Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 241 of 325
Found at i:76221248 original size:89 final size:89
Alignment explanation
Indices: 76221137--76221637 Score: 322
Period size: 89 Copynumber: 5.5 Consensus size: 89
76221127 AGAGGTATAG
* * *
76221137 GACTTGTCACCTT-AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGCTGTCTTCAGTCTG
1 GACTTGT-AGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGCTGTCTTCAGTCTG
* * *
76221201 CTCTGCTGCAACTTTAGGGAGAGAA
65 CTCTACTGCAACTTCAGGGAGATAA
* * * ** *
76221226 GACTTGTGGCTTCAATCTGCTCCACTGCAACTTTAGGAAGATAAGATTTTCCATGAGAGAT-TTG
1 GACTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA--TT--A-G-CTG-TCTTC
* * *
76221290 A-TCCGAC-CTACTGCAACTTCAGAGG-TATAG
59 AGTCTG-CTCTACTGCAACTTCAG-GGAGATAA
* * * * * *
76221320 GACTCGTCGTTTTAATAC-GCTCCACTGCAACTTCAGGGAGATAGGATTAGCTTTCTTCAGTCTG
1 GACTTGTAGCTTCAAT-CTGCTCCACTGCAACTTCAGGGAGATAAGATTAGCTGTCTTCAGTCTG
* *
76221384 CTCTGCTGCAACTTCAAGGAGATAA
65 CTCTACTGCAACTTCAGGGAGATAA
** * * * * * * *
76221409 GACTTGTAATTTCAACCTACTCCATTACAACTTCAGGGAGATAAGGTT---TGTTTTGA-TCTGC
1 GACTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGCTGTCTTCAGTCTGC
*
76221470 TCTACTGCAACTTCAGAGAGATAA
66 TCTACTGCAACTTCAGGGAGATAA
* * * * * * * *
76221494 GATCTGTAATTATAGCTTCAATCTGTTCCACTGCAACTTTAGAGAAATAAGATTCGCTATCTTTA
1 GA-C-----TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGCTGTCTTCA
* *
76221559 GTCTGCTCCACTGCAACTTTAGGGAGATAA
60 GTCTGCTCTACTGCAACTTCAGGGAGATAA
* * * * *
76221589 GA-TTCGCCATCTTTAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGATT
1 GACTT-G-TAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
76221638 TGTGAATTTA
Statistics
Matches: 309, Mismatches: 75, Indels: 55
0.70 0.17 0.13
Matches are distributed among these distances:
85 28 0.09
86 6 0.02
87 1 0.00
88 12 0.04
89 92 0.30
90 34 0.11
91 35 0.11
92 2 0.01
93 1 0.00
94 61 0.20
95 36 0.12
96 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (89 bp):
GACTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGCTGTCTTCAGTCTGC
TCTACTGCAACTTCAGGGAGATAA
Found at i:76221254 original size:44 final size:45
Alignment explanation
Indices: 76221150--76221637 Score: 154
Period size: 45 Copynumber: 10.8 Consensus size: 45
76221140 TTGTCACCTT
* * * *
76221150 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGCTGTCTTC
1 AATCTGCTCCACTGCAACTTTAGGGAGATAAGATTAGCTGGCTTC
* ** *
76221195 AGTCTGCTCTGCTGCAACTTTAGGGAGAGAAGACTT-G-TGGCTTC
1 AATCTGCTCCACTGCAACTTTAGGGAGATAAGA-TTAGCTGGCTTC
* ** * *
76221239 AATCTGCTCCACTGCAACTTTAGGAAGATAAGATTTTCCATGAGAGATTT
1 AATCTGCTCCACTGCAACTTTAGGGAGATAAGA-TTAGC-T--G-GCTTC
* * * * * * * * * * *
76221289 GATCCGAC-CTACTGCAACTTCAGAGG-TATAGGACTCG-TCGTTTT
1 AATCTG-CTCCACTGCAACTTTAG-GGAGATAAGATTAGCTGGCTTC
* * **
76221333 AATAC-GCTCCACTGCAACTTCAGGGAGATAGGATTAGCTTTCTTC
1 AAT-CTGCTCCACTGCAACTTTAGGGAGATAAGATTAGCTGGCTTC
* ** * * ***
76221378 AGTCTGCTCTGCTGCAACTTCAAGGAGATAAGACTT-G-TAATTTC
1 AATCTGCTCCACTGCAACTTTAGGGAGATAAGA-TTAGCTGGCTTC
* * * * * * * *
76221422 AACCTACTCCATTACAACTTCAGGGAGATAAGGTT---T-GTTTT
1 AATCTGCTCCACTGCAACTTTAGGGAGATAAGATTAGCTGGCTTC
* * * * ** *
76221463 GATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTATAGCTTC
1 AATCTGCTCCACTGCAACTTTAGGGAGATAAGA--T-T-A-GCTGGCTTC
* * * * ** *
76221513 AATCTGTTCCACTGCAACTTTAGAGAAATAAGATTCGCTATCTTT
1 AATCTGCTCCACTGCAACTTTAGGGAGATAAGATTAGCTGGCTTC
* * *** *
76221558 AGTCTGCTCCACTGCAACTTTAGGGAGATAAGATTCGCCATCTTT
1 AATCTGCTCCACTGCAACTTTAGGGAGATAAGATTAGCTGGCTTC
* * *
76221603 AGTCTGCTCCGCTGCAACTTCAGGGAGATAAGATT
1 AATCTGCTCCACTGCAACTTTAGGGAGATAAGATT
76221638 TGTGAATTTA
Statistics
Matches: 335, Mismatches: 84, Indels: 48
0.72 0.18 0.10
Matches are distributed among these distances:
41 28 0.08
42 1 0.00
43 6 0.02
44 95 0.28
45 136 0.41
46 4 0.01
47 3 0.01
48 1 0.00
49 3 0.01
50 56 0.17
51 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (45 bp):
AATCTGCTCCACTGCAACTTTAGGGAGATAAGATTAGCTGGCTTC
Found at i:76221453 original size:183 final size:183
Alignment explanation
Indices: 76221112--76221453 Score: 495
Period size: 183 Copynumber: 1.9 Consensus size: 183
76221102 GTTTAATTCC
* * * * *
76221112 ACCTACTGTAGCTTTAGAGGTATAGGACTTGTCACCTTAATCCGCTCCACTGCAACTTCAGGGAG
1 ACCTACTGCAACTTCAGAGGTATAGGACTCGTCACCTTAATACGCTCCACTGCAACTTCAGGGAG
* * ** *
76221177 ATAGGATTAGCTGTCTTCAGTCTGCTCTGCTGCAACTTTAGGGAGAGAAGACTTGTGGCTTCAAT
66 ATAGGATTAGCTGTCTTCAGTCTGCTCTGCTGCAACTTCAAGGAGAGAAGACTTGTAACTTCAAC
* * *
76221242 CTGCTCCACTGCAACTTTAGGAAGATAAGATTTTCCATGAGAGATTTGATCCG
131 CTACTCCACTACAACTTCAGGAAGATAAGATTTTCCATGAGAGATTTGATCCG
***
76221295 ACCTACTGCAACTTCAGAGGTATAGGACTCGTCGTTTTAATACGCTCCACTGCAACTTCAGGGAG
1 ACCTACTGCAACTTCAGAGGTATAGGACTCGTCACCTTAATACGCTCCACTGCAACTTCAGGGAG
* * *
76221360 ATAGGATTAGCTTTCTTCAGTCTGCTCTGCTGCAACTTCAAGGAGATAAGACTTGTAATTTCAAC
66 ATAGGATTAGCTGTCTTCAGTCTGCTCTGCTGCAACTTCAAGGAGAGAAGACTTGTAACTTCAAC
* *
76221425 CTACTCCATTACAACTTCAGGGAGATAAG
131 CTACTCCACTACAACTTCAGGAAGATAAG
76221454 GTTTGTTTTG
Statistics
Matches: 138, Mismatches: 21, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
183 138 1.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.30
Consensus pattern (183 bp):
ACCTACTGCAACTTCAGAGGTATAGGACTCGTCACCTTAATACGCTCCACTGCAACTTCAGGGAG
ATAGGATTAGCTGTCTTCAGTCTGCTCTGCTGCAACTTCAAGGAGAGAAGACTTGTAACTTCAAC
CTACTCCACTACAACTTCAGGAAGATAAGATTTTCCATGAGAGATTTGATCCG
Found at i:76221571 original size:45 final size:45
Alignment explanation
Indices: 76221515--76221637 Score: 192
Period size: 45 Copynumber: 2.7 Consensus size: 45
76221505 ATAGCTTCAA
* * * *
76221515 TCTGTTCCACTGCAACTTTAGAGAAATAAGATTCGCTATCTTTAG
1 TCTGCTCCACTGCAACTTTAGGGAGATAAGATTCGCCATCTTTAG
76221560 TCTGCTCCACTGCAACTTTAGGGAGATAAGATTCGCCATCTTTAG
1 TCTGCTCCACTGCAACTTTAGGGAGATAAGATTCGCCATCTTTAG
* *
76221605 TCTGCTCCGCTGCAACTTCAGGGAGATAAGATT
1 TCTGCTCCACTGCAACTTTAGGGAGATAAGATT
76221638 TGTGAATTTA
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 72 1.00
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.32
Consensus pattern (45 bp):
TCTGCTCCACTGCAACTTTAGGGAGATAAGATTCGCCATCTTTAG
Found at i:76222189 original size:12 final size:12
Alignment explanation
Indices: 76222172--76222196 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
76222162 ATCAAAGAAA
76222172 GCAAGCATTGTT
1 GCAAGCATTGTT
76222184 GCAAGCATTGTT
1 GCAAGCATTGTT
76222196 G
1 G
76222197 GAATACAAAA
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:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (12 bp):
GCAAGCATTGTT
Found at i:76222512 original size:3 final size:3
Alignment explanation
Indices: 76222491--76222530 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
76222481 CCTTTCCATT
* *
76222491 TTC TTA TTC TTC TTA TTC TTC TTC TTC TTC TTC TT- TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
76222531 GGAAAAGTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.05, C:0.25, G:0.00, T:0.70
Consensus pattern (3 bp):
TTC
Found at i:76225815 original size:24 final size:24
Alignment explanation
Indices: 76225788--76225837 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
76225778 TTCTAATTGT
*
76225788 TCTTGCATCT-GTGTCTGCATTTGC
1 TCTTGCATCTCCT-TCTGCATTTGC
*
76225812 TCTTGCATTTCCTTCTGCATTTGC
1 TCTTGCATCTCCTTCTGCATTTGC
76225836 TC
1 TC
76225838 CAATCTTTCC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 22 0.96
25 1 0.04
ACGTcount: A:0.08, C:0.28, G:0.16, T:0.48
Consensus pattern (24 bp):
TCTTGCATCTCCTTCTGCATTTGC
Found at i:76225818 original size:12 final size:13
Alignment explanation
Indices: 76225801--76225837 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
76225791 TGCATCTGTG
76225801 TCTGCATTTGCTC
1 TCTGCATTTGCTC
*
76225814 T-TGCATTTCCT-
1 TCTGCATTTGCTC
76225825 TCTGCATTTGCTC
1 TCTGCATTTGCTC
76225838 CAATCTTTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
11 1 0.05
12 18 0.90
13 1 0.05
ACGTcount: A:0.08, C:0.30, G:0.14, T:0.49
Consensus pattern (13 bp):
TCTGCATTTGCTC
Found at i:76227941 original size:12 final size:12
Alignment explanation
Indices: 76227917--76227955 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
76227907 ATTAAAATTT
76227917 TAAACAAATAAA
1 TAAACAAATAAA
76227929 TAAA-AAATGAAA
1 TAAACAAAT-AAA
*
76227941 TAAGCAAATAAA
1 TAAACAAATAAA
76227953 TAA
1 TAA
76227956 GTAAATAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
11 4 0.17
12 16 0.67
13 4 0.17
ACGTcount: A:0.72, C:0.05, G:0.05, T:0.18
Consensus pattern (12 bp):
TAAACAAATAAA
Found at i:76227956 original size:12 final size:12
Alignment explanation
Indices: 76227921--76227964 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
76227911 AAATTTTAAA
76227921 CAAATAAATAA-
1 CAAATAAATAAG
*
76227932 AAAATGAAATAAG
1 CAAAT-AAATAAG
76227945 CAAATAAATAAG
1 CAAATAAATAAG
*
76227957 TAAATAAA
1 CAAATAAA
76227965 AATAAAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
11 4 0.14
12 20 0.71
13 4 0.14
ACGTcount: A:0.70, C:0.05, G:0.07, T:0.18
Consensus pattern (12 bp):
CAAATAAATAAG
Found at i:76227998 original size:3 final size:3
Alignment explanation
Indices: 76227990--76228111 Score: 100
Period size: 3 Copynumber: 40.0 Consensus size: 3
76227980 ATTACAAATG
* * * * * *
76227990 ATA ATA ATA ATA ATA ATA ACA ATA ATA ACAA AGA ACA AAA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA
* * * * * *
76228036 ATA AAA ATA ATA TTA ACA GTA ATA ATA ATG GTA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
76228084 ATAA ATA ATA ATA ATA GTA ACA ATA ATA
1 AT-A ATA ATA ATA ATA ATA ATA ATA ATA
76228112 TATTAAATTA
Statistics
Matches: 92, Mismatches: 25, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
3 87 0.95
4 5 0.05
ACGTcount: A:0.64, C:0.04, G:0.05, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:76234317 original size:16 final size:15
Alignment explanation
Indices: 76234283--76234324 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
76234273 AATAGGGACC
*
76234283 TTATAATATACACTA
1 TTATAATATACAATA
*
76234298 TTATAATATTCAAATA
1 TTATAATATAC-AATA
76234314 TTATAATATAC
1 TTATAATATAC
76234325 NNNNNNNNNN
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.43
Consensus pattern (15 bp):
TTATAATATACAATA
Found at i:76298965 original size:70 final size:70
Alignment explanation
Indices: 76298852--76299491 Score: 652
Period size: 70 Copynumber: 9.1 Consensus size: 70
76298842 TCTTCCCAAA
* * * * * * * *
76298852 AAAATAGTTAGCGAGACCTCAATCTCTCACCTGTGATCTTAAGGCTTGTAGGTTCAATACCGCAG
1 AAAATAGTTAGCGAGAGCTCAAGCTCCCAACTGTGATCTTAAGGCTCGCAGGTTCAACACCGTAG
76298917 CCTCC
66 CCTCC
* * * * * * * * * * *
76298922 AAAATAGATAGCGAGAGCTTAAGTTCACAGCTATAATATTAAGGCTTGCATGTTCAACACCGTAA
1 AAAATAGTTAGCGAGAGCTCAAGCTCCCAACTGTGATCTTAAGGCTCGCAGGTTCAACACCGTAG
*
76298987 CCTCT
66 CCTCC
* * * * * * * *
76298992 AAAAAAATTAGCGAGAGCTCAAGCTCCCAACTGTGATTTTAGGGCTCGTAAGTTCAACATCATAG
1 AAAATAGTTAGCGAGAGCTCAAGCTCCCAACTGTGATCTTAAGGCTCGCAGGTTCAACACCGTAG
76299057 CCTCC
66 CCTCC
* * * *
76299062 AAAATAGTTAGTGAGAGCTCAAGCTCCCAAATGTGATCTTAAGGCTCGTAGGTTCAACACAGTAG
1 AAAATAGTTAGCGAGAGCTCAAGCTCCCAACTGTGATCTTAAGGCTCGCAGGTTCAACACCGTAG
76299127 CCTCC
66 CCTCC
* * * *
76299132 AAAATAGTTAGTGAGAGCTCAAGCTCCTAACTATGATCTTAAGGCTCACAGGTTCAACACCGTAG
1 AAAATAGTTAGCGAGAGCTCAAGCTCCCAACTGTGATCTTAAGGCTCGCAGGTTCAACACCGTAG
*
76299197 CCTCT
66 CCTCC
* ** * *
76299202 AAAATAGTTAGCGATAGCTCAAGCTCCCAGTTGTGATCTTAAGGCTCACAGGTTCAACACCTTAG
1 AAAATAGTTAGCGAGAGCTCAAGCTCCCAACTGTGATCTTAAGGCTCGCAGGTTCAACACCGTAG
76299267 CCTCC
66 CCTCC
* ** * * ** *
76299272 AAAATAGTTAGCAAGAGCTCAAGCTCCCAGTTGTGATCTTAAGGCTCGCAAGTTCAATACCACAA
1 AAAATAGTTAGCGAGAGCTCAAGCTCCCAACTGTGATCTTAAGGCTCGCAGGTTCAACACCGTAG
76299337 CCTCC
66 CCTCC
** * * * **
76299342 AAAATAGTTAGCGAGAGCTCAAGCTCTTAGA-TCTGATCTTAAGGCTCGCAAGTTCAATACCACA
