
23 4 0.08
ACGTcount: A:0.04, C:0.08, G:0.06, T:0.82
Consensus pattern (21 bp):
TTTTCTTTTTTTTGTTTTTTG
Found at i:34278682 original size:6 final size:6
Alignment explanation
Indices: 34278673--34278698 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
34278663 TTTTGTTTTC
34278673 TTTCTT TTTCTT TTTCTT TTTCTT TT
1 TTTCTT TTTCTT TTTCTT TTTCTT TT
34278699 ATTTTATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTCTT
Found at i:34279699 original size:21 final size:20
Alignment explanation
Indices: 34279649--34279708 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 20
34279639 ATTGTTTGTT
34279649 CTAAAAAATAAA-AATAAAAA
1 CTAAAAAA-AAAGAATAAAAA
*
34279669 C-AAAACAAAAGAATAAAAA
1 CTAAAAAAAAAGAATAAAAA
34279688 CATAAAAAAAAAGAATAAAAA
1 C-TAAAAAAAAAGAATAAAAA
34279709 TATTTTTTGA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 3 0.09
19 14 0.40
20 1 0.03
21 17 0.49
ACGTcount: A:0.80, C:0.07, G:0.03, T:0.10
Consensus pattern (20 bp):
CTAAAAAAAAAGAATAAAAA
Found at i:34284147 original size:22 final size:22
Alignment explanation
Indices: 34284096--34284140 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
34284086 TCGAATCTGG
34284096 TATACCATATAGCTTATAGACA
1 TATACCATATAGCTTATAGACA
34284118 TATACCATATAGCTTATAGACA
1 TATACCATATAGCTTATAGACA
34284140 T
1 T
34284141 TTTCCATGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.33
Consensus pattern (22 bp):
TATACCATATAGCTTATAGACA
Found at i:34286012 original size:19 final size:19
Alignment explanation
Indices: 34285988--34286026 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
34285978 GTATTAAGGG
34285988 ATAAATTTTAAATTT-ATGT
1 ATAAATTTT-AATTTGATGT
34286007 ATAAATTTTAATTTGATGT
1 ATAAATTTTAATTTGATGT
34286026 A
1 A
34286027 ATTATACATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (19 bp):
ATAAATTTTAATTTGATGT
Found at i:34288945 original size:30 final size:28
Alignment explanation
Indices: 34288887--34288993 Score: 83
Period size: 30 Copynumber: 3.6 Consensus size: 28
34288877 AAAAGGGTAC
* * *
34288887 AAAA-TATATACATGTACATATATAAAA
1 AAAATTATATACATATATATAGATAAAA
34288914 AAAATTATATACATATATATAGATTATAAA
1 AAAATTATATACATATATATAGA-TA-AAA
* *
34288944 AAAGATAAT-TACATATATATATATAAACA
1 AAA-ATTATATACATATATATAGATAAA-A
*
34288973 AATAATAATAATTACATATAT
1 AA-AATTAT-A-TACATATAT
34288994 TAAAATTAAT
Statistics
Matches: 66, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
27 4 0.06
28 17 0.26
29 12 0.18
30 20 0.30
31 4 0.06
32 9 0.14
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.34
Consensus pattern (28 bp):
AAAATTATATACATATATATAGATAAAA
Found at i:34289252 original size:3 final size:3
Alignment explanation
Indices: 34289246--34289317 Score: 117
Period size: 3 Copynumber: 24.0 Consensus size: 3
34289236 TATATAGTAG
* *
34289246 TAA TAA TAA TAA TAA TAA TAA TAG TAA TAA TAA TAA TAA TAA TAA TGA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
34289294 TAA TAA TAA CAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA
34289318 CTTAATAACA
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:34289675 original size:19 final size:19
Alignment explanation
Indices: 34289651--34289687 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
34289641 AATCATATCT
*
34289651 TCTAAGATTGTATATCATA
1 TCTAAGATTGCATATCATA
34289670 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
34289688 TGAAGATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.41
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:34289695 original size:17 final size:19
Alignment explanation
Indices: 34289654--34289695 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
34289644 CATATCTTCT
* *
34289654 AAGATTGTATATCATATCT
1 AAGATTGCATATCATATCG
34289673 AAGATTGCATATCAT-T-G
1 AAGATTGCATATCATATCG
34289690 AAGATT
1 AAGATT
34289696 ATGTTTCCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 6 0.29
18 1 0.05
19 14 0.67
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (19 bp):
AAGATTGCATATCATATCG
Found at i:34290514 original size:44 final size:44
Alignment explanation
Indices: 34290465--34290674 Score: 280
Period size: 44 Copynumber: 4.8 Consensus size: 44
34290455 ATCTGCTATA
* *
34290465 TTCAACCTACTCCACTGCTG-CTTAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGAC-CAGGGAGATAGGATTCACAATC
*
34290509 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGA-CCTACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTC-ACAATC
* * * ** *
34290553 TTCAATCTATTTCACTGCTGCCCAGGGAGATATAATTCTCAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
*
34290597 TTCAACCTATTCCACTGTTGACCAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
* *
34290641 TTTAACCTATTTCACTGCTGACCAGGGAGATAGG
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGG
34290675 GCTGGGGTCA
Statistics
Matches: 143, Mismatches: 20, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
43 1 0.01
44 140 0.98
45 2 0.01
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (44 bp):
TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
Found at i:34290736 original size:88 final size:88
Alignment explanation
Indices: 34290674--34291079 Score: 659
Period size: 88 Copynumber: 4.6 Consensus size: 88
34290664 AGGGAGATAG
* * * *
34290674 GGCTGGGGTCATCGATCTGCTTCGCTGTCGGTGTAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
*
34290739 TCCGCTGCAACCCAGGGAGGCAA
66 TCCACTGCAACCCAGGGAGGCAA
*
34290762 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTACAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
34290827 TCCACTGCAACCCAGGGAGGCAA
66 TCCACTGCAACCCAGGGAGGCAA
* * *
34290850 GGCTGGTGTATTCGATCTGCTTCGCTGTCGGTGCAGGAATGCAAGATCTACTATTTTTAGCCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
* *
34290915 TCCCCTGCAACCCATGGAGGCAA
66 TCCACTGCAACCCAGGGAGGCAA
* * *
34290938 GGTTGGTGTCTTCGATCTGCTTCGTTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCTTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
*
34291003 TCCGCTGCAACCCAGGGAGGCAA
66 TCCACTGCAACCCAGGGAGGCAA
* *
34291026 GGTTGGTGTCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTAT
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTAT
34291080 CTTTGATATA
Statistics
Matches: 296, Mismatches: 22, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 296 1.00
ACGTcount: A:0.18, C:0.24, G:0.29, T:0.28
Consensus pattern (88 bp):
GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
TCCACTGCAACCCAGGGAGGCAA
Found at i:34290736 original size:132 final size:132
Alignment explanation
Indices: 34290421--34290746 Score: 309
Period size: 132 Copynumber: 2.5 Consensus size: 132
34290411 ACTGATGTCT
34290421 TCGATCTGCTTCACTGCCAGTACAGGAAGGCAAGATCTGCTATATTCAACCTACTCCACTGCTGC
1 TCGATCTGCTTCACTG-CAGTACAGGAAGGCAAGATCTGCTATATTCAACCTACTCCACTGCTGC
*
34290486 TTAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGACCTACAA
65 TCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGACCTACAA
*
34290551 TCT
130 TCA
* ** * ** * ** * * * *
34290554 TCAATCTATTTCACTGCTGCCCAGGGAGATATA-ATTCT-CAATCTTCAACCTATTCCACTGTTG
1 TCGATCTGCTTCACTGCAGTACAGGAAGGCA-AGA-TCTGCTATATTCAACCTACTCCACTGCTG
* * * **
34290617 AC-CAGGGAGATAGGATTCACAATCTTTAACCTATTTCACTGCTGACCAGGGAGATAGG-GCTGG
64 -CTCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGACCTAC
**
34290680 GGTCA
128 AATCA
* * ** * * * *
34290685 TCGATCTGCTTCGCTGTCGGTGTAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGC
1 TCGATCTGCTTCACTG-CAGTACAGGAAGGCAAGATCTGCTATATTCAACCTACTCCACTGC
34290747 AACCCAGGGA
Statistics
Matches: 147, Mismatches: 40, Indels: 13
0.74 0.20 0.06
Matches are distributed among these distances:
131 20 0.14
132 109 0.74
133 18 0.12
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.28
Consensus pattern (132 bp):
TCGATCTGCTTCACTGCAGTACAGGAAGGCAAGATCTGCTATATTCAACCTACTCCACTGCTGCT
CAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGACCTACAAT
CA
Found at i:34291024 original size:44 final size:44
Alignment explanation
Indices: 34290712--34291026 Score: 120
Period size: 44 Copynumber: 7.2 Consensus size: 44
34290702 CGGTGTAGGA
* *
34290712 AGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGG
1 AGGCAAGATCTGCTATTTTTAGCTTGCTCCGCTGCAACCCAGGG
* * * * * * * **** *
34290756 AGGCAAG-GCTGGT-GTCTTCGATCTGCTTCGCTGTCGGTACAGGA
1 AGGCAAGATCTGCTATTTTTAGCT-TGCTCCGCTG-CAACCCAGGG
* *
34290800 AGGCAAGATCTGCTATTTTTAGCCTGCTCCACTGCAACCCAGGG
1 AGGCAAGATCTGCTATTTTTAGCTTGCTCCGCTGCAACCCAGGG
* * * * * * * **** *
