Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 357 of 433
Found at i:112194997 original size:15 final size:17
Alignment explanation
Indices: 112194977--112195008 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
112194967 TAAAATATAA
112194977 TAAAATA-ATA-ATATT
1 TAAAATATATATATATT
112194992 TAAAATATATATATATT
1 TAAAATATATATATATT
112195009 ATTAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TAAAATATATATATATT
Found at i:112196257 original size:2 final size:2
Alignment explanation
Indices: 112196250--112196276 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
112196240 TGCTCTACTT
112196250 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
112196277 GCAAATTATG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:112199036 original size:33 final size:33
Alignment explanation
Indices: 112198999--112199091 Score: 98
Period size: 33 Copynumber: 2.8 Consensus size: 33
112198989 GCACATGCAT
* * ** *
112198999 TGCCATGGCCCAGCCATGGTCTTACATTCGTAG
1 TGCCATAGCCCAGCTATGGTCTTACATTCAAAA
* *
112199032 TGCCATAACCCAGTTATGGTCTTATCA-TCAAAA
1 TGCCATAGCCCAGCTATGGTCTTA-CATTCAAAA
*
112199065 TTCCATAGCCCAGCTATGGTCTTACAT
1 TGCCATAGCCCAGCTATGGTCTTACAT
112199092 ATAAATACTA
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
32 2 0.04
33 44 0.92
34 2 0.04
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (33 bp):
TGCCATAGCCCAGCTATGGTCTTACATTCAAAA
Found at i:112199141 original size:101 final size:101
Alignment explanation
Indices: 112199002--112199189 Score: 261
Period size: 101 Copynumber: 1.9 Consensus size: 101
112198992 CATGCATTGC
* ** *
112199002 CATGGCCCAGCCATGGTCTTACATTCGTAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATT
1 CATGGCCCAACCATGGTCTTACATTCAAAGTGCCATAACCCAGTTATGGCCTTATCATC-AAATT
112199067 -CCATAGCCCAGCTATGGTCTTACATATAAATACTAT
65 GCCATAGCCCAGCTATGGTCTTACATATAAATACTAT
* ** ***
112199103 CATGGTCCAACCATGGTCTTATGTTCAAAGTGCCATAACCCAGTTATGGCCTTATCATCGGTTTG
1 CATGGCCCAACCATGGTCTTACATTCAAAGTGCCATAACCCAGTTATGGCCTTATCATCAAATTG
*
112199168 CCATAGCCCTGCTATGGTCTTA
66 CCATAGCCCAGCTATGGTCTTA
112199190 TCCGTTAATT
Statistics
Matches: 75, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
100 2 0.03
101 73 0.97
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (101 bp):
CATGGCCCAACCATGGTCTTACATTCAAAGTGCCATAACCCAGTTATGGCCTTATCATCAAATTG
CCATAGCCCAGCTATGGTCTTACATATAAATACTAT
Found at i:112201939 original size:44 final size:44
Alignment explanation
Indices: 112201856--112202024 Score: 152
Period size: 42 Copynumber: 4.0 Consensus size: 44
112201846 TTATGATTTA
* * * * *
112201856 GATATGTGATTCA-ATGTAATACCACGTCTGGGACGTTGGCATC
1 GATATGTGATTTACATGTAAGACCATGTCTAGGACATTGGCATC
* *
112201899 GATTTGTGATTTACATGTAAGACCATGTCCAGGACATTGGCATC
1 GATATGTGATTTACATGTAAGACCATGTCTAGGACATTGGCATC
* * * * * * * *
112201943 G-TATATGAGTT-CATGTAAAACCCTATCTGGGATAGTGGCATC
1 GATATGTGATTTACATGTAAGACCATGTCTAGGACATTGGCATC
*
112201985 GATATGTGA-TTACA-GTAAGACCATGTCTAGG-CGTTGGCAT
1 GATATGTGATTTACATGTAAGACCATGTCTAGGACATTGGCAT
112202025 TGTACGAGCT
Statistics
Matches: 98, Mismatches: 25, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
41 6 0.06
42 40 0.41
43 26 0.27
44 26 0.27
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (44 bp):
GATATGTGATTTACATGTAAGACCATGTCTAGGACATTGGCATC
Found at i:112208807 original size:13 final size:13
Alignment explanation
Indices: 112208789--112208815 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
112208779 TGTTAATTAA
112208789 TGTGTGAAAATTT
1 TGTGTGAAAATTT
112208802 TGTGTGAAAATTT
1 TGTGTGAAAATTT
112208815 T
1 T
112208816 ATCGTTTGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (13 bp):
TGTGTGAAAATTT
Found at i:112211341 original size:40 final size:40
Alignment explanation
Indices: 112211179--112211359 Score: 156
Period size: 40 Copynumber: 4.6 Consensus size: 40
112211169 CGAATGATGT
* * * *
112211179 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGC-AAGTTACTAAAC
* * * * *
112211219 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGCTAAG-TCCCGAAGGCATTCGTGCAAGTTACTAAAC
*
112211259 CCGGGCTAA-TCCCGAAGGC-TTTGTGCAAGTTACTAAAC
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAAC
* **
112211297 CCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTCGCTATAA-
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTA-AAC
** *
112211337 CCGGGCTTCGTCCCGAAAGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
112211360 TGAGCGAGTT
Statistics
Matches: 114, Mismatches: 21, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
38 24 0.21
39 18 0.16
40 63 0.55
41 9 0.08
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAAC
Found at i:112211343 original size:78 final size:80
Alignment explanation
Indices: 112211178--112211329 Score: 202
Period size: 78 Copynumber: 1.9 Consensus size: 80
112211168 TCGAATGATG
* * *
112211178 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
* *
112211243 GTGCGAGTTAATAAA
66 GTGCAAGTCAATAAA
* **
112211258 TCCGGGCTAA-TCCCGAAGGCTTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATT
112211320 CGTGCAAGTC
65 CGTGCAAGTC
112211330 GCTATAACCG
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
77 1 0.02
78 35 0.56
79 17 0.27
80 10 0.16
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCAAGTCAATAAA
Found at i:112230471 original size:11 final size:11
Alignment explanation
Indices: 112230455--112230479 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
112230445 AATTTTAAAA
112230455 AAAAATATTAT
1 AAAAATATTAT
112230466 AAAAATATTAT
1 AAAAATATTAT
112230477 AAA
1 AAA
112230480 TGTCATGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
AAAAATATTAT
Found at i:112230502 original size:17 final size:20
Alignment explanation
Indices: 112230467--112230502 Score: 51
Period size: 17 Copynumber: 1.9 Consensus size: 20
112230457 AAATATTATA
112230467 AAAATATTATAAATGTCATG
1 AAAATATTATAAATGTCATG
112230487 AAAA-ATTA-AAAT-TCAT
1 AAAATATTATAAATGTCAT
112230503 TATCAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 3
0.84 0.00 0.16
Matches are distributed among these distances:
17 4 0.25
18 4 0.25
19 4 0.25
20 4 0.25
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.33
Consensus pattern (20 bp):
AAAATATTATAAATGTCATG
Found at i:112230751 original size:19 final size:19
Alignment explanation
Indices: 112230706--112230752 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
112230696 TAAATATTAA
*
112230706 AATAAAAATAAAAATATAG
1 AATAAAAATAAAAATAAAG
* *
112230725 AATCAAAACT-AAAATAAAT
1 AAT-AAAAATAAAAATAAAG
112230744 AATAAAAAT
1 AATAAAAAT
112230753 TAGATTAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 5 0.22
19 13 0.57
20 5 0.22
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.21
Consensus pattern (19 bp):
AATAAAAATAAAAATAAAG
Found at i:112235848 original size:7 final size:7
Alignment explanation
Indices: 112235838--112235939 Score: 69
Period size: 7 Copynumber: 14.0 Consensus size: 7
112235828 CTAGTTAACT
112235838 CTTAAAC
1 CTTAAAC
112235845 CTTAAAC
1 CTTAAAC
*
112235852 CCTAAAC
1 CTTAAAC
* * *
112235859 CATATAT
1 CTTAAAC
112235866 CTTAAAC
1 CTTAAAC
*
112235873 CATAGTTAAC
1 C-T--TAAAC
*
112235883 TCATAAAC
1 -CTTAAAC
112235891 CTTAAAC
1 CTTAAAC
112235898 CTTAAAC
1 CTTAAAC
*
112235905 CCTAAAC
1 CTTAAAC
* * *
112235912 CATATAT
1 CTTAAAC
112235919 CTTAAAC
1 CTTAAAC
*
112235926 CATAAAC
1 CTTAAAC
112235933 CTTAAAC
1 CTTAAAC
112235940 TATAATGATA
Statistics
Matches: 71, Mismatches: 20, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
7 61 0.86
8 5 0.07
10 4 0.06
11 1 0.01
ACGTcount: A:0.44, C:0.27, G:0.01, T:0.27
Consensus pattern (7 bp):
CTTAAAC
Found at i:112235857 original size:14 final size:14
Alignment explanation
Indices: 112235838--112235944 Score: 87
Period size: 14 Copynumber: 7.9 Consensus size: 14
112235828 CTAGTTAACT
*
112235838 CTTAAACCTTAAAC
1 CTTAAACCATAAAC
* * *
112235852 CCTAAACCATATAT
1 CTTAAACCATAAAC
112235866 CTTAAACCAT--A-
1 CTTAAACCATAAAC
*
112235877 GTT-AACTCATAAAC
1 CTTAAAC-CATAAAC
*
112235891 CTTAAACCTTAAAC
1 CTTAAACCATAAAC
* * *
112235905 CCTAAACCATATAT
1 CTTAAACCATAAAC
112235919 CTTAAACCATAAAC
1 CTTAAACCATAAAC
*
112235933 CTTAAACTATAA
1 CTTAAACCATAA
112235945 TGATAATTAA
Statistics
Matches: 72, Mismatches: 16, Indels: 10
0.73 0.16 0.10
Matches are distributed among these distances:
10 3 0.04
11 5 0.07
12 1 0.01
13 1 0.01
14 59 0.82
15 3 0.04
ACGTcount: A:0.45, C:0.26, G:0.01, T:0.28
Consensus pattern (14 bp):
CTTAAACCATAAAC
Found at i:112236157 original size:41 final size:41
Alignment explanation
Indices: 112236100--112236311 Score: 257
Period size: 41 Copynumber: 5.2 Consensus size: 41
112236090 GTTATATGAC
*
112236100 TTTTAGC-AGCGTTTTACCAAAAACACCGCTAATGCTCTGGT
1 TTTTAGCGA-CGTTTTACCAAAAACGCCGCTAATGCTCTGGT
* * * *
112236141 TTTTAGCTACGTTTTACCAAAAAAGCCGCTAATACTCTTGT
1 TTTTAGCGACGTTTTACCAAAAACGCCGCTAATGCTCTGGT
* * *
112236182 TTTTAGCGTCGTTTTACCAAAAACGCCGATAATGCTCTTGT
1 TTTTAGCGACGTTTTACCAAAAACGCCGCTAATGCTCTGGT
* * *
112236223 TTTTAGCGGCGTTTTACCAAAAGCGCAGCTAATGCTCTGGT
1 TTTTAGCGACGTTTTACCAAAAACGCCGCTAATGCTCTGGT
** * * *
112236264 TTTTAGCGGTGGTTTACCAAAAGCGCCGCTAATGCTCT-AT
1 TTTTAGCGACGTTTTACCAAAAACGCCGCTAATGCTCTGGT
112236304 TTTTAGCG
1 TTTTAGCG
112236312 GCATTTTTTA
Statistics
Matches: 152, Mismatches: 18, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
40 9 0.06
41 142 0.93
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (41 bp):
TTTTAGCGACGTTTTACCAAAAACGCCGCTAATGCTCTGGT
Found at i:112236328 original size:123 final size:122
Alignment explanation
Indices: 112236100--112236359 Score: 292
Period size: 123 Copynumber: 2.1 Consensus size: 122
112236090 GTTATATGAC
* * * *
112236100 TTTTAGCAGCGTTTTACCAAAAACACCGCTAATGCTCTGGTTTTTAGCTACGTTTTACCAAAAAA
1 TTTTAGCGGCGTTTTACCAAAAACACAGCTAATGCTCTGGTTTTTAGCGACGGTTTACCAAAAAA
* * *
112236165 GCCGCTAATACTCTTGTTTTTAGCGTCGTTTTACCAAAAACGCCGA-TAATGCTCTTGT
66 GCCGCTAATACTCTTATTTTTAGCGGCGTTTTACCAAAAACGCC-ATTAATACT-TTGT
* * ** **
112236223 TTTTAGCGGCGTTTTACCAAAAGCGCAGCTAATGCTCTGGTTTTTAGCGGTGGTTTACCAAAAGC
1 TTTTAGCGGCGTTTTACCAAAAACACAGCTAATGCTCTGGTTTTTAGCGACGGTTTACCAAAAAA
* * * * *
112236288 GCCGCTAATGCTC-TATTTTTAGCGGCATTTTTTA-CTAAAACGTCATTATTACTTTGT
66 GCCGCTAATACTCTTATTTTTAGCGGC--GTTTTACCAAAAACGCCATTAATACTTTGT
*
112236345 TTTTAGCGGCATTTT
1 TTTTAGCGGCGTTTT
112236360 TGTTAAAATG
Statistics
Matches: 115, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
122 30 0.26
123 80 0.70
124 5 0.04
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (122 bp):
TTTTAGCGGCGTTTTACCAAAAACACAGCTAATGCTCTGGTTTTTAGCGACGGTTTACCAAAAAA
