Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr10
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: 21822658
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.32
Warning! 1067834 characters in sequence are not A, C, G, or T
File 51 of 59
Found at i:18473680 original size:17 final size:16
Alignment explanation
Indices: 18473658--18473689 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
18473648 GGGCATAAAG
18473658 AAAAAAATAATAATAAC
1 AAAAAAATAA-AATAAC
18473675 AAAAAAATAAAATAA
1 AAAAAAATAAAATAA
18473690 AATAAAGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.16
Consensus pattern (16 bp):
AAAAAAATAAAATAAC
Found at i:18473740 original size:30 final size:29
Alignment explanation
Indices: 18473698--18473756 Score: 82
Period size: 32 Copynumber: 1.9 Consensus size: 29
18473688 AAAATAAAGT
*
18473698 ATATATATATATATATATAATAGGGTTTCNTA
1 ATATAAATATATATATAT-A-AGGGTTTC-TA
18473730 ATATAAATATATATATATAAGGGTTTC
1 ATATAAATATATATATATAAGGGTTTC
18473757 AAATGCATAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 8 0.31
31 1 0.04
32 17 0.65
ACGTcount: A:0.42, C:0.03, G:0.10, T:0.42
Consensus pattern (29 bp):
ATATAAATATATATATATAAGGGTTTCTA
Found at i:18487187 original size:216 final size:216
Alignment explanation
Indices: 18486813--18487254 Score: 679
Period size: 216 Copynumber: 2.0 Consensus size: 216
18486803 ATTTTAAATT
* * *
18486813 GAACCAGAGAAATTATTCCCAGCGAGTACGAGTACAGAGAGAGATTTAAGCATTCCAACTTCTTG
1 GAACCAGAGAAATTATTCCCAGCGAGTACAAGTACAGAAAGAGATTTAAGCATTCCAACTTCTCG
* * * *
18486878 AGGAATCGACCCAGATAACTTATTTTGACTAAGAACAAGCTTGGATAACTTGGTCAAGTTTCCTA
66 AGGAATCGAACCAGACAACATATTTTGACTAAGAACAAGATTGGATAACTTGGTCAAGTTTCCTA
* * * * * *
18486943 TGGAAGCAGGGATGACACCGGTAAGATAATTATCTGACCACTGCAATATGGA-CAGAGATTCAAG
131 TGGAAGCAGGGATGACACCAGTAAGATAATTACCTAACAACTGCAATA-CGATCAGAGATCCAAG
18487007 TTGTCCTATTTCACTCGGGATA
195 TTGTCCTATTTCACTCGGGATA
* * *
18487029 GAACCAGAGAAATTATTCTCAGCGAGTGCAAGTACAGAAAGAGATTTAAGCATTGCAACTTCTCG
1 GAACCAGAGAAATTATTCCCAGCGAGTACAAGTACAGAAAGAGATTTAAGCATTCCAACTTCTCG
* * *
18487094 AGGTATCGAACCAGACAACATATTTTGACTAAGAAGAAGATTGGATAATTTGGTCAAGTTTCCTA
66 AGGAATCGAACCAGACAACATATTTTGACTAAGAACAAGATTGGATAACTTGGTCAAGTTTCCTA
* *
18487159 TGGAAGGAGGGATGACGCCAGTAAGATAATTACCTAACAACTGCAATACGATCAGAGATCCAAGT
131 TGGAAGCAGGGATGACACCAGTAAGATAATTACCTAACAACTGCAATACGATCAGAGATCCAAGT
18487224 TGTCCTATTTCACTCGGGATA
196 TGTCCTATTTCACTCGGGATA
18487245 GAACCAGAGA
1 GAACCAGAGA
18487255 GCTTATTGTC
Statistics
Matches: 204, Mismatches: 21, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
215 2 0.01
216 202 0.99
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (216 bp):
GAACCAGAGAAATTATTCCCAGCGAGTACAAGTACAGAAAGAGATTTAAGCATTCCAACTTCTCG
AGGAATCGAACCAGACAACATATTTTGACTAAGAACAAGATTGGATAACTTGGTCAAGTTTCCTA
TGGAAGCAGGGATGACACCAGTAAGATAATTACCTAACAACTGCAATACGATCAGAGATCCAAGT
TGTCCTATTTCACTCGGGATA
Found at i:18489556 original size:32 final size:33
Alignment explanation
Indices: 18489478--18489557 Score: 99
Period size: 36 Copynumber: 2.4 Consensus size: 33
18489468 GTAATATCTT
* *
18489478 GAGTGGTTATACCTTAATCAAGTTAAAAGGCAATTT
1 GAGTGGTTATACCTTAATCAAATTAAAAGG--A-TA
*
18489514 TAGTGGTTATACCTTAATCAAATTAAAAGG-TA
1 GAGTGGTTATACCTTAATCAAATTAAAAGGATA
18489546 GAGTGGTTATAC
1 GAGTGGTTATAC
18489558 TTGATCCATA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
32 12 0.30
36 28 0.70
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.34
Consensus pattern (33 bp):
GAGTGGTTATACCTTAATCAAATTAAAAGGATA
Found at i:18489597 original size:36 final size:36
Alignment explanation
Indices: 18489550--18489618 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
18489540 AAGGTAGAGT
*
18489550 GGTTATACTTGATCCATAATATGCATTGTATTGTAA
1 GGTTATACTTGATCCATAAAATGCATTGTATTGTAA
*
18489586 GGTTATGCTTGATCCATAAAATGCATTGTATTG
1 GGTTATACTTGATCCATAAAATGCATTGTATTG
18489619 AATTTCATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.41
Consensus pattern (36 bp):
GGTTATACTTGATCCATAAAATGCATTGTATTGTAA
Found at i:18491036 original size:17 final size:17
Alignment explanation
Indices: 18491014--18491055 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
18491004 TATTTTTATC
18491014 ATTATTATTATTTAATT
1 ATTATTATTATTTAATT
*
18491031 ATTATT-TTATTTTATT
1 ATTATTATTATTTAATT
18491047 -TT-TTATTAT
1 ATTATTATTAT
18491056 CATATTTTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 6 0.26
16 9 0.39
17 6 0.26
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
ATTATTATTATTTAATT
Found at i:18491051 original size:24 final size:23
Alignment explanation
Indices: 18491018--18491096 Score: 70
Period size: 23 Copynumber: 3.4 Consensus size: 23
18491008 TTTATCATTA
*
18491018 TTATTATTTAATTATTATTTTATT
1 TTATT-TTTTATTATTATTTTATT
* *
18491042 TTATTTTTTATTATCATATT-TT
1 TTATTTTTTATTATTATTTTATT
* * * *
18491064 CTATTTTTTTATTCTTCTTATATT
1 TTA-TTTTTTATTATTATTTTATT
18491088 TTATTTTTT
1 TTATTTTTT
18491097 TATACTCTAA
Statistics
Matches: 43, Mismatches: 10, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
22 4 0.09
23 30 0.70
24 9 0.21
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (23 bp):
TTATTTTTTATTATTATTTTATT
Found at i:18491096 original size:26 final size:25
Alignment explanation
Indices: 18491033--18491097 Score: 67
Period size: 26 Copynumber: 2.6 Consensus size: 25
18491023 ATTTAATTAT
*
18491033 TATTTTATTTTATTTTTTATTATCA
1 TATTTTATTTTTTTTTTTATTATCA
* * * * *
18491058 TATTTTCTATTTTTTTATTCTTCTTA
1 TATTTTAT-TTTTTTTTTTATTATCA
18491084 TATTTTATTTTTTT
1 TATTTTATTTTTTT
18491098 ATACTCTAAG
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
25 13 0.41
26 19 0.59
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.75
Consensus pattern (25 bp):
TATTTTATTTTTTTTTTTATTATCA
Found at i:18491097 original size:24 final size:23
Alignment explanation
Indices: 18491009--18491099 Score: 75
Period size: 24 Copynumber: 4.0 Consensus size: 23
18490999 TTAACTATTT
**
18491009 TTATCAT-TATTATTATTTAATTA
1 TTATCATATATT-TTATTTTTTTA
*
18491032 TTAT--TTTATTTTA-TTTTTTA
1 TTATCATATATTTTATTTTTTTA
18491052 TTATCATAT-TTTCTATTTTTTTA
1 TTATCATATATTT-TATTTTTTTA
* *
18491075 TTCTTCTTATATTTTATTTTTTTA
1 TT-ATCATATATTTTATTTTTTTA
18491099 T
1 T
18491100 ACTCTAAGTT
Statistics
Matches: 56, Mismatches: 5, Indels: 13
0.76 0.07 0.18
Matches are distributed among these distances:
20 9 0.16
21 7 0.12
22 8 0.14
23 13 0.23
24 16 0.29
25 3 0.05
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.71
Consensus pattern (23 bp):
TTATCATATATTTTATTTTTTTA
Found at i:18491690 original size:2 final size:2
Alignment explanation
Indices: 18491683--18491708 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
18491673 TATTCACTAC
18491683 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
18491709 TTTAATGTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18493357 original size:2 final size:2
Alignment explanation
Indices: 18493350--18493386 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
18493340 GCATACATAT
18493350 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
18493387 TATATATATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:18493397 original size:8 final size:8
Alignment explanation
Indices: 18493387--18493425 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
18493377 CACACACACA
*
18493387 TATATATA
1 TATATATG
18493395 TATATATG
1 TATATATG
*
18493403 TATGTATG
1 TATATATG
*
18493411 TATGTATG
1 TATATATG
18493419 TATATAT
1 TATATAT
18493426 TTGCATTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.36, C:0.00, G:0.13, T:0.51
Consensus pattern (8 bp):
TATATATG
Found at i:18493401 original size:12 final size:12
Alignment explanation
Indices: 18493395--18493425 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
18493385 CATATATATA
18493395 TATATATGTATG
1 TATATATGTATG
*
18493407 TATGTATGTATG
1 TATATATGTATG
18493419 TATATAT
1 TATATAT
18493426 TTGCATTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (12 bp):
TATATATGTATG
Found at i:18493678 original size:131 final size:130
Alignment explanation
Indices: 18493486--18493881 Score: 557
Period size: 131 Copynumber: 3.0 Consensus size: 130
18493476 TTGTGGTATA
* * * * * *
18493486 TCTTGGGGTCCCTTTCCATGATGGCTGGCTCTGATTTCTCAGCCACTCATTTCTAACGTGTTTAC
1 TCTTAGGGTCCCTTTCCATGACGACTGACTCTGATTTCTCATCCACCCATTTCTAACGTGTTTAC
18493551 AGGGCTAATAAATTAATACCTGGATAGCTTGGAGCATACAGTAAAGAAAGGAAAAGACCAATGTA
66 -GGGCTAATAAATTAATACCTGGATAGCTTGGAGCATACAGTAAAGAAAGGAAAAGACCAATGTA
18493616 G
130 G
*
18493617 TCTTAGGGTCCCTTTCCATGACGACTGACTCTGATTTCTCATCCACCCATTTCTAATGTGTTTAC
1 TCTTAGGGTCCCTTTCCATGACGACTGACTCTGATTTCTCATCCACCCATTTCTAACGTGTTTAC
* *
18493682 GGGGCTAATAAATTAATACTTGGATAGCTTGGAGCATACAG-AGAAGAAAGGAAAAGACCACTGT
66 -GGGCTAATAAATTAATACCTGGATAGCTTGGAGCATACAGTA-AAGAAAGGAAAAGACCAATGT
18493746 AG
129 AG
* * * *
18493748 TCTTAGGGTCCCTTTCCATGACGATTAATTCTGATTTCTCATCCACCCATTTCTGACGTGTTTAC
1 TCTTAGGGTCCCTTTCCATGACGACTGACTCTGATTTCTCATCCACCCATTTCTAACGTGTTTAC
* * * *
18493813 GGGACTAATAAATTAATA-CTAGGATAACTTGGAGCATACGGTGAAGAATA-G-AAAGACCATTG
66 GGG-CTAATAAATTAATACCT-GGATAGCTTGGAGCATACAGTAAAGAA-AGGAAAAGACCAATG
18493875 TAG
128 TAG
18493878 TCTT
1 TCTT
18493882 GATCTTGAAG
Statistics
Matches: 240, Mismatches: 20, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
130 22 0.09
131 217 0.90
132 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.30
Consensus pattern (130 bp):
TCTTAGGGTCCCTTTCCATGACGACTGACTCTGATTTCTCATCCACCCATTTCTAACGTGTTTAC
GGGCTAATAAATTAATACCTGGATAGCTTGGAGCATACAGTAAAGAAAGGAAAAGACCAATGTAG
Found at i:18494889 original size:16 final size:18
Alignment explanation
Indices: 18494846--18494895 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 18
18494836 CATTTACACC
18494846 ATGT-ATATCTAGATTTGG
1 ATGTAATAT-TAGATTTGG
18494864 ATGTAA-ATTAGA-TTGG
1 ATGTAATATTAGATTTGG
18494880 ATG-AATATTAGGATTT
1 ATGTAATATTA-GATTT
18494896 AATCCATCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
15 2 0.07
16 11 0.39
17 6 0.21
18 8 0.29
19 1 0.04
ACGTcount: A:0.34, C:0.02, G:0.22, T:0.42
Consensus pattern (18 bp):
ATGTAATATTAGATTTGG
Found at i:18497871 original size:18 final size:18
Alignment explanation
Indices: 18497837--18497872 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
18497827 ATCTTCCTAC
* *
18497837 TTTCTCTAAATATTTTCT
1 TTTCTCTAAAAACTTTCT
18497855 TTTCTCTAAAAACTTTCT
1 TTTCTCTAAAAACTTTCT
18497873 GTTATATTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTCTCTAAAAACTTTCT
Found at i:18508001 original size:27 final size:26
Alignment explanation
Indices: 18507970--18508022 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 26
18507960 TTAATAAATT
*
18507970 ATACAAATAGAAAATAATAAAATAAC
1 ATACAAATAAAAAATAATAAAATAAC
18507996 NATACAAATAAAAAATAATAAAATAAC
1 -ATACAAATAAAAAATAATAAAATAAC
18508023 TCCATAAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.70, C:0.08, G:0.02, T:0.19
Consensus pattern (26 bp):
ATACAAATAAAAAATAATAAAATAAC
Found at i:18519233 original size:99 final size:99
Alignment explanation
Indices: 18519062--18519262 Score: 316
Period size: 99 Copynumber: 2.0 Consensus size: 99
18519052 TTGGTTCAGG
* *
18519062 TATGGTACCATCAATAAAACCAAATTTATTCCTGATGGATAGAGCCAATTGAAAGGATCGGCTCC
