Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001582.1 Hibiscus syriacus cultivar Beakdansim tig00003151_pilon, whole genome shotgun sequence
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: 1162828
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 6
Found at i:632620 original size:20 final size:20
Alignment explanation
Indices: 632595--632667 Score: 119
Period size: 20 Copynumber: 3.6 Consensus size: 20
632585 AATGCACTCA
*
632595 GTGCATCGATGCATCCTGCT
1 GTGCATCGATGCATCCTGTT
*
632615 GTGCATCGATGCATCTTGTT
1 GTGCATCGATGCATCCTGTT
632635 GTGCATCGATGCATCCTGTT
1 GTGCATCGATGCATCCTGTT
*
632655 GTGCATCAATGCA
1 GTGCATCGATGCA
632668 CGAAGGCTGC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.18, C:0.25, G:0.25, T:0.33
Consensus pattern (20 bp):
GTGCATCGATGCATCCTGTT
Found at i:633994 original size:20 final size:19
Alignment explanation
Indices: 633953--633999 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
633943 AATGATTTTC
*
633953 TTTTGAAAACAAAAATAGA
1 TTTTGAAAACAAAAATAAA
* *
633972 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAAT-AAA
633992 TTTT-AAAA
1 TTTTGAAAA
634000 AAGGATTTAG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.53, C:0.06, G:0.11, T:0.30
Consensus pattern (19 bp):
TTTTGAAAACAAAAATAAA
Found at i:635463 original size:20 final size:20
Alignment explanation
Indices: 635438--635486 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
635428 AACTTAGTGC
*
635438 ATCGATGCTTCATGCTGTGT
1 ATCGATGCATCATGCTGTGT
* *
635458 ATCGATGCATCCTGCTGTGC
1 ATCGATGCATCATGCTGTGT
*
635478 ATCCATGCA
1 ATCGATGCA
635487 CGAAGGCTGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.18, C:0.27, G:0.22, T:0.33
Consensus pattern (20 bp):
ATCGATGCATCATGCTGTGT
Found at i:646906 original size:4 final size:4
Alignment explanation
Indices: 646890--646923 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
646880 TAACCAAACG
*
646890 AAGA AATA AAGA AAGA AAGA AAGA AAGA AAGA AA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AA
646924 ATATTGAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (4 bp):
AAGA
Found at i:650646 original size:13 final size:13
Alignment explanation
Indices: 650628--650669 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
650618 TGTGTCGTAA
650628 ATTTATGACGCGC
1 ATTTATGACGCGC
***
650641 ATTTATGACAAAC
1 ATTTATGACGCGC
650654 ATTTATGACGCGC
1 ATTTATGACGCGC
650667 ATT
1 ATT
650670 GTGTGTCATT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (13 bp):
ATTTATGACGCGC
Found at i:650784 original size:85 final size:84
Alignment explanation
Indices: 650641--650806 Score: 251
Period size: 85 Copynumber: 2.0 Consensus size: 84
650631 TATGACGCGC
* *
650641 ATTTATGACAAACATTTATGACGCGCATTGTGTGTCATTGAAGCCCCCGTCATAAATGAAGATGA
1 ATTTATGACAAACATTTATGACGCACATTGCGTGTCATTGAAGCCCCCGTCATAAATGAAGATGA
650706 CACACATTTGTGTGTCATAA
66 CACACA-TTGTGTGTCATAA
** ** * *
650726 ATTTATGACACGCATTTATGACTTACATTGCGTGTTATTGAAGCCCTCGTCATAAATGAAGATGA
1 ATTTATGACAAACATTTATGACGCACATTGCGTGTCATTGAAGCCCCCGTCATAAATGAAGATGA
650791 CACACATTGTGTGTCA
66 CACACATTGTGTGTCA
650807 GAGAGTATAT
Statistics
Matches: 73, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
84 10 0.14
85 63 0.86
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.32
Consensus pattern (84 bp):
ATTTATGACAAACATTTATGACGCACATTGCGTGTCATTGAAGCCCCCGTCATAAATGAAGATGA
CACACATTGTGTGTCATAA
Found at i:654558 original size:6 final size:6
Alignment explanation
Indices: 654505--654560 Score: 51
Period size: 6 Copynumber: 9.3 Consensus size: 6
654495 TTTTTCTTCG
* * * * *
654505 TCATCT CCATCC TCATCT CCAT-T TCCATCA TCATCT TCATAT TCATCT
1 TCATCT TCATCT TCATCT TCATCT T-CATCT TCATCT TCATCT TCATCT
654553 TCATCT TC
1 TCATCT TC
654561 GCCATCGTCT
Statistics
Matches: 38, Mismatches: 10, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
5 1 0.03
6 36 0.95
7 1 0.03
ACGTcount: A:0.20, C:0.38, G:0.00, T:0.43
Consensus pattern (6 bp):
TCATCT
Found at i:654559 original size:18 final size:18
Alignment explanation
Indices: 654505--654560 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
654495 TTTTTCTTCG
* *
654505 TCATCTCCATCCTCATCT
1 TCATTTCCATCATCATCT
*
654523 CCATTTCCATCATCATCT
1 TCATTTCCATCATCATCT
*
654541 TCATATT-CATCTTCATCT
1 TCAT-TTCCATCATCATCT
654559 TC
1 TC
654561 GCCATCGTCT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
18 30 0.94
19 2 0.06
ACGTcount: A:0.20, C:0.38, G:0.00, T:0.43
Consensus pattern (18 bp):
TCATTTCCATCATCATCT
Found at i:655191 original size:4 final size:4
Alignment explanation
Indices: 655182--655235 Score: 74
Period size: 4 Copynumber: 13.5 Consensus size: 4
655172 AGGAAAATGC
**
655182 AAAG AAAG AAAG AATA- AAAG AAAG AAAG AAAG AAAG ATGG AAAG AAAG
1 AAAG AAAG AAAG AA-AG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG
655230 AAAG AA
1 AAAG AA
655236 TGTGACTCAC
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
3 1 0.02
4 42 0.95
5 1 0.02
ACGTcount: A:0.72, C:0.00, G:0.24, T:0.04
Consensus pattern (4 bp):
AAAG
Found at i:657616 original size:113 final size:113
Alignment explanation
Indices: 657436--657642 Score: 317
Period size: 113 Copynumber: 1.8 Consensus size: 113
657426 TTATCCATTG
* *
657436 TTATTTATTTATTTATTGTTTCTAATATTCAATTCAACCTTGTGGTGACCAGATCCGGGGTATGA
1 TTATTTATATATTTATTGTTTCTAATATTCAATTCAACCTTGTGGTGACCAGATCCAGGGTATGA
* *
657501 TCCACATTATTATGGTTTGGACTCTGCTATTTTATTGCACTCTAACCA
66 TCCACATTATTATGGTTCGAACTCTGCTATTTTATTGCACTCTAACCA
* * * *
657549 TTATTTATATATTTATTGTTTCTAATATTTGAA-TCGACCTTGTGGTGACCTGATCTAGGGTATG
1 TTATTTATATATTTATTGTTTCTAATA-TTCAATTCAACCTTGTGGTGACCAGATCCAGGGTATG
*
657613 ATCCATATTATTATGGTTCGAACTCTGCTA
65 ATCCACATTATTATGGTTCGAACTCTGCTA
657643 ACCATTAACT
Statistics
Matches: 84, Mismatches: 9, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
113 80 0.95
114 4 0.05
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (113 bp):
TTATTTATATATTTATTGTTTCTAATATTCAATTCAACCTTGTGGTGACCAGATCCAGGGTATGA
TCCACATTATTATGGTTCGAACTCTGCTATTTTATTGCACTCTAACCA
Found at i:657666 original size:113 final size:112
Alignment explanation
Indices: 657436--657771 Score: 294
Period size: 113 Copynumber: 3.0 Consensus size: 112
657426 TTATCCATTG
* * *
657436 TTATTTATTTATTTATTGTTTCTAATA-TTCAATTCAACCTTGTGGTGACCAGATCCGGGGTATG
1 TTATTTA-TTATTTATTGTTTCTAATATTTGAA-TCGACCTTGTGGTGACCAGATCTGGGGTATG
* * *** * *
657500 ATCCACATTATTATGGTTTGGACTCTGCTATTTTATTGCAC--TCTAACCA
64 ATCCACATTATTATGGTTCGAACTCTGCTA-ACCATT-AACTTTTTAACCA
* *
657549 TTATTTATATATTTATTGTTTCTAATATTTGAATCGACCTTGTGGTGACCTGATCTAGGGTATGA
1 TTATTTAT-TATTTATTGTTTCTAATATTTGAATCGACCTTGTGGTGACCAGATCTGGGGTATGA
* *
657614 TCCATATTATTATGGTTCGAACTCTGCTAACCATTAACTTTTT---TA
65 TCCACATTATTATGGTTCGAACTCTGCTAACCATTAACTTTTTAACCA
* * * * * * *
657659 -TATTTATTTTGTTAATTTGTTT-GAATTATTCG-ATACGACCTTTTAGTGACGAGATTTGGGGT
1 TTATTTATTAT-TT-A-TTGTTTCTAA-TATTTGAAT-CGACCTTGTGGTGACCAGATCTGGGGT
* **
657721 ATGATCCACATTATTATGGTTCAAACTCTGCTAACCGCTAACTTTTCTAAC
61 ATGATCCACATTATTATGGTTCGAACTCTGCTAACCATTAACTTTT-TAAC
657772 TGTTAACTTT
Statistics
Matches: 183, Mismatches: 27, Indels: 24
0.78 0.12 0.10
Matches are distributed among these distances:
108 2 0.01
109 9 0.05
110 6 0.03
111 76 0.42
112 5 0.03
113 81 0.44
114 4 0.02
ACGTcount: A:0.25, C:0.16, G:0.15, T:0.44
Consensus pattern (112 bp):
TTATTTATTATTTATTGTTTCTAATATTTGAATCGACCTTGTGGTGACCAGATCTGGGGTATGAT
CCACATTATTATGGTTCGAACTCTGCTAACCATTAACTTTTTAACCA
Found at i:657770 original size:16 final size:16
Alignment explanation
Indices: 657751--657825 Score: 78
Period size: 16 Copynumber: 4.7 Consensus size: 16
657741 TCAAACTCTG
*
657751 CTAACCGCTAACTTTT
1 CTAACTGCTAACTTTT
*
657767 CTAACTGTTAACTTTT
1 CTAACTGCTAACTTTT
* *
657783 CTAACTGTTCACTTTT
1 CTAACTGCTAACTTTT
** **
657799 CTAACACCTAAGATTT
1 CTAACTGCTAACTTTT
657815 CTAACTGCTAA
1 CTAACTGCTAA
657826 TTACTAACTA
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.28, C:0.25, G:0.07, T:0.40
Consensus pattern (16 bp):
CTAACTGCTAACTTTT
Found at i:660377 original size:21 final size:20
Alignment explanation
Indices: 660340--660379 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
660330 ATCAATATTT
*
660340 TTTGCATCTGCATTTGCATC
1 TTTGCATCTGCACTTGCATC
*
660360 TTTGCATTTTGCACTTGCAT
1 TTTGCA-TCTGCACTTGCAT
660380 TCCATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.15, C:0.23, G:0.15, T:0.47
Consensus pattern (20 bp):
TTTGCATCTGCACTTGCATC
Found at i:662961 original size:16 final size:15
Alignment explanation
Indices: 662942--662972 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
662932 ATATATATAT
662942 ATATATTCATAACATA
1 ATATATTCAT-ACATA
662958 ATATATTCATACATA
1 ATATATTCATACATA
662973 TAATAACTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (15 bp):
ATATATTCATACATA
Found at i:662963 original size:2 final size:2
Alignment explanation
Indices: 662892--662947 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
662882 TAACTTTAAC
662892 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
662934 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
662948 TCATAACATA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:664598 original size:3 final size:3
Alignment explanation
Indices: 664590--664617 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
664580 AATATGTATT
664590 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
664618 GATATTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:666902 original size:20 final size:20
Alignment explanation
Indices: 666877--666916 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
666867 ACTTGTTCTA
666877 AATCTGGGTGAGACCAAACT
1 AATCTGGGTGAGACCAAACT
666897 AATCTGGGTGAGACCAAACT
1 AATCTGGGTGAGACCAAACT
666917 GCTGCTTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (20 bp):
AATCTGGGTGAGACCAAACT
Found at i:673247 original size:38 final size:38
Alignment explanation
Indices: 673196--673278 Score: 148
Period size: 38 Copynumber: 2.2 Consensus size: 38
673186 ATTTCACTAT
* *
673196 GAGAAAATAGGAATTAGAACTTCTCTCGGTCTAACAAG
1 GAGAAAATAGGAATTACAACTTCTCTCGATCTAACAAG
673234 GAGAAAATAGGAATTACAACTTCTCTCGATCTAACAAG
1 GAGAAAATAGGAATTACAACTTCTCTCGATCTAACAAG
673272 GAGAAAA
1 GAGAAAA
673279 CAATAACAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.43, C:0.16, G:0.19, T:0.22
Consensus pattern (38 bp):
GAGAAAATAGGAATTACAACTTCTCTCGATCTAACAAG
Found at i:677999 original size:9 final size:9
Alignment explanation
Indices: 677985--678021 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
677975 AGTTTCTTAT
677985 GAGAAGAAA
1 GAGAAGAAA
677994 GAGAAGAAA
1 GAGAAGAAA
678003 GAGAAGAAA
1 GAGAAGAAA
*
678012 G-GAAAAAA
1 GAGAAGAAA
678020 GA
1 GA
678022 AGCAAAATCC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
8 7 0.27
9 19 0.73
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (9 bp):
GAGAAGAAA
Found at i:681297 original size:15 final size:15
Alignment explanation
Indices: 681277--681307 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
681267 TCTTTGTAAC
681277 TGGTCTAATTCCTGA
1 TGGTCTAATTCCTGA
681292 TGGTCTAATTCCTGA
1 TGGTCTAATTCCTGA
681307 T
1 T
681308 TGTGTGTACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (15 bp):
TGGTCTAATTCCTGA
Found at i:687330 original size:163 final size:163
Alignment explanation
Indices: 687060--687378 Score: 584
Period size: 163 Copynumber: 2.0 Consensus size: 163
687050 ACAACCCACC
* * *
687060 ATATTACTTCCAATATCGCCTTGATCACTCATCACACAAATTGTAGCAACCCTGGTAAGCTGATG
1 ATATTACTTCCAATACCGCCTCGATCACCCATCACACAAATTGTAGCAACCCTGGTAAGCTGATG
687125 GTAGAGAACGGTGATTCTCTACATATTCATATGGTTGGCAAGGTTGAACTACATGATTTATCACA
66 GTAGAGAACGGTGATTCTCTACATATTCATATGGTTGGCAAGGTTGAACTACATGATTTATCACA
687190 TACTTTTTCTTTAACACCATCCATGTTCCCTCT
131 TACTTTTTCTTTAACACCATCCATGTTCCCTCT
* *
687223 ATATTACTTCCAATGCCGCCTCGATCACCCATCACACAAATTGTAGCAACCCTGGTAAGTTGATG
1 ATATTACTTCCAATACCGCCTCGATCACCCATCACACAAATTGTAGCAACCCTGGTAAGCTGATG
687288 GTAGAGAACGGTGATTCTCTACATATTCATATGGTTGGCAAGGTTGAACTACATGATTTATCACA
66 GTAGAGAACGGTGATTCTCTACATATTCATATGGTTGGCAAGGTTGAACTACATGATTTATCACA
*
687353 TACTTTTTCTTTAACATCATCCATGT
131 TACTTTTTCTTTAACACCATCCATGT
687379 CTTACCAAGG
Statistics
Matches: 150, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
163 150 1.00
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (163 bp):
ATATTACTTCCAATACCGCCTCGATCACCCATCACACAAATTGTAGCAACCCTGGTAAGCTGATG
GTAGAGAACGGTGATTCTCTACATATTCATATGGTTGGCAAGGTTGAACTACATGATTTATCACA
TACTTTTTCTTTAACACCATCCATGTTCCCTCT
Found at i:692699 original size:9 final size:10
Alignment explanation
Indices: 692661--692715 Score: 53
Period size: 9 Copynumber: 5.7 Consensus size: 10
692651 ATAACTGGAA
*
692661 AACCGATTT-
1 AACCGGTTTG
692670 AACCGGTTTTG
1 AACCGG-TTTG
*
692681 AACTGGTTTG
1 AACCGGTTTG
692691 -ACCGGTTTG
1 AACCGGTTTG
*
692700 AACCAGTTTG
1 AACCGGTTTG
692710 -ACCGGT
1 AACCGGT
692716 CTAAACCGAC
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
9 18 0.47
10 15 0.39
11 5 0.13
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (10 bp):
AACCGGTTTG
Found at i:692701 original size:19 final size:19
Alignment explanation
Indices: 692671--692715 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
692661 AACCGATTTA
**
692671 ACCGGTTTTGAACTGGTTTG
1 ACCGG-TTTGAACCAGTTTG
692691 ACCGGTTTGAACCAGTTTG
1 ACCGGTTTGAACCAGTTTG
692710 ACCGGT
1 ACCGGT
692716 CTAAACCGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 18 0.78
20 5 0.22
ACGTcount: A:0.18, C:0.20, G:0.29, T:0.33
Consensus pattern (19 bp):
ACCGGTTTGAACCAGTTTG
Found at i:692722 original size:19 final size:19
Alignment explanation
Indices: 692686--692722 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
692676 TTTTGAACTG
* *
692686 GTTTGACCGGTTTGAACCA
1 GTTTGACCGGTCTAAACCA
692705 GTTTGACCGGTCTAAACC
1 GTTTGACCGGTCTAAACC
692723 GACCCGACTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.30
Consensus pattern (19 bp):
GTTTGACCGGTCTAAACCA
Found at i:692745 original size:17 final size:17
Alignment explanation
Indices: 692745--692813 Score: 75
Period size: 17 Copynumber: 3.8 Consensus size: 17
692735 CCATTGACCC
*
692745 GACCCGACTCGACCATT
1 GACCCGACCCGACCATT
692762 GACCCGACCCGACCCAACTGTT
1 GACCCGACCCGA-CC-A---TT
*
692784 GACCCGACCCGACCGTT
1 GACCCGACCCGACCATT
692801 GACCCGACCCGAC
1 GACCCGACCCGAC
692814 TGTTGACCAT
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
17 26 0.58
18 2 0.04
19 1 0.02
21 2 0.04
22 14 0.31
ACGTcount: A:0.22, C:0.46, G:0.20, T:0.12
Consensus pattern (17 bp):
GACCCGACCCGACCATT
Found at i:692746 original size:22 final size:22
Alignment explanation
Indices: 692721--692828 Score: 118
Period size: 22 Copynumber: 5.0 Consensus size: 22
