Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold207
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: 1047254
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 71453 characters in sequence are not A, C, G, or T
File 4 of 6
Found at i:514393 original size:32 final size:33
Alignment explanation
Indices: 514352--514420 Score: 131
Period size: 32 Copynumber: 2.1 Consensus size: 33
514342 GGCAGTAGCT
514352 TACATTGTATCGATACAACAC-TTATGTATCGA
1 TACATTGTATCGATACAACACTTTATGTATCGA
514384 TACATTGTATCGATACAACACTTTATGTATCGA
1 TACATTGTATCGATACAACACTTTATGTATCGA
514417 TACA
1 TACA
514421 AATCGTTGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 21 0.58
33 15 0.42
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.35
Consensus pattern (33 bp):
TACATTGTATCGATACAACACTTTATGTATCGA
Found at i:514394 original size:13 final size:13
Alignment explanation
Indices: 514376--514400 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
514366 ACAACACTTA
514376 TGTATCGATACAT
1 TGTATCGATACAT
514389 TGTATCGATACA
1 TGTATCGATACA
514401 ACACTTTATG
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:514536 original size:52 final size:52
Alignment explanation
Indices: 514458--514573 Score: 189
Period size: 52 Copynumber: 2.2 Consensus size: 52
514448 GTTGGGACCT
*
514458 TGTATCGATACATTTAATAGTGTATCGATACATCTAGGCAAATTTTCCTGCA
1 TGTATCGATACATTTAATAGTGTATCGATACATCTAGGCAAATTTGCCTGCA
* *
514510 TGTATCGATACAGTTT-ATAGTGTATCGATACATCTGGGCAAATTTGCCTGCG
1 TGTATCGATACA-TTTAATAGTGTATCGATACATCTAGGCAAATTTGCCTGCA
514562 TGTATCGATACA
1 TGTATCGATACA
514574 AAGATCAGTG
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
52 57 0.95
53 3 0.05
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.35
Consensus pattern (52 bp):
TGTATCGATACATTTAATAGTGTATCGATACATCTAGGCAAATTTGCCTGCA
Found at i:514584 original size:52 final size:52
Alignment explanation
Indices: 514474--514593 Score: 170
Period size: 52 Copynumber: 2.3 Consensus size: 52
514464 GATACATTTA
* ***
514474 ATAGTGTATCGATACATCTAGGCAAATTTTCCTGCATGTATCGATACAGTTT
1 ATAGTGTATCGATACATCTAGGCAAATTTGCCTGCATGTATCGATACAGAAG
* *
514526 ATAGTGTATCGATACATCTGGGCAAATTTGCCTGCGTGTATCGATACA-AAG
1 ATAGTGTATCGATACATCTAGGCAAATTTGCCTGCATGTATCGATACAGAAG
514577 ATCAGTGTATCGATACA
1 AT-AGTGTATCGATACA
514594 ATGTATCGAT
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
51 2 0.03
52 59 0.97
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (52 bp):
ATAGTGTATCGATACATCTAGGCAAATTTGCCTGCATGTATCGATACAGAAG
Found at i:514600 original size:13 final size:13
Alignment explanation
Indices: 514582--514606 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
514572 CAAAGATCAG
514582 TGTATCGATACAA
1 TGTATCGATACAA
514595 TGTATCGATACA
1 TGTATCGATACA
514607 TTTAAGTAAT
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:514673 original size:19 final size:18
Alignment explanation
Indices: 514649--514746 Score: 81
Period size: 19 Copynumber: 5.8 Consensus size: 18
514639 TAGCTTATGT
514649 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
514668 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
*
514681 TGTATTGATACAACACTTA
1 TGTATCGATACAA-ACTTA
514700 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
514713 TGTATCGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
514733 TGTATCGATACAAA
1 TGTATCGATACAAA
514747 TCGTTGAAAT
Statistics
Matches: 64, Mismatches: 2, Indels: 26
0.70 0.02 0.28
Matches are distributed among these distances:
13 21 0.33
14 2 0.03
16 4 0.06
18 1 0.02
19 23 0.36
20 13 0.20
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:514690 original size:13 final size:13
Alignment explanation
Indices: 514668--514724 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
514658 ACAAAACTTA
514668 TGTATCGATACAT
1 TGTATCGATACAT
*
514681 TGTATTGATACAACACTT
1 TGTATCGAT---ACA--T
514699 ATGTATCGATACAT
1 -TGTATCGATACAT
514713 TGTATCGATACA
1 TGTATCGATACA
514725 ACACTTTATG
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
16 6 0.17
18 1 0.03
19 8 0.22
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:514691 original size:32 final size:32
Alignment explanation
Indices: 514648--514744 Score: 167
Period size: 32 Copynumber: 3.0 Consensus size: 32
514638 GTAGCTTATG
*
514648 TTGTATCGATACAAAACTTATGTATCGATACA
1 TTGTATCGATACAACACTTATGTATCGATACA
*
514680 TTGTATTGATACAACACTTATGTATCGATACA
1 TTGTATCGATACAACACTTATGTATCGATACA
514712 TTGTATCGATACAACACTTTATGTATCGATACA
1 TTGTATCGATACAACAC-TTATGTATCGATACA
514745 AATCGTTGAA
Statistics
Matches: 61, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
32 46 0.75
33 15 0.25
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.36
Consensus pattern (32 bp):
TTGTATCGATACAACACTTATGTATCGATACA
Found at i:515110 original size:19 final size:20
Alignment explanation
Indices: 515067--515114 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
515057 CACATCCAGA
*
515067 TGTATCGATACATTATGCTT
1 TGTATCGATACATTATGCAT
515087 TGTATCGATACATGT-T-CAT
1 TGTATCGATACAT-TATGCAT
515106 TGTATCGAT
1 TGTATCGAT
515115 GCACACTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 11 0.42
20 14 0.54
21 1 0.04
ACGTcount: A:0.25, C:0.15, G:0.17, T:0.44
Consensus pattern (20 bp):
TGTATCGATACATTATGCAT
Found at i:515202 original size:13 final size:13
Alignment explanation
Indices: 515184--515214 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
515174 CGATACATGG
515184 TACATTGTATCCA
1 TACATTGTATCCA
*
515197 TACATTGTATCGA
1 TACATTGTATCCA
515210 TACAT
1 TACAT
515215 AGTGAAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.19, G:0.10, T:0.39
Consensus pattern (13 bp):
TACATTGTATCCA
Found at i:522180 original size:21 final size:20
Alignment explanation
Indices: 522154--522209 Score: 69
Period size: 19 Copynumber: 2.8 Consensus size: 20
522144 CTACCAGTTT
**
522154 CATGTATCGATACAATTTGTC
1 CATGTATCGATACAA-TTGAA
*
522175 CATGTATCAATACAA-TGAA
1 CATGTATCGATACAATTGAA
522194 CATGTATCGATACAAT
1 CATGTATCGATACAAT
522210 ATATCGATAC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 16 0.53
21 14 0.47
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:524662 original size:13 final size:13
Alignment explanation
Indices: 524644--524669 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
524634 CAATTTTTTG
524644 TGTATCGATACAT
1 TGTATCGATACAT
524657 TGTATCGATACAT
1 TGTATCGATACAT
524670 ACTTTGTGTA
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:524681 original size:32 final size:33
Alignment explanation
Indices: 524624--524687 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
524614 TACAAGCCAA
**
524624 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
524657 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
524688 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:527254 original size:13 final size:13
Alignment explanation
Indices: 527236--527273 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
527226 ATAATCCCCT
*
527236 TGTATCGATACAG
1 TGTATCGATACAA
527249 TGTATCGATACAA
1 TGTATCGATACAA
527262 TGTATCGATACA
1 TGTATCGATACA
527274 TTGAATTTCC
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:0.16, G:0.18, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:529337 original size:15 final size:15
Alignment explanation
Indices: 529317--529347 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
529307 ATTTCGTTTG
*
529317 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
529332 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
529347 G
1 G
529348 GACATTTTTA
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:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:532805 original size:20 final size:20
Alignment explanation
Indices: 532780--532831 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
532770 TTCAAGCCAA
**
532780 TGTATCGATACAATTTTTTG
1 TGTATCGATACAATACTTTG
532800 TGTATCGATAC-ATACTTTG
1 TGTATCGATACAATACTTTG
532819 TGTATCGATACAA
1 TGTATCGATACAA
532832 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.42
Consensus pattern (20 bp):
TGTATCGATACAATACTTTG
Found at i:534436 original size:20 final size:20
Alignment explanation
Indices: 534375--534445 Score: 67
Period size: 20 Copynumber: 3.5 Consensus size: 20
534365 ACCCGAAAAA
534375 GTATCGATACACA-TCCAGA-T
1 GTATCGATACACACT-CA-ATT
* * *
534395 GTATCGATACATTACGC-TTT
1 GTATCGATACA-CACTCAATT
534415 GTATCGATACACACTCAATT
1 GTATCGATACACACTCAATT
534435 GTATCGATACA
1 GTATCGATACA
534446 TGAAACTGGT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
19 3 0.07
20 36 0.88
21 2 0.05
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31
Consensus pattern (20 bp):
GTATCGATACACACTCAATT
Found at i:535638 original size:51 final size:51
Alignment explanation
Indices: 535526--536237 Score: 183
Period size: 52 Copynumber: 13.8 Consensus size: 51
535516 AAACTTGTCT
* *
535526 GAATCCAAGTCCACACTAGTTGGCACCTATATAAGGAGGTCAAGCCCTATA
1 GAATCCAAGTCCACACTAATTGGCACCTATATAAGGAGGTCAAACCCTATA
* * * *
535577 -AGA-CCTAAGTCCATATTAATTGGCACTTGTAT-AGAGAGGTCAAACCCTATA
1 GA-ATCC-AAGTCCACACTAATTGGCACCTATATAAG-GAGGTCAAACCCTATA
** * * ** *
535628 GAATCCAAGTCCACACTAGCTAGCA-CTAGTATATA-AAGGTTTAGCCCTATA
1 GAATCCAAGTCCACACTAATTGGCACCTA-TATA-AGGAGGTCAAACCCTATA
* * * * ** * * * * * * *
535679 AAACCCGAACTCCACATTAGCTAGCACTTGTATAGGGAGGTCTAGCCTTATA
1 GAATCC-AAGTCCACACTAATTGGCACCTATATAAGGAGGTCAAACCCTATA
** * ** * * ** *
535731 GAATTTAAAG-CCATACTAGCTGGCACCTATATAGGGAGGTTAAGTCTTATA
1 GAA-TCCAAGTCCACACTAATTGGCACCTATATAAGGAGGTCAAACCCTATA
* * ** ** * * * *
535782 -AAACCTAAAGTTCACACTAGCTAACA-ATACAT-TGAGAGGTC-AAGCCTATA
1 GAATCC--AAGTCCACACTAATTGGCACCTATATAAG-GAGGTCAAACCCTATA
* * * * * ** * *
535832 AAACCCAAAGTCTACATTAGTTAACACCTATATAAGGAGGTCAAGCCTTATA
1 GAATCC-AAGTCCACACTAATTGGCACCTATATAAGGAGGTCAAACCCTATA
* * ** * * *
535884 GAAACCAAAGTCCACATTAGCTGGCACTTGTATAAGGAGGTCAAGCCCTATA
1 GAATCC-AAGTCCACACTAATTGGCACCTATATAAGGAGGTCAAACCCTATA
* * * ** *
535936 AAATCTAAGTTCACACTAGCTGGACACCTATAT-AGAGAGGTCAAGCCCTATA
1 GAATCCAAGTCCACACTAATTGG-CACCTATATAAG-GAGGTCAAACCCTATA
* ** * ** * * *
535988 GAA-CCTAAAGTCCACATTAGCTAGCATTTGTATAGGGAGGTCAAGCCCTATA
1 GAATCC--AAGTCCACACTAATTGGCACCTATATAAGGAGGTCAAACCCTATA
* * * ** * * **
536040 GAACCCCATGT-CACATTAGCTGGCACCTGTATAGGGAGGTC-AAGGCTGATA
1 GAA-TCCAAGTCCACACTAATTGGCACCTATATAAGGAGGTCAAACCCT-ATA
* ** * * *
536091 GAATCCAAGTTCACACTAGCTAGCACCTATATAAGAAGGTCAAACCTTATA
1 GAATCCAAGTCCACACTAATTGGCACCTATATAAGGAGGTCAAACCCTATA
** * ** * * * *
536142 GAATATAAAGTCCACATTAGCTGACACTTATATAAAGAGGTCAAGCCCTATA
1 GAAT-CCAAGTCCACACTAATTGGCACCTATATAAGGAGGTCAAACCCTATA
* * * * **
536194 GATAGCAAAGTCCACATTAATTGGCACTTATATAAAAAGGTCAA
1 GA-ATCCAAGTCCACACTAATTGGCACCTATATAAGGAGGTCAA
536238 GTCCTATAAA
Statistics
Matches: 505, Mismatches: 124, Indels: 63
0.73 0.18 0.09
Matches are distributed among these distances:
50 39 0.08
51 213 0.42
52 233 0.46
53 18 0.04
54 2 0.00
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (51 bp):
GAATCCAAGTCCACACTAATTGGCACCTATATAAGGAGGTCAAACCCTATA
Found at i:535725 original size:52 final size:52
Alignment explanation
Indices: 535532--536268 Score: 411
Period size: 51 Copynumber: 14.3 Consensus size: 52
535522 GTCTGAATCC
* * * * * * * *
535532 AAGTCCACACTAGTTGGCACCTATATAAGGAGGTCAAGCCCTATAAGA-CCT
1 AAGTCCACATTAGCTAGCACTTGTATAGGGAGGTCAAGCCCTATAAAACCCA
* ** * * * * *
535583 AAGTCCATATTAATTGGCACTTGTATAGAGAGGTCAAACCCTATAGAATCC-
1 AAGTCCACATTAGCTAGCACTTGTATAGGGAGGTCAAGCCCTATAAAACCCA
* * *** ** *
535634 AAGTCCACACTAGCTAGCACTAGTATATAAAGGTTTAGCCCTATAAAACCCG
1 AAGTCCACATTAGCTAGCACTTGTATAGGGAGGTCAAGCCCTATAAAACCCA
* * * * ***
535686 AACTCCACATTAGCTAGCACTTGTATAGGGAGGTCTAGCCTTATAGAATTTA
1 AAGTCCACATTAGCTAGCACTTGTATAGGGAGGTCAAGCCCTATAAAACCCA
* * * * * * * * *
535738 AAG-CCATACTAGCTGGCACCTATATAGGGAGGTTAAGTCTTATAAAACCTA
1 AAGTCCACATTAGCTAGCACTTGTATAGGGAGGTCAAGCCCTATAAAACCCA
* * * * ** * *
535789 AAGTTCACACTAGCTAACA-ATACATTGAGAGGTCAAG-CCTATAAAACCCA
1 AAGTCCACATTAGCTAGCACTTGTATAGGGAGGTCAAGCCCTATAAAACCCA
* * * * * * *
535839 AAGTCTACATTAGTTAACACCTATATAAGGAGGTCAAGCCTTATAGAAA-CCA
1 AAGTCCACATTAGCTAGCACTTGTATAGGGAGGTCAAGCCCTATA-AAACCCA
* * * *
535891 AAGTCCACATTAGCTGGCACTTGTATAAGGAGGTCAAGCCCTATAAAA-TCT
1 AAGTCCACATTAGCTAGCACTTGTATAGGGAGGTCAAGCCCTATAAAACCCA
* * * * * * * *
535942 AAGTTCACACTAGCTGGACACCTATATAGAGAGGTCAAGCCCTATAGAACCTA
1 AAGTCCACATTAGCTAG-CACTTGTATAGGGAGGTCAAGCCCTATAAAACCCA
* * *
535995 AAGTCCACATTAGCTAGCATTTGTATAGGGAGGTCAAGCCCTATAGAACCCC
1 AAGTCCACATTAGCTAGCACTTGTATAGGGAGGTCAAGCCCTATAAAACCCA
* * * * * *
536047 ATGT-CACATTAGCTGGCACCTGTATAGGGAGGTCAAG-GCTGATAGAATCC-
1 AAGTCCACATTAGCTAGCACTTGTATAGGGAGGTCAAGCCCT-ATAAAACCCA
* * * * * * * * * ***
536097 AAGTTCACACTAGCTAGCACCTATATAAGAAGGTCAAACCTTATAGAATATA
1 AAGTCCACATTAGCTAGCACTTGTATAGGGAGGTCAAGCCCTATAAAACCCA
* ** * *
536149 AAGTCCACATTAGCT-GACACTTATATAAAGAGGTCAAGCCCTATAGATA-GCA
1 AAGTCCACATTAGCTAG-CACTTGTATAGGGAGGTCAAGCCCTATA-AAACCCA
** * * *** *
536201 AAGTCCACATTAATTGGCACTTATATAAAAAGGTCAAGTCCTATAAAA-CCA
1 AAGTCCACATTAGCTAGCACTTGTATAGGGAGGTCAAGCCCTATAAAACCCA
**
536252 AAGTCCATGTTAGCTAG
1 AAGTCCACATTAGCTAG
536269 TGTTTAGTAG
Statistics
Matches: 535, Mismatches: 136, Indels: 30
0.76 0.19 0.04
Matches are distributed among these distances:
50 31 0.06
51 250 0.47
52 235 0.44
53 19 0.04
