Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 236 of 356
Found at i:77556332 original size:25 final size:25
Alignment explanation
Indices: 77556282--77556332 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
77556272 TGTGTAACAA
* *
77556282 CAAATGAATAGGGGCACTATATGTG
1 CAAATGAATAGAGGCACTAGATGTG
*
77556307 CAAATGATTAGAGGCACTGAGA-GTG
1 CAAATGAATAGAGGCACT-AGATGTG
77556332 C
1 C
77556333 GAGTTCTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 20 0.91
26 2 0.09
ACGTcount: A:0.35, C:0.14, G:0.29, T:0.22
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTAGATGTG
Found at i:77558168 original size:48 final size:48
Alignment explanation
Indices: 77558092--77558943 Score: 1452
Period size: 48 Copynumber: 17.6 Consensus size: 48
77558082 AGTGGGAAGA
* *
77558092 AATGGCTAATGTGAAATACGTATAAGATATGTATATGTGGTAAAGCCG
1 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
77558140 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
1 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
* *
77558188 AATGGCTAATGTGAAATATGTATAAGATAGGTATATGTGGTAAAGCCG
1 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
*
77558236 AATGGCTAATGTGAAATATGTATGAGATATGTACATGTGGTAAAGCCG
1 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
*
77558284 AATGGCTAATGTGAAATATGTATGAGATATGTACATGTGGTAAAGCCG
1 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
* *
77558332 AATGGCTAATGTGAAATACGTATGAGATATGTTTATGTGGTAAAGCCG
1 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
* * *
77558380 AATGGCTAATGTGAAATACGTATGAGATATGTTTATGTGGTAAAGGCG
1 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
*
77558428 AATGGCTAATGTGAAATATGTATGAGATAGGCATATGTGGTAATGTGGTAAAGCCG
1 AATGGCTAATGTGAAATATGTAT--G--A-G-ATATGT-AT-ATGTGGTAAAGCCG
* * *
77558484 AATGGCTAATGTGAAATATGTATGAGATAGGCATATGTGGTAAAGCCA
1 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
* *
77558532 AATAGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGTCG
1 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
*
77558580 AATGGCTAATGTTAAATATGTATGAGATATGTATATGTGGTAAAGCCG
1 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
77558628 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
1 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
77558676 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
1 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
77558724 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
1 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
77558772 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
1 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
77558820 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
1 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
77558868 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
1 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
* *
77558916 AATGGCTAGTGTGAAATATGTAGGAGAT
1 AATGGCTAATGTGAAATATGTATGAGAT
77558944 GTGTGTATAT
Statistics
Matches: 767, Mismatches: 29, Indels: 16
0.94 0.04 0.02
Matches are distributed among these distances:
48 713 0.93
49 1 0.00
50 5 0.01
51 1 0.00
52 2 0.00
53 1 0.00
54 7 0.01
55 1 0.00
56 36 0.05
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.31
Consensus pattern (48 bp):
AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
Found at i:77558465 original size:26 final size:26
Alignment explanation
Indices: 77558436--77558522 Score: 70
Period size: 26 Copynumber: 3.2 Consensus size: 26
77558426 CGAATGGCTA
77558436 ATGTGAAATATGTATGAGATAGGCAT
1 ATGTGAAATATGTATGAGATAGGCAT
* * * *
77558462 ATGTGGTAATGTGGTAAAGCCGA-ATGGC-T
1 ATGT-GAAATAT-GT-ATG-AGATA-GGCAT
77558491 AATGTGAAATATGTATGAGATAGGCAT
1 -ATGTGAAATATGTATGAGATAGGCAT
77558518 ATGTG
1 ATGTG
77558523 GTAAAGCCAA
Statistics
Matches: 45, Mismatches: 8, Indels: 16
0.65 0.12 0.23
Matches are distributed among these distances:
26 14 0.31
27 9 0.20
28 4 0.09
29 9 0.20
30 9 0.20
ACGTcount: A:0.34, C:0.06, G:0.30, T:0.30
Consensus pattern (26 bp):
ATGTGAAATATGTATGAGATAGGCAT
Found at i:77559134 original size:37 final size:37
Alignment explanation
Indices: 77559084--77559186 Score: 197
Period size: 37 Copynumber: 2.8 Consensus size: 37
77559074 GGAAATATAT
77559084 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
77559121 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
77559158 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
77559187 GGACTATTCG
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.23
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:77564049 original size:28 final size:28
Alignment explanation
Indices: 77564017--77564144 Score: 175
Period size: 29 Copynumber: 4.5 Consensus size: 28
77564007 ATAGTAAGTC
*
77564017 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
77564045 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGC-TATATAATCAAACT
77564074 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* ** * *
77564102 TGCACACTTAGTGCTATGCAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
77564131 CGCACACTTAGTGC
1 CGCACACTTAGTGC
77564145 CAATCTCATG
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
28 44 0.49
29 45 0.51
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:77564107 original size:57 final size:57
Alignment explanation
Indices: 77564016--77564144 Score: 188
Period size: 57 Copynumber: 2.3 Consensus size: 57
77564006 TATAGTAAGT
*
77564016 CCGCACACTTAGTGTTATATAATCAAACTCGCACACTTAGTGCT-TACATAATCAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACA-AATCAAAC
* * * * *
77564073 TCGCACACTTAGTGCTATATAATCAAACTTGCACACTTAGTGCTATGCAATTTAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
77564130 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
77564145 CAATCTCATG
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
57 61 0.95
58 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (57 bp):
CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
Found at i:77575265 original size:49 final size:49
Alignment explanation
Indices: 77575204--77575377 Score: 240
Period size: 49 Copynumber: 3.5 Consensus size: 49
77575194 CTAGTACGCA
* *
77575204 TAGTAGCCTGCACTTAGTACTACAAATGCGACCAATTATCCGGTCCACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
* * * *** * *
77575253 TAGTAGCTTGCACTTAGTACTACGCATGTGACCTAACCGTCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCCGGTACACG
*
77575303 TAGTAGCCTGCACTTAGTACTACACATACGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
77575352 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
77575378 CGTGACCTCA
Statistics
Matches: 105, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
49 66 0.63
50 39 0.37
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
Found at i:77575383 original size:99 final size:99
Alignment explanation
Indices: 77575204--77575385 Score: 310
Period size: 99 Copynumber: 1.8 Consensus size: 99
77575194 CTAGTACGCA
* * *
77575204 TAGTAGCCTGCACTTAGTACTACAAATGCGACCAATTATCCGGTCCACGTAGTAGCTTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACAAATACGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
* *
77575269 GTACTACGCATGTGACCTAACCGTCTGATACACG
66 GTACTACACACGTGACCTAACCGTCTGATACACG
*
77575303 TAGTAGCCTGCACTTAGTACTACACATACGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACAAATACGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
77575368 GTACTACACACGTGACCT
66 GTACTACACACGTGACCT
77575386 CACAATAGAT
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
99 77 1.00
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACAAATACGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
GTACTACACACGTGACCTAACCGTCTGATACACG
Found at i:77579142 original size:46 final size:46
Alignment explanation
Indices: 77578976--77579151 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
77578966 TGTAACTCGC
* * * *
77578976 CCATAAGTGAACTCTGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTTGCAT
* * * *
77579022 CCATGAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
* * *
77579072 -C-TCA-CGAACTCGGATTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
77579115 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
77579152 TGCCCAAATA
Statistics
Matches: 106, Mismatches: 16, Indels: 16
0.77 0.12 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 4 0.04
46 59 0.56
47 27 0.25
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:77579143 original size:93 final size:93
Alignment explanation
Indices: 77578984--77579155 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
77578974 GCCCATAAGT
* * *
77578984 GAACTCTGACTCAACTCAACGAGCTCAGGCGTTCGCATCCATGAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
77579049 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
77579077 GAACTCGGATTCAACTCAACGAGTTC-GGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAGTGAACTCAGACTCAACTCA
77579141 ACGAGTTCGGATGCC
65 ACGAGTTCGGATGCC
77579156 CAAATATCCC
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:77579170 original size:46 final size:46
Alignment explanation
Indices: 77579027--77579170 Score: 118
Period size: 46 Copynumber: 3.1 Consensus size: 46
77579017 CGCATCCATG
* * * *
77579027 AGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TATATCCC
* * * *
77579075 A-CGAACTCGGATTCAACTCAACGAGTTCGGA----CATTTGCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATAT--ATCC--C
*
77579120 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATATATCCC
77579166 AGTGA
1 AGTGA
77579171 CATGTCACTC
Statistics
Matches: 74, Mismatches: 13, Indels: 20
0.69 0.12 0.19
Matches are distributed among these distances:
41 1 0.01
43 4 0.05
45 1 0.01
46 33 0.45
47 27 0.36
48 5 0.07
50 3 0.04
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATATATCCC
Found at i:77584154 original size:40 final size:40
Alignment explanation
Indices: 77584099--77584281 Score: 269
Period size: 40 Copynumber: 4.6 Consensus size: 40
77584089 CGGATGATAA
* * *
77584099 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
* * *
77584139 CCGGGCTAAGTCCCGAAGTCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
77584179 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
77584219 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
77584259 CCGGGCTATGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
77584282 CGAGTAAGTA
Statistics
Matches: 129, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
40 129 1.00
ACGTcount: A:0.21, C:0.25, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:77584302 original size:80 final size:79
Alignment explanation
Indices: 77584099--77584316 Score: 253
Period size: 80 Copynumber: 2.7 Consensus size: 79
77584089 CGGATGATAA
* * * *
77584099 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGT-GACTAGTTCCGGGCTAAGTCCCGAAGTCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGAG-TAGTAG-CTATTTCCGGGCTAAGTCCCGAAGGCATTG
*
77584163 GTGCGAGTTATTACAT
64 GTGCGAGTTACTACAT
* * *
77584179 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTA-CTATATCCGGGCTAAGTCCCGAAGGCATTG
1 CCGGGCTAAGTCCCGAAGGCATTTGAG-TAG-TAGCTATTTCCGGGCTAAGTCCCGAAGGCATTG
*
77584243 GTGCGAGTTACTATAT
64 GTGCGAGTTACTACAT
* * * *
77584259 CCGGGCTATGTCCCGAAGGCATTCGAGTAAGTAGCTATTTCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGAGT-AGTAGCTATTTCCGGGCTAAGTCCCGAAGG
77584317 TACTTGGCTT
Statistics
Matches: 119, Mismatches: 15, Indels: 9
0.83 0.10 0.06
Matches are distributed among these distances:
79 16 0.13
80 102 0.86
81 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAGTAGTAGCTATTTCCGGGCTAAGTCCCGAAGGCATTGGT
GCGAGTTACTACAT
Found at i:77587383 original size:24 final size:24
Alignment explanation
Indices: 77587356--77587404 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
77587346 TGACTAACAT
77587356 GTTTGATTGGATGCATGTGTTTAG
1 GTTTGATTGGATGCATGTGTTTAG
77587380 GTTTGATTGGATGCATGTGTTTAG
