Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold106
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: 4928209
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 8888 characters in sequence are not A, C, G, or T
File 5 of 27
Found at i:608323 original size:35 final size:31
Alignment explanation
Indices: 608261--608348 Score: 88
Period size: 34 Copynumber: 2.6 Consensus size: 31
608251 TTTAAAATAT
608261 TTATATTATA-TTAATATTATTTTTTATATTTTA
1 TTATATTATATTTAAT-TT-TTTTTTATA-TTTA
608294 TTATATTATATTTTAATTTTTTATGTTATATTTA
1 TTATATTATA-TTTAATTTTTT-T-TTATATTTA
* *
608328 ATATTATTATATCTAATTTTT
1 TTA-TATTATATTTAATTTTT
608349 GTGGGGAGTT
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
33 13 0.27
34 18 0.38
35 17 0.35
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.66
Consensus pattern (31 bp):
TTATATTATATTTAATTTTTTTTTATATTTA
Found at i:612202 original size:2 final size:2
Alignment explanation
Indices: 612195--612229 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
612185 ATGTGATAAT
612195 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
612230 TTTCAAATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:612984 original size:16 final size:16
Alignment explanation
Indices: 612963--612998 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
612953 TTTCACATCC
* *
612963 ATTAATATTTATTATA
1 ATTAATATTCATTACA
612979 ATTAATATTCATTACA
1 ATTAATATTCATTACA
612995 ATTA
1 ATTA
612999 TAATTACTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTAATATTCATTACA
Found at i:617034 original size:23 final size:23
Alignment explanation
Indices: 617004--617051 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
616994 ATTCTTGCTG
617004 TCATTTGACAATGAGAAATCCTT
1 TCATTTGACAATGAGAAATCCTT
*
617027 TCATTTGACAGTGAGAAATCCTT
1 TCATTTGACAATGAGAAATCCTT
617050 TC
1 TC
617052 TCCAAGTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (23 bp):
TCATTTGACAATGAGAAATCCTT
Found at i:617681 original size:27 final size:26
Alignment explanation
Indices: 617634--617694 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
617624 AAGGGGTTAT
617634 TTAA-TTATCAATAACTGAATAAATTA
1 TTAATTTATCAATAACTGAAT-AATTA
* * * *
617660 TTCATTTATCAATAAGTTAATATTTA
1 TTAATTTATCAATAACTGAATAATTA
617686 TTAATTTAT
1 TTAATTTAT
617695 AAAAAATTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
26 15 0.52
27 14 0.48
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.48
Consensus pattern (26 bp):
TTAATTTATCAATAACTGAATAATTA
Found at i:622516 original size:31 final size:31
Alignment explanation
Indices: 622480--622574 Score: 138
Period size: 31 Copynumber: 3.1 Consensus size: 31
622470 GCCATTTACT
*
622480 TTGCAGTATAGTTTAAGCTATGCTATGTAG-
1 TTGCAGTATAGTTTAAGTTATGCTATGTAGC
*
622510 TGTGCAGTATAGTTTAAGTTATGCTATTTAGC
1 T-TGCAGTATAGTTTAAGTTATGCTATGTAGC
* *
622542 TTGCAGTATAGTTTAATTTATGCTATTTAGC
1 TTGCAGTATAGTTTAAGTTATGCTATGTAGC
622573 TT
1 TT
622575 ACGGTATGCT
Statistics
Matches: 60, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
30 1 0.02
31 58 0.97
32 1 0.02
ACGTcount: A:0.25, C:0.09, G:0.20, T:0.45
Consensus pattern (31 bp):
TTGCAGTATAGTTTAAGTTATGCTATGTAGC
Found at i:622591 original size:31 final size:31
Alignment explanation
Indices: 622514--622591 Score: 77
Period size: 31 Copynumber: 2.5 Consensus size: 31
622504 ATGTAGTGTG
** * *
622514 CAGTATAGTTTAAGTTATGCTATTTAGCTTG
1 CAGTATAGTAAAATTTATGCTATTTAGCTTA
**
622545 CAGTATAGTTTAATTTATGCTATTTAGCTTA
1 CAGTATAGTAAAATTTATGCTATTTAGCTTA
*
622576 CGGTAT-GCTAAAATTT
1 CAGTATAG-TAAAATTT
622592 GATCCAATGT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
30 1 0.02
31 40 0.98
ACGTcount: A:0.28, C:0.10, G:0.17, T:0.45
Consensus pattern (31 bp):
CAGTATAGTAAAATTTATGCTATTTAGCTTA
Found at i:630047 original size:42 final size:42
Alignment explanation
Indices: 629996--630080 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
629986 GGATGATTAT
*
629996 ATGAGCTAACTGATTTAAGCTCAGAGTTCAAATCGATTAGAA
1 ATGAGCTAACTGATTTAAGCTCAGAGTTCAAATCGATAAGAA
630038 ATGAGCTAACTGATTTAAGCTCAGAGTTCAAATCGATAAGAA
1 ATGAGCTAACTGATTTAAGCTCAGAGTTCAAATCGATAAGAA
630080 A
1 A
630081 CTAGTACTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.27
Consensus pattern (42 bp):
ATGAGCTAACTGATTTAAGCTCAGAGTTCAAATCGATAAGAA
Found at i:631437 original size:2 final size:2
Alignment explanation
Indices: 631430--631464 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
631420 TACCTTTCCT
631430 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
631465 GTGGCCTGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:631683 original size:2 final size:2
Alignment explanation
Indices: 631676--631706 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
631666 GAACTTGTTA
631676 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
631707 CAAAAAGATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:632224 original size:2 final size:2
Alignment explanation
Indices: 632217--632248 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
632207 CTGCTAAAGA
632217 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
632249 TTGTTATGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:633258 original size:15 final size:15
Alignment explanation
Indices: 633238--633266 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
633228 AATAAAAAGT
633238 AATCTAAACTTAAAC
1 AATCTAAACTTAAAC
633253 AATCTAAACTTAAA
1 AATCTAAACTTAAA
633267 TCTGATCTGA
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:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (15 bp):
AATCTAAACTTAAAC
Found at i:633527 original size:2 final size:2
Alignment explanation
Indices: 633520--633547 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
633510 TCACTTTAGC
633520 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
633548 TTGGGTTGGG
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:634135 original size:18 final size:19
Alignment explanation
Indices: 634114--634149 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
634104 AATAACAAAA
634114 TAAAAA-CAAAACAAAACC
1 TAAAAACCAAAACAAAACC
*
634132 TAAAAACCAAGACAAAAC
1 TAAAAACCAAAACAAAAC
634150 GGGTAACACC
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:0.69, C:0.22, G:0.03, T:0.06
Consensus pattern (19 bp):
TAAAAACCAAAACAAAACC
Found at i:648600 original size:32 final size:32
Alignment explanation
Indices: 648555--648618 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
648545 GGAAGGGCAA
648555 TAATTTTTATATATTTATTAATAATAGTTTAT
1 TAATTTTTATATATTTATTAATAATAGTTTAT
*
648587 TAATTTTTTTATATTTATTAATAATAGTTTAT
1 TAATTTTTATATATTTATTAATAATAGTTTAT
648619 AATCAAATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (32 bp):
TAATTTTTATATATTTATTAATAATAGTTTAT
Found at i:648871 original size:3 final size:3
Alignment explanation
Indices: 648863--648900 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
648853 ATAAAGAAAT
*
648863 TTA TTA TTA TTA CTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
648901 CAATCTATAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:649395 original size:2 final size:2
Alignment explanation
Indices: 649388--649419 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
649378 ATTCATCTTT
649388 TA TA TA 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 TA TA TA
649420 CACACCAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:649927 original size:25 final size:25
Alignment explanation
Indices: 649902--649950 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
649892 TAATTATATT
649902 AATTAAAA-TATATAAATTTTTAATTA
1 AATTAAAATTA-AT-AATTTTTAATTA
*
649928 AATTAATATTAATAATTTTTAAT
1 AATTAAAATTAATAATTTTTAAT
649951 ATCATTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 10 0.48
26 9 0.43
27 2 0.10
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
AATTAAAATTAATAATTTTTAATTA
Found at i:650100 original size:16 final size:16
Alignment explanation
Indices: 650079--650157 Score: 53
Period size: 16 Copynumber: 5.2 Consensus size: 16
650069 GATGAATTAT
650079 ATTTAATTATTTATAA
1 ATTTAATTATTTATAA
**
650095 ATTTAA-TAAATATTAA