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (52 bp):
AAGTCCACATTAGCTAGCACTTGTATAGGGAGGTCAAGCCCTATAAAACCCA
Found at i:541436 original size:19 final size:21
Alignment explanation
Indices: 541387--541436 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
541377 GCCAAGACTT
541387 GTATCGATACAATCACACTAG
1 GTATCGATACAATCACACTAG
* * *
541408 GTATCAATACCA-CACCCTA-
1 GTATCGATACAATCACACTAG
541427 GTATCGATAC
1 GTATCGATAC
541437 GAAGCCTTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 9 0.36
20 6 0.24
21 10 0.40
ACGTcount: A:0.36, C:0.28, G:0.12, T:0.24
Consensus pattern (21 bp):
GTATCGATACAATCACACTAG
Found at i:541791 original size:16 final size:17
Alignment explanation
Indices: 541772--541815 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
541762 TTGTTCTTAT
*
541772 TTTTTATTA-CATCACC
1 TTTTGATTAGCATCACC
541788 TTTTGATTATGGCATCACC
1 TTTTGATTA--GCATCACC
541807 TTTTGATTA
1 TTTTGATTA
541816 TGGCTCGGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 8 0.33
19 16 0.67
ACGTcount: A:0.23, C:0.18, G:0.09, T:0.50
Consensus pattern (17 bp):
TTTTGATTAGCATCACC
Found at i:541803 original size:19 final size:19
Alignment explanation
Indices: 541781--541819 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
541771 TTTTTTATTA
541781 CATCACCTTTTGATTATGG
1 CATCACCTTTTGATTATGG
541800 CATCACCTTTTGATTATGG
1 CATCACCTTTTGATTATGG
541819 C
1 C
541820 TCGGGTTACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (19 bp):
CATCACCTTTTGATTATGG
Found at i:544123 original size:20 final size:20
Alignment explanation
Indices: 544098--544137 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
544088 ACATACTACC
* *
544098 AAGAAAATGTATTGATATAT
1 AAGAAAATGCATCGATATAT
544118 AAGAAAATGCATCGATATAT
1 AAGAAAATGCATCGATATAT
544138 TTACTGTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.05, G:0.15, T:0.30
Consensus pattern (20 bp):
AAGAAAATGCATCGATATAT
Found at i:546569 original size:79 final size:79
Alignment explanation
Indices: 546478--547406 Score: 690
Period size: 79 Copynumber: 11.8 Consensus size: 79
546468 CCATTTAATG
* * * ** *
546478 TTTTATTACTAAAACACTGATTTTTCACCTTTAGGGATACTCCAACCCCGTTATTTTCAAGGGGA
1 TTTTATTTCTAAAACACTAATTTTTCACCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGA
*
546543 TACTCCAACCTCAA
66 TACTCCAACCTCGA
* * * * **
546557 TTTTATTTCTAAAACA-TCAATTTTCCACCATCAGGGACACTCCAATCCTATTATTGTT-GAGGG
1 TTTTATTTCTAAAACACT-AATTTTTCACCATCGGGGATACTCCAACCCCGTTATT-TTCGAGGG
* * ** *
546620 AAAACTCTGACC-CTA
64 GATACTCCAACCTCGA
* * ** * * *
546635 GTTTTATTTCTAAAACACTGATTTTTCACCATCGGGGATACTTCAACCCTATTATTTTTGAAGGT
1 -TTTTATTTCTAAAACACTAATTTTTCACCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGG
*
546700 ATACTCCAACC-CTGG
65 ATACTCCAACCTC-GA
* * * * * * *
546715 TTTTATTTTTAAAACACTGAGTTTTCACCATCGGGGATACTCCAACCCCATTATTTCCAAGGAGA
1 TTTTATTTCTAAAACACTAATTTTTCACCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGA
* * *
546780 CACTCTAACC-CTAA
66 TACTCCAACCTC-GA
* * * * * * * **
546794 TTTTATTTCTAAAATA-TCAATTTTCCACAATCGGGGATACTCTAATCCTGTTATTTTTGAAAGG
1 TTTTATTTCTAAAACACT-AATTTTTCACCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGG
* *
546858 ATACTCTAACCCCGA
65 ATACTCCAACCTCGA
* * * ** *
546873 TTTTATTTATAAAACACTAATTTTTCACCATCGAGGATCCTCCAACCTTGTTATTTTTGAGGGGA
1 TTTTATTTCTAAAACACTAATTTTTCACCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGA
546938 TACTCCAACCTCGA
66 TACTCCAACCTCGA
* ** *
546952 TTTTATTTCTAAAACA-TCAATTTTTCACCAACGGGGATACTCCAACCTTGTTA-TTTCTGAGAG
1 TTTTATTTCTAAAACACT-AATTTTTCACCATCGGGGATACTCCAACCCCGTTATTTTC-GAGGG
* ** * *
547015 GACACTTTAACCTTGG
64 GATACTCCAACCTCGA
* *** * * **
547031 TTTTATTTCTAAAACACTAATTTTCCTA-CATTAAGGATATTCCAACCTCGTTATTTTTTAGGGG
1 TTTTATTTCTAAAACACTAATTTTTC-ACCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGG
* * ** *
547095 ACATTTTAACCACGA
65 ATACTCCAACCTCGA
* * * *
547110 TTTTATTTCTAAAATATCT-ATTTTTCACCATTGGGGATAATCCAACCTCG-T-TTTTCTGAGGG
1 TTTTATTTCTAAAACA-CTAATTTTTCACCATCGGGGATACTCCAACCCCGTTATTTTC-GAGGG
*
547172 GATACTCCAACC-CTGG
64 GATACTCCAACCTC-GA
**
547188 TTTTATTTCTAAAACA-TAATTTTTCACCATCGGGGATACTCCAACCCAATTA-TTTCTGAGGGG
1 TTTTATTTCTAAAACACTAATTTTTCACCATCGGGGATACTCCAACCCCGTTATTTTC-GAGGGG
* * *
547251 ACACTCCAA-TTCCGG
65 ATACTCCAACCT-CGA
* * ** * *
547266 TTTTATTTCTAAAATA-TCAATTTTTTACCATCTAGGAT-CTCCAACCTCATTATTTTCGAGGGG
1 TTTTATTTCTAAAACACT-AATTTTTCACCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGG
547329 ATACTCCAACCCTC-A
65 ATACTCCAA-CCTCGA
* ** * * * * *
547344 TTTTATTTCTCAAACACCGATTTTTCACCATCGAGGATATTCCAACCCCATTATCTCCGAGGG
1 TTTTATTTCTAAAACACTAATTTTTCACCATCGGGGATACTCCAACCCCGTTATTTTCGAGGG
547407 AACATTCGAA
Statistics
Matches: 684, Mismatches: 137, Indels: 58
0.78 0.16 0.07
Matches are distributed among these distances:
76 1 0.00
77 31 0.05
78 135 0.20
79 504 0.74
80 13 0.02
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.36
Consensus pattern (79 bp):
TTTTATTTCTAAAACACTAATTTTTCACCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGA
TACTCCAACCTCGA
Found at i:546768 original size:158 final size:157
Alignment explanation
Indices: 546477--547397 Score: 794
Period size: 158 Copynumber: 5.9 Consensus size: 157
546467 TCCATTTAAT
* * * ** * *
546477 GTTTTATTACTAAAACA-CTGATTTTTCACCTTTAGGGATACTCCAACCCCGTTA-TTTTCAAGG
1 GTTTTATTTCTAAAACATC-AATTTTTCACCATCGGGGATACTCCAACCCTGTTATTTTTGAA-G
* * *
546540 GGATACTCCAA-CCTCAATTTTATTTCTAAAACA-TCAATTTTCCACCATC-AGGGACACTCCAA
64 GGATACTCCAACCCT-GATTTTATTTCTAAAACACT-AATTTTTCACCATCGA-GGATACTCCAA
* * * * *
546602 TCCTATTATTGTTGAGGGAAAACTCTGACCCTA
126 CCCCATTATT-TTGAGGGGACACTCTAACCCTA
* * *
546635 GTTTTATTTCTAAAACA-CTGATTTTTCACCATCGGGGATACTTCAACCCTATTATTTTTGAAGG
1 GTTTTATTTCTAAAACATC-AATTTTTCACCATCGGGGATACTCCAACCCTGTTATTTTTGAAGG
* * * * * *
546699 TATACTCCAACCCTGGTTTTATTTTTAAAACACTGAGTTTTCACCATCGGGGATACTCCAACCCC
65 GATACTCCAACCCTGATTTTATTTCTAAAACACTAATTTTTCACCATCGAGGATACTCCAACCCC
** *
546764 ATTATTTCCAAGGAGACACTCTAACCCTA
130 ATTATTT-TGAGGGGACACTCTAACCCTA
* * * * * * *
546793 ATTTTATTTCTAAAATATCAATTTTCCACAATCGGGGATACTCTAATCCTGTTATTTTTGAAAGG
1 GTTTTATTTCTAAAACATCAATTTTTCACCATCGGGGATACTCCAACCCTGTTATTTTTGAAGGG
* * * * ***
546858 ATACTCTAACCCCGATTTTATTTATAAAACACTAATTTTTCACCATCGAGGATCCTCCAACCTTG
66 ATACTCCAACCCTGATTTTATTTCTAAAACACTAATTTTTCACCATCGAGGATACTCCAACCCCA
* * *
546923 TTATTTTTGAGGGGATACTCCAA-CCTC
131 TTA-TTTTGAGGGGACACTCTAACCCTA
* * *
546950 GATTTTATTTCTAAAACATCAATTTTTCACCAACGGGGATACTCCAACCTTGTTATTTCTG-AGA
1 G-TTTTATTTCTAAAACATCAATTTTTCACCATCGGGGATACTCCAACCCTGTTATTTTTGAAG-
* ** * * * ** *
547014 GGACACTTTAACCTTGGTTTTATTTCTAAAACACTAATTTTCCTA-CATTAAGGATATTCCAACC
64 GGATACTCCAACCCTGATTTTATTTCTAAAACACTAATTTTTC-ACCATCGAGGATACTCCAACC
* * * * * *
547078 TCGTTATTTTTTAGGGGACATTTTAACCACGA
128 CCATTA-TTTTGAGGGGACACTCTAACC-CTA
* * * * * *
547110 -TTTTATTTCTAAAATATCTATTTTTCACCATTGGGGATAATCCAA-CCTCGTT-TTTCTGAGGG
1 GTTTTATTTCTAAAACATCAATTTTTCACCATCGGGGATACTCCAACCCT-GTTATTTTTGAAGG
* * *
547172 GATACTCCAACCCTGGTTTTATTTCTAAAACA-TAATTTTTCACCATCGGGGATACTCCAACCCA
65 GATACTCCAACCCTGATTTTATTTCTAAAACACTAATTTTTCACCATCGAGGATACTCCAACCCC
* * *
547236 ATTATTTCTGAGGGGACACTCCAATTCC-G
130 ATTATTT-TGAGGGGACACTCTAA-CCCTA
* * ** * * *
547265 GTTTTATTTCTAAAATATCAATTTTTTACCATCTAGGAT-CTCCAA-CCTCATTATTTTCGAGGG
1 GTTTTATTTCTAAAACATCAATTTTTCACCATCGGGGATACTCCAACCCT-GTTATTTTTGAAGG
* * ** *
547328 GATACTCCAACCCTCATTTTATTTCTCAAACACCGATTTTTCACCATCGAGGATATTCCAACCCC
65 GATACTCCAACCCTGATTTTATTTCTAAAACACTAATTTTTCACCATCGAGGATACTCCAACCCC
547393 ATTAT
130 ATTAT
547398 CTCCGAGGGA
Statistics
Matches: 619, Mismatches: 124, Indels: 41
0.79 0.16 0.05
Matches are distributed among these distances:
155 15 0.02
156 109 0.18
157 75 0.12
158 403 0.65
159 16 0.03
160 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.36
Consensus pattern (157 bp):
GTTTTATTTCTAAAACATCAATTTTTCACCATCGGGGATACTCCAACCCTGTTATTTTTGAAGGG
ATACTCCAACCCTGATTTTATTTCTAAAACACTAATTTTTCACCATCGAGGATACTCCAACCCCA
TTATTTTGAGGGGACACTCTAACCCTA
Found at i:546898 original size:237 final size:236
Alignment explanation
Indices: 546477--547397 Score: 873
Period size: 237 Copynumber: 3.9 Consensus size: 236
546467 TCCATTTAAT
* * * ** * * *
546477 GTTTTATTACTAAAACACTGATTTTTCACCTTTAGGGATACTCCAACCCCGTTATTTTCAAGGGG
1 GTTTTATTTCTAAAACA-TAATTTTTCACCATCGGGGATACTCCAACCCCATTATTTCCAAGGAG
* * *
546542 ATACTCCAA-CCTCAATTTTATTTCTAAAACATCAATTTTCCACCATCAGGGACACTCCAATCCT
65 ACACTCCAACCCT-AATTTTATTTCTAAAACATCAATTTTCCACCATCAAGGATACTCCAA-CCT
* * * *
546606 -ATTATTGTTG-AGGGAAAACTCTGA-CCCTAGTTTTATTTCTAAAACACTGATTTTTCACCATC
128 CATTATTTTTGAAGGG-ATACTCTAACCCCGA-TTTTATTTCTAAAACACTGATTTTTCACCATC
* * * *
546668 GGGGATACTTCAACCCTATTATTTTTGAAGGTATACTCCAACCCTG
191 GAGGATACTCCAACCCTATTATTTTTGAGGGGATACTCCAACCCTG
* * *
546714 GTTTTATTTTTAAAACACTGAGTTTTCACCATCGGGGATACTCCAACCCCATTATTTCCAAGGAG
1 GTTTTATTTCTAAAACA-TAATTTTTCACCATCGGGGATACTCCAACCCCATTATTTCCAAGGAG
* * * ** *
546779 ACACTCTAACCCTAATTTTATTTCTAAAATATCAATTTTCCACAATCGGGGATACTCTAATCCT-
65 ACACTCCAACCCTAATTTTATTTCTAAAACATCAATTTTCCACCATCAAGGATACTCCAA-CCTC
* * * *
546843 GTTATTTTTGAAAGGATACTCTAACCCCGATTTTATTTATAAAACACTAATTTTTCACCATCGAG
129 ATTATTTTTGAAGGGATACTCTAACCCCGATTTTATTTCTAAAACACTGATTTTTCACCATCGAG
* * *
546908 GATCCTCCAACCTTGTTATTTTTGAGGGGATACTCCAA-CCTCG
194 GATACTCCAACCCTATTATTTTTGAGGGGATACTCCAACCCT-G
* * *** **
546951 ATTTTATTTCTAAAACATCAATTTTTCACCAACGGGGATACTCCAACCTTGTTATTTCTGA-GAG
1 GTTTTATTTCTAAAACAT-AATTTTTCACCATCGGGGATACTCCAACCCCATTATTTCCAAGGA-
** * ** * *
547015 GACACTTTAACCTTGGTTTTATTTCTAAAACA-CTAATTTTCCTA-CATTAAGGATATTCCAACC
64 GACACTCCAACCCTAATTTTATTTCTAAAACATC-AATTTTCC-ACCATCAAGGATACTCCAACC
* * * * * * * * *
547078 TCGTTATTTTTTAGGGGACATTTTAACCACGATTTTATTTCTAAAATATCT-ATTTTTCACCATT
127 TCATTATTTTTGAAGGGATACTCTAACCCCGATTTTATTTCTAAAACA-CTGATTTTTCACCATC
* * * *
547142 GGGGATAATCCAA-CCTCGTT-TTTCTGAGGGGATACTCCAACCCTG
191 GAGGATACTCCAACCCT-ATTATTTTTGAGGGGATACTCCAACCCTG
* ** *
547187 GTTTTATTTCTAAAACATAATTTTTCACCATCGGGGATACTCCAACCCAATTATTTCTGAGGGGA
1 GTTTTATTTCTAAAACATAATTTTTCACCATCGGGGATACTCCAACCCCATTATTTCCAAGGAGA
* ** * ** *
547252 CACTCCAATTCC-GGTTTTATTTCTAAAATATCAATTTTTTACCATCTAGGAT-CTCCAACCTCA
66 CACTCCAA-CCCTAATTTTATTTCTAAAACATCAATTTTCCACCATCAAGGATACTCCAACCTCA
* * * * *
547315 TTATTTTCGAGGGGATACTCCAACCCTC-ATTTTATTTCTCAAACACCGATTTTTCACCATCGAG
130 TTATTTTTGAAGGGATACTCTAACCC-CGATTTTATTTCTAAAACACTGATTTTTCACCATCGAG
* *
547379 GATATTCCAACCCCATTAT
194 GATACTCCAACCCTATTAT
547398 CTCCGAGGGA
Statistics
Matches: 565, Mismatches: 99, Indels: 42
0.80 0.14 0.06
Matches are distributed among these distances:
233 1 0.00
234 69 0.12
235 81 0.14
236 52 0.09
237 349 0.62
238 13 0.02
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.36
Consensus pattern (236 bp):
GTTTTATTTCTAAAACATAATTTTTCACCATCGGGGATACTCCAACCCCATTATTTCCAAGGAGA
CACTCCAACCCTAATTTTATTTCTAAAACATCAATTTTCCACCATCAAGGATACTCCAACCTCAT
TATTTTTGAAGGGATACTCTAACCCCGATTTTATTTCTAAAACACTGATTTTTCACCATCGAGGA
TACTCCAACCCTATTATTTTTGAGGGGATACTCCAACCCTG
Found at i:557347 original size:3 final size:3
Alignment explanation
Indices: 557341--557383 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
557331 CGAGTCAACT
* *
557341 TCA TCA TCA TCA TCA TCA TCA TCA TCA TTA TCT TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
557384 TGATGGTTGA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.30, C:0.30, G:0.00, T:0.40
Consensus pattern (3 bp):
TCA
Found at i:559111 original size:13 final size:13
Alignment explanation
Indices: 559093--559117 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
559083 ATACAAAAAC
559093 ATGTATCGATACA
1 ATGTATCGATACA
559106 ATGTATCGATAC
1 ATGTATCGATAC
559118 TAAGCAATAT
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):
ATGTATCGATACA
Found at i:559261 original size:21 final size:20
Alignment explanation
Indices: 559235--559298 Score: 74
Period size: 22 Copynumber: 3.0 Consensus size: 20
559225 ATACTTTGGA
559235 TTATTTTTACTTGAAAACAT
1 TTATTTTTACTTGAAAACAT
559255 TTGATTTATTACTTGAAAAACAT
1 TT-ATTT-TTACTTG-AAAACAT
* *
559278 TTATTCTTAACTTTAAAACAT
1 TTATT-TTTACTTGAAAACAT
559299 CTTTGATATT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
20 2 0.05
21 11 0.29
22 15 0.39
23 10 0.26
ACGTcount: A:0.38, C:0.11, G:0.05, T:0.47
Consensus pattern (20 bp):
TTATTTTTACTTGAAAACAT
Found at i:559269 original size:22 final size:22
Alignment explanation
Indices: 559237--559279 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
559227 ACTTTGGATT
559237 ATTTTTACTTG-AAAACATTTG
1 ATTTTTACTTGAAAAACATTTG
559258 ATTTATTACTTGAAAAACATTT
1 ATTT-TTACTTGAAAAACATTT
559280 ATTCTTAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 4 0.20
22 7 0.35
23 9 0.45
ACGTcount: A:0.37, C:0.09, G:0.07, T:0.47
Consensus pattern (22 bp):
ATTTTTACTTGAAAAACATTTG
Found at i:560859 original size:17 final size:16
Alignment explanation
Indices: 560839--560891 Score: 65
Period size: 17 Copynumber: 3.4 Consensus size: 16
560829 TTTCATTTGA
*
560839 TTTTTATTTTTTATTAT
1 TTTTTATTTTTT-GTAT
*
560856 TTTTTATTTTTTGTGT
1 TTTTTATTTTTTGTAT
560872 TTTTTA-TTTTTGT-T
1 TTTTTATTTTTTGTAT
560886 TTTTTA
1 TTTTTA
560892 CACTATCTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
14 7 0.21
15 7 0.21
16 8 0.24
17 12 0.35
ACGTcount: A:0.11, C:0.00, G:0.06, T:0.83
