Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold432
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: 1706767
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.28
Warning! 187295 characters in sequence are not A, C, G, or T
File 4 of 8
Found at i:594275 original size:32 final size:32
Alignment explanation
Indices: 594220--594322 Score: 181
Period size: 32 Copynumber: 3.2 Consensus size: 32
594210 TTCAACGATT
594220 TGTATCGATACATAAAGTGTTGTATCGATATAA
1 TGTATCGATACAT-AAGTGTTGTATCGATATAA
*
594253 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATATAA
594285 TGTATCGATACATAAGT-TTGTATCGATATAA
1 TGTATCGATACATAAGTGTTGTATCGATATAA
594316 TGTATCG
1 TGTATCG
594323 CTACGAAGCT
Statistics
Matches: 68, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
31 20 0.29
32 35 0.51
33 13 0.19
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATATAA
Found at i:594384 original size:13 final size:13
Alignment explanation
Indices: 594366--594390 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
594356 ATTACTCAAA
594366 TGTATCGATACAT
1 TGTATCGATACAT
594379 TGTATCGATACA
1 TGTATCGATACA
594391 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:595511 original size:15 final size:15
Alignment explanation
Indices: 595491--595521 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
595481 AGCAATAAGG
595491 ATTAGCATGAATTTA
1 ATTAGCATGAATTTA
595506 ATTAGCATGAATTTA
1 ATTAGCATGAATTTA
595521 A
1 A
595522 GCTTTTAATA
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:0.42, C:0.06, G:0.13, T:0.39
Consensus pattern (15 bp):
ATTAGCATGAATTTA
Found at i:600564 original size:19 final size:20
Alignment explanation
Indices: 600520--600568 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
600510 CTGCCAGTTT
**
600520 CATGTATCGATACAATTGCC
1 CATGTATCGATACAATTGAA
*
600540 CATGTATTGATACAA-TGAA
1 CATGTATCGATACAATTGAA
600559 CATGTATCGA
1 CATGTATCGA
600569 AAAATTGTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:602965 original size:22 final size:21
Alignment explanation
Indices: 602930--602979 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
602920 TTTGTTGATG
*
602930 ATTTTG-A-TGAAAAATGAAGT
1 ATTTTGAAGTGAAAAAT-AAGA
602950 ATTTTGAAGTGAAAAATAAGA
1 ATTTTGAAGTGAAAAATAAGA
*
602971 AATTTGAAG
1 ATTTTGAAG
602980 ATTTAATGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 6 0.23
21 12 0.46
22 8 0.31
ACGTcount: A:0.48, C:0.00, G:0.20, T:0.32
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAATAAGA
Found at i:602976 original size:21 final size:22
Alignment explanation
Indices: 602937--602979 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
602927 ATGATTTTGA
* *
602937 TGAAAAATGAAGTATTTTGAAG
1 TGAAAAATGAAGAAATTTGAAG
602959 TGAAAAAT-AAGAAATTTGAAG
1 TGAAAAATGAAGAAATTTGAAG
602980 ATTTAATGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.51, C:0.00, G:0.21, T:0.28
Consensus pattern (22 bp):
TGAAAAATGAAGAAATTTGAAG
Found at i:603847 original size:20 final size:20
Alignment explanation
Indices: 603822--603873 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
603812 TACAAGCCAA
** *
603822 TGTATCGATACAATTTTTTG
1 TGTATCGATACAATACTTGG
603842 TGTATCGATAC-ATACTTGG
1 TGTATCGATACAATACTTGG
603861 TGTATCGATACAA
1 TGTATCGATACAA
603874 GTTTGGCTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.40
Consensus pattern (20 bp):
TGTATCGATACAATACTTGG
Found at i:603879 original size:19 final size:18
Alignment explanation
Indices: 603822--603879 Score: 62
Period size: 19 Copynumber: 3.0 Consensus size: 18
603812 TACAAGCCAA
*
603822 TGTATCGATACAATTTTTTG
1 TGTATCGATACAA--TTTGG
*
603842 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
603861 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
603880 CTACTGCCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
18 1 0.03
19 19 0.58
20 12 0.36
21 1 0.03
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.41
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:610580 original size:20 final size:20
Alignment explanation
Indices: 610555--610608 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
610545 ATTTGAAGCA
* *
610555 ATGTATCGATACAATTCATC
1 ATGTATCGATACAATGCACC
*
610575 ATGTATCGATACAATGCGCC
1 ATGTATCGATACAATGCACC
610595 ATGTATCGATACAA
1 ATGTATCGATACAA
610609 ATAGTGGTAG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACAATGCACC
Found at i:610662 original size:20 final size:20
Alignment explanation
Indices: 610637--610694 Score: 75
Period size: 19 Copynumber: 3.0 Consensus size: 20
610627 CTGCTAGTTT
*
610637 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGTA
*
610657 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGTA
*
610676 CATGAATCGATAC-ATTGTA
1 CATGTATCGATACAATTGTA
610695 TTGATACAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 1 0.03
19 17 0.52
20 15 0.45
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACAATTGTA
Found at i:614249 original size:13 final size:13
Alignment explanation
Indices: 614231--614260 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
614221 TCTTAGTATT
614231 GATACATTATATC
1 GATACATTATATC
*
614244 GATACATTGTATC
1 GATACATTATATC
614257 GATA
1 GATA
614261 TAGAGGCACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (13 bp):
GATACATTATATC
Found at i:615411 original size:20 final size:20
Alignment explanation
Indices: 615388--615461 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
615378 ACAATTCAAA
615388 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
615408 GTATCGATACATGAAAAAAAAT
1 GTATCGATACATG--TTGCAAT
615430 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
615450 GTATCGATACAT
1 GTATCGATACAT
615462 AAAAAAAGAT
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 28 0.64
22 16 0.36
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.31
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:615433 original size:22 final size:22
Alignment explanation
Indices: 615405--615483 Score: 92
Period size: 22 Copynumber: 3.7 Consensus size: 22
615395 TACATGTTGC
615405 AATGTATCGATACATGAAAAAA
1 AATGTATCGATACATGAAAAAA
****
615427 AATGTATCGATACATG--TTGC
1 AATGTATCGATACATGAAAAAA
615447 AATGTATCGATACAT-AAAAAA
1 AATGTATCGATACATGAAAAAA
615468 AGATGTATCGATACAT
1 A-ATGTATCGATACAT
615484 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
20 15 0.33
21 1 0.02
22 30 0.65
ACGTcount: A:0.46, C:0.11, G:0.15, T:0.28
Consensus pattern (22 bp):
AATGTATCGATACATGAAAAAA
Found at i:615440 original size:42 final size:42
Alignment explanation
Indices: 615388--615483 Score: 176
Period size: 42 Copynumber: 2.3 Consensus size: 42
615378 ACAATTCAAA
615388 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAAA-AT
1 GTATCGATACATGTTGCAATGTATCGATACAT-AAAAAAAGAT
615430 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
615472 GTATCGATACAT
1 GTATCGATACAT
615484 TTCTTGGCAG
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
41 7 0.13
42 46 0.87
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (42 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
Found at i:615540 original size:13 final size:13
Alignment explanation
Indices: 615522--615547 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
615512 TACAGCAAGT
615522 ATGTATCGATACA
1 ATGTATCGATACA
615535 ATGTATCGATACA
1 ATGTATCGATACA
615548 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:619630 original size:15 final size:15
Alignment explanation
Indices: 619610--619640 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
619600 TAAAAATGTC
*
619610 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
619625 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
619640 C
1 C
619641 CAAACGAAAT
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:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:621725 original size:20 final size:21
Alignment explanation
Indices: 621655--621731 Score: 68
Period size: 20 Copynumber: 3.6 Consensus size: 21
621645 ATGTCCAAAA
*
621655 TGTATCGATACATGTTTTTG-
1 TGTATCGATACATCTTTTTGT
** *
621675 TGTATCGATACATCTGGAAATTCT
1 TGTATCGATACATCT---TTTTGT
621699 ATGTATCGATACAT-TTTTTGT
1 -TGTATCGATACATCTTTTTGT
621720 TGTATCGATACA
1 TGTATCGATACA
621732 ATGTATCGAT
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
20 26 0.58
21 3 0.07
23 2 0.04
24 1 0.02
25 13 0.29
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.44
Consensus pattern (21 bp):
TGTATCGATACATCTTTTTGT
Found at i:621738 original size:13 final size:13
Alignment explanation
Indices: 621720--621757 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
621710 CATTTTTTGT
621720 TGTATCGATACAA
1 TGTATCGATACAA
*
621733 TGTATCGATACAC
1 TGTATCGATACAA
621746 TGTATCGATACA
1 TGTATCGATACA
621758 GGGTGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:624221 original size:20 final size:20
Alignment explanation
Indices: 624198--624270 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
624188 ACAATTCAAA
624198 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
624218 GTATCGATACATGAAAAAAAT
1 GTATCGATACATG-TTGCAAT
624239 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
624259 GTATCGATACAT
1 GTATCGATACAT
624271 AAAAAAAGAT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:624249 original size:41 final size:42
Alignment explanation
Indices: 624198--624292 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
624188 ACAATTCAAA
*
624198 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAA-AT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
624239 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
624281 GTATCGATACAT
1 GTATCGATACAT
624293 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 38 0.73
42 14 0.27
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29
Consensus pattern (42 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
Found at i:624349 original size:13 final size:13
Alignment explanation
Indices: 624331--624356 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
624321 TACAGCAAGT
624331 ATGTATCGATACA
1 ATGTATCGATACA
624344 ATGTATCGATACA
1 ATGTATCGATACA
624357 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:626132 original size:21 final size:22
Alignment explanation
Indices: 626106--626149 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
626096 TTTTAAAAGG
*
626106 GAAAATTTTT-ATTAAGGGGGA
1 GAAAATTTTTAATTAAAGGGGA
626127 GAAAATTTTTAATTAAAGGGGA
1 GAAAATTTTTAATTAAAGGGGA
626149 G
1 G
626150 TTATAATTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.41, C:0.00, G:0.27, T:0.32
Consensus pattern (22 bp):
GAAAATTTTTAATTAAAGGGGA
Found at i:627369 original size:20 final size:19
Alignment explanation
Indices: 627294--627367 Score: 94
Period size: 20 Copynumber: 3.8 Consensus size: 19
627284 TTTTACCCAG
627294 ATGTATCGATACATTTTCA
1 ATGTATCGATACATTTTCA
* * *
627313 ATGTATCAATACATGTATGA
1 ATGTATCGATACAT-TTTCA
*
627333 ATGTATTGATACATTCTTCA
1 ATGTATCGATACATT-TTCA
627353 ATGTATCGATACATT
1 ATGTATCGATACATT
627368 CTGTCTTTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
19 14 0.31
20 31 0.69
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.41
Consensus pattern (19 bp):
ATGTATCGATACATTTTCA
Found at i:632629 original size:166 final size:164
Alignment explanation
Indices: 632456--632901 Score: 487
Period size: 166 Copynumber: 2.7 Consensus size: 164
632446 ATCGCCATTT
* * *
632456 AATCAGTTTTGAAAAATTAATTTATTTTTATGAGTTTTCTATTTTTTTCCTTGAAAA-TCCTTTG
1 AATCAGTTTTGAAAAATTCATTTATTTTCATGAGTTTT-TATTTTTTT-CTTGAAAATTCCTAT-
* *
632520 TTTCTTAAAAACCAAGTTTTTTA-TCTATAAATGTTTTTGGGAGGA-TTTTTC-TTAGTTAAAAA
63 TTTC-AAAAAACCAAGTTTTTTATTCCATAAATGTTTTTGGG-GGAGTTTTTCTTTA-TT-AAAA
* * ** *
632582 ATT-TTAATATTCATCAAATATAATTATTTAAATTATAGTA
124 ATTGTTAATATTCATAAAATATAATCATTTAAAGCATACTA
* *
632622 AATCAGTTTTGAACAATTCATTTATTTTCATAAGTTTTTCATTTTTTTCTT-AAAATTCTCCTAT
1 AATCAGTTTTGAAAAATTCATTTATTTTCATGAGTTTTT-ATTTTTTTCTTGAAAA-T-TCCTAT
* *
632686 TTTCAAAAAACTAAGTTTTTTATTCCATAAATGTTTTTGGGGGAGTTTTTCTTTATTGAAAATTG
63 TTTCAAAAAACCAAGTTTTTTATTCCATAAATGTTTTTGGGGGAGTTTTTCTTTATTAAAAATTG
*
632751 TTAATATTCATAAAATATCATCATTTAAAGCATACTA
128 TTAATATTCATAAAATATAATCATTTAAAGCATACTA
* *
632788 AATCAGTTTT-AAAAGATTCATTTATTTTCATGAG-TGTTATTTTTTTCTTGAAATTTTCCTATT
1 AATCAGTTTTGAAAA-ATTCATTTATTTTCATGAGTTTTTATTTTTTTCTTGAAA-ATTCCTATT
* **** * * *
632851 TCCAAAAAATTGGGTTTTCTATTCAATAAATGTTTTT-GCGGAGATTTTTCT
64 TTCAAAAAACCAAGTTTTTTATTCCATAAATGTTTTTGGGGGAG-TTTTTCT
632902 CAATTTAAAA
Statistics
Matches: 242, Mismatches: 26, Indels: 26
0.82 0.09 0.09
Matches are distributed among these distances:
163 5 0.02
164 60 0.25
165 39 0.16
166 130 0.54
167 8 0.03
ACGTcount: A:0.32, C:0.10, G:0.10, T:0.49
Consensus pattern (164 bp):
AATCAGTTTTGAAAAATTCATTTATTTTCATGAGTTTTTATTTTTTTCTTGAAAATTCCTATTTT
CAAAAAACCAAGTTTTTTATTCCATAAATGTTTTTGGGGGAGTTTTTCTTTATTAAAAATTGTTA
ATATTCATAAAATATAATCATTTAAAGCATACTA
Found at i:632956 original size:164 final size:165
Alignment explanation
Indices: 632456--632983 Score: 428
Period size: 166 Copynumber: 3.2 Consensus size: 165
632446 ATCGCCATTT
* * * *
632456 AATCAGTTTTGAAAAATTAATTTATTTTTATGAGTT-TTCTATTTTTTTCCTTGAAAATCCT-TT
1 AATCAGTTTT-AAAAATTCATTTATTTTCATGAGTTGTTC-ATTTTTTT-CTT-AAAATTCTCCT
* ** * * * * * *
632519 GTTTCTTAAAAACCAAGTTTTTTA-TCTATAAATGTTTTTGGGAG-GATTTTTCTTAGTTAAAAA
62 ATTTCCAAAAAACTAAGTTTTCTATTCAATAAATGTTTTTGGGAGAG-TTTTTCTCAATT-GAAA
* * * * * ** * *
632582 ATT-TTAATATTCATCAAATATAATTATTTAAATTATAGTA
125 ATTGTTAAAATTCATAAAATATCATCATATAAAGCACACTA
* * *
632622 AATCAGTTTTGAACAATTCATTTATTTTCATAAGTTTTTCATTTTTTTCTTAAAATTCTCCTATT
