Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 197 of 352
Found at i:64972186 original size:263 final size:264
Alignment explanation
Indices: 64971712--64972322 Score: 875
Period size: 263 Copynumber: 2.3 Consensus size: 264
64971702 AATCCTACAA
* ** * * * *
64971712 ATCTCGTTTCCCTAAAGTTGCAGTAAAGCAGATCGAAGACCGTGAATCTAGGCTTCTTGAAATTG
1 ATCTCGTTTCCCTGAAGTTGCAGTGGAGCAGATCAAAGACGGTGAATCTAGGCTTCCTGAAGTTG
64971777 CAGTGAAGCAGATTTAAGCCACCAACCTAGCTTCCTAAAGTTGTAGTGAGTACGCTGAAATTTTA
66 CAGTGAAGCAGATTTAAGCCACCAACCTAGCTTCCTAAAGTTGTAGTGAGTACGCTGAAATTTTA
* * * * *
64971842 GATCTTGTTTCCCTGAAGTTACAGTGGAGTAGATCGAAGACGGCGAATTTGGGCTTCCTGAAGTT
131 GATCTCGTTTCCCTGAAGTTACAGTGGAGCAGATCAAAGACGGCGAATCTAGGCTTCCTGAAGTT
* *
64971907 GCAACGAAGTAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAA-ATT
196 ACAACGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATT
**
64971971 TTAG
261 GAAG
*
64971975 ATCTCGTTTCCCTGAAGTTGCAGTGGAGCAGATCAAAGACGGTGAATCTGGGCTTCCTGAAGTTG
1 ATCTCGTTTCCCTGAAGTTGCAGTGGAGCAGATCAAAGACGGTGAATCTAGGCTTCCTGAAGTTG
* *
64972040 CAGCGAAGCAGATTTAAGCCACCAACCTAGC-TCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTT
66 CAGTGAAGCAGATTTAAGCCACCAACCTAGCTTCCTAAAGTTGTAGT-GAGTACGCTGAAATTTT
* * *
64972104 AGATCTCGTTTCCCTGAAGTTGCAGTGGAGCAGATCAAATACGGTGAATCTAGGCTTCCTGAAGT
130 AGATCTCGTTTCCCTGAAGTTACAGTGGAGCAGATCAAAGACGGCGAATCTAGGCTTCCTGAAGT
** * * *
64972169 TACAGTGAAGCAGATTTAAGCCACCATCCTAGCTCTCTAAAGTTGTAGTGGAGTAGGTTGAAGAT
195 TACAACGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGAT
64972234 TGAAG
260 TGAAG
* * * * ** * * *
64972239 ATTTTGTCTCCCTGAAGTTGCAGTGGAGCAAATCAAAGACGACGAATCTTGTCCTCCTGAAGTTG
1 ATCTCGTTTCCCTGAAGTTGCAGTGGAGCAGATCAAAGACGGTGAATCTAGGCTTCCTGAAGTTG
64972304 CAGTGAAGCAGATTTAAGC
66 CAGTGAAGCAGATTTAAGC
64972323 AAGCCTTAAA
Statistics
Matches: 309, Mismatches: 37, Indels: 3
0.89 0.11 0.01
Matches are distributed among these distances:
262 15 0.05
263 215 0.70
264 79 0.26
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (264 bp):
ATCTCGTTTCCCTGAAGTTGCAGTGGAGCAGATCAAAGACGGTGAATCTAGGCTTCCTGAAGTTG
CAGTGAAGCAGATTTAAGCCACCAACCTAGCTTCCTAAAGTTGTAGTGAGTACGCTGAAATTTTA
GATCTCGTTTCCCTGAAGTTACAGTGGAGCAGATCAAAGACGGCGAATCTAGGCTTCCTGAAGTT
ACAACGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATT
GAAG
Found at i:64972383 original size:263 final size:262
Alignment explanation
Indices: 64971712--64972398 Score: 722
Period size: 263 Copynumber: 2.6 Consensus size: 262
64971702 AATCCTACAA
* * ** * * * * * * *
64971712 ATCTCGTTTCCCTAAAGTTGCAGTAAAGCAGATCGAAGACCG-TGAATCTAGGCTTCTTGAAATT
1 ATCTCGTCTCCCTGAAGTTGCAGTGGAGCAAATCAAAGA-CGACGAATCTGGGCCTCCTGAAGTT
* * * * * *
64971776 GCAGTGAAGCAGATTTAAGCCACCAACCTAGCTTCCTAAAGTTGTAGTGAGTAC--GCTGAAATT
65 GCAGCGAAGCAGATTTAAGCCA-CAACCTAAC-CCCTAAAGTAGTAGTG-GAACAAGCTAAAATT
** * * * * *
64971839 TTAGATCTTGTTTCCCTGAAGTTACAGTGGAGTAGATCGAAGACGGCGAATTTGGGCTTCCTGAA
127 ACAGATCTTGTTTCCCTGAAGTTGCAGTGGAGCAGATCAAAGACGGCGAATCTAGGCTTCCTGAA
* *
64971904 GTTGCAACGAAGTAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAA
192 GTTACAACGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAA
**
64971969 TTTTAG
257 TTGAAG
* * ** *
64971975 ATCTCGTTTCCCTGAAGTTGCAGTGGAGCAGATCAAAGACGGTGAATCTGGGCTTCCTGAAGTTG
1 ATCTCGTCTCCCTGAAGTTGCAGTGGAGCAAATCAAAGACGACGAATCTGGGCCTCCTGAAGTTG
* * * ** * * **
64972040 CAGCGAAGCAGATTTAAGCCACCAACCTAGCTCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTA
66 CAGCGAAGCAGATTTAAGCCA-CAACCTAACCCCTAAAGTAGTAGTGGAACAAGCTAAAATTACA
* * *
64972105 GATCTCGTTTCCCTGAAGTTGCAGTGGAGCAGATCAAATACGGTGAATCTAGGCTTCCTGAAGTT
130 GATCTTGTTTCCCTGAAGTTGCAGTGGAGCAGATCAAAGACGGCGAATCTAGGCTTCCTGAAGTT
** * * *
64972170 ACAGTGAAGCAGATTTAAGCCACCATCCTAGCTCTCTAAAGTTGTAGTGGAGTAGGTTGAAGATT
195 ACAACGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAA-ATT
64972235 GAAG
259 GAAG
* * * *
64972239 ATTTTGTCTCCCTGAAGTTGCAGTGGAGCAAATCAAAGACGACGAATCTTGTCCTCCTGAAGTTG
1 ATCTCGTCTCCCTGAAGTTGCAGTGGAGCAAATCAAAGACGACGAATCTGGGCCTCCTGAAGTTG
* *
64972304 CAGTGAAGCAGATTTAAG-CA-AGCCTTAAACCCCT-AAGTAGTAG-GGTAACAAGCTAAAGATT
66 CAGCGAAGCAGATTTAAGCCACAACC-T-AACCCCTAAAGTAGTAGTGG-AACAAGCTAAA-ATT
*
64972365 ACAGATCTTGTCTCCCTGAAGTTGCAGTGGAGCA
127 ACAGATCTTGTTTCCCTGAAGTTGCAGTGGAGCA
64972399 TACTGAAGCT
Statistics
Matches: 366, Mismatches: 50, Indels: 16
0.85 0.12 0.04
Matches are distributed among these distances:
261 6 0.02
262 34 0.09
263 248 0.68
264 78 0.21
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.27
Consensus pattern (262 bp):
ATCTCGTCTCCCTGAAGTTGCAGTGGAGCAAATCAAAGACGACGAATCTGGGCCTCCTGAAGTTG
CAGCGAAGCAGATTTAAGCCACAACCTAACCCCTAAAGTAGTAGTGGAACAAGCTAAAATTACAG
ATCTTGTTTCCCTGAAGTTGCAGTGGAGCAGATCAAAGACGGCGAATCTAGGCTTCCTGAAGTTA
CAACGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTGA
AG
Found at i:64975483 original size:131 final size:130
Alignment explanation
Indices: 64975244--64975761 Score: 477
Period size: 131 Copynumber: 3.9 Consensus size: 130
64975234 TAAGAATTCT
*
64975244 TTAAAACGAAGGCGATATTCGATTCTTGGCAATTCGTGGAATCGTGCCCTAACGTGTTGGGTTGC
1 TTAAAACGAAGGCGATATTCGATT-TTGGCAATTCG-GGAATCGTGCCCTAACGTGCTGGGTTGC
* ** * * *
64975309 AATTTCTCGTTTGCTCAAAATGATCGAAGGTCCCTTTAGAATTTCACCCATATCTTTTAAAAATC
64 AATTTCTCGTTTGCTCAAAATAATCGAATATCCCTTCAAAATTTCACCCATATCTTCTAAAAATC
64975374 CC
129 CC
* *
64975376 TT-AAACGAAGGCGATATGCGATATTTGGTAATTCGCGGAATCGTGCCCTAACGTGCTGGGTTGC
1 TTAAAACGAAGGCGATATTCGAT-TTTGGCAATTCG-GGAATCGTGCCCTAACGTGCTGGGTTGC
* * * * *
64975440 AATTTCCCGTTTGCTTAAAATAATCAAATATCCCTTCAAAATTTCACTCATGTCTTCTAAAAATC
64 AATTTCTCGTTTGCTCAAAATAATCGAATATCCCTTCAAAATTTCACCCATATCTTCTAAAAATC
*
64975505 CT
129 CC
* * * * ** * * **
64975507 TTAAAACAAAGGCAATATTCGGTGTTTGACAATTCGGGAATTATGCCCTATCTTGCTGGGTTGTG
1 TTAAAACGAAGGCGATATTCGAT-TTTGGCAATTCGGGAATCGTGCCCTAACGTGCTGGGTTGCA
* * * * * * * *
64975572 ATTTCTCGTTTGCTCAAAACAATCGAATATTCCTTTAGATTTTCACTCATGT-TTATTAAAAA-C
65 ATTTCTCGTTTGCTCAAAATAATCGAATATCCCTTCAAAATTTCACCCATATCTT-CTAAAAATC
*
64975635 CT
129 CC
* * * * * * *
64975637 TTCAAAACGAAGGTGATGTTCGATGTTTGGCGATTTGAGAATTGTGCCCTATCGTGCTGGGTTGC
1 TT-AAAACGAAGGCGATATTCGAT-TTTGGCAATTCGGGAATCGTGCCCTAACGTGCTGGGTTGC
** * * * * * * *
64975702 GCTTTTTCATTTG-TCCAAAATAATCGAAGATCCATTCGAAATTTCACTCATATTTTCTAA
64 AATTTCTCGTTTGCT-CAAAATAATCGAATATCCCTTCAAAATTTCACCCATATCTTCTAA
64975762 GGCGAGGCAA
Statistics
Matches: 317, Mismatches: 63, Indels: 13
0.81 0.16 0.03
Matches are distributed among these distances:
130 8 0.03
131 278 0.88
132 31 0.10
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.35
Consensus pattern (130 bp):
TTAAAACGAAGGCGATATTCGATTTTGGCAATTCGGGAATCGTGCCCTAACGTGCTGGGTTGCAA
TTTCTCGTTTGCTCAAAATAATCGAATATCCCTTCAAAATTTCACCCATATCTTCTAAAAATCCC
Found at i:64975724 original size:262 final size:263
Alignment explanation
Indices: 64975242--64975761 Score: 575
Period size: 262 Copynumber: 2.0 Consensus size: 263
64975232 ATTAAGAATT
* * * * *
64975242 CTTTAAAACGAAGGCGATATTCGATTCTTGGCAATTCGTGGAATCGTGCCCTAACGTGTTGGGTT
1 CTTTAAAACAAAGGCAATATTCGATTCTTGACAATTCGTGGAATCATGCCCTAACGTGCTGGGTT
** *
64975307 GCAATTTCTCGTTTGCTCAAAATGATCGAAGGTCCCTTTAGAATTTCACCCATATCTTTTAAAAA
66 GCAATTTCTCGTTTGCTCAAAACAATCGAAGATCCCTTTAGAATTTCACCCATATCTTTTAAAAA
* *
64975372 TCCCTTAAACGAAGGCGATATGCGATATTTGGTAATTCGCGGAATCGTGCCCTAACGTGCTGGGT
131 TCCCTTAAACGAAGGCGATATGCGATATTTGGCAATTCGCAGAATCGTGCCCTAACGTGCTGGGT
* * * * *
64975437 TGCAATTTCCCGTTTGCTTAAAATAATCAAATATCCCTTCAAAATTTCACTCATGTCTTCTAAAA
196 TGCAATTTCCCATTTGCTCAAAATAATCAAAGATCCATTCAAAATTTCACTCATATCTTCTAAAA
64975502 ATC
261 ATC
* * * *
64975505 CTTTAAAACAAAGGCAATATTCGGTGT-TTGACAATTCG-GGAATTATGCCCTATCTTGCTGGGT
1 CTTTAAAACAAAGGCAATATTCGAT-TCTTGACAATTCGTGGAATCATGCCCTAACGTGCTGGGT
** * * * * *
64975568 TGTGATTTCTCGTTTGCTCAAAACAATCGAATATTCCTTTAGATTTTCACTCATGT-TTATTAAA
65 TGCAATTTCTCGTTTGCTCAAAACAATCGAAGATCCCTTTAGAATTTCACCCATATCTT-TTAAA
* * * * * * * * *
64975632 AA-CCTTTCAAAACGAAGGTGATGTTCGATGTTTGGCGATTTG-AGAATTGTGCCCTATCGTGCT
129 AATCCCTT--AAACGAAGGCGATATGCGATATTTGGCAATTCGCAGAATCGTGCCCTAACGTGCT
** ** * * *
64975695 GGGTTGCGCTTTTTCATTTG-TCCAAAATAATCGAAGATCCATTCGAAATTTCACTCATATTTTC
192 GGGTTGCAATTTCCCATTTGCT-CAAAATAATCAAAGATCCATTCAAAATTTCACTCATATCTTC
64975759 TAA
256 TAA
64975762 GGCGAGGCAA
Statistics
Matches: 210, Mismatches: 42, Indels: 11
0.80 0.16 0.04
Matches are distributed among these distances:
261 7 0.03
262 144 0.69
263 58 0.28
264 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (263 bp):
CTTTAAAACAAAGGCAATATTCGATTCTTGACAATTCGTGGAATCATGCCCTAACGTGCTGGGTT
GCAATTTCTCGTTTGCTCAAAACAATCGAAGATCCCTTTAGAATTTCACCCATATCTTTTAAAAA
TCCCTTAAACGAAGGCGATATGCGATATTTGGCAATTCGCAGAATCGTGCCCTAACGTGCTGGGT
TGCAATTTCCCATTTGCTCAAAATAATCAAAGATCCATTCAAAATTTCACTCATATCTTCTAAAA
ATC
Found at i:64976891 original size:44 final size:46
Alignment explanation
Indices: 64976840--64976932 Score: 138
Period size: 44 Copynumber: 2.1 Consensus size: 46
64976830 TACAACATCT
*
64976840 ATTCCATTCAACCAAACACA-AGAATT-CT-ATTACAGCTCTATTTC
1 ATTCCATTCAACCAAACA-ATAGAATTACTGATTACAGCTCTATTCC
*
64976884 ATTCCATTCAACCAAACAATTGAATTACTGATTACAGCTCTATTCC
1 ATTCCATTCAACCAAACAATAGAATTACTGATTACAGCTCTATTCC
64976930 ATT
1 ATT
64976933 ACAACTCTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
43 1 0.02
44 23 0.52
45 2 0.05
46 18 0.41
ACGTcount: A:0.35, C:0.26, G:0.05, T:0.33
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAATAGAATTACTGATTACAGCTCTATTCC
Found at i:64976935 original size:16 final size:16
Alignment explanation
Indices: 64976914--64976967 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
64976904 TGAATTACTG
*
64976914 ATTACAGCTCTATTCC
1 ATTACAACTCTATTCC
*
64976930 ATTACAACTCTATTCA
1 ATTACAACTCTATTCC
*
64976946 ATTACAATTCTATTCC
1 ATTACAACTCTATTCC
64976962 ATTACA
1 ATTACA
64976968 GTGAACCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.33, C:0.26, G:0.02, T:0.39
Consensus pattern (16 bp):
ATTACAACTCTATTCC
Found at i:64977468 original size:26 final size:24
Alignment explanation
Indices: 64977438--64977523 Score: 82
Period size: 26 Copynumber: 3.3 Consensus size: 24
64977428 GTTATTAAAT
64977438 TTTAATAGGATTATTATTAAATATAA
1 TTTAATA--ATTATTATTAAATATAA
* * * *
64977464 TTTAATAATAAATAATTTAATCATAT
1 TTTAATAAT-TATTATTAAAT-ATAA
64977490 TTTAATATAATTATTATTAAATATAA
1 TTT-A-ATAATTATTATTAAATATAA
64977516 TTTAATAA
1 TTTAATAA
64977524 AAAAATATAT
Statistics
Matches: 48, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
24 6 0.12
25 9 0.19
26 19 0.40
27 9 0.19
28 5 0.10
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (24 bp):
TTTAATAATTATTATTAAATATAA
Found at i:64978489 original size:20 final size:19
Alignment explanation
Indices: 64978451--64978488 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
64978441 GGAGGAAAAA
64978451 AAAATTTTAATCATTTTTT
1 AAAATTTTAATCATTTTTT
64978470 AAAATTTATAAT-ATTTTTT
1 AAAATTT-TAATCATTTTTT
64978489 TGAATATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (19 bp):
AAAATTTTAATCATTTTTT
Found at i:64991436 original size:7 final size:7
Alignment explanation
Indices: 64991424--64991462 Score: 60
Period size: 7 Copynumber: 5.4 Consensus size: 7
64991414 AGCATACAAA
64991424 GGTTTAG
