Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 189 of 318
Found at i:59233227 original size:24 final size:24
Alignment explanation
Indices: 59233197--59233246 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
59233187 CACATATATA
59233197 CACTTTCACATTCATCACATCGGC
1 CACTTTCACATTCATCACATCGGC
59233221 CACTTTCACATTCATCACATCGGC
1 CACTTTCACATTCATCACATCGGC
59233245 CA
1 CA
59233247 TTAGGCCTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.26, C:0.38, G:0.08, T:0.28
Consensus pattern (24 bp):
CACTTTCACATTCATCACATCGGC
Found at i:59233256 original size:120 final size:119
Alignment explanation
Indices: 59233101--59233342 Score: 450
Period size: 120 Copynumber: 2.0 Consensus size: 119
59233091 CACATATATA
59233101 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATC
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATC
59233166 ACATCGGCCATTAGGCCTTATCAC-ATATATACACTTTCACATTCATCACATCGGC
64 ACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCACATCGGC
59233221 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
59233286 ATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGC
66 ATCGGCCATTAGGCCTTATCACA-ATATATACACTTTCACATTCATCACATCGGC
59233341 CA
1 CA
59233343 TTAGGCCTTA
Statistics
Matches: 120, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
118 47 0.39
120 73 0.61
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.31
Consensus pattern (119 bp):
CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
ATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCACATCGGC
Found at i:59233274 original size:47 final size:48
Alignment explanation
Indices: 59233221--59233394 Score: 314
Period size: 49 Copynumber: 3.6 Consensus size: 48
59233211 TCACATCGGC
59233221 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATA
59233268 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATA
59233317 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATA
*
59233366 CACTTTCACATTCATCACATCAGCCATTA
1 CACTTTCACATTCATCACATCGGCCATTA
59233395 CGCCATACTA
Statistics
Matches: 124, Mismatches: 1, Indels: 2
0.98 0.01 0.02
Matches are distributed among these distances:
47 40 0.32
49 84 0.68
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.32
Consensus pattern (48 bp):
CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATA
Found at i:59233330 original size:167 final size:168
Alignment explanation
Indices: 59233054--59233391 Score: 588
Period size: 167 Copynumber: 2.0 Consensus size: 168
59233044 CACATTTATA
* * * *
59233054 CACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACACTTTCACATTCATCAC
1 CACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACACTTTCACATTCATCAC
59233119 ATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
66 ATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
*
59233184 TATCAC-ATATATACACTTTCACATTCATCACATCGGC
131 TATCACAATATATACACTTTCACATTCATCACATCAGC
* * *
59233221 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
1 CACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACACTTTCACATTCATCAC
59233286 ATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
66 ATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
59233351 TATCACATATATATACACTTTCACATTCATCACATCAGC
131 TATCACA-ATATATACACTTTCACATTCATCACATCAGC
59233390 CA
1 CA
59233392 TTACGCCATA
Statistics
Matches: 161, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
167 129 0.80
169 32 0.20
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.31
Consensus pattern (168 bp):
CACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACACTTTCACATTCATCAC
ATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
TATCACAATATATACACTTTCACATTCATCACATCAGC
Found at i:59235892 original size:50 final size:49
Alignment explanation
Indices: 59235834--59235946 Score: 129
Period size: 49 Copynumber: 2.3 Consensus size: 49
59235824 ATGACAATGC
*
59235834 CTGGGACATGGCATCAAACGAGAT-ATGCGATAGCTAGTATAAGACCATGT
1 CTGGGACATGGCATCAAACGAGATGATG-G-TAGCCAGTATAAGACCATGT
*** ** *
59235884 CTGGGACATGGCATCGGCCTCGATGATGGTAGCCAGTGTAAGACCATGT
1 CTGGGACATGGCATCAAACGAGATGATGGTAGCCAGTATAAGACCATGT
*
59235933 TTGGGACATGGCAT
1 CTGGGACATGGCAT
59235947 TGGTATCTTA
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
49 31 0.57
50 20 0.37
51 3 0.06
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.23
Consensus pattern (49 bp):
CTGGGACATGGCATCAAACGAGATGATGGTAGCCAGTATAAGACCATGT
Found at i:59246207 original size:22 final size:22
Alignment explanation
Indices: 59246175--59246216 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
59246165 TTAAGAGGAC
59246175 TAAAAAAATGTATAATTTGGGG
1 TAAAAAAATGTATAATTTGGGG
*
59246197 TAAAAACATGTATAATTTGG
1 TAAAAAAATGTATAATTTGG
59246217 TGTTTATCAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.45, C:0.02, G:0.19, T:0.33
Consensus pattern (22 bp):
TAAAAAAATGTATAATTTGGGG
Found at i:59252850 original size:49 final size:50
Alignment explanation
Indices: 59252654--59252875 Score: 195
Period size: 49 Copynumber: 4.7 Consensus size: 50
59252644 TGTGTGAGCT
* *
59252654 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCA-C-ATTATGAG-AGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GGCATCGATGATGAGTAGCC
* * *
59252700 AGTGTAAGACCATGTCTTGGACATGGCATCGGCATTGA-GATGAGT-GCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATGATGAGTAGCC
* ** * * *
59252748 AGTGTAAGA-CATGTATGGGACAT-GCATCGGC-TAAACG-T-TGT-G-T
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATGATGAGTAGCC
* * *
59252791 TGTGTAAGACCATGTTTGGGACATGGCATCAGCATCGATGATG-GTAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATGATGAGTAGCC
*
59252840 AATGTAAGACCATGTCTGGGACATGGCATCGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATC
59252876 TTATCCCATA
Statistics
Matches: 142, Mismatches: 21, Indels: 23
0.76 0.11 0.12
Matches are distributed among these distances:
43 9 0.06
44 16 0.11
45 10 0.07
46 21 0.15
47 31 0.22
48 22 0.15
49 33 0.23
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.25
Consensus pattern (50 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATGATGAGTAGCC
Found at i:59255697 original size:49 final size:49
Alignment explanation
Indices: 59255641--59255868 Score: 233
Period size: 49 Copynumber: 4.6 Consensus size: 49
59255631 CTAGTATGCA
* *
59255641 TAGTAGCCTGCACTTAGTACTAGACATGTGACCAATTACCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCTGGTACACG
* * ** ***
59255690 TAGTAGCCTGCACTTAGTACTATACACGTGACCTAACCATCTGACGCACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC-AATTATCTGGTACACG
* ** * * *
59255740 TAGTAGCATGCACTTAGTACTACACACATGATCGAAGTTATCGGGTA-AGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-TTATCTGGTACA-CG
* * *
59255791 TAGTAGCCTACACTTAGTACTACACATGCGTCCAATTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCTGGTACACG
* *
59255840 TAGTAGCCTGCACTTTGTACTGCACATGT
1 TAGTAGCCTGCACTTAGTACTACACATGT
59255869 AACCTCACAA
Statistics
Matches: 142, Mismatches: 32, Indels: 10
0.77 0.17 0.05
Matches are distributed among these distances:
49 66 0.46
50 45 0.32
51 31 0.22
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCTGGTACACG
Found at i:59255760 original size:50 final size:49
Alignment explanation
Indices: 59255641--59255766 Score: 153
Period size: 50 Copynumber: 2.6 Consensus size: 49
59255631 CTAGTATGCA
* * ** **
59255641 TAGTAGCCTGCACTTAGTACTAGACATGTGACCAATTACCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCACCTGACACACG
* * *
59255690 TAGTAGCCTGCACTTAGTACTATACACGTGACCTAACCATCTGACGCACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AACCACCTGACACACG
*
59255740 TAGTAGCATGCACTTAGTACTACACAC
1 TAGTAGCCTGCACTTAGTACTACACAC
59255767 ATGATCGAAG
Statistics
Matches: 66, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
49 31 0.47
50 35 0.53
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCACCTGACACACG
Found at i:59258290 original size:40 final size:40
Alignment explanation
Indices: 59258253--59258430 Score: 179
Period size: 40 Copynumber: 4.5 Consensus size: 40
59258243 ATATCCGGAC
59258253 TAAGATCCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGT
1 TAAGATCCGAAGGCATTTGTGCGAGATACTAAA-TCCGGGT
*
59258293 TAAGCA-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGT
1 TAAG-ATCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
** * *
59258333 TAAG-TCCCGAAGGCATTCATGCGAGTTATTAAATCCGGGT
1 TAAGAT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * * *
59258373 TAAG-TCCCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGC
1 TAAGAT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
*
59258412 TATG-TCCCGAAGGCATTTG
1 TAAGAT-CCGAAGGCATTTG
59258431 AACGAGGAGC
Statistics
Matches: 120, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 32 0.27
40 84 0.70
41 4 0.03
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (40 bp):
TAAGATCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
Found at i:59258343 original size:80 final size:79
Alignment explanation
Indices: 59258206--59258430 Score: 215
Period size: 80 Copynumber: 2.8 Consensus size: 79
59258196 TTGAATGCTG
* * * * * * *
59258206 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAAACCGGGCTAAG-TCCCGAAGGCAT
59258269 TTGTGCGAGATA-CAAA
63 TTGTGCGAGATATCAAA
* * *
59258285 TTCCGGGTTAAG-CACCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 -TCCGGGTTAAGTC-CCGAAGG-CATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
59258349 TCATGCGAGTTATTAAA
63 TTGTGCGAGATATCAAA
* * *
59258366 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTTG
59258431 AACGAGGAGC
Statistics
Matches: 121, Mismatches: 18, Indels: 13
0.80 0.12 0.09
Matches are distributed among these distances:
79 39 0.32
80 67 0.55
81 14 0.12
82 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGATATCAAA
Found at i:59258448 original size:79 final size:79
Alignment explanation
Indices: 59258259--59258463 Score: 190
Period size: 79 Copynumber: 2.6 Consensus size: 79
59258249 GGACTAAGAT
* *
59258259 CCGAAGGCATTTGTGCGAGAT-AC-AAATTCCGGGTTAAG-CACCGAAGGCCTTTGTGCGAGATA
1 CCGAAGGCA-TTATGCGAG-TGACTAAA-TCCGGGTTAAGTC-CCGAAGGCCATTGTGCGAGATA
* *
59258321 CTAAATCCGGGTTAAGTC
62 CTAAAACCGGGCTAAGTC
* * * *
59258339 CCGAAGGCATTCATGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTA
1 CCGAAGGCATT-ATGCGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTA
*
59258403 AAACCGGGCTATGTC
65 AAACCGGGCTAAGTC
* *
59258418 CCGAAGGCATT-TGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGAAGGCATTATG--CGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
59258464 TACGTGATTT
Statistics
Matches: 106, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
77 2 0.02
78 16 0.15
79 50 0.47
80 34 0.32
81 4 0.04
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (79 bp):
CCGAAGGCATTATGCGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:59265173 original size:80 final size:79
Alignment explanation
Indices: 59265089--59265260 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
59265079 GGACAAAGAT
*
59265089 CCGAAGGCATTTGGGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGGGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
