Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 279 of 332
Found at i:93314540 original size:15 final size:15
Alignment explanation
Indices: 93314505--93314546 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
93314495 TTAAGAATTT
*
93314505 TATTAAATTAT-ATA
1 TATTTAATTATAATA
93314519 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
93314533 TATTTAATAATAAT
1 TATTTAATTATAAT
93314547 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:93314786 original size:16 final size:16
Alignment explanation
Indices: 93314765--93314803 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
93314755 TTGATTTGCT
*
93314765 ATTACACAGCTTTTCC
1 ATTACACAGCTATTCC
**
93314781 ATTACACCTCTATTCC
1 ATTACACAGCTATTCC
93314797 ATTACAC
1 ATTACAC
93314804 CTCTAATCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.33, G:0.03, T:0.36
Consensus pattern (16 bp):
ATTACACAGCTATTCC
Found at i:93314804 original size:16 final size:16
Alignment explanation
Indices: 93314778--93314834 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
93314768 ACACAGCTTT
* *
93314778 TCCATTACACCTCTAT
1 TCCAATACACCTCTAA
*
93314794 TCCATTACACCTCTAA
1 TCCAATACACCTCTAA
93314810 TCCAATACACCTCTAA
1 TCCAATACACCTCTAA
93314826 TCCAATACA
1 TCCAATACA
93314835 GCGAACCAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (16 bp):
TCCAATACACCTCTAA
Found at i:93315591 original size:45 final size:45
Alignment explanation
Indices: 93315525--93315613 Score: 169
Period size: 45 Copynumber: 2.0 Consensus size: 45
93315515 AGTTTGAGAG
93315525 AATTTCTTTAAACACTATTAAGTTTTCGTGTACAGACGCACCTTT
1 AATTTCTTTAAACACTATTAAGTTTTCGTGTACAGACGCACCTTT
*
93315570 AATTTCTTTAAACACTGTTAAGTTTTCGTGTACAGACGCACCTT
1 AATTTCTTTAAACACTATTAAGTTTTCGTGTACAGACGCACCTT
93315614 CCTCCAAACG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.39
Consensus pattern (45 bp):
AATTTCTTTAAACACTATTAAGTTTTCGTGTACAGACGCACCTTT
Found at i:93319186 original size:6 final size:6
Alignment explanation
Indices: 93319175--93319207 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
93319165 AATGAAGCAT
*
93319175 TTTTCA TTTTCA TTTTTA TTTTCA TTTTCA TTT
1 TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTT
93319208 CTATTTTTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.73
Consensus pattern (6 bp):
TTTTCA
Found at i:93319195 original size:12 final size:12
Alignment explanation
Indices: 93319172--93319216 Score: 56
Period size: 12 Copynumber: 3.7 Consensus size: 12
93319162 GCAAATGAAG
93319172 CATTTTTCATTTT
1 CATTTTT-ATTTT
93319185 CATTTTTATTTT
1 CATTTTTATTTT
*
93319197 CATTTTCA-TTT
1 CATTTTTATTTT
93319208 CTATTTTTA
1 C-ATTTTTA
93319217 GAAAACCACA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
11 4 0.14
12 18 0.62
13 7 0.24
ACGTcount: A:0.18, C:0.13, G:0.00, T:0.69
Consensus pattern (12 bp):
CATTTTTATTTT
Found at i:93319198 original size:18 final size:18
Alignment explanation
Indices: 93319175--93319214 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
93319165 AATGAAGCAT
*
93319175 TTTTCATTTTCATTTTTA
1 TTTTCATTTTCATTTCTA
93319193 TTTTCATTTTCATTTCTA
1 TTTTCATTTTCATTTCTA
93319211 TTTT
1 TTTT
93319215 TAGAAAACCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTTCATTTTCATTTCTA
Found at i:93320916 original size:14 final size:14
Alignment explanation
Indices: 93320897--93321003 Score: 70
Period size: 14 Copynumber: 7.4 Consensus size: 14
93320887 CATGGTAGAC
93320897 TCATACATGTGGAT
1 TCATACATGTGGAT
* *
93320911 TCATACTTGGTGGAC
1 TCATACAT-GTGGAT
* *
93320926 TCGTATATGTGGAT
1 TCATACATGTGGAT
* *
93320940 TCATACTTGGTGGAC
1 TCATACAT-GTGGAT
* *
93320955 TCATACACGAGGAT
1 TCATACATGTGGAT
* * *
93320969 TCATACTTGGTGAAC
1 TCATACAT-GTGGAT
**
93320984 TCATACATAAGGAT
1 TCATACATGTGGAT
93320998 TCATAC
1 TCATAC
93321004 TTACAATTAG
Statistics
Matches: 66, Mismatches: 24, Indels: 6
0.69 0.25 0.06
Matches are distributed among these distances:
14 35 0.53
15 31 0.47
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (14 bp):
TCATACATGTGGAT
Found at i:93320923 original size:15 final size:15
Alignment explanation
Indices: 93320905--93320980 Score: 68
Period size: 15 Copynumber: 5.2 Consensus size: 15
93320895 ACTCATACAT
93320905 GTGGATTCATACTTG
1 GTGGATTCATACTTG
* *
93320920 GTGGACTCGTA-TAT-
1 GTGGATTCATACT-TG
93320934 GTGGATTCATACTTG
1 GTGGATTCATACTTG
* **
93320949 GTGGACTCATAC-AC
1 GTGGATTCATACTTG
*
93320963 GAGGATTCATACTTG
1 GTGGATTCATACTTG
93320978 GTG
1 GTG
93320981 AACTCATACA
Statistics
Matches: 45, Mismatches: 12, Indels: 8
0.69 0.18 0.12
Matches are distributed among these distances:
14 21 0.47
15 24 0.53
ACGTcount: A:0.22, C:0.16, G:0.28, T:0.34
Consensus pattern (15 bp):
GTGGATTCATACTTG
Found at i:93320935 original size:29 final size:29
Alignment explanation
Indices: 93320889--93321005 Score: 162
Period size: 29 Copynumber: 4.0 Consensus size: 29
93320879 CACAAAGACA
* *
93320889 TGGTAGACTCATACATGTGGATTCATACT
1 TGGTGGACTCATACATGAGGATTCATACT
* * *
93320918 TGGTGGACTCGTATATGTGGATTCATACT
1 TGGTGGACTCATACATGAGGATTCATACT
*
93320947 TGGTGGACTCATACACGAGGATTCATACT
1 TGGTGGACTCATACATGAGGATTCATACT
* *
93320976 TGGTGAACTCATACATAAGGATTCATACT
1 TGGTGGACTCATACATGAGGATTCATACT
93321005 T
1 T
93321006 ACAATTAGTT
Statistics
Matches: 78, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 78 1.00
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.33
Consensus pattern (29 bp):
TGGTGGACTCATACATGAGGATTCATACT
Found at i:93321211 original size:34 final size:33
Alignment explanation
Indices: 93321173--93321273 Score: 100
Period size: 31 Copynumber: 3.1 Consensus size: 33
93321163 CTCTTGCTTG
93321173 AAAGATAGTCCCTGCGAACTTTTGCATGAAAGAT
1 AAAGATAGTCCCTGC-AACTTTTGCATGAAAGAT
* * *
93321207 AAAG--A-TCTCTGCTAACTTTTGCTTAAAAGAT
1 AAAGATAGTCCCTGC-AACTTTTGCATGAAAGAT
* * *
93321238 AAAGATAGTCCTTGCAGGCTCTTGCATGAAAGAT
1 AAAGATAGTCCCTGCA-ACTTTTGCATGAAAGAT
93321272 AA
1 AA
93321274 TCCCTACGGA
Statistics
Matches: 53, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
31 26 0.49
32 1 0.02
33 2 0.04
34 24 0.45
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.29
Consensus pattern (33 bp):
AAAGATAGTCCCTGCAACTTTTGCATGAAAGAT
Found at i:93321397 original size:28 final size:28
Alignment explanation
Indices: 93321011--93321397 Score: 238
Period size: 28 Copynumber: 13.5 Consensus size: 28
93321001 TACTTACAAT
* *
93321011 TAGTTCCTGCGGACTCTTGCTTGAAAGA
1 TAGTCCCTGCGGACTCTTGCATGAAAGA
*
93321039 TAG-CCCTACGGACTCTTGCATGAAAGA
1 TAGTCCCTGCGGACTCTTGCATGAAAGA
* * * * *
93321066 TGGTCCTTGTGAACTCTTGCTTGAAAGA
1 TAGTCCCTGCGGACTCTTGCATGAAAGA
* * ** * *
93321094 TAGTCTCTACAAACTCCTGCTTGAAAGA
1 TAGTCCCTGCGGACTCTTGCATGAAAGA
** * * *
93321122 TAGTCATTGCAGAATCTTGCATAAAAGA
1 TAGTCCCTGCGGACTCTTGCATGAAAGA
* * *
93321150 TAGTCCTTGCAGACTCTTGCTTGAAAGA
1 TAGTCCCTGCGGACTCTTGCATGAAAGA
* *
93321178 TAGTCCCTGCGAACTTTTGCATGAAAGA
1 TAGTCCCTGCGGACTCTTGCATGAAAGA
* ** * *
93321206 TAAAGATCTCTGCTAACTTTTGCTTAAAAGATAAAGA
1 T--AG-TCCCTGCGGACTCTTGC----ATG--AAAGA
*
93321243 TAGTCCTTGCAGG-CTCTTGCATGAAAGA
1 TAGTCCCTGC-GGACTCTTGCATGAAAGA
* * * *
93321271 TAATCCCTACGGACTATTGCTTGAAAGA
1 TAGTCCCTGCGGACTCTTGCATGAAAGA
* * * * *
93321299 TAATCCCTACGGACTCTTGTATTAATGA
1 TAGTCCCTGCGGACTCTTGCATGAAAGA
* ** *
93321327 TAGTCTCTATGGACTCTTGCTTGAAAGA
1 TAGTCCCTGCGGACTCTTGCATGAAAGA
* ** *
93321355 TAGTCCCCGTAGACTTTTGCATGAAAGA
1 TAGTCCCTGCGGACTCTTGCATGAAAGA
*
93321383 TAGTCCCTACGGACT
1 TAGTCCCTGCGGACT
93321398 GTCATAACTT
Statistics
Matches: 278, Mismatches: 69, Indels: 24
0.75 0.19 0.06
Matches are distributed among these distances:
27 25 0.09
28 213 0.77
30 4 0.01
31 15 0.05
34 11 0.04
35 4 0.01
37 6 0.02
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (28 bp):
TAGTCCCTGCGGACTCTTGCATGAAAGA
Found at i:93330018 original size:13 final size:13
Alignment explanation
Indices: 93330000--93330029 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
93329990 TAAATCTCAC
93330000 TAATTAATACTAT
1 TAATTAATACTAT
*
93330013 TAATTAATATTAT
1 TAATTAATACTAT
93330026 TAAT
1 TAAT
93330030 GTGTTATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (13 bp):
TAATTAATACTAT
Found at i:93335427 original size:3 final size:3
Alignment explanation
Indices: 93335414--93335451 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
93335404 TTCCATTTTC
* *
93335414 TCT TTT TCT TCT TCT TCT TCT TTT TC- TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
93335452 ATTGCCAGGG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TCT
Found at i:93335437 original size:17 final size:17
Alignment explanation
Indices: 93335414--93335451 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
93335404 TTCCATTTTC
93335414 TCTTTTTCTTCTTCTTCT
1 TCTTTTTC-TCTTCTTCT
93335432 TCTTTTTCTCTTCTTCT
1 TCTTTTTCTCTTCTTCT
93335449 TCT
1 TCT
93335452 ATTGCCAGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (17 bp):
TCTTTTTCTCTTCTTCT
Found at i:93338628 original size:22 final size:22
Alignment explanation
Indices: 93338603--93338655 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
93338593 ATATTCAAAC
* *
93338603 AATAACAATAAAATAATAGTAA
1 AATAACAACAAAATAATAGCAA
* **
93338625 AATAGCAACAAAATTGTAGCAA
1 AATAACAACAAAATAATAGCAA
93338647 AATAACAAC
1 AATAACAAC
93338656 GAAACAACAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.62, C:0.11, G:0.08, T:0.19
Consensus pattern (22 bp):
AATAACAACAAAATAATAGCAA
Found at i:93340205 original size:30 final size:30
Alignment explanation
