Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold251
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: 763550
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
File 5 of 5
Found at i:678879 original size:52 final size:52
Alignment explanation
Indices: 678801--678929 Score: 215
Period size: 52 Copynumber: 2.5 Consensus size: 52
678791 CGAAATATGA
*
678801 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGAC
*
678853 AAATTTGCCTGTC-TGTATCGATACATTTTATAGTGTATCGATACATCTGGAC
1 AAATTTGCCTG-CATGTATCGATACATTTCATAGTGTATCGATACATCTGGAC
*
678905 AAATTTGCCTGCGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
678930 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
51 1 0.01
52 71 0.97
53 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGAC
Found at i:678956 original size:13 final size:13
Alignment explanation
Indices: 678938--678962 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
678928 CAAAGATCAG
678938 TGTATCGATACAA
1 TGTATCGATACAA
678951 TGTATCGATACA
1 TGTATCGATACA
678963 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:679029 original size:19 final size:17
Alignment explanation
Indices: 679005--679102 Score: 77
Period size: 19 Copynumber: 5.8 Consensus size: 17
678995 TAGCTTACAT
679005 TGTATCGATACAAAACTCA
1 TGTATCGATAC-AAACT-A
679024 TGTATCGATAC--A-T-
1 TGTATCGATACAAACTA
679037 TGTATCGATACAACACTTA
1 TGTATCGATACAA-AC-TA
679056 TGTATCGATAC--A-T-
1 TGTATCGATACAAACTA
679069 TGTATCGATACAACACTTTA
1 TGTATCGATACAA-AC--TA
679089 TGTATCGATACAAA
1 TGTATCGATACAAA
679103 TCGTTGAAAT
Statistics
Matches: 66, Mismatches: 0, Indels: 26
0.72 0.00 0.28
Matches are distributed among these distances:
13 22 0.33
14 1 0.02
15 1 0.02
16 4 0.06
18 1 0.02
19 24 0.36
20 13 0.20
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (17 bp):
TGTATCGATACAAACTA
Found at i:679041 original size:32 final size:32
Alignment explanation
Indices: 679000--679100 Score: 175
Period size: 32 Copynumber: 3.1 Consensus size: 32
678990 GGCAGTAGCT
* *
679000 TACATTGTATCGATACAAAACTCATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
679032 TACATTGTATCGATACAACACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
679064 TACATTGTATCGATACAACACTTTATGTATCGA
1 TACATTGTATCGATACAACAC-TTATGTATCGA
679097 TACA
1 TACA
679101 AATCGTTGAA
Statistics
Matches: 66, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
32 51 0.77
33 15 0.23
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.34
Consensus pattern (32 bp):
TACATTGTATCGATACAACACTTATGTATCGA
Found at i:679042 original size:13 final size:13
Alignment explanation
Indices: 679024--679080 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
679014 ACAAAACTCA
679024 TGTATCGATACAT
1 TGTATCGATACAT
679037 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
679055 ATGTATCGATACAT
1 -TGTATCGATACAT
679069 TGTATCGATACA
1 TGTATCGATACA
679081 ACACTTTATG
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:679701 original size:27 final size:27
Alignment explanation
Indices: 679663--679773 Score: 152
Period size: 27 Copynumber: 4.1 Consensus size: 27
679653 TGGCATTCCT
**
679663 TTTTAAGTCCACAACTTTATGGCAACC
1 TTTTAAGTCCACAACTCCATGGCAACC
* *
679690 TTTTAAGTCCACAACTCCGTGGCATCC
1 TTTTAAGTCCACAACTCCATGGCAACC
679717 TTTTAAGTCCACAACTCCATGGC-ACTC
1 TTTTAAGTCCACAACTCCATGGCAAC-C
* *
679744 TTTTAAATCCACAACTCCATGGCATCC
1 TTTTAAGTCCACAACTCCATGGCAACC
679771 TTT
1 TTT
679774 CAAAACTCCC
Statistics
Matches: 74, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 1 0.01
27 72 0.97
28 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.11, T:0.32
Consensus pattern (27 bp):
TTTTAAGTCCACAACTCCATGGCAACC
Found at i:679730 original size:54 final size:54
Alignment explanation
Indices: 679652--679773 Score: 174
Period size: 54 Copynumber: 2.2 Consensus size: 54
679642 CCATTATTCA
** *
679652 GTGGCATTCCTTTTTAAGTCCACAACTTTATGGCAAC-CTTTTAAGTCCACAACTCC
1 GTGGCA-TCC-TTTTAAGTCCACAACTCCATGGC-ACTCTTTTAAATCCACAACTCC
679708 GTGGCATCCTTTTAAGTCCACAACTCCATGGCACTCTTTTAAATCCACAACTCC
1 GTGGCATCCTTTTAAGTCCACAACTCCATGGCACTCTTTTAAATCCACAACTCC
*
679762 ATGGCATCCTTT
1 GTGGCATCCTTT
679774 CAAAACTCCC
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
53 2 0.03
54 50 0.82
55 3 0.05
56 6 0.10
ACGTcount: A:0.25, C:0.30, G:0.12, T:0.33
Consensus pattern (54 bp):
GTGGCATCCTTTTAAGTCCACAACTCCATGGCACTCTTTTAAATCCACAACTCC
Found at i:679814 original size:28 final size:28
Alignment explanation
Indices: 679763--680637 Score: 823
Period size: 28 Copynumber: 30.8 Consensus size: 28
679753 CACAACTCCA
* * *
679763 TGGCATCCTTTCAAAACTCC-CAAGTCTG
1 TGGCATCATTTCAAAGC-CCACAAGTCAG
* *
679791 TGGTATCATTTCAAAGCCCACAAGTTAG
1 TGGCATCATTTCAAAGCCCACAAGTCAG
* * *
679819 TGGCACCATTTCAAAGCCCACAGGTCGG
1 TGGCATCATTTCAAAGCCCACAAGTCAG
* *
679847 TGGCACCATTTCAAAGCCCACAAGTCGG
1 TGGCATCATTTCAAAGCCCACAAGTCAG
* *
679875 TGGCAACTCATTTTAAAGCCCACACAAGTCGG