1 AAAATAGTTAGCGAGAGCTCAAGCTCCCA-ACTGTGATCTTAAGGCTCGCAGGTTCAACACCGTA
* *
76299406 ACCTCT
65 GCCTCC
* * * * ** *
76299412 AAAACAGTTAGCGAGAGCTCAAGCTCTCAGCTGTGATCTTAAGGCTCACAAATTCAAGCACTGTA
1 AAAATAGTTAGCGAGAGCTCAAGCTCCCAACTGTGATCTTAAGGCTCGCAGGTTCAA-CACCGTA
*
76299477 GCCTTC
65 GCCTCC
76299483 AAAATAGTT
1 AAAATAGTT
76299492 GAAGCTCGTG
Statistics
Matches: 480, Mismatches: 87, Indels: 5
0.84 0.15 0.01
Matches are distributed among these distances:
70 466 0.97
71 14 0.03
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.25
Consensus pattern (70 bp):
AAAATAGTTAGCGAGAGCTCAAGCTCCCAACTGTGATCTTAAGGCTCGCAGGTTCAACACCGTAG
CCTCC
Found at i:76299215 original size:210 final size:210
Alignment explanation
Indices: 76298852--76299491 Score: 764
Period size: 210 Copynumber: 3.0 Consensus size: 210
76298842 TCTTCCCAAA
* * * ** * *
76298852 AAAATAGTTAGCGAGACCTCAATCTCTCACCTGTGATCTTAAGGCTTGTAGGTTCAATACCGCAG
1 AAAATAGTTAGCGAGAGCTCAAGCTCCCAAATGTGATCTTAAGGCTCGTAGGTTCAATACAGCAG
* * * * * * * *
76298917 CCTCCAAAATAGATAGCGAGAGCTTAAGTTCAC-AGCTATAATATTAAGGCTTGCATGTTCAACA
66 CCTCCAAAATAGTTAGCGAGAGCTCAAGCTC-CTAACTATGATCTTAAGGCTCGCAAGTTCAACA
* * * * **
76298981 CCGTAACCTCTAAAAAAATTAGCGAGAGCTCAAGCTCCCAACTGTGATTTTAGGGCTCGTAAGTT
130 CCGTAACCTCTAAAAAAGTTAGCGAGAGCTCAAGCTCCCAGCTGTGATCTTAAGGCTCACAAGTT
*
76299046 CAACATCATAGCCTCC
195 CAACACCATAGCCTCC
* * *
76299062 AAAATAGTTAGTGAGAGCTCAAGCTCCCAAATGTGATCTTAAGGCTCGTAGGTTCAACACAGTAG
1 AAAATAGTTAGCGAGAGCTCAAGCTCCCAAATGTGATCTTAAGGCTCGTAGGTTCAATACAGCAG
* * *
76299127 CCTCCAAAATAGTTAGTGAGAGCTCAAGCTCCTAACTATGATCTTAAGGCTCACAGGTTCAACAC
66 CCTCCAAAATAGTTAGCGAGAGCTCAAGCTCCTAACTATGATCTTAAGGCTCGCAAGTTCAACAC
* * * * *
76299192 CGTAGCCTCTAAAATAGTTAGCGATAGCTCAAGCTCCCAGTTGTGATCTTAAGGCTCACAGGTTC
131 CGTAACCTCTAAAAAAGTTAGCGAGAGCTCAAGCTCCCAGCTGTGATCTTAAGGCTCACAAGTTC
*
76299257 AACACCTTAGCCTCC
196 AACACCATAGCCTCC
* ** * *
76299272 AAAATAGTTAGCAAGAGCTCAAGCTCCCAGTTGTGATCTTAAGGCTCGCAAGTTCAATACCA-CA
1 AAAATAGTTAGCGAGAGCTCAAGCTCCCAAATGTGATCTTAAGGCTCGTAGGTTCAATA-CAGCA
* * * *
76299336 ACCTCCAAAATAGTTAGCGAGAGCTCAAGCTCTTAGA-TCTGATCTTAAGGCTCGCAAGTTCAAT
65 GCCTCCAAAATAGTTAGCGAGAGCTCAAGCTCCTA-ACTATGATCTTAAGGCTCGCAAGTTCAAC
** * * *
76299400 ACCACAACCTCTAAAACAGTTAGCGAGAGCTCAAGCTCTCAGCTGTGATCTTAAGGCTCACAAAT
129 ACCGTAACCTCTAAAAAAGTTAGCGAGAGCTCAAGCTCCCAGCTGTGATCTTAAGGCTCACAAGT
** *
76299465 TCAAGCACTGTAGCCTTC
194 TCAA-CACCATAGCCTCC
76299483 AAAATAGTT
1 AAAATAGTT
76299492 GAAGCTCGTG
Statistics
Matches: 366, Mismatches: 60, Indels: 7
0.85 0.14 0.02
Matches are distributed among these distances:
209 1 0.00
210 343 0.94
211 22 0.06
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.25
Consensus pattern (210 bp):
AAAATAGTTAGCGAGAGCTCAAGCTCCCAAATGTGATCTTAAGGCTCGTAGGTTCAATACAGCAG
CCTCCAAAATAGTTAGCGAGAGCTCAAGCTCCTAACTATGATCTTAAGGCTCGCAAGTTCAACAC
CGTAACCTCTAAAAAAGTTAGCGAGAGCTCAAGCTCCCAGCTGTGATCTTAAGGCTCACAAGTTC
AACACCATAGCCTCC
Found at i:76299595 original size:25 final size:25
Alignment explanation
Indices: 76299565--76299614 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
76299555 ATTTGCTTAA
76299565 GTTAAAATTTTGCTCAAGTTCACGG
1 GTTAAAATTTTGCTCAAGTTCACGG
76299590 GTTAAAATTTTGCTCAAGTTCACGG
1 GTTAAAATTTTGCTCAAGTTCACGG
76299615 AGAAATAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (25 bp):
GTTAAAATTTTGCTCAAGTTCACGG
Found at i:76302675 original size:20 final size:20
Alignment explanation
Indices: 76302634--76302683 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
76302624 TGTCAATCCT
* *
76302634 ATGAATAGTGGGGTTAAGTC
1 ATGAATAGTGGAGTGAAGTC
76302654 ATGAATAGTGGAGTCGAA-TC
1 ATGAATAGTGGAGT-GAAGTC
*
76302674 ATGAACAGTG
1 ATGAATAGTG
76302684 ATAATATGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.34, C:0.08, G:0.32, T:0.26
Consensus pattern (20 bp):
ATGAATAGTGGAGTGAAGTC
Found at i:76305904 original size:69 final size:69
Alignment explanation
Indices: 76305793--76305934 Score: 266
Period size: 69 Copynumber: 2.1 Consensus size: 69
76305783 TTTTTCGGGT
*
76305793 TAGTATACAACCCGTGTACATGGACGGGAAAAGCATACATACATGTTGCGCCTATCTGATAGGCT
1 TAGTATACAACCCGTGTACATAGACGGGAAAAGCATACATACATGTTGCGCCTATCTGATAGGCT
76305858 CAAC
66 CAAC
76305862 TAGTATACAACCCGTGTACATAGACGGGAAAAGCATACATACATGTTGCGCCTATCTGATAGGCT
1 TAGTATACAACCCGTGTACATAGACGGGAAAAGCATACATACATGTTGCGCCTATCTGATAGGCT
*
76305927 CAAG
66 CAAC
76305931 TAGT
1 TAGT
76305935 TGAGCCTATC
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 71 1.00
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (69 bp):
TAGTATACAACCCGTGTACATAGACGGGAAAAGCATACATACATGTTGCGCCTATCTGATAGGCT
CAAC
Found at i:76305961 original size:27 final size:27
Alignment explanation
Indices: 76305906--76305962 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
76305896 ATACATACAT
* * * *
76305906 GTTGCGCCTATCTGATAGGCTCAAGTA
1 GTTGAGCCTATCTGACAGGCACAACTA
*
76305933 GTTGAGCCTATCTGACAGGCACGACTA
1 GTTGAGCCTATCTGACAGGCACAACTA
76305960 GTT
1 GTT
76305963 CTGCCTTCTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (27 bp):
GTTGAGCCTATCTGACAGGCACAACTA
Found at i:76305968 original size:27 final size:27
Alignment explanation
Indices: 76305911--76305968 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
76305901 TACATGTTGC
* * * *
76305911 GCCTATCTGATAGGCTCAAGTAGTTGA
1 GCCTATCTGACAGGCACAACTAGTTCA
* *
76305938 GCCTATCTGACAGGCACGACTAGTTCT
1 GCCTATCTGACAGGCACAACTAGTTCA
76305965 GCCT
1 GCCT
76305969 TCTTGGTAGG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (27 bp):
GCCTATCTGACAGGCACAACTAGTTCA
Found at i:76309642 original size:33 final size:33
Alignment explanation
Indices: 76309605--76309702 Score: 92
Period size: 33 Copynumber: 2.9 Consensus size: 33
76309595 ATAGAATATG
76309605 GCGGTGGATATGGGCCGGGAGGAGTAGAGTACA-
1 GCGGTGGATA-GGGCCGGGAGGAGTAGAGTACAT
* * * *
76309638 GCGGTGGATACGGCTCTGGAAGAGTTGAGTACAT
1 GCGGTGGATAGGGC-CGGGAGGAGTAGAGTACAT
* * *
76309672 G-GGTGGATACGAGCCGGAAGGAGCAGAGTAC
1 GCGGTGGATA-GGGCCGGGAGGAGTAGAGTAC
76309703 TGAGATAAAT
Statistics
Matches: 51, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
32 3 0.06
33 45 0.88
34 3 0.06
ACGTcount: A:0.26, C:0.14, G:0.44, T:0.16
Consensus pattern (33 bp):
GCGGTGGATAGGGCCGGGAGGAGTAGAGTACAT
Found at i:76309878 original size:12 final size:12
Alignment explanation
Indices: 76309853--76309887 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
76309843 AGAGTGTAGT
*
76309853 TCCGGCTTTGGC
1 TCCGGCTCTGGC
*
76309865 TCCTGCTCTGGC
1 TCCGGCTCTGGC
76309877 TCCGGCTCTGG
1 TCCGGCTCTGG
76309888 TGCATGATGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.00, C:0.37, G:0.31, T:0.31
Consensus pattern (12 bp):
TCCGGCTCTGGC
Found at i:76312163 original size:229 final size:229
Alignment explanation
Indices: 76311840--76312282 Score: 757
Period size: 229 Copynumber: 1.9 Consensus size: 229
76311830 ATACTAACAC
*
76311840 AAAATAACTATAAAATTATTTTTTAAAAATAAATTACTAAAAAAAATCACAATACACTAATACAC
1 AAAATAACTATAAAAATATTTTTTAAAAATAAATTACTAAAAAAAATCACAATACACTAATACAC
76311905 ACTAAACCACTAAACACTAACAATATATAACCTAATCTTAAATTACTAATAAAATAGCTATAAAA
66 ACTAAACCACTAAACACTAACAATATATAACCTAATCTTAAATTACTAATAAAATAGCTATAAAA
76311970 ATATTTTTTTAAAATATATTACTAAAAAAAATCACAATACACTAATACACTAAACCACTAAACAC
131 ATATTTTTTTAAAATATATTACT-AAAAAAATCACAATACACTAATACACTAAACCACTAAACAC
*
76312035 TAACAATTTATATAATCTAACCTTAAATTACTAAT
195 TAACAATTTATATAACCTAACCTTAAATTACTAAT
* * * *
76312070 AAAATAGCTATAAAAATATTTTTTTAAAATATATTACT-AAAAAAATTACAATACACTAATACAC
1 AAAATAACTATAAAAATATTTTTTAAAAATAAATTACTAAAAAAAATCACAATACACTAATACAC
76312134 -C-AAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAATAAAATAGCTATAA
66 ACTAAACCACTAAACACTAACAA--TATATAACCTAATCTTAAATTACTAATAAAATAGCTATAA
* * *
76312197 AATTATTTTTTTTAAATATATTACTAAAAAAATCACAATACACTAATACACTAAACTACTAAACA
129 AAATATTTTTTTAAAATATATTACTAAAAAAATCACAATACACTAATACACTAAACCACTAAACA
76312262 CTAACAATTTATATAACCTAA
194 CTAACAATTTATATAACCTAA
76312283 TCAACTATAA
Statistics
Matches: 202, Mismatches: 9, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
227 20 0.10
228 60 0.30
229 88 0.44
230 34 0.17
ACGTcount: A:0.53, C:0.16, G:0.01, T:0.31
Consensus pattern (229 bp):
AAAATAACTATAAAAATATTTTTTAAAAATAAATTACTAAAAAAAATCACAATACACTAATACAC
ACTAAACCACTAAACACTAACAATATATAACCTAATCTTAAATTACTAATAAAATAGCTATAAAA
ATATTTTTTTAAAATATATTACTAAAAAAATCACAATACACTAATACACTAAACCACTAAACACT
AACAATTTATATAACCTAACCTTAAATTACTAAT
Found at i:76312174 original size:114 final size:115
Alignment explanation
Indices: 76311840--76312284 Score: 736
Period size: 114 Copynumber: 3.9 Consensus size: 115
76311830 ATACTAACAC
* * * *
76311840 AAAATAACTATAAAATTATTTTTTAAAAATAAATTACTAAAAAAAATCACAATACACTAATACAC
1 AAAATAGCTATAAAAATATTTTTTTAAAATATATTACTAAAAAAAATCACAATACACTAATACAC
76311905 ACTAAACCACTAAACACTAACAA--TATATAACCTAATCTTAAATTACTAAT
66 -C-AAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
76311955 AAAATAGCTATAAAAATATTTTTTTAAAATATATTACTAAAAAAAATCACAATACACTAATACAC
1 AAAATAGCTATAAAAATATTTTTTTAAAATATATTACTAAAAAAAATCACAATACACTAATACAC
* * *
76312020 TAAACCACTAAACACTAACAATTTATATAATCTAACCTTAAATTACTAAT
66 CAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
*
76312070 AAAATAGCTATAAAAATATTTTTTTAAAATATATTACT-AAAAAAATTACAATACACTAATACAC
1 AAAATAGCTATAAAAATATTTTTTTAAAATATATTACTAAAAAAAATCACAATACACTAATACAC
76312134 CAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
66 CAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
* *
76312184 AAAATAGCTATAAAATTATTTTTTTTAAATATATTACT-AAAAAAATCACAATACACTAATACAC
1 AAAATAGCTATAAAAATATTTTTTTAAAATATATTACTAAAAAAAATCACAATACACTAATACAC
* *
76312248 TAAACTACTAAACACTAACAATTTATATAACCTAATC
66 CAAACCACTAAACACTAACAATTTATATAACCTAATC
76312285 AACTATAAAA
Statistics
Matches: 312, Mismatches: 16, Indels: 5
0.94 0.05 0.02
Matches are distributed among these distances:
113 20 0.06
114 168 0.54
115 124 0.40
ACGTcount: A:0.52, C:0.16, G:0.01, T:0.31
Consensus pattern (115 bp):
AAAATAGCTATAAAAATATTTTTTTAAAATATATTACTAAAAAAAATCACAATACACTAATACAC
CAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
Found at i:76312352 original size:91 final size:93
Alignment explanation
Indices: 76312191--76312362 Score: 237
Period size: 96 Copynumber: 1.8 Consensus size: 93
76312181 AATAAAATAG
*
76312191 CTATAAAATTATTTTTTTTAAATATATTACTAAAAAAATCACAATACACTAATACACTAAACTAC
1 CTATAAAATTATTTTTTTAAAATATATTACTAAAAAAATCACAATACAC--ATACACT-AACTAC
76312256 TAAACACTAACAATTTATATAACCTAATCAA
63 TAAACACTAACAATTTATATAACCTAATCAA
*
76312287 CTATAAAATTATTTTTTTAAAAATATATTATTACTAAAAAATCACAATACAC-TA-A-T-AC-AC
1 CTATAAAATTATTTTTTT-AAAATATATTACTA--AAAAAATCACAATACACATACACTAACTAC
76312347 TAAACACTAACAATTT
63 TAAACACTAACAATTT
76312363 GTAACCTAAT
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
91 18 0.25
92 2 0.03
94 1 0.01
95 1 0.01
96 20 0.28
97 12 0.17
99 17 0.24
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (93 bp):
CTATAAAATTATTTTTTTAAAATATATTACTAAAAAAATCACAATACACATACACTAACTACTAA
ACACTAACAATTTATATAACCTAATCAA
Found at i:76312557 original size:3 final size:3
Alignment explanation
Indices: 76312551--76312634 Score: 132
Period size: 3 Copynumber: 27.3 Consensus size: 3
76312541 CATTACCTTT
76312551 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
* *
76312599 TTC TTC TTCC TTC TTC TTCC TTC TTT TTC TCC TTC T
1 TTC TTC TT-C TTC TTC TT-C TTC TTC TTC TTC TTC T
76312635 CCTTTCTCTC
Statistics
Matches: 75, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
3 69 0.92
4 6 0.08
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TTC
Found at i:76313704 original size:24 final size:22
Alignment explanation
Indices: 76313661--76313710 Score: 73
Period size: 24 Copynumber: 2.2 Consensus size: 22
76313651 CGTTATAAAA
*
76313661 ATTAATTAATATAATTAAACCT
1 ATTAATTAATAAAATTAAACCT
