Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 241 of 253
Found at i:77840243 original size:18 final size:18
Alignment explanation
Indices: 77840220--77840255 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
77840210 ATCGTGGAAG
77840220 TAGAAGTGAAGGTGAGAT
1 TAGAAGTGAAGGTGAGAT
77840238 TAGAAGTGAAGGTGAGAT
1 TAGAAGTGAAGGTGAGAT
77840256 AACCTTTCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.39, T:0.22
Consensus pattern (18 bp):
TAGAAGTGAAGGTGAGAT
Found at i:77842450 original size:28 final size:29
Alignment explanation
Indices: 77842416--77842472 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 29
77842406 ACATTTAATC
77842416 AATTACTAAATATTT-T-TATTTCTAATTT
1 AATTACTAAA-ATTTCTATATTTCTAATTT
*
77842444 AATTACTAAAATTTCTATTTTTCTAATTT
1 AATTACTAAAATTTCTATATTTCTAATTT
77842473 CACAATTTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 4 0.15
28 11 0.42
29 11 0.42
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (29 bp):
AATTACTAAAATTTCTATATTTCTAATTT
Found at i:77847134 original size:87 final size:87
Alignment explanation
Indices: 77846988--77847161 Score: 348
Period size: 87 Copynumber: 2.0 Consensus size: 87
77846978 TGTCAATGAG
77846988 ACATTTGACTGACAAGTGCAGCATTGCATCCTAATTTGACAACCACTTATAGTTAGACATATTTG
1 ACATTTGACTGACAAGTGCAGCATTGCATCCTAATTTGACAACCACTTATAGTTAGACATATTTG
77847053 ACATCCAGATTCCTCTTTGATT
66 ACATCCAGATTCCTCTTTGATT
77847075 ACATTTGACTGACAAGTGCAGCATTGCATCCTAATTTGACAACCACTTATAGTTAGACATATTTG
1 ACATTTGACTGACAAGTGCAGCATTGCATCCTAATTTGACAACCACTTATAGTTAGACATATTTG
77847140 ACATCCAGATTCCTCTTTGATT
66 ACATCCAGATTCCTCTTTGATT
77847162 TTGCTTGTCA
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 87 1.00
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.34
Consensus pattern (87 bp):
ACATTTGACTGACAAGTGCAGCATTGCATCCTAATTTGACAACCACTTATAGTTAGACATATTTG
ACATCCAGATTCCTCTTTGATT
Found at i:77852792 original size:6 final size:6
Alignment explanation
Indices: 77852781--77852805 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
77852771 GGATCAGTCA
77852781 CTGTCC CTGTCC CTGTCC CTGTCC C
1 CTGTCC CTGTCC CTGTCC CTGTCC C
77852806 CTCTCCTGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.52, G:0.16, T:0.32
Consensus pattern (6 bp):
CTGTCC
Found at i:77856025 original size:25 final size:25
Alignment explanation
Indices: 77855996--77856046 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
77855986 TGAATGAATG
*
77855996 AATGTTCAAGTTCATTATAGTAAAC
1 AATGTTCAAGTTCATTACAGTAAAC
77856021 AATGTTCAAGTTCATTACAGTAAAC
1 AATGTTCAAGTTCATTACAGTAAAC
77856046 A
1 A
77856047 TTTTTAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (25 bp):
AATGTTCAAGTTCATTACAGTAAAC
Found at i:77858689 original size:9 final size:9
Alignment explanation
Indices: 77858675--77858723 Score: 53
Period size: 9 Copynumber: 5.0 Consensus size: 9
77858665 TTTTTTAAAA
77858675 TTAAAAATT
1 TTAAAAATT
77858684 TTAAAATTATT
1 TTAAAA--ATT
*
77858695 TAAAATATATT
1 TTAAA-A-ATT
77858706 TTAAAAATT
1 TTAAAAATT
77858715 TTAAAAATT
1 TTAAAAATT
77858724 AATTTATTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 18 0.51
10 1 0.03
11 15 0.43
12 1 0.03
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (9 bp):
TTAAAAATT
Found at i:77858721 original size:22 final size:22
Alignment explanation
Indices: 77858681--77858722 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
77858671 AAAATTAAAA
*
77858681 ATTTTAAAATTATTTAAAATAT
1 ATTTTAAAATTATTAAAAATAT
77858703 ATTTTAAAAATT-TTAAAAAT
1 ATTTT-AAAATTATTAAAAAT
77858723 TAATTTATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATTTTAAAATTATTAAAAATAT
Found at i:77858728 original size:22 final size:21
Alignment explanation
Indices: 77858680--77858728 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 21
77858670 TAAAATTAAA
*
77858680 AATTTTAAAATTATTTAAAAT
1 AATTTTAAAATTATTAAAAAT
77858701 ATATTTTAAAAATT-TTAAAAATT
1 A-ATTTT-AAAATTATTAAAAA-T
77858724 AATTT
1 AATTT
77858729 ATTGTTAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
21 1 0.04
22 15 0.62
23 8 0.33
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AATTTTAAAATTATTAAAAAT
Found at i:77858729 original size:21 final size:23
Alignment explanation
Indices: 77858680--77858729 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
77858670 TAAAATTAAA
* *
77858680 AATTTTAAAATTATTTAAAATAT
1 AATTTAAAAATTATTAAAAATAT
*
77858703 ATTTTAAAAATT-TTAAAAAT-T
1 AATTTAAAAATTATTAAAAATAT
77858724 AATTTA
1 AATTTA
77858730 TTGTTAATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 6 0.26
22 7 0.30
23 10 0.43
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
AATTTAAAAATTATTAAAAATAT
Found at i:77862730 original size:2 final size:2
Alignment explanation
Indices: 77862723--77862750 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
77862713 ATAGAGGTTG
77862723 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
77862751 ATAGGTGGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:77880726 original size:15 final size:14
Alignment explanation
Indices: 77880698--77880724 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
77880688 CATATATCTT
77880698 TTTTTTAATATTTA
1 TTTTTTAATATTTA
77880712 TTTTTTAATATTT
1 TTTTTTAATATTT
77880725 TACTATAACA
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:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTTTAATATTTA
Found at i:77889739 original size:33 final size:32
Alignment explanation
Indices: 77889697--77889759 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 32
77889687 GATTCTCAAA
77889697 TATCATTCTTTTATTTCTTCTTCTTCTTTTTTT
1 TATCATTCTTTTATTTCTTCTTCTT-TTTTTTT
*
77889730 TATCATTCTTTTATTTCTTTTTCTTTTTTT
1 TATCATTCTTTTATTTCTTCTTCTTTTTTT
77889760 CTTTTTAAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 5 0.17
33 24 0.83
ACGTcount: A:0.10, C:0.16, G:0.00, T:0.75
Consensus pattern (32 bp):
TATCATTCTTTTATTTCTTCTTCTTTTTTTTT
Found at i:77889753 original size:15 final size:14
Alignment explanation
Indices: 77889702--77889765 Score: 56
Period size: 15 Copynumber: 4.1 Consensus size: 14
77889692 TCAAATATCA
*
77889702 TTCTTTTATTTCTTC
1 TTCTTTT-TTTCTTT
*
77889717 TTCTTCTTTTTTTTAT
1 TTCTT-TTTTTCTT-T
77889733 CATTCTTTTATTTCTTT
1 --TTCTTTT-TTTCTTT
77889750 TTCTTTTTTTCTTT
1 TTCTTTTTTTCTTT
77889764 TT
1 TT
77889766 AAGGGTGTTC
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
14 9 0.22
15 17 0.41
16 2 0.05
17 3 0.07
18 10 0.24
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.78
Consensus pattern (14 bp):
TTCTTTTTTTCTTT
Found at i:77896343 original size:29 final size:29
Alignment explanation
Indices: 77896278--77896346 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 29
77896268 TAGAATATAT
*
77896278 ATTTTTTAAATTTAAGTTTTGCTTTTACAA
1 ATTTTTTAAATTTAAATTTT-CTTTTACAA
77896308 ATTTTTTAAATTTAAATACTTT-TTTTA-AA
1 ATTTTTTAAATTTAAAT--TTTCTTTTACAA
*
77896337 TTTTTTTAAA
1 ATTTTTTAAA
77896347 ATTTTTAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
29 11 0.31
30 21 0.60
32 3 0.09
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.59
Consensus pattern (29 bp):
ATTTTTTAAATTTAAATTTTCTTTTACAA
Found at i:77912460 original size:17 final size:17
Alignment explanation
Indices: 77912438--77912482 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
77912428 GTTTTATAAA
*
77912438 TTTATATTTATGTTGAG
1 TTTATATTTATATTGAG
* * *
77912455 TTTATAATTAAATTTAG
1 TTTATATTTATATTGAG
77912472 TTTATATTTAT
1 TTTATATTTAT
77912483 TTTTTTAGGT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.31, C:0.00, G:0.09, T:0.60
Consensus pattern (17 bp):
TTTATATTTATATTGAG
Found at i:77916376 original size:33 final size:33
Alignment explanation
Indices: 77916335--77916404 Score: 140
Period size: 33 Copynumber: 2.1 Consensus size: 33
77916325 TATACATGTA
77916335 AAAACTTTGAATTTAGAATATTAAGGTGTATTT
1 AAAACTTTGAATTTAGAATATTAAGGTGTATTT
77916368 AAAACTTTGAATTTAGAATATTAAGGTGTATTT
1 AAAACTTTGAATTTAGAATATTAAGGTGTATTT
77916401 AAAA
1 AAAA
77916405 ATCAGATGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.43, C:0.03, G:0.14, T:0.40
Consensus pattern (33 bp):
AAAACTTTGAATTTAGAATATTAAGGTGTATTT
Found at i:77922518 original size:27 final size:26
Alignment explanation
Indices: 77922471--77922526 Score: 62
Period size: 26 Copynumber: 2.1 Consensus size: 26
77922461 TTCCAACCAC
77922471 TTAAATAAATATAAATATTAAGAAA-A
1 TTAAATAAATATAAATATTAA-AAATA
*
77922497 TTAAATAAAT-TATATTCATTAAAAATA
1 TTAAATAAATATA-AAT-ATTAAAAATA
77922524 TTA
1 TTA
77922527 TCCTTGTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
25 2 0.08
26 15 0.58
27 9 0.35
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (26 bp):
TTAAATAAATATAAATATTAAAAATA
Found at i:77922590 original size:26 final size:26
Alignment explanation
Indices: 77922576--77922651 Score: 100
Period size: 26 Copynumber: 2.9 Consensus size: 26
77922566 CAATGACTGG
*
77922576 TTTGACCAACCGATTCTATTAACTAA
1 TTTGACCAACCGATTCTAATAACTAA
*
77922602 TTTGACCAACCGATTCTATTAACTAA
1 TTTGACCAACCGATTCTAATAACTAA
* *
77922628 ATTGACCAACAC-ATTCTATTAACT
1 TTTGACCAAC-CGATTCTAATAACT
77922652 GTTTATTTCA
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
26 47 0.98