Consensus pattern (16 bp):
TTTTTATTTTTTGTAT
Found at i:561764 original size:114 final size:114
Alignment explanation
Indices: 561564--561789 Score: 407
Period size: 114 Copynumber: 2.0 Consensus size: 114
561554 TTATGGACCA
*
561564 CAACCTTGTATTTATGCCCAACATATCTTGATAGGACCATGCAAATACATCTCAAAACTCCTGAA
1 CAACCTTGTATCTATGCCCAACATATCTTGATAGGACCATGCAAATACATCTCAAAACTCCTGAA
*
561629 GCAAACTTATCATTTCTTTTGAAGTAGCAGGAATAAAAGCAATCCCCCG
66 GCAAACTTATCAATTCTTTTGAAGTAGCAGGAATAAAAGCAATCCCCCG
* *
561678 CAACCTTGTATCTATGCGCAACATATCTTGATAGGACCATGCAAATACATCTCAAAACTCTTGAA
1 CAACCTTGTATCTATGCCCAACATATCTTGATAGGACCATGCAAATACATCTCAAAACTCCTGAA
*
561743 GCAAACTTATCAATTCTTTTGAAGTAGCAGGCATAAAAGCAATCCCC
66 GCAAACTTATCAATTCTTTTGAAGTAGCAGGAATAAAAGCAATCCCC
561790 GCTCTGACTT
Statistics
Matches: 107, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
114 107 1.00
ACGTcount: A:0.35, C:0.24, G:0.13, T:0.27
Consensus pattern (114 bp):
CAACCTTGTATCTATGCCCAACATATCTTGATAGGACCATGCAAATACATCTCAAAACTCCTGAA
GCAAACTTATCAATTCTTTTGAAGTAGCAGGAATAAAAGCAATCCCCCG
Found at i:564346 original size:4 final size:4
Alignment explanation
Indices: 564337--564381 Score: 72
Period size: 4 Copynumber: 11.0 Consensus size: 4
564327 TAGTTATGTA
*
564337 TATG TATG TATG TATG TATG TATG TATG TATA TAATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG T-ATG TATG TATG
564382 CATGGTGTGA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
4 35 0.92
5 3 0.08
ACGTcount: A:0.29, C:0.00, G:0.22, T:0.49
Consensus pattern (4 bp):
TATG
Found at i:569422 original size:79 final size:79
Alignment explanation
Indices: 569240--569840 Score: 766
Period size: 79 Copynumber: 7.6 Consensus size: 79
569230 ATATTTCTCG
* * *
569240 ATGAGAAATTTAATATTTTGGAGATAATAGT-GGGGTTGGAGTATCCCCTTGAAAATAACGGGGT
1 ATGAGAAA-TTAATATTTTAGAAATAA-AATCGGGGTTGGAGTATCCCCTTGAAAATAACGGGGT
*
569304 TGGAGTATCCCCGGTT
64 TGGAGTATCCCCGATT
* * ** * * *
569320 GTGAAAAATCGATGA--TTAGGAAATAAAATCGGGATTGGAGTATCCCCTCGGAAATAACGGGGT
1 ATGAGAAATTAAT-ATTTTA-GAAATAAAATCGGGGTTGGAGTATCCCCTTGAAAATAACGGGGT
569383 TGGAGTATCCCCGATT
64 TGGAGTATCCCCGATT
* * *
569399 ATGAGAAATTAATATTTTAGAAATAAGATCGGGGTTAGAGTATCCCCTTGGAAATAACGGGGTTG
1 ATGAGAAATTAATATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTTGAAAATAACGGGGTTG
569464 GAGTATCCCCGATT
66 GAGTATCCCCGATT
* * *
569478 ATAAGAAATTAATATTTTAGAAATAAAACCGGGGTTAGAGTATCCCCTTGAAAATAACGGGGTTG
1 ATGAGAAATTAATATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTTGAAAATAACGGGGTTG
569543 GAGTATCCCCGATT
66 GAGTATCCCCGATT
* ** * * * *
569557 GTGA-AGAATCGATGA-TTTAAAAATAAAATCGGGATTGGAATATCCCCTCGAAAATAACGGGGT
1 ATGAGA-AATTAAT-ATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTTGAAAATAACGGGGT
569620 TGGAGTATCCCCGATT
64 TGGAGTATCCCCGATT
* * * *
569636 ATGAGAAATTAATATTTTAGAAATAAGATCGGGGTTAGAGTATCCCCTCGGAAATAACGGGGTTG
1 ATGAGAAATTAATATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTTGAAAATAACGGGGTTG
569701 GAGTATCCCCGATT
66 GAGTATCCCCGATT
* *
569715 ATAAGAAACTAATATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTTGAAAATAACGGGGTTG
1 ATGAGAAATTAATATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTTGAAAATAACGGGGTTG
569780 GAGTATCCCCGATT
66 GAGTATCCCCGATT
** * * *
569794 ATG-GAAAATTGGT-GTTTCGAAAATAAAATCGGAGTTGGAGTATCCCC
1 ATGAG-AAATTAATATTTTAG-AAATAAAATCGGGGTTGGAGTATCCCC
569841 GATTGGGGAA
Statistics
Matches: 455, Mismatches: 55, Indels: 23
0.85 0.10 0.04
Matches are distributed among these distances:
78 12 0.03
79 431 0.95
80 12 0.03
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.28
Consensus pattern (79 bp):
ATGAGAAATTAATATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTTGAAAATAACGGGGTTG
GAGTATCCCCGATT
Found at i:569664 original size:237 final size:236
Alignment explanation
Indices: 569243--569840 Score: 959
Period size: 237 Copynumber: 2.5 Consensus size: 236
569233 TTTCTCGATG
* * * **
569243 AGAAATTTAATATTTTGGAGATAATAGTGGGGTTGGAGTATCCCCTTGAAAATAACGGGGTTGGA
1 AGAAA-TTAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTTGAAAATAACGGGGTTGGA
* * *
569308 GTATCCCCGGTTGTGAAAAATCGATGA-TTAGGAAATAAAATCGGGATTGGAGTATCCCCTCGGA
65 GTATCCCCGATTGTG-AAAATCGATGATTTA-AAAATAAAATCGGGATTGGAGTATCCCCTCGAA
569372 AATAACGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAGATCGGGGTTAG
128 AATAACGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAGATCGGGGTTAG
*
569437 AGTATCCCCTTGGAAATAACGGGGTTGGAGTATCCCCGATTATA
193 AGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATA
*
569481 AGAAATTAATATTTTAGAAATAAAACCGGGGTTAGAGTATCCCCTTGAAAATAACGGGGTTGGAG
1 AGAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTTGAAAATAACGGGGTTGGAG
*
569546 TATCCCCGATTGTGAAGAATCGATGATTTAAAAATAAAATCGGGATTGGAATATCCCCTCGAAAA
66 TATCCCCGATTGTGAA-AATCGATGATTTAAAAATAAAATCGGGATTGGAGTATCCCCTCGAAAA
569611 TAACGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAGATCGGGGTTAGAG
130 TAACGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAGATCGGGGTTAGAG
569676 TATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATA
195 TATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATA
* *
569718 AGAAACTAATATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTTGAAAATAACGGGGTTGGAG
1 AGAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTTGAAAATAACGGGGTTGGAG
* * * *
569783 TATCCCCGATTATGGAAAATTGGTG-TTTCGAAAATAAAATC-GGAGTTGGAGTATCCCC
66 TATCCCCGATTGT-GAAAATCGATGATTT-AAAAATAAAATCGGGA-TTGGAGTATCCCC
569841 GATTGGGGAA
Statistics
Matches: 336, Mismatches: 19, Indels: 11
0.92 0.05 0.03
Matches are distributed among these distances:
236 8 0.02
237 317 0.94
238 11 0.03
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.28
Consensus pattern (236 bp):
AGAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTTGAAAATAACGGGGTTGGAG
TATCCCCGATTGTGAAAATCGATGATTTAAAAATAAAATCGGGATTGGAGTATCCCCTCGAAAAT
AACGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAGATCGGGGTTAGAGT
ATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATA
Found at i:569837 original size:51 final size:50
Alignment explanation
Indices: 569776--569957 Score: 256
Period size: 51 Copynumber: 3.6 Consensus size: 50
569766 AAATAACGGG
569776 GTTGGAGTATCCCCGATTATGGAAAATTGGTGTTTCGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGGAAAATTGGTGTTT-GAAAATAAAATCGGA
**
569827 GTTGGAGTATCCCCGATTGGGGAAAATTGGTGTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGGAAAATTGGTG-TTTGAAAATAAAATCGGA
* * * * *
569878 GTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAACCGGG
1 GTTGGAGTATCCCCGATTATGGAAAATTGGTGTTTGA-AAATAAAATCGGA
* *
569929 GTTGGAGTACCCCCGATTATGAAAAATTG
1 GTTGGAGTATCCCCGATTATGGAAAATTG
569958 AGGAACTTAA
Statistics
Matches: 118, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
50 4 0.03
51 111 0.94
52 3 0.03
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (50 bp):
GTTGGAGTATCCCCGATTATGGAAAATTGGTGTTTGAAAATAAAATCGGA
Found at i:572330 original size:13 final size:13
Alignment explanation
Indices: 572312--572337 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
572302 ACAAAGATCC
572312 ATGTATCGATACA
1 ATGTATCGATACA
572325 ATGTATCGATACA
1 ATGTATCGATACA
572338 TGGAATAATG
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:572416 original size:19 final size:19
Alignment explanation
Indices: 572392--572484 Score: 75
Period size: 19 Copynumber: 5.5 Consensus size: 19
572382 GATACATTGT
572392 ATCGATACAACACTTATGG
1 ATCGATACAACACTTATGG
*
572411 ATCGAT---ACA--T-TGT
1 ATCGATACAACACTTATGG
572424 ATCGATACAACACTTATGG
1 ATCGATACAACACTTATGG
*
572443 ATCGAT---ACA--T-TGT
1 ATCGATACAACACTTATGG
*
572456 ATCGATACAACACTTATGA
1 ATCGATACAACACTTATGG
572475 ATCGATACAA
1 ATCGATACAA
572485 ATCGCTGAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 24
0.67 0.05 0.28
Matches are distributed among these distances:
13 16 0.28
14 2 0.03
16 12 0.21
18 2 0.03
19 26 0.45
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (19 bp):
ATCGATACAACACTTATGG
Found at i:572423 original size:32 final size:32
Alignment explanation
Indices: 572382--572483 Score: 195
Period size: 32 Copynumber: 3.2 Consensus size: 32
572372 GCTTTGTAGT
572382 GATACATTGTATCGATACAACACTTATGGATC
1 GATACATTGTATCGATACAACACTTATGGATC
572414 GATACATTGTATCGATACAACACTTATGGATC
1 GATACATTGTATCGATACAACACTTATGGATC
*
572446 GATACATTGTATCGATACAACACTTATGAATC
1 GATACATTGTATCGATACAACACTTATGGATC
572478 GATACA
1 GATACA
572484 AATCGCTGAA
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
32 69 1.00
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (32 bp):
GATACATTGTATCGATACAACACTTATGGATC
Found at i:574255 original size:23 final size:23
Alignment explanation
Indices: 574220--574264 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
574210 TGGGCAAAAG
574220 TTTCATTCATTTTTTTCATGATT
1 TTTCATTCATTTTTTTCATGATT
* * *
574243 TTTCTTTCTTTTTTTTCTTGAT
1 TTTCATTCATTTTTTTCATGAT
574265 ATTTATGAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.11, C:0.13, G:0.04, T:0.71
Consensus pattern (23 bp):
TTTCATTCATTTTTTTCATGATT
Found at i:574476 original size:24 final size:24
Alignment explanation
Indices: 574443--574493 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
574433 AAAAATAAAG
574443 TAAAACAAAATT-AAAACCCAAAAT
1 TAAAACAAAATTGAAAA-CCAAAAT
* *
574467 TAAAATAAAATTGAAAACTAAAAT
1 TAAAACAAAATTGAAAACCAAAAT
574491 TAA
1 TAA
574494 TAATCATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 20 0.83
25 4 0.17
ACGTcount: A:0.67, C:0.10, G:0.02, T:0.22
Consensus pattern (24 bp):
TAAAACAAAATTGAAAACCAAAAT
Found at i:574488 original size:13 final size:12
Alignment explanation
Indices: 574443--574493 Score: 61
Period size: 13 Copynumber: 4.2 Consensus size: 12
574433 AAAAATAAAG
574443 TAAAAC-AAAAT
1 TAAAACTAAAAT
*
574454 TAAAACCCAAAAT
1 TAAAA-CTAAAAT
574467 TAAAA-TAAAAT
1 TAAAACTAAAAT
574478 TGAAAACTAAAAT
1 T-AAAACTAAAAT
574491 TAA
1 TAA
574494 TAATCATAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
11 11 0.31
12 7 0.20
13 17 0.49
ACGTcount: A:0.67, C:0.10, G:0.02, T:0.22
Consensus pattern (12 bp):
TAAAACTAAAAT
Found at i:576836 original size:20 final size:21
Alignment explanation
Indices: 576811--576851 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
576801 ATTTCCCGTG
576811 TGAATGTATCGATACA-ATTT
1 TGAATGTATCGATACATATTT
576831 TGAATGTATCGATACATATTT
1 TGAATGTATCGATACATATTT
576852 GAAAATATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.41
Consensus pattern (21 bp):
TGAATGTATCGATACATATTT
Found at i:576942 original size:32 final size:33
Alignment explanation
Indices: 576886--576949 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
576876 TACAAGCCAA
*
576886 TGTATCGATACAATTTTTTGTGTATCAATACAT
1 TGTATCGATACAATATTTTGTGTATCAATACAT
*
576919 TGTATCGATAC-ATATTTTGTGTATCGATACA
1 TGTATCGATACAATATTTTGTGTATCAATACA
576950 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.44
Consensus pattern (33 bp):
TGTATCGATACAATATTTTGTGTATCAATACAT
Found at i:577054 original size:20 final size:20
Alignment explanation
Indices: 577001--577056 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
576991 ACATCTTTTT
*
577001 CATGTATCGATACATTGCAA
1 CATGTATCGATACTTTGCAA
577021 CATGTATCGATACTTTG-AA
1 CATGTATCGATACTTTGCAA
*
577040 CTGTGTATCGATACTTT
1 C-ATGTATCGATACTTT
577057 TAAGGGTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 3 0.09
20 30 0.91
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.38
Consensus pattern (20 bp):
CATGTATCGATACTTTGCAA
Found at i:579570 original size:16 final size:17
Alignment explanation
Indices: 579544--579581 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
579534 TTTTAATTTT
579544 TTTCATAACCAACCATC
1 TTTCATAACCAACCATC
*
579561 TTTC-TAACCAACGATC
1 TTTCATAACCAACCATC
579577 TTTCA
1 TTTCA
579582 ATAATACATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.32, C:0.32, G:0.03, T:0.34
Consensus pattern (17 bp):
TTTCATAACCAACCATC
Found at i:584709 original size:442 final size:442
Alignment explanation
Indices: 583885--584772 Score: 1749
Period size: 442 Copynumber: 2.0 Consensus size: 442
583875 TCCCTTCCAT
583885 AATCAAAGTTTGCCTAGTTAAGACCTTAAGTGACTAGAATGAATTACCAGCATTCAAACTATAAC
1 AATCAAAGTTTGCCTAGTTAAGACCTTAAGTGACTAGAATGAATTACCAGCATTCAAACTATAAC
583950 AAAGCCAAAAGAGGTGCATAACTAGTGTTTCCCCATATATCAATAAGTGGCATTGAGTTATATGT
66 AAAGCCAAAAGAGGTGCATAACTAGTGTTTCCCCATATATCAATAAGTGGCATTGAGTTATATGT
584015 CCTATATTTATAGGCAACTAGTCGTGCAATGATCCATAGGGCTCTTTAAGTAACTTTTTTCATTT
131 CCTATATTTATAGGCAACTAGTCGTGCAATGATCCATAGGGCTCTTTAAGTAACTTTTTTCATTT
584080 TATAGATTCGAAACTCTCATAATCAACTGGTCCTTAGACCTATCACAAAGCCATTCATTTTTAAG
196 TATAGATTCGAAACTCTCATAATCAACTGGTCCTTAGACCTATCACAAAGCCATTCATTTTTAAG
584145 AAATTTGGTAATAAGGCTAAAATTTAGCGTGAAAAGGTATAGCAACCTCTTTCTTTCAACCCAAA
261 AAATTTGGTAATAAGGCTAAAATTTAGCGTGAAAAGGTATAGCAACCTCTTTCTTTCAACCCAAA
584210 AATGGCTGATGACCAAGATGTAAAAGAGTGGTACATATCTTACAAATCGACCTTTTCTTATTTAA
326 AATGGCTGATGACCAAGATGTAAAAGAGTGGTACATATCTTACAAATCGACCTTTTCTTATTTAA
584275 CCGAGGTTGAACTTAGGTAGCTTCTTTTTTCTATCAATAGTTGTACTTTTTA
391 CCGAGGTTGAACTTAGGTAGCTTCTTTTTTCTATCAATAGTTGTACTTTTTA
584327 AATCAAAGTTTGCCTAGTTAAGACCTTAAGTGACTAGAATGAATTACCAGCATTCAAACTATAAC
1 AATCAAAGTTTGCCTAGTTAAGACCTTAAGTGACTAGAATGAATTACCAGCATTCAAACTATAAC
584392 AAAGCCAAAAGAGGTGCATAACTAGTGTTTCCCCATATATCAATAAGTGGCATTGAGTTATATGT
