Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 7 of 332
Found at i:2012781 original size:18 final size:19
Alignment explanation
Indices: 2012731--2012794 Score: 62
Period size: 18 Copynumber: 3.5 Consensus size: 19
2012721 AAGCGTATAC
* *
2012731 ATAATATATACGTA-ATAT
1 ATAATATATAAGTATACAT
*
2012749 ATAAAATA-AAGTATACAT
1 ATAATATATAAGTATACAT
*
2012767 ATAATATATAA-TATACGT
1 ATAATATATAAGTATACAT
*
2012785 AAAATATATA
1 ATAATATATA
2012795 TAATACTTAA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
17 4 0.11
18 32 0.84
19 2 0.05
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.34
Consensus pattern (19 bp):
ATAATATATAAGTATACAT
Found at i:2012788 original size:34 final size:33
Alignment explanation
Indices: 2012725--2012790 Score: 82
Period size: 34 Copynumber: 1.9 Consensus size: 33
2012715 TATTAAAAGC
2012725 GTATACATAATATATACGTAATATATAAAATAAA
1 GTATACATAATATATAC-TAATATATAAAATAAA
2012759 GTATACAT-ATAATATA-TAATATACGTAAAATA
1 GTATACATAAT-ATATACTAATATA--TAAAATA
2012791 TATATAATAC
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
32 7 0.24
33 2 0.07
34 20 0.69
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.33
Consensus pattern (33 bp):
GTATACATAATATATACTAATATATAAAATAAA
Found at i:2014180 original size:11 final size:11
Alignment explanation
Indices: 2014164--2014202 Score: 62
Period size: 11 Copynumber: 3.5 Consensus size: 11
2014154 CTAAGGGTTT
2014164 TTGGGTTTGTA
1 TTGGGTTTGTA
2014175 TTGGGTTT-TAA
1 TTGGGTTTGT-A
2014186 TTGGGTTTGTA
1 TTGGGTTTGTA
2014197 TTGGGT
1 TTGGGT
2014203 AGTTGGGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.04
11 24 0.92
12 1 0.04
ACGTcount: A:0.10, C:0.00, G:0.36, T:0.54
Consensus pattern (11 bp):
TTGGGTTTGTA
Found at i:2017323 original size:32 final size:32
Alignment explanation
Indices: 2017282--2017346 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
2017272 CACTCCAAGC
*
2017282 TTTGTCAAAATTTATTTAACTTCACAAAGGTT
1 TTTGTCAAAATTTACTTAACTTCACAAAGGTT
*
2017314 TTTGTCAAAATTTACTTAATTTCACAAAGGTT
1 TTTGTCAAAATTTACTTAACTTCACAAAGGTT
2017346 T
1 T
2017347 AACAGGAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.34, C:0.12, G:0.09, T:0.45
Consensus pattern (32 bp):
TTTGTCAAAATTTACTTAACTTCACAAAGGTT
Found at i:2022038 original size:10 final size:10
Alignment explanation
Indices: 2022023--2022049 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
2022013 ACTCTTTTAA
2022023 TTATTTTATG
1 TTATTTTATG
2022033 TTATTTTATG
1 TTATTTTATG
2022043 TTATTTT
1 TTATTTT
2022050 CTTTTGGTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.07, T:0.74
Consensus pattern (10 bp):
TTATTTTATG
Found at i:2023409 original size:28 final size:28
Alignment explanation
Indices: 2023373--2023459 Score: 113
Period size: 28 Copynumber: 3.1 Consensus size: 28
2023363 ATATCGCTAA
*
2023373 ATCATATATAACACACATAAAGCGTTAG
1 ATCAAATATAACACACATAAAGCGTTAG
** *
2023401 ATCAAATATAACACACATAAAGCACTAT
1 ATCAAATATAACACACATAAAGCGTTAG
*
2023429 ATCAAATATAACACGA-ATAAAGCGTTGG
1 ATCAAATATAACAC-ACATAAAGCGTTAG
2023457 ATC
1 ATC
2023460 TTCCACCTAT
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
28 49 0.98
29 1 0.02
ACGTcount: A:0.48, C:0.18, G:0.10, T:0.23
Consensus pattern (28 bp):
ATCAAATATAACACACATAAAGCGTTAG
Found at i:2028251 original size:3 final size:3
Alignment explanation
Indices: 2028243--2028286 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
2028233 TGATCCTATC
2028243 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
2028287 GTAGTAGGAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:2032829 original size:2 final size:2
Alignment explanation
Indices: 2032822--2032851 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
2032812 TTTGTCAATT
2032822 TA TA TA TA T- TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2032852 TATGTGTTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:2042972 original size:13 final size:13
Alignment explanation
Indices: 2042956--2043049 Score: 50
Period size: 13 Copynumber: 6.8 Consensus size: 13
2042946 ATTCAAGTAC
2042956 AAAATTAAATATT
1 AAAATTAAATATT
2042969 AAAATTAAAT-TT
1 AAAATTAAATATT
**
2042981 AAATATTTATCTGAGATAAA
1 AAA-A-TTA----A-ATATT
2043001 AAAAATTAAATATT
1 AAA-ATTAAATATT
*
2043015 -AAATTAAACATT
1 AAAATTAAATATT
*
2043027 AAAATTAAAT-TC
1 AAAATTAAATATT
2043039 AAATATTAAAT
1 AAA-ATTAAAT
2043050 TAAATATAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 20
0.69 0.09 0.22
Matches are distributed among these distances:
12 18 0.29
13 28 0.44
14 6 0.10
15 1 0.02
18 1 0.02
19 5 0.08
20 4 0.06
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (13 bp):
AAAATTAAATATT
Found at i:2042984 original size:19 final size:19
Alignment explanation
Indices: 2042960--2043061 Score: 73
Period size: 19 Copynumber: 5.4 Consensus size: 19
2042950 AAGTACAAAA
2042960 TTAAATATTAAAATTAAAT
1 TTAAATATTAAAATTAAAT
* ** * *
2042979 TTAAATATTTATCTGAGAT
1 TTAAATATTAAAATTAAAT
** *
2042998 AAAAAAAATTAAATATTAAA-
1 -TTAAATATTAAA-ATTAAAT
*
2043018 TTAAACATTAAAATTAAAT
1 TTAAATATTAAAATTAAAT
*
2043037 TCAAATATT-AAATTAAAT
1 TTAAATATTAAAATTAAAT
*
2043055 ATAAATA
1 TTAAATA
2043062 CCAGCGTGTT
Statistics
Matches: 60, Mismatches: 20, Indels: 7
0.69 0.23 0.08
Matches are distributed among these distances:
18 20 0.33
19 30 0.50
20 7 0.12
21 3 0.05
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (19 bp):
TTAAATATTAAAATTAAAT
Found at i:2043020 original size:12 final size:13
Alignment explanation
Indices: 2043002--2043049 Score: 55
Period size: 12 Copynumber: 3.8 Consensus size: 13
2042992 TGAGATAAAA
2043002 AAAATTAAATATT
1 AAAATTAAATATT
*
2043015 -AAATTAAACATT
1 AAAATTAAATATT
*
2043027 AAAATTAAAT-TC
1 AAAATTAAATATT
2043039 AAATATTAAAT
1 AAA-ATTAAAT
2043050 TAAATATAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
12 15 0.50
13 15 0.50
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.35
Consensus pattern (13 bp):
AAAATTAAATATT
Found at i:2043044 original size:31 final size:31
Alignment explanation
Indices: 2042938--2043053 Score: 98
Period size: 31 Copynumber: 3.9 Consensus size: 31
2042928 CATACCCGAC
* * ** *
2042938 AAAAGTAAATTCAAGTACAAAATTAAATATT
1 AAAATTAAATTCAAATATTAAATTAAACATT
* * * *
2042969 AAAATTAAATTTAAATATT-TATCT-GAGA-T
1 AAAATTAAATTCAAATATTAAAT-TAAACATT
*
2042998 AAAA-AAAATT-AAATATTAAATTAAACATT
1 AAAATTAAATTCAAATATTAAATTAAACATT
2043027 AAAATTAAATTCAAATATTAAATTAAA
1 AAAATTAAATTCAAATATTAAATTAAA
2043054 TATAAATACC
Statistics
Matches: 66, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
27 8 0.12
28 9 0.14
29 10 0.15
30 9 0.14
31 30 0.45
ACGTcount: A:0.59, C:0.04, G:0.03, T:0.34
Consensus pattern (31 bp):
AAAATTAAATTCAAATATTAAATTAAACATT
Found at i:2043050 original size:13 final size:12
Alignment explanation
Indices: 2043024--2043060 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
2043014 TAAATTAAAC
2043024 ATTAAA-ATTAA
1 ATTAAATATTAA
2043035 ATTCAAATATTAA
1 ATT-AAATATTAA
2043048 ATTAAATA-TAA
1 ATTAAATATTAA
2043059 AT
1 AT
2043061 ACCAGCGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 8 0.33
12 8 0.33
13 8 0.33
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (12 bp):
ATTAAATATTAA
Found at i:2043441 original size:19 final size:19
Alignment explanation
Indices: 2043396--2043442 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
2043386 TTAGAAGAAA
*
2043396 AAATATTAAATTTACATAT
1 AAATATTTAATTTACATAT
2043415 AAAT-TTTAATTTA-ATTAT
1 AAATATTTAATTTACA-TAT
*
2043433 ATATATTTAA
1 AAATATTTAA
2043443 ATAAATAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 1 0.04
18 14 0.58
19 9 0.38
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (19 bp):
AAATATTTAATTTACATAT
Found at i:2043496 original size:25 final size:25
Alignment explanation
Indices: 2043448--2043497 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
2043438 TTTAAATAAA
* *
2043448 TAAATAAATATATTTATTTTTATAT
1 TAAATAAATATAATTATTTGTATAT
* *
2043473 TAAATTAATATAATTGTTTGTATAT
1 TAAATAAATATAATTATTTGTATAT
2043498 GTAATATATC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (25 bp):
TAAATAAATATAATTATTTGTATAT
Found at i:2049866 original size:29 final size:29
Alignment explanation
Indices: 2049814--2049893 Score: 74
Period size: 29 Copynumber: 2.7 Consensus size: 29
2049804 CACAAATTTT
* *
2049814 ATTTGATTGAATTTTATCACTAAAATTTGA-A
1 ATTT-ATTGAATTTTGT-ATTAAAATTT-ACA
*
2049845 ATTTATTTAATTTTGTATT-AAATTTATCA
1 ATTTATTGAATTTTGTATTAAAATTTA-CA
*
2049874 CTTTATTGAATTTTGTATTA
1 ATTTATTGAATTTTGTATTA
2049894 TAACTTATTA
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
27 1 0.02
28 6 0.15
29 20 0.49
30 10 0.24
31 4 0.10
ACGTcount: A:0.34, C:0.05, G:0.07, T:0.54
Consensus pattern (29 bp):
ATTTATTGAATTTTGTATTAAAATTTACA
Found at i:2053613 original size:22 final size:22
Alignment explanation
Indices: 2053583--2053632 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
2053573 TCCTTTTCCC
*
2053583 CCCTCCCTTCTCTCTTCTTTCT
1 CCCTTCCTTCTCTCTTCTTTCT
* * *
2053605 CCCTTCCTTTTTTTTTCTTTCT
1 CCCTTCCTTCTCTCTTCTTTCT
*
2053627 CTCTTC
1 CCCTTC
2053633 AAAATGATTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (22 bp):
CCCTTCCTTCTCTCTTCTTTCT
Found at i:2053942 original size:2 final size:2
Alignment explanation
Indices: 2053935--2053978 Score: 58
Period size: 2 Copynumber: 23.5 Consensus size: 2
2053925 TTCTAATACG
*
2053935 TA TA TA TA TA T- TA TA TA TA T- TA TA TA TA T- TA TG 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
2053974 TA TA T
1 TA TA T
2053979 TTTTAATGCA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
1 3 0.08
2 34 0.92
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (2 bp):
TA
Found at i:2053951 original size:9 final size:9
Alignment explanation
Indices: 2053937--2053978 Score: 68
Period size: 9 Copynumber: 4.8 Consensus size: 9
2053927 CTAATACGTA
2053937 TATATATAT
1 TATATATAT
2053946 TATATATAT
1 TATATATAT
2053955 TATATATAT
1 TATATATAT
*
2053964 TATGTATA-
1 TATATATAT
2053972 TATATAT
1 TATATAT
2053979 TTTTAATGCA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
8 6 0.19
9 25 0.81
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (9 bp):
TATATATAT
Found at i:2054195 original size:19 final size:19
Alignment explanation
Indices: 2054164--2054211 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 19
2054154 TACATTAGTG
2054164 TATATTTTATGTACATATA
1 TATATTTTATGTACATATA
2054183 TATATATTT-TGTACATATCA
1 TATAT-TTTATGTACATAT-A
2054203 T-TATTTTAT
1 TATATTTTAT
2054212 ATTATTGTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 3 0.12
19 18 0.69
20 5 0.19
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.56
Consensus pattern (19 bp):
TATATTTTATGTACATATA
Found at i:2054241 original size:13 final size:13
Alignment explanation
Indices: 2054220--2054249 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2054210 ATATTATTGT
2054220 TGTAAATTTTTTA
1 TGTAAATTTTTTA
*
2054233 TGTATATTTTTTA
1 TGTAAATTTTTTA
2054246 TGTA
1 TGTA
2054250 CGTTTCCTAA
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:0.27, C:0.00, G:0.10, T:0.63