76313683 ATTAATTACATAAAAATTAAACCT
1 ATTAATTA-AT-AAAATTAAACCT
76313707 ATTA
1 ATTA
76313711 CTCAAATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 8 0.32
23 2 0.08
24 15 0.60
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (22 bp):
ATTAATTAATAAAATTAAACCT
Found at i:76313767 original size:36 final size:36
Alignment explanation
Indices: 76313654--76313774 Score: 122
Period size: 36 Copynumber: 3.3 Consensus size: 36
76313644 TATATTACGT
*
76313654 TATAAAAATTAATTAATATAATTAAACCTATTAATTA
1 TATAAAAATTAATT-ATATAATTAAATCTATTAATTA
* * * * *
76313691 CATAAAAATTAAACCTAT-TACTCAAATATATT-ATGT-
1 TATAAAAATT-AA-TTATATAATTAAATCTATTAAT-TA
76313727 TATAAAAATTAATTATATAATTAAATCTATTAATTA
1 TATAAAAATTAATTATATAATTAAATCTATTAATTA
*
76313763 TATAACAATTAA
1 TATAAAAATTAA
76313775 ACCTATTACC
Statistics
Matches: 66, Mismatches: 12, Indels: 13
0.73 0.13 0.14
Matches are distributed among these distances:
34 3 0.05
35 14 0.21
36 24 0.36
37 20 0.30
38 4 0.06
39 1 0.02
ACGTcount: A:0.52, C:0.07, G:0.01, T:0.40
Consensus pattern (36 bp):
TATAAAAATTAATTATATAATTAAATCTATTAATTA
Found at i:76313775 original size:72 final size:73
Alignment explanation
Indices: 76313638--76313788 Score: 250
Period size: 72 Copynumber: 2.1 Consensus size: 73
76313628 CCCGGAGTGG
76313638 CCCAAATATATTACGTTATAAAAATTAATTAATATAATTAAACCTATTAATTACATAAAAATTAA
1 CCCAAATATATTACGTTATAAAAATTAATTAATATAATTAAACCTATTAATTACATAAAAATTAA
76313703 ACCTATTA
66 ACCTATTA
* * * * *
76313711 CTCAAATATATTATGTTATAAAAATTAATT-ATATAATTAAATCTATTAATTATATAACAATTAA
1 CCCAAATATATTACGTTATAAAAATTAATTAATATAATTAAACCTATTAATTACATAAAAATTAA
76313775 ACCTATTA
66 ACCTATTA
76313783 CCCAAA
1 CCCAAA
76313789 ACCTAAAAAA
Statistics
Matches: 72, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
72 44 0.61
73 28 0.39
ACGTcount: A:0.50, C:0.12, G:0.01, T:0.37
Consensus pattern (73 bp):
CCCAAATATATTACGTTATAAAAATTAATTAATATAATTAAACCTATTAATTACATAAAAATTAA
ACCTATTA
Found at i:76313780 original size:24 final size:21
Alignment explanation
Indices: 76313734--76313782 Score: 62
Period size: 24 Copynumber: 2.2 Consensus size: 21
76313724 TGTTATAAAA
*
76313734 ATTAATTATATAATTAAATCT
1 ATTAATTATATAATTAAACCT
76313755 ATTAATTATATAACAATTAAACCT
1 ATTAATTATAT---AATTAAACCT
76313779 ATTA
1 ATTA
76313783 CCCAAAACCT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 11 0.46
24 13 0.54
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.43
Consensus pattern (21 bp):
ATTAATTATATAATTAAACCT
Found at i:76314013 original size:19 final size:19
Alignment explanation
Indices: 76313991--76314028 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
76313981 AGGAATAGGA
76313991 TGACATGAAATCACAATTT
1 TGACATGAAATCACAATTT
*
76314010 TGACATGAAATTACAATTT
1 TGACATGAAATCACAATTT
76314029 CATATAATCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.34
Consensus pattern (19 bp):
TGACATGAAATCACAATTT
Found at i:76325914 original size:31 final size:31
Alignment explanation
Indices: 76325879--76325943 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
76325869 GTTTGGGTTA
* * *
76325879 CAAATTGAATGTTGAAGCCAAACTT-AGGTAC
1 CAAATTGAATATTGAA-ACAAAATTCAGGTAC
76325910 CAAATTGAATATTGAAACAAAATTCAGGTAC
1 CAAATTGAATATTGAAACAAAATTCAGGTAC
76325941 CAA
1 CAA
76325944 GTGGTATATT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 6 0.20
31 24 0.80
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.25
Consensus pattern (31 bp):
CAAATTGAATATTGAAACAAAATTCAGGTAC
Found at i:76326097 original size:22 final size:22
Alignment explanation
Indices: 76326072--76326127 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
76326062 TTAGGAAGAC
**
76326072 TTTAAAATTTAAAATCATTCTT
1 TTTAAAAAGTAAAATCATTCTT
76326094 TTTAAAAAGTAAAATCATTCTT
1 TTTAAAAAGTAAAATCATTCTT
*
76326116 TTCAAAAAGTAA
1 TTTAAAAAGTAA
76326128 CATATATAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.41
Consensus pattern (22 bp):
TTTAAAAAGTAAAATCATTCTT
Found at i:76334482 original size:2 final size:2
Alignment explanation
Indices: 76334475--76334503 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
76334465 TATAATTGCT
76334475 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
76334504 CCCCTCCATT
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:76335873 original size:13 final size:14
Alignment explanation
Indices: 76335855--76335887 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
76335845 CAAAAACAAC
76335855 TTAATAAG-CTTAA
1 TTAATAAGACTTAA
76335868 TTAAT-AGACTTAA
1 TTAATAAGACTTAA
76335881 TTAATAA
1 TTAATAA
76335888 ACAAATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 2 0.11
13 15 0.83
14 1 0.06
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (14 bp):
TTAATAAGACTTAA
Found at i:76335913 original size:28 final size:28
Alignment explanation
Indices: 76335878--76335942 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
76335868 TTAATAGACT
**
76335878 TAATTAATAAACAAATTTAATGCTTAAC
1 TAATTAATAAACAAATTTAACACTTAAC
* *
76335906 TAATTAATAACCACATTTAACACTTAAC
1 TAATTAATAAACAAATTTAACACTTAAC
76335934 TAACTTAAT
1 TAA-TTAAT
76335943 TAATAAACTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 27 0.84
29 5 0.16
ACGTcount: A:0.48, C:0.15, G:0.02, T:0.35
Consensus pattern (28 bp):
TAATTAATAAACAAATTTAACACTTAAC
Found at i:76346449 original size:39 final size:40
Alignment explanation
Indices: 76346309--76346450 Score: 103
Period size: 39 Copynumber: 3.5 Consensus size: 40
76346299 AGTAAATAAT
* *
76346309 AATACTATATATAAATATATAAATGTATA-TAATAGAAATACAC
1 AATACTATATATAAATAT-TAAAT-TAAAGTAATACAAA-A-AC
* * * * *
76346352 ACTACTATATAATAATAATAATAAA-TATAGAAATACAAAAAG
1 AATACTATAT-AT-A-AATATTAAATTAAAGTAATACAAAAAC
* *
76346394 AA-AATATAATAAAAATATTAAATTAAAGTAATA-AAAAAC
1 AATACTAT-ATATAAATATTAAATTAAAGTAATACAAAAAC
76346433 AATACTATATATAAATAT
1 AATACTATATATAAATAT
76346451 ATATATACAT
Statistics
Matches: 78, Mismatches: 14, Indels: 18
0.71 0.13 0.16
Matches are distributed among these distances:
39 24 0.31
40 13 0.17
41 5 0.06
42 4 0.05
43 14 0.18
44 9 0.12
45 5 0.06
46 4 0.05
ACGTcount: A:0.61, C:0.06, G:0.04, T:0.30
Consensus pattern (40 bp):
AATACTATATATAAATATTAAATTAAAGTAATACAAAAAC
Found at i:76346586 original size:12 final size:13
Alignment explanation
Indices: 76346571--76346616 Score: 53
Period size: 12 Copynumber: 3.7 Consensus size: 13
76346561 AATAGAGGTG
76346571 ATAATAATA-ATA
1 ATAATAATACATA
76346583 ATAATAATACA-A
1 ATAATAATACATA
*
76346595 ACAATAATACAT-
1 ATAATAATACATA
76346607 ATATATAATA
1 ATA-ATAATA
76346617 ATAGTAGTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
12 22 0.76
13 7 0.24
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (13 bp):
ATAATAATACATA
Found at i:76346706 original size:3 final size:3
Alignment explanation
Indices: 76346698--76346770 Score: 53
Period size: 3 Copynumber: 23.3 Consensus size: 3
76346688 GCATATATAT
76346698 ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA ATA ATA
1 ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA ATA ATA
* *
76346743 ATA AT- ATAA ATA ATA GTA AAA ATA ATA A
1 ATA ATA AT-A ATA ATA ATA ATA ATA ATA A
76346771 ATAAAAAAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
2 5 0.09
3 41 0.72
4 9 0.16
5 2 0.04
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:76346722 original size:27 final size:27
Alignment explanation
Indices: 76346692--76346770 Score: 76
Period size: 27 Copynumber: 3.0 Consensus size: 27
76346682 GAGAGGGCAT
76346692 ATATATATAATAATAATATAAATAATA
1 ATATATATAATAATAATATAAATAATA
* * *
76346719 ATATATA-CATGAGAA-AT-AATAATA
1 ATATATATAATAATAATATAAATAATA
* *
76346743 ATA-ATATAAATAATAGTAAAAATAATA
1 ATATATAT-AATAATAATATAAATAATA
76346770 A
1 A
76346771 ATAAAAAAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
23 3 0.08
24 10 0.25
25 6 0.15
26 6 0.15
27 15 0.38
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (27 bp):
ATATATATAATAATAATATAAATAATA
Found at i:76346737 original size:21 final size:18
Alignment explanation
Indices: 76346698--76346757 Score: 75
Period size: 18 Copynumber: 3.2 Consensus size: 18
76346688 GCATATATAT
*
76346698 ATAATAATAATATAAATA
1 ATAATAATAATAGAAATA
76346716 ATAATATATACATGAGAAATA
1 ATAATA-ATA-AT-AGAAATA
*
76346737 ATAATAATAATATAAATA
1 ATAATAATAATAGAAATA
76346755 ATA
1 ATA
76346758 GTAAAAATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
18 15 0.41
19 5 0.14
20 5 0.14
21 12 0.32
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (18 bp):
ATAATAATAATAGAAATA
Found at i:76346776 original size:12 final size:12
Alignment explanation
Indices: 76346694--76346775 Score: 71
Period size: 12 Copynumber: 6.6 Consensus size: 12
76346684 GAGGGCATAT
76346694 ATATATAATAATA
1 ATATA-AATAATA
76346707 ATATAAATAATA
1 ATATAAATAATA
76346719 ATATATACATGAGA-A
1 ATATA-A-AT-A-ATA
76346734 ATA-ATAATAATA
1 ATATA-AATAATA
76346746 ATATAAATAATA
1 ATATAAATAATA
* *
76346758 GTAAAAATAATA
1 ATATAAATAATA
76346770 A-ATAAA
1 ATATAAA
76346776 AAAAATAAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
11 5 0.08
12 34 0.58
13 9 0.15
14 5 0.08
15 5 0.08
16 1 0.02
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (12 bp):
ATATAAATAATA
Found at i:76347637 original size:21 final size:21
Alignment explanation
Indices: 76347613--76347677 Score: 51
Period size: 21 Copynumber: 3.1 Consensus size: 21
76347603 TCCACTGAAA
76347613 CTTCAAGGAGATCTGCTGTAG
1 CTTCAAGGAGATCTGCTGTAG
* ** ** * *
76347634 CTTCGATTA-ATCCACTGAAA
1 CTTCAAGGAGATCTGCTGTAG
*
76347654 CTTCAAGGAGATCTGCTGTGG
1 CTTCAAGGAGATCTGCTGTAG
76347675 CTT
1 CTT
76347678 TTAGCTGCTC
Statistics
Matches: 28, Mismatches: 15, Indels: 2
0.62 0.33 0.04
Matches are distributed among these distances:
20 13 0.46
21 15 0.54
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.31
Consensus pattern (21 bp):
CTTCAAGGAGATCTGCTGTAG
Found at i:76347650 original size:41 final size:42
Alignment explanation
Indices: 76347592--76347677 Score: 147
Period size: 41 Copynumber: 2.1 Consensus size: 42
76347582 AGACACGTGA
76347592 CTTCAATTAATTCCACTGAAACTTCAAGGAGATCTGCTGTAG
1 CTTCAATTAATTCCACTGAAACTTCAAGGAGATCTGCTGTAG
* *
76347634 CTTCGATTAA-TCCACTGAAACTTCAAGGAGATCTGCTGTGG
1 CTTCAATTAATTCCACTGAAACTTCAAGGAGATCTGCTGTAG
76347675 CTT
1 CTT
76347678 TTAGCTGCTC
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
41 33 0.79
42 9 0.21
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (42 bp):
CTTCAATTAATTCCACTGAAACTTCAAGGAGATCTGCTGTAG
Found at i:76347788 original size:44 final size:44
Alignment explanation
Indices: 76347725--76348055 Score: 184
Period size: 44 Copynumber: 7.6 Consensus size: 44
76347715 GATTTTTAAC
76347725 CTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGTCATCATTGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGTCATCATTGAT
* * * * * * *
76347769 CTGTTTCCCTACTGCTTAGGTGTTTCAGATCTTGTAAAATCA--G-C
1 CTGTTACCCTACTGCTTAGGGGGTTAAG-GCTTGT--CATCATTGAT
* ** * *
76347813 CTGTTACCCTACTGCTTAGGGGTTTAAGGCTCATC-GCCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGTCATCATT-GAT
* * * *
76347857 CTGTTTCCCTACTGCTTAGGGGGTTAA-GATCTGT-A-AATTTAGT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCT-TGTCATCATTGA-T
** * ** *
76347900 CTGTTACCCTACTGCTTAGGGTTTTAAGACTCATCATC-TTCAAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGTCATCATT-GAT
* * * *
76347944 CTGCTT-CCCTACTGCTTAGGGGGTTGAGG-TCTGT-A-AATTTAGC
1 CTG-TTACCCTACTGCTTAGGGGGTTAAGGCT-TGTCATCATTGA-T
* * ** *
76347987 CTGTTACCCTACTGCTTAGGGGTTTAAGACTCATCATC-TTCAAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGTCATCATT-GAT
*
76348031 CTGTTTCCCTACTGCTTAGGGGGTT
1 CTGTTACCCTACTGCTTAGGGGGTT
76348056 GAGATCTGTA
Statistics
Matches: 211, Mismatches: 53, Indels: 46
0.68 0.17 0.15
Matches are distributed among these distances:
40 1 0.00
