Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 68 of 438
Found at i:17721047 original size:13 final size:13
Alignment explanation
Indices: 17721029--17721069 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
17721019 AAGTGAGATA
17721029 AAATAACTAAAAT
1 AAATAACTAAAAT
17721042 AAATAACTAAAAT
1 AAATAACTAAAAT
17721055 AAAATAA-T-AAAT
1 -AAATAACTAAAAT
17721067 AAA
1 AAA
17721070 AAATTAGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 3 0.11
12 4 0.15
13 14 0.52
14 6 0.22
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (13 bp):
AAATAACTAAAAT
Found at i:17721071 original size:18 final size:18
Alignment explanation
Indices: 17721036--17721070 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
17721026 ATAAAATAAC
*
17721036 TAAAATAAATAACTAAAA
1 TAAAATAAATAAATAAAA
17721054 TAAAAT-AATAAATAAAA
1 TAAAATAAATAAATAAAA
17721071 AATTAGAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (18 bp):
TAAAATAAATAAATAAAA
Found at i:17721072 original size:14 final size:14
Alignment explanation
Indices: 17721028--17721073 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
17721018 CAAGTGAGAT
17721028 AAAATAACT-AAAA
1 AAAATAACTAAAAA
* *
17721041 TAAATAACTAAAAT
1 AAAATAACTAAAAA
17721055 AAAATAA-TAAATAA
1 AAAATAACTAAA-AA
17721069 AAAAT
1 AAAAT
17721074 TAGAATAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
13 12 0.44
14 15 0.56
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.22
Consensus pattern (14 bp):
AAAATAACTAAAAA
Found at i:17726733 original size:27 final size:27
Alignment explanation
Indices: 17726701--17726759 Score: 118
Period size: 27 Copynumber: 2.2 Consensus size: 27
17726691 AGTTATATGC
17726701 TTATTGATTGTTATGAAAGCATGAATG
1 TTATTGATTGTTATGAAAGCATGAATG
17726728 TTATTGATTGTTATGAAAGCATGAATG
1 TTATTGATTGTTATGAAAGCATGAATG
17726755 TTATT
1 TTATT
17726760 ATGGTCGTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.32, C:0.03, G:0.20, T:0.44
Consensus pattern (27 bp):
TTATTGATTGTTATGAAAGCATGAATG
Found at i:17726948 original size:43 final size:47
Alignment explanation
Indices: 17726885--17727015 Score: 144
Period size: 51 Copynumber: 2.8 Consensus size: 47
17726875 AACTAAGGAG
* * *
17726885 TCCGAACTCGTTGAGTGGTCCGGGTTCATTATGGATGC-A-A-G-CA
1 TCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGCGATATGACA
*
17726928 TCCGAGCTCGTTGAGAGGTCCGAGTTCATAATGGATGCGATTCATGTAACA
1 TCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGCGA-T-ATG--ACA
* *
17726979 TCCGAGCTCGTTGAGAGGTCTGAGTTTATTATGGATG
1 TCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATG
17727016 TGTTACATGT
Statistics
Matches: 73, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
43 34 0.47
44 1 0.01
47 1 0.01
48 1 0.01
51 36 0.49
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.30
Consensus pattern (47 bp):
TCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGCGATATGACA
Found at i:17731421 original size:43 final size:43
Alignment explanation
Indices: 17731355--17731437 Score: 139
Period size: 43 Copynumber: 1.9 Consensus size: 43
17731345 GAAGTCAAGA
17731355 GACTCTAAAATACTGTCAGACACAACACGTTCAACTCTAAAGG
1 GACTCTAAAATACTGTCAGACACAACACGTTCAACTCTAAAGG
* **
17731398 GACTTTAAAATACTGTCAGACACAAGGCGTTCAACTCTAA
1 GACTCTAAAATACTGTCAGACACAACACGTTCAACTCTAA
17731438 CTTTTGAGAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.39, C:0.24, G:0.14, T:0.23
Consensus pattern (43 bp):
GACTCTAAAATACTGTCAGACACAACACGTTCAACTCTAAAGG
Found at i:17733808 original size:46 final size:46
Alignment explanation
Indices: 17733741--17733837 Score: 194
Period size: 46 Copynumber: 2.1 Consensus size: 46
17733731 ATTCAAAAGA
17733741 ACTTGAATCAACTCTCAATGATTTAATATAACGAGGCTCAGATGCC
1 ACTTGAATCAACTCTCAATGATTTAATATAACGAGGCTCAGATGCC
17733787 ACTTGAATCAACTCTCAATGATTTAATATAACGAGGCTCAGATGCC
1 ACTTGAATCAACTCTCAATGATTTAATATAACGAGGCTCAGATGCC
17733833 ACTTG
1 ACTTG
17733838 TTAGATTTGT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 51 1.00
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (46 bp):
ACTTGAATCAACTCTCAATGATTTAATATAACGAGGCTCAGATGCC
Found at i:17737200 original size:33 final size:33
Alignment explanation
Indices: 17737158--17737224 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
17737148 ACATGCTTAT
17737158 AAACAGATGAGATTTAAACCCAAAATATTAAAC
1 AAACAGATGAGATTTAAACCCAAAATATTAAAC
17737191 AAACAGATGAGATTTAAACCCAAAATATTAAAC
1 AAACAGATGAGATTTAAACCCAAAATATTAAAC
17737224 A
1 A
17737225 TATATTTTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.55, C:0.15, G:0.09, T:0.21
Consensus pattern (33 bp):
AAACAGATGAGATTTAAACCCAAAATATTAAAC
Found at i:17738439 original size:15 final size:15
Alignment explanation
Indices: 17738419--17738456 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
17738409 GAAATGAGAA
17738419 AAATTAA-AAGATAAT
1 AAATTAATAAG-TAAT
17738434 AAATTAATAAGTAAT
1 AAATTAATAAGTAAT
17738449 AAA-TAATA
1 AAATTAATA
17738457 TCATTTTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 5 0.23
15 14 0.64
16 3 0.14
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (15 bp):
AAATTAATAAGTAAT
Found at i:17739717 original size:23 final size:23
Alignment explanation
Indices: 17739687--17739743 Score: 114
Period size: 23 Copynumber: 2.5 Consensus size: 23
17739677 CACCAGCCTG
17739687 TTTTGGTATAAAAAGTAATCTTA
1 TTTTGGTATAAAAAGTAATCTTA
17739710 TTTTGGTATAAAAAGTAATCTTA
1 TTTTGGTATAAAAAGTAATCTTA
17739733 TTTTGGTATAA
1 TTTTGGTATAA
17739744 TGGCATGTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.37, C:0.04, G:0.14, T:0.46
Consensus pattern (23 bp):
TTTTGGTATAAAAAGTAATCTTA
Found at i:17740665 original size:2 final size:2
Alignment explanation
Indices: 17740658--17740686 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
17740648 AGCACATGTG
17740658 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
17740687 CAAAATAACC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:17741454 original size:16 final size:16
Alignment explanation
Indices: 17741433--17741464 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
17741423 ATATCAGGAT
17741433 TACCCGTTCAGGCTAA
1 TACCCGTTCAGGCTAA
17741449 TACCCGTTCAGGCTAA
1 TACCCGTTCAGGCTAA
17741465 ATCCTTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (16 bp):
TACCCGTTCAGGCTAA
Found at i:17753565 original size:2 final size:2
Alignment explanation
Indices: 17753558--17753605 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
17753548 ATCAAGTGTT
17753558 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
17753600 AA TA TA
1 TA TA TA
17753606 CTTTCTCGTC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:17755991 original size:2 final size:2
Alignment explanation
Indices: 17755935--17755975 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
17755925 ATTATGAGGT
17755935 TA TA 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 TA TA T
17755976 CATGATTAAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:17758953 original size:24 final size:23
Alignment explanation
Indices: 17758899--17758958 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
17758889 TGGTAAAATT
*
17758899 AAAATATTTTAT-TA-TTGTATA
1 AAAATATTTTATAAATTTGTATA
*
17758920 AAAATCTTTTATAAATTTGTATA
1 AAAATATTTTATAAATTTGTATA
*
17758943 AAAATAATTTTTTAAA
1 AAAAT-ATTTTATAAA
17758959 CTCAAATCAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 11 0.34
22 1 0.03
23 12 0.38
24 8 0.25
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (23 bp):
AAAATATTTTATAAATTTGTATA
Found at i:17760415 original size:18 final size:18
Alignment explanation
Indices: 17760392--17760431 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
17760382 ATTACTTTTT
*
17760392 TTTTTCAAAATATAATTA
1 TTTTTCAAAAAATAATTA
*
17760410 TTTTTCAAAAAATTATTA
1 TTTTTCAAAAAATAATTA
17760428 TTTT
1 TTTT
17760432 GTTTCAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (18 bp):
TTTTTCAAAAAATAATTA
Found at i:17760459 original size:39 final size:38
Alignment explanation
Indices: 17760378--17760468 Score: 96
Period size: 39 Copynumber: 2.3 Consensus size: 38
17760368 TTTCAAATTT
*
17760378 AAAAATTACTTTTTTTTTTCAAAATATAATTATTTTTCA
1 AAAAATTA-TTTTTTGTTTCAAAATATAATTATTTTTCA
**
17760417 AAAAATTATTATTTTGTTTCAATTTAT-ATATATATTTT-A
1 AAAAATTATT-TTTTGTTTCAAAATATAAT-TAT-TTTTCA
17760456 AAAATATTATTTT
1 AAAA-ATTATTTT
17760469 AAGAAAATTA
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
38 4 0.09
39 31 0.69
40 10 0.22
ACGTcount: A:0.40, C:0.04, G:0.01, T:0.55
Consensus pattern (38 bp):
AAAAATTATTTTTTGTTTCAAAATATAATTATTTTTCA
Found at i:17760468 original size:14 final size:15
Alignment explanation
Indices: 17760444--17760482 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
17760434 TTCAATTTAT
17760444 ATATATATTTTAA-AA
1 ATAT-TATTTTAAGAA
17760459 ATATTATTTTAAGAA
1 ATATTATTTTAAGAA
17760474 A-ATTATTTT
1 ATATTATTTT
17760483 CCACTCATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 16 0.70
15 7 0.30
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (15 bp):
ATATTATTTTAAGAA
Found at i:17768523 original size:28 final size:27
Alignment explanation
Indices: 17768489--17768553 Score: 112
Period size: 28 Copynumber: 2.4 Consensus size: 27
17768479 ATTTATTAGA
17768489 ATGTAAGATTTATATTTGGTTGATGAG
1 ATGTAAGATTTATATTTGGTTGATGAG
*
17768516 ATGTTAAGATTTATGTTTGGTTGATGAG
1 ATG-TAAGATTTATATTTGGTTGATGAG
17768544 ATGTAAGATT
1 ATGTAAGATT
17768554 ATTTAGAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 10 0.28
28 26 0.72
ACGTcount: A:0.29, C:0.00, G:0.26, T:0.45
Consensus pattern (27 bp):
ATGTAAGATTTATATTTGGTTGATGAG
Found at i:17770998 original size:48 final size:45
Alignment explanation
Indices: 17770805--17771019 Score: 154
Period size: 48 Copynumber: 4.6 Consensus size: 45
17770795 TTATTTGTGT
* *
17770805 GCTAGTGTAAGATATGTCTGGGACAT-GCA-CTGGCCACATTATCAGA
1 GCTAGTGTAAGATATGTCTGGGACATGGCATC-GG-CACAAT-TGAGA
* * *
17770851 GATAGTGTAAGACATGTCTGGGACAT-GCATCGGCTACAA--GATGT
1 GCTAGTGTAAGATATGTCTGGGACATGGCATCGGC-ACAATTGA-GA
* ** * *
17770895 GTTAGTGTAAGACTATGTCCAGGACATGGCATCGGCACGTATAGAG-
1 GCTAGTGTAAGA-TATGTCTGGGACATGGCATCGGCAC-AATTGAGA
* *
17770941 GTGTCAGTGTAAGATTATGTCTGGGACATGGCATCTGCACGAATGTGAGA
1 G-CT-AGTGTAAGA-TATGTCTGGGACATGGCATCGGCAC-AAT-TGAGA
*
17770991 GCTAGTGTAAGACCATGTCTGGGACATGG
