Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 259 of 320
Found at i:84406746 original size:18 final size:16
Alignment explanation
Indices: 84406716--84406761 Score: 56
Period size: 18 Copynumber: 2.7 Consensus size: 16
84406706 ATGTTTAGTT
84406716 ATTTATTTATTTGATTTG
1 ATTTATTT-TTTG-TTTG
*
84406734 ATTTAATTTTTTGTTTT
1 ATTT-ATTTTTTGTTTG
84406751 ATTTATTTTTT
1 ATTTATTTTTT
84406762 TACATAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
16 7 0.27
17 7 0.27
18 8 0.31
19 4 0.15
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.74
Consensus pattern (16 bp):
ATTTATTTTTTGTTTG
Found at i:84416752 original size:13 final size:14
Alignment explanation
Indices: 84416716--84416752 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
84416706 TATATATGTA
84416716 TATGAATTTTATTT
1 TATGAATTTTATTT
84416730 TAT-AATTTTA-TT
1 TATGAATTTTATTT
*
84416742 TATGAAATTTA
1 TATGAATTTTA
84416753 ACTTTAAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
12 5 0.24
13 13 0.62
14 3 0.14
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.59
Consensus pattern (14 bp):
TATGAATTTTATTT
Found at i:84417203 original size:26 final size:24
Alignment explanation
Indices: 84417174--84417224 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 24
84417164 AAAAAAAATC
84417174 TTAATAATCTTAATTTTTTGTGTTAT
1 TTAATAATCTTAA-TTTTTGT-TTAT
* *
84417200 TTAATTATCTTTATTTTTGTTTAT
1 TTAATAATCTTAATTTTTGTTTAT
84417224 T
1 T
84417225 CCTCCTACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 5 0.22
25 7 0.30
26 11 0.48
ACGTcount: A:0.24, C:0.04, G:0.06, T:0.67
Consensus pattern (24 bp):
TTAATAATCTTAATTTTTGTTTAT
Found at i:84418417 original size:25 final size:25
Alignment explanation
Indices: 84418369--84418417 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
84418359 TTTAATTTTT
84418369 TATTAAATTTAAAATAAAATATTAA
1 TATTAAATTTAAAATAAAATATTAA
*
84418394 TATTATATTATAAAATAAAA-ATTA
1 TATTAAATT-TAAAATAAAATATTA
84418418 TTAAAATGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (25 bp):
TATTAAATTTAAAATAAAATATTAA
Found at i:84419132 original size:21 final size:22
Alignment explanation
Indices: 84419092--84419135 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 22
84419082 TGACTTAATT
84419092 GATATAACTTGAAAATTTTAAA
1 GATATAACTTGAAAATTTTAAA
84419114 GATATAA-TT-AAATATTTTAAA
1 GATATAACTTGAAA-ATTTTAAA
84419135 G
1 G
84419136 TCTAAAAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 3 0.14
21 11 0.52
22 7 0.33
ACGTcount: A:0.50, C:0.02, G:0.09, T:0.39
Consensus pattern (22 bp):
GATATAACTTGAAAATTTTAAA
Found at i:84421191 original size:23 final size:23
Alignment explanation
Indices: 84421163--84421209 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
84421153 TTAGAATGTC
84421163 TATTAGTTTAGGTTAATTGTAAT
1 TATTAGTTTAGGTTAATTGTAAT
84421186 TATTAGTTTAGGTTAATTGTAAT
1 TATTAGTTTAGGTTAATTGTAAT
84421209 T
1 T
84421210 TAATAATGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (23 bp):
TATTAGTTTAGGTTAATTGTAAT
Found at i:84424153 original size:44 final size:44
Alignment explanation
Indices: 84424104--84424340 Score: 222
Period size: 44 Copynumber: 5.2 Consensus size: 44
84424094 CCATCCATTA
* ** * *
84424104 GTGCAGATAAAAGTTGCTAATACGTTGCGAATGAACCACTAGTC
1 GTGCAGATAAAAGCTGCTAATACGTTATGGATGAACCACTTGTC
* * *
84424148 GTGCAGATAAATGCCGACTAAATACGTTATGGATAAACCACTTGTC
1 GTGCAGATAAAAGCTG-CT-AATACGTTATGGATGAACCACTTGTC
* * * *
84424194 GTGCATATAAATTGCTGACTAAAATATGTTGTGGATGAACCACTTGTC
1 GTGCAGATAAA-AGCTG-CT--AATACGTTATGGATGAACCACTTGTC
* * * ** * *
84424242 ATGTAGATAAAATCTATTAATATGTTATGGATAAACCACTTGTC
1 GTGCAGATAAAAGCTGCTAATACGTTATGGATGAACCACTTGTC
* * *
84424286 GTGCAAATAAAAGCTGCTAATAAGTTATGGATGAACCACTGGTC
1 GTGCAGATAAAAGCTGCTAATACGTTATGGATGAACCACTTGTC
84424330 GTGCAGATAAA
1 GTGCAGATAAA
84424341 CTGTCGACTA
Statistics
Matches: 157, Mismatches: 32, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
44 82 0.52
45 2 0.01
46 32 0.20
47 9 0.06
48 32 0.20
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (44 bp):
GTGCAGATAAAAGCTGCTAATACGTTATGGATGAACCACTTGTC
Found at i:84424235 original size:48 final size:46
Alignment explanation
Indices: 84424104--84424446 Score: 261
Period size: 48 Copynumber: 7.4 Consensus size: 46
84424094 CCATCCATTA
* * ** * *
84424104 GTGCAGATAAAAGTTG-CT-AATACGTTGCGAATGAACCACTAGTC
1 GTGCAGATAAATGCTGACTAAATACGTTATGGATGAACCACTTGTC
* *
84424148 GTGCAGATAAATGCCGACTAAATACGTTATGGATAAACCACTTGTC
1 GTGCAGATAAATGCTGACTAAATACGTTATGGATGAACCACTTGTC
* * *
84424194 GTGCATATAAATTGCTGACTAAAATATGTTGTGGATGAACCACTTGTC
1 GTGCAGATAAA-TGCTGACT-AAATACGTTATGGATGAACCACTTGTC
* * * * *
84424242 ATGTAGATAAAAT-CT-A-TTAATATGTTATGGATAAACCACTTGTC
1 GTGCAGAT-AAATGCTGACTAAATACGTTATGGATGAACCACTTGTC
* * * *
84424286 GTGCAAATAAAAGCTG-CT-AATAAGTTATGGATGAACCACTGGTC
1 GTGCAGATAAATGCTGACTAAATACGTTATGGATGAACCACTTGTC
* * *
84424330 GTGCAGATAAACTG-TCGACTAAAAGACGTTATGGCTGAACCACTGGTC
1 GTGCAGATAAA-TGCT-GACT-AAATACGTTATGGATGAACCACTTGTC
* * ** * * *
84424378 ATGCAGTTAAACTGCCAACTAAAATACGTTGTGGATGAATCACTAGTC
1 GTGCAGATAAA-TGCTGACT-AAATACGTTATGGATGAACCACTTGTC
* *
84424426 GTGCAGACAAACTGCCGACTA
1 GTGCAGATAAA-TGCTGACTA
84424447 CTTCCTCCGT
Statistics
Matches: 241, Mismatches: 44, Indels: 25
0.78 0.14 0.08
Matches are distributed among these distances:
43 3 0.01
44 78 0.32
45 6 0.02
46 34 0.14
47 10 0.04
48 107 0.44
49 3 0.01
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (46 bp):
GTGCAGATAAATGCTGACTAAATACGTTATGGATGAACCACTTGTC
Found at i:84424361 original size:92 final size:90
Alignment explanation
Indices: 84424104--84424446 Score: 285
Period size: 92 Copynumber: 3.7 Consensus size: 90
84424094 CCATCCATTA
* * * * * *
84424104 GTGCAGATAAAAGTTGCTAATACGTTGCGAATGAACCACTAGTCGTGCAGATAAATGCCGACTAA
1 GTGCAAATAAAAGCTGCTAATAAGTTGTGGATGAACCACTAGTCGTGCAGATAAATGTCGACTAA
84424169 ATACGTTATGGATAAACCACTTGTC
66 ATACGTTATGGATAAACCACTTGTC
* * * * * * * *
84424194 GTGCATATAAATTGCTGACTAAAATATGTTGTGGATGAACCACTTGTCATGTAGATAAA-ATCTA
1 GTGCAAATAAA-AGCTG-CT--AATAAGTTGTGGATGAACCACTAGTCGTGCAGATAAATGTCGA
* *
84424258 -TTAATATGTTATGGATAAACCACTTGTC
62 CTAAATACGTTATGGATAAACCACTTGTC
* *
84424286 GTGCAAATAAAAGCTGCTAATAAGTTATGGATGAACCACTGGTCGTGCAGATAAACTGTCGACTA
1 GTGCAAATAAAAGCTGCTAATAAGTTGTGGATGAACCACTAGTCGTGCAGATAAA-TGTCGACT-
* * * *
84424351 AAAGACGTTATGGCTGAACCACTGGTC
64 AAATACGTTATGGATAAACCACTTGTC
* ** * ** * * * *
84424378 ATGCAGTTAAACTGCCAACTAAAATACGTTGTGGATGAATCACTAGTCGTGCAGACAAACTGCCG
1 GTGCAAATAAA-AG-CTGCT--AATAAGTTGTGGATGAACCACTAGTCGTGCAGATAAA-TGTCG
84424443 ACTA
61 ACTA
84424447 CTTCCTCCGT
Statistics
Matches: 200, Mismatches: 41, Indels: 19
0.77 0.16 0.07
Matches are distributed among these distances:
88 32 0.16
90 15 0.08
91 8 0.04
92 67 0.34
93 3 0.01
94 34 0.17
95 1 0.00
96 40 0.20
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (90 bp):
GTGCAAATAAAAGCTGCTAATAAGTTGTGGATGAACCACTAGTCGTGCAGATAAATGTCGACTAA
ATACGTTATGGATAAACCACTTGTC
Found at i:84424627 original size:34 final size:34
Alignment explanation
Indices: 84424489--84424751 Score: 194
Period size: 34 Copynumber: 7.8 Consensus size: 34
84424479 ATGTAACATG
* *
84424489 ACATGTTTATAACAAATCAATAC-GATAGCAA-TA
1 ACATGCTTATAACAAGTCAATACAG-TAGCAATTA
** * ** *
84424522 ACATGCTTATAGTAAGTCGATACAACATCAATTA
1 ACATGCTTATAACAAGTCAATACAGTAGCAATTA
* * * ** ***
84424556 TCATGCTTATAA-TAGACCAATATGGTAGCAGCAA
1 ACATGCTTATAACAAG-TCAATACAGTAGCAATTA
* **
84424590 ACATGCTTGTAACAAGTTGATACAGTAGCAATTA
1 ACATGCTTATAACAAGTCAATACAGTAGCAATTA
* *
84424624 ACATGCTTATAAC-TGATCAATACGGTAGCAATTA
1 ACATGCTTATAACAAG-TCAATACAGTAGCAATTA
* * * *
84424658 TCATGCTTATAATAAATCAATACAGTAGCAATAA
1 ACATGCTTATAACAAGTCAATACAGTAGCAATTA
* * *
84424692 ACATGCTTGTGACAAGTCAATACAATAGCAATTA
1 ACATGCTTATAACAAGTCAATACAGTAGCAATTA
*
84424726 GCATGCTTATAACATA-TCAATACAGT
1 ACATGCTTATAACA-AGTCAATACAGT
84424752 GGTAGGGGTG
Statistics
Matches: 169, Mismatches: 54, Indels: 13
0.72 0.23 0.06
Matches are distributed among these distances:
33 25 0.15
34 141 0.83
35 3 0.02
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.29
Consensus pattern (34 bp):
ACATGCTTATAACAAGTCAATACAGTAGCAATTA
Found at i:84424663 original size:68 final size:68
Alignment explanation
Indices: 84424489--84424739 Score: 220
Period size: 68 Copynumber: 3.7 Consensus size: 68
84424479 ATGTAACATG
* * ** ** *
84424489 ACATGTTTATAACAAATCAATACGATAGCAA-TAACATGCTTATAGTAAGTCGATACAACATCAA
1 ACATGCTTATAACTAATCAATACGATAGCAATTAACATGCTTATAACAAGTCGATACAGTAGCAA
84424553 TTA
66 TTA
* * * * *** * *
84424556 TCATGCTTATAA-TAGACCAATATGGTAGCAGCAAACATGCTTGTAACAAGTTGATACAGTAGCA
1 ACATGCTTATAACTA-ATCAATACGATAGCAATTAACATGCTTATAACAAGTCGATACAGTAGCA
84424620 ATTA
65 ATTA
* * * * * *
84424624 ACATGCTTATAACTGATCAATACGGTAGCAATTATCATGCTTATAATAAATCAATACAGTAGCAA
1 ACATGCTTATAACTAATCAATACGATAGCAATTAACATGCTTATAACAAGTCGATACAGTAGCAA
*
84424689 TAA
66 TTA
* * * *
84424692 ACATGCTTGTGAC-AAGTCAATACAATAGCAATTAGCATGCTTATAACA
1 ACATGCTTATAACTAA-TCAATACGATAGCAATTAACATGCTTATAACA
84424740 TATCAATACA
Statistics
Matches: 144, Mismatches: 36, Indels: 7
0.77 0.19 0.04
Matches are distributed among these distances:
66 1 0.01
67 23 0.16
68 119 0.83
69 1 0.01
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (68 bp):
ACATGCTTATAACTAATCAATACGATAGCAATTAACATGCTTATAACAAGTCGATACAGTAGCAA
TTA
Found at i:84424664 original size:102 final size:102
Alignment explanation
Indices: 84424489--84424748 Score: 283
Period size: 102 Copynumber: 2.6 Consensus size: 102
84424479 ATGTAACATG
* * * * ** * *** *
84424489 ACATGTTTATAACAAATCAATACGATAGCAA-TAACATGCTTATAGTA-AGTCGATACAACATCA
1 ACATGCTTGTAACAAGTCAATACAATAGCAATTAACATGCTTATAACATA-TCAATACGGTAGCA
* ** *
84424552 ATTATCATGCTTATAATAGACCAATATGGTAGCAGCAA
65 ATTATCATGCTTATAATAAACCAATACAGTAGCAACAA
** *
84424590 ACATGCTTGTAACAAGTTGATACAGTAGCAATTAACATGCTTATAAC-TGATCAATACGGTAGCA
1 ACATGCTTGTAACAAGTCAATACAATAGCAATTAACATGCTTATAACAT-ATCAATACGGTAGCA
* *
84424654 ATTATCATGCTTATAATAAATCAATACAGTAGCAATAA
65 ATTATCATGCTTATAATAAACCAATACAGTAGCAACAA
* *
84424692 ACATGCTTGTGACAAGTCAATACAATAGCAATTAGCATGCTTATAACATATCAATAC