42 4 0.02
43 62 0.29
44 130 0.62
45 10 0.05
47 4 0.02
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (44 bp):
CTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGTCATCATTGAT
Found at i:76347919 original size:87 final size:87
Alignment explanation
Indices: 76347719--76348068 Score: 477
Period size: 87 Copynumber: 4.0 Consensus size: 87
76347709 ATATTTGATT
* * * ** * *
76347719 TTTAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGTCATCATT-GATCTGTTTCCCTACTG
1 TTTAGCCTGTTACCCTACTGCTTAGGGGTTTAAGACTCATCA-CCTTCAATCTGTTTCCCTACTG
* * *
76347783 CTTAGGTGTTTCAGATCTTGTAAA
65 CTTAGGGGGTTGAGATC-TGTAAA
* * * * *
76347807 ATCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTCATCGCCTTCGATCTGTTTCCCTACTGC
1 TTTAGCCTGTTACCCTACTGCTTAGGGGTTTAAGACTCATCACCTTCAATCTGTTTCCCTACTGC
*
76347872 TTAGGGGGTTAAGATCTGTAAA
66 TTAGGGGGTTGAGATCTGTAAA
* * * *
76347894 TTTAGTCTGTTACCCTACTGCTTAGGGTTTTAAGACTCATCATCTTCAATCTGCTTCCCTACTGC
1 TTTAGCCTGTTACCCTACTGCTTAGGGGTTTAAGACTCATCACCTTCAATCTGTTTCCCTACTGC
*
76347959 TTAGGGGGTTGAGGTCTGTAAA
66 TTAGGGGGTTGAGATCTGTAAA
*
76347981 TTTAGCCTGTTACCCTACTGCTTAGGGGTTTAAGACTCATCATCTTCAATCTGTTTCCCTACTGC
1 TTTAGCCTGTTACCCTACTGCTTAGGGGTTTAAGACTCATCACCTTCAATCTGTTTCCCTACTGC
76348046 TTAGGGGGTTGAGATCTGTAAA
66 TTAGGGGGTTGAGATCTGTAAA
76348068 T
1 T
76348069 CTTCAATCTG
Statistics
Matches: 235, Mismatches: 26, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
87 169 0.72
88 66 0.28
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.37
Consensus pattern (87 bp):
TTTAGCCTGTTACCCTACTGCTTAGGGGTTTAAGACTCATCACCTTCAATCTGTTTCCCTACTGC
TTAGGGGGTTGAGATCTGTAAA
Found at i:76348325 original size:88 final size:87
Alignment explanation
Indices: 76348207--76348376 Score: 225
Period size: 88 Copynumber: 1.9 Consensus size: 87
76348197 TGTAAATTTG
* ** *
76348207 GCTTGTTACCCTACTACTTAGGGGGCTAAAGCTCATTATTTTCGATCTATTTCCCTAATGCTTA-
1 GCTTGTTACCCTACTACTTAGAGGGCTAAAGCTCATTACCTTCGATCTATTCCCCTAATGCTTAT
76348271 GGGTGATAAGATCTATGAACTTCA
66 GGG-G-TAAGATCTATGAACTTCA
* * * * *
76348295 GCTTGTTACCCTACTGCTTAGAGGGTTAAAGCTCGTTGCCTTCGATCTATTCCCCTACTGCTTAT
1 GCTTGTTACCCTACTACTTAGAGGGCTAAAGCTCATTACCTTCGATCTATTCCCCTAATGCTTAT
*
76348360 GGGGTAAGATCTGTGAA
66 GGGGTAAGATCTATGAA
76348377 TTTACTGATT
Statistics
Matches: 71, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
87 12 0.17
88 56 0.79
89 3 0.04
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (87 bp):
GCTTGTTACCCTACTACTTAGAGGGCTAAAGCTCATTACCTTCGATCTATTCCCCTAATGCTTAT
GGGGTAAGATCTATGAACTTCA
Found at i:76352941 original size:19 final size:20
Alignment explanation
Indices: 76352907--76352946 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
76352897 TTAGTTCAAA
76352907 GACTACAGGAAATCTCTTCC
1 GACTACAGGAAATCTCTTCC
76352927 GACTACAGG-AATCTCTTCC
1 GACTACAGGAAATCTCTTCC
76352946 G
1 G
76352947 TAGTCCAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (20 bp):
GACTACAGGAAATCTCTTCC
Found at i:76356464 original size:19 final size:20
Alignment explanation
Indices: 76356440--76356486 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
76356430 AGAGAAAGTT
76356440 TAATGCAAATGT-TGCAATG
1 TAATGCAAATGTATGCAATG
*
76356459 TAATGCAAATGTATGGAATG
1 TAATGCAAATGTATGCAATG
76356479 -AATGCAAA
1 TAATGCAAA
76356487 AGAAAGGAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.43, C:0.09, G:0.21, T:0.28
Consensus pattern (20 bp):
TAATGCAAATGTATGCAATG
Found at i:76359138 original size:116 final size:119
Alignment explanation
Indices: 76358882--76359095 Score: 269
Period size: 119 Copynumber: 1.8 Consensus size: 119
76358872 GGATATAATG
* * *
76358882 ATAATAAGAAT-A-ATATTAAAGTAAAGTAAATAATAATACTATATATAAATATATATGTATATA
1 ATAATAAAAATAATATATTAAAGTAAAGTAAAAAACAATACTATATATAAATATATA-GTATATA
* * *
76358945 ATAGAAATACACACTACTATATAATAATAATAAATATAGAAATACAAAAAGCAAAT
65 ATAAAAATACACACTAATATATAATAATAAT-AATATAGAAATACAAAAAGAAAAT
* * *
76359001 ATAATAAAAATATTAAATTAAAGT-AA-TAAAAAACAATACTATATATAAATATATA-TATA-CA
1 ATAATAAAAATAATATATTAAAGTAAAGTAAAAAACAATACTATATATAAATATATAGTATATAA
* *
76359062 TAAAAATATACACTAATATATAATAATAGTAATA
66 TAAAAATACACACTAATATATAATAATAATAATA
76359096 GCAAAAATAA
Statistics
Matches: 83, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
115 4 0.05
116 27 0.33
117 4 0.05
119 37 0.45
120 2 0.02
121 9 0.11
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.30
Consensus pattern (119 bp):
ATAATAAAAATAATATATTAAAGTAAAGTAAAAAACAATACTATATATAAATATATAGTATATAA
TAAAAATACACACTAATATATAATAATAATAATATAGAAATACAAAAAGAAAAT
Found at i:76359208 original size:3 final size:3
Alignment explanation
Indices: 76359170--76359196 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
76359160 AATAGAGGTG
76359170 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
76359197 CAAACAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:76360542 original size:28 final size:28
Alignment explanation
Indices: 76360502--76360559 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
76360492 GTTCCGATAT
76360502 CATGGAGATGTTATTGATGCATTCATTC
1 CATGGAGATGTTATTGATGCATTCATTC
76360530 CATGGAGATGTTATTGATGCATTCATTC
1 CATGGAGATGTTATTGATGCATTCATTC
76360558 CA
1 CA
76360560 GCAAACAAAA
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:0.26, C:0.16, G:0.21, T:0.38
Consensus pattern (28 bp):
CATGGAGATGTTATTGATGCATTCATTC
Found at i:76364661 original size:3 final size:3
Alignment explanation
Indices: 76364647--76364682 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
76364637 AAAGTAGAAT
*
76364647 AGA AGA AAA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
76364683 GGGAGGGAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:76368753 original size:22 final size:21
Alignment explanation
Indices: 76368725--76368776 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
76368715 AATAGAAACG
76368725 AATAGAATTCTAGTTCTCAAAA
1 AATAGAATTCTA-TTCTCAAAA
* *
76368747 AATAGAACT-TATTCTTAAAA
1 AATAGAATTCTATTCTCAAAA
76368767 AATA-AATTCT
1 AATAGAATTCT
76368777 CACTACTTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 3 0.12
20 13 0.50
21 2 0.08
22 8 0.31
ACGTcount: A:0.48, C:0.12, G:0.06, T:0.35
Consensus pattern (21 bp):
AATAGAATTCTATTCTCAAAA
Found at i:76371679 original size:25 final size:25
Alignment explanation
Indices: 76371622--76371681 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
76371612 GAGCTGTAAA
*
76371622 CGGTAAGCTCATATAAGATGAATAT
1 CGGTAAGCTCATACAAGATGAATAT
** * *
76371647 CGACAAGCTCATACGAGTTGAATAT
1 CGGTAAGCTCATACAAGATGAATAT
76371672 CGGTAAGCTC
1 CGGTAAGCTC
76371682 TCTTGAATTG
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (25 bp):
CGGTAAGCTCATACAAGATGAATAT
Found at i:76377692 original size:12 final size:12
Alignment explanation
Indices: 76377675--76377704 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
76377665 AATAAATGTA
76377675 ACACGGCCTAGC
1 ACACGGCCTAGC
*
76377687 ACACGGCCTGGC
1 ACACGGCCTAGC
76377699 ACACGG
1 ACACGG
76377705 GCGTGTGGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.40, G:0.30, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:76377884 original size:21 final size:20
Alignment explanation
Indices: 76377844--76377886 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
76377834 CCCCTACAGC
*
76377844 TTTGAAAATTTGCAATGTTT
1 TTTGAAAATTTACAATGTTT
76377864 TTTGAAAAATTCTACAA-GTTT
1 TTTG-AAAATT-TACAATGTTT
76377885 TT
1 TT
76377887 GATTTAGTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 4 0.20
21 12 0.60
22 4 0.20
ACGTcount: A:0.33, C:0.07, G:0.12, T:0.49
Consensus pattern (20 bp):
TTTGAAAATTTACAATGTTT
Found at i:76381696 original size:17 final size:17
Alignment explanation
Indices: 76381670--76381716 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 17
76381660 TGAGAAGTAG
*
76381670 TCTTAAAAGATTTACAA
1 TCTTAGAAGATTTACAA
**
76381687 TCTTAGAAGATTTTTAA
1 TCTTAGAAGATTTACAA
76381704 TCTTAGAAGATTT
1 TCTTAGAAGATTT
76381717 GATTTCGTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.43
Consensus pattern (17 bp):
TCTTAGAAGATTTACAA
Found at i:76388323 original size:26 final size:26
Alignment explanation
Indices: 76388294--76388345 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
76388284 ACCAATGAAA
*
76388294 TCGGGGAATCAGCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
76388320 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
76388346 CTTTCACATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.35, G:0.23, T:0.13
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:76388368 original size:104 final size:103
Alignment explanation
Indices: 76388055--76388423 Score: 607
Period size: 103 Copynumber: 3.6 Consensus size: 103
76388045 TAGCCGTTAT
** *
76388055 TGGTGGATCCCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
76388120 AATCAGCACATAGCAACCCCCTTTTTATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
76388158 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
76388223 AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
76388261 TGGTGGATATCGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTC-GGG
1 TGGTGGATATCGCACTTAGCACCACCAATG-AATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
*
76388325 GAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
65 GAATCAGCACATAGCAACCCCCTTT-TCATTTCAAAGATA
* * * **
76388365 TGGTGGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
76388424 TTTATATACA
Statistics
Matches: 253, Mismatches: 10, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
103 184 0.73
104 68 0.27
105 1 0.00
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (103 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
Found at i:76388785 original size:29 final size:29
Alignment explanation
Indices: 76388752--76388815 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
76388742 TAATCCACCA
76388752 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
76388781 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
76388811 CCCAA
1 CCCAA
76388816 GCTCAGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:76388789 original size:30 final size:30
Alignment explanation
Indices: 76388759--76388815 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
76388749 CCACCCAACT
76388759 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
76388788 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
76388816 GCTCAGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:76390063 original size:49 final size:49
Alignment explanation
Indices: 76389884--76390063 Score: 159
Period size: 49 Copynumber: 3.7 Consensus size: 49
76389874 TGGGATAAGA
* * * **
76389884 TGTCGACGCCATGTCCCAAACATGGTCTTACACTGGCTAGCA-C-ATCAA
1 TGTCGATGCCATGTCCCAGACA-GGTCTTACACTGGCTATCATCTATCGG
* * * ** * *
76389932 AGTCGATGCCATGTTCCAGACATGTCTTACACTAACTTTCATATATCGAG
1 TGTCGATGCCATGTCCCAGACAGGTCTTACACTGGCTATCATCTATCG-G
* * * * * *
76389982 -GCCGATGTCGTGTCCCAGACAGGTCTTGCACTGGCTCTCATCTATTGG
1 TGTCGATGCCATGTCCCAGACAGGTCTTACACTGGCTATCATCTATCGG
76390030 TGTCGATGCCATGTCCCAGACAGGTCTTACACTG
1 TGTCGATGCCATGTCCCAGACAGGTCTTACACTG
76390064 ACACACAACA
Statistics
Matches: 101, Mismatches: 27, Indels: 7
0.75 0.20 0.05
Matches are distributed among these distances:
47 14 0.14
48 19 0.19
49 68 0.67
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (49 bp):
TGTCGATGCCATGTCCCAGACAGGTCTTACACTGGCTATCATCTATCGG
Found at i:76390230 original size:46 final size:44
Alignment explanation
Indices: 76390127--76390244 Score: 134
Period size: 45 Copynumber: 2.6 Consensus size: 44
76390117 TCTCGAGGCT
*
76390127 GATGCATGTCCCAAACATGTT-TTACACTAGCTTCGTCTCAATGTC
1 GATGCATGTCCCAGACAT-TTCTTACACTAGCTTC-TCTCAATGTC
*
76390172 AATGCATGTCCCAGACATTTCTTACACTAGCTT-TCAT-AATGTAGCC
1 GATGCATGTCCCAGACATTTCTTACACTAGCTTCTC-TCAATGT---C
*
76390218 GATGCATGTCCCAGACATGTCTTACAC
