Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr2
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: 43198478
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2088848 characters in sequence are not A, C, G, or T
File 104 of 131
Found at i:34488104 original size:1 final size:1
Alignment explanation
Indices: 34488100--34488267 Score: 327
Period size: 1 Copynumber: 168.0 Consensus size: 1
34488090 TTTTTGGACC
34488100 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
34488165 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
*
34488230 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGAGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
34488268 TGTAGGAACA
Statistics
Matches: 165, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
1 165 1.00
ACGTcount: A:0.01, C:0.00, G:0.99, T:0.00
Consensus pattern (1 bp):
G
Found at i:34496794 original size:21 final size:21
Alignment explanation
Indices: 34496764--34496818 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
34496754 CACGGGCTCT
*
34496764 CACACAGGCGTGTGTCCCCTC
1 CACACGGGCGTGTGTCCCCTC
** *
34496785 CACACGGGCGTGTGTGGCCTT
1 CACACGGGCGTGTGTCCCCTC
*
34496806 CACACGGGTGTGT
1 CACACGGGCGTGT
34496819 AGACCCCTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.13, C:0.33, G:0.33, T:0.22
Consensus pattern (21 bp):
CACACGGGCGTGTGTCCCCTC
Found at i:34496851 original size:19 final size:20
Alignment explanation
Indices: 34496827--34496871 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
34496817 GTAGACCCCT
*
34496827 ACACAGCT-TGGGCACTTCC
1 ACACAGCTCGGGGCACTTCC
34496846 ACACAG-TCGGGGCACTTCC
1 ACACAGCTCGGGGCACTTCC
*
34496865 ATACAGC
1 ACACAGC
34496872 CAGGGCACAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 1 0.05
19 21 0.95
ACGTcount: A:0.24, C:0.36, G:0.22, T:0.18
Consensus pattern (20 bp):
ACACAGCTCGGGGCACTTCC
Found at i:34496877 original size:19 final size:19
Alignment explanation
Indices: 34496836--34496879 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
34496826 TACACAGCTT
* *
34496836 GGGCACTTCCACACAGTCG
1 GGGCACTTCCACACAGCCA
*
34496855 GGGCACTTCCATACAGCCA
1 GGGCACTTCCACACAGCCA
34496874 GGGCAC
1 GGGCAC
34496880 ACGGCAGTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.23, C:0.36, G:0.27, T:0.14
Consensus pattern (19 bp):
GGGCACTTCCACACAGCCA
Found at i:34500800 original size:30 final size:30
Alignment explanation
Indices: 34500718--34500811 Score: 118
Period size: 30 Copynumber: 3.1 Consensus size: 30
34500708 TCCATATTTA
* * *
34500718 TGGAAAGTCAAAGATATGGGTACCAAATAA
1 TGGAAAGTCAAATATATGGGTATCAAATAT
*
34500748 TAGAAAGTCAAAGT-TATGGGTATCAAATAT
1 TGGAAAGTCAAA-TATATGGGTATCAAATAT
*
34500778 TGGAAAGTCAAATATATGGGTATCGAGATAT
1 TGGAAAGTCAAATATATGGGTATC-AAATAT
34500809 TGG
1 TGG
34500812 CATAACAAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
29 1 0.02
30 46 0.84
31 8 0.15
ACGTcount: A:0.41, C:0.07, G:0.24, T:0.27
Consensus pattern (30 bp):
TGGAAAGTCAAATATATGGGTATCAAATAT
Found at i:34505259 original size:30 final size:30
Alignment explanation
Indices: 34505223--34505307 Score: 161
Period size: 30 Copynumber: 2.8 Consensus size: 30
34505213 ATCCATATTT
34505223 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
34505253 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
34505283 TTGGAAAGTCAAAGATATGGGTATC
1 ATGGAAAGTCAAAGATATGGGTATC
34505308 GAGATATTGG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 54 1.00
ACGTcount: A:0.44, C:0.07, G:0.25, T:0.25
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Found at i:34505264 original size:15 final size:16
Alignment explanation
Indices: 34505222--34505302 Score: 80
Period size: 15 Copynumber: 5.3 Consensus size: 16
34505212 TATCCATATT
34505222 TATGGAAAGTCAAAGA
1 TATGGAAAGTCAAAGA
** *
34505238 TATGGGTA-TCAAATA
1 TATGGAAAGTCAAAGA
34505253 -ATGGAAAGTCAAAGA
1 TATGGAAAGTCAAAGA
** *
34505268 TATGGGTA-TCAAATA
1 TATGGAAAGTCAAAGA
34505283 T-TGGAAAGTCAAAGA
1 TATGGAAAGTCAAAGA
34505298 TATGG
1 TATGG
34505303 GTATCGAGAT
Statistics
Matches: 49, Mismatches: 12, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
14 9 0.18
15 26 0.53
16 14 0.29
ACGTcount: A:0.44, C:0.06, G:0.25, T:0.25
Consensus pattern (16 bp):
TATGGAAAGTCAAAGA
Found at i:34525689 original size:23 final size:23
Alignment explanation
Indices: 34525662--34525712 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
34525652 TCAACTCCAA
* *
34525662 TGCTGATCTT-CATGTTGAGCTGC
1 TGCTGAT-TTCCATGCTGAACTGC
*
34525685 TGCTGGTTTCCATGCTGAACTGC
1 TGCTGATTTCCATGCTGAACTGC
34525708 TGCTG
1 TGCTG
34525713 GTCTCTTGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 2 0.08
23 22 0.92
ACGTcount: A:0.12, C:0.24, G:0.27, T:0.37
Consensus pattern (23 bp):
TGCTGATTTCCATGCTGAACTGC
Found at i:34530489 original size:19 final size:19
Alignment explanation
Indices: 34530467--34530514 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
34530457 GTAATTAATT
**
34530467 AATTTTTTAAAATTTAAAA
1 AATTTTTTAAAAAGTAAAA
*
34530486 AA-TTATTAAAAAGTAAAA
1 AATTTTTTAAAAAGTAAAA
34530504 AATATTTTTAA
1 AAT-TTTTTAA
34530515 TTATAAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 15 0.65
19 2 0.09
20 6 0.26
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (19 bp):
AATTTTTTAAAAAGTAAAA
Found at i:34532965 original size:18 final size:18
Alignment explanation
Indices: 34532944--34532998 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
34532934 GGTCCTTCTT
34532944 AAATATTTAAAAAATAAA
1 AAATATTTAAAAAATAAA
*
34532962 AAAT-TATAAAAAAATAAA
1 AAATAT-TTAAAAAATAAA
* *
34532980 AACTA-TTAAAATATAAA
1 AAATATTTAAAAAATAAA
34532997 AA
1 AA
34532999 TTAGTAAAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
17 13 0.42
18 18 0.58
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (18 bp):
AAATATTTAAAAAATAAA
Found at i:34532973 original size:17 final size:18
Alignment explanation
Indices: 34532951--34533007 Score: 66
Period size: 17 Copynumber: 3.3 Consensus size: 18
34532941 CTTAAATATT
34532951 TAAAAAATA-AAAAATTA
1 TAAAAAATATAAAAATTA
*
34532968 TAAAAAA-ATAAAAACTA
1 TAAAAAATATAAAAATTA
*
34532985 T-TAAAATATAAAAATTA
1 TAAAAAATATAAAAATTA
34533002 GTAAAA
1 -TAAAA
34533008 GCTTTTCTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
16 5 0.16
17 24 0.75
18 1 0.03
19 2 0.06
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (18 bp):
TAAAAAATATAAAAATTA
Found at i:34532998 original size:8 final size:8
Alignment explanation
Indices: 34532953--34532999 Score: 51
Period size: 8 Copynumber: 5.8 Consensus size: 8
34532943 TAAATATTTA
34532953 AAAAATA-
1 AAAAATAT
34532960 AAAAATTAT
1 AAAAA-TAT
*
34532969 AAAAAAAT
1 AAAAATAT
34532977 AAAAACTAT
1 AAAAA-TAT
*
34532986 TAAAATAT
1 AAAAATAT
34532994 AAAAAT
1 AAAAAT
34533000 TAGTAAAAGC
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
7 5 0.15
8 17 0.52
9 11 0.33
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (8 bp):
AAAAATAT
Found at i:34533992 original size:28 final size:24
Alignment explanation
Indices: 34533961--34534016 Score: 58
Period size: 28 Copynumber: 2.2 Consensus size: 24
34533951 ATATTAAAAA
*
34533961 ATTAATATAAACATGAATATATAAATAT
1 ATTAAAATAAACAT-AA-A-ATAAAT-T
*
34533989 ATTAAAATATACATAAAATAAATT
1 ATTAAAATAAACATAAAATAAATT
34534013 ATTA
1 ATTA
34534017 TCGCATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 5 0.19
25 6 0.23
26 1 0.04
27 2 0.08
28 12 0.46
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.36
Consensus pattern (24 bp):
ATTAAAATAAACATAAAATAAATT
Found at i:34534326 original size:35 final size:34
Alignment explanation
Indices: 34534241--34534328 Score: 110
Period size: 36 Copynumber: 2.6 Consensus size: 34
34534231 TGCAAGCAAT
*
34534241 TAATTAATTTTTAA-TTTT-TAAAAATATTAAAA
1 TAATTATTTTTTAATTTTTATAAAAATATTAAAA
*
34534273 -AATATATTTTTTATATTTTTATAATAAATTTTAAAA
1 TAAT-TATTTTTTA-ATTTTTATAA-AAATATTAAAA
34534309 TAATTATTTTTTAATTTTTA
1 TAATTATTTTTTAATTTTTA
34534329 AAATTTAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
31 3 0.06
32 8 0.17
33 1 0.02
34 4 0.08
35 10 0.21
36 19 0.40
37 3 0.06
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (34 bp):
TAATTATTTTTTAATTTTTATAAAAATATTAAAA
Found at i:34534346 original size:32 final size:33
Alignment explanation
Indices: 34534241--34534357 Score: 125
Period size: 32 Copynumber: 3.5 Consensus size: 33
34534231 TGCAAGCAAT
*
34534241 TAATTAATTTTTAATTTTTAAAAATATTAAAAAA
1 TAATTATTTTTTAATTTTTAAAAAT-TTAAAAAA
*
34534275 T-A-TATTTTTTATATTTTTATAATAAATTT-TAAAA
1 TAATTATTTTTTA-A-TTTT-TAA-AAATTTAAAAAA
34534309 TAATTATTTTTTAATTTTT-AAAATTTAAAAAA
1 TAATTATTTTTTAATTTTTAAAAATTTAAAAAA
* *
34534341 TAATTACTTTTTGATTT
1 TAATTATTTTTTAATTT
34534358 GGCACCCACG
Statistics
Matches: 71, Mismatches: 5, Indels: 16
0.77 0.05 0.17
Matches are distributed among these distances:
31 6 0.08
32 28 0.39
33 3 0.04
34 14 0.20
35 7 0.10
36 13 0.18
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.55
Consensus pattern (33 bp):
TAATTATTTTTTAATTTTTAAAAATTTAAAAAA
Found at i:34535686 original size:21 final size:21
Alignment explanation
Indices: 34535656--34535700 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
34535646 TGTGACAAAC
* * *
34535656 TCTATCTTAACCCTATGCTTA
1 TCTATCTTAAACATATACTTA
*
34535677 TCTATTTTAAACATATACTTA
1 TCTATCTTAAACATATACTTA
34535698 TCT
1 TCT
34535701 TCTAACAGAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.22, G:0.02, T:0.47
Consensus pattern (21 bp):
TCTATCTTAAACATATACTTA
Found at i:34537418 original size:24 final size:25
Alignment explanation
Indices: 34537372--34537418 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
34537362 AACTTTCACT
* *
34537372 TTTTCCTTTTTTTTTTTCCTTCTCA
1 TTTTCCTTTTTTTATTGCCTTCTCA
*
34537397 TTTT-CTTTTTTTATTGCTTTCT
1 TTTTCCTTTTTTTATTGCCTTCT
34537419 AATCATTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 15 0.79
25 4 0.21
ACGTcount: A:0.04, C:0.19, G:0.02, T:0.74
Consensus pattern (25 bp):
TTTTCCTTTTTTTATTGCCTTCTCA
Found at i:34547831 original size:17 final size:17
Alignment explanation
Indices: 34547792--34547831 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
34547782 ATCACTAAAG
34547792 ATTAAATTAAAAAATAT
1 ATTAAATTAAAAAATAT
*
34547809 AATAAATTTAAAAAATA-
1 ATTAAA-TTAAAAAATAT
34547826 ATTAAA
1 ATTAAA
34547832 AAATAACATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
ATTAAATTAAAAAATAT
Found at i:34553558 original size:24 final size:24
Alignment explanation
Indices: 34553531--34553576 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
34553521 AACATAATTC
34553531 TAATCAAA-GTCAAATATATTATGG
1 TAAT-AAATGTCAAATATATTATGG
*
34553555 TAATAAATGTTAAATATATTAT
1 TAATAAATGTCAAATATATTAT
34553577 ACTCATAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.48, C:0.04, G:0.09, T:0.39
Consensus pattern (24 bp):
TAATAAATGTCAAATATATTATGG
Found at i:34553592 original size:24 final size:24
Alignment explanation
Indices: 34553542--34553593 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
34553532 AATCAAAGTC
** **
34553542 AAATATATTATGGTAATAAATGTT
1 AAATATATTATACTAATAAATACT
*