1 GGTTTAG
64991431 GGTTTAG
1 GGTTTAG
*
64991438 GATTTAG
1 GGTTTAG
64991445 GGTTTTAG
1 GG-TTTAG
64991453 GGTTTAG
1 GGTTTAG
64991460 GGT
1 GGT
64991463 AAGTGTTCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 22 0.76
8 7 0.24
ACGTcount: A:0.15, C:0.00, G:0.41, T:0.44
Consensus pattern (7 bp):
GGTTTAG
Found at i:64991453 original size:15 final size:15
Alignment explanation
Indices: 64991426--64991462 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
64991416 CATACAAAGG
64991426 TTTAGGG-TTTAGGA
1 TTTAGGGTTTTAGGA
*
64991440 TTTAGGGTTTTAGGG
1 TTTAGGGTTTTAGGA
64991455 TTTAGGGT
1 TTTAGGGT
64991463 AAGTGTTCCG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.16, C:0.00, G:0.38, T:0.46
Consensus pattern (15 bp):
TTTAGGGTTTTAGGA
Found at i:64993670 original size:239 final size:237
Alignment explanation
Indices: 64993237--64993713 Score: 828
Period size: 239 Copynumber: 2.0 Consensus size: 237
64993227 TTTCTTGTCC
*
64993237 ACACGGCCACGTGACTGGTCGTATGTCCCCTTTAGGTTTTTAAAGTTGCATTTCGAGAGTGACAC
1 ACACAGCCACGTGACTGGTCGTATGTCCCCTTTAGGTTTTTAAAGTTGCATTTCGAGAGTGACAC
*
64993302 GGCATGGCACACGGGTGTGTGACTTGGCTGTGTAACCCAAGTCAGAGAGTTACACGGGCACGGAC
66 GGCATGGCACACGGGTGTGTGACTTGGCTGTGTAACCCAAGTCAGAGAGTTACACGGGCACGAAC
*
64993367 ACGGGCTGGGATATGGTCGTGAGTCCCTACTTTGAACGCCCACACGGCCTGAGACACAAGCATGT
131 ACGGGCTGGGATATGGTCGTGAGTCCCTACTTTGAACACCCACACGGCCTGAGACACAAGCATGT
64993432 GTCTCAATGTTGTGAGTCATAAGGCTGTGTGATCCCTGTAGT
196 GTCTCAATGTTGTGAGTCATAAGGCTGTGTGATCCCTGTAGT
64993474 ACACAGCCACGTGACATGGTCGTATGTCCCCTTTAGGTTTTTAAAGGTTGCATTTCGAGAGTGAC
1 ACACAGCCACGTGAC-TGGTCGTATGTCCCCTTTAGGTTTTTAAA-GTTGCATTTCGAGAGTGAC
*
64993539 ACGGCCTGGCACACGGGTGTGTGACTTGGCTGTGTAACCCAAGTCAGAGAGTTACACGGGCACGA
64 ACGGCATGGCACACGGGTGTGTGACTTGGCTGTGTAACCCAAGTCAGAGAGTTACACGGGCACGA
* * * *
64993604 ACACGGGCTGGGATATTGTCGTGTGTCCCTACTTTGAATACCCACACGGCCTGAGACACGAGCAT
129 ACACGGGCTGGGATATGGTCGTGAGTCCCTACTTTGAACACCCACACGGCCTGAGACACAAGCAT
* * * *
64993669 GTGTCTTAGTGTTGTGAGTCATAAGGTTGTGTGATCCTTGTAGT
194 GTGTCTCAATGTTGTGAGTCATAAGGCTGTGTGATCCCTGTAGT
64993713 A
1 A
64993714 TTAATTTTTC
Statistics
Matches: 226, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
237 14 0.06
238 29 0.13
239 183 0.81
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.26
Consensus pattern (237 bp):
ACACAGCCACGTGACTGGTCGTATGTCCCCTTTAGGTTTTTAAAGTTGCATTTCGAGAGTGACAC
GGCATGGCACACGGGTGTGTGACTTGGCTGTGTAACCCAAGTCAGAGAGTTACACGGGCACGAAC
ACGGGCTGGGATATGGTCGTGAGTCCCTACTTTGAACACCCACACGGCCTGAGACACAAGCATGT
GTCTCAATGTTGTGAGTCATAAGGCTGTGTGATCCCTGTAGT
Found at i:64995021 original size:17 final size:16
Alignment explanation
Indices: 64995001--64995044 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
64994991 TTCCATGCCA
*
64995001 GAAAAAAGTGTAGAAGT
1 GAAAAAAAT-TAGAAGT
*
64995018 GAAAAAAATTCGAAGT
1 GAAAAAAATTAGAAGT
64995034 GAAAAACAATT
1 GAAAAA-AATT
64995045 TTGAAAAGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 12 0.50
17 12 0.50
ACGTcount: A:0.57, C:0.05, G:0.20, T:0.18
Consensus pattern (16 bp):
GAAAAAAATTAGAAGT
Found at i:64995032 original size:16 final size:17
Alignment explanation
Indices: 64995013--64995044 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
64995003 AAAAAGTGTA
64995013 GAAGTGAAAAA-AATTC
1 GAAGTGAAAAACAATTC
64995029 GAAGTGAAAAACAATT
1 GAAGTGAAAAACAATT
64995045 TTGAAAAGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.56, C:0.06, G:0.19, T:0.19
Consensus pattern (17 bp):
GAAGTGAAAAACAATTC
Found at i:64995208 original size:21 final size:18
Alignment explanation
Indices: 64995158--64995220 Score: 56
Period size: 18 Copynumber: 3.3 Consensus size: 18
64995148 TAGCATGAAT
*
64995158 AAGAAAAAGAAATT-GAAA
1 AAGAAAAAG-AGTTAGAAA
64995176 AAGAAAAAGAGTATGAGAGAA
1 AAGAAAAAGAGT-T-AGA-AA
**
64995197 AAGAAATTGAGTTAGAAA
1 AAGAAAAAGAGTTAGAAA
64995215 AAGAAA
1 AAGAAA
64995221 GTGAACATGA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
17 2 0.05
18 18 0.47
19 3 0.08
20 3 0.08
21 12 0.32
ACGTcount: A:0.65, C:0.00, G:0.22, T:0.13
Consensus pattern (18 bp):
AAGAAAAAGAGTTAGAAA
Found at i:65007022 original size:47 final size:47
Alignment explanation
Indices: 65006948--65007077 Score: 190
Period size: 47 Copynumber: 2.8 Consensus size: 47
65006938 ATAATCGATT
* *
65006948 AGTACCTATACCATGGCCCATAGCCAAATAAAGGTAATTTAT-CTCAG
1 AGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTTATCCT-AG
* *
65006995 AGTACCTATACCATGGCCCATATCCAAATCAAGGTAACTTATCCTGG
1 AGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTTATCCTAG
* *
65007042 AGTACCTATAGCATGGCCCGTAGCCAAATCAAGGTA
1 AGTACCTATACCATGGCCCATAGCCAAATCAAGGTA
65007078 TCTCCTTCCA
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
47 73 0.97
48 2 0.03
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (47 bp):
AGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTTATCCTAG
Found at i:65007116 original size:94 final size:94
Alignment explanation
Indices: 65006948--65007124 Score: 216
Period size: 94 Copynumber: 1.9 Consensus size: 94
65006938 ATAATCGATT
* *
65006948 AGTACCTATACCATGGCCCATAGCCAAATAAAGGTAATTTATCTCAGAGTACCTATACCATGGCC
1 AGTACCTATACCATGGCCCATAGCCAAATAAAGGTAATTTATCTCAAAATACCTATACCATGGCC
*
65007013 CATATCCAAATCAAGGTAACTTATCCTGG
66 CATACCCAAATCAAGGTAACTTATCCTGG
* * * * *
65007042 AGTACCTATAGCATGGCCCGTAGCCAAATCAAGGT-ATCTCCT-TC-CAAAATATCTATATCATG
1 AGTACCTATACCATGGCCCATAGCCAAATAAAGGTAAT-T--TATCTCAAAATACCTATACCATG
* *
65007104 GCCCGTACCCAAATTAAGGTA
63 GCCCATACCCAAATCAAGGTA
65007125 TAATTCACAC
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
93 2 0.03
94 65 0.93
95 2 0.03
96 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.25
Consensus pattern (94 bp):
AGTACCTATACCATGGCCCATAGCCAAATAAAGGTAATTTATCTCAAAATACCTATACCATGGCC
CATACCCAAATCAAGGTAACTTATCCTGG
Found at i:65013721 original size:13 final size:13
Alignment explanation
Indices: 65013703--65013727 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65013693 CCCAGGGGAC
65013703 ACATAGCCGTGTA
1 ACATAGCCGTGTA
65013716 ACATAGCCGTGT
1 ACATAGCCGTGT
65013728 GTCGCACACG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (13 bp):
ACATAGCCGTGTA
Found at i:65014673 original size:47 final size:47
Alignment explanation
Indices: 65014597--65014769 Score: 213
Period size: 47 Copynumber: 3.7 Consensus size: 47
65014587 ACAATCGATA
* * *
65014597 AGTACCCATACCATGGCCCCTAGCCAAATCAAGGTAACTTATCTTGG
1 AGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTTATCGTGG
*
65014644 AGTACCTATACCATGGCCCATAGCAAAATCAAGGTAACTTATCGTGG
1 AGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTTATCGTGG
* * ** **
65014691 AGTACTTATACCATGGCCCGTAGCCAAATCAAGGTAACTCCTC-TCAA
1 AGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTTATCGT-GG
* * *
65014738 AATACCTATATCATGGCCCGTAGCCAAATCAA
1 AGTACCTATACCATGGCCCATAGCCAAATCAA
65014770 TGTATTATTC
Statistics
Matches: 111, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
46 1 0.01
47 110 0.99
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (47 bp):
AGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTTATCGTGG
Found at i:65016511 original size:56 final size:56
Alignment explanation
Indices: 65016425--65016544 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
65016415 ACAAGGGATG
65016425 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
65016481 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
65016537 ATGGGCAA
1 ATGGGCAA
65016545 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:65017756 original size:40 final size:40
Alignment explanation
Indices: 65017672--65017890 Score: 233
Period size: 40 Copynumber: 5.7 Consensus size: 40
65017662 TCGAATGATG
* * * *
65017672 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
65017712 TCCGGACTAAGAT-CTGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
65017752 TCCGGGCTAAG--CC-----CATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
65017785 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
65017825 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
65017866 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
65017891 AACGAGTAGC
Statistics
Matches: 152, Mismatches: 17, Indels: 20
0.80 0.09 0.11
Matches are distributed among these distances:
33 27 0.18
35 2 0.01
38 1 0.01
40 112 0.74
41 10 0.07
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:65017774 original size:33 final size:33
Alignment explanation
Indices: 65017732--65017795 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
65017722 GATCTGAAGG
* *
65017732 CATTTGTGCGAGATACTAATTCCGGGCTAAGCC
1 CATTGGTGCGAGATACTAAATCCGGGCTAAGCC
* *
65017765 CATTGGTGCGAGTTACTAAATCCGGGTTAAG
1 CATTGGTGCGAGATACTAAATCCGGGCTAAG
65017796 TCCCGAAGGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (33 bp):
CATTGGTGCGAGATACTAAATCCGGGCTAAGCC
Found at i:65017908 original size:80 final size:79
Alignment explanation
Indices: 65017765--65017923 Score: 205
Period size: 80 Copynumber: 2.0 Consensus size: 79
65017755 GGGCTAAGCC
* **
65017765 CATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGG
1 CATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTTACTAAATCC-G
*
65017830 GTTAAGTCCCGAAGG
65 GTTAAATCCCGAAGG
* * *
65017845 CATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC
1 CATTGGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTTA-CTAAATCC
*
65017908 GGTTAAATTCCGAAGG
64 GGTTAAATCCCGAAGG
65017924 TACGTGATTT
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
79 16 0.23
80 51 0.74
81 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
CATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTTACTAAATCCGG
TTAAATCCCGAAGG
Found at i:65024422 original size:56 final size:56
Alignment explanation
Indices: 65024336--65024455 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
65024326 ACAAGGGATG
65024336 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
65024392 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
65024448 ATGGGCAA
1 ATGGGCAA
65024456 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:65025821 original size:40 final size:40
Alignment explanation
Indices: 65025583--65025807 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
65025573 TCGAATGATG
* * * *
65025583 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
65025623 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
65025663 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
65025702 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
65025742 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
65025783 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
65025808 AACGAGTAGC
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 34 0.21
40 121 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:65025829 original size:119 final size:119
Alignment explanation
Indices: 65025583--65025840 Score: 292
Period size: 119 Copynumber: 2.2 Consensus size: 119
65025573 TCGAATGATG
* *
65025583 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* **
65025648 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
* * * **
65025702 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
