Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007926.1 Hibiscus syriacus cultivar Beakdansim tig00110332_pilon, whole genome shotgun sequence
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: 10075380
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 42 of 42
Found at i:9708919 original size:19 final size:19
Alignment explanation
Indices: 9708897--9709000 Score: 146
Period size: 19 Copynumber: 5.7 Consensus size: 19
9708887 CGCGAAGCTA
*
9708897 ATTTCGCGTTGCGATTTTC
1 ATTTCGCATTGCGATTTTC
9708916 ATTTTCGCATTGCGA--TTC
1 A-TTTCGCATTGCGATTTTC
*
9708934 A-CTCG--TTGCGATTTTC
1 ATTTCGCATTGCGATTTTC
9708950 ATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTTTC
9708969 ATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTTTC
9708988 ATTTCGCATTGCG
1 ATTTCGCATTGCG
9709001 GTTCTCTCGT
Statistics
Matches: 76, Mismatches: 3, Indels: 12
0.84 0.03 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 3 0.04
18 4 0.05
19 44 0.58
20 12 0.16
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.45
Consensus pattern (19 bp):
ATTTCGCATTGCGATTTTC
Found at i:9708990 original size:38 final size:35
Alignment explanation
Indices: 9708897--9709016 Score: 140
Period size: 38 Copynumber: 3.4 Consensus size: 35
9708887 CGCGAAGCTA
9708897 ATTTCGCGTTGCGATTTTCATTTTCGCATTGCGATTC
1 ATTTCGC-TTGCGATTTTCA-TTTCGCATTGCGATTC
*
9708934 A-CTCG-TTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCTTGCGATTTTCATTTCGCATTGCGA--TTC
*
9708969 ATTTCGCATTGCGATTTTCATTTCGCATTGCGGTTC
1 ATTTCGC-TTGCGATTTTCATTTCGCATTGCGATTC
*
9709005 -TCTCG-TTGCGAT
1 ATTTCGCTTGCGAT
9709017 AGTCAATTCC
Statistics
Matches: 74, Mismatches: 4, Indels: 14
0.80 0.04 0.15
Matches are distributed among these distances:
33 20 0.27
34 12 0.16
35 8 0.11
36 9 0.12
37 1 0.01
38 24 0.32
ACGTcount: A:0.13, C:0.23, G:0.19, T:0.45
Consensus pattern (35 bp):
ATTTCGCTTGCGATTTTCATTTCGCATTGCGATTC
Found at i:9709033 original size:20 final size:20
Alignment explanation
Indices: 9709008--9709076 Score: 95
Period size: 20 Copynumber: 3.5 Consensus size: 20
9708998 GCGGTTCTCT
9709008 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCAATTCCG
*
9709028 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCAATTCCG
* *
9709048 TGTTACGATAGTCATATT-CG
1 CGTTGCGATAGTCA-ATTCCG
9709068 CGTTGCGAT
1 CGTTGCGAT
9709077 TTCCGCGTTG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 40 0.95
21 2 0.05
ACGTcount: A:0.19, C:0.22, G:0.25, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCAATTCCG
Found at i:9709034 original size:72 final size:72
Alignment explanation
Indices: 9708897--9709095 Score: 204
Period size: 72 Copynumber: 2.8 Consensus size: 72
9708887 CGCGAAGCTA
* ** *
9708897 ATTTCGCGTTGCGATTTTCATTTTCGCATTGCGATTCACTCGTTGCGATTTTCATTTCGCATTGC
1 ATTTCGCATTGCGATTTTCATTTTCGCATTGCGATTCACTCGTTGCGATAGTCATTCCGCATTGC
**
9708962 GATTTTC
66 GATAGTC
* * *
9708969 ATTTCGCATTGCGATTTTCA-TTTCGCATTGCGGTTCTCTCGTTGCGATAGTCAATTCCGCGTTG
1 ATTTCGCATTGCGATTTTCATTTTCGCATTGCGATTCACTCGTTGCGATAGTC-ATTCCGCATTG
9709033 CGATAGTC
65 CGATAGTC
** * ** * * *
9709041 ATTTCCGTGTTACGATAGTCATATTCGCGTTGCGATTTC-CGCGTTGCGATAGTCA
1 ATTT-CGCATTGCGATTTTCATTTTCGCATTGCGA-TTCACTCGTTGCGATAGTCA
9709096 AATGAATGTC
Statistics
Matches: 105, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
71 28 0.27
72 38 0.36
73 12 0.11
74 24 0.23
75 3 0.03
ACGTcount: A:0.16, C:0.23, G:0.21, T:0.41
Consensus pattern (72 bp):
ATTTCGCATTGCGATTTTCATTTTCGCATTGCGATTCACTCGTTGCGATAGTCATTCCGCATTGC
GATAGTC
Found at i:9711536 original size:24 final size:24
Alignment explanation
Indices: 9711509--9711562 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
9711499 TTGAAAAATC
9711509 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
9711533 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
9711557 ATCAAA
1 ATCAAA
9711563 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:9711576 original size:24 final size:24
Alignment explanation
Indices: 9711509--9711576 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
9711499 TTGAAAAATC
* * *
9711509 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
9711533 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
9711557 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
9711577 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:9712447 original size:20 final size:20
Alignment explanation
Indices: 9712424--9712484 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
9712414 CAGAATCTCG
9712424 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
* ** *
9712444 TTGCGATTTTCCAAATTCGCG
1 TTGCGA-TTTACGTATTCGCA
9712465 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
9712485 ATCGCGTTGC
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
20 16 0.50
21 16 0.50
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.39
Consensus pattern (20 bp):
TTGCGATTTACGTATTCGCA
Found at i:9716863 original size:39 final size:40
Alignment explanation
Indices: 9716798--9716876 Score: 124
Period size: 39 Copynumber: 2.0 Consensus size: 40
9716788 GACATTACTT
* *
9716798 ATCCATTTTTTCCAAGTTAGTTTCAAATCTAAACCTCTAA
1 ATCCATCTTTTCCAACTTAGTTTCAAATCTAAACCTCTAA
*
9716838 ATCCATCTTTT-CAACTTAGTTTCAAATCTAAACTTCTAA
1 ATCCATCTTTTCCAACTTAGTTTCAAATCTAAACCTCTAA
9716877 GTGTCCAACC
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 26 0.72
40 10 0.28
ACGTcount: A:0.33, C:0.23, G:0.04, T:0.41
Consensus pattern (40 bp):
ATCCATCTTTTCCAACTTAGTTTCAAATCTAAACCTCTAA
Found at i:9718997 original size:27 final size:28
Alignment explanation
Indices: 9718938--9718999 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 28
9718928 TTAAAACTTA
9718938 TATTTTA-TTTTAAATAAATATTATAAT
1 TATTTTATTTTTAAATAAATATTATAAT
* *
9718965 TTTTTTATTTTTGAAT-AATATTAT-AT
1 TATTTTATTTTTAAATAAATATTATAAT
9718991 TAATTTTAT
1 T-ATTTTAT
9719000 AGAATAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 3 0.10
27 20 0.67
28 7 0.23
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (28 bp):
TATTTTATTTTTAAATAAATATTATAAT
Found at i:9720777 original size:60 final size:60
Alignment explanation
Indices: 9720641--9720777 Score: 154
Period size: 60 Copynumber: 2.3 Consensus size: 60
9720631 ATAGTCAGGT
* * ** *
9720641 GACCATTTTGTAACATTTAATAGTTATGGGACTCAACAAAACAACTCCATATAGTTGGTG
1 GACCATTTTGTAACTTTTAATAGTTATGAGACTCAACAAAACAACTCCATATAGTTCATA
** *
9720701 GATTATTTTGTAACTTTTAATAGTTATGAGACTCAACAAAACAACGTTC-TATAG-TCATAA
1 GACCATTTTGTAACTTTTAATAGTTATGAGACTCAACAAAACAAC-TCCATATAGTTCAT-A
9720761 GACCATTTGTGT-ACTTT
1 GACCATTT-TGTAACTTT
9720778 ATCCTTAAAA
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
59 2 0.03
60 57 0.89
61 5 0.08
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (60 bp):
GACCATTTTGTAACTTTTAATAGTTATGAGACTCAACAAAACAACTCCATATAGTTCATA
Found at i:9734311 original size:18 final size:19
Alignment explanation
Indices: 9734281--9734330 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
9734271 CTATATAATG
9734281 TTTAAATAATAATT-TTTAA
1 TTTAAA-AATAATTATTTAA
*
9734300 -TTATAAAATAATTATTTTA
1 TTTA-AAAATAATTATTTAA
9734319 TTTAAAAATAAT
1 TTTAAAAATAAT
9734331 AAATTAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 10 0.37
19 14 0.52
20 3 0.11
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TTTAAAAATAATTATTTAA
Found at i:9734338 original size:27 final size:26
Alignment explanation
Indices: 9734302--9734353 Score: 86
Period size: 27 Copynumber: 2.0 Consensus size: 26
9734292 ATTTTTAATT
9734302 ATAAAATAATTATTTTATTTAAAAATA
1 ATAAAATAATTATTTTA-TTAAAAATA
*
9734329 ATAAATTAATTATTTTATTAAAAAT
1 ATAAAATAATTATTTTATTAAAAAT
9734354 TTATCGAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 8 0.33
27 16 0.67
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (26 bp):
ATAAAATAATTATTTTATTAAAAATA
Found at i:9745738 original size:20 final size:20
Alignment explanation
Indices: 9745709--9745763 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