34553566 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
34553590 AAAT
1 AAAT
34553594 CTTCTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:34555355 original size:22 final size:23
Alignment explanation
Indices: 34555324--34555378 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
34555314 GAAAATAGAT
*
34555324 AAAAATTATAAATATATATA-AA
1 AAAAAATATAAATATATATATAA
**
34555346 AAAAAATATATGTATATATATAA
1 AAAAAATATAAATATATATATAA
*
34555369 AAGAAATATA
1 AAAAAATATA
34555379 TGTGTATAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 17 0.61
23 11 0.39
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (23 bp):
AAAAAATATAAATATATATATAA
Found at i:34555375 original size:23 final size:24
Alignment explanation
Indices: 34555335--34555386 Score: 79
Period size: 23 Copynumber: 2.2 Consensus size: 24
34555325 AAAATTATAA
34555335 ATATATATAAAAAAAAATATATGT
1 ATATATATAAAAAAAAATATATGT
*
34555359 ATATATAT-AAAAGAAATATATGT
1 ATATATATAAAAAAAAATATATGT
*
34555382 GTATA
1 ATATA
34555387 ACAAAGTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 18 0.69
24 8 0.31
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.35
Consensus pattern (24 bp):
ATATATATAAAAAAAAATATATGT
Found at i:34555513 original size:14 final size:14
Alignment explanation
Indices: 34555496--34555522 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
34555486 TGCGAAAAGA
34555496 AAGAATAGAAAATG
1 AAGAATAGAAAATG
34555510 AAGAATAGAAAAT
1 AAGAATAGAAAAT
34555523 AAAAAATAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.00, G:0.19, T:0.15
Consensus pattern (14 bp):
AAGAATAGAAAATG
Found at i:34555530 original size:14 final size:14
Alignment explanation
Indices: 34555489--34555538 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
34555479 CATTGAATGC
* *
34555489 GAAAAGAAAGAATA
1 GAAAATAAAAAATA
* *
34555503 GAAAATGAAGAATA
1 GAAAATAAAAAATA
34555517 GAAAATAAAAAAT-
1 GAAAATAAAAAATA
34555530 -AAAATAAAA
1 GAAAATAAAA
34555539 TAAGTAAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
12 9 0.28
14 23 0.72
ACGTcount: A:0.74, C:0.00, G:0.14, T:0.12
Consensus pattern (14 bp):
GAAAATAAAAAATA
Found at i:34555540 original size:17 final size:17
Alignment explanation
Indices: 34555518--34555564 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
34555508 TGAAGAATAG
34555518 AAAATAA-AAAATAAAAT
1 AAAATAAGAAAAT-AAAT
*
34555535 AAAATAAGTAAATAAAT
1 AAAATAAGAAAATAAAT
*
34555552 AAAGTAAGCAAAA
1 AAAATAAG-AAAA
34555565 CACCACAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 18 0.72
18 7 0.28
ACGTcount: A:0.74, C:0.02, G:0.06, T:0.17
Consensus pattern (17 bp):
AAAATAAGAAAATAAAT
Found at i:34556346 original size:14 final size:14
Alignment explanation
Indices: 34556329--34556355 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
34556319 TGCGAAAAGA
34556329 AAGAATAGAAAATG
1 AAGAATAGAAAATG
34556343 AAGAATAGAAAAT
1 AAGAATAGAAAAT
34556356 AAAAAATAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.00, G:0.19, T:0.15
Consensus pattern (14 bp):
AAGAATAGAAAATG
Found at i:34556363 original size:14 final size:14
Alignment explanation
Indices: 34556322--34556371 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
34556312 CATTGAATGC
* *
34556322 GAAAAGAAAGAATA
1 GAAAATAAAAAATA
* *
34556336 GAAAATGAAGAATA
1 GAAAATAAAAAATA
34556350 GAAAATAAAAAAT-
1 GAAAATAAAAAATA
34556363 -AAAATAAAA
1 GAAAATAAAA
34556372 TAAGTAAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
12 9 0.28
14 23 0.72
ACGTcount: A:0.74, C:0.00, G:0.14, T:0.12
Consensus pattern (14 bp):
GAAAATAAAAAATA
Found at i:34556373 original size:17 final size:17
Alignment explanation
Indices: 34556351--34556397 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
34556341 TGAAGAATAG
34556351 AAAATAA-AAAATAAAAT
1 AAAATAAGAAAAT-AAAT
*
34556368 AAAATAAGTAAATAAAT
1 AAAATAAGAAAATAAAT
*
34556385 AAAGTAAGCAAAA
1 AAAATAAG-AAAA
34556398 CACCACAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 18 0.72
18 7 0.28
ACGTcount: A:0.74, C:0.02, G:0.06, T:0.17
Consensus pattern (17 bp):
AAAATAAGAAAATAAAT
Found at i:34557065 original size:833 final size:833
Alignment explanation
Indices: 34555460--34557126 Score: 3334
Period size: 833 Copynumber: 2.0 Consensus size: 833
34555450 ATAAAATAAA
34555460 GTAAAATAAAACAATGATACATTGAATGCGAAAAGAAAGAATAGAAAATGAAGAATAGAAAATAA
1 GTAAAATAAAACAATGATACATTGAATGCGAAAAGAAAGAATAGAAAATGAAGAATAGAAAATAA
34555525 AAAATAAAATAAAATAAGTAAATAAATAAAGTAAGCAAAACACCACAAATAATAAAAAAAAACCC
66 AAAATAAAATAAAATAAGTAAATAAATAAAGTAAGCAAAACACCACAAATAATAAAAAAAAACCC
34555590 TAATCGAAACTAAAAAGGATTAGATTAAAGTCAAAACAAAATTTAAAGGCAAGAAATTGAAAATA
131 TAATCGAAACTAAAAAGGATTAGATTAAAGTCAAAACAAAATTTAAAGGCAAGAAATTGAAAATA
34555655 AACAAGTAAAAGCATCCCAGGATCAAATCACAACGTGCGCATGACATGGGGGACTAAAAGGGGAA
196 AACAAGTAAAAGCATCCCAGGATCAAATCACAACGTGCGCATGACATGGGGGACTAAAAGGGGAA
34555720 ATTTCCCCACCCTCAAAACGCAGCTCTTTAATGCGTACTTAATTGAAACAGAAATAAAATGGGAG
261 ATTTCCCCACCCTCAAAACGCAGCTCTTTAATGCGTACTTAATTGAAACAGAAATAAAATGGGAG
34555785 AATAAAATTTAAAAGGAAATAAAATATAAAAGAAGGACCAGATCGAAATGCGCTTAAAATGCGGA
326 AATAAAATTTAAAAGGAAATAAAATATAAAAGAAGGACCAGATCGAAATGCGCTTAAAATGCGGA
34555850 AAGACCGCGTGCTCAAATGTCCCCTTTACCGCAGAAACACGCGGATCCTAAGGGTTCGGGTCGGA
391 AAGACCGCGTGCTCAAATGTCCCCTTTACCGCAGAAACACGCGGATCCTAAGGGTTCGGGTCGGA
34555915 CTCGGGTCGGCCATTGGGTTTTAAGCCAAACGGCGCTGTTTTGGCCACTGAGGCCAAGGTCCAAA
456 CTCGGGTCGGCCATTGGGTTTTAAGCCAAACGGCGCTGTTTTGGCCACTGAGGCCAAGGTCCAAA
34555980 ACGACGTCGTTTTTATACCTTATAAATACAAAAAAAATCAACAAAAAAACATTTTACCCCACTTT
521 ACGACGTCGTTTTTATACCTTATAAATACAAAAAAAATCAACAAAAAAACATTTTACCCCACTTT
34556045 TTAGAAAAAAAAAAAGAGAGAGGGTTCTCTCTCCCTCCTAAGACCGGCCTAGGTCTCCGATCGAG
586 TTAGAAAAAAAAAAAGAGAGAGGGTTCTCTCTCCCTCCTAAGACCGGCCTAGGTCTCCGATCGAG
34556110 GGCTCCGGTGCACCTCCGCCGTAGCTCCACCGTACGCGGTGGTCAGAGGTGCAAAAATCGGGCAT
651 GGCTCCGGTGCACCTCCGCCGTAGCTCCACCGTACGCGGTGGTCAGAGGTGCAAAAATCGGGCAT
34556175 TTCTTAGCCCCGCTTAAAGCTTGTCACTCCTAGAACCTAGATTTAAGACTGAATCATTTGAAAAG
716 TTCTTAGCCCCGCTTAAAGCTTGTCACTCCTAGAACCTAGATTTAAGACTGAATCATTTGAAAAG
34556240 TGGCCACGAGTCCTAGAATCGAAGGGAAACCGTTTGGCTTCTCCTCCTCCGGT
781 TGGCCACGAGTCCTAGAATCGAAGGGAAACCGTTTGGCTTCTCCTCCTCCGGT
34556293 GTAAAATAAAACAATGATACATTGAATGCGAAAAGAAAGAATAGAAAATGAAGAATAGAAAATAA
1 GTAAAATAAAACAATGATACATTGAATGCGAAAAGAAAGAATAGAAAATGAAGAATAGAAAATAA
34556358 AAAATAAAATAAAATAAGTAAATAAATAAAGTAAGCAAAACACCACAAATAATAAAAAAAAACCC
66 AAAATAAAATAAAATAAGTAAATAAATAAAGTAAGCAAAACACCACAAATAATAAAAAAAAACCC
34556423 TAATCGAAACTAAAAAGGATTAGATTAAAGTCAAAACAAAATTTAAAGGCAAGAAATTGAAAATA
131 TAATCGAAACTAAAAAGGATTAGATTAAAGTCAAAACAAAATTTAAAGGCAAGAAATTGAAAATA
34556488 AACAAGTAAAAGCATCCCAGGATCAAATCACAACGTGCGCATGACATGGGGGACTAAAAGGGGAA
196 AACAAGTAAAAGCATCCCAGGATCAAATCACAACGTGCGCATGACATGGGGGACTAAAAGGGGAA
34556553 ATTTCCCCACCCTCAAAACGCAGCTCTTTAATGCGTACTTAATTGAAACAGAAATAAAATGGGAG
261 ATTTCCCCACCCTCAAAACGCAGCTCTTTAATGCGTACTTAATTGAAACAGAAATAAAATGGGAG
34556618 AATAAAATTTAAAAGGAAATAAAATATAAAAGAAGGACCAGATCGAAATGCGCTTAAAATGCGGA
326 AATAAAATTTAAAAGGAAATAAAATATAAAAGAAGGACCAGATCGAAATGCGCTTAAAATGCGGA
34556683 AAGACCGCGTGCTCAAATGTCCCCTTTACCGCAGAAACACGCGGATCCTAAGGGTTCGGGTCGGA
391 AAGACCGCGTGCTCAAATGTCCCCTTTACCGCAGAAACACGCGGATCCTAAGGGTTCGGGTCGGA
34556748 CTCGGGTCGGCCATTGGGTTTTAAGCCAAACGGCGCTGTTTTGGCCACTGAGGCCAAGGTCCAAA
456 CTCGGGTCGGCCATTGGGTTTTAAGCCAAACGGCGCTGTTTTGGCCACTGAGGCCAAGGTCCAAA
34556813 ACGACGTCGTTTTTATACCTTATAAATACAAAAAAAATCAACAAAAAAACATTTTACCCCACTTT
521 ACGACGTCGTTTTTATACCTTATAAATACAAAAAAAATCAACAAAAAAACATTTTACCCCACTTT
34556878 TTAGAAAAAAAAAAAGAGAGAGGGTTCTCTCTCCCTCCTAAGACCGGCCTAGGTCTCCGATCGAG
586 TTAGAAAAAAAAAAAGAGAGAGGGTTCTCTCTCCCTCCTAAGACCGGCCTAGGTCTCCGATCGAG
34556943 GGCTCCGGTGCACCTCCGCCGTAGCTCCACCGTACGCGGTGGTCAGAGGTGCAAAAATCGGGCAT
651 GGCTCCGGTGCACCTCCGCCGTAGCTCCACCGTACGCGGTGGTCAGAGGTGCAAAAATCGGGCAT
34557008 TTCTTAGCCCCGCTTAAAGCTTGTCACTCCTAGAACCTAGATTTAAGACTGAATCATTTGAAAAG
716 TTCTTAGCCCCGCTTAAAGCTTGTCACTCCTAGAACCTAGATTTAAGACTGAATCATTTGAAAAG
34557073 TGGCCACGAGTCCTAGAATCGAAGGGAAACCGTTTGGCTTCTCCTCCTCCGGT
781 TGGCCACGAGTCCTAGAATCGAAGGGAAACCGTTTGGCTTCTCCTCCTCCGGT
34557126 G
1 G
34557127 CGGCGCAGGT
Statistics
Matches: 834, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
833 834 1.00
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.21
Consensus pattern (833 bp):
GTAAAATAAAACAATGATACATTGAATGCGAAAAGAAAGAATAGAAAATGAAGAATAGAAAATAA
AAAATAAAATAAAATAAGTAAATAAATAAAGTAAGCAAAACACCACAAATAATAAAAAAAAACCC
TAATCGAAACTAAAAAGGATTAGATTAAAGTCAAAACAAAATTTAAAGGCAAGAAATTGAAAATA
AACAAGTAAAAGCATCCCAGGATCAAATCACAACGTGCGCATGACATGGGGGACTAAAAGGGGAA
ATTTCCCCACCCTCAAAACGCAGCTCTTTAATGCGTACTTAATTGAAACAGAAATAAAATGGGAG
AATAAAATTTAAAAGGAAATAAAATATAAAAGAAGGACCAGATCGAAATGCGCTTAAAATGCGGA
AAGACCGCGTGCTCAAATGTCCCCTTTACCGCAGAAACACGCGGATCCTAAGGGTTCGGGTCGGA
CTCGGGTCGGCCATTGGGTTTTAAGCCAAACGGCGCTGTTTTGGCCACTGAGGCCAAGGTCCAAA
ACGACGTCGTTTTTATACCTTATAAATACAAAAAAAATCAACAAAAAAACATTTTACCCCACTTT
TTAGAAAAAAAAAAAGAGAGAGGGTTCTCTCTCCCTCCTAAGACCGGCCTAGGTCTCCGATCGAG
GGCTCCGGTGCACCTCCGCCGTAGCTCCACCGTACGCGGTGGTCAGAGGTGCAAAAATCGGGCAT
TTCTTAGCCCCGCTTAAAGCTTGTCACTCCTAGAACCTAGATTTAAGACTGAATCATTTGAAAAG
TGGCCACGAGTCCTAGAATCGAAGGGAAACCGTTTGGCTTCTCCTCCTCCGGT
Found at i:34559190 original size:43 final size:43
Alignment explanation
Indices: 34559124--34559351 Score: 289
Period size: 43 Copynumber: 5.3 Consensus size: 43
34559114 GCGTCGCTAA
*
34559124 CTTTCAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
1 CTTT-AGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCACGAC
* *
34559168 CTTTAGCGGCGCTTTTCTCACAAACGCCACTAAAGACCACGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCACGAC
* * * *
34559211 CTTTAGCGGCACTTTT-CCACAAACACCGTTAAAGACCATGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCACGAC
* ** *
34559253 CTTTAGCAGCGCTTTT-TTACAAACGCCGCTATAGACCACGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCACGAC
* * * *
34559295 CTTTAGCGACGCTTTTCCCACAAACGCCGCTATAGACCATGAT
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCACGAC
*
34559338 CTTTAGCAGCGCTT
1 CTTTAGCGGCGCTT
34559352 CTAGCAAAAA
Statistics
Matches: 158, Mismatches: 25, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
42 69 0.44
43 85 0.54
44 4 0.03
ACGTcount: A:0.27, C:0.33, G:0.17, T:0.24
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCACGAC
Found at i:34559254 original size:85 final size:85
Alignment explanation
Indices: 34559124--34559371 Score: 336
Period size: 85 Copynumber: 2.9 Consensus size: 85
34559114 GCGTCGCTAA
* *
34559124 CTTTCAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCTCAC
1 CTTT-AGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGACCTTTAGCAGCGCTTTT-TCAC
34559189 AAACGCCACTAAAGACCACGAC
64 AAACGCCACTAAAGACCACGAC
* * * *
34559211 CTTTAGCGGCACTTTT-CCACAAACACCGTTAAAGACCATGACCTTTAGCAGCGCTTTTTTACAA
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGACCTTTAGCAGCGCTTTTTCACAA
* *
34559275 ACGCCGCTATAGACCACGAC
66 ACGCCACTAAAGACCACGAC
* * * ** *
34559295 CTTTAGCGACGCTTTTCCCACAAACGCCGCTATAGACCATGATCTTTAGCAGCGCTTCTAGCAAA
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGACCTTTAGCAGCGCTT-TTTCACA
34559360 AACGCCACTAAA