692711 CCGGTCTAAA
692721 CCGACCCGACTCGACCATTGAC
1 CCGACCCGACTCGACCATTGAC
692743 CCGACCCGACTCGACCATTGAC
1 CCGACCCGACTCGACCATTGAC
* * **
692765 CCGACCCGACCCAACTGTTGAC
1 CCGACCCGACTCGACCATTGAC
692787 CCGACCCGAC-CG----TTGAC
1 CCGACCCGACTCGACCATTGAC
*
692804 CCGACCCGACTGTTGACCATTGAC
1 CCGACCCGAC--TCGACCATTGAC
692828 C
1 C
692829 GTTAACCGTT
Statistics
Matches: 73, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
17 15 0.21
20 1 0.01
21 1 0.01
22 50 0.68
24 6 0.08
ACGTcount: A:0.21, C:0.44, G:0.19, T:0.15
Consensus pattern (22 bp):
CCGACCCGACTCGACCATTGAC
Found at i:692818 original size:17 final size:17
Alignment explanation
Indices: 692767--692821 Score: 92
Period size: 17 Copynumber: 3.2 Consensus size: 17
692757 CCATTGACCC
*
692767 GACCCGACCCAACTGTT
1 GACCCGACCCGACTGTT
*
692784 GACCCGACCCGACCGTT
1 GACCCGACCCGACTGTT
692801 GACCCGACCCGACTGTT
1 GACCCGACCCGACTGTT
692818 GACC
1 GACC
692822 ATTGACCGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 35 1.00
ACGTcount: A:0.20, C:0.44, G:0.22, T:0.15
Consensus pattern (17 bp):
GACCCGACCCGACTGTT
Found at i:693322 original size:42 final size:42
Alignment explanation
Indices: 693254--693602 Score: 506
Period size: 42 Copynumber: 8.3 Consensus size: 42
693244 GGATCAATTA
693254 GGTAAGCCTTACAGTTTACCAGGTCCCTTTGCTGTGTGCAAG
1 GGTAAGCCTTACAGTTTACCAGGTCCCTTTGCTGTGTGCAAG
* * * *
693296 GGTAAGCCTTACAGTTTCCCAAGTCCCTTTGTTATGTGCGAA-
1 GGTAAGCCTTACAGTTTACCAGGTCCCTTTGCTGTGTGC-AAG
* *
693338 GGTAAGCCTTACAGTTTATCAGGTCCTTTTGCTGTGTGCAAG
1 GGTAAGCCTTACAGTTTACCAGGTCCCTTTGCTGTGTGCAAG
* ** *
693380 GGTAAGCCTTACAGTTTCCCAATTCCCTTTACTGTGTGCGAA-
1 GGTAAGCCTTACAGTTTACCAGGTCCCTTTGCTGTGTGC-AAG
*
693422 GGTAAGCCTTACAGTTTACCAAGTCCCTTTGCTGTGTGCAAG
1 GGTAAGCCTTACAGTTTACCAGGTCCCTTTGCTGTGTGCAAG
* *
693464 GGTAAGCCTTACAGTTTCCCATGTCCCTTTGCTGTGTGCGAA-
1 GGTAAGCCTTACAGTTTACCAGGTCCCTTTGCTGTGTGC-AAG
693506 GGTAAGCCTTACAGTTTACCAGGTCCCTTTGCTGTGTGCAAG
1 GGTAAGCCTTACAGTTTACCAGGTCCCTTTGCTGTGTGCAAG
*
693548 GGTAAGCCTTACAGTTTCCCAGGTCCCTTTGCTGTGTGCAAG
1 GGTAAGCCTTACAGTTTACCAGGTCCCTTTGCTGTGTGCAAG
* *
693590 GATAAACCTTACA
1 GGTAAGCCTTACA
693603 CTTTTTCCTA
Statistics
Matches: 275, Mismatches: 26, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
41 6 0.02
42 263 0.96
43 6 0.02
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (42 bp):
GGTAAGCCTTACAGTTTACCAGGTCCCTTTGCTGTGTGCAAG
Found at i:693394 original size:84 final size:84
Alignment explanation
Indices: 693253--693602 Score: 594
Period size: 84 Copynumber: 4.2 Consensus size: 84
693243 AGGATCAATT
693253 AGGTAAGCCTTACAGTTTACCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAA
1 AGGTAAGCCTTACAGTTTACCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAA
* *
693318 GTCCCTTTGTTATGTGCGA
66 GTCCCTTTGCTGTGTGCGA
* *
693337 AGGTAAGCCTTACAGTTTATCAGGTCCTTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAA
1 AGGTAAGCCTTACAGTTTACCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAA
* *
693402 TTCCCTTTACTGTGTGCGA
66 GTCCCTTTGCTGTGTGCGA
* *
693421 AGGTAAGCCTTACAGTTTACCAAGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAT
1 AGGTAAGCCTTACAGTTTACCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAA
693486 GTCCCTTTGCTGTGTGCGA
66 GTCCCTTTGCTGTGTGCGA
*
693505 AGGTAAGCCTTACAGTTTACCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAG
1 AGGTAAGCCTTACAGTTTACCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAA
693570 GTCCCTTTGCTGTGTGC-A
66 GTCCCTTTGCTGTGTGCGA
*
693588 AGGATAAACCTTACA
1 AGG-TAAGCCTTACA
693603 CTTTTTCCTA
Statistics
Matches: 250, Mismatches: 15, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
83 4 0.02
84 246 0.98
ACGTcount: A:0.21, C:0.24, G:0.23, T:0.32
Consensus pattern (84 bp):
AGGTAAGCCTTACAGTTTACCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAA
GTCCCTTTGCTGTGTGCGA
Found at i:695429 original size:12 final size:12
Alignment explanation
Indices: 695412--695436 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
695402 AGTTCAGACG
695412 CCAGCTCGTACT
1 CCAGCTCGTACT
695424 CCAGCTCGTACT
1 CCAGCTCGTACT
695436 C
1 C
695437 AGAGTACTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.44, G:0.16, T:0.24
Consensus pattern (12 bp):
CCAGCTCGTACT
Found at i:699746 original size:10 final size:10
Alignment explanation
Indices: 699731--699768 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
699721 TTTAACCAGT
699731 TTTGAACCGG
1 TTTGAACCGG
*
699741 TTTGAACCAG
1 TTTGAACCGG
699751 TTTG-ACCGG
1 TTTGAACCGG
*
699760 TCTGAACCG
1 TTTGAACCG
699769 ACCCGACCCG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
9 7 0.29
10 17 0.71
ACGTcount: A:0.21, C:0.24, G:0.26, T:0.29
Consensus pattern (10 bp):
TTTGAACCGG
Found at i:699760 original size:19 final size:21
Alignment explanation
Indices: 699724--699767 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 21
699714 AAACCGATTT
*
699724 AACCAGTTTTGAACCGGTTTG
1 AACCAGTTTTGAACCGGTCTG
699745 AACCAG-TTTG-ACCGGTCTG
1 AACCAGTTTTGAACCGGTCTG
699764 AACC
1 AACC
699768 GACCCGACCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 12 0.55
20 4 0.18
21 6 0.27
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (21 bp):
AACCAGTTTTGAACCGGTCTG
Found at i:699776 original size:5 final size:5
Alignment explanation
Indices: 699766--699841 Score: 53
Period size: 5 Copynumber: 14.0 Consensus size: 5
699756 CCGGTCTGAA
** * *
699766 CCGAC CCGAC CCGAC TGTTGAC CTGAC CCGAC CCGAC CGTTGAC CCGAC
1 CCGAC CCGAC CCGAC --CCGAC CCGAC CCGAC CCGAC C--CGAC CCGAC
*
699815 CCGAC CGTTGAC CCGAC CCGAC CCGAC
1 CCGAC C--CGAC CCGAC CCGAC CCGAC
699842 TGTTAACCAT
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
5 46 0.81
7 11 0.19
ACGTcount: A:0.18, C:0.49, G:0.22, T:0.11
Consensus pattern (5 bp):
CCGAC
Found at i:699793 original size:22 final size:22
Alignment explanation
Indices: 699768--699841 Score: 95
Period size: 22 Copynumber: 3.6 Consensus size: 22
699758 GGTCTGAACC
*
699768 GACCCGACCCGACTGTTGACCT
1 GACCCGACCCGACCGTTGACCT
699790 GACCCGACCCGACCG-T----T
1 GACCCGACCCGACCGTTGACCT
*
699807 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCT
699829 GACCCGACCCGAC
1 GACCCGACCCGAC
699842 TGTTAACCAT
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
17 16 0.36
18 1 0.02
21 1 0.02
22 27 0.60
ACGTcount: A:0.19, C:0.47, G:0.23, T:0.11
Consensus pattern (22 bp):
GACCCGACCCGACCGTTGACCT
Found at i:699809 original size:17 final size:17
Alignment explanation
Indices: 699789--699837 Score: 98
Period size: 17 Copynumber: 2.9 Consensus size: 17
699779 ACTGTTGACC
699789 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
699806 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
699823 TGACCCGACCCGACC
1 TGACCCGACCCGACC
699838 CGACTGTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.18, C:0.49, G:0.22, T:0.10
Consensus pattern (17 bp):
TGACCCGACCCGACCGT
Found at i:700818 original size:42 final size:42
Alignment explanation
Indices: 700759--701260 Score: 809
Period size: 42 Copynumber: 12.0 Consensus size: 42
700749 GAAGTATTAT
*
700759 CAGGTCCCTTTGCTGTGTGCGAA-GTTAAGCCTTACAGTTTCC
1 CAGGTCCCTTTGCTGTGTGC-AAGGGTAAGCCTTACAGTTTCC
* *
700801 CAGGTCCCTTTGTTGTGTGCGAA-GGTAAGCCTTACAGTTTAC
1 CAGGTCCCTTTGCTGTGTGC-AAGGGTAAGCCTTACAGTTTCC
700843 CAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCC
1 CAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCC
*
700885 CAGGTCCCTTTGCTGTGTGCGAA-GGTAAGCCTTACAGTTTAC
1 CAGGTCCCTTTGCTGTGTGC-AAGGGTAAGCCTTACAGTTTCC
700927 CAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCC
1 CAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCC
*
700969 CAGGTCCCTTTGCTGTGTGCGAA-GGTAAGCCTTACAGTTTAC
1 CAGGTCCCTTTGCTGTGTGC-AAGGGTAAGCCTTACAGTTTCC
701011 CAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCC
1 CAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCC
* *
701053 CAGGTCCCTTTGCTGTGTGCGAA-GGTAAGCCTTACGGTTTAC
1 CAGGTCCCTTTGCTGTGTGC-AAGGGTAAGCCTTACAGTTTCC
701095 CAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCC
1 CAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCC
*
701137 CAGGTCCCTTTGCTGTGTGCGAA-GGTAAGCCTTACAGTTTAC
1 CAGGTCCCTTTGCTGTGTGC-AAGGGTAAGCCTTACAGTTTCC
*
701179 CAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCA
1 CAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCC
* *
701221 CAGGTCCCTTTGCTGTGTGCAAGGATAAACCTTACAGTTT
1 CAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTT
701261 TCCTAGGCTC
Statistics
Matches: 433, Mismatches: 18, Indels: 18
0.92 0.04 0.04
Matches are distributed among these distances:
41 10 0.02
42 415 0.96
43 8 0.02
ACGTcount: A:0.18, C:0.25, G:0.26, T:0.31
Consensus pattern (42 bp):
CAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCC
Found at i:700902 original size:84 final size:84
Alignment explanation
Indices: 700759--701260 Score: 927
Period size: 84 Copynumber: 6.0 Consensus size: 84
700749 GAAGTATTAT
* *
700759 CAGGTCCCTTTGCTGTGTGCGAA-GTTAAGCCTTACAGTTTCCCAGGTCCCTTTGTTGTGTGCGA
1 CAGGTCCCTTTGCTGTGTGC-AAGGGTAAGCCTTACAGTTTCCCAGGTCCCTTTGCTGTGTGCGA
700823 AGGTAAGCCTTACAGTTTAC
65 AGGTAAGCCTTACAGTTTAC
700843 CAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTCCCTTTGCTGTGTGCGAA
1 CAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTCCCTTTGCTGTGTGCGAA
700908 GGTAAGCCTTACAGTTTAC
66 GGTAAGCCTTACAGTTTAC
700927 CAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTCCCTTTGCTGTGTGCGAA
1 CAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTCCCTTTGCTGTGTGCGAA
700992 GGTAAGCCTTACAGTTTAC
66 GGTAAGCCTTACAGTTTAC
701011 CAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTCCCTTTGCTGTGTGCGAA
1 CAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTCCCTTTGCTGTGTGCGAA
*
701076 GGTAAGCCTTACGGTTTAC
66 GGTAAGCCTTACAGTTTAC
701095 CAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTCCCTTTGCTGTGTGCGAA
1 CAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTCCCTTTGCTGTGTGCGAA
701160 GGTAAGCCTTACAGTTTAC
66 GGTAAGCCTTACAGTTTAC
*
701179 CAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCACAGGTCCCTTTGCTGTGTGC-AA
1 CAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTCCCTTTGCTGTGTGCGAA
*
701243 GGATAAACCTTACAGTTT
66 GG-TAAGCCTTACAGTTT
701261 TCCTAGGCTC
Statistics
Matches: 410, Mismatches: 6, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
83 6 0.01
84 404 0.99
ACGTcount: A:0.18, C:0.25, G:0.26, T:0.31
Consensus pattern (84 bp):
CAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTCCCTTTGCTGTGTGCGAA
GGTAAGCCTTACAGTTTAC
Found at i:704464 original size:30 final size:29
Alignment explanation
Indices: 704398--704486 Score: 144
Period size: 29 Copynumber: 3.1 Consensus size: 29
704388 AATGTAAACA
*
704398 CCATTTTTTCAACACCAACACCTATCACC
1 CCATTTTTTCAACACCAACACCCATCACC
*
704427 CCATTTTTTCAACACCAACACCCATCATC
1 CCATTTTTTCAACACCAACACCCATCACC
704456 CCATTTTTTTCAACACCAAC-CCCATCACC
1 CCA-TTTTTTCAACACCAACACCCATCACC
704485 CC
1 CC
704487 TTGTTCCCTG
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
29 40 0.71
30 16 0.29
ACGTcount: A:0.29, C:0.44, G:0.00, T:0.27
Consensus pattern (29 bp):
CCATTTTTTCAACACCAACACCCATCACC
Found at i:719928 original size:17 final size:17
Alignment explanation
Indices: 719893--719927 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
719883 AAGACCAGAA
719893 TTCTTTTTCTTTTTCTT
1 TTCTTTTTCTTTTTCTT
*
719910 TTCTTTTT-TTTTTATT
1 TTCTTTTTCTTTTTCTT
719926 TT
1 TT
719928 TTTAATTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.86
Consensus pattern (17 bp):
TTCTTTTTCTTTTTCTT
Found at i:719929 original size:11 final size:11
Alignment explanation
Indices: 719896--719930 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
719886 ACCAGAATTC
719896 TTTTTCTTTTT
1 TTTTTCTTTTT
*
719907 CTTTTCTTTTT
1 TTTTTCTTTTT
*
719918 TTTTTATTTTT
1 TTTTTCTTTTT
719929 TT
1 TT
719931 AATTTTCGGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.03, C:0.09, G:0.00, T:0.89
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:726847 original size:44 final size:44
Alignment explanation
Indices: 726738--727517 Score: 390
Period size: 44 Copynumber: 17.7 Consensus size: 44
726728 AACTTTTTGC
* * * * *
726738 TCGATTCTATCACAGAAGGAGGTTGATCAGCATCGAC-TTTTGC
1 TCGATTCCATCACAGAAGGAGGTGGATCAGCATCGACATCTCGT
* * *
726781 TCGATTCTATCACAGAAGGAGGTAGATCAGCATCTACATCTCGT
1 TCGATTCCATCACAGAAGGAGGTGGATCAGCATCGACATCTCGT
* * **** * *
726825 TCGATTCCATCACAGAAAGAGGTGGATC-GATATTTTTATTTTCGC
1 TCGATTCCATCACAGAAGGAGGTGGATCAG-CATCGACA-TCTCGT
* * * * * * * * * *
726870 TCAAATCCATCGCAGAAGGAGTTGGATCAGCGTCAACTTTTAGC
1 TCGATTCCATCACAGAAGGAGGTGGATCAGCATCGACATCTCGT
* *
726914 TCGATTCTATCACAGAAGGAGGTAGATCAGCATCGACATCTCGT
1 TCGATTCCATCACAGAAGGAGGTGGATCAGCATCGACATCTCGT
* * **** * *
726958 TCGATTCCATCACAAAAAGAGGTGGATCTA-CATTTTTATTTCGG
1 TCGATTCCATCACAGAAGGAGGTGGATC-AGCATCGACATCTCGT
* * * * * * * * **
727002 TCAAATCCATCGCAGAAGGAGTTGGATCAACGTCAAC-TTTTTT
1 TCGATTCCATCACAGAAGGAGGTGGATCAGCATCGACATCTCGT
* * *
727045 CTCGATTCTATCACAGAATGAGGTAGATCAGCATCGACATCTCGT
1 -TCGATTCCATCACAGAAGGAGGTGGATCAGCATCGACATCTCGT
* **** *
727090 TCGATTCCATCACAAAAGGAGGTGGATC-GACATTTTTATCTTCGC
1 TCGATTCCATCACAGAAGGAGGTGGATCAG-CATCGACATC-TCGT
* * * * * * * * *
727135 TCAAATCCATCGCAGAAGGAGTTGGATCAGCGTCAACTTTTTGCT
1 TCGATTCCATCACAGAAGGAGGTGGATCAGCATCGACATCTCG-T
* * * *
727180 T-GATTCTATCACAGAATGAGGTAGATCGGCATCGACATCTCGT
1 TCGATTCCATCACAGAAGGAGGTGGATCAGCATCGACATCTCGT
* * **** *
727223 TCGATTCCATCACAAAAGGAGATGGATC-GACATTTTTATCTTCGC
1 TCGATTCCATCACAGAAGGAGGTGGATCAG-CATCGACATC-TCGT
* * *** * * * * * * * *
727268 TCAAATCCATTGTAGAATGAGTTGGATCAGCGTCAACTTTTTGC
1 TCGATTCCATCACAGAAGGAGGTGGATCAGCATCGACATCTCGT
* * *
727312 TCGATTCTATCACAGAATGAGGTAGATCAGCATCGACATCTCGT
1 TCGATTCCATCACAGAAGGAGGTGGATCAGCATCGACATCTCGT
* **** *
727356 TCGATTCCATCACAAAAGGAGGTGGATC-GACATTTTTATCTTCGC
1 TCGATTCCATCACAGAAGGAGGTGGATCAG-CATCGACATC-TCGT
* * * * * * * * *
727401 TCAAATCCATCGCAGAAGGAGTTGGATCAGCGTCAACTTTTTGCT
1 TCGATTCCATCACAGAAGGAGGTGGATCAGCATCGACATCTCG-T
* * *
727446 T-GATTCTATCACAGAAGGAGGTAGATCTGCATCGACATCTCGT
1 TCGATTCCATCACAGAAGGAGGTGGATCAGCATCGACATCTCGT
* *
727489 TTGATTCCATCACAAAAGGAGGTGGATCA
1 TCGATTCCATCACAGAAGGAGGTGGATCA
727518 ACATTTTTAT
Statistics
Matches: 525, Mismatches: 191, Indels: 41
0.69 0.25 0.05
Matches are distributed among these distances:
43 47 0.09
44 356 0.68
45 118 0.22
46 4 0.01
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.29
Consensus pattern (44 bp):
TCGATTCCATCACAGAAGGAGGTGGATCAGCATCGACATCTCGT
Found at i:726993 original size:133 final size:133
Alignment explanation
Indices: 726750--727598 Score: 1418
Period size: 133 Copynumber: 6.4 Consensus size: 133