1 TGGC-A-TCATTTCAAAG-CC-CACAAGTCAG
* *
679907 TGGCAACTCATTTTAAAGCCCACACAAGTCGG
1 TGGC-A-TCATTTCAAAG-CC-CACAAGTCAG
* * *
679939 TGGCAACTCATTTTAAATCCCACACAAGTCGG
1 TGGC-A-TCATTTCAAA-GCC-CACAAGTCAG
* * *
679971 TGGTAACCCATTTCAAAGCCCACAACTTC-G
1 TGG-CA-TCATTTCAAAGCCCACAA-GTCAG
* * **
680001 TGGAAT-TTTTTTAAG-CCACAAGTCAG
1 TGGCATCATTTCAAAGCCCACAAGTCAG
* * *
680027 TAGCATCCTTTCAAAGCCCATAAGTCAG
1 TGGCATCATTTCAAAGCCCACAAGTCAG
*
680055 TGGCACCATTTCAAAGCCCACAAGTCAG
1 TGGCATCATTTCAAAGCCCACAAGTCAG
* *
680083 TGGCATCCTTTCAAAGCCCACAAGTCAA
1 TGGCATCATTTCAAAGCCCACAAGTCAG
* * *
680111 TGGCACCCTTTCAAAGCCCATAAGTCAG
1 TGGCATCATTTCAAAGCCCACAAGTCAG
*
680139 TGGCACTC-TTTCAAAGCCCACAAGTCAA
1 TGGCA-TCATTTCAAAGCCCACAAGTCAG
* * *
680167 TGGCACCCTTTCAAAGCCCACAAGTTAG
1 TGGCATCATTTCAAAGCCCACAAGTCAG
*
680195 TGGCATCATTCCAAAGCCCACAAGTCAG
1 TGGCATCATTTCAAAGCCCACAAGTCAG
* *
680223 TGGCATCTTTTCTAAGCCCACAAGTCAG
1 TGGCATCATTTCAAAGCCCACAAGTCAG
* * *
680251 TGGCACCTTTTCCAAA-CCCACAAGTCAA
1 TGGCATCATTT-CAAAGCCCACAAGTCAG
* * *
680279 TGGCACCTTTTTAAAGCCCACAAGTCAG
1 TGGCATCATTTCAAAGCCCACAAGTCAG
*
680307 TGGCATCTTTTCAAAGCCCA-AAGTCAG
1 TGGCATCATTTCAAAGCCCACAAGTCAG
* *
680334 TGGCATCTTTTCCAAGCCCACAAGTCAG
1 TGGCATCATTTCAAAGCCCACAAGTCAG
* *
680362 TGGCATCTTTTTC-AAGCCCACAAGTCAA
1 TGGCATC-ATTTCAAAGCCCACAAGTCAG
*
680390 TGGCACCATTTCAAAGCCCACAAGTCAG
1 TGGCATCATTTCAAAGCCCACAAGTCAG
* * *
680418 TGGCATCCTTTCACAGCCCAAAAGTCAG
1 TGGCATCATTTCAAAGCCCACAAGTCAG
* *
680446 TGGCATCATTTTAAAGCCCACAAGTCAA
1 TGGCATCATTTCAAAGCCCACAAGTCAG
* *
680474 TGGCA-CTATTTCAAAACCCACAAGTCAA
1 TGGCATC-ATTTCAAAGCCCACAAGTCAG
* * * *
680502 TGGCATCTTTTCAAAACTCATAAGTCAG
1 TGGCATCATTTCAAAGCCCACAAGTCAG
* * *
680530 AGGCACCCTTTCAAAGCCCACAAGTCAG
1 TGGCATCATTTCAAAGCCCACAAGTCAG
* * * *
680558 TGGTACCACTTCAAAGCCCACAAGTTAG
1 TGGCATCATTTCAAAGCCCACAAGTCAG
* *
680586 TGGCATACCCTTTCAAAGCCCACAAGTCAA
1 TGGCAT--CATTTCAAAGCCCACAAGTCAG
* *
680616 TGGCACCCTTTCAAAGCCCACA
1 TGGCATCATTTCAAAGCCCACA
680638 CAAATCGGTG
Statistics
Matches: 727, Mismatches: 98, Indels: 44
0.84 0.11 0.05
Matches are distributed among these distances:
25 2 0.00
26 11 0.02
27 49 0.07
28 520 0.72
29 13 0.02
30 41 0.06
31 6 0.01
32 85 0.12
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.23
Consensus pattern (28 bp):
TGGCATCATTTCAAAGCCCACAAGTCAG
Found at i:681626 original size:20 final size:20
Alignment explanation
Indices: 681601--681675 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 20
681591 TTTTACCCTG
681601 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
681621 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
681641 ATGTATTGATATATTCTTCA
1 ATGTATCGATACATTTTTCA
* *
681661 ATATATTGATACATT
1 ATGTATCGATACATT
681676 CTGTCTTTTT
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:682466 original size:13 final size:13
Alignment explanation
Indices: 682448--682475 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
682438 CATTATTCAA
682448 TGTATCGATACAT
1 TGTATCGATACAT
682461 TGTATCGATACAT
1 TGTATCGATACAT
682474 TG
1 TG
682476 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:682470 original size:33 final size:33
Alignment explanation
Indices: 682428--682493 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
682418 GCCAAGGAAA
682428 TGTATCGATACATT-ATTCAATGTATCGATACAT
1 TGTATCGATACATTGA-TCAATGTATCGATACAT
**
682461 TGTATCGATACATTGATCTTTGTATCGATACAT
1 TGTATCGATACATTGATCAATGTATCGATACAT
682494 CTAGGAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.41
Consensus pattern (33 bp):
TGTATCGATACATTGATCAATGTATCGATACAT
Found at i:687591 original size:38 final size:38
Alignment explanation
Indices: 687545--687651 Score: 124
Period size: 38 Copynumber: 2.8 Consensus size: 38
687535 ACAGTTCGAA
*
687545 ACAAAAACCATTATTCTAAACTAGTGGCACGGCTCAAT
1 ACAAAAACCATTATTCTTAACTAGTGGCACGGCTCAAT
* * * * * * *
687583 ACAGAAACCACTATTTTTATCTGGCGGCACGGTTCAAT
1 ACAAAAACCATTATTCTTAACTAGTGGCACGGCTCAAT
* *
687621 ACAAAAACTATTATTCTTAACTAGTAGCACG
1 ACAAAAACCATTATTCTTAACTAGTGGCACG
687652 ATTTGAAATC
Statistics
Matches: 53, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
38 53 1.00
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.27
Consensus pattern (38 bp):
ACAAAAACCATTATTCTTAACTAGTGGCACGGCTCAAT
Found at i:691840 original size:52 final size:52
Alignment explanation
Indices: 691770--691890 Score: 215
Period size: 52 Copynumber: 2.3 Consensus size: 52
691760 GAAAATTTAT
*
691770 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
* *
691822 TTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
691874 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
691891 AAGATCAGTG
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:691903 original size:52 final size:51
Alignment explanation
Indices: 691770--691910 Score: 203
Period size: 52 Copynumber: 2.7 Consensus size: 51
691760 GAAAATTTAT
691770 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* * *