GCCGCTAATACTCTTATTTTTAGCGGCGTTTTACCAAAAACGCCATTAATACTTTGT
Found at i:112236390 original size:41 final size:40
Alignment explanation
Indices: 112236201--112236390 Score: 111
Period size: 41 Copynumber: 4.7 Consensus size: 40
112236191 CGTTTTACCA
* * * *
112236201 AAAACGCCGATAATGCTCTTGTTTTTAGCGGC--GTTTTACC
1 AAAACGCCGCTATTGCTC-TGTTTTTAGCGGCATTTTTTA-T
* * ** *
112236241 AAAAGCGCAGCTAATGCTCTGGTTTTTAGCGG--TGGTTTACC
1 AAAA-CGCCGCTATTGCTCT-GTTTTTAGCGGCATTTTTTA-T
* *
112236282 AAAAGCGCCGCTAATGCTCTATTTTTAGCGGCATTTTTTACT
1 AAAA-CGCCGCTATTGCTCTGTTTTTAGCGGCATTTTTTA-T
* ** * *
112236324 AAAACGTCATTATTACTTTGTTTTTAGCGGCATTTTTGT-T
1 AAAACGCCGCTATTGCTCTGTTTTTAGCGGCATTTTT-TAT
*
112236364 AAAATGCCGCTATTGCTCTGTGTTTTA
1 AAAACGCCGCTATTGCTCTGT-TTTTA
112236391 CAATTTTTAC
Statistics
Matches: 122, Mismatches: 21, Indels: 13
0.78 0.13 0.08
Matches are distributed among these distances:
40 31 0.25
41 80 0.66
42 11 0.09
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (40 bp):
AAAACGCCGCTATTGCTCTGTTTTTAGCGGCATTTTTTAT
Found at i:112236904 original size:26 final size:26
Alignment explanation
Indices: 112236867--112236924 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
112236857 TGATACAAAT
*
112236867 TGATAATAGGTTAGGTGAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
112236893 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
112236919 TGATAA
1 TGATAA
112236925 GAATTTCATG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:112238435 original size:25 final size:26
Alignment explanation
Indices: 112238407--112238458 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
112238397 TTTACAGTTT
112238407 TACCCCTAGAGATAAATT-ACCGAAA
1 TACCCCTAGAGATAAATTGACCGAAA
* * *
112238432 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGAGATAAATTGACCGAAA
112238458 T
1 T
112238459 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.25
Consensus pattern (26 bp):
TACCCCTAGAGATAAATTGACCGAAA
Found at i:112241387 original size:21 final size:21
Alignment explanation
Indices: 112241363--112241402 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
112241353 GTTGACGGAG
112241363 GTAACCTTCTTAGGACATGGA
1 GTAACCTTCTTAGGACATGGA
112241384 GTAACCTTCTTAGGACATG
1 GTAACCTTCTTAGGACATG
112241403 TGGTCTCTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.30
Consensus pattern (21 bp):
GTAACCTTCTTAGGACATGGA
Found at i:112242661 original size:26 final size:26
Alignment explanation
Indices: 112242624--112242681 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
112242614 TGATACAAAT
112242624 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
112242650 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
112242676 TGATAA
1 TGATAA
112242682 GAATTTCATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:112245553 original size:24 final size:24
Alignment explanation
Indices: 112245526--112245584 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
112245516 AACAGTGTTG
* *
112245526 CCAGGCCGTGTGATAGCCCGTGTC
1 CCAGGCCGTGTGACAGCCCATGTC
*
112245550 CCAGACCGTGTGACAGCCCATGTC
1 CCAGGCCGTGTGACAGCCCATGTC
*
112245574 TCAGGCCGTGT
1 CCAGGCCGTGT
112245585 ACTCCATAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.15, C:0.34, G:0.31, T:0.20
Consensus pattern (24 bp):
CCAGGCCGTGTGACAGCCCATGTC
Found at i:112247605 original size:13 final size:14
Alignment explanation
Indices: 112247587--112247616 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
112247577 TATTATTATT
112247587 AATC-AAAAAATTC
1 AATCAAAAAAATTC
112247600 AATCAAAAAAATTC
1 AATCAAAAAAATTC
112247614 AAT
1 AAT
112247617 TAAACCTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.63, C:0.13, G:0.00, T:0.23
Consensus pattern (14 bp):
AATCAAAAAAATTC
Found at i:112252726 original size:32 final size:32
Alignment explanation
Indices: 112252671--112252739 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 32
112252661 TAAATGACTG
*
112252671 AGTATCCGCAAGAATTGTGCTTAACCA-TGAAA
1 AGTATCCGCAAGAATTGTACTTAA-CAGTGAAA
** *
112252703 AGTATCCGCGTGATTTGTACTTAACAGTGAAA
1 AGTATCCGCAAGAATTGTACTTAACAGTGAAA
112252735 AGTAT
1 AGTAT
112252740 TCACATGTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 2 0.06
32 30 0.94
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (32 bp):
AGTATCCGCAAGAATTGTACTTAACAGTGAAA
Found at i:112255318 original size:2 final size:2
Alignment explanation
Indices: 112255311--112255339 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
112255301 GTATTTGATT
112255311 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
112255340 GATTGTGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:112259418 original size:23 final size:22
Alignment explanation
Indices: 112259378--112259444 Score: 62
Period size: 23 Copynumber: 3.0 Consensus size: 22
112259368 ATTAATTTTA
* * *
112259378 AAAAACTTGAAATGTATATTTG
1 AAAAATTTTAAATATATATTTG
** *
112259400 AAATGTTTTATAATATATATTTTT
1 AAAAATTTTA-AATATATA-TTTG
112259424 AAAAATTTTAAATATATATTT
1 AAAAATTTTAAATATATATTT
112259445 TTGAAATTAT
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
22 9 0.26
23 15 0.43
24 11 0.31
ACGTcount: A:0.45, C:0.01, G:0.06, T:0.48
Consensus pattern (22 bp):
AAAAATTTTAAATATATATTTG
Found at i:112259456 original size:25 final size:25
Alignment explanation
Indices: 112259396--112259457 Score: 83
Period size: 23 Copynumber: 2.5 Consensus size: 25
112259386 GAAATGTATA
*
112259396 TTTGAAATGTTTTATAATATATATT
1 TTTGAAATATTTTATAATATATATT
*
112259421 TTT-AAAAATTTTA-AATATATATT
1 TTTGAAATATTTTATAATATATATT
112259444 TTTGAAATTATTTT
1 TTTGAAA-TATTTT
112259458 TTGAAATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 13 0.41
24 11 0.34
25 8 0.25
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (25 bp):
TTTGAAATATTTTATAATATATATT
Found at i:112259458 original size:13 final size:14
Alignment explanation
Indices: 112259429--112259465 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
112259419 TTTTTAAAAA
112259429 TTTT-AAATATATAT
1 TTTTGAAAT-TATAT
112259443 TTTTGAAATTAT-T
1 TTTTGAAATTATAT
112259456 TTTTGAAATT
1 TTTTGAAATT
112259466 TTAAAAAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 11 0.50
14 7 0.32
15 4 0.18
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.59
Consensus pattern (14 bp):
TTTTGAAATTATAT
Found at i:112259584 original size:19 final size:20
Alignment explanation
Indices: 112259549--112259589 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
112259539 ATATATTTTT
112259549 AAATAAATTCATTTTTTAAC
1 AAATAAATTCATTTTTTAAC
*
112259569 AAATAAA-TCGTTTTTTAAC
1 AAATAAATTCATTTTTTAAC
112259588 AA
1 AA
112259590 TTTTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.41
Consensus pattern (20 bp):
AAATAAATTCATTTTTTAAC
Found at i:112259737 original size:21 final size:23
Alignment explanation
Indices: 112259686--112259747 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 23
112259676 TTGAATATCT
112259686 TTAAAAATAATT-TAAAAATCATAA
1 TTAAAAAT-ATTAT-AAAATCATAA
*
112259710 TTTAAAATATTATAAAA-CA-AA
1 TTAAAAATATTATAAAATCATAA
112259731 TTAAAAATATTA-AAAAT
1 TTAAAAATATTATAAAAT
112259748 ATTTTAAAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
20 4 0.12
21 13 0.38
22 2 0.06
23 7 0.21
24 8 0.24
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (23 bp):
TTAAAAATATTATAAAATCATAA
Found at i:112259835 original size:21 final size:22
Alignment explanation
Indices: 112259802--112259861 Score: 63
Period size: 21 Copynumber: 2.8 Consensus size: 22
112259792 ATTTAAATTT
*
112259802 TTTATATTATTAAAAATAT-ATA
1 TTTAAATT-TTAAAAATATAATA
*
112259824 TTT-AGTATTTAAAAA-ATAATA
1 TTTAAAT-TTTAAAAATATAATA
112259845 TTTAAATTTTAAAAATA
1 TTTAAATTTTAAAAATA
112259862 AATTAAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
20 2 0.06
21 22 0.71
22 7 0.23
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (22 bp):
TTTAAATTTTAAAAATATAATA
Found at i:112259837 original size:20 final size:21
Alignment explanation
Indices: 112259809--112259848 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
112259799 TTTTTTATAT
*
112259809 TATTAAAAATAT-ATATTTAG
1 TATTAAAAAAATAATATTTAG
*
112259829 TATTTAAAAAATAATATTTA
1 TATTAAAAAAATAATATTTA
112259849 AATTTTAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (21 bp):
TATTAAAAAAATAATATTTAG
Found at i:112259906 original size:35 final size:35
Alignment explanation
Indices: 112259830--112259929 Score: 152
Period size: 36 Copynumber: 2.9 Consensus size: 35
112259820 TATATTTAGT
112259830 ATTTAAAAAATAATATTT-AAATTTT--AAAAATA
1 ATTTAAAAAATAATATTTAAAATTTTAAAAAAATA
*
112259862 AATTAAAAAATAATATTTAAAATTTTAAAAAAATA
1 ATTTAAAAAATAATATTTAAAATTTTAAAAAAATA
*
112259897 ATTTCAAAAATATATATTTAAAATTTTAAAAAA
1 ATTTAAAAAATA-ATATTTAAAATTTTAAAAAA
112259930 TATATTATAA
Statistics
Matches: 61, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
32 17 0.28
33 7 0.11
35 17 0.28
36 20 0.33
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (35 bp):
ATTTAAAAAATAATATTTAAAATTTTAAAAAAATA
Found at i:112259930 original size:35 final size:34
Alignment explanation
Indices: 112259830--112259941 Score: 156
Period size: 35 Copynumber: 3.2 Consensus size: 34
112259820 TATATTTAGT
112259830 ATTTAAAAAATAATATTT-AAATTTT-AAAAATA
1 ATTTAAAAAATAATATTTAAAATTTTAAAAAATA
*
112259862 AATTAAAAAATAATATTTAAAATTTTAAAAAAATA
1 ATTTAAAAAATAATATTTAAAATTTT-AAAAAATA
*
112259897 ATTTCAAAAATATATATTTAAAATTTTAAAAAATA
1 ATTTAAAAAATA-ATATTTAAAATTTTAAAAAATA
112259932 TATTATAAAA
1 -ATT-TAAAA
112259942 CATTTCAAAT
Statistics
Matches: 70, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
32 17 0.24
33 7 0.10
35 25 0.36
36 17 0.24
37 4 0.06
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (34 bp):
ATTTAAAAAATAATATTTAAAATTTTAAAAAATA
Found at i:112259932 original size:21 final size:23
Alignment explanation
Indices: 112259896--112259950 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 23
112259886 TTAAAAAAAT
112259896 AATTTCAAAAATATATATT-TAA
1 AATTTCAAAAATATATATTATAA
*
112259918 AATTTTAAAAA-ATATATTATAAA
1 AATTTCAAAAATATATATTAT-AA
112259941 ACATTTCAAA
1 A-ATTTCAAA
112259951 TATACATTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 7 0.25
22 11 0.39
23 3 0.11
24 7 0.25
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (23 bp):
AATTTCAAAAATATATATTATAA
Found at i:112261323 original size:22 final size:21
Alignment explanation
Indices: 112261284--112261324 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
112261274 TTATTACTTT
* *
112261284 ATTTTATTTTAATTTTATACA
1 ATTTTATATTAATATTATACA
112261305 ATTTATATATTAATATTATA
1 ATTT-TATATTAATATTATA
112261325 TTTATATAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (21 bp):