726740 GATTCTATCA
* *
726750 CAGAAGGAGGTT-GATCAGCATCGAC-TTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAGCA
1 CAGAAGGA-GTTGGATCAGCGTCAACTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAGCA
* * *
726813 TCTACATCTCGTTCGATTCCATCACAGAAA-GAGGTGGATCGATATTTTTATTTTCGCTCAAATC
65 TCGACATCTCGTTCGATTCCATCACA-AAAGGAGGTGGATCGACATTTTTATCTTCGCTCAAATC
726877 CATCG
129 CATCG
*
726882 CAGAAGGAGTTGGATCAGCGTCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAGCAT
1 CAGAAGGAGTTGGATCAGCGTCAACTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAGCAT
* * *
726947 CGACATCTCGTTCGATTCCATCACAAAAAGAGGTGGATCTACATTTTTAT-TTCGGTCAAATCCA
66 CGACATCTCGTTCGATTCCATCACAAAAGGAGGTGGATCGACATTTTTATCTTCGCTCAAATCCA
727011 TCG
131 TCG
* * *
727014 CAGAAGGAGTTGGATCAACGTCAACTTTTTTCTCGATTCTATCACAGAATGAGGTAGATCAGCAT
1 CAGAAGGAGTTGGATCAGCGTCAACTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAGCAT
727079 CGACATCTCGTTCGATTCCATCACAAAAGGAGGTGGATCGACATTTTTATCTTCGCTCAAATCCA
66 CGACATCTCGTTCGATTCCATCACAAAAGGAGGTGGATCGACATTTTTATCTTCGCTCAAATCCA
727144 TCG
131 TCG
* * *
727147 CAGAAGGAGTTGGATCAGCGTCAACTTTTTGCTTGATTCTATCACAGAATGAGGTAGATCGGCAT
1 CAGAAGGAGTTGGATCAGCGTCAACTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAGCAT
*
727212 CGACATCTCGTTCGATTCCATCACAAAAGGAGATGGATCGACATTTTTATCTTCGCTCAAATCCA
66 CGACATCTCGTTCGATTCCATCACAAAAGGAGGTGGATCGACATTTTTATCTTCGCTCAAATCCA
*
727277 TTG
131 TCG
* * *
727280 TAGAATGAGTTGGATCAGCGTCAACTTTTTGCTCGATTCTATCACAGAATGAGGTAGATCAGCAT
1 CAGAAGGAGTTGGATCAGCGTCAACTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAGCAT
727345 CGACATCTCGTTCGATTCCATCACAAAAGGAGGTGGATCGACATTTTTATCTTCGCTCAAATCCA
66 CGACATCTCGTTCGATTCCATCACAAAAGGAGGTGGATCGACATTTTTATCTTCGCTCAAATCCA
727410 TCG
131 TCG
* *
727413 CAGAAGGAGTTGGATCAGCGTCAACTTTTTGCTTGATTCTATCACAGAAGGAGGTAGATCTGCAT
1 CAGAAGGAGTTGGATCAGCGTCAACTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAGCAT
* * *
727478 CGACATCTCGTTTGATTCCATCACAAAAGGAGGTGGATCAACATTTTTATCTTCGGTCAAATCCA
66 CGACATCTCGTTCGATTCCATCACAAAAGGAGGTGGATCGACATTTTTATCTTCGCTCAAATCCA
727543 TCG
131 TCG
*
727546 CAGAAGGAGTTGGATCAGAGTCAACTTTTTGCTCGATTCTATCACAGAAGGAG
1 CAGAAGGAGTTGGATCAGCGTCAACTTTTTGCTCGATTCTATCACAGAAGGAG
727599 AAGGAGTTGG
Statistics
Matches: 677, Mismatches: 36, Indels: 7
0.94 0.05 0.01
Matches are distributed among these distances:
131 3 0.00
132 147 0.22
133 527 0.78
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.29
Consensus pattern (133 bp):
CAGAAGGAGTTGGATCAGCGTCAACTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAGCAT
CGACATCTCGTTCGATTCCATCACAAAAGGAGGTGGATCGACATTTTTATCTTCGCTCAAATCCA
TCG
Found at i:727076 original size:176 final size:176
Alignment explanation
Indices: 726726--727648 Score: 405
Period size: 177 Copynumber: 5.2 Consensus size: 176
726716 AAGAGATTGT
* * * * *
726726 TCAACTTTTTGCTCGATTCTATCACAGAAGGAGGTTGATCAGCATCGACTTTTGCTCGATTCTAT
1 TCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGACTCTCGCTCGATTCCAT
* * * * *
726791 CACAGAAGGAGGTAGATCAGCATCTACATCTCGTTCGATTCCATCACAGAAAGAGGTGGATCGAT
66 CACAAAAAGAGGTAGATCAGCATCTACATCTCGGTCAAATCCATCACAGAAAGAGGTGGATCGAT
** ** * * * *
726856 ATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCG
131 ACGTCAATTTTCGCTCAAATCCATCACAGAAGGAGGTAGATCAGCA
*
726902 TCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGACATCTCGTTCGATTCCA
1 TCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGAC-TCTCGCTCGATTCCA
* * ** * * * *
726967 TCACAAAAAGAGGTGGATCTA-CATTTTTATTTCGGTCAAATCCATCGCAGAAGGAGTTGGATC-
65 TCACAAAAAGAGGTAGATC-AGCATCTACATCTCGGTCAAATCCATCACAGAAAGAGGTGGATCG
** * * * *
727030 A-ACGTCAACTTTTTTCTCGATTCTATCACAGAATGAGGTAGATCAGCA
129 ATACGTCAA-TTTTCGCTCAAATCCATCACAGAAGGAGGTAGATCAGCA
* * * * * * * * ** * *
727078 TCGACATCTCGTTCGATTCCATCACAAAAGGAGGTGGATC-GACATTTTTA-TCTTCGCTCAAAT
1 TCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAG-CA--TCGACTC-TCGCTCGATT
* * * * * * * * * * * ** * * * *
727141 CCATCGCAGAAGGAGTTGGATCAGCGTCAACTTTTTGCTTGATTCTATCACAGAATGAGGTAGAT
62 CCATCACAAAAAGAGGTAGATCAGCATCTACATCTCGGTCAAATCCATCACAGAAAGAGGTGGAT
* * * * * * * *
727206 CGGCAT-CGAC-A-TCTCGTTCGATTCCATCACAAAAGGAGATGGATC-GACA
127 C-G-ATACGTCAATTTTCGCTCAAATCCATCACAGAAGGAGGTAGATCAG-CA
** * * * * * *** * * * * * * *
727255 TTTTTA-TCTTCGCTCAAATCCATTGTAGAATGAGTTGGATCAGCGTCAACTTTTTGCTCGATTC
1 --TCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGAC-TCTCGCTCGATTC
* * * * * * *
727319 TATCACAGAATGAGGTAGATCAGCATCGACATCTCGTTCGATTCCATCACA-AAAGGAGGTGGAT
63 CATCACAAAAAGAGGTAGATCAGCATCTACATCTCGGTCAAATCCATCACAGAAA-GAGGTGGAT
* ** ** * * * * *
727383 CGACATTTTTATCTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCG
127 CGATACGTCAATTTTCGCTCAAATCCATCACAGAAGGAGGTAGATCAGCA
* * * * *
727433 TCAACTTTTTGCTTGATTCTATCACAGAAGGAGGTAGATCTGCATCGACATCTCGTTTGATTCCA
1 TCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGAC-TCTCGCTCGATTCCA
* * * * ** * * *
727498 TCACAAAAGGAGGTGGATCAACATTTTTATCTTCGGTCAAATCCATCGCAGAAGGAGTTGGATC-
65 TCACAAAAAGAGGTAGATCAGCATCTACATC-TCGGTCAAATCCATCACAGAAAGAGGTGGATCG
* * * * * * *
727562 AGA-GTCAACTTTTTGCTCGATTCTATCACAGAAGGAGAAGGAGTTGGATCAGCG
129 ATACGTCAA-TTTTCGCTCAAATCCATCACAGAA-G-G-A-G-G-TAGATCAGCA
* *
727616 TCAACTTTTTGCTCGATTCTATCACAGGAGGAG
1 TCAACTTTTAGCTCGATTCTATCACAGAAGGAG
727649 TTGGATCGAC
Statistics
Matches: 538, Mismatches: 176, Indels: 59
0.70 0.23 0.08
Matches are distributed among these distances:
175 5 0.01
176 124 0.23
177 275 0.51
178 79 0.15
179 8 0.01
180 5 0.01
181 1 0.00
183 41 0.08
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (176 bp):
TCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGACTCTCGCTCGATTCCAT
CACAAAAAGAGGTAGATCAGCATCTACATCTCGGTCAAATCCATCACAGAAAGAGGTGGATCGAT
ACGTCAATTTTCGCTCAAATCCATCACAGAAGGAGGTAGATCAGCA
Found at i:727191 original size:89 final size:89
Alignment explanation
Indices: 726827--727472 Score: 250
Period size: 89 Copynumber: 7.3 Consensus size: 89
726817 CATCTCGTTC
* * * *
726827 GATTCCATCACAGAAAGAGGTGGATCGATATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGT
1 GATTCCATCACAGAAGGAGGTGGATCGACATTTTTATCTTCGCTCAAATCCATCACAGAAGGAGT
* *
726892 TGGATCAGCGTCAACTTTTAGCTC
66 TGGATCAGCGTCAACTTTTTGCTT
* * **** * * * * *
726916 GATTCTATCACAGAAGGAGGTAGATC-AGCATCGACATC-TCGTTCGATTCCATCACAAAAAGAG
1 GATTCCATCACAGAAGGAGGTGGATCGA-CATTTTTATCTTCGCTCAAATCCATCACAGAAGGAG
* * ** * *
726979 GTGGATCTA-CAT--TTTTATTTCGGTC
65 TTGGATC-AGCGTCAACTT-TTT-GCTT
* * * * * ** * * * *
727004 AAATCCATCGCAGAAGGAGTTGGATCAACGTCAACTTT-T-TT--CTCGATTCTATCACAGAATG
1 GATTCCATCACAGAAGGAGGTGGAT---CGACATTTTTATCTTCGCTCAAATCCATCACAGAAGG
* * * * * * *
727065 AGGTAGATCAGCATCGACATCTCG-TT
63 AGTTGGATCAGCGTCAACTTTTTGCTT
* *
727091 CGATTCCATCACAAAAGGAGGTGGATCGACATTTTTATCTTCGCTCAAATCCATCGCAGAAGGAG
1 -GATTCCATCACAGAAGGAGGTGGATCGACATTTTTATCTTCGCTCAAATCCATCACAGAAGGAG
727156 TTGGATCAGCGTCAACTTTTTGCTT
65 TTGGATCAGCGTCAACTTTTTGCTT
* * * * **** * * * * *
727181 GATTCTATCACAGAATGAGGTAGATCGGCATCGACATC-TCGTTCGATTCCATCACAAAAGGAGA
1 GATTCCATCACAGAAGGAGGTGGATCGACATTTTTATCTTCGCTCAAATCCATCACAGAAGGAGT
* ** *
727245 TGGAT---CGACATTTTTATCTTCGCTC
66 TGGATCAGCGTCA-ACTT-T-TT-GCTT
* * *** * * * ** * * * *
727270 AAATCCATTGTAGAATGAGTTGGATC-AGCGTCAACTT-T-TT-GCTCGATTCTATCACAGAATG
1 GATTCCATCACAGAAGGAGGTGGATCGA-CAT--TTTTATCTTCGCTCAAATCCATCACAGAAGG
* * * * * * *
727331 AGGTAGATCAGCATCGACATCTCG-TT
63 AGTTGGATCAGCGTCAACTTTTTGCTT
* *
727357 CGATTCCATCACAAAAGGAGGTGGATCGACATTTTTATCTTCGCTCAAATCCATCGCAGAAGGAG
1 -GATTCCATCACAGAAGGAGGTGGATCGACATTTTTATCTTCGCTCAAATCCATCACAGAAGGAG
727422 TTGGATCAGCGTCAACTTTTTGCTT
65 TTGGATCAGCGTCAACTTTTTGCTT
* *
727447 GATTCTATCACAGAAGGAGGTAGATC
1 GATTCCATCACAGAAGGAGGTGGATC
727473 TGCATCGACA
Statistics
Matches: 385, Mismatches: 137, Indels: 70
0.65 0.23 0.12
Matches are distributed among these distances:
85 11 0.03
86 7 0.02
87 9 0.02
88 148 0.38
89 194 0.50
90 9 0.02
91 5 0.01
92 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (89 bp):
GATTCCATCACAGAAGGAGGTGGATCGACATTTTTATCTTCGCTCAAATCCATCACAGAAGGAGT
TGGATCAGCGTCAACTTTTTGCTT
Found at i:727601 original size:50 final size:50
Alignment explanation
Indices: 727547--727648 Score: 186
Period size: 50 Copynumber: 2.0 Consensus size: 50
727537 AATCCATCGC
727547 AGAAGGAGTTGGATCAGAGTCAACTTTTTGCTCGATTCTATCACAGAAGG
1 AGAAGGAGTTGGATCAGAGTCAACTTTTTGCTCGATTCTATCACAGAAGG
* *
727597 AGAAGGAGTTGGATCAGCGTCAACTTTTTGCTCGATTCTATCACAGGAGG
1 AGAAGGAGTTGGATCAGAGTCAACTTTTTGCTCGATTCTATCACAGAAGG
727647 AG
1 AG
727649 TTGGATCGAC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.27
Consensus pattern (50 bp):
AGAAGGAGTTGGATCAGAGTCAACTTTTTGCTCGATTCTATCACAGAAGG
Found at i:727891 original size:30 final size:29
Alignment explanation
Indices: 727825--727913 Score: 135
Period size: 29 Copynumber: 3.1 Consensus size: 29
727815 GCTGTAAACA
* *
727825 CCATTTTTTCAACACCAACACCTACCACC
1 CCATTTTTTCAACACCAACACCCATCACC
*
727854 CCATTTTTTCAACACCAACACCCATCATC
1 CCATTTTTTCAACACCAACACCCATCACC
727883 CCATTTTTTTCAACACCAAC-CCCATCACC
1 CCA-TTTTTTCAACACCAACACCCATCACC
727912 CC
1 CC
727914 TTGTTCCCTG
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
29 39 0.71
30 16 0.29
ACGTcount: A:0.29, C:0.45, G:0.00, T:0.26
Consensus pattern (29 bp):
CCATTTTTTCAACACCAACACCCATCACC
Found at i:729440 original size:133 final size:133
Alignment explanation
Indices: 729203--730051 Score: 1402
Period size: 133 Copynumber: 6.4 Consensus size: 133
729193 GATTCTATCA
* * * *
729203 CAGAAGGAGGTAGATCAGCATCGAC-TTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAGCAT
1 CAGAAGGAGTTGGATCAGCGTCAACTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAGCAT
729267 CGACATCTCGTTCGATTCCATCACAGAAA-GAGGTGGATCGACATTTTTATTTTCGCTCAAATCC
66 CGACATCTCGTTCGATTCCATCACA-AAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCC
729331 ATCG
130 ATCG
*
729335 CAGAAGGAGTTGGATCAGCGTCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAGCAT
1 CAGAAGGAGTTGGATCAGCGTCAACTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAGCAT
* *
729400 CGACATCTCGTTCGATTCCATCACAAAAGGAGGTGGATCGAAATTTTTA-TTTCGGTCAAATCCA
66 CGACATCTCGTTCGATTCCATCACAAAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCA
729464 TCG
131 TCG
*
729467 CAGAAGGAGTTGGATCAGCGTCAACTTTTTGCTCGATTCTATCACAGAATGAGGTAGATCAGCAT
1 CAGAAGGAGTTGGATCAGCGTCAACTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAGCAT
729532 CGACATCTCGTTCGATTCCATCACAAAAGGAGGTGGATCGACATTTTTATCTTT-GCTCAAATCC
66 CGACATCTCGTTCGATTCCATCACAAAAGGAGGTGGATCGACATTTTTAT-TTTCGCTCAAATCC
729596 ATCG
130 ATCG
* * *
729600 CAGAAGGAGTTGGATCAGCGTCAACTTTTTGCTTGATTCTATCACAGAATGAGGTAGA-CCGACA
1 CAGAAGGAGTTGGATCAGCGTCAACTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAG-CA
* *
729664 TCGACATCTCGTTCGATTTCATCACAAAAGGAGGTGGATCGACATTTTTATCTTCGCTCAAATCC
65 TCGACATCTCGTTCGATTCCATCACAAAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCC
729729 ATCG
130 ATCG
* *
729733 CAGAAGAAGTTGGATCAGCGTCAACTTTTTGCTCAATTCTATCACAGAAGGAGGTAGATCAGCAT
1 CAGAAGGAGTTGGATCAGCGTCAACTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAGCAT
* *
729798 CGACATCTCGTTCGATTCCATCACAAAAGGAGGTGGATCTACATTTTTATATTCGCTCAAATCCA
66 CGACATCTCGTTCGATTCCATCACAAAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCA
729863 TCG
131 TCG
* * * *
729866 CAGAAGGAGTTGGATCAGCGTCTACTTTTTGCTTGATTCTATCACAGAATGAGGTAGATCGGCAT
1 CAGAAGGAGTTGGATCAGCGTCAACTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAGCAT
* *
729931 CGACATCTCGTTTGATTCCATCACAAAAGGAGGTGGATCGACATTTTTATCTTCGCTCAAATCCA
66 CGACATCTCGTTCGATTCCATCACAAAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCA
729996 TCG
131 TCG
* **
729999 CAGAAGGAGTTGGATCAGAGTCAACTTTTTGCTCGATTCTATCATTGAAGGAG
1 CAGAAGGAGTTGGATCAGCGTCAACTTTTTGCTCGATTCTATCACAGAAGGAG
730052 AAGGAGTTGG
Statistics
Matches: 672, Mismatches: 38, Indels: 13
0.93 0.05 0.02
Matches are distributed among these distances:
132 156 0.23
133 511 0.76
134 5 0.01
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (133 bp):
CAGAAGGAGTTGGATCAGCGTCAACTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAGCAT
CGACATCTCGTTCGATTCCATCACAAAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCA
TCG
Found at i:729970 original size:44 final size:44
Alignment explanation
Indices: 729190--729969 Score: 433
Period size: 44 Copynumber: 17.7 Consensus size: 44
729180 CAACTTTTTC
* * * *
729190 CTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGAC-TTTTG
1 CTCGATTCCATCACAGAAGGAGGTGGATCAGCATCGACATCTCG
* *
729233 CTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGACATCTCG
1 CTCGATTCCATCACAGAAGGAGGTGGATCAGCATCGACATCTCG
* * **** *
729277 TTCGATTCCATCACAGAAAGAGGTGGATC-GACATTTTTATTTTCG
1 CTCGATTCCATCACAGAAGGAGGTGGATCAG-CATCGACA-TCTCG
* * * * * * * * *
729322 CTCAAATCCATCGCAGAAGGAGTTGGATCAGCGTCAACTTTTAG
1 CTCGATTCCATCACAGAAGGAGGTGGATCAGCATCGACATCTCG
* *
729366 CTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGACATCTCG
1 CTCGATTCCATCACAGAAGGAGGTGGATCAGCATCGACATCTCG
* * * **** *
729410 TTCGATTCCATCACAAAAGGAGGTGGATC-GAAATTTTTATTTCG
1 CTCGATTCCATCACAGAAGGAGGTGGATCAG-CATCGACATCTCG
* * * * * * * * * *
729454 GTCAAATCCATCGCAGAAGGAGTTGGATCAGCGTCAACTTTTTG
1 CTCGATTCCATCACAGAAGGAGGTGGATCAGCATCGACATCTCG
* * *
729498 CTCGATTCTATCACAGAATGAGGTAGATCAGCATCGACATCTCG
1 CTCGATTCCATCACAGAAGGAGGTGGATCAGCATCGACATCTCG
* * **** *
729542 TTCGATTCCATCACAAAAGGAGGTGGATC-GACATTTTTATCTTTG
1 CTCGATTCCATCACAGAAGGAGGTGGATCAG-CATCGACATC-TCG
* * * * * * * * *
729587 CTCAAATCCATCGCAGAAGGAGTTGGATCAGCGTCAACTTTTTG
1 CTCGATTCCATCACAGAAGGAGGTGGATCAGCATCGACATCTCG
* * * * *
729631 CTTGATTCTATCACAGAATGAGGTAGA-CCGACATCGACATCTCG
1 CTCGATTCCATCACAGAAGGAGGTGGATCAG-CATCGACATCTCG
* * * ****
729675 TTCGATTTCATCACAAAAGGAGGTGGATC-GACATTTTTATCTTCG
1 CTCGATTCCATCACAGAAGGAGGTGGATCAG-CATCGACATC-TCG
* * * * * * * * * *
729720 CTCAAATCCATCGCAGAAGAAGTTGGATCAGCGTCAACTTTTTG
1 CTCGATTCCATCACAGAAGGAGGTGGATCAGCATCGACATCTCG
* * *
729764 CTCAATTCTATCACAGAAGGAGGTAGATCAGCATCGACATCTCG
1 CTCGATTCCATCACAGAAGGAGGTGGATCAGCATCGACATCTCG
* * ** *
729808 TTCGATTCCATCACAAAAGGAGGTGGATCTA-CATTTTTATAT-TCG
1 CTCGATTCCATCACAGAAGGAGGTGGATC-AGCA--TCGACATCTCG
* * * * * * * * *
729853 CTCAAATCCATCGCAGAAGGAGTTGGATCAGCGTCTACTTTTTG
1 CTCGATTCCATCACAGAAGGAGGTGGATCAGCATCGACATCTCG
* * * * *
729897 CTTGATTCTATCACAGAATGAGGTAGATCGGCATCGACATCTCG
1 CTCGATTCCATCACAGAAGGAGGTGGATCAGCATCGACATCTCG
* * *
729941 TTTGATTCCATCACAAAAGGAGGTGGATC
1 CTCGATTCCATCACAGAAGGAGGTGGATC
729970 GACATTTTTA
Statistics
Matches: 534, Mismatches: 185, Indels: 35
0.71 0.25 0.05
Matches are distributed among these distances:
43 47 0.09
44 366 0.69
45 114 0.21
46 7 0.01
