Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 14 of 292
Found at i:3881680 original size:25 final size:27
Alignment explanation
Indices: 3881643--3881695 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
3881633 TCAAACATGC
3881643 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
3881669 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
3881695 A
1 A
3881696 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:3883212 original size:25 final size:25
Alignment explanation
Indices: 3883178--3883309 Score: 214
Period size: 25 Copynumber: 5.2 Consensus size: 25
3883168 CATGAAATTC
3883178 TTATCATGAAACATTTACCTAACC-A
1 TTATCATG-AACATTTACCTAACCTA
3883203 TTATCATGAACATTTACCTAACCTA
1 TTATCATGAACATTTACCTAACCTA
3883228 TTATCATGGAACA-TTACCTAACCTA
1 TTATCAT-GAACATTTACCTAACCTA
*
3883253 TTATTATGAAACATTTACCTAACCTA
1 TTATCATG-AACATTTACCTAACCTA
3883279 TTATCATGAACATTTACCTAACCTA
1 TTATCATGAACATTTACCTAACCTA
3883304 TTATCA
1 TTATCA
3883310 ATTTGTATCA
Statistics
Matches: 101, Mismatches: 2, Indels: 8
0.91 0.02 0.07
Matches are distributed among these distances:
24 16 0.16
25 61 0.60
26 24 0.24
ACGTcount: A:0.37, C:0.23, G:0.05, T:0.36
Consensus pattern (25 bp):
TTATCATGAACATTTACCTAACCTA
Found at i:3883285 original size:51 final size:51
Alignment explanation
Indices: 3883178--3883309 Score: 216
Period size: 51 Copynumber: 2.6 Consensus size: 51
3883168 CATGAAATTC
*
3883178 TTATCATGAAACATTTACCTAACC-ATTATCATGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAACATTTACCTAACCTA
*
3883228 TTATCATGGAACA-TTACCTAACCTATTATTATGAAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTATTATCATG-AACATTTACCTAACCTA
3883279 TTATCAT-GAACATTTACCTAACCTATTATCA
1 TTATCATGGAACATTTACCTAACCTATTATCA
3883310 ATTTGTATCA
Statistics
Matches: 76, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
49 10 0.13
50 25 0.33
51 41 0.54
ACGTcount: A:0.37, C:0.23, G:0.05, T:0.36
Consensus pattern (51 bp):
TTATCATGGAACATTTACCTAACCTATTATCATGAACATTTACCTAACCTA
Found at i:3888775 original size:25 final size:27
Alignment explanation
Indices: 3888738--3888790 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
3888728 TCAAACATGC
3888738 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
3888764 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
3888790 A
1 A
3888791 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:3890301 original size:25 final size:24
Alignment explanation
Indices: 3890267--3890392 Score: 188
Period size: 24 Copynumber: 5.2 Consensus size: 24
3890257 CATGAAATTC
3890267 TTATCATGAAACATTTACCTAACCA
1 TTATCATG-AACATTTACCTAACCA
3890292 TTATCATGAACA-TTACCTAACCA
1 TTATCATGAACATTTACCTAACCA
3890315 TTATCATGGAACA-TTACCTAACCTA
1 TTATCAT-GAACATTTACCTAACC-A
3890340 TTATCATGAACATTTACCTAACC-
1 TTATCATGAACATTTACCTAACCA
3890363 TTAT-ATGAACATTTACCTAACCTA
1 TTATCATGAACATTTACCTAACC-A
3890387 TTATCA
1 TTATCA
3890393 ATTTGTATCA
Statistics
Matches: 95, Mismatches: 0, Indels: 12
0.89 0.00 0.11
Matches are distributed among these distances:
22 18 0.19
23 22 0.23
24 28 0.29
25 27 0.28
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (24 bp):
TTATCATGAACATTTACCTAACCA
Found at i:3890322 original size:48 final size:48
Alignment explanation
Indices: 3890266--3890392 Score: 199
Period size: 47 Copynumber: 2.7 Consensus size: 48
3890256 ACATGAAATT
3890266 CTTATCATGAAACATTTACCTAACC-ATTATCATGAACA-TTACCTAAC
1 CTTATCATG-AACATTTACCTAACCTATTATCATGAACATTTACCTAAC
3890313 CATTATCATGGAACA-TTACCTAACCTATTATCATGAACATTTACCTAAC
1 C-TTATCAT-GAACATTTACCTAACCTATTATCATGAACATTTACCTAAC
3890362 CTTAT-ATGAACATTTACCTAACCTATTATCA
1 CTTATCATGAACATTTACCTAACCTATTATCA
3890393 ATTTGTATCA
Statistics
Matches: 75, Mismatches: 0, Indels: 10
0.88 0.00 0.12
Matches are distributed among these distances:
46 5 0.07
47 31 0.41
48 28 0.37
49 11 0.15
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (48 bp):
CTTATCATGAACATTTACCTAACCTATTATCATGAACATTTACCTAAC
Found at i:3891177 original size:2 final size:2
Alignment explanation
Indices: 3891166--3891197 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
3891156 CATCATTCAC
3891166 AT AT -T AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3891198 TATGTGTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 26 0.93
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:3892777 original size:40 final size:40
Alignment explanation
Indices: 3892669--3892878 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
3892659 CGGGATTTAA
* * * * *
3892669 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
3892709 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
3892749 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
3892789 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
3892829 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
3892869 CCGGATATAT
1 CCGGATATAT
3892879 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:3900916 original size:40 final size:40
Alignment explanation
Indices: 3900808--3901017 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
3900798 CGGGATTTAA
* * * * *
3900808 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
3900848 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
3900888 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
3900928 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
3900968 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
3901008 CCGGATATAT
1 CCGGATATAT
3901018 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:3906377 original size:2 final size:2
Alignment explanation
Indices: 3906339--3906369 Score: 53
Period size: 2 Copynumber: 15.0 Consensus size: 2
3906329 TCCAGATGTG
3906339 AT AT GAT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT
3906370 GCATATATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 26 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3906853 original size:12 final size:12
Alignment explanation
Indices: 3906836--3906860 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3906826 CACCTTTGTG
3906836 ATATTAATGATA
1 ATATTAATGATA
3906848 ATATTAATGATA
1 ATATTAATGATA
3906860 A
1 A
3906861 AAGTGATATC
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:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (12 bp):
ATATTAATGATA
Found at i:3917051 original size:25 final size:26
Alignment explanation
Indices: 3916980--3917051 Score: 73
Period size: 25 Copynumber: 2.9 Consensus size: 26
3916970 AATTTTTCTC
*
3916980 CTAA-ATTTTAT-TTTATTCAATTAT
1 CTAATATTTTATATTTATTAAATTAT
*
3917004 CTAAT-TTTTCA-ATTTATTGAATTAT
1 CTAATATTTT-ATATTTATTAAATTAT
*
3917029 -TAATATTTTATATTAATTAAATT
1 CTAATATTTTATATTTATTAAATT
3917052 TTTGAGGAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
24 13 0.32
25 27 0.68
ACGTcount: A:0.36, C:0.06, G:0.01, T:0.57
Consensus pattern (26 bp):
CTAATATTTTATATTTATTAAATTAT
Found at i:3932692 original size:24 final size:24
Alignment explanation
Indices: 3932635--3932792 Score: 88
Period size: 24 Copynumber: 6.6 Consensus size: 24
3932625 CCATGTTAGC
*
3932635 CCACACACATAGTG-CCTT-AGTAAT
1 CCACACACATAGTGACATTCA--AAT
* * * *
3932659 TCACATACATATTGACATTCCAAT
1 CCACACACATAGTGACATTCAAAT
* * *
3932683 CCGCACACATAGTGCCATTTAAAT
1 CCACACACATAGTGACATTCAAAT
* * *
3932707 CCACACACATAGTGCCATACAATT
1 CCACACACATAGTGACATTCAAAT
* * * *
3932731 CCGCACATATAGT-ACCATACAAGT
1 CCACACACATAGTGA-CATTCAAAT
* * * *
3932755 CCGCACACATAGTGCCATACAAGT
1 CCACACACATAGTGACATTCAAAT
*
3932779 CCGCACACATAGTG
1 CCACACACATAGTG
3932793 CCAAAGTCAT
Statistics
Matches: 108, Mismatches: 22, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
24 105 0.97
25 3 0.03
ACGTcount: A:0.35, C:0.30, G:0.12, T:0.23
Consensus pattern (24 bp):
CCACACACATAGTGACATTCAAAT
Found at i:3932793 original size:24 final size:24
Alignment explanation
Indices: 3932682--3932795 Score: 165
Period size: 24 Copynumber: 4.8 Consensus size: 24
3932672 GACATTCCAA
** *
3932682 TCCGCACACATAGTGCCATTTAAA
1 TCCGCACACATAGTGCCATACAAG
* *
3932706 TCCACACACATAGTGCCATACAAT
1 TCCGCACACATAGTGCCATACAAG
* *
3932730 TCCGCACATATAGTACCATACAAG
1 TCCGCACACATAGTGCCATACAAG
3932754 TCCGCACACATAGTGCCATACAAG
1 TCCGCACACATAGTGCCATACAAG
3932778 TCCGCACACATAGTGCCA
1 TCCGCACACATAGTGCCA
3932796 AAGTCATTTC
Statistics
Matches: 80, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 80 1.00
ACGTcount: A:0.34, C:0.32, G:0.13, T:0.20
Consensus pattern (24 bp):
TCCGCACACATAGTGCCATACAAG
Found at i:3937691 original size:5 final size:5
Alignment explanation
Indices: 3937681--3937712 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
3937671 CAATTTGTGA
3937681 AAAAT AAAAT AAAAT -AAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
3937713 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:3937701 original size:14 final size:14
Alignment explanation
Indices: 3937682--3937712 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
3937672 AATTTGTGAA
3937682 AAATAAAATAAAAT
1 AAATAAAATAAAAT
3937696 AAATAAAATAAAAT
1 AAATAAAATAAAAT
3937710 AAA
1 AAA
3937713 GAACACACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
AAATAAAATAAAAT
Found at i:3941964 original size:20 final size:20
Alignment explanation
Indices: 3941939--3941989 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
3941929 ATTTTGATAA
3941939 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
3941959 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
3941979 ACATGAGATGT
1 ACATGATATGT
3941990 TCATAAATGC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.35, C:0.10, G:0.22, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:3942066 original size:23 final size:23
Alignment explanation
Indices: 3942036--3942224 Score: 324
Period size: 23 Copynumber: 8.1 Consensus size: 23
3942026 AGGAAGTGCA
3942036 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
3942059 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
3942082 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
3942106 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
3942130 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
3942153 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
3942176 AAAGGGCTCATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
3942199 AAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
3942222 AAA
1 AAA
3942225 AGAGGCTAGG
Statistics
Matches: 160, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
23 114 0.71
24 46 0.29
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:3942195 original size:94 final size:93
Alignment explanation
Indices: 3942034--3942245 Score: 345
Period size: 94 Copynumber: 2.3 Consensus size: 93
3942024 GGAGGAAGTG
*
3942034 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCA
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAGGGCTCATGCCCCA
3942099 GTTATCAAAAGGGCTTATGCCCCAGTTAT
66 GTTAT-AAAAGGGCTTATGCCCCAGTTAT
3942128 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAGGGCTCATGCCCCA
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAGGGCTCATGCCCCA
* *
3942193 GTTATTAAAGGGCTTTTGCCCCAGTTAT