Indices: 93340169--93340229 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
93340159 TTACACATAT
93340169 ATAGTCAGTTACTTACTCAGGATTAATGTA
1 ATAGTCAGTTACTTACTCAGGATTAATGTA
93340199 ATAGTCAGTTACTTACTCAGGATTAATGTA
1 ATAGTCAGTTACTTACTCAGGATTAATGTA
93340229 A
1 A
93340230 GTCACGCTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.36
Consensus pattern (30 bp):
ATAGTCAGTTACTTACTCAGGATTAATGTA
Found at i:93347864 original size:15 final size:16
Alignment explanation
Indices: 93347844--93347873 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
93347834 GAAAATTGCC
93347844 AAAATGGG-CTAAATA
1 AAAATGGGACTAAATA
93347859 AAAATGGGACTAAAT
1 AAAATGGGACTAAAT
93347874 TGGAATATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.53, C:0.07, G:0.20, T:0.20
Consensus pattern (16 bp):
AAAATGGGACTAAATA
Found at i:93350459 original size:3 final size:3
Alignment explanation
Indices: 93350451--93350515 Score: 80
Period size: 3 Copynumber: 21.7 Consensus size: 3
93350441 AAGCACTATC
*
93350451 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA- GAT TCAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT
*
93350496 T-T TATT TAT TCT TAT TAT TA
1 TAT TA-T TAT TAT TAT TAT TA
93350516 CATTCATTAA
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
2 3 0.06
3 45 0.83
4 6 0.11
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:93352236 original size:43 final size:43
Alignment explanation
Indices: 93352188--93352292 Score: 176
Period size: 43 Copynumber: 2.4 Consensus size: 43
93352178 TAACGATATG
*
93352188 TGATTATGTGTAAGACCATGTTTAGGACATTGGCATCATTATT
1 TGATTATGTGTAAGACCATGTCTAGGACATTGGCATCATTATT
*
93352231 TGATTACGTGTAAGACCATGTCTAGGACATTGGCATCATTATT
1 TGATTATGTGTAAGACCATGTCTAGGACATTGGCATCATTATT
93352274 TGATT-TCGTGTAAGACCAT
1 TGATTAT-GTGTAAGACCAT
93352293 AGCTGAGCTA
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (43 bp):
TGATTATGTGTAAGACCATGTCTAGGACATTGGCATCATTATT
Found at i:93354683 original size:40 final size:40
Alignment explanation
Indices: 93354630--93354725 Score: 115
Period size: 40 Copynumber: 2.4 Consensus size: 40
93354620 CTATCTCGGT
* *
93354630 ATCGCACAGTTAGTGCCT-TGTATAGCCAAAGCTATTCCA
1 ATCGCACATTTAGTGCCTATGTATAACCAAAGCTATTCCA
* **
93354669 ATTCGCACATTTAGTG-CTATTTATAACCAAAGCTATTTGA
1 A-TCGCACATTTAGTGCCTATGTATAACCAAAGCTATTCCA
*
93354709 ATCGTACATTTAGTGCC
1 ATCGCACATTTAGTGCC
93354726 AAACATAGTC
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
39 16 0.33
40 32 0.67
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (40 bp):
ATCGCACATTTAGTGCCTATGTATAACCAAAGCTATTCCA
Found at i:93362196 original size:24 final size:24
Alignment explanation
Indices: 93362169--93362214 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
93362159 GAATTTAACA
93362169 TTCAAAT-CAGCACACATAGTGCCT
1 TTCAAATAC-GCACACATAGTGCCT
* *
93362193 TTCAACTACGCACACGTAGTGC
1 TTCAAATACGCACACATAGTGC
93362215 TAGTATCGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 18 0.95
25 1 0.05
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.24
Consensus pattern (24 bp):
TTCAAATACGCACACATAGTGCCT
Found at i:93370061 original size:24 final size:24
Alignment explanation
Indices: 93370034--93370079 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
93370024 GAATTTAACA
93370034 TTCAAAT-CAGCACACATAGTGCCT
1 TTCAAATAC-GCACACATAGTGCCT
* *
93370058 TTCAACTACGCACACGTAGTGC
1 TTCAAATACGCACACATAGTGC
93370080 TAGTATCGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 18 0.95
25 1 0.05
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.24
Consensus pattern (24 bp):
TTCAAATACGCACACATAGTGCCT
Found at i:93388045 original size:98 final size:96
Alignment explanation
Indices: 93387900--93388090 Score: 269
Period size: 98 Copynumber: 2.0 Consensus size: 96
93387890 GTTTTTTTTA
93387900 TTTTTAATTAATAAATTTTTATCTATATAATAAAATAATAAATATGTAATTATATAATAAAAATA
1 TTTTTAATTAATAAATTTTTATCTATATAATAAAATAATAAATATGTAATTATATAATAAAAATA
*
93387965 TATT-TGATATATTTC-ATTATGTTAAAAATAT
66 T-TTATGATATA-TACGATTATGTTAAAAATAT
* * * * *
93387996 TTTTTAATTAATAACTCTTTTATTTATATAAATAAAATAATAAATATGTAGTTGTATAATGAAAA
1 TTTTTAATTAATAAAT-TTTTATCTATAT-AATAAAATAATAAATATGTAATTATATAATAAAAA
*
93388061 TATTTATTATATATACGATTATGTTAAAAA
64 TATTTATGATATATACGATTATGTTAAAAA
93388091 GGTAAAATTA
Statistics
Matches: 84, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
96 15 0.18
97 15 0.18
98 54 0.64
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.46
Consensus pattern (96 bp):
TTTTTAATTAATAAATTTTTATCTATATAATAAAATAATAAATATGTAATTATATAATAAAAATA
TTTATGATATATACGATTATGTTAAAAATAT
Found at i:93391825 original size:77 final size:75
Alignment explanation
Indices: 93391689--93391831 Score: 214
Period size: 77 Copynumber: 1.9 Consensus size: 75
93391679 ATAAAAATAT
* ** *
93391689 ATATATTTTAATATATAACTACATATTTATTATTTTATTTATATAAATAATGGAGTTATTATATT
1 ATATATTTTAATATATAACTACATATTTATTATCTTATTTATATAAATAAAAGAATTATTA-ATT
93391754 AACATAATGAA
65 AACATAATGAA
* *
93391765 ATATATTTTCATTATATAATTACATATTTATTATCTTATTTATATAAATAAAAGAATTATTAATT
1 ATATATTTT-AATATATAACTACATATTTATTATCTTATTTATATAAATAAAAGAATTATTAATT
93391830 AA
65 AA
93391832 AAATAAAATA
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
76 14 0.23
77 46 0.77
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.48
Consensus pattern (75 bp):
ATATATTTTAATATATAACTACATATTTATTATCTTATTTATATAAATAAAAGAATTATTAATTA
ACATAATGAA
Found at i:93393630 original size:21 final size:22
Alignment explanation
Indices: 93393604--93393655 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 22
93393594 ATTCTAAATT
93393604 AATAAAATAAA-AATAAAAAGA
1 AATAAAATAAATAATAAAAAGA
**
93393625 AAT-AAATAAATAATAAAACTA
1 AATAAAATAAATAATAAAAAGA
93393646 AATAAAATAA
1 AATAAAATAA
93393656 TATCTTCTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 7 0.26
21 14 0.52
22 6 0.22
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (22 bp):
AATAAAATAAATAATAAAAAGA
Found at i:93393653 original size:18 final size:19
Alignment explanation
Indices: 93393608--93393657 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
93393598 TAAATTAATA
*
93393608 AAATAAAAATAAAAAGAAAT
1 AAAT-AAAATAATAAGAAAT
*
93393628 AAAT-AAATAATAA-AACT
1 AAATAAAATAATAAGAAAT
93393645 AAATAAAATAATA
1 AAATAAAATAATA
93393658 TCTTCTATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 7 0.26
18 16 0.59
20 4 0.15
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (19 bp):
AAATAAAATAATAAGAAAT
Found at i:93394988 original size:131 final size:132
Alignment explanation
Indices: 93394814--93395068 Score: 368
Period size: 131 Copynumber: 1.9 Consensus size: 132
93394804 AAAACACGAA
* * * * *
93394814 TGAAATTTCAAAGGAATATTCGATCATTTTGAACAAGCGGGAAATCGCAACCCAGCACGATAGGG
1 TGAAATTCCAAAGGAACATTCGATCATTTTGAACAAACAGGAAATCGCAACCCAACACGATAGGG
* *
93394879 CACTATTCCCCGAATTGCCAAACACCGAACATTACCTTAG-TTTTGAAGAATTTTTAAAGACATG
66 CACGATTCCCCGAATTACCAAACACCGAACATTACCTTAGTTTTTGAAGAATTTTTAAAGACATG
93394943 AG
131 AG
**
93394945 TGAAATTCCAAAGGAACATTCGATTGTTTTGAACAAACAGGAAATCGCAACCCAACACGATAGGG
1 TGAAATTCCAAAGGAACATTCGATCATTTTGAACAAACAGGAAATCGCAACCCAACACGATAGGG
* * * * * *
93395010 CACGATTCCCCGATTTACTAAACATCGAACATTGCCTTCGTTTTTTAAGAATTTTTAAA
66 CACGATTCCCCGAATTACCAAACACCGAACATTACCTTAGTTTTTGAAGAATTTTTAAA
93395069 TGGATAATGA
Statistics
Matches: 108, Mismatches: 15, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
131 91 0.84
132 17 0.16
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.27
Consensus pattern (132 bp):
TGAAATTCCAAAGGAACATTCGATCATTTTGAACAAACAGGAAATCGCAACCCAACACGATAGGG
CACGATTCCCCGAATTACCAAACACCGAACATTACCTTAGTTTTTGAAGAATTTTTAAAGACATG
AG
Found at i:93395334 original size:21 final size:21
Alignment explanation
Indices: 93395309--93395352 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
93395299 AATGACATCA
93395309 AAAAATAAATGAATATGGTAC
1 AAAAATAAATGAATATGGTAC
93395330 AAAAATAAATGAATATGGTAC
1 AAAAATAAATGAATATGGTAC
93395351 AA
1 AA
93395353 CCAATATACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.59, C:0.05, G:0.14, T:0.23
Consensus pattern (21 bp):
AAAAATAAATGAATATGGTAC
Found at i:93401682 original size:28 final size:28
Alignment explanation
Indices: 93401642--93401697 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
93401632 TGGGTTGTTG
93401642 ACTCGAACGAAGTGGTCATACTATAATT
1 ACTCGAACGAAGTGGTCATACTATAATT
93401670 ACTCGAACGAAGTGGTCATACTATAATT
1 ACTCGAACGAAGTGGTCATACTATAATT
93401698 TCTCCCTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (28 bp):
ACTCGAACGAAGTGGTCATACTATAATT
Found at i:93402885 original size:22 final size:22
Alignment explanation
Indices: 93402825--93402890 Score: 55
Period size: 22 Copynumber: 3.0 Consensus size: 22
93402815 CAGTTCTTGC
*
93402825 GCAGATGGATCTAGAGGATGCCCT
1 GCAGATGGATCTAGAAGATG--CT
**
93402849 GCTAG--GGATAGAGAAGATGCT
1 GC-AGATGGATCTAGAAGATGCT
*
93402870 GCAGATGGATCTAGAATATGC
1 GCAGATGGATCTAGAAGATGC
93402891 CCTGCCAGAG
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
20 2 0.06
21 4 0.12
22 12 0.36
23 11 0.33
24 2 0.06
25 2 0.06
ACGTcount: A:0.30, C:0.15, G:0.33, T:0.21
Consensus pattern (22 bp):
GCAGATGGATCTAGAAGATGCT
Found at i:93402891 original size:45 final size:45
Alignment explanation
Indices: 93402825--93402914 Score: 135
Period size: 45 Copynumber: 2.0 Consensus size: 45
93402815 CAGTTCTTGC
* * *
93402825 GCAGATGGATCTAGAGGATGCCCTGCTAGGGATAGAGAAGATGCT
1 GCAGATGGATCTAGAAGATGCCCTGCCAGAGATAGAGAAGATGCT
* *
93402870 GCAGATGGATCTAGAATATGCCCTGCCAGAGATAGATAAGATGCT
1 GCAGATGGATCTAGAAGATGCCCTGCCAGAGATAGAGAAGATGCT