1 GTTTGATTGGATGCATGTGTTTAG
77587404 G
1 G
77587405 CAATTTAGCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.16, C:0.04, G:0.35, T:0.45
Consensus pattern (24 bp):
GTTTGATTGGATGCATGTGTTTAG
Found at i:77587988 original size:47 final size:46
Alignment explanation
Indices: 77587937--77588090 Score: 139
Period size: 47 Copynumber: 3.3 Consensus size: 46
77587927 TAGTTCAAGT
* *
77587937 ATTTAATTTGTCTTCAA-TTTATTTAATATGTTCTAATTGGTTCAGAA
1 ATTTAATTTGTC-T-AAGTTAATTTAATATGTTCTAATTAGTTCAGAA
* * * **
77587984 ATTTAATTTATCTAAAGTTCATCTAATATGTTCTAATTAGTTCAGCT
1 ATTTAATTTGTCT-AAGTTAATTTAATATGTTCTAATTAGTTCAGAA
* * ** * **
77588031 ATTTAATATGTCCTAAGTTAATTTAATATGTTTTAGCTAGTACAGCT
1 ATTTAATTTGT-CTAAGTTAATTTAATATGTTCTAATTAGTTCAGAA
77588078 ATTTAATTTGTCT
1 ATTTAATTTGTCT
77588091 TAGCTTATTA
Statistics
Matches: 89, Mismatches: 16, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
46 5 0.06
47 82 0.92
48 2 0.02
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.49
Consensus pattern (46 bp):
ATTTAATTTGTCTAAGTTAATTTAATATGTTCTAATTAGTTCAGAA
Found at i:77588120 original size:25 final size:25
Alignment explanation
Indices: 77588092--77588140 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
77588082 AATTTGTCTT
*
77588092 AGCTTATTACAACTTAATTAGCTGA
1 AGCTCATTACAACTTAATTAGCTGA
77588117 AGCTCATTACAACTTAATTAGCTG
1 AGCTCATTACAACTTAATTAGCTG
77588141 GTTGAGTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (25 bp):
AGCTCATTACAACTTAATTAGCTGA
Found at i:77588187 original size:19 final size:18
Alignment explanation
Indices: 77588147--77588189 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
77588137 GCTGGTTGAG
77588147 TTAATTTTCTAGCTGAAT
1 TTAATTTTCTAGCTGAAT
77588165 TTAAGTTTTCCTAGCTGAA-
1 TTAA-TTTT-CTAGCTGAAT
77588184 TTAATT
1 TTAATT
77588190 GTGTTTTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 6 0.26
19 8 0.35
20 9 0.39
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.49
Consensus pattern (18 bp):
TTAATTTTCTAGCTGAAT
Found at i:77590773 original size:23 final size:23
Alignment explanation
Indices: 77590747--77590790 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
77590737 TATAATCATA
77590747 TCAAAATCATAACAAAACATAAG
1 TCAAAATCATAACAAAACATAAG
* *
77590770 TCAAAGTCATACCAAAACATA
1 TCAAAATCATAACAAAACATA
77590791 TGTTACATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.57, C:0.20, G:0.05, T:0.18
Consensus pattern (23 bp):
TCAAAATCATAACAAAACATAAG
Found at i:77591619 original size:42 final size:42
Alignment explanation
Indices: 77591519--77591680 Score: 168
Period size: 43 Copynumber: 3.8 Consensus size: 42
77591509 AGCTCGTACA
* *
77591519 ATGCCAATGTCCCAGACATGGTCATACACGTAATCAAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATA-CG
* * *
77591562 ATGCCACTATCCCAGACAGGGTCTTACACGAAATCAAATACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATACG
* *
77591604 ATGCCAATGTCCCAGAAATGGTCTTACATGTAAATCATAACT-CG
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AAATCA-AA-TACG
* *
77591648 ATGCCAGCT-TCCCAGACGTGGT-TGTACACGAAA
1 ATGCCA-ATGTCCCAGACATGGTCT-TACACGAAA
77591681 ACACATATCG
Statistics
Matches: 100, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
42 27 0.27
43 45 0.45
44 26 0.26
45 2 0.02
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATACG
Found at i:77591661 original size:86 final size:85
Alignment explanation
Indices: 77591519--77591680 Score: 215
Period size: 86 Copynumber: 1.9 Consensus size: 85
77591509 AGCTCGTACA
*
77591519 ATGCCAATGTCCCAGACATGGTCATACACGTAATCAAATATCGATGCCACTATCCCAGACAG-GG
1 ATGCCAATGTCCCAGAAATGGTCATACACGTAATCAAATATCGATGCCACTATCCCAGAC-GTGG
77591583 TCT-TACACGAAATCAAATACG
65 T-TGTACACGAAATCAAATACG
* * *
77591604 ATGCCAATGTCCCAGAAATGGTCTTACATGTAAATCATAA-CTCGATGCCAGCT-TCCCAGACGT
1 ATGCCAATGTCCCAGAAATGGTCATACACGT-AATCA-AATATCGATGCCA-CTATCCCAGACGT
77591667 GGTTGTACACGAAA
63 GGTTGTACACGAAA
77591681 ACACATATCG
Statistics
Matches: 68, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
85 30 0.44
86 34 0.50
87 4 0.06
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (85 bp):
ATGCCAATGTCCCAGAAATGGTCATACACGTAATCAAATATCGATGCCACTATCCCAGACGTGGT
TGTACACGAAATCAAATACG
Found at i:77595910 original size:20 final size:20
Alignment explanation
Indices: 77595859--77595916 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
77595849 TAGCTCGTCC
* *
77595859 AGTTCACAACCAGCTCAGCA
1 AGTTCACATCCAGCTCAACA
* ** *
77595879 AGCTCAGTTCCAACTCAACA
1 AGTTCACATCCAGCTCAACA
77595899 AGTTCACATCCAGCTCAA
1 AGTTCACATCCAGCTCAA
77595917 TTTTAGCTCA
Statistics
Matches: 28, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.34, C:0.34, G:0.12, T:0.19
Consensus pattern (20 bp):
AGTTCACATCCAGCTCAACA
Found at i:77615817 original size:43 final size:44
Alignment explanation
Indices: 77615717--77615817 Score: 127
Period size: 42 Copynumber: 2.4 Consensus size: 44
77615707 CCCAGATGTA
* **
77615717 GTCTTACGTGT-AATCAAATATCAATGCCACTGTCCCAGACAGG
1 GTCTTACGTGTAAATCAAATATCAATGCCAATAACCCAGACAGG
* *
77615760 GTCTTACATG-AAATCAAATA-CAATGCCAATAACCCAGACATG
1 GTCTTACGTGTAAATCAAATATCAATGCCAATAACCCAGACAGG
*
77615802 GTCTTACGCGTAAATC
1 GTCTTACGTGTAAATC
77615818 GTAAGTAGAT
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
42 26 0.53
43 23 0.47
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.25
Consensus pattern (44 bp):
GTCTTACGTGTAAATCAAATATCAATGCCAATAACCCAGACAGG
Found at i:77618470 original size:6 final size:6
Alignment explanation
Indices: 77618461--77618520 Score: 50
Period size: 6 Copynumber: 9.7 Consensus size: 6
77618451 TAGAAAAATC
* * * *
77618461 AAAAGA AAAAGA ACAAGA AAAA-A AGAAATA GAAAGA AAGAAAA AAAAGAA
1 AAAAGA AAAAGA AAAAGA AAAAGA A-AAAGA AAAAGA AA-AAGA AAAAG-A
77618511 AAAAGA AAAA
1 AAAAGA AAAA
77618521 AAGAGAGGAA
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
5 2 0.05
6 29 0.67
7 12 0.28
ACGTcount: A:0.82, C:0.02, G:0.15, T:0.02
Consensus pattern (6 bp):
AAAAGA
Found at i:77618485 original size:14 final size:13
Alignment explanation
Indices: 77618466--77618524 Score: 68
Period size: 14 Copynumber: 4.5 Consensus size: 13
77618456 AAATCAAAAG
77618466 AAAAAGAACAAGAA
1 AAAAAGAA-AAGAA
77618480 AAAAAGAAATAGAA
1 AAAAAGAAA-AGAA
*
77618494 AGAAAGAAAA-AA
1 AAAAAGAAAAGAA
*
77618506 AAGAA-AAAAGAA
1 AAAAAGAAAAGAA
77618518 AAAAAGA
1 AAAAAGA
77618525 GAGGAAAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
11 4 0.11
12 11 0.29
13 3 0.08
14 20 0.53
ACGTcount: A:0.81, C:0.02, G:0.15, T:0.02
Consensus pattern (13 bp):
AAAAAGAAAAGAA
Found at i:77618488 original size:8 final size:8
Alignment explanation
Indices: 77618475--77618524 Score: 52
Period size: 8 Copynumber: 6.5 Consensus size: 8
77618465 GAAAAAGAAC
77618475 AAGAAAAA
1 AAGAAAAA
77618483 AAG--AAA
1 AAGAAAAA
* *
77618489 TAGAAAGA
1 AAGAAAAA
77618497 AAGAAAAA
1 AAGAAAAA
77618505 AA-AGAAAA
1 AAGA-AAAA
77618513 AAGAAAAA
1 AAGAAAAA
77618521 AAGA
1 AAGA
77618525 GAGGAAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
6 5 0.15
7 1 0.03
8 27 0.79
9 1 0.03
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (8 bp):
AAGAAAAA
Found at i:77618496 original size:30 final size:30
Alignment explanation
Indices: 77618462--77618518 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
77618452 AGAAAAATCA
* *
77618462 AAAGAAA-AAGAACAAGAAAAAAAGAAATAG
1 AAAGAAAGAAAAAAAAG-AAAAAAGAAATAG
77618492 AAAGAAAGAAAAAAAAGAAAAAAGAAA
1 AAAGAAAGAAAAAAAAGAAAAAAGAAA
77618519 AAAAGAGAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 17 0.71
31 7 0.29
ACGTcount: A:0.81, C:0.02, G:0.16, T:0.02
Consensus pattern (30 bp):
AAAGAAAGAAAAAAAAGAAAAAAGAAATAG
Found at i:77618517 original size:24 final size:23
Alignment explanation
Indices: 77618466--77618524 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
77618456 AAATCAAAAG
*
77618466 AAAAAGAACAAGAAAAAAAGAAA
1 AAAAAGAAAAAGAAAAAAAGAAA
* *
77618489 TAGAAAGAAAGA-AAAAAAAGAAA
1 -AAAAAGAAAAAGAAAAAAAGAAA
77618512 AAAGAA-AAAAAGA
1 AAA-AAGAAAAAGA
77618525 GAGGAAAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
22 6 0.21
23 14 0.50
24 8 0.29
ACGTcount: A:0.81, C:0.02, G:0.15, T:0.02
Consensus pattern (23 bp):
AAAAAGAAAAAGAAAAAAAGAAA
Found at i:77620345 original size:299 final size:299
Alignment explanation
Indices: 77619807--77620404 Score: 1178
Period size: 299 Copynumber: 2.0 Consensus size: 299
77619797 TTTCAGTGAG
77619807 AAACTCAACGAGGCCGCTCTTAATTATCCCACATTTGACAAGGAGATGTATGCCATAATTCAGGC
1 AAACTCAACGAGGCCGCTCTTAATTATCCCACATTTGACAAGGAGATGTATGCCATAATTCAGGC
77619872 GTTGGAGACATAGCAGCACTATCTTTGGCCTAAGGAATTTGTTATACATACGGATCACGAAGCAT
66 GTTGGAGACATAGCAGCACTATCTTTGGCCTAAGGAATTTGTTATACATACGGATCACGAAGCAT
77619937 TGAAGCACCTTAAGGGACAAAACAAGCTAAACAAGTGCCATGCTAAATGGGTAGAGTTCCTTGAG
131 TGAAGCACCTTAAGGGACAAAACAAGCTAAACAAGTGCCATGCTAAATGGGTAGAGTTCCTTGAG
77620002 TCATTTCCCTACGTGATCAAATACAAGAAAGGTAAGTAGAACATAGTTGCGGATGCATTGTCACG
196 TCATTTCCCTACGTGATCAAATACAAGAAAGGTAAGTAGAACATAGTTGCGGATGCATTGTCACG
77620067 AAGGTATGCCCTCAATAATCATCTATATGCTAAACTGCT
261 AAGGTATGCCCTCAATAATCATCTATATGCTAAACTGCT
*
77620106 AAACTCAACGAGGCCGGTCTTAATTATCCCACATTTGACAAGGAGATGTATGCCATAATTCAGGC
1 AAACTCAACGAGGCCGCTCTTAATTATCCCACATTTGACAAGGAGATGTATGCCATAATTCAGGC
77620171 GTTGGAGACATAGCAGCACTATCTTTGGCCTAAGGAATTTGTTATACATACGGATCACGAAGCAT
66 GTTGGAGACATAGCAGCACTATCTTTGGCCTAAGGAATTTGTTATACATACGGATCACGAAGCAT
77620236 TGAAGCACCTTAAGGGACAAAACAAGCTAAACAAGTGCCATGCTAAATGGGTAGAGTTCCTTGAG
131 TGAAGCACCTTAAGGGACAAAACAAGCTAAACAAGTGCCATGCTAAATGGGTAGAGTTCCTTGAG
*
77620301 TCATTTCCCTACGTGATCAAATACAAGAAAGGTAAGTAGAACATAGTTGCGGATGCATTGTCATG
196 TCATTTCCCTACGTGATCAAATACAAGAAAGGTAAGTAGAACATAGTTGCGGATGCATTGTCACG
77620366 AAGGTATGCCCTCAATAATCATCTATATGCTAAACTGCT
261 AAGGTATGCCCTCAATAATCATCTATATGCTAAACTGCT
77620405 TGGGTTTGCC
Statistics
Matches: 297, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
299 297 1.00
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (299 bp):
AAACTCAACGAGGCCGCTCTTAATTATCCCACATTTGACAAGGAGATGTATGCCATAATTCAGGC
GTTGGAGACATAGCAGCACTATCTTTGGCCTAAGGAATTTGTTATACATACGGATCACGAAGCAT
TGAAGCACCTTAAGGGACAAAACAAGCTAAACAAGTGCCATGCTAAATGGGTAGAGTTCCTTGAG
TCATTTCCCTACGTGATCAAATACAAGAAAGGTAAGTAGAACATAGTTGCGGATGCATTGTCACG
AAGGTATGCCCTCAATAATCATCTATATGCTAAACTGCT
Found at i:77621974 original size:27 final size:26
Alignment explanation
Indices: 77621943--77622041 Score: 75
Period size: 27 Copynumber: 3.9 Consensus size: 26
77621933 TCTTAAGTTT
77621943 ATTTAATATGTTCTAATTAGTTTAGC
1 ATTTAATATGTTCTAATTAGTTTAGC
* *
77621969 AATTTAATTTG-TCT--TAAGTTT---
1 -ATTTAATATGTTCTAATTAGTTTAGC
* *
77621990 ATTTAATATGTTTTAATTAGTTCAGC
1 ATTTAATATGTTCTAATTAGTTTAGC
* *
77622016 TATTTAATATGTCCTAAGTTAATTTA
1 -ATTTAATATGTTCTAA-TTAGTTTA
77622042 ATATGTTTTA
Statistics
Matches: 54, Mismatches: 10, Indels: 15
0.68 0.13 0.19
Matches are distributed among these distances:
20 9 0.17
21 2 0.04
23 5 0.09
24 6 0.11
26 3 0.06
27 23 0.43
28 6 0.11
ACGTcount: A:0.31, C:0.07, G:0.10, T:0.52
Consensus pattern (26 bp):
ATTTAATATGTTCTAATTAGTTTAGC
Found at i:77622005 original size:20 final size:20
Alignment explanation
Indices: 77621922--77622047 Score: 72
Period size: 20 Copynumber: 5.6 Consensus size: 20
77621912 TTAGTTTAAG
*
77621922 TATTTAATTTGTCTTAAGTT
1 TATTTAATATGTCTTAAGTT
*
77621942 TATTTAATATGTTCTAATTAGTT
1 TATTTAATATG-TCT--TAAGTT
*
77621965 TAGCAATTTAATTTGTCTTAAGTT
1 T----ATTTAATATGTCTTAAGTT
*
77621989 TATTTAATATGTTTTAATTAGTT
1 TATTTAATATGTCTT-A--AGTT
*
77622012 CAGCTATTTAATATGTCCTAAGTT
1 ----TATTTAATATGTCTTAAGTT
*
77622036 AATTTAATATGT
1 TATTTAATATGT
77622048 TTTAGCTAGT
Statistics
Matches: 83, Mismatches: 9, Indels: 28
0.69 0.08 0.23
Matches are distributed among these distances:
20 33 0.40
21 4 0.05
23 10 0.12
24 10 0.12
26 4 0.05
27 22 0.27
ACGTcount: A:0.30, C:0.06, G:0.10, T:0.53
Consensus pattern (20 bp):
TATTTAATATGTCTTAAGTT
