Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 46 of 328
Found at i:13327547 original size:12 final size:12
Alignment explanation
Indices: 13327530--13327563 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
13327520 TGACCCACCC
13327530 ATATTAATTTTT
1 ATATTAATTTTT
*
13327542 ATATTATTTTTT
1 ATATTAATTTTT
13327554 ATA-TAATTTT
1 ATATTAATTTT
13327564 AAAATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:13327803 original size:22 final size:22
Alignment explanation
Indices: 13327778--13327820 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
13327768 TATCCAAACA
13327778 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
* **
13327800 ATAATAGTAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
13327821 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:13327824 original size:11 final size:11
Alignment explanation
Indices: 13327785--13327825 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
13327775 ACAATAACAA
13327785 CAAAATAGTAG
1 CAAAATAGTAG
* *
13327796 CAACATAATAG
1 CAAAATAGTAG
*
13327807 TAAAATAGTAG
1 CAAAATAGTAG
13327818 CAAAATAG
1 CAAAATAG
13327826 GGAGAAAATA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.20
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:13335090 original size:26 final size:26
Alignment explanation
Indices: 13335054--13335106 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
13335044 AACCCAACAG
13335054 CTTGGTCTTTCCCTAACAATCCTATT
1 CTTGGTCTTTCCCTAACAATCCTATT
* *
13335080 CTTGGTTTTTCCCTAACCATCCTATT
1 CTTGGTCTTTCCCTAACAATCCTATT
13335106 C
1 C
13335107 CTACCATTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.17, C:0.32, G:0.08, T:0.43
Consensus pattern (26 bp):
CTTGGTCTTTCCCTAACAATCCTATT
Found at i:13344033 original size:3 final size:3
Alignment explanation
Indices: 13344025--13344049 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
13344015 ACGATGAATT
13344025 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
13344050 TGGCTCAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:13346299 original size:19 final size:20
Alignment explanation
Indices: 13346265--13346302 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
13346255 TCTAGGTGGA
13346265 TTCTTTCTTGGGTATTGTCT
1 TTCTTTCTTGGGTATTGTCT
*
13346285 TTCTTT-TTGGTTATTGTC
1 TTCTTTCTTGGGTATTGTC
13346303 GCGACGTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.05, C:0.13, G:0.18, T:0.63
Consensus pattern (20 bp):
TTCTTTCTTGGGTATTGTCT
Found at i:13347456 original size:33 final size:30
Alignment explanation
Indices: 13347396--13347465 Score: 86
Period size: 33 Copynumber: 2.2 Consensus size: 30
13347386 AAGAAAATAT
*
13347396 ATATATATATATATAAATAATAGTATTAGAA
1 ATATATATATATATAAATAATAATATTA-AA
* *
13347427 ATCATATAGTATATATAACTGATAATATTAAA
1 AT-ATATA-TATATATAAATAATAATATTAAA
13347459 ATATATA
1 ATATATA
13347466 CATAATATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
31 7 0.21
32 9 0.26
33 18 0.53
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.39
Consensus pattern (30 bp):
ATATATATATATATAAATAATAATATTAAA
Found at i:13347688 original size:3 final size:3
Alignment explanation
Indices: 13347680--13347749 Score: 131
Period size: 3 Copynumber: 23.0 Consensus size: 3
13347670 ACAAGGATAT
13347680 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
13347728 ATA ATA ATA ATAA ATA ATA ATA
1 ATA ATA ATA AT-A ATA ATA ATA
13347750 TTGAAACACA
Statistics
Matches: 66, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 63 0.95
4 3 0.05
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:13348364 original size:11 final size:11
Alignment explanation
Indices: 13348348--13348382 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
13348338 AGAAAAAAAA
13348348 GAAGAGAGAGG
1 GAAGAGAGAGG
13348359 GAAGAGAGAGG
1 GAAGAGAGAGG
13348370 G-AGAGAGAAGG
1 GAAGAGAG-AGG
13348381 GA
1 GA
13348383 GGGGAATCCG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 6 0.27
11 16 0.73
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (11 bp):
GAAGAGAGAGG
Found at i:13348920 original size:35 final size:35
Alignment explanation
Indices: 13348880--13348950 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
13348870 GGAGTGTGTG
*
13348880 ATGGTGTTGGTGGCAGACAGCATGGGAGAATGGGA
1 ATGGTGCTGGTGGCAGACAGCATGGGAGAATGGGA
*
13348915 ATGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
1 ATGGTGCTGGTGGCAGACAGCATGGGAGAATGGGA
13348950 A
1 A
13348951 GAGGCAAGTG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.25, C:0.10, G:0.46, T:0.18
Consensus pattern (35 bp):
ATGGTGCTGGTGGCAGACAGCATGGGAGAATGGGA
Found at i:13349324 original size:44 final size:44
Alignment explanation
Indices: 13349261--13349359 Score: 101
Period size: 44 Copynumber: 2.2 Consensus size: 44
13349251 TGCATCTTCT
* * *
13349261 GATATATGCTTTGTGGCTTCAATCCACTTTAATGTAACTTCA-A
1 GATATAAGATTTGTAGCTTCAATCCACTTTAATGTAACTTCAGA
* ** * *
13349304 GGATATAAGATTTGTAGCTTCGATCTGCTTTACTGTGACTTCAGA
1 -GATATAAGATTTGTAGCTTCAATCCACTTTAATGTAACTTCAGA
*
13349349 AATATAAGATT
1 GATATAAGATT
13349360 AACAGCTTCA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
44 44 0.98
45 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.38
Consensus pattern (44 bp):
GATATAAGATTTGTAGCTTCAATCCACTTTAATGTAACTTCAGA
Found at i:13349889 original size:72 final size:72
Alignment explanation
Indices: 13349752--13350023 Score: 456
Period size: 72 Copynumber: 3.8 Consensus size: 72
13349742 CATGTGAACC
* * *
13349752 GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-ATTTTGAAAACAGAAATTGAAATTACCTCAA
13349817 CGTGTCTT
65 CGTGTCTT
**
13349825 GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAAC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAAC
13349890 GTGTCTT
66 GTGTCTT
*
13349897 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAAC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAAC
13349962 GTGTCTT
66 GTGTCTT
*
13349969 GAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTGACGAACAGAAATTGAAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGA-AAACAGAAATTGAAA
13350024 AACAGAAATT
Statistics
Matches: 188, Mismatches: 10, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
71 6 0.03
72 152 0.81
73 30 0.16
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (72 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAAC
GTGTCTT
Found at i:13350027 original size:14 final size:14
Alignment explanation
Indices: 13350010--13350038 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
13350000 GATTTTGACG
13350010 AACAGAAATTGAAA
1 AACAGAAATTGAAA
13350024 AACAGAAATTGAAA
1 AACAGAAATTGAAA
13350038 A
1 A
13350039 TACCTCAGCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
AACAGAAATTGAAA
Found at i:13350189 original size:14 final size:14
Alignment explanation
Indices: 13350172--13350200 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
13350162 GATTTTGACG
13350172 AACAGAAATTGAAA
1 AACAGAAATTGAAA
13350186 AACAGAAATTGAAA
1 AACAGAAATTGAAA
13350200 A
1 A
13350201 TACCTCAGCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
AACAGAAATTGAAA
Found at i:13350570 original size:72 final size:73
Alignment explanation
Indices: 13350184--13350806 Score: 606
Period size: 72 Copynumber: 8.2 Consensus size: 73
13350174 CAGAAATTGA
* * * *
13350184 AAAACAGAAATTGAAAATACCTCAGCGCGTGAGC-TGAGACTCAACTCACCTCTCGCAATATGAG
1 AAAACAGAAATTGAAATTACCTCA--ACGTG-TCTTGAGGCTCAACTCACCTCTCGCAATATGAG
*
13350248 TTAATTTTTTTG
63 TTGA-TTTTTTG
* * *
13350260 ATGAACAGAAATTAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 A-AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
13350325 GATTTTTTTTG
65 GA--TTTTTTG
* * * *
13350336 AAAGACAGAAATTGAGAA-TACCTCAGCATGTGAAC-CGAGGCTCAACTCACCTCTCGCAATATA
1 AAA-ACAGAAATTGA-AATTACCTCA--ACGTG-TCTTGAGGCTCAACTCACCTCTCGCAATATG
13350399 AGTTGATTTTTTTG
61 AGTTGA-TTTTTTG
* *
13350413 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCA-TTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
13350477 A-ATTTTG
66 ATTTTTTG
13350484 AAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
13350549 A-TTTTTG
66 ATTTTTTG
13350556 AAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
13350621 A--TTTTG
66 ATTTTTTG
* * * * * *
13350627 ACGAACAGAAATTGAAA-AACAGAAATTGAAAATACCTCAG-CGTGTGA-GCTGAGACTCAACTC
1 A-AAACAGAAATTGAAATTAC-----CT---CA-ACGT--GTC-T-TGAGGCTCA-ACT-----C
13350689 ACCTCTCGCAATATGAGTTGATTTTTTTG
46 ACCTCTCGCAATATGAGTTGA-TTTTTTG
* * *
13350718 ATGAACAGAAATTAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 A-AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
13350783 GA--TTTTG
65 GATTTTTTG
*
13350790 ACGAACAGAAATTGAAA
1 A-AAACAGAAATTGAAA
13350807 AACAGAAATT
Statistics
Matches: 472, Mismatches: 38, Indels: 78
0.80 0.06 0.13
Matches are distributed among these distances:
71 58 0.12
72 123 0.26
73 18 0.04
74 18 0.04
75 61 0.13
76 46 0.10
77 33 0.07
78 36 0.08
79 2 0.00
80 9 0.02
81 6 0.01
82 7 0.01
83 9 0.02
84 1 0.00
87 1 0.00
88 22 0.05
91 20 0.04
92 2 0.00
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (73 bp):
AAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTTG
Found at i:13350647 original size:14 final size:14
Alignment explanation
Indices: 13350630--13350658 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
13350620 GATTTTGACG
13350630 AACAGAAATTGAAA
1 AACAGAAATTGAAA
13350644 AACAGAAATTGAAA
1 AACAGAAATTGAAA
13350658 A
1 A
13350659 TACCTCAGCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
AACAGAAATTGAAA
Found at i:13350749 original size:163 final size:163
Alignment explanation
Indices: 13350484--13351033 Score: 853
Period size: 163 Copynumber: 3.5 Consensus size: 163
13350474 TTGAATTTTG
* * * *
13350484 AAAACAGAAATTGAAATTACCTCA--ACGTG-TCTTGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAACAGAAATTGAAAATACCTCAGCGCGTGAGC-TGAGACTCAACTCACCTCTCGCAATATGAG
* * *
13350546 TTGA--TTTTTGA-AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTC
65 TTGATTTTTTTGATGAACAGAAATTAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTC
13350608 GCAATATGAGTTGATTTTGACGAACAGAAATTGA
130 GCAATATGAGTTGATTTTGACGAACAGAAATTGA
*
13350642 AAAACAGAAATTGAAAATACCTCAGCGTGTGAGCTGAGACTCAACTCACCTCTCGCAATATGAGT
1 AAAACAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGACTCAACTCACCTCTCGCAATATGAGT