Consensus pattern (13 bp):
TGTAAATTTTTTA
Found at i:2065719 original size:74 final size:74
Alignment explanation
Indices: 2065505--2065985 Score: 505
Period size: 74 Copynumber: 6.4 Consensus size: 74
2065495 CATATCCTTG
* *
2065505 AACTCATATTGCGAGAGGTGAGTTGAGCCACAGGACA-GCTGAGGTAATTT-AATTTCT-ATTGT
1 AACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGCTT-T
2065567 CAAAAAAAAATC
65 C--AAAAAAATC
* * * * *
2065579 AACTCGTATTGCGAGAGGCGAGTTGAGCCTTAGGTCACACGCCGAGGTATTTTCAATTTCCGTTT
1 AACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTAATTTCAA------TTT
2065644 CTGCCTTTCAAAAAAATC
58 CTG-CTTTCAAAAAAATC
*
2065662 AACTCATATTGCGAGAGGTGAGTGGAGCCTCAGGACACGCTGA-GTAATTTCAATTTCTG-TTGT
1 AACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGCTT-T
2065725 CAAAAAAAATC
65 C-AAAAAAATC
** * *
2065736 AACTCATATTGCGAGAAATGAGTTGAGCCTCA--AGACGCTGAGGTAATTTCAATTTCTGTTTTC
1 AACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGCTTTC
*
2065799 --AAAATTC
66 AAAAAAATC
** * * * *
2065806 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTTTTC
1 AACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGCTTTC
2065871 AAAAAAATC
66 AAAAAAATC
* * * * *
2065880 AACTTATATTGAGAGAGGTGAATTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATTTCTGTC
1 AACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTCAATTTCTG-C
2065944 TTTCAAAAAAAATC
62 TTTC-AAAAAAATC
2065958 AACTCATATTGCGAGAGGTGAGTTGAGC
1 AACTCATATTGCGAGAGGTGAGTTGAGC
2065986 TTCAAATCAA
Statistics
Matches: 348, Mismatches: 34, Indels: 46
0.81 0.08 0.11
Matches are distributed among these distances:
70 38 0.11
72 38 0.11
73 21 0.06
74 108 0.31
76 27 0.08
77 15 0.04
78 36 0.10
80 9 0.03
81 8 0.02
83 39 0.11
84 5 0.01
85 2 0.01
86 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.30
Consensus pattern (74 bp):
AACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGCTTTC
AAAAAAATC
Found at i:2066627 original size:76 final size:76
Alignment explanation
Indices: 2066384--2066868 Score: 540
Period size: 76 Copynumber: 6.4 Consensus size: 76
2066374 CATATCCTTG
*
2066384 AACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTATTGTC
1 AACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTC
*
2066449 AAAAAAATATC
66 AAAAAAAAATC
* * * * *
2066460 AACTCGTATTGCGAGAGGCGAGTTGAGCCTTAGGTCACACGCTGAGGTATTTTCAATTTCCGTTT
1 AACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTAATTTCAATTT-C-TGT
***
2066525 CTGCCTTTCAAAAAAATC
62 -TG--TCAAAAAAAAATC
*
2066543 AACTCATATTGCGAGAGGTGAGTGGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTC
1 AACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTC
2066608 AAAAAAAAATC
66 AAAAAAAAATC
** *
2066619 AACTCATATTGCGAGAAATGAGTTGAGCCTCA--AGACG-TGAGGTAATTTCAATTTCTGTT-T-
1 AACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTC
** *
2066679 --TTAAAATTC
66 AAAAAAAAATC
** * * * *
2066688 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTTTTC
1 AACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTC
2066753 --AAAAAAATC
66 AAAAAAAAATC
* * * * *
2066762 AACTTATATTGAGAGAGGTGAATTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATTTCTGTC
1 AACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTCAATTTCTGT-
*
2066826 TTTCAAAAAAAAATC
62 TGTCAAAAAAAAATC
2066841 AACTCATATTGCGAGAGGTGAGTTGAGC
1 AACTCATATTGCGAGAGGTGAGTTGAGC
2066869 TTCAAATCAC
Statistics
Matches: 350, Mismatches: 41, Indels: 33
0.83 0.10 0.08
Matches are distributed among these distances:
69 38 0.11
71 4 0.01
72 22 0.06
73 24 0.07
74 36 0.10
76 95 0.27
77 4 0.01
78 24 0.07
79 37 0.11
80 3 0.01
81 24 0.07
83 39 0.11
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (76 bp):
AACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTC
AAAAAAAAATC
Found at i:2067506 original size:76 final size:75
Alignment explanation
Indices: 2067263--2067748 Score: 547
Period size: 74 Copynumber: 6.4 Consensus size: 75
2067253 CATATCCTTG
*
2067263 AACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTATTGTC
1 AACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTC
2067328 AAAAAAAAAATC
66 --AAAAAAAATC
* * * * * *
2067340 AACTCGTATTGCGAGAGGCGAGTTGAGCCTTAGGTCACACGCCGAGGTATTTTCAATTTCCGTTT
1 AACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTAATTTCAATTT-C-TGT
2067405 CTGCCTTTC-AAAAAAATC
62 -TG----TCAAAAAAAATC
*
2067423 AACTCATATTGCGAGAGGTGAGTGGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTC
1 AACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTC
2067488 AAAAAAAAATC
66 -AAAAAAAATC
** * *
2067499 AACTCATATTGCGAGAAATGAGTTGAGCCTCA--AGACGCTGAGGTAATTTCAATTTCTGTTTTC
1 AACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTC
*
2067562 ---AAAATTC
66 AAAAAAAATC
** * * * *
2067569 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTTTTC
1 AACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTC
2067634 -AAAAAAATC
66 AAAAAAAATC
* * * * *
2067643 AACTTATATTGAGAGAGGTGAATTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATTTCTGTC
1 AACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTCAATTTCTGT-
*
2067707 TTTCAAAAAAAATC
62 TGTCAAAAAAAATC
2067721 AACTCATATTGCGAGAGGTGAGTTGAGC
1 AACTCATATTGCGAGAGGTGAGTTGAGC
2067749 TTCAAATCAC
Statistics
Matches: 355, Mismatches: 34, Indels: 39
0.83 0.08 0.09
Matches are distributed among these distances:
70 38 0.11
72 28 0.08
73 1 0.00
74 63 0.18
76 63 0.18
77 35 0.10
78 36 0.10
79 23 0.06
80 2 0.01
81 23 0.06
82 2 0.01
83 39 0.11
86 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.30
Consensus pattern (75 bp):
AACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTC
AAAAAAAATC
Found at i:2067719 original size:880 final size:884
Alignment explanation
Indices: 2064984--2068155 Score: 6097
Period size: 879 Copynumber: 3.6 Consensus size: 884
2064974 TCAACTCTTA
*
2064984 CTGTTTTCAAAAAAATCAACTTATATTGCGAGAGGTGAATTGAGCCTCGGTTCACATGCTGAGGT
1 CTGTTTTCAAAAAAATCAACTTATATTGAGAGAGGTGAATTGAGCCTCGGTTCACATGCTGAGGT
*
2065049 ATTTTCAATTTCTGTCTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
66 ATTTTCAATTTCTGTCTTTC-AAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAA
2065114 ATCACACATTGTGGTATTTTTTTCAATTTATATTGCGAAAGGTGAGTTGAGCTTTTTAATTTCTG
130 ATCACACATTGTGGTATTTTTTTCAATTTATATTGCGAAAGGTGAGTTGAGCTTTTTAATTTCTG
2065179 CGAGAGGTGAGTTGAGCCTCGAGTCACATGTCTAGGTATTTTCAAAATCTGCTTTTCAAGATAAG
195 CGAGAGGTGAGTTGAGCCTCGAGTCACATGTCTAGGTATTTTCAAAATCTGCTTTTCAAGATAAG
*
2065244 TTTC-AAAATCAACTCATATTGCGAG-GGATCACATGCCGAGTAGAGAATAAAGATTGAAGCTGA
260 TTTCAAAAATCAACTCATATTGCGAGAGGATCACATGCCGAGTAGAGAATAAAGGTTGAAGCTGA
2065307 TTGAAGACGTCAGATTCTGTCTCCTTAAAGTTGCAGTAGAGTTGATCGAGGGCATCAGATCTTGC
325 TTGAAGACGTCAGATTCTGTCTCCTTAAAGTTGCAGTAGAGTTGATCGAGGGCATCAGATCTTGC
* *
2065372 CTTTCTAAAGTCGCAAAAGAAAAGACCACAAACCTTATCTCACTGAAGCGATAGAAGAGAAGATT
390 CTTTCTGAAGTCGCAGAAGAAAAGACCACAAACCTTATCTCACTGAAGCGATAGAAGAGAAGATT
2065437 GAAGTTGTAGATCTCACCTTTCTGAAGTTACAGTGAAGTAGATCGAAGCCATAAATTTCATATCC
455 GAAGTTGTAGATCTCACCTTTCTGAAGTTACAGTGAAGTAGATCGAAGCCATAAATTTCATATCC
*
2065502 TTGAACTCATATTGCGAGAGGTGAGTTGAGCCACAGGACA-GCTGAGGTAATTT-AATTTCTATT
520 TTGAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTATT
2065565 GTCAAAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTTAGGTCACACGCCGAGGTATT
585 GTCAAAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTTAGGTCACACGCCGAGGTATT
2065630 TTCAATTTCCGTTTCTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTGGAGCCTCAG
650 TTCAATTTCCGTTTCTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTGGAGCCTCAG
2065695 GACACGCTGA-GTAATTTCAATTTCTGTTGTC-AAAAAAAATCAACTCATATTGCGAGAAATGAG
715 GACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAAAATCAACTCATATTGCGAGAAATGAG
2065758 TTGAGCCTCAAGACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAA
780 TTGAGCCTCAAGACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAA
2065823 ATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
845 ATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
2065863 CTGTTTTCAAAAAAATCAACTTATATTGAGAGAGGTGAATTGAGCCTCGGTTCACATGCTGAGGT
1 CTGTTTTCAAAAAAATCAACTTATATTGAGAGAGGTGAATTGAGCCTCGGTTCACATGCTGAGGT
2065928 ATTTTCAATTTCTGTCTTTC-AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAAA
66 ATTTTCAATTTCTGTCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAAA
2065992 TCA-ACAATTGTGGTATTTTTTTCAATTTATATTGCGAAAGGTGAGTTGAGCTTTTTAATTTCTG
131 TCACAC-ATTGTGGTATTTTTTTCAATTTATATTGCGAAAGGTGAGTTGAGCTTTTTAATTTCTG
2066056 CGAGAGGTGAGTTGAGCCTCGAGTCACATGTCTAGGTATTTTCAAAATCTGCTTTTCAAGATAAG
195 CGAGAGGTGAGTTGAGCCTCGAGTCACATGTCTAGGTATTTTCAAAATCTGCTTTTCAAGATAAG
2066121 TTTCAAAAATCAACTCATATTGCGAGAGGATCACATGCCGAGTAGAGAATAAAGGTTGAAGCTGA
260 TTTCAAAAATCAACTCATATTGCGAGAGGATCACATGCCGAGTAGAGAATAAAGGTTGAAGCTGA
2066186 TTGAAGACGTCAGATTCTGTCTCCTTAAAGTTGCAGTAGAGTTGATCGAGGGCATCAGATCTTGC
325 TTGAAGACGTCAGATTCTGTCTCCTTAAAGTTGCAGTAGAGTTGATCGAGGGCATCAGATCTTGC
*
2066251 CTTTCTGAAGTCGCAGAAGAAAAGACCACAAACTTTATCTCACTGAAGCGATAGAAGAGAAGATT
390 CTTTCTGAAGTCGCAGAAGAAAAGACCACAAACCTTATCTCACTGAAGCGATAGAAGAGAAGATT
2066316 GAAGTTGTAGATCTCACCTTTCTGAAGTTACAGTGAAGTAGATCGAAGCCATAAATTTCATATCC
455 GAAGTTGTAGATCTCACCTTTCTGAAGTTACAGTGAAGTAGATCGAAGCCATAAATTTCATATCC
2066381 TTGAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTATT
520 TTGAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTATT
* *
2066446 GTCAAAAAAATATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTTAGGTCACACGCTGAGGTATT
585 GTCAAAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTTAGGTCACACGCCGAGGTATT
2066511 TTCAATTTCCGTTTCTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTGGAGCCTCAG
650 TTCAATTTCCGTTTCTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTGGAGCCTCAG
2066576 GACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAAAATCAACTCATATTGCGAGAAATGAG
715 GACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAAAATCAACTCATATTGCGAGAAATGAG
*
2066641 TTGAGCCTCAAGACG-TGAGGTAATTTCAATTTCTGTTTTTAAAATTCAACTCATATTGCGAGAA
780 TTGAGCCTCAAGACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAA
2066705 ATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
845 ATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
2066745 CTGTTTTCAAAAAAATCAACTTATATTGAGAGAGGTGAATTGAGCCTCGGTTCACATGCTGAGGT
1 CTGTTTTCAAAAAAATCAACTTATATTGAGAGAGGTGAATTGAGCCTCGGTTCACATGCTGAGGT
2066810 ATTTTCAATTTCTGTCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAAA
66 ATTTTCAATTTCTGTCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAAA
2066875 TCACACATTGTGGTATTTTTTTCAATTTATATTGCGAAAGGTGAGTTGAGCTTTTTAATTTCTGC
131 TCACACATTGTGGTATTTTTTTCAATTTATATTGCGAAAGGTGAGTTGAGCTTTTTAATTTCTGC
2066940 GAGAGGTGAGTTGAGCCTCGAGTCACATGTCTAGGTATTTTCAAAATCTGCTTTTCAAGATAAGT
196 GAGAGGTGAGTTGAGCCTCGAGTCACATGTCTAGGTATTTTCAAAATCTGCTTTTCAAGATAAGT
2067005 TTC-AAAATCAACTCATATTGCGAGAGGATCACATGCCGAGTAGAGAATAAAGGTTGAAGCTGAT
261 TTCAAAAATCAACTCATATTGCGAGAGGATCACATGCCGAGTAGAGAATAAAGGTTGAAGCTGAT
2067069 TGAAGACGTCAGATTCTGTCTCCTTAAAGTTGCAGTAGAGTTGATCGAGGGCATCAGATCTTGCC