1 TATGGTACCATCAATAAAACCAAATTTATTCCTGATGGATAGAGCCAATTGAAAGGACCCGCTCC
*
18519127 AAGGAACATAATTGGTTGAAGTTAATTTT-AGATT
66 AAGGAACATAATTGGTTGAAGCTAATTTTGA-ATT
* * *
18519161 TATGGTACCATCGAT-AAACCTAGATTTATTCCTGATGGATAGAGCCAATTGAAATGACCCGCTC
1 TATGGTACCATCAATAAAACC-AAATTTATTCCTGATGGATAGAGCCAATTGAAAGGACCCGCTC
18519225 CAAGGAACATAATTGGTTGAAGCTAATTTTGAATT
65 CAAGGAACATAATTGGTTGAAGCTAATTTTGAATT
18519260 TAT
1 TAT
18519263 AAGAAGTGAG
Statistics
Matches: 94, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
98 5 0.05
99 88 0.94
100 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (99 bp):
TATGGTACCATCAATAAAACCAAATTTATTCCTGATGGATAGAGCCAATTGAAAGGACCCGCTCC
AAGGAACATAATTGGTTGAAGCTAATTTTGAATT
Found at i:18519553 original size:17 final size:17
Alignment explanation
Indices: 18519508--18519553 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
18519498 ATTATGCTAA
18519508 TTATCTAGGA-TAATGAC
1 TTATCTA-GATTAATGAC
18519525 TTATCCTA-ATTAATGAC
1 TTAT-CTAGATTAATGAC
18519542 TTATCTAGATTA
1 TTATCTAGATTA
18519554 TGTACAAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
16 4 0.15
17 19 0.73
18 3 0.12
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (17 bp):
TTATCTAGATTAATGAC
Found at i:18531084 original size:13 final size:14
Alignment explanation
Indices: 18531060--18531092 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
18531050 ATCCGTCTAA
*
18531060 TAATTATTTTTTAG
1 TAATTATTTTTTAC
18531074 TAATT-TTTTTTAC
1 TAATTATTTTTTAC
18531087 TAATTA
1 TAATTA
18531093 AGATTAGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (14 bp):
TAATTATTTTTTAC
Found at i:18533531 original size:12 final size:11
Alignment explanation
Indices: 18533501--18533550 Score: 55
Period size: 12 Copynumber: 4.3 Consensus size: 11
18533491 CTTCTAATTA
18533501 CTTCTTATTTTT
1 CTTCTT-TTTTT
*
18533513 GTTTCTTTTTTT
1 -CTTCTTTTTTT
18533525 CTCTCTTTTTTT
1 CT-TCTTTTTTT
*
18533537 CTTATTTTTTT
1 CTTCTTTTTTT
18533548 CTT
1 CTT
18533551 TTACACCCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
11 12 0.36
12 16 0.48
13 5 0.15
ACGTcount: A:0.04, C:0.16, G:0.02, T:0.78
Consensus pattern (11 bp):
CTTCTTTTTTT
Found at i:18533544 original size:11 final size:11
Alignment explanation
Indices: 18533502--18533550 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
18533492 TTCTAATTAC
18533502 TTCTTATTTTT
1 TTCTTATTTTT
* *
18533513 GT-TTCTTTTT
1 TTCTTATTTTT
*
18533523 TTCTCTCTTTTT
1 TTCT-TATTTTT
18533535 TTCTTATTTTT
1 TTCTTATTTTT
18533546 TTCTT
1 TTCTT
18533551 TTACACCCTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
10 8 0.25
11 13 0.41
12 11 0.34
ACGTcount: A:0.04, C:0.14, G:0.02, T:0.80
Consensus pattern (11 bp):
TTCTTATTTTT
Found at i:18533974 original size:10 final size:10
Alignment explanation
Indices: 18533943--18533967 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
18533933 TAGTTTTAGA
18533943 AAAAAAAAAG
1 AAAAAAAAAG
18533953 AAAAAAAAAG
1 AAAAAAAAAG
18533963 AAAAA
1 AAAAA
18533968 GAGAGAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:18537658 original size:24 final size:24
Alignment explanation
Indices: 18537622--18537686 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
18537612 CAATTTTAAA
18537622 TTTT-TTTA-ATTTATATTA-TTGT
1 TTTTATTTATATTTAT-TTATTTGT
18537644 TTTTATTTATATTTATTTATTTGT
1 TTTTATTTATATTTATTTATTTGT
* *
18537668 TTTCATTTCTATTCTATTT
1 TTTTATTTATATT-TATTT
18537687 GTTCATATGT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
22 4 0.11
23 7 0.19
24 21 0.57
25 5 0.14
ACGTcount: A:0.20, C:0.05, G:0.03, T:0.72
Consensus pattern (24 bp):
TTTTATTTATATTTATTTATTTGT
Found at i:18538138 original size:12 final size:12
Alignment explanation
Indices: 18538121--18538160 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 12
18538111 TTACAAATTA
18538121 TAATTTTATATT
1 TAATTTTATATT
18538133 TAATTTTATATTT
1 TAATTTTATA-TT
18538146 TAATTATTAATATT
1 TAATT-TT-ATATT
18538160 T
1 T
18538161 TTATCATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 10 0.40
13 7 0.28
14 5 0.20
15 3 0.12
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TAATTTTATATT
Found at i:18538160 original size:15 final size:15
Alignment explanation
Indices: 18538131--18538171 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
18538121 TAATTTTATA
18538131 TTTAATT-TT-ATAT
1 TTTAATTATTAATAT
18538144 TTTAATTATTAATAT
1 TTTAATTATTAATAT
* *
18538159 TTTTATCATTAAT
1 TTTAATTATTAAT
18538172 TAAATTTAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 7 0.29
14 2 0.08
15 15 0.62
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTAATTATTAATAT
Found at i:18553619 original size:121 final size:121
Alignment explanation
Indices: 18553468--18553704 Score: 349
Period size: 121 Copynumber: 2.0 Consensus size: 121
18553458 ATGTGGTCTC
*
18553468 TTGTCAAGAAAAATTTTGCTCTGTCAGAATAGACACTTAATATGTTCAACCTTTGGGGC-CTATA
1 TTGTCAAGAAAAATTTTGCTCTGTCAGAATAGACACTTAATATGTTCAACCTTTGGGGCAAT-TA
*
18553532 CCT-AGTATCTATTGGCTTTTCAAAGCAAATTAATCAAATGGATTG-AGCAGCATTCTT
65 -CTGAGTATCTATTGGCTTTCCAAAGCAAATTAATCAAATGGA-TGCAGCAGCATTCTT
** *
18553589 TTGTCAAGAACAAA-TTTGCT-TAGTTGGAATAGACACTTAATCTGTTCAACCTTTGGGGCAATT
1 TTGTCAAGAA-AAATTTTGCTCT-GTCAGAATAGACACTTAATATGTTCAACCTTTGGGGCAATT
18553652 ACTGAGTATCTATTGGCTTTCCAAAGCAAATTAATCAAATGGATGCAGCAGCA
64 ACTGAGTATCTATTGGCTTTCCAAAGCAAATTAATCAAATGGATGCAGCAGCA
18553705 CATTTATCAG
Statistics
Matches: 106, Mismatches: 5, Indels: 10
0.88 0.04 0.08
Matches are distributed among these distances:
120 5 0.05
121 97 0.92
122 4 0.04
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (121 bp):
TTGTCAAGAAAAATTTTGCTCTGTCAGAATAGACACTTAATATGTTCAACCTTTGGGGCAATTAC
TGAGTATCTATTGGCTTTCCAAAGCAAATTAATCAAATGGATGCAGCAGCATTCTT
Found at i:18555333 original size:13 final size:13
Alignment explanation
Indices: 18555301--18555334 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
18555291 ACTAAATTAT
18555301 AAATTAAATATTC
1 AAATTAAATATTC
*
18555314 AAA-TAAATCTTC
1 AAATTAAATATTC
18555326 AAATTAAAT
1 AAATTAAAT
18555335 TCAGAAAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (13 bp):
AAATTAAATATTC
Found at i:18557950 original size:13 final size:13
Alignment explanation
Indices: 18557932--18557956 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18557922 GGAGAAATTG
18557932 TGATTTTATAAAA
1 TGATTTTATAAAA
18557945 TGATTTTATAAA
1 TGATTTTATAAA
18557957 TTTTCTGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:18559318 original size:11 final size:11
Alignment explanation
Indices: 18559302--18559334 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
18559292 TGAGTTTTTG
18559302 GGTTTAAAGTT
1 GGTTTAAAGTT
18559313 GGTTTAAAGTT
1 GGTTTAAAGTT
*
18559324 GTTTTAAAGTT
1 GGTTTAAAGTT
18559335 ACTTTAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.48
Consensus pattern (11 bp):
GGTTTAAAGTT
Found at i:18559340 original size:11 final size:11
Alignment explanation
Indices: 18559304--18559342 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
18559294 AGTTTTTGGG
*
18559304 TTTAAAGTTGG
1 TTTAAAGTTGC
*
18559315 TTTAAAGTTGT
1 TTTAAAGTTGC
*
18559326 TTTAAAGTTAC
1 TTTAAAGTTGC
18559337 TTTAAA
1 TTTAAA
18559343 AACTACAATG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.33, C:0.03, G:0.15, T:0.49
Consensus pattern (11 bp):
TTTAAAGTTGC
Found at i:18562554 original size:16 final size:16
Alignment explanation
Indices: 18562535--18562578 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
18562525 TTATAATTAT
18562535 AAATATTTATTTTTAA
1 AAATATTTATTTTTAA
* *
18562551 AAATGTTTAATTTTAA
1 AAATATTTATTTTTAA
*
18562567 AATTTATTTATT
1 AA-ATATTTATT
18562579 AAAAGAACTA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
16 16 0.73
17 6 0.27
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (16 bp):
AAATATTTATTTTTAA
Found at i:18563928 original size:34 final size:33
Alignment explanation
Indices: 18563890--18563967 Score: 110
Period size: 29 Copynumber: 2.4 Consensus size: 33
18563880 AGATACCTGT
18563890 TACCCACCTCTCCTCACCTCCGGCTTAGTACCAG
1 TACCCACCTC-CCTCACCTCCGGCTTAGTACCAG
18563924 TACCCA----CCTCACCTCCGGCTTAGTACCAG
1 TACCCACCTCCCTCACCTCCGGCTTAGTACCAG
18563953 TACCCACCTCACCTC
1 TACCCACCTC-CCTC
18563968 CGGCCCATGC
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
29 29 0.74
34 10 0.26
ACGTcount: A:0.19, C:0.49, G:0.10, T:0.22
Consensus pattern (33 bp):
TACCCACCTCCCTCACCTCCGGCTTAGTACCAG
Found at i:18563934 original size:29 final size:29
Alignment explanation
Indices: 18563901--18563971 Score: 142
Period size: 29 Copynumber: 2.4 Consensus size: 29
18563891 ACCCACCTCT
18563901 CCTCACCTCCGGCTTAGTACCAGTACCCA
1 CCTCACCTCCGGCTTAGTACCAGTACCCA
18563930 CCTCACCTCCGGCTTAGTACCAGTACCCA
1 CCTCACCTCCGGCTTAGTACCAGTACCCA
18563959 CCTCACCTCCGGC
1 CCTCACCTCCGGC
18563972 CCATGCTGAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.18, C:0.48, G:0.14, T:0.20
Consensus pattern (29 bp):
CCTCACCTCCGGCTTAGTACCAGTACCCA
Found at i:18579934 original size:21 final size:21
Alignment explanation
Indices: 18579899--18579939 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
18579889 GAAGCTCCAA
*
18579899 TATAGATTATTTATATCAATTG
1 TATAGATTAATTATAT-AATTG
18579921 TATAG-TTAATTATATAATT
1 TATAGATTAATTATATAATT
18579940 TTCATTTTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 9 0.50
22 5 0.28
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.51
Consensus pattern (21 bp):
TATAGATTAATTATATAATTG
Found at i:18587437 original size:171 final size:169
Alignment explanation
Indices: 18587115--18587690 Score: 568
Period size: 171 Copynumber: 3.4 Consensus size: 169
18587105 TCTTCTTTTA
* *
18587115 TATAAACGATTTTAAATGAAAATCTTTTTG-GATTTCGGTTAAAATCGATCATCATTGGATGTTT
1 TATAAATGATTTTAAATCAAAATCTTTTTGTG-TTT-GGTTAAAATCGATCATCATTGGATGTTT
* * * * * *
18587179 GCATCAGGAAACGTAAAGTAGATGCCATTCATTGATAAGAAAAGTCAACTTATAGTTACTCATGT
64 GCATCAAGAAACGTAAAGTAGATGTCATTCATTGA-AAAAAAAGTCTATTTATAGTTACTCATGC
* * * * *
18587244 CATCAAAAGCC-TTATCACTCACTTTAAATATTTTTTTCATCT
128 CATTAAAA-CCTTTGTTACTCACTTTAAATAGTTTTATCATCT
* *
18587286 TATAAATGATTTTAAAT-AGAAATCTCTTTAGTGTTTGGTTAAAATCAATCATCATTGGATGTTT
1 TATAAATGATTTTAAATCA-AAATCT-TTTTGTGTTTGGTTAAAATCGATCATCATTGGATGTTT
** * * * *
18587350 GCATCAAGAAACGTAAAGCGGATGTCATCCATTGACAAAAATAGTCTATTTATAGTCATTCATGC
64 GCATCAAGAAACGTAAAGTAGATGTCATTCATTGA-AAAAAAAGTCTATTTATAGTTACTCATGC
* *
18587415 CATTAAAACCTTTGTTACTCACTTTAGA-AGTTTTATAATCT
128 CATTAAAACCTTTGTTACTCACTTTAAATAGTTTTATCATCT
* * * * * * *
18587456 TATAAATGATTTTGAATCAAAATATTTTTTGTTTTTAGTTAAAATTGATCATAATTGGATGTTTT
1 TATAAATGATTTTAAATCAAAAT-CTTTTTGTGTTTGGTTAAAATCGATCATCATTGGATGTTTG
** * * * *
18587521 CATTGAGAAAAGTGAAGTAGATATCATTTATTGGTAAAAAAAAAGTCTATTTATAGTTACTCATG
65 CATCAAGAAACGTAAAGTAGATGTCATTCATT-G--AAAAAAAAGTCTATTTATAGTTACTCATG
* * * * * * *
18587586 CCA-TCAAACATTTGTTGCTCGCTTTAAATGGATTCATCATCT
127 CCATTAAAACCTTTGTTACTCACTTTAAATAGTTTTATCATCT
** * * * *
18587628 TATAAATGATTTTAAATCAAAATCTTTGTCATTTTTGGTTTAAACCGATCATAATTGGATGTT
1 TATAAATGATTTTAAATCAAAATCTTT-TTGTGTTTGGTTAAAATCGATCATCATTGGATGTT
18587691 AGCGGGGTCA
Statistics
Matches: 333, Mismatches: 61, Indels: 21
0.80 0.15 0.05
Matches are distributed among these distances:
170 88 0.26
171 148 0.44
172 95 0.29
173 2 0.01