1 ACATGCTTGTAACAAGTCAATACAATAGCAATTAACATGCTTATAACATATCAATAC
84424749 AGTGGTAGGG
Statistics
Matches: 130, Mismatches: 25, Indels: 7
0.80 0.15 0.04
Matches are distributed among these distances:
101 24 0.18
102 104 0.80
103 2 0.02
ACGTcount: A:0.42, C:0.17, G:0.13, T:0.28
Consensus pattern (102 bp):
ACATGCTTGTAACAAGTCAATACAATAGCAATTAACATGCTTATAACATATCAATACGGTAGCAA
TTATCATGCTTATAATAAACCAATACAGTAGCAACAA
Found at i:84424902 original size:9 final size:9
Alignment explanation
Indices: 84424885--84424921 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
84424875 TGAGTTTTCA
84424885 AATTCGAAT
1 AATTCGAAT
*
84424894 AACTCGAAT
1 AATTCGAAT
84424903 AATTCGAAT
1 AATTCGAAT
84424912 AATTCGAAT
1 AATTCGAAT
84424921 A
1 A
84424922 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:84427349 original size:40 final size:41
Alignment explanation
Indices: 84427273--84427367 Score: 104
Period size: 40 Copynumber: 2.4 Consensus size: 41
84427263 ACTATGTTTG
** *
84427273 GCACTTAGTGTGCG-ATTCGAGATAGCTTTGGCTATATAAA
1 GCACTTAGTGTGCGAATTCGAGATAGCTTCAGATATATAAA
* ***
84427313 GCACTTAGTGTGCGAATTGGA-ATAGCTTCAGATATATGTG
1 GCACTTAGTGTGCGAATTCGAGATAGCTTCAGATATATAAA
*
84427353 GCACTAAGTGTGCGA
1 GCACTTAGTGTGCGA
84427368 TACTAAGATA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
40 41 0.89
41 5 0.11
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (41 bp):
GCACTTAGTGTGCGAATTCGAGATAGCTTCAGATATATAAA
Found at i:84430629 original size:17 final size:18
Alignment explanation
Indices: 84430586--84430630 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
84430576 TTTTTTTTTG
84430586 AAATTAA-AAAATATATA
1 AAATTAATAAAATATATA
*
84430603 AAATT-TTAAAATATAT-
1 AAATTAATAAAATATATA
84430619 AAATTAATAAAA
1 AAATTAATAAAA
84430631 AAAGGTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 5 0.21
17 19 0.79
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AAATTAATAAAATATATA
Found at i:84430881 original size:33 final size:31
Alignment explanation
Indices: 84430823--84430885 Score: 81
Period size: 33 Copynumber: 2.0 Consensus size: 31
84430813 AGGATTTTTA
* *
84430823 TATATTTTAATTGTATATTTTTTTCATAAATT
1 TATATTTTAATTGTATATATGTTTCA-AAATT
*
84430855 TATATTTTATATTTTATATATGTTTCAAAAT
1 TATATTTTA-ATTGTATATATGTTTCAAAAT
84430886 AATAATAACT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.60
Consensus pattern (31 bp):
TATATTTTAATTGTATATATGTTTCAAAATT
Found at i:84439412 original size:30 final size:30
Alignment explanation
Indices: 84439376--84439436 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
84439366 TCCTAAGGTT
84439376 CTTATTTATGATGTTCTTAATGTTCTTAGA
1 CTTATTTATGATGTTCTTAATGTTCTTAGA
84439406 CTTATTTATGATGTTCTTAATGTTCTTAGA
1 CTTATTTATGATGTTCTTAATGTTCTTAGA
84439436 C
1 C
84439437 GATTGATTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.23, C:0.11, G:0.13, T:0.52
Consensus pattern (30 bp):
CTTATTTATGATGTTCTTAATGTTCTTAGA
Found at i:84441269 original size:14 final size:14
Alignment explanation
Indices: 84441232--84441262 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
84441222 CCAAAAAAGT
84441232 AAATCATTTTTCAG
1 AAATCATTTTTCAG
*
84441246 AAATCATTTTTCGG
1 AAATCATTTTTCAG
84441260 AAA
1 AAA
84441263 ATATTTTACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.39
Consensus pattern (14 bp):
AAATCATTTTTCAG
Found at i:84441590 original size:16 final size:16
Alignment explanation
Indices: 84441569--84441600 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
84441559 AATGAACGGT
84441569 GATTTCAATATAGTGC
1 GATTTCAATATAGTGC
84441585 GATTTCAATATAGTGC
1 GATTTCAATATAGTGC
84441601 TAAGTATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (16 bp):
GATTTCAATATAGTGC
Found at i:84441886 original size:48 final size:48
Alignment explanation
Indices: 84441815--84441910 Score: 156
Period size: 48 Copynumber: 2.0 Consensus size: 48
84441805 AATAGTGATT
* *
84441815 CCAATACAATTACCATGGTGATTCCAGCACTATACTAAGATTTTGCAA
1 CCAATACAATTACCATGGTGATTCCAACACAATACTAAGATTTTGCAA
* *
84441863 CCAATACAGTTACCATGGTGATTCCAATACAATACTAAGATTTTGCAA
1 CCAATACAATTACCATGGTGATTCCAACACAATACTAAGATTTTGCAA
84441911 ATGAATGGTG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.36, C:0.22, G:0.12, T:0.29
Consensus pattern (48 bp):
CCAATACAATTACCATGGTGATTCCAACACAATACTAAGATTTTGCAA
Found at i:84443370 original size:17 final size:18
Alignment explanation
Indices: 84443334--84443371 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
84443324 ATAAAATTTC
*
84443334 AAATATTTTTAAACTAAA
1 AAATATTCTTAAACTAAA
*
84443352 AAATATTCTTGAA-TAAA
1 AAATATTCTTAAACTAAA
84443369 AAA
1 AAA
84443372 GGATTAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (18 bp):
AAATATTCTTAAACTAAA
Found at i:84451075 original size:20 final size:22
Alignment explanation
Indices: 84451050--84451116 Score: 76
Period size: 20 Copynumber: 3.4 Consensus size: 22
84451040 AATTTTTTAT
84451050 TAAATTT-TAT-TTCAAATATA
1 TAAATTTATATATTCAAATATA
84451070 TAAATTTATATATTC-AA-ATA
1 TAAATTTATATATTCAAATATA
*
84451090 TAAA-TTACATATTCAAAT-TA
1 TAAATTTATATATTCAAATATA
84451110 -AAATTTA
1 TAAATTTA
84451117 AAATTAATTA
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
19 12 0.29
20 21 0.51
21 5 0.12
22 3 0.07
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (22 bp):
TAAATTTATATATTCAAATATA
Found at i:84451103 original size:19 final size:20
Alignment explanation
Indices: 84451067--84451116 Score: 68
Period size: 19 Copynumber: 2.5 Consensus size: 20
84451057 TATTTCAAAT
*
84451067 ATATAAATTTATATATTCAA
1 ATATAAATTTACATATTCAA
84451087 ATATAAA-TTACATATTCAA
1 ATATAAATTTACATATTCAA
84451106 AT-TAAAATTTA
1 ATAT-AAATTTA
84451117 AAATTAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 1 0.04
19 16 0.59
20 10 0.37
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (20 bp):
ATATAAATTTACATATTCAA
Found at i:84451562 original size:25 final size:22
Alignment explanation
Indices: 84451534--84451588 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 22
84451524 TTTAAGTGTT
84451534 TATTTTTAAAATTTATTTAATAATA
1 TATTTTTAAAA-TT-TTTAA-AATA
* *
84451559 TATTCTTATAATTTTTAAAATA
1 TATTTTTAAAATTTTTAAAATA
*
84451581 TAGTTTTA
1 TATTTTTA
84451589 CTAATTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 10 0.38
23 5 0.19
24 2 0.08
25 9 0.35
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (22 bp):
TATTTTTAAAATTTTTAAAATA
Found at i:84452444 original size:46 final size:46
Alignment explanation
Indices: 84452375--84452477 Score: 152
Period size: 46 Copynumber: 2.2 Consensus size: 46
84452365 TACAACAACA
* * * *
84452375 ATTAGAGTTTTAGTTTTATTTATTTTCTTTATTTTATCAATTTTTT
1 ATTAGAGTTTTAGTTTTACTTATTTTCTCTATTATATCAAGTTTTT
* *
84452421 ATTAGAGTTTTAGTTTTACTTATTTTCTCTATTATATTAGGTTTTT
1 ATTAGAGTTTTAGTTTTACTTATTTTCTCTATTATATCAAGTTTTT
84452467 ATTAGAGTTTT
1 ATTAGAGTTTT
84452478 GGTAGTCAAG
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 51 1.00
ACGTcount: A:0.22, C:0.05, G:0.10, T:0.63
Consensus pattern (46 bp):
ATTAGAGTTTTAGTTTTACTTATTTTCTCTATTATATCAAGTTTTT
Found at i:84467751 original size:53 final size:53
Alignment explanation
Indices: 84467670--84467820 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
84467660 CTTACACGGT
* *
84467670 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
84467725 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
84467778 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
84467821 GCACACTTAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:84470089 original size:21 final size:21
Alignment explanation
Indices: 84470065--84470106 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
84470055 TCATCAGATC
* *
84470065 TACACCTTGAGGCATCGGGGG
1 TACAACTTGAGGAATCGGGGG
*
84470086 TACAAGTTGAGGAATCGGGGG
1 TACAACTTGAGGAATCGGGGG
84470107 AGGTGGGGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.17, G:0.40, T:0.19
Consensus pattern (21 bp):
TACAACTTGAGGAATCGGGGG
Found at i:84472882 original size:47 final size:47
Alignment explanation
Indices: 84472813--84472965 Score: 191
Period size: 47 Copynumber: 3.2 Consensus size: 47
84472803 TTCGGAGAAA
* *
84472813 TGTGATATGTGCTTCCGTATAAGACCATATCCGGGATATGGCATCGG
1 TGTGATATGTGCTACCGTATAAGACCATATCTGGGATATGGCATCGG
* *
84472860 TGTGATATGTGCTACTGTATAAGACCATATCTGGGATATGGCATCAG
1 TGTGATATGTGCTACCGTATAAGACCATATCTGGGATATGGCATCGG
* * ** * *
84472907 TGTGATATGTGAT-CCGTGTAAGACCATGGCTGGGCTATGGCCTCGG
1 TGTGATATGTGCTACCGTATAAGACCATATCTGGGATATGGCATCGG
84472953 TATGTGATATGTG
1 --TGTGATATGTG
84472966 ACTATGTGCA
Statistics
Matches: 92, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
46 26 0.28
47 55 0.60
48 11 0.12
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.31
Consensus pattern (47 bp):
TGTGATATGTGCTACCGTATAAGACCATATCTGGGATATGGCATCGG
Found at i:84484607 original size:21 final size:23
Alignment explanation
Indices: 84484581--84484623 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 23
84484571 ATAGATTTTG
84484581 TTTTATAAA-TTTTAAA-TATTA
1 TTTTATAAAGTTTTAAAGTATTA
84484602 TTTTATAAAGTTTTAAAGTATT
1 TTTTATAAAGTTTTAAAGTATT
84484624 TTGTAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 9 0.45
22 7 0.35
23 4 0.20
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.56
Consensus pattern (23 bp):
TTTTATAAAGTTTTAAAGTATTA
Found at i:84484625 original size:20 final size:21
Alignment explanation
Indices: 84484581--84484631 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
84484571 ATAGATTTTG
*
84484581 TTTTATAAATTTTAAATATTA
1 TTTTATAAATTTTAAATAGTA
84484602 TTTTATAAAGTTTT-AA-AGTA
1 TTTTATAAA-TTTTAAATAGTA
*
84484622 TTTTGTAAAT
1 TTTTATAAAT
84484632 ATTTCTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 1 0.04
20 11 0.41
21 11 0.41
22 4 0.15
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (21 bp):
TTTTATAAATTTTAAATAGTA
Found at i:84485916 original size:23 final size:22
Alignment explanation
Indices: 84485884--84485927 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
84485874 AACCAATCCA
84485884 ATTCAACATATTT-TCAAGATAG
1 ATTCAACATATTTAT-AAGATAG
84485906 ATTCATACATATTTATAAGATA
1 ATTCA-ACATATTTATAAGATA