13350707 TGATTTTTTTGATGAACAGAAATTAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCG
66 TGATTTTTTTGATGAACAGAAATTAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCG
13350772 CAATATGAGTTGATTTTGACGAACAGAAATTGA
131 CAATATGAGTTGATTTTGACGAACAGAAATTGA
*
13350805 AAAACAGAAATTGGAAATACCTCAGCGCGTGAGCTGAGACTCAACTCACCTCTCGCAATATGAGT
1 AAAACAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGACTCAACTCACCTCTCGCAATATGAGT
13350870 TGATTTTTTTGATGAACAGAAATTAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCG
66 TGATTTTTTTGATGAACAGAAATTAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCG
**
13350935 CAATATGAGTTGATTTT----------TTTTGA
131 CAATATGAGTTGATTTTGACGAACAGAAATTGA
** *
13350958 TGAACAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAACAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGACTCAACTCACCTCTCGCAATATGAGT
13351023 TGATTTTTTTG
66 TGATTTTTTTG
13351034 GTAGAATTTG
Statistics
Matches: 370, Mismatches: 16, Indels: 17
0.92 0.04 0.04
Matches are distributed among these distances:
153 76 0.21
158 23 0.06
160 36 0.10
161 1 0.00
162 7 0.02
163 227 0.61
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.29
Consensus pattern (163 bp):
AAAACAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGACTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTTGATGAACAGAAATTAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCG
CAATATGAGTTGATTTTGACGAACAGAAATTGA
Found at i:13350954 original size:620 final size:621
Alignment explanation
Indices: 13349669--13351033 Score: 2565
Period size: 621 Copynumber: 2.2 Consensus size: 621
13349659 AGTGTGTGAT
* *
13349669 CTGAAGCTCAATTCACCTCTCGCAATATGAGTTGATTTTTTTTTTTGAAAGACAGAAATTGAGAA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTTTTGAAAGACAGAAATTGAGAA
13349734 TACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGA-TTTTTTGAAAACA
63 TACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAACA
13349798 GAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTT
128 GAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTT
13349863 GAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
193 GAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
13349928 GATTTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAAT
258 GATTTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAAT
13349993 ATGAGTTGATTTTGACGAACAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGTGAGCTG
323 ATGAGTTGATTTTGACGAACAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGTGAGCTG
13350058 AGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTATGAACAGAAATTAAAATTACCTCAA
388 AGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTATGAACAGAAATTAAAATTACCTCAA
13350123 CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACGAACAGAAATTGAAAAA
453 CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACGAACAGAAATTGAAAAA
13350188 CAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGACTCAACTCACCTCTCGCAATATGAGTTAAT
518 CAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGACTCAACTCACCTCTCGCAATATGAGTTAAT
13350253 TTTTTTGATGAACAGAAATTAAAATTACCTCAACGTGTC
583 TTTTTTGATGAACAGAAATTAAAATTACCTCAACGTGTC
13350292 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACAGAAATTGAGAATAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACAGAAATTGAGAATAC
13350357 CTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAA
66 CTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAA
13350422 ATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCA-TTCTCGCAATATGAGTTGAATTTTGAA
131 ATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAA
13350486 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
196 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
13350551 TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
261 TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
13350616 AGTTGATTTTGACGAACAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGTGAGCTGAGA
326 AGTTGATTTTGACGAACAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGTGAGCTGAGA
13350681 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATGAACAGAAATTAAAATTACCTCAACG
391 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT-ATGAACAGAAATTAAAATTACCTCAACG
13350746 TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACGAACAGAAATTGAAAAACA
455 TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACGAACAGAAATTGAAAAACA
* *
13350811 GAAATTGGAAATACCTCAGCGCGTGAGCTGAGACTCAACTCACCTCTCGCAATATGAGTTGATTT
520 GAAATTGAAAATACCTCAGCGCGTGAGCTGAGACTCAACTCACCTCTCGCAATATGAGTTAATTT
13350876 TTTTGATGAACAGAAATTAAAATTACCTCAACGTGTC
585 TTTTGATGAACAGAAATTAAAATTACCTCAACGTGTC
* *
13350913 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTG-ATGAACAGAAATTGAAAATA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAG-ACAGAAATTGAGAATA
** * * *
13350977 CCTCAGCGCGTGAGCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
65 CCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTG
13351034 GTAGAATTTG
Statistics
Matches: 728, Mismatches: 11, Indels: 8
0.97 0.01 0.01
Matches are distributed among these distances:
620 338 0.46
621 357 0.49
623 33 0.05
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.29
Consensus pattern (621 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACAGAAATTGAGAATAC
CTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAA
ATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAA
AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTTGACGAACAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGTGAGCTGAGA
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTATGAACAGAAATTAAAATTACCTCAACGT
GTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACGAACAGAAATTGAAAAACAG
AAATTGAAAATACCTCAGCGCGTGAGCTGAGACTCAACTCACCTCTCGCAATATGAGTTAATTTT
TTTGATGAACAGAAATTAAAATTACCTCAACGTGTC
Found at i:13366513 original size:47 final size:48
Alignment explanation
Indices: 13366391--13366569 Score: 203
Period size: 47 Copynumber: 3.8 Consensus size: 48
13366381 TGTAACCCGC
* * * *
13366391 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCATTCACAT
*
13366437 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATG-C-A-TTCACAT
*
13366487 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA--CATTCCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCATT-CACAT
*
13366531 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATG
13366570 TCAACCATCC
Statistics
Matches: 114, Mismatches: 7, Indels: 21
0.80 0.05 0.15
Matches are distributed among these distances:
42 2 0.02
43 1 0.01
44 5 0.04
45 1 0.01
46 37 0.32
47 58 0.51
48 3 0.03
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (48 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCATTCACAT
Found at i:13366559 original size:94 final size:93
Alignment explanation
Indices: 13366399--13366569 Score: 297
Period size: 94 Copynumber: 1.8 Consensus size: 93
13366389 GCCCATAAGT
* * *
13366399 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
13366464 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
13366492 GAACTCGGACTCAACTCAACGAGTTCGGACATTCCACATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATT-CACATCCATAAGTGAACTCGGACTCAACTCA
13366557 ACGAGTTCGGATG
65 ACGAGTTCGGATG
13366570 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
93 30 0.41
94 43 0.59
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:13367022 original size:30 final size:30
Alignment explanation
Indices: 13366988--13367047 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
13366978 CCTTAATACG
13366988 AACTTTGGCAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGCAAAATTACAC-TTTTGCCCCTA
* *
13367018 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
13367048 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.27, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:13374070 original size:47 final size:48
Alignment explanation
Indices: 13373948--13374126 Score: 203
Period size: 47 Copynumber: 3.8 Consensus size: 48
13373938 TGTAACCCGC
* * * *
13373948 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCATTCACAT
*
13373994 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATG-C-A-TTCACAT
*
13374044 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA--CATTCCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCATT-CACAT
*
13374088 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATG
13374127 TTCAACCATC
Statistics
Matches: 114, Mismatches: 7, Indels: 21
0.80 0.05 0.15
Matches are distributed among these distances:
42 2 0.02
43 1 0.01
44 5 0.04
45 1 0.01
46 37 0.32
47 58 0.51
48 3 0.03
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (48 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCATTCACAT
Found at i:13374116 original size:94 final size:93
Alignment explanation
Indices: 13373956--13374126 Score: 297
Period size: 94 Copynumber: 1.8 Consensus size: 93
13373946 GCCCATAAGT
* * *
13373956 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
13374021 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
13374049 GAACTCGGACTCAACTCAACGAGTTCGGACATTCCACATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATT-CACATCCATAAGTGAACTCGGACTCAACTCA
13374114 ACGAGTTCGGATG
65 ACGAGTTCGGATG
13374127 TTCAACCATC
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
93 30 0.41
94 43 0.59
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:13374580 original size:30 final size:30
Alignment explanation
Indices: 13374546--13374605 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
13374536 CCTTAATACG
13374546 AACTTTGGCAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGCAAAATTACAC-TTTTGCCCCTA
* *
13374576 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
13374606 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.27, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:13376960 original size:28 final size:28
Alignment explanation
Indices: 13376928--13377026 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
13376918 GCAATAAGCC
*
13376928 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
13376956 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
13376984 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
13377013 CGCACACTTAGTGC