1 AATCAGTTTT-AAAAATTCATTTATTTTCATGAGTTGTTCATTTTTTTCTTAAAATTCTCCTATT
* * * * **
632687 TTCAAAAAACTAAGTTTTTTATTCCATAAATGTTTTTGGGGGAGTTTTTCTTTATTGAAAATTGT
65 TCCAAAAAACTAAGTTTTCTATTCAATAAATGTTTTTGGGAGAGTTTTTCTCAATTGAAAATTGT
* * *
632752 TAATATTCATAAAATATCATCATTTAAAGCATACTA
130 TAAAATTCATAAAATATCATCATATAAAGCACACTA
* *
632788 AATCAGTTTTAAAAGATTCATTTATTTTCATGAG-TGTT-ATTTTTTTCTTGAAATTTTCCTATT
1 AATCAGTTTTAAAA-ATTCATTTATTTTCATGAGTTGTTCATTTTTTTCTTAAAATTCTCCTATT
* ** * *
632851 TCCAAAAAATTGGGTTTTCTATTCAATAAATGTTTTTGCGGAGA-TTTTTCTCAATTTAAAATTT
65 TCCAAAAAACTAAGTTTTCTATTCAATAAATGTTTTTG-GGAGAGTTTTTCTCAATTGAAAATTG
** * ** * * *
632915 TTAAAATTTGTATAATATTGTCA-ATAAACTCCCATTA
129 TTAAAATTCATAAAATATCATCATATAAA-GCACACTA
* *
632952 AATCAGTTTGAAAAATTCAAATTA-TTTCATGA
1 AATCAGTTTTAAAAATTC-ATTTATTTTCATGA
632984 ATTTTGAATT
Statistics
Matches: 302, Mismatches: 51, Indels: 21
0.81 0.14 0.06
Matches are distributed among these distances:
163 16 0.05
164 116 0.38
165 39 0.13
166 127 0.42
167 4 0.01
ACGTcount: A:0.33, C:0.10, G:0.09, T:0.48
Consensus pattern (165 bp):
AATCAGTTTTAAAAATTCATTTATTTTCATGAGTTGTTCATTTTTTTCTTAAAATTCTCCTATTT
CCAAAAAACTAAGTTTTCTATTCAATAAATGTTTTTGGGAGAGTTTTTCTCAATTGAAAATTGTT
AAAATTCATAAAATATCATCATATAAAGCACACTA
Found at i:633461 original size:33 final size:32
Alignment explanation
Indices: 633419--633480 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
633409 CACACCTAGA
*
633419 TATATCGATACAT-ATTGCTTTGTATCGATACAT
1 TATATCGATACATGATT--ATTGTATCGATACAT
633452 TATATCGATACATGATTATTGTATCGATA
1 TATATCGATACATGATTATTGTATCGATA
633481 GACACTAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
32 11 0.41
33 13 0.48
34 3 0.11
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (32 bp):
TATATCGATACATGATTATTGTATCGATACAT
Found at i:633549 original size:13 final size:13
Alignment explanation
Indices: 633527--633556 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
633517 GCTAAAACTC
633527 ACATTGTATCGAT
1 ACATTGTATCGAT
*
633540 ACATTTTATCGAT
1 ACATTGTATCGAT
633553 ACAT
1 ACAT
633557 GAAGGTTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (13 bp):
ACATTGTATCGAT
Found at i:633873 original size:34 final size:35
Alignment explanation
Indices: 633835--633905 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 35
633825 TCAAAGCATA
* **
633835 TTCAAAGAGCTTTTGTATT-CTTTGTTGTTATTCT
1 TTCAAAGAGCATTTGTATTCCTTTGTACTTATTCT
**
633869 TTCAAAGCTCATTTGTATTCCTTTGTACTTATTCT
1 TTCAAAGAGCATTTGTATTCCTTTGTACTTATTCT
633904 TT
1 TT
633906 TCACAAACAC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
34 16 0.52
35 15 0.48
ACGTcount: A:0.18, C:0.15, G:0.11, T:0.55
Consensus pattern (35 bp):
TTCAAAGAGCATTTGTATTCCTTTGTACTTATTCT
Found at i:634889 original size:33 final size:33
Alignment explanation
Indices: 634845--634910 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
634835 TCTCGTTACT
*
634845 ATGTATCGATACGACTCTCCC-TGTATCGATACA
1 ATGTATCGATAC-AATCTCCCATGTATCGATACA
* *
634878 ATGTATTGATACAATGTCCCATGTATCGATACA
1 ATGTATCGATACAATCTCCCATGTATCGATACA
634911 TTTCACTTAG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 6 0.21
33 23 0.79
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (33 bp):
ATGTATCGATACAATCTCCCATGTATCGATACA
Found at i:634994 original size:19 final size:19
Alignment explanation
Indices: 634939--634994 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
634929 CTACCAATTT
634939 CATGTATCGATACAATTGAG
1 CATGTATCGATACAA-TGAG
* *
634959 TATGTATCGATATAATGAG
1 CATGTATCGATACAATGAG
*
634978 CATGTATCCATACAATG
1 CATGTATCGATACAATG
634995 TATCGATACA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 18 0.58
20 13 0.42
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAG
Found at i:637080 original size:16 final size:16
Alignment explanation
Indices: 637052--637092 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
637042 TCACACATGT
*
637052 AATTATAGAATAAATA
1 AATTATAGAATAAAAA
637068 AATT-TAGAGATAAAAA
1 AATTATAGA-ATAAAAA
637084 AATTA-AGAA
1 AATTATAGAA
637093 AATGTGGATA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
15 5 0.23
16 17 0.77
ACGTcount: A:0.63, C:0.00, G:0.10, T:0.27
Consensus pattern (16 bp):
AATTATAGAATAAAAA
Found at i:640754 original size:33 final size:33
Alignment explanation
Indices: 640703--640767 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
640693 AAAACCCCAA
*
640703 TGTATCGATATTACGTTCTTAGTATCAATACAT
1 TGTATCGATACTACGTTCTTAGTATCAATACAT
** * *
640736 TGTATCGATACTGTGTTCTTTGTATCGATACA
1 TGTATCGATACTACGTTCTTAGTATCAATACA
640768 AGGGTACTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.43
Consensus pattern (33 bp):
TGTATCGATACTACGTTCTTAGTATCAATACAT
Found at i:641899 original size:325 final size:326
Alignment explanation
Indices: 641274--641925 Score: 1049
Period size: 325 Copynumber: 2.0 Consensus size: 326
641264 CCAATGGCCC
* * *
641274 CTCAAACAAAATTACCTACCCAAAGACGCACTCGAGGAGCTTCCTCATCCAATCCACAACATCAA
1 CTCAAACAAAATTACCTACCCAAAAACACACTCGAGAAGCTTCCTCATCCAATCCACAACATCAA
* * * * *
641339 TCCTTCACTAAGGGTTGGTTCCGAACCTAAGCAAACTTTAAATGCTATAACCAAACTTTTGCCCG
66 TCCTTCACTAAGGGTTGGTTCCGAACCCAAGCAAACCTCAAACGCTATAACCAAACTTTTCCCCG
* *
641404 GTTATCAATCAGGCAATATGGATTGATCGACATGGCTTATCTAAAAACTTTCAACCTCTTCTACC
131 GTTATCAATCAGGCAATATCGAGTGATCGACATGGCTTATCTAAAAACTTTCAACCTCTTCTACC
641469 TCCTAGTTTTCACTTCTTTGGGTGGTTATCTTTTCTTGGCCTAAACAAACCCGTTTGTGAAAACC
196 TCCTAGTTTTCACTTCTTTGGGTGGTTATCTTTTCTTGGCCTAAACAAACCCGTTTGTGAAAACC
*
641534 TCAGTTCGATCCTTTCTTAGTAATGTTCATTTTGAGCATAATGACCAAGATCAAGTCATAGCTAT
261 TCAGTTCGAGCCTTTCTTAGTAATGTTCATTTTGAGCATAATGACCAAGATCAAGTCATAGCTAT
641599 T
326 T
* * * *
641600 CTCAAACAAAATTACGTACCCAAAAACACACTTGAGAAGCTTCCTTATCCAATCCACAACATCGA
1 CTCAAACAAAATTACCTACCCAAAAACACACTCGAGAAGCTTCCTCATCCAATCCACAACATCAA
* * * *
641665 TCCTTCATTAAGGGTT-GTTCTGAACCCAAGTAAACCTCGAACGCTATAACCAAACTTTTCCCCG
66 TCCTTCACTAAGGGTTGGTTCCGAACCCAAGCAAACCTCAAACGCTATAACCAAACTTTTCCCCG
* * * *
641729 GTTATCAATCAGGCAATGTCGAGTGATCGACATGGCTTATTTGAAAACTTTCAACTTCATT-TAC
131 GTTATCAATCAGGCAATATCGAGTGATCGACATGGCTTATCTAAAAACTTTCAACCTC-TTCTAC
641793 CTCCTAGTTTTCACTTCCTTTGGGTGGTTATCTTTTCTTGGCCTAAACAAACCCGTTTGTGAAAA
195 CTCCTAGTTTTCACTT-CTTTGGGTGGTTATCTTTTCTTGGCCTAAACAAACCCGTTTGTGAAAA
*
641858 CCTCA-TTTGAGCCTTTCTTAGTAATGTTCATTTTGAGCATAATGACCAAGATCAAGTCATAGCT
259 CCTCAGTTCGAGCCTTTCTTAGTAATGTTCATTTTGAGCATAATGACCAAGATCAAGTCATAGCT
641922 ATT
324 ATT
641925 C
1 C
641926 ATTCATATCT
Statistics
Matches: 300, Mismatches: 24, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
325 172 0.57
326 128 0.43
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (326 bp):
CTCAAACAAAATTACCTACCCAAAAACACACTCGAGAAGCTTCCTCATCCAATCCACAACATCAA
TCCTTCACTAAGGGTTGGTTCCGAACCCAAGCAAACCTCAAACGCTATAACCAAACTTTTCCCCG
GTTATCAATCAGGCAATATCGAGTGATCGACATGGCTTATCTAAAAACTTTCAACCTCTTCTACC
TCCTAGTTTTCACTTCTTTGGGTGGTTATCTTTTCTTGGCCTAAACAAACCCGTTTGTGAAAACC
TCAGTTCGAGCCTTTCTTAGTAATGTTCATTTTGAGCATAATGACCAAGATCAAGTCATAGCTAT
T
Found at i:642950 original size:19 final size:19
Alignment explanation
Indices: 642908--642958 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 19
642898 TAAATTTGTA
* *
642908 AAAAAAGGGGAGAGTTGAT
1 AAAAAAGGGGAGAATTAAT
* *
642927 TAAAAATGGGAGAATTAAT
1 AAAAAAGGGGAGAATTAAT
*
642946 AAAAAGGGGGAGA
1 AAAAAAGGGGAGA
642959 GATAATTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.51, C:0.00, G:0.33, T:0.16
Consensus pattern (19 bp):
AAAAAAGGGGAGAATTAAT
Found at i:643077 original size:21 final size:21
Alignment explanation
Indices: 643051--643092 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
643041 GAAAGCCTTA
*
643051 AAAAATTTAATTAAGGGGGAG
1 AAAAATTTAATTAAGAGGGAG
*
643072 AAAAATTTTATTAAGAGGGAG
1 AAAAATTTAATTAAGAGGGAG
643093 TTATATATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.26, T:0.26
Consensus pattern (21 bp):
AAAAATTTAATTAAGAGGGAG
Found at i:644078 original size:13 final size:13
Alignment explanation
Indices: 644060--644116 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
644050 CATAAAGTGT
644060 TGTATCGATACAA
1 TGTATCGATACAA
*
644073 TGTATCGATTCATAA
1 TGTATCGA-T-ACAA
644088 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
644105 TGTATCGATACA
1 TGTATCGATACA
644117 TAAGTTTTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 20 0.56
14 1 0.03
15 3 0.08
17 3 0.08
18 1 0.03
19 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:644095 original size:32 final size:32
Alignment explanation
Indices: 644040--644140 Score: 175
Period size: 32 Copynumber: 3.1 Consensus size: 32
644030 TTCAACGATT
644040 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
*
644073 TGTATCGATTCATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
644105 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
644137 TGTA
1 TGTA
644141 AGCTACTGCC
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 53 0.82
33 12 0.18
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:644129 original size:19 final size:18
Alignment explanation
Indices: 644038--644135 Score: 81
Period size: 19 Copynumber: 5.8 Consensus size: 18
644028 ATTTCAACGA
644038 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
644057 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
*
644073 --TGTATCGATTCATAAG
1 TTTGTATCGATACATAAG
644089 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
644105 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
644121 TTTTGTATCGATACA
1 -TTTGTATCGATACA
644136 ATGTAAGCTA
Statistics
Matches: 64, Mismatches: 2, Indels: 26
0.70 0.02 0.28
Matches are distributed among these distances:
13 21 0.33
15 4 0.06
17 4 0.06
19 23 0.36
20 12 0.19
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:644196 original size:13 final size:13
Alignment explanation
Indices: 644178--644202 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
644168 ATTACTCAAA
644178 TGTATCGATACAT
1 TGTATCGATACAT
644191 TGTATCGATACA
1 TGTATCGATACA
644203 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:644255 original size:52 final size:52
Alignment explanation
Indices: 644211--644339 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
644201 CACTGATCTT
644211 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
644263 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
644315 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
644340 TCATATTTCG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:658227 original size:14 final size:13
Alignment explanation
Indices: 658209--658233 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
658199 TCCTCCGCAA
658209 AAAAAAACAAAAT
1 AAAAAAACAAAAT
658222 AAAAAAACAAAA
1 AAAAAAACAAAA
658234 AAACAACAAA
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:0.88, C:0.08, G:0.00, T:0.04
Consensus pattern (13 bp):
AAAAAAACAAAAT
Found at i:659744 original size:69 final size:68
Alignment explanation
Indices: 659656--659826 Score: 182
Period size: 68 Copynumber: 2.5 Consensus size: 68
659646 CTAGTGGCAA
* * * * *
659656 CCTTCTAAAGTCCACAACTCAATGGCACCTTTTTTTCTTTTTAAAGCCCGCAACTCTGTGGCACT
1 CCTTCT-AAGTCCACAACTCAGTGGCACC-TTTTTTCCTTTT-AAGCCCACAACTCCGTGGAACT
659721 C-TTTT
63 CTTTTT
* * * * * *
659726 CCTTCTAAGTCCACAACTCCGTGGAACCTTTCTTCCTTTTAAGCCCACAAGTCCGTGTAATTCTT
1 CCTTCTAAGTCCACAACTCAGTGGCACCTTTTTTCCTTTTAAGCCCACAACTCCGTGGAACTCTT
659791 TTT
66 TTT
* * *
659794 CCTTTTAAGTCCACAACTCTGTGGCACCCTTTT
1 CCTTCTAAGTCCACAACTCAGTGGCACCTTTTT
659827 AAGCCCACAA
Statistics
Matches: 84, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
67 17 0.20
68 42 0.50
69 19 0.23
70 6 0.07
ACGTcount: A:0.20, C:0.31, G:0.12, T:0.37
Consensus pattern (68 bp):
CCTTCTAAGTCCACAACTCAGTGGCACCTTTTTTCCTTTTAAGCCCACAACTCCGTGGAACTCTT
TTT
Found at i:659763 original size:34 final size:34
Alignment explanation
Indices: 659722--659826 Score: 122
Period size: 34 Copynumber: 3.1 Consensus size: 34
659712 TGTGGCACTC
*
659722 TTTTCCTTCTAAGTCCACAACTCCGTGGAA-CCT
1 TTTTCCTTTTAAGTCCACAACTCCGTGGAATCCT
* * * *
659755 TTCTTCCTTTTAAGCCCACAAGTCCGTGTAATTCT
1 TT-TTCCTTTTAAGTCCACAACTCCGTGGAATCCT
* * *
659790 TTTTCCTTTTAAGTCCACAACTCTGTGGCACCCT
1 TTTTCCTTTTAAGTCCACAACTCCGTGGAATCCT
659824 TTT
1 TTT
659827 AAGCCCACAA
Statistics
Matches: 58, Mismatches: 12, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
33 2 0.03
34 52 0.90
35 4 0.07
ACGTcount: A:0.19, C:0.30, G:0.11, T:0.39
Consensus pattern (34 bp):
TTTTCCTTTTAAGTCCACAACTCCGTGGAATCCT
Found at i:659826 original size:27 final size:27
Alignment explanation
Indices: 659794--659880 Score: 104
Period size: 27 Copynumber: 3.1 Consensus size: 27
659784 AATTCTTTTT
* *
659794 CCTTTTAAGTCCACAACTCTGTGGCAC
1 CCTTTTAAGCCCACAAGTCTGTGGCAC
659821 CCTTTTAAGCCCACAAGT-TGGTGGCACC
1 CCTTTTAAGCCCACAAGTCT-GTGGCA-C
* *
659849 CCTTTTAAAGCCCACAAGTCAGTGGCAA
1 CCTTTT-AAGCCCACAAGTCTGTGGCAC
659877 CCTT
1 CCTT
659881 CAAAAGCACA
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
26 1 0.02
27 22 0.42
28 11 0.21
29 18 0.35
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.26
Consensus pattern (27 bp):
CCTTTTAAGCCCACAAGTCTGTGGCAC
Found at i:659864 original size:29 final size:28
Alignment explanation
Indices: 659814--659921 Score: 103
Period size: 28 Copynumber: 3.8 Consensus size: 28
659804 CCACAACTCT
*
659814 GTGGCACCCTTT-TAAGCCCACAAGTTG
1 GTGGCACCCTTTAAAAGCCCACAAGTTG
* **
659841 GTGGCACCCCTTTTAAAGCCCACAAGTCA
1 GTGGCA-CCCTTTAAAAGCCCACAAGTTG
* * *
659870 GTGGCAACCTTCAAAAGCACACAAGTTG
1 GTGGCACCCTTTAAAAGCCCACAAGTTG
*
659898 AT-GCAACCCTTTCAAAAGCCCACA