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.39
Consensus pattern (169 bp):
TATAAATGATTTTAAATCAAAATCTTTTTGTGTTTGGTTAAAATCGATCATCATTGGATGTTTGC
ATCAAGAAACGTAAAGTAGATGTCATTCATTGAAAAAAAAGTCTATTTATAGTTACTCATGCCAT
TAAAACCTTTGTTACTCACTTTAAATAGTTTTATCATCT
Found at i:18588315 original size:2 final size:2
Alignment explanation
Indices: 18588308--18588332 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
18588298 AATTAATGAG
18588308 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
18588333 GCATGCTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18588514 original size:21 final size:20
Alignment explanation
Indices: 18588490--18588531 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
18588480 TTGCCATCTC
18588490 ATCTTTACTATTTGAATTAAT
1 ATCTTTACTATTTGAA-TAAT
* *
18588511 ATCTTTATTATTTTAATAAT
1 ATCTTTACTATTTGAATAAT
18588531 A
1 A
18588532 AAAATAGGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.55
Consensus pattern (20 bp):
ATCTTTACTATTTGAATAAT
Found at i:18589525 original size:18 final size:17
Alignment explanation
Indices: 18589498--18589531 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
18589488 GTTTATAATT
*
18589498 AAATACATTATATAAAA
1 AAATACATTAAATAAAA
18589515 AAATGACATTAAATAAA
1 AAAT-ACATTAAATAAA
18589532 TATAAACACG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (17 bp):
AAATACATTAAATAAAA
Found at i:18591805 original size:8 final size:8
Alignment explanation
Indices: 18591787--18591825 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
18591777 TTTTCTAATT
18591787 AATAA-AA
1 AATAATAA
18591794 AATAATAA
1 AATAATAA
18591802 AATAATAA
1 AATAATAA
* *
18591810 AATTATAT
1 AATAATAA
18591818 AATAATAA
1 AATAATAA
18591826 TTTTAAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
7 5 0.19
8 22 0.81
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (8 bp):
AATAATAA
Found at i:18591821 original size:16 final size:16
Alignment explanation
Indices: 18591782--18591825 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
18591772 GGTTTTTTTC
18591782 TAAT-TAATAA-AAAA
1 TAATATAATAATAAAA
*
18591796 TAATAAAATAATAAAA
1 TAATATAATAATAAAA
*
18591812 TTATATAATAATAA
1 TAATATAATAATAA
18591826 TTTTAAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 4 0.16
15 5 0.20
16 16 0.64
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
TAATATAATAATAAAA
Found at i:18596419 original size:3 final size:3
Alignment explanation
Indices: 18596411--18596436 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
18596401 CTTACACTAA
18596411 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
18596437 GTTAGCAGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:18621941 original size:21 final size:21
Alignment explanation
Indices: 18621917--18621957 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
18621907 TAAAATCAAA
18621917 TATAGATATTACGACCATTTG
1 TATAGATATTACGACCATTTG
* * *
18621938 TATATATATTATGATCATTT
1 TATAGATATTACGACCATTT
18621958 AATCAAATCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.46
Consensus pattern (21 bp):
TATAGATATTACGACCATTTG
Found at i:18626757 original size:2 final size:2
Alignment explanation
Indices: 18626750--18626786 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
18626740 TAATTGCTAT
18626750 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
18626787 TCTGATTTAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:18628894 original size:2 final size:2
Alignment explanation
Indices: 18628887--18628915 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
18628877 AAATTGGTAA
18628887 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
18628916 GGAAATCGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18631244 original size:187 final size:186
Alignment explanation
Indices: 18630990--18632284 Score: 1420
Period size: 187 Copynumber: 6.9 Consensus size: 186
18630980 CAAGCTGGTA
* * * * * *
18630990 AACATCATTTAAGATATTGCTCTAATATTGCAATTTTTTTTAAGGAATT-AATTTTCTTCTAAGA
1 AACATCATTAAAGATATTACTCTAACATTGCAACTTTTTTTAAGGGATTAAAATTTCTTCTAAGA
* * * * * * *
18631054 TATTACATCAAAACGATTATCATGTTTGTTGACAATAAAATAATAAAAATGAAATTACCTAACGG
66 TATTACATCAAAATGACTATCATGTTTGTTGACTATAAAGTAATGAAAATGAAGTAACCTAACGG
* * *
18631119 GTCAAGCAAGTTGAAATTTCACAAAAACTTTATATTAAGGTTGGAAAAAAGTTAGCC
131 GTCAAGCAAGTTGAAATTTCACAAGAACTTTATATCAAGATTGGAAAAAAGTT-GCC
* * * * * * *
18631176 AACATCGTTGAACATATTACTTTAATATTGCAACTTCTTTTAAGGGATTAAATTTTCTTCTAAGA
1 AACATCATTAAAGATATTACTCTAACATTGCAACTTTTTTTAAGGGATTAAAATTTCTTCTAAGA
* * **
18631241 TATTACATCAAAATGGACTATCATGTTTGTTAACTATAAATTAATGAAAATGAAGTAACCTAAAA
66 TATTACATCAAAAT-GACTATCATGTTTGTTGACTATAAAGTAATGAAAATGAAGTAACCTAACG
* ** *
18631306 GGTCAAGTAAGTTGGAAATTTCATGAGAACTTTGTATCAAG-TTGGGAAAAAAGCTTGCC
130 GGTCAAGCAAGTT-GAAATTTCACAAGAACTTTATATCAAGATT-GGAAAAAAG-TTGCC
* * * *
18631365 AACATCATTAAAGATATTTCTCTAACATTGCAA-TTTTTTTAAGAGATCAAAATTTCTTTTAAGA
1 AACATCATTAAAGATATTACTCTAACATTGCAACTTTTTTTAAGGGATTAAAATTTCTTCTAAGA
* * * *
18631429 TATTACATCAAAATGACTGTCATGTTTGTTGACTATAAATTAATGAAAACGAAGTAACCTAACAG
66 TATTACATCAAAATGACTATCATGTTTGTTGACTATAAAGTAATGAAAATGAAGTAACCTAACGG
* * * * *
18631494 GTCAAACAAGTTGGAAATTTCATAAGAACTTCATATTAAGATTGGAAAAAGGCTTGCC
131 GTCAAGCAAGTT-GAAATTTCACAAGAACTTTATATCAAGATTGGAAAAAAG-TTGCC
* ** * * *
18631552 AATATTTTTAAAGATATTACTCTAATATTGCAACTTTTTTTAAGTGATAAAAATTTCTTCTAAGA
1 AACATCATTAAAGATATTACTCTAACATTGCAACTTTTTTTAAGGGATTAAAATTTCTTCTAAGA
* * * * *
18631617 TATTACATCAAAATAACTATCATGTTTGTT-AATAATAAAGTAATGAACATGAAATTACCTAACG
66 TATTACATCAAAATGACTATCATGTTTGTTGACT-ATAAAGTAATGAAAATGAAGTAACCTAACG
* * *
18631681 GGTCAAGCAAGTTGAAATTTCACAAAAACTTCATATCAAGATTGCAAAAAAGTTGACC
130 GGTCAAGCAAGTTGAAATTTCACAAGAACTTTATATCAAGATTGGAAAAAAGTTG-CC
* * * *
18631739 AATATCATTAAAGATATTACTCTAACATTCCAA-TTTCTTTTAAGGAATCAAAATTTCTTCTAAG
1 AACATCATTAAAGATATTACTCTAACATTGCAACTTT-TTTTAAGGGATTAAAATTTCTTCTAAG
* * * * * *
18631803 ATATTACATGAAAAAGACTCTCATTTTTGTTGATTATACAA-TAATGAAAATGATGTAACCTAAC
65 ATATTACATCAAAATGACTATCATGTTTGTTGACTATA-AAGTAATGAAAATGAAGTAACCTAAC
* * * * * * *
18631867 GCGTCAGGCAAGTTAAAATTTCACAAGAACTTCATATCAAGGTTGGGAAAAAGTTGACT
129 GGGTCAAGCAAGTTGAAATTTCACAAGAACTTTATATCAAGATTGGAAAAAAGTTG-CC
* *
18631926 AACATCATTAAAGATATTACTCTAACATTCCAACTTCTTTTAAGGG-TTCAAAATTTCTTCTAAG
1 AACATCATTAAAGATATTACTCTAACATTGCAACTTTTTTTAAGGGATT-AAAATTTCTTCTAAG
* * * * * * *
18631990 ATATTATATAAAAAAGACTATCATGTTTGTTAACTATAAAGTACTGAAAATGAAGTAACTTAATG
65 ATATTACATCAAAATGACTATCATGTTTGTTGACTATAAAGTAATGAAAATGAAGTAACCTAACG
* * * *
18632055 GGTCAAACAAGTTGAAATTTCA-AACGAA-TTTCATATCAAAATTGCAAAAAAGCTGGCC
130 GGTCAAGCAAGTTGAAATTTCACAA-GAACTTT-ATATCAAGATTGGAAAAAAG-TTGCC
* ** * ** * * * *
18632113 AACATCATTAAAGATTTTGTTCTAACAATATAACTTTTTTTCAGGGATCAAAATTTTTTATAAGA
1 AACATCATTAAAGATATTACTCTAACATTGCAACTTTTTTTAAGGGATTAAAATTTCTTCTAAGA
* * * * * * *
18632178 TATTACATAAAAATGACTATTATGTTTGTTGACTATAAAGTAATGAAACTAAAATAACCTTACGA
66 TATTACATCAAAATGACTATCATGTTTGTTGACTATAAAGTAATGAAAATGAAGTAACCTAACGG
* *
18632243 GTCAAGCAAGTTGAAATTTCACAAAAACTTTGTATCAAGATT
131 GTCAAGCAAGTTGAAATTTCACAAGAACTTTATATCAAGATT
18632285 AGGCCAAAGC
Statistics
Matches: 942, Mismatches: 146, Indels: 41
0.83 0.13 0.04
Matches are distributed among these distances:
186 54 0.06
187 622 0.66
188 203 0.22
189 61 0.06
190 2 0.00
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.34
Consensus pattern (186 bp):
AACATCATTAAAGATATTACTCTAACATTGCAACTTTTTTTAAGGGATTAAAATTTCTTCTAAGA
TATTACATCAAAATGACTATCATGTTTGTTGACTATAAAGTAATGAAAATGAAGTAACCTAACGG
GTCAAGCAAGTTGAAATTTCACAAGAACTTTATATCAAGATTGGAAAAAAGTTGCC
Found at i:18633000 original size:182 final size:185
Alignment explanation
Indices: 18632540--18633030 Score: 548
Period size: 187 Copynumber: 2.7 Consensus size: 185
18632530 AATTTAAGAC
* * * *
18632540 GGCCAACATTATTTAAGATATTATTTTAACATTGCAATTTCTTTTAAAAAATCAAAATTTCTTCT
1 GGCCAACATCATTTAAAATATTACTCTAACATTGCAATTTCTTTT-AAAAATCAAAATTTCTTCT
** * *
18632605 AAGATATTACATCAAAATGACCA-C-TATGCTTGTTGACTATAATGTAATGAAAATGAAGAATCC
65 AAGATATTACATCAAAATGATTATCATAT--TTGTTGACTATAAAGTAATGAAAATGAAG-ATAC
* * * * *
18632668 TTACGAGTCAAACAAGTTTAAATTTTACAAGAATTTTGGATTAAGACTGGGCCAAAGTT
127 TTACGAGTCAAACAAGTTCAAATATAACAAGAATTTTGGATCAAGACTGGGCCAAACTT
*
18632727 GGCCAACATCATTTAAAATATTACTCTAACATTGCAATTTCTTTTAAAAGATCGAAATTTCTTCT
1 GGCCAACATCATTTAAAATATTACTCTAACATTGCAATTTCTTTTAAAA-ATCAAAATTTCTTCT
* *
18632792 AAGATATTACATCAAAATGGTTATCATATTTGTTGACTATAAAATAATGAAAATGAAG-TACTT-
65 AAGATATTACATCAAAATGATTATCATATTTGTTGACTATAAAGTAATGAAAATGAAGATACTTA
* * * **
18632855 GGA-TCAAACAAGTTCACATATAATAAGAATTTTGTG-TCAAGGTTGGGCCAAAACTT
130 CGAGTCAAACAAGTTCAAATATAACAAGAATTTTG-GATCAAGACTGGGCC-AAACTT
* * * ** *
18632911 -GCCAACGTCA-TTAATATATTACTGTAATGTTGCAATTTCTTTTAAAGAATCAAAATTTCTTGT
1 GGCCAACATCATTTAAAATATTACTCTAACATTGCAATTTCTTTTAAA-AATCAAAATTTCTTCT
* * * * * * *
18632974 AAGATGTTATATCAAATTGATTATCATGTTTGTTGACAACAAAGTAATAAAAATGAA
65 AAGATATTACATCAAAATGATTATCATATTTGTTGACTATAAAGTAATGAAAATGAA
18633031 ATTATCCAAT
Statistics
Matches: 261, Mismatches: 37, Indels: 17
0.83 0.12 0.05
Matches are distributed among these distances:
182 93 0.36
183 46 0.18
184 8 0.03
185 4 0.02
186 4 0.02
187 102 0.39
188 1 0.00
189 3 0.01
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (185 bp):
GGCCAACATCATTTAAAATATTACTCTAACATTGCAATTTCTTTTAAAAATCAAAATTTCTTCTA
AGATATTACATCAAAATGATTATCATATTTGTTGACTATAAAGTAATGAAAATGAAGATACTTAC
GAGTCAAACAAGTTCAAATATAACAAGAATTTTGGATCAAGACTGGGCCAAACTT
Found at i:18635443 original size:13 final size:13
Alignment explanation
Indices: 18635407--18635442 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
18635397 ATAGAAACTG
*
18635407 TTTTTCTTTTAAT
1 TTTTTATTTTAAT
18635420 TTTTTATTTTAAT
1 TTTTTATTTTAAT
18635433 TTTGTTATTT
1 TTT-TTATTT
18635443 ATTTATTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 15 0.71
14 6 0.29
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.78
Consensus pattern (13 bp):
TTTTTATTTTAAT
Found at i:18636517 original size:17 final size:17
Alignment explanation
Indices: 18636495--18636539 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
18636485 TTTATGTAAA
18636495 ATATAAAATATAATAAT
1 ATATAAAATATAATAAT
*
18636512 ATAT-AAATAGATATAAT
1 ATATAAAATATA-ATAAT
18636529 A-ATAAAA-ATAA
1 ATATAAAATATAA
18636540 AATCTGAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
15 1 0.04
16 10 0.42
17 13 0.54
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (17 bp):
ATATAAAATATAATAAT
Found at i:18641927 original size:31 final size:31
Alignment explanation
Indices: 18641889--18641950 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
18641879 GTTTTGTGTT
*
18641889 TGTTTACAATTCTATGTCTTTCTCAATTGAA
1 TGTTTACAATTCTATGCCTTTCTCAATTGAA
18641920 TGTTTACAATTCTATGCCTTTCTCAATTGAA
1 TGTTTACAATTCTATGCCTTTCTCAATTGAA
18641951 ATTTGGTTGA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.26, C:0.18, G:0.10, T:0.47
Consensus pattern (31 bp):
TGTTTACAATTCTATGCCTTTCTCAATTGAA
Found at i:18642985 original size:17 final size:17
Alignment explanation
Indices: 18642927--18643026 Score: 57
Period size: 17 Copynumber: 5.9 Consensus size: 17
18642917 TTTCTTTTTC
18642927 TTTTTCTGTTTTTTC-AT
1 TTTTTCT-TTTTTTCTAT
*
18642944 TTTTTCCTTTTTTC--T