326 TGAAGACGTCAGATTCTGTCTCCTTAAAGTTGCAGTAGAGTTGATCGAGGGCATCAGATCTTGCC
2067134 TTTCTGAAGTCGCAGAAG-AAAGACCAC-AACCTTATCTCACTGAAGCGATAGAAGAGAAGATTG
391 TTTCTGAAGTCGCAGAAGAAAAGACCACAAACCTTATCTCACTGAAGCGATAGAAGAGAAGATTG
2067197 AAGTTGTAGATCTCACCTTTCTGAAGTTACAGTGAAGTAGATCG-AGCCATAAATTTCATATCCT
456 AAGTTGTAGATCTCACCTTTCTGAAGTTACAGTGAAGTAGATCGAAGCCATAAATTTCATATCCT
2067261 TGAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTATTG
521 TGAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTATTG
2067326 TCAAAAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTTAGGTCACACGCCGAGGTATT
586 TC-AAAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTTAGGTCACACGCCGAGGTATT
2067391 TTCAATTTCCGTTTCTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTGGAGCCTCAG
650 TTCAATTTCCGTTTCTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTGGAGCCTCAG
2067456 GACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAAAATCAACTCATATTGCGAGAAATGAG
715 GACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAAAATCAACTCATATTGCGAGAAATGAG
2067521 TTGAGCCTCAAGACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAA
780 TTGAGCCTCAAGACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAA
2067586 ATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
845 ATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
2067626 CTGTTTTCAAAAAAATCAACTTATATTGAGAGAGGTGAATTGAGCCTCGGTTCACATGCTGAGGT
1 CTGTTTTCAAAAAAATCAACTTATATTGAGAGAGGTGAATTGAGCCTCGGTTCACATGCTGAGGT
2067691 ATTTTCAATTTCTGTCTTTC-AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAAA
66 ATTTTCAATTTCTGTCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAAA
2067755 TCACACATTGTGGTATTTTTTTCAATTTATA-TGCGAAAGGTGAGTTGAGCTTTTTAATTTCTGC
131 TCACACATTGTGGTATTTTTTTCAATTTATATTGCGAAAGGTGAGTTGAGCTTTTTAATTTCTGC
2067819 GAGAGGTGAGTTGAGCCTCGAGTCACATGTCTAGGTATTTTCAAAATCTGCTTTTCAAGATAAGT
196 GAGAGGTGAGTTGAGCCTCGAGTCACATGTCTAGGTATTTTCAAAATCTGCTTTTCAAGATAAGT
2067884 TTCAAAAATCAACTCATATTGCGAGAGGATCACATGCCGAGTAGAGAATAAAGGTTGAAGCTGAT
261 TTCAAAAATCAACTCATATTGCGAGAGGATCACATGCCGAGTAGAGAATAAAGGTTGAAGCTGAT
2067949 TGAAGACGTCAGATTCTGTCTCCTTAAAGTTGCAGTAGAGTTGATCGAGGGCATCAGATCTTGCC
326 TGAAGACGTCAGATTCTGTCTCCTTAAAGTTGCAGTAGAGTTGATCGAGGGCATCAGATCTTGCC
2068014 TTTCTGAAGTCGCAGAAGAAAAGACCAC-AACCTTATCTCACTGAAGCGATAGAAGAGAAGATTG
391 TTTCTGAAGTCGCAGAAGAAAAGACCACAAACCTTATCTCACTGAAGCGATAGAAGAGAAGATTG
2068078 AAGTTGTAGATCTCACCTTTCTGAAGTTACAGTGAAGTAGATCGAAGCCATAAATTTCATATCCT
456 AAGTTGTAGATCTCACCTTTCTGAAGTTACAGTGAAGTAGATCGAAGCCATAAATTTCATATCCT
* *
2068143 TGAAGTCACATTG
521 TGAACTCATATTG
2068156 GAATAGATTG
Statistics
Matches: 2263, Mismatches: 16, Indels: 25
0.98 0.01 0.01
Matches are distributed among these distances:
876 2 0.00
877 173 0.08
878 21 0.01
879 540 0.24
880 516 0.23
881 419 0.19
882 369 0.16
883 221 0.10
884 2 0.00
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (884 bp):
CTGTTTTCAAAAAAATCAACTTATATTGAGAGAGGTGAATTGAGCCTCGGTTCACATGCTGAGGT
ATTTTCAATTTCTGTCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAAA
TCACACATTGTGGTATTTTTTTCAATTTATATTGCGAAAGGTGAGTTGAGCTTTTTAATTTCTGC
GAGAGGTGAGTTGAGCCTCGAGTCACATGTCTAGGTATTTTCAAAATCTGCTTTTCAAGATAAGT
TTCAAAAATCAACTCATATTGCGAGAGGATCACATGCCGAGTAGAGAATAAAGGTTGAAGCTGAT
TGAAGACGTCAGATTCTGTCTCCTTAAAGTTGCAGTAGAGTTGATCGAGGGCATCAGATCTTGCC
TTTCTGAAGTCGCAGAAGAAAAGACCACAAACCTTATCTCACTGAAGCGATAGAAGAGAAGATTG
AAGTTGTAGATCTCACCTTTCTGAAGTTACAGTGAAGTAGATCGAAGCCATAAATTTCATATCCT
TGAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTATTG
TCAAAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTTAGGTCACACGCCGAGGTATTT
TCAATTTCCGTTTCTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTGGAGCCTCAGG
ACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAAAATCAACTCATATTGCGAGAAATGAGT
TGAGCCTCAAGACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAA
TGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
Found at i:2069046 original size:16 final size:18
Alignment explanation
Indices: 2069013--2069050 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
2069003 CCTTTTCCCC
2069013 CTCCCTTCTCTCTTTTTT
1 CTCCCTTCTCTCTTTTTT
* *
2069031 CTCCCTTCTTTTTTTTTT
1 CTCCCTTCTCTCTTTTTT
2069049 CT
1 CT
2069051 TTCTCTCTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (18 bp):
CTCCCTTCTCTCTTTTTT
Found at i:2069389 original size:11 final size:11
Alignment explanation
Indices: 2069365--2069407 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
2069355 TTCTAATACG
*
2069365 TATATATATTA
1 TATATATTTTA
*
2069376 TATGTATTTTA
1 TATATATTTTA
* *
2069387 TATATATTATG
1 TATATATTTTA
2069398 TATATATTTT
1 TATATATTTT
2069408 TTTAATGCAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (11 bp):
TATATATTTTA
Found at i:2069614 original size:19 final size:20
Alignment explanation
Indices: 2069590--2069637 Score: 73
Period size: 19 Copynumber: 2.5 Consensus size: 20
2069580 TTCATTAGTG
2069590 TATATTTTATGTACATAT-A
1 TATATTTTATGTACATATCA
*
2069609 TATATTTTTTGTACATATCA
1 TATATTTTATGTACATATCA
2069629 T-TATTTTAT
1 TATATTTTAT
2069638 ATTATTGTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 24 0.92
20 2 0.08
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.58
Consensus pattern (20 bp):
TATATTTTATGTACATATCA
Found at i:2069771 original size:22 final size:20
Alignment explanation
Indices: 2069711--2069782 Score: 60
Period size: 22 Copynumber: 3.6 Consensus size: 20
2069701 TTGTAGATAT
* *
2069711 TATTATTATTATTAT-TACA
1 TATTATTATTTTTATGCACA
*
2069730 TACTT-TTA-TTATATGCACA
1 TA-TTATTATTTTTATGCACA
*
2069749 TATATATATATTTTTATGTACA
1 TAT-TAT-TATTTTTATGCACA
2069771 TATTATTATTTT
1 TATTATTATTTT
2069783 ATATTATTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
18 5 0.12
19 11 0.26
20 9 0.21
21 5 0.12
22 12 0.29
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.57
Consensus pattern (20 bp):
TATTATTATTTTTATGCACA
Found at i:2069784 original size:19 final size:19
Alignment explanation
Indices: 2069711--2069784 Score: 71
Period size: 19 Copynumber: 3.7 Consensus size: 19
2069701 TTGTAGATAT
2069711 TATTATTATTATTAT-TACA
1 TATTATTATT-TTATGTACA
* *
2069730 TACTT-TTATTATATGCACA
1 TA-TTATTATTTTATGTACA
2069749 TATATATATATTTTTATGTACA
1 TAT-TAT-TA-TTTTATGTACA
2069771 TATTATTATTTTAT
1 TATTATTATTTTAT
2069785 ATTATTATTA
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
18 4 0.09
19 19 0.42
20 5 0.11
21 5 0.11
22 12 0.27
ACGTcount: A:0.34, C:0.07, G:0.03, T:0.57
Consensus pattern (19 bp):
TATTATTATTTTATGTACA
Found at i:2073029 original size:39 final size:39
Alignment explanation
Indices: 2072929--2073029 Score: 139
Period size: 39 Copynumber: 2.6 Consensus size: 39
2072919 GCTCTGATGA
* *
2072929 GCTTCAATTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
1 GCTTCAATTAGCCTTCGGGCTTTCGTTTAGCACTTATGT
* * *
2072968 GCTTCAGTTAGCCTTCAGGCTTTCGTTTAGCACTTATTT
1 GCTTCAATTAGCCTTCGGGCTTTCGTTTAGCACTTATGT
* *
2073007 GCTTCAACTAGACTTCGGGCTTT
1 GCTTCAATTAGCCTTCGGGCTTT
2073030 AAATCATGAT
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 53 1.00
ACGTcount: A:0.15, C:0.25, G:0.21, T:0.40
Consensus pattern (39 bp):
GCTTCAATTAGCCTTCGGGCTTTCGTTTAGCACTTATGT
Found at i:2082085 original size:31 final size:30
Alignment explanation
Indices: 2082029--2082114 Score: 84
Period size: 31 Copynumber: 2.7 Consensus size: 30
2082019 ACATATTTCG
*
2082029 TCGTCGATTTAAACTCACCCTTAACATATAT
1 TCGTCGATCTAAACTCACCCTTAACATA-AT
*
2082060 TCGTCGATCTAAACTCA-TCTCTAACATAAT
1 TCGTCGATCTAAACTCACCCT-TAACATAAT
* *
2082090 TCAACGTCAATCTAAATTCACCCTT
1 T---CGTCGATCTAAACTCACCCTT
2082115 CAAAGGTTGA
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
30 5 0.11
31 23 0.51
33 15 0.33
34 2 0.04
ACGTcount: A:0.33, C:0.28, G:0.06, T:0.34
Consensus pattern (30 bp):
TCGTCGATCTAAACTCACCCTTAACATAAT
Found at i:2084719 original size:15 final size:16
Alignment explanation
Indices: 2084701--2084736 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
2084691 ATTTAAATTA
*
2084701 AAAAAAT-TAAATTTT
1 AAAAAATGTAAATGTT
2084716 AAAAAATGTAAATGTT
1 AAAAAATGTAAATGTT
2084732 AAAAA
1 AAAAA
2084737 CTAAATTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.31
Consensus pattern (16 bp):
AAAAAATGTAAATGTT
Found at i:2084719 original size:16 final size:17
Alignment explanation
Indices: 2084698--2084736 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
2084688 CAAATTTAAA
2084698 TTAAAAAAAT-TAAAT-
1 TTAAAAAAATGTAAATG
*
2084713 TTTAAAAAATGTAAATG
1 TTAAAAAAATGTAAATG
2084730 TTAAAAA
1 TTAAAAA
2084737 CTAAATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 9 0.45
16 5 0.25
17 6 0.30
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (17 bp):
TTAAAAAAATGTAAATG
Found at i:2087143 original size:12 final size:12
Alignment explanation
Indices: 2087126--2087158 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
2087116 CAATGTAATC
2087126 TAATTGTTGGTG
1 TAATTGTTGGTG
2087138 TAATTGTTGGTG
1 TAATTGTTGGTG
*
2087150 TAAATGTTG
1 TAATTGTTG
2087159 CGACTGAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.48
Consensus pattern (12 bp):
TAATTGTTGGTG
Found at i:2090068 original size:11 final size:11
Alignment explanation
Indices: 2090038--2090070 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
2090028 ATGAGAGTGC
*
2090038 AAATATATTTA
1 AAATATATTAA
2090049 AAATA-ATTAA
1 AAATATATTAA
2090059 AAATATATTAA
1 AAATATATTAA
2090070 A
1 A
2090071 TATTAAGTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
AAATATATTAA
Found at i:2091516 original size:16 final size:17
Alignment explanation
Indices: 2091495--2091527 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
2091485 ATAATTTAAC
2091495 TTATTTTATTAT-AGAT
1 TTATTTTATTATGAGAT
*
2091511 TTATTTTTTTATGAGAT
1 TTATTTTATTATGAGAT
2091528 ATAAATTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.27, C:0.00, G:0.09, T:0.64
Consensus pattern (17 bp):
TTATTTTATTATGAGAT
Found at i:2102730 original size:24 final size:24
Alignment explanation
Indices: 2102702--2102779 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
2102692 TGCGTATGTA
*
2102702 ATATACTTATGTAT-TATATTATAT
1 ATATAATT-TGTATATATATTATAT
* *
2102726 ATATAATTTTTTTATATATTATAT
1 ATATAATTTGTATATATATTATAT
* *
2102750 ATATGTATTT-TAATATTATGTTATAT
1 ATAT-AATTTGT-ATA-TATATTATAT
2102776 ATAT
1 ATAT
2102780 TATATACATA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
23 3 0.07
24 22 0.50
25 6 0.14
26 13 0.30
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.58
Consensus pattern (24 bp):
ATATAATTTGTATATATATTATAT
Found at i:2102760 original size:22 final size:22
Alignment explanation
Indices: 2102709--2102785 Score: 65
Period size: 21 Copynumber: 3.7 Consensus size: 22
2102699 GTAATATACT
*
2102709 TATGTATTATAT-TA-TATATA
1 TATGTATTTTATATATTATATA
*
2102729 TAAT-TTTTTTATATATTATATA
1 T-ATGTATTTTATATATTATATA
*
2102751 TATGTATTTTA-ATATTATGT-
1 TATGTATTTTATATATTATATA
* *
2102771 TATATATATTATATA
1 TATGTATTTTATATA
2102786 CATATATTTT
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
20 16 0.35
21 17 0.37