1 GTGGC-ACCCTTT-AAAAGCCCACA
659922 CAAGCTGTTA
Statistics
Matches: 64, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
27 8 0.12
28 28 0.44
29 28 0.44
ACGTcount: A:0.31, C:0.31, G:0.18, T:0.20
Consensus pattern (28 bp):
GTGGCACCCTTTAAAAGCCCACAAGTTG
Found at i:660159 original size:51 final size:49
Alignment explanation
Indices: 659943--660175 Score: 183
Period size: 49 Copynumber: 4.8 Consensus size: 49
659933 CGTCTTCTTC
* * * * * * *
659943 TAAGTCTAATATCGCTGGCCTTGAACCAGCATATTGGCACATTTATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCACCTT
** * * *
659992 TAAAACTCAATATTGCTGGCCTTGAATCAGCATATT-G-A----CACCTT
1 TAAGTC-CAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCACCTT
* * * *
660036 GAAGACCAATGTCGCTGGCCTTGAATTAGCACATTGGCATCTTCACCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCACCTT
* **
660085 TAAGTCCAATAG-CGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCGTCT
1 TAAGTCCAAT-GTCGCTGGCCTTGAATCAGCACATTGGCACCTTCACC-T-T
* * *
660136 TGAGTCCAATGTAGCTGGCCTTGAATCAGCACATTAGCAC
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
660176 AAGTCCAATA
Statistics
Matches: 149, Mismatches: 24, Indels: 20
0.77 0.12 0.10
Matches are distributed among these distances:
43 25 0.17
44 9 0.06
45 1 0.01
48 1 0.01
49 49 0.33
50 29 0.19
51 35 0.23
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.30
Consensus pattern (49 bp):
TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCACCTT
Found at i:662618 original size:32 final size:33
Alignment explanation
Indices: 662558--662626 Score: 113
Period size: 32 Copynumber: 2.1 Consensus size: 33
662548 TTCAACGATT
*
662558 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTATTGTATCGATACAA
*
662591 TGTATTGATACAT-AAGTATTGTATCGATACAA
1 TGTATCGATACATAAAGTATTGTATCGATACAA
662623 TGTA
1 TGTA
662627 AGCTACTACC
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 22 0.65
33 12 0.35
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.36
Consensus pattern (33 bp):
TGTATCGATACATAAAGTATTGTATCGATACAA
Found at i:662682 original size:13 final size:13
Alignment explanation
Indices: 662664--662688 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
662654 ATTACTCAAA
662664 TGTATCGATACAT
1 TGTATCGATACAT
662677 TGTATCGATACA
1 TGTATCGATACA
662689 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:662753 original size:52 final size:52
Alignment explanation
Indices: 662697--662825 Score: 204
Period size: 52 Copynumber: 2.5 Consensus size: 52
662687 CACTGATCTT
* * *
662697 TGTATTGATACATGCAGGCAAATTTGCTCAGATGTGTCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* * *
662749 TGTATCGATACATACAGTCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
662801 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
662826 TCATATTTCG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:666329 original size:34 final size:35
Alignment explanation
Indices: 666290--666361 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 35
666280 AATTTCTACA
*
666290 TTTCAAAGAGCTTTTGTATT-CTTTGTTG-TTATTC
1 TTTCAAAGAGCATTTGTATTCCTTTG-TGCTTATTC
**
666324 TTTCAAAGCTCATTTGTATTCCTTTGTGCTTATTC
1 TTTCAAAGAGCATTTGTATTCCTTTGTGCTTATTC
666359 TTT
1 TTT
666362 TCATAAACAC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
34 19 0.58
35 14 0.42
ACGTcount: A:0.17, C:0.15, G:0.12, T:0.56
Consensus pattern (35 bp):
TTTCAAAGAGCATTTGTATTCCTTTGTGCTTATTC
Found at i:667019 original size:3 final size:3
Alignment explanation
Indices: 667000--667040 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
666990 AACCATCAAA
* *
667000 GAT GAT GAA GAT AAT GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
667041 AGTTGATTCG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.39, C:0.00, G:0.32, T:0.29
Consensus pattern (3 bp):
GAT
Found at i:673059 original size:141 final size:141
Alignment explanation
Indices: 672888--673436 Score: 603
Period size: 142 Copynumber: 3.9 Consensus size: 141
672878 TTTTATCACT
* *
672888 AAATAAAGAATTATTATCTTAATTTTTCAAGACTTT-TAATA-TCCTTATAGTTTTCCGTAACGG
1 AAATAAA-AATTATTATCTTAATTTTTCAAGA-TTTCTAATATTCC-TATAGTTTTCCATAAGGG
* * * *
672951 TATATAAATATTTAAAATTTTTCGTATCTTTTCGGTTCTCCATTAAGGTATGAAATGAATTTTTT
63 TATAGAAATATTCAAAACTTTTCGTATCTTTTCGGTTCTCCATTAAGGTACGAAATGAATTTTTT
673016 GAAAATTAAAAATC
128 GAAAATTAAAAATC
* * * * *
673030 AAAAAAAAATTATTATCTTAATTTTTCAAGACTTCTAATATTCCTATGGTTTTTCATATGGGTAT
1 AAATAAAAATTATTATCTTAATTTTTCAAGATTTCTAATATTCCTATAGTTTTCCATAAGGGTAT
* * * *
673095 AGAAATATTCAAAACTTTTTGTATCTTTTCGATTCTCTATTAAGATACGAAATGAATTTTCTTGA
66 AGAAATATTCAAAACTTTTCGTATCTTTTCGGTTCTCCATTAAGGTACGAAATGAATTTT-TTGA
*
673160 AAATTAAGAATC
130 AAATTAAAAATC
*
673172 AAATAAAAATTATTA-CTTTAATTTTTCAAGATTTCTAATATTCCTATAGTTTTCCATAGGGGTA
1 AAATAAAAATTATTATC-TTAATTTTTCAAGATTTCTAATATTCCTATAGTTTTCCATAAGGGTA
* * * * * * * *
673236 TAAAAATTTTTAAAACTTTTCACT-TCTTTTCGGTTCTGCATTAAAGTACGAAGT-AAATTTTTG
65 TAGAAATATTCAAAACTTTTC-GTATCTTTTCGGTTCTCCATTAAGGTACGAAATGAATTTTTTG
* *
673299 GAAATTCAAAAGT-
129 AAAATT-AAAAATC
* * * * *
673312 AAATAAAAATTATTGTCTGAATTTTTTAAGATTTCT-ATAAT-CTA-AGATTTTCCGTAAGGGTA
1 AAATAAAAATTATTATCTTAATTTTTCAAGATTTCTAATATTCCTATAG-TTTTCCATAAGGGTA
* ** * * * *
673374 TAGAAATCTTCAAAACTTTTAATATCTTTTTGGATCTCCATTAAGGTACAAAATTAGATTTTT
65 TAGAAATATTCAAAACTTTTCGTATCTTTTCGGTTCTCCATTAAGGTACGAAATGA-ATTTTT
673437 GAACTTTACA
Statistics
Matches: 342, Mismatches: 54, Indels: 24
0.81 0.13 0.06
Matches are distributed among these distances:
137 3 0.01
138 57 0.17
139 5 0.01
140 46 0.13
141 108 0.32
142 122 0.36
143 1 0.00
ACGTcount: A:0.36, C:0.11, G:0.10, T:0.43
Consensus pattern (141 bp):
AAATAAAAATTATTATCTTAATTTTTCAAGATTTCTAATATTCCTATAGTTTTCCATAAGGGTAT
AGAAATATTCAAAACTTTTCGTATCTTTTCGGTTCTCCATTAAGGTACGAAATGAATTTTTTGAA
AATTAAAAATC
Found at i:676063 original size:155 final size:155
Alignment explanation
Indices: 675795--676073 Score: 375
Period size: 156 Copynumber: 1.8 Consensus size: 155
675785 TACCCAAAAC
* *
675795 CCCTAAAGGACCTAAAAAGGATTCTAGATGAGATGAACCTATCCTAAATACCCACCTTCGACATA
1 CCCTAAAGGACCTAAAAAGGATTCAAAATGAGATGAACCTATCCTAAATACCCACCTTCGACATA
* *
675860 AAAATATCCCGGTGACAACCTAAGACTCGATTCTAAAAAATTATC-AAAATGCCCTTAGAAGATA
66 AAAAGATCCCGATGACAACCTAAGACTCGATTCTAAAAAATTATCAAAAATGCCCTTAGAAGATA
675924 TATTCGATGGAGAAATGCTCGATAT
131 TATTCGATGGAGAAATGCTCGATAT
* * *
675949 CCCTAAAGGACTTAAAAAGGATTACAAAATGGGATGAACCTATCCTAAATACCTACCTTCGACAA
1 CCCTAAAGGACCTAAAAAGGATT-CAAAATGAGATGAACCTATCCTAAATACCCACCTTCGAC-A
* ** * * ** *
676014 TAAAACAGA-CCCGATGATAGTCTAAGACTTGGTTCTATCAAATTA-CAAAAATGCCTTTAG
64 TAAAA-AGATCCCGATGACAACCTAAGACTCGATTCTAAAAAATTATCAAAAATGCCCTTAG
676074 GGGATACCTT
Statistics
Matches: 106, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
154 22 0.21
155 36 0.34
156 46 0.43
157 2 0.02
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.24
Consensus pattern (155 bp):
CCCTAAAGGACCTAAAAAGGATTCAAAATGAGATGAACCTATCCTAAATACCCACCTTCGACATA
AAAAGATCCCGATGACAACCTAAGACTCGATTCTAAAAAATTATCAAAAATGCCCTTAGAAGATA
TATTCGATGGAGAAATGCTCGATAT
Found at i:676686 original size:17 final size:15
Alignment explanation
Indices: 676655--676697 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 15
676645 AACAAAAATA
676655 TTTATATATTATTTTAT
1 TTTAT-TATTATTTT-T
676672 TTTATTATTA-TTTT
1 TTTATTATTATTTTT
*
676686 TTTCTTATTATT
1 TTTATTATTATT
676698 GAAAATTTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 10 0.42
15 4 0.17
16 5 0.21
17 5 0.21
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTATTATTATTTTT
Found at i:677615 original size:8 final size:8
Alignment explanation
Indices: 677585--677640 Score: 51
Period size: 8 Copynumber: 6.6 Consensus size: 8
677575 TTTACCATGT
677585 TTTTTTTCC
1 TTTTTTT-C
677594 TTTTTCTTC
1 TTTTT-TTC
677603 ATTTTTTTC
1 -TTTTTTTC
677612 TTTTTTT-
1 TTTTTTTC
*
677619 TTTGTTTTG
1 TTT-TTTTC
*
677628 TTTTTTTG
1 TTTTTTTC
677636 TTTTT
1 TTTTT
677641 CTTTTCACTT
Statistics
Matches: 43, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
7 3 0.07
8 21 0.49
9 12 0.28
10 7 0.16
ACGTcount: A:0.02, C:0.09, G:0.05, T:0.84
Consensus pattern (8 bp):
TTTTTTTC
Found at i:677626 original size:19 final size:19
Alignment explanation
Indices: 677585--677645 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 19
677575 TTTACCATGT
* * *
677585 TTTTTTTCCTTTTTCTTCA
1 TTTTTTTCTTTTTTTTTTA
*
677604 TTTTTTTCTTTTTTTTTTG
1 TTTTTTTCTTTTTTTTTTA
* *
677623 TTTTGTTT-TTTTGTTTTTC
1 TTTT-TTTCTTTTTTTTTTA
677642 TTTT
1 TTTT
677646 CACTTGCTGC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 32 0.91
20 3 0.09
ACGTcount: A:0.02, C:0.10, G:0.05, T:0.84
Consensus pattern (19 bp):
TTTTTTTCTTTTTTTTTTA
Found at i:678692 original size:167 final size:166
Alignment explanation
Indices: 678211--678717 Score: 491
Period size: 167 Copynumber: 3.1 Consensus size: 166
678201 TATTAGATAC
** * * * *
678211 ATTTTAAAAATTTTAGACCAA-AGAAAATCCCCT-GAAAATATTTA-TGAAATAGAAAACTC-AG
1 ATTTTAAAAATTAAAAACCAAGA-AAAATCCCCTCGAAAAAATTTACAG-AGTAGAAAACTCTA-
* * * * * *
678272 TTTTTCGAGAAAAGGGAGATTTCAAAG-AAAAAATC-CAAACTCATGAAAATGAATGCATTTTTG
63 TTTTTC-ATAAAAGGAAAATTTCAAGGAAAAAAATCAAAAACTCATGAAAATGAATGAATTTTTG
* * * *
678335 AAAAATGATTTAATATAAAATAAATAATAACAGTTTACGA
127 AAAAATGATTTAATTTAAAATAAATAATAATATTTTATGA
* *** * *
678375 ATTTTAAAAATTAAAAACCAAG--AAA-CCCCCCCCCAAAA-TTACGGAGCAGAAAACT-TAATT
1 ATTTTAAAAATTAAAAACCAAGAAAAATCCCCTCGAAAAAATTTACAGAGTAGAAAACTCT-ATT
* * * * * * *
678435 TTT-TTGAAAATAAGAGAATTTCGAGGAAAAAATTTAAAAACTCATGAAAATGAATGAATTTTTC
65 TTTCAT--AAA-AGGAAAATTTCAAGGAAAAAAATCAAAAACTCATGAAAATGAATGAATTTTTG
* *
678499 AAAACTAATTT-ATTCTAAAATAAATAATAATATTTTATGA
127 AAAAATGATTTAATT-TAAAATAAATAATAATATTTTATGA
*
678539 ATTTTAAAAATTAAATACCAAGAAAAATCCCCTCGAAAAAATTTACAGAGTAGAAAACTCTATTT
1 ATTTTAAAAATTAAAAACCAAGAAAAATCCCCTCGAAAAAATTTACAGAGTAGAAAACTCTATTT
* * *
678604 TTCATAAACAGGAAAATTTCAAGGAAAAAAATCATAAACCCATGAGAATGAATGAATTTTTGAAA
66 TTCATAAA-AGGAAAATTTCAAGGAAAAAAATCAAAAACTCATGAAAATGAATGAATTTTTGAAA
* * *
678669 AATGATTTAATTTGAATTAAATAATAATATTTGATGA
130 AATGATTTAATTTAAAATAAATAATAATATTTTATGA
678706 ATTTTAAAAATT
1 ATTTTAAAAATT
678718 TTAAACCCAT
Statistics
Matches: 272, Mismatches: 53, Indels: 33
0.76 0.15 0.09
Matches are distributed among these distances:
161 24 0.09
162 17 0.06
163 8 0.03
164 95 0.35
166 3 0.01
167 99 0.36
168 24 0.09
169 2 0.01
ACGTcount: A:0.49, C:0.11, G:0.10, T:0.30
Consensus pattern (166 bp):
ATTTTAAAAATTAAAAACCAAGAAAAATCCCCTCGAAAAAATTTACAGAGTAGAAAACTCTATTT
TTCATAAAAGGAAAATTTCAAGGAAAAAAATCAAAAACTCATGAAAATGAATGAATTTTTGAAAA
ATGATTTAATTTAAAATAAATAATAATATTTTATGA
Found at i:680034 original size:16 final size:18
Alignment explanation
Indices: 680008--680042 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
679998 CCTACGTAGA
680008 ATAATAAATTT-GTTTTG
1 ATAATAAATTTAGTTTTG
680025 ATAA-AAATTTAGTTTTG
1 ATAATAAATTTAGTTTTG
680042 A
1 A
680043 CATTCGAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (18 bp):
ATAATAAATTTAGTTTTG
Found at i:683242 original size:20 final size:21
Alignment explanation
Indices: 683198--683251 Score: 83
Period size: 20 Copynumber: 2.6 Consensus size: 21
683188 TTTGACAATT
*
683198 TGTATCGATACAAATAGTAAA
1 TGTATCGATACATATAGTAAA
*
683219 TGTATCGATACATA-AGTGAA
1 TGTATCGATACATATAGTAAA
683239 TGTATCGATACAT
1 TGTATCGATACAT
683252 GCCTAAAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 18 0.58
21 13 0.42
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.31
Consensus pattern (21 bp):
TGTATCGATACATATAGTAAA
Found at i:689760 original size:20 final size:20
Alignment explanation
Indices: 689737--689774 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
689727 TGAAAAAAAA
689737 CAAAA-CAAACAAAAAAAGTG
1 CAAAAGCAAA-AAAAAAAGTG
689757 CAAAAGCAAAAAAAAAAG
1 CAAAAGCAAAAAAAAAAG
689775 GGAACAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.74, C:0.13, G:0.11, T:0.03
Consensus pattern (20 bp):
CAAAAGCAAAAAAAAAAGTG
Found at i:689785 original size:19 final size:19
Alignment explanation
Indices: 689737--689787 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
689727 TGAAAAAAAA
689737 CAAAACAAACAAAAAAAGTG
1 CAAAACAAA-AAAAAAAGTG
689757 CAAAAGCAAAAAAAAAAG-G
1 CAAAA-CAAAAAAAAAAGTG
*
689776 GAACAACAAAAA
1 CAA-AACAAAAA
689788 TTGCAAAACA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 9 0.32
20 15 0.54
21 4 0.14
ACGTcount: A:0.73, C:0.14, G:0.12, T:0.02
Consensus pattern (19 bp):
CAAAACAAAAAAAAAAGTG
Found at i:690694 original size:30 final size:30
Alignment explanation
Indices: 690650--690767 Score: 146
Period size: 30 Copynumber: 3.9 Consensus size: 30
690640 CTTTTAAAAA
** *
690650 TCCATGACCCAGTGGCATCTCTTTTCAAAG
1 TCCATGACTTAGTGGCATCTCTTCTCAAAG
* ** **
690680 CCCACAACTTAGTGGCATCTCTTCTTTAAG
1 TCCATGACTTAGTGGCATCTCTTCTCAAAG
* *
690710 TCCATGACTCAGTGGCATCTCTTCTCTAAG
1 TCCATGACTTAGTGGCATCTCTTCTCAAAG
690740 TCCATGACTTAGTGGCATCTCTTCTCAA
1 TCCATGACTTAGTGGCATCTCTTCTCAA
690768 GTATAAGACT
Statistics
Matches: 73, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 73 1.00
ACGTcount: A:0.22, C:0.30, G:0.15, T:0.33
Consensus pattern (30 bp):
TCCATGACTTAGTGGCATCTCTTCTCAAAG
Found at i:690750 original size:60 final size:59
Alignment explanation
Indices: 690650--690788 Score: 179
Period size: 60 Copynumber: 2.3 Consensus size: 59
690640 CTTTTAAAAA
* * *
690650 TCCATGACCCAGTGGCATCTCTTTTCAAAGCCCACAACTTAGTGGCATCTCTTCTTTAAG
1 TCCATGACTCAGTGGCATCTCTTCTCAAAGCCCACAACTTAGTGGCATCTCTTC-TCAAG
* * **
690710 TCCATGACTCAGTGGCATCTCTTCTCTAAGTCCATGACTTAGTGGCATCTCTTCTCAAG