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (44 bp):
CTCGATTCCATCACAGAAGGAGGTGGATCAGCATCGACATCTCG
Found at i:730101 original size:50 final size:50
Alignment explanation
Indices: 730000--730101 Score: 168
Period size: 50 Copynumber: 2.0 Consensus size: 50
729990 AATCCATCGC
**
730000 AGAAGGAGTTGGATCAGAGTCAACTTTTTGCTCGATTCTATCATTGAAGG
1 AGAAGGAGTTGGATCAGAGTCAACTTTTTGCTCGATTCTATCACAGAAGG
* *
730050 AGAAGGAGTTGGATCAGCGTCAACTTTTTGCTCGATTCTATCACAGGAGG
1 AGAAGGAGTTGGATCAGAGTCAACTTTTTGCTCGATTCTATCACAGAAGG
730100 AG
1 AG
730102 TTGGATCGAC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.29
Consensus pattern (50 bp):
AGAAGGAGTTGGATCAGAGTCAACTTTTTGCTCGATTCTATCACAGAAGG
Found at i:730343 original size:30 final size:29
Alignment explanation
Indices: 730277--730365 Score: 135
Period size: 29 Copynumber: 3.1 Consensus size: 29
730267 GCTGTAAACA
* *
730277 CCATTTTTTCAACACCAACACCTACCACC
1 CCATTTTTTCAACACCAACACCCATCACC
*
730306 CCATTTTTTCAACACCAACACCCATCATC
1 CCATTTTTTCAACACCAACACCCATCACC
730335 CCATTTTTTTCAACACCAAC-CCCATCACC
1 CCA-TTTTTTCAACACCAACACCCATCACC
730364 CC
1 CC
730366 TTGTTCCCTG
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
29 39 0.71
30 16 0.29
ACGTcount: A:0.29, C:0.45, G:0.00, T:0.26
Consensus pattern (29 bp):
CCATTTTTTCAACACCAACACCCATCACC
Found at i:734528 original size:13 final size:13
Alignment explanation
Indices: 734510--734534 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
734500 AATCCTGACC
734510 CTAAGCAAAGTTT
1 CTAAGCAAAGTTT
734523 CTAAGCAAAGTT
1 CTAAGCAAAGTT
734535 GTGTTTCCAA
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:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (13 bp):
CTAAGCAAAGTTT
Found at i:735130 original size:4 final size:4
Alignment explanation
Indices: 735121--735166 Score: 92
Period size: 4 Copynumber: 11.5 Consensus size: 4
735111 TAACCAAACG
735121 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AA
735167 ATATTGAACA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 42 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:739751 original size:37 final size:37
Alignment explanation
Indices: 739697--739918 Score: 186
Period size: 37 Copynumber: 6.1 Consensus size: 37
739687 TTTTGGGTTG
** *
739697 TTTCTCTCGAAACAAATTTTGTATCACTTGAGATAGT
1 TTTCTCTAAAAACAAATTTTGTCTCACTTGAGATAGT
* *
739734 TTTCTCTAAAAATAAATTTTGTCTCACTTGAAATAGT
1 TTTCTCTAAAAACAAATTTTGTCTCACTTGAGATAGT
* * * * *
739771 TTTCTCTGCAAAACAAACTTAGTTTCACTT--GATAAT
1 TTTCTCT-AAAAACAAATTTTGTCTCACTTGAGATAGT
* * *
739807 TGTTTTCTAAAAACAAATTTTGTCTCGCTTGAGACAGT
1 T-TTCTCTAAAAACAAATTTTGTCTCACTTGAGATAGT
* * *
739845 TTTCTCTATAAA-AAA--TTGTCTCCCTTGAGACA-T
1 TTTCTCTAAAAACAAATTTTGTCTCACTTGAGATAGT
* * ** * *
739878 TTTCTCTTAAAACAAATATCATCTCGCTTGAGATATT
1 TTTCTCTAAAAACAAATTTTGTCTCACTTGAGATAGT
739915 TTTC
1 TTTC
739919 CTTGGAGATG
Statistics
Matches: 148, Mismatches: 29, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
33 11 0.07
34 19 0.13
36 38 0.26
37 58 0.39
38 22 0.15
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.41
Consensus pattern (37 bp):
TTTCTCTAAAAACAAATTTTGTCTCACTTGAGATAGT
Found at i:739872 original size:34 final size:32
Alignment explanation
Indices: 739826--739889 Score: 101
Period size: 34 Copynumber: 1.9 Consensus size: 32
739816 AAAACAAATT
*
739826 TTGTCTCGCTTGAGACAGTTTTCTCTATAAAAAA
1 TTGTCTCCCTTGAGACA-TTTTCTCT-TAAAAAA
739860 TTGTCTCCCTTGAGACATTTTCTCTTAAAA
1 TTGTCTCCCTTGAGACATTTTCTCTTAAAA
739890 CAAATATCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 5 0.17
33 8 0.28
34 16 0.55
ACGTcount: A:0.27, C:0.20, G:0.12, T:0.41
Consensus pattern (32 bp):
TTGTCTCCCTTGAGACATTTTCTCTTAAAAAA
Found at i:739916 original size:36 final size:33
Alignment explanation
Indices: 739829--739916 Score: 97
Period size: 34 Copynumber: 2.5 Consensus size: 33
739819 ACAAATTTTG
*
739829 TCTCGCTTGAGACAGTTTTCTCTATAAAAAATTG
1 TCTCGCTTGAGACA-TTTTCTCTATAAAAAATTA
*
739863 TCTCCCTTGAGACATTTTCTCT-TAAAACAAATATCA
1 TCTCGCTTGAGACATTTTCTCTAT-AAA-AAAT-T-A
*
739899 TCTCGCTTGAGATATTTT
1 TCTCGCTTGAGACATTTT
739917 TCCTTGGAGA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
32 1 0.02
33 11 0.24
34 17 0.37
35 1 0.02
36 16 0.35
ACGTcount: A:0.28, C:0.20, G:0.11, T:0.40
Consensus pattern (33 bp):
TCTCGCTTGAGACATTTTCTCTATAAAAAATTA
Found at i:740279 original size:36 final size:37
Alignment explanation
Indices: 740238--740459 Score: 188
Period size: 37 Copynumber: 6.4 Consensus size: 37
740228 CTTTGAGATT
* * *
740238 GTTTCTCTTGGAACAAA-TTTTTTCTCTCTTTAGACA
1 GTTTCTCTTGAAACAAAGTTTTATCTCTCTTGAGACA
*
740274 GTTTCTCTTGAAACAAAGTTTTATCTCTCTTGAGATA
1 GTTTCTCTTGAAACAAAGTTTTATCTCTCTTGAGACA
* * *
740311 GTTTCTCTTGAAACAAA-----A-ATCT-TTGAGTCT
1 GTTTCTCTTGAAACAAAGTTTTATCTCTCTTGAGACA
* **
740341 GTTTCCCTTGAAACAAAGTTTGGTCTCTCTTGAGACA
1 GTTTCTCTTGAAACAAAGTTTTATCTCTCTTGAGACA
* * *
740378 GTTTCTCATGAAACAAA-----A-ATCT-TTGAGTA-T
1 GTTTCTCTTGAAACAAAGTTTTATCTCTCTTGAG-ACA
* *
740408 GTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACA
1 GTTTCTCTTGAAACAAAGTTTTATCTCTCTTGAGACA
740445 GTTTCTCTTGAAACA
1 GTTTCTCTTGAAACA
740460 CAAATCTTTG
Statistics
Matches: 145, Mismatches: 24, Indels: 33
0.72 0.12 0.16
Matches are distributed among these distances:
30 41 0.28
31 7 0.05
32 1 0.01
36 23 0.16
37 73 0.50
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.40
Consensus pattern (37 bp):
GTTTCTCTTGAAACAAAGTTTTATCTCTCTTGAGACA
Found at i:740337 original size:30 final size:30
Alignment explanation
Indices: 740303--740555 Score: 125
Period size: 30 Copynumber: 7.8 Consensus size: 30
740293 TTTATCTCTC
740303 TTGAGATAGTTTCTCTTGAAACAAAAATCT
1 TTGAGATAGTTTCTCTTGAAACAAAAATCT
* * **
740333 TTGAG-TCTGTTTCCCTTGAAACAAAGTTTGGTCTCT
1 TTGAGAT-AGTTTCTCTTGAAACAAA------AATCT
* *
740369 CTTGAGACAGTTTCTCATGAAACAAAAATCT
1 -TTGAGATAGTTTCTCTTGAAACAAAAATCT
* **
740400 TTGAG-TATGTTTCCCTTGAAACAAAGTTTTGTCTCT
1 TTGAGATA-GTTTCTCTTGAAACAAA------AATCT
* *
740436 CTTGAGACAGTTTCTCTTGAAACACAAATCT
1 -TTGAGATAGTTTCTCTTGAAACAAAAATCT
* * *
740467 TTGAG-TCTGTTTCCCTTGAAACAAAGTTTTATCT
1 TTGAGAT-AGTTTCTCTTGAAACAAA----AATCT
* *
740501 CTTGAGACAGTTTCTCTTGAAACAAAAAACT
1 -TTGAGATAGTTTCTCTTGAAACAAAAATCT
* *
740532 TTGAGTTTGTTTCTCTTGAAACAA
1 TTGAGATAGTTTCTCTTGAAACAA
740556 GTTTTGTCTC
Statistics
Matches: 165, Mismatches: 33, Indels: 50
0.67 0.13 0.20
Matches are distributed among these distances:
29 2 0.01
30 82 0.50
31 9 0.05
34 4 0.02
35 21 0.13
36 6 0.04
37 40 0.24
38 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (30 bp):
TTGAGATAGTTTCTCTTGAAACAAAAATCT
Found at i:740551 original size:132 final size:133
Alignment explanation
Indices: 740274--740724 Score: 626
Period size: 132 Copynumber: 3.4 Consensus size: 133
740264 TCTTTAGACA
* *
740274 GTTTCTCTTGAAACAAAGTTTTATCTCTCTTGAGATAGTTTCTCTTGAAACAAAAATCTTTGAGT
1 GTTTCCCTTGAAACAAAGTTTTATCTCTCTTGAGACAGTTTCTCTTGAAACAAAAATCTTTGAGT
* *
740339 CTGTTTCCCTTGAAACAAAGTTTGGTCTCTCTTGAGACAGTTTCTCATGAAACAAAAATCTTTGA
66 CTGTTTCCCTTGAAACAAAGTTT-GTCTCTCTTGAGACAGTTTCTCTTGAAACAAAAAACTTTGA
*
740404 GTAT
130 GTTT
* *
740408 GTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACACAAATCTTTGAGT
1 GTTTCCCTTGAAACAAAGTTTTATCTCTCTTGAGACAGTTTCTCTTGAAACAAAAATCTTTGAGT
*
740473 CTGTTTCCCTTGAAACAAAGTTT-TATCTCTTGAGACAGTTTCTCTTGAAACAAAAAACTTTGAG
66 CTGTTTCCCTTGAAACAAAGTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAAAACTTTGAG
740537 TTT
131 TTT
* * * ** *
740540 GTTTCTCTTGAAAC-AAGTTTTGTCTCTCTTGAGACAATTTCTCTTGAAACTTAAA-CAATTGAG
1 GTTTCCCTTGAAACAAAGTTTTATCTCTCTTGAGACAGTTTCTCTTGAAACAAAAATC-TTTGAG
* * *
740603 AT-TGTTTCCCTTGAAAC-AAGTTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACACAAACCTTT
65 -TCTGTTTCCCTTGAAACAAAG-TTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAAAACTTT
* *
740666 GTGATT
128 GAGTTT
* * *
740672 GTTTCCCTCGAAACAGA-TTTTATCTCTCTTGAGACATTTTCTCTTGAAACAAA
1 GTTTCCCTTGAAACAAAGTTTTATCTCTCTTGAGACAGTTTCTCTTGAAACAAA
740725 TTTATCCCTA
Statistics
Matches: 286, Mismatches: 26, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
130 4 0.01
131 61 0.21
132 136 0.48
133 1 0.00
134 84 0.29
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (133 bp):
GTTTCCCTTGAAACAAAGTTTTATCTCTCTTGAGACAGTTTCTCTTGAAACAAAAATCTTTGAGT
CTGTTTCCCTTGAAACAAAGTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAAAACTTTGAG
TTT
Found at i:740562 original size:21 final size:21
Alignment explanation
Indices: 740537--740576 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
740527 AAACTTTGAG
*
740537 TTTGTTTCTCTTGAAACAAGT
1 TTTGTCTCTCTTGAAACAAGT
*
740558 TTTGTCTCTCTTGAGACAA
1 TTTGTCTCTCTTGAAACAA
740577 TTTCTCTTGA
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:0.23, C:0.17, G:0.15, T:0.45
Consensus pattern (21 bp):
TTTGTCTCTCTTGAAACAAGT
Found at i:740589 original size:66 final size:67
Alignment explanation
Indices: 740274--740724 Score: 617
Period size: 67 Copynumber: 6.8 Consensus size: 67
740264 TCTTTAGACA
* * *
740274 GTTTCTCTTGAAACAAAGTTTTATCTCTCTTGAGATAGTTTCTCTTGAAACAAAAATCTTTGAGT
1 GTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAAATCTTTGAGT
*
740339 CT
66 TT
* *
740341 GTTTCCCTTGAAACAAAGTTTGGTCTCTCTTGAGACAGTTTCTCATGAAACAAAAATCTTTGAGT
1 GTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAAATCTTTGAGT
*
740406 AT
66 TT
*
740408 GTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACACAAATCTTTGAGT
1 GTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAAATCTTTGAGT
*
740473 CT
66 TT
* *
740475 GTTTCCCTTGAAACAAAG-TTT-TATCTCTTGAGACAGTTTCTCTTGAAACAAAAAACTTTGAGT
1 GTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAAATCTTTGAGT
740538 TT
66 TT
* * ** *
740540 GTTTCTCTTGAAAC-AAGTTTTGTCTCTCTTGAGACAATTTCTCTTGAAACTTAAA-CAATTGAG
1 GTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAAATC-TTTGAG
*
740603 ATT
65 TTT
* * * * *
740606 GTTTCCCTTGAAAC-AAGTTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACACAAACCTTTGTGA
1 GTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAAATCTTTGAGT
740670 TT
66 TT
* * * *
740672 GTTTCCCTCGAAACAGA-TTTTATCTCTCTTGAGACATTTTCTCTTGAAACAAA
1 GTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAA
740725 TTTATCCCTA
Statistics
Matches: 345, Mismatches: 34, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
64 3 0.01
65 57 0.17
66 141 0.41
67 144 0.42
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (67 bp):
GTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAAATCTTTGAGT
TT
Found at i:741445 original size:23 final size:22
Alignment explanation
Indices: 741414--741482 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 22
741404 CACCACAGCT
*
741414 CGTATAATTGCACCTAAGTGCCA
1 CGTAGAATTGCACCT-AGTGCCA
* * *
741437 CTTAGAATTGCACCGGAGTGCCG
1 CGTAGAATTGCACC-TAGTGCCA
741460 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACC-TAGTGCCA
741483 TATAATAATG
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.26, C:0.26, G:0.25, T:0.23
Consensus pattern (22 bp):
CGTAGAATTGCACCTAGTGCCA
Found at i:741629 original size:103 final size:103
Alignment explanation
Indices: 741504--741715 Score: 415
Period size: 103 Copynumber: 2.1 Consensus size: 103
741494 CCATAAAAAA
*
741504 CACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCAGACCTC
1 CACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGACCTC
741569 ACACATGTTCCAAAGAATACATATATGTCCCGAAGGAC
66 ACACATGTTCCAAAGAATACATATATGTCCCGAAGGAC
741607 CACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGACCTC
1 CACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGACCTC
741672 ACACATGTTCCAAAGAATACATATATGTCCCGAAGGAC
66 ACACATGTTCCAAAGAATACATATATGTCCCGAAGGAC
741710 CACATA
1 CACATA
741716 GACCCTCTAC
Statistics
Matches: 108, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 108 1.00
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.25
Consensus pattern (103 bp):
CACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGACCTC
ACACATGTTCCAAAGAATACATATATGTCCCGAAGGAC
Found at i:742210 original size:19 final size:20
Alignment explanation
Indices: 742173--742213 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
742163 TTTTTTATTA
*
742173 TGGGGGAATCGGTTCCCCCC
1 TGGGGGAATCGATTCCCCCC
*
742193 TGGGGGTATCGATTCCCCCC
1 TGGGGGAATCGATTCCCCCC
742213 T
1 T
742214 AGCGTTCTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.10, C:0.34, G:0.32, T:0.24
Consensus pattern (20 bp):
TGGGGGAATCGATTCCCCCC
Found at i:742262 original size:21 final size:21
Alignment explanation
Indices: 742238--742280 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
742228 TCATATTCGT
*
742238 TTGAGGGGGTATCGATTCCCC
1 TTGAAGGGGTATCGATTCCCC
*
742259 TTGAATGGGTATCGATTCCCC
1 TTGAAGGGGTATCGATTCCCC
742280 T
1 T
742281 AGCCCAGGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.23, G:0.28, T:0.33
Consensus pattern (21 bp):
TTGAAGGGGTATCGATTCCCC
Found at i:743563 original size:137 final size:134
Alignment explanation
Indices: 743285--743566 Score: 314
Period size: 137 Copynumber: 2.1 Consensus size: 134
743275 GATGTTACAA
* * * *
743285 TCCTCATCACGTATGAATCATGTTATCATCATCCCTAAAGATGGTCAGTCGTCCTCATCACGTAA
1 TCCTCATCACGTAGGAATCATATTATCATCATCCCTAAAGATGGTCAGCCATCCTCATCACGTAA
** * * *
743350 GAACTGTGTCATCCACCGACTAGATCTCATCATCATATAGGAGCCGCGTCAACCTTAGATAATCT
66 GAACCATGTCATCCACCGACCAGATCTCATCATCATATAGGAGCCGCGTCAACCTTAGATAACCA
*
743415 GCCG
131 GACG
* * * * *
743419 TCTTCATCACGTAGGAATCGTATTATCTACTTTATCCCTAAAGATGG-CAAGCCATCCTTATCGC
1 TCCTCATCACGTAGGAATCATATTATC-A--TCATCCCTAAAGATGGTC-AGCCATCCTCATCAC
* * * * * *
743483 GTATGAACCATGTCATTCACCGACCAGATCTCCTCATCATGTAGGAGCCGTGTCACCCTTAGATA
62 GTAAGAACCATGTCATCCACCGACCAGATCTCATCATCATATAGGAGCCGCGTCAACCTTAGATA
* *
743548 GCCAGACT
127 ACCAGACG
743556 TCCTCATCACG
1 TCCTCATCACG
743567 AAAGAATAGT
Statistics
Matches: 120, Mismatches: 24, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
134 23 0.19
135 1 0.01
136 1 0.01
137 95 0.79
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.28
Consensus pattern (134 bp):
TCCTCATCACGTAGGAATCATATTATCATCATCCCTAAAGATGGTCAGCCATCCTCATCACGTAA
GAACCATGTCATCCACCGACCAGATCTCATCATCATATAGGAGCCGCGTCAACCTTAGATAACCA
GACG
Found at i:743804 original size:3 final size:3
Alignment explanation
Indices: 743789--743838 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
743779 TTTTAATAAG
* * * *
743789 TAT TAT TAA TAT TAT TAT GAT TAT TAT GAT GAT TAT TA- TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
743835 TAT T
1 TAT T
743839 TTACATATTA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 4 0.10
3 35 0.90
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:746982 original size:15 final size:15