1 CGCACACTTAGTGC
13377027 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:13379311 original size:289 final size:290
Alignment explanation
Indices: 13378791--13379361 Score: 1009
Period size: 289 Copynumber: 2.0 Consensus size: 290
13378781 AGTACACACC
13378791 TGGTTTCGATTGAAGCCTAACACAATCCCGAGCACTTTAAGACATATAATCAATATATCCAACCT
1 TGGTTTCGATTGAAGCCTAACACAATCCCGAGCACTTTAAGACATATAATCAATATATCCAACCT
** * *
13378856 ATTAGAACCTCATAAATGAGTCTTTTCACTTAACCTCAAACGAAATATCCACTTAACGAACAATC
66 ATTAGAACCTCATAAACAAGTCTTTTCACTTAACCCCAAACGAAATATCCACTCAACGAACAATC
* *
13378921 AACTTACCCTTGAATGGAAAGTAGCAAACCCGAATCATTAAAGCGTTAATGGCTGTTCTTTAGCC
131 AACTTACCCTTGAATGGAAAGTAGCAAACCCGAATCATTAAAGCATTAATGGCTGTTCTTCAGCC
13378986 CCTTGATCCACTCCTATCAAACAGCAGAAACCTCTTACTAGACACTTAACTCGAACAATATTCAA
196 CCTTGATCCACTCCTATCAAACAGCAGAAACCTCTTACTAGACACTTAACTCGAACAATATTCAA
13379051 GTCAAGCGAAACGAAAAACTTATACACATT
261 GTCAAGCGAAACGAAAAACTTATACACATT
* * *
13379081 TGGTTTCGATTGAAGCCTAACGCAATCCCGAGCACTTTAAGACCTATAATCAGTATATCCAACCT
1 TGGTTTCGATTGAAGCCTAACACAATCCCGAGCACTTTAAGACATATAATCAATATATCCAACCT
* **
13379146 ATTAGAACCTCATAAACAAGTCTTTTCACTTAACCCCAAGC-AAATATCCACTCAACGAATGATC
66 ATTAGAACCTCATAAACAAGTCTTTTCACTTAACCCCAAACGAAATATCCACTCAACGAACAATC
13379210 AACTTACCCTTGAATGGAAAGTAGCAAACCCGAATCATTAAAGCATTAATGGCTGTTCTTCAGCC
131 AACTTACCCTTGAATGGAAAGTAGCAAACCCGAATCATTAAAGCATTAATGGCTGTTCTTCAGCC
*
13379275 CCTTGATCCACTCCTATCAAATAGCAGAAACCTCTTACTAGACACTTAACTCGAACAATATTCAA
196 CCTTGATCCACTCCTATCAAACAGCAGAAACCTCTTACTAGACACTTAACTCGAACAATATTCAA
*
13379340 GTCGAGCGAAACGAAAAACTTA
261 GTCAAGCGAAACGAAAAACTTA
13379362 CCAATGAGGA
Statistics
Matches: 267, Mismatches: 14, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
289 168 0.63
290 99 0.37
ACGTcount: A:0.37, C:0.25, G:0.12, T:0.26
Consensus pattern (290 bp):
TGGTTTCGATTGAAGCCTAACACAATCCCGAGCACTTTAAGACATATAATCAATATATCCAACCT
ATTAGAACCTCATAAACAAGTCTTTTCACTTAACCCCAAACGAAATATCCACTCAACGAACAATC
AACTTACCCTTGAATGGAAAGTAGCAAACCCGAATCATTAAAGCATTAATGGCTGTTCTTCAGCC
CCTTGATCCACTCCTATCAAACAGCAGAAACCTCTTACTAGACACTTAACTCGAACAATATTCAA
GTCAAGCGAAACGAAAAACTTATACACATT
Found at i:13402292 original size:12 final size:12
Alignment explanation
Indices: 13402275--13402302 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
13402265 AGACATGCCT
13402275 GTGTTCTAGGCC
1 GTGTTCTAGGCC
13402287 GTGTTCTAGGCC
1 GTGTTCTAGGCC
13402299 GTGT
1 GTGT
13402303 GCAAAAACCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.21, G:0.36, T:0.36
Consensus pattern (12 bp):
GTGTTCTAGGCC
Found at i:13404009 original size:17 final size:18
Alignment explanation
Indices: 13403987--13404021 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
13403977 GACCTAATTG
13403987 TAAAAGTCACAA-AAATA
1 TAAAAGTCACAATAAATA
*
13404004 TAAAAGTTACAATAAATA
1 TAAAAGTCACAATAAATA
13404022 ATCAAGAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.63, C:0.09, G:0.06, T:0.23
Consensus pattern (18 bp):
TAAAAGTCACAATAAATA
Found at i:13411022 original size:17 final size:17
Alignment explanation
Indices: 13411000--13411037 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
13410990 AACATGCCTA
13411000 TGTTAATAAAATCTGG-T
1 TGTTAATAAAAT-TGGAT
13411017 TGTTAATAAAATTGGAT
1 TGTTAATAAAATTGGAT
13411034 TGTT
1 TGTT
13411038 TTCCTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.34, C:0.03, G:0.18, T:0.45
Consensus pattern (17 bp):
TGTTAATAAAATTGGAT
Found at i:13415463 original size:62 final size:62
Alignment explanation
Indices: 13415376--13415574 Score: 236
Period size: 62 Copynumber: 3.2 Consensus size: 62
13415366 TTTAAGTATC
* * ** *
13415376 AACAGTAAGTCACACGGCCTGGGCACACGCCTGTGTCCCTGGCCGTGTGGTTTTATACTATG
1 AACAGTGAGTTACACGGCCTGGGCACACGCCTGTGTCCCTGGCTATGTGGTTTTATACCATG
* * * * * *
13415438 AACAATGAGTTACACGACCTAGGCACACGCCCGTGTCCCTGACTATGTAGTTTTATACCATG
1 AACAGTGAGTTACACGGCCTGGGCACACGCCTGTGTCCCTGGCTATGTGGTTTTATACCATG
* * * * * * *
13415500 AACAGTAAGTTGCATGGCTTGGGCAGAAGCCTGTGTTCCTGGCTATGTGGTTTTATACCATG
1 AACAGTGAGTTACACGGCCTGGGCACACGCCTGTGTCCCTGGCTATGTGGTTTTATACCATG
13415562 AACAGTGAGTTAC
1 AACAGTGAGTTAC
13415575 CATGAACAGT
Statistics
Matches: 111, Mismatches: 26, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
62 111 1.00
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.28
Consensus pattern (62 bp):
AACAGTGAGTTACACGGCCTGGGCACACGCCTGTGTCCCTGGCTATGTGGTTTTATACCATG
Found at i:13415577 original size:17 final size:17
Alignment explanation
Indices: 13415555--13415591 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
13415545 TGTGGTTTTA
*
13415555 TACCATGAACAGTGAGT
1 TACCATGAACAGTGACT
13415572 TACCATGAACAGTGACT
1 TACCATGAACAGTGACT
13415589 TAC
1 TAC
13415592 ACAGCCATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (17 bp):
TACCATGAACAGTGACT
Found at i:13417255 original size:32 final size:32
Alignment explanation
Indices: 13417219--13417284 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
13417209 CATAATTAAG
13417219 AACAAGTTTAAATATTTATCATACGATTCAGA
1 AACAAGTTTAAATATTTATCATACGATTCAGA
13417251 AACAAGTTTAAATATTTATCATACGATTCAGA
1 AACAAGTTTAAATATTTATCATACGATTCAGA
13417283 AA
1 AA
13417285 ATAATAACAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.33
Consensus pattern (32 bp):
AACAAGTTTAAATATTTATCATACGATTCAGA
Found at i:13418611 original size:30 final size:30
Alignment explanation
Indices: 13418575--13418634 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
13418565 AGAAAAGTTG
13418575 AATTTTGCAGAAAAAGAAGAAGTTGAAACC
1 AATTTTGCAGAAAAAGAAGAAGTTGAAACC
13418605 AATTTTGCAGAAAAAGAAGAAGTTGAAACC
1 AATTTTGCAGAAAAAGAAGAAGTTGAAACC
13418635 TTGTTTATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.50, C:0.10, G:0.20, T:0.20
Consensus pattern (30 bp):
AATTTTGCAGAAAAAGAAGAAGTTGAAACC
Found at i:13420417 original size:34 final size:34
Alignment explanation
Indices: 13420373--13420441 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
13420363 AAGTTGAAGG
13420373 AAAATAGAGAAGTTGACAAATATAAGGCGCGCTT
1 AAAATAGAGAAGTTGACAAATATAAGGCGCGCTT
* *
13420407 AAAATGGAGAAGTTGACAAGTATAAGGCGCGCTT
1 AAAATAGAGAAGTTGACAAATATAAGGCGCGCTT
13420441 A
1 A
13420442 GTGGCCAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.42, C:0.12, G:0.26, T:0.20
Consensus pattern (34 bp):
AAAATAGAGAAGTTGACAAATATAAGGCGCGCTT
Found at i:13420686 original size:19 final size:21
Alignment explanation
Indices: 13420655--13420702 Score: 66
Period size: 19 Copynumber: 2.4 Consensus size: 21
13420645 CATGGAAGTG
13420655 AAAATAAGGTTTATA-A-ACT
1 AAAATAAGGTTTATATAGACT
13420674 AAAA-AAGGCTTTATATAGACT
1 AAAATAAGG-TTTATATAGACT
13420695 AAAATAAG
1 AAAATAAG
13420703 CCCTACATGC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 4 0.16
19 10 0.40
20 1 0.04
21 7 0.28
22 3 0.12
ACGTcount: A:0.54, C:0.06, G:0.12, T:0.27
Consensus pattern (21 bp):
AAAATAAGGTTTATATAGACT
Found at i:13421829 original size:17 final size:18
Alignment explanation
Indices: 13421789--13421830 Score: 70
Period size: 17 Copynumber: 2.4 Consensus size: 18
13421779 TTTAAAGGAG
13421789 GGATTGTTAATAAAATCT
1 GGATTGTTAATAAAATCT
13421807 GG-TTGTTAATAAAATC-
1 GGATTGTTAATAAAATCT
13421823 GGATTGTT
1 GGATTGTT
13421831 TTCTTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.09
17 19 0.83
18 2 0.09
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.40
Consensus pattern (18 bp):
GGATTGTTAATAAAATCT
Found at i:13423163 original size:16 final size:17
Alignment explanation
Indices: 13423144--13423177 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
13423134 TATTAATCAA
13423144 TATAAAT-TTTAAAATT
1 TATAAATGTTTAAAATT
*
13423160 TATAAATGTTTATAATT
1 TATAAATGTTTAAAATT
13423177 T
1 T
13423178 TTTAACATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
TATAAATGTTTAAAATT
Found at i:13430504 original size:3 final size:3
Alignment explanation
Indices: 13430496--13430528 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
13430486 ATAGAGCATC
13430496 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
13430529 TCCATTTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:13432277 original size:4 final size:4
Alignment explanation
Indices: 13432268--13432315 Score: 96
Period size: 4 Copynumber: 12.0 Consensus size: 4
13432258 TGTTTCTTTA
13432268 CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT
1 CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT
13432316 ATATATATAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 44 1.00
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (4 bp):
CTAT
Found at i:13433067 original size:35 final size:35
Alignment explanation
Indices: 13433028--13433099 Score: 90
Period size: 35 Copynumber: 2.1 Consensus size: 35
13433018 AAAATGCCAC
* * * * *
13433028 ATCATTATTTTTTAATGGAGTTAGCAAAAAATTAA
1 ATCATTATCTCTTAACGGAGTCAACAAAAAATTAA
*
13433063 ATCATTCTCTCTTAACGGAGTCAACAAAAAATTAA
1 ATCATTATCTCTTAACGGAGTCAACAAAAAATTAA
13433098 AT
1 AT
13433100 TATTTAATAG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (35 bp):
ATCATTATCTCTTAACGGAGTCAACAAAAAATTAA
Found at i:13435876 original size:3 final size:3
Alignment explanation
Indices: 13435868--13435908 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
13435858 TAGAAAAATA
* * *
13435868 AAT AAT AAT AAC AAT AAT AAT AAT GAG AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
13435909 CAAAATGTGC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:13435886 original size:15 final size:15
Alignment explanation
Indices: 13435868--13435911 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
13435858 TAGAAAAATA
13435868 AATAATAATAACAAT
1 AATAATAATAACAAT
* *
13435883 AATAATAATGAGAAT
1 AATAATAATAACAAT
13435898 AATAATAATAACAA
1 AATAATAATAACAA
13435912 AATGTGCAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.25
Consensus pattern (15 bp):
AATAATAATAACAAT
Found at i:13435994 original size:4 final size:4
Alignment explanation
Indices: 13435979--13436012 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
13435969 GGAATCAATG
* *
13435979 AATA ACTA AATA AATA AACA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AATA AA
13436013 AACTTTCATG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.21
Consensus pattern (4 bp):
AATA
Found at i:13438961 original size:15 final size:16