1 TCCATGACTCAGTGGCATCTCTTCTCAAAGCCCACAACTTAGTGGCATCTCTTCTCAAG
** *
690769 TATAAGACTCAGTGGCATCT
1 TCCATGACTCAGTGGCATCT
690789 TTGAAAGTCC
Statistics
Matches: 69, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
59 21 0.30
60 48 0.70
ACGTcount: A:0.23, C:0.28, G:0.17, T:0.32
Consensus pattern (59 bp):
TCCATGACTCAGTGGCATCTCTTCTCAAAGCCCACAACTTAGTGGCATCTCTTCTCAAG
Found at i:690991 original size:33 final size:33
Alignment explanation
Indices: 690933--691336 Score: 369
Period size: 32 Copynumber: 12.4 Consensus size: 33
690923 CACATATGCT
*
690933 GGTGGCAACCC-CTTCTAAAGCCCACACAAGTC
1 GGTGGCAACCCTTTTCTAAAGCCCACACAAGTC
* * * *
690965 AGTGGCAACCCTTTTCTAAAGGCCACATAAGTT
1 GGTGGCAACCCTTTTCTAAAGCCCACACAAGTC
* *
690998 TGTGGCAA-CCTCTTCTAAAGCCCACACAAGTC
1 GGTGGCAACCCTTTTCTAAAGCCCACACAAGTC
* * *
691030 GATGGCAACCCCTTTCTAAAGCCCACACAAGTT
1 GGTGGCAACCCTTTTCTAAAGCCCACACAAGTC
* *
691063 GGTAGCAACCCTCTTT-TAAAGCCCACTCAAGTC
1 GGTGGCAACCCT-TTTCTAAAGCCCACACAAGTC
** * *
691096 GGTGATAACCCTTCTTCTAAAACCCATACAAGTC
1 GGTGGCAACCCTT-TTCTAAAGCCCACACAAGTC
** * * *
691130 AATGGCAACCC-TCTCTAAAGCCCACCCAAGCC
1 GGTGGCAACCCTTTTCTAAAGCCCACACAAGTC
** * *
691162 GGTGGCAGTCC-TCTCTAAAGCCCACATAAG-C
1 GGTGGCAACCCTTTTCTAAAGCCCACACAAGTC
* * * *
691193 TAGTGGCAACCCCTCTC-AAAGCCCAAACAAG-C
1 -GGTGGCAACCCTTTTCTAAAGCCCACACAAGTC
* *
691225 TAGTGGCAACCC-CTTCTAAAGCCCACACAAGTC
1 -GGTGGCAACCCTTTTCTAAAGCCCACACAAGTC
* * * *
691258 GATGGCAACCCTTCTCTAAAGCTCAAACAAGTC
1 GGTGGCAACCCTTTTCTAAAGCCCACACAAGTC
691291 GGTGGCAA-CCTTTCTCTAAAGCCCACACAAGTC
1 GGTGGCAACCCTTT-TCTAAAGCCCACACAAGTC
*
691324 GGTGGGAACCCTT
1 GGTGGCAACCCTT
691337 CTAAGCCCAA
Statistics
Matches: 300, Mismatches: 60, Indels: 22
0.79 0.16 0.06
Matches are distributed among these distances:
31 3 0.01
32 135 0.45
33 134 0.45
34 28 0.09
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.20
Consensus pattern (33 bp):
GGTGGCAACCCTTTTCTAAAGCCCACACAAGTC
Found at i:691583 original size:52 final size:52
Alignment explanation
Indices: 691526--692071 Score: 202
Period size: 52 Copynumber: 10.5 Consensus size: 52
691516 GATGTTGCTG
** *
691526 GCCTTGAATCAGCATATTGTTACCTTTACCATCTCTAAGTCCAATATCGCTA
1 GCCTTGAATCAGCATATTGGCACCTTTACCATCTCTAAGTCCAATATCACTA
** * ** *
691578 GCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCTGATATCACTG
1 GCCTTGAATCAGCATATTGGCACCTTTACCATCTCTAAGTCCAATATCACTA
* * ** * * *
691630 GCCTTGTATCAGCATATTGGCATCTTTGTCAT-TCCCAAG-CCTAATGTCACTG
1 GCCTTGAATCAGCATATTGGCACCTTTACCATCT-CTAAGTCC-AATATCACTA
* * * * * * * * *
691682 GCCTTGAATTAACACATTGGCA--TTCTTCTCATCT-TCGAGTCTACTATCGCTG
1 GCCTTGAATCAGCATATTGGCACCTT-TAC-CATCTCT-AAGTCCAATATCACTA
* * * * * * *
691734 GCCTTGAATCAGCACATTGGCA--TTCATCTAATTTTTACA-TCTAATGTCACTA
1 GCCTTGAATCAGCATATTGGCACCTTTA-C-CATCTCTA-AGTCCAATATCACTA
* * * ** * * * * * **
691786 GCCTTGAATTAGCACATTGGC-CATTTTATTATGTTTATGTCTAATGTTGCTA
1 GCCTTGAATCAGCATATTGGCAC-CTTTACCATCTCTAAGTCCAATATCACTA
* * * * * * *
691838 ACCTTGAATCAGCACATTGGCA-TTCTTATCATCTTTAAGTCCAATGTCGCTA
1 GCCTTGAATCAGCATATTGGCACCT-TTACCATCTCTAAGTCCAATATCACTA
** * * * ** *
691890 GCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGTTCGATATTGCTG
1 GCCTTGAATCAGCATATTGGCACCTTTACCATCTCTAAGTCCAATATCACTA
* * * * * **
691942 GTCTTGAATCAGCATATTGGCACTTCTATTATCATGTTTAAGTCCAATGTTGCTA
1 GCCTTGAATCAGCATATTGGCAC--CT-TTACCATCTCTAAGTCCAATATCACTA
** * * * *
691997 GCCTTGAATCAGCACGTTGGCA--TTCTTCTCATCT-TCAGTCCAATGTCATTA
1 GCCTTGAATCAGCATATTGGCACCTT-TAC-CATCTCTAAGTCCAATATCACTA
692048 GCCTTGAATCAGC-TCATTGGCACC
1 GCCTTGAATCAGCAT-ATTGGCACC
692072 CTTCTCATCC
Statistics
Matches: 387, Mismatches: 82, Indels: 49
0.75 0.16 0.09
Matches are distributed among these distances:
50 3 0.01
51 39 0.10
52 295 0.76
53 5 0.01
54 5 0.01
55 40 0.10
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (52 bp):
GCCTTGAATCAGCATATTGGCACCTTTACCATCTCTAAGTCCAATATCACTA
Found at i:691686 original size:104 final size:104
Alignment explanation
Indices: 691575--692018 Score: 359
Period size: 104 Copynumber: 4.2 Consensus size: 104
691565 TCCAATATCG
* * *
691575 CTAGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCTGATATCACTGGCCTTGTATC
1 CTAGCCTTGAATCAGCACATTGGCACCTTTGTCATCTTTAAGTCTGATATCGCTGGCCTTGAATC
* * **
691640 AGCATATTGGCA-TCTTTGTCATTCCCAAGCCTAATGTCA
66 AGCACATTGGCATTC-TTATCATTCTTAAGCCTAATGTCA
* * * * * **
691679 CTGGCCTTGAATTAACACATTGGCA-TTCTTCTCATCTTCGAGTCT-ACTATCGCTGGCCTTGAA
1 CTAGCCTTGAATCAGCACATTGGCACCT-TTGTCATCTTTAAGTCTGA-TATCGCTGGCCTTGAA
* * * * *
691742 TCAGCACATTGGCATTCATCTAATTTTTACA-TCTAATGTCA
64 TCAGCACATTGGCATTCTTATCATTCTTA-AGCCTAATGTCA
* * * * * * * * * **
691783 CTAGCCTTGAATTAGCACATTGGC-CATTTTATTATGTTTATGTCTAATGTTGCTAACCTTGAAT
1 CTAGCCTTGAATCAGCACATTGGCAC-CTTTGTCATCTTTAAGTCTGATATCGCTGGCCTTGAAT
*
691847 CAGCACATTGGCATTCTTATCA-TCTTTAAGTCC-AATGTCG
65 CAGCACATTGGCATTCTTATCATTC-TTAAG-CCTAATGTCA
* * *
691887 CTAGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGT-TCGATATTGCTGGTCTTGAAT
1 CTAGCCTTGAATCAGCACATTGGCACCTTTGTCATCTTTAAGTCT-GATATCGCTGGCCTTGAAT
* **
691951 CAGCATATTGGCACTTCTATTATCATGT-TTAAGTCC-AATGTTG
65 CAGCACATTGGCA-TTC--TTATCAT-TCTTAAG-CCTAATGTCA
*
691994 CTAGCCTTGAATCAGCACGTTGGCA
1 CTAGCCTTGAATCAGCACATTGGCA
692019 TTCTTCTCAT
Statistics
Matches: 271, Mismatches: 52, Indels: 31
0.77 0.15 0.09
Matches are distributed among these distances:
103 5 0.02
104 211 0.78
105 11 0.04
107 43 0.16
109 1 0.00
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.37
Consensus pattern (104 bp):
CTAGCCTTGAATCAGCACATTGGCACCTTTGTCATCTTTAAGTCTGATATCGCTGGCCTTGAATC
AGCACATTGGCATTCTTATCATTCTTAAGCCTAATGTCA
Found at i:691746 original size:156 final size:155
Alignment explanation
Indices: 691562--692080 Score: 460
Period size: 156 Copynumber: 3.3 Consensus size: 155
691552 TACCATCTCT
691562 AAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCTGATATCA
1 AAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCTGATATCA
* * **
691627 CTGGCCTTGTATCAGCATATTGGCATCTTTGTCAT-TCCCAAGCCTAATGTCACTGGCCTTGAAT
66 CTGGCCTTGAATCAGCATATTGGCAT-TTTATCATGT-CCAAGCCTAATGTCACTAACCTTGAAT
* *
691691 TAACACATTGGCATTCTTCTCATCTTC
129 CAACACATTGGCATTCTTATCATCTTC
* * * * * * * * * *
691718 GAGTCTACTATCGCTGGCCTTGAATCAGCACATTGGCA--TTCATCTAATTTTTACA-TCTAATG
1 AAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTT--TGTCATCTTTA-AGTCTGATA
* * * * ** * * **
691780 TCACTAGCCTTGAATTAGCACATTGGCCATTTTATTATGTTTATGTCTAATGTTGCTAACCTTGA
63 TCACTGGCCTTGAATCAGCATATTGG-CATTTTATCATGTCCAAGCCTAATGTCACTAACCTTGA
* *
691845 ATCAGCACATTGGCATTCTTATCATCTTT
127 ATCAACACATTGGCATTCTTATCATCTTC
* *
691874 AAGTCCAATGTCGCTAGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGT-TCGATATT
1 AAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCT-GATATC
* * ** ** *
691938 GCTGGTCTTGAATCAGCATATTGGCACTTCTATTATCATGTTTAAGTCC-AATGTTGCTAGCCTT
65 ACTGGCCTTGAATCAGCATATTGGCA--T-T-TTATCATGTCCAAG-CCTAATGTCACTAACCTT
* * *
692002 GAATCAGCACGTTGGCATTCTTCTCATCTTC
125 GAATCAACACATTGGCATTCTTATCATCTTC
* ** * *
692033 -AGTCCAATGTCATTAGCCTTGAATCAGC-TCATTGGCACCCTTCTCATC
1 AAGTCCAATATCGCTAGCCTTGAATCAGCAT-ATTGGCACCTTTGTCATC
692081 CTTATCATGT
Statistics
Matches: 292, Mismatches: 56, Indels: 28
0.78 0.15 0.07
Matches are distributed among these distances:
154 2 0.01
155 4 0.01
156 179 0.61
157 7 0.02
158 45 0.15
159 54 0.18
160 1 0.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (155 bp):
AAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCTGATATCA
CTGGCCTTGAATCAGCATATTGGCATTTTATCATGTCCAAGCCTAATGTCACTAACCTTGAATCA
ACACATTGGCATTCTTATCATCTTC
Found at i:692734 original size:21 final size:21
Alignment explanation
Indices: 692705--692776 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 21
692695 TCTGCAATTT
*
692705 TATCCATACATATAGTAAATG
1 TATCGATACATATAGTAAATG
* *
692726 TATCGATACATA-AGTGAATT
1 TATCGATACATATAGTAAATG
*
692746 TATCAATACATACCTA--AAATG
1 TATCGATACATA--TAGTAAATG
692767 TATCGATACA
1 TATCGATACA
692777 AAACCACCCT
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
20 17 0.41
21 23 0.56
23 1 0.02
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.32
Consensus pattern (21 bp):
TATCGATACATATAGTAAATG
Found at i:692754 original size:20 final size:21
Alignment explanation
Indices: 692703--692757 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
692693 TTTCTGCAAT
*
692703 TTTATCCATACATATAGTAAA
1 TTTATCAATACATATAGTAAA
* * *
692724 TGTATCGATACATA-AGTGAA
1 TTTATCAATACATATAGTAAA
692744 TTTATCAATACATA
1 TTTATCAATACATA
692758 CCTAAAATGT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.42, C:0.13, G:0.09, T:0.36
Consensus pattern (21 bp):
TTTATCAATACATATAGTAAA
Found at i:692829 original size:20 final size:20
Alignment explanation
Indices: 692801--692859 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
692791 ATTGCCAAGG
*
692801 AAATATATCGATACATTAGT
1 AAATGTATCGATACATTAGT
***
692821 AAATGTATCGATACATGCTT
1 AAATGTATCGATACATTAGT
692841 ACAATTGTATCGATACATT
1 A-AA-TGTATCGATACATT
692860 TCTCATTGTG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 17 0.53
21 2 0.06
22 13 0.41
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.36
Consensus pattern (20 bp):
AAATGTATCGATACATTAGT
Found at i:697012 original size:24 final size:24
Alignment explanation
Indices: 696974--697026 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
696964 GTGAAATAAT
* *
696974 GCAAATGCAAGCATCAATAAATAG
1 GCAAATGCAAACATCAATAAAGAG
* **
696998 GCAAATGTAAACATCCGTAAAGAG
1 GCAAATGCAAACATCAATAAAGAG
697022 GCAAA
1 GCAAA
697027 CACATATCAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.49, C:0.17, G:0.19, T:0.15
Consensus pattern (24 bp):
GCAAATGCAAACATCAATAAAGAG
Found at i:697423 original size:26 final size:26
Alignment explanation
Indices: 697391--697443 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
697381 TGCAAACACT
*
697391 TATGTCATTTAAAATGTAGATATGTA
1 TATGTCATTTAAAATGTAGATACGTA
697417 TATGTCATTTAAAATGTAGATACGTA
1 TATGTCATTTAAAATGTAGATACGTA
697443 T
1 T
697444 GAAATGATGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.06, G:0.15, T:0.42
Consensus pattern (26 bp):
TATGTCATTTAAAATGTAGATACGTA
Found at i:698702 original size:10 final size:11
Alignment explanation
Indices: 698674--698745 Score: 56
Period size: 11 Copynumber: 6.2 Consensus size: 11
698664 TTCTTTTTCT
698674 TTTTCTTTTATTG
1 TTTT-TTTT-TTG
698687 CTTTTTTTTTTG
1 -TTTTTTTTTTG
698699 TTTTTTTTTTG
1 TTTTTTTTTTG
*
698710 TTTTTCATTTT-
1 TTTTT-TTTTTG
** *
698721 TTTCCTTTTTC
1 TTTTTTTTTTG
698732 TTTTTTCTTTTG
1 TTTTTT-TTTTG
698744 TT
1 TT
698746 GTTTCTTATT
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
10 4 0.08
11 23 0.48
12 13 0.27
13 4 0.08
14 4 0.08
ACGTcount: A:0.03, C:0.10, G:0.06, T:0.82
Consensus pattern (11 bp):
TTTTTTTTTTG
Found at i:698729 original size:7 final size:6
Alignment explanation
Indices: 698662--698742 Score: 62
Period size: 6 Copynumber: 13.5 Consensus size: 6
698652 TATTTGACAC
* *
698662 TTTTCT TTTTCT TTTTCTT TTATTGCT TTTT-T TTTTGT TTTT-T TTTTGT
1 TTTTCT TTTTCT TTTTC-T TT-TT-CT TTTTCT TTTTCT TTTTCT TTTTCT
* *
698711 TTTTC- ATTT-T TTTCCT TTTTCTT TTTTCT TTT
1 TTTTCT TTTTCT TTTTCT TTTTC-T TTTTCT TTT
698743 GTTGTTTCTT
Statistics
Matches: 62, Mismatches: 5, Indels: 16
0.75 0.06 0.19
Matches are distributed among these distances:
5 15 0.24
6 30 0.48
7 11 0.18
8 5 0.08
9 1 0.02
ACGTcount: A:0.02, C:0.11, G:0.04, T:0.83
Consensus pattern (6 bp):
TTTTCT
Found at i:698748 original size:37 final size:37
Alignment explanation
Indices: 698673--698749 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 37
698663 TTTCTTTTTC
* * * *
698673 TTTTTCTTTTATTGCTTTTTTTTTTGTTTTTTTTTTG
1 TTTTTCTTTTATTCCTTTTTCTTTTGTTCTTTTGTTG
*
698710 TTTTTCATTTTTTTCCTTTTTCTTTT-TTCTTTTGTTG
1 TTTTTC-TTTTATTCCTTTTTCTTTTGTTCTTTTGTTG
698747 TTT
1 TTT
698750 CTTATTTAGA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
37 18 0.53
38 16 0.47
ACGTcount: A:0.03, C:0.09, G:0.06, T:0.82
Consensus pattern (37 bp):
TTTTTCTTTTATTCCTTTTTCTTTTGTTCTTTTGTTG
Found at i:700446 original size:13 final size:13
Alignment explanation
Indices: 700428--700452 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
700418 CATTATGCTT
700428 TGTATCGATACAA
1 TGTATCGATACAA
700441 TGTATCGATACA
1 TGTATCGATACA
700453 TGTTAATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:700465 original size:19 final size:19
Alignment explanation
Indices: 700441--700512 Score: 117
Period size: 19 Copynumber: 3.7 Consensus size: 19
700431 ATCGATACAA
700441 TGTATCGATACATGTTAAT
1 TGTATCGATACATGTTAAT
700460 TGTATCGATACATGTTAAT
1 TGTATCGATACATGTTAAT
**
700479 TGTATCGATACATGGACAAT
1 TGTATCGATACAT-GTTAAT
700499 TGTATCGATACATG
1 TGTATCGATACATG
700513 AGATTGGAAG
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
19 33 0.66
20 17 0.34
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATGTTAAT
Found at i:709087 original size:13 final size:13
Alignment explanation
Indices: 709069--709093 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
709059 CATTATGCTT
709069 TGTATCGATACAA
1 TGTATCGATACAA
709082 TGTATCGATACA
1 TGTATCGATACA
709094 TGTTAATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:709123 original size:20 final size:20
Alignment explanation
Indices: 709078--709134 Score: 82
Period size: 20 Copynumber: 3.0 Consensus size: 20
709068 TTGTATCGAT
709078 ACAA-TGTATCGATACAT-G
1 ACAATTGTATCGATACATGG
**
709096 TTAATTGTATCGATACATGG
1 ACAATTGTATCGATACATGG
709116 ACAATTGTATCGATACATG
1 ACAATTGTATCGATACATG
709135 AGATTGGCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