65025765 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAA
* *
65025822 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
65025841 TACGTGATTT
Statistics
Matches: 118, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
118 3 0.03
119 84 0.71
120 31 0.26
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
Found at i:65029237 original size:59 final size:59
Alignment explanation
Indices: 65029145--65029265 Score: 242
Period size: 59 Copynumber: 2.1 Consensus size: 59
65029135 TACCCAAAAA
65029145 TATTGATAGTGCAGGCAGATCTTCAACGATCCTTGACTCCTGTGCAAGCTGGACGACAC
1 TATTGATAGTGCAGGCAGATCTTCAACGATCCTTGACTCCTGTGCAAGCTGGACGACAC
65029204 TATTGATAGTGCAGGCAGATCTTCAACGATCCTTGACTCCTGTGCAAGCTGGACGACAC
1 TATTGATAGTGCAGGCAGATCTTCAACGATCCTTGACTCCTGTGCAAGCTGGACGACAC
65029263 TAT
1 TAT
65029266 AAGACAAAAG
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 62 1.00
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (59 bp):
TATTGATAGTGCAGGCAGATCTTCAACGATCCTTGACTCCTGTGCAAGCTGGACGACAC
Found at i:65040846 original size:51 final size:51
Alignment explanation
Indices: 65040761--65041010 Score: 326
Period size: 51 Copynumber: 4.9 Consensus size: 51
65040751 GGATACCCGA
* * * *
65040761 TGGCCTGCACATAGTACCAC-CTTTGTAGT-TAAAGCTACCT-TCTTCACAAAG
1 TGGCCTTCACATAGTACCACAC-TTGT-GTCCAAAGCTA-TTATATTCACAAAG
* * *
65040812 TGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTCTTCACAAAG
1 TGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTAT-TATATTCACAAAG
*
65040864 TGGCCTTCACATAGTACCACACCTGTGTCCAAAGCTATTATATTCACAAAG
1 TGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAAG
* *
65040915 TGGCCTTTACATGGTACCACACTTGTGTCCAAAGCTATTATATTCACAAAG
1 TGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAAG
* * *
65040966 TGTCCTTCACATAGTACCACACTTGTGTTCAAAGCTATTTTATTC
1 TGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTC
65041011 CTAAGGTTCA
Statistics
Matches: 179, Mismatches: 16, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
50 1 0.01
51 130 0.73
52 48 0.27
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.31
Consensus pattern (51 bp):
TGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAAG
Found at i:65047474 original size:90 final size:90
Alignment explanation
Indices: 65047308--65047475 Score: 302
Period size: 90 Copynumber: 1.9 Consensus size: 90
65047298 ATATATATGA
65047308 ATATAAATGTGTACGTTAGGCCATGATAAATTCTATAAGTGAAAGTATATGTTATACAAGAAAAT
1 ATATAAATGTGTACGTTAGGCCATGATAAATTCTATAAGTGAAAGTATATGTTATACAAGAAAAT
*
65047373 AGTGAATTTGAATGTCATTTTGTGT
66 AGTGAACTTGAATGTCATTTTGTGT
*
65047398 ATATATATGTGTACGTTAGGCCATGATAAATTCTATAAGTGAAAGTATATGTTATACAAGAAAAT
1 ATATAAATGTGTACGTTAGGCCATGATAAATTCTATAAGTGAAAGTATATGTTATACAAGAAAAT
65047463 AGT-AAGCTTGAAT
66 AGTGAA-CTTGAAT
65047476 TTAAATGTAA
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
89 2 0.03
90 73 0.97
ACGTcount: A:0.39, C:0.07, G:0.18, T:0.35
Consensus pattern (90 bp):
ATATAAATGTGTACGTTAGGCCATGATAAATTCTATAAGTGAAAGTATATGTTATACAAGAAAAT
AGTGAACTTGAATGTCATTTTGTGT
Found at i:65052092 original size:14 final size:14
Alignment explanation
Indices: 65052073--65052100 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
65052063 AGCAAAATTA
65052073 GTACTCATGAAAAT
1 GTACTCATGAAAAT
65052087 GTACTCATGAAAAT
1 GTACTCATGAAAAT
65052101 CCTGCAGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (14 bp):
GTACTCATGAAAAT
Found at i:65053220 original size:13 final size:13
Alignment explanation
Indices: 65053202--65053226 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65053192 GAATGACCAA
65053202 ATGTTTGGCTATG
1 ATGTTTGGCTATG
65053215 ATGTTTGGCTAT
1 ATGTTTGGCTAT
65053227 CTATGTTCTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.08, G:0.28, T:0.48
Consensus pattern (13 bp):
ATGTTTGGCTATG
Found at i:65057724 original size:14 final size:14
Alignment explanation
Indices: 65057705--65057732 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
65057695 AGCAAAATTA
65057705 GTACTCATGAAAAT
1 GTACTCATGAAAAT
65057719 GTACTCATGAAAAT
1 GTACTCATGAAAAT
65057733 CCTGCAGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (14 bp):
GTACTCATGAAAAT
Found at i:65058855 original size:13 final size:13
Alignment explanation
Indices: 65058837--65058861 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65058827 GAATGACCAA
65058837 ATGTTTGGCTATG
1 ATGTTTGGCTATG
65058850 ATGTTTGGCTAT
1 ATGTTTGGCTAT
65058862 CTATGTTCTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.08, G:0.28, T:0.48
Consensus pattern (13 bp):
ATGTTTGGCTATG
Found at i:65065669 original size:22 final size:22
Alignment explanation
Indices: 65065642--65065764 Score: 58
Period size: 22 Copynumber: 5.3 Consensus size: 22
65065632 ATGTGCATAT
65065642 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * *
65065664 ATGTGATGAATG-TGAACAT-GCATA
1 ATGTGAT-AAGGCCG-A-ATGGC-CA
*
65065688 TATGTGATAAGGCCAAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
* *
65065711 ATGTGATGAATGTG-AGCAT-G-CA
1 ATGTGAT-AA-G-GCCGAATGGCCA
65065733 TATGTGTGATAAGGCCGAATGGCCA
1 -A--TGTGATAAGGCCGAATGGCCA
65065758 ATGTGAT
1 ATGTGAT
65065765 GAATATGAAC
Statistics
Matches: 73, Mismatches: 12, Indels: 32
0.62 0.10 0.27
Matches are distributed among these distances:
22 24 0.33
23 17 0.23
24 16 0.22
25 16 0.22
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:65065686 original size:47 final size:47
Alignment explanation
Indices: 65065626--65065810 Score: 280
Period size: 47 Copynumber: 3.9 Consensus size: 47
65065616 GATAATTGTG
**
65065626 ATGTGAATGTGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
*
65065673 ATGTGAACATGCATATATGTGATAAGGCCAAATGGCCAATGTGATGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* *
65065720 ATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* * * * *
65065767 ATATGAACATACATATATGTGGTAAAGCCGAATGGCTAATGTGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGA
65065811 AATATATGTA
Statistics
Matches: 125, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 125 1.00
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.26
Consensus pattern (47 bp):
ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
Found at i:65066067 original size:37 final size:37
Alignment explanation
Indices: 65066015--65066164 Score: 237
Period size: 37 Copynumber: 4.1 Consensus size: 37
65066005 GGAAATATAT
*
65066015 TCCGGGTAAGACCCGATGACTACGTGTGGAGATGATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
65066052 TTCGGGTAAGACCCGATGACTACGTGTGAAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
65066089 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* ** *
65066126 TCCGGGTAAGACCCGATAACTTTGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
65066163 TC
1 TC
65066165 TGAGCTAAAG
Statistics
Matches: 104, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 104 1.00
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:65066083 original size:21 final size:21
Alignment explanation
Indices: 65066022--65066083 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 21
65066012 TATTCCGGGT
65066022 AAGACCCGATGACTACGTGTG
1 AAGACCCGATGACTACGTGTG
* * * *
65066043 GAGA--TGATG--TTCGGGT-
1 AAGACCCGATGACTACGTGTG
65066059 AAGACCCGATGACTACGTGTG
1 AAGACCCGATGACTACGTGTG
65066080 AAGA
1 AAGA
65066084 TTATGTCCGG
Statistics
Matches: 28, Mismatches: 8, Indels: 10
0.61 0.17 0.22
Matches are distributed among these distances:
16 3 0.11
17 5 0.18
18 4 0.14
19 4 0.14
20 5 0.18
21 7 0.25
ACGTcount: A:0.29, C:0.18, G:0.32, T:0.21
Consensus pattern (21 bp):
AAGACCCGATGACTACGTGTG
Found at i:65067781 original size:199 final size:199
Alignment explanation
Indices: 65067441--65067820 Score: 679
Period size: 199 Copynumber: 1.9 Consensus size: 199
65067431 AGTGGTATAC
*
65067441 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGCCCCGAAGAGCATTC
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGCCCCGAAGAGCATTC
* *
65067506 GTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAG
66 GTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAA
*
65067571 CCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGCCCCGAAGAGCATTCGTGCTAGTGAT
131 CCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGCCCCGAAGAGCATTCGTGCTAGTGAT
65067636 GTAT
196 GTAT
65067640 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGCCCCGAAGAGCATTC
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGCCCCGAAGAGCATTC
*
65067705 GTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGTGCTAAA
66 GTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAA
* * * *
65067770 CCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
131 CCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGCCCCGAAGAGCA
65067821 ATCATACTGG
Statistics
Matches: 172, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
199 172 1.00
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.23
Consensus pattern (199 bp):
CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGCCCCGAAGAGCATTC
GTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAA
CCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGCCCCGAAGAGCATTCGTGCTAGTGAT
GTAT
Found at i:65067832 original size:40 final size:40
Alignment explanation
Indices: 65067441--65067820 Score: 647
Period size: 40 Copynumber: 9.6 Consensus size: 40
65067431 AGTGGTATAC
65067441 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
*
65067481 CCGGGCTAAGCCCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
65067521 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
65067561 CCGGGCTAAG-CCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
*
65067600 CCGGGCTAAGCCCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
*
65067640 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
*
65067680 CCGGGCTAAGCCCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
*
65067720 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
* * * * *
65067760 CCGTGCTAA-ACCCGAAGAGCATTCGTGCTGGTGTTATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
*
65067799 CCGGGCTAGGTCCCGAAGAGCA
1 CCGGGCTAAGTCCCGAAGAGCA
65067821 ATCATACTGG
Statistics
Matches: 323, Mismatches: 15, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
39 73 0.23
40 250 0.77
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
Found at i:65068037 original size:25 final size:26
Alignment explanation
Indices: 65067996--65068051 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
65067986 TGTGCAAATA
65067996 CGAATGAATAAGAGCACTAT-GTGTG
1 CGAATGAATAAGAGCACTATGGTGTG
* *
65068021 CGAATG-ATTAGAGGCACTGTGGTGTG
1 CGAATGAATAAGA-GCACTATGGTGTG
65068047 CGAAT
1 CGAAT
65068052 TCCTTTAACC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 5 0.19
25 12 0.44
26 10 0.37
ACGTcount: A:0.30, C:0.12, G:0.32, T:0.25
Consensus pattern (26 bp):
CGAATGAATAAGAGCACTATGGTGTG
Found at i:65071949 original size:22 final size:22
Alignment explanation
Indices: 65071922--65072044 Score: 58
Period size: 22 Copynumber: 5.3 Consensus size: 22
65071912 ATGTGCATAT
65071922 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * *
65071944 ATGTGATGAATG-TGAACAT-GCATA
1 ATGTGAT-AAGGCCG-A-ATGGC-CA
*
65071968 TATGTGATAAGGCCAAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