59265153 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
59265169 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGGGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
59265234 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
59265248 CCGAAGGCATTTG
1 CCGAAGGCATTTG
59265261 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 38 0.48
80 38 0.48
81 3 0.04
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
CCGAAGGCATTTGGGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:59265240 original size:39 final size:39
Alignment explanation
Indices: 59265036--59265258 Score: 207
Period size: 40 Copynumber: 5.6 Consensus size: 39
59265026 TTGAATGCTG
* * * * * *
59265036 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
*** * *
59265076 TCCGGACAAAGAT-CCGAAGGCATTTGGGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAAA
* * *
59265115 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
*
59265156 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
59265196 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
59265235 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
59265259 TGAACGAGGA
Statistics
Matches: 152, Mismatches: 24, Indels: 15
0.80 0.13 0.08
Matches are distributed among these distances:
39 39 0.26
40 103 0.68
41 10 0.07
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:59265278 original size:79 final size:80
Alignment explanation
Indices: 59265116--59265293 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
59265106 AGATACAAAT
* * * *
59265116 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
59265181 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * *
59265196 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
59265260 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
59265275 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
59265294 TACGTGATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 16 0.19
79 48 0.58
80 19 0.23
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:59268019 original size:20 final size:20
Alignment explanation
Indices: 59267994--59268033 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
59267984 AACTTAACAC
59267994 AGTAATCTCACTCATAGCAT
1 AGTAATCTCACTCATAGCAT
*
59268014 AGTAATCTCGCTCATAGCAT
1 AGTAATCTCACTCATAGCAT
59268034 TCTCACACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (20 bp):
AGTAATCTCACTCATAGCAT
Found at i:59270707 original size:40 final size:40
Alignment explanation
Indices: 59270651--59270875 Score: 373
Period size: 40 Copynumber: 5.6 Consensus size: 40
59270641 CGGATGATAA
* *
59270651 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
59270691 CCGGGCTAAG-CTCCGAAGGCATTTGTGCTAGTTACTATAT
1 CCGGGCTAAGTC-CCGAAGGCATTTGTGCGAGTTACTATAT
59270731 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
59270771 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
59270811 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
59270851 CCGGGCTAAGTCCCAAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
59270876 AGCAAGTAGT
Statistics
Matches: 178, Mismatches: 4, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
39 1 0.01
40 175 0.98
41 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:59271175 original size:22 final size:21
Alignment explanation
Indices: 59271134--59271177 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
59271124 GAATGTGCAT
59271134 ATATGAAGTTATCCATTTAGCC
1 ATATGAAGTTATCCA-TTAGCC
59271156 ATATGAATGTTATACC-TTAGCC
1 ATATGAA-GTTAT-CCATTAGCC
59271178 GAAACTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.65
23 5 0.25
24 2 0.10
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (21 bp):
ATATGAAGTTATCCATTAGCC
Found at i:59275834 original size:15 final size:15
Alignment explanation
Indices: 59275814--59275842 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
59275804 CTACGCTGCG
59275814 TCCCCCTTCTCCTCA
1 TCCCCCTTCTCCTCA
59275829 TCCCCCTTCTCCTC
1 TCCCCCTTCTCCTC
59275843 CTCCTCTACG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.03, C:0.62, G:0.00, T:0.34
Consensus pattern (15 bp):
TCCCCCTTCTCCTCA
Found at i:59281677 original size:27 final size:27
Alignment explanation
Indices: 59281647--59281822 Score: 201
Period size: 27 Copynumber: 6.5 Consensus size: 27
59281637 ATTGAGTCCA
* * * *
59281647 CACACTCAGTGCTATATAATCAACTCG
1 CACACTTAGTGCTACATAGTCAAATCG
* *
59281674 CACACTTAGTGCTACGTAATCAAATCG
1 CACACTTAGTGCTACATAGTCAAATCG
59281701 CACACTTAGTGCTACATAGTCAAACTCG
1 CACACTTAGTGCTACATAGTCAAA-TCG
** * *
59281729 CACACTTAGTGCCGCATGGTCAATTCG
1 CACACTTAGTGCTACATAGTCAAATCG
* **
59281756 CACACTTAGTGC-ATCATATTCATTTCG
1 CACACTTAGTGCTA-CATAGTCAAATCG
*
59281783 CACACTTAGTGCAACATAGTCAAATCG
1 CACACTTAGTGCTACATAGTCAAATCG
59281810 CACACTTAGTGCT
1 CACACTTAGTGCT
59281823 GTACAATTTA
Statistics
Matches: 128, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CACACTTAGTGCTACATAGTCAAATCG
Found at i:59281784 original size:82 final size:81
Alignment explanation
Indices: 59281666--59281821 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
59281656 TGCTATATAA
* *
59281666 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
59281731 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
59281748 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
59281812 CACTTAGTGC
65 CACTTAGTGC
59281822 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:59299234 original size:40 final size:39
Alignment explanation
Indices: 59299144--59299282 Score: 201
Period size: 40 Copynumber: 3.5 Consensus size: 39
59299134 NGCTATTGAC
59299144 TATCCGGCTAAGTCCCGAAGGCATTTGT-CGAGTTGCTA
1 TATCCGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTA
* *
59299182 TATCCGTGCTAAGTCCCGAAGGCTTTTGTGCTAG-TGACTA
1 TATCCG-GCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTA
*
59299222 TATCCAGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTA
1 TATCC-GGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTA
*
59299262 TATCCGGCTAAATCCCGAAGG
1 TATCCGGCTAAGTCCCGAAGG
59299283 TACTTGGGTT
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
38 6 0.07
39 37 0.42
40 43 0.48
41 3 0.03
ACGTcount: A:0.23, C:0.24, G:0.26, T:0.27
Consensus pattern (39 bp):
TATCCGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTA
Found at i:59316292 original size:30 final size:31
Alignment explanation
Indices: 59316258--59316321 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
59316248 ATTTATTTTA
*
59316258 TTGTTAA-TTTTCTTATTATTTTA-AAGGCAT
1 TTGTTAATTTTTCTTATTACTTTAGAA-GCAT
*
59316288 TTGTTAATTTTTTTTATTACTTTAGAAGCAT
1 TTGTTAATTTTTCTTATTACTTTAGAAGCAT
59316319 TTG
1 TTG
59316322 CTTATTAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 7 0.23
31 21 0.70
32 2 0.07
ACGTcount: A:0.25, C:0.06, G:0.11, T:0.58
Consensus pattern (31 bp):
TTGTTAATTTTTCTTATTACTTTAGAAGCAT
Found at i:59324570 original size:79 final size:81
Alignment explanation
Indices: 59324434--59324618 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
59324424 TCGAATGATG
*
59324434 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
*
59324498 TGTGTGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
59324513 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
59324575 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
59324593 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
59324619 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:59324625 original size:40 final size:40
Alignment explanation
Indices: 59324434--59324618 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
59324424 TCGAATGATG
* * * *
59324434 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
59324474 TCCGGACTAAGAT-CCGAAGGCATTTGTGTGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
59324514 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
59324553 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
59324594 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
59324619 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 34 0.27
40 82 0.66
41 9 0.07
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:59324640 original size:79 final size:79
Alignment explanation
Indices: 59324487--59324651 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
59324477 GGACTAAGAT
* * **
59324487 CCGAAGGCATTTGTGTGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
59324552 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
59324566 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
59324629 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
59324645 CCGAAGG
1 CCGAAGG
59324652 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:59328117 original size:27 final size:27
Alignment explanation
Indices: 59328086--59328263 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
59328076 TAAATTGTAC
59328086 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
59328113 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
59328139 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
59328167 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
59328195 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
59328222 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
59328249 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
59328264 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:59328200 original size:82 final size:81
Alignment explanation
Indices: 59328087--59328242 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
59328077 AAATTGTACA
* *
59328087 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
59328151 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
59328168 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
59328233 TGCGAGTTGA
65 TGCGAATTGA
59328243 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:59328254 original size:82 final size:81
Alignment explanation
Indices: 59328083--59328263 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
59328073 GATTAAATTG
* *
59328083 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
59328148 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
59328164 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
59328228 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
59328246 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
59328264 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:59331911 original size:34 final size:34
Alignment explanation
Indices: 59331868--59331945 Score: 111
Period size: 34 Copynumber: 2.3 Consensus size: 34
59331858 AGAGAAAGGG
* * **
59331868 GAAACAGAAATTAGTAACTTTGAAGTAAGAGGTTA
1 GAAA-AGAAATCAGTAACTCTGAAGTAAGAGGCCA
59331903 GAAAAGAAATCAGTAACTCTGAAGTAAGAGGCCA
1 GAAAAGAAATCAGTAACTCTGAAGTAAGAGGCCA
59331937 GAAAAGAAA
1 GAAAAGAAA
59331946 CATAAGGTCA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
34 35 0.90
35 4 0.10
ACGTcount: A:0.50, C:0.09, G:0.23, T:0.18
Consensus pattern (34 bp):
GAAAAGAAATCAGTAACTCTGAAGTAAGAGGCCA
Found at i:59334725 original size:22 final size:22
Alignment explanation
