Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 24 of 202
Found at i:6979042 original size:17 final size:17
Alignment explanation
Indices: 6979020--6979053 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
6979010 CAGATGGACG
6979020 ACCATGGTTCCATGATA
1 ACCATGGTTCCATGATA
6979037 ACCATGGTTCCATGATA
1 ACCATGGTTCCATGATA
6979054 TCTTGGAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (17 bp):
ACCATGGTTCCATGATA
Found at i:6981303 original size:77 final size:77
Alignment explanation
Indices: 6981107--6981624 Score: 722
Period size: 77 Copynumber: 6.8 Consensus size: 77
6981097 CATCTTTCAA
* *
6981107 AAAAAAATCAACTCATAATTCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTCTCAA
1 AAAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTCTCAA
* *
6981172 TGCCTGTTTTTC
66 TGTCTATTTTTC
* *
6981184 -AAAAAATCAACTCATAATTCGAGAGGTGAGTTGAGCCTCGGGTCATACGCTGAGGTATTCTCAA
1 AAAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTCTCAA
6981248 TGTCTATTTTTC
66 TGTCTATTTTTC
* * *
6981260 AAAAAAATTAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCAGAGGTATTCTCAA
1 AAAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTCTCAA
6981325 TGTCTATTTTTC
66 TGTCTATTTTTC
* * * *
6981337 AAAAAAATTAACTCATAATCCGAGAGATGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTCAA
1 AAAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTCTCAA
6981402 TGTCTATTTTTC
66 TGTCTATTTTTC
* * *
6981414 AAAAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCGCGGGTCGCACGCTGAGGTATTTTCA
1 -AAAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTCTCA
*
6981479 ATTTCTATTTTTC
65 ATGTCTATTTTTC
* * * * *
6981492 --AAAAATCAACTCATAATCCAATAGGTGAGTTGAGCCTAGGGTCACACGTTGAGGTATTTTCAA
1 AAAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTCTCAA
*
6981555 TTTCTATTTTTC
66 TGTCTATTTTTC
* * * * * * *
6981567 --AAAGATCAACTCATAATTCGAGAGGTGGGTTGAGCCTCGAGTCGCACACCGAGGTATT
1 AAAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATT
6981625 TTTAAATTTC
Statistics
Matches: 402, Mismatches: 37, Indels: 6
0.90 0.08 0.01
Matches are distributed among these distances:
75 116 0.29
76 72 0.18
77 143 0.36
78 71 0.18
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (77 bp):
AAAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTCTCAA
TGTCTATTTTTC
Found at i:6981418 original size:153 final size:153
Alignment explanation
Indices: 6981107--6981624 Score: 765
Period size: 153 Copynumber: 3.4 Consensus size: 153
6981097 CATCTTTCAA
*
6981107 AAAAAAATCAACTCATAATTCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTCTCAA
1 AAAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTCTCAA
* * * * *
6981172 TGCCTGTTTTTCAAAAAATCAACTCATAATTCGAGAGGTGAGTTGAGCCTCGGGTCATACGCTGA
66 TGTCTATTTTTCAAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGA
*
6981237 GGTATTCTCAATGTCTATTTTTC
131 GGTATTTTCAATGTCTATTTTTC
* *
6981260 AAAAAAATTAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCAGAGGTATTCTCAA
1 AAAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTCTCAA
* *
6981325 TGTCTATTTTTCAAAAAAATTAACTCATAATCCGAGAGATGAGTTGAGCCTCAGGTCACACGCTG
66 TGTCTATTTTTC-AAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTG
6981390 AGGTATTTTCAATGTCTATTTTTC
130 AGGTATTTTCAATGTCTATTTTTC
* *
6981414 AAAAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCGCGGGTCGCACGCTGAGGTATTTTCA
1 -AAAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTCTCA
* * * *
6981479 ATTTCTATTTTTC-AAAAATCAACTCATAATCCAATAGGTGAGTTGAGCCT-AGGGTCACACGTT
65 ATGTCTATTTTTCAAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCA-GGTCACACGCT
*
6981542 GAGGTATTTTCAATTTCTATTTTTC
129 GAGGTATTTTCAATGTCTATTTTTC
* * * * * *
6981567 --AAAGATCAACTCATAATTCGAGAGGTGGGTTGAGCCTCGAGTCGCACACCGAGGTATT
1 AAAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATT
6981625 TTTAAATTTC
Statistics
Matches: 333, Mismatches: 29, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
150 51 0.15
152 1 0.00
153 139 0.42
154 70 0.21
155 72 0.22
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (153 bp):
AAAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTCTCAA
TGTCTATTTTTCAAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGA
GGTATTTTCAATGTCTATTTTTC
Found at i:6981510 original size:230 final size:228
Alignment explanation
Indices: 6981107--6981626 Score: 731
Period size: 230 Copynumber: 2.3 Consensus size: 228
6981097 CATCTTTCAA
*
6981107 AAAAAAATCAACTCATAATTCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTCTCAA
1 AAAAAAATCAACTCATAATTCGAGAGGTGAGTTGAGCCTC-GGTCGCACGCTGAGGTATTTTCAA
* * * *
6981172 TGCCTGTTTTTCAAAAAATCAACTCATAATTCGAGAGGTGAGTTGAGCCTCGGGTCATACGCTGA
65 TGCCTATTTTTCAAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCGCGGGTCACACGCTGA
* * *
6981237 GGTATTCTCAATGTCTATTTTTCAAAAAAATTAACTCATAATCCGAGAGGTGAGTTGAGCCTCGG
130 GGTATTCTCAATGTCTATTTTTC-AAAAAATCAACTCATAATCCAAGAGGTGAGTTGAGCCTAGG
*
6981302 GTCGCACGCAGAGGTATTCTCAATGTCTATTTTTC
194 GTCACACGCAGAGGTATTCTCAATGTCTATTTTTC
* * * *
6981337 AAAAAAATTAACTCATAATCCGAGAGATGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTCAA
1 AAAAAAATCAACTCATAATTCGAGAGGTGAGTTGAGCCTC-GGTCGCACGCTGAGGTATTTTCAA
* *
6981402 TGTCTATTTTTCAAAAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCGCGGGTCGCACGCT
65 TGCCTATTTTTC--AAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCGCGGGTCACACGCT
* * *
6981467 GAGGTATTTTCAATTTCTATTTTTC-AAAAATCAACTCATAATCCAATAGGTGAGTTGAGCCTAG
128 GAGGTATTCTCAATGTCTATTTTTCAAAAAATCAACTCATAATCCAAGAGGTGAGTTGAGCCTAG
** * *
6981531 GGTCACACGTTGAGGTATTTTCAATTTCTATTTTTC
193 GGTCACACGCAGAGGTATTCTCAATGTCTATTTTTC
* * * *
6981567 --AAAGATCAACTCATAATTCGAGAGGTGGGTTGAGCCTCGAGTCGCACACCGAGGTATTTT
1 AAAAAAATCAACTCATAATTCGAGAGGTGAGTTGAGCCTCG-GTCGCACGCTGAGGTATTTT
6981627 TAAATTTCAA
Statistics
Matches: 256, Mismatches: 31, Indels: 8
0.87 0.11 0.03
Matches are distributed among these distances:
227 1 0.00
228 50 0.20
230 135 0.53
232 70 0.27
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (228 bp):
AAAAAAATCAACTCATAATTCGAGAGGTGAGTTGAGCCTCGGTCGCACGCTGAGGTATTTTCAAT
GCCTATTTTTCAAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCGCGGGTCACACGCTGAG
GTATTCTCAATGTCTATTTTTCAAAAAATCAACTCATAATCCAAGAGGTGAGTTGAGCCTAGGGT
CACACGCAGAGGTATTCTCAATGTCTATTTTTC
Found at i:6982704 original size:11 final size:12
Alignment explanation
Indices: 6982687--6982737 Score: 70
Period size: 11 Copynumber: 4.4 Consensus size: 12
6982677 TGAGTTGAGA
* *
6982687 AAAAAAAGAAGG
1 AAAAAATGAAAG
6982699 AAAAAA-GAAAG
1 AAAAAATGAAAG
6982710 AAAAAATG-AAG
1 AAAAAATGAAAG
6982721 AAAAAATGAAAG
1 AAAAAATGAAAG
6982733 AAAAA
1 AAAAA
6982738 TAAAATAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
11 21 0.58
12 15 0.42
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.04
Consensus pattern (12 bp):
AAAAAATGAAAG
Found at i:6982720 original size:23 final size:23
Alignment explanation
Indices: 6982687--6982737 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
6982677 TGAGTTGAGA
6982687 AAAAAAAGAAGGAAAAAA-GAAAG
1 AAAAAAAGAA-GAAAAAATGAAAG
*
6982710 AAAAAATGAAGAAAAAATGAAAG
1 AAAAAAAGAAGAAAAAATGAAAG
6982733 AAAAA
1 AAAAA
6982738 TAAAATAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 7 0.27
23 19 0.73
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.04
Consensus pattern (23 bp):
AAAAAAAGAAGAAAAAATGAAAG
Found at i:6984589 original size:2 final size:2
Alignment explanation
Indices: 6984584--6984639 Score: 87
Period size: 2 Copynumber: 28.0 Consensus size: 2
6984574 TGAGGTTCGA
*
6984584 AT AT AT AGT -T AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6984626 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
6984640 GTACAGGTAT
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
1 1 0.02
2 48 0.96
3 1 0.02
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6985085 original size:41 final size:41
Alignment explanation
Indices: 6984952--6985072 Score: 197
Period size: 41 Copynumber: 3.0 Consensus size: 41
6984942 GACTTTAAGT
** *
6984952 CTAGCAGGCTAATTGCCGGTGATCTGAATCAGATTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
*
6984993 CTAGCAGGCTACGTGCCAGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
*
6985034 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCTATAA
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAA
6985073 GTCTAGCGGG
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
41 74 1.00
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (41 bp):
CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:6988748 original size:28 final size:28
Alignment explanation
Indices: 6988716--6988775 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 28
6988706 TTATTATTTC
*
6988716 AAAATTT-ATTTGGTGGA-ACATTAATGTT
1 AAAATTTGA-TTGGTGGATA-ATTAAGGTT
6988744 AAAATTTGATTGGTGGATAATTAAGGTT
1 AAAATTTGATTGGTGGATAATTAAGGTT
6988772 AAAA
1 AAAA
6988776 CTTGTTATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 27 0.93
29 2 0.07
ACGTcount: A:0.40, C:0.02, G:0.20, T:0.38
Consensus pattern (28 bp):
AAAATTTGATTGGTGGATAATTAAGGTT
Found at i:6988887 original size:14 final size:15
Alignment explanation
Indices: 6988862--6988896 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
6988852 ATTTTTTTTA
6988862 TTTTTCATTCTTTCC
1 TTTTTCATTCTTTCC
*
6988877 TTTTTCA-TCTTTCT
1 TTTTTCATTCTTTCC
6988891 TTTTTC
1 TTTTTC
6988897 TCCATTTGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.06, C:0.23, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTTCATTCTTTCC
Found at i:6989080 original size:64 final size:64
Alignment explanation
Indices: 6989006--6989160 Score: 188
Period size: 64 Copynumber: 2.4 Consensus size: 64
6988996 ATAGGTGCCC
* *
6989006 ACCACTTCAACACCAACATAAAACAAAAAT-AAAAATTCATTTTTT-AAGTTTTGAATCGATGTC
1 ACCACTTCAACACCAACACAAAA-AAAAATAAAAAATT-ATTTTTTAAAGTTTTCAATCGATGTC
6989069 G
64 G
** * *
6989070 ACCACTTCAACACCGGCACCAAAAAAAATAAAAAATTATTTTTTAAAGTTTTCAATCGCTGTCG
1 ACCACTTCAACACCAACACAAAAAAAAATAAAAAATTATTTTTTAAAGTTTTCAATCGATGTCG
* * **
6989134 GCCACTTCAACATCGGCACAAAAAAAA
1 ACCACTTCAACACCAACACAAAAAAAA
6989161 TTCATTTTTT
Statistics
Matches: 80, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
63 13 0.16
64 67 0.84
ACGTcount: A:0.43, C:0.22, G:0.09, T:0.26
Consensus pattern (64 bp):
ACCACTTCAACACCAACACAAAAAAAAATAAAAAATTATTTTTTAAAGTTTTCAATCGATGTCG
Found at i:6989200 original size:59 final size:56
Alignment explanation
Indices: 6989099--6989211 Score: 147
Period size: 59 Copynumber: 2.0 Consensus size: 56
6989089 CAAAAAAAAT
*
6989099 AAAAAATTATTTTTTAAAGTTTTCAATCGCTGTCGGCCACTTCAACATCGGCACAA
1 AAAAAATTATTTTTTAAAGTTTTCAATCGCTGTCAGCCACTTCAACATCGGCACAA
* * *
6989155 AAAAAATTCATTTTTTTAATAGTTTTGAA-CTGGTGTCAGCCACTTCAACATTGGCAC
1 AAAAAATT-A-TTTTTTAA-AGTTTTCAATC-GCTGTCAGCCACTTCAACATCGGCAC
6989212 TTATTAAAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
56 8 0.16
57 1 0.02
58 9 0.18
59 31 0.63
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (56 bp):
AAAAAATTATTTTTTAAAGTTTTCAATCGCTGTCAGCCACTTCAACATCGGCACAA
Found at i:6989795 original size:60 final size:61
Alignment explanation
Indices: 6989686--6989816 Score: 158
Period size: 60 Copynumber: 2.2 Consensus size: 61
6989676 TATTAAATTT
** *
6989686 AAAAATTCAACAAATTTAACCCTCAATGTTTACAAAATTTACCATTTTAAT-TCGAATTCTA
1 AAAAATTCAACAAATTTAACCCTCAACATTTACAAAATTTACCAATTTAATAT-GAATTCTA
* * ** *
6989747 AAAAATT-AATAAATTTAGCCCTCAACATTTACAAAATTTGTCAATTTAATATTAATTCTA
1 AAAAATTCAACAAATTTAACCCTCAACATTTACAAAATTTACCAATTTAATATGAATTCTA
*
6989807 AAAATTTCAA
1 AAAAATTCAA
6989817 AAAAAATAAA
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