1 GCTAGTGTAAGA-TATGTCTGGGACATGG
17771020 TGTTGGCCTC
Statistics
Matches: 137, Mismatches: 20, Indels: 22
0.77 0.11 0.12
Matches are distributed among these distances:
43 1 0.01
44 12 0.09
45 14 0.10
46 42 0.31
47 3 0.02
48 60 0.44
49 4 0.03
50 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (45 bp):
GCTAGTGTAAGATATGTCTGGGACATGGCATCGGCACAATTGAGA
Found at i:17790616 original size:34 final size:34
Alignment explanation
Indices: 17790506--17790616 Score: 127
Period size: 34 Copynumber: 3.3 Consensus size: 34
17790496 CTAATACTCG
*
17790506 ATAAGCATGAATT-TTGCTA-TAGTATTGATATGTT
1 ATAAGCATG-TTTATTGCTACT-GTATTGATATGTT
* * * * *
17790540 ATAAGCATATCTACTGCTACTGTACTGATCTGTT
1 ATAAGCATGTTTATTGCTACTGTATTGATATGTT
*
17790574 ATTAGCATGTTTATTGCTACTGTATTGATATGTT
1 ATAAGCATGTTTATTGCTACTGTATTGATATGTT
17790608 ATAAGCATG
1 ATAAGCATG
17790617 CCATATTGCA
Statistics
Matches: 62, Mismatches: 13, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
33 1 0.02
34 60 0.97
35 1 0.02
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.42
Consensus pattern (34 bp):
ATAAGCATGTTTATTGCTACTGTATTGATATGTT
Found at i:17790749 original size:45 final size:45
Alignment explanation
Indices: 17790684--17790842 Score: 223
Period size: 45 Copynumber: 3.5 Consensus size: 45
17790674 TTGTAGCTTG
17790684 TCTGCACCGATTAGTGGTTTATCCATATCGTATTAGCATCTTTTA
1 TCTGCACCGATTAGTGGTTTATCCATATCGTATTAGCATCTTTTA
* * * * *
17790729 TCTGCACTGATTACTAGTTTATCCACA-CTGTATTAGCAACTTTTA
1 TCTGCACCGATTAGTGGTTTATCCATATC-GTATTAGCATCTTTTA
**
17790774 TCTGCATTGATTAGTGGTTTATCCATATCGTATTAGCAGT-TTTTA
1 TCTGCACCGATTAGTGGTTTATCCATATCGTATTAGCA-TCTTTTA
17790819 TCTGCACCGATTAGTGGTTTATCC
1 TCTGCACCGATTAGTGGTTTATCC
17790843 CCACCGTAAT
Statistics
Matches: 99, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
44 1 0.01
45 97 0.98
46 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.16, T:0.42
Consensus pattern (45 bp):
TCTGCACCGATTAGTGGTTTATCCATATCGTATTAGCATCTTTTA
Found at i:17790751 original size:21 final size:21
Alignment explanation
Indices: 17790725--17790796 Score: 54
Period size: 21 Copynumber: 3.3 Consensus size: 21
17790715 ATTAGCATCT
17790725 TTTATCTGCACTGATTACTAG
1 TTTATCTGCACTGATTACTAG
** * *
17790746 TTTATCCACACTGTATTAGCAACT
1 TTTATCTGCACTG-ATTA-CTA-G
* * *
17790770 TTTATCTGCATTGATTAGTGG
1 TTTATCTGCACTGATTACTAG
17790791 TTTATC
1 TTTATC
17790797 CATATCGTAT
Statistics
Matches: 37, Mismatches: 11, Indels: 6
0.69 0.20 0.11
Matches are distributed among these distances:
21 17 0.46
22 4 0.11
23 6 0.16
24 10 0.27
ACGTcount: A:0.24, C:0.18, G:0.14, T:0.44
Consensus pattern (21 bp):
TTTATCTGCACTGATTACTAG
Found at i:17827681 original size:31 final size:31
Alignment explanation
Indices: 17827646--17827709 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
17827636 CCTTTTCATG
* *
17827646 TTTCATATTCCATAACACTGGGCTGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAACCT
* **
17827677 TTTCATATTTCATATTACTGGGCCGAAACCT
1 TTTCATATTCCATAACACTGGGCCGAAACCT
17827708 TT
1 TT
17827710 ACTGTAAACG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (31 bp):
TTTCATATTCCATAACACTGGGCCGAAACCT
Found at i:17827984 original size:23 final size:24
Alignment explanation
Indices: 17827920--17828019 Score: 157
Period size: 24 Copynumber: 4.2 Consensus size: 24
17827910 GGCCTGGCCT
*
17827920 CTTTTAATAACTGGGGCAAAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
* *
17827944 CTTTCAATAGCTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
17827968 CTTTT-ATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
17827991 CTTTTGATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
17828015 CTTTT
1 CTTTT
17828020 TCACTTCCTC
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
23 22 0.31
24 48 0.69
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (24 bp):
CTTTTAATAACTGGGGCATAAGCC
Found at i:17827990 original size:47 final size:48
Alignment explanation
Indices: 17827920--17828019 Score: 157
Period size: 47 Copynumber: 2.1 Consensus size: 48
17827910 GGCCTGGCCT
*
17827920 CTTTTAATAACTGGGGCAAAAGCCCTTTCAATAGCTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAGCC
* **
17827968 CTTTT-ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAGCC
17828015 CTTTT
1 CTTTT
17828020 TCACTTCCTC
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
47 43 0.90
48 5 0.10
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (48 bp):
CTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAGCC
Found at i:17828129 original size:20 final size:20
Alignment explanation
Indices: 17828070--17828129 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
17828060 TATGATTACA
*
17828070 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATG
17828090 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATG
*
17828110 TCATGTGCATCTCATACATG
1 TCATGTGCATATCATACATG
17828130 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATG
Found at i:17828204 original size:25 final size:25
Alignment explanation
Indices: 17828172--17828219 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
17828162 ATACATAAAC
* * *
17828172 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
17828197 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
17828220 CAAGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:17836705 original size:18 final size:18
Alignment explanation
Indices: 17836682--17836723 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
17836672 TAACAAGGTG
17836682 GAGTTAATAATAATCTTA
1 GAGTTAATAATAATCTTA
17836700 GAGTTAATAATAATCTTA
1 GAGTTAATAATAATCTTA
17836718 GA-TTAA
1 GAGTTAA
17836724 GTCCACGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 4 0.17
18 20 0.83
ACGTcount: A:0.45, C:0.05, G:0.12, T:0.38
Consensus pattern (18 bp):
GAGTTAATAATAATCTTA
Found at i:17839595 original size:24 final size:24
Alignment explanation
Indices: 17839548--17839595 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
17839538 TGACATTGTG
*
17839548 CTAAGTGAAATAAGACCAGGGCAT
1 CTAAGTGAAATAAGACCAAGGCAT
* *
17839572 CTAAGTGAAATAAGTCCAATGCAT
1 CTAAGTGAAATAAGACCAAGGCAT
17839596 TATGCTAAGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.42, C:0.17, G:0.21, T:0.21
Consensus pattern (24 bp):
CTAAGTGAAATAAGACCAAGGCAT
Found at i:17839684 original size:51 final size:51
Alignment explanation
Indices: 17839624--17839829 Score: 333
Period size: 51 Copynumber: 4.0 Consensus size: 51
17839614 TTCCGGTTGA
* *
17839624 ACTTTGTGAATATAATAGCTTT-GAGCACAAGCGTGGTACTATGTGAAGGCC
1 ACTTTGTGAATAAAATAGCTTTGGA-CACAAGTGTGGTACTATGTGAAGGCC
*
17839675 ACTTTGTGAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCC
1 ACTTTGTGAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCC
* *
17839726 ACTTTGTGAATAAAATAGCTTTGGACATAAGTGTGGTCCTATGTGAAGGCC
1 ACTTTGTGAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCC
* *
17839777 ACTTTGTGAATAAAATAGCTTTGGATACAAGGGTGGTACTATGTGAAGGCC
1 ACTTTGTGAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCC
17839828 AC
1 AC
17839830 CGTGTATCCG
Statistics
Matches: 146, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
51 144 0.99
52 2 0.01
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (51 bp):
ACTTTGTGAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCC
Found at i:17842148 original size:56 final size:55
Alignment explanation
Indices: 17842085--17842275 Score: 238
Period size: 56 Copynumber: 3.4 Consensus size: 55
17842075 CCATGGCATC
* * *
17842085 GATATATGTGTACGAGTAAGACCACGTTGAATACGTTAGCATCGATATGTGATTCT
1 GATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATT-T
* * *
17842141 GATATATGTGTGCGAGTAAGACCATGTTTAATATGTTGGCATCGATATATGATTT
1 GATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTT
* * * *
17842196 CAATATATGTGTGCGAGTAAGACCACGTTTAATGCATTGGCATCAATATGTGATTTT
1 -GATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGA-TTT
* * *
17842253 GATTTACGAGTGCGAGTAAGACC
1 GATATATGTGTGCGAGTAAGACC
17842276 CTGTCTGGGG
Statistics
Matches: 116, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
55 1 0.01
56 112 0.97
57 3 0.03
ACGTcount: A:0.30, C:0.13, G:0.24, T:0.34
Consensus pattern (55 bp):
GATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTT
Found at i:17846215 original size:2 final size:2
Alignment explanation
Indices: 17846208--17846237 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
17846198 CTAATATTTC
17846208 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17846238 TACATAACCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17849402 original size:17 final size:17
Alignment explanation
Indices: 17849380--17849413 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
17849370 AGACTTAACC
*
17849380 CTTTATCACCATTTCAA
1 CTTTATCACCAGTTCAA
17849397 CTTTATCACCAGTTCAA
1 CTTTATCACCAGTTCAA
17849414 GCATGTATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.29, G:0.03, T:0.38
Consensus pattern (17 bp):
CTTTATCACCAGTTCAA
Found at i:17849850 original size:20 final size:20
Alignment explanation
Indices: 17849821--17849865 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
17849811 AACACATATA
* *
17849821 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
17849841 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
17849861 TTCAT
1 TTCAT
17849866 TTTAATCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:17850659 original size:74 final size:74
Alignment explanation
Indices: 17850557--17850694 Score: 186
Period size: 74 Copynumber: 1.9 Consensus size: 74
17850547 TGTTACACAG
* * *
17850557 GTCGTGTGCGATGCGTAGGGGTGAAGGTGCAAGGGCCACACGGCCATGTGACCAGCCCCTGTGTG
1 GTCGTGTGCGATGCGTAAGGGTGAAGGTGCAAGGGCCACACAGCCATGTGACAAGCCCCTGTGTG
17850622 AAGCCCTAA
66 AAGCCCTAA
* * * * * * *
17850631 GTCGTGTGTGATGTGTAAGGTTGAAGGTGCAAGGGCTACACAGTCGTGTGACAAGCCCGTGTGT
1 GTCGTGTGCGATGCGTAAGGGTGAAGGTGCAAGGGCCACACAGCCATGTGACAAGCCCCTGTGT
17850695 AATGCCCCTG
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
74 54 1.00
ACGTcount: A:0.20, C:0.21, G:0.37, T:0.22
Consensus pattern (74 bp):
GTCGTGTGCGATGCGTAAGGGTGAAGGTGCAAGGGCCACACAGCCATGTGACAAGCCCCTGTGTG
AAGCCCTAA
Found at i:17854131 original size:13 final size:13
Alignment explanation
Indices: 17854113--17854137 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17854103 ACTCATCCAA