66 AAAGCCAAAAGAGGTGCATAACTAGTGTTTCCCCATATATCAATAAGTGGCATTGAGTTATATGT
*
584457 CCTATATTTGTAGGCAACTAGTCGTGCAATGATCCATAGGGCTCTTTAAGTAACTTTTTTCATTT
131 CCTATATTTATAGGCAACTAGTCGTGCAATGATCCATAGGGCTCTTTAAGTAACTTTTTTCATTT
*
584522 TGTAGATTCGAAACTCTCATAATCAACTGGTCCTTAGACCTATCACAAAGCCATTCATTTTTAAG
196 TATAGATTCGAAACTCTCATAATCAACTGGTCCTTAGACCTATCACAAAGCCATTCATTTTTAAG
584587 AAATTTGGTAATAAGGCTAAAATTTAGCGTGAAAAGGTATAGCAACCTCTTTCTTTCAACCCAAA
261 AAATTTGGTAATAAGGCTAAAATTTAGCGTGAAAAGGTATAGCAACCTCTTTCTTTCAACCCAAA
584652 AATGGCTGATGACCAAGATGTAAAAGAGTGGTACATATCTTACAAATCGACCTTTTCTTATTTAA
326 AATGGCTGATGACCAAGATGTAAAAGAGTGGTACATATCTTACAAATCGACCTTTTCTTATTTAA
*
584717 CCGAGGTTGAACTTAGGTAGCTTCTTTTTTCTATCAGTAGTTGTACTTTTTA
391 CCGAGGTTGAACTTAGGTAGCTTCTTTTTTCTATCAATAGTTGTACTTTTTA
584769 AATC
1 AATC
584773 TTTCAATAGC
Statistics
Matches: 443, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
442 443 1.00
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (442 bp):
AATCAAAGTTTGCCTAGTTAAGACCTTAAGTGACTAGAATGAATTACCAGCATTCAAACTATAAC
AAAGCCAAAAGAGGTGCATAACTAGTGTTTCCCCATATATCAATAAGTGGCATTGAGTTATATGT
CCTATATTTATAGGCAACTAGTCGTGCAATGATCCATAGGGCTCTTTAAGTAACTTTTTTCATTT
TATAGATTCGAAACTCTCATAATCAACTGGTCCTTAGACCTATCACAAAGCCATTCATTTTTAAG
AAATTTGGTAATAAGGCTAAAATTTAGCGTGAAAAGGTATAGCAACCTCTTTCTTTCAACCCAAA
AATGGCTGATGACCAAGATGTAAAAGAGTGGTACATATCTTACAAATCGACCTTTTCTTATTTAA
CCGAGGTTGAACTTAGGTAGCTTCTTTTTTCTATCAATAGTTGTACTTTTTA
Found at i:592094 original size:28 final size:27
Alignment explanation
Indices: 592032--592136 Score: 84
Period size: 28 Copynumber: 3.8 Consensus size: 27
592022 GGAAGTTCGG
* ***
592032 TATTATAGTTGACTTTTAATTTTTTTG
1 TATTTTAGTTGACTTTTAATTTTTCAC
* *
592059 TATCTTAGTTTACTTTTAAATTTTTCAC
1 TATTTTAGTTGACTTTT-AATTTTTCAC
* ***
592087 TATTTTAGTTGACTTTTCATTCTTTTTTG
1 TATTTTAGTTGACTTTT-AAT-TTTTCAC
*
592116 TGTTTTAGTTGACTTTTAATT
1 TATTTTAGTTGACTTTTAATT
592137 CCTTAACTTT
Statistics
Matches: 61, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
27 15 0.25
28 26 0.43
29 20 0.33
ACGTcount: A:0.20, C:0.09, G:0.10, T:0.62
Consensus pattern (27 bp):
TATTTTAGTTGACTTTTAATTTTTCAC
Found at i:595876 original size:51 final size:50
Alignment explanation
Indices: 595787--595906 Score: 123
Period size: 51 Copynumber: 2.4 Consensus size: 50
595777 TTGAAAATAA
* *** *
595787 TAGGGTTGGAGTATCCCTGATTATAAAAAATTGGTATTTTAAAAAAAAAAT
1 TAGGGTTGGAGTATCCCCGATTATAAAAAATCAATATTTT-AAAAAAAAAG
* * * * *
595838 TAGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAG
1 TAGGGTTGGAGTATCCCCGATTATAAAAAATCAATATTTTAAAAAAAAAG
*
595888 TCGGGATTGGAGTATCCCC
1 TAGGG-TTGGAGTATCCCC
595907 TTAGAAATAA
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
50 11 0.19
51 46 0.81
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.31
Consensus pattern (50 bp):
TAGGGTTGGAGTATCCCCGATTATAAAAAATCAATATTTTAAAAAAAAAG
Found at i:596029 original size:51 final size:50
Alignment explanation
Indices: 595919--596031 Score: 131
Period size: 51 Copynumber: 2.2 Consensus size: 50
595909 AGAAATAACG
*
595919 GGAGTATCCCCGATTGTGAGAAATTGGTGTTTTGAAGAAAAAACCGGAGTT
1 GGAGTATCCCCGATTGTGAGAAATTGGTATTTT-AAGAAAAAACCGGAGTT
* ** *
595970 GGAATATCCCCGATTGTG-GAAAATTGGTATTTT-AGAAATAAGATTGGGGTT
1 GGAGTATCCCCGATTGTGAG-AAATTGGTATTTTAAGAAA-AA-ACCGGAGTT
596021 GGAGTATCCCC
1 GGAGTATCCCC
596032 TCAGAAATAA
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
49 5 0.09
50 3 0.06
51 45 0.85
ACGTcount: A:0.30, C:0.12, G:0.28, T:0.29
Consensus pattern (50 bp):
GGAGTATCCCCGATTGTGAGAAATTGGTATTTTAAGAAAAAACCGGAGTT
Found at i:596063 original size:79 final size:79
Alignment explanation
Indices: 595968--596149 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 79
595958 AAAACCGGAG
* * * * * * *
595968 TTGGAATATCCCCGATTGTGGAAAATTGGTATTTTAGAAATAAGATTGGGGTTGGAGTATCCCCT
1 TTGGAGTATCCCCGATTATGAAAAACTGGTATTTTAGAAATAAAATCGGGGTTAGAGTATCCCCT
596033 C-AGAAATAACGT-GA
66 CGA-AAATAA-GTGGA
* *
596047 TTGGAGTATCCCCGATTATGAAAAACTGGTATTTTGGGAATAAAATCGGGGTTAGAGTATCCCCT
1 TTGGAGTATCCCCGATTATGAAAAACTGGTATTTTAGAAATAAAATCGGGGTTAGAGTATCCCCT
*
596112 CGAAAATAATTGGA
66 CGAAAATAAGTGGA
*
596126 TTGGAGTATCCCCGA-GATGAAAAA
1 TTGGAGTATCCCCGATTATGAAAAA
596150 TCTAGAAATT
Statistics
Matches: 90, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
78 9 0.10
79 80 0.89
80 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.29
Consensus pattern (79 bp):
TTGGAGTATCCCCGATTATGAAAAACTGGTATTTTAGAAATAAAATCGGGGTTAGAGTATCCCCT
CGAAAATAAGTGGA
Found at i:596117 original size:125 final size:121
Alignment explanation
Indices: 595872--596118 Score: 257
Period size: 130 Copynumber: 2.0 Consensus size: 121
595862 GAGAAATCAA
* *
595872 TATTTTAGAAATAAAGTCGGGATTGGAGTATCCCCTTAGAAATAACGGGAGTATCCCCGATTGTG
1 TATTTTAGAAATAAAGTCGGGATTGGAGTATCCCCTCAGAAATAACGGGAGTATCCCCGATTATG
* * * * *
595937 AGAAATTGGTGTTTTGAAGAAAAAACCGGAGTTGGAATATCCCCGATTGTGGAAAATTGG
66 AAAAACTGGTATTTTGAAGAAAAAACCGGAGTTAGAATATCCCC----GTCGAAAATTGG
* *
595997 TATTTTAGAAAT-AAGATTGGGGTTGGAGTATCCCCTCAGAAATAACGTGATTGGAGTATCCCCG
1 TATTTTAGAAATAAAG-TCGGGATTGGAGTATCCCCTCAGAAATAAC--G---GGAGTATCCCCG
* * * *
596061 ATTATGAAAAACTGGTATTTTG-GGAATAAAATCGGGGTTAGAGTATCCCC-TCGAAAAT
60 ATTATGAAAAACTGGTATTTTGAAGAA-AAAACCGGAGTTAGAATATCCCCGTCGAAAAT
596119 AATTGGATTG
Statistics
Matches: 102, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
124 3 0.03
125 46 0.45
127 1 0.01
129 3 0.03
130 49 0.48
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (121 bp):
TATTTTAGAAATAAAGTCGGGATTGGAGTATCCCCTCAGAAATAACGGGAGTATCCCCGATTATG
AAAAACTGGTATTTTGAAGAAAAAACCGGAGTTAGAATATCCCCGTCGAAAATTGG
Found at i:598498 original size:13 final size:13
Alignment explanation
Indices: 598482--598512 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
598472 ATACAATGAG
598482 CAATGTATCGATA
1 CAATGTATCGATA
598495 CAATGTATCGATA
1 CAATGTATCGATA
*
598508 TAATG
1 CAATG
598513 AATAATGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:598505 original size:33 final size:33
Alignment explanation
Indices: 598463--598530 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
598453 TACATTGTAA
*
598463 AATGTATCGATACAATGAGCAATGTATCGATAC
1 AATGTATCGATACAATGAACAATGTATCGATAC
* *
598496 AATGTATCGATATAATGAATAATGTATCGATAC
1 AATGTATCGATACAATGAACAATGTATCGATAC
598529 AA
1 AA
598531 ATTGTGAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.29
Consensus pattern (33 bp):
AATGTATCGATACAATGAACAATGTATCGATAC
Found at i:599310 original size:42 final size:42
Alignment explanation
Indices: 599264--599418 Score: 184
Period size: 42 Copynumber: 3.6 Consensus size: 42
599254 GAAAACGAAA
*
599264 TGCGTCCTGCTCTTTGAGGACAAAAGAAAGAAGAAAATAAAG
1 TGCGTCCTGCTCTTTGAAGACAAAAGAAAGAAGAAAATAAAG
** *
599306 TGCGTCCTGCTCTTTGAAGACAGAAGAGAAAAGAAGGGAATGAAG
1 TGCGTCCTGCTCTTTGAAGACA-AA-AG-AAAGAAGAAAATAAAG
* * * *
599351 TGTGTCCTGCTCTTTGAGGACAAAGGAAAGAGGAAAATAAAG
1 TGCGTCCTGCTCTTTGAAGACAAAAGAAAGAAGAAAATAAAG
* *
599393 TGCATCCTACTCTTTGAAGACTAAAA
1 TGCGTCCTGCTCTTTGAAGAC-AAAA
599419 AGTGCCACCA
Statistics
Matches: 93, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
42 50 0.54
43 6 0.06
44 4 0.04
45 33 0.35
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.21
Consensus pattern (42 bp):
TGCGTCCTGCTCTTTGAAGACAAAAGAAAGAAGAAAATAAAG
Found at i:599467 original size:61 final size:62
Alignment explanation
Indices: 599394--599572 Score: 247
Period size: 61 Copynumber: 2.9 Consensus size: 62
599384 AAAATAAAGT
* * * *
599394 GCATCCTACTCTTTGAAGACTAAAAAGTGCCACCAAGTTATATGGGCTTTGAAAAGGA-AAG
1 GCATCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGGAGAAG
* * * * *
599455 GCGTCCTACTCTTTCAGGATTAGAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAGGAGAAG
1 GCATCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGGAGAAG
599516 GCATCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGG
1 GCATCCTACTCTTTGAGGACTA-AAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGG
599573 CATACTGCTC
Statistics
Matches: 101, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
60 6 0.06
61 64 0.63
62 31 0.31
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.26
Consensus pattern (62 bp):
GCATCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGGAGAAG
Found at i:599588 original size:56 final size:58
Alignment explanation
Indices: 599394--599597 Score: 191
Period size: 61 Copynumber: 3.5 Consensus size: 58
599384 AAAATAAAGT
* * * * * * *
599394 GCATCCTACTCTTTGAAGACTAAAAAGTGCCACCAAGTTATATGGGCTTTGAAAAGGAAAG
1 GCATACTACTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTT-AAGA-G-AAG
* * * * *
599455 GCGTCCTACTCTTTCAGGATTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAG
1 GCATACTACTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTT--AA-GAGAAG
*
599516 GCATCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT-A-A-AAG
1 GCATACTACTCTTTGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTTAAGAGAAG
*
599572 GCATACTGCTCTTTGAGGACTA-AAAG
1 GCATACTACTCTTTGAGGACTAGAAAG
599598 GCGAAAGGAG
Statistics
Matches: 123, Mismatches: 17, Indels: 13
0.80 0.11 0.08
Matches are distributed among these distances:
54 4 0.03
56 23 0.19
57 1 0.01
59 1 0.01
61 64 0.52
62 29 0.24
63 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.26
Consensus pattern (58 bp):
GCATACTACTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAGAGAAG
Found at i:599675 original size:94 final size:94
Alignment explanation
Indices: 599519--599784 Score: 397
Period size: 94 Copynumber: 2.8 Consensus size: 94
599509 GGAGAAGGCA
* ** *
599519 TCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATACTGCTCT
1 TCCTGCTCTTTGAGGACT-GGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCT
*
599584 TTGAGGACTAAAAGGCGAAAGGAGAGAGCG
65 TTGAGGACTAAAAGGCGAAAAGAGAGAGCG
* * **
599614 TCTTGCTCTTTGAGGATTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTT
* * *
599679 TGAGGACTAAAGGGTGAAAAGAGAGAGTG
66 TGAGGACTAAAAGGCGAAAAGAGAGAGCG
* *
599708 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTTTT
1 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTT
599773 TGAGGACTAAAA
66 TGAGGACTAAAA
599785 AATGCCACCA
Statistics
Matches: 152, Mismatches: 19, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
94 137 0.90
95 15 0.10
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (94 bp):
TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTT
TGAGGACTAAAAGGCGAAAAGAGAGAGCG
Found at i:599792 original size:55 final size:54
Alignment explanation
Indices: 599707--599890 Score: 219
Period size: 55 Copynumber: 3.4 Consensus size: 54
599697 AAGAGAGAGT
***
599707 GTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGC
1 GTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTT-TGTGGGCTTTGAAAGGC
* * *
599762 ATCCTGCTTTTTGAGGACTAAAAAATGCCACCAACTTATGTGGGCTTTGAAAGGC
1 GTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTT-TGTGGGCTTTGAAAGGC
* * * * ** *
599817 GTCCTACTATTTTAGGACTGAAGGGTGCCACCAAC-TTGTGAGCTTT-AAAGGC
1 GTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTTGTGGGCTTTGAAAGGC
599869 GTCCTGCTCTTTGAGGACTAAA
1 GTCCTGCTCTTTGAGGACTAAA
599891 GGGCGAAAGG
Statistics
Matches: 109, Mismatches: 20, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
52 24 0.22
53 9 0.08
54 1 0.01
55 75 0.69
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (54 bp):
GTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTTGTGGGCTTTGAAAGGC
Found at i:600048 original size:55 final size:55
Alignment explanation
Indices: 599970--600164 Score: 257
Period size: 55 Copynumber: 3.4 Consensus size: 55
599960 AAAGAAAGCA
* * *
599970 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTATAGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
600025 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT-AAGAGGCG
1 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGCG
* *
600080 TCCTGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
1 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCG
* *
600141 TCTTGCTTTTTGAGGACTAGAAAA
1 TCCTGCTCTTTGAGGACTAGAAAA
600165 ATGAAAGGGG
Statistics
Matches: 123, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
54 2 0.02
55 94 0.76
61 25 0.20
62 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.28
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:600138 original size:116 final size:112
Alignment explanation
Indices: 599906--600164 Score: 315
Period size: 116 Copynumber: 2.2 Consensus size: 112
599896 AAAGGAGAGA
* * *
599906 GCGTCATGCTCTTTGAGGACTAGGAAGTGCTACCAACTTGTGTGGGCTTTAAAAAAAGAAAGCAT
1 GCGTCATGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT----AAAGAAAGCAT
599971 CCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTATAGGCTTTGAAAG
62 CCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTATAGGCTTTGAAAG
* * *
600022 GCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT-AAG-AGGCGTCCTG
1 GCGTCATGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAGAAAGCATCCTG
* * *
600085 CTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
66 CTCTTTGAGGACTGGAAAATGCCACCAACTTGTATAGGCTTT-----G-AAAG
* *
600138 GCGTCTTGCTTTTTGAGGACTAGAAAA
1 GCGTCATGCTCTTTGAGGACTAGAAAA
600165 ATGAAAGGGG
Statistics
Matches: 126, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
110 47 0.37
111 3 0.02
115 1 0.01
116 75 0.60
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.27