93402915 TTCTACATTA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.31, C:0.17, G:0.31, T:0.21
Consensus pattern (45 bp):
GCAGATGGATCTAGAAGATGCCCTGCCAGAGATAGAGAAGATGCT
Found at i:93407817 original size:15 final size:14
Alignment explanation
Indices: 93407797--93407831 Score: 54
Period size: 13 Copynumber: 2.5 Consensus size: 14
93407787 ACACACGGTC
93407797 GTGTCACCTAGCTGT
1 GTGTCACC-AGCTGT
93407812 GTGTCA-CAGCTGT
1 GTGTCACCAGCTGT
93407825 GTGTCAC
1 GTGTCAC
93407832 ACATGGCTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 12 0.63
14 1 0.05
15 6 0.32
ACGTcount: A:0.14, C:0.26, G:0.29, T:0.31
Consensus pattern (14 bp):
GTGTCACCAGCTGT
Found at i:93408494 original size:21 final size:21
Alignment explanation
Indices: 93408459--93408507 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
93408449 ATAAATAAAA
*
93408459 TCATTCA-TGTCAATTCCTTG
1 TCATTCACTATCAATTCCTTG
*
93408479 TCATTCACTATCAATTTCTTG
1 TCATTCACTATCAATTCCTTG
93408500 TCATTCAC
1 TCATTCAC
93408508 AACTTCTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 7 0.27
21 19 0.73
ACGTcount: A:0.22, C:0.27, G:0.06, T:0.45
Consensus pattern (21 bp):
TCATTCACTATCAATTCCTTG
Found at i:93408706 original size:21 final size:21
Alignment explanation
Indices: 93408680--93408722 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
93408670 TGAATATGCC
93408680 AACAGAAGCTT-GTAAGAGCTG
1 AACAGAAG-TTCGTAAGAGCTG
93408701 AACAGAAGTTCGTAAGAGCTG
1 AACAGAAGTTCGTAAGAGCTG
93408722 A
1 A
93408723 TCCATCCAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.40, C:0.14, G:0.28, T:0.19
Consensus pattern (21 bp):
AACAGAAGTTCGTAAGAGCTG
Found at i:93414436 original size:19 final size:22
Alignment explanation
Indices: 93414414--93414456 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
93414404 CTAATTTGAA
93414414 TATTA-TTTA-AATA-TATATT
1 TATTACTTTATAATACTATATT
93414433 TATTACTTTATAATACTATATT
1 TATTACTTTATAATACTATATT
93414455 TA
1 TA
93414457 AATTGAACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.24
20 4 0.19
21 4 0.19
22 8 0.38
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.56
Consensus pattern (22 bp):
TATTACTTTATAATACTATATT
Found at i:93415608 original size:11 final size:12
Alignment explanation
Indices: 93415581--93415614 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
93415571 CTTGGGCAAA
93415581 ATTTTAGACCAT
1 ATTTTAGACCAT
93415593 ATTTTAGACC-T
1 ATTTTAGACCAT
93415604 ATTTTTAGACC
1 A-TTTTAGACC
93415615 CATGCACACC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 2 0.10
12 19 0.90
ACGTcount: A:0.29, C:0.18, G:0.09, T:0.44
Consensus pattern (12 bp):
ATTTTAGACCAT
Found at i:93419897 original size:52 final size:52
Alignment explanation
Indices: 93419830--93419936 Score: 196
Period size: 52 Copynumber: 2.1 Consensus size: 52
93419820 GTGTTTGGCA
93419830 TAGGGATCACTTCACAACACGGGAAATTAATTTCATCATTTTGTTTGGTAAG
1 TAGGGATCACTTCACAACACGGGAAATTAATTTCATCATTTTGTTTGGTAAG
* *
93419882 TAGGGATCACTTCACAACATGGGAAATTAATTTCATCATTTTTTTTGGTAAG
1 TAGGGATCACTTCACAACACGGGAAATTAATTTCATCATTTTGTTTGGTAAG
93419934 TAG
1 TAG
93419937 TTAATGATAC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (52 bp):
TAGGGATCACTTCACAACACGGGAAATTAATTTCATCATTTTGTTTGGTAAG
Found at i:93424943 original size:60 final size:61
Alignment explanation
Indices: 93424845--93424980 Score: 193
Period size: 60 Copynumber: 2.2 Consensus size: 61
93424835 TAAGGACAGT
* * * *
93424845 CTTTGTGGCAAAACTCTGGATAAGAAAGTCTTCGTAGTGAGTACTGAATGTTAAAGAACGC
1 CTTTGTGGCAAAACTCTAGACAAGAAAGCCTTCATAGTGAGTACTGAATGTTAAAGAACGC
* * * *
93424906 C-TTGTGGTAAAACTCTAGACAGGAAAGCCTTTATAGTGAGTACTGAATGTTAAGGAACGC
1 CTTTGTGGCAAAACTCTAGACAAGAAAGCCTTCATAGTGAGTACTGAATGTTAAAGAACGC
93424966 CTTTGTGGCAAAACT
1 CTTTGTGGCAAAACT
93424981 TAGGAAATGT
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
60 52 0.80
61 13 0.20
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.28
Consensus pattern (61 bp):
CTTTGTGGCAAAACTCTAGACAAGAAAGCCTTCATAGTGAGTACTGAATGTTAAAGAACGC
Found at i:93431544 original size:17 final size:17
Alignment explanation
Indices: 93431511--93431562 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 17
93431501 ACAAGTACTC
*
93431511 ATATTTA-TATTATAAA
1 ATATTTATTATTAAAAA
93431527 ATATTTATTATTAAAAA
1 ATATTTATTATTAAAAA
* * *
93431544 A-ATTTCTTTTTTAAAA
1 ATATTTATTATTAAAAA
93431560 ATA
1 ATA
93431563 AGTCACGTGA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
16 20 0.67
17 10 0.33
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (17 bp):
ATATTTATTATTAAAAA
Found at i:93433951 original size:45 final size:46
Alignment explanation
Indices: 93433887--93433980 Score: 163
Period size: 45 Copynumber: 2.0 Consensus size: 46
93433877 AATTATGAGA
93433887 TTAGTTCTAATGTGTTTTATAAACAC-TTTTTGTTTTTGAACTTTG
1 TTAGTTCTAATGTGTTTTATAAACACTTTTTTGTTTTTGAACTTTG
93433932 TTAGTTCTAATGTGTTTTATAAACACTTTTTTTTGTTTTTGAACTTTG
1 TTAGTTCTAATGTGTTTTATAAACAC--TTTTTTGTTTTTGAACTTTG
93433980 T
1 T
93433981 CACGCCCAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
45 26 0.57
48 20 0.43
ACGTcount: A:0.21, C:0.09, G:0.13, T:0.57
Consensus pattern (46 bp):
TTAGTTCTAATGTGTTTTATAAACACTTTTTTGTTTTTGAACTTTG
Found at i:93439858 original size:40 final size:41
Alignment explanation
Indices: 93439814--93439902 Score: 101
Period size: 41 Copynumber: 2.2 Consensus size: 41
93439804 TATACATTAA
*
93439814 CGGCGTTTGCAAT-AAAACGCC-GTAAAAAACCGAGCAATAG
1 CGGCGTTTGCAATCAAAACGCCACT-AAAAACCGAGCAATAG
*** * *
93439854 CGGCGTTTTTTATCCAAACGCCACTAAAAACTGAGCAATAG
1 CGGCGTTTGCAATCAAAACGCCACTAAAAACCGAGCAATAG
93439895 CGGCGTTT
1 CGGCGTTT
93439903 TTGGCCCAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
40 10 0.24
41 30 0.73
42 1 0.02
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.21
Consensus pattern (41 bp):
CGGCGTTTGCAATCAAAACGCCACTAAAAACCGAGCAATAG
Found at i:93439883 original size:41 final size:41
Alignment explanation
Indices: 93439838--93439945 Score: 135
Period size: 41 Copynumber: 2.6 Consensus size: 41
93439828 AAACGCCGTA
* * *
93439838 AAAAACCGAGCAATAGCGGCGTTTTTTATCCAAACGCCACT
1 AAAAACTGAGCAATAGCGGCGTTTTTGACCCAAACGCCACT
* * **
93439879 AAAAACTGAGCAATAGCGGCGTTTTTGGCCCAAATGCCGGT
1 AAAAACTGAGCAATAGCGGCGTTTTTGACCCAAACGCCACT
* *
93439920 AAAAATTGAGCAATAGCGGCGCTTTT
1 AAAAACTGAGCAATAGCGGCGTTTTT
93439946 AGAAAAACGC
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 58 1.00
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.23
Consensus pattern (41 bp):
AAAAACTGAGCAATAGCGGCGTTTTTGACCCAAACGCCACT
Found at i:93440538 original size:43 final size:42
Alignment explanation
Indices: 93440418--93440546 Score: 114
Period size: 43 Copynumber: 3.0 Consensus size: 42
93440408 GTTTAGGGGA
* * * *
93440418 TAGGGGTTATGATATAATGTTTATTATTTTGGGGTTTAGAATT
1 TAGGGTTTATGATATAATGTTTATTGTTTT-TGGTTTAGAGTT
* * * * * * * ***
93440461 TATGATTTAAGATGTTAGGTTTAATGTCCATGGTTTAAGAGTT
1 TAGGGTTTATGATATAATGTTTATTGTTTTTGGTTT-AGAGTT
93440504 TAGGGTTTATGATATAATGTTTATTGTTTTTGGTTTAGAGTT
1 TAGGGTTTATGATATAATGTTTATTGTTTTTGGTTTAGAGTT
93440546 T
1 T
93440547 GTGGTTTTTT
Statistics
Matches: 61, Mismatches: 24, Indels: 3
0.69 0.27 0.03
Matches are distributed among these distances:
42 12 0.20
43 49 0.80
ACGTcount: A:0.25, C:0.02, G:0.24, T:0.50
Consensus pattern (42 bp):
TAGGGTTTATGATATAATGTTTATTGTTTTTGGTTTAGAGTT
Found at i:93440744 original size:20 final size:20
Alignment explanation
Indices: 93440721--93440771 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
93440711 AATATATATA
*
93440721 TTTAGGGTTTAGGATATAGG
1 TTTAGGGTTTAGGATATAAG
** * *
93440741 TTTATAGTTTAGGGTTTAAG
1 TTTAGGGTTTAGGATATAAG
93440761 TTTAGGGTTTA
1 TTTAGGGTTTA
93440772 CTGTTGGAAA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.47
Consensus pattern (20 bp):
TTTAGGGTTTAGGATATAAG
Found at i:93440753 original size:13 final size:13
Alignment explanation
Indices: 93440721--93440771 Score: 59
Period size: 13 Copynumber: 3.8 Consensus size: 13
93440711 AATATATATA
*
93440721 TTTAGGGTTTAGG
1 TTTAGGGTTTAAG
*
93440734 ATATA-GGTTTATAG
1 -TTTAGGGTTTA-AG
93440748 TTTAGGGTTTAAG
1 TTTAGGGTTTAAG
93440761 TTTAGGGTTTA
1 TTTAGGGTTTA
93440772 CTGTTGGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 22 0.69
14 10 0.31
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.47
Consensus pattern (13 bp):
TTTAGGGTTTAAG
Found at i:93440965 original size:28 final size:27
Alignment explanation
Indices: 93440915--93440970 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 27
93440905 TAATTATCGT
* *
93440915 TATAGGTTAGGGTTTACGTTTTA-AAG
1 TATAGGTTAGGGTTTAAGATTTATAAG
93440941 TATATGGTTAAGGGTTTAAGATTTATAAG
1 TATA-GGTT-AGGGTTTAAGATTTATAAG
93440970 T
1 T
93440971 TACTATTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 4 0.16
27 4 0.16
28 13 0.52
29 4 0.16
ACGTcount: A:0.30, C:0.02, G:0.25, T:0.43
Consensus pattern (27 bp):
TATAGGTTAGGGTTTAAGATTTATAAG
Found at i:93441079 original size:9 final size:9
Alignment explanation
Indices: 93441065--93441101 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
93441055 TATTGATAAC
93441065 AAAAAAAAT
1 AAAAAAAAT
93441074 -AAAAAAAT
1 AAAAAAAAT
93441082 AAAAAAAAT
1 AAAAAAAAT
93441091 AAAATAAAAT
1 AAAA-AAAAT
93441101 A
1 A
93441102 GAAATTAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.31
9 12 0.46
10 6 0.23
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:93441557 original size:38 final size:38
Alignment explanation
Indices: 93441506--93441582 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