66 GTTATAAAAGGGCTTATGCCCCAGTTAT
* *
3942221 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTATGCC-CCAGTTAT
3942246 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
93 31 0.28
94 80 0.72
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (93 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAGGGCTCATGCCCCA
GTTATAAAAGGGCTTATGCCCCAGTTAT
Found at i:3942281 original size:117 final size:114
Alignment explanation
Indices: 3942036--3942245 Score: 305
Period size: 117 Copynumber: 1.8 Consensus size: 114
3942026 AGGAAGTGCA
* *
3942036 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGT
1 AAAGAGCTTATGCCCCAGTTATTAAAGGGCTCATGCCCCAGTTATTAAAGGGCTTATGCCCCAGT
* *
3942101 TATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
66 TATCAAAAGGGCTTAGGCCCCAGTTATCAAAAGAGCTTATGCCCCAG---TT
* *
3942153 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTCATGCCCCAGTTATTAAAGGGCTTTTGCCCCAGT
1 AAAGAGCTTATGCCCCAGTTATTAAAGGGCTCATGCCCCAGTTATTAAAGGGCTTATGCCCCAGT
*
3942218 TATTAAAAGAGGC-TAGGCCTCCAGTTAT
66 TATCAAAAG-GGCTTAGGCC-CCAGTTAT
3942246 ATGATAAAGC
Statistics
Matches: 87, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
117 76 0.87
118 11 0.13
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (114 bp):
AAAGAGCTTATGCCCCAGTTATTAAAGGGCTCATGCCCCAGTTATTAAAGGGCTTATGCCCCAGT
TATCAAAAGGGCTTAGGCCCCAGTTATCAAAAGAGCTTATGCCCCAGTT
Found at i:3945816 original size:39 final size:39
Alignment explanation
Indices: 3945762--3945924 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
3945752 TGTGAATGAA
3945762 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
3945801 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** *
3945840 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
3945879 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
3945919 TGTGCG
1 TGTGCG
3945925 GGTTACCATA
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 99 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:3945940 original size:40 final size:39
Alignment explanation
Indices: 3945762--3945954 Score: 251
Period size: 39 Copynumber: 4.9 Consensus size: 39
3945752 TGTGAATGAA
* *
3945762 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
3945801 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
3945840 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
3945879 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
3945919 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGG
3945955 TGTTTTGAAC
Statistics
Matches: 139, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 99 0.71
40 40 0.29
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:3951836 original size:24 final size:23
Alignment explanation
Indices: 3951809--3951915 Score: 124
Period size: 24 Copynumber: 4.5 Consensus size: 23
3951799 TGATTCACAT
* *
3951809 ACATATTGACATTCCAATCCGCAC
1 ACATAGTGCCATT-CAATCCGCAC
*
3951833 ACATAGTGCCATATAAATCCGCAC
1 ACATAGTGCCAT-TCAATCCGCAC
*
3951857 ACATAGTGCCATGCAATTCCGCAC
1 ACATAGTGCCATTCAA-TCCGCAC
* *
3951881 ACATAGTGCCATACAAGGCCGCAC
1 ACATAGTGCCATTCAA-TCCGCAC
3951905 ACATAGTGCCA
1 ACATAGTGCCA
3951916 AAGTCATTTC
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
23 2 0.03
24 70 0.96
25 1 0.01
ACGTcount: A:0.34, C:0.32, G:0.15, T:0.20
Consensus pattern (23 bp):
ACATAGTGCCATTCAATCCGCAC
Found at i:3951861 original size:48 final size:48
Alignment explanation
Indices: 3951809--3951912 Score: 138
Period size: 48 Copynumber: 2.2 Consensus size: 48
3951799 TGATTCACAT
* * *
3951809 ACATATTGACATTCCAA-TCCGCACACATAGTGCCATATAAATCCGCAC
1 ACATAGTGACA-TCCAATTCCGCACACATAGTGCCATACAAAGCCGCAC
* * *
3951857 ACATAGTGCCATGCAATTCCGCACACATAGTGCCATACAAGGCCGCAC
1 ACATAGTGACATCCAATTCCGCACACATAGTGCCATACAAAGCCGCAC
3951905 ACATAGTG
1 ACATAGTG
3951913 CCAAAGTCAT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
47 4 0.08
48 45 0.92
ACGTcount: A:0.34, C:0.31, G:0.15, T:0.20
Consensus pattern (48 bp):
ACATAGTGACATCCAATTCCGCACACATAGTGCCATACAAAGCCGCAC
Found at i:3965192 original size:32 final size:34
Alignment explanation
Indices: 3965156--3965220 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
3965146 TAACAGTAGT
*
3965156 ACTGGACCTGAG-CCCTT-TTCAGATTACAATAA
1 ACTGGACCTGAGCCCCTTATTCAGATAACAATAA
* *
3965188 ACTGGGCCTTAGCCCCTTATTCAGATAACAATA
1 ACTGGACCTGAGCCCCTTATTCAGATAACAATA
3965221 TGGCCCATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 10 0.36
33 5 0.18
34 13 0.46
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (34 bp):
ACTGGACCTGAGCCCCTTATTCAGATAACAATAA
Found at i:3967083 original size:26 final size:26
Alignment explanation
Indices: 3967054--3967135 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
3967044 TGAAATGTCC
*
3967054 ATCATGGAACATTTACCTAAATCATT
1 ATCATGGAACATTTACCTAAACCATT
*
3967080 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
3967106 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
3967132 ATCA
1 ATCA
3967136 ATTTGTACCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.38, C:0.23, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:3976174 original size:936 final size:925
Alignment explanation
Indices: 3974689--3977022 Score: 2781
Period size: 936 Copynumber: 2.5 Consensus size: 925
3974679 GTCCTGGCGA
* ** * *
3974689 ACTATACTGGTTGTCATAGCCGAGCCACGGTATTAAGTTTCTGCTCTTTAAGTTTTCTTCCATAA
1 ACTATACTGGTTGCCATAGAAGAGCCATGGTATTAAGTTT-T-CTCTTTAAGTTTTCTTGCATAA
* * * *
3974754 AAATCGCAGCTTTCACATTTTTCTTAGGCTTTACTTTAATAGCTACTTTTTTTTTCCATTTCCAT
64 AAATCTCAACTTTCACATTTTTCTTAAGCTTTACTTTAATAGCTAC-TTTGTTTTCCATTT-CAT
* * * * *
3974819 GTCAATTTCTTTTTCTTTGAGCATGAGTAGTTAAACCTTAAGGAAGGTTGTTTGATGGAGATATG
127 GTCCATTTCTTTTACTTTGAGCATGAGTAGCTAAACCTTAAGGAAGGTTGGTTGATGGAGATGTG
* * * * * * *
3974884 GGTGAAATAAAACTTTTGGAAAAAGGATTAAATCGAATAAACCTTAGAACATAGGTAGTAACACC
192 GGT-AAATAAAACATTTGGACAAAGGACTAAATCGAATAGACCTTAGAACTTAGGTAGTGACGCC
* ** *
3974949 CATAAGTAAATATCTAAACAAGTGAGACCAGAAGGTAATCTTGTCATGCA-CTCGTTTATTAGTT
256 C-TAAGGAAATATCTAGGCAAGTGAGA-CAGAAGGTAATCTTGTCATGCACCT-GTTTATTAGGT
* * * * *
3975013 TCAGATTAATTAGTGAGATCGGAAGATAAATAGTAACTAATTCATCTAATTCGGTAAAATTGAGA
318 CCAGATTAACTGGTGAGATCGAAAGATAAA-A-T--CTAATTCATCTAAGTCGGTAAAATTGAGA
* * * * * *
3975078 TTGAAAAATAAAATGGACTCACTTAGTAATTTACACAATTTAAGTCCTTTGTTTGAGTATCGGTG
379 TTGAAAAATAAAATGGAGTCACTTAGTAATTTACACGA-TTAAGTCCCTTATTTGAGGATCGATG
* * * *
3975143 AACCACATCAAATTCAACCAACCAACATTAGTTATTTATTGGATACCCCCTTAGTTTTACATTAT
443 AACCACATCAAATACAACCAACCAACATTAGTTATTTATTAGATACCCCCTTAATTTTACATCAT
* * * *
3975208 TTGCAATTAAGTCATCAGAGTAGCATATCTAATTTTCTTGCAATATTTTCTTATTGTGAATTGTC
508 TTACAATTAAGTCATCAGAGTAACATATCTAATATTCTTGCAATATTTTCTTATTATGAATTGTC
* * * *
3975273 GTACTATAAAATTG-AAGTAGAAGCCACTTAGACTCTATTGTGTATACTAGTTATTGGTCAATCA
573 ATACTATAAAATTGTAA-TAGAAGCCACTTACACTCTATTGCGTATACTAGTTATTGCTCAATCA
* * * * * *
3975337 CCATCTCCTTTAGGTTCGACTCCTTGGAATACTTTGTATTCCATCGGAACTATAAATATAACAGT
637 CCATCTCCTTCAGGATCGACCCCTTAGAATACTTTGTATTCCATCAGAACTATAAATATAACA-A
* * *
3975402 TGACCTATACGCTCGTTGTAAAACTAAGCTTT-AAATTGTTTTTATAAGCTCGTTGTTTTAATAT
701 AGACCTATACGCTCGTAGTAAAACCAAGCTTTAAAATTG-TTTTATAAGCTCGTTGTTTTAATAT
* ** * * *
3975466 GCA-AATACGAAG-CTGGTCAACTACTCTGTGTTTATTATCTTGGCAGACTCCATATGCTGCCAT
765 GCACAAT-CGAAGTC-GGTCAACTACCCCATGCTTACTATCATGGCAGACTCCATATGCTGCCAT
* ***
3975529 AACCGAACTATGGTCTTAGACAATATACC-CTATGTTTAACATCTTGGTGGACTACT-TCATGCT
828 AACCGAACTATGGTCTTACACAATATACCAC-ATGTTTAACATCTTGGCAAACTACTCT-ATGCT
* * *
3975592 TACTGTCTCGGCAAACTACATCGTATTTACTATCTCAGTGG
891 TACTATCTC-G-AAA--A-A-CGTATTTACTATCCCAATGG
*
3975633 ACTATACTAGTTGCCATAGAAGAGCCATGGTATTAAGTTTTCTCTTTAAGTTTTCTTGCATAAAA
1 ACTATACTGGTTGCCATAGAAGAGCCATGGTATTAAGTTTTCTCTTTAAGTTTTCTTGCATAAAA
* * *
3975698 CTCTCAACATTCACATTTTTCTCAAGCTTTACTTTAATAGCTACTTTGTTTTCCATTTCTATGTC
66 ATCTCAACTTTCACATTTTTCTTAAGCTTTACTTTAATAGCTACTTTGTTTTCCATTTC-ATGTC
* *
3975763 CATTTCTTTTACTTTGAGCATGAGTACCTAAA-CTTCAAGGAAGGTTGGTTGATGGATATGTGGG
130 CATTTCTTTTACTTTGAGCATGAGTAGCTAAACCTT-AAGGAAGGTTGGTTGATGGAGATGTGGG
* *
3975827 TAAACTAAAACATTTGGACAAAGGACTAAATCAAATAGACCTTAGAACTTAGATAGTGACGCCCT
194 TAAA-TAAAACATTTGGACAAAGGACTAAATCGAATAGACCTTAGAACTTAGGTAGTGACGCCCT
* * * *
3975892 AAGGAAATATCTAGGCAAGTGAAACTAGAAGGTAATCTTTTCATGCACCTGTTCATTAGGACCAG
258 AAGGAAATATCTAGGCAAGTGAGAC-AGAAGGTAATCTTGTCATGCACCTGTTTATTAGGTCCAG
* * *
3975957 ATTAACTGGTGAGATCGAAAGATAAAATCTAATTCATCCAAGTCGGTAAAATTGAGATTGGAAGA
322 ATTAACTGGTGAGATCGAAAGATAAAATCTAATTCATCTAAGTCGGTAAAATTGAGATTGAAAAA
* * * *
3976022 TAAAATAGAGTCACTTAGTAATTTACACGATATAAGTCCCTTCTTTGTGGATCGATGAAACACAT
387 TAAAATGGAGTCACTTAGTAATTTACACGAT-TAAGTCCCTTATTTGAGGATCGATGAACCACAT
* ** *
3976087 CGAATACAACCAACC-ACAATTAGTTATTTATTAGATAGTCTCTTAATTTTACATCATTTACAAT
451 CAAATACAACCAACCAAC-ATTAGTTATTTATTAGATACCCCCTTAATTTTACATCATTTACAAT
* * * *
3976151 TTAGTCCTTAGAGTAACATATCTAATATTCTTGCAATATTTTCTTGTTATGAATTGTCATACTAT
515 TAAGTCATCAGAGTAACATATCTAATATTCTTGCAATATTTTCTTATTATGAATTGTCATACTAT
* * * **
3976216 AAAATTGTAATAGAAGCCACTTACACTTTATTGCGTGTTCTAGTTATTGCTCAATGTCCATCTCC
580 AAAATTGTAATAGAAGCCACTTACACTCTATTGCGTATACTAGTTATTGCTCAATCACCATCTCC
* * * *
3976281 TTCGGGATCGACCCCTTAGAATACTTTGTGTTCTATCAGAACTATAAATATTACAAAGACCTATA
645 TTCAGGATCGACCCCTTAGAATACTTTGTATTCCATCAGAACTATAAATATAACAAAGACCTATA
* * * * * * *
3976346 TGCTTGTAGTATAACCAGGCTTTACAAAATTGTTTTATAAGTTTGTTGTTTTAATGTGCACAATC
710 CGCTCGTAGTAAAACCAAGCTTT--AAAATTGTTTTATAAGCTCGTTGTTTTAATATGCACAATC
* * *** *
3976411 GAAGTCGGTCAACTACCCCATGCTTACTATCATGGCGGACTCCATATGTTGCCATAGTTGAGCTA
773 GAAGTCGGTCAACTACCCCATGCTTACTATCATGGCAGACTCCATATGCTGCCATAACCGAACTA
* *
3976476 TGGTCTTACACAATATACCACATGTTTAACGTCTTGGCAAACTACTCTGTGCTTACTATCTCGAA
838 TGGTCTTACACAATATACCACATGTTTAACATCTTGGCAAACTACTCTATGCTTACTATCTCGAA
* *
3976541 AAACGTATTTATTGTCCCAATGG
903 AAACGTATTTACTATCCCAATGG
* **
3976564 ACTATACTGGTTGCCATAGTAGAGCCATGGCCTTAAGTTTTCTTCTCTTTAAGTTTTCTTGCATA
1 ACTATACTGGTTGCCATAGAAGAGCCATGGTATTAAG--TT-TTCTCTTTAAGTTTTCTTGCATA
* * * * *
3976629 AAAATCTCAACTTTCACATTTTTCTTAAGCTTTACTTTAGTGGTTGCATTGTTTTCCA-TTC-TG
63 AAAATCTCAACTTTCACATTTTTCTTAAGCTTTACTTTAATAGCTACTTTGTTTTCCATTTCATG
* * * * ** *
3976692 TCCTTTTCTTTAACTTTAAACATGAGTAGCTAAACCTTAAAAAATGTTGGTTGATGGAGATGTGG
128 TCCATTTCTTTTACTTTGAGCATGAGTAGCTAAACCTTAAGGAAGGTTGGTTGATGGAGATGTGG
* * * *
3976757 ATAAATTAAAACCTTTGGACAAAGAACTAAATCGAATAGACCTTAGAACTTAGGTAGTGAAGCCC
193 GTAAA-TAAAACATTTGGACAAAGGACTAAATCGAATAGACCTTAGAACTTAGGTAGTGACG-CC
* *
3976822 CTAAGGGAATATCTAGGCAAGTGAGACCGAAAGGTAATCTTGTCATGCACCTGTTTATTA-GTCT
256 CTAAGGAAATATCTAGGCAAGTGAGACAG-AAGGTAATCTTGTCATGCACCTGTTTATTAGGTC-
* * * *
3976886 TAGATTAACTGGTTAGATTGAAAGAT-AAATCGTAGAAAATTCATCTAAGTTGGTAAAATTGAGA
319 CAGATTAACTGGTGAGATCGAAAGATAAAATC-T----AATTCATCTAAGTCGGTAAAATTGAGA
*
3976950 TTGAAATAA-AAAATGGAGCCACTTAGTAATTTACACGACTTAAG-CCTCTTATTTGAGGATCGA
379 TTGAAA-AATAAAATGGAGTCACTTAGTAATTTACACGA-TTAAGTCC-CTTATTTGAGGATCGA
3977013 TGAACCACAT
441 TGAACCACAT
3977023 TTGTAGCACC
Statistics
Matches: 1192, Mismatches: 168, Indels: 68
0.83 0.12 0.05
Matches are distributed among these distances:
931 166 0.14
932 83 0.07
933 6 0.01