1 ATTTAATTATTTA-TAA
**
650111 ATAAAATTATTTATAA
1 ATTTAATTATTTATAA
*
650127 A--TAAATA-TTA-AA
1 ATTTAATTATTTATAA
*
650139 AATT-ATTATTTATAA
1 ATTTAATTATTTATAA
650154 ATTT
1 ATTT
650158 GATAAATACT
Statistics
Matches: 47, Mismatches: 10, Indels: 13
0.67 0.14 0.19
Matches are distributed among these distances:
12 3 0.06
13 6 0.13
14 8 0.17
15 9 0.19
16 17 0.36
17 4 0.09
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATTTAATTATTTATAA
Found at i:650121 original size:32 final size:32
Alignment explanation
Indices: 650082--650173 Score: 106
Period size: 27 Copynumber: 3.0 Consensus size: 32
650072 GAATTATATT
650082 TAATTATTTATAAATTTAATAAATATTAAATAA
1 TAATTATTTATAAATTTAATAAATATTAAA-AA
650115 -AATTATTTAT--A---AATAAATATTAAAAA
1 TAATTATTTATAAATTTAATAAATATTAAAAA
* *
650141 TTATTATTTATAAATTTGATAAATACTTAAAAA
1 TAATTATTTATAAATTTAATAAATA-TTAAAAA
650174 GTTTAGGATT
Statistics
Matches: 50, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
26 2 0.04
27 22 0.44
29 1 0.02
30 1 0.02
32 17 0.34
33 7 0.14
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (32 bp):
TAATTATTTATAAATTTAATAAATATTAAAAA
Found at i:650488 original size:25 final size:25
Alignment explanation
Indices: 650460--650510 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
650450 TAATACATAT
650460 TAACTAATTTAATCACACAGTATAG
1 TAACTAATTTAATCACACAGTATAG
* *
650485 TAACTAATTTAATCAGACATTATAG
1 TAACTAATTTAATCACACAGTATAG
650510 T
1 T
650511 CAAAACATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.43, C:0.14, G:0.08, T:0.35
Consensus pattern (25 bp):
TAACTAATTTAATCACACAGTATAG
Found at i:656161 original size:4 final size:4
Alignment explanation
Indices: 656154--656194 Score: 54
Period size: 4 Copynumber: 11.2 Consensus size: 4
656144 TTATATATAC
656154 ACAT ACAT ACAT ACAT ACAT --AT ACAT ACAT --AT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
656195 TATATATATA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
2 4 0.12
4 29 0.88
ACGTcount: A:0.51, C:0.22, G:0.00, T:0.27
Consensus pattern (4 bp):
ACAT
Found at i:656177 original size:14 final size:14
Alignment explanation
Indices: 656150--656200 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
656140 CATGTTATAT
*
656150 ATACACATACATAC
1 ATACATATACATAC
* *
656164 ATACATACATATAC
1 ATACATATACATAC
656178 ATACATATACATAC
1 ATACATATACATAC
*
656192 ATATATATA
1 ATACATATA
656201 TATATATATA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.51, C:0.20, G:0.00, T:0.29
Consensus pattern (14 bp):
ATACATATACATAC
Found at i:656210 original size:10 final size:10
Alignment explanation
Indices: 656145--656206 Score: 74
Period size: 10 Copynumber: 6.4 Consensus size: 10
656135 TTGTACATGT
*
656145 TATATATACA
1 TATACATACA
*
656155 CATACATAC-
1 TATACATACA
656164 -ATACATACA
1 TATACATACA
656173 TATACATACA
1 TATACATACA
656183 TATACATACA
1 TATACATACA
* *
656193 TATATATATA
1 TATACATACA
656203 TATA
1 TATA
656207 TATAAAGGTT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
8 8 0.17
10 38 0.83
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (10 bp):
TATACATACA
Found at i:656728 original size:3 final size:3
Alignment explanation
Indices: 656720--656754 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
656710 TGTCTATTCA
656720 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
656755 AACCAGCGTA
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:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:657489 original size:2 final size:2
Alignment explanation
Indices: 657482--657511 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
657472 TCTTACATAC
657482 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
657512 GTCATTGATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:659531 original size:10 final size:10
Alignment explanation
Indices: 659516--659556 Score: 57
Period size: 10 Copynumber: 4.0 Consensus size: 10
659506 TTCCTCTTTC
659516 TTTCTTTTTT
1 TTTCTTTTTT
659526 TTTCTTTTTT
1 TTTCTTTTTT
659536 TTTCTCCTTTTT
1 TTTCT--TTTTT
659548 TTT-TTTTTT
1 TTTCTTTTTT
659557 AGTGACGGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
9 5 0.17
10 15 0.52
11 1 0.03
12 8 0.28
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (10 bp):
TTTCTTTTTT
Found at i:660026 original size:29 final size:30
Alignment explanation
Indices: 659987--660044 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
659977 CCTTGATGTG
659987 AAAATAAATTATTAAAATAATATAATTTTT
1 AAAATAAATTATTAAAATAATATAATTTTT
* *
660017 AAAA-AAATTATTAAAATATTATTATTTT
1 AAAATAAATTATTAAAATAATATAATTTT
660045 ACCAAGGAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (30 bp):
AAAATAAATTATTAAAATAATATAATTTTT
Found at i:660773 original size:3 final size:3
Alignment explanation
Indices: 660765--660806 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
660755 AGCCCCACCA
*
660765 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TAC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
660807 GCCGCCAACA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.64
Consensus pattern (3 bp):
TTC
Found at i:666458 original size:24 final size:23
Alignment explanation
Indices: 666415--666459 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
666405 TGAGTTATGT
*
666415 TATTTGATTTTTAATTTATTTGA
1 TATTTGATTTTTAATGTATTTGA
666438 TATTTG-TATTTTATATGTATTT
1 TATTTGAT-TTTTA-ATGTATTT
666460 AAATAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 1 0.05
23 11 0.58
24 7 0.37
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.67
Consensus pattern (23 bp):
TATTTGATTTTTAATGTATTTGA
Found at i:672286 original size:22 final size:23
Alignment explanation
Indices: 672260--672310 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 23
672250 ATTTATTATT
*
672260 ATATAATTTTATAT-TATATTAA
1 ATATAATTTTAAATATATATTAA
*
672282 ATATAA-TTTAAATATATATTCA
1 ATATAATTTTAAATATATATTAA
672304 ATATAAT
1 ATATAAT
672311 ATAAAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 6 0.24
22 19 0.76
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (23 bp):
ATATAATTTTAAATATATATTAA
Found at i:672315 original size:22 final size:22
Alignment explanation
Indices: 672274--672315 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
672264 AATTTTATAT
*
672274 TATATTAAATATAATTTAAATA
1 TATATTAAATATAATATAAATA
*
672296 TATATTCAATATAATATAAA
1 TATATTAAATATAATATAAA
672316 ATTTTAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
TATATTAAATATAATATAAATA
Found at i:672712 original size:5 final size:5
Alignment explanation
Indices: 672702--672728 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
672692 TCACTTGATG
672702 CATCC CATCC CATCC CATCC CATCC CA
1 CATCC CATCC CATCC CATCC CATCC CA
672729 AGGGAGTGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.22, C:0.59, G:0.00, T:0.19
Consensus pattern (5 bp):
CATCC
Found at i:673510 original size:2 final size:2
Alignment explanation
Indices: 673505--673535 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
673495 TCATACATAC
673505 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
673536 AAGCTTGGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:674945 original size:2 final size:2
Alignment explanation
Indices: 674896--674930 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
674886 CTTTTCACTT
674896 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
674931 GATTATAAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:676488 original size:27 final size:27
Alignment explanation
Indices: 676427--676497 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
676417 AAACAAGCCT
* *
676427 CCATATTTGACAAATACAAAGGAAACCA
1 CCATTTTTGACAAACACAAA-GAAACCA
*
676455 TCATTTTTGACAAACACAAA-ATAACCA
1 CCATTTTTGACAAACACAAAGA-AACCA
*
676482 CCATTTTTTACAAACA
1 CCATTTTTGACAAACA
676498 AATGGGTGGC
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
26 1 0.03
27 19 0.51
28 17 0.46
ACGTcount: A:0.46, C:0.23, G:0.06, T:0.25
Consensus pattern (27 bp):
CCATTTTTGACAAACACAAAGAAACCA
Found at i:678420 original size:21 final size:22
Alignment explanation
Indices: 678382--678427 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