93441496 GAAGAAGTTA
* *
93441506 GAACGAGTAGCCATGGAATCGTTGAGTGAGCTTGATAG
1 GAACGAGCAGCCATGGAATCGTCGAGTGAGCTTGATAG
93441544 GAACGAGCAGCCATGGAATCGTCGAGTGAGCTTGATAG
1 GAACGAGCAGCCATGGAATCGTCGAGTGAGCTTGATAG
93441582 G
1 G
93441583 CTGCTCTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.29, C:0.16, G:0.35, T:0.21
Consensus pattern (38 bp):
GAACGAGCAGCCATGGAATCGTCGAGTGAGCTTGATAG
Found at i:93442233 original size:18 final size:18
Alignment explanation
Indices: 93442210--93442245 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
93442200 TGTTTAAGTA
93442210 AATAAATGATTTGCTATT
1 AATAAATGATTTGCTATT
*
93442228 AATAAATTATTTGCTATT
1 AATAAATGATTTGCTATT
93442246 TTTCTTAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.39, C:0.06, G:0.08, T:0.47
Consensus pattern (18 bp):
AATAAATGATTTGCTATT
Found at i:93444358 original size:43 final size:43
Alignment explanation
Indices: 93444240--93444373 Score: 166
Period size: 42 Copynumber: 3.2 Consensus size: 43
93444230 ATATATTTTT
* *
93444240 TAAAGG-TATATTCTTTAGCGGCGTTTGTGAGAAAAGCGCCGT
1 TAAAGGTTATATTCTTTAGCGGCGTTTGTGAAAAAAGCGCCGC
* * **
93444282 TAAAGGTT-TATTCTATAGCGGCGTTTGTAAAAAAAGCGTTGC
1 TAAAGGTTATATTCTTTAGCGGCGTTTGTGAAAAAAGCGCCGC
* *
93444324 TAAAGGTTATAGTT-TTTAGCGGCGTTTGTGAAAAAGGTGCCGC
1 TAAAGGTTATA-TTCTTTAGCGGCGTTTGTGAAAAAAGCGCCGC
93444367 TAAAGGT
1 TAAAGGT
93444374 CATGGTCTTT
Statistics
Matches: 77, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
42 42 0.55
43 33 0.43
44 2 0.03
ACGTcount: A:0.28, C:0.12, G:0.28, T:0.32
Consensus pattern (43 bp):
TAAAGGTTATATTCTTTAGCGGCGTTTGTGAAAAAAGCGCCGC
Found at i:93449293 original size:25 final size:26
Alignment explanation
Indices: 93449243--93449298 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
93449233 CTTTTTCTTT
* **
93449243 TCTTTTCATTTTTAGATTAGGTTTTA
1 TCTTTTCATTTTTAGAATAGAATTTA
93449269 TCTTTTCA-TTTTAGAATAGAATTTA
1 TCTTTTCATTTTTAGAATAGAATTTA
93449294 T-TTTT
1 TCTTTT
93449299 GTTGTTTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 4 0.15
25 15 0.56
26 8 0.30
ACGTcount: A:0.23, C:0.07, G:0.09, T:0.61
Consensus pattern (26 bp):
TCTTTTCATTTTTAGAATAGAATTTA
Found at i:93454675 original size:19 final size:20
Alignment explanation
Indices: 93454648--93454685 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
93454638 TAGAATTATA
93454648 TTTATATAAGATAA-TAAAAT
1 TTTATATAA-ATAATTAAAAT
93454668 TTTA-ATAAATAATTAAAA
1 TTTATATAAATAATTAAAA
93454686 ATACCTTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.24
19 9 0.53
20 4 0.24
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (20 bp):
TTTATATAAATAATTAAAAT
Found at i:93459207 original size:26 final size:26
Alignment explanation
Indices: 93459171--93459222 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
93459161 TTCTCCTGTA
93459171 AAAAAAAAAATCAAGTTAGGATCAAT
1 AAAAAAAAAATCAAGTTAGGATCAAT
93459197 AAAAAAAAAATCAAGTTAGGATCAAT
1 AAAAAAAAAATCAAGTTAGGATCAAT
93459223 TCTGCAGTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.62, C:0.08, G:0.12, T:0.19
Consensus pattern (26 bp):
AAAAAAAAAATCAAGTTAGGATCAAT
Found at i:93464552 original size:3 final size:3
Alignment explanation
Indices: 93464546--93464583 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
93464536 AGGTATAGAC
93464546 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
93464584 AGATTTGAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:93465061 original size:21 final size:21
Alignment explanation
Indices: 93465020--93465081 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 21
93465010 ATTTAGTCAT
* *
93465020 ATAATA-AA-TTATTAATATA
1 ATAATATAATTTATTATTTTA
93465039 ATAATATAATTTATTATTTTA
1 ATAATATAATTTATTATTTTA
*
93465060 ATAA-ACT-ATTTAATATTTTA
1 ATAATA-TAATTTATTATTTTA
93465080 AT
1 AT
93465082 TTTATTTTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
19 6 0.16
20 17 0.46
21 14 0.38
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (21 bp):
ATAATATAATTTATTATTTTA
Found at i:93480919 original size:3 final size:3
Alignment explanation
Indices: 93480911--93480944 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
93480901 AAAAAGAAAG
93480911 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
93480945 ACTCAATGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:93481045 original size:6 final size:6
Alignment explanation
Indices: 93481036--93481098 Score: 72
Period size: 7 Copynumber: 9.7 Consensus size: 6
93481026 GAAATAGCAA
*
93481036 AAAATT AAAATT AAAATT AAAATT AAAATAA AAAATTT AAAATTT AAAATTT
1 AAAATT AAAATT AAAATT AAAATT AAAAT-T AAAA-TT AAAA-TT AAAA-TT
93481088 AAAATAT AAAA
1 AAAAT-T AAAA
93481099 AAATTTAAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 5
0.88 0.03 0.08
Matches are distributed among these distances:
6 24 0.46
7 27 0.52
8 1 0.02
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AAAATT
Found at i:93481359 original size:30 final size:30
Alignment explanation
Indices: 93481318--93481374 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
93481308 ATGTGAGATC
*
93481318 CCACACGCCCGTGTGG-CTAGGCCGTGTGCT
1 CCACACACCCGTGTGGTC-AGGCCGTGTGCT
93481348 CCACACACCCGTGTGGTCAGGCCGTGT
1 CCACACACCCGTGTGGTCAGGCCGTGT
93481375 AACTCTCTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.12, C:0.37, G:0.32, T:0.19
Consensus pattern (30 bp):
CCACACACCCGTGTGGTCAGGCCGTGTGCT
Found at i:93493773 original size:12 final size:12
Alignment explanation
Indices: 93493759--93493798 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
93493749 ATTTGTATTG
*
93493759 GCATTGACGTCG
1 GCATTGACGTCA
*
93493771 GCATTGATGTCA
1 GCATTGACGTCA
*
93493783 GCATCGACGTCA
1 GCATTGACGTCA
93493795 GCAT
1 GCAT
93493799 GGGAGCGAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.25
Consensus pattern (12 bp):
GCATTGACGTCA
Found at i:93500189 original size:10 final size:11
Alignment explanation
Indices: 93500159--93500206 Score: 55
Period size: 10 Copynumber: 4.5 Consensus size: 11
93500149 ATAAAATATT
93500159 TATTAT-AAAA
1 TATTATAAAAA
93500169 TATTATAAAAA
1 TATTATAAAAA
93500180 TA-TATAAAAA
1 TATTATAAAAA
* *
93500190 AATTAGTCAAAA
1 TATTA-TAAAAA
93500202 TATTA
1 TATTA
93500207 GAAAGTTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
10 15 0.47
11 8 0.25
12 9 0.28
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (11 bp):
TATTATAAAAA
Found at i:93500342 original size:103 final size:103
Alignment explanation
Indices: 93500232--93500433 Score: 298
Period size: 103 Copynumber: 2.0 Consensus size: 103
93500222 GTTAAAAAAT
* * *
93500232 GAGAATAACTTATATTAGGATCATCCT-AAAAAATATAATTTTTAGGCACCAATAAAATAGTGCC
1 GAGAATAACTTATATTAGGATCATCCTAAAAAAACAT-ATTTTTAGACACCAATAAAATAGAGCC
*
93500296 ACATCATTAAATTTTAAAGATAACAAAGTATTATTATAC
65 ACATAATTAAATTTTAAAGATAACAAAGTATTATTATAC
* * * * *
93500335 GAGAATAACTTATATTAGGATTATCTTAAAAAAACATTTTTTTAGACACTAATAAAATAGAGTCA
1 GAGAATAACTTATATTAGGATCATCCTAAAAAAACATATTTTTAGACACCAATAAAATAGAGCCA
*
93500400 CGTAATTAAATTTTAAAGATAACAAAGTATTATT
66 CATAATTAAATTTTAAAGATAACAAAGTATTATT
93500434 GTACACCCAT
Statistics
Matches: 88, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
103 80 0.91
104 8 0.09
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.34
Consensus pattern (103 bp):
GAGAATAACTTATATTAGGATCATCCTAAAAAAACATATTTTTAGACACCAATAAAATAGAGCCA
CATAATTAAATTTTAAAGATAACAAAGTATTATTATAC
Found at i:93504111 original size:26 final size:26
Alignment explanation
Indices: 93504058--93504140 Score: 132
Period size: 26 Copynumber: 3.2 Consensus size: 26
93504048 CATGAAATTC
93504058 TTATCATGAAACATTTA-CTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
93504083 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
93504109 TTATCATGGAACATTTGCCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
93504135 TTATCA
1 TTATCA
93504141 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
25 17 0.31
26 37 0.69
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:93505940 original size:3 final size:3
Alignment explanation
Indices: 93505932--93506044 Score: 172
Period size: 3 Copynumber: 37.7 Consensus size: 3
93505922 TGGGCAGTAA
* * * * * *
93505932 AAG AAG AAG AAG AAG AAG TAC AAA AAG AAG AAG AAG ATG ATG ATG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
93505980 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
93506028 AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AA
93506045 AAGCTCTTTT
Statistics
Matches: 103, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 103 1.00
ACGTcount: A:0.65, C:0.01, G:0.31, T:0.04
Consensus pattern (3 bp):
AAG
Found at i:93507557 original size:25 final size:23
Alignment explanation
Indices: 93507529--93507574 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
93507519 AATAAAAAAT
*
93507529 TTTAAAATATAATAAATTAAATACA
1 TTTAAAACATAA-AAA-TAAATACA
93507554 TTTAAAACATAAAAATAAATA
1 TTTAAAACATAAAAATAAATA
93507575 TTAAAATAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 3 0.15
25 11 0.55
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (23 bp):
TTTAAAACATAAAAATAAATACA
Found at i:93507634 original size:42 final size:43
Alignment explanation
Indices: 93507565--93507667 Score: 102
Period size: 42 Copynumber: 2.4 Consensus size: 43
93507555 TTAAAACATA
93507565 AAAATAAATATTAAAATAAGAAACAAA-TAAAAAAATAAGACT
1 AAAATAAATATTAAAATAAGAAACAAATTAAAAAAATAAGACT
* * * ** * * *
93507607 AAAATAATTCTTAAAATAATACGCAAATTAAAAATATAATA-A
1 AAAATAAATATTAAAATAAGAAACAAATTAAAAAAATAAGACT