934 73 0.06
935 33 0.03
936 381 0.32
937 132 0.11
938 13 0.01
939 2 0.00
940 82 0.07
941 124 0.10
942 61 0.05
943 1 0.00
944 35 0.03
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.35
Consensus pattern (925 bp):
ACTATACTGGTTGCCATAGAAGAGCCATGGTATTAAGTTTTCTCTTTAAGTTTTCTTGCATAAAA
ATCTCAACTTTCACATTTTTCTTAAGCTTTACTTTAATAGCTACTTTGTTTTCCATTTCATGTCC
ATTTCTTTTACTTTGAGCATGAGTAGCTAAACCTTAAGGAAGGTTGGTTGATGGAGATGTGGGTA
AATAAAACATTTGGACAAAGGACTAAATCGAATAGACCTTAGAACTTAGGTAGTGACGCCCTAAG
GAAATATCTAGGCAAGTGAGACAGAAGGTAATCTTGTCATGCACCTGTTTATTAGGTCCAGATTA
ACTGGTGAGATCGAAAGATAAAATCTAATTCATCTAAGTCGGTAAAATTGAGATTGAAAAATAAA
ATGGAGTCACTTAGTAATTTACACGATTAAGTCCCTTATTTGAGGATCGATGAACCACATCAAAT
ACAACCAACCAACATTAGTTATTTATTAGATACCCCCTTAATTTTACATCATTTACAATTAAGTC
ATCAGAGTAACATATCTAATATTCTTGCAATATTTTCTTATTATGAATTGTCATACTATAAAATT
GTAATAGAAGCCACTTACACTCTATTGCGTATACTAGTTATTGCTCAATCACCATCTCCTTCAGG
ATCGACCCCTTAGAATACTTTGTATTCCATCAGAACTATAAATATAACAAAGACCTATACGCTCG
TAGTAAAACCAAGCTTTAAAATTGTTTTATAAGCTCGTTGTTTTAATATGCACAATCGAAGTCGG
TCAACTACCCCATGCTTACTATCATGGCAGACTCCATATGCTGCCATAACCGAACTATGGTCTTA
CACAATATACCACATGTTTAACATCTTGGCAAACTACTCTATGCTTACTATCTCGAAAAACGTAT
TTACTATCCCAATGG
Found at i:3977965 original size:136 final size:137
Alignment explanation
Indices: 3977721--3978006 Score: 538
Period size: 136 Copynumber: 2.1 Consensus size: 137
3977711 TATTGGGCCT
**
3977721 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
3977786 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
3977850 CATATGC
131 CATATGC
3977857 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
3977922 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
3977987 CATATGC
131 CATATGC
3977994 AAGCCCATTTGGG
1 AAGCCCATTTGGG
3978007 GAGACTACTC
Statistics
Matches: 146, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
136 124 0.85
137 22 0.15
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.24
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
CATATGC
Found at i:3979808 original size:25 final size:25
Alignment explanation
Indices: 3979774--3979880 Score: 178
Period size: 25 Copynumber: 4.2 Consensus size: 25
3979764 ACATGAATTC
3979774 TTATCATGAAACATTTACCTAACCA
1 TTATCATGAAACATTTACCTAACCA
3979799 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAA-CCA
* *
3979825 TTATCATGGAATATTTACCTAACCA
1 TTATCATGAAACATTTACCTAACCA
*
3979850 TTATCATGGAACATTTACCTAACCA
1 TTATCATGAAACATTTACCTAACCA
3979875 TTATCA
1 TTATCA
3979881 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
25 55 0.71
26 23 0.29
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.34
Consensus pattern (25 bp):
TTATCATGAAACATTTACCTAACCA
Found at i:3979841 original size:51 final size:50
Alignment explanation
Indices: 3979774--3979880 Score: 178
Period size: 51 Copynumber: 2.1 Consensus size: 50
3979764 ACATGAATTC
3979774 TTATCATGAAACATTTACCTAACCATTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCATTATCATGAAACATTTACCTAA-CCA
* * *
3979825 TTATCATGGAATATTTACCTAACCATTATCATGGAACATTTACCTAACCA
1 TTATCATGAAACATTTACCTAACCATTATCATGAAACATTTACCTAACCA
3979875 TTATCA
1 TTATCA
3979881 ATTTGTATCA
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
50 9 0.17
51 44 0.83
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.34
Consensus pattern (50 bp):
TTATCATGAAACATTTACCTAACCATTATCATGAAACATTTACCTAACCA
Found at i:3985594 original size:26 final size:26
Alignment explanation
Indices: 3985558--3985641 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
3985548 CATGAAATTC
3985558 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
3985584 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
3985610 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
3985636 TTATCA
1 TTATCA
3985642 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:3991368 original size:26 final size:26
Alignment explanation
Indices: 3991332--3991415 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
3991322 ACATGAATTC
3991332 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
3991358 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
3991384 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
3991410 TTATCA
1 TTATCA
3991416 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:3992309 original size:18 final size:18
Alignment explanation
Indices: 3992269--3992328 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
3992259 TTATCACTAA
*
3992269 TATTACTATTGTTATATTTAT
1 TATTACTATTATTATA---AT
*
3992290 TATTACTTTTATTATAAT
1 TATTACTATTATTATAAT
* *
3992308 TACTACTATTATTATTAT
1 TATTACTATTATTATAAT
3992326 TAT
1 TAT
3992329 AGCTTTTCTT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
18 19 0.58
21 14 0.42
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.60
Consensus pattern (18 bp):
TATTACTATTATTATAAT
Found at i:3996942 original size:30 final size:30
Alignment explanation
Indices: 3996901--3996957 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
3996891 CACGGGCCAC
* *
3996901 CACATGGGCGTGTGGTCAACCCGTGTGTCT
1 CACACGGGCGTGTGCTCAACCCGTGTGTCT
*
3996931 CACACGGGCGTGTGCTCAGCCCGTGTG
1 CACACGGGCGTGTGCTCAACCCGTGTG
3996958 GAAATAATCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.12, C:0.30, G:0.35, T:0.23
Consensus pattern (30 bp):
CACACGGGCGTGTGCTCAACCCGTGTGTCT
Found at i:3998088 original size:43 final size:43
Alignment explanation
Indices: 3998040--3998133 Score: 152
Period size: 43 Copynumber: 2.2 Consensus size: 43
3998030 GGAAAACAAA
* *
3998040 CTTTTAGTGGCATTTGTAGGAGAGGCGCCGCTAAAAGTCATGG
1 CTTTTAGCGGCATTTGTAGGAGAAGCGCCGCTAAAAGTCATGG
* *
3998083 CTTTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAAGTCATGG
1 CTTTTAGCGGCATTTGTAGGAGAAGCGCCGCTAAAAGTCATGG
3998126 CTTTTAGC
1 CTTTTAGC
3998134 AGCGCTATTG
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.29
Consensus pattern (43 bp):
CTTTTAGCGGCATTTGTAGGAGAAGCGCCGCTAAAAGTCATGG
Found at i:3998159 original size:43 final size:42
Alignment explanation
Indices: 3998068--3998159 Score: 105
Period size: 43 Copynumber: 2.1 Consensus size: 42
3998058 GGAGAGGCGC
* ** *
3998068 CGCTAAAAGTCATGGCTTTTAGCGGCGTTTGTGGGAGAAGCG
1 CGCTAAAAGTCATGGCTTTTAGCAGCGTTTGTGACAAAAGCG
*
3998110 CCGCTAAAAGTCATGGCTTTTAGCAGCGCTATTGTTACAAAAGCG
1 -CGCTAAAAGTCATGGCTTTTAGCAGCG-T-TTGTGACAAAAGCG
3998155 -GCTAA
1 CGCTAA
3998160 TTTTGGCAGA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
43 31 0.74
44 1 0.02
45 10 0.24
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (42 bp):
CGCTAAAAGTCATGGCTTTTAGCAGCGTTTGTGACAAAAGCG
Found at i:4000056 original size:11 final size:11
Alignment explanation
Indices: 4000003--4000265 Score: 82
Period size: 11 Copynumber: 22.8 Consensus size: 11
3999993 AATCTAACCC
4000003 TATA-TATTTAT
1 TATATTATTT-T
*
4000014 TATATTGTTATT
1 TATATTATT-TT
* *
4000026 TGTTTTATTTT
1 TATATTATTTT
4000037 TA-ACCTTATTTT
1 TATA--TTATTTT
4000049 TATATTATATATT
1 TATATTAT-T-TT
*
4000062 ATAAAATTA-TTT
1 -T-ATATTATTTT
4000074 TATTATATATTATT
1 TA-TAT-TATT-TT
*
4000088 TATATTATTAT
1 TATATTATTTT
*
4000099 TAT-TTA-TTA
1 TATATTATTTT
4000108 TATATTATTTT
1 TATATTATTTT
* * *
4000119 TCACA--AGTTA
1 T-ATATTATTTT
4000129 T-TATTATTTT
1 TATATTATTTT
* *
4000139 ACATCATTATTTA
1 -TAT-ATTATTTT
*
4000152 TATATTATTAT
1 TATATTATTTT
4000163 TATATTATATGTT
1 TATATTAT-T-TT
*
4000176 TAT-TATATATTA
1 TATAT-TAT-TTT
4000188 TATATTATTTT
1 TATATTATTTT
4000199 TATATATATGCTTT
1 TATAT-TAT--TTT
*
4000213 TATATTATATAT
1 TATATTAT-TTT
4000225 TATAATTA-TTT
1 TAT-ATTATTTT
* *
4000236 TATA-TAATAT
1 TATATTATTTT
4000246 TA-AGTTATTTT
1 TATA-TTATTTT
4000257 TATATTATT
1 TATATTATT
4000266 ATACATTTTT
Statistics
Matches: 187, Mismatches: 32, Indels: 66
0.66 0.11 0.23
Matches are distributed among these distances:
8 1 0.01
9 7 0.04
10 19 0.10
11 58 0.31
12 51 0.27
13 33 0.18
14 13 0.07
15 5 0.03
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (11 bp):
TATATTATTTT
Found at i:4000079 original size:16 final size:16
Alignment explanation
Indices: 4000051--4000117 Score: 61
Period size: 15 Copynumber: 4.3 Consensus size: 16
4000041 CTTATTTTTA
4000051 TATTATATATTATAAAAT
1 TATT-TATATTAT-AAAT
*
4000069 TATTT-TATTATATAT
1 TATTTATATTATAAAT
*
4000084 TATTTATATTAT-TAT
1 TATTTATATTATAAAT
*
4000099 TA-TT-TATTATATAT
1 TATTTATATTATAAAT
4000113 TATTT
1 TATTT
4000118 TTCACAAGTT
Statistics
Matches: 45, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
13 6 0.13
14 7 0.16
15 15 0.33
16 12 0.27
17 1 0.02
18 4 0.09
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TATTTATATTATAAAT
Found at i:4000087 original size:3 final size:3
Alignment explanation
Indices: 4000067--4000296 Score: 79
Period size: 3 Copynumber: 74.3 Consensus size: 3
4000057 ATATTATAAA
4000067 ATT ATT -TT ATT ATAT ATT ATT -TAT ATT ATT ATT ATTT ATT ATAT ATT
1 ATT ATT ATT ATT AT-T ATT ATT AT-T ATT ATT ATT A-TT ATT AT-T ATT
* ** * *
4000114 ATT TTT CACA AGTT ATT ATT ATT -TT A-C ATC ATT ATTT ATAT ATT ATT
1 ATT ATT -ATT A-TT ATT ATT ATT ATT ATT ATT ATT A-TT AT-T ATT ATT
*
4000161 ATT A-T ATT A-T ATGT -TT ATT ATAT ATT ATAT ATT ATT TTT A-T ATAT
1 ATT ATT ATT ATT AT-T ATT ATT AT-T ATT AT-T ATT ATT ATT ATT AT-T
* * * *
4000206 ATG CTT -TT A-T ATT ATAT ATT ATA ATT ATT -TT ATAT AAT ATT AAGTT
1 ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT AT-T ATT ATT -A-TT
* * * *
4000252 ATT TTT A-T ATT ATT ATAC ATT TTT ATCT ATAT ATT ATT ATC ATT A
1 ATT ATT ATT ATT ATT AT-T ATT ATT AT-T AT-T ATT ATT ATT ATT A
4000297 AAGGTTTTAA
Statistics
Matches: 171, Mismatches: 26, Indels: 60
0.67 0.10 0.23
Matches are distributed among these distances:
2 21 0.12
3 106 0.62
4 42 0.25
5 2 0.01
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:4000160 original size:30 final size:30
Alignment explanation
Indices: 4000067--4000291 Score: 124
Period size: 29 Copynumber: 7.7 Consensus size: 30
4000057 ATATTATAAA
* *
4000067 ATTATTTTATTATATATTATTTATATTATT
1 ATTATTATATTATATATTATTTATACTATT
* *
4000097 ATTATT-TATTATATATTATTTTTCACAAGTT
1 ATTATTATATTATATATTATTTAT-ACTA-TT
* *
4000128 ATTATTATTTTACATCATTATTTATA-TATT
1 ATTATTATATTATAT-ATTATTTATACTATT
*
4000158 ATTATTATATTATATGTT-TATTATA-TATT
1 ATTATTATATTATATATTAT-TTATACTATT
*
4000187 ATATATTAT-TTTTATATATATGCTT-T--TA-T
1 AT-TATTATATTATATAT-TAT--TTATACTATT
*
4000216 ATTA-TATATTATA-ATTATTTTATA-TAAT
1 ATTATTATATTATATATTA-TTTATACTATT
*
4000244 ATTAAGTTAT-TTTTATATTA-TTATAC-ATT
1 ATT-A-TTATATTATATATTATTTATACTATT
*
4000273 TTTATCTATA-TAT-TATTAT
1 ATTAT-TATATTATATATTAT
4000292 CATTAAAGGT
Statistics
Matches: 155, Mismatches: 18, Indels: 46
0.71 0.08 0.21
Matches are distributed among these distances:
25 2 0.01
26 3 0.02
27 14 0.09
28 17 0.11
29 48 0.31
30 36 0.23
31 18 0.12
32 9 0.06
33 8 0.05
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (30 bp):
ATTATTATATTATATATTATTTATACTATT
Found at i:4000216 original size:25 final size:25
Alignment explanation
Indices: 4000051--4000245 Score: 90
Period size: 23 Copynumber: 7.9 Consensus size: 25
4000041 CTTATTTTTA
* * *
4000051 TATTATATATTATAAAAT-TAT-TT
1 TATTATATATTTTATATTATATGTT
*
4000074 TATTATATATTATTTATATTATTATTATT
