Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 187 of 230
Found at i:56251005 original size:98 final size:98
Alignment explanation
Indices: 56250875--56251071 Score: 349
Period size: 98 Copynumber: 2.0 Consensus size: 98
56250865 TTAAAAATAA
* *
56250875 TAAAGGAAATATTCTGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
*
56250940 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATATTCTTTTAAAG
*
56250973 TAAATGAAATATTCCGAGTTTGGGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
*
56251038 TTAAATCTTGGATAATTGGATATTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATATTCTTTTAAAG
56251071 T
1 T
56251072 TTTATTGTAC
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 94 1.00
ACGTcount: A:0.29, C:0.09, G:0.23, T:0.39
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATATTCTTTTAAAG
Found at i:56252995 original size:11 final size:11
Alignment explanation
Indices: 56252979--56253003 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
56252969 ACTGTGGAAA
56252979 TATAAATTTAT
1 TATAAATTTAT
56252990 TATAAATTTAT
1 TATAAATTTAT
56253001 TAT
1 TAT
56253004 TCGAATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TATAAATTTAT
Found at i:56256074 original size:27 final size:27
Alignment explanation
Indices: 56256035--56256202 Score: 115
Period size: 27 Copynumber: 6.3 Consensus size: 27
56256025 GAGTTCACCG
* *
56256035 CAAAGGCTATTCTTTTAGTGTTTGCCT
1 CAAAGGCTATTCTTTTAGAGTTTGCCA
* * **
56256062 TAAAGGCTATTCTTTCAGAGTTTTTCA
1 CAAAGGCTATTCTTTTAGAGTTTGCCA
*
56256089 CAAAGGCTATTCTTTTAGAGTTTTCCA
1 CAAAGGCTATTCTTTTAGAGTTTGCCA
* * * * **
56256116 TAATGACTATT-TTTCAGAGTTCACCA
1 CAAAGGCTATTCTTTTAGAGTTTGCCA
** * *
56256142 CAAAGAAT-TTTTTTTAGAGTTCGCCA
1 CAAAGGCTATTCTTTTAGAGTTTGCCA
* * * * *
56256168 CAATGACTATTCTTTCAAAGTTCGCCA
1 CAAAGGCTATTCTTTTAGAGTTTGCCA
*
56256195 AAAAGGCT
1 CAAAGGCT
56256203 TACAAAATTC
Statistics
Matches: 111, Mismatches: 28, Indels: 4
0.78 0.20 0.03
Matches are distributed among these distances:
25 2 0.02
26 36 0.32
27 73 0.66
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (27 bp):
CAAAGGCTATTCTTTTAGAGTTTGCCA
Found at i:56256184 original size:53 final size:54
Alignment explanation
Indices: 56256022--56256199 Score: 153
Period size: 54 Copynumber: 3.3 Consensus size: 54
56256012 GGTAGTCCAC
* ** * * ** * *
56256022 TCAGAGTTCACCGCAAAGGCTATTCTTTTAGTGTTTGCCTTAAAGGCTATTCTT
1 TCAGAGTTCACCACAAAGAATATTCTTTTAGAGTTCGCCACAATGACTATTCTT
*** ** ** *
56256076 TCAGAGTTTTTCACAAAGGCTATTCTTTTAGAGTTTTCCATAATGACTATT-TT
1 TCAGAGTTCACCACAAAGAATATTCTTTTAGAGTTCGCCACAATGACTATTCTT
*
56256129 TCAGAGTTCACCACAAAGAAT-TTTTTTTAGAGTTCGCCACAATGACTATTCTT
1 TCAGAGTTCACCACAAAGAATATTCTTTTAGAGTTCGCCACAATGACTATTCTT
* * *
56256182 TCAAAGTTCGCCAAAAAG
1 TCAGAGTTCACCACAAAG
56256200 GCTTACAAAA
Statistics
Matches: 102, Mismatches: 21, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
52 25 0.25
53 35 0.34
54 42 0.41
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (54 bp):
TCAGAGTTCACCACAAAGAATATTCTTTTAGAGTTCGCCACAATGACTATTCTT
Found at i:56258586 original size:27 final size:27
Alignment explanation
Indices: 56258556--56258640 Score: 71
Period size: 27 Copynumber: 3.1 Consensus size: 27
56258546 ACTTACAGTT
* *
56258556 CCTTCAGAGTTCACCATACATAGTATC
1 CCTTCAGAGTTCACCACACATACTATC
* * * *
56258583 CCTTTAGTGTTCGCCACACATACTATT
1 CCTTCAGAGTTCACCACACATACTATC
* ** * *
56258610 CCTTCAGTGTTTGCCACGCATACTATA
1 CCTTCAGAGTTCACCACACATACTATC
56258637 CCTT
1 CCTT
56258641 TAGAATTATT
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.24, C:0.31, G:0.12, T:0.34
Consensus pattern (27 bp):
CCTTCAGAGTTCACCACACATACTATC
Found at i:56258878 original size:54 final size:53
Alignment explanation
Indices: 56258760--56258914 Score: 145
Period size: 54 Copynumber: 2.9 Consensus size: 53
56258750 ATTTTCATTT
* * * *
56258760 GCCACAAGGGTTTTCC-TTTCCTTAGATCACCACAAAGGCTTCTAGTTTATAGATC
1 GCCACAAAGG-TTTCCATTT-CATAGATCGCCACAAAGGCTTCCA-TTTATAGATC
* * * *
56258815 GCCATAAAGGCTTT-CAGTTT-GTAGATCGCCACAAAGGCTTCCATTTAATAGGTT
1 GCCACAAAGG-TTTCCA-TTTCATAGATCGCCACAAAGGCTTCCATTT-ATAGATC
* *
56258869 GCTACAAAGGTTTCCATTTCATAGATTGCCACAAAGGCTTCCATTT
1 GCCACAAAGGTTTCCATTTCATAGATCGCCACAAAGGCTTCCATTT
56258915 CCTGGCGTGT
Statistics
Matches: 83, Mismatches: 12, Indels: 11
0.78 0.11 0.10
Matches are distributed among these distances:
53 9 0.11
54 60 0.72
55 11 0.13
56 3 0.04
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.32
Consensus pattern (53 bp):
GCCACAAAGGTTTCCATTTCATAGATCGCCACAAAGGCTTCCATTTATAGATC
Found at i:56258915 original size:27 final size:26
Alignment explanation
Indices: 56258782--56258914 Score: 140
Period size: 27 Copynumber: 5.0 Consensus size: 26
56258772 TTCCTTTCCT
* *
56258782 TAGATCACCACAAAGGCTTCTAGTTTA
1 TAGATCGCCACAAAGGCTTCCA-TTTA
* * *
56258809 TAGATCGCCATAAAGGCTTTCAGTTTG
1 TAGATCGCCACAAAGGCTTCCA-TTTA
56258836 TAGATCGCCACAAAGGCTTCCATTTAA
1 TAGATCGCCACAAAGGCTTCCATTT-A
* * * *
56258863 TAGGTTGCTACAAAGGTTTCCATTTCA
1 TAGATCGCCACAAAGGCTTCCATTT-A
*
56258890 TAGATTGCCACAAAGGCTTCCATTT
1 TAGATCGCCACAAAGGCTTCCATTT
56258915 CCTGGCGTGT
Statistics
Matches: 89, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
26 3 0.03
27 86 0.97
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (26 bp):
TAGATCGCCACAAAGGCTTCCATTTA
Found at i:56271336 original size:51 final size:51
Alignment explanation
Indices: 56271218--56271557 Score: 309
Period size: 51 Copynumber: 6.7 Consensus size: 51
56271208 TATCATTCGA
* * **
56271218 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATC--AGTTTTACAA
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTACGG
* *
56271267 TTCATGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTACGG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTACGG
* *
56271318 CT-CACGTAGTAGCCTTCACATAGTACTACATACGTGACCAAAGCTTTTCGG
1 -TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTACGG
* * * * * * ** * *
56271369 TACCCATTGTAGCCTTCACTTAGTACTACACATGTAACCGTAG-ATTACCGA
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTA-CGG
* * *
56271420 TACACATAGTAGCATTCACACAGTACTACACACGTG-CTCAAAGC-TTATCGG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGAC-CAAAGCTTTA-CGG
* * * * *
56271471 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATTA--TTTATCGA
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AAGCTTTA-CGG
* * *
56271522 TACACGTAGTAGCCTCCACACAGTACTACTCACGTG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTG
56271558 TTCATCGACA
Statistics
Matches: 237, Mismatches: 44, Indels: 18
0.79 0.15 0.06
Matches are distributed among these distances:
49 36 0.15
50 4 0.02
51 194 0.82
52 3 0.01
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (51 bp):
TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTACGG
Found at i:56271438 original size:102 final size:102
Alignment explanation
Indices: 56271215--56271557 Score: 374
Period size: 102 Copynumber: 3.4 Consensus size: 102
56271205 TTTTATCATT
* * * ** * **
56271215 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATC--AG-TTTTACAATTCATGTAGT
1 CGATACACGTAGTAGCCTTCACACAGTACTACACACGTGCTCAAAGCTTAT-CGGTACACATAGT
* * *
56271277 AGCCTTCACATAGTACTACACACGTGACCAAAGCTTTAC
65 AGCCTTCACTTAGTACTACACATGTGACCATAG-TTTAC
* * * * * * *
56271316 GGCT-CACGTAGTAGCCTTCACATAGTACTACATACGTGAC-CAAAGCTTTTCGGTACCCATTGT
1 CGATACACGTAGTAGCCTTCACACAGTACTACACACGTG-CTCAAAGCTTATCGGTACACATAGT
* * *
56271379 AGCCTTCACTTAGTACTACACATGTAACCGTAGATTAC
65 AGCCTTCACTTAGTACTACACATGTGACCATAGTTTAC
* *
56271417 CGATACACATAGTAGCATTCACACAGTACTACACACGTGCTCAAAGCTTATCGGTACACATAGTA
1 CGATACACGTAGTAGCCTTCACACAGTACTACACACGTGCTCAAAGCTTATCGGTACACATAGTA
*
56271482 GCCTTCACTTAGTACTACACATGTGACCATTA-TTTAT
66 GCCTTCACTTAGTACTACACATGTGACCA-TAGTTTAC
* *
56271519 CGATACACGTAGTAGCCTCCACACAGTACTACTCACGTG
1 CGATACACGTAGTAGCCTTCACACAGTACTACACACGTG
56271558 TTCATCGACA
Statistics
Matches: 201, Mismatches: 34, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
100 34 0.17
101 9 0.04
102 152 0.76
103 6 0.03
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (102 bp):
CGATACACGTAGTAGCCTTCACACAGTACTACACACGTGCTCAAAGCTTATCGGTACACATAGTA
GCCTTCACTTAGTACTACACATGTGACCATAGTTTAC
Found at i:56271534 original size:153 final size:150
Alignment explanation
Indices: 56271213--56271556 Score: 365
Period size: 153 Copynumber: 2.3 Consensus size: 150
56271203 ATTTTTATCA
* * * * **
56271213 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAGTTTTACAATTCATGTAGTA
1 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTAACCAGTATTACAATACACATAGTA
* * *
56271278 GCCTTCACATAGTACTACACACGTGACCAAAGCTTTACGGCTCACGTAGTAGCCTTCACATAGTA
66 GCATTCACACAGTACTACACACGTGACCAAAGCTTTACGGCTCACATAGTAGCCTTCACATAGTA
*
56271343 CTACATACGTGACCAAAGCTT
131 CTACACACGTGACCAAA-CTT
* * * * * * *
56271364 TTCGGTACCCATTGTAGCCTTCACTTAGTACTACACATGTAACC-GTAGATTACCGATACACATA
1 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTAACCAGT--ATTA-CAATACACATA
56271428 GTAGCATTCACACAGTACTACACACGTG-CTCAAAGC-TTATCGG-TACACATAGTAGCCTTCAC
63 GTAGCATTCACACAGTACTACACACGTGAC-CAAAGCTTTA-CGGCT-CACATAGTAGCCTTCAC
* * *
56271490 TTAGTACTACACATGTGACCATTA-TT
125 ATAGTACTACACACGTGACCA-AACTT
* * *
56271516 TATCGATACACGTAGTAGCCTCCACACAGTACTACTCACGT
1 T-TCGATACACGTAGTAGCCTTCACATAGTACTACACACGT
56271557 GTTCATCGAC
Statistics
Matches: 156, Mismatches: 29, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
150 2 0.01
151 36 0.23
152 11 0.07
153 106 0.68
154 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (150 bp):
TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTAACCAGTATTACAATACACATAGTA
GCATTCACACAGTACTACACACGTGACCAAAGCTTTACGGCTCACATAGTAGCCTTCACATAGTA
CTACACACGTGACCAAACTT
Found at i:56276935 original size:18 final size:18
Alignment explanation
Indices: 56276897--56276936 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
56276887 AACTGCTGCG
*
56276897 GCTGCAATTGCAATTGCT
1 GCTGCAATTGCAAATGCT
* *
56276915 GCTGCAGTTGCAAATGTT
1 GCTGCAATTGCAAATGCT
56276933 GCTG
1 GCTG
56276937 TTGCTGGGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.33
Consensus pattern (18 bp):
GCTGCAATTGCAAATGCT
Found at i:56284692 original size:17 final size:17
Alignment explanation
Indices: 56284670--56284703 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
56284660 AAATTACAAA
56284670 ATCAAATCTTCTAAAAT
1 ATCAAATCTTCTAAAAT
56284687 ATCAAATCTTCTAAAAT
1 ATCAAATCTTCTAAAAT
56284704 TAATTTTCAT
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:0.47, C:0.18, G:0.00, T:0.35
Consensus pattern (17 bp):
ATCAAATCTTCTAAAAT
Found at i:56290454 original size:37 final size:37
Alignment explanation
Indices: 56290404--56290477 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
56290394 ACCCCTTAAA
56290404 TGATTATAAGCCAAGGACTTAAGTGTATATATATGTT
1 TGATTATAAGCCAAGGACTTAAGTGTATATATATGTT
56290441 TGATTATAAGCCAAGGACTTAAGTGTATATATATGTT