Found at i:77622063 original size:47 final size:47
Alignment explanation
Indices: 77621922--77622051 Score: 206
Period size: 47 Copynumber: 2.8 Consensus size: 47
77621912 TTAGTTTAAG
* *
77621922 TATTTAATTTGTCTTAAGTTTATTTAATATGTTCTAATTAGTTTAGC
1 TATTTAATTTGTCTTAAGTTTATTTAATATGTTTTAATTAGTTCAGC
*
77621969 AATTTAATTTGTCTTAAGTTTATTTAATATGTTTTAATTAGTTCAGC
1 TATTTAATTTGTCTTAAGTTTATTTAATATGTTTTAATTAGTTCAGC
* * *
77622016 TATTTAATATGTCCTAAGTTAATTTAATATGTTTTA
1 TATTTAATTTGTCTTAAGTTTATTTAATATGTTTTA
77622052 GCTAGTACAG
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 76 1.00
ACGTcount: A:0.30, C:0.06, G:0.10, T:0.54
Consensus pattern (47 bp):
TATTTAATTTGTCTTAAGTTTATTTAATATGTTTTAATTAGTTCAGC
Found at i:77624000 original size:29 final size:29
Alignment explanation
Indices: 77623941--77624022 Score: 89
Period size: 28 Copynumber: 2.9 Consensus size: 29
77623931 TATAAATGTA
* * *
77623941 ATTTGGGCTTAAT-GGCCATATGAATGTG
1 ATTTGGGCCTAATGGGCCATATGAAAGAG
*
77623969 ATTTGGGCCTACTGGGCCATATGAAAGAG
1 ATTTGGGCCTAATGGGCCATATGAAAGAG
* *
77623998 A-TTGGGCCTAGTGGGTCATAT-AAAG
1 ATTTGGGCCTAATGGGCCATATGAAAG
77624023 GTACGTGGAC
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
27 4 0.09
28 29 0.62
29 14 0.30
ACGTcount: A:0.27, C:0.13, G:0.30, T:0.29
Consensus pattern (29 bp):
ATTTGGGCCTAATGGGCCATATGAAAGAG
Found at i:77625146 original size:17 final size:17
Alignment explanation
Indices: 77625124--77625156 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
77625114 TTTAAGGAAG
77625124 GGTTTTCAATAAAACAA
1 GGTTTTCAATAAAACAA
*
77625141 GGTTTTCACTAAAACA
1 GGTTTTCAATAAAACA
77625157 CTACAATGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.30
Consensus pattern (17 bp):
GGTTTTCAATAAAACAA
Found at i:77633281 original size:93 final size:93
Alignment explanation
Indices: 77633169--77633340 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
77633159 CGCCCATAAG
* *
77633169 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
77633234 ATGAGTTCGGATGCCTAGTTACATCTTA
66 ACGAGTTCGGATGCCTAGTTACATCTTA
*
77633262 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
77633327 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
77633341 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTTA
Found at i:77633337 original size:46 final size:46
Alignment explanation
Indices: 77633162--77633337 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
77633152 TGTAACCCGC
* * *
77633162 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
77633208 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
77633258 -C-TTA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
77633301 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
77633338 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.57
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:77633356 original size:46 final size:46
Alignment explanation
Indices: 77633170--77633356 Score: 145
Period size: 46 Copynumber: 4.0 Consensus size: 46
77633160 GCCCATAAGC
* ** * *
77633170 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCC-T-AGT
* * *
77633216 GAACTCGGACTCAACTCAATGAGTTCGGATGC-CTAGTTA-CATCTTA-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCCTAGT
* * * *
77633263 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--AAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATCCTAGT
77633309 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
77633355 GA
1 GA
77633357 CATGTCACTT
Statistics
Matches: 112, Mismatches: 16, Indels: 26
0.73 0.10 0.17
Matches are distributed among these distances:
44 9 0.08
45 2 0.02
46 60 0.54
47 30 0.27
48 1 0.01
49 5 0.04
50 5 0.04
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
Found at i:77636614 original size:16 final size:16
Alignment explanation
Indices: 77636593--77636624 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
77636583 GTTGAAACGC
77636593 CCCAAAAATCTCGAAA
1 CCCAAAAATCTCGAAA
77636609 CCCAAAAATCTCGAAA
1 CCCAAAAATCTCGAAA
77636625 TCTCAAATTT
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:0.50, C:0.31, G:0.06, T:0.12
Consensus pattern (16 bp):
CCCAAAAATCTCGAAA
Found at i:77639530 original size:20 final size:20
Alignment explanation
Indices: 77639492--77639531 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
77639482 AAACACAAGC
* *
77639492 TGTCCATTTAGCTAACTTAT
1 TGTCCATTCAACTAACTTAT
*
77639512 TGTCCATTCAACTAGCTTAT
1 TGTCCATTCAACTAACTTAT
77639532 GTATTGAGCT
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:0.25, C:0.23, G:0.10, T:0.42
Consensus pattern (20 bp):
TGTCCATTCAACTAACTTAT
Found at i:77642827 original size:46 final size:45
Alignment explanation
Indices: 77642669--77642842 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 45
77642659 GATTGAGCAT
*
77642669 CCGAACTCGTTGAGTTGAGTCCGAGTT-ACTTATGGATGCGAATG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * *
77642713 TCCGAACTCGTTGAGTTGAGTTCGAGTTC-GTGA--GATG-TAACTAGG
1 -CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
77642758 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 ---CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
77642806 CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
77642843 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 11, Indels: 21
0.77 0.08 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 31 0.29
46 32 0.30
47 28 0.26
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:77642832 original size:93 final size:92
Alignment explanation
Indices: 77642665--77642835 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 92
77642655 GGATGATTGA
*
77642665 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTACTTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTACTTATGGATGCGAACGTCCGAACTCGTTGAGTT
*
77642730 GAGTTCGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
*
77642757 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTT-ACTTATGGATGCGAACGTCC-GAACTCGTTGAG
77642821 TTGAGTCCGAGTTCG
64 TTGAGTCCGAGTTCG
77642836 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
92 33 0.45
93 41 0.55
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTACTTATGGATGCGAACGTCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:77662557 original size:39 final size:39
Alignment explanation
Indices: 77662498--77662730 Score: 358
Period size: 39 Copynumber: 6.0 Consensus size: 39
77662488 AAGACACTGA
*
77662498 AAATGTATCCGAGCTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
77662537 AAATATATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* * * *
77662576 AAATATATCTGGGCCAAAGTCCCGCAGGCTTCGTGCTAG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
**
77662615 AAATGTATCCGGATTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
77662654 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* * *
77662693 AAATGTATCCGGGTTAAAGTCTCGCAGGCTTTGTGCTG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
77662731 ATAATATAAT
Statistics
Matches: 176, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 176 1.00
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.24
Consensus pattern (39 bp):
AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
Found at i:77670234 original size:47 final size:47
Alignment explanation
Indices: 77670175--77670626 Score: 661
Period size: 47 Copynumber: 9.6 Consensus size: 47
77670165 TATTTGAATA
*
77670175 AATGTGATAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
77670222 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGCTG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
77670269 AATGTGAAAGTGTATATATATGTGATAAAGCCTAATGGTCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
77670318 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
77670365 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
77670412 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
77670459 AATCTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
77670506 GATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
77670553 AATCTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
77670600 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
77670627 TCCCGAAGGG
Statistics
Matches: 368, Mismatches: 35, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
47 326 0.89
49 42 0.11
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:77676565 original size:36 final size:36
Alignment explanation
Indices: 77676518--77676589 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
77676508 CCCTACAGGT
*
77676518 TTGACACGACCTAGACACACGAGCGTGTCTACTGGC
1 TTGACACGACCTAGACACACGAGCATGTCTACTGGC
77676554 TTGACACGACCTAGACACACGAGCATGTCTACTGGC
1 TTGACACGACCTAGACACACGAGCATGTCTACTGGC
77676590 CATGTATGTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.26, C:0.31, G:0.24, T:0.19
Consensus pattern (36 bp):
TTGACACGACCTAGACACACGAGCATGTCTACTGGC
Found at i:77685351 original size:47 final size:47
Alignment explanation
Indices: 77685300--77685639 Score: 464
Period size: 47 Copynumber: 7.1 Consensus size: 47
77685290 TTAGGATTTT
* *
77685300 ATGTGATGAATGCGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
**
77685347 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCATATGTGTGATAAGGCCGAATGGCCA
*
77685398 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
** *
77685445 ATGTGATGAATGTGAACCTATATATATATACGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C-ATGCATATGT--GTGATAAGGCCGAATGGCCA
*
77685496 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * *
77685543 ATGTTATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * * *
77685590 ATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
77685637 ATG
1 ATG
77685640 CGAAATGTGT
Statistics
Matches: 261, Mismatches: 24, Indels: 16
0.87 0.08 0.05
Matches are distributed among these distances:
47 166 0.64
48 1 0.00
49 14 0.05
50 1 0.00
51 79 0.30
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
Found at i:77685402 original size:24 final size:24
Alignment explanation
Indices: 77685374--77685449 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
77685364 CCGTATATAT
77685374 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
* * **
77685398 ATGTGATGA-ATGTG--AACAT-GCGT
1 ATGTG-TGATAAG-GCCGA-ATGGCCA
77685421 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
77685445 ATGTG
1 ATGTG
77685450 ATGAATGTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
22 4 0.11
23 12 0.32
24 17 0.46
25 4 0.11
ACGTcount: A:0.29, C:0.13, G:0.33, T:0.25
Consensus pattern (24 bp):
ATGTGTGATAAGGCCGAATGGCCA
Found at i:77685415 original size:98 final size:97
Alignment explanation
Indices: 77685300--77685639 Score: 526
Period size: 98 Copynumber: 3.5 Consensus size: 97
77685290 TTAGGATTTT
*
77685300 ATGTGATGAATGCGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
*
77685365 CGTATATATATGTGTGATAAGGCCGAATGGCCA
66 C-TATATATATATGTGATAAGGCCGAATGGCCA
77685398 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-C
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
77685462 CTATATATATATACGTGATAAGGCCGAATGGCCA
66 CTATATATATAT--GTGATAAGGCCGAATGGCCA
*
77685496 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTTATGAATGTGAA--
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
** *
77685559 C-ATGCATATATGAGATAAGGCCGAATGGCCA
66 CTATATATATATGTGATAAGGCCGAATGGCCA
** * * *
77685590 ATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATGGCTAATG
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATG
77685640 CGAAATGTGT
Statistics
Matches: 229, Mismatches: 11, Indels: 8
0.92 0.04 0.03
Matches are distributed among these distances:
94 64 0.28
96 18 0.08
97 3 0.01
98 144 0.63
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.26
Consensus pattern (97 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
CTATATATATATGTGATAAGGCCGAATGGCCA
Found at i:77685449 original size:145 final size:141
Alignment explanation
Indices: 77685300--77685639 Score: 482