1 TATTATATA-T-TTTATATTA-TA-TGTT
* *
4000103 TATTATATATTATT-T-TTCACAAG-T
1 TATTATATATT-TTATATT-ATATGTT
* * *
4000127 TATTAT-TATTTTACATCAT-TATT
1 TATTATATATTTTATATTATATGTT
4000150 TA-TATATTATTATTATATTATATGTT
1 TATTATA-TATT-TTATATTATATGTT
*
4000176 TATTATATATTATATATTAT-T-TT
1 TATTATATATTTTATATTATATGTT
* *
4000199 TATATATATGCTTTTATATTATAT-AT
1 TAT-TATAT-ATTTTATATTATATGTT
* *
4000225 TATAAT-TATTTTATATAATAT
1 TATTATATATTTTATATTATAT
4000246 TAAGTTATTT
Statistics
Matches: 132, Mismatches: 21, Indels: 38
0.69 0.11 0.20
Matches are distributed among these distances:
22 5 0.04
23 34 0.26
24 20 0.15
25 32 0.24
26 17 0.13
27 9 0.07
28 4 0.03
29 11 0.08
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.60
Consensus pattern (25 bp):
TATTATATATTTTATATTATATGTT
Found at i:4000247 original size:21 final size:21
Alignment explanation
Indices: 4000210--4000296 Score: 70
Period size: 23 Copynumber: 4.0 Consensus size: 21
4000200 ATATATATGC
4000210 TTTTATATTATATATTATAATTA
1 TTTTATA-TA-ATATTATAATTA
*
4000233 TTTTATATAATATTA-AGTTA
1 TTTTATATAATATTATAATTA
* *
4000253 TTTT-TATATTATTATACATTT
1 TTTTATATAATATTATA-ATTA
* *
4000274 TTATCTATATATTATTATCATTA
1 TT-T-TATATAATATTATAATTA
4000297 AAGGTTTTAA
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
19 9 0.17
20 9 0.17
21 10 0.19
22 3 0.06
23 11 0.21
24 11 0.21
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (21 bp):
TTTTATATAATATTATAATTA
Found at i:4000458 original size:19 final size:18
Alignment explanation
Indices: 4000430--4000465 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
4000420 ATTTTAAACT
*
4000430 TATATTTTATATATATATA
1 TATATATTATATA-ATATA
4000449 TATATATTATATAATAT
1 TATATATTATATAATAT
4000466 TTCATTATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TATATATTATATAATATA
Found at i:4000589 original size:26 final size:25
Alignment explanation
Indices: 4000556--4000605 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
4000546 TTATAAATAC
* * *
4000556 ATTTTTATTATATATTATATTTTAA
1 ATTTTTATTAAATATCACATTTTAA
4000581 ATTTATTATTAAATATCACATTTTA
1 ATTT-TTATTAAATATCACATTTTA
4000606 TTTGTTTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (25 bp):
ATTTTTATTAAATATCACATTTTAA
Found at i:4002763 original size:29 final size:27
Alignment explanation
Indices: 4002713--4002771 Score: 64
Period size: 29 Copynumber: 2.1 Consensus size: 27
4002703 ATTTTTTTGA
4002713 AAAAAAAATAGTAATTTAATTTTTATATT
1 AAAAAAAATAGTAATTTAA-TTTTAT-TT
* * * *
4002742 AAAATAAATATTATTTTTATTTTATTT
1 AAAAAAAATAGTAATTTAATTTTATTT
4002769 AAA
1 AAA
4002772 TTTCATATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 5 0.19
28 6 0.23
29 15 0.58
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (27 bp):
AAAAAAAATAGTAATTTAATTTTATTT
Found at i:4002767 original size:26 final size:28
Alignment explanation
Indices: 4002738--4002810 Score: 66
Period size: 27 Copynumber: 2.8 Consensus size: 28
4002728 TTAATTTTTA
*
4002738 TATTAAAATAAATATTATT-T-TTATTT
1 TATTAAAATAAATATTATTATACTATTT
* **
4002764 TATTTAAATTTCATATTATTATACTATTT
1 TA-TTAAAATAAATATTATTATACTATTT
4002793 TA-TAAAA-AAATATT-TTAT
1 TATTAAAATAAATATTATTAT
4002811 TACTCCAAGT
Statistics
Matches: 37, Mismatches: 7, Indels: 7
0.73 0.14 0.14
Matches are distributed among these distances:
25 4 0.11
26 7 0.19
27 18 0.49
28 1 0.03
29 7 0.19
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (28 bp):
TATTAAAATAAATATTATTATACTATTT
Found at i:4004334 original size:14 final size:14
Alignment explanation
Indices: 4004315--4004346 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
4004305 CTATCATCAA
4004315 TTATTAAGACATTT
1 TTATTAAGACATTT
4004329 TTATTAAGACATTT
1 TTATTAAGACATTT
4004343 TTAT
1 TTAT
4004347 GATAAACAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.53
Consensus pattern (14 bp):
TTATTAAGACATTT
Found at i:4005287 original size:44 final size:44
Alignment explanation
Indices: 4005218--4005313 Score: 138
Period size: 44 Copynumber: 2.2 Consensus size: 44
4005208 CCTATCGAAT
*
4005218 TGCAAGCCGAAGAGGCGGACAGTTTAAATGCAAGCCCGAGTGGG
1 TGCAAGCCGAAGAGGCGGACAGTTTAAATGCAAGCCCGAGAGGG
* * ** *
4005262 TGCAAGCCGAAGTGGTGGATGGTTTAAATGCAAGCTCGAGAGGG
1 TGCAAGCCGAAGAGGCGGACAGTTTAAATGCAAGCCCGAGAGGG
4005306 TGCAAGCC
1 TGCAAGCC
4005314 AAAAATGGCA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.28, C:0.19, G:0.36, T:0.17
Consensus pattern (44 bp):
TGCAAGCCGAAGAGGCGGACAGTTTAAATGCAAGCCCGAGAGGG
Found at i:4006143 original size:24 final size:24
Alignment explanation
Indices: 4006097--4006146 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
4006087 TTGAATCGTA
*
4006097 TTTTATAATTATTAATATTTTTAT
1 TTTTATAATTATTAATATATTTAT
*
4006121 TTTTATAATTTTTTAATA-ATTTAT
1 TTTTATAA-TTATTAATATATTTAT
4006145 TT
1 TT
4006147 GATTTGCACT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 15 0.65
25 8 0.35
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (24 bp):
TTTTATAATTATTAATATATTTAT
Found at i:4014215 original size:40 final size:40
Alignment explanation
Indices: 4014170--4014337 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
4014160 CGGAATATAA
4014170 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
4014210 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
4014250 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
4014290 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
4014330 CCGGATAT
1 CCGGATAT
4014338 CATTCAATTT
Statistics
Matches: 104, Mismatches: 23, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 103 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:4014320 original size:80 final size:80
Alignment explanation
Indices: 4014186--4014335 Score: 196
Period size: 80 Copynumber: 1.9 Consensus size: 80
4014176 ATAACCACGT
* *
4014186 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
4014251 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * ** * *
4014266 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
4014329 CCCGGAT
64 CCCGGAT
4014336 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
79 3 0.05
80 57 0.95
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:4021914 original size:24 final size:24
Alignment explanation
Indices: 4021887--4022025 Score: 251
Period size: 24 Copynumber: 5.8 Consensus size: 24
4021877 CTTATTATGT
**
4021887 TCGCACACATAGTGCCATAGCGAA
1 TCGCACACATAGTGCCATAGTAAA
4021911 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
4021935 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
4021959 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
4021983 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
4022007 TCGCACACATAGTGCCATA
1 TCGCACACATAGTGCCATA
4022026 TATTTCCAGC
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 111 1.00
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.20
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:4021917 original size:48 final size:46
Alignment explanation
Indices: 4021865--4022026 Score: 207
Period size: 48 Copynumber: 3.4 Consensus size: 46
4021855 ACCGAATGTG
* **
4021865 GCACACATAGTGCTTATTATGTTCGCACACATAGTGCCATAGCGAATC
1 GCACACATAGTGC-TA-TATGATCGCACACATAGTGCCATAGTAAATC
* *
4021913 GCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCTATA-T-GATCGCACACATAGTGCCATAGTAAATC
*
4021961 GCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCTATA-TG-ATCGCACACATAGTGCCATAGTAAATC
*
4022009 GCACACATAGTGCCATAT
1 GCACACATAGTGCTATAT
4022027 ATTTCCAGCA
Statistics
Matches: 105, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
46 2 0.02
47 3 0.03
48 100 0.95
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (46 bp):
GCACACATAGTGCTATATGATCGCACACATAGTGCCATAGTAAATC
Found at i:4029691 original size:24 final size:24
Alignment explanation
Indices: 4029664--4029802 Score: 251
Period size: 24 Copynumber: 5.8 Consensus size: 24
4029654 CTTATTATGT
**
4029664 TCGCACACATAGTGCCATAGCGAA
1 TCGCACACATAGTGCCATAGTAAA
4029688 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
4029712 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
4029736 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
4029760 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
4029784 TCGCACACATAGTGCCATA
1 TCGCACACATAGTGCCATA
4029803 TATTTCCAGC
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 111 1.00
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.20
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:4029694 original size:48 final size:46
Alignment explanation
Indices: 4029642--4029803 Score: 207
Period size: 48 Copynumber: 3.4 Consensus size: 46
4029632 ACCGAATGTG
* **
4029642 GCACACATAGTGCTTATTATGTTCGCACACATAGTGCCATAGCGAATC
1 GCACACATAGTGC-TA-TATGATCGCACACATAGTGCCATAGTAAATC
* *
4029690 GCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCTATA-T-GATCGCACACATAGTGCCATAGTAAATC
*
4029738 GCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCTATA-TG-ATCGCACACATAGTGCCATAGTAAATC
*
4029786 GCACACATAGTGCCATAT
1 GCACACATAGTGCTATAT
4029804 ATTTCCAGCA
Statistics
Matches: 105, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
46 2 0.02
47 3 0.03
48 100 0.95
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (46 bp):
GCACACATAGTGCTATATGATCGCACACATAGTGCCATAGTAAATC
Found at i:4035850 original size:19 final size:19
Alignment explanation
Indices: 4035813--4035854 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
4035803 CAGAAGTAAG
* * *
4035813 AAAAACAAAGTTTAGTAAA
1 AAAAACAAAATTAAATAAA
4035832 AAAAACAAAATTAAATAAA
1 AAAAACAAAATTAAATAAA
4035851 AAAA
1 AAAA
4035855 TAATGACTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.74, C:0.05, G:0.05, T:0.17
Consensus pattern (19 bp):
AAAAACAAAATTAAATAAA
Found at i:4043567 original size:14 final size:14
Alignment explanation
Indices: 4043548--4043577 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4043538 AATTCAAATT
4043548 TTGAGTTAATCGAA
1 TTGAGTTAATCGAA
*
4043562 TTGAGTTATTCGAA
1 TTGAGTTAATCGAA
4043576 TT
1 TT
4043578 ATTCGAGTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (14 bp):
TTGAGTTAATCGAA
Found at i:4043789 original size:18 final size:18
Alignment explanation
Indices: 4043725--4043790 Score: 53
Period size: 19 Copynumber: 3.6 Consensus size: 18
4043715 TCTCTCAACA
*
4043725 AAAATTTAAAAAAATT-C
1 AAAATTTATAAAAATTCC
* * * *
4043742 AAAATAATTTTTAAATTTCA
1 AAAAT--TTATAAAAATTCC
4043762 AAATATTTATAAAAATTCC
1 AAA-ATTTATAAAAATTCC
4043781 AAAATTTATA
1 AAAATTTATA
4043791 TTTTTAAAAA
Statistics
Matches: 36, Mismatches: 9, Indels: 7
0.69 0.17 0.13
Matches are distributed among these distances:
17 5 0.14
18 7 0.19
19 19 0.53
20 3 0.08
21 2 0.06
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (18 bp):
AAAATTTATAAAAATTCC
Found at i:4043812 original size:9 final size:9
Alignment explanation
Indices: 4043798--4043849 Score: 52
Period size: 10 Copynumber: 5.6 Consensus size: 9
4043788 ATATTTTTAA
4043798 AAAAAATAT
1 AAAAAATAT
*
4043807 AAAAAATTCT
1 AAAAAA-TAT
4043817 AAAAATATAT
1 AAAAA-ATAT
*
4043827 AAAGAAATTT
1 AAA-AAATAT
4043837 AAAAAAT-T
1 AAAAAATAT
4043845 AAAAA
1 AAAAA