ATTTTATATTAATATTATACA
Found at i:112262002 original size:9 final size:10
Alignment explanation
Indices: 112261978--112262003 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
112261968 CAAAAAAATT
112261978 ATTTTTTATA
1 ATTTTTTATA
112261988 ATTTTTTATA
1 ATTTTTTATA
112261998 ATTTTT
1 ATTTTT
112262004 CAATTTAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (10 bp):
ATTTTTTATA
Found at i:112265256 original size:18 final size:18
Alignment explanation
Indices: 112265233--112265267 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
112265223 GTTTTGGGGA
112265233 AAAATTCTTA-AAAATTTC
1 AAAATT-TTACAAAATTTC
112265251 AAAATTTTACAAAATTT
1 AAAATTTTACAAAATTT
112265268 ATCCAAAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (18 bp):
AAAATTTTACAAAATTTC
Found at i:112270119 original size:13 final size:13
Alignment explanation
Indices: 112270103--112270131 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
112270093 TTACTTTAGT
112270103 TATAATATAATAA
1 TATAATATAATAA
112270116 TATAATATAATAA
1 TATAATATAATAA
112270129 TAT
1 TAT
112270132 TTTCTTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TATAATATAATAA
Found at i:112271014 original size:15 final size:17
Alignment explanation
Indices: 112270994--112271036 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 17
112270984 AATAAATTAA
112270994 ATTATTTATTG-AATT-
1 ATTATTTATTGAAATTG
112271009 ATTATTTATATGAAATTG
1 ATTATTTAT-TGAAATTG
*
112271027 ATTATGTATT
1 ATTATTTATT
112271037 CAAGGGTACT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 9 0.38
16 2 0.08
17 5 0.21
18 8 0.33
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (17 bp):
ATTATTTATTGAAATTG
Found at i:112278648 original size:41 final size:40
Alignment explanation
Indices: 112278521--112278665 Score: 202
Period size: 40 Copynumber: 3.6 Consensus size: 40
112278511 CTCGCACAAG
* * * *
112278521 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
112278561 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
112278601 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
112278642 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
112278666 CATTCGAGTA
Statistics
Matches: 93, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.03
40 60 0.65
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:112305602 original size:42 final size:43
Alignment explanation
Indices: 112305522--112305636 Score: 146
Period size: 42 Copynumber: 2.7 Consensus size: 43
112305512 CCCAGACGTA
* *
112305522 GTCTTACATGTAATCAAATATCGATGCCACTGTCCCAAACAGG
1 GTCTTACACGAAATCAAATATCGATGCCACTGTCCCAAACAGG
*
112305565 GTCTTACACGAAATCAAATA-CGATGCCGA-TGTCCCAAACATG
1 GTCTTACACGAAATCAAATATCGATGCC-ACTGTCCCAAACAGG
*
112305607 GTCTTACACGTAAATCACAA-GTCGATGCCA
1 GTCTTACACG-AAATCA-AATATCGATGCCA
112305637 ACATCCCATA
Statistics
Matches: 64, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
42 29 0.45
43 26 0.41
44 9 0.14
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (43 bp):
GTCTTACACGAAATCAAATATCGATGCCACTGTCCCAAACAGG
Found at i:112308748 original size:136 final size:137
Alignment explanation
Indices: 112308515--112308789 Score: 480
Period size: 136 Copynumber: 2.0 Consensus size: 137
112308505 AGCCTATTCA
* * *
112308515 GGTAACAGTGGTACTGGGCCAGAGCCCTTTTCATATTACAATAAACTGGGCCTTAGCCCCTTATT
1 GGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATT
*
112308580 CAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATTAAT-AACATATGCAAGC
66 CAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAACATATGCAAGC
112308644 CAATTTG
131 CAATTTG
112308651 GGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATT
1 GGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATT
* *
112308716 CAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACGTATGCAAGC
66 CAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAACATATGCAAGC
*
112308781 CCATTTG
131 CAATTTG
112308788 GG
1 GG
112308790 GAGACTACTC
Statistics
Matches: 131, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
136 111 0.85
137 20 0.15
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (137 bp):
GGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATT
CAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAACATATGCAAGC
CAATTTG
Found at i:112310608 original size:26 final size:26
Alignment explanation
Indices: 112310572--112310707 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
112310562 CATGATATTC
112310572 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
112310598 TTATCATGAAACATTTACATAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
112310624 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
112310650 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
112310676 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
112310702 TTATCA
1 TTATCA
112310708 ATTTGTATCA
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 102 1.00
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:112314417 original size:40 final size:40
Alignment explanation
Indices: 112314372--112314497 Score: 148
Period size: 40 Copynumber: 3.1 Consensus size: 40
112314362 CGGAATATAA
112314372 CCGGATGTAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATGTAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
** * *
112314412 CCGGATAG-AATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGAT-GTAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
112314452 CCAGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATGTAACCACTAGCACAAATGCCTTCGGGTCTTAGC
112314492 CCGGAT
1 CCGGAT
112314498 ATAATTTCCA
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
39 2 0.03
40 68 0.96
41 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATGTAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:112317891 original size:135 final size:136
Alignment explanation
Indices: 112317650--112317933 Score: 509
Period size: 135 Copynumber: 2.1 Consensus size: 136
112317640 TATTGGGCCT
** *
112317650 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAAGCCCTTTTCAGATTACAATAAACTGGGCCTTA
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAGCCCTTTTCAGATTACAATAAACTGGGCCTTA
112317715 GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AAC
66 GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAAC
112317779 ATAT-C
131 ATATGC
112317784 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCC-AAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
112317849 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
65 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
112317914 CATATGC
130 CATATGC
112317921 AAGCCCATTTGGG
1 AAGCCCATTTGGG
112317934 GAGACTACTC
Statistics
Matches: 143, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
134 28 0.20
135 94 0.66
136 7 0.05
137 14 0.10
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGATACTGGGCCAAGCCCTTTTCAGATTACAATAAACTGGGCCTTA
GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAAC
ATATGC
Found at i:112319755 original size:26 final size:26
Alignment explanation
Indices: 112319719--112319854 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
112319709 CATGATATTC
112319719 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
112319745 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
112319771 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
112319797 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
112319823 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
112319849 TTATCA
1 TTATCA
112319855 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:112325305 original size:15 final size:15
Alignment explanation
Indices: 112325287--112325318 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
112325277 AACAGAGGGG
112325287 AAAGAAAGAAGGAAA
1 AAAGAAAGAAGGAAA
112325302 AAAGAAAGAAGGAAA
1 AAAGAAAGAAGGAAA
112325317 AA
1 AA
112325319 GGGAAAAATT
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:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (15 bp):
AAAGAAAGAAGGAAA
Found at i:112326884 original size:12 final size:12
Alignment explanation
Indices: 112326867--112326891 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
112326857 GCCTACTACT
112326867 GTTACTGTTACC
1 GTTACTGTTACC
112326879 GTTACTGTTACC
1 GTTACTGTTACC
112326891 G
1 G
112326892 ATTCAGCACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:112327004 original size:53 final size:53
Alignment explanation
Indices: 112326917--112327037 Score: 181
Period size: 53 Copynumber: 2.3 Consensus size: 53
112326907 TGTCGGATAT
* * *
112326917 TGTTACTGTTACT-TTTCGGATTTGTTCTGATGAGGTACTCTGTGTACCGTAA
1 TGTTACTGTTACTGTTTCGGATTTATTCCGATGAGGTACTCTGTGTACCATAA
* *
112326969 TGTTATTGTTACTGTTTCGGATTTATTCCGATGAGGTACTCTGTGTACCATAC
1 TGTTACTGTTACTGTTTCGGATTTATTCCGATGAGGTACTCTGTGTACCATAA
*
112327022 TGCTACTGTTACTGTT
1 TGTTACTGTTACTGTT
112327038 ACTGTTCCAG
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
52 12 0.20
53 49 0.80
ACGTcount: A:0.17, C:0.17, G:0.21, T:0.45
Consensus pattern (53 bp):
TGTTACTGTTACTGTTTCGGATTTATTCCGATGAGGTACTCTGTGTACCATAA
Found at i:112327219 original size:18 final size:18
Alignment explanation
Indices: 112327156--112327226 Score: 63
Period size: 18 Copynumber: 3.9 Consensus size: 18
112327146 TGGAAAGATC
112327156 GACTGTTACTGAATAATTT
1 GACTGTTACTGAATAA-TT
* * *
112327175 AATTGTTACTGTAT-ATCT
1 GACTGTTACTGAATAAT-T
* *
112327193 GATTTTTACTGAATAATT
1 GACTGTTACTGAATAATT
*
112327211 GACTGTTACTGGATAA
1 GACTGTTACTGAATAA
112327227 CCGATCAGTT
Statistics
Matches: 41, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
17 1 0.02
18 27 0.66
19 13 0.32
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.44
Consensus pattern (18 bp):
GACTGTTACTGAATAATT
Found at i:112327305 original size:18 final size:18
Alignment explanation
Indices: 112327243--112327306 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 18
112327233 AGTTGATTGA
*
112327243 TACTGAACAACTGATTAT
1 TACTGAATAACTGATTAT
* * *
112327261 TATTGAATAATTGATTGT
1 TACTGAATAACTGATTAT
** *
112327279 TACCAAATAACTGACTAT
1 TACTGAATAACTGATTAT
112327297 TACTGAATAA
1 TACTGAATAA
112327307 ATAATTGTTT
Statistics
Matches: 34, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.41, C:0.12, G:0.11, T:0.36
Consensus pattern (18 bp):
TACTGAATAACTGATTAT
Found at i:112330831 original size:10 final size:10
Alignment explanation
Indices: 112330818--112330853 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
112330808 TTGTACTTTA
112330818 TTTATTTTTG
1 TTTATTTTTG
112330828 TTTATTTTCT-
1 TTTATTTT-TG
112330838 TTTATTTTTG
1 TTTATTTTTG
112330848 TTTATT
1 TTTATT