1 TTTTTCTTTTTTTCTAT
* * *
18642959 GTATTATTTTTTTCTAT
1 TTTTTCTTTTTTTCTAT
18642976 TTTTTCTTTTATTT-TAT
1 TTTTTCTTTT-TTTCTAT
** *
18642993 ATTTTTCAACTTTTTATAT
1 -TTTTTC-TTTTTTTCTAT
18643012 TTTTT-TTCTTTTTCT
1 TTTTTCTT-TTTTTCT
18643027 TAGTAGACAT
Statistics
Matches: 63, Mismatches: 13, Indels: 14
0.70 0.14 0.16
Matches are distributed among these distances:
15 11 0.17
16 7 0.11
17 23 0.37
18 17 0.27
19 5 0.08
ACGTcount: A:0.11, C:0.11, G:0.02, T:0.76
Consensus pattern (17 bp):
TTTTTCTTTTTTTCTAT
Found at i:18644873 original size:92 final size:94
Alignment explanation
Indices: 18644716--18644966 Score: 400
Period size: 94 Copynumber: 2.7 Consensus size: 94
18644706 TTCCATGAAC
* *
18644716 CAAGTCAAGGTCTTCTTATTAATGCATTTTGTAGATAGGA-AGTTAAATTAAGTAGTCACCCAAA
1 CAAGTCAAGGTCTTCTTATTAATGCATTTTGTAGGTAGGATA-TTGAATTAAGTAGTCACCCAAA
18644780 TCATACTCTCCC-AA-CAATATTAAGGAAA
65 TCATACTCTCCCAAATCAATATTAAGGAAA
*
18644808 CAAGTCAAGGTCTTCTTATTAATGCATTTCGTAGGTAGGATATTGAATTAAGTAGTCACCCAAAT
1 CAAGTCAAGGTCTTCTTATTAATGCATTTTGTAGGTAGGATATTGAATTAAGTAGTCACCCAAAT
* *
18644873 CATACTCTCCCAAATTAATATTTAGGAAA
66 CATACTCTCCCAAATCAATATTAAGGAAA
* * *
18644902 CAAGTCAATGTCTTCTTATTAATGCATTTTGTAGGTAGGATATTGAATTAAGTAGCCCCCCAAAT
1 CAAGTCAAGGTCTTCTTATTAATGCATTTTGTAGGTAGGATATTGAATTAAGTAGTCACCCAAAT
18644967 TACTATTGTC
Statistics
Matches: 147, Mismatches: 9, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
92 71 0.48
93 3 0.02
94 73 0.50
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (94 bp):
CAAGTCAAGGTCTTCTTATTAATGCATTTTGTAGGTAGGATATTGAATTAAGTAGTCACCCAAAT
CATACTCTCCCAAATCAATATTAAGGAAA
Found at i:18646252 original size:35 final size:36
Alignment explanation
Indices: 18646187--18646256 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 36
18646177 AAAAATTGGA
*
18646187 TTTAACTTTCAAAGTCACCATCCTGTTCTAATTTTG
1 TTTAACTTTCAAAGTCACCATCCTATTCTAATTTTG
* *
18646223 TTTAACTTTC-AATTCACTATCCTATTCTAATTTT
1 TTTAACTTTCAAAGTCACCATCCTATTCTAATTTT
18646257 TTCTAACCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
35 21 0.68
36 10 0.32
ACGTcount: A:0.26, C:0.21, G:0.04, T:0.49
Consensus pattern (36 bp):
TTTAACTTTCAAAGTCACCATCCTATTCTAATTTTG
Found at i:18647211 original size:3 final size:3
Alignment explanation
Indices: 18647176--18647257 Score: 63
Period size: 3 Copynumber: 29.0 Consensus size: 3
18647166 TGCTAATGTA
*
18647176 ATT ATCT ATT -TT ATT A-T ATAT ATT -TT -TT GTT ATT ATT ATT ATT
1 ATT AT-T ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT
*
18647219 ATT ATT ATT ATT -TA ATT ATT ATT -TT CATT -TT ATT -TT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT
18647258 CTTTATTATC
Statistics
Matches: 66, Mismatches: 3, Indels: 20
0.74 0.03 0.22
Matches are distributed among these distances:
2 15 0.23
3 43 0.65
4 8 0.12
ACGTcount: A:0.28, C:0.02, G:0.01, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:18647222 original size:12 final size:11
Alignment explanation
Indices: 18647176--18647303 Score: 72
Period size: 12 Copynumber: 11.5 Consensus size: 11
18647166 TGCTAATGTA
18647176 ATTATCTATTTT
1 ATTAT-TATTTT
*
18647188 ATTATATATATT
1 ATTAT-TATTTT
*
18647200 -TT-TTGTTATT
1 ATTATTATT-TT
18647210 ATTATTATTATT
1 ATTATTATT-TT
*
18647222 ATTATTATTTA
1 ATTATTATTTT
18647233 ATTATTATTTT
1 ATTATTATTTT
18647244 CATT-TTATTTT
1 -ATTATTATTTT
* *
18647255 ATTCTT-TATT
1 ATTATTATTTT
18647265 ATCATATT-TTTT
1 AT--TATTATTTT
18647277 ATT-TTATTTCT
1 ATTATTATTT-T
*
18647288 AATTACTATTTT
1 -ATTATTATTTT
18647300 -TTAT
1 ATTAT
18647304 ACCTTACATT
Statistics
Matches: 93, Mismatches: 12, Indels: 24
0.72 0.09 0.19
Matches are distributed among these distances:
9 4 0.04
10 18 0.19
11 25 0.27
12 41 0.44
13 5 0.05
ACGTcount: A:0.27, C:0.05, G:0.01, T:0.68
Consensus pattern (11 bp):
ATTATTATTTT
Found at i:18647255 original size:23 final size:23
Alignment explanation
Indices: 18647210--18647253 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
18647200 TTTTGTTATT
18647210 ATTATTATTATTATTATTATTTA
1 ATTATTATTATTATTATTATTTA
18647233 ATTATTATT-TTCATT-TTATTT
1 ATTATTATTATT-ATTATTATTT
18647254 TATTCTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (23 bp):
ATTATTATTATTATTATTATTTA
Found at i:18647263 original size:23 final size:22
Alignment explanation
Indices: 18647237--18647279 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
18647227 TATTTAATTA
* *
18647237 TTATTTTCATTTTATTTTATTCT
1 TTATTATCATATT-TTTTATTCT
18647260 TTATTATCATATTTTTTATT
1 TTATTATCATATTTTTTATT
18647280 TTATTTCTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.72
Consensus pattern (22 bp):
TTATTATCATATTTTTTATTCT
Found at i:18647297 original size:25 final size:27
Alignment explanation
Indices: 18647246--18647303 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
18647236 ATTATTTTCA
*
18647246 TTTTATTTTATTCTTTATTATCATATT
1 TTTTATTTTATTCTTAATTATCATATT
18647273 TTTTATTTTATT-TCTAATTA-C-TATT
1 TTTTATTTTATTCT-TAATTATCATATT
18647298 TTTTAT
1 TTTTAT
18647304 ACCTTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 10 0.34
26 2 0.07
27 17 0.59
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.71
Consensus pattern (27 bp):
TTTTATTTTATTCTTAATTATCATATT
Found at i:18649621 original size:37 final size:38
Alignment explanation
Indices: 18649566--18650109 Score: 722
Period size: 38 Copynumber: 14.1 Consensus size: 38
18649556 NNNNNNNNNN
18649566 CTTTTAAAAATGAACTCCTCAAAACTGAGGCAACGAAA
1 CTTTTAAAAATGAACTCCTCAAAACTGAGGCAACGAAA
* * * *
18649604 CTTCT-AAAATAAACTCCTCAAAACTGAGGCAATGAGA
1 CTTTTAAAAATGAACTCCTCAAAACTGAGGCAACGAAA
* *
18649641 CTTTAAAAAATGAACTCCTCAAAACTGAGGCAACAAAA
1 CTTTTAAAAATGAACTCCTCAAAACTGAGGCAACGAAA
* *
18649679 CTTCT-AAAATGAACTCCTCAAAGCTGAGGCAACGAAA
1 CTTTTAAAAATGAACTCCTCAAAACTGAGGCAACGAAA
18649716 CTTTCTTTAAAAAATGAACTCCTCAAAACTGAGGCAACGAAA
1 C--T-TTT-AAAAATGAACTCCTCAAAACTGAGGCAACGAAA
*
18649758 CTTCT-AAAATGAACTCCTCAAAGA-TGAGGCAACGAAA
1 CTTTTAAAAATGAACTCCTCAAA-ACTGAGGCAACGAAA
*
18649795 CTTTTAAAAATGAACTCCTCAAAACTAAGGCAACGAAA
1 CTTTTAAAAATGAACTCCTCAAAACTGAGGCAACGAAA
*
18649833 CTTCT-AAAATGAACTCCTCAAAACTGAGGCAACGAAA
1 CTTTTAAAAATGAACTCCTCAAAACTGAGGCAACGAAA
*
18649870 CTTTTAAAAATGAACTCCTTAAAACTGAGGCAACGAAA
1 CTTTTAAAAATGAACTCCTCAAAACTGAGGCAACGAAA
* * *
18649908 CTTTT-AAAATGAACTCCTTAAAGCTGAAGCAACGAAA
1 CTTTTAAAAATGAACTCCTCAAAACTGAGGCAACGAAA
* *
18649945 CTTTTTAAAATGAACTCCTCAAAACTGAGGCAACGAGA
1 CTTTTAAAAATGAACTCCTCAAAACTGAGGCAACGAAA
* * *
18649983 CTTTTAAAAAATGAACTCTTCAAAGCTGAGGCAACGAGA
1 CTTTT-AAAAATGAACTCCTCAAAACTGAGGCAACGAAA
* *
18650022 CTTTTAAAAATAAAAATGAACTCCTCAAAGCTGAGGCAACGAGA
1 C-TTT-----TAAAAATGAACTCCTCAAAACTGAGGCAACGAAA
*
18650066 CTTTTAAAAATGAACTCCTCAAAACTGAGGTAACGAAA
1 CTTTTAAAAATGAACTCCTCAAAACTGAGGCAACGAAA
18650104 CCTTTT
1 -CTTTT
18650110 TTCTTTTTTG
Statistics
Matches: 451, Mismatches: 36, Indels: 37
0.86 0.07 0.07
Matches are distributed among these distances:
37 168 0.37
38 169 0.37
39 39 0.09
40 6 0.01
42 32 0.07
43 3 0.01
44 33 0.07
45 1 0.00
ACGTcount: A:0.43, C:0.21, G:0.14, T:0.22
Consensus pattern (38 bp):
CTTTTAAAAATGAACTCCTCAAAACTGAGGCAACGAAA
Found at i:18649694 original size:75 final size:75
Alignment explanation
Indices: 18649566--18650109 Score: 748
Period size: 75 Copynumber: 7.1 Consensus size: 75
18649556 NNNNNNNNNN
*
18649566 CTTTTAAAAATGAACTCCTCAAAACTGAGGCAACGAAACTTCTAAAATAAACTCCTCAAAACTGA
1 CTTTTAAAAATGAACTCCTCAAAACTGAGGCAACGAAACTTCTAAAATGAACTCCTCAAAACTGA
* *
18649631 GGCAATGAGA
66 GGCAACGAAA
* * *
18649641 CTTTAAAAAATGAACTCCTCAAAACTGAGGCAACAAAACTTCTAAAATGAACTCCTCAAAGCTGA
1 CTTTTAAAAATGAACTCCTCAAAACTGAGGCAACGAAACTTCTAAAATGAACTCCTCAAAACTGA
18649706 GGCAACGAAA
66 GGCAACGAAA
18649716 CTTTCTTTAAAAAATGAACTCCTCAAAACTGAGGCAACGAAACTTCTAAAATGAACTCCTCAAAG
1 C--T-TTT-AAAAATGAACTCCTCAAAACTGAGGCAACGAAACTTCTAAAATGAACTCCTCAAA-
18649781 A-TGAGGCAACGAAA
61 ACTGAGGCAACGAAA
*
18649795 CTTTTAAAAATGAACTCCTCAAAACTAAGGCAACGAAACTTCTAAAATGAACTCCTCAAAACTGA
1 CTTTTAAAAATGAACTCCTCAAAACTGAGGCAACGAAACTTCTAAAATGAACTCCTCAAAACTGA
18649860 GGCAACGAAA
66 GGCAACGAAA
* * * *
18649870 CTTTTAAAAATGAACTCCTTAAAACTGAGGCAACGAAACTTTTAAAATGAACTCCTTAAAGCTGA
1 CTTTTAAAAATGAACTCCTCAAAACTGAGGCAACGAAACTTCTAAAATGAACTCCTCAAAACTGA
*
18649935 AGCAACGAAA
66 GGCAACGAAA
* * * * *
18649945 CTTTTTAAAATGAACTCCTCAAAACTGAGGCAACGAGACTTTTAAAAAATGAACTCTTCAAAGCT
1 CTTTTAAAAATGAACTCCTCAAAACTGAGGCAACGAAACTTCT--AAAATGAACTCCTCAAAACT
*
18650010 GAGGCAACGAGA
64 GAGGCAACGAAA
* * *
18650022 CTTTTAAAAATAAAAATGAACTCCTCAAAGCTGAGGCAACGAGACTTTTAAAAATGAACTCCTCA
1 C-TTT-----TAAAAATGAACTCCTCAAAACTGAGGCAACGAAACTTCT-AAAATGAACTCCTCA
*
18650087 AAACTGAGGTAACGAAA
59 AAACTGAGGCAACGAAA
18650104 CCTTTT
1 -CTTTT
18650110 TTCTTTTTTG
Statistics
Matches: 425, Mismatches: 29, Indels: 28
0.88 0.06 0.06
Matches are distributed among these distances:
74 1 0.00
75 246 0.58
76 3 0.01
77 32 0.08
78 5 0.01
79 68 0.16
82 32 0.08
83 38 0.09
ACGTcount: A:0.43, C:0.21, G:0.14, T:0.22
Consensus pattern (75 bp):
CTTTTAAAAATGAACTCCTCAAAACTGAGGCAACGAAACTTCTAAAATGAACTCCTCAAAACTGA
GGCAACGAAA
Found at i:18662115 original size:3 final size:3
Alignment explanation
Indices: 18662080--18662144 Score: 52
Period size: 3 Copynumber: 23.0 Consensus size: 3
18662070 TGCTAATGTA
*
18662080 ATT ATCT ATT -TT ATT A-T ATAT ATT -TT -TT GTT ATT ATT ATT ATT
1 ATT AT-T ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT
*
18662123 ATT -TT ATT ATT -TA ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT
18662145 TTCATTTNTT
Statistics
Matches: 52, Mismatches: 3, Indels: 14
0.75 0.04 0.20
Matches are distributed among these distances:
2 11 0.21
3 35 0.67
4 6 0.12
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:18662139 original size:19 final size:19
Alignment explanation
Indices: 18662078--18662146 Score: 74
Period size: 19 Copynumber: 3.7 Consensus size: 19
18662068 TATGCTAATG
*
18662078 TAATTATCTATTTTATTATA
1 TAATTAT-TATTTTATTATT
18662098 TATATT-TT-TTGTTATTA-T
1 TA-ATTATTATT-TTATTATT
18662116 T-ATTATTATTTTATTATT
1 TAATTATTATTTTATTATT
18662134 TAATTATTATTTT
1 TAATTATTATTTT
18662147 CATTTNTTTG
Statistics
Matches: 42, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
16 3 0.07
17 8 0.19
18 7 0.17
19 18 0.43
20 3 0.07
21 3 0.07
ACGTcount: A:0.29, C:0.01, G:0.01, T:0.68
Consensus pattern (19 bp):
TAATTATTATTTTATTATT
Found at i:18662140 original size:28 final size:27
Alignment explanation
Indices: 18662078--18662146 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 27
18662068 TATGCTAATG
18662078 TAATTATCTATTTTATTATATATATTTT
1 TAATTAT-TATTTTATTATATATATTTT
** *
18662106 TTGTTATTATTATTATTAT-TTTATTATT
1 TAATTATTATT-TTATTATATATATT-TT
18662134 TAATTATTATTTT
1 TAATTATTATTTT
18662147 CATTTNTTTG
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
27 11 0.32
28 23 0.68
ACGTcount: A:0.29, C:0.01, G:0.01, T:0.68
Consensus pattern (27 bp):
TAATTATTATTTTATTATATATATTTT
Found at i:18662316 original size:19 final size:19
Alignment explanation
Indices: 18662294--18662354 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 19
18662284 TATATTTGAA
18662294 TTATCTTTATTTATTATTT
1 TTATCTTTATTTATTATTT
* * *
18662313 TTATCTTTTTTTTTTCTATTG
1 TTATC-TTTATTTAT-TATTT
18662334 TTA--TTTATTTATTATTT
1 TTATCTTTATTTATTATTT
18662351 TTAT