4043850 TTTTCTAGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
8 6 0.16
9 10 0.27
10 18 0.49
11 3 0.08
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (9 bp):
AAAAAATAT
Found at i:4043826 original size:20 final size:18
Alignment explanation
Indices: 4043798--4043849 Score: 70
Period size: 20 Copynumber: 2.8 Consensus size: 18
4043788 ATATTTTTAA
4043798 AAAAAATATAAAAAATTCT
1 AAAAAATATAAAAAATT-T
4043817 AAAAATATATAAAGAAATTT
1 AAAAA-ATATAAA-AAATTT
4043837 AAAAAAT-TAAAAA
1 AAAAAATATAAAAA
4043850 TTTTCTAGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
17 2 0.06
18 4 0.13
19 7 0.23
20 13 0.42
21 5 0.16
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (18 bp):
AAAAAATATAAAAAATTT
Found at i:4056359 original size:27 final size:28
Alignment explanation
Indices: 4056322--4056461 Score: 184
Period size: 27 Copynumber: 5.2 Consensus size: 28
4056312 AGCATGGCTG
* *
4056322 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
4056348 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
4056376 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
4056403 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
4056430 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
4056457 CCAGA
1 CCAGA
4056462 ACGCTTCCTC
Statistics
Matches: 106, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
26 5 0.05
27 84 0.79
28 17 0.16
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:4058115 original size:26 final size:26
Alignment explanation
Indices: 4058079--4058188 Score: 159
Period size: 26 Copynumber: 4.2 Consensus size: 26
4058069 CATGAAATTC
4058079 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
4058105 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
** * *
4058131 TTATGTTGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
4058157 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
4058183 TTATCA
1 TTATCA
4058189 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
26 75 0.97
27 2 0.03
ACGTcount: A:0.35, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:4059933 original size:2 final size:2
Alignment explanation
Indices: 4059926--4059971 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
4059916 TAAATCTATT
4059926 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4059968 TA TA
1 TA TA
4059972 ACTCCTTTCA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4060427 original size:25 final size:25
Alignment explanation
Indices: 4060371--4060427 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 25
4060361 ACGTGTTTTT
*
4060371 TTTTGTTTCCATATTGTTTCATATA
1 TTTTGTTTCCATATTGTTTCATAAA
4060396 TTATTGTTT-CATATTGTTT-ACTAAA
1 TT-TTGTTTCCATATTGTTTCA-TAAA
4060421 CTTTTGT
1 -TTTTGT
4060428 ATTATTATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
24 1 0.04
25 19 0.68
26 8 0.29
ACGTcount: A:0.21, C:0.11, G:0.09, T:0.60
Consensus pattern (25 bp):
TTTTGTTTCCATATTGTTTCATAAA
Found at i:4068122 original size:43 final size:43
Alignment explanation
Indices: 4067944--4068120 Score: 239
Period size: 43 Copynumber: 4.1 Consensus size: 43
4067934 GCGTTTTTCT
* * * *
4067944 CTAAAGACCATGACTTTTAGCTGCGCTTTTCCTGCAAACGTCG
1 CTAAAGACCATGACCTTTAGCGGCGCTTTTCTTGCAAACGCCG
*
4067987 CTAAAGACCATGACCTTTAGCGGCGCTTTT-TTCGCAAACGCCA
1 CTAAAGACCATGACCTTTAGCGGCGCTTTTCTT-GCAAACGCCG
* * * * *
4068030 TTAAAGACCATGACCTTTAGCGGCGTTTTTCTCGTAAATGCCG
1 CTAAAGACCATGACCTTTAGCGGCGCTTTTCTTGCAAACGCCG
*
4068073 CTAAAAACCATGACCTTTAGCGGCGCTTTTCTTGCAAACGCCG
1 CTAAAGACCATGACCTTTAGCGGCGCTTTTCTTGCAAACGCCG
4068116 CTAAA
1 CTAAA
4068121 AAATATAACC
Statistics
Matches: 115, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
42 1 0.01
43 113 0.98
44 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (43 bp):
CTAAAGACCATGACCTTTAGCGGCGCTTTTCTTGCAAACGCCG
Found at i:4068205 original size:7 final size:7
Alignment explanation
Indices: 4068196--4068239 Score: 54
Period size: 7 Copynumber: 6.4 Consensus size: 7
4068186 TTTTTTATTT
*
4068196 TTTAAAT
1 TTTAAAC
4068203 TTTAAA-
1 TTTAAAC
*
4068209 TTTGAAC
1 TTTAAAC
4068216 TTTAAAC
1 TTTAAAC
4068223 TTTAAAC
1 TTTAAAC
*
4068230 TTTATAC
1 TTTAAAC
4068237 TTT
1 TTT
4068240 TAAGGATAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
6 5 0.15
7 28 0.85
ACGTcount: A:0.36, C:0.09, G:0.02, T:0.52
Consensus pattern (7 bp):
TTTAAAC
Found at i:4069166 original size:24 final size:24
Alignment explanation
Indices: 4069135--4069185 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
4069125 ACTTTCGTGA
4069135 AAACATTGATATCAAAACCACCGG
1 AAACATTGATATCAAAACCACCGG
4069159 AAACATTGATATCAAAACCACCGG
1 AAACATTGATATCAAAACCACCGG
4069183 AAA
1 AAA
4069186 ATCTTCCTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.49, C:0.24, G:0.12, T:0.16
Consensus pattern (24 bp):
AAACATTGATATCAAAACCACCGG
Found at i:4072531 original size:50 final size:50
Alignment explanation
Indices: 4072456--4072625 Score: 277
Period size: 50 Copynumber: 3.4 Consensus size: 50
4072446 CCGTGGCAAC
*
4072456 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTTGGCTACACTTATCTGATCAAGGACAAATGA
* *
4072506 AAGTGATAAGTAATAGCTTTGGCTACACTTATCTGATCAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTTGGCTACACTTATCTGATCAAGGACAAATGA
*
4072556 AAGTGATAAGTGATAGCTTTGGCTACACTTATCTGATCAATGACAAATGA
1 AAGTGATAAGTGATAGCTTTGGCTACACTTATCTGATCAAGGACAAATGA
* *
4072606 CAAGTGAAAAGTGGTAGCTT
1 -AAGTGATAAGTGATAGCTT
4072626 CTGCTACCTG
Statistics
Matches: 111, Mismatches: 8, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
50 94 0.85
51 17 0.15
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTTGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:4072647 original size:31 final size:31
Alignment explanation
Indices: 4072608--4072756 Score: 226
Period size: 31 Copynumber: 4.8 Consensus size: 31
4072598 ACAAATGACA
* *
4072608 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
*
4072639 CGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
* *
4072670 AGTTAAAATTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
*
4072701 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
* *
4072732 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTCCGGCTAC
4072757 AAGTGACAAG
Statistics
Matches: 107, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 107 1.00
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
Found at i:4072767 original size:7 final size:7
Alignment explanation
Indices: 4072755--4072786 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
4072745 AGCTTCGGCT
4072755 ACAAGTG
1 ACAAGTG
4072762 ACAAGTG
1 ACAAGTG
4072769 ACAAGTG
1 ACAAGTG
*
4072776 ATAAGTG
1 ACAAGTG
4072783 ACAA
1 ACAA
4072787 TTGATTTCCG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.47, C:0.12, G:0.25, T:0.16
Consensus pattern (7 bp):
ACAAGTG
Found at i:4072791 original size:14 final size:14
Alignment explanation
Indices: 4072755--4072791 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
4072745 AGCTTCGGCT
*
4072755 ACAAGTGACAAGTG
1 ACAAGTGATAAGTG
4072769 ACAAGTGATAAGTG
1 ACAAGTGATAAGTG
*
4072783 ACAATTGAT
1 ACAAGTGAT
4072792 TTCCGTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.43, C:0.11, G:0.24, T:0.22
Consensus pattern (14 bp):
ACAAGTGATAAGTG
Found at i:4072870 original size:47 final size:46
Alignment explanation
Indices: 4072795--4072918 Score: 160
Period size: 47 Copynumber: 2.7 Consensus size: 46
4072785 AATTGATTTC
* *
4072795 CGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTATT
1 CGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATG--ATT
* *
4072843 -GTATTAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATT
1 CGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATT
* * *
4072888 CGTGTAAGACCATAGCTGGGCTATGGCATCA
1 CGTATAAGACCATATCTGGGATATGGCATCA
4072919 TTATGTGAAG
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
45 3 0.04
46 26 0.39
47 38 0.57
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (46 bp):
CGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATT
Found at i:4074304 original size:45 final size:45
Alignment explanation
Indices: 4074254--4074345 Score: 184
Period size: 45 Copynumber: 2.0 Consensus size: 45
4074244 ATCCAGACAT
4074254 AGACCAAAAGACTAAATTCAATAGTGCTGAAAATATAGCCACCAC
1 AGACCAAAAGACTAAATTCAATAGTGCTGAAAATATAGCCACCAC
4074299 AGACCAAAAGACTAAATTCAATAGTGCTGAAAATATAGCCACCAC
1 AGACCAAAAGACTAAATTCAATAGTGCTGAAAATATAGCCACCAC
4074344 AG
1 AG
4074346 GCAAAGGGAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.47, C:0.22, G:0.14, T:0.17
Consensus pattern (45 bp):
AGACCAAAAGACTAAATTCAATAGTGCTGAAAATATAGCCACCAC
Found at i:4076046 original size:40 final size:42
Alignment explanation
Indices: 4076001--4076128 Score: 129
Period size: 42 Copynumber: 3.1 Consensus size: 42
4075991 AAAATAATGG
* * *
4076001 TTTTTTTGTGGTG-TTTTGATAAAAACGCCATTATAGCTCAA
1 TTTTTTTGTGGCGTTTTTAATAAAAACGCCACTATAGCTCAA
* * *
4076042 -TTTTTTATGGCGTTTTTAATAAAAACGCCACTATAGTTTAA
1 TTTTTTTGTGGCGTTTTTAATAAAAACGCCACTATAGCTCAA
* **
4076083 TTTTTTTGTGGC-ATTTTACCCAAAAACGCCACTATTA-CTCAA
1 TTTTTTTGTGGCGTTTTTA-ATAAAAACGCCACTA-TAGCTCAA
4076125 TTTT
1 TTTT
4076129 GATTTTTTTC
Statistics
Matches: 71, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
40 10 0.14
41 29 0.41
42 30 0.42
43 2 0.03
ACGTcount: A:0.28, C:0.16, G:0.12, T:0.44
Consensus pattern (42 bp):
TTTTTTTGTGGCGTTTTTAATAAAAACGCCACTATAGCTCAA
Found at i:4076351 original size:36 final size:35
Alignment explanation
Indices: 4076265--4076359 Score: 145
Period size: 36 Copynumber: 2.7 Consensus size: 35
4076255 TTAAATATTA
* *
4076265 AATTTTTAAGTTTTTCATTTTTTATTTTTTATTTTT
1 AATTTTTAA-TTTTTAATTTTTAATTTTTTATTTTT
4076301 AATTTTTAATTTTTAATTTTTAATTTTTTATTTTTT
1 AATTTTTAATTTTTAATTTTTAATTTTTTA-TTTTT
*
4076337 AATTTTTAATTTTTAAATTTTAA
1 AATTTTTAATTTTTAATTTTTAA
4076360 AATTTTTTTG
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
35 19 0.35
36 36 0.65
ACGTcount: A:0.26, C:0.01, G:0.01, T:0.72
Consensus pattern (35 bp):
AATTTTTAATTTTTAATTTTTAATTTTTTATTTTT
Found at i:4076360 original size:7 final size:7
Alignment explanation
Indices: 4076265--4076359 Score: 127
Period size: 7 Copynumber: 13.3 Consensus size: 7
4076255 TTAAATATTA
4076265 AATTTTT
1 AATTTTT
4076272 AAGTTTTT
1 AA-TTTTT
*
4076280 CATTTTT
1 AATTTTT
*
4076287 TATTTTT
1 AATTTTT
*
4076294 TATTTTT
1 AATTTTT
4076301 AATTTTT
1 AATTTTT
4076308 AATTTTT
1 AATTTTT
4076315 AATTTTT
1 AATTTTT
4076322 AATTTTTT
1 AA-TTTTT
*
4076330 ATTTTTT
1 AATTTTT
4076337 AATTTTT
1 AATTTTT
4076344 AATTTTT
1 AATTTTT
*
4076351 AAATTTT
1 AATTTTT
4076358 AA
1 AA
4076360 AATTTTTTTG
Statistics
Matches: 80, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
7 68 0.85
8 12 0.15
ACGTcount: A:0.26, C:0.01, G:0.01, T:0.72
Consensus pattern (7 bp):
AATTTTT
Found at i:4076985 original size:15 final size:14
Alignment explanation
Indices: 4076952--4076994 Score: 61
Period size: 15 Copynumber: 3.1 Consensus size: 14
4076942 TTATCTCTTA
4076952 CATAA-CCATAAAC
1 CATAATCCATAAAC
*
4076965 CATAATCCCTAAAC
1 CATAATCCATAAAC
4076979 TCATAATCCATAAAC
1 -CATAATCCATAAAC
4076994 C
1 C
4076995 TTAAAATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