112330854 ATTTTGATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 1 0.04
10 22 0.92
11 1 0.04
ACGTcount: A:0.11, C:0.03, G:0.06, T:0.81
Consensus pattern (10 bp):
TTTATTTTTG
Found at i:112333447 original size:20 final size:20
Alignment explanation
Indices: 112333422--112333462 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
112333412 AAAATAGTAT
112333422 ATTTTAATTTTCATATTATA
1 ATTTTAATTTTCATATTATA
112333442 ATTTTAATTTTCATATTATA
1 ATTTTAATTTTCATATTATA
112333462 A
1 A
112333463 AGAGTTTGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.59
Consensus pattern (20 bp):
ATTTTAATTTTCATATTATA
Found at i:112336033 original size:68 final size:66
Alignment explanation
Indices: 112335960--112336131 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
112335950 CATCATGTGT
* * * *
112335960 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
112336023 TGTAG
62 TGTAG
** * *
112336028 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
112336093 AG
65 AG
* * * *
112336095 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
112336132 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 24 0.27
65 3 0.03
66 17 0.19
67 32 0.36
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:112336065 original size:64 final size:64
Alignment explanation
Indices: 112335984--112336153 Score: 191
Period size: 67 Copynumber: 2.6 Consensus size: 64
112335974 AGACATTATG
* * *
112335984 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
112336048 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
112336113 AA
63 AA
* * *
112336115 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCAT
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCAT
112336154 ATGTAAAAGA
Statistics
Matches: 86, Mismatches: 16, Indels: 9
0.77 0.14 0.08
Matches are distributed among these distances:
63 7 0.08
64 25 0.29
66 21 0.24
67 33 0.38
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:112336569 original size:19 final size:19
Alignment explanation
Indices: 112336541--112336674 Score: 213
Period size: 19 Copynumber: 7.2 Consensus size: 19
112336531 AATCTTTAAG
112336541 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
112336560 GATATACAATCTTAGATAT
1 GATATGCAATCTTAGATAT
112336579 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
112336596 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
112336615 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
112336634 G--ATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
112336651 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
112336672 GAT
1 GAT
112336675 CTTGTAATCA
Statistics
Matches: 108, Mismatches: 1, Indels: 10
0.91 0.01 0.08
Matches are distributed among these distances:
17 34 0.31
19 65 0.60
21 9 0.08
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:112336604 original size:55 final size:55
Alignment explanation
Indices: 112336541--112336674 Score: 232
Period size: 55 Copynumber: 2.4 Consensus size: 55
112336531 AATCTTTAAG
112336541 GATATGCAATCTTAGATATGATATACAATCTTAGATATGATACAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATACAATCTTAGATATGATACAATCTTAGATAT
* *
112336596 GATATGCAATCTTAGATATGATATGCAATCTTAGATATGATGCAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATACAATCTTAGATATGATACAATCTTAGATAT
112336651 GATATGCAATCTTGAAGATATGAT
1 GATATGCAATCTT--AGATATGAT
112336675 CTTGTAATCA
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
55 66 0.88
57 9 0.12
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (55 bp):
GATATGCAATCTTAGATATGATATACAATCTTAGATATGATACAATCTTAGATAT
Found at i:112336639 original size:36 final size:37
Alignment explanation
Indices: 112336541--112336673 Score: 200
Period size: 36 Copynumber: 3.6 Consensus size: 37
112336531 AATCTTTAAG
*
112336541 GATATGCAATCTTAGATATGATATACAATCTTAGATAT
1 GATATGCAATCTTAGATATGA-ATGCAATCTTAGATAT
112336579 GATA--CAATCTTAGATATGATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATATGA-ATGCAATCTTAGATAT
112336615 GATATGCAATCTTAGATATG-ATGCAATCTTAGATAT
1 GATATGCAATCTTAGATATGAATGCAATCTTAGATAT
112336651 GATATGCAATCTTGAAGATATGA
1 GATATGCAATCTT--AGATATGA
112336674 TCTTGTAATC
Statistics
Matches: 89, Mismatches: 1, Indels: 9
0.90 0.01 0.09
Matches are distributed among these distances:
36 64 0.72
38 25 0.28
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (37 bp):
GATATGCAATCTTAGATATGAATGCAATCTTAGATAT
Found at i:112339686 original size:10 final size:10
Alignment explanation
Indices: 112339671--112339719 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
112339661 GATGATACCT
112339671 TTTGCATTCA
1 TTTGCATTCA
*
112339681 TTTGCA-TCT
1 TTTGCATTCA
112339690 TATTGCATTTCA
1 T-TTGCA-TTCA
112339702 -TTGCA-TCA
1 TTTGCATTCA
112339710 TTTGCATTCA
1 TTTGCATTCA
112339720 AAATTATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
8 3 0.09
9 8 0.25
10 19 0.59
12 2 0.06
ACGTcount: A:0.20, C:0.20, G:0.10, T:0.49
Consensus pattern (10 bp):
TTTGCATTCA
Found at i:112339697 original size:20 final size:18
Alignment explanation
Indices: 112339671--112339719 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 18
112339661 GATGATACCT
*
112339671 TTTGCATTCATTTGCATCT
1 TTTGCATTCA-TTGCATCA
112339690 TATTGCATTTCATTGCATCA
1 T-TTGCA-TTCATTGCATCA
112339710 TTTGCATTCA
1 TTTGCATTCA
112339720 AAATTATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 4 0.15
19 6 0.22
20 13 0.48
21 4 0.15
ACGTcount: A:0.20, C:0.20, G:0.10, T:0.49
Consensus pattern (18 bp):
TTTGCATTCATTGCATCA
Found at i:112342331 original size:13 final size:13
Alignment explanation
Indices: 112342305--112342357 Score: 56
Period size: 13 Copynumber: 4.2 Consensus size: 13
112342295 CTTCTATTTT
*
112342305 AAAA-AAAAGGAA
1 AAAAGAAAAGAAA
112342317 AAAAGAAAAGAAA
1 AAAAGAAAAGAAA
* *
112342330 AAGAGAAAAAAATA
1 AAAAGAAAAGAA-A
112342344 AAAAGAAAA-AAA
1 AAAAGAAAAGAAA
112342356 AA
1 AA
112342358 TGGAGAGGCC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
12 7 0.20
13 19 0.54
14 9 0.26
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.02
Consensus pattern (13 bp):
AAAAGAAAAGAAA
Found at i:112342341 original size:16 final size:15
Alignment explanation
Indices: 112342305--112342356 Score: 54
Period size: 16 Copynumber: 3.5 Consensus size: 15
112342295 CTTCTATTTT
*
112342305 AAAAAAAAG-GAAA-
1 AAAAAAAAGAAAAAG
*
112342318 AAAGAAAAGAAAAAG
1 AAAAAAAAGAAAAAG
*
112342333 AGAAAAAAATAAAAAG
1 A-AAAAAAAGAAAAAG
112342349 AAAAAAAA
1 AAAAAAAA
112342357 ATGGAGAGGC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
13 8 0.25
14 3 0.09
15 8 0.25
16 13 0.41
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.02
Consensus pattern (15 bp):
AAAAAAAAGAAAAAG
Found at i:112342357 original size:16 final size:16
Alignment explanation
Indices: 112342316--112342358 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
112342306 AAAAAAAGGA
*
112342316 AAAAAGAAAAGAAAAAG
1 AAAAA-AAAATAAAAAG
*
112342333 AGAAAAAAATAAAAAG
1 AAAAAAAAATAAAAAG
112342349 AAAAAAAAAT
1 AAAAAAAAAT
112342359 GGAGAGGCCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 19 0.83
17 4 0.17
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.05
Consensus pattern (16 bp):
AAAAAAAAATAAAAAG
Found at i:112343325 original size:45 final size:45
Alignment explanation
Indices: 112343272--112343582 Score: 185
Period size: 44 Copynumber: 7.0 Consensus size: 45
112343262 CAAGATTTGG
*
112343272 CATCCCTGTGTTTATAGGGAAACAGATCGAAGATAGCAGATCTAA
1 CATCCCTGTGTTTATAGGGAAACAGATCGAAGATAGCAGATCTGA
* * * * ** *
112343317 CA-CTCCTGTGCTTACAGTGAAACAGATCAAAGATTTCAG--CATGG
1 CATC-CCTGTGTTTATAGGGAAACAGATCGAAGATAGCAGATC-TGA
* * * * * *
112343361 CATCCCTATGTTTATAAGG-AACA-AGTTGAAGATAGGAGATTTGG
1 CATCCCTGTGTTTATAGGGAAACAGA-TCGAAGATAGCAGATCTGA
*
112343405 CATCCCTGTGTTTATAGGG-AACAGATCGAAGATAGCAGATCCGA
1 CATCCCTGTGTTTATAGGGAAACAGATCGAAGATAGCAGATCTGA
* * * * * * *** *
112343449 CATTCTTGTGCTTACAGCGAAACAGATCAAAGATTTTA-A-CATGG
1 CATCCCTGTGTTTATAGGGAAACAGATCGAAGATAGCAGATC-TGA
* ** * *
112343493 CATCCCTATGTTTATAGGG-AAC-GAGTTTAAGATAGCAGATTTGG
1 CATCCCTGTGTTTATAGGGAAACAGA-TCGAAGATAGCAGATCTGA
* * *
112343537 CATCCCTGTGTTTACAGGG-AACAAATTGAAGACATAGCAGATCTGA
1 CATCCCTGTGTTTATAGGGAAACAGATCGAAG--ATAGCAGATCTGA
112343583 TTTTCGGATG
Statistics
Matches: 196, Mismatches: 55, Indels: 29
0.70 0.20 0.10
Matches are distributed among these distances:
42 3 0.02
43 24 0.12
44 110 0.56
45 48 0.24
46 11 0.06
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.27
Consensus pattern (45 bp):
CATCCCTGTGTTTATAGGGAAACAGATCGAAGATAGCAGATCTGA
Found at i:112343502 original size:132 final size:132
Alignment explanation
Indices: 112343264--112343579 Score: 479
Period size: 132 Copynumber: 2.4 Consensus size: 132
112343254 CAAAGAAACA
*
112343264 AGATTTGGCATCCCTGTGTTTATAGGGAAACAGATCGAAGATAGCAGATCTAACACTCCTGTGCT
1 AGATTTGGCATCCCTGTGTTTATAGGG-AACAGATCGAAGATAGCAGATCCAACACTCCTGTGCT
* *
112343329 TACAGTGAAACAGATCAAAGATTTCAGCATGGCATCCCTATGTTTATAAGGAACAAGTTGAAGAT
65 TACAGCGAAACAGATCAAAGATTTCAACATGGCATCCCTATGTTTATAAGGAACAAGTTGAAGAT
*
112343394 AGG
130 AGC
* * *
112343397 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCCGACATTCTTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCCAACACTCCTGTGCTT
* * * *
112343462 ACAGCGAAACAGATCAAAGATTTTAACATGGCATCCCTATGTTTATAGGGAACGAGTTTAAGATA
66 ACAGCGAAACAGATCAAAGATTTCAACATGGCATCCCTATGTTTATAAGGAACAAGTTGAAGATA
112343527 GC
131 GC
* * *
112343529 AGATTTGGCATCCCTGTGTTTACAGGGAACAAATTGAAGACATAGCAGATC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAG--ATAGCAGATC
112343580 TGATTTTCGG
Statistics
Matches: 167, Mismatches: 14, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
132 130 0.78
133 27 0.16
134 10 0.06
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (132 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCCAACACTCCTGTGCTT
ACAGCGAAACAGATCAAAGATTTCAACATGGCATCCCTATGTTTATAAGGAACAAGTTGAAGATA
GC
Found at i:112344009 original size:87 final size:87
Alignment explanation
Indices: 112343739--112344217 Score: 331
Period size: 87 Copynumber: 5.5 Consensus size: 87
112343729 AACTCTAACA
*
112343739 TTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAACAAAT
1 TTCAGATGTTTACACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAACAAAT
*
112343804 TGAAGACATAGCAGATTTGACT
66 CGAAGACATAGCAGATTTGACT
* ** * *** *
112343826 TTCGGATGTTCTCACACCAAAGCAGATCCAAGATAACAGATCTGGCA-TC-TCCATTT-CGACGG
1 TTCAGATGTT-T-ACACTGAAGCAGATCCAAGAT----GATTTGGCATTCTTGTGTTTAC-AAGG
* * * * * * * *
112343888 ---AGAGC-AGGTACATAGAAGGTCTAACC
59 AACAAATCGAAG-ACATAGCAGATTTGACT
* *
112343914 TTCAGATGTTTATACTGAAGTAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAACAAAT
1 TTCAGATGTTTACACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAACAAAT
112343979 CGAAGACATAGCAGATTTGACT
66 CGAAGACATAGCAGATTTGACT
* ** * *** *
112344001 TTCGGATGTTCTTACACCAAAGCAGATCCAAGATAACAGATCTGGCA-TC-TCCATTT-CGACGG
1 TTCAGATG-T-TTACACTGAAGCAGATCCAAGAT----GATTTGGCATTCTTGTGTTTAC-AAGG
* * * * *
112344063 -A-GAATAG-ATACATAGCAGATTTAACC
59 AACAAATCGAAGACATAGCAGATTTGACT
* * * *
112344089 TTCAGATGATTT-TACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTCACAAGGAGCAAA
1 TTCAGATG-TTTACACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAACAAA
* *
112344153 TCAAAGACATAGCAGATTTGGCT
65 TCGAAGACATAGCAGATTTGACT
* *
112344176 TTCACG-TGTTTACGCTGAAGCAGATCTAAGATGATTTGGCAT
1 TTCA-GATGTTTACACTGAAGCAGATCCAAGATGATTTGGCAT
112344218 CTCTGTATTG
Statistics
Matches: 288, Mismatches: 74, Indels: 60
0.68 0.18 0.14
Matches are distributed among these distances:
82 16 0.06
83 3 0.01
84 13 0.05
85 2 0.01
86 40 0.14
87 84 0.29
88 52 0.18
89 41 0.14
90 3 0.01
91 14 0.05
92 4 0.01
93 16 0.06
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.28
Consensus pattern (87 bp):
TTCAGATGTTTACACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAACAAAT
CGAAGACATAGCAGATTTGACT
Found at i:112344030 original size:175 final size:175
Alignment explanation
Indices: 112343732--112344178 Score: 743
Period size: 175 Copynumber: 2.6 Consensus size: 175
112343722 TAGAAAGAAC
*
112343732 TCTAACATTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGG
1 TCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGG
*
112343797 AACAAATTGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACCAAAGCAGATCCAAGATAA
66 AACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACCAAAGCAGATCCAAGATAA
* * *
112343862 CAGATCTGGCATCTCCATTTCGACGGAGAGCAGGTACATAGAAGG
131 CAGATCTGGCATCTCCATTTCGACGGAGAACAGATACATAGAAGA
*
112343907 TCTAACCTTCAGATGTTTATACTGAAGTAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGG
1 TCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGG
*
112343972 AACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTTACACCAAAGCAGATCCAAGATAA
66 AACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACCAAAGCAGATCCAAGATAA
* *
112344037 CAGATCTGGCATCTCCATTTCGACGGAGAATAGATACATAGCAGA
131 CAGATCTGGCATCTCCATTTCGACGGAGAACAGATACATAGAAGA
* * *
112344082 TTTAACCTTCAGATGATTT-TACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTCACAAG
1 TCTAACCTTCAGATG-TTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAG
* * *
112344146 GAGCAAATCAAAGACATAGCAGATTTGGCTTTC
65 GAACAAATCGAAGACATAGCAGATTTGACTTTC
112344179 ACGTGTTTAC
Statistics
Matches: 255, Mismatches: 16, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
175 252 0.99
176 3 0.01
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (175 bp):
TCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGG
AACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACCAAAGCAGATCCAAGATAA
CAGATCTGGCATCTCCATTTCGACGGAGAACAGATACATAGAAGA
Found at i:112344082 original size:88 final size:88
Alignment explanation
Indices: 112343809--112344084 Score: 251
Period size: 88 Copynumber: 3.1 Consensus size: 88
112343799 CAAATTGAAG
*
112343809 ACATAGCAGATTTGACTTTCGGATGTTCTCACACCAAAGCAGATCCAAGATAACAGATCTGGCAT
1 ACATAGCAGATTTGACTTTCGGATGTTCTTACACCAAAGCAGATCCAAGATAACAGATCTGGCAT
** *
112343874 CTCCATTTCGACGGAGAGCAGGT
66 CTCCATTTCGACGGAGAATAGAT
* * * * * * * ** * *
112343897 ACATAGAAGGTCTAACCTTCAGATG-T-TTATACTGAAGTAGATCCAAGAT----GATTTGGCAT
1 ACATAGCAGATTTGACTTTCGGATGTTCTTACACCAAAGCAGATCCAAGATAACAGATCTGGCA-
*** * * * *
112343956 TCTTGTGTTTAC-AAGGAACAAATCGAAG
65 TC-TCCATTT-CGACGG-A-GAATAG-AT
112343984 ACATAGCAGATTTGACTTTCGGATGTTCTTACACCAAAGCAGATCCAAGATAACAGATCTGGCAT
1 ACATAGCAGATTTGACTTTCGGATGTTCTTACACCAAAGCAGATCCAAGATAACAGATCTGGCAT
112344049 CTCCATTTCGACGGAGAATAGAT
66 CTCCATTTCGACGGAGAATAGAT
112344072 ACATAGCAGATTT
1 ACATAGCAGATTT
112344085 AACCTTCAGA
Statistics
Matches: 135, Mismatches: 40, Indels: 26
0.67 0.20 0.13
Matches are distributed among these distances:
82 8 0.06
83 2 0.01
84 7 0.05
85 2 0.01
86 20 0.15
87 20 0.15
88 34 0.25
89 23 0.17
90 2 0.01
91 7 0.05
92 2 0.01
93 8 0.06
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (88 bp):
ACATAGCAGATTTGACTTTCGGATGTTCTTACACCAAAGCAGATCCAAGATAACAGATCTGGCAT
CTCCATTTCGACGGAGAATAGAT
Found at i:112344118 original size:86 final size:85
Alignment explanation
Indices: 112343845--112344120 Score: 238
Period size: 86 Copynumber: 3.2 Consensus size: 85
112343835 TCTCACACCA
** * * * *
112343845 AAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAGCAGGTACATAGAAGGTCT
1 AAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAATAGATACATAGCAGATTT
112343910 AACCTTCAGATGTTTATACTG
66 AACCTTCAGATGTTT-TACTG
* * *** * * * *
112343931 AAGTAGATCCAAGAT----GATTTGGCATTCTTGTGTTTAC-AAGGAACAAATCGAAGACATAGC
1 AAGCAGATCCAAGATAACAGATCTGGCA-TC-TCCATTT-CGACGG-A-GAATAG-ATACATAGC
* * * **
112343991 AGATTTGACTTTCGGATGTTCTTACACCA
60 AGATTTAACCTTCAGATGTT-TT--ACTG
112344020 AAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAATAGATACATAGCAGATTT
1 AAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAATAGATACATAGCAGATTT
112344085 AACCTTCAGATGATTTTACTG
66 AACCTTCAGATG-TTTTACTG
112344106 AAGCAGATCCAAGAT
1 AAGCAGATCCAAGAT
112344121 GATTTGGCAT
Statistics
Matches: 141, Mismatches: 34, Indels: 30
0.69 0.17 0.15
Matches are distributed among these distances:
82 8 0.06
83 2 0.01
84 7 0.05
85 2 0.01
86 33 0.23
87 22 0.16
88 26 0.18
89 22 0.16
90 2 0.01
91 7 0.05
92 2 0.01
93 8 0.06
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.26
Consensus pattern (85 bp):
AAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAATAGATACATAGCAGATTT
AACCTTCAGATGTTTTACTG
Found at i:112344265 original size:44 final size:45
Alignment explanation
Indices: 112344208--112344293 Score: 111
Period size: 45 Copynumber: 1.9 Consensus size: 45
112344198 GATCTAAGAT
* * *
112344208 GATTTGGCATCTCTGTATT-GTCAGAAAACAGATCGAAGATAACA
1 GATTTGGCATCTCTATATTAGACAGAAAACAGATCAAAGATAACA
* * *
112344252 GATTTGGCGTCTCTATATTAGACGGAGAACAGATCAAAGATA
1 GATTTGGCATCTCTATATTAGACAGAAAACAGATCAAAGATA
112344294 GTAGATATCG
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
44 17 0.49
45 18 0.51
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (45 bp):
GATTTGGCATCTCTATATTAGACAGAAAACAGATCAAAGATAACA
Found at i:112344674 original size:19 final size:19
Alignment explanation
Indices: 112344650--112344783 Score: 222
Period size: 19 Copynumber: 7.2 Consensus size: 19
112344640 AATCTTTAAG
112344650 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
112344669 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
112344688 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
112344705 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
112344724 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
112344743 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
112344760 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
112344781 GAT
1 GAT
112344784 CTTGTAATCT
Statistics
Matches: 109, Mismatches: 0, Indels: 10
0.92 0.00 0.08
Matches are distributed among these distances:
17 34 0.31
19 66 0.61
21 9 0.08
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:112344680 original size:36 final size:38
Alignment explanation
Indices: 112344650--112344783 Score: 222
Period size: 36 Copynumber: 3.6 Consensus size: 38
112344640 AATCTTTAAG
112344650 GATATGCAATCTTAGATATGATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGCAATCTTAGATAT
112344688 GATA--CAATCTTAGATATGATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGCAATCTTAGATAT
112344724 GATATGCAATCTTAGATATGATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGCAATCTTAGATAT
112344760 GATATGCAATCTTGAAGATATGAT
1 GATATGCAATCTT--AGATATGAT
112344784 CTTGTAATCT
Statistics
Matches: 92, Mismatches: 0, Indels: 8
0.92 0.00 0.08
Matches are distributed among these distances:
36 62 0.67
38 30 0.33
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATATGCAATCTTAGATAT
Found at i:112344713 original size:55 final size:55
Alignment explanation
Indices: 112344650--112344783 Score: 250
Period size: 55 Copynumber: 2.4 Consensus size: 55
112344640 AATCTTTAAG
112344650 GATATGCAATCTTAGATATGATATGCAATCTTAGATATGATACAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGCAATCTTAGATATGATACAATCTTAGATAT
112344705 GATATGCAATCTTAGATATGATATGCAATCTTAGATATGATACAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGCAATCTTAGATATGATACAATCTTAGATAT
112344760 GATATGCAATCTTGAAGATATGAT
1 GATATGCAATCTT--AGATATGAT
112344784 CTTGTAATCT
Statistics
Matches: 77, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
55 68 0.88
57 9 0.12
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (55 bp):
GATATGCAATCTTAGATATGATATGCAATCTTAGATATGATACAATCTTAGATAT
Found at i:112351147 original size:42 final size:43
Alignment explanation
Indices: 112351078--112351160 Score: 125
Period size: 42 Copynumber: 2.0 Consensus size: 43
112351068 TCTTACATGT
*
112351078 AATCAAATATCGATGCCACTGTCCCAGACAGGGTCTTACACAA
1 AATCAAATATCGATGCCACTATCCCAGACAGGGTCTTACACAA
*
112351121 AATCAAATA-CGATGCCGA-TATCCCAGACATGGTCTTACAC
1 AATCAAATATCGATGCC-ACTATCCCAGACAGGGTCTTACAC
112351161 GTAAATCATA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
42 27 0.73
43 10 0.27
ACGTcount: A:0.35, C:0.28, G:0.16, T:0.22
Consensus pattern (43 bp):
AATCAAATATCGATGCCACTATCCCAGACAGGGTCTTACACAA
Found at i:112351198 original size:44 final size:43
Alignment explanation
Indices: 112351059--112351204 Score: 154
Period size: 43 Copynumber: 3.4 Consensus size: 43
112351049 GCCAACATCT
* * *
112351059 CAGACGTGGTCTTACATGT-AATCAAATATCGATGCCACTGTCC
1 CAGACATGGTCTTACACGTAAATCAAATAT-GATGCCAATGTCC
* * * * *
112351102 CAGACAGGGTCTTACAC-AAAATCAAATACGATGCCGATATCC
1 CAGACATGGTCTTACACGTAAATCAAATATGATGCCAATGTCC
112351144 CAGACATGGTCTTACACGTAAATCATAAGT-TGATGCCAATGTCC
1 CAGACATGGTCTTACACGTAAATCA-AA-TATGATGCCAATGTCC
* *
112351188 CAAACCTGGTCTTACAC
1 CAGACATGGTCTTACAC
112351205 AATAACTCAT
Statistics
Matches: 84, Mismatches: 15, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
42 26 0.31
43 29 0.35
44 28 0.33
45 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (43 bp):
CAGACATGGTCTTACACGTAAATCAAATATGATGCCAATGTCC
Found at i:112353294 original size:13 final size:14
Alignment explanation
Indices: 112353276--112353307 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
112353266 TCCAACCACT
112353276 AATGATGC-AATAA
1 AATGATGCAAATAA
112353289 AATGATGCAAATAA
1 AATGATGCAAATAA
112353303 AATGA
1 AATGA