1 TTAT
18662355 TGAATAACTT
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
17 7 0.21
18 7 0.21
19 5 0.15
20 7 0.21
21 7 0.21
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.75
Consensus pattern (19 bp):
TTATCTTTATTTATTATTT
Found at i:18662355 original size:13 final size:13
Alignment explanation
Indices: 18662293--18662355 Score: 60
Period size: 13 Copynumber: 4.9 Consensus size: 13
18662283 ATATATTTGA
*
18662293 ATTATCTTTATTT
1 ATTATTTTTATTT
18662306 ATTATTTTTATCTT
1 ATTATTTTTAT-TT
*
18662320 -TT-TTTTT-TCT
1 ATTATTTTTATTT
*
18662330 ATTGTTATTTATTT
1 ATTATT-TTTATTT
18662344 ATTATTTTTATT
1 ATTATTTTTATT
18662356 GAATAACTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
10 1 0.02
11 3 0.07
12 7 0.17
13 21 0.51
14 9 0.22
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.75
Consensus pattern (13 bp):
ATTATTTTTATTT
Found at i:18662571 original size:3 final size:3
Alignment explanation
Indices: 18662563--18662612 Score: 52
Period size: 3 Copynumber: 16.7 Consensus size: 3
18662553 TTGTATTTAT
18662563 TTA TTA TTAA TTAA TTA TT- TTA TTTA TTA TT- TTA TTA TTA TTA TT-
1 TTA TTA TT-A TT-A TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
18662608 TTA TT
1 TTA TT
18662613 TATTTGTAGT
Statistics
Matches: 42, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
2 6 0.14
3 26 0.62
4 10 0.24
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:18662591 original size:20 final size:20
Alignment explanation
Indices: 18662562--18662608 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
18662552 TTTGTATTTA
18662562 TTTA-TTATTAATTAATTAT
1 TTTATTTATTAATTAATTAT
* *
18662581 TTTATTTATTATTTTATTAT
1 TTTATTTATTAATTAATTAT
18662601 TATTATTT
1 T-TTATTT
18662609 TATTTATTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 4 0.17
20 14 0.58
21 6 0.25
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTATTTATTAATTAATTAT
Found at i:18662605 original size:26 final size:27
Alignment explanation
Indices: 18662556--18662617 Score: 92
Period size: 26 Copynumber: 2.3 Consensus size: 27
18662546 TGGTATTTTG
18662556 TATTTATTTATTATTAATTAATTATTT
1 TATTTATTTATTATTAATTAATTATTT
*
18662583 TATTTATTATTTTATT-ATT-ATTATTT
1 TATTTATT-TATTATTAATTAATTATTT
18662609 TATTTATTT
1 TATTTATTT
18662618 GTAGTAAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
25 1 0.03
26 15 0.45
27 11 0.33
28 6 0.18
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (27 bp):
TATTTATTTATTATTAATTAATTATTT
Found at i:18664851 original size:24 final size:24
Alignment explanation
Indices: 18664793--18664842 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
18664783 ATTTTTACTA
* *
18664793 TCAATTAT-TTTTTTACTTCATTT
1 TCAATTCTATTTTTTAATTCATTT
*
18664816 TCAATTCTATTTTTTAATTTATTT
1 TCAATTCTATTTTTTAATTCATTT
18664840 TCA
1 TCA
18664843 GTTTAATTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 7 0.30
24 16 0.70
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (24 bp):
TCAATTCTATTTTTTAATTCATTT
Found at i:18670017 original size:10 final size:10
Alignment explanation
Indices: 18669983--18670028 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
18669973 TCTTCCCCTT
18669983 TTTCTT-TT-
1 TTTCTTCTTC
18669991 TTTCTTCTTTC
1 TTTCTTC-TTC
18670002 TTTCTTCTTC
1 TTTCTTCTTC
* *
18670012 TCTCTTCCTC
1 TTTCTTCTTC
18670022 TTTCTTC
1 TTTCTTC
18670029 CTCAACTACT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
8 6 0.19
10 19 0.59
11 7 0.22
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTCTTCTTC
Found at i:18670083 original size:18 final size:18
Alignment explanation
Indices: 18670058--18670101 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
18670048 TTTCTCGGCT
*
18670058 TCTCTCTCCTTTCTTCCC
1 TCTCTCTCCTTCCTTCCC
* *
18670076 TCTTTCTCCTTCCTTTCC
1 TCTCTCTCCTTCCTTCCC
18670094 TCTCTCTC
1 TCTCTCTC
18670102 TCGGCTTTTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (18 bp):
TCTCTCTCCTTCCTTCCC
Found at i:18670613 original size:14 final size:14
Alignment explanation
Indices: 18670596--18670630 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
18670586 TTTATTCCTA
18670596 TTTTTATGTTTTTAT
1 TTTTTA-GTTTTTAT
18670611 TTTTTAGTTTTTAGT
1 TTTTTAGTTTTTA-T
18670626 TTTTT
1 TTTTT
18670631 TATGTATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.37
15 12 0.63
ACGTcount: A:0.11, C:0.00, G:0.09, T:0.80
Consensus pattern (14 bp):
TTTTTAGTTTTTAT
Found at i:18673591 original size:187 final size:187
Alignment explanation
Indices: 18672999--18674444 Score: 1629
Period size: 186 Copynumber: 7.8 Consensus size: 187
18672989 AATCCTTATG
* * * * ** ** * *
18672999 GGTCAAGAAAGTTGAAATTTTACAAAAATTTTGTATCAAGGTTAGGCCAAAA-CTGGTCAACATC
1 GGTCAAGTAAGTTGAAATTTCACAAGAACTTCATATCAAGGTT-GGAAAAAAGCTTGCCAACATC
* * * *
18673063 A-TAAAGATATTACTCTAACATGGCAACTTCTTTTAAGGGATC-AAATTTCTTATAAGATATTAC
65 ATTAAAGATATTACTCTAACATTGCAACTTCTTTTAAAGGATCAAAATTTATTCTAAGATATTAC
** ** * * * * *
18673126 ATCAAAACCACTATCATGTTTATTGAAAATGAAGTAATGAAAATGAAATTACGTAACG
130 ATCAAAATGACTATCATGTTTATTGACTATAAAGTAATGAAAATGAAGTAACCTAACA
* * * *
18673184 GGTCAA-TCAAGATGAAA-TTCGATAA-AACCTTCATATCAAGTTTGGAAAAAAGCTTACCAACA
1 GGTCAAGT-AAGTTGAAATTTC-ACAAGAA-CTTCATATCAAGGTTGGAAAAAAGCTTGCCAACA
* * * ** * *
18673246 TCATTAAAGATATTACTTTAACATTG-GACAT-TTTTAAATTAT-AACAATTTCTTCTATGATAT
63 TCATTAAAGATATTACTCTAACATTGCAACTTCTTTTAAAGGATCAA-AATTTATTCTAAGATAT
* * * * * ** **
18673308 TACAACAAAGTGACTATCATTGTTTATTGACAATAAAGTAATGAAAATGAAATTATATAATG
127 TACATCAAAATGACTATCA-TGTTTATTGACTATAAAGTAATGAAAATGAAGTAACCTAACA
* ** * * *
18673370 GGTCAAGCAAACTGAAATTTCATAAAAACTTCATAACAAGGTTGGAAAAAAG-TTGGCCAACATC
1 GGTCAAGTAAGTTGAAATTTCACAAGAACTTCATATCAAGGTTGGAAAAAAGCTT-GCCAACATC
* * ** * * *
18673434 ATTAAAGATATTACTTTAACATTGC-ACTTTTTTTAAATCATAAAAATTTCTTCTAAGATATTAG
65 ATTAAAGATATTACTCTAACATTGCAACTTCTTTTAAAGGATCAAAATTTATTCTAAGATATTAC
* * * *
18673498 TTAAAAATAACTATCATGTTTATTGACTATAAAGTAATGAAAATGAAGTAACCTAAAA
130 ATCAAAATGACTATCATGTTTATTGACTATAAAGTAATGAAAATGAAGTAACCTAACA
* * *
18673556 GGTTAAGTATGTTGGAAATTTCACAATAACTTCATATCAAGGTTGG-AAAAAGCTTGCCAACATC
1 GGTCAAGTAAGTT-GAAATTTCACAAGAACTTCATATCAAGGTTGGAAAAAAGCTTGCCAACATC
* * **
18673620 ATTAAAAATATTACTCTAACATTGCAATTTC-TTT-AAGAGATCAAAATTTATAATAAGATATTA
65 ATTAAAGATATTACTCTAACATTGCAACTTCTTTTAAAG-GATCAAAATTTATTCTAAGATATTA
* * *
18673683 CATCAAAATGACTATCATGTTTGTTGACTATAAAGTAATAAAAATGAAGTAACCTTACA
129 CATCAAAATGACTATCATGTTTATTGACTATAAAGTAATGAAAATGAAGTAACCTAACA
* *
18673742 GGTCAAGTAAGTTTGAAATTTTACAAGAATTTCATATCAAGGTTGGAAAAAAGCTTGCCAACATC
1 GGTCAAGTAAG-TTGAAATTTCACAAGAACTTCATATCAAGGTTGGAAAAAAGCTTGCCAACATC
**
18673807 ATTAAAGATATTACTCTAACATTGCAACTTCTTTTAAAGGATCAAAATTTATAATAAGATATTAC
65 ATTAAAGATATTACTCTAACATTGCAACTTCTTTTAAAGGATCAAAATTTATTCTAAGATATTAC
* * * * * *
18673872 ATCAAAATGATTATCATGTTTGTTGACTATAAAGCAATAAAAATGAAGAAACCTAATA
130 ATCAAAATGACTATCATGTTTATTGACTATAAAGTAATGAAAATGAAGTAACCTAACA
* *
18673930 GGTTAAGT---TTGAAATTTCTA-AAGAACTTCATATCAAGGTTGGAAAAAAGCTTGCCAACATT
1 GGTCAAGTAAGTTGAAATTTC-ACAAGAACTTCATATCAAGGTTGGAAAAAAGCTTGCCAACATC
* * *
18673991 ATTAAAAATATTACTCTAACATTGCAACTTCTTTTAACGGATCAAAATTTATTCTAAGATGTTAC
65 ATTAAAGATATTACTCTAACATTGCAACTTCTTTTAAAGGATCAAAATTTATTCTAAGATATTAC
* * * *
18674056 ATCAAAATGACTATCATATTTGTTGATTATAAAGTAATGAAAATGAAGTGACCTAACA
130 ATCAAAATGACTATCATGTTTATTGACTATAAAGTAATGAAAATGAAGTAACCTAACA
* * * * * * **
18674114 AGTCAAGCAAATTGAAATTTCACAAAAACTTCATATTAATGTTGGAAAAAAGCTCACCAACATCA
1 GGTCAAGTAAGTTGAAATTTCACAAGAACTTCATATCAAGGTTGGAAAAAAGCTTGCCAACATCA
* *
18674179 TTAAAGATATTACTCTAACATTGCAACGTT-TTTTAAGGGATCAAAATTTCTTCTAAGATATTAC
66 TTAAAGATATTACTCTAACATTGCAAC-TTCTTTTAAAGGATCAAAATTTATTCTAAGATATTAC
* *
18674243 ATCAAAAAGACTATCATGTTTATTGACTATAAAGTAATGAAAATGAAATAACC-AACCA
130 ATCAAAATGACTATCATGTTTATTGACTATAAAGTAATGAAAATGAAGTAACCTAA-CA
* * * *
18674301 GGCCAAGAAAGTTGAAAATTTCACAAGAACTTCATATCAAGGTTGGAAAAAAGGTTGCCAATATC
1 GGTCAAGTAAGTTG-AAATTTCACAAGAACTTCATATCAAGGTTGGAAAAAAGCTTGCCAACATC
* **
18674366 ATTAAAGATATTACTCTAAGATTGCAACTTCTTTT-AAGTGATCAAAATTTATTCGGAGATATTA
65 ATTAAAGATATTACTCTAACATTGCAACTTCTTTTAAAG-GATCAAAATTTATTCTAAGATATTA
*
18674430 CATCTAAATGACTAT
129 CATCAAAATGACTAT
18674445 AAAGCAATCA
Statistics
Matches: 1083, Mismatches: 145, Indels: 63
0.84 0.11 0.05
Matches are distributed among these distances:
184 182 0.17
185 76 0.07
186 327 0.30
187 293 0.27
188 202 0.19
189 3 0.00
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (187 bp):
GGTCAAGTAAGTTGAAATTTCACAAGAACTTCATATCAAGGTTGGAAAAAAGCTTGCCAACATCA
TTAAAGATATTACTCTAACATTGCAACTTCTTTTAAAGGATCAAAATTTATTCTAAGATATTACA
TCAAAATGACTATCATGTTTATTGACTATAAAGTAATGAAAATGAAGTAACCTAACA
Found at i:18674262 original size:559 final size:558
Alignment explanation
Indices: 18673056--18674444 Score: 1725
Period size: 559 Copynumber: 2.5 Consensus size: 558
18673046 CAAAACTGGT
*
18673056 CAACATCA-TAAAGATATTACTCTAACATGGCAACTTCTTTTAAGGGATC-AAATTTCTTATAAG
1 CAACATCATTAAAGATATTACTCTAACATTGCAACTT-TTTTAAGGGATCAAAATTTCTTATAAG
** ** * * * *
18673119 ATATTACATCAAAACCACTATCATGTTTATTGAAAATGAAGTAATGAAAATGAAATTACGTAACG
65 ATATTACATCAAAAAGACTATCATGTTTATTGACTATAAAGTAATGAAAATGAAATAACCTAACA
* * * *
18673184 GGTCAA-TCAAGATGAAA-TTCGATAA-AACCTTCATATCAAGTTTGGAAAAAAGCTTACCAACA
130 GGTCAAGT-AAGTTGAAATTTC-ACAAGAA-CTTCATATCAAGGTTGGAAAAAAGCTTGCCAACA
* * * ** * *
18673246 TCATTAAAGATATTACTTTAACATTG-GACAT-TTTTAAATTAT-AACAATTTCTTCTATGATAT
192 TCATTAAAGATATTACTCTAACATTGCAACTTCTTTTAAAGGATCAA-AATTTATTCTAAGATAT
* * * * * * *
18673308 TACAACAAAGTGACTATCATTGTTTATTGACAATAAAGTAATGAAAATGAAATTATATAATGGGT
256 TACATCAAAATGACTATCATTGTTTATTGACAATAAAGCAATAAAAATGAAATAACATAATAGGT
18673373 CAAGCAAACTGAAATTTCATAAAAACTTCATAACAAGGTTGGAAAAAAGTTGGCCAACATCATTA
321 CAAG--AACTGAAATTTCATAAAAACTTCATAACAAGGTTGGAAAAAAGTTGGCCAACATCATTA
* * * * * **
18673438 AAGATATTACTTTAACATTGCACTTTTTTTAAATCATAAAAATTTCTTCTAAGATATTAGTTAAA
384 AAAATATTACTCTAACATTGCACTTCTTTTAAAGCATAAAAATTTATTCTAAGATATTACATAAA
* * * **
18673503 AATAACTATCATGTTTATTGACTATAAAGTAATGAAAATGAAGTAACCTAAAAGGTTAAGTATGT
449 AATAACTATCATATTTATTGACTATAAAGTAATGAAAATGAAGTAACCTAAAAGGTCAAGCAAAT
* **
18673568 TGGAAATTTCACAATAACTTCATATCAAGGTTGGAAAAAGCTTGC
514 TGGAAATTTCACAAAAACTTCATATCAAGGTTGGAAAAAGCTCAC
* * * *
18673613 CAACATCATTAAAAATATTACTCTAACATTGCAA-TTTCTTTAAGAGATCAAAATTTATAATAAG
1 CAACATCATTAAAGATATTACTCTAACATTGCAACTTT-TTTAAGGGATCAAAATTTCTTATAAG
* * * * *
18673677 ATATTACATCAAAATGACTATCATGTTTGTTGACTATAAAGTAATAAAAATGAAGTAACCTTACA
65 ATATTACATCAAAAAGACTATCATGTTTATTGACTATAAAGTAATGAAAATGAAATAACCTAACA
* *
18673742 GGTCAAGTAAGTTTGAAATTTTACAAGAATTTCATATCAAGGTTGGAAAAAAGCTTGCCAACATC
130 GGTCAAGTAAG-TTGAAATTTCACAAGAACTTCATATCAAGGTTGGAAAAAAGCTTGCCAACATC
**
18673807 ATTAAAGATATTACTCTAACATTGCAACTTCTTTTAAAGGATCAAAATTTATAATAAGATATTAC
194 ATTAAAGATATTACTCTAACATTGCAACTTCTTTTAAAGGATCAAAATTTATTCTAAGATATTAC
* * * * *
18673872 ATCAAAATGATTATCA-TGTTTGTTGACTATAAAGCAATAAAAATGAAGA-AACCTAATAGGTTA
259 ATCAAAATGACTATCATTGTTTATTGACAATAAAGCAATAAAAATGAA-ATAACATAATAGGTCA
** * *
18673935 AG-TTTGAAATTTC-TAAAGAACTTCATATCAAGGTTGGAAAAAAGCTT-GCCAACATTATTAAA
323 AGAACTGAAATTTCATAAA-AACTTCATAACAAGGTTGGAAAAAAG-TTGGCCAACATCATTAAA
* * * * *
18673997 AATATTACTCTAACATTGCAACTTCTTTTAACGGATCAAAATTTATTCTAAGATGTTACATCAAA
