Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 101 of 187
Found at i:29518601 original size:36 final size:34
Alignment explanation
Indices: 29518555--29518644 Score: 126
Period size: 36 Copynumber: 2.5 Consensus size: 34
29518545 TTATATATGC
* *
29518555 ATATGTGTATAAAAAATAGTTTAATATAAATTGTAT
1 ATATATGTATAAAAAATAGTTTAATACAAA-T-TAT
29518591 ATATATGTATAATAAAAATAGTTTAATACAAATTAT
1 ATATATGTAT-A-AAAAATAGTTTAATACAAATTAT
29518627 ATATATGTATAAAAAATA
1 ATATATGTATAAAAAATA
29518645 TTATGTAAGA
Statistics
Matches: 50, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
34 7 0.14
35 1 0.02
36 22 0.44
37 2 0.04
38 18 0.36
ACGTcount: A:0.52, C:0.01, G:0.08, T:0.39
Consensus pattern (34 bp):
ATATATGTATAAAAAATAGTTTAATACAAATTAT
Found at i:29520346 original size:25 final size:25
Alignment explanation
Indices: 29520297--29520376 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 25
29520287 GTCATTAGGG
* * *
29520297 TTACCGATTCT-ATCTCTTATGAGC
1 TTACCGATACTCAGCTCGTATGAGC
29520321 TTACCGATACTCAGCTCGTATGAGC
1 TTACCGATACTCAGCTCGTATGAGC
* ** * *
29520346 TTACCGTTGTTCAGCTCGGAGGAGC
1 TTACCGATACTCAGCTCGTATGAGC
29520371 TTACCG
1 TTACCG
29520377 TTTATCTCTC
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
24 10 0.21
25 37 0.79
ACGTcount: A:0.20, C:0.26, G:0.21, T:0.33
Consensus pattern (25 bp):
TTACCGATACTCAGCTCGTATGAGC
Found at i:29521557 original size:12 final size:12
Alignment explanation
Indices: 29521542--29521572 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
29521532 CTCCAGTTTT
29521542 CACACGGCCTAG
1 CACACGGCCTAG
29521554 CACACGGCCTAG
1 CACACGGCCTAG
29521566 CACACGG
1 CACACGG
29521573 GCGTGTGAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.42, G:0.26, T:0.06
Consensus pattern (12 bp):
CACACGGCCTAG
Found at i:29521681 original size:12 final size:12
Alignment explanation
Indices: 29521660--29521694 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
29521650 TCACTAGTTG
*
29521660 GGACACGGGCTA
1 GGACACGGGCAA
*
29521672 GGAGACGGGCAA
1 GGACACGGGCAA
29521684 GGACACGGGCA
1 GGACACGGGCA
29521695 TGTGGTCCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.29, C:0.23, G:0.46, T:0.03
Consensus pattern (12 bp):
GGACACGGGCAA
Found at i:29527467 original size:35 final size:35
Alignment explanation
Indices: 29527428--29527614 Score: 94
Period size: 35 Copynumber: 5.2 Consensus size: 35
29527418 GCACTAGTCA
29527428 GATAAACTGACAGAAGTTGCGCCCAGCGCTAGTTG
1 GATAAACTGACAGAAGTTGCGCCCAGCGCTAGTTG
* * * * *
29527463 GATAAACCGACGAAATAAATAGTGAGCCCAGCTCTAGTTG
1 GATAAACTGAC---AGAAGT--TGCGCCCAGCGCTAGTTG
** * *
29527503 GATAAACCAACA-ATATTTGCGCCCAGCGCTACTTG
1 GATAAACTGACAGA-AGTTGCGCCCAGCGCTAGTTG
* * * * *
29527538 TATAAACTGAC-GAA-TGTGTGCCCAACAACTAGTTA
1 GATAAACTGACAGAAGT-TGCGCCCAGC-GCTAGTTG
* * ** *
29527573 GATAAATTGAC-GAAAGTTGCACCCAATGCTAGTCG
1 GATAAACTGACAG-AAGTTGCGCCCAGCGCTAGTTG
29527608 GATAAAC
1 GATAAAC
29527615 CGACGAAATA
Statistics
Matches: 114, Mismatches: 27, Indels: 22
0.70 0.17 0.13
Matches are distributed among these distances:
33 1 0.01
34 9 0.08
35 60 0.53
36 10 0.09
37 4 0.04
38 4 0.04
40 26 0.23
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (35 bp):
GATAAACTGACAGAAGTTGCGCCCAGCGCTAGTTG
Found at i:29527507 original size:75 final size:75
Alignment explanation
Indices: 29527428--29527654 Score: 236
Period size: 75 Copynumber: 3.1 Consensus size: 75
29527418 GCACTAGTCA
29527428 GATAAACTGACAGAAGTTGCGCCCAGCGCTAGTTGGATAAACCGACGAAATAAATAGTGAGCCCA
1 GATAAACTGACAGAAGTTGCGCCCAGCGCTAGTTGGATAAACCGACGAAATAAATAGTGAGCCCA
*
29527493 GCTCTAGTTG
66 ACTCTAGTTG
** * * * * *
29527503 GATAAACCAACA-ATATTTGCGCCCAGCGCTACTTGTATAAACTGACG-----AAT-GTGTGCCC
1 GATAAACTGACAGA-AGTTGCGCCCAGCGCTAGTTGGATAAACCGACGAAATAAATAGTGAGCCC
* *
29527561 AACAACTAGTTA
65 AAC-TCTAGTTG
* * ** *
29527573 GATAAATTGAC-GAAAGTTGCACCCAATGCTAGTCGGATAAACCGACGAAATAAATAGTGAGCCC
1 GATAAACTGACAG-AAGTTGCGCCCAGCGCTAGTTGGATAAACCGACGAAATAAATAGTGAGCCC
29527637 AACTCTAGTTG
65 AACTCTAGTTG
29527648 GATAAAC
1 GATAAAC
29527655 CAACGATATT
Statistics
Matches: 117, Mismatches: 25, Indels: 20
0.72 0.15 0.12
Matches are distributed among these distances:
69 9 0.08
70 42 0.36
71 1 0.01
74 1 0.01
75 54 0.46
76 10 0.09
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.22
Consensus pattern (75 bp):
GATAAACTGACAGAAGTTGCGCCCAGCGCTAGTTGGATAAACCGACGAAATAAATAGTGAGCCCA
ACTCTAGTTG
Found at i:29527611 original size:145 final size:144
Alignment explanation
Indices: 29527395--29527666 Score: 411
Period size: 145 Copynumber: 1.9 Consensus size: 144
29527385 TGCTAGTCAA
* * * * *
29527395 ATAAACCGATGAATGTGTGCTCAGCACTAGTCAGATAAACTGACAGAAGTTGCGCCCAGCGCTAG
1 ATAAACCGACGAATGTGTGCCCAACACTAGTCAGATAAACTGACAGAAGTTGCACCCAACGCTAG
* *
29527460 TTGGATAAACCGACGAAATAAATAGTGAGCCCAGCTCTAGTTGGATAAACCAACAATATTTGCGC
66 TCGGATAAACCGACGAAATAAATAGTGAGCCCAACTCTAGTTGGATAAACCAACAATATTTGCGC
29527525 CCAGCGCTACTTGT
131 CCAGCGCTACTTGT
* * * *
29527539 ATAAACTGACGAATGTGTGCCCAACAACTAGTTAGATAAATTGAC-GAAAGTTGCACCCAATGCT
1 ATAAACCGACGAATGTGTGCCCAAC-ACTAGTCAGATAAACTGACAG-AAGTTGCACCCAACGCT
*
29527603 AGTCGGATAAACCGACGAAATAAATAGTGAGCCCAACTCTAGTTGGATAAACCAACGATATTTG
64 AGTCGGATAAACCGACGAAATAAATAGTGAGCCCAACTCTAGTTGGATAAACCAACAATATTTG
29527667 TAATTATTTA
Statistics
Matches: 114, Mismatches: 12, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
144 22 0.19
145 92 0.81
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.22
Consensus pattern (144 bp):
ATAAACCGACGAATGTGTGCCCAACACTAGTCAGATAAACTGACAGAAGTTGCACCCAACGCTAG
TCGGATAAACCGACGAAATAAATAGTGAGCCCAACTCTAGTTGGATAAACCAACAATATTTGCGC
CCAGCGCTACTTGT
Found at i:29530739 original size:53 final size:53
Alignment explanation
Indices: 29530659--29530765 Score: 196
Period size: 53 Copynumber: 2.0 Consensus size: 53
29530649 CGTGGCGTGT
*
29530659 TATCAGTTGGATTAAATCTTATGAGCATTTGGCGTGTTATCGGGTGGATTAGC
1 TATCAGTTGGATTAAATCTTATAAGCATTTGGCGTGTTATCGGGTGGATTAGC
*
29530712 TATCAGTTGGATTAAATCTTATAAGCATTTGGCGTGTTATTGGGTGGATTAGC
1 TATCAGTTGGATTAAATCTTATAAGCATTTGGCGTGTTATCGGGTGGATTAGC
29530765 T
1 T
29530766 CTTGTGAGCG
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.23, C:0.10, G:0.27, T:0.39
Consensus pattern (53 bp):
TATCAGTTGGATTAAATCTTATAAGCATTTGGCGTGTTATCGGGTGGATTAGC
Found at i:29533546 original size:41 final size:41
Alignment explanation
Indices: 29533500--29533583 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
29533490 TTTTAAATAT
29533500 TTTTAAATTTAAATTTTATTATTTGTTTTGGATTTTTTGAA
1 TTTTAAATTTAAATTTTATTATTTGTTTTGGATTTTTTGAA
29533541 TTTTAAATTTAAATTTTATTATTTGTTTTGGATTTTTTGAA
1 TTTTAAATTTAAATTTTATTATTTGTTTTGGATTTTTTGAA
29533582 TT
1 TT
29533584 ATGAATTGTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.26, C:0.00, G:0.10, T:0.64
Consensus pattern (41 bp):
TTTTAAATTTAAATTTTATTATTTGTTTTGGATTTTTTGAA
Found at i:29533940 original size:27 final size:27
Alignment explanation
Indices: 29533877--29533947 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
29533867 GAAAATGGGA
* **
29533877 TGCCATAGGCGGCACCAAAGGTGCCTG
1 TGCCACAGGCGGCACCAAAGGTGCCAC
** * *
29533904 TGGTAGAGGCGGCACTAAAGGTGCCAC
1 TGCCACAGGCGGCACCAAAGGTGCCAC
29533931 TGCCACAGGCGGCACCA
1 TGCCACAGGCGGCACCA
29533948 CTCTATTATA
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.24, C:0.30, G:0.34, T:0.13
Consensus pattern (27 bp):
TGCCACAGGCGGCACCAAAGGTGCCAC
Found at i:29533981 original size:3 final size:3
Alignment explanation
Indices: 29533973--29534142 Score: 340
Period size: 3 Copynumber: 56.7 Consensus size: 3
29533963 GCTTCAATCC
29533973 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
29534021 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
29534069 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
29534117 AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AG
29534143 GAGGAGGAGG
Statistics
Matches: 167, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 167 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:29534352 original size:19 final size:19
Alignment explanation
Indices: 29534328--29534497 Score: 340
Period size: 19 Copynumber: 8.9 Consensus size: 19
29534318 ATTGATGGTT
29534328 TTAGTTAGTATTATTATTG
1 TTAGTTAGTATTATTATTG
29534347 TTAGTTAGTATTATTATTG
1 TTAGTTAGTATTATTATTG
29534366 TTAGTTAGTATTATTATTG
1 TTAGTTAGTATTATTATTG
29534385 TTAGTTAGTATTATTATTG
1 TTAGTTAGTATTATTATTG
29534404 TTAGTTAGTATTATTATTG
1 TTAGTTAGTATTATTATTG
29534423 TTAGTTAGTATTATTATTG
1 TTAGTTAGTATTATTATTG
29534442 TTAGTTAGTATTATTATTG
1 TTAGTTAGTATTATTATTG
29534461 TTAGTTAGTATTATTATTG
1 TTAGTTAGTATTATTATTG
29534480 TTAGTTAGTATTATTATT
1 TTAGTTAGTATTATTATT
29534498 AGTAAAAAAC
Statistics
Matches: 151, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 151 1.00
ACGTcount: A:0.26, C:0.00, G:0.15, T:0.58
Consensus pattern (19 bp):
TTAGTTAGTATTATTATTG
Found at i:29538000 original size:2 final size:2
Alignment explanation
Indices: 29537993--29538034 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
29537983 GTTTTAGAAA
29537993 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG -G AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
29538034 A
1 A
29538035 TTTTGCTATG
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:29538751 original size:58 final size:58
Alignment explanation
Indices: 29538660--29538770 Score: 204
Period size: 58 Copynumber: 1.9 Consensus size: 58
29538650 TGATAGCCAC
*
29538660 ATTGAGTCTAATTAAATCTAGAGTCGAGCTGGATAGGCCCTAAACAGGAGCAAGCCCT
1 ATTGAGTCGAATTAAATCTAGAGTCGAGCTGGATAGGCCCTAAACAGGAGCAAGCCCT
*
29538718 ATTGAGTCGAATTAAATCTAGAGTCGAGTTGGATAGGCCCTAAACAGGAGCAA
1 ATTGAGTCGAATTAAATCTAGAGTCGAGCTGGATAGGCCCTAAACAGGAGCAA
29538771 ACTCTCATAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
58 51 1.00
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (58 bp):
ATTGAGTCGAATTAAATCTAGAGTCGAGCTGGATAGGCCCTAAACAGGAGCAAGCCCT
Found at i:29538947 original size:17 final size:17
Alignment explanation
Indices: 29538925--29538959 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
29538915 GCTTTTACTC
29538925 AAAAAATGGGTAAATTA
1 AAAAAATGGGTAAATTA
*
29538942 AAAAAATGGGTAAGTTA
1 AAAAAATGGGTAAATTA
29538959 A
1 A
29538960 TCTCTGTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.20, T:0.23
Consensus pattern (17 bp):
AAAAAATGGGTAAATTA
Found at i:29550797 original size:32 final size:32
Alignment explanation
Indices: 29550746--29550935 Score: 180
Period size: 32 Copynumber: 6.2 Consensus size: 32
29550736 GAATGGCTAC
* * *
29550746 AAGCCATAAGT-ACAGTAATATGATTGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
* ***
29550777 AAGCCATCAGTAGTAGTAATATGATCAATACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
* * *
29550809 CAGCCATCAGTAATAGTAGTATGATCGGTACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
* * *
29550841 AAGCCCTCAATAGTAGTAATATGAT-----C-
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
*
29550867 AA-CCATCAGTAATGGTAATATGATCGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
* *
29550898 CAGCCATCAGTAATGGTAATATGATCGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
29550930 AAGCCA
1 AAGCCA
29550936 ACAATAGCAT
Statistics
Matches: 128, Mismatches: 23, Indels: 15
0.77 0.14 0.09
Matches are distributed among these distances:
25 18 0.14
26 2 0.02
27 1 0.01
30 1 0.01
31 11 0.09
32 95 0.74
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (32 bp):
AAGCCATCAGTAATAGTAATATGATCGGCACA
Found at i:29550876 original size:57 final size:57
Alignment explanation
Indices: 29550812--29550923 Score: 152
Period size: 57 Copynumber: 2.0 Consensus size: 57
29550802 CAATACACAG
* * * *
29550812 CCATCAGTAATAGTAGTATGATCGGTACAAAGCCCTCAATAGTAGTAATATGATCAA
1 CCATCAGTAATAGTAATATGATCGGCACAAAGCCATCAATAATAGTAATATGATCAA
* * * *
29550869 CCATCAGTAATGGTAATATGATCGGCACACAGCCATCAGTAATGGTAATATGATC
1 CCATCAGTAATAGTAATATGATCGGCACAAAGCCATCAATAATAGTAATATGATC
29550924 GGCACAAAGC
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
57 47 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.26
Consensus pattern (57 bp):
CCATCAGTAATAGTAATATGATCGGCACAAAGCCATCAATAATAGTAATATGATCAA
Found at i:29550941 original size:89 final size:89
Alignment explanation
Indices: 29550780--29550942 Score: 236
Period size: 89 Copynumber: 1.8 Consensus size: 89
29550770 TGGCACAAAG
* * * *
29550780 CCATCAGTAGTAGTAATATGATCAATACACAGCCATCAGTAATAGTAGTATGATCGGTACAAAGC
1 CCATCAGTAATAGTAATATGATCAACACACAGCCATCAGTAATAGTAATATGATCGGCACAAAGC
**
29550845 CCTCAATAGTAGTAATATGATCAA
66 CAACAATAGTAGTAATATGATCAA
* ** *
29550869 CCATCAGTAATGGTAATATGATCGGCACACAGCCATCAGTAATGGTAATATGATCGGCACAAAGC
1 CCATCAGTAATAGTAATATGATCAACACACAGCCATCAGTAATAGTAATATGATCGGCACAAAGC
29550934 CAACAATAG
66 CAACAATAG
29550943 CATCGCAGCA
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
89 64 1.00
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.23
Consensus pattern (89 bp):
CCATCAGTAATAGTAATATGATCAACACACAGCCATCAGTAATAGTAATATGATCGGCACAAAGC
CAACAATAGTAGTAATATGATCAA
Found at i:29550973 original size:26 final size:26
Alignment explanation
Indices: 29550932--29550997 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 26
29550922 TCGGCACAAA
* *
29550932 GCCAACAATAGCATCGCAGCAAAGCT
1 GCCAACAACAGTATCGCAGCAAAGCT
* *
29550958 GCCAGCAACAGTATCGCAGCAAAGTT
1 GCCAACAACAGTATCGCAGCAAAGCT
*
29550984 GCCAATAACAGTAT
1 GCCAACAACAGTAT
29550998 ATGTGGCCAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.38, C:0.27, G:0.20, T:0.15
Consensus pattern (26 bp):
GCCAACAACAGTATCGCAGCAAAGCT
Found at i:29551029 original size:27 final size:27