18 2 0.06
19 13 0.39
20 18 0.55
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (20 bp):
ACAATTGTATCGATACATGG
Found at i:709199 original size:63 final size:63
Alignment explanation
Indices: 709100--709259 Score: 286
Period size: 63 Copynumber: 2.5 Consensus size: 63
709090 TACATGTTAA
*
709100 TTGTATCGATACATGGACAATTGTATCGATACATGAGATTGGCAGTAGCTACCCTACCACTGT
1 TTGTATCGATACATGGACAATTGTATCGATACATGAGATTGGCAGTAGCTACCCTACCACTAT
709163 TTGTATCGATACATGGACAATTGTATCGATACATGAGATTGGCAGTAGCTACCCTACCACTAT
1 TTGTATCGATACATGGACAATTGTATCGATACATGAGATTGGCAGTAGCTACCCTACCACTAT
*
709226 TTGTATCGATACATGGTATAA-TGTATCGATACAT
1 TTGTATCGATACATGG-ACAATTGTATCGATACAT
709260 TATATCGATA
Statistics
Matches: 94, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
63 91 0.97
64 3 0.03
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (63 bp):
TTGTATCGATACATGGACAATTGTATCGATACATGAGATTGGCAGTAGCTACCCTACCACTAT
Found at i:709271 original size:33 final size:33
Alignment explanation
Indices: 709229--709292 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 33
709219 CCACTATTTG
709229 TATCGATACATGGTAT-AA-TGTATCGATACATTA
1 TATCGATACAT-G-ATGAATTGTATCGATACATTA
709262 TATCGATACATGATGAATTGTATCGATACAT
1 TATCGATACATGATGAATTGTATCGATACAT
709293 AGCTTGTAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
31 2 0.07
32 3 0.10
33 24 0.83
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (33 bp):
TATCGATACATGATGAATTGTATCGATACATTA
Found at i:711673 original size:55 final size:54
Alignment explanation
Indices: 711600--711715 Score: 189
Period size: 55 Copynumber: 2.1 Consensus size: 54
711590 GAAGATAGGA
*
711600 CTTCTGTGTTGCTAGCTTGAAATAGAGGAAAAAATAGGGGAAGGTTTCGATTTT
1 CTTCTGTGTTGCTAGCTTGAAATAAAGGAAAAAATAGGGGAAGGTTTCGATTTT
* *
711654 CTTCGTGTGTTGCTAGCTTGAAATAAAGGAAAAAATAGGGGAAGGTTTTGGTTTT
1 CTTC-TGTGTTGCTAGCTTGAAATAAAGGAAAAAATAGGGGAAGGTTTCGATTTT
711709 CTT-TGTG
1 CTTCTGTG
711716 ATTACGAGTC
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
53 4 0.07
54 4 0.07
55 50 0.86
ACGTcount: A:0.28, C:0.09, G:0.28, T:0.35
Consensus pattern (54 bp):
CTTCTGTGTTGCTAGCTTGAAATAAAGGAAAAAATAGGGGAAGGTTTCGATTTT
Found at i:712860 original size:33 final size:33
Alignment explanation
Indices: 712818--712884 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
712808 AAAAGCACTA
*
712818 AAGTGCTCATTCATGTGCTACGAGAGTGAAGTG
1 AAGTGCTCATTCATGTGCTACGAAAGTGAAGTG
712851 AAGTGCTCATTCATGTGCTACGAAAGTGAAGTG
1 AAGTGCTCATTCATGTGCTACGAAAGTGAAGTG
712884 A
1 A
712885 TCAACTTTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (33 bp):
AAGTGCTCATTCATGTGCTACGAAAGTGAAGTG
Found at i:717858 original size:20 final size:20
Alignment explanation
Indices: 717833--717934 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
717823 TTTAAACTAG
717833 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
717853 ATGTATCGATACATCTGGGTAAAAAGACAGA
1 ATGTATCGATACAT-T--G-----A-A-A-A
*
717884 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAAAA
717904 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
717924 ATGTATCGATA
1 ATGTATCGATA
717935 TATCTGGGTA
Statistics
Matches: 69, Mismatches: 2, Indels: 22
0.74 0.02 0.24
Matches are distributed among these distances:
20 45 0.65
21 1 0.01
22 1 0.01
23 2 0.03
28 2 0.03
29 1 0.01
30 2 0.03
31 15 0.22
ACGTcount: A:0.42, C:0.11, G:0.19, T:0.28
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:725244 original size:20 final size:21
Alignment explanation
Indices: 725200--725253 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
725190 TTGTACAGTT
*
725200 TGTATTGATACAAATAGTAAA
1 TGTATTGATACATATAGTAAA
* *
725221 TGTATCGATACATA-AGTGAA
1 TGTATTGATACATATAGTAAA
725241 TGTATTGATACAT
1 TGTATTGATACAT
725254 GCCTAAAATG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.41, C:0.07, G:0.17, T:0.35
Consensus pattern (21 bp):
TGTATTGATACATATAGTAAA
Found at i:726416 original size:19 final size:20
Alignment explanation
Indices: 726392--726445 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 20
726382 ACATCATGCT
**
726392 TTGTATCGATACATGTTC-A
1 TTGTATCGATACATGCACAA
*
726411 TTGTATCGATACATACACAA
1 TTGTATCGATACATGCACAA
726431 TTGTATCGATACATG
1 TTGTATCGATACATG
726446 AAACTGGCAG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATGCACAA
Found at i:728123 original size:15 final size:15
Alignment explanation
Indices: 728103--728137 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
728093 AACCATCAAA
728103 GATGATAAAGATAAT
1 GATGATAAAGATAAT
* *
728118 GATGATGATGATAAT
1 GATGATAAAGATAAT
728133 GATGA
1 GATGA
728138 AGTTGACTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.26, T:0.29
Consensus pattern (15 bp):
GATGATAAAGATAAT
Found at i:730980 original size:10 final size:10
Alignment explanation
Indices: 730965--730992 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
730955 AAGTGAAAGT
730965 GAAAATATTA
1 GAAAATATTA
730975 GAAAATATTA
1 GAAAATATTA
730985 GAAAATAT
1 GAAAATAT
730993 ACCAACGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.11, T:0.29
Consensus pattern (10 bp):
GAAAATATTA
Found at i:732289 original size:28 final size:28
Alignment explanation
Indices: 732193--733404 Score: 415
Period size: 28 Copynumber: 43.6 Consensus size: 28
732183 GGTGTCACTA
*
732193 ACTTGTGTAGGCTTTGAAAAGAGTTGCCACCG
1 ACTTGTG--GGCTTTG-AAAG-GGTGCCACCG
**
732225 ACTTGTGTGGGCTTTGAAAGGGTATGCCATTG
1 AC-T-TGTGGGCTTTGAAAGGG--TGCCACCG
* *
732257 ACTTGTGGGTTTTGAAATGGTGCCACCG
1 ACTTGTGGGCTTTGAAAGGGTGCCACCG
* * * *
732285 ACTTGTTGGCTTTGAAAAGATGCCACTG
1 ACTTGTGGGCTTTGAAAGGGTGCCACCG
*
732313 ACTTGTGGGCTTTGAAAAGGGTGCCACTTG
1 ACTTGTGGGCTTTG-AAAGGGTGCCAC-CG
* * * *
732343 -CTTGTGGACTTTGGAAGGGTGTCATCG
1 ACTTGTGGGCTTTGAAAGGGTGCCACCG
* ** * *
732370 ACTTATGGGCTTAAAAAAGGTGCCACTG
1 ACTTGTGGGCTTTGAAAGGGTGCCACCG
* * * *
732398 ACTTGTGGACTTTGAAAAGATGCCACTG
1 ACTTGTGGGCTTTGAAAGGGTGCCACCG
** ** * **
732426 ACCCGTGGGCTTCCAATA-GATGCCACTA
1 ACTTGTGGGCTTTGAA-AGGGTGCCACCG
**
732454 AGC-TGTGGGCTTTG--AGGAGATGCCACTA
1 A-CTTGTGGGCTTTGAAAGG-G-TGCCACCG
*** *
732482 ACTTGTGGGCTTTGAAAAAATGCCACTG
1 ACTTGTGGGCTTTGAAAGGGTGCCACCG
* * *
732510 ACTTGTGGGCTTTGAAATGATGCCA-CT
1 ACTTGTGGGCTTTGAAAGGGTGCCACCG
** ** **
732537 ACCTTGTGGGCTTAAAAATAGTGCCACTA
1 A-CTTGTGGGCTTTGAAAGGGTGCCACCG
* *
732566 ACTTGTGAGCTTTGGAAAGGGTGCCACTTG
1 ACTTGTGGGCTTT-GAAAGGGTGCCAC-CG
* *
732596 -CTTGTGCGCTTTGGAAGGGTGCCACCG
1 ACTTGTGGGCTTTGAAAGGGTGCCACCG
** * *
732623 ACTACTGGG-ATTAAAAGGGATGCCACTC-
1 ACTTGTGGGCTTTGAAAGGG-TGCCAC-CG
* * **
732651 ACCTATGGGCTTTG--A---TGCCACTA
1 ACTTGTGGGCTTTGAAAGGGTGCCACCG
* * * * **
732674 ACCTATGGGTTTTG-AAGAGATGCCACTA
1 ACTTGTGGGCTTTGAAAG-GGTGCCACCG
** *
732702 ACTTGTGGGCTTTGAAAGAATGCCACTG
1 ACTTGTGGGCTTTGAAAGGGTGCCACCG
* * * **
732730 ACCTATGGGCTTT-AAAGAGATGCCATTG
1 ACTTGTGGGCTTTGAAAG-GGTGCCACCG
* *
732758 ACTTATGGGCTTTGAAAAGGGTTGCCACTG
1 ACTTGTGGGCTTTG-AAAGGG-TGCCACCG
** * *
732788 ACTTGTGGGCTTT-AAAGATATGCTACTG
1 ACTTGTGGGCTTTGAAAG-GGTGCCACCG
* **
732816 ACTTATAGGG----G--A---TGCCACTA
1 ACTTGT-GGGCTTTGAAAGGGTGCCACCG
* * **
732836 ACCTGTGGGCTTTG-AAGAGATGCCACTA
1 ACTTGTGGGCTTTGAAAG-GGTGCCACCG
* * *
732864 ACTTAT-GG----G---GGATGCCACTG
1 ACTTGTGGGCTTTGAAAGGGTGCCACCG
* * * **
732884 ACCTGTGGCCTTTG-AAGAGATGCCACTA
1 ACTTGTGGGCTTTGAAAG-GGTGCCACCG
* * *
732912 ACTTGTGAGCTTTGAAAGGATGCCA-CT
1 ACTTGTGGGCTTTGAAAGGGTGCCACCG
* * * * *
732939 ACCTTGTTGACTTTGAAAAGATGCCACTG
1 A-CTTGTGGGCTTTGAAAGGGTGCCACCG
* * **
732968 ACTTGTGGGCTTTGAAATGGTGTCACTA
1 ACTTGTGGGCTTTGAAAGGGTGCCACCG
* * * *
732996 ACTTGTTGGCTTTGAAAAGATGCCACTG
1 ACTTGTGGGCTTTGAAAGGGTGCCACCG
* * * **
733024 ACTTGTCGGCTTTGAAATGATGCCACTA
1 ACTTGTGGGCTTTGAAAGGGTGCCACCG
** *
733052 ACTTGTGGGCTTTGAAATAGTGCCACTG
1 ACTTGTGGGCTTTGAAAGGGTGCCACCG
*** *
733080 ACTTGTGGGCTTTGAAAAAAATGCCACTTG
1 ACTTGTGGGCTTTG-AAAGGGTGCCAC-CG
* *
733110 -CTTATGGGCTTTTG-AA-GGTGCCA-CT
1 ACTTGTGGGC-TTTGAAAGGGTGCCACCG
** **
733135 ACTTGTGGGCTTAAAAAGGGTGCCACTT
1 ACTTGTGGGCTTTGAAAGGGTGCCACCG
* * * *
733163 ACTTATGGACTTTGAAAGGATGCCACTG
1 ACTTGTGGGCTTTGAAAGGGTGCCACCG
* * * **
733191 ACTTATGGGCTTTGAAATGATGCCACTA
1 ACTTGTGGGCTTTGAAAGGGTGCCACCG
* ** *
733219 ACTTGGGGGCTTTGAAATAGTGCCACTG
1 ACTTGTGGGCTTTGAAAGGGTGCCACCG
*
733247 ACTTGTGGGCTTTGAAAAGGGTGCCACTTG
1 ACTTGTGGGCTTTG-AAAGGGTGCCAC-CG
* *
733277 -CTTGTGGGCTTTGGAAGTGTGCCACCG
1 ACTTGTGGGCTTTGAAAGGGTGCCACCG
* * * **
733304 ACTTATGGG-TTTAAAAAAGGTGCCACTA
1 ACTTGTGGGCTTT-GAAAGGGTGCCACCG
* ** *
733332 ACTTGTGGGCTTTGAAAGGATGGTACTG
1 ACTTGTGGGCTTTGAAAGGGTGCCACCG
* * * *
733360 ACCTGTGGGCTTTGAAAAGATGCCACTG
1 ACTTGTGGGCTTTGAAAGGGTGCCACCG
733388 ACTTGTGGGCTTT-AAAG
1 ACTTGTGGGCTTTGAAAG
733405 AGATGCCATT
Statistics
Matches: 923, Mismatches: 188, Indels: 143
0.74 0.15 0.11
Matches are distributed among these distances:
19 3 0.00
20 23 0.02
21 2 0.00
23 21 0.02
24 3 0.00
25 4 0.00
26 11 0.01
27 39 0.04
28 635 0.69
29 104 0.11
30 51 0.06
31 5 0.01
32 17 0.02
33 1 0.00
34 4 0.00
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (28 bp):
ACTTGTGGGCTTTGAAAGGGTGCCACCG
Found at i:732318 original size:56 final size:56
Alignment explanation
Indices: 732179--733846 Score: 1104
Period size: 56 Copynumber: 30.1 Consensus size: 56
732169 GGTTTAAAAA
* * * * *
732179 AAAAGGTGTCACTAACTTGTGTAGGCTTTGAAAAGAGTTGCCACCGACTTGTGTGGGCTTTG
1 AAAAGATGCCACTGACTTGTG--GGCTTTGAAATG-G-TGCCACTGAC-T-TGTGGGCTTTG
* * * * *
732241 AAAGGGTATGCCATTGACTTGTGGGTTTTGAAATGGTGCCACCGACTTGTTGGCTTTG
1 AAA-AG-ATGCCACTGACTTGTGGGCTTTGAAATGGTGCCACTGACTTGTGGGCTTTG
* *
732299 AAAAGATGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTTG-CTTGTGGACTTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTG-AAATGGTGCCAC-TGACTTGTGGGCTTTG
* * * * * ** * *
732356 GAAGGGTGTCA-TCGACTTATGGGCTTAAAAAAGGTGCCACTGACTTGTGGACTTTG
1 AAAAGATGCCACT-GACTTGTGGGCTTTGAAATGGTGCCACTGACTTGTGGGCTTTG
** ** * *
732412 AAAAGATGCCACTGACCCGTGGGC-TTCCAATAGATGCCACTAAGC-TGTGGGCTTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTGAAAT-GGTGCCACTGA-CTTGTGGGCTTTG
** * ***
732468 AGGAGATGCCACTAACTTGTGGGCTTTGAAAAAATGCCACTGACTTGTGGGCTTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTGAAATGGTGCCACTGACTTGTGGGCTTTG
* ** * * *
732524 AAATGATGCCACT-ACCTTGTGGGCTTAAAAATAGTGCCACTAACTTGTGAGCTTTGG
1 AAAAGATGCCACTGA-CTTGTGGGCTTTGAAATGGTGCCACTGACTTGTGGGCTTT-G
* * * * * * ** *
732581 AAAGGGTGCCACTTG-CTTGTGCGCTTTGGAAGGGTGCCACCGACTACTGGG-ATT-
1 AAAAGATGCCAC-TGACTTGTGGGCTTTGAAATGGTGCCACTGACTTGTGGGCTTTG
* * * * * * *
732635 AAAAGGGATGCCACTCACCTATGGGCTTTG--A---TGCCACTAACCTATGGGTTTTG
1 AAAA--GATGCCACTGACTTGTGGGCTTTGAAATGGTGCCACTGACTTGTGGGCTTTG
* * * * *
732688 AAGAGATGCCACTAACTTGTGGGCTTTGAAA-GAATGCCACTGACCTATGGGCTTT-
1 AAAAGATGCCACTGACTTGTGGGCTTTGAAATG-GTGCCACTGACTTGTGGGCTTTG
* * *
732743 AAAGAGATGCCATTGACTTATGGGCTTTGAAAAGGGTTGCCACTGACTTGTGGGCTTT-
1 AAA-AGATGCCACTGACTTGTGGGCTTTG-AAATGG-TGCCACTGACTTGTGGGCTTTG
* * * * *
732801 AAAGATATGCTACTGACTTATAGGG----G--A---TGCCACTAACCTGTGGGCTTTG
1 AAA-AGATGCCACTGACTTGT-GGGCTTTGAAATGGTGCCACTGACTTGTGGGCTTTG
* * * * * *
732850 AAGAGATGCCACTAACTTATGGG----G----GATGCCACTGACCTGTGGCCTTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTGAAATGGTGCCACTGACTTGTGGGCTTTG
* * * * *
732898 AAGAGATGCCACTAACTTGTGAGCTTTGAAA-GGATGCCACT-ACCTTGTTGACTTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTGAAATGG-TGCCACTGA-CTTGTGGGCTTTG
* * *
732954 AAAAGATGCCACTGACTTGTGGGCTTTGAAATGGTGTCACTAACTTGTTGGCTTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTGAAATGGTGCCACTGACTTGTGGGCTTTG
* * *
733010 AAAAGATGCCACTGACTTGTCGGCTTTGAAATGATGCCACTAACTTGTGGGCTTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTGAAATGGTGCCACTGACTTGTGGGCTTTG
*** *
733066 AAATAG-TGCCACTGACTTGTGGGCTTTGAAAAAAATGCCACTTG-CTTATGGGCTTTTG
1 AAA-AGATGCCACTGACTTGTGGGCTTTG-AAATGGTGCCAC-TGACTTGTGGGC-TTTG
* ** * * * *
733124 --AAGGTGCCACT-ACTTGTGGGCTTAAAAAGGGTGCCACTTACTTATGGACTTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTGAAATGGTGCCACTGACTTGTGGGCTTTG
* * * * *
733177 AAAGGATGCCACTGACTTATGGGCTTTGAAATGATGCCACTAACTTGGGGGCTTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTGAAATGGTGCCACTGACTTGTGGGCTTTG
*
733233 AAATAG-TGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTTG-CTTGTGGGCTTTG
1 AAA-AGATGCCACTGACTTGTGGGCTTTG-AAATGGTGCCAC-TGACTTGTGGGCTTTG
* * * * * * *
733290 -GAAGTGTGCCACCGACTTATGGG-TTTAAAAAAGGTGCCACTAACTTGTGGGCTTTG
1 AAAAG-ATGCCACTGACTTGTGGGCTTT-GAAATGGTGCCACTGACTTGTGGGCTTTG
* ** * * *
733346 AAAGGATGGTACTGACCTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTT-
1 AAAAGATGCCACTGACTTGTGGGCTTTGAAATGGTGCCACTGACTTGTGGGCTTTG
* * *
733401 AAAGAGATGCCATTAACTTTTGGGC--T----T--T---ACTGACTTGTGGGCTTTG
1 AAA-AGATGCCACTGACTTGTGGGCTTTGAAATGGTGCCACTGACTTGTGGGCTTTG
* * *
733447 AAATGATGCCACTAATCTTGTGGGCTTTGAAATAGTGCCACTGACTTGTGGGC--TG
1 AAAAGATGCCACTGA-CTTGTGGGCTTTGAAATGGTGCCACTGACTTGTGGGCTTTG
* * * * * ** ** *
733502 AAAATGCTGCCACTTACTTGTGAGTTTTGGAA-GAGTGCCACCAACTTGTGCAC-TTA
1 AAAA-GATGCCACTGACTTGTGGGCTTTGAAATG-GTGCCACTGACTTGTGGGCTTTG
* * ***
733558 AAAAGGGTGCCACTGACCTGTGGGCTTTGAAAAAATGCCACTGACTTGTGGGCTTTG
1 AAAA-GATGCCACTGACTTGTGGGCTTTGAAATGGTGCCACTGACTTGTGGGCTTTG
* * ** * *
733615 AAGAGATGCCACTGACATGTCAGCTTTGAAA-GGATGCCACTAACTTGTGGGTTTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTGAAATGG-TGCCACTGACTTGTGGGCTTTG
* * *
733671 AAGAGATGCCACTGACTTGTTGGCTTTGAAAAGGGTTGCCACTGACTTGTGGGCTTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTG-AAATGG-TGCCACTGACTTGTGGGCTTTG
* ** * * *
733729 AAGAGATGCCACTGACTTGTGAACTTTGAAATGATGCCACTGACCTATGGGCTTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTGAAATGGTGCCACTGACTTGTGGGCTTTG