9745699 AGAATGTTAT
*
9745709 CAGGGTATCTATACTATAGA
1 CAGGGTATCTATACCATAGA
*
9745729 CAGGGCATCTATACCATAGA
1 CAGGGTATCTATACCATAGA
9745749 CAGGGTATCTATACC
1 CAGGGTATCTATACC
9745764 TCAGTTAGGG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (20 bp):
CAGGGTATCTATACCATAGA
Found at i:9746773 original size:24 final size:24
Alignment explanation
Indices: 9746746--9746795 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
9746736 TACGAAGCAT
9746746 TTCTACGCGGCACTTCGGTGCAAA
1 TTCTACGCGGCACTTCGGTGCAAA
*
9746770 TTCTACGTGGCACTTCGGTGCAAA
1 TTCTACGCGGCACTTCGGTGCAAA
9746794 TT
1 TT
9746796 TATACGAGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.20, C:0.26, G:0.24, T:0.30
Consensus pattern (24 bp):
TTCTACGCGGCACTTCGGTGCAAA
Found at i:9751999 original size:18 final size:18
Alignment explanation
Indices: 9751976--9752023 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
9751966 AATCTACGTC
9751976 TGATAACTGTAAAACATA
1 TGATAACTGTAAAACATA
* *
9751994 TGATAATTGT-AAACATC
1 TGATAACTGTAAAACATA
*
9752011 TAATAACTGTAAA
1 TGATAACTGTAAA
9752024 TATCTAATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
17 14 0.56
18 11 0.44
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.31
Consensus pattern (18 bp):
TGATAACTGTAAAACATA
Found at i:9752009 original size:17 final size:17
Alignment explanation
Indices: 9751976--9752037 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 17
9751966 AATCTACGTC
9751976 TGATAACTGTAAAACATA
1 TGATAACTGT-AAACATA
* *
9751994 TGATAATTGTAAACATC
1 TGATAACTGTAAACATA
* * *
9752011 TAATAACTGTAAATATC
1 TGATAACTGTAAACATA
*
9752028 TAATAACTGT
1 TGATAACTGT
9752038 GAAATGTCTT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
17 30 0.77
18 9 0.23
ACGTcount: A:0.45, C:0.11, G:0.10, T:0.34
Consensus pattern (17 bp):
TGATAACTGTAAACATA
Found at i:9752051 original size:18 final size:17
Alignment explanation
Indices: 9751996--9752058 Score: 72
Period size: 17 Copynumber: 3.6 Consensus size: 17
9751986 AAAACATATG
* *
9751996 ATAATTGTAAACATCTA
1 ATAACTGTAAATATCTA
9752013 ATAACTGTAAATATCTA
1 ATAACTGTAAATATCTA
* *
9752030 ATAACTGTGAAATGTCTT
1 ATAACTGT-AAATATCTA
*
9752048 ATAACTTTAAA
1 ATAACTGTAAA
9752059 CATTTAGAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
17 26 0.65
18 14 0.35
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.37
Consensus pattern (17 bp):
ATAACTGTAAATATCTA
Found at i:9752176 original size:20 final size:20
Alignment explanation
Indices: 9752151--9752201 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
9752141 AGAAATATTG
9752151 CATACTGAAAATTTATAAAT
1 CATACTGAAAATTTATAAAT
9752171 CATACTGAAAATTTATAAAT
1 CATACTGAAAATTTATAAAT
*
9752191 AATACTGAAAA
1 CATACTGAAAA
9752202 ATAAAATGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.53, C:0.10, G:0.06, T:0.31
Consensus pattern (20 bp):
CATACTGAAAATTTATAAAT
Found at i:9753061 original size:20 final size:20
Alignment explanation
Indices: 9753034--9753090 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
9753024 CCAGAATGTT
9753034 GACAGGGTATCTATACCATA
1 GACAGGGTATCTATACCATA
*
9753054 GGCAGGGTATCTATACCATA
1 GACAGGGTATCTATACCATA
* *
9753074 GATAGGGTATTTATACC
1 GACAGGGTATCTATACC
9753091 CCAATTAGGG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.28
Consensus pattern (20 bp):
GACAGGGTATCTATACCATA
Found at i:9753492 original size:2 final size:2
Alignment explanation
Indices: 9753487--9753511 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9753477 TGTATGTGTG
9753487 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 A
9753512 AACATAAGTA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9753780 original size:18 final size:18
Alignment explanation
Indices: 9753741--9753782 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
9753731 CGTGAGCCTA
9753741 TATG-AATATATGATATG
1 TATGTAATATATGATATG
*
9753758 AATGTAATATATG-TGATG
1 TATGTAATATATGAT-ATG
9753776 TATGTAA
1 TATGTAA
9753783 AGTATATGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.40, C:0.00, G:0.19, T:0.40
Consensus pattern (18 bp):
TATGTAATATATGATATG
Found at i:9756502 original size:23 final size:23
Alignment explanation
Indices: 9756439--9756503 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 23
9756429 ACATTATTAT
*
9756439 ATGGCACTACGGTGTAATTCTAC
1 ATGGCACTACGGTGCAATTCTAC
** * * *
9756462 GCGGCACTCCGATACAATTCTAC
1 ATGGCACTACGGTGCAATTCTAC
*
9756485 ATGGCACTTCGGTGCAATT
1 ATGGCACTACGGTGCAATT
9756504 ATACGAGCTG
Statistics
Matches: 31, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.28
Consensus pattern (23 bp):
ATGGCACTACGGTGCAATTCTAC
Found at i:9759960 original size:19 final size:19
Alignment explanation
Indices: 9759936--9759972 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
9759926 CATCGAATGC
9759936 AAGTAGTGCATCGATGCAT
1 AAGTAGTGCATCGATGCAT
9759955 AAGTAGTGCATCGATGCA
1 AAGTAGTGCATCGATGCA
9759973 CCCCCTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.24
Consensus pattern (19 bp):
AAGTAGTGCATCGATGCAT
Found at i:9761649 original size:23 final size:23
Alignment explanation
Indices: 9761590--9761658 Score: 88
Period size: 23 Copynumber: 3.0 Consensus size: 23
9761580 CATTATTATA
9761590 TGGCAC-TACGGTGCAATTCTACG
1 TGGCACTTA-GGTGCAATTCTACG
*
9761613 TGGCACTCCA-GTGCAATTCTACG
1 TGGCACT-TAGGTGCAATTCTACG
*
9761636 TGGCACTTAGGTGCAATTATACG
1 TGGCACTTAGGTGCAATTCTACG
9761659 AGCTGTGGTG
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
22 1 0.03
23 38 0.95
25 1 0.03
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.28
Consensus pattern (23 bp):
TGGCACTTAGGTGCAATTCTACG
Found at i:9768725 original size:244 final size:247
Alignment explanation
Indices: 9768287--9768785 Score: 706
Period size: 244 Copynumber: 2.0 Consensus size: 247
9768277 ATTTTAAAAC
*
9768287 TTTCTTAAAAGATCTGCTTTTATCAGTTATGTTTAGAATTAGAACACAACTGCAGTATAGGTTCT
1 TTTCTTAAAAGATCTGCTTTTATCAGTTATG-TT---ATTAGAACACAACTACAGTATAGGTTC-
* * * *
9768352 TTGGTTTATGGATTTCACGTAGATAATCATCAGCATCACCATACCTTTATGAAACTATAGCAGTC
61 -TGGTTTATGGAATTCACGTAGATAATCATCACCATCACCATACCTTTATGAAACTATAGAAATC
* * * *
9768417 TTTACAGCCCTTTAGAATGGTAGAGGACAAGTTGCCTCTTTATGTTATTCTGGTAATGCAGATGG
125 TTCACAGCCCTTTAGAATGGTAGAGGACAAATTGCCACTTTATGTTATTCTAGTAATGCAGATGG
* * *
9768482 AATATTCTTCTTTACTTCCAACTATCATATGAGTTTATATACAATTATAAGTGGACAG
190 AATACTCTTCTTTACTTCCAACTATCACATGAGTTCATATACAATTATAAGTGGACAG
*
9768540 TTTCTTAAAGGATCTGCTTTTATCAGTTATG-T-TTAGAACACAA-TACATGTATAGGTTC-GGT
1 TTTCTTAAAAGATCTGCTTTTATCAGTTATGTTATTAGAACACAACTACA-GTATAGGTTCTGGT
*
9768601 TTATGGAATTCTA-GTAGATAATCATCACCATC-CTCGTACCTTTATGAAACTATTA-AAATCTT
65 TTATGGAATTC-ACGTAGATAATCATCACCATCAC-CATACCTTTATGAAACTA-TAGAAATCTT
* *
9768663 CACAGCTCTTTAGAATGGTAGAGGACAAATTGCCACTTTATGTTATTCTAGTATTGCAGATGGAA
127 CACAGCCCTTTAGAATGGTAGAGGACAAATTGCCACTTTATGTTATTCTAGTAATGCAGATGGAA
*
9768728 TACTCTTCTTTACTTCCAACTATCACATGAGTTCGTATACAATTATAAGTGGACAG
192 TACTCTTCTTTACTTCCAACTATCACATGAGTTCATATACAATTATAAGTGGACAG
9768784 TT
1 TT
9768786 ATACCTAATT
Statistics
Matches: 225, Mismatches: 17, Indels: 17
0.87 0.07 0.07
Matches are distributed among these distances:
243 1 0.00
244 166 0.74
245 3 0.01
246 3 0.01
247 21 0.09
251 1 0.00
253 30 0.13
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (247 bp):
TTTCTTAAAAGATCTGCTTTTATCAGTTATGTTATTAGAACACAACTACAGTATAGGTTCTGGTT
TATGGAATTCACGTAGATAATCATCACCATCACCATACCTTTATGAAACTATAGAAATCTTCACA
GCCCTTTAGAATGGTAGAGGACAAATTGCCACTTTATGTTATTCTAGTAATGCAGATGGAATACT
CTTCTTTACTTCCAACTATCACATGAGTTCATATACAATTATAAGTGGACAG
Found at i:9769537 original size:33 final size:33
Alignment explanation
Indices: 9769495--9769562 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
9769485 GTGTCCGTTC
*
9769495 TTGAATCCTTTTAGTCTTTGTTTTGT-TATTTGT
1 TTGAATCCTTTTAGGCTTTGTTTTGTCT-TTTGT
9769528 TTGAATCCTTTTAGGCTTTGTTTTGTCTTTTGT
1 TTGAATCCTTTTAGGCTTTGTTTTGTCTTTTGT
9769561 TT