93507649 AAAATAATTATATTAAAAT
1 AAAATAA--ATATTAAAAT
93507668 TAAAAATGAA
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
42 29 0.60
43 11 0.23
44 8 0.17
ACGTcount: A:0.66, C:0.05, G:0.03, T:0.26
Consensus pattern (43 bp):
AAAATAAATATTAAAATAAGAAACAAATTAAAAAAATAAGACT
Found at i:93514140 original size:20 final size:21
Alignment explanation
Indices: 93514096--93514143 Score: 73
Period size: 20 Copynumber: 2.4 Consensus size: 21
93514086 GAGCCAGAGA
*
93514096 TATCGATACCAAATAAGAATG
1 TATCGATACCAAATAAGAAGG
93514117 -ATCGATACCAAATAA-AAGG
1 TATCGATACCAAATAAGAAGG
93514136 TATCGATA
1 TATCGATA
93514144 TTGGATTGAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 3 0.12
20 22 0.88
ACGTcount: A:0.48, C:0.15, G:0.15, T:0.23
Consensus pattern (21 bp):
TATCGATACCAAATAAGAAGG
Found at i:93516126 original size:20 final size:21
Alignment explanation
Indices: 93516103--93516143 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
93516093 ATACATGAGT
*
93516103 ATTTTG-ATTTTTAATGATAG
1 ATTTTGAATGTTTAATGATAG
*
93516123 ATTTTGAATGTTTGATGATAG
1 ATTTTGAATGTTTAATGATAG
93516144 TGATACAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.29, C:0.00, G:0.20, T:0.51
Consensus pattern (21 bp):
ATTTTGAATGTTTAATGATAG
Found at i:93527928 original size:19 final size:19
Alignment explanation
Indices: 93527906--93527942 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
93527896 AAGTATTGTG
93527906 TATTATGATATGTATGAGA
1 TATTATGATATGTATGAGA
* *
93527925 TATTCTGTTATGTATGAG
1 TATTATGATATGTATGAG
93527943 CATGTTTAGT
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:0.30, C:0.03, G:0.22, T:0.46
Consensus pattern (19 bp):
TATTATGATATGTATGAGA
Found at i:93534594 original size:9 final size:8
Alignment explanation
Indices: 93534579--93534604 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
93534569 TTTAATATAT
93534579 TAAAAAAA
1 TAAAAAAA
93534587 TAAAAAAA
1 TAAAAAAA
93534595 TAAAAAAA
1 TAAAAAAA
93534603 TA
1 TA
93534605 TTTGTATTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (8 bp):
TAAAAAAA
Found at i:93535030 original size:32 final size:30
Alignment explanation
Indices: 93534977--93535041 Score: 87
Period size: 32 Copynumber: 2.1 Consensus size: 30
93534967 AATTCTTTTA
*
93534977 TTGTTAATTTTCTTATTATTTTA-AAGGCAT
1 TTGTTAATTTTATTATTATTTTAGAA-GCAT
93535007 TTGTTAATTTATTATTATTATTTTAGAAGCAT
1 TTGTTAA-TT-TTATTATTATTTTAGAAGCAT
93535039 TTG
1 TTG
93535042 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 7 0.23
31 2 0.06
32 20 0.65
33 2 0.06
ACGTcount: A:0.28, C:0.05, G:0.11, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTTTAGAAGCAT
Found at i:93535196 original size:13 final size:11
Alignment explanation
Indices: 93535159--93535189 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
93535149 GATGTATTAT
*
93535159 ATATATAAATA
1 ATATAAAAATA
93535170 ATATAAAAATA
1 ATATAAAAATA
93535181 ATATAAAAA
1 ATATAAAAA
93535190 ATTAATACGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
ATATAAAAATA
Found at i:93542358 original size:14 final size:14
Alignment explanation
Indices: 93542339--93542366 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
93542329 TATTTCGAGG
93542339 CAAATGAGTATGAA
1 CAAATGAGTATGAA
93542353 CAAATGAGTATGAA
1 CAAATGAGTATGAA
93542367 AGTGACAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.21, T:0.21
Consensus pattern (14 bp):
CAAATGAGTATGAA
Found at i:93550550 original size:30 final size:29
Alignment explanation
Indices: 93550500--93550557 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
93550490 GCAACCCAAT
93550500 CTTTATTTTTATTTTTATTTATTATTTTC
1 CTTTATTTTTATTTTTATTTATTATTTTC
93550529 CTTTATTTTCT-TTTATTATTTATTATTTT
1 CTTTATTTT-TATTT-TTATTTATTATTTT
93550558 ATTTTAGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 12 0.44
30 15 0.56
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (29 bp):
CTTTATTTTTATTTTTATTTATTATTTTC
Found at i:93550767 original size:42 final size:42
Alignment explanation
Indices: 93550669--93550759 Score: 146
Period size: 42 Copynumber: 2.2 Consensus size: 42
93550659 ATCCATGGTA
*
93550669 CCAAACAGTTCTATTCCAGCCCAAAATGCCATATCTCTGCTG
1 CCAAACAGTTCTATTCCAGCCCAAAATGCCATATCTCTGCAG
* * *
93550711 CCAAACAGTTCTATTCCAGCCTAGAATGTCATATCTCTGCAG
1 CCAAACAGTTCTATTCCAGCCCAAAATGCCATATCTCTGCAG
93550753 CCAAACA
1 CCAAACA
93550760 ATCCTATTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.31, C:0.32, G:0.12, T:0.25
Consensus pattern (42 bp):
CCAAACAGTTCTATTCCAGCCCAAAATGCCATATCTCTGCAG
Found at i:93550774 original size:42 final size:43
Alignment explanation
Indices: 93550669--93550802 Score: 121
Period size: 42 Copynumber: 3.2 Consensus size: 43
93550659 ATCCATGGTA
* * * * *
93550669 CCAAACAGTTCTATTCCAGCC-CAAAATGCCATATCTCTGCTG
1 CCAAACAATCCTATTCCAGCCTTAGAATGCCATATCTCTGCAG
* * *
93550711 CCAAACAGTTCTATTCCAGCC-TAGAATGTCATATCTCTGCAG
1 CCAAACAATCCTATTCCAGCCTTAGAATGCCATATCTCTGCAG
** * * *
93550753 CCAAACAATCCTATTTTAGCCTTAGAATCCCCAAAAC-CTGCAG
1 CCAAACAATCCTATTCCAGCCTTAGAAT-GCCATATCTCTGCAG
93550796 CCAAACA
1 CCAAACA
93550803 CCCCTTTTCA
Statistics
Matches: 78, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
42 55 0.71
43 19 0.24
44 4 0.05
ACGTcount: A:0.32, C:0.32, G:0.11, T:0.25
Consensus pattern (43 bp):
CCAAACAATCCTATTCCAGCCTTAGAATGCCATATCTCTGCAG
Found at i:93551763 original size:118 final size:118
Alignment explanation
Indices: 93551555--93551785 Score: 390
Period size: 118 Copynumber: 2.0 Consensus size: 118
93551545 TGTTTTCCAT
* *
93551555 GGTTATGAGTACAGCTTAGATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
93551620 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGCCGA
66 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGCCGA
**
93551673 GGTTATGAGTATGGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
****
93551738 CTACTTCGCGTCAAAAGGTTGTGTGACGTGTTGGGTAAAACTCCGCTA
66 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTA
93551786 ACCGGAAATA
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
118 105 1.00
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.29
Consensus pattern (118 bp):
GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGCCGA
Found at i:93551929 original size:8 final size:8
Alignment explanation
Indices: 93551916--93551957 Score: 57
Period size: 8 Copynumber: 4.9 Consensus size: 8
93551906 TTTTATTTTA
93551916 AAAAAAAG
1 AAAAAAAG
93551924 AAAAAAAG
1 AAAAAAAG
93551932 AGAAAAAGAG
1 A-AAAAA-AG
93551942 AAAAAAAAG
1 -AAAAAAAG
93551951 AAAAAAA
1 AAAAAAA
93551958 AATAAGTACT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
8 16 0.52
9 7 0.23
10 7 0.23
11 1 0.03
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:93551959 original size:10 final size:9
Alignment explanation
Indices: 93551915--93551958 Score: 63
Period size: 9 Copynumber: 4.9 Consensus size: 9
93551905 ATTTTATTTT
93551915 AAAAAAAAG
1 AAAAAAAAG
93551924 -AAAAAAAG
1 AAAAAAAAG
*
93551932 AGAAAAAGAG
1 A-AAAAAAAG
93551942 AAAAAAAAG
1 AAAAAAAAG
93551951 AAAAAAAA
1 AAAAAAAA
93551959 ATAAGTACTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
8 8 0.26
9 15 0.48
10 8 0.26
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:93554919 original size:91 final size:94
Alignment explanation
Indices: 93554756--93555073 Score: 289
Period size: 94 Copynumber: 3.4 Consensus size: 94
93554746 TGGGATATAT
* * * * * * *
93554756 TGCCGATGCCATGCCCCAGACATGGTCTTACACTGGCTCTCATACACGCG-TGCTGATGCATGTC
1 TGCCGATGCCATGTCCCAGACATCGTCTTACACTGGCTATC-T-CTCTCGAAGCCGATGCATGTC
* *
93554820 CTACACATGTCTTACTCTAGCA-CAGCTCT-
64 CCACACATGTCTTACACTAGCACCAGCTCTG
*
93554849 TAGCCGATG-CGTGTCCCAGACA-CGTCTTACACTGGCTATCTCTCTCGAAGCCGATGCATGTCC
1 T-GCCGATGCCATGTCCCAGACATCGTCTTACACTGGCTATCTCTCTCGAAGCCGATGCATGTCC
* * *
93554912 CAGACATGTCTTACACTGGCACTCATCTCTG
65 CACACATGTCTTACACTAGCAC-CAGCTCTG
* * * * *
93554943 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTAT-G--GCTGACGCATGTC
1 TGCCGATGCCATGTCCCAGACATCGTCTTACACTGGCTATC-T-CTCTCGAAGCCGATGCATGTC
* *
93555005 CCAAACATGTCTTACACTAGC-CC-TCGTCTG
64 CCACACATGTCTTACACTAGCACCAGC-TCTG
*
93555035 AATGCCGATG-CATGTCCCAGACATGGTCTTACACTGGCT
1 --TGCCGATGCCATGTCCCAGACATCGTCTTACACTGGCT
93555074 CTCATAATGT
Statistics
Matches: 192, Mismatches: 21, Indels: 24
0.81 0.09 0.10
Matches are distributed among these distances:
90 4 0.02
91 33 0.17
92 21 0.11
93 55 0.29
94 58 0.30
95 17 0.09
96 2 0.01
97 2 0.01
ACGTcount: A:0.21, C:0.32, G:0.20, T:0.27
Consensus pattern (94 bp):
TGCCGATGCCATGTCCCAGACATCGTCTTACACTGGCTATCTCTCTCGAAGCCGATGCATGTCCC
ACACATGTCTTACACTAGCACCAGCTCTG
Found at i:93555048 original size:46 final size:46
Alignment explanation
Indices: 93554756--93555118 Score: 256
Period size: 47 Copynumber: 7.8 Consensus size: 46
93554746 TGGGATATAT
* * **
93554756 TGCCGATGCCATGCCCCAGACATGGTCTTACACTGGCTCTCATACACGCG
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-C-TGAA
* * * * * * * *
93554806 TGCTGATGCATGTCCTACACATGTCTTACTCTAGCACAGC-TCT-TA
1 TGCCGATGCATGTCCCAGACATGTCTTACACTGGCTC-TCATCTGAA
* *
93554851 -GCCGATGCGTGTCCCAGACACGTCTTACACTGGCTATCTC-TCTCGAA
1 TGCCGATGCATGTCCCAGACATGTCTTACACTGGC--TCTCATCT-GAA
* ***
93554898 -GCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTG
1 TGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTGAA
* * *
93554943 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCAT-AGTA
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATCTGAA
* * * * * *
93554990 TGGCTGACGCATGTCCCAAACATGTCTTACACTAGCCCTCGTCTGAA