Alignment explanation
Indices: 29550989--29551049 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
29550979 AAGTTGCCAA
*
29550989 TAACAGTATATGTGGCCA-AGCCATCAG
1 TAACAGTATATGTGG-CAGAGCCACCAG
29551016 TAACAGTGAT-TGTGGCAGAGCCACCAG
1 TAACAGT-ATATGTGGCAGAGCCACCAG
29551043 T-ACAGTA
1 TAACAGTA
29551050 CTTCCTCCAC
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
25 1 0.03
26 7 0.23
27 21 0.68
28 2 0.06
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (27 bp):
TAACAGTATATGTGGCAGAGCCACCAG
Found at i:29551146 original size:24 final size:24
Alignment explanation
Indices: 29551114--29551247 Score: 142
Period size: 24 Copynumber: 5.6 Consensus size: 24
29551104 CCATGCACGG
**
29551114 AATCAGTCATACAAATCACAGACA
1 AATCAGTCATTTAAATCACAGACA
*
29551138 AATCAGTCATTTAAATCACAGATA
1 AATCAGTCATTTAAATCACAGACA
* *
29551162 AATAAGTCATTTAGATCACAGACA
1 AATCAGTCATTTAAATCACAGACA
* * *
29551186 AATCAGTCATTTACATCTCGGACA
1 AATCAGTCATTTAAATCACAGACA
* * * * *
29551210 AATCATTCATTTACATTATAGGCA
1 AATCAGTCATTTAAATCACAGACA
*
29551234 AATCAATCATTTAA
1 AATCAGTCATTTAA
29551248 CCCCGAGGGG
Statistics
Matches: 92, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 92 1.00
ACGTcount: A:0.43, C:0.19, G:0.09, T:0.28
Consensus pattern (24 bp):
AATCAGTCATTTAAATCACAGACA
Found at i:29551331 original size:54 final size:54
Alignment explanation
Indices: 29551266--29551490 Score: 301
Period size: 54 Copynumber: 4.2 Consensus size: 54
29551256 GGTAAAATAG
* *
29551266 TCATTTTACCCTACAAGGGCATTACGGTCATTTTACCTTACAGGGCCATTACGA
1 TCATTTTACCCTACAAGGGCATTACGGTCATTTTACCCTACAGGGGCATTACGA
* *
29551320 TAATTTTACCCTAC-AGGGCATTACGGTCATTTTACCCTACA-GGGCATTACGG
1 TCATTTTACCCTACAAGGGCATTACGGTCATTTTACCCTACAGGGGCATTACGA
* * * * **
29551372 TCATTTTACCCTACAGGGGCGTTACGGTCATTTTACCCTATAGGGGCGTTATTA
1 TCATTTTACCCTACAAGGGCATTACGGTCATTTTACCCTACAGGGGCATTACGA
** * * *
29551426 TCATTTTACCCTACGGGGGCATTATGGTCATTTTACCATACAGGGGCATTATGA
1 TCATTTTACCCTACAAGGGCATTACGGTCATTTTACCCTACAGGGGCATTACGA
29551480 TCATTTTACCC
1 TCATTTTACCC
29551491 GTCGAAGGTA
Statistics
Matches: 150, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
52 22 0.15
53 50 0.33
54 78 0.52
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (54 bp):
TCATTTTACCCTACAAGGGCATTACGGTCATTTTACCCTACAGGGGCATTACGA
Found at i:29551351 original size:26 final size:26
Alignment explanation
Indices: 29551265--29551490 Score: 272
Period size: 27 Copynumber: 8.5 Consensus size: 26
29551255 GGGTAAAATA
29551265 GTCATTTTACCCTACAAGGGCATTACG
1 GTCATTTTACCCTAC-AGGGCATTACG
*
29551292 GTCATTTTACCTTACAGGGCCATTACG
1 GTCATTTTACCCTACAGGG-CATTACG
* *
29551319 ATAATTTTACCCTACAGGGCATTACG
1 GTCATTTTACCCTACAGGGCATTACG
29551345 GTCATTTTACCCTACAGGGCATTACG
1 GTCATTTTACCCTACAGGGCATTACG
*
29551371 GTCATTTTACCCTACAGGGGCGTTACG
1 GTCATTTTACCCTACA-GGGCATTACG
* * **
29551398 GTCATTTTACCCTATAGGGGCGTTATT
1 GTCATTTTACCCTACA-GGGCATTACG
* * *
29551425 ATCATTTTACCCTACGGGGGCATTATG
1 GTCATTTTACCCTAC-AGGGCATTACG
* *
29551452 GTCATTTTACCATACAGGGGCATTATG
1 GTCATTTTACCCTACA-GGGCATTACG
*
29551479 ATCATTTTACCC
1 GTCATTTTACCC
29551491 GTCGAAGGTA
Statistics
Matches: 175, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
26 51 0.29
27 124 0.71
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.33
Consensus pattern (26 bp):
GTCATTTTACCCTACAGGGCATTACG
Found at i:29551512 original size:27 final size:27
Alignment explanation
Indices: 29551482--29551542 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
29551472 CATTATGATC
*
29551482 ATTTTACCCGTCGAAGGTATTTCGGTA
1 ATTTTACCCGTCGAAGGTATTTCAGTA
* * * *
29551509 ATTTGACCCTTCGAGGGTATTTTAGTA
1 ATTTTACCCGTCGAAGGTATTTCAGTA
29551536 ATTTTAC
1 ATTTTAC
29551543 AACCTTTTTG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.23, C:0.16, G:0.20, T:0.41
Consensus pattern (27 bp):
ATTTTACCCGTCGAAGGTATTTCAGTA
Found at i:29551966 original size:53 final size:53
Alignment explanation
Indices: 29551903--29552008 Score: 158
Period size: 53 Copynumber: 2.0 Consensus size: 53
29551893 TGGTCCCAAA
*
29551903 CGCCGTATTTCAGCTTTTACCGTTCTACAGTTATAGTGGAGAGTTTACACACC
1 CGCCGTATTTCAGCTTTTACCGTTCTACAGTTACAGTGGAGAGTTTACACACC
* *** *
29551956 CGCCGTATTTCGGCTTTTGTTGTTCTACAGTTACAGTGGGGAGTTTACACACC
1 CGCCGTATTTCAGCTTTTACCGTTCTACAGTTACAGTGGAGAGTTTACACACC
29552009 TGATGCGATT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
53 47 1.00
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.35
Consensus pattern (53 bp):
CGCCGTATTTCAGCTTTTACCGTTCTACAGTTACAGTGGAGAGTTTACACACC
Found at i:29553338 original size:20 final size:21
Alignment explanation
Indices: 29553315--29553363 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
29553305 ATCAAATGCA
* *
29553315 TTTTATTATTATAA-TATATG
1 TTTTATAATTATAATTATAAG
*
29553335 TTTTATAATTTTAATTATAAG
1 TTTTATAATTATAATTATAAG
29553356 TTTTATAA
1 TTTTATAA
29553364 CAAACATCCC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (21 bp):
TTTTATAATTATAATTATAAG
Found at i:29559468 original size:31 final size:31
Alignment explanation
Indices: 29559430--29559488 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
29559420 TGTCATCCTG
*
29559430 GATTTCCC-AACAATGATGACCTGCCACCTTA
1 GATTTCCCGAA-AATGATGACCTACCACCTTA
*
29559461 GATTTCCCGAAAATGATGGCCTACCACC
1 GATTTCCCGAAAATGATGACCTACCACC
29559489 CCGAATAGCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 23 0.92
32 2 0.08
ACGTcount: A:0.29, C:0.32, G:0.15, T:0.24
Consensus pattern (31 bp):
GATTTCCCGAAAATGATGACCTACCACCTTA
Found at i:29563060 original size:15 final size:15
Alignment explanation
Indices: 29563040--29563071 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
29563030 CATTTCACTA
*
29563040 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
29563055 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
29563070 TT
1 TT
29563072 TGCATGCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:29563841 original size:289 final size:289
Alignment explanation
Indices: 29563322--29563899 Score: 1156
Period size: 289 Copynumber: 2.0 Consensus size: 289
29563312 ACCTGAGATG
29563322 CAAGTGAAGTGATAGCGTCCACTTCATGTACTCCGGTGACTCGTCTTCCTGATGCTGCTTGATTA
1 CAAGTGAAGTGATAGCGTCCACTTCATGTACTCCGGTGACTCGTCTTCCTGATGCTGCTTGATTA
29563387 GTTGGCTATTGATAATTGTTGATGGCAATCCTCTCGATGATTTCATAAGCCTCATTATAAAACTT
66 GTTGGCTATTGATAATTGTTGATGGCAATCCTCTCGATGATTTCATAAGCCTCATTATAAAACTT
29563452 AGAAAGGAGAGCACCATTAGCAGAGGCATCCACTACCATCCTCGTGTGAGCATTGAGACCATTAT
131 AGAAAGGAGAGCACCATTAGCAGAGGCATCCACTACCATCCTCGTGTGAGCATTGAGACCATTAT
29563517 AAAACATCACAAGTTGGATGCAATGTGGGATTTTGTGATGAGGGAACTTCTGTAATAATTCTTTG
196 AAAACATCACAAGTTGGATGCAATGTGGGATTTTGTGATGAGGGAACTTCTGTAATAATTCTTTG
29563582 TACCTTTCCCATGCCTCATACAAGGACTC
261 TACCTTTCCCATGCCTCATACAAGGACTC
29563611 CAAGTGAAGTGATAGCGTCCACTTCATGTACTCCGGTGACTCGTCTTCCTGATGCTGCTTGATTA
1 CAAGTGAAGTGATAGCGTCCACTTCATGTACTCCGGTGACTCGTCTTCCTGATGCTGCTTGATTA
29563676 GTTGGCTATTGATAATTGTTGATGGCAATCCTCTCGATGATTTCATAAGCCTCATTATAAAACTT
66 GTTGGCTATTGATAATTGTTGATGGCAATCCTCTCGATGATTTCATAAGCCTCATTATAAAACTT
29563741 AGAAAGGAGAGCACCATTAGCAGAGGCATCCACTACCATCCTCGTGTGAGCATTGAGACCATTAT
131 AGAAAGGAGAGCACCATTAGCAGAGGCATCCACTACCATCCTCGTGTGAGCATTGAGACCATTAT
29563806 AAAACATCACAAGTTGGATGCAATGTGGGATTTTGTGATGAGGGAACTTCTGTAATAATTCTTTG
196 AAAACATCACAAGTTGGATGCAATGTGGGATTTTGTGATGAGGGAACTTCTGTAATAATTCTTTG
29563871 TACCTTTCCCATGCCTCATACAAGGACTC
261 TACCTTTCCCATGCCTCATACAAGGACTC
29563900 ATCATCCATT
Statistics
Matches: 289, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
289 289 1.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (289 bp):
CAAGTGAAGTGATAGCGTCCACTTCATGTACTCCGGTGACTCGTCTTCCTGATGCTGCTTGATTA
GTTGGCTATTGATAATTGTTGATGGCAATCCTCTCGATGATTTCATAAGCCTCATTATAAAACTT
AGAAAGGAGAGCACCATTAGCAGAGGCATCCACTACCATCCTCGTGTGAGCATTGAGACCATTAT
AAAACATCACAAGTTGGATGCAATGTGGGATTTTGTGATGAGGGAACTTCTGTAATAATTCTTTG
TACCTTTCCCATGCCTCATACAAGGACTC
Found at i:29568920 original size:16 final size:15
Alignment explanation
Indices: 29568895--29568928 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
29568885 AAAGTTGATA
*
29568895 ATAATTAATATATATT
1 ATAATAAATATA-ATT
29568911 ATAATAAATATAATT
1 ATAATAAATATAATT
29568926 ATA
1 ATA
29568929 TACTAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:29577674 original size:25 final size:25
Alignment explanation
Indices: 29577638--29577709 Score: 117
Period size: 25 Copynumber: 2.9 Consensus size: 25
29577628 TCTTGTACAT
* *
29577638 GTATGCTTACACGAGCTATGAATCG
1 GTATGCTCACACGAGCTGTGAATCG
29577663 GTATGCTCACACGAGCTGTGAATCG
1 GTATGCTCACACGAGCTGTGAATCG
*
29577688 GTATGCTCACATGAGCTGTGAA
1 GTATGCTCACACGAGCTGTGAA
29577710 AATGGGCCTG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (25 bp):
GTATGCTCACACGAGCTGTGAATCG
Found at i:29587429 original size:40 final size:40
Alignment explanation
Indices: 29587381--29588048 Score: 1282
Period size: 40 Copynumber: 16.7 Consensus size: 40
29587371 GCAAACACCT
* * *
29587381 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
29587421 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
29587461 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
29587501 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
29587541 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
29587581 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
29587621 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
29587661 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
29587701 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
29587741 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
29587781 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
29587821 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
29587861 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
29587901 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
29587941 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
29587981 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
29588021 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
29588049 TCCAATGCTC
Statistics
Matches: 621, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 621 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:29597144 original size:16 final size:15
Alignment explanation
Indices: 29597122--29597157 Score: 63
Period size: 16 Copynumber: 2.3 Consensus size: 15
29597112 CTTTAAAAAG
29597122 AAATAAAGAAATTTA
1 AAATAAAGAAATTTA
29597137 ATAATAAAGAAATTTA
1 A-AATAAAGAAATTTA
29597153 AAATA
1 AAATA
29597158 GCAAAAGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.28
Consensus pattern (15 bp):
AAATAAAGAAATTTA
Found at i:29597213 original size:24 final size:23
Alignment explanation
Indices: 29597177--29597228 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
29597167 TAAATTTGAG
*
29597177 AATAAAAACAAATAAAAATCATA
1 AATAAAAACAAATAAAAATCAAA
* * *
29597200 AATAAATAAGAAATAGAAATTAAA
1 AATAAA-AACAAATAAAAATCAAA
29597224 AATAA
1 AATAA
29597229 CAAAGTGGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 6 0.25
24 18 0.75
ACGTcount: A:0.73, C:0.04, G:0.04, T:0.19
Consensus pattern (23 bp):
AATAAAAACAAATAAAAATCAAA
Found at i:29600728 original size:23 final size:21
Alignment explanation
Indices: 29600696--29600738 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
29600686 AATAAAAAAT
29600696 AAATAAAAATCATAAAAAATAAG
1 AAATAAAAAT-A-AAAAAATAAG
*
29600719 AAATAGAAATAAAAAAATAA
1 AAATAAAAATAAAAAAATAA
29600739 CAAAGTGGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
22 1 0.05
23 9 0.47
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.16
Consensus pattern (21 bp):
AAATAAAAATAAAAAAATAAG
Found at i:29605228 original size:21 final size:22
Alignment explanation
Indices: 29605204--29605244 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
29605194 AAAATTTGAA
*
29605204 ATTTAAT-TTTTATATTTTTAT
1 ATTTAATATTTAATATTTTTAT
29605225 ATTTAATATTTAATATTTTT
1 ATTTAATATTTAATATTTTT
29605245 TTACTTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (22 bp):
ATTTAATATTTAATATTTTTAT
Found at i:29605760 original size:16 final size:15
Alignment explanation
Indices: 29605734--29605763 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
29605724 TTTAAAATCT
29605734 ATTTTAAAATTTAAA
1 ATTTTAAAATTTAAA
29605749 ATTTTCAAAATTTAA
1 ATTTT-AAAATTTAA
29605764 GATTGATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTTTAAAATTTAAA
Found at i:29606400 original size:26 final size:24
Alignment explanation
Indices: 29606356--29606404 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
29606346 TGATTCTATT
*
29606356 AAATAAATTATTAAAAAATTCATAA
1 AAATAAAATATTAAAAAA-TCATAA
*
29606381 AAATAAAATATTTAATAAATCATA
1 AAATAAAATA-TTAAAAAATCATA
29606405 CAATCAATCG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (24 bp):
AAATAAAATATTAAAAAATCATAA
Found at i:29606888 original size:13 final size:13
Alignment explanation
Indices: 29606847--29606912 Score: 72
Period size: 13 Copynumber: 5.5 Consensus size: 13
29606837 AATTTTGAAT
29606847 TATTTAGTGATAA
1 TATTTAGTGATAA
* *
29606860 TATCTA-T-A-AT
1 TATTTAGTGATAA
29606870 TATTTAGTGATAA
1 TATTTAGTGATAA
29606883 TATTTAG-GAT--
1 TATTTAGTGATAA
29606893 TATTTAGTGATAA
1 TATTTAGTGATAA
29606906 TATTTAG
1 TATTTAG
29606913 GAAAAATCTA
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
10 13 0.30
11 5 0.12
12 5 0.12
13 20 0.47
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.48
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:29606909 original size:23 final size:23