* *
65071991 ATGTGATGAATGTG-AGCAT-G-CA
1 ATGTGAT-AA-G-GCCGAATGGCCA
65072013 TATGTGTGATAAGGCCGAATGGCCA
1 -A--TGTGATAAGGCCGAATGGCCA
65072038 ATGTGAT
1 ATGTGAT
65072045 GAATATGAAC
Statistics
Matches: 73, Mismatches: 12, Indels: 32
0.62 0.10 0.27
Matches are distributed among these distances:
22 24 0.33
23 17 0.23
24 16 0.22
25 16 0.22
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:65071966 original size:47 final size:47
Alignment explanation
Indices: 65071906--65072090 Score: 289
Period size: 47 Copynumber: 3.9 Consensus size: 47
65071896 GATAATTGTG
**
65071906 ATGTGAATGTGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
*
65071953 ATGTGAACATGCATATATGTGATAAGGCCAAATGGCCAATGTGATGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* *
65072000 ATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* * * *
65072047 ATATGAACATGCATATATGTGGTAAAGCCGAATGGCTAATGTGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGA
65072091 AATATATGTA
Statistics
Matches: 126, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 126 1.00
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.26
Consensus pattern (47 bp):
ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
Found at i:65072364 original size:37 final size:37
Alignment explanation
Indices: 65072295--65072443 Score: 246
Period size: 37 Copynumber: 4.1 Consensus size: 37
65072285 GGAAATATAT
65072295 TCCGGGTAAGACCC-ATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
65072331 TCCGGGTAAGACCCGATGACTACGTGTGAAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
65072368 TCCGGGTAAGTCCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
65072405 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
65072442 TC
1 TC
65072444 TGAGCTAAAG
Statistics
Matches: 105, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
36 14 0.13
37 91 0.87
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:65073686 original size:16 final size:17
Alignment explanation
Indices: 65073667--65073703 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
65073657 ACTAAAAGGT
65073667 TAAACATG-TAAAATAA
1 TAAACATGTTAAAATAA
*
65073683 TAAACATGTTAATATAA
1 TAAACATGTTAAAATAA
65073700 TAAA
1 TAAA
65073704 ACATATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.30
Consensus pattern (17 bp):
TAAACATGTTAAAATAA
Found at i:65077495 original size:36 final size:36
Alignment explanation
Indices: 65077448--65077519 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
65077438 ATCGAAGGAG
* *
65077448 GCTGATGTGTTTTAAAAACTTCAAAATTCATACCTT
1 GCTGATATGTTTTAAAAACTTCAAAACTCATACCTT
65077484 GCTGATATGTTTTAAAAACTTCAAAACTCATACCTT
1 GCTGATATGTTTTAAAAACTTCAAAACTCATACCTT
65077520 ACTTACCTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.38
Consensus pattern (36 bp):
GCTGATATGTTTTAAAAACTTCAAAACTCATACCTT
Found at i:65077860 original size:6 final size:6
Alignment explanation
Indices: 65077851--65077914 Score: 56
Period size: 6 Copynumber: 10.5 Consensus size: 6
65077841 GATCTCGATC
* * * ** **
65077851 TCTTTT TCTTTT TCCTTC TCTTTT TGTTTT TCACTT TCTTTT TCAATT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT
65077899 TCATTTT TCTTTT TCT
1 TC-TTTT TCTTTT TCT
65077915 CATTCTCTTT
Statistics
Matches: 43, Mismatches: 14, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
6 39 0.91
7 4 0.09
ACGTcount: A:0.06, C:0.20, G:0.02, T:0.72
Consensus pattern (6 bp):
TCTTTT
Found at i:65077870 original size:18 final size:19
Alignment explanation
Indices: 65077849--65077914 Score: 73
Period size: 18 Copynumber: 3.6 Consensus size: 19
65077839 TCGATCTCGA
65077849 TCTCTTTTTCTTTTTC-CT
1 TCTCTTTTTCTTTTTCACT
*
65077867 TCTCTTTTTGTTTTTCACT
1 TCTCTTTTTCTTTTTCACT
** *
65077886 T-TCTTTTTCAATTTCATT
1 TCTCTTTTTCTTTTTCACT
*
65077904 TTTCTTTTTCT
1 TCTCTTTTTCT
65077915 CATTCTCTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
18 29 0.73
19 11 0.28
ACGTcount: A:0.06, C:0.21, G:0.02, T:0.71
Consensus pattern (19 bp):
TCTCTTTTTCTTTTTCACT
Found at i:65080425 original size:30 final size:31
Alignment explanation
Indices: 65080367--65080426 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
65080357 AATGGAAAAG
* *
65080367 AAACAAGCTAGAAAGAAGCTAAATTGAGCTC
1 AAACAAGCTAGAAACAAGCTAAAGTGAGCTC
*
65080398 AAACAAGCT-GAAACAAGCTCAAGTGAGCT
1 AAACAAGCTAGAAACAAGCTAAAGTGAGCT
65080427 GATTGGAGCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 17 0.65
31 9 0.35
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (31 bp):
AAACAAGCTAGAAACAAGCTAAAGTGAGCTC
Found at i:65084813 original size:30 final size:31
Alignment explanation
Indices: 65084755--65084814 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
65084745 AATGGAAAAG
* * *
65084755 AAACGAGCTGGAAAGAAGCTAAATTGAGCTC
1 AAACGAGCTGAAAACAAGCTAAAGTGAGCTC
*
65084786 AAACGAGCT-AAAACAAGCTCAAGTGAGCT
1 AAACGAGCTGAAAACAAGCTAAAGTGAGCT
65084815 GATTGGAGCT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 16 0.64
31 9 0.36
ACGTcount: A:0.43, C:0.18, G:0.23, T:0.15
Consensus pattern (31 bp):
AAACGAGCTGAAAACAAGCTAAAGTGAGCTC
Found at i:65086603 original size:27 final size:27
Alignment explanation
Indices: 65086570--65087079 Score: 519
Period size: 27 Copynumber: 18.9 Consensus size: 27
65086560 AATAATGATT
* *
65086570 GAAATACCCCTATAAGGTAAAATAACC
1 GAAATACCCCCATAAGGTAAAATGACC
*
65086597 AAAATACCCCCAT-AGGATAAAATGACC
1 GAAATACCCCCATAAGG-TAAAATGACC
* *
65086624 AAAACACCCCCAT-AGGATAAAATGACC
1 GAAATACCCCCATAAGG-TAAAATGACC
* * *
65086651 AAAACACCCCCATAGGGTAAAATGACC
1 GAAATACCCCCATAAGGTAAAATGACC
* *
65086678 GAAATACCCCCATATGGTAAAATGAAC
1 GAAATACCCCCATAAGGTAAAATGACC
*
65086705 GAAATACCCCCATAGGGTAAAATGACC
1 GAAATACCCCCATAAGGTAAAATGACC
* * *
65086732 GAAACACCCTCATAGGGTAAAATGACC
1 GAAATACCCCCATAAGGTAAAATGACC
* * *
65086759 GAAACACCCTCAT-AGGATAAAATGATC
1 GAAATACCCCCATAAGG-TAAAATGACC
*
65086786 GAAATACCCCCATAAGGTAAAATGATC
1 GAAATACCCCCATAAGGTAAAATGACC
* *
65086813 GAAACACCCCCATAGGGTAAAATGACC
1 GAAATACCCCCATAAGGTAAAATGACC
* ** * *
65086840 AAAATACCCTTATAAGATAAAATGACT
1 GAAATACCCCCATAAGGTAAAATGACC
* * * **
65086867 GAAACACCCTCATAGGGTAAAATGATT
1 GAAATACCCCCATAAGGTAAAATGACC
* *
65086894 GAAACACCCCCA-AAGGATAAAATGACT
1 GAAATACCCCCATAAGG-TAAAATGACC
65086921 GAAATACCCCCAT-AGGATAAAATGACC
1 GAAATACCCCCATAAGG-TAAAATGACC
* * *
65086948 AAAATACCCCCATAGGGTAAAATGACT
1 GAAATACCCCCATAAGGTAAAATGACC
*
65086975 GAAATACCCCTATAAGGTAAAATGACC
1 GAAATACCCCCATAAGGTAAAATGACC
* *
65087002 GAAATACCCCCATAGGGTAAAATGACT
1 GAAATACCCCCATAAGGTAAAATGACC
* ** * *
65087029 GTAATACCCCTGTAGGGTAAAATGACT
1 GAAATACCCCCATAAGGTAAAATGACC
* **
65087056 GTAATA-CCCTGTAAGGTAAAATGA
1 GAAATACCCCCATAAGGTAAAATGA
65087080 TTGTTTTGCC
Statistics
Matches: 424, Mismatches: 52, Indels: 15
0.86 0.11 0.03
Matches are distributed among these distances:
26 25 0.06
27 392 0.92
28 7 0.02
ACGTcount: A:0.44, C:0.23, G:0.15, T:0.17
Consensus pattern (27 bp):
GAAATACCCCCATAAGGTAAAATGACC
Found at i:65086699 original size:81 final size:81
Alignment explanation
Indices: 65086570--65087054 Score: 612
Period size: 81 Copynumber: 6.0 Consensus size: 81
65086560 AATAATGATT
* * * * * * *
65086570 GAAATACCCCTATAAGGTAAAATAACCAAAATACCCCCATAGGATAAAATGACCAAAACACCCCC
1 GAAACACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGATAAAATGACCGAAATACCCCC
*
65086635 ATAGGATAAAATGACC
66 ATAGGGTAAAATGACC
* *
65086651 AAAACACCCCCATAGGGTAAAATGACCGAAATACCCCCATATGG-TAAAATGAACGAAATACCCC
1 GAAACACCCCCATAGGGTAAAATGACCGAAATACCCCCATA-GGATAAAATGACCGAAATACCCC
65086715 CATAGGGTAAAATGACC
65 CATAGGGTAAAATGACC
* * * *
65086732 GAAACACCCTCATAGGGTAAAATGACCGAAACACCCTCATAGGATAAAATGATCGAAATACCCCC
1 GAAACACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGATAAAATGACCGAAATACCCCC
* *
65086797 ATAAGGTAAAATGATC
66 ATAGGGTAAAATGACC
* ** * * * *
65086813 GAAACACCCCCATAGGGTAAAATGACCAAAATACCCTTATAAGATAAAATGACTGAAACACCCTC
1 GAAACACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGATAAAATGACCGAAATACCCCC
**
65086878 ATAGGGTAAAATGATT
66 ATAGGGTAAAATGACC
* * * *
65086894 GAAACACCCCCAAAGGATAAAATGACTGAAATACCCCCATAGGATAAAATGACCAAAATACCCCC
1 GAAACACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGATAAAATGACCGAAATACCCCC
*
65086959 ATAGGGTAAAATGACT
66 ATAGGGTAAAATGACC
* * * * * * *
65086975 GAAATACCCCTATAAGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACTGTAATACCCCT
1 GAAACACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGATAAAATGACCGAAATACCCCC
*
65087040 GTAGGGTAAAATGAC
66 ATAGGGTAAAATGAC
65087055 TGTAATACCC
Statistics
Matches: 350, Mismatches: 52, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
80 2 0.01
81 346 0.99
82 2 0.01
ACGTcount: A:0.44, C:0.24, G:0.15, T:0.17
Consensus pattern (81 bp):
GAAACACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGATAAAATGACCGAAATACCCCC
ATAGGGTAAAATGACC
Found at i:65087105 original size:27 final size:27
Alignment explanation
Indices: 65087070--65087205 Score: 157
Period size: 27 Copynumber: 5.0 Consensus size: 27
65087060 TACCCTGTAA
*
65087070 GGTAAAATGATTGTTTTGCCCTTATGT
1 GGTAAAATGACTGTTTTGCCCTTATGT
* * **
65087097 GTTAGAATGACAATTTTGCCCTTATGT
1 GGTAAAATGACTGTTTTGCCCTTATGT
**
65087124 GGTAAAATGAC-GATTTTGCCCTTATAA
1 GGTAAAATGACTG-TTTTGCCCTTATGT
*
65087151 GGTAAAATGACTATTTTGCCCTTATGT
1 GGTAAAATGACTGTTTTGCCCTTATGT
** *
65087178 GGTAGGATGACTGTTTTGCCCCTATGT
1 GGTAAAATGACTGTTTTGCCCTTATGT
65087205 G
1 G
65087206 ATGTATGTTT
Statistics
Matches: 90, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
27 90 1.00
ACGTcount: A:0.24, C:0.15, G:0.22, T:0.39
Consensus pattern (27 bp):
GGTAAAATGACTGTTTTGCCCTTATGT
Found at i:65087535 original size:18 final size:18
Alignment explanation
Indices: 65087509--65087581 Score: 92
Period size: 18 Copynumber: 4.1 Consensus size: 18
65087499 GGACTTGCAA
* *
65087509 ACTGCTTACTGTTATTGC
1 ACTGTTTACTGTTACTGC
65087527 ACTGTTTACTGTTACTGC
1 ACTGTTTACTGTTACTGC
** * *
65087545 ACTAATTACCGTTACTGT
1 ACTGTTTACTGTTACTGC
65087563 ACTGTTTACTGTTACTGC
1 ACTGTTTACTGTTACTGC
65087581 A
1 A
65087582 ATGGGCCAAG
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 45 1.00
ACGTcount: A:0.21, C:0.22, G:0.15, T:0.42
Consensus pattern (18 bp):
ACTGTTTACTGTTACTGC
Found at i:65090030 original size:7 final size:7
Alignment explanation
Indices: 65090014--65090075 Score: 61
Period size: 7 Copynumber: 8.7 Consensus size: 7
65090004 TAATTACACG
*
65090014 AAACCAT
1 AAACCCT
65090021 AAACCCT
1 AAACCCT
*
65090028 AAAACCT
1 AAACCCT
65090035 AAACCCT
1 AAACCCT
*
65090042 AAAATCCT
1 -AAACCCT
*
65090050 AAATCCT
1 AAACCCT
*
65090057 AAATCCT
1 AAACCCT
*
65090064 AAACCTT
1 AAACCCT
65090071 AAACC
1 AAACC
65090076 ATTTAAGTGA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
7 42 0.88
8 6 0.12
ACGTcount: A:0.48, C:0.32, G:0.00, T:0.19
Consensus pattern (7 bp):
AAACCCT
Found at i:65090039 original size:14 final size:14
Alignment explanation
Indices: 65090014--65090073 Score: 75
Period size: 14 Copynumber: 4.1 Consensus size: 14
65090004 TAATTACACG
65090014 AAACCATAAACCCTA
1 AAACC-TAAACCCTA
65090029 AAACCTAAACCCTA
1 AAACCTAAACCCTA
*
65090043 AAATCCTAAATCCTA
1 AAA-CCTAAACCCTA
* *
65090058 AATCCTAAACCTTA
1 AAACCTAAACCCTA