1 GATGCATGTCCCAGACATTTCTTACAC
76390245 AGCACATATA
Statistics
Matches: 64, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
43 7 0.11
44 3 0.05
45 28 0.44
46 26 0.41
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.31
Consensus pattern (44 bp):
GATGCATGTCCCAGACATTTCTTACACTAGCTTCTCTCAATGTC
Found at i:76396271 original size:24 final size:23
Alignment explanation
Indices: 76396222--76396271 Score: 55
Period size: 24 Copynumber: 2.1 Consensus size: 23
76396212 GAGTTACCTG
**
76396222 TTAAACTTAATGAGCTTCCTGTT
1 TTAAACTTAATGAGCTTCCTAAT
* *
76396245 TTAAACTCTTATGAGTTTCCTAAT
1 TTAAACT-TAATGAGCTTCCTAAT
76396269 TTA
1 TTA
76396272 GCCTAGATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
23 7 0.32
24 15 0.68
ACGTcount: A:0.28, C:0.16, G:0.10, T:0.46
Consensus pattern (23 bp):
TTAAACTTAATGAGCTTCCTAAT
Found at i:76401827 original size:26 final size:23
Alignment explanation
Indices: 76401778--76401828 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
76401768 GAATAGAATA
* *
76401778 AAGAAAAGAAGAAGGAGAAGGAG
1 AAGAAAAAAAGAAGGAGAAAGAG
76401801 AAGAAAAAAAGAGAGAGAGAAAAGAG
1 AAGAAAAAAAGA-AG-GAG-AAAGAG
76401827 AA
1 AA
76401829 TTTGGAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 11 0.48
24 2 0.09
25 3 0.13
26 7 0.30
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (23 bp):
AAGAAAAAAAGAAGGAGAAAGAG
Found at i:76402497 original size:18 final size:18
Alignment explanation
Indices: 76402453--76402497 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
76402443 AAATTAATAA
76402453 TAAAATT-AAAATAATTT
1 TAAAATTAAAAATAATTT
76402470 TAAAATTTAAAAATCAA-TT
1 TAAAA-TTAAAAAT-AATTT
76402489 TAAAATTAA
1 TAAAATTAA
76402498 GATAATAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 5 0.20
18 6 0.24
19 12 0.48
20 2 0.08
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (18 bp):
TAAAATTAAAAATAATTT
Found at i:76403240 original size:28 final size:27
Alignment explanation
Indices: 76403189--76403245 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 27
76403179 ATATTATATT
**
76403189 TATAAAATAAATCAATATTTATTAATAA
1 TATAAAATAAATCAATATAAATTAA-AA
76403217 TATAAAATATAA-CAATATAAATTAAAA
1 TATAAAATA-AATCAATATAAATTAAAA
76403244 TA
1 TA
76403246 AAATTTTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 4 0.15
28 20 0.77
29 2 0.08
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (27 bp):
TATAAAATAAATCAATATAAATTAAAA
Found at i:76410508 original size:16 final size:17
Alignment explanation
Indices: 76410487--76410524 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
76410477 TTCTATATTG
*
76410487 ATTTTACT-TTTATTTT
1 ATTTTACTATGTATTTT
76410503 ATTTTACTACTGTATTTT
1 ATTTTACTA-TGTATTTT
76410521 ATTT
1 ATTT
76410525 AAATAAGGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
18 11 0.58
ACGTcount: A:0.21, C:0.08, G:0.03, T:0.68
Consensus pattern (17 bp):
ATTTTACTATGTATTTT
Found at i:76410609 original size:29 final size:29
Alignment explanation
Indices: 76410576--76410651 Score: 143
Period size: 29 Copynumber: 2.6 Consensus size: 29
76410566 TGACACAAAT
76410576 TCTCAATGAACAAGTTCTTCATCGCGAAC
1 TCTCAATGAACAAGTTCTTCATCGCGAAC
*
76410605 TCTCAATGAACAAGTTCTTTATCGCGAAC
1 TCTCAATGAACAAGTTCTTCATCGCGAAC
76410634 TCTCAATGAACAAGTTCT
1 TCTCAATGAACAAGTTCT
76410652 CCATTTCTTC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.30
Consensus pattern (29 bp):
TCTCAATGAACAAGTTCTTCATCGCGAAC
Found at i:76420503 original size:46 final size:46
Alignment explanation
Indices: 76420438--76420663 Score: 310
Period size: 46 Copynumber: 4.9 Consensus size: 46
76420428 TTATCTTTGA
* * * *
76420438 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCTGT
* * *
76420484 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCTGT
* *
76420530 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCTGT
* *
76420576 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTC-TGT
* * *
76420622 CATGTTGTCATGATATCTTTCAACCATGGTCTTACACATTTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTT
76420664 ATTTCAGAAA
Statistics
Matches: 164, Mismatches: 14, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
45 3 0.02
46 158 0.96
47 3 0.02
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.42
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCTGT
Found at i:76420617 original size:21 final size:21
Alignment explanation
Indices: 76420593--76420662 Score: 61
Period size: 21 Copynumber: 3.1 Consensus size: 21
76420583 CCATGGTATC
76420593 TTTCAACCATGGTCTTACACA
1 TTTCAACCATGGTCTTACACA
* * *
76420614 TTTCATATCATGTTGTCATGATATC-
1 TTTCA-ACCATG--GTC-TTACA-CA
76420639 TTTCAACCATGGTCTTACACA
1 TTTCAACCATGGTCTTACACA
76420660 TTT
1 TTT
76420663 TATTTCAGAA
Statistics
Matches: 37, Mismatches: 6, Indels: 12
0.67 0.11 0.22
Matches are distributed among these distances:
20 1 0.03
21 11 0.30
22 8 0.22
24 8 0.22
25 8 0.22
26 1 0.03
ACGTcount: A:0.26, C:0.23, G:0.10, T:0.41
Consensus pattern (21 bp):
TTTCAACCATGGTCTTACACA
Found at i:76424441 original size:19 final size:19
Alignment explanation
Indices: 76424417--76424457 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
76424407 TGAGTGGACG
76424417 ATAGTGGACCTTGAATTTC
1 ATAGTGGACCTTGAATTTC
76424436 ATAGTGGACCTTGAATTTC
1 ATAGTGGACCTTGAATTTC
76424455 ATA
1 ATA
76424458 ATTTATTTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.37
Consensus pattern (19 bp):
ATAGTGGACCTTGAATTTC
Found at i:76432557 original size:20 final size:19
Alignment explanation
Indices: 76432532--76432575 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
76432522 TGGAAAATAA
*
76432532 TTTCTAAAAAATGATTTACT
1 TTTCT-AAAAATAATTTACT
*
76432552 TTTCTAGAAATAATTTACT
1 TTTCTAAAAATAATTTACT
76432571 TTTCT
1 TTTCT
76432576 GGTGTTTGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.34, C:0.11, G:0.05, T:0.50
Consensus pattern (19 bp):
TTTCTAAAAATAATTTACT
Found at i:76433971 original size:32 final size:32
Alignment explanation
Indices: 76433925--76433985 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
76433915 TGTCAATCAT
*
76433925 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCCAACAAGCATAAAACATAATAAA
*
76433957 TTCAATATCTAACAAGCATAAAACATAAT
1 TTCAATATCCAACAAGCATAAAACATAAT
76433986 CAATATCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.52, C:0.18, G:0.03, T:0.26
Consensus pattern (32 bp):
TTCAATATCCAACAAGCATAAAACATAATAAA
Found at i:76433989 original size:27 final size:30
Alignment explanation
Indices: 76433925--76433998 Score: 91
Period size: 32 Copynumber: 2.5 Consensus size: 30
76433915 TGTCAATCAT
* *
76433925 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCTAACAAGCATAAAAC--AATAAA
76433957 TTCAATATCTAACAAGCATAAAAC-AT-AA
1 TTCAATATCTAACAAGCATAAAACAATAAA
76433985 -TCAATATCTAACAA
1 TTCAATATCTAACAA
76433999 ATTCAAGACA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
27 14 0.35
28 2 0.05
29 2 0.05
32 22 0.55
ACGTcount: A:0.53, C:0.19, G:0.03, T:0.26
Consensus pattern (30 bp):
TTCAATATCTAACAAGCATAAAACAATAAA
Found at i:76436263 original size:22 final size:22
Alignment explanation
Indices: 76436210--76436263 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
76436200 GGGAAAAATT
*
76436210 TTGGCTTTTATTGAAATAAAAC
1 TTGGCTTTTGTTGAAATAAAAC
76436232 TTGGCTTTTGTTGAAATAAAAC
1 TTGGCTTTTGTTGAAATAAAAC
76436254 TTGGCTTTTG
1 TTGGCTTTTG
76436264 ATCAATGGGC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.28, C:0.09, G:0.19, T:0.44
Consensus pattern (22 bp):
TTGGCTTTTGTTGAAATAAAAC
Found at i:76445349 original size:44 final size:44
Alignment explanation
Indices: 76445299--76445384 Score: 145
Period size: 44 Copynumber: 2.0 Consensus size: 44
76445289 GAGACAAAAT
***
76445299 CTACAATCTTCAGTTTGCTCCCTTGCTACCTCAGGAAGATAATA
1 CTACAATCTTCAACCTGCTCCCTTGCTACCTCAGGAAGATAATA
76445343 CTACAATCTTCAACCTGCTCCCTTGCTACCTCAGGAAGATAA
1 CTACAATCTTCAACCTGCTCCCTTGCTACCTCAGGAAGATAA
76445385 GGCTGGTGAC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.28, C:0.30, G:0.13, T:0.29
Consensus pattern (44 bp):
CTACAATCTTCAACCTGCTCCCTTGCTACCTCAGGAAGATAATA
Found at i:76445487 original size:178 final size:177
Alignment explanation
Indices: 76445245--76445637 Score: 538
Period size: 178 Copynumber: 2.2 Consensus size: 177
76445235 TACTTCAAGG
* * * * *
76445245 AGATAAGATTCACTGTTTTTGATCTGCCCCACTGCTATCTCGAGGAGACAAAATCTACAATCTTC
1 AGATAAGATTCACCG-TATTGATTTGCTCCACTGCTAGCTCGAGGAGACAAAATCTACAATCTTC
* * *
76445310 AGT-TTGCTCCCTTGCTACCTCAGGAAGATAATACTACAATCTTCAACCTGCTCCCTTGCTACCT
65 AGTCTT-CTCCCTTGCTACCTCAGGAAGATAAGACAACAATCTTCAACCTACTCCCTTGCTACCT
* *
76445374 CAGGAAGATAAGGCTGGTGACTAAAATCTGCT-TCTCTGCTACCTCGGGA
129 CAGGAAGATAAAGCTGGTGACTAAAATCTGCTCCCT-TGCTACCTCGGGA
* **
76445423 AGATAAGATTCGCCGTATTCGATTTGCTCCACTGCTAGCTCGAGGAGACAAAATCTGTAATCTTC
1 AGATAAGATTCACCGTATT-GATTTGCTCCACTGCTAGCTCGAGGAGACAAAATCTACAATCTTC
*
76445488 AGTCTTCTCCCTTGCTACCTTAGGAAGATAAGACAACAATCTTCAACCTACTCCCTTGCTACCTC
65 AGTCTTCTCCCTTGCTACCTCAGGAAGATAAGACAACAATCTTCAACCTACTCCCTTGCTACCTC
* * * *
76445553 AGGAAGATAAAGCTGGTGGCTGAAATCTGCTCCCTTGTTACCTTGGGA
130 AGGAAGATAAAGCTGGTGACTAAAATCTGCTCCCTTGCTACCTCGGGA
* * *
76445601 AGATAAGATTCACCATCTGTGATTTGCTCCATTGCTA
1 AGATAAGATTCACCGTAT-TGATTTGCTCCACTGCTA
76445638 TTTCAGGGAA
Statistics
Matches: 189, Mismatches: 22, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
177 3 0.02
178 181 0.96
179 5 0.03
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (177 bp):
AGATAAGATTCACCGTATTGATTTGCTCCACTGCTAGCTCGAGGAGACAAAATCTACAATCTTCA
GTCTTCTCCCTTGCTACCTCAGGAAGATAAGACAACAATCTTCAACCTACTCCCTTGCTACCTCA
GGAAGATAAAGCTGGTGACTAAAATCTGCTCCCTTGCTACCTCGGGA
Found at i:76464958 original size:13 final size:13
Alignment explanation
Indices: 76464914--76464958 Score: 56
Period size: 13 Copynumber: 3.4 Consensus size: 13
76464904 ATGCCCATCT
76464914 CAGATACAGATA-A
1 CAGAT-CAGATATA
*
76464927 CAGAATCAGATGTA
1 CAG-ATCAGATATA
76464941 CAGATCAGATATA
1 CAGATCAGATATA
76464954 CAGAT
1 CAGAT
76464959 TCCTACCCCT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 22 0.79
14 6 0.21
ACGTcount: A:0.47, C:0.16, G:0.18, T:0.20
Consensus pattern (13 bp):
CAGATCAGATATA
Found at i:76469640 original size:43 final size:44
Alignment explanation
Indices: 76469592--76469680 Score: 110
Period size: 43 Copynumber: 2.0 Consensus size: 44
76469582 GAAGTGTAGT
*
76469592 TGTTATAGAA-AAAGTTGACTGTATA-CTTGAATTATCTAATGGC
1 TGTTATA-AAGAAAGTTGACTATATAGCTTGAATTATCTAATGGC
* * *
76469635 TGTTATAAAGAAGGTTGATTATATATGCTTGAATTTTCTAATGGC
1 TGTTATAAAGAAAGTTGACTATATA-GCTTGAATTATCTAATGGC
76469680 T
1 T
76469681 ACATTTTTCT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
42 2 0.05
43 19 0.49
45 18 0.46
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.40
Consensus pattern (44 bp):
TGTTATAAAGAAAGTTGACTATATAGCTTGAATTATCTAATGGC
Found at i:76470210 original size:21 final size:23
Alignment explanation
Indices: 76470175--76470216 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
76470165 TCATTCATGT
76470175 TAAACATTTGAAACAAATAAATC
1 TAAACATTTGAAACAAATAAATC
*
76470198 TAAAC-TTT-AAACACATAAA
1 TAAACATTTGAAACAAATAAA
76470217 AGTGTTTCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
22 3 0.17
23 5 0.28
ACGTcount: A:0.57, C:0.14, G:0.02, T:0.26
Consensus pattern (23 bp):
TAAACATTTGAAACAAATAAATC
Found at i:76477290 original size:26 final size:26
Alignment explanation
Indices: 76477261--76477368 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
76477251 TGGTACAAAT
76477261 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
76477287 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
76477313 TGATAATGGGTTAGATAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
76477339 TGATAATGAGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