Alignment explanation
Indices: 13438934--13438964 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
13438924 TTTTAAATTA
13438934 TTTGGAAACTTTATAT
1 TTTGGAAACTTTATAT
13438950 TTTGGAAA-TTTATAT
1 TTTGGAAACTTTATAT
13438965 CTTTTTGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.32, C:0.03, G:0.13, T:0.52
Consensus pattern (16 bp):
TTTGGAAACTTTATAT
Found at i:13440111 original size:2 final size:2
Alignment explanation
Indices: 13440104--13440128 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13440094 AGGTAATTGT
13440104 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
13440129 GGTGTTAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13440446 original size:28 final size:27
Alignment explanation
Indices: 13440406--13440461 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 27
13440396 TAATAACAAT
*
13440406 AAGTTGTTCTATTAGGAATCAAAAAAAA
1 AAGTTGTTCTATTA-AAATCAAAAAAAA
*
13440434 AAGTTGTTCTATTAAAATTAAAAAAAA
1 AAGTTGTTCTATTAAAATCAAAAAAAA
13440461 A
1 A
13440462 CAATAAGTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 12 0.46
28 14 0.54
ACGTcount: A:0.54, C:0.05, G:0.11, T:0.30
Consensus pattern (27 bp):
AAGTTGTTCTATTAAAATCAAAAAAAA
Found at i:13443766 original size:44 final size:44
Alignment explanation
Indices: 13443718--13444100 Score: 275
Period size: 44 Copynumber: 8.3 Consensus size: 44
13443708 TTATAATTTT
* * *
13443718 AGGGAGATAAGACTTGTAGCTTTCATCTACTCCACTGCAACTTC
1 AGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCAACTTC
* * *
13443762 AGGGAGATGAGACTTGTAGCTTCAATCTGCTCCACTGCTCCACTCTAACTTC
1 AGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTG-------C-AACTTC
* * * * * *
13443814 GGGGAGATAATATTTGTAGCTTTAATCTGTTCTACTGCAATTTT
1 AGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCAACTTC
* * * * * * * *
13443858 AGAGAGATAAGATTTGCTATCTTCAGTGTACTCCACTACAACTTT
1 AGGGAGATAAGATTTG-TAGCTTTAATCTGCTCCACTGCAACTTC
* * * *
13443903 AGGGAGATAAGATTTGTAACTTCAA-CTTGCTCCACTGAAACTTT
1 AGGGAGATAAGATTTGTAGCTTTAATC-TGCTCCACTGCAACTTC
* * * *
13443947 AGGGAGATAAGGTTTGTCGCTCTAATCTGCTCCACTACAACTTC
1 AGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCAACTTC
* * *
13443991 AGGGAGATAAGGTTTGTAATTCATAGCCTTAATCTGTTCCACTGCAACTTC
1 AGGGAGATAAGATTTG-------TAGCTTTAATCTGCTCCACTGCAACTTC
* * *
13444042 AGGGAAATGAGATTCGCTATG-TTTAATCTGCTCCACTGCAACTTC
1 AGGGAGATAAGATTTG-TA-GCTTTAATCTGCTCCACTGCAACTTC
13444087 AGGGAGATAAGATT
1 AGGGAGATAAGATT
13444101 CACCACGATG
Statistics
Matches: 266, Mismatches: 54, Indels: 37
0.75 0.15 0.10
Matches are distributed among these distances:
44 121 0.45
45 72 0.27
46 1 0.00
51 36 0.14
52 36 0.14
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.32
Consensus pattern (44 bp):
AGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCAACTTC
Found at i:13443831 original size:52 final size:52
Alignment explanation
Indices: 13443747--13443851 Score: 131
Period size: 52 Copynumber: 2.0 Consensus size: 52
13443737 CTTTCATCTA
*
13443747 CTCCACTGCAACTTCAGGGAGATGAGACTTGTAGCTTCAATCTGCTCCACTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAGCTTCAATCTGCTCCACTG
* * * * * *
13443799 CTCCACT-CTAACTTCGGGGAGATAATATTTGTAGCTTTAATCTGTTCTACTG
1 CTCCACTGC-AACTTCAGGGAGATAAGACTTGTAGCTTCAATCTGCTCCACTG
13443851 C
1 C
13443852 AATTTTAGAG
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
51 1 0.02
52 44 0.98
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (52 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGTAGCTTCAATCTGCTCCACTG
Found at i:13443954 original size:89 final size:88
Alignment explanation
Indices: 13443799--13444013 Score: 213
Period size: 89 Copynumber: 2.4 Consensus size: 88
13443789 TGCTCCACTG
* * * * * * * *
13443799 CTCCACT-CTAACTTCGGGGAGATAATATTTGTAGCTTTAATCTGTTCTACTGCAATTTTAGAGA
1 CTCCACTAC-AACTTCAGGGAGATAAGATTTGTAACTTCAATCTGCTCCACTGAAACTTTAGAGA
* * *
13443863 GATAAGATTTGCTATCT-TCAGTGTA
65 GATAAGATTTG-TAGCTCT-AATCTA
* *
13443888 CTCCACTACAACTTTAGGGAGATAAGATTTGTAACTTCAA-CTTGCTCCACTGAAACTTTAGGGA
1 CTCCACTACAACTTCAGGGAGATAAGATTTGTAACTTCAATC-TGCTCCACTGAAACTTTAGAGA
* * *
13443952 GATAAGGTTTGTCGCTCTAATCTG
65 GATAAGATTTGTAGCTCTAATCTA
*
13443976 CTCCACTACAACTTCAGGGAGATAAGGTTTGTAA-TTCA
1 CTCCACTACAACTTCAGGGAGATAAGATTTGTAACTTCA
13444014 TAGCCTTAAT
Statistics
Matches: 105, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
87 4 0.04
88 39 0.37
89 61 0.58
90 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (88 bp):
CTCCACTACAACTTCAGGGAGATAAGATTTGTAACTTCAATCTGCTCCACTGAAACTTTAGAGAG
ATAAGATTTGTAGCTCTAATCTA
Found at i:13453580 original size:19 final size:20
Alignment explanation
Indices: 13453556--13453594 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
13453546 TTATAAAACT
*
13453556 TAATGCATATG-ATGAAATG
1 TAATGCAGATGAATGAAATG
13453575 TAATGCAGATGAATGAAATG
1 TAATGCAGATGAATGAAATG
13453595 GATACAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.44, C:0.05, G:0.23, T:0.28
Consensus pattern (20 bp):
TAATGCAGATGAATGAAATG
Found at i:13458387 original size:6 final size:6
Alignment explanation
Indices: 13458376--13458412 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
13458366 AGAAGTTGTG
13458376 ATAATT ATAATT AT-A-T ATAATT ATAATTT ATAATT AT
1 ATAATT ATAATT ATAATT ATAATT ATAA-TT ATAATT AT
13458413 TATTTTAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
4 3 0.11
5 2 0.07
6 17 0.61
7 6 0.21
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (6 bp):
ATAATT
Found at i:13458415 original size:16 final size:16
Alignment explanation
Indices: 13458376--13458407 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
13458366 AGAAGTTGTG
13458376 ATAATTATAATTATAT
1 ATAATTATAATTATAT
13458392 ATAATTATAATT-TAT
1 ATAATTATAATTATAT
13458407 A
1 A
13458408 ATTATTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATAATTATAATTATAT
Found at i:13462186 original size:19 final size:21
Alignment explanation
Indices: 13462155--13462193 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
13462145 AGGCCCATAC
13462155 CAAAACTAAAATAA-AAAATG
1 CAAAACTAAAATAACAAAATG
13462175 CAAAAC-AAAATAACAAAAT
1 CAAAACTAAAATAACAAAAT
13462194 AAAATCCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.72, C:0.13, G:0.03, T:0.13
Consensus pattern (21 bp):
CAAAACTAAAATAACAAAATG
Found at i:13463693 original size:27 final size:26
Alignment explanation
Indices: 13463649--13463714 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 26
13463639 TGATTTCGTG
*
13463649 TTATTT-TATATAAATTCTTTTAAAT
1 TTATTTATATATAAATTCTTTTAAAC
*
13463674 TTATTATATATATATATTCTTTTAAAC
1 TTATT-TATATATAAATTCTTTTAAAC
*
13463701 TTATTTATGTATAA
1 TTATTTATATATAA
13463715 TTTGTTTCCT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
25 5 0.14
26 8 0.23
27 22 0.63
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.58
Consensus pattern (26 bp):
TTATTTATATATAAATTCTTTTAAAC
Found at i:13465166 original size:16 final size:16
Alignment explanation
Indices: 13465145--13465188 Score: 88
Period size: 16 Copynumber: 2.8 Consensus size: 16
13465135 CATGACCGTT
13465145 GTGGTTACACCTTTAA
1 GTGGTTACACCTTTAA
13465161 GTGGTTACACCTTTAA
1 GTGGTTACACCTTTAA
13465177 GTGGTTACACCT
1 GTGGTTACACCT
13465189 CCGCATGGGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.36
Consensus pattern (16 bp):
GTGGTTACACCTTTAA
Found at i:13469323 original size:16 final size:16
Alignment explanation
Indices: 13469299--13469343 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 16
13469289 TCTTGAGGCC
13469299 TTAAAAAAAATTAAAAA
1 TTAAAAAAAA-TAAAAA
13469316 TTAAAAAAAATAAAAA
1 TTAAAAAAAATAAAAA
13469332 TTCAAATAAAAA
1 TT-AAA-AAAAA
13469344 ATCAATCAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.31
17 13 0.50
18 5 0.19
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (16 bp):
TTAAAAAAAATAAAAA
Found at i:13470540 original size:64 final size:64
Alignment explanation
Indices: 13470467--13470647 Score: 290
Period size: 64 Copynumber: 2.8 Consensus size: 64
13470457 TCATTCATAA
* *
13470467 CACATCTAGTTAGGAGCATTTGATTTATTTCGATCATAGCATCTTAATTATTTGACATAAACAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAACAT
* ** * *
13470531 CACATCTAGTTAGGAACATTTGATTCATTTCGATCATAGTGTCCTAATTAGTTGACATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAACAT
*
13470595 CACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTT
13470648 ATCATAAGCG
Statistics
Matches: 105, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
64 105 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.39
Consensus pattern (64 bp):
CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAACAT
Found at i:13471138 original size:177 final size:177
Alignment explanation
Indices: 13470950--13471288 Score: 518
Period size: 177 Copynumber: 1.9 Consensus size: 177
13470940 TAAAAATTAC
* * *
13470950 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAAAGGACGAATCTTATCTCCATGTATTG
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAAGGACAAATCTTATCTCCATGTATAG
* * *
13471015 GCAATAGAGCATATTTTAGCC-GTCAGCCTTATCTCTCTAAGGCAGCAAGAGAGCAAGTTGGCGA
66 GCAATAGAGCAGATTTTAGCCACT-AGCCTTATCTCTCTAAGGCAGCAAGAGAGCAAGTAGGCGA
*
13471079 TTGTAGTCTTATCTTTCTGAGGTAACAAGGAAGCAGACTGAAGATTGA
130 TTGTAGTCTTATCTTCCTGAGGTAACAAGGAAGCAGACTGAAGATTGA
* * * *
13471127 AGATTTTATCTCCCTAAGCAGTTGTGGAGCAGATCGAAGATGACAAATCTTATCTCCATGTATAG
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAAGGACAAATCTTATCTCCATGTATAG
* * * *
13471192 GCAATAGAGCAGATTTTAGCCACTAGCCTTGTCTCTCTGAGGTAGCAAGAGAGCAGGTAGGCGAT
66 GCAATAGAGCAGATTTTAGCCACTAGCCTTATCTCTCTAAGGCAGCAAGAGAGCAAGTAGGCGAT
*
13471257 TGTAGTCTTATCTTCCTGAGGTAGCAAGGAAG
131 TGTAGTCTTATCTTCCTGAGGTAACAAGGAAG
13471289 TCGAGGATGA
Statistics
Matches: 145, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
177 144 0.99
178 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.28
Consensus pattern (177 bp):
AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAAGGACAAATCTTATCTCCATGTATAG
GCAATAGAGCAGATTTTAGCCACTAGCCTTATCTCTCTAAGGCAGCAAGAGAGCAAGTAGGCGAT
TGTAGTCTTATCTTCCTGAGGTAACAAGGAAGCAGACTGAAGATTGA
Found at i:13471318 original size:129 final size:129
Alignment explanation
Indices: 13471160--13471417 Score: 480
Period size: 129 Copynumber: 2.0 Consensus size: 129
13471150 GTGGAGCAGA
*