27 1 0.02
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.34
Consensus pattern (26 bp):
TTTGACCAACCGATTCTAATAACTAA
Found at i:77923541 original size:22 final size:22
Alignment explanation
Indices: 77923510--77923551 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
77923500 TTTTTTAACC
*
77923510 TAATTTATTACAAT-ATTTGTA
1 TAATTTATTAAAATAATTTGTA
77923531 TAATTATATTAAAATAATTTG
1 TAATT-TATTAAAATAATTTG
77923552 AAAGGTTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 8 0.44
23 5 0.28
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (22 bp):
TAATTTATTAAAATAATTTGTA
Found at i:77923605 original size:22 final size:21
Alignment explanation
Indices: 77923563--77923605 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
77923553 AAGGTTATCA
*
77923563 AAATAATAATTATTTAAAATT
1 AAATAATAATTATTCAAAATT
* *
77923584 AAATAATTATATATTCATAATT
1 AAATAATAAT-TATTCAAAATT
77923606 TATATTTTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (21 bp):
AAATAATAATTATTCAAAATT
Found at i:77928684 original size:103 final size:103
Alignment explanation
Indices: 77928505--77928715 Score: 415
Period size: 103 Copynumber: 2.1 Consensus size: 103
77928495 CTAACATAAT
77928505 CATTATCTGCATATACAGATTTTTAGAGTACTTGTTATCCATACTTCATCGGATCCATTTATATA
1 CATTATCTGCATATACAGATTTTTAGAGTACTTGTTATCCATACTTCATCGGATCCATTTATATA
77928570 TTTGTTCAATTACGTATACCAAAAGCATAATTTTTATA
66 TTTGTTCAATTACGTATACCAAAAGCATAATTTTTATA
77928608 CATTATCTGCATATACAGATTTTTAGAGTACTTGTTATCCATACTTCATCGGATCCATTTATATA
1 CATTATCTGCATATACAGATTTTTAGAGTACTTGTTATCCATACTTCATCGGATCCATTTATATA
77928673 TTTGTTCAATTACGTATACCAAAAGCATAATTTTTATA
66 TTTGTTCAATTACGTATACCAAAAGCATAATTTTTATA
77928711 C-TTAT
1 CATTAT
77928716 AAACTATAAA
Statistics
Matches: 108, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
102 4 0.04
103 104 0.96
ACGTcount: A:0.32, C:0.17, G:0.09, T:0.42
Consensus pattern (103 bp):
CATTATCTGCATATACAGATTTTTAGAGTACTTGTTATCCATACTTCATCGGATCCATTTATATA
TTTGTTCAATTACGTATACCAAAAGCATAATTTTTATA
Found at i:77929011 original size:41 final size:41
Alignment explanation
Indices: 77928961--77929218 Score: 399
Period size: 41 Copynumber: 6.3 Consensus size: 41
77928951 AATTCATCAT
* *
77928961 ATTCGGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
77929002 ATTCAGATCACCGGCGCTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
77929043 ATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
77929084 ATTCAGATCACCGGCGCTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
77929125 ATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
77929166 ATTCAGATCACCGGCGCTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
*
77929207 ATTCATATCACC
1 ATTCAGATCACC
77929219 AATTCCAAAC
Statistics
Matches: 196, Mismatches: 21, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 196 1.00
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (41 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
Found at i:77929104 original size:82 final size:82
Alignment explanation
Indices: 77928967--77929218 Score: 504
Period size: 82 Copynumber: 3.1 Consensus size: 82
77928957 TCATATTCGG
77928967 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
77929032 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAT
77929049 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
77929114 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAT
77929131 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
77929196 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAT
77929213 ATCACC
1 ATCACC
77929219 AATTCCAAAC
Statistics
Matches: 170, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 170 1.00
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (82 bp):
ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
TTTATAACCTGATTCAT
Found at i:77929454 original size:19 final size:19
Alignment explanation
Indices: 77929430--77929466 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
77929420 TTGTTCGATC
*
77929430 CACACATATATATATATTA
1 CACACATATACATATATTA
77929449 CACACATATACATATATT
1 CACACATATACATATATT
77929467 CGCACATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (19 bp):
CACACATATACATATATTA
Found at i:77930433 original size:44 final size:45
Alignment explanation
Indices: 77930379--77930481 Score: 118
Period size: 44 Copynumber: 2.3 Consensus size: 45
77930369 TGTCTTTGAC
* ** *
77930379 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATA-TATAAT
1 ATGGACTTACATGAATCAAACCTGTCTCCAAAGCCATATTATAAT
* ** *
77930423 ATGGAATTACATGGCTCAAACCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGAATCAAACCTGTCTCCAAAGCCATA-TTATAAT
77930469 ATGGACTTACATG
1 ATGGACTTACATG
77930482 GCTCATTTCT
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
44 31 0.65
46 17 0.35
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.33
Consensus pattern (45 bp):
ATGGACTTACATGAATCAAACCTGTCTCCAAAGCCATATTATAAT
Found at i:77930483 original size:46 final size:44
Alignment explanation
Indices: 77930399--77930486 Score: 131
Period size: 46 Copynumber: 2.0 Consensus size: 44
77930389 ATGAATTATT
*
77930399 CCTGTCTCCAATGCCATATATAATATGGAATTACATGGCTCAAA
1 CCTGTCTCCAAAGCCATATATAATATGGAATTACATGGCTCAAA
* *
77930443 CCTGTCTCCAAAGCCATATTTCTAATATGGACTTACATGGCTCA
1 CCTGTCTCCAAAGCCATA--TATAATATGGAATTACATGGCTCA
77930487 TTTCTGTTCT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
44 17 0.44
46 22 0.56
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.31
Consensus pattern (44 bp):
CCTGTCTCCAAAGCCATATATAATATGGAATTACATGGCTCAAA
Found at i:77935099 original size:15 final size:15
Alignment explanation
Indices: 77935079--77935110 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
77935069 CTTGTTTTTG
77935079 TTAATCTAATTAGTC
1 TTAATCTAATTAGTC
77935094 TTAATCTAATTAGTC
1 TTAATCTAATTAGTC
77935109 TT
1 TT
77935111 TTGATCAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.12, G:0.06, T:0.50
Consensus pattern (15 bp):
TTAATCTAATTAGTC
Found at i:77941346 original size:12 final size:12
Alignment explanation
Indices: 77941329--77941369 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
77941319 GGAGATAGGA
77941329 AAAACAGGTTCC
1 AAAACAGGTTCC
*
77941341 AAAACAGG---A
1 AAAACAGGTTCC
77941350 AAAACAGGTTCC
1 AAAACAGGTTCC
77941362 AAAACAGG
1 AAAACAGG
77941370 AAAAACAGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
9 8 0.33
12 16 0.67
ACGTcount: A:0.51, C:0.20, G:0.20, T:0.10
Consensus pattern (12 bp):
AAAACAGGTTCC
Found at i:77941350 original size:21 final size:21
Alignment explanation
Indices: 77941325--77941377 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
77941315 CAGTGGAGAT
77941325 AGGAAAAACAGGTTCCAAAAC
1 AGGAAAAACAGGTTCCAAAAC
77941346 AGGAAAAACAGGTTCCAAAAC
1 AGGAAAAACAGGTTCCAAAAC
77941367 AGGAAAAACAG
1 AGGAAAAACAG
77941378 TGGCTGTAGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.55, C:0.17, G:0.21, T:0.08
Consensus pattern (21 bp):
AGGAAAAACAGGTTCCAAAAC
Found at i:77946740 original size:15 final size:15
Alignment explanation
Indices: 77946720--77946758 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
77946710 TAATATATAA
77946720 AAAATTATAAAAAAT
1 AAAATTATAAAAAAT
*
77946735 AAAATTATAAAATAT
1 AAAATTATAAAAAAT
*
77946750 ATAATTATA
1 AAAATTATA
77946759 TATTTTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAATTATAAAAAAT
Found at i:77946767 original size:22 final size:22
Alignment explanation
Indices: 77946730--77946783 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
77946720 AAAATTATAA
* *
77946730 AAAATAA-A-ATTATAAAATAT
1 AAAATAATATATTTTAAAAAAT
* *
77946750 ATAATTATATATTTTAAAAAAT
1 AAAATAATATATTTTAAAAAAT
77946772 AAAATAATATAT
1 AAAATAATATAT
77946784 AAAAATTGAA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
20 5 0.19
21 1 0.04
22 20 0.77
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
AAAATAATATATTTTAAAAAAT
Found at i:77947049 original size:21 final size:21
Alignment explanation
Indices: 77947025--77947068 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
77947015 TATTTATTTA
77947025 TTTTCT-AGATTTTATATATAT
1 TTTTCTGAG-TTTTATATATAT
*
77947046 TTTTCTGAGTTTTTTATATAT
1 TTTTCTGAGTTTTATATATAT
77947067 TT
1 TT
77947069 ATTTCCATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.23, C:0.05, G:0.07, T:0.66
Consensus pattern (21 bp):
TTTTCTGAGTTTTATATATAT
Found at i:77953128 original size:15 final size:15
Alignment explanation
Indices: 77953108--77953173 Score: 96
Period size: 15 Copynumber: 4.4 Consensus size: 15
77953098 CCAGGATATT
* *
77953108 CTCCTCAAGGTTATC
1 CTCCTCAAGGATACC
77953123 CTCCTCAAGGATACC
1 CTCCTCAAGGATACC
77953138 CTCCTCAAGGATACC
1 CTCCTCAAGGATACC
* *
77953153 CTGCTCAGGGATACC
1 CTCCTCAAGGATACC
77953168 CTCCTC
1 CTCCTC
77953174 CTTATGCTCC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 46 1.00
ACGTcount: A:0.21, C:0.39, G:0.15, T:0.24
Consensus pattern (15 bp):
CTCCTCAAGGATACC
Found at i:77954535 original size:9 final size:11
Alignment explanation
Indices: 77954509--77954533 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
77954499 TTTAAGTAAA
77954509 AATATTTTTTT
1 AATATTTTTTT
77954520 AATATTTTTTT