* *
733785 AAGAA-ATGCCACTGACTTGTGGGCTTTGAGAA-GGATGCCACTAACTTATGGGCTTTG
1 AA-AAGATGCCACTGACTTGTGGGCTTTGA-AATGG-TGCCACTGACTTGTGGGCTTTG
733842 AAAAG
1 AAAAG
733847 GGTCAAGATG
Statistics
Matches: 1286, Mismatches: 232, Indels: 181
0.76 0.14 0.11
Matches are distributed among these distances:
45 27 0.02
46 11 0.01
47 4 0.00
48 76 0.06
49 2 0.00
51 33 0.03
52 5 0.00
53 9 0.01
54 23 0.02
55 75 0.06
56 670 0.52
57 204 0.16
58 106 0.08
59 4 0.00
60 10 0.01
61 1 0.00
62 13 0.01
63 1 0.00
64 12 0.01
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.29
Consensus pattern (56 bp):
AAAAGATGCCACTGACTTGTGGGCTTTGAAATGGTGCCACTGACTTGTGGGCTTTG
Found at i:732532 original size:84 final size:84
Alignment explanation
Indices: 732180--733844 Score: 1160
Period size: 84 Copynumber: 20.0 Consensus size: 84
732170 GTTTAAAAAA
* * *
732180 AAAGG-TGTCACTAACTTGTGTAGGCTTTGAAAAGAGTTGCCACCGACTTGTGTGGGCTTTGAAA
1 AAAGGATGCCACTGACTTGTG--GGCTTTGAAAAGA--TGCCACTGAC-T-TGTGGGCTTTGAAA
* * *
732244 GGGTATGCCATTGACTTGTGGGTTTTG
60 -AG-ATGCCACTGACTTGTGGGCTTTG
* * *
732271 AAATGG-TGCCACCGACTTGTTGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGGGT
1 AAA-GGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAA-GAT
*
732335 GCCACTTG-CTTGTGGACTTTG
64 GCCAC-TGACTTGTGGGCTTTG
* * * * ** * *
732356 GAAGGGTGTCA-TCGACTTATGGGCTTAAAAAAGGTGCCACTGACTTGTGGACTTTGAAAAGATG
1 AAAGGATGCCACT-GACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGATG
** **
732420 CCACTGACCCGTGGGCTTCC
65 CCACTGACTTGTGGGCTTTG
* ** * *
732440 AATA-GATGCCACTAAGC-TGTGGGCTTTGAGGAGATGCCACTAACTTGTGGGCTTTGAAAAAAT
1 AA-AGGATGCCACTGA-CTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGAT
732503 GCCACTGACTTGTGGGCTTTG
64 GCCACTGACTTGTGGGCTTTG
* * * * * * *
732524 AAATGATGCCACT-ACCTTGTGGGC-TTAAAAATAGTGCCACTAACTTGTGAGCTTTGGAAAGGG
1 AAAGGATGCCACTGA-CTTGTGGGCTTTGAAAAGA-TGCCACTGACTTGTGGGCTTT-GAAAAGA
*
732587 TGCCACTTG-CTTGTGCGCTTTG
63 TGCCAC-TGACTTGTGGGCTTTG
* * * ** * * * *
732609 GAAGGGTGCCACCGACTACTGGG-ATT-AAAAGGGATGCCACTCACCTATGGGCTTT-----GAT
1 AAAGGATGCCACTGACTTGTGGGCTTTGAAAA--GATGCCACTGACTTGTGGGCTTTGAAAAGAT
* * * *
732667 GCCACTAACCTATGGGTTTTG
64 GCCACTGACTTGTGGGCTTTG
* * *
732688 -AAGAGATGCCACTAACTTGTGGGCTTTG-AAAGAATGCCACTGACCTATGGGCTTT-AAAGAGA
1 AAAG-GATGCCACTGACTTGTGGGCTTTGAAAAG-ATGCCACTGACTTGTGGGCTTTGAAA-AGA
* *
732750 TGCCATTGACTTATGGGCTTTG
63 TGCCACTGACTTGTGGGCTTTG
* * * * *
732772 AAAAGGGTTGCCACTGACTTGTGGGCTTT-AAAGATATGCTACTGACTTATAGG----G----GA
1 -AAA-GGATGCCACTGACTTGTGGGCTTTGAAA-AGATGCCACTGACTTGTGGGCTTTGAAAAGA
* *
732828 TGCCACTAACCTGTGGGCTTTG
63 TGCCACTGACTTGTGGGCTTTG
* * * * *
732850 -AAGAGATGCCACTAACTTATGGG----G----GATGCCACTGACCTGTGGCCTTTGAAGAGATG
1 AAAG-GATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGATG
* *
732906 CCACTAACTTGTGAGCTTTG
65 CCACTGACTTGTGGGCTTTG
* * * *
732926 AAAGGATGCCACT-ACCTTGTTGACTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAATGGTG
1 AAAGGATGCCACTGA-CTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGATG
* * *
732990 TCACTAACTTGTTGGCTTTG
65 CCACTGACTTGTGGGCTTTG
* * * *
733010 AAAAGATGCCACTGACTTGTCGGCTTTGAAATGATGCCACTAACTTGTGGGCTTTGAAATAG-TG
1 AAAGGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAA-AGATG
733074 CCACTGACTTGTGGGCTTTG
65 CCACTGACTTGTGGGCTTTG
** * * *
733094 AAAAAAATGCCACTTG-CTTATGGGCTTTTG--AAGGTGCCACT-ACTTGTGGGC-TTAAAAAGG
1 -AAAGGATGCCAC-TGACTTGTGGGC-TTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAA-G
* * * *
733154 GTGCCACTTACTTATGGACTTTG
62 ATGCCACTGACTTGTGGGCTTTG
* * * *
733177 AAAGGATGCCACTGACTTATGGGCTTTGAAATGATGCCACTAACTTGGGGGCTTTGAAATAG-TG
1 AAAGGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAA-AGATG
733241 CCACTGACTTGTGGGCTTTG
65 CCACTGACTTGTGGGCTTTG
* * * * * *
733261 AAAAGGGTGCCACTTG-CTTGTGGGCTTTG-GAAGTGTGCCACCGACTTATGGG-TTTAAAAAAG
1 -AAAGGATGCCAC-TGACTTGTGGGCTTTGAAAAG-ATGCCACTGACTTGTGGGCTTT-GAAAAG
* *
733323 GTGCCACTAACTTGTGGGCTTTG
62 ATGCCACTGACTTGTGGGCTTTG
** *
733346 AAAGGATGGTACTGACCTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTT-AAAGAGATG
1 AAAGGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAA-AGATG
* * *
733410 CCATTAACTTTTGGGC-TT-
65 CCACTGACTTGTGGGCTTTG
* *
733428 ------T---ACTGACTTGTGGGCTTTGAAATGATGCCACTAATCTTGTGGGCTTTGAAATAG-T
1 AAAGGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGA-CTTGTGGGCTTTGAAA-AGAT
733483 GCCACTGACTTGTGGGC--TG
64 GCCACTGACTTGTGGGCTTTG
* * * * * * ** ** * *
733502 AAAATGCTGCCACTTACTTGTGAGTTTTG-GAAGAGTGCCACCAACTTGTGCAC-TTAAAAAGGG
1 -AAAGGATGCCACTGACTTGTGGGCTTTGAAAAGA-TGCCACTGACTTGTGGGCTTTGAAAA-GA
*
733565 TGCCACTGACCTGTGGGCTTTG
63 TGCCACTGACTTGTGGGCTTTG
** * * ** *
733587 AAAAAATGCCACTGACTTGTGGGCTTTGAAGAGATGCCACTGACATGTCAGCTTTGAAAGGATGC
1 AAAGGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGATGC
* *
733652 CACTAACTTGTGGGTTTTG
66 CACTGACTTGTGGGCTTTG
* * *
733671 -AAGAGATGCCACTGACTTGTTGGCTTTGAAAAGGGTTGCCACTGACTTGTGGGCTTTGAAGAGA
1 AAAG-GATGCCACTGACTTGTGGGCTTTGAAAA--GATGCCACTGACTTGTGGGCTTTGAAAAGA
**
733735 TGCCACTGACTTGTGAACTTTG
63 TGCCACTGACTTGTGGGCTTTG
* * * *
733757 AAATGATGCCACTGACCTATGGGCTTTGAAGAA-ATGCCACTGACTTGTGGGCTTTGAGAAGGAT
1 AAAGGATGCCACTGACTTGTGGGCTTTGAA-AAGATGCCACTGACTTGTGGGCTTTGA-AAAGAT
* *
733821 GCCACTAACTTATGGGCTTTG
64 GCCACTGACTTGTGGGCTTTG
733842 AAA
1 AAA
733845 AGGGTCAAGA
Statistics
Matches: 1249, Mismatches: 223, Indels: 210
0.74 0.13 0.12
Matches are distributed among these distances:
68 13 0.01
72 1 0.00
73 31 0.02
74 27 0.02
75 7 0.01
76 55 0.04
77 3 0.00
78 25 0.02
79 51 0.04
80 6 0.00
81 9 0.01
82 31 0.02
83 84 0.07
84 478 0.38
85 248 0.20
86 135 0.11
87 7 0.01
88 9 0.01
90 13 0.01
91 3 0.00
92 13 0.01
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (84 bp):
AAAGGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGATGC
CACTGACTTGTGGGCTTTG
Found at i:732637 original size:85 final size:84
Alignment explanation
Indices: 732474--732638 Score: 181
Period size: 85 Copynumber: 2.0 Consensus size: 84
732464 TTTGAGGAGA
* * * *
732474 TGCCACTAACTTGTGGGCTTTGAAAAAATGCCACTGACTTGTGGGCTTTGAAATGATGCCACTAC
1 TGCCACTAACTTGTGAGCTTTGAAAAAATGCCACTGACTTGTGCGCTTTGAAAGGATGCCACGAC
** *
732539 CTTGTGGGCTTAAAAATAG
66 CTACTGGGATTAAAAATAG
*** * *
732558 TGCCACTAACTTGTGAGCTTTGGAAAGGGTGCCACTTG-CTTGTGCGCTTTGGAAGGGTGCCACC
1 TGCCACTAACTTGTGAGCTTT-GAAAAAATGCCAC-TGACTTGTGCGCTTTGAAAGGATGCCA-C
732622 GA-CTACTGGGATTAAAA
63 GACCTACTGGGATTAAAA
732639 GGGATGCCAC
Statistics
Matches: 66, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
84 20 0.30
85 42 0.64
86 4 0.06
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (84 bp):
TGCCACTAACTTGTGAGCTTTGAAAAAATGCCACTGACTTGTGCGCTTTGAAAGGATGCCACGAC
CTACTGGGATTAAAAATAG
Found at i:732671 original size:23 final size:23
Alignment explanation
Indices: 732641--732688 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
732631 GATTAAAAGG
*
732641 GATGCCACTCACCTATGGGCTTT
1 GATGCCACTAACCTATGGGCTTT
*
732664 GATGCCACTAACCTATGGGTTTT
1 GATGCCACTAACCTATGGGCTTT
732687 GA
1 GA
732689 AGAGATGCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.21, C:0.25, G:0.23, T:0.31
Consensus pattern (23 bp):
GATGCCACTAACCTATGGGCTTT
Found at i:732868 original size:48 final size:48
Alignment explanation
Indices: 732780--732915 Score: 200
Period size: 48 Copynumber: 2.8 Consensus size: 48
732770 TGAAAAGGGT
* * * * *
732780 TGCCACTGACTTGTGGGCTTTAAAGATATGCTACTGACTTATAGGGGA
1 TGCCACTGACCTGTGGGCTTTGAAGAGATGCCACTAACTTATAGGGGA
* *
732828 TGCCACTAACCTGTGGGCTTTGAAGAGATGCCACTAACTTATGGGGGA
1 TGCCACTGACCTGTGGGCTTTGAAGAGATGCCACTAACTTATAGGGGA
*
732876 TGCCACTGACCTGTGGCCTTTGAAGAGATGCCACTAACTT
1 TGCCACTGACCTGTGGGCTTTGAAGAGATGCCACTAACTT
732916 GTGAGCTTTG
Statistics
Matches: 79, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 79 1.00
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.28
Consensus pattern (48 bp):
TGCCACTGACCTGTGGGCTTTGAAGAGATGCCACTAACTTATAGGGGA
Found at i:733429 original size:28 final size:29
Alignment explanation
Indices: 732874--733428 Score: 503
Period size: 28 Copynumber: 19.8 Consensus size: 29
732864 ACTTATGGGG
* *
732874 GATGCCACTGACCTGTGGCCTTTG-AAGA
1 GATGCCACTGACTTGTGGGCTTTGAAAGA
* *
732902 GATGCCACTAACTTGTGAGCTTTGAAAG-
1 GATGCCACTGACTTGTGGGCTTTGAAAGA
* *
732930 GATGCCACT-ACCTTGTTGACTTTGAAA-A
1 GATGCCACTGA-CTTGTGGGCTTTGAAAGA
732958 GATGCCACTGACTTGTGGGCTTTGAAATG-
1 GATGCCACTGACTTGTGGGCTTTGAAA-GA
* * *
732987 G-TGTCACTAACTTGTTGGCTTTGAAA-A
1 GATGCCACTGACTTGTGGGCTTTGAAAGA
* *
733014 GATGCCACTGACTTGTCGGCTTTGAAA-T
1 GATGCCACTGACTTGTGGGCTTTGAAAGA
* *
733042 GATGCCACTAACTTGTGGGCTTTGAAATA
1 GATGCCACTGACTTGTGGGCTTTGAAAGA
*
733071 G-TGCCACTGACTTGTGGGCTTTGAAAAA
1 GATGCCACTGACTTGTGGGCTTTGAAAGA
* *
733099 AATGCCACTTG-CTTATGGGCTTTTG-AAG-
1 GATGCCAC-TGACTTGTGGGC-TTTGAAAGA
**
733127 G-TGCCACT-ACTTGTGGGCTTAAAAAG-
1 GATGCCACTGACTTGTGGGCTTTGAAAGA
* * * *
733153 GGTGCCACTTACTTATGGACTTTGAAAG-
1 GATGCCACTGACTTGTGGGCTTTGAAAGA
* *
733181 GATGCCACTGACTTATGGGCTTTGAAA-T
1 GATGCCACTGACTTGTGGGCTTTGAAAGA
* * *
733209 GATGCCACTAACTTGGGGGCTTTGAAATA
1 GATGCCACTGACTTGTGGGCTTTGAAAGA
733238 G-TGCCACTGACTTGTGGGCTTTGAAA-A
1 GATGCCACTGACTTGTGGGCTTTGAAAGA
* * *
733265 GGGTGCCACTTG-CTTGTGGGCTTTGGAAGT
1 -GATGCCAC-TGACTTGTGGGCTTTGAAAGA
* * * *
733295 G-TGCCACCGACTTATGGG-TTTAAAAAA
1 GATGCCACTGACTTGTGGGCTTTGAAAGA
* *
733322 GGTGCCACTAACTTGTGGGCTTTGAAAG-
1 GATGCCACTGACTTGTGGGCTTTGAAAGA
** *
733350 GATGGTACTGACCTGTGGGCTTTGAAA-A
1 GATGCCACTGACTTGTGGGCTTTGAAAGA
733378 GATGCCACTGACTTGTGGGCTTT-AAAGA
1 GATGCCACTGACTTGTGGGCTTTGAAAGA
* * *
733406 GATGCCATTAACTTTTGGGCTTT
1 GATGCCACTGACTTGTGGGCTTT
733429 ACTGACTTGT
Statistics
Matches: 435, Mismatches: 65, Indels: 54
0.79 0.12 0.10
Matches are distributed among these distances:
25 2 0.00
26 13 0.03
27 26 0.06
28 335 0.77
29 51 0.12
30 8 0.02
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (29 bp):
GATGCCACTGACTTGTGGGCTTTGAAAGA
Found at i:733455 original size:45 final size:46
Alignment explanation
Indices: 733384--733474 Score: 132
Period size: 45 Copynumber: 2.0 Consensus size: 46
733374 AAAAGATGCC
* *
733384 ACTGACTTGTGGGCTTTAAAGAGATGCCATTAA-CTTTTGGGCTTT
1 ACTGACTTGTGGGCTTTAAAGAGATGCCACTAATCTTGTGGGCTTT
*
733429 ACTGACTTGTGGGCTTTGAAA-TGATGCCACTAATCTTGTGGGCTTT
1 ACTGACTTGTGGGCTTT-AAAGAGATGCCACTAATCTTGTGGGCTTT
733475 GAAATAGTGC
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
45 27 0.66
46 14 0.34
ACGTcount: A:0.21, C:0.16, G:0.25, T:0.37
Consensus pattern (46 bp):
ACTGACTTGTGGGCTTTAAAGAGATGCCACTAATCTTGTGGGCTTT
Found at i:733569 original size:241 final size:241
Alignment explanation
Indices: 733187--733665 Score: 674
Period size: 241 Copynumber: 2.0 Consensus size: 241
733177 AAAGGATGCC
733187 ACTGACTTATGGGCTTTGAAATGATGCCACTAACTTGGGGGCTTTGAAATAGTGCCACTGACTTG
1 ACTGACTTATGGGCTTTGAAATGATGCCACTAACTTGGGGGCTTTGAAATAGTGCCACTGACTTG
* * * * * ***
733252 TGGGCTTTGAAAAGGGTGCCACTTGCTTGTGGGCTTTGGAAGTGTGCCACCGACTTATGGGTTTA
66 TGGGC-TTGAAAAGGCTGCCACTTACTTGTGAGCTTTGGAAGAGTGCCACCAACTTATGCACTTA
* ** **
733317 AAAAAGGTGCCACTAACTTGTGGGCTTTGAAAGGATGGTACTGACCTGTGGGCTTTGAAAAGATG
130 AAAAAGGTGCCACTAACCTGTGGGCTTTGAAAAAATGCCACTGACCTGTGGGCTTTGAAAAGATG
* ** * *
733382 CCACTGACTTGTGGGCTTT-AAAGAGATGCCATTAACTTTTGGGCTTT
195 CCACTGACATGTCAGCTTTGAAAG-GATGCCACTAACTTGTGGGCTTT
* *
733429 ACTGACTTGTGGGCTTTGAAATGATGCCACTAATCTTGTGGGCTTTGAAATAGTGCCACTGACTT
1 ACTGACTTATGGGCTTTGAAATGATGCCACTAA-CTTGGGGGCTTTGAAATAGTGCCACTGACTT
* * *
733494 GTGGGC-TGAAAATGCTGCCACTTACTTGTGAGTTTTGGAAGAGTGCCACCAACTTGTGCACTTA
65 GTGGGCTTGAAAAGGCTGCCACTTACTTGTGAGCTTTGGAAGAGTGCCACCAACTTATGCACTTA
* * * *
733558 AAAAGGGTGCCACTGACCTGTGGGCTTTGAAAAAATGCCACTGACTTGTGGGCTTTGAAGAGATG
130 AAAAAGGTGCCACTAACCTGTGGGCTTTGAAAAAATGCCACTGACCTGTGGGCTTTGAAAAGATG
733623 CCACTGACATGTCAGCTTTGAAAGGATGCCACTAACTTGTGGG
195 CCACTGACATGTCAGCTTTGAAAGGATGCCACTAACTTGTGGG
733666 TTTTGAAGAG
Statistics
Matches: 208, Mismatches: 27, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
241 136 0.65
242 36 0.17
243 36 0.17
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (241 bp):
ACTGACTTATGGGCTTTGAAATGATGCCACTAACTTGGGGGCTTTGAAATAGTGCCACTGACTTG
TGGGCTTGAAAAGGCTGCCACTTACTTGTGAGCTTTGGAAGAGTGCCACCAACTTATGCACTTAA
AAAAGGTGCCACTAACCTGTGGGCTTTGAAAAAATGCCACTGACCTGTGGGCTTTGAAAAGATGC
CACTGACATGTCAGCTTTGAAAGGATGCCACTAACTTGTGGGCTTT
Found at i:733596 original size:28 final size:28
Alignment explanation
Indices: 733429--733846 Score: 407
Period size: 28 Copynumber: 14.8 Consensus size: 28
733419 TTTGGGCTTT
*
733429 ACTGACTTGTGGGCTTTGAAATGATGCC
1 ACTGACTTGTGGGCTTTGAAAAGATGCC
*
733457 ACTAATCTTGTGGGCTTTGAAATAG-TGCC
1 ACTGA-CTTGTGGGCTTTGAAA-AGATGCC
*
733486 ACTGACTTGTGGGC--TGAAAATGCTGCC
1 ACTGACTTGTGGGCTTTGAAAA-GATGCC
* * * *
733513 ACTTACTTGTGAGTTTTG-GAAGAGTGCC
1 ACTGACTTGTGGGCTTTGAAAAGA-TGCC
** ** * *
733541 ACCAACTTGTGCAC-TTAAAAAGGGTGCC
1 ACTGACTTGTGGGCTTTGAAAA-GATGCC
* *
733569 ACTGACCTGTGGGCTTTGAAAAAATGCC
1 ACTGACTTGTGGGCTTTGAAAAGATGCC
*
733597 ACTGACTTGTGGGCTTTGAAGAGATGCC
1 ACTGACTTGTGGGCTTTGAAAAGATGCC
* ** *
733625 ACTGACATGTCAGCTTTGAAAGGATGCC
1 ACTGACTTGTGGGCTTTGAAAAGATGCC
* * *
733653 ACTAACTTGTGGGTTTTGAAGAGATGCC
1 ACTGACTTGTGGGCTTTGAAAAGATGCC
* *
733681 ACTGACTTGTTGGCTTTGAAAAGGGTTGCC
1 ACTGACTTGTGGGCTTTGAAAA--GATGCC
*
733711 ACTGACTTGTGGGCTTTGAAGAGATGCC
1 ACTGACTTGTGGGCTTTGAAAAGATGCC
** *
733739 ACTGACTTGTGAACTTTGAAATGATGCC
1 ACTGACTTGTGGGCTTTGAAAAGATGCC
* *
733767 ACTGACCTATGGGCTTTGAAGAA-ATGCC
1 ACTGACTTGTGGGCTTTGAA-AAGATGCC
*