1 TGATTATAAGCCAAGGACTTAAGTGTATATATATGTT
56290478 AGGGTAAGAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.38
Consensus pattern (37 bp):
TGATTATAAGCCAAGGACTTAAGTGTATATATATGTT
Found at i:56291743 original size:49 final size:50
Alignment explanation
Indices: 56291686--56291803 Score: 132
Period size: 54 Copynumber: 2.3 Consensus size: 50
56291676 TGAGCTTGGA
*
56291686 TTTCTTAATGTAAATTAGCT-TAAATGCTAACATGGGTTGCGGA-GTTGTT
1 TTTCTTAATGTAAATTAGCTATAAATGCTAACATGGGTTGC-AATGTTGTT
* *
56291735 TTTCTTAATGTAAATTGGCTGAAGATCAATGCTAACATGGGTTGCAATGTTGTT
1 TTTCTTAATGTAAATTAGCT----ATAAATGCTAACATGGGTTGCAATGTTGTT
* *
56291789 TTTCTTTATGCAAAT
1 TTTCTTAATGTAAAT
56291804 CTCTCTTTCA
Statistics
Matches: 58, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
49 19 0.33
53 1 0.02
54 38 0.66
ACGTcount: A:0.27, C:0.11, G:0.20, T:0.42
Consensus pattern (50 bp):
TTTCTTAATGTAAATTAGCTATAAATGCTAACATGGGTTGCAATGTTGTT
Found at i:56295120 original size:28 final size:27
Alignment explanation
Indices: 56295088--56295142 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
56295078 AAAAATAATT
*
56295088 AAAATTCAA-TATGTTAATAATTTAAGTG
1 AAAATT-AATTAT-TTAATAATTAAAGTG
*
56295116 AAAATTAATTATTTTATAATTAAAGTG
1 AAAATTAATTATTTAATAATTAAAGTG
56295143 TGAATTTCGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 15 0.62
28 9 0.38
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.42
Consensus pattern (27 bp):
AAAATTAATTATTTAATAATTAAAGTG
Found at i:56295793 original size:13 final size:13
Alignment explanation
Indices: 56295775--56295800 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
56295765 CGAAACCATA
56295775 ATTATAATAATTT
1 ATTATAATAATTT
56295788 ATTATAATAATTT
1 ATTATAATAATTT
56295801 CGATAAACTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTATAATAATTT
Found at i:56301404 original size:12 final size:12
Alignment explanation
Indices: 56301368--56301410 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
56301358 TAAACTTTAG
*
56301368 ATTCAATTCTCA
1 ATTCAATTCACA
*
56301380 ATCTCATTTCACA
1 AT-TCAATTCACA
*
56301393 TTTCAATTCACA
1 ATTCAATTCACA
56301405 ATTCAA
1 ATTCAA
56301411 CTTTTCATTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
12 16 0.64
13 9 0.36
ACGTcount: A:0.35, C:0.26, G:0.00, T:0.40
Consensus pattern (12 bp):
ATTCAATTCACA
Found at i:56301631 original size:21 final size:21
Alignment explanation
Indices: 56301573--56301659 Score: 104
Period size: 21 Copynumber: 4.1 Consensus size: 21
56301563 CCTGATCAGT
56301573 ATACGACACAT-AAGTGCCTG
1 ATACGACACATAAAGTGCCTG
* * ** *
56301593 AAATGACACACGAGGTGCCTG
1 ATACGACACATAAAGTGCCTG
56301614 ATACGACACATAAAGTGCCTGAG
1 ATACGACACATAAAGTGCCT--G
56301637 ATACGACACATAAAGTGCCTG
1 ATACGACACATAAAGTGCCTG
56301658 AT
1 AT
56301660 CGGCAAAGCC
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
20 8 0.15
21 26 0.47
23 21 0.38
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.18
Consensus pattern (21 bp):
ATACGACACATAAAGTGCCTG
Found at i:56301643 original size:23 final size:23
Alignment explanation
Indices: 56301573--56301658 Score: 101
Period size: 23 Copynumber: 4.0 Consensus size: 23
56301563 CCTGATCAGT
56301573 ATACGACACAT-AAGTGCCTGA-
1 ATACGACACATAAAGTGCCTGAG
* ** *
56301594 A-ATGACACACGAGGTGCCT--G
1 ATACGACACATAAAGTGCCTGAG
56301614 ATACGACACATAAAGTGCCTGAG
1 ATACGACACATAAAGTGCCTGAG
56301637 ATACGACACATAAAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
56301659 TCGGCAAAGC
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
20 8 0.15
21 22 0.42
23 23 0.43
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.17
Consensus pattern (23 bp):
ATACGACACATAAAGTGCCTGAG
Found at i:56301657 original size:44 final size:41
Alignment explanation
Indices: 56301573--56301659 Score: 111
Period size: 44 Copynumber: 2.0 Consensus size: 41
56301563 CCTGATCAGT
* * *
56301573 ATACGACACATAAGTGCCTGAAATGACACACGAGGTGCCTG
1 ATACGACACATAAGTGCCTGAAACGACACACAAAGTGCCTG
*
56301614 ATACGACACATAAAGTGCCTGAGATACGACACATAAAGTGCCTG
1 ATACGACACAT-AAGTGCCTGA-A-ACGACACACAAAGTGCCTG
56301658 AT
1 AT
56301660 CGGCAAAGCC
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
41 11 0.28
42 10 0.26
43 1 0.03
44 17 0.44
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.18
Consensus pattern (41 bp):
ATACGACACATAAGTGCCTGAAACGACACACAAAGTGCCTG
Found at i:56302042 original size:19 final size:19
Alignment explanation
Indices: 56301982--56302056 Score: 77
Period size: 19 Copynumber: 4.0 Consensus size: 19
56301972 AATCAATACA
56301982 CAATTCACATATTCACATAT
1 CAATTCACA-ATTCACATAT
* *
56302002 C--TTCA-AATCTCATATCT
1 CAATTCACAAT-TCACATAT
56302019 CAATTTC-CAATTCACATAT
1 CAA-TTCACAATTCACATAT
56302038 CAATTCACAATTCACATAT
1 CAATTCACAATTCACATAT
56302057 TTACACATAG
Statistics
Matches: 45, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
16 2 0.04
17 8 0.18
18 7 0.16
19 21 0.47
20 7 0.16
ACGTcount: A:0.37, C:0.27, G:0.00, T:0.36
Consensus pattern (19 bp):
CAATTCACAATTCACATAT
Found at i:56302969 original size:15 final size:15
Alignment explanation
Indices: 56302941--56302987 Score: 58
Period size: 15 Copynumber: 3.0 Consensus size: 15
56302931 GTTTCGTCTC
*
56302941 TTCTATTCTGTTTCTT
1 TTCT-TTCTTTTTCTT
*
56302957 TTCTTTCTTTTTCTA
1 TTCTTTCTTTTTCTT
56302972 TTCTTTCTTTTGTCTT
1 TTCTTTCTTTT-TCTT
56302988 ATGTATATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
15 20 0.74
16 7 0.26
ACGTcount: A:0.04, C:0.19, G:0.04, T:0.72
Consensus pattern (15 bp):
TTCTTTCTTTTTCTT
Found at i:56303006 original size:5 final size:5
Alignment explanation
Indices: 56302991--56303059 Score: 61
Period size: 5 Copynumber: 13.4 Consensus size: 5
56302981 TTGTCTTATG
* *
56302991 TATATA TATAA TATAA TATAA TATAT TAATAA TATAA TATAA -A-AA CATAA
1 TATA-A TATAA TATAA TATAA TATAA T-ATAA TATAA TATAA TATAA TATAA
*
56303041 TCATTAC TATAA TATAA TA
1 T-A-TAA TATAA TATAA TA
56303060 ATATTTTTTT
Statistics
Matches: 53, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
3 2 0.04
4 2 0.04
5 36 0.68
6 10 0.19
7 3 0.06
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (5 bp):
TATAA
Found at i:56303041 original size:21 final size:21
Alignment explanation
Indices: 56302998--56303062 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
56302988 ATGTATATAT
* *
56302998 ATAATATAATATAATATATTA
1 ATAATATAATATAATAAAATA
56303019 ATAATATAATATAA-AAACATA
1 ATAATATAATATAATAAA-ATA
* * *
56303040 ATCAT-TACTATAATATAATA
1 ATAATATAATATAATAAAATA
56303060 ATA
1 ATA
56303063 TTTTTTTAAC
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
20 14 0.39
21 22 0.61
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (21 bp):
ATAATATAATATAATAAAATA
Found at i:56304691 original size:12 final size:12
Alignment explanation
Indices: 56304676--56304739 Score: 56
Period size: 12 Copynumber: 5.3 Consensus size: 12
56304666 GATATCCCAG
56304676 AGAAAATCCAAA
1 AGAAAATCCAAA
* * *
56304688 AGAATATCCCAG
1 AGAAAATCCAAA
*
56304700 AGAAAATCCACA
1 AGAAAATCCAAA
* * *
56304712 AGAATATCCCAG
1 AGAAAATCCAAA
*
56304724 AGAAAATCCACA
1 AGAAAATCCAAA
56304736 AGAA
1 AGAA
56304740 GAATATCGCT
Statistics
Matches: 37, Mismatches: 15, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
12 37 1.00
ACGTcount: A:0.55, C:0.22, G:0.12, T:0.11
Consensus pattern (12 bp):
AGAAAATCCAAA
Found at i:56304699 original size:24 final size:24
Alignment explanation
Indices: 56304667--56304739 Score: 137
Period size: 24 Copynumber: 3.0 Consensus size: 24
56304657 GAGATCGATG
*
56304667 ATATCCCAGAGAAAATCCAAAAGA
1 ATATCCCAGAGAAAATCCACAAGA
56304691 ATATCCCAGAGAAAATCCACAAGA
1 ATATCCCAGAGAAAATCCACAAGA
56304715 ATATCCCAGAGAAAATCCACAAGA
1 ATATCCCAGAGAAAATCCACAAGA
56304739 A
1 A
56304740 GAATATCGCT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.52, C:0.23, G:0.12, T:0.12
Consensus pattern (24 bp):
ATATCCCAGAGAAAATCCACAAGA
Found at i:56305050 original size:13 final size:13
Alignment explanation
Indices: 56305032--56305059 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
56305022 GATAAAAGAG
56305032 CATATAGAATACC
1 CATATAGAATACC
56305045 CATATAGAATACC
1 CATATAGAATACC
56305058 CA
1 CA
56305060 GAAGAGATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.25, G:0.07, T:0.21
Consensus pattern (13 bp):
CATATAGAATACC
Found at i:56306024 original size:22 final size:22
Alignment explanation
Indices: 56305996--56306063 Score: 84
Period size: 22 Copynumber: 3.1 Consensus size: 22
56305986 TATGCACTAT
56305996 TAAACAGAGAGCACTAAAGTGC
1 TAAACAGAGAGCACTAAAGTGC
*
56306018 TATACAGAGAGCAC-AAATGTGC
1 TAAACAGAGAGCACTAAA-GTGC
* * *
56306040 TAAACGGCGAGCACTAACGTGC
1 TAAACAGAGAGCACTAAAGTGC
56306062 TA
1 TA
56306064 GTGATCAGAG
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
21 3 0.08
22 34 0.87
23 2 0.05
ACGTcount: A:0.40, C:0.21, G:0.24, T:0.16
Consensus pattern (22 bp):
TAAACAGAGAGCACTAAAGTGC
Found at i:56306086 original size:25 final size:23
Alignment explanation
Indices: 56306058--56306123 Score: 71
Period size: 22 Copynumber: 2.7 Consensus size: 23
56306048 GAGCACTAAC
56306058 GTGCTAGTGATCAGAGAGCGCCGAT
1 GTGCTA-T-ATCAGAGAGCGCCGAT
* *
56306083 GTGCTA-AACAGAGAGCGCTGAT
1 GTGCTATATCAGAGAGCGCCGAT
56306105 GTGCTAATAATCAGAGAGC
1 GTGCT-AT-ATCAGAGAGC
56306124 ACGCTAAACT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
22 19 0.54
23 1 0.03
25 15 0.43
ACGTcount: A:0.30, C:0.18, G:0.32, T:0.20
Consensus pattern (23 bp):
GTGCTATATCAGAGAGCGCCGAT
Found at i:56306088 original size:47 final size:45
Alignment explanation
Indices: 56305996--56306125 Score: 136
Period size: 47 Copynumber: 2.8 Consensus size: 45
56305986 TATGCACTAT
56305996 TAAACAGAGAGCACTAAAGTGCTATA-CAGAGAGCACAAATGTGC
1 TAAACAGAGAGCACTAAAGTGCTATATCAGAGAGCACAAATGTGC
* * * * **
56306040 TAAACGGCGAGCACTAACGTGCTAGTGATCAGAGAGCGCCGATGTGC
1 TAAACAGAGAGCACTAAAGTGCTA-T-ATCAGAGAGCACAAATGTGC
* * *
56306087 TAAACAGAGAGCGCTGATGTGCTAATAATCAGAGAGCAC
1 TAAACAGAGAGCACTAAAGTGCT-AT-ATCAGAGAGCAC
56306126 GCTAAACTCC
Statistics
Matches: 69, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
44 21 0.30
45 1 0.01
46 1 0.01
47 45 0.65
48 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.27, T:0.17
Consensus pattern (45 bp):
TAAACAGAGAGCACTAAAGTGCTATATCAGAGAGCACAAATGTGC
Found at i:56306097 original size:22 final size:22
Alignment explanation
Indices: 56306069--56306111 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
56306059 TGCTAGTGAT
56306069 CAGAGAGCGCCGATGTGCTAAA
1 CAGAGAGCGCCGATGTGCTAAA
*
56306091 CAGAGAGCGCTGATGTGCTAA
1 CAGAGAGCGCCGATGTGCTAA
56306112 TAATCAGAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.21, G:0.33, T:0.16
Consensus pattern (22 bp):
CAGAGAGCGCCGATGTGCTAAA
Found at i:56307099 original size:17 final size:17
Alignment explanation
Indices: 56307077--56307110 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
56307067 ATGTGGCATG
*
56307077 TACCTAGGTAATGTATA