34290844 AGGCAAG-GCTGGT-GTATTCGATCTGCTTCGCTGTCGGTGCAGGA
1 AGGCAAGATCTGCTATTTTTAGCT-TGCTCCGCTG-CAACCCAGGG
* * * * *
34290888 ATGCAAGATCTACTATTTTTAGCCTGCTCCCCTGCAACCCATGG
1 AGGCAAGATCTGCTATTTTTAGCTTGCTCCGCTGCAACCCAGGG
* * * * * * * * **** *
34290932 AGGCAAGGT-TGGT-GTCTTCGATCTGCTTCGTTGTCGGTGCAGGA
1 AGGCAAGATCTGCTATTTTTAGCT-TGCTCCGCTG-CAACCCAGGG
34290976 AGGCAAGATCTGCTATTTTTAGCTTGCTCCGCTGCAACCCAGGG
1 AGGCAAGATCTGCTATTTTTAGCTTGCTCCGCTGCAACCCAGGG
34291020 AGGCAAG
1 AGGCAAG
34291027 GTTGGTGTCT
Statistics
Matches: 169, Mismatches: 90, Indels: 24
0.60 0.32 0.08
Matches are distributed among these distances:
42 11 0.07
43 34 0.20
44 77 0.46
45 34 0.20
46 13 0.08
ACGTcount: A:0.20, C:0.25, G:0.28, T:0.27
Consensus pattern (44 bp):
AGGCAAGATCTGCTATTTTTAGCTTGCTCCGCTGCAACCCAGGG
Found at i:34291068 original size:44 final size:44
Alignment explanation
Indices: 34290932--34291070 Score: 129
Period size: 44 Copynumber: 3.2 Consensus size: 44
34290922 CAACCCATGG
* *
34290932 AGGCAAGGTTGGTGTCTTCGATCTGCTTCGTTGTCGGTGCAGGA
1 AGGCAAGGTTGGTGTCTTCGATCTGCTTCGCTGTCAGTGCAGGA
* * * ** * * *** *
34290976 AGGCAAGATCTGCTAT-TTTTAGCTTGCTCCGCTG-CAACCCAGGG
1 AGGCAAGGT-TGGTGTCTTCGATC-TGCTTCGCTGTCAGTGCAGGA
34291020 AGGCAAGGTTGGTGTCTTCGATCTGCTTCGCTGTCAGTGCAGGA
1 AGGCAAGGTTGGTGTCTTCGATCTGCTTCGCTGTCAGTGCAGGA
34291064 AGGCAAG
1 AGGCAAG
34291071 ATCTGCTATC
Statistics
Matches: 67, Mismatches: 24, Indels: 8
0.68 0.24 0.08
Matches are distributed among these distances:
43 13 0.19
44 42 0.63
45 12 0.18
ACGTcount: A:0.18, C:0.22, G:0.32, T:0.28
Consensus pattern (44 bp):
AGGCAAGGTTGGTGTCTTCGATCTGCTTCGCTGTCAGTGCAGGA
Found at i:34291136 original size:44 final size:43
Alignment explanation
Indices: 34291062--34291347 Score: 188
Period size: 44 Copynumber: 6.5 Consensus size: 43
34291052 GTCAGTGCAG
* * * *
34291062 GAAGGCAAGATCTGCTATCTTTGATATACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTC-CGCCAATACAT
* * *
34291106 GAAGACAAAATCTGCTTTCTTCGATCTACTT-CGCCACTAGTAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCCGCCAATA-CAT
* * * * * * *
34291149 GAGAAGACAAGATCTAC-ATCTTTGATCCACTTCCTACCAATATAG
1 --GAAGACAAGATCTGCTTTCTTCGATCTACTTCC-GCCAATACAT
* * *
34291194 GAAGACAGGACCTGC-TTCTTCGATCTACTTCACGCAAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTC-CGCCAATACAT
* *
34291237 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCTACCAGT--AT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTC-C-GCCAATACAT
* * * * *
34291280 GGTAAGACAAGATCTGC-ATCTTCGATCCACTTCGCTACCAATATAG
1 -G-AAGACAAGATCTGCTTTCTTCGATCTACTTC-C-GCCAATACAT
* *
34291326 GAAGACAGGATCTGCTATCTTC
1 GAAGACAAGATCTGCTTTCTTC
34291348 ACTGATCTGC
Statistics
Matches: 193, Mismatches: 36, Indels: 25
0.76 0.14 0.10
Matches are distributed among these distances:
42 7 0.04
43 48 0.25
44 92 0.48
45 40 0.21
46 6 0.03
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (43 bp):
GAAGACAAGATCTGCTTTCTTCGATCTACTTCCGCCAATACAT
Found at i:34291198 original size:88 final size:88
Alignment explanation
Indices: 34291062--34291346 Score: 258
Period size: 88 Copynumber: 3.2 Consensus size: 88
34291052 GTCAGTGCAG
* * * * * *
34291062 GAAGGCAAGATCTGCTATCTTTGATATACTTCAC-GCCAATACATGAAGACAAAATCTGCTTTCT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACTACCAATATAGGAAGACAAGATCTGC-TTCT
* *
34291126 TCGATCTACTTCGC-C-ACTAGTAT
65 TCGATCTACTTCGCGCAAATA-CAT
* * * *
34291149 GAGAAGACAAGATCTAC-ATCTTTGATCCACTTC-CTACCAATATAGGAAGACAGGACCTGCTTC
1 --GAAGACAAGATCTGCTATCTTTGATCTACTTCACTACCAATATAGGAAGACAAGATCTGCTTC
*
34291212 TTCGATCTACTTCACGCAAATACAT
64 TTCGATCTACTTCGCGCAAATACAT
* * * * *
34291237 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCTACCAGTAT-GGTAAGACAAGATCTGCATCT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACTACCAATATAGG-AAGACAAGATCTGCTTCT
* * * * *
34291301 TCGATCCACTTCGCTACCAATATAG
65 TCGATCTACTTCGC-GCAAATACAT
*
34291326 GAAGACAGGATCTGCTATCTT
1 GAAGACAAGATCTGCTATCTT
34291347 CACTGATCTG
Statistics
Matches: 160, Mismatches: 29, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
86 14 0.09
87 33 0.21
88 72 0.45
89 41 0.26
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (88 bp):
GAAGACAAGATCTGCTATCTTTGATCTACTTCACTACCAATATAGGAAGACAAGATCTGCTTCTT
CGATCTACTTCGCGCAAATACAT
Found at i:34291219 original size:264 final size:263
Alignment explanation
Indices: 34290685--34291173 Score: 567
Period size: 264 Copynumber: 1.9 Consensus size: 263
34290675 GCTGGGGTCA
*
34290685 TCGATCTGCTTCGCTGTCGGTGTAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
*
34290750 CCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTACAGGAAGGCAAGATCTGCTA
66 CCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTA
* * * * * * * * * ** *
34290815 TTTTTAGCCTGCTCCACTGCAACCCAGGGAGGCAAGGCTGGTGTATTCGATCTGCTTCGCTGTCG
131 TTTTGAGCATACTCCACTGCAACACAGGAAGACAAAGCTGCTGTATTCGATCTACTTCGCACTAG
* * * * * * *
34290880 GTGCAGGAATGCAAGATCTACTATTTTTAGCCTGCTCCCCTGCAACCCATGGAGGCAAGGTTGGT
196 ATGCAGGAATGCAAGATCTACTATTTTGAGCCTACTCCCCTCCAA-CCATGGAGACAAGGCTGCT
34290945 GTCT
260 GTCT
* * *
34290949 TCGATCTGCTTCGTTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCTTGCTCCGCTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
* *
34291014 CCAGGGAGGCAAGGTTGGTGTCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTA
66 CCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTA
* * * * * * *
34291079 TCTTTGA-TATACTTCAC-GCCAATACATGAAGACAAAATCTGCTTTCTTCGATCTACTTCGCCA
131 T-TTTGAGCATACTCCACTG-CAACACAGGAAGAC-AAAGCTGCTGTATTCGATCTACTTCG-CA
34291142 CTAGTATG-A-GAA-GACAAGATCTAC-ATCTTTGA
192 CTAG-ATGCAGGAATG-CAAGATCTACTAT-TTTGA
34291174 TCCACTTCCT
Statistics
Matches: 190, Mismatches: 28, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
263 1 0.01
264 142 0.75
265 41 0.22
266 4 0.02
267 2 0.01
ACGTcount: A:0.21, C:0.24, G:0.26, T:0.29
Consensus pattern (263 bp):
TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
CCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTA
TTTTGAGCATACTCCACTGCAACACAGGAAGACAAAGCTGCTGTATTCGATCTACTTCGCACTAG
ATGCAGGAATGCAAGATCTACTATTTTGAGCCTACTCCCCTCCAACCATGGAGACAAGGCTGCTG
TCT
Found at i:34296604 original size:28 final size:29
Alignment explanation
Indices: 34296512--34296654 Score: 109
Period size: 28 Copynumber: 5.0 Consensus size: 29
34296502 AAAAGGGTAC
* *
34296512 AAAAT-ATATACATGTACATATATA-AAA
1 AAAATAATATACATATATATATATATAAA
* *
34296539 AAAATTATATACATATATATAGATTATAAA
1 AAAATAATATACATATATATATA-TATAAA
34296569 AAAGATAAT-TACATATATATATATATAAA
1 AAA-ATAATATACATATATATATATATAAA
* *
34296598 CAAATAATAATA-AT-TACATATAT-TAAA
1 AAAATAAT-ATACATATATATATATATAAA
* * * *
34296625 ATTAATTAATTTAGAAATATATATATATAA
1 A--AAATAATATACATATATATATATATAA
34296655 TTTATGAAGA
Statistics
Matches: 93, Mismatches: 12, Indels: 18
0.76 0.10 0.15
Matches are distributed among these distances:
27 9 0.10
28 29 0.31
29 19 0.20
30 29 0.31
31 7 0.08
ACGTcount: A:0.57, C:0.04, G:0.03, T:0.36
Consensus pattern (29 bp):
AAAATAATATACATATATATATATATAAA
Found at i:34296776 original size:17 final size:17
Alignment explanation
Indices: 34296724--34296797 Score: 64
Period size: 17 Copynumber: 4.5 Consensus size: 17
34296714 ATATAAAAGT
*
34296724 ATGTATATGCATATAAA
1 ATGTATATGTATATAAA
* * *
34296741 A-GT-TAGGAAATAAAAA
1 ATGTATATG-TATATAAA
34296757 ATGTATATGTATATAAA
1 ATGTATATGTATATAAA
* *
34296774 ATGTAAATGTATAT-AT
1 ATGTATATGTATATAAA
34296790 ATGTATAT
1 ATGTATAT
34296798 AAAAGTTATG
Statistics
Matches: 45, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
15 3 0.07
16 17 0.38
17 22 0.49
18 3 0.07
ACGTcount: A:0.49, C:0.01, G:0.14, T:0.36
Consensus pattern (17 bp):
ATGTATATGTATATAAA
Found at i:34296804 original size:60 final size:62
Alignment explanation
Indices: 34296711--34296833 Score: 160
Period size: 60 Copynumber: 2.0 Consensus size: 62
34296701 AAAGTAAAAA
* * * *
34296711 AAAATATAAAAGTATGTATATGCATATAAAAGTTA-GGAAATA-AAAAATGTATATGTATAT
1 AAAATATAAAAGTATATATATGCATATAAAAGTTATGCAAATAGAAAAATATATATATATAT
* * * *
34296771 AAAATGTAAATGTATATATATGTATATAAAAGTTATGCAAATAGAATAATATATATATATAT
1 AAAATATAAAAGTATATATATGCATATAAAAGTTATGCAAATAGAAAAATATATATATATAT
34296833 A
1 A
34296834 TATATATATA
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
60 31 0.58
61 6 0.11
62 16 0.30
ACGTcount: A:0.53, C:0.02, G:0.11, T:0.34
Consensus pattern (62 bp):
AAAATATAAAAGTATATATATGCATATAAAAGTTATGCAAATAGAAAAATATATATATATAT