678372 ATCTGTTGAA
* **
678382 ACTCCACCTGTTTTGGAGTA-T
1 ACTCCACCTGCTGCGGAGTACT
678403 ACTCCACCTGCTGCGGAGTACT
1 ACTCCACCTGCTGCGGAGTACT
678425 ACT
1 ACT
678428 TGTCTGAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (22 bp):
ACTCCACCTGCTGCGGAGTACT
Found at i:681038 original size:28 final size:28
Alignment explanation
Indices: 681006--681071 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 28
680996 AGCCTCCATA
*
681006 TTTGACAAATACA-AAAAAAATCATTATT
1 TTTGA-AAATACATAAAAAAATCACTATT
* *
681034 TTTGATAA-ACATAAAATAATCACTATT
1 TTTGAAAATACATAAAAAAATCACTATT
681061 TTTGATAAATA
1 TTTGA-AAATA
681072 AATGAGTGAC
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
26 3 0.10
27 20 0.65
28 7 0.23
29 1 0.03
ACGTcount: A:0.50, C:0.09, G:0.05, T:0.36
Consensus pattern (28 bp):
TTTGAAAATACATAAAAAAATCACTATT
Found at i:683436 original size:2 final size:2
Alignment explanation
Indices: 683429--683457 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
683419 ACAATATTTA
683429 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
683458 AAGAAGAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:686449 original size:3 final size:3
Alignment explanation
Indices: 686441--686481 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
686431 AAATATTAAT
686441 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
686482 CATGCATAAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:687837 original size:14 final size:15
Alignment explanation
Indices: 687818--687849 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
687808 TTCATCATAA
687818 AAAATTAAT-AATTT
1 AAAATTAATGAATTT
687832 AAAATTAATGAATTT
1 AAAATTAATGAATTT
687847 AAA
1 AAA
687850 TCTAAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (15 bp):
AAAATTAATGAATTT
Found at i:692577 original size:17 final size:16
Alignment explanation
Indices: 692534--692577 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
692524 AATGCAGGTG
692534 AAAATTTATATAATAT
1 AAAATTTATATAATAT
692550 -AAA-TTATTATAATATT
1 AAAATTTA-TATAATA-T
692566 AAAATTTATATA
1 AAAATTTATATA
692578 TAGCATCTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
14 3 0.12
15 10 0.42
16 1 0.04
17 7 0.29
18 3 0.12
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AAAATTTATATAATAT
Found at i:692614 original size:13 final size:14
Alignment explanation
Indices: 692590--692622 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
692580 GCATCTATAT
*
692590 ATAATTATAATAAA
1 ATAATAATAATAAA
692604 A-AATAATAATAAA
1 ATAATAATAATAAA
692617 ATAATA
1 ATAATA
692623 GAACATGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
ATAATAATAATAAA
Found at i:692930 original size:18 final size:18
Alignment explanation
Indices: 692904--692938 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
692894 TATTTATATT
*
692904 TAAAATTTTGATATTTAA
1 TAAAATTTTAATATTTAA
*
692922 TAAATTTTTAATATTTA
1 TAAAATTTTAATATTTA
692939 TAGTTATATG
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:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (18 bp):
TAAAATTTTAATATTTAA
Found at i:693345 original size:19 final size:17
Alignment explanation
Indices: 693321--693355 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
693311 TAAAATTTTA
693321 TTTTATTAATTATTTTAAG
1 TTTTATT-ATT-TTTTAAG
693340 TTTTATTATTTTTTAA
1 TTTTATTATTTTTTAA
693356 ATAAGTTAAT
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:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (17 bp):
TTTTATTATTTTTTAAG
Found at i:693430 original size:17 final size:17
Alignment explanation
Indices: 693408--693440 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
693398 TCAAATAAAA
693408 ATTTTATTTTATAAATT
1 ATTTTATTTTATAAATT
*
693425 ATTTTATTTTTTAAAT
1 ATTTTATTTTATAAAT
693441 AATATATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
ATTTTATTTTATAAATT
Found at i:698908 original size:10 final size:11
Alignment explanation
Indices: 698885--698931 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
698875 TGTATTTTTT
698885 AAATATAATAA
1 AAATATAATAA
698896 AAAT-TAATTAA
1 AAATATAA-TAA
*
698907 AAATAAAATAA
1 AAATATAATAA
*
698918 AATATATGATAA
1 AA-ATATAATAA
698930 AA
1 AA
698932 TTTTAATTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
10 3 0.10
11 16 0.53
12 11 0.37
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (11 bp):
AAATATAATAA
Found at i:699167 original size:19 final size:20
Alignment explanation
Indices: 699140--699178 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
699130 CGAATTTTAA
* *
699140 AAATTTATTTTAAT-ATTTT
1 AAATATATTTAAATAATTTT
699159 AAATATATTTAAATAATTTT
1 AAATATATTTAAATAATTTT
699179 TATAATAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
AAATATATTTAAATAATTTT
Found at i:699207 original size:24 final size:23
Alignment explanation
Indices: 699180--699234 Score: 76
Period size: 23 Copynumber: 2.3 Consensus size: 23
699170 AATAATTTTT
699180 ATAATAATATATTTT-TTAATTTAA
1 ATAATAATAT-TTTTATTAA-TTAA
*
699204 ATAAAAATATTTTTATTAATTAA
1 ATAATAATATTTTTATTAATTAA
699227 ATAATAAT
1 ATAATAAT
699235 TTAAATAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 15 0.54
24 13 0.46
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
ATAATAATATTTTTATTAATTAA
Found at i:699226 original size:23 final size:24
Alignment explanation
Indices: 699180--699230 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
699170 AATAATTTTT
*
699180 ATAATAATATATTTTTTAATTTAA
1 ATAAAAATATATTTTTTAATTTAA
699204 ATAAAAATAT-TTTTATTAA-TTAA
1 ATAAAAATATATTTT-TTAATTTAA
699227 ATAA
1 ATAA
699231 TAATTTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 12 0.48
24 13 0.52
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
ATAAAAATATATTTTTTAATTTAA
Found at i:699227 original size:19 final size:19
Alignment explanation
Indices: 699194--699251 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 19
699184 TAATATATTT
* *
699194 TTTAATTTAAATAAAAATAT
1 TTTAA-TTAATTAAAAATAA
*
699214 TTTTATTAATTAAATAATAA
1 TTTAATTAATTAAA-AATAA
* *
699234 TTTAAATAATAAAAAATA
1 TTTAATTAATTAAAAATA
699252 GAAAGTAATG
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
19 12 0.39
20 19 0.61
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
TTTAATTAATTAAAAATAA
Found at i:699533 original size:28 final size:29
Alignment explanation
Indices: 699499--699567 Score: 97
Period size: 28 Copynumber: 2.4 Consensus size: 29
699489 CTTATATAGC
699499 ATTTAAATTAAATATTAATA-TTAATTTAT
1 ATTTAAA-TAAATATTAATATTTAATTTAT
* *
699528 A-TTAAATATATTTTAATATTTAATTTAT
1 ATTTAAATAAATATTAATATTTAATTTAT
699556 ATTTAAATAAAT
1 ATTTAAATAAAT
699568 TATATTTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 10 0.29
28 15 0.43
29 10 0.29
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (29 bp):
ATTTAAATAAATATTAATATTTAATTTAT
Found at i:699547 original size:33 final size:34
Alignment explanation
Indices: 699509--699574 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
699499 ATTTAAATTA
*
699509 AATA-TTAATATTA-ATTTATATTAAA-TATATTTT
1 AATATTTAAT-TTATATTTA-AATAAATTATATTTT
699542 AATATTTAATTTATATTTAAATAAATTATATTT
1 AATATTTAATTTATATTTAAATAAATTATATTT
699575 AAAATTTTAC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
33 12 0.41
34 17 0.59
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (34 bp):
AATATTTAATTTATATTTAAATAAATTATATTTT
Found at i:701562 original size:20 final size:22
Alignment explanation
Indices: 701537--701577 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
701527 ATGTTCTTAA
701537 TAAATATAA-T-ATATAATATT
1 TAAATATAATTAATATAATATT
701557 TAAATATAATTAATATAATAT
1 TAAATATAATTAATATAATAT
701578 AATATATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.47
21 1 0.05
22 9 0.47
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
TAAATATAATTAATATAATATT
Found at i:702687 original size:28 final size:29
Alignment explanation
Indices: 702614--702688 Score: 82
Period size: 28 Copynumber: 2.5 Consensus size: 29
702604 AATCTGATGA
*
702614 TTTATATATATATATATATTATGTTTTAATAT
1 TTTATA-AT-TATATA-ATTATGATTTAATAT
*