Period size: 145 Copynumber: 2.4 Consensus size: 141
77685290 TTAGGATTTT
* ** *
77685300 ATGTGATGAATGCGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA--
* * * *
77685365 CGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGAT
64 C--ATACATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGAT
77685430 AAGGCCGAATGGCCA
127 AAGGCCGAATGGCCA
*
77685445 ATGTGATGAATGTGAACCTATATATATATACGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
1 ATGTGATGAATGTGAA-C-ATGTATATAT--GTGATAAGGCCGAATGGCCAATGTGATGAATGTG
* * *
77685510 AACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTTATGAATGTGAACATGCATATATGAGAT
62 AACATACATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGAT
77685575 AAGGCCGAATGGCCA
127 AAGGCCGAATGGCCA
* *
77685590 ATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATGGCTAATG
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATG
77685640 CGAAATGTGT
Statistics
Matches: 176, Mismatches: 15, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
141 21 0.12
143 9 0.05
144 1 0.01
145 101 0.57
146 1 0.01
147 7 0.04
149 36 0.20
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.26
Consensus pattern (141 bp):
ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
TACATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGG
CCGAATGGCCA
Found at i:77685749 original size:46 final size:46
Alignment explanation
Indices: 77685613--77685749 Score: 202
Period size: 46 Copynumber: 3.0 Consensus size: 46
77685603 GAACATGTAT
* *
77685613 ATATGTGGTAAGGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* *
77685659 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * *
77685705 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
77685750 TGTATATATA
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 81 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:77686001 original size:37 final size:37
Alignment explanation
Indices: 77685893--77686001 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
77685883 GGAAATATAT
*
77685893 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
77685930 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
77685967 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
77686002 CGTCTGAGCT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:77692217 original size:39 final size:39
Alignment explanation
Indices: 77692174--77692461 Score: 366
Period size: 39 Copynumber: 7.3 Consensus size: 39
77692164 GACTAAGATT
*
77692174 CGAAGGCATTTGTGCGAGATACAAATTCCGAGCTAAGCC
1 CGAAGGCATTTGTGCGAGATACAAATTCCGGGCTAAGCC
* *
77692213 CGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGCC
1 CGAAGGCATTTGTGCGAGATACAAATTCCGGGCTAAGCC
* * * *
77692252 CGAAGGCATTTGTGCGAGTTATTAAA-TCCGGACTAAGATC
1 CGAAGGCATTTGTGCGAGATA-CAAATTCCGGGCTAAG-CC
77692292 CGAAGGCATTTGTGCGAGATACAAATTCCGGGCTAAGCC
1 CGAAGGCATTTGTGCGAGATACAAATTCCGGGCTAAGCC
*
77692331 CGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCC
1 CGAAGGCATTTGTGCGAGATACAAATTCCGGGCTAAGCC
* * *
77692370 CGAAGGCATTTGTGCGAGTTATTAAA-TCCGGGTTAAGTCC
1 CGAAGGCATTTGTGCGAGATA-CAAATTCCGGGCTAAG-CC
* * * *
77692410 CGAAGGCATTTGTGCGAGTTA-ATATAACCGGGCTATGTCC
1 CGAAGGCATTTGTGCGAGATACAAAT-TCCGGGCTAAG-CC
77692450 CGAAGGCATTTG
1 CGAAGGCATTTG
77692462 AACGAGGAGC
Statistics
Matches: 220, Mismatches: 22, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
38 2 0.01
39 137 0.62
40 81 0.37
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (39 bp):
CGAAGGCATTTGTGCGAGATACAAATTCCGGGCTAAGCC
Found at i:77692308 original size:79 final size:77
Alignment explanation
Indices: 77692174--77692461 Score: 355
Period size: 79 Copynumber: 3.6 Consensus size: 77
77692164 GACTAAGATT
*
77692174 CGAAGGCATTTGTGCGAGATACAAATTCC-GAGCTAAGCCCGAAGGCATTTGTGCGAGATACTAA
1 CGAAGGCATTTGTGCGAGATATAAA-TCCGGA-CTAAGCCCGAAGGCATTTGTGCGAGATACTAA
*
77692238 TTCTGGGCTAAGCC
64 TTCCGGGCTAAGCC
* * *
77692252 CGAAGGCATTTGTGCGAGTTATTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACAAA
1 CGAAGGCATTTGTGCGAGATA-TAAATCCGGACTAAG-CCCGAAGGCATTTGTGCGAGATACTAA
77692317 TTCCGGGCTAAGCC
64 TTCCGGGCTAAGCC
* * * * *
77692331 CGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTATTAAA
1 CGAAGGCATTTGTGCGAGATA-TAAATCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
*
77692396 TCCGGGTTAAGTCC
65 TCCGGGCTAAG-CC
* * *
77692410 CGAAGGCATTTGTGCGAGTTAATATAA-CCGGGCTATGTCCCGAAGGCATTTG
1 CGAAGGCATTTGTGCGAGAT-ATA-AATCCGGACTAAG-CCCGAAGGCATTTG
77692462 AACGAGGAGC
Statistics
Matches: 185, Mismatches: 18, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
78 61 0.33
79 108 0.58
80 16 0.09
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (77 bp):
CGAAGGCATTTGTGCGAGATATAAATCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAATT
CCGGGCTAAGCC
Found at i:77692332 original size:118 final size:118
Alignment explanation
Indices: 77692121--77692461 Score: 485
Period size: 118 Copynumber: 2.9 Consensus size: 118
77692111 TTGAATGATG
* * * *
77692121 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGA-CAATATCCGGACTAAGATTCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTATTAA-ATCCGGACTAAGATCCGAAGGCAT
*
77692183 TTGTGCGAGATACAAATTCCGAGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
63 TTGTGCGAGATACAAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
*
77692239 TCTGGGCTAAGCCCGAAGGCATTTGTGCGAGTTATTAAATCCGGACTAAGATCCGAAGGCATTTG
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTATTAAATCCGGACTAAGATCCGAAGGCATTTG
77692304 TGCGAGATACAAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
66 TGCGAGATACAAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
**
77692357 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCATTT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTATTAAATCCGGACTAAGAT-CCGAAGGCATTT
* * * *
77692421 GTGCGAGTTA-ATATAACCGGGCTATGTCCCGAAGGCATTTG
65 GTGCGAGATACAAAT-TCCGGGCTAAG-CCCGAAGGCATTTG
77692462 AACGAGGAGC
Statistics
Matches: 204, Mismatches: 13, Indels: 11
0.89 0.06 0.05
Matches are distributed among these distances:
117 13 0.06
118 169 0.83
119 22 0.11
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (118 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTATTAAATCCGGACTAAGATCCGAAGGCATTTG
TGCGAGATACAAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:77692483 original size:79 final size:77
Alignment explanation
Indices: 77692122--77692484 Score: 294
Period size: 79 Copynumber: 4.6 Consensus size: 77
77692112 TGAATGATGT
* ** **
77692122 CCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATTCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAG-GACTAA-ATCCGGGTTAAG-CCCGAAGGCATT
* *
77692184 TGTGCGAGATACA-AATT
62 TGTGCGAGTTA-ATAA-A
* * * * *
77692201 CCGAGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGCCCGAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-GACTAAATCCGGGTTAAGCCCGAAGGCATTTGT
*
77692265 GCGAGTTATTAAA
65 GCGAGTTAATAAA
* * *
77692278 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGCTAAGCCCGAAGGCATT
1 -CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAG-GACTAAA-TCCGGGTTAAGCCCGAAGGCATT
* * *
77692341 TGTGCGAGATACTAATT
62 TGTGCGAGTTAATAA-A
* *
77692358 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-GACTAAATCCGGGTTAAG-CCCGAAGGCATTTG
77692422 TGCGAGTTAATATAA
64 TGCGAGTTAATA-AA
* ** *
77692437 CCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATATCC-GGTTAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGGA-CTAAATCCGGGTTAA
77692485 ATTCCGAAGG
Statistics
Matches: 237, Mismatches: 32, Indels: 30
0.79 0.11 0.10
Matches are distributed among these distances:
78 72 0.30
79 132 0.56
80 33 0.14
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.25
Consensus pattern (77 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGGACTAAATCCGGGTTAAGCCCGAAGGCATTTGTG
CGAGTTAATAAA
Found at i:77700351 original size:27 final size:27
Alignment explanation
Indices: 77700320--77700374 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
77700310 GCATCTGATA
* *
77700320 CTGATTCTG-TATTGGGCTTAGGCCCAC
1 CTGATTCTGTTATTAGG-TAAGGCCCAC
77700347 CTGATTCTGTTATTAGGTAAGGCCCAC
1 CTGATTCTGTTATTAGGTAAGGCCCAC
77700374 C
1 C
77700375 GGATACTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 19 0.76
28 6 0.24
ACGTcount: A:0.18, C:0.25, G:0.24, T:0.33
Consensus pattern (27 bp):
CTGATTCTGTTATTAGGTAAGGCCCAC
Found at i:77702275 original size:27 final size:27
Alignment explanation
Indices: 77702245--77702304 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 27
77702235 ACTTACTAAA
77702245 ATACCCCCAAGTATG-AAAATTACCATT
1 ATACCCCCAAG-ATGCAAAATTACCATT
*
77702272 ATA-CCCCTAGATGCAAAATTACCATT
1 ATACCCCCAAGATGCAAAATTACCATT
77702298 ATACCCC
1 ATACCCC
77702305 TAGGGTTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 3 0.10
26 21 0.70
27 6 0.20
ACGTcount: A:0.38, C:0.30, G:0.07, T:0.25
Consensus pattern (27 bp):
ATACCCCCAAGATGCAAAATTACCATT
Found at i:77702482 original size:28 final size:28
Alignment explanation
Indices: 77702412--77702505 Score: 138
Period size: 27 Copynumber: 3.4 Consensus size: 28
77702402 GAGGAAGCAT
77702412 TCTGGTGGCTCTGCCACAAATATTTG-A
1 TCTGGTGGCTCTGCCACAAATATTTGTA
* * *
77702439 TCTGGTAGCTCAGCCACAAATATTTGTT
1 TCTGGTGGCTCTGCCACAAATATTTGTA
77702467 TCTGGTGGCTCTGCCAC-AATATTTGTA
1 TCTGGTGGCTCTGCCACAAATATTTGTA
*
77702494 TCTGGTGACTCT
1 TCTGGTGGCTCT
77702506 ATCACAATAT
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 44 0.75
28 15 0.25
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.36
Consensus pattern (28 bp):
TCTGGTGGCTCTGCCACAAATATTTGTA
Found at i:77702512 original size:55 final size:54
Alignment explanation
Indices: 77702411--77702520 Score: 145
Period size: 55 Copynumber: 2.0 Consensus size: 54
77702401 GGAGGAAGCA
*
77702411 TTCTGGTGGCTCTGCCACAAATATTTGATCTGGTAGCTCAGCCACAAATATTTGT
1 TTCTGGTGGCTCTGCCACAAATATTTGATCTGGTAGCTCAGCCAC-AATATCTGT
*
77702466 TTCTGGTGGCTCTGCCAC-AATATTTGTATCTGGT-GACTCTA-TCACAATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATTTG-ATCTGGTAG-CTC-AGCCACAATATCTGT
77702520 T
1 T
77702521 CTCGTAGCTA
Statistics
Matches: 50, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
54 18 0.36
55 31 0.62
56 1 0.02
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (54 bp):
TTCTGGTGGCTCTGCCACAAATATTTGATCTGGTAGCTCAGCCACAATATCTGT
Found at i:77710940 original size:30 final size:30
Alignment explanation
Indices: 77710906--77710962 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
77710896 TAGTTAAAAT
77710906 TAAAATAATATAAATAAAGTTAAAATTTAG
1 TAAAATAATATAAATAAAGTTAAAATTTAG
77710936 TAAAATAATATAAATAAAGTTAAAATT
1 TAAAATAATATAAATAAAGTTAAAATT
77710963 CAATTTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.33
Consensus pattern (30 bp):
TAAAATAATATAAATAAAGTTAAAATTTAG
Found at i:77716324 original size:5 final size:5
Alignment explanation
Indices: 77716308--77716337 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
77716298 CTAATTTAAT
77716308 ATAAA ATCAAA ATAAA ATAAA ATAAA ATAA
1 ATAAA AT-AAA ATAAA ATAAA ATAAA ATAA
77716338 GATTTTTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:77721125 original size:18 final size:18
Alignment explanation
Indices: 77721102--77721136 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
77721092 GAGTTAAACG
*
77721102 AATCGAGTTATTTGAGTT
1 AATCGAGTTATTCGAGTT
77721120 AATCGAGTTATTCGAGT
1 AATCGAGTTATTCGAGT
77721137 CAACTCGATT
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:0.29, C:0.09, G:0.23, T:0.40
Consensus pattern (18 bp):
AATCGAGTTATTCGAGTT
Found at i:77721215 original size:9 final size:9
Alignment explanation
Indices: 77721186--77721222 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
77721176 TGAGTTTTTG
77721186 AATTCGAAT
1 AATTCGAAT
*
77721195 AACTCGAAT
1 AATTCGAAT
77721204 AATTCGAAT
1 AATTCGAAT
*
77721213 AATTTGAAT
1 AATTCGAAT
77721222 A
1 A