1 T-GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTGAA
*
93555037 TGCCGATGCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATG--
1 TGCCGATGCATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-CTGAA
** * *
93555083 TGGTTGAAGCATGTCCCAAACATGTCTTACACTGGC
1 T-GCCGATGCATGTCCCAGACATGTCTTACACTGGC
93555119 GCACAAATCA
Statistics
Matches: 247, Mismatches: 52, Indels: 32
0.75 0.16 0.10
Matches are distributed among these distances:
44 27 0.11
45 7 0.03
46 58 0.23
47 99 0.40
48 37 0.15
49 12 0.05
50 7 0.03
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (46 bp):
TGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTGAA
Found at i:93555079 original size:93 final size:93
Alignment explanation
Indices: 93554756--93555115 Score: 358
Period size: 93 Copynumber: 3.9 Consensus size: 93
93554746 TGGGATATAT
* * *
93554756 TGCCGATGCCATGCCCCAGACATGGTCTTACACTGGCTCTCATA-CACGCGTGCTGATGCATGTC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAGTA--TG-GCTGATGCATGTC
* * * *
93554820 CTACACATGTCTTACTCTAGCAC-AGCTCTTA
63 CCAAACATGTCTTACACTAGCACTCG-TCTTA
* * * * * *
93554851 -GCCGATG-CGTGTCCCAGACA-CGTCTTACACTGGCTATCTCTCTCG-A-AGCCGATGCATGTC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGC--TCTC-ATAGTATGGCTGATGCATGTC
* * * *
93554911 CCAGACATGTCTTACACTGGCACTCATCTCTG
63 CCAAACATGTCTTACACTAGCACTCGTCT-TA
* *
93554943 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCTGACGCATGTCCCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAGTATGGCTGATGCATGTCCCA
* *
93555008 AACATGTCTTACACTAGCCCTCGTCTGAA
66 AACATGTCTTACACTAGCACTCGTCT-TA
* * * *
93555037 TGCCGATG-CATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGTTGAAGCATGTCCCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAGTATGGCTGATGCATGTCCCA
93555101 AACATGTCTTACACT
66 AACATGTCTTACACT
93555116 GGCGCACAAA
Statistics
Matches: 220, Mismatches: 34, Indels: 24
0.79 0.12 0.09
Matches are distributed among these distances:
91 34 0.15
92 16 0.07
93 88 0.40
94 67 0.30
95 15 0.07
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (93 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAGTATGGCTGATGCATGTCCCA
AACATGTCTTACACTAGCACTCGTCTTA
Found at i:93555097 original size:187 final size:185
Alignment explanation
Indices: 93554756--93555118 Score: 430
Period size: 187 Copynumber: 1.9 Consensus size: 185
93554746 TGGGATATAT
* *
93554756 TGCCGATGCCATGCCCCAGACATGGTCTTACACTGGCTCTCATACACGCGTGCTGATGCATGTCC
1 TGCCGATGCCATGCCCCAGACATGGTCTTACACTGGCTATCATACAC-CGTGCTGACGCATGTCC
* * * * *
93554821 TACACATGTCTTACTCTAGCACAGCTCTTAGCCGATGCGTGTCCCAGACACGTCTTACACTGGCT
65 CAAACATGTCTTACACTAGCACAGCTCTAAGCCGATGCATGTCCCAGACACGTCTTACACTGGC-
* * *
93554886 ATCTCTCTCGAAGCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTG
129 ATCTCTATCGAAGCCGAAGCATGTCCCAAACATGTCTTACACTGGCACTCATCTCTG
* * *
93554943 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTA-TG-GCTGACGCATGTCC
1 TGCCGATGCCATGCCCCAGACATGGTCTTACACTGGCTATCATA-CACCGTGCTGACGCATGTCC
** *
93555006 CAAACATGTCTTACACTAGC-CCTCGTCTGAATGCCGATGCATGTCCCAGACATGGTCTTACACT
65 CAAACATGTCTTACACTAGCACAGC-TCT-AA-GCCGATGCATGTCCCAGACA-CGTCTTACACT
** **
93555070 GGC-TCTCATAAT-GTGGTTGAAGCATGTCCCAAACATGTCTTACACTGGC
126 GGCATCTC-T-ATCGAAGCCGAAGCATGTCCCAAACATGTCTTACACTGGC
93555119 GCACAAATCA
Statistics
Matches: 149, Mismatches: 20, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
184 2 0.01
185 33 0.22
186 6 0.04
187 93 0.62
188 15 0.10
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (185 bp):
TGCCGATGCCATGCCCCAGACATGGTCTTACACTGGCTATCATACACCGTGCTGACGCATGTCCC
AAACATGTCTTACACTAGCACAGCTCTAAGCCGATGCATGTCCCAGACACGTCTTACACTGGCAT
CTCTATCGAAGCCGAAGCATGTCCCAAACATGTCTTACACTGGCACTCATCTCTG
Found at i:93562316 original size:48 final size:49
Alignment explanation
Indices: 93562240--93562470 Score: 219
Period size: 48 Copynumber: 4.8 Consensus size: 49
93562230 GGATATATTT
**
93562240 CCGATGCCATG-CCCTAGACATGGTCTTACACTGGCTCTCATACACGCGTG
1 CCGATGCCATGTCCC-AGACATGGTCTTACACTGGCTCTCAT-CACGTATG
* ** * *
93562290 CTGATG-CATGTCCCAGACAT-GTCTTACACTGGAACTCATCTC-TGTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCACGTATG
* * *
93562336 CCGATGCCATGTCCCAAACATGGTCTTACACTCGCTATCAT-A-GTATGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCACGTAT-G
* * * * * * *
93562384 CTGACG-CATGTCCCAGACAT-GTCTTACACTAGCCCTCGTC-TGAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCACGTATG
93562430 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT
93562471 AATGTGGCCG
Statistics
Matches: 146, Mismatches: 26, Indels: 20
0.76 0.14 0.10
Matches are distributed among these distances:
46 28 0.19
47 47 0.32
48 53 0.36
49 10 0.07
50 8 0.05
ACGTcount: A:0.22, C:0.32, G:0.20, T:0.27
Consensus pattern (49 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCACGTATG
Found at i:93562432 original size:94 final size:95
Alignment explanation
Indices: 93562240--93562471 Score: 299
Period size: 94 Copynumber: 2.4 Consensus size: 95
93562230 GGATATATTT
*
93562240 CCGATGCCATG-CCCTAGACATGGTCTTACACTGGCTCTCATACACGCGTGCTGATGCATGTCCC
1 CCGATGCCATGTCCC-AGACATGGTCTTACACTGGCTCTCATACAC-CGTGCTGACGCATGTCCC
* **
93562304 AGACATGTCTTACACTGGAACTCATCTCTGTG
64 AGACATGTCTTACACTAGAACTCATCTCAATG
* * * * *
93562336 CCGATGCCATGTCCCAAACATGGTCTTACACTCGCTATCATAGTA-TG-GCTGACGCATGTCCCA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-CACCGTGCTGACGCATGTCCCA
** * *
93562399 GACATGTCTTACACTAGCCCTCGTCTGAATG
65 GACATGTCTTACACTAGAACTCATCTCAATG
93562430 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA
93562472 ATGTGGCCGA
Statistics
Matches: 118, Mismatches: 16, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
94 78 0.66
95 1 0.01
96 35 0.30
97 4 0.03
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (95 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATACACCGTGCTGACGCATGTCCCAG
ACATGTCTTACACTAGAACTCATCTCAATG
Found at i:93568323 original size:17 final size:17
Alignment explanation
Indices: 93568301--93568342 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
93568291 GTGGCATGTA
93568301 TGGCTAGACTTGTACTC
1 TGGCTAGACTTGTACTC
93568318 TGGCTAGACTTGTACTC
1 TGGCTAGACTTGTACTC
93568335 TGGCTAGA
1 TGGCTAGA
93568343 TTAGTCCTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.19, C:0.21, G:0.26, T:0.33
Consensus pattern (17 bp):
TGGCTAGACTTGTACTC
Found at i:93569735 original size:47 final size:46
Alignment explanation
Indices: 93569629--93569896 Score: 176
Period size: 47 Copynumber: 5.7 Consensus size: 46
93569619 GGATATATTA
93569629 CCGATGCCATGTCCTAGACATGGTCTTACACTGGCTATCTCTGTCGAGG
1 CCGATGCCATGTCCTAGACATGGTCTTACACTGGCTATCTCTGT---GG
93569678 CCGATG-CATGTCCTAGACAT-GTCTTACACTGGAACTCATCTCTGT-G
1 CCGATGCCATGTCCTAGACATGGTCTTACACTGG--CT-ATCTCTGTGG
* * * *
93569724 CCGATGCCATGTCCCAGGCATGGTCTTACA-TGGGCTATCATATTATGG
1 CCGATGCCATGTCCTAGACATGGTCTTACACT-GGCTATC-T-CTGTGG
* * * * ** * *
93569772 CTGACG-CATGTCCCAGACAT-GTCTTACACTAGCCCTCGTTTGAAT-A
1 CCGATGCCATGTCCTAGACATGGTCTTACACTGGCTATC-TCTG--TGG
* * * *
93569818 CCGATGCCCTGTCCCAGACATGGTCTTACACTGGCTCTCTTAATGTGG
1 CCGATGCCATGTCCTAGACATGGTCTTACACTGGCTATC-T-CTGTGG
* * *
93569866 CTGAAG-CATGTCCCAGACAT-GTCTTACACTG
1 CCGATGCCATGTCCTAGACATGGTCTTACACTG
93569897 ACACACAAAT
Statistics
Matches: 179, Mismatches: 24, Indels: 35
0.75 0.10 0.15
Matches are distributed among these distances:
45 5 0.03
46 38 0.21
47 69 0.39
48 49 0.27
49 10 0.06
50 8 0.04
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.29
Consensus pattern (46 bp):
CCGATGCCATGTCCTAGACATGGTCTTACACTGGCTATCTCTGTGG
Found at i:93569831 original size:94 final size:94
Alignment explanation
Indices: 93569627--93569895 Score: 287
Period size: 94 Copynumber: 2.9 Consensus size: 94
93569617 TGGGATATAT
* * * * *
93569627 TACCGATGCCATGTCCTAGACATGGTCTTACACTGGCTATC-T-CTGTCGAGGCCGATGCATGTC
1 TACCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAATAT---GGCTGAAGCATGTC
* * ** *
93569690 CTAGACATGTCTTACACTGGAACTCATCTCTG--
63 CCAGACATGTCTTACACTAGCCCTCGT-T-TGAA
* * * *
93569722 TGCCGATGCCATGTCCCAGGCATGGTCTTACA-TGGGCTATCATATTATGGCTGACGCATGTCCC
1 TACCGATGCCATGTCCCAGACATGGTCTTACACT-GGCTATCATAATATGGCTGAAGCATGTCCC
93569786 AGACATGTCTTACACTAGCCCTCGTTTGAA
65 AGACATGTCTTACACTAGCCCTCGTTTGAA
* * * *
93569816 TACCGATGCCCTGTCCCAGACATGGTCTTACACTGGCTCTCTTAATGTGGCTGAAGCATGTCCCA
1 TACCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAATATGGCTGAAGCATGTCCCA
93569881 GACATGTCTTACACT
66 GACATGTCTTACACT
93569896 GACACACAAA
Statistics
Matches: 148, Mismatches: 20, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
92 2 0.01
93 1 0.01
94 105 0.71
95 37 0.25
96 1 0.01
97 2 0.01
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.29
Consensus pattern (94 bp):
TACCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAATATGGCTGAAGCATGTCCCA
GACATGTCTTACACTAGCCCTCGTTTGAA
Found at i:93578089 original size:38 final size:38
Alignment explanation
Indices: 93578039--93578119 Score: 128
Period size: 39 Copynumber: 2.1 Consensus size: 38
93578029 AGTTTCCAAA
93578039 AATAGTAGAGGATTTTCCTCAA-TAGAAAATATTCTAC
1 AATAGTAGAGGATTTTCCTCAACTAGAAAATATTCTAC
* *
93578076 AATAGTAAGAGGATTTTCCTCAACTGGAAAATATTCTAT
1 AATAGT-AGAGGATTTTCCTCAACTAGAAAATATTCTAC
93578115 AATAG
1 AATAG
93578120 AAATTATTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
37 6 0.15
38 16 0.40
39 18 0.45
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (38 bp):
AATAGTAGAGGATTTTCCTCAACTAGAAAATATTCTAC
Found at i:93578402 original size:66 final size:66
Alignment explanation
