Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 12 of 322
Found at i:3214014 original size:20 final size:20
Alignment explanation
Indices: 3213966--3214013 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
3213956 TTATAAATAA
*
3213966 TTTGAATTTT-AAAATTTAT
1 TTTGAATTTTGGAAATTTAT
3213985 TTTGAATTTTGGAAATTT-T
1 TTTGAATTTTGGAAATTTAT
*
3214004 TTTTAATTTT
1 TTTGAATTTT
3214014 TTTTGTAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.62
Consensus pattern (20 bp):
TTTGAATTTTGGAAATTTAT
Found at i:3214207 original size:18 final size:18
Alignment explanation
Indices: 3214186--3214222 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
3214176 AAATAATTTG
* *
3214186 AATAACTCGATTTGATTA
1 AATAACTCAATTTAATTA
3214204 AATAACTCAATTTAATTA
1 AATAACTCAATTTAATTA
3214222 A
1 A
3214223 CTCAAAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.11, G:0.05, T:0.38
Consensus pattern (18 bp):
AATAACTCAATTTAATTA
Found at i:3218018 original size:25 final size:23
Alignment explanation
Indices: 3217961--3218018 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 23
3217951 GATGATTCCT
*
3217961 AAAATAATTTAAAAAATAAAACA
1 AAAATAATTAAAAAAATAAAACA
3217984 ACTAAATAATTAAAAAAATAAAACTA
1 A--AAATAATTAAAAAAATAAAAC-A
3218010 AAAAGTAAT
1 AAAA-TAAT
3218019 ATCTTTGCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
23 1 0.03
24 3 0.10
25 24 0.80
26 2 0.07
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.22
Consensus pattern (23 bp):
AAAATAATTAAAAAAATAAAACA
Found at i:3218913 original size:18 final size:19
Alignment explanation
Indices: 3218879--3218914 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
3218869 ATGATATTAA
3218879 TGATATACCTAAAAGGTAG
1 TGATATACCTAAAAGGTAG
3218898 TGATATACCT-AAAGGTA
1 TGATATACCTAAAAGGTA
3218915 TGAAAACAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.42, C:0.11, G:0.19, T:0.28
Consensus pattern (19 bp):
TGATATACCTAAAAGGTAG
Found at i:3223681 original size:13 final size:13
Alignment explanation
Indices: 3223663--3223720 Score: 50
Period size: 13 Copynumber: 4.5 Consensus size: 13
3223653 TCGCGAAGAG
3223663 AAAGAAAAAAATA
1 AAAGAAAAAAATA
* *
3223676 AAAG-AAAATACA
1 AAAGAAAAAAATA
3223688 AAAGAAAAAAACTA
1 AAAGAAAAAAA-TA
3223702 AATA-AAAATAAA-A
1 AA-AGAAAA-AAATA
3223715 AAAGAA
1 AAAGAA
3223721 CCAAGAACAC
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
12 11 0.31
13 14 0.39
14 7 0.19
15 4 0.11
ACGTcount: A:0.81, C:0.03, G:0.07, T:0.09
Consensus pattern (13 bp):
AAAGAAAAAAATA
Found at i:3223697 original size:25 final size:26
Alignment explanation
Indices: 3223663--3223716 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
3223653 TCGCGAAGAG
*
3223663 AAAGAAAAAAA-TAAA-AGAAAATACA
1 AAAGAAAAAAACTAAATA-AAAATAAA
3223688 AAAGAAAAAAACTAAATAAAAATAAA
1 AAAGAAAAAAACTAAATAAAAATAAA
3223714 AAA
1 AAA
3223717 AGAACCAAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 11 0.42
26 14 0.54
27 1 0.04
ACGTcount: A:0.81, C:0.04, G:0.06, T:0.09
Consensus pattern (26 bp):
AAAGAAAAAAACTAAATAAAAATAAA
Found at i:3223698 original size:20 final size:19
Alignment explanation
Indices: 3223675--3223720 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
3223665 AGAAAAAAAT
3223675 AAAAGAAAATACAAAAGAAA
1 AAAAGAAAATA-AAAAGAAA
** *
3223695 AAAACTAAATAAAAATAAA
1 AAAAGAAAATAAAAAGAAA
3223714 AAAAGAA
1 AAAAGAA
3223721 CCAAGAACAC
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.80, C:0.04, G:0.07, T:0.09
Consensus pattern (19 bp):
AAAAGAAAATAAAAAGAAA
Found at i:3224045 original size:22 final size:22
Alignment explanation
Indices: 3223993--3224045 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
3223983 GGTGTCAGAC
*
3223993 GGTATGGGACTGTTGTAGTGGA
1 GGTATGGGGCTGTTGTAGTGGA
*
3224015 GGTATGGGGCTGTTGTAGTGGG
1 GGTATGGGGCTGTTGTAGTGGA
3224037 GGTATGGGG
1 GGTATGGGG
3224046 TTTGGTATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.13, C:0.04, G:0.53, T:0.30
Consensus pattern (22 bp):
GGTATGGGGCTGTTGTAGTGGA
Found at i:3234259 original size:38 final size:37
Alignment explanation
Indices: 3234175--3234269 Score: 97
Period size: 38 Copynumber: 2.5 Consensus size: 37
3234165 TATACGTACT
*
3234175 TATACATACTTAAATATATTTTTCATATTTCATAATTC
1 TATACATACTTAAATATATTTTGCATATTT-ATAATTC
* *
3234213 T-TATATACTTACATATATTTATGCATATTT-TACA-TC
1 TATACATACTTAAATATATTT-TGCATATTTATA-ATTC
*
3234249 ATATACATACTTATATATATT
1 -TATACATACTTAAATATATT
3234270 CTTTATATTC
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
36 4 0.08
37 19 0.40
38 25 0.52
ACGTcount: A:0.37, C:0.13, G:0.01, T:0.49
Consensus pattern (37 bp):
TATACATACTTAAATATATTTTGCATATTTATAATTC
Found at i:3241201 original size:86 final size:86
Alignment explanation
Indices: 3241056--3242007 Score: 1769
Period size: 86 Copynumber: 11.1 Consensus size: 86
3241046 AGTAAAAATT
* * * * * * * *
3241056 GAAGATAAACCTTGCCTCTCTTGGTCGTAGCAGAGCTGGTTGAAGTTATCAGATCTTGCCTTCCT
1 GAAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
3241121 GCATTGACAGCGAAGCAGATC
66 GCATTGACAGCGAAGCAGATC
3241142 GAAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
1 GAAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
3241207 GCATTGACAGCGAAGCAGATC
66 GCATTGACAGCGAAGCAGATC
3241228 GAAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
1 GAAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
3241293 GCATTGACAGCGAAGCAGATC
66 GCATTGACAGCGAAGCAGATC
3241314 GAAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
1 GAAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
3241379 GCATTGACAGCGAAGCAGATC
66 GCATTGACAGCGAAGCAGATC
3241400 GAAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
1 GAAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
3241465 GCATTGACAGCGAAGCAGATC
66 GCATTGACAGCGAAGCAGATC
3241486 GAAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
1 GAAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
3241551 GCATTGACAGCGAAGCAGATC
66 GCATTGACAGCGAAGCAGATC
3241572 GAAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
1 GAAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
3241637 GCATTGACAGCGAAGCAGATC
66 GCATTGACAGCGAAGCAGATC
3241658 GAAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
1 GAAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
3241723 GCATTGACAGCGAAGCAGATC
66 GCATTGACAGCGAAGCAGATC
3241744 GAAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
1 GAAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
3241809 GCATTGACAGCGAAGCAGATC
66 GCATTGACAGCGAAGCAGATC
3241830 GAAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
1 GAAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
3241895 GCATTGACAGCGAAGCAGATC
66 GCATTGACAGCGAAGCAGATC
* * * *
3241916 GAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATATCAGATCTTGCTTTCCT
1 GAAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
* *
3241981 GTATTTGGCAGCGAAGCAGATC
66 GCA-TTGACAGCGAAGCAGATC
3242003 GAAGA
1 GAAGA
3242008 TGGCAGATTT
Statistics
Matches: 851, Mismatches: 14, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
86 829 0.97
87 22 0.03
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.26
Consensus pattern (86 bp):
GAAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
GCATTGACAGCGAAGCAGATC
Found at i:3242599 original size:176 final size:178
Alignment explanation
Indices: 3242100--3242738 Score: 675
Period size: 176 Copynumber: 3.6 Consensus size: 178
3242090 ATTGAAGATT
* * * * * * ***
3242100 GCAGATCTTGTCTTCCCATATTGGTGGCGAAATAGATCGAAGAAAGTAGATCTTGTCTTCATGTA
1 GCAGATCCTATCTTCCCATATTGGTAGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCCCATA
* * * * *** *
3242165 TTGG-CGTGAAGTAGATCAAAG-ATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGC
66 TTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG-CGCGAAGTAGATCGC
* * *
3242228 AGAAAGCAGATATTGTCTTCATGTATTTGCGTGAAGAAGATCGAAGGTA
130 AGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTA
* * * *
3242277 GCAGATCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAG-ATGCAGATCTTATCTTTCCATA
1 GCAGATCCTATCTTCCCATATTGGTAGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCCCATA
* *
3242340 TTGGTGGCGAAGTAGATCGAAGAAATCAGATCTTGTCTTCATGTATTAGCGCGAAGTAGATCGCA
66 TTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGCGAAGTAGATCGCA
*
3242405 GAAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTA
131 GAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTA
* * * *
3242453 GCAGATCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAG-ATGCAGATCTTGTCTTCCCATA
1 GCAGATCCTATCTTCCCATATTGGTAGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCCCATA
* * *
3242516 TTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAA
66 TTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGCGAAGTAGATCGCA
* * * * * * * * *
3242581 GATAGCAGGTCCTGTCTTCCTATATTGGTAG-GAAGTGGATCGACGAT-
131 GAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGGTA
* * * * * ***
3242628 GCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTATCTTCATGTA
1 GCAGATCCTATCTTCCCATATTGGTAGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCCCATA
* * * ** * *
3242693 TTGG-CGTGAAGTAGGTCGAAGATTGCAGATCTTGCCTTCCTGTATT
66 TTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATT
3242739 TGGCAGTGGA
Statistics
Matches: 393, Mismatches: 64, Indels: 11
0.84 0.14 0.02
Matches are distributed among these distances:
175 41 0.10
176 287 0.73
177 65 0.17
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (178 bp):
GCAGATCCTATCTTCCCATATTGGTAGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCCCATA
TTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGCGAAGTAGATCGCA
GAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTA
Found at i:3242690 original size:308 final size:308
Alignment explanation
Indices: 3242172--3242738 Score: 918
Period size: 308 Copynumber: 1.8 Consensus size: 308
3242162 GTATTGGCGT
3242172 GAAGTAGATCAAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAG
1 GAAGTAGATCAAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAG
* *
3242237 ATATTGTCTTCATGTATTTGCGTGAAGAAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGT
66 ATATTGTCTTCATGTATTGGCGTGAAGAAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGT
* * *
3242302 AGGAAGTGGATCGAAGATGCAGATCTTATCTTTCCATATTGGTGGCGAAGTAGATCGAAGAAATC
131 AGGAAGTGGATCGAAGATGCAGATCTTATCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGC
* * * *
3242367 AGATCTTGTCTTCATGTATTAGCGCGAAGTAGATCGCAGAAAGTAGATCTTGTCTTCATGTATTG
196 AGATCTTATCTTCATGTATTAGCGCGAAGTAGATCGAAGAAAGCAGATCTTGCCTTCATGTATTG
3242432 GCGTGAAGTAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAG
261 GCGTGAAGTAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAG
* *
3242480 GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAG
1 GAAGTAGATCAAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAG
* * * *
3242545 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGT
66 ATATTGTCTTCATGTATTGGCGTGAAGAAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGT
* * *
3242610 AGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGCAGAAAGC
131 AGGAAGTGGATCGAAGATGCAGATCTTATCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGC
* * * ** *
3242675 AGATCTTATCTTCATGTATTGGCGTGAAGTAGGTCGAAGATTGCAGATCTTGCCTTCCTGTATT
196 AGATCTTATCTTCATGTATTAGCGCGAAGTAGATCGAAGAAAGCAGATCTTGCCTTCATGTATT
3242739 TGGCAGTGGA
Statistics
Matches: 235, Mismatches: 24, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
308 235 1.00
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (308 bp):
GAAGTAGATCAAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAG
ATATTGTCTTCATGTATTGGCGTGAAGAAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGT
AGGAAGTGGATCGAAGATGCAGATCTTATCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGC
AGATCTTATCTTCATGTATTAGCGCGAAGTAGATCGAAGAAAGCAGATCTTGCCTTCATGTATTG
GCGTGAAGTAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAG
Found at i:3242732 original size:132 final size:134
Alignment explanation
Indices: 3242087--3242738 Score: 752
Period size: 132 Copynumber: 4.9 Consensus size: 134
3242077 GGCAGTGGAA
* * * * *
3242087 TAGATTGAAGATTGCAGATCTTGTCTTCCCATATTGGTGGCGAAATAGATCGAAGAAAGTAGATC
1 TAGATCGAAGAATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATC
* * *
3242152 TTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGA-TGCAGATCTTGTCTTCCCATATTGGTGGC
66 TTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATTGCAGATCTTGTCTTCCTATATTGGTAGC
3242216 GAAG
131 GAAG
* * * *** * * * **
3242220 TAGATCGCAGAAAGCAGATATTGTCTTCATGTATT--TGCGTGAAGAAGATCGAAGGTAGCAGAT
1 TAGATCGAAGAATGCAGATCTTGTCTTCCCATATTGGTG-GCGAAGTAGATCGCAGAAAGCAGAT