1 TACCTAAGTAATGTATA
*
56307094 TACCTAAGTGATGTATA
1 TACCTAAGTAATGTATA
56307111 GGGATTAGTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (17 bp):
TACCTAAGTAATGTATA
Found at i:56314573 original size:15 final size:15
Alignment explanation
Indices: 56314555--56314610 Score: 85
Period size: 15 Copynumber: 3.7 Consensus size: 15
56314545 ATTATCGGAG
*
56314555 GTGGTGCATACGTTA
1 GTGGTGGATACGTTA
*
56314570 GTGGTGGATACATTA
1 GTGGTGGATACGTTA
*
56314585 GTGGTGGATATGTTA
1 GTGGTGGATACGTTA
56314600 GTGGTGGATAC
1 GTGGTGGATAC
56314611 ATCGGTGTTG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 36 1.00
ACGTcount: A:0.21, C:0.07, G:0.38, T:0.34
Consensus pattern (15 bp):
GTGGTGGATACGTTA
Found at i:56314600 original size:30 final size:30
Alignment explanation
Indices: 56314555--56314612 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
56314545 ATTATCGGAG
56314555 GTGGTGCATACGTTAGTGGTGGATACATTA
1 GTGGTGCATACGTTAGTGGTGGATACATTA
* *
56314585 GTGGTGGATATGTTAGTGGTGGATACAT
1 GTGGTGCATACGTTAGTGGTGGATACAT
56314613 CGGTGTTGTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.22, C:0.07, G:0.36, T:0.34
Consensus pattern (30 bp):
GTGGTGCATACGTTAGTGGTGGATACATTA
Found at i:56316877 original size:21 final size:21
Alignment explanation
Indices: 56316851--56316898 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
56316841 CGACACATAA
56316851 GTGCCTGAAATGACACACGAG
1 GTGCCTGAAATGACACACGAG
* *
56316872 GTGCCTGATATGACGCACGAG
1 GTGCCTGAAATGACACACGAG
56316893 GTGCCT
1 GTGCCT
56316899 AATATATGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.25, C:0.25, G:0.31, T:0.19
Consensus pattern (21 bp):
GTGCCTGAAATGACACACGAG
Found at i:56318035 original size:18 final size:19
Alignment explanation
Indices: 56318012--56318047 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
56318002 ATTATTTTTC
56318012 TAATAAATATCT-TTTAAA
1 TAATAAATATCTATTTAAA
56318030 TAATAAATATCTATTTAA
1 TAATAAATATCTATTTAA
56318048 TATACAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (19 bp):
TAATAAATATCTATTTAAA
Found at i:56318056 original size:19 final size:18
Alignment explanation
Indices: 56318016--56318058 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
56318006 TTTTTCTAAT
*
56318016 AAATATCTTTTAAATAAT
1 AAATATCTTTTAAATAAC
56318034 AAATATCTATTT-AATATAC
1 AAATATCT-TTTAAATA-AC
56318053 AAATAT
1 AAATAT
56318059 AAATATTACG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (18 bp):
AAATATCTTTTAAATAAC
Found at i:56332200 original size:27 final size:26
Alignment explanation
Indices: 56332170--56332282 Score: 100
Period size: 27 Copynumber: 4.2 Consensus size: 26
56332160 ATTTGGAAAA
*
56332170 CTGGGATTTGCCAGTTAATTTGGCGAG
1 CTGGG-TTTACCAGTTAATTTGGCGAG
56332197 CTGGGTTTCACCAGTTAATTTGGCGAG
1 CTGGGTTT-ACCAGTTAATTTGGCGAG
* ** ** *
56332224 CTAGGCTTCGCCAGTTTGTTTGGTGAG
1 CT-GGGTTTACCAGTTAATTTGGCGAG
* * *
56332251 CTAGGGTCTACCAGTGAATTTGGCAAG
1 CT-GGGTTTACCAGTTAATTTGGCGAG
56332278 CTGGG
1 CTGGG
56332283 GTTCACTAGT
Statistics
Matches: 68, Mismatches: 16, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
26 6 0.09
27 58 0.85
28 4 0.06
ACGTcount: A:0.18, C:0.18, G:0.33, T:0.32
Consensus pattern (26 bp):
CTGGGTTTACCAGTTAATTTGGCGAG
Found at i:56332299 original size:54 final size:54
Alignment explanation
Indices: 56332188--56332349 Score: 141
Period size: 54 Copynumber: 3.0 Consensus size: 54
56332178 TGCCAGTTAA
* * * * * *
56332188 TTTGGCGAGCTGGGTTTCACCAGTTAATTTGGCGAGCTAGGCTTCGCCAGTTTG
1 TTTGGTGAGCTGGGTCTCACCAGTGAATTTGGCAAGCTAGGCTTCACCAGTTGG
* * *
56332242 TTTGGTGAGCTAGGGTCT-ACCAGTGAATTTGGCAAGCTGGGGTTCACTAGTTGG
1 TTTGGTGAGCT-GGGTCTCACCAGTGAATTTGGCAAGCTAGGCTTCACCAGTTGG
* * ** * *
56332296 TTTGGTGAGTTATGGT-TCACCAGAT-AGCTTAGCAAGCTAGGGTTCACCAGTTGG
1 TTTGGTGAGCT-GGGTCTCACCAG-TGAATTTGGCAAGCTAGGCTTCACCAGTTGG
56332350 CTTAGCGAAC
Statistics
Matches: 89, Mismatches: 16, Indels: 6
0.80 0.14 0.05
Matches are distributed among these distances:
53 1 0.01
54 82 0.92
55 6 0.07
ACGTcount: A:0.19, C:0.17, G:0.32, T:0.32
Consensus pattern (54 bp):
TTTGGTGAGCTGGGTCTCACCAGTGAATTTGGCAAGCTAGGCTTCACCAGTTGG
Found at i:56332373 original size:27 final size:27
Alignment explanation
Indices: 56332273--56332373 Score: 87
Period size: 27 Copynumber: 3.7 Consensus size: 27
56332263 AGTGAATTTG
* * * *
56332273 GCAAGCTGGGGTTCACTAGTTGGTTTG
1 GCAAGCTAGGGTTCACCAGTTGGCTTA
** * * * *
56332300 GTGAGTTATGGTTCACCAGATAGCTTA
1 GCAAGCTAGGGTTCACCAGTTGGCTTA
56332327 GCAAGCTAGGGTTCACCAGTTGGCTTA
1 GCAAGCTAGGGTTCACCAGTTGGCTTA
*
56332354 GCGAA-CTAGGGTTCGCCAGT
1 GC-AAGCTAGGGTTCACCAGT
56332374 ATAAAGCGAA
Statistics
Matches: 56, Mismatches: 17, Indels: 2
0.75 0.23 0.03
Matches are distributed among these distances:
27 54 0.96
28 2 0.04
ACGTcount: A:0.21, C:0.19, G:0.32, T:0.29
Consensus pattern (27 bp):
GCAAGCTAGGGTTCACCAGTTGGCTTA
Found at i:56336977 original size:19 final size:19
Alignment explanation
Indices: 56336955--56336996 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
56336945 TCATTTTTAC
* *
56336955 TTTTGACTTTTTC-TAGAT
1 TTTTTACTTTTTCGTACAT
*
56336973 TTTTTTCTTTTTCGTACAT
1 TTTTTACTTTTTCGTACAT
56336992 TTTTT
1 TTTTT
56336997 TTCTCACCTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.12, C:0.12, G:0.07, T:0.69
Consensus pattern (19 bp):
TTTTTACTTTTTCGTACAT
Found at i:56336997 original size:19 final size:18
Alignment explanation
Indices: 56336961--56336997 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
56336951 TTACTTTTGA
*
56336961 CTTTTTCTAGATTTTTTT
1 CTTTTTCTACATTTTTTT
56336979 CTTTTTCGTACATTTTTTT
1 CTTTTTC-TACATTTTTTT
56336998 TCTCACCTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.11, C:0.14, G:0.05, T:0.70
Consensus pattern (18 bp):
CTTTTTCTACATTTTTTT
Found at i:56337829 original size:23 final size:27
Alignment explanation
Indices: 56337778--56337836 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
56337768 AAAATTCTAC
56337778 GACAAA-AAATATAAATTATAATGTAAA
1 GACAAATAAATATAAATTATAATG-AAA
56337805 GA-AAATAAATATAAA-TATAA-G-AA
1 GACAAATAAATATAAATTATAATGAAA
56337828 GACAAATAA
1 GACAAATAA
56337837 GTGTTGATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
23 4 0.13
24 6 0.20
25 1 0.03
26 8 0.27
27 11 0.37
ACGTcount: A:0.66, C:0.03, G:0.08, T:0.22
Consensus pattern (27 bp):
GACAAATAAATATAAATTATAATGAAA
Found at i:56342218 original size:12 final size:12
Alignment explanation
Indices: 56342201--56342234 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
56342191 ATGTCTCAAA
56342201 AAATGAAAATGG
1 AAATGAAAATGG
56342213 AAATGAAAATGG
1 AAATGAAAATGG
*
56342225 AAATGGAAAT
1 AAATGAAAAT
56342235 TTACAATCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.24, T:0.18
Consensus pattern (12 bp):
AAATGAAAATGG
Found at i:56342223 original size:18 final size:18
Alignment explanation
Indices: 56342200--56342234 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
56342190 CATGTCTCAA
56342200 AAAATGAAAATGGAAATG
1 AAAATGAAAATGGAAATG
*
56342218 AAAATGGAAATGGAAAT
1 AAAATGAAAATGGAAAT
56342235 TTACAATCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.23, T:0.17
Consensus pattern (18 bp):
AAAATGAAAATGGAAATG
Found at i:56350560 original size:8 final size:8
Alignment explanation
Indices: 56350547--56350611 Score: 67
Period size: 8 Copynumber: 7.9 Consensus size: 8
56350537 GGTGTTGTTG
56350547 GTTTATTT
1 GTTTATTT
56350555 GTTTATTT
1 GTTTATTT
* *
56350563 GTATGTTT
1 GTTTATTT
56350571 GTTTATTT
1 GTTTATTT
* *
56350579 GTTCAATT
1 GTTTATTT
*
56350587 ATTTCATTT
1 GTTT-ATTT
56350596 CGTTTATTT
1 -GTTTATTT
56350605 GTTTATT
1 GTTTATT
56350612 AAAACGTGAT
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
8 35 0.78
9 7 0.16
10 3 0.07
ACGTcount: A:0.15, C:0.05, G:0.12, T:0.68
Consensus pattern (8 bp):
GTTTATTT
Found at i:56353672 original size:27 final size:27
Alignment explanation
Indices: 56353631--56353699 Score: 84
Period size: 27 Copynumber: 2.6 Consensus size: 27
56353621 GAGGAGGGTA
* **
56353631 TCCCATGGGCAGCACCAAAGGTGCCTT
1 TCCCATGGGCGGCACCAAAGGTGCCCC
* * *
56353658 TCCCATAGGCGGCACCGATGGTGCCCC
1 TCCCATGGGCGGCACCAAAGGTGCCCC
56353685 TCCCATGGGCGGCAC
1 TCCCATGGGCGGCAC
56353700 TGCCCATATA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.17, C:0.38, G:0.29, T:0.16
Consensus pattern (27 bp):
TCCCATGGGCGGCACCAAAGGTGCCCC
Found at i:56353767 original size:10 final size:10
Alignment explanation
Indices: 56353752--56353906 Score: 99
Period size: 10 Copynumber: 15.3 Consensus size: 10
56353742 GAAGGAGAGG
56353752 GAAAGAAGAA
1 GAAAGAAGAA
56353762 GAAAG-A-AA
1 GAAAGAAGAA
*
56353770 GAAAGAAAAA
1 GAAAGAAGAA
*
56353780 GAAAGAAAAA
1 GAAAGAAGAA
* *
56353790 GAAAGGAGAG
1 GAAAGAAGAA
56353800 GAAAG-A-AA
1 GAAAGAAGAA
56353808 GAAA-AAGAA
1 GAAAGAAGAA
56353817 GGAAAGAATAGGAA
1 -GAAAG-A-A-GAA
*
56353831 AAAAGAAGAA
1 GAAAGAAGAA
*
56353841 GAAAAAAGAAA
1 GAAAGAAG-AA
56353852 GAAA-AAGAA
1 GAAAGAAGAA
56353861 GGAAAGAA-AA
1 -GAAAGAAGAA
*
56353871 GGAAAGGAGAA
1 -GAAAGAAGAA
* *
56353882 GAGAAAAAAAA
1 GA-AAGAAGAA
56353893 TGAAAGAAGAA
1 -GAAAGAAGAA
56353904 GAA
1 GAA
56353907 GAGCGAAGGA
Statistics
Matches: 117, Mismatches: 13, Indels: 30
0.73 0.08 0.19
Matches are distributed among these distances:
8 13 0.11
9 7 0.06
10 63 0.54
11 22 0.19
12 4 0.03
13 5 0.04
14 3 0.03
ACGTcount: A:0.71, C:0.00, G:0.28, T:0.01
Consensus pattern (10 bp):
GAAAGAAGAA
Found at i:56353769 original size:4 final size:4
Alignment explanation
Indices: 56353752--56353936 Score: 77
Period size: 4 Copynumber: 49.0 Consensus size: 4
56353742 GAAGGAGAGG
56353752 GAAA G-AA G-AA GAAA GAAA GAAA G-AA -AAA GAAA G-AA -AAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
* *
56353794 GGAGAG GAAA GAAA G-AA -AAA GAAG GAAA GAATA GGAAA -AAA G-AA
1 -GA-AA GAAA GAAA GAAA GAAA GAAA GAAA GAA-A -GAAA GAAA GAAA
* *
56353838 G-AA GAAA -AAA GAAA G-AA -AAA GAAG GAAA GAAAA GGAAA G-GA GAAGA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA G-AAA -GAAA GAAA GAA-A
* * * *
56353884 GAAA -AAA -AAT GAAA G-AA G-AA GAAGA GCGAA GGAA GGAA -AAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAA-A G-AAA GAAA GAAA GAAA GAAA
56353929 GAAA GAAA
1 GAAA GAAA
56353937 TGTAATTTTT
Statistics
Matches: 144, Mismatches: 12, Indels: 50
0.70 0.06 0.24
Matches are distributed among these distances:
3 49 0.34
4 69 0.48
5 20 0.14
6 6 0.04
ACGTcount: A:0.70, C:0.01, G:0.29, T:0.01
Consensus pattern (4 bp):
GAAA
Found at i:56353769 original size:14 final size:14
Alignment explanation
Indices: 56353752--56353931 Score: 100
Period size: 14 Copynumber: 13.5 Consensus size: 14
56353742 GAAGGAGAGG
56353752 GAAAGAAGAAGAAA
1 GAAAGAAGAAGAAA
56353766 GAAAG-A-AAG-AA
1 GAAAGAAGAAGAAA
56353777 -AAAGAAAGAA-AAA
1 GAAAG-AAGAAGAAA
* *
56353790 GAAAGGAGAGGAAA
1 GAAAGAAGAAGAAA
* *
56353804 GAAAGAAAAAGAAG
1 GAAAGAAGAAGAAA
* *
56353818 GAAAGAATAGGAAA
1 GAAAGAAGAAGAAA
56353832 -AAAGAAGAAGAAA