Alignment explanation
Indices: 29606845--29606914 Score: 113
Period size: 23 Copynumber: 3.0 Consensus size: 23
29606835 TAAATTTTGA
* **
29606845 ATTATTTAGTGATAATATCTATA
1 ATTATTTAGTGATAATATTTAGG
29606868 ATTATTTAGTGATAATATTTAGG
1 ATTATTTAGTGATAATATTTAGG
29606891 ATTATTTAGTGATAATATTTAGG
1 ATTATTTAGTGATAATATTTAGG
29606914 A
1 A
29606915 AAAATCTAGC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.37, C:0.01, G:0.14, T:0.47
Consensus pattern (23 bp):
ATTATTTAGTGATAATATTTAGG
Found at i:29607556 original size:15 final size:16
Alignment explanation
Indices: 29607536--29607572 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
29607526 TTTGGATTAA
29607536 TTCAAA-ATTTTGAA-T
1 TTCAAATATTTT-AATT
29607551 TTCAAATATTTTAATT
1 TTCAAATATTTTAATT
29607567 TTCAAA
1 TTCAAA
29607573 CAAAAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.41, C:0.08, G:0.03, T:0.49
Consensus pattern (16 bp):
TTCAAATATTTTAATT
Found at i:29609411 original size:18 final size:18
Alignment explanation
Indices: 29609390--29609430 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
29609380 GGAAACTTCA
29609390 TTTCTGAACACATCTTTT
1 TTTCTGAACACATCTTTT
*
29609408 TTTCTTAACACATCTTTT
1 TTTCTGAACACATCTTTT
29609426 TTTCT
1 TTTCT
29609431 CTCTTTTTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.20, C:0.22, G:0.02, T:0.56
Consensus pattern (18 bp):
TTTCTGAACACATCTTTT
Found at i:29611542 original size:2 final size:2
Alignment explanation
Indices: 29611535--29611590 Score: 94
Period size: 2 Copynumber: 28.0 Consensus size: 2
29611525 AAAGAAATAT
* *
29611535 AC AC AC AC AC AA AG AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
29611577 AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC
29611591 GTATGCATCT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.52, C:0.46, G:0.02, T:0.00
Consensus pattern (2 bp):
AC
Found at i:29613025 original size:18 final size:19
Alignment explanation
Indices: 29612979--29613026 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
29612969 TTAAAAATAT
*
29612979 AATTTAAAAAAAAAATTAA
1 AATTTATAAAAAAAATTAA
*
29612998 AA-TTATTAAAAAACA-TAA
1 AATTTA-TAAAAAAAATTAA
29613016 AATTTATAAAA
1 AATTTATAAAA
29613027 TATATTTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
18 13 0.52
19 12 0.48
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (19 bp):
AATTTATAAAAAAAATTAA
Found at i:29613076 original size:9 final size:9
Alignment explanation
Indices: 29613056--29613085 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
29613046 TATAATAATA
29613056 TTATATATTT
1 TTATA-ATTT
29613066 TTATAATTT
1 TTATAATTT
29613075 TTATAATTT
1 TTATAATTT
29613084 TT
1 TT
29613086 TTTAAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 15 0.75
10 5 0.25
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (9 bp):
TTATAATTT
Found at i:29615205 original size:15 final size:15
Alignment explanation
Indices: 29615185--29615224 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
29615175 CTAGATTACT
29615185 TTCTAGGGTTGTCAA
1 TTCTAGGGTTGTCAA
*
29615200 TTCTAGGGTTGTTAA
1 TTCTAGGGTTGTCAA
*
29615215 TTTTAGGGTT
1 TTCTAGGGTT
29615225 TAAACACACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.17, C:0.07, G:0.28, T:0.47
Consensus pattern (15 bp):
TTCTAGGGTTGTCAA
Found at i:29616083 original size:27 final size:29
Alignment explanation
Indices: 29616035--29616106 Score: 67
Period size: 27 Copynumber: 2.5 Consensus size: 29
29616025 TGTCCTCAAG
* * *
29616035 CAAACAAAAAACAAAAACAAAA-ACAA-A
1 CAAACTAAAAATAAAAACAAAAGAAAACA
**
29616062 CAAACTAAAAATAAAATGAAAAGAAAACA
1 CAAACTAAAAATAAAAACAAAAGAAAACA
*
29616091 CACAACTAAAACTAAA
1 CA-AACTAAAAATAAA
29616107 GTACTTGAGC
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
27 18 0.50
28 3 0.08
29 3 0.08
30 12 0.33
ACGTcount: A:0.74, C:0.17, G:0.03, T:0.07
Consensus pattern (29 bp):
CAAACTAAAAATAAAAACAAAAGAAAACA
Found at i:29625539 original size:13 final size:13
Alignment explanation
Indices: 29625523--29625549 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
29625513 AAAAAAAAAG
29625523 ATGAAAAATGAAA
1 ATGAAAAATGAAA
29625536 ATGAAAAATGAAA
1 ATGAAAAATGAAA
29625549 A
1 A
29625550 AATGAAAAAG
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:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
ATGAAAAATGAAA
Found at i:29625552 original size:8 final size:7
Alignment explanation
Indices: 29625518--29625567 Score: 59
Period size: 7 Copynumber: 7.0 Consensus size: 7
29625508 TTGCAAAAAA
29625518 AAAAGATG
1 AAAA-ATG
29625526 AAAAATG
1 AAAAATG
29625533 -AAAATG
1 AAAAATG
29625539 AAAAATG
1 AAAAATG
29625546 AAAAAATG
1 -AAAAATG
29625554 AAAAA-G
1 AAAAATG
29625560 TAAAAATG
1 -AAAAATG
29625568 GAGAGGCTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
6 7 0.18
7 19 0.50
8 12 0.32
ACGTcount: A:0.70, C:0.00, G:0.16, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:29627009 original size:44 final size:44
Alignment explanation
Indices: 29626943--29627348 Score: 279
Period size: 44 Copynumber: 8.8 Consensus size: 44
29626933 GGAAATGGTG
** *
29626943 AATCTTATCTCCCTGATG-TTACAGCAGAGCAGATTGAAGCCAGA
1 AATCTTATCTCCCTGA-GATTACAGTGGAGCAGATTGAAGCTAGA
* *
29626987 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGA
* **
29627031 AATCCTATCTCCCTGAGATTACAGTGGAGCAGATT-AAAATA-A
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGA
*
29627073 AGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGCTAGA
1 A--ATCTTATCTCCCTGAGA-TTACAGT---G--GA--G---CAGATTGAAGCTAGA
* * *
29627129 AATCTTACCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGA
* * * ** *
29627173 AATCCTATCTCTCTGAGATTA-TGTGGAGCAGATT-AAAATAAA
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGA
* * * * *
29627215 GAATTTTATCTCTCT-AAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAAA
1 -AATCTTATCTCCCTGAGA-TTACAGT---G--GA--G---CAGATTGAAGCTAGA
*
29627270 AATCTTATCTCCCTGAGATTACA-TCGGAGCAGATTGAAGCTAGT
1 AATCTTATCTCCCTGAGATTACAGT-GGAGCAGATTGAAGCTAGA
* *
29627314 AATCCTATCTCCTTGAGATTACAGTGGAGCAGATT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATT
29627349 AAAATAAAGG
Statistics
Matches: 288, Mismatches: 41, Indels: 66
0.73 0.10 0.17
Matches are distributed among these distances:
42 7 0.02
43 32 0.11
44 169 0.59
45 1 0.00
47 4 0.01
49 8 0.03
51 4 0.01
53 1 0.00
54 48 0.17
55 12 0.04
56 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGA
Found at i:29627146 original size:142 final size:142
Alignment explanation
Indices: 29626972--29627399 Score: 750
Period size: 142 Copynumber: 3.0 Consensus size: 142
29626962 TACAGCAGAG
29626972 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
29627037 ATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
29627102 AGTAGATCGCAT
131 AGTAGATCGCAT
* *
29627114 CAGATTGAAGCTAGAAATCTTACCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
* * * * *
29627179 ATCTCTCTGAGATTA-TGTGGAGCAGATTAAAATAAAGAATTTTATCTCTCTAAAGTTACAGTAG
66 ATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
29627243 AGTAGATCGCAT
131 AGTAGATCGCAT
* *
29627255 CAGATTGAAGCCAAAAATCTTATCTCCCTGAGATTACATCGGAGCAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
*
29627320 ATCTCCTTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
*
29627385 ATTAGATCGCAT
131 AGTAGATCGCAT
29627397 CAG
1 CAG
29627400 GTCTTATCTC
Statistics
Matches: 267, Mismatches: 18, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
141 131 0.49
142 136 0.51
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (142 bp):
CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
ATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
AGTAGATCGCAT
Found at i:29627518 original size:50 final size:50
Alignment explanation
Indices: 29627464--29627915 Score: 322
Period size: 50 Copynumber: 9.0 Consensus size: 50
29627454 TCCCAGGCGA
* *
29627464 TGTAGTGGAATAGATTAAAGCCACATCGGTGAATCTTGCTTCCTCGACAT
1 TGTAGTGGAAAAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
** * * * * * * **
29627514 TGTAGTTAAAAAGATTAAAGCTACAAT-AGCGAATCGTACTT-CCCTAGCGG
1 TGTAGTGGAAAAGATTAAAGCCAC-ATCGGTGAATCTTGCTTCCCCGA-CAT
29627564 TGTAGTGGAACAAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
1 TGTAGTGGAA-AAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
** * * * **
29627615 TGTAGTTAAAAAGATTAAAGCTACAAT-AGTGAATCTTAC-TCCCC-AGGT
1 TGTAGTGGAAAAGATTAAAGCCAC-ATCGGTGAATCTTGCTTCCCCGACAT
*
29627663 GGTGCAGTGGAACAAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
1 --TGTAGTGGAA-AAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
* ** * * * * * * **
29627716 TATAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTAC-TCCCCAGGCGG
1 TGTAGTGGAAAAGATTAAAGCCACATCGGTGAATCTTGCTTCCCC-GACAT
* * *
29627766 TGCAGTGGAATAGATTAAAGCCACATCGGTGAATCTTGCTTCCTCGACAT
1 TGTAGTGGAAAAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
* ** * * *** * ** * **
29627816 TGCAGTTCAAAAGATTAAAGCTACAACAACGAATCTTACTTCCTAGGCGG
1 TGTAGTGGAAAAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
* * * *
29627866 TGCAGTGGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACAT
1 TGTAGTGGAAAAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
29627916 CACAATTAAG
Statistics
Matches: 300, Mismatches: 88, Indels: 28
0.72 0.21 0.07
Matches are distributed among these distances:
48 2 0.01
49 13 0.04
50 205 0.68
51 69 0.23
52 9 0.03
53 2 0.01
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (50 bp):
TGTAGTGGAAAAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
Found at i:29627820 original size:151 final size:150
Alignment explanation
Indices: 29627446--29627902 Score: 351
Period size: 151 Copynumber: 3.0 Consensus size: 150
29627436 AGAATTACAG
29627446 ATCTTA-TCTCCCAGGCGATGTAGTGGAATAGATTAAAGCCACATCGGTGAATCTTGCTTCCTCG
1 ATCTTACTC-CCCAGGCGATGTAGTGGAATAGATTAAAGCCACATCGGTGAATCTTGCTTCCTCG
* * * * * * *
29627510 ACATTGTAGTTAAAAAGATTAAAGCTACAATAGCGAATCGTACTTCCCTAGCGGTGTAGTGGAAC
65 ACATTGCAG-TCAAAAGATTAAAGCCACAATAGCGAATCGTACTTCCCGAGCAGTATAGTGGAAA
* * *
29627575 AAGATTAAAGCCACATCGGTGA
129 AAGATTAAAGCCACAACAGCGA
* * ** * * * *
29627597 ATCTTGCTTCCCC-GAC-ATTGTAGTTAAAAAGATTAAAGCTACAAT-AGTGAATCTTAC-TCC-
1 ATCTTAC-TCCCCAGGCGA-TGTAGTGGAATAGATTAAAGCCAC-ATCGGTGAATCTTGCTTCCT
* ** * * * * * *
29627657 CCAGGTGGTGCAGTGGAACAAGATTAAAGCCAC-ATCGGTGAATCTTGCTTCCCCGA-CATTATA
63 CGACAT--TGCAGT-CAA-AAGATTAAAGCCACAAT-AGCGAATCGTACTT-CCCGAGCAGTATA
* *
29627720 GT-TAAAAAGATTAAAGCTACAACAGCGA
122 GTGGAAAAAGATTAAAGCCACAACAGCGA
* *
29627748 ATCTTACTCCCCAGGCGGTGCAGTGGAATAGATTAAAGCCACATCGGTGAATCTTGCTTCCTCGA
1 ATCTTACTCCCCAGGCGATGTAGTGGAATAGATTAAAGCCACATCGGTGAATCTTGCTTCCTCGA
* * * * * * **
29627813 CATTGCAGTTCAAAAGATTAAAGCTACAACAACGAATCTTACTT-CCTAGGCGGTGCAGTGG-AA
66 CATTGCAG-TCAAAAGATTAAAGCCACAATAGCGAATCGTACTTCCCGA-GCAGTATAGTGGAAA
* *
29627876 CAGATTAAAGCCACAACGGCGA
129 AAGATTAAAGCCACAACAGCGA
29627898 ATCTT
1 ATCTT
29627903 GCTTCCCCGA
Statistics
Matches: 229, Mismatches: 57, Indels: 41
0.70 0.17 0.13
Matches are distributed among these distances:
148 3 0.01
149 3 0.01
150 66 0.29
151 110 0.48
152 38 0.17
153 9 0.04
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (150 bp):
ATCTTACTCCCCAGGCGATGTAGTGGAATAGATTAAAGCCACATCGGTGAATCTTGCTTCCTCGA
CATTGCAGTCAAAAGATTAAAGCCACAATAGCGAATCGTACTTCCCGAGCAGTATAGTGGAAAAA
GATTAAAGCCACAACAGCGA
Found at i:29627931 original size:100 final size:100
Alignment explanation
Indices: 29627446--29627915 Score: 701
Period size: 101 Copynumber: 4.7 Consensus size: 100
29627436 AGAATTACAG
* * * *
29627446 ATCTTA-TCTCCCAGGCGATGTAGTGGAATAGATTAAAGCCACATCGGTGAATCTTGCTTCCTCG
1 ATCTTACTC-CCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
*
29627510 ACATTGTAGTTAAAAAGATTAAAGCTACAATAGCGA
65 ACATTGTAGTTAAAAAGATTAAAGCTACAACAGCGA
* * *
29627546 ATCGTACTTCCCTA-GCGGTGTAGTGGAACAAGATTAAAGCCACATCGGTGAATCTTGCTTCCCC
1 ATCTTAC-TCCCCAGGCGGTGCAGTGGAAC-AGATTAAAGCCACATCGGTGAATCTTGCTTCCCC
* *
29627610 GACATTGTAGTTAAAAAGATTAAAGCTACAATAGTGA
64 GACATTGTAGTTAAAAAGATTAAAGCTACAACAGCGA
*
29627647 ATCTTACTCCCCAGGTGGTGCAGTGGAACAAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
1 ATCTTACTCCCCAGGCGGTGCAGTGGAAC-AGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
*
29627712 ACATTATAGTTAAAAAGATTAAAGCTACAACAGCGA
65 ACATTGTAGTTAAAAAGATTAAAGCTACAACAGCGA
* *
29627748 ATCTTACTCCCCAGGCGGTGCAGTGGAATAGATTAAAGCCACATCGGTGAATCTTGCTTCCTCGA
1 ATCTTACTCCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGA
* * *
29627813 CATTGCAGTTCAAAAGATTAAAGCTACAACAACGA
66 CATTGTAGTTAAAAAGATTAAAGCTACAACAGCGA
* * * *
29627848 ATCTTACTTCCTAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGA
1 ATCTTACTCCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGA
29627913 CAT
66 CAT
29627916 CACAATTAAG
Statistics
Matches: 340, Mismatches: 26, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
100 151 0.44
101 187 0.55
102 2 0.01
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.25
Consensus pattern (100 bp):
ATCTTACTCCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGA
CATTGTAGTTAAAAAGATTAAAGCTACAACAGCGA
Found at i:29628664 original size:21 final size:21
Alignment explanation
Indices: 29628632--29628673 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
29628622 TTTGAGTTTA
29628632 TATCGATTTTTT-TTCTTTTTC
1 TATCGATTTTTTCTT-TTTTTC
29628653 TATCG-TTATTTTCTTTTTTTC
1 TATCGATT-TTTTCTTTTTTTC
29628674 CTGTTCTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 2 0.11
21 15 0.79
22 2 0.11
ACGTcount: A:0.10, C:0.14, G:0.05, T:0.71
Consensus pattern (21 bp):
TATCGATTTTTTCTTTTTTTC