13 5 0.19
14 8 0.31
15 13 0.50
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.21
Consensus pattern (14 bp):
CATAATCCATAAAC
Found at i:4076999 original size:22 final size:22
Alignment explanation
Indices: 4076958--4077048 Score: 71
Period size: 22 Copynumber: 4.2 Consensus size: 22
4076948 CTTACATAAC
*
4076958 CATAAACCATAATCCCTAAACT
1 CATAAACCATAAACCCTAAACT
* * *
4076980 CATAATCCATAAACCTTAAAAT
1 CATAAACCATAAACCCTAAACT
* * **
4077002 AAT-AACTCATACACTTTAAAC-
1 CATAAAC-CATAAACCCTAAACT
*
4077023 CCTAAACCATAAACCCTAAACT
1 CATAAACCATAAACCCTAAACT
4077045 -ATAA
1 CATAA
4077049 TGATAATTAA
Statistics
Matches: 51, Mismatches: 15, Indels: 7
0.70 0.21 0.10
Matches are distributed among these distances:
21 17 0.33
22 34 0.67
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.24
Consensus pattern (22 bp):
CATAAACCATAAACCCTAAACT
Found at i:4077037 original size:14 final size:14
Alignment explanation
Indices: 4077018--4077048 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
4077008 TCATACACTT
4077018 TAAACCCTAAACCA
1 TAAACCCTAAACCA
*
4077032 TAAACCCTAAACTA
1 TAAACCCTAAACCA
4077046 TAA
1 TAA
4077049 TGATAATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.52, C:0.29, G:0.00, T:0.19
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:4081250 original size:37 final size:37
Alignment explanation
Indices: 4081204--4081281 Score: 120
Period size: 37 Copynumber: 2.1 Consensus size: 37
4081194 GACTGCAATC
*
4081204 AGCTTGCAACCTCCAGTTATTTGAGTTAGCCGAGTTA
1 AGCTCGCAACCTCCAGTTATTTGAGTTAGCCGAGTTA
* **
4081241 AGCTCGCAACCTCTAGTTATTTGAGTTAGTTGAGTTA
1 AGCTCGCAACCTCCAGTTATTTGAGTTAGCCGAGTTA
4081278 AGCT
1 AGCT
4081282 TGTAACTCTG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (37 bp):
AGCTCGCAACCTCCAGTTATTTGAGTTAGCCGAGTTA
Found at i:4082134 original size:13 final size:12
Alignment explanation
Indices: 4082112--4082141 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
4082102 CATGAATGAA
4082112 ATTAATAAATAT
1 ATTAATAAATAT
4082124 ATTATATAAATAT
1 ATTA-ATAAATAT
4082137 ATTAA
1 ATTAA
4082142 AAACTGATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
ATTAATAAATAT
Found at i:4084605 original size:144 final size:144
Alignment explanation
Indices: 4084427--4084953 Score: 582
Period size: 144 Copynumber: 3.7 Consensus size: 144
4084417 AAATCTATTA
** * * *
4084427 AATGGTTCAATCCCTTCGCGTCTTGGTAAGTTGTCCAAATTGCATACCTTAAGACTTGATTCAAA
1 AATGGTTCAATCCCTTCTTGTATTGGTAATTTATCCAAATTGCATACCTTAAGACTTGATTCAAA
* ** * * *
4084492 TCTATTAGAAGGTCCTATTCCTGAAGAAATTTGTGACTTAGCAAATTTAACTTCATT-AAGCCTC
66 TCTATTAAAAGGTCCTATTCCCCAAGAAATTTGTAATTTAGCAAATTTAACTTCATTGTA-CCTC
*
4084556 TACCAAAATAAATTG
130 TACCAAAACAAATTG
* * * * ** *
4084571 AATGGTTCAATCCCTTCTTGTCTTGGTAAATTGTCCAAATTGGATACCTTACCACTTTATTCAAA
1 AATGGTTCAATCCCTTCTTGTATTGGTAATTTATCCAAATTGCATACCTTAAGACTTGATTCAAA
*
4084636 TCTATTAGAAGGTCCTATTCCCCAA-AAATTTTGTAATTTAGCAAATTTAAC-TCATTGTACCTC
66 TCTATTAAAAGGTCCTATTCCCCAAGAAA-TTTGTAATTTAGCAAATTTAACTTCATTGTACCTC
*
4084699 TTCCAAAACAAATTG
130 TACCAAAACAAATTG
* * * * * * * * *
4084714 AGTGGTTTAATCCCTTCTTATATTGGTAGTTTAT-CAAAGATGCGGTA-CTTAAGCCTTGGTTCT
1 AATGGTTCAATCCCTTCTTGTATTGGTAATTTATCCAAA-TTGC-ATACCTTAAGACTTGATTCA
* *
4084777 AATCTATTAAAAGGTCATATTCCCCAAGAAATTTGTAATTTAGAAAATTTAACTTCATTGTACCT
64 AATCTATTAAAAGGTCCTATTCCCCAAGAAATTTGTAATTTAGCAAATTTAACTTCATTGTACCT
*
4084842 CTCCCAAAACAAATTG
129 CTACCAAAACAAATTG
** * ** * *
4084858 AGGGGTTCAATCCCATCTTGTATTGCCAATTTATCCAATTTGGATACCTT-AGAACTTGATTCAA
1 AATGGTTCAATCCCTTCTTGTATTGGTAATTTATCCAAATTGCATACCTTAAG-ACTTGATTCAA
*
4084922 ATCTATTAAAAGGTCCTA-TCCCAAAAGAAATT
65 ATCTATTAAAAGGTCCTATTCCC-CAAGAAATT
4084954 GGCAAGCTTT
Statistics
Matches: 323, Mismatches: 50, Indels: 20
0.82 0.13 0.05
Matches are distributed among these distances:
142 4 0.01
143 118 0.37
144 198 0.61
145 3 0.01
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.35
Consensus pattern (144 bp):
AATGGTTCAATCCCTTCTTGTATTGGTAATTTATCCAAATTGCATACCTTAAGACTTGATTCAAA
TCTATTAAAAGGTCCTATTCCCCAAGAAATTTGTAATTTAGCAAATTTAACTTCATTGTACCTCT
ACCAAAACAAATTG
Found at i:4088238 original size:54 final size:54
Alignment explanation
Indices: 4088139--4088283 Score: 238
Period size: 54 Copynumber: 2.7 Consensus size: 54
4088129 TGGAGGAAGC
*
4088139 GTCCTGGTGGCTATGCCACAATTTATCTAATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAA-TTATCTGATCTGGTGGCTCTGCCACATATATCT
4088194 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* *
4088248 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
4088284 ACTTCGTCAC
Statistics
Matches: 86, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
53 6 0.07
54 59 0.69
55 21 0.24
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:4088280 original size:27 final size:27
Alignment explanation
Indices: 4088142--4088301 Score: 177
Period size: 27 Copynumber: 5.9 Consensus size: 27
4088132 AGGAAGCGTC
* *
4088142 CTGGTGGCTATGCCACAATTTATCT-AAT
1 CTGGTGGCTCTGCCACAA--TATCTGTAT
*
4088170 CTGGTGGCTCTGCCACATATATCTGT-C
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
*
4088197 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
4088224 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
4088251 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
4088278 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
4088302 GCAGCCTCGC
Statistics
Matches: 116, Mismatches: 8, Indels: 17
0.82 0.06 0.12
Matches are distributed among these distances:
26 10 0.09
27 88 0.76
28 17 0.15
29 1 0.01
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:4088295 original size:81 final size:81
Alignment explanation
Indices: 4088142--4088301 Score: 209
Period size: 81 Copynumber: 2.0 Consensus size: 81
4088132 AGGAAGCGTC
* *
4088142 CTGGTGGCTATGCCACAATTTATCTAATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTA
1 CTGGTGGCTATGCCACAATATATCTAATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTA
4088207 TGCCACAATTATCTGAT
66 TGCCACAA-TATCTGAT
* ** *
4088224 CTGGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACA-ATATCTGTATCTGGTGACT
1 CTGGTGGCTATGCCACAATATATCTAATCTGGTGGCTCTGCCACATATATCTGT-CCTGGTGACT
*
4088287 -TCGTCACAATATCTG
65 AT-GCCACAATATCTG
4088302 GCAGCCTCGC
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
80 15 0.22
81 39 0.57
82 15 0.22
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.34
Consensus pattern (81 bp):
CTGGTGGCTATGCCACAATATATCTAATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTA
TGCCACAATATCTGAT
Found at i:4092304 original size:26 final size:26
Alignment explanation
Indices: 4092268--4092377 Score: 166
Period size: 26 Copynumber: 4.2 Consensus size: 26
4092258 CATGAAATTC
4092268 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
4092294 TTATCATGAAACATGTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
4092320 TTATCATGGAACATTTAGCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
4092346 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
4092372 TTATCA
1 TTATCA
4092378 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:4097090 original size:29 final size:28
Alignment explanation
Indices: 4097056--4097158 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 28
4097046 TAATCGATCA
*
4097056 CGCACACTTAGTGCCATGTGATTTAAGCT
1 CGCACACTTAGTGCCATAT-ATTTAAGCT
* **
4097085 CGCACACATAGTGCCATATAATTTAAATT
1 CGCACACTTAGTGCCATAT-ATTTAAGCT
4097114 CGCACACTTAGTGCCATACT-TTTCAAGCT
1 CGCACACTTAGTGCCATA-TATTT-AAGCT
*
4097143 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
4097159 ATCTTGTCAC
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
28 3 0.05
29 59 0.94
30 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTTAAGCT
Found at i:4105270 original size:29 final size:28
Alignment explanation
Indices: 4105236--4105338 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 28
4105226 TAATCGATCA
*
4105236 CGCACACTTAGTGCCATGTGATTTAAGCT
1 CGCACACTTAGTGCCATAT-ATTTAAGCT
* **
4105265 CGCACACATAGTGCCATATAATTTAAATT
1 CGCACACTTAGTGCCATAT-ATTTAAGCT
4105294 CGCACACTTAGTGCCATACT-TTTCAAGCT
1 CGCACACTTAGTGCCATA-TATTT-AAGCT
*
4105323 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
4105339 ATCTTGTCAC
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
28 3 0.05
29 59 0.94
30 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTTAAGCT
Found at i:4107834 original size:47 final size:47
Alignment explanation
Indices: 4107765--4107858 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
4107755 CACTTATCCA
4107765 ATCAGACCATTATTGTGGGCACATGTGGTTATTTAGCTCCAGGTGAT
1 ATCAGACCATTATTGTGGGCACATGTGGTTATTTAGCTCCAGGTGAT
4107812 ATCAGACCATTATTGTGGGCACATGTGGTTATTTAGCTCCAGGTGAT
1 ATCAGACCATTATTGTGGGCACATGTGGTTATTTAGCTCCAGGTGAT
4107859 TTTCTTTACT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (47 bp):
ATCAGACCATTATTGTGGGCACATGTGGTTATTTAGCTCCAGGTGAT
Found at i:4108568 original size:18 final size:19
Alignment explanation
Indices: 4108542--4108580 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
4108532 CAAACAACAT
4108542 AAAGATAAT-ATATAAAATA
1 AAAGATAATGATA-AAAATA
4108561 AAAG-TAATGATAAAAATA
1 AAAGATAATGATAAAAATA
4108579 AA
1 AA
4108581 TTCTGAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (19 bp):
AAAGATAATGATAAAAATA
Found at i:4109248 original size:10 final size:9
Alignment explanation
Indices: 4109233--4109287 Score: 56
Period size: 10 Copynumber: 5.7 Consensus size: 9
4109223 AAATTTTAGG
4109233 ATTTATTTT
1 ATTTATTTT
4109242 CATTTATATTT
1 -ATTTAT-TTT
4109253 ATTTATCTTT
1 ATTTAT-TTT
*
4109263 AATTATTTTT
1 ATTTA-TTTT
*
4109273 ATTTATTGT
1 ATTTATTTT
4109282 ATTTAT
1 ATTTAT
4109288 CTTTTAGAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
9 9 0.23
10 26 0.67
11 4 0.10
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.69
Consensus pattern (9 bp):
ATTTATTTT
Found at i:4109292 original size:20 final size:20
Alignment explanation
Indices: 4109245--4109293 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
4109235 TTATTTTCAT
* *
4109245 TTATATTTATTTATCTTTAA
1 TTATTTTTATTTATCTGTAA
*
4109265 TTATTTTTATTTAT-TGTAT
1 TTATTTTTATTTATCTGTAA
4109284 TTATCTTTTA
1 TTAT-TTTTA
4109294 GAATTTCATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 7 0.28
20 18 0.72
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.69
Consensus pattern (20 bp):
TTATTTTTATTTATCTGTAA
Found at i:4109299 original size:29 final size:30
Alignment explanation
Indices: 4109237--4109303 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 30
4109227 TTTAGGATTT
* **
4109237 ATTTTCATTTATATTTATTTATCTTTAATT
1 ATTTTCATTTATATGTATTTATCTTTAAGA
* *
4109267 ATTTTTATTTAT-TGTATTTATCTTTTAGA
1 ATTTTCATTTATATGTATTTATCTTTAAGA
4109296 A-TTTCATT
1 ATTTTCATT
4109304 AGAAATAGAC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
28 6 0.19
29 14 0.45
30 11 0.35
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.66
Consensus pattern (30 bp):
ATTTTCATTTATATGTATTTATCTTTAAGA
Found at i:4115759 original size:45 final size:46
Alignment explanation
Indices: 4115686--4115773 Score: 126
Period size: 45 Copynumber: 1.9 Consensus size: 46