Indices: 59334700--59334748 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
59334690 GTTATGTAAG
* *
59334700 TTTGATGA-TTTTGGTATATTGA
1 TTTGATAAGTTTTGGT-TATGGA
*
59334722 TTTGGTAAGTTTTGGTTATGGA
1 TTTGATAAGTTTTGGTTATGGA
59334744 TTTGA
1 TTTGA
59334749 GTAGTGAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.20, C:0.00, G:0.27, T:0.53
Consensus pattern (22 bp):
TTTGATAAGTTTTGGTTATGGA
Found at i:59344317 original size:26 final size:26
Alignment explanation
Indices: 59344287--59344337 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
59344277 TTCAACTTAA
59344287 GTATTCTATAAGAATTAAACTTTTTG
1 GTATTCTATAAGAATTAAACTTTTTG
59344313 GTATTCTATAAGAATTAAACTTTTT
1 GTATTCTATAAGAATTAAACTTTTT
59344338 TTATTTATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.35, C:0.08, G:0.10, T:0.47
Consensus pattern (26 bp):
GTATTCTATAAGAATTAAACTTTTTG
Found at i:59345241 original size:25 final size:26
Alignment explanation
Indices: 59345213--59345263 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
59345203 TATTATTTTT
*
59345213 AATTT-ATTTTTTAATAA-TTTATATA
1 AATTTCATTTATTAA-AATTTTATATA
59345238 AATTTCATTTATTAAAATTTTATATA
1 AATTTCATTTATTAAAATTTTATATA
59345264 TAGGAATGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (26 bp):
AATTTCATTTATTAAAATTTTATATA
Found at i:59347402 original size:49 final size:49
Alignment explanation
Indices: 59347330--59347504 Score: 251
Period size: 49 Copynumber: 3.5 Consensus size: 49
59347320 CTAGTACGCA
*
59347330 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCAGGTACACG
* * * * * *
59347379 TAGTAGCCTACACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCAGGTACACG
* *
59347430 TAGTAGTCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCAGGTACACG
59347479 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
59347505 CGTGACCTCA
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
49 64 0.59
50 6 0.06
51 38 0.35
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCAGGTACACG
Found at i:59347484 original size:100 final size:100
Alignment explanation
Indices: 59347323--59347509 Score: 347
Period size: 100 Copynumber: 1.9 Consensus size: 100
59347313 AAGCTATCTA
59347323 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCT
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCT
59347388 ACACTTAGTACTACACACGTGATCGAAGTTATCAG
66 ACACTTAGTACTACACACGTGATCGAAGTTATCAG
* *
59347423 GTACGCATAGTAGTCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACGTAGTAGCCT
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCT
*
59347488 GCACTTAGTACTACACACGTGA
66 ACACTTAGTACTACACACGTGA
59347510 CCTCACAATA
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 84 1.00
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (100 bp):
GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCT
ACACTTAGTACTACACACGTGATCGAAGTTATCAG
Found at i:59348192 original size:30 final size:30
Alignment explanation
Indices: 59348158--59348218 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
59348148 CCTTTAATAC
59348158 AAACTTTGGCAAAATTAC-CATTTTGCCCCT
1 AAACTTTGGCAAAATTACAC-TTTTGCCCCT
* *
59348188 AAACTTTTGCATAATTACACTTTTGCCCCT
1 AAACTTTGGCAAAATTACACTTTTGCCCCT
59348218 A
1 A
59348219 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.26, G:0.08, T:0.36
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACACTTTTGCCCCT
Found at i:59352768 original size:19 final size:19
Alignment explanation
Indices: 59352744--59352780 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
59352734 GTGTCATCAT
*
59352744 AAATTTATAGGCATAACTA
1 AAATTTATAGACATAACTA
*
59352763 AAATTTGTAGACATAACT
1 AAATTTATAGACATAACT
59352781 TACACATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (19 bp):
AAATTTATAGACATAACTA
Found at i:59359625 original size:15 final size:15
Alignment explanation
Indices: 59359605--59359636 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
59359595 AGTCTTCATC
59359605 TACCCTACATACATG
1 TACCCTACATACATG
59359620 TACCCTACATACATG
1 TACCCTACATACATG
59359635 TA
1 TA
59359637 GCCATTCTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.31, G:0.06, T:0.28
Consensus pattern (15 bp):
TACCCTACATACATG
Found at i:59359835 original size:29 final size:29
Alignment explanation
Indices: 59359793--59359874 Score: 164
Period size: 29 Copynumber: 2.8 Consensus size: 29
59359783 ATTCCAAAAA
59359793 GTATCACATAGTTCCAAAAAGTTTTAAAT
1 GTATCACATAGTTCCAAAAAGTTTTAAAT
59359822 GTATCACATAGTTCCAAAAAGTTTTAAAT
1 GTATCACATAGTTCCAAAAAGTTTTAAAT
59359851 GTATCACATAGTTCCAAAAAGTTT
1 GTATCACATAGTTCCAAAAAGTTT
59359875 GCCAAGTGAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 53 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.34
Consensus pattern (29 bp):
GTATCACATAGTTCCAAAAAGTTTTAAAT
Found at i:59365679 original size:37 final size:37
Alignment explanation
Indices: 59365621--59365728 Score: 189
Period size: 37 Copynumber: 2.9 Consensus size: 37
59365611 TAGCTCGAAT
* *
59365621 AATCCCCACACGTAGTTATCGGGTCTTACCCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
*
59365658 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
59365695 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
59365729 ATATATTTCC
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.23
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
Found at i:59365921 original size:48 final size:48
Alignment explanation
Indices: 59365861--59366155 Score: 452
Period size: 48 Copynumber: 6.2 Consensus size: 48
59365851 CGGCCACAAT
*
59365861 ATATACACATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
*
59365909 ATATACATATCTCATACATATTTCACATTAGCCATTCGGATTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
* ** *
59365957 ATATATATATCTCATACATATTTCATGTTAGCCATTC-ACTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
59366004 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
* * *
59366052 ATAT--ATATATCATACCTATTTCATATTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
**
59366098 ATATACATATCTCATACATATTTCACCCTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
* *
59366146 ACATATATAT
1 ATATACATAT
59366156 TTATCTTGTA
Statistics
Matches: 223, Mismatches: 21, Indels: 6
0.89 0.08 0.02
Matches are distributed among these distances:
46 43 0.19
47 42 0.19
48 138 0.62
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.36
Consensus pattern (48 bp):
ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
Found at i:59366130 original size:141 final size:143
Alignment explanation
Indices: 59365861--59366155 Score: 459
Period size: 141 Copynumber: 2.1 Consensus size: 143
59365851 CGGCCACAAT
* *
59365861 ATATACACATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATA-ATATATCATAC
* ***
59365926 ATATTTCACATTAGCCATTCGGATTTACCACATATATATATCTCATACATATTTCATGTTAGCCA
65 ATATTTCACATTAGCCATTCGGATTTACCACATATACATATCTCATACATATTTCACCCTAGCCA
59365991 TTC-ACTTTACCAC
130 TTCGACTTTACCAC
*
59366004 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATAT-ATATATCATACC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATAATATATCATACA
* *
59366068 TATTTCATATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACCCTAGCCAT
66 TATTTCACATTAGCCATTCGGATTTACCACATATACATATCTCATACATATTTCACCCTAGCCAT
*
59366133 TCGGCTTTACCAC
131 TCGACTTTACCAC
* *
59366146 ACATATATAT
1 ATATACATAT
59366156 TTATCTTGTA
Statistics
Matches: 139, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
141 71 0.51
142 17 0.12
143 51 0.37
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.36
Consensus pattern (143 bp):
ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATAATATATCATACA
TATTTCACATTAGCCATTCGGATTTACCACATATACATATCTCATACATATTTCACCCTAGCCAT
TCGACTTTACCAC
Found at i:59368001 original size:25 final size:25
Alignment explanation
Indices: 59367967--59368016 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
59367957 GAGAGAAAGA
59367967 ATGGATAAAACTTTGTTTTCATCCC
1 ATGGATAAAACTTTGTTTTCATCCC
59367992 ATGGATAAAACTTTGTTTTCATCCC
1 ATGGATAAAACTTTGTTTTCATCCC
59368017 CTTTTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.40
Consensus pattern (25 bp):
ATGGATAAAACTTTGTTTTCATCCC
Found at i:59369591 original size:57 final size:57
Alignment explanation
Indices: 59369503--59369617 Score: 203
Period size: 57 Copynumber: 2.0 Consensus size: 57
59369493 GAGGCTGAGA
*
59369503 CTAGAAATTTGAAGAAAAGACCGATAAGTAGTGCATTCCCACCGCAAACTAGAAAAT
1 CTAGAAATTTGAAGAAAAGACCGATAAGTAGTACATTCCCACCGCAAACTAGAAAAT
* *
59369560 CTAGAAATTTGAAGAAAAGACCGATGAGTAGTACATTCCCACCGCAGACTAGAAAAT
1 CTAGAAATTTGAAGAAAAGACCGATAAGTAGTACATTCCCACCGCAAACTAGAAAAT
59369617 C
1 C
59369618 CAGAGATATG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.19
Consensus pattern (57 bp):
CTAGAAATTTGAAGAAAAGACCGATAAGTAGTACATTCCCACCGCAAACTAGAAAAT
Found at i:59380560 original size:42 final size:42
Alignment explanation
Indices: 59380501--59380585 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
59380491 CATTTAAACT
*
59380501 ATCATAATTTAAAACTAAACATACTTCTTTCCTAATCACAAA
1 ATCATAATTTAAAACTAAACAGACTTCTTTCCTAATCACAAA
*
59380543 ATCATTATTTAAAACTAAACAGACTTCTTTCCTAATCACAAA
1 ATCATAATTTAAAACTAAACAGACTTCTTTCCTAATCACAAA
59380585 A
1 A
59380586 CCATGCACAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.45, C:0.21, G:0.01, T:0.33
Consensus pattern (42 bp):
ATCATAATTTAAAACTAAACAGACTTCTTTCCTAATCACAAA
Found at i:59381167 original size:17 final size:17
Alignment explanation
Indices: 59381145--59381180 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
59381135 AGTCATTATC
59381145 TATTCAT-AACCTAAATA
1 TATTCATCAACC-AAATA
59381162 TATTCATCAACCAAATA
1 TATTCATCAACCAAATA
59381179 TA
1 TA
59381181 ACTAATTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.33
Consensus pattern (17 bp):
TATTCATCAACCAAATA
Found at i:59391981 original size:93 final size:93
Alignment explanation
Indices: 59391822--59391992 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
59391812 GGATGGTTGA
* * *
59391822 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCATTGAGT
59391887 TGAGCCCGAGTTCGTGAGATGTAACTAG
66 TGAGCCCGAGTTCGTGAGATGTAACTAG
* *
59391915 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCATTGAGT
*
59391980 TGAGTCCGAGTTC
66 TGAGCCCGAGTTC
59391993 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGCCCGAGTTCGTGAGATGTAACTAG
Found at i:59391995 original size:46 final size:46
Alignment explanation
Indices: 59391826--59391997 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
59391816 GGTTGAGCAT
* * *
59391826 CCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * * *
59391872 CCGAACTCGTTGAGTTGAGCCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
59391917 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *
59391965 CCGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
59391998 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 2 0.02
46 58 0.56
47 27 0.26
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.27
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:59415098 original size:61 final size:61
Alignment explanation
Indices: 59415003--59415126 Score: 248