22 13 0.28
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (22 bp):
TATGTATTTTATATATTATATA
Found at i:2102773 original size:26 final size:25
Alignment explanation
Indices: 2102713--2102779 Score: 82
Period size: 24 Copynumber: 2.7 Consensus size: 25
2102703 TATACTTATG
**
2102713 TATTATATTATATATATAATTTTTT
1 TATTATATTATATATATAATTTTAA
*
2102738 TA-TATATTATATATATGTATTTTAA
1 TATTATATTATATATAT-AATTTTAA
*
2102763 TATTATGTTATATATAT
1 TATTATATTATATATAT
2102780 TATATACATA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
24 14 0.39
25 9 0.25
26 13 0.36
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (25 bp):
TATTATATTATATATATAATTTTAA
Found at i:2102779 original size:14 final size:13
Alignment explanation
Indices: 2102713--2102793 Score: 62
Period size: 13 Copynumber: 6.3 Consensus size: 13
2102703 TATACTTATG
2102713 TATTATATTATATA
1 TATTAT-TTATATA
* * *
2102727 TATAATTTTTTTA
1 TATTATTTATATA
2102740 TA-TA-TTATATA
1 TATTATTTATATA
2102751 TATGTATTT-TA-A
1 TAT-TATTTATATA
2102763 TATTATGTTATATA
1 TATTAT-TTATATA
* *
2102777 TATTATATACATA
1 TATTATTTATATA
2102790 TATT
1 TATT
2102794 TTCAATATTA
Statistics
Matches: 53, Mismatches: 8, Indels: 13
0.72 0.11 0.18
Matches are distributed among these distances:
11 10 0.19
12 7 0.13
13 22 0.42
14 14 0.26
ACGTcount: A:0.38, C:0.01, G:0.02, T:0.58
Consensus pattern (13 bp):
TATTATTTATATA
Found at i:2103260 original size:13 final size:13
Alignment explanation
Indices: 2103244--2103273 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
2103234 TTATCGTGTA
2103244 TATTTTTTATTTC
1 TATTTTTTATTTC
2103257 TATTTTTTATTTC
1 TATTTTTTATTTC
2103270 TATT
1 TATT
2103274 AACCATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.77
Consensus pattern (13 bp):
TATTTTTTATTTC
Found at i:2107114 original size:18 final size:19
Alignment explanation
Indices: 2107082--2107119 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
2107072 CATATAGTTC
*
2107082 TATATTATTACATCATTTCA
1 TATATTATTA-ATCAATTCA
2107102 TATATTATT-ATCAATTCA
1 TATATTATTAATCAATTCA
2107120 CAATTTCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 8 0.47
20 9 0.53
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (19 bp):
TATATTATTAATCAATTCA
Found at i:2117906 original size:105 final size:101
Alignment explanation
Indices: 2117728--2117921 Score: 262
Period size: 105 Copynumber: 1.9 Consensus size: 101
2117718 AATTGACAGA
* * * **
2117728 TAAGACCATGGTTGGACCATGGCAATGTTTGAATGTAAGACCATAGTTAGGCTATGACATTTTAA
1 TAAGACCATGGTTGGACCATGGCAATATATGAATGTAAGACCATAGCTAGGCTATGACATCCTAA
2117793 TGAAAAGACCATAACTGAGTTATGACACCTTGAACT
66 TGAAAAGACCATAACTGAGTTATGACACCTTGAACT
* *
2117829 TAAGACCATGGTTGGACCATGGCAGTATATGTATACGTGTAAGACCATAGCTGGGCTATGACATC
1 TAAGACCATGGTTGGACCATGGCAATATATG-A-A--TGTAAGACCATAGCTAGGCTATGACATC
* * *
2117894 CTGATGATAAGACCATAACTGGGTTATG
62 CTAATGAAAAGACCATAACTGAGTTATG
2117922 GCATTAAGAG
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
101 28 0.35
102 1 0.01
103 1 0.01
105 49 0.62
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.28
Consensus pattern (101 bp):
TAAGACCATGGTTGGACCATGGCAATATATGAATGTAAGACCATAGCTAGGCTATGACATCCTAA
TGAAAAGACCATAACTGAGTTATGACACCTTGAACT
Found at i:2117938 original size:33 final size:33
Alignment explanation
Indices: 2117865--2117942 Score: 86
Period size: 33 Copynumber: 2.4 Consensus size: 33
2117855 ATATGTATAC
* **
2117865 GTGTAAGACCATAGCTGGGCTATGACATCCTGA
1 GTGTAAGACCATAACTGGGCTATGACATCAAGA
* * *
2117898 -TGATAAGACCATAACTGGGTTATGGCATTAAGA
1 GTG-TAAGACCATAACTGGGCTATGACATCAAGA
2117931 GTGTAAGACCAT
1 GTGTAAGACCAT
2117943 GGCAGGGCCA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
32 2 0.05
33 33 0.89
34 2 0.05
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.26
Consensus pattern (33 bp):
GTGTAAGACCATAACTGGGCTATGACATCAAGA
Found at i:2117938 original size:105 final size:100
Alignment explanation
Indices: 2117728--2117959 Score: 250
Period size: 105 Copynumber: 2.3 Consensus size: 100
2117718 AATTGACAGA
* * * **
2117728 TAAGACCATGGTTGGACCATGGCAATGTTTGAATGTAAGACCATAGTTAGGCTATGACATTTTAA
1 TAAGACCATGGTTGGACCATGGCAATATATGAATGTAAGACCATAGCTAGGCTATGACATCCTAA
*
2117793 TGAAAAGACCATAACTGAGTTATGACACCTTGAACT
66 TGAAAAGACCATAACTGAGTTATGACA-CTTAAACT
* *
2117829 TAAGACCATGGTTGGACCATGGCAGTATATGTATACGTGTAAGACCATAGCTGGGCTATGACATC
1 TAAGACCATGGTTGGACCATGGCAATATATG-A-A--TGTAAGACCATAGCTAGGCTATGACATC
* * * * *
2117894 CTGATGATAAGACCATAACTGGGTTATGGCA-TTAAGAGT
62 CTAATGAAAAGACCATAACTGAGTTATGACACTTAA-ACT
** *
2117933 GTAAGACCATGGCAGGGCCATGGCAAT
1 -TAAGACCATGGTTGGACCATGGCAAT
2117960 TTTGTAAGAC
Statistics
Matches: 108, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
101 28 0.26
102 1 0.01
103 4 0.04
104 2 0.02
105 73 0.68
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (100 bp):
TAAGACCATGGTTGGACCATGGCAATATATGAATGTAAGACCATAGCTAGGCTATGACATCCTAA
TGAAAAGACCATAACTGAGTTATGACACTTAAACT
Found at i:2124977 original size:26 final size:26
Alignment explanation
Indices: 2124940--2124990 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
2124930 TGAGAGGACA
*
2124940 GCAAGGGAAGCTCGCAAACCTAGCTT
1 GCAAGGGAAGCTCACAAACCTAGCTT
*
2124966 GCAAGAGG-AGCTCACAGACCTAGCT
1 GCAAG-GGAAGCTCACAAACCTAGCT
2124991 CACAAGGAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.31, C:0.27, G:0.27, T:0.14
Consensus pattern (26 bp):
GCAAGGGAAGCTCACAAACCTAGCTT
Found at i:2124996 original size:26 final size:26
Alignment explanation
Indices: 2124948--2125004 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
2124938 CAGCAAGGGA
* **
2124948 AGCTCGCAAACCTAGCTTGCAA-GAGG
1 AGCTCACAAACCTAGCTCACAAGGA-G
*
2124974 AGCTCACAGACCTAGCTCACAAGGAG
1 AGCTCACAAACCTAGCTCACAAGGAG
2125000 AGCTC
1 AGCTC
2125005 GCGTGAACCA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 24 0.92
27 2 0.08
ACGTcount: A:0.32, C:0.30, G:0.25, T:0.14
Consensus pattern (26 bp):
AGCTCACAAACCTAGCTCACAAGGAG
Found at i:2126952 original size:19 final size:19
Alignment explanation
Indices: 2126906--2126961 Score: 69
Period size: 18 Copynumber: 2.9 Consensus size: 19
2126896 ATATATTATT
* *
2126906 AATACATATATAATTATTAA
1 AATACATATA-GATTATAAA
2126926 AATA-ATATAGATTATAAA
1 AATACATATAGATTATAAA
2126944 AATACATATAGTATTATA
1 AATACATATAG-ATTATA
2126962 TGATATTATA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 11 0.34
19 11 0.34
20 10 0.31
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.38
Consensus pattern (19 bp):
AATACATATAGATTATAAA
Found at i:2127144 original size:40 final size:42
Alignment explanation
Indices: 2127100--2127191 Score: 97
Period size: 40 Copynumber: 2.3 Consensus size: 42
2127090 TTTATAAATT
*
2127100 TAATAATAATAAAA-AT-TATTCAATTGA-CAACATAATATAA
1 TAATAATAATAAAAGATATATTC-ATTAATCAACATAATATAA
* * *
2127140 TAAT-A-AATAAAAGATATTTTCATTAATCTACATAATATTA
1 TAATAATAATAAAAGATATATTCATTAATCAACATAATATAA
2127180 TAA-AATAATAAA
1 TAATAATAATAAA
2127192 TTTTACATAG
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
38 7 0.16
39 7 0.16
40 23 0.53
41 6 0.14
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.35
Consensus pattern (42 bp):
TAATAATAATAAAAGATATATTCATTAATCAACATAATATAA
Found at i:2127339 original size:24 final size:23
Alignment explanation
Indices: 2127297--2127351 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
2127287 TATTATCGTA
*
2127297 TAAAAATAAAATAAATTATTATATT
1 TAAAATTAAAATAAATTA-TA-ATT
*
2127322 TAAAATTAAAAT-ATTTATAATT
1 TAAAATTAAAATAAATTATAATT
2127344 TATAAATT
1 TA-AAATT
2127352 TTAAAATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 5 0.19
23 7 0.26
24 4 0.15
25 11 0.41
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
TAAAATTAAAATAAATTATAATT
Found at i:2127359 original size:16 final size:16
Alignment explanation
Indices: 2127317--2127359 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
2127307 ATAAATTATT
2127317 ATATTTAAAA-TTAAA
1 ATATTTAAAATTTAAA
*
2127332 ATATTTATAATTTATAA
1 ATATTTAAAATTTA-AA
2127349 AT-TTTAAAATT
1 ATATTTAAAATT
2127360 ATCTTAATCT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 9 0.38
16 11 0.46
17 4 0.17
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
ATATTTAAAATTTAAA
Found at i:2131774 original size:21 final size:21
Alignment explanation
Indices: 2131741--2131787 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
2131731 CATGATTATC
2131741 TAAAAACTCT-AAACCTTAAA
1 TAAAAACTCTAAAACCTTAAA
*
2131761 TTAAAAAC-CTTAAAACTTTAAA
1 -TAAAAACTC-TAAAACCTTAAA
2131783 TAAAA
1 TAAAA
2131788 CATTTATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 1 0.04
21 13 0.57
22 9 0.39
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (21 bp):
TAAAAACTCTAAAACCTTAAA
Found at i:2133944 original size:22 final size:22
Alignment explanation
Indices: 2133904--2133945 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
2133894 TGGCCACCCA
*
2133904 CCTTGGCCACCAACTCCACCAC
1 CCTTGGCCACCAACACCACCAC
2133926 CCTTGGCCACCTAA-ACCACC
1 CCTTGGCCACC-AACACCACC
2133946 CCAACCACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.24, C:0.52, G:0.10, T:0.14
Consensus pattern (22 bp):
CCTTGGCCACCAACACCACCAC
Found at i:2134062 original size:20 final size:20
Alignment explanation
Indices: 2134020--2134087 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 20
2134010 GTTTTTGGTT
*
2134020 TTTTGGAGAAGGATTGTTCTTTG
1 TTTTGGAGGAGG-TT-TT-TTTG
2134043 TTTTGGAGGAGGTTTTTTTG
1 TTTTGGAGGAGGTTTTTTTG
*
2134063 TTTTTTGGAGG-CGTTTTTTTG
1 --TTTTGGAGGAGGTTTTTTTG
2134084 TTTT
1 TTTT
2134088 TTTAGAAAGA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
19 4 0.10
20 4 0.10
21 11 0.27
22 11 0.27
23 11 0.27
ACGTcount: A:0.10, C:0.03, G:0.29, T:0.57
Consensus pattern (20 bp):
TTTTGGAGGAGGTTTTTTTG
Found at i:2134071 original size:22 final size:22
Alignment explanation
Indices: 2133992--2134089 Score: 85
Period size: 22 Copynumber: 4.5 Consensus size: 22
2133982 CATTCAAGAC
* * * *
2133992 TTTGTTTTTAGGGGGTGGGTTT
1 TTTGTTTTTTGGAGGAGGTTTT
* *
2134014 TTGGTTTTTTGGAGAAGGATTGTT
1 TTTGTTTTTTGGAGGAGG-TT-TT
2134038 CTTTG--TTTTGGAGGAGGTTTT
1 -TTTGTTTTTTGGAGGAGGTTTT
*
2134059 TTTGTTTTTTGGAGG-CGTTTT
1 TTTGTTTTTTGGAGGAGGTTTT
2134080 TTTGTTTTTT
1 TTTGTTTTTT
2134090 TAGAAAGAAG
Statistics
Matches: 62, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
20 4 0.06
21 17 0.27
22 24 0.39
23 12 0.19
24 2 0.03
25 3 0.05
ACGTcount: A:0.08, C:0.02, G:0.32, T:0.58
Consensus pattern (22 bp):
TTTGTTTTTTGGAGGAGGTTTT
Found at i:2134088 original size:20 final size:21
Alignment explanation
Indices: 2134039--2134088 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
2134029 AGGATTGTTC
*
2134039 TTTG-TTTTGGAGGAGGTTTT
1 TTTGTTTTTGGAGGACGTTTT
2134059 TTTGTTTTTTGGAGG-CGTTTT
1 TTTG-TTTTTGGAGGACGTTTT
2134080 TTTGTTTTT
1 TTTGTTTTT
2134089 TTAGAAAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 9 0.33
21 9 0.33
22 9 0.33
ACGTcount: A:0.06, C:0.02, G:0.28, T:0.64
Consensus pattern (21 bp):
TTTGTTTTTGGAGGACGTTTT
Found at i:2134090 original size:22 final size:22
Alignment explanation