84485928 ACCTCATCAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 5 0.25
23 14 0.70
24 1 0.05
ACGTcount: A:0.43, C:0.11, G:0.07, T:0.39
Consensus pattern (22 bp):
ATTCAACATATTTATAAGATAG
Found at i:84489338 original size:35 final size:35
Alignment explanation
Indices: 84489296--84489369 Score: 121
Period size: 35 Copynumber: 2.1 Consensus size: 35
84489286 TTTTCATTCA
* *
84489296 ATTATCTCTCATTCAATTGTTCGTTCTATGTAATT
1 ATTATCTCTCATTCAATTGTTCATTCTATATAATT
*
84489331 ATTATCTCTCATTCAATTGTTCATTTTATATAATT
1 ATTATCTCTCATTCAATTGTTCATTCTATATAATT
84489366 ATTA
1 ATTA
84489370 AGCTTTAAGC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.27, C:0.15, G:0.05, T:0.53
Consensus pattern (35 bp):
ATTATCTCTCATTCAATTGTTCATTCTATATAATT
Found at i:84494171 original size:26 final size:25
Alignment explanation
Indices: 84494100--84494172 Score: 92
Period size: 26 Copynumber: 2.8 Consensus size: 25
84494090 ATTTTTTTCG
84494100 AAATTTTACCAGAGGTAAAATCATCA
1 AAATTTTACCAG-GGTAAAATCATCA
* *
84494126 AAATTTTACCATGGGCAAAATCCTCA
1 AAATTTTACCA-GGGTAAAATCATCA
*
84494152 AAATTTTACTAGGGATAAAAT
1 AAATTTTACCAGGG-TAAAAT
84494173 AGGAATGAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
25 3 0.07
26 37 0.90
27 1 0.02
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (25 bp):
AAATTTTACCAGGGTAAAATCATCA
Found at i:84495658 original size:43 final size:43
Alignment explanation
Indices: 84495503--84495652 Score: 155
Period size: 43 Copynumber: 3.5 Consensus size: 43
84495493 GTTATTGTGG
* *
84495503 AAGACCACGTCTGGGACGTTGGCATCGACT-TATGATTTACGTGT
1 AAGACCACGTCTGGGACGTTGACATCGA-TATTTGA-TTACGTGT
* **
84495547 AAGACTACGTCTGGGACGTTGACATCG-TATTTGATTTTGTGT
1 AAGACCACGTCTGGGACGTTGACATCGATATTTGATTACGTGT
* * *
84495589 AAGACC-CTATCTGGGACAG-TGACATTGATATTTGATTACATGT
1 AAGACCAC-GTCTGGGAC-GTTGACATCGATATTTGATTACGTGT
*
84495632 AAGACCATGTCTGGGACGTTG
1 AAGACCACGTCTGGGACGTTG
84495653 GCATTGTACG
Statistics
Matches: 87, Mismatches: 13, Indels: 13
0.77 0.12 0.12
Matches are distributed among these distances:
41 1 0.01
42 28 0.32
43 33 0.38
44 25 0.29
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (43 bp):
AAGACCACGTCTGGGACGTTGACATCGATATTTGATTACGTGT
Found at i:84501169 original size:48 final size:48
Alignment explanation
Indices: 84501100--84501422 Score: 454
Period size: 48 Copynumber: 6.8 Consensus size: 48
84501090 ACCATGCTAC
*
84501100 ATGTGCCTATGTAAGACCATGTCTGGGACATGGCATCGGTGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATAT
* * * *
84501148 GTGTGCCTATGTAAGACCATGTCTGGGACATGGCATTGGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATAT
*
84501196 ATGTGCTTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATAT
* *
84501244 GTGTGCCTGTGTAAGACCGTGTCTGGGACATGGCATCGGTGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATAT
* * *
84501292 ATGTGCCTGTGTAAGACCATGTTTGGGACATAGCATTGGTGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATAT
**
84501340 ATGTGTCC-GTGTAAGACCATGTCTGGGACATGGCATCGACGATG--AT
1 ATGTG-CCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATAT
** * *
84501386 ATGTGGATAATGTAAGACCATGTCGGGGACATGGCAT
1 ATGTGCCT-GTGTAAGACCATGTCTGGGACATGGCAT
84501423 TGGTACTTTA
Statistics
Matches: 247, Mismatches: 25, Indels: 7
0.89 0.09 0.03
Matches are distributed among these distances:
46 7 0.03
47 26 0.11
48 212 0.86
49 2 0.01
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.29
Consensus pattern (48 bp):
ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATAT
Found at i:84506191 original size:44 final size:44
Alignment explanation
Indices: 84506126--84506308 Score: 221
Period size: 44 Copynumber: 4.2 Consensus size: 44
84506116 TGTGTTATCG
* * *
84506126 TGTAAAACCACGTCTGGGACGTTGGCATCGACTTATGGTTTACA
1 TGTAAGACCACGTCTGAGACGTTGGCATCGACTTATGATTTACA
*
84506170 TGTAAGATCACGTCTGAGACGTTGGCATCGACTTATGATTTACA
1 TGTAAGACCACGTCTGAGACGTTGGCATCGACTTATGATTTACA
*
84506214 TGTAAGACCACGTCTCGA-ACGTTGGCATCGACTTATGATTTACG
1 TGTAAGACCACGTCT-GAGACGTTGGCATCGACTTATGATTTACA
* * * * * *
84506258 TATAAGACCATGTTTGGGACATTGGCATCGTA-TT-TGATTT-CG
1 TGTAAGACCACGTCTGAGACGTTGGCATCG-ACTTATGATTTACA
84506300 TGTAAGACC
1 TGTAAGACC
84506309 CTGTATGGGA
Statistics
Matches: 124, Mismatches: 12, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
42 10 0.08
43 7 0.06
44 104 0.84
45 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (44 bp):
TGTAAGACCACGTCTGAGACGTTGGCATCGACTTATGATTTACA
Found at i:84506318 original size:42 final size:43
Alignment explanation
Indices: 84506191--84506370 Score: 136
Period size: 44 Copynumber: 4.2 Consensus size: 43
84506181 GTCTGAGACG
* * * * * * *
84506191 TTGGCATCG-ACTTATGATTTACATGTAAGACCACGTCTCGAACG
1 TTGGCATCGTA-TT-TGATTTACGTATAAGACCATGTATGGGACA
*
84506235 TTGGCATCG-ACTTATGATTTACGTATAAGACCATGTTTGGGACA
1 TTGGCATCGTA-TT-TGATTTACGTATAAGACCATGTATGGGACA
* *
84506279 TTGGCATCGTATTTGATTT-CGTGTAAGACCCTGTATGGGACA
1 TTGGCATCGTATTTGATTTACGTATAAGACCATGTATGGGACA
* * * * *
84506321 ATGGCATCGATATTTGATTATA--TATACGACCACGTATAGGACG
1 TTGGCATCG-TATTTGATT-TACGTATAAGACCATGTATGGGACA
84506364 TTGGCAT
1 TTGGCAT
84506371 TGTACGAGCT
Statistics
Matches: 114, Mismatches: 18, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
42 28 0.25
43 36 0.32
44 49 0.43
45 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.33
Consensus pattern (43 bp):
TTGGCATCGTATTTGATTTACGTATAAGACCATGTATGGGACA
Found at i:84506335 original size:43 final size:44
Alignment explanation
Indices: 84506236--84506339 Score: 133
Period size: 42 Copynumber: 2.4 Consensus size: 44
84506226 TCTCGAACGT
* * *
84506236 TGGCATCGACT-TATGATTTACGTATAAGACCATGTTTGGGACAT
1 TGGCATCGA-TATTTGATTTACGTATAAGACCATGTATGGGACAA
* *
84506280 TGGCATCG-TATTTGATTT-CGTGTAAGACCCTGTATGGGACAA
1 TGGCATCGATATTTGATTTACGTATAAGACCATGTATGGGACAA
84506322 TGGCATCGATATTTGATT
1 TGGCATCGATATTTGATT
84506340 ATATATACGA
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
42 29 0.55
43 16 0.30
44 8 0.15
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.36
Consensus pattern (44 bp):
TGGCATCGATATTTGATTTACGTATAAGACCATGTATGGGACAA
Found at i:84509533 original size:21 final size:22
Alignment explanation
Indices: 84509504--84509555 Score: 54
Period size: 21 Copynumber: 2.4 Consensus size: 22
84509494 GATTATATGA
* *
84509504 ATTGGATTGGATAT-TGATTAT
1 ATTGAATTGGATATATGAATAT
*
84509525 ATTGAATT-GATTTATGAATAT
1 ATTGAATTGGATATATGAATAT
84509546 ATGTGAATTG
1 AT-TGAATTG
84509556 TTATTGAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
20 4 0.16
21 15 0.60
22 6 0.24
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (22 bp):
ATTGAATTGGATATATGAATAT
Found at i:84509563 original size:21 final size:21
Alignment explanation
Indices: 84509515--84509564 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
84509505 TTGGATTGGA
*
84509515 TATTGATTATATTGAATTGAT
1 TATTGAATATATTGAATTGAT
84509536 T-TATGAATATATGTGAATTG-T
1 TAT-TGAATATAT-TGAATTGAT
84509557 TATTGAAT
1 TATTGAAT
84509565 TGAAATTGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
20 1 0.04
21 16 0.64
22 8 0.32
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (21 bp):
TATTGAATATATTGAATTGAT
Found at i:84509571 original size:6 final size:6
Alignment explanation
Indices: 84509558--84509603 Score: 60
Period size: 6 Copynumber: 7.8 Consensus size: 6
84509548 GTGAATTGTT
*
84509558 ATTG-A ATTGAA ATTGAA ATTGAA ATTGAA ATT-AA AATGTAA ATTGA
1 ATTGAA ATTGAA ATTGAA ATTGAA ATTGAA ATTGAA ATTG-AA ATTGA
84509604 TTGGAAAAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
5 8 0.22
6 23 0.64
7 5 0.14
ACGTcount: A:0.50, C:0.00, G:0.15, T:0.35
Consensus pattern (6 bp):
ATTGAA
Found at i:84510428 original size:45 final size:45
Alignment explanation
Indices: 84510364--84510611 Score: 307
Period size: 45 Copynumber: 5.3 Consensus size: 45
84510354 CTGTTACCGC
*
84510364 TACTGCTACTATTACCGATTCGGCACTTTGTGTGTCGAATATTGT
1 TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
84510409 TACTGCTACTGTTACCGATTCGGCACATTCGGCACTTTGTGTGTCGAATATTGT
1 TACTGCTACTGTTA-C----C-G---ATTCGGCACTTTGTGTGTCGAATATTGT
*
84510463 TACTGCTACTGTTACCGATTCGGCACTGTGTGTGTCGAATATTGT
1 TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
* * *
84510508 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCAAATATTGT
1 TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
* * * * *
84510553 TACTGTTACTGTTACTGATTCAGCACTTTGTGTGTTGAATAATGT
1 TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
**
84510598 TACTATTACTGTTA
1 TACTGCTACTGTTA
84510612 TTGTTCCAGA
Statistics
Matches: 181, Mismatches: 13, Indels: 18
0.85 0.06 0.08
Matches are distributed among these distances:
45 133 0.73
46 1 0.01
48 1 0.01
49 1 0.01
50 1 0.01
51 1 0.01
53 1 0.01
54 42 0.23
ACGTcount: A:0.20, C:0.19, G:0.21, T:0.40
Consensus pattern (45 bp):
TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
Found at i:84510447 original size:54 final size:54
Alignment explanation
Indices: 84510381--84510533 Score: 225
Period size: 54 Copynumber: 3.0 Consensus size: 54
84510371 ACTATTACCG
84510381 ATTCGGCACTTTGTGTGTCGAATATTGTTACTGCTACTGTTACCGATTCGGCAC
1 ATTCGGCACTTTGTGTGTCGAATATTGTTACTGCTACTGTTACCGATTCGGCAC
84510435 ATTCGGCACTTTGTGTGTCGAATATTGTTACTGCTACTGTTACCGATTCGGCAC
1 ATTCGGCACTTTGTGTGTCGAATATTGTTACTGCTACTGTTACCGATTCGGCAC
* *
84510489 --T--G-----TGTGTGTCGAATATTGTTACTGTTACCGTTACCGATTCGGCAC
1 ATTCGGCACTTTGTGTGTCGAATATTGTTACTGCTACTGTTACCGATTCGGCAC
84510534 TTTGTGTGTC
Statistics
Matches: 97, Mismatches: 2, Indels: 9
0.90 0.02 0.08
Matches are distributed among these distances:
45 41 0.42
50 1 0.01
52 1 0.01
54 54 0.56
ACGTcount: A:0.18, C:0.22, G:0.23, T:0.37
Consensus pattern (54 bp):
ATTCGGCACTTTGTGTGTCGAATATTGTTACTGCTACTGTTACCGATTCGGCAC
Found at i:84510813 original size:18 final size:18
Alignment explanation
Indices: 84510792--84510982 Score: 151
Period size: 18 Copynumber: 10.6 Consensus size: 18
84510782 TAACTGATTA
84510792 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
* *
84510810 TTACCGGATAATTGACTG
1 TTACTGAATAATTGACTG
*
84510828 TTACTGGAT-ATTAGACTG
1 TTACTGAATAATT-GACTG
* * *
84510846 TTACTGAATAACTGAATA