Period size: 61 Copynumber: 2.0 Consensus size: 61
59414993 GAAATCCTTG
59415003 AAAATTTATGTATAAATAAGGTATGTAATTCATGGTAGCTTTTGAAATTGTTGAATGTATT
1 AAAATTTATGTATAAATAAGGTATGTAATTCATGGTAGCTTTTGAAATTGTTGAATGTATT
59415064 AAAATTTATGTATAAATAAGGTATGTAATTCATGGTAGCTTTTGAAATTGTTGAATGTATT
1 AAAATTTATGTATAAATAAGGTATGTAATTCATGGTAGCTTTTGAAATTGTTGAATGTATT
59415125 AA
1 AA
59415127 GCTAGTTACT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 63 1.00
ACGTcount: A:0.37, C:0.03, G:0.18, T:0.42
Consensus pattern (61 bp):
AAAATTTATGTATAAATAAGGTATGTAATTCATGGTAGCTTTTGAAATTGTTGAATGTATT
Found at i:59432093 original size:28 final size:28
Alignment explanation
Indices: 59432053--59432108 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
59432043 GAGTTATGCA
**
59432053 ATACCATAAACTTATCTGCTAATAGTAT
1 ATACCATAAACTTATCCACTAATAGTAT
*
59432081 ATACCATACACTTATCCACTAATAGTAT
1 ATACCATAAACTTATCCACTAATAGTAT
59432109 TGCAAACACC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.39, C:0.21, G:0.05, T:0.34
Consensus pattern (28 bp):
ATACCATAAACTTATCCACTAATAGTAT
Found at i:59435029 original size:46 final size:48
Alignment explanation
Indices: 59434973--59435075 Score: 138
Period size: 46 Copynumber: 2.2 Consensus size: 48
59434963 GACAGGACAG
* * * * * *
59434973 GACAGAAATGAGCCATGTAGGTCCATATTA-GT-TATATGGCTTTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATTATATATATATGGCATTAGA
59435019 GACAGGAATGAGCCATGTAAGCCCATATTATATATATATGGCATTAGA
1 GACAGGAATGAGCCATGTAAGCCCATATTATATATATATGGCATTAGA
59435067 GACAGGAAT
1 GACAGGAAT
59435076 AATTCATGTA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
46 27 0.55
47 1 0.02
48 21 0.43
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (48 bp):
GACAGGAATGAGCCATGTAAGCCCATATTATATATATATGGCATTAGA
Found at i:59439782 original size:27 final size:27
Alignment explanation
Indices: 59439749--59439955 Score: 315
Period size: 27 Copynumber: 7.6 Consensus size: 27
59439739 TAAATTGTGC
*
59439749 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
59439776 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
59439804 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
59439831 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
59439859 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
59439886 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * *
59439914 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
59439941 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
59439956 GACTTAATAT
Statistics
Matches: 168, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
27 91 0.54
28 77 0.46
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:59439813 original size:55 final size:55
Alignment explanation
Indices: 59439749--59439955 Score: 360
Period size: 55 Copynumber: 3.8 Consensus size: 55
59439739 TAAATTGTGC
59439749 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
59439804 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* *
59439859 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * * *
59439914 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCG
59439956 GACTTAATAT
Statistics
Matches: 147, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 147 1.00
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:59447884 original size:27 final size:27
Alignment explanation
Indices: 59447851--59448057 Score: 315
Period size: 27 Copynumber: 7.6 Consensus size: 27
59447841 TAAATTGTGC
*
59447851 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
59447878 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
59447906 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
59447933 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
59447961 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
59447988 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * *
59448016 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
59448043 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
59448058 GACTTAATAT
Statistics
Matches: 168, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
27 91 0.54
28 77 0.46
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:59447915 original size:55 final size:55
Alignment explanation
Indices: 59447851--59448057 Score: 360
Period size: 55 Copynumber: 3.8 Consensus size: 55
59447841 TAAATTGTGC
59447851 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
59447906 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* *
59447961 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * * *
59448016 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCG
59448058 GACTTAATAT
Statistics
Matches: 147, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 147 1.00
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:59450773 original size:46 final size:48
Alignment explanation
Indices: 59450715--59450834 Score: 147
Period size: 48 Copynumber: 2.5 Consensus size: 48
59450705 GACAGGACAG
* *
59450715 GACA-GAATTGAGCCATGTAAGTCCATATCA-GT-TATATGGCTTTGGA
1 GACAGGAA-TGAGCCATGTAAGTCCATATCATATATATATGGCATTGGA
* *
59450761 GACAGGAATGAGCCATGTAAGCCCATATTATATATATATGGCATTGGA
1 GACAGGAATGAGCCATGTAAGTCCATATCATATATATATGGCATTGGA
* **
59450809 GACAGGAATAATTCATGTAAGTCCAT
1 GACAGGAATGAGCCATGTAAGTCCAT
59450835 GTCGAAGACA
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 24 0.38
47 4 0.06
48 35 0.56
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (48 bp):
GACAGGAATGAGCCATGTAAGTCCATATCATATATATATGGCATTGGA
Found at i:59452216 original size:21 final size:20
Alignment explanation
Indices: 59452187--59452225 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
59452177 TAGAGTTTTA
59452187 TTTTTATTTTATTT-TAATCC
1 TTTTTATTTT-TTTATAATCC
59452207 TTTTTAATTTTTTTATAAT
1 TTTTT-ATTTTTTTATAAT
59452226 TTATTTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTTATTTTTTTATAATCC
Found at i:59452265 original size:22 final size:23
Alignment explanation
Indices: 59452226--59452280 Score: 76
Period size: 22 Copynumber: 2.3 Consensus size: 23
59452216 TTTTTATAAT
*
59452226 TTATTTATTTTAAATACTATAAATA
1 TTATTTATTTT--ATACTATAAACA
59452251 TTATTTATTTT-TACTATAAACA
1 TTATTTATTTTATACTATAAACA
59452273 TTATTTAT
1 TTATTTAT
59452281 GTATGTAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 18 0.62
25 11 0.38
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.56
Consensus pattern (23 bp):
TTATTTATTTTATACTATAAACA
Found at i:59452329 original size:7 final size:7
Alignment explanation
Indices: 59452292--59452438 Score: 56
Period size: 7 Copynumber: 20.1 Consensus size: 7
59452282 TATGTAAAAA
59452292 TTATTAT
1 TTATTAT
59452299 ATATATTAT
1 -T-TATTAT
59452308 TT-TTAT
1 TTATTAT
59452314 TT-TTAT
1 TTATTAT
59452320 ATTATTTAT
1 -TTA-TTAT
59452329 TATATTAT
1 T-TATTAT
*
59452337 TTACATTTT
1 TT--ATTAT
59452346 ATTATATAT
1 -TTAT-TAT
*
59452355 TT-TGAT
1 TTATTAT
*
59452361 TTATACATT
1 TTAT-TA-T
59452370 TTATTAT
1 TTATTAT
*
59452377 ATATTAT
1 TTATTAT
*
59452384 TCATTA-
1 TTATTAT
59452390 -TATT-T
1 TTATTAT
59452395 TT-TTATT
1 TTATTA-T
59452402 TTATTAT
1 TTATTAT
* *
59452409 ATACTAT
1 TTATTAT
*
59452416 ATAATTAT
1 -TTATTAT
59452424 TTATTAT
1 TTATTAT
59452431 TTATTAT
1 TTATTAT
59452438 T
1 T
59452439 ATGTATAATT
Statistics
Matches: 106, Mismatches: 15, Indels: 37
0.67 0.09 0.23
Matches are distributed among these distances:
5 5 0.05
6 15 0.14
7 40 0.38
8 21 0.20
9 23 0.22
10 2 0.02
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (7 bp):
TTATTAT
Found at i:59452397 original size:26 final size:26
Alignment explanation
Indices: 59452292--59452451 Score: 93
Period size: 26 Copynumber: 6.1 Consensus size: 26
59452282 TATGTAAAAA
* **
59452292 TTATTATATA-TATTATTTTTATTTT
1 TTATTATATATTATTATTTATACATT
* *
59452317 TATATTATTTATTA-TATTATTTACATT
1 T-TATTATATATTATTATT-TATACATT
59452344 TTATTATATATT-TTGATTTATACATT
1 TTATTATATATTATT-ATTTATACATT
59452370 TTATTATATATTATTCA-TTAT--ATT
1 TTATTATATATTATT-ATTTATACATT
* * *
59452394 TTTTTATTTTATTATATACTATATA-ATTAT
1 TTATTA-TATATTAT-TA-TTTATACA-T-T
* *
59452424 TTATTATTTATTATTATGTATA-ATT
1 TTATTATATATTATTATTTATACATT
59452449 TTA
1 TTA
59452452 AAAATTTGTA
Statistics
Matches: 111, Mismatches: 11, Indels: 26
0.75 0.07 0.18
Matches are distributed among these distances:
24 8 0.07
25 13 0.12
26 48 0.43
27 24 0.22
28 3 0.03
29 9 0.08
30 6 0.05
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (26 bp):
TTATTATATATTATTATTTATACATT
Found at i:59452853 original size:18 final size:18
Alignment explanation
Indices: 59452830--59452864 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
59452820 ATCTCATAAA
*
59452830 TTATTTGTTATATTTATG
1 TTATTTATTATATTTATG
*
59452848 TTATTTATTATTTTTAT
1 TTATTTATTATATTTAT
59452865 ATATTCGCAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (18 bp):
TTATTTATTATATTTATG
Found at i:59456510 original size:2 final size:2
Alignment explanation
Indices: 59456503--59456529 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
59456493 GTTAAAATTA
59456503 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
59456530 GAGAGAGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:59464405 original size:44 final size:43
Alignment explanation
Indices: 59464309--59464697 Score: 290
Period size: 44 Copynumber: 8.9 Consensus size: 43
59464299 TCACCGATAG
** * * * *
59464309 CAGATTTGGCGTCTCTGTATTAGATGGGGAGCAGATTGATGATA
1 CAGATTTGGCGTCTCTGTATT-GACAGAGAGCAGATCGAAGAGA
* *
59464353 GCAGATTTGGCGTCTCTGTGTTGACAGAGAGCAGATCAAAGACGA
1 -CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGA-GA
* * * * * * *
59464398 CATATTTGGCATCTCTATATTGGACGGGGAGTAGATCGAAGATA
1 CAGATTTGGCGTCTCTGTATT-GACAGAGAGCAGATCGAAGAGA
* * * * *
59464442 GCAGATCTGACAT-TCGTGTA-T--C-GA-AGCAGATCAAAGATAA
1 -CAGATTTGGCGTCTC-TGTATTGACAGAGAGCAGATCGAAGA-GA
* * * * *
59464482 CAGATTTGGCGTCTTTGTATTGACAGAGGGAAAATCGAAGATA
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGAGA
* * *
59464525 GCAGATTTGGCGTCTCTGTATTGATAGAGAGCAAATCGAAGATAA
1 -CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGA-GA
* *
59464570 CAGATTTGGCGTCTCTGTATTGACAAAGGGCAGATCGAAG-GTA
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGAG-A
* ** *
59464613 GCAAATTTGATGTCTCTGTATTGACAGAGAGTAGATCGAAGATGA
1 -CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGA-GA
59464658 CAGATTTGGCGTCTCTGTATTAGAC-GAAGAGCAGATCGAA
1 CAGATTTGGCGTCTCTGTATT-GACAG-AGAGCAGATCGAA
59464698 AATAGCAGAT
Statistics
Matches: 271, Mismatches: 54, Indels: 38
0.75 0.15 0.10
Matches are distributed among these distances:
39 24 0.09
40 4 0.01
41 1 0.00
42 1 0.00
43 4 0.01
44 170 0.63
45 66 0.24
46 1 0.00
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.27
Consensus pattern (43 bp):
CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGAGA
Found at i:59464583 original size:88 final size:88
Alignment explanation
Indices: 59464304--59464678 Score: 327
Period size: 88 Copynumber: 4.3 Consensus size: 88
59464294 GTAGATCACC
* * ** * * * * *
59464304 GATAGCAGATTTGGCGTCTCTGTATT-AGATGGGGAGCAGATTGATGATAGCAGATTTGGCGTCT
1 GATAACAGATTTGGCGTCTCTGTATTGACAAAGGGA--AAATCGAAGATAGCAAATTTGACGTCT