17854113 CATCCAGCCAAAG
1 CATCCAGCCAAAG
17854126 CATCCAGCCAAA
1 CATCCAGCCAAA
17854138 TATCTACAAA
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:0.40, C:0.40, G:0.12, T:0.08
Consensus pattern (13 bp):
CATCCAGCCAAAG
Found at i:17854938 original size:18 final size:17
Alignment explanation
Indices: 17854895--17854939 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
17854885 GAATTTTTTT
17854895 AAATTAAAATTTTCAAA
1 AAATTAAAATTTTCAAA
* *
17854912 ATATCTAAAATTTATTAAA
1 AAAT-TAAAATTT-TCAAA
17854931 AAATTAAAA
1 AAATTAAAA
17854940 AGGTTACAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
17 3 0.13
18 13 0.57
19 7 0.30
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATTAAAATTTTCAAA
Found at i:17857635 original size:29 final size:29
Alignment explanation
Indices: 17857603--17857661 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
17857593 TATGAAAATT
17857603 TTTGTGACTAACATGTTTGATTGAATGCA
1 TTTGTGACTAACATGTTTGATTGAATGCA
17857632 TTTGTGACTAACATGTTTGATTGAATGCA
1 TTTGTGACTAACATGTTTGATTGAATGCA
17857661 T
1 T
17857662 GTGTTTCGAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.27, C:0.10, G:0.20, T:0.42
Consensus pattern (29 bp):
TTTGTGACTAACATGTTTGATTGAATGCA
Found at i:17860668 original size:48 final size:47
Alignment explanation
Indices: 17860507--17860672 Score: 187
Period size: 46 Copynumber: 3.6 Consensus size: 47
17860497 GATATGTGTT
* *
17860507 CTAGTGTAAAACATGTCTGGGACATGCATCGGCC--ACA-TTATGAGAG
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTA-AGATAT-AGAG
* * * * **
17860553 CCAATGTAAGACATGTCTGGGACATGCATCGGCATTGAGA-CGAGAG
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTAAGATATAGAG
*
17860599 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTAAGATATACAAG
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTAAGATATA-GAG
*
17860647 CTAGTGTAAGACCTGTCTGGGACATG
1 CTAGTGTAAGACATGTCTGGGACATG
17860673 GCGTCAACTT
Statistics
Matches: 99, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
46 70 0.71
47 2 0.02
48 27 0.27
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (47 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTAAGATATAGAG
Found at i:17860752 original size:49 final size:49
Alignment explanation
Indices: 17860509--17860864 Score: 210
Period size: 49 Copynumber: 7.5 Consensus size: 49
17860499 TATGTGTTCT
* * * *
17860509 AGTGTAAAACATGTCTGGGACAT-GCATCGGCCAC--AT-TATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATC-GACACTGATAGATGAGAGCC
* * * * * *
17860555 AATGTAAGACATGTCTGGGACAT-GCATCGGCATTG--AGACGAGAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACACTGATAGATGAGAGCC
* * * * * *
17860601 AGTGTAAGACATGTCTGGGACAT-GCATCGGC-CTTA-AGATATACAAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACACTGATAGAT-GA-GAGCC
* * * *
17860649 AGTGTAAGACCTGTCTGGGACATGGCGTC-A-ACT--T-GTTGTGTGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACACTGATAGATGAGAGCC
*
17860693 AGTGTAAGACCTGTCTAGGACATGGCATCGACACTGATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACACTGATAGATGAGAGCC
* ** * * * * *
17860742 AATGTAAGACCTACCTGGGACACGGCATC-AGC-CTCAATATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGA-CACT-GATAGATGAGAGCC
* * ** **
17860791 AGTGTAAGACCTGTCTAGAACATGGCATCGACTTTGAT-G-TGCTAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACACTGATAGATGAGAGCC
17860838 AGTGTAAGACCATGTCTGGGACATGGC
1 AGTGTAAGACC-TGTCTGGGACATGGC
17860865 GTCGGCATCT
Statistics
Matches: 241, Mismatches: 50, Indels: 36
0.74 0.15 0.11
Matches are distributed among these distances:
44 29 0.12
45 5 0.02
46 71 0.29
47 17 0.07
48 45 0.19
49 72 0.30
50 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACACTGATAGATGAGAGCC
Found at i:17866219 original size:18 final size:18
Alignment explanation
Indices: 17866205--17866240 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
17866195 GTACCAAATG
17866205 ACCAAATTTTACCAAAAA
1 ACCAAATTTTACCAAAAA
17866223 ACCAAATTTTACCAAAAA
1 ACCAAATTTTACCAAAAA
17866241 TAGTGTTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.56, C:0.22, G:0.00, T:0.22
Consensus pattern (18 bp):
ACCAAATTTTACCAAAAA
Found at i:17872880 original size:20 final size:20
Alignment explanation
Indices: 17872855--17872892 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
17872845 GTCACATATA
17872855 TCATGAACTCAGACCACAAC
1 TCATGAACTCAGACCACAAC
* *
17872875 TCATGAGCTCAGATCACA
1 TCATGAACTCAGACCACA
17872893 TAGTTCCTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.32, G:0.13, T:0.18
Consensus pattern (20 bp):
TCATGAACTCAGACCACAAC
Found at i:17874630 original size:8 final size:9
Alignment explanation
Indices: 17874611--17874640 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
17874601 ATTCACTTCA
17874611 TTTTCTATT
1 TTTTCTATT
17874620 TTTTCTATT
1 TTTTCTATT
*
17874629 TTTTCCATT
1 TTTTCTATT
17874638 TTT
1 TTT
17874641 GTTTGTTGCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTTCTATT
Found at i:17878097 original size:29 final size:29
Alignment explanation
Indices: 17878055--17878113 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
17878045 CCAAGAACAT
17878055 AGACAACGTGTATGTTGGAATGGATTGTA
1 AGACAACGTGTATGTTGGAATGGATTGTA
17878084 AGACAACGTGTATGTTGGAATGGATTGTA
1 AGACAACGTGTATGTTGGAATGGATTGTA
17878113 A
1 A
17878114 CACCGCCTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.32, C:0.07, G:0.31, T:0.31
Consensus pattern (29 bp):
AGACAACGTGTATGTTGGAATGGATTGTA
Found at i:17881204 original size:48 final size:48
Alignment explanation
Indices: 17881137--17881364 Score: 236
Period size: 48 Copynumber: 4.9 Consensus size: 48
17881127 AACATAGTAG
* * * *
17881137 GATGCAAATCCCATATCCCAGATATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* * *
17881185 GATGCCAATGCCATGTCCCAGACATGGTCTTACGTGGGATCATAGATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* * *
17881233 GATACCAATGCCATGTCCCAGACATGGTCTTACATGGCATCTCATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* * * **
17881281 GATGCCGAT---A-G-CCCAG-CTATAGTCTTACACGAAATTC-CATATC
1 GATGCCAATGCCATGTCCCAGAC-ATGGTCTTACATGGGA-TCACATATC
* *
17881324 GATGCCAAAGCCATGTCCTAGACATGGTCTTACATGGGATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATC
17881365 GTTCATAACC
Statistics
Matches: 146, Mismatches: 26, Indels: 17
0.77 0.14 0.09
Matches are distributed among these distances:
42 1 0.01
43 30 0.21
44 3 0.02
45 1 0.01
46 1 0.01
47 3 0.02
48 106 0.73
49 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
Found at i:17891228 original size:11 final size:11
Alignment explanation
Indices: 17891208--17891263 Score: 53
Period size: 11 Copynumber: 5.2 Consensus size: 11
17891198 CTTTTATACT
17891208 TAAT-AAATAA
1 TAATAAAATAA
17891218 TAATAAAATAA
1 TAATAAAATAA
**
17891229 TAA-AAATATCT
1 TAATAAA-ATAA
* *
17891240 TATTAAAATAT
1 TAATAAAATAA
17891251 TAATAAAATAA
1 TAATAAAATAA
17891262 TA
1 TA
17891264 TTTATCTAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
10 7 0.19
11 27 0.73
12 3 0.08
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:17897971 original size:50 final size:50
Alignment explanation
Indices: 17897896--17897995 Score: 164
Period size: 50 Copynumber: 2.0 Consensus size: 50
17897886 ACAAGTGGAT
* *
17897896 GGGACTTGGCTATATGGAAAATATACACAGATCTTACTTCTTGCGGTTGC
1 GGGACCTGGCTATATGGAAAATATACACAGATCTTACTTCTTACGGTTGC
* *
17897946 GGGACCTGGCTATATGGAAAATATACACAGATTTTACTTTTTACGGTTGC
1 GGGACCTGGCTATATGGAAAATATACACAGATCTTACTTCTTACGGTTGC
17897996 TCAAGACGGC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (50 bp):
GGGACCTGGCTATATGGAAAATATACACAGATCTTACTTCTTACGGTTGC
Found at i:17899735 original size:33 final size:33
Alignment explanation
Indices: 17899693--17899773 Score: 90
Period size: 33 Copynumber: 2.5 Consensus size: 33
17899683 GGGAATGGAG
* * * *
17899693 TACTACGGTGGATACGGGCTGGGGGTAGTGCTA
1 TACTGCGGTGGATACGGGCCGGGAGAAGTGCTA
* * *
17899726 TACTGCGGTGGATATGGGCCGGGAGAAGTGTTG
1 TACTGCGGTGGATACGGGCCGGGAGAAGTGCTA
*
17899759 TGCTGCGGTGGATAC
1 TACTGCGGTGGATAC
17899774 AACCCAAAGA
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.17, C:0.15, G:0.43, T:0.25
Consensus pattern (33 bp):
TACTGCGGTGGATACGGGCCGGGAGAAGTGCTA
Found at i:17902191 original size:139 final size:141
Alignment explanation
Indices: 17901945--17902695 Score: 807
Period size: 139 Copynumber: 5.2 Consensus size: 141
17901935 TATTTTTAAA
* *
17901945 ATTTTTAAAATTTTCGGATCTTATTTTTTAAAATATATTATTTTCGTATTTTA-TTTTTATATTA
1 ATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTA
17902009 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTATATTAATTTAGTAATAACCCT
66 TTTTAGTACATAATGTTTCAAATG---TA--TTA----TTTTTATATTAATTTAGTAATAACCCT
17902074 GATTTTGGCCCTTTGTTTG-
122 GATTTTGGCCCTTTGTTTGT
* *
17902093 ATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTCCGTATTTTATTTTTTTATCTT
1 ATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTA-TTTTTTATATT
* * * *
17902158 ATTTTATTAAATAATGTTTCAAATGTA-TA-TTTTAGTATT-TTTTA--AATAACCCTAATTTTG
65 ATTTTAGTACATAATGTTTCAAATGTATTATTTTTA-TATTAATTTAGTAATAACCCTGATTTTG
* *
17902218 GCTCTTTATTTGT
129 GCCCTTTGTTTGT
** *
17902231 ATATTTT-AAATTTTAAGATTTTATTTTTAAAAATATACTATTTTCG-----TATTTTTTATATT
1 AT-TTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATT
*
17902290 AATTTAGTACATAATGTTTCAAATGTATTGTTTTAGTTTTTTTATATTAATTTAGTAAATAACCC
65 ATTTTAGTACATAATGTTTCAAATGTA-----TTA---TTTTTATATTAATTTAGT-AATAACCC
*
17902355 TGATTTTGGCCATTTGTTTGT
121 TGATTTTGGCCCTTTGTTTGT
** * *
17902376 ATTTTTAAAATTTTTAGATTTTATTTTTTAAAATATACTATTTTCTTATTTTATTTTTTTATCTT
1 ATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTA-TTTTTTATATT
* * *
17902441 ATTTTAGTACATAATGTTTCAAATATATTA-TTTTAGTGTT-TTTTA--AATAACCCTGATTTTG
65 ATTTTAGTACATAATGTTTCAAATGTATTATTTTTA-TATTAATTTAGTAATAACCCTGATTTTG
*
17902502 GCCATTTGTTTGT
129 GCCCTTTGTTTGT
* * * * *
17902515 AATTTTAAAATTTTTGGATTTTATTTTTTAAAGTATATTATTTTTGTATTTTATTTTTTATATTA
1 ATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTA
17902580 TTTTAGTACATAATGTTTTCAAATGTATTGTTTTAGTATTTTTTTATATTAATTTAGTAAATAAC
66 TTTTAGTACATAATG-TTTCAAATGTA------T--TA--TTTTTATATTAATTTAGT-AATAAC
17902645 CCTGATTTTGGCCCTTTGTTTGT
119 CCTGATTTTGGCCCTTTGTTTGT
*
17902668 ATTTTTAAAATTTTCGGATTTTGTTTTT
1 ATTTTTAAAATTTTCGGATTTTATTTTT