Found at i:34296826 original size:2 final size:2
Alignment explanation
Indices: 34296819--34296855 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
34296809 AAATAGAATA
34296819 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34296856 GTGCATGTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:34296948 original size:3 final size:3
Alignment explanation
Indices: 34296940--34296975 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
34296930 GTATATATAG
* *
34296940 TAA TAA TAA TAA TAA TGA TAA TAA TAA CAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
34296976 CTTTATAACA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:34297308 original size:20 final size:20
Alignment explanation
Indices: 34297283--34297334 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
34297273 TACAAATTAA
34297283 ATCTCTAAGATTACAAAATC
1 ATCTCTAAGATTACAAAATC
34297303 ATCTCTAAGATTACAAAATC
1 ATCTCTAAGATTACAAAATC
*
34297323 ATATCTAAGATT
1 ATCTCTAAGATT
34297335 GCATATCCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.44, C:0.17, G:0.06, T:0.33
Consensus pattern (20 bp):
ATCTCTAAGATTACAAAATC
Found at i:34297982 original size:3 final size:3
Alignment explanation
Indices: 34297974--34298038 Score: 130
Period size: 3 Copynumber: 21.7 Consensus size: 3
34297964 TTATCAAACA
34297974 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
34298022 ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT AT
34298039 CAGGATTTGA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:34298825 original size:23 final size:23
Alignment explanation
Indices: 34298795--34298852 Score: 116
Period size: 23 Copynumber: 2.5 Consensus size: 23
34298785 ATACCATCCA
34298795 TATTCATGTCTCCAGCAATGCTG
1 TATTCATGTCTCCAGCAATGCTG
34298818 TATTCATGTCTCCAGCAATGCTG
1 TATTCATGTCTCCAGCAATGCTG
34298841 TATTCATGTCTC
1 TATTCATGTCTC
34298853 AAACCCTCAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.21, C:0.26, G:0.16, T:0.38
Consensus pattern (23 bp):
TATTCATGTCTCCAGCAATGCTG
Found at i:34305261 original size:21 final size:21
Alignment explanation
Indices: 34305233--34305287 Score: 85
Period size: 21 Copynumber: 2.6 Consensus size: 21
34305223 ATCATTGTTT
34305233 CTAATCTCACCGCTACAAT-A
1 CTAATCTCACCGCTACAATAA
*
34305253 CTCAATCTCACCGCTACAGTAA
1 CT-AATCTCACCGCTACAATAA
34305275 CTAATCTCACCGC
1 CTAATCTCACCGC
34305288 CACCGCTGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
20 2 0.06
21 27 0.84
22 3 0.09
ACGTcount: A:0.31, C:0.38, G:0.07, T:0.24
Consensus pattern (21 bp):
CTAATCTCACCGCTACAATAA
Found at i:34306150 original size:25 final size:25
Alignment explanation
Indices: 34306122--34306169 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
34306112 TTAGCAATTT
34306122 ATATATAATT-TTT-AATATTAATAGC
1 ATAT-TAATTATTTAAAT-TTAATAGC
34306147 ATATTAATTATTTAAATTTAATA
1 ATATTAATTATTTAAATTTAATA
34306170 TTTTACATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.24
25 13 0.62
26 3 0.14
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (25 bp):
ATATTAATTATTTAAATTTAATAGC
Found at i:34307998 original size:15 final size:15
Alignment explanation
Indices: 34307978--34308008 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
34307968 TTGATGCTTG
34307978 TTATAAAATATATCT
1 TTATAAAATATATCT
34307993 TTATAAAATATATCT
1 TTATAAAATATATCT
34308008 T
1 T
34308009 AACCTGATTT
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:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (15 bp):
TTATAAAATATATCT
Found at i:34323467 original size:67 final size:66
Alignment explanation
Indices: 34323357--34323543 Score: 293
Period size: 67 Copynumber: 2.8 Consensus size: 66
34323347 ATGTAAATTA
* * *
34323357 TGTATTGAATTTCTATTTTTGTATCAACTTCAATTATTGACATATATCTGCATTATGTATCCCAT
1 TGTATTGAATTTCT-TTCTTGTATCAACTTCAATTATTTACATATATTTGCATTATGTATCCCAT
34323422 TT
65 TT
*
34323424 TGTATTGAATTTCCTTTCTTGTATAAACTTCAATTATTTACATATATTTGCATTATGTATCCCAT
1 TGTATTGAATTT-CTTTCTTGTATCAACTTCAATTATTTACATATATTTGCATTATGTATCCCAT
34323489 TT
65 TT
* *
34323491 TGTATTGAAATTTCATTCTTGTATCAACTTCAATTATTTACATCTATTTGCAT
1 TGTATTG-AATTTCTTTCTTGTATCAACTTCAATTATTTACATATATTTGCAT
34323544 GAACTTGATT
Statistics
Matches: 111, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
67 104 0.94
68 7 0.06
ACGTcount: A:0.27, C:0.15, G:0.08, T:0.50
Consensus pattern (66 bp):
TGTATTGAATTTCTTTCTTGTATCAACTTCAATTATTTACATATATTTGCATTATGTATCCCATT
T
Found at i:34337933 original size:242 final size:242
Alignment explanation
Indices: 34337490--34337968 Score: 805
Period size: 242 Copynumber: 2.0 Consensus size: 242
34337480 TGTAAAGATA
**
34337490 CACTTCGTGTAAGCTTTCCCGAGTATCCAATGTAATTCTAGATGGTCCAACGAGTAAGAAAAGGG
1 CACTTCGTGTAAGCTTTCCAAAGTATCCAATGTAATTCTAGATGGTCCAACGAGTAAGAAAAGGG
34337555 AATGAAAAAGTAAGTTCATAATTGGGATGTAATATGATGTTATAAAAATGATTGATGAGTTAAAT
66 AATGAAAAAGTAAGTTCATAATTGGGATGTAATATGATGTTATAAAAATGATTGATGAGTTAAAT
* * *
34337620 GATGTACTTATATATGAGAAATCTACTTATACTATGGATGAGTTCATTTATATCATGGAGAAACA
131 AATGTACTTATATATGAGAAATCTACTTATACTATGGATGAATTCATTTATATCATGGACAAACA
*
34337685 CACTAACTTGTGAATTGATAATGTTGTTTAAGCTTATGCTAAAGGCC
196 CACTAACTTGTGAATTGATAAAGTTGTTTAAGCTTATGCTAAAGGCC
* * * **
34337732 CACTTCTTGTAAGCTTTCCAAAGTATCCGATGTAATTTTAGATGGTTTAACGAGTAAGAAAAGGG
1 CACTTCGTGTAAGCTTTCCAAAGTATCCAATGTAATTCTAGATGGTCCAACGAGTAAGAAAAGGG
** *
34337797 AATGAAACGGTAAGTTCATAATTGGGATGTAATATGATGTTATAGAAATGATTGATGAGTTAAAT
66 AATGAAAAAGTAAGTTCATAATTGGGATGTAATATGATGTTATAAAAATGATTGATGAGTTAAAT
**
34337862 AATGTACTTATATATGAGAAATCTACTTATACTATGGATGAATTCATTTATATCATGGACAAATG
131 AATGTACTTATATATGAGAAATCTACTTATACTATGGATGAATTCATTTATATCATGGACAAACA
*
34337927 CACTAACTTGTGAATTGATAAAGTTGTTTAGGCTTATGCTAA
196 CACTAACTTGTGAATTGATAAAGTTGTTTAAGCTTATGCTAA
34337969 GCATTTAGAA
Statistics
Matches: 220, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
242 220 1.00
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.34
Consensus pattern (242 bp):
CACTTCGTGTAAGCTTTCCAAAGTATCCAATGTAATTCTAGATGGTCCAACGAGTAAGAAAAGGG
AATGAAAAAGTAAGTTCATAATTGGGATGTAATATGATGTTATAAAAATGATTGATGAGTTAAAT
AATGTACTTATATATGAGAAATCTACTTATACTATGGATGAATTCATTTATATCATGGACAAACA
CACTAACTTGTGAATTGATAAAGTTGTTTAAGCTTATGCTAAAGGCC
Found at i:34342015 original size:67 final size:67
Alignment explanation
Indices: 34341907--34342052 Score: 202
Period size: 67 Copynumber: 2.2 Consensus size: 67
34341897 AACTTTCTTG
* * *
34341907 TGTTTAATGTCCCAATAAACTCTCTATGCTTCCATGATCGAGCTACGGTCTTACACATTATTCCC
1 TGTTTAATGTCCCAACAAACTCTCTATGCTTCCATGATCGAGCCACAGTCTTACACATTATTCCC
34341972 CA
66 CA
** * * * *
34341974 TGTTTAATGTCCCGGCAAACTCTTTATGTTTCTATGGTCGAGCCACAGTCTTACACATTATTCCC
1 TGTTTAATGTCCCAACAAACTCTCTATGCTTCCATGATCGAGCCACAGTCTTACACATTATTCCC
*
34342039 TA
66 CA
34342041 TGTTTAATGTCC
1 TGTTTAATGTCC
34342053 TGGTGGGCTC
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
67 69 1.00
ACGTcount: A:0.23, C:0.26, G:0.14, T:0.37
Consensus pattern (67 bp):
TGTTTAATGTCCCAACAAACTCTCTATGCTTCCATGATCGAGCCACAGTCTTACACATTATTCCC
CA
Found at i:34342818 original size:14 final size:14
Alignment explanation
Indices: 34342799--34342827 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
34342789 CACAGTGGCG
34342799 AAAACTAGACACCA
1 AAAACTAGACACCA
34342813 AAAACTAGACACCA
1 AAAACTAGACACCA
34342827 A
1 A
34342828 CACATCATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.28, G:0.07, T:0.07
Consensus pattern (14 bp):
AAAACTAGACACCA
Found at i:34345529 original size:21 final size:22
Alignment explanation
Indices: 34345505--34345545 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
34345495 CTGTATGTAC
34345505 TACAA-TTTTTTGAGCATTTGA
1 TACAATTTTTTTGAGCATTTGA
*
34345526 TACAATTTTTTTGAGGATTT
1 TACAATTTTTTTGAGCATTT
34345546 TTCAAAGAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.27, C:0.07, G:0.15, T:0.51
Consensus pattern (22 bp):
TACAATTTTTTTGAGCATTTGA
Found at i:34353340 original size:23 final size:23
Alignment explanation
Indices: 34353295--34353341 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
34353285 TTATTTTAGT
* *
34353295 TTTTATTATTATTAAATTAATTA
1 TTTTAATATTATTAAACTAATTA
34353318 TTTTAATATTATTAATACT-ATTA
1 TTTTAATATTATTAA-ACTAATTA
34353341 T
1 T
34353342 GTGGCATCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 19 0.90
24 2 0.10
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (23 bp):
TTTTAATATTATTAAACTAATTA
Found at i:34353509 original size:36 final size:36