77721223 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:77721575 original size:17 final size:17
Alignment explanation
Indices: 77721548--77721605 Score: 55
Period size: 17 Copynumber: 3.2 Consensus size: 17
77721538 ACTCCCCTTA
*
77721548 TTTATTTCCCCTCAAACT
1 TTTATTTCCCC-AAAACT
77721566 TTTA-TTCCCCAAAACTT
1 TTTATTTCCCCAAAAC-T
*
77721583 TTTATTTTCCCCCTAAACT
1 TTTA-TTT-CCCCAAAACT
77721602 TTTA
1 TTTA
77721606 CTTCTCACCT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
16 4 0.12
17 11 0.32
18 4 0.12
19 7 0.21
20 8 0.24
ACGTcount: A:0.24, C:0.29, G:0.00, T:0.47
Consensus pattern (17 bp):
TTTATTTCCCCAAAACT
Found at i:77723547 original size:24 final size:24
Alignment explanation
Indices: 77723495--77723547 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
77723485 CATTAGACGT
*
77723495 GAAA-CTGCAAAGGTTGAAAAGCC
1 GAAAGCTGCAAAGGCTGAAAAGCC
77723518 GAAAAGCTG-AAAGGCTGAAAAGCC
1 G-AAAGCTGCAAAGGCTGAAAAGCC
77723542 AGAAAG
1 -GAAAG
77723548 TGGGTTGTCG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
23 1 0.04
24 21 0.81
25 4 0.15
ACGTcount: A:0.47, C:0.15, G:0.28, T:0.09
Consensus pattern (24 bp):
GAAAGCTGCAAAGGCTGAAAAGCC
Found at i:77723952 original size:27 final size:28
Alignment explanation
Indices: 77723922--77723983 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 28
77723912 TATTTACTTG
77723922 AAAATGATC-AAAATACCCCCATAAGGT
1 AAAATGATCTAAAATACCCCCATAAGGT
** *
77723949 AAAATGA-CTGTAATACCCCTATAAGGT
1 AAAATGATCTAAAATACCCCCATAAGGT
*
77723976 AAATTGAT
1 AAAATGAT
77723984 GGTTTTGCCC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 1 0.03
27 28 0.97
ACGTcount: A:0.45, C:0.18, G:0.13, T:0.24
Consensus pattern (28 bp):
AAAATGATCTAAAATACCCCCATAAGGT
Found at i:77724308 original size:27 final size:27
Alignment explanation
Indices: 77723986--77724300 Score: 307
Period size: 27 Copynumber: 11.7 Consensus size: 27
77723976 AAATTGATGG
* * *
77723986 TTTTGCCCTTATGTGGAAAAATGATTG
1 TTTTGCCCTTATGTGGTAAAATGACTA
* * * *
77724013 TTTTGACCTTATATGTTAAAATGACGA
1 TTTTGCCCTTATGTGGTAAAATGACTA
* * *
77724040 TTTTGCCATTATGTGTTAAAATGACAA
1 TTTTGCCCTTATGTGGTAAAATGACTA
* *
77724067 TTTTGCCCTTATAT-GTCAAAATGGCTA
1 TTTTGCCCTTATGTGGT-AAAATGACTA
* *
77724094 TTTTGCCCTTATGT-GTCAAAATGATTG
1 TTTTGCCCTTATGTGGT-AAAATGACTA
*
77724121 TTTTGCCCTTATGTGTTAAAATGA-TGA
1 TTTTGCCCTTATGTGGTAAAATGACT-A
* *
77724148 TTTTGCCCTTGTGTGATAAAATGA-TA
1 TTTTGCCCTTATGTGGTAAAATGACTA
* * * *
77724174 GTTTTGACCTTATGTGGCAAAATGATTG
1 -TTTTGCCCTTATGTGGTAAAATGACTA
* *
77724202 TTTTGCCCTTATGTGTTAAAATGACGA
1 TTTTGCCCTTATGTGGTAAAATGACTA
*
77724229 TTTTTCCCTTATGTGGTAAAATGA-TAA
1 TTTTGCCCTTATGTGGTAAAATGACT-A
* *
77724256 TTTTTCCCTTATGAGGTAAAATGACTA
1 TTTTGCCCTTATGTGGTAAAATGACTA
*
77724283 TTTTGCCATTATGTGGTA
1 TTTTGCCCTTATGTGGTA
77724301 GGATGACTGT
Statistics
Matches: 239, Mismatches: 42, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
26 3 0.01
27 233 0.97
28 3 0.01
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.42
Consensus pattern (27 bp):
TTTTGCCCTTATGTGGTAAAATGACTA
Found at i:77728200 original size:54 final size:54
Alignment explanation
Indices: 77728113--77728377 Score: 259
Period size: 54 Copynumber: 4.9 Consensus size: 54
77728103 CCCCTGTAAT
* * * * *
77728113 ATAAAATGAC-GATATTT-CCCTTACGTGGAAAAATGATTGTTTTGCCATTATGTG
1 ATAAAATGACAG-T-TTTGCCCTTATGTGGTAAAATGACTATTTTGCCCTTATGTG
* * * * * ** *
77728167 TTAAAATGACAATTTTGCCCTTATATGTTAAAATGACAATTTT-ATCTTATATG
1 ATAAAATGACAGTTTTGCCCTTATGTGGTAAAATGACTATTTTGCCCTTATGTG
** * *
77728220 ATAAAATGACAGTTTTGCTTTTATGTGTTAAAATGACGATTTTGCCCTTATGTG
1 ATAAAATGACAGTTTTGCCCTTATGTGGTAAAATGACTATTTTGCCCTTATGTG
* *
77728274 ATAAAATAACAGTTTTGCCCTTATGTGGCAAAATGACTATTTTGCCCTTATGTG
1 ATAAAATGACAGTTTTGCCCTTATGTGGTAAAATGACTATTTTGCCCTTATGTG
* * ** *
77728328 TTAAAACGATGGTTTTGCCCTTATGTGGTAAAATGA-TGATTTTTCCCTTA
1 ATAAAATGACAGTTTTGCCCTTATGTGGTAAAATGACT-ATTTTGCCCTTA
77728378 CGAGGTAAAA
Statistics
Matches: 172, Mismatches: 35, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
53 47 0.27
54 125 0.73
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.40
Consensus pattern (54 bp):
ATAAAATGACAGTTTTGCCCTTATGTGGTAAAATGACTATTTTGCCCTTATGTG
Found at i:77728365 original size:27 final size:27
Alignment explanation
Indices: 77728114--77728408 Score: 225
Period size: 27 Copynumber: 11.0 Consensus size: 27
77728104 CCCTGTAATA
* *
77728114 TAAAATGACGATATTT-CCCTTACGTGG
1 TAAAATGACAAT-TTTGCCCTTATGTGG
* *** * *
77728141 AAAAATGATTGTTTTGCCATTATGTGT
1 TAAAATGACAATTTTGCCCTTATGTGG
* *
77728168 TAAAATGACAATTTTGCCCTTATATGT
1 TAAAATGACAATTTTGCCCTTATGTGG
** * *
77728195 TAAAATGACAATTTT-ATCTTATATGA
1 TAAAATGACAATTTTGCCCTTATGTGG
* ** *
77728221 TAAAATGACAGTTTTGCTTTTATGTGT
1 TAAAATGACAATTTTGCCCTTATGTGG
* *
77728248 TAAAATGACGATTTTGCCCTTATGTGA
1 TAAAATGACAATTTTGCCCTTATGTGG
* *
77728275 TAAAATAACAGTTTTGCCCTTATGTGG
1 TAAAATGACAATTTTGCCCTTATGTGG
* * *
77728302 CAAAATGACTATTTTGCCCTTATGTGT
1 TAAAATGACAATTTTGCCCTTATGTGG
* ***
77728329 TAAAACGATGGTTTTGCCCTTATGTGG
1 TAAAATGACAATTTTGCCCTTATGTGG
** * * *
77728356 TAAAATGATGATTTTTCCCTTACGAGG
1 TAAAATGACAATTTTGCCCTTATGTGG
** * *
77728383 TAAAATGATTATTTTGTCGTTATGTG
1 TAAAATGACAATTTTGCCCTTATGTG
77728409 TAGGATGACT
Statistics
Matches: 214, Mismatches: 52, Indels: 4
0.79 0.19 0.01
Matches are distributed among these distances:
26 25 0.12
27 189 0.88
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.41
Consensus pattern (27 bp):
TAAAATGACAATTTTGCCCTTATGTGG
Found at i:77728376 original size:81 final size:81
Alignment explanation
Indices: 77728113--77728409 Score: 296
Period size: 81 Copynumber: 3.7 Consensus size: 81
77728103 CCCCTGTAAT
* * * * *
77728113 ATAAAATGACGATATTTCCCTTACGTGGAAAAATGATTGTTTTGCCATTATGTGTTAAAATGACA
1 ATAAAATGACGATTTTTCCCTTACGTGGTAAAATGACTATTTTGCCATTATGTGTTAAAATGACG
*
77728178 ATTTTGCCCTTATATG
66 ATTTTGCCCTTATGTG
* * ** * **
77728194 TTAAAATGACAATTTTAT--CTTATATGATAAAATGAC-AGTTTTGCTTTTATGTGTTAAAATGA
1 ATAAAATGACGATTTT-TCCCTTACGTGGTAAAATGACTA-TTTTGCCATTATGTGTTAAAATGA
77728256 CGATTTTGCCCTTATGTG
64 CGATTTTGCCCTTATGTG
* * * * * * *
77728274 ATAAAATAAC-AGTTTTGCCCTTATGTGGCAAAATGACTATTTTGCCCTTATGTGTTAAAACGAT
1 ATAAAATGACGA-TTTTTCCCTTACGTGGTAAAATGACTATTTTGCCATTATGTGTTAAAATGAC
*
77728338 GGTTTTGCCCTTATGTG
65 GATTTTGCCCTTATGTG
* * * * * *
77728355 GTAAAATGATGATTTTTCCCTTACGAGGTAAAATGATTATTTTGTCGTTATGTGT
1 ATAAAATGACGATTTTTCCCTTACGTGGTAAAATGACTATTTTGCCATTATGTGT
77728410 AGGATGACTG
Statistics
Matches: 175, Mismatches: 34, Indels: 14
0.78 0.15 0.06
Matches are distributed among these distances:
79 1 0.01
80 63 0.36
81 108 0.62
82 3 0.02
ACGTcount: A:0.30, C:0.12, G:0.17, T:0.41
Consensus pattern (81 bp):
ATAAAATGACGATTTTTCCCTTACGTGGTAAAATGACTATTTTGCCATTATGTGTTAAAATGACG
ATTTTGCCCTTATGTG
Found at i:77728697 original size:52 final size:52
Alignment explanation
Indices: 77728619--77728721 Score: 161
Period size: 52 Copynumber: 2.0 Consensus size: 52
77728609 TATTACTGGC
* * *
77728619 AGCTCTGCTGCAAATATTGTTTAGTGCTACAACCAGTGCTAATTTTGGAGTA
1 AGCTCTGCTGCAAATACTGTTTAGTGCTACAACCAATGCTAATTCTGGAGTA
* *
77728671 AGCTCTGCTGCGAATACTGTTTAGTGCTGCAACCAATGCTAATTCTGGAGT
1 AGCTCTGCTGCAAATACTGTTTAGTGCTACAACCAATGCTAATTCTGGAGT
77728722 GTAGGGATGA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.33
Consensus pattern (52 bp):
AGCTCTGCTGCAAATACTGTTTAGTGCTACAACCAATGCTAATTCTGGAGTA
Found at i:77728864 original size:18 final size:18
Alignment explanation
Indices: 77728822--77728864 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
77728812 CTGTTACTGC
*
77728822 TACTGCACTGTTTACTAT
1 TACTGTACTGTTTACTAT
*
77728840 TATTGTACTGTTTAC-AGT
1 TACTGTACTGTTTACTA-T
77728858 TACTGTA
1 TACTGTA
77728865 ATTGGCCAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 1 0.05
18 20 0.95
ACGTcount: A:0.23, C:0.16, G:0.14, T:0.47
Consensus pattern (18 bp):
TACTGTACTGTTTACTAT
Found at i:77735039 original size:48 final size:48
Alignment explanation
Indices: 77734939--77735217 Score: 174
Period size: 48 Copynumber: 5.8 Consensus size: 48
77734929 CATCGGTGCT
* ** * * * *
77734939 GATGCCATG-TCCTAAACATGGTCTTACACTAACACATATAACAATGTC
1 GATGCCATGTTCC-AAACATAGTCTTACACTGGCTCACATAACAAGGCC
* * * *** *
77734987 GATGCCATGTTCCGAACATCGTTTTACACTGGCT-AGCATATTGAGGCT
1 GATGCCATGTTCCAAACATAGTCTTACACTGGCTCA-CATAACAAGGCC
* * * * *
77735035 GATGCCATGTCCCAGACATTGTCTTACGCTGGCTCACATAACAATGCC
1 GATGCCATGTTCCAAACATAGTCTTACACTGGCTCACATAACAAGGCC
* * *
77735083 GATGCCATGTTCCAAACATAGTCTTACACTGGCTCACGTACACAGGTGTC
1 GATGCCATGTTCCAAACATAGTCTTACACTGGCTCACATA-ACAAG-GCC
* * *** *
77735133 GATGCCATG-TCCTAGACATGGTCTTACACTGG--CACATATGGAGGTC
1 GATGCCATGTTCC-AAACATAGTCTTACACTGGCTCACATAACAAGGCC
* * * * *
77735179 GATGCCATGCT-CAAAAATGGCCTTACACTGGCTCTCATA
1 GATGCCATGTTCCAAACATAGTCTTACACTGGCTCACATA
77735218 TCGCCATGGT
Statistics
Matches: 179, Mismatches: 43, Indels: 19
0.74 0.18 0.08
Matches are distributed among these distances:
45 16 0.09
46 13 0.07
47 8 0.04
48 104 0.58
49 10 0.06
50 28 0.16
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (48 bp):
GATGCCATGTTCCAAACATAGTCTTACACTGGCTCACATAACAAGGCC
Found at i:77735182 original size:96 final size:95
Alignment explanation
Indices: 77734936--77735212 Score: 272
Period size: 96 Copynumber: 2.9 Consensus size: 95
77734926 ATACATCGGT
* ** *
77734936 GCTGATGCCATGTCCTAAACATGGTCTTACACTAACACATATAACAATGTCGATGCCATGTTCCG
1 GCTGATGCCATGTCCTAGACATGGTCTTACACTGGCACATAT--CAATGTCGATGCCATGTTCCA
* * ***
77735001 AACATCGTTTTACACTGGCT-AGCATATTGAG
64 AACATAGTCTTACACTGGCTCAGCATACACAG
* * * * *
77735032 GCTGATGCCATGTCCCAGACATTGTCTTACGCTGGCTCACATAACAATGCCGATGCCATGTTCCA
1 GCTGATGCCATGTCCTAGACATGGTCTTACACTGG--CACATATCAATGTCGATGCCATGTTCCA
*
77735097 AACATAGTCTTACACTGGCTCA-CGTACACAG
64 AACATAGTCTTACACTGGCTCAGCATACACAG
* ** * *
77735128 GTGTCGATGCCATGTCCTAGACATGGTCTTACACTGGCACATATGGAGGTCGATGCCATGCT-CA
1 G-CT-GATGCCATGTCCTAGACATGGTCTTACACTGGCACATATCAATGTCGATGCCATGTTCCA
* * *
77735192 AAAATGGCCTTACACTGGCTC
64 AACATAGTCTTACACTGGCTC
77735213 TCATATCGCC
Statistics
Matches: 148, Mismatches: 28, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
95 20 0.14
96 91 0.61
97 2 0.01
98 35 0.24
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (95 bp):
GCTGATGCCATGTCCTAGACATGGTCTTACACTGGCACATATCAATGTCGATGCCATGTTCCAAA
CATAGTCTTACACTGGCTCAGCATACACAG
Found at i:77740607 original size:43 final size:42
Alignment explanation
Indices: 77740532--77740619 Score: 106
Period size: 43 Copynumber: 2.1 Consensus size: 42
77740522 GGGATATCGA
* * *
77740532 CATCATATTTGATTTCATGTAAGACATTGTCTGGGGCAGTGG
1 CATCATATTTGATTACATGTAAGACATCGTCTGGGACAGTGG
* *
77740574 CATCGATATTTGGTTACATGTAAGACCA-CGTCTGGGACATTGG
1 CATC-ATATTTGATTACATGTAAGA-CATCGTCTGGGACAGTGG
77740617 CAT
1 CAT
77740620 TGTACTATCT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
42 4 0.10
43 33 0.85
44 2 0.05
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (42 bp):
CATCATATTTGATTACATGTAAGACATCGTCTGGGACAGTGG
Found at i:77740837 original size:21 final size:21
Alignment explanation
Indices: 77740811--77740851 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
77740801 AAAATATGCT
77740811 ATATGTACAAATGAAT-TGAGG
1 ATATGT-CAAATGAATATGAGG
*
77740832 ATATGTGAAATGAATATGAG
1 ATATGTCAAATGAATATGAG
77740852 CTATATGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.44, C:0.02, G:0.24, T:0.29
Consensus pattern (21 bp):
ATATGTCAAATGAATATGAGG
Found at i:77744648 original size:36 final size:34
Alignment explanation
Indices: 77744597--77744722 Score: 130
Period size: 36 Copynumber: 3.6 Consensus size: 34
77744587 GTCAGATCAA
* *
77744597 CCAAA-ACACTAGATGCTCACACAAGACAATCCCT
1 CCAAACACACCAGATGCTCACACGAG-CAATCCCT
* *
77744631 CCGAAACACACCAGATGCTCACATGAGCCAGTCCCT
1 CC-AAACACACCAGATGCTCACACGAG-CAATCCCT
*
77744667 CCAAAACACAGCAGATGCTCACACGAGCTAATCCCT
1 CC-AAACACACCAGATGCTCACACGAGC-AATCCCT
*
77744703 CCATAACACATC-GATGCTCA
