Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 ID=Chr12-JGI_221_v2.0
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: 35429946
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 509281 characters in sequence are not A, C, G, or T
File 54 of 120
Found at i:15139195 original size:48 final size:48
Alignment explanation
Indices: 15139037--15139197 Score: 189
Period size: 48 Copynumber: 3.3 Consensus size: 48
15139027 TCACCAACTC
* * * * *
15139037 GCATAATTTTTTGTTGTACAG-TTCGGATAAATTTCTACTGCAAAGCTA
1 GCATAATTTTCTGTTGTATAGCTT-GCATAATTTTCTACTACAAAGCTA
* * * * * *
15139085 GCATAATTTTCTGCTGTATAGCTCGCATAATTTTTTTTCTATATAGCTA
1 GCATAATTTTCTGTTGTATAGCTTGCATAA-TTTTCTACTACAAAGCTA
*
15139134 GCATAATTTTCTGTTGTATAGCTTGCATAATTTTCTACTACACAGCTA
1 GCATAATTTTCTGTTGTATAGCTTGCATAATTTTCTACTACAAAGCTA
15139182 GCATAATTTTCTGTTG
1 GCATAATTTTCTGTTG
15139198 CACAATTCAC
Statistics
Matches: 94, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
48 53 0.56
49 41 0.44
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.43
Consensus pattern (48 bp):
GCATAATTTTCTGTTGTATAGCTTGCATAATTTTCTACTACAAAGCTA
Found at i:15139214 original size:97 final size:97
Alignment explanation
Indices: 15139037--15139216 Score: 227
Period size: 97 Copynumber: 1.9 Consensus size: 97
15139027 TCACCAACTC
* * * *
15139037 GCATAATTTTTTGTTGTACAGTTCGGATAAATTTCTACTGCAAAGCTAGCATAATTTTCTGCTGT
1 GCATAATTTTCTGTTGTACAGTTCGCATAAATTTCTACTACAAAGCTAGCATAATTTTCTGCTGC
* * * *
15139102 ATAGCTCGCATAATTTTTTTTCTATATAGCTA
66 ACAACTCACACAATTTTTTTTCTATATAGCTA
* * * *
15139134 GCATAATTTTCTGTTGTATAGCTT-GCATAATTTTCTACTACACAGCTAGCATAATTTTCTGTTG
1 GCATAATTTTCTGTTGTACAG-TTCGCATAAATTTCTACTACAAAGCTAGCATAATTTTCTGCTG
*
15139198 CACAATTCACACAATTTTT
65 CACAACTCACACAATTTTT
15139217 GTTGCAGAGC
Statistics
Matches: 69, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
97 67 0.97
98 2 0.03
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.43
Consensus pattern (97 bp):
GCATAATTTTCTGTTGTACAGTTCGCATAAATTTCTACTACAAAGCTAGCATAATTTTCTGCTGC
ACAACTCACACAATTTTTTTTCTATATAGCTA
Found at i:15139285 original size:71 final size:72
Alignment explanation
Indices: 15139134--15139307 Score: 206
Period size: 71 Copynumber: 2.4 Consensus size: 72
15139124 TATATAGCTA
* * * * * * *
15139134 GCATAATTTTCTGTTGTATAGCTTGCATAATTTTCTACTACACAGCTAGCATAATTTTCTGTTGC
1 GCATAATTTTCTGTTGCACAGCTAGCATAATCTTCTACTACACAGCTAGCATAACTTTCTGCTAC
15139199 ACAATTC
66 ACAATTC
* * * * *
15139206 ACACAATTTT-TGTTGCAGAGCTAGCATAATCTTCTACTCCACAGCTAGCATAACTTTCTGCTAT
1 GCATAATTTTCTGTTGCACAGCTAGCATAATCTTCTACTACACAGCTAGCATAACTTTCTGCTAC
*
15139270 ACAGTTC
66 ACAATTC
**
15139277 GCATAATTTTCTACTGCACAGCTAGCATAAT
1 GCATAATTTTCTGTTGCACAGCTAGCATAAT
15139308 TTTTTGTTGT
Statistics
Matches: 84, Mismatches: 17, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
71 59 0.70
72 25 0.30
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.37
Consensus pattern (72 bp):
GCATAATTTTCTGTTGCACAGCTAGCATAATCTTCTACTACACAGCTAGCATAACTTTCTGCTAC
ACAATTC
Found at i:15141289 original size:39 final size:39
Alignment explanation
Indices: 15141208--15141306 Score: 128
Period size: 39 Copynumber: 2.6 Consensus size: 39
15141198 GAAATCCTTG
* * *
15141208 TTATAATTATTGTTATTATAA-TTTACGATCAAATATTA
1 TTATAATTATTGTAATTATAATTTTACAATCAAACATTA
* *
15141246 TTATAATTATTGTAATTGTAATTTTTCAATCAAACATTA
1 TTATAATTATTGTAATTATAATTTTACAATCAAACATTA
* *
15141285 TTATAAATATGGTAATTATAAT
1 TTATAATTATTGTAATTATAAT
15141307 CGGGTAATTA
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
38 19 0.37
39 33 0.63
ACGTcount: A:0.40, C:0.05, G:0.06, T:0.48
Consensus pattern (39 bp):
TTATAATTATTGTAATTATAATTTTACAATCAAACATTA
Found at i:15142599 original size:38 final size:39
Alignment explanation
Indices: 15142549--15142630 Score: 112
Period size: 38 Copynumber: 2.1 Consensus size: 39
15142539 CAATTTGACC
* *
15142549 TAATTTGATTCTTGTGCATAGTGTCATTATTTAGCCATA
1 TAATTTGATTCTTGTGCATAATATCATTATTTAGCCATA
* **
15142588 TAATTT-ATTCTTGTTCATAATATCATTATTTATTCATA
1 TAATTTGATTCTTGTGCATAATATCATTATTTAGCCATA
15142626 TAATT
1 TAATT
15142631 GACAACATTA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
38 32 0.84
39 6 0.16
ACGTcount: A:0.29, C:0.11, G:0.09, T:0.51
Consensus pattern (39 bp):
TAATTTGATTCTTGTGCATAATATCATTATTTAGCCATA
Found at i:15147836 original size:16 final size:16
Alignment explanation
Indices: 15147814--15147850 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
15147804 CAATTTTATT
15147814 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
15147831 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
15147846 TAATA
1 TAATA
15147851 TTCTTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:15148014 original size:29 final size:28
Alignment explanation
Indices: 15147945--15148018 Score: 100
Period size: 25 Copynumber: 2.7 Consensus size: 28
15147935 ACAAATTTGC
*
15147945 AATTTAGTCTCTGTACTTTTATTTTTAAG
1 AATTTAGTC-CTCTACTTTTATTTTTAAG
15147974 AATTTAG---TCTACTTTTATTTTTAAG
1 AATTTAGTCCTCTACTTTTATTTTTAAG
15147999 AATTTAGTCCCTCTACTTTT
1 AATTTAGT-CCTCTACTTTT
15148019 TAGATTAAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
25 24 0.60
29 16 0.40
ACGTcount: A:0.24, C:0.14, G:0.08, T:0.54
Consensus pattern (28 bp):
AATTTAGTCCTCTACTTTTATTTTTAAG
Found at i:15158877 original size:10 final size:10
Alignment explanation
Indices: 15158862--15159078 Score: 57
Period size: 10 Copynumber: 21.8 Consensus size: 10
15158852 TAATCATCTT
15158862 TTATAAAAAA
1 TTATAAAAAA
15158872 TTATAAAAAA
1 TTATAAAAAA
*
15158882 TAGAAATCAATAAAA
1 T---TAT-AA-AAAA
*
15158897 GTA-ATAAAAA
1 TTATA-AAAAA
* **
15158907 TTATTAAATT
1 TTATAAAAAA
15158917 TTAATAAAAAA
1 TT-ATAAAAAA
15158928 -TAT-AAAAA
1 TTATAAAAAA
*
15158936 TATATTTAAAAA
1 T-TA-TAAAAAA
15158948 TTAT-AAAAA
1 TTATAAAAAA
**
15158957 TCGTAAAAAA
1 TTATAAAAAA
*
15158967 TTATAAAATA
1 TTATAAAAAA
*
15158977 -TAT-AGAAA
1 TTATAAAAAA
15158985 -TATAAAAAA
1 TTATAAAAAA
* *
15158994 TCATAAAATA
1 TTATAAAAAA
*
15159004 -TAT-AGAAA
1 TTATAAAAAA
15159012 -TATAGAAAAA
1 TTATA-AAAAA
* *
15159022 AT-TAGAAAA
1 TTATAAAAAA
* *
15159031 TT-TTATAAA
1 TTATAAAAAA
15159040 TTCATAAGAAAA
1 TT-ATAA-AAAA
15159052 TTATAAAAAAA
1 TTAT-AAAAAA
*
15159063 TTA-AAGAAA
1 TTATAAAAAA
15159072 -TATAAAA
1 TTATAAAA
15159079 TTCTTAAAAA
Statistics
Matches: 151, Mismatches: 33, Indels: 47
0.65 0.14 0.20
Matches are distributed among these distances:
8 19 0.13
9 37 0.25
10 52 0.34
11 21 0.14
12 14 0.09
13 2 0.01
14 2 0.01
15 4 0.03
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (10 bp):
TTATAAAAAA
Found at i:15158929 original size:7 final size:8
Alignment explanation
Indices: 15158919--15159020 Score: 53
Period size: 9 Copynumber: 11.2 Consensus size: 8
15158909 ATTAAATTTT
15158919 AATA-AAA
1 AATATAAA
15158926 AATATAAAA
1 AATAT-AAA
15158935 ATATATTTAAA
1 A-ATA--TAAA
15158946 AATTATAAA
1 AA-TATAAA
*
15158955 AATCGTAAAA
1 AAT-AT-AAA
15158965 AATTATAAA
1 AA-TATAAA
*
15158974 ATATATAGA
1 A-ATATAAA
15158983 AATATAAAA
1 AATAT-AAA
15158992 AATCATAAA
1 AAT-ATAAA
*
15159001 ATATATAGA
1 A-ATATAAA
15159010 AATATAGAA
1 AATATA-AA
15159019 AA
1 AA
15159021 AATTAGAAAA
Statistics
Matches: 75, Mismatches: 6, Indels: 26
0.70 0.06 0.24
Matches are distributed among these distances:
7 4 0.05
8 10 0.13
9 38 0.51
10 15 0.20
11 7 0.09
12 1 0.01
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (8 bp):
AATATAAA
Found at i:15158936 original size:21 final size:23
Alignment explanation
Indices: 15158898--15158957 Score: 67
Period size: 21 Copynumber: 2.8 Consensus size: 23
15158888 TCAATAAAAG
*
15158898 TAATAAAAATTAT-TAAAT-T-T
1 TAATAAAAATTATAAAAATATAT
*
15158918 TAATAAAAAATATAAAAATATAT
1 TAATAAAAATTATAAAAATATAT
15158941 T--TAAAAATTATAAAAAT
1 TAATAAAAATTATAAAAAT
15158958 CGTAAAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
20 12 0.35
21 19 0.56
22 1 0.03
23 2 0.06
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (23 bp):
TAATAAAAATTATAAAAATATAT
Found at i:15158990 original size:17 final size:16
Alignment explanation
Indices: 15158968--15159019 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 16
15158958 CGTAAAAAAT
15158968 TATAAAATATATAGAAA
1 TATAAAA-ATATAGAAA
15158985 TATAAAAAATCATA-AAA
1 TAT-AAAAAT-ATAGAAA
15159002 TATATAGAAATATAGAAA
1 TATA-A-AAATATAGAAA
15159020 AAATTAGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
16 1 0.03
17 15 0.50
18 14 0.47
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (16 bp):
TATAAAAATATAGAAA
Found at i:15159351 original size:29 final size:30
Alignment explanation
Indices: 15159278--15159352 Score: 109
Period size: 29 Copynumber: 2.6 Consensus size: 30
15159268 TTTTATAAAT
* * *
15159278 TTTTTTTAATTTTTAATAAAATTTAAATAT
1 TTTTTATAATTTTTATTAAAATTTAAATAA
15159308 TTTTTAT-ATTTTTATTAAAATTT-AATAA
1 TTTTTATAATTTTTATTAAAATTTAAATAA
15159336 TTTTTATAATTTTTATT
1 TTTTTATAATTTTTATT
15159353 GATTTTTATT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
28 11 0.27
29 24 0.59
30 6 0.15
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (30 bp):
TTTTTATAATTTTTATTAAAATTTAAATAA
Found at i:15159362 original size:10 final size:10
Alignment explanation
Indices: 15159268--15159362 Score: 63
Period size: 10 Copynumber: 9.7 Consensus size: 10
15159258 TTTTTATGTA
*
15159268 TTTTATAAAT
1 TTTTATTAAT
*
15159278 TTTTTTTAAT
1 TTTTATTAAT
* *
15159288 TTTTAATAAA
1 TTTTATTAAT
*
15159298 ATTTA--AAT
1 TTTTATTAAT
15159306 ATTTT-TTATAT
1 -TTTTATTA-AT
*
15159317 TTTTATTAAA
1 TTTTATTAAT
* *
15159327 ATTTAATAAT
1 TTTTATTAAT
15159337 TTTTA-TAAT
1 TTTTATTAAT
*
15159346 TTTTATTGAT
1 TTTTATTAAT
15159356 TTTTATT
1 TTTTATT
15159363 TTTTATAATT
Statistics
Matches: 65, Mismatches: 14, Indels: 12
0.71 0.15 0.13
Matches are distributed among these distances:
8 2 0.03
9 12 0.18
10 46 0.71
11 5 0.08
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (10 bp):
TTTTATTAAT
Found at i:15160548 original size:20 final size:21
Alignment explanation
Indices: 15160517--15160584 Score: 91
Period size: 21 Copynumber: 3.1 Consensus size: 21
15160507 CGAATATTAT
15160517 AAATATTTTTTTTATTTTTAA
1 AAATATTTTTTTTATTTTTAA
15160538 AAATATTTTTTTTATTTTTAA
1 AAATATTTTTTTTATTTTTAA
* * *
15160559 AATAAATTTTTTATGTTTATTAA
1 AA-ATATTTTTTTTATTT-TTAA
15160582 AAA
1 AAA
15160585 ATGGGCCGGG
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
21 23 0.55
22 13 0.31
23 6 0.14
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (21 bp):
AAATATTTTTTTTATTTTTAA
Found at i:15167806 original size:17 final size:17
Alignment explanation
Indices: 15167748--15167808 Score: 52
Period size: 17 Copynumber: 3.5 Consensus size: 17
15167738 ATTTATGTCT
*
15167748 ATTATTTATATTATTAA
1 ATTATTTATATTATTGA
* *
15167765 ATTATATTTTACATT-TTGT
1 A-T-TA-TTTATATTATTGA
*
15167784 ACTATTTATATTATTGA
1 ATTATTTATATTATTGA
15167801 ATTATTTA
1 ATTATTTA
15167809 ATCGTATTAA
Statistics
Matches: 33, Mismatches: 7, Indels: 8
0.69 0.15 0.17
Matches are distributed among these distances:
16 7 0.21
17 13 0.39
18 1 0.03
19 5 0.15
20 7 0.21
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.59
Consensus pattern (17 bp):
ATTATTTATATTATTGA
Found at i:15170827 original size:3 final size:3
Alignment explanation
Indices: 15170821--15170863 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
15170811 TCTTTTGTTG
15170821 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