702646 TTTAT-TTTATTATAATTAT-ATTTAATAT
1 TTTATAATTA-TATAATTATGATTTAATAT
702674 TTTATAATTATATAA
1 TTTATAATTATATAA
702689 AATTTATATG
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
28 18 0.47
29 10 0.26
30 5 0.13
32 5 0.13
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (29 bp):
TTTATAATTATATAATTATGATTTAATAT
Found at i:702693 original size:18 final size:19
Alignment explanation
Indices: 702655--702693 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
702645 TTTTATTTTA
*
702655 TTATAATTATATTTAATATT
1 TTATAATTATA-TTAAAATT
702675 TTATAATTATA-TAAAATT
1 TTATAATTATATTAAAATT
702693 T
1 T
702694 ATATGTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
20 11 0.61
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TTATAATTATATTAAAATT
Found at i:702879 original size:8 final size:8
Alignment explanation
Indices: 702866--702893 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
702856 AAATTATCGT
702866 AAAAAATA
1 AAAAAATA
702874 AAAAAATA
1 AAAAAATA
702882 AAAAAATA
1 AAAAAATA
702890 AAAA
1 AAAA
702894 TTTAAATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAAAATA
Found at i:702883 original size:15 final size:15
Alignment explanation
Indices: 702865--702932 Score: 55
Period size: 16 Copynumber: 4.3 Consensus size: 15
702855 AAAATTATCG
702865 TAAAAAATAAAAAAA
1 TAAAAAATAAAAAAA
**
702880 TAAAAAAATAAAAATT
1 T-AAAAAATAAAAAAA
* * **
702896 TAAATAATAATAATT
1 TAAAAAATAAAAAAA
702911 TATAAAAATAAAAATAA
1 TA-AAAAATAAAAA-AA
702928 TAAAA
1 TAAAA
702933 TTATTTAATA
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
15 15 0.36
16 25 0.60
17 2 0.05
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (15 bp):
TAAAAAATAAAAAAA
Found at i:703422 original size:2 final size:2
Alignment explanation
Indices: 703417--703447 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
703407 TCTCTCTCTC
703417 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
703448 CGCTTTGAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:708034 original size:21 final size:21
Alignment explanation
Indices: 708001--708042 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
707991 AATTTTCACA
* *
708001 CTCTCTCTACTCTCTAAAATT
1 CTCTCACTACTCTATAAAATT
*
708022 CTCTCACTTCTCTATAAAATT
1 CTCTCACTACTCTATAAAATT
708043 TTATCAATTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.26, C:0.31, G:0.00, T:0.43
Consensus pattern (21 bp):
CTCTCACTACTCTATAAAATT
Found at i:708053 original size:21 final size:21
Alignment explanation
Indices: 708010--708055 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
708000 ACTCTCTCTA
* * *
708010 CTCTCTAAAATTCTCTCACTT
1 CTCTATAAAATTCTATCAATT
*
708031 CTCTATAAAATTTTATCAATT
1 CTCTATAAAATTCTATCAATT
708052 CTCT
1 CTCT
708056 TATTTCTCTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.26, G:0.00, T:0.46
Consensus pattern (21 bp):
CTCTATAAAATTCTATCAATT
Found at i:713211 original size:15 final size:15
Alignment explanation
Indices: 713193--713231 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
713183 TACTGATCCT
*
713193 GTCCATCCACCACCC
1 GTCCATCCACAACCC
713208 GTCCATCCACAACCC
1 GTCCATCCACAACCC
*
713223 GTGCATCCA
1 GTCCATCCA
713232 ACCCCTGTTT
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:0.23, C:0.51, G:0.10, T:0.15
Consensus pattern (15 bp):
GTCCATCCACAACCC
Found at i:713356 original size:30 final size:28
Alignment explanation
Indices: 713335--713394 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 28
713325 CCACCATATT
* *
713335 TTCCTATTCAACCTCCATACCCGTCATA
1 TTCCTACTCAACCTCCATACCCATCATA
*
713363 -TCTTACTCAACCTCCATACCCATCATA
1 TTCCTACTCAACCTCCATACCCATCATA
713390 -TCCTA
1 TTCCTA
713395 TCACAACCCA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.27, C:0.40, G:0.02, T:0.32
Consensus pattern (28 bp):
TTCCTACTCAACCTCCATACCCATCATA
Found at i:713549 original size:29 final size:29
Alignment explanation
Indices: 713517--713577 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
713507 TACTATGGTA
713517 TTAATGATATTATTCTTGTTTTTTAAAAT
1 TTAATGATATTATTCTTGTTTTTTAAAAT
*
713546 TTAATGATATTATTCTTGTTTTTTAAGAT
1 TTAATGATATTATTCTTGTTTTTTAAAAT
713575 TTA
1 TTA
713578 TAATTTTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.30, C:0.03, G:0.08, T:0.59
Consensus pattern (29 bp):
TTAATGATATTATTCTTGTTTTTTAAAAT
Found at i:713763 original size:72 final size:72
Alignment explanation
Indices: 713683--714047 Score: 536
Period size: 72 Copynumber: 5.1 Consensus size: 72
713673 GCAAACAAAG
* * *
713683 TTGTTGATTGTAGTTATCGTGCAAATTATCTCGGATTAGTTATTGATAGTAGTTTTAAATATGCT
1 TTGTTGATTGTAGTTATCGTGCAGATTATCTCGGATTAGTTGTTGATAGTAGTTTTAAATATGCA
713748 GAAATAT
66 GAAATAT
713755 TTGTTGATTAG-AGTTATCGTGCAGATTATCTCAGG-TTAGTTGTTGATAGTAGTTTTAAATATG
1 TTGTTGATT-GTAGTTATCGTGCAGATTATCTC-GGATTAGTTGTTGATAGTAGTTTTAAATATG
*
713818 CACAAATAT
64 CAGAAATAT
* * * *
713827 TTGTTAATTATAGTTATCGTGCAGATTATCTTGGATTAGTTATTGATAGTAGTTTTAAATATGCA
1 TTGTTGATTGTAGTTATCGTGCAGATTATCTCGGATTAGTTGTTGATAGTAGTTTTAAATATGCA
*
713892 AAAATAT
66 GAAATAT
* * *
713899 TTGTTGATTATAGTTATCGTGCAGATTATCTCAGATTATTTGTTGATAGTAGTTTTAAATATGCA
1 TTGTTGATTGTAGTTATCGTGCAGATTATCTCGGATTAGTTGTTGATAGTAGTTTTAAATATGCA
713964 GAAATAT
66 GAAATAT
* * * * *
713971 TTATTGATTGTAGTTATTGTGCAGATGATTTCGGATTAGTTGTTGACAGTAGTTTTAAATATGCA
1 TTGTTGATTGTAGTTATCGTGCAGATTATCTCGGATTAGTTGTTGATAGTAGTTTTAAATATGCA
*
714036 GAAATAG
66 GAAATAT
714043 TTGTT
1 TTGTT
714048 ATAGACACCT
Statistics
Matches: 264, Mismatches: 25, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
71 2 0.01
72 259 0.98
73 3 0.01
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.44
Consensus pattern (72 bp):
TTGTTGATTGTAGTTATCGTGCAGATTATCTCGGATTAGTTGTTGATAGTAGTTTTAAATATGCA
GAAATAT
Found at i:713906 original size:33 final size:33
Alignment explanation
Indices: 713869--713985 Score: 85
Period size: 33 Copynumber: 3.4 Consensus size: 33
713859 GGATTAGTTA
713869 TTGATAGTAGTTTTAAATATGCAAAAATATTTG
1 TTGATAGTAGTTTTAAATATGCAAAAATATTTG
* * * *
713902 TTGATTA-TAGTTATCGTGCAGATTAT-CTCAGATTATTTG
1 TTGA-TAGTAGTT-T--T--A-AATATGC-AAAAATATTTG
* *
713941 TTGATAGTAGTTTTAAATATGCAGAAATATTTA
1 TTGATAGTAGTTTTAAATATGCAAAAATATTTG
*
713974 TTGATTGTAGTT
1 TTGATAGTAGTT
713986 ATTGTGCAGA
Statistics
Matches: 63, Mismatches: 11, Indels: 20
0.67 0.12 0.21
Matches are distributed among these distances:
33 30 0.48
34 5 0.08
36 2 0.03
38 5 0.08
39 21 0.33
ACGTcount: A:0.32, C:0.05, G:0.17, T:0.45
Consensus pattern (33 bp):
TTGATAGTAGTTTTAAATATGCAAAAATATTTG
Found at i:716812 original size:51 final size:51
Alignment explanation
Indices: 716749--716930 Score: 260
Period size: 50 Copynumber: 3.6 Consensus size: 51
716739 TTAAGTTTCT
* *
716749 CAATTTTTCACAATCGGGGATACTCCAACTCCGATTTTATTTTCGAAACAC
1 CAATTTTCCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACAC
716800 CAATTTTCCACAATCGGGGATACTCCAAC-CC-AGTTTTATTTTCAAAACAC
1 CAATTTTCCACAATCGGGGATACTCCAACTCCGA-TTTTATTTTCAAAACAC
* * * *
716850 CAATTTTCTATAATCGAGGATACTCCAACTCCGATTTTATTTCTAAAAACAC
1 CAATTTTCCACAATCGGGGATACTCCAACTCCGATTTTATTT-TCAAAACAC
* *
716902 CAATTTTTCACAATCGGGGATACTTCAAC
1 CAATTTTCCACAATCGGGGATACTCCAAC
716931 CCCGTTAATC
Statistics
Matches: 116, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
49 1 0.01
50 44 0.38
51 38 0.33
52 33 0.28
ACGTcount: A:0.32, C:0.25, G:0.10, T:0.32
Consensus pattern (51 bp):
CAATTTTCCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACAC
Found at i:716982 original size:28 final size:27
Alignment explanation
Indices: 716917--716989 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 27
716907 TTTCACAATC
* **
716917 GGGGATACTTCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCAGA
* *
716944 GGGGATACTCCAACCCCGTTATTTCCGA
1 GGGGATACTCCAACCCCGTTA-ATCAGA
716972 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
716990 ATTTTATTTC
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
27 20 0.50
28 20 0.50
ACGTcount: A:0.23, C:0.33, G:0.22, T:0.22
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCAGA
Found at i:717028 original size:79 final size:79
Alignment explanation