Alignment explanation
Indices: 746962--746991 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
746952 CTCCAGTCTT
*
746962 CGGAAGGTCCAACCA
1 CGGAAGGACCAACCA
746977 CGGAAGGACCAACCA
1 CGGAAGGACCAACCA
746992 TCCCAGAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.33, G:0.27, T:0.03
Consensus pattern (15 bp):
CGGAAGGACCAACCA
Found at i:748503 original size:4 final size:4
Alignment explanation
Indices: 748494--748519 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
748484 AGGCAAATGC
748494 AAAG AAAG AAAG AAAG AAAG AAAG AA
1 AAAG AAAG AAAG AAAG AAAG AAAG AA
748520 TAACAATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:748625 original size:171 final size:167
Alignment explanation
Indices: 748335--748664 Score: 439
Period size: 171 Copynumber: 2.0 Consensus size: 167
748325 AGGCAAATGC
* * * * *
748335 AAAGGAAGAAAGAAATAATAACAATATTTAGTTGCTGAGGCAAATGCAAAGAAAGAATGTGACTC
1 AAAGAAAGAAAGAAAGAATAACAATATTTAGGTGCTGAGGCAAATGCAAAGAAAGAAAGCGACTC
*
748400 ACCACCTTCACACAACTGCATAACCAAATGGACAGCAAAGTCATCCTCATAAGTAGCCTTCAAGA
66 ACCACCTTCACACAACTGCATAACCAAATAGACAGCAAAGTCATCCTCATAAGTAGCCTTCAAGA
*
748465 TAACTATATTTGGGTGCCGAGGCAAATGCAAAGAAAG
131 TAACAATATTTGGGTGCCGAGGCAAATGCAAAGAAAG
* *
748502 AAAGAAAGAAAGAAAGAATAACAATATTTGGGTGGTGAGGCAAATGCAAAGAAAGAAAGAAAGCG
1 AAAGAAAGAAAGAAAGAATAACAATATTTAGGTGCTGAGGCAAATGC----AAAGAAAGAAAGCG
* *** *
748567 ACTCACCATCTTCACACAACT-CAATAACCAAATAGACCA-CATTTTCATCCTGATAAGTAGCCT
62 ACTCACCACCTTCACACAACTGC-ATAACCAAATAGA-CAGCAAAGTCATCCTCATAAGTAGCCT
* **
748630 TCAAGGTAACAATATTTGGGTGTTGAGGCAAATGC
125 TCAAGATAACAATATTTGGGTGCCGAGGCAAATGC
748665 TTCATGATTT
Statistics
Matches: 140, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
167 42 0.30
170 1 0.01
171 95 0.68
172 2 0.01
ACGTcount: A:0.42, C:0.18, G:0.19, T:0.20
Consensus pattern (167 bp):
AAAGAAAGAAAGAAAGAATAACAATATTTAGGTGCTGAGGCAAATGCAAAGAAAGAAAGCGACTC
ACCACCTTCACACAACTGCATAACCAAATAGACAGCAAAGTCATCCTCATAAGTAGCCTTCAAGA
TAACAATATTTGGGTGCCGAGGCAAATGCAAAGAAAG
Found at i:749403 original size:60 final size:60
Alignment explanation
Indices: 749330--749477 Score: 235
Period size: 60 Copynumber: 2.5 Consensus size: 60
749320 ATAGTCGAAT
* *
749330 GATCATTTTGTAACTTTTAATCGTTGAATGACTCAACAAAGCAATATCCTATAATTAGGA
1 GATCACTTTGTAACTTTTAATCGTTGAATGACTCAACAAAGCAACATCCTATAATTAGGA
* *
749390 GA-CTACTTTGTAACTTTTAATCATTGAATGACTCAACAAAGCAACATCTTATAATTAGGA
1 GATC-ACTTTGTAACTTTTAATCGTTGAATGACTCAACAAAGCAACATCCTATAATTAGGA
*
749450 GATCATTTTGTAACTTTTAATCGTTGAA
1 GATCACTTTGTAACTTTTAATCGTTGAA
749478 ATACAATTTT
Statistics
Matches: 80, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
59 1 0.01
60 78 0.98
61 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (60 bp):
GATCACTTTGTAACTTTTAATCGTTGAATGACTCAACAAAGCAACATCCTATAATTAGGA
Found at i:765994 original size:20 final size:21
Alignment explanation
Indices: 765949--765989 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
765939 CCCCCTTTAA
*
765949 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
765970 AGGGGAATCGATACCCCCCA
1 AGGGGAACCGATACCCCCCA
765990 TGGGGTTCTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.39, G:0.24, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:774812 original size:22 final size:22
Alignment explanation
Indices: 774774--774831 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 22
774764 GAACGAAAAT
774774 ATAACACGATAAA-ATTTTTAC-G
1 ATAA-ACG-TAAATATTTTTACAG
*
774796 CATAAATGTAAATATTTTTACAG
1 -ATAAACGTAAATATTTTTACAG
774819 ATAAACGTAAATA
1 ATAAACGTAAATA
774832 ATATAATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 4 0.13
22 22 0.71
23 5 0.16
ACGTcount: A:0.48, C:0.10, G:0.09, T:0.33
Consensus pattern (22 bp):
ATAAACGTAAATATTTTTACAG
Found at i:776111 original size:18 final size:19
Alignment explanation
Indices: 776078--776113 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
776068 CCAATATTTC
*
776078 TTATTTTTATACTCTATAT
1 TTATTTTTATAATCTATAT
776097 TTATTTTT-TAATCTATA
1 TTATTTTTATAATCTATA
776114 ATAATTTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (19 bp):
TTATTTTTATAATCTATAT
Found at i:776120 original size:18 final size:19
Alignment explanation
Indices: 776080--776121 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
776070 AATATTTCTT
* * *
776080 ATTTTTATACTCTATATTT
1 ATTTTTATAATCTATAATA
776099 ATTTTT-TAATCTATAATA
1 ATTTTTATAATCTATAATA
776117 ATTTT
1 ATTTT
776122 GTTTATATAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (19 bp):
ATTTTTATAATCTATAATA
Found at i:777751 original size:27 final size:27
Alignment explanation
Indices: 777721--777789 Score: 111
Period size: 27 Copynumber: 2.6 Consensus size: 27
777711 TTTAAAGTTT
777721 TCAAGTTCGAGTCGAGCTTAGCAATAC
1 TCAAGTTCGAGTCGAGCTTAGCAATAC
* *
777748 TCAAGTTTGAGTCAAGCTTAGCAATAC
1 TCAAGTTCGAGTCGAGCTTAGCAATAC
*
777775 TCAAGTTCGACTCGA
1 TCAAGTTCGAGTCGA
777790 CTCGTTTAAC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (27 bp):
TCAAGTTCGAGTCGAGCTTAGCAATAC
Found at i:778832 original size:24 final size:24
Alignment explanation
Indices: 778806--778851 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
778796 TCTTAACTTA
778806 AAAAGGG-TTTCACCTTTTGTGGC
1 AAAAGGGTTTTCACCTTTTGTGGC
*
778829 AAAAGGGTTTTTACCTTTTGTGG
1 AAAAGGGTTTTCACCTTTTGTGG
778852 ATGACAATGC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.22, C:0.13, G:0.26, T:0.39
Consensus pattern (24 bp):
AAAAGGGTTTTCACCTTTTGTGGC
Found at i:784914 original size:16 final size:16
Alignment explanation
Indices: 784893--784928 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
784883 AACAAAACAT
784893 AACTATTTAAGATCAA
1 AACTATTTAAGATCAA
784909 AACTATTTAAGATCAA
1 AACTATTTAAGATCAA
784925 AACT
1 AACT
784929 CATGCATGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.50, C:0.14, G:0.06, T:0.31
Consensus pattern (16 bp):
AACTATTTAAGATCAA
Found at i:791222 original size:90 final size:88
Alignment explanation
Indices: 791063--791236 Score: 303
Period size: 89 Copynumber: 2.0 Consensus size: 88
791053 CATAACACAC
*
791063 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCTAATTAATTAAATCTATA
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATA
*
791128 TTTAATTAATTAGAATTTAATAAT
66 TTTAATTAATT-GAAATTAATAAT
*
791152 CCTTTTATATCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGG-TTTTATTATTTCAAATTAATTAAATCTAT
791217 ATTTAATTAATTGAAATTAA
65 ATTTAATTAATTGAAATTAA
791237 ATATTCAGAA
Statistics
Matches: 81, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
89 41 0.51
90 40 0.49
ACGTcount: A:0.37, C:0.11, G:0.06, T:0.45
Consensus pattern (88 bp):
CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATA
TTTAATTAATTGAAATTAATAAT
Found at i:797167 original size:132 final size:132
Alignment explanation
Indices: 796841--797645 Score: 669
Period size: 133 Copynumber: 6.1 Consensus size: 132
796831 ATCAATAAAC
* * * *** * *
796841 GTTGATTCATTCCACTGTTCTTTAGGGAAGATTGAATCGACATAGA-TTTTTCCACTATTACTCA
1 GTTGATTCATTCCACTGTTATTCAGGGAAGATTGAATCAAGGCAGACTTGTT-CACTGTTACTCA
* ** * ** * * *
796905 GGGAATATCAAATAT-TGAAGATAAGAGATATATTCAACTTCTTCTTGAGGGAAAATTAAATATG
65 GGGAATATCAAATCTAAAAAGAT-AGAGATATGTTCCGCTTCTTCTTGAGGGAAAATCAGATCTG
*
796969 GAGA
129 GGGA
* * * *
796973 CGTTGATTCATT-CAGTGTTATTCAAGGAAGATTGAATCAAGGTAGACTTGTTCTGCTGTTACTC
1 -GTTGATTCATTCCACTGTTATTCAGGGAAGATTGAATCAAGGCAGACTTGTTC-ACTGTTACTC
* * *
797037 AGGGAATATTAAATCTAAAAAGA-A-AGATATGTTCTGCTTCTTCTTGAGGGAAAATAAGATCTG
64 AGGGAATATCAAATCTAAAAAGATAGAGATATGTTCCGCTTCTTCTTGAGGGAAAATCAGATCTG
797100 GGGA
129 GGGA
* ** * *
797104 CGTTGATTCATTCCCCAATTATTCAGGCAAGATTGAATCAAGGCAGACTTGTTTCGCTGTTACTC
1 -GTTGATTCATTCCACTGTTATTCAGGGAAGATTGAATCAAGGCAGACTTG-TTCACTGTTACTC
* ** * * *
797169 AAGGAATATCAAATCTTGAAAGAGA-AGATATGTTCCACTTCTTCCTGAGGGAAAATCAGATCTG
64 AGGGAATATCAAATCTAAAAAGATAGAGATATGTTCCGCTTCTTCTTGAGGGAAAATCAGATCTG
797233 GGGA
129 GGGA
* * ** * *
797237 TGTTGATTTATTTCACTGTTGCTCAGGGAAGATTAAATCGAA-GCAGACTTGTTC-CTTTTTCAC
1 -GTTGATTCATTCCACTGTTATTCAGGGAAGATTGAATC-AAGGCAGACTTGTTCAC-TGTT-AC
* * * * * * *
797300 TAAGGGAACATCAAATATGAAAAA-A-AGAGATCTATACCGCTTCCTT-TTTAGGGAAAATCAGA
62 TCAGGGAATATCAAATCT-AAAAAGATAGAGATATGTTCCGCTT-CTTCTTGAGGGAAAATCAGA
*
797362 TCTAGGGA
125 TCTGGGGA
* * * * *
797370 GTTGATTTATTCCACTGTTCTTCAGGGAAGATTAAATCGAGGCAGACTTGTTCTACTGTTACTTA
1 GTTGATTCATTCCACTGTTATTCAGGGAAGATTGAATCAAGGCAGACTTGTTC-ACTGTTACTCA
* * * * * ** *
797435 GAGAATATCAAATCTGAAAAGATAGGGATTTTTTATGCTTCTTCTTGAGGGAAAATCAGATATGG
65 GGGAATATCAAATCTAAAAAGATAGAGATATGTTCCGCTTCTTCTTGAGGGAAAATCAGATCTGG
797500 GGA
130 GGA
* * * * * * * *
797503 TGTTAATTCATTCCACTGTCATTCAAGAAAAATTGAATCGAGGAACACTTGTTCCACTGTTACTC
1 -GTTGATTCATTCCACTGTTATTCAGGGAAGATTGAATCAAGGCAGACTTGTT-CACTGTTACTC
* * * * * * * *
797568 AAGGAATATCCAATCTGAAAAGATTAGGGATAAGTTCCACTTCTTCCTGACGGAAAATCAGATCT
64 AGGGAATATCAAATCTAAAAAGA-TAGAGATATGTTCCGCTTCTTCTTGAGGGAAAATCAGATC-
797633 TGGGGA
127 TGGGGA
797639 GTTGATT
1 GTTGATT
797646 TATACTGTCA
Statistics
Matches: 547, Mismatches: 103, Indels: 42
0.79 0.15 0.06
Matches are distributed among these distances:
131 54 0.10
132 163 0.30
133 202 0.37
134 84 0.15
135 38 0.07
136 6 0.01
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.32
Consensus pattern (132 bp):
GTTGATTCATTCCACTGTTATTCAGGGAAGATTGAATCAAGGCAGACTTGTTCACTGTTACTCAG
GGAATATCAAATCTAAAAAGATAGAGATATGTTCCGCTTCTTCTTGAGGGAAAATCAGATCTGGG
GA
Found at i:797269 original size:133 final size:131
Alignment explanation
Indices: 796841--797673 Score: 615
Period size: 132 Copynumber: 6.3 Consensus size: 131
796831 ATCAATAAAC
* * *** * *
796841 GTTGATTCATTCCACTGTT-CTTTAGGGAAGATTGAATCGACATAGA-TTTTTCCACTATTACTC
1 GTTGATTCATTCCACTGTTAC-TCAGGGAAGATTGAATCAAGGCAGACTTGTT-CACTGTTACTC
* * * * * * * *
796904 AGGGAATATCAAATATTGAAGATA-AGAGATATATTCAACTTCTTCTTGAGGGAAAATTAAATAT
64 AAGGAATATCAAATCTTGAA-A-AGATAGATATGTTCCACTTCTTCTTGAGGGAAAATCAGATCT
*
796968 GGAGA
127 GGGGA
* * * * *
796973 CGTTGATTCATT-CAGTGTTATTCAAGGAAGATTGAATCAAGGTAGACTTGTTCTGCTGTTACTC
1 -GTTGATTCATTCCACTGTTACTCAGGGAAGATTGAATCAAGGCAGACTTGTTC-ACTGTTACTC
* * * * ** *
797037 AGGGAATATTAAATC-TAAAAAGAAAGATATGTTCTGCTTCTTCTTGAGGGAAAATAAGATCTGG
64 AAGGAATATCAAATCTTGAAAAGATAGATATGTTCCACTTCTTCTTGAGGGAAAATCAGATCTGG
797101 GGA
129 GGA
* ** * * *
797104 CGTTGATTCATTCCCCAATTATTCAGGCAAGATTGAATCAAGGCAGACTTGTTTCGCTGTTACTC
1 -GTTGATTCATTCCACTGTTACTCAGGGAAGATTGAATCAAGGCAGACTTG-TTCACTGTTACTC
*
797169 AAGGAATATCAAATCTTGAAAGAGA-AGATATGTTCCACTTCTTCCTGAGGGAAAATCAGATCTG
64 AAGGAATATCAAATCTTGAAA-AGATAGATATGTTCCACTTCTTCTTGAGGGAAAATCAGATCTG
797233 GGGA
128 GGGA
* * * * *
797237 TGTTGATTTATTTCACTGTTGCTCAGGGAAGATTAAATCGAA-GCAGACTTGTTC-CTTTTTCAC
1 -GTTGATTCATTCCACTGTTACTCAGGGAAGATTGAATC-AAGGCAGACTTGTTCAC-TGTT-AC
* * * * * * *
797300 T-AAGGGAACATCAAAT-ATGAAAA-AAAGAGATCTATACCGCTTCCTT-TTTAGGGAAAATCAG
62 TCAA-GGAATATCAAATCTTGAAAAGATAGATATGT-T-CCACTT-CTTCTTGAGGGAAAATCAG
*
797361 ATCTAGGGA
123 ATCTGGGGA
* * *
797370 GTTGATTTATTCCACTGTT-CTTCAGGGAAGATTAAATCGAGGCAGACTTGTTCTACTGTTACT-
1 GTTGATTCATTCCACTGTTAC-TCAGGGAAGATTGAATCAAGGCAGACTTGTTC-ACTGTTACTC
* * * *** *
797433 TAGAGAATATCAAATC-TGAAAAGATAGGGATTTTTTATGCTTCTTCTTGAGGGAAAATCAGATA
64 AAG-GAATATCAAATCTTGAAAAGATA--GATATGTTCCACTTCTTCTTGAGGGAAAATCAGATC
797497 TGGGGA
126 TGGGGA
* * * * * * * * *
797503 TGTTAATTCATTCCACTGTCATTCAAGAAAAATTGAATCGAGGAACACTTGTTCCACTGTTACTC
1 -GTTGATTCATTCCACTGTTACTCAGGGAAGATTGAATCAAGGCAGACTTGTT-CACTGTTACTC
* * * *
797568 AAGGAATATCCAATC-TGAAAAGATTAGGGATAAGTTCCACTTCTTCCTGACGGAAAATCAGATC
64 AAGGAATATCAAATCTTGAAAAGA-TA--GATATGTTCCACTTCTTCTTGAGGGAAAATCAGATC
797632 TTGGGGA
126 -TGGGGA
* * *
797639 GTTGATTTA-T--ACTGTCACTCAGGAAAGATTGAATC
1 GTTGATTCATTCCACTGTTACTCAGGGAAGATTGAATC
797674 GAGTTCAATT
Statistics
Matches: 574, Mismatches: 94, Indels: 65
0.78 0.13 0.09
Matches are distributed among these distances:
130 2 0.00
131 61 0.11
132 190 0.33
133 190 0.33
134 80 0.14
135 45 0.08
136 6 0.01
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.32
Consensus pattern (131 bp):
GTTGATTCATTCCACTGTTACTCAGGGAAGATTGAATCAAGGCAGACTTGTTCACTGTTACTCAA
GGAATATCAAATCTTGAAAAGATAGATATGTTCCACTTCTTCTTGAGGGAAAATCAGATCTGGGG
A
Found at i:797415 original size:265 final size:265
Alignment explanation
Indices: 796839--797571 Score: 684
Period size: 265 Copynumber: 2.8 Consensus size: 265
796829 AGATCAATAA
* *** *
796839 ACGTTGATTCATTCCACTGTTCTTTAGGGAAGATTGAATCGACATAGA-TT-TTTCCACTATTAC
1 ACGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTTT-CACTGTTAC
* * * * *
796902 TCAGGGAATATCAAATATTG-AAGATAAGAGATATATTCAACTTCTTCTTGAGGGAAAATTAAAT
65 TCAAGGAATATCAAATCTTGAAAGA-GAGAGATATATTCAACTTCTTCTTGAGGGAAAATCAGAT
* * * * * *
796966 ATGGAGACGTTGATTCA-TTCAGTGTTATTCAAGGAAGATTGAATCAAGGTAGACTTGTTCTGCT
129 ATGGGGATGTTGATTCATTTCACTGTTACTCAAGGAAGATTAAATCAAGGCAGACTTGTTCT-CT
* * * * * * *
797030 GTTACTCAGGGAATATTAAATCTAAAAAGAAAGATATGTTCTGCTTCTTCTTGAGGGAAAATAAG
193 GTTACTAAGGGAACATCAAATATAAAAAGAAAGATATATACCGCTTCTTCTTGAGGGAAAATAAG
*
797095 ATCTGGGG
258 ATCTAGGG
* ** * * * *
797103 ACGTTGATTCATTCCCCAATTATTCAGGCAAGATTGAATCAAGGCAGACTTGTTTCGCTGTTACT
1 ACGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTTTCACTGTTACT
* * * *
797168 CAAGGAATATCAAATCTTGAAAGAGA-AGATATGTTCCACTTCTTCCTGAGGGAAAATCAGATCT
66 CAAGGAATATCAAATCTTGAAAGAGAGAGATATATTCAACTTCTTCTTGAGGGAAAATCAGATAT
* * * *
797232 GGGGATGTTGATTTATTTCACTGTTGCTCAGGGAAGATTAAATCGAA-GCAGACTTGTTC-CTTT
131 GGGGATGTTGATTCATTTCACTGTTACTCAAGGAAGATTAAATC-AAGGCAGACTTGTTCTC-TG
* *
797295 TTCACTAAGGGAACATCAAATATGAAAAA-AAGAGATCTATACCGCTTCCTT-TTTAGGGAAAAT
194 TT-ACTAAGGGAACATCAAATAT-AAAAAGAA-AGATATATACCGCTT-CTTCTTGAGGGAAAAT
*
797358 CAGATCTAGGG
255 AAGATCTAGGG
* *
797369 A-GTTGATTTATTCCACTGTTCTTCAGGGAAGATTAAATCGAGGCAGACTTG-TTCTACTGTTAC
1 ACGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTTTC-ACTGTTAC
* * * * * *
797432 T-TAGAGAATATCAAATC-TGAAAAGATAGGGAT-TTTTTATGCTTCTTCTTGAGGGAAAATCAG
65 TCAAG-GAATATCAAATCTTG-AAAGAGAGAGATATATTCA-ACTTCTTCTTGAGGGAAAATCAG
* * * * * * * * * * *
797494 ATATGGGGATGTTAATTCATTCCACTGTCATTCAAGAAAAATTGAATCGAGGAACACTTGTTCCA
127 ATATGGGGATGTTGATTCATTTCACTGTTACTCAAGGAAGATTAAATCAAGGCAGACTTGTT-CT
797559 CTGTTACTCAAGG
191 CTGTTACT-AAGG
797572 AATATCCAAT
Statistics
Matches: 376, Mismatches: 74, Indels: 35
0.78 0.15 0.07
Matches are distributed among these distances:
263 1 0.00
264 92 0.24
265 152 0.40
266 119 0.32
267 11 0.03
268 1 0.00
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.32
Consensus pattern (265 bp):
ACGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTTTCACTGTTACT
CAAGGAATATCAAATCTTGAAAGAGAGAGATATATTCAACTTCTTCTTGAGGGAAAATCAGATAT