Alignment explanation
Indices: 34353434--34353509 Score: 84
Period size: 36 Copynumber: 2.1 Consensus size: 36
34353424 CATACATACG
*
34353434 TTTTATAATATATACATATACGTACACATTTTTTAAT
1 TTTTATAATATATACATATACG-ACACATTTTATAAT
* *
34353471 TTTTATAA-ATATATATATAC-ACATACTTTTATATAT
1 TTTTATAATATATACATATACGACACA-TTTTATA-AT
34353507 TTT
1 TTT
34353510 CTATGTTTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
34 4 0.12
35 6 0.18
36 16 0.47
37 8 0.24
ACGTcount: A:0.38, C:0.09, G:0.01, T:0.51
Consensus pattern (36 bp):
TTTTATAATATATACATATACGACACATTTTATAAT
Found at i:34353637 original size:23 final size:22
Alignment explanation
Indices: 34353610--34353653 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
34353600 ATAATTCACA
*
34353610 TACATATATATTTTTCTTATATG
1 TACATATATATATTT-TTATATG
34353633 TACATATATATATTTTTATAT
1 TACATATATATATTTTTATAT
34353654 TTTATAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (22 bp):
TACATATATATATTTTTATATG
Found at i:34356572 original size:51 final size:51
Alignment explanation
Indices: 34356458--34356641 Score: 167
Period size: 51 Copynumber: 3.6 Consensus size: 51
34356448 AGTTGCTAGG
* * * * * * *
34356458 TCACGTGTGTAGTACCATGTGCAGGCTACTACGTGTACTAGAATG-ATA-GG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTAC-CGGATGAAAATGA
* * * * ***
34356508 TCGCATGTGTAGTACTATGTCCAGGCAACTATGCGTACCGGAT-AGCTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATGAAAAT-GA
* * * *
34356559 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGAAAATGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATGAAAATGA
34356610 TCACGTGTGTAGTACTATGTGCAGGCTACTAT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTAT
34356642 TTGAACTGGG
Statistics
Matches: 105, Mismatches: 25, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
49 3 0.03
50 31 0.30
51 69 0.66
52 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.29
Consensus pattern (51 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATGAAAATGA
Found at i:34359369 original size:47 final size:47
Alignment explanation
Indices: 34359318--34359422 Score: 122
Period size: 47 Copynumber: 2.2 Consensus size: 47
34359308 TGGTTGGACC
* * *
34359318 ATGGCAAC-ATGTGATATGTGATTTCCGTATAAGACCATATCTGGGAT
1 ATGGCAACAATGTGATATGTG-CTACCGTATAAGACCATAGCTGGGAT
* * * *
34359365 ATGGCATCAATGTGATATGTGCTACTGTGTAAGACCATAGCTGGGCT
1 ATGGCAACAATGTGATATGTGCTACCGTATAAGACCATAGCTGGGAT
*
34359412 ATGGCATCAAT
1 ATGGCAACAAT
34359423 ATGTAAATAT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
47 38 0.76
48 12 0.24
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (47 bp):
ATGGCAACAATGTGATATGTGCTACCGTATAAGACCATAGCTGGGAT
Found at i:34370240 original size:29 final size:29
Alignment explanation
Indices: 34370208--34370422 Score: 152
Period size: 29 Copynumber: 7.4 Consensus size: 29
34370198 GTTGTAATCG
*
34370208 TCCCTTTTCATATTCGATGGTCGAAACCA
1 TCCCTTTTCATATTCGATGGTCGTAACCA
* *
34370237 TCCCTTTTCATTAAAT-GATGGTCGTCACCA
1 TCCCTTTTCA-T-ATTCGATGGTCGTAACCA
* *
34370267 TCCCTTTTCATAGTT-GATGGTTGTCACCA
1 TCCCTTTTCATA-TTCGATGGTCGTAACCA
* * * * * * *
34370296 TCCCTTTTCAAAATCAATAGCCGAAACTA
1 TCCCTTTTCATATTCGATGGTCGTAACCA
* * *
34370325 TCCCTTTTCATAATCGATAG-C-TGAAGCTA
1 TCCCTTTTCATATTCGATGGTCGT-AA-CCA
* * *
34370354 TCCTTTTTCATATTCGATGGTTGTTACCA
1 TCCCTTTTCATATTCGATGGTCGTAACCA
* *
34370383 TCCCTTTTCATAGTT-GATAGTCGTCACCA
1 TCCCTTTTCATA-TTCGATGGTCGTAACCA
*
34370412 TCCTTTTTCAT
1 TCCCTTTTCAT
34370423 GATTGATAGC
Statistics
Matches: 149, Mismatches: 28, Indels: 18
0.76 0.14 0.09
Matches are distributed among these distances:
28 5 0.03
29 115 0.77
30 26 0.17
31 3 0.02
ACGTcount: A:0.23, C:0.26, G:0.13, T:0.39
Consensus pattern (29 bp):
TCCCTTTTCATATTCGATGGTCGTAACCA
Found at i:34370415 original size:58 final size:58
Alignment explanation
Indices: 34370208--34370422 Score: 168
Period size: 58 Copynumber: 3.7 Consensus size: 58
34370198 GTTGTAATCG
* * *
34370208 TCCCTTTTCATA-TTCGATGGTCGAAACCATCCCTTTTCATTAAAT-GATGGTCGTCACCA
1 TCCCTTTTCATAGTT-GATAGTCGTAACCATCCCTTTTCA-T-AATCGATGGTCGTAACCA
* * * * * * * * *
34370267 TCCCTTTTCATAGTTGATGGTTGTCACCATCCCTTTTCAAAATCAATAGCCGAAACTA
1 TCCCTTTTCATAGTTGATAGTCGTAACCATCCCTTTTCATAATCGATGGTCGTAACCA
* * * * * * *
34370325 TCCCTTTTCATAATCGATAG-C-TGAAGCTATCCTTTTTCATATTCGATGGTTGTTACCA
1 TCCCTTTTCATAGTTGATAGTCGT-AA-CCATCCCTTTTCATAATCGATGGTCGTAACCA
* *
34370383 TCCCTTTTCATAGTTGATAGTCGTCACCATCCTTTTTCAT
1 TCCCTTTTCATAGTTGATAGTCGTAACCATCCCTTTTCAT
34370423 GATTGATAGC
Statistics
Matches: 120, Mismatches: 30, Indels: 13
0.74 0.18 0.08
Matches are distributed among these distances:
56 1 0.01
57 4 0.03
58 77 0.64
59 35 0.29
60 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.13, T:0.39
Consensus pattern (58 bp):
TCCCTTTTCATAGTTGATAGTCGTAACCATCCCTTTTCATAATCGATGGTCGTAACCA
Found at i:34370420 original size:87 final size:87
Alignment explanation
Indices: 34370266--34370451 Score: 221
Period size: 87 Copynumber: 2.1 Consensus size: 87
34370256 GGTCGTCACC
*
34370266 ATCCCTTTTCATAGTTGATGGTTGTCACCATCCCTTTTCAAAATCAATAGCCGAAACTATCCCTT
1 ATCCCTTTTCATAGTTGATGGTTGTCACCATCCCTTTTCAAAATCAATAGCCGAAACCATCCCTT
**
34370331 TTCATAATCGATAGCTGAAGCT
66 TTCATAATCGATAGCCAAAGCT
* * * * ** * ** *
34370353 ATCCTTTTTCATA-TTCGATGGTTGTTACCATCCCTTTTCATAGTTGATAGTCGTCACCATCCTT
1 ATCCCTTTTCATAGTT-GATGGTTGTCACCATCCCTTTTCAAAATCAATAGCCGAAACCATCCCT
* *
34370417 TTTCATGATTGATAGCCAAAGCT
65 TTTCATAATCGATAGCCAAAGCT
34370440 ATCCCTTTTCAT
1 ATCCCTTTTCAT
34370452 TGGTCGATGA
Statistics
Matches: 82, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
86 2 0.02
87 80 0.98
ACGTcount: A:0.24, C:0.25, G:0.12, T:0.39
Consensus pattern (87 bp):
ATCCCTTTTCATAGTTGATGGTTGTCACCATCCCTTTTCAAAATCAATAGCCGAAACCATCCCTT
TTCATAATCGATAGCCAAAGCT
Found at i:34376614 original size:48 final size:48
Alignment explanation
Indices: 34376531--34376656 Score: 144
Period size: 48 Copynumber: 2.6 Consensus size: 48
34376521 GGTCGCATAT
* * * * * * *
34376531 GTGGCACGGACTGTGTGCAGGCCGCCAATATTCTGTTAAGATACAAGG
1 GTGGCACGGACTATGTGCAGGCCACCGAGAGTCTGTTAAGACACAAAG
*
34376579 GTGGCACGGACTATGTGCAGGCCACCGAGAGTCTGTTATGACACAAAG
1 GTGGCACGGACTATGTGCAGGCCACCGAGAGTCTGTTAAGACACAAAG
* * * *
34376627 GTGGTACGGACTTTGTGTAGGCCATCGAGA
1 GTGGCACGGACTATGTGCAGGCCACCGAGA
34376657 AATCTGGTTT
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 66 1.00
ACGTcount: A:0.25, C:0.21, G:0.33, T:0.22
Consensus pattern (48 bp):
GTGGCACGGACTATGTGCAGGCCACCGAGAGTCTGTTAAGACACAAAG
Found at i:34381162 original size:16 final size:16
Alignment explanation
Indices: 34381129--34381163 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
34381119 TTGTGTTTCG
*
34381129 TTTTGACTGCACGGCA
1 TTTTGACTGCACGACA
*
34381145 TTTTGACTGCATGACA
1 TTTTGACTGCACGACA
34381161 TTT
1 TTT
34381164 CATCTTAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (16 bp):
TTTTGACTGCACGACA
Found at i:34383028 original size:15 final size:15
Alignment explanation
Indices: 34383008--34383037 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
34382998 ATTCAATCAC
34383008 AAAAAAAATCAAAAT
1 AAAAAAAATCAAAAT
*
34383023 AAAAAAAATGAAAAT
1 AAAAAAAATCAAAAT
34383038 GATGGAAAAA
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:0.80, C:0.03, G:0.03, T:0.13
Consensus pattern (15 bp):
AAAAAAAATCAAAAT
Found at i:34385423 original size:89 final size:89
Alignment explanation
Indices: 34385269--34385653 Score: 421
Period size: 89 Copynumber: 4.3 Consensus size: 89
34385259 TGAAACTATA
* * * *
34385269 AGCCTTGCCCCCCTAAGTTTACAGTGGAGCAGACTAAAGATAGTAGATCTTGCCTTCCTGCACTG
1 AGCCTTGCCTCCCTGAGTTTGCAGTGGAGCAGACTAAAGATAGTAGATCTTGCCTTCCTGTACTG
* * *
34385334 GCAATGAAGCATATCGAAGACACT
66 GCAACGAAGCAGATCGAAGACACC
* *
34385358 AGCCTTGCCTCCCTGAGTTTGCGGTGGAGTAGACTAAAGATAGTAGATCTTGCCTTCCTGTACTG
1 AGCCTTGCCTCCCTGAGTTTGCAGTGGAGCAGACTAAAGATAGTAGATCTTGCCTTCCTGTACTG
* *
34385423 GCAGCGAAGCAGATCGAAGACACT
66 GCAACGAAGCAGATCGAAGACACC
*** ** * * * * *
34385447 AGCCTTGCCTCCCTGAGTTTATGGCAGAGCAAACTGAAGATAGCAGATCTTGTCTTCCTGTATTG
1 AGCCTTGCCTCCCTGAGTTTGCAGTGGAGCAGACTAAAGATAGTAGATCTTGCCTTCCTGTACTG
*
34385512 GCAACGAAGTAGATCGAAGACACC
66 GCAACGAAGCAGATCGAAGACACC
* * * * * *
34385536 AGCCTTGCCTCCTTGAGTTCGCAGTGGAGCAGACTGAAA-ATAGAAAATATTGTCTTCCTGTACT
1 AGCCTTGCCTCCCTGAGTTTGCAGTGGAGCAGACT-AAAGATAGTAGATCTTGCCTTCCTGTACT
* ** * *
34385600 AGCAGTGAAGTAGATCGAAAACACC
65 GGCAACGAAGCAGATCGAAGACACC
* ** *