Indices: 93578296--93578428 Score: 266
Period size: 66 Copynumber: 2.0 Consensus size: 66
93578286 GTGAAATGAG
93578296 TTATTCTTCTCTTTAACAAGTGAACGAATCTTGAACTTGTTAAGCGAGGGGTTAACTCATGACAC
1 TTATTCTTCTCTTTAACAAGTGAACGAATCTTGAACTTGTTAAGCGAGGGGTTAACTCATGACAC
93578361 A
66 A
93578362 TTATTCTTCTCTTTAACAAGTGAACGAATCTTGAACTTGTTAAGCGAGGGGTTAACTCATGACAC
1 TTATTCTTCTCTTTAACAAGTGAACGAATCTTGAACTTGTTAAGCGAGGGGTTAACTCATGACAC
93578427 A
66 A
93578428 T
1 T
93578429 GACTAATTTT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (66 bp):
TTATTCTTCTCTTTAACAAGTGAACGAATCTTGAACTTGTTAAGCGAGGGGTTAACTCATGACAC
A
Found at i:93580895 original size:42 final size:42
Alignment explanation
Indices: 93580827--93581061 Score: 287
Period size: 42 Copynumber: 5.6 Consensus size: 42
93580817 GTACATCATT
*
93580827 AACAGAAGCTCGT-A-AGCTGAACAGAAACTCTTAAGAGTTG
1 AACAGAAGCTCGTAAGAGCTGAACAGAAACTCATAAGAGTTG
* *
93580867 AACAGAAGCTCATAAGAGCTGAATAGAAACTCATAAGAGTTG
1 AACAGAAGCTCGTAAGAGCTGAACAGAAACTCATAAGAGTTG
* ** * *
93580909 AACAGAAGCTCGTAAGAGCTAAACAGAAACTTGTATGAGTTA
1 AACAGAAGCTCGTAAGAGCTGAACAGAAACTCATAAGAGTTG
* * *
93580951 AATAGAAGCTCTTAAAAGCTGAACAGAAACTCATAAGAGTTG
1 AACAGAAGCTCGTAAGAGCTGAACAGAAACTCATAAGAGTTG
* * * *
93580993 AACAGAAGCTC-AATAGAGCTAAACAGAAACTCATAAAAGTTA
1 AACAGAAGCTCGTA-AGAGCTGAACAGAAACTCATAAGAGTTG
* *
93581035 AACAGCAGCTCGTAAGAGCTAAACAGA
1 AACAGAAGCTCGTAAGAGCTGAACAGA
93581062 TGGTAAAACA
Statistics
Matches: 165, Mismatches: 26, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
40 12 0.07
41 2 0.01
42 150 0.91
43 1 0.01
ACGTcount: A:0.45, C:0.16, G:0.20, T:0.19
Consensus pattern (42 bp):
AACAGAAGCTCGTAAGAGCTGAACAGAAACTCATAAGAGTTG
Found at i:93581057 original size:21 final size:21
Alignment explanation
Indices: 93580827--93581061 Score: 188
Period size: 21 Copynumber: 11.3 Consensus size: 21
93580817 GTACATCATT
*
93580827 AACAGAAGCTCGT-A-AGCTG
1 AACAGAAGCTCATAAGAGCTG
* * *
93580846 AACAGAAACTCTTAAGAGTTG
1 AACAGAAGCTCATAAGAGCTG
93580867 AACAGAAGCTCATAAGAGCTG
1 AACAGAAGCTCATAAGAGCTG
* * *
93580888 AATAGAAACTCATAAGAGTTG
1 AACAGAAGCTCATAAGAGCTG
* *
93580909 AACAGAAGCTCGTAAGAGCTA
1 AACAGAAGCTCATAAGAGCTG
* ** * * *
93580930 AACAGAAACTTGTATGAGTTA
1 AACAGAAGCTCATAAGAGCTG
* * *
93580951 AATAGAAGCTCTTAAAAGCTG
1 AACAGAAGCTCATAAGAGCTG
* *
93580972 AACAGAAACTCATAAGAGTTG
1 AACAGAAGCTCATAAGAGCTG
*
93580993 AACAGAAGCTCA-ATAGAGCTA
1 AACAGAAGCTCATA-AGAGCTG
* * * *
93581014 AACAGAAACTCATAAAAGTTA
1 AACAGAAGCTCATAAGAGCTG
* * *
93581035 AACAGCAGCTCGTAAGAGCTA
1 AACAGAAGCTCATAAGAGCTG
93581056 AACAGA
1 AACAGA
93581062 TGGTAAAACA
Statistics
Matches: 169, Mismatches: 43, Indels: 6
0.78 0.20 0.03
Matches are distributed among these distances:
19 11 0.07
20 2 0.01
21 155 0.92
22 1 0.01
ACGTcount: A:0.45, C:0.16, G:0.20, T:0.19
Consensus pattern (21 bp):
AACAGAAGCTCATAAGAGCTG
Found at i:93589969 original size:16 final size:17
Alignment explanation
Indices: 93589937--93589969 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
93589927 AAATAAGAAG
93589937 GGTTTTCAATGAAAACAT
1 GGTTTTCAA-GAAAACAT
93589955 GGTTTTCAA-AAAACA
1 GGTTTTCAAGAAAACA
93589970 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (17 bp):
GGTTTTCAAGAAAACAT
Found at i:93594814 original size:17 final size:19
Alignment explanation
Indices: 93594772--93594815 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
93594762 ACGAAATTTT
*
93594772 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
93594791 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
93594809 AA-TATTA
1 AATTATTA
93594816 CTGCATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:93594916 original size:15 final size:15
Alignment explanation
Indices: 93594898--93594926 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
93594888 ATATTTATAA
93594898 AATTATTATTATTAT
1 AATTATTATTATTAT
93594913 AATTATTATTATTA
1 AATTATTATTATTA
93594927 GATAGGGAAA
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:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTATTATTATTAT
Found at i:93596664 original size:19 final size:19
Alignment explanation
Indices: 93596636--93596683 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
93596626 ATATTTGGGC
93596636 TTAATGGGCCGAAAACGGA
1 TTAATGGGCCGAAAACGGA
*
93596655 TTAATAGGCCGAAAACGGA
1 TTAATGGGCCGAAAACGGA
93596674 TTAATGGGCC
1 TTAATGGGCC
93596684 AACTGGCCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.35, C:0.17, G:0.29, T:0.19
Consensus pattern (19 bp):
TTAATGGGCCGAAAACGGA
Found at i:93602105 original size:3 final size:3
Alignment explanation
Indices: 93602097--93602140 Score: 79
Period size: 3 Copynumber: 14.3 Consensus size: 3
93602087 ATAATATGAC
93602097 ATA ATA ATAA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
93602141 GTAAATATCT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 37 0.93
4 3 0.08
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:93609758 original size:3 final size:3
Alignment explanation
Indices: 93609750--93609780 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
93609740 ATAATATGAC
93609750 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
93609781 GTAAATATCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:93614959 original size:28 final size:28
Alignment explanation
Indices: 93614928--93614985 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
93614918 ATTCAACTGC
93614928 ATAGTTAACATCATTCAACACTTTGCAA
1 ATAGTTAACATCATTCAACACTTTGCAA
93614956 ATAGTTAACATCATTCAACACTTTGCAA
1 ATAGTTAACATCATTCAACACTTTGCAA
93614984 AT
1 AT
93614986 GAGAATTGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.33
Consensus pattern (28 bp):
ATAGTTAACATCATTCAACACTTTGCAA
Found at i:93617431 original size:3 final size:3
Alignment explanation
Indices: 93617423--93617452 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
93617413 TTAAGCATTT
*
93617423 TCA TCA TCA TCA TCA TCA TCG TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
93617453 ACAACTTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.30, C:0.33, G:0.03, T:0.33
Consensus pattern (3 bp):
TCA
Found at i:93618915 original size:20 final size:20
Alignment explanation
Indices: 93618878--93618952 Score: 71
Period size: 21 Copynumber: 3.6 Consensus size: 20
93618868 AAAATTTGTC
*
93618878 AAAATTTTAAATAATTTTATT
1 AAAATTTT-AATATTTTTATT
*
93618899 AAATATTTTAAT-TTTTTATAA
1 AAA-ATTTTAATATTTTTAT-T
* *
93618920 AAAATATATATTATTTTTATT
1 AAAAT-TTTAATATTTTTATT
93618941 AAAATTTTAATA
1 AAAATTTTAATA
93618953 GTTCAGTCAA
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
20 13 0.30
21 18 0.42
22 12 0.28
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
AAAATTTTAATATTTTTATT
Found at i:93619201 original size:26 final size:26
Alignment explanation
Indices: 93619172--93619225 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
93619162 TCTTTTTTTG
* *
93619172 TTTTAATTTAAGAATTTATGTTATTT
1 TTTTAATTTAACAATATATGTTATTT
* *
93619198 TTTTACTTTATCAATATATGTTATTT
1 TTTTAATTTAACAATATATGTTATTT
93619224 TT
1 TT
93619226 GGAGAGAGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.28, C:0.04, G:0.06, T:0.63
Consensus pattern (26 bp):
TTTTAATTTAACAATATATGTTATTT
Found at i:93622645 original size:20 final size:20
Alignment explanation
Indices: 93622602--93622646 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
93622592 GTAATGGTTT
93622602 ATTTTA-ATATTAAAATATA
1 ATTTTATATATTAAAATATA
*
93622621 A-TTTATATATTTAAAT-TAA
1 ATTTTATATATTAAAATAT-A
93622640 ATTTTAT
1 ATTTTAT
93622647 CAATAATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
18 5 0.23
19 12 0.55
20 5 0.23
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTTTATATATTAAAATATA
Found at i:93624069 original size:30 final size:29
Alignment explanation
Indices: 93623993--93624070 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 29
93623983 AACTTCGATT
*
93623993 AAAATAACAAAATAGTCACTAAACTTTGA
1 AAAATAACAAACTAGTCACTAAACTTTGA
* *
93624022 AAAGTTAC-AACTTAGTCACTAAACTTTAGA
1 AAAATAACAAAC-TAGTCACTAAACTTT-GA
*
93624052 AAAATAACAAACCAGTCAC
1 AAAATAACAAACTAGTCAC
93624071 CAGTAACCAT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
28 2 0.05
29 21 0.52
30 14 0.35
31 3 0.08
ACGTcount: A:0.51, C:0.18, G:0.08, T:0.23
Consensus pattern (29 bp):
AAAATAACAAACTAGTCACTAAACTTTGA
Found at i:93624194 original size:3 final size:3
Alignment explanation
Indices: 93624186--93624221 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
93624176 TGGTCTGGGC
93624186 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
93624222 GAATGAATAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:93628950 original size:15 final size:14
Alignment explanation
Indices: 93628926--93629076 Score: 55
Period size: 15 Copynumber: 10.4 Consensus size: 14
93628916 TTTTATATAC
93628926 TAATAAATAATAAA
1 TAATAAATAATAAA
*
93628940 TAATGAAATAATATA
1 TAAT-AAATAATAAA
**
93628955 TAATAAA-AGGAAGA
1 TAATAAATAATAA-A
***
93628969 TAAT--ATAGGGAA
1 TAATAAATAATAAA
*
93628981 TAATATATAATAAAA
1 TAATAAATAAT-AAA
*
93628996 TATGATATATAATAAAA
1 TA--ATAAATAAT-AAA
93629013 TATATAAATAA-AATA
1 TA-ATAAATAATAA-A
93629028 TAATGAAAT-ATAAA
1 TAAT-AAATAATAAA
*
93629042 TAATATGATAA-AATA
1 TAATA-AATAATAA-A
93629057 TCATATAAATAA-AAA
1 T-A-ATAAATAATAAA
93629072 TAATA
1 TAATA
93629077 TATACTATTT
Statistics
Matches: 109, Mismatches: 12, Indels: 33
0.71 0.08 0.21
Matches are distributed among these distances:
12 6 0.06
13 10 0.09
14 30 0.28
15 31 0.28
16 14 0.13
17 18 0.17