15170864 ACATGCATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:15171067 original size:27 final size:27
Alignment explanation
Indices: 15171034--15171089 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
15171024 ATTTACTTAG
15171034 CCAAGATCTAATTCATTACTAAACTAA
1 CCAAGATCTAATTCATTACTAAACTAA
*
15171061 CCAAGATCTAATTTATTACTAAACTAA
1 CCAAGATCTAATTCATTACTAAACTAA
15171088 CC
1 CC
15171090 TCATAAATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.43, C:0.23, G:0.04, T:0.30
Consensus pattern (27 bp):
CCAAGATCTAATTCATTACTAAACTAA
Found at i:15172259 original size:13 final size:13
Alignment explanation
Indices: 15172241--15172270 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
15172231 GTTTTTTGAT
15172241 AATTTCCAAATTC
1 AATTTCCAAATTC
*
15172254 AATTTCCTAATTC
1 AATTTCCAAATTC
15172267 AATT
1 AATT
15172271 GGGATTCAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.43
Consensus pattern (13 bp):
AATTTCCAAATTC
Found at i:15180198 original size:20 final size:22
Alignment explanation
Indices: 15180173--15180215 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
15180163 AATACATGGC
15180173 ATTCATC-AT-AAAAATTCAAA
1 ATTCATCAATGAAAAATTCAAA
*
15180193 ATTCATCAATGAAAACTTCAAA
1 ATTCATCAATGAAAAATTCAAA
15180215 A
1 A
15180216 AAATTTAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 7 0.35
21 2 0.10
22 11 0.55
ACGTcount: A:0.53, C:0.16, G:0.02, T:0.28
Consensus pattern (22 bp):
ATTCATCAATGAAAAATTCAAA
Found at i:15180569 original size:23 final size:23
Alignment explanation
Indices: 15180525--15180569 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
15180515 TTAATTAGGG
* **
15180525 CTTAATTATCACTTAAGTCATTC
1 CTTAATTATCAATTAAACCATTC
*
15180548 CTTAATTATTAATTAAACCATT
1 CTTAATTATCAATTAAACCATT
15180570 TAATAACCTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.36, C:0.18, G:0.02, T:0.44
Consensus pattern (23 bp):
CTTAATTATCAATTAAACCATTC
Found at i:15188587 original size:27 final size:27
Alignment explanation
Indices: 15188557--15188615 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
15188547 CATGCACACT
*
15188557 ATGCGTTCCATGCAAAATATGCATTTC
1 ATGCGTTCCATGCAAAACATGCATTTC
* *
15188584 ATGCATTCCATGCAACACATGCATTTC
1 ATGCGTTCCATGCAAAACATGCATTTC
15188611 ATGCG
1 ATGCG
15188616 AACCATGTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (27 bp):
ATGCGTTCCATGCAAAACATGCATTTC
Found at i:15188604 original size:18 final size:17
Alignment explanation
Indices: 15188583--15188634 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
15188573 ATATGCATTT
15188583 CATGCATTCCATGCAAC
1 CATGCATTCCATGCAAC
*
15188600 ACATGCATTTCATGCGAAC
1 -CATGCATTCCATGC-AAC
* *
15188619 CATGTATTCCGTGCAA
1 CATGCATTCCATGCAA
15188635 TGTGCTACAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
17 2 0.07
18 24 0.83
19 3 0.10
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (17 bp):
CATGCATTCCATGCAAC
Found at i:15188621 original size:27 final size:27
Alignment explanation
Indices: 15188564--15188622 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
15188554 ACTATGCGTT
* *
15188564 CCATGCAAAATATGCATTTCATGCATT
1 CCATGCAAAACATGCATTTCATGCATA
*
15188591 CCATGCAACACATGCATTTCATGCGA-A
1 CCATGCAAAACATGCATTTCATGC-ATA
15188618 CCATG
1 CCATG
15188623 TATTCCGTGC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 27 0.96
28 1 0.04
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (27 bp):
CCATGCAAAACATGCATTTCATGCATA
Found at i:15189981 original size:17 final size:17
Alignment explanation
Indices: 15189959--15189994 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
15189949 AATATTATTT
15189959 ATTAAATAAAATTTTCA
1 ATTAAATAAAATTTTCA
15189976 ATTAAATAAAATTTTCA
1 ATTAAATAAAATTTTCA
15189993 AT
1 AT
15189995 CTAATTCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (17 bp):
ATTAAATAAAATTTTCA
Found at i:15203729 original size:58 final size:58
Alignment explanation
Indices: 15203663--15203948 Score: 279
Period size: 58 Copynumber: 4.9 Consensus size: 58
15203653 TGAGTCCGCA
* ** * *
15203663 AGCTATTTTGAACTTATGCAATTTTTCCAAAATAATCAGCTAGGAATATAAATTTGCG
1 AGCTGTTTTGAACTTAAACAATTTTTCCAAAATAATCAGCTGGGAATATAAATCTGCG
* * * *
15203721 AGCTATTTTGAACTTAAGC-ATATTTTCTAAAATAATCAGTTGGGAATATAAATCTGCG
1 AGCTGTTTTGAACTTAAACAAT-TTTTCCAAAATAATCAGCTGGGAATATAAATCTGCG
* * * * * * * *
15203779 AGCTGTTTTAAACTTTAACAAATATTCAAAAAATCATTAGCTGGGAATATAAATCCGCG
1 AGCTGTTTTGAACTTAAACAATTTTTC-CAAAATAATCAGCTGGGAATATAAATCTGCG
* * * * * *
15203838 AGCTGTTCTGAGCTTAAACAAATTTTCCAAAATCATCAACTGGGAATATAAATCTGCA
1 AGCTGTTTTGAACTTAAACAATTTTTCCAAAATAATCAGCTGGGAATATAAATCTGCG
* * * * *
15203896 AGTTGTTCTGAACTTAAAC-ATATTTTCTAAAATAATCAGTTGAGAATATAAAT
1 AGCTGTTTTGAACTTAAACAAT-TTTTCCAAAATAATCAGCTGGGAATATAAAT
15203949 ACTCAAGCTA
Statistics
Matches: 190, Mismatches: 34, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
57 3 0.02
58 138 0.73
59 49 0.26
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (58 bp):
AGCTGTTTTGAACTTAAACAATTTTTCCAAAATAATCAGCTGGGAATATAAATCTGCG
Found at i:15203910 original size:117 final size:118
Alignment explanation
Indices: 15203691--15203933 Score: 281
Period size: 117 Copynumber: 2.1 Consensus size: 118
15203681 CAATTTTTCC
* ** * * * *
15203691 AAAATAATCAGCTAGGAATATAAATTTGCGAGCTATTTTGAACTTAAGCATATTTTCTAAAATAA
1 AAAATCATCAGCTAGGAATATAAATCCGCGAGCTATTCTGAACTTAAACAAATTTTCCAAAATAA
** * * *
15203756 TCAGTTGGGAATATAAATCTGCGAGCTGTTTTAAACTTTAACAAATATTC-AA
66 TCAACTGGGAATATAAATCTGCAAGCTGTTCTAAACTTAAACAAATATTCTAA
* * * * *
15203808 AAAATCATTAGCTGGGAATATAAATCCGCGAGCTGTTCTGAGCTTAAACAAATTTTCCAAAATCA
1 AAAATCATCAGCTAGGAATATAAATCCGCGAGCTATTCTGAACTTAAACAAATTTTCCAAAATAA
* * * *
15203873 TCAACTGGGAATATAAATCTGCAAGTTGTTCTGAACTTAAACATATTTTCTAA
66 TCAACTGGGAATATAAATCTGCAAGCTGTTCTAAACTTAAACAAATATTCTAA
15203926 AATAATCA
1 AA-AATCA
15203934 GTTGAGAATA
Statistics
Matches: 103, Mismatches: 21, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
117 94 0.91
118 4 0.04
119 5 0.05
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.33
Consensus pattern (118 bp):
AAAATCATCAGCTAGGAATATAAATCCGCGAGCTATTCTGAACTTAAACAAATTTTCCAAAATAA
TCAACTGGGAATATAAATCTGCAAGCTGTTCTAAACTTAAACAAATATTCTAA
Found at i:15204050 original size:52 final size:52
Alignment explanation
Indices: 15203968--15204067 Score: 139
Period size: 52 Copynumber: 1.9 Consensus size: 52
15203958 ACTTGGAGGC
*
15203968 AGCGATATGGAATCAACGAGCCTTCAAATTACAGGTGAGAGCTTTTAATTCT
1 AGCGATATGAAATCAACGAGCCTTCAAATTACAGGTGAGAGCTTTTAATTCT
* * * *
15204020 AGCGATATGAAATCAGCTAGCCTTGC-AATTACAGTTGGGAGCTTTTAA
1 AGCGATATGAAATCAACGAGCCTT-CAAATTACAGGTGAGAGCTTTTAA
15204068 GTCTCGCTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
52 41 0.98
53 1 0.02
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (52 bp):
AGCGATATGAAATCAACGAGCCTTCAAATTACAGGTGAGAGCTTTTAATTCT
Found at i:15204129 original size:70 final size:70
Alignment explanation
Indices: 15204021--15204557 Score: 560
Period size: 70 Copynumber: 7.7 Consensus size: 70
15204011 TTTAATTCTA
* * * * * *
15204021 GCGATATGAAATCAGCTAGCCTTGCAATTACAGTTGGGAGCTTTTAAGTCTCGCTAACAGTTTAA
1 GCGATATGAAATCAGCGAGCCTTGAAATTACAGCTGGGAGCTTTTAACTCTCGCTAACTGTTTGA
*
15204086 AGACT
66 AGGCT
* * * * * *
15204091 ACAATATGAAATCAGCGAGCCTTGGAATTACAACTGGGAGCTTTTAACTATTGCTAACTGTTTGA
1 GCGATATGAAATCAGCGAGCCTTGAAATTACAGCTGGGAGCTTTTAACTCTCGCTAACTGTTTGA
*
15204156 AGGTT
66 AGGCT
* * * * * * *
15204161 GCAATATGAAATCAGTGAGTCTTGAAATTACAGCTGGGAGCGTTTAGCTCTCACTAATTGTTTGA
1 GCGATATGAAATCAGCGAGCCTTGAAATTACAGCTGGGAGCTTTTAACTCTCGCTAACTGTTTGA
* *
15204226 AAGCC
66 AGGCT
* * * * *
15204231 ACGATATGAAATTAGCGAGCCTTGAAATTACAACTGGGAGCTTTTAACTATTGCTAACTGTTTGA
1 GCGATATGAAATCAGCGAGCCTTGAAATTACAGCTGGGAGCTTTTAACTCTCGCTAACTGTTTGA
*
15204296 AGGTT
66 AGGCT
* * * * *
15204301 GCGATATGAAATCAACAAGCCTTGAAATTATAGCTGAGAGCTTTTAACTCTCGCTAACTGTTTGG
1 GCGATATGAAATCAGCGAGCCTTGAAATTACAGCTGGGAGCTTTTAACTCTCGCTAACTGTTTGA
*
15204366 AGGCC
66 AGGCT
* * * * ** * *
15204371 GCAATATGAAATCAACAAGCCTTGAAATTACAGTTAAGAGCTTTTAACT-T-ACTAACTGTTTGG
1 GCGATATGAAATCAGCGAGCCTTGAAATTACAGCTGGGAGCTTTTAACTCTCGCTAACTGTTTGA
15204434 AGG-T
66 AGGCT
* * * *
15204438 CGCGATATGAAATTAGCGAGCCTTGAAATTACAACTGGGAGCTTTTAACTCTAGCTAACTATTT-
1 -GCGATATGAAATCAGCGAGCCTTGAAATTACAGCTGGGAGCTTTTAACTCTCGCTAACTGTTTG
*
15204502 AGAGGCC
65 A-AGGCT
* * * *
15204509 GCGATGTGAAATCAGCGAGCCTTGAAATTATAGTTAGGAGCTTTTAACT
1 GCGATATGAAATCAGCGAGCCTTGAAATTACAGCTGGGAGCTTTTAACT
15204558 ATCACTTACC
Statistics
Matches: 384, Mismatches: 78, Indels: 10
0.81 0.17 0.02
Matches are distributed among these distances:
68 56 0.15
69 2 0.01
70 326 0.85
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.30
Consensus pattern (70 bp):
GCGATATGAAATCAGCGAGCCTTGAAATTACAGCTGGGAGCTTTTAACTCTCGCTAACTGTTTGA
AGGCT
Found at i:15204276 original size:140 final size:139
Alignment explanation
Indices: 15204021--15204642 Score: 624
Period size: 140 Copynumber: 4.4 Consensus size: 139
15204011 TTTAATTCTA
* * * * * *
15204021 GCGATATGAAATCAGCTAGCCTTGCAATTACAGTTGGGAGCTTTTAAGTCTCGCTAACAGTTTAA
1 GCGATATGAAATCAGCGAGCCTTGAAATTACAGCTGGGAGCTTTTAACTCTCACTAACTGTTTAA
* * *
15204086 AGACTACAATATGAAATCAGCGAGCCTTGGAATTACAACTGGGAGCTTTTAACTATTGCTAACTG
66 AG-CCACAATATGAAATCAGCGAGCCTTGAAATTACAACTAGGAGCTTTTAACTATTGCTAACTG
15204151 TTTGAAGGTT
130 TTTGAAGGTT
* * * * * *
15204161 GCAATATGAAATCAGTGAGTCTTGAAATTACAGCTGGGAGCGTTTAGCTCTCACTAATTGTTTGA
1 GCGATATGAAATCAGCGAGCCTTGAAATTACAGCTGGGAGCTTTTAACTCTCACTAACTGTTT-A
* * *
15204226 AAGCCACGATATGAAATTAGCGAGCCTTGAAATTACAACTGGGAGCTTTTAACTATTGCTAACTG
65 AAGCCACAATATGAAATCAGCGAGCCTTGAAATTACAACTAGGAGCTTTTAACTATTGCTAACTG
15204291 TTTGAAGGTT
130 TTTGAAGGTT
* * * * * *
15204301 GCGATATGAAATCAACAAGCCTTGAAATTATAGCTGAGAGCTTTTAACTCTCGCTAACTGTTTGG
1 GCGATATGAAATCAGCGAGCCTTGAAATTACAGCTGGGAGCTTTTAACTCTCACTAACTGTTT-A
* * * * ** * *
15204366 AGGCCGCAATATGAAATCAACAAGCCTTGAAATTACAGTTAAGAGCTTTTAAC--TTACTAACTG
65 AAGCCACAATATGAAATCAGCGAGCCTTGAAATTACAACTAGGAGCTTTTAACTATTGCTAACTG
* *
15204429 TTTGGAGGTC
130 TTTGAAGGTT
* * *
15204439 GCGATATGAAATTAGCGAGCCTTGAAATTACAACTGGGAGCTTTTAACTCT-AGCTAACTATTTA
1 GCGATATGAAATCAGCGAGCCTTGAAATTACAGCTGGGAGCTTTTAACTCTCA-CTAACTGTTTA
* * * * * ** **
15204503 GAGGCCGCGATGTGAAATCAGCGAGCCTTGAAATTATAGTTAGGAGCTTTTAACTATCACTTACC
65 -AAGCCACAATATGAAATCAGCGAGCCTTGAAATTACAACTAGGAGCTTTTAACTATTGC-TA--
* * * *
15204568 ATTTGTTTGGAGATC
126 A-CTGTTTGAAGGTT
* * * **
15204583 GCAATATGAAA-CTAGTGAGCCTTGAAATTACAAC-ACGAGCTTTTAACTCTCACTAACTGT
1 GCGATATGAAATC-AGCGAGCCTTGAAATTACAGCTGGGAGCTTTTAACTCTCACTAACTGT
15204643 AACACCCTTA
Statistics
Matches: 406, Mismatches: 65, Indels: 19
0.83 0.13 0.04
Matches are distributed among these distances:
138 118 0.29
140 218 0.54
141 6 0.01
143 22 0.05
144 42 0.10
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.31
Consensus pattern (139 bp):
GCGATATGAAATCAGCGAGCCTTGAAATTACAGCTGGGAGCTTTTAACTCTCACTAACTGTTTAA
AGCCACAATATGAAATCAGCGAGCCTTGAAATTACAACTAGGAGCTTTTAACTATTGCTAACTGT
TTGAAGGTT
Found at i:15204384 original size:210 final size:207
Alignment explanation
Indices: 15204022--15204642 Score: 663
Period size: 210 Copynumber: 3.0 Consensus size: 207
15204012 TTAATTCTAG
* * * ** * * *
15204022 CGATATGAAATCAGCTAGCCTTGCAATTACAGTTGGGAGCTTTTAAGTCTCGCTAACAGTTTAAA
1 CGATATGAAATTAGCGAGCCTTGAAATTACAACTGGGAGCTTTTAACTCTAGCTAACTGTTT-AA
* * * * * * * *