1 TT
9769563 TTTTTATTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
33 32 0.97
34 1 0.03
ACGTcount: A:0.10, C:0.10, G:0.16, T:0.63
Consensus pattern (33 bp):
TTGAATCCTTTTAGGCTTTGTTTTGTCTTTTGT
Found at i:9771347 original size:16 final size:16
Alignment explanation
Indices: 9771328--9771359 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
9771318 AGTGATTGGT
9771328 TTTGATACTGATATAC
1 TTTGATACTGATATAC
9771344 TTTGATACTGATATAC
1 TTTGATACTGATATAC
9771360 CTATTTTTTT
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:0.31, C:0.12, G:0.12, T:0.44
Consensus pattern (16 bp):
TTTGATACTGATATAC
Found at i:9774055 original size:24 final size:23
Alignment explanation
Indices: 9774027--9774072 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
9774017 AAGTCTAGCG
* *
9774027 TTTTTATTTTTGTTTATGATATTAA
1 TTTTT-TTATTGTTAATG-TATTAA
9774052 TTTTTTTATTGTTAATGTATT
1 TTTTTTTATTGTTAATGTATT
9774073 CAATAATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.21
24 10 0.53
25 5 0.26
ACGTcount: A:0.22, C:0.00, G:0.09, T:0.70
Consensus pattern (23 bp):
TTTTTTTATTGTTAATGTATTAA
Found at i:9775538 original size:29 final size:29
Alignment explanation
Indices: 9775496--9775552 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
9775486 AGTGTTGGCC
*
9775496 GTAGGTCGCCATGCACTCCGGGCGACCTT
1 GTAGGTCGCCATGCACTCCGGACGACCTT
9775525 GTAGGTCGCCATGCACTCCGGACGACCT
1 GTAGGTCGCCATGCACTCCGGACGACCT
9775553 ACCCTTGCTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.16, C:0.35, G:0.30, T:0.19
Consensus pattern (29 bp):
GTAGGTCGCCATGCACTCCGGACGACCTT
Found at i:9775587 original size:12 final size:12
Alignment explanation
Indices: 9775570--9775594 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9775560 CTCAAACAGA
9775570 GAGAATGAACGT
1 GAGAATGAACGT
9775582 GAGAATGAACGT
1 GAGAATGAACGT
9775594 G
1 G
9775595 TTGCATTGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.36, T:0.16
Consensus pattern (12 bp):
GAGAATGAACGT
Found at i:9775691 original size:33 final size:33
Alignment explanation
Indices: 9775654--9775727 Score: 114
Period size: 33 Copynumber: 2.2 Consensus size: 33
9775644 CGACCTACCA
*
9775654 TCGCTCGGCTT-CCCTCGGATTCCCTCGCATAGC
1 TCGCTCGG-TTACCCTCGGATGCCCTCGCATAGC
9775687 TCGCTCGGTTACCCTCGGATGCCCTCGCATAGC
1 TCGCTCGGTTACCCTCGGATGCCCTCGCATAGC
*
9775720 TCGTTCGG
1 TCGCTCGG
9775728 ATGGCCTCGG
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
32 2 0.05
33 36 0.95
ACGTcount: A:0.09, C:0.39, G:0.24, T:0.27
Consensus pattern (33 bp):
TCGCTCGGTTACCCTCGGATGCCCTCGCATAGC
Found at i:9775741 original size:14 final size:14
Alignment explanation
Indices: 9775719--9775783 Score: 58
Period size: 14 Copynumber: 4.2 Consensus size: 14
9775709 CCTCGCATAG
*
9775719 CTCGTTCGGATGGC
1 CTCGGTCGGATGGC
9775733 CTCGGTCGGATGGC
1 CTCGGTCGGATGGC
*
9775747 CTCGGATGCTCTCGGATGAC
1 CTC-G--G---TCGGATGGC
9775767 CTCGGTCGGATGGC
1 CTCGGTCGGATGGC
9775781 CTC
1 CTC
9775784 AGATGCCCAG
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
14 27 0.64
15 1 0.02
17 2 0.05
19 1 0.02
20 11 0.26
ACGTcount: A:0.09, C:0.31, G:0.35, T:0.25
Consensus pattern (14 bp):
CTCGGTCGGATGGC
Found at i:9775770 original size:34 final size:35
Alignment explanation
Indices: 9775701--9775789 Score: 117
Period size: 34 Copynumber: 2.5 Consensus size: 35
9775691 TCGGTTACCC
* * *
9775701 TCGGATGCCCTCGCATAGCTCGTTCGGATGGCCTCGG
1 TCGGATGGCCTCGGAT-GCTCG-TCGGATGACCTCGG
9775738 TCGGATGGCCTCGGATGCTC-TCGGATGACCTCGG
1 TCGGATGGCCTCGGATGCTCGTCGGATGACCTCGG
*
9775772 TCGGATGGCCTCAGATGC
1 TCGGATGGCCTCGGATGC
9775790 CCAGCGTGTT
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
34 30 0.62
36 4 0.08
37 14 0.29
ACGTcount: A:0.12, C:0.30, G:0.34, T:0.24
Consensus pattern (35 bp):
TCGGATGGCCTCGGATGCTCGTCGGATGACCTCGG
Found at i:9775871 original size:29 final size:29
Alignment explanation
Indices: 9775839--9775911 Score: 128
Period size: 29 Copynumber: 2.5 Consensus size: 29
9775829 TAGCTCGTCG
*
9775839 GGAAGACATGGCGACCTAATAGGTCGCCC
1 GGAAGGCATGGCGACCTAATAGGTCGCCC
*
9775868 GGAAGGCATAGCGACCTAATAGGTCGCCC
1 GGAAGGCATGGCGACCTAATAGGTCGCCC
9775897 GGAAGGCATGGCGAC
1 GGAAGGCATGGCGAC
9775912 TTACGGCCAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.27, C:0.26, G:0.34, T:0.12
Consensus pattern (29 bp):
GGAAGGCATGGCGACCTAATAGGTCGCCC
Found at i:9779702 original size:17 final size:17
Alignment explanation
Indices: 9779675--9779713 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
9779665 AATTTACAAT
9779675 TAATT-TAAATAATATC
1 TAATTATAAATAATATC
9779691 TAATTATAAATAATATC
1 TAATTATAAATAATATC
9779708 TAATTA
1 TAATTA
9779714 ATTTGATTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATTATAAATAATATC
Found at i:9779831 original size:9 final size:9
Alignment explanation
Indices: 9779817--9779842 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
9779807 TATATTAGAA
9779817 GGTTAATTC
1 GGTTAATTC
9779826 GGTTAATTC
1 GGTTAATTC
9779835 GGTTAATT
1 GGTTAATT
9779843 AACAGATTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (9 bp):
GGTTAATTC
Found at i:9784168 original size:15 final size:16
Alignment explanation
Indices: 9784148--9784188 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
9784138 GTTTACCTCA
*
9784148 GAATGATT-AAGCGCT
1 GAATGATTCAAACGCT
*
9784163 GAATGATTCAAATGCT
1 GAATGATTCAAACGCT
9784179 GAATGATTCA
1 GAATGATTCA
9784189 GAGACTCTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (16 bp):
GAATGATTCAAACGCT
Found at i:9784271 original size:27 final size:27
Alignment explanation
Indices: 9784240--9784306 Score: 109
Period size: 27 Copynumber: 2.5 Consensus size: 27
9784230 GATAATGGCT
*
9784240 CTGAATCATTTAGAATGTACTTCTGTG
1 CTGAATCATTCAGAATGTACTTCTGTG
9784267 CTGAATCATTCAGAATGTACTTCTGTG
1 CTGAATCATTCAGAATGTACTTCTGTG
9784294 CT-AATTCATTCAG
1 CTGAA-TCATTCAG
9784307 CACTGTTTTG
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
26 2 0.05
27 36 0.95
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.39
Consensus pattern (27 bp):
CTGAATCATTCAGAATGTACTTCTGTG
Found at i:9789152 original size:31 final size:32
Alignment explanation
Indices: 9789083--9789160 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 32
9789073 ATTTAACACG
* *
9789083 TTTAATATATAAATTATCAGTTTTTCATTCTA
1 TTTAATATATAAATTATCAGATTTTCATTCGA
* **
9789115 TTTAATATTTAAATTATCA-ATTTTGGTTCGA
1 TTTAATATATAAATTATCAGATTTTCATTCGA
*
9789146 TTTAATATCTAAATT
1 TTTAATATATAAATT
9789161 TTTATTTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
31 22 0.55
32 18 0.45
ACGTcount: A:0.35, C:0.08, G:0.05, T:0.53
Consensus pattern (32 bp):
TTTAATATATAAATTATCAGATTTTCATTCGA
Found at i:9789347 original size:36 final size:36
Alignment explanation
Indices: 9789310--9789380 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
9789300 TATTATTAAA
*
9789310 TTTTAACGGGATAGTAAAATAAAACAAAAACTAAAAT
1 TTTTAA-GAGATAGTAAAATAAAACAAAAACTAAAAT
* * * *
9789347 TTTTAAGAGCTATTAAAATGAAATAAAAACTAAA
1 TTTTAAGAGATAGTAAAATAAAACAAAAACTAAA
9789381 GTTGAGATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
36 23 0.79
37 6 0.21
ACGTcount: A:0.56, C:0.07, G:0.10, T:0.27
Consensus pattern (36 bp):
TTTTAAGAGATAGTAAAATAAAACAAAAACTAAAAT
Found at i:9789435 original size:21 final size:21
Alignment explanation
Indices: 9789402--9789446 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
9789392 GCTTTGAAAA
*
9789402 AAAAATAAAAATTTAAGTACT
1 AAAAATAAAAATTTAAGCACT
* *
9789423 AAAACTAATAATTTAAGCACT
1 AAAAATAAAAATTTAAGCACT
9789444 AAA
1 AAA
9789447 CACGTAATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.60, C:0.09, G:0.04, T:0.27
Consensus pattern (21 bp):
AAAAATAAAAATTTAAGCACT
Found at i:9808748 original size:46 final size:46
Alignment explanation
Indices: 9808681--9808777 Score: 194
Period size: 46 Copynumber: 2.1 Consensus size: 46
9808671 GTGTACTTAA
9808681 AATTTTCTTTGATCTGATTATGTACTTGTATTTCGCTTTAAGGTTT