1 AATATTTTTTT
77954531 AAT
1 AAT
77954534 TTGTTGGGAA
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
AATATTTTTTT
Found at i:77958667 original size:16 final size:17
Alignment explanation
Indices: 77958646--77958688 Score: 72
Period size: 16 Copynumber: 2.6 Consensus size: 17
77958636 TTATTGTGGC
77958646 TTTTTTCTTTTTTGGA-
1 TTTTTTCTTTTTTGGAT
77958662 TTTTTTC-TTTTTGGAT
1 TTTTTTCTTTTTTGGAT
77958678 TTTTTTCTTTT
1 TTTTTTCTTTT
77958689 GCTTTATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.32
16 14 0.56
17 3 0.12
ACGTcount: A:0.05, C:0.07, G:0.09, T:0.79
Consensus pattern (17 bp):
TTTTTTCTTTTTTGGAT
Found at i:77958882 original size:15 final size:15
Alignment explanation
Indices: 77958862--77958895 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
77958852 TATTCTATCA
77958862 TTGAAAAATTGGGGT
1 TTGAAAAATTGGGGT
77958877 TTGAAAAATTGGGGT
1 TTGAAAAATTGGGGT
77958892 TTGA
1 TTGA
77958896 TTTTTCTCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.35
Consensus pattern (15 bp):
TTGAAAAATTGGGGT
Found at i:77974132 original size:63 final size:63
Alignment explanation
Indices: 77974028--77974234 Score: 170
Period size: 67 Copynumber: 3.2 Consensus size: 63
77974018 CATCATGTGT
*
77974028 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGACACCATGT
1 ACAAGAGAGCTACAAG--A-TA-AATGTAGCTAGGTCGCATGGGTGATACTATGTGACACCATGT
77974093 AG
62 AG
** * * * * *
77974095 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGCT-CCAGGTGAAGGACACCATG
1 ACAAGAGAGCTACAAGATAAATGTAGCTAGGTCGCATGGGT-GATACTA--TG--TGACACCATG
77974159 TAG
61 TAG
* * * *
77974162 ACAAGAGAGCTACAAGATAAAT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-G
1 ACAAGAGAGCTACAAGATAAATGTAGCTAGGTCGCATGGGTGATACT-ATGTG-ACACCATGTAG
77974224 TACAAGAGAGC
1 -ACAAGAGAGC
77974235 CGAACTCTAT
Statistics
Matches: 114, Mismatches: 17, Indels: 22
0.75 0.11 0.14
Matches are distributed among these distances:
62 2 0.02
63 40 0.35
64 5 0.04
65 5 0.04
66 16 0.14
67 46 0.40
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.22
Consensus pattern (63 bp):
ACAAGAGAGCTACAAGATAAATGTAGCTAGGTCGCATGGGTGATACTATGTGACACCATGTAG
Found at i:77977819 original size:24 final size:24
Alignment explanation
Indices: 77977788--77977836 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
77977778 ATATTAAAGT
*
77977788 TAAATTTAATAATAATGTGAATGA
1 TAAATTTAATAAGAATGTGAATGA
77977812 TAAATTTAATAAGAATGTGAATGA
1 TAAATTTAATAAGAATGTGAATGA
77977836 T
1 T
77977837 GCAATAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.49, C:0.00, G:0.14, T:0.37
Consensus pattern (24 bp):
TAAATTTAATAAGAATGTGAATGA
Found at i:77978429 original size:13 final size:13
Alignment explanation
Indices: 77978385--77978438 Score: 54
Period size: 13 Copynumber: 4.1 Consensus size: 13
77978375 TAGTTCTCTA
*
77978385 TTTTTGCTAACTC
1 TTTTAGCTAACTC
* * *
77978398 TTCTAGCTAGTCCC
1 TTTTAGCTA-ACTC
77978412 TTTTAGCTAACTC
1 TTTTAGCTAACTC
*
77978425 TTTTAGTTAACTC
1 TTTTAGCTAACTC
77978438 T
1 T
77978439 CATTTTAACT
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
13 22 0.69
14 10 0.31
ACGTcount: A:0.19, C:0.24, G:0.09, T:0.48
Consensus pattern (13 bp):
TTTTAGCTAACTC
Found at i:77981515 original size:2 final size:2
Alignment explanation
Indices: 77981508--77981533 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
77981498 GTACTCAGAG
77981508 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
77981534 AATAGTGGCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:77983076 original size:17 final size:19
Alignment explanation
Indices: 77983040--77983088 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 19
77983030 TTCACCGGTT
77983040 TAATTAAATAAATTATTAAAAA
1 TAATTAAA-AAA--ATTAAAAA
77983062 -AA-TAAAAAAATTAAAAA
1 TAATTAAAAAAATTAAAAA
77983079 TAATTAAAAA
1 TAATTAAAAA
77983089 TAGAGTAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
17 8 0.32
18 2 0.08
19 9 0.36
20 4 0.16
21 2 0.08
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (19 bp):
TAATTAAAAAAATTAAAAA
Found at i:77983088 original size:20 final size:21
Alignment explanation
Indices: 77983040--77983088 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 21
77983030 TTCACCGGTT
*
77983040 TAATTAAATAAATTATTAAAAA
1 TAATTAAA-AAATAATTAAAAA
77983062 -AA-T-AAAAA-AATTAAAAA
1 TAATTAAAAAATAATTAAAAA
77983079 TAATTAAAAA
1 TAATTAAAAA
77983089 TAGAGTAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 8
0.72 0.03 0.25
Matches are distributed among these distances:
17 8 0.35
18 5 0.22
19 3 0.13
20 5 0.22
21 2 0.09
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (21 bp):
TAATTAAAAAATAATTAAAAA
Found at i:77983089 original size:10 final size:10
Alignment explanation
Indices: 77983049--77983090 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
77983039 TTAATTAAAT
*
77983049 AAATTATTAA
1 AAATAATTAA
77983059 AAA-AA-TAA
1 AAATAATTAA
77983067 AAA-AATTAA
1 AAATAATTAA
77983076 AAATAATTAA
1 AAATAATTAA
77983086 AAATA
1 AAATA
77983091 GAGTAATTGG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
8 8 0.28
9 7 0.24
10 14 0.48
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (10 bp):
AAATAATTAA
Found at i:77985650 original size:8 final size:8
Alignment explanation
Indices: 77985639--77985668 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
77985629 TTCAAAATTA
77985639 TCAAATAT
1 TCAAATAT
77985647 TCAAATAT
1 TCAAATAT
*
77985655 TCAAATAC
1 TCAAATAT
77985663 TCAAAT
1 TCAAAT
77985669 TTTATCTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (8 bp):
TCAAATAT
Found at i:77986882 original size:6 final size:6
Alignment explanation
Indices: 77986873--77986902 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
77986863 TATATATTCT
*
77986873 CATACA CATATA CATATA CATATA CATATA
1 CATATA CATATA CATATA CATATA CATATA
77986903 TTCTCATGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (6 bp):
CATATA
Found at i:77988051 original size:3 final size:3
Alignment explanation
Indices: 77988043--77988071 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
77988033 ATGCCCCTTT
77988043 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
77988072 TTTTTTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:77991386 original size:25 final size:24
Alignment explanation
Indices: 77991358--77991406 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
77991348 AAAAAATACA
*
77991358 AAATTTTTAAAAAATATAAAAAATT
1 AAATATTT-AAAAATATAAAAAATT
* *
77991383 AAATATTTATAAATCTAAAAAATT
1 AAATATTTAAAAATATAAAAAATT
77991407 CTTAAATTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (24 bp):
AAATATTTAAAAATATAAAAAATT
Found at i:77991390 original size:27 final size:29
Alignment explanation
Indices: 77991329--77991395 Score: 70
Period size: 27 Copynumber: 2.4 Consensus size: 29
77991319 AAACTATTAG
*
77991329 AAAATCTAT-AAAAATAATTAAAAAATAC
1 AAAATTTATAAAAAATAATTAAAAAATAC
*
77991357 AAAATTTTTAAAAAAT-A-TAAAAAATTA-
1 AAAATTTATAAAAAATAATTAAAAAA-TAC
*
77991384 AATATTTATAAA
1 AAAATTTATAAA
77991396 TCTAAAAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
27 17 0.52
28 10 0.30
29 6 0.18
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (29 bp):
AAAATTTATAAAAAATAATTAAAAAATAC
Found at i:77991560 original size:321 final size:326
Alignment explanation
Indices: 77991173--77991787 Score: 1033
Period size: 321 Copynumber: 1.9 Consensus size: 326
77991163 AGCCCAAATG
* *
77991173 ATAATTCACGTATACTTCATGCTATTCTTTTTTTTTTAAATTTTTATACCTTTTTTGGATTTTTA
1 ATAATTCACGTATACTTCATGCTATTC-TTTTTTTTAAAATTTTTATACCTTTTTTGGACTTTTA
* * *
77991238 AAATTTTGATATTTTAAAAATCATTTTGATATTTTAAAATTTTTCTTAAAAATAATTCTAACAAA
65 AAATTTTAATATTTTAAAAATCATTTTCATATTTTAAAATTTTTCTTAAAAATAATTCTAAAAAA
77991303 ATAAATCTTAAACTAAAAACTATTAGAAAATCTATAAAAATAATTAAAAAATACAAAATTTTTAA
130 ATAAATCTTAAACTAAAAACTATTAGAAAATCTATAAAAATAATTAAAAAATACAAAATTTTTAA
* *
77991368 AAAATAT-AAAAAATTAAATATTTATAAATCTAAAAAATTCTTAAA-TTTAAAAGTAT-AATACT
195 AAAATATAAAAAAATTAAATATGTAGAAATCTAAAAAATTCTTAAATTTTAAAAGTATAAATACT
77991430 ATTAGAAAATCTAT-AAAATAATGAAAAAATAATTTTTTTAAAAAAAATATAAAAAATTAAATAT
260 ATTAGAAAATCTATAAAAATAATGAAAAAATAATTTTTTTAAAAAAAATATAAAAAATTAAATAT
77991494 GT
325 GT
* *
77991496 ATAATTCACGTATTCTTCATGCTATTC-TTTTTTTAAAATTTTTATACTTTTTTTGGACTTTTAA
1 ATAATTCACGTATACTTCATGCTATTCTTTTTTTTAAAATTTTTATACCTTTTTTGGACTTTTAA
77991560 AATTTTAATATTTTAAAAATCATTTTCATATTTTAAAATTTTTCTTAAAAATAATTCTAAAAAAA
66 AATTTTAATATTTTAAAAATCATTTTCATATTTTAAAATTTTTCTTAAAAATAATTCTAAAAAAA
* * ***
77991625 TAAATCTTAAACTAAAAACTATTATAAAATGTATAAAAATAATTAAAAAATACATTTTTTTTAAA
131 TAAATCTTAAACTAAAAACTATTAGAAAATCTATAAAAATAATTAAAAAATACAAAATTTTTAAA
*
77991690 ATATATAAAAAAATTAAATATGTAGAAATCTAAAAAATTCTTAAATTTTAAAAGTATAAAATACT
196 AAATATAAAAAAATTAAATATGTAGAAATCTAAAAAATTCTTAAATTTTAAAAGTAT-AAATACT
*
77991755 ATTAGAAAATCTATAAAAATAATTAAAAAATAA
260 ATTAGAAAATCTATAAAAATAATGAAAAAATAA
77991788 AAAAATTAAA
Statistics
Matches: 271, Mismatches: 16, Indels: 7
0.92 0.05 0.02
Matches are distributed among these distances:
321 161 0.59
322 36 0.13
323 37 0.14
325 20 0.07
326 17 0.06
ACGTcount: A:0.49, C:0.07, G:0.03, T:0.41
Consensus pattern (326 bp):