112353308 GGTTGACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.56, C:0.06, G:0.16, T:0.22
Consensus pattern (14 bp):
AATGATGCAAATAA
Found at i:112357141 original size:17 final size:18
Alignment explanation
Indices: 112357111--112357156 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
112357101 AAAATTTGTG
*
112357111 ATAATTATTCATTTAA-AA
1 ATAATTA-TGATTTAATAA
112357129 ATAATTATGATTTAATAA
1 ATAATTATGATTTAATAA
*
112357147 A-AATTTTGAT
1 ATAATTATGAT
112357157 AATCACACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 15 0.60
18 10 0.40
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (18 bp):
ATAATTATGATTTAATAA
Found at i:112357146 original size:44 final size:44
Alignment explanation
Indices: 112357101--112357188 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 44
112357091 GACATAAAAT
* ** * *
112357101 AAAATTTGTGATAATTATTCATTTAAAAATAATTATGATTTAATA
1 AAAATTT-TGATAATCACACATTTAAAAATAACTATAATTTAATA
112357146 AAAATTTTGATAATCACACATTTAAAAATAACTATAATTTAAT
1 AAAATTTTGATAATCACACATTTAAAAATAACTATAATTTAAT
112357189 TTACAATTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
44 31 0.82
45 7 0.18
ACGTcount: A:0.49, C:0.06, G:0.05, T:0.41
Consensus pattern (44 bp):
AAAATTTTGATAATCACACATTTAAAAATAACTATAATTTAATA
Found at i:112357855 original size:275 final size:275
Alignment explanation
Indices: 112357356--112358172 Score: 1510
Period size: 275 Copynumber: 3.0 Consensus size: 275
112357346 TGGATATAGT
112357356 AAATGAAGTGCAACTTTCCATTGGCGTGAGCATGTGACTTCAATTATACTAACTATACGATGTGT
1 AAATGAAGTGCAACTTTCCATTGGCGTGAGCATGTGACTTCAATTATACTAACTATACGATGTGT
*
112357421 TAGGGATAAACCCGATTAAACAATGAACAAGTAAAATAACAAAGAAATTAAAAAAATCGAACACA
66 TGGGGATAAACCCGATTAAACAATGAACAAGTAAAATAACAAAGAAATTAAAAAAATCGAACACA
*
112357486 AATATTTTACGTGGAAAAACCCTTCCGAAGAGGATAAAAAACCATGAGTAAAGATAATTTCACTA
131 AATATTTTACGTGGAAAAACCCCTCCGAAGAGGATAAAAAACCATGAGTAAAGATAATTTCACTA
** *
112357551 TAACCACAAAAAGGAAGAGTATAAAGATGGAGATAAAACTAAACCCCAAAACTCAAAATAAGAAC
196 TAACCACAAAAAGGAAGAGTACGAAGATGGAGATAAAACTAAACCCCGAAACTCAAAATAAGAAC
*
112357616 CCTCAAAACGTGAGC
261 CCTCAAAACATGAGC
* *
112357631 AAATGAAATGCAACTTTCCATTGGCATGAGCATGTGACTTCAATTATACTAACTATACGATGTGT
1 AAATGAAGTGCAACTTTCCATTGGCGTGAGCATGTGACTTCAATTATACTAACTATACGATGTGT
*
112357696 TGGGGATAAACCCGATTAAACAATGAACAAGTAAAATAACAAAGAAATTAAAAAAATCTAACACA
66 TGGGGATAAACCCGATTAAACAATGAACAAGTAAAATAACAAAGAAATTAAAAAAATCGAACACA
112357761 AATATTTTACGTGGAAAAACCCCTCCGAAGAGGATAAAAAACCATGAGTAAAGATAATTTCACTA
131 AATATTTTACGTGGAAAAACCCCTCCGAAGAGGATAAAAAACCATGAGTAAAGATAATTTCACTA
112357826 TAACCACAAAAAGGAAGAGTACGAAGATGGAGATAAAACTAAACCCCGAAACTCAAAATAAGAAC
196 TAACCACAAAAAGGAAGAGTACGAAGATGGAGATAAAACTAAACCCCGAAACTCAAAATAAGAAC
112357891 CCTCAAAACATGAGC
261 CCTCAAAACATGAGC
112357906 AAATGAAGTGCAACTTTCCATTGGCGTGAGCATGTGACTTCAATTATACTAACTA-ACGATGTGT
1 AAATGAAGTGCAACTTTCCATTGGCGTGAGCATGTGACTTCAATTATACTAACTATACGATGTGT
* * *
112357970 TGGCGATTAACCCGATTAAACAATGAACAAGTAAAATAACAAAGAAATTAAAAAAATCGAACCCA
66 TGGGGATAAACCCGATTAAACAATGAACAAGTAAAATAACAAAGAAATTAAAAAAATCGAACACA
112358035 AATATTTTACGTGGAAAAACCCCTCCGAAGAGGATAAAAAACCATGAGTAAAGATAATTTCACTA
131 AATATTTTACGTGGAAAAACCCCTCCGAAGAGGATAAAAAACCATGAGTAAAGATAATTTCACTA
*
112358100 TAACCACAAAAAGGAAGAGTACGAAGATGGAGATAAAACTAAACCCCGAAACTCAAAATAAAAAC
196 TAACCACAAAAAGGAAGAGTACGAAGATGGAGATAAAACTAAACCCCGAAACTCAAAATAAGAAC
112358165 CCTCAAAA
261 CCTCAAAA
112358173 TGTAAACACA
Statistics
Matches: 526, Mismatches: 16, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
274 207 0.39
275 319 0.61
ACGTcount: A:0.47, C:0.17, G:0.15, T:0.20
Consensus pattern (275 bp):
AAATGAAGTGCAACTTTCCATTGGCGTGAGCATGTGACTTCAATTATACTAACTATACGATGTGT
TGGGGATAAACCCGATTAAACAATGAACAAGTAAAATAACAAAGAAATTAAAAAAATCGAACACA
AATATTTTACGTGGAAAAACCCCTCCGAAGAGGATAAAAAACCATGAGTAAAGATAATTTCACTA
TAACCACAAAAAGGAAGAGTACGAAGATGGAGATAAAACTAAACCCCGAAACTCAAAATAAGAAC
CCTCAAAACATGAGC
Found at i:112368511 original size:21 final size:21
Alignment explanation
Indices: 112368487--112368550 Score: 51
Period size: 21 Copynumber: 3.1 Consensus size: 21
112368477 TTTCAGTGAT
112368487 TAATTTAAATTAATTAAGAGA
1 TAATTTAAATTAATTAAGAGA
* * ** *
112368508 TAATATAAACTATATTATCA-C
1 TAATTTAAATTA-ATTAAGAGA
*
112368529 TAA-TTAAATTAATTAAGTGA
1 TAATTTAAATTAATTAAGAGA
112368549 TA
1 TA
112368551 TTAATAAAAA
Statistics
Matches: 30, Mismatches: 11, Indels: 5
0.65 0.24 0.11
Matches are distributed among these distances:
19 4 0.13
20 8 0.27
21 13 0.43
22 5 0.17
ACGTcount: A:0.50, C:0.05, G:0.06, T:0.39
Consensus pattern (21 bp):
TAATTTAAATTAATTAAGAGA
Found at i:112370372 original size:44 final size:44
Alignment explanation
Indices: 112370334--112370500 Score: 271
Period size: 44 Copynumber: 3.8 Consensus size: 44
112370324 AGTTTCTTAC
* *
112370334 TTAAACTTTGATTAGTATAGGTTATTTTAGTATTAGTTTCCCAT
1 TTAAACTCTGATTAGTATAGGTTATTTTAATATTAGTTTCCCAT
* *
112370378 TTAAAATTTGATTAGTATAGGTTATTTTAATATTAGTTTCCCAT
1 TTAAACTCTGATTAGTATAGGTTATTTTAATATTAGTTTCCCAT
* *
112370422 TTAAACTCTGATTAGTAGAGGTTCTTTTAATATTAGTTTCCCAT
1 TTAAACTCTGATTAGTATAGGTTATTTTAATATTAGTTTCCCAT
*
112370466 TTAAACTCTGATTAATATAGGTTATTTTAATATTA
1 TTAAACTCTGATTAGTATAGGTTATTTTAATATTA
112370501 TTTTATCTGC
Statistics
Matches: 114, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 114 1.00
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.49
Consensus pattern (44 bp):
TTAAACTCTGATTAGTATAGGTTATTTTAATATTAGTTTCCCAT
Found at i:112374257 original size:52 final size:52
Alignment explanation
Indices: 112374175--112374279 Score: 183
Period size: 52 Copynumber: 2.0 Consensus size: 52
112374165 GATATGTATA
112374175 TGGCATCCGAGCTCGTTGAGTTGGTCCGAGTTCATAATGGATACGATACATG
1 TGGCATCCGAGCTCGTTGAGTTGGTCCGAGTTCATAATGGATACGATACATG
* * *
112374227 TGGCATCCGAGCTCGTTGAGTTGGTTCGAGTTCATAATGGGTGCGATACATG
1 TGGCATCCGAGCTCGTTGAGTTGGTCCGAGTTCATAATGGATACGATACATG
112374279 T
1 T
112374280 AATTGGGTTC
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.30
Consensus pattern (52 bp):
TGGCATCCGAGCTCGTTGAGTTGGTCCGAGTTCATAATGGATACGATACATG
Found at i:112374611 original size:19 final size:19
Alignment explanation
Indices: 112374587--112374628 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
112374577 TATGATATAC
112374587 TACGATGAGTACAGGTATG
1 TACGATGAGTACAGGTATG
112374606 TACGATGAGTACAGGTATG
1 TACGATGAGTACAGGTATG
112374625 TACG
1 TACG
112374629 CTAAACCCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.31, C:0.12, G:0.31, T:0.26
Consensus pattern (19 bp):
TACGATGAGTACAGGTATG
Found at i:112390436 original size:12 final size:12
Alignment explanation
Indices: 112390419--112390445 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
112390409 GACGAATTTC
112390419 ATTTTAATTTTT
1 ATTTTAATTTTT
112390431 ATTTTAATTTTT
1 ATTTTAATTTTT
112390443 ATT
1 ATT
112390446 AATATTCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (12 bp):
ATTTTAATTTTT
Found at i:112391777 original size:24 final size:24
Alignment explanation
Indices: 112391745--112391792 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
112391735 ATTTCACAGT
*
112391745 TTATCACGATCTGCTTTGACGTGA
1 TTATAACGATCTGCTTTGACGTGA
112391769 TTATAACGATCTGCTTTGACGTGA
1 TTATAACGATCTGCTTTGACGTGA
112391793 CCTAACTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.38
Consensus pattern (24 bp):
TTATAACGATCTGCTTTGACGTGA
Found at i:112395633 original size:48 final size:47
Alignment explanation
Indices: 112395414--112395653 Score: 166
Period size: 47 Copynumber: 4.9 Consensus size: 47
112395404 CCATGGCAAC
* * * *
112395414 ATGTGATATGTGATTTGCGTATAAGACCATAGCTAGGCTATGGCATCGGAGA
1 ATGTGATATGTGATCT--GTATAAGACCATAGTTGGGCTATGGCAT---TGA
* * * *
112395466 GATGTGATTATGTGCTTCCGTATAAGACCATA-TCTGGGATATGGCATCG-
1 -ATGTGA-TATGTG-ATCTGTATAAGACCATAGT-TGGGCTATGGCATTGA
* * * * *
112395515 GTGTGATATATGCTACTGTATAAGACCATA-TCTGGGATATGGCA-TCA
1 ATGTGATATGTGAT-CTGTATAAGACCATAGT-TGGGCTATGGCATTGA
* *
112395562 ATGAGATATGTGAT-TCGTGTAAGACCATAGTTGGGCTATGGCATTGA
1 ATGTGATATGTGATCT-GTATAAGACCATAGTTGGGCTATGGCATTGA
* * *
112395609 TATGTGATATGTGATCTGTGTAAGACTATAGCTGGGCTATGGCAT
1 -ATGTGATATGTGATCTGTATAAGACCATAGTTGGGCTATGGCAT
112395654 CATTATATGA
Statistics
Matches: 154, Mismatches: 23, Indels: 25
0.76 0.11 0.12
Matches are distributed among these distances:
45 1 0.01
46 24 0.16
47 46 0.30
48 44 0.29
49 1 0.01
50 1 0.01
53 30 0.19
54 6 0.04
55 1 0.01
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.32
Consensus pattern (47 bp):
ATGTGATATGTGATCTGTATAAGACCATAGTTGGGCTATGGCATTGA
Found at i:112397198 original size:42 final size:42
Alignment explanation
Indices: 112397135--112397261 Score: 161
Period size: 42 Copynumber: 3.0 Consensus size: 42
112397125 CTTCGTTTTC
** * *
112397135 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
*
112397178 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
*
112397219 TCGATGCCATAGCCTAGCTATGGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC-ATATTCACATA
112397260 TC
1 TC
112397262 TCACTGATGC
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
41 10 0.13
42 63 0.84
43 2 0.03
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:112397321 original size:47 final size:47
Alignment explanation
Indices: 112397220--112397343 Score: 160
Period size: 47 Copynumber: 2.7 Consensus size: 47
112397210 ATTCATATAT
* * * * * *
112397220 CGATGCCATAGCCTAGCTATGGTCTTACAC-GAATCACATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTATACAGAAGCACATATCACAC
* * *
112397266 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTATACAGAAGCACATATCACAC
112397313 CGATGCCATATCCCAGATATGGTCTTATACA
1 CGATGCCATATCCCAGATATGGTCTTATACA
112397344 AAAATCACTT
Statistics
Matches: 67, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
46 25 0.37
47 42 0.63
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (47 bp):
CGATGCCATATCCCAGATATGGTCTTATACAGAAGCACATATCACAC
Found at i:112397403 original size:31 final size:31
Alignment explanation
Indices: 112397368--112397516 Score: 194
Period size: 31 Copynumber: 4.8 Consensus size: 31
112397358 CTTGTCACTT
*
112397368 GTAGCCCAAGCTACCACTATTCACTGATCAG
1 GTAGCCCAAGCTACCACTTTTCACTGATCAG
*
112397399 GTAG-CCAGAGCTACCATTTTTCACTGATCAG
1 GTAGCCCA-AGCTACCACTTTTCACTGATCAG
*
112397430 GTAGCCGTAA-CTACCACTTTTCACTGATCAG
1 GTAGCC-CAAGCTACCACTTTTCACTGATCAG
** *
112397461 GTAGCAGAAGCTACCACTTTTCACTGATTAG
1 GTAGCCCAAGCTACCACTTTTCACTGATCAG
**
112397492 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCCAAGCTACCACTTTTCACT
112397517 TGTCATTTGT
Statistics
Matches: 106, Mismatches: 8, Indels: 8
0.87 0.07 0.07
Matches are distributed among these distances:
30 5 0.05
31 98 0.92