1 CCA-AACACACCAGATGCTCA
77744723 TAAGAGCTAC
Statistics
Matches: 78, Mismatches: 10, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
34 2 0.03
35 13 0.17
36 63 0.81
ACGTcount: A:0.36, C:0.37, G:0.13, T:0.15
Consensus pattern (34 bp):
CCAAACACACCAGATGCTCACACGAGCAATCCCT
Found at i:77751990 original size:49 final size:50
Alignment explanation
Indices: 77751912--77752144 Score: 299
Period size: 49 Copynumber: 4.7 Consensus size: 50
77751902 ATCTATTTTA
*
77751912 AGGTCACATGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
** * * *
77751962 -GGTTGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT
* * * * * * **
77752012 CGATTACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
*
77752062 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
*
77752112 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
77752145 TGCGTACCAG
Statistics
Matches: 157, Mismatches: 24, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
49 72 0.46
50 47 0.30
51 38 0.24
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:77752048 original size:28 final size:28
Alignment explanation
Indices: 77752016--77752100 Score: 85
Period size: 28 Copynumber: 3.2 Consensus size: 28
77752006 TAACTTCGAT
77752016 TACGTGTGTAGTACTAAGTGCAGGCTAC
1 TACGTGTGTAGTACTAAGTGCAGGCTAC
* * *
77752044 TACGTGTATCAG-A-T-GGT-TAGG-T-C
1 TACGTGTGT-AGTACTAAGTGCAGGCTAC
77752067 -ACGTGTGTAGTACTAAGTGCAGGCTAC
1 TACGTGTGTAGTACTAAGTGCAGGCTAC
77752094 TACGTGT
1 TACGTGT
77752101 ACCGGATAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 15 0.35
29 2 0.05
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (28 bp):
TACGTGTGTAGTACTAAGTGCAGGCTAC
Found at i:77752103 original size:101 final size:98
Alignment explanation
Indices: 77751915--77752157 Score: 306
Period size: 100 Copynumber: 2.4 Consensus size: 98
77751905 TATTTTAAGG
* * **
77751915 TCACATGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATTGGTTGCATGTGTAGTACT
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACT
*
77751980 AAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
66 AAGTGCAGGCTACTACGCGTACCCGATAA-TT-GA
* * * ** *
77752015 TTACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACATGTGTAGTAC
* * *
77752080 TAAGTGCAGGCTACTACGTGTACCGGATAATTGG
65 TAAGTGCAGGCTACTACGCGTACCCGATAATTGA
* * *
77752114 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
77752158 GCTTTGGCTA
Statistics
Matches: 121, Mismatches: 21, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
99 38 0.31
100 42 0.35
101 41 0.34
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.30
Consensus pattern (98 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACT
AAGTGCAGGCTACTACGCGTACCCGATAATTGA
Found at i:77752865 original size:50 final size:50
Alignment explanation
Indices: 77752790--77753176 Score: 350
Period size: 50 Copynumber: 7.7 Consensus size: 50
77752780 ACCGAAGCTC
*
77752790 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
* * * * * *
77752840 TCTGGTACACATAGTAGCCTACACTTAGTACTACACACGTGACTTAACCA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
* * * ** *
77752890 TCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGTGATCGAAGTTAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-CCTA-TCAA
* * * * *
77752942 -CGGGT-CGCATAGTAGCCTACACTCAGTACTACACATGCGGCCTATCAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
* * * * * * *
77752990 TCTGGTACACGTAGTAGCCTGCACTTAGTACTATACACGGGACTTAACCA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
* * * ** *
77753040 TCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGTGATCGAAGTTAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-CCTA-TCAA
* * * *
77753092 T-GGGTACGCATAGTAGTCTGCACTTAGTACTACACATGCGACCTATTAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
** * * *
77753141 TCCAGTACACGTAATAG-CTACACTTAGTACTACACA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
77753177 CTTGACTCAC
Statistics
Matches: 268, Mismatches: 62, Indels: 15
0.78 0.18 0.04
Matches are distributed among these distances:
48 3 0.01
49 29 0.11
50 192 0.72
51 41 0.15
52 3 0.01
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (50 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
Found at i:77753068 original size:150 final size:151
Alignment explanation
Indices: 77752793--77753177 Score: 639
Period size: 150 Copynumber: 2.6 Consensus size: 151
77752783 GAAGCTCTCT
*
77752793 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACATAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
*
77752858 CTACACTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
66 CTACACTTAGTACTACACACGGGACTTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
77752923 CACATGTGATCGAAGTTAACG
131 CACATGTGATCGAAGTTAACG
* * *
77752944 GGT-CGCATAGTAGCCTACACTCAGTACTACACATGCGGCCTATCAATCTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
* *
77753008 CTGCACTTAGTACTATACACGGGACTTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
66 CTACACTTAGTACTACACACGGGACTTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
*
77753073 CACATGTGATCGAAGTTAATG
131 CACATGTGATCGAAGTTAACG
* * ** *
77753094 GGTACGCATAGTAGTCTGCACTTAGTACTACACATGCGACCTATTAATCCAGTACACGTAATAG-
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
77753158 CTACACTTAGTACTACACAC
66 CTACACTTAGTACTACACAC
77753178 TTGACTCACA
Statistics
Matches: 215, Mismatches: 18, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
150 160 0.74
151 55 0.26
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (151 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
CTACACTTAGTACTACACACGGGACTTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
CACATGTGATCGAAGTTAACG
Found at i:77756471 original size:56 final size:56
Alignment explanation
Indices: 77756399--77756504 Score: 203
Period size: 56 Copynumber: 1.9 Consensus size: 56
77756389 CGTACCTCCA
77756399 ATTTCGAAATTCTTAAAGATTTTGATGGCTACCATTGTTGAGATTATGTGCCTCTG
1 ATTTCGAAATTCTTAAAGATTTTGATGGCTACCATTGTTGAGATTATGTGCCTCTG
*
77756455 ATTTTGAAATTCTTAAAGATTTTGATGGCTACCATTGTTGAGATTATGTG
1 ATTTCGAAATTCTTAAAGATTTTGATGGCTACCATTGTTGAGATTATGTG
77756505 TTCTTTGATG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 49 1.00
ACGTcount: A:0.26, C:0.11, G:0.20, T:0.42
Consensus pattern (56 bp):
ATTTCGAAATTCTTAAAGATTTTGATGGCTACCATTGTTGAGATTATGTGCCTCTG
Found at i:77757242 original size:43 final size:43
Alignment explanation
Indices: 77757153--77757315 Score: 145
Period size: 43 Copynumber: 3.8 Consensus size: 43
77757143 GTTGAGATGA
* * * * * *
77757153 GATTACATGTCAGACCATGTCTGAGACATTGTCATTGTATTGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTACTAT
* *
77757196 GATTACGTGTAAGACCATGTCTGGGACATCGGCATCGTTA-TAT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCG-TACTAT
* * *
77757239 GATTTC-TGGTAAGACCATGTCTGGAACATTGGCATCGATACGA-
1 GATTACAT-GTAAGACCATGTCTGGGACATTGGCATCG-TACTAT
* * *
77757282 GATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCAT
77757316 TGTATGAGCT
Statistics
Matches: 99, Mismatches: 17, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
42 7 0.07
43 88 0.89
44 4 0.04
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTACTAT
Found at i:77761181 original size:40 final size:40
Alignment explanation
Indices: 77761122--77761389 Score: 473
Period size: 40 Copynumber: 6.7 Consensus size: 40
77761112 GAGCATTGGA
*
77761122 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
77761162 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
77761202 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
77761242 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
77761282 ATATATCCGGGCTAAAACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
77761322 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
77761362 ATATGTTCGGGCTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
77761390 ATGTGTTTGC
Statistics
Matches: 219, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 219 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:77763792 original size:10 final size:10
Alignment explanation
Indices: 77763777--77763803 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
77763767 GTACCCAAGA
77763777 CTTCTTCCAG
1 CTTCTTCCAG
77763787 CTTCTTCCAG
1 CTTCTTCCAG
77763797 CTTCTTC
1 CTTCTTC
77763804 TAAAATCTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.07, C:0.41, G:0.07, T:0.44
Consensus pattern (10 bp):
CTTCTTCCAG
Found at i:77782123 original size:40 final size:40
Alignment explanation
Indices: 77782063--77782286 Score: 306
Period size: 40 Copynumber: 5.6 Consensus size: 40
77782053 TATTCGAATG
* *
77782063 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTAACT
* * * **
77782103 ATATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTAACT
* * *
77782143 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCAACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTAACT
*
77782183 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTAACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTAACT
* *
77782223 ATATCCGGGCTATGTCCCGAAGGCATTTATGCTAGTAACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTAACT
*
77782263 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
77782287 CTCGTGCGAG
Statistics
Matches: 163, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
40 162 0.99
41 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTAACT
Found at i:77782276 original size:120 final size:120
Alignment explanation
Indices: 77782063--77782286 Score: 342
Period size: 120 Copynumber: 1.9 Consensus size: 120
77782053 TATTCGAATG
* * *
77782063 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGATCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTAACCATATCCGGACTAAGATCCGAAGGCA
* ** *
77782128 TTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCAACT
66 TTTATGCGAGTAACCATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCAACT
* *
77782183 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTAACCATATCCGGGCTATG-TCCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTAACCATATCCGGACTAAGAT-CCGAAGGC
*
77782247 ATTTATGCTAGTAACCATATCCGGGCTAAGACCCGAAGGC
65 ATTTATGCGAGTAACCATATCCGGGCTAAGACCCGAAGGC
77782287 CTCGTGCGAG
Statistics
Matches: 93, Mismatches: 10, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
119 1 0.01
120 92 0.99
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.25
Consensus pattern (120 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTAACCATATCCGGACTAAGATCCGAAGGCA
TTTATGCGAGTAACCATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCAACT
Found at i:77793120 original size:38 final size:38
Alignment explanation
Indices: 77793006--77793235 Score: 298
Period size: 38 Copynumber: 6.0 Consensus size: 38
77792996 GAATCCAGTC
* * * * *
77793006 ACCAACACAAAGCTTGCGGGACTTTAAGCTCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGA-TTTAA-CCCGGATATATT
* *
77793046 ACCAGCACTAAGCCTGCGGGACTTTAACCCGAATATATT
1 ACCAGCACGAAGCCTGCGGGA-TTTAACCCGGATATATT
* *
77793085 ACCAGCACGAAGCCTGTGGGATTTAACCTGGATATATT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
* * *
77793123 ACCAGCACGAAGCCTACGAGACTTAACCCGGATATATT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
* *
77793161 ACCAGCACGAAGCCTGCGAGACTTAACCCGGATATATT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
*
77793199 ACCAGCACGAAGCCTACGGGATTTAACCCGGATATAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAT
77793236 ATCGAGTGCT
Statistics
Matches: 171, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
38 119 0.70
39 28 0.16
40 24 0.14
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.21
Consensus pattern (38 bp):
ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
Found at i:77813145 original size:19 final size:19
Alignment explanation
Indices: 77813117--77813155 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
77813107 AGAGCGAAAG