Indices: 2134043--2134089 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
2134033 TTGTTCTTTG
*
2134043 TTTTGGAGGAGGTTTTTTTGTT
1 TTTTGGAGGACGTTTTTTTGTT
2134065 TTTTGGAGG-CGTTTTTTTGTT
1 TTTTGGAGGACGTTTTTTTGTT
2134086 TTTT
1 TTTT
2134090 TAGAAAGAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 15 0.62
22 9 0.38
ACGTcount: A:0.06, C:0.02, G:0.28, T:0.64
Consensus pattern (22 bp):
TTTTGGAGGACGTTTTTTTGTT
Found at i:2134435 original size:3 final size:3
Alignment explanation
Indices: 2134421--2134498 Score: 56
Period size: 3 Copynumber: 25.3 Consensus size: 3
2134411 GAGCTTTGTT
* *
2134421 TTA TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
2134465 TT- TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA T
1 TTA T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA T
2134499 ATATATATGC
Statistics
Matches: 61, Mismatches: 6, Indels: 16
0.73 0.07 0.19
Matches are distributed among these distances:
2 5 0.08
3 47 0.77
4 7 0.11
5 2 0.03
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:2134466 original size:12 final size:13
Alignment explanation
Indices: 2134421--2134506 Score: 69
Period size: 12 Copynumber: 6.8 Consensus size: 13
2134411 GAGCTTTGTT
2134421 TTATTAT-T-TTA
1 TTATTATATATTA
* *
2134432 TTATT-TTTACTA
1 TTATTATATATTA
2134444 TTATT-TATATTA
1 TTATTATATATTA
2134456 TTATTAT-TATT-
1 TTATTATATATTA
2134467 TCTCATGTATATATTA
1 T-T-AT-TATATATTA
2134483 TTATT-TATATTA
1 TTATTATATATTA
2134495 TTATATATATAT
1 TTAT-TATATAT
2134507 GCCCTCTCCA
Statistics
Matches: 62, Mismatches: 3, Indels: 17
0.76 0.04 0.21
Matches are distributed among these distances:
10 1 0.02
11 7 0.11
12 33 0.53
13 5 0.08
14 10 0.16
15 5 0.08
16 1 0.02
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.64
Consensus pattern (13 bp):
TTATTATATATTA
Found at i:2134481 original size:21 final size:18
Alignment explanation
Indices: 2134421--2134498 Score: 84
Period size: 18 Copynumber: 4.1 Consensus size: 18
2134411 GAGCTTTGTT
*
2134421 TTATTATTTTATTATTTTTA
1 TTATTA-TTTA-TATTATTA
*
2134441 CTATTATTTATATTATTA
1 TTATTATTTATATTATTA
*
2134459 TTATTATTTCTCATGTATATA
1 TTATTATTTAT-AT-TAT-TA
2134480 TTATTATTTATATTATTA
1 TTATTATTTATATTATTA
2134498 T
1 T
2134499 ATATATATGC
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
18 19 0.38
19 9 0.18
20 10 0.20
21 12 0.24
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.65
Consensus pattern (18 bp):
TTATTATTTATATTATTA
Found at i:2137333 original size:19 final size:19
Alignment explanation
Indices: 2137311--2137357 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
2137301 CTTCCTTTCT
2137311 TTTGCATT-CATTCCATACA
1 TTTGCATTACATTCCA-ACA
*
2137330 TTTGCATTACATTGCAACA
1 TTTGCATTACATTCCAACA
2137349 TTTGCATTA
1 TTTGCATTA
2137358 AACTTTCACT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.43
Consensus pattern (19 bp):
TTTGCATTACATTCCAACA
Found at i:2137525 original size:24 final size:24
Alignment explanation
Indices: 2137490--2137540 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
2137480 TAGAAAGGAT
*
2137490 AGAACAAATACAA-AGGGAGATGCA
1 AGAACAAATACAAGA-GCAGATGCA
*
2137514 AGAACAATTACAAGAGCAGATGCA
1 AGAACAAATACAAGAGCAGATGCA
2137538 AGA
1 AGA
2137541 GCAACTGGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 23 0.96
25 1 0.04
ACGTcount: A:0.53, C:0.14, G:0.24, T:0.10
Consensus pattern (24 bp):
AGAACAAATACAAGAGCAGATGCA
Found at i:2140155 original size:6 final size:6
Alignment explanation
Indices: 2140146--2140181 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
2140136 GGAGTTATAT
* *
2140146 GGCAAT GGCAAA GGCAAA GGCAGA GGCAAA GGCAAA
1 GGCAAA GGCAAA GGCAAA GGCAAA GGCAAA GGCAAA
2140182 AAAAAAAACA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.44, C:0.17, G:0.36, T:0.03
Consensus pattern (6 bp):
GGCAAA
Found at i:2140198 original size:8 final size:8
Alignment explanation
Indices: 2140185--2140213 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
2140175 AGGCAAAAAA
2140185 AAAAACAC
1 AAAAACAC
2140193 AAAAACAC
1 AAAAACAC
2140201 AAAAACAC
1 AAAAACAC
2140209 AAAAA
1 AAAAA
2140214 AAAACAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.79, C:0.21, G:0.00, T:0.00
Consensus pattern (8 bp):
AAAAACAC
Found at i:2140214 original size:10 final size:10
Alignment explanation
Indices: 2140178--2140225 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
2140168 GAGGCAAAGG
2140178 CAAAAAAAAA
1 CAAAAAAAAA
*
2140188 -AACACAAAAA
1 CAA-AAAAAAA
* *
2140198 CACAAAAACA
1 CAAAAAAAAA
2140208 CAAAAAAAAA
1 CAAAAAAAAA
2140218 CAAAAAAA
1 CAAAAAAA
2140226 TTCTAAAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
9 2 0.07
10 27 0.90
11 1 0.03
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (10 bp):
CAAAAAAAAA
Found at i:2141576 original size:40 final size:40
Alignment explanation
Indices: 2141529--2141683 Score: 144
Period size: 41 Copynumber: 3.9 Consensus size: 40
2141519 AACGAAGATG
2141529 GATCTTAACCCCTAAGCAAGTA-GAAACAGATCGAAGACGAA
1 GATCTTAACCCCTAAGC-AGTAGGAAACAGATCGAAGA-GAA
* * * ** *
2141570 G-TCTTAAACCCCTAATC-GTAGGTAACAGA-CTAATTGTA
1 GATCTT-AACCCCTAAGCAGTAGGAAACAGATCGAAGAGAA
*
2141608 GATCTT-A-CCCTAAGCA-TAGGAAAACAGATCGAAGATAA
1 GATCTTAACCCCTAAGCAGTAGG-AAACAGATCGAAGAGAA
*
2141646 GATCTTAACCCCTAAGCAGTAGGGAAACAGATCAAAGA
1 GATCTTAACCCCTAAGCAGTA-GGAAACAGATCGAAGA
2141684 TGATGGGCTT
Statistics
Matches: 90, Mismatches: 14, Indels: 20
0.73 0.11 0.16
Matches are distributed among these distances:
36 11 0.12
37 7 0.08
38 13 0.14
39 11 0.12
40 20 0.22
41 26 0.29
42 2 0.02
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.19
Consensus pattern (40 bp):
GATCTTAACCCCTAAGCAGTAGGAAACAGATCGAAGAGAA
Found at i:2141780 original size:44 final size:45
Alignment explanation
Indices: 2141731--2142090 Score: 300
Period size: 43 Copynumber: 8.3 Consensus size: 45
2141721 TTACAACTTA
**
2141731 CCCCTAAGCAGTAGGGTAACTGGCT-AAGATTTACAGATCTTAAC
1 CCCCTAAGCAGTAGGGTAACAAGCTGAAGATTTACAGATCTTAAC
* * * * **
2141775 CCCCTAAGCAGTAGGG-AAC-AGATCAAGA-TGA-TGGGCTTTAAC
1 CCCCTAAGCAGTAGGGTAACAAGCTGAAGATTTACAGATC-TTAAC
* * *
2141817 CCCCTAAGCAGTAGGGTAACAAGCCG-A-ATTTACA-AGCCTTAAA
1 CCCCTAAGCAGTAGGGTAACAAGCTGAAGATTTACAGA-TCTTAAC
**
2141860 CCCCTAAGCAGTAGGGTAACTGGCTGAAGATTTACAGATCTTAAC
1 CCCCTAAGCAGTAGGGTAACAAGCTGAAGATTTACAGATCTTAAC
* * * * * * ** *
2141905 CCCCTAAGCAGTAGGGAAAC-AGATAAAAAATGATGGGTCTTTAA-
1 CCCCTAAGCAGTAGGGTAACAAGCTGAAGATTTACAGATC-TTAAC
* * * *
2141949 CCCCTAAGCAGTAGGGTAACAAGCCG-A-ATTTACAAACCTTAAA
1 CCCCTAAGCAGTAGGGTAACAAGCTGAAGATTTACAGATCTTAAC
* *
2141992 CCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAAATCTTAA-
1 CCCCTAAGCAGTAGGGTAACAAGCTGAAGATTTACAGATCTTAAC
* * *
2142036 CCCCTAACCAGTAGGGTAACAGGTTG-A-ATTTACAGATCTTAAC
1 CCCCTAAGCAGTAGGGTAACAAGCTGAAGATTTACAGATCTTAAC
*
2142079 CCCTTAAGCAGT
1 CCCCTAAGCAGT
2142091 TGGGAAATAG
Statistics
Matches: 252, Mismatches: 48, Indels: 33
0.76 0.14 0.10
Matches are distributed among these distances:
41 2 0.01
42 44 0.17
43 79 0.31
44 75 0.30
45 51 0.20
46 1 0.00
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.22
Consensus pattern (45 bp):
CCCCTAAGCAGTAGGGTAACAAGCTGAAGATTTACAGATCTTAAC
Found at i:2141876 original size:43 final size:43
Alignment explanation
Indices: 2141730--2142090 Score: 236
Period size: 44 Copynumber: 8.3 Consensus size: 43
2141720 ATTACAACTT
** *
2141730 ACCCCTAAGCAGTAGGGTAACTGGCTAAGATTTAC-AGATCTTAA
1 ACCCCTAAGCAGTAGGGTAACAAGCTGA-ATTTACAAG-TCTTAA
* * * * * ** *
2141774 CCCCCTAAGCAGTAGGG-AAC-AGATCAAGATGA-TGGGCTTTAA
1 ACCCCTAAGCAGTAGGGTAACAAGCTGAA-TTTACAAGTC-TTAA
* * *
2141816 CCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAAGCCTTAA
1 ACCCCTAAGCAGTAGGGTAACAAGCTGAATTTACAAGTCTTAA
**
2141859 ACCCCTAAGCAGTAGGGTAACTGGCTGAAGATTTAC-AGATCTTAA
1 ACCCCTAAGCAGTAGGGTAACAAGCTG-A-ATTTACAAG-TCTTAA
* * * * * * *** *
2141904 CCCCCTAAGCAGTAGGGAAAC-AGATAAAAAATGATGGGTCTTTA
1 ACCCCTAAGCAGTAGGGTAACAAGCT--GAATTTACAAGTCTTAA
* **
2141948 ACCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAAACCTTAA
1 ACCCCTAAGCAGTAGGGTAACAAGCTGAATTTACAAGTCTTAA
* *
2141991 ACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAAATCTT-A
1 ACCCCTAAGCAGTAGGGTAACAAGCTG-A-ATTTACAAGTCTTAA
* * *
2142035 ACCCCTAACCAGTAGGGTAACAGGTTGAATTTAC-AGATCTT-A
1 ACCCCTAAGCAGTAGGGTAACAAGCTGAATTTACAAG-TCTTAA
2142077 ACCCCTTAAGCAGT
1 ACCCC-TAAGCAGT
2142091 TGGGAAATAG
Statistics
Matches: 249, Mismatches: 51, Indels: 35
0.74 0.15 0.10
Matches are distributed among these distances:
41 3 0.01
42 43 0.17
43 76 0.31
44 81 0.33
45 46 0.18
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.22
Consensus pattern (43 bp):
ACCCCTAAGCAGTAGGGTAACAAGCTGAATTTACAAGTCTTAA
Found at i:2141977 original size:132 final size:128
Alignment explanation
Indices: 2141645--2142057 Score: 621
Period size: 132 Copynumber: 3.2 Consensus size: 128
2141635 ATCGAAGATA
*
2141645 AGATCTTAACCCCTAAGCAGTAGGGAAACAGATCAAAGATGATGGGCTTTAAACCCTAAGCAGT-
1 AGATCTTAACCCCTAAGCAGTAGGGAAACAGAT-AAAGATGATGGGCTTTAACCCCTAAGCAGTA
2141709 --GTAAC-AGCCGAA-TTACAA-CTT--ACCCCTAAGCAGTAGGGTAACTGGCT-AAGATTTAC
65 GGGTAACAAGCCGAATTTACAACCTTAAACCCCTAAGCAGTAGGGTAACTGGCTGAAGATTTAC
*
2141765 AGATCTTAACCCCCTAAGCAGTAGGG-AACAGATCAAGATGATGGGCTTTAACCCCCTAAGCAGT
1 AGATCTTAA-CCCCTAAGCAGTAGGGAAACAGATAAAGATGATGGGCTTTAA-CCCCTAAGCAGT
2141829 AGGGTAACAAGCCGAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACTGGCTGAAGATTTA
64 AGGGTAACAAGCCGAATTTACAA-CCTTAAACCCCTAAGCAGTAGGGTAACTGGCTGAAGATTTA
2141894 C
128 C
*
2141895 AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATAAAAAATGATGGGTCTTTAACCCCTAAGCAG
1 AGATCTTAA-CCCCTAAGCAGTAGGGAAACAGAT-AAAGATGATGGG-CTTTAACCCCTAAGCAG
*
2141960 TAGGGTAACAAGCCGAATTTACAAACCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTT
63 TAGGGTAACAAGCCGAATTTAC-AACCTTAAACCCCTAAGCAGTAGGGTAACTGGCTGAAGATTT
2142025 AC
127 AC
* * *
2142027 AAATCTTAACCCCTAACCAGTAGGGTAACAG
1 AGATCTTAACCCCTAAGCAGTAGGGAAACAG
2142058 GTTGAATTTA
Statistics
Matches: 269, Mismatches: 8, Indels: 21
0.90 0.03 0.07
Matches are distributed among these distances:
119 17 0.06
120 27 0.10
121 16 0.06
123 5 0.02
124 7 0.03
125 6 0.02
127 3 0.01
129 26 0.10
130 35 0.13
131 27 0.10
132 92 0.34
133 8 0.03
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.21
Consensus pattern (128 bp):
AGATCTTAACCCCTAAGCAGTAGGGAAACAGATAAAGATGATGGGCTTTAACCCCTAAGCAGTAG
GGTAACAAGCCGAATTTACAACCTTAAACCCCTAAGCAGTAGGGTAACTGGCTGAAGATTTAC
Found at i:2142006 original size:87 final size:87
Alignment explanation
Indices: 2141858--2142157 Score: 298
Period size: 87 Copynumber: 3.4 Consensus size: 87
2141848 ACAAGCCTTA
* *
2141858 AACCCCTAAGCAGTAGGGTAACTGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAA
1 AACCCCTAAGCAGTAGGGTAACAGGCTG-A-ATTTACAGATCTTAAACCCCTAAGCAGTAGGGAA
2141923 ACAGATAAAAAATGATGGGTCTTT
64 ACAGATAAAAAATGATGGGTCTTT
* * * * *
2141947 AACCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAAACCTTAAACCCCTAAGCAGTAGGGTAAC
1 AACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAAACCCCTAAGCAGTAGGGAAAC