1 GAAAGAAGAAGAAA
56353845 -AAAGAAAGAA-AAA
1 GAAAG-AAGAAGAAA
* *
56353858 GAAGGAAAGAA-AAG
1 GAAAG-AAGAAGAAA
*
56353872 GAAAGGAGAAGAGAA
1 GAAAGAAGAAGA-AA
*
56353887 -AAA-AA-ATGAAA
1 GAAAGAAGAAGAAA
**
56353898 G-AAGAAGAAGAGC
1 GAAAGAAGAAGAAA
*
56353911 GAAGGAAGGAA-AAA
1 GAAAGAA-GAAGAAA
56353925 GAAAGAA
1 GAAAGAA
56353932 AGAAATGTAA
Statistics
Matches: 126, Mismatches: 25, Indels: 30
0.70 0.14 0.17
Matches are distributed among these distances:
10 4 0.03
11 6 0.05
12 9 0.07
13 35 0.28
14 68 0.54
15 4 0.03
ACGTcount: A:0.69, C:0.01, G:0.29, T:0.01
Consensus pattern (14 bp):
GAAAGAAGAAGAAA
Found at i:56353804 original size:34 final size:33
Alignment explanation
Indices: 56353764--56353860 Score: 110
Period size: 34 Copynumber: 2.9 Consensus size: 33
56353754 AAGAAGAAGA
56353764 AAGAAAGAAAGAAAAAGAAAGAAAAAGAA-AGG
1 AAGAAAGAAAGAAAAAGAAAGAAAAAGAATAGG
*
56353796 AGAGGAAAGAAAGAAAAAG-AAG-GAAAGAATAGG
1 A-A-GAAAGAAAGAAAAAGAAAGAAAAAGAATAGG
*
56353829 AAAAAAGAAGAAGAAAAAAGAAAGAAAAAGAA
1 AAGAAAG-A-AAG-AAAAAGAAAGAAAAAGAA
56353861 GGAAAGAAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 12
0.78 0.04 0.17
Matches are distributed among these distances:
31 4 0.07
32 9 0.17
33 11 0.20
34 21 0.39
35 3 0.06
36 6 0.11
ACGTcount: A:0.73, C:0.00, G:0.26, T:0.01
Consensus pattern (33 bp):
AAGAAAGAAAGAAAAAGAAAGAAAAAGAATAGG
Found at i:56353833 original size:44 final size:43
Alignment explanation
Indices: 56353752--56353931 Score: 167
Period size: 44 Copynumber: 4.2 Consensus size: 43
56353742 GAAGGAGAGG
56353752 GAAAGAAGAAGAAAGAAAG--AAAGAA--AAAGAAA-GAAAAA
1 GAAAGAAGAAGAAAGAAAGAAAAAGAAGGAAAGAAAGGAAAAA
* *
56353790 GAAAGGAGAGGAAAGAAAGAAAAAGAAGGAAAGAATAGGAAAAA
1 GAAAGAAGAAGAAAGAAAGAAAAAGAAGGAAAGAA-AGGAAAAA
* *
56353834 -AGAAGAAGAAAAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGA
1 GA-AAGAAGAAGAAAGAAAGAAAAAGAAGGAAAG-AAAGGAAA-AA
* * * *
56353879 GAAGAGAA-AAAAAATGAAAGAAGAAGAAGAGCGAAGGAAGGAAAAA
1 GAA-AGAAGAAGAAA-GAAAGAAAAAGAAG-G-AAAGAAAGGAAAAA
56353925 GAAAGAA
1 GAAAGAA
56353932 AGAAATGTAA
Statistics
Matches: 118, Mismatches: 10, Indels: 21
0.79 0.07 0.14
Matches are distributed among these distances:
38 17 0.14
40 6 0.05
42 6 0.05
43 2 0.02
44 40 0.34
45 14 0.12
46 22 0.19
47 8 0.07
48 3 0.03
ACGTcount: A:0.69, C:0.01, G:0.29, T:0.01
Consensus pattern (43 bp):
GAAAGAAGAAGAAAGAAAGAAAAAGAAGGAAAGAAAGGAAAAA
Found at i:56353932 original size:10 final size:10
Alignment explanation
Indices: 56353752--56353932 Score: 90
Period size: 10 Copynumber: 17.8 Consensus size: 10
56353742 GAAGGAGAGG
*
56353752 GAAAGAAGAA
1 GAAAGAAAAA
56353762 GAAAG--AAA
1 GAAAGAAAAA
56353770 GAAAGAAAAA
1 GAAAGAAAAA
56353780 GAAAGAAAAA
1 GAAAGAAAAA
56353790 GAAAGGAGAGGAAA
1 GAAA-GA-A--AAA
56353804 GAAAGAAAAA
1 GAAAGAAAAA
*
56353814 G-AAG-GAAA
1 GAAAGAAAAA
*
56353822 GAATAG-GAAA
1 GAA-AGAAAAA
*
56353832 -AAAGAAGAA
1 GAAAGAAAAA
*
56353841 GAAAAAAGAAA
1 GAAAGAA-AAA
*
56353852 GAAA-AAGAAG
1 GAAAGAA-AAA
*
56353862 GAAAGAAAAG
1 GAAAGAAAAA
*
56353872 GAAAGGAGAAGA
1 GAAA-GA-AAAA
56353884 GAAA-AAAAA
1 GAAAGAAAAA
*
56353893 TGAAAGAAGAA
1 -GAAAGAAAAA
** *
56353904 GAAGAGCGAAG
1 GAA-AGAAAAA
*
56353915 GAAGGAAAAA
1 GAAAGAAAAA
56353925 GAAAGAAA
1 GAAAGAAA
56353933 GAAATGTAAT
Statistics
Matches: 134, Mismatches: 20, Indels: 34
0.71 0.11 0.18
Matches are distributed among these distances:
8 13 0.10
9 11 0.08
10 71 0.53
11 22 0.16
12 8 0.06
13 2 0.01
14 7 0.05
ACGTcount: A:0.70, C:0.01, G:0.29, T:0.01
Consensus pattern (10 bp):
GAAAGAAAAA
Found at i:56354782 original size:158 final size:153
Alignment explanation
Indices: 56354266--56355039 Score: 746
Period size: 159 Copynumber: 4.9 Consensus size: 153
56354256 AATAGTATAT
* *
56354266 TTAATAAATTTCAAACATAATGCACTGAAATAATGTAAAATTATAAAAATTAGAATTTATGATAT
1 TTAATAAATTTCAAACATAATGCACTGAAATAATATAAAATTAT-AAAATTAGAAATTATGATAT
* * * *
56354331 TTTTTAAAATAATTAAATGCAGAGAAAAAAATACGAACAAATGGCCAAAGTAAGAGTGTTTTACT
65 TTTTTAAAATAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCGAAGTAAGAGTTTTTTACT
*
56354396 AAAATTTTTTAAAAATTTAGAAAT-AA
130 -AAATTTTTTAAAAA-TCA-AAATAAA
* * * *
56354422 TTAATAAAAATATTTCAAACAAAATGTACTGAAATAATATAAAATAATAAAA-TATGAAAATCAT
1 TTAAT---AA-ATTTCAAACATAATGCACTGAAATAATATAAAATTATAAAATTA-G-AAATTAT
* * * * *
56354486 -ATATTTTTATTAAAAGTAATAAAATTCGG-GAAAATAATACGAGCAAAGGGCAGGAA-TAAGAG
60 GATA-TTTT-TTAAAA-TAATAAAATGCGGAGAAAAAAATACGAACAAATGGC-CGAAGTAAGAG
56354548 TTTTTTTACACTAAATTAATTTTAAAAA--AAAACTAAA
121 -TTTTTT--ACTAAATT--TTTTAAAAATCAAAA-TAAA
56354585 TTAATAAATTTCAAACATAATGCACTGAAATAA-AGTAAAATTATAAAATTAGAAATTATGATAT
1 TTAATAAATTTCAAACATAATGCACTGAAATAATA-TAAAATTATAAAATTAGAAATTATGATAT
* * * * * *
56354649 ATTTTAAAATAATAAAATACGGAGAAAAAAATACGAACAAATGGCTGAAGCAAGAGTGTTTTGCT
65 TTTTTAAAATAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCGAAGTAAGAGTTTTTTACT
56354714 AAATTTTTTAAAAATTCAGAAAT-AA
130 AAATTTTTTAAAAA-TCA-AAATAAA
* * * *
56354739 TTAATACAAATATTTCAAACAAAATGTACTGAAATAATATAAAATAATAAAA-TACGAAAATAAT
1 TTAAT---AA-ATTTCAAACATAATGCACTGAAATAATATAAAATTATAAAATTA-G-AAATTAT
* ** * * * * * *
56354803 -ATATTTAATTGAAGGTAATGAAATTCGG-GAAAATAATACGAGCAAAGGGCGGGAA-TAAGAGT
60 GATATTT--TTTAAAATAATAAAATGCGGAGAAAAAAATACGAACAAATGGC-CGAAGTAAGAG-
* * * *
56354865 TTTTTTTACACTAAATTAATTTAAAAAACACACTAAA
121 -TTTTTT--ACTAAATT-TTTTAAAAATCAAAATAAA
*
56354902 TTAATAAATTTCAAACATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATT
1 TTAATAAATTTCAAACATAATGCACTGAAATAATATAAAATTATAAAATTAGAAATTATGATATT
*
56354967 TTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCGAAGTAAGAGTTTTTTACTA
66 TTTTAAAATAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCGAAGTAAGAGTTTTTTACTA
*
56355032 ACTTTTTT
131 AATTTTTT
56355040 TTCAACTTGC
Statistics
Matches: 508, Mismatches: 64, Indels: 95
0.76 0.10 0.14
Matches are distributed among these distances:
152 9 0.02
153 3 0.01
154 21 0.04
155 2 0.00
156 34 0.07
157 53 0.10
158 85 0.17
159 125 0.25
160 68 0.13
161 39 0.08
162 21 0.04
163 28 0.06
164 11 0.02
165 9 0.02
ACGTcount: A:0.51, C:0.07, G:0.11, T:0.31
Consensus pattern (153 bp):
TTAATAAATTTCAAACATAATGCACTGAAATAATATAAAATTATAAAATTAGAAATTATGATATT
TTTTAAAATAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCGAAGTAAGAGTTTTTTACTA
AATTTTTTAAAAATCAAAATAAA
Found at i:56354871 original size:317 final size:317
Alignment explanation
Indices: 56354266--56355039 Score: 1291
Period size: 317 Copynumber: 2.4 Consensus size: 317
56354256 AATAGTATAT
*
56354266 TTAATAAATTTCAAACATAATGCACTGAAATAATGTAAAATTATAAAAATTAGAATTTATGATAT
1 TTAATAAATTTCAAACATAATGCACTGAAATAATGTAAAATTAT-AAAATTAGAAATTATGATAT
* * *
56354331 TTTTTAAAATAATTAAATGCAGAGAAAAAAATACGAACAAATGGCCAAAGTAAGAGTGTTTTACT
65 TTTTTAAAATAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTTTTACT
*
56354396 AAAATTTTTTAAAAATTTAGAAATAATTAATAAAAATATTTCAAACAAAATGTACTGAAATAATA
130 -AAATTTTTTAAAAATTCAGAAATAATTAATAAAAATATTTCAAACAAAATGTACTGAAATAATA
* * *
56354461 TAAAATAATAAAATATGAAAATCATATATTTTTATTAAAAGTAATAAAATTCGGGAAAATAATAC
194 TAAAATAATAAAATACGAAAATAATATATTTTAATTAAAAGTAATAAAATTCGGGAAAATAATAC
56354526 GAGCAAAGGGCAGGAATAAGAGTTTTTTTACACTAAATTAATTTTAAAAAA-AAACTAAA
259 GAGCAAAGGGCAGGAATAAGAGTTTTTTTACACTAAATTAA-TTTAAAAAACAAACTAAA
* *
56354585 TTAATAAATTTCAAACATAATGCACTGAAATAAAGTAAAATTATAAAATTAGAAATTATGATATA
1 TTAATAAATTTCAAACATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATT
* * * *
56354650 TTTTAAAATAATAAAATACGGAGAAAAAAATACGAACAAATGGCTGAAGCAAGAGTGTTTTGCTA
66 TTTTAAAATAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTTTTACTA
*
56354715 AATTTTTTAAAAATTCAGAAATAATTAATACAAATATTTCAAACAAAATGTACTGAAATAATATA
131 AATTTTTTAAAAATTCAGAAATAATTAATAAAAATATTTCAAACAAAATGTACTGAAATAATATA
* * *
56354780 AAATAATAAAATACGAAAATAATATA-TTTAATTGAAGGTAATGAAATTCGGGAAAATAATACGA
196 AAATAATAAAATACGAAAATAATATATTTTAATTAAAAGTAATAAAATTCGGGAAAATAATACGA
* *
56354844 GCAAAGGGCGGGAATAAGAGTTTTTTTTACACTAAATTAATTTAAAAAACACACTAAA
261 GCAAAGGGCAGGAATAAGAG-TTTTTTTACACTAAATTAATTTAAAAAACAAACTAAA
56354902 TTAATAAATTTCAAACATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATT
1 TTAATAAATTTCAAACATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATT
* *
56354967 TTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCGAAGTAAGAGTTTTTTACTA
66 TTTTAAAATAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTTTTACTA
*
56355032 ACTTTTTT
131 AATTTTTT
56355040 TTCAACTTGC
Statistics
Matches: 424, Mismatches: 29, Indels: 6
0.92 0.06 0.01
Matches are distributed among these distances:
316 62 0.15
317 243 0.57
318 76 0.18
319 43 0.10
ACGTcount: A:0.51, C:0.07, G:0.11, T:0.31
Consensus pattern (317 bp):
TTAATAAATTTCAAACATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATT
TTTTAAAATAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTTTTACTA
AATTTTTTAAAAATTCAGAAATAATTAATAAAAATATTTCAAACAAAATGTACTGAAATAATATA
AAATAATAAAATACGAAAATAATATATTTTAATTAAAAGTAATAAAATTCGGGAAAATAATACGA
GCAAAGGGCAGGAATAAGAGTTTTTTTACACTAAATTAATTTAAAAAACAAACTAAA
Found at i:56356709 original size:12 final size:12
Alignment explanation
Indices: 56356694--56356719 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
56356684 GCCCGATTAG
56356694 GAGCCCTAGCCA
1 GAGCCCTAGCCA
56356706 GAGCCCTAGCCA
1 GAGCCCTAGCCA
56356718 GA
1 GA
56356720 TCTGGAACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.38, G:0.27, T:0.08
Consensus pattern (12 bp):
GAGCCCTAGCCA
Found at i:56357130 original size:14 final size:14
Alignment explanation
Indices: 56357111--56357143 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
56357101 TTTTTGTATA
56357111 AATTTAATTATTCT
1 AATTTAATTATTCT
56357125 AATTTAATTATTCT
1 AATTTAATTATTCT
56357139 AATTT
1 AATTT
56357144 TAGTTATGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (14 bp):
AATTTAATTATTCT
Found at i:56360272 original size:40 final size:41
Alignment explanation
Indices: 56360181--56360306 Score: 109
Period size: 40 Copynumber: 3.1 Consensus size: 41
56360171 ACTAACACAA
* *
56360181 TAACAATAATAA--TA-GTTTTATACTCAAAATAATACTAAC
1 TAACAATAATAATCTAGGGTTT-TACTAAAAATAATACTAAC
56360220 TAACAATAATAAT-TAGGGTTTTACTAAAAATAATAACTAAC
1 TAACAATAATAATCTAGGGTTTTACTAAAAATAAT-ACTAAC
* * * ** * *
56360261 -CATAATCATAATGCTAGTTTTTTACTAACAATAATACTAAG
1 TAACAATAATAAT-CTAGGGTTTTACTAAAAATAATACTAAC
56360302 TAACA
1 TAACA
56360307 TCTAAACCCT
Statistics
Matches: 70, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
39 12 0.17
40 23 0.33
41 15 0.21
42 20 0.29
ACGTcount: A:0.48, C:0.13, G:0.06, T:0.33
Consensus pattern (41 bp):
TAACAATAATAATCTAGGGTTTTACTAAAAATAATACTAAC
Found at i:56360491 original size:10 final size:10
Alignment explanation
Indices: 56360461--56360499 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
56360451 AAAAAAAACT
56360461 TTTTTTTCTC
1 TTTTTTTCTC
*
56360471 TTCTATTTCTC
1 TT-TTTTTCTC
56360482 TTTTTTTCTC
1 TTTTTTTCTC
*
56360492 TCTTTTTC
1 TTTTTTTC