ATAATTCACGTATACTTCATGCTATTCTTTTTTTTAAAATTTTTATACCTTTTTTGGACTTTTAA
AATTTTAATATTTTAAAAATCATTTTCATATTTTAAAATTTTTCTTAAAAATAATTCTAAAAAAA
TAAATCTTAAACTAAAAACTATTAGAAAATCTATAAAAATAATTAAAAAATACAAAATTTTTAAA
AAATATAAAAAAATTAAATATGTAGAAATCTAAAAAATTCTTAAATTTTAAAAGTATAAATACTA
TTAGAAAATCTATAAAAATAATGAAAAAATAATTTTTTTAAAAAAAATATAAAAAATTAAATATG
T
Found at i:77992216 original size:19 final size:21
Alignment explanation
Indices: 77992192--77992232 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
77992182 TAATAATTAT
77992192 AAAAATAA-AAA-AAGGAGAA
1 AAAAATAATAAAGAAGGAGAA
*
77992211 AAAAATAATAAAGAAGGGGAA
1 AAAAATAATAAAGAAGGAGAA
77992232 A
1 A
77992233 GAGAAATGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
20 3 0.16
21 8 0.42
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.07
Consensus pattern (21 bp):
AAAAATAATAAAGAAGGAGAA
Found at i:78001424 original size:19 final size:19
Alignment explanation
Indices: 78001389--78001426 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
78001379 AAAAATAAAA
*
78001389 TAAAATAATTTTTAAAATT
1 TAAAATAATTTTAAAAATT
78001408 TAAAAT-ATTTATAAAAATT
1 TAAAATAATTT-TAAAAATT
78001427 CCAAAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TAAAATAATTTTAAAAATT
Found at i:78001467 original size:18 final size:18
Alignment explanation
Indices: 78001444--78001479 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
78001434 TTATATTTTT
78001444 AAAAAATTATAAAAAATA
1 AAAAAATTATAAAAAATA
* *
78001462 AAAAAATTCTAAAGAATA
1 AAAAAATTATAAAAAATA
78001480 TATGAATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.22
Consensus pattern (18 bp):
AAAAAATTATAAAAAATA
Found at i:78026111 original size:24 final size:24
Alignment explanation
Indices: 78026085--78026129 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
78026075 GCACGTTATT
78026085 TTTTTAATCCTGT-TTCTTCTTGG
1 TTTTTAATCCTGTATTCTTCTTGG
* *
78026108 TTTTTATTCTTGTATTCTTCTT
1 TTTTTAATCCTGTATTCTTCTT
78026130 TTTACTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.09, C:0.16, G:0.09, T:0.67
Consensus pattern (24 bp):
TTTTTAATCCTGTATTCTTCTTGG
Found at i:78029824 original size:21 final size:22
Alignment explanation
Indices: 78029777--78029824 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
78029767 GGCACGTTAT
*
78029777 TTTTTTGTTCTGTCTCTTCTTG
1 TTTTTTGTTCTGTCTCTTCTTA
* * *
78029799 GTTTTTGTTCT-TGTGTTCTTA
1 TTTTTTGTTCTGTCTCTTCTTA
78029820 TTTTT
1 TTTTT
78029825 GCTTTTTGGA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.02, C:0.12, G:0.15, T:0.71
Consensus pattern (22 bp):
TTTTTTGTTCTGTCTCTTCTTA
Found at i:78030113 original size:22 final size:22
Alignment explanation
Indices: 78030084--78030143 Score: 84
Period size: 22 Copynumber: 2.7 Consensus size: 22
78030074 GCAACCATGA
78030084 AGCAGCCCCATACCTCCACTAC
1 AGCAGCCCCATACCTCCACTAC
* * *
78030106 AGCGGCCCCATACCCCCACTAT
1 AGCAGCCCCATACCTCCACTAC
*
78030128 AGCAGTCCCATACCTC
1 AGCAGCCCCATACCTC
78030144 TACAGCCCTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.25, C:0.48, G:0.12, T:0.15
Consensus pattern (22 bp):
AGCAGCCCCATACCTCCACTAC
Found at i:78042150 original size:73 final size:73
Alignment explanation
Indices: 78041917--78042455 Score: 526
Period size: 73 Copynumber: 7.0 Consensus size: 73
78041907 TCTGTTTCAA
* **
78041917 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
*
78041982 TGCTTTTC
66 TGTTTTTC
* *
78041990 AAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATT
1 -A-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAA--
78042055 CCTGTTCAATTTATGTTTTTC
62 --T-TTC------TGTTTTTC
* *
78042076 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
78042141 TGTTTTTC
66 TGTTTTTC
* * * *
78042149 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAAATTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
**
78042214 T-ACTTTC
66 TGTTTTTC
* * * * * *
78042221 AAAAAAATCAACTCATATTGAGAAAGGTGAGTTGAGCCT-TGGCTCACG-TGTTGAGTCACTTTC
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTG-AG-GT-ATTTTC
78042284 AATTTCTGTTTTTATGTC
60 AATTTCTG--TTT-T-TC
** *
78042302 TGTTTTCTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTC
1 ------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTC
* **
78042367 AATTACTGTTTGGC
60 AATTTCTGTTTTTC
* * * *
78042381 AAAAATAAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCCATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
78042446 TGTTTTTC
66 TGTTTTTC
78042454 AA
1 AA
78042456 TTTATGTTTT
Statistics
Matches: 389, Mismatches: 47, Indels: 59
0.79 0.09 0.12
Matches are distributed among these distances:
72 4 0.01
73 136 0.35
74 41 0.11
75 61 0.16
76 11 0.03
79 6 0.02
80 5 0.01
81 5 0.01
83 12 0.03
84 58 0.15
85 39 0.10
86 11 0.03
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (73 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
TGTTTTTC
Found at i:78042222 original size:159 final size:159
Alignment explanation
Indices: 78041917--78042209 Score: 473
Period size: 159 Copynumber: 1.9 Consensus size: 159
78041907 TCTGTTTCAA
* * *
78041917 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTC
**
78041982 TGCTTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAT
66 TGCTTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTAT
78042047 TTTCAATTCCTGTTCAATTTATGTTTTTC
131 TTTCAATTCCTGTTCAATTTATGTTTTTC
* *
78042076 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTC
* ** *
78042141 TGTTTTTC-A-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTAT
66 TGCTTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTAT
78042204 TTTCAA
131 TTTCAA
78042210 ATTCTACTTT
Statistics
Matches: 123, Mismatches: 11, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
157 55 0.45
158 1 0.01
159 67 0.54
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.31
Consensus pattern (159 bp):
AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTC
TGCTTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTAT
TTTCAATTCCTGTTCAATTTATGTTTTTC
Found at i:78042316 original size:232 final size:230
Alignment explanation
Indices: 78041917--78042439 Score: 696
Period size: 232 Copynumber: 2.3 Consensus size: 230
78041907 TCTGTTTCAA
* ** *
78041917 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAAATTC
* * * * *
78041982 TGCTTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAT
66 TACTTTTCAAAAAAATCAACTCATATTGAGAAAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAC
78042047 TTTCAATTCCTGTTCAATTTATGTTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCC
131 TTTCAATTCCTGTT--ATTTATGTTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCC
* **
78042112 TCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTTC
194 TCAGGACACGCTGAGGTAATTTCAATTACTGTTTGGC
* * *
78042149 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAAATTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAAATTC
** *
78042214 TAC-TTTCAAAAAAATCAACTCATATTGAGAAAGGTGAGTTGAGCCT-TGGCTCACGTGTTGA-G
66 TACTTTTCAAAAAAATCAACTCATATTGAGAAAGGTGAGTTGAGCCTCAAG-ACAC--GTTGAGG
* * *
78042276 TCACTTTCAATTTCTGTT-TTTATGTCTGTTTTC-TAAATCAACTCATATTGCGAGAGGTGAGTT
128 T-ACTTTCAATTCCTGTTATTTATG--T-TTTTCAAAAATCAACTCATATTACGAGAGGTGAGTT
* *
78042339 GAGCCTCAGGGCACGCTGAGGTATTTTCAATTACTGTTTGGC
189 GAGCCTCAGGACACGCTGAGGTAATTTCAATTACTGTTTGGC
* * *
78042381 AAAAATAAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTC
78042440 CATTTCTGTT
Statistics
Matches: 255, Mismatches: 29, Indels: 14
0.86 0.10 0.05
Matches are distributed among these distances:
230 7 0.03
231 43 0.17
232 181 0.71
233 24 0.09
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (230 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAAATTC
TACTTTTCAAAAAAATCAACTCATATTGAGAAAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAC
TTTCAATTCCTGTTATTTATGTTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTC
AGGACACGCTGAGGTAATTTCAATTACTGTTTGGC
Found at i:78042473 original size:159 final size:160
Alignment explanation
Indices: 78042131--78042797 Score: 584
Period size: 159 Copynumber: 4.1 Consensus size: 160
78042121 GCTGAGGTAA
*
78042131 TTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGGCACG
1 TTTCAATTTCTG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTGCACG
* * ** * *
78042195 CCGAGGTATTTTCAAATTCTACTTTCAAAAAAATCAACTCATATTGAGAAAGGTGAGTTGAGCCT
65 CTGAGGTATTTTCAAGTTCTGTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
* * * *
78042260 -TGGCTCACGTGTTGA-GTCACTTTCAATTTCTGTT
128 CAGG--CACATGCTGAGGT-ATTTTCAATTTCTGTT
* *
78042294 TTT--ATGTCTGTTTTC-TAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-GCACGC
1 TTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTGCACGC
* * *
78042355 TGAGGTATTTTCAA-TTACTGTTTGGCAAAAATAAACTCATACTGCGAGAGGTGAGTTGAGCCTC
66 TGAGGTATTTTCAAGTT-CTGTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
*
78042419 AGG-ACATGCTGAGGTATTTTCCATTTCTGTT
129 AGGCACATGCTGAGGTATTTTCAATTTCTGTT
* * * * * * *
78042450 TTTCAATTTATGTTTTCAAAAATCAATTCATATTGCTAAAGGTGAATTGAGCTTCAGGTCGCATA
1 TTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT-GCA-C
* * * * *
78042515 GC-GAGGTATTTTCAATTTATGTTTTCAAAAATCAATTCATATTGCTAGAGGTGAATTGAGCCTC
64 GCTGAGGTATTTTCAAGTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
* * * ***
78042579 AGGTCATACGCCGAGGTATTTTCAATAGATGTTT
129 AGG-CACATGCTGAGGTATTTTCAATTTCTG-TT
* * * *
78042613 TTTCCAATTTCTGCTTCTCAATAAAAAATTAACTCATATTGCGAGATGTGAGTTGAGCCT-TGGC
1 TTT-CAATTTCTG-TT-T---TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-
* *
78042677 TTACACGGTGAGGTATTTTCAAGTTCTGCTTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGT
59 -TGCACGCTGAGGTATTTTCAAGTTCTG-TTTTC-----AAAAATCAACTCATATTGCGAGAGGT
* * *
78042742 GAGTTGAGCCTC-GGCTCGCACGCTGAGGTATTTTCAATTTTTCGTT
117 GAGTTGAGCCTCAGG--CACATGCTGAGGTATTTTCAATTTCT-GTT
78042788 TCTTCAATTT
1 T-TTCAATTT
78042798 ATACTTTTCA
Statistics
Matches: 409, Mismatches: 62, Indels: 54
0.78 0.12 0.10
Matches are distributed among these distances:
156 24 0.06
157 2 0.00
158 45 0.11
159 95 0.23
160 45 0.11
161 27 0.07
162 23 0.06
163 8 0.02
164 8 0.02
165 2 0.00
166 1 0.00
168 3 0.01
169 50 0.12
170 6 0.01
174 2 0.00
175 65 0.16
176 3 0.01
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (160 bp):
TTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTGCACGC
TGAGGTATTTTCAAGTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
GCACATGCTGAGGTATTTTCAATTTCTGTT
Found at i:78042570 original size:74 final size:74
Alignment explanation
Indices: 78042449--78042613 Score: 262
Period size: 74 Copynumber: 2.2 Consensus size: 74
78042439 CCATTTCTGT
*
78042449 TTTTCAATTTATGTTTTCAAAAATCAATTCATATTGCTAAAGGTGAATTGAGCTTCAGGTCGCAT
1 TTTTCAATTTATGTTTTCAAAAATCAATTCATATTGCTAAAGGTGAATTGAGCCTCAGGT--CAT
78042514 A-G-CGAGGTA
64 ACGCCGAGGTA
*
78042523 TTTTCAATTTATGTTTTCAAAAATCAATTCATATTGCTAGAGGTGAATTGAGCCTCAGGTCATAC
1 TTTTCAATTTATGTTTTCAAAAATCAATTCATATTGCTAAAGGTGAATTGAGCCTCAGGTCATAC
78042588 GCCGAGGTA
66 GCCGAGGTA
**
78042597 TTTTCAATAGATGTTTT
1 TTTTCAATTTATGTTTT
78042614 TTCCAATTTC
Statistics
Matches: 85, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
72 4 0.05
73 1 0.01
74 80 0.94
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.38
Consensus pattern (74 bp):
TTTTCAATTTATGTTTTCAAAAATCAATTCATATTGCTAAAGGTGAATTGAGCCTCAGGTCATAC
GCCGAGGTA
Found at i:78042745 original size:80 final size:79
Alignment explanation
Indices: 78042612--78042778 Score: 235
Period size: 80 Copynumber: 2.1 Consensus size: 79
78042602 AATAGATGTT
* * * * *
78042612 TTTTCCAATTTCTGCTTCTCAATAAAAAATTAACTCATATTGCGAGATGTGAGTTGAGCCTTGGC
1 TTTT-CAAGTTCTGCTTCTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGC
* *
78042677 TTACACGGTGAGGTA
65 TCACACGCTGAGGTA
*
78042692 TTTTCAAGTTCTGCTTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGC
1 TTTTCAAGTTCTGCTTCTC-AAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGC
*
78042757 TCGCACGCTGAGGTA
65 TCACACGCTGAGGTA
78042772 TTTTCAA
1 TTTTCAA
78042779 TTTTTCGTTT
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
79 13 0.17
80 64 0.83
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (79 bp):
TTTTCAAGTTCTGCTTCTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCT
CACACGCTGAGGTA
Found at i:78043182 original size:52 final size:51
Alignment explanation
Indices: 78043113--78043337 Score: 184
Period size: 52 Copynumber: 4.2 Consensus size: 51
78043103 AAGCTAATTA
*
78043113 AAGTTT-AATAGAGAAGATCGAGACTACAAATCTCTTCTCCTTAAACCCTCG
1 AAGTTTCAGTAGAGAAGATCGAGACTACAAATCTCTTCTCCTTAAA-CCTCG
* * * *
78043164 AAGTTTCAGTAGAGAAGATCGAAACTACAAATCTCTTCTCCCTGAATCTCCG
1 AAGTTTCAGTAGAGAAGATCGAGACTACAAATCTCTTCTCCTTAAACCT-CG
* * * * * *
78043216 AAGTTTCAGT-GTAGTAGGTCGAGGCTACAAATCCCTTCTACCTGAATTCTTATTTCCTCA
1 AAGTTTCAGTAG-AGAAGATCGAGACTACAAATCTCTTCT-CCTTAA-----A---CCTCG
* * *
78043276 AAGTTTTAGTAGAGAAGATCGAGGCTACAAATCTCTTCTCCTTAAATCTCCG
1 AAGTTTCAGTAGAGAAGATCGAGACTACAAATCTCTTCTCCTTAAACCT-CG
*
78043328 AAGTTGCAGT
1 AAGTTTCAGT
78043338 GGAGTGAATC
Statistics
Matches: 136, Mismatches: 24, Indels: 27
0.73 0.13 0.14
Matches are distributed among these distances:
51 11 0.08
52 78 0.57
53 3 0.02
54 1 0.01
58 1 0.01
59 5 0.04
60 34 0.25
61 3 0.02
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (51 bp):
AAGTTTCAGTAGAGAAGATCGAGACTACAAATCTCTTCTCCTTAAACCTCG
Found at i:78043780 original size:22 final size:22
Alignment explanation
Indices: 78043751--78043813 Score: 90
Period size: 22 Copynumber: 2.9 Consensus size: 22
78043741 GCAACCATGA
78043751 AGCAGCCCCATACCTCCACTAC
1 AGCAGCCCCATACCTCCACTAC
* *
78043773 AGCGGCCCCATACCCCCACTAC
1 AGCAGCCCCATACCTCCACTAC
* *
78043795 AGCAGTCTCATACCTCCAC
1 AGCAGCCCCATACCTCCAC
78043814 AACCCTCGTA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.25, C:0.49, G:0.11, T:0.14
Consensus pattern (22 bp):
AGCAGCCCCATACCTCCACTAC
Found at i:78049221 original size:17 final size:19
Alignment explanation
Indices: 78049199--78049233 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
78049189 GATATGATAC
78049199 TAAAAT-TAT-TAAAAAAT
1 TAAAATATATATAAAAAAT
78049216 TAAAATATATATAAAAAA
1 TAAAATATATATAAAAAA
78049234 AATCTGGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 3 0.19
19 7 0.44
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
TAAAATATATATAAAAAAT
Found at i:78049526 original size:22 final size:22
Alignment explanation
Indices: 78049491--78049548 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
78049481 AAAATGTATC
* *
78049491 TACAAATTAAATCTT-TAAGAT
1 TACAAATCATATCTTCTAAGAT
78049512 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
78049535 TGCATATCATATCT
1 TACAAATCATATCT
78049549 AAGATTGCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 20 0.65
23 8 0.26
ACGTcount: A:0.41, C:0.16, G:0.05, T:0.38
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:78049583 original size:35 final size:37
Alignment explanation
Indices: 78049520--78049598 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
78049510 ATTACAAAAT
78049520 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
78049556 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
78049591 CATATCAT
1 CATATCAT
78049599 TGAAGATTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
35 22 0.55
36 8 0.20
37 10 0.25
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:78049596 original size:14 final size:15
Alignment explanation
Indices: 78049541--78049596 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
78049531 AGATTGCATA
78049541 TCATATCTAAGATTG
1 TCATATCTAAGATTG
78049556 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
78049574 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
78049591 -CATATC
1 TCATATC
78049597 ATTGAAGATT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:78049606 original size:17 final size:19
Alignment explanation
Indices: 78049527--78049598 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
78049517 AATCATATCT
78049527 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
78049546 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
78049564 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
78049581 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
78049599 TGAAGATTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.32
18 16 0.32
19 18 0.36
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:78049754 original size:21 final size:20
Alignment explanation
Indices: 78049716--78049755 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
78049706 CTTGGACTTC
**
78049716 TTTTTTTTTTGGGTTTATTA
1 TTTTTTTTTTGGACTTATTA
78049736 TTTTTGTTTTTGGACTTATT
1 TTTTT-TTTTTGGACTTATT
78049756 TCTGGGCCCG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTTGGACTTATTA
Found at i:78050003 original size:45 final size:45
Alignment explanation
Indices: 78049948--78050219 Score: 286
Period size: 45 Copynumber: 6.1 Consensus size: 45
78049938 GGAAGGCGAT
* * ** *
78049948 ATCTGCTATCTTTGATCTGCTCCTTGTCTAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
*
78049993 ATCTGTTATCTTCGATCTGCTCCCCGTCT--TACAGAGAAGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* *
78050036 ATCTGCT-TCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
78050080 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * * * * * * *
78050125 ATCTGTCATCTTAGATCTG--CCTCGATGTAA-ACACATGAAGGTCAG
1 ATCTGTTATCTTCGATCTGCTCCCCG-TCTAATACAGA-G-ATGCCAA
* * *
78050170 ATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGTCAA
1 ATCTG-T-TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
78050217 ATC
1 ATC
78050220 ATCTTGGATC
Statistics
Matches: 189, Mismatches: 27, Indels: 20
0.80 0.11 0.08
Matches are distributed among these distances:
42 20 0.11
43 27 0.14
44 24 0.13
45 87 0.46
46 1 0.01
47 18 0.10
48 5 0.03
49 7 0.04
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (45 bp):
ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
Found at i:78050068 original size:87 final size:89
Alignment explanation
Indices: 78049948--78050129 Score: 287
Period size: 87 Copynumber: 2.1 Consensus size: 89
78049938 GGAAGGCGAT
** **
78049948 ATCTGCTATCTTTGATCTGCTCCTTGTCTAATACAGAGACGCCAAATCTGTTATCTTCGATCTGC
1 ATCTGCTATCTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTTCGATCTGC
78050013 TCCCCGTCT-TACAGAGAAGCCAA
66 TCCCCGTCTATACAGAGAAGCCAA
*