* * * * * ****
2142012 AGGCTGAAGATTTACAAATC-TT
66 A-GATAAAAAATGATGGGTCTTT
* * *
2142034 AACCCCTAACCAGTAGGGTAACAGGTTGAATTTACAGATCTT-AACCCCTTAAGCAGTTGGGAAA
1 AACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAAACCCC-TAAGCAGTAGGGAAA
* ** * * *
2142098 TAGATCGAAGATGATGGGCCTTA
65 CAGATAAAAAATGATGGGTCTTT
* *
2142121 AACCCCTAAGTAGTAGGGTAACAGGCTGGAAATTACA
1 AACCCCTAAGCAGTAGGGTAACAGGCT-GAATTTACA
2142158 AATTTCTTTT
Statistics
Matches: 165, Mismatches: 42, Indels: 9
0.76 0.19 0.04
Matches are distributed among these distances:
86 12 0.07
87 110 0.67
88 18 0.11
89 25 0.15
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (87 bp):
AACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAAACCCCTAAGCAGTAGGGAAAC
AGATAAAAAATGATGGGTCTTT
Found at i:2142275 original size:67 final size:68
Alignment explanation
Indices: 2142162--2142351 Score: 250
Period size: 67 Copynumber: 2.9 Consensus size: 68
2142152 ATTACAAATT
* *
2142162 TCTTTT-TCCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAG-
1 TCTTTTCTTCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGC
*
2142225 AGGA
66 A-AA
*
2142229 TCTTTTCTTCCTGAAATGGCGTT-GAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGC
1 TCTTTTCTTCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGC
2142293 AAA
66 AAA
* * * *
2142296 CCTCTTCTTCC-AAAATGGCATTGGAGAGGCTAAAAGCCAC-A-AGATCTCCTT-AAGTT
1 TCTTTTCTTCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTT
2142352 CAGTGGAAGA
Statistics
Matches: 111, Mismatches: 9, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
64 5 0.05
65 10 0.09
66 10 0.09
67 71 0.64
68 15 0.14
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (68 bp):
TCTTTTCTTCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGC
AAA
Found at i:2142480 original size:42 final size:42
Alignment explanation
Indices: 2142428--2142535 Score: 121
Period size: 42 Copynumber: 2.5 Consensus size: 42
2142418 GATCTGACAT
*
2142428 TCCTGTGCTTACAGTGAAGC-AGATCCAAGA-TTCAGCATGGCA
1 TCCTGTGCTTACAGGGAA-CAAG-TCCAAGATTTCAGCATGGCA
* * *
2142470 TCCTGTGCTTATAGGGAACAAGTTCAAGATTTTAGCATGGCA
1 TCCTGTGCTTACAGGGAACAAGTCCAAGATTTCAGCATGGCA
* *
2142512 TCCTTATGCTTATAGGGAACAAGT
1 TCC-TGTGCTTACAGGGAACAAGT
2142536 TGAAAACATC
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
41 7 0.12
42 32 0.55
43 19 0.33
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (42 bp):
TCCTGTGCTTACAGGGAACAAGTCCAAGATTTCAGCATGGCA
Found at i:2142530 original size:43 final size:41
Alignment explanation
Indices: 2142453--2142580 Score: 132
Period size: 43 Copynumber: 3.0 Consensus size: 41
2142443 GAAGCAGATC
*
2142453 CAAGATTCAGCATGGCATCCTGTGCTTATAGGGAACAAGTT
1 CAAGATTCAGCATGGCATCCTATGCTTATAGGGAACAAGTT
*
2142494 CAAGATTTTAGCATGGCATCCTTATGCTTATAGGGAACAAGTT
1 CAAGA-TTCAGCATGGCATCC-TATGCTTATAGGGAACAAGTT
* * * * *
2142537 GAAAACATCA-CATTTGGCATCCCTGTGCTTATAGAGAACAAGTT
1 CAAGA-TTCAGCA--TGGCAT-CCTATGCTTATAGGGAACAAGTT
2142581 GAAAACATCA
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
41 5 0.07
42 16 0.22
43 25 0.34
44 25 0.34
45 2 0.03
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (41 bp):
CAAGATTCAGCATGGCATCCTATGCTTATAGGGAACAAGTT
Found at i:2142570 original size:44 final size:44
Alignment explanation
Indices: 2142465--2142923 Score: 345
Period size: 44 Copynumber: 10.6 Consensus size: 44
2142455 AGATTCAGCA
* * ** *
2142465 TGGCAT-CCTGTGCTTATAGGGAACAAGTTCAAGATTTTAGCA--
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAG-ATT
* * *
2142507 TGGCATCCTTATGCTTATAGGGAACAAGTTGAAAACATCACATT
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
*
2142551 TGGCATCCCTGTGCTTATAGAGAACAAGTTGAAAACATCAGATT
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
* ** * * * *
2142595 TGGCATCCCTGTGCTTATA-GGAAC-GGACGAAGATAGCAGATC
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
* * * * * ** *
2142637 TGACATTCCTGTGCTTACAGTGAAGCACA--TCAAAGATTTCACA--
1 TGGCATCCCTGTGCTTATAGGGAA-CA-AGTTGAAA-ACATCAGATT
2142680 TGGCAT-CCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
*
2142723 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAACAGATT
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
* * * * * * *
2142767 TGTCATCCTTGTGCTTATAGGGAAC-GGATCGAAGATAGT-AGATC
1 TGGCATCCCTGTGCTTATAGGGAACAAG-TTGAAAACA-TCAGATT
* * * * ** * * **
2142811 TGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTCAGCA--
1 TGGCATCCCTGTGCTTATAGGGAACAAG-TTGAAAACATCAG-ATT
*
2142855 TGACATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGT-AGATT
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACA-TCAGATT
2142899 TGGCATCCCTGTGCTTATAGGGAAC
1 TGGCATCCCTGTGCTTATAGGGAAC
2142924 GGATCGAAGA
Statistics
Matches: 331, Mismatches: 65, Indels: 40
0.76 0.15 0.09
Matches are distributed among these distances:
40 1 0.00
41 7 0.02
42 54 0.16
43 52 0.16
44 199 0.60
45 17 0.05
46 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.28
Consensus pattern (44 bp):
TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
Found at i:2142726 original size:172 final size:175
Alignment explanation
Indices: 2142495--2142923 Score: 695
Period size: 172 Copynumber: 2.5 Consensus size: 175
2142485 GAACAAGTTC
* * *
2142495 AAGATTTTAGCATGGCATCCTTATGCTTATAGGGAACAAGTTGAAAACATCACATTTGGCATCCC
1 AAGATTTCAGCATGGCATCC-TGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCC
* *
2142560 TGTGCTTATAGAGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATA-GGAACGGA-C
65 TGTGCTTATAGGGAACAAGTTGAAAACAACAGATTTGGCATCCCTGTGCTTATAGGGAACGGATC
2142623 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCACATCA
130 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCACATCA
2142669 AAGATTTCA-CATGGCATCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCT
1 AAGATTTCAGCATGGCATCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCT
* *
2142733 GTGCTTATAGGGAACAAGTTGAAAACAACAGATTTGTCATCCTTGTGCTTATAGGGAACGGATCG
66 GTGCTTATAGGGAACAAGTTGAAAACAACAGATTTGGCATCCCTGTGCTTATAGGGAACGGATCG
* * * *
2142798 AAGATAGTAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATCG
131 AAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCACATCA
*
2142843 AAGATTTCAGCATGACATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGT-AGATTTGGCATCC
1 AAGATTTCAGCATGGCAT-CCTGTGCTTATAGGGAACAAGTTGAAAACA-TCAGATTTGGCATCC
2142907 CTGTGCTTATAGGGAAC
64 CTGTGCTTATAGGGAAC
2142924 GGATCGAAGA
Statistics
Matches: 238, Mismatches: 12, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
172 92 0.39
173 18 0.08
174 60 0.25
175 7 0.03
176 60 0.25
177 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (175 bp):
AAGATTTCAGCATGGCATCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCT
GTGCTTATAGGGAACAAGTTGAAAACAACAGATTTGGCATCCCTGTGCTTATAGGGAACGGATCG
AAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCACATCA
Found at i:2142872 original size:132 final size:132
Alignment explanation
Indices: 2142726--2142979 Score: 436
Period size: 132 Copynumber: 1.9 Consensus size: 132
2142716 TCAGATTTGG
* *
2142726 CATCCCTGTGCTTATAGGGAACAAGTTGAAAACAACAGATTTGTCATCCTTGTGCTTATAGGGAA
1 CATCCCTGTGCTTATAGGGAACAAGTTGAAAACAACAGATTTGGCATCCCTGTGCTTATAGGGAA
* * * *
2142791 CGGATCGAAGATAGTAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTCAGCAT
66 CGGATCGAAGATAGCAAATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCAT
2142856 GA
131 GA
**
2142858 CATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGTAGATTTGGCATCCCTGTGCTTATAGGGAA
1 CATCCCTGTGCTTATAGGGAACAAGTTGAAAACAACAGATTTGGCATCCCTGTGCTTATAGGGAA
2142923 CGGATCGAAGATAGCAAATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGAT
66 CGGATCGAAGATAGCAAATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGAT
2142980 AGCGGATATC
Statistics
Matches: 114, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 114 1.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (132 bp):
CATCCCTGTGCTTATAGGGAACAAGTTGAAAACAACAGATTTGGCATCCCTGTGCTTATAGGGAA
CGGATCGAAGATAGCAAATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCAT
GA
Found at i:2142954 original size:44 final size:44
Alignment explanation
Indices: 2142602--2142982 Score: 210
Period size: 44 Copynumber: 8.7 Consensus size: 44
2142592 ATTTGGCATC
2142602 CCTGTGCTTATA-GGAACGGA-CGAAGATAGCAGATCTGACATT
1 CCTGTGCTTATAGGGAACGGATCGAAGATAGCAGATCTGACATT
* * ** * ** * *
2142644 CCTGTGCTTACAGTGAAGCACATCAAAGATTTCACA--TGGCA-T
1 CCTGTGCTTATAGGGAA-CGGATCGAAGATAGCAGATCTGACATT
* * * * * * * *
2142686 CCTGTGCTTATAGGGAAC-AAGTTGAAAACATCAGATTTGGCATC
1 CCTGTGCTTATAGGGAACGGA-TCGAAGATAGCAGATCTGACATT
* * * * * * *
2142730 CCTGTGCTTATAGGGAAC-AAGTTGAAAACAACAGATTTGTCA-T
1 CCTGTGCTTATAGGGAACGGA-TCGAAGATAGCAGATCTGACATT
*
2142773 CCTTGTGCTTATAGGGAACGGATCGAAGATAGTAGATCTGACATT
1 CC-TGTGCTTATAGGGAACGGATCGAAGATAGCAGATCTGACATT
* * ** *
2142818 CCTGTGCTTACAGTGAA-GTAGATCGAAGATTTCAG--CATGACATC
1 CCTGTGCTTATAGGGAACG--GATCGAAGATAGCAGATC-TGACATT
* * * * * * * *
2142862 CCTGTGCTTATAGGGAAC-AAGTTGAAAACAGTAGATTTGGCATC
1 CCTGTGCTTATAGGGAACGGA-TCGAAGATAGCAGATCTGACATT
*
2142906 CCTGTGCTTATAGGGAACGGATCGAAGATAGCAAATCTGACATT
1 CCTGTGCTTATAGGGAACGGATCGAAGATAGCAGATCTGACATT
* * * *
2142950 CCTGTGCTTACAGTGAAGCAGATCAAAGATAGC
1 CCTGTGCTTATAGGGAA-CGGATCGAAGATAGC
2142983 GGATATCGCC
Statistics
Matches: 260, Mismatches: 60, Indels: 35
0.73 0.17 0.10
Matches are distributed among these distances:
40 1 0.00
41 9 0.03
42 28 0.11
43 23 0.09
44 160 0.62
45 39 0.15
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (44 bp):
CCTGTGCTTATAGGGAACGGATCGAAGATAGCAGATCTGACATT
Found at i:2143306 original size:22 final size:22
Alignment explanation
Indices: 2143266--2143307 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
2143256 TGGCCACCCA
*
2143266 CCTTGGCCACCAACTCCACCAC
1 CCTTGGCCACCAACACCACCAC
2143288 CCTTGGCCACCTAA-ACCACC
1 CCTTGGCCACC-AACACCACC
2143308 CTAACCACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.24, C:0.52, G:0.10, T:0.14
Consensus pattern (22 bp):
CCTTGGCCACCAACACCACCAC
Found at i:2143433 original size:22 final size:22
Alignment explanation
Indices: 2143373--2143484 Score: 90
Period size: 22 Copynumber: 5.0 Consensus size: 22
2143363 AGGGGGTGGG
*
2143373 TTTTTGGTTTTTTGGAGAAGGAT
1 TTTTTTGTTTTTTGGAGAAGG-T
*
2143396 TGTTCTTTG--TTTTGGAGGAGGT
1 T-TT-TTTGTTTTTTGGAGAAGGT
2143418 TTTTTTGTTTTTTGGAG--GTGT
1 TTTTTTGTTTTTTGGAGAAG-GT
2143439 TTTTTTGTTTTTTTGGAAAGAAGGT
1 TTTTTTG-TTTTTTGG--AGAAGGT
*
2143464 TATTTTTGTTTCTTGGA-AAGG
1 T-TTTTTGTTTTTTGGAGAAGG
2143485 CTAGTTTTTG
Statistics
Matches: 75, Mismatches: 3, Indels: 23
0.74 0.03 0.23
Matches are distributed among these distances:
20 5 0.07
21 11 0.15
22 22 0.29
23 13 0.17
24 4 0.05
25 13 0.17
26 7 0.09
ACGTcount: A:0.14, C:0.02, G:0.29, T:0.55
Consensus pattern (22 bp):
TTTTTTGTTTTTTGGAGAAGGT
Found at i:2143436 original size:19 final size:21
Alignment explanation
Indices: 2143405--2143451 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
2143395 TTGTTCTTTG
*
2143405 TTTTGGAGGAGGTTTTTTTGTT
1 TTTTGGAGG-TGTTTTTTTGTT
2143427 TTTTGGAGGTGTTTTTTTGTT