65090072 AA
1 AA
65090074 CCATTTAAGT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
14 23 0.57
15 17 0.43
ACGTcount: A:0.50, C:0.30, G:0.00, T:0.20
Consensus pattern (14 bp):
AAACCTAAACCCTA
Found at i:65090057 original size:22 final size:22
Alignment explanation
Indices: 65090025--65090066 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
65090015 AACCATAAAC
65090025 CCTAAAACCTAAACCCTAAAAT
1 CCTAAAACCTAAACCCTAAAAT
* *
65090047 CCTAAATCCTAAATCCTAAA
1 CCTAAAACCTAAACCCTAAA
65090067 CCTTAAACCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.48, C:0.31, G:0.00, T:0.21
Consensus pattern (22 bp):
CCTAAAACCTAAACCCTAAAAT
Found at i:65090799 original size:48 final size:47
Alignment explanation
Indices: 65090719--65091029 Score: 302
Period size: 48 Copynumber: 6.5 Consensus size: 47
65090709 GGGTGTTGCA
65090719 ATGTCTGGGACATGGCATCGGCCACAT-A-ATGGGAGCCAGTGTAAGACC
1 ATGTCTGGGACATGGCATCGG---CATGACATGGGAGCCAGTGTAAGACC
* * ** *
65090767 ATGTTTGGAACATGGCATCGGCGATGTTATGGGAGCCAGAGTAAGACC
1 ATGTCTGGGACATGGCATCGGC-ATGACATGGGAGCCAGTGTAAGACC
* * * * *
65090815 ATGTCTGGGACATGGCATCGACATTGAGAAGAGAGCTAGTGTAAGACC
1 ATGTCTGGGACATGGCATCGGCA-TGACATGGGAGCCAGTGTAAGACC
* * * * * **
65090863 ATGTCTAGGACATGGAATCAGCCTCGACGTATGAGCCAGTGTAAGACC
1 ATGTCTGGGACATGGCATCGGCAT-GACATGGGAGCCAGTGTAAGACC
* ** * *
65090911 ATGTCTGGGACATGGCATCGGCCTCGACATCTGAGCTAGTGTAAGACT
1 ATGTCTGGGACATGGCATCGGCAT-GACATGGGAGCCAGTGTAAGACC
* *
65090959 ATGTCTGGGACATGGCATCGGCCTCGACATGTGAGCCAGTGTAAGACC
1 ATGTCTGGGACATGGCATCGGCAT-GACATGGGAGCCAGTGTAAGACC
* *
65091007 ATGTCTAGGACATGGCCTCGGCA
1 ATGTCTGGGACATGGCATCGGCA
65091030 ATTTACCCTC
Statistics
Matches: 221, Mismatches: 37, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
45 1 0.00
46 2 0.01
47 2 0.01
48 216 0.98
ACGTcount: A:0.26, C:0.22, G:0.31, T:0.22
Consensus pattern (47 bp):
ATGTCTGGGACATGGCATCGGCATGACATGGGAGCCAGTGTAAGACC
Found at i:65091000 original size:144 final size:144
Alignment explanation
Indices: 65090751--65091021 Score: 373
Period size: 144 Copynumber: 1.9 Consensus size: 144
65090741 CACATAATGG
* ** *
65090751 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCGATGTTATGGGAGCCAGAGTAAGACCA
1 GAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGGCGATGACATCGGAGCCAGAGTAAGACCA
* * *
65090816 TGTCTGGGACATGGCATCGACATTGAGAAGAGAGCTAGTGTAAGACCATGTCTAGGACATGGAAT
66 TGTCTGGGACATGGCATCGACATCGACAAGAGAGCCAGTGTAAGACCATGTCTAGGACATGGAAT
65090881 CAGCCTCGACGTAT
131 CAGCCTCGACGTAT
* * * * * *
65090895 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGACATCTGAGCTAGTGTAAGACT
1 GAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGGCGAT-GACATCGGAGCCAGAGTAAGACC
* * * *
65090959 ATGTCTGGGACATGGCATCGGCCTCGACATGTGAGCCAGTGTAAGACCATGTCTAGGACATGG
65 ATGTCTGGGACATGGCATCGACATCGACAAGAGAGCCAGTGTAAGACCATGTCTAGGACATGG
65091022 CCTCGGCAAT
Statistics
Matches: 109, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
143 1 0.01
144 108 0.99
ACGTcount: A:0.27, C:0.21, G:0.31, T:0.22
Consensus pattern (144 bp):
GAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGGCGATGACATCGGAGCCAGAGTAAGACCA
TGTCTGGGACATGGCATCGACATCGACAAGAGAGCCAGTGTAAGACCATGTCTAGGACATGGAAT
CAGCCTCGACGTAT
Found at i:65091028 original size:96 final size:96
Alignment explanation
Indices: 65090719--65091029 Score: 340
Period size: 96 Copynumber: 3.2 Consensus size: 96
65090709 GGGTGTTGCA
* ** * * *
65090719 ATGTCTGGGACATGGCATCGGCCA-C-ATAATGGGAGCCAGTGTAAGACCATGTTTGGAACATGG
1 ATGTCTGGGACATGGCATCGG-CATCGACAA-CAGAGCTAGTGTAAGACCATGTCTGGGACATGG
* ** * *
65090782 CATCGGCGAT-GTTATGGGAGCCAGAGTAAGACC
64 CATCGGC-CTCGACATGTGAGCCAGTGTAAGACC
* * * * * *
65090815 ATGTCTGGGACATGGCATCGACATTGAGAAGAGAGCTAGTGTAAGACCATGTCTAGGACATGGAA
1 ATGTCTGGGACATGGCATCGGCATCGACAACAGAGCTAGTGTAAGACCATGTCTGGGACATGGCA
* * *
65090880 TCAGCCTCGACGTATGAGCCAGTGTAAGACC
66 TCGGCCTCGACATGTGAGCCAGTGTAAGACC
* * * *
65090911 ATGTCTGGGACATGGCATCGGCCTCGACATCTGAGCTAGTGTAAGACTATGTCTGGGACATGGCA
1 ATGTCTGGGACATGGCATCGGCATCGACAACAGAGCTAGTGTAAGACCATGTCTGGGACATGGCA
65090976 TCGGCCTCGACATGTGAGCCAGTGTAAGACC
66 TCGGCCTCGACATGTGAGCCAGTGTAAGACC
* *
65091007 ATGTCTAGGACATGGCCTCGGCA
1 ATGTCTGGGACATGGCATCGGCA
65091030 ATTTACCCTC
Statistics
Matches: 179, Mismatches: 33, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
95 3 0.02
96 173 0.97
97 3 0.02
ACGTcount: A:0.26, C:0.22, G:0.31, T:0.22
Consensus pattern (96 bp):
ATGTCTGGGACATGGCATCGGCATCGACAACAGAGCTAGTGTAAGACCATGTCTGGGACATGGCA
TCGGCCTCGACATGTGAGCCAGTGTAAGACC
Found at i:65098278 original size:18 final size:19
Alignment explanation
Indices: 65098238--65098287 Score: 75
Period size: 18 Copynumber: 2.6 Consensus size: 19
65098228 TTACAAAAAG
65098238 TATCGATATCCATATGATTTT
1 TATCGATA-CCATAT-ATTTT
65098259 TATCGATACCATAT-TTTT
1 TATCGATACCATATATTTT
65098277 TATCGATACCA
1 TATCGATACCA
65098288 AAGTTGCTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
18 15 0.52
20 6 0.21
21 8 0.28
ACGTcount: A:0.30, C:0.18, G:0.08, T:0.44
Consensus pattern (19 bp):
TATCGATACCATATATTTT
Found at i:65100405 original size:29 final size:29
Alignment explanation
Indices: 65100372--65100430 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
65100362 TGAGATTATG
65100372 TGTAAATTCCTTTCGAGATGGTACAGGTA
1 TGTAAATTCCTTTCGAGATGGTACAGGTA
*
65100401 TGTAAATTCCTTTTGAGATGGTACAGGTA
1 TGTAAATTCCTTTCGAGATGGTACAGGTA
65100430 T
1 T
65100431 TACTTGAAGC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.37
Consensus pattern (29 bp):
TGTAAATTCCTTTCGAGATGGTACAGGTA
Found at i:65104268 original size:34 final size:34
Alignment explanation
Indices: 65104225--65104292 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
65104215 ATTTGAAAAG
*
65104225 TAAGTTTGTGGAATACCGAGTCTTCCATGTTGGT
1 TAAGTTTGTGGAATACCGAGTCTCCCATGTTGGT
* *
65104259 TAAGTTTGTGGAATATCGAGTCTCCCGTGTTGGT
1 TAAGTTTGTGGAATACCGAGTCTCCCATGTTGGT
65104293 CTTGTAAGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.19, C:0.15, G:0.28, T:0.38
Consensus pattern (34 bp):
TAAGTTTGTGGAATACCGAGTCTCCCATGTTGGT
Found at i:65109914 original size:11 final size:11
Alignment explanation
Indices: 65109898--65109925 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
65109888 TCAAGATGTG
65109898 GAATACATCAT
1 GAATACATCAT
65109909 GAATACATCAT
1 GAATACATCAT
65109920 GAATAC
1 GAATAC
65109926 GATCCAACTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.46, C:0.18, G:0.11, T:0.25
Consensus pattern (11 bp):
GAATACATCAT
Found at i:65117898 original size:39 final size:40
Alignment explanation
Indices: 65117718--65117898 Score: 267
Period size: 40 Copynumber: 4.5 Consensus size: 40
65117708 CGGATGATAA
*
65117718 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATGAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-AT
*
65117759 AACCGGGCTAAGTCCCGAAGGTATTTGTGCGAGTTACTATAT
1 --CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
65117801 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
65117841 CCGGGCTAAGTCCCGAAGGCAGTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
65117881 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
65117899 TACTTGGTTT
Statistics
Matches: 131, Mismatches: 6, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
39 17 0.13
40 76 0.58
42 2 0.02
43 36 0.27
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:65122783 original size:18 final size:18
Alignment explanation
Indices: 65122760--65122800 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
65122750 AAAATTTTAA
* * *
65122760 AATTGTCTATCTATGTAT
1 AATTGTATATCCATATAT
65122778 AATTGTATATCCATATAT
1 AATTGTATATCCATATAT
65122796 AATTG
1 AATTG
65122801 ATTTGATTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.46
Consensus pattern (18 bp):
AATTGTATATCCATATAT
Found at i:65123455 original size:43 final size:43
Alignment explanation
Indices: 65123339--65123457 Score: 132
Period size: 43 Copynumber: 2.8 Consensus size: 43
65123329 TTTAGTAAAG
* * * * *
65123339 CACTAATGATCATGTTCTATGGCGACATTTGTAGTAAAAGCGT
1 CACTAAAGATCATGTTCTATAGCGGCGTTTGTGGTAAAAGCGT
* *
65123382 CACTAAAGATCATGTTCTTTAGCGGTGTTTGTGGTAAAAGCG-
1 CACTAAAGATCATGTTCTATAGCGGCGTTTGTGGTAAAAGCGT
* * *
65123424 CTACTAAAGGTGATGTTCTATAGTGGCGTTTGTG
1 C-ACTAAAGATCATGTTCTATAGCGGCGTTTGTG
65123458 AGAAAACGCC
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
42 1 0.02
43 62 0.98
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.34
Consensus pattern (43 bp):
CACTAAAGATCATGTTCTATAGCGGCGTTTGTGGTAAAAGCGT
Found at i:65130334 original size:40 final size:39
Alignment explanation
Indices: 65130145--65130327 Score: 192
Period size: 40 Copynumber: 4.6 Consensus size: 39
65130135 GAATGATGTT
* * * *
65130145 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AAC
* *
65130185 CGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATTC
1 CGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-AC
*
65130225 CGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA-C
* * *
65130264 CAGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AAC
*
65130304 CGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
65130328 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
39 34 0.28
40 77 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAC
Found at i:65130349 original size:79 final size:79
Alignment explanation
Indices: 65130199--65130350 Score: 202
Period size: 79 Copynumber: 1.9 Consensus size: 79
65130189 CTAAGATCCG
* **
65130199 AAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATC
1 AAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAATC
65130264 CAGGTTAAGTCCCA
66 CAGGTTAAGTCCCA
* * *
65130278 AAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTAT
1 AAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAA
65130341 ATCC-GGTTAA
63 ATCCAGGTTAA
65130351 ATTTCGAAGG
Statistics
Matches: 64, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
78 2 0.03
79 38 0.59
80 24 0.38
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.26
Consensus pattern (79 bp):
AAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAATC
CAGGTTAAGTCCCA
Found at i:65138814 original size:40 final size:37
Alignment explanation
Indices: 65138769--65138860 Score: 107
Period size: 40 Copynumber: 2.4 Consensus size: 37
65138759 TAGCTACTTT
65138769 CAAATGCTTCGGGACATAGCCCGG-TTATAGTAACTCGCCA
1 CAAATGCTTCGGGACAT--CCCGGATT-TAGTAACTCG-CA
65138809 CAAATGTCCTTCGGGACATCCCGGATTTAGTAACTCGCA
1 CAAATG--CTTCGGGACATCCCGGATTTAGTAACTCGCA
*
65138848 C-AATACTTCGGGA
1 CAAATGCTTCGGGA
65138861 ACTTAATCCG
Statistics
Matches: 48, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
36 8 0.17
38 3 0.06
39 3 0.06
40 21 0.44
41 2 0.04
42 11 0.23
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (37 bp):
CAAATGCTTCGGGACATCCCGGATTTAGTAACTCGCA
Found at i:65141286 original size:1 final size:1
Alignment explanation
Indices: 65141280--65141304 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
65141270 ATCGTTCAGG
65141280 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
65141305 TGATCGTCTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:65147237 original size:40 final size:40
Alignment explanation