32 2 0.02
33 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (31 bp):
GTAGCCCAAGCTACCACTTTTCACTGATCAG
Found at i:112397465 original size:62 final size:62
Alignment explanation
Indices: 112397368--112397516 Score: 221
Period size: 62 Copynumber: 2.4 Consensus size: 62
112397358 CTTGTCACTT
* * *
112397368 GTAGCCCAAGCTACCACTATTCACTGATCAGGTAGCCAG-AGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAGGTAG-CAGAAGCTACCACTTTTCACTGATCAG
*
112397430 GTAGCCGTAA-CTACCACTTTTCACTGATCAGGTAGCAGAAGCTACCACTTTTCACTGATTAG
1 GTAGCCG-AAGCTACCACTTTTCACTGATCAGGTAGCAGAAGCTACCACTTTTCACTGATCAG
*
112397492 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
112397517 TGTCATTTGT
Statistics
Matches: 79, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
61 5 0.06
62 72 0.91
63 2 0.03
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (62 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAGGTAGCAGAAGCTACCACTTTTCACTGATCAG
Found at i:112397599 original size:50 final size:51
Alignment explanation
Indices: 112397498--112397620 Score: 178
Period size: 50 Copynumber: 2.4 Consensus size: 51
112397488 TTAGGTAGCT
* * * *
112397498 GAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGTGTAGCC
1 GAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAAATAAGTGCAGCC
*
112397549 GAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAAATAAGTGCAGCC
1 GAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAAATAAGTGCAGCC
112397599 GAAGCTATCACTTATCACTTGT
1 GAAGCTATCACTTATCACTTGT
112397621 TGCCATAGTC
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
50 43 0.66
51 22 0.34
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.35
Consensus pattern (51 bp):
GAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAAATAAGTGCAGCC
Found at i:112408744 original size:30 final size:31
Alignment explanation
Indices: 112408708--112408791 Score: 88
Period size: 30 Copynumber: 2.8 Consensus size: 31
112408698 CAATCTCAAT
*
112408708 TAGTTGGGTGACCAAATTAAAAAAAAATGG-
1 TAGTTGGGTGACCAAATTAAAAAAAAAGGGA
*
112408738 TAGTT-GGTGACCAAA--AAATAAAAAGGGCAA
1 TAGTTGGGTGACCAAATTAAAAAAAAAGGG--A
*
112408768 TAGTTGGG-GACTAAATTAAAAAAA
1 TAGTTGGGTGACCAAATTAAAAAAA
112408792 TTGATAGTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
27 10 0.23
29 10 0.23
30 16 0.36
31 2 0.05
32 6 0.14
ACGTcount: A:0.49, C:0.07, G:0.23, T:0.21
Consensus pattern (31 bp):
TAGTTGGGTGACCAAATTAAAAAAAAAGGGA
Found at i:112408810 original size:59 final size:60
Alignment explanation
Indices: 112408708--112408839 Score: 162
Period size: 59 Copynumber: 2.2 Consensus size: 60
112408698 CAATCTCAAT
* * *
112408708 TAGTTGGGTGACCAAATTAAAAAAAAATGGTAGTTGGTGACCAAAAAATAAAA-AGGGCAA
1 TAGTTGGGTGACCAAATTAAAAAAAAATGATAGTTGATGACCAAAAAAGAAAATA-GGCAA
* * *
112408768 TAGTTGGG-GACTAAATT-AAAAAAATTGATAGTTGTATGACCAACAAAGAAAATAGGCAA
1 TAGTTGGGTGACCAAATTAAAAAAAAATGATAGTTG-ATGACCAAAAAAGAAAATAGGCAA
*
112408827 TAGTTGAGTGACC
1 TAGTTGGGTGACC
112408840 TATTGTATAG
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
58 15 0.25
59 34 0.56
60 12 0.20
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (60 bp):
TAGTTGGGTGACCAAATTAAAAAAAAATGATAGTTGATGACCAAAAAAGAAAATAGGCAA
Found at i:112413772 original size:30 final size:31
Alignment explanation
Indices: 112413728--112413817 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 31
112413718 TTAATGATAC
* * *
112413728 ATAAAATATTTTTAAA-ACTTAAATATAATA
1 ATAAATTATATTTAAATAATTAAATATAATA
* *
112413758 ATAAATTATATTTAAATAATTTAATATAATG
1 ATAAATTATATTTAAATAATTAAATATAATA
* * *
112413789 AT-AATGATATTTAAGTAATTTAATATAAT
1 ATAAATTATATTTAAATAATTAAATATAAT
112413818 GATACATAAG
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
30 39 0.75
31 13 0.25
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.43
Consensus pattern (31 bp):
ATAAATTATATTTAAATAATTAAATATAATA
Found at i:112413792 original size:16 final size:16
Alignment explanation
Indices: 112413773--112413821 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
112413763 TTATATTTAA
112413773 ATAATTTAATATAATG
1 ATAATTTAATATAATG
* *
112413789 ATAA-TGATATTTAA-G
1 ATAATTTA-ATATAATG
112413804 -TAATTTAATATAATG
1 ATAATTTAATATAATG
112413819 ATA
1 ATA
112413822 CATAAGATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 8
0.68 0.11 0.22
Matches are distributed among these distances:
14 8 0.32
15 6 0.24
16 11 0.44
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (16 bp):
ATAATTTAATATAATG
Found at i:112413818 original size:30 final size:30
Alignment explanation
Indices: 112413749--112413821 Score: 110
Period size: 30 Copynumber: 2.4 Consensus size: 30
112413739 TTAAAACTTA
* *
112413749 AATATAATAATAAATTATATTTAAATAATTT
1 AATATAATGAT-AATGATATTTAAATAATTT
*
112413780 AATATAATGATAATGATATTTAAGTAATTT
1 AATATAATGATAATGATATTTAAATAATTT
112413810 AATATAATGATA
1 AATATAATGATA
112413822 CATAAGATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 29 0.74
31 10 0.26
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.42
Consensus pattern (30 bp):
AATATAATGATAATGATATTTAAATAATTT
Found at i:112413827 original size:24 final size:25
Alignment explanation
Indices: 112413779--112413834 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 25
112413769 TTAAATAATT
**
112413779 TAATATAATGATAATGATATTTAAG
1 TAATATAATGATAATGATACATAAG
*
112413804 TAATTTAAT-ATAATGATACATAAG
1 TAATATAATGATAATGATACATAAG
112413828 --ATATAAT
1 TAATATAAT
112413835 TTAATTTAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 6 0.22
24 13 0.48
25 8 0.30
ACGTcount: A:0.50, C:0.02, G:0.09, T:0.39
Consensus pattern (25 bp):
TAATATAATGATAATGATACATAAG
Found at i:112419654 original size:43 final size:43
Alignment explanation
Indices: 112419528--112419689 Score: 172
Period size: 43 Copynumber: 3.8 Consensus size: 43
112419518 CGATATATAT
* * *
112419528 TTTCGTGTAAGACTACGTTTGGGACATTGGCATCGACT-TTTGA
1 TTTCGTGTAAGACCACGTCTGGGACAGTGGCATCGA-TATTTGA
* *
112419571 TTTATGTGTAAGACCACGTCTGGGA-TGTTGGCATCG-TATTTGA
1 TTT-CGTGTAAGACCACGTCTGGGACAG-TGGCATCGATATTTGA
*
112419614 TTTCGTGTAAGACC-CTGTCTGGGACAGTGACATCGATATTTGA
1 TTTCGTGTAAGACCAC-GTCTGGGACAGTGGCATCGATATTTGA
* *
112419657 TTACATGTAAGACCACGTCTGGGAC-GTTGGCAT
1 TTTCGTGTAAGACCACGTCTGGGACAG-TGGCAT
112419690 TGTATGAGCT
Statistics
Matches: 100, Mismatches: 11, Indels: 16
0.79 0.09 0.13
Matches are distributed among these distances:
41 1 0.01
42 27 0.27
43 45 0.45
44 27 0.27
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (43 bp):
TTTCGTGTAAGACCACGTCTGGGACAGTGGCATCGATATTTGA
Found at i:112422554 original size:94 final size:92
Alignment explanation
Indices: 112422434--112422604 Score: 229
Period size: 94 Copynumber: 1.8 Consensus size: 92
112422424 TTTCATGGCC
** *
112422434 GATGCATGTCCTAGACATGTCTTACACTGGCT-TACATCTTGAGGCCGATGCATGTCCCATACAT
1 GATGCATGTCCTAGACATGTCTTACACTGGCTCT-CATAATGAGGCCGATGCATGTCCCAGACAT
112422498 ATCTTACACTAGCGCTCGTCTCAATGTT
65 ATCTTACACTAGCGCTCGTCTCAATGTT
* * *
112422526 GATGCTATGTTCC-AGACATGGTCTTACACTGGCTCTTATAATGTGGCTGATGCATGTCCCAGAC
1 GATGC-ATG-TCCTAGACAT-GTCTTACACTGGCTCTCATAATGAGGCCGATGCATGTCCCAGAC
*
112422590 ATGTCTTACACTAGC
63 ATATCTTACACTAGC
112422605 CCACAATAAC
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
92 5 0.07
93 9 0.13
94 53 0.78
95 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.32
Consensus pattern (92 bp):
GATGCATGTCCTAGACATGTCTTACACTGGCTCTCATAATGAGGCCGATGCATGTCCCAGACATA
TCTTACACTAGCGCTCGTCTCAATGTT
Found at i:112422555 original size:48 final size:46
Alignment explanation
Indices: 112422480--112422604 Score: 139
Period size: 47 Copynumber: 2.7 Consensus size: 46
112422470 TCTTGAGGCC
* * *
112422480 GATGCATGTCCCATACATATCTTACACTAGCGCTCGTCTCAATGT-T
1 GATGCATGTCCCAGACATGTCTTACACTAGCGCTCGTAT-AATGTGT
* *
112422526 GATGCTATGTTCCAGACATGGTCTTACACT-G-GCTCTTATAATGTGGCT
1 GATGC-ATGTCCCAGACAT-GTCTTACACTAGCGCTCGTATAATGT-G-T
112422574 GATGCATGTCCCAGACATGTCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
112422605 CCACAATAAC
Statistics
Matches: 66, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
45 5 0.08
46 21 0.32
47 25 0.38
48 15 0.23
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCGCTCGTATAATGTGT
Found at i:112423675 original size:55 final size:53
Alignment explanation
Indices: 112423567--112423813 Score: 229
Period size: 55 Copynumber: 4.7 Consensus size: 53
112423557 ATTAGGGTTT
* * *
112423567 AAGGATACCATGTAAGACCATGCCAAGGCATGACAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGATAA-G-TTCATAAGGC
* * *
112423622 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT--CATAAGGC
* * * * *
112423677 AAAGG-TCCCATGTAAGAACATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCATAAGGC
* * *
112423730 AAGGATACCATGTAAGACCATGTCAAGACATGGAAATGATAAGTT--TCAA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCAT-AAGGC
* * *
112423779 AAGGATACCACGTAAGACCATGACAAGTCATGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCA
112423814 ATAGTAAGGT
Statistics
Matches: 160, Mismatches: 26, Indels: 18
0.78 0.13 0.09
Matches are distributed among these distances:
49 31 0.19
51 1 0.01
52 8 0.05
53 41 0.26
54 8 0.05
55 67 0.42
56 4 0.03
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCATAAGGC
Found at i:112423770 original size:108 final size:110
Alignment explanation
Indices: 112423574--112423774 Score: 309
Period size: 108 Copynumber: 1.8 Consensus size: 110
112423564 TTTAAGGATA
* *
112423574 CCATGTAAGACCATGCCAAGGCATGACAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGAACATGCCAAGGCATGACAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
* *
112423639 CCATGTCAAGACATGGCATTGATAAGTTACCATAAGGCAAAGGTC
66 CCATGTCAAGACATGGAAATGATAAGTTACCATAAGGCAAAGGTC
* * *
112423684 CCATGTAAGAACATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGAACATGCCAAGGCATGACAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
112423746 ACCATGTCAAGACATGGAAATGATAAGTT
65 ACCATGTCAAGACATGGAAATGATAAGTT
112423775 TCAAAAGGAT
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.58
109 7 0.08
110 25 0.30
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.22
Consensus pattern (110 bp):
CCATGTAAGAACATGCCAAGGCATGACAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGAAATGATAAGTTACCATAAGGCAAAGGTC
Found at i:112429694 original size:20 final size:20
Alignment explanation
Indices: 112429658--112429696 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
112429648 GAATACAATA
*
112429658 AAAATCATGAAACTGTAAAT
1 AAAATCACGAAACTGTAAAT
112429678 AAAATCACGATAA-TGTAAA
1 AAAATCACGA-AACTGTAAA
112429697 CTGAAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.56, C:0.10, G:0.10, T:0.23