1 TTACTGAATAATTGACTG
*
84510864 TTACTGAATAATTGA-TCA
1 TTACTGAATAATTGACT-G
* *
84510882 TTACTGAATAACTGATTG
1 TTACTGAATAATTGACTG
*
84510900 TCACTGAATGAA-TGACTG
1 TTACTGAAT-AATTGACTG
* *
84510918 CTACTGAATAACTT-AATAG
1 TTACTGAATAA-TTGACT-G
*
84510937 TTACTGAAT-ATATGA-TT
1 TTACTGAATAAT-TGACTG
*
84510954 TTATTGAATAATTGACTG
1 TTACTGAATAATTGACTG
*
84510972 TTACTGGATAA
1 TTACTGAATAA
84510983 CCGATCAATT
Statistics
Matches: 140, Mismatches: 21, Indels: 24
0.76 0.11 0.13
Matches are distributed among these distances:
17 18 0.13
18 106 0.76
19 16 0.11
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (18 bp):
TTACTGAATAATTGACTG
Found at i:84510917 original size:72 final size:72
Alignment explanation
Indices: 84510780--84511062 Score: 196
Period size: 72 Copynumber: 3.8 Consensus size: 72
84510770 AAAGGTATAA
* * * * * * *
84510780 AATAACTGATTATTACTGAATAATTGACTGTTACCGGATAATTGACTGTTACTGGATATTAGACT
1 AATAACTGAATATTACTGAATAATTGACTATTACCGAATAACTGACTGTCACTGAATAATAGACT
*
84510845 GTTACTG
66 GCTACTG
* *
84510852 AATAACTGAATATTACTGAATAATTGA-TCATTACTGAATAACTGATTGTCACTGAATGAAT-GA
1 AATAACTGAATATTACTGAATAATTGACT-ATTACCGAATAACTGACTGTCACTGAAT-AATAGA
84510915 CTGCTACTG
64 CTGCTACTG
* * ** * * * **
84510924 AATAACTTAATAGTTACTGAAT-ATATGA-TTTTATTGAATAATTGACTGTTACTGGATAACCGA
1 AATAACTGAATA-TTACTGAATAAT-TGACTATTACCGAATAACTGACTGTCACTGAATAATAGA
84510987 TCAATTGATCGATACTG
64 -C---TG--C--TACTG
** * * * * *
84511004 AATAACTGTTTATTATTGAATAATTGATTGTTACCGAACAACTGACTGTTACTGAATAA
1 AATAACTGAATATTACTGAATAATTGACTATTACCGAATAACTGACTGTCACTGAATAA
84511063 ATAATTATTC
Statistics
Matches: 168, Mismatches: 28, Indels: 22
0.77 0.13 0.10
Matches are distributed among these distances:
71 3 0.02
72 94 0.56
73 16 0.10
76 2 0.01
78 1 0.01
79 11 0.07
80 41 0.24
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (72 bp):
AATAACTGAATATTACTGAATAATTGACTATTACCGAATAACTGACTGTCACTGAATAATAGACT
GCTACTG
Found at i:84519279 original size:6 final size:6
Alignment explanation
Indices: 84519270--84519349 Score: 142
Period size: 6 Copynumber: 13.3 Consensus size: 6
84519260 AAAATAATAA
*
84519270 TTGGGT TTGGGT TTGGGT TTGGGT TTGGGT TTGGGT TTGGGT TTGAGT
1 TTGGGT TTGGGT TTGGGT TTGGGT TTGGGT TTGGGT TTGGGT TTGGGT
*
84519318 TTGGGT TTGGGT TTGGAT TTGGGT TTGGGT TT
1 TTGGGT TTGGGT TTGGGT TTGGGT TTGGGT TT
84519350 TATTTGGTAT
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 70 1.00
ACGTcount: A:0.03, C:0.00, G:0.46, T:0.51
Consensus pattern (6 bp):
TTGGGT
Found at i:84522819 original size:3 final size:3
Alignment explanation
Indices: 84522802--84522852 Score: 68
Period size: 3 Copynumber: 17.0 Consensus size: 3
84522792 ATCAAAGAAA
* *
84522802 AAT AA- AAT AAAT AAT AAT AAT GAT AAT AAT AAT AAT GAT AAT AAT
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
84522847 AAT AAT
1 AAT AAT
84522853 GACAAAATGT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 37 0.88
4 3 0.07
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:84522829 original size:15 final size:15
Alignment explanation
Indices: 84522811--84522854 Score: 88
Period size: 15 Copynumber: 2.9 Consensus size: 15
84522801 AAATAAAATA
84522811 AATAATAATAATGAT
1 AATAATAATAATGAT
84522826 AATAATAATAATGAT
1 AATAATAATAATGAT
84522841 AATAATAATAATGA
1 AATAATAATAATGA
84522855 CAAAATGTGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (15 bp):
AATAATAATAATGAT
Found at i:84524556 original size:21 final size:23
Alignment explanation
Indices: 84524521--84524562 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
84524511 TAATATTATT
*
84524521 TATTTATTTTATTTTG-GTTTTA
1 TATTTATTGTATTTTGAGTTTTA
84524543 TATTT-TTGTATTTTGAGTTT
1 TATTTATTGTATTTTGAGTTT
84524563 CTGGTTTGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.17, C:0.00, G:0.12, T:0.71
Consensus pattern (23 bp):
TATTTATTGTATTTTGAGTTTTA
Found at i:84525979 original size:19 final size:19
Alignment explanation
Indices: 84525951--84525999 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 19
84525941 AAAAAAAAAG
*
84525951 AGAAAAGAAAATAAAGTAA
1 AGAAATGAAAATAAAGTAA
84525970 AGAAATG--AA-AAAGTAA
1 AGAAATGAAAATAAAGTAA
*
84525986 A-AAATAAAAATAAA
1 AGAAATGAAAATAAA
84526000 ACAAAAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
15 4 0.16
16 8 0.32
17 4 0.16
18 3 0.12
19 6 0.24
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (19 bp):
AGAAATGAAAATAAAGTAA
Found at i:84525995 original size:15 final size:16
Alignment explanation
Indices: 84525963--84525995 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
84525953 AAAAGAAAAT
*
84525963 AAAGTAAAGAAATGAA
1 AAAGTAAAGAAATAAA
84525979 AAAGTAAA-AAATAAA
1 AAAGTAAAGAAATAAA
84525994 AA
1 AA
84525996 TAAAACAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (16 bp):
AAAGTAAAGAAATAAA
Found at i:84527740 original size:7 final size:7
Alignment explanation
Indices: 84527721--84527753 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
84527711 GTTTTTGATT
84527721 GGTTTAG
1 GGTTTAG
84527728 GG-TTAG
1 GGTTTAG
84527734 GGTTTAG
1 GGTTTAG
84527741 TGGTTTAG
1 -GGTTTAG
84527749 GGTTT
1 GGTTT
84527754 TTAGAGTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 6 0.25
7 11 0.46
8 7 0.29
ACGTcount: A:0.12, C:0.00, G:0.42, T:0.45
Consensus pattern (7 bp):
GGTTTAG
Found at i:84529031 original size:14 final size:15
Alignment explanation
Indices: 84529014--84529042 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
84529004 GAGTATGGTA
84529014 AAATA-TTAAAAAAT
1 AAATATTTAAAAAAT
84529028 AAATATTTAAAAAAT
1 AAATATTTAAAAAAT
84529043 TACTAATAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATATTTAAAAAAT
Found at i:84540140 original size:21 final size:22
Alignment explanation
Indices: 84540087--84540141 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
84540077 CAATTTAAAT
*
84540087 AATAATAACAATAACAATAATA
1 AATAATAATAATAACAATAATA
* *
84540109 ATTAA-ATATAA-AACTATAATA
1 AATAATA-ATAATAACAATAATA
84540130 AATAATAATAAT
1 AATAATAATAAT
84540142 TTAATATATA
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
21 18 0.69
22 8 0.31
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.29
Consensus pattern (22 bp):
AATAATAATAATAACAATAATA
Found at i:84544667 original size:42 final size:42
Alignment explanation
Indices: 84544611--84544733 Score: 128
Period size: 42 Copynumber: 3.0 Consensus size: 42
84544601 GAGGTGTTAC
* * * *
84544611 ATAAGTGCT-AACGAAAACCCATAAGGGTTGAACATAAGCTT
1 ATAAGAGCTGAACGAAAACCCATAAGGGTTAAACAAAAACTT
84544652 ATAAGAGCTGAACGAAAACCCAGTAA-GGTTAAACAAAAACTT
1 ATAAGAGCTGAACGAAAACCCA-TAAGGGTTAAACAAAAACTT
* * * *
84544694 GTAAGAGTTGAACTG-AAACCCATTAGGGTT-AACTAAAACT
1 ATAAGAGCTGAAC-GAAAACCCATAAGGGTTAAACAAAAACT
84544734 CATATGAGTT
Statistics
Matches: 70, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
41 19 0.27
42 47 0.67
43 4 0.06
ACGTcount: A:0.44, C:0.16, G:0.19, T:0.21
Consensus pattern (42 bp):
ATAAGAGCTGAACGAAAACCCATAAGGGTTAAACAAAAACTT
Found at i:84552310 original size:25 final size:25
Alignment explanation
Indices: 84552282--84552334 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
84552272 TTTACTAGTA
*
84552282 GTTCTTTATGCCATTCTTGCTCATG
1 GTTCTTTACGCCATTCTTGCTCATG
* **
84552307 GTTCTTTGCGCTGTTCTTGCTCATG
1 GTTCTTTACGCCATTCTTGCTCATG
84552332 GTT
1 GTT
84552335 TCATTTGTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.08, C:0.23, G:0.21, T:0.49
Consensus pattern (25 bp):
GTTCTTTACGCCATTCTTGCTCATG
Found at i:84562945 original size:37 final size:36
Alignment explanation
Indices: 84562876--84562967 Score: 96
Period size: 37 Copynumber: 2.4 Consensus size: 36
84562866 TTAAATTTAA
*
84562876 TATTAAAATAATCACTTTAATATTAAATTAATA-AAATAC
1 TATTAAAATAAT-A-TTAAAT-TTAAATTAATATAAA-AC
* * *
84562915 TATTAACATAAGTATTAAATTTAATTTAATATTAAAC
1 TATTAAAATAA-TATTAAATTTAAATTAATATAAAAC
84562952 TATTAAAATAATATTA
1 TATTAAAATAATATTA
84562968 TTTTTAGAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
36 5 0.11
37 22 0.48
38 7 0.15
39 11 0.24
40 1 0.02
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.41
Consensus pattern (36 bp):
TATTAAAATAATATTAAATTTAAATTAATATAAAAC
Found at i:84563773 original size:14 final size:13
Alignment explanation
Indices: 84563754--84563794 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
84563744 ATGTACCAAA
84563754 TAAATTTTATAATT
1 TAAATTTTAT-ATT
*
84563768 TAAATTTAATATT
1 TAAATTTTATATT
84563781 TAAATTTTA-ATT
1 TAAATTTTATATT
84563793 TA
1 TA
84563795 TTTTTAACAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 5 0.20
13 11 0.44
14 9 0.36
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TAAATTTTATATT
Found at i:84574281 original size:27 final size:27
Alignment explanation
Indices: 84574232--84574390 Score: 146
Period size: 27 Copynumber: 5.9 Consensus size: 27
84574222 GCGAGGCTGC
* * *
84574232 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
* * *
84574259 CAGATATTGTTGTAGAGCTACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
84574285 TAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
84574312 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
* *
84574339 TAGATATATGTGGTAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
84574366 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
84574391 GACGCTTCCT
Statistics
Matches: 105, Mismatches: 20, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
26 9 0.09
27 92 0.88
28 4 0.04
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.22
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:84574336 original size:54 final size:54
Alignment explanation
Indices: 84574278--84574390 Score: 208
Period size: 54 Copynumber: 2.1 Consensus size: 54
84574268 TTGTAGAGCT
84574278 ACCAGAATAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCATAGCC
1 ACCAGAATAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCATAGCC
* *
84574332 ACCAGAATAGATATATGTGGTAGAGCCACCAGATCAGATAATTGTGGCATAGCC
1 ACCAGAATAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCATAGCC
84574386 ACCAG
1 ACCAG
84574391 GACGCTTCCT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.19
Consensus pattern (54 bp):
ACCAGAATAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCATAGCC
Found at i:84576028 original size:26 final size:26
Alignment explanation
Indices: 84575997--84576104 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
84575987 TGAAATGCCC
*
84575997 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
84576023 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
84576049 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
84576075 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
84576101 ATCA
1 ATCA
84576105 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:84577566 original size:20 final size:20
Alignment explanation
Indices: 84577537--84577606 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
84577527 AACCCGAAAT
*
84577537 CTAACTGAAGCACAAAAGTG
1 CTAACGGAAGCACAAAAGTG
**
84577557 CTAACGGAAGC-CCGAAG-G
1 CTAACGGAAGCACAAAAGTG
* *
84577575 CTAACTGAAGCACATAAGTG
1 CTAACGGAAGCACAAAAGTG
84577595 CTAAACGGAAGC
1 CT-AACGGAAGC
84577607 CCGAAGGCTA
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
18 11 0.28
19 8 0.20
20 13 0.32
21 8 0.20
ACGTcount: A:0.40, C:0.23, G:0.24, T:0.13
Consensus pattern (20 bp):
CTAACGGAAGCACAAAAGTG
Found at i:84577579 original size:18 final size:18
Alignment explanation
Indices: 84577556--84577624 Score: 75
Period size: 18 Copynumber: 3.7 Consensus size: 18
84577546 GCACAAAAGT
84577556 GCTAACGGAAGCCCGAAG
1 GCTAACGGAAGCCCGAAG
* **
84577574 GCTAACTGAAGCACATAAG
1 GCTAACGGAAGC-CCGAAG
84577593 TGCTAAACGGAAGCCCGAAG
1 -GCT-AACGGAAGCCCGAAG
*
84577613 GCTAACTGAAGC
1 GCTAACGGAAGC
84577625 TCATCAGAGC
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
18 19 0.46
19 7 0.17
20 7 0.17
21 8 0.20
ACGTcount: A:0.36, C:0.25, G:0.28, T:0.12
Consensus pattern (18 bp):
GCTAACGGAAGCCCGAAG
Found at i:84577580 original size:38 final size:39
Alignment explanation
Indices: 84577537--84577624 Score: 160
Period size: 39 Copynumber: 2.3 Consensus size: 39
84577527 AACCCGAAAT
84577537 CTAACTGAAGCACAAAAGTGCT-AACGGAAGCCCGAAGG
1 CTAACTGAAGCACAAAAGTGCTAAACGGAAGCCCGAAGG
*
84577575 CTAACTGAAGCACATAAGTGCTAAACGGAAGCCCGAAGG
1 CTAACTGAAGCACAAAAGTGCTAAACGGAAGCCCGAAGG
84577614 CTAACTGAAGC
1 CTAACTGAAGC
84577625 TCATCAGAGC
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
38 21 0.44
39 27 0.56
ACGTcount: A:0.39, C:0.24, G:0.25, T:0.12
Consensus pattern (39 bp):
CTAACTGAAGCACAAAAGTGCTAAACGGAAGCCCGAAGG
Found at i:84578267 original size:20 final size:18
Alignment explanation
Indices: 84578181--84578282 Score: 78
Period size: 18 Copynumber: 5.4 Consensus size: 18
84578171 GCTCTGATGA
84578181 GCTTCAGTTAGCCTTCGG
1 GCTTCAGTTAGCCTTCGG
* * *
84578199 GCTTCCGTTTAGCACTTATGT
1 GCTTCAG-TTAGC-CTT-CGG
84578220 GCTTCAGTTAGCCTTCGG
1 GCTTCAGTTAGCCTTCGG
* * *
84578238 GCTTCCGTTAGCACTTTTGT
1 GCTTCAGTTAGC-C-TTCGG
**
84578258 GCTTCAGTTAGATTTCGG
1 GCTTCAGTTAGCCTTCGG
*
84578276 GTTTCAG
1 GCTTCAG
84578283 ATCACGATGT
Statistics
Matches: 64, Mismatches: 15, Indels: 10
0.72 0.17 0.11
Matches are distributed among these distances:
18 27 0.42
19 9 0.14
20 21 0.33
21 7 0.11
ACGTcount: A:0.13, C:0.24, G:0.25, T:0.39
Consensus pattern (18 bp):
GCTTCAGTTAGCCTTCGG
Found at i:84578276 original size:38 final size:39
Alignment explanation
Indices: 84578181--84578268 Score: 160
Period size: 39 Copynumber: 2.3 Consensus size: 39
84578171 GCTCTGATGA
84578181 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
*
84578220 GCTTCAGTTAGCCTTCGGGCTTCCG-TTAGCACTTTTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
84578258 GCTTCAGTTAG
1 GCTTCAGTTAG
84578269 ATTTCGGGTT
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
38 23 0.48
39 25 0.52
ACGTcount: A:0.12, C:0.25, G:0.24, T:0.39
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:84582085 original size:3 final size:3
Alignment explanation
Indices: 84582070--84582107 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
84582060 TATCTTACAA
*
84582070 TAC TAC TAT TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
84582108 TGGAGCACTC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.34, C:0.29, G:0.00, T:0.37
Consensus pattern (3 bp):
TAC
Found at i:84585201 original size:39 final size:40
Alignment explanation
Indices: 84585143--84585254 Score: 124
Period size: 39 Copynumber: 2.8 Consensus size: 40
84585133 TATTTAATTA
*
84585143 ATTTTTTAAAATTTAAAAATTTTAAAAAAATTATAAAAA-T
1 ATTTTTTAAAATTTTAAAA-TTTAAAAAAATTATAAAAAGT
*
84585183 A-TTTTTAAAATTTTAAAATAATTAAAATAATT-TAAAAAGT
1 ATTTTTTAAAATTTTAAAAT--TTAAAAAAATTATAAAAAGT
* *
84585223 ATTTTTTTGAATTTTTAAAA-TTAAAAAAATTA
1 A-TTTTTTAAAATTTTAAAATTTAAAAAAATTA
84585255 ATTAAATGTT
Statistics
Matches: 61, Mismatches: 5, Indels: 12
0.78 0.06 0.15
Matches are distributed among these distances:
38 1 0.02
39 32 0.52
40 13 0.21
42 15 0.25
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.45
Consensus pattern (40 bp):
ATTTTTTAAAATTTTAAAATTTAAAAAAATTATAAAAAGT
Found at i:84585207 original size:9 final size:10
Alignment explanation
Indices: 84585152--84585219 Score: 54
Period size: 9 Copynumber: 6.9 Consensus size: 10
84585142 AATTTTTTAA
84585152 AATTTAAAA-
1 AATTTAAAAT
* *
84585161 ATTTTAAAAA
1 AATTTAAAAT
84585171 AATTATAAAAAT
1 AATT-T-AAAAT
*
84585183 ATTTTTAAAAT
1 A-ATTTAAAAT
84585194 --TTTAAAAT
1 AATTTAAAAT
84585202 AA-TTAAAAT
1 AATTTAAAAT
84585211 AATTTAAAA
1 AATTTAAAA
84585220 AGTATTTTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
8 8 0.17
9 17 0.35
10 9 0.19
11 6 0.12
12 6 0.12
13 2 0.04
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (10 bp):
AATTTAAAAT
Found at i:84585220 original size:20 final size:19
Alignment explanation
Indices: 84585150--84585226 Score: 75
Period size: 20 Copynumber: 3.9 Consensus size: 19
84585140 TTAATTTTTT
84585150 AAAATTTAAAAAT-TTTAAA
1 AAAATTTAAAAATATTT-AA
**
84585169 AAAATTATAAAAATATTTTT
1 AAAATT-TAAAAATATTTAA
* *
84585189 AAAATTTTAAAATAATTAA
1 AAAATTTAAAAATATTTAA
84585208 AATAATTTAAAAAGTATTT
1 AA-AATTTAAAAA-TATTT
84585227 TTTTGAATTT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
19 17 0.37
20 22 0.48
21 7 0.15
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.40
Consensus pattern (19 bp):
AAAATTTAAAAATATTTAA
Found at i:84585260 original size:42 final size:39
Alignment explanation
Indices: 84585145--84585260 Score: 105
Period size: 42 Copynumber: 2.9 Consensus size: 39
84585135 TTTAATTAAT
*
84585145 TTTTTAAAATTTAAAAATTTTAAAAAAATT-A-TAAAAATA
1 TTTTTAAAATTTTAAAA--TTAAAAAAATTAATTAAAAATA
*
84585184 TTTTTAAAATTTTAAAA-TAATTAAAA-TAATTTAAAAAGTA
1 TTTTTAAAATTTTAAAATTAA-AAAAATTAA-TTAAAAA-TA
* *
84585224 TTTTTTTGAATTTTTAAAATTAAAAAAATTAATTAAA
1 --TTTTTAAAATTTTAAAATTAAAAAAATTAATTAAA
84585261 TGTTGATGTA
Statistics
Matches: 63, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
36 4 0.06
37 5 0.08
39 22 0.35
40 2 0.03
42 24 0.38
43 6 0.10
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (39 bp):
TTTTTAAAATTTTAAAATTAAAAAAATTAATTAAAAATA
Found at i:84588890 original size:6 final size:6
Alignment explanation
Indices: 84588879--84588912 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
84588869 AAACATGTTC
* *
84588879 AATTCT AATTCT AATTCT AATTCC AATTCC AATT
1 AATTCT AATTCT AATTCT AATTCT AATTCT AATT
84588913 TGAGTTTGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.35, C:0.21, G:0.00, T:0.44
Consensus pattern (6 bp):
AATTCT
Found at i:84593666 original size:43 final size:44
Alignment explanation
Indices: 84593618--84593732 Score: 153
Period size: 43 Copynumber: 2.7 Consensus size: 44
84593608 GTTACTGAGA
* *
84593618 TGTGATTACATGTAAGACCATATCTGGGACATTGACATTG-TAT
1 TGTGATTACGTGTAAGACCATATCTGGGACATTGACATCGTTAT
* *
84593661 TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTAT
1 TGTGATTACGTGTAAGACCATATCTGGGACATTGACATCGTTAT
* * *
84593705 T-CGATTTCGTGTAAGACCCTATCTGGGA
1 TGTGATTACGTGTAAGACCATATCTGGGA
84593733 TAGTGGCATC
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
43 59 0.94
44 4 0.06
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (44 bp):
TGTGATTACGTGTAAGACCATATCTGGGACATTGACATCGTTAT
Found at i:84594059 original size:16 final size:17
Alignment explanation
Indices: 84594028--84594060 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
84594018 GATATACAAA
84594028 TATTCGTATGATGACTT
1 TATTCGTATGATGACTT
*
84594045 TATTTGTAT-ATGACTT
1 TATTCGTATGATGACTT
84594061 ACTAAGCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.24, C:0.09, G:0.15, T:0.52
Consensus pattern (17 bp):
TATTCGTATGATGACTT
Found at i:84601450 original size:43 final size:43
Alignment explanation
Indices: 84601355--84601477 Score: 151
Period size: 43 Copynumber: 2.9 Consensus size: 43
84601345 ACCGAGATGT
* * * *
84601355 GATTACATCTAAGACCATGTCTGGGACATTGGCATTGTATTGT
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATTGC
84601398 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTATT-C
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCG-TATTGC
* * *
84601441 GATTTCGTGTAAGATCC-TGTTTGGGACAGTGGCATCG
1 GATTACGTGTAAGA-CCATGTCTGGGACATTGGCATCG
84601478 ATATGTAATA
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
43 65 0.92
44 6 0.08
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (43 bp):
GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATTGC
Found at i:84614658 original size:36 final size:36
Alignment explanation
Indices: 84614617--84614689 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
84614607 GAATTATTAA
84614617 TATTATGAAAAAGTATGATATGTCCAGTTCAATCCT
1 TATTATGAAAAAGTATGATATGTCCAGTTCAATCCT
84614653 TATTATGAAAAAGTATGATATGTCCAGTTCAATCCT
1 TATTATGAAAAAGTATGATATGTCCAGTTCAATCCT
84614689 T
1 T
84614690 GTACGTTCTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.37
Consensus pattern (36 bp):
TATTATGAAAAAGTATGATATGTCCAGTTCAATCCT
Found at i:84617119 original size:18 final size:18
Alignment explanation
Indices: 84617096--84617130 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
84617086 AGGCCAAGTC
*
84617096 TGGGCATGTGGGCCCATA
1 TGGGCATGTAGGCCCATA
84617114 TGGGCATGTAGGCCCAT
1 TGGGCATGTAGGCCCAT