13471160 TCGAAGATGACAAATCTTATCTCCATGTATAGGCAATAGAGCAGATTTTAGCCACTAGCCTTGTC
1 TCGAAGATGACAAATCTTATCTCCATGTATAGGCAATAGAACAGATTTTAGCCACTAGCCTTGTC
**
13471225 TCTCTGAGGTAGCAAGAGAGCAGGTAGGCGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAG
66 TCTCTGAGGTAGCAAGAGAGCAGGTAGGAAATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAG
*
13471289 TCGAGGATGACAAATCTTATCTCCATGTATAGGCAATAGAACAGATTTTAGCCACTAGCCTTGTC
1 TCGAAGATGACAAATCTTATCTCCATGTATAGGCAATAGAACAGATTTTAGCCACTAGCCTTGTC
13471354 TCTCTGAGGTAGCAAGAGAGCAGGTAGGAAATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAG
66 TCTCTGAGGTAGCAAGAGAGCAGGTAGGAAATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAG
13471418 CAGACTGAAG
Statistics
Matches: 125, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
129 125 1.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.27
Consensus pattern (129 bp):
TCGAAGATGACAAATCTTATCTCCATGTATAGGCAATAGAACAGATTTTAGCCACTAGCCTTGTC
TCTCTGAGGTAGCAAGAGAGCAGGTAGGAAATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAG
Found at i:13471407 original size:306 final size:306
Alignment explanation
Indices: 13470995--13471594 Score: 968
Period size: 306 Copynumber: 2.0 Consensus size: 306
13470985 GAAAAGGACG
* * * *
13470995 AATCTTATCTCCATGTATTGGCAATAGAGCATATTTTAGCCGTCAGCCTTATCTCTCTAAGGCAG
1 AATCTTATCTCCATGTATAGGCAATAGAACAGATTTTAGCCCTCAGCCTTATCTCTCTAAGGCAG
* ** *
13471060 CAAGAGAGCAAGTTGGCGATTGTAGTCTTATCTTTCTGAGGTAACAAGGAAGCAGACTGAAGATT
66 CAAGAGAGCAAGTAGGAAATTGTAGTCTTATCTTCCTGAGGTAACAAGGAAGCAGACTGAAGATT
* * *
13471125 GAAGATTTTATCTCCCTAAGCAGTTGTGGAGCAGATCGAAGATGACAAATCTTATCTCCATGTAT
131 GAAGATCTTATCTCCCTAAGCAGTTGTGGAACAAATCGAAGATGACAAATCTTATCTCCATGTAT
*
13471190 AGGCAATAGAGCAGATTTTAGCCACTAGCCTTGTCTCTCTGAGGTAGCAAGAGAGCAGGTAGGCG
196 AGGCAATAGAGCAGATTTTAGCCACTAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTAGGCG
13471255 ATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGTCGAGGATGACA
261 ATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGTCGAGGATGACA
* * *
13471301 AATCTTATCTCCATGTATAGGCAATAGAACAGATTTTAGCCACT-AGCCTTGTCTCTCTGAGGTA
1 AATCTTATCTCCATGTATAGGCAATAGAACAGATTTTAGCC-CTCAGCCTTATCTCTCTAAGGCA
* *
13471365 GCAAGAGAGCAGGTAGGAAATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGAT
65 GCAAGAGAGCAAGTAGGAAATTGTAGTCTTATCTTCCTGAGGTAACAAGGAAGCAGACTGAAGAT
* *
13471430 TGAAGATCTTATCTCTCTAAGCAGTTGTGGAACAAATCGAAGATGGCAAATCTTATCTCCATGTA
130 TGAAGATCTTATCTCCCTAAGCAGTTGTGGAACAAATCGAAGATGACAAATCTTATCTCCATGTA
* * * *
13471495 TCGGCAATGGAGCAGATTTTAGCCACTAGCCTTATCTCTTTGAGGTAGCAAGAGAGCAGGTTGGC
195 TAGGCAATAGAGCAGATTTTAGCCACTAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTAGGC
*
13471560 GATTGTAGTCTTATCTTCCTGATGTAGCAAGGAAG
260 GATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAG
13471595 CAGACTGAAG
Statistics
Matches: 269, Mismatches: 24, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
306 268 1.00
307 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.28
Consensus pattern (306 bp):
AATCTTATCTCCATGTATAGGCAATAGAACAGATTTTAGCCCTCAGCCTTATCTCTCTAAGGCAG
CAAGAGAGCAAGTAGGAAATTGTAGTCTTATCTTCCTGAGGTAACAAGGAAGCAGACTGAAGATT
GAAGATCTTATCTCCCTAAGCAGTTGTGGAACAAATCGAAGATGACAAATCTTATCTCCATGTAT
AGGCAATAGAGCAGATTTTAGCCACTAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTAGGCG
ATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGTCGAGGATGACA
Found at i:13471513 original size:177 final size:177
Alignment explanation
Indices: 13471289--13471665 Score: 612
Period size: 177 Copynumber: 2.1 Consensus size: 177
13471279 AGCAAGGAAG
* * *
13471289 TCGAGGATGACAAATCTTATCTCCATGTATAGGCAATAGAACAGATTTTAGCCACTAGCCTTGTC
1 TCGAAGATGGCAAATCTTATCTCCATGTATAGGCAATAGAACAGATTTTAGCCACTAGCCTTATC
13471354 TCTCTGAGGTAGCAAGAGAGCAGGTAGGAAATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGC
66 TCTCTGAGGTAGCAAGAGAGCAGGTAGGAAATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGC
13471419 AGACTGAAGATTGAAGATCTTATCT-CTCTAAGCAGTTGTGGAACAAA
131 AGACTGAAGATTGAAGATCTTATCTCCT-TAAGCAGTTGTGGAACAAA
* * *
13471466 TCGAAGATGGCAAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCACTAGCCTTATC
1 TCGAAGATGGCAAATCTTATCTCCATGTATAGGCAATAGAACAGATTTTAGCCACTAGCCTTATC
* * ** *
13471531 TCTTTGAGGTAGCAAGAGAGCAGGTTGGCGATTGTAGTCTTATCTTCCTGATGTAGCAAGGAAGC
66 TCTCTGAGGTAGCAAGAGAGCAGGTAGGAAATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGC
* *
13471596 AGACTGAAGATTGAAGATCTTATCTCCTTAAGCAGTTGTGGAGCAGA
131 AGACTGAAGATTGAAGATCTTATCTCCTTAAGCAGTTGTGGAACAAA
*
13471643 TCAAAGATGGCAAATCTTATCTC
1 TCGAAGATGGCAAATCTTATCTC
13471666 GAACAAGGCC
Statistics
Matches: 185, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
177 183 0.99
178 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (177 bp):
TCGAAGATGGCAAATCTTATCTCCATGTATAGGCAATAGAACAGATTTTAGCCACTAGCCTTATC
TCTCTGAGGTAGCAAGAGAGCAGGTAGGAAATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGC
AGACTGAAGATTGAAGATCTTATCTCCTTAAGCAGTTGTGGAACAAA
Found at i:13474117 original size:13 final size:13
Alignment explanation
Indices: 13474099--13474124 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13474089 GCTTATAAGA
13474099 AGATCATCATCAC
1 AGATCATCATCAC
13474112 AGATCATCATCAC
1 AGATCATCATCAC
13474125 CAAACCAACT
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:0.38, C:0.31, G:0.08, T:0.23
Consensus pattern (13 bp):
AGATCATCATCAC
Found at i:13479567 original size:21 final size:21
Alignment explanation
Indices: 13479541--13479581 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
13479531 AGACAAGCGA
* *
13479541 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
13479562 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
13479582 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:13484754 original size:31 final size:30
Alignment explanation
Indices: 13484714--13484790 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 30
13484704 TTGTTTGATT
*
13484714 TATAACTAAAATT-TTAATATTCAAAAAATA
1 TATAACTAAAATTGATAA-ATTCAAAAAATA
*
13484744 TATAGACTAAAATTGATAAATTCAAATAATA
1 TATA-ACTAAAATTGATAAATTCAAAAAATA
* *
13484775 TAAATATTAAAATTGA
1 TATA-ACTAAAATTGA
13484791 CCAAAATTGA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
30 4 0.10
31 33 0.82
32 3 0.08
ACGTcount: A:0.56, C:0.05, G:0.04, T:0.35
Consensus pattern (30 bp):
TATAACTAAAATTGATAAATTCAAAAAATA
Found at i:13485878 original size:2 final size:2
Alignment explanation
Indices: 13485871--13485896 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
13485861 TATCAAAGTG
13485871 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
13485897 TCTAACAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13487160 original size:29 final size:27
Alignment explanation
Indices: 13487128--13487191 Score: 65
Period size: 28 Copynumber: 2.3 Consensus size: 27
13487118 TCTTAAATGA
*
13487128 TTTAATTTTACTACTAAACTTTAAACTTT
1 TTTAATTTTACAACT-AAC-TTAAACTTT
* * *
13487157 TTTAAATTTTGCAACTAACTTCAATTTT
1 TTT-AATTTTACAACTAACTTAAACTTT
13487185 TTTAATT
1 TTTAATT
13487192 AACGTTTACC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
27 4 0.13
28 10 0.33
29 6 0.20
30 10 0.33
ACGTcount: A:0.33, C:0.12, G:0.02, T:0.53
Consensus pattern (27 bp):
TTTAATTTTACAACTAACTTAAACTTT
Found at i:13490822 original size:16 final size:16
Alignment explanation
Indices: 13490803--13490837 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
13490793 AACCTAACCC
*
13490803 AAAAAAAA-ATAAAGA
1 AAAAAAAAGAAAAAGA
13490818 AAAAAAAAGAAAAAGA
1 AAAAAAAAGAAAAAGA
13490834 AAAA
1 AAAA
13490838 CTTACCCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.89, C:0.00, G:0.09, T:0.03
Consensus pattern (16 bp):
AAAAAAAAGAAAAAGA
Found at i:13491432 original size:39 final size:37
Alignment explanation
Indices: 13491389--13491493 Score: 104
Period size: 39 Copynumber: 2.8 Consensus size: 37
13491379 TTAGGTATTT
* *
13491389 TATATATATTATGTATATATTTTTTAATGCCATTAGTTA
1 TATATATATTATGTATATATTTTTAAATACCATTA--TA
* * * *
13491428 TATATTTCTTATGTATATATTCTTAAATACTATTATA
1 TATATATATTATGTATATATTTTTAAATACCATTATA
* *
13491465 TATACATA-TATATATATATATTTTAAATA
1 TATATATATTATGTATATAT-TTTTAAATA
13491494 TCATATTGTG
Statistics
Matches: 54, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
36 10 0.19
37 15 0.28
39 29 0.54
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.52
Consensus pattern (37 bp):
TATATATATTATGTATATATTTTTAAATACCATTATA
Found at i:13516107 original size:3 final size:3
Alignment explanation
Indices: 13516094--13516157 Score: 101
Period size: 3 Copynumber: 20.3 Consensus size: 3
13516084 ATATAATGAA
13516094 AAT ATAT AAT AAT ATAT AAT ATAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT A-AT AAT AAT A-AT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
13516142 AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT A
13516158 TGAAAATACA
Statistics
Matches: 58, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
3 49 0.84
4 9 0.16
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:13526256 original size:28 final size:28
Alignment explanation
Indices: 13526202--13526259 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 28
13526192 ATAGCTATCT
* **
13526202 AACTATAATCCAGATATTTATAAAAAAA
1 AACTATAATCCAAATAAATATAAAAAAA
**
13526230 AACTATAATCCAAATAAATATTGAAAAA
1 AACTATAATCCAAATAAATATAAAAAAA
13526258 AA
1 AA
13526260 TCCACACATT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.60, C:0.10, G:0.03, T:0.26
Consensus pattern (28 bp):
AACTATAATCCAAATAAATATAAAAAAA
Found at i:13534877 original size:19 final size:19
Alignment explanation
Indices: 13534853--13534896 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
13534843 ACTAAACCAT
*
13534853 TTTAAAATTTAAAGAATAA
1 TTTAAAATCTAAAGAATAA
*
13534872 TTTAAAATCTAAATAATAA
1 TTTAAAATCTAAAGAATAA
13534891 TTTAAA
1 TTTAAA
13534897 TATGTTATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (19 bp):
TTTAAAATCTAAAGAATAA
Found at i:13537866 original size:6 final size:6
Alignment explanation
Indices: 13537857--13537896 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
13537847 ATCGATTTTG
13537857 ATTTCA ATTTCA ATTTCA ATTTCA ATTTCA ATTTCA ATTT
1 ATTTCA ATTTCA ATTTCA ATTTCA ATTTCA ATTTCA ATTT
13537897 TGAGATCTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.33, C:0.15, G:0.00, T:0.53