Consensus pattern (112 bp):
GCGTCATGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAGAAAGCATCCTG
CTCTTTGAGGACTGGAAAATGCCACCAACTTGTATAGGCTTTGAAAG
Found at i:613451 original size:51 final size:50
Alignment explanation
Indices: 613386--613602 Score: 212
Period size: 51 Copynumber: 4.3 Consensus size: 50
613376 TTAAATAATA
** *
613386 GGGTTGGAGTATCCCTGATTAT-AGAAAATTGGTATTTT-GAAAATAAAATCG
1 GGGTTGGAGTATCCCCAATTGTGAG-AAATTGGTATTTTAG-AAATAAAA-CG
*** *
613437 GGGTTGGAGTATCCCCAATTGTGAGAAATCAATATTTTAGAAAT--AACA
1 GGGTTGGAGTATCCCCAATTGTGAGAAATTGGTATTTTAGAAATAAAACG
* *
613485 GGGTTGGAGTATCCCCGATTGTGAGAAATTGGTGTTTT-GAAGATAAAACTG
1 GGGTTGGAGTATCCCCAATTGTGAGAAATTGGTATTTTAGAA-ATAAAAC-G
* * * *
613536 GAGTTGGAATATCCTCAATTGTG-GAAAATTGGTATTTTAGAAATAAGATCG
1 GGGTTGGAGTATCCCCAATTGTGAG-AAATTGGTATTTTAGAAATAA-AACG
613587 GGGTTGGAGTATCCCC
1 GGGTTGGAGTATCCCC
613603 TCAGAAATAA
Statistics
Matches: 135, Mismatches: 22, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
47 3 0.02
48 36 0.27
49 2 0.01
50 4 0.03
51 82 0.61
52 8 0.06
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.31
Consensus pattern (50 bp):
GGGTTGGAGTATCCCCAATTGTGAGAAATTGGTATTTTAGAAATAAAACG
Found at i:613549 original size:99 final size:99
Alignment explanation
Indices: 613378--613602 Score: 267
Period size: 99 Copynumber: 2.2 Consensus size: 99
613368 GTATCCCCTT
* * *
613378 AAATAATAGGGTTGGAGTATCCCTGATTATAGAAAATTGGTATTTTGAAAATAAAATCGGGGTTG
1 AAATAACAGGGTTGGAGTATCCCCGATTATAGAAAATTGGTATTTTGAAAATAAAATCGGAGTTG
*
613443 GAGTATCCCCAATTGT-GAGAAATCAATATTTTAG
66 GAATATCCCCAATTGTGGA-AAATCAATATTTTAG
* * *
613477 AAATAACAGGGTTGGAGTATCCCCGATTGT-GAGAAATTGGTGTTTTGAAGATAAAA-CTGGAGT
1 AAATAACAGGGTTGGAGTATCCCCGATTATAGA-AAATTGGTATTTTGAAAATAAAATC-GGAGT
* ***
613540 TGGAATATCCTCAATTGTGGAAAATTGGTATTTTAG
64 TGGAATATCCCCAATTGTGGAAAATCAATATTTTAG
*
613576 AAATAAGATCGGGGTTGGAGTATCCCC
1 AAAT-A-A-CAGGGTTGGAGTATCCCC
613603 TCAGAAATAA
Statistics
Matches: 108, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
98 3 0.03
99 84 0.78
100 3 0.03
101 1 0.01
102 17 0.16
ACGTcount: A:0.34, C:0.10, G:0.25, T:0.31
Consensus pattern (99 bp):
AAATAACAGGGTTGGAGTATCCCCGATTATAGAAAATTGGTATTTTGAAAATAAAATCGGAGTTG
GAATATCCCCAATTGTGGAAAATCAATATTTTAG
Found at i:613670 original size:79 final size:79
Alignment explanation
Indices: 613539--613711 Score: 265
Period size: 79 Copynumber: 2.2 Consensus size: 79
613529 AAAACTGGAG
* * * * * *
613539 TTGGAATATCCTCAATTGTGGAAAATTGGTATTTTAGAAATAAGATCGGGGTTGGAGTATCCCCT
1 TTGGAGTATCCCCGATTGTGAAAAACTGGTATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCT
613604 CAGAAATAACGGGA
66 CAGAAATAACGGGA
* * *
613618 TTGGAGTATCCCCGATTGTGAAAAACTGGTGTTTTGGGAATAAAATCGGGGTTGGAGTATCCCCT
1 TTGGAGTATCCCCGATTGTGAAAAACTGGTATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCT
613683 CAGAAATAACGGGA
66 CAGAAATAACGGGA
613697 TTGGAGTATCCCCGA
1 TTGGAGTATCCCCGA
613712 GATGAAAAAT
Statistics
Matches: 85, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
79 85 1.00
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (79 bp):
TTGGAGTATCCCCGATTGTGAAAAACTGGTATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCT
CAGAAATAACGGGA
Found at i:616090 original size:20 final size:20
Alignment explanation
Indices: 616007--616100 Score: 93
Period size: 20 Copynumber: 4.7 Consensus size: 20
615997 AAAATGCCTG
* *
616007 AATGTATTGATACATTGTA-A
1 AATGTATCGATACAATG-AGA
* * *
616027 AATGTATCAATGCAATGAGC
1 AATGTATCGATACAATGAGA
* *
616047 AATGTACCGATACAATGAGC
1 AATGTATCGATACAATGAGA
616067 AATGTATCGATACAATGCA-A
1 AATGTATCGATACAATG-AGA
616087 AATGTATCGATACA
1 AATGTATCGATACA
616101 TCTGGGTAAA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
19 1 0.02
20 60 0.97
21 1 0.02
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (20 bp):
AATGTATCGATACAATGAGA
Found at i:616134 original size:13 final size:13
Alignment explanation
Indices: 616116--616142 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
616106 GTAAACCCAG
616116 AATGTATCGATAT
1 AATGTATCGATAT
616129 AATGTATCGATAT
1 AATGTATCGATAT
616142 A
1 A
616143 GTGAACAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (13 bp):
AATGTATCGATAT
Found at i:616154 original size:20 final size:20
Alignment explanation
Indices: 616129--616183 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
616119 GTATCGATAT
* *
616129 AATGTATCGATATAGTGAAC
1 AATGTATCGATACAATGAAC
616149 AATGTATCGATACAATGAAC
1 AATGTATCGATACAATGAAC
616169 AATGTATCGATACAA
1 AATGTATCGATACAA
616184 ATTGTGAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.27
Consensus pattern (20 bp):
AATGTATCGATACAATGAAC
Found at i:619627 original size:20 final size:20
Alignment explanation
Indices: 619577--619650 Score: 53
Period size: 20 Copynumber: 3.6 Consensus size: 20
619567 CACATGGTCT
* **
619577 TGTATCAATACATTTCAGATA
1 TGTATCGATACA-TTCACTTA
619598 TGTA-CTGATACATTCACTTA
1 TGTATC-GATACATTCACTTA
*
619618 TGTATCGATAAATTGC-CTTA
1 TGTATCGATACATT-CACTTA
*
619638 TTGTATTGATACA
1 -TGTATCGATACA
619651 AATTGTTGAA
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
20 22 0.51
21 21 0.49
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (20 bp):
TGTATCGATACATTCACTTA
Found at i:621679 original size:23 final size:23
Alignment explanation
Indices: 621636--621679 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
621626 TTTCTCAATC
*
621636 TCTTCAAGAATTCTACTCTAAAT
1 TCTTCAAGAATTCTACACTAAAT
*
621659 TCTT-AAGAGATTGTACACTAA
1 TCTTCAAGA-ATTCTACACTAA
621680 GGTTAAATAC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.36
Consensus pattern (23 bp):
TCTTCAAGAATTCTACACTAAAT
Found at i:622365 original size:20 final size:22
Alignment explanation
Indices: 622340--622384 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
622330 GATACTTTGG
622340 ATTATTTTT-TACTTG-AAAAC
1 ATTATTTTTATACTTGAAAAAC
*
622360 ATTATTTTTATGCTTGAAAAAC
1 ATTATTTTTATACTTGAAAAAC
622382 ATT
1 ATT
622385 TATACTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.41
21 5 0.23
22 8 0.36
ACGTcount: A:0.36, C:0.09, G:0.07, T:0.49
Consensus pattern (22 bp):
ATTATTTTTATACTTGAAAAAC
Found at i:622718 original size:73 final size:73
Alignment explanation
Indices: 622599--622746 Score: 269
Period size: 73 Copynumber: 2.0 Consensus size: 73
622589 ACTGTCGATT
* *
622599 ATATAAATTTCAACATATTTAATTTTGGAAAGTTTTTATAAGCTTATCGATTATTTCAAGCTTAT
1 ATATAAATTTCAACATATTTAATTTTGGAAAGTGTTTATAACCTTATCGATTATTTCAAGCTTAT
622664 GTGCAATC
66 GTGCAATC
*
622672 ATATAAATTTCAACATATTTATTTTTGGAAAGTGTTTATAACCTTATCGATTATTTCAAGCTTAT
1 ATATAAATTTCAACATATTTAATTTTGGAAAGTGTTTATAACCTTATCGATTATTTCAAGCTTAT
622737 GTGCAATC
66 GTGCAATC
622745 AT
1 AT
622747 TCTCTTCATA
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 72 1.00
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.44
Consensus pattern (73 bp):
ATATAAATTTCAACATATTTAATTTTGGAAAGTGTTTATAACCTTATCGATTATTTCAAGCTTAT
GTGCAATC
Found at i:623121 original size:31 final size:31
Alignment explanation
Indices: 623078--623141 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
623068 ACTACCACAA
623078 AATCTCCACTTTTATAAAACAAATTTATTTC
1 AATCTCCACTTTTATAAAACAAATTTATTTC
*
623109 AATCTCCCCTTTTATAAAACAAATTTATTTC
1 AATCTCCACTTTTATAAAACAAATTTATTTC
623140 AA
1 AA
623142 AATGTCTCTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.20, G:0.00, T:0.41
Consensus pattern (31 bp):
AATCTCCACTTTTATAAAACAAATTTATTTC
Found at i:625427 original size:25 final size:24
Alignment explanation
Indices: 625386--625432 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 24
625376 ATGATTTTTC
625386 ATAAAATACAAGATAAAGATATTA
1 ATAAAATACAAGATAAAGATATTA
625410 ATAAAA-ACAAGTATTAAAGATAT
1 ATAAAATACAAG-A-TAAAGATAT
625433 CATAAAAGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 5 0.24
24 7 0.33
25 9 0.43
ACGTcount: A:0.62, C:0.04, G:0.09, T:0.26
Consensus pattern (24 bp):
ATAAAATACAAGATAAAGATATTA
Found at i:625437 original size:24 final size:24
Alignment explanation
Indices: 625383--625439 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
625373 AACATGATTT
625383 TTCATAAAATACAAGATAAAGATA
1 TTCATAAAATACAAGATAAAGATA
*
625407 TTAATAAAA-ACAAGTATTAAAGATA
1 TTCATAAAATACAAG-A-TAAAGATA
625432 -TCATAAAA
1 TTCATAAAA
625440 GGTATATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 5 0.17
24 16 0.55
25 8 0.28
ACGTcount: A:0.60, C:0.07, G:0.07, T:0.26
Consensus pattern (24 bp):
TTCATAAAATACAAGATAAAGATA
Found at i:629235 original size:28 final size:28
Alignment explanation
Indices: 629154--629235 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
629144 TTTTGGAGAT
*
629154 AATAACGAGGTTGGAGTGTTCCCTCG--GA
1 AATAACGAGGTTGGAGT-AT-CCTCGATGA
* * *
629182 AGTAACGGGGTTGGAGTATCCCCGATGA
1 AATAACGAGGTTGGAGTATCCTCGATGA
629210 AATAACGAGGTTGGAGTATCCTCGAT
1 AATAACGAGGTTGGAGTATCCTCGAT
629236 TGTGAAAAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
26 4 0.09
27 1 0.02
28 40 0.89
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (28 bp):
AATAACGAGGTTGGAGTATCCTCGATGA
Found at i:629378 original size:51 final size:51
Alignment explanation
Indices: 629218--629388 Score: 198
Period size: 51 Copynumber: 3.3 Consensus size: 51
629208 GAAATAACGA
* * *
629218 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGAAAATAAAATCGG
** * * * * *
629270 AATTGGAGTATCCCCGATTAAAGGAGAAATTGGTGTTGTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT--ATGAAAAATTGGTATTTTGAAAATAAAATCGG
* * *
629323 GGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTGAAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
629374 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
629389 TCAGAAATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 39 0.40
52 16 0.16
53 32 0.33
54 10 0.10
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
Found at i:629434 original size:27 final size:28
Alignment explanation
Indices: 629371--629446 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 28
629361 AAAATAAAGT
*
629371 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCC-GATGAAATAA
*
629399 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
629426 CGGGGTTGGAGTGTCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
629447 TGTGAAGAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:631931 original size:13 final size:13
Alignment explanation
Indices: 631913--631938 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
631903 ACAAAGATCC
631913 ATGTATCGATACA
1 ATGTATCGATACA
631926 ATGTATCGATACA
1 ATGTATCGATACA
631939 CAGAAAAATG
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:631934 original size:33 final size:33
Alignment explanation
Indices: 631892--631958 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
631882 AAAATTTCCA
***
631892 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
631925 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
631958 A
1 A
631959 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:632002 original size:19 final size:18
Alignment explanation
Indices: 631978--632045 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
631968 CAGCAGCTAA
631978 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
631997 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
632012 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
632029 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
632046 TCGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:632018 original size:13 final size:13
Alignment explanation
Indices: 632000--632024 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
631990 ACAATACTTA
632000 TGTATCGATACAT
1 TGTATCGATACAT
632013 TGTATCGATACA
1 TGTATCGATACA
632025 AAACTTATGT
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:632022 original size:32 final size:32
Alignment explanation
Indices: 631981--632043 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
631971 CAGCTAATTA
*
631981 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
632013 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
632044 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:632771 original size:55 final size:55
Alignment explanation
Indices: 632676--633584 Score: 1294
Period size: 55 Copynumber: 16.4 Consensus size: 55
632666 ATAAAGTGTA
* * * * * * *
632676 TCCTTCTCATTGAGGAGTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAA-AGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
632731 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* * * * **
632786 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTTGAAAATAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGC-TT-----TAAGAGGTG
** * *
632847 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
**
632902 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* * *
632957 TCCTGCTCTTCGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
633012 TCCTGCTCTTTGAGGACT-AGAAGGCGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
633067 TCCTACTCTTTGAGGACTGGAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* * *
633123 TCCTGCTCTTTGAGGACTGGAAGGCGCCACCGACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
633178 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGGGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
*
633233 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