78050036 ATCTGCT-TCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTTCGATCTGC
1 ATCTGCTATCTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTTCGATCTGC
*
78050100 TCCCCGTCTAATACAGAGATGCCAA
66 TCCCCGTCT-ATACAGAGAAGCCAA
78050125 ATCTG
1 ATCTG
78050130 TCATCTTAGA
Statistics
Matches: 86, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
87 61 0.71
88 7 0.08
89 18 0.21
ACGTcount: A:0.24, C:0.29, G:0.15, T:0.31
Consensus pattern (89 bp):
ATCTGCTATCTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTTCGATCTGC
TCCCCGTCTATACAGAGAAGCCAA
Found at i:78050296 original size:78 final size:78
Alignment explanation
Indices: 78050159--78050470 Score: 414
Period size: 78 Copynumber: 4.0 Consensus size: 78
78050149 ATGTAAACAC
* *
78050159 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGTCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
78050224 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * *
78050237 ATGAAGGTCCA-ATCTGTTATGTCTTCGATCTGCTCCTCGTCTAATACAGAGTTGCCAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
78050301 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
* * *
78050315 ATTG-AGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGCCTAATACAGGGATGCCAAATCATC
1 A-TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
78050379 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
* * *** * *
78050393 ATGAAGGTCAGATTTGTTATGTCTTCGATCTGCTTCGATTTGTC-AGTACAGAGATGCCAAATTA
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGC-TC--CCCGTCTAATACAGAGATGCCAAATCA
*
78050457 TCTTAGATCTGCTT
63 TCTTGGATCTGCTT
78050471 TAGCATAAAC
Statistics
Matches: 205, Mismatches: 22, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
77 4 0.02
78 163 0.80
79 6 0.03
80 30 0.15
81 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:78060452 original size:17 final size:17
Alignment explanation
Indices: 78060430--78060465 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
78060420 TTGATATGAT
78060430 ATTAAAAT-TATTAAAAA
1 ATTAAAATATA-TAAAAA
78060447 ATTAAAATATATAAAAA
1 ATTAAAATATATAAAAA
78060464 AT
1 AT
78060466 CCGAGGAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 16 0.89
18 2 0.11
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
ATTAAAATATATAAAAA
Found at i:78060755 original size:22 final size:21
Alignment explanation
Indices: 78060720--78060795 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
78060710 AAAAGGTATC
* *
78060720 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
78060741 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
78060764 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
78060783 TGC-AATCATATCT
1 TACAAATCATATCT
78060796 AAGATTGCAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:78060792 original size:18 final size:19
Alignment explanation
Indices: 78060756--78060810 Score: 103
Period size: 18 Copynumber: 2.9 Consensus size: 19
78060746 AATCATATCT
78060756 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
78060775 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
78060793 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
78060811 TGAAGATTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
18 18 0.51
19 17 0.49
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:78060966 original size:21 final size:20
Alignment explanation
Indices: 78060929--78060967 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
78060919 TTGGACTTCG
**
78060929 TTTTTTTTTGGGTTTATTAT
1 TTTTTTTTTGGACTTATTAT
78060949 TTTTGTTTTTGGACTTATT
1 TTTT-TTTTTGGACTTATT
78060968 TCTGGGCTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTGGACTTATTAT
Found at i:78061472 original size:23 final size:22
Alignment explanation
Indices: 78061446--78061488 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
78061436 GCTAAGCTAG
78061446 TATAAAAAAGAAATGTGGTAAAT
1 TATAAAAAAGAAATG-GGTAAAT
**
78061469 TATAATTAAGAAATGGGTAA
1 TATAAAAAAGAAATGGGTAA
78061489 TAGATGGGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.53, C:0.00, G:0.19, T:0.28
Consensus pattern (22 bp):
TATAAAAAAGAAATGGGTAAAT
Found at i:78064166 original size:17 final size:19
Alignment explanation
Indices: 78064132--78064172 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
78064122 AAAATTCTTG
*
78064132 TTTATAAAAATAATATTT-
1 TTTAAAAAAATAATATTTA
78064150 TTTAAAAAAATAA-ATTTA
1 TTTAAAAAAATAATATTTA
78064168 TTTAA
1 TTTAA
78064173 CCAAATATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTAAAAAAATAATATTTA
Found at i:78064905 original size:41 final size:41
Alignment explanation
Indices: 78064859--78064940 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
78064849 GAGTATGACT
78064859 GTTCAAGTTTGGGTAAGGAAAATAGAAATTTTATGAGGATA
1 GTTCAAGTTTGGGTAAGGAAAATAGAAATTTTATGAGGATA
78064900 GTTCAAGTTTGGGTAAGGAAAATAGAAATTTTATGAGGATA
1 GTTCAAGTTTGGGTAAGGAAAATAGAAATTTTATGAGGATA
78064941 CGCGTTCGAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.39, C:0.02, G:0.27, T:0.32
Consensus pattern (41 bp):
GTTCAAGTTTGGGTAAGGAAAATAGAAATTTTATGAGGATA
Found at i:78067784 original size:15 final size:15
Alignment explanation
Indices: 78067764--78067794 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
78067754 TTGGGGTATG
78067764 AAGATCAACAGATCC
1 AAGATCAACAGATCC
78067779 AAGATCAACAGATCC
1 AAGATCAACAGATCC
78067794 A
1 A
78067795 GAATGGTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.26, G:0.13, T:0.13
Consensus pattern (15 bp):
AAGATCAACAGATCC
Found at i:78078680 original size:34 final size:34
Alignment explanation
Indices: 78078637--78078702 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
78078627 AATTAAGAAA
78078637 GAAAAATAAAACATACAGATTTTAAGTGGAAATT
1 GAAAAATAAAACATACAGATTTTAAGTGGAAATT
*
78078671 GAAAAATAAAACATACAGATTTTACGTGGAAA
1 GAAAAATAAAACATACAGATTTTAAGTGGAAA
78078703 CCTTTTCGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.53, C:0.08, G:0.15, T:0.24
Consensus pattern (34 bp):
GAAAAATAAAACATACAGATTTTAAGTGGAAATT
Found at i:78080770 original size:21 final size:21
Alignment explanation
Indices: 78080744--78080813 Score: 81
Period size: 21 Copynumber: 3.4 Consensus size: 21
78080734 AACGATGTCT
78080744 CGACATTCAAATCCAATGTTG
1 CGACATTCAAATCCAATGTTG
* *
78080765 CAACATTC-AAGCC-ATGTTG
1 CGACATTCAAATCCAATGTTG
* * *
78080784 TGACATTCAATTCCAATGTCG
1 CGACATTCAAATCCAATGTTG
78080805 CGACATTCA
1 CGACATTCA
78080814 TGGAAGTTTC
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
19 12 0.31
20 7 0.18
21 20 0.51
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (21 bp):
CGACATTCAAATCCAATGTTG
Found at i:78082509 original size:20 final size:19
Alignment explanation
Indices: 78082479--78082517 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
78082469 ATACATAATT
78082479 AATGAATAATAAATAATAA
1 AATGAATAATAAATAATAA
*
78082498 AATGATATAATATATAATAA
1 AATGA-ATAATAAATAATAA
78082518 TCTTTACATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (19 bp):
AATGAATAATAAATAATAA
Found at i:78082530 original size:18 final size:19
Alignment explanation
Indices: 78082507--78082542 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
78082497 AAATGATATA
78082507 ATATAT-AATAATCTTTAC
1 ATATATAAATAATCTTTAC
*
78082525 ATATATAAATAATGTTTA
1 ATATATAAATAATCTTTA
78082543 TAGTAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (19 bp):
ATATATAAATAATCTTTAC
Found at i:78085218 original size:43 final size:43
Alignment explanation
Indices: 78085170--78085277 Score: 137
Period size: 43 Copynumber: 2.5 Consensus size: 43
78085160 GACTAACGAG
* *
78085170 ATGTGATTATGTGTAACACCATGTCTGGGACATTGGCATCATT
1 ATGTGATTATGTGTAAAACCATGTCTAGGACATTGGCATCATT
** *
78085213 ATGTGATTACATGTAAAACCATGTCTAGGACATTGGCATCGTT
1 ATGTGATTATGTGTAAAACCATGTCTAGGACATTGGCATCATT
* *
78085256 ATTTGATT-TCGTGTAAGACCAT
1 ATGTGATTAT-GTGTAAAACCAT
78085278 AGTTGGGCTA
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (43 bp):
ATGTGATTATGTGTAAAACCATGTCTAGGACATTGGCATCATT
Found at i:78087233 original size:26 final size:26
Alignment explanation
Indices: 78087187--78087239 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
78087177 TTGGAAATTA
*
78087187 AAAATAAATTAATTTAGATAAT-ATT
1 AAAATAAATTAACTTAGATAATCATT
* *
78087212 AAAATAAATTTACTTATTATAATCATT
1 AAAATAAATTAACTTA-GATAATCATT
78087239 A
1 A
78087240 TCATCATACA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 14 0.61
26 5 0.22
27 4 0.17
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (26 bp):
AAAATAAATTAACTTAGATAATCATT
Found at i:78093504 original size:21 final size:21
Alignment explanation
Indices: 78093480--78093545 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
78093470 CACAAAAACG
78093480 ATGTCTCAACATTCAAATCCA
1 ATGTCTCAACATTCAAATCCA
*
78093501 ATGT-TGCAACATTC-AA-GCA
1 ATGTCT-CAACATTCAAATCCA
* *
78093520 ATGTCGT-GACATTCAATTCCA
1 ATGTC-TCAACATTCAAATCCA
78093541 ATGTC
1 ATGTC
78093546 GTGACATTCA
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
19 12 0.33
20 4 0.11
21 20 0.56
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.30
Consensus pattern (21 bp):
ATGTCTCAACATTCAAATCCA
Found at i:78093546 original size:21 final size:20
Alignment explanation