733795 ACTGACTTGTGGGCTTTGAGAAGGATGCC
1 ACTGACTTGTGGGCTTTGA-AAAGATGCC
* *
733824 ACTAACTTATGGGCTTTGAAAAG
1 ACTGACTTGTGGGCTTTGAAAAG
733847 GGTCAAGATG
Statistics
Matches: 313, Mismatches: 62, Indels: 30
0.77 0.15 0.07
Matches are distributed among these distances:
25 1 0.00
26 6 0.02
27 18 0.06
28 205 0.65
29 57 0.18
30 26 0.08
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.29
Consensus pattern (28 bp):
ACTGACTTGTGGGCTTTGAAAAGATGCC
Found at i:733794 original size:114 final size:113
Alignment explanation
Indices: 733565--733843 Score: 398
Period size: 114 Copynumber: 2.5 Consensus size: 113
733555 TTAAAAAGGG
* *
733565 TGCCACTGACCTGTGGGCTTTGAAAA-AATGCCACTGACTTGTGGGCTTTGAAGAGATGCCACTG
1 TGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAGAGATGCCACTG
* * * * *
733629 ACATGTCAGCTTTGAAAGGATGCCACTAACTTGTGGGTTTTGAAGAGA
66 ACATGTCAACTTTGAAAGGATGCCACTAACCTATGGGCTTTGAAGAAA
* *
733677 TGCCACTGACTTGTTGGCTTTGAAAAGGGTTGCCACTGACTTGTGGGCTTTGAAGAGATGCCACT
1 TGCCACTGACTTGTGGGCTTTGAAAA-GGATGCCACTGACTTGTGGGCTTTGAAGAGATGCCACT
* * * *
733742 GACTTGTGAACTTTGAAATGATGCCACTGACCTATGGGCTTTGAAGAAA
65 GACATGTCAACTTTGAAAGGATGCCACTAACCTATGGGCTTTGAAGAAA
* * *
733791 TGCCACTGACTTGTGGGCTTTGAGAAGGATGCCACTAACTTATGGGCTTTGAA
1 TGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAA
733844 AAGGGTCAAG
Statistics
Matches: 147, Mismatches: 18, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
112 24 0.16
113 24 0.16
114 99 0.67
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.29
Consensus pattern (113 bp):
TGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAGAGATGCCACTG
ACATGTCAACTTTGAAAGGATGCCACTAACCTATGGGCTTTGAAGAAA
Found at i:735035 original size:18 final size:16
Alignment explanation
Indices: 734993--735061 Score: 66
Period size: 16 Copynumber: 4.1 Consensus size: 16
734983 ATCTAGACCC
* *
734993 TTATATTTTTGTTTGT
1 TTATTTTTTTGTTTTT
* *
735009 TTGTTTTTTGGTTTTT
1 TTATTTTTTTGTTTTT
735025 TTAATTTTTTTTGTTTCTT
1 TT-A-TTTTTTTGTTT-TT
*
735044 TTATATTTTTGTTTTT
1 TTATTTTTTTGTTTTT
735060 TT
1 TT
735062 TTTGTTTGGT
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
16 18 0.42
17 10 0.23
18 11 0.26
19 4 0.09
ACGTcount: A:0.09, C:0.01, G:0.10, T:0.80
Consensus pattern (16 bp):
TTATTTTTTTGTTTTT
Found at i:735036 original size:19 final size:20
Alignment explanation
Indices: 735012--735053 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
735002 TGTTTGTTTG
*
735012 TTTTTTGGTTT-TTTTA-AT
1 TTTTTTTGTTTCTTTTATAT
735030 TTTTTTTGTTTCTTTTATAT
1 TTTTTTTGTTTCTTTTATAT
735050 TTTT
1 TTTT
735054 GTTTTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.48
19 5 0.24
20 6 0.29
ACGTcount: A:0.10, C:0.02, G:0.07, T:0.81
Consensus pattern (20 bp):
TTTTTTTGTTTCTTTTATAT
Found at i:735063 original size:18 final size:18
Alignment explanation
Indices: 735019--735063 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
735009 TTGTTTTTTG
*
735019 GTTTTTTTAATTTTTTTT
1 GTTTTTTTAATTTTTGTT
735037 GTTTCTTTTATATTTTTGTT
1 GTTT-TTTTA-ATTTTTGTT
735057 -TTTTTTT
1 GTTTTTTT
735064 TGTTTGGTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 8 0.33
19 8 0.33
20 8 0.33
ACGTcount: A:0.09, C:0.02, G:0.07, T:0.82
Consensus pattern (18 bp):
GTTTTTTTAATTTTTGTT
Found at i:736108 original size:13 final size:13
Alignment explanation
Indices: 736090--736115 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
736080 CAATTTTTTG
736090 TGTATCGATACAT
1 TGTATCGATACAT
736103 TGTATCGATACAT
1 TGTATCGATACAT
736116 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:736845 original size:21 final size:21
Alignment explanation
Indices: 736804--736847 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
736794 CTCCCCTTTA
* *
736804 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
736825 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
736846 TC
1 TC
736848 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:738669 original size:13 final size:13
Alignment explanation
Indices: 738651--738676 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
738641 ATAATCACCC
738651 TGTATCGATACAA
1 TGTATCGATACAA
738664 TGTATCGATACAA
1 TGTATCGATACAA
738677 AGAAAAATGT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:740776 original size:15 final size:15
Alignment explanation
Indices: 740740--740777 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
740730 TTCATCAATT
* *
740740 TCATTTGGAGCTTCT
1 TCATTTTGAGCTTCC
740755 TCATTTTGAGCTTCC
1 TCATTTTGAGCTTCC
740770 TCATTTTG
1 TCATTTTG
740778 GACATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.13, C:0.21, G:0.16, T:0.50
Consensus pattern (15 bp):
TCATTTTGAGCTTCC
Found at i:752835 original size:20 final size:20
Alignment explanation
Indices: 752796--752837 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
752786 CTGGTTAGGT
* *
752796 AAGAAAGAAAGAAGATGAAA
1 AAGAAAGAAAGAAAAAGAAA
*
752816 AAGAAAGGAAGAAAAAGAAA
1 AAGAAAGAAAGAAAAAGAAA
752836 AA
1 AA
752838 AAGTAAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.02
Consensus pattern (20 bp):
AAGAAAGAAAGAAAAAGAAA
Found at i:766467 original size:13 final size:13
Alignment explanation
Indices: 766449--766474 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
766439 CATTTTGGGA
766449 TGTATCGATACAT
1 TGTATCGATACAT
766462 TGTATCGATACAT
1 TGTATCGATACAT
766475 CTTGTGTGCA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:766471 original size:33 final size:32
Alignment explanation
Indices: 766429--766492 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
766419 TACAAGCCAA
* *
766429 TGTATCGATACATTTTGGGATGTATCGATACAT
1 TGTATCGATACATCTTGGG-TGCATCGATACAT
*
766462 TGTATCGATACATCTTGTGTGCATCGATACA
1 TGTATCGATACATCTTGGGTGCATCGATACA
766493 AATTGTTAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 11 0.39
33 17 0.61
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATCTTGGGTGCATCGATACAT
Found at i:766951 original size:27 final size:27
Alignment explanation
Indices: 766876--767335 Score: 363
Period size: 27 Copynumber: 16.7 Consensus size: 27
766866 GATCCTAACA
*
766876 ATCCTTTTAAAGTCCACAACTCCGTGGC
1 ATCCTTTT-AAGTCCACAACTTCGTGGC
766904 A-CCTTTTTAAAGTCCACAACTTCGTGGC
1 ATCC-TTTT-AAGTCCACAACTTCGTGGC
*
766932 ATCCTTTTAAGTCCATAAC-TCTGTGGC
1 ATCCTTTTAAGTCCACAACTTC-GTGGC
* * * *
766959 ACCCTTTAAAGTCCACAACTCCATGGC
1 ATCCTTTTAAGTCCACAACTTCGTGGC
* * *
766986 ACCCTTTCAAAGTCCACCACTTCGTGGC
1 ATCCTTT-TAAGTCCACAACTTCGTGGC
* * *
767014 ACCCTTTTAAGTTCACAAC-TCTGTGAC
1 ATCCTTTTAAGTCCACAACTTC-GTGGC
*
767041 ATCCTTTTAAGTCCACAACTCCGTGGC
1 ATCCTTTTAAGTCCACAACTTCGTGGC
* * *
767068 ACCCTTTTAAGTACACAACTCCGTGGC
1 ATCCTTTTAAGTCCACAACTTCGTGGC
* * *
767095 ATCCGTTTCAAGTCCACAAATCCGTGGC
1 ATCC-TTTTAAGTCCACAACTTCGTGGC
* * *
767123 ATTCTTTTAAAGTCCA-TACCTCTGTGGC
1 ATCCTTTT-AAGTCCACAACTTC-GTGGC
* *
767151 ACCCTTTTAAGTCCACAACTTCATGGC
1 ATCCTTTTAAGTCCACAACTTCGTGGC
* * *
767178 A-CTCTTTTAAGTCCACAACTCCATGGT
1 ATC-CTTTTAAGTCCACAACTTCGTGGC
*
767205 ATCCTTTTAAGTCCACAACTTCGTTGC
1 ATCCTTTTAAGTCCACAACTTCGTGGC
* * * *
767232 ATCCGTTCTAAGCCCACAAGTTAGTGGC
1 ATCC-TTTTAAGTCCACAACTTCGTGGC
* ** * * *
767260 ACCCTTCCAAAGTCTATAACTTTGTGGC
1 ATCCTT-TTAAGTCCACAACTTCGTGGC
* * *
767288 ATCCCTTTTAAGCCCACAAGTTAGTGGC
1 AT-CCTTTTAAGTCCACAACTTCGTGGC
* *
767316 ACCCCTTTTTAAGCCCACAA
1 A-TCC-TTTTAAGTCCACAA
767336 GTCAGTGGCA
Statistics
Matches: 352, Mismatches: 62, Indels: 35
0.78 0.14 0.08
Matches are distributed among these distances:
26 5 0.01
27 172 0.49
28 155 0.44
29 20 0.06
ACGTcount: A:0.25, C:0.31, G:0.14, T:0.30
Consensus pattern (27 bp):
ATCCTTTTAAGTCCACAACTTCGTGGC
Found at i:767020 original size:82 final size:81
Alignment explanation
Indices: 766876--767335 Score: 434
Period size: 82 Copynumber: 5.6 Consensus size: 81
766866 GATCCTAACA
* *
766876 ATCCTTTTAAAGTCCACAACTCCGTGGCACCTTTTTAAAGTCCACAACTTCGTGGCATCCTTTTA
1 ATCC-TTTAAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTTCGTGGCACCCTTTTA
*
766941 AGTCCATAACTCTGTGGC
64 AGTCCACAACTCTGTGGC
* * * *
766959 ACCCTTTAAAGTCCACAACTCCATGGCACCCTTTCAAAGTCCACCACTTCGTGGCACCCTTTTAA
1 ATCCTTTAAAGTCCACAACTCCGTGGCACCCTTT-TAAGTCCACAACTTCGTGGCACCCTTTTAA
* *
767024 GTTCACAACTCTGTGAC
65 GTCCACAACTCTGTGGC
* * * * *
767041 ATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTACACAACTCCGTGGCATCCGTTTCAA
1 ATCCTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTTCGTGGCA-CCCTTTTAA
* *
767106 GTCCACAAATCCGTGGC
65 GTCCACAACTCTGTGGC
* * * * * *
767123 ATTCTTTTAAAGTCCATACCTCTGTGGCACCCTTTTAAGTCCACAACTTCATGGCACTCTTTTAA
1 A-TCCTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTTCGTGGCACCCTTTTAA
** *
767188 GTCCACAACTCCATGGT
65 GTCCACAACTCTGTGGC
* * * * * * * * **
767205 ATCCTTTTAAGTCCACAACTTCGTTGCATCCGTTCTAAGCCCACAAGTTAGTGGCACCCTTCCAA
1 ATCCTTTAAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTTCGTGGCACCCTT-TTA
* * *
767270 AGTCTATAACTTTGTGGC
64 AGTCCACAACTCTGTGGC
* * * ** *
767288 ATCCCTTTTAAGCCCACAAGTTAGTGGCACCCCTTTTTAAGCCCACAA
1 AT-CCTTTAAAGTCCACAACTCCGTGGCA-CCC-TTTTAAGTCCACAA
767336 GTCAGTGGCA
Statistics
Matches: 305, Mismatches: 65, Indels: 12
0.80 0.17 0.03
Matches are distributed among these distances:
81 37 0.12
82 167 0.55
83 64 0.21
84 24 0.08
85 13 0.04
ACGTcount: A:0.25, C:0.31, G:0.14, T:0.30
Consensus pattern (81 bp):
ATCCTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTTCGTGGCACCCTTTTAAG
TCCACAACTCTGTGGC
Found at i:767150 original size:137 final size:135
Alignment explanation
Indices: 766878--767306 Score: 436
Period size: 137 Copynumber: 3.1 Consensus size: 135
766868 TCCTAACAAT
* *
766878 CCTTTTAAAGTCCACAACTCCGTGGCACCTTTTTAAAGTCCACAACTTCGTGGCATCCTTTTAAG
1 CCTTTT-AAGTCCACAACTCTGT-GCACC-TTTT-AAGTCCACAACTCCGTGGCATCCTTTTAAG
* * * * *
766943 TCCATAACTCTGTGGCA-CCCTTTAAAGTCCACAACTCCATGGCACCCTTTCAAAGTCCACCACT
62 TCCACAACTCCGTGGCATCCGTTTAAAGTCCACAAATCCATGGCACCCTTTCAAAGTCCACCACC
767007 TCGTGGCAC
127 TCGTGGCAC
* * *
767016 CCTTTTAAGTTCACAACTCTGTGACATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTA
1 CCTTTTAAGTCCACAACTCTGTG-CA-CCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTC
* * ** * *
767081 CACAACTCCGTGGCATCCGTTTCAAGTCCACAAATCCGTGGCATTCTTTTAAAGTCCA-TACCTC
64 CACAACTCCGTGGCATCCGTTTAAAGTCCACAAATCCATGGCACCCTTTCAAAGTCCACCACCTC
767145 TGTGGCAC
129 -GTGGCAC
* *
767153 CCTTTTAAGTCCACAACTTCATG-GCACTCTTTTAAGTCCACAACTCCATGGTATCCTTTTAAGT
1 CCTTTTAAGTCCACAAC-TC-TGTGCAC-CTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGT
* * * * * * * **
767217 CCACAACTTCGTTGCATCCGTTCT-AAGCCCACAAGT-TAGTGGCACCCTTCCAAAGTCTATAAC
63 CCACAACTCCGTGGCATCCGTT-TAAAGTCCACAAATCCA-TGGCACCCTTTCAAAGTCCACCAC
* *
767280 TTTGTGGCATC
126 CTCGTGGCA-C
*
767291 CCTTTTAAGCCCACAA
1 CCTTTTAAGTCCACAA
767307 GTTAGTGGCA
Statistics
Matches: 244, Mismatches: 36, Indels: 22
0.81 0.12 0.07
Matches are distributed among these distances:
136 48 0.20
137 163 0.67
138 31 0.13
139 2 0.01
ACGTcount: A:0.25, C:0.31, G:0.14, T:0.30
Consensus pattern (135 bp):
CCTTTTAAGTCCACAACTCTGTGCACCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCA
CAACTCCGTGGCATCCGTTTAAAGTCCACAAATCCATGGCACCCTTTCAAAGTCCACCACCTCGT
GGCAC
Found at i:767314 original size:28 final size:29
Alignment explanation
Indices: 767241--767986 Score: 585
Period size: 28 Copynumber: 25.3 Consensus size: 29
767231 CATCCGTTCT
* *
767241 AAGCCCACAAGTTAGTGGCA-CCCTTCCA
1 AAGCCCACAAGTCAGTGGCATCCCTTTCA
* * * * ** *
767269 AAGTCTATAACTTTGTGGCATCCCTTT-T
1 AAGCCCACAAGTCAGTGGCATCCCTTTCA
* * **
767297 AAGCCCACAAGTTAGTGGCACCCCTTTTT
1 AAGCCCACAAGTCAGTGGCATCCCTTTCA
**
767326 AAGCCCACAAGTCAGTGGCAT-TATTTCA
1 AAGCCCACAAGTCAGTGGCATCCCTTTCA
* * *
767354 AAGCCCACACAAGT-AGGTGGCAACTCATTTAA
1 AAG-CC-CACAAGTCA-GTGGCATC-CCTTTCA
* *
767386 AAGCCCACACAAGTC-GATGGCAACTCATTTCA
1 AAG-CC-CACAAGTCAG-TGGCATC-CCTTTCA
* * *
767418 AAGCCCACACAAGTCGGCGGCAACCCATTTCA
1 AAG-CC-CACAAGTCAGTGGCATCCC-TTTCA
*
767450 AAGCCCACAAGTTAGTGGCAT-CCTTCTCA
1 AAGCCCACAAGTCAGTGGCATCCCTT-TCA
* * *
767479 AAGCTCACATAAATCAGTGGCA-CCCTTCCA
1 AAGC-C-CACAAGTCAGTGGCATCCCTTTCA
*
767509 AAGCCCACAAGTCAGTGGCA-CCCTTTTA
1 AAGCCCACAAGTCAGTGGCATCCCTTTCA
767537 AAGCCCACAAGTCAGTGGCA-CCCTTTCA
1 AAGCCCACAAGTCAGTGGCATCCCTTTCA
** * * *
767565 AAGCCCACACAAGTCAACGGCAACTCATTTAA
1 AAG-CC-CACAAGTCAGTGGCATC-CCTTTCA
* * *
767597 AAGCCCACACAAGTCGGTGACAACCCTTTTCA
1 AAG-CC-CACAAGTCAGTGGCATCCC-TTTCA
* * *
767629 AAGCCCACATAAGTCGGTGGTAACCCATTTCA
1 AAGCCCAC--AAGTCAGTGGCATCCC-TTTCA
*
767661 AAGCTCACAAGTCAGTGGCAT-CCTTTCA
1 AAGCCCACAAGTCAGTGGCATCCCTTTCA
* *
767689 AAGCCTACAAGTTAGTGGCAT-CCTTCTCA
1 AAGCCCACAAGTCAGTGGCATCCCTT-TCA
* *
767718 AAGCCCATAAGTCAGTGGTAT-CCTTCTCA
1 AAGCCCACAAGTCAGTGGCATCCCTT-TCA
* * *
767747 AAGCCCATAAGTTAGTGGCATCCTTTTCA
1 AAGCCCACAAGTCAGTGGCATCCCTTTCA
* *
767776 AATCCAGCACAAATCAGTGGCAT-CCTTTCA
1 AAGCC--CACAAGTCAGTGGCATCCCTTTCA
*
767806 AAGCTCACAAGTCAGTGGCAT-CCTTTCA
1 AAGCCCACAAGTCAGTGGCATCCCTTTCA
767834 AAGCCCACAAGTCAGTGGCAT-CCTTCTCA
1 AAGCCCACAAGTCAGTGGCATCCCTT-TCA
*
767863 AAGCCCACAAGTCAATGGCAT-CCTTCTCA
1 AAGCCCACAAGTCAGTGGCATCCCTT-TCA
* *
767892 AAGCCCATACAAATCAGTGGCA-CCTTTTCA
1 AAGCCC--ACAAGTCAGTGGCATCCCTTTCA
767922 AAGCCCACAAGTCAGTGGCAT-CCTTTCA
1 AAGCCCACAAGTCAGTGGCATCCCTTTCA
* *
767950 AAGCCCACAAGTCAGTGGCAT-CTTTTCG
1 AAGCCCACAAGTCAGTGGCATCCCTTTCA
767978 AAGCCCACA
1 AAGCCCACA
767987 CAAGTCGGTG
Statistics
Matches: 605, Mismatches: 82, Indels: 62
0.81 0.11 0.08
Matches are distributed among these distances:
28 220 0.36
29 133 0.22
30 79 0.13
31 52 0.09
32 120 0.20
33 1 0.00
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.23