34385625 AACCTTGCCTCATTGAGTTTGTAGTGGAG
1 AGCCTTGCCTCCCTGAGTTTGCAGTGGAG
34385654 TAGGTAGAAA
Statistics
Matches: 252, Mismatches: 43, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
89 250 0.99
90 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (89 bp):
AGCCTTGCCTCCCTGAGTTTGCAGTGGAGCAGACTAAAGATAGTAGATCTTGCCTTCCTGTACTG
GCAACGAAGCAGATCGAAGACACC
Found at i:34385456 original size:44 final size:43
Alignment explanation
Indices: 34385317--34385462 Score: 114
Period size: 44 Copynumber: 3.3 Consensus size: 43
34385307 GATAGTAGAT
* * *
34385317 CTTGCCTTCCTGCACTGGCAATGAAGCATATCGAAGACACTAGC
1 CTTGCCTCCCTG-ACTGGCAGTGAAGCAGATCGAAGACACTAGC
* * * * * * * * *
34385361 CTTGCCTCCCTGAGTTTGCGGTGGAGTAGA-CTAAAGATAGTAGAT
1 CTTGCCTCCCTGA-CTGGCAGTGAAGCAGATC-GAAGACACTAG-C
* *
34385406 CTTGCCTTCCTGTACTGGCAGCGAAGCAGATCGAAGACACTAGC
1 CTTGCCTCCCTG-ACTGGCAGTGAAGCAGATCGAAGACACTAGC
34385450 CTTGCCTCCCTGA
1 CTTGCCTCCCTGA
34385463 GTTTATGGCA
Statistics
Matches: 73, Mismatches: 24, Indels: 11
0.68 0.22 0.10
Matches are distributed among these distances:
43 3 0.04
44 39 0.53
45 29 0.40
46 2 0.03
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (43 bp):
CTTGCCTCCCTGACTGGCAGTGAAGCAGATCGAAGACACTAGC
Found at i:34385855 original size:44 final size:43
Alignment explanation
Indices: 34385764--34386226 Score: 294
Period size: 44 Copynumber: 10.7 Consensus size: 43
34385754 CACCAGTCTC
* * * ***
34385764 ATCTCCCTGAAGTTACAGCGGAGCAGATTGAAGACAATAAT-TCT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAATGCTAATCT-T
34385808 ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATGCTAGATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATGCTA-ATCTT
* * * * * * *
34385852 ATCTCTCTAAAGTTGTAGTAGAGCAGA-TCACAT-CCAATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATGCTAATCTT
* * * * * *
34385893 ACCTCCCTAAAGTTGCAGTGGGGCAGACTAAAGACGGCGAATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA-A-TGCTAATCTT
*
34385938 ATCTCCCTGAAGTTGCAGTGGAGCAGATT-GAA-GCCAATAATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATG-C--TAATCTT
* * * *
34385982 ATATCCCTAAAGTTGCAGTGGAGCAGATTAAATTGCTAGATTTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATGCTA-ATCTT
* * * * * *** * *
34386026 ATCTCTCTAAAGTTACAGTAGAGCA-AATCGCAT-CCAGTCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATGCTAATCTT
* * * *
34386067 ATCTCCCTGAAGTTGCAGTAGAGCAGACTGAATAA-ACCAATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAA-AATGCTAATCTT
* **
34386111 ATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAACTAATAATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAA-TGCTAATCTT
* * *** * * *
34386155 ATCTCTCTGAAGTTGCAGTGAATTGGATTAGAATGATGGATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATGCT-AATCTT
* *
34386199 ATCTCTCTGAAGTTGCAGTAGAGCAGAT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGAT
34386227 CGCTACAAGT
Statistics
Matches: 327, Mismatches: 73, Indels: 38
0.75 0.17 0.09
Matches are distributed among these distances:
41 53 0.16
42 10 0.03
43 22 0.07
44 206 0.63
45 35 0.11
46 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (43 bp):
ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATGCTAATCTT
Found at i:34385967 original size:174 final size:173
Alignment explanation
Indices: 34385755--34386271 Score: 605
Period size: 174 Copynumber: 3.0 Consensus size: 173
34385745 GATTTAAGCC
* * * *
34385755 ACCAGTCTCATCTCCCTGAAGTTACAGCGGAGCAGATTGAAGACAATAAT-TCTATCTCCCTGAA
1 ACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAATAATCT-TATCTCCCTGAA
*
34385819 GTTGCAGTGGAGCAGATTAAAATGCTAGATCTTATCTCTCTAAAGTTGTAGTAGAGCAGATCACA
65 GTTGCAGTGGAGCAGATTAAAATGCTAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCACA
* * *
34385884 TCCAATCTTACCTCCCTAAAGTTGCAGTGGGGCAGACT-AA-AG
130 TCCAATCTTACCTCCCTAAAGTTGCAGTAGAGCAGACTGAATAA
* * *
34385926 ACGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCAATAATCTTATATCCCTA
1 AC--C-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAATAATCTTATCTCCCTG
* * * * *
34385991 AAGTTGCAGTGGAGCAGATTAAATTGCTAGATTTTATCTCTCTAAAGTTACAGTAGAGCAAATCG
63 AAGTTGCAGTGGAGCAGATTAAAATGCTAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCA
* * *
34386056 CATCCAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAATAA
128 CATCCAATCTTACCTCCCTAAAGTTGCAGTAGAGCAGACTGAATAA
* * *
34386102 ACCAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATT-AAAACTAATAATCTTATCTCTCTGAA
1 ACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAC-AATAATCTTATCTCCCTGAA
* *** * * * * *
34386166 GTTGCAGTGAATTGGATTAGAATGATGGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGC-
65 GTTGCAGTGGAGCAGATTAAAATGCTAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCACA
* * * * *
34386230 TACAAGTCTTATCT-CCTCGAAGTTGTAGTGGAGCAGACTGAA
130 TCCAA-TCTTACCTCCCT-AAAGTTGCAGTAGAGCAGACTGAA
34386272 GATAACAAAT
Statistics
Matches: 296, Mismatches: 41, Indels: 16
0.84 0.12 0.05
Matches are distributed among these distances:
171 2 0.01
172 9 0.03
173 134 0.45
174 145 0.49
175 3 0.01
176 3 0.01
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.29
Consensus pattern (173 bp):
ACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAATAATCTTATCTCCCTGAAG
TTGCAGTGGAGCAGATTAAAATGCTAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCACAT
CCAATCTTACCTCCCTAAAGTTGCAGTAGAGCAGACTGAATAA
Found at i:34386124 original size:85 final size:84
Alignment explanation
Indices: 34385807--34386268 Score: 297
Period size: 85 Copynumber: 5.4 Consensus size: 84
34385797 ACAATAATTC
* * * * *
34385807 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATGCTAGATCTTATCTCTCTAAAGTTGTAGTA
1 TATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAA-ACCAGATCTTATCTCTCTAAAGTTGCAGTA
*
34385872 GAGCAGATCACATCCAATCT
65 GAGCAGATCGCATCCAATCT
* * * * *
34385892 TACCTCCCTAAAGTTGCAGTGGGGCAGACTAAAGACGGC-GAATCTTATCTCCCTGAAGTTGCAG
1 TATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAAAC--CAG-ATCTTATCTCTCTAAAGTTGCAG
* * * *
34385956 TGGAGCAGATTGAAGCCAATAATCT
63 TAGAGCAGATCGCATCC---AATCT
* * ** * * *
34385981 TATATCCCTAAAGTTGCAGTGGAGCAGATTAAATTGCTAGATTTTATCTCTCTAAAGTTACAGTA
1 TATCTCCCTAAAGTTGCAGTGGAGCAGACTAAA-AACCAGATCTTATCTCTCTAAAGTTGCAGTA
* *
34386046 GAGCAAATCGCATCCAGTCT
65 GAGCAGATCGCATCCAATCT
* * *
34386066 TATCTCCCTGAAGTTGCAGTAGAGCAGACTGAATAAACCA-ATCTTATCTC-CTTGAAGTTGCAG
1 TATCTCCCTAAAGTTGCAGTGGAGCAGACT-AA-AAACCAGATCTTATCTCTC-TAAAGTTGCAG
* *** **
34386129 TGGAGCAGATTAAAACTAATAATCT
63 TAGAGCAGA-TCGCA-T-CCAATCT
* * * *** * * ** *
34386154 TATCTCTCTGAAGTTGCAGTGAATTGGATTAGAATGA-TGGATCTTATCTCTCTGAAGTTGCAGT
1 TATCTCCCTAAAGTTGCAGTGGAGCAGACTA-AA-AACCAGATCTTATCTCTCTAAAGTTGCAGT
*
34386218 AGAGCAGATCGC-TACAAGTCT
64 AGAGCAGATCGCATCCAA-TCT
* *
34386239 TATCT-CCTCGAAGTTGTAGTGGAGCAGACT
1 TATCTCCCT-AAAGTTGCAGTGGAGCAGACT
34386269 GAAGATAACA
Statistics
Matches: 285, Mismatches: 72, Indels: 40
0.72 0.18 0.10
Matches are distributed among these distances:
84 7 0.02
85 109 0.38
86 38 0.13
87 5 0.02
88 89 0.31
89 36 0.13
90 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.29
Consensus pattern (84 bp):
TATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAAACCAGATCTTATCTCTCTAAAGTTGCAGTAG
AGCAGATCGCATCCAATCT
Found at i:34386168 original size:129 final size:129
Alignment explanation
Indices: 34385934--34386173 Score: 322
Period size: 129 Copynumber: 1.9 Consensus size: 129
34385924 AGACGGCGAA
* * * *
34385934 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCAATAATCTTATATCCCTAAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGCAAACAATCTTATATCCCTAAAGTTGCA
* ** *
34385999 GTGGAGCAGATTAAATTGCTAGATTTTATCTCTCTAAAGTTACAGTAGAGCAAATCGCATCCAG
66 GTGGAGCAGATTAAACTAATAGATCTTATCTCTCTAAAGTTACAGTAGAGCAAATCGCATCCAG
* * * *
34386063 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAA-TAAACCAATCTTATCTCCTTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGCAAA-CAATCTTATATCCCTAAAGTTGC
* *
34386127 AGTGGAGCAGATTAAAACTAATA-ATCTTATCTCTCTGAAGTTGCAGT
65 AGTGGAGCAGATT-AAACTAATAGATCTTATCTCTCTAAAGTTACAGT
34386174 GAATTGGATT
Statistics
Matches: 95, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
128 2 0.02
129 87 0.92
130 6 0.06
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.31
Consensus pattern (129 bp):
TCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGCAAACAATCTTATATCCCTAAAGTTGCA
GTGGAGCAGATTAAACTAATAGATCTTATCTCTCTAAAGTTACAGTAGAGCAAATCGCATCCAG