GGGGATGTTGATTCATTTCACTGTTACTCAAGGAAGATTAAATCAAGGCAGACTTGTTCTCTGTT
ACTAAGGGAACATCAAATATAAAAAGAAAGATATATACCGCTTCTTCTTGAGGGAAAATAAGATC
TAGGG
Found at i:798380 original size:233 final size:231
Alignment explanation
Indices: 797945--798623 Score: 766
Period size: 233 Copynumber: 2.9 Consensus size: 231
797935 GAATTAAAAA
* * *** * *
797945 TTTCAGATTTAAATGAGAAACTTTTCTCATTTTGGTAAAAACATGTGAAAACATCTTGCCCGAAT
1 TTTCAAATTTAAATGAGAAACCTTTCTCATTTTTAAAAAAACATGTGAAAACATC-TGCTCGAAG
* * * ** * * * *
798010 GTCTTATGGATGGCCTGAAAGACTTATCTTCGTGCTCGAAAGGTTTATAAATGACCCAAAAGATC
65 GTCTTATGGATGGCCTGAATGACTTATCATCTTGCTCGAAAGACTTACAAATGACCCGAAGGATT
** * * ** * * * *
798075 TACTCATCATGCTAGAAAGACTGACTGATGGCTTGAATGACTTATCGATTTTGGAAACATTTTAC
130 TAAGCATCATGCTCGAAAGA-TTACTGATGGCCCGAAGGACTTACCAATTTTGGAAACAATTTAC
798140 TAGGTAAGAAACCTTTCTTACATTTAAAAAAAATCAAT
194 TAGGTAAGAAACCTTTCTTACATTTAAAAAAAATCAAT
* *
798178 TTTCAAATTTAAATGAGAAACCTTTCTCAGTTTTTAAAAAAACATGTAAAAACATCATGCTTGAA
1 TTTCAAATTTAAATGAGAAACCTTTCTCA-TTTTTAAAAAAACATGTGAAAACATC-TGCTCGAA
* * * *
798243 GGTCTTATGAATGGTCTGAATGACTTATCATCTTGCTCGAAAGACTTACATATGACCCGACGGAT
64 GGTCTTATGGATGGCCTGAATGACTTATCATCTTGCTCGAAAGACTTACAAATGACCCGAAGGAT
** *
798308 TTAAGCATCATATTCGAAAGATTACTGATGGCCCGAAGGACTTACCAATTTCGGAAACAATTTAC
129 TTAAGCATCATGCTCGAAAGATTACTGATGGCCCGAAGGACTTACCAATTTTGGAAACAATTTAC
* * * ** *
798373 TAGGTAAGAAACATTTCTTACTTTTCAAAAATTTCAGT
194 TAGGTAAGAAACCTTTCTTACATTTAAAAAAAATCAAT
* ** * *
798411 TTTCAGAA-TTAAATGAAAAACCTTTCTCATTTTTCGAGAGACATGTGAAAACATTCTGCTCGAA
1 TTTCA-AATTTAAATGAGAAACCTTTCTCATTTTTAAAAAAACATGTGAAAACA-TCTGCTCGAA
* * * *
798475 GGTCTTATGGATGGCCCGATTGACTTATCATCTTGCTCGAAAGACTTACAGATGACCTGAAGGAT
64 GGTCTTATGGATGGCCTGAATGACTTATCATCTTGCTCGAAAGACTTACAAATGACCCGAAGGAT
* * * * * * *
798540 TTAAGAATCATGCTCAAAAGAATTATTGATGGCCCAAAGGACTTACCAATTTTGGAAATAGTTTG
129 TTAAGCATCATGCTCGAAAG-ATTACTGATGGCCCGAAGGACTTACCAATTTTGGAAACAATTTA
*
798605 CTTGGTAAGAAACCTTTCT
193 CTAGGTAAGAAACCTTTCT
798624 CATTTTTTTA
Statistics
Matches: 374, Mismatches: 68, Indels: 8
0.83 0.15 0.02
Matches are distributed among these distances:
232 100 0.27
233 177 0.47
234 97 0.26
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (231 bp):
TTTCAAATTTAAATGAGAAACCTTTCTCATTTTTAAAAAAACATGTGAAAACATCTGCTCGAAGG
TCTTATGGATGGCCTGAATGACTTATCATCTTGCTCGAAAGACTTACAAATGACCCGAAGGATTT
AAGCATCATGCTCGAAAGATTACTGATGGCCCGAAGGACTTACCAATTTTGGAAACAATTTACTA
GGTAAGAAACCTTTCTTACATTTAAAAAAAATCAAT
Found at i:798742 original size:186 final size:186
Alignment explanation
Indices: 798428--798809 Score: 649
Period size: 186 Copynumber: 2.1 Consensus size: 186
798418 ATTAAATGAA
*
798428 AAACCTTTCTCATTTTTCGAGAGACATGTGAAAACATTCTGCTCGAAGGTCTTATGGATGGCCCG
1 AAACCTTTCTCATTTTTCGAGAGACATGTGAAAACATTCTGCCCGAAGGTCTTATGGATGGCCCG
* *
798493 ATTGACTTATCATCTTGCTCGAAAGACTTACAGATGACCTGAAGGATTTAAGAATCATGCTCAAA
66 AATGACTTATCATCTTGCTCGAAAGACTTACAGATAACCTGAAGGATTTAAGAATCATGCTCAAA
** * **
798558 AGAATTATTGATGGCCCAAAGGACTTACCAATTTTGGAAATAGTTTGCTTGGTAAG
131 AGAATTACCGATGGCCCAAAGGACTTACCAATTTTGGAAATAGTTTACCAGGTAAG
** *
798614 AAACCTTTCTCATTTTTTTAGAGACATGTGAAAACA-TCATGCCCGAAGGTCTTATGGATGGCTC
1 AAACCTTTCTCATTTTTCGAGAGACATGTGAAAACATTC-TGCCCGAAGGTCTTATGGATGGCCC
798678 GAATGACTTATCATCTTGCTCGAAAGACTTACAGATAACCTGAAGGATTTAAGAATCATGCTCAA
65 GAATGACTTATCATCTTGCTCGAAAGACTTACAGATAACCTGAAGGATTTAAGAATCATGCTCAA
798743 AAGAATTACCGATGGCCCAAAGGACTTACCAATTTTGGAAATAGTTTACCAGGTAAG
130 AAGAATTACCGATGGCCCAAAGGACTTACCAATTTTGGAAATAGTTTACCAGGTAAG
798800 AAACCTTTCT
1 AAACCTTTCT
798810 AACTTTTAAA
Statistics
Matches: 184, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
185 2 0.01
186 182 0.99
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (186 bp):
AAACCTTTCTCATTTTTCGAGAGACATGTGAAAACATTCTGCCCGAAGGTCTTATGGATGGCCCG
AATGACTTATCATCTTGCTCGAAAGACTTACAGATAACCTGAAGGATTTAAGAATCATGCTCAAA
AGAATTACCGATGGCCCAAAGGACTTACCAATTTTGGAAATAGTTTACCAGGTAAG
Found at i:798971 original size:418 final size:417
Alignment explanation
Indices: 798193--799039 Score: 1130
Period size: 418 Copynumber: 2.0 Consensus size: 417
798183 AATTTAAATG
**
798193 AGAAACCTTTCTCAGTTTTTAAAAAAACATGTAAAAACATCATGCTTGAAGGTCTTATGAATGGT
1 AGAAACCTTTCTCAGTTTTTAAAAAAACATGTAAAAACATCATGCCCGAAGGTCTTATGAATGGT
* * * * *
798258 CTGAATGACTTATCATCTTGCTCGAAAGACTTACATATGACCCGACGGATTTAAGCATCATATTC
66 CTGAATGACTTATCATCTTGCTCGAAAGACTTACAGATAACCCGAAGGATTTAAGAATCATACTC
* * * *
798323 GAAAGATTACTGATGGCCCGAAGGACTTACCAATTTCGGAAACAATTTACTAGGTAAGAAACATT
131 AAAAGATTACCGATGGCCCAAAGGACTTACCAATTTCGGAAACAATTTACCAGGTAAGAAACATT
* * * * * * *
798388 TCTTACTTTTCAAAAATTTCAGTTTTCAGAATTAAATGAAAAACCTTTCTCATTTTTCGAGAGAC
196 TCTAACTTTTAAAAAATTTCAGATTTCAGAATTAAATGAAAAACCTTTCTCAATTTTCAAAAAAC
* * * * *
798453 ATGTGAAAACATTCTGCTCGAAGGTCTTATGGATGGCCCGATTGACTTATCATCTTGCTCGAAAG
261 ATGTGAAAACATCCTCCTCGAAGGTCTTATGAATGGCCCGATAGACTTATCATCTTGATCGAAAG
* *
798518 ACTTACAGATGACCTGAAGGATTTAAGAATCATGCTCAAAAGAATTA-TTGATGGCCCAAAGGAC
326 ACTAACAGATGACCCGAAGGATTTAAGAATCATGCTC-AAAGAATTACTT-ATGGCCCAAAGGAC
* * *
798582 TTACCAATTTTGGAAATAGTTTGCTTGGTA
389 TT-CCAATTTTGGAAACAGTTTACTAGGTA
** * * * *
798612 AGAAACCTTTCTCA-TTTTTTTAGAGACATGTGAAAACATCATGCCCGAAGGTCTTATGGATGG-
1 AGAAACCTTTCTCAGTTTTTAAAAAAACATGTAAAAACATCATGCCCGAAGGTCTTATGAATGGT
* *
798675 CTCGAATGACTTATCATCTTGCTCGAAAGACTTACAGATAACCTGAAGGATTTAAGAATCATGCT
66 CT-GAATGACTTATCATCTTGCTCGAAAGACTTACAGATAACCCGAAGGATTTAAGAATCATACT
* * * *
798740 CAAAAGAATTACCGATGGCCCAAAGGACTTACCAATTTTGGAAATAGTTTACCAGGTAAGAAACC
130 CAAAAG-ATTACCGATGGCCCAAAGGACTTACCAATTTCGGAAACAATTTACCAGGTAAGAAACA
* * *
798805 TTTCTAACTTTTAAAAAAATTTCA-ATTTGAGAATTAAATGAGAAACCTTTCTTAATTTTCAAAA
194 TTTCTAACTTTT-AAAAAATTTCAGATTTCAGAATTAAATGAAAAACCTTTCTCAATTTTCAAAA
**
798869 AACATGTGAAAACATCCTCCT-GAAGGTCTTATGAATGGTTCGA-AGAACTTATCATCTTGATCG
258 AACATGTGAAAACATCCTCCTCGAAGGTCTTATGAATGGCCCGATAG-ACTTATCATCTTGATCG
* * * *
798932 AAATACTAACAGATGACCCGAAGGATTTAAGCATCATGCTCAAAGACTTACTTATGGCCCGAAGG
322 AAAGACTAACAGATGACCCGAAGGATTTAAGAATCATGCTCAAAGAATTACTTATGGCCCAAAGG
**
798997 ACTTTTAATTTTGGAAACAGTTTACTAGGTA
387 ACTTCCAATTTTGGAAACAGTTTACTAGGTA
799028 AGAAACCTTTCT
1 AGAAACCTTTCT
799040 TACTTTTCAA
Statistics
Matches: 372, Mismatches: 51, Indels: 13
0.85 0.12 0.03
Matches are distributed among these distances:
416 34 0.09
417 26 0.07
418 175 0.47
419 127 0.34
420 10 0.03
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.31
Consensus pattern (417 bp):
AGAAACCTTTCTCAGTTTTTAAAAAAACATGTAAAAACATCATGCCCGAAGGTCTTATGAATGGT
CTGAATGACTTATCATCTTGCTCGAAAGACTTACAGATAACCCGAAGGATTTAAGAATCATACTC
AAAAGATTACCGATGGCCCAAAGGACTTACCAATTTCGGAAACAATTTACCAGGTAAGAAACATT
TCTAACTTTTAAAAAATTTCAGATTTCAGAATTAAATGAAAAACCTTTCTCAATTTTCAAAAAAC
ATGTGAAAACATCCTCCTCGAAGGTCTTATGAATGGCCCGATAGACTTATCATCTTGATCGAAAG
ACTAACAGATGACCCGAAGGATTTAAGAATCATGCTCAAAGAATTACTTATGGCCCAAAGGACTT
CCAATTTTGGAAACAGTTTACTAGGTA
Found at i:799128 original size:232 final size:233
Alignment explanation
Indices: 798612--800777 Score: 2556
Period size: 232 Copynumber: 9.3 Consensus size: 233
798602 TTGCTTGGTA
* * * * *
798612 AGAAACCTTTCTCATTTTTT-TAGAGACATGTGAAAACATCATGCCCGAAGGTCTTATGGATGGC
1 AGAAACCTTTCTCATTTTTTGAAAAAACATGTGAAAACATCCTGCCCGAAGGTCTTATGAATGGC
* * * *
798676 TCGAATGACTTATCATCTTGCTCGAAAGACTTACAGATAACCTGAAGGATTTAAGAATCATGCTC
66 CCGAA-GACTTATCATCTTGCTCGAAAGACTTACAGATGACCCGAAGGATTTAAGCATCATGCTC
* * * * * * *
798741 AAAAGAATTACCGATGGCCCAAAGGACTTACCAATTTTGGAAATAGTTTACCAGGTAAGAAACCT
130 GAAAGACTTACTGATGGCCCGAAGGACTTATCAATTTTGGAAACAGTTTACTAGGTAAGAAACCT
* * * *
798806 TTCTAACTTTTAAAAAAATTTCAA-TTTGAGAATTAAATG
195 TTCTTACTTTT-CAAAAATTTCAATTTTCAGATTTAAATG
* * * * *
798845 AGAAACCTTTCTTA-ATTTTCAAAAAACATGTGAAAACATCCT-CCTGAAGGTCTTATGAATGGT
1 AGAAACCTTTCTCATTTTTTGAAAAAACATGTGAAAACATCCTGCCCGAAGGTCTTATGAATGGC
* * * *
798908 TCGAAGAACTTATCATCTTGATCGAAATACTAACAGATGACCCGAAGGATTTAAGCATCATGCTC
66 CCGAAG-ACTTATCATCTTGCTCGAAAGACTTACAGATGACCCGAAGGATTTAAGCATCATGCTC
* *
798973 -AAAGACTTACTTATGGCCCGAAGGACTT-TTAATTTTGGAAACAGTTTACTAGGTAAGAAACCT
130 GAAAGACTTACTGATGGCCCGAAGGACTTATCAATTTTGGAAACAGTTTACTAGGTAAGAAACCT
* *
799036 TTCTTACTTTTCAAAAATTTCAATTCTCAAATTTAAATG
195 TTCTTACTTTTCAAAAATTTCAATTTTCAGATTTAAATG
* *
799075 AGAAACCTTTCTCATTTTTTGAAAAAACATGTGAAAACATCATGCCCGAAGGTCTTATAAATGGC
1 AGAAACCTTTCTCATTTTTTGAAAAAACATGTGAAAACATCCTGCCCGAAGGTCTTATGAATGGC
* * * * * * **
799140 CTGAAGGACTTATTATCTTTCTCAAAAGACTTACAAATGACTCGAAGGATTTAAGCATCATTAT-
66 CCGAA-GACTTATCATCTTGCTCGAAAGACTTACAGATGACCCGAAGGATTTAAGCATCATGCTC
* * *
799204 GAAAAGACTTACTGATGGTCCGAAGGACTTACCAATTTTGGAAACAATTTACTAGGTAAGAAACC
130 G-AAAGACTTACTGATGGCCCGAAGGACTTATCAATTTTGGAAACAGTTTACTAGGTAAGAAACC
* *
799269 TTTATTACTTTTCAAAAATTTCAATTTTCAGATTCAAATG
194 TTTCTTACTTTTCAAAAATTTCAATTTTCAGATTTAAATG
* * *
799309 AGAAACCTTTCTCA-ATTTTCAAAAAACATGTGAAAACATCCTGCCCGAAGGTCTTATAAATGGC
1 AGAAACCTTTCTCATTTTTTGAAAAAACATGTGAAAACATCCTGCCCGAAGGTCTTATGAATGGC
* * * * * *
799373 CCTAAGAACTTATCTTCTTTCTCGGAAGACTTACAGATGACCCGAAGAATTTAAGAATCATGCTC
66 CCGAAG-ACTTATCATCTTGCTCGAAAGACTTACAGATGACCCGAAGGATTTAAGCATCATGCTC
* * * *
799438 -AAATGACTTATTGATGGCCTGAAGGACTTATCAAGTTTGGAAATAGTTTACTAGGTAAGAAACC
130 GAAA-GACTTACTGATGGCCCGAAGGACTTATCAATTTTGGAAACAGTTTACTAGGTAAGAAACC
* * *
799502 TTTCTTACTTCTCAAAATTTTCAATTTTTAGATTTAAATG
194 TTTCTTACTTTTCAAAAATTTCAATTTTCAGATTTAAATG
* * * * *
799542 AGAAACCTTTCT-ATTTTTTAGACAGATAC--GTGAAAACATCCTACCCGAAGGTCTTATGGATA
1 AGAAACCTTTCTCATTTTTT-GA-AAAAACATGTGAAAACATCCTGCCCGAAGGTCTTATGAATG
* *
799604 GCCCGAAGGA-TTATCAACTTTC-CTGAAAGACTTACAGATGACCCGAAGGATTTAAGCATCATG
64 GCCCGAA-GACTTATCATCTTGCTC-GAAAGACTTACAGATGACCCGAAGGATTTAAGCATCATG
** * *
799667 CTCGAAAGACTTACTGATTTCACGAAGGACTTATCAATTTTGGAAATAGTTTACTAGGTAAGAAA
127 CTCGAAAGACTTACTGATGGCCCGAAGGACTTATCAATTTTGGAAACAGTTTACTAGGTAAGAAA
*
799732 CCTTTCTTA-TTTTCAAAAATTTCAATTTTTAGATTTAAATG
192 CCTTTCTTACTTTTCAAAAATTTCAATTTTCAGATTTAAATG
* * ** * * *
799773 AGAAACCTTTCTC-TTTTTTAGACAGATACA--TGAAAACATCCTATCTGAA-GTCTTGTGGATG
1 AGAAACCTTTCTCATTTTTT-GA-AAAAACATGTGAAAACATCCTGCCCGAAGGTCTTATGAATG
* * * * * * * *
799834 GCCGGAATGACTTATCATTTTTCTCAAAAGACTTACAGATAACCCAAAGGATTTAAGCATTAGGC
64 GCCCGAA-GACTTATCATCTTGCTCGAAAGACTTACAGATGACCCGAAGGATTTAAGCATCATGC
* *
799899 TCGAAAGACTTACTGATGGCCCGAAGGATTTACCAATTTTGGAAACA-TGTTACTAGGTAAGAAA
128 TCGAAAGACTTACTGATGGCCCGAAGGACTTATCAATTTTGGAAACAGT-TTACTAGGTAAGAAA
* *
799963 CCTTTCTTACTTTTCAAAAATTTCAATTTTTATATTTAAATG
192 CCTTTCTTACTTTTCAAAAATTTCAATTTTCAGATTTAAATG
* * * *
800005 AGAAACTTTTCTC-TTTTCTAGACAAAAAC--GTGAAAACATTCTGCCCGAAAGTCTTAT-AGAT
1 AGAAACCTTTCTCATTTT-TTGA-AAAAACATGTGAAAACATCCTGCCCGAAGGTCTTATGA-AT
* * **
800066 GGCACGGAAGACTTATCATCTTGCTCGAAAGACTTACAGGTGACCCGAATAATTTAAGCATCATG
63 GGC-CCGAAGACTTATCATCTTGCTCGAAAGACTTACAGATGACCCGAAGGATTTAAGCATCATG
* * * * * * *
800131 GTCGAAAGACTTACTGATGGCTCGAAGGACTTACCGATTTTAGAAACAATTTACTAAGTAAGAAA
127 CTCGAAAGACTTACTGATGGCCCGAAGGACTTATCAATTTTGGAAACAGTTTACTAGGTAAGAAA
*
800196 TCTTTCTTACTTTTCAAAAATTTCAATTTTCAGATTTAAATG
192 CCTTTCTTACTTTTCAAAAATTTCAATTTTCAGATTTAAATG
* * * *
800238 AGAAACCTTTCTCATTTTTCG-AAAAACATATG-AAACATCATGCCCAAAGGTCTTAT-AATTGG
1 AGAAACCTTTCTCATTTTTTGAAAAAACATGTGAAAACATCCTGCCCGAAGGTCTTATGAA-TGG
*
800300 CCCGAAGGACTTATCATCTTGCTCGAAAGACTTACAGATGACCCAAAGGATTTAAGCATCATGCT
65 CCCGAA-GACTTATCATCTTGCTCGAAAGACTTACAGATGACCCGAAGGATTTAAGCATCATGCT
* *
800365 CGAAAGACGTACTGATGGCCCGAAGGACTTACCAATTTTGGAAACAGTTTACTAGGTAAGAAACC
129 CGAAAGACTTACTGATGGCCCGAAGGACTTATCAATTTTGGAAACAGTTTACTAGGTAAGAAACC
* *
800430 TTTCTTACTTTTTAAAAATTTCAATTTTCAGATTCAAATG
194 TTTCTTACTTTTCAAAAATTTCAATTTTCAGATTTAAATG
* * * * *
800470 AGAAACTTTTCTCA-ATTTTCAAAAAACATGTGAAAACATCCTTCCCGAAGGTCTTTTGAATGGC
1 AGAAACCTTTCTCATTTTTTGAAAAAACATGTGAAAACATCCTGCCCGAAGGTCTTATGAATGGC
* * * * * ** * *
800534 CCGGATGACTTATCATCTTTCTCGGAAGACTTACAAATAACTTGAAGAATTTAAGAATCATGCTC
66 CC-GAAGACTTATCATCTTGCTCGAAAGACTTACAGATGACCCGAAGGATTTAAGCATCATGCTC
* * * * *
800599 AAAAGACTTATTGATGG-TCGAAGGACTTATCAATTTTGGAAATAGTTTACTAGGAAAGAAACCT
130 GAAAGACTTACTGATGGCCCGAAGGACTTATCAATTTTGGAAACAGTTTACTAGGTAAGAAACCT
*
800663 TTCTTACTTTTCAAAAATTTCAATTTTTAGATTTAAATG
195 TTCTTACTTTTCAAAAATTTCAATTTTCAGATTTAAATG
* * * * * * * ** * *
800702 AGAAACATTTCTC-TTTTTTGGACAGATACGTGAAAACATCCTACCTAAAGGTCTTGTGGATGGC
1 AGAAACCTTTCTCATTTTTTGAAAAAACATGTGAAAACATCCTGCCCGAAGGTCTTATGAATGGC
800766 CCGAAGGACTTA
66 CCGAA-GACTTA
800778 CCAATTTTGG
Statistics
Matches: 1672, Mismatches: 220, Indels: 83
0.85 0.11 0.04
Matches are distributed among these distances:
229 11 0.01
230 84 0.05
231 252 0.15
232 666 0.40
233 558 0.33
234 97 0.06
235 4 0.00
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.32
Consensus pattern (233 bp):
AGAAACCTTTCTCATTTTTTGAAAAAACATGTGAAAACATCCTGCCCGAAGGTCTTATGAATGGC
CCGAAGACTTATCATCTTGCTCGAAAGACTTACAGATGACCCGAAGGATTTAAGCATCATGCTCG
AAAGACTTACTGATGGCCCGAAGGACTTATCAATTTTGGAAACAGTTTACTAGGTAAGAAACCTT
TCTTACTTTTCAAAAATTTCAATTTTCAGATTTAAATG
Found at i:799232 original size:650 final size:652
Alignment explanation
Indices: 797960--799271 Score: 1669
Period size: 650 Copynumber: 2.0 Consensus size: 652
797950 GATTTAAATG
* * *
797960 AGAAACTTTTCTCATTTTGGTAAAAACATGTGAAAACATCTTGCCCGAATGTCTTATGGATGGCC
1 AGAAACCTTTCTCATTTTGGTAAAAACATGTGAAAACATCATGCCCGAAGGTCTTATGGATGGCC
* ** * * ***
798025 TGAAAGACTTATCTTCGTGCTCGAAAGGTTTATAAATGACCCAAAAGATCTACTCATCATGCTAG
66 TGAAAGACTTATCATCGTGCTCGAAAGACTTACAAATAACCCAAAAGATCTAAGAATCATGCTAG
* * *** * * * * *
798090 AAAGACTGACTGATGGCTTGAATGACTTATCGATTTTGGAAACATTTTACTAGGTAAGAAACCTT
131 AAAGAATGACCGATGGCCCAAAGGACTTACCAATTTTGGAAACAGTTTACCAGGTAAGAAACCTT
* *
798155 TCTTACATTTAAAAAAAATCAATTTTCAAATTTAAATGAGAAACCTTTCTCAGTTTTTAAAAAAA
196 TCTAACATTTAAAAAAAATCAATTTTCAAATTTAAATGAGAAACCTTTCTCAGATTTTAAAAAAA
* *
798220 CATGTAAAAACATCATGCTTGAAGGTCTTATGAATGGTCTGAATGACTTATCATCTTGCTCGAAA
261 CATGTAAAAACATCATGCCTGAAGGTCTTATGAATGGTCTGAATGACTTATCATCTTGATCGAAA
* * * *
798285 GACTTACATATGACCCGACGGATTTAAGCATCATATTCGAAAGATTACTGATGGCCCGAAGGACT
326 GACTAACAGATGACCCGAAGGATTTAAGCATCATACTCGAAAGATTACTGATGGCCCGAAGGACT
* *
798350 TACCAATTTCGGAAACAATTTACTAGGTAAGAAACATTTCTTACTTTTCAAAAATTTCAGTTTTC
391 TACCAATTTCGGAAACAATTTACTAGGTAAGAAACATTTCTTACTTTTCAAAAATTTCAATTCTC
* * *
798415 AGAATTAAATGAAAAACCTTTCTCATTTTTCGAGAGACATGTGAAAACATTCTGCTCGAAGGTCT
456 AGAATTAAATGAAAAACCTTTCTCATTTTTCGAAAAACATGTGAAAACATTCTGCCCGAAGGTCT
** ** * *
798480 TATGGATGGCCCGATTGACTTATCATCTTGCTCGAAAGACTTACAGATGACCTGAAGGATTTAAG
521 TATAAATGGCCCGAAGGACTTATCATCTTGCTCAAAAGACTTACAAATGACCTGAAGGATTTAAG
* * * * * *
798545 AATCATGCTCAAAAGAATTATTGATGGCCCAAAGGACTTACCAATTTTGGAAATAGTTTGCTTGG
586 AATCATGATCAAAAGAATTACTGATGGCCCAAAGGACTTACCAATTTTGGAAACAATTTACTAGG