691822 TTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
691874 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
691911 ATGTATCGAT
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 2 0.03
52 78 0.98
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.34
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:691917 original size:13 final size:13
Alignment explanation
Indices: 691899--691923 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
691889 CAAAGATCAG
691899 TGTATCGATACAA
1 TGTATCGATACAA
691912 TGTATCGATACA
1 TGTATCGATACA
691924 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:692005 original size:13 final size:13
Alignment explanation
Indices: 691987--692011 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
691977 ACAAAAAGTA
691987 TGTATCGATACAT
1 TGTATCGATACAT
692000 TGTATCGATACA
1 TGTATCGATACA
692012 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:692007 original size:32 final size:33
Alignment explanation
Indices: 691966--692031 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 33
691956 AGTAGCTTAA
691966 ATTGTATCGATACAA-AAAGTATGTATCGATAC
1 ATTGTATCGATACAACAAAGTATGTATCGATAC
***
691998 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAACAAAGTATGTATCGATAC
692031 A
1 A
692032 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.35
Consensus pattern (33 bp):
ATTGTATCGATACAACAAAGTATGTATCGATAC
Found at i:697769 original size:38 final size:37
Alignment explanation
Indices: 697699--697816 Score: 105
Period size: 38 Copynumber: 3.1 Consensus size: 37
697689 GAAAGCCATG
* *
697699 ATTCTAAACTGGTAGCACGGTTCGAA-ATAAAAATCACT
1 ATTCTAAACTGGTGGCACAGTTC-AATA-AAAAATCACT
* *
697737 ATTCTAAACTGGTGGCACAGTTCAATACAAAAATTAAT
1 ATTCTAAACTGGTGGCACAGTTCAATA-AAAAATCACT
* * * * *
697775 A-TCTTATCAGATGGCACAGTTCAATAACAAAACCACT
1 ATTCTAAACTGGTGGCACAGTTCAATAA-AAAATCACT
697812 ATTCT
1 ATTCT
697817 TAACCAGTGG
Statistics
Matches: 65, Mismatches: 12, Indels: 6
0.78 0.14 0.07
Matches are distributed among these distances:
36 1 0.02
37 30 0.46
38 34 0.52
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.28
Consensus pattern (37 bp):
ATTCTAAACTGGTGGCACAGTTCAATAAAAAATCACT
Found at i:699466 original size:21 final size:21
Alignment explanation
Indices: 699442--699489 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
699432 GATTGATTTA
699442 TCCTTCCTTTACCTTTCTTCC
1 TCCTTCCTTTACCTTTCTTCC
699463 TCCTTCCTTTACCTTTCTTCC
1 TCCTTCCTTTACCTTTCTTCC
699484 T-CTTCC
1 TCCTTCC
699490 CTAAGCTTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 5 0.19
21 22 0.81
ACGTcount: A:0.04, C:0.44, G:0.00, T:0.52
Consensus pattern (21 bp):
TCCTTCCTTTACCTTTCTTCC
Found at i:700441 original size:13 final size:13
Alignment explanation
Indices: 700423--700477 Score: 56
Period size: 13 Copynumber: 3.8 Consensus size: 13
700413 CATAAAGTGT
700423 TGTATCGATACAA
1 TGTATCGATACAA
700436 TGTATCGATACATAA
1 TGTATCGATAC--AA
700451 GTGTAGTATCGATACAA
1 ---T-GTATCGATACAA
700468 TGTATCGATA
1 TGTATCGATA
700478 TATAAGTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
13 20 0.56
14 1 0.03
15 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:700460 original size:32 final size:32
Alignment explanation
Indices: 700403--700503 Score: 166
Period size: 32 Copynumber: 3.1 Consensus size: 32
700393 TTCAACGATT
700403 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
*
700436 TGTATCGATACATAAGTGTAGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* *
700468 TGTATCGATATATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
700500 TGTA
1 TGTA
700504 AGCTACTGCC
Statistics
Matches: 64, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
32 51 0.80
33 13 0.20
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:700559 original size:13 final size:13
Alignment explanation
Indices: 700541--700565 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
700531 ACTACCCAAA
700541 TGTATCGATACAT
1 TGTATCGATACAT
700554 TGTATCGATACA
1 TGTATCGATACA
700566 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:700619 original size:52 final size:50
Alignment explanation
Indices: 700556--700702 Score: 204
Period size: 52 Copynumber: 2.8 Consensus size: 50
700546 CGATACATTG
* *
700556 TATCGATACACTGATCTTTGTATCGATACATGCAAGCAAATTTGCCCAGATA
1 TATCGATACACT-AT-TATGTATCGATACATGCAGGCAAATTTGCCCAGATA
* *
700608 TATCGATACACTATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGATG
1 TATCGATACACTAT--TATGTATCGATACATGCAGGCAAATTTGCCCAGATA
700660 TATCGATACACTATTAAATGTATCGATACATGCAGGCAAATTT
1 TATCGATACACTATT--ATGTATCGATACATGCAGGCAAATTT
700703 TCATATTTCG
Statistics
Matches: 86, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
51 2 0.02
52 84 0.98
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (50 bp):
TATCGATACACTATTATGTATCGATACATGCAGGCAAATTTGCCCAGATA
Found at i:704251 original size:14 final size:14
Alignment explanation