15204087 GACTACAATATGAAATCAGCGAGCCTTGGAATTACAACTGGGAGCTTTTAACTATTGCTAACTGT
65 GGCTGCGATATGAAATCAGCGAGCCTTGAAATTATAGCTGAGAGCTTTTAACTATCGCTAACTGT
* * * ** *
15204152 TTGAAGGTTGCAATATGAAATCAGTGAGTCTTGAAATTACAGCTGGGAGCGTTTAGCTCTCACTA
130 TTGGAGGTCGCAATATGAAATCAGTGAGCCTTGAAATTACAGCTAAGAGCGTTTAACT-T-ACTA
*
15204217 ATTGTTTGAAAGCCA
193 ACTGTTTGAAAGCCA
* *
15204232 CGATATGAAATTAGCGAGCCTTGAAATTACAACTGGGAGCTTTTAACTATTGCTAACTGTTTGAA
1 CGATATGAAATTAGCGAGCCTTGAAATTACAACTGGGAGCTTTTAACTCTAGCTAACTGTTT-AA
* * * *
15204297 GGTTGCGATATGAAATCAACAAGCCTTGAAATTATAGCTGAGAGCTTTTAACTCTCGCTAACTGT
65 GGCTGCGATATGAAATCAGCGAGCCTTGAAATTATAGCTGAGAGCTTTTAACTATCGCTAACTGT
* *** * *
15204362 TTGGAGGCCGCAATATGAAATCAACAAGCCTTGAAATTACAGTTAAGAGCTTTTAACTTACTAAC
130 TTGGAGGTCGCAATATGAAATCAGTGAGCCTTGAAATTACAGCTAAGAGCGTTTAACTTACTAAC
* * * *
15204427 TGTTTGGAGGTCG
195 TGTTTGAAAGCCA
*
15204440 CGATATGAAATTAGCGAGCCTTGAAATTACAACTGGGAGCTTTTAACTCTAGCTAACTATTTAGA
1 CGATATGAAATTAGCGAGCCTTGAAATTACAACTGGGAGCTTTTAACTCTAGCTAACTGTTTA-A
* * * *
15204505 GGCCGCGATGTGAAATCAGCGAGCCTTGAAATTATAG-TTAGGAGCTTTTAACTATCACTTACCA
65 GGCTGCGATATGAAATCAGCGAGCCTTGAAATTATAGCTGA-GAGCTTTTAACTATCGC-TA--A
* * * * *
15204569 TTTGTTTGGAGATCGCAATATGAAA-CTAGTGAGCCTTGAAATTACAAC-ACGAGCTTTTAACTC
126 -CTGTTTGGAGGTCGCAATATGAAATC-AGTGAGCCTTGAAATTACAGCTAAGAGCGTTTAACT-
15204632 TCACTAACTGT
188 T-ACTAACTGT
15204643 AACACCCTTA
Statistics
Matches: 343, Mismatches: 59, Indels: 15
0.82 0.14 0.04
Matches are distributed among these distances:
207 3 0.01
208 121 0.35
209 3 0.01
210 154 0.45
211 15 0.04
212 38 0.11
213 9 0.03
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (207 bp):
CGATATGAAATTAGCGAGCCTTGAAATTACAACTGGGAGCTTTTAACTCTAGCTAACTGTTTAAG
GCTGCGATATGAAATCAGCGAGCCTTGAAATTATAGCTGAGAGCTTTTAACTATCGCTAACTGTT
TGGAGGTCGCAATATGAAATCAGTGAGCCTTGAAATTACAGCTAAGAGCGTTTAACTTACTAACT
GTTTGAAAGCCA
Found at i:15207321 original size:69 final size:69
Alignment explanation
Indices: 15207196--15207352 Score: 208
Period size: 69 Copynumber: 2.3 Consensus size: 69
15207186 AGTCGTTACA
* *
15207196 CTAACTGTTTAGAGGCCACGATATGAAATCAACAAGCCTTAAAATTACAGCTGGGAGCTTTTGAA
1 CTAACTATTTAGAGG-CACGATATGAAATCAACAAGCCTTAAAATTACAGCAGGGAGCTTTT-AA
*
15207261 -TCTTG
64 CTCTCG
* * * * *
15207266 CTAATTATTTAGAGGCGCGATATGAAATCAACGAGCCTTGAAATTACAGGAGGGAGCTTTTAACT
1 CTAACTATTTAGAGGCACGATATGAAATCAACAAGCCTTAAAATTACAGCAGGGAGCTTTTAACT
15207331 CTCG
66 CTCG
*
15207335 CTAACTATTTGGAGGCAC
1 CTAACTATTTAGAGGCAC
15207353 ATCATGATAC
Statistics
Matches: 75, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
68 2 0.03
69 60 0.80
70 13 0.17
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (69 bp):
CTAACTATTTAGAGGCACGATATGAAATCAACAAGCCTTAAAATTACAGCAGGGAGCTTTTAACT
CTCG
Found at i:15210299 original size:18 final size:18
Alignment explanation
Indices: 15210269--15210307 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
15210259 GACCCACTAT
*
15210269 TTTTAATATATTTTAAAA
1 TTTTAATATATTTAAAAA
15210287 TTTT-ATATAATTTAAAAA
1 TTTTAATAT-ATTTAAAAA
15210305 TTT
1 TTT
15210308 ACGTTTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTTAATATATTTAAAAA
Found at i:15210300 original size:17 final size:17
Alignment explanation
Indices: 15210269--15210308 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
15210259 GACCCACTAT
*
15210269 TTTTAATATATTTTAAAA
1 TTTT-ATATAATTTAAAA
15210287 TTTTATATAATTTAAAA
1 TTTTATATAATTTAAAA
*
15210304 ATTTA
1 TTTTA
15210309 CGTTTAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTTATATAATTTAAAA
Found at i:15222497 original size:22 final size:22
Alignment explanation
Indices: 15222471--15222521 Score: 86
Period size: 22 Copynumber: 2.3 Consensus size: 22
15222461 CTAAACTCTC
15222471 AATTTT-CTCAAGTTTTGTTCGA
1 AATTTTCCT-AAGTTTTGTTCGA
15222493 AATTTTCCTAAGTTTTGTTCGA
1 AATTTTCCTAAGTTTTGTTCGA
15222515 AATTTTC
1 AATTTTC
15222522 ACCGTTGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 26 0.93
23 2 0.07
ACGTcount: A:0.24, C:0.14, G:0.12, T:0.51
Consensus pattern (22 bp):
AATTTTCCTAAGTTTTGTTCGA
Found at i:15222707 original size:10 final size:10
Alignment explanation
Indices: 15222694--15222734 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
15222684 TTAAGTTAAA
15222694 TTTAAAAT-T
1 TTTAAAATAT
*
15222703 TTT-TAAT-T
1 TTTAAAATAT
15222711 TTTAAAATAT
1 TTTAAAATAT
15222721 TTTAAAATAT
1 TTTAAAATAT
15222731 TTTA
1 TTTA
15222735 TTTTGTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
8 7 0.25
9 6 0.21
10 15 0.54
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
TTTAAAATAT
Found at i:15227782 original size:6 final size:6
Alignment explanation
Indices: 15227771--15227805 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
15227761 TAGTTCATGT
*
15227771 TTTCCA TTTCCA TTTCCA TTTCCAA TTTCAA TTTC
1 TTTCCA TTTCCA TTTCCA TTTCC-A TTTCCA TTTC
15227806 AATCAACAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
6 22 0.81
7 5 0.19
ACGTcount: A:0.20, C:0.29, G:0.00, T:0.51
Consensus pattern (6 bp):
TTTCCA
Found at i:15228052 original size:23 final size:23
Alignment explanation
Indices: 15228026--15228080 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
15228016 GACACACGGG
*
15228026 GTGCCTGA-AGTACTACACATAAA
1 GTGCCTGATA-TACGACACATAAA
15228049 GTGCCTGATATACGACACATAAA
1 GTGCCTGATATACGACACATAAA
*
15228072 GTGCATGAT
1 GTGCCTGAT
15228081 CGGCAAAGCC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 28 0.97
24 1 0.03
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (23 bp):
GTGCCTGATATACGACACATAAA
Found at i:15228562 original size:13 final size:13
Alignment explanation
Indices: 15228521--15228562 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
15228511 CGAAAATAAT
*
15228521 AATAATAATTTAC
1 AATATTAATTTAC
*
15228534 ACTATTAA-TTAC
1 AATATTAATTTAC
*
15228546 AATATTAATTTAT
1 AATATTAATTTAC
15228559 AATA
1 AATA
15228563 ATAGAATTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
12 11 0.46
13 13 0.54
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (13 bp):
AATATTAATTTAC
Found at i:15232810 original size:62 final size:57
Alignment explanation
Indices: 15232724--15232848 Score: 169
Period size: 62 Copynumber: 2.1 Consensus size: 57
15232714 TCCAAAAATA
* * *
15232724 ATATTATTTTAATAGTTTAGTATTAAATTTAATTTAATGTTTATCTTATAGATAAATATT
1 ATATTATTTTAATAGTTTAATATTAAATTTAATATAATATTTATC-T-T-GATAAATATT
*
15232784 CTATTATTTTAATAAGATTTAATATTAAATTTAATATAATATTTATCTTGATAAATATT
1 ATATTATTTTAAT-AG-TTTAATATTAAATTTAATATAATATTTATCTTGATAAATATT
15232843 ATATTA
1 ATATTA
15232849 ATTAAATATT
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
59 15 0.26
60 13 0.22
61 3 0.05
62 27 0.47
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (57 bp):
ATATTATTTTAATAGTTTAATATTAAATTTAATATAATATTTATCTTGATAAATATT
Found at i:15233477 original size:34 final size:34
Alignment explanation
Indices: 15233434--15233505 Score: 144
Period size: 34 Copynumber: 2.1 Consensus size: 34
15233424 GTTGATAAAA
15233434 TATATATTACTGAAATCCTACACGGCATTTGACT
1 TATATATTACTGAAATCCTACACGGCATTTGACT
15233468 TATATATTACTGAAATCCTACACGGCATTTGACT
1 TATATATTACTGAAATCCTACACGGCATTTGACT
15233502 TATA
1 TATA
15233506 CTTTATTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.36
Consensus pattern (34 bp):
TATATATTACTGAAATCCTACACGGCATTTGACT
Found at i:15238852 original size:29 final size:29
Alignment explanation
Indices: 15238806--15238870 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
15238796 CGAGACTATA
15238806 TTGCTCACACAAGCTGACAGTGATCAGGG
1 TTGCTCACACAAGCTGACAGTGATCAGGG
* *
15238835 TTGCTCACACAAGTTGACAGTGATTAGGG
1 TTGCTCACACAAGCTGACAGTGATCAGGG
15238864 TTGCTCA
1 TTGCTCA
15238871 AGCTAAACCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (29 bp):
TTGCTCACACAAGCTGACAGTGATCAGGG
Found at i:15243833 original size:4 final size:4
Alignment explanation
Indices: 15243824--15243920 Score: 126
Period size: 4 Copynumber: 24.8 Consensus size: 4
15243814 TGCATTAGAC
15243824 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG AT--
1 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG
* * * * * *
15243870 ATAG ATAG ATAG ATAG ATAG ATGG ATGG ATGG ATGG ATGG ATGG ATAG
1 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG
15243918 ATA
1 ATA
15243921 CCTCAAGGAC
Statistics
Matches: 89, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
2 2 0.02
4 87 0.98
ACGTcount: A:0.44, C:0.00, G:0.30, T:0.26
Consensus pattern (4 bp):
ATAG
Found at i:15245590 original size:2 final size:2
Alignment explanation
Indices: 15245583--15245616 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
15245573 AAATCATGTG
15245583 AT AT AT AT AT 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 AT AT
15245617 GATCTACGCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15246357 original size:50 final size:50
Alignment explanation
Indices: 15246302--15246400 Score: 164
Period size: 50 Copynumber: 2.0 Consensus size: 50
15246292 CAAATTGGAT
15246302 ATTAACCCTTGAATTAACG-TCTCACCTCACTTTTTCATTAAGGTTGTTAC
1 ATTAACCCTTGAATTAACGTTCT-ACCTCACTTTTTCATTAAGGTTGTTAC
* *
15246352 ATTAACCCTTGAATTAATGTTCTACCTCACTTTTTCGTTAAGGTTGTTA
1 ATTAACCCTTGAATTAACGTTCTACCTCACTTTTTCATTAAGGTTGTTA
15246401 GGACAATTAA
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
50 43 0.93
51 3 0.07
ACGTcount: A:0.25, C:0.21, G:0.11, T:0.42
Consensus pattern (50 bp):
ATTAACCCTTGAATTAACGTTCTACCTCACTTTTTCATTAAGGTTGTTAC
Found at i:15247417 original size:5 final size:5
Alignment explanation
Indices: 15247407--15247435 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
15247397 AATTAAAATA
15247407 TATAT TATAT TATAT TATAT TATAT TATA
1 TATAT TATAT TATAT TATAT TATAT TATA
15247436 AACAAATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:15247513 original size:16 final size:17
Alignment explanation
Indices: 15247482--15247517 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
15247472 ACGAAAACAG
15247482 AGAAACAAAAACGAAAA
1 AGAAACAAAAACGAAAA
*
15247499 AGAAAGAAAAA-GAAAA
1 AGAAACAAAAACGAAAA
15247515 AGA
1 AGA
15247518 GAAAGAAGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.78, C:0.06, G:0.17, T:0.00
Consensus pattern (17 bp):
AGAAACAAAAACGAAAA
Found at i:15248442 original size:25 final size:25
Alignment explanation
Indices: 15248391--15248446 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
15248381 ACTTTAGCGC
* ***
15248391 GCTCTCTGATTATTAGCACGTTGGT
1 GCTCTCTGATTACTAGCACGACAGT
*
15248416 GCTCTCTGATTACTAGTACGACAGT
1 GCTCTCTGATTACTAGCACGACAGT
15248441 GCTCTC
1 GCTCTC
15248447 CGTTTAGCAC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.36
Consensus pattern (25 bp):
GCTCTCTGATTACTAGCACGACAGT
Found at i:15248491 original size:22 final size:23
Alignment explanation
Indices: 15248438--15248494 Score: 91
Period size: 22 Copynumber: 2.6 Consensus size: 23
15248428 CTAGTACGAC
*
15248438 AGTGCTCTCCGTTTAGCACATTT
1 AGTGCTCTCTGTTTAGCACATTT
15248461 -GTGCTCTCTGTTTAGCAC-TTT
1 AGTGCTCTCTGTTTAGCACATTT
15248482 AGTGCTCTCTGTT
1 AGTGCTCTCTGTT
15248495 CATTAGTGCA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
21 3 0.09
22 29 0.91
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (23 bp):
AGTGCTCTCTGTTTAGCACATTT
Found at i:15260689 original size:23 final size:23
Alignment explanation
Indices: 15260661--15260757 Score: 160
Period size: 23 Copynumber: 4.3 Consensus size: 23
15260651 GTGTTATTGA