798610 TA
651 TA
** * *
798612 AGAAACCTTTCTCATTTTTTTAGAGACATGTGAAAACATCATGCCCGAAGGTCTTATGGATGG-C
1 AGAAACCTTTCTCATTTTGGTAAAAACATGTGAAAACATCATGCCCGAAGGTCTTATGGATGGCC
* * * ** * *
798676 TCGAATGACTTATCATCTTGCTCGAAAGACTTACAGATAACCTGAAGGATTTAAGAATCATGCTC
66 T-GAAAGACTTATCATCGTGCTCGAAAGACTTACAAATAACCCAAAAGATCTAAGAATCATGCT-
* *
798741 A-AAAGAATTACCGATGGCCCAAAGGACTTACCAATTTTGGAAATAGTTTACCAGGTAAGAAACC
129 AGAAAGAATGACCGATGGCCCAAAGGACTTACCAATTTTGGAAACAGTTTACCAGGTAAGAAACC
* * * * *
798805 TTTCTAACTTTTAAAAAAATTTCAA-TTTGAGAA-TTAAATGAGAAACCTTTCTTA-ATTTTCAA
194 TTTCTAACATTTAAAAAAA-ATCAATTTTCA-AATTTAAATGAGAAACCTTTCTCAGATTTTAAA
* *
798867 AAAACATGTGAAAACATCCT-CCTGAAGGTCTTATGAATGGT-TCGAA-GAACTTATCATCTTGA
257 AAAACATGTAAAAACATCATGCCTGAAGGTCTTATGAATGGTCT-GAATG-ACTTATCATCTTGA
* * *
798929 TCGAAATACTAACAGATGACCCGAAGGATTTAAGCATCATGCTC-AAAGACTTACTTATGGCCCG
320 TCGAAAGACTAACAGATGACCCGAAGGATTTAAGCATCATACTCGAAAGA-TTACTGATGGCCCG
** * * *
798993 AAGGACTT-TTAATTTTGGAAACAGTTTACTAGGTAAGAAACCTTTCTTACTTTTCAAAAATTTC
384 AAGGACTTACCAATTTCGGAAACAATTTACTAGGTAAGAAACATTTCTTACTTTTCAAAAATTTC
* *
799057 AATTCTCA-AATTTAAATGAGAAACCTTTCTCATTTTTTGAAAAAACATGTGAAAACA-TCATGC
449 AATTCTCAGAA-TTAAATGAAAAACCTTTCTCATTTTTCG-AAAAACATGTGAAAACATTC-TGC
* * *
799120 CCGAAGGTCTTATAAATGGCCTGAAGGACTTATTATCTTTCTCAAAAGACTTACAAATGA-CTCG
511 CCGAAGGTCTTATAAATGGCCCGAAGGACTTATCATCTTGCTCAAAAGACTTACAAATGACCT-G
* * * * * *
799184 AAGGATTTAAGCATCATTATGAAAAGACTTACTGATGGTCCGAAGGACTTACCAATTTTGGAAAC
575 AAGGATTTAAGAATCATGATCAAAAGAATTACTGATGGCCCAAAGGACTTACCAATTTTGGAAAC
799249 AATTTACTAGGTA
640 AATTTACTAGGTA
799262 AGAAACCTTT
1 AGAAACCTTT
799272 ATTACTTTTC
Statistics
Matches: 564, Mismatches: 85, Indels: 24
0.84 0.13 0.04
Matches are distributed among these distances:
648 2 0.00
649 94 0.17
650 240 0.43
651 26 0.05
652 195 0.35
653 7 0.01
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.31
Consensus pattern (652 bp):
AGAAACCTTTCTCATTTTGGTAAAAACATGTGAAAACATCATGCCCGAAGGTCTTATGGATGGCC
TGAAAGACTTATCATCGTGCTCGAAAGACTTACAAATAACCCAAAAGATCTAAGAATCATGCTAG
AAAGAATGACCGATGGCCCAAAGGACTTACCAATTTTGGAAACAGTTTACCAGGTAAGAAACCTT
TCTAACATTTAAAAAAAATCAATTTTCAAATTTAAATGAGAAACCTTTCTCAGATTTTAAAAAAA
CATGTAAAAACATCATGCCTGAAGGTCTTATGAATGGTCTGAATGACTTATCATCTTGATCGAAA
GACTAACAGATGACCCGAAGGATTTAAGCATCATACTCGAAAGATTACTGATGGCCCGAAGGACT
TACCAATTTCGGAAACAATTTACTAGGTAAGAAACATTTCTTACTTTTCAAAAATTTCAATTCTC
AGAATTAAATGAAAAACCTTTCTCATTTTTCGAAAAACATGTGAAAACATTCTGCCCGAAGGTCT
TATAAATGGCCCGAAGGACTTATCATCTTGCTCAAAAGACTTACAAATGACCTGAAGGATTTAAG
AATCATGATCAAAAGAATTACTGATGGCCCAAAGGACTTACCAATTTTGGAAACAATTTACTAGG
TA
Found at i:800741 original size:465 final size:465
Alignment explanation
Indices: 798612--800777 Score: 2616
Period size: 465 Copynumber: 4.7 Consensus size: 465
798602 TTGCTTGGTA
* * * *
798612 AGAAACCTTTCTCATTTTTTTAG--AGACATGTGAAAACATCATGCCCGAAGGTCTTATGGATGG
1 AGAAACCTTTCTCA-TTTTTCAGAAAAACATGTGAAAACATCCTGCCCGAAGGTCTTATGAATGG
* * * * * *
798675 CTCGAATGACTTATCATCTTGCTCGAAAGACTTACAGATAACCTGAAGGATTTAAGAATCATGCT
65 CCCGAAGGACTTATCATCTTTCTCGAAAGACTTACAGATGACCCGAAGGATTTAAGCATCATGCT
* * * * *
798740 CAAAAGAATTACCGATGGCCCAAAGGACTTACCAATTTTGGAAATAGTTTACCAGGTAAGAAACC
130 CAAAAGACTTACTGATGG-TCGAAGGACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAACC
* * * * * *
798805 TTTCTAACTTTTAAAAAAATTTCAA-TTTGAGAATTAAATGAGAAACCTTTCT-TAATTTTCAAA
194 TTTCTTACTTTT-CAAAAATTTCAATTTTCAGATTTAAATGAGAAACCTTTCTCT-TTTTTCGAA
** * *
798868 AAACATGTGAAAACATCCT-CCTGAAGGTCTTATGAATGGTTCGAAGAACTTATCATCTTGATCG
257 AAACATGTGAAAACATCCTACCTGAAGGTCTTATGAATGGCCCGAAGGACTTATCATCTTGCTCG
* * * *
798932 AAATACTAACAGATGACCCGAAGGATTTAAGCATCATGCTCAAAGACTTACTTATGGCCCGAAGG
322 AAAGACTTACAGATGACCCAAAGGATTTAAGCATCATGCTCAAAGACTTACTGATGGCCCGAAGG
**
798997 ACTT-TTAATTTTGGAAACAGTTTACTAGGTAAGAAACCTTTCTTACTTTTCAAAAATTTCAATT
387 ACTTACCAATTTTGGAAACAGTTTACTAGGTAAGAAACCTTTCTTACTTTTCAAAAATTTCAATT
* *
799061 CTCAAATTTAAATG
452 TTCAGATTTAAATG
* * *
799075 AGAAACCTTTCTCATTTTT-TGAAAAAACATGTGAAAACATCATGCCCGAAGGTCTTATAAATGG
1 AGAAACCTTTCTCATTTTTCAG-AAAAACATGTGAAAACATCCTGCCCGAAGGTCTTATGAATGG
* * * * * **
799139 CCTGAAGGACTTATTATCTTTCTCAAAAGACTTACAAATGACTCGAAGGATTTAAGCATCATTAT
65 CCCGAAGGACTTATCATCTTTCTCGAAAGACTTACAGATGACCCGAAGGATTTAAGCATCATGCT
* * *
799204 GAAAAGACTTACTGATGGTCCGAAGGACTTACCAATTTTGGAAACAATTTACTAGGTAAGAAACC
130 CAAAAGACTTACTGATGGT-CGAAGGACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAACC
* * ** *
799269 TTTATTACTTTTCAAAAATTTCAATTTTCAGATTCAAATGAGAAACCTTTCTCAATTTTCAAAAA
194 TTTCTTACTTTTCAAAAATTTCAATTTTCAGATTTAAATGAGAAACCTTTCTCTTTTTTCGAAAA
* * * * * * * *
799334 ACATGTGAAAACATCCTGCCCGAAGGTCTTATAAATGGCCCTAAGAACTTATCTTCTTTCTCGGA
259 ACATGTGAAAACATCCTACCTGAAGGTCTTATGAATGGCCCGAAGGACTTATCATCTTGCTCGAA
* * * * *
799399 AGACTTACAGATGACCCGAAGAATTTAAGAATCATGCTCAAATGACTTATTGATGGCCTGAAGGA
324 AGACTTACAGATGACCCAAAGGATTTAAGCATCATGCTCAAA-GACTTACTGATGGCCCGAAGGA
* * * * *
799464 CTTATCAAGTTTGGAAATAGTTTACTAGGTAAGAAACCTTTCTTACTTCTCAAAATTTTCAATTT
388 CTTACCAATTTTGGAAACAGTTTACTAGGTAAGAAACCTTTCTTACTTTTCAAAAATTTCAATTT
*
799529 TTAGATTTAAATG
453 TCAGATTTAAATG
* * * * * * * *
799542 AGAAACCTTTCT-ATTTTTTAGACAGATACGTGAAAACATCCTACCCGAAGGTCTTATGGATAGC
1 AGAAACCTTTCTCATTTTTCAGAAAAACATGTGAAAACATCCTGCCCGAAGGTCTTATGAATGGC
*
799606 CCGAAGGA-TTATCAACTTTC-CTGAAAGACTTACAGATGACCCGAAGGATTTAAGCATCATGCT
66 CCGAAGGACTTATCATCTTTCTC-GAAAGACTTACAGATGACCCGAAGGATTTAAGCATCATGCT
* * *
799669 CGAAAGACTTACTGAT-TTCACGAAGGACTTATCAATTTTGGAAATAGTTTACTAGGTAAGAAAC
130 CAAAAGACTTACTGATGGT--CGAAGGACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAAC
* *
799733 CTTTCTTA-TTTTCAAAAATTTCAATTTTTAGATTTAAATGAGAAACCTTTCTCTTTTTTAGACA
193 CTTTCTTACTTTTCAAAAATTTCAATTTTCAGATTTAAATGAGAAACCTTTCTCTTTTTTCGA-A
* * * * * * * *
799797 GATACA--TGAAAACATCCTATCTGAA-GTCTTGTGGATGGCCGGAATGACTTATCATTTTTCTC
257 -AAACATGTGAAAACATCCTACCTGAAGGTCTTATGAATGGCCCGAAGGACTTATCATCTTGCTC
* * * *
799859 AAAAGACTTACAGATAACCCAAAGGATTTAAGCATTAGGCTCGAAAGACTTACTGATGGCCCGAA
321 GAAAGACTTACAGATGACCCAAAGGATTTAAGCATCATGCTC-AAAGACTTACTGATGGCCCGAA
*
799924 GGATTTACCAATTTTGGAAACA-TGTTACTAGGTAAGAAACCTTTCTTACTTTTCAAAAATTTCA
385 GGACTTACCAATTTTGGAAACAGT-TTACTAGGTAAGAAACCTTTCTTACTTTTCAAAAATTTCA
* *
799988 ATTTTTATATTTAAATG
449 ATTTTCAGATTTAAATG
* * * *
800005 AGAAACTTTTCTC--TTTTCTAGACAAAA-ACGTGAAAACATTCTGCCCGAAAGTCTTAT-AGAT
1 AGAAACCTTTCTCATTTTTC-AGA-AAAACATGTGAAAACATCCTGCCCGAAGGTCTTATGA-AT
* * * **
800066 GGCACGGAA-GACTTATCATCTTGCTCGAAAGACTTACAGGTGACCCGAATAATTTAAGCATCAT
63 GGC-CCGAAGGACTTATCATCTTTCTCGAAAGACTTACAGATGACCCGAAGGATTTAAGCATCAT
* * * * * * *
800130 GGTCGAAAGACTTACTGATGGCTCGAAGGACTTACCGATTTTAGAAACAATTTACTAAGTAAGAA
127 GCTCAAAAGACTTACTGATGG-TCGAAGGACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAA
* *
800195 ATCTTTCTTACTTTTCAAAAATTTCAATTTTCAGATTTAAATGAGAAACCTTTCTCATTTTTCGA
191 ACCTTTCTTACTTTTCAAAAATTTCAATTTTCAGATTTAAATGAGAAACCTTTCTCTTTTTTCGA
* * * **
800260 AAAACATATG-AAACATCATGCCCAAAGGTCTTAT-AATTGGCCCGAAGGACTTATCATCTTGCT
256 AAAACATGTGAAAACATCCTACCTGAAGGTCTTATGAA-TGGCCCGAAGGACTTATCATCTTGCT
*
800323 CGAAAGACTTACAGATGACCCAAAGGATTTAAGCATCATGCTCGAAAGACGTACTGATGGCCCGA
320 CGAAAGACTTACAGATGACCCAAAGGATTTAAGCATCATGCTC-AAAGACTTACTGATGGCCCGA
*
800388 AGGACTTACCAATTTTGGAAACAGTTTACTAGGTAAGAAACCTTTCTTACTTTTTAAAAATTTCA
384 AGGACTTACCAATTTTGGAAACAGTTTACTAGGTAAGAAACCTTTCTTACTTTTCAAAAATTTCA
*
800453 ATTTTCAGATTCAAATG
449 ATTTTCAGATTTAAATG
* * * *
800470 AGAAACTTTTCTCAATTTTCA-AAAAACATGTGAAAACATCCTTCCCGAAGGTCTTTTGAATGGC
1 AGAAACCTTTCTCATTTTTCAGAAAAACATGTGAAAACATCCTGCCCGAAGGTCTTATGAATGGC
* * * * * ** * *
800534 CCGGATGACTTATCATCTTTCTCGGAAGACTTACAAATAACTTGAAGAATTTAAGAATCATGCTC
66 CCGAAGGACTTATCATCTTTCTCGAAAGACTTACAGATGACCCGAAGGATTTAAGCATCATGCTC
* * *
800599 AAAAGACTTATTGATGGTCGAAGGACTTATCAATTTTGGAAATAGTTTACTAGGAAAGAAACCTT
131 AAAAGACTTACTGATGGTCGAAGGACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAACCTT
* * * * * *
800664 TCTTACTTTTCAAAAATTTCAATTTTTAGATTTAAATGAGAAACATTTCTCTTTTTTGGACAGAT
196 TCTTACTTTTCAAAAATTTCAATTTTCAGATTTAAATGAGAAACCTTTCTCTTTTTTCGAAAAAC
* * * *
800729 ACGTGAAAACATCCTACCTAAAGGTCTTGTGGATGGCCCGAAGGACTTA
261 ATGTGAAAACATCCTACCTGAAGGTCTTATGAATGGCCCGAAGGACTTA
800778 CCAATTTTGG
Statistics
Matches: 1457, Mismatches: 208, Indels: 74
0.84 0.12 0.04
Matches are distributed among these distances:
461 1 0.00
462 10 0.01
463 227 0.16
464 511 0.35
465 546 0.37
466 78 0.05
467 84 0.06
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.32
Consensus pattern (465 bp):
AGAAACCTTTCTCATTTTTCAGAAAAACATGTGAAAACATCCTGCCCGAAGGTCTTATGAATGGC
CCGAAGGACTTATCATCTTTCTCGAAAGACTTACAGATGACCCGAAGGATTTAAGCATCATGCTC
AAAAGACTTACTGATGGTCGAAGGACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAACCTT
TCTTACTTTTCAAAAATTTCAATTTTCAGATTTAAATGAGAAACCTTTCTCTTTTTTCGAAAAAC
ATGTGAAAACATCCTACCTGAAGGTCTTATGAATGGCCCGAAGGACTTATCATCTTGCTCGAAAG
ACTTACAGATGACCCAAAGGATTTAAGCATCATGCTCAAAGACTTACTGATGGCCCGAAGGACTT
ACCAATTTTGGAAACAGTTTACTAGGTAAGAAACCTTTCTTACTTTTCAAAAATTTCAATTTTCA
GATTTAAATG
Found at i:801460 original size:98 final size:98
Alignment explanation
Indices: 801348--801539 Score: 384
Period size: 98 Copynumber: 2.0 Consensus size: 98
801338 GTGTGAGTGT
801348 GTGTGTGTGTGCATGTATGCACGCATGCACGTGTGTGTGTGCATGTATGCACGCATGCACGTGTG
1 GTGTGTGTGTGCATGTATGCACGCATGCACGTGTGTGTGTGCATGTATGCACGCATGCACGTGTG
801413 TGTGTGCATGTATGCACGCATGCACGCATGCAC
66 TGTGTGCATGTATGCACGCATGCACGCATGCAC
801446 GTGTGTGTGTGCATGTATGCACGCATGCACGTGTGTGTGTGCATGTATGCACGCATGCACGTGTG
1 GTGTGTGTGTGCATGTATGCACGCATGCACGTGTGTGTGTGCATGTATGCACGCATGCACGTGTG
801511 TGTGTGCATGTATGCACGCATGCACGCAT
66 TGTGTGCATGTATGCACGCATGCACGCAT
801540 ATGCATGTAT
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
98 94 1.00
ACGTcount: A:0.17, C:0.21, G:0.33, T:0.29
Consensus pattern (98 bp):
GTGTGTGTGTGCATGTATGCACGCATGCACGTGTGTGTGTGCATGTATGCACGCATGCACGTGTG
TGTGTGCATGTATGCACGCATGCACGCATGCAC
Found at i:801539 original size:38 final size:30
Alignment explanation
Indices: 801348--801536 Score: 306
Period size: 30 Copynumber: 6.0 Consensus size: 30
801338 GTGTGAGTGT
801348 GTGTGTGTGTGCATGTATGCACGCATGCAC
1 GTGTGTGTGTGCATGTATGCACGCATGCAC
801378 GTGTGTGTGTGCATGTATGCACGCATGCAC
1 GTGTGTGTGTGCATGTATGCACGCATGCAC
801408 GTGTGTGTGTGCATGTATGCACGCATGCACGCATGCAC
1 GTGTGTGTGTGCATG--T------ATGCACGCATGCAC
801446 GTGTGTGTGTGCATGTATGCACGCATGCAC
1 GTGTGTGTGTGCATGTATGCACGCATGCAC
801476 GTGTGTGTGTGCATGTATGCACGCATGCAC
1 GTGTGTGTGTGCATGTATGCACGCATGCAC
801506 GTGTGTGTGTGCATGTATGCACGCATGCAC
1 GTGTGTGTGTGCATGTATGCACGCATGCAC
801536 G
1 G
801537 CATATGCATG
Statistics
Matches: 151, Mismatches: 0, Indels: 16
0.90 0.00 0.10
Matches are distributed among these distances:
30 120 0.79
32 1 0.01
36 1 0.01
38 29 0.19
ACGTcount: A:0.17, C:0.21, G:0.33, T:0.29
Consensus pattern (30 bp):
GTGTGTGTGTGCATGTATGCACGCATGCAC
Found at i:808590 original size:3 final size:3
Alignment explanation
Indices: 808582--808650 Score: 122
Period size: 3 Copynumber: 23.3 Consensus size: 3
808572 TGCAAACGAA
*
808582 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT GAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
808630 AAT AAT AAT AAT AA- AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT A
808651 TTAGATCTTT
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
2 2 0.03
3 61 0.97
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:811633 original size:31 final size:32
Alignment explanation
Indices: 811567--811634 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 32
811557 GCCCCCTAAA
* * * *
811567 TTTTAAAAATTATAATTTATACCCTTGAAACT
1 TTTTAAAAAATATAATTTATACCCCTCAAAAT
811599 TTTTAAAAAAT-TAATTTGAT-CCCCTCAAAAT
1 TTTTAAAAAATATAATTT-ATACCCCTCAAAAT
811630 TTTTA
1 TTTTA
811635 GAAATTCATA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
31 19 0.61
32 12 0.39
ACGTcount: A:0.40, C:0.13, G:0.03, T:0.44
Consensus pattern (32 bp):
TTTTAAAAAATATAATTTATACCCCTCAAAAT
Found at i:820277 original size:32 final size:31
Alignment explanation
Indices: 820204--820281 Score: 102
Period size: 31 Copynumber: 2.5 Consensus size: 31
820194 GTATTTGTTT
* *
820204 TTGGCCTTAGTGGCATAAGTGGATTTAATTC
1 TTGGCCTTAGTGGCATAAGTGCAATTAATTC
** *
820235 TTGGCCTTAGTGGCATAAGTGCAATTGCTTG
1 TTGGCCTTAGTGGCATAAGTGCAATTAATTC
820266 TGTGGCCTTAGTGGCA
1 T-TGGCCTTAGTGGCA
820282 ATTGCTTATT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
31 27 0.66
32 14 0.34
ACGTcount: A:0.19, C:0.15, G:0.29, T:0.36
Consensus pattern (31 bp):
TTGGCCTTAGTGGCATAAGTGCAATTAATTC
Found at i:822685 original size:2 final size:2
Alignment explanation
Indices: 822678--822730 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
822668 TTTTTAAAAC
822678 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
822720 AT AT AT AT AT A
1 AT AT AT AT AT A
822731 CCCCATCCCA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:822919 original size:24 final size:24
Alignment explanation
Indices: 822892--822991 Score: 94
Period size: 24 Copynumber: 4.2 Consensus size: 24
822882 AGATATCAAA
*
822892 ATCAAAACATAATTCAGATCAGAT
1 ATCAAAACAGAATTCAGATCAGAT
* * * *
822916 ATCATAACAGAATCCAGTTTAGGA-
1 ATCAAAACAGAATTCAGATCA-GAT
* *
822940 ATCAGAACAGATTTCAGATCAGAT
1 ATCAAAACAGAATTCAGATCAGAT
* * *
822964 GTCAAAACAGAATTCAAATCAGAA
1 ATCAAAACAGAATTCAGATCAGAT
822988 ATCA
1 ATCA
822992 GATAAAATAT
Statistics
Matches: 58, Mismatches: 16, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
23 2 0.03
24 54 0.93
25 2 0.03
ACGTcount: A:0.47, C:0.17, G:0.13, T:0.23
Consensus pattern (24 bp):
ATCAAAACAGAATTCAGATCAGAT
Found at i:822991 original size:48 final size:48
Alignment explanation
Indices: 822886--822993 Score: 119
Period size: 48 Copynumber: 2.3 Consensus size: 48
822876 AAACGGAGAT
* * * *
822886 ATCA-AAATCAAAACATAATTCAGATCAGATATCATAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
* * * * * *
822933 TTTAGGAATCAGAACAGATTTCAGATCAGATGTCAAAACAGAATTCAA
1 ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
822981 ATCAGAAATCAGA
1 ATCAGAAATCAGA
822994 TAAAATATTC
Statistics
Matches: 47, Mismatches: 13, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
47 2 0.04
48 45 0.96
ACGTcount: A:0.48, C:0.17, G:0.13, T:0.22
Consensus pattern (48 bp):
ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
Found at i:825487 original size:7 final size:7
Alignment explanation
Indices: 825475--825506 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
825465 TGGTCAACTC
825475 CGGTCAA
1 CGGTCAA
825482 CGGTCAA
1 CGGTCAA
825489 CGGGTCAA
1 C-GGTCAA
825497 CGGTCAA
1 CGGTCAA
825504 CGG
1 CGG