65 AACGCCACTAAA
34559372 AACATAACCT
Statistics
Matches: 139, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
84 37 0.27
85 74 0.53
86 24 0.17
87 4 0.03
ACGTcount: A:0.29, C:0.33, G:0.16, T:0.23
Consensus pattern (85 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGACCTTTAGCAGCGCTTTTTCACAA
ACGCCACTAAAGACCACGAC
Found at i:34559382 original size:127 final size:127
Alignment explanation
Indices: 34559144--34559384 Score: 304
Period size: 127 Copynumber: 1.9 Consensus size: 127
34559134 CGCTTTTCCC
* *
34559144 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCTCACAAACGCCACTAAAGACCACG
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTCCCACAAACGCCACTAAAGACCACG
* * * ** * *
34559209 ACCTTTAGCGGCACTTTTCCACAAACACCGTTAAAGACCATGACCTTTAGCAGCGCTTTTTT
66 ACCTTTAGCAGCACTTTACCAAAAACACCACTAAAGAACATAACCTTTAGCAGCGCTTTTTT
* * * * *
34559271 ACAAACGCCGCTATAGACCACGACCTTTAGCGACGCTTTTCCCACAAACGCCGCTATAGACCATG
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTCCCACAAACGCCACTAAAGACCACG
* * * *
34559336 ATCTTTAGCAGCGCTTCTAGCAAAAACGCCACTAAA-AACATAACCTTTA
66 ACCTTTAGCAGCACTT-TACCAAAAACACCACTAAAGAACATAACCTTTA
34559385 AAAAAATTAT
Statistics
Matches: 95, Mismatches: 18, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
127 82 0.86
128 13 0.14
ACGTcount: A:0.32, C:0.32, G:0.15, T:0.22
Consensus pattern (127 bp):
ACAAACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTCCCACAAACGCCACTAAAGACCACG
ACCTTTAGCAGCACTTTACCAAAAACACCACTAAAGAACATAACCTTTAGCAGCGCTTTTTT
Found at i:34563950 original size:22 final size:22
Alignment explanation
Indices: 34563907--34563950 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
34563897 ACTTGGATGT
*
34563907 GGGAAATTAGGGATTTTAGGGG
1 GGGAAATTAGGGATTTCAGGGG
* *
34563929 GGGAAGTTGGGGATTTC-GGGG
1 GGGAAATTAGGGATTTCAGGGG
34563950 G
1 G
34563951 AGGGGATTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.20, C:0.02, G:0.52, T:0.25
Consensus pattern (22 bp):
GGGAAATTAGGGATTTCAGGGG
Found at i:34564189 original size:115 final size:118
Alignment explanation
Indices: 34564064--34564294 Score: 378
Period size: 115 Copynumber: 2.0 Consensus size: 118
34564054 AAAATATCGT
* * * *
34564064 AAAAAATTATTTCATTTGGAATAAAATGATACCGTTTTGCTAT-AT-AAATGGCGCTATTTTTTT
1 AAAAAATTATTTCATTTGGAATAAAACGACACCGTTTTGCTATGATAAAATGGAGCTATTTTTGT
34564127 AAAGTAAAATTA-TTTTTGTGGCGTTTTTTATAAAAACGCCGCTATTGCTTGC
66 AAAGTAAAATTATTTTTTGTGGCGTTTTTTATAAAAACGCCGCTATTGCTTGC
** *
34564179 AAAAAATTATTTCATTTGGAATAAAACGACATTGTTTTGCTATGCTAAAATGGAGCTATTTTTGT
1 AAAAAATTATTTCATTTGGAATAAAACGACACCGTTTTGCTATGATAAAATGGAGCTATTTTTGT
34564244 AAAGTAAAATTATTTTTTGTGGCGTTTTTTATAAAAACGCCGCTATTGCTT
66 AAAGTAAAATTATTTTTTGTGGCGTTTTTTATAAAAACGCCGCTATTGCTT
34564295 ACCTTTTGCG
Statistics
Matches: 106, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
115 39 0.37
116 1 0.01
117 28 0.26
118 38 0.36
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.42
Consensus pattern (118 bp):
AAAAAATTATTTCATTTGGAATAAAACGACACCGTTTTGCTATGATAAAATGGAGCTATTTTTGT
AAAGTAAAATTATTTTTTGTGGCGTTTTTTATAAAAACGCCGCTATTGCTTGC
Found at i:34565615 original size:41 final size:40
Alignment explanation
Indices: 34565562--34565751 Score: 191
Period size: 41 Copynumber: 4.6 Consensus size: 40
34565552 TTGCGACGCT
*
34565562 TTTTCAAAAACGCCGCTAAAGCCCCGAGCATTAACGGCGC
1 TTTTCAAAAACGCCGCTAAAGCCCCGAGCATTAGCGGCGC
** *
34565602 TTCTTGGAAAACGCCGCTAAAGCCCCCAGCATTAGCGGCGC
1 TT-TTCAAAAACGCCGCTAAAGCCCCGAGCATTAGCGGCGC
* * * *** *
34565643 TTTTCCAAAAGCACCACTAAAAATCTGAGCATTAGCGGCGC
1 TTTT-CAAAAACGCCGCTAAAGCCCCGAGCATTAGCGGCGC
*** *
34565684 TTTTCCAAAAACGCCGCTAAAAATCTGAGCATTAGCGGCGC
1 TTTT-CAAAAACGCCGCTAAAGCCCCGAGCATTAGCGGCGC
*
34565725 TTTCTTTAAAAACGCCGCTAAAGCCCC
1 -TT-TTCAAAAACGCCGCTAAAGCCCC
34565752 AAAAGATAGA
Statistics
Matches: 124, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
40 4 0.03
41 100 0.81
42 18 0.15
43 2 0.02
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.21
Consensus pattern (40 bp):
TTTTCAAAAACGCCGCTAAAGCCCCGAGCATTAGCGGCGC
Found at i:34568889 original size:18 final size:18
Alignment explanation
Indices: 34568868--34568902 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
34568858 CACTTTAGTA
*
34568868 GCATCTTGAGGCTGCTTG
1 GCATCTTCAGGCTGCTTG
*
34568886 GCATCTTCAGGTTGCTT
1 GCATCTTCAGGCTGCTT
34568903 TTCCTCACCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.11, C:0.23, G:0.29, T:0.37
Consensus pattern (18 bp):
GCATCTTCAGGCTGCTTG
Found at i:34579457 original size:31 final size:29
Alignment explanation
Indices: 34579387--34579460 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
34579377 GGCTCAAGTT
* *
34579387 ACATTTTAGTCACTTATGTTTGAAATGTT
1 ACATTTTAGTCACTTATGTTTCAAATGTA
* **
34579416 ACGTTTTAGTCACTTATGTTATCACGTTGTA
1 ACATTTTAGTCACTTATGTT-TCA-AATGTA
34579447 ACATTTTAGTCACT
1 ACATTTTAGTCACT
34579461 GAGCCGTTAG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
29 19 0.51
30 2 0.05
31 16 0.43
ACGTcount: A:0.26, C:0.15, G:0.14, T:0.46
Consensus pattern (29 bp):
ACATTTTAGTCACTTATGTTTCAAATGTA
Found at i:34579968 original size:16 final size:16
Alignment explanation
Indices: 34579931--34579970 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
34579921 TTAATAAAAT
* *
34579931 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
34579947 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
34579963 TAAAATTA
1 TAAAATTA
34579971 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:34579970 original size:22 final size:22
Alignment explanation
Indices: 34579903--34579955 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
34579893 TAATTAAAAT
* * *
34579903 TAAAATTAAAATTATTTTTTAA
1 TAAAATTAAAACTAATTGTTAA
*
34579925 TAAAATTAAAACTAATTGTTAT
1 TAAAATTAAAACTAATTGTTAA
34579947 TAAAATTAA
1 TAAAATTAA
34579956 TTGTTAGTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (22 bp):
TAAAATTAAAACTAATTGTTAA
Found at i:34580141 original size:23 final size:24
Alignment explanation
Indices: 34580094--34580139 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
34580084 AAATAAACTT
34580094 AAAATAAAAAACTATTATATTTTA
1 AAAATAAAAAACTATTATATTTTA
34580118 AAAATAAAAAA-TATATATATTT
1 AAAATAAAAAACTAT-TATATTT
34580140 AATATTTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 3 0.14
24 18 0.86
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (24 bp):
AAAATAAAAAACTATTATATTTTA
Found at i:34583217 original size:20 final size:20
Alignment explanation
Indices: 34583177--34583217 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
34583167 ATTTTTATAT
*
34583177 ATTTTTAAGATTTTTTTAAA
1 ATTTTTAAGATTTTTTAAAA
34583197 ATTTTTATA-ATTTTTTAAAA
1 ATTTTTA-AGATTTTTTAAAA
34583217 A
1 A
34583218 ATATAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (20 bp):
ATTTTTAAGATTTTTTAAAA
Found at i:34583247 original size:19 final size:19
Alignment explanation
Indices: 34583220--34583275 Score: 71
Period size: 19 Copynumber: 3.0 Consensus size: 19
34583210 TTTAAAAAAT
34583220 ATAAA-ATTTAGAATTTTA
1 ATAAATATTTAGAATTTTA
34583238 ATAAATATTTAGAATTTTGA
1 ATAAATATTTAGAATTTT-A
* *
34583258 A-AATTATTTAGAAATTTA
1 ATAAATATTTAGAATTTTA
34583276 GAAAATTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.18
19 26 0.76
20 2 0.06
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (19 bp):
ATAAATATTTAGAATTTTA
Found at i:34583279 original size:20 final size:20
Alignment explanation
Indices: 34583225--34583286 Score: 76
Period size: 20 Copynumber: 3.2 Consensus size: 20
34583215 AAAATATAAA
*
34583225 ATTTAGAATTTTA-ATAAA-T
1 ATTTAGAAATTTAGA-AAATT
*
34583244 ATTTAG-AATTTTGAAAATT
1 ATTTAGAAATTTAGAAAATT
34583263 ATTTAGAAATTTAGAAAATT
1 ATTTAGAAATTTAGAAAATT
34583283 ATTT
1 ATTT
34583287 TTTGTAGTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
18 7 0.19
19 14 0.38
20 16 0.43
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (20 bp):
ATTTAGAAATTTAGAAAATT
Found at i:34583483 original size:22 final size:22
Alignment explanation
Indices: 34583455--34583503 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
34583445 TATTATATAT
34583455 TTTTGTGTTTTTGTCTTTCATG
1 TTTTGTGTTTTTGTCTTTCATG
34583477 TTTTGTGTTTTTGTCTTTCATG
1 TTTTGTGTTTTTGTCTTTCATG
34583499 TTTTG
1 TTTTG
34583504 ACTCTAATCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.04, C:0.08, G:0.18, T:0.69
Consensus pattern (22 bp):
TTTTGTGTTTTTGTCTTTCATG
Found at i:34592436 original size:14 final size:15
Alignment explanation
Indices: 34592417--34592448 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
34592407 CAATTTGTAG
34592417 TAATAATG-GCATGA
1 TAATAATGCGCATGA
34592431 TAATAATGCGCATGA
1 TAATAATGCGCATGA
34592446 TAA
1 TAA
34592449 AATATGAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.44, C:0.09, G:0.19, T:0.28
Consensus pattern (15 bp):
TAATAATGCGCATGA
Found at i:34592724 original size:16 final size:18
Alignment explanation
Indices: 34592689--34592731 Score: 54
Period size: 16 Copynumber: 2.4 Consensus size: 18
34592679 AAAGTAAAGG
34592689 AAATAATAAGTAAATAAAT
1 AAATAA-AAGTAAATAAAT
34592708 AAATAAAA-TAAAT-AAT
1 AAATAAAAGTAAATAAAT
*
34592724 ACATAAAA
1 AAATAAAA
34592732 AATATTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 10 0.43
17 5 0.22
18 2 0.09
19 6 0.26
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.23
Consensus pattern (18 bp):
AAATAAAAGTAAATAAAT
Found at i:34593288 original size:27 final size:27
Alignment explanation
Indices: 34593235--34593288 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
34593225 AAATTTTAGA
* *
34593235 AAAAAAAAATCATTTCCTCTCTGCCTT
1 AAAAAAAAATCATCTCCTCTCTCCCTT
* * *
34593262 AAAAAAAAATCCTCTCTTCTTTCCCTT
1 AAAAAAAAATCATCTCCTCTCTCCCTT
34593289 TTCTTTGAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.35, C:0.28, G:0.02, T:0.35
Consensus pattern (27 bp):
AAAAAAAAATCATCTCCTCTCTCCCTT
Found at i:34596387 original size:87 final size:87
Alignment explanation
Indices: 34596241--34596411 Score: 222
Period size: 87 Copynumber: 2.0 Consensus size: 87
34596231 TATGCTTCGG
* * *
34596241 TATATATAGAAATGAGACCATTTGCATACCTACTCATTAAAGGCAGAGTTCCAAACAAAACATCA
1 TATATATAGAAATGAGACCATATGCATACCAACTCATTAAAGACAGAGTTCCAAACAAAACATCA
* *
34596306 TATATCGCATTCCGCAGTACGA
66 CATATCGCAATCCGCAGTACGA
* *
34596328 TATATATA-AAAGTGAGACCATATGCATACCAATTTCGTT-AAGACAGAG-TCCAAAGCAAAACA
1 TATATATAGAAA-TGAGACCATATGCATACCAA-CTCATTAAAGACAGAGTTCCAAA-CAAAACA
*
34596390 TCACATATCGCAATCTGCAGTA
63 TCACATATCGCAATCCGCAGTA
34596412 TTGAGTAGAA
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
86 9 0.12
87 60 0.82
88 4 0.05
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.25
Consensus pattern (87 bp):
TATATATAGAAATGAGACCATATGCATACCAACTCATTAAAGACAGAGTTCCAAACAAAACATCA
CATATCGCAATCCGCAGTACGA
Found at i:34602105 original size:21 final size:20
Alignment explanation
Indices: 34602074--34602128 Score: 85
Period size: 20 Copynumber: 2.7 Consensus size: 20
34602064 AACACAAAAA
34602074 TTTTGAAACACGAGATTTT-T
1 TTTTGAAACACGA-ATTTTCT
34602094 TTTTGAAAACACGAATTTTCT
1 TTTTG-AAACACGAATTTTCT
34602115 TTTTGAAACACGAA
1 TTTTGAAACACGAA