1 AATTTTCTTTGATCTGATTATGTACTTGTATTTCGCTTTAAGGTTT
9808727 AATTTTCTTTGATCTGATTATGTACTTGTATTTCGCTTTAAGGTTT
1 AATTTTCTTTGATCTGATTATGTACTTGTATTTCGCTTTAAGGTTT
9808773 AATTT
1 AATTT
9808778 AGTATTCTAA
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:0.21, C:0.10, G:0.14, T:0.55
Consensus pattern (46 bp):
AATTTTCTTTGATCTGATTATGTACTTGTATTTCGCTTTAAGGTTT
Found at i:9809321 original size:51 final size:50
Alignment explanation
Indices: 9809170--9809353 Score: 248
Period size: 51 Copynumber: 3.7 Consensus size: 50
9809160 TTCACTATAC
* * *
9809170 AAAAAAGTGTAGCACTTAACATATGCTTACACCGGTGTAAATGAATAAAAT
1 AAAAAAGTGTAACACTTAACACATACTTACACCGGTGT-AATGAATAAAAT
** *
9809221 AAAAAAGTGTAGTATTTAACACAT--TTACACCGGTGTGAATGAATAAAAT
1 AAAAAAGTGTAACACTTAACACATACTTACACCGGTGT-AATGAATAAAAT
9809270 AAAAAAGTGTAACACTTAACACATACTTACACCGGTGTAAGTGAATAAAAT
1 AAAAAAGTGTAACACTTAACACATACTTACACCGGTGTAA-TGAATAAAAT
* *
9809321 AAAAAA-TGTAACATTTAACACATACTTATACCG
1 AAAAAAGTGTAACACTTAACACATACTTACACCG
9809354 ATATAAGTAT
Statistics
Matches: 121, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
49 45 0.37
50 27 0.22
51 49 0.40
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.26
Consensus pattern (50 bp):
AAAAAAGTGTAACACTTAACACATACTTACACCGGTGTAATGAATAAAAT
Found at i:9811923 original size:154 final size:155
Alignment explanation
Indices: 9811635--9811947 Score: 592
Period size: 154 Copynumber: 2.0 Consensus size: 155
9811625 ACAGGATGCG
9811635 ATTATACTTTTTAAAAAAATTAAATTATTATCTAATTTAAATATTTTATTTACATTTATTACAGA
1 ATTATACTTTTTAAAAAAATTAAATTATTATCTAATTTAAATATTTTATTTACATTTATTACAGA
*
9811700 TAATATAATTTTCTATTAACGAGCGTAGATTATAAATGATTTATCCTTCTTGATTTTAACAAAAA
66 TAATATAATTTTCTATTAACGAGCGTAGATTATAAATGATTTATCCTTCTTGATTTGAACAAAAA
9811765 ATTATAATCAATTATCTTAAGACGT
131 ATTATAATCAATTATCTTAAGACGT
*
9811790 ATTATAC-TTTTAAAAAAATTAAATTATTATCTAATTTAAATATTTTATTTATATTTATTACAGA
1 ATTATACTTTTTAAAAAAATTAAATTATTATCTAATTTAAATATTTTATTTACATTTATTACAGA
*
9811854 TAATATAATTTTCTATTAACGAGCGTATATTATAAATGATTTATCCTTCTTGATTTGAACAAAAA
66 TAATATAATTTTCTATTAACGAGCGTAGATTATAAATGATTTATCCTTCTTGATTTGAACAAAAA
9811919 ATTATAATCAATTATCTTAAGACGT
131 ATTATAATCAATTATCTTAAGACGT
9811944 ATTA
1 ATTA
9811948 AGTTTGAAAC
Statistics
Matches: 155, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
154 148 0.95
155 7 0.05
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.45
Consensus pattern (155 bp):
ATTATACTTTTTAAAAAAATTAAATTATTATCTAATTTAAATATTTTATTTACATTTATTACAGA
TAATATAATTTTCTATTAACGAGCGTAGATTATAAATGATTTATCCTTCTTGATTTGAACAAAAA
ATTATAATCAATTATCTTAAGACGT
Found at i:9812961 original size:19 final size:20
Alignment explanation
Indices: 9812924--9812963 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
9812914 AAATTTTAGG
9812924 ATAATAAAATTAAATAATTA
1 ATAATAAAATTAAATAATTA
9812944 ATAA-AAAATATAAA-AATTA
1 ATAATAAAAT-TAAATAATTA
9812963 A
1 A
9812964 AATTTATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (20 bp):
ATAATAAAATTAAATAATTA
Found at i:9812964 original size:16 final size:16
Alignment explanation
Indices: 9812945--9812978 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
9812935 AAATAATTAA
9812945 TAAAAAATATAAAAAT
1 TAAAAAATATAAAAAT
**
9812961 TAAAATTTATAAAAAT
1 TAAAAAATATAAAAAT
9812977 TA
1 TA
9812979 CGATTGTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
TAAAAAATATAAAAAT
Found at i:9814267 original size:20 final size:20
Alignment explanation
Indices: 9814230--9814269 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
9814220 GGATGTATGG
* * *
9814230 TTTTTAAATTATATTTAAAT
1 TTTTTAAATGAAAATTAAAT
9814250 TTTTTAAATGAAAATTAAAT
1 TTTTTAAATGAAAATTAAAT
9814270 GCTTAAATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (20 bp):
TTTTTAAATGAAAATTAAAT
Found at i:9816105 original size:12 final size:12
Alignment explanation
Indices: 9816058--9816105 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
9816048 CATAAATCAA
*
9816058 AACAGAATTCAT
1 AACAGAATTCAG
*
9816070 AACAGAATCCAG
1 AACAGAATTCAG
* *
9816082 ATCAGAAATCAG
1 AACAGAATTCAG
*
9816094 AACATAATTCAG
1 AACAGAATTCAG
9816106 GTCATGTATC
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.50, C:0.19, G:0.12, T:0.19
Consensus pattern (12 bp):
AACAGAATTCAG
Found at i:9816126 original size:24 final size:24
Alignment explanation
Indices: 9816060--9816128 Score: 68
Period size: 24 Copynumber: 2.9 Consensus size: 24
9816050 TAAATCAAAA
* *
9816060 CAGAATTCATAACAGAATCCAGAT
1 CAGAAATCATAACAGAATTCAGAT
* * *
9816084 CAGAAATCAGAACATAATTCAGGT
1 CAGAAATCATAACAGAATTCAGAT
*
9816108 CATG-TATCATAACAGAATTCA
1 CA-GAAATCATAACAGAATTCA
9816129 AGTCGGAAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
24 35 0.97
25 1 0.03
ACGTcount: A:0.45, C:0.19, G:0.13, T:0.23
Consensus pattern (24 bp):
CAGAAATCATAACAGAATTCAGAT
Found at i:9836136 original size:58 final size:58
Alignment explanation
Indices: 9836035--9836194 Score: 152
Period size: 57 Copynumber: 2.8 Consensus size: 58
9836025 ACTCTTGTGT
* *
9836035 TGATTCTAACTTTGT--AAGGAAAATAAAT-TGTTGAATTTA-TTTTCTTGAGAATCGTAGA
1 TGATTCTAA-TTTGTAAAAGG-AAATAAATCAG-TGAATTTATTTTTC-TAAGAATCGTAGA
* * * * * * *
9836093 TGATTCT-ATCTTTTAAAATGATATGAATC-GTGAATTTATTTTTCTAATAATCTTATA
1 TGATTCTAAT-TTGTAAAAGGAAATAAATCAGTGAATTTATTTTTCTAAGAATCGTAGA
9836150 TGATTCTAATTTGTAAAAGGAAATAAATCAGTGAATTTATTTTTC
1 TGATTCTAATTTGTAAAAGGAAATAAATCAGTGAATTTATTTTTC
9836195 CCATTTTGTA
Statistics
Matches: 83, Mismatches: 12, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
56 1 0.01
57 43 0.52
58 36 0.43
59 3 0.04
ACGTcount: A:0.35, C:0.07, G:0.13, T:0.44
Consensus pattern (58 bp):
TGATTCTAATTTGTAAAAGGAAATAAATCAGTGAATTTATTTTTCTAAGAATCGTAGA
Found at i:9836244 original size:39 final size:39
Alignment explanation
Indices: 9836159--9836274 Score: 162
Period size: 39 Copynumber: 2.9 Consensus size: 39
9836149 ATGATTCTAA
* * **
9836159 TTTGTAAAAGGAAATAAATCAGTGAATTTATTTTTCCCAT
1 TTTGTAAAAGGAAATAAATCATTGGATTTA-TTTTCTTAT
9836199 TTTGTAAAAGGAAATAAATCATTGGATTTATTTTCTTAT
1 TTTGTAAAAGGAAATAAATCATTGGATTTATTTTCTTAT
*
9836238 TTTGTAAAAAGAAATAAAT-AGTTGGATTTATTTTCTT
1 TTTGTAAAAGGAAATAAATCA-TTGGATTTATTTTCTT
9836275 GAAAATCAAG
Statistics
Matches: 70, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
38 1 0.01
39 41 0.59
40 28 0.40
ACGTcount: A:0.37, C:0.06, G:0.13, T:0.44
Consensus pattern (39 bp):
TTTGTAAAAGGAAATAAATCATTGGATTTATTTTCTTAT
Found at i:9838921 original size:34 final size:34
Alignment explanation
Indices: 9838883--9838950 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
9838873 ATTACGTGAT
9838883 CCCGAAATTATTAATTGGTAGAGGTTTTAATGTA
1 CCCGAAATTATTAATTGGTAGAGGTTTTAATGTA
9838917 CCCGAAATTATTAATTGGTAGAGGTTTTAATGTA
1 CCCGAAATTATTAATTGGTAGAGGTTTTAATGTA
9838951 TTTATAAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (34 bp):
CCCGAAATTATTAATTGGTAGAGGTTTTAATGTA
Found at i:9850237 original size:2 final size:2
Alignment explanation
Indices: 9850230--9850292 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
9850220 CTCTTATCTA
9850230 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9850272 AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
9850293 AACAATAACA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9856766 original size:20 final size:20
Alignment explanation
Indices: 9856728--9856767 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
9856718 AAGTTTTAAA
*
9856728 AATATTTTTATATTAATATT
1 AATATTTTTATAATAATATT
9856748 AATATATTTTATAAT-ATATT
1 AATAT-TTTTATAATAATATT
9856768 TTTAATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
AATATTTTTATAATAATATT
Found at i:9858592 original size:222 final size:222
Alignment explanation
Indices: 9858289--9858728 Score: 604
Period size: 222 Copynumber: 2.0 Consensus size: 222
9858279 GGTCGGGTTG
* * * *
9858289 GTTTTTTTAAGTGTGATATTCGGGTCGGGTCGAGTTCGGGTTTAGGGTGAAAAATACCAGACCCG
1 GTTTTTTTAAGTGTGATATTCAGGTC--G-AGAGTTCGGGTTTAGGGTGAAAAAAACCAGACCCA