Found at i:34387625 original size:24 final size:24
Alignment explanation
Indices: 34387596--34387710 Score: 96
Period size: 23 Copynumber: 4.9 Consensus size: 24
34387586 GTATTGTATA
*
34387596 TTATTATTTTAGATTTATCATGTT
1 TTATTATTTTAAATTTATCATGTT
* *
34387620 TTATTATTTGT-AATTTATCA-ATA
1 TTATTATTT-TAAATTTATCATGTT
*
34387643 TTATTATTTTAAATTCATC--GTT
1 TTATTATTTTAAATTTATCATGTT
**
34387665 AACATTATTTTAAATTTATCATG-T
1 -TTATTATTTTAAATTTATCATGTT
* *
34387689 ATATCTATTTCAAATTTATCAT
1 TTAT-TATTTTAAATTTATCAT
34387711 TAATATTTTT
Statistics
Matches: 74, Mismatches: 11, Indels: 12
0.76 0.11 0.12
Matches are distributed among these distances:
22 2 0.03
23 36 0.49
24 34 0.46
25 2 0.03
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.56
Consensus pattern (24 bp):
TTATTATTTTAAATTTATCATGTT
Found at i:34387683 original size:46 final size:46
Alignment explanation
Indices: 34387549--34387744 Score: 123
Period size: 47 Copynumber: 4.2 Consensus size: 46
34387539 ATGTTTATAC
* * * * * **
34387549 TTATTATTATTAAATTAATCATTAATATTA-TCTAAGTGTATTGTATA
1 TTATTATT-TTAAATTCATCATTAACATTATTTTAAATTTA-TCAATA
* * ***
34387596 TTATTATTTTAGATTTATCATGTTTTATTATTTGT-AATTTATCAATA
1 TTATTATTTTAAATTCATCAT-TAACATTATTT-TAAATTTATCAATA
* *
34387643 TTATTATTTTAAATTCATCGTTAACATTATTTTAAATTTATC-ATG
1 TTATTATTTTAAATTCATCATTAACATTATTTTAAATTTATCAATA
* * * *
34387688 TATATCTATTTCAAATTTATCATTAATA-T-TTTTAAATTTATTATATA
1 T-TAT-TATTTTAAATTCATCATTAACATTATTTTAAATTTATCA-ATA
*
34387735 CTATTATTTT
1 TTATTATTTT
34387745 GGATTTATCA
Statistics
Matches: 117, Mismatches: 24, Indels: 18
0.74 0.15 0.11
Matches are distributed among these distances:
45 21 0.18
46 34 0.29
47 56 0.48
48 5 0.04
49 1 0.01
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.56
Consensus pattern (46 bp):
TTATTATTTTAAATTCATCATTAACATTATTTTAAATTTATCAATA
Found at i:34387698 original size:47 final size:46
Alignment explanation
Indices: 34387622--34387743 Score: 117
Period size: 46 Copynumber: 2.7 Consensus size: 46
34387612 ATCATGTTTT
* *
34387622 ATTATTTGT-AATTTATCAATATTATTATTTTAAATTCATCGTTAAC
1 ATTATTT-TAAATTTATCAATATTATTATTTCAAATTCATCATTAAC
* * *
34387668 ATTATTTTAAATTTATC-ATGTATATCTATTTCAAATTTATCATTAAT
1 ATTATTTTAAATTTATCAATAT-TAT-TATTTCAAATTCATCATTAAC
* *
34387715 A-T-TTTTAAATTTATTATATACTATTATTT
1 ATTATTTTAAATTTATCA-ATATTATTATTT
34387744 TGGATTTATC
Statistics
Matches: 63, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
45 21 0.33
46 22 0.35
47 20 0.32
ACGTcount: A:0.35, C:0.07, G:0.02, T:0.55
Consensus pattern (46 bp):
ATTATTTTAAATTTATCAATATTATTATTTCAAATTCATCATTAAC
Found at i:34387716 original size:24 final size:23
Alignment explanation
Indices: 34387550--34387834 Score: 140
Period size: 24 Copynumber: 12.3 Consensus size: 23
34387540 TGTTTATACT
*
34387550 TATTATTATTAAATTAATCATTAA
1 TATTATT-TTAAATTTATCATTAA
* * * ** *
34387574 TATTA-TCTAAGTGTATTGTATAT
1 TATTATTTTAAATTTATCAT-TAA
* **
34387597 TATTATTTTAGATTTATCATGTTT
1 TATTATTTTAAATTTATCAT-TAA
* *
34387621 TATTATTTGT-AATTTATCAATAT
1 TATTATTT-TAAATTTATCATTAA
* *
34387644 TATTATTTTAAATTCATCGTTAA
1 TATTATTTTAAATTTATCATTAA
*
34387667 CATTATTTTAAATTTATCATGT-A
1 TATTATTTTAAATTTATCAT-TAA
*
34387690 TATCTATTTCAAATTTATCATTAA
1 TAT-TATTTTAAATTTATCATTAA
* *
34387714 TA-T-TTTTAAATTTATTATATAC
1 TATTATTTTAAATTTATCAT-TAA
** * *
34387736 TATTATTTTGGATTTATCACGTAC
1 TATTATTTTAAATTTATCA-TTAA
* * *
34387760 GATTATTCTAGAA-TTATCATCAA
1 TATTATTTTA-AATTTATCATTAA
* *
34387783 -AAT-TTTTAAATTTTAT-ATGTAT
1 TATTATTTTAAA-TTTATCAT-TAA
* *
34387805 TATTATTTCAAATTTATTATT-A
1 TATTATTTTAAATTTATCATTAA
34387827 TATTATTT
1 TATTATTT
34387835 AGTGTAATTA
Statistics
Matches: 195, Mismatches: 48, Indels: 38
0.69 0.17 0.14
Matches are distributed among these distances:
20 2 0.01
21 19 0.10
22 28 0.14
23 58 0.30
24 86 0.44
25 2 0.01
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.54
Consensus pattern (23 bp):
TATTATTTTAAATTTATCATTAA
Found at i:34390147 original size:26 final size:26
Alignment explanation
Indices: 34390079--34390148 Score: 68
Period size: 26 Copynumber: 2.7 Consensus size: 26
34390069 CTGTACATAT
* *
34390079 ATGCTCACATGAGCTATGAAATGAAT
1 ATGCTCACATGAGCTGTGAAATGAAC
** * **
34390105 ATGCTCACAAAAACTGTGAAATGGGC
1 ATGCTCACATGAGCTGTGAAATGAAC
*
34390131 CTGCTCACATGAGCTGTG
1 ATGCTCACATGAGCTGTG
34390149 GGTCAGAACA
Statistics
Matches: 33, Mismatches: 11, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (26 bp):
ATGCTCACATGAGCTGTGAAATGAAC
Found at i:34392482 original size:45 final size:45
Alignment explanation
Indices: 34392418--34392508 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
34392408 CAAACGAGTT
34392418 GACTTTGTCTCTGTAATGGACGGGGGACGTCCGATTTCACCGATC
1 GACTTTGTCTCTGTAATGGACGGGGGACGTCCGATTTCACCGATC
34392463 GACTTTGTCTCTGTAATGGACGGGGGACGTCCGATTTCACCGATC
1 GACTTTGTCTCTGTAATGGACGGGGGACGTCCGATTTCACCGATC
34392508 G
1 G
34392509 CTGTAGAACC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.18, C:0.24, G:0.30, T:0.29
Consensus pattern (45 bp):
GACTTTGTCTCTGTAATGGACGGGGGACGTCCGATTTCACCGATC
Found at i:34394278 original size:7 final size:7
Alignment explanation
Indices: 34394262--34394292 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
34394252 TATAGAATTA
34394262 AATTTAC
1 AATTTAC
*
34394269 AATTTGC
1 AATTTAC
34394276 AATTTAC
1 AATTTAC
34394283 AATTTAC
1 AATTTAC
34394290 AAT
1 AAT
34394293 AAAACAATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.42, C:0.13, G:0.03, T:0.42
Consensus pattern (7 bp):
AATTTAC
Found at i:34405992 original size:16 final size:16
Alignment explanation
Indices: 34405968--34405998 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34405958 TTAACATCAA
*
34405968 TTAACCTAAAAATTAT
1 TTAAACTAAAAATTAT
34405984 TTAAACTAAAAATTA
1 TTAAACTAAAAATTA
34405999 ACCAATTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (16 bp):
TTAAACTAAAAATTAT
Found at i:34409904 original size:43 final size:42
Alignment explanation
Indices: 34409756--34409904 Score: 172
Period size: 43 Copynumber: 3.5 Consensus size: 42
34409746 TGACAAATGT
* ** *
34409756 AGTGCATCATCAGATATACTGAAATAACTATACTAACACACAT
1 AGTGCATCATCAGATATAC-CAAATAACTATACTGGCACACAA
* * * *
34409799 AGTACATCATTACATATACCGAACTAACTATACTGGCACACAA
1 AGTGCATCATCAGATATACC-AAATAACTATACTGGCACACAA
* *
34409842 AGTGCATCATCAGATATACCAAAGTAATTATACTGGCACACAC
1 AGTGCATCATCAGATATACCAAA-TAACTATACTGGCACACAA
*
34409885 AGTGCATCATCGGATATACC
1 AGTGCATCATCAGATATACC
34409905 GAAGCATAAT
Statistics
Matches: 89, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
42 2 0.02
43 87 0.98
ACGTcount: A:0.40, C:0.23, G:0.12, T:0.24
Consensus pattern (42 bp):
AGTGCATCATCAGATATACCAAATAACTATACTGGCACACAA
Found at i:34417550 original size:20 final size:20
Alignment explanation
Indices: 34417515--34417563 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
34417505 ATCATGGTCT
*
34417515 TTGCTT-CTTCTTTACTTAC
1 TTGCTTACTTGTTTACTTAC
34417534 TCT-CTTACTTGTTTACTTAC
1 T-TGCTTACTTGTTTACTTAC
34417554 TTGCTTACTT
1 TTGCTTACTT
34417564 AGATAACTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.12, C:0.24, G:0.06, T:0.57
Consensus pattern (20 bp):
TTGCTTACTTGTTTACTTAC
Found at i:34417886 original size:50 final size:50
Alignment explanation
Indices: 34417769--34417954 Score: 193
Period size: 50 Copynumber: 3.7 Consensus size: 50
34417759 GATAATAACA
* * * *
34417769 TGCCAAAGCCATGTCCCAGACATGGTCTTACATTGGATGTT-TCTTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATAT-CGG
* *
34417818 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
** *
34417868 TGCTC-ATGCCATGTCCCAGACATGGTCTTACGA-GGGACCTCTCATCTCGG
1 TGC-CAATGCCATGTCCCAGACATGGTCTTAC-ATGGGAGTTCTCATATCGG
* * *
34417918 TGCCAACGCCATGTCCCTGACATGGTTTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
34417955 TCTCTTCACC
Statistics
Matches: 116, Mismatches: 14, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
48 4 0.03
49 39 0.34
50 71 0.61
51 2 0.02
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.29
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
Found at i:34421848 original size:14 final size:14
Alignment explanation
Indices: 34421829--34421859 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
34421819 TACTCAATCG
34421829 ATAACTACCATCAT
1 ATAACTACCATCAT
34421843 ATAACTACCATCAT
1 ATAACTACCATCAT
34421857 ATA
1 ATA
34421860 CAAACTCTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.29
Consensus pattern (14 bp):