4115676 CATTTAAGCA
*
4115686 TTTAGATCAAAAGCCTGAAAAACAAAA-TTGCATATTTTTCTTAAT
1 TTTAGATCAAAAGCCTGAAAAACAAAATTTACATATTTTTCTTAAT
* *
4115731 TTTAGATCAAAAGCTTGAAAAA-AGAAATTTATATATTTTTCTT
1 TTTAGATCAAAAGCCTGAAAAACA-AAATTTACATATTTTTCTT
4115774 GAAGAGTATT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
44 1 0.03
45 24 0.63
46 13 0.34
ACGTcount: A:0.42, C:0.10, G:0.09, T:0.39
Consensus pattern (46 bp):
TTTAGATCAAAAGCCTGAAAAACAAAATTTACATATTTTTCTTAAT
Found at i:4119163 original size:14 final size:13
Alignment explanation
Indices: 4119144--4119178 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 13
4119134 TGTTTTGGGC
4119144 TATTTATTGTATTT
1 TATTTATT-TATTT
4119158 TATTTATTTATTT
1 TATTTATTTATTT
4119171 TGATTTAT
1 T-ATTTAT
4119179 AATAGGCCGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 6 0.30
14 14 0.70
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (13 bp):
TATTTATTTATTT
Found at i:4120314 original size:26 final size:26
Alignment explanation
Indices: 4120284--4120339 Score: 80
Period size: 25 Copynumber: 2.2 Consensus size: 26
4120274 TTGATAGTTA
*
4120284 ATACAAAG-TCATATATGACCTTTTAG
1 ATAC-AAGTTCATAAATGACCTTTTAG
4120310 ATAC-AGTTCATAAATGACCTTTTAG
1 ATACAAGTTCATAAATGACCTTTTAG
4120335 ATACA
1 ATACA
4120340 GTCCATGCTC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 2 0.07
25 21 0.78
26 4 0.15
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.34
Consensus pattern (26 bp):
ATACAAGTTCATAAATGACCTTTTAG
Found at i:4120321 original size:25 final size:25
Alignment explanation
Indices: 4120292--4120341 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
4120282 TAATACAAAG
*
4120292 TCATATATGACCTTTTAGATACAGT
1 TCATAAATGACCTTTTAGATACAGT
4120317 TCATAAATGACCTTTTAGATACAGT
1 TCATAAATGACCTTTTAGATACAGT
4120342 CCATGCTCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (25 bp):
TCATAAATGACCTTTTAGATACAGT
Found at i:4129731 original size:9 final size:9
Alignment explanation
Indices: 4129641--4129772 Score: 63
Period size: 10 Copynumber: 13.8 Consensus size: 9
4129631 TAATTAAAGA
4129641 TATAAAAAT
1 TATAAAAAT
**
4129650 TATTAAATTT
1 TA-TAAAAAT
4129660 TAATAAAAAT
1 T-ATAAAAAT
* *
4129670 ATTTAAAAGT
1 -TATAAAAAT
*
4129680 TAGAAAAAGT
1 TATAAAAA-T
4129690 TA-AAAAAT
1 TATAAAAAT
4129698 TATAAAAAAT
1 TAT-AAAAAT
* **
4129708 TGTACAATTT
1 TATA-AAAAT
4129718 TATAAAAAT
1 TATAAAAAT
4129727 TATAAAAAAAAT
1 TAT---AAAAAT
4129739 TAT-AAAAT
1 TATAAAAAT
4129747 ATATAGAAAA-
1 -TATA-AAAAT
*
4129757 TAGAAAAAT
1 TATAAAAAT
4129766 TATAAAA
1 TATAAAA
4129773 TTTTATAAAG
Statistics
Matches: 92, Mismatches: 17, Indels: 28
0.67 0.12 0.20
Matches are distributed among these distances:
8 12 0.13
9 31 0.34
10 34 0.37
11 6 0.07
12 9 0.10
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.33
Consensus pattern (9 bp):
TATAAAAAT
Found at i:4129738 original size:12 final size:12
Alignment explanation
Indices: 4129721--4129745 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4129711 ACAATTTTAT
4129721 AAAAATTATAAA
1 AAAAATTATAAA
4129733 AAAAATTATAAA
1 AAAAATTATAAA
4129745 A
1 A
4129746 TATATAGAAA
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAAATTATAAA
Found at i:4141565 original size:21 final size:21
Alignment explanation
Indices: 4141517--4141567 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
4141507 ATTTAAATTT
4141517 AAAAA-TATTTAAAAAATAAA
1 AAAAATTATTTAAAAAATAAA
*
4141537 AAACAATTATTT-AAAACTATAA
1 AAA-AATTATTTAAAAAATA-AA
4141559 AAAAATTAT
1 AAAAATTAT
4141568 AAACTTTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 3 0.11
21 14 0.52
22 10 0.37
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (21 bp):
AAAAATTATTTAAAAAATAAA
Found at i:4144994 original size:15 final size:15
Alignment explanation
Indices: 4144974--4145003 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
4144964 CATTTTATTT
4144974 ATATTAGGATAATTA
1 ATATTAGGATAATTA
4144989 ATATTAGGATAATTA
1 ATATTAGGATAATTA
4145004 TTAGGATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.40
Consensus pattern (15 bp):
ATATTAGGATAATTA
Found at i:4145068 original size:20 final size:20
Alignment explanation
Indices: 4145028--4145075 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
4145018 ATTTTAAGAT
*
4145028 TTTAT-TTTAATTATCTTTA
1 TTTATCTTTAATTATCTGTA
4145047 TTTATCTTTAATTAAT-TGTA
1 TTTATCTTTAATT-ATCTGTA
4145067 TTTATCTTT
1 TTTATCTTT
4145076 TTAGAATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 5 0.19
20 19 0.73
21 2 0.08
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTATCTTTAATTATCTGTA
Found at i:4148720 original size:20 final size:20
Alignment explanation
Indices: 4148695--4148738 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
4148685 CAACCCAATT
4148695 TTTTAT-TT-TTATTTTATTTA
1 TTTTATCTTATTA-TTTA-TTA
4148715 TTTTATCTTATTATTTATTA
1 TTTTATCTTATTATTTATTA
4148735 TTTT
1 TTTT
4148739 CAGATATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 13 0.59
21 6 0.27
22 3 0.14
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTTATCTTATTATTTATTA
Found at i:4149601 original size:17 final size:17
Alignment explanation
Indices: 4149579--4149611 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
4149569 ATTCTATAAC
4149579 AAAAAGAAAAAAAAAGA
1 AAAAAGAAAAAAAAAGA
4149596 AAAAAGAAAAAAAAAG
1 AAAAAGAAAAAAAAAG
4149612 TCATATTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (17 bp):
AAAAAGAAAAAAAAAGA
Found at i:4150198 original size:15 final size:15
Alignment explanation
Indices: 4150178--4150207 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
4150168 CATTTTATTT
4150178 ATATTAGGATAATTA
1 ATATTAGGATAATTA
4150193 ATATTAGGATAATTA
1 ATATTAGGATAATTA
4150208 TTAGGATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.40
Consensus pattern (15 bp):
ATATTAGGATAATTA
Found at i:4151787 original size:85 final size:86
Alignment explanation
Indices: 4151573--4151813 Score: 452
Period size: 85 Copynumber: 2.8 Consensus size: 86
4151563 GGAAAAAAAT
*
4151573 GCCGCTAAAGGTCAAGGCTTTTAGC-G-GTTTGTGGTAAAAGCGCTGCTAAAGGTCAAGGCTTTT
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCAAGGCTTTT
4151636 AGCGGCGTTTGTGGTAAAAGC
66 AGCGGCGTTTGTGGTAAAAGC
4151657 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCAAGGCTTTT
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCAAGGCTTTT
4151722 AGCGGCGTTTGTGGT-AAAGC
66 AGCGGCGTTTGTGGTAAAAGC
4151742 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCAAGGCTTTT
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCAAGGCTTTT
4151807 AGCGGCG
66 AGCGGCG
4151814 CTTTTTTTAC
Statistics
Matches: 154, Mismatches: 1, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
84 25 0.16
85 78 0.51
86 51 0.33
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.26
Consensus pattern (86 bp):
GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCAAGGCTTTT
AGCGGCGTTTGTGGTAAAAGC
Found at i:4151836 original size:43 final size:43
Alignment explanation
Indices: 4151573--4151813 Score: 452
Period size: 43 Copynumber: 5.7 Consensus size: 43
4151563 GGAAAAAAAT
4151573 GCCGCTAAAGGTCAAGGCTTTTAGC-G-GTTTGTGGTAAAAGC
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAAGC
*
4151614 GCTGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAAGC
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAAGC
4151657 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAAGC
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAAGC
4151700 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGT-AAAGC
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAAGC
4151742 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAAGC
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAAGC
4151785 GCCGCTAAAGGTCAAGGCTTTTAGCGGCG
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCG
4151814 CTTTTTTTAC
Statistics
Matches: 195, Mismatches: 2, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
41 24 0.12
42 43 0.22
43 128 0.66
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.26
Consensus pattern (43 bp):
GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAAGC
Found at i:4151836 original size:128 final size:127
Alignment explanation
Indices: 4151573--4151813 Score: 448
Period size: 128 Copynumber: 1.9 Consensus size: 127
4151563 GGAAAAAAAT
*
4151573 GCCGCTAAAGGTCAAGGCTTTTAGCGGTTTGTGGTAAAAGCGCTGCTAAAGGTCAAGGCTTTTAG
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGTTTGTGGTAAAAGCGCCGCTAAAGGTCAAGGCTTTTAG
4151638 CGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAAGC
66 CGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAAGC
4151700 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGT-AAAGCGCCGCTAAAGGTCAAGGCTTTT
1 GCCGCTAAAGGTCAAGGCTTTTAGC-G-GTTTGTGGTAAAAGCGCCGCTAAAGGTCAAGGCTTTT
4151764 AGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCG
64 AGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCG
4151814 CTTTTTTTAC
Statistics
Matches: 111, Mismatches: 1, Indels: 3
0.97 0.01 0.03
Matches are distributed among these distances:
127 25 0.23
128 77 0.69
129 9 0.08
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.26
Consensus pattern (127 bp):
GCCGCTAAAGGTCAAGGCTTTTAGCGGTTTGTGGTAAAAGCGCCGCTAAAGGTCAAGGCTTTTAG
CGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAAGC
Found at i:4151920 original size:31 final size:31
Alignment explanation
Indices: 4151885--4151951 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
4151875 CTTCCTGCAT
* *
4151885 TAAAATCCAACCAAATACAACAAATATAATA
1 TAAAATCCAACCAAAAACAACAAATATAACA
* * * *
4151916 TAAAATGCAGCCAAAAACAGCAAATTTAACA
1 TAAAATCCAACCAAAAACAACAAATATAACA
4151947 TAAAA
1 TAAAA
4151952 AATACAACCA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.60, C:0.18, G:0.04, T:0.18
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAACA
Found at i:4151963 original size:33 final size:31
Alignment explanation
Indices: 4151886--4151964 Score: 77
Period size: 31 Copynumber: 2.5 Consensus size: 31
4151876 TTCCTGCATT
* * *
4151886 AAAATCCAACCAAATACAACAAATATAATAT
1 AAAATACAACCAAAAACAACAAATATAATAA
* * * *
4151917 AAAATGCAGCCAAAAACAGCAAATTTAACATAA
1 AAAATACAACCAAAAACAACAAATAT-A-ATAA
4151950 AAAATACAACCAAAA
1 AAAATACAACCAAAA
4151965 TATTAATTCT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
31 21 0.55
32 1 0.03
33 16 0.42
ACGTcount: A:0.62, C:0.19, G:0.04, T:0.15
Consensus pattern (31 bp):
AAAATACAACCAAAAACAACAAATATAATAA
Found at i:4152233 original size:21 final size:21
Alignment explanation
Indices: 4152209--4152254 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
4152199 GCTCGTGCCT
*
4152209 CTGCCTCTCTCGCTGCAGCCG
1 CTGCCTCCCTCGCTGCAGCCG
* * *
4152230 CTGCCTCCCTCTCTGCTGCCT
1 CTGCCTCCCTCGCTGCAGCCG
4152251 CTGC
1 CTGC
4152255 TCTAAGTTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.02, C:0.50, G:0.20, T:0.28
Consensus pattern (21 bp):
CTGCCTCCCTCGCTGCAGCCG
Found at i:4157915 original size:9 final size:9
Alignment explanation
Indices: 4157901--4158126 Score: 143
Period size: 9 Copynumber: 24.6 Consensus size: 9
4157891 TATTTAAGTA
4157901 TTATGTAAG
1 TTATGTAAG