60 49 0.83
61 10 0.17
ACGTcount: A:0.45, C:0.15, G:0.03, T:0.37
Consensus pattern (61 bp):
AAAAATTCAACAAATTTAACCCTCAACATTTACAAAATTTACCAATTTAATATGAATTCTA
Found at i:6990255 original size:20 final size:21
Alignment explanation
Indices: 6990230--6990269 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
6990220 GAAGATCTCA
6990230 TAATAAAAA-ATATTAAAAAT
1 TAATAAAAATATATTAAAAAT
*
6990250 TAATAAAAATATTTTAAAAA
1 TAATAAAAATATATTAAAAA
6990270 ATATTTCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
TAATAAAAATATATTAAAAAT
Found at i:6991734 original size:43 final size:43
Alignment explanation
Indices: 6991673--6991915 Score: 280
Period size: 43 Copynumber: 5.7 Consensus size: 43
6991663 GATATGATTT
6991673 CGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGTTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGTTTA
6991716 CGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGTTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGTTTA
* * *
6991759 CGTGTAAGACTATGTTTGGGACGTTGGCATCGACTTGTGTTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGTTTA
* * * *
6991802 CGTGTAAGACCATGTTTGGGACATTGGCATCGTA-TT-TGATT-
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCG-ACTTGTGTTTA
* ** * * * * *
6991843 CGGGTAAGACC-CTGTCTGGGACACTAGAATTGA-TATATGATTA
1 CGTGTAAGACCAC-GTCTGGGACGTTGGCATCGACT-TGTGTTTA
*
6991886 CATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
6991916 TGTACGAGAT
Statistics
Matches: 175, Mismatches: 19, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
40 2 0.01
41 25 0.14
42 9 0.05
43 137 0.78
44 2 0.01
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGTTTA
Found at i:6995271 original size:2 final size:2
Alignment explanation
Indices: 6995264--6995313 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
6995254 GAACCATTTG
6995264 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6995306 AT AT AT AT
1 AT AT AT AT
6995314 GTGACTGAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6998201 original size:40 final size:40
Alignment explanation
Indices: 6998155--6998231 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
6998145 ATAAAGCAGG
*
6998155 AAAACGCTTCCTTAAGAAAGCACTTTGTCCACGTGGACAA
1 AAAACGCTTCCTCAAGAAAGCACTTTGTCCACGTGGACAA
* * *
6998195 AAAACGCTTCCTCAAGGAAGCGCTTTGTCTACGTGGA
1 AAAACGCTTCCTCAAGAAAGCACTTTGTCCACGTGGA
6998232 TAGGATTTAG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (40 bp):
AAAACGCTTCCTCAAGAAAGCACTTTGTCCACGTGGACAA
Found at i:6999161 original size:7 final size:7
Alignment explanation
Indices: 6999149--6999185 Score: 74
Period size: 7 Copynumber: 5.3 Consensus size: 7
6999139 TTTTTCTTAA
6999149 AAACCCT
1 AAACCCT
6999156 AAACCCT
1 AAACCCT
6999163 AAACCCT
1 AAACCCT
6999170 AAACCCT
1 AAACCCT
6999177 AAACCCT
1 AAACCCT
6999184 AA
1 AA
6999186 TCTAATTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.46, C:0.41, G:0.00, T:0.14
Consensus pattern (7 bp):
AAACCCT
Found at i:6999239 original size:110 final size:113
Alignment explanation
Indices: 6999050--6999282 Score: 382
Period size: 110 Copynumber: 2.1 Consensus size: 113
6999040 TTTTTCCTTA
* *
6999050 AAAACCCTAAATACTAAACCCCAATCTAATTTTTTTAAAAATTTTATAATTACTTTACTCAAGTA
1 AAAACCCTAAACACTAAACCCCAATCTAATTTTTTTAAAAATTTTATAATTAATTTACTCAAGTA
* *
6999115 ATCCTAAACCCTAATTTATTTAATTTTTT-CTTAAAAACCCTAAACCC
66 ATCCTAAACCCTAATTTATTTAATTTTTTCCTTAAAAACCATAAACAC
* * *
6999162 TAAACCCTAAACCCTAAACCCTAATCTAATTTTTTT-AAAA-TTTATAATTAATTTACTCAAGTA
1 AAAACCCTAAACACTAAACCCCAATCTAATTTTTTTAAAAATTTTATAATTAATTTACTCAAGTA
6999225 ATCCTAAACCCTAATTTATTTAATTTTTTCCTTAAAAACCATAAACAC
66 ATCCTAAACCCTAATTTATTTAATTTTTTCCTTAAAAACCATAAACAC
6999273 AAAACCCTAA
1 AAAACCCTAA
6999283 TCTATATTTA
Statistics
Matches: 112, Mismatches: 8, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
110 51 0.46
111 29 0.26
112 32 0.29
ACGTcount: A:0.41, C:0.21, G:0.01, T:0.36
Consensus pattern (113 bp):
AAAACCCTAAACACTAAACCCCAATCTAATTTTTTTAAAAATTTTATAATTAATTTACTCAAGTA
ATCCTAAACCCTAATTTATTTAATTTTTTCCTTAAAAACCATAAACAC
Found at i:6999328 original size:95 final size:97
Alignment explanation
Indices: 6999163--6999355 Score: 282
Period size: 95 Copynumber: 2.0 Consensus size: 97
6999153 CCTAAACCCT
* * * * * * * *
6999163 AAACCCTAAACCCTAAACCCTAATCTAATTTTTTTAAAATTTATAATTAATTTACTCAAGTAATC
1 AAACCATAAACACAAAACCCTAATCTAATTATTTAAAAATTTATAATTAATTTAATCAAGAAACC
6999228 CTAAACCCTAATTTATTTAATTTTTTCCTTAA
66 CTAAACCCTAATTTATTTAATTTTTTCCTTAA
*
6999260 AAACCATAAACACAAAACCCTAATCT-A-TATTTAAAAATTTATAATTAATTTAATTAAGAAACC
1 AAACCATAAACACAAAACCCTAATCTAATTATTTAAAAATTTATAATTAATTTAATCAAGAAACC
*
6999323 CTAAACCCTTATTTATTTAATTTTTTCCTTAA
66 CTAAACCCTAATTTATTTAATTTTTTCCTTAA
6999355 A
1 A
6999356 CCCTAAAATC
Statistics
Matches: 86, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
95 62 0.72
96 1 0.01
97 23 0.27
ACGTcount: A:0.41, C:0.18, G:0.01, T:0.39
Consensus pattern (97 bp):
AAACCATAAACACAAAACCCTAATCTAATTATTTAAAAATTTATAATTAATTTAATCAAGAAACC
CTAAACCCTAATTTATTTAATTTTTTCCTTAA
Found at i:6999487 original size:40 final size:42
Alignment explanation
Indices: 6999432--6999552 Score: 124
Period size: 40 Copynumber: 3.0 Consensus size: 42
6999422 AAACACGGGA
* *
6999432 AAAGTGCTTCCTCAAGGAAGCA-CTT-TGTCCACTTGGACAC
1 AAAGTGCTCCCTCAAGGAAGCATCTTCTGTCCACGTGGACAC
*
6999472 AAAGTGCTCCCTCAAGGAAGCATTTTCTGTCCACGTGG--AC
1 AAAGTGCTCCCTCAAGGAAGCATCTTCTGTCCACGTGGACAC
* * ** * * *
6999512 AAAGCGCTTCCTTGAGGAAGCGTTTTTTGTCCACGTGGACA
1 AAAGTGCTCCCTCAAGGAAGCATCTTCTGTCCACGTGGACA
6999553 AAGCGCTTCC
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
40 55 0.81
41 2 0.03
42 11 0.16
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (42 bp):
AAAGTGCTCCCTCAAGGAAGCATCTTCTGTCCACGTGGACAC
Found at i:6999553 original size:40 final size:40
Alignment explanation
Indices: 6999470--6999578 Score: 155
Period size: 40 Copynumber: 2.7 Consensus size: 40
6999460 CCACTTGGAC
* * * *
6999470 ACAAAGTGCTCCCTCAAGGAAGCATTTTCTGTCCACGTGG
1 ACAAAGCGCTTCCTTAAGGAAGCGTTTTCTGTCCACGTGG
* *
6999510 ACAAAGCGCTTCCTTGAGGAAGCGTTTTTTGTCCACGTGG
1 ACAAAGCGCTTCCTTAAGGAAGCGTTTTCTGTCCACGTGG
*
6999550 ACAAAGCGCTTCCTTAAAGAAGCGTTTTC
1 ACAAAGCGCTTCCTTAAGGAAGCGTTTTC
6999579 CTACTTTATC
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.28
Consensus pattern (40 bp):
ACAAAGCGCTTCCTTAAGGAAGCGTTTTCTGTCCACGTGG
Found at i:7001245 original size:18 final size:18
Alignment explanation
Indices: 7001224--7001265 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
7001214 GAAATATTTA
7001224 TTTTAATGT-TTTTAGTAT
1 TTTTAATGTATTTTA-TAT
*
7001242 TTTTTATGTATTTTATAT
1 TTTTAATGTATTTTATAT
*
7001260 ATTTAA
1 TTTTAA
7001266 AATTTATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (18 bp):
TTTTAATGTATTTTATAT
Found at i:7007210 original size:51 final size:51
Alignment explanation
Indices: 7007028--7007479 Score: 393
Period size: 51 Copynumber: 8.9 Consensus size: 51
7007018 ACTATTATCA
* *
7007028 TTCGATACACATAGTAGCCTTCACATAGTACTACACACGTGATC-AA-TTT
1 TTCGATACACATAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
* * * * * *
7007077 TTACGGTTCACGTAATAGCCTTCACATAGTACTATACACGTGATC-AAG-TT
1 TT-CGATACACATAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
* * * *
7007127 TTACGATTCACGTAGTAGCCTTCACATAGTACTACATACGTGACTAAAGCTT
1 TT-CGATACACATAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
* * * * *
7007179 TTCGGTACACATAGTAGCCTTCACTTTGTACTACACATGTGACC--ATCATT
1 TTCGATACACATAGTAGCCTTCACATAGTACTACACACGTGACCAAAGC-TT
* * * * *
7007229 TATCAATTCACGTAGTAGCCTTCACAAAGTACTACACTCGTGACCAAAGCTT
1 T-TCGATACACATAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
* * * * * * *
7007281 CTCGGTACATATTGTAGCCTTCACTTAGTACTACACATGTGACCATTA--TT
1 TTCGATACACATAGTAGCCTTCACATAGTACTACACACGTGACCA-AAGCTT
* * *
7007331 TATCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTT
1 T-TCGATACACATAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
* * * * * *
7007383 CTCGGTACACATTGTAGCCTTCACTTAGTACTACACATGTGACCATTA--TT
1 TTCGATACACATAGTAGCCTTCACATAGTACTACACACGTGACCA-AAGCTT
* * *
7007433 TATCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAA
1 T-TCGATACACATAGTAGCCTTCACATAGTACTACACACGTGACCAA
7007480 CACTTTCACT
Statistics
Matches: 319, Mismatches: 70, Indels: 27
0.77 0.17 0.06
Matches are distributed among these distances:
49 4 0.01
50 88 0.28
51 215 0.67
52 10 0.03
53 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (51 bp):
TTCGATACACATAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
Found at i:7007271 original size:102 final size:102
Alignment explanation
Indices: 7007029--7007479 Score: 622
Period size: 102 Copynumber: 4.4 Consensus size: 102
7007019 CTATTATCAT
* * * * * * * * *
7007029 TCGATACACATAGTAGCCTTCACATAGTACTACACACGTGATC-AA-TTTTTACGGTTCACGTAA
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCT-CGGTACACATAG
* * * * *
7007092 TAGCCTTCACATAGTACTATACACGTGATCAAGT-TTTA
65 TAGCCTTCACTTAGTACTACACATGTGA-CCATTATTTA
* * * *
7007130 -CGATTCACGTAGTAGCCTTCACATAGTACTACATACGTGACTAAAGCTTTTCGGTACACATAGT
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACATAGT
* *
7007194 AGCCTTCACTTTGTACTACACATGTGACCATCATTTA
66 AGCCTTCACTTAGTACTACACATGTGACCATTATTTA
* * * * *
7007231 TCAATTCACGTAGTAGCCTTCACAAAGTACTACACTCGTGACCAAAGCTTCTCGGTACATATTGT
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACATAGT
7007296 AGCCTTCACTTAGTACTACACATGTGACCATTATTTA
66 AGCCTTCACTTAGTACTACACATGTGACCATTATTTA
*
7007333 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACATTGT
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACATAGT
7007398 AGCCTTCACTTAGTACTACACATGTGACCATTATTTA
66 AGCCTTCACTTAGTACTACACATGTGACCATTATTTA
7007435 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAA
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAA
7007480 CACTTTCACT
Statistics
Matches: 316, Mismatches: 30, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
100 39 0.12
101 39 0.12
102 238 0.75
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (102 bp):
TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACATAGT
AGCCTTCACTTAGTACTACACATGTGACCATTATTTA
Found at i:7011188 original size:13 final size:14
Alignment explanation
Indices: 7011170--7011200 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
7011160 TATAAAATCA
7011170 CCAAAATTAAA-GT
1 CCAAAATTAAATGT
7011183 CCAAAATTAAATGT
1 CCAAAATTAAATGT
7011197 CCAA
1 CCAA
7011201 TGTCCATTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.52, C:0.19, G:0.06, T:0.23
Consensus pattern (14 bp):
CCAAAATTAAATGT
Found at i:7019043 original size:12 final size:12
Alignment explanation
Indices: 7019026--7019050 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7019016 TAGAAATAAT
7019026 ATAAATAAACAA
1 ATAAATAAACAA
7019038 ATAAATAAACAA
1 ATAAATAAACAA
7019050 A
1 A
7019051 ATAATGACGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (12 bp):
ATAAATAAACAA
Found at i:7019994 original size:19 final size:19
Alignment explanation
Indices: 7019956--7020067 Score: 143
Period size: 19 Copynumber: 5.8 Consensus size: 19
7019946 AAATTAAATC
* *
7019956 TCTAAGATTACAAAATCATA
1 TCTAAGATTGC-ATATCATA
**
7019976 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
* *
7019995 TATGAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
7020014 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
* *
7020033 TCTAGGATTGTATATCATA
1 TCTAAGATTGCATATCATA
7020052 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
7020068 CTCAAAAATT
Statistics
Matches: 80, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
19 70 0.88
20 10 0.12