386 AATATTACTCTAACATTGC-ACTTCTTTTAAAGCATAAAAATTTATTCTAAGATATTACATAAAA
* * * *
18674062 ATGACTATCATATTTGTTGATTATAAAGTAATGAAAATGAAGTGACCTAACAA-GTCAAGCAAAT
450 ATAACTATCATATTTATTGACTATAAAGTAATGAAAATGAAGTAACCTAA-AAGGTCAAGCAAAT
* *
18674126 T-GAAATTTCACAAAAACTTCATATTAATGTTGGAAAAAAGCTCAC
514 TGGAAATTTCACAAAAACTTCATATCAAGGTTGG-AAAAAGCTCAC
*
18674171 CAACATCATTAAAGATATTACTCTAACATTGCAACGTTTTTTAAGGGATCAAAATTTCTTCTAAG
1 CAACATCATTAAAGATATTACTCTAACATTGCAAC-TTTTTTAAGGGATCAAAATTTCTTATAAG
18674236 ATATTACATCAAAAAGACTATCATGTTTATTGACTATAAAGTAATGAAAATGAAATAACC-AACC
65 ATATTACATCAAAAAGACTATCATGTTTATTGACTATAAAGTAATGAAAATGAAATAACCTAA-C
* * * *
18674300 AGGCCAAGAAAGTTGAAAATTTCACAAGAACTTCATATCAAGGTTGGAAAAAAGGTTGCCAATAT
129 AGGTCAAGTAAGTTG-AAATTTCACAAGAACTTCATATCAAGGTTGGAAAAAAGCTTGCCAACAT
* **
18674365 CATTAAAGATATTACTCTAAGATTGCAACTTCTTTT-AAGTGATCAAAATTTATTCGGAGATATT
193 CATTAAAGATATTACTCTAACATTGCAACTTCTTTTAAAG-GATCAAAATTTATTCTAAGATATT
*
18674429 ACATCTAAATGACTAT
257 ACATCAAAATGACTAT
18674445 AAAGCAATCA
Statistics
Matches: 714, Mismatches: 97, Indels: 40
0.84 0.11 0.05
Matches are distributed among these distances:
556 5 0.01
557 114 0.16
558 236 0.33
559 270 0.38
560 48 0.07
561 39 0.05
562 2 0.00
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.32
Consensus pattern (558 bp):
CAACATCATTAAAGATATTACTCTAACATTGCAACTTTTTTAAGGGATCAAAATTTCTTATAAGA
TATTACATCAAAAAGACTATCATGTTTATTGACTATAAAGTAATGAAAATGAAATAACCTAACAG
GTCAAGTAAGTTGAAATTTCACAAGAACTTCATATCAAGGTTGGAAAAAAGCTTGCCAACATCAT
TAAAGATATTACTCTAACATTGCAACTTCTTTTAAAGGATCAAAATTTATTCTAAGATATTACAT
CAAAATGACTATCATTGTTTATTGACAATAAAGCAATAAAAATGAAATAACATAATAGGTCAAGA
ACTGAAATTTCATAAAAACTTCATAACAAGGTTGGAAAAAAGTTGGCCAACATCATTAAAAATAT
TACTCTAACATTGCACTTCTTTTAAAGCATAAAAATTTATTCTAAGATATTACATAAAAATAACT
ATCATATTTATTGACTATAAAGTAATGAAAATGAAGTAACCTAAAAGGTCAAGCAAATTGGAAAT
TTCACAAAAACTTCATATCAAGGTTGGAAAAAGCTCAC
Found at i:18678127 original size:16 final size:16
Alignment explanation
Indices: 18678108--18678142 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
18678098 GTATAAATTT
*
18678108 CATTTTTATTAAAAAA
1 CATTTTAATTAAAAAA
*
18678124 CATTTTAATTGAAAAA
1 CATTTTAATTAAAAAA
18678140 CAT
1 CAT
18678143 AATATTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.49, C:0.09, G:0.03, T:0.40
Consensus pattern (16 bp):
CATTTTAATTAAAAAA
Found at i:18679386 original size:19 final size:19
Alignment explanation
Indices: 18679362--18679399 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
18679352 ACTTCTAAAT
18679362 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
18679381 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
18679400 AGTCAAATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:18680238 original size:28 final size:28
Alignment explanation
Indices: 18680198--18680270 Score: 110
Period size: 28 Copynumber: 2.6 Consensus size: 28
18680188 CTTTCCAATG
* *
18680198 GAAATTCCATTGGAAAACACTGCAGAAA
1 GAAATTCCGTTGGAAAACACTACAGAAA
* *
18680226 GAAAATCCGTTGGACAACACTACAGAAA
1 GAAATTCCGTTGGAAAACACTACAGAAA
18680254 GAAATTCCGTTGGAAAA
1 GAAATTCCGTTGGAAAA
18680271 GAGAATTGAG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.45, C:0.18, G:0.19, T:0.18
Consensus pattern (28 bp):
GAAATTCCGTTGGAAAACACTACAGAAA
Found at i:18680321 original size:30 final size:30
Alignment explanation
Indices: 18680285--18680361 Score: 154
Period size: 30 Copynumber: 2.6 Consensus size: 30
18680275 ATTGAGACAA
18680285 AAAATTCTGTTGGAAACGGTGTTCCAACAG
1 AAAATTCTGTTGGAAACGGTGTTCCAACAG
18680315 AAAATTCTGTTGGAAACGGTGTTCCAACAG
1 AAAATTCTGTTGGAAACGGTGTTCCAACAG
18680345 AAAATTCTGTTGGAAAC
1 AAAATTCTGTTGGAAAC
18680362 AATTCCATTG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (30 bp):
AAAATTCTGTTGGAAACGGTGTTCCAACAG
Found at i:18680411 original size:28 final size:30
Alignment explanation
Indices: 18680362--18680433 Score: 78
Period size: 28 Copynumber: 2.5 Consensus size: 30
18680352 TGTTGGAAAC
* *
18680362 AATTCCATTGGAAATGAGTTTCCAA-CG-A
1 AATTCCGTTGGAAATGACTTTCCAATCGAA
*
18680390 AATTCCGTTGGAAAT-ATCTTTCCAATGGAA
1 AATTCCGTTGGAAATGA-CTTTCCAATCGAA
*
18680420 AATTCGGTTGGAAA
1 AATTCCGTTGGAAA
18680434 AATTTTCGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
27 1 0.03
28 21 0.57
29 1 0.03
30 14 0.38
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (30 bp):
AATTCCGTTGGAAATGACTTTCCAATCGAA
Found at i:18680413 original size:73 final size:73
Alignment explanation
Indices: 18680336--18680495 Score: 214
Period size: 73 Copynumber: 2.2 Consensus size: 73
18680326 GGAAACGGTG
* *
18680336 TTCCAACAGAAAATTCTGTTGGAAACAA-TTCCATTGGAAATGAGTTTCCAACGAAATTCCGTTG
1 TTCCAACAGAAAATTCGGTTGGAAA-AATTTCCATTGGAAATGAGTTTCCAACGAAATTCCATTG
18680400 GAAATATCT
65 GAAATATCT
** * * *
18680409 TTCCAATGGAAAATTCGGTTGGAAAAATTTTCGTTGGAAATGAGTTTCCAACGGAATTCCATTGG
1 TTCCAACAGAAAATTCGGTTGGAAAAATTTCCATTGGAAATGAGTTTCCAACGAAATTCCATTGG
* *
18680474 AAATGTTT
66 AAATATCT
18680482 TTCCAACAGCAAAA
1 TTCCAACAG-AAAA
18680496 CCTTGAAAAT
Statistics
Matches: 74, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
72 2 0.03
73 68 0.92
74 4 0.05
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (73 bp):
TTCCAACAGAAAATTCGGTTGGAAAAATTTCCATTGGAAATGAGTTTCCAACGAAATTCCATTGG
AAATATCT
Found at i:18695762 original size:28 final size:29
Alignment explanation
Indices: 18695719--18695780 Score: 72
Period size: 28 Copynumber: 2.1 Consensus size: 29
18695709 ATGTCTATGG
*
18695719 GTAATTTTTCAATTTT-TGGGGCAAAAAT
1 GTAATTTTTCAATTTTAGGGGGCAAAAAT
* * *
18695747 GTAATTTTTGACTTTTACGGGGGCAAAAGT
1 GTAATTTTTCAATTTTA-GGGGGCAAAAAT
18695777 GTAA
1 GTAA
18695781 ATTTCAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 14 0.50
30 14 0.50
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.39
Consensus pattern (29 bp):
GTAATTTTTCAATTTTAGGGGGCAAAAAT
Found at i:18704675 original size:38 final size:38
Alignment explanation
Indices: 18704624--18704747 Score: 146
Period size: 38 Copynumber: 3.2 Consensus size: 38
18704614 TCGTCGACCA
* *
18704624 CCCAAGAATCAAGCTCTTTCTCTCTCTCTTTGCCGGCT
1 CCCAAAAATCAAGCTCTTTCTCTCTCCCTTTGCCGGCT
*
18704662 CCCAAAAATCAAGCTCTCTCTCTCTCTCCCTTTCGCCAGCT
1 CCCAAAAATCAAGCTCT-T-TCTCTCTCCCTTT-GCCGGCT
*
18704703 -CCAAAAATTCAAG--CTTTCTCTGTCCCTTTGCCGGCT
1 CCCAAAAA-TCAAGCTCTTTCTCTCTCCCTTTGCCGGCT
18704739 ACCCAAAAA
1 -CCCAAAAA
18704748 CTTTAATCTT
Statistics
Matches: 75, Mismatches: 5, Indels: 12
0.82 0.05 0.13
Matches are distributed among these distances:
36 6 0.08
37 12 0.16
38 24 0.32
39 3 0.04
40 19 0.25
41 11 0.15
ACGTcount: A:0.22, C:0.38, G:0.10, T:0.30
Consensus pattern (38 bp):
CCCAAAAATCAAGCTCTTTCTCTCTCCCTTTGCCGGCT
Found at i:18707920 original size:14 final size:14
Alignment explanation
Indices: 18707901--18707929 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
18707891 CAGAATACTT
18707901 TGGAGCTAATTTAG
1 TGGAGCTAATTTAG
18707915 TGGAGCTAATTTAG
1 TGGAGCTAATTTAG
18707929 T
1 T
18707930 ATTAATCCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.07, G:0.28, T:0.38
Consensus pattern (14 bp):
TGGAGCTAATTTAG
Found at i:18716236 original size:14 final size:16
Alignment explanation
Indices: 18716213--18716244 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
18716203 TCTTTATTTT
18716213 TTTTTATTTTAAT-TC
1 TTTTTATTTTAATATC
18716228 TTTTT-TTTTAATATC
1 TTTTTATTTTAATATC
18716243 TT
1 TT
18716245 ATCGTATCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTTATTTTAATATC
Found at i:18717517 original size:56 final size:54
Alignment explanation
Indices: 18717431--18717538 Score: 153
Period size: 56 Copynumber: 2.0 Consensus size: 54
18717421 GCCTCGTTGC
* * * *
18717431 CAATTCTCATGAAGTTTCGTCCTTGGCTTTGCAAAAGTAAAATAATGGACGGAAAT
1 CAATTCTCAAGAACTTTCGTCCTTGCCTTTGC-AAAGT-AAACAATGGACGGAAAT
*
18717487 CAATTGTCAAGAACTTTCGTCCTTGCCTTTGCAAAGTAAACAATGGACGGAA
1 CAATTCTCAAGAACTTTCGTCCTTGCCTTTGCAAAGTAAACAATGGACGGAA
18717539 CACCAATTTC
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
54 14 0.30
55 5 0.11
56 28 0.60
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (54 bp):
CAATTCTCAAGAACTTTCGTCCTTGCCTTTGCAAAGTAAACAATGGACGGAAAT
Found at i:18722595 original size:18 final size:20
Alignment explanation
Indices: 18722574--18722611 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
18722564 ATAAATATTT
18722574 ATTTAAAA-T-TTTTAAATA
1 ATTTAAAATTATTTTAAATA
18722592 ATTTAAAATTATTTTAAATA
1 ATTTAAAATTATTTTAAATA
18722612 TTATGTCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.44
19 1 0.06
20 9 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATTTAAAATTATTTTAAATA
Found at i:18724282 original size:84 final size:85
Alignment explanation
Indices: 18724184--18724353 Score: 202
Period size: 85 Copynumber: 2.0 Consensus size: 85
18724174 ATCACAAAGT
* * *
18724184 ATTTAGAATATATAG-ACCTATTTTTCATAACTATA-ATG-TACATGAGAACTATCAGCAAACAT
1 ATTTAGAATATATAGAACCTATCTTTCATAA-TAGAGATGAAAC-TGAGAACTATCAGCAAACAT
*
18724246 TTTACTTGTGCATTAAATGCAA
64 TTTACTTGTGCATCAAATGCAA
* * * * * * *
18724268 ATTTAGAATATATAGAATCTATCTTTCATGATGGAGATGAAACTGAGAATTTTGAGCAAGCATTT
1 ATTTAGAATATATAGAACCTATCTTTCATAATAGAGATGAAACTGAGAACTATCAGCAAACATTT
18724333 TACTTGTGCATCAAATGCAA
66 TACTTGTGCATCAAATGCAA
18724353 A
1 A
18724354 ATGTCAGCAT
Statistics
Matches: 72, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
84 17 0.24
85 53 0.74
86 2 0.03
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (85 bp):
ATTTAGAATATATAGAACCTATCTTTCATAATAGAGATGAAACTGAGAACTATCAGCAAACATTT
TACTTGTGCATCAAATGCAA
Found at i:18734604 original size:2 final size:2
Alignment explanation
Indices: 18734597--18734654 Score: 64
Period size: 2 Copynumber: 29.5 Consensus size: 2
18734587 AATACGACAA
* * *
18734597 AT AT AT AT AT AT AT AT AT AT AT GT AT GT AT GT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
18734639 GT AT AA AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT A
18734655 ATGCAATAAA
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18736005 original size:28 final size:28
Alignment explanation
Indices: 18735952--18736006 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 28
18735942 TTTGATTTAA
*
18735952 AATAAAAATATAAGGACTTAATTGAATGT
1 AATAAAAAAATAAGGACTT-ATTGAATGT
18735981 AATAAAAAAATAAGGACCTT-TTGAAT
1 AATAAAAAAATAAGGA-CTTATTGAAT
18736007 ATTTTGAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 6 0.25
29 15 0.62
30 3 0.12
ACGTcount: A:0.53, C:0.05, G:0.13, T:0.29
Consensus pattern (28 bp):
AATAAAAAAATAAGGACTTATTGAATGT
Found at i:18743708 original size:46 final size:45
Alignment explanation
Indices: 18743619--18743744 Score: 184
Period size: 46 Copynumber: 2.8 Consensus size: 45
18743609 TCTAGCGTCT
18743619 TAAAAATTAAGCTTTTTTTAATATAATTAAGTTTTGCCCTTTTTTC
1 TAAAAATTAAG-TTTTTTTAATATAATTAAGTTTTGCCCTTTTTTC
*
18743665 TAAAAATTAAGTTTTTTTAATATAATTAAGCTTTT-CCTTTTTTTC
1 TAAAAATTAAGTTTTTTTAATATAATTAAG-TTTTGCCCTTTTTTC
*
18743710 TAAAATAATTAAG-TTTTTTAATATAATTAGGTTTT
1 T-AAA-AATTAAGTTTTTTTAATATAATTAAGTTTT
18743745 TTCTAATATA
Statistics
Matches: 75, Mismatches: 2, Indels: 7
0.89 0.02 0.08
Matches are distributed among these distances:
45 33 0.44
46 35 0.47
47 7 0.09
ACGTcount: A:0.33, C:0.07, G:0.06, T:0.53
Consensus pattern (45 bp):
TAAAAATTAAGTTTTTTTAATATAATTAAGTTTTGCCCTTTTTTC