*
9858354 AAAATATATATAATTTTACCTTATATATTTAGGAATAATTACAATAATACCCCTATATATAT-AT
63 AAAAAATATATAATTTTACCTTATATATTTAGGAATAATTACAATAATACCCCTATATATATAAT
* * *
9858418 ATATTTTCAATTAAGTCACTATTTTTATTGAATAAAAATAATTTTT-TTATTATTAAG-G-GTCG
128 -TATTTTAAATTAAGTAAATATTTTTATTGAATAAAAATAATTTTTATTATT-TTAAGCGTGTCG
9858480 GGTCGGATTTCTAATTCATATATTCGAGTCGA
191 GGTCGGATTTCTAATTCATATATTCGAGTCGA
*
9858512 GTTTTTTTAAGTGTGATATTCAGGTC-AG-GTTCGGGTTTAGGGTGAAAAAAACGGGACCGACCC
1 GTTTTTTTAAGTGTGATATTCAGGTCGAGAGTTCGGGTTTAGGGTGAAAAAAAC----CAGACCC
*
9858575 AAAAAAATATATAATTTTACCTTATATATTTAGGAATAATTACAATAATACCCCTCTATATATAA
62 AAAAAAATATATAATTTTACCTTATATATTTAGGAATAATTACAATAATACCCCTATATATATAA
* * * **
9858640 TTTTTTTAAATTAAGTAAATGTTTTTATTGAATAAAAATATTTTTTATTATTTTGTGTCGTGTCG
127 TTATTTTAAATTAAGTAAATATTTTTATTGAATAAAAATAATTTTTATTATTTTAAG-CGTGTCG
*
9858705 GGTCGGGTTTCTAATTCATATATT
191 GGTCGGATTTCTAATTCATATATT
9858729 GAATAAAAAT
Statistics
Matches: 192, Mismatches: 16, Indels: 16
0.86 0.07 0.07
Matches are distributed among these distances:
218 23 0.12
219 1 0.01
222 108 0.56
223 32 0.17
224 1 0.01
225 27 0.14
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.41
Consensus pattern (222 bp):
GTTTTTTTAAGTGTGATATTCAGGTCGAGAGTTCGGGTTTAGGGTGAAAAAAACCAGACCCAAAA
AAATATATAATTTTACCTTATATATTTAGGAATAATTACAATAATACCCCTATATATATAATTAT
TTTAAATTAAGTAAATATTTTTATTGAATAAAAATAATTTTTATTATTTTAAGCGTGTCGGGTCG
GATTTCTAATTCATATATTCGAGTCGA
Found at i:9859136 original size:17 final size:18
Alignment explanation
Indices: 9859114--9859160 Score: 71
Period size: 17 Copynumber: 2.7 Consensus size: 18
9859104 ATATGGAATT
*
9859114 AGATTCCAATTCC-TGAC
1 AGATTCCAATTCCTTCAC
9859131 AGATT-CAATTCCTTCAC
1 AGATTCCAATTCCTTCAC
9859148 AGATTCCAATTCC
1 AGATTCCAATTCC
9859161 CTCATAAACA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 7 0.26
17 13 0.48
18 7 0.26
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.32
Consensus pattern (18 bp):
AGATTCCAATTCCTTCAC
Found at i:9859241 original size:13 final size:13
Alignment explanation
Indices: 9859223--9859249 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
9859213 ATATTAATAT
9859223 TAATATATTTTTA
1 TAATATATTTTTA
9859236 TAATATATTTTTA
1 TAATATATTTTTA
9859249 T
1 T
9859250 TTTTATCACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TAATATATTTTTA
Found at i:9863172 original size:15 final size:16
Alignment explanation
Indices: 9863140--9863172 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
9863130 AACACGTTCA
9863140 ATAAAACATATGTTTT
1 ATAAAACATATGTTTT
*
9863156 ATAAGACATAT-TTTT
1 ATAAAACATATGTTTT
9863171 AT
1 AT
9863173 TATATCATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.45
Consensus pattern (16 bp):
ATAAAACATATGTTTT
Found at i:9867298 original size:35 final size:33
Alignment explanation
Indices: 9867213--9867299 Score: 95
Period size: 35 Copynumber: 2.5 Consensus size: 33
9867203 AATATAATTT
*
9867213 TAAATACAACAAACTTACAATAAGTATTAAATGG
1 TAAATA-AACAAAATTACAATAAGTATTAAATGG
*
9867247 TAAATAATAAATAAATTACAATAACTGATATTAAATGG
1 TAAATAA-ACA-AAATTACAATAA--G-TATTAAATGG
9867285 T-AATAAACAAAATTA
1 TAAATAAACAAAATTA
9867300 ACCAAAATAC
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
33 1 0.02
34 8 0.18
35 17 0.38
36 2 0.04
37 6 0.13
38 11 0.24
ACGTcount: A:0.56, C:0.08, G:0.07, T:0.29
Consensus pattern (33 bp):
TAAATAAACAAAATTACAATAAGTATTAAATGG
Found at i:9867332 original size:34 final size:33
Alignment explanation
Indices: 9867290--9867377 Score: 106
Period size: 33 Copynumber: 2.6 Consensus size: 33
9867280 AATGGTAATA
*
9867290 AACAAAATTAACCAAAATACATTAACAA-AAAGTCC
1 AACAAAATTAA-CAAAATAAATTAA-AATAAA-TCC
*
9867325 AACAAATTTAACAAAATAAATTAAAATAAATCC
1 AACAAAATTAACAAAATAAATTAAAATAAATCC
**
9867358 AACAAAATTAATGAAATAAA
1 AACAAAATTAACAAAATAAA
9867378 ATAAGTATTA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
33 22 0.47
34 15 0.32
35 10 0.21
ACGTcount: A:0.64, C:0.14, G:0.02, T:0.20
Consensus pattern (33 bp):
AACAAAATTAACAAAATAAATTAAAATAAATCC
Found at i:9867457 original size:19 final size:18
Alignment explanation
Indices: 9867392--9867458 Score: 52
Period size: 17 Copynumber: 3.8 Consensus size: 18
9867382 GTATTAAATG
*
9867392 ATAAATAATAAAA-A-AA
1 ATAAATAAAAAAATACAA
*
9867408 ATACAAT-AAAAAGT-CAA
1 ATA-AATAAAAAAATACAA
**
9867425 ATAAATAACTAAATACAA
1 ATAAATAAAAAAATACAA
9867443 ATATAATAAAAAAATA
1 ATA-AATAAAAAAATA
9867459 TATTGATGCA
Statistics
Matches: 38, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
16 10 0.26
17 12 0.32
18 6 0.16
19 10 0.26
ACGTcount: A:0.72, C:0.06, G:0.01, T:0.21
Consensus pattern (18 bp):
ATAAATAAAAAAATACAA
Found at i:9876048 original size:31 final size:34
Alignment explanation
Indices: 9875975--9876062 Score: 121
Period size: 34 Copynumber: 2.7 Consensus size: 34
9875965 AAATTTTGAA
* *
9875975 CATTCTAAATTCATCCCCAAACTATGACCCTTAT
1 CATTCTAAATTCATCCCTAAACTACGACCCTTAT
9876009 CATTCTAAATTCATCCCTAAACTACGACCC-T-T
1 CATTCTAAATTCATCCCTAAACTACGACCCTTAT
9876041 -ATTCTAAATT-AGTCCCTAAACT
1 CATTCTAAATTCA-TCCCTAAACT
9876063 TTTGAACACT
Statistics
Matches: 51, Mismatches: 2, Indels: 5
0.88 0.03 0.09
Matches are distributed among these distances:
30 1 0.02
31 20 0.39
32 1 0.02
33 1 0.02
34 28 0.55
ACGTcount: A:0.33, C:0.31, G:0.03, T:0.33
Consensus pattern (34 bp):
CATTCTAAATTCATCCCTAAACTACGACCCTTAT
Found at i:9877316 original size:13 final size:13
Alignment explanation
Indices: 9877298--9877323 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9877288 CAAATTTTAT
9877298 TAAAAATAAAAAA
1 TAAAAATAAAAAA
9877311 TAAAAATAAAAAA
1 TAAAAATAAAAAA
9877324 ATATTTTTAA
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
TAAAAATAAAAAA
Found at i:9882405 original size:113 final size:116
Alignment explanation
Indices: 9882198--9882429 Score: 353
Period size: 113 Copynumber: 2.0 Consensus size: 116
9882188 GCTTTCTTCG
9882198 GTACGAGAATGCATGAAGACTTCGATGTTCTAAATTGCTGATTTTATGAACTGTTGAAGTATTGA
1 GTACGAGAATGCATGAAGACTTCGATGTTCTAAATTGCTGA--TTAT-AACTGTTGAAGTATTGA
* *
9882263 GTCTGATATTAAAAATCATATAAGTTTTTGTATGTCAACTGTAATGTTGTTTAT
63 GTATGATATTAAAAATCATATAAGTTTTTGTATGCCAACTGTAATGTTGTTTAT
* * *
9882317 GTACGAGTATGCATGAAGACTTCGATGTTCTAAATTGCTGA-T-T-CCTGTTGTAGTATTGAGTA
1 GTACGAGAATGCATGAAGACTTCGATGTTCTAAATTGCTGATTATAACTGTTGAAGTATTGAGTA
* *
9882379 TGATATTAAAAATCATATACGTTTTTGTATGCCAATTGTAATGTTGTTTAT
66 TGATATTAAAAATCATATAAGTTTTTGTATGCCAACTGTAATGTTGTTTAT
9882430 TGACTGTTTT
Statistics
Matches: 106, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
113 64 0.60
115 1 0.01
116 1 0.01
119 40 0.38
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (116 bp):
GTACGAGAATGCATGAAGACTTCGATGTTCTAAATTGCTGATTATAACTGTTGAAGTATTGAGTA
TGATATTAAAAATCATATAAGTTTTTGTATGCCAACTGTAATGTTGTTTAT
Found at i:9898152 original size:26 final size:26
Alignment explanation
Indices: 9898123--9898176 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
9898113 AATTAAATAT
* **
9898123 AATAGTTTAAGTATTTAAACCAAAAA
1 AATAGTTGAAGTACCTAAACCAAAAA
*
9898149 AATAGTTGAAGTACCTAAAGCAAAAA
1 AATAGTTGAAGTACCTAAACCAAAAA
9898175 AA
1 AA
9898177 AACATAGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.56, C:0.09, G:0.11, T:0.24
Consensus pattern (26 bp):
AATAGTTGAAGTACCTAAACCAAAAA
Found at i:9918613 original size:12 final size:12
Alignment explanation
Indices: 9918596--9918635 Score: 71
Period size: 12 Copynumber: 3.2 Consensus size: 12
9918586 ACAGCAGCCC
9918596 CCCCCTTAGCAG
1 CCCCCTTAGCAG
9918608 CCCCCTTAGCAG
1 CCCCCTTAGCAG
9918620 CCCCCCTTAGCAG
1 -CCCCCTTAGCAG
9918633 CCC
1 CCC
9918636 ATGTGTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 15 0.56
13 12 0.44
ACGTcount: A:0.15, C:0.55, G:0.15, T:0.15
Consensus pattern (12 bp):
CCCCCTTAGCAG
Found at i:9918624 original size:13 final size:13
Alignment explanation
Indices: 9918595--9918635 Score: 75
Period size: 13 Copynumber: 3.2 Consensus size: 13
9918585 TACAGCAGCC