Consensus pattern (20 bp):
AAAATCACGAAACTGTAAAT
Found at i:112431247 original size:14 final size:14
Alignment explanation
Indices: 112431228--112431256 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
112431218 ACAAAGGTGC
112431228 ACTTAGCATTTCAT
1 ACTTAGCATTTCAT
112431242 ACTTAGCATTTCAT
1 ACTTAGCATTTCAT
112431256 A
1 A
112431257 TGTCAGAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.41
Consensus pattern (14 bp):
ACTTAGCATTTCAT
Found at i:112433499 original size:1 final size:1
Alignment explanation
Indices: 112433493--112433517 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
112433483 AAACTTAACC
112433493 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
112433518 CTATCCTAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:112437532 original size:29 final size:29
Alignment explanation
Indices: 112437490--112437547 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
112437480 TCTTATCAGC
112437490 ACACCTATGGACCTTTTGGAAGATAATCT
1 ACACCTATGGACCTTTTGGAAGATAATCT
112437519 ACACCTATGGACCTTTTGGAAGATAATCT
1 ACACCTATGGACCTTTTGGAAGATAATCT
112437548 TTCCTACATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (29 bp):
ACACCTATGGACCTTTTGGAAGATAATCT
Found at i:112450175 original size:38 final size:38
Alignment explanation
Indices: 112450124--112450272 Score: 280
Period size: 38 Copynumber: 3.9 Consensus size: 38
112450114 AGGGACATTG
112450124 TTTGAACCCGTTCTCCTTGAAATATGTATCAATACTTA
1 TTTGAACCCGTTCTCCTTGAAATATGTATCAATACTTA
*
112450162 TTTGAACTCGTTCTCCTTGAAATATGTATCAATACTTA
1 TTTGAACCCGTTCTCCTTGAAATATGTATCAATACTTA
*
112450200 TTTGAACCCGTTCTCCTTGAAATATGTGTCAATACTTA
1 TTTGAACCCGTTCTCCTTGAAATATGTATCAATACTTA
112450238 TTTGAACCCGTTCTCCTTGAAATATGTATCAATAC
1 TTTGAACCCGTTCTCCTTGAAATATGTATCAATAC
112450273 GAGTATTCCA
Statistics
Matches: 107, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 107 1.00
ACGTcount: A:0.28, C:0.21, G:0.11, T:0.40
Consensus pattern (38 bp):
TTTGAACCCGTTCTCCTTGAAATATGTATCAATACTTA
Found at i:112453082 original size:20 final size:20
Alignment explanation
Indices: 112453052--112453089 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
112453042 ATCAAAGTAA
112453052 TTTTCAAAATTTGAAAATAAC
1 TTTTCAAAATTT-AAAATAAC
112453073 TTTT-AAAATTTAAAATA
1 TTTTCAAAATTTAAAATA
112453090 TTTATAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 7 0.41
21 4 0.24
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (20 bp):
TTTTCAAAATTTAAAATAAC
Found at i:112453154 original size:20 final size:19
Alignment explanation
Indices: 112453116--112453177 Score: 61
Period size: 20 Copynumber: 3.2 Consensus size: 19
112453106 AATTTATATT
* *
112453116 TTTTAAAAAGATTATAAAA
1 TTTTAAAAAAATTAAAAAA
112453135 TTTTAAAAAAATCTAAAAAA
1 TTTTAAAAAAAT-TAAAAAA
* * *
112453155 ATATATCAAAAATTAAAAAA
1 TTTTA-AAAAAATTAAAAAA
112453175 TTT
1 TTT
112453178 AATAAAATAA
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
19 11 0.32
20 17 0.50
21 6 0.18
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (19 bp):
TTTTAAAAAAATTAAAAAA
Found at i:112453184 original size:19 final size:18
Alignment explanation
Indices: 112453117--112453185 Score: 57
Period size: 19 Copynumber: 3.6 Consensus size: 18
112453107 ATTTATATTT
* *
112453117 TTTAAAAAGATTATAAAAT
1 TTTAAAAAAATTA-AAAAA
112453136 TTTAAAAAAATCTAAAAAAA
1 TTTAAAAAAAT-T-AAAAAA
* *
112453156 TATATCAAAAATTAAAAAA
1 TTTA-AAAAAATTAAAAAA
*
112453175 TTTAATAAAAT
1 TTTAAAAAAAT
112453186 AATAATTTTA
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
18 5 0.12
19 19 0.47
20 9 0.22
21 7 0.17
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (18 bp):
TTTAAAAAAATTAAAAAA
Found at i:112456972 original size:228 final size:228
Alignment explanation
Indices: 112456575--112457031 Score: 905
Period size: 228 Copynumber: 2.0 Consensus size: 228
112456565 TCTAGAAAAA
112456575 CTTACCAACGAGCTTGTTTGGGAGACAACTTTTTCTGGGTTAGAAAATAACTGTTGGCAATGTTA
1 CTTACCAACGAGCTTGTTTGGGAGACAACTTTTTCTGGGTTAGAAAATAACTGTTGGCAATGTTA
112456640 TCGGTAAGGACCACGAATCTAGAAGCCAGTAAATAATGCCTCCATGTGTGCAAGCAATGCACCAC
66 TCGGTAAGGACCACGAATCTAGAAGCCAGTAAATAATGCCTCCATGTGTGCAAGCAATGCACCAC
112456705 AGTGGTCATTTCCTTTTCTTGAACTGTATATCTCCACTCCATCTCATTAAGCTTCCGACTTTCGA
131 AGTGGTCATTTCCTTTTCTTGAACTGTATATCTCCACTCCATCTCATTAAGCTTCCGACTTTCGA
112456770 AAGCATTTGGATGGCCCTCTTGCATCAGTACTC
196 AAGCATTTGGATGGCCCTCTTGCATCAGTACTC
112456803 CTTACCAACGAGCTTGTTTGGGAGACAACTTTTTCTGGGTTAGAAAATAACTGTTGGCAATGTTA
1 CTTACCAACGAGCTTGTTTGGGAGACAACTTTTTCTGGGTTAGAAAATAACTGTTGGCAATGTTA
112456868 TCGGTAAGGACCACGAATCTAGAAGCCAGTAAATAATGCCTCCATGTGTGCAAGCAATGCACCAC
66 TCGGTAAGGACCACGAATCTAGAAGCCAGTAAATAATGCCTCCATGTGTGCAAGCAATGCACCAC
*
112456933 AGTGGTCATTTCCTTTTCTTGAACTGTATATCTCCACTCCATCTCATTAAGCTTCTGACTTTCGA
131 AGTGGTCATTTCCTTTTCTTGAACTGTATATCTCCACTCCATCTCATTAAGCTTCCGACTTTCGA
112456998 AAGCATTTGGATGGCCCTCTTGCATCAGTACTC
196 AAGCATTTGGATGGCCCTCTTGCATCAGTACTC
112457031 C
1 C
112457032 CCAATGACAT
Statistics
Matches: 228, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
228 228 1.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (228 bp):
CTTACCAACGAGCTTGTTTGGGAGACAACTTTTTCTGGGTTAGAAAATAACTGTTGGCAATGTTA
TCGGTAAGGACCACGAATCTAGAAGCCAGTAAATAATGCCTCCATGTGTGCAAGCAATGCACCAC
AGTGGTCATTTCCTTTTCTTGAACTGTATATCTCCACTCCATCTCATTAAGCTTCCGACTTTCGA
AAGCATTTGGATGGCCCTCTTGCATCAGTACTC
Found at i:112460149 original size:22 final size:24
Alignment explanation
Indices: 112460124--112460167 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
112460114 CTAACTAGAT
112460124 ATCAAATC-TCT-AAGATTACAGA
1 ATCAAATCTTCTAAAGATTACAGA
*
112460146 ATCATATCTTCTAAAGATTACA
1 ATCAAATCTTCTAAAGATTACA
112460168 TTAAAGTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 3 0.16
24 9 0.47
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.32
Consensus pattern (24 bp):
ATCAAATCTTCTAAAGATTACAGA
Found at i:112460223 original size:35 final size:35
Alignment explanation
Indices: 112460184--112460254 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
112460174 TCTAGGATCA
* *
112460184 CATATCTTTGAAGATCCCCTTCCATATTTTCCAAG
1 CATATCTTTGAAGATCACCTTCCATATTTGCCAAG
* *
112460219 CATATCTTTGAAGATTACTTTCCATATTTGCCAAG
1 CATATCTTTGAAGATCACCTTCCATATTTGCCAAG
112460254 C
1 C
112460255 TCTGAAAATG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.27, C:0.25, G:0.10, T:0.38
Consensus pattern (35 bp):
CATATCTTTGAAGATCACCTTCCATATTTGCCAAG
Found at i:112461645 original size:9 final size:9
Alignment explanation
Indices: 112461578--112461683 Score: 58
Period size: 10 Copynumber: 11.3 Consensus size: 9
112461568 TTTTATATTT
112461578 AAAATTATTA
1 AAAATTA-TA
*
112461588 AAAA-AATA
1 AAAATTATA
112461596 TAAAATTATA
1 -AAAATTATA
*
112461606 GAAAATCATA
1 -AAAATTATA
*
112461616 AAAATCAT-
1 AAAATTATA
112461624 AAAATTAT-
1 AAAATTATA
* *
112461632 -TAATTTTA
1 AAAATTATA
112461640 AAAATTATAA
1 AAAATTAT-A
112461650 AAAATTAAAGTA
1 AAAATT--A-TA
*
112461662 AAAAATATA
1 AAAATTATA
112461671 AAAATATATA
1 AAAAT-TATA
112461681 AAA
1 AAA
112461684 TATAAAGAAA
Statistics
Matches: 76, Mismatches: 11, Indels: 18
0.72 0.10 0.17
Matches are distributed among these distances:
7 5 0.07
8 9 0.12
9 24 0.32
10 30 0.39
12 7 0.09
13 1 0.01
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (9 bp):
AAAATTATA
Found at i:112461787 original size:20 final size:20
Alignment explanation
Indices: 112461734--112461788 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 20
112461724 AATATTTTTT
112461734 AAAAAT-TTTATATAAATTATG
1 AAAAATGTTTA-A-AAATTATG
*
112461755 AAAAA-GTGGTAAAAATTATG
1 AAAAATGT-TTAAAAATTATG
112461775 AAAAATGTTTAAAA
1 AAAAATGTTTAAAA
112461789 TATTTTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
20 18 0.62
21 9 0.31
22 2 0.07
ACGTcount: A:0.56, C:0.00, G:0.11, T:0.33
Consensus pattern (20 bp):
AAAAATGTTTAAAAATTATG
Found at i:112461892 original size:22 final size:22
Alignment explanation
Indices: 112461866--112461939 Score: 78
Period size: 25 Copynumber: 3.2 Consensus size: 22
112461856 CAAGTTATTC
*
112461866 AAAAAATATAAAATTACAAAAAT
1 AAAATATATAAAATTAC-AAAAT
*
112461889 AAAAATGATATAAAATTACAATAT
1 -AAAAT-ATATAAAATTACAAAAT
*
112461913 AAATATAAATAAAA-TACAAAAT
1 AAA-ATATATAAAATTACAAAAT
112461935 AAAAT
1 AAAAT
112461940 GCAAATATGT
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
21 2 0.05
22 10 0.23
23 10 0.23
24 10 0.23
25 12 0.27
ACGTcount: A:0.70, C:0.04, G:0.01, T:0.24
Consensus pattern (22 bp):
AAAATATATAAAATTACAAAAT
Found at i:112461905 original size:25 final size:23
Alignment explanation
Indices: 112461866--112461938 Score: 87
Period size: 23 Copynumber: 3.2 Consensus size: 23
112461856 CAAGTTATTC
112461866 AAAAA-ATATAAAATTACAAAAAT
1 AAAAATATATAAAATTAC-AAAAT
*
112461889 AAAAATGATATAAAATTACAATAT
1 AAAAAT-ATATAAAATTACAAAAT
* *
112461913 AAATATAAATAAAA-TACAAAAT
1 AAAAATATATAAAATTACAAAAT
112461935 AAAA
1 AAAA
112461939 TGCAAATATG
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
22 10 0.23
23 12 0.28
24 9 0.21
25 12 0.28
ACGTcount: A:0.71, C:0.04, G:0.01, T:0.23
Consensus pattern (23 bp):
AAAAATATATAAAATTACAAAAT
Found at i:112461945 original size:23 final size:23
Alignment explanation
Indices: 112461873--112461946 Score: 80
Period size: 23 Copynumber: 3.1 Consensus size: 23
112461863 TTCAAAAAAT
*
112461873 ATAAAATTACAAAAATAAAAATGAT
1 ATAAAATTAC-AAAAT-AAAATGAA
*
112461898 ATAAAATTACAATATAAATAT-AA
1 ATAAAATTACAAAATAAA-ATGAA
112461921 ATAAAA-TACAAAATAAAATGCAA
1 ATAAAATTACAAAATAAAATG-AA
112461944 ATA
1 ATA
112461947 TGTTTACACT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
21 2 0.05
22 10 0.23
23 15 0.35
24 6 0.14
25 10 0.23
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.24
Consensus pattern (23 bp):
ATAAAATTACAAAATAAAATGAA
Found at i:112463940 original size:20 final size:20
Alignment explanation
Indices: 112463893--112463942 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
112463883 TTAAATTCTA
* *
112463893 AAAGATAAATACAAATAAAT
1 AAAGATAATTAAAAATAAAT
112463913 AAAGATAATTAAAAATAAAT
1 AAAGATAATTAAAAATAAAT
112463933 GAAA-ATAATT
1 -AAAGATAATT
112463943 CCTAAAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 24 0.89
21 3 0.11
ACGTcount: A:0.68, C:0.02, G:0.06, T:0.24
Consensus pattern (20 bp):
AAAGATAATTAAAAATAAAT
Found at i:112465949 original size:6 final size:6
Alignment explanation
Indices: 112465938--112465962 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
112465928 ACGTAACCAT
112465938 TTCAAA TTCAAA TTCAAA TTCAAA T
1 TTCAAA TTCAAA TTCAAA TTCAAA T
112465963 ATATATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (6 bp):
TTCAAA
Done.