1 TTTTGGAGGTGTTTTTTTGTT
2143448 TTTT
1 TTTT
2143452 TGGAAAGAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 15 0.62
22 9 0.38
ACGTcount: A:0.06, C:0.00, G:0.28, T:0.66
Consensus pattern (21 bp):
TTTTGGAGGTGTTTTTTTGTT
Found at i:2143450 original size:20 final size:21
Alignment explanation
Indices: 2143381--2143450 Score: 72
Period size: 21 Copynumber: 3.2 Consensus size: 21
2143371 GGTTTTTGGT
*
2143381 TTTTTGGAGAAGGATTGTTCTTTG
1 TTTTTGGAGGAGG-TT-TT-TTTG
2143405 -TTTTGGAGGAGGTTTTTTTG
1 TTTTTGGAGGAGGTTTTTTTG
*
2143425 TTTTTTGGAGG-TGTTTTTTTG
1 -TTTTTGGAGGAGGTTTTTTTG
2143446 TTTTT
1 TTTTT
2143451 TTGGAAAGAA
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
20 9 0.21
21 11 0.26
22 11 0.26
23 11 0.26
ACGTcount: A:0.10, C:0.01, G:0.29, T:0.60
Consensus pattern (21 bp):
TTTTTGGAGGAGGTTTTTTTG
Found at i:2143805 original size:3 final size:3
Alignment explanation
Indices: 2143791--2143873 Score: 59
Period size: 3 Copynumber: 27.3 Consensus size: 3
2143781 GAGCTTTGTT
* *
2143791 TTA TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
2143834 TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA TTA -TA TTA T
1 T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T
2143874 ATATACCCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
2 7 0.11
3 49 0.75
4 7 0.11
5 2 0.03
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:2143860 original size:12 final size:12
Alignment explanation
Indices: 2143794--2143873 Score: 76
Period size: 12 Copynumber: 6.8 Consensus size: 12
2143784 CTTTGTTTTA
*
2143794 TTATTTTATTAT
1 TTATATTATTAT
* *
2143806 TTTTACTATTAT
1 TTATATTATTAT
2143818 TTATATTATTA-
1 TTATATTATTAT
* *
2143829 TTAT-TTCTCAT
1 TTATATTATTAT
2143840 GTATATATTATTAT
1 -T-TATATTATTAT
2143854 TTATATTATTA-
1 TTATATTATTAT
2143865 TTATATTAT
1 TTATATTAT
2143874 ATATACCCTC
Statistics
Matches: 55, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
10 4 0.07
11 13 0.24
12 29 0.53
13 4 0.07
14 5 0.09
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (12 bp):
TTATATTATTAT
Found at i:2145659 original size:23 final size:23
Alignment explanation
Indices: 2145633--2145683 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
2145623 TCCTATCTAT
* *
2145633 TTTTTCTTTTTTTAATTT-TTTAA
1 TTTTTCCTTATTT-ATTTATTTAA
*
2145656 TTTTTCCTTATTTATTTATTTTA
1 TTTTTCCTTATTTATTTATTTAA
2145679 TTTTT
1 TTTTT
2145684 AGGGACAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 4 0.17
23 20 0.83
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTTTCCTTATTTATTTATTTAA
Found at i:2145683 original size:38 final size:40
Alignment explanation
Indices: 2145597--2145684 Score: 105
Period size: 38 Copynumber: 2.3 Consensus size: 40
2145587 TTCTTTCTTC
2145597 TTCT-TTTTTATATTTTTTAAGTTTTATCCTATCTATTTT
1 TTCTATTTTTATATTTTTTAAGTTTTATCCTATCTATTTT
* *
2145636 TTCTTTTTTTA-ATTTTTTAA-TTTT-TCCTTATTTATTTAT
1 TTCTATTTTTATATTTTTTAAGTTTTATCC-TATCTATTT-T
2145675 TT-TATTTTTA
1 TTCTATTTTTA
2145685 GGGACAAAAC
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
37 3 0.07
38 19 0.43
39 16 0.36
40 6 0.14
ACGTcount: A:0.18, C:0.08, G:0.01, T:0.73
Consensus pattern (40 bp):
TTCTATTTTTATATTTTTTAAGTTTTATCCTATCTATTTT
Found at i:2151922 original size:36 final size:36
Alignment explanation
Indices: 2151860--2151930 Score: 83
Period size: 36 Copynumber: 2.0 Consensus size: 36
2151850 CCCCTAAAAT
* * *
2151860 GTAAAATTGCATTTTAG-GCCCTTTAAATTAGTAAAG
1 GTAAAATTGCATTTGAGCCCCCTTAAAATTA-TAAAG
2151896 GTAAAATTGCACTTTGA-CCCCCTTAAAATTATAAA
1 GTAAAATTGCA-TTTGAGCCCCCTTAAAATTATAAA
2151931 AATTTGATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
36 15 0.50
37 15 0.50
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (36 bp):
GTAAAATTGCATTTGAGCCCCCTTAAAATTATAAAG
Found at i:2153025 original size:21 final size:22
Alignment explanation
Indices: 2153001--2153045 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
2152991 TCATGGATAC
*
2153001 TTAAAT-AAAATTTTTGAATAG
1 TTAAATGAAAATTTTCGAATAG
*
2153022 TTAAATGAGAATTTTCGAATAG
1 TTAAATGAAAATTTTCGAATAG
2153044 TT
1 TT
2153046 CAAAAATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.42, C:0.02, G:0.13, T:0.42
Consensus pattern (22 bp):
TTAAATGAAAATTTTCGAATAG
Found at i:2153885 original size:13 final size:13
Alignment explanation
Indices: 2153867--2153892 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2153857 GTCGAATCAA
2153867 ATATTATATATAT
1 ATATTATATATAT
2153880 ATATTATATATAT
1 ATATTATATATAT
2153893 GTTTAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATATTATATATAT
Found at i:2156088 original size:15 final size:16
Alignment explanation
Indices: 2156047--2156088 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
2156037 TAATAAATGA
2156047 AAAAATATATAATTATT
1 AAAAATATA-AATTATT
*
2156064 AAATAT-TAAATT-TT
1 AAAAATATAAATTATT
2156078 AAAAATATAAA
1 AAAAATATAAA
2156089 CATTTTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 7 0.32
15 8 0.36
16 2 0.09
17 5 0.23
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAAAATATAAATTATT
Found at i:2156099 original size:17 final size:16
Alignment explanation
Indices: 2156047--2156104 Score: 50
Period size: 15 Copynumber: 3.6 Consensus size: 16
2156037 TAATAAATGA
*
2156047 AAAAATATATAATTATT
1 AAAAATATAAAATT-TT
*
2156064 --AAATATTAAATTTT
1 AAAAATATAAAATTTT
2156078 AAAAATATAAACATTTTT
1 AAAAATATAAA-A-TTTT
2156096 AAAAA-ATAA
1 AAAAATATAA
2156105 TATGGGATGG
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
14 2 0.06
15 10 0.29
16 8 0.24
17 5 0.15
18 9 0.26
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (16 bp):
AAAAATATAAAATTTT
Found at i:2157824 original size:55 final size:54
Alignment explanation
Indices: 2157696--2157827 Score: 183
Period size: 54 Copynumber: 2.4 Consensus size: 54
2157686 AATATGCTTG
* * ** *
2157696 AGATTTAATTCTTATACTTTAATTTCAATTTTAGTCTTAATATGCTTAAATTTA
1 AGATTTAATCCTTATACTTTAATTTCAATTTTAGCCACAATAAGCTTAAATTTA
* * *
2157750 ATATTTAATCTTTATACTTTAATTTCAATTTTAGCCACAATAAGCTTTATATTTA
1 AGATTTAATCCTTATACTTTAATTTCAATTTTAGCCACAATAAGC-TTAAATTTA
2157805 AGATTTAATCCTTATACTTTAAT
1 AGATTTAATCCTTATACTTTAAT
2157828 CTTTTAACAT
Statistics
Matches: 67, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
54 38 0.57
55 29 0.43
ACGTcount: A:0.34, C:0.11, G:0.05, T:0.50
Consensus pattern (54 bp):
AGATTTAATCCTTATACTTTAATTTCAATTTTAGCCACAATAAGCTTAAATTTA
Found at i:2159537 original size:26 final size:26
Alignment explanation
Indices: 2159491--2159543 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
2159481 TCAAACATGA
*
2159491 ATTTAGGTCAATTTAACCCTATGGGT
1 ATTTAGGTCAATTTAACCCTAAGGGT
* *
2159517 ATTTCGGT-AATTTATCTCCTAAGGGT
1 ATTTAGGTCAATTTAAC-CCTAAGGGT
2159543 A
1 A
2159544 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAAGGGT
Found at i:2161034 original size:26 final size:26
Alignment explanation
Indices: 2161004--2161059 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
2160994 TGAAATTCCC
2161004 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
2161030 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
2161056 ATCA
1 ATCA
2161060 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:2166222 original size:66 final size:66
Alignment explanation
Indices: 2166116--2166246 Score: 226
Period size: 66 Copynumber: 2.0 Consensus size: 66
2166106 CAAAAGGTTT
* *
2166116 TGGTAGTGTTGGCATTGGCATTAATAAAAGTTTGAGCTTACTATGAGTATAATTTGAACCCAAAT
1 TGGTAGTGTTGGCATTGGCATTAATAAAAATTTGAGCTTACTATGAATATAATTTGAACCCAAAT
2166181 G
66 G
* *
2166182 TGGTAGTGTTGGCATTGGCATTAATAAAAATTTGAGCTTACTATGAATCTAATTTGAACTCAAAT
1 TGGTAGTGTTGGCATTGGCATTAATAAAAATTTGAGCTTACTATGAATATAATTTGAACCCAAAT
2166247 CATATTTGAG
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.36
Consensus pattern (66 bp):
TGGTAGTGTTGGCATTGGCATTAATAAAAATTTGAGCTTACTATGAATATAATTTGAACCCAAAT
G
Found at i:2166493 original size:16 final size:16
Alignment explanation
Indices: 2166466--2166499 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
2166456 ATTTTAGTAA
2166466 ATTATATAAGAATATTT
1 ATTATATAAGAAT-TTT
2166483 ATTAT-TAAGAATTTT
1 ATTATATAAGAATTTT
2166498 AT
1 AT
2166500 GAAATTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 7 0.41
17 5 0.29
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (16 bp):
ATTATATAAGAATTTT
Found at i:2166528 original size:47 final size:47
Alignment explanation
Indices: 2166477--2166621 Score: 158
Period size: 47 Copynumber: 3.1 Consensus size: 47
2166467 TTATATAAGA
*
2166477 ATATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATT
1 ATATTTATTATTAAGAATTTTATGAAATTATATATAATTATTAAATT
* **
2166524 ATATTTAATATTAATTA-TTT-T-AAATTATATA-AATTCATATAAGA--
1 ATATTTATTATTAAGAATTTTATGAAATTATATATAATT-AT-TAA-ATT
* * *
2166568 AAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATT
1 ATATTTATTATTAAGAATTTTATGAAATTATATATAATTATTAAATT
2166615 ATATTTA
1 ATATTTA
2166622 ATTAAAATAT
Statistics
Matches: 78, Mismatches: 11, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
43 3 0.04
44 24 0.31
45 8 0.10
46 8 0.10
47 32 0.41
48 3 0.04
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (47 bp):
ATATTTATTATTAAGAATTTTATGAAATTATATATAATTATTAAATT
Found at i:2166588 original size:44 final size:43
Alignment explanation
Indices: 2166463--2166589 Score: 123
Period size: 44 Copynumber: 2.8 Consensus size: 43
2166453 ATGATTTTAG
2166463 TAAATTATATAAGAATATTTATTATTAAGAATTTTATGAAATTATA
1 TAAATTATATAAGAATATTTATTATTAAGAA-TTT-T-AAATTATA
* * **
2166509 TATCATTAT-TAA-ATTATATTTAATATTAATTATTTTAAATTATA
1 TA-AATTATATAAGA--ATATTTATTATTAAGAATTTTAAATTATA
* *
2166553 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTA
1 TAAATT-ATATAAGAATATTTATTATTAAGAATTTTA
2166590 TGAAATTATA
Statistics
Matches: 65, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
43 3 0.05
44 29 0.45
45 5 0.08
46 9 0.14
47 19 0.29
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.47
Consensus pattern (43 bp):
TAAATTATATAAGAATATTTATTATTAAGAATTTTAAATTATA
Found at i:2166884 original size:120 final size:120
Alignment explanation
Indices: 2166686--2167186 Score: 943
Period size: 120 Copynumber: 4.2 Consensus size: 120
2166676 TTTTCAAGTT
*
2166686 ATATATTTAATAATAATTATGTTAATTTATATTTT--AGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
* *
2166749 TAATATAAGAGTATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
2166804 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
*
2166869 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
2166924 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
2166989 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
2167044 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
*
2167109 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATAAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
2167164 ATATATTTAATAATAATTATGTT
1 ATATATTTAATAATAATTATGTT
2167187 TAAATATGAT
Statistics
Matches: 375, Mismatches: 6, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
118 35 0.09
120 340 0.91