77813117 AAACGAG-AAACGGGCCAA
1 AAACGAGAAAACGGGCCAA
*
77813135 AAACAGAGAAAATGGGCCAA
1 AAAC-GAGAAAACGGGCCAA
77813155 A
1 A
77813156 GTATGAACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 3 0.17
20 11 0.61
ACGTcount: A:0.54, C:0.18, G:0.26, T:0.03
Consensus pattern (19 bp):
AAACGAGAAAACGGGCCAA
Found at i:77817140 original size:137 final size:137
Alignment explanation
Indices: 77816892--77817167 Score: 489
Period size: 137 Copynumber: 2.0 Consensus size: 137
77816882 AATTTAGGAT
*
77816892 ATTGGTTTGCACAAAACATTCATTCTGTTTTGCGATGTAATCGTCCACTAATACTTGGCCATATA
1 ATTGGTTTGCACAAAACATTCATTCTGTTTTGCGAGGTAATCGTCCACTAATACTTGGCCATATA
*
77816957 TTACAAATTTAACCTCTCAACTTTTTCCCTCTGAAGTCGATATCTCGTCCTTAACATGTGCATAT
66 TTACAAATTTAACCTCTCAACTTTTTCCCTCTGAAGTCGATATCTCGTCCTTAACATGTACATAT
77817022 ACTATGG
131 ACTATGG
* * *
77817029 ATTGGTTTGCACGAAACATTCATTCTGTTTTGTGAGGTAATCGTTCACTAATACTTGGCCATATA
1 ATTGGTTTGCACAAAACATTCATTCTGTTTTGCGAGGTAATCGTCCACTAATACTTGGCCATATA
* *
77817094 TTACAAATTTAACCTCTTAACTTTTTCCCTCTGAAGTCGATTTCTCGTCCTTAACATGTACATAT
66 TTACAAATTTAACCTCTCAACTTTTTCCCTCTGAAGTCGATATCTCGTCCTTAACATGTACATAT
77817159 ACTATGG
131 ACTATGG
77817166 AT
1 AT
77817168 AGCCTAGGTA
Statistics
Matches: 132, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
137 132 1.00
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.38
Consensus pattern (137 bp):
ATTGGTTTGCACAAAACATTCATTCTGTTTTGCGAGGTAATCGTCCACTAATACTTGGCCATATA
TTACAAATTTAACCTCTCAACTTTTTCCCTCTGAAGTCGATATCTCGTCCTTAACATGTACATAT
ACTATGG
Found at i:77817826 original size:8 final size:8
Alignment explanation
Indices: 77817813--77817850 Score: 58
Period size: 8 Copynumber: 4.6 Consensus size: 8
77817803 ATATTTGCTT
*
77817813 ATAAATAA
1 ATAAATTA
77817821 ATAAATTA
1 ATAAATTA
77817829 ATAAAATTA
1 AT-AAATTA
77817838 ATAAATTA
1 ATAAATTA
77817846 ATAAA
1 ATAAA
77817851 GGCTCAAGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
8 20 0.71
9 8 0.29
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (8 bp):
ATAAATTA
Found at i:77817840 original size:17 final size:17
Alignment explanation
Indices: 77817815--77817850 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
77817805 ATTTGCTTAT
77817815 AAATAAATAAATTAATA
1 AAATAAATAAATTAATA
*
77817832 AAATTAATAAATTAATA
1 AAATAAATAAATTAATA
77817849 AA
1 AA
77817851 GGCTCAAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
AAATAAATAAATTAATA
Found at i:77824819 original size:39 final size:39
Alignment explanation
Indices: 77824776--77824911 Score: 166
Period size: 39 Copynumber: 3.5 Consensus size: 39
77824766 ACTAGCTCAA
* * * * *
77824776 AGCCTGCGGGA-CTTTAGCCCGGACATATTTCCAGCACGT
1 AGCCTGC-GGACCTTAAGTCCGGATATAATTCCAGCACAT
* *
77824815 AGCCTGCGGACCTTAAGTCAGGTTATAATTCCAGCACAT
1 AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAT
*
77824854 AGCCTGCGGACCCTAAGTCCGGATATAATTCCAGCACAT
1 AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAT
* *
77824893 AGCCTGCGAACCCTAAGTC
1 AGCCTGCGGACCTTAAGTC
77824912 TGGGTAAACA
Statistics
Matches: 85, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
38 3 0.04
39 82 0.96
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.22
Consensus pattern (39 bp):
AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAT
Found at i:77850448 original size:3 final size:3
Alignment explanation
Indices: 77850440--77850469 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
77850430 TAGTTAAATT
77850440 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
77850470 GTTAGCACAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:77851060 original size:120 final size:121
Alignment explanation
Indices: 77850914--77851152 Score: 417
Period size: 121 Copynumber: 2.0 Consensus size: 121
77850904 GAGATTAAAA
*
77850914 TTAGTCTCAGTTTAAGGACTAAATTGAAGATTAAGCAAAGTATGGT-AAAAAATTGAAATTTAAT
1 TTAGTCTCAGTTTAAGGACTAAATTGAAGATTAAGCAAAATATGGTAAAAAAATTGAAATTTAAT
*
77850978 AAAAACTGAGTTATGTATTATTAATCTATTTTAATTATTTTATTCCATAACAAACG
66 AAAAACTAAGTTATGTATTATTAATCTATTTTAATTATTTTATTCCATAACAAACG
* *
77851034 TTAGTCTCAGTTTAGGGACTAAATTGAAGATTAAGTAAAATATGGTAAAAAAATTGAAATTTAAT
1 TTAGTCTCAGTTTAAGGACTAAATTGAAGATTAAGCAAAATATGGTAAAAAAATTGAAATTTAAT
* *
77851099 AAAAATTAAGTTATGTATTATTAATCTATTTTAATTATTTTATTCCATAGCAAA
66 AAAAACTAAGTTATGTATTATTAATCTATTTTAATTATTTTATTCCATAACAAA
77851153 GGTCGTTCTG
Statistics
Matches: 112, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
120 43 0.38
121 69 0.62
ACGTcount: A:0.42, C:0.07, G:0.12, T:0.38
Consensus pattern (121 bp):
TTAGTCTCAGTTTAAGGACTAAATTGAAGATTAAGCAAAATATGGTAAAAAAATTGAAATTTAAT
AAAAACTAAGTTATGTATTATTAATCTATTTTAATTATTTTATTCCATAACAAACG
Found at i:77858964 original size:13 final size:13
Alignment explanation
Indices: 77858946--77858970 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
77858936 AATCACAAAT
77858946 AAATACACATATC
1 AAATACACATATC
77858959 AAATACACATAT
1 AAATACACATAT
77858971 TTTTTTTTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.20, G:0.00, T:0.24
Consensus pattern (13 bp):
AAATACACATATC
Found at i:77867879 original size:9 final size:9
Alignment explanation
Indices: 77867829--77867877 Score: 62
Period size: 9 Copynumber: 5.4 Consensus size: 9
77867819 TTTGTTAAAC
77867829 ATTAACCGA
1 ATTAACCGA
*
77867838 ATTAACCAA
1 ATTAACCGA
* *
77867847 ATTACCCAA
1 ATTAACCGA
77867856 ATTAACCGA
1 ATTAACCGA
*
77867865 ATTACCCGA
1 ATTAACCGA
77867874 ATTA
1 ATTA
77867878 CCTGAATTGA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.45, C:0.24, G:0.06, T:0.24
Consensus pattern (9 bp):
ATTAACCGA
Found at i:77867884 original size:9 final size:9
Alignment explanation
Indices: 77867829--77867885 Score: 60
Period size: 9 Copynumber: 6.3 Consensus size: 9
77867819 TTTGTTAAAC
*
77867829 ATTAACCGA
1 ATTACCCGA
* *
77867838 ATTAACCAA
1 ATTACCCGA
*
77867847 ATTACCCAA
1 ATTACCCGA
*
77867856 ATTAACCGA
1 ATTACCCGA
77867865 ATTACCCGA
1 ATTACCCGA
*
77867874 ATTACCTGA
1 ATTACCCGA
77867883 ATT
1 ATT
77867886 GAATCACTAC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 42 1.00
ACGTcount: A:0.42, C:0.25, G:0.07, T:0.26
Consensus pattern (9 bp):
ATTACCCGA
Found at i:77867915 original size:17 final size:17
Alignment explanation
Indices: 77867893--77867953 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
77867883 ATTGAATCAC
77867893 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
* * *
77867910 TACATAAGTCTTTAAACCAC
1 TACATAA---TTAAAAACAT
*
77867930 TACATAATTAAAAATAT
1 TACATAATTAAAAACAT
77867947 TACATAA
1 TACATAA
77867954 GTCTTTGAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
17 20 0.59
20 14 0.41
ACGTcount: A:0.52, C:0.15, G:0.02, T:0.31
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:77868048 original size:74 final size:74
Alignment explanation
Indices: 77867884--77868049 Score: 228
Period size: 74 Copynumber: 2.2 Consensus size: 74
77867874 ATTACCTGAA
* * *
77867884 TTGAATCACTACATAATTAAAAACATTACATAAGTCTTTAAACCACTACATAATTAAAAATATTA
1 TTGAATAACTACATAATTAAAAACATTACACAAGTCTTTAAACCACTACATAATTAAAAACATTA
*
77867949 CATAAGTCT
66 CACAAGTCT
* * * *
77867958 TTGAATCACTATATAATTAAAAACATTACACAAGTCTTTGAATCACTACATAATTAAAAACATTA
1 TTGAATAACTACATAATTAAAAACATTACACAAGTCTTTAAACCACTACATAATTAAAAACATTA
77868023 CACAAGTC-
66 CACAAGTCT
77868031 TTGAAATTAAC-ACATAATT
1 TTG-AA-TAACTACATAATT
77868050 GAAATGTAAG
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
73 3 0.04
74 76 0.93
75 3 0.04
ACGTcount: A:0.47, C:0.16, G:0.05, T:0.32
Consensus pattern (74 bp):
TTGAATAACTACATAATTAAAAACATTACACAAGTCTTTAAACCACTACATAATTAAAAACATTA
CACAAGTCT
Found at i:77868049 original size:37 final size:37
Alignment explanation
Indices: 77867884--77868032 Score: 244
Period size: 37 Copynumber: 4.0 Consensus size: 37
77867874 ATTACCTGAA
*
77867884 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACACAAGTCT
* * * *
77867921 TTAAACCACTACATAATTAAAAATATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACACAAGTCT
*
77867958 TTGAATCACTATATAATTAAAAACATTACACAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACACAAGTCT
77867995 TTGAATCACTACATAATTAAAAACATTACACAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACACAAGTCT
77868032 T
1 T
77868033 GAAATTAACA
Statistics
Matches: 103, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 103 1.00
ACGTcount: A:0.46, C:0.17, G:0.05, T:0.32
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAACATTACACAAGTCT
Found at i:77872098 original size:27 final size:26
Alignment explanation
Indices: 77872037--77872147 Score: 123
Period size: 27 Copynumber: 4.1 Consensus size: 26
77872027 AGGAAGCGTC
* *
77872037 CTGGTGGCTATGCCACAAATTATCTGAT
1 CTGGTGGCTCTGCCAC--ATTATCTGTT
*
77872065 CTAGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
*
77872092 CTGGTGGCTCTGCCACGATTATTTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
77872120 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
77872146 CT
1 CT
77872148 AGCAGCCATG
Statistics
Matches: 72, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
26 5 0.07
27 36 0.50
28 31 0.43
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:77872131 original size:55 final size:54
Alignment explanation
Indices: 77872037--77872147 Score: 143
Period size: 55 Copynumber: 2.0 Consensus size: 54
77872027 AGGAAGCGTC
*
77872037 CTGGTGGCTATGCCACAAATTATCTGATCTAGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATTATCTGATCTAGTGACTCTGCCACAT-TATCTGTT
* * * * *
77872092 CTGGTGGCTCTGCCAC-GATTATTTGTATCTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTATGCCACAAATTATCTG-ATCTAGTGACTCTGCCACATTATCTGTT
77872146 CT
1 CT
77872148 AGCAGCCATG
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
54 17 0.35
55 32 0.65
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATTATCTGATCTAGTGACTCTGCCACATTATCTGTT
Found at i:77875851 original size:47 final size:47
Alignment explanation
Indices: 77875777--77875881 Score: 201
Period size: 47 Copynumber: 2.2 Consensus size: 47
77875767 GTGCTACAAG
*
77875777 TGTTAAGGGAGAAAGAACTTTATGCGAAGTTCAGCAAGTGTGAATTT
1 TGTTGAGGGAGAAAGAACTTTATGCGAAGTTCAGCAAGTGTGAATTT
77875824 TGTTGAGGGAGAAAGAACTTTATGCGAAGTTCAGCAAGTGTGAATTT
1 TGTTGAGGGAGAAAGAACTTTATGCGAAGTTCAGCAAGTGTGAATTT
77875871 TGTTGAGGGAG
1 TGTTGAGGGAG
77875882 GTAACTTTCT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 57 1.00
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.30
Consensus pattern (47 bp):
TGTTGAGGGAGAAAGAACTTTATGCGAAGTTCAGCAAGTGTGAATTT
Found at i:77881459 original size:29 final size:29
Alignment explanation
Indices: 77881396--77881463 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
77881386 TAATCAACCG
77881396 CGCACACTTAGTACCATGCACTTTAAACT
1 CGCACACTTAGTACCATGCACTTTAAACT
* * **
77881425 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTACCATGCACTTT-AAACT
77881454 CGCACACTTA
1 CGCACACTTA
77881464 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.29, C:0.31, G:0.12, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTACCATGCACTTTAAACT
Found at i:77881576 original size:174 final size:174
Alignment explanation
Indices: 77881285--77881612 Score: 593
Period size: 174 Copynumber: 1.9 Consensus size: 174
77881275 AACTCAAGGT
* *
77881285 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
77881350 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTACCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTACCATGC
77881415 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
77881459 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
77881524 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTACCATGC
*
77881589 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
77881613 TGTACAATTT
Statistics
Matches: 147, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 147 1.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTACCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:77881604 original size:29 final size:30