Consensus pattern (6 bp):
ATTTCA
Found at i:13544823 original size:6 final size:6
Alignment explanation
Indices: 13544812--13544836 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
13544802 GCTTTTTTAT
13544812 TTAATA TTAATA TTAATA TTAATA T
1 TTAATA TTAATA TTAATA TTAATA T
13544837 AAAATTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TTAATA
Found at i:13544921 original size:9 final size:9
Alignment explanation
Indices: 13544899--13544932 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
13544889 ATATATATTT
*
13544899 AAAATTTTAA
1 AAAATTTT-G
13544909 AAAATTTTG
1 AAAATTTTG
13544918 AAAATTTTG
1 AAAATTTTG
13544927 AAAATT
1 AAAATT
13544933 GATTTTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (9 bp):
AAAATTTTG
Found at i:13547003 original size:292 final size:291
Alignment explanation
Indices: 13546480--13547022 Score: 899
Period size: 292 Copynumber: 1.9 Consensus size: 291
13546470 TAGAAAATTT
** * *
13546480 TCATTCTTGATTCTTACAATGCAAGGTATTCATCAAAATGCGATAATTCTTTTGGCCATAGACAA
1 TCATTCTCAATTCTTACAATGCAAGGCATTCACCAAAATGCGATAATTCTTTTGGCCATAGACAA
* *
13546545 ATCCCTCTTCTTCCAATCCTTGAGCAATTCAAAAGCATCATTACTATTCCCTTCACTACACAACT
66 ATCCCTCTTCTTCCAATCCTCGAGCAATTCAAAAGCATCATTACTATTCCCTCCACTACACAACT
*
13546610 CTTCCAATACGGTCTTATAAGTCAATAAATACAGCGCCATTGAGTGTTCCAACATATCATAAACA
131 CTTCCAATACGGTCTTATAAGTCAATAAATACAGCGCCATTGAATGTTCCAACATATCATAAACA
* * *
13546675 ATATCAATAGCATCATCAAGCCTTTGCTCCATTGCAAGGCTACAAATCAGAATCATGTAAACAAG
196 ACATCAACAGCATCATCAAGCCTTTGCTCCATTGCAAGACTACAAATCAGAATCATGTAAACAAG
13546740 AACTACTTAGTTTTTGGACCATAGAGACCAG
261 AACTACTTAGTTTTTGGACCATAGAGACCAG
*
13546771 TCATTCTCAATTCTTACAATGCAAGGCATTCACCAAAATGCGATAATTCTTTTGGCCCATGGACA
1 TCATTCTCAATTCTTACAATGCAAGGCATTCACCAAAATGCGATAATTCTTTTGG-CCATAGACA
* * *
13546836 AATCCCTCTTCTTCCACTCCTCGAGCAATTCAAAAGCATCATTACTCTTCCCTCCCCTACACAAC
65 AATCCCTCTTCTTCCAATCCTCGAGCAATTCAAAAGCATCATTACTATTCCCTCCACTACACAAC
* * *
13546901 TCTTCCAATACTGTCTTATAAGTCAATAAATCCGGCGCCATTGAAT-TCTCCAACATATCATAAA
130 TCTTCCAATACGGTCTTATAAGTCAATAAATACAGCGCCATTGAATGT-TCCAACATATCATAAA
*
13546965 CAACATCAACGGCATCATCAAGCCTTTGCTCCATTGCAAGACTACAAATCAGAATCAT
194 CAACATCAACAGCATCATCAAGCCTTTGCTCCATTGCAAGACTACAAATCAGAATCAT
13547023 ATAAGCACTC
Statistics
Matches: 232, Mismatches: 18, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
291 52 0.22
292 180 0.78
ACGTcount: A:0.33, C:0.27, G:0.11, T:0.29
Consensus pattern (291 bp):
TCATTCTCAATTCTTACAATGCAAGGCATTCACCAAAATGCGATAATTCTTTTGGCCATAGACAA
ATCCCTCTTCTTCCAATCCTCGAGCAATTCAAAAGCATCATTACTATTCCCTCCACTACACAACT
CTTCCAATACGGTCTTATAAGTCAATAAATACAGCGCCATTGAATGTTCCAACATATCATAAACA
ACATCAACAGCATCATCAAGCCTTTGCTCCATTGCAAGACTACAAATCAGAATCATGTAAACAAG
AACTACTTAGTTTTTGGACCATAGAGACCAG
Found at i:13551251 original size:21 final size:21
Alignment explanation
Indices: 13551225--13551265 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
13551215 ATCTGCTCAA
* *
13551225 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
13551246 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
13551266 TCGCTTGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:13557404 original size:20 final size:20
Alignment explanation
Indices: 13557365--13557404 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
13557355 AATATTGTTG
*
13557365 AAAAATTTATTTTTTCTTTA
1 AAAAATTTATATTTTCTTTA
13557385 AAAAATTTATAATTTT-TTTA
1 AAAAATTTAT-ATTTTCTTTA
13557405 TATTACTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (20 bp):
AAAAATTTATATTTTCTTTA
Found at i:13563961 original size:18 final size:19
Alignment explanation
Indices: 13563927--13563962 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
13563917 TAGCTACGAA
13563927 ATCAAAACAATTAAAATTC
1 ATCAAAACAATTAAAATTC
*
13563946 ATCAATACAA-TAAAATT
1 ATCAAAACAATTAAAATT
13563963 GAAATATTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.58, C:0.14, G:0.00, T:0.28
Consensus pattern (19 bp):
ATCAAAACAATTAAAATTC
Found at i:13564059 original size:20 final size:20
Alignment explanation
Indices: 13564024--13564061 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
13564014 AAACTGAGAC
13564024 TAATTTTTATTCTTCATATT
1 TAATTTTTATTCTTCATATT
13564044 TAATCTTTTATT-TTCATA
1 TAAT-TTTTATTCTTCATA
13564062 CTAATTTCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.26, C:0.11, G:0.00, T:0.63
Consensus pattern (20 bp):
TAATTTTTATTCTTCATATT
Found at i:13569466 original size:28 final size:27
Alignment explanation
Indices: 13569432--13569509 Score: 84
Period size: 30 Copynumber: 2.7 Consensus size: 27
13569422 TATTTTGTTT
* *
13569432 TATTATACTTTAATTATTATTATACAA
1 TATTATACTTTAATTATTATGATAAAA
*
13569459 TATATATACATTTACATTATTAAGATAAAA
1 TAT-TATAC-TTTA-ATTATTATGATAAAA
*
13569489 TATTTTAACTTTAATTATTAT
1 TATTAT-ACTTTAATTATTAT
13569510 AATATAAGTA
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
27 3 0.07
28 12 0.29
29 10 0.24
30 17 0.40
ACGTcount: A:0.42, C:0.06, G:0.01, T:0.50
Consensus pattern (27 bp):
TATTATACTTTAATTATTATGATAAAA
Found at i:13572876 original size:15 final size:15
Alignment explanation
Indices: 13572856--13572886 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
13572846 AAAAATACTT
13572856 GTTGAAAATTGTATG
1 GTTGAAAATTGTATG
13572871 GTTGAAAATTGTATG
1 GTTGAAAATTGTATG
13572886 G
1 G
13572887 ATTTTCATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.29, T:0.39
Consensus pattern (15 bp):
GTTGAAAATTGTATG
Found at i:13576045 original size:3 final size:3
Alignment explanation
Indices: 13576025--13576351 Score: 105
Period size: 3 Copynumber: 108.0 Consensus size: 3
13576015 TTAATTTTGC
* * * *
13576025 TAT TAT TAC TGT TA- TAT TAT TGT TACT TAT TAT TAT TAT TAT TGT
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT
* * * *
13576070 TAT GTA- CAT T-T TAT T-T ATAC TAT TCT TAA TAT TAT TAT TA- TAT
1 TAT -TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
13576113 GTAT TAT CAT TAT TAT AAA TAT TAGT GTA- TAT TTT TAT TAT ACAT GTA-
1 -TAT TAT TAT TAT TAT TAT TAT TA-T -TAT TAT TAT TAT TAT -TAT -TAT
* * * *
13576161 TAT ATACT CT-T TAT ATAT GGTAT TAT TTT TAA CAT TAT TA- TATT TAC
1 TAT -TA-T -TAT TAT -TAT --TAT TAT TAT TAT TAT TAT TAT TA-T TAT
* * *
13576208 TAT CA- TATT TAT TAT TTT TAA TA- TAT TAT TATT TAT TAT T-T TAT
1 TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT
* * * *
13576252 T-T TCTT TAT CTCAT TAT TA- TAT CA- TAT T-T TCT T-T T-T GTAT TTT
1 TAT T-AT TAT -T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
* *
13576295 TAC TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
13576343 TAT TAT TAT
1 TAT TAT TAT
13576352 GTAATAATGT
Statistics
Matches: 238, Mismatches: 51, Indels: 70
0.66 0.14 0.19
Matches are distributed among these distances:
2 30 0.13
3 170 0.71
4 29 0.12
5 9 0.04
ACGTcount: A:0.30, C:0.06, G:0.03, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:13576463 original size:8 final size:8
Alignment explanation
Indices: 13576421--13576477 Score: 55
Period size: 8 Copynumber: 7.1 Consensus size: 8
13576411 TTTATTATGT
13576421 TATTTTAA
1 TATTTTAA
*
13576429 TATCTTTAT
1 TAT-TTTAA
**
13576438 TATATTTGC
1 TAT-TTTAA
13576447 T-TTTT-A
1 TATTTTAA
13576453 TATTTTAA
1 TATTTTAA
13576461 TATTTTAA
1 TATTTTAA
13576469 TATTTTAA
1 TATTTTAA
13576477 T
1 T
13576478 TATCATGATT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
6 1 0.02
7 7 0.17
8 22 0.54
9 11 0.27
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:13576635 original size:21 final size:23
Alignment explanation
Indices: 13576593--13576666 Score: 68
Period size: 22 Copynumber: 3.3 Consensus size: 23
13576583 TCTTAATATT
*
13576593 TATATATTAT-GTAAATATTCTA-A
1 TATATATT-TCGTATATA-TCTATA
13576616 TAT-TATATT-GTATATATCTATA
1 TATATAT-TTCGTATATATCTATA
*
13576638 TATATATTTCGTATATAT-TATG
1 TATATATTTCGTATATATCTATA
13576660 TATATAT
1 TATATAT
13576667 GTTTTCAATA
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
21 4 0.09
22 26 0.58
23 15 0.33
ACGTcount: A:0.38, C:0.04, G:0.05, T:0.53
Consensus pattern (23 bp):
TATATATTTCGTATATATCTATA
Found at i:13576654 original size:11 final size:11
Alignment explanation
Indices: 13576593--13576666 Score: 55
Period size: 11 Copynumber: 6.6 Consensus size: 11
13576583 TCTTAATATT
13576593 TATATATTATG
1 TATATATTATG
* *
13576604 TAAATATTCT-
1 TATATATTATG
*
13576614 AATAT-TATATTG
1 TATATAT-TA-TG
*
13576626 TATATATCTATA
1 TATATAT-TATG
13576638 TATATATT-TCG
1 TATATATTAT-G
13576649 TATATATTATG
1 TATATATTATG
13576660 TATATAT
1 TATATAT
13576667 GTTTTCAATA
Statistics
Matches: 48, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
9 1 0.02
10 5 0.10
11 26 0.54
12 13 0.27
13 3 0.06
ACGTcount: A:0.38, C:0.04, G:0.05, T:0.53
Consensus pattern (11 bp):
TATATATTATG
Found at i:13576770 original size:19 final size:19
Alignment explanation
Indices: 13576746--13576784 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
13576736 TATTATTTTA
*
13576746 TGTATATTTCTAATATCAT
1 TGTATATTTCTAACATCAT
13576765 TGTATATTTCTAACATCAT
1 TGTATATTTCTAACATCAT
13576784 T
1 T
13576785 ATTATTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.31, C:0.13, G:0.05, T:0.51
Consensus pattern (19 bp):
TGTATATTTCTAACATCAT
Found at i:13577348 original size:2 final size:2
Alignment explanation
Indices: 13577341--13577373 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
13577331 TATTACTATT
13577341 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13577374 TTACGTACAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13591910 original size:13 final size:13
Alignment explanation
Indices: 13591892--13591930 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
13591882 TTCGAATCGG
13591892 TTTTCTTTTTTTC
1 TTTTCTTTTTTTC
13591905 TTTTC--TTTTTC
1 TTTTCTTTTTTTC
*
13591916 TTTACTTTTTTTC
1 TTTTCTTTTTTTC
13591929 TT
1 TT
13591931 CTTTGTTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
11 10 0.43
13 13 0.57
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTCTTTTTTTC
Found at i:13591927 original size:19 final size:20
Alignment explanation
Indices: 13591892--13591940 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
13591882 TTCGAATCGG
*
13591892 TTTTCTTT-TTTTCTTTTCT
1 TTTTCTTTACTTTCTTTTCT
13591911 TTTTCTTTACTTT-TTTTCT
1 TTTTCTTTACTTTCTTTTCT