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:7020047 original size:57 final size:58
Alignment explanation
Indices: 7019956--7020067 Score: 163
Period size: 57 Copynumber: 1.9 Consensus size: 58
7019946 AAATTAAATC
*
7019956 TCTAAGATTACAAAATCATATCTAAGATTATATATCATATATGAGATTGCATATCATA
1 TCTAAGATTACAAAATCATATCTAAGATTATATATCATATATAAGATTGCATATCATA
* * * * *
7020014 TCTAAGATTGC-ATATCATATCTAGGATTGTATATCATATCTAAGATTGCATATC
1 TCTAAGATTACAAAATCATATCTAAGATTATATATCATATATAAGATTGCATATC
7020068 CTCAAAAATT
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 38 0.79
58 10 0.21
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (58 bp):
TCTAAGATTACAAAATCATATCTAAGATTATATATCATATATAAGATTGCATATCATA
Found at i:7020542 original size:132 final size:132
Alignment explanation
Indices: 7020351--7020892 Score: 804
Period size: 132 Copynumber: 4.1 Consensus size: 132
7020341 CTGCAACTGC
* * * * *
7020351 AGGGAGATAA-AACTTACAATCTTCAACCTATTCCACTGCTGACTAGGG-AGATA-AGATTACTG
1 AGGGAGATAAGATCTGA-AATCTTCAATCTATTCCACTGTTGCCTAGGGAAG-TAGA-ATTACTG
* *
7020413 GCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCATCTTCGATCTACTCCACTAC
63 GCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTAC
7020478 TGCTT
128 TGCTT
*
7020483 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCAAGGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCTAGGGAAGTAGAATTACTGGCT
* * * *
7020548 CCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTTC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTGC
7020613 TT
131 TT
* *
7020615 AGGGAGATAAAATCTGAAATCTTCAATATATTCCACTGTTGCCTAGGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCTAGGGAAGTAGAATTACTGGCT
* * * **
7020680 TTAATGTACTCTACTATAACCATAGGGAGGTAAAATCCGCCATCAACGATCTACTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTGC
7020745 TT
131 TT
* *
7020747 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTATTGTCC-AGGGAAATAGAATTACTGGC
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTG-CCTAGGGAAGTAGAATTACTGGC
* *
7020811 TTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTT
65 TTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTG
7020876 CTT
130 CTT
*
7020879 AGGAAGATAAGATC
1 AGGGAGATAAGATC
7020893 GGTTTTAACC
Statistics
Matches: 372, Mismatches: 34, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
132 363 0.98
133 9 0.02
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (132 bp):
AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCTAGGGAAGTAGAATTACTGGCT
TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTGC
TT
Found at i:7020953 original size:44 final size:44
Alignment explanation
Indices: 7020905--7021191 Score: 247
Period size: 44 Copynumber: 6.7 Consensus size: 44
7020895 TTTTAACCCA
*
7020905 CTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATTGGCTTTAATCTG
* * * **
7020949 CTCCACTGCAACTTCAGAGAGATAAGA-T-TCGCCATCTTGGGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATTGGC-T-TT-AATCTG
* ** *
7020994 C-CTCACTGCAACTTCA-GGAGGATAAGACTTGTTTAC-TTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGA-TTATTGGCTTTAATCTG
* * * * *
7021038 CTCCACTGCAACTTCAAGGAGATAAGACTA---GATGTGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATTGGCTTTAATCTG
* * * *
7021079 CT-CTCTACAACTTCAGGGAGATAAG---ATCGGCTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATTGGCTTTAATCTG
*
7021119 CTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATTGGCTTTAATCTG
*
7021163 CTCCATTGCAACTTCAGGGAGATAAGATT
1 CTCCACTGCAACTTCAGGGAGATAAGATT
7021192 TGCCATCTTC
Statistics
Matches: 193, Mismatches: 32, Indels: 36
0.74 0.12 0.14
Matches are distributed among these distances:
37 1 0.01
40 29 0.15
41 27 0.14
42 3 0.02
43 3 0.02
44 96 0.50
45 31 0.16
47 1 0.01
48 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTATTGGCTTTAATCTG
Found at i:7021010 original size:89 final size:83
Alignment explanation
Indices: 7020908--7021191 Score: 227
Period size: 89 Copynumber: 3.3 Consensus size: 83
7020898 TAACCCACTC
7020908 CACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATA
1 CACTGCAACTTCAGGGAGATA-GATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATA
* * *
7020973 AGATTCGCCATCTTGGGTCTGCCT
65 AGATTAG--AT-GT-GATCTG-CT
* ** *
7020997 CACTGCAACTTCA-GGAGGATAAGACTTGTTTAC-TTAGTCTGCTCCACTGCAACTTCA-AGGAG
1 CACTGCAACTTCAGGGA-GAT-AGA-TTATTGGCTTTAATCTGCTCCACTGCAACTTCAGA-GAG
*
7021059 ATAAGACTAGATGTGATCTGCT
62 ATAAGATTAGATGTGATCTGCT
* * * * * * *
7021081 CTCTACAACTTCAGGGAGATA-A-GATCGGCTTTAATCCGCTCCACTGCAACTTCAGGGAGATAG
1 CACTGCAACTTCAGGGAGATAGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAA
* * *
7021144 GATTATTGGCTTTAATCTGCT
66 GATTA---GATGTGATCTGCT
*
7021165 CCATTGCAACTTCAGGGAGATAAGATT
1 -CACTGCAACTTCAGGGAGAT-AGATT
7021192 TGCCATCTTC
Statistics
Matches: 154, Mismatches: 27, Indels: 29
0.73 0.13 0.14
Matches are distributed among these distances:
80 2 0.01
81 32 0.21
82 1 0.01
83 1 0.01
84 26 0.17
85 25 0.16
86 2 0.01
87 3 0.02
88 4 0.03
89 52 0.34
90 6 0.04
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (83 bp):
CACTGCAACTTCAGGGAGATAGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAA
GATTAGATGTGATCTGCT
Found at i:7021401 original size:50 final size:50
Alignment explanation
Indices: 7021247--7021403 Score: 136
Period size: 50 Copynumber: 3.1 Consensus size: 50
7021237 CCGTCGTAGC
* * * *
7021247 TTCAATCTGATCCACTGCACTGCCA-AGGAAATAAGATTCGCCGTTGCGGT
1 TTCAATCTGTTCCACTGCACTGCTAGA-GAAATAAGATTCACCGTTGTGGT
* ** * * * * * * * * * *
7021297 TTCAATCTTTTTAATTTCAATGTTAGGGAAACAAGATTCACCATCGTAGC
1 TTCAATCTGTTCCACTGCACTGCTAGAGAAATAAGATTCACCGTTGTGGT
*
7021347 TTCAATCTGTTCCACTGCACTGCTAGAGAAGTAAGATTCACCGTTGTGGT
1 TTCAATCTGTTCCACTGCACTGCTAGAGAAATAAGATTCACCGTTGTGGT
7021397 TTCAATC
1 TTCAATC
7021404 ATCGTCGTGG
Statistics
Matches: 75, Mismatches: 31, Indels: 2
0.69 0.29 0.02
Matches are distributed among these distances:
50 75 1.00
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.32
Consensus pattern (50 bp):
TTCAATCTGTTCCACTGCACTGCTAGAGAAATAAGATTCACCGTTGTGGT
Found at i:7021616 original size:50 final size:50
Alignment explanation
Indices: 7021509--7021617 Score: 119
Period size: 50 Copynumber: 2.2 Consensus size: 50
7021499 TATCGCCAGA
* * *
7021509 GAGATAAGATTCGCCATCGTGGCTTCAATCTGCTTCGCTACAATGCCAGG
1 GAGATAAGATTCGCCATCGTGGCTTCAATCTGCTTCACTACAACGCCAAG
* * ** * * *
7021559 GAAATAAGATTCGCCATTGTGGCTTCAATCTTTTTCATTGCAACGTCAAG
1 GAGATAAGATTCGCCATCGTGGCTTCAATCTGCTTCACTACAACGCCAAG
*
7021609 GCGATAAGA
1 GAGATAAGA
7021618 GTGATGTCTT
Statistics
Matches: 47, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (50 bp):
GAGATAAGATTCGCCATCGTGGCTTCAATCTGCTTCACTACAACGCCAAG
Found at i:7026310 original size:12 final size:12
Alignment explanation
Indices: 7026293--7026317 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7026283 TAGAAATAAT
7026293 ATAAATAAACAA
1 ATAAATAAACAA
7026305 ATAAATAAACAA
1 ATAAATAAACAA
7026317 A
1 A
7026318 ATAATGACGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (12 bp):
ATAAATAAACAA
Found at i:7027274 original size:59 final size:59
Alignment explanation
Indices: 7027191--7027322 Score: 203
Period size: 59 Copynumber: 2.3 Consensus size: 59
7027181 AAATTAAATC
* * *
7027191 TCTAAGATTACA-AAATCATATCTAAGATTATATATCATATCTAAGATTGCATATCATA
1 TCTAAGATTGCATATATCATATCTAAGATTACATATCATATCTAAGATTGCATATCATA
* * *
7027249 TCTAAGATTGCATATATCATATCTAAGATTGCATATCATATCTAGGATTGTATATCATA
1 TCTAAGATTGCATATATCATATCTAAGATTACATATCATATCTAAGATTGCATATCATA
7027308 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
7027323 CCTCAAAAAT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
58 11 0.16
59 56 0.84
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.38
Consensus pattern (59 bp):
TCTAAGATTGCATATATCATATCTAAGATTACATATCATATCTAAGATTGCATATCATA
Found at i:7027317 original size:19 final size:19
Alignment explanation
Indices: 7027191--7027323 Score: 185
Period size: 19 Copynumber: 6.8 Consensus size: 19
7027181 AAATTAAATC
* *
7027191 TCTAAGATTACAAAATCATA
1 TCTAAGATTGC-ATATCATA
**
7027211 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
7027230 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
7027249 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
7027270 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
* *
7027289 TCTAGGATTGTATATCATA
1 TCTAAGATTGCATATCATA
7027308 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
7027324 CTCAAAAATT
Statistics
Matches: 103, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
19 74 0.72
20 10 0.10
21 19 0.18
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:7030264 original size:16 final size:16
Alignment explanation
Indices: 7030243--7030275 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
7030233 CTAAGATTAA
7030243 AATGATTGAATATATG
1 AATGATTGAATATATG
*
7030259 AATGATTGAATTTATG
1 AATGATTGAATATATG
7030275 A
1 A
7030276 TTTTAATTGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.18, T:0.39
Consensus pattern (16 bp):
AATGATTGAATATATG
Found at i:7031514 original size:3 final size:3
Alignment explanation
Indices: 7031468--7031542 Score: 71
Period size: 3 Copynumber: 24.7 Consensus size: 3
7031458 TACCTTTGTC
* * * * * *
7031468 ATT ATC ATT ATC ATT ATC ATT ATTT ATT CA-T ATA ATA ATA ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT A-TT ATT -ATT ATT ATT ATT ATT ATT
7031514 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
7031543 GATATGATTA
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
2 1 0.02
3 56 0.92
4 4 0.07
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.57
Consensus pattern (3 bp):
ATT
Found at i:7031652 original size:14 final size:13
Alignment explanation
Indices: 7031633--7031666 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
7031623 TGTTCTTCTG
*
7031633 TTTATTTTATTTGT
1 TTTATTTTATCT-T
7031647 TTTATTTTATCTT
1 TTTATTTTATCTT
7031660 TTTATTT
1 TTTATTT
7031667 ATTACCCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.42
14 11 0.58
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (13 bp):
TTTATTTTATCTT
Found at i:7031662 original size:13 final size:14
Alignment explanation
Indices: 7031629--7031666 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
7031619 AACATGTTCT
7031629 TCTG-TTTATTTTA
1 TCTGTTTTATTTTA
*
7031642 TTTGTTTTATTTTA
1 TCTGTTTTATTTTA
7031656 TCT-TTTTATTT
1 TCTGTTTTATTT
7031667 ATTACCCTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.13, C:0.05, G:0.05, T:0.76
Consensus pattern (14 bp):
TCTGTTTTATTTTA
Found at i:7032689 original size:10 final size:9
Alignment explanation
Indices: 7032666--7032714 Score: 53
Period size: 10 Copynumber: 5.1 Consensus size: 9
7032656 AAAATTATTA
7032666 TTTTAGAAAT
1 TTTTA-AAAT
7032676 TTTTAAAAT
1 TTTTAAAAT
7032685 ATTTTAAAAT
1 -TTTTAAAAT
*
7032695 TTTTAGAAT
1 TTTTAAAAT
*
7032704 TATTTAGAAT
1 T-TTTAAAAT
7032714 T
1 T
7032715 ATTTTTAATT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
9 13 0.36
10 23 0.64
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (9 bp):
TTTTAAAAT
Found at i:7032689 original size:20 final size:20
Alignment explanation
Indices: 7032664--7032722 Score: 68
Period size: 19 Copynumber: 2.9 Consensus size: 20
7032654 CCAAAATTAT
7032664 TATTTTAGAAATTTTTAAAA
1 TATTTTAGAAATTTTTAAAA
*
7032684 TATTTTA-AAATTTTTAGAA
1 TATTTTAGAAATTTTTAAAA
7032703 T-TATTTAGAATTATTTTTAA
1 TAT-TTTAGAA--ATTTTTAA
7032723 TTTTTGTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 1 0.03
19 16 0.48
20 9 0.27
22 7 0.21
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (20 bp):
TATTTTAGAAATTTTTAAAA
Found at i:7032709 original size:19 final size:19
Alignment explanation