Found at i:29630925 original size:514 final size:514
Alignment explanation
Indices: 29629958--29630985 Score: 2047
Period size: 514 Copynumber: 2.0 Consensus size: 514
29629948 GAATTGAGCC
29629958 TTAACGTATTAGGTTCCAATTTTCCTCGTCGAATCTAAATAATCGAGAATATCTCTTTAAATTAA
1 TTAACGTATTAGGTTCCAATTTTCCTCGTCGAATCTAAATAATCGAGAATATCTCTTTAAATTAA
29630023 AACATAAATAAAGAGCTCATTCTTGGGAATTCGACACGTTGTGTCCTAACGCATTGGATATGACA
66 AACATAAATAAAGAGCTCATTCTTGGGAATTCGACACGTTGTGTCCTAACGCATTGGATATGACA
29630088 TGTTATTTTCTCGAGGCGCGGATTTTTTCTAATAGATGAAAATAAAGTCAATATTTGATATTTAG
131 TGTTATTTTCTCGAGGCGCGGATTTTTTCTAATAGATGAAAATAAAGTCAATATTTGATATTTAG
29630153 GAGTTTTGTGAAATCGAGCCCTAACTTTCTGGGTTTTGATTTTCTCATTTGACCCAAATAATCAA
196 GAGTTTTGTGAAATCGAGCCCTAACTTTCTGGGTTTTGATTTTCTCATTTGACCCAAATAATCAA
29630218 ATATCCTTCTCAAAATGCATAAGTTTTAAAGGTCAAGAGATAAACTTAATTTTGAGGATTTAAAA
261 ATATCCTTCTCAAAATGCATAAGTTTTAAAGGTCAAGAGATAAACTTAATTTTGAGGATTTAAAA
29630283 TGTCGTACTTTAACTTACTGAATGTGACAATTTATTTCTTCGAAATAAGTGATCCTTACCATCCA
326 TGTCGTACTTTAACTTACTGAATGTGACAATTTATTTCTTCGAAATAAGTGATCCTTACCATCCA
29630348 ATTCATTTTACTCAAATTTTCTTTTCAAAGGATCGTATTTTAAAATATTTTCAAAATTTCAACAT
391 ATTCATTTTACTCAAATTTTCTTTTCAAAGGATCGTATTTTAAAATATTTTCAAAATTTCAACAT
29630413 TAAGACATTAAACAATCAATTCAGTACCAATTTTGGGCGTCACGAGGGTGCTAACCCTT
456 TAAGACATTAAACAATCAATTCAGTACCAATTTTGGGCGTCACGAGGGTGCTAACCCTT
29630472 TTAACGTATTAGGTTCCAATTTTCCTCGTCGAATCTAAATAATCGAGAATATCTCTTTAAATTAA
1 TTAACGTATTAGGTTCCAATTTTCCTCGTCGAATCTAAATAATCGAGAATATCTCTTTAAATTAA
*
29630537 AACATAAATAAAGAGCTCATTCTTGGGAATTCGACATGTTGTGTCCTAACGCATTGGATATGACA
66 AACATAAATAAAGAGCTCATTCTTGGGAATTCGACACGTTGTGTCCTAACGCATTGGATATGACA
29630602 TGTTATTTTCTCGAGGCGCGGATTTTTTCTAATAGATGAAAATAAAGTCAATATTTGATATTTAG
131 TGTTATTTTCTCGAGGCGCGGATTTTTTCTAATAGATGAAAATAAAGTCAATATTTGATATTTAG
29630667 GAGTTTTGTGAAATCGAGCCCTAACTTTCTGGGTTTTGATTTTCTCATTTGACCCAAATAATCAA
196 GAGTTTTGTGAAATCGAGCCCTAACTTTCTGGGTTTTGATTTTCTCATTTGACCCAAATAATCAA
29630732 ATATCCTTCTCAAAATGCATAAGTTTTAAAGGTCAAGAGATAAACTTAATTTTGAGGATTTAAAA
261 ATATCCTTCTCAAAATGCATAAGTTTTAAAGGTCAAGAGATAAACTTAATTTTGAGGATTTAAAA
29630797 TGTCGTACTTTAACTTACTGAATGTGACAATTTATTTCTTCGAAATAAGTGATCCTTACCATCCA
326 TGTCGTACTTTAACTTACTGAATGTGACAATTTATTTCTTCGAAATAAGTGATCCTTACCATCCA
29630862 ATTCATTTTACTCAAATTTTCTTTTCAAAGGATCGTATTTTAAAATATTTTCAAAATTTCAACAT
391 ATTCATTTTACTCAAATTTTCTTTTCAAAGGATCGTATTTTAAAATATTTTCAAAATTTCAACAT
29630927 TAAGACATTAAACAATCAATTCAGTACCAATTTTGGGCGTCACGAGGGTGCTAACCCTT
456 TAAGACATTAAACAATCAATTCAGTACCAATTTTGGGCGTCACGAGGGTGCTAACCCTT
29630986 CCTCGTGCGT
Statistics
Matches: 513, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
514 513 1.00
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (514 bp):
TTAACGTATTAGGTTCCAATTTTCCTCGTCGAATCTAAATAATCGAGAATATCTCTTTAAATTAA
AACATAAATAAAGAGCTCATTCTTGGGAATTCGACACGTTGTGTCCTAACGCATTGGATATGACA
TGTTATTTTCTCGAGGCGCGGATTTTTTCTAATAGATGAAAATAAAGTCAATATTTGATATTTAG
GAGTTTTGTGAAATCGAGCCCTAACTTTCTGGGTTTTGATTTTCTCATTTGACCCAAATAATCAA
ATATCCTTCTCAAAATGCATAAGTTTTAAAGGTCAAGAGATAAACTTAATTTTGAGGATTTAAAA
TGTCGTACTTTAACTTACTGAATGTGACAATTTATTTCTTCGAAATAAGTGATCCTTACCATCCA
ATTCATTTTACTCAAATTTTCTTTTCAAAGGATCGTATTTTAAAATATTTTCAAAATTTCAACAT
TAAGACATTAAACAATCAATTCAGTACCAATTTTGGGCGTCACGAGGGTGCTAACCCTT
Found at i:29632148 original size:819 final size:819
Alignment explanation
Indices: 29630572--29632209 Score: 3276
Period size: 819 Copynumber: 2.0 Consensus size: 819
29630562 GGAATTCGAC
29630572 ATGTTGTGTCCTAACGCATTGGATATGACATGTTATTTTCTCGAGGCGCGGATTTTTTCTAATAG
1 ATGTTGTGTCCTAACGCATTGGATATGACATGTTATTTTCTCGAGGCGCGGATTTTTTCTAATAG
29630637 ATGAAAATAAAGTCAATATTTGATATTTAGGAGTTTTGTGAAATCGAGCCCTAACTTTCTGGGTT
66 ATGAAAATAAAGTCAATATTTGATATTTAGGAGTTTTGTGAAATCGAGCCCTAACTTTCTGGGTT
29630702 TTGATTTTCTCATTTGACCCAAATAATCAAATATCCTTCTCAAAATGCATAAGTTTTAAAGGTCA
131 TTGATTTTCTCATTTGACCCAAATAATCAAATATCCTTCTCAAAATGCATAAGTTTTAAAGGTCA
29630767 AGAGATAAACTTAATTTTGAGGATTTAAAATGTCGTACTTTAACTTACTGAATGTGACAATTTAT
196 AGAGATAAACTTAATTTTGAGGATTTAAAATGTCGTACTTTAACTTACTGAATGTGACAATTTAT
29630832 TTCTTCGAAATAAGTGATCCTTACCATCCAATTCATTTTACTCAAATTTTCTTTTCAAAGGATCG
261 TTCTTCGAAATAAGTGATCCTTACCATCCAATTCATTTTACTCAAATTTTCTTTTCAAAGGATCG
29630897 TATTTTAAAATATTTTCAAAATTTCAACATTAAGACATTAAACAATCAATTCAGTACCAATTTTG
326 TATTTTAAAATATTTTCAAAATTTCAACATTAAGACATTAAACAATCAATTCAGTACCAATTTTG
29630962 GGCGTCACGAGGGTGCTAACCCTTCCTCGTGCGTAACAGACTCCCAAACCTATTTTCTCAAAATT
391 GGCGTCACGAGGGTGCTAACCCTTCCTCGTGCGTAACAGACTCCCAAACCTATTTTCTCAAAATT
29631027 TGCAGACCTAAAACTATTTTCAAGGTGATCCAATCACACCACAATAAAAGATCGGTGGCGACTCC
456 TGCAGACCTAAAACTATTTTCAAGGTGATCCAATCACACCACAATAAAAGATCGGTGGCGACTCC
29631092 CATTTTCATTTTGAATAAGTCGATAACAAAACTTTTTTGTTTTTCAAAAAATGGTTTCGACACCT
521 CATTTTCATTTTGAATAAGTCGATAACAAAACTTTTTTGTTTTTCAAAAAATGGTTTCGACACCT
29631157 GTGCTTTGTGCGAGACAGATCCTTGATGTTCCCAACTTTCAATTTAATGACCTCCGCTATCCTCG
586 GTGCTTTGTGCGAGACAGATCCTTGATGTTCCCAACTTTCAATTTAATGACCTCCGCTATCCTCG
29631222 TACCACAAATCCTTCGAGTTTGGCCTTGAACAATTATGAATAAAAAACAGAACAAGAAACAATTT
651 TACCACAAATCCTTCGAGTTTGGCCTTGAACAATTATGAATAAAAAACAGAACAAGAAACAATTT
29631287 TATTAATTTCAATAGGAAAGTAAGTCTCTCTCTTTTATAGAAACCGATATAATTGTTATTCCCAG
716 TATTAATTTCAATAGGAAAGTAAGTCTCTCTCTTTTATAGAAACCGATATAATTGTTATTCCCAG
29631352 AAAATAGAATTTATACTTAGAAATAAATTCTCACTATTT
781 AAAATAGAATTTATACTTAGAAATAAATTCTCACTATTT
29631391 ATGTTGTGTCCTAACGCATTGGATATGACATGTTATTTTCTCGAGGCGCGGATTTTTTCTAATAG
1 ATGTTGTGTCCTAACGCATTGGATATGACATGTTATTTTCTCGAGGCGCGGATTTTTTCTAATAG
29631456 ATGAAAATAAAGTCAATATTTGATATTTAGGAGTTTTGTGAAATCGAGCCCTAACTTTCTGGGTT
66 ATGAAAATAAAGTCAATATTTGATATTTAGGAGTTTTGTGAAATCGAGCCCTAACTTTCTGGGTT
29631521 TTGATTTTCTCATTTGACCCAAATAATCAAATATCCTTCTCAAAATGCATAAGTTTTAAAGGTCA
131 TTGATTTTCTCATTTGACCCAAATAATCAAATATCCTTCTCAAAATGCATAAGTTTTAAAGGTCA
29631586 AGAGATAAACTTAATTTTGAGGATTTAAAATGTCGTACTTTAACTTACTGAATGTGACAATTTAT
196 AGAGATAAACTTAATTTTGAGGATTTAAAATGTCGTACTTTAACTTACTGAATGTGACAATTTAT
29631651 TTCTTCGAAATAAGTGATCCTTACCATCCAATTCATTTTACTCAAATTTTCTTTTCAAAGGATCG
261 TTCTTCGAAATAAGTGATCCTTACCATCCAATTCATTTTACTCAAATTTTCTTTTCAAAGGATCG
29631716 TATTTTAAAATATTTTCAAAATTTCAACATTAAGACATTAAACAATCAATTCAGTACCAATTTTG
326 TATTTTAAAATATTTTCAAAATTTCAACATTAAGACATTAAACAATCAATTCAGTACCAATTTTG
29631781 GGCGTCACGAGGGTGCTAACCCTTCCTCGTGCGTAACAGACTCCCAAACCTATTTTCTCAAAATT
391 GGCGTCACGAGGGTGCTAACCCTTCCTCGTGCGTAACAGACTCCCAAACCTATTTTCTCAAAATT
29631846 TGCAGACCTAAAACTATTTTCAAGGTGATCCAATCACACCACAATAAAAGATCGGTGGCGACTCC
456 TGCAGACCTAAAACTATTTTCAAGGTGATCCAATCACACCACAATAAAAGATCGGTGGCGACTCC
29631911 CATTTTCATTTTGAATAAGTCGATAACAAAACTTTTTTGTTTTTCAAAAAATGGTTTCGACACCT
521 CATTTTCATTTTGAATAAGTCGATAACAAAACTTTTTTGTTTTTCAAAAAATGGTTTCGACACCT
29631976 GTGCTTTGTGCGAGACAGATCCTTGATGTTCCCAACTTTCAATTTAATGACCTCCGCTATCCTCG
586 GTGCTTTGTGCGAGACAGATCCTTGATGTTCCCAACTTTCAATTTAATGACCTCCGCTATCCTCG
29632041 TACCACAAATCCTTCGAGTTTGGCCTTGAACAATTATGAATAAAAAACAGAACAAGAAACAATTT
651 TACCACAAATCCTTCGAGTTTGGCCTTGAACAATTATGAATAAAAAACAGAACAAGAAACAATTT
29632106 TATTAATTTCAATAGGAAAGTAAGTCTCTCTCTTTTATAGAAACCGATATAATTGTTATTCCCAG
716 TATTAATTTCAATAGGAAAGTAAGTCTCTCTCTTTTATAGAAACCGATATAATTGTTATTCCCAG
29632171 AAAATAGAATTTATACTTAGAAATAAATTCTCACTATTT
781 AAAATAGAATTTATACTTAGAAATAAATTCTCACTATTT
29632210 TTGGGAAAAA
Statistics
Matches: 819, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
819 819 1.00
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (819 bp):
ATGTTGTGTCCTAACGCATTGGATATGACATGTTATTTTCTCGAGGCGCGGATTTTTTCTAATAG
ATGAAAATAAAGTCAATATTTGATATTTAGGAGTTTTGTGAAATCGAGCCCTAACTTTCTGGGTT
TTGATTTTCTCATTTGACCCAAATAATCAAATATCCTTCTCAAAATGCATAAGTTTTAAAGGTCA
AGAGATAAACTTAATTTTGAGGATTTAAAATGTCGTACTTTAACTTACTGAATGTGACAATTTAT
TTCTTCGAAATAAGTGATCCTTACCATCCAATTCATTTTACTCAAATTTTCTTTTCAAAGGATCG
TATTTTAAAATATTTTCAAAATTTCAACATTAAGACATTAAACAATCAATTCAGTACCAATTTTG
GGCGTCACGAGGGTGCTAACCCTTCCTCGTGCGTAACAGACTCCCAAACCTATTTTCTCAAAATT
TGCAGACCTAAAACTATTTTCAAGGTGATCCAATCACACCACAATAAAAGATCGGTGGCGACTCC
CATTTTCATTTTGAATAAGTCGATAACAAAACTTTTTTGTTTTTCAAAAAATGGTTTCGACACCT
GTGCTTTGTGCGAGACAGATCCTTGATGTTCCCAACTTTCAATTTAATGACCTCCGCTATCCTCG
TACCACAAATCCTTCGAGTTTGGCCTTGAACAATTATGAATAAAAAACAGAACAAGAAACAATTT
TATTAATTTCAATAGGAAAGTAAGTCTCTCTCTTTTATAGAAACCGATATAATTGTTATTCCCAG
AAAATAGAATTTATACTTAGAAATAAATTCTCACTATTT
Found at i:29636788 original size:38 final size:38
Alignment explanation
Indices: 29636737--29636809 Score: 128
Period size: 38 Copynumber: 1.9 Consensus size: 38
29636727 TATTGTTGCC
*
29636737 AAGAAGTGTCATTGTCACCCCAATCATCTAGCTTGTGT
1 AAGAAATGTCATTGTCACCCCAATCATCTAGCTTGTGT
*
29636775 AAGAAATGTCATTGTCACCCCTATCATCTAGCTTG
1 AAGAAATGTCATTGTCACCCCAATCATCTAGCTTG
29636810 CATTATTCCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (38 bp):
AAGAAATGTCATTGTCACCCCAATCATCTAGCTTGTGT
Found at i:29639165 original size:23 final size:23
Alignment explanation
Indices: 29639137--29639190 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
29639127 TTATCCACAT
29639137 TCTACTGGCAGTTCATCTGCAAA
1 TCTACTGGCAGTTCATCTGCAAA
* * *
29639160 TCTACTAGCGGTTCATCTGCATA
1 TCTACTGGCAGTTCATCTGCAAA
29639183 TCTACTGG
1 TCTACTGG
29639191 TGGTATATCC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.33
Consensus pattern (23 bp):
TCTACTGGCAGTTCATCTGCAAA
Found at i:29648719 original size:26 final size:26
Alignment explanation
Indices: 29648662--29648719 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
29648652 TTTTATACTC
* *
29648662 TATTTTTAAGATATGTTTCCAAGTTA
1 TATTTTTAAGATATGTTTCAAAGATA
** * *
29648688 CGTTTTTAAGCTATGTTTTAAAGATA
1 TATTTTTAAGATATGTTTCAAAGATA
29648714 TATTTT
1 TATTTT
29648720 ACACGTGCTC
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.07, G:0.12, T:0.52
Consensus pattern (26 bp):
TATTTTTAAGATATGTTTCAAAGATA
Found at i:29654046 original size:14 final size:14
Alignment explanation
Indices: 29654027--29654053 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
29654017 GCTACCATGT
29654027 TACTATTATGTTGC
1 TACTATTATGTTGC
29654041 TACTATTATGTTG
1 TACTATTATGTTG
29654054 TTATTGTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.11, G:0.15, T:0.52
Consensus pattern (14 bp):
TACTATTATGTTGC
Found at i:29654295 original size:12 final size:13
Alignment explanation
Indices: 29654274--29654308 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
29654264 ATATATATTT
29654274 AAAATT-ATAT-A
1 AAAATTAATATAA
29654285 AAAATTAATATAA
1 AAAATTAATATAA
29654298 AAAATTAATAT
1 AAAATTAATAT
29654309 GGGCAGGCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 6 0.27
12 4 0.18
13 12 0.55
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
AAAATTAATATAA
Found at i:29656236 original size:25 final size:25
Alignment explanation
Indices: 29656208--29656259 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
29656198 TTCATTTATA
*
29656208 TTTCACCAGTCCCGTCTGTTTAAGT
1 TTTCACCAGTCCCGTATGTTTAAGT
29656233 TTTCACCAGTCCCGTATGTTTAAGT
1 TTTCACCAGTCCCGTATGTTTAAGT
29656258 TT
1 TT
29656260 ACTGATTCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.17, C:0.25, G:0.15, T:0.42
Consensus pattern (25 bp):
TTTCACCAGTCCCGTATGTTTAAGT
Found at i:29657229 original size:38 final size:39
Alignment explanation
Indices: 29657172--29657362 Score: 119
Period size: 38 Copynumber: 4.9 Consensus size: 39
29657162 ATATTTTTTA
* *
29657172 GTATCATATATTATG-ATTTTAGTAAATTCATATAAGAAT
1 GTATAATATATTAAGAATTTTAGTAAATT-ATATAAGAAT
* **
29657211 GT-TAAT-TATTAAGAATTTTATTAAATTATATATTTTAAT
1 GTATAATATATTAAGAATTTTAGTAAATTATATA--AGAAT
* * * ***
29657250 -TATAATATATTTAACAATAATTATGTTAAATTATCT-TTTAT
1 GTATAATATA-TTAAGAAT-TTTA-G-TAAATTATATAAGAAT
* *
29657291 AGTATCATATATTATG-ATTTTAGTAAATTCATATAAGAAT
1 -GTATAATATATTAAGAATTTTAGTAAATT-ATATAAGAAT
*
29657331 GT-TAAT-TATTAAGAATTTTATTAAATTATATA
1 GTATAATATATTAAGAATTTTAGTAAATTATATA
29657363 TTTTAATTAT
Statistics
Matches: 117, Mismatches: 21, Indels: 30
0.70 0.12 0.18
Matches are distributed among these distances:
37 22 0.19
38 37 0.32
39 15 0.13
40 7 0.06
41 13 0.11
42 6 0.05
43 8 0.07
44 9 0.08
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.48
Consensus pattern (39 bp):
GTATAATATATTAAGAATTTTAGTAAATTATATAAGAAT
Found at i:29657259 original size:120 final size:120
Alignment explanation
Indices: 29657125--29657401 Score: 484
Period size: 120 Copynumber: 2.3 Consensus size: 120
29657115 TTATTTAATA
* * *
29657125 TTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATATTTTTTAGTATCATATATTATGAT
1 TTAATTATAATATATTTAATAATAATTATGTT-AAATTATATTTTATAGTATCATATATTATGAT
29657189 TTTAGTAAATTCATATAAGAATGTTAATTATTAAGAATTTTATTAAATTATATATT
65 TTTAGTAAATTCATATAAGAATGTTAATTATTAAGAATTTTATTAAATTATATATT
* *
29657245 TTAATTATAATATATTTAACAATAATTATGTTAAATTATCTTTTATAGTATCATATATTATGATT
1 TTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATT
29657310 TTAGTAAATTCATATAAGAATGTTAATTATTAAGAATTTTATTAAATTATATATT
66 TTAGTAAATTCATATAAGAATGTTAATTATTAAGAATTTTATTAAATTATATATT
29657365 TTAATTATAATATATTTAATAATAATTATGTTTAAAT
1 TTAATTATAATATATTTAATAATAATTATG-TTAAAT
29657402 ATGATTAAAT
Statistics
Matches: 149, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
120 141 0.95
121 8 0.05
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
TTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATT
TTAGTAAATTCATATAAGAATGTTAATTATTAAGAATTTTATTAAATTATATATT
Found at i:29657361 original size:59 final size:59
Alignment explanation
Indices: 29657178--29657361 Score: 168
Period size: 54 Copynumber: 3.1 Consensus size: 59
29657168 TTTAGTATCA
29657178 TATATTATGATTTTAGTAAATTCATATAAGAATGTTAATTATTAAGAATTTTATTAAAT