* * * * * * *
3242283 CCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAGA-TGCAGATCTTATCTTTCC-ATATTGGT
65 CTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATTGCAGATCTTGTC-TTCCTATATTGGT
*
3242345 GGCGAAG
128 AGCGAAG
*** * * *
3242352 TAGATCGAAGAAAT-CAGATCTTGTCTTCATGTATTAG-CGCGAAGTAGATCGCAGAAAGTAGAT
1 TAGATCGAAG-AATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGAT
* * * *
3242415 CTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAG
65 CTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATTGCAGATCTTGTCTTCCTATATTGGTAG
3242480 -GAAG
130 CGAAG
*
3242484 TGGATCGAAG-ATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATC
1 TAGATCGAAGAATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATC
* * *
3242548 TTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAG-
66 TTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATTGCAGATCTTGTCTTCCTATATTGGTAGC
3242612 GAAG
131 GAAG
* * *
3242616 TGGATCGACG-ATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGCAGAAAGCAGATC
1 TAGATCGAAGAATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATC
* * * *
3242680 TTATCTTCATGTATTGGCGTGAAGTAGGTCGAAGATTGCAGATCTTGCCTTCCTGTATT
66 TTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATTGCAGATCTTGTCTTCCTATATT
3242739 TGGCAGTGGA
Statistics
Matches: 447, Mismatches: 61, Indels: 23
0.84 0.11 0.04
Matches are distributed among these distances:
130 2 0.00
131 22 0.05
132 369 0.83
133 54 0.12
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (134 bp):
TAGATCGAAGAATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATC
TTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATTGCAGATCTTGTCTTCCTATATTGGTAGC
GAAG
Found at i:3242903 original size:143 final size:134
Alignment explanation
Indices: 3242711--3242985 Score: 345
Period size: 134 Copynumber: 2.0 Consensus size: 134
3242701 AAGTAGGTCG
* * *
3242711 AAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGTGGAATAGATTGAAGATCAAAGATGGCAGAT
1 AAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGTCG---A-A---CAGATCGAAGATGGCAGAT
* * *
3242776 TTTACCTCCATGTGACCACATTGGAGTACATTGAAGCCGATAACTCTATCTCCATGTATTTGGCA
59 TTTACCTCC--CTGACCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCATGTATTTGACA
*
3242841 GTGGAATAGATTA
122 GCGGAATAGATTA
* *
3242854 AAGATTGCAGATCTTGGCTTCTTGTATTTGGCAG-CGAAGCAGATCGAAGATGGCAGATTTTACC
1 AAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGTCGAA-CAGATCGAAGATGGCAGATTTTACC
* * *
3242918 TCCCTGACTACAGTGGAGTACATTGAAGCTGATAACTCTATCTCCCTGTATTTGACAGCGGAATA
65 TCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCATGTATTTGACAGCGGAATA
3242983 GAT
130 GAT
3242986 CGAAGATTAC
Statistics
Matches: 120, Mismatches: 12, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
134 58 0.48
136 27 0.22
138 1 0.01
139 1 0.01
142 1 0.01
143 32 0.27
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (134 bp):
AAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGTCGAACAGATCGAAGATGGCAGATTTTACCT
CCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCATGTATTTGACAGCGGAATAG
ATTA
Found at i:3243099 original size:40 final size:42
Alignment explanation
Indices: 3242994--3243108 Score: 155
Period size: 42 Copynumber: 2.8 Consensus size: 42
3242984 ATCGAAGATT
*
3242994 ACAGTCTTATCTCCCTAAGTAGTAGCGGAGCA-GACGAAACC
1 ACAGTCTTATCTCCCTAAGTAGTAGTGGAGCAGGACGAAACC
* * *
3243035 ACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGGTC-ACATC
1 ACAG-TCTTATCTCCCTAAGTAGTAGTGGAGCAGGACGAAACC
*
3243077 -CAGTCTTATCTCCCTAAATAGTAGTGGAGCAG
1 ACAGTCTTATCTCCCTAAGTAGTAGTGGAGCAG
3243109 ACTAAAAACA
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
40 28 0.42
41 7 0.10
42 30 0.45
43 2 0.03
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (42 bp):
ACAGTCTTATCTCCCTAAGTAGTAGTGGAGCAGGACGAAACC
Found at i:3244473 original size:302 final size:293
Alignment explanation
Indices: 3243936--3244530 Score: 1064
Period size: 302 Copynumber: 2.0 Consensus size: 293
3243926 ATAAAAAAAA
3243936 TAAAATAAAAATTTTGAAAATTTTACCTCTCCGACCACCGTGTACGGCGGCCGGCGCCGGCGATC
1 TAAAATAAAAATTTTGAAAATTTTACCTCTCCGACCACCGTGTACGGCGGCCGGCGCCGGCGATC
3244001 GGACCGACGTCCCTCCCCTGGCCGGAAATCACTCCGTGCCCTCCCTCTCCCTCTTTCTTTTTTTT
66 GGACCGACGTCCCTCCCCTGGCCGGAAATCACTCCGTGCCCTCCCTCTCCCTCTTTCTTTTTTTT
3244066 TTCCCTCACCTGGTCTCAAATGAATTTTTTCAAAAAAAACTTAGCTTTTATAGGGGACCAAAACG
131 TTCCCTCACCTGGTCTCAAATGAATTTTTTCAAAAAAAACTTAGCTTTTATAGGGGACCAAAACG
3244131 CACCGTTTTGGTCCCCATGTTTAATGATAAAACGACGTCGTTTCGGACGTGGGGCGGGTCGACCC
196 CACCGTTTTGGTCCCCATGTTTAATGATAAAACGACGTCGTTTCGGACGTGGGGCGGGTCGACCC
3244196 GACCCGCACCAGGGCAGGATCCGCGTGTTTTTG
261 GACCCGCACCAGGGCAGGATCCGCGTGTTTTTG
*
3244229 TAAAATAAAAATTTTGAAAATTTTACCTCTCCGACCGCCGTGTACGGCGGCCGGCGGCCGGCGCC
1 TAAAATAAAAATTTTGAAAATTTTACCTCTCCGACCACCGTGTACGGCGGCCGGC-GCC-G-G-C
*
3244294 GGCAATCGGACCGACGTCCCTCCCCTGGCCGGAAATCGCTCCGTGCCCTCCCTCTCCCTCTTTCT
62 -G--ATCGGACCGACGTCCCTCCCCTGGCCGGAAATCACTCCGTGCCCTCCCTCTCCCTCTTTC-
3244359 TTTTTTTTTTTCCCTCACCTGGTCTCAAATGAATTTTTTCAAAAAAAACTTAGCTTTTATAGGGG
123 -TTTTTTTTTTCCCTCACCTGGTCTCAAATGAATTTTTTCAAAAAAAACTTAGCTTTTATAGGGG
* * *
3244424 ATCAAAACGCACCGTTTTGGTCCCCCTGTTTAATGATAAAACGACGTCGTTTTGGACGTGGGGCG
187 ACCAAAACGCACCGTTTTGGTCCCCATGTTTAATGATAAAACGACGTCGTTTCGGACGTGGGGCG
3244489 GGTCGACCCGACCCGCACCAGGGCAGGATCCGCGTGTTTTTG
252 GGTCGACCCGACCCGCACCAGGGCAGGATCCGCGTGTTTTTG
3244531 AGCGGAAGGG
Statistics
Matches: 288, Mismatches: 5, Indels: 9
0.95 0.02 0.03
Matches are distributed among these distances:
293 54 0.19
294 3 0.01
295 1 0.00
296 1 0.00
297 1 0.00
298 1 0.00
300 59 0.20
302 168 0.58
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.28
Consensus pattern (293 bp):
TAAAATAAAAATTTTGAAAATTTTACCTCTCCGACCACCGTGTACGGCGGCCGGCGCCGGCGATC
GGACCGACGTCCCTCCCCTGGCCGGAAATCACTCCGTGCCCTCCCTCTCCCTCTTTCTTTTTTTT
TTCCCTCACCTGGTCTCAAATGAATTTTTTCAAAAAAAACTTAGCTTTTATAGGGGACCAAAACG
CACCGTTTTGGTCCCCATGTTTAATGATAAAACGACGTCGTTTCGGACGTGGGGCGGGTCGACCC
GACCCGCACCAGGGCAGGATCCGCGTGTTTTTG
Found at i:3247512 original size:70 final size:70
Alignment explanation
Indices: 3247425--3247564 Score: 226
Period size: 70 Copynumber: 2.0 Consensus size: 70
3247415 GAGATCATCA
3247425 CAATTTGTGAGGCAAAGGACTTTGAGCAATCTCAAAATTTTCATCTTTAAGAAGGCATCATCGTT
1 CAATTTGTGAGGCAAAGGACTTTGAGCAATCTCAAAATTTTCATCTTTAAGAAGGCATCATCGTT
3247490 CAAAT
66 CAAAT
* * ** * *
3247495 CAATTTGTGGGGTAAAGGACTTTGAGCAATCTCAACTTTTTCATCTTTGAGAAGGTATCATCGTT
1 CAATTTGTGAGGCAAAGGACTTTGAGCAATCTCAAAATTTTCATCTTTAAGAAGGCATCATCGTT
3247560 CAAAT
66 CAAAT
3247565 TAAATGTCTT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
70 64 1.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (70 bp):
CAATTTGTGAGGCAAAGGACTTTGAGCAATCTCAAAATTTTCATCTTTAAGAAGGCATCATCGTT
CAAAT
Found at i:3247877 original size:169 final size:164
Alignment explanation
Indices: 3247676--3247985 Score: 455
Period size: 168 Copynumber: 1.8 Consensus size: 164
3247666 TTCTTTTAAG
*
3247676 TATCTTATATGGTACTTGTATCTAATGTATATCTAAATATGAGCGTTGAGATATCACCCTTCAAG
1 TATCTTATAAGGTACTTGTATCTAATGTATATCTAAATATGAGC------ATATCACCCTTCAAG
*
3247741 AACTCTTTAATACGT-GAAAAGACCTTTTG-AAAAA-AAATATACTCATTCAAACACATACTCAT
60 AACTCTTTAATACATGGAAAA-ACCTTTTGAAAAAATAAATATACTCATTCAAACACATACTCAT
*
3247803 ATCTAATACGCACATCCAACTTTGAATTATCTATGCCTAAA
124 ATCCAATACGCACATCCAACTTTGAATTATCTATGCCTAAA
* *
3247844 TATCTTTATAAGGTACTTGTATTTAATGTATATCTAAATATGAGCATATGACCCTTCAAGAACTC
1 TATC-TTATAAGGTACTTGTATCTAATGTATATCTAAATATGAGCATATCACCCTTCAAGAACTC
3247909 TTTAATACATGGAAAAACCTTTTGAAAAAAAGTTAAATATACTCATTCAAACACATACTCATATC
65 TTTAATACATGGAAAAACCTTTTG-AAAAAA--TAAATATACTCATTCAAACACATACTCATATC
3247974 CAATACGCACAT
127 CAATACGCACAT
3247986 GCATCCAACT
Statistics
Matches: 130, Mismatches: 5, Indels: 14
0.87 0.03 0.09
Matches are distributed among these distances:
163 36 0.28
164 5 0.04
165 5 0.04
168 46 0.35
169 38 0.29
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (164 bp):
TATCTTATAAGGTACTTGTATCTAATGTATATCTAAATATGAGCATATCACCCTTCAAGAACTCT
TTAATACATGGAAAAACCTTTTGAAAAAATAAATATACTCATTCAAACACATACTCATATCCAAT
ACGCACATCCAACTTTGAATTATCTATGCCTAAA
Found at i:3251491 original size:74 final size:74
Alignment explanation
Indices: 3251306--3251935 Score: 879
Period size: 75 Copynumber: 8.5 Consensus size: 74
3251296 ATGTCTTGAA
* * * * * * * *
3251306 GCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTGACAACACAATTTGAAATTACCTCAGCA
1 GCTCACCTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAATAGAAATTAAAATTACCTCAGC-
**
3251371 TGTGAACCGAG
65 -GTGTCCCGAG
* * **
3251382 GCTCAACTCACCTCTCGCAATATGAGTT-A-ATTTTTGAAAATAGAAATTGAAAA-TACCTCAAT
1 GCTCACCTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAATAGAAATT-AAAATTACCTCAGC
**
3251444 GTGTCTTGAG
65 GTGTCCCGAG
* ** * *
3251454 GCTCAACTCATTTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAAATTAAAATTACCTCAGCG
1 GCTCACCTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAATAGAAATTAAAATTACCTCAGCG
3251519 TGTCCCGAG
66 TGTCCCGAG
** * *
3251528 GCTCAATTCATCTCTCGCAATATGAGTTGATTTTTTTTGAAAATAGAAAGTAAAATTACCTCAGC
1 GCTCACCTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAATAGAAATTAAAATTACCTCAGC
3251593 GTGTCCCGAG
65 GTGTCCCGAG
*
3251603 GCTCACCTCACCTCTCGCAATATGAGTTGGTTTTTTTGAAAATAGAAATTAAAATTACCTCAGCG
1 GCTCACCTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAATAGAAATTAAAATTACCTCAGCG
3251668 TGTCCCGAG
66 TGTCCCGAG
* *
3251677 GCTCACCTCACCTCTCGCAATATGAGTTGATTTTTTTGGAAAATAGAAAGTAAAATTCCCTCAGC
1 GCTCACCTCACCTCTCGCAATATGAGTTGATTTTTTT-GAAAATAGAAATTAAAATTACCTCAGC
3251742 GTGTCCCGAG
65 GTGTCCCGAG
* *
3251752 GCTCACCTCACCTCTCGCAATATGAGTTGATTTTTTTGGAAAATAGAAAGTAAAATTCCCTCAGC
1 GCTCACCTCACCTCTCGCAATATGAGTTGATTTTTTT-GAAAATAGAAATTAAAATTACCTCAGC
3251817 GTGTCCCGAG
65 GTGTCCCGAG
* *
3251827 GCTCACCTCACCTCTCGCAATATGAGTTGATTTTTTTGGAAAATAGAAAGTAAAATTCCCTCAGC
1 GCTCACCTCACCTCTCGCAATATGAGTTGATTTTTTT-GAAAATAGAAATTAAAATTACCTCAGC
3251892 GTGTCCCGAG
65 GTGTCCCGAG
*
3251902 GCTCACCTCACCTCTCGCAATATGAGGTGATTTT
1 GCTCACCTCACCTCTCGCAATATGAGTTGATTTT
3251936 GAAAAACAAA
Statistics
Matches: 511, Mismatches: 37, Indels: 13
0.91 0.07 0.02
Matches are distributed among these distances:
72 31 0.06
73 5 0.01
74 159 0.31
75 290 0.57
76 26 0.05
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (74 bp):
GCTCACCTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAATAGAAATTAAAATTACCTCAGCG
TGTCCCGAG
Found at i:3251620 original size:149 final size:149
Alignment explanation
Indices: 3251306--3251935 Score: 908
Period size: 149 Copynumber: 4.2 Consensus size: 149
3251296 ATGTCTTGAA
* * * * * * *
3251306 GCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTGACAACACAATTTGAAATTACCTCAGCA
1 GCTCACCTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTAAAATTACCTCAGC-
** * *
3251371 TGTGAACCGAGGCTCAACTCACCTCTCGCAATATGAGTT-A-ATTTTT-GAAAATAGAAATTGAA
65 -GTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGGAAAATAGAAAGT-AA
** **
3251433 AA-TACCTCAATGTGTCTTGAG
128 AATTACCTCAGCGTGTCCCGAG
* ** *
3251454 GCTCAACTCATTTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAAATTAAAATTACCTCAGCG
1 GCTCACCTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTAAAATTACCTCAGCG
* * *
3251519 TGTCCCGAGGCTCAATTCATCTCTCGCAATATGAGTTGATTTTTTTTGAAAATAGAAAGTAAAAT
66 TGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGGAAAATAGAAAGTAAAAT
3251584 TACCTCAGCGTGTCCCGAG
131 TACCTCAGCGTGTCCCGAG
* *
3251603 GCTCACCTCACCTCTCGCAATATGAGTTGGTTTTTTTGAAAATAGAAATTAAAATTACCTCAGCG
1 GCTCACCTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTAAAATTACCTCAGCG
*
3251668 TGTCCCGAGGCTCACCTCACCTCTCGCAATATGAGTTGATTTTTTTGGAAAATAGAAAGTAAAAT
66 TGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGGAAAATAGAAAGTAAAAT
*
3251733 TCCCTCAGCGTGTCCCGAG
131 TACCTCAGCGTGTCCCGAG
* * *
3251752 GCTCACCTCACCTCTCGCAATATGAGTTGATTTTTTTGGAAAATAGAAAGTAAAATTCCCTCAGC
1 GCTCACCTCACCTCTCGCAATATGAGTTGATTTTTTT-GAAAACAGAAATTAAAATTACCTCAGC
*
3251817 GTGTCCCGAGGCTCACCTCACCTCTCGCAATATGAGTTGATTTTTTTGGAAAATAGAAAGTAAAA
65 GTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGGAAAATAGAAAGTAAAA
*
3251882 TTCCCTCAGCGTGTCCCGAG
130 TTACCTCAGCGTGTCCCGAG
*
3251902 GCTCACCTCACCTCTCGCAATATGAGGTGATTTT
1 GCTCACCTCACCTCTCGCAATATGAGTTGATTTT
3251936 GAAAAACAAA
Statistics
Matches: 443, Mismatches: 34, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
146 34 0.08
147 1 0.00
148 64 0.14
149 201 0.45
150 143 0.32
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (149 bp):
GCTCACCTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTAAAATTACCTCAGCG
TGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGGAAAATAGAAAGTAAAAT
TACCTCAGCGTGTCCCGAG