9918595 CCCCCCTTAGCAG
1 CCCCCCTTAGCAG
9918608 -CCCCCTTAGCAG
1 CCCCCCTTAGCAG
9918620 CCCCCCTTAGCAG
1 CCCCCCTTAGCAG
9918633 CCC
1 CCC
9918636 ATGTGTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 12 0.44
13 15 0.56
ACGTcount: A:0.15, C:0.56, G:0.15, T:0.15
Consensus pattern (13 bp):
CCCCCCTTAGCAG
Found at i:9925390 original size:28 final size:28
Alignment explanation
Indices: 9925359--9925416 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
9925349 GAAAAAGGAG
*
9925359 TAAAATGTAAGAAATATTAGAAAAC-ATA
1 TAAAAAGTAAGAAATATTA-AAAACTATA
* *
9925387 TAAAAAGTAAGAAGTGTTAAAAACTATA
1 TAAAAAGTAAGAAATATTAAAAACTATA
9925415 TA
1 TA
9925417 TATAAATGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 5 0.19
28 21 0.81
ACGTcount: A:0.59, C:0.03, G:0.12, T:0.26
Consensus pattern (28 bp):
TAAAAAGTAAGAAATATTAAAAACTATA
Found at i:9926376 original size:23 final size:24
Alignment explanation
Indices: 9926350--9926401 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
9926340 AAAATTGTTT
9926350 AAATATTAAAAATATAAA-TA-TAA
1 AAATATTAAAAA-ATAAATTACTAA
*
9926373 AAATTTTAAAAAATAAATTACTAA
1 AAATATTAAAAAATAAATTACTAA
9926397 AAATA
1 AAATA
9926402 ATATACATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 5 0.20
23 13 0.52
24 7 0.28
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (24 bp):
AAATATTAAAAAATAAATTACTAA
Found at i:9926430 original size:18 final size:18
Alignment explanation
Indices: 9926372--9926431 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 18
9926362 TATAAATATA
9926372 AAAATT-TT-AAAA-AAT
1 AAAATTATTAAAAATAAT
*
9926387 -AAATTACTAAAAATAAT
1 AAAATTATTAAAAATAAT
*
9926404 ATACA-TATTAAAAATAAT
1 A-AAATTATTAAAAATAAT
9926422 AAAATTATTA
1 AAAATTATTA
9926432 TAAGAATTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
14 5 0.14
15 1 0.03
16 4 0.11
17 5 0.14
18 18 0.51
19 2 0.06
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAATTATTAAAAATAAT
Found at i:9934823 original size:24 final size:24
Alignment explanation
Indices: 9934796--9934849 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
9934786 ATATCGATGG
* *
9934796 AGATGTATTTTGTGATAGAAGTGA
1 AGATGAATGTTGTGATAGAAGTGA
* *
9934820 AGATGAATGTTGTGATGGAATTGA
1 AGATGAATGTTGTGATAGAAGTGA
9934844 AGATGA
1 AGATGA
9934850 TGAAGATGGG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.31, T:0.33
Consensus pattern (24 bp):
AGATGAATGTTGTGATAGAAGTGA
Found at i:9943757 original size:2 final size:2
Alignment explanation
Indices: 9943750--9943782 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
9943740 CTCATTGGGT
9943750 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 T
9943783 TGCAGGTTTA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9944142 original size:13 final size:12
Alignment explanation
Indices: 9944109--9944138 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
9944099 TTAAGATAAT
*
9944109 AAAATATCTTAA
1 AAAATATTTTAA
9944121 AAAATATTTTAA
1 AAAATATTTTAA
9944133 AAAATA
1 AAAATA
9944139 ATTTGATACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATATTTTAA
Found at i:9946153 original size:50 final size:50
Alignment explanation
Indices: 9946078--9946173 Score: 165
Period size: 50 Copynumber: 1.9 Consensus size: 50
9946068 GTATCTCCAA
* *
9946078 AACAAGACGACATTCACCTCTATAATTCCACTACAAACAATCAATTATAG
1 AACAAGACGACATTCACCTCCATAATTCCACCACAAACAATCAATTATAG
*
9946128 AACAAGACGACATTCACCTCCATAATTCCACCACGAACAATCAATT
1 AACAAGACGACATTCACCTCCATAATTCCACCACAAACAATCAATT
9946174 GTAATTCTAT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.43, C:0.29, G:0.06, T:0.22
Consensus pattern (50 bp):
AACAAGACGACATTCACCTCCATAATTCCACCACAAACAATCAATTATAG
Found at i:9946589 original size:15 final size:15
Alignment explanation
Indices: 9946571--9946704 Score: 106
Period size: 15 Copynumber: 8.5 Consensus size: 15
9946561 CTCCTCTTCC
9946571 TCTTTCTTGGGTTCT
1 TCTTTCTTGGGTTCT
* *
9946586 TCTTTCTTCGGCTCT
1 TCTTTCTTGGGTTCT
* * *
9946601 TCCTTCTTAGGCTCT
1 TCTTTCTTGGGTTCT
*
9946616 TCTTTCTTTGGTTTCTCT
1 TCTTTC-TTGG-GT-TCT
*
9946634 TCCTTCTTGGGTTCT
1 TCTTTCTTGGGTTCT
*
9946649 TCTTTCTTTGGTTCCT
1 TCTTTCTTGGGTT-CT
9946665 CCTCTTTCTTGGGTTCT
1 --TCTTTCTTGGGTTCT
* * * *
9946682 TCCTTCTTTGGCTCC
1 TCTTTCTTGGGTTCT
9946697 TCTTTCTT
1 TCTTTCTT
9946705 CTCTGGTTTC
Statistics
Matches: 95, Mismatches: 18, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
15 63 0.66
16 6 0.06
17 6 0.06
18 20 0.21
ACGTcount: A:0.01, C:0.28, G:0.14, T:0.57
Consensus pattern (15 bp):
TCTTTCTTGGGTTCT
Found at i:9946697 original size:30 final size:31
Alignment explanation
Indices: 9946568--9946704 Score: 152
Period size: 33 Copynumber: 4.4 Consensus size: 31
9946558 CTTCTCCTCT
*
9946568 TCCTCTTTCTTGGGTTCTTCTTTCTTCGG-C
1 TCCTCTTTCTTGGGTTCTTCTTTCTTTGGTC
* * * *
9946598 TCTTCCTTCTTAGGCTCTTCTTTCTTTGGTTTC
1 TCCTCTTTCTTGGGTTCTTCTTTCTTTGG--TC
* *
9946631 TCTTCCTTCTTGGGTTCTTCTTTCTTTGGTTCC
1 TCCTCTTTCTTGGGTTCTTCTTTCTTTGG-T-C
*
9946664 TCCTCTTTCTTGGGTTCTTCCTTCTTTGG-C
1 TCCTCTTTCTTGGGTTCTTCTTTCTTTGGTC
9946694 TCCTCTTTCTT
1 TCCTCTTTCTT
9946705 CTCTGGTTTC
Statistics
Matches: 93, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
30 36 0.39
32 2 0.02
33 55 0.59
ACGTcount: A:0.01, C:0.29, G:0.14, T:0.56
Consensus pattern (31 bp):
TCCTCTTTCTTGGGTTCTTCTTTCTTTGGTC
Found at i:9948215 original size:12 final size:13
Alignment explanation
Indices: 9948185--9948220 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
9948175 AATTTCGTCC
9948185 TTATATTATACAA
1 TTATATTATACAA
9948198 TATATATTATA-AA
1 T-TATATTATACAA
9948211 TTATATTATA
1 TTATATTATA
9948221 TTTACATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 9 0.41
13 4 0.18
14 9 0.41
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (13 bp):
TTATATTATACAA
Found at i:9953624 original size:21 final size:21
Alignment explanation
Indices: 9953578--9953634 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
9953568 ACTTTGATGA
*
9953578 AGAAGATAAAGCTAAAAAGAT
1 AGAAGATAAAGATAAAAAGAT
* *
9953599 GGAAGA-AAAGATAAAAATATT
1 AGAAGATAAAGATAAAAAGA-T
*
9953620 AGAAGATCAA-ATAAA
1 AGAAGATAAAGATAAA
9953635 GATGGTCCAG
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
20 11 0.38
21 16 0.55
22 2 0.07
ACGTcount: A:0.63, C:0.04, G:0.18, T:0.16
Consensus pattern (21 bp):
AGAAGATAAAGATAAAAAGAT
Found at i:9960261 original size:58 final size:58
Alignment explanation
Indices: 9960165--9960276 Score: 161
Period size: 58 Copynumber: 1.9 Consensus size: 58
9960155 AATACTTCGC
* * *
9960165 TTAGGATGAAAACCCGAGAGGGCGTTCTAAGTTAAAAAAAAAAAAAAAAAAAAAACGT
1 TTAGGATGAAAACCCGAAAGGGCGTCCTAAATTAAAAAAAAAAAAAAAAAAAAAACGT
* * * *
9960223 TTAGGGTGAAAACCCGAAAGGGCGTCCTAAATTGAAAAAAAGAAAAAGAAAAAA
1 TTAGGATGAAAACCCGAAAGGGCGTCCTAAATTAAAAAAAAAAAAAAAAAAAAA
9960277 GAGAAAATAA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
58 47 1.00
ACGTcount: A:0.54, C:0.11, G:0.21, T:0.14
Consensus pattern (58 bp):
TTAGGATGAAAACCCGAAAGGGCGTCCTAAATTAAAAAAAAAAAAAAAAAAAAAACGT
Found at i:9961251 original size:105 final size:105
Alignment explanation
Indices: 9961094--9961720 Score: 1121
Period size: 105 Copynumber: 6.0 Consensus size: 105
9961084 TCGAGAGTGG
* * * *
9961094 ATTTTAACTTCACGACGAAGGATATCTAG-CTCGAAGACAACGTAAGTTCAACTTCACGACGAAG
1 ATTTCAACTTCACAACGAAGGATAT-TGGACTC-CAGACAACGTAAGTTCAACTTCACGACGAAG
9961158 GGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCA
64 GGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCA
9961200 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACGACGAAGGG
9961265 ACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCA
66 ACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCA
9961305 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACGACGAAGGG
9961370 ACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCA
66 ACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCA
9961410 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACGACGAAGGG
9961475 ACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCA
66 ACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCA
9961515 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACGACGAAGGG
*
9961580 ACCGCTGGTTGTCAACAAACATTTCTCAAATTCAGAGCCA
66 ACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCA
* * * *
9961620 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAGCGCAAGTTCAACTTCATGGCGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACGACGAAGGG
* *
9961685 ACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAG
66 ACCGCTGGTTGTCAACAAAC-ATTTCTCAATTTCAG
9961721 CTCCACAACG
Statistics
Matches: 507, Mismatches: 12, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
105 468 0.92
106 39 0.08
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (105 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACGACGAAGGG
ACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCA
Found at i:9962061 original size:12 final size:13
Alignment explanation
Indices: 9962031--9962066 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
9962021 AATTTCGTCC
9962031 TTATATTATACAA
1 TTATATTATACAA
9962044 TATATATTATA-AA
1 T-TATATTATACAA
9962057 TTATATTATA
1 TTATATTATA
9962067 TTTACATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 9 0.41
13 4 0.18
14 9 0.41
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (13 bp):
TTATATTATACAA
Found at i:9967545 original size:185 final size:186
Alignment explanation
Indices: 9967227--9967604 Score: 623
Period size: 185 Copynumber: 2.0 Consensus size: 186
9967217 ATAAAATTTT
* * * * *
9967227 AAATTTTAAATATATTATATATAACGTATGAGCTCAGCCCAAATCATTTAAAACTCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGAGCTCAGCACAAACCATTTAAAACCCAATTAATAA
* *
9967292 TTTAAGATCCAATAACTTTGAAACCTAAATCAATATTAATTAATTAAAAATTTTATATAAAATTT
66 TTTAAGATCCAATAACTTTGAAACCTAAATCAATATTAATAAATTAAAAAATTTATATAAAATTT
* *
9967357 TTATTTTATAATTATATATTATTTAAATTAATTGTAAACTGTTTTTATGAATTAAA
131 TTATTTTATAATTATATATTATTTAAATTAACTATAAACTGTTTTTATGAATTAAA
*
9967413 AAATATTAAATATATTATATATAACATATGGGCTCAGCACAAACCATTT-AAACCCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGAGCTCAGCACAAACCATTTAAAACCCAATTAATAA
*
9967477 TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATAAATTAAAAAATTTATATAAAATTT
66 TTTAAGATCCAATAACTTTGAAACCTAAATCAATATTAATAAATTAAAAAATTTATATAAAATTT
* * *
9967542 TTATTTTATAATTATATATTATTTAAATTAACTATAAACTGTTTTTTTTAATTATA
131 TTATTTTATAATTATATATTATTTAAATTAACTATAAACTGTTTTTATGAATTAAA
9967598 AAATATT
1 AAATATT
9967605 TAATTTGTAT
Statistics
Matches: 178, Mismatches: 14, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
185 134 0.75
186 44 0.25
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.42
Consensus pattern (186 bp):
AAATATTAAATATATTATATATAACATATGAGCTCAGCACAAACCATTTAAAACCCAATTAATAA
TTTAAGATCCAATAACTTTGAAACCTAAATCAATATTAATAAATTAAAAAATTTATATAAAATTT
TTATTTTATAATTATATATTATTTAAATTAACTATAAACTGTTTTTATGAATTAAA
Found at i:9967618 original size:40 final size:41
Alignment explanation
Indices: 9967525--9967619 Score: 104
Period size: 40 Copynumber: 2.3 Consensus size: 41
9967515 ATAAATTAAA
* * *
9967525 AAATTTATATAAAATTTTTATTTTATAATTATATATTATTT
1 AAATTTATATAAAATGTTTATTTTATAATTATAAAATATTT
* *
9967566 AAATTAACTATAAACTGTTT-TTTT-TAATTATAAAATATTT
1 AAATTTA-TATAAAATGTTTATTTTATAATTATAAAATATTT
*
9967606 AATTTGTATATAAA
1 AAATT-TATATAAA
9967620 TTAGAAAATT
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
40 24 0.53
41 11 0.24
42 10 0.22
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (41 bp):
AAATTTATATAAAATGTTTATTTTATAATTATAAAATATTT
Found at i:9968893 original size:16 final size:17
Alignment explanation
Indices: 9968864--9968896 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
9968854 ATAATTATAT
9968864 ATTCGATCTTAATTTAA
1 ATTCGATCTTAATTTAA
9968881 ATTCGAT-TTAATTTAA
1 ATTCGATCTTAATTTAA
9968897 TAAATTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.48
Consensus pattern (17 bp):
ATTCGATCTTAATTTAA
Found at i:9982266 original size:17 final size:18
Alignment explanation
Indices: 9982246--9982283 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
9982236 TGTAGTTTAA
9982246 AAAAATAA-ATAAATCAT
1 AAAAATAAGATAAATCAT
*
9982263 AAAATTAAGATAAATCAT
1 AAAAATAAGATAAATCAT
9982281 AAA
1 AAA
9982284 TTTAGTATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.24
Consensus pattern (18 bp):
AAAAATAAGATAAATCAT
Found at i:9986282 original size:12 final size:12
Alignment explanation
Indices: 9986265--9986290 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9986255 ATTAATTAAT
9986265 ACTAATCAAGTA
1 ACTAATCAAGTA
9986277 ACTAATCAAGTA
1 ACTAATCAAGTA
9986289 AC
1 AC
9986291 AATATATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.19, G:0.08, T:0.23
Consensus pattern (12 bp):
ACTAATCAAGTA
Found at i:9986311 original size:21 final size:21
Alignment explanation
Indices: 9986287--9986356 Score: 63
Period size: 21 Copynumber: 3.3 Consensus size: 21
9986277 ACTAATCAAG
9986287 TAACAATATATATAATATTAT
1 TAACAATATATATAATATTAT
* * * *
9986308 TAACAA-ACA-ATACCAAATCAAG
1 TAACAATATATATA--ATAT-TAT
9986330 TAACAATATATATAATATTAT
1 TAACAATATATATAATATTAT
9986351 TAACAA
1 TAACAA
9986357 ACAAGACCAA
Statistics
Matches: 36, Mismatches: 8, Indels: 10
0.67 0.15 0.19
Matches are distributed among these distances:
19 3 0.08
20 2 0.06
21 16 0.44
22 10 0.28
23 2 0.06
24 3 0.08
ACGTcount: A:0.56, C:0.11, G:0.01, T:0.31
Consensus pattern (21 bp):
TAACAATATATATAATATTAT
Found at i:9986328 original size:43 final size:43
Alignment explanation
Indices: 9986280--9986368 Score: 169
Period size: 43 Copynumber: 2.1 Consensus size: 43
9986270 TCAAGTAACT
*
9986280 AATCAAGTAACAATATATATAATATTATTAACAAACAATACCA
1 AATCAAGTAACAATATATATAATATTATTAACAAACAAGACCA
9986323 AATCAAGTAACAATATATATAATATTATTAACAAACAAGACCA
1 AATCAAGTAACAATATATATAATATTATTAACAAACAAGACCA
9986366 AAT
1 AAT
9986369 GATAATTCGG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.56, C:0.13, G:0.03, T:0.27
Consensus pattern (43 bp):
AATCAAGTAACAATATATATAATATTATTAACAAACAAGACCA
Found at i:9995388 original size:93 final size:92
Alignment explanation
Indices: 9995209--9995757 Score: 509
Period size: 93 Copynumber: 6.0 Consensus size: 92
9995199 AACTCCGTCT
* * * * * *
9995209 ATTAATGGATGAAAGCTTGAATAACGTTGACATGTTTTAACTAAACACTTTGATGTTTATGGAC-
1 ATTAATGGATG-AAGTTTGAATAGCGTTGAAATATCTTAACTAAACACTTTGATGTTTATAGACT
* **
9995273 ATAAGATGTTATGTTATCCAAGTTGTTAC
65 A-AAGAGGTTAACTTATCCAAGTTGTTAC
* * *
9995302 ATTAATGGATGTAAGTTTAAATAGCGTTGAAATATCTTAATTAAACATTTTGATGTTTATAGACT
1 ATTAATGGATG-AAGTTTGAATAGCGTTGAAATATCTTAACTAAACACTTTGATGTTTATAGACT
* *
9995367 AAAGAGGTAAACTTATGCAAGTTGTTAC
65 AAAGAGGTTAACTTATCCAAGTTGTTAC
* * * * *
9995395 GTTAATAGATAGAAATTTGAATAGCGTTGAAATATCTTAACTAAACACTTTAATGTTTATGGACT
1 ATTAATGGAT-GAAGTTTGAATAGCGTTGAAATATCTTAACTAAACACTTTGATGTTTATAGACT
*
9995460 AAAGAGGTTAATTTATCCAAGTTGTTAC
65 AAAGAGGTTAACTTATCCAAGTTGTTAC
* * ** * * * * *
9995488 ATTAATGGATGAAACTTTGAAT--TGTTGATTTTTTTTAACTAAATACTTTGATTTTTACAGACT
1 ATTAATGGATG-AAGTTTGAATAGCGTTGAAATATCTTAACTAAACACTTTGATGTTTATAGACT
* * ** *
9995551 AAAGAGGCTAATTTATTTAAGTAGTTAC
65 AAAGAGGTTAACTTATCCAAGTTGTTAC
* * ** * *
9995579 ATTAATGGATGAGAGTTTGAATAGCGTTGAAATGTCTTAATTAAGTACTTTGATGTTTACAGACG
1 ATTAATGGATGA-AGTTTGAATAGCGTTGAAATATCTTAACTAAACACTTTGATGTTTATAGACT
* * *
9995644 GAA-ATGTTTACTTATCCAAGTTGTTAC
65 AAAGAGGTTAACTTATCCAAGTTGTTAC
* ** * * * * * *
9995671 ATTAATGGATG--GATTGAATAATGTTAAAATGTCTTAACTAAATAATTTGATGTTTACAAACTA
1 ATTAATGGATGAAGTTTGAATAGCGTTGAAATATCTTAACTAAACACTTTGATGTTTATAGACTA
* *
9995734 AA-AGGTTAACTCATCCAAATTGTT
66 AAGAGGTTAACTTATCCAAGTTGTT
9995758 GATGGAAGTT
Statistics
Matches: 375, Mismatches: 75, Indels: 16
0.80 0.16 0.03
Matches are distributed among these distances:
89 62 0.17
90 1 0.00
91 74 0.20
92 29 0.08
93 207 0.55
94 2 0.01