633288 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
633343 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACTAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
633398 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
633453 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
633508 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
633563 TCCTGCTCTTTGAGGACTGAAA
1 TCCTGCTCTTTGAGGACTGAAA
633585 AGCGGAAGGA
Statistics
Matches: 780, Mismatches: 54, Indels: 40
0.89 0.06 0.05
Matches are distributed among these distances:
54 16 0.02
55 652 0.84
56 65 0.08
57 1 0.00
60 2 0.00
61 44 0.06
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.28
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
Found at i:632810 original size:26 final size:26
Alignment explanation
Indices: 632722--632811 Score: 67
Period size: 26 Copynumber: 3.3 Consensus size: 26
632712 GTGTGGGCTT
* *
632722 TGAAAGGCGTCCTGCTCTTTGAGGAC
1 TGAAAGGTGTCCTGCTCTTTGGGGAC
** *
632748 TGAAAGGTG-CCACCAACTTGTGTGGG-C
1 TGAAAGGTGTCCTGC-TCTT-TG-GGGAC
*
632775 TTTAAGAGGTGTCCTGCTCTTTGGGGAC
1 -TGAA-AGGTGTCCTGCTCTTTGGGGAC
632803 TGAAAGGTG
1 TGAAAGGTG
632812 CCACCAACTT
Statistics
Matches: 47, Mismatches: 10, Indels: 14
0.66 0.14 0.20
Matches are distributed among these distances:
25 3 0.06
26 16 0.34
27 9 0.19
28 8 0.17
29 8 0.17
30 3 0.06
ACGTcount: A:0.20, C:0.19, G:0.33, T:0.28
Consensus pattern (26 bp):
TGAAAGGTGTCCTGCTCTTTGGGGAC
Found at i:633365 original size:27 final size:27
Alignment explanation
Indices: 633225--633365 Score: 65
Period size: 28 Copynumber: 5.1 Consensus size: 27
633215 GGTGGGCTTT
*
633225 GAAAGGTGTCCTGCTCTTTGGGGACT-
1 GAAAGGTGTCCTGCTCTTTGAGGACTG
** * * * *
633251 GAAAGGTG-CCACCAACTTGTGTGGGCTT
1 GAAAGGTGTCCTGC-TCTT-TGAGGACTG
*
633279 TAAGAGGTGTCCTGCTCTTTGAGGACTG
1 GAA-AGGTGTCCTGCTCTTTGAGGACTG
* ** * * * *
633307 GAAA-ATG-CCACCAACTTGTGTGGGCTTT
1 GAAAGGTGTCCTGC-TCTT-TGAGGAC-TG
633335 GAAAGGTGTCCTGCTCTTTGAGGACTG
1 GAAAGGTGTCCTGCTCTTTGAGGACTG
633362 GAAA
1 GAAA
633366 ATGCCACTAA
Statistics
Matches: 78, Mismatches: 27, Indels: 19
0.63 0.22 0.15
Matches are distributed among these distances:
25 6 0.08
26 16 0.21
27 17 0.22
28 20 0.26
29 13 0.17
30 6 0.08
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.28
Consensus pattern (27 bp):
GAAAGGTGTCCTGCTCTTTGAGGACTG
Found at i:633422 original size:26 final size:26
Alignment explanation
Indices: 633393--633533 Score: 92
Period size: 26 Copynumber: 5.2 Consensus size: 26
633383 GGGCTTTAAG
633393 AGGTGTCCTGCTCTTTGGGGACTGAA
1 AGGTGTCCTGCTCTTTGGGGACTGAA
** * *
633419 AGGTG-CCACCAACTTGTGTGGG-CTTTAA
1 AGGTGTCCTGC-TCTT-TG-GGGAC-TGAA
633447 GAGGTGTCCTGCTCTTTGGGGACTGAA
1 -AGGTGTCCTGCTCTTTGGGGACTGAA
** * *
633474 AGGTG-CCACCAACTTGTGTGGG-CTTTAA
1 AGGTGTCCTGC-TCTT-TG-GGGAC-TGAA
633502 GAGGTGTCCTGCTCTTTGGGGACTGAA
1 -AGGTGTCCTGCTCTTTGGGGACTGAA
633529 AGGTG
1 AGGTG
633534 CCACCAACTT
Statistics
Matches: 85, Mismatches: 16, Indels: 28
0.66 0.12 0.22
Matches are distributed among these distances:
25 6 0.07
26 21 0.25
27 18 0.21
28 18 0.21
29 16 0.19
30 6 0.07
ACGTcount: A:0.18, C:0.19, G:0.34, T:0.29
Consensus pattern (26 bp):
AGGTGTCCTGCTCTTTGGGGACTGAA
Found at i:634581 original size:15 final size:13
Alignment explanation
Indices: 634563--634627 Score: 67
Period size: 14 Copynumber: 4.8 Consensus size: 13
634553 CTTTTCTCTC
*
634563 TTTTTCTTTGTTT
1 TTTTTTTTTGTTT
*
634576 TGTTTTTTTGTTTTT
1 T-TTTTTTT-TGTTT
634591 TTTTTTTTTGCTTT
1 TTTTTTTTTG-TTT
* *
634605 TTTTTTTTTGCTC
1 TTTTTTTTTGTTT
634618 TTTTTTTTTG
1 TTTTTTTTTG
634628 AAGAGAAGGT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
13 13 0.30
14 26 0.59
15 5 0.11
ACGTcount: A:0.00, C:0.06, G:0.09, T:0.85
Consensus pattern (13 bp):
TTTTTTTTTGTTT
Found at i:634595 original size:14 final size:15
Alignment explanation
Indices: 634573--634626 Score: 74
Period size: 15 Copynumber: 3.7 Consensus size: 15
634563 TTTTTCTTTG
* *
634573 TTTTGTTTTTTTGTT
1 TTTTTTTTTTTTGCT
634588 TTTTTTTTTTTTGC-
1 TTTTTTTTTTTTGCT
634602 TTTTTTTTTTTTGCT
1 TTTTTTTTTTTTGCT
*
634617 CTTTTTTTTT
1 TTTTTTTTTT
634627 GAAGAGAAGG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
14 14 0.40
15 21 0.60
ACGTcount: A:0.00, C:0.06, G:0.07, T:0.87
Consensus pattern (15 bp):
TTTTTTTTTTTTGCT
Found at i:634612 original size:16 final size:16
Alignment explanation
Indices: 634563--634626 Score: 73
Period size: 17 Copynumber: 4.1 Consensus size: 16
634553 CTTTTCTCTC
634563 TTTTT-CTTTGTTTTGTT
1 TTTTTGCTTT-TTTT-TT
634580 TTTTTG-TTTTTTTTT
1 TTTTTGCTTTTTTTTT
634595 TTTTTGC--TTTTTTT
1 TTTTTGCTTTTTTTTT
634609 TTTTTGCTCTTTTTTTT
1 TTTTTGCT-TTTTTTTT
634626 T
1 T
634627 GAAGAGAAGG
Statistics
Matches: 42, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
14 14 0.33
15 8 0.19
16 4 0.10
17 16 0.38
ACGTcount: A:0.00, C:0.06, G:0.08, T:0.86
Consensus pattern (16 bp):
TTTTTGCTTTTTTTTT
Found at i:715631 original size:28 final size:28
Alignment explanation
Indices: 715591--715690 Score: 155
Period size: 28 Copynumber: 3.6 Consensus size: 28
715581 GGAATAAAGC
715591 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCTCGGAAGTAA
715619 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCTCGGAAGTAA
*** *
715647 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCTCGGAAGTAA
*
715675 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
715691 TCGATTGTGA
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 67 1.00
ACGTcount: A:0.23, C:0.20, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCTCGGAAGTAA
Found at i:715747 original size:51 final size:52
Alignment explanation
Indices: 715679--716014 Score: 194
Period size: 51 Copynumber: 6.4 Consensus size: 52
715669 AAATAACGAG
*
715679 GTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATC-GA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
** * ** * *
715730 GTTGGAGTATCCCCGATTAAAGGAAAATTGG-CGTTTTGAAAATAAAACCAGGA
1 GTTGGAGTATCCCCGATT-GTGAAAAATTGGTATTTTTGGAAATAAAATC-GGA
* * * *
715783 -TTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCG--ATAAAACCGGA
1 GTTGGAGTATCCCCGATTGT-GAAAAATTGGTATTTTTG-GAAATAAAATCGGA
** ** * * * *
715834 GTTGGAGTATCCCC---TCAGAAATAACGGGGTTGG-AGTATCCTCGATGAT-TAA-CGGG
1 GTTGGAGTATCCCCGATTGTGAAA-AA-----TTGGTA-T-TTTTGGA-AATAAAATCGGA
*
715889 GTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAA-AAATTGGT-ATTTTTGGAAATAAAATCGGA
* * * * *
715943 GTTAGAGTATCCCCGATTAT-AGAAAATTAGT-GTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGA-AAAATTGGTATTTTTGGAAATAAAATCGGA
*
715994 GTTGGAATATCCCCGATTGTG
1 GTTGGAGTATCCCCGATTGTG
716015 GAGAATTGAT
Statistics
Matches: 214, Mismatches: 43, Indels: 55
0.69 0.14 0.18
Matches are distributed among these distances:
48 4 0.02
49 3 0.01
51 69 0.32
52 57 0.27
53 24 0.11
54 28 0.13
55 18 0.08
56 2 0.01
57 2 0.01
58 6 0.03
59 1 0.00
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (52 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
Found at i:715866 original size:211 final size:212
Alignment explanation
Indices: 715623--716016 Score: 616
Period size: 212 Copynumber: 1.9 Consensus size: 212
715613 AAGTAACGGG
* *
715623 GTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTA
1 GTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATG-AATAACGAGGTTGGAGTA
* *
715688 TCCTCGATTGTGAA-AAATTGGT-ATTTTTGGAAATAAAATC-GAGTTGGAGTATCCCCGATTAA
65 TCCCCGATTGTGAAGAAATTGGTGATTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTAA
* *
715750 AGGAAAATTGGCGTTTTGAAAATAAAACCAGGA-TTGGAGTATCCCCGATTGTGGAAAAATTAGT
130 A-GAAAATTAGCGTTTTGAAAATAAAACC-GGAGTTGGAATATCCCCGATTGTGGAAAAATTAGT
715814 GTTTTAGCGATAAAACCGGA
193 GTTTTAGCGATAAAACCGGA
* * *
715834 GTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCTCGATGATTAACGGGGTTGGAGTAT
1 GTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATGAATAACGAGGTTGGAGTAT
* *
715899 CCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTATA
66 CCCCGATTGTGAAGAAATTGGTGATTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTAAA
* *
715964 GAAAATTAGTGTTTTGAAAATAAAATCGGAGTTGGAATATCCCCGATTGTGGA
131 GAAAATTAGCGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGGA
716017 GAATTGATAA
Statistics
Matches: 166, Mismatches: 13, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
210 29 0.17
211 54 0.33
212 62 0.37
213 21 0.13
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (212 bp):
GTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATGAATAACGAGGTTGGAGTAT
CCCCGATTGTGAAGAAATTGGTGATTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTAAA
GAAAATTAGCGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGGAAAAATTAGTGTT
TTAGCGATAAAACCGGA
Found at i:718397 original size:13 final size:13
Alignment explanation
Indices: 718379--718404 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
718369 ACAAAGATCC
718379 ATGTATCGATACA
1 ATGTATCGATACA
718392 ATGTATCGATACA
1 ATGTATCGATACA
718405 CAGAAAAATG
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:718400 original size:33 final size:33
Alignment explanation
Indices: 718358--718424 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
718348 AAAATTTCCA
***
718358 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
718391 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
718424 A
1 A
718425 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:718468 original size:19 final size:18
Alignment explanation
Indices: 718444--718543 Score: 94
Period size: 19 Copynumber: 5.9 Consensus size: 18
718434 CAGTAGCTAA
718444 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
718463 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
*
718478 -T-TGTTTCGATACAAAAC
1 TTATGTATCGATAC-AAAC
718495 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
718510 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
718527 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
718544 TTGTTGAATT
Statistics
Matches: 67, Mismatches: 2, Indels: 25
0.71 0.02 0.27
Matches are distributed among these distances:
13 21 0.31
14 2 0.03
16 4 0.06
18 5 0.07
19 35 0.52
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:718497 original size:32 final size:32
Alignment explanation
Indices: 718447--718541 Score: 172
Period size: 32 Copynumber: 3.0 Consensus size: 32
718437 TAGCTAATTA
*
718447 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
*
718479 TGTTTCGATACAAAACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
718511 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
718542 AATTGTTGAA
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 60 1.00
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.36
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:718516 original size:13 final size:13
Alignment explanation
Indices: 718498--718522 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
718488 ACAAAACTTA
718498 TGTATCGATACAT
1 TGTATCGATACAT
718511 TGTATCGATACA
1 TGTATCGATACA
718523 AAACTTATGT
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:718623 original size:21 final size:21
Alignment explanation
Indices: 718599--718655 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
718589 CATTTGTAGG
718599 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
718620 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
718641 ATGTATCGATACATT
1 ATGTATCGATACATT
718656 TGGATAATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:718680 original size:14 final size:15
Alignment explanation
Indices: 718659--718700 Score: 61
Period size: 13 Copynumber: 2.9 Consensus size: 15
718649 ATACATTTGG
718659 ATAATTTTTTTTTT-
1 ATAATTTTTTTTTTA
*
718673 -TAAATTTTTTTTTA
1 ATAATTTTTTTTTTA
718687 ATAATTTTTTTTTT
1 ATAATTTTTTTTTT
718701 CAAACACTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 12 0.50
15 12 0.50
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
ATAATTTTTTTTTTA
Found at i:718683 original size:15 final size:14
Alignment explanation
Indices: 718659--718700 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
718649 ATACATTTGG
718659 ATAATTTTTTTTTT
1 ATAATTTTTTTTTT
*
718673 -TAAATTTTTTTTTA
1 AT-AATTTTTTTTTT
718687 ATAATTTTTTTTTT
1 ATAATTTTTTTTTT
718701 CAAACACTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 1 0.04
14 22 0.92
15 1 0.04
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (14 bp):
ATAATTTTTTTTTT
Found at i:719465 original size:55 final size:56
Alignment explanation
Indices: 719351--721182 Score: 1957
Period size: 55 Copynumber: 32.5 Consensus size: 56
719341 ATAAAGTGTA
* * * * *
719351 TCCTTCTCATTGAGGAGTAAAAAGTGCCACCAACTTGTGTGGGCTTTGAA-AGGCT-
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAGAGG-TG
**
719406 TCCTGCTCTTTGAAAACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAGAGGTG
* * * **
719461 TCCTGCTCCTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG--AAG---AGGTG
** * *
719522 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTT-AAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAGAGGTG
*
719577 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAGAGGTG
* * * * **
719632 TCCTGCTCTTTGGGGACTAAAAGGTGCCACCAACCTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG--AAG---AGGTG
* ** * * *
719693 TCTTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTAT-AAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAGAGGTG
* *
719748 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGCG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAGAGGTG
* **
719803 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG--AAG---AGGTG
* * *
719864 TCCTGCTCTTTGAGGACTG-AAGGTTCCACCAACTCGGGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAGAGGTG
* * * *
719918 TCCCGCTCTCTGAGAACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAGAGGTG
* *
719973 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGATTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAGAGGTG
* **
720028 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG--AAG---AGGTG
* * * *
720089 TCCTGCTCTTTGAGAACTG-AAGGTGCCACCAACTCGGGTAGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAGAGGTG
* *
720143 TCCTGCTCTCTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAGAGGTG
** * *
720198 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTT-AAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAGAGGTG
* *
720253 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGCG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAGAGGTG
* **
720308 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG--AAG---AGGTG
* *
720369 TCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTCGGGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAGAGGTG
* * *
720423 TCCCGCTCTCTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAGAGGTG
*
720478 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAGAGGTG
* **
720533 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG--AAG---AGGTG
* * * *
720594 TCCTGCTCTTTGAGAACTG-AAGGTGCCACCAACTCGGGTAGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAGAGGTG
* * *
720648 TCCTGCTCTCTGAGGACTGGAAA-ATGCCACCATCTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAGAGGTG
* ** * *
720703 TCCTGCTCTTTGAGGATTGAAAAATGCCACCAACCTGTGTGGGCTTT-AAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAGAGGTG
* *
720758 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGCG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAGAGGTG
* **
720813 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG--AAG---AGGTG
* *
720874 TCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTCGGGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAGAGGTG
* * *
720928 TCCTGCTCTCTAAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAGAGGTG
720983 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAGAGGTG
* **
721038 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG--AAG---AGGTG
* * * * *
721099 TCCTGCTCTTTGAGAACTG-AAGGTGCCACCAACTCGGGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----GAAGAGGTG
*
721158 TCCCGCTCTTTGAGGACTG-AAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTG
721183 GAAGGAGAAG
Statistics
Matches: 1535, Mismatches: 154, Indels: 172
0.82 0.08 0.09
Matches are distributed among these distances:
54 131 0.09
55 935 0.61
56 44 0.03
57 29 0.02
58 7 0.00
59 26 0.02
60 147 0.10
61 213 0.14
62 2 0.00
64 1 0.00
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (56 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAGAGGTG
Found at i:719510 original size:29 final size:29
Alignment explanation
Indices: 719423--719511 Score: 80
Period size: 29 Copynumber: 3.2 Consensus size: 29
719413 CTTTGAAAAC
719423 TGAAAGGTGCCACCAACTTGTGTGGGCTT
1 TGAAAGGTGCCACCAACTTGTGTGGGCTT
** ** *
719452 T-AAGAGGTGTCCTGCTCCTTG-G-GGAC--
1 TGAA-AGGTG-CCACCAACTTGTGTGGGCTT
719478 TGAAAGGTGCCACCAACTTGTGTGGGCTT
1 TGAAAGGTGCCACCAACTTGTGTGGGCTT
719507 TGAAA
1 TGAAA
719512 AGAAAAAGCA
Statistics
Matches: 43, Mismatches: 10, Indels: 14
0.64 0.15 0.21
Matches are distributed among these distances:
25 7 0.16
26 7 0.16
27 5 0.12
28 5 0.12
29 12 0.28
30 7 0.16
ACGTcount: A:0.21, C:0.20, G:0.31, T:0.27
Consensus pattern (29 bp):
TGAAAGGTGCCACCAACTTGTGTGGGCTT
Found at i:720007 original size:225 final size:219
Alignment explanation
Indices: 719351--721088 Score: 2123
Period size: 225 Copynumber: 7.7 Consensus size: 219
719341 ATAAAGTGTA
* * * * *
719351 TCCTTCTCATTGAGGAGTAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCTTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
** * * *
719416 TGAAAACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCCTTGGGGACTG
65 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAGAGGCGTCCTGCTCTTTGAGGACTG
** *
719480 AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAAA
130 AAA-GTGCCACCAACTTGTGTGGGCTTTG-AAAG-----GTGTCCTGCTCTTTGAGGACTGGAAA
* *
719545 ATGCCACCAACCTGTGTGGGCTTTAAAAGGTG
188 ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
719577 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
* * * * * *
719642 TGGGGACTAAAAGGTGCCACCAACCTGTGTGGGCTTTGAAAAGAAAAAGCATCTTGCTCTTTGAG
65 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT--AAAG---AGGCGTCCTGCTCTTTGAG
* * * *
719707 GACTGAAAAATGCCACCAACCTGTGTGGGCTATAAAAGGTGTCCTGCTCTTTGAGGACTGGAAAA
125 GACTG-AAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAAAA
*
719772 TGCCACCAACTTGTGTGGGCTTTGAAAGGCG
189 TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
719803 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCT
1 TCCTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTG-AAAG-----GCGTCCT
* * * * * *
719868 GCTCTTTGAGGACTG-AAGGTTCCACCAACTCGGGTGGGCTTT-AAGAGGTGTCCCGCTCTCTGA
59 GCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAGAGGCGTCCTGCTCTTTGA
* *
719931 GAACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAAA
124 GGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAAA
*
719996 ATGCCACCAACTTGTGTGGGATTTGAAAGGTG
188 ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
720028 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCT
1 TCCTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTG-AAAG-----GCGTCCT
* * * * * *
720093 GCTCTTTGAGAACTG-AAGGTGCCACCAACTCGGGTAGGCTTT-AAGAGGTGTCCTGCTCTCTGA
59 GCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAGAGGCGTCCTGCTCTTTGA
* *
720156 GGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAA
124 GGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAAA
* *
720221 ATGCCACCAACCTGTGTGGGCTTTAAAAGGTG
188 ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
720253 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
* *
720318 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAG
65 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT--AAAG---AGGCGTCCTGCTCTTTGAG
* * * * *
720383 GACTGAAGGTGCCACCAACTCGGGTGGGCTTT-AAGAGGTGTCCCGCTCTCTGAGGACTGGAAAA
125 GACTGAAAGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGACTGGAAAA
720447 TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
189 TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
720478 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
* *
720543 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAG
65 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT--AAAG---AGGCGTCCTGCTCTTTGAG
* * * * * *
720608 AACTGAAGGTGCCACCAACTCGGGTAGGCTTT-AAGAGGTGTCCTGCTCTCTGAGGACTGGAAAA
125 GACTGAAAGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGACTGGAAAA
*
720672 TGCCACCATCTTGTGTGGGCTTTGAAAGGTG
189 TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* * * *
720703 TCCTGCTCTTTGAGGATTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTG-AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
* *
720768 TGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGCGTCCTGCTCTTTGAGGACT
65 TGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAGAGGCGTCCTGCTCTTTGAGGACT
**
720831 GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACT-GAA
129 GAAA-GTGCCACCAACTTGTGTGGGCTTTG-AAAG-----GTGTCCTGCTCTTTGAGGACTGGAA
** * *
720895 GGTGCCACCAACTCGGGTGGGCTTT-AAGAGGTG
187 AATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
* * *
720928 TCCTGCTCTCTAAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
* *
720993 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGACTG
65 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAGAGGCGTCCTGCTCTTTGAGGACTG
721057 AAAGGTGCCACCAACTTGTGTGGGCTTTGAAA
130 AAA-GTGCCACCAACTTGTGTGGGCTTTGAAA
721089 AGAAAAAGCA
Statistics
Matches: 1366, Mismatches: 108, Indels: 78
0.88 0.07 0.05
Matches are distributed among these distances:
219 43 0.03
220 45 0.03
221 2 0.00
222 2 0.00
223 5 0.00
224 16 0.01
225 925 0.68
226 227 0.17
227 8 0.01
228 3 0.00
229 3 0.00
231 27 0.02
232 57 0.04
233 3 0.00
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (219 bp):
TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTT
GAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAGAGGCGTCCTGCTCTTTGAGGACTGA
AAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCACC
AACTTGTGTGGGCTTTGAAAGGTG
Found at i:720334 original size:505 final size:505
Alignment explanation
Indices: 719374--721146 Score: 2892
Period size: 505 Copynumber: 3.5 Consensus size: 505
719364 GGAGTAAAAA
* * * * * *
719374 GTGCCACCAACTTGTGTGGGCTTTGAA-AGGCT-TCCTGCTCTTTGAAAACT-GAAAGGTGCCAC
1 GTGCCACCAACTCGGGTGGGCTTT-AAGAGG-TGTCCCGCTCTCTGAGAACTGGAAA-ATGCCAC
* * *
719436 CAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCCTTGGGGACTGAAAGGTGCCACCAACTTGTG
63 CAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGACTGAAAGATGCCACCAACTTGTG
** ** *
719500 TGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGG
127 TGGGCTTTG-AAAG-----GTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGG
** * ** * * *
719565 CTTT-AAAAG-----GTGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
186 CTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGAACT-GAAGGTGCCACCAACTCGGGTAGGCTTT
* * *
719624 GAA-AGGTGTCCTGCTCTTTGGGGACT--AAAAGGTGCCACCAACCTGTGTGGGCTTTGAAAAGA
250 -AAGAGGTGTCCTGCTCTCTGAGGACTGGAAAA--TGCCACCAACTTGTGTGGGCTTTG-AAAG-
** * *
719686 AAAAGCATCTTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTATAAAAGGTGTCC
310 ----GTGTCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCC
719751 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGA
371 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGA
719816 GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGAC
436 GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGAC
719881 TGAAG
501 TGAAG
*
719886 GTTCCACCAACTCGGGTGGGCTTTAAGAGGTGTCCCGCTCTCTGAGAACTGGAAAATGCCACCAA
1 GTGCCACCAACTCGGGTGGGCTTTAAGAGGTGTCCCGCTCTCTGAGAACTGGAAAATGCCACCAA
719951 CTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGG
66 CTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACT-GAAAGATGCCACCAACTTGTGTGG
*
720015 GATTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAA
130 GCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAA
720080 GAAAAAGCATCCTGCTCTTTGAGAACTGAAGGTGCCACCAACTCGGGTAGGCTTTAAGAGGTGTC
195 GAAAAAGCATCCTGCTCTTTGAGAACTGAAGGTGCCACCAACTCGGGTAGGCTTTAAGAGGTGTC
720145 CTGCTCTCTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTG
260 CTGCTCTCTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTG
720210 AGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGGAA
325 AGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGGAA
720275 AATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCA
390 AATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCA
720340 ACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAG
455 ACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAG
*
720391 GTGCCACCAACTCGGGTGGGCTTTAAGAGGTGTCCCGCTCTCTGAGGACTGGAAAATGCCACCAA
1 GTGCCACCAACTCGGGTGGGCTTTAAGAGGTGTCCCGCTCTCTGAGAACTGGAAAATGCCACCAA
720456 CTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGG
66 CTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACT-GAAAGATGCCACCAACTTGTGTGG
720520 GCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAA
130 GCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAA
720585 GAAAAAGCATCCTGCTCTTTGAGAACTGAAGGTGCCACCAACTCGGGTAGGCTTTAAGAGGTGTC
195 GAAAAAGCATCCTGCTCTTTGAGAACTGAAGGTGCCACCAACTCGGGTAGGCTTTAAGAGGTGTC
*
720650 CTGCTCTCTGAGGACTGGAAAATGCCACCATCTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTG
260 CTGCTCTCTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTG
*
720715 AGGATTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGGAA
325 AGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGGAA
720780 AATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCA
390 AATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCA
720845 ACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAG
455 ACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAG
* * *
720896 GTGCCACCAACTCGGGTGGGCTTTAAGAGGTGTCCTGCTCTCTAAGGACTGGAAAATGCCACCAA
1 GTGCCACCAACTCGGGTGGGCTTTAAGAGGTGTCCCGCTCTCTGAGAACTGGAAAATGCCACCAA
*
720961 CTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGG
66 CTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAGATGCCACCAACTTGTGTGGG
721026 CTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAG
131 CTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAG
*
721091 AAAAAGCATCCTGCTCTTTGAGAACTGAAGGTGCCACCAACTCGGGTGGGCTTTAA
196 AAAAAGCATCCTGCTCTTTGAGAACTGAAGGTGCCACCAACTCGGGTAGGCTTTAA
721147 AAGAAAAGGC
Statistics
Matches: 1206, Mismatches: 40, Indels: 37
0.94 0.03 0.03
Matches are distributed among these distances:
504 4 0.00
505 934 0.77
506 45 0.04
507 5 0.00