Found at i:3252153 original size:192 final size:192
Alignment explanation
Indices: 3251810--3252895 Score: 1992
Period size: 192 Copynumber: 5.6 Consensus size: 192
3251800 AGTAAAATTC
* * * *
3251810 CCTCAGCGTGTCCCGAGGCTCACCTCACCTCTCGCAATATGAGTTGATTTTTTTGGAAAATAGAA
1 CCTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTT---AAA-A-AA
** * * * ** * *
3251875 AGTAAAATTCCCTCAGCGTGTCCCGAGGCTCACCTCACCTCTCGCAATATGAGGTGATTTTGAAA
61 TTTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAA
3251940 AACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAA
126 AACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAA
3252005 TA
191 TA
3252007 CCTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAA
1 CCTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAA
3252072 AAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAA
66 AAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAA
3252137 AAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATA
131 AAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATA
3252199 CCTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAA
1 CCTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAA
3252264 AAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAA
66 AAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAA
3252329 AAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATA
131 AAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATA
3252391 CCTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAA
1 CCTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAA
3252456 AAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAA
66 AAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAA
3252521 AAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATA
131 AAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATA
3252583 CCTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAA
1 CCTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAA
3252648 AAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAA
66 AAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAA
3252713 AAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATA
131 AAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATA
3252775 CCTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAA
1 CCTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAA
**
3252840 AAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
66 AAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
3252896 CCTTGGAAAG
Statistics
Matches: 874, Mismatches: 15, Indels: 5
0.98 0.02 0.01
Matches are distributed among these distances:
192 820 0.94
193 1 0.00
194 3 0.00
197 50 0.06
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (192 bp):
CCTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAA
AAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAA
AAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATA
Found at i:3263325 original size:34 final size:35
Alignment explanation
Indices: 3263282--3263349 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 35
3263272 CGGTAACATA
* *
3263282 TTTTCTGTAAAATGATTT-TTGGAAAATGTTTTAC
1 TTTTCTGTAAAATGATTTACTGGAAAATATTTTAC
3263316 TTTTCTGTAAAATGATTTACTGGAAAATATTTTA
1 TTTTCTGTAAAATGATTTACTGGAAAATATTTTA
3263350 TGGTGTTTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 18 0.58
35 13 0.42
ACGTcount: A:0.32, C:0.06, G:0.13, T:0.49
Consensus pattern (35 bp):
TTTTCTGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:3276141 original size:22 final size:24
Alignment explanation
Indices: 3276087--3276141 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 24
3276077 TATATAACTG
3276087 ATAATAT-TA-AAATATATACATA
1 ATAATATATATAAATATATACATA
* *
3276109 ATATTATATATAAAT-TATTCAT-
1 ATAATATATATAAATATATACATA
3276131 ATAATATATAT
1 ATAATATATAT
3276142 TAAAAAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
22 16 0.57
23 8 0.29
24 4 0.14
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (24 bp):
ATAATATATATAAATATATACATA
Found at i:3283191 original size:5 final size:6
Alignment explanation
Indices: 3283176--3283200 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
3283166 TGAGGGAAGA
3283176 AAAAAG AAAAAG AAAAAG AAAAAG A
1 AAAAAG AAAAAG AAAAAG AAAAAG A
3283201 GCAGGAGAAG
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:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:3284403 original size:13 final size:12
Alignment explanation
Indices: 3284384--3284418 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
3284374 GTATATTTTA
3284384 AAAAAATAAAATT
1 AAAAAATAAAA-T
*
3284397 CAAAAATAAAAT
1 AAAAAATAAAAT
3284409 AAAAAATAAA
1 AAAAAATAAA
3284419 CGGCCAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 10 0.50
13 10 0.50
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (12 bp):
AAAAAATAAAAT
Found at i:3284547 original size:13 final size:12
Alignment explanation
Indices: 3284528--3284562 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
3284518 GTATATTTTA
3284528 AAAAAATAAAATT
1 AAAAAATAAAA-T
*
3284541 CAAAAATAAAAT
1 AAAAAATAAAAT
3284553 AAAAAATAAA
1 AAAAAATAAA
3284563 CGGCCAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 10 0.50
13 10 0.50
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (12 bp):
AAAAAATAAAAT
Found at i:3284725 original size:145 final size:144
Alignment explanation
Indices: 3283694--3284727 Score: 1376
Period size: 144 Copynumber: 7.2 Consensus size: 144
3283684 ATTAGAAAAT
3283694 AAAAAAA-GGCCAAAATCAGAGTTTTTTTACTAAATTAATATAAATAAACTAAAATAATACATAT
1 AAAAAAACGGCCAAAATCAGAG--TTTTTACTAAATTAATATAAA-AAACTAAAATAATACATAT
*
3283758 GAAACATTATGTACTAAAATAATA-AAAAAATAAAATACGAAAATAGTATATTTTGAAAAATAAA
63 GAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAA
3283822 ATCCG-----AAAATAA
128 ATCCGAAAATAAAATAA
* * *
3283834 AAAAAAACGGCCAAAATCATAATTTTTTACTAAATTAATATAAAAAAACTAAAATAATACATTTG
1 AAAAAAACGGCCAAAATCA-GAGTTTTTACTAAATTAATAT-AAAAAACTAAAATAATACATATG
3283899 AAACATTATGTACTAAAATAATATAAAAAAATAAAATACGAAAATAGTATATTTTAAAATAA-AA
64 AAACATTATGTACTAAAATAATAT-AAAAAATAAAATACGAAAATAGTATATTTTAAAA-AATAA
*
3283963 AATCCGAAAACAAAAT--
127 AATCCGAAAATAAAATAA
* * *
3283979 AAAAAAA-GGCCAAAACCACATATTTTTACTAAATTAATATAAAAAAACTAAAATAATAC--ATG
1 AAAAAAACGGCCAAAATCAGA-GTTTTTACTAAATTAATAT-AAAAAACTAAAATAATACATATG
* * *
3284041 AAACATTATGTACTAAAATAATATAAAAAACAAAATACGAAAATAATATATCTTAAAAAATAAAA
64 AAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAA
3284106 -CCTGAAAAT-AAA-AA
129 TCC-GAAAATAAAATAA
* * * * *
3284120 TAAAAAA-GGCTAAAATCAGAGTTTTTTTTCTAAATTAATATAAAAAACTAAAATAATACATTTA
1 AAAAAAACGGCCAAAATCAGAG--TTTTTACTAAATTAATATAAAAAACTAAAATAATACATATG
* *
3284184 AAACATTATATACTAAAATAATATAAAAAAATAAGATACGAAAATAGTATATTTTAAAAAATAAA
64 AAACATTATGTACTAAAATAATAT-AAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAA
*
3284249 ATCAGAAAATAAAAT-A
128 ATCCGAAAATAAAATAA
* *
3284265 AATAAAACGGCCAAAATCACAGATTTTTACTAAATTAATATAGAAAAAACTAAAATAATA-A-AT
1 AAAAAAACGGCCAAAATCAGAG-TTTTTACTAAATTAATAT--AAAAAACTAAAATAATACATAT
*
3284328 GAAACATTATGTACTATAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAAATAA
63 GAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTT-AAAAAATAA
* *
3284393 AATTCAAAAATAAAATAA
127 AATCCGAAAATAAAATAA
*
3284411 AAAATAAACGGCCAAAATCAGAGTTTTTATTAAATTAATATAAAAAACTAAAATAATA-A-ATGA
1 AAAA-AAACGGCCAAAATCAGAGTTTTTACTAAATTAATATAAAAAACTAAAATAATACATATGA
*
3284474 AACATTATGTACTATAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAAATAAAA
65 AACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTT-AAAAAATAAAA
* *
3284539 TTCAAAAATAAAATAA
129 TCCGAAAATAAAATAA
* * *
3284555 AAAATAAACGGCCAAAATCAGAGTTTTTATTAAATTAATATAAAAAACTAAAATAATACATTTGG
1 AAAA-AAACGGCCAAAATCAGAGTTTTTACTAAATTAATATAAAAAACTAAAATAATACATATGA
* * *
3284620 AACATTATGTACTAAAATAATAT-AAAAATAAAATATGAAAATAGTTTATTTTAAAAAGTAAAAT
65 AACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAAT
*
3284684 CCGAGAATAAAATAGA
130 CCGAAAATAAAATA-A
* *
3284700 AAAACAAACGGTCAAAATTAGAGTTTTT
1 AAAA-AAACGGCCAAAATCAGAGTTTTT
3284728 TTATTACAAA
Statistics
Matches: 806, Mismatches: 55, Indels: 61
0.87 0.06 0.07
Matches are distributed among these distances:
140 74 0.09
141 88 0.11
142 85 0.11
143 27 0.03
144 302 0.37
145 133 0.17
146 58 0.07
147 39 0.05
ACGTcount: A:0.59, C:0.08, G:0.06, T:0.27
Consensus pattern (144 bp):
AAAAAAACGGCCAAAATCAGAGTTTTTACTAAATTAATATAAAAAACTAAAATAATACATATGAA
ACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATC
CGAAAATAAAATAA
Found at i:3290999 original size:4 final size:4
Alignment explanation
Indices: 3290985--3291049 Score: 53
Period size: 4 Copynumber: 15.5 Consensus size: 4
3290975 AAAATTACCT
*
3290985 TTTC TTTTC TTTC -TTC TTCTCC TTTC TTTC TTTC TATC -TTC TTCTCC
1 TTTC -TTTC TTTC TTTC TT-T-C TTTC TTTC TTTC TTTC TTTC TT-T-C
*
3291032 TTTC TTTC TTTC TATC TT
1 TTTC TTTC TTTC TTTC TT
3291050 CTTCTTCTGT
Statistics
Matches: 50, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
3 5 0.10
4 31 0.62
5 8 0.16
6 6 0.12
ACGTcount: A:0.03, C:0.29, G:0.00, T:0.68
Consensus pattern (4 bp):
TTTC
Found at i:3291024 original size:25 final size:25
Alignment explanation
Indices: 3290985--3291054 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
3290975 AAAATTACCT
*
3290985 TTTCTTTTCTTTCTTCTTCTCCTTTC
1 TTTC-TTTCTATCTTCTTCTCCTTTC
3291011 TTTCTTTCTATCTTCTTCTCCTTTC
1 TTTCTTTCTATCTTCTTCTCCTTTC
3291036 TTTCTTTCTATCTTCTTCT
1 TTTCTTTCTATCTTCTTCT
3291055 TCTGTAAATT
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
25 39 0.91
26 4 0.09
ACGTcount: A:0.03, C:0.30, G:0.00, T:0.67
Consensus pattern (25 bp):
TTTCTTTCTATCTTCTTCTCCTTTC
Found at i:3291057 original size:21 final size:20
Alignment explanation
Indices: 3290990--3291055 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 20
3290980 TACCTTTTCT
*
3290990 TTTCTTTCTTCTTCTCCTTTC
1 TTTCTTTCTTCTTCTTC-TTC
*
3291011 TTTCTTTCTATCTTCTTCTCC
1 TTTCTTTCT-TCTTCTTCTTC
3291032 TTTCTTTCTTTCTATCTTCTTC
1 TTTCTTTC-TTCT-TCTTCTTC
3291054 TT
1 TT
3291056 CTGTAAATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
21 22 0.56
22 17 0.44
ACGTcount: A:0.03, C:0.30, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTCTTTCTTCTTCTTCTTC
Found at i:3292040 original size:18 final size:17
Alignment explanation
Indices: 3291962--3292036 Score: 66
Period size: 18 Copynumber: 4.4 Consensus size: 17
3291952 TTGAAATTTG
3291962 TAATATTATAATTAAATA
1 TAATATTATAATT-AATA
*
3291980 TAATAATT-TAA-TAACA
1 TAAT-ATTATAATTAATA
* *
3291996 T-ATATTATAAATATATC
1 TAATATTATAATTA-ATA
*
3292013 TAATAGTATAATTAATA
1 TAATATTATAATTAATA
3292030 TAATATT
1 TAATATT
3292037 TATACCCAGC
Statistics
Matches: 45, Mismatches: 7, Indels: 11
0.71 0.11 0.17
Matches are distributed among these distances:
14 3 0.07
15 5 0.11
16 6 0.13
17 11 0.24
18 17 0.38
19 3 0.07
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (17 bp):
TAATATTATAATTAATA
Found at i:3292333 original size:4 final size:4
Alignment explanation
Indices: 3292324--3292447 Score: 81
Period size: 4 Copynumber: 31.5 Consensus size: 4
3292314 TTTGGTTATT
* * * * *
3292324 TCTC TCTC TCTC TCTC CCTC CCTC -CT- TCTA TCCC TCTA TCTC TCTC
1 TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC
* * * * * * * * * *
3292370 CCTC CCTC CCTC CCTC CCTC CCTC CCTC CCTC TCTC TCCC TCTT TCTC
1 TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC
* *
3292418 TCTC TCTC TCCC TCTT TCTC TCTC TCTC TC
1 TCTC TCTC TCTC TCTC TCTC TCTC TCTC TC
3292448 CTCCGTTAAT
Statistics
Matches: 102, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
3 4 0.04
4 98 0.96
ACGTcount: A:0.02, C:0.57, G:0.00, T:0.41
Consensus pattern (4 bp):
TCTC
Found at i:3292388 original size:30 final size:30
Alignment explanation
Indices: 3292327--3292389 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
3292317 GGTTATTTCT
* * *
3292327 CTCTCTCTCTCTCCCTCCCTCCTTCTATCC
1 CTCTATCTCTCTCCCTCCCTCCCTCCATCC
*
3292357 CTCTATCTCTCTCCCTCCCTCCCTCCCTCC
1 CTCTATCTCTCTCCCTCCCTCCCTCCATCC
3292387 CTC
1 CTC
3292390 CCTCCCTCCC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.03, C:0.60, G:0.00, T:0.37
Consensus pattern (30 bp):
CTCTATCTCTCTCCCTCCCTCCCTCCATCC
Found at i:3292424 original size:20 final size:20
Alignment explanation
Indices: 3292399--3292448 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
3292389 CCCTCCCTCC
3292399 CTCTCTCTCCCTCTTTCTCT
1 CTCTCTCTCCCTCTTTCTCT
3292419 CTCTCTCTCCCTCTTTCTCT
1 CTCTCTCTCCCTCTTTCTCT
3292439 CTCTCTCTCC
1 CTCTCTCTCC
3292449 TCCGTTAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (20 bp):
CTCTCTCTCCCTCTTTCTCT
Found at i:3295115 original size:6 final size:6