Found at i:18743735 original size:18 final size:20
Alignment explanation
Indices: 18743703--18743756 Score: 76
Period size: 18 Copynumber: 2.8 Consensus size: 20
18743693 AGCTTTTCCT
*
18743703 TTTTTTCTAAAATAATTAAG
1 TTTTTTCTAATATAATTAAG
*
18743723 -TTTTT-TAATATAATTAGG
1 TTTTTTCTAATATAATTAAG
18743741 TTTTTTCTAATATAAT
1 TTTTTTCTAATATAAT
18743757 ATAATTAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 11 0.37
19 10 0.33
20 9 0.30
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.56
Consensus pattern (20 bp):
TTTTTTCTAATATAATTAAG
Found at i:18743829 original size:20 final size:20
Alignment explanation
Indices: 18743806--18743879 Score: 89
Period size: 19 Copynumber: 3.8 Consensus size: 20
18743796 GGTTTTAATA
*
18743806 TTTTTCTTAAA-AATTAAGT
1 TTTTTCTAAAATAATTAAGT
18743825 TTTTTCTAAAATAATTAAGT
1 TTTTTCTAAAATAATTAAGT
* *
18743845 TTTTT-TAATATAATTAGGTT
1 TTTTTCTAAAATAATTAAG-T
*
18743865 TTTTTCTAATATAAT
1 TTTTTCTAAAATAAT
18743880 ATAATTAAGT
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 21 0.43
20 19 0.39
21 9 0.18
ACGTcount: A:0.35, C:0.04, G:0.05, T:0.55
Consensus pattern (20 bp):
TTTTTCTAAAATAATTAAGT
Found at i:18743846 original size:121 final size:123
Alignment explanation
Indices: 18743703--18743929 Score: 406
Period size: 123 Copynumber: 1.9 Consensus size: 123
18743693 AGCTTTTCCT
18743703 TTTTTTCTAAAATAATTAAG-TTTTTTAATATAATTAGG-TTTTTTCTAATATAATATAATTAAG
1 TTTTTTCTAAAATAATTAAGTTTTTTTAATATAATTAGGTTTTTTTCTAATATAATATAATTAAG
18743766 TTTTTTTCTTTTTTTTTCTAAAATAATTAAG-GTTTTAATATTTTTCTTAAAAATTAAG
66 TTTTTTTC-TTTTTTTTCTAAAATAATTAAGTGTTTTAATATTTTTCTTAAAAATTAAG
18743824 TTTTTTCTAAAATAATTAAGTTTTTTTAATATAATTAGGTTTTTTTCTAATATAATATAATTAAG
1 TTTTTTCTAAAATAATTAAGTTTTTTTAATATAATTAGGTTTTTTTCTAATATAATATAATTAAG
* *
18743889 TTTTTTTCTTTTTTTTCTAAAATGATTAAGTTTTTTAATAT
66 TTTTTTTCTTTTTTTTCTAAAATAATTAAGTGTTTTAATAT
18743930 AATTTAGTTT
Statistics
Matches: 101, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
121 20 0.20
122 39 0.39
123 42 0.42
ACGTcount: A:0.33, C:0.04, G:0.06, T:0.57
Consensus pattern (123 bp):
TTTTTTCTAAAATAATTAAGTTTTTTTAATATAATTAGGTTTTTTTCTAATATAATATAATTAAG
TTTTTTTCTTTTTTTTCTAAAATAATTAAGTGTTTTAATATTTTTCTTAAAAATTAAG
Found at i:18743860 original size:39 final size:37
Alignment explanation
Indices: 18743823--18744074 Score: 125
Period size: 40 Copynumber: 6.6 Consensus size: 37
18743813 TAAAAATTAA
18743823 GTTTTTTCTAAAATAATTAAGTTTTTTTAATATAATT
1 GTTTTTTCTAAAATAATTAAGTTTTTTTAATATAATT
* *
18743860 AGGTTTTTTTCTAATATAATATAA-TTAAGTTTTT--T-T-CTT
1 --G-TTTTTTCTAAAATAAT-TAAGTT---TTTTTAATATAATT
*
18743899 -TTTTTTCTAAAATGATTAAG-TTTTTTAATATAATTT
1 GTTTTTTCTAAAATAATTAAGTTTTTTTAATATAA-TT
* * *
18743935 AGTTTGTTACTAATATAATATAA-TAAGTTTTTT--T-T-CTT
1 -GTTT-TTTCTAAAATAAT-TAAGT---TTTTTTAATATAATT
* * *
18743973 -TTCTTCCTAAAATAATTAAATTTTTTCTAATATAATT
1 GTTTTTTCTAAAATAATTAAGTTTTTT-TAATATAATT
** *
18744010 AGGTTTAGTGTAAAATAATTAAGTTTTTTTAATATAATT
1 --GTTTTTTCTAAAATAATTAAGTTTTTTTAATATAATT
*
18744049 GTTTTTTGTCTAATATAATTAAGTTT
1 G-TTTTT-TCTAAAATAATTAAGTTT
18744075 AGCATTATTT
Statistics
Matches: 160, Mismatches: 23, Indels: 60
0.66 0.09 0.25
Matches are distributed among these distances:
31 5 0.03
32 5 0.03
33 2 0.01
34 8 0.05
35 27 0.17
36 5 0.03
37 3 0.02
38 8 0.05
39 39 0.24
40 42 0.26
41 5 0.03
43 11 0.07
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.55
Consensus pattern (37 bp):
GTTTTTTCTAAAATAATTAAGTTTTTTTAATATAATT
Found at i:18743908 original size:75 final size:75
Alignment explanation
Indices: 18743824--18744015 Score: 282
Period size: 74 Copynumber: 2.6 Consensus size: 75
18743814 AAAAATTAAG
* *
18743824 TTTTTTCTAAAATAATTAAGTTTTTTTAATATAATTAGGTTTTTTTCTAATATAATATAATTAAG
1 TTTTTTCTAAAATAATTAAGTTTTTTTAATATAATTAGGTTTGTTACTAATATAATATAA-TAAG
18743889 -TTTTTTTCTT
65 TTTTTTTTCTT
*
18743899 TTTTTTCTAAAATGATTAAG-TTTTTTAATATAATTTA-GTTTGTTACTAATATAATATAATAAG
1 TTTTTTCTAAAATAATTAAGTTTTTTTAATATAA-TTAGGTTTGTTACTAATATAATATAATAAG
18743962 TTTTTTTTCTT
65 TTTTTTTTCTT
* * *
18743973 TTCTTCCTAAAATAATTAAATTTTTTCTAATATAATTAGGTTT
1 TTTTTTCTAAAATAATTAAGTTTTTT-TAATATAATTAGGTTT
18744016 AGTGTAAAAT
Statistics
Matches: 105, Mismatches: 7, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
73 4 0.04
74 59 0.56
75 30 0.29
76 12 0.11
ACGTcount: A:0.33, C:0.05, G:0.06, T:0.56
Consensus pattern (75 bp):
TTTTTTCTAAAATAATTAAGTTTTTTTAATATAATTAGGTTTGTTACTAATATAATATAATAAGT
TTTTTTTCTT
Found at i:18743960 original size:122 final size:118
Alignment explanation
Indices: 18743637--18743948 Score: 348
Period size: 123 Copynumber: 2.6 Consensus size: 118
18743627 AAGCTTTTTT
* ** * *
18743637 TAATATAATTAAG--TTTTGCCCTTTTTTCTAAAA-ATTAAGTTTTTTTAATATAATTAAGCTTT
1 TAATATAATTAAGTTTTTTTCTTTTTTTTCTAAAATATTAAG-TTTTTTAATATAATTTAGTTTT
* **
18743699 TCCTTTTTTTCTAAAATAATTAAGTTTTTTAATATAATTAGGTTTTTTCTAATA
65 TACTAATTTTCTAAAATAATTAAGTTTTTTAATATAATTAGGTTTTTTCTAATA
* **
18743753 TAATATAATTAAGTTTTTTTCTTTTTTTTTCTAAAATAATTAAG-GTTTTAATAT--TTTTCTTA
1 TAATATAATTAAGTTTTTTTC-TTTTTTTTCTAAAAT-ATTAAGTTTTTTAATATAATTTAGTT-
*** *
18743815 AAAATTAAGTTTTTTCTAAAATAATTAAGTTTTTTTAATATAATTAGGTTTTTTTCTAATA
63 TTTACTAA---TTTTCTAAAATAATTAAG-TTTTTTAATATAATTAGG-TTTTTTCTAATA
18743876 TAATATAATTAAGTTTTTTTCTTTTTTTTCTAAAATGATTAAGTTTTTTAATATAATTTAGTTTG
1 TAATATAATTAAGTTTTTTTCTTTTTTTTCTAAAAT-ATTAAGTTTTTTAATATAATTTAGTTT-
18743941 TTACTAAT
64 TTACTAAT
18743949 ATAATATAAT
Statistics
Matches: 158, Mismatches: 23, Indels: 24
0.77 0.11 0.12
Matches are distributed among these distances:
116 13 0.08
117 3 0.02
118 6 0.04
119 21 0.13
121 24 0.15
122 40 0.25
123 42 0.27
125 9 0.06
ACGTcount: A:0.33, C:0.05, G:0.06, T:0.55
Consensus pattern (118 bp):
TAATATAATTAAGTTTTTTTCTTTTTTTTCTAAAATATTAAGTTTTTTAATATAATTTAGTTTTT
ACTAATTTTCTAAAATAATTAAGTTTTTTAATATAATTAGGTTTTTTCTAATA
Found at i:18743964 original size:196 final size:186
Alignment explanation
Indices: 18743682--18744067 Score: 496
Period size: 196 Copynumber: 2.0 Consensus size: 186
18743672 TAAGTTTTTT
*
18743682 TAATATAATTAAGCTTTTCCTTTTTTTCTAAAATAATTAAGTTTTTTAATATAATTAGGTTTTTT
1 TAATATAATTAAGCTTTTCCTTTTTTTCTAAAATAATTAAGTTTTTTAATATAATTAGGTTTTTA
* *
18743747 CTAATATAATATAATTAAG-TTTTTTTCTTTTTTTTTCTAAAATAATTAAGGTTTTAATATTTTT
66 CTAATATAATATAATTAAGTTTTTTTTC-TTTTCTTCCTAAAATAATT-A------AAT-TTTTT
**
18743811 CTTAA-A-AATTAAGTTTTTTCTAAAATAATTAAGTTTTTTTAATATAATTAGGTTTTTT-TCTA
122 C-TAATATAATTAAGTTTAGTCTAAAATAATTAAGTTTTTTTAATATAATT--GTTTTTTGTCTA
18743873 ATA
184 ATA
* * *
18743876 TAATATAATTAAGTTTTTTTCTTTTTTTTCTAAAATGATTAAGTTTTTTAATATAATTTA-GTTT
1 TAATATAATTAAG--CTTTTCCTTTTTTTCTAAAATAATTAAGTTTTTTAATATAA-TTAGGTTT
18743940 GTTACTAATATAATATAA-TAAGTTTTTTTTCTTTTCTTCCTAAAATAATTAAATTTTTTCTAAT
63 -TTACTAATATAATATAATTAAGTTTTTTTTCTTTTCTTCCTAAAATAATTAAATTTTTTCTAAT
* *
18744004 ATAATTAGGTTTAGTGTAAAATAATTAAGTTTTTTTAATATAATTGTTTTTTGTCTAATA
127 ATAATTAAGTTTAGTCTAAAATAATTAAGTTTTTTTAATATAATTGTTTTTTGTCTAATA
18744064 TAAT
1 TAAT
18744068 TAAGTTTAGC
Statistics
Matches: 174, Mismatches: 10, Indels: 22
0.84 0.05 0.11
Matches are distributed among these distances:
187 10 0.06
188 18 0.10
189 42 0.24
194 13 0.07
195 1 0.01
196 63 0.36
197 27 0.16
ACGTcount: A:0.34, C:0.05, G:0.06, T:0.55
Consensus pattern (186 bp):
TAATATAATTAAGCTTTTCCTTTTTTTCTAAAATAATTAAGTTTTTTAATATAATTAGGTTTTTA
CTAATATAATATAATTAAGTTTTTTTTCTTTTCTTCCTAAAATAATTAAATTTTTTCTAATATAA
TTAAGTTTAGTCTAAAATAATTAAGTTTTTTTAATATAATTGTTTTTTGTCTAATA
Found at i:18744007 original size:20 final size:20
Alignment explanation
Indices: 18743979--18744074 Score: 90
Period size: 20 Copynumber: 4.8 Consensus size: 20
18743969 TCTTTTCTTC
* *
18743979 CTAAAATAATTAAATTTTTT
1 CTAATATAATTAAGTTTTTT
* **
18743999 CTAATATAATTAGGTTTAGT
1 CTAATATAATTAAGTTTTTT
* *
18744019 GTAAAATAATTAAGTTTTTT
1 CTAATATAATTAAGTTTTTT
18744039 -TAATATAATT--GTTTTTTGT
1 CTAATATAATTAAG-TTTTT-T
18744058 CTAATATAATTAAGTTT
1 CTAATATAATTAAGTTT
18744075 AGCATTATTT
Statistics
Matches: 60, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
17 1 0.02
18 5 0.08
19 10 0.17
20 40 0.67
21 3 0.05
22 1 0.02
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.51
Consensus pattern (20 bp):
CTAATATAATTAAGTTTTTT
Found at i:18744433 original size:25 final size:22
Alignment explanation
Indices: 18744388--18744435 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 22
18744378 ATAAGTTTTT
18744388 ATTTTTTATTTTATTTAATTTA
1 ATTTTTTATTTTATTTAATTTA
18744410 ATTTTTATAGTTTTATTTTAATTTA
1 ATTTTT-TA-TTTTA-TTTAATTTA
18744435 A
1 A
18744436 ACTAAATAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.26
23 2 0.09
24 5 0.22
25 10 0.43
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (22 bp):
ATTTTTTATTTTATTTAATTTA
Found at i:18760494 original size:8 final size:8
Alignment explanation
Indices: 18760454--18760509 Score: 57
Period size: 8 Copynumber: 7.2 Consensus size: 8
18760444 TAACTTATAC
*
18760454 ATATTGAT
1 ATATTAAT
18760462 ATA-TAAGT
1 ATATTAA-T
18760470 A-ATTAAT
1 ATATTAAT
18760477 ATTATT-AT
1 A-TATTAAT
18760485 ATATTAAT
1 ATATTAAT
18760493 ATA-TAAT
1 ATATTAAT
18760500 ATATTAAT
1 ATATTAAT
18760508 AT
1 AT
18760510 TTATCTATAA
Statistics
Matches: 41, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
7 16 0.39
8 22 0.54
9 3 0.07
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (8 bp):
ATATTAAT
Found at i:18760499 original size:23 final size:22
Alignment explanation
Indices: 18760473--18760527 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
18760463 TATAAGTAAT
18760473 TAATATTATTATATATTAATATA
1 TAATATTATTA-ATATTAATATA
* *
18760496 TAATA-TATTAATATTTATCTA
1 TAATATTATTAATATTAATATA
18760517 TAAATATTATT
1 T-AATATTATT
18760528 TTGTACATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 10 0.36
22 9 0.32
23 9 0.32
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (22 bp):
TAATATTATTAATATTAATATA
Found at i:18760503 original size:15 final size:15
Alignment explanation
Indices: 18760454--18760509 Score: 69
Period size: 15 Copynumber: 3.7 Consensus size: 15
18760444 TAACTTATAC
*
18760454 ATATTGATATATAAGT
1 ATATTAATATATAA-T
*
18760470 A-ATTAATATTATTAT
1 ATATTAATA-TATAAT
18760485 ATATTAATATATAAT
1 ATATTAATATATAAT
18760500 ATATTAATAT
1 ATATTAATAT
18760510 TTATCTATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
15 23 0.66
16 12 0.34
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (15 bp):
ATATTAATATATAAT
Found at i:18760503 original size:25 final size:22
Alignment explanation
Indices: 18760474--18760560 Score: 61
Period size: 23 Copynumber: 3.9 Consensus size: 22
18760464 ATAAGTAATT
18760474 AATATTATTATATATTA-ATATA
1 AATATTATTATAT-TTATATATA
*
18760496 TAATA-TATTAATATTTATCTATA
1 -AATATTATT-ATATTTATATATA
* * **
18760519 AATATTATTTTGTACATATATA
1 AATATTATTATATTTATATATA
* *
18760541 TAATACTATAATATTTATAT
1 -AATATTATTATATTTATAT
18760561 TTTATAAAGT
Statistics
Matches: 48, Mismatches: 12, Indels: 8
0.71 0.18 0.12
Matches are distributed among these distances:
22 19 0.40
23 29 0.60
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (22 bp):
AATATTATTATATTTATATATA
Found at i:18761487 original size:29 final size:31
Alignment explanation
Indices: 18761444--18761509 Score: 91