15260661 TCAGTGGTAGCTTCGGCTACATT
1 TCAGTGGTAGCTTCGGCTACATT
*
15260684 TTAGTGGTAGCTTCGGCTACA-T
1 TCAGTGGTAGCTTCGGCTACATT
*
15260706 TCAGTGGTAGCTTCGGCTACATA
1 TCAGTGGTAGCTTCGGCTACATT
*
15260729 TCAGTGGTAGCTTCGGCTACATA
1 TCAGTGGTAGCTTCGGCTACATT
15260752 TCAGTG
1 TCAGTG
15260758 TGGCACTTAT
Statistics
Matches: 70, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
22 21 0.30
23 49 0.70
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.33
Consensus pattern (23 bp):
TCAGTGGTAGCTTCGGCTACATT
Found at i:15260725 original size:45 final size:46
Alignment explanation
Indices: 15260660--15260757 Score: 171
Period size: 45 Copynumber: 2.2 Consensus size: 46
15260650 AGTGTTATTG
* *
15260660 ATCAGTGGTAGCTTCGGCTACATTTTAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
15260706 -TCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
15260751 ATCAGTG
1 ATCAGTG
15260758 TGGCACTTAT
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
45 43 0.88
46 6 0.12
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (46 bp):
ATCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
Found at i:15262126 original size:22 final size:22
Alignment explanation
Indices: 15262071--15262149 Score: 104
Period size: 22 Copynumber: 3.6 Consensus size: 22
15262061 ATAGTGTGAC
* **
15262071 GCTTAGTACGTGAAACATGAGA
1 GCTTAGTACGTTAGCCATGAGA
15262093 GCTTAGTACGTTAGCCATGAGA
1 GCTTAGTACGTTAGCCATGAGA
*
15262115 GCTTAGTACGTTAGCCATGAGG
1 GCTTAGTACGTTAGCCATGAGA
* *
15262137 GTTTAGTTCGTTA
1 GCTTAGTACGTTA
15262150 CTGTTGAAAG
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (22 bp):
GCTTAGTACGTTAGCCATGAGA
Found at i:15267706 original size:23 final size:23
Alignment explanation
Indices: 15267653--15267727 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
15267643 AGTGTTATTG
15267653 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
15267676 -TCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
15267698 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
15267721 ATCAGTG
1 ATCAGTG
15267728 TGGCACTTAT
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
22 22 0.43
23 29 0.57
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.31
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:15275928 original size:38 final size:38
Alignment explanation
Indices: 15275861--15275983 Score: 113
Period size: 45 Copynumber: 3.1 Consensus size: 38
15275851 TGAAAATAGC
* * * * *
15275861 AGATCCTGTCTTCCTATATTGGTAG-GAAGTGGATCAA
1 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAA
*
15275898 AGATCTTGTGTTCCCATACTGGTGGCGAAGTAGATCGAAGAAA
1 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATC-----AA
*
15275941 GCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGA
1 --AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAA
15275981 AGA
1 AGA
15275984 AAGTAGATCT
Statistics
Matches: 70, Mismatches: 8, Indels: 15
0.75 0.09 0.16
Matches are distributed among these distances:
37 20 0.29
38 12 0.17
40 1 0.01
43 2 0.03
45 35 0.50
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.28
Consensus pattern (38 bp):
AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAA
Found at i:15276036 original size:44 final size:44
Alignment explanation
Indices: 15275924--15276870 Score: 693
Period size: 44 Copynumber: 21.5 Consensus size: 44
15275914 TACTGGTGGC
* * **
15275924 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCCATACTGGTGGC--
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTT--CAT-GTATTGGCAT
* *
15275969 GAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGGCAT
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCAT
* * * *
15276013 GAAGTAGATCAAAGGTAGCAGATCTTATCTTCATGTATTGGCGT
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCAT
* **
15276057 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGC--
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTT--CAT-GTATTGGCAT
* * *
15276102 GAAGTGGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGT
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCAT
* * * *
15276146 GAAGTAGATCAAATATAGTAAATCTTGTCTTCATGTATTGGCAT
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCAT
** * * **
15276190 GAAGTAGATCGAAGATAATAGATATTGTCTTCCCATACTGGTGGCA-
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTT--CAT-GTATTGGCAT
* * * * * * *
15276236 -AAGTTAGATCGAAGATAGCAAATCCTGTCTTCCTATATTAGTAG
1 GAAG-TAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCAT
* * **
15276280 GAAGTGGATCGAAGAT-GCAGATCTTGTCTTCCCATACTGGTGGC--
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTT--CAT-GTATTGGCAT
* * *
15276324 GAAGTAGATCGAAGAAAGCATATCTTGTCTTCATGTATTGGCGT
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCAT
* * * * *
15276368 GAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAG
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCAT
* * **
15276412 GAAGTGGATCGAAGAT-GCAGATCTTGTCTTCCCATACTGGTGGCA-
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTT--CAT-GTATTGGCAT
* *
15276457 -AAGTAGA---ACG--A--AGATCTTGTCTTCATGTATTGGCGT
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCAT
* * * *
15276493 GAAGTAGATCGAAGATAGCAAGA-CCTGTCTTCATATATTGGTAG
1 GAAGTAGATCGAAGATAGC-AGATCTTGTCTTCATGTATTGGCAT
* * *** * *
15276537 GAAGTGGATCGAAGAT-GCAGATCTTGTCTCCCCATATTGGTGAC
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGG-CAT
* * * *
15276581 GAAGTAGATCGAAAAAAGCAGATCTTGTCTTCATTTATCGGCAT
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCAT
* * * **
15276625 GAAGTAGATCAAAGGTAGCAGATCTTGTCTTCACGTATTGGTGT
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCAT
* **
15276669 GAAGTAGATCGAAGAT-GACATATCTTGTCTTCATGTATTGGTGT
1 GAAGTAGATCGAAGATAG-CAGATCTTGTCTTCATGTATTGGCAT
* * **
15276713 GAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGTGGC--
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTT--CAT-GTATTGGCAT
* * ** *
15276758 GAAATAGATCGAAGAAAATAAATCTTGTCTTCATGTATTGGCAT
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCAT
* ** * *
15276802 GAAGTAGATC-AAGGATAACAGATCTTACCTTCCTGTACTGGCAGT
1 GAAGTAGATCGAA-GATAGCAGATCTTGTCTTCATGTATTGGCA-T
* *
15276847 GAAGTAGATCAAAAATAGCAGATC
1 GAAGTAGATCGAAGATAGCAGATC
15276871 ATATCCAGTC
Statistics
Matches: 712, Mismatches: 144, Indels: 92
0.75 0.15 0.10
Matches are distributed among these distances:
35 5 0.01
36 3 0.00
37 7 0.01
38 12 0.02
40 2 0.00
41 2 0.00
42 24 0.03
43 60 0.08
44 391 0.55
45 150 0.21
46 41 0.06
47 15 0.02
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.29
Consensus pattern (44 bp):
GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCAT
Found at i:15276085 original size:88 final size:88
Alignment explanation
Indices: 15275924--15276870 Score: 780
Period size: 89 Copynumber: 10.8 Consensus size: 88
15275914 TACTGGTGGC
* * * * * *
15275924 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGTA
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATATTGG-CGTGAAGTAGATCGAAGATAGCA
15275989 GATCTTGTCTTCATGTATTGGCAT
65 GATCTTGTCTTCATGTATTGGCAT
* * * ***
15276013 GAAGTAGATCAAAGGTAGCAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAG
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATATTGGCGTGAAGTAGATCGAAGATAGCAG
* **
15276078 ATCTTGTCTTCCCATACTGGTGGC--
66 ATCTTGTCTT--CAT-GTATTGGCAT
* * *** * * * *
15276102 GAAGTGGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAATATAGTAA
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATATTGGCGTGAAGTAGATCGAAGATAGCAG
15276167 ATCTTGTCTTCATGTATTGGCAT
66 ATCTTGTCTTCATGTATTGGCAT
** * * *
15276190 GAAGTAGATCGAAGATAATAGATATTGTCTTCCCATACTGGTG-GCAAAGTTAGATCGAAGATAG
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATATTGGCGTG--AAG-TAGATCGAAGATAG
* * * * * * *
15276254 CAAATCCTGTCTTCCTATATTAGTAG
63 CAGATCTTGTCTTCATGTATTGGCAT
* * * * *
15276280 GAAGTGGATCGAAGAT-GCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCA
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATATTGG-CGTGAAGTAGATCGAAGATAGCA
* *
15276344 TATCTTGTCTTCATGTATTGGCGT
65 GATCTTGTCTTCATGTATTGGCAT
* * * *
15276368 GAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGAT-GCA
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATATTGG-CGTGAAGTAGATCGAAGATAGCA
* **
15276431 GATCTTGTCTTCCCATACTGGTGGCA-
65 GATCTTGTCTT--CAT-GTATTGGCAT
* ***
15276457 -AAGTAGA---ACG--A--AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAA
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATATTGGCGTGAAGTAGATCGAAGATAGC-A
* * * *
15276514 GA-CCTGTCTTCATATATTGGTAG
65 GATCTTGTCTTCATGTATTGGCAT
* * * * * *
15276537 GAAGTGGATCGAAGAT-GCAGATCTTGTCTCCCCATATTGGTGACGAAGTAGATCGAAAAAAGCA
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATATTGGCG-TGAAGTAGATCGAAGATAGCA
* *
15276601 GATCTTGTCTTCATTTATCGGCAT
65 GATCTTGTCTTCATGTATTGGCAT
* * * * *
15276625 GAAGTAGATCAAAGGTAGCAGATCTTGTCTTCACGTATTGGTGTGAAGTAGATCGAAGAT-GACA
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATATTGGCGTGAAGTAGATCGAAGATAG-CA
* **
15276689 TATCTTGTCTTCATGTATTGGTGT
65 GATCTTGTCTTCATGTATTGGCAT
* * * * * * **
15276713 GAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAATAGATCGAAGAAAATA
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATATTGG-CGTGAAGTAGATCGAAGATAGCA
*
15276778 AATCTTGTCTTCATGTATTGGCAT
65 GATCTTGTCTTCATGTATTGGCAT
* ** ** * * *
15276802 GAAGTAGATC-AAGGATAACAGATCTTACCTTCCTGTACTGGCAGTGAAGTAGATCAAAAATAGC
1 GAAGTAGATCGAA-GATAGCAGATCTTGTCTTCCCATATTGGC-GTGAAGTAGATCGAAGATAGC
15276866 AGATC
64 AGATC
15276871 ATATCCAGTC
Statistics
Matches: 685, Mismatches: 139, Indels: 68
0.77 0.16 0.08
Matches are distributed among these distances:
79 5 0.01
80 4 0.01
81 40 0.06
82 9 0.01
83 4 0.01
84 2 0.00
85 2 0.00
86 5 0.01
87 40 0.06
88 250 0.36
89 263 0.38
90 55 0.08
91 6 0.01
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.29
Consensus pattern (88 bp):
GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATATTGGCGTGAAGTAGATCGAAGATAGCAG
ATCTTGTCTTCATGTATTGGCAT
Found at i:15276093 original size:133 final size:132
Alignment explanation
Indices: 15275924--15276870 Score: 828
Period size: 133 Copynumber: 7.2 Consensus size: 132
15275914 TACTGGTGGC
* * *
15275924 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGTA
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGATAGCA
* * * * *
15275989 GATCTTGTCTTCATGTATTGGCATGAAGTAGATCAAAGGTAGCAGATCTTATCTTCATGTATTGG
66 GATCTTGTCTTCATGTATTGGTATGAAGTAGATCGAAGAT-GCAGATCTTGTCTTCCTGTATTGG
15276054 CGT
130 CGT
* *
15276057 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTGGATCGAAGAAAGCA
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGATAGCA
** * * * * *
15276122 GATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAATATAGTAAATCTTGTCTTCATGTATTGG
66 GATCTTGTCTTCATGTATTGGTATGAAGTAGATCGAAGAT-GCAGATCTTGTCTTCCTGTATTGG
*
15276187 CAT
130 CGT
** * *
15276190 GAAGTAGATCGAAGATAATAGATATTGTCTTCCCATACTGGTGGCAAAGTTAGATCGAAGATAGC
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAG-TAGATCGAAGATAGC
* * * * * * * ** *
15276255 AAATCCTGTCTTCCTATATTAGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGG
65 AGATCTTGTCTTCATGTATTGGTATGAAGTAGATCGAAGATGCAGATCTTGTCTTCCTGTATTGG
* *
15276320 TGGC
130 -CGT
* * *** * * *
15276324 GAAGTAGATCGAAGAAAGCATATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGCA
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGATAGCA
* * * * * ** * *