17902696 ATATTATTTT
Statistics
Matches: 515, Mismatches: 45, Indels: 81
0.80 0.07 0.13
Matches are distributed among these distances:
132 34 0.07
133 2 0.00
137 25 0.05
138 65 0.13
139 99 0.19
140 4 0.01
141 4 0.01
142 18 0.03
143 3 0.01
144 6 0.01
145 64 0.12
146 3 0.01
147 4 0.01
148 50 0.10
149 3 0.01
150 43 0.08
151 35 0.07
153 53 0.10
ACGTcount: A:0.28, C:0.07, G:0.09, T:0.57
Consensus pattern (141 bp):
ATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTA
TTTTAGTACATAATGTTTCAAATGTATTATTTTTATATTAATTTAGTAATAACCCTGATTTTGGC
CCTTTGTTTGT
Found at i:17902444 original size:283 final size:284
Alignment explanation
Indices: 17901947--17902695 Score: 1130
Period size: 283 Copynumber: 2.6 Consensus size: 284
17901937 TTTTTAAAAT
* *
17901947 TTTTAAAATTTTCGGATCTTATTTTTTAAAATATATTATTTTCGTATTTTATTTTTATATTATTT
1 TTTTAAAATTTTAGGATTTTATTTTTTAAAATATATTATTTTCGTA---T-TTTTTATATTATTT
*
17902012 TAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTATATTAATTTAGT-AATAACCCTGA
62 TAGTACATAATGTTTCAAATGTATTGTTTTAGT-TTTTTTATATTAATTTAGTAAATAACCCTGA
17902076 TTTTGGCCCTTTGTTTG-ATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTCCGT
126 TTTTGGCCCTTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTCCGT
* *
17902140 ATTTTATTTTTTTATCTTATTTTATTAAATAATGTTTCAAATGTA-TATTTTAGTATTTTTTAAA
191 ATTTTATTTTTTTATCTTATTTTAGTAAATAATGTTTCAAATATATTATTTTAGTATTTTTTAAA
17902204 TAACCCTAATTTTGGCTC-TTTATTTGTATA
256 TAACCCTAATTTTGGC-CATTTATTTGTA-A
* * * *
17902234 TTTT-AAATTTTAAGATTTTATTTTTAAAAATATACTATTTTCGTATTTTTTATATTAATTTAGT
1 TTTTAAAATTTTAGGATTTTATTTTTTAAAATATATTATTTTCGTATTTTTTATATTATTTTAGT
17902298 ACATAATGTTTCAAATGTATTGTTTTAGTTTTTTTATATTAATTTAGTAAATAACCCTGATTTTG
66 ACATAATGTTTCAAATGTATTGTTTTAGTTTTTTTATATTAATTTAGTAAATAACCCTGATTTTG
* ** * *
17902363 GCCATTTGTTTGTATTTTTAAAATTTTTAGATTTTATTTTTTAAAATATACTATTTTCTTATTTT
131 GCCCTTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTCCGTATTTT
* *
17902428 ATTTTTTTATCTTATTTTAGTACATAATGTTTCAAATATATTATTTTAGTGTTTTTTAAATAACC
196 ATTTTTTTATCTTATTTTAGTAAATAATGTTTCAAATATATTATTTTAGTATTTTTTAAATAACC
* *
17902493 CTGATTTTGGCCATTTGTTTGTAA
261 CTAATTTTGGCCATTTATTTGTAA
* * *
17902517 TTTTAAAATTTTTGGATTTTATTTTTTAAAGTATATTATTTTTGTATTTTATTTTTTATATTATT
1 TTTTAAAATTTTAGGATTTTATTTTTTAAAATATATTATTTTCG-----TATTTTTTATATTATT
17902582 TTAGTACATAATGTTTTCAAATGTATTGTTTTAGTATTTTTTTATATTAATTTAGTAAATAACCC
61 TTAGTACATAATG-TTTCAAATGTATTGTTTTAG--TTTTTTTATATTAATTTAGTAAATAACCC
*
17902647 TGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTCGGATTTTGTTTTT
123 TGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTT
17902696 ATATTATTTT
Statistics
Matches: 420, Mismatches: 29, Indels: 21
0.89 0.06 0.04
Matches are distributed among these distances:
281 19 0.05
282 72 0.17
283 92 0.22
284 75 0.18
286 36 0.09
287 4 0.01
289 28 0.07
290 20 0.05
292 74 0.18
ACGTcount: A:0.28, C:0.07, G:0.09, T:0.57
Consensus pattern (284 bp):
TTTTAAAATTTTAGGATTTTATTTTTTAAAATATATTATTTTCGTATTTTTTATATTATTTTAGT
ACATAATGTTTCAAATGTATTGTTTTAGTTTTTTTATATTAATTTAGTAAATAACCCTGATTTTG
GCCCTTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTCCGTATTTT
ATTTTTTTATCTTATTTTAGTAAATAATGTTTCAAATATATTATTTTAGTATTTTTTAAATAACC
CTAATTTTGGCCATTTATTTGTAA
Found at i:17902580 original size:12 final size:13
Alignment explanation
Indices: 17902547--17902583 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
17902537 ATTTTTTAAA
17902547 GTATATTATTTTT
1 GTATATTATTTTT
*
17902560 GTATTTTATTTTT
1 GTATATTATTTTT
17902573 -TATATTATTTT
1 GTATATTATTTT
17902584 AGTACATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (13 bp):
GTATATTATTTTT
Found at i:17902774 original size:121 final size:122
Alignment explanation
Indices: 17902562--17902816 Score: 406
Period size: 121 Copynumber: 2.1 Consensus size: 122
17902552 TTATTTTTGT
* *
17902562 ATTTTATTTTTTATATTATTTTAGTACATAATGTTTTCAAATGTATTGTTTTAGTATTTTTTTAT
1 ATTTTA-TTTTTATATTATTTTAGTACAAAATGTTTTCAAATGTATTATTTTAGTATTTTTTTAT
* * *
17902627 ATTAATTTAGTAAATAACCCTGATTTTGGCCCTTTGTTTGTA-TTTTTAAAATTTTCGG
65 ATTAATTTAGTAAATAACCCTAATTTTGGCCCTTTGTTTGTACTTTTAAAAATTTT-AG
* *
17902685 ATTTTGTTTTTATATTATTTTAGTACAAAATG-TTTCAAATGTATTATTTTAGTGTTTTTTTATA
1 ATTTTATTTTTATATTATTTTAGTACAAAATGTTTTCAAATGTATTATTTTAGTATTTTTTTATA
*
17902749 TTAATTTAGTAAATAACCCTAATTTTGTCCCTTTGTTTGTACTTTTAAAAATTTTAG
66 TTAATTTAGTAAATAACCCTAATTTTGGCCCTTTGTTTGTACTTTTAAAAATTTTAG
17902806 ATTTTATTTTT
1 ATTTTATTTTT
17902817 TAAAATATAC
Statistics
Matches: 122, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
121 80 0.66
122 37 0.30
123 5 0.04
ACGTcount: A:0.27, C:0.07, G:0.09, T:0.56
Consensus pattern (122 bp):
ATTTTATTTTTATATTATTTTAGTACAAAATGTTTTCAAATGTATTATTTTAGTATTTTTTTATA
TTAATTTAGTAAATAACCCTAATTTTGGCCCTTTGTTTGTACTTTTAAAAATTTTAG
Found at i:17902797 original size:413 final size:421
Alignment explanation
Indices: 17901947--17902857 Score: 1108
Period size: 413 Copynumber: 2.2 Consensus size: 421
17901937 TTTTTAAAAT
** * *
17901947 TTTTAAAATTTTCGGATCTTATTTTTTAAAATATATTATTTTCGTATTTTA--TTTTTATATTAT
1 TTTTAAAATTTTTAGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTTATATTAT
*
17902010 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTATATTAATTTAGTAATAACCCTG
66 TTTAGTACATAATGTTTCAAATATATTATTTTAGTG-----T-TATT-ATTTAG-AATAACCCTG
* *
17902075 ATTTTGGCCCTTTGTTTGATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTCCGT
123 ATTTTGGCCATTTGTTTGAATTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTCCGT
* *
17902140 ATTTTATTTTTTTATCTTATTTTATTAAATAATGTTTCAAATGTATATTTTAGTATTTTTTAAAT
188 ATTTTATTTTTTTATATTATTTTAGTAAATAATGTTTCAAATGTATATTTTAGTATTTTTTAAAT
* ** * ** * * *
17902205 AACCCTAATTTTGGCTCTTTATTTGTATATTTTAAATTTTAAGATTTTATTTTTAAAAATATACT
253 AA-CCTAATTTTAGCTAATAACCTGTATATTTGAAACTTT-AGATTTTATTTTTAAAAATATACG
* *
17902270 ATTTTCGTATTTTTTATATTAATTTAGTACATAATGTTTCAAATGTATTGTTTTAGTTTTTTTAT
316 ATTTTCG--TTTTTTATATTAATTTAGTACAAAATGTTTCAAATGTATTATTTTAGTTTTTTTAT
* *
17902335 ATTAATTTAGTAAATAACCCTGATTTTGGCCATTTGTTTGTAT
379 ATTAATTTAGTAAATAACCCTAATTTTGGCCATTTGTTTGTAC
* *
17902378 TTTTAAAATTTTTAGATTTTATTTTTTAAAATATACTATTTTCTTATTTTATTTTTTTATCTTAT
1 TTTTAAAATTTTTAGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTTATATTAT
17902443 TTTAGTACATAATGTTTCAAATATATTATTTTAGTG-T-TT-TTTA-AATAACCCTGATTTTGGC
66 TTTAGTACATAATGTTTCAAATATATTATTTTAGTGTTATTATTTAGAATAACCCTGATTTTGGC
* * * **
17902504 CATTTGTTTGTAATTTTAAAATTTTTGGATTTTATTTTTTAAAGTATATTATTTTTGTATTTTA-
131 CATTTGTTTG-AATTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTCCGTATTTTAT
* * * *
17902568 TTTTTTATATTATTTTAGTACATAATGTTTTCAAATGTATTGTTTTAGTATTTTTT-TAT-A-TT
195 TTTTTTATATTATTTTAGTAAATAATG-TTTCAAATGTA-TATTTTAGTATTTTTTAAATAACCT
*** * *
17902630 AA-TTTAG-TAAATAACCCTG-AT-TTTGGCCCTTT-G-TTTGTATTTTT-AAAATTTTCGGATT
258 AATTTTAGCT-AATAA-CCTGTATATTTGAAACTTTAGATTT-TATTTTTAAAAATATAC-GATT
*
17902688 TT-G-TTTTTATATTATTTTAGTACAAAATGTTTCAAATGTATTATTTTAGTGTTTTTTTATATT
319 TTCGTTTTTTATATTAATTTAGTACAAAATGTTTCAAATGTATTATTTTA--GTTTTTTTATATT
* *
17902751 AATTTAGTAAATAACCCTAATTTTGTCCCTTTGTTTGTAC
382 AATTTAGTAAATAACCCTAATTTTGGCCATTTGTTTGTAC
*
17902791 TTTTAAAAATTTTAGATTTTATTTTTTAAAATATACTATTTTCGTATTTTA--TTTTTATATTAT
1 TTTTAAAATTTTTAGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTTATATTAT
17902854 TTTA
66 TTTA
17902858 AAAAAAACCC
Statistics
Matches: 425, Mismatches: 44, Indels: 42
0.83 0.09 0.08
Matches are distributed among these distances:
411 57 0.13
413 98 0.23
414 11 0.03
415 13 0.03
417 7 0.02
418 8 0.02
419 5 0.01
421 52 0.12
422 60 0.14
423 19 0.04
425 2 0.00
426 1 0.00
431 46 0.11
433 46 0.11
ACGTcount: A:0.28, C:0.07, G:0.08, T:0.57
Consensus pattern (421 bp):
TTTTAAAATTTTTAGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTTATATTAT
TTTAGTACATAATGTTTCAAATATATTATTTTAGTGTTATTATTTAGAATAACCCTGATTTTGGC
CATTTGTTTGAATTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTCCGTATTTTATT
TTTTTATATTATTTTAGTAAATAATGTTTCAAATGTATATTTTAGTATTTTTTAAATAACCTAAT
TTTAGCTAATAACCTGTATATTTGAAACTTTAGATTTTATTTTTAAAAATATACGATTTTCGTTT
TTTATATTAATTTAGTACAAAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTA
AATAACCCTAATTTTGGCCATTTGTTTGTAC
Found at i:17902925 original size:17 final size:16
Alignment explanation
Indices: 17902890--17902965 Score: 82
Period size: 16 Copynumber: 4.7 Consensus size: 16
17902880 TTCCCCAAAA
17902890 ATTTTATTTTTTTCAT
1 ATTTTATTTTTTTCAT
*
17902906 ATTTTATTTCTTTTCGT
1 ATTTTATTT-TTTTCAT
17902923 ATTTTA-TTTTTTCATT
1 ATTTTATTTTTTTCA-T
*** *
17902939 AAGATATTTTTTTAAT
1 ATTTTATTTTTTTCAT
17902955 ATTTTATTTTT
1 ATTTTATTTTT
17902966 ATACTATTTT
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
15 5 0.10
16 24 0.50
17 19 0.40
ACGTcount: A:0.21, C:0.05, G:0.03, T:0.71
Consensus pattern (16 bp):
ATTTTATTTTTTTCAT
Found at i:17903473 original size:19 final size:16
Alignment explanation
Indices: 17903449--17903523 Score: 64
Period size: 17 Copynumber: 4.4 Consensus size: 16
17903439 CTGCTTCTCC
17903449 TTCTTCTCCTTCTCTACTT
1 TTCTTCT-CTTCT-T-CTT
17903468 TTCTTCTTCTTCTT-TT
1 TTCTTC-TCTTCTTCTT
17903484 CTTCTTCTCTTCTTTCTT
1 -TTCTTCTCTTC-TTCTT
*
17903502 TTCTTCTTCTCCTTC-T
1 TTCTTC-TCTTCTTCTT
17903518 TTCTTC
1 TTCTTC
17903524 CCAAAATGAG
Statistics
Matches: 50, Mismatches: 1, Indels: 13
0.78 0.02 0.20
Matches are distributed among these distances:
16 14 0.28
17 17 0.34
18 7 0.14
19 11 0.22
20 1 0.02
ACGTcount: A:0.01, C:0.33, G:0.00, T:0.65
Consensus pattern (16 bp):
TTCTTCTCTTCTTCTT
Found at i:17903474 original size:3 final size:3
Alignment explanation
Indices: 17903442--17903523 Score: 75
Period size: 3 Copynumber: 28.3 Consensus size: 3
17903432 ATGCTGCCTG
* * *
17903442 CTT CTC CTT CTT CTC CTT C-T CTA CTT -TT CTT CTT CTT CTT -TT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
*
17903487 CTT C-T CTT CTTT CTT -TT CTT CTT CTC CTT CTTT CTT C
1 CTT CTT CTT C-TT CTT CTT CTT CTT CTT CTT C-TT CTT C
17903524 CCAAAATGAG
Statistics
Matches: 64, Mismatches: 8, Indels: 14
0.74 0.09 0.16
Matches are distributed among these distances:
2 10 0.16
3 48 0.75
4 6 0.09
ACGTcount: A:0.01, C:0.35, G:0.00, T:0.63
Consensus pattern (3 bp):
CTT
Found at i:17903476 original size:22 final size:22
Alignment explanation