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (120 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
Found at i:2167043 original size:18 final size:17
Alignment explanation
Indices: 2167015--2167049 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
2167005 ATTATTAAGA
*
2167015 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
2167032 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
2167050 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:2167169 original size:16 final size:16
Alignment explanation
Indices: 2167148--2167189 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
2167138 TTATTAAATT
2167148 ATATATTTTAATAAAA
1 ATATATTTTAATAAAA
*
2167164 ATATA-TTTAATAATA
1 ATATATTTTAATAAAA
2167179 AT-TATGTTTAA
1 ATATAT-TTTAA
2167190 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (16 bp):
ATATATTTTAATAAAA
Found at i:2167399 original size:44 final size:45
Alignment explanation
Indices: 2167334--2167424 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
2167324 ACCTCTATTC
* * *
2167334 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
2167378 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
2167423 CA
1 CA
2167425 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:2167426 original size:16 final size:16
Alignment explanation
Indices: 2167405--2167473 Score: 111
Period size: 16 Copynumber: 4.2 Consensus size: 16
2167395 GATTAGCTAT
2167405 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
2167421 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
2167438 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
* *
2167454 TATATCTCTAATCCAA
1 TACACCTCTAATCCAA
2167470 TACA
1 TACA
2167474 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
16 33 0.67
17 16 0.33
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:2167447 original size:33 final size:32
Alignment explanation
Indices: 2167405--2167473 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 32
2167395 GATTAGCTAT
2167405 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
* *
2167438 TACACCTCTAATCCAATATATCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
2167470 TACA
1 TACA
2167474 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 8 0.24
33 26 0.76
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.28
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:2168123 original size:17 final size:18
Alignment explanation
Indices: 2168101--2168135 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
2168091 ACTCTATGCT
2168101 ATTTTTTAAAT-TTTTTA
1 ATTTTTTAAATATTTTTA
*
2168118 ATTTTTTGAATATTTTTA
1 ATTTTTTAAATATTTTTA
2168136 TAAGCTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (18 bp):
ATTTTTTAAATATTTTTA
Found at i:2172631 original size:21 final size:21
Alignment explanation
Indices: 2172607--2172652 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
2172597 TAAACATGTG
2172607 ATAGGGTTCCAACACAAATCT
1 ATAGGGTTCCAACACAAATCT
*
2172628 ATAGGGTTCCAACCCAAATCT
1 ATAGGGTTCCAACACAAATCT
2172649 ATAG
1 ATAG
2172653 TTTTTAACAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.24
Consensus pattern (21 bp):
ATAGGGTTCCAACACAAATCT
Found at i:2179225 original size:16 final size:17
Alignment explanation
Indices: 2179204--2179236 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
2179194 AATATTAATA
2179204 AAAAATA-TTTAATTAT
1 AAAAATATTTTAATTAT
2179220 AAAAATATTTTAATTAT
1 AAAAATATTTTAATTAT
2179237 TATTAAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AAAAATATTTTAATTAT
Found at i:2183894 original size:5 final size:6
Alignment explanation
Indices: 2183865--2183900 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
2183855 GTTCTTAAAT
*
2183865 TAAAACA TAAAAG TAAAAA TAAAAA TAAAAA TAAAA
1 TAAAA-A TAAAAA TAAAAA TAAAAA TAAAAA TAAAA
2183901 GAGCCCTTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
6 22 0.81
7 5 0.19
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.17
Consensus pattern (6 bp):
TAAAAA
Found at i:2184799 original size:29 final size:29
Alignment explanation
Indices: 2184766--2184833 Score: 127
Period size: 29 Copynumber: 2.3 Consensus size: 29
2184756 GATTCTTTTT
2184766 GAAAGATTAATGACTAAATTTAATTTTAA
1 GAAAGATTAATGACTAAATTTAATTTTAA
2184795 GAAAGATTAATGACTAAATTTAATTTTAA
1 GAAAGATTAATGACTAAATTTAATTTTAA
*
2184824 AAAAGATTAA
1 GAAAGATTAA
2184834 ATTAATTAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.51, C:0.03, G:0.10, T:0.35
Consensus pattern (29 bp):
GAAAGATTAATGACTAAATTTAATTTTAA
Found at i:2190931 original size:18 final size:19
Alignment explanation
Indices: 2190891--2190936 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
2190881 CATTAATTAT
2190891 ATTTTAAATATGTATTTAG
1 ATTTTAAATATGTATTTAG
2190910 ATTTT-AATAGTGTATTTA-
1 ATTTTAAATA-TGTATTTAG
2190928 ATTTATAAA
1 ATTT-TAAA
2190937 AAAAATTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 8 0.33
19 14 0.58
20 2 0.08
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (19 bp):
ATTTTAAATATGTATTTAG
Found at i:2191687 original size:31 final size:30
Alignment explanation
Indices: 2191592--2191690 Score: 76
Period size: 31 Copynumber: 3.2 Consensus size: 30
2191582 AACTCATGTG
* ** *
2191592 CCAAAGTGAACATTAAACCTAAACATAGATA
1 CCAAATTGAACATTAAAAATAAA-TTAGATA
* *
2191623 TCAAATTAGAACA-AAAAAATAAATTTA-AGTA
1 CCAAATT-GAACATTAAAAATAAA-TTAGA-TA
*
2191654 CCAAATTGAACATTAAAATTAAATTCAGATA
1 CCAAATTGAACATTAAAAATAAATT-AGATA
2191685 CCAAAT
1 CCAAAT
2191691 AATATATTAA
Statistics
Matches: 53, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
30 8 0.15
31 39 0.74
32 6 0.11
ACGTcount: A:0.55, C:0.14, G:0.07, T:0.24
Consensus pattern (30 bp):
CCAAATTGAACATTAAAAATAAATTAGATA
Found at i:2192892 original size:19 final size:18
Alignment explanation
Indices: 2192849--2192906 Score: 53
Period size: 19 Copynumber: 3.1 Consensus size: 18
2192839 CGAATTTTAG
*
2192849 TTAATTATGATTAAGGTTAA
1 TTAATTAAGATTAA--TTAA
*
2192869 GTAATTAAGATTCAATTAA
1 TTAATTAAGATT-AATTAA
**
2192888 TTAATTTTGATTAATTAA
1 TTAATTAAGATTAATTAA
2192906 T
1 T
2192907 ATTTAAACTA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
18 7 0.22
19 13 0.41
20 10 0.31
21 2 0.06
ACGTcount: A:0.41, C:0.02, G:0.10, T:0.47
Consensus pattern (18 bp):
TTAATTAAGATTAATTAA
Found at i:2192965 original size:3 final size:3
Alignment explanation
Indices: 2192957--2192992 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
2192947 ATCTTTATTT
* *
2192957 TTC TTC TTC TTC TTT TTC TTC TTT TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
2192993 ATTGAAGTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (3 bp):
TTC
Found at i:2192974 original size:15 final size:15
Alignment explanation
Indices: 2192954--2192992 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
2192944 GTCATCTTTA
2192954 TTTTTCTTCTTCTTC
1 TTTTTCTTCTTCTTC
*
2192969 TTTTTCTTCTTTTTC
1 TTTTTCTTCTTCTTC
*
2192984 TTCTTCTTC
1 TTTTTCTTC
2192993 ATTGAAGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTTCTTCTTCTTC
Found at i:2196154 original size:127 final size:126
Alignment explanation
Indices: 2195920--2196243 Score: 488
Period size: 127 Copynumber: 2.5 Consensus size: 126
2195910 GAAAATTCCT
** * *
2195920 TAAAACGAAGGCAATGTTTGATGTTTGGAAATTCGAGGAATTGTGCCCTATCGTGCTGGGTTTCA
1 TAAAACG-AGGCAATGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTCG
* *
2195985 ATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCGTGTTTT-TCAAATTC
65 ATTT-TCGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCGTATTTTAT-AAATTC
* *
2196048 TAAAACGAGGCAATGTTCAACGTTTGGAAACTCGAGGAATCGTGCCCTATCGTGCTGGGTTTCGA
1 TAAAACGAGGCAATGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTCGA
*
2196113 TTTTCGATTTGTTCAAAATAATTGAATATTCCTTTAGAATTTCACTCGTATTTTATAAATTC
66 TTTTCG-TTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCGTATTTTATAAATTC
* * * *
2196175 TAAAGCAATGCAATGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTACCGTGCTGGGTTTCGA
1 TAAAACGAGGCAATGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTCGA
2196240 TTTT
66 TTTT
2196244 TTGTTGGACT
Statistics
Matches: 179, Mismatches: 15, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
126 2 0.01
127 169 0.94
128 8 0.04
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.37
Consensus pattern (126 bp):
TAAAACGAGGCAATGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTCGA
TTTTCGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCGTATTTTATAAATTC
Found at i:2203800 original size:21 final size:21
Alignment explanation
Indices: 2203775--2203843 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
2203765 TATAATGATT
2203775 ATTATTATGGTTTTATATTAA
1 ATTATTATGGTTTTATATTAA
**
2203796 ATTATTATAATTATTA-ATT-A
1 ATTATTATGGTT-TTATATTAA
* *
2203816 A-CATTATGGTTTTATATTAG
1 ATTATTATGGTTTTATATTAA
2203836 ATTATTAT
1 ATTATTAT
2203844 TATTAGCATT
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
18 3 0.08
19 10 0.27
20 3 0.08
21 18 0.49
22 3 0.08
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.55
Consensus pattern (21 bp):
ATTATTATGGTTTTATATTAA
Found at i:2203856 original size:15 final size:14
Alignment explanation
Indices: 2203830--2203860 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
2203820 TATGGTTTTA
2203830 TATTAGATTATTAT
1 TATTAGATTATTAT
2203844 TATTAGCATTATTAT
1 TATTAG-ATTATTAT
2203859 TA
1 TA
2203861 AATAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.55
Consensus pattern (14 bp):
TATTAGATTATTAT
Found at i:2210094 original size:24 final size:22
Alignment explanation
Indices: 2210063--2210113 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 22
2210053 ATTTTAAATG
*
2210063 TTTAATTACTTTTAGATTAATTAA
1 TTTAATTAATTTTAG-TT-ATTAA
*
2210087 TTTAATTAATTTTAGTTTTTAA
1 TTTAATTAATTTTAGTTATTAA
2210109 TTTAA
1 TTTAA
2210114 CATAATGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 9 0.36
23 2 0.08
24 14 0.56
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (22 bp):
TTTAATTAATTTTAGTTATTAA
Found at i:2226475 original size:9 final size:9
Alignment explanation
Indices: 2226456--2226504 Score: 55
Period size: 9 Copynumber: 5.4 Consensus size: 9
2226446 AATACAACCC
*
2226456 AAAATAAAA
1 AAAAGAAAA
2226465 AAGAA-AAAA
1 AA-AAGAAAA
2226474 AAAAGAAAA
1 AAAAGAAAA
* *
2226483 AAATGAAGA
1 AAAAGAAAA
2226492 AAAAGAAAA
1 AAAAGAAAA
2226501 AAAA
1 AAAA
2226505 CATAACCTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
8 2 0.06
9 30 0.88
10 2 0.06
ACGTcount: A:0.86, C:0.00, G:0.10, T:0.04
Consensus pattern (9 bp):
AAAAGAAAA
Found at i:2226483 original size:12 final size:12
Alignment explanation
Indices: 2226456--2226502 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
2226446 AATACAACCC
*
2226456 AAAATAAAAAAG
1 AAAAAAAAAAAG
2226468 -AAAAAAAAAAG
1 AAAAAAAAAAAG
**
2226479 AAAAAAATGAAG
1 AAAAAAAAAAAG
2226491 AAAAAGAAAAAA
1 AAAAA-AAAAAA
2226503 AACATAACCT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
11 10 0.36
12 14 0.50
13 4 0.14
ACGTcount: A:0.85, C:0.00, G:0.11, T:0.04
Consensus pattern (12 bp):
AAAAAAAAAAAG
Done.