Alignment explanation
Indices: 3295104--3295143 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
3295094 TAGGAACCGG
3295104 TATAGA TATAGA TATAGA TATAGA TATAGA TATAGA TATA
1 TATAGA TATAGA TATAGA TATAGA TATAGA TATAGA TATA
3295144 AGAATGGTGT
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:0.50, C:0.00, G:0.15, T:0.35
Consensus pattern (6 bp):
TATAGA
Found at i:3297112 original size:7 final size:7
Alignment explanation
Indices: 3297102--3297129 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
3297092 AATTAAAGTA
3297102 TAAATTT
1 TAAATTT
3297109 TAAATTT
1 TAAATTT
3297116 TAAATTT
1 TAAATTT
3297123 TAAATTT
1 TAAATTT
3297130 GAATATTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
TAAATTT
Found at i:3298153 original size:32 final size:32
Alignment explanation
Indices: 3298087--3298153 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 32
3298077 TTTTTTTCTG
* **
3298087 TTTTCTTGCTCTTTTTTATTATTTTGTTACTA
1 TTTTCTTGCTCTTTTTTACTATTTTACTACTA
* * *
3298119 TTTTCTTGTTTTTTTTTACTATTTTACTATTA
1 TTTTCTTGCTCTTTTTTACTATTTTACTACTA
3298151 TTT
1 TTT
3298154 CACAATTATG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.13, C:0.10, G:0.04, T:0.72
Consensus pattern (32 bp):
TTTTCTTGCTCTTTTTTACTATTTTACTACTA
Found at i:3298199 original size:14 final size:14
Alignment explanation
Indices: 3298162--3298199 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
3298152 TTCACAATTA
3298162 TGTTGTTATTATTT
1 TGTTGTTATTATTT
**
3298176 TGTTACTATTATTT
1 TGTTGTTATTATTT
3298190 TGTTGTTATT
1 TGTTGTTATT
3298200 GTATAACTCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.16, C:0.03, G:0.13, T:0.68
Consensus pattern (14 bp):
TGTTGTTATTATTT
Found at i:3301130 original size:39 final size:39
Alignment explanation
Indices: 3301060--3301172 Score: 199
Period size: 39 Copynumber: 2.9 Consensus size: 39
3301050 ATAAAGTATG
3301060 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
1 GTTTTAATTAATAAT-AAAACAAAATAGTATGGGGGAATA
3301100 GTTTTAATTAATAATAAAACAAAATAGTATGGGGGAATA
1 GTTTTAATTAATAATAAAACAAAATAGTATGGGGGAATA
* *
3301139 GTTTTAATTAATAATAAAACAAAGTAGCATGGGG
1 GTTTTAATTAATAATAAAACAAAATAGTATGGGG
3301173 AAGTGGAATC
Statistics
Matches: 71, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
39 56 0.79
40 15 0.21
ACGTcount: A:0.48, C:0.04, G:0.19, T:0.30
Consensus pattern (39 bp):
GTTTTAATTAATAATAAAACAAAATAGTATGGGGGAATA
Found at i:3301712 original size:2 final size:2
Alignment explanation
Indices: 3301696--3301738 Score: 56
Period size: 2 Copynumber: 23.0 Consensus size: 2
3301686 AAATATTTTA
*
3301696 AT AT -T AT AT -T AT AT AT AC AT -T AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3301735 AT AT
1 AT AT
3301739 CTTTTAATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
1 3 0.08
2 33 0.92
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:3310262 original size:17 final size:16
Alignment explanation
Indices: 3310226--3310261 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
3310216 AAATGAAAAG
3310226 AAAATAAATTATTAGT
1 AAAATAAATTATTAGT
3310242 AAAATAAATGTATTA-T
1 AAAATAAAT-TATTAGT
3310258 AAAA
1 AAAA
3310262 AGGAATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (16 bp):
AAAATAAATTATTAGT
Found at i:3311243 original size:16 final size:16
Alignment explanation
Indices: 3311224--3311255 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
3311214 GTTGTAGGCA
*
3311224 TAGATTGAGTTTAAGT
1 TAGATTAAGTTTAAGT
3311240 TAGATTAAGTTTAAGT
1 TAGATTAAGTTTAAGT
3311256 CAATAGTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.22, T:0.44
Consensus pattern (16 bp):
TAGATTAAGTTTAAGT
Found at i:3313394 original size:99 final size:100
Alignment explanation
Indices: 3313223--3313423 Score: 307
Period size: 99 Copynumber: 2.0 Consensus size: 100
3313213 ATGAATCATC
* * * * * *
3313223 GTATAAAAGCCTTGTTTTATATAAGCTTTGTTGAGTAATACAAGCTATAGCATTCTCTTACACTC
1 GTATAAAAGCCTTGTTGTACATAAGCCTTGTTGAGTAATACAAGATATAACATGCTCTTACACTC
3313288 ACTTTCTTTGCATATTAAG-T-CTTGTATTTGGTTT
66 ACTTTCTTTGCATATT-AGCTCCTTGTATTTGGTTT
* *
3313322 GTATAAAAGTCTTGTTGTACATAAGCCTTGTTGAGTAATACAAGATATAACATGGTCTTACACTC
1 GTATAAAAGCCTTGTTGTACATAAGCCTTGTTGAGTAATACAAGATATAACATGCTCTTACACTC
3313387 ACTTTCTTTGCATATTAGCTCCTTGTATTTGGTTT
66 ACTTTCTTTGCATATTAGCTCCTTGTATTTGGTTT
3313422 GT
1 GT
3313424 TTGAGTGCCT
Statistics
Matches: 92, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
98 2 0.02
99 74 0.80
100 16 0.17
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.43
Consensus pattern (100 bp):
GTATAAAAGCCTTGTTGTACATAAGCCTTGTTGAGTAATACAAGATATAACATGCTCTTACACTC
ACTTTCTTTGCATATTAGCTCCTTGTATTTGGTTT
Found at i:3315921 original size:53 final size:51
Alignment explanation
Indices: 3315770--3315970 Score: 198
Period size: 52 Copynumber: 4.0 Consensus size: 51
3315760 TGACGGAAAA
* * *
3315770 GATGTGATATGTGCTTCTGTATAAGACCATAGCCGGGCTATGGCATCGGTAC
1 GATGTGATATGTG-TTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTAT
* * *
3315822 AATGTGAT-TCGTGTTCCCGTATAAGACCATAGCTGGGCTATAGCATCGGTGT
1 GATGTGATAT-GTGTT-CCGTATAAGACCATAGCTGGGCTATGGCATCGGTAT
* * *
3315874 GATGTGATAATGTGAGTCCGTATAAGACCATATCTGGGATATGGCATCGGTAT
1 GATGTGAT-ATGTG-TTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTAT
* * * *
3315927 GA--TG---TGTGTTCCGTGTAAGACCATGGCAGGGCTATGGCTTCGGT
1 GATGTGATATGTGTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGT
3315971 GTGTGATGTG
Statistics
Matches: 125, Mismatches: 19, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
46 29 0.23
47 4 0.03
51 5 0.04
52 48 0.38
53 37 0.30
54 2 0.02
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (51 bp):
GATGTGATATGTGTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTAT
Found at i:3315997 original size:105 final size:102
Alignment explanation
Indices: 3315788--3315991 Score: 227
Period size: 105 Copynumber: 2.0 Consensus size: 102
3315778 ATGTGCTTCT
*
3315788 GTATAAGACCATAGCCGGGCTATGGCATCGGTACAATGTGATTCGTGTTCCCGTATAAGACCATA
1 GTATAAGACCATAGCCGGGATATGGCATCGGT--AATGTGA-TCGTGTTCCCGTATAAGACCATA
* *
3315853 GCTGGGCTATAGCATCGGTGTGATGTGATAATGTGAGTCC
63 GCAGGGCTATAGCATCGGTGTGATGTGACAATGTGAGTCC
* * * *
3315893 GTATAAGACCATATCTGGGATATGGCATCGGT-ATGATG-T-GTGTT-CCGTGTAAGACCATGGC
1 GTATAAGACCATAGCCGGGATATGGCATCGGTAATG-TGATCGTGTTCCCGTATAAGACCATAGC
* *
3315954 AGGGCTATGGCTTCGGTGTGTGATGTGTGACAATGTGA
65 AGGGCTATAGCATC-G-GTGTGA--TGTGACAATGTGA
3315992 AAGTCCATAG
Statistics
Matches: 85, Mismatches: 9, Indels: 12
0.80 0.08 0.11
Matches are distributed among these distances:
99 26 0.31
100 6 0.07
101 7 0.08
102 3 0.04
103 14 0.16
105 29 0.34
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.29
Consensus pattern (102 bp):
GTATAAGACCATAGCCGGGATATGGCATCGGTAATGTGATCGTGTTCCCGTATAAGACCATAGCA
GGGCTATAGCATCGGTGTGATGTGACAATGTGAGTCC
Found at i:3317692 original size:74 final size:73
Alignment explanation
Indices: 3317553--3317699 Score: 215
Period size: 74 Copynumber: 2.0 Consensus size: 73
3317543 AATCCACGTC
* * * *
3317553 CTCCTACATTAGCAACAATGCCTATGCCAATCGAGCTAAAGACTCAATTGGCTCAATGCCTATTT
1 CTCCTACATTAGCAACAATGCCCATACCAATCGAGCTAAAGACTCAATCGGCTCAATACCTA-TT
3317618 TTCTTTATT
65 TTCTTTATT
* *
3317627 CTCCTACATTAGTAATAATGCCCATACCAATCGAGCTAAA-ACTCAATCGGCTCAATACCTAATT
1 CTCCTACATTAGCAACAATGCCCATACCAATCGAGCTAAAGACTCAATCGGCTCAATACCT-ATT
3317691 TTCTTTATT
65 TTCTTTATT
3317700 TACCTTTCCT
Statistics
Matches: 66, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
73 29 0.44
74 37 0.56
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.33
Consensus pattern (73 bp):
CTCCTACATTAGCAACAATGCCCATACCAATCGAGCTAAAGACTCAATCGGCTCAATACCTATTT
TCTTTATT
Found at i:3317880 original size:133 final size:133
Alignment explanation
Indices: 3317642--3317908 Score: 507
Period size: 133 Copynumber: 2.0 Consensus size: 133
3317632 ACATTAGTAA
*
3317642 TAATGCCCATACCAATCGAGCTAAAACTCAATCGGCTCAATACCTAATTTTCTTTATTTACCTTT
1 TAATGCCCATACCAATCGAGCTAAAACTCAATCGGCTCAATACCTAATTTTCTTTATTTACCATT
3317707 CCTGTGTAGAAAAAGAAAATATAGAGGTTTTAATTAAAGAAAATTGTGAAATTAGAGCCTAATAC
66 CCTGTGTAGAAAAAGAAAATATAGAGGTTTTAATTAAAGAAAATTGTGAAATTAGAGCCTAATAC
3317772 ATT
131 ATT
3317775 TAATGCCCATACCAATCGAGCTAAAACTCAATCGGCTCAATACCTAATTTTCTTTATTTACCATT
1 TAATGCCCATACCAATCGAGCTAAAACTCAATCGGCTCAATACCTAATTTTCTTTATTTACCATT
* *
3317840 CCTGTGTAGAAAAAGAAAATATAGAGGTTTTAATTAAAGAAATTTGTGAAATTAGAGCCTAATAT
66 CCTGTGTAGAAAAAGAAAATATAGAGGTTTTAATTAAAGAAAATTGTGAAATTAGAGCCTAATAC
3317905 ATT
131 ATT
3317908 T
1 T
3317909 TATTTATCCA
Statistics
Matches: 131, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
133 131 1.00
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (133 bp):
TAATGCCCATACCAATCGAGCTAAAACTCAATCGGCTCAATACCTAATTTTCTTTATTTACCATT
CCTGTGTAGAAAAAGAAAATATAGAGGTTTTAATTAAAGAAAATTGTGAAATTAGAGCCTAATAC
ATT
Found at i:3319396 original size:60 final size:60
Alignment explanation
Indices: 3319303--3319418 Score: 223
Period size: 60 Copynumber: 1.9 Consensus size: 60
3319293 TGGAAGAGGA
*
3319303 GGAGGAGGATATCCCCCAGGTGAAGGATATGTTGTAGCGACCGGTGGAGGGTATCCATTG
1 GGAGGAGGATATCCCCCAGGTGAAGGATATGTTGTAGCGACCGGTGGAGGATATCCATTG
3319363 GGAGGAGGATATCCCCCAGGTGAAGGATATGTTGTAGCGACCGGTGGAGGATATCC
1 GGAGGAGGATATCCCCCAGGTGAAGGATATGTTGTAGCGACCGGTGGAGGATATCC
3319419 GGCCGGTGTG
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.24, C:0.17, G:0.38, T:0.21
Consensus pattern (60 bp):
GGAGGAGGATATCCCCCAGGTGAAGGATATGTTGTAGCGACCGGTGGAGGATATCCATTG
Found at i:3328254 original size:21 final size:21
Alignment explanation
Indices: 3328230--3328271 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
3328220 AAGGACTTGG
3328230 GGAGAAAAAGGAAGAAGAAGA
1 GGAGAAAAAGGAAGAAGAAGA
* * *
3328251 GGAGCAAGAGGAGGAAGAAGA
1 GGAGAAAAAGGAAGAAGAAGA
3328272 TGATGATGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.55, C:0.02, G:0.43, T:0.00
Consensus pattern (21 bp):
GGAGAAAAAGGAAGAAGAAGA
Found at i:3328271 original size:12 final size:12
Alignment explanation
Indices: 3328238--3328330 Score: 52
Period size: 12 Copynumber: 8.0 Consensus size: 12
3328228 GGGGAGAAAA
3328238 AGGAAGAAGAAG
1 AGGAAGAAGAAG
*
3328250 AGG-AGCAAGAGG
1 AGGAAG-AAGAAG
*
3328262 AGGAAGAAGATG
1 AGGAAGAAGAAG
* * * *
3328274 ATGATGATGATG
1 AGGAAGAAGAAG
* * *
3328286 ATGATGATG-A-
1 AGGAAGAAGAAG
3328296 AG-AAGAAGAAG
1 AGGAAGAAGAAG
3328307 AGGAAGAAGAAG
1 AGGAAGAAGAAG
3328319 AAGGAA-AAGAAG
1 -AGGAAGAAGAAG
3328331 GAGAAAATGG
Statistics
Matches: 66, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
9 4 0.06
10 2 0.03
11 4 0.06
12 49 0.74
13 7 0.11
ACGTcount: A:0.52, C:0.01, G:0.39, T:0.09
Consensus pattern (12 bp):
AGGAAGAAGAAG
Found at i:3328276 original size:3 final size:3
Alignment explanation
Indices: 3328270--3328295 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
3328260 GGAGGAAGAA
3328270 GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GA
3328296 AGAAGAAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:3328300 original size:3 final size:3
Alignment explanation
Indices: 3328294--3328335 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
3328284 TGATGATGAT
* *
3328294 GAA GAA GAA GAA GAG GAA GAA GAA GAA GGAA -AA GAA GGA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA -GAA GAA GAA GAA GAA
3328336 AATGGGGAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:3330927 original size:21 final size:20
Alignment explanation
Indices: 3330903--3330970 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 20
3330893 TTATAACTAC
3330903 CATTAGTGTGCCTTAATTGGA
1 CATTAGTGTG-CTTAATTGGA
* *
3330924 CATTTAGCGTGGTTATAATT--A
1 CA-TTAGTGT-GCT-TAATTGGA
3330945 CCATTAGTGTTGCTTAATTGGA
1 -CATTAGTG-TGCTTAATTGGA
3330967 CATT
1 CATT
3330971 TAAGGTTGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
20 5 0.14
21 14 0.39
22 11 0.31
23 6 0.17
ACGTcount: A:0.25, C:0.13, G:0.21, T:0.41
Consensus pattern (20 bp):
CATTAGTGTGCTTAATTGGA
Found at i:3330930 original size:22 final size:21
Alignment explanation
Indices: 3330905--3330972 Score: 52
Period size: 22 Copynumber: 3.1 Consensus size: 21
3330895 ATAACTACCA
3330905 TTAGTGTGCCTTAATTGGACAT
1 TTAGTGTG-CTTAATTGGACAT
* *
3330927 TTAGCGTGGTTATAATT--ACCA-
1 TTAGTGT-GCT-TAATTGGA-CAT
3330948 TTAGTGTTGCTTAATTGGACAT
1 TTAGTG-TGCTTAATTGGACAT
3330970 TTA
1 TTA
3330973 AGGTTGTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 14
0.66 0.08 0.26
Matches are distributed among these distances:
20 5 0.14
21 10 0.29
22 14 0.40
23 6 0.17
ACGTcount: A:0.25, C:0.12, G:0.21, T:0.43
Consensus pattern (21 bp):
TTAGTGTGCTTAATTGGACAT
Found at i:3330954 original size:43 final size:43
Alignment explanation
Indices: 3330893--3330991 Score: 148