34602129 AATTTTTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 19 0.58
21 14 0.42
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (20 bp):
TTTTGAAACACGAATTTTCT
Found at i:34602156 original size:38 final size:38
Alignment explanation
Indices: 34602093--34602173 Score: 101
Period size: 38 Copynumber: 2.1 Consensus size: 38
34602083 ACGAGATTTT
* * *
34602093 TTTTTGAAAACACGAATTTTCTTTTTGAAA-CACGAAAA
1 TTTTTAAAAACACAAAATTTCTTTTTGAAATCA-GAAAA
* *
34602131 TTTTTAAAAACACAAAATTTGTTTTTGAAATCATAAAA
1 TTTTTAAAAACACAAAATTTCTTTTTGAAATCAGAAAA
34602169 TTTTT
1 TTTTT
34602174 GATAAAATAC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 35 0.95
39 2 0.05
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.42
Consensus pattern (38 bp):
TTTTTAAAAACACAAAATTTCTTTTTGAAATCAGAAAA
Found at i:34602217 original size:36 final size:37
Alignment explanation
Indices: 34602177--34602251 Score: 109
Period size: 36 Copynumber: 2.1 Consensus size: 37
34602167 AATTTTTGAT
*
34602177 AAAA-TACGAAACACGAGAAATTTTTTTTGAAAA-ACG
1 AAAATTACGAAACACGAG-AATTTTTTTCGAAAACACG
*
34602213 AAAATTTCGAAACACGAGAATTTTTTTCGAAAACACG
1 AAAATTACGAAACACGAGAATTTTTTTCGAAAACACG
34602250 AA
1 AA
34602252 TTTTTTTGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
36 18 0.51
37 17 0.49
ACGTcount: A:0.48, C:0.13, G:0.13, T:0.25
Consensus pattern (37 bp):
AAAATTACGAAACACGAGAATTTTTTTCGAAAACACG
Found at i:34602248 original size:21 final size:21
Alignment explanation
Indices: 34602185--34602258 Score: 65
Period size: 19 Copynumber: 3.9 Consensus size: 21
34602175 ATAAAATACG
*
34602185 AAACACGAGAAATTTTTTTTGA
1 AAACACGAG-AATTTTTTTCGA
*
34602207 AAA-ACGA-AA---ATTTCG-
1 AAACACGAGAATTTTTTTCGA
34602222 AAACACGAGAATTTTTTTCGA
1 AAACACGAGAATTTTTTTCGA
34602243 AAACAC--GAATTTTTTT
1 AAACACGAGAATTTTTTT
34602259 GAATATTTAC
Statistics
Matches: 43, Mismatches: 3, Indels: 15
0.70 0.05 0.25
Matches are distributed among these distances:
15 3 0.07
16 8 0.19
17 2 0.05
19 12 0.28
20 5 0.12
21 10 0.23
22 3 0.07
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.34
Consensus pattern (21 bp):
AAACACGAGAATTTTTTTCGA
Found at i:34602396 original size:5 final size:5
Alignment explanation
Indices: 34602386--34602413 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
34602376 AAATTATTTA
34602386 AAATT AAATT AAATT AAATT AAATT AAA
1 AAATT AAATT AAATT AAATT AAATT AAA
34602414 AACATATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (5 bp):
AAATT
Found at i:34602630 original size:18 final size:18
Alignment explanation
Indices: 34602588--34602633 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
34602578 TTTCTTTTAC
34602588 TTTTTTTTCTTTTTTCCT
1 TTTTTTTTCTTTTTTCCT
* * *
34602606 CTCTTTTTCTTTTTTCTT
1 TTTTTTTTCTTTTTTCCT
34602624 TTTTTTTTCT
1 TTTTTTTTCT
34602634 GGATTGGGCT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTTTTTCTTTTTTCCT
Found at i:34602958 original size:3 final size:3
Alignment explanation
Indices: 34602947--34602998 Score: 59
Period size: 3 Copynumber: 15.7 Consensus size: 3
34602937 TTTTTTTCCC
34602947 TCT TCCT TCT TCT TCT CTCTT TCTT TCT TCT TCT TCT TCT TCCT TCT
1 TCT T-CT TCT TCT TCT -TC-T TC-T TCT TCT TCT TCT TCT T-CT TCT
34602994 TCT TC
1 TCT TC
34602999 AAAACCGAGC
Statistics
Matches: 45, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
3 30 0.67
4 14 0.31
5 1 0.02
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (3 bp):
TCT
Found at i:34602960 original size:10 final size:10
Alignment explanation
Indices: 34602947--34602998 Score: 58
Period size: 10 Copynumber: 5.5 Consensus size: 10
34602937 TTTTTTTCCC
34602947 TCTTCCTTCT
1 TCTTCCTTCT
34602957 TCTT-C-TC-
1 TCTTCCTTCT
*
34602964 TCTTTCTTTCT
1 TC-TTCCTTCT
34602975 TCTT-CTTCT
1 TCTTCCTTCT
34602984 TCTTCCTTCT
1 TCTTCCTTCT
34602994 TCTTC
1 TCTTC
34602999 AAAACCGAGC
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
7 2 0.06
8 4 0.11
9 9 0.26
10 18 0.51
11 2 0.06
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (10 bp):
TCTTCCTTCT
Found at i:34602992 original size:16 final size:17
Alignment explanation
Indices: 34602955--34602998 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
34602945 CCTCTTCCTT
*
34602955 CTTCTTCTCTCTTTCTTT
1 CTTCTTCT-TCTTTCTTC
34602973 CTTCTTCTTC-TTCTTC
1 CTTCTTCTTCTTTCTTC
34602989 CTTCTTCTTC
1 CTTCTTCTTC
34602999 AAAACCGAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 15 0.60
17 2 0.08
18 8 0.32
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (17 bp):
CTTCTTCTTCTTTCTTC
Found at i:34603377 original size:30 final size:30
Alignment explanation
Indices: 34603323--34603491 Score: 171
Period size: 30 Copynumber: 5.7 Consensus size: 30
34603313 AAATACAGCA
* * **
34603323 AAAGTTTTGGGGCCAAAACATAATTTTGAG
1 AAAGTTTAGGGGTCAAAATGTAATTTTGAG
* * * *
34603353 AAAGCTTAAGGGTCCAAATGTAATTTTAAG
1 AAAGTTTAGGGGTCAAAATGTAATTTTGAG
*
34603383 AAAGTTTAGGGGTCAAAATGTAATTTAGA-
1 AAAGTTTAGGGGTCAAAATGTAATTTTGAG
** *
34603412 AAAGTTTAGGGGTTGAACTGTAATTTTGAG
1 AAAGTTTAGGGGTCAAAATGTAATTTTGAG
* * *
34603442 AAAGTTTATGGGTTAAAATGCAATTTT-AG
1 AAAGTTTAGGGGTCAAAATGTAATTTTGAG
*
34603471 AAAAGTTTAGTGGTCAAAATG
1 -AAAGTTTAGGGGTCAAAATG
34603492 CAAAAAAATT
Statistics
Matches: 113, Mismatches: 24, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
29 27 0.24
30 86 0.76
ACGTcount: A:0.38, C:0.06, G:0.24, T:0.33
Consensus pattern (30 bp):
AAAGTTTAGGGGTCAAAATGTAATTTTGAG
Found at i:34604425 original size:347 final size:349
Alignment explanation
Indices: 34603999--34604694 Score: 1362
Period size: 347 Copynumber: 2.0 Consensus size: 349
34603989 CGAAGAAATA
34603999 ATAATAATAAATAATAATACAAGGTTAATGATGCCATATATAAGTATTAATAATATTAAAATATT
1 ATAATAATAAATAATAATACAAGGTTAATGATGCCATATATAAGTATTAATAATATTAAAATATT
34604064 TAATTTAATAATAAAATAACTAAAATAAAAATAGAGGATTAAATTGAAAATGAACAAAGTTTTAG
66 TAATTTAATAATAAAATAACTAAAATAAAAATAGAGGATTAAATTGAAAATGAACAAAGTTTTAG
34604129 GACCGAATTAAAAAATGGAAAACACAAAAAGGACTAAATCATAACGCGCGCGAAAGGAAGAGGAC
131 GACCGAATTAAAAAATGGAAAACACAAAAAGGACTAAATCATAACGCGCGCGAAAGGAAGAGGAC
34604194 CAAAAGGGGAAATATTCCCTCGCTAATCAAACGGCGTCGTTCCAGTGAAGCGCATGTGCTTGGTC
196 CAAAAGGGGAAATATTCCCTCGCTAATCAAACGGCGTCGTTCCAGTGAAGCGCATGTGCTTGGTC
34604259 TAGGGACCAAATTAAAACAGGAGAAAAATTATGTGGCCAAAATTGGAAATATGTGAAAAAACTGC
261 TAGGGACCAAATTAAAACAGGAGAAAAATTATGTGGCCAAAATTGGAAATATGTGAAAAAACTGC
34604324 ATTGAAAGCGACACAAAAGTGGAG
326 ATTGAAAGCGACACAAAAGTGGAG
34604348 ATAATAAT-AA-AATAATACAAGGTTAATGATGCCATATA-ATAGTATTAATAATATTAAAATAT
1 ATAATAATAAATAATAATACAAGGTTAATGATGCCATATATA-AGTATTAATAATATTAAAATAT
34604410 TTAATTTAATAATAAAATAACTAAAATAAAAATAGAGGATTAAATTGAAAATGAACAAAGTTTTA
65 TTAATTTAATAATAAAATAACTAAAATAAAAATAGAGGATTAAATTGAAAATGAACAAAGTTTTA
34604475 GGACCGAATTAAAAAATGGAAAACACAAAAAGGACTAAATCATAACGCGCGCGAAAGGAAGAGGA
130 GGACCGAATTAAAAAATGGAAAACACAAAAAGGACTAAATCATAACGCGCGCGAAAGGAAGAGGA
34604540 CCAAAAGGGGAAATATTCCCTCGCTAATCAAACGGCGTCGTTCCAGTGAAGCGCATGTGCTTGGT
195 CCAAAAGGGGAAATATTCCCTCGCTAATCAAACGGCGTCGTTCCAGTGAAGCGCATGTGCTTGGT
34604605 CTAGGGACCAAATTAAAACAGGAGAAAAATTATGTGGCCAAAATTGGAAATATGTGAAAAAACTG
260 CTAGGGACCAAATTAAAACAGGAGAAAAATTATGTGGCCAAAATTGGAAATATGTGAAAAAACTG
34604670 CATTGAAAGCGACACAAAAGTGGAG
325 CATTGAAAGCGACACAAAAGTGGAG
34604695 GGATCGATTG
Statistics
Matches: 346, Mismatches: 0, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
346 1 0.00
347 335 0.97
348 2 0.01
349 8 0.02
ACGTcount: A:0.47, C:0.12, G:0.19, T:0.23
Consensus pattern (349 bp):
ATAATAATAAATAATAATACAAGGTTAATGATGCCATATATAAGTATTAATAATATTAAAATATT
TAATTTAATAATAAAATAACTAAAATAAAAATAGAGGATTAAATTGAAAATGAACAAAGTTTTAG
GACCGAATTAAAAAATGGAAAACACAAAAAGGACTAAATCATAACGCGCGCGAAAGGAAGAGGAC
CAAAAGGGGAAATATTCCCTCGCTAATCAAACGGCGTCGTTCCAGTGAAGCGCATGTGCTTGGTC
TAGGGACCAAATTAAAACAGGAGAAAAATTATGTGGCCAAAATTGGAAATATGTGAAAAAACTGC
ATTGAAAGCGACACAAAAGTGGAG
Found at i:34608663 original size:6 final size:7
Alignment explanation
Indices: 34608648--34608673 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
34608638 AGTAACGCAC
34608648 TTTTATT
1 TTTTATT
34608655 TTTTATT
1 TTTTATT
34608662 TTTTATT
1 TTTTATT
34608669 TTTTA
1 TTTTA
34608674 CTCCTCTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTATT
Found at i:34609515 original size:15 final size:15
Alignment explanation
Indices: 34609494--34609552 Score: 66
Period size: 15 Copynumber: 3.9 Consensus size: 15
34609484 TTATAAGAGG
34609494 AATAAGTATTATAAT
1 AATAAGTATTATAAT
* *
34609509 GATAAGTACTA-AGAT
1 AATAAGTATTATA-AT
*
34609524 AATCAGTATTATAAT
1 AATAAGTATTATAAT
*
34609539 AATAAGTATAATAA
1 AATAAGTATTATAA
34609553 AGATGAGAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
14 1 0.03
15 33 0.94
16 1 0.03
ACGTcount: A:0.53, C:0.03, G:0.10, T:0.34
Consensus pattern (15 bp):
AATAAGTATTATAAT
Found at i:34610973 original size:84 final size:85
Alignment explanation
Indices: 34610783--34611039 Score: 331
Period size: 84 Copynumber: 3.0 Consensus size: 85
34610773 TAATTAAACA
* * ** * * * * *
34610783 AATTTAAGTGTTACCAAGTTAAGATTAAGTTTTAAAATTTTAAAAACACAGAGACTAAAATTGAT
1 AATTTAACTGTTACCAAGTCAAGATTAAAATTTAAAATTCT-AAAAGATAGGGTCTAAAATTGAT
*
34610848 TAATTTGAAAAGAAAATGGAC
65 CAATTTGAAAAGAAAATGGAC
* *
34610869 AATTTAATTGTTACCAAGTCAAGATTAAAATTAAAAATTCTAAAAGTATAGGGTCT-AAATTGAT
1 AATTTAACTGTTACCAAGTCAAGATTAAAATTTAAAATTCTAAAAG-ATAGGGTCTAAAATTGAT
* *
34610933 CAATTTGAAAA-ATATTGGAC
65 CAATTTGAAAAGAAAATGGAC
34610953 AATTTAACTGTTACCAAGTCAAGATTAAAATTTAAAATTCTAAAAGATA-GGTACTAAAATTGAT
1 AATTTAACTGTTACCAAGTCAAGATTAAAATTTAAAATTCTAAAAGATAGGGT-CTAAAATTGAT
*
34611017 CAATTTGAAAAGAAAACGGAC
65 CAATTTGAAAAGAAAATGGAC
34611038 AA
1 AA
34611040 AAATTTGACC
Statistics
Matches: 149, Mismatches: 18, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
82 3 0.02
83 5 0.03
84 70 0.47
85 30 0.20
86 41 0.28
ACGTcount: A:0.47, C:0.09, G:0.13, T:0.31
Consensus pattern (85 bp):
AATTTAACTGTTACCAAGTCAAGATTAAAATTTAAAATTCTAAAAGATAGGGTCTAAAATTGATC
AATTTGAAAAGAAAATGGAC
Found at i:34614999 original size:25 final size:25
Alignment explanation
Indices: 34614943--34615009 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
34614933 TATGACTCTT
*
34614943 ATGAGGTTCCCATTATACAGCCCGA
1 ATGAGCTTCCCATTATACAGCCCGA
* *
34614968 ATAAGCTTCCCATTATACAGCTC-A
1 ATGAGCTTCCCATTATACAGCCCGA
*
34614992 CATGAGCTTCCCGTTATA
1 -ATGAGCTTCCCATTATA
34615010 TGGCTCGAGA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
24 1 0.03
25 35 0.97
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.28
Consensus pattern (25 bp):
ATGAGCTTCCCATTATACAGCCCGA
Found at i:34617851 original size:23 final size:24
Alignment explanation
Indices: 34617825--34617888 Score: 69
Period size: 23 Copynumber: 2.7 Consensus size: 24
34617815 TATTTTTTTT
34617825 AAAAGGCTCCAACTATTAA-TTCA
1 AAAAGGCTCCAACTATTAATTTCA
* * *
34617848 AAAAGGTTCCAAATGTTAATTTCA
1 AAAAGGCTCCAACTATTAATTTCA
*
34617872 AAGAAGTC-CCAACTATT
1 AA-AAGGCTCCAACTATT
34617889 GGAGTAACAA
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
23 16 0.50
24 13 0.41
25 3 0.09
ACGTcount: A:0.42, C:0.19, G:0.11, T:0.28
Consensus pattern (24 bp):
AAAAGGCTCCAACTATTAATTTCA