76477365 TGAT
1 TGAT
76477369 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:76482217 original size:45 final size:45
Alignment explanation
Indices: 76482166--76482255 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
76482156 ATAGGTTTGA
76482166 TATTTTGATTATATATATGTTGATATTTAAGATTCATGTTAATAT
1 TATTTTGATTATATATATGTTGATATTTAAGATTCATGTTAATAT
*
76482211 TATTTTGATTATATATATGTTGATATTTGAGATTCATGTTAATAT
1 TATTTTGATTATATATATGTTGATATTTAAGATTCATGTTAATAT
76482256 GTTTGAGTAT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.32, C:0.02, G:0.12, T:0.53
Consensus pattern (45 bp):
TATTTTGATTATATATATGTTGATATTTAAGATTCATGTTAATAT
Found at i:76486206 original size:20 final size:20
Alignment explanation
Indices: 76486167--76486220 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 20
76486157 TTTTCTACTA
*
76486167 AAAC-TTATCATTTGATAACC
1 AAACATTATCATAT-ATAACC
76486187 ATAACA-TATCATATATAACC
1 A-AACATTATCATATATAACC
*
76486207 AACCATTATCATAT
1 AAACATTATCATAT
76486221 TACAACATCA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
19 3 0.10
20 16 0.55
21 10 0.34
ACGTcount: A:0.44, C:0.20, G:0.02, T:0.33
Consensus pattern (20 bp):
AAACATTATCATATATAACC
Found at i:76487835 original size:5 final size:5
Alignment explanation
Indices: 76487817--76487910 Score: 170
Period size: 5 Copynumber: 18.4 Consensus size: 5
76487807 TTTACTTAAT
76487817 TATAA TAGTAA TATAA TATAA TAATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TA-TAA TATAA TATAA T-ATAA TATAA TATAA TATAA TATAA TATAA
76487869 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TA
76487911 ATATTTTCTT
Statistics
Matches: 87, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
5 77 0.89
6 10 0.11
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (5 bp):
TATAA
Found at i:76488115 original size:20 final size:20
Alignment explanation
Indices: 76488088--76488139 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
76488078 TAATCCTTAT
**
76488088 ACCTAATTAACCTTAATTTAA
1 ACCTAATTAACC-TAATCAAA
*
76488109 A-CTAATTCACCTAATCAAA
1 ACCTAATTAACCTAATCAAA
76488128 ACCTAATTAACC
1 ACCTAATTAACC
76488140 ACACAATAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 7 0.27
20 18 0.69
21 1 0.04
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (20 bp):
ACCTAATTAACCTAATCAAA
Found at i:76493239 original size:12 final size:13
Alignment explanation
Indices: 76493222--76493254 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
76493212 GTTTCATACG
76493222 TTTAAATAG-TGT
1 TTTAAATAGTTGT
*
76493234 TTTAAATTGTTGT
1 TTTAAATAGTTGT
76493247 TTTAAATA
1 TTTAAATA
76493255 CTATCATGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 8 0.44
13 10 0.56
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (13 bp):
TTTAAATAGTTGT
Found at i:76493373 original size:29 final size:29
Alignment explanation
Indices: 76493326--76493764 Score: 472
Period size: 29 Copynumber: 15.1 Consensus size: 29
76493316 ATCGATTAAA
* ** *
76493326 GAAAAGGGATAGTTTCGACTATC-AACTAT
1 GAAAAGGGATGGTGACGACCATCGAA-TAT
*
76493355 GAAAAGGGGTGGTGACGACCATC-AACTAT
1 GAAAAGGGATGGTGACGACCATCGAA-TAT
* **
76493384 GAAAAGGGATCGTGACCTCCATCGAATAT
1 GAAAAGGGATGGTGACGACCATCGAATAT
*
76493413 GAAAAGGGATGGTGACGACCTTCGAATAT
1 GAAAAGGGATGGTGACGACCATCGAATAT
* *
76493442 CAAAAGGGATGGTGACAACCATCGAATAT
1 GAAAAGGGATGGTGACGACCATCGAATAT
* * *
76493471 AAAAAGAGATGGTGACGACTATCGAATAT
1 GAAAAGGGATGGTGACGACCATCGAATAT
*
76493500 GAAAAGGGATGGTGACAACCATCGAATAT
1 GAAAAGGGATGGTGACGACCATCGAATAT
*
76493529 GAAAAGGGATGGTGACGACCATCGACTAT
1 GAAAAGGGATGGTGACGACCATCGAATAT
* ** *
76493558 GAAAAGGGATAGTTTCGACTATC-AACTAT
1 GAAAAGGGATGGTGACGACCATCGAA-TAT
* ** * *
76493587 GAAAAGGGATAGTTTCGACTATCGACTAT
1 GAAAAGGGATGGTGACGACCATCGAATAT
* *** * * *
76493616 GAAAAGGGATAGTTTTGACTATTGACTAT
1 GAAAAGGGATGGTGACGACCATCGAATAT
*
76493645 GAAAAGGGATGGTGACGACCATCGATTAAT
1 GAAAAGGGATGGTGACGACCATCGAAT-AT
*
76493675 GAAAAGGGATGGT-TCTGACCATCGAATAT
1 GAAAAGGGATGGTGAC-GACCATCGAATAT
**
76493704 GAAAAGGGATGGTTTCGACCATCGAATAT
1 GAAAAGGGATGGTGACGACCATCGAATAT
*
76493733 GAAAAGGGATGGTGACGACTATCGAATAT
1 GAAAAGGGATGGTGACGACCATCGAATAT
76493762 GAA
1 GAA
76493765 CCATCGAATA
Statistics
Matches: 358, Mismatches: 46, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
28 1 0.00
29 327 0.91
30 30 0.08
ACGTcount: A:0.37, C:0.14, G:0.27, T:0.22
Consensus pattern (29 bp):
GAAAAGGGATGGTGACGACCATCGAATAT
Found at i:76495100 original size:16 final size:17
Alignment explanation
Indices: 76495075--76495107 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
76495065 AAAAGGGTTG
76495075 AAGTAATAAAT-AAATA
1 AAGTAATAAATGAAATA
*
76495091 AAGTATTAAATGAAATA
1 AAGTAATAAATGAAATA
76495108 TTAAATAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.27
Consensus pattern (17 bp):
AAGTAATAAATGAAATA
Found at i:76496702 original size:44 final size:44
Alignment explanation
Indices: 76496581--76497214 Score: 335
Period size: 44 Copynumber: 14.0 Consensus size: 44
76496571 GATCTGTGAC
* *
76496581 TTATAGCTTTAATCTGAC-CCACTGCAACTTCAAGGAGATGAGAT
1 TTATAGCTTTAATCTG-CTCCACTGCAACTTCAGGGAGATAAGAT
* * * * * *
76496625 TCACTATCTTCAATCTACTCCACTGCTACTTCAGGGAGATAAGGT
1 TTA-TAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
* * * *
76496670 TTATAGCTTTAATTTGCTCTACTGCAACTTCAGAGAGAGAAGATT
1 TTATAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-T
* ** * * * *
76496715 TTCTTTCTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGAC
1 TTATAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
* * * * *
76496759 TTGTTGCTTTAATCTGTTCCACTGTAACTTCAAGGAGATAAGAT
1 TTATAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
** * * * *
76496803 TCGTGGCTTTAATCTTCTCCACTGTAACTTCAGGGAGACAAGAT
1 TTATAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
** ** * *
76496847 TCGT-GACTTTAATCTGCTCCACTATAACTTTAGAGAGATAAGAT
1 TTATAG-CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
*** * * * *
76496891 TCGCCA-TTTTCAATCTACTCCACTGCAACTTCAGGGAGTTGAGAT
1 T-TATAGCTTT-AATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
** * * * * * *
76496936 TCGTAACTTCAACCTGTTCCACTGCAACTTCAAGGAGATAAGGT
1 TTATAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
* * * * *
76496980 TTATGGCTTTAATCTACTCCACTGAAACTTCAAGGAGAAAAGAT
1 TTATAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
* *
76497024 TCGCCATGATAACTTCAAT-TCGC-CCTACTGCAACTTCAGGG-GTATAAGATT
1 T-----T-ATAGCTTTAATCT-GCTCC-ACTGCAACTTCAGGGAG-ATAAGA-T
* * * * * *
76497075 TGTAACTTGTAGCTTAAATCAGTTCCACTACAACTTTAGGGAAATAAGAT
1 T-T-A----TAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
*** * * * * * * *
76497125 CCGCTATCTTCAACCTGCTCCACTACAACTTCAGGAATATAAGGT
1 -TTATAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
* *
76497170 TAATGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
1 TTATAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
76497214 T
1 T
76497215 GGCTGTGGTT
Statistics
Matches: 442, Mismatches: 122, Indels: 52
0.72 0.20 0.08
Matches are distributed among these distances:
43 1 0.00
44 244 0.55
45 130 0.29
47 2 0.00
49 5 0.01
50 28 0.06
51 30 0.07
52 2 0.00
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.31
Consensus pattern (44 bp):
TTATAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
Found at i:76496857 original size:88 final size:88
Alignment explanation
Indices: 76496587--76497026 Score: 370
Period size: 89 Copynumber: 5.0 Consensus size: 88
76496577 TGACTTATAG
** * * * ** * *
76496587 CTTTAATCTGACCCACTGCAACTTCAAGGAGATGAGATTCACTATCTTCAATCTACTCCACTGCT
1 CTTTAATCTGTTCCACTGTAACTTCAAGGAGATAAGATTC-GTGGCTTTAATCTACTCCACTGCA
* **
76496652 ACTTCAGGGAGATAAGGTTTAT-A
65 ACTTCAGGGAGATAAGATTCGTGA
* * * * * ** * *
76496675 GCTTTAATTTGCTCTACTGCAACTTC-AGAGAGAGAAGATTTTC-TTTCTTCAGTCTACTCCACT
1 -CTTTAATCTGTTCCACTGTAACTTCAAG-GAGATAAGA--TTCGTGGCTTTAATCTACTCCACT
76496738 GCAACTTCAGGGAGATAAGACTT-GTTG-
62 GCAACTTCAGGGAGATAAGA-TTCG-TGA
* *
76496765 CTTTAATCTGTTCCACTGTAACTTCAAGGAGATAAGATTCGTGGCTTTAATCTTCTCCACTGTAA
1 CTTTAATCTGTTCCACTGTAACTTCAAGGAGATAAGATTCGTGGCTTTAATCTACTCCACTGCAA
*
76496830 CTTCAGGGAGACAAGATTCGTGA
66 CTTCAGGGAGATAAGATTCGTGA
* * * ****
76496853 CTTTAATCTGCTCCACTATAACTT-TAGAGAGATAAGATTCGCCATTTTCAATCTACTCCACTGC
1 CTTTAATCTGTTCCACTGTAACTTCAAG-GAGATAAGATTCGTGGCTTT-AATCTACTCCACTGC
* * *
76496917 AACTTCAGGGAGTTGAGATTCGTAA
64 AACTTCAGGGAGATAAGATTCGTGA
* * * * ** *
76496942 CTTCAACCTGTTCCACTGCAACTTCAAGGAGATAAGGTTTATGGCTTTAATCTACTCCACTGAAA
1 CTTTAATCTGTTCCACTGTAACTTCAAGGAGATAAGATTCGTGGCTTTAATCTACTCCACTGCAA
* *
76497007 CTTCAAGGAGAAAAGATTCG
66 CTTCAGGGAGATAAGATTCG
76497027 CCATGATAAC
Statistics
Matches: 284, Mismatches: 54, Indels: 27
0.78 0.15 0.07
Matches are distributed among these distances:
87 9 0.03
88 106 0.37
89 159 0.56
90 7 0.02
91 3 0.01
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (88 bp):
CTTTAATCTGTTCCACTGTAACTTCAAGGAGATAAGATTCGTGGCTTTAATCTACTCCACTGCAA
CTTCAGGGAGATAAGATTCGTGA
Found at i:76496884 original size:177 final size:177
Alignment explanation
Indices: 76496584--76497026 Score: 507
Period size: 177 Copynumber: 2.5 Consensus size: 177
76496574 CTGTGACTTA
** * ** *
76496584 TAGCTTTAATCTGACCCACTGCAACTTCAAGGAGATGAGATTCACTATCTTCAATCTACTCCACT
1 TAGCTTTAATCTGTTCCACTGCAACTTCAAGGAGATAAGATTCA-TGGCTTTAATCTACTCCACT
* * ** * * *
76496649 GCT-ACTTCAGGGAGATAAGGTTTATAGCTTTAATTTGCTCTACTGCAACTTCAGAGAGAGAAGA
65 G-TAACTTCAGGGAGAAAAGATTCGTAGCTTTAATCTGCTCCACTACAACTTCAGAGAGAGAAGA
** * *
76496713 TT-TTCTTTCTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTT-G
129 TTCGCCATT-TTCAATCTACTCCACTGCAACTTCAGGGAGATAAGA-TTCG
* * * *
76496762 TTGCTTTAATCTGTTCCACTGTAACTTCAAGGAGATAAGATTCGTGGCTTTAATCTTCTCCACTG
1 TAGCTTTAATCTGTTCCACTGCAACTTCAAGGAGATAAGATTCATGGCTTTAATCTACTCCACTG
* * * *
76496827 TAACTTCAGGGAGACAAGATTCGT-GACTTTAATCTGCTCCACTATAACTTTAGAGAGATAAGAT
66 TAACTTCAGGGAGAAAAGATTCGTAG-CTTTAATCTGCTCCACTACAACTTCAGAGAGAGAAGAT
* *
76496891 TCGCCATTTTCAATCTACTCCACTGCAACTTCAGGGAGTTGAGATTCG
130 TCGCCATTTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTCG
* * * * *
76496939 TAACTTCAACCTGTTCCACTGCAACTTCAAGGAGATAAGGTTTATGGCTTTAATCTACTCCACTG
1 TAGCTTTAATCTGTTCCACTGCAACTTCAAGGAGATAAGATTCATGGCTTTAATCTACTCCACTG
* *
76497004 AAACTTCAAGGAGAAAAGATTCG
66 TAACTTCAGGGAGAAAAGATTCG
76497027 CCATGATAAC
Statistics
Matches: 223, Mismatches: 38, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
176 4 0.02
177 178 0.80
178 41 0.18
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.32
Consensus pattern (177 bp):
TAGCTTTAATCTGTTCCACTGCAACTTCAAGGAGATAAGATTCATGGCTTTAATCTACTCCACTG
TAACTTCAGGGAGAAAAGATTCGTAGCTTTAATCTGCTCCACTACAACTTCAGAGAGAGAAGATT
CGCCATTTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTCG
Found at i:76496906 original size:133 final size:133
Alignment explanation
Indices: 76496587--76497030 Score: 319
Period size: 133 Copynumber: 3.3 Consensus size: 133
76496577 TGACTTATAG
* ** * * *
76496587 CTTTAATCTGAC-CCACTGCAACTTCAAGGAGATGAGATTCACTATCTTCAATCTACTCCACTGC
1 CTTTAATCT-ACTCCACTGAAACTTCAAGGAGAAAAGATTCGCCATTTTCAATCTACTCCACTGC
* * * ** * * ** * * *
76496651 TACTTCAGGGAGATAAGGTTTATAGCTTTAATTTGCTCTACTGCAACTTC-AGAGAGAGAAGATT
65 AACTTCAAGGAGATAAGATTCGTAACTTCAACCTGTTCCACTGCAACTTCAAG-GAGACAAGA--
**
76496715 TTC-TTT
127 TTCATGA
* * * * * **** ** *
76496721 CTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTT-GTTGCTTT-AATCTGTTCCACTGT
1 CTTTAATCTACTCCACTGAAACTTCAAGGAGAAAAGA-TTCGCCATTTTCAATCTACTCCACTGC
** * * * *
76496784 AACTTCAAGGAGATAAGATTCGTGGCTTTAATCT-TCTCCACTGTAACTTCAGGGAGACAAGATT
65 AACTTCAAGGAGATAAGATTCGTAACTTCAACCTGT-TCCACTGCAACTTCAAGGAGACAAGATT
*
76496848 CGTGA
129 CATGA
* * *
76496853 CTTTAATCTGCTCCACT-ATAACTT-TAGAGAGATAAGATTCGCCATTTTCAATCTACTCCACTG