84617131 TATTTGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.23, G:0.37, T:0.23
Consensus pattern (18 bp):
TGGGCATGTAGGCCCATA
Found at i:84624902 original size:6 final size:6
Alignment explanation
Indices: 84624891--84624917 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
84624881 ATATGTTTAG
84624891 TTCTAA TTCTAA TTCTAA TTCTAA TTC
1 TTCTAA TTCTAA TTCTAA TTCTAA TTC
84624918 CGATTCCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.30, C:0.19, G:0.00, T:0.52
Consensus pattern (6 bp):
TTCTAA
Found at i:84625299 original size:26 final size:26
Alignment explanation
Indices: 84625268--84625317 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
84625258 AAATTATTGA
*
84625268 AATACCCTTGGTTTACAATATTACTT
1 AATACCCTTGGTTTACAAAATTACTT
*
84625294 AATACCCTTGGTTTATAAAATTAC
1 AATACCCTTGGTTTACAAAATTAC
84625318 CAAAATACTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.34, C:0.18, G:0.08, T:0.40
Consensus pattern (26 bp):
AATACCCTTGGTTTACAAAATTACTT
Found at i:84625367 original size:27 final size:27
Alignment explanation
Indices: 84625294--84625654 Score: 262
Period size: 27 Copynumber: 13.3 Consensus size: 27
84625284 AATATTACTT
* *
84625294 AATACCCTTGGTTTATAAAATTACCAA
1 AATACCCTTGATTTGTAAAATTACCAA
** ** * *
84625321 AATACTGTCAATTAGCAAAATTACCAA
1 AATACCCTTGATTTGTAAAATTACCAA
* *
84625348 AATATCCTTGGTTTGTAAAATTACCAA
1 AATACCCTTGATTTGTAAAATTACCAA
* * **
84625375 AATACCCCTGATTTGTGAAATTACTGA
1 AATACCCTTGATTTGTAAAATTACCAA
** ***
84625402 AATACCCTTGACCTGTAAAATTATTGA
1 AATACCCTTGATTTGTAAAATTACCAA
* * ***
84625429 AATACCCTCGACTTGTAAAATTATTGA
1 AATACCCTTGATTTGTAAAATTACCAA
** *
84625456 AATACCCTCAATTTTTAAAATTACCAA
1 AATACCCTTGATTTGTAAAATTACCAA
* *
84625483 AATACCCTTGATTTGGAAAATTATCAA
1 AATACCCTTGATTTGTAAAATTACCAA
* *
84625510 AATACCATTGATTTGGAAAATTA-CAGA
1 AATACCCTTGATTTGTAAAATTACCA-A
* * *
84625537 AATACCCATAATTTATAAAATTA-CAGA
1 AATACCCTTGATTTGTAAAATTACCA-A
* **
84625564 AATACCATTGACTTTCAAAAATTA-CAGA
1 AATACCCTTGA-TTTGTAAAATTACCA-A
* * * *
84625592 AATACCATTGGTTTGCAAAATTACTAA
1 AATACCCTTGATTTGTAAAATTACCAA
* *
84625619 AATACCCTT-AGTTTGTAGATTTACCAA
1 AATACCCTTGA-TTTGTAAAATTACCAA
84625646 AATACCCTT
1 AATACCCTT
84625655 ATAGGCTGAA
Statistics
Matches: 269, Mismatches: 61, Indels: 8
0.80 0.18 0.02
Matches are distributed among these distances:
26 2 0.01
27 242 0.90
28 25 0.09
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.32
Consensus pattern (27 bp):
AATACCCTTGATTTGTAAAATTACCAA
Found at i:84625938 original size:41 final size:41
Alignment explanation
Indices: 84625893--84626015 Score: 165
Period size: 41 Copynumber: 3.0 Consensus size: 41
84625883 AGAGGAAGAA
*
84625893 ATTGAGGATCGCATGGTTGCTTGACAACCGTGGATCCACTG
1 ATTGAGGATCGCATGGTTGCTTGACAACCGTGGATCCACCG
* * *
84625934 ATTGAGGATCGCATGATTGCTTGGCTACCGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACAACCGTGGATCCACCG
* * * **
84625975 ATTAAAGATCGCATGGTTGTTTGATGACCGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACAACCGTGGATCCACCG
84626016 GTGGCTTTTA
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 71 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (41 bp):
ATTGAGGATCGCATGGTTGCTTGACAACCGTGGATCCACCG
Found at i:84626195 original size:22 final size:22
Alignment explanation
Indices: 84626170--84626221 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
84626160 ATTATGACTT
*
84626170 TGTGCCAACCT-ACATATGGTTG
1 TGTGCCAACCTGA-ATATGGCTG
*
84626192 TGTGCCAACCTGATTATGGCTG
1 TGTGCCAACCTGAATATGGCTG
84626214 TGTGCCAA
1 TGTGCCAA
84626222 ACGTATTTGC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 26 0.96
23 1 0.04
ACGTcount: A:0.21, C:0.23, G:0.25, T:0.31
Consensus pattern (22 bp):
TGTGCCAACCTGAATATGGCTG
Found at i:84628823 original size:28 final size:28
Alignment explanation
Indices: 84628783--84628849 Score: 134
Period size: 28 Copynumber: 2.4 Consensus size: 28
84628773 TTGGACTAGG
84628783 ATGTGTTTTGATGCAAGAAGGCAAAGTC
1 ATGTGTTTTGATGCAAGAAGGCAAAGTC
84628811 ATGTGTTTTGATGCAAGAAGGCAAAGTC
1 ATGTGTTTTGATGCAAGAAGGCAAAGTC
84628839 ATGTGTTTTGA
1 ATGTGTTTTGA
84628850 AGCCACACGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.30, C:0.09, G:0.28, T:0.33
Consensus pattern (28 bp):
ATGTGTTTTGATGCAAGAAGGCAAAGTC
Found at i:84649443 original size:46 final size:46
Alignment explanation
Indices: 84649390--84649562 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
84649380 TGGTTGAGCA
84649390 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * * * *
84649436 TCTGAACTCGTTGAGTTGAGTCCAAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
* *
84649481 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * *
84649529 CCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
84649563 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 17, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 57 0.55
47 27 0.26
48 4 0.04
50 5 0.05
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:84649542 original size:93 final size:93
Alignment explanation
Indices: 84649387--84649557 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
84649377 GGATGGTTGA
* *
84649387 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
84649452 TGAGTCCAAGTTCGTGAGATGTAACTAG
66 TGAGTCCAAGTTCGTGAGATGTAACTAG
* * * *
84649480 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATGCCCGAGCTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
*
84649545 TGAGTCCGAGTTC
66 TGAGTCCAAGTTC
84649558 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
TGAGTCCAAGTTCGTGAGATGTAACTAG
Found at i:84655893 original size:28 final size:28
Alignment explanation
Indices: 84655859--84655923 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
84655849 TCAGTGTACG
* *
84655859 AAATATTGAGAATGGCACTTAATGTGCG
1 AAATATTGAGAATGACACTTAATGTGCA
* *
84655887 AGATATTGAGAATGACACTTAGTGTGCA
1 AAATATTGAGAATGACACTTAATGTGCA
84655915 AAATATTGA
1 AAATATTGA
84655924 ATGATTAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.38, C:0.09, G:0.23, T:0.29
Consensus pattern (28 bp):
AAATATTGAGAATGACACTTAATGTGCA
Found at i:84656040 original size:39 final size:39
Alignment explanation
Indices: 84655996--84656169 Score: 253
Period size: 39 Copynumber: 4.5 Consensus size: 39
84655986 GACTTTATAA
*
84655996 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGT
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
84656035 TGGTGTTATATCCGGGCTAAGTCCTC-AAGGCATTCATGT
1 TGGTGTTATATCCGGGCTAAGTCC-CGAAGGCATTCGTGC
84656074 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* * *
84656113 TGGTGTTATATCCGGGCTAAAGTCCTGCAGGC-TTTGTGC
1 TGGTGTTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGC
*
84656152 TGGTATTATATCCGGGCT
1 TGGTGTTATATCCGGGCT
84656170 TAAAGTTCCG
Statistics
Matches: 125, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
38 1 0.01
39 112 0.90
40 12 0.10
ACGTcount: A:0.18, C:0.21, G:0.29, T:0.32
Consensus pattern (39 bp):
TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
Found at i:84664017 original size:77 final size:77
Alignment explanation
Indices: 84663890--84664047 Score: 316
Period size: 77 Copynumber: 2.1 Consensus size: 77
84663880 CGTTACTATG
84663890 ATCAAAGTAGAAATTATAATCGAAGGGAATATCATTATATCCATTCAATAAATATCTTTCATAGA
1 ATCAAAGTAGAAATTATAATCGAAGGGAATATCATTATATCCATTCAATAAATATCTTTCATAGA
84663955 TAACCATATAGA
66 TAACCATATAGA
84663967 ATCAAAGTAGAAATTATAATCGAAGGGAATATCATTATATCCATTCAATAAATATCTTTCATAGA
1 ATCAAAGTAGAAATTATAATCGAAGGGAATATCATTATATCCATTCAATAAATATCTTTCATAGA
84664032 TAACCATATAGA
66 TAACCATATAGA
84664044 ATCA
1 ATCA
84664048 TAAGAAAACT
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 81 1.00
ACGTcount: A:0.46, C:0.13, G:0.10, T:0.31
Consensus pattern (77 bp):
ATCAAAGTAGAAATTATAATCGAAGGGAATATCATTATATCCATTCAATAAATATCTTTCATAGA
TAACCATATAGA
Found at i:84664813 original size:22 final size:20
Alignment explanation
Indices: 84664765--84664814 Score: 55
Period size: 22 Copynumber: 2.4 Consensus size: 20
84664755 TTACCGATCA
84664765 ATACTCATCATTTAACATAC
1 ATACTCATCATTTAACATAC
* *
84664785 ATAACTCATACATTTATGCATTC
1 AT-ACTCAT-CATTTA-ACATAC
84664808 ATACTCA
1 ATACTCA
84664815 AATACCATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 2 0.08
21 6 0.24
22 11 0.44
23 6 0.24
ACGTcount: A:0.38, C:0.24, G:0.02, T:0.36
Consensus pattern (20 bp):
ATACTCATCATTTAACATAC
Found at i:84667148 original size:43 final size:43
Alignment explanation
Indices: 84667101--84667187 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
84667091 ATCCGCAAAC
84667101 ATAGTCAAACATCATTATAGAGTCCCTTATATAGGTCATCGAG
1 ATAGTCAAACATCATTATAGAGTCCCTTATATAGGTCATCGAG
84667144 ATAGTCAAACATCATTATAGAGTCCCTTATATAGGTCATCGAG
1 ATAGTCAAACATCATTATAGAGTCCCTTATATAGGTCATCGAG
84667187 A
1 A
84667188 CCTTAATCAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (43 bp):
ATAGTCAAACATCATTATAGAGTCCCTTATATAGGTCATCGAG
Found at i:84668672 original size:86 final size:85
Alignment explanation
Indices: 84668514--84668675 Score: 256
Period size: 86 Copynumber: 1.9 Consensus size: 85
84668504 AGCTCTTACA
*
84668514 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCAAATATCGATGCCACAGTCCCAGATAGGGT
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCAAATATCGATGCCACAGTCCCAGACAGGGT
84668579 CTTACACGAAATCAAGTACG
66 CTTACACGAAATCAAGTACG
* *
84668599 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCATAA-GTCGATGCCA-ATGTCCCAGACAT
1 ATGCCAACGTCCCAGACGTGGTCTTACACGT-AATCA-AATATCGATGCCACA-GTCCCAGACAG
84668662 GGTCTTACACGAAA
63 GGTCTTACACGAAA
84668676 ACACATATCG
Statistics
Matches: 71, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
85 32 0.45
86 37 0.52
87 2 0.03
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (85 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCAAATATCGATGCCACAGTCCCAGACAGGGT
CTTACACGAAATCAAGTACG
Found at i:84676792 original size:55 final size:55
Alignment explanation
Indices: 84676659--84676802 Score: 153
Period size: 55 Copynumber: 2.6 Consensus size: 55
84676649 TATGAAGGTC
* ** ** *
84676659 CACGCTCGTGTTGTTTTGGCAGGTTCGCCCAAAGTTGCTTGGCACGGGCGTGTCG
1 CACGCCCGTGTTGTTTTGGCAGGTTCGCCCATGGTTGCAAGGCACGGGCATGTCG