ACGTcount: A:0.63, C:0.01, G:0.07, T:0.30
Consensus pattern (14 bp):
TAATAAATAATAAA
Found at i:93628960 original size:29 final size:28
Alignment explanation
Indices: 93628920--93629080 Score: 80
Period size: 29 Copynumber: 5.2 Consensus size: 28
93628910 TTTAATTTTT
93628920 ATATACTAATAAATAATAAATAATGAAATA
1 ATATA-TAATAAATAATAAATAAT-AAATA
**
93628950 ATATATAATAAA-AGGAAGATAATATAGGGAATA
1 ATATATAATAAATAATAA-AT-A-ATA---AATA
*
93628983 ATATATAATAAAATATGATATATAATAAAATA
1 ATATATAAT-AAATA--ATAAATAAT-AAATA
*
93629015 TATAAATAA-AATATAATGAAAT-ATAAATA
1 -ATATATAATAA-ATAAT-AAATAATAAATA
93629044 ATATGATAA-AATATCATATAAATAA-AAATA
1 ATAT-ATAATAA-AT-A-ATAAATAATAAATA
93629074 ATATATA
1 ATATATA
93629081 CTATTTTTAT
Statistics
Matches: 105, Mismatches: 8, Indels: 37
0.70 0.05 0.25
Matches are distributed among these distances:
28 6 0.06
29 26 0.25
30 25 0.24
31 10 0.10
32 7 0.07
33 20 0.19
34 5 0.05
35 3 0.03
36 2 0.02
37 1 0.01
ACGTcount: A:0.62, C:0.01, G:0.06, T:0.30
Consensus pattern (28 bp):
ATATATAATAAATAATAAATAATAAATA
Found at i:93628998 original size:10 final size:10
Alignment explanation
Indices: 93628979--93629067 Score: 60
Period size: 10 Copynumber: 8.9 Consensus size: 10
93628969 TAATATAGGG
*
93628979 AATAATATAT
1 AATAAAATAT
93628989 AATAAAATAT
1 AATAAAATAT
*
93628999 GAT---ATAT
1 AATAAAATAT
93629006 AATAAAATATAT
1 AAT-AAA-ATAT
93629018 AAATAAAATAT
1 -AATAAAATAT
*
93629029 AATGAAATAT
1 AATAAAATAT
*
93629039 AA-ATAATAT
1 AATAAAATAT
*
93629048 GATAAAATAT
1 AATAAAATAT
*
93629058 CATATAAATA
1 AATA-AAATA
93629068 AAAATAATAT
Statistics
Matches: 62, Mismatches: 9, Indels: 15
0.72 0.10 0.17
Matches are distributed among these distances:
7 6 0.10
9 6 0.10
10 31 0.50
11 9 0.15
12 7 0.11
13 3 0.05
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (10 bp):
AATAAAATAT
Found at i:93629005 original size:17 final size:16
Alignment explanation
Indices: 93628983--93629051 Score: 68
Period size: 17 Copynumber: 4.2 Consensus size: 16
93628973 ATAGGGAATA
93628983 ATATATAATAAAATATG
1 ATATATAA-AAAATATG
93629000 ATATATAATAAAATAT-
1 ATATATAA-AAAATATG
* *
93629016 ATAAATAAAATATAATG
1 ATATATAAAAAAT-ATG
* *
93629033 AAATATAAATAATATG
1 ATATATAAAAAATATG
93629049 ATA
1 ATA
93629052 AAATATCATA
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
15 4 0.09
16 14 0.33
17 25 0.58
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (16 bp):
ATATATAAAAAATATG
Found at i:93629023 original size:40 final size:42
Alignment explanation
Indices: 93628979--93629076 Score: 112
Period size: 40 Copynumber: 2.3 Consensus size: 42
93628969 TAATATAGGG
* *
93628979 AATAATATATAATAAAATAT-GAT-ATATAATAAAATATATA
1 AATAAAATATAATAAAATATAAATAATATAATAAAATATATA
* *
93629019 AATAAAATATAATGAAATATAAATAATATGATAAAATATCATATA
1 AATAAAATATAATAAAATATAAATAATATAAT-AAA-AT-ATATA
93629064 AATAAAA-ATAATA
1 AATAAAATATAATA
93629077 TATACTATTT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
40 18 0.38
41 2 0.04
42 6 0.12
43 3 0.06
44 7 0.15
45 12 0.25
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (42 bp):
AATAAAATATAATAAAATATAAATAATATAATAAAATATATA
Found at i:93629055 original size:19 final size:20
Alignment explanation
Indices: 93628979--93629067 Score: 69
Period size: 19 Copynumber: 4.4 Consensus size: 20
93628969 TAATATAGGG
93628979 AATAATATATAATAAAATAT-
1 AATAA-ATATAATAAAATATA
*
93628999 GAT--ATATAATAAAATATATA
1 AATAAATATAAT-AAA-ATATA
*
93629019 AATAAAATATAATGAAATATA
1 AAT-AAATATAATAAAATATA
*
93629040 AAT-AATATGATAAAATATCA
1 AATAAATATAATAAAATAT-A
*
93629060 TATAAATA
1 AATAAATA
93629068 AAAATAATAT
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
17 7 0.13
18 3 0.05
19 17 0.31
20 7 0.13
21 12 0.22
22 2 0.04
23 7 0.13
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (20 bp):
AATAAATATAATAAAATATA
Found at i:93629073 original size:30 final size:29
Alignment explanation
Indices: 93628985--93629078 Score: 104
Period size: 30 Copynumber: 3.2 Consensus size: 29
93628975 AGGGAATAAT
93628985 ATATAATAAAATATGATATATAAT-AAAAT-
1 ATATAATAAAATAT-ATATA-AATAAAAATA
*
93629014 ATATAAATAAAATATA-ATGAAATATAAATA
1 ATAT-AATAAAATATATAT-AAATAAAAATA
*
93629044 ATATGATAAAATATCATATAAATAAAAATA
1 ATATAATAAAATAT-ATATAAATAAAAATA
93629074 ATATA
1 ATATA
93629079 TACTATTTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 11
0.79 0.06 0.16
Matches are distributed among these distances:
28 5 0.09
29 19 0.35
30 29 0.53
31 2 0.04
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (29 bp):
ATATAATAAAATATATATAAATAAAAATA
Found at i:93629079 original size:17 final size:15
Alignment explanation
Indices: 93628983--93629080 Score: 82
Period size: 15 Copynumber: 6.5 Consensus size: 15
93628973 ATAGGGAATA
93628983 ATATAT-AATAAAAT
1 ATATATAAATAAAAT
93628997 ATGATATATAAT-AAA-
1 AT-ATATA-AATAAAAT
93629012 ATATATAAATAAAAT
1 ATATATAAATAAAAT
93629027 ATA-ATGAAATATAAAT
1 ATATAT-AAATA-AAAT
*
93629043 A-ATAT-GATAAAAT
1 ATATATAAATAAAAT
93629056 ATCATATAAATAAAAAT
1 AT-ATATAAAT-AAAAT
93629073 AATATATA
1 -ATATATA
93629081 CTATTTTTAT
Statistics
Matches: 69, Mismatches: 2, Indels: 23
0.73 0.02 0.24
Matches are distributed among these distances:
13 8 0.12
14 15 0.22
15 19 0.28
16 12 0.17
17 13 0.19
18 2 0.03
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (15 bp):
ATATATAAATAAAAT
Found at i:93632295 original size:20 final size:21
Alignment explanation
Indices: 93632232--93632323 Score: 68
Period size: 20 Copynumber: 4.5 Consensus size: 21
93632222 GGTTGAAAAG
*
93632232 GTTTAAGG-CTATGAGTTTGA
1 GTTTAAGGTTTATGAGTTTGA
* * *
93632252 GTTTAGGGTTT-TG-GCTTAGG
1 GTTTAAGGTTTATGAG-TTTGA
93632272 GTTTAAGGTTTATGA-TTTGA
1 GTTTAAGGTTTATGAGTTTGA
* * *
93632292 GTTTAGGGTTTGA-GATTTTAA
1 GTTTAAGGTTT-ATGAGTTTGA
93632313 GTTTAAGGTTT
1 GTTTAAGGTTT
93632324 TAAAATTAAG
Statistics
Matches: 56, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
19 1 0.02
20 37 0.66
21 18 0.32
ACGTcount: A:0.21, C:0.02, G:0.30, T:0.47
Consensus pattern (21 bp):
GTTTAAGGTTTATGAGTTTGA
Found at i:93632303 original size:13 final size:13
Alignment explanation
Indices: 93632246--93632305 Score: 59
Period size: 13 Copynumber: 4.5 Consensus size: 13
93632236 AAGGCTATGA
93632246 GTTTGAGTTTAGG
1 GTTTGAGTTTAGG
*
93632259 GTTTTG-GCTTAGG
1 G-TTTGAGTTTAGG
* *
93632272 GTTTAAGGTTTATG
1 GTTTGA-GTTTAGG
*
93632286 ATTTGAGTTTAGG
1 GTTTGAGTTTAGG
93632299 GTTTGAG
1 GTTTGAG
93632306 ATTTTAAGTT
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
12 3 0.08
13 20 0.56
14 13 0.36
ACGTcount: A:0.17, C:0.02, G:0.35, T:0.47
Consensus pattern (13 bp):
GTTTGAGTTTAGG
Found at i:93632353 original size:21 final size:21
Alignment explanation
Indices: 93632273--93632354 Score: 69
Period size: 20 Copynumber: 4.0 Consensus size: 21
93632263 TGGCTTAGGG
* * *
93632273 TTTAAGGTTTATGATTTGAG-
1 TTTAGGGTTTAAGATTTAAGT
*
93632293 TTTAGGGTTTGAGATTTTAAGT
1 TTTAGGGTTTAAGA-TTTAAGT
* * *
93632315 TTAAGGTTTTAA-AATTAAGT
1 TTTAGGGTTTAAGATTTAAGT
*
93632335 TTTAGGGTTTAAGGTTTAAG
1 TTTAGGGTTTAAGATTTAAG
93632355 AATTATGTGC
Statistics
Matches: 47, Mismatches: 12, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
20 27 0.57
21 11 0.23
22 9 0.19
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (21 bp):
TTTAGGGTTTAAGATTTAAGT
Found at i:93632402 original size:28 final size:28
Alignment explanation
Indices: 93632371--93632461 Score: 98
Period size: 28 Copynumber: 3.3 Consensus size: 28
93632361 GTGCTATAGA
* * *
93632371 TTAGGGTTT-AGGCTTTTAGGTTTGTTGT
1 TTAGGGTTTGA-GATTTTAGATTTGGTGT
93632399 TTAGGGTTTGAGATTTTAGATTTGGTGT
1 TTAGGGTTTGAGATTTTAGATTTGGTGT
* *
93632427 TTAGGGTTTGAG--TTTAGGTTTGGGGT
1 TTAGGGTTTGAGATTTTAGATTTGGTGT
*
93632453 TTAAGGTTT
1 TTAGGGTTT
93632462 TAAGATATTA
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
26 20 0.36
28 35 0.62
29 1 0.02
ACGTcount: A:0.14, C:0.01, G:0.34, T:0.51
Consensus pattern (28 bp):
TTAGGGTTTGAGATTTTAGATTTGGTGT
Found at i:93632436 original size:14 final size:13
Alignment explanation
Indices: 93632385--93632461 Score: 59
Period size: 14 Copynumber: 5.7 Consensus size: 13
93632375 GGTTTAGGCT
*
93632385 TTTAGGTTTGTTG
1 TTTAGGTTTGGTG
93632398 TTTAGGGTTTGAGAT-
1 TTTA-GGTTTG-G-TG
*
93632413 TTTAGATTTGGTG
1 TTTAGGTTTGGTG
*
93632426 TTTAGGGTTT-GAG
1 TTTA-GGTTTGGTG
*
93632439 TTTAGGTTTGGGG
1 TTTAGGTTTGGTG
93632452 TTTAAGGTTT
1 TTT-AGGTTT
93632462 TAAGATATTA
Statistics
Matches: 52, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
12 6 0.12
13 20 0.38
14 21 0.40
15 4 0.08
16 1 0.02
ACGTcount: A:0.14, C:0.00, G:0.34, T:0.52
Consensus pattern (13 bp):
TTTAGGTTTGGTG
Found at i:93632519 original size:22 final size:22
Alignment explanation
Indices: 93632494--93632540 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
93632484 AAATTTAAGG
* *
93632494 TTATGATTTAGGGTTATTAGTT
1 TTATGATTTAGGGCTATTAATT
* *
93632516 TTATGGTTTATGGCTATTAATT
1 TTATGATTTAGGGCTATTAATT
93632538 TTA
1 TTA
93632541 AGTTTAAGGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.02, G:0.19, T:0.55
Consensus pattern (22 bp):
TTATGATTTAGGGCTATTAATT
Found at i:93632699 original size:21 final size:22
Alignment explanation
Indices: 93632670--93632710 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
93632660 TTTCAAGTTT
**
93632670 CTAGATTTATTGTTCATGGTTC
1 CTAGATTTAGAGTTCATGGTTC
93632692 CTAG-TTTAGAGTTCATGGT
1 CTAGATTTAGAGTTCATGGT
93632711 ATGGGTTTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.20, C:0.12, G:0.22, T:0.46
Consensus pattern (22 bp):
CTAGATTTAGAGTTCATGGTTC
Done.