15276388 GATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGT
66 GATCTTGTCTTCATGTATTGGTATGAAGTAGATCGAAGATGCAGATCTTGTCTTCCTGTATTGGC
15276453 G-
131 GT
* *** * * *
15276454 GCAA--AG-T---AGA-ACGAAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAG
1 G-AAGTAGATCGAAGATA-GCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGATAG
* * * * * **
15276511 CAAGA-CCTGTCTTCATATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTCCCCATATT
64 C-AGATCTTGTCTTCATGTATTGGTATGAAGTAGATCGAAGATGCAGATCTTGTCTTCCTGTATT
* *
15276575 GGTGAC
128 GGCG-T
* * ** * *
15276581 GAAGTAGATCGAAAAAAGCAGATCTTGTCTT--CAT--TTATCGGCATGAAGTAGATCAAAGGTA
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGT-GGC--GAAGTAGATCGAAGATA
* * * *
15276642 GCAGATCTTGTCTTCACGTATTGGTGTGAAGTAGATCGAAGATGACATATCTTGTCTTCATGTAT
63 GCAGATCTTGTCTTCATGTATTGGTATGAAGTAGATCGAAGATG-CAGATCTTGTCTTCCTGTAT
*
15276707 TGGTGT
127 TGGCGT
* * * **
15276713 GAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAATAGATCGAAGAAAATA
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGATAGCA
* * * ** *
15276778 AATCTTGTCTTCATGTATTGGCATGAAGTAGATC-AAGGATAACAGATCTTACCTTCCTGTACTG
66 GATCTTGTCTTCATGTATTGGTATGAAGTAGATCGAA-GAT-GCAGATCTTGTCTTCCTGTATTG
15276842 GCAGT
129 GC-GT
* *
15276847 GAAGTAGATCAAAAATAGCAGATC
1 GAAGTAGATCGAAGATAGCAGATC
15276871 ATATCCAGTC
Statistics
Matches: 686, Mismatches: 101, Indels: 53
0.82 0.12 0.06
Matches are distributed among these distances:
124 1 0.00
125 107 0.16
126 5 0.01
127 1 0.00
128 4 0.01
129 3 0.00
130 3 0.00
131 6 0.01
132 172 0.25
133 276 0.40
134 103 0.15
135 3 0.00
136 2 0.00
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.29
Consensus pattern (132 bp):
GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGATAGCA
GATCTTGTCTTCATGTATTGGTATGAAGTAGATCGAAGATGCAGATCTTGTCTTCCTGTATTGGC
GT
Found at i:15276842 original size:89 final size:89
Alignment explanation
Indices: 15275924--15276827 Score: 790
Period size: 88 Copynumber: 10.3 Consensus size: 89
15275914 TACTGGTGGC
* * *
15275924 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGTA
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCA
*
15275989 GATCTTGTCTTCATGTATTGGCAT
66 AATCTTGTCTTCATGTATTGGCAT
* * * *** * * *
15276013 GAAGTAGATCAAAGGTAGCAGATCTTATCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGCA
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCA
* * **
15276077 GATCTTGTCTTCCCATACTGGTGGC--
66 AATCTTGTCTT--CAT-GTATTGGCAT
* * *** * * * * * *
15276102 GAAGTGGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCAAATATAGTA
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCA
15276166 AATCTTGTCTTCATGTATTGGCAT
66 AATCTTGTCTTCATGTATTGGCAT
** * * * *
15276190 GAAGTAGATCGAAGATAATAGATATTGTCTTCCCATACTGGTGGCAAAGTTAGATCGAAGATAGC
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATATTGGTGGCGAAG-TAGATCGAAGAAAGC
* * * * * *
15276255 AAATCCTGTCTTCCTATATTAGTAG
65 AAATCTTGTCTTCATGTATTGGCAT
* *
15276280 GAAGTGGATCGAAGAT-GCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCA
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCA
* *
15276344 TATCTTGTCTTCATGTATTGGCGT
66 AATCTTGTCTTCATGTATTGGCAT
* * * * *
15276368 GAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAG-GAAGTGGATCGAAG-ATGCA
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCA
* * **
15276431 GATCTTGTCTTCCCATACTGGTGGCA-
66 AATCTTGTCTT--CAT-GTATTGGCAT
* *** * * *
15276457 -AAGTAGA---ACG--A--AGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGCA
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCA
* * * *
15276513 AGA-CCTGTCTTCATATATTGGTAG
66 A-ATCTTGTCTTCATGTATTGGCAT
* * * *
15276537 GAAGTGGATCGAAGAT-GCAGATCTTGTCTCCCCATATTGGTGACGAAGTAGATCGAAAAAAGCA
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCA
* * *
15276601 GATCTTGTCTTCATTTATCGGCAT
66 AATCTTGTCTTCATGTATTGGCAT
* * * * * *
15276625 GAAGTAGATCAAAGGTAGCAGATCTTGTCTTCACGTATTGGT-GTGAAGTAGATCGAAG-ATGAC
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAG-C
* **
15276688 ATATCTTGTCTTCATGTATTGGTGT
65 AAATCTTGTCTTCATGTATTGGCAT
* * * **
15276713 GAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAATAGATCGAAGAAAATA
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCA
15276778 AATCTTGTCTTCATGTATTGGCAT
66 AATCTTGTCTTCATGTATTGGCAT
*
15276802 GAAGTAGATC-AAGGATAACAGATCTT
1 GAAGTAGATCGAA-GATAGCAGATCTT
15276828 ACCTTCCTGT
Statistics
Matches: 652, Mismatches: 133, Indels: 60
0.77 0.16 0.07
Matches are distributed among these distances:
79 5 0.01
80 4 0.01
81 38 0.06
82 10 0.02
83 2 0.00
84 2 0.00
85 2 0.00
86 5 0.01
87 38 0.06
88 249 0.38
89 237 0.36
90 55 0.08
91 5 0.01
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (89 bp):
GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCA
AATCTTGTCTTCATGTATTGGCAT
Found at i:15277422 original size:13 final size:13
Alignment explanation
Indices: 15277390--15277416 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
15277380 AACTCGAAAT
15277390 AAGCAATGGCCCA
1 AAGCAATGGCCCA
15277403 AAGCAATGGCCCA
1 AAGCAATGGCCCA
15277416 A
1 A
15277417 CACAATATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.30, G:0.22, T:0.07
Consensus pattern (13 bp):
AAGCAATGGCCCA
Found at i:15285338 original size:21 final size:21
Alignment explanation
Indices: 15285314--15285379 Score: 53
Period size: 21 Copynumber: 3.1 Consensus size: 21
15285304 TATGTTTGAG
15285314 TCATAAATTAGATGTGATGTT
1 TCATAAATTAGATGTGATGTT
** * * * *
15285335 TCATTATGTTTGTTAT-ATGAT
1 TCA-TAAATTAGATGTGATGTT
*
15285356 TCATAAATTCGATGTGATGTT
1 TCATAAATTAGATGTGATGTT
15285377 TCA
1 TCA
15285380 CTATATTTTT
Statistics
Matches: 31, Mismatches: 12, Indels: 4
0.66 0.26 0.09
Matches are distributed among these distances:
20 7 0.23
21 17 0.55
22 7 0.23
ACGTcount: A:0.29, C:0.08, G:0.17, T:0.47
Consensus pattern (21 bp):
TCATAAATTAGATGTGATGTT
Found at i:15285400 original size:42 final size:42
Alignment explanation
Indices: 15285314--15285400 Score: 120
Period size: 42 Copynumber: 2.1 Consensus size: 42
15285304 TATGTTTGAG
* * *
15285314 TCATAAATTAGATGTGATGTTTCATTATGTTTGTTATATGAT
1 TCATAAATTAGATGTGATGTTTCACTATATTTGTTACATGAT
* * *
15285356 TCATAAATTCGATGTGATGTTTCACTATATTTTTTACATTAT
1 TCATAAATTAGATGTGATGTTTCACTATATTTGTTACATGAT
15285398 TCA
1 TCA
15285401 AGAAAGTAGG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.29, C:0.09, G:0.13, T:0.49
Consensus pattern (42 bp):
TCATAAATTAGATGTGATGTTTCACTATATTTGTTACATGAT
Found at i:15290749 original size:39 final size:39
Alignment explanation
Indices: 15290706--15290823 Score: 119
Period size: 39 Copynumber: 3.0 Consensus size: 39
15290696 TCATATTTAA
* * *
15290706 CATATAGTCACCTAACATACAAGCATATATCACAATACT
1 CATATAATCACATAACATTCAAGCATATATCACAATACT
* * * * * *
15290745 CATATAATCTCATGACGTTTAAGCATATTTCATAATACT
1 CATATAATCACATAACATTCAAGCATATATCACAATACT
** * *
15290784 TGTAAAATCACATAACATTCAAGCATATACCACAATACT
1 CATATAATCACATAACATTCAAGCATATATCACAATACT
15290823 C
1 C
15290824 TAAAACATCT
Statistics
Matches: 59, Mismatches: 20, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
39 59 1.00
ACGTcount: A:0.42, C:0.23, G:0.06, T:0.30
Consensus pattern (39 bp):
CATATAATCACATAACATTCAAGCATATATCACAATACT
Found at i:15297737 original size:22 final size:23
Alignment explanation
Indices: 15297684--15297739 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
15297674 TTTAATTAAA
* * *
15297684 ATTAAAATTAAAATTATTTTTTT
1 ATTAAAATTAAAACTATATTGTT
*
15297707 AATAAAATTAAAACTA-ATTGTT
1 ATTAAAATTAAAACTATATTGTT
15297729 ATTAAAATTAA
1 ATTAAAATTAA
15297740 TTGTTAGTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
ATTAAAATTAAAACTATATTGTT
Found at i:15297752 original size:16 final size:16
Alignment explanation
Indices: 15297715--15297754 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
15297705 TTAATAAAAT
* *
15297715 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
15297731 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
15297747 TAAAATTA
1 TAAAATTA
15297755 TCAAATTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:15297898 original size:9 final size:9
Alignment explanation
Indices: 15297886--15297913 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
15297876 TTTATCAAAT
15297886 TATTAATTG
1 TATTAATTG
15297895 TATTAATTG
1 TATTAATTG
15297904 TATTAATTG
1 TATTAATTG
15297913 T
1 T
15297914 TGTAACAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:15297903 original size:59 final size:59
Alignment explanation
Indices: 15297765--15297904 Score: 262
Period size: 59 Copynumber: 2.4 Consensus size: 59
15297755 TCAAATTGTT
* *
15297765 AATTGTTAATTGTATTAATTCTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
15297824 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
15297883 AATTATTAATTGTATTAATTGT
1 AATTATTAATTGTATTAATTGT
15297905 ATTAATTGTT
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 79 1.00
ACGTcount: A:0.39, C:0.05, G:0.09, T:0.47
Consensus pattern (59 bp):
AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
Found at i:15298039 original size:24 final size:25
Alignment explanation
Indices: 15298010--15298056 Score: 71
Period size: 24 Copynumber: 1.9 Consensus size: 25
15298000 AAATAAACTT
15298010 AAAATAAAAA-ACTAT-TATATTTTA
1 AAAATAAAAATA-TATATATATTTTA
15298034 AAAATAAAAATATATATATATTT
1 AAAATAAAAATATATATATATTT
15298057 AATATTTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (25 bp):
AAAATAAAAATATATATATATTTTA
Found at i:15300020 original size:21 final size:21
Alignment explanation
Indices: 15299996--15300042 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
15299986 AATTTAATAA
15299996 TAATTAAAATGTTTTTATTAC
1 TAATTAAAATGTTTTTATTAC
* * * *
15300017 TAATTATATTTTTTTTATTTC
1 TAATTAAAATGTTTTTATTAC
15300038 TAATT
1 TAATT
15300043 GAATTTTTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (21 bp):
TAATTAAAATGTTTTTATTAC
Found at i:15300048 original size:21 final size:21
Alignment explanation
Indices: 15300007--15300051 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
15299997 AATTAAAATG
15300007 TTTTTATTACTAATTATATTT
1 TTTTTATTACTAATTATATTT
*
15300028 TTTTTATTTCTAATTGA-ATTT
1 TTTTTATTACTAATT-ATATTT
15300049 TTT
1 TTT
15300052 AACATTACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.69
Consensus pattern (21 bp):
TTTTTATTACTAATTATATTT
Found at i:15307252 original size:22 final size:22
Alignment explanation
Indices: 15307221--15307264 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
15307211 AAAAGTTTGT
15307221 ATGCTAATTCATGAAATCAAAG
1 ATGCTAATTCATGAAATCAAAG
*
15307243 ATGCTCATTCATGAAATCAAAG
1 ATGCTAATTCATGAAATCAAAG
15307265 CTACTAGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (22 bp):
ATGCTAATTCATGAAATCAAAG
Found at i:15311097 original size:50 final size:50
Alignment explanation
Indices: 15310982--15311222 Score: 340
Period size: 50 Copynumber: 4.8 Consensus size: 50
15310972 TAATAACATG
* * ** *
15310982 CCAAAGCCATGTCCTAGACATGGTCTTACATGGGATGTACTCATGTCGGTGC
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCT-CTCATCTCGGT-C
* ** *
15311034 CC-ATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCGTCTCGGTC
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTC
* *
15311083 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTC
*
15311133 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTC
*
15311183 CCAACGCCATGTTCCAGACATGGTCTTACATGGGACCTCT