1 TATATTATGATTTTAGTAAATTCATATAAGAATGTTAATTATTAAGAATTTTATTAAAT
* * * * * *
29657237 TATA-TAT--TTTAATTATAATAT-ATTTAACAA---TAATTATGTTA-AATTATCTTTTATAGT
1 TATATTATGATTTTAGTA-AAT-TCATATAAGAATGTTAATTAT-TAAGAATT-T-TATTA-A--
29657294 AT
58 AT
29657296 CATATATTATGATTTTAGTAAATTCATATAAGAATGTTAATTATTAAGAATTTTATTAAAT
1 --TATATTATGATTTTAGTAAATTCATATAAGAATGTTAATTATTAAGAATTTTATTAAAT
29657357 TATAT
1 TATAT
29657362 ATTTTAATTA
Statistics
Matches: 95, Mismatches: 12, Indels: 36
0.66 0.08 0.25
Matches are distributed among these distances:
54 11 0.12
55 3 0.03
56 10 0.11
57 11 0.12
58 4 0.04
59 11 0.12
61 6 0.06
62 4 0.04
63 11 0.12
64 10 0.11
65 3 0.03
66 11 0.12
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.49
Consensus pattern (59 bp):
TATATTATGATTTTAGTAAATTCATATAAGAATGTTAATTATTAAGAATTTTATTAAAT
Found at i:29657362 original size:61 final size:61
Alignment explanation
Indices: 29657177--29657364 Score: 199
Period size: 61 Copynumber: 3.1 Consensus size: 61
29657167 TTTTAGTATC
29657177 ATATATTATGATTTTAGTAAATTCATATAAGAATGTTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTTAGTAAATTCATATAAGAATGTTAATTATTAAGAATTTTATTAAATT
* * * * * ** ** * *
29657238 ATATATTTTAATTATAATATATTTAACA-ATAATTATGTTAA--ATT-A-TCTTTTA-TAGTATC
1 ATATATTATGATTTTAGTA-AATT--CATATAAGAATGTTAATTATTAAGAATTTTATTA-AATT
29657297 ATATATTATGATTTTAGTAAATTCATATAAGAATGTTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTTAGTAAATTCATATAAGAATGTTAATTATTAAGAATTTTATTAAATT
29657358 ATATATT
1 ATATATT
29657365 TTAATTATAA
Statistics
Matches: 95, Mismatches: 22, Indels: 20
0.69 0.16 0.15
Matches are distributed among these distances:
56 2 0.02
57 11 0.12
58 5 0.05
59 25 0.26
60 2 0.02
61 32 0.34
62 5 0.05
63 11 0.12
64 2 0.02
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTTAGTAAATTCATATAAGAATGTTAATTATTAAGAATTTTATTAAATT
Found at i:29657379 original size:16 final size:16
Alignment explanation
Indices: 29657358--29657399 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
29657348 TTATTAAATT
*
29657358 ATATATTTTAATTATA
1 ATATATTTTAATAATA
29657374 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
29657389 AT-TATGTTTAA
1 ATATAT-TTTAA
29657400 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:29657384 original size:15 final size:15
Alignment explanation
Indices: 29657349--29657390 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
29657339 TTAAGAATTT
*
29657349 TATTAAATTAT-ATA
1 TATTTAATTATAATA
29657363 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
29657377 TATTTAATAATAAT
1 TATTTAATTATAAT
29657391 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:29659490 original size:147 final size:147
Alignment explanation
Indices: 29659148--29659502 Score: 392
Period size: 147 Copynumber: 2.4 Consensus size: 147
29659138 TACTTAACCG
* * * ** * *
29659148 ATGTTAATTATATATATTATAATCTACCATAAAGTTAGTTACACATTCAAAATTTAAGGTTATGC
1 ATGTTAATTGTATATATTATAATCTACCATAAAGTTAGTTACACGTTTAAGGTTTAAGTTTACGC
* * * * *
29659213 ATCATTAATATAAAATTGTACATTATAATATCATAATTGTGCATAGTGTTACATATCATTAATAA
66 ATCATTAATATAAAATTGTAAATTACAATAACATAATTGTACATAGTGATACATATCATTAATAA
*
29659278 TCTACCTTAATTGAATA
131 TCTACATTAATTGAATA
* * * * * * *
29659295 ATGCTACTTGCATATATTATAATCTACCATAAAGTTAGTTCCATGTTTAGGGTTTAAGTTTACGT
1 ATGTTAATTGTATATATTATAATCTACCATAAAGTTAGTTACACGTTTAAGGTTTAAGTTTACGC
* * *
29659360 ATCATTAATATTAAAA-TGTAAATTACAATAACATAGTTGTATATAG-GAATACATATCATTGAT
66 ATCATTAATA-TAAAATTGTAAATTACAATAACATAATTGTACATAGTG-ATACATATCATTAAT
*
29659423 AATCTATATTAATT-ATATA
129 AATCTACATTAATTGA-ATA
* * * * * *
29659442 ATGTTAGTTGTATATATTATAATTTACCATAAAATTAGTTTCGCGTTTAAGGTTTAGGTTT
1 ATGTTAATTGTATATATTATAATCTACCATAAAGTTAGTTACACGTTTAAGGTTTAAGTTT
29659503 CATATTACTA
Statistics
Matches: 171, Mismatches: 34, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
146 2 0.01
147 164 0.96
148 5 0.03
ACGTcount: A:0.38, C:0.10, G:0.11, T:0.41
Consensus pattern (147 bp):
ATGTTAATTGTATATATTATAATCTACCATAAAGTTAGTTACACGTTTAAGGTTTAAGTTTACGC
ATCATTAATATAAAATTGTAAATTACAATAACATAATTGTACATAGTGATACATATCATTAATAA
TCTACATTAATTGAATA
Found at i:29666404 original size:173 final size:173
Alignment explanation
Indices: 29666115--29666463 Score: 698
Period size: 173 Copynumber: 2.0 Consensus size: 173
29666105 CCTATCACAC
29666115 TATCCAGCAATCAATTCAGTAGTTTTTGAGCATTTTGGCCAAGGTTTATAATGGCATGTATAGGA
1 TATCCAGCAATCAATTCAGTAGTTTTTGAGCATTTTGGCCAAGGTTTATAATGGCATGTATAGGA
29666180 CGTTATGTAATGGTGATTTTGATGTTTATGTTTTAAAGTTTGTGTTGATTTGGTAATTTGCAATG
66 CGTTATGTAATGGTGATTTTGATGTTTATGTTTTAAAGTTTGTGTTGATTTGGTAATTTGCAATG
29666245 TCTTACCAAAGTATGACTTTTGGGTCACTTATAAGTGCATGTA
131 TCTTACCAAAGTATGACTTTTGGGTCACTTATAAGTGCATGTA
29666288 TATCCAGCAATCAATTCAGTAGTTTTTGAGCATTTTGGCCAAGGTTTATAATGGCATGTATAGGA
1 TATCCAGCAATCAATTCAGTAGTTTTTGAGCATTTTGGCCAAGGTTTATAATGGCATGTATAGGA
29666353 CGTTATGTAATGGTGATTTTGATGTTTATGTTTTAAAGTTTGTGTTGATTTGGTAATTTGCAATG
66 CGTTATGTAATGGTGATTTTGATGTTTATGTTTTAAAGTTTGTGTTGATTTGGTAATTTGCAATG
29666418 TCTTACCAAAGTATGACTTTTGGGTCACTTATAAGTGCATGTA
131 TCTTACCAAAGTATGACTTTTGGGTCACTTATAAGTGCATGTA
29666461 TAT
1 TAT
29666464 AAGGTTATTT
Statistics
Matches: 176, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
173 176 1.00
ACGTcount: A:0.26, C:0.10, G:0.22, T:0.42
Consensus pattern (173 bp):
TATCCAGCAATCAATTCAGTAGTTTTTGAGCATTTTGGCCAAGGTTTATAATGGCATGTATAGGA
CGTTATGTAATGGTGATTTTGATGTTTATGTTTTAAAGTTTGTGTTGATTTGGTAATTTGCAATG
TCTTACCAAAGTATGACTTTTGGGTCACTTATAAGTGCATGTA
Found at i:29668123 original size:19 final size:19
Alignment explanation
Indices: 29668099--29668146 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
29668089 TTGTTTAAGT
* *
29668099 TTAATATATTTTAATTTTA
1 TTAATATATTTCAATATTA
29668118 TTAATACTATTTCAATATTA
1 TTAATA-TATTTCAATATTA
29668138 -TAATATATT
1 TTAATATATT
29668147 ATTATTTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 4 0.15
19 11 0.42
20 11 0.42
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (19 bp):
TTAATATATTTCAATATTA
Found at i:29668503 original size:29 final size:29
Alignment explanation
Indices: 29668471--29668550 Score: 83
Period size: 29 Copynumber: 2.7 Consensus size: 29
29668461 ATTTTATCTC
29668471 TTTCAAATATTTTAACATTTTTTAATTTA
1 TTTCAAATATTTTAACATTTTTTAATTTA
* * * *
29668500 TTTCAACTTATTTCAATA-TTGTTAATTTA
1 TTTCAA-ATATTTTAACATTTTTTAATTTA
29668529 TTT-AAATTTATTTTAACATTTT
1 TTTCAAA--TATTTTAACATTTT
29668551 AATTCATATA
Statistics
Matches: 39, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
28 2 0.05
29 27 0.69
30 10 0.26
ACGTcount: A:0.33, C:0.07, G:0.01, T:0.59
Consensus pattern (29 bp):
TTTCAAATATTTTAACATTTTTTAATTTA
Found at i:29674012 original size:17 final size:17
Alignment explanation
Indices: 29673958--29674199 Score: 184
Period size: 17 Copynumber: 14.4 Consensus size: 17
29673948 GACACAATTT
*
29673958 GCATAT-AACACAATTC
1 GCATATAAACACAACTC
* **
29673974 ACATATAAA-ACGGCTC
1 GCATATAAACACAACTC
*
29673990 GCATATAAACACAACTT
1 GCATATAAACACAACTC
29674007 GCATATAAACACAACTC
1 GCATATAAACACAACTC
* * *
29674024 GTATATAAACACATCTT
1 GCATATAAACACAACTC
*
29674041 GCATATAAACACATCTC
1 GCATATAAACACAACTC
* * *
29674058 ACATATAAACATAGCTC
1 GCATATAAACACAACTC
* * *
29674075 GTATATAAACATAGCTC
1 GCATATAAACACAACTC
**
29674092 GCATATAAACACAGTTC
1 GCATATAAACACAACTC
* * *
29674109 GAATATAAATACATCT-
1 GCATATAAACACAACTC
* * *
29674125 GACATATAAACATAGCTA
1 G-CATATAAACACAACTC
*
29674143 GCATATAAACACAGCTC
1 GCATATAAACACAACTC
* * * *
29674160 ACATATAAACATAGCTA
1 GCATATAAACACAACTC
* *
29674177 GCATATAAATATAACTC
1 GCATATAAACACAACTC
29674194 GCATAT
1 GCATAT
29674200 TGTCATAGTT
Statistics
Matches: 183, Mismatches: 39, Indels: 7
0.80 0.17 0.03
Matches are distributed among these distances:
16 18 0.10
17 164 0.90
18 1 0.01
ACGTcount: A:0.45, C:0.22, G:0.08, T:0.25
Consensus pattern (17 bp):
GCATATAAACACAACTC
Found at i:29674035 original size:34 final size:34
Alignment explanation
Indices: 29673987--29674199 Score: 205
Period size: 34 Copynumber: 6.3 Consensus size: 34
29673977 TATAAAACGG
*
29673987 CTCGCATATAAACACAACTTGCATATAAACACAA
1 CTCGCATATAAACACAGCTTGCATATAAACACAA
* * *
29674021 CTCGTATATAAACACATCTTGCATATAAACACAT
1 CTCGCATATAAACACAGCTTGCATATAAACACAA
* * * * * *
29674055 CTCACATATAAACATAGCTCGTATATAAACATAG
1 CTCGCATATAAACACAGCTTGCATATAAACACAA
* * *
29674089 CTCGCATATAAACACAG-TTCGAATATAAATACAT
1 CTCGCATATAAACACAGCTT-GCATATAAACACAA
* * *
29674123 CT-GACATATAAACATAGCTAGCATATAAACACAG
1 CTCG-CATATAAACACAGCTTGCATATAAACACAA
* * * * *
29674157 CTCACATATAAACATAGCTAGCATATAAATATAA
1 CTCGCATATAAACACAGCTTGCATATAAACACAA
29674191 CTCGCATAT
1 CTCGCATAT
29674200 TGTCATAGTT
Statistics
Matches: 147, Mismatches: 28, Indels: 8
0.80 0.15 0.04
Matches are distributed among these distances:
33 2 0.01
34 144 0.98
35 1 0.01
ACGTcount: A:0.45, C:0.22, G:0.08, T:0.25
Consensus pattern (34 bp):
CTCGCATATAAACACAGCTTGCATATAAACACAA
Found at i:29674182 original size:51 final size:51
Alignment explanation
Indices: 29673986--29674199 Score: 225
Period size: 51 Copynumber: 4.2 Consensus size: 51
29673976 ATATAAAACG
* ** * * *
29673986 GCTCGCATATAAACACAACTTGCATATAAACACAACTCGTATATAAACACA
1 GCTCGCATATAAACACAGCTCACATATAAACACAGCTCGCATATAAACATA
* * * * *
29674037 TCTTGCATATAAACACATCTCACATATAAACATAGCTCGTATATAAACATA
1 GCTCGCATATAAACACAGCTCACATATAAACACAGCTCGCATATAAACATA
* * *
29674088 GCTCGCATATAAACACAGTTCGA-ATATAAATACATCT-GACATATAAACATA
1 GCTCGCATATAAACACAGCTC-ACATATAAACACAGCTCG-CATATAAACATA
* * * *
29674139 GCTAGCATATAAACACAGCTCACATATAAACATAGCTAGCATATAAATATA
1 GCTCGCATATAAACACAGCTCACATATAAACACAGCTCGCATATAAACATA
*
29674190 ACTCGCATAT
1 GCTCGCATAT
29674200 TGTCATAGTT
Statistics
Matches: 135, Mismatches: 24, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
50 2 0.01
51 131 0.97
52 2 0.01
ACGTcount: A:0.44, C:0.22, G:0.08, T:0.25
Consensus pattern (51 bp):
GCTCGCATATAAACACAGCTCACATATAAACACAGCTCGCATATAAACATA
Found at i:29677523 original size:25 final size:25
Alignment explanation
Indices: 29677372--29677524 Score: 104
Period size: 25 Copynumber: 6.2 Consensus size: 25
29677362 AAGCTCTTAC
29677372 GAGCCA-ATTATCGAGAAGCTCAT-A
1 GAGCCATA-TATCGAGAAGCTCATGA
* * *
29677396 CGAGCCATA-AACGGGAAGCTCAAGA
1 -GAGCCATATATCGAGAAGCTCATGA
*
29677421 GAGCCAT-TAATCG-GAAAGCTCATGG
1 GAGCCATAT-ATCGAG-AAGCTCATGA
* * * *
29677446 GAGCCAAATATCGAGAAGATCGTAA
1 GAGCCATATATCGAGAAGCTCATGA
* *
29677471 GAGACATATATC-AGGAAGCTC-CGAA
1 GAGCCATATATCGA-GAAGCTCATG-A
*
29677496 GAGCCATATATCGAGATGCTCATGA
1 GAGCCATATATCGAGAAGCTCATGA
29677521 GAGC
1 GAGC
29677525 TAATAACGGG
Statistics
Matches: 98, Mismatches: 19, Indels: 22
0.71 0.14 0.16
Matches are distributed among these distances:
24 20 0.20
25 73 0.74
26 5 0.05
ACGTcount: A:0.37, C:0.20, G:0.25, T:0.17
Consensus pattern (25 bp):
GAGCCATATATCGAGAAGCTCATGA
Found at i:29684077 original size:23 final size:23
Alignment explanation
Indices: 29684046--29684096 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
29684036 ACCTACTTTC
*
29684046 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGGGGTA
29684069 TTACAGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGGGGTA
29684092 TTACA
1 TTACA
29684097 AAAGTCAACA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.25, C:0.10, G:0.24, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGGTA
Found at i:29684688 original size:36 final size:36
Alignment explanation
Indices: 29684641--29684712 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
29684631 GCAACACTAG
29684641 GATTCACCACTAGATACGTTAAGTTTCTGCTCTTAT
1 GATTCACCACTAGATACGTTAAGTTTCTGCTCTTAT
29684677 GATTCACCACTAGATACGTTAAGTTTCTGCTCTTAT
1 GATTCACCACTAGATACGTTAAGTTTCTGCTCTTAT
29684713 ACCAATTATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (36 bp):
GATTCACCACTAGATACGTTAAGTTTCTGCTCTTAT
Found at i:29685535 original size:4 final size:4
Alignment explanation
Indices: 29685526--29685590 Score: 130
Period size: 4 Copynumber: 16.2 Consensus size: 4
29685516 TTGCCTCAAC
29685526 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
29685574 ATGT ATGT ATGT ATGT A
1 ATGT ATGT ATGT ATGT A
29685591 ATACAAGTTT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 61 1.00
ACGTcount: A:0.26, C:0.00, G:0.25, T:0.49
Consensus pattern (4 bp):
ATGT
Found at i:29692093 original size:31 final size:31
Alignment explanation
Indices: 29692058--29692119 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
29692048 TATACATTCC
29692058 CTATTTAGGGATTTGTTATGGAAAGATATTA
1 CTATTTAGGGATTTGTTATGGAAAGATATTA
29692089 CTATTTAGGGATTTGTTATGGAAAGATATTA
1 CTATTTAGGGATTTGTTATGGAAAGATATTA
29692120 TGTAATGTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.03, G:0.23, T:0.42
Consensus pattern (31 bp):
CTATTTAGGGATTTGTTATGGAAAGATATTA
Found at i:29703523 original size:6 final size:6
Alignment explanation
Indices: 29703512--29703542 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
29703502 ACTTGTTTTT
*
29703512 GAAAAC GAAAAC GAAAAC GAAAAC AAAAAC G
1 GAAAAC GAAAAC GAAAAC GAAAAC GAAAAC G
29703543 GGAGTCGCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.68, C:0.16, G:0.16, T:0.00
Consensus pattern (6 bp):
GAAAAC
Found at i:29706410 original size:40 final size:41
Alignment explanation
Indices: 29706308--29707019 Score: 227
Period size: 40 Copynumber: 16.7 Consensus size: 41
29706298 TGTGGTTTTG
* * **
29706308 TCTGCTCCACTACTGCTTAGAGAGATAAGATCTGTGGTTTTG-
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGATGCGA
*
29706350 TTTGCTCCACTACTGCTTAGGGAGATAAGACTT-GATGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGGATGCGA
* * ***
29706390 TCTGTTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGATGCGA
* * ** * *
29706433 TCTGCTCTACTGCAACTTCAGGGAGATAGGA-TTGGTTTTTGTTCCG-
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGG---ATG---CGA
* *
29706479 TCTGCTCCACTACTGCTTAGGTAGATAAGACTT-GATACGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGGATGCGA
* ** ***
29706519 TCTGCTCCACTACTGTTTAGGGAGATAAGATCTGTGTTTTTTA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGATGCGA
* * ** * * *
29706562 TCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTGGTTTCTTCCG-
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGG----ATGCGA
* * ** * *
29706606 TCTGTTCCACTGCAACTTCAGGGAGGTAAGAC-TAGATGCGA
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGGATGCGA
* * ** * * * ***
29706647 TCTGCTCTACTGCAACTTTAGAGAGATATGA-TCTGTGTTTTTA
1 TCTGCTCCACTACTGC-TTAGGGAGATAAGACT-TG-GATGCGA
* * **
29706690 TCTGCTCCACTACTACTTAGGGAGATAAGATCTGTGGTTTTG-
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGATGCGA
* ***
29706732 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGATGCGA
* * * * * *
29706775 TCCGCTCCACT-GTAACTTCAGGGAGATAGGA-TTGGTTTTTTTTCCG-
1 TCTGCTCCACTACT-GCTT-AGGGAGATAAGACTTGG------ATGCGA
*
29706821 TCTGCTCCACTACTGCTTAGGAAGATAAGACTT-GATGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGGATGCGA
* * ***
29706861 TCTACTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGATGCGA
* * * * * *
29706904 TCCGCTCCACT-GTAACTTCAGGGAGATAGGA-TTGGTTTTTTTTCCG-
1 TCTGCTCCACTACT-GCTT-AGGGAGATAAGACTTGG------ATGCGA
*
29706950 TCTGCTCCACTACTGCTTAGGAAGATAAGACTT-GATGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGGATGCGA
*
29706990 TCTACTCCACTACTGCTTAGGGAGATAAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA
29707020 TCTGTGGTTT
Statistics
Matches: 507, Mismatches: 108, Indels: 112
0.70 0.15 0.15
Matches are distributed among these distances:
39 11 0.02
40 116 0.23
41 42 0.08
42 93 0.18
43 80 0.16
44 78 0.15
45 35 0.07
46 46 0.09
47 6 0.01
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (41 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGGATGCGA
Found at i:29706507 original size:129 final size:127
Alignment explanation
Indices: 29706243--29706761 Score: 518
Period size: 129 Copynumber: 4.1 Consensus size: 127
29706233 CTGCAACTTC
* * * * ** * *
29706243 AGGGAGGTAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATATGATCTGTGG-TTTT
1 AGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTT-AGGGAGATAAGATCTGTGGTTTTT
* * ** * * * *
29706307 GTCTGCTCCACTACTGCTT-AGAGAGATAAGATCT-GTGGTTTT--GTTTGCTCCACTACTGCTT
65 ATCTGCTCCACTGCAACTTCAGGGAGATAGGAT-TGGT-TTTTTCCGTCTGCTCCACTACTGCTT
* *
29706368 AGGGAGATAAGACTTGATGCGATCTGTTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAA
1 AGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTTA
*
29706433 TCTGCTCTACTGCAACTTCAGGGAGATAGGATTGGTTTTTGTTCCGTCTGCTCCACTACTGCTT
66 TCTGCTCCACTGCAACTTCAGGGAGATAGGATTGG-TTTT-TTCCGTCTGCTCCACTACTGCTT
* * * *
29706497 AGGTAGATAAGACTTGATACGATCTGCTCCACTACTGTTTAGGGAGATAAGATCTGTGTTTTTTA
1 AGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTTA
* * * * **
29706562 TCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCCGTCTGTTCCACTGCAACTT
66 TCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTTTTCCGTCTGCTCCACTACTGCTT
* * * * ** * *
29706624 CAGGGAGGTAAGACTAGATGCGATCTGCTCTACTGCAACTTTAGAGAGATATGATCTGT-GTTTT
1 -AGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGC-TTAGGGAGATAAGATCTGTGGTTTT
* * * *
29706688 TATCTGCTCCACTACTACTT-AGGGAGATAAGATCT-GTGGTTTT--GTCTGCTCCACTACTGCT
64 TATCTGCTCCACTGCAACTTCAGGGAGATAGGAT-TGGT-TTTTTCCGTCTGCTCCACTACTGCT
29706749 T
127 T
29706750 AGGGAGATAAGA
1 AGGGAGATAAGA
29706762 TCTGTGGTTT
Statistics
Matches: 328, Mismatches: 55, Indels: 22
0.81 0.14 0.05
Matches are distributed among these distances:
124 17 0.05
125 62 0.19
126 29 0.09
127 36 0.11
128 57 0.17
129 127 0.39
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.33
Consensus pattern (127 bp):
AGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTTA
TCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTTTTCCGTCTGCTCCACTACTGCTT
Found at i:29707024 original size:342 final size:339
Alignment explanation
Indices: 29706312--29707031 Score: 1066
Period size: 342 Copynumber: 2.1 Consensus size: 339
29706302 GTTTTGTCTG
* * *
29706312 CTCCACTACTGCTTAGAGAGATAAGATCTGTGGTTTTGTTTGCTCCACTACTGCTTAGGGAGATA
1 CTCCACTACTGCTTAGAGAGATAAGATCTGTGGTTTTATCTGCTCCACTACTACTTAGGGAGATA
* * *
29706377 AGACTTGATGCGATCTGTTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCTGCTCTA
66 AGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCA
*
29706442 CTGCAACTTCAGGGAGATAGGATTGGTTTTTGTTCCGTCTGCTCCACTACTGCTTAGGTAGATAA
131 CTGCAACTTCAGGGAGATAGGATTGGTTTTTGTTCCGTCTGCTCCACTACTGCTTAGGAAGATAA
* * * *
29706507 GACTTGATACGATCTGCTCCACTACTGTTTAGGGAGATAAGATCTGTGTTTTTTATCCGCTCCAC
196 GACTTGATACGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCAC
* * * *
29706572 TGCAACTTCAGGGAGATAGGATTGGTTTCTTCCGTCTGTTCCACTGCAACTTCAGGGAGGTAAGA
261 TGCAACTTCAGGGAGATAGGATTGGTTTCTTCCGTCTGCTCCACTACAACTTCAGGAAGATAAGA
*
29706637 CTAGATGCGATCTG
326 CTAGATGCGATCTA
* * ** * *
29706651 CTCTACTGCAACTTTAGAGAGATATGATCTGTGTTTTTATCTGCTCCACTACTACTTAGGGAGAT
1 CTCCACTACTGC-TTAGAGAGATAAGATCTGTGGTTTTATCTGCTCCACTACTACTTAGGGAGAT
* **
29706716 AAGATCTGTGGTTTTG-TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGC
65 AAGA-CT-T-GATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGC
* *
29706780 TCCACTGTAACTTCAGGGAGATAGGATTGGTTTTTTTTCCGTCTGCTCCACTACTGCTTAGGAAG
127 TCCACTGCAACTTCAGGGAGATAGGATTGGTTTTTGTTCCGTCTGCTCCACTACTGCTTAGGAAG
*
29706845 ATAAGACTTGATGCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCT
192 ATAAGACTTGATACGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCT
* * **
29706910 CCACTGTAACTTCAGGGAGATAGGATTGGTTTTTTTTCCGTCTGCTCCACTACTGCTT-AGGAAG
257 CCACTGCAACTTCAGGGAGATAGGATTGG--TTTCTTCCGTCTGCTCCACTACAACTTCAGGAAG
*
29706974 ATAAGACTTGATGCGATCTA
320 ATAAGACTAGATGCGATCTA
*
29706994 CTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTA
1 CTCCACTACTGCTTAGAGAGATAAGATCTGTGGTTTTA
29707032 ATCCGCTACA
Statistics
Matches: 335, Mismatches: 40, Indels: 9
0.87 0.10 0.02
Matches are distributed among these distances:
339 8 0.02
340 51 0.15
341 2 0.01
342 219 0.65
343 33 0.10
344 22 0.07
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (339 bp):
CTCCACTACTGCTTAGAGAGATAAGATCTGTGGTTTTATCTGCTCCACTACTACTTAGGGAGATA
AGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCA
CTGCAACTTCAGGGAGATAGGATTGGTTTTTGTTCCGTCTGCTCCACTACTGCTTAGGAAGATAA
GACTTGATACGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCAC
TGCAACTTCAGGGAGATAGGATTGGTTTCTTCCGTCTGCTCCACTACAACTTCAGGAAGATAAGA
CTAGATGCGATCTA
Found at i:29707045 original size:40 final size:40
Alignment explanation
Indices: 29706664--29707045 Score: 131
Period size: 42 Copynumber: 9.0 Consensus size: 40
29706654 TACTGCAACT
* * * * *
29706664 TTAGAGAGATATGATCTGT-GTTTTTATCTGCTCCACTACTAC
1 TTAGGGAGATAAGATCTGTGGTTTTAATCCGCT--AC-ACTGC
* *
29706706 TTAGGGAGATAAGATCTGTGGTTTT-GTCTGCTCCACTACTGC
1 TTAGGGAGATAAGATCTGTGGTTTTAATCCGCT--AC-ACTGC
*
29706748 TTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGTAAC
1 TTAGGGAGATAAGATCTGTGGTTTTAATCCGCTACACTG---C
* * **
29706791 TTCAGGGAGATAGGAT-TG-GTTTTTTTTCCGTCTGCTCCACTACTGC
1 TT-AGGGAGATAAGATCTGTGGTTTTAAT-C--C-GCT--AC-ACTGC
* * * * *
29706837 TTAGGAAGATAAGA-CTTGATGCGATCTACTCCACT--ACTGC
1 TTAGGGAGATAAGATC-TG-TG-GTTTTAATCCGCTACACTGC
*
29706877 TTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGTAAC
1 TTAGGGAGATAAGATCTGTGGTTTTAATCCGCTACACTG---C
* * **
29706920 TTCAGGGAGATAGGAT-TG-GTTTTTTTTCCGTCTGCTCCACTACTGC
1 TT-AGGGAGATAAGATCTGTGGTTTTAAT-C--C-GCT--AC-ACTGC
* * * * *
29706966 TTAGGAAGATAAGA-CTTGATGCGATCTACTCCACT--ACTGC
1 TTAGGGAGATAAGATC-TG-TG-GTTTTAATCCGCTACACTGC
29707006 TTAGGGAGATAAGATCTGTGGTTTTAATCCGCTACACTGC
1 TTAGGGAGATAAGATCTGTGGTTTTAATCCGCTACACTGC
29707046 AACTTCAAGG
Statistics
Matches: 257, Mismatches: 43, Indels: 82
0.67 0.11 0.21
Matches are distributed among these distances:
38 18 0.07
39 4 0.02
40 53 0.21
41 3 0.01
42 69 0.27
43 22 0.09
44 24 0.09
45 26 0.10
46 18 0.07
48 6 0.02
49 14 0.05
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (40 bp):
TTAGGGAGATAAGATCTGTGGTTTTAATCCGCTACACTGC
Found at i:29707104 original size:129 final size:129
Alignment explanation
Indices: 29706690--29707066 Score: 639
Period size: 129 Copynumber: 2.9 Consensus size: 129
29706680 TGTGTTTTTA
* * * ** *
29706690 TCTGCTCCACTACTACTTAGGGAGATAAGATCTGTGGTTTTG-TCTGCTCCACTACTGCTTAGGG
1 TCTGCTCCACTACTGCTTAGGAAGATAAGA-CT-T-GATGCGATCTACTCCACTACTGCTTAGGG
29706754 AGATAAGATCTGTGGTTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTGGTTTTTTTTC
63 AGATAAGATCTGTGGTTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTGGTTTTTTTTC
29706819 CG
128 CG
29706821 TCTGCTCCACTACTGCTTAGGAAGATAAGACTTGATGCGATCTACTCCACTACTGCTTAGGGAGA
1 TCTGCTCCACTACTGCTTAGGAAGATAAGACTTGATGCGATCTACTCCACTACTGCTTAGGGAGA
29706886 TAAGATCTGTGGTTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTGGTTTTTTTTCCG
66 TAAGATCTGTGGTTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTGGTTTTTTTTCCG
29706950 TCTGCTCCACTACTGCTTAGGAAGATAAGACTTGATGCGATCTACTCCACTACTGCTTAGGGAGA
1 TCTGCTCCACTACTGCTTAGGAAGATAAGACTTGATGCGATCTACTCCACTACTGCTTAGGGAGA
* * *
29707015 TAAGATCTGTGGTTTTAATCCGCTACACTGCAACTTCAAGGAGATAGGATTG
66 TAAGATCTGTGGTTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTG
29707067 ATTTCTTTCA
Statistics
Matches: 236, Mismatches: 9, Indels: 4
0.95 0.04 0.02
Matches are distributed among these distances:
128 3 0.01
129 203 0.86
130 2 0.01
131 28 0.12
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.33
Consensus pattern (129 bp):
TCTGCTCCACTACTGCTTAGGAAGATAAGACTTGATGCGATCTACTCCACTACTGCTTAGGGAGA
TAAGATCTGTGGTTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTGGTTTTTTTTCCG
Found at i:29707260 original size:50 final size:50
Alignment explanation
Indices: 29707082--29707834 Score: 346
Period size: 50 Copynumber: 15.1 Consensus size: 50
29707072 TTTCAAATTG
* * * * * * *
29707082 ACTGCAATGTCGGGGAA-CAAGATTTGCCATTGTAGCTTCAATCTGATCT
1 ACTGCAATGCCAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCA
* * ** * *
29707131 ACGGC-ATCGCCAAGGAAGTAAGATTCGCCGTTGCGGCTTTAATCT-TTTA
1 ACTGCAAT-GCCAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCA
* ** * * * *
29707180 ATTGCAATATCGGGGAAG-AAGATTCACCGTTGTAGCTTCAATCTGATCC
1 ACTGCAATGCCAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCA
** *** * *
29707229 ACTGCACCGCCAGGGAAGTAAGATTCGCCGTTACGGCTTCAATCTTTTAA
1 ACTGCAATGCCAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCA
* ** * * * * * * *
29707279 ATTGCAATATCAGGGGAGCAAGATTCGTCGTCGTAGCTTTAATCTGCTCC
1 ACTGCAATGCCAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCA
* * * * * * *
29707329 ACTGTACTGCCAGGGAAGTGAGATTCGCCGTTGTGGCTTCAATGTTTTAA
1 ACTGCAATGCCAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCA
* * ** * * * * * * *
29707379 ATTTCAATATCAGGGAAGCAAGATTCACCATCGTAGCTTTAATCTGCTCC
1 ACTGCAATGCCAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCA
* * * * * * *
29707429 ACTGTACTGCCAGGGAAGTGAGATTCACCGTTGTGGCTTCAATCTTTTAA
1 ACTGCAATGCCAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCA
* ** * * * * * *
29707479 ATTGCAATATCAGGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGCTCC
1 ACTGCAATGCCAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCA
* ** * * * * * *
29707529 ACTGTACCGCTATGGAAGTAAGATTCACCGTTGCAGCTTCAATCTTTTTA
1 ACTGCAATGCCAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCA
* * * * *** * * ** *
29707579 ATTGCAATGTCGGGGAAGCAAGATTTATCGTTGTAGCTTTAATTTACTCC
1 ACTGCAATGCCAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCA
* ** ** * * * * *
29707629 ACTGGACCGTTATGAAAGTAAGATTCGCCGTTGCAGCTTCAATCTTTTTA
1 ACTGCAATGCCAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCA
* * * * * *
29707679 ATTGCAATG-TAGGAGAAGCAAGATTCGCCGTTGTAGCTTTAATCTGCTCC
1 ACTGCAATGCCAGG-GAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCA
* * ** * *
29707729 ACTGCACTGCCATGGAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAA
1 ACTGCAATGCCAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCA
* * * * * * * * *
29707779 ATTGTAATGTCGGGGAAGCAAGATTCGCTGTTGTAGCTTTAATCTGCTCC
1 ACTGCAATGCCAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCA
29707829 ACTGCA
1 ACTGCA
29707835 CTACTAGGGA
Statistics
Matches: 480, Mismatches: 217, Indels: 13
0.68 0.31 0.02
Matches are distributed among these distances:
48 24 0.05
49 36 0.08
50 418 0.87
51 2 0.00
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (50 bp):
ACTGCAATGCCAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCA
Found at i:29707341 original size:100 final size:100
Alignment explanation
Indices: 29707084--29707846 Score: 867
Period size: 100 Copynumber: 7.7 Consensus size: 100
29707074 TCAAATTGAC
* * ** * * * * * *
29707084 TGCAATGTC-GGGGAACAAGATTTGCCATTGTAGCTTCAATCTGATCTACGGCA-TCGCCAAGGA
1 TGCAATATCAGGGGAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCACT-GCCAGGGA
*
29707147 AGTAAGATTCGCCGTTGCGGCTTTAATCTTTT-AAT
65 AGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAT
* * *
29707182 TGCAATATC-GGGGAAG-AAGATTCACCGTTGTAGCTTCAATCTGATCCACTGCACCGCCAGGGA
1 TGCAATATCAGGGG-AGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCACTGCCAGGGA
*
29707245 AGTAAGATTCGCCGTTACGGCTTCAATCTTTTAAAT