Period size: 43 Copynumber: 2.3 Consensus size: 43
3330883 TAGCTCTCTC
3330893 TTATAACTACCATTAGTG-TGCCTTAATTGGACATTT-AGCGTGG
1 TTATAACTACCATTAGTGTTG-CTTAATTGGACATTTAAG-GTGG
* *
3330936 TTATAATTACCATTAGTGTTGCTTAATTGGACATTTAAGGTTG
1 TTATAACTACCATTAGTGTTGCTTAATTGGACATTTAAGGTGG
3330979 TTATAACTACCAT
1 TTATAACTACCAT
3330992 CAAACTTTCC
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
43 47 0.92
44 4 0.08
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.40
Consensus pattern (43 bp):
TTATAACTACCATTAGTGTTGCTTAATTGGACATTTAAGGTGG
Found at i:3333746 original size:20 final size:20
Alignment explanation
Indices: 3333721--3333762 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
3333711 CCGCTGTTGC
*
3333721 TTTAGCAAAAGTTAATGAGG
1 TTTAGCAAAAGTTAACGAGG
3333741 TTTAGCAAAAGTTAACGAGG
1 TTTAGCAAAAGTTAACGAGG
3333761 TT
1 TT
3333763 GAAGAAATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.31
Consensus pattern (20 bp):
TTTAGCAAAAGTTAACGAGG
Found at i:3346788 original size:38 final size:38
Alignment explanation
Indices: 3346746--3346822 Score: 109
Period size: 38 Copynumber: 2.0 Consensus size: 38
3346736 CTAATAAATA
* * *
3346746 AATAAATATATATATGTATAACTCAATTCACAATTTTT
1 AATAAAAATACATATCTATAACTCAATTCACAATTTTT
* *
3346784 AATAAAAATACATTTCTATAACTCAATTCATAATTTTT
1 AATAAAAATACATATCTATAACTCAATTCACAATTTTT
3346822 A
1 A
3346823 TAACCTATAC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.45, C:0.12, G:0.01, T:0.42
Consensus pattern (38 bp):
AATAAAAATACATATCTATAACTCAATTCACAATTTTT
Found at i:3349108 original size:15 final size:16
Alignment explanation
Indices: 3349083--3349112 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
3349073 TTCAAGTTAA
3349083 GATGATGAAGGAAGAT
1 GATGATGAAGGAAGAT
3349099 GATG-TGAAGGAAGA
1 GATGATGAAGGAAGA
3349113 AGAAGCAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.43, C:0.00, G:0.40, T:0.17
Consensus pattern (16 bp):
GATGATGAAGGAAGAT
Found at i:3352644 original size:105 final size:105
Alignment explanation
Indices: 3352457--3352665 Score: 348
Period size: 105 Copynumber: 2.0 Consensus size: 105
3352447 TCTCTATTTT
* * *
3352457 TGTCTCACAATTTTGTTTCAAGTTGCTTTGCCTTCAACATACAAATAAAATATAGATGTAAGTGA
1 TGTCTCACAATTTTGTTTCAAATTGCTTCGCCTTCAACATACAAATAAAATATAGATGTAAGTAA
*
3352522 ATATATATAATAGAAATAAAATTTTAATAGAATAAAAAAG
66 ATATATATAATAGAAATAAAATTTTAATAAAATAAAAAAG
* *
3352562 TGTCTCACAATTTTGTTTCAAATTGCTTCGTCTTCAACCTACAAATAAAATATAGATGTAAGTAA
1 TGTCTCACAATTTTGTTTCAAATTGCTTCGCCTTCAACATACAAATAAAATATAGATGTAAGTAA
3352627 ATATATATAAT-GAAAATAAAATTTTAATAAAATAAAAAA
66 ATATATATAATAG-AAATAAAATTTTAATAAAATAAAAAA
3352666 TTGAAACCAA
Statistics
Matches: 97, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
104 1 0.01
105 96 0.99
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.34
Consensus pattern (105 bp):
TGTCTCACAATTTTGTTTCAAATTGCTTCGCCTTCAACATACAAATAAAATATAGATGTAAGTAA
ATATATATAATAGAAATAAAATTTTAATAAAATAAAAAAG
Found at i:3354249 original size:153 final size:151
Alignment explanation
Indices: 3354031--3354549 Score: 790
Period size: 153 Copynumber: 3.4 Consensus size: 151
3354021 AAAGGAATGG
* * * * * *
3354031 TGATGAAATTCTTACCACTAAGATGAAGACGTA-TCAAAGAGGATAGACCAGAAAGATCACAATG
1 TGATGAAATTGTTACCACTAAGATCAAGATG-ACCCAAAGAGGATAGACCAGAAATATCACTATG
*
3354095 AGTATCTGCTTCACCAAGAGTGCACATGTTGCAATTTGACAAGTAAAGAACATGAAGCTTTGAGA
65 AGTATCTGCTTCACCAAGAGTGCACATGTTGCAATTTGACAA-TAAAG-ATATGAAGCTTTGAGA
3354160 GTCGAGTAAGAGATGCAGGTATGC
128 GTCGAGTAAGAGATGCAGGTATGC
3354184 TGATGAAATTGTTACCACTAAGATCAAGATGACCCAAAGAGGATAGACCAGAAATATCACTATGA
1 TGATGAAATTGTTACCACTAAGATCAAGATGACCCAAAGAGGATAGACCAGAAATATCACTATGA
*
3354249 GTATCTGCTTCACCAAGAGTGCACATGTTGCAATTTGACAATATAAGATTTGCAAGCTTTGAGAG
66 GTATCTGCTTCACCAAGAGTGCACATGTTGCAATTTGACAATA-AAGATATG-AAGCTTTGAGAG
3354314 TCGAGTAAGAGATGCAGGTATGC
129 TCGAGTAAGAGATGCAGGTATGC
3354337 TGATGAAATTGTTACCACTAAGATCAAGATG-CCACAAAGAGGATAGACCAGAAATATCACTATG
1 TGATGAAATTGTTACCACTAAGATCAAGATGACC-CAAAGAGGATAGACCAGAAATATCACTATG
* * *
3354401 AGTATCTGCTTCACCAAGAGTGCACATGTTGCAATTTGACAATTCAAGATATCCAAGCTTCGAGA
65 AGTATCTGCTTCACCAAGAGTGCACATGTTGCAATTTGACAA-TAAAGATAT-GAAGCTTTGAGA
*
3354466 GTCGAGTAAGAGATGCAGGCATGC
128 GTCGAGTAAGAGATGCAGGTATGC
* *** * *
3354490 TGATGAAATTGTTACCACTAAGATCAAGTTTTTCCAAACAAGATAGACCAGAAATATCAC
1 TGATGAAATTGTTACCACTAAGATCAAGATGACCCAAAGAGGATAGACCAGAAATATCAC
3354550 GTGGAATATC
Statistics
Matches: 341, Mismatches: 18, Indels: 14
0.91 0.05 0.04
Matches are distributed among these distances:
152 8 0.02
153 331 0.97
154 2 0.01
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.24
Consensus pattern (151 bp):
TGATGAAATTGTTACCACTAAGATCAAGATGACCCAAAGAGGATAGACCAGAAATATCACTATGA
GTATCTGCTTCACCAAGAGTGCACATGTTGCAATTTGACAATAAAGATATGAAGCTTTGAGAGTC
GAGTAAGAGATGCAGGTATGC
Found at i:3360070 original size:39 final size:39
Alignment explanation
Indices: 3360016--3360093 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
3360006 CTACGTGGCA
3360016 GTCCAAATTGATTTTAAATGACAACTTGAACTTCTAACT
1 GTCCAAATTGATTTTAAATGACAACTTGAACTTCTAACT
*
3360055 GTCCAAATTGATTTTAAATGACAACTTGAATTTCTAACT
1 GTCCAAATTGATTTTAAATGACAACTTGAACTTCTAACT
3360094 TGGATAAGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.37
Consensus pattern (39 bp):
GTCCAAATTGATTTTAAATGACAACTTGAACTTCTAACT
Found at i:3360790 original size:20 final size:20
Alignment explanation
Indices: 3360765--3360807 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
3360755 TTCTTCCTGC
3360765 TTCATCATAGACATTACGTT
1 TTCATCATAGACATTACGTT
3360785 TTCATCATAGACATTACGTT
1 TTCATCATAGACATTACGTT
3360805 TTC
1 TTC
3360808 CTTTTATGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.42
Consensus pattern (20 bp):
TTCATCATAGACATTACGTT
Found at i:3361167 original size:36 final size:36
Alignment explanation
Indices: 3361120--3361193 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
3361110 CTTTCATTAT
3361120 TCCTTTACCCAAGAACGAGCATCTCAAACCAAACTA
1 TCCTTTACCCAAGAACGAGCATCTCAAACCAAACTA
*
3361156 TCCTTTACCCAAGAACGAGCATCTCAACCCAAACTA
1 TCCTTTACCCAAGAACGAGCATCTCAAACCAAACTA
3361192 TC
1 TC
3361194 GACAATTTCT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.36, C:0.35, G:0.08, T:0.20
Consensus pattern (36 bp):
TCCTTTACCCAAGAACGAGCATCTCAAACCAAACTA
Found at i:3362293 original size:4 final size:4
Alignment explanation
Indices: 3362284--3362463 Score: 360
Period size: 4 Copynumber: 45.0 Consensus size: 4
3362274 CATTTCTCAT
3362284 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
3362332 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
3362380 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
3362428 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
3362464 TATATCCGTA
Statistics
Matches: 176, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 176 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:3367719 original size:16 final size:17
Alignment explanation
Indices: 3367688--3367722 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
3367678 TAATACATGA
3367688 AATAATATATGAAAAGT
1 AATAATATATGAAAAGT
3367705 AATAATATA-GAAAAGT
1 AATAATATATGAAAAGT
3367721 AA
1 AA
3367723 AACAATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.63, C:0.00, G:0.11, T:0.26
Consensus pattern (17 bp):
AATAATATATGAAAAGT
Found at i:3368997 original size:13 final size:13
Alignment explanation
Indices: 3368979--3369003 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3368969 TATTTGGACC
3368979 TATAAATGGACTG
1 TATAAATGGACTG
3368992 TATAAATGGACT
1 TATAAATGGACT
3369004 TTTATTTATC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.20, T:0.32
Consensus pattern (13 bp):
TATAAATGGACTG
Found at i:3371266 original size:9 final size:9
Alignment explanation
Indices: 3371241--3371271 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
3371231 GACTGTGAAA
3371241 AAATAAAAT
1 AAATAAAAT
3371250 AGAATAAAAT
1 A-AATAAAAT
3371260 AAATAAAAT
1 AAATAAAAT
3371269 AAA
1 AAA
3371272 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:3375720 original size:9 final size:9
Alignment explanation
Indices: 3375695--3375725 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
3375685 GTTTGTGAAA
3375695 AAATAAAAT
1 AAATAAAAT
3375704 AGAATAAAAT
1 A-AATAAAAT
3375714 AAATAAAAT
1 AAATAAAAT
3375723 AAA
1 AAA
3375726 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:3378217 original size:14 final size:14
Alignment explanation
Indices: 3378200--3378229 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
3378190 TAGACTAAAC
3378200 TTGAATGACTTTTG
1 TTGAATGACTTTTG
3378214 TTGAATGACTTTTG
1 TTGAATGACTTTTG
3378228 TT
1 TT
3378230 AAAATAGTAT
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:0.20, C:0.07, G:0.20, T:0.53
Consensus pattern (14 bp):
TTGAATGACTTTTG
Found at i:3383049 original size:11 final size:11
Alignment explanation
Indices: 3383033--3383098 Score: 51
Period size: 11 Copynumber: 5.5 Consensus size: 11
3383023 ATTAATCTAA
3383033 TTTTACTATTT
1 TTTTACTATTT
3383044 TTTTACTATCATT
1 TTTTACTAT--TT
** *
3383057 TTTTAAAATTA
1 TTTTACTATTT
*
3383068 TTTTCCTATTAT
1 TTTTACTATT-T
3383080 TTATTAACTATTT
1 TT-TT-ACTATTT
3383093 TTTTAC
1 TTTTAC
3383099 ACTATTATTT
Statistics
Matches: 42, Mismatches: 8, Indels: 10
0.70 0.13 0.17
Matches are distributed among these distances:
11 19 0.45
12 4 0.10
13 14 0.33
14 5 0.12
ACGTcount: A:0.26, C:0.11, G:0.00, T:0.64
Consensus pattern (11 bp):
TTTTACTATTT
Found at i:3383104 original size:13 final size:14
Alignment explanation
Indices: 3383073--3383122 Score: 59
Period size: 13 Copynumber: 3.5 Consensus size: 14
3383063 AATTATTTTC
3383073 CTATTATTTATTAA
1 CTATTATTTATTAA
3383087 CTATT-TTT-TTACA
1 CTATTATTTATTA-A
3383100 CTATTATTTATTATA
1 CTATTATTTATTA-A
3383115 CTTATTAT
1 C-TATTAT
3383123 ATCATTTTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
12 3 0.10
13 9 0.29
14 8 0.26
15 5 0.16
16 6 0.19
ACGTcount: A:0.30, C:0.10, G:0.00, T:0.60
Consensus pattern (14 bp):
CTATTATTTATTAA
Found at i:3383110 original size:27 final size:26
Alignment explanation
Indices: 3383037--3383112 Score: 86
Period size: 24 Copynumber: 3.0 Consensus size: 26
3383027 ATCTAATTTT
* *
3383037 ACTATTTTTTT-ACTATCATTTTTTA
1 ACTATTTTTTTCACTATTATTTATTA
* *
3383062 A-AATTATTTTC-CTATTATTTATTA
1 ACTATTTTTTTCACTATTATTTATTA
3383086 ACTATTTTTTTACACTATTATTTATTA
1 ACTATTTTTTT-CACTATTATTTATTA
3383113 TACTTATTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
24 19 0.46
25 8 0.20
26 1 0.02
27 13 0.32
ACGTcount: A:0.29, C:0.11, G:0.00, T:0.61
Consensus pattern (26 bp):
ACTATTTTTTTCACTATTATTTATTA
Found at i:3386997 original size:43 final size:43
Alignment explanation
Indices: 3386936--3387026 Score: 164
Period size: 43 Copynumber: 2.1 Consensus size: 43
3386926 ATCGCGAACA
* *
3386936 AGAGCTGGCCTCGTTGCTTAGAAAAATTAGGACTTTAAGTGTT
1 AGAGCTGGCCTCGTTGCTTAAAAAAATAAGGACTTTAAGTGTT
3386979 AGAGCTGGCCTCGTTGCTTAAAAAAATAAGGACTTTAAGTGTT
1 AGAGCTGGCCTCGTTGCTTAAAAAAATAAGGACTTTAAGTGTT
3387022 AGAGC
1 AGAGC
3387027 GAAATTTTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (43 bp):
AGAGCTGGCCTCGTTGCTTAAAAAAATAAGGACTTTAAGTGTT
Found at i:3392947 original size:26 final size:26
Alignment explanation
Indices: 3392917--3392972 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
3392907 TGAAATGCCC
3392917 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
* *
3392943 ATCATGGAACATTTACCTAACCTATT
1 ATCATGAAACATTTACCTAACCCATT
3392969 ATCA
1 ATCA
3392973 ATTTGTATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.38, C:0.25, G:0.05, T:0.32
Consensus pattern (26 bp):
ATCATGAAACATTTACCTAACCCATT
Found at i:3398085 original size:45 final size:45
Alignment explanation
Indices: 3398036--3398236 Score: 128
Period size: 45 Copynumber: 4.5 Consensus size: 45
3398026 ATCTTGTTTC
3398036 CCTGAGATTGCAGTGGAGCAGATCGAAGACAGC-GAATCTAGGCTT
1 CCTGAGATTGCAGTGGAGCAGATCGAAGACAGCAG-ATCTAGGCTT
* ** * * *
3398081 CCTGATG-TTGCAGTGAAGCAGATTTAAGCCA-C-CATCCTA-GCTC
1 CCTGA-GATTGCAGTGGAGCAGATCGAAGACAGCAGAT-CTAGGCTT
* * * * * ** * * *
3398124 CCT-AAAGTTGTAGTGGAGTAGGTTGAAGATTGTAGATCT-TGTTT
1 CCTGAGA-TTGCAGTGGAGCAGATCGAAGACAGCAGATCTAGGCTT
*
3398168 CCCTGATATTGCAGTGGAGCAGATCGAAGACAGCAGATCTAGGCTT
1 -CCTGAGATTGCAGTGGAGCAGATCGAAGACAGCAGATCTAGGCTT
* * *
3398214 CCTGATATTGTAGTGAAGCAGAT
1 CCTGAGATTGCAGTGGAGCAGAT
3398237 TTAAGCCACC
Statistics
Matches: 115, Mismatches: 31, Indels: 20
0.69 0.19 0.12
Matches are distributed among these distances:
42 1 0.01
43 24 0.21
44 8 0.07
45 76 0.66
46 6 0.05
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.27
Consensus pattern (45 bp):
CCTGAGATTGCAGTGGAGCAGATCGAAGACAGCAGATCTAGGCTT