Indices: 716945--717147 Score: 293
Period size: 79 Copynumber: 2.6 Consensus size: 79
716935 TTAATCATCG
* * * *
716945 GGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAATATTG
1 GGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCAAAAATATTG
717010 ATT-TCTCACAATCA
66 ATTGT-TCACAATCA
*
717024 GGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTCCAAAAATATTG
1 GGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCAAAAATATTG
*
717089 ATTGTTCACAATCG
66 ATTGTTCACAATCA
* * *
717103 GGGATACTCCAACCCTGTTATTTTC-ACGGAGATACTCCAATCCCG
1 GGGATACTCCAACCCCGTTATTTTCGA-GGGGATACTCCAACCCCG
717148 TTATTTTTGA
Statistics
Matches: 113, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
78 1 0.01
79 111 0.98
80 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.30
Consensus pattern (79 bp):
GGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCAAAAATATTG
ATTGTTCACAATCA
Found at i:717055 original size:107 final size:107
Alignment explanation
Indices: 716867--717068 Score: 282
Period size: 107 Copynumber: 1.9 Consensus size: 107
716857 CTATAATCGA
* * * *
716867 GGATACTCCAACTCCGATTTTATTTCTAAAAACACCAATTTTTCACAATCGGGGATACTTCAACC
1 GGATACTCCAACCCCGATTTTATTTCTAAAAACACCAATTTCTCACAATCAGGGATACTCCAACC
716932 CCGTTAATCATCGGGGATACTCCAACCCCGTTATTTCCGAGG
66 CCGTTAATCATCGGGGATACTCCAACCCCGTTATTTCCGAGG
* ***
716974 GGATACTCCAACCCCGATTTTATTTCT-AAAATATTGATTTCTCACAATCAGGGATACTCCAACC
1 GGATACTCCAACCCCGATTTTATTTCTAAAAACACCAATTTCTCACAATCAGGGATACTCCAACC
**
717038 CCGTT-ATTTTCGAGGGGATACTCCAACCCCG
66 CCGTTAATCATC--GGGGATACTCCAACCCCG
717069 GCTTTATTCC
Statistics
Matches: 83, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
105 4 0.05
106 35 0.42
107 44 0.53
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (107 bp):
GGATACTCCAACCCCGATTTTATTTCTAAAAACACCAATTTCTCACAATCAGGGATACTCCAACC
CCGTTAATCATCGGGGATACTCCAACCCCGTTATTTCCGAGG
Found at i:717140 original size:107 final size:107
Alignment explanation
Indices: 717026--717254 Score: 300
Period size: 107 Copynumber: 2.1 Consensus size: 107
717016 CACAATCAGG
* * ***
717026 GATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTA-TTCCAAAAATATTGA
1 GATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTTCC-AAAACACCAA
* *
717090 TTGTTC-ACAATCGGGGATACTCCAACCCTGTTATTTTCACGGA
65 TT-TTCTACAATCAGGGATACTCCAACCCTGTTATTTTCAAGGA
* * * *
717133 GATACTCCAATCCCGTTATTTTTGAGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAAT
1 GATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTTCCAAAACACCAAT
* * *
717198 TTTCTATAATTAGGGATACTCCAACCCTGTTATTTTCAAGGG
66 TTTCTACAATCAGGGATACTCCAACCCTGTTATTTTCAAGGA
717240 GATACTCCAACCCCG
1 GATACTCCAACCCCG
717255 ATTTTATTTT
Statistics
Matches: 105, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
106 3 0.03
107 99 0.94
108 3 0.03
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (107 bp):
GATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTTCCAAAACACCAAT
TTTCTACAATCAGGGATACTCCAACCCTGTTATTTTCAAGGA
Found at i:717175 original size:28 final size:28
Alignment explanation
Indices: 717101--717175 Score: 98
Period size: 28 Copynumber: 2.7 Consensus size: 28
717091 TGTTCACAAT
*
717101 CGGGGATACTCCAACCCTGTTATTTTCA
1 CGGGGATACTCCAACCCCGTTATTTTCA
* * *
717129 CGGAGATACTCCAATCCCGTTATTTTTGA
1 CGGGGATACTCCAACCCCGTTA-TTTTCA
717158 -GGGGATACTCCAACCCCG
1 CGGGGATACTCCAACCCCG
717176 ATTTTATTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
28 35 0.88
29 5 0.12
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (28 bp):
CGGGGATACTCCAACCCCGTTATTTTCA
Found at i:717181 original size:186 final size:185
Alignment explanation
Indices: 716908--717254 Score: 502
Period size: 186 Copynumber: 1.9 Consensus size: 185
716898 ACACCAATTT
* *
716908 TTCACAATCGGGGATACTTCAACCCCGTTAATCATCGGGGATACTCCAACCCCGTTATTTCCGAG
1 TTCACAATCGGGGATACTCCAACCCCGTTAATCATCGGAGATACTCCAACCCCGTTATTTCCGAG
* ***
716973 GGGATACTCCAACCCCGATTTTA-TTTCTAAAATATTGA-TTTCTCACAATCAGGGATACTCCAA
66 GGGATACTCCAACCCCGATTTTATTTTC-AAAACACCAATTTTCT-ACAATCAGGGATACTCCAA
*
717036 CCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTCCAAAAATATTGATTG
129 CCCCGTTATTTTCAAGGGGATACTCCAACCCCGGCTTTATTCCAAAAATATTGATTG
* * * **
717093 TTCACAATCGGGGATACTCCAACCCTGTTATTTTCA-CGGAGATACTCCAATCCCGTTATTTTTG
1 TTCACAATCGGGGATACTCCAACCCCGTTA--ATCATCGGAGATACTCCAACCCCGTTATTTCCG
* *
717157 AGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATTAGGGATACTCCAA
64 AGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTACAATCAGGGATACTCCAA
*
717222 CCCTGTTATTTTCAAGGGGATACTCCAACCCCG
129 CCCCGTTATTTTCAAGGGGATACTCCAACCCCG
717255 ATTTTATTTT
Statistics
Matches: 143, Mismatches: 15, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
185 28 0.20
186 103 0.72
187 12 0.08
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.31
Consensus pattern (185 bp):
TTCACAATCGGGGATACTCCAACCCCGTTAATCATCGGAGATACTCCAACCCCGTTATTTCCGAG
GGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTACAATCAGGGATACTCCAACC
CCGTTATTTTCAAGGGGATACTCCAACCCCGGCTTTATTCCAAAAATATTGATTG
Found at i:717218 original size:79 final size:79
Alignment explanation
Indices: 717133--717293 Score: 261
Period size: 79 Copynumber: 2.0 Consensus size: 79
717123 TTTTCACGGA
**
717133 GATACTCCAATCCC-GTTATTTTTGAGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAA
1 GATACTCCAA-CCCTGTTATTTTCAAGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAA
* *
717197 TTTTCTATAATTAGG
65 TTTTCCATAATCAGG
*
717212 GATACTCCAACCCTGTTATTTTCAAGGGGATACTCCAACCCCGATTTTATTTTCAGAACACCAAT
1 GATACTCCAACCCTGTTATTTTCAAGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAAT
717277 TTTCCATAATCAGG
66 TTTCCATAATCAGG
717291 GAT
1 GAT
717294 CCTTCGGCCC
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
78 3 0.04
79 73 0.96
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (79 bp):
GATACTCCAACCCTGTTATTTTCAAGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAAT
TTTCCATAATCAGG
Found at i:729961 original size:22 final size:22
Alignment explanation
Indices: 729935--729976 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
729925 TACCTTACAT
*
729935 AAATATAGTATAAAAATATATA
1 AAATATAATATAAAAATATATA
*
729957 AAATATAATATAAATATATA
1 AAATATAATATAAAAATATA
729977 GATATTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (22 bp):
AAATATAATATAAAAATATATA
Found at i:729973 original size:11 final size:11
Alignment explanation
Indices: 729933--729974 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
729923 ATTACCTTAC
*
729933 ATAAATATAGT
1 ATAAATATAAT
*
729944 ATAAAAAT-AT
1 ATAAATATAAT
729954 ATAAAATATAAT
1 AT-AAATATAAT
729966 ATAAATATA
1 ATAAATATA
729975 TAGATATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
10 3 0.12
11 19 0.73
12 4 0.15
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (11 bp):
ATAAATATAAT
Found at i:730488 original size:33 final size:33
Alignment explanation
Indices: 730451--730530 Score: 115
Period size: 33 Copynumber: 2.4 Consensus size: 33
730441 ATGTCCACAG
*
730451 CGGTCCATTTTTGGGGACCTGGCATGTCCATGA
1 CGGTCCATTTTTGGGGACCAGGCATGTCCATGA
* *
730484 CGGTCCATTTTTAGGGACCAGGCATGTCCATGG
1 CGGTCCATTTTTGGGGACCAGGCATGTCCATGA
* *
730517 CGATCTATTTTTGG
1 CGGTCCATTTTTGG
730531 CAACCTCTGC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.16, C:0.23, G:0.29, T:0.33
Consensus pattern (33 bp):
CGGTCCATTTTTGGGGACCAGGCATGTCCATGA
Found at i:734085 original size:79 final size:79
Alignment explanation
Indices: 733923--734131 Score: 258
Period size: 79 Copynumber: 2.7 Consensus size: 79
733913 TAAGCATAGC
* * * ** * * *
733923 GGTGACTTGGCATCACAGGGCGCTGATAACTTGGCATCA-CAGGGGTCAATTGCATGCCATGGCG
1 GGTGACTTGGCATCACAGGGCGTTAATGACTTGGCATCATGTGGGGCCAATTACATGCCACGGCG
733987 ATGACCAGAGTGAG
66 ATGACCAGAGTGAG
* * * *
734001 GGTGACTTGGCATCACATGGTGTTAATGACTTGGCATCATGTGGGGCCAATTACGTGCCACGGGG
1 GGTGACTTGGCATCACAGGGCGTTAATGACTTGGCATCATGTGGGGCCAATTACATGCCACGGCG
* *
734066 GTGACCATAGTGAG
66 ATGACCAGAGTGAG
* * *
734080 GGTGACTTGACGTCACAGGGCGTTAATGACTTGGCGTCATGTGGGGCCAATT
1 GGTGACTTGGCATCACAGGGCGTTAATGACTTGGCATCATGTGGGGCCAATT
734132 GTGCACCATG
Statistics