* *
59464368 CTGTGTTGACAGAGAGCAGATCAAA
64 CTGTATTGACAGAGAGCAGATCGAA
** * * * * * * * *
59464393 GACGACATATTTGGCATCTCTATATTGGAC--GGGGAGTAGATCGAAGATAGCAGATCTGACAT-
1 GATAACAGATTTGGCGTCTCTGTATT-GACAAAGGGA--AAATCGAAGATAGCAAATTTGACGTC
*
59464455 TCGTGTA-T--C-GA-AGCAGATCAAA
63 TC-TGTATTGACAGAGAGCAGATCGAA
* * * *
59464477 GATAACAGATTTGGCGTCTTTGTATTGACAGAGGGAAAATCGAAGATAGCAGATTTGGCGTCTCT
1 GATAACAGATTTGGCGTCTCTGTATTGACAAAGGGAAAATCGAAGATAGCAAATTTGACGTCTCT
* *
59464542 GTATTGATAGAGAGCAAATCGAA
66 GTATTGACAGAGAGCAGATCGAA
* * * *
59464565 GATAACAGATTTGGCGTCTCTGTATTGACAAAGGGCAGATCGAAGGTAGCAAATTTGATGTCTCT
1 GATAACAGATTTGGCGTCTCTGTATTGACAAAGGGAAAATCGAAGATAGCAAATTTGACGTCTCT
*
59464630 GTATTGACAGAGAGTAGATCGAA
66 GTATTGACAGAGAGCAGATCGAA
*
59464653 GATGACAGATTTGGCGTCTCTGTATT
1 GATAACAGATTTGGCGTCTCTGTATT
59464679 AGACGAAGAG
Statistics
Matches: 235, Mismatches: 40, Indels: 23
0.79 0.13 0.08
Matches are distributed among these distances:
83 28 0.12
84 34 0.14
85 6 0.03
86 1 0.00
87 2 0.01
88 114 0.49
89 49 0.21
91 1 0.00
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.28
Consensus pattern (88 bp):
GATAACAGATTTGGCGTCTCTGTATTGACAAAGGGAAAATCGAAGATAGCAAATTTGACGTCTCT
GTATTGACAGAGAGCAGATCGAA
Found at i:59464725 original size:20 final size:20
Alignment explanation
Indices: 59464700--59464755 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 20
59464690 AGATCGAAAA
59464700 TAGCAGATCTGACATTCGTG
1 TAGCAGATCTGACATTCGTG
*
59464720 TAGCAGATC-GA-A---G-A
1 TAGCAGATCTGACATTCGTG
59464734 TAGCAGATCTGACATTCGTG
1 TAGCAGATCTGACATTCGTG
59464754 TA
1 TA
59464756 TCGAAGGAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
14 9 0.32
15 3 0.11
16 1 0.04
18 1 0.04
19 3 0.11
20 11 0.39
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (20 bp):
TAGCAGATCTGACATTCGTG
Found at i:59464730 original size:34 final size:34
Alignment explanation
Indices: 59464687--59464755 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
59464677 TTAGACGAAG
59464687 AGCAGATCGAAAATAGCAGATCTGACATTCGTGT
1 AGCAGATCGAAAATAGCAGATCTGACATTCGTGT
*
59464721 AGCAGATCGAAGATAGCAGATCTGACATTCGTGT
1 AGCAGATCGAAAATAGCAGATCTGACATTCGTGT
59464755 A
1 A
59464756 TCGAAGGAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (34 bp):
AGCAGATCGAAAATAGCAGATCTGACATTCGTGT
Found at i:59464865 original size:84 final size:84
Alignment explanation
Indices: 59464721--59464970 Score: 383
Period size: 84 Copynumber: 3.0 Consensus size: 84
59464711 ACATTCGTGT
* * *
59464721 AGCAGATCGAAGATAGCAGATCTGACATTCGTGTATCGAAGGAGATCAAAGATGATAGATTCGGC
1 AGCAGATCGAAGATAGCAGATCTGACATTCGTGTATCGAAGCAGATCAAAGATGACAGATTTGGC
59464786 GTCTCTGTATTAGACGGAG
66 GTCTCTGTATTAGACGGAG
* * * * *
59464805 AGCAGATCGAAAATAGCAGATTTGACATTCGTGTATCGAAGTAGATAAAAGATGACAGATTTGGT
1 AGCAGATCGAAGATAGCAGATCTGACATTCGTGTATCGAAGCAGATCAAAGATGACAGATTTGGC
*
59464870 GTCTCTGTATTAGACAGAG
66 GTCTCTGTATTAGACGGAG
* *
59464889 AGTAGATCGAAGATAGCAGATCTGACATTCGTGTATTGAAGCAGATCAAAGATGACAGATTTGGC
1 AGCAGATCGAAGATAGCAGATCTGACATTCGTGTATCGAAGCAGATCAAAGATGACAGATTTGGC
* *
59464954 GTCTTTGTATTAAACGG
66 GTCTCTGTATTAGACGG
59464971 GCAGCGGATC
Statistics
Matches: 148, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
84 148 1.00
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.26
Consensus pattern (84 bp):
AGCAGATCGAAGATAGCAGATCTGACATTCGTGTATCGAAGCAGATCAAAGATGACAGATTTGGC
GTCTCTGTATTAGACGGAG
Found at i:59464924 original size:45 final size:44
Alignment explanation
Indices: 59464724--59464925 Score: 117
Period size: 45 Copynumber: 4.8 Consensus size: 44
59464714 TTCGTGTAGC
* *
59464724 AGATCGAAGATAGCAGATCTGACATTCGTGTA-T---CGA-AGG
1 AGATCGAAGATAGCAGATTTGACATTCGTGTATTAGACGAGAGT
* * * * * *
59464763 AGATCAAAGAT-GATAGATTCGGCGTCTC-TGTATTAGACGGAGAGC
1 AGATCGAAGATAG-CAGATTTGACAT-TCGTGTATTAGAC-GAGAGT
*
59464808 AGATCGAAAATAGCAGATTTGACATTCGTGTA-T---CGA-AGT
1 AGATCGAAGATAGCAGATTTGACATTCGTGTATTAGACGAGAGT
** ***
59464847 AGATAAAAGAT-GACAGATTTGGTGTCTC-TGTATTAGACAGAGAGT
1 AGATCGAAGATAG-CAGATTTGACAT-TCGTGTATTAGAC-GAGAGT
*
59464892 AGATCGAAGATAGCAGATCTGACATTCGTGTATT
1 AGATCGAAGATAGCAGATTTGACATTCGTGTATT
59464926 GAAGCAGATC
Statistics
Matches: 117, Mismatches: 26, Indels: 34
0.66 0.15 0.19
Matches are distributed among these distances:
38 2 0.02
39 44 0.38
40 8 0.07
41 1 0.01
43 2 0.02
44 9 0.08
45 49 0.42
46 2 0.02
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.27
Consensus pattern (44 bp):
AGATCGAAGATAGCAGATTTGACATTCGTGTATTAGACGAGAGT
Found at i:59464948 original size:39 final size:39
Alignment explanation
Indices: 59464687--59464941 Score: 111
Period size: 39 Copynumber: 6.4 Consensus size: 39
59464677 TTAGACGAAG
59464687 AGCAGATCGAAA-ATAGCAGATCTGACATTCGTG---T--
1 AGCAGATC-AAAGATAGCAGATCTGACATTCGTGTATTGA
* *
59464721 AGCAGATCGAAGATAGCAGATCTGACATTCGTGTATCGA
1 AGCAGATCAAAGATAGCAGATCTGACATTCGTGTATTGA
* * * *
59464760 AGGAGATCAAAGAT-GATAGAT-TCGGCGTCTC-TGTATTAGACGGA
1 AGCAGATCAAAGATAG-CAGATCT-GACAT-TCGTGTATT-----GA
* *
59464804 GAGCAGATCGAAA-ATAGCAGATTTGACATTCGTGTATCGA
1 -AGCAGATC-AAAGATAGCAGATCTGACATTCGTGTATTGA
* * * ***
59464844 AGTAGATAAAAGAT-GACAGATTTGGTGTCTC-TGTATTAGACAGA
1 AGCAGATCAAAGATAG-CAGATCTGACAT-TCGTGTATT-----GA
* *
59464888 GAGTAGATCGAAGATAGCAGATCTGACATTCGTGTATTGA
1 -AGCAGATCAAAGATAGCAGATCTGACATTCGTGTATTGA
59464928 AGCAGATCAAAGAT
1 AGCAGATCAAAGAT
59464942 GACAGATTTG
Statistics
Matches: 164, Mismatches: 27, Indels: 55
0.67 0.11 0.22
Matches are distributed among these distances:
33 2 0.01
34 29 0.18
38 6 0.04
39 58 0.35
40 8 0.05
44 8 0.05
45 47 0.29
46 6 0.04
ACGTcount: A:0.35, C:0.14, G:0.26, T:0.25
Consensus pattern (39 bp):
AGCAGATCAAAGATAGCAGATCTGACATTCGTGTATTGA
Found at i:59465034 original size:69 final size:69
Alignment explanation
Indices: 59464903--59465117 Score: 288
Period size: 69 Copynumber: 3.1 Consensus size: 69
59464893 GATCGAAGAT
* * * *
59464903 AGCAGATCTGACATTCGTGTATTGAAGCAGATCAAAGATGACAGATTTGGCGTCT-TTGTATTAA
1 AGCAGATC-AACATTCGTGTATCGAAGCAGATCAAAGATGACAGATTTGGCATCTCTT-TATTAG
59464967 ACGGGC
64 ACGGGC
* * * *
59464973 AGCGGATCAACATTCCTGTATCGAAGCAAATCGAAGATGACAGATTTGGCATCTCTTTATTAGAC
1 AGCAGATCAACATTCGTGTATCGAAGCAGATCAAAGATGACAGATTTGGCATCTCTTTATTAGAC
*
59465038 GGGG
66 GGGC
* * *
59465042 AGCAGATCGACATTCGTGTATCGAAACAGATCAAAGATGACAGATTTGGCATCTCTGTATTAGAC
1 AGCAGATCAACATTCGTGTATCGAAGCAGATCAAAGATGACAGATTTGGCATCTCTTTATTAGAC
*
59465107 GGGG
66 GGGC
59465111 AGCAGAT
1 AGCAGAT
59465118 TGAGAATAGC
Statistics
Matches: 128, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
69 119 0.93
70 9 0.07
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (69 bp):
AGCAGATCAACATTCGTGTATCGAAGCAGATCAAAGATGACAGATTTGGCATCTCTTTATTAGAC
GGGC
Found at i:59465752 original size:20 final size:20
Alignment explanation
Indices: 59465727--59465768 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
59465717 AAAGAAAAAC
59465727 AGCAGAGGCAATACAAATAT
1 AGCAGAGGCAATACAAATAT
59465747 AGCAGAGGCAATACAAATAT
1 AGCAGAGGCAATACAAATAT
59465767 AG
1 AG
59465769 TAAGAAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.50, C:0.14, G:0.21, T:0.14
Consensus pattern (20 bp):
AGCAGAGGCAATACAAATAT
Found at i:59466727 original size:22 final size:22
Alignment explanation
Indices: 59466680--59466727 Score: 53
Period size: 24 Copynumber: 2.1 Consensus size: 22
59466670 TTAATTTTTT
*
59466680 TATATTTTTTTATTTTAAATATTA
1 TATATTTTTTTATTTT--ATACTA
59466704 TATATTTTATTTATTTT-TACTA
1 TATATTTT-TTTATTTTATACTA
59466726 TA
1 TA
59466728 AACATTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
22 6 0.27
24 8 0.36
25 8 0.36
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (22 bp):
TATATTTTTTTATTTTATACTA
Found at i:59466735 original size:31 final size:31
Alignment explanation
Indices: 59466677--59466735 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
59466667 TTTTTAATTT
* * *
59466677 TTTTATATTTTTTTATTTTAAATATTATATA
1 TTTTATATTTTTTTACTATAAACATTATATA
59466708 TTTTAT-TTATTTTTACTATAAACATTAT
1 TTTTATATT-TTTTTACTATAAACATTAT
59466736 TTATGTATGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 2 0.08
31 22 0.92
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.64
Consensus pattern (31 bp):
TTTTATATTTTTTTACTATAAACATTATATA
Found at i:59466769 original size:14 final size:14
Alignment explanation
Indices: 59466750--59466908 Score: 56
Period size: 14 Copynumber: 11.6 Consensus size: 14
59466740 GTATGTAAAA
59466750 ATTATTATATATAT
1 ATTATTATATATAT
* *
59466764 ATTATTTTTATTTTTAT
1 ATTA---TTATATATAT
59466781 ATTATT-TAT-TAT
1 ATTATTATATATAT
*
59466793 ATTATT-TACAT-T
1 ATTATTATATATAT
59466805 -TTATTATATAT-T
1 ATTATTATATATAT
*
59466817 -TTGATT-TATACAT
1 ATT-ATTATATATAT
*
59466830 TTTATTATATAT-T
1 ATTATTATATATAT
* *
59466843 GTTCATTATAT-TTT
1 ATT-ATTATATATAT
* *
59466857 TTTATTTTAT-TAT
1 ATTATTATATATAT
59466870 ATATATTATATA-ATT
1 AT-TATTATATATA-T
*
59466885 ATTTATTATTTAT-T
1 A-TTATTATATATAT
59466899 ATTATGTATA
1 ATTAT-TATA
59466909 ATTTTAAAAA
Statistics
Matches: 113, Mismatches: 15, Indels: 34
0.70 0.09 0.21
Matches are distributed among these distances:
11 5 0.04
12 23 0.20
13 27 0.24
14 35 0.31
15 10 0.09
16 1 0.01
17 12 0.11
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (14 bp):
ATTATTATATATAT
Found at i:59466780 original size:26 final size:26
Alignment explanation
Indices: 59466751--59466841 Score: 80
Period size: 26 Copynumber: 3.4 Consensus size: 26
59466741 TATGTAAAAA
* *
59466751 TTATTATATATATATTATTTTTATTTT
1 TTATTATATATATATTATTTATA-CTT
* *
59466778 TATATTATTTATTATATTATTTACA-TT
1 T-TATTATATA-TATATTATTTATACTT
59466805 TTATTATATAT-T-TTGATTTATACATT
1 TTATTATATATATATT-ATTTATAC-TT
59466831 TTATTATATAT
1 TTATTATATAT
59466842 TGTTCATTAT
Statistics
Matches: 54, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
23 2 0.04
24 7 0.13
25 1 0.02
26 21 0.39
27 4 0.07
28 8 0.15
29 11 0.20
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.65
Consensus pattern (26 bp):
TTATTATATATATATTATTTATACTT
Found at i:59466797 original size:40 final size:40
Alignment explanation
Indices: 59466752--59466900 Score: 112
Period size: 40 Copynumber: 3.7 Consensus size: 40
59466742 ATGTAAAAAT
*
59466752 TATTATATATATATTATTTTTATTTTTATATTATTTATTA
1 TATTATATATATATTATTTATATTTTTATATTATTTATTA
* * * * ** *
59466792 TATTATTTACATTTTATTATATATTTTGAT-TTATACATTT
1 TATTATATATATATTATT-TATATTTTTATATTATTTATTA
* *
59466832 TATTATATAT-TGTTCA-TTATATTTTTTTA-T-TTTATTA
1 TATTATATATATATT-ATTTATATTTTTATATTATTTATTA
59466869 TA-TATATTATATAATTATTTATTATTTATTAT
1 TATTATA-TATAT-ATTATTTA-TATTT-TTAT
59466901 TATGTATAAT
Statistics
Matches: 82, Mismatches: 18, Indels: 17
0.70 0.15 0.15
Matches are distributed among these distances:
36 4 0.05
37 9 0.11
38 12 0.15
39 9 0.11
40 36 0.44
41 12 0.15
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.65
Consensus pattern (40 bp):
TATTATATATATATTATTTATATTTTTATATTATTTATTA
Found at i:59466858 original size:26 final size:26
Alignment explanation
Indices: 59466799--59466849 Score: 84
Period size: 26 Copynumber: 1.9 Consensus size: 26
59466789 TTATATTATT