Indices: 7032662--7032708 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
7032652 ACCCAAAATT
7032662 ATTATTTTAGAAATTTTTAA
1 ATTATTTTA-AAATTTTTAA
*
7032682 AATATTTTAAAATTTTTAGA
1 ATTATTTTAAAATTTTTA-A
7032702 ATTATTT
1 ATTATTT
7032709 AGAATTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.55
Consensus pattern (19 bp):
ATTATTTTAAAATTTTTAA
Found at i:7032709 original size:29 final size:29
Alignment explanation
Indices: 7032666--7032727 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
7032656 AAAATTATTA
7032666 TTTTAGAAATTTTTA-AAATATTTTAAAAT
1 TTTTAGAAATTTTTAGAAATATTTT-AAAT
* *
7032695 TTTTAG-AATTATTTAGAATTATTTTTAAT
1 TTTTAGAAATT-TTTAGAAATATTTTAAAT
7032724 TTTT
1 TTTT
7032728 GTTAAAAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 4 0.14
29 17 0.59
30 8 0.28
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (29 bp):
TTTTAGAAATTTTTAGAAATATTTTAAAT
Found at i:7036879 original size:11 final size:11
Alignment explanation
Indices: 7036860--7036897 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
7036850 TAATAACATG
7036860 AAAAAATTATT
1 AAAAAATTATT
*
7036871 AAAATATTATT
1 AAAAAATTATT
*
7036882 AAATAATT-TT
1 AAAAAATTATT
7036892 AAAAAA
1 AAAAAA
7036898 AAACCATGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
10 7 0.30
11 16 0.70
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
AAAAAATTATT
Found at i:7040041 original size:26 final size:26
Alignment explanation
Indices: 7040012--7040061 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
7040002 GTAAGTTAGG
7040012 GTACAATTTCTCGAATTTCTAAAAAT
1 GTACAATTTCTCGAATTTCTAAAAAT
7040038 GTACAATTTCTCGAATTTCTAAAA
1 GTACAATTTCTCGAATTTCTAAAA
7040062 CGCGAAACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.38
Consensus pattern (26 bp):
GTACAATTTCTCGAATTTCTAAAAAT
Found at i:7040400 original size:3 final size:3
Alignment explanation
Indices: 7040392--7040417 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
7040382 TAATGAAATG
7040392 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
7040418 GACATAAATG
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:7042527 original size:100 final size:100
Alignment explanation
Indices: 7042341--7043100 Score: 886
Period size: 100 Copynumber: 7.6 Consensus size: 100
7042331 AAATTGACTA
* * *
7042341 CAATGTCGGGGAA-CAAGATTCGCCATTGTAGCTTTAATCTGCTCCACTGCACCGTCAGGGAAGT
1 CAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTGCTCCACTGCACCGCCAGAGAAGT
* * *
7042405 AAGATTCGTCGTTGCGGCTTCAATATTTTAAATTG
66 AAGATTCGCCGTTGCGGCTTCAATCTTTTTAATTG
** * * * ** *
7042440 CAATACCAGGGAAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCATTTTACTGCCAGAGAAGT
1 CAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTGCTCCACTGCACCGCCAGAGAAGT
* * *
7042505 GAGATTCGCCGTTGTGGCTTCAATATTTTTAATTG
66 AAGATTCGCCGTTGCGGCTTCAATCTTTTTAATTG
* * * * *
7042540 CAATGTCGAGGAA-CAAGATTC-CCATTGTGGCTTTAATCTGCTCCACTACACCGCCAGGGAAGT
1 CAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTGCTCCACTGCACCGCCAGAGAAGT
* *
7042603 AAGATTCGCCGTTGCGACTTCAATCTTTTAAATTG
66 AAGATTCGCCGTTGCGGCTTCAATCTTTTTAATTG
* * * *
7042638 CAATGTCGGGGAAGCAAGATTCGCCTTTGTAGCTTTAATCTTCTCCACTGCATCGCCATAGAAGT
1 CAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTGCTCCACTGCACCGCCAGAGAAGT
* *
7042703 AAGATTCGCCGTTGTGGCTTCAAT-ATTTTAATTTG
66 AAGATTCGCCGTTGCGGCTTCAATCTTTTTAA-TTG
* * ** * *
7042738 CAATTTCAGCAAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACTGCACCACCA-AGGAAG
1 CAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTGCTCCACTGCACCGCCAGA-GAAG
*
7042802 TAAGATTTGCCGTTGCGGCTTCAATCTTTTTAATTG
65 TAAGATTCGCCGTTGCGGCTTCAATCTTTTTAATTG
* * * * * *
7042838 CAATGTCGGGGAA-CACGATTCACTGTTGTAGCTTCAATCAGCTCCACTGCACCACCA-AGGAAG
1 CAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTGCTCCACTGCACCGCCAGA-GAAG
* *
7042901 TAAGATTCACCGTTGCGACTTCAATCTTTTTAATTG
65 TAAGATTCGCCGTTGCGGCTTCAATCTTTTTAATTG
* * * * * * * * * *
7042937 CAATGTCGGAGAAGCAGGATTCGCCGTCGTAGCTTCAATTTGATCCACTACATCGCTAGGGAAGT
1 CAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTGCTCCACTGCACCGCCAGAGAAGT
* * *
7043002 AAAATTCACCATTGCGGCTTCAATCTTTTTAATTG
66 AAGATTCGCCGTTGCGGCTTCAATCTTTTTAATTG
* * * *
7043037 CAATGTCGGGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACTGTACTGCCAGGGAAG
1 CAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTGCTCCACTGCACCGCCAGAGAAG
7043101 ATAACTTCAT
Statistics
Matches: 559, Mismatches: 94, Indels: 15
0.84 0.14 0.02
Matches are distributed among these distances:
98 77 0.14
99 121 0.22
100 355 0.64
101 6 0.01
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (100 bp):
CAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTGCTCCACTGCACCGCCAGAGAAGT
AAGATTCGCCGTTGCGGCTTCAATCTTTTTAATTG
Found at i:7042650 original size:50 final size:50
Alignment explanation
Indices: 7042394--7043063 Score: 204
Period size: 50 Copynumber: 13.5 Consensus size: 50
7042384 CCACTGCACC
* * * * *
7042394 GTCAGGGAAGTAAGATTCGTCGTTGCGGCTTCAATATTTTAAATTGCAAT
1 GTCAGGGAAGCAAGATTCGCCGTTGCGACTTCAATCTTTTCAATTGCAAT
** * * * ** * ** *
7042444 ACCAGGGAAGCAAGATTCACCGTTG-TAGCTTTAATCTGCTCCATTTTACT
1 GTCAGGGAAGCAAGATTCGCCGTTGCGA-CTTCAATCTTTTCAATTGCAAT
* * ** * * * *
7042494 GCCAGAGAAGTGAGATTCGCCGTTGTGGCTTCAATATTTTTAATTGCAAT
1 GTCAGGGAAGCAAGATTCGCCGTTGCGACTTCAATCTTTTCAATTGCAAT
* * * * ** * * * **
7042544 GTC-GAGGAA-CAAGATTC-CCATTGTGGCTTTAATCTGCTCCACTACACC
1 GTCAG-GGAAGCAAGATTCGCCGTTGCGACTTCAATCTTTTCAATTGCAAT
* * *
7042592 GCCAGGGAAGTAAGATTCGCCGTTGCGACTTCAATCTTTTAAATTGCAAT
1 GTCAGGGAAGCAAGATTCGCCGTTGCGACTTCAATCTTTTCAATTGCAAT
* * * * * * *
7042642 GTCGGGGAAGCAAGATTCGCCTTTG-TAGCTTTAATCTTCTCCACTGC-AT
1 GTCAGGGAAGCAAGATTCGCCGTTGCGA-CTTCAATCTTTTCAATTGCAAT
* ** * * * *
7042691 CGCCATAGAAGTAAGATTCGCCGTTGTGGCTTCAATATTTT-AATTTGCAAT
1 -GTCAGGGAAGCAAGATTCGCCGTTGCGACTTCAATCTTTTCAA-TTGCAAT
* ** * ** * * **
7042742 TTCAGCAAAGCAAGATTCGCCG-T-CGTAGCTTTAATCTGCTCCACTGCACC
1 GTCAGGGAAGCAAGATTCGCCGTTGCG-A-CTTCAATCTTTTCAATTGCAAT
** * * * * *
7042792 ACCAAGGAAGTAAGATTTGCCGTTGCGGCTTCAATCTTTTTAATTGCAAT
1 GTCAGGGAAGCAAGATTCGCCGTTGCGACTTCAATCTTTTCAATTGCAAT
* * * * * *** * * **
7042842 GTCGGGGAA-CACGATTCACTGTTG-TAGCTTCAATCAGCTCCACTGCACC
1 GTCAGGGAAGCAAGATTCGCCGTTGCGA-CTTCAATCTTTTCAATTGCAAT
** * * * *
7042891 ACCAAGGAAGTAAGATTCACCGTTGCGACTTCAATCTTTTTAATTGCAAT
1 GTCAGGGAAGCAAGATTCGCCGTTGCGACTTCAATCTTTTCAATTGCAAT
* * * * *
7042941 GTC-GGAGAAGCAGGATTCGCCG-T-CGTAGCTTCAAT-TTGATCCACTAC-AT
1 GTCAGG-GAAGCAAGATTCGCCGTTGCG-A-CTTCAATCTT-TTCAATTGCAAT
* * * * * *
7042990 CG-CTAGGGAAGTAAAATTCACCATTGCGGCTTCAATCTTTTTAATTGCAAT
1 -GTC-AGGGAAGCAAGATTCGCCGTTGCGACTTCAATCTTTTCAATTGCAAT
*
7043041 GTCGGGGAAGCAAGATTCGCCGT
1 GTCAGGGAAGCAAGATTCGCCGT
7043064 CGTAGCTTTA
Statistics
Matches: 411, Mismatches: 178, Indels: 62
0.63 0.27 0.10
Matches are distributed among these distances:
48 29 0.07
49 57 0.14
50 308 0.75
51 13 0.03
52 4 0.01
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.30
Consensus pattern (50 bp):
GTCAGGGAAGCAAGATTCGCCGTTGCGACTTCAATCTTTTCAATTGCAAT
Found at i:7043025 original size:299 final size:297
Alignment explanation
Indices: 7042341--7043086 Score: 969
Period size: 299 Copynumber: 2.5 Consensus size: 297
7042331 AAATTGACTA
* *
7042341 CAATGTCGGGGAA-CAAGATTCGCCATTGTAGCTTTAATCTGCTCCACTGCACCG-TCAGGGAAG
1 CAATGTCGGGGAAGCAAGATTCGCCATTGTAGCTTTAATTTGCTCCACTGCATCGCT-AGGGAAG
* * * *
7042404 TAAGATTCGTCGTTGCGGCTTCAATATTTTAAATTGCAATACCAGGGAAGCAAGATTCACCGTTG
65 TAAGATTCGCCGTTGCGGCTTCAATATTTT-AATTGCAATATCAGGGAAGCAAGATTCGCCGTCG
* ** ** * *
7042469 TAGCTTTAATCTGCTCCATTTTACTGCCAGAGAAGTGAGATTCGCCGTTGTGGCTTCAATATTTT
129 TAGCTTTAATCTGCTCCACTGCACCACCAGAGAAGTAAGATTCGCCGTTGCGGCTTCAATATTTT
* * * * *
7042534 TAATTGCAATGTCGAGGAACAAGATTCCCATTGTGGCTTTAATCTGCTCCACTACACCGCCAGGG
194 TAATTGCAATGTCGAGGAACAAGATTCCCATTGTAGCTTCAATCAGCTCCACTACACCACCAAGG
*
7042599 AAGTAAGATTCGCCGTTGCGACTTCAATCTTTTAAATTG
259 AAGTAAGATTCACCGTTGCGACTTCAATCTTTTAAATTG
* * **
7042638 CAATGTCGGGGAAGCAAGATTCGCCTTTGTAGCTTTAATCTT-CTCCACTGCATCGCCATAGAAG
1 CAATGTCGGGGAAGCAAGATTCGCCATTGTAGCTTTAAT-TTGCTCCACTGCATCGCTAGGGAAG
* * **
7042702 TAAGATTCGCCGTTGTGGCTTCAATATTTTAATTTGCAATTTCAGCAAAGCAAGATTCGCCGTCG
65 TAAGATTCGCCGTTGCGGCTTCAATATTTTAA-TTGCAATATCAGGGAAGCAAGATTCGCCGTCG
* *
7042767 TAGCTTTAATCTGCTCCACTGCACCACCA-AGGAAGTAAGATTTGCCGTTGCGGCTTCAATCTTT
129 TAGCTTTAATCTGCTCCACTGCACCACCAGA-GAAGTAAGATTCGCCGTTGCGGCTTCAATATTT
* * ** *
7042831 TTAATTGCAATGTCGGGGAACACGATTCACTGTTGTAGCTTCAATCAGCTCCACTGCACCACCAA
193 TTAATTGCAATGTCGAGGAACAAGATTC-CCATTGTAGCTTCAATCAGCTCCACTACACCACCAA
*
7042896 GGAAGTAAGATTCACCGTTGCGACTTCAATCTTTTTAATTG
257 GGAAGTAAGATTCACCGTTGCGACTTCAATCTTTTAAATTG
* * * * * * *
7042937 CAATGTCGGAGAAGCAGGATTCGCCGTCGTAGCTTCAATTTGATCCACTACATCGCTAGGGAAGT
1 CAATGTCGGGGAAGCAAGATTCGCCATTGTAGCTTTAATTTGCTCCACTGCATCGCTAGGGAAGT
* * * * * *
7043002 AAAATTCACCATTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGTCGT
66 AAGATTCGCCGTTGCGGCTTCAAT-ATTTTAATTGCAATATCAGGGAAGCAAGATTCGCCGTCGT
7043067 AGCTTTAATCTGCTCCACTG
130 AGCTTTAATCTGCTCCACTG
7043087 TACTGCCAGG
Statistics
Matches: 387, Mismatches: 54, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
297 16 0.04
298 176 0.45
299 189 0.49
300 6 0.02
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (297 bp):
CAATGTCGGGGAAGCAAGATTCGCCATTGTAGCTTTAATTTGCTCCACTGCATCGCTAGGGAAGT
AAGATTCGCCGTTGCGGCTTCAATATTTTAATTGCAATATCAGGGAAGCAAGATTCGCCGTCGTA
GCTTTAATCTGCTCCACTGCACCACCAGAGAAGTAAGATTCGCCGTTGCGGCTTCAATATTTTTA
ATTGCAATGTCGAGGAACAAGATTCCCATTGTAGCTTCAATCAGCTCCACTACACCACCAAGGAA
GTAAGATTCACCGTTGCGACTTCAATCTTTTAAATTG
Found at i:7043445 original size:24 final size:24
Alignment explanation
Indices: 7043401--7043446 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
7043391 TTGCCCCCAC
*
7043401 TGTAATCTTCAAAGTTCAATCCGT
1 TGTAATCTTCAAAGTTAAATCCGT
* *
7043425 TGTAATCTTTAAGGTTAAATCC
1 TGTAATCTTCAAAGTTAAATCC
7043447 ACGGTAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.39
Consensus pattern (24 bp):
TGTAATCTTCAAAGTTAAATCCGT
Found at i:7053048 original size:26 final size:26
Alignment explanation
Indices: 7052976--7053034 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 26
7052966 TGTTTTCTTG
* *
7052976 AAATTTTACTAGGGCTGAAATAGTCA
1 AAATTTTACTAGGGGTAAAATAGTCA
*
7053002 AAATTTTACTAGGGGTAAAATCGTCA
1 AAATTTTACTAGGGGTAAAATAGTCA
7053028 AAATTTT
1 AAATTTT
7053035 GTTGGAGGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.39, C:0.10, G:0.17, T:0.34
Consensus pattern (26 bp):
AAATTTTACTAGGGGTAAAATAGTCA
Found at i:7054702 original size:22 final size:23
Alignment explanation
Indices: 7054659--7054702 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
7054649 TATGTTGATT
7054659 AAGGTTAAAAAAATAAATAACAA
1 AAGGTTAAAAAAATAAATAACAA
7054682 AAGGTTAAAAAAATAAA-AACA
1 AAGGTTAAAAAAATAAATAACA
7054703 TCAAAATATC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.70, C:0.05, G:0.09, T:0.16
Consensus pattern (23 bp):
AAGGTTAAAAAAATAAATAACAA
Found at i:7055446 original size:7 final size:7
Alignment explanation
Indices: 7055412--7055445 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
7055402 TTTAATTAAT
7055412 TTTTTGG
1 TTTTTGG
7055419 TTTTTGG
1 TTTTTGG
7055426 TTTTTGG
1 TTTTTGG
*
7055433 TTTTTGA
1 TTTTTGG
7055440 TTTTTG
1 TTTTTG
7055446 AATTTGTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.03, C:0.00, G:0.24, T:0.74
Consensus pattern (7 bp):
TTTTTGG
Found at i:7066020 original size:25 final size:25
Alignment explanation
Indices: 7065991--7066038 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
7065981 TTTGCTATTC
*