*
13591930 TCTTTGTTTAC
1 T-TTTCTTTAC
13591941 ATGTATGTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 15 0.58
20 11 0.42
ACGTcount: A:0.04, C:0.16, G:0.02, T:0.78
Consensus pattern (20 bp):
TTTTCTTTACTTTCTTTTCT
Found at i:13605165 original size:45 final size:43
Alignment explanation
Indices: 13605115--13605485 Score: 231
Period size: 43 Copynumber: 8.5 Consensus size: 43
13605105 GAATCAGCGA
* *
13605115 ATTTACAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAG
1 ATTTAC-AGTCTTAACCCCCTAAGCAGTAGGGTAACA-GCTGAAG
* *
13605160 ATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAG
1 ATTTACAG-TCTTAACCCCCTAAGCAGTAGGGTAACAGCT-GAAG
*** ** * * * *
13605205 ACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAACAGACCG-A-
1 ATTTACAGTCTTAACCCCCTAAGCAGTAGGGTAACAG-CTGAAG
* * * *
13605247 A-TTACAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAG
1 ATTTACAG-TCTTAACCCCCTAAGCAGTAGGGTAACAGCT-GAAG
*** * * * *
13605291 AGGAATA-TCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAG
1 ATTTACAGTCTTAACCCCCTAAGCAGTAGGGTAACAGCT-GAAG
* ** * *
13605334 A-TGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGC-CAA-
1 ATTTACAGTC-TTAACCCCCTAAGCAGTAGGGTAAC-AGCTGAAG
*
13605376 ATTTACAAG-CTTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAG
1 ATTTAC-AGTC-TTAACCCCCTAAGCAGTAGGGTAACA-GCTGAAG
* *
13605421 ATTTACAGATTTTAACCCCCTAAGCAGTAGGGTAACAAGC--CAG
1 ATTTACAG-TCTTAACCCCCTAAGCAGTAGGGTAAC-AGCTGAAG
*
13605464 ATTTACAGACCTTAACCCCCTA
1 ATTTACAG-TCTTAACCCCCTA
13605486 GGTGGTGGGG
Statistics
Matches: 259, Mismatches: 48, Indels: 40
0.75 0.14 0.12
Matches are distributed among these distances:
41 2 0.01
42 29 0.11
43 92 0.36
44 60 0.23
45 75 0.29
46 1 0.00
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (43 bp):
ATTTACAGTCTTAACCCCCTAAGCAGTAGGGTAACAGCTGAAG
Found at i:13605234 original size:44 final size:43
Alignment explanation
Indices: 13605125--13605369 Score: 217
Period size: 44 Copynumber: 5.6 Consensus size: 43
13605115 ATTTACAAGC
* * * **
13605125 CTTAACCCCCTAAGTAGTAGGGTAACAG-GCTGAAGATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATC-GAAGA-CGA-AGAT
*
13605170 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAA-GAT
* * * * * *
13605214 CTTAAACCCCTAATCGGTAGGGTAACAGACCGAATTAC--AGAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAA-GACGAAGAT
* * * *
13605256 CTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGAGGAATAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGAT
* * * **
13605299 CTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGATGATGGG
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGAT
*
13605342 CTTTAACCCCCTAAGCAGTAGGGTAACA
1 C-TTAACCCCCTAAGCAGTAGGGAAACA
13605370 AGCCAAATTT
Statistics
Matches: 162, Mismatches: 32, Indels: 13
0.78 0.15 0.06
Matches are distributed among these distances:
41 1 0.01
42 29 0.18
43 41 0.25
44 57 0.35
45 33 0.20
46 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.20
Consensus pattern (43 bp):
CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGAT
Found at i:13605353 original size:129 final size:130
Alignment explanation
Indices: 13605114--13605413 Score: 349
Period size: 129 Copynumber: 2.3 Consensus size: 130
13605104 AGAATCAGCG
* * * * ** *
13605114 AATTTACAAGCCTTAACCCCCTAAGTAGTAGGGTAACAG-GCTGAAGATTTACAGATCTTAACCC
1 AATTTACAAGCTTTAACCCCCTAAGCAGTAGGGAAACAGATC-GAAGA-GGA-ATATCTTAACCC
* * *
13605178 CCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAAC-AG
63 CCTAAGCAGTAGGGAAACAGATCAAAGACGAAGGGTCTTAAACCCCTAAGCAGTAGGGTAACAAG
*
13605242 ACCG
128 -CCA
* * *
13605246 AA-TTAC-AGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGAGGAATATCTTAACCCCC
1 AATTTACAAGCT-TTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGAGGAATATCTTAACCCCC
* * *
13605309 TAAGCAGTAGGGAAACAGATCAAAGATGATGGG-CTTTAACCCCCTAAGCAGTAGGGTAACAAGC
65 TAAGCAGTAGGGAAACAGATCAAAGACGAAGGGTC-TTAAACCCCTAAGCAGTAGGGTAACAAGC
13605373 CA
129 CA
*
13605375 AATTTACAAGCTTTAACCCCCTAAGCAGTAGGGTAACAG
1 AATTTACAAGCTTTAACCCCCTAAGCAGTAGGGAAACAG
13605414 GCTAAAGATT
Statistics
Matches: 141, Mismatches: 21, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
128 1 0.01
129 69 0.49
130 33 0.23
131 35 0.25
132 3 0.02
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (130 bp):
AATTTACAAGCTTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGAGGAATATCTTAACCCCCT
AAGCAGTAGGGAAACAGATCAAAGACGAAGGGTCTTAAACCCCTAAGCAGTAGGGTAACAAGCCA
Found at i:13605800 original size:86 final size:86
Alignment explanation
Indices: 13605606--13605892 Score: 319
Period size: 86 Copynumber: 3.3 Consensus size: 86
13605596 TTCATAGGGT
* *** *
13605606 CTTAAACCCCTAAGCAGTAGGGAAACAGACCAAATTACAGATCTTATCTCCCTAAGCAGTAGTGG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGGTTAAATTACAGATCTTATCTCCCTAAGCAGTAATGG
* *
13605671 AGTAGATCGAAGACGAAGAAC
66 AGCAGATCAAAGACGAAGAAC
** *
13605692 CTTAAACCCCTAAGCAGTAGGGTAACAGGTTAAATTGTAGATCTTATCTCCGTAAGCAGTAATGG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGGTTAAATTACAGATCTTATCTCCCTAAGCAGTAATGG
13605757 AGCAGATCAAAGACGAAGAAC
66 AGCAGATCAAAGACGAAGAAC
* * * * *** *
13605778 CTTAAACCCCCAAGCAGTAGGGTAATAGGTTGAGTATACAGATC-TAAAACCCTAAGCAGT-AGG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGGTTAAAT-TACAGATCTTATCTCCCTAAGCAGTAATG
* * *
13605841 GAAACAGATCAAAGATGACA-AGC
65 G-AGCAGATCAAAGACGA-AGAAC
* *
13605864 CTTAATCCCTTAAGCAGTAGGGTAACAGG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGG
13605893 CTGAAAATTA
Statistics
Matches: 170, Mismatches: 28, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
85 3 0.02
86 160 0.94
87 7 0.04
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.20
Consensus pattern (86 bp):
CTTAAACCCCTAAGCAGTAGGGTAACAGGTTAAATTACAGATCTTATCTCCCTAAGCAGTAATGG
AGCAGATCAAAGACGAAGAAC
Found at i:13606724 original size:16 final size:16
Alignment explanation
Indices: 13606683--13606726 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
13606673 TTCGAATCGG
13606683 TTTTCTTTTT-TTT-C
1 TTTTCTTTTTCTTTAC
13606697 TTTTCTTTTTCTTTAC
1 TTTTCTTTTTCTTTAC
13606713 TTTT-TTTCTTCTTT
1 TTTTCTTT-TTCTTT
13606727 GTTTACATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 10 0.37
15 6 0.22
16 11 0.41
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTCTTTTTCTTTAC
Found at i:13613762 original size:112 final size:114
Alignment explanation
Indices: 13613618--13613850 Score: 357
Period size: 111 Copynumber: 2.1 Consensus size: 114
13613608 ACATTGAATC
* *
13613618 AAAATTGATAGAATTATTATTATATTGAAATTTATATCAACAAATGATTTTTAAATATATAATTA
1 AAAATCGATAGAATTATTATTATATTAAAATTTATATCAACAAATGATTTTTAAATATATAATTA
*
13613683 -GGATATAAAAAAATATAAAATATGAAATTGTGAGATAATAAAATGTATTA
66 GGGA-AT-AAAAAATATAAAATATGAAATTGTGAAATAATAAAATGTATTA
* *
13613733 AAAATCGATAGAA-T-TT-TTATATTAAAATTTATATGAATAAATGATTTTTAAATATATAATTA
1 AAAATCGATAGAATTATTATTATATTAAAATTTATATCAACAAATGATTTTTAAATATATAATTA
* *
13613795 GGGAATAAAAATTATAAAATATGAAATTTTGAAATAATAAAATGTATTA
66 GGGAATAAAAAATATAAAATATGAAATTGTGAAATAATAAAATGTATTA
13613844 AAAATCG
1 AAAATCG
13613851 TTGAAAATCA
Statistics
Matches: 110, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
111 47 0.43
112 45 0.41
113 5 0.05
114 1 0.01
115 12 0.11
ACGTcount: A:0.52, C:0.02, G:0.09, T:0.37
Consensus pattern (114 bp):
AAAATCGATAGAATTATTATTATATTAAAATTTATATCAACAAATGATTTTTAAATATATAATTA
GGGAATAAAAAATATAAAATATGAAATTGTGAAATAATAAAATGTATTA
Found at i:13614218 original size:30 final size:30
Alignment explanation
Indices: 13614178--13614271 Score: 93
Period size: 30 Copynumber: 3.1 Consensus size: 30
13614168 AATTTATATC
*
13614178 TTTATAATTTTTAAAAGATTAAATTAAATT
1 TTTATCATTTTTAAAAGATTAAATTAAATT
* *
13614208 TTTATCATTTTTAGAACATT-AATCTAATATTT
1 TTTATCATTTTTAAAAGATTAAAT-TAA-A-TT
* *
13614240 TTTATCA-TTTTAAGAGATTAAAATATAATT
1 TTTATCATTTTTAAAAGATTAAATTA-AATT
13614270 TT
1 TT
13614272 ACTTTTACTA
Statistics
Matches: 52, Mismatches: 7, Indels: 10
0.75 0.10 0.14
Matches are distributed among these distances:
29 3 0.06
30 24 0.46
31 13 0.25
32 12 0.23
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.51
Consensus pattern (30 bp):
TTTATCATTTTTAAAAGATTAAATTAAATT
Found at i:13614271 original size:31 final size:31
Alignment explanation
Indices: 13614186--13614271 Score: 79
Period size: 32 Copynumber: 2.8 Consensus size: 31
13614176 TCTTTATAAT
* *
13614186 TTTTAAAAGATT-AAAT-TAAATTTTTATCA
1 TTTTAAGAGATTAAAATATAATTTTTTATCA
* * **
13614215 TTTTTAGAACATTAATCTA-ATATTTTTTATCA
1 TTTTAAG-AGATTAAAATATA-ATTTTTTATCA
13614247 TTTTAAGAGATTAAAATATAATTTT
1 TTTTAAGAGATTAAAATATAATTTT
13614272 ACTTTTACTA
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
29 5 0.12
30 4 0.10
31 16 0.38
32 17 0.40
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.50
Consensus pattern (31 bp):
TTTTAAGAGATTAAAATATAATTTTTTATCA
Found at i:13618596 original size:19 final size:19
Alignment explanation
Indices: 13618574--13618625 Score: 68
Period size: 20 Copynumber: 2.7 Consensus size: 19
13618564 TTCGAGTTTT
*
13618574 AAGTAAGTTTTCATGTATC
1 AAGTAATTTTTCATGTATC
*
13618593 AAGTAATTTTTTCATGTATT
1 AAGTAA-TTTTTCATGTATC
*
13618613 AATTAATTTTTCA
1 AAGTAATTTTTCA
13618626 ATGTTTTACG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.33, C:0.08, G:0.10, T:0.50
Consensus pattern (19 bp):
AAGTAATTTTTCATGTATC
Found at i:13625051 original size:15 final size:17
Alignment explanation
Indices: 13625023--13625064 Score: 52
Period size: 15 Copynumber: 2.5 Consensus size: 17
13625013 TAAATCTTTA
13625023 AAAATTTATAAAAAT-AT
1 AAAA-TTATAAAAATAAT
*
13625040 -AAATTATTAAAATAAT
1 AAAATTATAAAAATAAT
13625056 AAAATTATA
1 AAAATTATA
13625065 TTTTAATTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
15 9 0.43
16 5 0.24
17 7 0.33
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAAATTATAAAAATAAT
Found at i:13632140 original size:16 final size:16
Alignment explanation
Indices: 13632119--13632155 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
13632109 TGAATTATTG
* *
13632119 ATTACAGTTCTATTCC
1 ATTACAGCTCTATTCA
13632135 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCA
13632151 ATTAC
1 ATTAC
13632156 GGTGAACCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.30, C:0.24, G:0.05, T:0.41
Consensus pattern (16 bp):
ATTACAGCTCTATTCA