Indices: 65147132--65147277 Score: 181
Period size: 40 Copynumber: 3.6 Consensus size: 40
65147122 GCTACTCGTT
*
65147132 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
65147172 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
65147212 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
65147253 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
65147278 CATCATTCAA
Statistics
Matches: 93, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
39 3 0.03
40 77 0.83
41 13 0.14
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:65154491 original size:47 final size:47
Alignment explanation
Indices: 65154440--65154986 Score: 862
Period size: 47 Copynumber: 11.6 Consensus size: 47
65154430 GATAATTGTG
* * *
65154440 ATGTGAATGTATATATGTGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * *
65154487 ATGTGAAAGTATATATATGTGATAAGGTCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
65154534 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
65154583 ATGTGAAAGTGTATATATGTGATAAGG-CTGAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCT-AATGGCCGATGTGATGA
65154630 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
65154677 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
65154724 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
65154771 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
65154818 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGGCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
65154867 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
65154914 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
65154961 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
65154987 TCCTGAAGGG
Statistics
Matches: 465, Mismatches: 29, Indels: 12
0.92 0.06 0.02
Matches are distributed among these distances:
46 2 0.00
47 372 0.80
48 2 0.00
49 89 0.19
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:65154587 original size:143 final size:143
Alignment explanation
Indices: 65154440--65154986 Score: 879
Period size: 143 Copynumber: 3.9 Consensus size: 143
65154430 GATAATTGTG
* * * * *
65154440 ATGTGAATGTATATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
*
65154505 GTGATAAGGTCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
66 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
65154570 GCCGATGTGATGA
131 GCCGATGTGATGA
*
65154583 ATGTGAAAGTGTATATATGTGATAAGG-CTGAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 ATGTGAAAGTGTATATATGTGATAAGGCCT-AATAGCCGATGTGATGAATGTGAAAGTGTATATA
* * *
65154647 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATGAGGCCTAAT
65 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
65154710 GGCCGATGTGATGA
130 GGCCGATGTGATGA
65154724 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
* * *
65154789 GTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
66 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
*
65154854 GGCGATGTGATGA
131 GCCGATGTGATGA
65154867 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
* * * * *
65154932 GTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
66 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
65154987 TCCTGAAGGG
Statistics
Matches: 380, Mismatches: 20, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
141 145 0.38
142 5 0.01
143 230 0.61
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (143 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
GCCGATGTGATGA
Found at i:65159076 original size:45 final size:45
Alignment explanation
Indices: 65159020--65159106 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
65159010 GACAATAAAT
* * * *
65159020 TACGGTTACTTAAGTGTTCTAAATAGATTTAATTCATATTTATAA
1 TACGATTACTTAAGTGTTCTAAATAGATATAAGTCAAATTTATAA
65159065 TACGATTACTTAAGTGTTCTAAATAGATATAAGTCAAATTTA
1 TACGATTACTTAAGTGTTCTAAATAGATATAAGTCAAATTTA
65159107 AGGCTGTAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.41
Consensus pattern (45 bp):
TACGATTACTTAAGTGTTCTAAATAGATATAAGTCAAATTTATAA
Found at i:65159089 original size:23 final size:23
Alignment explanation
Indices: 65159015--65159089 Score: 66
Period size: 23 Copynumber: 3.3 Consensus size: 23
65159005 AAATTGACAA
*
65159015 TAAATTACGGTTACTTAAGTGTTC
1 TAAA-TACGATTACTTAAGTGTTC
* * *
65159039 TAAATA-GATTTAATTCA-TATT-
1 TAAATACGA-TTACTTAAGTGTTC
65159060 TATAATACGATTACTTAAGTGTTC
1 TA-AATACGATTACTTAAGTGTTC
65159084 TAAATA
1 TAAATA
65159090 GATATAAGTC
Statistics
Matches: 39, Mismatches: 7, Indels: 11
0.68 0.12 0.19
Matches are distributed among these distances:
21 2 0.05
22 14 0.36
23 17 0.44
24 6 0.15
ACGTcount: A:0.37, C:0.09, G:0.11, T:0.43
Consensus pattern (23 bp):
TAAATACGATTACTTAAGTGTTC
Found at i:65160294 original size:11 final size:11
Alignment explanation
Indices: 65160265--65160298 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
65160255 GTTTTCCAAA
65160265 AAACAAAATATT
1 AAACAAAAT-TT
*
65160277 TAACAAAATTT
1 AAACAAAATTT
65160288 AAACAAAATTT
1 AAACAAAATTT
65160299 GATAAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 12 0.60
12 8 0.40
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.29
Consensus pattern (11 bp):
AAACAAAATTT
Found at i:65160315 original size:17 final size:18
Alignment explanation
Indices: 65160293--65160333 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
65160283 AATTTAAACA
65160293 AAATTTGATAAAAATAC-
1 AAATTTGATAAAAATACT
*
65160310 AAATTTGATAGAAATACT
1 AAATTTGATAAAAATACT
65160328 AAATTT
1 AAATTT
65160334 AAAAAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 16 0.73
18 6 0.27
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.34
Consensus pattern (18 bp):
AAATTTGATAAAAATACT
Found at i:65161385 original size:21 final size:21
Alignment explanation
Indices: 65161361--65161400 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
65161351 ATAAACTTTT
*
65161361 CAATTCATTGTATAAAACAAA
1 CAATACATTGTATAAAACAAA
**
65161382 CAATAGGTTGTATAAAACA
1 CAATACATTGTATAAAACA
65161401 GTATACTTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (21 bp):
CAATACATTGTATAAAACAAA
Found at i:65162425 original size:40 final size:41
Alignment explanation
Indices: 65162364--65162463 Score: 116
Period size: 41 Copynumber: 2.5 Consensus size: 41
65162354 TTTTATGGGT
* * * *
65162364 AAAATGCTGCTATTGC-GTACCTTTTGTGGCGTTTATT-T-A
1 AAAATGCCGCTACTGCTTTACCTTTTGTGACGTTT-TTCTCA
65162403 AAAATGCCGCTACTGCTTTACCTTTTGTGACGTTTTTCTCA
1 AAAATGCCGCTACTGCTTTACCTTTTGTGACGTTTTTCTCA
* *
65162444 TAAACGCCGCTACTGCTTTA
1 AAAATGCCGCTACTGCTTTA
65162464 TTTATTGTGG
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
39 16 0.31
40 17 0.33
41 19 0.37
ACGTcount: A:0.21, C:0.22, G:0.17, T:0.40
Consensus pattern (41 bp):
AAAATGCCGCTACTGCTTTACCTTTTGTGACGTTTTTCTCA
Found at i:65163189 original size:7 final size:7
Alignment explanation
Indices: 65163177--65163208 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
65163167 GATTTTTAAA
65163177 TAATATG
1 TAATATG
65163184 TAATATG
1 TAATATG
65163191 TAATATG
1 TAATATG
*
65163198 TAATATT
1 TAATATG
65163205 TAAT
1 TAAT
65163209 TTAAATTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (7 bp):
TAATATG
Found at i:65163230 original size:22 final size:22
Alignment explanation
Indices: 65163204--65163274 Score: 64
Period size: 21 Copynumber: 3.4 Consensus size: 22
65163194 TATGTAATAT
*
65163204 TTAATTTAAATTTAAAT-TTATA
1 TTAA-TTAAATATAAATATTATA
65163226 TTAATTAAATATAAATATTAT-
1 TTAATTAAATATAAATATTATA
65163247 TT-ATTAAA-A-AAATAATCTATA
1 TTAATTAAATATAAAT-AT-TATA
65163268 -TAATTAA
1 TTAATTAA
65163275 TTGCTTATAA
Statistics
Matches: 43, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
18 4 0.09
19 3 0.07
20 10 0.23
21 18 0.42
22 8 0.19
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (22 bp):
TTAATTAAATATAAATATTATA
Found at i:65163235 original size:21 final size:21
Alignment explanation
Indices: 65163201--65163254 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
65163191 TAATATGTAA
*
65163201 TATTTAATTTAAATTTAAAT-T
1 TATTTAA-TTAAATATAAATAT
65163222 TATATTAATTAAATATAAATAT
1 TAT-TTAATTAAATATAAATAT
65163244 TATTT-ATTAAA
1 TATTTAATTAAA
65163255 AAAATAATCT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
20 6 0.20
21 16 0.53
22 8 0.27
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TATTTAATTAAATATAAATAT
Found at i:65164807 original size:3 final size:3
Alignment explanation
Indices: 65164799--65164824 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
65164789 GGAACCAAAC
65164799 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
65164825 CGCACCACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:65166246 original size:19 final size:19
Alignment explanation
Indices: 65166224--65166263 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
65166214 AGTTAAATTT
65166224 AATTAAAAAATAAATATTA
1 AATTAAAAAATAAATATTA
65166243 AATTAAAAAATAAATATTA
1 AATTAAAAAATAAATATTA
65166262 AA
1 AA
65166264 AACTAAACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
AATTAAAAAATAAATATTA
Found at i:65169994 original size:17 final size:17
Alignment explanation
Indices: 65169964--65169997 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
65169954 AATACAAAAT
65169964 CAAATATTCAAAGATTA
1 CAAATATTCAAAGATTA
* *
65169981 CAAATTTTCTAAGATTA
1 CAAATATTCAAAGATTA
65169998 GTTTTCATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.12, G:0.06, T:0.35
Consensus pattern (17 bp):
CAAATATTCAAAGATTA
Found at i:65174000 original size:39 final size:39
Alignment explanation
Indices: 65173945--65174096 Score: 202
Period size: 39 Copynumber: 3.9 Consensus size: 39
65173935 ATGATAATCT
*
65173945 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTAA-TCCG
*
65173985 GGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTTAA-CCG
1 GGCTAAGTCCCGAAGGCATTTGTGCTAGTTAC-TAATCCG
*
65174023 GGCTAAGTCCCGAAGGCATTTGTG-TGAGTTACTATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCT-AGTTACTA-ATCCG
* *
65174063 GGCTAAGTCCCGAAGGCATTTGTACGAGTTACTA
1 GGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTA
65174097 TAACCGGGTA
Statistics
Matches: 101, Mismatches: 5, Indels: 12
0.86 0.04 0.10
Matches are distributed among these distances:
38 12 0.12
39 45 0.45
40 44 0.44
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
GGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTAATCCG
Found at i:65174072 original size:40 final size:40
Alignment explanation
Indices: 65173945--65174104 Score: 245
Period size: 40 Copynumber: 4.0 Consensus size: 40
65173935 ATGATAATCT
* * *
65173945 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-ACCG
65173985 GGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT-TAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCG
*
65174023 GGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCG
*
65174063 GGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCG
65174103 GG
1 GG
65174105 TACTGTTTGT
Statistics
Matches: 111, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
38 10 0.09
39 48 0.43
40 53 0.48
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCG
Found at i:65181608 original size:40 final size:40
Alignment explanation
Indices: 65181527--65181748 Score: 315