Indices: 704232--704281 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
704222 AAATATAATT
704232 TTTAATTTTTATAA
1 TTTAATTTTTATAA
*
704246 TTTAATGCTTT-TAA
1 TTTAAT-TTTTATAA
*
704260 -TTAATTTTTATGA
1 TTTAATTTTTATAA
*
704273 TATAATTTT
1 TTTAATTTT
704282 ACATAATATA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
12 3 0.10
13 7 0.24
14 16 0.55
15 3 0.10
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (14 bp):
TTTAATTTTTATAA
Found at i:713458 original size:52 final size:52
Alignment explanation
Indices: 713380--713508 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
713370 CAAAATATAA
* *
713380 AAATTTACCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
*
713432 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
713484 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
713509 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
Found at i:713521 original size:52 final size:51
Alignment explanation
Indices: 713380--713528 Score: 219
Period size: 52 Copynumber: 2.9 Consensus size: 51
713370 CAAAATATAA
*
713380 AAATTTACCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
* *
713432 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
*
713484 AAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
713529 ATGTATCGAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 87 0.98
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGC
Found at i:713535 original size:13 final size:13
Alignment explanation
Indices: 713517--713541 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
713507 CAAAGATCAG
713517 TGTATCGATACAA
1 TGTATCGATACAA
713530 TGTATCGATACA
1 TGTATCGATACA
713542 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:713619 original size:33 final size:33
Alignment explanation
Indices: 713582--713648 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
713572 AGTAGCTTAA
713582 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
713615 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
713648 A
1 A
713649 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:713622 original size:13 final size:13
Alignment explanation
Indices: 713604--713628 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
713594 CAAAAAAATA
713604 TGTATCGATACAT
1 TGTATCGATACAT
713617 TGTATCGATACA
1 TGTATCGATACA
713629 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:714524 original size:67 final size:68
Alignment explanation
Indices: 714402--714528 Score: 184
Period size: 67 Copynumber: 1.9 Consensus size: 68
714392 ATTGGGTTTT
* * *
714402 AAAGATGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATG
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
714467 AGA
66 AGA
* * * *
714470 AAAG-TGATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGA
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGA
714529 GAAAAAGGAT
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
67 48 0.92
68 4 0.08
ACGTcount: A:0.39, C:0.13, G:0.25, T:0.24
Consensus pattern (68 bp):
AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
AGA
Found at i:714616 original size:52 final size:55
Alignment explanation
Indices: 714518--714631 Score: 153
Period size: 52 Copynumber: 2.1 Consensus size: 55
714508 CGATATTGGG
* * *
714518 CTTAAAGATGAGAAAAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACACTGAA
1 CTTAAAGATGAGAAAAAGGATGACAATATGCTAATTCAAGGCCAGCTACACTGAA
* * *
714573 CTTAAAGATG-G-AAAAGG-TGACAATATGCTAATTCAAGGCCAGCTATATTGGA
1 CTTAAAGATGAGAAAAAGGATGACAATATGCTAATTCAAGGCCAGCTACACTGAA
714625 CTTAAAG
1 CTTAAAG
714632 GTGCCAATGT
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
52 36 0.68
53 6 0.11
54 1 0.02
55 10 0.19
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.24
Consensus pattern (55 bp):
CTTAAAGATGAGAAAAAGGATGACAATATGCTAATTCAAGGCCAGCTACACTGAA
Found at i:714693 original size:49 final size:48
Alignment explanation
Indices: 714541--715343 Score: 979
Period size: 49 Copynumber: 16.8 Consensus size: 48
714531 AAAAGGATGT
* * *
714541 CAATGTGCTGATTCAAGGCCAGCTACACTGAACTTAAAGATGGAAAAGGTGA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G---AGGTGC
* * *
714593 CAATATGCTAATTCAAGGCCAGCTATATTGGACTT--A-A--AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGC
* *
714636 CAATGTGCTGATTCAATGCCAGCTACATTTGGACTTAAAGGTGAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACA-TTGGACTTAAAGATGAGGTGC
714685 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG-AGGTGC
* * *
714734 TAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-GAGGTGC
* * * * *
714783 CAATATGCTGATTAAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG-AGGTGC
* *
714832 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-GAGGTGC
* *
714881 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT--A-AT--GGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGC
* *
714924 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGGTGAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGC
* *
714972 CAATGTGCTGAGTCAAGGCTAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG-AGGTGC
* * *
715021 TAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-GAGGTGC
* * * * *
715070 CAATATGTTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG-AGGTGC
* * *
715119 CAATGTGCTGAGTCAAGGTCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-GAGGTGC
* *
715168 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT--A-AT--GGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGC
* *
715211 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGGTGAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGC
*
715259 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG-AGGTGC
* * * *
715308 CAATATGCTGATTCAGGGCCAGCTATATTGGGCTTA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
715344 GAAGGGTTGC
Statistics
Matches: 653, Mismatches: 73, Indels: 53
0.84 0.09 0.07
Matches are distributed among these distances:
43 102 0.16
44 8 0.01
45 2 0.00
46 7 0.01
47 2 0.00
48 105 0.16
49 396 0.61
50 1 0.00
52 30 0.05
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (48 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGC
Found at i:714781 original size:98 final size:98
Alignment explanation
Indices: 714475--715343 Score: 1114
Period size: 98 Copynumber: 9.0 Consensus size: 98
714465 TGAGAAAAGT
* * * * * *
714475 GATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATG
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT--G---AAGG-TG
* * * *
714540 TCAATGTGCTGATTCAAGGCCAGCTACACTGAACTTAAA
60 CCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
* *
714579 GATGGAAAAGGTGACAATATGCTAATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGCCA
1 GAT---AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCA
* *
714638 ATGTGCTGATTCAATGCCAGCTACATTTGGACTTAAA
63 ATGTGCTGAGTCAAGGCCAGCTACA-TTGGACTTAAA
* * * * *
714675 GGT-GAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCTAATG
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATG
714739 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
66 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
* * *
714772 GATAAAGGTGCCAATATGCTGATTAAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATG
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATG
714837 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
66 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
714870 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT--A-AT---GGTGCCAATG
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATG
714929 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
66 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
* * * * * * *
714962 GGT-GAGGTGCCAATGTGCTGAGTCAAGGCTAGCTACATTGGACTTAAAGATGAAGGTGCTAATG
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATG
715026 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
66 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
* * *
715059 GATAAAGGTGCCAATATGTTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATG
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATG
*
715124 TGCTGAGTCAAGGTCAGCTACATTGGACTTAAA
66 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
715157 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT--A-AT---GGTGCCAATG
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATG
715216 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
66 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
* * * * * *
715249 GGT-GAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATA
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATG
* * * *
715313 TGCTGATTCAGGGCCAGCTATATTGGGCTTA
66 TGCTGAGTCAAGGCCAGCTACATTGGACTTA
715344 GAAGGGTTGC
Statistics
Matches: 677, Mismatches: 64, Indels: 55
0.85 0.08 0.07
Matches are distributed among these distances:
91 75 0.11
92 126 0.19
93 2 0.00
94 4 0.01
95 30 0.04
96 16 0.02
97 93 0.14
98 292 0.43
103 1 0.00
104 3 0.00
107 35 0.05
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (98 bp):
GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATG
TGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
Found at i:715023 original size:287 final size:287
Alignment explanation
Indices: 714541--715343 Score: 1399
Period size: 287 Copynumber: 2.8 Consensus size: 287
714531 AAAAGGATGT
* * * * *
714541 CAATGTGCTGATTCAAGGCCAGCTACACTGAACTTAAAGATGGAAAAGGTGACAATATGCTAATT
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGCCAATATGCTGATT
* * *
714606 CAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAATGCCAGCTACATTTGGACT
63 CAAGGCCAGCTATATTGGACTTAATGGTGCCAATGTGCTGAGTCAAGGCCAGCTACA-TTGGACT
*
714671 TAAAGGTGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCTA
127 TAAAGGTGAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCTA
714736 ATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTAAAGG
192 ATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTAAAGG
714801 CCAGCTATATTGGACTTAATGGTGAAGGTGC
257 CCAGCTATATTGGACTTAATGGTGAAGGTGC
714832 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
714897 GGCCAGCTATATTGGACTTAATGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
66 GGCCAGCTATATTGGACTTAATGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
*
714962 GGTGAGGTGCCAATGTGCTGAGTCAAGGCTAGCTACATTGGACTTAAAGATGAAGGTGCTAATGT
131 GGTGAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCTAATGT
* *
715027 GCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGTTGATTCAAGGCCAG
196 GCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTAAAGGCCAG
715092 CTATATTGGACTTAATGGTGAAGGTGC
261 CTATATTGGACTTAATGGTGAAGGTGC
*
715119 CAATGTGCTGAGTCAAGGTCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
715184 GGCCAGCTATATTGGACTTAATGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
66 GGCCAGCTATATTGGACTTAATGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
* *
715249 GGTGAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATAT
131 GGTGAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCTAATGT
* * * *
715314 GCTGATTCAGGGCCAGCTATATTGGGCTTA
196 GCTGAGTCAAGGCCAGCTACATTGGACTTA
715344 GAAGGGTTGC
Statistics
Matches: 492, Mismatches: 20, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
287 381 0.77
288 73 0.15
291 38 0.08
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (287 bp):
CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
GGCCAGCTATATTGGACTTAATGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
GGTGAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCTAATGT
GCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTAAAGGCCAG
CTATATTGGACTTAATGGTGAAGGTGC
Found at i:715473 original size:65 final size:67
Alignment explanation
Indices: 715343--715487 Score: 226
Period size: 66 Copynumber: 2.2 Consensus size: 67
715333 TATTGGGCTT
* *
715343 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAGTGGTTGCCACCGACTTGTGTGGGCTTTG
1 AGAA-GGTTGCCACCAACTTGTGTGGGCTTTAGAGAGTAGTTGCCACCGACTTGTGTGGGCTTTG
715408 G-A
65 GAA
715410 AGAAGGTTGCCACCAACTTGTGTGGGCTTTAG-GAAG-AGTTGCCACCGACTTGTGTGGGCTTTG
1 AGAAGGTTGCCACCAACTTGTGTGGGCTTTAGAG-AGTAGTTGCCACCGACTTGTGTGGGCTTTG
715473 GAA
65 GAA
715476 AGAAGG-TGCCAC
1 AGAAGGTTGCCAC
715488 GGAGTTGTGG
Statistics
Matches: 74, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
65 34 0.46
66 36 0.49
67 4 0.05
ACGTcount: A:0.20, C:0.19, G:0.35, T:0.26
Consensus pattern (67 bp):
AGAAGGTTGCCACCAACTTGTGTGGGCTTTAGAGAGTAGTTGCCACCGACTTGTGTGGGCTTTGG
AA
Found at i:715496 original size:33 final size:32
Alignment explanation
Indices: 715336--715475 Score: 196
Period size: 33 Copynumber: 4.4 Consensus size: 32
715326 CCAGCTATAT
*
715336 TGGGC-TTAGAAG-GGTTGCCACCGACTTGTG
1 TGGGCTTTGGAAGAGGTTGCCACCGACTTGTG
* *
715366 TGGGCTTTAGAGAGTGGTTGCCACCGACTTGTG
1 TGGGCTTTGGA-AGAGGTTGCCACCGACTTGTG
*
715399 TGGGCTTTGGAAGAAGGTTGCCACCAACTTGTG
1 TGGGCTTTGGAAG-AGGTTGCCACCGACTTGTG
715432 TGGGCTTTAGGAAGA-GTTGCCACCGACTTGTG
1 TGGGCTTT-GGAAGAGGTTGCCACCGACTTGTG
715464 TGGGCTTTGGAA
1 TGGGCTTTGGAA
715476 AGAAGGTGCC
Statistics
Matches: 101, Mismatches: 4, Indels: 9
0.89 0.04 0.08
Matches are distributed among these distances:
30 5 0.05
31 9 0.09
32 28 0.28
33 54 0.53
34 5 0.05
ACGTcount: A:0.18, C:0.18, G:0.36, T:0.29
Consensus pattern (32 bp):
TGGGCTTTGGAAGAGGTTGCCACCGACTTGTG
Found at i:715496 original size:65 final size:66
Alignment explanation
Indices: 715343--715496 Score: 224
Period size: 65 Copynumber: 2.3 Consensus size: 66
715333 TATTGGGCTT
*
715343 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAGTGGTTGCCACCGACTTGTGTGGGCTTTG
1 AGAA-GGTTGCCACCGACTTGTGTGGGCTTTAGAGAGTAGTTGCCACCGACTTGTGTGGGCTTTG
715408 GA
65 GA
*
715410 AGAAGGTTGCCACCAACTTGTGTGGGCTTTAG-GAAG-AGTTGCCACCGACTTGTGTGGGCTTTG
1 AGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAG-AGTAGTTGCCACCGACTTGTGTGGGCTTTG
715473 GAA
65 G-A
* *
715476 AGAAGG-TGCCACGGAGTTGTG
1 AGAAGGTTGCCACCGACTTGTG
715497 GACTTAGAAG
Statistics
Matches: 80, Mismatches: 5, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
65 40 0.50
66 36 0.45
67 4 0.05
ACGTcount: A:0.19, C:0.18, G:0.36, T:0.27
Consensus pattern (66 bp):
AGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGAGTAGTTGCCACCGACTTGTGTGGGCTTTGG
A
Found at i:715509 original size:65 final size:64
Alignment explanation
Indices: 715382--715570 Score: 171
Period size: 65 Copynumber: 3.0 Consensus size: 64
715372 TTAGAGAGTG
** * * *
715382 GTTGCCACCGACTTGTGTGGGCTTTGG-AAGAAGGTTGCCACCAACTTGTGTGGGCTT-TAGGAA
1 GTTGCCACCGACTTGTGTGGGCTTTGGAAAGAAGG-TGCCACGGA-GT-TGTGGACTTAAAGGAA
715445 GA
63 GA
715447 GTTGCCACCGACTTGTGTGGGCTTTGGAAAGAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAA
1 GTTGCCACCGACTTGTGTGGGCTTTGGAAAGAAGGTGCCACGGAGTTGTGGACTTA-AAGG---A
715512 AGA
62 AGA
* * *
715515 G-TGCCACGGA-GT-TGTGGGC-TT--AAA-AGGGTGCCACGGAGTTGTGGACTTTAAAGGAA