Period size: 29 Copynumber: 2.2 Consensus size: 31
18761434 ACAGATTCTA
*
18761444 AATTTAATCCCTATACTCTTTCAAAAT-TTG
1 AATTTAATCCCTATACTCTATCAAAATGTTG
* *
18761474 -ATTTAATCCTTATATTCTATCAAAATGTTG
1 AATTTAATCCCTATACTCTATCAAAATGTTG
18761504 AATTTA
1 AATTTA
18761510 GTTCATGTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 23 0.74
30 3 0.10
31 5 0.16
ACGTcount: A:0.35, C:0.15, G:0.05, T:0.45
Consensus pattern (31 bp):
AATTTAATCCCTATACTCTATCAAAATGTTG
Found at i:18767789 original size:14 final size:15
Alignment explanation
Indices: 18767772--18767800 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18767762 TTTACATCTA
18767772 TTATT-TTAAAATAT
1 TTATTATTAAAATAT
18767786 TTATTATTAAAATAT
1 TTATTATTAAAATAT
18767801 GAAAAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TTATTATTAAAATAT
Found at i:18767821 original size:22 final size:24
Alignment explanation
Indices: 18767779--18767831 Score: 74
Period size: 22 Copynumber: 2.2 Consensus size: 24
18767769 CTATTATTTT
18767779 AAAATATTTATTATTAAAATATGAA
1 AAAATATTTATTATT-AAATATGAA
*
18767804 AAAATATTTA-TATT-AATATTAA
1 AAAATATTTATTATTAAATATGAA
18767826 AAAATA
1 AAAATA
18767832 GTAATATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 13 0.48
24 4 0.15
25 10 0.37
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (24 bp):
AAAATATTTATTATTAAATATGAA
Found at i:18767846 original size:23 final size:22
Alignment explanation
Indices: 18767796--18767850 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
18767786 TTATTATTAA
* * *
18767796 AATATGAAAAAATATTTATATT
1 AATATTAAAAAATAGTAATATT
18767818 AATATTAAAAAATAGTAATATTT
1 AATATTAAAAAATAGTAATA-TT
*
18767841 ATTATTAAAA
1 AATATTAAAA
18767851 TATAAAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 17 0.61
23 11 0.39
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (22 bp):
AATATTAAAAAATAGTAATATT
Found at i:18767869 original size:30 final size:28
Alignment explanation
Indices: 18767782--18767870 Score: 89
Period size: 30 Copynumber: 3.2 Consensus size: 28
18767772 TTATTTTAAA
*
18767782 ATATTTATTATTAAAATAT-GAAAA-A-
1 ATATTTATTATTAAAATATAAAAAATAT
*
18767807 ATATTTA-TATTAATAT-TAAAAAATAGT
1 ATATTTATTATTAAAATATAAAAAATA-T
18767834 AATATTTATTATTAAAATATAAAAAATCCAT
1 -ATATTTATTATTAAAATATAAAAAAT--AT
18767865 ATATTT
1 ATATTT
18767871 TAAAATATTA
Statistics
Matches: 52, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
23 1 0.02
24 12 0.23
25 8 0.15
28 7 0.13
29 8 0.15
30 14 0.27
31 1 0.02
32 1 0.02
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (28 bp):
ATATTTATTATTAAAATATAAAAAATAT
Found at i:18767876 original size:46 final size:52
Alignment explanation
Indices: 18767781--18767892 Score: 137
Period size: 46 Copynumber: 2.2 Consensus size: 52
18767771 ATTATTTTAA
**
18767781 AATATTTATTATTAAAATATGAAAAAATATTTATATTAATATTAAAAAATAGT
1 AATATTTATTATTAAAATAT-AAAAAATATCCATATTAATATTAAAAAATAGT
* *
18767834 AATATTTATTATTAAAATAT-AAAAA-ATCCATA-T-AT-TT-TAAAATATT
1 AATATTTATTATTAAAATATAAAAAATATCCATATTAATATTAAAAAATAGT
18767880 AATATTTATTATT
1 AATATTTATTATT
18767893 TACTATTAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
46 20 0.36
47 2 0.04
48 2 0.04
49 1 0.02
50 5 0.09
51 5 0.09
53 20 0.36
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (52 bp):
AATATTTATTATTAAAATATAAAAAATATCCATATTAATATTAAAAAATAGT
Found at i:18767892 original size:23 final size:23
Alignment explanation
Indices: 18767804--18767893 Score: 60
Period size: 22 Copynumber: 4.0 Consensus size: 23
18767794 AAAATATGAA
* * **
18767804 AAAATATTTATA-TTAATATTAA
1 AAAATATTAATATTTATTATTTT
*
18767826 AAAATAGTAATATTTATTA--TT
1 AAAATATTAATATTTATTATTTT
* * **
18767847 AAAATATAAAAAATCCATATATTTT
1 AAAATAT-TAATATTTAT-TATTTT
18767872 AAAATATTAATATTTATTATTT
1 AAAATATTAATATTTATTATTT
18767894 ACTATTAAAA
Statistics
Matches: 49, Mismatches: 14, Indels: 9
0.68 0.19 0.12
Matches are distributed among these distances:
21 6 0.12
22 16 0.33
23 12 0.24
24 6 0.12
25 9 0.18
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (23 bp):
AAAATATTAATATTTATTATTTT
Found at i:18774632 original size:5 final size:5
Alignment explanation
Indices: 18774610--18774684 Score: 59
Period size: 5 Copynumber: 15.4 Consensus size: 5
18774600 AGCCATCCCG
* * * *
18774610 ATTTT TTTTT TTTATT ATTTT A-TTT ATTTT ATTTT A-TTT AATTT AATTT
1 ATTTT ATTTT ATT-TT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
*
18774659 ATATTT A-TTT A-TTT ATTTT AATTT AT
1 AT-TTT ATTTT ATTTT ATTTT ATTTT AT
18774685 GTGTCTACAC
Statistics
Matches: 60, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
4 16 0.27
5 36 0.60
6 8 0.13
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (5 bp):
ATTTT
Found at i:18774641 original size:14 final size:14
Alignment explanation
Indices: 18774610--18774684 Score: 68
Period size: 14 Copynumber: 5.4 Consensus size: 14
18774600 AGCCATCCCG
*
18774610 ATTT-TTTTTTTTT
1 ATTTATTTTATTTT
18774623 A-TTATTTTA-TTT
1 ATTTATTTTATTTT
*
18774635 ATTTTATTTTATTTA
1 A-TTTATTTTATTTT
*
18774650 ATTTAATTTATATTT
1 ATTTATTTTAT-TTT
18774665 ATTTA-TTTATTTT
1 ATTTATTTTATTTT
18774678 AATTTAT
1 -ATTTAT
18774685 GTGTCTACAC
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
12 6 0.12
13 8 0.16
14 27 0.53
15 10 0.20
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (14 bp):
ATTTATTTTATTTT
Found at i:18774678 original size:24 final size:24
Alignment explanation
Indices: 18774610--18774684 Score: 95
Period size: 24 Copynumber: 3.2 Consensus size: 24
18774600 AGCCATCCCG
*
18774610 ATTT-TTTTTTTTTA-TTATTTT-
1 ATTTATTTTATTTTATTTATTTTA
*
18774631 ATTTATTTTATTTTATTTAATTTA
1 ATTTATTTTATTTTATTTATTTTA
18774655 ATTTATATTTA-TTTATTTATTTTA
1 ATTTAT-TTTATTTTATTTATTTTA
18774679 ATTTAT
1 ATTTAT
18774685 GTGTCTACAC
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
21 4 0.09
22 9 0.19
23 6 0.13
24 24 0.51
25 4 0.09
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (24 bp):
ATTTATTTTATTTTATTTATTTTA
Found at i:18782854 original size:12 final size:12
Alignment explanation
Indices: 18782837--18782893 Score: 50
Period size: 12 Copynumber: 4.9 Consensus size: 12
18782827 GGTGAATATC
18782837 TAACTAATAAAT
1 TAACTAATAAAT
*
18782849 TAACTAATATA-
1 TAACTAATAAAT
*
18782860 T-A-T-ATATAT
1 TAACTAATAAAT
18782869 ATATACTAATAAAT
1 -TA-ACTAATAAAT
18782883 TAACTAATAAA
1 TAACTAATAAA
18782894 GATTTGATGG
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
8 5 0.14
9 1 0.03
10 2 0.05
11 1 0.03
12 20 0.54
13 3 0.08
14 5 0.14
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (12 bp):
TAACTAATAAAT
Found at i:18784002 original size:20 final size:21
Alignment explanation
Indices: 18783974--18784013 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
18783964 CTGCTTAGGT
*
18783974 ATTCTAATATCTATTAGTTGA
1 ATTCTAATACCTATTAGTTGA
18783995 ATTC-AATACCTATTAGTTG
1 ATTCTAATACCTATTAGTTG
18784014 TCTGACCATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (21 bp):
ATTCTAATACCTATTAGTTGA
Found at i:18785632 original size:16 final size:16
Alignment explanation
Indices: 18785611--18785661 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
18785601 ACTGAAAAAT
18785611 TAATTATTTTT-ATATA
1 TAATTATTTTTAAT-TA
*
18785627 TAATTATCTTTCAATTA
1 TAATTAT-TTTTAATTA
* *
18785644 TAATTGTTTTTAGTTA
1 TAATTATTTTTAATTA
18785660 TA
1 TA
18785662 GATAATTAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
16 16 0.55
17 11 0.38
18 2 0.07
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (16 bp):
TAATTATTTTTAATTA
Found at i:18810493 original size:85 final size:84
Alignment explanation
Indices: 18810350--18810518 Score: 304
Period size: 85 Copynumber: 2.0 Consensus size: 84
18810340 AAAATTCAGA
18810350 TTTTCATGCCAAAATTTCCCATTAAATTTCTAGCCTCACCAATCATTAAATACCACCAAAATATC
1 TTTTCATGCCAAAATTTCCCATTAAATTTCTAGCCTCACCAATCATTAAATACCACCAAAATATC
18810415 ATGAAATATCATCAATTTC
66 ATGAAATATCATCAATTTC
*
18810434 NTTTTCATGCCAAAATTTTCCATTAAATTTCTAGCCTCACCAATCATTAAATGA-CACCAAAATA
1 -TTTTCATGCCAAAATTTCCCATTAAATTTCTAGCCTCACCAATCATTAAAT-ACCACCAAAATA
18810498 TCATGAAATATCATCAATTTC
64 TCATGAAATATCATCAATTTC
18810519 AGCCTCAATA
Statistics
Matches: 82, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
85 81 0.99
86 1 0.01
ACGTcount: A:0.38, C:0.24, G:0.04, T:0.34
Consensus pattern (84 bp):
TTTTCATGCCAAAATTTCCCATTAAATTTCTAGCCTCACCAATCATTAAATACCACCAAAATATC
ATGAAATATCATCAATTTC
Found at i:18817040 original size:6 final size:6
Alignment explanation
Indices: 18817016--18817055 Score: 57
Period size: 6 Copynumber: 6.8 Consensus size: 6
18817006 TTTAAATTTT
18817016 TTTA-A TTTATA -TTATTA TTTATA TTTATA TTTATA TTTAT
1 TTTATA TTTATA TTTA-TA TTTATA TTTATA TTTATA TTTAT
18817056 TTATTTTTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
5 7 0.22
6 22 0.69
7 3 0.09
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTATA
Found at i:18819992 original size:35 final size:35
Alignment explanation
Indices: 18819965--18820220 Score: 286
Period size: 35 Copynumber: 7.3 Consensus size: 35
18819955 TTAATTGTTT
18819965 AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
* * * *
18820000 AATTTAATTAATTAAGCCCAACAATTTAATTAAAC
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
* * *
18820035 AATTTTAATCAACTAGGCCTAATGACTTAATTAAAC
1 AA-TTTAATCAATTAGGCCCAATAACTTAATTAAAC
****
18820071 AAATTTAATCAATTAGGCCCAATAACTTAATTGTTT
1 -AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
* *
18820107 AATTTAATTAATTAGGCCCAATGACTTAATTAAAC
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
* *
18820142 AATTTAATTAATTAGGCCCAATGA-TTCAATTAAAC
1 AATTTAATCAATTAGGCCCAATAACTT-AATTAAAC
* * *
18820177 AATTTAGTTAATTAGG--C-ACAACTTAATTAAAC
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
18820209 AATTTTAATCAA
1 AA-TTTAATCAA
18820221 GTGCTTGAGA
Statistics
Matches: 187, Mismatches: 29, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
32 12 0.06
33 10 0.05
34 2 0.01
35 109 0.58
36 52 0.28
37 2 0.01
ACGTcount: A:0.44, C:0.14, G:0.07, T:0.35
Consensus pattern (35 bp):
AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
Found at i:18820087 original size:107 final size:105
Alignment explanation
Indices: 18819965--18820213 Score: 317
Period size: 107 Copynumber: 2.4 Consensus size: 105
18819955 TTAATTGTTT
*
18819965 AATTTAATCAATTAGGCCCAATAACTTAATTAAACAATTTAATTAATTAAGCCCAACAATTTAAT
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAACAATTTAATTAATTAAGCCCAACAACTTAAT
*
18820030 TAAACAATTTTAATCAACTAGGCCTAATGACTT-AATTAAAC
66 TAAACAA-TTTAATCAACTAGGCCCAATGA-TTCAATTAAAC
**** * **
18820071 AAATTTAATCAATTAGGCCCAATAACTTAATTGTTTAATTTAATTAATTAGGCCCAATGACTTAA
1 -AATTTAATCAATTAGGCCCAATAACTTAATTAAACAATTTAATTAATTAAGCCCAACAACTTAA
* *
18820136 TTAAACAATTTAATTAATTAGGCCCAATGATTCAATTAAAC
65 TTAAACAATTTAATCAACTAGGCCCAATGATTCAATTAAAC
* * *
18820177 AATTTAGTTAATTAGG--C-ACAACTTAATTAAACAATTT
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAACAATTT
18820214 TAATCAAGTG
Statistics
Matches: 123, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
102 15 0.12
103 1 0.01
105 16 0.13
106 27 0.22
107 64 0.52
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.35
Consensus pattern (105 bp):
AATTTAATCAATTAGGCCCAATAACTTAATTAAACAATTTAATTAATTAAGCCCAACAACTTAAT
TAAACAATTTAATCAACTAGGCCCAATGATTCAATTAAAC
Done.