Consensus pattern (29 bp):
AAGCCCACAAGTCAGTGGCATCCCTTTCA
Found at i:767334 original size:29 final size:28
Alignment explanation
Indices: 767146--767986 Score: 154
Period size: 28 Copynumber: 28.8 Consensus size: 28
767136 CCATACCTCT
* *
767146 GTGGCACCC-TTTTAAGTCCACAACTTCA
1 GTGGCACCCTTTTTAAGCCCACAAGTT-A
* * * *
767174 -TGGCACTC-TTTTAAGTCCACAACTCCA
1 GTGGCACCCTTTTTAAGCCCACAAGT-TA
* * * * *
767201 -TGGTATCC-TTTTAAGTCCACAACTTC
1 GTGGCACCCTTTTTAAGCCCACAAGTTA
* * * *
767227 GTTGCATCCGTTCTAAGCCCACAAGTTA
1 GTGGCACCCTTTTTAAGCCCACAAGTTA
*** * * * * *
767255 GTGGCACCCTTCCAAAGTCTATAACTTT
1 GTGGCACCCTTTTTAAGCCCACAAGTTA
767283 GTGGCATCCC-TTTTAAGCCCACAAGTTA
1 GTGGCA-CCCTTTTTAAGCCCACAAGTTA
*
767311 GTGGCACCCCTTTTTAAGCCCACAAGTCA
1 GTGGCA-CCCTTTTTAAGCCCACAAGTTA
*** **
767340 GTGGCATTATTTCAAAGCCCACACAAG-TA
1 GTGGCACCCTTTTTAAG-CC-CACAAGTTA
* ** *
767369 GGTGGCAACTCATTTAAAAGCCCACACAAG-TC
1 -GTGGC-AC-CCTTTTTAAG-CC-CACAAGTTA
* ** **
767401 GATGGCAACTCATTTCAAAGCCCACACAAGTCG
1 G-TGGC-AC-CCTTTTTAAG-CC-CACAAGTTA
* **
767434 GCGGCAACCCATTTCAAAGCCCACAAGTTA
1 GTGGC-ACCC-TTTTTAAGCCCACAAGTTA
* ** * * *
767464 GTGGCATCCTTCTCAAAGCTCACATAAATCA
1 GTGGCACCCTT-TTTAAGC-C-CACAAGTTA
*** *
767495 GTGGCACCCTTCCAAAGCCCACAAGTCA
1 GTGGCACCCTTTTTAAGCCCACAAGTTA
* *
767523 GTGGCACCCTTTTAAAGCCCACAAGTCA
1 GTGGCACCCTTTTTAAGCCCACAAGTTA
** *
767551 GTGGCACCCTTTCAAAGCCCACACAAGTCA
1 GTGGCACCCTTTTTAAG-CC-CACAAGTTA
** * ** **
767581 ACGGCAACTCATTTAAAAGCCCACACAAGTCG
1 GTGGC-AC-CCTTTTTAAG-CC-CACAAGTTA
* * **
767613 GTGACAACCCTTTTCAAAGCCCACATAAGTCG
1 GTGGC-ACCCTTTT-TAAGCCCAC--AAGTTA
* ** * *
767645 GTGGTAACCCATTTCAAAGCTCACAAGTCA
1 GTGG-CACCC-TTTTTAAGCCCACAAGTTA
* ** *
767675 GTGGCATCCTTTCAAAGCCTACAAGTTA
1 GTGGCACCCTTTTTAAGCCCACAAGTTA
* ** * *
767703 GTGGCATCCTTCTCAAAGCCCATAAGTCA
1 GTGGCACCCTT-TTTAAGCCCACAAGTTA
* * ** *
767732 GTGGTATCCTTCTCAAAGCCCATAAGTTA
1 GTGGCACCCTT-TTTAAGCCCACAAGTTA
* * * * *
767761 GTGGCATCCTTTTCAAATCCAGCACAAATCA
1 GTGGCACCCTTTT-TAAGCC--CACAAGTTA
* ** * *
767792 GTGGCATCCTTTCAAAGCTCACAAGTCA
1 GTGGCACCCTTTTTAAGCCCACAAGTTA
* ** *
767820 GTGGCATCCTTTCAAAGCCCACAAGTCA
1 GTGGCACCCTTTTTAAGCCCACAAGTTA
* ** *
767848 GTGGCATCCTTCTCAAAGCCCACAAGTCA
1 GTGGCACCCTT-TTTAAGCCCACAAGTTA
* * ** * *
767877 ATGGCATCCTTCTCAAAGCCCATACAAATCA
1 GTGGCACCCTT-TTTAAGCCC--ACAAGTTA
* *
767908 GTGGCA-CCTTTTCAAAGCCCACAAGTCA
1 GTGGCACCCTTTT-TAAGCCCACAAGTTA
* ** *
767936 GTGGCATCCTTTCAAAGCCCACAAGTCA
1 GTGGCACCCTTTTTAAGCCCACAAGTTA
* *
767964 GTGGCA-TCTTTTCGAAGCCCACA
1 GTGGCACCCTTTT-TAAGCCCACA
767987 CAAGTCGGTG
Statistics
Matches: 671, Mismatches: 107, Indels: 70
0.79 0.13 0.08
Matches are distributed among these distances:
27 55 0.08
28 231 0.34
29 144 0.21
30 68 0.10
31 59 0.09
32 110 0.16
33 4 0.01
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.24
Consensus pattern (28 bp):
GTGGCACCCTTTTTAAGCCCACAAGTTA
Found at i:767424 original size:64 final size:63
Alignment explanation
Indices: 767348--767693 Score: 246
Period size: 64 Copynumber: 5.7 Consensus size: 63
767338 CAGTGGCATT
*
767348 ATTTCAAAGCCCACACAAGTAGGTGGCAACTCATTTAAAAGCCCACACAAGTCGATGGCAACTC
1 ATTTCAAAGCCCACACAAGTAGGTGGCAAC-CATTTCAAAGCCCACACAAGTCGATGGCAACTC
* * *
767412 ATTTCAAAGCCCACACAAGTCGGCGGCAACCCATTTCAAAG-CC-CACAAGT-TAGTGGC-A-TC
1 ATTTCAAAGCCCACACAAGTAGGTGGCAA-CCATTTCAAAGCCCACACAAGTCGA-TGGCAACTC
* * * * * *
767472 CTTCTCAAAGCTCACATAAATCA-GTGGC-ACCCTTCCAAAG-CC-CACAAGTC-AGTGGC-AC-
1 ATT-TCAAAGCCCACACAAGT-AGGTGGCAACCATTTCAAAGCCCACACAAGTCGA-TGGCAACT
767530 C
63 C
* * * * *
767531 CTTTTAAAG-CC-CACAAGTCA-GTGGC-ACCCTTTCAAAGCCCACACAAGTCAACGGCAACTC
1 ATTTCAAAGCCCACACAAGT-AGGTGGCAACCATTTCAAAGCCCACACAAGTCGATGGCAACTC
* * * * * * * *
767591 ATTTAAAAGCCCACACAAGTCGGTGACAACCCTTTTCAAAGCCCACATAAGTCGGTGGTAACCC
1 ATTTCAAAGCCCACACAAGTAGGTGGCAA-CCATTTCAAAGCCCACACAAGTCGATGGCAACTC
* *
767655 ATTTCAAAG--CTCACAAGTCA-GTGGCATCC-TTTCAAAGCC
1 ATTTCAAAGCCCACACAAGT-AGGTGGCAACCATTTCAAAGCC
767694 TACAAGTTAG
Statistics
Matches: 231, Mismatches: 34, Indels: 38
0.76 0.11 0.13
Matches are distributed among these distances:
56 23 0.10
57 3 0.01
58 16 0.07
59 32 0.14
60 23 0.10
61 24 0.10
62 35 0.15
63 3 0.01
64 71 0.31
65 1 0.00
ACGTcount: A:0.32, C:0.32, G:0.16, T:0.20
Consensus pattern (63 bp):
ATTTCAAAGCCCACACAAGTAGGTGGCAACCATTTCAAAGCCCACACAAGTCGATGGCAACTC
Found at i:767662 original size:211 final size:208
Alignment explanation
Indices: 767241--767998 Score: 796
Period size: 211 Copynumber: 3.7 Consensus size: 208
767231 CATCCGTTCT
* * * * ** **
767241 AAGCCCACAAGTTAGTGGCACCCTTC-CAAAG-TC-TATAACTTTGTGGCATCCCTT-TTAAGCC
1 AAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCTCACATAAATCAGTGGCA-CCCTTCCAAAGCC
* ** *
767302 CACAAGTTAGTGGCACCCCTTTTTAAGCCCACAAGTCAGTGGCA-TTATTTCAAAGCCCACACAA
65 CACAAGTCAGTGGCA-CCCTTTCAAAGCCCACAAGTCAGTGGCACCT-TTTCAAAGCCCACACAA
* *
767366 GT-AGGTGGCAACTCATTTAAAAGCCCACACAAGTCGATGGCAACTCATTTCAAAGCCCACACAA
128 GTCA-GTGGCAACTCATTTAAAAGCCCACACAAGTCGGTGGCAAC-CCTTTCAAAGCCCACA-AA
*
767430 GTCGGCGGCAACCCATTTCA
190 GTCGGTGG-AACCCATTTCA
*
767450 AAGCCCACAAGTTAGTGGCATCCTTCTCAAAGCTCACATAAATCAGTGGCACCCTTCCAAAGCCC
1 AAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCTCACATAAATCAGTGGCACCCTTCCAAAGCCC
* *
767515 ACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAGTC
66 ACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACACAAGTC
** *
767580 AACGGCAACTCATTTAAAAGCCCACACAAGTCGGTGACAACCCTTTTCAAAGCCCACATAAGTCG
131 AGTGGCAACTCATTTAAAAGCCCACACAAGTCGGTGGCAACCC-TTTCAAAGCCCACA-AAGTCG
767645 GTGGTAACCCATTTCA
194 GTGG-AACCCATTTCA
* * * *
767661 AAGCTCACAAGTCAGTGGCATCCTT-TCAAAGC-CTAC--AAGTTAGTGGCATCCTTCTCAAAGC
1 AAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCTC-ACATAAATCAGTGGCACCCTTC-CAAAGC
* * * * * *
767722 CCATAAGTCAGTGGTATCCTTCTCAAAGCCCATAAGTTAGTGGCATCCTTTTCAAA-TCCAGCAC
64 CCACAAGTCAGTGGCACCCTT-TCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCA-CAC
* * * * * *
767786 AAATCAGTGGC-A-TCCTTTCAAAG--CTCACAAGTCAGTGGC-ATCCTTTCAAAGCCCAC-AAG
126 AAGTCAGTGGCAACTCATTTAAAAGCCCACACAAGTCGGTGGCAACCCTTTCAAAGCCCACAAAG
* * *
767845 TCAGTGGCATCC-TTCTCA
191 TCGGTGGAACCCATT-TCA
* * * * * *
767863 AAGCCCACAAGTCAATGGCATCCTTCTCAAAGCCCATACAAATCAGTGGCACCTTTTCAAAGCCC
1 AAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCTCACATAAATCAGTGGCACCCTTCCAAAGCCC
* * *
767928 ACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCGAAGCCCACACAAGTC
66 ACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACACAAGTC
*
767993 GGTGGC
131 AGTGGC
767999 TTCAAAGCCC
Statistics
Matches: 470, Mismatches: 61, Indels: 43
0.82 0.11 0.07
Matches are distributed among these distances:
201 2 0.00
202 49 0.10
203 41 0.09
204 26 0.06
205 26 0.06
206 3 0.01
207 13 0.03
208 15 0.03
209 59 0.13
210 39 0.08
211 166 0.35
212 31 0.07
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.22
Consensus pattern (208 bp):
AAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCTCACATAAATCAGTGGCACCCTTCCAAAGCCC
ACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACACAAGTC
AGTGGCAACTCATTTAAAAGCCCACACAAGTCGGTGGCAACCCTTTCAAAGCCCACAAAGTCGGT
GGAACCCATTTCA
Found at i:767869 original size:116 final size:113
Alignment explanation
Indices: 767230--767986 Score: 587
Period size: 116 Copynumber: 6.4 Consensus size: 113
767220 CAACTTCGTT
* * * * * * * * **
767230 GCATCCGTTCTAAGCCCACAAGTTAGTGGCACCCTTC-CAAAGTCTATAACTTTGTGGCATCCCT
1 GCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTCAGTGGCA-CCCT
* * * * **
767294 TTT-AAGCCCACAAGTTAGTGGCACCCCTTTTTAAGCCCACAAGTCAGTG
65 TTTCAAACCCACAAATCAGTGGCA-TCCTTTCAAAGCCCACAAGTCAGTG
** * *
767343 GCATTATTTCAAAGCCCACACAAGT-AGGTGGCAACTCATT-TAAAAGCCCACACAAGTC-GATG
1 GCATCCTTTCAAAG-CC-CACAAGTCA-GTGGC-A-TCCTTCTCAAAG-CC-CACAAGTCAG-TG
* * * * * *
767405 GCAACTCATTTCAAAGCCCACACAAGTCGGCGGCAACCCATTTCAAAGCCCACAAGTTAGTG
58 GC-ACCCTTTTCAAA-CCCACA-AA-TCAGTGGC-ATCC-TTTCAAAGCCCACAAGTCAGTG
* * *
767467 GCATCCTTCTCAAAGCTCACATAAATCAGTGGCACCCTTC-CAAAGCCCACAAGTCAGTGGCACC
1 GCATCCTT-TCAAAGC-C-CACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTCAGTGGCACC
* * **
767531 CTTTT-AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAGTCAACG
63 CTTTTCAAA-CCCACAAATCAGTGGCATCCTTTCAAAG-CC-CACAAGTCAGTG
* * * * * * *
767584 GCAACTCATTTAAAAGCCCACACAAGTCGGTGACAACCCTTTTCAAAGCCCACATAAGTCGGTGG
1 GC-A-TCCTTTCAAAG-CC-CACAAGTCAGTGGC-ATCCTTCTCAAAGCCCAC--AAGTCAGTGG
* * * * * *
767649 TAACCCATTTCAAAGCTCACAAGTCAGTGGCATCCTTTCAAAGCCTACAAGTTAGTG
59 -CACCCTTTTCAAA-CCCACAAATCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTG
* * * * *
767706 GCATCCTTCTCAAAGCCCATAAGTCAGTGGTATCCTTCTCAAAGCCCATAAGTTAGTGGCATCCT
1 GCATCCTT-TCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTCAGTGGCACCCT
*
767771 TTTCAAATCCAGCACAAATCAGTGGCATCCTTTCAAAGCTCACAAGTCAGTG
65 TTTCAAA-CC--CACAAATCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTG
* *
767823 GCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTCAATGGCATCCTT
1 GCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTCAGTGGCACCCTT
*
767888 CTCAAAGCCCATACAAATCAGTGGCA-CCTTTTCAAAGCCCACAAGTCAGTG
66 TTCAAA-CCC--ACAAATCAGTGGCATCC-TTTCAAAGCCCACAAGTCAGTG
* *
767939 GCATCCTTTCAAAGCCCACAAGTCAGTGGCAT-CTTTTCGAAGCCCACA
1 GCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACA
767987 CAAGTCGGTG
Statistics
Matches: 523, Mismatches: 83, Indels: 74
0.77 0.12 0.11
Matches are distributed among these distances:
113 10 0.02
114 4 0.01
115 47 0.09
116 141 0.27
117 68 0.13
118 36 0.07
119 44 0.08
120 25 0.05
121 24 0.05
122 23 0.04
123 24 0.05
124 58 0.11
125 18 0.03
126 1 0.00
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.23
Consensus pattern (113 bp):
GCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTCAGTGGCACCCTT
TTCAAACCCACAAATCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTG
Found at i:768040 original size:144 final size:143
Alignment explanation
Indices: 767463--768011 Score: 542
Period size: 145 Copynumber: 3.8 Consensus size: 143
767453 CCCACAAGTT
* * * *
767463 AGTGGCATCCTTCTCAAAGCTCACATAAATCAGTGGCACCCTTCCAAAGCCCACAAGTCAGTGGC
1 AGTGGCATCCTTTTCAAAGC-CACACAAATCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGC
* * * *
767528 ACCCTTTTAAAGCCCACAAGTCAGTGGCACCCTT-TCAAAGCCCACACAAGTCAACGGCAACTCA
65 ATCCTTTCAAAGCCCACAAGTCAGTGG---CCTTCTCAAAG-CC-CACAAGTCAATGGC-A-TCC
* *
767592 TT-TAAAAGCCCACACAAGTC
123 TTCTAAAAGCCCATACAAATC
* * * * * * *
767612 GGTGACAACCCTTTTCAAAGCC-CACATAAGTCGGTGGTAACCCATTTCAAAGCTCACAAGTCAG
1 AGTGGC-ATCCTTTTCAAAGCCACACA-AA-TCAGTGG-CATCC-TTTCAAAGCCCACAAGTCAG
* * * * *
767676 TGGCATCCTTTCAAAGCCTACAAGTTAGTGGCATCCTTCTCAAAGCCCATAAGTCAGTGGTATCC
61 TGGCATCCTTTCAAAGCCCACAAGTCAGTGG---CCTTCTCAAAGCCCACAAGTCAATGGCATCC
* * *
767741 TTCTCAAAGCCCAT--AAGTT
123 TTCTAAAAGCCCATACAAATC
* *
767760 AGTGGCATCCTTTTCAAATCCAGCACAAATCAGTGGCATCCTTTCAAAGCTCACAAGTCAGTGGC
1 AGTGGCATCCTTTTCAAAGCCA-CACAAATCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGC
767825 ATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTCAATGGCATCCTTCT
65 ATCCTTTCAAAGCCCACAAGTCAGTGG---CCTTCTCAAAGCCCACAAGTCAATGGCATCCTTCT
*
767890 CAAAGCCCATACAAATC
127 AAAAGCCCATACAAATC
*
767907 AGTGGCA-CCTTTTCAAAGCC-CACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCA
1 AGTGGCATCCTTTTCAAAGCCACACAAATCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
767970 TCTTTTCGAAGCCCACACAAGTCGGTGG-C-T-TCAAAGCCCACA
66 TCCTTTCAAAG-CC-CACAAGTCAGTGGCCTTCTCAAAGCCCACA
768012 TAAGTTAGTG
Statistics
Matches: 345, Mismatches: 42, Indels: 35
0.82 0.10 0.08
Matches are distributed among these distances:
140 12 0.03
141 1 0.00
142 1 0.00
144 50 0.14
145 96 0.28
146 27 0.08
147 29 0.08
148 13 0.04
149 15 0.04
150 28 0.08
151 14 0.04
152 53 0.15
153 6 0.02
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (143 bp):
AGTGGCATCCTTTTCAAAGCCACACAAATCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCA
TCCTTTCAAAGCCCACAAGTCAGTGGCCTTCTCAAAGCCCACAAGTCAATGGCATCCTTCTAAAA
GCCCATACAAATC
Found at i:768197 original size:48 final size:48
Alignment explanation
Indices: 768134--768264 Score: 154
Period size: 48 Copynumber: 2.7 Consensus size: 48
768124 GGCACCCTTA
* * *
768134 TTAGCTCAATGTCGCTGGCCTTGAATCAGTACATTGTTCTCTTTTCCC
1 TTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
* * *
768182 TTAGCTCAATGTCGCTAGCCTTAAATCAGCACATTGTCCACTTTTTCC
1 TTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
* * ** **
768230 TTTGCTCGATGTCATTGGCCTTGAATTGGCACATT
1 TTAGCTCAATGTCGCTGGCCTTGAATCAGCACATT
768265 AGCACTCCTC
Statistics
Matches: 69, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 69 1.00
ACGTcount: A:0.19, C:0.26, G:0.17, T:0.38
Consensus pattern (48 bp):
TTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
Found at i:772898 original size:20 final size:20
Alignment explanation
Indices: 772873--773007 Score: 83
Period size: 20 Copynumber: 6.5 Consensus size: 20
772863 TAACTAGATG
772873 TATCGATACATTGAAAAATA
1 TATCGATACATTGAAAAATA
*
772893 TATCGATACATTTGGGTAAAAAGA
1 TATCGATACA-TT--G-AAAAATA
* ** * *
772917 CAGAGATACATTGAAGAATG
1 TATCGATACATTGAAAAATA
* * *
772937 TATCGATACATTCATACATGA
1 TATCGATACATTGAAAAAT-A
* * * * *
772958 -ATCGATGCATTCATACATG
1 TATCGATACATTGAAAAATA
*
772977 TATCGATACATTGAAAAATG
1 TATCGATACATTGAAAAATA
772997 TATCGATACAT
1 TATCGATACAT
773008 CTAGGTAAAA
Statistics
Matches: 88, Mismatches: 21, Indels: 12
0.73 0.17 0.10
Matches are distributed among these distances:
20 69 0.78
21 3 0.03
23 3 0.03
24 13 0.15
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (20 bp):
TATCGATACATTGAAAAATA
Done.