56360500 CGGCACCACC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.74
Consensus pattern (10 bp):
TTTTTTTCTC
Found at i:56360688 original size:27 final size:27
Alignment explanation
Indices: 56360588--56360677 Score: 146
Period size: 27 Copynumber: 3.3 Consensus size: 27
56360578 AGTGGTGCCA
56360588 CCTATGGGAAAGGCACCT-TGGGTGCTG
1 CCTATGGGAAAGGCACCTCT-GGTGCTG
* *
56360615 CCTATGGGAAAGGCACCTTTGGTGCCG
1 CCTATGGGAAAGGCACCTCTGGTGCTG
56360642 CCTATGGGAAAGGCACCTCTGGTGCTG
1 CCTATGGGAAAGGCACCTCTGGTGCTG
56360669 CCTATGGGA
1 CCTATGGGA
56360678 TACCCTCCTC
Statistics
Matches: 59, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
27 58 0.98
28 1 0.02
ACGTcount: A:0.19, C:0.24, G:0.34, T:0.22
Consensus pattern (27 bp):
CCTATGGGAAAGGCACCTCTGGTGCTG
Found at i:56365946 original size:4 final size:4
Alignment explanation
Indices: 56365924--56365976 Score: 65
Period size: 4 Copynumber: 13.5 Consensus size: 4
56365914 AATGGCATAG
*
56365924 AAAT AATAT AAAC AAAT AAAT AAAT AAAT AAAT AAAT -AA- AAAT AAAT
1 AAAT AA-AT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
*
56365971 CAAT AA
1 AAAT AA
56365977 CATGCAAAGC
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
3 4 0.10
4 34 0.81
5 4 0.10
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:56366933 original size:21 final size:19
Alignment explanation
Indices: 56366897--56366971 Score: 123
Period size: 19 Copynumber: 3.8 Consensus size: 19
56366887 AATCATATCT
56366897 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
56366916 TCCAAGATTGCACATATCATA
1 TCTAAGATTG--CATATCATA
56366937 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
56366956 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
56366972 CTCAAAAATT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
19 34 0.65
21 18 0.35
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.35
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:56366945 original size:40 final size:38
Alignment explanation
Indices: 56366890--56366967 Score: 129
Period size: 40 Copynumber: 2.0 Consensus size: 38
56366880 ATTACAAAAT
56366890 CATATCTTCTAAGATTGCATATCATATCCAAGATTGCA
1 CATATCTTCTAAGATTGCATATCATATCCAAGATTGCA
*
56366928 CATATCATATCTAAGATTGCATATCATATCTAAGATTGCA
1 CATATC-T-TCTAAGATTGCATATCATATCCAAGATTGCA
56366968 TATCCTCAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
38 6 0.16
39 1 0.03
40 30 0.81
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.35
Consensus pattern (38 bp):
CATATCTTCTAAGATTGCATATCATATCCAAGATTGCA
Found at i:56390136 original size:134 final size:132
Alignment explanation
Indices: 56389898--56390162 Score: 415
Period size: 134 Copynumber: 2.0 Consensus size: 132
56389888 CTTACACATC
* * * *
56389898 TTATTGATTATAATGAAAGCATCTTCTTCTAATGACATTTTGATGTCTCAAATTTACTGCAATCT
1 TTATTCATTATAATGAAAGCATCTTCTTCTAATGACATTTTGATGACCCAAATCTACTGCAATCT
* *
56389963 TCAAAGCATGGAGACATGCAATGGTTTCAATCAGCATATGAGTAGAGAAC-AAAAAGAAGAAAAG
66 TCAAAGCATGGAGACATGCAATGGTTTCAATCACCATATGACTAGAGAACTAAAAA-AAGAAAAG
56390027 TTT
130 TTT
56390030 TTATTCATTATAATGAAAGCATCTTCTTCTAATATGACATTTTGATGACCCAAATCTACTGCAAT
1 TTATTCATTATAATGAAAGCATCTTCTTCT-A-ATGACATTTTGATGACCCAAATCTACTGCAAT
* * *
56390095 CTTCAAAGTATGGAGATATGCAATGGTTTCTATCACCATATGACTAGAGAACTAAAAAAAGAAAA
64 CTTCAAAGCATGGAGACATGCAATGGTTTCAATCACCATATGACTAGAGAACTAAAAAAAGAAAA
56390160 GTT
129 GTT
56390163 ATGTTGAGAT
Statistics
Matches: 121, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
132 29 0.24
133 1 0.01
134 86 0.71
135 5 0.04
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (132 bp):
TTATTCATTATAATGAAAGCATCTTCTTCTAATGACATTTTGATGACCCAAATCTACTGCAATCT
TCAAAGCATGGAGACATGCAATGGTTTCAATCACCATATGACTAGAGAACTAAAAAAAGAAAAGT
TT
Found at i:56396653 original size:35 final size:33
Alignment explanation
Indices: 56396597--56396672 Score: 84
Period size: 32 Copynumber: 2.3 Consensus size: 33
56396587 GGTCAGATTC
56396597 AATCAAAA-AAAAAGAAAAGAAAAATAAAAATAAAA
1 AATCAAAATAAAAAGAAAAG-AAAA-AAAAA-AAAA
* * *
56396632 AATCAAAATAAAATG-AGAGAAAAAAAGAAAAA
1 AATCAAAATAAAAAGAAAAGAAAAAAAAAAAAA
56396664 AATCAAAAT
1 AATCAAAAT
56396673 CAAAGTCAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
32 13 0.35
33 4 0.11
34 4 0.11
35 11 0.30
36 5 0.14
ACGTcount: A:0.78, C:0.04, G:0.08, T:0.11
Consensus pattern (33 bp):
AATCAAAATAAAAAGAAAAGAAAAAAAAAAAAA
Found at i:56397562 original size:21 final size:21
Alignment explanation
Indices: 56397536--56397584 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
56397526 GCCTTGATTC
56397536 GAAAAAA-AAAAGATGAAAAAT
1 GAAAAAATAAAA-ATGAAAAAT
*
56397557 GAAAAAATGAAAATGAAAAA-
1 GAAAAAATAAAAATGAAAAAT
*
56397577 GTAAAAAT
1 GAAAAAAT
56397585 GAATAGGCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 7 0.28
21 15 0.60
22 3 0.12
ACGTcount: A:0.73, C:0.00, G:0.14, T:0.12
Consensus pattern (21 bp):
GAAAAAATAAAAATGAAAAAT
Found at i:56397570 original size:14 final size:14
Alignment explanation
Indices: 56397542--56397587 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
56397532 ATTCGAAAAA
56397542 AAAAAGATGAAAAATG
1 AAAAA-ATG-AAAATG
56397558 AAAAAATGAAAATG
1 AAAAAATGAAAATG
* *
56397572 AAAAAGTAAAAATG
1 AAAAAATGAAAATG
56397586 AA
1 AA
56397588 TAGGCTAAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 20 0.71
15 3 0.11
16 5 0.18
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.13
Consensus pattern (14 bp):
AAAAAATGAAAATG
Found at i:56398898 original size:44 final size:44
Alignment explanation
Indices: 56398843--56399229 Score: 147
Period size: 44 Copynumber: 8.3 Consensus size: 44
56398833 TCCCTAAGCA
* * *
56398843 ACAGTGGAGCAGATTGAAGCCAGAAATCTTATCTTCCTGAGATT
1 ACAGAGGAGCAGATTGAAGCCAGAAATCCTATCTCCCTGAGATT
* *
56398887 ACAGAGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
1 ACAGAGGAGCAGATTGAAGCCAGAAATCCTATCTCCCTGAGATT
* * * *** * * *
56398931 ACAGTGGAACGGATT-AAAATA-AAGGATCTTATCTCTCT-AAAGTT
1 ACAGAGGAGCAGATTGAAGCCAGAA--ATCCTATCTCCCTGAGA-TT
* * *
56398975 ACAGTAGAGTAGATCGCATCAAATTGAAGCCAGAAATCTTATCTCCTTGAGATT
1 AC---AGAG--GA--G---CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATT
* * * *
56399029 ACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCTCTGAGATT
1 ACAGAGGAGCAGATTGAAGCCAGAAATCCTATCTCCCTGAGATT
* * * *** * **
56399073 ATAGTGGAGCGGATT-AAAATA-AAGGATCTTATCTATCTGA-AGTT
1 ACAGAGGAGCAGATTGAAGCCAGAA--ATCCTATCTCCCTGAGA-TT
*
56399117 ACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATT
1 AC---AGAG--GA--G---CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATT
* * * * *
56399171 ACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCTCTAAGATT
1 ACAGAGGAGCAGATTGAAGCCAGAAATCCTATCTCCCTGAGATT
* * *
56399215 ATAGTGGAGCGGATT
1 ACAGAGGAGCAGATT
56399230 AAAATAAAGG
Statistics
Matches: 255, Mismatches: 56, Indels: 64
0.68 0.15 0.17
Matches are distributed among these distances:
42 2 0.01
43 11 0.04
44 165 0.65
47 8 0.03
49 8 0.03
51 7 0.03
54 41 0.16
55 9 0.04
56 4 0.02
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (44 bp):
ACAGAGGAGCAGATTGAAGCCAGAAATCCTATCTCCCTGAGATT
Found at i:56399116 original size:142 final size:141
Alignment explanation
Indices: 56398852--56399455 Score: 1001
Period size: 142 Copynumber: 4.2 Consensus size: 141
56398842 AACAGTGGAG
*
56398852 CAGATTGAAGCCAGAAATCTTATCTTCCTGAGATTACAGAGGAGCAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATC-TCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
* *
56398917 ATCTCCCTGAGATTACAGTGGAACGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAG
65 ATCTCCCTGAGATTACAGTGGAACGGATTAAAATAAAGGATCTTATCTATCTGAAGTTACAGTAG
56398982 AGTAGATCGCAT
130 AGTAGATCGCAT
*
56398994 CAAATTGAAGCCAGAAATCTTATCTCCTTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCC-TGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
* * *
56399059 ATCTCTCTGAGATTATAGTGGAGCGGATTAAAATAAAGGATCTTATCTATCTGAAGTTACAGTAG
65 ATCTCCCTGAGATTACAGTGGAACGGATTAAAATAAAGGATCTTATCTATCTGAAGTTACAGTAG
56399124 AGTAGATCGCAT
130 AGTAGATCGCAT
56399136 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCT-CCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
* * * *
56399201 ATCTCTCTAAGATTATAGTGGAGCGGATTAAAATAAAGGATCTTATCTATCTGAAGTTACAGTAG
65 ATCTCCCTGAGATTACAGTGGAACGGATTAAAATAAAGGATCTTATCTATCTGAAGTTACAGTAG
56399266 AGTAGATCGCAT
130 AGTAGATCGCAT
* *
56399278 CAGATTGAAGCCAGAAATTTTATCTCCCTGAGATTACAGCGGAACAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCT-CCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
* * * **
56399343 ATCTCCCTTATATTACAGTGGAACGGATTAAAATAAATGATCTTATCTCGCTGAAGTTACAGTAG
65 ATCTCCCTGAGATTACAGTGGAACGGATTAAAATAAAGGATCTTATCTATCTGAAGTTACAGTAG
56399408 AGTAGATCGCAT
130 AGTAGATCGCAT
56399420 CAGATTGAAGCCAGAAATCTTATCTTCCTGAGATTA
1 CAGATTGAAGCCAGAAATCTTATC-TCCTGAGATTA
56399456 TAGTGGAATA
Statistics
Matches: 439, Mismatches: 20, Indels: 6
0.94 0.04 0.01
Matches are distributed among these distances:
141 3 0.01
142 433 0.99
143 3 0.01
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.28
Consensus pattern (141 bp):
CAGATTGAAGCCAGAAATCTTATCTCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTA
TCTCCCTGAGATTACAGTGGAACGGATTAAAATAAAGGATCTTATCTATCTGAAGTTACAGTAGA
GTAGATCGCAT
Found at i:56399346 original size:44 final size:44
Alignment explanation
Indices: 56399278--56399371 Score: 116
Period size: 44 Copynumber: 2.1 Consensus size: 44
56399268 TAGATCGCAT
**
56399278 CAGATTGAAGCCAGAAATTTTATCTCCCTGAGATTACAGCGGAA
1 CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAA
* * * * *
56399322 CAGATTGAAGCTAGTAATCCTATCTCCCTTATATTACAGTGGAA
1 CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAA
*
56399366 CGGATT
1 CAGATT
56399372 AAAATAAATG
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (44 bp):
CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAA
Found at i:56399567 original size:50 final size:50
Alignment explanation
Indices: 56399513--56399924 Score: 337
Period size: 50 Copynumber: 8.3 Consensus size: 50
56399503 AGTGGAACAA
* * *
56399513 ATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAATTAAAAAG
1 ATTAAAGCCACAACAGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAG
* * * * * * * ** **
56399563 ATTAAAGTCACAGCGGTGAATCTTACTTCTCTGGCGA-T-CAGTGGAGCAG
1 ATTAAAGCCACAACAGTGAATCTTGCTTCCCCGAC-ATTGCAGTTAAAAAG
* * * *
56399612 ATTAAAACCAAAACGGTGAATCTTGCTTCCCCAACATTGCAGTTAAAAAG
1 ATTAAAGCCACAACAGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAG
* ** * * * ** ** *
56399662 ATTAAAGCCATAACAACGAATCTTAC-TCCCTAGGCGGTGCAGCGGAACAA-
1 ATTAAAGCCACAACAGTGAATCTTGCTTCCC-CGACATTGCAG-TTAAAAAG
*
56399712 ATTAAAGGCACAACAGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAG
1 ATTAAAGCCACAACAGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAG
* * * ** * ** *
56399762 ATTAAAGCTACAACAGCGAATCTTACTTCCCTTACAGTGCAGTGGAACAG
1 ATTAAAGCCACAACAGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAG
* * * * *
56399812 ATTAAAGCCACATCAATGAATCTTGCCTCCCGGACATTGCAGTTCAAAAG
1 ATTAAAGCCACAACAGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAG
* * * *
56399862 ATTAAAGCTACAACATTGAATCATGCTTCCCCGACATTGCAATTAAAAAG
1 ATTAAAGCCACAACAGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAG
56399912 ATTAAAGCCACAA
1 ATTAAAGCCACAA
56399925 TGGCGAATCT
Statistics
Matches: 274, Mismatches: 81, Indels: 14
0.74 0.22 0.04
Matches are distributed among these distances:
48 1 0.00
49 41 0.15
50 223 0.81
51 9 0.03
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.24
Consensus pattern (50 bp):
ATTAAAGCCACAACAGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAG
Found at i:56399751 original size:100 final size:101
Alignment explanation
Indices: 56399481--56399876 Score: 453
Period size: 100 Copynumber: 4.0 Consensus size: 101
56399471 AAGAATTACA
* * * * * *
56399481 AATCTTATTTCCC-AAGCGATGTAGTGGAACAAATTAAAGCCACATCGGTGAATCTTGCTTCCCC
1 AATCTTACTTCCCTAGGCGGTGCAGTGGAACAAATTAAAGCCACAACAGTGAATCTTGCTTCCCC
* * * * *
56399545 GACATTGCAATTAAAAAGATTAAAGTCACAGCGGTG
66 GACATTGCAGTTAAAAAGATTAAAGCCACAACAGCG
* * * * * * *
56399581 AATCTTACTTCTCT-GGCGAT-CAGTGGAGCAGATTAAAACCAAAACGGTGAATCTTGCTTCCCC
1 AATCTTACTTCCCTAGGCGGTGCAGTGGAACAAATTAAAGCCACAACAGTGAATCTTGCTTCCCC
* * *
56399644 AACATTGCAGTTAAAAAGATTAAAGCCATAACAACG
66 GACATTGCAGTTAAAAAGATTAAAGCCACAACAGCG
* *
56399680 AATCTTAC-TCCCTAGGCGGTGCAGCGGAACAAATTAAAGGCACAACAGTGAATCTTGCTTCCCC
1 AATCTTACTTCCCTAGGCGGTGCAGTGGAACAAATTAAAGCCACAACAGTGAATCTTGCTTCCCC
*
56399744 GACATTGCAGTTAAAAAGATTAAAGCTACAACAGCG
66 GACATTGCAGTTAAAAAGATTAAAGCCACAACAGCG
* * * * *
56399780 AATCTTACTTCCCTTA--CAGTGCAGTGGAACAGATTAAAGCCACATCAATGAATCTTGCCTCCC
1 AATCTTACTTCCC-TAGGCGGTGCAGTGGAACAAATTAAAGCCACAACAGTGAATCTTGCTTCCC
* * *
56399843 GGACATTGCAGTTCAAAAGATTAAAGCTACAACA
65 CGACATTGCAGTTAAAAAGATTAAAGCCACAACA
56399877 TTGAATCATG
Statistics
Matches: 252, Mismatches: 39, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
98 4 0.02
99 78 0.31
100 164 0.65
101 4 0.02
102 2 0.01
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (101 bp):
AATCTTACTTCCCTAGGCGGTGCAGTGGAACAAATTAAAGCCACAACAGTGAATCTTGCTTCCCC
GACATTGCAGTTAAAAAGATTAAAGCCACAACAGCG
Found at i:56407200 original size:17 final size:19
Alignment explanation
Indices: 56407163--56407202 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
56407153 GATGAACCAT
56407163 AAAATAAGTTAAAGGAATG
1 AAAATAAGTTAAAGGAATG
*
56407182 AAAATAAG-TAAA-TAATG
1 AAAATAAGTTAAAGGAATG
56407199 AAAA
1 AAAA
56407203 GAAAAAATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.40
18 4 0.20
19 8 0.40
ACGTcount: A:0.65, C:0.00, G:0.15, T:0.20
Consensus pattern (19 bp):
AAAATAAGTTAAAGGAATG
Found at i:56409041 original size:23 final size:23
Alignment explanation
Indices: 56409014--56409058 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
56409004 CGAGAGATAG
*
56409014 TCAAATTGCATAATGTTCCTGTA
1 TCAAATTGCATAATGTACCTGTA
*
56409037 TCAAATTGCATAGTGTACCTGT
1 TCAAATTGCATAATGTACCTGT
56409059 GTCTATTATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.38
Consensus pattern (23 bp):
TCAAATTGCATAATGTACCTGTA
Found at i:56409386 original size:199 final size:199
Alignment explanation
Indices: 56409037--56409626 Score: 1090
Period size: 199 Copynumber: 3.0 Consensus size: 199
56409027 TGTTCCTGTA
*
56409037 TCAAATTGCATAGTGTACCTGTGTCTATTATCTCTGACCGAGATCCGCGCTTTGCTTCTAGATTC
1 TCAAATTGCATAGTGTACCTGTGTCTATTATCTCTGACCGAGATCCGCGCTTTGCTTCGAGATTC
*
56409102 TAGAAGCATCTACATGAATCTTTAAGTATGAGATTAAATTTCAGCACAACTTTTCATTCTCAGAC
66 TGGAAGCATCTACATGAATCTTTAAGTATGAGATTAAATTTCAGCACAACTTTTCATTCTCAGAC
56409167 AGATGGCCAATCAGAATGGGTATTCAGATATTAGAATATATGTTGTAATCATGTGTAATTGAGAG
131 AGATGGCCAATCAGAATGGGTATTCAGATATTAGAATATATGTTGTAATCATGTGTAATTGAGAG
56409232 ATAG
196 ATAG
56409236 TCAAATTGCATAGTGTACCTGTGTCTATTATCTCTGACCGAGATCCGCGCTTTGCTTCGAGATTC
1 TCAAATTGCATAGTGTACCTGTGTCTATTATCTCTGACCGAGATCCGCGCTTTGCTTCGAGATTC
*
56409301 TGGAAACATCTACATGAATCTTTAAGTATGAGATTAAATTTCAGCACAACTTTTCATTCTCAGAC
66 TGGAAGCATCTACATGAATCTTTAAGTATGAGATTAAATTTCAGCACAACTTTTCATTCTCAGAC
* *
56409366 AGATGGCTAATCATAATGGGTATTCAGATATTAGAATATATGTTGTAATCATGTGTAATTGAGAG
131 AGATGGCCAATCAGAATGGGTATTCAGATATTAGAATATATGTTGTAATCATGTGTAATTGAGAG
56409431 ATAG
196 ATAG
* *
56409435 TCAAATTGCACAGTGTACCTGTGTCTATTATCTCTGATCGAGATCCGCGCTTTGCTTCGAGATTC
1 TCAAATTGCATAGTGTACCTGTGTCTATTATCTCTGACCGAGATCCGCGCTTTGCTTCGAGATTC
* * *
56409500 TGGAAGCACCTACATGAATCTTTAAGTATGAGATTAAATTTCAGCACAACTTTTTATTCTCAGTC
66 TGGAAGCATCTACATGAATCTTTAAGTATGAGATTAAATTTCAGCACAACTTTTCATTCTCAGAC
56409565 AGATGGCCAATCAGAATGGGTATTCAGATATTAGAATATATGTTGTAATCATGTGTAATTGA
131 AGATGGCCAATCAGAATGGGTATTCAGATATTAGAATATATGTTGTAATCATGTGTAATTGA
56409627 TTTTGAATCA
Statistics
Matches: 378, Mismatches: 13, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
199 378 1.00
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.35
Consensus pattern (199 bp):
TCAAATTGCATAGTGTACCTGTGTCTATTATCTCTGACCGAGATCCGCGCTTTGCTTCGAGATTC
TGGAAGCATCTACATGAATCTTTAAGTATGAGATTAAATTTCAGCACAACTTTTCATTCTCAGAC
AGATGGCCAATCAGAATGGGTATTCAGATATTAGAATATATGTTGTAATCATGTGTAATTGAGAG
ATAG
Found at i:56410655 original size:22 final size:23
Alignment explanation
Indices: 56410612--56410657 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
56410602 GATGGCTTAT
*
56410612 AATTTTATAAATACTAAGTTATAA
1 AATTTTATAAATAC-AAATTATAA
*
56410636 AATTTTATAATTA-AAATTATAA
1 AATTTTATAAATACAAATTATAA
56410658 TATGGTAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 8 0.40
24 12 0.60
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (23 bp):
AATTTTATAAATACAAATTATAA
Found at i:56428288 original size:14 final size:14
Alignment explanation
Indices: 56428271--56428300 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
56428261 TGAATGTATT
56428271 ATAATATCTTTTCA
1 ATAATATCTTTTCA
56428285 ATAATATCTTTTCA
1 ATAATATCTTTTCA
56428299 AT
1 AT
56428301 GATGTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (14 bp):
ATAATATCTTTTCA
Found at i:56441052 original size:40 final size:40
Alignment explanation
Indices: 56440969--56441231 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
56440959 TTGAATGCTG
* * * * * *
56440969 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
56441009 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
56441049 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
*
56441089 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
56441129 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
56441169 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
56441208 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
56441232 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:56448969 original size:40 final size:40
Alignment explanation
Indices: 56448886--56449148 Score: 307
Period size: 40 Copynumber: 6.6 Consensus size: 40
56448876 TTGAATGCTG
* * * * * *
56448886 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
56448926 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
*
56448966 TCCGGGTTAAGTCCCGAAGGCATTCCTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
56449006 TCCGGGTTAAGTCCCGAAGGCATTCCTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
56449046 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
56449086 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
56449125 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
56449149 TGAACGAGGA
Statistics
Matches: 199, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.18
40 156 0.78
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:56449168 original size:79 final size:80
Alignment explanation
Indices: 56448925--56449183 Score: 229
Period size: 80 Copynumber: 3.3 Consensus size: 80
56448915 AAGTGAATAT
* * ** * * *
56448925 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCCTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
*** * *
56448989 TCCTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
56449005 ATCCGGGTTAAGTCCCGAAGGCATTCCTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCCTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
56449070 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * * *
56449085 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCCTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
56449149 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
56449164 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
56449184 TACGTGATTT
Statistics
Matches: 153, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
78 14 0.09
79 47 0.31
80 92 0.60
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCCTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:56451772 original size:15 final size:15
Alignment explanation
Indices: 56451752--56451806 Score: 69
Period size: 15 Copynumber: 3.8 Consensus size: 15
56451742 ACTCTCCTCA
*
56451752 TTCTTTTCTTTCTTT
1 TTCTTTTCTCTCTTT
*
56451767 TTCTTTTCACTCTTT
1 TTCTTTTCTCTCTTT
*
56451782 TTGTTTT-TCTCTTT
1 TTCTTTTCTCTCTTT
56451796 TTCTTTT-TCTC
1 TTCTTTTCTCTC
56451807 GATCAATAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
14 16 0.46
15 19 0.54
ACGTcount: A:0.02, C:0.22, G:0.02, T:0.75
Consensus pattern (15 bp):
TTCTTTTCTCTCTTT
Found at i:56453848 original size:12 final size:11
Alignment explanation
Indices: 56453824--56453858 Score: 52
Period size: 12 Copynumber: 3.0 Consensus size: 11
56453814 TTTTAATCAC
56453824 TTCTCTTTTTTT
1 TTCT-TTTTTTT
56453836 TTCTTTTTGTTT
1 TTCTTTTT-TTT
56453848 TTCTTTTTTTT
1 TTCTTTTTTTT
56453859 AATTCTGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 7 0.32
12 15 0.68
ACGTcount: A:0.00, C:0.11, G:0.03, T:0.86
Consensus pattern (11 bp):
TTCTTTTTTTT
Found at i:56453871 original size:16 final size:16
Alignment explanation
Indices: 56453852--56453884 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
56453842 TTGTTTTTCT
*
56453852 TTTTTTTAATTCTGAA
1 TTTTTTTAATACTGAA
56453868 TTTTTTTAATACTGAA
1 TTTTTTTAATACTGAA
56453884 T
1 T
56453885 ACACAAAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.27, C:0.06, G:0.06, T:0.61
Consensus pattern (16 bp):
TTTTTTTAATACTGAA
Found at i:56459313 original size:11 final size:11
Alignment explanation
Indices: 56459293--56459347 Score: 85
Period size: 11 Copynumber: 5.0 Consensus size: 11
56459283 TAGTAGTTTC
56459293 TTCAAAAAAAA
1 TTCAAAAAAAA
56459304 TTTCAAAAAAAA
1 -TTCAAAAAAAA
*
56459316 ATC-AAAAAAA
1 TTCAAAAAAAA
56459326 TTCAAAAAAAA
1 TTCAAAAAAAA
56459337 TTCAAAAAAAA
1 TTCAAAAAAAA
56459348 AAATTTGGTT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
10 9 0.22
11 20 0.50
12 11 0.28
ACGTcount: A:0.73, C:0.09, G:0.00, T:0.18
Consensus pattern (11 bp):
TTCAAAAAAAA
Found at i:56459324 original size:21 final size:21
Alignment explanation
Indices: 56459297--56459346 Score: 82