Indices: 17903442--17903518 Score: 68
Period size: 22 Copynumber: 3.5 Consensus size: 22
17903432 ATGCTGCCTG
17903442 CTTCTCCTTCTTCTCCTTCTCTA
1 CTTCT-CTTCTTCTCCTTCTCTA
* * * *
17903465 CTTTTCTTCTTCTTCTTTTCTT
1 CTTCTCTTCTTCTCCTTCTCTA
* *
17903487 CTTCTCTTCTT-T-CTTTTCTT
1 CTTCTCTTCTTCTCCTTCTCTA
17903507 CTTCTCCTTCTT
1 CTTCT-CTTCTT
17903519 TCTTCCCAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
20 13 0.27
21 7 0.15
22 24 0.50
23 4 0.08
ACGTcount: A:0.01, C:0.35, G:0.00, T:0.64
Consensus pattern (22 bp):
CTTCTCTTCTTCTCCTTCTCTA
Found at i:17903487 original size:8 final size:8
Alignment explanation
Indices: 17903465--17903523 Score: 50
Period size: 8 Copynumber: 7.1 Consensus size: 8
17903455 TCCTTCTCTA
17903465 CTTTTCTT
1 CTTTTCTT
17903473 CTTCTTCTT
1 CTT-TTCTT
17903482 -TTCTTCTT
1 CTT-TTCTT
*
17903490 CTCTTCTTT
1 CTTTTC-TT
17903499 CTTTTCTT
1 CTTTTCTT
*
17903507 CTTCTCCTT
1 CTT-TTCTT
17903516 C-TTTCTT
1 CTTTTCTT
17903523 C
1 C
17903524 CCAAAATGAG
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
7 5 0.12
8 20 0.47
9 18 0.42
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (8 bp):
CTTTTCTT
Found at i:17903500 original size:20 final size:20
Alignment explanation
Indices: 17903472--17903522 Score: 86
Period size: 20 Copynumber: 2.5 Consensus size: 20
17903462 CTACTTTTCT
17903472 TCTTC-TTCTTTTCTTCTTC
1 TCTTCTTTCTTTTCTTCTTC
17903491 TCTTCTTTCTTTTCTTCTTC
1 TCTTCTTTCTTTTCTTCTTC
17903511 TCCTTCTTTCTT
1 T-CTTCTTTCTT
17903523 CCCAAAATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 5 0.17
20 15 0.50
21 10 0.33
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (20 bp):
TCTTCTTTCTTTTCTTCTTC
Found at i:17903704 original size:17 final size:19
Alignment explanation
Indices: 17903667--17903704 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
17903657 ACCAGTGCCT
*
17903667 TTCAGCATTTTTTTTCTGC
1 TTCAGCATTTTTTTTCAGC
17903686 TTCAGC-TTTTTTTT-AGC
1 TTCAGCATTTTTTTTCAGC
17903703 TT
1 TT
17903705 TTTATTGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 8 0.44
19 6 0.33
ACGTcount: A:0.11, C:0.18, G:0.11, T:0.61
Consensus pattern (19 bp):
TTCAGCATTTTTTTTCAGC
Found at i:17906096 original size:21 final size:21
Alignment explanation
Indices: 17906060--17906162 Score: 65
Period size: 21 Copynumber: 4.9 Consensus size: 21
17906050 TTTAAGTACT
*
17906060 AAAATATATATAAATGTATATA
1 AAAATA-ATAAAAATGTATATA
*
17906082 TAAATAATAAAAATG-AT-T-
1 AAAATAATAAAAATGTATATA
*
17906100 AAAATAA-AAAGAAAGTATA-A
1 AAAATAATAAA-AATGTATATA
*
17906120 AAAATCAAATATAAAATATATATA
1 AAAAT--AATA-AAAATGTATATA
*
17906144 CAAAATAAT-TAAATGTATA
1 -AAAATAATAAAAATGTATA
17906163 AAATTTAGAA
Statistics
Matches: 63, Mismatches: 8, Indels: 21
0.68 0.09 0.23
Matches are distributed among these distances:
17 3 0.05
18 9 0.14
19 3 0.05
20 7 0.11
21 16 0.25
22 7 0.11
23 10 0.16
24 3 0.05
25 5 0.08
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (21 bp):
AAAATAATAAAAATGTATATA
Found at i:17906435 original size:21 final size:22
Alignment explanation
Indices: 17906394--17906444 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
17906384 GTAATTTAGA
*
17906394 TTTTATATATTTTTCTAATTTT
1 TTTTATATATTTATCTAATTTT
17906416 TTTTATATATTTAAT-T-ATTTT
1 TTTTATATATTT-ATCTAATTTT
*
17906437 TTATATAT
1 TTTTATAT
17906445 GTTTTAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 12 0.46
22 13 0.50
23 1 0.04
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTTATATATTTATCTAATTTT
Found at i:17906456 original size:19 final size:19
Alignment explanation
Indices: 17906394--17906469 Score: 64
Period size: 19 Copynumber: 3.8 Consensus size: 19
17906384 GTAATTTAGA
* *
17906394 TTTTATATATTTTTCTAATT
1 TTTTATATATGTTT-TAAAT
* *
17906414 TTTTTTATAT-ATTTAATTATT
1 TTTTATATATGTTTTAA--A-T
17906435 TTTTATATATGTTTTAAAT
1 TTTTATATATGTTTTAAAT
17906454 TTTTATATATGATTTT
1 TTTTATATATG-TTTT
17906470 GTATACTTTC
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
18 3 0.07
19 14 0.30
20 14 0.30
21 10 0.22
22 5 0.11
ACGTcount: A:0.28, C:0.01, G:0.03, T:0.68
Consensus pattern (19 bp):
TTTTATATATGTTTTAAAT
Found at i:17906457 original size:21 final size:20
Alignment explanation
Indices: 17906394--17906469 Score: 73
Period size: 21 Copynumber: 3.6 Consensus size: 20
17906384 GTAATTTAGA
*
17906394 TTTTATATATTTTTCTAATTT
1 TTTTATATATTTTT-AAATTT
* *
17906415 TTTT-TATATATTTAATTATT
1 TTTTATATATTTTTAAAT-TT
17906435 TTTTATATATGTTTTAAATTT
1 TTTTATATAT-TTTTAAATTT
*
17906456 TTATATATGATTTT
1 TTTTATAT-ATTTT
17906470 GTATACTTTC
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
19 2 0.04
20 14 0.31
21 21 0.47
22 8 0.18
ACGTcount: A:0.28, C:0.01, G:0.03, T:0.68
Consensus pattern (20 bp):
TTTTATATATTTTTAAATTT
Found at i:17913731 original size:40 final size:40
Alignment explanation
Indices: 17913670--17913905 Score: 147
Period size: 40 Copynumber: 5.9 Consensus size: 40
17913660 TTATATTATA
* *
17913670 TACTAAAATGTATGTGCTTTCGAGCCATACATTCTAAATC
1 TACTGAAATGTATGTGCTTTCGAGCCATACATACTAAATC
* * * * *
17913710 TACTGAAATGTATGCGTTTTCGAGCCATTCCTACTGAATC
1 TACTGAAATGTATGTGCTTTCGAGCCATACATACTAAATC
* * * * * *
17913750 TACCGAAATGTATATGCTTTCGAGCCATTCCTATTGAATC
1 TACTGAAATGTATGTGCTTTCGAGCCATACATACTAAATC
** * * * *
17913790 TACCAAAAAGTATGTGCTTTCAAGCCATAGC-TATTGAATC
1 TACTGAAATGTATGTGCTTTCGAGCCATA-CATACTAAATC
* ** * * * *
17913830 TACT-AAA-GTATATGCGATTTTAAGCCATACCTACTGATTT
1 TACTGAAATGTATGTGC--TTTCGAGCCATACATACTAAATC
** * *
17913870 TACTGAAA-GTATGCCCTATCGAGCCATACCTACTAA
1 TACTGAAATGTATGTGCTTTCGAGCCATACATACTAA
17913906 TTATATTAAA
Statistics
Matches: 161, Mismatches: 30, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
38 7 0.04
39 20 0.12
40 125 0.78
41 9 0.06
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (40 bp):
TACTGAAATGTATGTGCTTTCGAGCCATACATACTAAATC
Found at i:17913816 original size:80 final size:79
Alignment explanation
Indices: 17913675--17913844 Score: 182
Period size: 80 Copynumber: 2.2 Consensus size: 79
17913665 TTATATACTA
* ** * * * *
17913675 AAATGTATGTGCTTTCGAGCCATACATTCTAAATCTACTGAAATGTATGCGTTTTCGAGCCATTC
1 AAATGTATATGCTTTCGAGCCATACATTCTAAATCTACCAAAAAGTATGCGCTTTCAAGCCATAC
17913740 CTACTGAATCTACCG
66 CTACTGAATCTA-CG
* * * *
17913755 AAATGTATATGCTTTCGAGCCATTCCTAT-TGAATCTACCAAAAAGTATGTGCTTTCAAGCCATA
1 AAATGTATATGCTTTCGAGCCATACAT-TCTAAATCTACCAAAAAGTATGCGCTTTCAAGCCATA
* * *
17913819 GCTATTGAATCTACT
65 CCTACTGAATCTACG
17913834 AAA-GTATATGC
1 AAATGTATATGC
17913845 GATTTTAAGC
Statistics
Matches: 75, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
78 8 0.11
79 4 0.05
80 62 0.83
81 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.34
Consensus pattern (79 bp):
AAATGTATATGCTTTCGAGCCATACATTCTAAATCTACCAAAAAGTATGCGCTTTCAAGCCATAC
CTACTGAATCTACG
Found at i:17918322 original size:16 final size:16
Alignment explanation
Indices: 17918301--17918332 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
17918291 ATTGTTTCAA
17918301 TATAAATTAACCTATG
1 TATAAATTAACCTATG
*
17918317 TATAAATTAATCTATG
1 TATAAATTAACCTATG
17918333 CTATGATGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (16 bp):
TATAAATTAACCTATG
Found at i:17944419 original size:74 final size:74
Alignment explanation
Indices: 17944339--17944508 Score: 188
Period size: 71 Copynumber: 2.3 Consensus size: 74
17944329 TGTATTCTCA
* * * ** *
17944339 ACAGCTTGAGTAAGCAACATTGAATCATTATACTTTAGT-GATGGTTGAGATCTAACATGTGTTG
1 ACAGCTTGAGTAAGTAGCATTGAATCATTATACTTTA-TCAATGACTGAGATCTAACACGTGTTG
*
17944403 CGGATACTCG
65 CGAATACTCG
*
17944413 ACAGCTTGAGTGAA-TAGCATT--A-CATTATACTTTATCAATGACTGAGATCTAGCACGTGTTG
1 ACAGCTTGAGT-AAGTAGCATTGAATCATTATACTTTATCAATGACTGAGATCTAACACGTGTTG
*
17944474 CGAATTCTCG
65 CGAATACTCG
* *
17944484 ATAGCTTGAGTGAGTAGCATTGAAT
1 ACAGCTTGAGTAAGTAGCATTGAAT
17944509 AAAGTTTGCT
Statistics
Matches: 79, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
70 2 0.03
71 57 0.72
72 1 0.01
73 1 0.01
74 16 0.20
75 2 0.03
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.32
Consensus pattern (74 bp):
ACAGCTTGAGTAAGTAGCATTGAATCATTATACTTTATCAATGACTGAGATCTAACACGTGTTGC
GAATACTCG
Found at i:17945405 original size:20 final size:20
Alignment explanation
Indices: 17945380--17945419 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
17945370 ACAAGTATAA
17945380 GAATTGATTGTTACATGTAT
1 GAATTGATTGTTACATGTAT
*
17945400 GAATTGATTGTTGCATGTAT
1 GAATTGATTGTTACATGTAT
17945420 ATGGCTTAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.28, C:0.05, G:0.23, T:0.45
Consensus pattern (20 bp):
GAATTGATTGTTACATGTAT
Found at i:17952637 original size:11 final size:11
Alignment explanation
Indices: 17952617--17952647 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
17952607 TACATTGGGT
17952617 TTTC-TTTTTA
1 TTTCTTTTTTA
17952627 TTTCTTTTTTA
1 TTTCTTTTTTA
17952638 TTTCTTTTTT
1 TTTCTTTTTT
17952648 GAAAAAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.20
11 16 0.80
ACGTcount: A:0.06, C:0.10, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTCTTTTTTA
Found at i:17957559 original size:8 final size:8
Alignment explanation
Indices: 17957546--17957581 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
17957536 TATTATAACA
17957546 TATATTAT
1 TATATTAT
17957554 TATATTAT
1 TATATTAT
*
17957562 TAAATTAT
1 TATATTAT
17957570 TATAATTAT
1 TAT-ATTAT
17957579 TAT
1 TAT
17957582 TTCTTAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
8 17 0.68
9 8 0.32
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (8 bp):
TATATTAT
Found at i:17964864 original size:46 final size:45
Alignment explanation
Indices: 17964814--17964989 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 45
17964804 TGTTTGGGCA
17964814 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
17964860 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
17964907 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
17964953 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
17964990 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 67 0.61
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:17964969 original size:93 final size:93
Alignment explanation
Indices: 17964810--17964981 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
17964800 AGGATGTTTG
* * *