ATAACTACCATCAT
Found at i:34430113 original size:27 final size:27
Alignment explanation
Indices: 34430081--34430138 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
34430071 GGCTCATGTG
*
34430081 AGCAGGCCCATTTTCATAGCTTGTGTA
1 AGCAGGCCCATTTTCATAGCTGGTGTA
*
34430108 AGCAGGCCCATTTTCATAGCTGGTGTG
1 AGCAGGCCCATTTTCATAGCTGGTGTA
34430135 AGCA
1 AGCA
34430139 TTCTGATTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.29
Consensus pattern (27 bp):
AGCAGGCCCATTTTCATAGCTGGTGTA
Found at i:34431314 original size:15 final size:16
Alignment explanation
Indices: 34431294--34431323 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34431284 TGGTGGCTTG
34431294 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
34431309 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
34431324 AGCATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:34433741 original size:62 final size:59
Alignment explanation
Indices: 34433664--34433778 Score: 149
Period size: 62 Copynumber: 1.9 Consensus size: 59
34433654 AGCGATTATC
* * * * *
34433664 TTAATATTAAATTTAATTTAATGTTTATTTTAAAGATAAATTTTCTATTAATTTAATAAGAT
1 TTAATATTAAATTTAATCTAATATTTATCTT---GATAAATATTATATTAATTTAATAAGAT
*
34433726 TTAATATTAACTTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAA
1 TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAA
34433779 AATTAGTATG
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
59 20 0.43
62 27 0.57
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.51
Consensus pattern (59 bp):
TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATAAGAT
Found at i:34434443 original size:14 final size:14
Alignment explanation
Indices: 34434424--34434450 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
34434414 TTCGAGTTAA
34434424 TATTGTTGATAAGG
1 TATTGTTGATAAGG
34434438 TATTGTTGATAAG
1 TATTGTTGATAAG
34434451 AACTATAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.26, T:0.44
Consensus pattern (14 bp):
TATTGTTGATAAGG
Found at i:34436140 original size:24 final size:24
Alignment explanation
Indices: 34436113--34436177 Score: 94
Period size: 24 Copynumber: 2.7 Consensus size: 24
34436103 CCTTGTGCAT
*
34436113 CACATGGCCTACCACATAGCCTGG
1 CACATGGCCTACCACACAGCCTGG
* *
34436137 CACAGGGCCTACCACACAGTCTGG
1 CACATGGCCTACCACACAGCCTGG
*
34436161 CACCTGGCCTACCACAC
1 CACATGGCCTACCACAC
34436178 GGCCATGTGG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.25, C:0.42, G:0.20, T:0.14
Consensus pattern (24 bp):
CACATGGCCTACCACACAGCCTGG
Found at i:34439291 original size:19 final size:22
Alignment explanation
Indices: 34439246--34439290 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
34439236 CCTTAAGATG
34439246 CTACGACGAACTGATCTAAATA
1 CTACGACGAACTGATCTAAATA
*
34439268 CTACGATGAACTGATCTAAATA
1 CTACGACGAACTGATCTAAATA
34439290 C
1 C
34439291 GGCTAAAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.40, C:0.22, G:0.13, T:0.24
Consensus pattern (22 bp):
CTACGACGAACTGATCTAAATA
Found at i:34451279 original size:21 final size:21
Alignment explanation
Indices: 34451255--34451322 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
34451245 GAACTATAAT
*
34451255 CAACACACTCAGATGCATCCA
1 CAACAAACTCAGATGCATCCA
34451276 CAACAAAGC-CAGATGCATCCA
1 CAACAAA-CTCAGATGCATCCA
* * * * *
34451297 TACCAAAATCAGACGCAGCCA
1 CAACAAACTCAGATGCATCCA
34451318 CAACA
1 CAACA
34451323 CTCTTCAATG
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
21 36 0.97
22 1 0.03
ACGTcount: A:0.43, C:0.35, G:0.12, T:0.10
Consensus pattern (21 bp):
CAACAAACTCAGATGCATCCA
Found at i:34457617 original size:17 final size:17
Alignment explanation
Indices: 34457595--34457627 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
34457585 GTCAGTGCAC
*
34457595 ATTGTCGTTGCATTTTT
1 ATTGTCATTGCATTTTT
34457612 ATTGTCATTGCATTTT
1 ATTGTCATTGCATTTT
34457628 AATGTTACTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.12, G:0.15, T:0.58
Consensus pattern (17 bp):
ATTGTCATTGCATTTTT
Found at i:34466216 original size:14 final size:14
Alignment explanation
Indices: 34466197--34466224 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
34466187 ATTGTCCTTA
34466197 GTATTTATTTTTAT
1 GTATTTATTTTTAT
34466211 GTATTTATTTTTAT
1 GTATTTATTTTTAT
34466225 CTCTTAGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.71
Consensus pattern (14 bp):
GTATTTATTTTTAT
Found at i:34470846 original size:29 final size:29
Alignment explanation
Indices: 34470813--34470880 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
34470803 TTTATTTATA
34470813 AAATATTTTA-ACTTAATTTTCAATAATTT
1 AAATATTTTATA-TTAATTTTCAATAATTT
* * * *
34470842 AAATAATTTATATTTATTTTTAATATTTT
1 AAATATTTTATATTAATTTTCAATAATTT
*
34470871 AAATTTTTTA
1 AAATATTTTA
34470881 GAATTATTGT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
29 31 0.97
30 1 0.03
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (29 bp):
AAATATTTTATATTAATTTTCAATAATTT
Found at i:34470887 original size:29 final size:29
Alignment explanation
Indices: 34470828--34470893 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 29
34470818 TTTTAACTTA
* * *
34470828 ATTTTCAATAATTTAAATAATTTATATTT
1 ATTTTTAATAATTTAAATAATTTAGAATT
* **
34470857 ATTTTTAATATTTTAAATTTTTTAGAATT
1 ATTTTTAATAATTTAAATAATTTAGAATT
*
34470886 ATTGTTAA
1 ATTTTTAA
34470894 GAAAAATAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.58
Consensus pattern (29 bp):
ATTTTTAATAATTTAAATAATTTAGAATT
Found at i:34471332 original size:26 final size:26
Alignment explanation
Indices: 34471296--34471347 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
34471286 ATGGAAAAGT
34471296 TAGCGTCTATTCAATTTGCTAACGTG
1 TAGCGTCTATTCAATTTGCTAACGTG
34471322 TAGCGTCTATTCAATTTGCTAACGTG
1 TAGCGTCTATTCAATTTGCTAACGTG
34471348 GCACCCATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (26 bp):
TAGCGTCTATTCAATTTGCTAACGTG
Found at i:34473330 original size:32 final size:29
Alignment explanation
Indices: 34473292--34473419 Score: 96
Period size: 29 Copynumber: 4.3 Consensus size: 29
34473282 TTATTTGGAA
34473292 TTGATCTATAATTGAAAAATAGAGGGACTAAT
1 TTGATCTAT--TT-AAAAATAGAGGGACTAAT
*
34473324 TTGATCTATTTAATAATAGAGGGACTAAT
1 TTGATCTATTTAAAAATAGAGGGACTAAT
* * * * * *
34473353 TTTATTCT-TTTCAATAGTATAAGGACTAAA
1 TTGA-TCTATTT-AAAAATAGAGGGACTAAT
* * ***
34473383 TTAATCTATTTAATAATAGAAAAACTAAT
1 TTGATCTATTTAAAAATAGAGGGACTAAT
34473412 TTGATCTA
1 TTGATCTA
34473420 GTCCCTATAA
Statistics
Matches: 80, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
29 46 0.57
30 25 0.31
32 9 0.11
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.38
Consensus pattern (29 bp):
TTGATCTATTTAAAAATAGAGGGACTAAT
Found at i:34473346 original size:29 final size:29
Alignment explanation
Indices: 34473309--34473419 Score: 116
Period size: 29 Copynumber: 3.8 Consensus size: 29
34473299 ATAATTGAAA
*
34473309 AATAGAGGGACTAATTTGATCTATTTAAT
1 AATAGAAGGACTAATTTGATCTATTTAAT
* *
34473338 AATAGAGGGACTAATTTTATTCT-TTTCAAT
1 AATAGAAGGACTAATTTGA-TCTATTT-AAT
* * * *
34473368 AGTATAAGGACTAAATTAATCTATTTAAT
1 AATAGAAGGACTAATTTGATCTATTTAAT
**
34473397 AATAGAAAAACTAATTTGATCTA
1 AATAGAAGGACTAATTTGATCTA
34473420 GTCCCTATAA
Statistics
Matches: 67, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
29 44 0.66
30 23 0.34
ACGTcount: A:0.41, C:0.08, G:0.13, T:0.38
Consensus pattern (29 bp):
AATAGAAGGACTAATTTGATCTATTTAAT
Found at i:34477091 original size:18 final size:18
Alignment explanation
Indices: 34477068--34477102 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
34477058 TCAACTTATA
34477068 AAAATTAAACTAAAATAG
1 AAAATTAAACTAAAATAG
* *
34477086 AAAATTCATCTAAAATA
1 AAAATTAAACTAAAATA
34477103 ATTTTTTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.63, C:0.09, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAATTAAACTAAAATAG
Found at i:34481068 original size:31 final size:31
Alignment explanation
Indices: 34481029--34481117 Score: 85
Period size: 31 Copynumber: 2.9 Consensus size: 31
34481019 GAAATACTTG
*
34481029 TTAT-ATATATATATATACATACATGTGTTT
1 TTATAATATATATATATACATACATGTATTT
* * *
34481059 TTATAATATACATATATACGTGCA--TATTT
1 TTATAATATATATATATACATACATGTATTT
* *
34481088 TTATAATTTATCTATATATACATATATGTA
1 TTATAA--TATATATATATACATACATGTA
34481118 CCTATATATT
Statistics
Matches: 45, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
29 10 0.22
30 4 0.09
31 29 0.64
33 2 0.04
ACGTcount: A:0.38, C:0.08, G:0.06, T:0.48