Found at i:34624785 original size:42 final size:43
Alignment explanation
Indices: 34624701--34624790 Score: 137
Period size: 42 Copynumber: 2.1 Consensus size: 43
34624691 ATTTAATTAG
*
34624701 TTCAAAAATCATTTTAATAGAAAAAGGAATTTTACACCAAGTT
1 TTCAAAAATCATTTTAATAGAAAAAGGAAATTTACACCAAGTT
* *
34624744 TTCAAAAATCATTTTAATAG-AAAAGGAAATTTCCACTAAGTT
1 TTCAAAAATCATTTTAATAGAAAAAGGAAATTTACACCAAGTT
*
34624786 CTCAA
1 TTCAA
34624791 GGTGGATTCT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
42 23 0.53
43 20 0.47
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.32
Consensus pattern (43 bp):
TTCAAAAATCATTTTAATAGAAAAAGGAAATTTACACCAAGTT
Found at i:34631512 original size:38 final size:38
Alignment explanation
Indices: 34631456--34631529 Score: 105
Period size: 38 Copynumber: 1.9 Consensus size: 38
34631446 GTCACTAATG
* *
34631456 TTATTGAAAAGTGACAAATCTGTCAC-CTATTAACATCA
1 TTATCGAAAAGTGACAAATCAGTCACTC-ATTAACATCA
*
34631494 TTATCGAAAAGTTACAAATCAGTCACTCATTAACAT
1 TTATCGAAAAGTGACAAATCAGTCACTCATTAACAT
34631530 TTTCAACTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
38 31 0.97
39 1 0.03
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (38 bp):
TTATCGAAAAGTGACAAATCAGTCACTCATTAACATCA
Found at i:34639015 original size:27 final size:27
Alignment explanation
Indices: 34638962--34639015 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
34638952 AAATTTTAGA
* *
34638962 AAAAAAAAATCATTTCCTCTCTGCCTT
1 AAAAAAAAATCATCTCCTCTCTCCCTT
* * *
34638989 AAAAAAAAATCCTCTCTTCTTTCCCTT
1 AAAAAAAAATCATCTCCTCTCTCCCTT
34639016 TTCTTTGAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.35, C:0.28, G:0.02, T:0.35
Consensus pattern (27 bp):
AAAAAAAAATCATCTCCTCTCTCCCTT
Found at i:34642366 original size:18 final size:18
Alignment explanation
Indices: 34642343--34642396 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 18
34642333 GACTCTCTAC
34642343 TATAATAATAATAAGAAG
1 TATAATAATAATAAGAAG
* *
34642361 TATAATAATGATAAGATG
1 TATAATAATAATAAGAAG
* * *
34642379 CAAAATAATAATGAGAAG
1 TATAATAATAATAAGAAG
34642397 AAAAAATGGA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.57, C:0.02, G:0.15, T:0.26
Consensus pattern (18 bp):
TATAATAATAATAAGAAG
Found at i:34643324 original size:8 final size:7
Alignment explanation
Indices: 34643277--34643326 Score: 55
Period size: 7 Copynumber: 6.9 Consensus size: 7
34643267 ATTTAAATCT
34643277 TAAACCC
1 TAAACCC
**
34643284 TAAATTC
1 TAAACCC
*
34643291 TAAACAC
1 TAAACCC
34643298 TAAACCC
1 TAAACCC
34643305 TAAAACCC
1 T-AAACCC
34643313 TAAACCC
1 TAAACCC
34643320 ATAAACC
1 -TAAACC
34643327 ATAGGCACTA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
7 23 0.64
8 13 0.36
ACGTcount: A:0.48, C:0.34, G:0.00, T:0.18
Consensus pattern (7 bp):
TAAACCC
Found at i:34643325 original size:15 final size:14
Alignment explanation
Indices: 34643277--34643326 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
34643267 ATTTAAATCT
**
34643277 TAAACCCTAAATTC
1 TAAACCCTAAACCC
*
34643291 TAAACACTAAACCC
1 TAAACCCTAAACCC
34643305 TAAAACCCTAAACCC
1 T-AAACCCTAAACCC
34643320 ATAAACC
1 -TAAACC
34643327 ATAGGCACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
14 12 0.40
15 17 0.57
16 1 0.03
ACGTcount: A:0.48, C:0.34, G:0.00, T:0.18
Consensus pattern (14 bp):
TAAACCCTAAACCC
Found at i:34646250 original size:18 final size:18
Alignment explanation
Indices: 34646227--34646266 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
34646217 GTAAATAAAT
34646227 AAATTAACAAAATTAT-AA
1 AAATT-ACAAAATTATGAA
*
34646245 AAATTATAAAATTATGAA
1 AAATTACAAAATTATGAA
34646263 AAAT
1 AAAT
34646267 ATATATATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.30
Consensus pattern (18 bp):
AAATTACAAAATTATGAA
Found at i:34646255 original size:17 final size:19
Alignment explanation
Indices: 34646235--34646271 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
34646225 ATAAATTAAC
34646235 AAAATTAT-AAAAAT-TAT
1 AAAATTATGAAAAATATAT
34646252 AAAATTATGAAAAATATAT
1 AAAATTATGAAAAATATAT
34646271 A
1 A
34646272 TATACATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.44
18 6 0.33
19 4 0.22
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (19 bp):
AAAATTATGAAAAATATAT
Found at i:34646322 original size:36 final size:37
Alignment explanation
Indices: 34646249--34646325 Score: 95
Period size: 36 Copynumber: 2.1 Consensus size: 37
34646239 TTATAAAAAT
* *
34646249 TATAAAATTATGAAAAATATATATATACATATATATG
1 TATAAAATTATGAAAAATATATAAAAACATATATATG
* *
34646286 TATAAAATTATG-AAAATATGA-AAAAACATGTGTATG
1 TATAAAATTATGAAAAATAT-ATAAAAACATATATATG
34646322 TATA
1 TATA
34646326 CATATTTAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
36 22 0.63
37 13 0.37
ACGTcount: A:0.53, C:0.03, G:0.09, T:0.35
Consensus pattern (37 bp):
TATAAAATTATGAAAAATATATAAAAACATATATATG
Found at i:34646867 original size:3 final size:3
Alignment explanation
Indices: 34646859--34646912 Score: 72
Period size: 3 Copynumber: 17.7 Consensus size: 3
34646849 AATAAAACTG
* * *
34646859 ATA ATA ATAA ATA GTA ATA ATA ATA ATG ATA ATA ATA ATA ATG ATA
1 ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
34646905 ATA ATA AT
1 ATA ATA AT
34646913 TGTCGAAACC
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
3 41 0.93
4 3 0.07
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:34646867 original size:15 final size:15
Alignment explanation
Indices: 34646859--34646912 Score: 83
Period size: 15 Copynumber: 3.5 Consensus size: 15
34646849 AATAAAACTG
34646859 ATAATAATAAAT-AGTA
1 ATAATAAT-AATGA-TA
34646875 ATAATAATAATGATA
1 ATAATAATAATGATA
34646890 ATAATAATAATGATA
1 ATAATAATAATGATA
34646905 ATAATAAT
1 ATAATAAT
34646913 TGTCGAAACC
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
15 28 0.76
16 9 0.24
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (15 bp):
ATAATAATAATGATA
Found at i:34648100 original size:18 final size:19
Alignment explanation
Indices: 34648061--34648120 Score: 63
Period size: 18 Copynumber: 3.3 Consensus size: 19
34648051 GTGTAAGTGT
* *
34648061 ATAAAAATAATG-ATGATG
1 ATAAAAATAATGAATAATA
34648079 ATAAAAATAATGAATAAT-
1 ATAAAAATAATGAATAATA
* *
34648097 ATAATAATAAT-AAAAATA
1 ATAAAAATAATGAATAATA
34648115 ATAAAA
1 ATAAAA
34648121 TAGTTAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
17 5 0.14
18 27 0.75
19 4 0.11
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (19 bp):
ATAAAAATAATGAATAATA
Found at i:34648114 original size:9 final size:9
Alignment explanation
Indices: 34648079--34648120 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
34648069 AATGATGATG
34648079 ATAAAAATA
1 ATAAAAATA
*
34648088 ATGAATAAT-
1 AT-AAAAATA
*
34648097 ATAATAATA
1 ATAAAAATA
34648106 ATAAAAATA
1 ATAAAAATA
34648115 ATAAAA
1 ATAAAA
34648121 TAGTTAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
8 6 0.21
9 18 0.62
10 5 0.17
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (9 bp):
ATAAAAATA
Found at i:34648116 original size:20 final size:21
Alignment explanation
Indices: 34648091--34648132 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
34648081 AAAAATAATG
*
34648091 AATAATATAATA-ATAATAAA
1 AATAATAAAATAGATAATAAA
*
34648111 AATAATAAAATAGTTAATAAA
1 AATAATAAAATAGATAATAAA
34648132 A
1 A
34648133 GGTTAAATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (21 bp):
AATAATAAAATAGATAATAAA
Found at i:34648491 original size:208 final size:207
Alignment explanation
Indices: 34648129--34648544 Score: 805
Period size: 208 Copynumber: 2.0 Consensus size: 207
34648119 AATAGTTAAT
34648129 AAAAGGTTAAATTGAATTAAAAAAGAAAAAAAGGCTAAATTTGAAGTAAATTTGAAAACAGGATC
1 AAAAGGTTAAATTGAATTAAAAAAGAAAAAAAGGCTAAATTTGAAGTAAATTTGAAAACAGGATC
34648194 ACATTGAATGCGCGCGTAAGGGCAGAGGACCAAAAGGGAAATAACCCGCCTCCCCAAAACGCTTT
66 ACATTGAATGCGCGCGTAAGGGCAGAGGACCAAAAGGGAAATAACCCGCCTCCCCAAAACGCTTT
34648259 GCAGTAATGGGGACTAATTTGAAGCAAAAAATAAAACATGAGATCAAAATTAAAATAAATAAAAA
131 GCAGTAATGGGGACTAATTTGAAGCAAAAAATAAAACATGAGATCAAAATTAAAATAAATAAAAA
34648324 GTTGATTAAAAC
196 GTTGATTAAAAC
34648336 AAAAGGGTTAAATTGAATTAAAAAAGAAAAAAAGGCTAAATTTGAAGTAAATTTGAAAACAGGAT
1 AAAA-GGTTAAATTGAATTAAAAAAGAAAAAAAGGCTAAATTTGAAGTAAATTTGAAAACAGGAT
*
34648401 CGCATTGAATGCGCGCGTAAGGGCAGAGGACCAAAAGGGAAATAACCCGCCTCCCCAAAACGCTT
65 CACATTGAATGCGCGCGTAAGGGCAGAGGACCAAAAGGGAAATAACCCGCCTCCCCAAAACGCTT
34648466 TGCAGTAATGGGGACTAATTTGAAGCAAAAAATAAAACATGAGATCAAAATTAAAATAAATAAAA
130 TGCAGTAATGGGGACTAATTTGAAGCAAAAAATAAAACATGAGATCAAAATTAAAATAAATAAAA
*
34648531 AGTTGATTTAAAC
195 AGTTGATTAAAAC
34648544 A
1 A
34648545 TGCTCATAAA
Statistics
Matches: 206, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
207 4 0.02
208 202 0.98
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.20
Consensus pattern (207 bp):
AAAAGGTTAAATTGAATTAAAAAAGAAAAAAAGGCTAAATTTGAAGTAAATTTGAAAACAGGATC
ACATTGAATGCGCGCGTAAGGGCAGAGGACCAAAAGGGAAATAACCCGCCTCCCCAAAACGCTTT
GCAGTAATGGGGACTAATTTGAAGCAAAAAATAAAACATGAGATCAAAATTAAAATAAATAAAAA
GTTGATTAAAAC
Found at i:34649974 original size:50 final size:50
Alignment explanation
Indices: 34649920--34650455 Score: 279
Period size: 50 Copynumber: 10.7 Consensus size: 50
34649910 CACTGCCGCA
** *
34649920 GCTTCAATCTACTCCATTGCACTGCTAAGGAAGTAAGATTCGCCGTTGTG
1 GCTTCAATCTGTTCCATTGCACTGCTAAGGAAGTAAGATCCGCCGTTGTG
* ** * * * * *** * * *
34649970 GCTTCAATCTTTTTAATAGCAAT-ATCAGGGAAACCAGATCCGCCATCGTA
1 GCTTCAATCTGTTCCATTGCACTGCT-AAGGAAGTAAGATCCGCCGTTGTG
* * * * *
34650020 GCTTCAATCTGTTCCACTACACTGCTAAAGAAGTAAGATCCGTCGTTATG
1 GCTTCAATCTGTTCCATTGCACTGCTAAGGAAGTAAGATCCGCCGTTGTG
* ** * * ** * *** *
34650070 GCTTCAATCTTTTTAATGGCAATATTAGGGAAACCAGATCCGCCGTTGTA
1 GCTTCAATCTGTTCCATTGCACTGCTAAGGAAGTAAGATCCGCCGTTGTG
* *
34650120 ACTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATCCGCCGTTGTG
1 GCTTCAATCTGTTCCATTGCACTGCTAAGGAAGTAAGATCCGCCGTTGTG
* ** * * * * * * * *
34650170 GCTTCAATCTTTTTAATTACAAT-ATCAGGGAAATCAGGTCCACCGTTGTG
1 GCTTCAATCTGTTCCATTGCACTGCT-AAGGAAGTAAGATCCGCCGTTGTG
* * ** *
34650220 GCTTCAATCGGTTCCACTGCACTGCTAAAAAAGTAAGATCCACCGTTGTG
1 GCTTCAATCTGTTCCATTGCACTGCTAAGGAAGTAAGATCCGCCGTTGTG
* * ** * * * *** ** * *
34650270 ACTTCAATCTTTTTAATTGCAAT-ATCAGGGAAACCAGATCTACCGTCGTA
1 GCTTCAATCTGTTCCATTGCACTGCT-AAGGAAGTAAGATCCGCCGTTGTG
* * *
34650320 GCTTCAATCTGTTCCACTGCACTGCTAAAGAAGTAAGATCTGCCGTTGTG
1 GCTTCAATCTGTTCCATTGCACTGCTAAGGAAGTAAGATCCGCCGTTGTG
* ** * * * *** * *
34650370 GCTTCAATCTTTTTAATTGCAAT-ATCAGGGAAACCAGATCCGCCGTCGTA
1 GCTTCAATCTGTTCCATTGCACTGCT-AAGGAAGTAAGATCCGCCGTTGTG
* *
34650420 GCTTCAATCTGTTCTACTGCACTGCTAAGGAAGTAA
1 GCTTCAATCTGTTCCATTGCACTGCTAAGGAAGTAA
34650456 AATCTATGGT
Statistics
Matches: 331, Mismatches: 147, Indels: 16
0.67 0.30 0.03
Matches are distributed among these distances:
49 4 0.01
50 323 0.98
51 4 0.01
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (50 bp):
GCTTCAATCTGTTCCATTGCACTGCTAAGGAAGTAAGATCCGCCGTTGTG
Found at i:34650043 original size:100 final size:100
Alignment explanation
Indices: 34649795--34650455 Score: 811
Period size: 100 Copynumber: 6.7 Consensus size: 100
34649785 TTGTTCAACT
* * * * * * **
34649795 GCAATGTCGGGGAAACCAGATCTGTCGTCGTAGCTTCAATCTATTCCACCGCAC--CATCAGGGA