Period size: 40 Copynumber: 5.6 Consensus size: 40
65181517 CAACCAAGTA
** * *
65181527 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
*
65181566 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
65181606 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
65181646 CCTTCGGGACTTAGCCCAGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* * * *
65181686 CCTTCGGGACTTAGCCCGG-AATTAGTCATTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCACAAATG
65181726 CCTTCGGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
65181749 CATCCGAATA
Statistics
Matches: 166, Mismatches: 13, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
39 14 0.08
40 151 0.91
41 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:65191322 original size:22 final size:22
Alignment explanation
Indices: 65191280--65191322 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
65191270 GGACTATGGA
*
65191280 TCTGAGCTCATGAGTTTTGTGG
1 TCTGAGCTCATGAGTTATGTGG
65191302 TCTGAGCTCATGA-TATATGTG
1 TCTGAGCTCATGAGT-TATGTG
65191323 AGACATGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.19, C:0.14, G:0.28, T:0.40
Consensus pattern (22 bp):
TCTGAGCTCATGAGTTATGTGG
Found at i:65198819 original size:22 final size:22
Alignment explanation
Indices: 65198779--65198821 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
65198769 GACTATGGGA
**
65198779 TCTGAGCTCATGAGTTATGTGG
1 TCTGAGCTCATGAAATATGTGG
65198801 TCTGAGCTCATGAAATATGTG
1 TCTGAGCTCATGAAATATGTG
65198822 ACACATTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.23, C:0.14, G:0.28, T:0.35
Consensus pattern (22 bp):
TCTGAGCTCATGAAATATGTGG
Found at i:65199930 original size:29 final size:29
Alignment explanation
Indices: 65199898--65199954 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
65199888 CTAAATATAC
65199898 CATGTTGTATGCCATAAAAAATGAATGAA
1 CATGTTGTATGCCATAAAAAATGAATGAA
*
65199927 CATGTTGTATGCCATAAAAAATGTATGA
1 CATGTTGTATGCCATAAAAAATGAATGA
65199955 GTGAGTGAGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.42, C:0.11, G:0.18, T:0.30
Consensus pattern (29 bp):
CATGTTGTATGCCATAAAAAATGAATGAA
Found at i:65208886 original size:28 final size:28
Alignment explanation
Indices: 65208854--65208981 Score: 175
Period size: 29 Copynumber: 4.5 Consensus size: 28
65208844 ATAGTAAGTC
*
65208854 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
65208882 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGC-TATATAATCAAACT
65208911 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* ** * *
65208939 TGCACACTTAGTGCTATGCAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
65208968 CGCACACTTAGTGC
1 CGCACACTTAGTGC
65208982 CAATCTCATG
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
28 44 0.49
29 45 0.51
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:65208944 original size:57 final size:57
Alignment explanation
Indices: 65208853--65208981 Score: 188
Period size: 57 Copynumber: 2.3 Consensus size: 57
65208843 TATAGTAAGT
*
65208853 CCGCACACTTAGTGTTATATAATCAAACTCGCACACTTAGTGCT-TACATAATCAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACA-AATCAAAC
* * * * *
65208910 TCGCACACTTAGTGCTATATAATCAAACTTGCACACTTAGTGCTATGCAATTTAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
65208967 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
65208982 CAATCTCATG
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
57 61 0.95
58 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (57 bp):
CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
Found at i:65221381 original size:28 final size:28
Alignment explanation
Indices: 65221350--65221443 Score: 109
Period size: 28 Copynumber: 3.3 Consensus size: 28
65221340 TTTGGGCTGG
65221350 ATGGGCCATGTGAATGAGATTGGGCCTA
1 ATGGGCCATGTGAATGAGATTGGGCCTA
* * **
65221378 ATGGGCCATATGAATGTAAATTGGGCCGG
1 ATGGGCCATGTGAATG-AGATTGGGCCTA
*
65221407 ATGGGCCA-GATAAATGAGATTGGGCCTA
1 ATGGGCCATG-TGAATGAGATTGGGCCTA
*
65221435 GTGGGCCAT
1 ATGGGCCAT
65221444 ATACATTTAG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
28 31 0.58
29 22 0.42
ACGTcount: A:0.27, C:0.15, G:0.35, T:0.23
Consensus pattern (28 bp):
ATGGGCCATGTGAATGAGATTGGGCCTA
Found at i:65221394 original size:57 final size:56
Alignment explanation
Indices: 65221329--65221446 Score: 166
Period size: 57 Copynumber: 2.1 Consensus size: 56
65221319 GTGAGCATGA
* * * *
65221329 ATATAATGTGATTTGGGCTGGATGGGCCATG-TGAATGAGATTGGGCCTAATGGGCC
1 ATATAATGTAAATTGGGCCGGATGGGCCA-GATAAATGAGATTGGGCCTAATGGGCC
*
65221385 ATATGAATGTAAATTGGGCCGGATGGGCCAGATAAATGAGATTGGGCCTAGTGGGCC
1 ATAT-AATGTAAATTGGGCCGGATGGGCCAGATAAATGAGATTGGGCCTAATGGGCC
65221442 ATATA
1 ATATA
65221447 CATTTAGGTA
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
56 6 0.11
57 49 0.89
ACGTcount: A:0.27, C:0.13, G:0.34, T:0.26
Consensus pattern (56 bp):
ATATAATGTAAATTGGGCCGGATGGGCCAGATAAATGAGATTGGGCCTAATGGGCC
Found at i:65231858 original size:11 final size:11
Alignment explanation
Indices: 65231827--65231872 Score: 64
Period size: 11 Copynumber: 4.5 Consensus size: 11
65231817 TAAACACCAA
65231827 TTATTTTTAC-
1 TTATTTTTACT
65231837 -T-TTTTTA-T
1 TTATTTTTACT
65231845 TTATTTTTACT
1 TTATTTTTACT
65231856 TTATTTTTACT
1 TTATTTTTACT
65231867 TTATTT
1 TTATTT
65231873 ATATGTTGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
8 6 0.19
9 2 0.06
10 6 0.19
11 18 0.56
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (11 bp):
TTATTTTTACT
Found at i:65244602 original size:31 final size:30
Alignment explanation
Indices: 65244564--65244626 Score: 90
Period size: 31 Copynumber: 2.1 Consensus size: 30
65244554 TTCCCGAGCC
*
65244564 TAGGGGCAAAAGTGTAATTATGCAAAAAATT
1 TAGGGGCAAAAATGTAATTATGC-AAAAATT
* *
65244595 TAGGGGCAAAAATGTAATTTTGCCAAAATT
1 TAGGGGCAAAAATGTAATTATGCAAAAATT
65244625 TA
1 TA
65244627 TATTAAATGC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 8 0.28
31 21 0.72
ACGTcount: A:0.43, C:0.08, G:0.21, T:0.29
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAATT
Found at i:65247002 original size:12 final size:12
Alignment explanation
Indices: 65246985--65247009 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
65246975 TGGCAACTGG
65246985 AGCACTAACACC
1 AGCACTAACACC
65246997 AGCACTAACACC
1 AGCACTAACACC
65247009 A
1 A
65247010 CTAACTAGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.40, G:0.08, T:0.08
Consensus pattern (12 bp):
AGCACTAACACC
Found at i:65247528 original size:42 final size:42
Alignment explanation
Indices: 65247469--65247559 Score: 164
Period size: 42 Copynumber: 2.2 Consensus size: 42
65247459 CAAATTGATC
* *
65247469 CACACGGGCGTGTGACACGGTCGTGTGGCCCAACATGGGTCT
1 CACACGGGCGTGTGACACGGCCGTGTGGCCCAACACGGGTCT
65247511 CACACGGGCGTGTGACACGGCCGTGTGGCCCAACACGGGTCT
1 CACACGGGCGTGTGACACGGCCGTGTGGCCCAACACGGGTCT
65247553 CACACGG
1 CACACGG
65247560 CCATACCCCT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.18, C:0.32, G:0.35, T:0.15
Consensus pattern (42 bp):
CACACGGGCGTGTGACACGGCCGTGTGGCCCAACACGGGTCT
Found at i:65247751 original size:19 final size:19
Alignment explanation
Indices: 65247727--65247763 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
65247717 TTTCTTTTTC
65247727 TTTCTTT-CTCTCTTCTTTA
1 TTTCTTTCCTC-CTTCTTTA
65247746 TTTCTTTCCTCCTTCTTT
1 TTTCTTTCCTCCTTCTTT
65247764 CCCTTTCTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.03, C:0.30, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTCTTTCCTCCTTCTTTA
Found at i:65249457 original size:21 final size:21
Alignment explanation
Indices: 65249417--65249457 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
65249407 ACTATGCTCA
* * *
65249417 GAGGTTTGATAGTCTTGATGC
1 GAGGTTTGACAGTATCGATGC
65249438 GAGGTTTGACAGTATCGATG
1 GAGGTTTGACAGTATCGATG
65249458 AGACTTTGCG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.22, C:0.10, G:0.34, T:0.34
Consensus pattern (21 bp):
GAGGTTTGACAGTATCGATGC
Found at i:65249564 original size:11 final size:11
Alignment explanation
Indices: 65249548--65249591 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
65249538 TTAGTCCATC
65249548 TATTTTATTTT
1 TATTTTATTTT
65249559 TATTTTTATTTT
1 TA-TTTTATTTT
* *
65249571 CATTTTATCTT
1 TATTTTATTTT
*
65249582 TCTTTTATTT
1 TATTTTATTT
65249592 ATTTTTGAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
11 17 0.63
12 10 0.37
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.77
Consensus pattern (11 bp):
TATTTTATTTT
Found at i:65249570 original size:17 final size:17
Alignment explanation
Indices: 65249548--65249591 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
65249538 TTAGTCCATC
*
65249548 TATTTTATTTTTATTTT
1 TATTTTATTTTTATCTT
65249565 TATTTTCA-TTTTATCTT
1 TATTTT-ATTTTTATCTT
*
65249582 TCTTTTATTT
1 TATTTTATTT
65249592 ATTTTTGAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 1 0.04
17 21 0.91
18 1 0.04
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.77
Consensus pattern (17 bp):
TATTTTATTTTTATCTT
Found at i:65249583 original size:12 final size:11
Alignment explanation
Indices: 65249549--65249591 Score: 52
Period size: 12 Copynumber: 3.8 Consensus size: 11
65249539 TAGTCCATCT
*
65249549 ATTTTATTTTT
1 ATTTTATTTTC
65249560 ATTTTTATTTTC
1 A-TTTTATTTTC
65249572 ATTTTATCTTTC
1 ATTTTAT-TTTC
65249584 -TTTTATTT
1 ATTTTATTT
65249592 ATTTTTGAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
10 2 0.07
11 13 0.45
12 14 0.48
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.77
Consensus pattern (11 bp):
ATTTTATTTTC
Found at i:65254861 original size:50 final size:49
Alignment explanation
Indices: 65254786--65255023 Score: 264
Period size: 50 Copynumber: 4.8 Consensus size: 49
65254776 TGAGTACACG
* * *
65254786 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TGTTAGGTCACA
* * * * * *
65254836 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCA-ATGACATCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAGATG--TTAGGTCACA
* * *
65254887 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-GTTAGGTCACA
*
65254937 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TGTTAGGTCACA
* * *
65254986 TGTGTAGTACTAAGTGTAGGCTACTATGTGTATCAGAT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT
65255024 AGCTTCGGCT
Statistics
Matches: 160, Mismatches: 22, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
48 1 0.01
49 41 0.26
50 78 0.49
51 39 0.24
52 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGTTAGGTCACA
Found at i:65254957 original size:101 final size:98
Alignment explanation
Indices: 65254782--65255023 Score: 290
Period size: 101 Copynumber: 2.4 Consensus size: 98
65254772 ATTGTGAGTA
* * * *
65254782 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGTCGCATGTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGTGAAGTCACATGTGTAGTACT
*
65254847 AAGTGCAGGCTACTATGCGTACTCA-A-TGACATCGAT
65 AAGTGCAGGCTACTACGCGTAC-CAGATTG---TCGAT
* *
65254883 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTGAGGTCACGTGTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT-GTGAAGTCACATGTGTAGTACT
* * *
65254948 AAGTGCAGGCTACTACGTGTACCAGATTGTTGGT
65 AAGTGCAGGCTACTACGCGTACCAGATTGTCGAT
* * * *