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
15311223 TTACCCAAAT
Statistics
Matches: 174, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
49 3 0.02
50 140 0.80
51 29 0.17
52 2 0.01
ACGTcount: A:0.20, C:0.32, G:0.23, T:0.25
Consensus pattern (50 bp):
CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTC
Found at i:15311338 original size:13 final size:13
Alignment explanation
Indices: 15311317--15311348 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
15311307 GCTTGGATCA
*
15311317 TCATCAAATAAAT
1 TCATAAAATAAAT
15311330 TCATAAAATAAAT
1 TCATAAAATAAAT
15311343 TCATAA
1 TCATAA
15311349 TTTCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:15311592 original size:29 final size:30
Alignment explanation
Indices: 15311560--15311616 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
15311550 CCTCGACTCT
15311560 AACTTTT-CAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
15311589 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
15311617 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 7 0.28
30 18 0.72
ACGTcount: A:0.32, C:0.25, G:0.04, T:0.40
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:15319496 original size:16 final size:16
Alignment explanation
Indices: 15319477--15319508 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
15319467 TTCCTTCAGA
15319477 TTTATTTAACTGTTTT
1 TTTATTTAACTGTTTT
*
15319493 TTTATTTAATTGTTTT
1 TTTATTTAACTGTTTT
15319509 CAGCTTTACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.03, G:0.06, T:0.72
Consensus pattern (16 bp):
TTTATTTAACTGTTTT
Found at i:15322826 original size:19 final size:19
Alignment explanation
Indices: 15322804--15322841 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
15322794 ATAATAAGAT
15322804 AAACATATTCTAATGCTTA
1 AAACATATTCTAATGCTTA
15322823 AAACATATTCTAATGCTTA
1 AAACATATTCTAATGCTTA
15322842 CTTGATAGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.16, G:0.05, T:0.37
Consensus pattern (19 bp):
AAACATATTCTAATGCTTA
Found at i:15333586 original size:43 final size:43
Alignment explanation
Indices: 15333525--15333633 Score: 139
Period size: 43 Copynumber: 2.5 Consensus size: 43
15333515 TTGAGTAAGT
* *
15333525 CGAAGCAATTATATTGGCACACAAGGTGTACCATC-GAGCAAGC
1 CGAAGCAATTATATTGGCACACAAGGTGCACCATCGGA-CAAAC
* * *
15333568 CGAAGCAATTATATTGGCACACGAGGTGCATCATCGGACAAAT
1 CGAAGCAATTATATTGGCACACAAGGTGCACCATCGGACAAAC
* *
15333611 CGAAGCAATTATACTCGCACACA
1 CGAAGCAATTATATTGGCACACA
15333634 TAGTGTTGGA
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
43 55 0.96
44 2 0.04
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.19
Consensus pattern (43 bp):
CGAAGCAATTATATTGGCACACAAGGTGCACCATCGGACAAAC
Found at i:15338076 original size:21 final size:19
Alignment explanation
Indices: 15338039--15338082 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 19
15338029 ATTTAGAGAT
15338039 TTGA-ATGTGATATTGAAA
1 TTGATATGTGATATTGAAA
*
15338057 TTGATATGTGATGGATTGAAC
1 TTGATATGTGAT--ATTGAAA
15338078 TTGAT
1 TTGAT
15338083 GGCATGAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 4 0.18
19 7 0.32
21 11 0.50
ACGTcount: A:0.32, C:0.02, G:0.25, T:0.41
Consensus pattern (19 bp):
TTGATATGTGATATTGAAA
Found at i:15339270 original size:17 final size:18
Alignment explanation
Indices: 15339231--15339274 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
15339221 AATCAAATGA
15339231 ATAGAAATG-GTGAAAAT
1 ATAGAAATGAGTGAAAAT
* *
15339248 AAAGAAATGAGT-AACAT
1 ATAGAAATGAGTGAAAAT
15339265 ATAGAAATGA
1 ATAGAAATGA
15339275 TAATGATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 21 0.91
18 2 0.09
ACGTcount: A:0.57, C:0.02, G:0.20, T:0.20
Consensus pattern (18 bp):
ATAGAAATGAGTGAAAAT
Found at i:15339357 original size:6 final size:6
Alignment explanation
Indices: 15339346--15339386 Score: 64
Period size: 6 Copynumber: 6.5 Consensus size: 6
15339336 GATTTTCTCC
15339346 AAAATG AAAATG AAAATG AAAATG AAAATGG AAAAATG AAA
1 AAAATG AAAATG AAAATG AAAATG AAAAT-G -AAAATG AAA
15339387 TCATTTGAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 26 0.79
7 2 0.06
8 5 0.15
ACGTcount: A:0.68, C:0.00, G:0.17, T:0.15
Consensus pattern (6 bp):
AAAATG
Found at i:15339367 original size:69 final size:69
Alignment explanation
Indices: 15339289--15339428 Score: 181
Period size: 69 Copynumber: 2.0 Consensus size: 69
15339279 GATTTTCTCT
* * * * ** *
15339289 AAAATGAAAAACAAAATGGAGAAATGGAATTATTTTAAAATGAATGTGATTTTCTCCAAAATGAA
1 AAAATGAAAAACAAAATGGAAAAATGAAATCATTTGAAAATGAATAAGATTTTATCCAAAATGAA
15339354 AATG
66 AATG
** * *
15339358 AAAATGAAAATGAAAATGGAAAAATGAAATCATTTGAAAATGAATAAGGTTTTATCTAAAATGAA
1 AAAATGAAAAACAAAATGGAAAAATGAAATCATTTGAAAATGAATAAGATTTTATCCAAAATGAA
15339423 AATG
66 AATG
15339427 AA
1 AA
15339429 TTGAAAATGA
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
69 60 1.00
ACGTcount: A:0.54, C:0.04, G:0.16, T:0.26
Consensus pattern (69 bp):
AAAATGAAAAACAAAATGGAAAAATGAAATCATTTGAAAATGAATAAGATTTTATCCAAAATGAA
AATG
Found at i:15340562 original size:20 final size:20
Alignment explanation
Indices: 15340537--15340577 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
15340527 ATCAAATTGG
15340537 TTTAATTAACATAAACTTAA
1 TTTAATTAACATAAACTTAA
* *
15340557 TTTAATTAACTTAACCTTAA
1 TTTAATTAACATAAACTTAA
15340577 T
1 T
15340578 CAATACTTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (20 bp):
TTTAATTAACATAAACTTAA
Found at i:15342252 original size:39 final size:39
Alignment explanation
Indices: 15342209--15342287 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
15342199 TGTAAATCAT
15342209 AACCAACTGAAGTAAGCTTTAACAAAGAATAAACACAAC
1 AACCAACTGAAGTAAGCTTTAACAAAGAATAAACACAAC
*
15342248 AACCATCTGAAGTAAGCTTTAACAAAGAATAAACACAAC
1 AACCAACTGAAGTAAGCTTTAACAAAGAATAAACACAAC
15342287 A
1 A
15342288 CCTGTCCAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.53, C:0.20, G:0.10, T:0.16
Consensus pattern (39 bp):
AACCAACTGAAGTAAGCTTTAACAAAGAATAAACACAAC
Found at i:15346754 original size:13 final size:14
Alignment explanation
Indices: 15346738--15346766 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
15346728 TTTCCATCTA
15346738 TCTTCTTTATT-TT
1 TCTTCTTTATTGTT
15346751 TCTTCTTTATTGTT
1 TCTTCTTTATTGTT
15346765 TC
1 TC
15346767 AATATTTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.07, C:0.17, G:0.03, T:0.72
Consensus pattern (14 bp):
TCTTCTTTATTGTT
Found at i:15346871 original size:27 final size:27
Alignment explanation
Indices: 15346840--15346893 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
15346830 CAACATAAAG
15346840 AGTCTGTCGAG-ACATTAAACATGGGGT
1 AGTCTG-CGAGAACATTAAACATGGGGT
* *
15346867 AGTCTGCTAGAACATTAAACGTGGGGT
1 AGTCTGCGAGAACATTAAACATGGGGT
15346894 TACATGTGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 3 0.12
27 21 0.88
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.26
Consensus pattern (27 bp):
AGTCTGCGAGAACATTAAACATGGGGT
Found at i:15346980 original size:94 final size:94
Alignment explanation
Indices: 15346818--15347057 Score: 336
Period size: 94 Copynumber: 2.6 Consensus size: 94
15346808 ATTTTATTTG
* *
15346818 ACTCGGCTATAACAACATAAAGAGTCTGTCGAGACATTAAACATGGGGTAGTCTGCTAGAACATT
1 ACTCGGCTATAACAACATAGAGAGTCTGTCGAGACATTAAACATGGGGTAGTCCGCTAGAACATT
*
15346883 AAACGTGGGGTTACATGTGTAAGACCATA
66 AAACATGGGGTTACATGTGTAAGACCATA
* * *
15346912 GCTCGGTTATAACAACATAGAGAGTCTGTCGAGACATTAAACACGGGGTAGTCCGCTAGAACATT
1 ACTCGGCTATAACAACATAGAGAGTCTGTCGAGACATTAAACATGGGGTAGTCCGCTAGAACATT
* *
15346977 AAACATGTGGTTACATGTGTACGACCATA
66 AAACATGGGGTTACATGTGTAAGACCATA
** * * * * * *
15347006 ACTCAACTATGATAGCATAGAGAGTCCGTTGGGACATTAAACATGGGGTAGT
1 ACTCGGCTATAACAACATAGAGAGTCTGTCGAGACATTAAACATGGGGTAGT
15347058 TGTTAGAGTA
Statistics
Matches: 127, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
94 127 1.00
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (94 bp):
ACTCGGCTATAACAACATAGAGAGTCTGTCGAGACATTAAACATGGGGTAGTCCGCTAGAACATT
AAACATGGGGTTACATGTGTAAGACCATA
Found at i:15354085 original size:74 final size:74
Alignment explanation
Indices: 15353964--15355067 Score: 1679
Period size: 74 Copynumber: 15.0 Consensus size: 74
15353954 AACAAAGGCA
* *
15353964 ACAATCCATGTGTTAGAATTCATCAACTGCTTTACATGCTAACAATCTTAACTCGCTATCTAAAC
1 ACAATCCACGTGTTAGAAATCATCAACTGCTTTACATGCTAACAATCTTAACTCGCTATCTAAAC
15354029 ACACAACAT
66 ACACAACAT
* *
15354038 ACAATCCACATGTTAGAAATCATCAACTGCTTTACATGCTAACAATCTTAACGCGCTATCTAAAC
1 ACAATCCACGTGTTAGAAATCATCAACTGCTTTACATGCTAACAATCTTAACTCGCTATCTAAAC
15354103 ACACAACAT
66 ACACAACAT
* ** *
15354112 ACAATCCACGTGTTAGAATTCATCAACTGCTTTACATGCTAACAATCAAAACTCGCTATCTAAGC
1 ACAATCCACGTGTTAGAAATCATCAACTGCTTTACATGCTAACAATCTTAACTCGCTATCTAAAC
15354177 ACACAACAT
66 ACACAACAT
* *
15354186 ACAATCCACGTGTTAGAAATCATCAACTGCTTTACATGCTAACAACCTTAACGCGCTATCTAAAC
1 ACAATCCACGTGTTAGAAATCATCAACTGCTTTACATGCTAACAATCTTAACTCGCTATCTAAAC
15354251 ACACAACAT
66 ACACAACAT
* *
15354260 ACAACCCACGTGTTAGAATTCATCAACTGCTTTACATGCTAACAATCTTAACTCGCTATCTAAAC
1 ACAATCCACGTGTTAGAAATCATCAACTGCTTTACATGCTAACAATCTTAACTCGCTATCTAAAC
15354325 ACACAACAT
66 ACACAACAT
* *
15354334 ACAATCCACATGTTAGAAATCATCAACTGCTTTACATGCTAACAATCTTAACGCGCTATCTAAAC
1 ACAATCCACGTGTTAGAAATCATCAACTGCTTTACATGCTAACAATCTTAACTCGCTATCTAAAC
15354399 ACACAACAT
66 ACACAACAT
* ** *
15354408 ACAATCCACGTGTTAGAATTCATCAACTGCTTTACATGCTAACAATCAGAACTCGCTATCTAAGC
1 ACAATCCACGTGTTAGAAATCATCAACTGCTTTACATGCTAACAATCTTAACTCGCTATCTAAAC
15354473 ACACAACAT
66 ACACAACAT
* *
15354482 ACAATCCACGTGTTAGAAATCATCAACTGCTTTACATGCTAACAACCTTAACGCGCTATCTAAAC
1 ACAATCCACGTGTTAGAAATCATCAACTGCTTTACATGCTAACAATCTTAACTCGCTATCTAAAC
15354547 ACACAACAT
66 ACACAACAT
* * * * * *
15354556 ACAACCCACGTGTTAGAATTCATCAACTGCTTAACATGCTAGCAATCATAACTTGCTATCTAAAC
1 ACAATCCACGTGTTAGAAATCATCAACTGCTTTACATGCTAACAATCTTAACTCGCTATCTAAAC
15354621 ACACAACAT
66 ACACAACAT
* * * * *
15354630 ACAATCCATGTGTTAGAAATCATCAACTGCTTTACAGGCTAACAACCTTAGCGCGCTATCTAAAC
1 ACAATCCACGTGTTAGAAATCATCAACTGCTTTACATGCTAACAATCTTAACTCGCTATCTAAAC
15354695 ACACAACAT
66 ACACAACAT
15354704 ACAATCCACGTGTTAG-AATCCATCAACTGCTTTACATGCTAACAATCTTAACTCGCTATCTAAA
1 ACAATCCACGTGTTAGAAAT-CATCAACTGCTTTACATGCTAACAATCTTAACTCGCTATCTAAA
15354768 C-CACAACAT
65 CACACAACAT
*
15354777 ACAATCCACGTGTTAGAATTCATCAACTGCTTTACATGCTAACAATCTTAACTCGCTATCTAAAC
1 ACAATCCACGTGTTAGAAATCATCAACTGCTTTACATGCTAACAATCTTAACTCGCTATCTAAAC
15354842 -CACAACAT
66 ACACAACAT
* *
15354850 ACAATCCACGTGTTAGAATTCATCAACTGCTTTACATGCTAACAATCTTAACTTGCTATCTAAAC
1 ACAATCCACGTGTTAGAAATCATCAACTGCTTTACATGCTAACAATCTTAACTCGCTATCTAAAC
*
15354915 AGACAACAT
66 ACACAACAT
* * * * * * * *
15354924 GCAACCCACATGTT-----TCATCAACTTCTTTACATGCTAACAACCTTATCGCGCTACCTAAAC
1 ACAATCCACGTGTTAGAAATCATCAACTGCTTTACATGCTAACAATCTTAACTCGCTATCTAAAC
*
15354984 ACAAAACA-
66 ACACAACAT
* ** *
15354992 AAAATTCCACGTACTAG-AATCCATCAACTGCTTTACATGCTAACAATCTTAACTCACTATCTAA
1 ACAA-TCCACGTGTTAGAAAT-CATCAACTGCTTTACATGCTAACAATCTTAACTCGCTATCTAA
15355056 ACACACAACAT
64 ACACACAACAT
15355067 A
1 A
15355068 TAATAGAGTA
Statistics
Matches: 933, Mismatches: 87, Indels: 19
0.90 0.08 0.02
Matches are distributed among these distances:
68 2 0.00
69 52 0.06
73 145 0.16
74 733 0.79
75 1 0.00
ACGTcount: A:0.37, C:0.28, G:0.09, T:0.26
Consensus pattern (74 bp):
ACAATCCACGTGTTAGAAATCATCAACTGCTTTACATGCTAACAATCTTAACTCGCTATCTAAAC
ACACAACAT
Found at i:15356712 original size:17 final size:18
Alignment explanation