1 GCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGC-T-AAAGA
*
34649858 AGTAAGATCCGCCGTTGTGGCTTCAA-------AATT
64 AGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATA
* * * * * * * ** * *
34649888 GCAATGTCAGGAAAACTAGATCCACTGCCGCAGCTTCAATCTACTCCATTGCACTGCTAAGGAAG
1 GCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAAGAAG
*
34649953 TAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATA
66 TAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATA
* *
34649988 GCAATATCAGGGAAACCAGATCCGCCATCGTAGCTTCAATCTGTTCCACTACACTGCTAAAGAAG
1 GCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAAGAAG
* * *
34650053 TAAGATCCGTCGTTATGGCTTCAATCTTTTTAATG
66 TAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATA
* * * *
34650088 GCAATATTAGGGAAACCAGATCCGCCGTTGTAACTTCAATCTGTTCCACTGCACTGCTAAGGAAG
1 GCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAAGAAG
34650153 TAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTA
66 TAAGATCCGCCGTTGTGGCTTCAATCTTTTTAA-TA
* * * * * * *
34650189 -CAATATCAGGGAAATCAGGTCCACCGTTGTGGCTTCAATCGGTTCCACTGCACTGCTAAAAAAG
1 GCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAAGAAG
* * *
34650253 TAAGATCCACCGTTGTGACTTCAATCTTTTTAATT
66 TAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATA
**
34650288 GCAATATCAGGGAAACCAGATCTACCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAAGAAG
1 GCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAAGAAG
* *
34650353 TAAGATCTGCCGTTGTGGCTTCAATCTTTTTAATT
66 TAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATA
* *
34650388 GCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCTACTGCACTGCTAAGGAAG
1 GCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAAGAAG
34650453 TAA
66 TAA
34650456 AATCTATGGT
Statistics
Matches: 490, Mismatches: 67, Indels: 15
0.86 0.12 0.03
Matches are distributed among these distances:
93 71 0.14
94 1 0.00
95 1 0.00
99 1 0.00
100 415 0.85
101 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.29
Consensus pattern (100 bp):
GCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAAGAAG
TAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATA
Found at i:34651657 original size:17 final size:16
Alignment explanation
Indices: 34651637--34651676 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
34651627 TTCACTTTCA
34651637 TTTTTTCATTTTTTTTG
1 TTTTTT-ATTTTTTTTG
*
34651654 TTTTGTTTTTTTTTTTG
1 TTTT-TTATTTTTTTTG
34651671 TTTTTT
1 TTTTTT
34651677 TGAATCTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 2 0.10
17 17 0.81
18 2 0.10
ACGTcount: A:0.03, C:0.03, G:0.07, T:0.88
Consensus pattern (16 bp):
TTTTTTATTTTTTTTG
Found at i:34651677 original size:12 final size:13
Alignment explanation
Indices: 34651646--34651678 Score: 59
Period size: 12 Copynumber: 2.6 Consensus size: 13
34651636 ATTTTTTCAT
34651646 TTTTTTTGTTTTG
1 TTTTTTTGTTTTG
34651659 TTTTTTT-TTTTG
1 TTTTTTTGTTTTG
34651671 TTTTTTTG
1 TTTTTTTG
34651679 AATCTGAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.63
13 7 0.37
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (13 bp):
TTTTTTTGTTTTG
Found at i:34653667 original size:19 final size:20
Alignment explanation
Indices: 34653643--34653686 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
34653633 TAGAGGTGTT
* *
34653643 TAATGCATATG-ATGCAATG
1 TAATGCAAATGCATGAAATG
34653662 TAATGCAAATGCATGAAATG
1 TAATGCAAATGCATGAAATG
34653682 -AATGC
1 TAATGC
34653687 GAAAAGAGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.27
Consensus pattern (20 bp):
TAATGCAAATGCATGAAATG
Found at i:34670105 original size:198 final size:198
Alignment explanation
Indices: 34669940--34670747 Score: 1305
Period size: 198 Copynumber: 4.1 Consensus size: 198
34669930 GCAGTGGAAC
* * *
34669940 AGATTGAAGCTACAACAGCGAATCTTACTTTCCTAGCATTGCATTGGAACAGATTGAAGCTACAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGAAGCTACAA
** * * *
34670005 CAATAGAGCTCACTTCCCTGACATTGTAATTAAAAGATTGAGGCCACAACGGCGAATCTTATTTC
66 CAGCAGATCTCACTTCCCTGACATTGCAATCAAAAGATTGAGGCCACAACGGCGAATCTTATTTC
* *
34670070 CAGGCAGTGCAGTGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAATTA
131 CAGGCGGTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTA
34670135 AGA
196 AGA
*
34670138 AGATTGAAGCTACAACAGTGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGAAGCTACAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGAAGCTACAA
* *
34670203 CAGCAGATCTCACTTCCCTAACATTGCAATCAAAAGATTGATGCCACAACGGCGAATCTTATTTC
66 CAGCAGATCTCACTTCCCTGACATTGCAATCAAAAGATTGAGGCCACAACGGCGAATCTTATTTC
* *
34670268 CAGGCGGTGCAGTGGAACAGATTGAAGCTACAACAGCAGATCTTACTTCCCTGACGTTGCAATTA
131 CAGGCGGTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTA
34670333 AGA
196 AGA
* *
34670336 AGATTAAAGCTA-AACAGTGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGAAGCTACAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGAAGCTACAA
34670400 CAGCAGATCTCACTTCCCTGACATTGCAATCAAAAGATTGAGGCCACAACGGCGAATCTTATTTC
66 CAGCAGATCTCACTTCCCTGACATTGCAATCAAAAGATTGAGGCCACAACGGCGAATCTTATTTC
*
34670465 CAGGCGGTGCAGTGGAACAGATTGAAGCTACAACAGCGGATATTACTTCCCTGACATTGCAATTA
131 CAGGCGGTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTA
34670530 AGA
196 AGA
34670533 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGAAGCTACAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGAAGCTACAA
* * * * * * * * *
34670598 CAGCGGATATTACTTGCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTT
66 CAGCAGATCTCACTTCCCTGACATTGCAATCAA-AAGATTGAGGCCACAACGGCGAATCTTA-TT
*
34670663 TCCTA-GCGTTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAA
129 TCC-AGGCGGTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAA
*
34670727 TTAAAA
193 TTAAGA
*
34670733 ATATTGAAGCTACAA
1 AGATTGAAGCTACAA
34670748 GTCAGATCCC
Statistics
Matches: 570, Mismatches: 36, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
197 191 0.34
198 273 0.48
199 24 0.04
200 81 0.14
201 1 0.00
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (198 bp):
AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGAAGCTACAA
CAGCAGATCTCACTTCCCTGACATTGCAATCAAAAGATTGAGGCCACAACGGCGAATCTTATTTC
CAGGCGGTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTA
AGA
Found at i:34670202 original size:100 final size:99
Alignment explanation
Indices: 34669790--34670747 Score: 1118
Period size: 100 Copynumber: 9.6 Consensus size: 99
34669780 GTAATTAAGA
* * * * * *
34669790 AGATTGAAGCTACAACAGCGGATCTTACTTTCCT-AGCGTTGCAGTGGAACAGATTGAAGCTACA
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGA-CATTGCAAT-TAAAAGATTGAAGCTACA
* * * * * *
34669854 ACAGCAAATCTTACTTCCCT-GACATTGCAAT-TAAGA
64 ACAGCGAATCTTACTTTCCTAG-CGTTGCAGTGGAA-C
* * * * ** * * *
34669890 AGATTGAAGCTACAACAGCAAATCTTACTTTCCAGGCGGTGCAGTGGAACAGATTGAAGCTACAA
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAAT-TAAAAGATTGAAGCTACAA
* *
34669955 CAGCGAATCTTACTTTCCTAGCATTGCATTGGAAC
65 CAGCGAATCTTACTTTCCTAGCGTTGCAGTGGAAC
** * * * * *
34669990 AGATTGAAGCTACAACA-ATAGAGCTCACTTCCCTGACATTGTAATTAAAAGATTGAGGCCACAA
1 AGATTGAAGCTACAACAGCGA-ATCTTACTTCCCTGACATTGCAATTAAAAGATTGAAGCTACAA
*
34670054 CGGCGAATCTTA-TTTCC-AGGCAG-TGCAGTGGAAC
65 CAGCGAATCTTACTTTCCTA-GC-GTTGCAGTGGAAC
34670088 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAA
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAATTAA-AAGATTGAAGCTACAA
* *
34670153 CAGTGGATCTTACTTTCCTAGCGTTGCAGTGGAAC
65 CAGCGAATCTTACTTTCCTAGCGTTGCAGTGGAAC
* * * * *
34670188 AGATTGAAGCTACAACAGC-AGATCTCACTTCCCTAACATTGCAATCAAAAGATTGATGCCACAA
1 AGATTGAAGCTACAACAGCGA-ATCTTACTTCCCTGACATTGCAATTAAAAGATTGAAGCTACAA
* *
34670252 CGGCGAATCTTA-TTTCC-AGGCGGTGCAGTGGAAC
65 CAGCGAATCTTACTTTCCTA-GCGTTGCAGTGGAAC
* *
34670286 AGATTGAAGCTACAACAGC-AGATCTTACTTCCCTGACGTTGCAATTAAGAAGATTAAAGCTA-A
1 AGATTGAAGCTACAACAGCGA-ATCTTACTTCCCTGACATTGCAATTAA-AAGATTGAAGCTACA
* *
34670349 ACAGTGGATCTTACTTTCCTAGCGTTGCAGTGGAAC
64 ACAGCGAATCTTACTTTCCTAGCGTTGCAGTGGAAC
* * * *
34670385 AGATTGAAGCTACAACAGC-AGATCTCACTTCCCTGACATTGCAATCAAAAGATTGAGGCCACAA
1 AGATTGAAGCTACAACAGCGA-ATCTTACTTCCCTGACATTGCAATTAAAAGATTGAAGCTACAA
* *
34670449 CGGCGAATCTTA-TTTCC-AGGCGGTGCAGTGGAAC
65 CAGCGAATCTTACTTTCCTA-GCGTTGCAGTGGAAC
* *
34670483 AGATTGAAGCTACAACAGCGGATATTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAA
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAATTAA-AAGATTGAAGCTACAA
*
34670548 CAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAAC
65 CAGCGAATCTTACTTTCCTAGCGTTGCAGTGGAAC
* * *
34670583 AGATTGAAGCTACAACAGCGGATATTACTTGCCTGACATTGCAATTAAGAAGATTGAAGCTACAA
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAATTAA-AAGATTGAAGCTACAA
*
34670648 CAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAAC
65 CAGCGAATCTTACTTTCCTAGCGTTGCAGTGGAAC
* *
34670683 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTAAAAATATTGAAGCTACAA
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAATT-AAAAGATTGAAGCTACAA
34670748 GTCAGATCCC
Statistics
Matches: 754, Mismatches: 81, Indels: 46
0.86 0.09 0.05
Matches are distributed among these distances:
97 3 0.00
98 204 0.27
99 185 0.25
100 355 0.47
101 7 0.01
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (99 bp):
AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAATTAAAAGATTGAAGCTACAAC
AGCGAATCTTACTTTCCTAGCGTTGCAGTGGAAC
Found at i:34670725 original size:50 final size:50
Alignment explanation
Indices: 34669790--34670725 Score: 837
Period size: 50 Copynumber: 18.9 Consensus size: 50
34669780 GTAATTAAGA
*
34669790 AGATTGAAGCTACAACAGCGGATCTTACTTTCCT-AGCGTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGA-CATTGCAGTGGAAC
** * * * *
34669840 AGATTGAAGCTACAACAGCAAATCTTACTTCCCTGACATTGCAAT-TAAGA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGACATTGCAGTGGAA-C
** * * **
34669890 AGATTGAAGCTACAACAGCAAATCTTACTTTCCAGGCGGTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGACATTGCAGTGGAAC
* *
34669940 AGATTGAAGCTACAACAGCGAATCTTACTTTCCT-AGCATTGCATTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGA-CATTGCAGTGGAAC
*** * * * * * * *
34669990 AGATTGAAGCTACAACAATAGAGCTCACTTCCCTGACATTGTAAT-TAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGACATTGCAGTGGAAC
* * * * * * *
34670039 AGATTGAGGCCACAACGGCGAATCTTA-TTTCCAGGCAGTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGACATTGCAGTGGAAC
* * * * *
34670088 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAAT-TAAGA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGACATTGCAGTGGAA-C
* *
34670138 AGATTGAAGCTACAACAGTGGATCTTACTTTCCT-AGCGTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGA-CATTGCAGTGGAAC
* * * * * * *
34670188 AGATTGAAGCTACAACAGCAGATCTCACTTCCCTAACATTGCAAT-CAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGACATTGCAGTGGAAC
* * * * * * **
34670237 AGATTGATGCCACAACGGCGAATCTTA-TTTCCAGGCGGTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGACATTGCAGTGGAAC
* * * * * *
34670286 AGATTGAAGCTACAACAGCAGATCTTACTTCCCTGACGTTGCAAT-TAAGA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGACATTGCAGTGGAA-C
* * *
34670336 AGATTAAAGCTA-AACAGTGGATCTTACTTTCCT-AGCGTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGA-CATTGCAGTGGAAC