* * ** * * *
84676714 CATGCCCATGTTAATTTGACAGGTTCGGCCATGGTTTCAAGGCACGGGCATGTCG
1 CACGCCCGTGTTGTTTTGGCAGGTTCGCCCATGGTTGCAAGGCACGGGCATGTCG
* *
84676769 CACGTCGGTGTTGTTTTGGCAGGTTCGCCCATGG
1 CACGCCCGTGTTGTTTTGGCAGGTTCGCCCATGG
84676803 CCATGTTGCA
Statistics
Matches: 68, Mismatches: 21, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
55 68 1.00
ACGTcount: A:0.14, C:0.24, G:0.33, T:0.29
Consensus pattern (55 bp):
CACGCCCGTGTTGTTTTGGCAGGTTCGCCCATGGTTGCAAGGCACGGGCATGTCG
Found at i:84684886 original size:24 final size:24
Alignment explanation
Indices: 84684859--84684909 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
84684849 TATAACTGTG
*
84684859 ATAGAATCAGAAACTTTTTAGGGA
1 ATAGAATCAGAAACCTTTTAGGGA
* *
84684883 ATAGAATTAGAAACCTTTTGGGGA
1 ATAGAATCAGAAACCTTTTAGGGA
84684907 ATA
1 ATA
84684910 TATAAGGAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAGAATCAGAAACCTTTTAGGGA
Found at i:84685035 original size:22 final size:23
Alignment explanation
Indices: 84684981--84685032 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
84684971 TATAAAACCT
84684981 AATAAAAA-TAAG-CTTAAAGAAA
1 AATAAAAAGT-AGTCTTAAAGAAA
* *
84685003 AATAAAAAGTAGTCTTAAAGTAG
1 AATAAAAAGTAGTCTTAAAGAAA
84685026 AATAAAA
1 AATAAAA
84685033 GTAAAAACGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 10 0.38
23 16 0.62
ACGTcount: A:0.63, C:0.04, G:0.12, T:0.21
Consensus pattern (23 bp):
AATAAAAAGTAGTCTTAAAGAAA
Found at i:84694375 original size:47 final size:47
Alignment explanation
Indices: 84694297--84694591 Score: 410
Period size: 47 Copynumber: 6.2 Consensus size: 47
84694287 CCCTTCGGGA
* * * * * **
84694297 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* *
84694344 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
**
84694391 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* *
84694438 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* *
84694487 CTTATCGCACATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
*
84694534 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAAGC
84694583 CTTATCACA
1 CTTATCACA
84694592 ATTTAGAATT
Statistics
Matches: 220, Mismatches: 24, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
47 133 0.60
49 87 0.40
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
Found at i:84694492 original size:96 final size:96
Alignment explanation
Indices: 84694297--84694591 Score: 450
Period size: 96 Copynumber: 3.1 Consensus size: 96
84694287 CCCTTCGGGA
** * * * * ** * *
84694297 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
*
84694360 ACTTTCACATTCATCACATCGGCCATTAAGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
84694391 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
*
84694456 ACTTTCACATTCATCACATCGGCTATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
84694487 CTTATCGCACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
84694552 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
84694583 CTTATCACA
1 CTTATCACA
84694592 ATTTAGAATT
Statistics
Matches: 182, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
94 44 0.24
96 138 0.76
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (96 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:84700723 original size:31 final size:31
Alignment explanation
Indices: 84700683--84700766 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
84700673 TTAGTCTTGA
84700683 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
84700713 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
* *
84700744 CATATCACTAGGCCAAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
84700767 ACTGTAAATG
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
30 5 0.10
31 46 0.90
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:84700837 original size:42 final size:42
Alignment explanation
Indices: 84700790--84700881 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
84700780 TGGCCCTTAG
* ** *
84700790 GCCCATTTCAATATCACATGTAATGTCAATGGATATATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATATATGCAA
*
84700832 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATATATGCAA
84700874 GCCCATTT
1 GCCCATTT
84700882 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATATATGCAA
Found at i:84701043 original size:24 final size:24
Alignment explanation
Indices: 84701016--84701099 Score: 98
Period size: 25 Copynumber: 3.4 Consensus size: 24
84701006 CTAGAGGCCT
*
84701016 AGCCTCTTTTAAT-AATTGGGGCAG
1 AGCC-CTTTTAATAAACTGGGGCAG
*
84701040 AGCCCTTTCTGATAAACTGGGGCAG
1 AGCCCTTT-TAATAAACTGGGGCAG
**
84701065 AGCCCTTTTCGGTAAACTGGGGCAG
1 AGCCCTTTT-AATAAACTGGGGCAG
84701090 AGCCCTTTTA
1 AGCCCTTTTA
84701100 GCACTTCCTC
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
23 4 0.08
24 8 0.15
25 41 0.77
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAAACTGGGGCAG
Found at i:84701064 original size:25 final size:25
Alignment explanation
Indices: 84701032--84701098 Score: 109
Period size: 25 Copynumber: 2.7 Consensus size: 25
84701022 TTTTAATAAT
84701032 TGGGGCAGAGCCC-TTTCTGATAAAC
1 TGGGGCAGAGCCCTTTTC-GATAAAC
*
84701057 TGGGGCAGAGCCCTTTTCGGTAAAC
1 TGGGGCAGAGCCCTTTTCGATAAAC
84701082 TGGGGCAGAGCCCTTTT
1 TGGGGCAGAGCCCTTTT
84701099 AGCACTTCCT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
25 36 0.90
26 4 0.10
ACGTcount: A:0.19, C:0.24, G:0.31, T:0.25
Consensus pattern (25 bp):
TGGGGCAGAGCCCTTTTCGATAAAC
Found at i:84701961 original size:27 final size:27
Alignment explanation
Indices: 84701900--84701963 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
84701890 GGCGTATTCA
84701900 TCATTTTACCATACAAGGGTATTACGG
1 TCATTTTACCATACAAGGGTATTACGG
* * *
84701927 TCACTTTACCCTACAGGGGCT-TTACGG
1 TCATTTTACCATACAAGGG-TATTACGG
*
84701954 TCTTTTTACC
1 TCATTTTACC
84701964 TATTAGGGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (27 bp):
TCATTTTACCATACAAGGGTATTACGG
Found at i:84702047 original size:27 final size:27
Alignment explanation
Indices: 84702017--84702125 Score: 80
Period size: 27 Copynumber: 3.9 Consensus size: 27
84702007 GTAAATCTAC
84702017 AAACCAAGGGTATTTTAGTAATTTTGT
1 AAACCAAGGGTATTTTAGTAATTTTGT
* *
84702044 AAACCAATGGTATTCCTA-TAATTTT-T
1 AAACCAAGGGTATT-TTAGTAATTTTGT
* *
84702070 AAAAAAGTCAAGGGAATTTCT-GTAATTTTGT
1 ---AAA-CCAAGGGTATTT-TAGTAATTTTGT
* * *
84702101 AAATCAGGGGTATTTTGGTAATTTT
1 AAACCAAGGGTATTTTAGTAATTTT
84702126 ACAAATTGAG
Statistics
Matches: 65, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
26 2 0.03
27 38 0.58
28 5 0.08
29 3 0.05
30 16 0.25
31 1 0.02
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTTAGTAATTTTGT
Found at i:84702131 original size:27 final size:26
Alignment explanation
Indices: 84702091--84702177 Score: 86
Period size: 27 Copynumber: 3.2 Consensus size: 26
84702081 GGGAATTTCT
*
84702091 GTAATTTTGTAAATCAGGGGTATTTTG
1 GTAATTTT-CAAATCAGGGGTATTTTG
* *
84702118 GTAATTTTACAAAT-TGAGGGTATTTCG
1 GTAATTTT-CAAATCAG-GGGTATTTTG
* *
84702145 GTAATTTCTCAAACCAGTGGTATTTTG
1 GTAATTT-TCAAATCAGGGGTATTTTG
84702172 GTAATT
1 GTAATT
84702178 CTATCCTACA
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
26 1 0.02
27 46 0.94
28 2 0.04
ACGTcount: A:0.28, C:0.08, G:0.22, T:0.43
Consensus pattern (26 bp):
GTAATTTTCAAATCAGGGGTATTTTG
Found at i:84702246 original size:27 final size:27
Alignment explanation
Indices: 84702209--84702476 Score: 288
Period size: 27 Copynumber: 9.9 Consensus size: 27
84702199 GTAATTTCAG
* *
84702209 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTATA
* *
84702236 AA-CTGAGGGTAAAATGGTAATTTTGTG
1 AATC-GAGGGTAAAATGGTAATTTTATA
* *
84702263 AATCGAGGGTAAAATGATAATTCTATA
1 AATCGAGGGTAAAATGGTAATTTTATA
*** *
84702290 AATCGAGGGTACTTTGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTTTATA
*
84702317 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTATA
* *
84702344 AATC-AGGGGTAAAACGGTAATTCTATA
1 AATCGA-GGGTAAAATGGTAATTTTATA
* * *
84702371 AATCAAGAGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTTTATA
* *
84702398 AATTGATGGTAAAATGGTAATTTTATA
1 AATCGAGGGTAAAATGGTAATTTTATA
** *
84702425 AATCGAGGGTAAACCGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTATA
***
84702452 AATCGAGGGTACTTTGGTAATTTTA
1 AATCGAGGGTAAAATGGTAATTTTA
84702477 CAATTTGAGG
Statistics
Matches: 202, Mismatches: 35, Indels: 8
0.82 0.14 0.03
Matches are distributed among these distances:
26 2 0.01
27 198 0.98
28 2 0.01
ACGTcount: A:0.37, C:0.07, G:0.23, T:0.33
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTTTATA
Found at i:84702501 original size:81 final size:81
Alignment explanation
Indices: 84702224--84702489 Score: 336
Period size: 81 Copynumber: 3.3 Consensus size: 81
84702214 AGGGTAAAAC
* * * * * *
84702224 GGTAATTTTGTAAACTGAGGGTAAAATGGTAATTTTGTGAATCGAGGGTAAAATGATAATTCTAT
1 GGTAATTCTATAAATTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTAT
84702289 AAATCGAGGGTACTTT
66 AAATCGAGGGTACTTT
*
84702305 GGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTGTAAATC-AGGGGTAAAACGGTAATTCTA
1 GGTAATTCTATAAATTGAGGGTAAAATGGTAATTTTGTAAATCGA-GGGTAAAACGGTAATTCTA
* * ***
84702369 TAAATCAAGAGTAAAAT
65 TAAATCGAGGGTACTTT
* * * * *
84702386 GGTAATTCTATAAATTGATGGTAAAATGGTAATTTTATAAATCGAGGGTAAACCGGTAATTTTGT
1 GGTAATTCTATAAATTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTAT
84702451 AAATCGAGGGTACTTT
66 AAATCGAGGGTACTTT
* * *
84702467 GGTAATTTTACAATTTGAGGGTA
1 GGTAATTCTATAAATTGAGGGTA
84702490 TTTCAGTAAT
Statistics
Matches: 156, Mismatches: 27, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
80 1 0.01
81 154 0.99
82 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.23, T:0.34
Consensus pattern (81 bp):
GGTAATTCTATAAATTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTAT
AAATCGAGGGTACTTT
Found at i:84709442 original size:137 final size:137
Alignment explanation
Indices: 84709204--84709472 Score: 461
Period size: 137 Copynumber: 2.0 Consensus size: 137
84709194 TCCAATTCGA
* *
84709204 AGTCAGAATAACAAGTGAAGTCTAGGTGGATTCTTCCTTATGTATCGTCTTAATTCAATCGTTTT
1 AGTCAGAATAACAAATGAAGTCTAGGTGGATTCTTCCTTAGGTATCGTCTTAATTCAATCGTTTT
*