Found at i:3398124 original size:133 final size:133
Alignment explanation
Indices: 3397886--3398410 Score: 811
Period size: 133 Copynumber: 3.9 Consensus size: 133
3397876 CAAGCTAAAA
* * * * *
3397886 ATTGTAGATCTTGTTTCCCCGAGATTGTAGTGGATCAGATCGAAGACGGC-GAATCTAGGTTTCC
1 ATTGTAGATCTTGTTTCCCTGAGATTGCAGTGGAGCAGATCGAAGACAGCAG-ATCTAGGCTTCC
* * * *
3397950 TGATGTTGCAGCGAAGCAGATTTAAACCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTATGCT
65 TGATATTGCAGCGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTT
3398015 GAAG
130 GAAG
3398019 ATTGTAGATCTTGTTTCCCTGAGATTGCAGTGGAGCAGATCGAAGACAGC-GAATCTAGGCTTCC
1 ATTGTAGATCTTGTTTCCCTGAGATTGCAGTGGAGCAGATCGAAGACAGCAG-ATCTAGGCTTCC
* *
3398083 TGATGTTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTT
65 TGATATTGCAGCGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTT
3398148 GAAG
130 GAAG
*
3398152 ATTGTAGATCTTGTTTCCCTGATATTGCAGTGGAGCAGATCGAAGACAGCAGATCTAGGCTTCCT
1 ATTGTAGATCTTGTTTCCCTGAGATTGCAGTGGAGCAGATCGAAGACAGCAGATCTAGGCTTCCT
* * *
3398217 GATATTGTAGTGAAGCAGATTTAAGCCACCATCCTAGCTCTCTAAAGTTGTAGTGGAGTAGGTTG
66 GATATTGCAGCGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTG
3398282 AAG
131 AAG
* * * * *
3398285 ATTGTAGATCTTGTTTCCTTGAGATTGTAGTGGAGCAAATCGAAGACGGCAGATCTAGGTTTCCT
1 ATTGTAGATCTTGTTTCCCTGAGATTGCAGTGGAGCAGATCGAAGACAGCAGATCTAGGCTTCCT
* * *
3398350 GATATTGCAGCGAAGTAGATTTAAGTCACCACCCTAGCTCCCTAAAGTTGTAGTGGAGTAG
66 GATATTGCAGCGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAG
3398411 ACCCAAGATT
Statistics
Matches: 366, Mismatches: 25, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
133 365 1.00
134 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (133 bp):
ATTGTAGATCTTGTTTCCCTGAGATTGCAGTGGAGCAGATCGAAGACAGCAGATCTAGGCTTCCT
GATATTGCAGCGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTG
AAG
Found at i:3398618 original size:48 final size:45
Alignment explanation
Indices: 3398510--3398629 Score: 132
Period size: 48 Copynumber: 2.6 Consensus size: 45
3398500 ACAAGATCTC
* * * * * *
3398510 GTCTCCCTGAAGTTGCAGTGGAGCAAGATCAAAATCATGATCCTT
1 GTCTCCCTGAAGTTGCAGTAGAGCAGGATAAAAAACATGAACCAT
** *
3398555 GTCTCTTTGATGTTGCAGTAGAGCAGGATAAAAAAACACGTGAACCAT
1 GTCTCCCTGAAGTTGCAGTAGAGCAGGAT-AAAAAACA--TGAACCAT
3398603 GTCTCCCTGAAGTTGCAGTAGAGCAGG
1 GTCTCCCTGAAGTTGCAGTAGAGCAGG
3398630 TCGAAGTTAC
Statistics
Matches: 60, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
45 24 0.40
46 6 0.10
48 30 0.50
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (45 bp):
GTCTCCCTGAAGTTGCAGTAGAGCAGGATAAAAAACATGAACCAT
Found at i:3398759 original size:49 final size:45
Alignment explanation
Indices: 3398604--3399601 Score: 613
Period size: 44 Copynumber: 21.7 Consensus size: 45
3398594 GTGAACCATG
* * * *
3398604 TCTCCCTGAAGTTGCAGTAGAGCAGGTCGAAG-TTACA-AGTCTTA
1 TCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATTACAGA-TCTTA
* *
3398648 TCTCCCTGAAGTTGCAGTGGAACAGACTGAAGA-TAGCAAATCTTA
1 TCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATTA-CAGATCTTA
*
3398693 TTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTA
1 TCTCCCTGAAGTTGCAGTGGAACAGATTGAAG----ATTACAGATCTTA
*** * ** * *
3398742 TCTTTTTGAAGTTGCAGTAGAGTAGGTCGAAG-TTACA-AGTCTTA
1 TCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATTACAGA-TCTTA
3398786 TCTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTA
1 TCTCCCTGAAGTTGCAGTGGAACAGATTGAAG----ATTACAGATCTTA
*** * ** * *
3398835 TCTTTTTGAAGTTGCAGTAGAGTAGGTCGAAG-TTACA-AGTCTTA
1 TCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATTACAGA-TCTTA
* *
3398879 TCTCCCTGAAGTTGCAGTGGAACAGACTGAAGA-TAGCAAATCTTA
1 TCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATTA-CAGATCTTA
* * *
3398924 TTTCCCTGAAGTTGCAGTGGAATAGATTAAAGCTAAATTACAGATCTTA
1 TCTCCCTGAAGTTGCAGTGGAACAGATTGAAG----ATTACAGATCTTA
* * * * * *
3398973 TCTCTCTGAAGTTGCAATAGAGCAGGTCGAAG-TTACA-AGTCTTA
1 TCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATTACAGA-TCTTA
* * * *
3399017 TCTCCCTGAAGTTGCAGTAGAATAGAGTGAAGA-TAGCAAATCTTA
1 TCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATTA-CAGATCTTA
* * *
3399062 TTTCCCTGAAATTGCAGTGGAACAGATTAAAGCTAAAATTACAGATCTTA
1 TCTCCCTGAAGTTGCAGTGGAACAGATT---G--AAGATTACAGATCTTA
* * * ** * *
3399112 TCTCTCTGAAGTTGAAGTAGAGTAGGTCGAAG-TTACA-AGTCTTA
1 TCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATTACAGA-TCTTA
* * * *
3399156 TCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGA-TAGCAAATCTTA
1 TCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATTA-CAGATCTTA
* *
3399201 TTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTAAAATTACAGATCTTA
1 TCTCCCTGAAGTTGCAGTGGAACAGATT---G--AAGATTACAGATCTTA
* * * * * *
3399251 TCTCTCTGAAGTTGCAATAGAGCAGGTCGAAG-TTACA-AGTCTTA
1 TCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATTACAGA-TCTTA
* * * ** * *
3399295 TCTCCCTAAAGTTGCAATAGAGGAGACTGAAGA-TAGCAAATCTTA
1 TCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATTA-CAGATCTTA
* *
3399340 TTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTAAAATTACAGATCTTA
1 TCTCCCTGAAGTTGCAGTGGAACAGATT---G--AAGATTACAGATCTTA
** * ** * *
3399390 TCTATCTGAAGTTGCAGTAGAGTAGGTCGAAG-TTACA-AGTCTTA
1 TCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATTACAGA-TCTTA
* * *
3399434 TCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGA-TAGCAAATCTTA
1 TCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATTA-CAGATCTTA
* * * * *
3399479 TTTCCCTAAAGTTGAAGTGGAACAGATTAAAGCTAAATTACAAATCTTA
1 TCTCCCTGAAGTTGCAGTGGAACAGATTGAAG----ATTACAGATCTTA
* * * * *
3399528 TCTCTCTGAAGTTGCAGTAGAGCAGA-TCAA-A--ACAGATCTTG
1 TCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATTACAGATCTTA
* *
3399569 TCTCCCTGATGTTGTAGTGGAACAGATTGAAGA
1 TCTCCCTGAAGTTGCAGTGGAACAGATTGAAGA
3399602 CGGTAAATCT
Statistics
Matches: 735, Mismatches: 154, Indels: 131
0.72 0.15 0.13
Matches are distributed among these distances:
41 29 0.04
42 3 0.00
43 8 0.01
44 246 0.33
45 200 0.27
46 6 0.01
47 3 0.00
48 6 0.01
49 128 0.17
50 100 0.14
51 6 0.01
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.29
Consensus pattern (45 bp):
TCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATTACAGATCTTA
Found at i:3398920 original size:231 final size:231
Alignment explanation
Indices: 3398610--3399048 Score: 788
Period size: 231 Copynumber: 1.9 Consensus size: 231
3398600 CATGTCTCCC
3398610 TGAAGTTGCAGTAGAGCAGGTCGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGAC
1 TGAAGTTGCAGTAGAGCAGGTCGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGAC
*
3398675 TGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCT
66 TGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTAAATTACAGATCT
* * * * *
3398740 TATCTTTTTGAAGTTGCAGTAGAGTAGGTCGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTG
131 TATCTCTCTGAAGTTGCAATAGAGCAGGTCGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTA
*
3398805 GAACAGATTGAAGCTAAATTACAGATCTTATCTTTT
196 GAACAGAGTGAAGCTAAATTACAGATCTTATCTTTT
*
3398841 TGAAGTTGCAGTAGAGTAGGTCGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGAC
1 TGAAGTTGCAGTAGAGCAGGTCGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGAC
*
3398906 TGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAATAGATTAAAGCTAAATTACAGATCT
66 TGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTAAATTACAGATCT
3398971 TATCTCTCTGAAGTTGCAATAGAGCAGGTCGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTA
131 TATCTCTCTGAAGTTGCAATAGAGCAGGTCGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTA
*
3399036 GAATAGAGTGAAG
196 GAACAGAGTGAAG
3399049 ATAGCAAATC
Statistics
Matches: 198, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
231 198 1.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (231 bp):
TGAAGTTGCAGTAGAGCAGGTCGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGAC
TGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTAAATTACAGATCT
TATCTCTCTGAAGTTGCAATAGAGCAGGTCGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTA
GAACAGAGTGAAGCTAAATTACAGATCTTATCTTTT
Found at i:3398923 original size:138 final size:139
Alignment explanation
Indices: 3398781--3399601 Score: 1287
Period size: 139 Copynumber: 5.9 Consensus size: 139
3398771 AAGTTACAAG
* * * *
3398781 TCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGCT-AAATTACAGATCTTATCTTTTTGAA
1 TCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTAAAATTACAGATCTTATCTCTCTGAA
*
3398845 GTTGCAGTAGAGTAGGTCGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGACTGAA
66 GTTGCAGTAGAGCAGGTCGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGACTGAA
3398910 GATAGCAAA
131 GATAGCAAA
*
3398919 TCTTATTTCCCTGAAGTTGCAGTGGAATAGATTAAAGCT-AAATTACAGATCTTATCTCTCTGAA
1 TCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTAAAATTACAGATCTTATCTCTCTGAA
* * * *
3398983 GTTGCAATAGAGCAGGTCGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTAGAATAGAGTGAA
66 GTTGCAGTAGAGCAGGTCGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGACTGAA
3399048 GATAGCAAA
131 GATAGCAAA
*
3399057 TCTTATTTCCCTGAAATTGCAGTGGAACAGATTAAAGCTAAAATTACAGATCTTATCTCTCTGAA
1 TCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTAAAATTACAGATCTTATCTCTCTGAA
* * * *
3399122 GTTGAAGTAGAGTAGGTCGAAGTTACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAA
66 GTTGCAGTAGAGCAGGTCGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGACTGAA
3399187 GATAGCAAA
131 GATAGCAAA
3399196 TCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTAAAATTACAGATCTTATCTCTCTGAA
1 TCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTAAAATTACAGATCTTATCTCTCTGAA
* * * * **
3399261 GTTGCAATAGAGCAGGTCGAAGTTACAAGTCTTATCTCCCTAAAGTTGCAATAGAGGAGACTGAA
66 GTTGCAGTAGAGCAGGTCGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGACTGAA
3399326 GATAGCAAA
131 GATAGCAAA
*
3399335 TCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTAAAATTACAGATCTTATCTATCTGAA
1 TCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTAAAATTACAGATCTTATCTCTCTGAA
* *
3399400 GTTGCAGTAGAGTAGGTCGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAA
66 GTTGCAGTAGAGCAGGTCGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGACTGAA
3399465 GATAGCAAA
131 GATAGCAAA
* * *
3399474 TCTTATTTCCCTAAAGTTGAAGTGGAACAGATTAAAGCT-AAATTACAAATCTTATCTCTCTGAA
1 TCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTAAAATTACAGATCTTATCTCTCTGAA
* * * * * *
3399538 GTTGCAGTAGAGCAGATC-AA--AAC-AGATCTTGTCTCCCTGATGTTGTAGTGGAACAGATTGA
66 GTTGCAGTAGAGCAGGTCGAAGTTACAAG-TCTTATCTCCCTGAAGTTGCAGTGGAACAGACTGA
3399599 AGA
130 AGA
3399602 CGGTAAATCT
Statistics
Matches: 635, Mismatches: 46, Indels: 7
0.92 0.07 0.01
Matches are distributed among these distances:
134 2 0.00
135 35 0.06
137 2 0.00
138 204 0.32
139 392 0.62
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (139 bp):
TCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTAAAATTACAGATCTTATCTCTCTGAA
GTTGCAGTAGAGCAGGTCGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGACTGAA
GATAGCAAA
Found at i:3399520 original size:94 final size:93
Alignment explanation
Indices: 3398604--3399590 Score: 472
Period size: 94 Copynumber: 10.7 Consensus size: 93
3398594 GTGAACCATG
* * * * *
3398604 TCTCCCTGAAGTTGCAGTAGAGCAG-GTCGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGG
1 TCTCCCTGAAGTTGCAGTGGAGCAGACTAGAAGATACAAATCTTATCTCCCTGAAGTTGCAGTGG
* * *
3398668 AACAGACTGAAG----A-TAGCAAATCTTA
66 AA-AGAGTAAAGCTAAATTA-CAAGTCTTA
* * * * ***
3398693 TTTCCCTGAAGTTGCAGTGGAACAGA-TTGAAGCTAAATTACAGATCTTATCTTTTTGAAGTTGC
1 TCTCCCTGAAGTTGCAGTGGAGCAGACTAGAAG----A-TACAAATCTTATCTCCCTGAAGTTGC
* * *
3398757 AGT----AGAGT-AGGTCGAAGTTACAAGTCTTA
61 AGTGGAAAGAGTAAAG-CTAAATTACAAGTCTTA
* * * ***
3398786 TCTCCCTGAAGTTGCAGTGGAACAGA-TTGAAGCTAAATTACAGATCTTATCTTTTTGAAGTTGC
1 TCTCCCTGAAGTTGCAGTGGAGCAGACTAGAAG----A-TACAAATCTTATCTCCCTGAAGTTGC
* * *
3398850 AGT----AGAGT-AGGTCGAAGTTACAAGTCTTA
61 AGTGGAAAGAGTAAAG-CTAAATTACAAGTCTTA
* *
3398879 TCTCCCTGAAGTTGCAGTGGAACAGACT-GAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTG
1 TCTCCCTGAAGTTGCAGTGGAGCAGACTAGAAGATA-CAAATCTTATCTCCCTGAAGTTGCAGTG
*
3398943 GAATAGATTAAAGCTAAATTAC-AGATCTTA
65 GAA-AGAGTAAAGCTAAATTACAAG-TCTTA
* * * * * * * *
3398973 TCTCTCTGAAGTTGCAATAGAGCAG-GTCGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTAG
1 TCTCCCTGAAGTTGCAGTGGAGCAGACTAGAAGATACAAATCTTATCTCCCTGAAGTTGCAGTGG
* *
3399037 AATAGAGTGAAG----A-TAGCAAATCTTA
66 AA-AGAGTAAAGCTAAATTA-CAAGTCTTA
* * * * * * * *
3399062 TTTCCCTGAAATTGCAGTGGAACAGATTAAAGCTAAAATTACAGATCTTATCTCTCTGAAGTTGA
1 TCTCCCTGAAGTTGCAGTGGAGCAGACT--AG--AAGA-TACAAATCTTATCTCCCTGAAGTTGC
* * *
3399127 AGT----AGAGT-AGGTCGAAGTTACAAGTCTTA