825507 GTCGGGTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.25, C:0.28, G:0.34, T:0.12
Consensus pattern (7 bp):
CGGTCAA
Found at i:825496 original size:8 final size:8
Alignment explanation
Indices: 825476--825522 Score: 59
Period size: 8 Copynumber: 6.5 Consensus size: 8
825466 GGTCAACTCC
825476 GGTCAAC-
1 GGTCAACG
825483 GGTCAACG
1 GGTCAACG
825491 GGTCAAC-
1 GGTCAACG
825498 GGTCAACG
1 GGTCAACG
825506 GGT---CG
1 GGTCAACG
825511 GGTCAACG
1 GGTCAACG
825519 GGTC
1 GGTC
825523 GGGTAAACGG
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
5 5 0.14
7 14 0.40
8 16 0.46
ACGTcount: A:0.21, C:0.26, G:0.38, T:0.15
Consensus pattern (8 bp):
GGTCAACG
Found at i:825496 original size:15 final size:15
Alignment explanation
Indices: 825476--825522 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
825466 GGTCAACTCC
825476 GGTCAACGGTCAACG
1 GGTCAACGGTCAACG
825491 GGTCAACGGTCAACG
1 GGTCAACGGTCAACG
*
825506 GGTC--GGGTCAACG
1 GGTCAACGGTCAACG
825519 GGTC
1 GGTC
825523 GGGTAAACGG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 12 0.39
15 19 0.61
ACGTcount: A:0.21, C:0.26, G:0.38, T:0.15
Consensus pattern (15 bp):
GGTCAACGGTCAACG
Found at i:825516 original size:13 final size:13
Alignment explanation
Indices: 825483--825571 Score: 88
Period size: 13 Copynumber: 6.3 Consensus size: 13
825473 TCCGGTCAAC
*
825483 GGTCAACGGGTCAAC
1 GGTCAACGGGTC--G
825498 GGTCAACGGGTCG
1 GGTCAACGGGTCG
825511 GGTCAACGGGTCG
1 GGTCAACGGGTCG
*
825524 GGTAAACGGGTCGGGTCG
1 GGTCAA-----CGGGTCG
825542 GGTCAACGGGTCG
1 GGTCAACGGGTCG
*
825555 GGTAAACGGGTCG
1 GGTCAACGGGTCG
825568 GGTC
1 GGTC
825572 GGGTTGTGAC
Statistics
Matches: 64, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
13 40 0.62
15 12 0.19
18 12 0.19
ACGTcount: A:0.18, C:0.21, G:0.45, T:0.16
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:825538 original size:18 final size:18
Alignment explanation
Indices: 825517--825575 Score: 74
Period size: 18 Copynumber: 3.6 Consensus size: 18
825507 GTCGGGTCAA
825517 CGGGTCGGGTAAACGGGT
1 CGGGTCGGGTAAACGGGT
*
825535 CGGGTCGGGTCAA-----
1 CGGGTCGGGTAAACGGGT
825548 CGGGTCGGGTAAACGGGT
1 CGGGTCGGGTAAACGGGT
825566 CGGGTCGGGT
1 CGGGTCGGGT
825576 TGTGACCGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
13 12 0.35
18 22 0.65
ACGTcount: A:0.14, C:0.19, G:0.51, T:0.17
Consensus pattern (18 bp):
CGGGTCGGGTAAACGGGT
Found at i:825542 original size:31 final size:31
Alignment explanation
Indices: 825504--825575 Score: 144
Period size: 31 Copynumber: 2.3 Consensus size: 31
825494 CAACGGTCAA
825504 CGGGTCGGGTCAACGGGTCGGGTAAACGGGT
1 CGGGTCGGGTCAACGGGTCGGGTAAACGGGT
825535 CGGGTCGGGTCAACGGGTCGGGTAAACGGGT
1 CGGGTCGGGTCAACGGGTCGGGTAAACGGGT
825566 CGGGTCGGGT
1 CGGGTCGGGT
825576 TGTGACCGGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.14, C:0.19, G:0.50, T:0.17
Consensus pattern (31 bp):
CGGGTCGGGTCAACGGGTCGGGTAAACGGGT
Found at i:827571 original size:19 final size:20
Alignment explanation
Indices: 827544--827586 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
827534 TTATTTATTT
827544 ATTTAAAAAATAA-AAAT-AA
1 ATTT-AAAAATAATAAATCAA
*
827563 ATTTTAAAATAATAAATCAA
1 ATTTAAAAATAATAAATCAA
827583 ATTT
1 ATTT
827587 CCAGCTACTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 7 0.33
19 8 0.38
20 6 0.29
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (20 bp):
ATTTAAAAATAATAAATCAA
Found at i:827584 original size:20 final size:18
Alignment explanation
Indices: 827550--827586 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 18
827540 ATTTATTTAA
827550 AAAATAAAAATAAATTTT
1 AAAATAAAAATAAATTTT
827568 AAAATAATAAATCAAATTT
1 AAAATAA-AAAT-AAATTT
827587 CCAGCTACTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 4 0.24
20 6 0.35
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAATAAAAATAAATTTT
Found at i:831023 original size:9 final size:9
Alignment explanation
Indices: 831009--831035 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
830999 GGTAATAAAT
831009 TTATATACA
1 TTATATACA
831018 TTATATACA
1 TTATATACA
831027 TTATATACA
1 TTATATACA
831036 AACTCATATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (9 bp):
TTATATACA
Found at i:836451 original size:24 final size:24
Alignment explanation
Indices: 836419--836506 Score: 113
Period size: 24 Copynumber: 3.7 Consensus size: 24
836409 ATTTCCGACT
* *
836419 TGAATTCTGTTCTGATATATTACC
1 TGAATTCTGTTCTGATATCTTATC
* *
836443 TGAATTCTGTTCTGATTTCTGATC
1 TGAATTCTGTTCTGATATCTTATC
* *
836467 TGGATTCTGTTATGATATCTTATC
1 TGAATTCTGTTCTGATATCTTATC
*
836491 TGAATTCTGTTTTGAT
1 TGAATTCTGTTCTGAT
836507 TTCTGATATC
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 54 1.00
ACGTcount: A:0.20, C:0.14, G:0.16, T:0.50
Consensus pattern (24 bp):
TGAATTCTGTTCTGATATCTTATC
Found at i:836457 original size:12 final size:12
Alignment explanation
Indices: 836442--836511 Score: 54
Period size: 12 Copynumber: 5.8 Consensus size: 12
836432 GATATATTAC
836442 CTGAATTCTGTT
1 CTGAATTCTGTT
* *
836454 CTGATTTCTGAT
1 CTGAATTCTGTT
*
836466 CTGGATTCTGTT
1 CTGAATTCTGTT
*
836478 ATG-ATATCT-TAT
1 CTGAAT-TCTGT-T
836490 CTGAATTCTGTT
1 CTGAATTCTGTT
* *
836502 TTGATTTCTG
1 CTGAATTCTG
836512 ATATCTCTGT
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
11 3 0.07
12 39 0.87
13 3 0.07
ACGTcount: A:0.17, C:0.14, G:0.17, T:0.51
Consensus pattern (12 bp):
CTGAATTCTGTT
Found at i:836474 original size:48 final size:48
Alignment explanation
Indices: 836422--836513 Score: 148
Period size: 48 Copynumber: 1.9 Consensus size: 48
836412 TCCGACTTGA
*
836422 ATTCTGTTCTGATATATTACCTGAATTCTGTTCTGATTTCTGATCTGG
1 ATTCTGTTATGATATATTACCTGAATTCTGTTCTGATTTCTGATCTGG
* * *
836470 ATTCTGTTATGATATCTTATCTGAATTCTGTTTTGATTTCTGAT
1 ATTCTGTTATGATATATTACCTGAATTCTGTTCTGATTTCTGAT
836514 ATCTCTGTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.20, C:0.14, G:0.15, T:0.51
Consensus pattern (48 bp):
ATTCTGTTATGATATATTACCTGAATTCTGTTCTGATTTCTGATCTGG
Found at i:837795 original size:79 final size:79
Alignment explanation
Indices: 837646--837795 Score: 192
Period size: 79 Copynumber: 1.9 Consensus size: 79
837636 CGATAAGGGA
* * * *
837646 GAATAAGTTCATAATGAGAAGAACTTGTTCAACTTTTGATTGATCCCATCACAGAAAGAGATGGA
1 GAATAAGTTCATAATGAGAAGAACTTGTTCAACCTTAGATCGATCCCATCACAGAAAGAGATAGA
*
837711 TCAACATTCCCAAT
66 ACAACATTCCCAAT
* * * * * * *
837725 GAATAAGTTCATAATGAGAATAACTTGTTCAACCTTAGCTCGTTTCCATCACATAAGGAGTTAGA
1 GAATAAGTTCATAATGAGAAGAACTTGTTCAACCTTAGATCGATCCCATCACAGAAAGAGATAGA
837790 ACAACA
66 ACAACA
837796 CCAATACTTT
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
79 59 1.00
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (79 bp):
GAATAAGTTCATAATGAGAAGAACTTGTTCAACCTTAGATCGATCCCATCACAGAAAGAGATAGA
ACAACATTCCCAAT
Found at i:838078 original size:203 final size:203
Alignment explanation
Indices: 837729--838246 Score: 697
Period size: 203 Copynumber: 2.6 Consensus size: 203
837719 CCCAATGAAT
* *
837729 AAGTTCATAATGAGAATAACTTGTTCAACCTTAGCTCGTTTCCATCACATAAGGAGTTAGAACAA
1 AAGTTCATAATGAGAAGAACTTGTTCAACCTTAGCTCGTTTCCATCACATAAGGAGTT-GAATAA
* * * *
837794 CACCAATACTTTGTTGATCCATCGCAAATGGAGTTTGATCAGCATCATCACTTTGTTAAAATCCA
65 CACCAATACTTGGCTCATCCATCGCAAATGGAGTTGGATCAGCATCATCACTTTGTTAAAATCCA
* *
837859 TCACAGAAGGAGGTGGATCAACATTTCCAGTGG-AGAGTTCATAATGAGAAGAACTCATCCGATG
130 TCACAGAAGGAGGTGGATCAACATTTCCAATGGAAGAGTTCATAATGAGAAGAACACATCCGATG
837923 AGGGAGAAG
195 AGGGAGAAG
*
837932 AAGTTCATAATGAGAAGAACTTGTTCAACCTTAGCTCATTTCCATCACATAAGGAGTTGTAATAT
1 AAGTTCATAATGAGAAGAACTTGTTCAACCTTAGCTCGTTTCCATCACATAAGGAGTTG-AATA-
* * * ** *
837997 A-ACTAATACTTGGCTCATCCATCGTATAA-GGAGTTGGATCATCATCATCACTTTGTTCGATTC
64 ACACCAATACTTGGCTCATCCATCGCA-AATGGAGTTGGATCAGCATCATCACTTTGTTAAAATC
* *
838060 CATCATAGAAGGAGGTGGATCAACATTTCCAATGGAAGGGTTCATAATGAGAAGAACACATCCGA
128 CATCACAGAAGGAGGTGGATCAACATTTCCAATGGAAGAGTTCATAATGAGAAGAACACATCCGA
*
838125 TGATGGAGAAG
193 TGAGGGAGAAG
* * *
838136 AAGTTCATAATGAGAAGAATTTGTTTAACCTTAGCTCGTTTCCATCACATAAGGAGTTGGAATAG
1 AAGTTCATAATGAGAAGAACTTGTTCAACCTTAGCTCGTTTCCATCACATAAGGAGTT-GAATAA
* * * ** *
838201 CACCGA-CCTTGGATCATCCATAACATAA-GGAGTTGGAT-AACATCAT
65 CACCAATACTTGGCTCATCCATCGCA-AATGGAGTTGGATCAGCATCAT
838247 TATTTCTCTT
Statistics
Matches: 279, Mismatches: 30, Indels: 13
0.87 0.09 0.04
Matches are distributed among these distances:
202 8 0.03
203 168 0.60
204 102 0.37
205 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (203 bp):
AAGTTCATAATGAGAAGAACTTGTTCAACCTTAGCTCGTTTCCATCACATAAGGAGTTGAATAAC
ACCAATACTTGGCTCATCCATCGCAAATGGAGTTGGATCAGCATCATCACTTTGTTAAAATCCAT
CACAGAAGGAGGTGGATCAACATTTCCAATGGAAGAGTTCATAATGAGAAGAACACATCCGATGA
GGGAGAAG
Found at i:840326 original size:29 final size:29
Alignment explanation
Indices: 840250--840326 Score: 127
Period size: 29 Copynumber: 2.7 Consensus size: 29
840240 CTTCCCAGCA
* *
840250 TAGGTCGCCATGCACTTCGGGCGACCTTG
1 TAGGTCGCCATGCACTCCTGGCGACCTTG
840279 TAGGTCGCCATGCACTCCTGGCGACCTTG
1 TAGGTCGCCATGCACTCCTGGCGACCTTG
*
840308 TAGGTCGCCATGTACTCCT
1 TAGGTCGCCATGCACTCCT
840327 CCTGCTCCTC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.14, C:0.32, G:0.27, T:0.26
Consensus pattern (29 bp):
TAGGTCGCCATGCACTCCTGGCGACCTTG
Found at i:840433 original size:14 final size:14
Alignment explanation
Indices: 840387--840426 Score: 80
Period size: 14 Copynumber: 2.9 Consensus size: 14
840377 CTCGAATGGT
840387 CTCGGTCGGATGCC
1 CTCGGTCGGATGCC
840401 CTCGGTCGGATGCC
1 CTCGGTCGGATGCC
840415 CTCGGTCGGATG
1 CTCGGTCGGATG
840427 GCTTCGGATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.07, C:0.33, G:0.38, T:0.23
Consensus pattern (14 bp):
CTCGGTCGGATGCC
Found at i:843571 original size:3 final size:3
Alignment explanation
Indices: 843563--843627 Score: 130
Period size: 3 Copynumber: 21.7 Consensus size: 3
843553 CAAAACAAAA
843563 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
843611 AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
843628 ATATTGGTAA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:851228 original size:14 final size:14
Alignment explanation
Indices: 851204--851243 Score: 71
Period size: 14 Copynumber: 2.8 Consensus size: 14
851194 CTCATGAATA
851204 ATATCGATACTGTTC
1 ATAT-GATACTGTTC
851219 ATATGATACTGTTC
1 ATATGATACTGTTC
851233 ATATGATACTG
1 ATATGATACTG
851244 ATACCAAAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 21 0.84
15 4 0.16
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (14 bp):
ATATGATACTGTTC
Found at i:854581 original size:15 final size:15
Alignment explanation
Indices: 854561--854597 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
854551 CAAATAGTGA
854561 GGAGGAGTTTACGAG
1 GGAGGAGTTTACGAG
854576 GGAGGAGTTTACGAG
1 GGAGGAGTTTACGAG
854591 GGAGGAG
1 GGAGGAG
854598 AGCAATATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.27, C:0.05, G:0.51, T:0.16
Consensus pattern (15 bp):
GGAGGAGTTTACGAG
Found at i:858275 original size:3 final size:3
Alignment explanation
Indices: 858267--858321 Score: 78
Period size: 3 Copynumber: 18.7 Consensus size: 3
858257 CTGAGTTTTA
*
858267 ATT ATT ATT ATT ATT ATT ATT ATT -TA ATT -TT ATT ATT ATT ACTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT
858311 ATT ATT ATT AT
1 ATT ATT ATT AT
858322 GAATAAAATA
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
2 3 0.06
3 41 0.87
4 3 0.06
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:858301 original size:19 final size:19
Alignment explanation
Indices: 858267--858321 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
858257 CTGAGTTTTA
858267 ATTA-TTATTATTATTATT
1 ATTACTTATTATTATTATT
*
858285 ATTATTTAATT-TTATTATT
1 ATTACTT-ATTATTATTATT
858304 ATTACTTATTATTATTAT
1 ATTACTTATTATTATTAT
858322 GAATAAAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
18 7 0.21
19 23 0.70
20 3 0.09
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (19 bp):
ATTACTTATTATTATTATT
Found at i:864806 original size:24 final size:24
Alignment explanation
Indices: 864775--864896 Score: 75
Period size: 22 Copynumber: 5.3 Consensus size: 24
864765 AAATAGATAG
864775 AGAGAAAAGATAGAAAAAGAAGAATA
1 AGAGAAAAGATAGAAAAA-AAGAA-A
864801 A-A-AAAAG--AGAAAAAAAGAAA
1 AGAGAAAAGATAGAAAAAAAGAAA
* *
864821 AGAGAAAAGATAGAGAAATATG--A
1 AGAGAAAAGATAGA-AAAAAAGAAA
* *
864844 AG-GAAAA-AGAG-AAGAAAGAAA
1 AGAGAAAAGATAGAAAAAAAGAAA
* * *
864865 AGGGAAAAGTTAGAAGAAGAAGAAA
1 AGAGAAAAGATAGAA-AAAAAGAAA
864890 A-AGAAAA
1 AGAGAAAA
864897 AGAGCAAAAG
Statistics
Matches: 74, Mismatches: 11, Indels: 24
0.68 0.10 0.22
Matches are distributed among these distances:
19 4 0.05
20 2 0.03
21 12 0.16
22 22 0.30
23 5 0.07
24 14 0.19
25 14 0.19
26 1 0.01
ACGTcount: A:0.70, C:0.00, G:0.25, T:0.06
Consensus pattern (24 bp):
AGAGAAAAGATAGAAAAAAAGAAA
Found at i:864825 original size:46 final size:44
Alignment explanation
Indices: 864775--864938 Score: 147
Period size: 44 Copynumber: 3.7 Consensus size: 44
864765 AAATAGATAG
864775 AGAGAAAAGATAGAAAAAGAAGAATAAAAAAAGAGAAAAAAAGAAA
1 AGAGAAAAGATAGAAAAAGAAGAA-AAAAAAAGAG-AAAAAAGAAA
* * * ** *
864821 AGAGAAAAGATAGAGAAATATGAAGGAAAAAGAGAAGAAAGAAA
1 AGAGAAAAGATAGAAAAAGAAGAAAAAAAAAGAGAAAAAAGAAA
* * * *
864865 AGGGAAAAGTTAGAAGAAGAAGAAAAAGAAAA-AGAGCAAAAGAAA
1 AGAGAAAAGATAGAAAAAGAAGAAAAA-AAAAGAGA-AAAAAGAAA
* * *
864910 A-AGAAAA-AGAGCAAAAGAA-AAAGAAAAAG
1 AGAGAAAAGATAGAAAAAGAAGAAAAAAAAAG
864939 GATAAGAAAA
Statistics
Matches: 93, Mismatches: 22, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
41 4 0.04
42 4 0.04
43 8 0.09
44 36 0.39
45 20 0.22
46 21 0.23
ACGTcount: A:0.71, C:0.01, G:0.24, T:0.04
Consensus pattern (44 bp):
AGAGAAAAGATAGAAAAAGAAGAAAAAAAAAGAGAAAAAAGAAA
Found at i:864909 original size:20 final size:20
Alignment explanation
Indices: 864884--864938 Score: 110
Period size: 20 Copynumber: 2.8 Consensus size: 20
864874 TTAGAAGAAG
864884 AAGAAAAAGAAAAAGAGCAA
1 AAGAAAAAGAAAAAGAGCAA
864904 AAGAAAAAGAAAAAGAGCAA
1 AAGAAAAAGAAAAAGAGCAA
864924 AAGAAAAAGAAAAAG
1 AAGAAAAAGAAAAAG
864939 GATAAGAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.76, C:0.04, G:0.20, T:0.00
Consensus pattern (20 bp):
AAGAAAAAGAAAAAGAGCAA
Found at i:864910 original size:5 final size:6
Alignment explanation
Indices: 864878--864948 Score: 79
Period size: 6 Copynumber: 11.2 Consensus size: 6
864868 GAAAAGTTAG
*
864878 AAGAAG AAGAAA AAGAAA AAGAGCAA AAGAAA AAGAAA AAGAGCAA AAGAAA
1 AAGAAA AAGAAA AAGAAA AAGA--AA AAGAAA AAGAAA AAGA--AA AAGAAA
* *
864930 AAGAAA AAGGAT AAGAAA A
1 AAGAAA AAGAAA AAGAAA A
864949 TAAATCAAGT
Statistics
Matches: 56, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
6 44 0.79
8 12 0.21
ACGTcount: A:0.75, C:0.03, G:0.21, T:0.01
Consensus pattern (6 bp):
AAGAAA
Done.