*
59466799 TACATTTTATTATATATTTTGATTTA
1 TACATTTTATTATATATTTTCATTTA
59466825 TACATTTTATTATATATTGTTCATT
1 TACATTTTATTATATATT-TTCATT
59466850 ATATTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 18 0.78
27 5 0.22
ACGTcount: A:0.29, C:0.06, G:0.04, T:0.61
Consensus pattern (26 bp):
TACATTTTATTATATATTTTCATTTA
Found at i:59466912 original size:17 final size:16
Alignment explanation
Indices: 59466750--59466908 Score: 64
Period size: 17 Copynumber: 9.8 Consensus size: 16
59466740 GTATGTAAAA
59466750 ATTATTATATATATATT
1 ATTATTATATATAT-TT
* * *
59466767 ATTTTTATTTTTATATT
1 ATTATTATATATAT-TT
59466784 ATTTATTATAT-TATTT
1 A-TTATTATATATATTT
59466800 ACATT-TTATTATATATTT
1 --ATTATTA-TATATATTT
* *
59466818 -TGATT-TATACA-TT
1 ATTATTATATATATTT
*
59466831 -TTATTATATAT-TGT
1 ATTATTATATATATTT
* * *
59466845 -TCATTATATTTTTTT
1 ATTATTATATATATTT
59466860 ATTTTATTATATATATTAT
1 A--TTATTATATATATT-T
* *
59466879 ATAATTATTTATTATTT
1 ATTATTATATA-TATTT
*
59466896 ATTATTATGTATA
1 ATTATTATATATA
59466909 ATTTTAAAAA
Statistics
Matches: 108, Mismatches: 20, Indels: 29
0.69 0.13 0.18
Matches are distributed among these distances:
13 6 0.06
14 19 0.18
15 3 0.03
16 9 0.08
17 41 0.38
18 28 0.26
19 2 0.02
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (16 bp):
ATTATTATATATATTT
Found at i:59467315 original size:18 final size:18
Alignment explanation
Indices: 59467292--59467326 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
59467282 ATCTCATAAA
*
59467292 TTATTTGTTATTTTTATG
1 TTATTTATTATTTTTATG
59467310 TTATTTATTATTTTTAT
1 TTATTTATTATTTTTAT
59467327 ATATTCGCAT
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:0.20, C:0.00, G:0.06, T:0.74
Consensus pattern (18 bp):
TTATTTATTATTTTTATG
Found at i:59472161 original size:47 final size:47
Alignment explanation
Indices: 59472107--59472377 Score: 452
Period size: 47 Copynumber: 5.7 Consensus size: 47
59472097 TTAGGATTCT
* ** * *
59472107 ATGTGATGGATGTGAACCTGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
59472154 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
59472203 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
59472252 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
59472299 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
59472346 ATGTGATGAATGTGAAAGTGTATATATGTGAT
1 ATGTGATGAATGTGAAAGTGTATATATGTGAT
59472378 GAATGTGAAA
Statistics
Matches: 216, Mismatches: 6, Indels: 4
0.96 0.03 0.02
Matches are distributed among these distances:
47 122 0.56
49 94 0.44
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:59472198 original size:49 final size:49
Alignment explanation
Indices: 59472128--59472372 Score: 444
Period size: 49 Copynumber: 5.1 Consensus size: 49
59472118 GTGAACCTGC
*
59472128 ATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
59472177 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
59472226 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--T
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
59472273 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--T
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
59472320 ATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
59472369 ATAT
1 ATAT
59472373 GTGATGAATG
Statistics
Matches: 192, Mismatches: 2, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
47 93 0.48
49 99 0.52
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.30
Consensus pattern (49 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
Found at i:59472207 original size:96 final size:96
Alignment explanation
Indices: 59472107--59472372 Score: 446
Period size: 96 Copynumber: 2.8 Consensus size: 96
59472097 TTAGGATTCT
* ** * *
59472107 ATGTGATGGATGTGAACCTGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
59472172 TGTATATATATGTGATAAGGCCTAATGGCCG
66 TGTATATATATGTGATAAGGCCTAATGGCCG
59472203 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
59472268 AGTG--TATATATGTGATAAGGCCTAATGGCCG
64 AGTGTATATATATGTGATAAGGCCTAATGGCCG
*
59472299 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
59472364 TGTATATAT
66 TGTATATAT
59472373 GTGATGAATG
Statistics
Matches: 160, Mismatches: 6, Indels: 8
0.92 0.03 0.05
Matches are distributed among these distances:
94 46 0.29
96 69 0.43
98 45 0.28
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.30
Consensus pattern (96 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATATGTGATAAGGCCTAATGGCCG
Found at i:59472376 original size:72 final size:72
Alignment explanation
Indices: 59472299--59472449 Score: 293
Period size: 72 Copynumber: 2.1 Consensus size: 72
59472289 CTAATGGCCG
59472299 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAG
59472364 TGTATAT
66 TGTATAT
*
59472371 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAG
59472436 TGTATAT
66 TGTATAT
59472443 ATGTGAT
1 ATGTGAT
59472450 AAGGCCTAAT
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 78 1.00
ACGTcount: A:0.34, C:0.05, G:0.28, T:0.32
Consensus pattern (72 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAG
TGTATAT
Found at i:59472390 original size:119 final size:119
Alignment explanation
Indices: 59472252--59472496 Score: 481
Period size: 119 Copynumber: 2.1 Consensus size: 119
59472242 CTAATGGCCG
59472252 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
59472317 TGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATAT
66 TGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATAT
59472371 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
59472436 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
66 TGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATAT
59472490 ATGTGAT
1 ATGTGAT
59472497 AAGGCCTAAT
Statistics
Matches: 125, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
119 125 1.00
ACGTcount: A:0.33, C:0.07, G:0.29, T:0.31
Consensus pattern (119 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATAT
Found at i:59472417 original size:166 final size:167
Alignment explanation
Indices: 59472203--59472542 Score: 655
Period size: 166 Copynumber: 2.0 Consensus size: 167
59472193 CTAATGGCCG
59472203 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
59472268 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
65 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
59472333 GGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATAT
130 GGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATAT
59472371 ATGTGATGAATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 ATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
59472435 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
66 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
*
59472500 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
131 GCCTAATGGCCAATGTGATGAATGTGAAAGTGTATAT
59472537 ATGTGA
1 ATGTGA
59472543 CAGGGCCGAG
Statistics
Matches: 171, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
166 151 0.88
168 20 0.12
ACGTcount: A:0.33, C:0.07, G:0.29, T:0.31
Consensus pattern (167 bp):
ATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
GCCTAATGGCCAATGTGATGAATGTGAAAGTGTATAT
Found at i:59472422 original size:47 final size:47
Alignment explanation
Indices: 59472371--59472593 Score: 374
Period size: 47 Copynumber: 4.7 Consensus size: 47
59472361 AAGTGTATAT
59472371 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
59472418 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
59472465 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
59472512 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
59472559 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
59472594 TCCCGAAGGG
Statistics
Matches: 166, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 166 1.00
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:59472819 original size:37 final size:37
Alignment explanation
Indices: 59472712--59472819 Score: 180
Period size: 37 Copynumber: 2.9 Consensus size: 37
59472702 CTGAGCTTTA
*
59472712 AAGACCCGATGACTACGTGTGGAGATTTTGCCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
59472749 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
* * *
59472786 AAGACCCGATAACTTCGTGTGGAGATTTCGTCCG
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCG
59472820 AGCTAAAGGT
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.22, C:0.21, G:0.31, T:0.26
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
Found at i:59476879 original size:20 final size:20
Alignment explanation
Indices: 59476854--59476905 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
59476844 GATTTAATCT
* *
59476854 CATTATTGGCAGCTTGTCTG
1 CATTATTGGCAGCTTGCCTA
**
59476874 CATTATTGGTGGCTTGCCTA
1 CATTATTGGCAGCTTGCCTA
*
59476894 CATTAGTGGCAG
1 CATTATTGGCAG
59476906 TTCATCTGTA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.17, C:0.19, G:0.27, T:0.37
Consensus pattern (20 bp):
CATTATTGGCAGCTTGCCTA
Found at i:59479808 original size:27 final size:28
Alignment explanation
Indices: 59479742--59479836 Score: 99
Period size: 27 Copynumber: 3.5 Consensus size: 28
59479732 TCAGGGTATG
* *
59479742 CCACAAAGGCAATCCATTT-AGAGTTCA
1 CCACAAAGGCTATTCATTTCAGAGTTCA
* *
59479769 CCATAACA-ACTATTC-TTTCAGAGTTCA
1 CCACAA-AGGCTATTCATTTCAGAGTTCA
**
59479796 CCACAAAGGCTA-TCATTTCAGAGTTTG
1 CCACAAAGGCTATTCATTTCAGAGTTCA
59479823 CCACAAAGGCTATT
1 CCACAAAGGCTATT
59479837 AAAATGCCAC
Statistics
Matches: 55, Mismatches: 8, Indels: 9
0.76 0.11 0.12
Matches are distributed among these distances:
26 6 0.11
27 47 0.85
28 2 0.04
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (28 bp):
CCACAAAGGCTATTCATTTCAGAGTTCA
Found at i:59486751 original size:13 final size:13
Alignment explanation
Indices: 59486733--59486757 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59486723 TAAGAAGAAA
59486733 AGAAAATAAAAAG
1 AGAAAATAAAAAG
59486746 AGAAAATAAAAA
1 AGAAAATAAAAA
59486758 TAGTTAACTC
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:0.80, C:0.00, G:0.12, T:0.08
Consensus pattern (13 bp):
AGAAAATAAAAAG
Found at i:59487833 original size:13 final size:13
Alignment explanation
Indices: 59487826--59487850 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59487816 TAAGAAGAGA
59487826 AGAAAAGAAAAAG
1 AGAAAAGAAAAAG
59487839 AGAAAAGAAAAA
1 AGAAAAGAAAAA
59487851 TGTCTAATGA
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:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
AGAAAAGAAAAAG
Found at i:59488423 original size:29 final size:30
Alignment explanation
Indices: 59488390--59488463 Score: 84
Period size: 28 Copynumber: 2.5 Consensus size: 30
59488380 AGAAAAGTGT
59488390 TAAAATACTATAAAA-GCTAAAATCA-AACA
1 TAAAATACTATAAAATG-TAAAATCATAACA
* *
59488419 TAAAAT-CCATAAAATGTAAAATTATAACA
1 TAAAATACTATAAAATGTAAAATCATAACA
59488448 -AAAGATACTATAAAAT
1 TAAA-ATACTATAAAAT
59488464 ACTTGAGAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
28 17 0.45
29 13 0.34
30 8 0.21
ACGTcount: A:0.61, C:0.11, G:0.04, T:0.24
Consensus pattern (30 bp):
TAAAATACTATAAAATGTAAAATCATAACA
Found at i:59494965 original size:44 final size:44