7065991 ATATACACGCATATTTTTATATACA
1 ATATACACGCATATTTTAATATACA
***
7066016 ATATATGTGCATATTTTAATATA
1 ATATACACGCATATTTTAATATA
7066039 TACTTTTAAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.40, C:0.10, G:0.06, T:0.44
Consensus pattern (25 bp):
ATATACACGCATATTTTAATATACA
Found at i:7069114 original size:31 final size:31
Alignment explanation
Indices: 7069069--7069137 Score: 111
Period size: 31 Copynumber: 2.2 Consensus size: 31
7069059 TAACAATTTG
*
7069069 GTCACTTAACTATTCAAAAGTTTTCATTTAA
1 GTCACTGAACTATTCAAAAGTTTTCATTTAA
* *
7069100 GTCACTGAATTATTCAAAAGTTTTTATTTAA
1 GTCACTGAACTATTCAAAAGTTTTCATTTAA
7069131 GTCACTG
1 GTCACTG
7069138 GGCAGTTAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.42
Consensus pattern (31 bp):
GTCACTGAACTATTCAAAAGTTTTCATTTAA
Found at i:7072849 original size:13 final size:14
Alignment explanation
Indices: 7072824--7072852 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
7072814 ATGAATCTCG
7072824 AATAAATAATAAAA
1 AATAAATAATAAAA
7072838 AATAAA-AATAAAA
1 AATAAATAATAAAA
7072851 AA
1 AA
7072853 CAACCATATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (14 bp):
AATAAATAATAAAA
Found at i:7073841 original size:18 final size:19
Alignment explanation
Indices: 7073813--7073848 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
7073803 AAAAAAAGTA
*
7073813 AAATAAAATAAGATAAAAC
1 AAATAAAATAAGAGAAAAC
7073832 AAAT-AAATAAGAGAAAA
1 AAATAAAATAAGAGAAAA
7073849 TGAAGAAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.75, C:0.03, G:0.08, T:0.14
Consensus pattern (19 bp):
AAATAAAATAAGAGAAAAC
Found at i:7077614 original size:21 final size:20
Alignment explanation
Indices: 7077590--7077650 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 20
7077580 AGATGTCAGT
7077590 GATACAAAGGATGATGATGAA
1 GATA-AAAGGATGATGATGAA
* *
7077611 GATAAAGAGGATGATAATGCA
1 GATAAA-AGGATGATGATGAA
*
7077632 GATGAAAAAGATGATGATG
1 GAT-AAAAGGATGATGATG
7077651 GAGCTGATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
20 2 0.06
21 29 0.85
22 3 0.09
ACGTcount: A:0.48, C:0.03, G:0.30, T:0.20
Consensus pattern (20 bp):
GATAAAAGGATGATGATGAA
Found at i:7093652 original size:19 final size:16
Alignment explanation
Indices: 7093615--7093662 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 16
7093605 AAAATTATAG
7093615 AAAATTATAAAATCAA
1 AAAATTATAAAATCAA
7093631 AAAATATATAAAAGTGCAA
1 AAAAT-TATAAAA-T-CAA
7093650 AAAAGTTATAAAA
1 AAAA-TTATAAAA
7093663 ATGATTATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
16 5 0.18
17 7 0.25
18 1 0.04
19 14 0.50
20 1 0.04
ACGTcount: A:0.67, C:0.04, G:0.06, T:0.23
Consensus pattern (16 bp):
AAAATTATAAAATCAA
Found at i:7093927 original size:19 final size:20
Alignment explanation
Indices: 7093888--7093937 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
7093878 ACAATAAATT
7093888 TTTTAAAAAAAATATGAAAAA
1 TTTTAAAAAAAATAT-AAAAA
* *
7093909 TTTTAAAAAACATATAAAAT
1 TTTTAAAAAAAATATAAAAA
7093929 TATTTAAAA
1 T-TTTAAAA
7093938 TATTACTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 5 0.19
21 21 0.81
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (20 bp):
TTTTAAAAAAAATATAAAAA
Found at i:7094334 original size:20 final size:20
Alignment explanation
Indices: 7094297--7094336 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
7094287 ATATACTTAC
* * *
7094297 TTTTTTATTATAATTTTTAA
1 TTTTTTATAAAAAATTTTAA
7094317 TTTTTTATAAAAAATTTTAA
1 TTTTTTATAAAAAATTTTAA
7094337 ATTTAATTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTTTTATAAAAAATTTTAA
Found at i:7094446 original size:9 final size:9
Alignment explanation
Indices: 7094432--7094524 Score: 54
Period size: 9 Copynumber: 10.4 Consensus size: 9
7094422 TAATTCATAT
7094432 ATTTTTATA
1 ATTTTTATA
7094441 ATTTTTAT-
1 ATTTTTATA
7094449 A-TTTTA-A
1 ATTTTTATA
*
7094456 TTTTTTATA
1 ATTTTTATA
* *
7094465 TTCTTTTGTA
1 AT-TTTTATA
*
7094475 CTTTTCTAT-
1 ATTTT-TATA
7094484 ATTTTTATAAA
1 ATTTTTAT--A
7094495 ATTTTTA-A
1 ATTTTTATA
7094503 TATTTTTAT-
1 -ATTTTTATA
*
7094512 ATTTTCATA
1 ATTTTTATA
7094521 ATTT
1 ATTT
7094525 ACATATTTTC
Statistics
Matches: 67, Mismatches: 6, Indels: 22
0.71 0.06 0.23
Matches are distributed among these distances:
7 5 0.07
8 17 0.25
9 29 0.43
10 9 0.13
11 7 0.10
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.67
Consensus pattern (9 bp):
ATTTTTATA
Found at i:7094492 original size:8 final size:8
Alignment explanation
Indices: 7094429--7094547 Score: 73
Period size: 8 Copynumber: 14.0 Consensus size: 8
7094419 TTGTAATTCA
7094429 TATATTTT
1 TATATTTT
7094437 TATAATTTT
1 TAT-ATTTT
7094446 TATATTTT
1 TATATTTT
*
7094454 AAT-TTTT
1 TATATTTT
7094461 TATATTCTTT
1 TATA-T-TTT
*
7094471 TGTACTTTT
1 TATA-TTTT
7094480 CTATATTTT
1 -TATATTTT
7094489 TATAAAATTTT
1 TAT---ATTTT
7094500 TAATATTTT
1 T-ATATTTT
7094509 TATATTTT
1 TATATTTT
* *
7094517 CATAATTTA
1 TAT-ATTTT
*
7094526 CATATTTT
1 TATATTTT
*
7094534 CAT-TTTT
1 TATATTTT
7094541 T-TATTTT
1 TATATTTT
7094548 AAATAATTTT
Statistics
Matches: 91, Mismatches: 9, Indels: 23
0.74 0.07 0.19
Matches are distributed among these distances:
6 1 0.01
7 14 0.15
8 29 0.32
9 29 0.32
10 10 0.11
11 6 0.07
12 2 0.02
ACGTcount: A:0.27, C:0.05, G:0.01, T:0.67
Consensus pattern (8 bp):
TATATTTT
Found at i:7094524 original size:17 final size:17
Alignment explanation
Indices: 7094504--7094557 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 17
7094494 AATTTTTAAT
7094504 ATTTTTATATTTTCATA
1 ATTTTTATATTTTCATA
**
7094521 ATTTACATATTTTCAT-
1 ATTTTTATATTTTCATA
*
7094537 -TTTTT-TATTTTAAATA
1 ATTTTTATATTTT-CATA
7094553 ATTTT
1 ATTTT
7094558 AATGCTTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
14 6 0.21
15 5 0.17
17 18 0.62
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.65
Consensus pattern (17 bp):
ATTTTTATATTTTCATA
Found at i:7094652 original size:28 final size:27
Alignment explanation
Indices: 7094593--7094688 Score: 95
Period size: 27 Copynumber: 3.4 Consensus size: 27
7094583 AATTTTATAA
*
7094593 TTTATATATTTTTTGTAAGCTATAATACTT
1 TTTATAT-TTTTTTGTAA-CTTTAATA-TT
* *
7094623 TTTATATTTTTTTG-CACTTTTATATAT
1 TTTATATTTTTTTGTAACTTTAATAT-T
*
7094650 TTTACAATTTTTTTGTAACTTTAATATT
1 TTTA-TATTTTTTTGTAACTTTAATATT
*
7094678 TTTATAATTTT
1 TTTATATTTTT
7094689 AATATTTTTT
Statistics
Matches: 55, Mismatches: 8, Indels: 9
0.76 0.11 0.12
Matches are distributed among these distances:
26 1 0.02
27 16 0.29
28 15 0.27
29 16 0.29
30 7 0.13
ACGTcount: A:0.27, C:0.06, G:0.04, T:0.62
Consensus pattern (27 bp):
TTTATATTTTTTTGTAACTTTAATATT
Found at i:7094661 original size:29 final size:28
Alignment explanation
Indices: 7094601--7094688 Score: 90
Period size: 28 Copynumber: 3.1 Consensus size: 28
7094591 AATTTATATA
* *
7094601 TTTTTTGTAAGCTATAATACTTTTTA-TAT
1 TTTTTTGTAA-CTTTAATA-TTTTTACAAT
* *
7094630 TTTTTTG-CACTTTTATATATTTTACAAT
1 TTTTTTGTAACTTTAATAT-TTTTACAAT
*
7094658 TTTTTTGTAACTTTAATATTTTTATAAT
1 TTTTTTGTAACTTTAATATTTTTACAAT
7094686 TTT
1 TTT
7094689 AATATTTTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 11 0.22
28 21 0.43
29 16 0.33
ACGTcount: A:0.26, C:0.07, G:0.05, T:0.62
Consensus pattern (28 bp):
TTTTTTGTAACTTTAATATTTTTACAAT
Found at i:7094679 original size:17 final size:17
Alignment explanation
Indices: 7094659--7094697 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
7094649 TTTTACAATT
*
7094659 TTTTTGTAACTTTAATA
1 TTTTTATAACTTTAATA
*
7094676 TTTTTATAATTTTAATA
1 TTTTTATAACTTTAATA
7094693 TTTTT
1 TTTTT
7094698 TATGATTATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (17 bp):
TTTTTATAACTTTAATA
Found at i:7094687 original size:9 final size:9
Alignment explanation
Indices: 7094675--7094737 Score: 63
Period size: 9 Copynumber: 6.8 Consensus size: 9
7094665 TAACTTTAAT
7094675 ATTTTTATA
1 ATTTTTATA
*
7094684 ATTTTAATA
1 ATTTTTATA
* *
7094693 TTTTTTATG
1 ATTTTTATA
*
7094702 ATTATCTATA
1 ATT-TTTATA
7094712 ATTTTTTATA
1 A-TTTTTATA
*
7094722 ATTTTTATT
1 ATTTTTATA
7094731 ATTTTTA
1 ATTTTTA
7094738 ATGATTTTAA
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
9 30 0.70
10 11 0.26
11 2 0.05
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (9 bp):
ATTTTTATA
Found at i:7094717 original size:20 final size:19
Alignment explanation
Indices: 7094671--7094744 Score: 62
Period size: 19 Copynumber: 3.8 Consensus size: 19
7094661 TTTGTAACTT
*
7094671 TAATATTTTTATAATTT-TA
1 TAAT-TTTTTATGATTTCTA
7094690 -ATATTTTTTATGATTATCTA
1 TA-ATTTTTTATGATT-TCTA
* *
7094710 TAATTTTTTATAATTTTTA
1 TAATTTTTTATGATTTCTA
* *
7094729 TTATTTTTAATGATTT
1 TAATTTTTTATGATTT
7094745 TAAGTATAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
18 11 0.24
19 19 0.42
20 14 0.31
21 1 0.02
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.65
Consensus pattern (19 bp):
TAATTTTTTATGATTTCTA
Found at i:7109692 original size:21 final size:22
Alignment explanation
Indices: 7109641--7109694 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 22
7109631 AAATATTTAA
7109641 ATATTTTAA-AAATATAAAATG
1 ATATTTTAATAAATATAAAATG
7109662 AGTA--TT-ATAAA-ATAAAATG
1 A-TATTTTAATAAATATAAAATG
7109681 ATATTTTAATAAAT
1 ATATTTTAATAAAT
7109695 GTTAGTATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 11
0.71 0.00 0.29
Matches are distributed among these distances:
18 2 0.07
19 10 0.37
20 7 0.26
21 6 0.22
22 2 0.07
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.39
Consensus pattern (22 bp):
ATATTTTAATAAATATAAAATG
Found at i:7110039 original size:25 final size:25
Alignment explanation
Indices: 7109991--7110043 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
7109981 TTTTTTATAT
*
7109991 ATTTTTAATTAATCAATAATAAAATA
1 ATTTTTAATTAA-CAATAAGAAAATA
7110017 ATTTTTAATTAA-AATTAAGAAAATA
1 ATTTTTAATTAACAA-TAAGAAAATA
7110042 AT
1 AT
7110044 ATATAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 2 0.08
25 11 0.44
26 12 0.48
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (25 bp):
ATTTTTAATTAACAATAAGAAAATA
Found at i:7114903 original size:23 final size:23
Alignment explanation
Indices: 7114877--7115046 Score: 137
Period size: 27 Copynumber: 6.9 Consensus size: 23
7114867 TATATTTAGT
7114877 TATGAATATTGTAATTTTTTTTG
1 TATGAATATTGTAATTTTTTTTG
7114900 TATGAATATTGTAATATTATAATTTTG
1 TATGAATATTGTAAT-TT-T--TTTTG
* *
7114927 TATGGAATATTGCAATTTTTTTGG
1 TAT-GAATATTGTAATTTTTTTTG
7114951 TATGAATATTGTAATATTATAATTTTG
1 TATGAATATTGTAAT-TT-T--TTTTG
* * * *
7114978 TATGAATATTGTAATGTCGGTATATA
1 TATGAATATTGTAAT-T--TTTTTTG
*
7115004 TTTGTAATATTGTAA--TTTTTTG
1 TATG-AATATTGTAATTTTTTTTG
*
7115026 TATGAATATTGTAATTATTTT
1 TATGAATATTGTAATTTTTTT
7115047 ATAATTAATT
Statistics
Matches: 117, Mismatches: 16, Indels: 28
0.73 0.10 0.17
Matches are distributed among these distances:
21 10 0.09
22 6 0.05
23 30 0.26
24 11 0.09
25 2 0.02
26 6 0.05
27 40 0.34
28 12 0.10
ACGTcount: A:0.31, C:0.01, G:0.14, T:0.54
Consensus pattern (23 bp):
TATGAATATTGTAATTTTTTTTG
Found at i:7114936 original size:51 final size:50
Alignment explanation
Indices: 7114877--7115046 Score: 215
Period size: 51 Copynumber: 3.4 Consensus size: 50
7114867 TATATTTAGT
*
7114877 TATGAATATTGTAATTTTTTTTGTATGAATATTGTAATATTATAATTTTG
1 TATGAATATTGTAATTTTTTTGGTATGAATATTGTAATATTATAATTTTG
*
7114927 TATGGAATATTGCAATTTTTTTGGTATGAATATTGTAATATTATAATTTTG
1 TAT-GAATATTGTAATTTTTTTGGTATGAATATTGTAATATTATAATTTTG
* * *
7114978 TATGAATATTGTAA---TGTCGGTAT--ATATTTGTAATATTGTAATTTTTTG
1 TATGAATATTGTAATTTTTTTGGTATGAATA-TTGTAATATTATAA--TTTTG
*
7115026 TATGAATATTGTAATTATTTT
1 TATGAATATTGTAATTTTTTT
7115047 ATAATTAATT
Statistics
Matches: 105, Mismatches: 8, Indels: 13
0.83 0.06 0.10