Found at i:13633235 original size:28 final size:28
Alignment explanation
Indices: 13633204--13633259 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
13633194 ATCTGTTAAG
13633204 CTAATTAAATTGTAACAAAACGGTACGT
1 CTAATTAAATTGTAACAAAACGGTACGT
13633232 CTAATTAAATTGTAACAAAACGGTACGT
1 CTAATTAAATTGTAACAAAACGGTACGT
13633260 TTTGAGGGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (28 bp):
CTAATTAAATTGTAACAAAACGGTACGT
Found at i:13642633 original size:16 final size:16
Alignment explanation
Indices: 13642612--13642646 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
13642602 ACTAATCACT
*
13642612 TTTCAATTAATATACA
1 TTTCAAATAATATACA
*
13642628 TTTCAAATAATATATA
1 TTTCAAATAATATACA
13642644 TTT
1 TTT
13642647 TCTTCATTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (16 bp):
TTTCAAATAATATACA
Found at i:13644837 original size:32 final size:32
Alignment explanation
Indices: 13644799--13644864 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
13644789 ATTAGTAAAG
13644799 ATAAAATTATATTTAGGCCTCTTGAAAATGAA
1 ATAAAATTATATTTAGGCCTCTTGAAAATGAA
*
13644831 ATAAAATTATATTTAGGTCTCTTGAAAATGAA
1 ATAAAATTATATTTAGGCCTCTTGAAAATGAA
13644863 AT
1 AT
13644865 TTTTTTATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.36
Consensus pattern (32 bp):
ATAAAATTATATTTAGGCCTCTTGAAAATGAA
Found at i:13645177 original size:28 final size:26
Alignment explanation
Indices: 13645137--13645189 Score: 70
Period size: 28 Copynumber: 2.0 Consensus size: 26
13645127 GTTGGGTTAC
13645137 TTTTTTCAATTTGATACTTGAGTTTT
1 TTTTTTCAATTTGATACTTGAGTTTT
* *
13645163 TTTTTTCCTAATTTGGTTCTTGAGTTT
1 TTTTTT-C-AATTTGATACTTGAGTTT
13645190 GGTTCATGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.26
27 1 0.04
28 16 0.70
ACGTcount: A:0.15, C:0.09, G:0.13, T:0.62
Consensus pattern (26 bp):
TTTTTTCAATTTGATACTTGAGTTTT
Found at i:13645215 original size:30 final size:31
Alignment explanation
Indices: 13645172--13645239 Score: 86
Period size: 30 Copynumber: 2.2 Consensus size: 31
13645162 TTTTTTTCCT
* *
13645172 AATTTGGTTCTTGAGTTTGG-TTC-ATGGTTC
1 AATTTGGTACTTGAATTTGGCTTCAAT-GTTC
*
13645202 ACTTTGGTACTTGAATTTGGCTTCAATGTTC
1 AATTTGGTACTTGAATTTGGCTTCAATGTTC
13645233 AATTTGG
1 AATTTGG
13645240 CACCTAGATC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
30 17 0.53
31 13 0.41
32 2 0.06
ACGTcount: A:0.18, C:0.12, G:0.24, T:0.47
Consensus pattern (31 bp):
AATTTGGTACTTGAATTTGGCTTCAATGTTC
Found at i:13647520 original size:6 final size:6
Alignment explanation
Indices: 13647511--13647543 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
13647501 ATTGAAAATC
13647511 ATGTTT ATGTTT ATGTTT ATGTTT ATGTTT ATG
1 ATGTTT ATGTTT ATGTTT ATGTTT ATGTTT ATG
13647544 AAATGTATGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.18, C:0.00, G:0.18, T:0.64
Consensus pattern (6 bp):
ATGTTT
Found at i:13647764 original size:16 final size:15
Alignment explanation
Indices: 13647740--13647773 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
13647730 TTGAAATTTA
13647740 TTTTTTATTTTTATT
1 TTTTTTATTTTTATT
13647755 TTTTTGTATTTTTATT
1 TTTTT-TATTTTTATT
13647771 TTT
1 TTT
13647774 AGAAATTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.12, C:0.00, G:0.03, T:0.85
Consensus pattern (15 bp):
TTTTTTATTTTTATT
Found at i:13650083 original size:36 final size:36
Alignment explanation
Indices: 13650022--13650123 Score: 107
Period size: 39 Copynumber: 2.8 Consensus size: 36
13650012 ATACAATCCT
* *
13650022 CTGCCCTGC-CCACCACTATCACCATCATACAAAAAG
1 CTGCCCT-CTCCACCACCACCACCATCATACAAAAAG
* * * *
13650058 CTGCCCTCTCCATCATCACCGCCATCACTATACAATAAG
1 CTGCCCTCTCCACCACCACCACCAT--C-ATACAAAAAG
13650097 CTGCCCTCTCCACCACCACCACCATCA
1 CTGCCCTCTCCACCACCACCACCATCA
13650124 CCATCATCAC
Statistics
Matches: 53, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
35 1 0.02
36 19 0.36
37 1 0.02
38 1 0.02
39 31 0.58
ACGTcount: A:0.28, C:0.46, G:0.07, T:0.19
Consensus pattern (36 bp):
CTGCCCTCTCCACCACCACCACCATCATACAAAAAG
Found at i:13650100 original size:39 final size:39
Alignment explanation
Indices: 13650048--13650124 Score: 118
Period size: 39 Copynumber: 2.0 Consensus size: 39
13650038 TATCACCATC
* * *
13650048 ATACAAAAAGCTGCCCTCTCCATCATCACCGCCATCACT
1 ATACAAAAAGCTGCCCTCTCCACCACCACCACCATCACT
*
13650087 ATACAATAAGCTGCCCTCTCCACCACCACCACCATCAC
1 ATACAAAAAGCTGCCCTCTCCACCACCACCACCATCAC
13650125 CATCATCACC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.31, C:0.44, G:0.06, T:0.18
Consensus pattern (39 bp):
ATACAAAAAGCTGCCCTCTCCACCACCACCACCATCACT
Found at i:13654670 original size:2 final size:2
Alignment explanation
Indices: 13654663--13654687 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13654653 AGTTCTAATT
13654663 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
13654688 AAAAAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:13655823 original size:24 final size:24
Alignment explanation
Indices: 13655796--13655844 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
13655786 GTCAGCTTTT
13655796 AAGATTAGTATAATAGTAACTCTA
1 AAGATTAGTATAATAGTAACTCTA
13655820 AAGATTAGTATAATAGTAACTCTA
1 AAGATTAGTATAATAGTAACTCTA
13655844 A
1 A
13655845 CCCTCAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.47, C:0.08, G:0.12, T:0.33
Consensus pattern (24 bp):
AAGATTAGTATAATAGTAACTCTA
Found at i:13655856 original size:80 final size:80
Alignment explanation
Indices: 13655740--13655900 Score: 295
Period size: 80 Copynumber: 2.0 Consensus size: 80
13655730 GTTAACTTTT
* *
13655740 AAGATTAGTATAATAGTAACTCTAACCCTCAATATTTATTTAATTTGTCAGCTTTTAAGATTAGT
1 AAGATTAGTATAATAGTAACTCTAACCCTCAATATTTATTTAACTTGTCAACTTTTAAGATTAGT
*
13655805 ATAATAGTAACTCTA
66 ATAATACTAACTCTA
13655820 AAGATTAGTATAATAGTAACTCTAACCCTCAATATTTATTTAACTTGTCAACTTTTAAGATTAGT
1 AAGATTAGTATAATAGTAACTCTAACCCTCAATATTTATTTAACTTGTCAACTTTTAAGATTAGT
13655885 ATAATACTAACTCTA
66 ATAATACTAACTCTA
13655900 A
1 A
13655901 CTCTCAACAT
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 78 1.00
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.39
Consensus pattern (80 bp):
AAGATTAGTATAATAGTAACTCTAACCCTCAATATTTATTTAACTTGTCAACTTTTAAGATTAGT
ATAATACTAACTCTA
Found at i:13662591 original size:22 final size:22
Alignment explanation
Indices: 13662563--13662607 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
13662553 AGGGGGAGTG
13662563 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
13662585 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
13662607 T
1 T
13662608 TTATTAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:13665546 original size:8 final size:8
Alignment explanation
Indices: 13665533--13665600 Score: 50
Period size: 8 Copynumber: 8.1 Consensus size: 8
13665523 AGACTAAATA
13665533 AAATAATT
1 AAATAATT
13665541 AAATAATT
1 AAATAATT
13665549 AAATATCTTATT
1 AAATA----ATT
13665561 AAA-ATATT
1 AAATA-ATT
*
13665569 AAATAAAT
1 AAATAATT
13665577 -AATAATT
1 AAATAATT
**
13665584 ATCTAATT
1 AAATAATT
13665592 AAATAATT
1 AAATAATT
13665600 A
1 A
13665601 TAAAATATCA
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
7 6 0.12
8 34 0.71
9 1 0.02
11 1 0.02
12 6 0.12
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (8 bp):
AAATAATT
Found at i:13665591 original size:43 final size:39
Alignment explanation
Indices: 13665527--13665608 Score: 101
Period size: 43 Copynumber: 2.0 Consensus size: 39
13665517 ATATATAGAC
*
13665527 TAAATAAAATAATTAAATAATTAAATATCTTATTAAAATAT
1 TAAATAAAATAATTAAATAATTAAATA-ATTA-TAAAATAT
**
13665568 TAAATAAATAATAATTATCTAATTAAATAATTATAAAATAT
1 TAAAT-AA-AATAATTAAATAATTAAATAATTATAAAATAT
13665609 CACCAACATC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
41 13 0.36
42 5 0.14
43 18 0.50
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (39 bp):
TAAATAAAATAATTAAATAATTAAATAATTATAAAATAT
Found at i:13672454 original size:14 final size:14
Alignment explanation
Indices: 13672435--13672469 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
13672425 TGACATTTTT
*
13672435 TTCTAATGATACAA
1 TTCTAACGATACAA
*
13672449 TTCTAACGATACTA
1 TTCTAACGATACAA
13672463 TTCTAAC
1 TTCTAAC
13672470 ATGTAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.37, C:0.20, G:0.06, T:0.37
Consensus pattern (14 bp):
TTCTAACGATACAA
Found at i:13673264 original size:8 final size:8
Alignment explanation
Indices: 13673251--13673282 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
13673241 AGATTAATTG
13673251 CAACATTA
1 CAACATTA
13673259 CAACATTA
1 CAACATTA
*
13673267 CAATATTA
1 CAACATTA
13673275 CAACATTA
1 CAACATTA
13673283 AAACTTCGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.50, C:0.22, G:0.00, T:0.28
Consensus pattern (8 bp):
CAACATTA
Found at i:13673377 original size:62 final size:62
Alignment explanation
Indices: 13673298--13673422 Score: 205
Period size: 62 Copynumber: 2.0 Consensus size: 62
13673288 TCGAACAAAC
* * *
13673298 TTTGTAATATAAATTAAATACATTATAACATTAAAACTTGGAATAAACTTCGTAATATAAAT
1 TTTGCAATATAAATTAAATACATTACAACATTAAAACTTGGAACAAACTTCGTAATATAAAT
* *
13673360 TTTGCAATATAAATTAAATATATTACAACATTAAAACTTGGAACAAACTTTGTAATATAAAT
1 TTTGCAATATAAATTAAATACATTACAACATTAAAACTTGGAACAAACTTCGTAATATAAAT
13673422 T
1 T
13673423 AGATACATTG
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 58 1.00
ACGTcount: A:0.48, C:0.09, G:0.06, T:0.37
Consensus pattern (62 bp):
TTTGCAATATAAATTAAATACATTACAACATTAAAACTTGGAACAAACTTCGTAATATAAAT
Found at i:13677256 original size:18 final size:19
Alignment explanation
Indices: 13677233--13677279 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 19
13677223 TAAAATTACA
*
13677233 TTTTCTTTCTTTCT-TCTC
1 TTTTCTTTCTTTCTCCCTC
13677251 TTTTCTTTC-TTCTCCCTC
1 TTTTCTTTCTTTCTCCCTC
*
13677269 TCTTCTTTCTT
1 TTTTCTTTCTT
13677280 ATGTTCTGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 4 0.16
18 20 0.80
19 1 0.04
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTTCTTTCTTTCTCCCTC
Found at i:13677257 original size:14 final size:14
Alignment explanation
Indices: 13677238--13677264 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13677228 TTACATTTTC
13677238 TTTCTTTCTTCTCT
1 TTTCTTTCTTCTCT
13677252 TTTCTTTCTTCTC
1 TTTCTTTCTTCTC
13677265 CCTCTCTTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTCTTTCTTCTCT
Done.