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (92 bp):
ATTAATGGATGAAGTTTGAATAGCGTTGAAATATCTTAACTAAACACTTTGATGTTTATAGACTA
AAGAGGTTAACTTATCCAAGTTGTTAC
Found at i:9997225 original size:15 final size:15
Alignment explanation
Indices: 9997205--9997233 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
9997195 AACCTACTTA
9997205 CAAAGAAAATCAAAT
1 CAAAGAAAATCAAAT
9997220 CAAAGAAAATCAAA
1 CAAAGAAAATCAAA
9997234 GATCACATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.69, C:0.14, G:0.07, T:0.10
Consensus pattern (15 bp):
CAAAGAAAATCAAAT
Found at i:9998795 original size:29 final size:29
Alignment explanation
Indices: 9998746--9998934 Score: 181
Period size: 29 Copynumber: 6.6 Consensus size: 29
9998736 TAGAGGATCC
*
9998746 CATGCAGAATCAGGACTAGGATATAATCT
1 CATGCAGAATCAGGACGAGGATATAATCT
* * *
9998775 CATGTAGAATCAGAACGAGGATATATTCT
1 CATGCAGAATCAGGACGAGGATATAATCT
* * * *
9998804 CATGCAAAATTAGGTCGGGGATATAAT-T
1 CATGCAGAATCAGGACGAGGATATAATCT
*
9998832 CTATGCAGAATCAGGATGA-GAGTATAATCT
1 C-ATGCAGAATCAGGACGAGGA-TATAATCT
* *
9998862 CATGCAGAATCTA-GATGAGAATATAATAC-
1 CATGCAGAATC-AGGACGAGGATATAAT-CT
* *
9998891 CATTCAGAATCAGGATG-GGATATAATCT
1 CATGCAGAATCAGGACGAGGATATAATCT
*
9998919 CATGCAGAATTAGGAC
1 CATGCAGAATCAGGAC
9998935 ATAGATTATG
Statistics
Matches: 130, Mismatches: 22, Indels: 17
0.77 0.13 0.10
Matches are distributed among these distances:
27 1 0.01
28 26 0.20
29 98 0.75
30 5 0.04
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.26
Consensus pattern (29 bp):
CATGCAGAATCAGGACGAGGATATAATCT
Found at i:10016994 original size:22 final size:22
Alignment explanation
Indices: 10016951--10016994 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
10016941 AAAAGCCGAT
**
10016951 AAACCGAATCGAACCGTTAAAA
1 AAACCGAATCGAACCGAAAAAA
10016973 AAACCGAA-CTGAACCGAAAAAA
1 AAACCGAATC-GAACCGAAAAAA
10016995 CCGGTTTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.55, C:0.23, G:0.14, T:0.09
Consensus pattern (22 bp):
AAACCGAATCGAACCGAAAAAA
Found at i:10017669 original size:15 final size:17
Alignment explanation
Indices: 10017633--10017668 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
10017623 ACAATCAAAC
10017633 TTTTATTTGATAATATT
1 TTTTATTTGATAATATT
*
10017650 TTTTATTTTA-AATATT
1 TTTTATTTGATAATATT
10017666 TTT
1 TTT
10017669 AAACTTCTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (17 bp):
TTTTATTTGATAATATT
Found at i:10029688 original size:3 final size:3
Alignment explanation
Indices: 10029673--10029704 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
10029663 ATGATTGGAG
*
10029673 TGA TGA AGA TGA TGA TGA TGA TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
10029705 CACCACCAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.31
Consensus pattern (3 bp):
TGA
Found at i:10031706 original size:12 final size:12
Alignment explanation
Indices: 10031683--10031718 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
10031673 GACTCGATGA
10031683 AAAATAAAAAAT
1 AAAATAAAAAAT
* *
10031695 AACATGAAAAAT
1 AAAATAAAAAAT
10031707 AAAATAAAAAAT
1 AAAATAAAAAAT
10031719 CATATCCACG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.17
Consensus pattern (12 bp):
AAAATAAAAAAT
Found at i:10041924 original size:44 final size:44
Alignment explanation
Indices: 10041838--10041968 Score: 223
Period size: 44 Copynumber: 3.0 Consensus size: 44
10041828 AGAACAGGAG
10041838 ATAACAAAAACATAGAAAACAACAACC-TGTTGCATGGGTAGAT
1 ATAACAAAAACATAGAAAACAACAACCTTGTTGCATGGGTAGAT
10041881 ATAAC-AAAACATAGAAAACACACAACCTTGTTGCATGGGTAGAT
1 ATAACAAAAACATAGAAAACA-ACAACCTTGTTGCATGGGTAGAT
*
10041925 ATAACAAAAACATAGAAAACTACAACCTTGTTGCAT-GGTAGAT
1 ATAACAAAAACATAGAAAACAACAACCTTGTTGCATGGGTAGAT
10041968 A
1 A
10041969 GTTATCTCTC
Statistics
Matches: 84, Mismatches: 1, Indels: 6
0.92 0.01 0.07
Matches are distributed among these distances:
42 15 0.18
43 19 0.23
44 36 0.43
45 14 0.17
ACGTcount: A:0.47, C:0.17, G:0.15, T:0.21
Consensus pattern (44 bp):
ATAACAAAAACATAGAAAACAACAACCTTGTTGCATGGGTAGAT
Found at i:10044393 original size:27 final size:28
Alignment explanation
Indices: 10044362--10044439 Score: 79
Period size: 27 Copynumber: 2.8 Consensus size: 28
10044352 CCTGTTTTGC
*
10044362 TCAAAAATATTTTAAGTATTTAATTTAA
1 TCAAAAATATTTTAAGTATTTAATTAAA
* **
10044390 -CAAAAAAATAATAAGTATTT-ATTAAA
1 TCAAAAATATTTTAAGTATTTAATTAAA
* *
10044416 TCAAAAAATACTTTAAATATTTAA
1 TC-AAAAATATTTTAAGTATTTAA
10044440 ATGAAAAAAA
Statistics
Matches: 38, Mismatches: 9, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
26 5 0.13
27 18 0.47
28 14 0.37
29 1 0.03
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (28 bp):
TCAAAAATATTTTAAGTATTTAATTAAA
Found at i:10052213 original size:16 final size:16
Alignment explanation
Indices: 10052189--10052220 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
10052179 TATCGCCGAC
*
10052189 CGAATTTCACTATTCA
1 CGAAATTCACTATTCA
10052205 CGAAATTCACTATTCA
1 CGAAATTCACTATTCA
10052221 AGTGAATAGT
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:0.34, C:0.25, G:0.06, T:0.34
Consensus pattern (16 bp):
CGAAATTCACTATTCA
Found at i:10055719 original size:13 final size:13
Alignment explanation
Indices: 10055701--10055727 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10055691 CTACAGACGC
10055701 GCATATGAAGACT
1 GCATATGAAGACT
10055714 GCATATGAAGACT
1 GCATATGAAGACT
10055727 G
1 G
10055728 TTGAACTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.22
Consensus pattern (13 bp):
GCATATGAAGACT
Found at i:10056119 original size:13 final size:14
Alignment explanation
Indices: 10056103--10056134 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
10056093 AAATGACATT
10056103 TTAAAAAA-TATAA
1 TTAAAAAAGTATAA
10056116 TTAAAAAAGTATAA
1 TTAAAAAAGTATAA
10056130 TTAAA
1 TTAAA
10056135 TATAAGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (14 bp):
TTAAAAAAGTATAA
Found at i:10059484 original size:22 final size:22
Alignment explanation
Indices: 10059459--10059503 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
10059449 ATCATACACC
10059459 ATATTGTTCACCCTTCGAGGTT
1 ATATTGTTCACCCTTCGAGGTT
* * *
10059481 ATATTGTTTATCCTTTGAGGTT
1 ATATTGTTCACCCTTCGAGGTT
10059503 A
1 A
10059504 AATTATTAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.16, G:0.18, T:0.47
Consensus pattern (22 bp):
ATATTGTTCACCCTTCGAGGTT
Found at i:10060110 original size:23 final size:23
Alignment explanation
Indices: 10060068--10060111 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
10060058 ACGTGGTAGC
**
10060068 TGATGTGGTGATGATGTGGCAAT
1 TGATGTGGTGATGACATGGCAAT
10060091 TGATGTGGTGATGACATGGCA
1 TGATGTGGTGATGACATGGCA
10060112 GTCGACGTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.23, C:0.07, G:0.39, T:0.32
Consensus pattern (23 bp):
TGATGTGGTGATGACATGGCAAT
Found at i:10060121 original size:23 final size:23
Alignment explanation
Indices: 10060072--10060122 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
10060062 GGTAGCTGAT
** * *
10060072 GTGGTGATGATGTGGCAATTGAT
1 GTGGTGATGACATGGCAATCGAC
*
10060095 GTGGTGATGACATGGCAGTCGAC
1 GTGGTGATGACATGGCAATCGAC
10060118 GTGGT
1 GTGGT
10060123 AGGTGTCGTG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.20, C:0.10, G:0.41, T:0.29
Consensus pattern (23 bp):
GTGGTGATGACATGGCAATCGAC
Found at i:10065819 original size:20 final size:20
Alignment explanation
Indices: 10065748--10065827 Score: 70
Period size: 20 Copynumber: 3.9 Consensus size: 20
10065738 CAGAACCCCA
* **
10065748 GGGGGTATCGATTCCCTGTG
1 GGGGGAATCGATTCCCTCAG
* *
10065768 GGGGGAATCGGTTCCCCTTCAA
1 GGGGGAATCGATT-CCC-TCAG
* *
10065790 AGGGGAATCGGTTCCCTCAG
1 GGGGGAATCGATTCCCTCAG
*
10065810 GGGGGGATCGATTCCCTC
1 GGGGGAATCGATTCCCTC
10065828 TGCACCAAAA
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
20 29 0.60
21 6 0.12
22 13 0.27
ACGTcount: A:0.15, C:0.25, G:0.36, T:0.24
Consensus pattern (20 bp):
GGGGGAATCGATTCCCTCAG
Done.