1 CTTTAATCTACTCCACTGA-AACTTCAAG-GAGAAAAGATTCGCCATTTTCAATCTACTCCACTG
* * * * *
76496916 CAACTTCAGGGAGTTGAGATTCGTAACTTCAACCTGTTCCACTGCAACTTCAAGGAGATAAGGTT
64 CAACTTCAAGGAGATAAGATTCGTAACTTCAACCTGTTCCACTGCAACTTCAAGGAGACAAGATT
* *
76496981 TATGG
129 CATGA
76496986 CTTTAATCTACTCCACTGAAACTTCAAGGAGAAAAGATTCGCCAT
1 CTTTAATCTACTCCACTGAAACTTCAAGGAGAAAAGATTCGCCAT
76497031 GATAACTTCA
Statistics
Matches: 242, Mismatches: 56, Indels: 25
0.75 0.17 0.08
Matches are distributed among these distances:
131 6 0.02
132 33 0.14
133 163 0.67
134 38 0.16
135 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (133 bp):
CTTTAATCTACTCCACTGAAACTTCAAGGAGAAAAGATTCGCCATTTTCAATCTACTCCACTGCA
ACTTCAAGGAGATAAGATTCGTAACTTCAACCTGTTCCACTGCAACTTCAAGGAGACAAGATTCA
TGA
Found at i:76502495 original size:22 final size:20
Alignment explanation
Indices: 76502460--76502500 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
76502450 TATATATGAA
*
76502460 AACATTAAAAATATGTACAT
1 AACATTAAAAATATATACAT
76502480 AACATATATAAAATATATACA
1 AACAT-TA-AAAATATATACA
76502501 ATATATACCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 2 0.11
22 11 0.61
ACGTcount: A:0.59, C:0.10, G:0.02, T:0.29
Consensus pattern (20 bp):
AACATTAAAAATATATACAT
Found at i:76502681 original size:23 final size:23
Alignment explanation
Indices: 76502651--76502698 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
76502641 CTGACAATAT
76502651 TAAAATAT-AT-ACATAACAACATA
1 TAAAATATAATAACA-AA-AACATA
76502674 TAAAATATAATAACAAAAACATA
1 TAAAATATAATAACAAAAACATA
76502697 TA
1 TA
76502699 TGCATAATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 16 0.70
24 4 0.17
25 3 0.13
ACGTcount: A:0.65, C:0.10, G:0.00, T:0.25
Consensus pattern (23 bp):
TAAAATATAATAACAAAAACATA
Found at i:76504766 original size:13 final size:13
Alignment explanation
Indices: 76504738--76504772 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
76504728 TGAGTTGATT
76504738 TTTGAAAACAGAA
1 TTTGAAAACAGAA
*
76504751 TTTGCAAAACAGAT
1 TTTG-AAAACAGAA
76504765 TTTGAAAA
1 TTTGAAAA
76504773 TACCTCGGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.49, C:0.09, G:0.14, T:0.29
Consensus pattern (13 bp):
TTTGAAAACAGAA
Found at i:76505107 original size:89 final size:86
Alignment explanation
Indices: 76504704--76505111 Score: 482
Period size: 89 Copynumber: 4.6 Consensus size: 86
76504694 CATTTCTCAA
* * * * **
76504704 AGGCTCAACTCACTTCTTGCAATATGAGTTGATTTTTGAAAACAGAATTTGCAAAACAGATTTTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAAACAGAAATTG
*
76504769 AAAATACCTCGGCATGTGACCC-G
66 AAAATACCTCAGC--GTG-CCCTG
* * * **
76504792 AGGCTCAACTCACCTCTCGTAATATGAGTTGATTCTTGAAAAGCATAAATTGAAAAAACATTAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA-CAGAAATTG-AAAAACAGAAAT
76504857 TGAAAATACCTCAGCGTG-CCTCG
64 TGAAAATACCTCAGCGTGCCCT-G
*
76504880 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGACGAACAGAAATTGAAAAACAGAAATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-AAACAGAAATTGAAAAACAGAAATT
*
76504944 -AAAATTACCTCAGCGTGTCCTG
65 GAAAA-TACCTCAGCGTGCCCTG
* * *
76504966 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAGAGCAGAAATTGGAAAGCAGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAA-AACAGAAATTGAAAAACAGAAA
*
76505031 TCGAAAATACCTCAGCGTGCCCTG
63 TTGAAAATACCTCAGCGTGCCCTG
* *
76505055 AGGCTCAACTCACCTCTCGCAATAGGAGTTGATTTTTTTGACAAACATAAATTGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGA-AAACAGAAATTGAAA
76505112 TTACCTCAGC
Statistics
Matches: 279, Mismatches: 28, Indels: 25
0.84 0.08 0.08
Matches are distributed among these distances:
85 4 0.01
86 58 0.21
87 16 0.06
88 75 0.27
89 100 0.36
90 26 0.09
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (86 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAAACAGAAATTG
AAAATACCTCAGCGTGCCCTG
Found at i:76505165 original size:75 final size:75
Alignment explanation
Indices: 76505028--76505170 Score: 232
Period size: 75 Copynumber: 1.9 Consensus size: 75
76505018 TGGAAAGCAG
* *
76505028 AAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATAGGAGTTGATTTTTT
1 AAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATAGGAGCTAATTTTTT
76505093 TGACAAACAT
66 TGACAAACAT
* * * *
76505103 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTAATTTTTT
1 AAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATAGGAGCTAATTTTTT
76505168 TGA
66 TGA
76505171 GAAGAGGAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
75 62 1.00
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.29
Consensus pattern (75 bp):
AAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATAGGAGCTAATTTTTT
TGACAAACAT
Found at i:76505345 original size:250 final size:242
Alignment explanation
Indices: 76504847--76505714 Score: 841
Period size: 224 Copynumber: 3.6 Consensus size: 242
76504837 TAAATTGAAA
*
76504847 AAACATTAATTGAAAATACCTCAGCGTG-CCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAACATAAATTGAAAATACCTCAGCGTGTCCT-GAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
76504911 A---TTTTGACGAACAGAAATTGAAAAACAGAAATT-AAAATTACCTCAGCGTGTCCTGAGGCTC
65 ATTTTTTTGA-GAA-AGAAATT-AAAAA-A-CAATTGAAAA-TACCTCAGCGTGTCCTGAGGCTC
* * *
76504972 AACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAGAGCAGAAATTGGAAAGCAGAAATCGAAA
124 AACTCACCTCTCGCAATATGAGTTGA--TTTTTGAA-A-CATAAATTGAAAAACAGAAATCGAAA
* *
76505037 ATACCTCAGCGTG-CCCTGAGGCTCAACTCACCTCTCGCAATAGGAGTTGATTTTTTTGAC
185 ATACCTCAGCATGTCCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAC
* * *
76505097 AAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTAA
1 AAACATAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* *
76505162 TTTTTTTGAGAAGAGGAAATTTAAAAAACATCTATTGAAAATACCTCGGCGTATGACCTGAGGCT
66 TTTTTTTGAGAA-A-GAAA-TTAAAAAACA---ATTGAAAATACCTCAGCG--TGTCCTGAGGCT
* * *
76505227 TAACTCACCTCTCACAATATGAGTTGATTTTTGAAACATAAATTGAAAAACAGAAATCAAAAATA
123 CAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAAAACAGAAATCGAAAATA
* *
76505292 CCTCAGCATGTCCCGAGGCTCAACTCACTTCCCGCAATATGAGTTGATTTTTGAC
188 CCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAC
* * * * * * *
76505347 AAATAGT-AATTGAAAATACCGCAACGTGCCCCGAGGCTCAACTCACCTCTAGCAATAGGAGTTG
1 AAACA-TAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
** * * *
76505411 A--TTTTT--G-AA-AAA-TCCAAAA-AATTGACAATACCTCAGCGTGTCCCGAGACTCAACTCA
65 ATTTTTTTGAGAAAGAAATTAAAAAACAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCA
* * * * *
76505468 TCTCTTGCAATATGAGTTGATTTTT------TTAA---AAAAA-AGAATTTGAAAATACCTCAGC
130 CCTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAAAACAGAAATCGAAAATACCTCAGC
* ** *
76505523 ATGTCCTGAGGCTCAACTCACCTCTTACAATATGAGTTGATTTTTGAA
195 ATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAC
* * *
76505571 AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGTAATATGAGTTGA
1 AAACATAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
** * * ** * *
76505636 --TTTTT--G-AA-AAA--AGCAGA-AATTAAAAATACCTCAATGTGTCTTGAGGCTCGACTCAC
66 TTTTTTTGAGAAAGAAATTAAAAAACAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCAC
*
76505692 CTCTCGCAATATGAGTTGGTTTT
131 CTCTCGCAATATGAGTTGATTTT
76505715 GACAAACAGA
Statistics
Matches: 529, Mismatches: 74, Indels: 57
0.80 0.11 0.09
Matches are distributed among these distances:
223 53 0.10
224 125 0.24
225 5 0.01
228 3 0.01
234 37 0.07
236 16 0.03
239 1 0.00
240 5 0.01
242 3 0.01
244 1 0.00
245 1 0.00
246 1 0.00
248 5 0.01
250 118 0.22
251 5 0.01
252 69 0.13
253 19 0.04
254 22 0.04
255 4 0.01
256 36 0.07
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (242 bp):
AAACATAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
TTTTTTTGAGAAAGAAATTAAAAAACAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCAC
CTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAAAACAGAAATCGAAAATACCTCAGCA
TGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAC
Found at i:76505409 original size:73 final size:73
Alignment explanation
Indices: 76505269--76505726 Score: 522
Period size: 73 Copynumber: 6.2 Consensus size: 73
76505259 GAAACATAAA
** * * *
76505269 TTGAAAAACAGAAATCAAAAATACCTCAGCATGTCCCGAGGCTCAACTCACTTCCCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
76505334 GTTGATTT
66 GTTGATTT
* * * * * * * *
76505342 TTGACAAATAGTAATTGAAAATACCGCAACGTGCCCCGAGGCTCAACTCACCTCTAGCAATAGGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
76505407 GTTGATTT
66 GTTGATTT
* * * * *
76505415 TTGAAAAATCCAAAAAATTGACAATACCTCAGCGTGTCCCGAGACTCAACTCATCTCTTGCAATA
1 TTGAAAAA--C-AGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATA
76505480 TGAGTTGATTTTT
63 TGAGTTGA--TTT
* * * * * **
76505493 TTAAAAAAAAGAATTTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTTACAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
76505558 GTTGATTT
66 GTTGATTT
* * *
76505566 TTGAAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGTAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
76505631 GTTGATTT
66 GTTGATTT
* ** ** *
76505639 TTGAAAAAAGCAGAAATTAAAAATACCTCAATGTGTCTTGAGGCTCGACTCACCTCTCGCAATAT
1 TTG-AAAAA-CAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATAT
*
76505704 GAGTTG-GTT
64 GAGTTGATTT
*
76505713 TTGACAAACAGAAA
1 TTGAAAAACAGAAA
76505727 CAGAAATAGA
Statistics
Matches: 326, Mismatches: 52, Indels: 15
0.83 0.13 0.04
Matches are distributed among these distances:
72 6 0.02
73 142 0.44
74 10 0.03
75 107 0.33
76 51 0.16
78 10 0.03
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (73 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTT
Found at i:76505548 original size:75 final size:74
Alignment explanation
Indices: 76505272--76505793 Score: 485
Period size: 73 Copynumber: 6.9 Consensus size: 74
76505262 ACATAAATTG
* ** * * * *
76505272 AAAAACAGAAATCAAAAATACCTCAGCATGTCCCGAGGCTCAACTCACTTCCCGCAATATGAGTT
1 AAAAAAAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
76505337 GA-TTTTTG
66 GATTTTTTA
* * * * * * * * *
76505345 ACAAATAGTAATTGAAAATACCGCAACGTGCCCCGAGGCTCAACTCACCTCTAGCAATAGGAGTT
1 AAAAAAAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
76505410 GATTTTTGA
66 GATTTTTTA
* * * * *
76505419 AAAATCCAAA-AAATTGACAATACCTCAGCGTGTCCCGAGACTCAACTCATCTCTTGCAATATGA
1 AAAA---AAAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
76505483 GTTGATTTTTTTA
63 GTTGA-TTTTTTA
* * **
76505496 AAAAAAAGAATTTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTTACAATATGAGTT
1 AAAAAAAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
76505561 GA-TTTTTG
66 GATTTTTTA
* * *
76505569 AAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGTAATATGAGTT
1 AAAAAAAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
76505634 GATTTTTGA
66 GATTTTTTA
* * ** * *
76505643 AAAAAGCAGAAATTAAAAATACCTCAATGTGTCTTGAGGCTCGACTCACCTCTCGCAATATGAGT
1 AAAAA-AAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* **
76505708 TGGTTTTGACA
65 TGATTTT-TTA
* ** * * *
76505719 AACAGAAACAGAAATAGAAAATACCTCAGCACGTGAGCTGAGGGTCAACTCA-CTTTCCGCACTA
1 AA-A-AAA-AGAAATTGAAAATACCTCAG--CGTGTCCTGAGGCTCAACTCACCTCT-CGCAATA
76505783 TGAGTTGATTT
60 TGAGTTGATTT
76505794 AAAAAATAGA
Statistics
Matches: 367, Mismatches: 67, Indels: 23
0.80 0.15 0.05
Matches are distributed among these distances:
73 119 0.32
74 19 0.05
75 110 0.30
76 53 0.14
77 13 0.04
78 19 0.05
79 3 0.01
80 31 0.08
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.27
Consensus pattern (74 bp):
AAAAAAAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTTA
Found at i:76510834 original size:40 final size:40
Alignment explanation
Indices: 76510789--76510980 Score: 217
Period size: 40 Copynumber: 4.8 Consensus size: 40
76510779 ATAACCACAA
* * *
76510789 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
76510829 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