17964810 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCGAACTCGTTGAG
17964875 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
17964903 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCGAACTCGTTGAG
17964968 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
17964982 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:17967487 original size:20 final size:18
Alignment explanation
Indices: 17967449--17967492 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 18
17967439 AAACCCAAAT
17967449 TTTCCC-TTTTCTTTTTC
1 TTTCCCTTTTTCTTTTTC
17967466 TTTCCCTTTTTCCTTCTTTC
1 TTTCCCTTTTT-CTT-TTTC
17967486 TTTCCCT
1 TTTCCCT
17967493 ACTAGTCGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.25
18 4 0.17
19 3 0.12
20 11 0.46
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTCCCTTTTTCTTTTTC
Found at i:17967582 original size:16 final size:17
Alignment explanation
Indices: 17967561--17967592 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
17967551 TAACATATAT
17967561 ATTATTAT-ATTATTAA
1 ATTATTATAATTATTAA
17967577 ATTATTATAATTATTA
1 ATTATTATAATTATTA
17967593 TTTCTTAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTATTATAATTATTAA
Found at i:17968225 original size:25 final size:25
Alignment explanation
Indices: 17968169--17968231 Score: 76
Period size: 25 Copynumber: 2.5 Consensus size: 25
17968159 CCGAGTCATA
*
17968169 TAACGGGAAGCTCATGTAAGCTAAG
1 TAACGAGAAGCTCATGTAAGCTAAG
17968194 TAACGAGAAGCTCATGTGAA-CTACA-
1 TAACGAGAAGCTCATGT-AAGCTA-AG
*
17968219 TATCGAGAAGCTC
1 TAACGAGAAGCTC
17968232 TTACGAGCCA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
25 31 0.91
26 3 0.09
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.21
Consensus pattern (25 bp):
TAACGAGAAGCTCATGTAAGCTAAG
Found at i:17968264 original size:25 final size:25
Alignment explanation
Indices: 17968218--17968266 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
17968208 TGTGAACTAC
* *
17968218 ATATCGAGAAGCTCTTACGAGCCAA
1 ATATCGAAAAGCTCTGACGAGCCAA
17968243 ATATCGAAAAGCTCATGA-GAGCCA
1 ATATCGAAAAGCTC-TGACGAGCCA
17968267 CTTATCAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 19 0.90
26 2 0.10
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.18
Consensus pattern (25 bp):
ATATCGAAAAGCTCTGACGAGCCAA
Found at i:17969576 original size:32 final size:32
Alignment explanation
Indices: 17969539--17969601 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
17969529 TAATAAATTT
*
17969539 ATTAA-TAGATTACTTGAATTTAATAACTCATG
1 ATTAATTA-ATTAATTGAATTTAATAACTCATG
* *
17969571 ATTAATTAATTAATTTAATTTGATAACTCAT
1 ATTAATTAATTAATTGAATTTAATAACTCAT
17969602 ACTAATTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 25 0.93
33 2 0.07
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.44
Consensus pattern (32 bp):
ATTAATTAATTAATTGAATTTAATAACTCATG
Found at i:17974206 original size:44 final size:43
Alignment explanation
Indices: 17974071--17974229 Score: 148
Period size: 43 Copynumber: 3.7 Consensus size: 43
17974061 AGCTTGTACA
* * *
17974071 ATGCCAACGTCCCAGACGTGGTCTTAGATGT-AATCAAATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCAAA-ATCG
* * * * *
17974114 ATGCC-ACTATCCCCGGCA-GGCTCTTTCACG-AAATCATATAT-G
1 ATGCCAAC-GTCCCAGACATGG-TCTTACACGTAAATCA-AAATCG
*
17974156 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCACAAATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCA-AAATCG
*
17974200 ATGCCAACGTCCCAGACGTGGTCTTACACG
1 ATGCCAACGTCCCAGACATGGTCTTACACG
17974230 ATAACACATA
Statistics
Matches: 91, Mismatches: 17, Indels: 15
0.74 0.14 0.12
Matches are distributed among these distances:
42 25 0.27
43 36 0.40
44 30 0.33
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCAAAATCG
Found at i:17990260 original size:42 final size:42
Alignment explanation
Indices: 17990147--17990269 Score: 131
Period size: 43 Copynumber: 2.9 Consensus size: 42
17990137 ACATAAGCTC
* * * *
17990147 ATACAATGCCAATGTTCCAGACGTGGTCTTAGATGTAATCAA
1 ATACAATGCCAATGTCCCAGACGTGGTCTTACACGAAATCAA
* * *
17990189 ATATCAATGCCATTGTCCCAGATAG-GGTCTTACACGAAATCAT
1 ATA-CAATGCCAATGTCCCAGA-CGTGGTCTTACACGAAATCAA
* * *
17990232 ATACGATGCCAACGTCCCAGACGTGGTCTTGCACGAAA
1 ATACAATGCCAATGTCCCAGACGTGGTCTTACACGAAA
17990270 ATACATATCA
Statistics
Matches: 66, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
41 1 0.02
42 31 0.47
43 33 0.50
44 1 0.02
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.25
Consensus pattern (42 bp):
ATACAATGCCAATGTCCCAGACGTGGTCTTACACGAAATCAA
Found at i:17994168 original size:13 final size:13
Alignment explanation
Indices: 17994150--17994175 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
17994140 TAGCTCATGA
17994150 TTATTAAATATTT
1 TTATTAAATATTT
17994163 TTATTAAATATTT
1 TTATTAAATATTT
17994176 ACAGAGTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TTATTAAATATTT
Found at i:18001467 original size:47 final size:47
Alignment explanation
Indices: 18001391--18001520 Score: 131
Period size: 47 Copynumber: 2.8 Consensus size: 47
18001381 AGGGTAAGGT
* * *
18001391 GCCGATGCCATGTCCTAGACACGGGCTTACACTGGCTCAT-ATCTC-AA
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGGCT-ATCATCTCGAA
* * *
18001438 GTCGATGTCATGTCCCAGACATGGTCTTACACTGACTATCATCTCGTA
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGGCTATCATCTCGAA
* * *
18001486 GCCGATGCATATCCCAAACAT-GTCTTACAATGGCT
1 GCCGATGCATGTCCCAGACATGGTCTTACACTGGCT
18001521 TACGTCTCGA
Statistics
Matches: 69, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
46 14 0.20
47 48 0.70
48 7 0.10
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (47 bp):
GCCGATGCATGTCCCAGACATGGTCTTACACTGGCTATCATCTCGAA
Found at i:18005187 original size:21 final size:22
Alignment explanation
Indices: 18005163--18005203 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
18005153 TGCTTTAGAG
18005163 TTAGGATTTT-GAGTTTATGGT
1 TTAGGATTTTGGAGTTTATGGT
* *
18005184 TTAGTATTTTGGGGTTTATG
1 TTAGGATTTTGGAGTTTATG
18005204 TTTTTAAAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.17, C:0.00, G:0.29, T:0.54
Consensus pattern (22 bp):
TTAGGATTTTGGAGTTTATGGT
Found at i:18005230 original size:22 final size:22
Alignment explanation
Indices: 18005205--18005247 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
18005195 GGGTTTATGT
18005205 TTTTAAAGGTTAGGAGTTAGGC
1 TTTTAAAGGTTAGGAGTTAGGC
** *
18005227 TTTTAGGGGTTAGGGGTTAGG
1 TTTTAAAGGTTAGGAGTTAGG
18005248 GAAGTTAAGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.21, C:0.02, G:0.40, T:0.37
Consensus pattern (22 bp):
TTTTAAAGGTTAGGAGTTAGGC
Found at i:18006453 original size:126 final size:127
Alignment explanation
Indices: 18006320--18006566 Score: 370
Period size: 126 Copynumber: 2.0 Consensus size: 127
18006310 AAGACGCCGC
* ** * * * *
18006320 AAAAAAATCATTTTACTTTGTACAAAATGGTGCCATTTTGTATTGCACTTTTAGTTGCGTTAG-T
1 AAAAAAATCATTTTACTTTATACAAAACAGTGCCATTTTGTATGGCACTTTTACTGGCGTTAGCG
* * *
18006384 GCGCTACTTTAAAAATGCCGCAATAGGTCGATCTTTAGCGGCGCTATGTGAAAAACATCGCA
66 GCGCTACTTTAAAAATGCCGCAATAGGTCAATCTTTAGCGGCACTAGGTGAAAAACATCGCA
* * *
18006446 AAAAAAATCGTTTTACTTTATACAAAACAGTGTCGTTTTGTATGGCACTTTTACTGGCGTTAGCG
1 AAAAAAATCATTTTACTTTATACAAAACAGTGCCATTTTGTATGGCACTTTTACTGGCGTTAGCG
18006511 GCGCTACTTTAAAAATGCCGCAATAGGTCAATCTTTAGCGGCACTAGGTGAAAAAC
66 GCGCTACTTTAAAAATGCCGCAATAGGTCAATCTTTAGCGGCACTAGGTGAAAAAC
18006567 GCCTTAAAAA
Statistics
Matches: 107, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
126 54 0.50
127 53 0.50
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (127 bp):
AAAAAAATCATTTTACTTTATACAAAACAGTGCCATTTTGTATGGCACTTTTACTGGCGTTAGCG
GCGCTACTTTAAAAATGCCGCAATAGGTCAATCTTTAGCGGCACTAGGTGAAAAACATCGCA
Found at i:18006879 original size:33 final size:34
Alignment explanation
Indices: 18006825--18006890 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 34
18006815 CCCTAACATT
*
18006825 TCCCCAAATATTTTTTTCCCAAATCAGTTCCCCC
1 TCCCCAAATATTTTTTCCCCAAATCAGTTCCCCC
*
18006859 TCCCGAAATA-TTTTTCCCCAAATCAGTTCCCC
1 TCCCCAAATATTTTTTCCCCAAATCAGTTCCCC
18006891 AAATCACCGT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 21 0.70
34 9 0.30
ACGTcount: A:0.24, C:0.38, G:0.05, T:0.33
Consensus pattern (34 bp):
TCCCCAAATATTTTTTCCCCAAATCAGTTCCCCC
Found at i:18006890 original size:13 final size:13
Alignment explanation
Indices: 18006872--18006896 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18006862 CGAAATATTT
18006872 TTCCCCAAATCAG
1 TTCCCCAAATCAG
18006885 TTCCCCAAATCA
1 TTCCCCAAATCA
18006897 CCGTCGACAG
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:0.32, C:0.40, G:0.04, T:0.24
Consensus pattern (13 bp):
TTCCCCAAATCAG
Found at i:18010025 original size:44 final size:42
Alignment explanation
Indices: 18009887--18010030 Score: 171
Period size: 43 Copynumber: 3.3 Consensus size: 42
18009877 TTGTATAAAT
* * * **
18009887 GCTGCTAAAAGTCATGTTCTTTAGCGGCGTTTACGGTAAAAGC
1 GCTGCTAAAGGTCATGTTCTATAGTGGCGTTTGTGG-AAAAGC
18009930 GCTGCTAAAGGTCATGTTCTATAGTGGCGTTTGTAGGAAAAGC
1 GCTGCTAAAGGTCATGTTCTATAGTGGCGTTTGT-GGAAAAGC
* *
18009973 GCTACTAAAAGGTCATGTTCTATAGTGGCATTTGTGGAAAAAGC
1 GCTGCT-AAAGGTCATGTTCTATAGTGGCGTTTGTGG-AAAAGC
* *
18010017 ACCGCTAAAGGTCA
1 GCTGCTAAAGGTCA
18010031 CATTAAATGT
Statistics
Matches: 88, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
43 50 0.57
44 38 0.43
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.28
Consensus pattern (42 bp):
GCTGCTAAAGGTCATGTTCTATAGTGGCGTTTGTGGAAAAGC
Found at i:18010746 original size:3 final size:3
Alignment explanation
Indices: 18010733--18010783 Score: 84
Period size: 3 Copynumber: 16.7 Consensus size: 3
18010723 TGACGTGTAT
*
18010733 TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
18010782 TT
1 TT
18010784 CAACTTAGAT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
3 42 0.93
4 3 0.07
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:18011329 original size:29 final size:29
Alignment explanation
Indices: 18011296--18011355 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
18011286 GAGTTTAGGT
18011296 ATCTAAAAAGTGTTGTAGATTGAGTATTA
1 ATCTAAAAAGTGTTGTAGATTGAGTATTA
18011325 ATCTAAAAAGTGTTGTAGATTGAGTATTA
1 ATCTAAAAAGTGTTGTAGATTGAGTATTA
18011354 AT
1 AT
18011356 TCGATTAGCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.38, C:0.03, G:0.20, T:0.38