Alignment explanation
Indices: 59494863--59495027 Score: 145
Period size: 46 Copynumber: 3.6 Consensus size: 44
59494853 GTCGATGCCG
* * * *
59494863 TGTCCCAGACAGGTCTTACACTGACACATGTAACCGT-GCTGACGCA
1 TGTCCCAGACATGTCTTACACTGGCACATCT--CC-TAGCCGACGCA
* *
59494909 TGTCCTAGACATGTCTTACACTAGCACATCTCCTAGCCGACGCA
1 TGTCCCAGACATGTCTTACACTGGCACATCTCCTAGCCGACGCA
* * * * *
59494953 TGTCCCAGACATGTCTGATACTGGCTAACATCT-CGAGGCCGATGTA
1 TGTCCCAGACATGTCTTACACTGGC--ACATCTCCTA-GCCGACGCA
*
59494999 TGTCCCAGACATGGTGTTACACTGGCACA
1 TGTCCCAGACAT-GTCTTACACTGGCACA
59495028 CAAATCTCAT
Statistics
Matches: 98, Mismatches: 16, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
43 1 0.01
44 31 0.32
45 5 0.05
46 51 0.52
47 10 0.10
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.24
Consensus pattern (44 bp):
TGTCCCAGACATGTCTTACACTGGCACATCTCCTAGCCGACGCA
Found at i:59495989 original size:21 final size:23
Alignment explanation
Indices: 59495946--59495991 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
59495936 ATCAAGGCTC
* *
59495946 CACACGCCCGTGTAGGTATAGAA
1 CACACGCCCGGGTAGCTATAGAA
59495969 CACACGCCCGGGT-GCTA-AGAA
1 CACACGCCCGGGTAGCTATAGAA
59495990 CA
1 CA
59495992 TGCCCGTGTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 6 0.29
22 3 0.14
23 12 0.57
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.13
Consensus pattern (23 bp):
CACACGCCCGGGTAGCTATAGAA
Found at i:59505507 original size:79 final size:79
Alignment explanation
Indices: 59505363--59505580 Score: 230
Period size: 79 Copynumber: 2.7 Consensus size: 79
59505353 AAATCACGTA
* * * * *
59505363 CCTTCGGAATTTAACCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTATAG
1 CCTTCGGGACTTAACCGGATATAG-TACTCGTACAAATGCCTTCGGGACTTAGCCCGGAATATAG
*
59505427 TAACTCGCACAATTG
65 TAACTCGCACAAATG
*
59505442 CCTTCGGGACTTAACCCGGATTTAGTAACTCGTACAAATGCCTTCGGG-CTTAGCCCGGAAT-TA
1 CCTTCGGGACTTAA-CCGGATATAGT-ACTCGTACAAATGCCTTCGGGACTTAGCCCGGAATATA
*
59505505 GTATCTCGCACAAATG
64 GTAACTCGCACAAATG
* * * *
59505521 CCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTA-ACCGGATATAGT-AC-TCGTACAAATGCCTTCGGGACTTAGCCCGGA
59505581 CATCATTCAA
Statistics
Matches: 118, Mismatches: 14, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
78 3 0.03
79 67 0.57
80 48 0.41
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (79 bp):
CCTTCGGGACTTAACCGGATATAGTACTCGTACAAATGCCTTCGGGACTTAGCCCGGAATATAGT
AACTCGCACAAATG
Found at i:59505580 original size:40 final size:40
Alignment explanation
Indices: 59505377--59505580 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
59505367 CGGAATTTAA
** *
59505377 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
59505417 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
59505457 CCGGATTTAGTAACTCGTACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
59505496 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
59505536 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
59505576 CCGGA
1 CCGGA
59505581 CATCATTCAA
Statistics
Matches: 137, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 91 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:59508032 original size:79 final size:81
Alignment explanation
Indices: 59507900--59508080 Score: 219
Period size: 79 Copynumber: 2.3 Consensus size: 81
59507890 ATGATGTCCA
* *
59507900 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGTG
1 GGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATTGTG
*
59507964 CGAGATACTA-ATTCCG
66 CGAGATACTATA-ACCG
* * * **
59507980 GGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAATTGT
1 GGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAATTGT
*
59508042 GCGAGTTACTATAACCG
65 GCGAGATACTATAACCG
*
59508059 GGCTATGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
59508081 AACGAGTAGC
Statistics
Matches: 87, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
78 1 0.01
79 57 0.66
80 29 0.33
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
GGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATTGTG
CGAGATACTATAACCG
Found at i:59508094 original size:40 final size:40
Alignment explanation
Indices: 59507900--59508080 Score: 201
Period size: 40 Copynumber: 4.5 Consensus size: 40
59507890 ATGATGTCCA
* * * *
59507900 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCG
* * *
59507940 GACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATTCCG
1 GGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-ACCG
59507980 GGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCG
* *
59508019 GGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCG
*
59508059 GGCTATGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
59508081 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.29
40 76 0.63
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCG
Found at i:59508102 original size:79 final size:79
Alignment explanation
Indices: 59507949--59508113 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
59507939 GGACTAAGAT
* * **
59507949 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
59508014 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
59508028 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
59508091 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
59508107 CCGAAGG
1 CCGAAGG
59508114 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:59510457 original size:93 final size:93
Alignment explanation
Indices: 59510359--59510678 Score: 234
Period size: 93 Copynumber: 3.4 Consensus size: 93
59510349 TGAACACTAT
* *
59510359 TAGCCTCTTAAGGCACTTAGCCAAATTTTAGTAATTTTAAAGCAGGCACC-CTTAAATGGATACT
1 TAGCCTCTTAAGGCACTTAGCCAAATTTTAGTAATTTTAAAGCA-GAACCTCCTAAATGGATACT
*
59510423 ACTT-CTAAGTAAATAGAAGAAAACATTAC
65 ACTTGCTAAGTAAATAGAAGAAAA-AATAC
* * * * * * * * *
59510452 TAGCCTCCTAAAGCACTTCGCCAAATTTTAGTAATGTTAAAGTAGAACCTCCTCAGTGGATATTG
1 TAGCCTCTTAAGGCACTTAGCCAAATTTTAGTAATTTTAAAGCAGAACCTCCTAAATGGATACTA
* * *
59510517 CTTGCTAAGTTAATAGCAGAAAAAATGC
66 CTTGCTAAGTAAATAGAAGAAAAAATAC
* * * * * ** * * * * * *
59510545 TAACTTATTAAGGCACTTAGCCAAATTTCAATAA-TTTAAAAAAAAACACCCCTTAGTGGACATT
1 TAGCCTCTTAAGGCACTTAGCCAAATTTTAGTAATTTTAAAGCAGAAC-CTCCTAAATGGATACT
* * * * * *
59510609 GCTCGCTAAGTTAATAAAAGAGACACA-AC
65 ACTTGCTAAGTAAATAGAAGA-AAAAATAC
* * * *
59510638 TAGTCTCTTAAGGAACTTAGCCAAATTTCAATAATTTTAAA
1 TAGCCTCTTAAGGCACTTAGCCAAATTTTAGTAATTTTAAA
59510679 ATAGACACCC
Statistics
Matches: 181, Mismatches: 41, Indels: 9
0.78 0.18 0.04
Matches are distributed among these distances:
92 13 0.07
93 142 0.78
94 26 0.14
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (93 bp):
TAGCCTCTTAAGGCACTTAGCCAAATTTTAGTAATTTTAAAGCAGAACCTCCTAAATGGATACTA
CTTGCTAAGTAAATAGAAGAAAAAATAC
Found at i:59514609 original size:25 final size:24
Alignment explanation
Indices: 59514581--59514636 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 24
59514571 CCTAATAAAA
*
59514581 AATAATAGATAATTATATAATATAT
1 AATAATAGATAATGA-ATAATATAT
* *
59514606 AATAAAAATATAATGAATAATATAT
1 AAT-AATAGATAATGAATAATATAT
59514631 -ATAATA
1 AATAATA
59514637 AAATGTATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
23 3 0.12
24 2 0.08
25 12 0.46
26 9 0.35
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.36
Consensus pattern (24 bp):
AATAATAGATAATGAATAATATAT
Found at i:59514610 original size:18 final size:16
Alignment explanation
Indices: 59514581--59514637 Score: 53
Period size: 18 Copynumber: 3.3 Consensus size: 16
59514571 CCTAATAAAA
59514581 AATAATAGATAATTATAT
1 AATAATA-ATAA-TATAT
*
59514599 AATATATAATAAAAATAT
1 AATA-ATAAT-AATATAT
59514617 AATGAATAAT-ATATAT
1 AAT-AATAATAATATAT
59514633 AATAA
1 AATAA
59514638 AATGTATAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
15 2 0.06
16 8 0.24
18 18 0.53
19 6 0.18
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (16 bp):
AATAATAATAATATAT
Found at i:59514612 original size:32 final size:34
Alignment explanation
Indices: 59514573--59514636 Score: 98
Period size: 33 Copynumber: 1.9 Consensus size: 34
59514563 AAATTATACC
59514573 TAATAAAAA-ATAAT-AGATAAT-TATATAATATA
1 TAATAAAAATATAATGA-ATAATATATATAATATA
59514605 TAATAAAAATATAATGAATAATATATATAATA
1 TAATAAAAATATAATGAATAATATATATAATA
59514637 AAATGTATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
32 9 0.31
33 10 0.34
34 10 0.34
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (34 bp):
TAATAAAAATATAATGAATAATATATATAATATA
Found at i:59514639 original size:26 final size:24
Alignment explanation
Indices: 59514600--59514687 Score: 99
Period size: 26 Copynumber: 3.5 Consensus size: 24
59514590 TAATTATATA
*
59514600 ATATATAATAAAAATATAATGAATAAT
1 ATATATAAT-AAAATGT-AT-AATAAT
59514627 ATATATAATAAAATGTATAAATCGAA-
1 ATATATAATAAAATGTAT-AAT--AAT
59514653 ATATATAATAAAATGTA-AATAAT
1 ATATATAATAAAATGTATAATAAT
59514676 ATATATAATAAA
1 ATATATAATAAA
59514688 TTTTTTACAT
Statistics
Matches: 56, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
22 2 0.04
23 12 0.21
24 3 0.05
25 5 0.09
26 23 0.41
27 11 0.20
ACGTcount: A:0.61, C:0.01, G:0.05, T:0.33
Consensus pattern (24 bp):
ATATATAATAAAATGTATAATAAT
Found at i:59514645 original size:14 final size:13
Alignment explanation
Indices: 59514601--59514687 Score: 53
Period size: 12 Copynumber: 6.8 Consensus size: 13
59514591 AATTATATAA
59514601 TATATAATAAAA-
1 TATATAATAAAAT
59514613 -ATATAATGAATAAT
1 TATATAAT-AA-AAT
59514627 ATATATAATAAAAT
1 -TATATAATAAAAT
*
59514641 GTATA-AATCGAAA-
1 -TATATAAT-AAAAT
59514654 TATATAATAAAA-
1 TATATAATAAAAT
* *
59514666 TGTA-AATAATA-
1 TATATAATAAAAT
59514677 TATATAATAAA
1 TATATAATAAA
59514688 TTTTTTACAT
Statistics
Matches: 60, Mismatches: 7, Indels: 16
0.72 0.08 0.19
Matches are distributed among these distances:
11 16 0.27
12 17 0.28
13 8 0.13
14 10 0.17
15 2 0.03
16 7 0.12
ACGTcount: A:0.61, C:0.01, G:0.05, T:0.33
Consensus pattern (13 bp):
TATATAATAAAAT
Found at i:59514771 original size:25 final size:25
Alignment explanation
Indices: 59514717--59514770 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
59514707 ATGTTTATGG
*
59514717 TAAAATAAATAAAATATATAATATT
1 TAAAATAAATAAAATATATAAAATT
*
59514742 TAAAATAAATAAACTATA-AAAATT
1 TAAAATAAATAAAATATATAAAATT
59514766 TAAAA
1 TAAAA
59514771 AGGATTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 10 0.37
25 17 0.63
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (25 bp):
TAAAATAAATAAAATATATAAAATT
Found at i:59516356 original size:132 final size:132
Alignment explanation
Indices: 59516170--59516729 Score: 687
Period size: 132 Copynumber: 4.2 Consensus size: 132
59516160 TTGTTTTGCA
* * * * *
59516170 CCCCGCCTAATATAGAGACGCCAAATCAGCTATCTTCGATCTACTT-TCTATCAATACAGAAATG
1 CCCCGTCTAATACAGAGACGCCAAATCAGCTATCTTCGATCT-GTTCTCTGTCAATACAGAGATG
** **
59516234 TTAGATGTGCTTTCTTCGATCTGCTCTCCGTCAATACAGAGACGTTAAATCTGCTTCTTCGATCT
65 CCAGATGTGCTTTCTTCGATCTGCTCTCCGTCAATACAGAGACGCCAAATCTGCTTCTTCGATCT
59516299 GCT
130 GCT
59516302 CCCCGTCTAATACAGAGACGCCAAATCAGCTATCTTCGATCTGTTCTCTGTCAATACAGAGATGC
1 CCCCGTCTAATACAGAGACGCCAAATCAGCTATCTTCGATCTGTTCTCTGTCAATACAGAGATGC
* *