76510869 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* * * * * *
76510909 GCATAAATGCCTTTGGGACTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* *
76510949 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
76510981 CATTCAAATG
Statistics
Matches: 140, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 135 0.96
41 4 0.03
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:76510873 original size:80 final size:80
Alignment explanation
Indices: 76510760--76510979 Score: 239
Period size: 80 Copynumber: 2.8 Consensus size: 80
76510750 ACCCAAGTTT
* * * * * * * * *
76510760 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAG
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAG
*
76510823 CAACTCGCACAAATGC
66 C-ACTAGCACAAATGC
* * *
76510839 CTTCGGGTCTTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAA
1 CTTCGGGACTTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAA
* *
76510903 TCACTAGCATAAATGC
65 GCACTAGCACAAATGC
* * *
76510919 CTTTGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATA
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATA
76510980 TCATTCAAAT
Statistics
Matches: 116, Mismatches: 21, Indels: 7
0.81 0.15 0.05
Matches are distributed among these distances:
79 12 0.10
80 97 0.84
81 7 0.06
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAG
CACTAGCACAAATGC
Found at i:76518947 original size:40 final size:40
Alignment explanation
Indices: 76518902--76519093 Score: 192
Period size: 40 Copynumber: 4.8 Consensus size: 40
76518892 ATAACCACAA
*
76518902 GCACAATTGCCTTCGGGTCTTAACCCTGG-TATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCC-GGATATAGCAACTC
* *
76518942 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* * *
76518982 GCACAAATGCCTTCGGGTCTTAACCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGAT-ATAGCAACTC
* * * * * * *
76519022 GCATAAATACCTTCGGGACTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGAT-ATAGCAACTC
* * *
76519062 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAT
76519094 CATTCAAATG
Statistics
Matches: 138, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 3 0.02
40 131 0.95
41 4 0.03
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
Found at i:76518986 original size:80 final size:79
Alignment explanation
Indices: 76518873--76519092 Score: 230
Period size: 80 Copynumber: 2.8 Consensus size: 79
76518863 ACCCAAGTTT
* * * * * * * *
76518873 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCTGG-TATAG
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAACCC-GGATAAAA
* *
76518936 CAACTCGCACAAATGC
65 C-ACTAGCACAAATAC
* * *
76518952 CTTCGGGTCTTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAACCCGGATAAAA
1 CTTCGGGACTTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAACCCGGATAAAA
*
76519016 TCACTAGCATAAATAC
65 -CACTAGCACAAATAC
* * *
76519032 CTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATA
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAACCCGGATA
76519093 TCATTCAAAT
Statistics
Matches: 116, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
79 14 0.12
80 97 0.84
81 5 0.04
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (79 bp):
CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAACCCGGATAAAAC
ACTAGCACAAATAC
Found at i:76529846 original size:22 final size:20
Alignment explanation
Indices: 76529811--76529851 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
76529801 TATATATGAA
*
76529811 AACATTAAAAATATGTACAT
1 AACATTAAAAATATATACAT
76529831 AACATATATAAAATATATACA
1 AACAT-TA-AAAATATATACA
76529852 ATATATACCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 2 0.11
22 11 0.61
ACGTcount: A:0.59, C:0.10, G:0.02, T:0.29
Consensus pattern (20 bp):
AACATTAAAAATATATACAT
Found at i:76530025 original size:24 final size:24
Alignment explanation
Indices: 76529998--76530050 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
76529988 ATAGCTGACA
*
76529998 ATATTAAAATAT-AT-ACATAACAAC
1 ATATAAAAATATGATAACA-AA-AAC
76530022 ATATAAAAATATGATAACAAAAAC
1 ATATAAAAATATGATAACAAAAAC
76530046 ATATA
1 ATATA
76530051 TGCATAATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 19 0.73
25 4 0.15
26 3 0.12
ACGTcount: A:0.62, C:0.09, G:0.02, T:0.26
Consensus pattern (24 bp):
ATATAAAAATATGATAACAAAAAC
Found at i:76536085 original size:3 final size:3
Alignment explanation
Indices: 76536077--76536133 Score: 71
Period size: 3 Copynumber: 19.0 Consensus size: 3
76536067 AATATGCAGG
* * *
76536077 AAT AAT AAT AAC AAT AAT GAA- AAT GAC AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT
76536122 AAT AAT AAT AAT
1 AAT AAT AAT AAT
76536134 GAATGAATGA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
2 2 0.04
3 42 0.91
4 2 0.04
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:76552293 original size:61 final size:59
Alignment explanation
Indices: 76552223--76552400 Score: 150
Period size: 61 Copynumber: 2.9 Consensus size: 59
76552213 TTGTTAAATT
*
76552223 ATATTTAATAATAATTATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGA
1 ATATTTAATAATAA-TATTTTATA-TATTATATATTATGATTTTAATAAATTCATATAAGA
* * * * * *
76552284 ATATTTAATACTAAGAATTTTATTAAATTATATATT-T--TTGTTAAATTATATTTA-ATAATA
1 ATATTTAATAATAA-TATTTTA-TATATTATATATTATGATT-TT-AA-TAAATTCATATAAGA
* * *
76552344 ATTATTTTA-AATTATATTTTATAATATTATATATTATAATTTTAATAAATTCATATA
1 A-TATTTAATAATAATATTTTAT-ATATTATATATTATGATTTTAATAAATTCATATA
76552401 TTTTATCAAA
Statistics
Matches: 92, Mismatches: 15, Indels: 21
0.72 0.12 0.16
Matches are distributed among these distances:
58 3 0.03
59 25 0.27
60 17 0.18
61 43 0.47
62 4 0.04
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (59 bp):
ATATTTAATAATAATATTTTATATATTATATATTATGATTTTAATAAATTCATATAAGA
Found at i:76552353 original size:26 final size:25
Alignment explanation
Indices: 76552315--76552373 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 25
76552305 ATTAAATTAT
*
76552315 ATATTTTTGTTAAATTATATTTAATA
1 ATATTATT-TTAAATTATATTTAATA
*
76552341 ATAATTATTTTAAATTATATTTTATA
1 AT-ATTATTTTAAATTATATTTAATA
76552367 ATATTAT
1 ATATTAT
76552374 ATATTATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 5 0.17
26 20 0.67
27 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (25 bp):
ATATTATTTTAAATTATATTTAATA
Found at i:76552372 original size:15 final size:15
Alignment explanation
Indices: 76552328--76552383 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
76552318 TTTTTGTTAA
*
76552328 ATTATATTTAATAAT
1 ATTATATTTTATAAT
*
76552343 AAT-TA-TTT-TAA-
1 ATTATATTTTATAAT
76552354 ATTATATTTTATAAT
1 ATTATATTTTATAAT
*
76552369 ATTATATATTATAAT
1 ATTATATTTTATAAT
76552384 TTTAATAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
11 2 0.06
12 5 0.15
13 5 0.15
14 5 0.15
15 16 0.48
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTATATTTTATAAT
Found at i:76552376 original size:17 final size:16
Alignment explanation
Indices: 76552370--76552440 Score: 65
Period size: 15 Copynumber: 4.4 Consensus size: 16
76552360 TTTTATAATA
*
76552370 TTATATATTATA-ATT
1 TTATAAATTATATATT
76552385 TTAATAAATTCATATATT
1 TT-ATAAATT-ATATATT
76552403 TTATCAAATTATATATT
1 TTAT-AAATTATATATT
* *
76552420 ATA-AAAATATATATT
1 TTATAAATTATATATT
*
76552435 TAATAA
1 TTATAA
76552441 TAATTATGTC
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
15 14 0.30
16 8 0.17
17 14 0.30
18 10 0.22
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (16 bp):
TTATAAATTATATATT
Found at i:76552399 original size:24 final size:22
Alignment explanation
Indices: 76552354--76552422 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 22
76552344 ATTATTTTAA
76552354 ATTATATTTTATAATATTATAT
1 ATTATATTTTATAATATTATAT
* *
76552376 ATTATAATTT-TAATA-AAT-T
1 ATTATATTTTATAATATTATAT
76552395 CA-TATATTTTATCAA-ATTATAT
1 -ATTATATTTTAT-AATATTATAT
76552417 ATTATA
1 ATTATA
76552423 AAAATATATA
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
19 8 0.22
20 5 0.14
21 10 0.27
22 14 0.38
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (22 bp):
ATTATATTTTATAATATTATAT
Found at i:76552683 original size:16 final size:16
Alignment explanation
Indices: 76552662--76552729 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
76552652 GATTTGCTAT
76552662 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
* *
76552678 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
76552694 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
76552710 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
76552726 TACA
1 TACA
76552730 GCGAACCAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:76553040 original size:11 final size:11
Alignment explanation
Indices: 76553024--76553053 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
76553014 TTATAGGCAT
76553024 AAGAAGTACAA
1 AAGAAGTACAA
*
76553035 AAGAAGTATAA
1 AAGAAGTACAA
76553046 AAGAAGTA
1 AAGAAGTA
76553054 GAGATCTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.63, C:0.03, G:0.20, T:0.13
Consensus pattern (11 bp):
AAGAAGTACAA
Found at i:76558847 original size:28 final size:28
Alignment explanation
Indices: 76558771--76558849 Score: 81
Period size: 28 Copynumber: 2.8 Consensus size: 28
76558761 ATCTTCAATC
** * *
76558771 TTTAATCCCCAATTTCCAATTTTATATT
1 TTTAATCTTCAATTTCAAATTTTAGATT
*
76558799 TTTAATCTTCAAATTT-TAATTTTAGATT
1 TTTAATCTTC-AATTTCAAATTTTAGATT
76558827 TTTAAGT-TTCAATTTCAAATTTT
1 TTTAA-TCTTCAATTTCAAATTTT
76558850 CAACCCTCAA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
27 5 0.12
28 32 0.74
29 6 0.14
ACGTcount: A:0.30, C:0.13, G:0.03, T:0.54
Consensus pattern (28 bp):
TTTAATCTTCAATTTCAAATTTTAGATT
Found at i:76559424 original size:28 final size:28
Alignment explanation
Indices: 76559384--76559442 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
76559374 AAGTTTAGAG
76559384 GTTGTAGCACCCCAAACCCGGCCCAGAA
1 GTTGTAGCACCCCAAACCCGGCCCAGAA
76559412 GTTGTAGCACCCCAAACCCGGCCCAGAA
1 GTTGTAGCACCCCAAACCCGGCCCAGAA
76559440 GTT
1 GTT
76559443 ATGGCCGGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.27, C:0.37, G:0.22, T:0.14
Consensus pattern (28 bp):
GTTGTAGCACCCCAAACCCGGCCCAGAA
Found at i:76562096 original size:26 final size:26
Alignment explanation
Indices: 76562065--76562172 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
76562055 TGAAATTCCC
*
76562065 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
76562091 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
76562117 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
76562143 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
76562169 ATCA
1 ATCA
76562173 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:76567920 original size:26 final size:26
Alignment explanation
Indices: 76567846--76567951 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
76567836 TGAAATTCCC
76567846 ATCATGGAACATTTACCTAA-CCATT
1 ATCATGGAACATTTACCTAACCCATT
76567871 ATCAT-GAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
76567896 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
76567922 GTCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
76567948 ATCA
1 ATCA
76567952 ATTTGTATCA
Statistics
Matches: 73, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
24 14 0.19
25 15 0.21
26 44 0.60
ACGTcount: A:0.35, C:0.25, G:0.08, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:76572435 original size:21 final size:20
Alignment explanation
Indices: 76572397--76572439 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
76572387 ATCCCAATCC
76572397 CATGCATCAGATAATAACAA
1 CATGCATCAGATAATAACAA
76572417 CATGCATGCAG-TAAATAACAA
1 CATGCAT-CAGAT-AATAACAA
76572438 CA
1 CA
76572440 GTCAAACATG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.49, C:0.21, G:0.12, T:0.19
Consensus pattern (20 bp):
CATGCATCAGATAATAACAA
Done.