Matches: 111, Mismatches: 19, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
78 34 0.31
79 77 0.69
ACGTcount: A:0.22, C:0.20, G:0.34, T:0.24
Consensus pattern (79 bp):
GGTGACTTGGCATCACAGGGCGTTAATGACTTGGCATCATGTGGGGCCAATTACATGCCACGGCG
ATGACCAGAGTGAG
Found at i:734157 original size:79 final size:78
Alignment explanation
Indices: 733990--734182 Score: 230
Period size: 79 Copynumber: 2.4 Consensus size: 78
733980 CATGGCGATG
* * * *
733990 ACCAGAGTGAGGGTGACTTGGCATCACATGGTGTTAATGACTTGGCATCATGTGGGGCCAATTAC
1 ACCAGAGTGAGGGTGACTTGACGTCACAGGGCGTTAATGACTTGGCATCATGTGGGGCCAATTA-
**
734055 GTGCCACGGGGGTG
65 GTGCCACGGGGGCA
* *
734069 ACCATAGTGAGGGTGACTTGACGTCACAGGGCGTTAATGACTTGGCGTCATGTGGGGCCAATT-G
1 ACCAGAGTGAGGGTGACTTGACGTCACAGGGCGTTAATGACTTGGCATCATGTGGGGCCAATTAG
* *
734133 TGCACCATGGTGGCA
66 TG--CCACGGGGGCA
734148 ACCAGAGTGAGGGTGACTT-AGCGTC-CTAGGGCGTT
1 ACCAGAGTGAGGGTGACTTGA-CGTCAC-AGGGCGTT
734183 GCATGTGAAG
Statistics
Matches: 99, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
77 3 0.03
78 2 0.02
79 94 0.95
ACGTcount: A:0.21, C:0.20, G:0.35, T:0.24
Consensus pattern (78 bp):
ACCAGAGTGAGGGTGACTTGACGTCACAGGGCGTTAATGACTTGGCATCATGTGGGGCCAATTAG
TGCCACGGGGGCA
Found at i:740723 original size:33 final size:33
Alignment explanation
Indices: 740686--740755 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
740676 AAGTGACGGG
** *
740686 CCTGGCATGTCCACGGTGGTCCGTTTTTGGCGA
1 CCTGGCATGTCCACGGCAGCCCGTTTTTGGCGA
740719 CCTGGCATGTCCACGGCAGCCCGTTTTTGGCGA
1 CCTGGCATGTCCACGGCAGCCCGTTTTTGGCGA
740752 CCTG
1 CCTG
740756 TGCTGGCGAC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.10, C:0.31, G:0.31, T:0.27
Consensus pattern (33 bp):
CCTGGCATGTCCACGGCAGCCCGTTTTTGGCGA
Found at i:742109 original size:2 final size:2
Alignment explanation
Indices: 742102--742126 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
742092 TAATATAATC
742102 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
742127 GTAAATGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:742170 original size:13 final size:13
Alignment explanation
Indices: 742152--742176 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
742142 GAAAGATGGG
742152 GGAAAAATAAGAT
1 GGAAAAATAAGAT
742165 GGAAAAATAAGA
1 GGAAAAATAAGA
742177 AGGGATTAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.24, T:0.12
Consensus pattern (13 bp):
GGAAAAATAAGAT
Found at i:751630 original size:20 final size:20
Alignment explanation
Indices: 751607--751644 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
751597 TCTAGTACAC
751607 TTTGAAAAGTTCTAGAATGT
1 TTTGAAAAGTTCTAGAATGT
* *
751627 TTTGGAATGTTCTAGAAT
1 TTTGAAAAGTTCTAGAAT
751645 ATCATGGAAG
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:0.21, T:0.42
Consensus pattern (20 bp):
TTTGAAAAGTTCTAGAATGT
Found at i:751652 original size:20 final size:20
Alignment explanation
Indices: 751615--751699 Score: 71
Period size: 20 Copynumber: 4.2 Consensus size: 20
751605 ACTTTGAAAA
*
751615 GTTCTAGAATGTTTTGGAAT
1 GTTCTAGAATATTTTGGAAT
** *
751635 GTTCTAGAATATCATGGAAG
1 GTTCTAGAATATTTTGGAAT
* * * *
751655 GCTCTGGAAGATTTTAGAAT
1 GTTCTAGAATATTTTGGAAT
* * *
751675 GTTCTAGAATAATGTGGAAG
1 GTTCTAGAATATTTTGGAAT
751695 GTTCT
1 GTTCT
751700 GGAACTTTAT
Statistics
Matches: 47, Mismatches: 18, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.29, C:0.08, G:0.26, T:0.36
Consensus pattern (20 bp):
GTTCTAGAATATTTTGGAAT
Found at i:751675 original size:40 final size:40
Alignment explanation
Indices: 751626--751703 Score: 113
Period size: 40 Copynumber: 1.9 Consensus size: 40
751616 TTCTAGAATG
*
751626 TTTTGGAATGTTCTAGAAT-ATCATGGAAGGCTCTGGAAGA
1 TTTTAGAATGTTCTAGAATAAT-ATGGAAGGCTCTGGAAGA
* *
751666 TTTTAGAATGTTCTAGAATAATGTGGAAGGTTCTGGAA
1 TTTTAGAATGTTCTAGAATAATATGGAAGGCTCTGGAA
751704 CTTTATGGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 32 0.94
41 2 0.06
ACGTcount: A:0.31, C:0.08, G:0.27, T:0.35
Consensus pattern (40 bp):
TTTTAGAATGTTCTAGAATAATATGGAAGGCTCTGGAAGA
Found at i:756165 original size:43 final size:43
Alignment explanation
Indices: 756104--756189 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
756094 TTCTTTTCAA
756104 ACTTGAGCACCTCAACATTGGCCTTGATGGAGTTAAGGATATG
1 ACTTGAGCACCTCAACATTGGCCTTGATGGAGTTAAGGATATG
756147 ACTTGAGCACCTCAACATTGGCCTTGATGGAGTTAAGGATATG
1 ACTTGAGCACCTCAACATTGGCCTTGATGGAGTTAAGGATATG
756190 GACGATTCGA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (43 bp):
ACTTGAGCACCTCAACATTGGCCTTGATGGAGTTAAGGATATG
Found at i:761616 original size:21 final size:20
Alignment explanation
Indices: 761582--761621 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
761572 ATAATATTTT
**
761582 AAATATGATTATGACAGAAAA
1 AAATATGAACATGAC-GAAAA
761603 AAATATGAACATGACGAAA
1 AAATATGAACATGACGAAA
761622 TGGATACAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.57, C:0.07, G:0.15, T:0.20
Consensus pattern (20 bp):
AAATATGAACATGACGAAAA
Found at i:761730 original size:25 final size:24
Alignment explanation
Indices: 761701--761749 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
761691 TATGATATAA
761701 TAGAAAAAAAATTAAAATACAACAT
1 TAGAAAAAAAATTAAAATA-AACAT
* *
761726 TAGAAGAAAAATTAACATAAACAT
1 TAGAAAAAAAATTAAAATAAACAT
761750 CACGTAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.65, C:0.08, G:0.06, T:0.20
Consensus pattern (24 bp):
TAGAAAAAAAATTAAAATAAACAT
Found at i:764367 original size:22 final size:21
Alignment explanation
Indices: 764321--764379 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 21
764311 AATTATAATT
*
764321 ATATGTACATTCTTTATTGTG
1 ATATGTACATTCTTTATTGTC
*
764342 ATATGTGCATATCGTTT-TTGTC
1 ATATGTACAT-TC-TTTATTGTC
* *
764364 ATATATACATGCTTTA
1 ATATGTACATTCTTTA
764380 CACTTGTATC
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
20 3 0.10
21 10 0.33
22 14 0.47
23 3 0.10
ACGTcount: A:0.25, C:0.12, G:0.14, T:0.49
Consensus pattern (21 bp):
ATATGTACATTCTTTATTGTC
Found at i:764509 original size:22 final size:22
Alignment explanation
Indices: 764481--764532 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
764471 TTTAATTGAT
764481 TGTACATTTAGTTATA-TTCATA
1 TGTACATTTAGTTATAGTT-ATA
764503 TGTACATTTAGTTATAGTTATA
1 TGTACATTTAGTTATAGTTATA
*
764525 TATACATT
1 TGTACATT
764533 CCATTATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
22 26 0.93
23 2 0.07
ACGTcount: A:0.33, C:0.08, G:0.10, T:0.50
Consensus pattern (22 bp):
TGTACATTTAGTTATAGTTATA
Found at i:764773 original size:22 final size:22
Alignment explanation
Indices: 764732--764824 Score: 80
Period size: 22 Copynumber: 4.3 Consensus size: 22
764722 TGTATATTCA
* *
764732 GTTATAGTCATAT-TACATATT
1 GTTATAATTATATGTACATATT
*
764753 GTTATAATTATATGTACATATA
1 GTTATAATTATATGTACATATT
* * * *
764775 GTTATAATTATCTATGCATAAT
1 GTTATAATTATATGTACATATT
* * *
764797 GTTACAGTGATATGTACATATT
1 GTTATAATTATATGTACATATT
*
764819 ATTATA
1 GTTATA
764825 GTAATTTCTT
Statistics
Matches: 54, Mismatches: 17, Indels: 1
0.75 0.24 0.01
Matches are distributed among these distances:
21 11 0.20
22 43 0.80
ACGTcount: A:0.37, C:0.08, G:0.11, T:0.45
Consensus pattern (22 bp):
GTTATAATTATATGTACATATT
Found at i:764957 original size:21 final size:21
Alignment explanation
Indices: 764927--765021 Score: 95
Period size: 21 Copynumber: 4.5 Consensus size: 21
764917 AAGGGATTGA
*
764927 TTCTTTTAGTAAAGTGGTTAG
1 TTCTTTTAGTAAAGAGGTTAG
* *
764948 TT-TATTTAGTAAAAAGGTTGG
1 TTCT-TTTAGTAAAGAGGTTAG
*
764969 TTCTCTTTA-TAAAGATGTTTAG
1 TTCT-TTTAGTAAAGA-GGTTAG
*
764991 TTCTTTTTGTAAAGAGGTTAG
1 TTCTTTTAGTAAAGAGGTTAG
*
765012 TTCTCTTAGT
1 TTCTTTTAGT
765022 TTTGGCAATG
Statistics
Matches: 59, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
20 1 0.02
21 39 0.66
22 19 0.32
ACGTcount: A:0.25, C:0.06, G:0.20, T:0.48
Consensus pattern (21 bp):
TTCTTTTAGTAAAGAGGTTAG
Found at i:764991 original size:43 final size:43
Alignment explanation
Indices: 764927--765018 Score: 109
Period size: 43 Copynumber: 2.2 Consensus size: 43
764917 AAGGGATTGA
*
764927 TTCT-TTTAGTAAAGTGGTTAGTT-TATTTAGTAAAAAGGTTGG
1 TTCTCTTTAGTAAAGTGGTTAGTTCT-TTTAGTAAAAAGGTTAG