Consensus pattern (31 bp):
TTATAATATATATATATACATACATGTATTT
Found at i:34481114 original size:29 final size:28
Alignment explanation
Indices: 34481032--34481114 Score: 71
Period size: 29 Copynumber: 2.9 Consensus size: 28
34481022 ATACTTGTTA
* * *
34481032 TATATATATA-TATACATACATGTGTTTT
1 TATA-ATATACTATATATACATATATTTT
*
34481060 TATAATATAC-ATATATACGTGCATATTTT
1 TATAATATACTATATATACAT--ATATTTT
*
34481089 TATAATTTATCTATATATACATATAT
1 TATAATATA-CTATATATACATATAT
34481115 GTACCTATAT
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
27 13 0.30
28 4 0.09
29 17 0.39
30 1 0.02
31 9 0.20
ACGTcount: A:0.39, C:0.08, G:0.05, T:0.48
Consensus pattern (28 bp):
TATAATATACTATATATACATATATTTT
Found at i:34483027 original size:15 final size:15
Alignment explanation
Indices: 34483007--34483039 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
34482997 TTGTGTTTTG
34483007 TTTTGGCTGCAT-GCA
1 TTTTGGCT-CATGGCA
34483022 TTTTGGCTCATGGCA
1 TTTTGGCTCATGGCA
34483037 TTT
1 TTT
34483040 CATTATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 3 0.18
15 14 0.82
ACGTcount: A:0.12, C:0.18, G:0.24, T:0.45
Consensus pattern (15 bp):
TTTTGGCTCATGGCA
Found at i:34493435 original size:24 final size:24
Alignment explanation
Indices: 34493403--34493460 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
34493393 ATGTCCCAAA
*
34493403 ATTACAGTGGACTGAACCCTAAAG
1 ATTATAGTGGACTGAACCCTAAAG
* ** *
34493427 ATTATAGTGGATTGAACTTTGAAG
1 ATTATAGTGGACTGAACCCTAAAG
34493451 ATTATAGTGG
1 ATTATAGTGG
34493461 GGGCAATCCG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.34, C:0.10, G:0.24, T:0.31
Consensus pattern (24 bp):
ATTATAGTGGACTGAACCCTAAAG
Found at i:34493783 original size:44 final size:43
Alignment explanation
Indices: 34493729--34494318 Score: 346
Period size: 44 Copynumber: 13.8 Consensus size: 43
34493719 GTAAAGCTAC
* * *
34493729 AATCCTATCTCCTTGAAGTTGCAATGGAGCAGATTAAAACCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TAAAACCACA
* * * *** *
34493773 AATCTTATCTCTCTGAAGTTGCAGTAGCGCAGATCGCATC-C-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAAAACCACA
* * * ** *
34493814 AGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACAAAAGAAACC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAAAA-CCACA
* *
34493858 AATCCTATCTCCCTGAACTTGCAGTGGAG-AGGATTAAAACCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCA-GA-TAAAACCACA
* * * ** * * *
34493902 TATCTTATCTCTCTGAAGTTGTAGTACAGCAGATCACATC-C-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAAAACCACA
* * * * * * *
34493943 AGTCTTATCCCCCTAAAGTTGCAGTGAAGCAGACAGAAGA-AACC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATA-AA-ACCACA
* * *
34493987 AATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAACCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TAAAACCACA
* * * * *** *
34494031 GATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCGCATC-C-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAAAACCACA
* * * * ** *
34494072 AGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGAAAAAAGAAACC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAAAA-CCACA
* *
34494116 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TAAAACCACA
* * * *
34494160 GATCTTATCTCTCTGAAGTTGCAGTAGAGCAGAT-----CGC-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAAAACCACA
* * * *
34494197 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGA-AACC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATA-AA-ACCACA
* ** *
34494241 AATCCTATCTCCCTGAAGTTATAGTGGAGCGGATTAAAACCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TAAAACCACA
* * * *
34494285 GATCTTATCTCTCTAAAGTTGCAGTAGAGCAGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
34494319 CGCGTCTAAT
Statistics
Matches: 400, Mismatches: 121, Indels: 51
0.70 0.21 0.09
Matches are distributed among these distances:
37 29 0.07
38 2 0.00
41 83 0.21
42 4 0.01
43 20 0.05
44 251 0.63
45 11 0.03
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAAAACCACA
Found at i:34493880 original size:85 final size:84
Alignment explanation
Indices: 34493728--34494350 Score: 322
Period size: 85 Copynumber: 7.3 Consensus size: 84
34493718 AGTAAAGCTA
* * * * * ** * *
34493728 CAATCCTATCTCCTTGAAGTTGCAATGGAGCAGATTAAAACCACAAATCTTATCTCTCTGAAGTT
1 CAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGA-CAAAAAAACCAATCTTATCTCCCTGAAGTT
* * *
34493793 GCAGTAGCGCAGATCGCATC
65 GCAGTAGAGCAGATAGAATC
* * * * *
34493813 CAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACAAAAGAAACCAATCCTATCTCCCTGAACTT
1 CAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGACAAAA-AAACCAATCTTATCTCCCTGAAGTT
* * *
34493878 GCAGTGGAG-AGGATTAAAACC
65 GCAGTAGAGCA-GA-TAGAATC
* ** * * * * *
34493899 ACATATCTTATCTCTCTGAAGTTGTAGTACAGCAGATC---ACATCCAGTCTTATCCCCCTAAAG
1 -CA-ATCTTATCTCCCTGAAGTTGTAGTGGAGCAGA-CAAAAAAACCAATCTTATCTCCCTGAAG
*
34493961 TTGCAGTGAAGCAGACAGA-AGAAAC
63 TTGCAGT--AG-AG-CAGATAGAATC
* * ** * * *
34493986 CAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGA-TTAAAACCACAGATCTTATCTCTCTAAAGT
1 CAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGACAAAAAAAC-CA-ATCTTATCTCCCTGAAGT
* *
34494050 TGCAGTAGAGCAGATCGCATC
64 TGCAGTAGAGCAGATAGAATC
* * * *
34494071 CAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGAAAAAAGAAACCAATCCTATCTCCCTGAAGTT
1 CAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGACAAAA-AAACCAATCTTATCTCCCTGAAGTT
* * * *
34494136 GCAGTGGAGCGGATTAAAACC
65 GCAGTAGAGCAGA-TAGAATC
* * * * *
34494157 ACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATC-------GCAGTCTTATCTCCCTGAAG
1 -CA-ATCTTATCTCCCTGAAGTTGTAGTGGAGCAGA-CAAAAAAACCAATCTTATCTCCCTGAAG
*
34494215 TTGCAGTGGAGCAGACAGA-AGAAAC
63 TTGCAGT--AG-AG-CAGATAGAATC
* * * ** * * *
34494240 CAATCCTATCTCCCTGAAGTTATAGTGGAGCGGA-TTAAAACCACAGATCTTATCTCTCTAAAGT
1 CAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGACAAAAAAAC-CA-ATCTTATCTCCCTGAAGT
* **
34494304 TGCAGTAGAGCAGATCGCGTC
64 TGCAGTAGAGCAGATAGAATC
* * * *
34494325 TAATCCTATCTCTCTGAAGATGTAGT
1 CAATCTTATCTCCCTGAAGTTGTAGT
34494351 AGAGTGGACT
Statistics
Matches: 409, Mismatches: 92, Indels: 74
0.71 0.16 0.13
Matches are distributed among these distances:
81 50 0.12
82 2 0.00
83 5 0.01
84 15 0.04
85 200 0.49
86 20 0.05
87 16 0.04
88 97 0.24
89 3 0.01
90 1 0.00
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (84 bp):
CAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGACAAAAAAACCAATCTTATCTCCCTGAAGTTG
CAGTAGAGCAGATAGAATC
Found at i:34493962 original size:129 final size:129
Alignment explanation
Indices: 34493728--34494321 Score: 935
Period size: 129 Copynumber: 4.6 Consensus size: 129
34493718 AGTAAAGCTA
* * * *
34493728 CAATCCTATCTCCTTGAAGTTGCAATGGAGCAGATTAAAACCACAAATCTTATCTCTCTGAAGTT
1 CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTT
* * *
34493793 GCAGTAGCGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACAAAAGAAAC
66 GCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACAAAAGAAAC
* * *
34493857 CAATCCTATCTCCCTGAACTTGCAGTGGAGAGGATTAAAACCACATATCTTATCTCTCTGAAGTT
1 CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTT
* * * * * *
34493922 GTAGTACAGCAGATCACATCCAGTCTTATCCCCCTAAAGTTGCAGTGAAGCAGACAGAAGAAAC
66 GCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACAAAAGAAAC
* *
34493986 CAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTAAAGTT
1 CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTT
* *
34494051 GCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGAAAAAAGAAAC
66 GCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACAAAAGAAAC
34494115 CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTT
1 CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTT
* *
34494180 GCAGTAGAGCAGATCG----CAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAAC
66 GCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACAAAAGAAAC
** *
34494240 CAATCCTATCTCCCTGAAGTTATAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTAAAGTT
1 CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTT
34494305 GCAGTAGAGCAGATCGC
66 GCAGTAGAGCAGATCGC
34494322 GTCTAATCCT
Statistics
Matches: 427, Mismatches: 37, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
125 118 0.28
129 309 0.72
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (129 bp):
CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTT
GCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACAAAAGAAAC
Done.