*
4157910 TTATGTAAT
1 TTATGTAAG
*
4157919 TTATGATATG
1 TTATG-TAAG
* * *
4157929 ATATAT-AT
1 TTATGTAAG
*
4157937 TTATGTAAA
1 TTATGTAAG
* *
4157946 TTATAT-AT
1 TTATGTAAG
*
4157954 TTATCTAAG
1 TTATGTAAG
*
4157963 TTATATAAG
1 TTATGTAAG
4157972 TTATGTAAG
1 TTATGTAAG
*
4157981 TTATGTAAA
1 TTATGTAAG
*
4157990 TTATGATATAAAA
1 TTATG---T-AAG
*
4158003 TATATTTAAG
1 T-TATGTAAG
4158013 TATTATGTAAG
1 --TTATGTAAG
4158024 TTATGTAAG
1 TTATGTAAG
* *
4158033 TTATAT-AT
1 TTATGTAAG
*
4158041 TTATCTAAG
1 TTATGTAAG
*
4158050 TTATATAAG
1 TTATGTAAG
*
4158059 TTATATAAG
1 TTATGTAAG
*
4158068 TTATGTATG
1 TTATGTAAG
*
4158077 TTATATAAG
1 TTATGTAAG
4158086 TTATGTAAG
1 TTATGTAAG
* *
4158095 TTATATATG
1 TTATGTAAG
*
4158104 TTATATAAG
1 TTATGTAAG
*
4158113 TTATGTAAA
1 TTATGTAAG
4158122 TTATG
1 TTATG
4158127 ATATCAAATA
Statistics
Matches: 171, Mismatches: 35, Indels: 22
0.75 0.15 0.10
Matches are distributed among these distances:
8 16 0.09
9 131 0.77
10 7 0.04
11 8 0.05
12 2 0.01
13 4 0.02
14 3 0.02
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:4157980 original size:18 final size:18
Alignment explanation
Indices: 4157901--4158126 Score: 161
Period size: 18 Copynumber: 12.3 Consensus size: 18
4157891 TATTTAAGTA
* *
4157901 TTATGTAAGTTATGTAAT
1 TTATGTAAGTTATATAAG
* * *
4157919 TTATGATATGATATAT-AT
1 TTATG-TAAGTTATATAAG
* *
4157937 TTATGTAAATTATAT-AT
1 TTATGTAAGTTATATAAG
*
4157954 TTATCTAAGTTATATAAG
1 TTATGTAAGTTATATAAG
* *
4157972 TTATGTAAGTTATGTAAA
1 TTATGTAAGTTATATAAG
* *
4157990 TTATGATATAAAATATATTTAAG
1 TTATG---T-AAGT-TATATAAG
*
4158013 TATTATGTAAGTTATGTAAG
1 --TTATGTAAGTTATATAAG
* * *
4158033 TTATAT-ATTTATCTAAG
1 TTATGTAAGTTATATAAG
*
4158050 TTATATAAGTTATATAAG
1 TTATGTAAGTTATATAAG
*
4158068 TTATGTATGTTATATAAG
1 TTATGTAAGTTATATAAG
*
4158086 TTATGTAAGTTATATATG
1 TTATGTAAGTTATATAAG
* * *
4158104 TTATATAAGTTATGTAAA
1 TTATGTAAGTTATATAAG
4158122 TTATG
1 TTATG
4158127 ATATCAAATA
Statistics
Matches: 167, Mismatches: 31, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
17 37 0.22
18 97 0.58
19 7 0.04
20 7 0.04
21 4 0.02
22 4 0.02
23 6 0.04
25 5 0.03
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.48
Consensus pattern (18 bp):
TTATGTAAGTTATATAAG
Found at i:4157993 original size:27 final size:27
Alignment explanation
Indices: 4157954--4158126 Score: 159
Period size: 27 Copynumber: 6.2 Consensus size: 27
4157944 AATTATATAT
*
4157954 TTATCTAAGTTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
* * *
4157981 TTATGTAAATTATGATATAAAATATATTTAAG
1 TTATGT-AAGT-T-ATAT-AAGT-TATGTAAG
* * *
4158013 TATTATGTAAGTTATGTAAGTTATAT-AT
1 --TTATGTAAGTTATATAAGTTATGTAAG
* *
4158041 TTATCTAAGTTATATAAGTTATATAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
*
4158068 TTATGTATGTTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
* * *
4158095 TTATATATGTTATATAAGTTATGTAAA
1 TTATGTAAGTTATATAAGTTATGTAAG
4158122 TTATG
1 TTATG
4158127 ATATCAAATA
Statistics
Matches: 120, Mismatches: 18, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
26 22 0.18
27 59 0.49
28 4 0.03
29 5 0.04
30 7 0.06
31 6 0.05
32 8 0.07
33 3 0.03
34 6 0.05
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.47
Consensus pattern (27 bp):
TTATGTAAGTTATATAAGTTATGTAAG
Found at i:4158011 original size:114 final size:114
Alignment explanation
Indices: 4157877--4158098 Score: 313
Period size: 114 Copynumber: 1.9 Consensus size: 114
4157867 ACTAGTTATG
* * * *
4157877 TATGATATGATATATATTTAAGTATTATGTAAGTTATGTAATTTATGATATGATATAT-ATTTAT
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTAT-ATAT-ATATATAAGTTAT
* *
4157941 GTAAATTATAT-ATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
64 ATAAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
* *
4157991 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATTTATCTAAGTTATAT
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATATATATAAGTTATAT
* * *
4158056 AAGTTATATAAGTTATGTATGTTATATAAGTTATGTAAGTTAT
66 AAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTAT
4158099 ATATGTTATA
Statistics
Matches: 95, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
112 4 0.04
113 18 0.19
114 73 0.77
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.48
Consensus pattern (114 bp):
TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATATATATAAGTTATAT
AAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
Found at i:4158251 original size:15 final size:15
Alignment explanation
Indices: 4158231--4158286 Score: 73
Period size: 15 Copynumber: 3.8 Consensus size: 15
4158221 AAGTAGCGGG
4158231 ATTAAATAATATTTA
1 ATTAAATAATATTTA
4158246 ATTAAATAATATTT-
1 ATTAAATAATATTTA
4158260 A-TAAA-AATTATTTTA
1 ATTAAATAA-TA-TTTA
4158275 ATTAAATAATAT
1 ATTAAATAATAT
4158287 ACATGTCGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
12 2 0.06
13 6 0.17
14 4 0.11
15 16 0.44
16 6 0.17
17 2 0.06
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:4158491 original size:24 final size:24
Alignment explanation
Indices: 4158463--4158530 Score: 102
Period size: 24 Copynumber: 2.8 Consensus size: 24
4158453 ACTTAAATGG
4158463 TAAAACGGACGATAATATTTGTAA
1 TAAAACGGACGATAATATTTGTAA
*
4158487 TAAAACGGA-GAATAATATTTGTGA
1 TAAAACGGACG-ATAATATTTGTAA
*
4158511 TAAAACGGACGAGAATATTT
1 TAAAACGGACGATAATATTT
4158531 CAATAATAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
23 1 0.03
24 38 0.95
25 1 0.03
ACGTcount: A:0.46, C:0.07, G:0.19, T:0.28
Consensus pattern (24 bp):
TAAAACGGACGATAATATTTGTAA
Found at i:4159540 original size:371 final size:372
Alignment explanation
Indices: 4158617--4160273 Score: 3232
Period size: 372 Copynumber: 4.5 Consensus size: 372
4158607 AATTGAAACA
4158617 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTG
1 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTG
4158682 CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
66 CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
*
4158747 AATAAGGTTAGAGAGAAGGTCAGCTATTGTTGTAAGTTTTGATAAAAAGTAGTTATAACTTTTAA
131 AATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAAGTTTTGATAAAAAGTAGTTATAACTTTTAA
4158812 AGAAATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAATAGTAATTTGAATA
196 AGAAATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAATAGTAATTTGAATA
4158877 TAATAATATCAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATA
261 TAATAATATCAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATA
4158942 TAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTT
326 TAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTT
4158989 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTG
1 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTG
4159054 CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
66 CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
4159119 AATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAAGTTTTGATAAAAAGTAGTTATAACTTTTAA
131 AATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAAGTTTTGATAAAAAGTAGTTATAACTTTTAA
4159184 AGAAATTTAAAAATATTAAATATTAAAATAAAACATTATTAATA-AAAAAATAGTAATTTGAATA
196 AGAAATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAATAGTAATTTGAATA
4159248 TAATAATATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTAT
261 TAATAATATC-AAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTAT
4159313 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTT
325 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTT
4159361 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTG
1 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTG
4159426 CAGCTCGATATAAGGCAACCCGT-AGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
66 CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
*
4159490 AATAAGGTTGGAGAGAAGGTCAACTATTGTTGTAAGTTTTGATAAAAAGTAGTTATAACTTTTAA
131 AATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAAGTTTTGATAAAAAGTAGTTATAACTTTTAA
4159555 AGAAATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAAATAGTAATTTGAAT
196 AGAAATTTAAAAATATTAAATATTAAAATAAAACATTATTAATAT-AAAAAATAGTAATTTGAAT
4159620 ATAATAATATCAAAAAGAAT-GTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTAT
260 ATAATAATATCAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTAT
4159684 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTT
325 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTT
4159732 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTG
1 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTG
4159797 CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
66 CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
4159862 AATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAAGTTTTGATAAAAAGTAGTTATAACTTTTAA
131 AATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAAGTTTTGATAAAAAGTAGTTATAACTTTTAA
4159927 AGAAATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAATAGTAATTTGAATA
196 AGAAATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAATAGTAATTTGAATA
4159992 TAATAATATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTAT
261 TAATAATATC-AAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTAT
4160057 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTT
325 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTT
4160105 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTG
1 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTG
4160170 CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
66 CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
*
4160235 AATAAGGTTGGAGAGAAAGTCAGCTATTGTTGTAA-TTTT
131 AATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAAGTTTT
4160274 AATGGACAAG
Statistics
Matches: 1275, Mismatches: 4, Indels: 12
0.99 0.00 0.01
Matches are distributed among these distances:
371 389 0.31
372 600 0.47
373 286 0.22
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (372 bp):
TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTG
CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
AATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAAGTTTTGATAAAAAGTAGTTATAACTTTTAA
AGAAATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAATAGTAATTTGAATA
TAATAATATCAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATA
TAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTT
Found at i:4164143 original size:3 final size:3
Alignment explanation
Indices: 4164137--4164173 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
4164127 TTTTTCTCTT
4164137 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
4164174 TCCTATTAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:4164266 original size:28 final size:27
Alignment explanation
Indices: 4164214--4164266 Score: 63
Period size: 28 Copynumber: 1.9 Consensus size: 27
4164204 GGTCTCTCTA
*
4164214 ATATATTTAAATTTTAGATTTATTTGC
1 ATATATTTAAATTTTAGATTCATTTGC
*
4164241 ATATACTTTAATTTTTA-ATATCATTT
1 ATATA-TTTAAATTTTAGAT-TCATTT
4164267 AGTCTATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
27 7 0.32
28 15 0.68
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.57
Consensus pattern (27 bp):
ATATATTTAAATTTTAGATTCATTTGC
Done.