* * *
764969 TTCTCTTTA-TAAAGATGTTTAGTTCTTTTTGTAAAGAGGTTAG
1 TTCTCTTTAGTAAAG-TGGTTAGTTCTTTTAGTAAAAAGGTTAG
765012 TTCTCTT
1 TTCTCTT
765019 AGTTTTGGCA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
42 9 0.21
43 33 0.77
44 1 0.02
ACGTcount: A:0.25, C:0.07, G:0.20, T:0.49
Consensus pattern (43 bp):
TTCTCTTTAGTAAAGTGGTTAGTTCTTTTAGTAAAAAGGTTAG
Found at i:765805 original size:17 final size:17
Alignment explanation
Indices: 765779--765818 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
765769 GTTTCTTTAG
*
765779 TTATTATGATATTTACA
1 TTATTATGATATGTACA
*
765796 TTATTGTGATATGTACA
1 TTATTATGATATGTACA
765813 -TATTAT
1 TTATTAT
765819 TATAGTCATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.53
Consensus pattern (17 bp):
TTATTATGATATGTACA
Found at i:765820 original size:22 final size:22
Alignment explanation
Indices: 765795--765876 Score: 67
Period size: 22 Copynumber: 3.7 Consensus size: 22
765785 TGATATTTAC
*
765795 ATTATTGTGATATGTACATATT
1 ATTATTATGATATGTACATATT
* *
765817 ATTA-TAGTCATAAGTACATATT
1 ATTATTA-TGATATGTACATATT
* * * *
765839 GTTCTTATGAAATGTACATACT
1 ATTATTATGATATGTACATATT
* *
765861 GTTATTATGATTTGTA
1 ATTATTATGATATGTA
765877 TTTAGTGTTA
Statistics
Matches: 46, Mismatches: 12, Indels: 4
0.74 0.19 0.06
Matches are distributed among these distances:
21 1 0.02
22 43 0.93
23 2 0.04
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.46
Consensus pattern (22 bp):
ATTATTATGATATGTACATATT
Found at i:766628 original size:21 final size:20
Alignment explanation
Indices: 766595--766639 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
766585 AAATTTAAAA
766595 AAAAGAACAACTTCTTCAA-C
1 AAAAGAACAACTTCTT-AAGC
*
766615 AAAAGAATCGACTTCTTAAGC
1 AAAAGAA-CAACTTCTTAAGC
766636 AAAA
1 AAAA
766640 AATGTAGGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.51, C:0.20, G:0.09, T:0.20
Consensus pattern (20 bp):
AAAAGAACAACTTCTTAAGC
Found at i:766872 original size:63 final size:61
Alignment explanation
Indices: 766804--766954 Score: 155
Period size: 63 Copynumber: 2.4 Consensus size: 61
766794 CCTTAATCTC
*
766804 AAGGAACTGACTTTTTAAGGAAAATTACAAAAGTTTCAAGAAATGAACCAATCCCCTAA-CATA
1 AAGGAACTGACTTTTTAAGGAAAATTA-AAAA-TTTCAAGAAATAAACCAA-CCCCTAAGCATA
* * * ** *
766867 AAGGAA-TCGACTCTTATAAGAAAAATGTAGAAATTTCAAGTGATAAACCAACCTCTAAGCATA
1 AAGGAACT-GACT-TTTTAAGGAAAAT-TAAAAATTTCAAGAAATAAACCAACCCCTAAGCATA
*
766930 AAAGAACTGACTTTTT-AGGAAAATT
1 AAGGAACTGACTTTTTAAGGAAAATT
766955 TGCATAAGTT
Statistics
Matches: 73, Mismatches: 10, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
60 1 0.01
61 7 0.10
62 10 0.14
63 38 0.52
64 15 0.21
65 2 0.03
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.25
Consensus pattern (61 bp):
AAGGAACTGACTTTTTAAGGAAAATTAAAAATTTCAAGAAATAAACCAACCCCTAAGCATA
Found at i:767556 original size:25 final size:24
Alignment explanation
Indices: 767528--767597 Score: 72
Period size: 25 Copynumber: 2.8 Consensus size: 24
767518 GAACATGACC
*
767528 TATATATGCATACAACTATAA-AA-A
1 TATATAT-CATATAA-TATAACAACA
767552 TTATATATACATATAAATATAACAACA
1 -TATATAT-CATAT-AATATAACAACA
767579 TATATATCATATAATATAA
1 TATATATCATATAATATAA
767598 TGTAAAAATT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
24 7 0.17
25 21 0.52
26 11 0.28
27 1 0.03
ACGTcount: A:0.54, C:0.10, G:0.01, T:0.34
Consensus pattern (24 bp):
TATATATCATATAATATAACAACA
Found at i:767700 original size:23 final size:23
Alignment explanation
Indices: 767641--767709 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 23
767631 TTTCACAAAT
*
767641 AGAATCAAC-CCCT-TCACTGAA-
1 AGAATCAACACCTTCTCACT-AAG
**
767662 AGAATCAACATTTTCTCACTAAG
1 AGAATCAACACCTTCTCACTAAG
767685 AGAATCAACACCTTCT--CTAAG
1 AGAATCAACACCTTCTCACTAAG
767706 AGAA
1 AGAA
767710 CTAACTCTTC
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
21 18 0.45
22 3 0.08
23 19 0.47
ACGTcount: A:0.41, C:0.26, G:0.10, T:0.23
Consensus pattern (23 bp):
AGAATCAACACCTTCTCACTAAG
Found at i:767704 original size:21 final size:21
Alignment explanation
Indices: 767641--767709 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
767631 TTTCACAAAT
* *
767641 AGAATCAACCCCTTCACTGAA-
1 AGAATCAACACCTTCTCT-AAG
**
767662 AGAATCAACATTTTCTCACTAAG
1 AGAATCAACACCTTCT--CTAAG
767685 AGAATCAACACCTTCTCTAAG
1 AGAATCAACACCTTCTCTAAG
767706 AGAA
1 AGAA
767710 CTAACTCTTC
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
21 21 0.54
22 2 0.05
23 16 0.41
ACGTcount: A:0.41, C:0.26, G:0.10, T:0.23
Consensus pattern (21 bp):
AGAATCAACACCTTCTCTAAG
Found at i:778063 original size:2 final size:2
Alignment explanation
Indices: 778056--778099 Score: 61
Period size: 2 Copynumber: 22.0 Consensus size: 2
778046 CATTAATGTC
* * *
778056 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT GT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
778098 AT
1 AT
778100 TTGTGAACCA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (2 bp):
AT
Found at i:780835 original size:25 final size:25
Alignment explanation
Indices: 780801--780850 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
780791 ATGTATGTGT
780801 GCGTATATACATATATTAATTAATG
1 GCGTATATACATATATTAATTAATG
780826 GCGTATATACATATATTAATTAATG
1 GCGTATATACATATATTAATTAATG
780851 CTAAAAGAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (25 bp):
GCGTATATACATATATTAATTAATG
Found at i:785447 original size:18 final size:19
Alignment explanation
Indices: 785406--785449 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
785396 ATAGATATTT
785406 TTTATTTTTAAATAACATA
1 TTTATTTTTAAATAACATA
* **
785425 ATTATTTTT-AATATTATA
1 TTTATTTTTAAATAACATA
785443 TTTATTT
1 TTTATTT
785450 ATTATTATAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTATTTTTAAATAACATA
Found at i:786886 original size:2 final size:2
Alignment explanation
Indices: 786879--786908 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
786869 GTTATTTTAC
*
786879 AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
786909 TTGGTTTGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:793693 original size:2 final size:2
Alignment explanation
Indices: 793688--793738 Score: 52
Period size: 2 Copynumber: 26.5 Consensus size: 2
793678 ACTGTGTGTG
* * * *
793688 TA TA TA TA TA TA TA TA TA TA TA CA -A AA TT TA TG TA TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
793728 TA TA TA TA TA T
1 TA TA TA TA TA T
793739 GAACAAAAAG
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
1 2 0.05
2 39 0.95
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:798801 original size:166 final size:166
Alignment explanation
Indices: 798568--799555 Score: 1343
Period size: 166 Copynumber: 6.0 Consensus size: 166
798558 AAGTTTTATT
* * * * *
798568 GTTAGTTTTCACCGCTTTTTATCCTTATATTAAAAGTATTTTAC-TTTAGGC--TT-TTTTTTGT
1 GTTAGTTTTCATCGATTTTTATCTTTATA-TGAAAGTATTTTACTTTTAGTCTTTTCTTTTTTGT
* *
798629 TTAAATGTAAATAATTATTTGTTTTATAATATAATTGATTTATAATAGAATAGAATTGTAAAATT
65 TTAAATGCAAATAATTATTTGTTTTATAATATAATTGATTTATAATATAATAGAATTGTAAAATT
*
798694 GTGTAGTAATTCTATTATATTATAAATATTTTTTTTT
130 GTGTAGTAATTCTATTATATTATAAATATTTTTTTTG
*
798731 GTTAGTTTTCATCGATTTTGATCTTTATATGAAAGTATTTTACTTTTAGTCTTTTCTTTTTTGTT
1 GTTAGTTTTCATCGATTTTTATCTTTATATGAAAGTATTTTACTTTTAGTCTTTTCTTTTTTGTT
* * *
798796 TAAATGCAAATAATTATTTATTTTATAATATAATTGATTTATAATATAATAGAATTATAAAATTA
66 TAAATGCAAATAATTATTTGTTTTATAATATAATTGATTTATAATATAATAGAATTGTAAAATTG
*
798861 TGTAGTAATTCTATTATATTATAAATGTTTTTTTTG
131 TGTAGTAATTCTATTATATTATAAATATTTTTTTTG
*
798897 ATTAGTTTTCATCGATTTTTATC--------AAAGTATTTTACTTTTAGTCTTTTCTTTTTTTGT
1 GTTAGTTTTCATCGATTTTTATCTTTATATGAAAGTATTTTACTTTTAGTCTTTTC-TTTTTTGT
* * * * ** * * *
798954 TTAAATGCAAATAATTATTTATTTCATCGATTCTCAAAAAGATTCAATTAA-A-AAGAGCATTTT
65 TTAAATGCAAATAATTATTTGTTTTAT--AATAT--AATTGATT-TA-TAATATAATAG-A-ATT
* * ** ** *
799017 TTATTGAAATT-TTTA-TCAA--AAATTATACTTATGCGA-GTTTTTTTTG
122 GTA---AAATTGTGTAGT-AATTCTATTATA-TTAT-AAATATTTTTTTTG
*
799063 GTTAGTTTTCATTGATTTTTAT-TCTTATATGAAAGTATTTTACTTTTAGTCTTTTCTTTTTTGT
1 GTTAGTTTTCATCGATTTTTATCT-TTATATGAAAGTATTTTACTTTTAGTCTTTTCTTTTTTGT
*