Matches are distributed among these distances:
45 3 0.03
46 13 0.12
47 7 0.07
48 19 0.18
50 13 0.12
51 50 0.48
ACGTcount: A:0.31, C:0.01, G:0.14, T:0.54
Consensus pattern (50 bp):
TATGAATATTGTAATTTTTTTGGTATGAATATTGTAATATTATAATTTTG
Found at i:7114967 original size:31 final size:27
Alignment explanation
Indices: 7114877--7114992 Score: 149
Period size: 27 Copynumber: 4.6 Consensus size: 27
7114867 TATATTTAGT
7114877 TATGAATATTGTAAT-TT-T--TTTTG
1 TATGAATATTGTAATATTATAATTTTG
7114900 TATGAATATTGTAATATTATAATTTTG
1 TATGAATATTGTAATATTATAATTTTG
* *
7114927 TATGGAATATTGCAAT-TT-T--TTTGG
1 TAT-GAATATTGTAATATTATAATTTTG
7114951 TATGAATATTGTAATATTATAATTTTG
1 TATGAATATTGTAATATTATAATTTTG
7114978 TATGAATATTGTAAT
1 TATGAATATTGTAAT
7114993 GTCGGTATAT
Statistics
Matches: 80, Mismatches: 4, Indels: 14
0.82 0.04 0.14
Matches are distributed among these distances:
23 26 0.32
24 11 0.14
25 2 0.03
26 1 0.01
27 29 0.36
28 11 0.14
ACGTcount: A:0.33, C:0.01, G:0.14, T:0.53
Consensus pattern (27 bp):
TATGAATATTGTAATATTATAATTTTG
Found at i:7115111 original size:19 final size:19
Alignment explanation
Indices: 7115089--7115126 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
7115079 TATAAATTTA
*
7115089 TTAGTAACTTATTAGTAAT
1 TTAGTAACTTATTACTAAT
*
7115108 TTAGTAATTTATTACTAAT
1 TTAGTAACTTATTACTAAT
7115127 AAATTAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.37, C:0.05, G:0.08, T:0.50
Consensus pattern (19 bp):
TTAGTAACTTATTACTAAT
Found at i:7115385 original size:27 final size:27
Alignment explanation
Indices: 7115347--7115423 Score: 102
Period size: 27 Copynumber: 2.9 Consensus size: 27
7115337 CCGGCCCGGC
*
7115347 CCATTGGCGCCTCTCAGA-ATGGCACCA
1 CCATTGGCGCCTCCCAGATA-GGCACCA
*
7115374 CCATTGGCGCCTCCCAGGTAGGCACCA
1 CCATTGGCGCCTCCCAGATAGGCACCA
* *
7115401 CCATTGGCGCTTCCTAGATAGGC
1 CCATTGGCGCCTCCCAGATAGGC
7115424 GCCAATACTA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
27 43 0.98
28 1 0.02
ACGTcount: A:0.19, C:0.36, G:0.25, T:0.19
Consensus pattern (27 bp):
CCATTGGCGCCTCCCAGATAGGCACCA
Found at i:7119998 original size:24 final size:24
Alignment explanation
Indices: 7119971--7120019 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
7119961 ATCTCCCTTG
* *
7119971 ACCTTCCACCTTTCATCTTCTTTA
1 ACCTTCAACCTTCCATCTTCTTTA
*
7119995 ACCTTTAACCTTCCATCTTCTTTA
1 ACCTTCAACCTTCCATCTTCTTTA
7120019 A
1 A
7120020 ACATTTCATC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.20, C:0.35, G:0.00, T:0.45
Consensus pattern (24 bp):
ACCTTCAACCTTCCATCTTCTTTA
Found at i:7143096 original size:135 final size:135
Alignment explanation
Indices: 7142927--7143198 Score: 508
Period size: 135 Copynumber: 2.0 Consensus size: 135
7142917 ACTTGTTGAA
7142927 TGATTGTCGTTGACAAGATTAATGTTTATTAACATTGTGTTAAATGTATAAAATGAAACGGGTAT
1 TGATTGTCGTTGACAAGATTAATGTTTATTAACATTGTGTTAAATGTATAAAATGAAACGGGTAT
* *
7142992 ATAAAACAGTTATATGGAATGAGAGACTGATATGAATTATTTAAACGAAATGTAATTTATAAAAT
66 ATAAAACAGTTATATGGAATGAGAGACTAATATGAATTATTTAAACGAAATGTAATTTACAAAAT
7143057 GATTT
131 GATTT
* *
7143062 TGATTGTGGTTGACAGGATTAATGTTTATTAACATTGTGTTAAATGTATAAAATGAAACGGGTAT
1 TGATTGTCGTTGACAAGATTAATGTTTATTAACATTGTGTTAAATGTATAAAATGAAACGGGTAT
7143127 ATAAAACAGTTATATGGAATGAGAGACTAATATGAATTATTTAAACGAAATGTAATTTACAAAAT
66 ATAAAACAGTTATATGGAATGAGAGACTAATATGAATTATTTAAACGAAATGTAATTTACAAAAT
7143192 GATTT
131 GATTT
7143197 TG
1 TG
7143199 TGTTAAATGT
Statistics
Matches: 133, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
135 133 1.00
ACGTcount: A:0.40, C:0.05, G:0.18, T:0.36
Consensus pattern (135 bp):
TGATTGTCGTTGACAAGATTAATGTTTATTAACATTGTGTTAAATGTATAAAATGAAACGGGTAT
ATAAAACAGTTATATGGAATGAGAGACTAATATGAATTATTTAAACGAAATGTAATTTACAAAAT
GATTT
Found at i:7143230 original size:13 final size:13
Alignment explanation
Indices: 7143212--7143359 Score: 120
Period size: 13 Copynumber: 11.2 Consensus size: 13
7143202 TAAATGTGTA
*
7143212 ATATGAAATGGTT
1 ATATGAAATGATT
* *
7143225 ATATGAGACGATT
1 ATATGAAATGATT
* *
7143238 ATACGAAATGGTT
1 ATATGAAATGATT
* *
7143251 ATATAAAATGAAT
1 ATATGAAATGATT
* *
7143264 ATATAAAATGAAT
1 ATATGAAATGATT
7143277 ATATGAAATGATT
1 ATATGAAATGATT
* *
7143290 ATATGAATTGGTT
1 ATATGAAATGATT
7143303 ATATGGAAATAGA-T
1 ATAT-GAAAT-GATT
7143317 ATACT-AAATGATT
1 ATA-TGAAATGATT
* *
7143330 ATATGAATTGGTT
1 ATATGAAATGATT
*
7143343 ATATGGAAATAATT
1 ATAT-GAAATGATT
7143357 ATA
1 ATA
7143360 AAGTGTTTAT
Statistics
Matches: 107, Mismatches: 22, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
12 3 0.03
13 85 0.79
14 17 0.16
15 2 0.02
ACGTcount: A:0.45, C:0.02, G:0.17, T:0.36
Consensus pattern (13 bp):
ATATGAAATGATT
Found at i:7143383 original size:38 final size:40
Alignment explanation
Indices: 7143282--7143384 Score: 122
Period size: 40 Copynumber: 2.6 Consensus size: 40
7143272 TGAATATATG
* *
7143282 AAATGATTATATGAATTGGTTATATGGAAATAGATATACT
1 AAATGATTATAAGAAATGGTTATATGGAAATAGATATACT
* *
7143322 AAATGATTATATGAATTGGTTATATGGAAATA-AT-TA-T
1 AAATGATTATAAGAAATGGTTATATGGAAATAGATATACT
* *
7143359 AAAGTGTTTATAAGAAATGTTTATAT
1 AAA-TGATTATAAGAAATGGTTATAT
7143385 AGATAGATAT
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
37 4 0.07
38 20 0.34
39 2 0.03
40 32 0.55
ACGTcount: A:0.43, C:0.01, G:0.17, T:0.40
Consensus pattern (40 bp):
AAATGATTATAAGAAATGGTTATATGGAAATAGATATACT
Found at i:7146295 original size:39 final size:39
Alignment explanation
Indices: 7146048--7146291 Score: 362
Period size: 39 Copynumber: 6.3 Consensus size: 39
7146038 AATGGAATAT
* *
7146048 TGATTATACTGAATGCTTGCTCAAATGAGCATTATGCAC
1 TGATTATACTGAATGCTTGCTCAAACGAGCATTATCCAC
* *
7146087 TGATTATACTAAATGCTTGCTTAAACGAGCATTATCCAC
1 TGATTATACTGAATGCTTGCTCAAACGAGCATTATCCAC
* *
7146126 TAATTATACTGAATGCTTGCTCAAACAAGCATTATCCAC
1 TGATTATACTGAATGCTTGCTCAAACGAGCATTATCCAC
*
7146165 TGATTATACTGAATGCTTGCTCAAATGAGCATTATCCAC
1 TGATTATACTGAATGCTTGCTCAAACGAGCATTATCCAC
* * *
7146204 TGATTATACTGAATGCTTGCTCAAACGAGTAATATTCAC
1 TGATTATACTGAATGCTTGCTCAAACGAGCATTATCCAC
* * *
7146243 TGATTATACTAAATGCTTGCTCAAATGAGCATTATCCAT
1 TGATTATACTGAATGCTTGCTCAAACGAGCATTATCCAC
*
7146282 TGGTTATACT
1 TGATTATACT
7146292 AAATAAGATT
Statistics
Matches: 183, Mismatches: 22, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 183 1.00
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.34
Consensus pattern (39 bp):
TGATTATACTGAATGCTTGCTCAAACGAGCATTATCCAC
Found at i:7148051 original size:16 final size:16
Alignment explanation
Indices: 7148032--7148062 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7148022 TGGATTGAAA
*
7148032 AAAAATTATTTAATTG
1 AAAAATTAATTAATTG
7148048 AAAAATTAATTAATT
1 AAAAATTAATTAATT
7148063 TAATTTAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (16 bp):
AAAAATTAATTAATTG
Found at i:7148065 original size:21 final size:19
Alignment explanation
Indices: 7148025--7148067 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
7148015 TTAGAATTGG
7148025 ATTGAAAAAAAATTATTTA
1 ATTGAAAAAAAATTATTTA
*
7148044 ATTGAAAAATTAATTAATTTA
1 ATTGAAAAA-AAATT-ATTTA
7148065 ATT
1 ATT
7148068 TAAATTAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.43
20 4 0.19
21 8 0.38
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (19 bp):
ATTGAAAAAAAATTATTTA
Found at i:7148914 original size:18 final size:19
Alignment explanation
Indices: 7148889--7148942 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 19
7148879 AGTTCTAAGT
7148889 ATTATATAAAAAAAACAAC
1 ATTATATAAAAAAAACAAC
**
7148908 A-TATATAATTAAAACAAC
1 ATTATATAAAAAAAACAAC
7148926 ATTAATATTAAAAAAAA
1 ATT-ATA-TAAAAAAAA
7148943 TCCATAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 16 0.57
19 2 0.07
20 3 0.11
21 7 0.25
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (19 bp):
ATTATATAAAAAAAACAAC
Found at i:7150126 original size:20 final size:20
Alignment explanation
Indices: 7150092--7150144 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
7150082 TTTACCCCTT
*
7150092 AAATTTTTA-TTTATTTATA
1 AAATTATTATTTTATTTATA
*
7150111 AGATTATTATTTTATTTATA
1 AAATTATTATTTTATTTATA
*
7150131 AAATTTTTATTTTA
1 AAATTATTATTTTA
7150145 ATAAATAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 7 0.24
20 22 0.76
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (20 bp):
AAATTATTATTTTATTTATA
Found at i:7150470 original size:28 final size:28
Alignment explanation
Indices: 7150435--7150492 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 28
7150425 TAAAAATATT
* *
7150435 AAATTT-AACATTAGT-GACTAAAATAGA
1 AAATTTAAAC-TTAGTCGACCAAAACAGA
7150462 AAATCTTAAACTTAGTCGACCAAAACAGA
1 AAAT-TTAAACTTAGTCGACCAAAACAGA
7150491 AA
1 AA
7150493 CACACTAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
27 4 0.15
28 7 0.27
29 15 0.58
ACGTcount: A:0.52, C:0.14, G:0.10, T:0.24
Consensus pattern (28 bp):
AAATTTAAACTTAGTCGACCAAAACAGA
Found at i:7151130 original size:7 final size:7
Alignment explanation
Indices: 7151120--7151144 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
7151110 TCTACCCACT
7151120 GCCCAAC
1 GCCCAAC
7151127 GCCCAAC
1 GCCCAAC
7151134 GCCCAAC
1 GCCCAAC
7151141 GCCC
1 GCCC
7151145 TTTCCCTATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.60, G:0.16, T:0.00
Consensus pattern (7 bp):
GCCCAAC
Found at i:7160229 original size:6 final size:6
Alignment explanation
Indices: 7160220--7160244 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
7160210 TTCTTCTTCT
7160220 CACAGC CACAGC CACAGC CACAGC C
1 CACAGC CACAGC CACAGC CACAGC C
7160245 TCTTCTTTTC
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:0.32, C:0.52, G:0.16, T:0.00
Consensus pattern (6 bp):
CACAGC
Found at i:7165069 original size:95 final size:95
Alignment explanation
Indices: 7164906--7165096 Score: 337
Period size: 95 Copynumber: 2.0 Consensus size: 95
7164896 GCTAAACCCA
*
7164906 ACACATCCTTATTTAACAATGCTAAGATACTAATAAATGTGCAATGAAAAGTAACCGACTCGAGT
1 ACACATCCTTATTTAACAAGGCTAAGATACTAATAAATGTGCAATGAAAAGTAACCGACTCGAGT
7164971 CATGTTAATTGTTGTAAGCTTATTAGAAAG
66 CATGTTAATTGTTGTAAGCTTATTAGAAAG
* * *
7165001 ACACATCCTTATTTAACAAGGCTAAGATACTAATAGATGTGCAATGAAAAGTAACCGATTTGAGT
1 ACACATCCTTATTTAACAAGGCTAAGATACTAATAAATGTGCAATGAAAAGTAACCGACTCGAGT
*
7165066 CATGTTAATTGTTGTAAGCTTGTTAGAAAG
66 CATGTTAATTGTTGTAAGCTTATTAGAAAG
7165096 A
1 A
7165097 ATTAATTCTT
Statistics
Matches: 91, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
95 91 1.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (95 bp):
ACACATCCTTATTTAACAAGGCTAAGATACTAATAAATGTGCAATGAAAAGTAACCGACTCGAGT
CATGTTAATTGTTGTAAGCTTATTAGAAAG
Found at i:7165765 original size:217 final size:214
Alignment explanation
Indices: 7165373--7165765 Score: 642
Period size: 214 Copynumber: 1.8 Consensus size: 214
7165363 AGAAGAAACT
* *
7165373 TATTTTACCAAAATTATTTTTCACTCATGATTTCGAGAAGAAAGACAATATAGAAGTTCAACAAA
1 TATTTCACCAAAATTATTCTTCACTCATGATTTCGAGAAGAAAGACAATATAGAAGTTCAACAAA
*
7165438 TTCATTCTAGTGATAATTTACAAATATTTTTACCAAGGCATTGTCAACCACAACATTCGAAAGAC
66 TTCATTCTAGTGATAATTTACAAATATTTTTACCAAGGCATTGCCAACCACAACATTCGAAAGAC
* * *
7165503 TAGTATACAAAATTGGAGTGCATTGACTTAAAGATGTAATGTGATGAGAGTCTAAGACATGTTAT
131 TAGTATACAAAATCGAAATGCATTGACTTAAAGATGTAATGTGATGAGAGTCTAAGACATGTTAT
7165568 ACTTTTTTCCTTTAATCAA
196 ACTTTTTTCCTTTAATCAA
* * *
7165587 TATTTCACCAAAATTATTCTTCACTCATGATTTTGAGAAGAAAGGCGATATAGAAGTTCAACAAA
1 TATTTCACCAAAATTATTCTTCACTCATGATTTCGAGAAGAAAGACAATATAGAAGTTCAACAAA
* * *
7165652 TTCATTCTAGTGATAATTTGACAAATCTTTTTTTACCAAGGCATTGCCAACCACAATATTTGAAA
66 TTCATTCTAGTGATAATTT-ACAAA--TATTTTTACCAAGGCATTGCCAACCACAACATTCGAAA
*
7165717 GACTAGTATACAAAATCGAAATGCATTGAGTTAAAGATGTAATGTGATG
128 GACTAGTATACAAAATCGAAATGCATTGACTTAAAGATGTAATGTGATG