* * * * * *
34670385 AGATTGAAGCTACAACAGCAGATCTCACTTCCCTGACATTGCAAT-CAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGACATTGCAGTGGAAC
* * * * * * **
34670434 AGATTGAGGCCACAACGGCGAATCTTA-TTTCCAGGCGGTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGACATTGCAGTGGAAC
* * * * *
34670483 AGATTGAAGCTACAACAGCGGATATTACTTCCCTGACATTGCAAT-TAAGA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGACATTGCAGTGGAA-C
*
34670533 AGATTGAAGCTACAACAGCGGATCTTACTTTCCT-AGCGTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGA-CATTGCAGTGGAAC
* * * * *
34670583 AGATTGAAGCTACAACAGCGGATATTACTTGCCTGACATTGCAAT-TAAGA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGACATTGCAGTGGAA-C
*
34670633 AGATTGAAGCTACAACAGCGGATCTTACTTTCCT-AGCGTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGA-CATTGCAGTGGAAC
*
34670683 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGACATTGCA
34670726 ATTAAAAATA
Statistics
Matches: 694, Mismatches: 164, Indels: 56
0.76 0.18 0.06
Matches are distributed among these distances:
48 33 0.05
49 190 0.27
50 457 0.66
51 14 0.02
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (50 bp):
AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGACATTGCAGTGGAAC
Found at i:34676368 original size:12 final size:12
Alignment explanation
Indices: 34676351--34676394 Score: 79
Period size: 12 Copynumber: 3.7 Consensus size: 12
34676341 CGAGTGCCAG
34676351 TTTGAACAGCAA
1 TTTGAACAGCAA
34676363 TTTGAACAGCAA
1 TTTGAACAGCAA
34676375 TTTGAACAGCAA
1 TTTGAACAGCAA
*
34676387 TTTAAACA
1 TTTGAACA
34676395 TAAGAGGTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (12 bp):
TTTGAACAGCAA
Found at i:34677535 original size:9 final size:9
Alignment explanation
Indices: 34677523--34677614 Score: 54
Period size: 7 Copynumber: 10.4 Consensus size: 9
34677513 AAAATTTTGG
34677523 TTTTTATAA
1 TTTTTATAA
34677532 TTTTTTAATAA
1 -TTTTT-ATAA
* *
34677543 TTTTAATGA
1 TTTTTATAA
34677552 -TTTTA-AA
1 TTTTTATAA
34677559 -TTTTA-AA
1 TTTTTATAA
34677566 -TTTTA-AA
1 TTTTTATAA
*
34677573 TTTTTAAAAATA
1 TTTTT--ATA-A
*
34677585 TTTTTATAT
1 TTTTTATAA
34677594 TTTTTA-AA
1 TTTTTATAA
34677602 TTTTTATAA
1 TTTTTATAA
34677611 TTTT
1 TTTT
34677615 AAAAAATAAA
Statistics
Matches: 68, Mismatches: 7, Indels: 15
0.76 0.08 0.17
Matches are distributed among these distances:
7 15 0.22
8 15 0.22
9 15 0.22
10 12 0.18
11 5 0.07
12 6 0.09
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (9 bp):
TTTTTATAA
Found at i:34677621 original size:19 final size:18
Alignment explanation
Indices: 34677574--34677621 Score: 53
Period size: 17 Copynumber: 2.6 Consensus size: 18
34677564 AATTTTAAAT
34677574 TTTTAAAAATATTTTTATA
1 TTTTAAAAA-ATTTTTATA
**
34677593 TTTT-TTAAATTTTTATAA
1 TTTTAAAAAATTTTTAT-A
34677611 TTTTAAAAAAT
1 TTTTAAAAAAT
34677622 AAATTAAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
17 8 0.35
18 7 0.30
19 8 0.35
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTTAAAAAATTTTTATA
Found at i:34682734 original size:42 final size:43
Alignment explanation
Indices: 34682650--34682739 Score: 137
Period size: 42 Copynumber: 2.1 Consensus size: 43
34682640 ATTTAATTAG
*
34682650 TTCAAAAATCATTTTAATAGAAAAAGGAATTTTACACCAAGTT
1 TTCAAAAATCATTTTAATAGAAAAAGGAAATTTACACCAAGTT
* *
34682693 TTCAAAAATCATTTTAATAG-AAAAGGAAATTTCCACTAAGTT
1 TTCAAAAATCATTTTAATAGAAAAAGGAAATTTACACCAAGTT
*
34682735 CTCAA
1 TTCAA
34682740 GGTGGATTCT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
42 23 0.53
43 20 0.47
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.32
Consensus pattern (43 bp):
TTCAAAAATCATTTTAATAGAAAAAGGAAATTTACACCAAGTT
Found at i:34702519 original size:6 final size:6
Alignment explanation
Indices: 34702508--34702533 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
34702498 AGTACGGTAC
34702508 ATGAGA ATGAGA ATGAGA ATGAGA AT
1 ATGAGA ATGAGA ATGAGA ATGAGA AT
34702534 AATGAAGATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.31, T:0.19
Consensus pattern (6 bp):
ATGAGA
Found at i:34708290 original size:31 final size:32
Alignment explanation
Indices: 34708239--34708305 Score: 100
Period size: 31 Copynumber: 2.1 Consensus size: 32
34708229 TAATAACCTT
*
34708239 GTGACTTAAAATCAAAACTTTTGAATAGTTTG
1 GTGACTTAAAATCAAAACTTTTGAATAGTTTA
* *
34708271 GTGACTT-AAATGAAAACTTTTGAATTGTTTA
1 GTGACTTAAAATCAAAACTTTTGAATAGTTTA
34708302 GTGA
1 GTGA
34708306 TCAAATTGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
31 25 0.78
32 7 0.22
ACGTcount: A:0.36, C:0.07, G:0.18, T:0.39
Consensus pattern (32 bp):
GTGACTTAAAATCAAAACTTTTGAATAGTTTA
Found at i:34711146 original size:15 final size:15
Alignment explanation
Indices: 34711128--34711156 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
34711118 TATCAAAACA
34711128 AAAAAAAAAACCTGC
1 AAAAAAAAAACCTGC
34711143 AAAAAAAAAACCTG
1 AAAAAAAAAACCTG
34711157 ACAACAGCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.69, C:0.17, G:0.07, T:0.07
Consensus pattern (15 bp):
AAAAAAAAAACCTGC
Found at i:34711212 original size:27 final size:27
Alignment explanation
Indices: 34711182--34711233 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
34711172 AGCCAATCAC
34711182 ATTGGCGGCACCAAAGGTGCCAAAGGG
1 ATTGGCGGCACCAAAGGTGCCAAAGGG
34711209 ATTGGCGGCACCAAAGGTGCCAAAG
1 ATTGGCGGCACCAAAGGTGCCAAAG
34711234 ATTAGCCTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.31, C:0.23, G:0.35, T:0.12
Consensus pattern (27 bp):
ATTGGCGGCACCAAAGGTGCCAAAGGG
Found at i:34712966 original size:26 final size:27
Alignment explanation
Indices: 34712926--34712978 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 27
34712916 TTAGTCCGGC
*
34712926 CAGGCCAATCTCTTTGGCA-CTTTGGT
1 CAGGCCAATCACTTTGGCACCTTTGGT
34712952 CAGGCCAATCACTTTGGCACCTTTGGT
1 CAGGCCAATCACTTTGGCACCTTTGGT
34712979 GCCGCCAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 18 0.72
27 7 0.28
ACGTcount: A:0.17, C:0.28, G:0.23, T:0.32
Consensus pattern (27 bp):
CAGGCCAATCACTTTGGCACCTTTGGT
Found at i:34712985 original size:27 final size:26
Alignment explanation
Indices: 34712929--34712987 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 26
34712919 GTCCGGCCAG
* *
34712929 GCCAATCTCTTTGGCACTTTGGTCAG
1 GCCAATCACTTTGGCACTTTGGTCAC
34712955 GCCAATCACTTTGGCACCTTTGGTGC-C
1 GCCAATCACTTTGGCA-CTTTGGT-CAC
34712982 GCCAAT
1 GCCAAT
34712988 GTGATTGGCC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 15 0.52
27 13 0.45
28 1 0.03
ACGTcount: A:0.17, C:0.31, G:0.22, T:0.31
Consensus pattern (26 bp):
GCCAATCACTTTGGCACTTTGGTCAC
Found at i:34713104 original size:25 final size:27
Alignment explanation
Indices: 34713056--34713105 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 27
34713046 TATATTTTGA
* *
34713056 TAAATAAAAAAAATTATAATATTTTCG
1 TAAATAAAAAAAATGATAACATTTTCG
34713083 TAAAT-AAAAAAA-GATAACATTTT
1 TAAATAAAAAAAATGATAACATTTT
34713106 AGTTATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 9 0.43
26 7 0.33
27 5 0.24
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.34
Consensus pattern (27 bp):
TAAATAAAAAAAATGATAACATTTTCG
Found at i:34713494 original size:20 final size:19
Alignment explanation
Indices: 34713457--34713495 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
34713447 AAAATATTTT
*
34713457 TATTTTTTTATTTTTAAAA
1 TATTTTTTTATTTATAAAA
*
34713476 TATTTTTTGTGTTTATAAAA
1 TATTTTTT-TATTTATAAAA
34713496 AATCGGGCCG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (19 bp):
TATTTTTTTATTTATAAAA
Found at i:34721987 original size:20 final size:19
Alignment explanation
Indices: 34721962--34721999 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
34721952 TATATATACT
34721962 TTTAAAATAATATTGATAAA
1 TTTAAAA-AATATTGATAAA
*
34721982 TTTAAAACATATTGATAA
1 TTTAAAAAATATTGATAA
34722000 TAAAAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.39
Consensus pattern (19 bp):
TTTAAAAAATATTGATAAA
Found at i:34727076 original size:12 final size:11
Alignment explanation
Indices: 34727058--34727082 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
34727048 AAAAACCATA
34727058 AGGAAAAAATT
1 AGGAAAAAATT
34727069 AGGAAAAAATT
1 AGGAAAAAATT
34727080 AGG
1 AGG
34727083 GGAGAAAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.00, G:0.24, T:0.16
Consensus pattern (11 bp):
AGGAAAAAATT
Found at i:34731618 original size:12 final size:12
Alignment explanation
Indices: 34731601--34731625 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
34731591 CTTGAAATGC
34731601 CTTCTCTTCACT
1 CTTCTCTTCACT
34731613 CTTCTCTTCACT
1 CTTCTCTTCACT
34731625 C
1 C
34731626 CTTTCTGCTG
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:0.08, C:0.44, G:0.00, T:0.48
Consensus pattern (12 bp):
CTTCTCTTCACT
Found at i:34733203 original size:28 final size:28
Alignment explanation
Indices: 34733158--34733235 Score: 72
Period size: 28 Copynumber: 2.8 Consensus size: 28
34733148 ATTTTTACTG
*
34733158 AAATAATACA-AAAGAAAAAAAAATACCA
1 AAATAATATACAAA-AAAAAAAAATACCA
* **
34733186 AAATAATATACAAAAAAAATTTATTTACCA
1 AAATAATATACAAAAAAAA--AAAATACCA
34733216 AAAT-A-ATACAAAAAAAAAAA
1 AAATAATATACAAAAAAAAAAA
34733236 GGCTGAAGGA
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
26 1 0.02
28 26 0.63
29 4 0.10
30 10 0.24
ACGTcount: A:0.72, C:0.09, G:0.01, T:0.18
Consensus pattern (28 bp):
AAATAATATACAAAAAAAAAAAATACCA
Found at i:34733287 original size:27 final size:27
Alignment explanation
Indices: 34733257--34733319 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
34733247 GGTAATGGAA
34733257 AGGCGGCACCAAAGGTGCCTTTC-CGAT
1 AGGCGGCACCAAAGGTGCCTTTCTC-AT
* * *
34733284 AGGCGACACCGATGGTGCCTTTCTCAT
1 AGGCGGCACCAAAGGTGCCTTTCTCAT
34733311 AGGCGGCAC
1 AGGCGGCAC
34733320 AGGACTAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.21, C:0.30, G:0.30, T:0.19
Consensus pattern (27 bp):
AGGCGGCACCAAAGGTGCCTTTCTCAT
Found at i:34733883 original size:27 final size:27
Alignment explanation
Indices: 34733840--34733902 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
34733830 TTTTAGTCTT
*
34733840 GTGCCACCTATGAGAAAGGCACCATCG
1 GTGCCGCCTATGAGAAAGGCACCATCG
* *
34733867 GTGCCGCCTATCG-GAAAGGCACCTTTG
1 GTGCCGCCTAT-GAGAAAGGCACCATCG
34733894 GTGCCGCCT
1 GTGCCGCCT
34733903 TTCGATTACC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.21, C:0.32, G:0.29, T:0.19
Consensus pattern (27 bp):
GTGCCGCCTATGAGAAAGGCACCATCG
Found at i:34734107 original size:13 final size:13
Alignment explanation
Indices: 34734089--34734121 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
34734079 TGAATTTAGA
*
34734089 GAATTATTTAATT
1 GAATTAATTAATT
34734102 GAATTAATTAATT
1 GAATTAATTAATT
34734115 -AATTAAT
1 GAATTAAT
34734122 ATTTTTAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (13 bp):
GAATTAATTAATT
Found at i:34737528 original size:293 final size:294
Alignment explanation
Indices: 34736994--34737581 Score: 1169
Period size: 293 Copynumber: 2.0 Consensus size: 294
34736984 ATAAAATTAT
34736994 TAATAATTTTTCAAAATATGAGACGAAACTAAATGATTATGTTTAAAAAAATTAAATTTGAAACT
1 TAATAATTTTTCAAAATATGAGACGAAACTAAATGATTATGTTTAAAAAAATTAAATTTGAAACT