510 6 0.00
511 74 0.06
512 124 0.10
513 14 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (505 bp):
GTGCCACCAACTCGGGTGGGCTTTAAGAGGTGTCCCGCTCTCTGAGAACTGGAAAATGCCACCAA
CTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAGATGCCACCAACTTGTGTGGG
CTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAG
AAAAAGCATCCTGCTCTTTGAGAACTGAAGGTGCCACCAACTCGGGTAGGCTTTAAGAGGTGTCC
TGCTCTCTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGA
GGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGGAAA
ATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAA
CTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAG
Found at i:721003 original size:26 final size:26
Alignment explanation
Indices: 720974--721063 Score: 92
Period size: 26 Copynumber: 3.3 Consensus size: 26
720964 GTGTGGGCTT
720974 TGAAAGGTGTCCTGCTCTTTGAGGAC
1 TGAAAGGTGTCCTGCTCTTTGAGGAC
** * * *
721000 TGAAAGGTG-CCACCAACTTGTGTGGGC
1 TGAAAGGTGTCCTGC-TCTT-TGAGGAC
721027 TTTGAAAGGTGTCCTGCTCTTTGAGGAC
1 --TGAAAGGTGTCCTGCTCTTTGAGGAC
721055 TGAAAGGTG
1 TGAAAGGTG
721064 CCACCAACTT
Statistics
Matches: 49, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
25 3 0.06
26 21 0.43
27 5 0.10
28 5 0.10
29 12 0.24
30 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.29
Consensus pattern (26 bp):
TGAAAGGTGTCCTGCTCTTTGAGGAC
Found at i:725980 original size:33 final size:33
Alignment explanation
Indices: 725915--725980 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
725905 GTTGGGCATG
* **
725915 ATGTATCGATACAATTCTTCATGTATTGATACA
1 ATGTATCGATACAATTCTCCATGTATCAATACA
*
725948 ATGTATCGATAC-ATTATCCCATGTATCAATACA
1 ATGTATCGATACAATTCT-CCATGTATCAATACA
725981 TTTCACTCAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 4 0.14
33 24 0.86
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.36
Consensus pattern (33 bp):
ATGTATCGATACAATTCTCCATGTATCAATACA
Found at i:726053 original size:19 final size:20
Alignment explanation
Indices: 726009--726062 Score: 74
Period size: 19 Copynumber: 2.7 Consensus size: 20
725999 CTACCAGTTT
726009 CATGTATTCGATACAATTGAG
1 CATGTA-TCGATACAATTGAG
* *
726030 TATGTATCGATATAA-TGAG
1 CATGTATCGATACAATTGAG
726049 CATGTATCGATACA
1 CATGTATCGATACA
726063 TTGTATCGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 16 0.55
20 8 0.28
21 5 0.17
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACAATTGAG
Found at i:731961 original size:10 final size:10
Alignment explanation
Indices: 731946--731984 Score: 60
Period size: 10 Copynumber: 3.7 Consensus size: 10
731936 GTTGTACCTT
731946 TTTTTTTTTC
1 TTTTTTTTTC
731956 TTTTTTTTTC
1 TTTTTTTTTC
731966 TTTTTTCTTTC
1 TTTTTT-TTTC
731977 TTGTTTTT
1 TT-TTTTT
731985 CAAATAAGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 16 0.59
11 7 0.26
12 4 0.15
ACGTcount: A:0.00, C:0.10, G:0.03, T:0.87
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:731961 original size:11 final size:11
Alignment explanation
Indices: 731945--731984 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
731935 TGTTGTACCT
731945 TTTTTTTTTTC
1 TTTTTTTTTTC
731956 -TTTTTTTTTC
1 TTTTTTTTTTC
*
731966 TTTTTTCTTTC
1 TTTTTTTTTTC
731977 TTGTTTTT
1 TT-TTTTT
731985 CAAATAAGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 10 0.40
11 11 0.44
12 4 0.16
ACGTcount: A:0.00, C:0.10, G:0.03, T:0.88
Consensus pattern (11 bp):
TTTTTTTTTTC
Found at i:731969 original size:17 final size:16
Alignment explanation
Indices: 731944--731975 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
731934 ATGTTGTACC
731944 TTTTTTTTTTTCTTTT
1 TTTTTTTTTTTCTTTT
731960 TTTTTCTTTTTTCTTT
1 TTTTT-TTTTTTCTTT
731976 CTTGTTTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (16 bp):
TTTTTTTTTTTCTTTT
Found at i:731970 original size:21 final size:21
Alignment explanation
Indices: 731945--731984 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
731935 TGTTGTACCT
* *
731945 TTTTTTTTTTCTTTTTTTTTC
1 TTTTTTCTTTCTTGTTTTTTC
731966 TTTTTTCTTTCTTGTTTTT
1 TTTTTTCTTTCTTGTTTTT
731985 CAAATAAGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.00, C:0.10, G:0.03, T:0.88
Consensus pattern (21 bp):
TTTTTTCTTTCTTGTTTTTTC
Found at i:735873 original size:79 final size:78
Alignment explanation
Indices: 735697--735880 Score: 208
Period size: 79 Copynumber: 2.3 Consensus size: 78
735687 ATCTCCCGAG
* * * * * *
735697 GAGAAATTTAATATTTTGGAGATAATAACGGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGG
1 GAGAAA-TTAATATTTTAGAAATAA-AACGGGATTAGAGTATCCCCTCAAAAATAACAGGGTTAG
*
735762 AGTATCCCCGATTGT
64 AGTATCCCCGATTAT
* ** * * *
735777 GAAAAATCGATGA-TTTAGAAATAAAATCGGGATTAGATTATTCCCTCAAAAATAACGGGGTTAG
1 GAGAAATTAAT-ATTTTAGAAATAAAA-CGGGATTAGAGTATCCCCTCAAAAATAACAGGGTTAG
735841 AGTATCCCCGATTAT
64 AGTATCCCCGATTAT
735856 GAGAAATTAATATTTTAGAAATAAA
1 GAGAAATTAATATTTTAGAAATAAA
735881 GCCAGGGTTG
Statistics
Matches: 85, Mismatches: 16, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
78 3 0.04
79 76 0.89
80 6 0.07
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (78 bp):
GAGAAATTAATATTTTAGAAATAAAACGGGATTAGAGTATCCCCTCAAAAATAACAGGGTTAGAG
TATCCCCGATTAT
Found at i:735878 original size:48 final size:47
Alignment explanation
Indices: 735832--735948 Score: 144
Period size: 48 Copynumber: 2.4 Consensus size: 47
735822 TCAAAAATAA
* *
735832 CGGGGTTAGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAGC
1 CGGGGTTGGAGTATCCCCG---ATGAAAAATTAATATTTTAGAAATAAA-C
* * *
735883 CAGGGTTGGAGTATCCCCGATGAAAAATTAATGTTTTAGAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATGAAAAATTAATATTTTAGAAAT-AAAC
735931 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
735949 TCGAAAATAA
Statistics
Matches: 59, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
48 39 0.66
49 3 0.05
51 17 0.29
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (47 bp):
CGGGGTTGGAGTATCCCCGATGAAAAATTAATATTTTAGAAATAAAC
Found at i:735957 original size:79 final size:77
Alignment explanation
Indices: 735883--736182 Score: 356
Period size: 79 Copynumber: 3.9 Consensus size: 77
735873 GAAATAAAGC
*
735883 CAGGGTTGGAGTATCCCCG-ATGAAAAATTAATGTTTTAGAAATAAAATCGGGGTTGGAGTATCC
1 CAGGGTTGGAGTATCCCCGTATGAAAAATTAATGTTTTAGAAATAAAACCGGGGTTGGAGTATCC
735947 CCTCGAAAATAA
66 CCTCGAAAATAA
* * *
735959 C-GGGATGGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGAGGTTGGAGTA
1 CAGGG-TTGGAGTATCCCCG--TATGAAAAATTAATGTTTTAGAAATAAAACCGGGGTTGGAGTA
736023 TCCCCTC-AGAAATAA
63 TCCCCTCGA-AAATAA
* * * * * *
736038 TAGGGTTGGAGTATTCCTGATTATGAGAAATTAATATTTTAGAAATAAAGCCGGGGTTGGAGTAT
1 CAGGGTTGGAGTATCCCCG--TATGAAAAATTAATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
736103 CCCCTCGGAAATAA
64 CCCCTCGAAAATAA
* * * * ** *
736117 CAGGGTTGAAGTATCCCCG-ATGAAAATTTGATGTTTTGGAAATGGAACTGGGGTTGGAGTATCC
1 CAGGGTTGGAGTATCCCCGTATGAAAAATTAATGTTTTAGAAATAAAACCGGGGTTGGAGTATCC
736181 CC
66 CC
736183 GAGATGAAAA
Statistics
Matches: 190, Mismatches: 27, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
75 3 0.02
76 52 0.27
78 1 0.01
79 131 0.69
80 3 0.02
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (77 bp):
CAGGGTTGGAGTATCCCCGTATGAAAAATTAATGTTTTAGAAATAAAACCGGGGTTGGAGTATCC
CCTCGAAAATAA
Found at i:735973 original size:127 final size:128
Alignment explanation
Indices: 735753--736027 Score: 374
Period size: 127 Copynumber: 2.1 Consensus size: 128
735743 TCGAAAATAA
* *
735753 CAGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGATTTAGAAATAAAATCGGGATTAGATTAT
1 CAGGGTTGGAGTATCCCCGA-T-TGAAAAATCAATGATTTAGAAATAAAATCGGGATTAGAGTAT
* * * * *
735818 TCCCTCAAAAATAACGGGGTTAGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAGC
64 CCCCTCAAAAATAACGGGATGAGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAAC
* * * *
735883 CAGGGTTGGAGTATCCCCGA-TGAAAAATTAATGTTTTAGAAATAAAATCGGGGTTGGAGTATCC
1 CAGGGTTGGAGTATCCCCGATTGAAAAATCAATGATTTAGAAATAAAATCGGGATTAGAGTATCC
* * * *
735947 CCTCGAAAATAACGGGATGGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAAC
66 CCTCAAAAATAACGGGATGAGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAAC
736010 C-GAGGTTGGAGTATCCCC
1 CAG-GGTTGGAGTATCCCC
736028 TCAGAAATAA
Statistics
Matches: 129, Mismatches: 15, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
126 1 0.01
127 108 0.84
130 20 0.16
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (128 bp):
CAGGGTTGGAGTATCCCCGATTGAAAAATCAATGATTTAGAAATAAAATCGGGATTAGAGTATCC
CCTCAAAAATAACGGGATGAGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAAC
Found at i:736079 original size:206 final size:206
Alignment explanation
Indices: 735725--736106 Score: 597
Period size: 206 Copynumber: 1.9 Consensus size: 206
735715 GAGATAATAA
* *
735725 CGGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGA
1 CGGGGTTGGAGTATCCCCTCGAAAATAACAGGGTGGGAGTATCCCCGATTATGAAAAATCGATGA
* * * *
735790 TTTAGAAATAAAATCGGGATTAGATTATTCCCTCAAAAATAACGGGGTTAGAGTATCCCCGATTA
66 TTTAGAAATAAAACCGGGATTAGAGTATCCCCTCAAAAATAACAGGGTTAGAGTATCCCCGATTA
735855 TGAGAAATTAATATTTTAGAAATAAAGCCAGGGTTGGAGTATCCCCGATGAAAAATTAATGTTTT
131 TGAGAAATTAATATTTTAGAAATAAAGCCAGGGTTGGAGTATCCCCGATGAAAAATTAATGTTTT
735920 AGAAATAAAAT
196 AGAAATAAAAT
*
735931 CGGGGTTGGAGTATCCCCTCGAAAATAAC-GGGATGGGAGTATCCCCGATTATGAAAAATTGATG
1 CGGGGTTGGAGTATCCCCTCGAAAATAACAGGG-TGGGAGTATCCCCGATTATGAAAAATCGATG
* * * * * * *
735995 TTTTAGAAATAAAACCGAGG-TTGGAGTATCCCCTCAGAAATAATAGGGTTGGAGTATTCCTGAT
65 ATTTAGAAATAAAACCG-GGATTAGAGTATCCCCTCAAAAATAACAGGGTTAGAGTATCCCCGAT
*
736059 TATGAGAAATTAATATTTTAGAAATAAAGCCGGGGTTGGAGTATCCCC
129 TATGAGAAATTAATATTTTAGAAATAAAGCCAGGGTTGGAGTATCCCC
736107 TCGGAAATAA
Statistics
Matches: 159, Mismatches: 15, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
205 3 0.02
206 154 0.97
207 2 0.01
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (206 bp):
CGGGGTTGGAGTATCCCCTCGAAAATAACAGGGTGGGAGTATCCCCGATTATGAAAAATCGATGA
TTTAGAAATAAAACCGGGATTAGAGTATCCCCTCAAAAATAACAGGGTTAGAGTATCCCCGATTA
TGAGAAATTAATATTTTAGAAATAAAGCCAGGGTTGGAGTATCCCCGATGAAAAATTAATGTTTT
AGAAATAAAAT
Found at i:738556 original size:21 final size:21
Alignment explanation
Indices: 738530--738574 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
738520 AAACTTCCTA
*
738530 GATGTATCGATACAAAGAATC
1 GATGTATCAATACAAAGAATC
* *
738551 GATGTATCAATACAATGTATC
1 GATGTATCAATACAAAGAATC
738572 GAT
1 GAT
738575 ACACAGAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (21 bp):
GATGTATCAATACAAAGAATC
Found at i:739452 original size:42 final size:43
Alignment explanation
Indices: 739406--739507 Score: 127
Period size: 42 Copynumber: 2.4 Consensus size: 43
739396 CCCATTTTTC
* *
739406 GAGGACAAAGGAAAAAGGGAAACGAAA-TACGTTCTGCTCTCT
1 GAGGACAAAGGAAAAAGGGAAAAGAAAGTACGTCCTGCTCTCT
* * *
739448 GAGGACAAAGGAAAAA-GGAAAATAAAGTGCGTCCTGCTCTTT
1 GAGGACAAAGGAAAAAGGGAAAAGAAAGTACGTCCTGCTCTCT
*
739490 GAGGACAAAAGAGAAAAG
1 GAGGACAAAGGA-AAAAG
739508 AAGGGAAGGA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
41 8 0.16
42 39 0.76
43 4 0.08
ACGTcount: A:0.44, C:0.14, G:0.27, T:0.15
Consensus pattern (43 bp):
GAGGACAAAGGAAAAAGGGAAAAGAAAGTACGTCCTGCTCTCT
Found at i:739750 original size:60 final size:60
Alignment explanation
Indices: 739523--739756 Score: 285
Period size: 61 Copynumber: 3.9 Consensus size: 60
739513 AAGGAAGTGT
* * * *
739523 GTCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGT
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAG-AAAGGC
* * *
739584 GTCCTGCCCTTTGAGGACT-AGAAGGTGCCACCAACTTGTGTGGGCCTTGCAAAAAGAAA-GC
1 GTCCTGCTCTTTGAGGACTGA-AAAGTGCCACCAACTTGTGTGGG-CTT-TAAAAAGAAAGGC
* * * *
739645 ATCTTGCTCTTTGAAGACTGAAAAGTGCCACCAACTTGGGTGGGCTTTAAAAAGAGAAGGC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGA-AAGGC
**
739706 GTCCTGCTCTTTGAGGACTG-AAAGTGCCACCGGCTTGTGTGGGCTTTAAAA
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAA
739757 GGCATCCTGC
Statistics
Matches: 147, Mismatches: 20, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
59 7 0.05
60 34 0.23
61 94 0.64
62 7 0.05
63 5 0.03
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (60 bp):
GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAGGC
Found at i:739791 original size:122 final size:119
Alignment explanation
Indices: 739524--739773 Score: 328
Period size: 122 Copynumber: 2.1 Consensus size: 119
739514 AGGAAGTGTG
* * * * *
739524 TCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGTGTCCT
1 TCCTGCTCTTTGAAGACTGAAAAGTGCCACCAACTCGGGTGGGCTTTAAAAAGAAAAGGCGTCCT
*
739589 GCCCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCCTTGCAAAAAGAAAGCA
66 GCCCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCCTT-CAAAAAG--AGCA
* * *
739646 TCTTGCTCTTTGAAGACTGAAAAGTGCCACCAACTTGGGTGGGCTTTAAAAAGAGAAGGCGTCCT
1 TCCTGCTCTTTGAAGACTGAAAAGTGCCACCAACTCGGGTGGGCTTTAAAAAGAAAAGGCGTCCT
* ** *
739711 GCTCTTTGAGGACT-GAAAGTGCCACCGGCTTGTGTGGG-CTT-TAAAAG-GCA
66 GCCCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCCTTCAAAAAGAGCA
739761 TCCTGCTCTTTGA
1 TCCTGCTCTTTGA
739774 GGATAAAAAG
Statistics
Matches: 114, Mismatches: 14, Indels: 7
0.84 0.10 0.05
Matches are distributed among these distances:
115 15 0.13
118 5 0.04
120 3 0.03
121 21 0.18
122 70 0.61
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (119 bp):
TCCTGCTCTTTGAAGACTGAAAAGTGCCACCAACTCGGGTGGGCTTTAAAAAGAAAAGGCGTCCT
GCCCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCCTTCAAAAAGAGCA
Done.