61 AGTGGAAAGAGTAAAG-CTAAATTACAAGTCTTA
* *
3399156 TCTCCCTAAAGTTGCAGTGGAGCAGACT-GAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTG
1 TCTCCCTGAAGTTGCAGTGGAGCAGACTAGAAGATA-CAAATCTTATCTCCCTGAAGTTGCAGTG
*
3399220 GAACAGATTAAAGCTAAAATTAC-AGATCTTA
65 GAA-AGAGTAAAGCT-AAATTACAAG-TCTTA
* * * * * * * *
3399251 TCTCTCTGAAGTTGCAATAGAGCAG-GTCGAAGTTACAAGTCTTATCTCCCTAAAGTTGCA----
1 TCTCCCTGAAGTTGCAGTGGAGCAGACTAGAAGATACAAATCTTATCTCCCTGAAGTTGCAGTGG
* * * *
3399311 ATAGAGGAGA-CTGAAGA-TAGCAAATCTTA
66 AAAGAGTAAAGCT-AA-ATTA-CAAGTCTTA
* * * * * **
3399340 TTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTAAAATTACAGATCTTATCTATCTGAAGTTGC
1 TCTCCCTGAAGTTGCAGTGGAGCAGACT--AG--AAGA-TACAAATCTTATCTCCCTGAAGTTGC
* * *
3399405 AGT----AGAGT-AGGTCGAAGTTACAAGTCTTA
61 AGTGGAAAGAGTAAAG-CTAAATTACAAGTCTTA
* * *
3399434 TCTCCCTGAAGTTGCAGTGGAGCAGACT-GAAGATAGCAAATCTTATTTCCCTAAAGTTGAAGTG
1 TCTCCCTGAAGTTGCAGTGGAGCAGACTAGAAGATA-CAAATCTTATCTCCCTGAAGTTGCAGTG
* *
3399498 GAACAGATTAAAGCTAAATTACAAATCTTA
65 GAA-AGAGTAAAGCTAAATTACAAGTCTTA
* * * * * * *
3399528 TCTCTCTGAAGTTGCAGTAGAGCAGA-T-CAA-A-ACAGATCTTGTCTCCCTGATGTTGTAGTGG
1 TCTCCCTGAAGTTGCAGTGGAGCAGACTAGAAGATACAAATCTTATCTCCCTGAAGTTGCAGTGG
3399589 AA
66 AA
3399591 CAGATTGAAG
Statistics
Matches: 705, Mismatches: 126, Indels: 133
0.73 0.13 0.14
Matches are distributed among these distances:
88 16 0.02
89 164 0.23
90 35 0.05
91 3 0.00
92 3 0.00
93 172 0.24
94 210 0.30
95 101 0.14
96 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (93 bp):
TCTCCCTGAAGTTGCAGTGGAGCAGACTAGAAGATACAAATCTTATCTCCCTGAAGTTGCAGTGG
AAAGAGTAAAGCTAAATTACAAGTCTTA
Found at i:3399712 original size:89 final size:89
Alignment explanation
Indices: 3399606--3399780 Score: 298
Period size: 89 Copynumber: 2.0 Consensus size: 89
3399596 TGAAGACGGT
3399606 AAATCTTGCCTTCCTGAAGTTGCACTGAAGCAGATTCAAGCCACCAAGCCTTAATCACT-TAAGC
1 AAATCTTGCCTTCCTGAAGTTGCACTGAAGCAGATTCAAGCCACCAAGCCTTAA-CACTATAAGC
*
3399670 AGTAGGGTAATAGGCTGAAAATTAC
65 AATAGGGTAATAGGCTGAAAATTAC
** *
3399695 AAATCTTGCCTTCCTGAAGTTGCGGTGAAGCAGATTCAAGCCACCAAGCCTTAACCCTATAAGCA
1 AAATCTTGCCTTCCTGAAGTTGCACTGAAGCAGATTCAAGCCACCAAGCCTTAACACTATAAGCA
3399760 ATAGGGTAATAGGCTGAAAAT
66 ATAGGGTAATAGGCTGAAAAT
3399781 CATTAGTCTT
Statistics
Matches: 81, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
88 3 0.04
89 78 0.96
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (89 bp):
AAATCTTGCCTTCCTGAAGTTGCACTGAAGCAGATTCAAGCCACCAAGCCTTAACACTATAAGCA
ATAGGGTAATAGGCTGAAAATTAC
Found at i:3399816 original size:89 final size:89
Alignment explanation
Indices: 3399606--3399817 Score: 275
Period size: 89 Copynumber: 2.4 Consensus size: 89
3399596 TGAAGACGGT
* *
3399606 AAATCTTGCCTTCCTGAAGTTGCACTGAAGCAGATTCAAGCCACCAAGCCTTAATCACTTAAGCA
1 AAATCTTACCTTCCTGAAGTTGCAGTGAAGCAGATTCAAGCCACCAAGCCTTAATCACTTAAGCA
* *
3399671 GTAGGGTAATAGGCTGAAAATTAC
66 ATAGGGTAATAGGCTGAAAATCAC
* * *
3399695 AAATCTTGCCTTCCTGAAGTTGCGGTGAAGCAGATTCAAGCCACCAAGCCTTAA-CCCTATAAGC
1 AAATCTTACCTTCCTGAAGTTGCAGTGAAGCAGATTCAAGCCACCAAGCCTTAATCACT-TAAGC
*
3399759 AATAGGGTAATAGGCTGAAAATCAT
65 AATAGGGTAATAGGCTGAAAATCAC
* * * * *
3399784 TAGTCTTATC-TCCTTGAAATTGCAGTGGAGCAGA
1 AAATCTTACCTTCC-TGAAGTTGCAGTGAAGCAGA
3399818 CTGAAGACAA
Statistics
Matches: 108, Mismatches: 13, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
88 6 0.06
89 102 0.94
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (89 bp):
AAATCTTACCTTCCTGAAGTTGCAGTGAAGCAGATTCAAGCCACCAAGCCTTAATCACTTAAGCA
ATAGGGTAATAGGCTGAAAATCAC
Found at i:3400212 original size:44 final size:44
Alignment explanation
Indices: 3400164--3400297 Score: 137
Period size: 44 Copynumber: 3.0 Consensus size: 44
3400154 TAGATTAAAA
*
3400164 CAGATTTGGCGTCTCTGTGTTGGTAGAGAGCAGATCGAAAATAG
1 CAGATTTGGCGTCTCTGTGTTGATAGAGAGCAGATCGAAAATAG
* * * * * * *
3400208 CAGATTTGGCATCCCTATGCTT-ATAGGGAACAGATCGAAGATAA
1 CAGATTTGGCGTCTCTGTG-TTGATAGAGAGCAGATCGAAAATAG
* * *
3400252 CGGATTTGGCGTCTCTGTATTGACAGAGAGCAGATC-AAAGATAG
1 CAGATTTGGCGTCTCTGTGTTGATAGAGAGCAGATCGAAA-ATAG
3400296 CA
1 CA
3400298 AATATCGCCT
Statistics
Matches: 68, Mismatches: 19, Indels: 6
0.73 0.20 0.06
Matches are distributed among these distances:
43 4 0.06
44 62 0.91
45 2 0.03
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.25
Consensus pattern (44 bp):
CAGATTTGGCGTCTCTGTGTTGATAGAGAGCAGATCGAAAATAG
Found at i:3401784 original size:16 final size:15
Alignment explanation
Indices: 3401736--3401786 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
3401726 AATTATTTTC
3401736 CTATTATTTATTATA
1 CTATTATTTATTATA
*
3401751 CTATT-TTT-TTACA
1 CTATTATTTATTATA
3401764 CTATTATTTATTATA
1 CTATTATTTATTATA
3401779 CTTATTAT
1 C-TATTAT
3401787 ATCATTTTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
13 9 0.29
14 6 0.19
15 10 0.32
16 6 0.19
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.61
Consensus pattern (15 bp):
CTATTATTTATTATA
Found at i:3408311 original size:25 final size:25
Alignment explanation
Indices: 3408283--3408330 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
3408273 GACGTGGAGC
*
3408283 AATTTTGT-GCCATGCAAAGTGCTGA
1 AATTTT-TAGCCATACAAAGTGCTGA
3408308 AATTTTTAGCCATACAAAGTGCT
1 AATTTTTAGCCATACAAAGTGCT
3408331 CCATTATTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 1 0.05
25 20 0.95
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (25 bp):
AATTTTTAGCCATACAAAGTGCTGA
Found at i:3416482 original size:20 final size:20
Alignment explanation
Indices: 3416444--3416491 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
3416434 TAAATTCTAA
* **
3416444 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
3416464 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
3416484 AAA-ATAAA
1 AAAGATAAA
3416492 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:3416535 original size:15 final size:15
Alignment explanation
Indices: 3416515--3416544 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3416505 ATAATCTTAA
*
3416515 TAATTATCTTAATAT
1 TAATTATCCTAATAT
3416530 TAATTATCCTAATAT
1 TAATTATCCTAATAT
3416545 AAATAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:3418083 original size:18 final size:18
Alignment explanation
Indices: 3418052--3418089 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
3418042 AATATCTGGA
* *
3418052 AATAATAAATAATAAAAT
1 AATAAGAAAAAATAAAAT
3418070 AATAAGAAAAAATAAAAT
1 AATAAGAAAAAATAAAAT
3418088 AA
1 AA
3418090 ACTAAAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (18 bp):
AATAAGAAAAAATAAAAT
Found at i:3418086 original size:5 final size:5
Alignment explanation
Indices: 3418062--3418112 Score: 54
Period size: 5 Copynumber: 10.4 Consensus size: 5
3418052 AATAATAAAT
*
3418062 AATAA AAT-- AATAA GAA-AA AATAA AATAA ACTAA AATAA AATAAA AATAA
1 AATAA AATAA AATAA -AATAA AATAA AATAA AATAA AATAA AAT-AA AATAA
3418111 AA
1 AA
3418113 ATTGGGTTAC
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
3 3 0.08
4 2 0.05
5 27 0.69
6 7 0.18
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (5 bp):
AATAA
Found at i:3418109 original size:11 final size:11
Alignment explanation
Indices: 3418055--3418112 Score: 57
Period size: 10 Copynumber: 5.2 Consensus size: 11
3418045 ATCTGGAAAT
3418055 AATAAATAATAA
1 AATAAA-AATAA
*
3418067 AATAATAAGAAAA
1 AATAA-AA-ATAA
3418080 AAT-AAAATAA
1 AATAAAAATAA
*
3418090 ACT-AAAATAA
1 AATAAAAATAA
3418100 AATAAAAATAA
1 AATAAAAATAA
3418111 AA
1 AA
3418113 ATTGGGTTAC
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
10 14 0.36
11 11 0.28
12 7 0.18
13 7 0.18
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.19
Consensus pattern (11 bp):
AATAAAAATAA
Found at i:3421376 original size:29 final size:30
Alignment explanation
Indices: 3421317--3421374 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
3421307 TCCGAGCCTT
*
3421317 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
3421347 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
3421375 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:3421604 original size:13 final size:13
Alignment explanation
Indices: 3421586--3421617 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
3421576 TTTCCAGCAA
3421586 TTATGAATTTATT
1 TTATGAATTTATT
3421599 TTATGAATTTATT
1 TTATGAATTTATT
*
3421612 TGATGA
1 TTATGA
3421618 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:3421825 original size:50 final size:50
Alignment explanation
Indices: 3421712--3421953 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
3421702 ATTTGGGTAA
* * *
3421712 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
3421768 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
3421818 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
3421868 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
3421918 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
3421954 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:3421901 original size:100 final size:103
Alignment explanation
Indices: 3421712--3421961 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
3421702 ATTTGGGTAA
3421712 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
3421777 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
3421818 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
3421880 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
3421918 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
3421962 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:3428970 original size:29 final size:30
Alignment explanation
Indices: 3428911--3428968 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
3428901 TCCGAGCCTT
*
3428911 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
3428941 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
3428969 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:3429198 original size:13 final size:13
Alignment explanation
Indices: 3429180--3429211 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
3429170 TTTCCAGCAA
3429180 TTATGAATTTATT
1 TTATGAATTTATT
3429193 TTATGAATTTATT
1 TTATGAATTTATT
*
3429206 TGATGA
1 TTATGA
3429212 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:3429419 original size:50 final size:50
Alignment explanation
Indices: 3429306--3429547 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
3429296 ATTTGGGTAA
* * *
3429306 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
3429362 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
3429412 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
3429462 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
3429512 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
3429548 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:3429495 original size:100 final size:103
Alignment explanation
Indices: 3429306--3429555 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
3429296 ATTTGGGTAA
3429306 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
3429371 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
3429412 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
3429474 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
3429512 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
3429556 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:3432083 original size:35 final size:36
Alignment explanation
Indices: 3431964--3432094 Score: 128
Period size: 35 Copynumber: 3.6 Consensus size: 36
3431954 CCTCATTGAA
*
3431964 ATACCATACCTACATATT-ACAACTCGGTATGGGAATTG
1 ATACCATACCTACAT-TTCACAACTCAGTAT-GG-ATTG
* **
3432002 -T--CATACCTACGTTTCTTAACTCAGTATGGATTTG
1 ATACCATACCTACATTTCACAACTCAGTATGGA-TTG
3432036 ATAATACCATACCTACATTTCACAACTCAGTATGGA-TG
1 ---ATACCATACCTACATTTCACAACTCAGTATGGATTG
3432074 ATACCATACCTACATTTCACA
1 ATACCATACCTACATTTCACA
3432095 CATTTCCATG
Statistics
Matches: 78, Mismatches: 7, Indels: 19
0.75 0.07 0.18
Matches are distributed among these distances:
33 1 0.01
34 7 0.09
35 40 0.51
37 1 0.01
38 3 0.04
40 26 0.33
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (36 bp):
ATACCATACCTACATTTCACAACTCAGTATGGATTG
Found at i:3432364 original size:10 final size:10
Alignment explanation
Indices: 3432349--3432380 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
3432339 TAAATACATT
3432349 TAATTAAAGA
1 TAATTAAAGA
3432359 TAATTAAAGA
1 TAATTAAAGA
3432369 TAATTAAA-A
1 TAATTAAAGA
3432378 TAA
1 TAA
3432381 AATCCTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:3432406 original size:27 final size:26
Alignment explanation
Indices: 3432376--3432438 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
3432366 AGATAATTAA
3432376 AATAAAATCCTAAAATTAAATAATCCT
1 AATAAAATCCTAAAATT-AATAATCCT
* * * *