Consensus pattern (29 bp):
ATCTAAAAAGTGTTGTAGATTGAGTATTA
Found at i:18018486 original size:2 final size:2
Alignment explanation
Indices: 18018479--18018511 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
18018469 AGACCTTATT
18018479 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18018512 AACTAAAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18026687 original size:34 final size:34
Alignment explanation
Indices: 18026603--18026672 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
18026593 TACAATGAAG
18026603 AACACTAAGAGCAAAAAGGGTTGGATGAAAATAA
1 AACACTAAGAGCAAAAAGGGTTGGATGAAAATAA
18026637 AACACTAAGAGCAAAAAGGGTTGGATGAAAATAA
1 AACACTAAGAGCAAAAAGGGTTGGATGAAAATAA
18026671 AA
1 AA
18026673 GTTGATTTAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.54, C:0.09, G:0.23, T:0.14
Consensus pattern (34 bp):
AACACTAAGAGCAAAAAGGGTTGGATGAAAATAA
Found at i:18028220 original size:49 final size:49
Alignment explanation
Indices: 18028149--18028248 Score: 175
Period size: 49 Copynumber: 2.0 Consensus size: 49
18028139 ACCAATGAGG
18028149 AACAAACAAGACGGGGTATGGCTCATATCCCTTTTTGTGAA-CTATGTGA
1 AACAAACAAGACGGGGTATGGCTCATATCCCTTTTTGT-AACCTATGTGA
*
18028198 AACAAACAAGATGGGGTATGGCTCATATCCCTTTTTGTAACCTATGTGA
1 AACAAACAAGACGGGGTATGGCTCATATCCCTTTTTGTAACCTATGTGA
18028247 AA
1 AA
18028249 GTGTGGAGTC
Statistics
Matches: 49, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
48 2 0.04
49 47 0.96
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (49 bp):
AACAAACAAGACGGGGTATGGCTCATATCCCTTTTTGTAACCTATGTGA
Found at i:18029774 original size:46 final size:46
Alignment explanation
Indices: 18029713--18029892 Score: 136
Period size: 47 Copynumber: 3.9 Consensus size: 46
18029703 TGTATATGTG
18029713 CTGATGCATGTCCCAGACAT-GTCTTACACTGGCACTCACCTCTAC
1 CTGATGCATGTCCCAGACATGGTCTTACACTGGCACTCACCTCTAC
* * * * *
18029758 CCGATGCCATGTCCCAGACGTGGTCTTACACGGGCTA-TCA--TGATGC
1 CTGATG-CATGTCCCAGACATGGTCTTACACTGGC-ACTCACCT-CTAC
* * * * * *
18029804 GGCTGATGCATGTCCCAGACAT-GTCTTACATTAGCCCTCATCTCAATG
1 --CTGATGCATGTCCCAGACATGGTCTTACACTGGCACTCACCTCTA-C
* * *
18029852 CTGATGCCATGTCCCAAACATGGTCTTATACTGGCTCTCAC
1 CTGATG-CATGTCCCAGACATGGTCTTACACTGGCACTCAC
18029893 ATAACCCAAT
Statistics
Matches: 102, Mismatches: 21, Indels: 21
0.71 0.15 0.15
Matches are distributed among these distances:
45 6 0.06
46 34 0.33
47 41 0.40
48 21 0.21
ACGTcount: A:0.22, C:0.32, G:0.19, T:0.27
Consensus pattern (46 bp):
CTGATGCATGTCCCAGACATGGTCTTACACTGGCACTCACCTCTAC
Found at i:18035213 original size:30 final size:30
Alignment explanation
Indices: 18035177--18035237 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
18035167 GGAATTTTAA
*
18035177 TGTTATTTCATTAAGGGCATAATACTAAAC
1 TGTTATTTCATTAAGGGAATAATACTAAAC
*
18035207 TGTTATTTCATTAAGGGAATAATAGTAAAC
1 TGTTATTTCATTAAGGGAATAATACTAAAC
18035237 T
1 T
18035238 ATGTATAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.38
Consensus pattern (30 bp):
TGTTATTTCATTAAGGGAATAATACTAAAC
Found at i:18036233 original size:42 final size:44
Alignment explanation
Indices: 18036127--18036275 Score: 166
Period size: 43 Copynumber: 3.5 Consensus size: 44
18036117 TGTGTTTTTG
*
18036127 TGTAAGACCATGTCTGGGAC-GTTGGCATCGAT-TTGTGATTTACA
1 TGTAAGACCATGTCTGGGACAG-TCGCATCGATATT-TGATTTACA
* *
18036171 TGTAAGACCATGTCTGGGACA-TCAGTATC-ATATTTGATTT-CG
1 TGTAAGACCATGTCTGGGACAGTC-GCATCGATATTTGATTTACA
* * *
18036213 TGTAAGACCCTGTCTTGGACAGTCGCATCGATATTTGA-TCACA
1 TGTAAGACCATGTCTGGGACAGTCGCATCGATATTTGATTTACA
*
18036256 TGTAAGACCACGTCTGGGAC
1 TGTAAGACCATGTCTGGGAC
18036276 GTTGGCATTG
Statistics
Matches: 88, Mismatches: 11, Indels: 13
0.79 0.10 0.12
Matches are distributed among these distances:
42 25 0.28
43 37 0.42
44 26 0.30
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (44 bp):
TGTAAGACCATGTCTGGGACAGTCGCATCGATATTTGATTTACA
Found at i:18040962 original size:47 final size:47
Alignment explanation
Indices: 18040838--18041272 Score: 728
Period size: 47 Copynumber: 9.3 Consensus size: 47
18040828 CCCTTCGGGA
* *
18040838 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * * *
18040885 CTTATCA-ATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
18040931 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
18040978 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
18041025 CTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
18041072 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
18041119 CTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
18041166 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
18041213 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
18041260 CTTATCACATATA
1 CTTATCACATATA
18041273 CATATCTTGT
Statistics
Matches: 362, Mismatches: 25, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
46 40 0.11
47 322 0.89
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:18041174 original size:22 final size:22
Alignment explanation
Indices: 18041147--18041222 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
18041137 TTTCACATTC
18041147 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
18041169 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
18041193 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
18041216 ATCACAT
1 ATCACAT
18041223 ATATACACTT
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 18 0.46
23 5 0.13
24 5 0.13
25 11 0.28
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:18044367 original size:28 final size:28
Alignment explanation
Indices: 18044328--18044429 Score: 82
Period size: 28 Copynumber: 3.7 Consensus size: 28
18044318 CATGAAACGA
18044328 AATC-CGCACACACAGTGCCCACTGACC
1 AATCTCGCACACACAGTGCCCACTGACC
* *** * **
18044355 AATCTCGCACACATAGTGCTCGGTTAAAG
1 AATCTCGCACACACAGTGC-CCACTGACC
* *
18044384 AAT-TCGAACACACAGTGTCCACTGACC
1 AATCTCGCACACACAGTGCCCACTGACC
* *
18044411 GATCTCGCACACATAGTGC
1 AATCTCGCACACACAGTGC
18044430 TCGGTTAAAG
Statistics
Matches: 52, Mismatches: 20, Indels: 5
0.68 0.26 0.06
Matches are distributed among these distances:
27 9 0.17
28 37 0.71
29 6 0.12
ACGTcount: A:0.30, C:0.33, G:0.18, T:0.19
Consensus pattern (28 bp):
AATCTCGCACACACAGTGCCCACTGACC
Found at i:18044446 original size:28 final size:28
Alignment explanation
Indices: 18044359--18044456 Score: 92
Period size: 28 Copynumber: 3.5 Consensus size: 28
18044349 CTGACCAATC
*
18044359 TCGCACACATAGTGCTCGGTTAAAGAAT
1 TCGCACACACAGTGCTCGGTTAAAGAAT
* ** * **
18044387 TCGAACACACAGTG-TCCACTGACCG-AT
1 TCGCACACACAGTGCT-CGGTTAAAGAAT
*
18044414 CTCGCACACATAGTGCTCGGTTAAAGAAT
1 -TCGCACACACAGTGCTCGGTTAAAGAAT
18044443 TCGCACACACAGTG
1 TCGCACACACAGTG
18044457 TCTCAATTCA
Statistics
Matches: 51, Mismatches: 15, Indels: 8
0.69 0.20 0.11
Matches are distributed among these distances:
27 3 0.06
28 45 0.88
29 3 0.06
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (28 bp):
TCGCACACACAGTGCTCGGTTAAAGAAT
Found at i:18044457 original size:56 final size:56
Alignment explanation
Indices: 18044332--18044458 Score: 227
Period size: 56 Copynumber: 2.3 Consensus size: 56
18044322 AAACGAAATC
*
18044332 CGCACACACAGTGCCCACTGACCAATCTCGCACACATAGTGCTCGGTTAAAGAATT
1 CGCACACACAGTGTCCACTGACCAATCTCGCACACATAGTGCTCGGTTAAAGAATT
* *
18044388 CGAACACACAGTGTCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
1 CGCACACACAGTGTCCACTGACCAATCTCGCACACATAGTGCTCGGTTAAAGAATT
18044444 CGCACACACAGTGTC
1 CGCACACACAGTGTC
18044459 TCAATTCATT
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
56 67 1.00
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.20
Consensus pattern (56 bp):
CGCACACACAGTGTCCACTGACCAATCTCGCACACATAGTGCTCGGTTAAAGAATT
Found at i:18044475 original size:25 final size:25
Alignment explanation
Indices: 18044441--18044495 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
18044431 CGGTTAAAGA
*
18044441 ATTCGCACACACAGTGTCTCA-ATTC
1 ATTCGCACACACAGTGCCT-ATATTC
*
18044466 ATTCGCACACATAGTGCCTATATTC
1 ATTCGCACACACAGTGCCTATATTC
18044491 ATTCG
1 ATTCG
18044496 TTATTACACA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 1 0.04
25 26 0.96
ACGTcount: A:0.27, C:0.29, G:0.13, T:0.31
Consensus pattern (25 bp):
ATTCGCACACACAGTGCCTATATTC
Found at i:18044774 original size:39 final size:40
Alignment explanation
Indices: 18044664--18044812 Score: 230
Period size: 39 Copynumber: 3.8 Consensus size: 40
18044654 CACATCATCG
* *
18044664 GCACGAATGCCCTTCAGGACTTAGCCCGGACGTAACACCA
1 GCACGAATGCTCTTCAGGACTTAGCCCGGATGTAACACCA
* *
18044704 GCACGAATGCTCTTCAGGACTTAGTCTGGATGTAACACCA
1 GCACGAATGCTCTTCAGGACTTAGCCCGGATGTAACACCA
*
18044744 GCACGAATGCTC-TCGGGACTTAGCCCGGATGTAACACCA
1 GCACGAATGCTCTTCAGGACTTAGCCCGGATGTAACACCA
*
18044783 GCACGAATGCTCTTC-GGACTTAACCCGGAT
1 GCACGAATGCTCTTCAGGACTTAGCCCGGAT
18044813 CATCGTCGAG
Statistics
Matches: 100, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
39 50 0.50
40 50 0.50
ACGTcount: A:0.26, C:0.30, G:0.23, T:0.20
Consensus pattern (40 bp):
GCACGAATGCTCTTCAGGACTTAGCCCGGATGTAACACCA
Found at i:18044967 original size:37 final size:38
Alignment explanation
Indices: 18044870--18044981 Score: 154
Period size: 37 Copynumber: 3.0 Consensus size: 38
18044860 GAATTTTAAT
* * *
18044870 CCGGACATAATCTCTACACATAGCCATCGGATCTTTAC
1 CCGGACATAATCTCTACATATAGTCATCGGGTCTTTAC
* *
18044908 CCGGGCATAATCTCCACATATAGTCATCGGGTCTTTA-
1 CCGGACATAATCTCTACATATAGTCATCGGGTCTTTAC
* *
18044945 CCGGACACAATCTCTACTTATAGTCATCGGGTCTTTA
1 CCGGACATAATCTCTACATATAGTCATCGGGTCTTTA
18044982 AGCCCGATTC
Statistics
Matches: 65, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
37 33 0.51
38 32 0.49
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (38 bp):
CCGGACATAATCTCTACATATAGTCATCGGGTCTTTAC
Found at i:18046995 original size:47 final size:47
Alignment explanation
Indices: 18046925--18047215 Score: 473
Period size: 47 Copynumber: 6.3 Consensus size: 47
18046915 GCCCTTGGGA
* *
18046925 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * * *
18046972 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
18047019 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATT----
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
18047062 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