1 GTTGCCACCGACTTGTGTGGGCTTTGGAAAGAAGGTGCCACGGAGTTGTGGAC-TTAAAGGAA
715571 AAAAGGGTGC
Statistics
Matches: 109, Mismatches: 8, Indels: 21
0.79 0.06 0.15
Matches are distributed among these distances:
58 2 0.02
61 25 0.23
62 6 0.06
63 8 0.07
64 3 0.03
65 44 0.40
66 8 0.07
67 8 0.07
68 5 0.05
ACGTcount: A:0.24, C:0.16, G:0.35, T:0.24
Consensus pattern (64 bp):
GTTGCCACCGACTTGTGTGGGCTTTGGAAAGAAGGTGCCACGGAGTTGTGGACTTAAAGGAAGA
Found at i:715519 original size:34 final size:32
Alignment explanation
Indices: 715472--715630 Score: 184
Period size: 34 Copynumber: 4.9 Consensus size: 32
715462 TGTGGGCTTT
715472 GGAAAGAAGGTGCCACGGAGTTGTGGACTTAGAA
1 GGAAA-AAGGTGCCACGGAGTTGTGGACTTA-AA
*
715506 GGAAAAAGAGTGCCACGGAGTTGTGGGCTT---
1 GGAAAAAG-GTGCCACGGAGTTGTGGACTTAAA
*
715536 --AAAAGGGTGCCACGGAGTTGTGGACTTTAAA
1 GGAAAAAGGTGCCACGGAGTTGTGGAC-TTAAA
*
715567 GGAAAAAAGGGTGCCACGGAGTCGTGGACTTAAAA
1 GG-AAAAA-GGTGCCACGGAGTTGTGGACTT-AAA
*
715602 GGAAAAAGGTGCCACGGAGTCGTGGACTT
1 GGAAAAAGGTGCCACGGAGTTGTGGACTT
715631 TGATGCCACT
Statistics
Matches: 110, Mismatches: 5, Indels: 21
0.81 0.04 0.15
Matches are distributed among these distances:
27 18 0.16
28 7 0.06
33 25 0.23
34 36 0.33
35 24 0.22
ACGTcount: A:0.31, C:0.14, G:0.36, T:0.18
Consensus pattern (32 bp):
GGAAAAAGGTGCCACGGAGTTGTGGACTTAAA
Found at i:715559 original size:61 final size:62
Alignment explanation
Indices: 715480--715603 Score: 198
Period size: 62 Copynumber: 2.0 Consensus size: 62
715470 TTGGAAAGAA
* *
715480 GGTGCCACGGAGTTGTGGAC-TTAGAAGG-AAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTTA-AAGGAAAAAAGAGTGCCACGGAGTCGTGGACTTAAAAG
*
715541 GGTGCCACGGAGTTGTGGACTTTAAAGGAAAAAAGGGTGCCACGGAGTCGTGGACTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTTAAAGGAAAAAAGAGTGCCACGGAGTCGTGGACTTAAAAG
715603 G
1 G
715604 AAAAAGGTGC
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
61 24 0.41
62 34 0.59
ACGTcount: A:0.30, C:0.14, G:0.37, T:0.19
Consensus pattern (62 bp):
GGTGCCACGGAGTTGTGGACTTTAAAGGAAAAAAGAGTGCCACGGAGTCGTGGACTTAAAAG
Found at i:715568 original size:27 final size:27
Alignment explanation
Indices: 715509--715681 Score: 93
Period size: 27 Copynumber: 6.0 Consensus size: 27
715499 CTTAGAAGGA
* *
715509 AAAAGAGTGCCACGGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
715536 AAAAGGGTGCCACGGAGTTGTGGACTTT
1 AAAAGGGTGCCACGGAGTTGTGGAC-TT
*
715564 AAAGGAAAAAAGGGTGCCACGGAGTCGTGGACTT
1 -------AAAAGGGTGCCACGGAGTTGTGGACTT
*
715598 AAAAGGAAAAAGGTGCCACGGAGTCGTGGACTT
1 AAAA-G-----GGTGCCACGGAGTTGTGGACTT
* * * *
715631 ----TGATGCCACTGAGTCGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* *
715654 AAAAGGGATGCCACTGAATTGTGGACTT
1 AAAAGGG-TGCCACGGAGTTGTGGACTT
715682 TTAGGACAAA
Statistics
Matches: 117, Mismatches: 10, Indels: 37
0.71 0.06 0.23
Matches are distributed among these distances:
23 20 0.17
27 28 0.24
28 21 0.18
33 22 0.19
34 2 0.02
35 24 0.21
ACGTcount: A:0.29, C:0.16, G:0.34, T:0.21
Consensus pattern (27 bp):
AAAAGGGTGCCACGGAGTTGTGGACTT
Found at i:715582 original size:35 final size:34
Alignment explanation
Indices: 715536--715631 Score: 158
Period size: 35 Copynumber: 2.8 Consensus size: 34
715526 TTGTGGGCTT
*
715536 AAAAGGGTGCCACGGAGTTGTGGACTTTAAAGGAA
1 AAAAGGGTGCCACGGAGTCGTGGACTTTAAAGG-A
*
715571 AAAAGGGTGCCACGGAGTCGTGGACTTAAAAGGA
1 AAAAGGGTGCCACGGAGTCGTGGACTTTAAAGGA
715605 AAAA-GGTGCCACGGAGTCGTGGACTTT
1 AAAAGGGTGCCACGGAGTCGTGGACTTT
715632 GATGCCACTG
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
33 22 0.38
34 5 0.09
35 31 0.53
ACGTcount: A:0.32, C:0.15, G:0.34, T:0.19
Consensus pattern (34 bp):
AAAAGGGTGCCACGGAGTCGTGGACTTTAAAGGA
Found at i:715854 original size:93 final size:92
Alignment explanation
Indices: 715661--715962 Score: 310
Period size: 93 Copynumber: 3.2 Consensus size: 92
715651 CTTAAAAGGG
* *
715661 ATGCCACTGAATTGTGGACTTTTAGGACAAAATGCCACTGAGTCGTGGGCTTTGAGAAGAGATTG
1 ATGCCACTGAATTGTGGAC-TTTAGGACAAAATGCCACTGAGTCGTGGACTTTGAGAAGAAATTG
* * *
715726 CTACTGAGTCGTGGACTTTAAGACGGAA
65 CCACGGAGTCGTGGACTTTAAGACGAAA
*
715754 ATGCCACTGAATTGTGGACTTTAGGACAAAATGCCATTGAGTCGTGGACTTT-ATGAAGAAAATG
1 ATGCCACTGAATTGTGGACTTTAGGACAAAATGCCACTGAGTCGTGGACTTTGA-GAAG-AAAT-
*
715818 TGCCACGGAGTCGTGGACTTTAGGAC-AAA
63 TGCCACGGAGTCGTGGACTTTAAGACGAAA
* * *
715847 ATGCCACTG-ATTCGTGGGCTTTGAAGA-AAAGGATGCCACTAAGTCGTGGACTTTGAGACA-AA
1 ATGCCACTGAATT-GTGGACTTT-AGGACAAA--ATGCCACTGAGTCGTGGACTTTGAGA-AGAA
** * * * *
715909 A-TGCCACTAAGTCGTGGATTTTGAGAAGAGA
61 ATTGCCACGGAGTCGTGGACTTTAAGACGAAA
* * *
715940 TTGCCACTGAGTCGTGGACTTTA
1 ATGCCACTGAATTGTGGACTTTA
715963 AAAAGGTATT
Statistics
Matches: 176, Mismatches: 22, Indels: 23
0.80 0.10 0.10
Matches are distributed among these distances:
91 1 0.01
92 59 0.34
93 62 0.35
94 30 0.17
95 22 0.12
96 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (92 bp):
ATGCCACTGAATTGTGGACTTTAGGACAAAATGCCACTGAGTCGTGGACTTTGAGAAGAAATTGC