Period size: 21 Copynumber: 2.3 Consensus size: 21
56459287 AGTTTCTTCA
56459297 AAAAAAATTTCAAAAAAAAATC
1 AAAAAAA-TTCAAAAAAAAATC
*
56459319 AAAAAAATTCAAAAAAAATTC
1 AAAAAAATTCAAAAAAAAATC
56459340 AAAAAAA
1 AAAAAAA
56459347 AAAATTTGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 20 0.74
22 7 0.26
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (21 bp):
AAAAAAATTCAAAAAAAAATC
Found at i:56459413 original size:15 final size:15
Alignment explanation
Indices: 56459393--56459448 Score: 76
Period size: 15 Copynumber: 3.6 Consensus size: 15
56459383 ATCAAGTTGA
56459393 AAAAAAAAATTCGTG
1 AAAAAAAAATTCGTG
56459408 AAAAAAAAATTCGTG
1 AAAAAAAAATTCGTG
**
56459423 AAAAAAATTTTTTCGTG
1 AAAAAAA--AATTCGTG
56459440 AAAAAAAAA
1 AAAAAAAAA
56459449 GAAGAAGCTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
15 22 0.63
17 13 0.37
ACGTcount: A:0.61, C:0.05, G:0.11, T:0.23
Consensus pattern (15 bp):
AAAAAAAAATTCGTG
Found at i:56459414 original size:17 final size:17
Alignment explanation
Indices: 56459392--56459448 Score: 64
Period size: 17 Copynumber: 3.5 Consensus size: 17
56459382 TATCAAGTTG
56459392 AAAAAAAAAATTCGTG-
1 AAAAAAAAAATTCGTGA
56459408 -AAAAAAAAATTCGTGA
1 AAAAAAAAAATTCGTGA
****
56459424 AAAAAATTTTTTCGTGA
1 AAAAAAAAAATTCGTGA
56459441 AAAAAAAA
1 AAAAAAAA
56459449 GAAGAAGCTA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
15 15 0.45
17 18 0.55
ACGTcount: A:0.61, C:0.05, G:0.11, T:0.23
Consensus pattern (17 bp):
AAAAAAAAAATTCGTGA
Found at i:56481683 original size:40 final size:40
Alignment explanation
Indices: 56481600--56481862 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
56481590 TTGAATGCTG
* * * * * *
56481600 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
56481640 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
56481680 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
*
56481720 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
56481760 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
56481800 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
56481839 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
56481863 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:56486149 original size:44 final size:44
Alignment explanation
Indices: 56486101--56486289 Score: 127
Period size: 44 Copynumber: 4.3 Consensus size: 44
56486091 AGATAGCAGG
56486101 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATGA-CAAA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGAT-ACCAAA
* * ** *
56486145 TCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCACCAAG
1 TCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGATACCAAA
* * * * * * ** **
56486189 CCTTGTCTTCCTGAGCAGCAGTGGAGCAGGTTGAAGATAGTAGG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATACCAAA
** * *
56486233 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGA-AACTAA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATACCAAA
*
56486276 TCCTATCTCCCTAA
1 TCTTATCTCCCTAA
56486290 AGTTGTAGTA
Statistics
Matches: 108, Mismatches: 30, Indels: 15
0.71 0.20 0.10
Matches are distributed among these distances:
42 4 0.04
43 22 0.20
44 73 0.68
45 6 0.06
46 3 0.03
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (44 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATACCAAA
Found at i:56486298 original size:44 final size:43
Alignment explanation
Indices: 56486236--56486355 Score: 118
Period size: 44 Copynumber: 2.7 Consensus size: 43
56486226 TAGTAGGTCT
**
56486236 TATCTCCCTAAGCAGTAGTGGAGCAGA-CAGAAGAAACTA-ATCC
1 TATCTCCCTAAGTTGTAGTGGAGCAGATCA-AAGAAA-TAGATCC
* * * *
56486279 TATCTCCCTAAAGTTGTAGTAGAGCGGATTAAAGTAATAGATCC
1 TATCTCCCT-AAGTTGTAGTGGAGCAGATCAAAGAAATAGATCC
* *
56486323 TATCTCCCTGAAGTTGCAGTGGAGCGGATCAAA
1 TATCTCCCT-AAGTTGTAGTGGAGCAGATCAAA
56486356 AGGATCTCAT
Statistics
Matches: 64, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
43 11 0.17
44 52 0.81
45 1 0.02
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (43 bp):
TATCTCCCTAAGTTGTAGTGGAGCAGATCAAAGAAATAGATCC
Found at i:56486856 original size:20 final size:20
Alignment explanation
Indices: 56486823--56486877 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
56486813 CCGATTACAA
56486823 AAGCCCAAAACCCAACACAG
1 AAGCCCAAAACCCAACACAG
* *
56486843 AAGTCCAAAGCCCAACACAG
1 AAGCCCAAAACCCAACACAG
56486863 AAGCCCAAAACCCAA
1 AAGCCCAAAACCCAA
56486878 GACTTCCCCA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.49, C:0.38, G:0.11, T:0.02
Consensus pattern (20 bp):
AAGCCCAAAACCCAACACAG
Found at i:56494199 original size:15 final size:15
Alignment explanation
Indices: 56494179--56494209 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
56494169 ATCAGCTCGG
56494179 TTGGATGACATTTTA
1 TTGGATGACATTTTA
*
56494194 TTGGATGATATTTTA
1 TTGGATGACATTTTA
56494209 T
1 T
56494210 CTATATGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.03, G:0.19, T:0.52
Consensus pattern (15 bp):
TTGGATGACATTTTA
Found at i:56494698 original size:21 final size:21
Alignment explanation
Indices: 56494668--56494709 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
56494658 TAAATATTGA
*
56494668 GTTATCGTACCCATAGGGACT
1 GTTATCGTACCCACAGGGACT
*
56494689 GTTATTGTACCCACAGGGACT
1 GTTATCGTACCCACAGGGACT
56494710 ATGAAAAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.29
Consensus pattern (21 bp):
GTTATCGTACCCACAGGGACT
Found at i:56499123 original size:30 final size:30
Alignment explanation
Indices: 56499087--56499146 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
56499077 AATCAATAAA
* *
56499087 CCATCGTTGTCAAGTGATCGGGGTGGTAGG
1 CCATCGTTGCCAAGCGATCGGGGTGGTAGG
*
56499117 CCATCGTTGCCAGGCGATCGGGGTGGTAGG
1 CCATCGTTGCCAAGCGATCGGGGTGGTAGG
56499147 TTATCATTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.15, C:0.20, G:0.42, T:0.23
Consensus pattern (30 bp):
CCATCGTTGCCAAGCGATCGGGGTGGTAGG
Found at i:56501293 original size:19 final size:19
Alignment explanation
Indices: 56501265--56501302 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
56501255 TAGATATGAT
56501265 ATTTTTTTTAT-TTGTTTA
1 ATTTTTTTTATGTTGTTTA
56501283 ATTTCTTTTTATGTTGTTTA
1 ATTT-TTTTTATGTTGTTTA
56501303 TGAACTAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.22
19 7 0.39
20 7 0.39
ACGTcount: A:0.16, C:0.03, G:0.08, T:0.74
Consensus pattern (19 bp):
ATTTTTTTTATGTTGTTTA
Found at i:56505373 original size:20 final size:19
Alignment explanation
Indices: 56505350--56505394 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
56505340 TGATTTTAAC
56505350 TAATTTTAAATAATTTCATT
1 TAATTTTAAAT-ATTTCATT
* * *
56505370 TAATTTTCAATTTTTCTTT
1 TAATTTTAAATATTTCATT
56505389 TAATTT
1 TAATTT
56505395 AGACTTAGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (19 bp):
TAATTTTAAATATTTCATT
Found at i:56505447 original size:15 final size:15
Alignment explanation
Indices: 56505429--56505471 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
56505419 AGATTTTTTT
* *
56505429 TTTAAAATTTTAGTC
1 TTTAATATTTTAGAC
*
56505444 TTTAATTATTTAAGAC
1 TTTAA-TATTTTAGAC
56505460 TTTAATATTTTA
1 TTTAATATTTTA
56505472 TATATGTAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 11 0.48
16 12 0.52
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.56
Consensus pattern (15 bp):
TTTAATATTTTAGAC
Found at i:56507679 original size:22 final size:22
Alignment explanation
Indices: 56507654--56507695 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
56507644 GTATTTAGTT
56507654 TATTTCTTGT-TTTCAATCAACA
1 TATTT-TTGTATTTCAATCAACA
*
56507676 TATTTTTTTATTTCAATCAA
1 TATTTTTGTATTTCAATCAA
56507696 TCAATTTACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.29, C:0.14, G:0.02, T:0.55
Consensus pattern (22 bp):
TATTTTTGTATTTCAATCAACA
Found at i:56508047 original size:30 final size:31
Alignment explanation
Indices: 56508013--56508080 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
56508003 TTGTCCAAGA
* * * **
56508013 GTAAATACTAGAAATTTGAGGGATTAA-AGT
1 GTAAATACAAAAAATTTGAAGGACCAATAGT
56508043 GTAAATACAAAAAATTTGAAGGACCAATAGT
1 GTAAATACAAAAAATTTGAAGGACCAATAGT
56508074 GTAAATA
1 GTAAATA
56508081 TTTTAAGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 22 0.69
31 10 0.31
ACGTcount: A:0.49, C:0.06, G:0.19, T:0.26
Consensus pattern (31 bp):
GTAAATACAAAAAATTTGAAGGACCAATAGT
Found at i:56513652 original size:12 final size:13
Alignment explanation
Indices: 56513627--56513657 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
56513617 TGCAAATGTG
56513627 TCATTTCTCATTT
1 TCATTTCTCATTT
56513640 TCATTTC-CATTT
1 TCATTTCTCATTT
56513652 TCATTT
1 TCATTT
56513658 TAAAAAACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.16, C:0.23, G:0.00, T:0.61
Consensus pattern (13 bp):
TCATTTCTCATTT
Found at i:56520076 original size:40 final size:40
Alignment explanation
Indices: 56520016--56520092 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
56520006 GTCATGCACA
* ** *
56520016 ATGTATCAAATGGTTGCAACATCTTATACATCATTAATCT
1 ATGTACCAAATGGTCACAACATCTCATACATCATTAATCT
56520056 ATGTACCAAATGGTCACAACATCTCATACATCATTAA
1 ATGTACCAAATGGTCACAACATCTCATACATCATTAA
56520093 ACTCAAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (40 bp):
ATGTACCAAATGGTCACAACATCTCATACATCATTAATCT
Found at i:56520925 original size:37 final size:37
Alignment explanation
Indices: 56520884--56520954 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
56520874 TTAATTGCTA
56520884 ATAATTTTT-ATAAATTATTCTTTTTC-TAAATTTTTTT
1 ATAATTTTTAATAAATTA-T-TTTTTCATAAATTTTTTT
*
56520921 ATAATTTTTAATAAGTTATTTTTTCATAAATTTT
1 ATAATTTTTAATAAATTATTTTTTCATAAATTTT
56520955 ATACAAATTC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
36 6 0.19
37 18 0.58
38 7 0.23
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.62
Consensus pattern (37 bp):
ATAATTTTTAATAAATTATTTTTTCATAAATTTTTTT
Found at i:56521144 original size:11 final size:11
Alignment explanation
Indices: 56521128--56521153 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
56521118 TATGCAATTA
56521128 TTTTAAAATAT
1 TTTTAAAATAT
56521139 TTTTAAAATAT
1 TTTTAAAATAT
56521150 TTTT
1 TTTT
56521154 TCCCACATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:56521433 original size:7 final size:7
Alignment explanation
Indices: 56521421--56521459 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
56521411 CTTGTGCTCT
56521421 TTTAAAA
1 TTTAAAA
56521428 TTTAAAA
1 TTTAAAA
56521435 TTTAAAA
1 TTTAAAA
56521442 TTTAAAA
1 TTTAAAA
56521449 TTTAAAA
1 TTTAAAA
56521456 TTTA
1 TTTA
56521460 GTCCTTATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (7 bp):
TTTAAAA
Found at i:56521725 original size:33 final size:33
Alignment explanation
Indices: 56521662--56521725 Score: 78
Period size: 34 Copynumber: 1.9 Consensus size: 33
56521652 TTTTTTCATA
*
56521662 TTTTAAATAAAGAAATATAAAAATTTATAAATT
1 TTTTAAATAAAGAAATATAAAAATTAATAAATT
*
56521695 TTTTAAAATAAA-AAATTATGAAAA-TAATAAA