65 AGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAT
** * *
29707281 TGCAATATCAGGGGAGCAAGATTCGTCGTCGTAGCTTTAATCTGCTCCACTGTACTGCCAGGGAA
1 TGCAATATCAGGGGAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCACTGCCAGGGAA
* * *
29707346 GTGAGATTCGCCGTTGTGGCTTCAATGTTTTAAAT
66 GTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAT
* * * * *
29707381 TTCAATATCAGGGAAGCAAGATTCACCATCGTAGCTTTAATCTGCTCCACTGTACTGCCAGGGAA
1 TGCAATATCAGGGGAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCACTGCCAGGGAA
* * *
29707446 GTGAGATTCACCGTTGTGGCTTCAATCTTTTAAAT
66 GTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAT
* * * * * *
29707481 TGCAATATCAGGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGCTCCACTGTACCGCTATGGAA
1 TGCAATATCAGGGGAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCACTGCCAGGGAA
* * *
29707546 GTAAGATTCACCGTTGCAGCTTCAATCTTTTTAAT
66 GTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAT
* * * * * * * ** * *
29707581 TGCAATGTC-GGGGAAGCAAGATTTATCGTTGTAGCTTTAATTTACTCCACTGGACCGTTATGAA
1 TGCAATATCAGGGG-AGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCACTGCCAGGGA
* *
29707645 AGTAAGATTCGCCGTTGCAGCTTCAATCTTTTTAAT
65 AGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAT
* * * *
29707681 TGCAATGT-AGGAGAAGCAAGATTCGCCGTTGTAGCTTTAATCTGCTCCACTGCACTGCCATGGA
1 TGCAATATCAGG-GGAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCACTGCCAGGGA
29707745 AGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAT
65 AGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAT
* * * * * *
29707781 TGTAATGTC-GGGGAAGCAAGATTCGCTGTTGTAGCTTTAATCTGCTCCACTGCACTACTAGGGA
1 TGCAATATCAGGGG-AGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCACTGCCAGGGA
29707845 AG
65 AG
29707847 GTAACTTCAT
Statistics
Matches: 587, Mismatches: 68, Indels: 18
0.87 0.10 0.03
Matches are distributed among these distances:
98 81 0.14
99 19 0.03
100 486 0.83
101 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.31
Consensus pattern (100 bp):
TGCAATATCAGGGGAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCACTGCCAGGGAA
GTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAT
Found at i:29707443 original size:200 final size:200
Alignment explanation
Indices: 29707139--29707835 Score: 959
Period size: 200 Copynumber: 3.5 Consensus size: 200
29707129 CTACGGCATC
* *
29707139 GCCAAGGAAGTAAGATTCGCCGTTGCGGCTTTAATCTTTT-AATTGCAATATCGGGGAAG-AAGA
1 GCCATGGAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAATTGCAATATCGGGGAAGCAAGA
* * *
29707202 TTCACCGTTGTAGCTTCAATCTGATCCACTGCACCGCCAGGGAAGTAAGATTCGCCGTTACGGCT
66 TTCACCGTTGTAGCTTTAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATTCGCCGTTGCGGCT
* *
29707267 TCAATCTTTTAAATTGCAATATCAGGGGAGCAAGATTCGTCGTCGTAGCTTTAATCTGCTCCACT
131 TCAATCTTTTAAATTGCAATATCAGGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACT
29707332 GTACT
196 GTACT
* * * * * *
29707337 GCCAGGGAAGTGAGATTCGCCGTTGTGGCTTCAATGTTTTAAATTTCAATATCAGGGAAGCAAGA
1 GCCATGGAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAATTGCAATATCGGGGAAGCAAGA
* * * * * * *
29707402 TTCACCATCGTAGCTTTAATCTGCTCCACTGTACTGCCAGGGAAGTGAGATTCACCGTTGTGGCT
66 TTCACCGTTGTAGCTTTAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATTCGCCGTTGCGGCT
*
29707467 TCAATCTTTTAAATTGCAATATCAGGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGCTCCACT
131 TCAATCTTTTAAATTGCAATATCAGGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACT
*
29707532 GTACC
196 GTACT
* * * * *
29707537 GCTATGGAAGTAAGATTCACCGTTGCAGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGA
1 GCCATGGAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAATTGCAATATCGGGGAAGCAAGA
* * * * * ** * * *
29707602 TTTATCGTTGTAGCTTTAATTTACTCCACTGGACCGTTATGAAAGTAAGATTCGCCGTTGCAGCT
66 TTCACCGTTGTAGCTTTAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATTCGCCGTTGCGGCT
* * *
29707667 TCAATCTTTTTAATTGCAATGT-AGGAGAAGCAAGATTCGCCGTTGTAGCTTTAATCTGCTCCAC
131 TCAATCTTTTAAATTGCAATATCAGG-GAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCAC
*
29707731 TGCACT
195 TGTACT
* *
29707737 GCCATGGAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAATTGTAATGTCGGGGAAGCAAGA
1 GCCATGGAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAATTGCAATATCGGGGAAGCAAGA
* *
29707802 TTCGCTGTTGTAGCTTTAATCTGCTCCACTGCAC
66 TTCACCGTTGTAGCTTTAATCTGCTCCACTGCAC
29707836 TACTAGGGAA
Statistics
Matches: 430, Mismatches: 66, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
198 35 0.08
199 20 0.05
200 375 0.87
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (200 bp):
GCCATGGAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAATTGCAATATCGGGGAAGCAAGA
TTCACCGTTGTAGCTTTAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATTCGCCGTTGCGGCT
TCAATCTTTTAAATTGCAATATCAGGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACT
GTACT
Found at i:29708176 original size:23 final size:24
Alignment explanation
Indices: 29708127--29708183 Score: 89
Period size: 23 Copynumber: 2.4 Consensus size: 24
29708117 TGGATTGCCC
29708127 CCACTGTAATCTTCGAAGTTCAAT
1 CCACTGTAATCTTCGAAGTTCAAT
* *
29708151 CCACTGTAATCTT-TAAGTTCAGT
1 CCACTGTAATCTTCGAAGTTCAAT
29708174 CCACTGTAAT
1 CCACTGTAAT
29708184 TTTGGGACAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 18 0.58
24 13 0.42
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (24 bp):
CCACTGTAATCTTCGAAGTTCAAT
Found at i:29709116 original size:18 final size:18
Alignment explanation
Indices: 29709075--29709127 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
29709065 CGTCTCCTTT
29709075 TTTTTTCGTTCTTC-TTTTC
1 TTTTTTC-TT-TTCTTTTTC
29709094 -TTTTTCTTTTCTTTTTC
1 TTTTTTCTTTTCTTTTTC
* *
29709111 TTTTTTGTTTCCTTTTT
1 TTTTTTCTTTTCTTTTT
29709128 TTCAAATGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
16 3 0.10
17 7 0.23
18 20 0.67
ACGTcount: A:0.00, C:0.17, G:0.04, T:0.79
Consensus pattern (18 bp):
TTTTTTCTTTTCTTTTTC
Found at i:29709121 original size:11 final size:11
Alignment explanation
Indices: 29709071--29709114 Score: 63
Period size: 11 Copynumber: 4.0 Consensus size: 11
29709061 TTGGCGTCTC
29709071 CTTTTT-TTTT
1 CTTTTTCTTTT
*
29709081 CGTTCTTCTTTT
1 C-TTTTTCTTTT
29709093 CTTTTTCTTTT
1 CTTTTTCTTTT
29709104 CTTTTTCTTTT
1 CTTTTTCTTTT
29709115 TTGTTTCCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
10 1 0.03
11 24 0.80
12 5 0.17
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.80
Consensus pattern (11 bp):
CTTTTTCTTTT
Found at i:29709121 original size:17 final size:18
Alignment explanation
Indices: 29709089--29709127 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
29709079 TTCGTTCTTC
29709089 TTTTCTTTTTCTTTT-CT
1 TTTTCTTTTTCTTTTCCT
29709106 TTTTCTTTTT-TGTTTCCT
1 TTTTCTTTTTCT-TTTCCT
29709124 TTTT
1 TTTT
29709128 TTCAAATGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 1 0.05
17 13 0.65
18 6 0.30
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (18 bp):
TTTTCTTTTTCTTTTCCT
Found at i:29712239 original size:19 final size:19
Alignment explanation
Indices: 29712215--29712260 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
29712205 CGTGAAAATC
*
29712215 TAATGCATATG-ATGCAATG
1 TAATGCAAATGCATG-AATG
29712234 TAATGCAAATGCATGAATG
1 TAATGCAAATGCATGAATG
29712253 -AATGCAAA
1 TAATGCAAA
29712261 AAGAGACGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 8 0.32
19 14 0.56
20 3 0.12
ACGTcount: A:0.43, C:0.11, G:0.20, T:0.26
Consensus pattern (19 bp):
TAATGCAAATGCATGAATG
Found at i:29714098 original size:955 final size:955
Alignment explanation
Indices: 29712249--29714159 Score: 3651
Period size: 955 Copynumber: 2.0 Consensus size: 955
29712239 CAAATGCATG
*
29712249 AATGAATGCAAAAAGAGACGTTGATTCTTGGTTCAATTCTATTAGAACAACTTGACTAGAAAACA
1 AATGAATGCAAAAAGAGACGTTGATTCTTGATTCAATTCTATTAGAACAACTTGACTAGAAAACA
* * * *
29712314 AATTTCTTTACATAAAGCGGATATATATACGGCTTTGCCGTCATAGGCAGGGACATTTGATCGTC
66 AATCTCTTTACATAAAGAGGATATATATACGGCTTTGCCGTCATAGGCAGGGACATTCGATCCTC
* *
29712379 TTCTTCATTCGAGCGTTAAGATAAATGTCCTGAACTCTTCAAAAGGGACATCTCAACTATCTCTT
131 TTATTCATTCGAGCGTTAAGATAAATCTCCTGAACTCTTCAAAAGGGACATCTCAACTATCTCTT
*
29712444 TTTTGCTCCATCCGGGCCGCGACTCGTTACTCACTCATCCTCGTGATGTTCACTGGCTTCTCTTT
196 TTTTGCTCCATCCGGGCCGCGACTCGTTACTCACTCATCCTCGTGATGCTCACTGGCTTCTCTTT
29712509 AAAAAAGTTCAGCGGCTCTCGAATAATCTTTGTCATCTTGAATCCTCAGACAATGGAGCAATAGT
261 AAAAAAGTTCAGCGGCTCTCGAATAATCTTTGTCATCTTGAATCCTCAGACAATGGAGCAATAGT
29712574 CGTGTAGTCCTCCATTAAACTATCATCATTCTCTTACCACGTTTTCTTGGACCATATTCGGACAA
326 CGTGTAGTCCTCCATTAAACTATCATCATTCTCTTACCACGTTTTCTTGGACCATATTCGGACAA
29712639 CCGTATCGTCATCCACTTTATCAAGAAACCCATTTTCTTATGACAAGCTCTCTATTTAGCAATTG
391 CCGTATCGTCATCCACTTTATCAAGAAACCCATTTTCTTATGACAAGCTCTCTATTTAGCAATTG
29712704 AACGTGAATCAATACCTCTTTTTAATGATGAAAATGCAATGCAATCATAATCAAAACAAAAGAAA
456 AACGTGAATCAATACCTCTTTTTAATGATGAAAATGCAATGCAATCATAATCAAAACAAAAGAAA
29712769 ATAGGTTAGTACAAAGCAAAAGCAAGCAAGAATAAATAGAACGCCTACTCGGGTGACCACTAGGG
521 ATAGGTTAGTACAAAGCAAAAGCAAGCAAGAATAAATAGAACGCCTACTCGGGTGACCACTAGGG
29712834 GTTTGAAGTGGTTCTACCTAGGGTAAGAACTTAGGGCTCGTTACATGCGGTTCGGCTCTAAAGTA
586 GTTTGAAGTGGTTCTACCTAGGGTAAGAACTTAGGGCTCGTTACATGCGGTTCGGCTCTAAAGTA
29712899 AAGGTACCCGAACCAGTAGATTCGTCGATCCTCACCCATTATAGACTCATACGGACCGAGTTCGG
651 AAGGTACCCGAACCAGTAGATTCGTCGATCCTCACCCATTATAGACTCATACGGACCGAGTTCGG
29712964 TTTAGGGGAATACATTTCCCTATGGCTACACGGAGATGAAAATCTCACGAAGACATAGGTACGGA
716 TTTAGGGGAATACATTTCCCTATGGCTACACGGAGATGAAAATCTCACGAAGACATAGGTACGGA
29713029 TGTATTCCGAAAGCGATCCACTATCCTGCACGGAGGTGAAAACCTCTCGAAGGACTAGTTTCTCA
781 TGTATTCCGAAAGCGATCCACTATCCTGCACGGAGGTGAAAACCTCTCGAAGGACTAGTTTCTCA
29713094 CTCCCACTTAAAAGGGTGTGACCAACGGTCATGCAATGCAATGTGCAGAAAGATACCAAAATTTA
846 CTCCCACTTAAAAGGGTGTGACCAACGGTCATGCAATGCAATGTGCAGAAAGATACCAAAATTTA
29713159 AACCCATACAACAACTATAAACCATAACGAAGAAAATTCTAATAA
911 AACCCATACAACAACTATAAACCATAACGAAGAAAATTCTAATAA
* *
29713204 AATGAATGCAAAAAGAGACGTTGATTCTTGATTTAATTCTATTAGAACAACTTGACTAGAAAATA
1 AATGAATGCAAAAAGAGACGTTGATTCTTGATTCAATTCTATTAGAACAACTTGACTAGAAAACA
*
29713269 AATCTCTTTACATAAAGAGGATATATATACGGCTTTGCCGTCATAGGCGGGGACATTCGATCCTC
66 AATCTCTTTACATAAAGAGGATATATATACGGCTTTGCCGTCATAGGCAGGGACATTCGATCCTC
**
29713334 TTATTCATTCGAGCGTTAAGATAAATCTCCTGAACTCTTCAAAAGGGACATCTCTTCTATCTCTT
131 TTATTCATTCGAGCGTTAAGATAAATCTCCTGAACTCTTCAAAAGGGACATCTCAACTATCTCTT
* * **
29713399 TTTTGCTTCATCCGGGCCGCGACTCGTTACTCACTGATCCTCGTGATGCTCGTTGGCTTCTCTTT
196 TTTTGCTCCATCCGGGCCGCGACTCGTTACTCACTCATCCTCGTGATGCTCACTGGCTTCTCTTT
* *
29713464 AAGAAAGTTCAGCGTCTCTCGAATAATCTTTGTCATCTTGAATCCTCAGACAATGGAGCAATAGT
261 AAAAAAGTTCAGCGGCTCTCGAATAATCTTTGTCATCTTGAATCCTCAGACAATGGAGCAATAGT
29713529 CGTGTAGTCCTCCATTAAACTATCATCATTCTCTTACCACGTTTTCTTGGACCATATTCGGACAA
326 CGTGTAGTCCTCCATTAAACTATCATCATTCTCTTACCACGTTTTCTTGGACCATATTCGGACAA
29713594 CCGTATCGTCATCCACTTTATCAAGAAACCCATTTTCTTATGACAAGCTCTCTATTTAGCAATTG
391 CCGTATCGTCATCCACTTTATCAAGAAACCCATTTTCTTATGACAAGCTCTCTATTTAGCAATTG
29713659 AACGTGAATCAATACCTCTTTTTAATGATGAAAATGCAATGCAATCATAATCAAAACAAAAGAAA
456 AACGTGAATCAATACCTCTTTTTAATGATGAAAATGCAATGCAATCATAATCAAAACAAAAGAAA
29713724 ATAGGTTAGTACAAAGCAAAAGCAAGCAAGAATAAATAGAACGCCTACTCGGGTGACCACTAGGG
521 ATAGGTTAGTACAAAGCAAAAGCAAGCAAGAATAAATAGAACGCCTACTCGGGTGACCACTAGGG
29713789 GTTTGAAGTGGTTCTACCTAGGGTAAGAACTTAGGGCTCGTTACATGCGGTTCGGCTCTAAAGTA
586 GTTTGAAGTGGTTCTACCTAGGGTAAGAACTTAGGGCTCGTTACATGCGGTTCGGCTCTAAAGTA
29713854 AAGGTACCCGAACCAGTAGATTCGTCGATCCTCACCCATTATAGACTCATACGGACCGAGTTCGG
651 AAGGTACCCGAACCAGTAGATTCGTCGATCCTCACCCATTATAGACTCATACGGACCGAGTTCGG
29713919 TTTAGGGGAATACATTTCCCTATGGCTACACGGAGATGAAAATCTCACGAAGACATAGGTACGGA
716 TTTAGGGGAATACATTTCCCTATGGCTACACGGAGATGAAAATCTCACGAAGACATAGGTACGGA
29713984 TGTATTCCGAAAGCGATCCACTATCCTGCACGGAGGTGAAAACCTCTCGAAGGACTAGTTTCTCA
781 TGTATTCCGAAAGCGATCCACTATCCTGCACGGAGGTGAAAACCTCTCGAAGGACTAGTTTCTCA
29714049 CTCCCACTTAAAAGGGTGTGACCAACGGTCATGCAATGCAATGTGCAGAAAGATACCAAAATTTA
846 CTCCCACTTAAAAGGGTGTGACCAACGGTCATGCAATGCAATGTGCAGAAAGATACCAAAATTTA
29714114 AACCCATACAACAACTATAAACCATAACGAAGAAAATTCTAATAA
911 AACCCATACAACAACTATAAACCATAACGAAGAAAATTCTAATAA
29714159 A
1 A
29714160 GACAAATGAA
Statistics
Matches: 937, Mismatches: 19, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
955 937 1.00
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (955 bp):
AATGAATGCAAAAAGAGACGTTGATTCTTGATTCAATTCTATTAGAACAACTTGACTAGAAAACA
AATCTCTTTACATAAAGAGGATATATATACGGCTTTGCCGTCATAGGCAGGGACATTCGATCCTC
TTATTCATTCGAGCGTTAAGATAAATCTCCTGAACTCTTCAAAAGGGACATCTCAACTATCTCTT
TTTTGCTCCATCCGGGCCGCGACTCGTTACTCACTCATCCTCGTGATGCTCACTGGCTTCTCTTT
AAAAAAGTTCAGCGGCTCTCGAATAATCTTTGTCATCTTGAATCCTCAGACAATGGAGCAATAGT
CGTGTAGTCCTCCATTAAACTATCATCATTCTCTTACCACGTTTTCTTGGACCATATTCGGACAA
CCGTATCGTCATCCACTTTATCAAGAAACCCATTTTCTTATGACAAGCTCTCTATTTAGCAATTG
AACGTGAATCAATACCTCTTTTTAATGATGAAAATGCAATGCAATCATAATCAAAACAAAAGAAA
ATAGGTTAGTACAAAGCAAAAGCAAGCAAGAATAAATAGAACGCCTACTCGGGTGACCACTAGGG
GTTTGAAGTGGTTCTACCTAGGGTAAGAACTTAGGGCTCGTTACATGCGGTTCGGCTCTAAAGTA
AAGGTACCCGAACCAGTAGATTCGTCGATCCTCACCCATTATAGACTCATACGGACCGAGTTCGG
TTTAGGGGAATACATTTCCCTATGGCTACACGGAGATGAAAATCTCACGAAGACATAGGTACGGA
TGTATTCCGAAAGCGATCCACTATCCTGCACGGAGGTGAAAACCTCTCGAAGGACTAGTTTCTCA
CTCCCACTTAAAAGGGTGTGACCAACGGTCATGCAATGCAATGTGCAGAAAGATACCAAAATTTA
AACCCATACAACAACTATAAACCATAACGAAGAAAATTCTAATAA
Found at i:29719701 original size:43 final size:44
Alignment explanation
Indices: 29719556--29719756 Score: 236
Period size: 43 Copynumber: 4.7 Consensus size: 44
29719546 TAACCGTTAC
* * ***
29719556 ACGGTGGAACCAGCACTTAGCAACCACC--TCATGTTCAAAGGAT