Alignment explanation
Indices: 77881565--77881643 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
77881555 CTTAATAATC
77881565 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
77881595 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
77881624 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
77881644 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:77901214 original size:29 final size:29
Alignment explanation
Indices: 77901151--77901218 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
77901141 TAATCAACCG
77901151 CGCACACTTAGTACCATGCACTTTAAACT
1 CGCACACTTAGTACCATGCACTTTAAACT
* * **
77901180 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTACCATGCACTTT-AAACT
77901209 CGCACACTTA
1 CGCACACTTA
77901219 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.29, C:0.31, G:0.12, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTACCATGCACTTTAAACT
Found at i:77901331 original size:173 final size:174
Alignment explanation
Indices: 77901040--77901366 Score: 584
Period size: 173 Copynumber: 1.9 Consensus size: 174
77901030 AACTCAAGGT
* *
77901040 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
77901105 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTACCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTACCATGC
77901170 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
77901214 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAA-TTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
77901278 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTACCATGC
*
77901343 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
77901367 TGTACAATTT
Statistics
Matches: 146, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
173 90 0.62
174 56 0.38
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTACCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:77901358 original size:29 final size:30
Alignment explanation
Indices: 77901319--77901397 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
77901309 CTTAATAATC
77901319 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
77901349 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
77901378 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
77901398 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:77909352 original size:29 final size:29
Alignment explanation
Indices: 77909289--77909356 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
77909279 TAATCAACCG
77909289 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
77909318 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
77909347 CGCACACTTA
1 CGCACACTTA
77909357 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:77909469 original size:174 final size:174
Alignment explanation
Indices: 77909178--77909505 Score: 602
Period size: 174 Copynumber: 1.9 Consensus size: 174
77909168 AACTCAAGGT
* *
77909178 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
77909243 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
77909308 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
77909352 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
77909417 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
77909482 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
77909506 TGTACAATTT
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 148 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:77909497 original size:29 final size:30
Alignment explanation
Indices: 77909458--77909536 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
77909448 CTTAATAATC
77909458 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
77909488 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
77909517 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
77909537 ATCTCATGAT
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:77911201 original size:26 final size:27
Alignment explanation
Indices: 77911144--77911256 Score: 124
Period size: 28 Copynumber: 4.1 Consensus size: 27
77911134 AGGAAGCGTC
* *
77911144 CTGGTGGCTATGCCACAAATTTATCTGAT
1 CTGGTGGCTCTGCCAC-AA-TTATCTGTT
77911173 CTGGTGGCT-TGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGTT
*
77911199 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTGT-T
* *
77911227 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGTT
77911253 CTGG
1 CTGG
77911257 CAACCATGTT
Statistics
Matches: 77, Mismatches: 3, Indels: 11
0.85 0.03 0.12
Matches are distributed among these distances:
25 1 0.01
26 22 0.29
27 22 0.29
28 23 0.30
29 9 0.12
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGTT
Found at i:77911253 original size:54 final size:55
Alignment explanation
Indices: 77911144--77911256 Score: 151
Period size: 54 Copynumber: 2.1 Consensus size: 55
77911134 AGGAAGCGTC
*
77911144 CTGGTGGCTATGCCACAAATTTATCTGATCTGGTGGCTTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATTTATCTGATCTGGTGACTTGCCACATATATCTGTT
* * *
77911199 CTGGTGGCTCTGCCAC-GA-TTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAAATTTATCTG-ATCTGGTGACT-TGCCACATATATCTGTT
77911253 CTGG
1 CTGG
77911257 CAACCATGTT
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
53 7 0.13
54 23 0.44
55 22 0.42
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (55 bp):
CTGGTGGCTATGCCACAAATTTATCTGATCTGGTGACTTGCCACATATATCTGTT
Found at i:77914475 original size:13 final size:13
Alignment explanation
Indices: 77914457--77914482 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
77914447 TATCTTTATT
77914457 ATATAATAATATA
1 ATATAATAATATA
77914470 ATATAATAATATA
1 ATATAATAATATA
77914483 TTAAACATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
ATATAATAATATA
Found at i:77917419 original size:50 final size:50
Alignment explanation
Indices: 77917365--77917480 Score: 117
Period size: 50 Copynumber: 2.3 Consensus size: 50
77917355 TTTCAAAATC
* *
77917365 TTATTTATTTAATTGTT-CTCAACTCTGATATTTTAAATAAATACAAATAT
1 TTATTTATTTAATT-TTACTCAAATATGATATTTTAAATAAATACAAATAT
* * * * * * *
77917415 TTATTTAATTCATTTTATTTAAATATGATGTTTTACATAAATATAAATAT
1 TTATTTATTTAATTTTACTCAAATATGATATTTTAAATAAATACAAATAT
*
77917465 TTGTTTATATTAATTT
1 TTATTTAT-TTAATTT
77917481 ATTTTATTTA
Statistics
Matches: 52, Mismatches: 12, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
49 2 0.04
50 44 0.85
51 6 0.12
ACGTcount: A:0.37, C:0.06, G:0.04, T:0.53
Consensus pattern (50 bp):
TTATTTATTTAATTTTACTCAAATATGATATTTTAAATAAATACAAATAT
Found at i:77917482 original size:50 final size:50
Alignment explanation
Indices: 77917390--77917484 Score: 129
Period size: 50 Copynumber: 1.9 Consensus size: 50
77917380 TTCTCAACTC
*
77917390 TGATATTTTAAATAAATACAAATATTTATTTAATTCATTTTATTTAAATA
1 TGATATTTTAAATAAATACAAATATTTATTTAATTCAATTTATTTAAATA
* * * *
77917440 TGATGTTTTACATAAATATAAATATTTGTTTATATT-AATTTATTT
1 TGATATTTTAAATAAATACAAATATTTATTTA-ATTCAATTTATTT
77917485 TATTTATTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
50 36 0.92
51 3 0.08
ACGTcount: A:0.40, C:0.03, G:0.04, T:0.53
Consensus pattern (50 bp):
TGATATTTTAAATAAATACAAATATTTATTTAATTCAATTTATTTAAATA
Found at i:77917769 original size:81 final size:80
Alignment explanation
Indices: 77917684--77918227 Score: 496
Period size: 82 Copynumber: 6.8 Consensus size: 80
77917674 CGTTCAACAA
* * * * * *
77917684 ATTTTATTCTTTTTTATTTTGTTTCCAAACAAGAATTAATTGAATAATTCTATTTCGAGATTTAT
1 ATTTTATTCATTTTGATTTTGTTTCCAAACAAGATTTAATTAAATAATTCTGTTTCGGGATTTAT
*
77917749 TGCCGACATTTAATAT
66 T-CCGACATTTAATAG
* * * * * * *
77917765 ATTTTATTCTTTTTTATTTTGTTTCTAAAAAAGAATTAATTGAATAATTCTGTCTCGGGATTTAT
1 ATTTTATTCATTTTGATTTTGTTTCCAAACAAGATTTAATTAAATAATTCTGTTTCGGGATTTAT
* * *
77917830 TCCGGCCATATAACAG
66 TCC-GACATTTAATAG
* ***
77917846 ATTTTATTCGATTTTGATTTTGTTTCCAAACAAGATTTAATTAAATAATTTTGTTTCAACATTTA
1 ATTTTATTC-ATTTTGATTTTGTTTCCAAACAAGATTTAATTAAATAATTCTGTTTCGGGATTTA
* *
77917911 TTCCCACCATTTAATTG
65 TTCCGA-CATTTAATAG
* *
77917928 ATTTTATTCGATTTTAATTTTGTTTCCAAACTAAGATTTAATTAAATAATTCTGTTTCGCGATTT
1 ATTTTATTC-ATTTTGATTTTGTTTCCAAAC-AAGATTTAATTAAATAATTCTGTTTCGGGATTT
***
77917993 ATTCTCGTTGTTT-ATCAG
64 ATTC-CGACATTTAAT-AG
* * * * *
77918011 A---T-TTGATTTTGATTTTATTTTCAAACAATATTTAATTAAATAATTCTATTTCGGGATTTAT
1 ATTTTATTCATTTTGATTTTGTTTCCAAACAAGATTTAATTAAATAATTCTGTTTCGGGATTTAT
* *
77918072 TCCCG-CAGTT-A-AC
66 T-CCGACATTTAATAG
* * * * *
77918085 ATATT-TT-ATTTTGATTTTATTTCCAAGCAAGATTTAATCAAATAAATTTTGTTTCGGGATTTA
1 ATTTTATTCATTTTGATTTTGTTTCCAAACAAGATTTAATTAAAT-AATTCTGTTTCGGGATTTA
**
77918148 TTCCCTCCATTTAATAG
65 TT-CCGACATTTAATAG
** * *
77918165 ATTTTATTCGATTTCAATTTTGTTTCCAAACAAGATTTAATTAAATAATTTTGTTTCAGGATT
1 ATTTTATTC-ATTTTGATTTTGTTTCCAAACAAGATTTAATTAAATAATTCTGTTTCGGGATT
77918228 CAATCCAACA
Statistics
Matches: 384, Mismatches: 62, Indels: 33
0.80 0.13 0.07
Matches are distributed among these distances:
74 2 0.01
76 35 0.09
77 60 0.16
78 23 0.06
79 3 0.01
80 8 0.02
81 80 0.21
82 103 0.27
83 69 0.18
84 1 0.00
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.48
Consensus pattern (80 bp):
ATTTTATTCATTTTGATTTTGTTTCCAAACAAGATTTAATTAAATAATTCTGTTTCGGGATTTAT
TCCGACATTTAATAG
Found at i:77917910 original size:82 final size:82
Alignment explanation
Indices: 77917651--77918227 Score: 550
Period size: 81 Copynumber: 7.2 Consensus size: 82
77917641 TTGAATAAAA
** * * * * * *
77917651 TCTGTTTAAGGATTTATTCCTGCCGTTCAACAAATTTTATTC-TTTTTTATTTTGTTTCCAAACA
1 TCTGTTTCGGGATTTATTCCCGCCATTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACA
* *
77917715 AGAATTAATTGAATAAT
66 AGATTTAATTAAATAAT
* * * * * * * * * *
77917732 TCTATTTCGAGATTTATTGCCGACATTTAATATATTTTATTC-TTTTTTATTTTGTTTCTAAAAA
1 TCTGTTTCGGGATTTATTCCCGCCATTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACA
* *
77917796 AGAATTAATTGAATAAT
66 AGATTTAATTAAATAAT
* * *
77917813 TCTGTCTCGGGATTTATTCCGGCCATATAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACA
1 TCTGTTTCGGGATTTATTCCCGCCATTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACA
77917878 AGATTTAATTAAATAAT
66 AGATTTAATTAAATAAT
* *** * ** *
77917895 TTTGTTTCAACATTTATTCCCACCATTTAATTGATTTTATTCGATTTTAATTTTGTTTCCAAACT
1 TCTGTTTCGGGATTTATTCCCGCCATTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAAC-
77917960 AAGATTTAATTAAATAAT
65 AAGATTTAATTAAATAAT
* * *** * * *
77917978 TCTGTTTCGCGATTTATTCTCGTTGTTTATCAGA---T-TT-GATTTTGATTTTATTTTCAAACA
1 TCTGTTTCGGGATTTATTCCCGCCATTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACA
*
77918038 ATATTTAATTAAATAAT
66 AGATTTAATTAAATAAT
* * * * *
77918055 TCTATTTCGGGATTTATTCCCG-CAGTTAAC--ATATT-TT--ATTTTGATTTTATTTCCAAGCA
1 TCTGTTTCGGGATTTATTCCCGCCATTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACA
*
77918114 AGATTTAATCAAATAAAT
66 AGATTTAATTAAAT-AAT
* * * **
77918132 TTTGTTTCGGGATTTATTCCCTCCATTTAATAGATTTTATTCGATTTCAATTTTGTTTCCAAACA
1 TCTGTTTCGGGATTTATTCCCGCCATTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACA
77918197 AGATTTAATTAAATAAT
66 AGATTTAATTAAATAAT
* *
77918214 TTTGTTTCAGGATT
1 TCTGTTTCGGGATT
77918228 CAATCCAACA
Statistics
Matches: 406, Mismatches: 78, Indels: 23
0.80 0.15 0.05
Matches are distributed among these distances:
74 1 0.00
76 36 0.09
77 61 0.15
78 25 0.06
79 2 0.00
80 5 0.01
81 103 0.25
82 102 0.25
83 71 0.17
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.48
Consensus pattern (82 bp):
TCTGTTTCGGGATTTATTCCCGCCATTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACA
AGATTTAATTAAATAAT
Found at i:77919818 original size:23 final size:23
Alignment explanation
Indices: 77919792--77919839 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
77919782 GCCACACGGA
77919792 CATGTGGGCCCACACGGGTGAAC
1 CATGTGGGCCCACACGGGTGAAC
77919815 CATGTGGGCCCACACGGGTGAAC
1 CATGTGGGCCCACACGGGTGAAC
77919838 CA
1 CA
77919840 CATGGGCGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.23, C:0.31, G:0.33, T:0.12
Consensus pattern (23 bp):
CATGTGGGCCCACACGGGTGAAC
Done.