84709269 CCAAAAGTAATTCCCCAATTCTATTGTTTTTGAATTCTTAGTTTAGATAATTAGTTAGTTAAAAC
66 CCAAAAGTAATTCCCCAATTCTATTGTTTTTGAATTCTTAGTTTAGATAATTAATTAGTTAAAAC
84709334 AATTTGG
131 AATTTGG
* *
84709341 AGTCTGAATAACAAATGAAGTCTAGGTGGATTCTTCCTTAGGTATTGTCTTAATTCAATCGTTTT
1 AGTCAGAATAACAAATGAAGTCTAGGTGGATTCTTCCTTAGGTATCGTCTTAATTCAATCGTTTT
84709406 CCAAAAGTAA-TCCCCTAATTCTATT-TTTTGTGAATTCTTAGTTTAGATAATTAATTAGTTAAA
66 CCAAAAGTAATTCCCC-AATTCTATTGTTTT-TGAATTCTTAGTTTAGATAATTAATTAGTTAAA
84709469 ACAA
129 ACAA
84709473 AACCCCTTTA
Statistics
Matches: 125, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
136 9 0.07
137 116 0.93
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.40
Consensus pattern (137 bp):
AGTCAGAATAACAAATGAAGTCTAGGTGGATTCTTCCTTAGGTATCGTCTTAATTCAATCGTTTT
CCAAAAGTAATTCCCCAATTCTATTGTTTTTGAATTCTTAGTTTAGATAATTAATTAGTTAAAAC
AATTTGG
Found at i:84710204 original size:45 final size:45
Alignment explanation
Indices: 84710153--84710288 Score: 272
Period size: 45 Copynumber: 3.0 Consensus size: 45
84710143 TATTTGCATC
84710153 ATAAGGACCCCTCATTTATAAAGCCAAATCAAATAGGCACTTTTA
1 ATAAGGACCCCTCATTTATAAAGCCAAATCAAATAGGCACTTTTA
84710198 ATAAGGACCCCTCATTTATAAAGCCAAATCAAATAGGCACTTTTA
1 ATAAGGACCCCTCATTTATAAAGCCAAATCAAATAGGCACTTTTA
84710243 ATAAGGACCCCTCATTTATAAAGCCAAATCAAATAGGCACTTTTA
1 ATAAGGACCCCTCATTTATAAAGCCAAATCAAATAGGCACTTTTA
84710288 A
1 A
84710289 CATCTAGCAC
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 91 1.00
ACGTcount: A:0.40, C:0.22, G:0.11, T:0.26
Consensus pattern (45 bp):
ATAAGGACCCCTCATTTATAAAGCCAAATCAAATAGGCACTTTTA
Found at i:84716400 original size:10 final size:10
Alignment explanation
Indices: 84716385--84716427 Score: 50
Period size: 10 Copynumber: 4.0 Consensus size: 10
84716375 GTAATACATG
84716385 CCAAATCATA
1 CCAAATCATA
84716395 CCAAATCATAA
1 CCAAATCAT-A
84716406 GGCCAAATCATA
1 --CCAAATCATA
*
84716418 CCAAAACATA
1 CCAAATCATA
84716428 TGATTCATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
10 18 0.62
11 1 0.03
12 1 0.03
13 9 0.31
ACGTcount: A:0.51, C:0.28, G:0.05, T:0.16
Consensus pattern (10 bp):
CCAAATCATA
Found at i:84716410 original size:23 final size:23
Alignment explanation
Indices: 84716384--84716427 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
84716374 TGTAATACAT
*
84716384 GCCAAATCATACCAAATCATAAG
1 GCCAAATCATACCAAAACATAAG
84716407 GCCAAATCATACCAAAACATA
1 GCCAAATCATACCAAAACATA
84716428 TGATTCATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.50, C:0.27, G:0.07, T:0.16
Consensus pattern (23 bp):
GCCAAATCATACCAAAACATAAG
Found at i:84724205 original size:27 final size:27
Alignment explanation
Indices: 84724175--84724322 Score: 167
Period size: 27 Copynumber: 5.5 Consensus size: 27
84724165 TAAATTGGTG
*
84724175 AAATGACTATTTTTCCCTTATGAGGTA
1 AAATGACTATTTTGCCCTTATGAGGTA
* *
84724202 AAATGATTATTTTGCCTTTATGAGGTA
1 AAATGACTATTTTGCCCTTATGAGGTA
*
84724229 AAATGAC-AGTTTTGCCCTTATAAGGTA
1 AAATGACTA-TTTTGCCCTTATGAGGTA
*
84724256 AAATGACTATTTTGCCCTTATAAGGTA
1 AAATGACTATTTTGCCCTTATGAGGTA
* * * *
84724283 AAATGATTTTTTTGGCCCTAACTGA--CA
1 AAATGACTATTTT-GCCCTTA-TGAGGTA
84724310 AAATGACTATTTT
1 AAATGACTATTTT
84724323 TCCCCTATAT
Statistics
Matches: 104, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
26 1 0.01
27 94 0.90
28 7 0.07
29 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.39
Consensus pattern (27 bp):
AAATGACTATTTTGCCCTTATGAGGTA
Found at i:84728131 original size:48 final size:49
Alignment explanation
Indices: 84728010--84728133 Score: 137
Period size: 50 Copynumber: 2.5 Consensus size: 49
84728000 GGGTATAATG
*
84728010 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCATA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCCCTCACATAT-CATA
* * * *
84728060 CTGATGCCATGTCCCAGATATGGTCTTACACT-GACACCTC-TATAT-GTA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAG-C-CCTCACATATCATA
* *
84728108 CCGATGCCATGTCTCATACATGGTCT
1 CCGATGCCATGTCCCAGACATGGTCT
84728134 CACTCGTAGC
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
48 24 0.38
49 1 0.02
50 35 0.56
51 3 0.05
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.29
Consensus pattern (49 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCCCTCACATATCATA
Found at i:84728216 original size:46 final size:45
Alignment explanation
Indices: 84728150--84728311 Score: 150
Period size: 46 Copynumber: 3.5 Consensus size: 45
84728140 TAGCCAATGT
*
84728150 ATGTCCCA-TCATGTCTTACACTGGCT-TACATCTCGAGGCCGATGC
1 ATGTCCCAGACATGTCTTACACTGGCTCT-CATCTCGAGGCC-ATGC
* ** * *
84728195 ATGTCCCAGACATGTCTTACACTAGCTCTTGTCTCAATGCCACTGTC
1 ATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAGGCCA-TG-C
* * * *
84728242 ATGTCCCAGATATGGTCTTACACTGGCTCTCATAAT-GTGGTCAATGC
1 ATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-CTCGAGG-CCATGC
84728289 ATGTCCCAGACATGTCTTACACT
1 ATGTCCCAGACATGTCTTACACT
84728312 AGCACACAAA
Statistics
Matches: 94, Mismatches: 16, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
45 9 0.10
46 36 0.38
47 27 0.29
48 19 0.20
49 3 0.03
ACGTcount: A:0.22, C:0.29, G:0.18, T:0.31
Consensus pattern (45 bp):
ATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAGGCCATGC
Found at i:84729275 original size:20 final size:20
Alignment explanation
Indices: 84729250--84729322 Score: 60
Period size: 20 Copynumber: 3.5 Consensus size: 20
84729240 ACAGCCATGC
84729250 CTCTTTAAAGGGTCTAATTG
1 CTCTTTAAAGGGTCTAATTG
* * *
84729270 CTCTTTCCTATAGACGT-TCA-TG
1 CTC-TT--TAAAG-GGTCTAATTG
84729292 CCTCTTTAAAGGGTCTAATTG
1 C-TCTTTAAAGGGTCTAATTG
84729313 CTCTTTAAAG
1 CTCTTTAAAG
84729323 ACCCCAAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
19 2 0.05
20 18 0.45
21 5 0.12
22 5 0.12
23 8 0.20
24 2 0.05
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.40
Consensus pattern (20 bp):
CTCTTTAAAGGGTCTAATTG
Found at i:84734293 original size:41 final size:39
Alignment explanation
Indices: 84734246--84734382 Score: 159
Period size: 40 Copynumber: 3.4 Consensus size: 39
84734236 TATTATAATA
84734246 TCGCACACTAAGTGCCTTTCATAGCCGAAGCTATCTCAAT
1 TCGCACACTAAGTGCCTTT-ATAGCCGAAGCTATCTCAAT
* * *
84734286 CTTGCACATTAAGTGCCATATATAGCCGAAGCTAT-TCCAAT
1 -TCGCACACTAAGTGCC-TTTATAGCCGAAGCTATCT-CAAT
* *
84734327 TCGCACACTAAGTGCTTTATATAGCCGAAGCTATCTCTAT
1 TCGCACACTAAGTGCCTT-TATAGCCGAAGCTATCTCAAT
* *
84734367 ACGCTCACTAAGTGCC
1 TCGCACACTAAGTGCC
84734383 AAACATAATC
Statistics
Matches: 81, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
39 1 0.01
40 45 0.56
41 33 0.41
42 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.28
Consensus pattern (39 bp):
TCGCACACTAAGTGCCTTTATAGCCGAAGCTATCTCAAT
Found at i:84734341 original size:81 final size:83
Alignment explanation
Indices: 84734201--84734389 Score: 226
Period size: 81 Copynumber: 2.3 Consensus size: 83
84734191 AATACTCGAT
* *
84734201 ATCTCGCACATTAAGTGCCAAAGCATAGCTGAAACTATTATAATATCGCACACTAAGTGCCTTT-
1 ATCTCGCACATTAAGTGCCAAAGCATAGCCGAAACTATTACAATATCGCACACTAAGTG-CTTTA
84734265 CATAGCCGAAGCTATCTCA
65 CATAGCCGAAGCTATCTCA
* * * * * *
84734284 ATCTTGCACATTAAGTGCCATA-TATAGCCGAAGCTATTCCAAT-TCGCACACTAAGTGCTTTAT
1 ATCTCGCACATTAAGTGCCAAAGCATAGCCGAAACTATTACAATATCGCACACTAAGTGCTTTAC
*
84734347 ATAGCCGAAGCTATCTCT
66 ATAGCCGAAGCTATCTCA
* * *
84734365 AT-ACGCTCACTAAGTGCCAAA-CATA
1 ATCTCGCACATTAAGTGCCAAAGCATA
84734390 ATCAATTCGT
Statistics
Matches: 90, Mismatches: 15, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
80 21 0.23
81 33 0.37
82 16 0.18
83 20 0.22
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (83 bp):
ATCTCGCACATTAAGTGCCAAAGCATAGCCGAAACTATTACAATATCGCACACTAAGTGCTTTAC
ATAGCCGAAGCTATCTCA
Found at i:84736285 original size:8 final size:9
Alignment explanation
Indices: 84736264--84736289 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
84736254 ATTTTCAAAA
84736264 TTTTTAATG
1 TTTTTAATG
84736273 TTTTTAATG
1 TTTTTAATG
84736282 TTTTTAAT
1 TTTTTAAT
84736290 ATTTAATACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (9 bp):
TTTTTAATG
Found at i:84742318 original size:7 final size:7
Alignment explanation
Indices: 84742306--84742380 Score: 96
Period size: 7 Copynumber: 10.6 Consensus size: 7
84742296 TATTTGTATT
84742306 AACCCTA
1 AACCCTA
84742313 AACCCTA
1 AACCCTA
84742320 AACCCTA
1 AACCCTA
84742327 AACCCTA
1 AACCCTA
*
84742334 AACCTTA
1 AACCCTA
*
84742341 AACCTTA
1 AACCCTA
84742348 AACCCTA
1 AACCCTA
*
84742355 AACTCTAA
1 AACCCT-A
* *
84742363 AATCTTA
1 AACCCTA
84742370 AACCCTA
1 AACCCTA
84742377 AACC
1 AACC
84742381 ATCTTACTTT
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
7 55 0.93
8 4 0.07
ACGTcount: A:0.44, C:0.36, G:0.00, T:0.20
Consensus pattern (7 bp):
AACCCTA
Found at i:84754115 original size:10 final size:10
Alignment explanation
Indices: 84754100--84754138 Score: 69
Period size: 10 Copynumber: 3.8 Consensus size: 10
84754090 TGCTTTTGTA
84754100 CATGATATGC
1 CATGATATGC
84754110 CATGATATGC
1 CATGATATGC
84754120 ACATGATATGC
1 -CATGATATGC
84754131 CATGATAT
1 CATGATAT
84754139 ATTCACATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 18 0.64
11 10 0.36
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (10 bp):
CATGATATGC
Found at i:84754124 original size:21 final size:21
Alignment explanation
Indices: 84754099--84754138 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
84754089 CTGCTTTTGT
84754099 ACATGATATGCCATGATATGC
1 ACATGATATGCCATGATATGC
84754120 ACATGATATGCCATGATAT
1 ACATGATATGCCATGATAT
84754139 ATTCACATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (21 bp):
ACATGATATGCCATGATATGC
Found at i:84770612 original size:79 final size:81
Alignment explanation
Indices: 84770503--84770685 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
84770493 TACTCGTTCA
* *
84770503 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
84770566 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
84770583 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
84770646 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
84770662 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
84770686 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Done.