1 ACGGTGGAATCAGCACATAGCAACCACCTTTCACAATC-AAGGAT
* * * *
29719599 CCCGGTGGAATCAGCACTTAGCAACCACC-TT-ATAATCAATGAT
1 -ACGGTGGAATCAGCACATAGCAACCACCTTTCACAATCAAGGAT
29719642 ACGG-GGAATCAGCACATAGCAACC-CCTTTCACAATCAAGGAT
1 ACGGTGGAATCAGCACATAGCAACCACCTTTCACAATCAAGGAT
*
29719684 ACGGTGGAATCAGCACATAGCAACC-CCTTTCACAACCAAGGAT
1 ACGGTGGAATCAGCACATAGCAACCACCTTTCACAATCAAGGAT
*
29719727 ACGGTGGAATCAGCACTTAGCAACCACCTT
1 ACGGTGGAATCAGCACATAGCAACCACCTT
29719757 ATAATTAGTG
Statistics
Matches: 141, Mismatches: 11, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
40 2 0.01
41 21 0.15
42 17 0.12
43 66 0.47
44 34 0.24
45 1 0.01
ACGTcount: A:0.33, C:0.29, G:0.19, T:0.19
Consensus pattern (44 bp):
ACGGTGGAATCAGCACATAGCAACCACCTTTCACAATCAAGGAT
Found at i:29719929 original size:11 final size:11
Alignment explanation
Indices: 29719913--29719937 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
29719903 AAATTTTCCA
29719913 ATTTATTCTAT
1 ATTTATTCTAT
29719924 ATTTATTCTAT
1 ATTTATTCTAT
29719935 ATT
1 ATT
29719938 CAATTATATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (11 bp):
ATTTATTCTAT
Found at i:29729667 original size:25 final size:25
Alignment explanation
Indices: 29729639--29729687 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
29729629 TTAAAATAAT
29729639 TTGAGCTC-AAGTTTTAAAAAAAAAA
1 TTGAGCTCAAAG-TTTAAAAAAAAAA
*
29729664 TTGAGCTCAAAGTTTAATAAAAAA
1 TTGAGCTCAAAGTTTAAAAAAAAA
29729688 TTTAAGGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 19 0.86
26 3 0.14
ACGTcount: A:0.51, C:0.08, G:0.12, T:0.29
Consensus pattern (25 bp):
TTGAGCTCAAAGTTTAAAAAAAAAA
Found at i:29754288 original size:79 final size:79
Alignment explanation
Indices: 29754163--29754448 Score: 326
Period size: 79 Copynumber: 3.6 Consensus size: 79
29754153 GTTTATAAAG
* * * *
29754163 AGAAATCGATTGAACAATTCTGTTTTAGGATTTTATTCCTATCGTTCAACAAGATTTGTTCGATT
1 AGAAATCAATTGAACAATTCTGTTTCAAGATTTTATTCCTGTCGTTCAACAAGATTTGTTCGATT
*
29754228 TTCTGTTTCCAAAC
66 TTCTATTTCCAAAC
* * * * *
29754242 ATAAATCAATTGAATAATTTTGTTTCAAGATTTTATTCTTGCCGTTCAACAAGATTTGGTT-GAT
1 AGAAATCAATTGAACAATTCTGTTTCAAGATTTTATTCCTGTCGTTCAACAAGATTT-GTTCGAT
* *
29754306 TTT-TCTTTCCAAAT
65 TTTCTATTTCCAAAC
* * * * * * * *
29754320 AGAAA-CAAATTAAACAATTCTATTTTAGGATTTTATCCCTGTCATTCAACAAGATTTCTTCGAA
1 AGAAATC-AATTGAACAATTCTGTTTCAAGATTTTATTCCTGTCGTTCAACAAGATTTGTTCGAT
29754384 TTTCTATTTCCAAAC
65 TTTCTATTTCCAAAC
* * *
29754399 AGAAATCAATTGAACAATTTTGTTTCGAGATTCTATTCCTGTCGTTCAAC
1 AGAAATCAATTGAACAATTCTGTTTCAAGATTTTATTCCTGTCGTTCAAC
29754449 TGAATTTATT
Statistics
Matches: 167, Mismatches: 35, Indels: 10
0.79 0.17 0.05
Matches are distributed among these distances:
77 3 0.02
78 58 0.35
79 102 0.61
80 4 0.02
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (79 bp):
AGAAATCAATTGAACAATTCTGTTTCAAGATTTTATTCCTGTCGTTCAACAAGATTTGTTCGATT
TTCTATTTCCAAAC
Found at i:29755295 original size:38 final size:37
Alignment explanation
Indices: 29755239--29755333 Score: 118
Period size: 38 Copynumber: 2.5 Consensus size: 37
29755229 TTATTGATTG
* * *
29755239 CATGTTCAGCATGCCTACTATTACTATTGAACCGAATA
1 CATGTTAAGCATGTCTACTACTACTATTG-ACCGAATA
* * *
29755277 CATGTTAAGCATGTCTACTGCTACTATTGAGCTAATA
1 CATGTTAAGCATGTCTACTACTACTATTGACCGAATA
*
29755314 CATGTTAAGAATGTCTACTA
1 CATGTTAAGCATGTCTACTA
29755334 GTTTTACATG
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
37 24 0.49
38 25 0.51
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.34
Consensus pattern (37 bp):
CATGTTAAGCATGTCTACTACTACTATTGACCGAATA
Found at i:29762004 original size:38 final size:38
Alignment explanation
Indices: 29761935--29762025 Score: 101
Period size: 38 Copynumber: 2.4 Consensus size: 38
29761925 TTGCATGCTC
* *
29761935 AACATGCCTACTGTTATTATTGAACAAAATACAAGTTA
1 AACATGTCTACTGTTATTATTGAACAAAATACAAGTAA
* * * ** *
29761973 AGCATGTCTACTGTTATTGTTGAGCTGAATACATGTAA
1 AACATGTCTACTGTTATTATTGAACAAAATACAAGTAA
*
29762011 AACATGTCTATTGTT
1 AACATGTCTACTGTT
29762026 CCTACATTAT
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.36
Consensus pattern (38 bp):
AACATGTCTACTGTTATTATTGAACAAAATACAAGTAA
Found at i:29770390 original size:21 final size:19
Alignment explanation
Indices: 29770366--29770430 Score: 53
Period size: 21 Copynumber: 3.3 Consensus size: 19
29770356 AAGGAGAAAT
29770366 GAAAGAAGTAAAAAGACAAAA
1 GAAAGAAG-AAAAAGA-AAAA
*
29770387 GAAAG--GAAAAATAAAAA
1 GAAAGAAGAAAAAGAAAAA
* *
29770404 GAAAGAAAAGGAAAAGAAGAA
1 GAAAG--AAGAAAAAGAAAAA
29770425 GAAAGA
1 GAAAGA
29770431 GTACAGAACA
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
17 9 0.25
18 6 0.17
19 2 0.06
21 19 0.53
ACGTcount: A:0.72, C:0.02, G:0.23, T:0.03
Consensus pattern (19 bp):
GAAAGAAGAAAAAGAAAAA
Found at i:29770416 original size:22 final size:24
Alignment explanation
Indices: 29770360--29770418 Score: 68
Period size: 22 Copynumber: 2.5 Consensus size: 24
29770350 ATCGAAAAGG
*
29770360 AGAAATGAAAGAAGTAAAAAGACAAA
1 AGAAAGGAAA-AA-TAAAAAGACAAA
*
29770386 AGAAAGGAAAAATAAAAAGA-AAG
1 AGAAAGGAAAAATAAAAAGACAAA
29770409 A-AAAGGAAAA
1 AGAAAGGAAAA
29770419 GAAGAAGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 9 0.29
23 3 0.10
24 8 0.26
25 2 0.06
26 9 0.29
ACGTcount: A:0.73, C:0.02, G:0.20, T:0.05
Consensus pattern (24 bp):
AGAAAGGAAAAATAAAAAGACAAA
Found at i:29774634 original size:20 final size:19
Alignment explanation
Indices: 29774573--29774641 Score: 79
Period size: 19 Copynumber: 3.6 Consensus size: 19
29774563 TTTTTAAAAA
29774573 TAAAATT-TTTAT-AATTTT
1 TAAAATTATTT-TCAATTTT
* *
29774591 TAAAAATATTTTGAATTTT
1 TAAAATTATTTTCAATTTT
*
29774610 AAAAATTATTTTCAATTTTT
1 TAAAATTATTTTCAA-TTTT
29774630 TAAAATTATTTT
1 TAAAATTATTTT
29774642 GATTATTTTG
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
18 7 0.16
19 21 0.49
20 15 0.35
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (19 bp):
TAAAATTATTTTCAATTTT
Found at i:29774650 original size:20 final size:20
Alignment explanation
Indices: 29774588--29774650 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
29774578 TTTTTATAAT
*
29774588 TTTTAAAAATATTTTGA--A
1 TTTTAAAATTATTTTGATTA
*
29774606 TTTTAAAAATTATTTTCAATT-
1 TTTT-AAAATTATTTT-GATTA
29774627 TTTTAAAATTATTTTGATTA
1 TTTTAAAATTATTTTGATTA
29774647 TTTT
1 TTTT
29774651 GTAATTTTTG
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
18 4 0.11
19 13 0.35
20 16 0.43
21 4 0.11
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.59
Consensus pattern (20 bp):
TTTTAAAATTATTTTGATTA
Found at i:29779936 original size:25 final size:24
Alignment explanation
Indices: 29779890--29779937 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
29779880 ACCATTTGAA
**
29779890 AATTAAAAAATATAAATTAATAAT
1 AATTAAAAAATATAAAAAAATAAT
*
29779914 AATTAAAAATTTATAAAAAAATAA
1 AATTAAAAA-ATATAAAAAAATAA
29779938 AAAAGGGTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (24 bp):
AATTAAAAAATATAAAAAAATAAT
Found at i:29781716 original size:50 final size:50
Alignment explanation
Indices: 29781662--29781757 Score: 192
Period size: 50 Copynumber: 1.9 Consensus size: 50
29781652 CTAATTTAAA
29781662 ATTTGAATCATAATTTGTAAAAGATTATAATTAACATGCATATATAAATT
1 ATTTGAATCATAATTTGTAAAAGATTATAATTAACATGCATATATAAATT
29781712 ATTTGAATCATAATTTGTAAAAGATTATAATTAACATGCATATATA
1 ATTTGAATCATAATTTGTAAAAGATTATAATTAACATGCATATATA
29781758 CAACGAAGGG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.40
Consensus pattern (50 bp):
ATTTGAATCATAATTTGTAAAAGATTATAATTAACATGCATATATAAATT
Found at i:29787828 original size:22 final size:24
Alignment explanation
Indices: 29787803--29787857 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
29787793 TTTATAAATT
29787803 TAATTTAA-AATATATAAT-ACAA
1 TAATTTAAGAATATATAATAACAA
* * *
29787825 TAATATCAAGCATATTTAATAACAA
1 TAAT-TTAAGAATATATAATAACAA
29787850 TAATTTAA
1 TAATTTAA
29787858 TCATAAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
22 4 0.15
23 3 0.12
24 11 0.42
25 8 0.31
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.36
Consensus pattern (24 bp):
TAATTTAAGAATATATAATAACAA
Found at i:29788740 original size:17 final size:18
Alignment explanation
Indices: 29788705--29788743 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
29788695 GCTTTAATAA
29788705 TTTAAAAAATTATAGAATT
1 TTTAAAAAATTATA-AATT
29788724 TTTAAAAAATTAT-AATT
1 TTTAAAAAATTATAAATT
29788741 TTT
1 TTT
29788744 CTCATATGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 7 0.35
19 13 0.65
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (18 bp):
TTTAAAAAATTATAAATT
Found at i:29790439 original size:35 final size:35
Alignment explanation
Indices: 29790380--29790495 Score: 128
Period size: 35 Copynumber: 3.3 Consensus size: 35
29790370 AAAAAAAAGC
* *
29790380 TAGGATAGACTCGTCTAA-AGCAACCTTAAAGAGGT
1 TAGGATAGACCCGTCTAAGA-CAACCTTAAAAAGGT
* *
29790415 TAGGATAGACCCGTTTAAGACAACCGTAAAAAGGT
1 TAGGATAGACCCGTCTAAGACAACCTTAAAAAGGT
* * *
29790450 T-GAGATGGACCAGTCTAAGGCAACCTTAAAAAGGT
1 TAG-GATAGACCCGTCTAAGACAACCTTAAAAAGGT
*
29790485 TTGGATAGACC
1 TAGGATAGACC
29790496 TTGTTTGTAC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
34 1 0.01
35 65 0.96
36 2 0.03
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (35 bp):
TAGGATAGACCCGTCTAAGACAACCTTAAAAAGGT
Found at i:29796842 original size:37 final size:37
Alignment explanation
Indices: 29796792--29796865 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
29796782 GGTATAAGCC
29796792 CTAAAGCATGAGATCTATCACTCTGTTAGATTGAATT
1 CTAAAGCATGAGATCTATCACTCTGTTAGATTGAATT
*
29796829 CTAAAGCATGAGATCTGTCACTCTGTTAGATTGAATT
1 CTAAAGCATGAGATCTATCACTCTGTTAGATTGAATT
29796866 TGACGTAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (37 bp):
CTAAAGCATGAGATCTATCACTCTGTTAGATTGAATT
Found at i:29800272 original size:15 final size:15
Alignment explanation
Indices: 29800252--29800282 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
29800242 AAAAGGTGAA
*
29800252 TCCAATGGTGCCATG
1 TCCAATGATGCCATG
29800267 TCCAATGATGCCATG
1 TCCAATGATGCCATG
29800282 T
1 T
29800283 GATGTGAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.29
Consensus pattern (15 bp):
TCCAATGATGCCATG
Found at i:29800585 original size:38 final size:38
Alignment explanation
Indices: 29800534--29800610 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
29800524 AGGAGATGTT
29800534 AGCTAAATTTATGTCGATGTTAGAAACTCGATTTCAAA
1 AGCTAAATTTATGTCGATGTTAGAAACTCGATTTCAAA
*
29800572 AGCTAAATTTATGTCGGTGTTAGAAACTCGATTTCAAA
1 AGCTAAATTTATGTCGATGTTAGAAACTCGATTTCAAA
29800610 A
1 A
29800611 CACTGAGACA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.34
Consensus pattern (38 bp):
AGCTAAATTTATGTCGATGTTAGAAACTCGATTTCAAA
Found at i:29804308 original size:20 final size:20
Alignment explanation
Indices: 29804283--29804321 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
29804273 TTTGTTTTAT
*
29804283 TATTTTTTTCTTTA-TTAGTA
1 TATTTTATT-TTTAGTTAGTA
29804303 TATTTTATTTTTAGTTAGT
1 TATTTTATTTTTAGTTAGT
29804322 TGGTTAGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.21, C:0.03, G:0.08, T:0.69
Consensus pattern (20 bp):
TATTTTATTTTTAGTTAGTA
Found at i:29806102 original size:14 final size:15
Alignment explanation
Indices: 29806083--29806112 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
29806073 TAAGCATGAT
29806083 AAATTATT-TTTTAG
1 AAATTATTATTTTAG
29806097 AAATTATTATTTTAG
1 AAATTATTATTTTAG
29806112 A
1 A
29806113 TTGTCTCCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (15 bp):
AAATTATTATTTTAG
Found at i:29814866 original size:5 final size:5
Alignment explanation
Indices: 29814858--29814890 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
29814848 TTAAGTATAA
29814858 ATATT ATATT ATATT ATATT ATATT ATATT ATA
1 ATATT ATATT ATATT ATATT ATATT ATATT ATA
29814891 AAAGAAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATATT
Found at i:29815881 original size:25 final size:25
Alignment explanation
Indices: 29815853--29816005 Score: 130
Period size: 22 Copynumber: 6.5 Consensus size: 25
29815843 TAGCGCGCTA
*
29815853 TCTGATTATTAGCACGTTGGTGCTC
1 TCTGATTATTAGCACGTTAGTGCTC
*
29815878 TCTGATTATTAGCACGTTGGTGCTC
1 TCTGATTATTAGCACGTTAGTGCTC
* *
29815903 TCTGATTACTAGCACGTCAGTGCTC
1 TCTGATTATTAGCACGTTAGTGCTC
* * *
29815928 TC-CA-T-TTAGCACATCT-GGGCTC
1 TCTGATTATTAGCACGT-TAGTGCTC
*
29815950 TCTG--TA-TAGCACTTTAGTGCTC
1 TCTGATTATTAGCACGTTAGTGCTC
*
29815972 TCTG--TA-TAGCACTTTAGTGCTC
1 TCTGATTATTAGCACGTTAGTGCTC
29815994 TCTG-TTCATTAG
1 TCTGATT-ATTAG
29816006 TGCATAACAA
Statistics
Matches: 110, Mismatches: 11, Indels: 14
0.81 0.08 0.10
Matches are distributed among these distances:
21 1 0.01
22 53 0.48
23 2 0.02
24 2 0.02
25 52 0.47
ACGTcount: A:0.18, C:0.24, G:0.20, T:0.39
Consensus pattern (25 bp):
TCTGATTATTAGCACGTTAGTGCTC
Found at i:29823020 original size:7 final size:7
Alignment explanation
Indices: 29823008--29823035 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
29822998 TCGTTAAAGC
29823008 GATGATG
1 GATGATG
29823015 GATGATG
1 GATGATG
29823022 GATGATG
1 GATGATG
29823029 GATGATG
1 GATGATG
29823036 AGGGATCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.43, T:0.29
Consensus pattern (7 bp):
GATGATG
Found at i:29828618 original size:15 final size:15
Alignment explanation
Indices: 29828594--29828623 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
29828584 TCCATCCTAC
29828594 TTTCTACTATTTTTA
1 TTTCTACTATTTTTA
*
29828609 TTTCTCCTATTTTTA
1 TTTCTACTATTTTTA
29828624 AATTTTAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTCTACTATTTTTA
Done.