1 TTTT-AAATAAAGAAA-TATAAAAATTAATAAA
56521726 AACACTTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
33 13 0.48
34 14 0.52
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (33 bp):
TTTTAAATAAAGAAATATAAAAATTAATAAATT
Found at i:56524494 original size:17 final size:17
Alignment explanation
Indices: 56524449--56524509 Score: 56
Period size: 18 Copynumber: 3.6 Consensus size: 17
56524439 TTATTTTTAA
56524449 TTTT-AAATATTTTA-T
1 TTTTAAAATATTTTATT
56524464 TTTTACTAAA-ATTTTATT
1 TTTTA--AAATATTTTATT
*
56524482 TTTTAAAATATTTTCGTT
1 TTTTAAAATATTTT-ATT
*
56524500 TTTTTAAATA
1 TTTTAAAATA
56524510 AGAAAAATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
15 4 0.11
16 3 0.08
17 11 0.29
18 20 0.53
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (17 bp):
TTTTAAAATATTTTATT
Found at i:56524772 original size:25 final size:25
Alignment explanation
Indices: 56524743--56524798 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
56524733 TATTTGCTTT
* *
56524743 GAACCGGCTATACTGGTTATTCTAG
1 GAACCAGCTATACTAGTTATTCTAG
* *
56524768 GAACCAGTTGTACTAGTTATTCTAG
1 GAACCAGCTATACTAGTTATTCTAG
56524793 GAACCA
1 GAACCA
56524799 ATTGGTTAGG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (25 bp):
GAACCAGCTATACTAGTTATTCTAG
Found at i:56528125 original size:2 final size:2
Alignment explanation
Indices: 56528118--56528144 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
56528108 TCCAGGTTTG
56528118 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
56528145 ATCTAGTGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:56530890 original size:6 final size:6
Alignment explanation
Indices: 56530880--56530917 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
56530870 TCCGAATGTT
*
56530880 CAGAAT CAGAAC CAGAAC CAGAAC CAGAAC CAGAAC CA
1 CAGAAC CAGAAC CAGAAC CAGAAC CAGAAC CAGAAC CA
56530918 TAGTCATGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.50, C:0.32, G:0.16, T:0.03
Consensus pattern (6 bp):
CAGAAC
Found at i:56533436 original size:48 final size:48
Alignment explanation
Indices: 56533365--56533507 Score: 189
Period size: 48 Copynumber: 3.0 Consensus size: 48
56533355 AGGTGTTCCG
* * *
56533365 ATCCCTTTGTTCTTGGCCCCAGCCACTGCTCGGATTCCCATAATCTCT
1 ATCCCTTTGTTCTCGACTCCAGCCACTGCTCGGATTCCCATAATCTCT
* *
56533413 ATCCCTTTGTTCTCGACTCCAGCCATTGCTCAGA-TCCCTATAATCTCT
1 ATCCCTTTGTTCTCGACTCCAGCCACTGCTCGGATTCCC-ATAATCTCT
* ** *
56533461 ATCCCTTTGTTCTCGACTCCAGCCGCCACTTGGATTCCCATAATCTC
1 ATCCCTTTGTTCTCGACTCCAGCCACTGCTCGGATTCCCATAATCTC
56533508 GACTCTTCTA
Statistics
Matches: 82, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
47 4 0.05
48 74 0.90
49 4 0.05
ACGTcount: A:0.17, C:0.37, G:0.13, T:0.34
Consensus pattern (48 bp):
ATCCCTTTGTTCTCGACTCCAGCCACTGCTCGGATTCCCATAATCTCT
Found at i:56542752 original size:23 final size:23
Alignment explanation
Indices: 56542725--56542784 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
56542715 CCTTAGGGGA
*
56542725 GATTAACGAGTGGATGGGGATGT
1 GATTAACGAATGGATGGGGATGT
*
56542748 GATTAATGAATGGATGGGGATGT
1 GATTAACGAATGGATGGGGATGT
56542771 GATTAACGAA-GGAT
1 GATTAACGAATGGAT
56542785 TTAGGGTTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
22 4 0.12
23 30 0.88
ACGTcount: A:0.32, C:0.03, G:0.38, T:0.27
Consensus pattern (23 bp):
GATTAACGAATGGATGGGGATGT
Found at i:56543516 original size:19 final size:21
Alignment explanation
Indices: 56543478--56543517 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
56543468 TAAATACAAA
*
56543478 ATTTTTAATTTTTGTTAATTT
1 ATTTTTAATTTGTGTTAATTT
56543499 ATTTTT-ATTTGT-TTAATTT
1 ATTTTTAATTTGTGTTAATTT
56543518 CCTTTTGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 5 0.28
21 6 0.33
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (21 bp):
ATTTTTAATTTGTGTTAATTT
Found at i:56549075 original size:27 final size:27
Alignment explanation
Indices: 56549018--56549084 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 27
56549008 CCCAGTTCGC
**
56549018 CAGGCCTATTGGCGGTCCCAACTCGAT
1 CAGGCCTATTGGCGAACCCAACTCGAT
*
56549045 -AGGCCTAATGGCGAACACCAACTCG-T
1 CAGGCCTATTGGCGAAC-CCAACTCGAT
56549071 CAGGCCTATTGGCG
1 CAGGCCTATTGGCG
56549085 TAAACCTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
26 14 0.41
27 20 0.59
ACGTcount: A:0.22, C:0.31, G:0.27, T:0.19
Consensus pattern (27 bp):
CAGGCCTATTGGCGAACCCAACTCGAT
Found at i:56557195 original size:53 final size:53
Alignment explanation
Indices: 56557114--56557258 Score: 229
Period size: 53 Copynumber: 2.7 Consensus size: 53
56557104 ACAGTTGATC
*
56557114 AAATACCATATCATGTAAGACCGTAACTGGTGGGTTATGACATAATAT-GAAA
1 AAATACCATATCGTGTAAGACCGTAACTGGTGGGTTATGACATAATATGGAAA
* *
56557166 AGAATACCATATCGTGTAAGACCGTAACTGGTTGGTTATGACATCATATGGAAA
1 A-AATACCATATCGTGTAAGACCGTAACTGGTGGGTTATGACATAATATGGAAA
* *
56557220 AAAGACCATATCGTGTAAGACCGTAACTAGTGGGTTATG
1 AAATACCATATCGTGTAAGACCGTAACTGGTGGGTTATG
56557259 GCATCAAAAA
Statistics
Matches: 85, Mismatches: 6, Indels: 3
0.90 0.06 0.03
Matches are distributed among these distances:
52 1 0.01
53 79 0.93
54 5 0.06
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (53 bp):
AAATACCATATCGTGTAAGACCGTAACTGGTGGGTTATGACATAATATGGAAA
Found at i:56557484 original size:57 final size:56
Alignment explanation
Indices: 56557423--56557687 Score: 241
Period size: 57 Copynumber: 4.7 Consensus size: 56
56557413 TTTAAGGATG
*
56557423 CCTTTGTGCAAAAAATTTGGAAAGGTAAGCCTTTGTGGCAAACCTATTAAAGGAAAA
1 CCTTTGTGC-AAAAATCTGGAAAGGTAAGCCTTTGTGGCAAACCTATTAAAGGAAAA
* * * ** *
56557480 CCTTTGAGGCAAAACTCTAGAAAGGTAAGCCTTTGTGGTGAACCTATTAAAGGACAA
1 CCTTTG-TGCAAAAATCTGGAAAGGTAAGCCTTTGTGGCAAACCTATTAAAGGAAAA
* * *
56557537 CCTTTGTGACAAAAATCTGGAAAGGTAAGCCTTTATGGCAAACCTCTTAAA-GAACA
1 CCTTTGTG-CAAAAATCTGGAAAGGTAAGCCTTTGTGGCAAACCTATTAAAGGAAAA
* * * * ** *
56557593 CCTTTGTGGC--AAATCTTTGAAAGGAAATGCCTTTGTGGCGATCTCTATCCAAGGAAAG
1 CCTTTGT-GCAAAAATC-TGGAAAGGTAA-GCCTTTGTGGCAAAC-CTATTAAAGGAAAA
* * * *
56557651 CCTCTGTGGC-AAACTCTAGAAAGGAAAGCCTTTGTGG
1 CCTTTGT-GCAAAAATCTGGAAAGGTAAGCCTTTGTGG
56557688 AAATCTCTGT
Statistics
Matches: 171, Mismatches: 29, Indels: 16
0.79 0.13 0.07
Matches are distributed among these distances:
54 5 0.03
55 9 0.05
56 24 0.14
57 105 0.61
58 24 0.14
59 4 0.02
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (56 bp):
CCTTTGTGCAAAAATCTGGAAAGGTAAGCCTTTGTGGCAAACCTATTAAAGGAAAA
Found at i:56557562 original size:114 final size:113
Alignment explanation
Indices: 56557422--56557687 Score: 306
Period size: 114 Copynumber: 2.3 Consensus size: 113
56557412 GTTTAAGGAT
*
56557422 GCCTTTGTGCAAAAAATTTGGAAAGGTAAGCCTTTGTGGCAAACCTATTAAAGGAAAACCTTTGA
1 GCCTTTGTGC-AAAAATCTGGAAAGGTAAGCCTTTGTGGCAAACCTATTAAA-GAAAACCTTTGA
* * *
56557487 GGCAAAACTCTAGAAAGGTAA-GCCTTTGTGGTGAAC-CTATTAAAGGACAA
64 GGCAAAACT-TAGAAAGGAAATGCCTTTGTGGCGAACTCTATCAAAGGA-AA
* * * *
56557537 -CCTTTGTGACAAAAATCTGGAAAGGTAAGCCTTTATGGCAAACCTCTTAAAGAACACCTTTGTG
1 GCCTTTGTG-CAAAAATCTGGAAAGGTAAGCCTTTGTGGCAAACCTATTAAAGAAAACCTTTGAG
* * * *
56557601 GCAAATCTTTGAAAGGAAATGCCTTTGTGGCGATCTCTATCCAAGGAAA
65 GCAAAACTTAGAAAGGAAATGCCTTTGTGGCGAACTCTATCAAAGGAAA
* * * *
56557650 GCCTCTGTGGC-AAACTCTAGAAAGGAAAGCCTTTGTGG
1 GCCTTTGT-GCAAAAATCTGGAAAGGTAAGCCTTTGTGG
56557688 AAATCTCTGT
Statistics
Matches: 129, Mismatches: 17, Indels: 12
0.82 0.11 0.08
Matches are distributed among these distances:
112 9 0.07
113 56 0.43
114 62 0.48
115 2 0.02
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (113 bp):
GCCTTTGTGCAAAAATCTGGAAAGGTAAGCCTTTGTGGCAAACCTATTAAAGAAAACCTTTGAGG
CAAAACTTAGAAAGGAAATGCCTTTGTGGCGAACTCTATCAAAGGAAA
Found at i:56557695 original size:28 final size:28
Alignment explanation
Indices: 56557442--56557695 Score: 173
Period size: 29 Copynumber: 9.0 Consensus size: 28
56557432 AAAAAATTTG
*
56557442 GAAAGGTAAGCCTTTGTGGCAAAC-CTA
1 GAAAGGAAAGCCTTTGTGGCAAACTCTA
* * *
56557469 TTAAAGGAAAACCTTTGAGGCAAAACTCTA
1 -GAAAGGAAAGCCTTTGTGGC-AAACTCTA
* **
56557499 GAAAGGTAAGCCTTTGTGGTGAAC-CTA
1 GAAAGGAAAGCCTTTGTGGCAAACTCTA
* * * *
56557526 TTAAAGGACAA-CCTTTGTGACAAAAATCTG
1 -GAAAGGA-AAGCCTTTGTGGC-AAACTCTA
* *
56557556 GAAAGGTAAGCCTTTATGGCAAACCTCT-
1 GAAAGGAAAGCCTTTGTGGCAAA-CTCTA
* *
56557584 TAAA-GAACA-CCTTTGTGGCAAA-TCTTT
1 GAAAGGAA-AGCCTTTGTGGCAAACTC-TA
* *
56557611 GAAAGGAAATGCCTTTGTGGCGATCTCTA
1 GAAAGGAAA-GCCTTTGTGGCAAACTCTA
** *
56557640 TCCAAGGAAAGCCTCTGTGGCAAACTCTA
1 -GAAAGGAAAGCCTTTGTGGCAAACTCTA
56557669 GAAAGGAAAGCCTTTGTGG-AAATCTCT
1 GAAAGGAAAGCCTTTGTGGCAAA-CTCT
56557696 GTAAAAGAAG
Statistics
Matches: 172, Mismatches: 37, Indels: 34
0.71 0.15 0.14
Matches are distributed among these distances:
25 2 0.01
26 1 0.01
27 24 0.14
28 64 0.37
29 67 0.39
30 14 0.08
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.26
Consensus pattern (28 bp):
GAAAGGAAAGCCTTTGTGGCAAACTCTA
Found at i:56562030 original size:139 final size:139
Alignment explanation
Indices: 56561841--56562123 Score: 532
Period size: 139 Copynumber: 2.0 Consensus size: 139
56561831 GTAATCAACT
56561841 TCAG-ACTTAGGGTTTTTCTGAGAAAATTAATTATTACCTAGACAGTATTACCTCTCAACATCTA
1 TCAGTACTTAGGGTTTTTCTGAGAAAATTAATTATTACCTAGACAGTATTACCTCTCAACATCTA
56561905 CTGCCTAACTAATCAACCAGTACACGCTTACCTCTAGGCCTCACTTTCCTGACTGGGATAAATAC
66 CTGCCTAACTAATCAACCAGTACACGCTTACCTCTAGGCCTCACTTTCCTGACTGGGATAAATAC
56561970 ACGATTTAC
131 ACGATTTAC
* **
56561979 TCAGTACTTAGGGTTTTTCTGAGAAAATTATTTATTACCTAGACAGTATTACCTCTCGGCATCTA
1 TCAGTACTTAGGGTTTTTCTGAGAAAATTAATTATTACCTAGACAGTATTACCTCTCAACATCTA
56562044 CTGCCTAACTAATCAACCAGTACACGCTTACCTCTAGGCCTCACTTTCCTGACTGGGATAAATAC
66 CTGCCTAACTAATCAACCAGTACACGCTTACCTCTAGGCCTCACTTTCCTGACTGGGATAAATAC
56562109 ACGATTTAC
131 ACGATTTAC
56562118 TCAGTA
1 TCAGTA
56562124 TCCTTGTATC
Statistics
Matches: 141, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
138 4 0.03
139 137 0.97
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (139 bp):
TCAGTACTTAGGGTTTTTCTGAGAAAATTAATTATTACCTAGACAGTATTACCTCTCAACATCTA
CTGCCTAACTAATCAACCAGTACACGCTTACCTCTAGGCCTCACTTTCCTGACTGGGATAAATAC
ACGATTTAC
Found at i:56566004 original size:14 final size:14
Alignment explanation
Indices: 56565987--56566021 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
56565977 CAAGAAAATT
56565987 AATTTTAAATAAAA
1 AATTTTAAATAAAA
**
56566001 AATTAAAAATAAAA
1 AATTTTAAATAAAA
56566015 AATTTTA
1 AATTTTA
56566022 TGCATTTTTC
Statistics
Matches: 17, Mismatches: 4, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTTTAAATAAAA
Found at i:56570547 original size:4 final size:4
Alignment explanation
Indices: 56570538--56570599 Score: 124
Period size: 4 Copynumber: 15.5 Consensus size: 4
56570528 CATCTATATC
56570538 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
56570586 TACA TACA TACA TA
1 TACA TACA TACA TA
56570600 TATTACTGTA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 58 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
TACA
Done.