7165766 TTGAGTGCAT
Statistics
Matches: 163, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
214 79 0.48
215 5 0.03
217 79 0.48
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (214 bp):
TATTTCACCAAAATTATTCTTCACTCATGATTTCGAGAAGAAAGACAATATAGAAGTTCAACAAA
TTCATTCTAGTGATAATTTACAAATATTTTTACCAAGGCATTGCCAACCACAACATTCGAAAGAC
TAGTATACAAAATCGAAATGCATTGACTTAAAGATGTAATGTGATGAGAGTCTAAGACATGTTAT
ACTTTTTTCCTTTAATCAA
Found at i:7166643 original size:27 final size:27
Alignment explanation
Indices: 7166613--7166665 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
7166603 ACTATCTCAT
7166613 AATTCAAGTATATCATTAAAACATACC
1 AATTCAAGTATATCATTAAAACATACC
7166640 AATTCAAGTATATCATTAAAACATAC
1 AATTCAAGTATATCATTAAAACATAC
7166666 ACTTGACATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.49, C:0.17, G:0.04, T:0.30
Consensus pattern (27 bp):
AATTCAAGTATATCATTAAAACATACC
Found at i:7170119 original size:19 final size:20
Alignment explanation
Indices: 7170095--7170140 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
7170085 ATATACTTGT
7170095 ATTAAACCTTAAT-TAATTA
1 ATTAAACCTTAATATAATTA
*
7170114 ATTAAACTTTAATCATAATTA
1 ATTAAACCTTAAT-ATAATTA
*
7170135 ACTAAA
1 ATTAAA
7170141 ATTAGTGGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 12 0.52
21 11 0.48
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (20 bp):
ATTAAACCTTAATATAATTA
Found at i:7172892 original size:29 final size:29
Alignment explanation
Indices: 7172856--7172914 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
7172846 AGGGTTCTTG
7172856 AGGCTTAGAATCCGTACTTAGCCTTCTCA
1 AGGCTTAGAATCCGTACTTAGCCTTCTCA
*
7172885 AGGCTTAGACTCCGTACTTAGCCTTCTCA
1 AGGCTTAGAATCCGTACTTAGCCTTCTCA
7172914 A
1 A
7172915 CGAGTATTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.31
Consensus pattern (29 bp):
AGGCTTAGAATCCGTACTTAGCCTTCTCA
Found at i:7185716 original size:202 final size:202
Alignment explanation
Indices: 7185370--7185977 Score: 1126
Period size: 202 Copynumber: 3.0 Consensus size: 202
7185360 TAAATTGTTG
* * *
7185370 AATTTCCGATTTTTTCTAATTATTTACGTATAAATCATTGAACTGTTAATTTCTATGTCAACTTT
1 AATTTCCGATTTTTGCTAATTATTTGCATATAAATCATTGAACTGTTAATTTCTATGTCAACTTT
* *
7185435 TTAACAGTAATGTTTAGCAATATTCTTTAATTGGACATTTCCGTGAAGCATAAGGATCAAATTTT
66 TTAACAGTAAGGTTTAGCAATATTCTTTAATTGGACATTTCCGTAAAGCATAAGGATCAAATTTT
* * *
7185500 GACAAATTAAAGTAGATGGGCTAACATATTAGTTTTTGTGAAGTAGAGGAATGGAATTCATAATT
131 GACAAATTAAAGTAGAGGGGCTAACATATTAGTTTTTGTAAAGTAGAGGGATGGAATTCATAATT
7185565 AAACCTA
196 AAACCTA
7185572 AATTTCCGATTTTTGCTAATTATTTGCATATAAATCATTGAACTGTTAATTTCTATGTCAACTTT
1 AATTTCCGATTTTTGCTAATTATTTGCATATAAATCATTGAACTGTTAATTTCTATGTCAACTTT
7185637 TTAACAGTAAGGTTTAGCAATATTCTTTAATTGGACATTTCCGTAAAGCATAAGGATCAAATTTT
66 TTAACAGTAAGGTTTAGCAATATTCTTTAATTGGACATTTCCGTAAAGCATAAGGATCAAATTTT
*
7185702 GACAAATTAAAGTAGAGGGGCTAACATATTAGTTTTTGTAAAGTAGAGGGACGGAATTCATAATT
131 GACAAATTAAAGTAGAGGGGCTAACATATTAGTTTTTGTAAAGTAGAGGGATGGAATTCATAATT
7185767 AAACCTA
196 AAACCTA
7185774 AATTTCCGATTTTTGCTAATTATTTGCATATAAATCATTGAACTGTTAATTTCTATGTCAACTTT
1 AATTTCCGATTTTTGCTAATTATTTGCATATAAATCATTGAACTGTTAATTTCTATGTCAACTTT
*
7185839 TTAACAGTAAGGTTTAGCAATATTCTTTAATTGGACATTTCCGTAAAGTATAAGGATCAAATTTT
66 TTAACAGTAAGGTTTAGCAATATTCTTTAATTGGACATTTCCGTAAAGCATAAGGATCAAATTTT
7185904 GACAAATTAAAGTAGAGGGGCTAACATATTAGTTTTTGTAAAGTAGAGGGATGGAATTCATAATT
131 GACAAATTAAAGTAGAGGGGCTAACATATTAGTTTTTGTAAAGTAGAGGGATGGAATTCATAATT
7185969 AAACCTA
196 AAACCTA
7185976 AA
1 AA
7185978 AAAGGTAATG
Statistics
Matches: 395, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
202 395 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.38
Consensus pattern (202 bp):
AATTTCCGATTTTTGCTAATTATTTGCATATAAATCATTGAACTGTTAATTTCTATGTCAACTTT
TTAACAGTAAGGTTTAGCAATATTCTTTAATTGGACATTTCCGTAAAGCATAAGGATCAAATTTT
GACAAATTAAAGTAGAGGGGCTAACATATTAGTTTTTGTAAAGTAGAGGGATGGAATTCATAATT
AAACCTA
Found at i:7191652 original size:52 final size:51
Alignment explanation
Indices: 7191575--7191674 Score: 182
Period size: 52 Copynumber: 1.9 Consensus size: 51
7191565 AGAGAGTGAG
7191575 AGAGAGAACGACACACAGCCTAAATAAATCAACCAATTCATAGGTGCTCGC
1 AGAGAGAACGACACACAGCCTAAATAAATCAACCAATTCATAGGTGCTCGC
*
7191626 AGAGAGAATGACACCACAGCCTAAATAAATCAACCAATTCATAGGTGCT
1 AGAGAGAACGACA-CACAGCCTAAATAAATCAACCAATTCATAGGTGCT
7191675 TGCATCCTTT
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
51 12 0.26
52 35 0.74
ACGTcount: A:0.42, C:0.24, G:0.17, T:0.17
Consensus pattern (51 bp):
AGAGAGAACGACACACAGCCTAAATAAATCAACCAATTCATAGGTGCTCGC
Found at i:7200351 original size:44 final size:43
Alignment explanation
Indices: 7200268--7200579 Score: 293
Period size: 44 Copynumber: 7.0 Consensus size: 43
7200258 GAGACTTGTA
* ***
7200268 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTT
1 TCTT-GATCTACTTCA-CGCCAGTACATGAAGACAAGATCTGCTT
* *
7200313 TCTCTGATCTACTTCACGCTAATACATGAAGACAAGATCTGCTT
1 TCT-TGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTT
* * *** * * *
7200357 TCTTTGATCTGCTTTGC-CACCAGTATGGGAAGGCAAGATCTGGTA
1 TC-TTGATCTAC-TT-CACGCCAGTACATGAAGACAAGATCTGCTT
* *
7200402 TCTCTGATCTACTTCACGCCAGTACATAAAGACAAGATCTTCTT
1 TCT-TGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTT
*
7200446 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
1 TCTT-GATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTT
* * *** * *
7200490 TCTTGGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTA
1 TCTT-GATCTACTTC-ACGCCAGTACATGAAGACAAGATCTGCTT
*
7200535 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCCGCTT
1 TC-TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTT
7200579 T
1 T
7200580 TTCCGATTGA
Statistics
Matches: 212, Mismatches: 46, Indels: 19
0.77 0.17 0.07
Matches are distributed among these distances:
43 2 0.01
44 128 0.60
45 78 0.37
46 4 0.02
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (43 bp):
TCTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTT
Found at i:7200470 original size:133 final size:133
Alignment explanation
Indices: 7200297--7200579 Score: 469
Period size: 133 Copynumber: 2.1 Consensus size: 133
7200287 CCAGTATGGG
* *
7200297 AAGACAAGATCTGCTTTCTCTGATCTACTTCACGCTAATACATGAAGACAAGATCTGCTTTCTTT
1 AAGACAAGATCTGCTTTCTCTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTG
* * *
7200362 GATCTGCTTTGCCACCAGTATGGGAAGGCAAGATCTGGTATCTCTGATCTACTTCACGCCAGTAC
66 GATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTCTGATCTACTTCACGCCAGTAC
7200427 ATA
131 ATA
*
7200430 AAGACAAGATCTTCTTTCT-TCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
1 AAGACAAGATCTGCTTTCTCT-GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
*
7200494 GGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTA
65 GGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTCTGATCTACTTCACGCCAGTA
*
7200559 CATG
130 CATA
*
7200563 AAGACAAGATCCGCTTT
1 AAGACAAGATCTGCTTT
7200580 TTCCGATTGA
Statistics
Matches: 139, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
132 1 0.01
133 138 0.99
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (133 bp):
AAGACAAGATCTGCTTTCTCTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTG
GATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTCTGATCTACTTCACGCCAGTAC
ATA
Found at i:7200513 original size:89 final size:88
Alignment explanation
Indices: 7200268--7200579 Score: 322
Period size: 89 Copynumber: 3.5 Consensus size: 88
7200258 GAGACTTGTA
** *
7200268 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTTTCTCTGATCTACTTCACGCT
1 TCTTCGATCTACTTCA-CACCAGTACAGGAAGACAAGATCTGCTTTCTCTGATCTACTTCACGCC
*
7200333 AATACATGAAGACAAGATCTGCTT
65 AGTACATGAAGACAAGATCTGCTT
* * ** * * *
7200357 TCTTTGATCTGCTTTGC-CACCAGTATGGGAAGGCAAGATCTGGTATCTCTGATCTACTTCACGC
1 TCTTCGATCTAC-TT-CACACCAGTACAGGAAGACAAGATCTGCTTTCTCTGATCTACTTCACGC
* *
7200421 CAGTACATAAAGACAAGATCTTCTT
64 CAGTACATGAAGACAAGATCTGCTT
* * * * *
7200446 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCT-TGGATCTACTTCGCCAC
1 TCTTCGATCTACTTCACACCAGTACAGGAAGACAAGATCTGCTTTCTCT-GATCTACTTC-ACGC
*** * *
7200510 CAGTATGGGAAGACAAGATCTGGTA
64 CAGTACATGAAGACAAGATCTGCTT
* * * *
7200535 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCCGCTTT
1 TCTTCGATCTACTTCACACCAGTACAGGAAGACAAGATCTGCTTT
7200580 TTCCGATTGA
Statistics
Matches: 187, Mismatches: 31, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
87 2 0.01
88 35 0.19
89 147 0.79
90 2 0.01
91 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (88 bp):
TCTTCGATCTACTTCACACCAGTACAGGAAGACAAGATCTGCTTTCTCTGATCTACTTCACGCCA
GTACATGAAGACAAGATCTGCTT
Found at i:7200636 original size:14 final size:14
Alignment explanation
Indices: 7200617--7200648 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
7200607 GAGGTAGAAT
7200617 TACTAGCTTCAATA
1 TACTAGCTTCAATA
7200631 TACTAGCTTCAATA
1 TACTAGCTTCAATA
7200645 TACT
1 TACT
7200649 CCACGGCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.34, C:0.22, G:0.06, T:0.38
Consensus pattern (14 bp):
TACTAGCTTCAATA
Found at i:7200801 original size:278 final size:264
Alignment explanation
Indices: 7200434--7201073 Score: 1046
Period size: 264 Copynumber: 2.4 Consensus size: 264
7200424 TACATAAAGA
* * * *
7200434 CAAGATCTTCTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTGGATC
1 CAAGATC-TATTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTGGATC
*
7200499 TACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGA
65 TACTTCACCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGA
7200564 AGACAAGATCCGCTTTTTCCGATTGATTCCACTGCCAACCGGGGAGGTAGAATTACTAGCTTCAA
130 AGACAAGATCCGCTTTTTCCGATTGATTCCACTGCCAACCGGGGA-G--G------TAG----AA
7200629 TATACTAGCTTCAATATACTCCACGGCAACTTCAGGGAGGTATAATCCGCCATCTTCGATCTGCT
182 T-TACTAGCTTCAATATACTCCACGGCAACTTCAGGGAGGTATAATCCGCCATCTTCGATCTGCT
7200694 CCACTACTGCTTAGGGAGG
246 CCACTACTGCTTAGGGAGG
* *
7200713 CAAGATCTATTTCTTTGATCTACTTCACGCCAGTGCATGAAGACAATATCTGTTTTCTTGGATCT
1 CAAGATCTATTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTGGATCT
*
7200778 ACTTCACCACTAGTATGGGAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAA
66 ACTTCACCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAA
*
7200843 GACAAGATCCGCTTTTTTCGATTGATTCCACTGCCAACCGGGGAGGTAGAATTACTAGCTTCAAT
131 GACAAGATCCGCTTTTTCCGATTGATTCCACTGCCAACCGGGGAGGTAGAATTACTAGCTTCAAT
7200908 ATACTCCACGGCAACTTCAGGGAGGTATAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGG
196 ATACTCCACGGCAACTTCAGGGAGGTATAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGG
7200973 GAGG
261 GAGG
*
7200977 CAAGATCTGTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTGGATCT
1 CAAGATCTATTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTGGATCT
*
7201042 ACTTCACCACCAGTATGGGGAGACAAGATCTG
66 ACTTCACCACCAGTATGGGAAGACAAGATCTG
7201074 TTGTATTCAA
Statistics
Matches: 347, Mismatches: 14, Indels: 15
0.92 0.04 0.04
Matches are distributed among these distances:
264 174 0.50
265 3 0.01
269 3 0.01
275 1 0.00
277 1 0.00
278 158 0.46
279 7 0.02
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (264 bp):
CAAGATCTATTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTGGATCT
ACTTCACCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAA
GACAAGATCCGCTTTTTCCGATTGATTCCACTGCCAACCGGGGAGGTAGAATTACTAGCTTCAAT
ATACTCCACGGCAACTTCAGGGAGGTATAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGG
GAGG
Found at i:7201070 original size:45 final size:44
Alignment explanation
Indices: 7200970--7201075 Score: 133
Period size: 45 Copynumber: 2.4 Consensus size: 44
7200960 ACTACTGCTT
* * *
7200970 AGGGAGGCAAGATCTG-TTTCTTTGATCTACTTCACGCCAGTAC
1 AGGGAGACAAGATCTGTTTTCTTGGATCTACTTCACACCAGTAC