Indices: 78093488--78093555 Score: 75
Period size: 21 Copynumber: 3.4 Consensus size: 20
78093478 CGATGTCTCA
* **
78093488 ACATTCAAATCCAATGTTGCA
1 ACATTC-AATCCAATGTCGTG
*
78093509 ACATTCAA-GCAATGTCGTG
1 ACATTCAATCCAATGTCGTG
78093528 ACATTCAATTCCAATGTCGTG
1 ACATTCAA-TCCAATGTCGTG
78093549 ACATTCA
1 ACATTCA
78093556 TGGAAGTTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
19 15 0.38
20 2 0.05
21 23 0.57
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.29
Consensus pattern (20 bp):
ACATTCAATCCAATGTCGTG
Found at i:78095933 original size:93 final size:93
Alignment explanation
Indices: 78095820--78095991 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
78095810 CGCCCATAAG
* *
78095820 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
78095885 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
78095913 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
78095978 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
78095992 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:78095988 original size:46 final size:46
Alignment explanation
Indices: 78095813--78095988 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
78095803 TGTAACCCGC
* * *
78095813 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
78095859 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
78095909 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
78095952 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
78095989 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:78103239 original size:93 final size:93
Alignment explanation
Indices: 78103110--78103281 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
78103100 CGCCCATAAG
* *
78103110 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
78103175 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
78103203 CGAACTCGGACTCAACTCAATGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
78103268 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
78103282 TCAATCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:78103278 original size:46 final size:46
Alignment explanation
Indices: 78103103--78103278 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
78103093 TGTAACCCGC
* * *
78103103 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
78103149 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
78103199 -C-TCA-CGAACTCGGACTCAACTCAATGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
78103242 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
78103279 TGCTCAATCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.57
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:78108670 original size:18 final size:19
Alignment explanation
Indices: 78108649--78108690 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
78108639 GATACAGTTT
78108649 CAGATTCAGAAT-CAAAAC
1 CAGATTCAGAATACAAAAC
* *
78108667 CAGATTCAGATTACAAAAG
1 CAGATTCAGAATACAAAAC
78108686 CAGAT
1 CAGAT
78108691 ATGCATATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.48, C:0.19, G:0.14, T:0.19
Consensus pattern (19 bp):
CAGATTCAGAATACAAAAC
Found at i:78117395 original size:20 final size:20
Alignment explanation
Indices: 78117372--78117416 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
78117362 AAAAAAATTT
78117372 AAAATAAATTTCAAATTTTC
1 AAAATAAATTTCAAATTTTC
* *
78117392 AAAAT-AATTTTAAATTTTT
1 AAAATAAATTTCAAATTTTC
78117411 AAAATA
1 AAAATA
78117417 TTTATAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.42
Consensus pattern (20 bp):
AAAATAAATTTCAAATTTTC
Found at i:78141361 original size:131 final size:131
Alignment explanation
Indices: 78141120--78141369 Score: 401
Period size: 131 Copynumber: 1.9 Consensus size: 131
78141110 TATTAATTCA
* * * *
78141120 AAAATCCTTCAAAACGAAGGCGAGATTCGATGGTTGGTAATTCGCGGAATCGTGCCCTAACGTGT
1 AAAATCCTTCAAAACGAAGACAAGATTCGATAGTTAGTAATTCGCGGAATCGTGCCCTAACGTGT
* * *
78141185 TGGGTTGCAATTTCGCGTTTGCTCGAAATAATCGAATATCACTTCAAAATTTCACTCATGTCTTT
66 TGGGTTGCAATTTCGCATTTACTCAAAATAATCGAATATCACTTCAAAATTTCACTCATGTCTTT
78141250 T
131 T
* *
78141251 AAAATTCTTCAAAACGAAGACAAGATTCGATATTTAGTAATTCGCGGAATCGTGCCCTAACGTGT
1 AAAATCCTTCAAAACGAAGACAAGATTCGATAGTTAGTAATTCGCGGAATCGTGCCCTAACGTGT
* *
78141316 TGGGTTGCAATTTCGCATTTACTCAAAATAATCGAGTATCCCTTCAAAATTTCA
66 TGGGTTGCAATTTCGCATTTACTCAAAATAATCGAATATCACTTCAAAATTTCA
78141370 TTTATTTAAA
Statistics
Matches: 108, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
131 108 1.00
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (131 bp):
AAAATCCTTCAAAACGAAGACAAGATTCGATAGTTAGTAATTCGCGGAATCGTGCCCTAACGTGT
TGGGTTGCAATTTCGCATTTACTCAAAATAATCGAATATCACTTCAAAATTTCACTCATGTCTTT
T
Found at i:78146818 original size:32 final size:32
Alignment explanation
Indices: 78146770--78146844 Score: 114
Period size: 32 Copynumber: 2.3 Consensus size: 32
78146760 ACATTATACC
* *
78146770 ATAATTGGATACAAATAAATAATCAATTAAAT
1 ATAATTGAATAAAAATAAATAATCAATTAAAT
78146802 ATAATTGAATAAAAATAAATAATCAATTAAAT
1 ATAATTGAATAAAAATAAATAATCAATTAAAT
78146834 ACTTAATTGAA
1 A--TAATTGAA
78146845 AATAGTAAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
32 31 0.79
34 8 0.21
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.32
Consensus pattern (32 bp):
ATAATTGAATAAAAATAAATAATCAATTAAAT
Found at i:78147103 original size:7 final size:7
Alignment explanation
Indices: 78147087--78147119 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
78147077 TTTCGCATTT
78147087 AAGCCAAA
1 AAGCC-AA
78147095 AAGCCAA
1 AAGCCAA
78147102 AAGCCAA
1 AAGCCAA
78147109 AAGCCAA
1 AAGCCAA
78147116 AAGC
1 AAGC
78147120 AGAAAAAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 20 0.80
8 5 0.20
ACGTcount: A:0.58, C:0.27, G:0.15, T:0.00
Consensus pattern (7 bp):
AAGCCAA
Found at i:78151994 original size:19 final size:18
Alignment explanation
Indices: 78151972--78152016 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
78151962 TTAAAAGTTA
78151972 ATTATTTTAAATATAATTT
1 ATTATTTT-AATATAATTT
* *
78151991 ATTATATTTATTATTATTT
1 ATTAT-TTTAATATAATTT
78152010 ATTATTT
1 ATTATTT
78152017 ATCATTATCG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 2 0.09
19 18 0.78
20 3 0.13
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
ATTATTTTAATATAATTT
Found at i:78152008 original size:10 final size:10
Alignment explanation
Indices: 78151987--78152015 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
78151977 TTTAAATATA
78151987 ATTTATTA-T
1 ATTTATTATT
78151996 ATTTATTATT
1 ATTTATTATT
78152006 ATTTATTATT
1 ATTTATTATT
78152016 TATCATTATC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 8 0.42
10 11 0.58
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
ATTTATTATT
Found at i:78152828 original size:25 final size:25
Alignment explanation
Indices: 78152781--78152829 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
78152771 AATACCCTTT
78152781 TTTTTAAAAAAAAGAAAGTGCTCAAA
1 TTTTTAAAAAAAAGAAAG-GCTCAAA
*
78152807 TTTTTAAATAAAAGACAA-GCTCA
1 TTTTTAAAAAAAAGA-AAGGCTCA
78152830 TAATCGGGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 5 0.24
26 14 0.67
27 2 0.10
ACGTcount: A:0.51, C:0.10, G:0.10, T:0.29
Consensus pattern (25 bp):
TTTTTAAAAAAAAGAAAGGCTCAAA
Found at i:78153961 original size:15 final size:17
Alignment explanation
Indices: 78153933--78153967 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
78153923 AAATTTAAGA
78153933 AAAATCCTGAATAA-AT
1 AAAATCCTGAATAACAT
78153949 AAAATCC-GAATAACAT
1 AAAATCCTGAATAACAT
78153965 AAA
1 AAA
78153968 TAAAAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.60, C:0.14, G:0.06, T:0.20
Consensus pattern (17 bp):
AAAATCCTGAATAACAT
Found at i:78154406 original size:26 final size:26
Alignment explanation
Indices: 78154358--78154407 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
78154348 ATAATTCAAA
*
78154358 ATATTTTTATAAAAATTTCAAAATTT
1 ATATTTTTATAAAAATTTAAAAATTT
*
78154384 ATATTTTT-TTAAAATTATAAAAAT
1 ATATTTTTATAAAAATT-TAAAAAT
78154408 AAAAATAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (26 bp):
ATATTTTTATAAAAATTTAAAAATTT
Found at i:78154701 original size:24 final size:24
Alignment explanation
Indices: 78154674--78154722 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
78154664 TTTTGTTATG
78154674 AAATTTTCTTAGTTATCAATTTTT
1 AAATTTTCTTAGTTATCAATTTTT
*
78154698 AAATTTTCTTAGTTATTAATTTTT
1 AAATTTTCTTAGTTATCAATTTTT
78154722 A
1 A
78154723 TAGTAATCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.59
Consensus pattern (24 bp):
AAATTTTCTTAGTTATCAATTTTT
Found at i:78156964 original size:29 final size:29
Alignment explanation
Indices: 78156931--78156989 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
78156921 ATGAAAGAAT
78156931 TTTGCATCCATATTCTAACAAAATTGACG
1 TTTGCATCCATATTCTAACAAAATTGACG
78156960 TTTGCATCCATATTCTAACAAAATTGACG
1 TTTGCATCCATATTCTAACAAAATTGACG
78156989 T
1 T
78156990 ATGTATACAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.36
Consensus pattern (29 bp):
TTTGCATCCATATTCTAACAAAATTGACG
Found at i:78159727 original size:19 final size:18
Alignment explanation
Indices: 78159695--78159730 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