59516367 CAGATGTGCTTTCTTTGATCTGCTCTCCGTCAATACAGAGACGCCAAACCTGCTTCTTCGATCTG
66 CAGATGTGCTTTCTTCGATCTGCTCTCCGTCAATACAGAGACGCCAAATCTGCTTCTTCGATCTG
59516432 CT
131 CT
* * *
59516434 CCCCGTCTAATACAGAGATGCCAAATCAGCTATCTTTGATCTGCTCTCTGTCAATACAGAGATGC
1 CCCCGTCTAATACAGAGACGCCAAATCAGCTATCTTCGATCTGTTCTCTGTCAATACAGAGATGC
* * * *
59516499 CAGGTGTGTTTTCTTTGATCTGCTCTCCGTCAATACAGAGACGCCAAATCTGCTCCTTCGATCTG
66 CAGATGTGCTTTCTTCGATCTGCTCTCCGTCAATACAGAGACGCCAAATCTGCTTCTTCGATCTG
59516564 CT
131 CT
* * * * ** * * **
59516566 CTCTGAC-AATACAGAGACGCCAAACCCTCTATCTTCGATTTGTTCTCTG-CTAATATAGAGACA
1 CCCCGTCTAATACAGAGACGCCAAATCAGCTATCTTCGATCTGTTCTCTGTC-AATACAGAGATG
* * * * * * *
59516629 CCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACTCAAAATCTGCTATCTTCGATC
65 CCAGATGTGCTTTCTTCGATCTGCTCTCCGTCAATACAGAGACGCCAAATCTGCT-TCTTCGATC
*
59516694 CGCT
129 TGCT
* * * * * *
59516698 CTCTG-CCAATATAGAGACGCTAAATCTGCTAT
1 CCCCGTCTAATACAGAGACGCCAAATCAGCTAT
59516730 TGGTAATCTA
Statistics
Matches: 376, Mismatches: 48, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
130 1 0.00
131 92 0.24
132 283 0.75
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (132 bp):
CCCCGTCTAATACAGAGACGCCAAATCAGCTATCTTCGATCTGTTCTCTGTCAATACAGAGATGC
CAGATGTGCTTTCTTCGATCTGCTCTCCGTCAATACAGAGACGCCAAATCTGCTTCTTCGATCTG
CT
Found at i:59516728 original size:44 final size:44
Alignment explanation
Indices: 59516178--59516729 Score: 556
Period size: 44 Copynumber: 12.6 Consensus size: 44
59516168 CACCCCGCCT
* * * * *
59516178 AATATAGAGACGCCAAATCAGCTATCTTCGATCTACTTTCTATC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGTC
* * ** * * * *
59516222 AATACAGAAATGTTAGATGTGCTTTCTTCGATCTGCTCTCCGTC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGTC
** * *
59516266 AATACAGAGACGTTAAATCTGCT-TCTTCGATCTGCTCCCCGTC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGTC
* *
59516309 TAATACAGAGACGCCAAATCAGCTATCTTCGATCTGTTCTCTGTC
1 -AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGTC
* * * * * *
59516354 AATACAGAGATGCCAGATGTGCTTTCTTTGATCTGCTCTCCGTC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGTC
* * *
59516398 AATACAGAGACGCCAAACCTGCT-TCTTCGATCTGCTCCCCGTC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGTC
* * *
59516441 TAATACAGAGATGCCAAATCAGCTATCTTTGATCTGCTCTCTGTC
1 -AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGTC
* ** * * * * *
59516486 AATACAGAGATGCCAGGTGTGTTTTCTTTGATCTGCTCTCCGTC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGTC
* *
59516530 AATACAGAGACGCCAAATCTGCT-CCTTCGATCTGCTCTCTGAC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGTC
* * *
59516573 AATACAGAGACGCCAAACCCT-CTATCTTCGATTTGTTCTCTG-C
1 AATACAGAGACGCCAAA-TCTGCTATCTTCGATCTGCTCTCTGTC
* * *
59516616 TAATATAGAGACACCAAATCTGCTATCTTCGATCTGCTCTCTGAC
1 -AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGTC
* * * *
59516661 AATACAGAGACTCAAAATCTGCTATCTTCGATCCGCTCTCTGCC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGTC
* *
59516705 AATATAGAGACGCTAAATCTGCTAT
1 AATACAGAGACGCCAAATCTGCTAT
59516730 TGGTAATCTA
Statistics
Matches: 422, Mismatches: 77, Indels: 18
0.82 0.15 0.03
Matches are distributed among these distances:
43 75 0.18
44 312 0.74
45 35 0.08
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.31
Consensus pattern (44 bp):
AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGTC
Found at i:59517815 original size:32 final size:32
Alignment explanation
Indices: 59517774--59517837 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
59517764 CACCAGAGAA
59517774 AGCCTTCTTCACAACATACGGTCCTTCCCAAT
1 AGCCTTCTTCACAACATACGGTCCTTCCCAAT
59517806 AGCCTTCTTCACAACATACGGTCCTTCCCAAT
1 AGCCTTCTTCACAACATACGGTCCTTCCCAAT
59517838 TCGGCATCCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.25, C:0.38, G:0.09, T:0.28
Consensus pattern (32 bp):
AGCCTTCTTCACAACATACGGTCCTTCCCAAT
Found at i:59528849 original size:25 final size:24
Alignment explanation
Indices: 59528821--59528876 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 24
59528811 CCTAATAAAA
*
59528821 AATAATAGATAATTATATAATATAT
1 AATAATAGATAATGA-ATAATATAT
* *
59528846 AATAAAAATATAATGAATAATATAT
1 AAT-AATAGATAATGAATAATATAT
59528871 -ATAATA
1 AATAATA
59528877 AAATGTATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
23 3 0.12
24 2 0.08
25 12 0.46
26 9 0.35
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.36
Consensus pattern (24 bp):
AATAATAGATAATGAATAATATAT
Found at i:59528850 original size:18 final size:16
Alignment explanation
Indices: 59528821--59528877 Score: 53
Period size: 18 Copynumber: 3.3 Consensus size: 16
59528811 CCTAATAAAA
59528821 AATAATAGATAATTATAT
1 AATAATA-ATAA-TATAT
*
59528839 AATATATAATAAAAATAT
1 AATA-ATAAT-AATATAT
59528857 AATGAATAAT-ATATAT
1 AAT-AATAATAATATAT
59528873 AATAA
1 AATAA
59528878 AATGTATAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
15 2 0.06
16 8 0.24
18 18 0.53
19 6 0.18
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (16 bp):
AATAATAATAATATAT
Found at i:59528852 original size:32 final size:34
Alignment explanation
Indices: 59528813--59528876 Score: 98
Period size: 33 Copynumber: 1.9 Consensus size: 34
59528803 AAATTATACC
59528813 TAATAAAAA-ATAAT-AGATAAT-TATATAATATA
1 TAATAAAAATATAATGA-ATAATATATATAATATA
59528845 TAATAAAAATATAATGAATAATATATATAATA
1 TAATAAAAATATAATGAATAATATATATAATA
59528877 AAATGTATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
32 9 0.31
33 10 0.34
34 10 0.34
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (34 bp):
TAATAAAAATATAATGAATAATATATATAATATA
Found at i:59528879 original size:26 final size:25
Alignment explanation
Indices: 59528839--59528906 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 25
59528829 ATAATTATAT
*
59528839 AATATATAATAAAAATATAATGAAT-A
1 AATATATAAT-AAAATAT-ATAAATCA
*
59528865 ATATATATAATAAAATGTATAAATCGA
1 A-ATATATAATAAAATATATAAATC-A
59528892 AATATATAATAAAAT
1 AATATATAATAAAAT
59528907 GTAAATAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
25 5 0.14
26 21 0.57
27 11 0.30
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.32
Consensus pattern (25 bp):
AATATATAATAAAATATATAAATCA
Found at i:59528881 original size:21 final size:21
Alignment explanation
Indices: 59528852--59528943 Score: 66
Period size: 26 Copynumber: 4.2 Consensus size: 21
59528842 ATATAATAAA
*
59528852 AATATAATGAATAATATATAT
1 AATAAAATGAATAATATATAT
*
59528873 AATAAAATGTATAAATCGAAATATAT
1 AATAAAATGAAT-AAT----ATATAT
*
59528899 AATAAAATGTAAATAATATA-AA
1 AATAAAATG--AATAATATATAT
59528921 AAT-AAA--AATAATATATAT
1 AATAAAATGAATAATATATAT
59528939 AATAA
1 AATAA
59528944 TTTTTTTACA
Statistics
Matches: 57, Mismatches: 5, Indels: 20
0.70 0.06 0.24
Matches are distributed among these distances:
17 9 0.16
18 4 0.07
19 1 0.02
21 13 0.23
22 7 0.12
23 3 0.05
26 15 0.26
27 3 0.05
28 2 0.04
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (21 bp):
AATAAAATGAATAATATATAT
Found at i:59528885 original size:14 final size:13
Alignment explanation
Indices: 59528841--59528916 Score: 52
Period size: 14 Copynumber: 5.7 Consensus size: 13
59528831 AATTATATAA
59528841 TATATAATAAAA-
1 TATATAATAAAAT
59528853 -ATATAATGAATAAT
1 TATATAAT-AA-AAT
59528867 ATATATAATAAAAT
1 -TATATAATAAAAT
*
59528881 GTATA-AATCGAAA-
1 -TATATAAT-AAAAT
59528894 TATATAATAAAAT
1 TATATAATAAAAT
*
59528907 GTAAATAATA
1 -TATATAATA
59528917 TAAAAATAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 16
0.72 0.06 0.23
Matches are distributed among these distances:
11 7 0.14
12 9 0.18
13 8 0.16
14 18 0.35
15 2 0.04
16 7 0.14
ACGTcount: A:0.61, C:0.01, G:0.05, T:0.33
Consensus pattern (13 bp):
TATATAATAAAAT
Found at i:59529002 original size:25 final size:24
Alignment explanation
Indices: 59528974--59529027 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 24
59528964 ATGTTTATGG
59528974 TAAAATAAATAAAATA-AATAATATT
1 TAAAATAAATAAAATATAA-AA-ATT
*
59528999 TAAAATAAATAAACTATAAAAATT
1 TAAAATAAATAAAATATAAAAATT
59529023 TAAAA
1 TAAAA
59529028 AGGATTAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 8 0.30
25 17 0.63
26 2 0.07
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.30
Consensus pattern (24 bp):
TAAAATAAATAAAATATAAAAATT
Found at i:59529018 original size:16 final size:16
Alignment explanation
Indices: 59528977--59529019 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
59528967 TTTATGGTAA
*
59528977 AATAAATAAAATAAAT
1 AATATATAAAATAAAT
*
59528993 AATATTTAAAATAAAT
1 AATATATAAAATAAAT
59529009 AA-ACTATAAAA
1 AATA-TATAAAA
59529020 ATTTAAAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 1 0.04
16 22 0.96
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (16 bp):
AATATATAAAATAAAT
Found at i:59531251 original size:7 final size:7
Alignment explanation
Indices: 59531239--59531263 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
59531229 AAACCCATGC
59531239 TTGAATT
1 TTGAATT
59531246 TTGAATT
1 TTGAATT
59531253 TTGAATT
1 TTGAATT
59531260 TTGA
1 TTGA
59531264 TGAATATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (7 bp):
TTGAATT
Found at i:59537970 original size:14 final size:14
Alignment explanation
Indices: 59537951--59537985 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
59537941 AATCTTTAAT
59537951 CATATTCAACATGA
1 CATATTCAACATGA
59537965 CATATTCAACATGA
1 CATATTCAACATGA
59537979 CATATTC
1 CATATTC
59537986 GTTTCATTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.40, C:0.23, G:0.06, T:0.31
Consensus pattern (14 bp):
CATATTCAACATGA
Found at i:59538151 original size:223 final size:223
Alignment explanation
Indices: 59537763--59538181 Score: 811
Period size: 223 Copynumber: 1.9 Consensus size: 223
59537753 CACGTGATCA
*
59537763 GTTTCATTACCACATCGAATCATAATCCCAATTAACAGTTTAATATGACTATGTCAAAAGATGCA
1 GTTTCATTACCACATCGAATCATAATCCCAATTAACAGTTTAATATGACTATGTCAAAAGACGCA
59537828 TTCAACCCACAACATAGCTTCCTACATCATCAACTAATATGTATATCACATTTCATAAATCTTTG
66 TTCAACCCACAACATAGCTTCCTACATCATCAACTAATATGTATATCACATTTCATAAATCTTTG
59537893 TCTATCTCAACTTCAATCAACATGACATATTCATATATATGTGCGTATAATCTTTAATCATATTC
131 TCTATCTCAACTTCAATCAACATGACATATTCATATATATGTGCGTATAATCTTTAATCATATTC
59537958 AACATGACATATTCAACATGACATATTC
196 AACATGACATATTCAACATGACATATTC
59537986 GTTTCATTACCACATCGAATCATAATCCCAATTAACAGTTTAATATGACTATGTCAAAAGACGCA
1 GTTTCATTACCACATCGAATCATAATCCCAATTAACAGTTTAATATGACTATGTCAAAAGACGCA
*
59538051 TTCAACCCACAACATAGCTTCCTGCATCATCAACTAATATGTATATCACATTTCATAAATCTTTG
66 TTCAACCCACAACATAGCTTCCTACATCATCAACTAATATGTATATCACATTTCATAAATCTTTG
*
59538116 TCTATCTCAACTTCAATCAACATGACATATTCATATATATGTGTGTATAATCTTTAATCATATTC
131 TCTATCTCAACTTCAATCAACATGACATATTCATATATATGTGCGTATAATCTTTAATCATATTC
59538181 A
196 A
59538182 CATATAATAC
Statistics
Matches: 193, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
223 193 1.00
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.34
Consensus pattern (223 bp):
GTTTCATTACCACATCGAATCATAATCCCAATTAACAGTTTAATATGACTATGTCAAAAGACGCA
TTCAACCCACAACATAGCTTCCTACATCATCAACTAATATGTATATCACATTTCATAAATCTTTG
TCTATCTCAACTTCAATCAACATGACATATTCATATATATGTGCGTATAATCTTTAATCATATTC
AACATGACATATTCAACATGACATATTC
Done.