3432403 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCCTAAAATTAATAATCCT
3432430 AATATAAAT
1 AATA-AAAT
3432439 AAAATGGAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 19 0.66
28 10 0.34
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (26 bp):
AATAAAATCCTAAAATTAATAATCCT
Found at i:3432425 original size:15 final size:15
Alignment explanation
Indices: 3432405--3432434 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3432395 ATAATCCTAA
*
3432405 TAATTATCTTAATAT
1 TAATTATCCTAATAT
3432420 TAATTATCCTAATAT
1 TAATTATCCTAATAT
3432435 AAATAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:3432997 original size:35 final size:36
Alignment explanation
Indices: 3432878--3433008 Score: 128
Period size: 35 Copynumber: 3.6 Consensus size: 36
3432868 CCTCATTGAA
*
3432878 ATACCATACCTACATATT-ACAACTCGGTATGGGAATTG
1 ATACCATACCTACAT-TTCACAACTCAGTAT-GG-ATTG
* **
3432916 -T--CATACCTACGTTTCTTAACTCAGTATGGATTTG
1 ATACCATACCTACATTTCACAACTCAGTATGGA-TTG
3432950 ATAATACCATACCTACATTTCACAACTCAGTATGGA-TG
1 ---ATACCATACCTACATTTCACAACTCAGTATGGATTG
3432988 ATACCATACCTACATTTCACA
1 ATACCATACCTACATTTCACA
3433009 CATTTCCATG
Statistics
Matches: 78, Mismatches: 7, Indels: 19
0.75 0.07 0.18
Matches are distributed among these distances:
33 1 0.01
34 7 0.09
35 40 0.51
37 1 0.01
38 3 0.04
40 26 0.33
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (36 bp):
ATACCATACCTACATTTCACAACTCAGTATGGATTG
Found at i:3442289 original size:40 final size:40
Alignment explanation
Indices: 3442234--3442316 Score: 134
Period size: 40 Copynumber: 2.1 Consensus size: 40
3442224 ACATCTTTAG
3442234 TTGCACGTACTTTACCCGGGA-AACTTATGTGCAT-AGATTC
1 TTGCACGTACTTTACCC-GGACAACTTATGTGCATGA-ATTC
3442274 TTGCACGTACTTTACCCGGACAACTTATGTGCATGAATTC
1 TTGCACGTACTTTACCCGGACAACTTATGTGCATGAATTC
3442314 TTG
1 TTG
3442317 TGTGCATGAA
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
39 3 0.07
40 37 0.90
41 1 0.02
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (40 bp):
TTGCACGTACTTTACCCGGACAACTTATGTGCATGAATTC
Found at i:3445842 original size:30 final size:28
Alignment explanation
Indices: 3445806--3445865 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
3445796 GCCATAGATA
3445806 TTATTTTAATGAAATTACTATTATATAATT
1 TTATTTT-ATGAAATTAC-ATTATATAATT
* * *
3445836 TTATTTTATTATATTACATTTTATAATT
1 TTATTTTATGAAATTACATTATATAATT
3445864 TT
1 TT
3445866 TTTAAAAGGG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 12 0.44
29 8 0.30
30 7 0.26
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (28 bp):
TTATTTTATGAAATTACATTATATAATT
Found at i:3447375 original size:14 final size:13
Alignment explanation
Indices: 3447348--3447389 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
3447338 TAAAAGAAAA
*
3447348 TAAATAAAATTAT
1 TAAATAAAAATAT
*
3447361 TAAATATTAAATAT
1 TAAATA-AAAATAT
3447375 TAAATAAAAATAT
1 TAAATAAAAATAT
3447388 TA
1 TA
3447390 TTTTTTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAATAAAAATAT
Found at i:3456879 original size:40 final size:40
Alignment explanation
Indices: 3456824--3456906 Score: 134
Period size: 40 Copynumber: 2.1 Consensus size: 40
3456814 TTCATACACA
3456824 CAAGAATTCATGCACATAAGTTGT-CCGGGTAAAGTACGTG
1 CAAGAATTCATGCACATAAGTT-TCCCGGGTAAAGTACGTG
3456864 CAAGAA-TCTATGCACATAAGTTTCCCGGGTAAAGTACGTG
1 CAAGAATTC-ATGCACATAAGTTTCCCGGGTAAAGTACGTG
3456904 CAA
1 CAA
3456907 CTAAAGATGT
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
39 3 0.07
40 38 0.93
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAGAATTCATGCACATAAGTTTCCCGGGTAAAGTACGTG
Found at i:3459821 original size:40 final size:40
Alignment explanation
Indices: 3459764--3459846 Score: 132
Period size: 40 Copynumber: 2.1 Consensus size: 40
3459754 TTCATACACA
*
3459764 CAAGAATTCATGCACATAAGTTGT-CCGGGTAAAGTACGTG
1 CAAGAATCCATGCACATAAGTT-TCCCGGGTAAAGTACGTG
*
3459804 CAAGAATCCATGTACATAAGTTTCCCGGGTAAAGTACGTG
1 CAAGAATCCATGCACATAAGTTTCCCGGGTAAAGTACGTG
3459844 CAA
1 CAA
3459847 CTGAAGATGT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
39 1 0.03
40 39 0.98
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAGAATCCATGCACATAAGTTTCCCGGGTAAAGTACGTG
Found at i:3471641 original size:40 final size:40
Alignment explanation
Indices: 3471586--3471663 Score: 156
Period size: 40 Copynumber: 1.9 Consensus size: 40
3471576 TGGAACAGAG
3471586 TATACTTCAGCTCAGTTTCAAGCCTTTTGTGATAAGGCGT
1 TATACTTCAGCTCAGTTTCAAGCCTTTTGTGATAAGGCGT
3471626 TATACTTCAGCTCAGTTTCAAGCCTTTTGTGATAAGGC
1 TATACTTCAGCTCAGTTTCAAGCCTTTTGTGATAAGGC
3471664 AGGTATCAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (40 bp):
TATACTTCAGCTCAGTTTCAAGCCTTTTGTGATAAGGCGT
Found at i:3474342 original size:21 final size:20
Alignment explanation
Indices: 3474318--3474358 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
3474308 AATGTGACGA
*
3474318 AATTGATATGAATATGTGATT
1 AATTGAAATGAATAT-TGATT
*
3474339 AATTGAAATGTATATTGATT
1 AATTGAAATGAATATTGATT
3474359 GGAAACTGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.00, G:0.17, T:0.44
Consensus pattern (20 bp):
AATTGAAATGAATATTGATT
Found at i:3474629 original size:25 final size:27
Alignment explanation
Indices: 3474529--3474656 Score: 81
Period size: 28 Copynumber: 4.7 Consensus size: 27
3474519 TGCCTTATTG
*
3474529 GTGTGTTTGGGAGGA-TATGATATACTG
1 GTGTGTTTGGGAGGATTAT-ATATACTA
* **
3474556 GTGTGTTAT-GGAGGATTTATAATATTCCGG
1 GTGTGTT-TGGGAGGA-TTAT-ATA-TACTA
*
3474586 GTGTGTTTGGGTTGG---ATAT-T-CTA
1 GTGTGTTTGGG-AGGATTATATATACTA
*
3474609 GTGTGTTTGGGAGGATTATATGATACTG
1 GTGTGTTTGGGAGGATTATAT-ATACTA
*
3474637 GTGTGTTTTGGAGGATTATA
1 GTGTGTTTGGGAGGATTATA
3474657 CTGGTGTGTT
Statistics
Matches: 80, Mismatches: 9, Indels: 23
0.71 0.08 0.21
Matches are distributed among these distances:
22 2 0.03
23 12 0.15
24 1 0.01
25 4 0.05
26 2 0.03
27 16 0.20
28 22 0.28
29 7 0.09
30 12 0.15
31 2 0.03
ACGTcount: A:0.20, C:0.04, G:0.34, T:0.41
Consensus pattern (27 bp):
GTGTGTTTGGGAGGATTATATATACTA
Found at i:3474665 original size:51 final size:52
Alignment explanation
Indices: 3474547--3474667 Score: 124
Period size: 51 Copynumber: 2.3 Consensus size: 52
3474537 GGGAGGATAT
* *
3474547 GATATACTGGTGTGTTATGGAGGATTTATAATATTCCGGGTGTGTTTGGGTTG
1 GATATACTGGTGTGTT-TGGAGGATTTATAATATTACGGGTGTGTTTGGGTAG
* * * *
3474600 GATATTCTAGTGTGTTTGGGAGGA-TTAT-ATGA-TACTGGTGTGTTTTGG-AG
1 GATATACTGGTGTGTTT-GGAGGATTTATAAT-ATTACGGGTGTGTTTGGGTAG
3474650 GATTATACTGGTGTGTTT
1 GA-TATACTGGTGTGTTT
3474668 TGGTTGGACA
Statistics
Matches: 57, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
50 3 0.05
51 28 0.49
52 6 0.11
53 20 0.35
ACGTcount: A:0.19, C:0.05, G:0.33, T:0.43
Consensus pattern (52 bp):
GATATACTGGTGTGTTTGGAGGATTTATAATATTACGGGTGTGTTTGGGTAG
Found at i:3487293 original size:18 final size:18
Alignment explanation
Indices: 3487270--3487323 Score: 81
Period size: 18 Copynumber: 3.0 Consensus size: 18
3487260 CCCAACTACT
* *
3487270 GTATACGTGAACAGTATC
1 GTATACGTGAATAGTACC
*
3487288 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
3487306 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
3487324 ATAAACGGTC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:3490208 original size:24 final size:23
Alignment explanation
Indices: 3490167--3490213 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
3490157 AAAAGACACC
*
3490167 AAATATACAAAGATATAATATAAA
1 AAATATACAAAGAAATAA-ATAAA
3490191 AAATATAACAAA-AAATAAATAAA
1 AAATAT-ACAAAGAAATAAATAAA
3490214 TAAAAACTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 5 0.24
24 11 0.52
25 5 0.24
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.21
Consensus pattern (23 bp):
AAATATACAAAGAAATAAATAAA
Found at i:3490857 original size:33 final size:30
Alignment explanation
Indices: 3490820--3490887 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 30
3490810 CAAATTACTC
* *
3490820 ATTATTATTTTCTGATATTTACTATTATTATT
1 ATTATTAATCTCTG-TA-TTACTATTATTATT
*
3490852 AATTA-TAATCTCTGTATTATTATTATTATT
1 -ATTATTAATCTCTGTATTACTATTATTATT
3490882 ATTATT
1 ATTATT
3490888 GTATTTATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
29 4 0.13
30 14 0.45
31 2 0.06
32 7 0.23
33 4 0.13
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.60
Consensus pattern (30 bp):
ATTATTAATCTCTGTATTACTATTATTATT
Found at i:3492058 original size:21 final size:21
Alignment explanation
Indices: 3492034--3492085 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
3492024 ACTATTATTT
* *
3492034 TATTTATTTTTATTCCTAGTA
1 TATTTATTTTTAATACTAGTA
* *
3492055 TATTTATTATTAATATTAGTA
1 TATTTATTTTTAATACTAGTA
*
3492076 TATGTATTTT
1 TATTTATTTT
3492086 ATTATATGTA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.29, C:0.04, G:0.06, T:0.62
Consensus pattern (21 bp):
TATTTATTTTTAATACTAGTA
Found at i:3499422 original size:87 final size:88
Alignment explanation
Indices: 3499276--3499449 Score: 332
Period size: 87 Copynumber: 2.0 Consensus size: 88
3499266 TCCACAACAA
3499276 CTTCAGGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGAGCTAGGATGGT
1 CTTCAGGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGAGCTAGGATGGT
3499341 -GCTTAAATCTGCTTCACTGCAG
66 GGCTTAAATCTGCTTCACTGCAG
*
3499363 CTTCAGGGAAACAATATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGAGCTAGGATGGT
1 CTTCAGGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGAGCTAGGATGGT
3499428 GGCTTAAATCTGCTTCACTGCA
66 GGCTTAAATCTGCTTCACTGCA
3499450 ACATCAGGAA
Statistics
Matches: 85, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
87 64 0.75
88 21 0.25
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (88 bp):
CTTCAGGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGAGCTAGGATGGT
GGCTTAAATCTGCTTCACTGCAG
Found at i:3499508 original size:133 final size:133
Alignment explanation
Indices: 3499347--3500046 Score: 1098
Period size: 133 Copynumber: 5.3 Consensus size: 133
3499337 TGGTGCTTAA
* * *
3499347 ATCTGCTTCACTGC-AGCTTCAGGGAAACAATATCTACAATCTTCAGCCTACTCCACTACAACTT
1 ATCTGCTCCACTGCAATC-TCAGGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTT
*
3499411 TAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACATCAGGAAGCCTAGATTCGCCGTC
65 TAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACATCAGGAAGCCTAGATTCACCGTC
3499476 TTCG
130 TTCG
* * *
3499480 ATCTGTTCCACTGCAATCTCAGGGAAACAAGATTTACAATCTTCAACCTACTCCACTACAACTTT
1 ATCTGCTCCACTGCAATCTCAGGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTT
* *
3499545 AGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACATCAGGAAGCCTAGATTCGCTGTCT
66 AGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACATCAGGAAGCCTAGATTCACCGTCT
3499610 TCG
131 TCG
* * *
3499613 ATCTGCTCTACTGTAATCTCAGGGAAACAAGATCTACAATCTTCAGCCTACTCCGCTACAACTTT
1 ATCTGCTCCACTGCAATCTCAGGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTT
*
3499678 AGGGAGCTAGGATGGTGGCTTAAATCTACTTCACTGCAACATCAGGAAGCCTAGATTCACCGTCT
66 AGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACATCAGGAAGCCTAGATTCACCGTCT
*
3499743 TCA
131 TCG
* * * *
3499746 ATCTGCTCCACTGCAATCTCAGAGAAACAAGATTTACAATCTTCAGCCTACTCCCCTACAACCTT
1 ATCTGCTCCACTGCAATCTCAGGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTT
*
3499811 AGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACATCAGGAAGCCTATATTCACCGTCT
66 AGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACATCAGGAAGCCTAGATTCACCGTCT
3499876 TCG
131 TCG
* * *
3499879 ATCTGTTCCACTGCAATATCAGGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACATT
1 ATCTGCTCCACTGCAATCTCAGGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTT
* * * * *
3499944 AGGGAGCTAGGATGGTGGTTTAAATCTGCTTCAGTGCAATATCAGGAAGCCTAGATTCCCCATCT
66 AGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACATCAGGAAGCCTAGATTCACCGTCT
3500009 TCG
131 TCG
** *
3500012 ATCTGCTCCACTATAA-CATCAGGGAAATAAGATCT
1 ATCTGCTCCACTGCAATC-TCAGGGAAACAAGATCT
3500047 TCTATGGTGA
Statistics
Matches: 522, Mismatches: 43, Indels: 4
0.92 0.08 0.01
Matches are distributed among these distances:
133 520 1.00
134 2 0.00
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.27
Consensus pattern (133 bp):
ATCTGCTCCACTGCAATCTCAGGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTT
AGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACATCAGGAAGCCTAGATTCACCGTCT
TCG
Found at i:3506090 original size:21 final size:21
Alignment explanation
Indices: 3506064--3506106 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
3506054 TCAGAGAGTA
3506064 AGCATTTTATTTAAAACTCGT
1 AGCATTTTATTTAAAACTCGT
3506085 AGCATTTTATTTAAAACTCGT
1 AGCATTTTATTTAAAACTCGT
3506106 A
1 A
3506107 TTGTGATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.42
Consensus pattern (21 bp):
AGCATTTTATTTAAAACTCGT
Done.