18047109 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
18047156 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
18047203 CTTATCACATATA
1 CTTATCACATATA
18047216 CATATCTTGT
Statistics
Matches: 229, Mismatches: 11, Indels: 8
0.92 0.04 0.03
Matches are distributed among these distances:
43 42 0.18
47 187 0.82
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:18047118 original size:22 final size:22
Alignment explanation
Indices: 18047090--18047165 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
18047080 TTTCACATTC
18047090 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
18047112 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
18047136 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
18047159 ATCACAT
1 ATCACAT
18047166 ATATACACTT
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 18 0.46
23 5 0.13
24 5 0.13
25 11 0.28
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:18047171 original size:137 final size:137
Alignment explanation
Indices: 18046925--18047198 Score: 476
Period size: 137 Copynumber: 2.0 Consensus size: 137
18046915 GCCCTTGGGA
*
18046925 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACAC
* *
18046990 CTTCACATCCATCACATCGGCCATTAGGTCTTATCTCATATATACACTTTCACATTCATCACATT
66 CTTCACATCCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATT
18047055 GGCCATT
131 GGCCATT
*
18047062 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACAC
* * * *
18047127 TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATT
66 CTTCACATCCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATT
18047192 GGCCATT
131 GGCCATT
18047199 AGGCCTTATC
Statistics
Matches: 129, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
137 129 1.00
ACGTcount: A:0.28, C:0.30, G:0.07, T:0.35
Consensus pattern (137 bp):
CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACAC
CTTCACATCCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATT
GGCCATT
Found at i:18050346 original size:25 final size:25
Alignment explanation
Indices: 18050312--18050366 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
18050302 CGGTTAAAGA
*
18050312 ATTCGCACACACAGTGTCTCA-ATTC
1 ATTCGCACACACAGTGCCT-ATATTC
*
18050337 ATTCGCACACATAGTGCCTATATTC
1 ATTCGCACACACAGTGCCTATATTC
18050362 ATTCG
1 ATTCG
18050367 TTATTACACA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 1 0.04
25 26 0.96
ACGTcount: A:0.27, C:0.29, G:0.13, T:0.31
Consensus pattern (25 bp):
ATTCGCACACACAGTGCCTATATTC
Found at i:18050590 original size:40 final size:40
Alignment explanation
Indices: 18050535--18050685 Score: 230
Period size: 40 Copynumber: 3.8 Consensus size: 40
18050525 CACATCATTG
*
18050535 ACACGAATGCCCTTCAGGACTTAGCCCGGATGTAACACCA
1 ACACGAATGCTCTTCAGGACTTAGCCCGGATGTAACACCA
18050575 ACACGAATGCTCTTCAGGACTTAGCCCGGATGTAACACCA
1 ACACGAATGCTCTTCAGGACTTAGCCCGGATGTAACACCA
* ** *
18050615 GCACGAATGCTCTTTGGGACTTAGCCCGGATGTAAGACCA
1 ACACGAATGCTCTTCAGGACTTAGCCCGGATGTAACACCA
* * *
18050655 GCACGAATGCTCTTCGGGACTTAACCCGGAT
1 ACACGAATGCTCTTCAGGACTTAGCCCGGAT
18050686 CATCGTCGAG
Statistics
Matches: 104, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 104 1.00
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.21
Consensus pattern (40 bp):
ACACGAATGCTCTTCAGGACTTAGCCCGGATGTAACACCA
Found at i:18050790 original size:38 final size:38
Alignment explanation
Indices: 18050743--18050855 Score: 154
Period size: 38 Copynumber: 3.0 Consensus size: 38
18050733 GAATTTTAAT
* * *
18050743 CCGGACATAATCTCTACACATAGCCATCGGATCTTTAC
1 CCGGACATAATCTCTACATATAGTCATCGGGTCTTTAC
* *
18050781 CCGGGCATAATCTCCACATATAGTCATCGGGTCTTTAC
1 CCGGACATAATCTCTACATATAGTCATCGGGTCTTTAC
* * *
18050819 TCGGACACAATCTCTACTTATAGTCATCGGGTCTTTA
1 CCGGACATAATCTCTACATATAGTCATCGGGTCTTTA
18050856 AGCCCAGATT
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 65 1.00
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (38 bp):
CCGGACATAATCTCTACATATAGTCATCGGGTCTTTAC
Found at i:18052867 original size:47 final size:47
Alignment explanation
Indices: 18052804--18053141 Score: 549
Period size: 47 Copynumber: 7.3 Consensus size: 47
18052794 CCCTTCGGGA
* * *
18052804 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * * *
18052851 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
18052898 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATT----
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
18052941 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
18052988 CTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
18053035 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
18053082 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
18053129 CTTATCACATATA
1 CTTATCACATATA
18053142 CATATCTTGT
Statistics
Matches: 273, Mismatches: 14, Indels: 8
0.93 0.05 0.03
Matches are distributed among these distances:
43 42 0.15
47 231 0.85
ACGTcount: A:0.28, C:0.29, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:18053043 original size:22 final size:22
Alignment explanation
Indices: 18053016--18053091 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
18053006 TTTCACATTC
18053016 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
18053038 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
18053062 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
18053085 ATCACAT
1 ATCACAT
18053092 ATATACACTT
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 18 0.46
23 5 0.13
24 5 0.13
25 11 0.28
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:18054378 original size:144 final size:144
Alignment explanation
Indices: 18054118--18054407 Score: 571
Period size: 144 Copynumber: 2.0 Consensus size: 144
18054108 TTAATATGCG
18054118 GCATTTATCTACCAATTCAAATGACAAGTTGAATTCATGGTCGAATGCAACAATCAACCCAATTA
1 GCATTTATCTACCAATTCAAATGACAAGTTGAATTCATGGTCGAATGCAACAATCAACCCAATTA
18054183 CATAATCAATTTATCACTTAGGTGCTAATTTGAATAATTCTCATACAACTATTATCAATACACAT
66 CATAATCAATTTATCACTTAGGTGCTAATTTGAATAATTCTCATACAACTATTATCAATACACAT
18054248 TAATTTTTGTATAA
131 TAATTTTTGTATAA
18054262 GCATTTATCTACCAATTCAAATGACAAGTTGAATTCATGGTCGAATGCAACAATCAACCCAATTA
1 GCATTTATCTACCAATTCAAATGACAAGTTGAATTCATGGTCGAATGCAACAATCAACCCAATTA
*
18054327 CATAATCAATTTATCACTTAGGTGCTAATTTGAATAATTCTCATACAACTATTATCAGTACACAT
66 CATAATCAATTTATCACTTAGGTGCTAATTTGAATAATTCTCATACAACTATTATCAATACACAT
18054392 TAATTTTTGTATAA
131 TAATTTTTGTATAA
18054406 GC
1 GC
18054408 CCCCACATAC
Statistics
Matches: 145, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
144 145 1.00
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.34
Consensus pattern (144 bp):
GCATTTATCTACCAATTCAAATGACAAGTTGAATTCATGGTCGAATGCAACAATCAACCCAATTA
CATAATCAATTTATCACTTAGGTGCTAATTTGAATAATTCTCATACAACTATTATCAATACACAT
TAATTTTTGTATAA
Found at i:18056293 original size:40 final size:40
Alignment explanation
Indices: 18056242--18056400 Score: 160
Period size: 40 Copynumber: 4.0 Consensus size: 40
18056232 TAGCCCGTTA
* *
18056242 TAGTAATTCGCACAATTGCCTTCGGGAATTAGCCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGGAATTAGCCCGGATT
* *
18056282 TAGTAACTCGCACAAATGCCTTC-GGAACTTAACCCGGTTT
1 TAGTAACTCGCACAAATGCCTTCGGGAA-TTAGCCCGGATT
* * *
18056322 TGGTAACTCGCACAAATGCCTTCGAGAATT-GACCTGGATT
1 TAGTAACTCGCACAAATGCCTTCGGGAATTAG-CCCGGATT
* * * * * *
18056362 TAATCACTTAGCACAAAAGCCTTCAGGACTTAGCCCGGA
1 TAGTAAC-TCGCACAAATGCCTTCGGGAATTAGCCCGGA
18056401 CATCATTCGA
Statistics
Matches: 96, Mismatches: 18, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 4 0.04
40 65 0.68
41 26 0.27
42 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.26
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGGGAATTAGCCCGGATT
Found at i:18056342 original size:80 final size:81
Alignment explanation
Indices: 18056244--18056399 Score: 192
Period size: 80 Copynumber: 1.9 Consensus size: 81
18056234 GCCCGTTATA
* * * * * *
18056244 GTAATTCGCACAATTGCCTTCGGGAATT-AGCCCGGATTTAGTAAC-TCGCACAAATGCCTTC-G
1 GTAACTCGCACAAATGCCTTCGAGAATTGA-CCCGGATTTAATAACTTAGCACAAAAGCCTTCAG
18056306 GAACTTAACCCGGTTTTG
65 G-ACTTAACCCGGTTTTG
* *
18056324 GTAACTCGCACAAATGCCTTCGAGAATTGACCTGGATTTAATCACTTAGCACAAAAGCCTTCAGG
1 GTAACTCGCACAAATGCCTTCGAGAATTGACCCGGATTTAATAACTTAGCACAAAAGCCTTCAGG
*
18056389 ACTTAGCCCGG
66 ACTTAACCCGG
18056400 ACATCATTCG
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
80 37 0.58
81 25 0.39
82 2 0.03
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (81 bp):
GTAACTCGCACAAATGCCTTCGAGAATTGACCCGGATTTAATAACTTAGCACAAAAGCCTTCAGG
ACTTAACCCGGTTTTG
Found at i:18063257 original size:40 final size:40
Alignment explanation
Indices: 18063213--18063307 Score: 145
Period size: 40 Copynumber: 2.4 Consensus size: 40
18063203 CTATACCATT
* *
18063213 TCGCACACTTAGTGCTATTTATAGCCGAAGCTATTTTGAA
1 TCGCACACTTAGTGCTATTTATAGCCAAAACTATTTTGAA
* *
18063253 TCGCACACTTAGTGTTGTTTATAGCCAAAACTATTTTGAA
1 TCGCACACTTAGTGCTATTTATAGCCAAAACTATTTTGAA
*
18063293 TTGCACACTTAGTGC
1 TCGCACACTTAGTGC
18063308 CAAATGTAGT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (40 bp):
TCGCACACTTAGTGCTATTTATAGCCAAAACTATTTTGAA
Found at i:18071758 original size:2 final size:2
Alignment explanation
Indices: 18071751--18071783 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
18071741 AAACTAATTC
18071751 AT AT 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 AT AT A
18071784 ATACCTATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18083188 original size:27 final size:28
Alignment explanation
Indices: 18083131--18083200 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
18083121 AAATTTGTAC
**
18083131 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
18083159 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
18083186 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
18083201 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:18083209 original size:27 final size:27
Alignment explanation
Indices: 18083131--18083212 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
18083121 AAATTTGTAC
* *
18083131 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
18083159 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
18083186 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
18083213 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Done.