799127 TTAAATGTAAATAATTATTTGTTTTATAATATAATTGATTTATAATATAATAGAATTGTAAAATT
65 TTAAATGCAAATAATTATTTGTTTTATAATATAATTGATTTATAATATAATAGAATTGTAAAATT
*
799192 GTGTAGTAATTCTATTATATTATAAATATTTTTTTGG
130 GTGTAGTAATTCTATTATATTATAAATATTTTTTTTG
*
799229 GTTAGTTTTCATCGATTTTTATCTTTATATAAAAGTATTTTACTTTTAGTCTTTTC-TTTTTGTT
1 GTTAGTTTTCATCGATTTTTATCTTTATATGAAAGTATTTTACTTTTAGTCTTTTCTTTTTTGTT
*
799293 TAAATGCAAATAATTATTTGTTTTATAATATAATTTATTTATAATATAATAGAATTGTAAAATTG
66 TAAATGCAAATAATTATTTGTTTTATAATATAATTGATTTATAATATAATAGAATTGTAAAATTG
799358 TGTAGTAATTCTATTATATTATAAATATTTTTTTTGG
131 TGTAGTAATTCTATTATATTATAAATATTTTTTTT-G
799395 GTTAGTTTTCATCGATTTTTATCTTTATATGAAAGTATTTTACTTTTAGTCTTTTCTTTTTTGTT
1 GTTAGTTTTCATCGATTTTTATCTTTATATGAAAGTATTTTACTTTTAGTCTTTTCTTTTTTGTT
799460 TAAATGCAAATAATTATTTGTTTTATAATATAATTGATTTATAATATAATAGAATTGTAAAATTG
66 TAAATGCAAATAATTATTTGTTTTATAATATAATTGATTTATAATATAATAGAATTGTAAAATTG
*
799525 TGTAGTAATTCTATTATATTATAAATGTTTT
131 TGTAGTAATTCTATTATATTATAAATATTTT
799556 GTATATTATA
Statistics
Matches: 730, Mismatches: 57, Indels: 72
0.85 0.07 0.08
Matches are distributed among these distances:
158 25 0.03
159 34 0.05
161 3 0.00
162 13 0.02
163 41 0.06
164 8 0.01
165 126 0.17
166 280 0.38
167 122 0.17
168 8 0.01
169 10 0.01
171 3 0.00
173 32 0.04
174 25 0.03
ACGTcount: A:0.32, C:0.06, G:0.10, T:0.53
Consensus pattern (166 bp):
GTTAGTTTTCATCGATTTTTATCTTTATATGAAAGTATTTTACTTTTAGTCTTTTCTTTTTTGTT
TAAATGCAAATAATTATTTGTTTTATAATATAATTGATTTATAATATAATAGAATTGTAAAATTG
TGTAGTAATTCTATTATATTATAAATATTTTTTTTG
Found at i:798837 original size:21 final size:20
Alignment explanation
Indices: 798805--798853 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
798795 TTAAATGCAA
**
798805 ATAATTATTTATTTTATAAT
1 ATAATTATTTATAATATAAT
798825 ATAATTGATTTATAATATAAT
1 ATAATT-ATTTATAATATAAT
*
798846 AGAATTAT
1 ATAATTAT
798854 AAAATTATGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (20 bp):
ATAATTATTTATAATATAAT
Found at i:798838 original size:16 final size:16
Alignment explanation
Indices: 798817--798855 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
798807 AATTATTTAT
*
798817 TTTATAATATAATTGA
1 TTTATAATATAATAGA
798833 TTTATAATATAATAGA
1 TTTATAATATAATAGA
*
798849 ATTATAA
1 TTTATAA
798856 AATTATGTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (16 bp):
TTTATAATATAATAGA
Found at i:800057 original size:28 final size:27
Alignment explanation
Indices: 799975--800057 Score: 69
Period size: 28 Copynumber: 2.8 Consensus size: 27
799965 CATTTGTTTG
799975 AATTA-TAAAATAATAATTTTATTAAATT
1 AATTATTAAAATAAT-ATTTTA-TAAATT
*
800003 AATTATTATATACAATAAGTATCTTATAAATT
1 AATTA-T-TA-A-AATAA-TATTTTATAAATT
*
800035 TATTATTAAAATTAATATTTTAT
1 AATTATTAAAA-TAATATTTTAT
800058 CATAAAAAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 14
0.73 0.05 0.23
Matches are distributed among these distances:
28 14 0.31
29 4 0.09
30 2 0.04
31 3 0.07
32 11 0.24
33 10 0.22
34 1 0.02
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.48
Consensus pattern (27 bp):
AATTATTAAAATAATATTTTATAAATT
Found at i:801230 original size:13 final size:13
Alignment explanation
Indices: 801212--801236 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
801202 ATTTAAAATA
801212 TTTTTTAAATTTT
1 TTTTTTAAATTTT
801225 TTTTTTAAATTT
1 TTTTTTAAATTT
801237 AAAATTTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTTTAAATTTT
Found at i:801689 original size:36 final size:36
Alignment explanation
Indices: 801649--801725 Score: 88
Period size: 36 Copynumber: 2.1 Consensus size: 36
801639 TTAAATATTT
801649 TTAAAAA-AAATTTAT-ACTTATTTAAATTAT-AAAAAA
1 TTAAAAATAAATTTATAACTTA-TT-AA-TATCAAAAAA
* *
801685 TTAAAAATATATTTTTAACTTATTAATATCAAAAAA
1 TTAAAAATAAATTTATAACTTATTAATATCAAAAAA
801721 TTAAA
1 TTAAA
801726 TTTTAATTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
35 3 0.08
36 20 0.56
37 8 0.22
38 5 0.14
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (36 bp):
TTAAAAATAAATTTATAACTTATTAATATCAAAAAA
Found at i:805585 original size:14 final size:14
Alignment explanation
Indices: 805566--805592 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
805556 ATAAATATCG
805566 AATATAAATATATA
1 AATATAAATATATA
805580 AATATAAATATAT
1 AATATAAATATAT
805593 TTAATTTTTT
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:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AATATAAATATATA
Found at i:805684 original size:18 final size:17
Alignment explanation
Indices: 805663--805705 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
805653 TATCGAATGT
805663 AAAATATAAATACTTAAAA
1 AAAATA-AAATA-TTAAAA
805682 AAAATAAAATATTAAAA
1 AAAATAAAATATTAAAA
805699 TAAAATA
1 -AAAATA
805706 TTTTTTTACT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 6 0.26
18 11 0.48
19 6 0.26
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAATAAAATATTAAAA
Found at i:805688 original size:17 final size:16
Alignment explanation
Indices: 805663--805705 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 16
805653 TATCGAATGT
*
805663 AAAATATAAATACTTAA
1 AAAAAATAAATA-TTAA
805680 AAAAAATAAAATATTAA
1 AAAAAAT-AAATATTAA
805697 AATAAAATA
1 AA-AAAATA
805706 TTTTTTTACT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 13 0.57
18 10 0.43
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAAAATAAATATTAA
Found at i:805698 original size:13 final size:13
Alignment explanation
Indices: 805682--805707 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
805672 ATACTTAAAA
805682 AAAATAAAATATT
1 AAAATAAAATATT
805695 AAAATAAAATATT
1 AAAATAAAATATT
805708 TTTTTACTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAATAAAATATT
Found at i:806797 original size:27 final size:28
Alignment explanation
Indices: 806755--806811 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
806745 ATAATAACAT
806755 TAAAAAAATAATTAAAATATAAT-TAATA
1 TAAAAAAATAATT-AAATATAATATAATA
*
806783 TAAAAAAATTA-TAAATATAATATAATA
1 TAAAAAAATAATTAAATATAATATAATA
806810 TA
1 TA
806812 TATAAACATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 9 0.33
27 8 0.30
28 10 0.37
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (28 bp):
TAAAAAAATAATTAAATATAATATAATA
Found at i:806864 original size:28 final size:30
Alignment explanation
Indices: 806833--806912 Score: 87
Period size: 28 Copynumber: 2.8 Consensus size: 30
806823 TAAAATTTAA
* *
806833 ATAAA-ATAAATTATTAAT-TATTAAATTT
1 ATAAACATAAATTATTAATATATAAAATAT
806861 ATAAACAT-AATTA-TAATATATAAAATAT
1 ATAAACATAAATTATTAATATATAAAATAT
* *
806889 ATAAATATAAAATATTACATATAT
1 ATAAACATAAATTATTA-ATATAT
806913 TCTCAAATCT
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
27 4 0.09
28 25 0.58
29 6 0.14
30 2 0.05
31 6 0.14
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (30 bp):
ATAAACATAAATTATTAATATATAAAATAT
Found at i:806897 original size:22 final size:22
Alignment explanation
Indices: 806867--806912 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
806857 ATTTATAAAC
* *
806867 ATAATTATAATATATAAAATAT
1 ATAAATATAAAATATAAAATAT
* *
806889 ATAAATATAAAATATTACATAT
1 ATAAATATAAAATATAAAATAT
806911 AT
1 AT
806913 TCTCAAATCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (22 bp):
ATAAATATAAAATATAAAATAT
Found at i:807227 original size:14 final size:14
Alignment explanation
Indices: 807210--807244 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
807200 TTAACGTAAA
*
807210 TTATCAAAATTTAT
1 TTATCAAAACTTAT
807224 TTATCAAAACTTAT
1 TTATCAAAACTTAT
807238 TTATCAA
1 TTATCAA
807245 TTGTATATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (14 bp):
TTATCAAAACTTAT
Found at i:807339 original size:25 final size:26
Alignment explanation
Indices: 807310--807366 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 26
807300 TTATTATTTA
807310 ATATAAAAAATTAA-A-ATATAATATG
1 ATATAAAAAA-TAACATATATAATATG
*
807335 ATAT-AAAAATAACATATATAATATT
1 ATATAAAAAATAACATATATAATATG
807360 ATATAAA
1 ATATAAA
807367 TATTTTAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 3 0.11
24 6 0.21
25 17 0.61
26 2 0.07
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (26 bp):
ATATAAAAAATAACATATATAATATG
Done.