Indices: 15356674--15356710 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
15356664 TGGTTCATGC
15356674 AAAGAGCAATGCAGAAAG
1 AAAGAGCAATGCAGAAAG
*
15356692 AAAGAG-AATGGAG-AAG
1 AAAGAGCAATGCAGAAAG
15356708 AAA
1 AAA
15356711 AGTTAAAAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 6 0.33
17 6 0.33
18 6 0.33
ACGTcount: A:0.59, C:0.05, G:0.30, T:0.05
Consensus pattern (18 bp):
AAAGAGCAATGCAGAAAG
Found at i:15362732 original size:2 final size:2
Alignment explanation
Indices: 15362725--15362749 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15362715 ATTTGCCTTT
15362725 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
15362750 CATGATTTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15366438 original size:43 final size:43
Alignment explanation
Indices: 15366389--15366487 Score: 144
Period size: 43 Copynumber: 2.3 Consensus size: 43
15366379 GGAATGATTT
* *
15366389 CGTGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTA
1 CGTGTAAGACCATGTCTGGGACAGTGGCATCGATATGAGATAA
* * *
15366432 TGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATGTGATAA
1 CGTGTAAGACCATGTCTGGGACAGTGGCATCGATATGAGATAA
*
15366475 CATGTAAGACCAT
1 CGTGTAAGACCAT
15366488 ATATGGGATA
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.27
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACAGTGGCATCGATATGAGATAA
Found at i:15366972 original size:2 final size:2
Alignment explanation
Indices: 15366965--15367009 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
15366955 TTTTGATCAG
15366965 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
15367007 TA T
1 TA T
15367010 CCATGCAAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:15367259 original size:69 final size:69
Alignment explanation
Indices: 15367143--15367447 Score: 337
Period size: 69 Copynumber: 4.4 Consensus size: 69
15367133 GATGGCGAGG
* * * * * * * *
15367143 TGCTGTCCGAATGTTATTTAAATG-TAGTTCATATTTGAGCAAACTAATACTGTCTGAATGTTGG
1 TGCTATCCGAATGTTGTTTAAATGCT-GTCCATAATTAAGCATACTAATGCTGTCCGAATGTTGG
15367207 TTAAA
65 TTAAA
*
15367212 TGCTATCCGAATGTTGGTTAAATGCTGTCCATAATTAAGCATACTAATGCTGTCCGAATGTTGGT
1 TGCTATCCGAATGTTGTTTAAATGCTGTCCATAATTAAGCATACTAATGCTGTCCGAATGTTGGT
15367277 TAAA
66 TAAA
* * * * * *
15367281 TGTTATCCAAATATTGTTTAAAAGCTTTCCATAATTAAGCATACTAATGCTGTCTGAATGTTGGT
1 TGCTATCCGAATGTTGTTTAAATGCTGTCCATAATTAAGCATACTAATGCTGTCCGAATGTTGGT
15367346 TAAA
66 TAAA
* * * * * * * *
15367350 TGTTGTCTGAATATTGTTTAAATGCTGTCCTTAATTGAGCATACTAATGTTGTCCGAATGATGGT
1 TGCTATCCGAATGTTGTTTAAATGCTGTCCATAATTAAGCATACTAATGCTGTCCGAATGTTGGT
15367415 TAAA
66 TAAA
* *
15367419 TGTCGT-T-CGAATGTTGGTTAAATGTTGTC
1 TG-C-TATCCGAATGTTGTTTAAATGCTGTC
15367448 TGAATGTTGC
Statistics
Matches: 202, Mismatches: 31, Indels: 6
0.85 0.13 0.03
Matches are distributed among these distances:
69 199 0.99
70 2 0.01
71 1 0.00
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.39
Consensus pattern (69 bp):
TGCTATCCGAATGTTGTTTAAATGCTGTCCATAATTAAGCATACTAATGCTGTCCGAATGTTGGT
TAAA
Found at i:15367356 original size:22 final size:22
Alignment explanation
Indices: 15367326--15367469 Score: 114
Period size: 22 Copynumber: 6.4 Consensus size: 22
15367316 TAAGCATACT
*
15367326 AATGCTGTCTGAATGTTGGTTA
1 AATGTTGTCTGAATGTTGGTTA
* *
15367348 AATGTTGTCTGAATATTGTTTA
1 AATGTTGTCTGAATGTTGGTTA
* * *
15367370 AATGCTGTCCTTAA--TTGAGCATA
1 AATGTTGT-CTGAATGTTG-G-TTA
* *
15367393 CTAATGTTGTCCGAATGATGGTTA
1 --AATGTTGTCTGAATGTTGGTTA
*
15367417 AATGTCGT-TCGAATGTTGGTTA
1 AATGTTGTCT-GAATGTTGGTTA
*
15367439 AATGTTGTCTGAATGTTGCTTA
1 AATGTTGTCTGAATGTTGGTTA
*
15367461 AATGCTGTC
1 AATGTTGTC
15367470 CATTTAATGT
Statistics
Matches: 95, Mismatches: 18, Indels: 18
0.73 0.14 0.14
Matches are distributed among these distances:
21 3 0.03
22 70 0.74
23 7 0.07
24 5 0.05
25 8 0.08
26 2 0.02
ACGTcount: A:0.25, C:0.11, G:0.23, T:0.41
Consensus pattern (22 bp):
AATGTTGTCTGAATGTTGGTTA
Found at i:15377048 original size:53 final size:53
Alignment explanation
Indices: 15376986--15377372 Score: 286
Period size: 53 Copynumber: 7.3 Consensus size: 53
15376976 CCTAAACTCT
* * **
15376986 TAATTATTTTAATTAAAATCTAAATTATTATCTAACCTATTAATTTAAATTAT
1 TAATTATCTTAACTAAAATCTAAATTATTATCTAACCTATTAATTTAAATTCC
* * *
15377039 TAATTATTTTAAAT-AAAT-TAAAACTCTAATTTTCCTAA--TA-TAATTTAAAATT-C
1 TAATTATCTTAACTAAAATCT-AAA-T-T-ATTAT-CTAACCTATTAATTT-AAATTCC
* **
15377092 TAATGATCTTAACTAAAATCTAAAATTATTATCTAACCTATTAATTTAAATTAA
1 TAATTATCTTAACTAAAATCT-AAATTATTATCTAACCTATTAATTTAAATTCC
* * *
15377146 TAATGATCTTAAAT-AGAT-TAGAACTTTAATTATCCTAA--T-TTAATTTAAACTT-C
1 TAATTATCTTAACTAAAATCTA-AA--TT-ATTAT-CTAACCTATTAATTTAAA-TTCC
* * *
15377199 TAATTATCTTAACTAAAATCTAAATTATTATCTAATCTATTAA-TGAAGTTCC
1 TAATTATCTTAACTAAAATCTAAATTATTATCTAACCTATTAATTTAAATTCC
* * * * *
15377251 TAATTATCTTATCT-AAAT-TAAA-AATCTAAT-TATCCTAATTTATTTAAACTCC
1 TAATTATCTTAACTAAAATCTAAATTAT-T-ATCTAACCT-ATTAATTTAAATTCC
* * * *
15377303 TAATTATCTTAATTAAAATCTAAATTATTATCTAACCTATCAATTTAAAATCT
1 TAATTATCTTAACTAAAATCTAAATTATTATCTAACCTATTAATTTAAATTCC
15377356 TAATTATCTTAACTAAA
1 TAATTATCTTAACTAAA
15377373 TTAAACCTCT
Statistics
Matches: 269, Mismatches: 33, Indels: 64
0.73 0.09 0.17
Matches are distributed among these distances:
49 2 0.01
50 13 0.05
51 23 0.09
52 52 0.19
53 101 0.38
54 52 0.19
55 18 0.07
56 8 0.03
ACGTcount: A:0.43, C:0.12, G:0.02, T:0.44
Consensus pattern (53 bp):
TAATTATCTTAACTAAAATCTAAATTATTATCTAACCTATTAATTTAAATTCC
Found at i:15377128 original size:107 final size:105
Alignment explanation
Indices: 15376978--15377383 Score: 519
Period size: 107 Copynumber: 3.8 Consensus size: 105
15376968 CTAGGAACCC
* *
15376978 TAAAC-TCTTAATTATTTTAATTAAAATCTAAATTATTATCTAACCTATTAATTTAAATTATTAA
1 TAAACTTC-TAATTATCTTAACTAAAATCTAAATTATTATCTAACCTATTAATTTAAATTATTAA
* *
15377042 TTATTTTAAATAAATTAAAACTCTAATTTTCCTAATATAATT
65 TTATCTTAAATAAATTAAAACTCTAATTATCCTAAT-TAATT
* * *
15377084 TAAAATTCTAATGATCTTAACTAAAATCTAAAATTATTATCTAACCTATTAATTTAAATTAATAA
1 TAAACTTCTAATTATCTTAACTAAAATCT-AAATTATTATCTAACCTATTAATTTAAATTATTAA
* * * *
15377149 TGATCTTAAATAGATTAGAACTTTAATTATCCTAATTTAATT
65 TTATCTTAAATAAATTAAAACTCTAATTATCCTAA-TTAATT
* * * **
15377191 TAAACTTCTAATTATCTTAACTAAAATCTAAATTATTATCTAATCTATTAA-TGAAGTTCCTAAT
1 TAAACTTCTAATTATCTTAACTAAAATCTAAATTATTATCTAACCTATTAATTTAAATTATTAAT
** * *
15377255 TATCTTATCTAAATTAAAAATCTAATTATCCTAATTTATT
66 TATCTTAAATAAATTAAAACTCTAATTATCCTAATTAATT
* * * * *
15377295 TAAACTCCTAATTATCTTAATTAAAATCTAAATTATTATCTAACCTATCAATTTAAAATCTTAAT
1 TAAACTTCTAATTATCTTAACTAAAATCTAAATTATTATCTAACCTATTAATTTAAATTATTAAT
* *
15377360 TATCTTAACTAAATTAAACCTCTA
66 TATCTTAAATAAATTAAAACTCTA
15377384 TCATAATATA
Statistics
Matches: 259, Mismatches: 37, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
104 52 0.20
105 66 0.25
106 43 0.17
107 97 0.37
108 1 0.00
ACGTcount: A:0.43, C:0.12, G:0.01, T:0.44
Consensus pattern (105 bp):
TAAACTTCTAATTATCTTAACTAAAATCTAAATTATTATCTAACCTATTAATTTAAATTATTAAT
TATCTTAAATAAATTAAAACTCTAATTATCCTAATTAATT
Found at i:15377283 original size:21 final size:20
Alignment explanation
Indices: 15377259--15377330 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 20
15377249 CCTAATTATC
15377259 TTATCTAAATTAAAAATCTAA
1 TTATCTAAATT-AAAATCTAA
*
15377280 TTATCCTAATTTATTTAAACTCCTAA
1 TTAT-CTAA---A-TTAAAAT-CTAA
*
15377306 TTATCTTAATTAAAATCTAAA
1 TTATCTAAATTAAAATCT-AA
15377327 TTAT
1 TTAT
15377331 TATCTAACCT
Statistics
Matches: 41, Mismatches: 3, Indels: 14
0.71 0.05 0.24
Matches are distributed among these distances:
20 2 0.05
21 16 0.39
22 5 0.12
25 8 0.20
26 10 0.24
ACGTcount: A:0.43, C:0.12, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATCTAAATTAAAATCTAA
Found at i:15377376 original size:26 final size:26
Alignment explanation
Indices: 15377251--15377377 Score: 77
Period size: 26 Copynumber: 4.8 Consensus size: 26
15377241 ATGAAGTTCC
*
15377251 TAATTATCTTATCTAAATTAAAAATC-
1 TAATTATCTTAACTAAATT-AAAATCT
* * * * * *
15377277 TAATTATCCTAATTTATTTAAACTCC
1 TAATTATCTTAACTAAATTAAAATCT
*
15377303 TAATTATCTTAATTAAAATCT-AAA--T
1 TAATTATCTTAACT-AAAT-TAAAATCT
15377328 T-ATTATC-TAACCTATCAATTTAAAATCT
1 TAATTATCTTAA-CTA--AA-TTAAAATCT
15377356 TAATTATCTTAACTAAATTAAA
1 TAATTATCTTAACTAAATTAAA
15377378 CCTCTATCAT
Statistics
Matches: 77, Mismatches: 12, Indels: 24
0.68 0.11 0.21
Matches are distributed among these distances:
23 4 0.05
24 7 0.09
25 9 0.12
26 36 0.47
27 6 0.08
28 3 0.04
29 9 0.12
30 3 0.04
ACGTcount: A:0.43, C:0.13, G:0.00, T:0.43
Consensus pattern (26 bp):
TAATTATCTTAACTAAATTAAAATCT
Found at i:15379401 original size:23 final size:23
Alignment explanation
Indices: 15379373--15379435 Score: 67
Period size: 22 Copynumber: 2.8 Consensus size: 23
15379363 TATATGAGAG
15379373 CCCCTTGTGTGGGACGTATAAGAT
1 CCCCTTG-GTGGGACGTATAAGAT
** * *
15379397 -CCCTTCATGGGACGTTTGAGAT
1 CCCCTTGGTGGGACGTATAAGAT
15379419 CCCCTTGG-GGGACGTAT
1 CCCCTTGGTGGGACGTAT
15379436 GAGAGCACCG
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
22 21 0.68
23 10 0.32
ACGTcount: A:0.17, C:0.24, G:0.30, T:0.29
Consensus pattern (23 bp):
CCCCTTGGTGGGACGTATAAGAT
Found at i:15380541 original size:9 final size:9
Alignment explanation
Indices: 15380525--15380600 Score: 91
Period size: 9 Copynumber: 8.4 Consensus size: 9
15380515 TTTGGTTAAA
15380525 AATTAACCG
1 AATTAACCG
* *
15380534 ACTTAACCT
1 AATTAACCG
*
15380543 AATTACCCG
1 AATTAACCG
15380552 AATTAACCG
1 AATTAACCG
15380561 AATT-ACCTG
1 AATTAACC-G
*
15380570 AATTAACCA
1 AATTAACCG
*
15380579 AATTACCCG
1 AATTAACCG
15380588 AATTAACCG
1 AATTAACCG
15380597 AATT
1 AATT
15380601 GAATCACTAT
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
8 3 0.05
9 49 0.89
10 3 0.05
ACGTcount: A:0.41, C:0.25, G:0.08, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:15380552 original size:18 final size:18
Alignment explanation
Indices: 15380525--15380600 Score: 107
Period size: 18 Copynumber: 4.2 Consensus size: 18
15380515 TTTGGTTAAA
* * *
15380525 AATTAACCGACTTAACCT
1 AATTACCCGAATTAACCG
15380543 AATTACCCGAATTAACCG
1 AATTACCCGAATTAACCG
* *
15380561 AATTACCTGAATTAACCA
1 AATTACCCGAATTAACCG
15380579 AATTACCCGAATTAACCG
1 AATTACCCGAATTAACCG
15380597 AATT
1 AATT
15380601 GAATCACTAT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 51 1.00
ACGTcount: A:0.41, C:0.25, G:0.08, T:0.26
Consensus pattern (18 bp):
AATTACCCGAATTAACCG
Found at i:15380651 original size:6 final size:6
Alignment explanation
Indices: 15380640--15380668 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
15380630 ACTTTTAGAC
15380640 TTTAGT TTTAGT TTTAGT TTTAGT TTTAG
1 TTTAGT TTTAGT TTTAGT TTTAGT TTTAG
15380669 AATTTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.66
Consensus pattern (6 bp):
TTTAGT
Found at i:15383996 original size:59 final size:58
Alignment explanation
Indices: 15383931--15384050 Score: 213
Period size: 59 Copynumber: 2.1 Consensus size: 58
15383921 ACTACGGTGT
15383931 TATTCTTAGCATGATCATATTTAAAATAAAATAAAATTTATATTTATTTAACTAAAATG
1 TATTCTTAGCATGATCATATTTAAAATAAAATAAAATTTATA-TTATTTAACTAAAATG
* *
15383990 TATTCTTAGCATTATCATATTTAAAATAAAATAAAATTTATATTATTTAATTAAAATG
1 TATTCTTAGCATGATCATATTTAAAATAAAATAAAATTTATATTATTTAACTAAAATG
15384048 TAT
1 TAT
15384051 AATTTTAAAA
Statistics
Matches: 59, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
58 18 0.31
59 41 0.69
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (58 bp):