78159685 ATATTTCAAA
*
78159695 TTTTTTTTCTTTTTTAAG
1 TTTTTTTTATTTTTTAAG
78159713 TTTTTTTTATATTTTTAA
1 TTTTTTTTAT-TTTTTAA
78159731 TATTATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.78
Consensus pattern (18 bp):
TTTTTTTTATTTTTTAAG
Found at i:78169604 original size:73 final size:73
Alignment explanation
Indices: 78169485--78169632 Score: 278
Period size: 73 Copynumber: 2.0 Consensus size: 73
78169475 GTTGGATGTG
* *
78169485 TTGCTTTGTCCAAGTAGACCGTCGTTGGAGACGTGAACCTCTCTCGTCTACTATCGGGCACGACG
1 TTGCTTTGTCCAAGCAGACCGTCGTTGGAGACGTAAACCTCTCTCGTCTACTATCGGGCACGACG
78169550 GCAAGATT
66 GCAAGATT
78169558 TTGCTTTGTCCAAGCAGACCGTCGTTGGAGACGTAAACCTCTCTCGTCTACTATCGGGCACGACG
1 TTGCTTTGTCCAAGCAGACCGTCGTTGGAGACGTAAACCTCTCTCGTCTACTATCGGGCACGACG
78169623 GCAAGATT
66 GCAAGATT
78169631 TT
1 TT
78169633 TTTTACTCTA
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.21, C:0.26, G:0.25, T:0.28
Consensus pattern (73 bp):
TTGCTTTGTCCAAGCAGACCGTCGTTGGAGACGTAAACCTCTCTCGTCTACTATCGGGCACGACG
GCAAGATT
Found at i:78171073 original size:36 final size:36
Alignment explanation
Indices: 78171016--78171100 Score: 95
Period size: 36 Copynumber: 2.4 Consensus size: 36
78171006 ATATAAAATC
78171016 TTAATAAATAA-AAAATTATAATTATTAAAAAT-TAAA
1 TTAA-AAATAATAAAATTATAATT-TTAAAAATATAAA
* *
78171052 TTAAAAATAATATAAA-TATAATTTTTAAAATATATA
1 TTAAAAATAATA-AAATTATAATTTTAAAAATATAAA
*
78171088 TTAAAATTAATAA
1 TTAAAAATAATAA
78171101 GTCTAAAATT
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
35 14 0.33
36 26 0.60
37 3 0.07
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (36 bp):
TTAAAAATAATAAAATTATAATTTTAAAAATATAAA
Found at i:78178594 original size:20 final size:20
Alignment explanation
Indices: 78178569--78178608 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
78178559 ACACAAATCC
*
78178569 TTACC-ACTTTCTATTCTCTA
1 TTACCAACTTCCT-TTCTCTA
78178589 TTACCAACTTCCTTTCTCTA
1 TTACCAACTTCCTTTCTCTA
78178609 AAAAAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.20, C:0.33, G:0.00, T:0.47
Consensus pattern (20 bp):
TTACCAACTTCCTTTCTCTA
Found at i:78184343 original size:20 final size:20
Alignment explanation
Indices: 78184318--78184355 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
78184308 TATAGTTTTG
78184318 AGTTTAAAGTTCGAGATTCA
1 AGTTTAAAGTTCGAGATTCA
* *
78184338 AGTTTAGAGTTTGAGATT
1 AGTTTAAAGTTCGAGATT
78184356 GAAATTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.05, G:0.24, T:0.39
Consensus pattern (20 bp):
AGTTTAAAGTTCGAGATTCA
Found at i:78184403 original size:20 final size:21
Alignment explanation
Indices: 78184358--78184410 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 21
78184348 TTGAGATTGA
78184358 AATTAAAAAAATTATATATCAAT
1 AATT-AAAAAATTATATA-CAAT
78184381 AATATAAAAAATTAT-TA-AAT
1 AAT-TAAAAAATTATATACAAT
78184401 AATTAAAAAA
1 AATTAAAAAA
78184411 GAATACAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
19 7 0.24
20 6 0.21
22 2 0.07
23 13 0.45
24 1 0.03
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (21 bp):
AATTAAAAAATTATATACAAT
Found at i:78184664 original size:15 final size:15
Alignment explanation
Indices: 78184644--78184674 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
78184634 TTTTTTTATC
78184644 AATTTATAAAGTAAA
1 AATTTATAAAGTAAA
*
78184659 AATTTATAAATTAAA
1 AATTTATAAAGTAAA
78184674 A
1 A
78184675 TATACTCTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.35
Consensus pattern (15 bp):
AATTTATAAAGTAAA
Found at i:78188939 original size:17 final size:17
Alignment explanation
Indices: 78188913--78188948 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
78188903 TTCTAATGTA
* *
78188913 TTGTTTCAATCAAGTCT
1 TTGTTACAATCAAATCT
78188930 TTGTTACAATCAAATCT
1 TTGTTACAATCAAATCT
78188947 TT
1 TT
78188949 TCAGCTGTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.28, C:0.17, G:0.08, T:0.47
Consensus pattern (17 bp):
TTGTTACAATCAAATCT
Found at i:78196414 original size:27 final size:27
Alignment explanation
Indices: 78196373--78196697 Score: 551
Period size: 27 Copynumber: 12.0 Consensus size: 27
78196363 AAATCAGAAG
** *
78196373 AGAAATCTAAAGCTACCGAGTCGAGCA
1 AGAAATCTACTGCTACTGAGTCGAGCA
78196400 AGAAATCTACTGCTACTGAGTCGAGCA
1 AGAAATCTACTGCTACTGAGTCGAGCA
*
78196427 AGAAATCTACTGCTACTGAGTTGAGCA
1 AGAAATCTACTGCTACTGAGTCGAGCA
78196454 AGAAATCTACTGCTACTGAGTCGAGCA
1 AGAAATCTACTGCTACTGAGTCGAGCA
*
78196481 AGAAATCTACTGCTATTGAGTCGAGCA
1 AGAAATCTACTGCTACTGAGTCGAGCA
78196508 AGAAATCTACTGCTACTGAGTCGAGCA
1 AGAAATCTACTGCTACTGAGTCGAGCA
*
78196535 AGAAATCTACTGCTACTGAGTCGAGAA
1 AGAAATCTACTGCTACTGAGTCGAGCA
*
78196562 AGAAATCTAGTGCTACTGAGTCGAGCA
1 AGAAATCTACTGCTACTGAGTCGAGCA
78196589 AGAAATCTACTGCTACTGAGTCGAGCA
1 AGAAATCTACTGCTACTGAGTCGAGCA
* *
78196616 AGAAACCTACTGCTACTGAGTCAAGCA
1 AGAAATCTACTGCTACTGAGTCGAGCA
*
78196643 AGAAATCTACTGCTACTGAGTCAAGCA
1 AGAAATCTACTGCTACTGAGTCGAGCA
*
78196670 AGAAATCTACTGGTACTGAGTCGAGCA
1 AGAAATCTACTGCTACTGAGTCGAGCA
78196697 A
1 A
78196698 TAATTTGACC
Statistics
Matches: 282, Mismatches: 16, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 282 1.00
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.22
Consensus pattern (27 bp):
AGAAATCTACTGCTACTGAGTCGAGCA
Found at i:78198805 original size:51 final size:51
Alignment explanation
Indices: 78198728--78198871 Score: 189
Period size: 51 Copynumber: 2.8 Consensus size: 51
78198718 GTCTCGGTTT
* * * *
78198728 CCAATGGTTTAAAGAAGAACCCAGGAGAGAAGCGTGCACCTAGGAGAAGCG
1 CCAATGGTTTAAAGCAGAACCCAGGAGAGAAGCATACACCTAAGAGAAGCG
* * *
78198779 CCAATGGTTTAAAGCAGAACCGAGGAGAGCAGCATACACCTAAGAGAAGTG
1 CCAATGGTTTAAAGCAGAACCCAGGAGAGAAGCATACACCTAAGAGAAGCG
* * * *
78198830 CCAATGGTTTAAAGCAGAAACCAGAAGAGGATCATACACCTA
1 CCAATGGTTTAAAGCAGAACCCAGGAGAGAAGCATACACCTA
78198872 GAAGATGCAC
Statistics
Matches: 81, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 81 1.00
ACGTcount: A:0.40, C:0.20, G:0.26, T:0.14
Consensus pattern (51 bp):
CCAATGGTTTAAAGCAGAACCCAGGAGAGAAGCATACACCTAAGAGAAGCG
Found at i:78198975 original size:33 final size:33
Alignment explanation
Indices: 78198915--78198977 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
78198905 GTACTGCTAG
*
78198915 ATCACCTGCTAAATTACCCAAAGCCACTCCTAA
1 ATCACCTGCTAAATTACCCAAACCCACTCCTAA
**
78198948 ATCACCTGCTAAATTACCGGAACCCACTCC
1 ATCACCTGCTAAATTACCCAAACCCACTCC
78198978 CACACCTGGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.33, C:0.38, G:0.08, T:0.21
Consensus pattern (33 bp):
ATCACCTGCTAAATTACCCAAACCCACTCCTAA
Found at i:78202225 original size:21 final size:21
Alignment explanation
Indices: 78202199--78202255 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 21
78202189 GATACCAAGT
78202199 AAGGTATCGATACTTTTGTGA
1 AAGGTATCGATACTTTTGTGA
* *
78202220 AAGGTA-CTAATAC-TTTGTTA
1 AAGGTATC-GATACTTTTGTGA
*
78202240 AGGGTATCGATACTTT
1 AAGGTATCGATACTTT
78202256 ATTTAGATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
20 16 0.55
21 13 0.45
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.39
Consensus pattern (21 bp):
AAGGTATCGATACTTTTGTGA
Found at i:78207227 original size:39 final size:41
Alignment explanation
Indices: 78207184--78207271 Score: 99
Period size: 43 Copynumber: 2.1 Consensus size: 41
78207174 TAAAAAAATA
* *
78207184 AAATA-TATTAT-TAAAACTAGATCAATGGATTAATTGTCT
1 AAATACTATTATCTAAAACTAGATCAATAGATTAATCGTCT
* * *
78207223 AAATACTTTTTTTCGTAAAACTAGATCAATAGATTAGTCGTCT
1 AAATAC-TATTATC-TAAAACTAGATCAATAGATTAATCGTCT
78207266 AAATAC
1 AAATAC
78207272 ATTTTTGATA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
39 5 0.12
41 4 0.10
43 31 0.77
ACGTcount: A:0.41, C:0.11, G:0.10, T:0.38
Consensus pattern (41 bp):
AAATACTATTATCTAAAACTAGATCAATAGATTAATCGTCT
Found at i:78207243 original size:43 final size:43
Alignment explanation
Indices: 78207195--78207277 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 43
78207185 AATATATTAT
* * *
78207195 TAAAACTAGATCAATGGATTAATTGTCTAAATACTTTTTTTCG
1 TAAAACTAGATCAATAGATTAATCGTCTAAATACATTTTTTCG
*
78207238 TAAAACTAGATCAATAGATTAGTCGTCTAAATACATTTTT
1 TAAAACTAGATCAATAGATTAATCGTCTAAATACATTTTT
78207278 GATAAGTCAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.40
Consensus pattern (43 bp):
TAAAACTAGATCAATAGATTAATCGTCTAAATACATTTTTTCG
Found at i:78207774 original size:16 final size:15
Alignment explanation
Indices: 78207755--78207796 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
78207745 ACATCCATCT
78207755 TTTTTTTAAAAAAGAA
1 TTTTTTTAAAAAA-AA
78207771 TTTTTCTTAAAAAAAA
1 TTTTT-TTAAAAAAAA
*
78207787 TTATTTTAAA
1 TTTTTTTAAA
78207797 TTATATCACA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 5 0.21
16 11 0.46
17 8 0.33
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (15 bp):
TTTTTTTAAAAAAAA
Found at i:78207774 original size:17 final size:16
Alignment explanation
Indices: 78207754--78207793 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
78207744 AACATCCATC
78207754 TTTTTTTTAAAAAAGAA
1 TTTTTTTTAAAAAA-AA
*
78207771 TTTTTCTTAAAAAAAA
1 TTTTTTTTAAAAAAAA
78207787 TTATTTT
1 TT-TTTT
78207794 AAATTATATC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (16 bp):
TTTTTTTTAAAAAAAA
Done.