65254982 CGCATGTGTAGTACTAAGTGTAGGCTACTATGTGTATCAGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT
65255024 AGCTTCGGCT
Statistics
Matches: 124, Mismatches: 14, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
99 41 0.33
100 3 0.02
101 78 0.63
102 2 0.02
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (98 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGTGAAGTCACATGTGTAGTACTA
AGTGCAGGCTACTACGCGTACCAGATTGTCGAT
Found at i:65271417 original size:40 final size:41
Alignment explanation
Indices: 65271369--65271464 Score: 135
Period size: 40 Copynumber: 2.4 Consensus size: 41
65271359 TATCTTGGTA
65271369 TCGCACACTTAGTGCC-TCATATAGCCGAAGCTA-TTCCAAC
1 TCGCACACTTAGTGCCAT-ATATAGCCGAAGCTATTTCCAAC
* *
65271409 TCGCACACTTAGTGCCATTTATAGCCGAAGCTATTTCGAAC
1 TCGCACACTTAGTGCCATATATAGCCGAAGCTATTTCCAAC
*
65271450 -GGCACACTTAGTGCC
1 TCGCACACTTAGTGCC
65271465 GAACTTAGTC
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
40 44 0.86
41 7 0.14
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (41 bp):
TCGCACACTTAGTGCCATATATAGCCGAAGCTATTTCCAAC
Found at i:65289626 original size:22 final size:23
Alignment explanation
Indices: 65289572--65289623 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
65289562 TATAAAACCT
65289572 AATAAAAA-TAAG-CTTAAAGAAG
1 AATAAAAAGT-AGTCTTAAAGAAG
65289594 AATAAAAAGTAGTCTTAAA-ATAG
1 AATAAAAAGTAGTCTTAAAGA-AG
65289617 AATAAAA
1 AATAAAA
65289624 GTAAAAACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
22 11 0.41
23 16 0.59
ACGTcount: A:0.63, C:0.04, G:0.12, T:0.21
Consensus pattern (23 bp):
AATAAAAAGTAGTCTTAAAGAAG
Found at i:65291637 original size:55 final size:55
Alignment explanation
Indices: 65291567--65291709 Score: 164
Period size: 55 Copynumber: 2.6 Consensus size: 55
65291557 TATGAAGTTC
* * * *
65291567 CATGCCCATGTTAATTTGACAAGTTCACCCACGAGTGTT-GGGCACGGGCGTGTCG
1 CATGCCCGTGTTAATTTGACAGGTTCACCCACGAGT-TTAAGGCACGAGCGTGTCG
* * *
65291622 CATGCCCGTGCTAATTTGACAGGGTCACCCA-TAGTTTCAAGGCACGAGCGTGTCG
1 CATGCCCGTGTTAATTTGACAGGTTCACCCACGAGTTT-AAGGCACGAGCGTGTCG
** *
65291677 CATGCCCGTGTTGTTTTGGCAGGTTCACCCACG
1 CATGCCCGTGTTAATTTGACAGGTTCACCCACG
65291710 GCCATGTCAC
Statistics
Matches: 72, Mismatches: 13, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
53 2 0.03
54 3 0.04
55 67 0.93
ACGTcount: A:0.19, C:0.27, G:0.28, T:0.26
Consensus pattern (55 bp):
CATGCCCGTGTTAATTTGACAGGTTCACCCACGAGTTTAAGGCACGAGCGTGTCG
Found at i:65294978 original size:25 final size:24
Alignment explanation
Indices: 65294933--65295030 Score: 92
Period size: 25 Copynumber: 4.0 Consensus size: 24
65294923 TGCTTTATCA
**
65294933 TATAACTGGAGGCCTAG-CCTTTTT
1 TATAACTGG-GGCAAAGCCCTTTTT
65294957 TAATAACTGGGGCAAAGCCCTTTTT
1 T-ATAACTGGGGCAAAGCCCTTTTT
* *
65294982 GATAAACTGGGGCAAAGCCCTTTTCGG
1 TAT-AACTGGGGCAAAGCCCTTTT--T
*
65295009 TA-AACTGGGGCATAGCCCTTTT
1 TATAACTGGGGCAAAGCCCTTTT
65295031 AGCACTTCCT
Statistics
Matches: 63, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
24 8 0.13
25 54 0.86
27 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.31
Consensus pattern (24 bp):
TATAACTGGGGCAAAGCCCTTTTT
Found at i:65294980 original size:24 final size:25
Alignment explanation
Indices: 65294948--65295030 Score: 114
Period size: 25 Copynumber: 3.4 Consensus size: 25
65294938 CTGGAGGCCT
* *
65294948 AGCCTTTTTTAAT-AACTGGGGCAA
1 AGCCCTTTTTGATAAACTGGGGCAA
65294972 AGCCCTTTTTGATAAACTGGGGCAA
1 AGCCCTTTTTGATAAACTGGGGCAA
* * *
65294997 AGCCCTTTTCGGTAAACTGGGGCAT
1 AGCCCTTTTTGATAAACTGGGGCAA
65295022 AGCCCTTTT
1 AGCCCTTTT
65295031 AGCACTTCCT
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
24 11 0.21
25 42 0.79
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (25 bp):
AGCCCTTTTTGATAAACTGGGGCAA
Found at i:65295901 original size:27 final size:27
Alignment explanation
Indices: 65295839--65295902 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
65295829 GGGCATATTC
65295839 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* * *
65295866 GTCACTTTACCCTACGGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
*
65295893 GTCTTTTTAC
1 GTCATTTTAC
65295903 TTATTAGGGG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:65295987 original size:27 final size:28
Alignment explanation
Indices: 65295957--65296064 Score: 109
Period size: 27 Copynumber: 3.9 Consensus size: 28
65295947 GTAAATCTAC
65295957 AAACCAAGGGTATTT-TAGTAATTTTGT
1 AAACCAAGGGTATTTCTAGTAATTTTGT
*
65295984 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTCTAGTAATTTTGT
*
65296010 AGAAAGTCAAGGGTATTTCT-GTAATTTTGT
1 --AAA-CCAAGGGTATTTCTAGTAATTTTGT
* * *
65296040 AAATCATGGGTATTT-TGGTAATTTT
1 AAACCAAGGGTATTTCTAGTAATTTT
65296065 ACAAATTGAG
Statistics
Matches: 70, Mismatches: 4, Indels: 14
0.80 0.05 0.16
Matches are distributed among these distances:
26 2 0.03
27 40 0.57
28 8 0.11
29 19 0.27
30 1 0.01
ACGTcount: A:0.31, C:0.07, G:0.18, T:0.44
Consensus pattern (28 bp):
AAACCAAGGGTATTTCTAGTAATTTTGT
Found at i:65296070 original size:27 final size:27
Alignment explanation
Indices: 65295937--65296089 Score: 82
Period size: 27 Copynumber: 5.6 Consensus size: 27
65295927 CATCCTACAA
* * * * *
65295937 GGGTGTTTTGGTAAATCTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAATCAT
* ** *
65295964 GGGTATTTTAGTAATTTTGTAAACCAAT
1 GGGTATTTTGGTAATTTTACAAATC-AT
* * *
65295992 -GGTATTTCT-ATAATTTTTAGAAAGTCAA
1 GGGTATTT-TGGTAA-TTTTACAAA-TCAT
**
65296020 GGGTATTTCT-GTAATTTTGTAAATCAT
1 GGGTATTT-TGGTAATTTTACAAATCAT
65296047 GGGTATTTTGGTAATTTTACAAAT--T
1 GGGTATTTTGGTAATTTTACAAATCAT
65296072 GAGTGTATTTTGGTAATT
1 G-G-GTATTTTGGTAATT
65296090 CTACCCTATA
Statistics
Matches: 100, Mismatches: 18, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
25 2 0.02
26 2 0.02
27 66 0.66
28 17 0.17
29 13 0.13
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAATCAT
Found at i:65296151 original size:27 final size:27
Alignment explanation
Indices: 65296121--65296212 Score: 132
Period size: 27 Copynumber: 3.4 Consensus size: 27
65296111 GTAATTTCAC
* * *
65296121 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAAGGTAAAACAGTAATTCTGTA
65296148 AATCGAAGGTAAAACAGTAATTCTGTA
1 AATCGAAGGTAAAACAGTAATTCTGTA
*
65296175 AATC-AAGGGTAAAACAGTAATTCTATA
1 AATCGAA-GGTAAAACAGTAATTCTGTA
65296202 AATCGAAGGTA
1 AATCGAAGGTA
65296213 CTTTGGTAAT
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
26 2 0.03
27 55 0.93
28 2 0.03
ACGTcount: A:0.43, C:0.10, G:0.21, T:0.26
Consensus pattern (27 bp):
AATCGAAGGTAAAACAGTAATTCTGTA
Found at i:65299251 original size:40 final size:40
Alignment explanation
Indices: 65299059--65299244 Score: 252
Period size: 40 Copynumber: 4.7 Consensus size: 40
65299049 TTGAATGATG
* * *
65299059 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTGAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
65299099 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
65299139 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
65299179 TCCGGGTTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
65299220 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
65299245 AACGAGTAGC
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 121 0.92
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:65299251 original size:80 final size:80
Alignment explanation
Indices: 65299059--65299277 Score: 270
Period size: 80 Copynumber: 2.8 Consensus size: 80
65299049 TTGAATGATG
* * **
65299059 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTGAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGTTAAGATCCGAAGGCATT
65299123 TGTGCGAGTTACTAAA
65 TGTGCGAGTTACTAAA
* *
65299139 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCTCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGATC-CGAAGGCATT
65299203 TGTGCGAGTTACTATAA
65 TGTGCGAGTTACTA-AA
* **
65299220 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAA-ATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGTTAAGA-TCCGAAGG
65299278 TACGTGATTT
Statistics
Matches: 122, Mismatches: 11, Indels: 13
0.84 0.08 0.09
Matches are distributed among these distances:
79 16 0.13
80 97 0.80
81 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGATCCGAAGGCATTT
GTGCGAGTTACTAAA
Found at i:65303402 original size:40 final size:40
Alignment explanation
Indices: 65303335--65303542 Score: 224
Period size: 40 Copynumber: 5.2 Consensus size: 40
65303325 CCTTCGGAGT
** * *
65303335 TTAG-CCGGATATAGCCACTAGCTCAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* *
65303374 TTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* * * *
65303414 TTAGTCCGGATATAATAGCTCGCACAAACGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* * *
65303454 TTAGCCCGGATATAGTAGCTCGCACGAATGTCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
** * *
65303494 TTAGCCCGGA-ATTAGCCACTAGCTCAAATG-CTCTCGGGAC
1 TTAGCCCGGATA-TAGTAACTCGCACAAATGCCT-TCGGGAC
65303534 TTAGCCCGG
1 TTAGCCCGG
65303543 TTATCATCCG
Statistics
Matches: 144, Mismatches: 22, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 7 0.05
40 137 0.95
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
Found at i:65303531 original size:80 final size:82
Alignment explanation
Indices: 65303343--65303542 Score: 259
Period size: 80 Copynumber: 2.5 Consensus size: 82
65303333 GTTTAGCCGG
* *
65303343 ATATAGCCACTAGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCACAAATGCCTT
1 ATATAGCCACTAGCTCAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTT
*
65303408 CGGGACTTAGTCCGGAT
66 CGGGACTTAGCCCGGAT
* * * * * *
65303425 ATAATAG---CTCGCACAAACGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACGAATGTCT
1 AT-ATAGCCACTAGCTCAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCT
65303487 TCGGGACTTAGCCCGGA-
65 TCGGGACTTAGCCCGGAT
65303504 AT-TAGCCACTAGCTCAAATG-CTCTCGGGACTTAGCCCGG
1 ATATAGCCACTAGCTCAAATGCCT-TCGGGACTTAGCCCGG
65303543 TTATCATCCG
Statistics
Matches: 101, Mismatches: 12, Indels: 12
0.81 0.10 0.10
Matches are distributed among these distances:
77 3 0.03
79 4 0.04
80 88 0.87
82 2 0.02
83 4 0.04
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
ATATAGCCACTAGCTCAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTT
CGGGACTTAGCCCGGAT
Found at i:65306860 original size:19 final size:19
Alignment explanation
Indices: 65306838--65306885 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
65306828 ATCTGTCAGA
*
65306838 AGAAAATAAATGAAGAATT
1 AGAAAATAAATGAAAAATT
* *
65306857 AGAAAAGAAAATTAAAAATT
1 AGAAAA-TAAATGAAAAATT
65306877 A-AAAATAAA
1 AGAAAATAAA
65306886 AATAAAAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 3 0.12
19 10 0.42
20 11 0.46
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.19
Consensus pattern (19 bp):
AGAAAATAAATGAAAAATT
Found at i:65306876 original size:7 final size:7
Alignment explanation
Indices: 65306864--65306895 Score: 50
Period size: 6 Copynumber: 4.9 Consensus size: 7
65306854 ATTAGAAAAG
65306864 AAAATTA
1 AAAATTA
65306871 AAAATTA
1 AAAATTA
65306878 AAAA-TA
1 AAAATTA
65306884 AAAA-TA
1 AAAATTA
65306890 AAAATT
1 AAAATT
65306896 TGAATTGCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 12 0.50
7 12 0.50
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (7 bp):
AAAATTA
Done.