TATTCTTAGCATGATCATATTTAAAATAAAATAAAATTTATATTATTTAACTAAAATG
Found at i:15384167 original size:15 final size:16
Alignment explanation
Indices: 15384147--15384189 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
15384137 AGATATTTGT
15384147 AAGTTAATTAATT-TC
1 AAGTTAATTAATTATC
15384162 AAGTTAA-TATATTATC
1 AAGTTAATTA-ATTATC
*
15384178 ATGTTAATTAAT
1 AAGTTAATTAAT
15384190 AATTAAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 2 0.08
15 10 0.42
16 10 0.42
17 2 0.08
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.47
Consensus pattern (16 bp):
AAGTTAATTAATTATC
Found at i:15388436 original size:9 final size:9
Alignment explanation
Indices: 15388422--15388452 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
15388412 GTTAAACGAA
15388422 TCGAGTTAT
1 TCGAGTTAT
*
15388431 TCGAGTTAA
1 TCGAGTTAT
15388440 TCGAGTTAT
1 TCGAGTTAT
15388449 TCGA
1 TCGA
15388453 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:15388534 original size:9 final size:9
Alignment explanation
Indices: 15388505--15388541 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
15388495 TGAGTTTTCG
15388505 AATTCGAAT
1 AATTCGAAT
*
15388514 AACTCGAAT
1 AATTCGAAT
15388523 AATTCGAAT
1 AATTCGAAT
*
15388532 AATTTGAAT
1 AATTCGAAT
15388541 A
1 A
15388542 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:15388619 original size:22 final size:22
Alignment explanation
Indices: 15388577--15388620 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
15388567 ACCCCAAACT
* *
15388577 CCCAAATCTTTTTACTTTTCCC
1 CCCAAAACTTTTTACTCTTCCC
15388599 CCCAAAAC-TTTTACTCCTTCCC
1 CCCAAAACTTTTTACT-CTTCCC
15388621 ACTTTCCCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.20, C:0.41, G:0.00, T:0.39
Consensus pattern (22 bp):
CCCAAAACTTTTTACTCTTCCC
Found at i:15389623 original size:5 final size:5
Alignment explanation
Indices: 15389588--15389647 Score: 57
Period size: 5 Copynumber: 11.2 Consensus size: 5
15389578 GAGATTATGA
* *
15389588 AATTG AATGTG AAATTG CATATG AGTTG AATTG AATTG AATTG AATTG
1 AATTG AAT-TG -AATTG AAT-TG AATTG AATTG AATTG AATTG AATTG
*
15389636 AAATG AAATTG A
1 AATTG -AATTG A
15389648 TGATTGATAT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
5 31 0.69
6 11 0.24
7 3 0.07
ACGTcount: A:0.42, C:0.02, G:0.22, T:0.35
Consensus pattern (5 bp):
AATTG
Found at i:15389712 original size:31 final size:31
Alignment explanation
Indices: 15389674--15389817 Score: 182
Period size: 31 Copynumber: 4.6 Consensus size: 31
15389664 ATGCATGGTG
* *
15389674 TGAATATAAAAATATGAATGATTACAGGGTA
1 TGAATATGAAAATATGAATGATTACAAGGTA
* *
15389705 TGTATAT-AAAAGTATGAATGATTACAAGGTG
1 TGAATATGAAAA-TATGAATGATTACAAGGTA
* *
15389736 TGAATATGAAAATATGAATGATTACAGGGCA
1 TGAATATGAAAATATGAATGATTACAAGGTA
* *
15389767 TGACTATGAAAGTATGAATGATTACAAGGTA
1 TGAATATGAAAATATGAATGATTACAAGGTA
* *
15389798 AGAATATGTAAATATGAATG
1 TGAATATGAAAATATGAATG
15389818 GTTGATGCCT
Statistics
Matches: 96, Mismatches: 15, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
30 4 0.04
31 88 0.92
32 4 0.04
ACGTcount: A:0.45, C:0.04, G:0.22, T:0.29
Consensus pattern (31 bp):
TGAATATGAAAATATGAATGATTACAAGGTA
Found at i:15389736 original size:62 final size:62
Alignment explanation
Indices: 15389670--15389817 Score: 226
Period size: 62 Copynumber: 2.4 Consensus size: 62
15389660 GATAATGCAT
* *
15389670 GGTGTGAATATAAAAATATGAATGATTACAGGGTATGTA-TATAAAAGTATGAATGATTACAA
1 GGTGTGAATATGAAAATATGAATGATTACAGGGCATG-ACTATAAAAGTATGAATGATTACAA
*
15389732 GGTGTGAATATGAAAATATGAATGATTACAGGGCATGACTATGAAAGTATGAATGATTACAA
1 GGTGTGAATATGAAAATATGAATGATTACAGGGCATGACTATAAAAGTATGAATGATTACAA
** *
15389794 GGTAAGAATATGTAAATATGAATG
1 GGTGTGAATATGAAAATATGAATG
15389818 GTTGATGCCT
Statistics
Matches: 79, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
61 1 0.01
62 78 0.99
ACGTcount: A:0.44, C:0.04, G:0.23, T:0.29
Consensus pattern (62 bp):
GGTGTGAATATGAAAATATGAATGATTACAGGGCATGACTATAAAAGTATGAATGATTACAA
Found at i:15396926 original size:21 final size:23
Alignment explanation
Indices: 15396902--15396949 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
15396892 GTTGAGAAAA
*
15396902 TTATTT-AATTAAAAATTTA-AT
1 TTATTTAAATTAAAAATTAATAT
*
15396923 TTATTTAAATTAATAATTAATAT
1 TTATTTAAATTAAAAATTAATAT
15396946 TTAT
1 TTAT
15396950 GTTGAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 6 0.26
22 11 0.48
23 6 0.26
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
TTATTTAAATTAAAAATTAATAT
Found at i:15418733 original size:21 final size:21
Alignment explanation
Indices: 15418691--15418741 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
15418681 ATTGTTGAGA
** *
15418691 AGGAAGTTGCTGCTGTAGAAG
1 AGGAAGTTGCTGCTAAAAAAG
15418712 AGGAAGTTGCTGCTAAAAAAG
1 AGGAAGTTGCTGCTAAAAAAG
*
15418733 AAGAAGTTG
1 AGGAAGTTG
15418742 TTGATGATGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.37, C:0.08, G:0.33, T:0.22
Consensus pattern (21 bp):
AGGAAGTTGCTGCTAAAAAAG
Found at i:15418768 original size:5 final size:6
Alignment explanation
Indices: 15418753--15418778 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
15418743 TGATGATGAA
15418753 AAAAAG AAAAAG AAAAAG AAAAAG AA
1 AAAAAG AAAAAG AAAAAG AAAAAG AA
15418779 GAGGAAGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:15419190 original size:17 final size:17
Alignment explanation
Indices: 15419168--15419203 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
15419158 GTAAGTACAC
*
15419168 ATTGTCATTGCATTTTT
1 ATTGTCATTACATTTTT
*
15419185 ATTGTCATTATATTTTT
1 ATTGTCATTACATTTTT
15419202 AT
1 AT
15419204 GTTAGTGCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.22, C:0.08, G:0.08, T:0.61
Consensus pattern (17 bp):
ATTGTCATTACATTTTT
Found at i:15423183 original size:3 final size:3
Alignment explanation
Indices: 15423175--15423206 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
15423165 ATGGGGTTTT
15423175 TTG TTG TTG TTG TTG TTG TT- TT- TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
15423207 GGAGGGGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 4 0.14
3 24 0.86
ACGTcount: A:0.00, C:0.00, G:0.28, T:0.72
Consensus pattern (3 bp):
TTG
Found at i:15427554 original size:19 final size:18
Alignment explanation
Indices: 15427530--15427576 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
15427520 TGATTTATTG
15427530 TTATTATTTTTAATAGTC
1 TTATTATTTTTAATAGTC
* *
15427548 ATTATTATTATTATTAGTC
1 -TTATTATTTTTAATAGTC
15427567 TT-TTATTTTT
1 TTATTATTTTT
15427577 TATATTTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 7 0.28
18 2 0.08
19 16 0.64
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.66
Consensus pattern (18 bp):
TTATTATTTTTAATAGTC
Found at i:15429588 original size:3 final size:3
Alignment explanation
Indices: 15429580--15429644 Score: 116
Period size: 3 Copynumber: 22.3 Consensus size: 3
15429570 TACATGGGGT
15429580 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
15429628 TTG TT- TT- TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG T
15429645 GCAGGGGAAC
Statistics
Matches: 61, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 4 0.07
3 57 0.93
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:15432245 original size:20 final size:22
Alignment explanation
Indices: 15432197--15432246 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 22
15432187 TTTTTTAAAA
*
15432197 TTAAAAATAAAAAATCTATTTT
1 TTAAAAATAAAAAATCTAATTT
* *
15432219 TTGAAAAT-TAAAAT-TAATTT
1 TTAAAAATAAAAAATCTAATTT
15432239 TTAAAAAT
1 TTAAAAAT
15432247 GAAGATGTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 12 0.50
21 5 0.21
22 7 0.29
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (22 bp):
TTAAAAATAAAAAATCTAATTT
Found at i:15440889 original size:21 final size:22
Alignment explanation
Indices: 15440855--15440904 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 22
15440845 TTTTTTAAAA
*
15440855 TTAAAAATTAAAAATTTATTTT
1 TTAAAAATTAAAAATTAATTTT
*
15440877 TTAACAATT-AAAATTAA-TTT
1 TTAAAAATTAAAAATTAATTTT
15440897 TTAAAAAT
1 TTAAAAAT
15440905 GAAGATGTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 10 0.40
21 7 0.28
22 8 0.32
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (22 bp):
TTAAAAATTAAAAATTAATTTT
Found at i:15472444 original size:41 final size:41
Alignment explanation
Indices: 15472379--15472663 Score: 336
Period size: 41 Copynumber: 7.0 Consensus size: 41
15472369 TGAGCTTTCG
* * *
15472379 GGGCTTTAGCGGTGTTTTTAGGGAAGCACCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGGGGAAGCGCCGCTAATGCTCA
* **
15472420 GGGCTTTAGCGGCGTTTCTGGGGAAGCGCCGCTAATGCTTG
1 GGGCTTTAGCGGCGTTTTTGGGGAAGCGCCGCTAATGCTCA
* * *
15472461 GGGCTTTAGTGGCGTTTTTGGGAAAGCGCCGCTAATGCTCG
1 GGGCTTTAGCGGCGTTTTTGGGGAAGCGCCGCTAATGCTCA
* * * *
15472502 GGGCTTTAGCGGCGTTTTTGGGGAAGCGCCACAAATTCTTA
1 GGGCTTTAGCGGCGTTTTTGGGGAAGCGCCGCTAATGCTCA
* ** * * **
15472543 GGGCTTTAGCGGCATTTTTGAAGAAGAGCCTCTAATGAACA
1 GGGCTTTAGCGGCGTTTTTGGGGAAGCGCCGCTAATGCTCA
* * **
15472584 GGGATTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGAACA
1 GGGCTTTAGCGGCGTTTTTGGGGAAGCGCCGCTAATGCTCA
* *
15472625 GGGATTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCT
1 GGGCTTTAGCGGCGTTTTTGGGGAAGCGCCGCTAATGCT
15472664 TTATTTTTAG
Statistics
Matches: 210, Mismatches: 34, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 210 1.00
ACGTcount: A:0.20, C:0.19, G:0.34, T:0.28
Consensus pattern (41 bp):
GGGCTTTAGCGGCGTTTTTGGGGAAGCGCCGCTAATGCTCA
Found at i:15473707 original size:21 final size:22
Alignment explanation
Indices: 15473681--15473791 Score: 77
Period size: 21 Copynumber: 5.2 Consensus size: 22
15473671 TATGAATTAA
* *
15473681 GGTTTATGGTTTAAGGGTT-GG
1 GGTTTAAGGTTTAAGAGTTAGG
15473702 GGTTTAAGGTTTAAGAGTTAGG
1 GGTTTAAGGTTTAAGAGTTAGG
* *
15473724 GG-TTAGAGG-TTAGGGGTTAGG
1 GGTTTA-AGGTTTAAGAGTTAGG
* * * * *
15473745 GGTTTAGGGGTTAGGGGTTA-T
1 GGTTTAAGGTTTAAGAGTTAGG
* * *
15473766 GATTTAAGGTTTAGGAGATAGG
1 GGTTTAAGGTTTAAGAGTTAGG
15473788 GGTT
1 GGTT
15473792 AGGGATTTAG
Statistics
Matches: 72, Mismatches: 13, Indels: 9
0.77 0.14 0.10
Matches are distributed among these distances:
21 49 0.68
22 23 0.32
ACGTcount: A:0.21, C:0.00, G:0.43, T:0.36
Consensus pattern (22 bp):
GGTTTAAGGTTTAAGAGTTAGG
Found at i:15473728 original size:7 final size:7
Alignment explanation
Indices: 15473718--15473764 Score: 76
Period size: 7 Copynumber: 6.6 Consensus size: 7
15473708 AGGTTTAAGA
15473718 GTTAGGG
1 GTTAGGG
*
15473725 GTTAGAG
1 GTTAGGG
15473732 GTTAGGG
1 GTTAGGG
15473739 GTTAGGG
1 GTTAGGG
15473746 GTTTAGGG
1 G-TTAGGG
15473754 GTTAGGG
1 GTTAGGG
15473761 GTTA
1 GTTA
15473765 TGATTTAAGG
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
7 30 0.81
8 7 0.19
ACGTcount: A:0.17, C:0.00, G:0.51, T:0.32
Consensus pattern (7 bp):
GTTAGGG
Found at i:15473751 original size:22 final size:22
Alignment explanation
Indices: 15473695--15473764 Score: 83
Period size: 22 Copynumber: 3.3 Consensus size: 22
15473685 TATGGTTTAA
*
15473695 GGGTT-GGGGTTTA-AGGTTTAA
1 GGGTTAGGGGTTTAGAGG-TTAG
*
15473716 GAGTTAGGGG-TTAGAGGTTAG
1 GGGTTAGGGGTTTAGAGGTTAG
*
15473737 GGGTTAGGGGTTTAGGGGTTAG
1 GGGTTAGGGGTTTAGAGGTTAG
15473759 GGGTTA
1 GGGTTA
15473765 TGATTTAAGG
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
21 19 0.45
22 23 0.55
ACGTcount: A:0.19, C:0.00, G:0.49, T:0.33
Consensus pattern (22 bp):
GGGTTAGGGGTTTAGAGGTTAG
Done.