34737059 TCTTTTCGACATAATGCCTCGAATTACTCATAGCTCCTCACAACTTATAAATAAAAGGATAGTGC
66 TCTTTTCGACATAATGCCTCGAATTACTCATAGCTCCTCACAACTTATAAATAAAAGGATAGTGC
34737124 TTCAATGCAATCAAATTCACATCCTCCTACATTAACAATAATGCCTACGCTAACTGAGTTAAAAC
131 TTCAATGCAATCAAATTCACATCCTCCTACATTAACAATAATGCCTACGCTAACTGAGTTAAAAC
34737189 TCAATTGGCGTAATTGATCAGGTTTTAAATTTAATTTTTTTAAAAGTATTTTTTAATTTAATAAA
196 TCAATTGGCGTAATTGATCAGGTTTTAAATTTAATTTTTTTAAAAGTATTTTTTAATTTAATAAA
34737254 TAATTAAAATTAAAATAACACACTATACAAGTGA
261 TAATTAAAATTAAAATAACACACTATACAAGTGA
34737288 TAATAA-TTTTCAAAATATGAGACGAAACTAAATGATTATGTTTAAAAAAATTAAATTTGAAACT
1 TAATAATTTTTCAAAATATGAGACGAAACTAAATGATTATGTTTAAAAAAATTAAATTTGAAACT
34737352 TCTTTTCGACATAATGCCTCGAATTACTCATAGCTCCTCACAACTTATAAATAAAAGGATAGTGC
66 TCTTTTCGACATAATGCCTCGAATTACTCATAGCTCCTCACAACTTATAAATAAAAGGATAGTGC
34737417 TTCAATGCAATCAAATTCACATCCTCCTACATTAACAATAATGCCTACGCTAACTGAGTTAAAAC
131 TTCAATGCAATCAAATTCACATCCTCCTACATTAACAATAATGCCTACGCTAACTGAGTTAAAAC
34737482 TCAATTGGCGTAATTGATCAGGTTTTAAATTTAATTTTTTTAAAAGTATTTTTTAATTTAATAAA
196 TCAATTGGCGTAATTGATCAGGTTTTAAATTTAATTTTTTTAAAAGTATTTTTTAATTTAATAAA
34737547 TAATTAAAATTAAAATAACACACTATACAAGTGA
261 TAATTAAAATTAAAATAACACACTATACAAGTGA
34737581 T
1 T
34737582 GGAATTTACT
Statistics
Matches: 294, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
293 288 0.98
294 6 0.02
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.35
Consensus pattern (294 bp):
TAATAATTTTTCAAAATATGAGACGAAACTAAATGATTATGTTTAAAAAAATTAAATTTGAAACT
TCTTTTCGACATAATGCCTCGAATTACTCATAGCTCCTCACAACTTATAAATAAAAGGATAGTGC
TTCAATGCAATCAAATTCACATCCTCCTACATTAACAATAATGCCTACGCTAACTGAGTTAAAAC
TCAATTGGCGTAATTGATCAGGTTTTAAATTTAATTTTTTTAAAAGTATTTTTTAATTTAATAAA
TAATTAAAATTAAAATAACACACTATACAAGTGA
Found at i:34740665 original size:46 final size:43
Alignment explanation
Indices: 34740598--34740749 Score: 169
Period size: 36 Copynumber: 3.6 Consensus size: 43
34740588 TTTGAGTACT
*
34740598 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGTTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG---TAGCTACACTTA
34740644 TCTGATCAAGTGACAAAGTGAT-A-----AGT-GCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTAGCTACACTTA
*
34740680 TCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG--TAGCTACACTTA
*
34740725 TCTGATC-AGGGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
34740750 ATCATACGTA
Statistics
Matches: 93, Mismatches: 4, Indels: 21
0.79 0.03 0.18
Matches are distributed among these distances:
36 31 0.33
37 2 0.02
40 2 0.02
42 2 0.02
43 12 0.13
44 5 0.05
45 18 0.19
46 21 0.23
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (43 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGTAGCTACACTTA
Found at i:34740701 original size:82 final size:79
Alignment explanation
Indices: 34740598--34740749 Score: 232
Period size: 82 Copynumber: 1.9 Consensus size: 79
34740588 TTTGAGTACT
** *
34740598 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CCTAGCTACACTTATCTGATC-AGGGAC-AAGT
34740663 GATAAGTGCTACACTTA
63 GATAAGTGCTACACTTA
**
34740680 TCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAGGGACAAGTGAT
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAGGGACAAGTGAT
34740745 AAGTG
66 AAGTG
34740750 ATCATACGTA
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
79 12 0.18
80 5 0.08
81 19 0.29
82 29 0.45
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (79 bp):
TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAGGGACAAGTGAT
AAGTGCTACACTTA
Found at i:34748153 original size:17 final size:17
Alignment explanation
Indices: 34748131--34748165 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
34748121 AAGGTTCAAT
*
34748131 GACATGGACTAATAATA
1 GACATGCACTAATAATA
34748148 GACATGCACTAATAATA
1 GACATGCACTAATAATA
34748165 G
1 G
34748166 GACTAAGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.46, C:0.14, G:0.17, T:0.23
Consensus pattern (17 bp):
GACATGCACTAATAATA
Found at i:34751765 original size:19 final size:19
Alignment explanation
Indices: 34751741--34751778 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
34751731 AGTTGAACTA
* *
34751741 GATTTTTTTTATATTTTAT
1 GATTTTTTTAATAATTTAT
34751760 GATTTTTTTAATAATTTAT
1 GATTTTTTTAATAATTTAT
34751779 TTAATTATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.68
Consensus pattern (19 bp):
GATTTTTTTAATAATTTAT
Found at i:34758846 original size:30 final size:30
Alignment explanation
Indices: 34758810--34758867 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
34758800 TATAAATATA
34758810 CAATATATATGTATATATATAAGAACACTT
1 CAATATATATGTATATATATAAGAACACTT
34758840 CAATATATATGTATATATATAAGAACAC
1 CAATATATATGTATATATATAAGAACAC
34758868 CTTGGACTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.48, C:0.10, G:0.07, T:0.34
Consensus pattern (30 bp):
CAATATATATGTATATATATAAGAACACTT
Found at i:34761498 original size:97 final size:97
Alignment explanation
Indices: 34761206--34761505 Score: 233
Period size: 97 Copynumber: 3.1 Consensus size: 97
34761196 TGCATTTAAT
34761206 ACAATAATATTTTTATTATTATAAATAATCCATTAATTGATTATGAAATGTACTTTTAAGTCGAT
1 ACAATAATATTTTTATTATTATAAATAATCCATTAATTGATTATGAAATGTACTTTTAAGTCGAT
34761271 TGTGAACAAAACCCTTTATTATGCAAAGTAGA
66 TGTGAACAAAACCCTTTATTATGCAAAGTAGA
* ** ** ** * * * ** ** *
34761303 ACAATATTATTTGGAAAAGAACAACATAATTACA-CAA-TGTAAGATG-AATCAAC-TTTATGGT
1 ACAATAATATTTTTATTATTATAA-ATAA-TCCATTAATTG-ATTATGAAATGTACTTTTA-AGT
** ** * * * * **
34761364 TAATT-TTTATATAA---TTTGGCTAATGC-ATTTA-A
62 CGATTGTGAACAAAACCCTTT--ATTATGCAAAGTAGA
34761396 TACAATAATATTTTTATTATTATAAATAATCCATTAATTGATTATGAAATGTACTTTTAAGTCGA
1 -ACAATAATATTTTTATTATTATAAATAATCCATTAATTGATTATGAAATGTACTTTTAAGTCGA
34761461 TTGTGAACAAAACCCTTTATTATGCAAAGTAGA
65 TTGTGAACAAAACCCTTTATTATGCAAAGTAGA
*
34761494 ACAATATTATTT
1 ACAATAATATTT
34761506 GGAAAAGAAC
Statistics
Matches: 135, Mismatches: 51, Indels: 34
0.61 0.23 0.15
Matches are distributed among these distances:
92 3 0.02
93 14 0.10
94 31 0.23
95 14 0.10
96 14 0.10
97 42 0.31
98 14 0.10
99 3 0.02
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (97 bp):
ACAATAATATTTTTATTATTATAAATAATCCATTAATTGATTATGAAATGTACTTTTAAGTCGAT
TGTGAACAAAACCCTTTATTATGCAAAGTAGA
Found at i:34761500 original size:94 final size:94
Alignment explanation
Indices: 34761211--34761501 Score: 213
Period size: 94 Copynumber: 3.1 Consensus size: 94
34761201 TTAATACAAT
34761211 AATATTTTTATTATTATAAATAATCCATTAATTGATTATGAAATGTACTTTTAAGTCGATTGTGA
1 AATATTTTTATTATTATAAATAATCCATTAATTGATTATGAAATGTACTTTTAAGTCGATTGTGA
34761276 ACAAAACCCTTTATTATGCAAAGTAGAAC
66 ACAAAACCCTTTATTATGCAAAGTAGAAC
** ** * * * ** ** * **
34761305 AATATTATTTGGAAAAGAACAACATAATTACA-CAA-TGTAAGATG-AATCAAC-TTTATGGTTA
1 AATATT-TTT--ATTATTATAA-ATAA-TCCATTAATTG-ATTATGAAATGTACTTTTA-AGTCG
** * * * * * *
34761366 ATT-TTTATATAA---TTTGGCTAATGCATTTAA-TACAAT
59 ATTGTGAACAAAACCCTTT--ATTATGCA---AAGTAGAAC
34761402 AATATTTTTATTATTATAAATAATCCATTAATTGATTATGAAATGTACTTTTAAGTCGATTGTGA
1 AATATTTTTATTATTATAAATAATCCATTAATTGATTATGAAATGTACTTTTAAGTCGATTGTGA
34761467 ACAAAACCCTTTATTATGCAAAGTAGAAC
66 ACAAAACCCTTTATTATGCAAAGTAGAAC
34761496 AATATT
1 AATATT
34761502 ATTTGGAAAA
Statistics
Matches: 132, Mismatches: 44, Indels: 42
0.61 0.20 0.19
Matches are distributed among these distances:
92 3 0.02
93 15 0.11
94 33 0.25
95 18 0.14
96 18 0.14
97 27 0.20
98 15 0.11
99 3 0.02
ACGTcount: A:0.41, C:0.10, G:0.11, T:0.39
Consensus pattern (94 bp):
AATATTTTTATTATTATAAATAATCCATTAATTGATTATGAAATGTACTTTTAAGTCGATTGTGA
ACAAAACCCTTTATTATGCAAAGTAGAAC
Found at i:34761520 original size:191 final size:191
Alignment explanation
Indices: 34761196--34761578 Score: 766
Period size: 191 Copynumber: 2.0 Consensus size: 191
34761186 AATTAAGTAT
34761196 TGCATTTAATACAATAATATTTTTATTATTATAAATAATCCATTAATTGATTATGAAATGTACTT
1 TGCATTTAATACAATAATATTTTTATTATTATAAATAATCCATTAATTGATTATGAAATGTACTT
34761261 TTAAGTCGATTGTGAACAAAACCCTTTATTATGCAAAGTAGAACAATATTATTTGGAAAAGAACA
66 TTAAGTCGATTGTGAACAAAACCCTTTATTATGCAAAGTAGAACAATATTATTTGGAAAAGAACA
34761326 ACATAATTACACAATGTAAGATGAATCAACTTTATGGTTAATTTTTATATAATTTGGCTAA
131 ACATAATTACACAATGTAAGATGAATCAACTTTATGGTTAATTTTTATATAATTTGGCTAA
34761387 TGCATTTAATACAATAATATTTTTATTATTATAAATAATCCATTAATTGATTATGAAATGTACTT
1 TGCATTTAATACAATAATATTTTTATTATTATAAATAATCCATTAATTGATTATGAAATGTACTT
34761452 TTAAGTCGATTGTGAACAAAACCCTTTATTATGCAAAGTAGAACAATATTATTTGGAAAAGAACA
66 TTAAGTCGATTGTGAACAAAACCCTTTATTATGCAAAGTAGAACAATATTATTTGGAAAAGAACA
34761517 ACATAATTACACAATGTAAGATGAATCAACTTTATGGTTAATTTTTATATAATTTGGCTAA
131 ACATAATTACACAATGTAAGATGAATCAACTTTATGGTTAATTTTTATATAATTTGGCTAA
34761578 T
1 T
34761579 CTATTTTTTA
Statistics
Matches: 192, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
191 192 1.00
ACGTcount: A:0.41, C:0.10, G:0.11, T:0.38
Consensus pattern (191 bp):
TGCATTTAATACAATAATATTTTTATTATTATAAATAATCCATTAATTGATTATGAAATGTACTT
TTAAGTCGATTGTGAACAAAACCCTTTATTATGCAAAGTAGAACAATATTATTTGGAAAAGAACA
ACATAATTACACAATGTAAGATGAATCAACTTTATGGTTAATTTTTATATAATTTGGCTAA
Found at i:34764252 original size:3 final size:3
Alignment explanation
Indices: 34764244--34764298 Score: 53
Period size: 3 Copynumber: 18.0 Consensus size: 3
34764234 AAAATAAAAC
34764244 TAA TAA TAA TAA T-A TAA TAA TGAA -AA TAA TAA TAA -AA TAA TTAA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA -TAA
34764288 CTAAA TAA TAA
1 -T-AA TAA TAA
34764299 AATTGCTAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 12
0.78 0.02 0.21
Matches are distributed among these distances:
2 6 0.13
3 30 0.67
4 7 0.16
5 2 0.04
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:34774042 original size:3 final size:3
Alignment explanation
Indices: 34774034--34774064 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
34774024 ATTAAATTGG
34774034 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
34774065 GCAACGAGCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:34782515 original size:15 final size:14
Alignment explanation
Indices: 34782491--34782523 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
34782481 TTTAACATTG
34782491 TATT-TATATTTAA
1 TATTATATATTTAA
34782504 TTATTATATATTTAA
1 -TATTATATATTTAA
34782519 TATTA
1 TATTA
34782524 CCCCAATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
TATTATATATTTAA
Found at i:34788444 original size:3 final size:3
Alignment explanation
Indices: 34788436--34788470 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
34788426 ACACCACTGA
34788436 AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AG
1 AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AG
34788471 ACATTCTAGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.31, G:0.34, T:0.00
Consensus pattern (3 bp):
AGC
Found at i:34792160 original size:20 final size:19
Alignment explanation
Indices: 34792135--34792172 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
34792125 AAATTTTATT
*
34792135 ATTTTAATTAAAAATATATA
1 ATTTTAACTAAAAA-ATATA
34792155 ATTTTAACTAAAAAATAT
1 ATTTTAACTAAAAAATAT
34792173 CAAGATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (19 bp):
ATTTTAACTAAAAAATATA
Done.