* * *
7201013 ATGAAGACAAGATCTGTTTTCTTGGATCTACTTCACCACCAGTAT
1 AGGGAGACAAGATCTGTTTTCTTGGATCTACTTCA-CACCAGTAC
*
7201058 GGGGAGACAAGATCTGTT
1 AGGGAGACAAGATCTGTT
7201076 GTATTCAACC
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 13 0.25
44 17 0.33
45 22 0.42
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (44 bp):
AGGGAGACAAGATCTGTTTTCTTGGATCTACTTCACACCAGTAC
Found at i:7202409 original size:43 final size:42
Alignment explanation
Indices: 7202344--7202424 Score: 117
Period size: 43 Copynumber: 1.9 Consensus size: 42
7202334 AGCCTCTCCA
* * *
7202344 TTTTGCTCAAGGCTCCCTTTGTAGGGTTTCACCCTGGTTTTT
1 TTTTGCTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTTTTT
*
7202386 TTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCTTGGT
1 TTTTG-CTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGT
7202425 CCCACCTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
42 5 0.15
43 29 0.85
ACGTcount: A:0.12, C:0.25, G:0.21, T:0.42
Consensus pattern (42 bp):
TTTTGCTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTTTTT
Found at i:7213870 original size:20 final size:20
Alignment explanation
Indices: 7213841--7213901 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
7213831 AATAAAAAAT
*
7213841 AATTATGATTTTAATAATTA
1 AATTAAGATTTTAATAATTA
7213861 AATTAAGATTTTCAAATAA--A
1 AATTAAGATTTT--AATAATTA
* *
7213881 AATTAAGAATTAAAT-ATTA
1 AATTAAGATTTTAATAATTA
7213900 AA
1 AA
7213902 ATTTTTCTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
17 1 0.03
18 3 0.09
19 3 0.09
20 22 0.65
22 5 0.15
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (20 bp):
AATTAAGATTTTAATAATTA
Found at i:7216816 original size:19 final size:19
Alignment explanation
Indices: 7216781--7216819 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
7216771 CCCATTAAAA
7216781 AATATTATATTTCTTCATG
1 AATATTATATTTCTTCATG
7216800 AATACTTATATTT-TTCATG
1 AATA-TTATATTTCTTCATG
7216819 A
1 A
7216820 GTAATTCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.33, C:0.10, G:0.05, T:0.51
Consensus pattern (19 bp):
AATATTATATTTCTTCATG
Found at i:7227643 original size:30 final size:30
Alignment explanation
Indices: 7227609--7227671 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
7227599 TTGATAGTTT
7227609 TACATGATATTCTTTCGAAAGTAATTACAA
1 TACATGATATTCTTTCGAAAGTAATTACAA
7227639 TACATGATATTCTTTCGAAAGTAATTACAA
1 TACATGATATTCTTTCGAAAGTAATTACAA
7227669 TAC
1 TAC
7227672 CACGCTTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.37
Consensus pattern (30 bp):
TACATGATATTCTTTCGAAAGTAATTACAA
Found at i:7230049 original size:6 final size:7
Alignment explanation
Indices: 7230023--7230047 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
7230013 CAATTATAAT
7230023 AAAAAGA
1 AAAAAGA
7230030 AAAAAGA
1 AAAAAGA
7230037 AAAAAGA
1 AAAAAGA
7230044 AAAA
1 AAAA
7230048 GAGCAGAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:7233168 original size:20 final size:21
Alignment explanation
Indices: 7233143--7233195 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
7233133 TTGTAAGGGA
* *
7233143 TTGCACTTCGGTGCCACT-AT
1 TTGCACTTCGATGCCACTGAC
7233163 TTGCACTTCGATGCCACTGAC
1 TTGCACTTCGATGCCACTGAC
*
7233184 TTGCACTACGAT
1 TTGCACTTCGAT
7233196 ACCTATTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.19, C:0.30, G:0.19, T:0.32
Consensus pattern (21 bp):
TTGCACTTCGATGCCACTGAC
Found at i:7233263 original size:23 final size:22
Alignment explanation
Indices: 7233197--7233267 Score: 88
Period size: 22 Copynumber: 3.2 Consensus size: 22
7233187 CACTACGATA
*
7233197 CCTATTGTTCAACATTTCGGTG
1 CCTATTGTTCAACACTTCGGTG
* * *
7233219 CCTACTATTCAACACTTTGGTG
1 CCTATTGTTCAACACTTCGGTG
*
7233241 CCTATTGTTTAAGCACTTCGGTG
1 CCTATTGTTCAA-CACTTCGGTG
7233264 CCTA
1 CCTA
7233268 CTGGTGTGGT
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
22 27 0.68
23 13 0.32
ACGTcount: A:0.20, C:0.25, G:0.17, T:0.38
Consensus pattern (22 bp):
CCTATTGTTCAACACTTCGGTG
Found at i:7242881 original size:24 final size:23
Alignment explanation
Indices: 7242837--7242881 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
7242827 GTTTTATGGC
*
7242837 TTTTAGGGTTTAGGGTGCAGGCT
1 TTTTAGGGTTTAGGGTCCAGGCT
7242860 TTTTAGGAG-TTAGGGGTCCAGG
1 TTTTAGG-GTTTA-GGGTCCAGG
7242882 AAAATTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.16, C:0.09, G:0.40, T:0.36
Consensus pattern (23 bp):
TTTTAGGGTTTAGGGTCCAGGCT
Found at i:7243042 original size:124 final size:124
Alignment explanation
Indices: 7242898--7243177 Score: 377
Period size: 124 Copynumber: 2.3 Consensus size: 124
7242888 TTTTTTCGAG
* ** ** * *
7242898 TTGACGTTTCTG-GTTAAATAGTGGGAAATCGCTTCTACTAGGATGCTATTTAAGAAGAAATTGT
1 TTGACGTTTCTGAG-CAAATAGTGTAAAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGT
* * *
7242962 GAAATAGTGGCCTCGTGGACGCGATTTCGCTACAG-TGGTCATGT-GAGAAATAATTTTTT
65 GAAATAGCGCCCTCGTGGACGCGATTTCGCCACAGTTGGTCATGTAG-GAAATAATTTTTT
* * *
7243021 TTGACGTTTTCTGAGGAAATAGTATAAAATCGCTGATACCAGGATGCTATATGAGAAGAAATTGT
1 TTGACG-TTTCTGAGCAAATAGTGTAAAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGT
*
7243086 GAAATTGCGCCCTCGTGGACGCGATTTCGCCACAGTTGGTCATGTAGGAAATAATTTTTT
65 GAAATAGCGCCCTCGTGGACGCGATTTCGCCACAGTTGGTCATGTAGGAAATAATTTTTT
*
7243146 TTGACGTTTCTGAGCAAATAGTGTCAAATCGC
1 TTGACGTTTCTGAGCAAATAGTGTAAAATCGC
7243178 GCCNNNNNNN
Statistics
Matches: 137, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
123 6 0.04
124 101 0.74
125 29 0.21
126 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.33
Consensus pattern (124 bp):
TTGACGTTTCTGAGCAAATAGTGTAAAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGTG
AAATAGCGCCCTCGTGGACGCGATTTCGCCACAGTTGGTCATGTAGGAAATAATTTTTT
Found at i:7245535 original size:28 final size:29
Alignment explanation
Indices: 7245503--7245558 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 29
7245493 TGAAAATATT
7245503 AAAAATTTTAAAATTAT-TTAAAAAAATA
1 AAAAATTTTAAAATTATCTTAAAAAAATA
*
7245531 AAAAATTTTAAAATTTTCTTAAAAAAAT
1 AAAAATTTTAAAATTATCTTAAAAAAAT
7245559 GAAATTTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 16 0.62
29 10 0.38
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (29 bp):
AAAAATTTTAAAATTATCTTAAAAAAATA
Found at i:7245630 original size:22 final size:22
Alignment explanation
Indices: 7245600--7245641 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
7245590 ATTTGAAGAT
*
7245600 TTTTTGAAGGAAATTGAGAGGG
1 TTTTGGAAGGAAATTGAGAGGG
*
7245622 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
7245642 TTTGAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.36, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGG
Found at i:7245668 original size:22 final size:23
Alignment explanation
Indices: 7245643--7245734 Score: 84
Period size: 22 Copynumber: 4.2 Consensus size: 23
7245633 ATTTGAGAGT
7245643 TTGAGAG-AATTTTGGAAGAAAA
1 TTGAGAGAAATTTTGGAAGAAAA
* **
7245665 TTGATAGAAATTTT-GAAGGGAA
1 TTGAGAGAAATTTTGGAAGAAAA
* * *
7245687 TTGAAAGAAATTTTGAAAG-GAA
1 TTGAGAGAAATTTTGGAAGAAAA
* *
7245709 TTGAGAGAATTTTTGAAAG-AAA
1 TTGAGAGAAATTTTGGAAGAAAA
7245731 TTGA
1 TTGA
7245735 TATTGAATTT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
22 51 0.85
23 9 0.15
ACGTcount: A:0.45, C:0.00, G:0.25, T:0.30
Consensus pattern (23 bp):
TTGAGAGAAATTTTGGAAGAAAA
Found at i:7248498 original size:11 final size:11
Alignment explanation
Indices: 7248476--7248511 Score: 63
Period size: 11 Copynumber: 3.2 Consensus size: 11
7248466 AACTAATTCT
7248476 CTCTCAAATTTC
1 CTCTC-AATTTC
7248488 CTCTCAATTTC
1 CTCTCAATTTC
7248499 CTCTCAATTTC
1 CTCTCAATTTC
7248510 CT
1 CT
7248512 TAAAAAATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 19 0.79
12 5 0.21
ACGTcount: A:0.19, C:0.36, G:0.00, T:0.44
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:7251902 original size:126 final size:125
Alignment explanation
Indices: 7251747--7252099 Score: 548
Period size: 126 Copynumber: 2.8 Consensus size: 125
7251737 CCCAAACATG
* * * *
7251747 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTTACAAATTCTTCTCAAATAGCATTCTC
1 CTACTGTAGCAAAAGCGCGTCCATGAGGGCGCGATTTTCACAAATTCTTCTTAAATAGCATCCTC
7251812 CTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTTATTTCTTCCATAAC
66 CTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAA-TTATTTCTTCCATAAC
*
7251873 CTACTGTAGCAAAAGCGCGTCCATGAGGGCGCGATTTTCCCAAATTCTTCTTAAATAGCATCCTC
1 CTACTGTAGCAAAAGCGCGTCCATGAGGGCGCGATTTTCACAAATTCTTCTTAAATAGCATCCTC
* * * * *
7251938 GTAGAAGCGATTTTATACTATTTGCTTAGAAACGTTAAAAAAGATTATTTCTTCCATGAC
66 CTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTCCATAAC
* *
7251998 TTACTGTAGCAAAAGCGCGTCCACT-AGGGCGC-AATTTCACAAATTCTTCTTAAATAGCATCCT
1 CTACTGTAGCAAAAGCGCGTCCA-TGAGGGCGCGATTTTCACAAATTCTTCTTAAATAGCATCCT
* *
7252061 GCTAGAAGCGATTTTATACTATTTGATCAGAAACGTCAA
65 CCTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAA
7252100 CTCAAAATTA
Statistics
Matches: 208, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
124 63 0.30
125 44 0.21
126 101 0.49
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.31
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCATGAGGGCGCGATTTTCACAAATTCTTCTTAAATAGCATCCTC
CTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTCCATAAC
Found at i:7254586 original size:4 final size:4
Alignment explanation
Indices: 7254577--7255138 Score: 991
Period size: 4 Copynumber: 140.8 Consensus size: 4
7254567 ATTTTGTTAT
* *
7254577 ATAC ATAC ATAC ATAC ATGC AT-G ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
7254624 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC GTAC ATAC GTAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
7254672 GTAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC GTAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
7254720 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
*
7254768 ATAC ATAC ATAC ATAC ATAC ATAC GTAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
7254816 ATAC ATAC ATAC ATAC ATAC GTAC ATAC GTAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
7254864 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
* * *
7254912 ATAC ATAC GTAC ATAC GTAC ATAC ATAC ATAC ATAC ATAC GTAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
7254960 GTAC ATAC GTAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
7255008 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
7255056 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
7255104 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
7255139 TCTTTTTGCA
Statistics
Matches: 530, Mismatches: 27, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
3 2 0.00
4 528 1.00
ACGTcount: A:0.48, C:0.25, G:0.02, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:7258677 original size:6 final size:6
Alignment explanation
Indices: 7258666--7258693 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
7258656 ATACTGACAA
7258666 CAATAT CAATAT CAATAT CAATAT CAAT
1 CAATAT CAATAT CAATAT CAATAT CAAT
7258694 TGAATTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.18, G:0.00, T:0.32
Consensus pattern (6 bp):
CAATAT
Found at i:7268559 original size:16 final size:16
Alignment explanation
Indices: 7268533--7268586 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
7268523 TTTGGTTCGC
*
7268533 TGTATTGGAATAGAGG
1 TGTAATGGAATAGAGG
*
7268549 CGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
*
7268565 TGTAATGGATTAGAGG
1 TGTAATGGAATAGAGG
7268581 TGTAAT
1 TGTAAT
7268587 AGCAAATCAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.33, C:0.02, G:0.35, T:0.30
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Done.