CACGGAGTCGTGGACTTTAAGACGAAA
Found at i:715917 original size:30 final size:30
Alignment explanation
Indices: 715633--715961 Score: 255
Period size: 31 Copynumber: 10.7 Consensus size: 30
715623 GTGGACTTTG
*
715633 ATGCCACTGAGTCGTGGAC-TT-A-A-AAGGG
1 ATGCCACTGAGTCGTGGACTTTGAGACAA--A
* * *
715661 ATGCCACTGAATTGTGGACTTTTAGGACAAA
1 ATGCCACTGAGTCGTGGACTTTGA-GACAAA
*
715692 ATGCCACTGAGTCGTGGGCTTTGAGA-AGAGA
1 ATGCCACTGAGTCGTGGACTTTGAGACA-A-A
* * * *
715723 TTGCTACTGAGTCGTGGACTTTAAGACGGAA
1 ATGCCACTGAGTCGTGGACTTTGAGAC-AAA
* *
715754 ATGCCACTGAATTGTGGACTTT-AGGACAAA
1 ATGCCACTGAGTCGTGGACTTTGA-GACAAA
*
715784 ATGCCATTGAGTCGTGGACTTTATGAAGA-AAA
1 ATGCCACTGAGTCGTGGAC-TT-TG-AGACAAA
* *
715816 TGTGCCACGGAGTCGTGGACTTT-AGGACAAA
1 -ATGCCACTGAGTCGTGGACTTTGA-GACAAA
* *
715847 ATGCCACTGATTCGTGGGCTTTGAAGA-AAA
1 ATGCCACTGAGTCGTGGACTTTG-AGACAAA
*
715877 GGATGCCACTAAGTCGTGGACTTTGAGACAAA
1 --ATGCCACTGAGTCGTGGACTTTGAGACAAA
* *
715909 ATGCCACTAAGTCGTGGATTTTGAGA-AGAGA
1 ATGCCACTGAGTCGTGGACTTTGAGACA-A-A
*
715940 TTGCCACTGAGTCGTGGACTTT
1 ATGCCACTGAGTCGTGGACTTT
715962 AAAAAGGTAT
Statistics
Matches: 243, Mismatches: 34, Indels: 45
0.75 0.11 0.14
Matches are distributed among these distances:
28 17 0.07
29 5 0.02
30 72 0.30
31 96 0.40
32 32 0.13
33 20 0.08
34 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (30 bp):
ATGCCACTGAGTCGTGGACTTTGAGACAAA
Found at i:716097 original size:16 final size:17
Alignment explanation
Indices: 716066--716103 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
716056 GATGCAAATA
* *
716066 ATGATGTTATTGATGTT
1 ATGATGTCATTGATGTC
716083 ATGATGTCA-TGATGTC
1 ATGATGTCATTGATGTC
716099 ATGAT
1 ATGAT
716104 TACAGCACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.26, C:0.05, G:0.24, T:0.45
Consensus pattern (17 bp):
ATGATGTCATTGATGTC
Found at i:723578 original size:12 final size:12
Alignment explanation
Indices: 723561--723587 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
723551 TAAAAATTAA
723561 AAATTCAAATTC
1 AAATTCAAATTC
723573 AAATTCAAATTC
1 AAATTCAAATTC
723585 AAA
1 AAA
723588 AAATAATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.30
Consensus pattern (12 bp):
AAATTCAAATTC
Found at i:723880 original size:50 final size:50
Alignment explanation
Indices: 723708--723871 Score: 274
Period size: 50 Copynumber: 3.3 Consensus size: 50
723698 AATAGAAAAT
* *
723708 GCATGCATGGGAAAGCATAAAGATTGCAATTGGAGACAAAACATGCAGAG
1 GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCGGAG
* * *
723758 GCATGCATGGGAAAACACAAAAATTGCAATTGGAGACAAAGCATGCGGAG
1 GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCGGAG
723808 GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCGGAG
1 GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCGGAG
*
723858 ACATGCATGGGAAA
1 GCATGCATGGGAAA
723872 TGAAAAAAAG
Statistics
Matches: 105, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 105 1.00
ACGTcount: A:0.42, C:0.15, G:0.28, T:0.15
Consensus pattern (50 bp):
GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCGGAG
Found at i:724354 original size:29 final size:27
Alignment explanation
Indices: 724322--724380 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 27
724312 AGCAAGCATT
724322 AAAGGGGGAAGA-AAGCAACGTAAAAAAAA
1 AAAGGGGGAAGATAAGCAA---AAAAAAAA
*
724351 AAAGGGGGAGGATAAGCAAAAAAAAAA
1 AAAGGGGGAAGATAAGCAAAAAAAAAA
724378 AAA
1 AAA
724381 CGAATGAGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 11 0.39
29 11 0.39
30 6 0.21
ACGTcount: A:0.64, C:0.05, G:0.27, T:0.03
Consensus pattern (27 bp):
AAAGGGGGAAGATAAGCAAAAAAAAAA
Found at i:724500 original size:37 final size:39
Alignment explanation
Indices: 724421--724520 Score: 107
Period size: 37 Copynumber: 2.5 Consensus size: 39
724411 CTCCAGTAGC
724421 CAACGACTGCAACTCCAGCACGCAACAACAGTAGCAACTCCAG
1 CAACGACTGCAACTCCAGCACG--ACAACA--AGCAACTCCAG
*
724464 CAACGACTGCAACTCCAGCACG-CAAC-AGCAGCTCCAG
1 CAACGACTGCAACTCCAGCACGACAACAAGCAACTCCAG
* *
724501 CGA-GAGCAGCAACTCCAGCA
1 CAACGA-CTGCAACTCCAGCA
724521 GGTAGCAATT
Statistics
Matches: 53, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
36 2 0.04
37 25 0.47
40 4 0.08
43 22 0.42
ACGTcount: A:0.35, C:0.38, G:0.19, T:0.08
Consensus pattern (39 bp):
CAACGACTGCAACTCCAGCACGACAACAAGCAACTCCAG
Found at i:724516 original size:18 final size:17
Alignment explanation
Indices: 724453--724520 Score: 66
Period size: 18 Copynumber: 3.8 Consensus size: 17
724443 CAACAACAGT
724453 AGCAACTCCAGCAACGAC
1 AGCAACTCCAGC-ACGAC
*
724471 TGCAACTCCAGCACGCAAC
1 AGCAACTCCAGCACG--AC
*
724490 AGCAGCTCCAGCGA-GAGC
1 AGCAACTCCAGC-ACGA-C
724508 AGCAACTCCAGCA
1 AGCAACTCCAGCA
724521 GGTAGCAATT
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
17 5 0.12
18 23 0.55
19 13 0.31
20 1 0.02
ACGTcount: A:0.34, C:0.38, G:0.21, T:0.07
Consensus pattern (17 bp):
AGCAACTCCAGCACGAC
Found at i:725726 original size:79 final size:79
Alignment explanation
Indices: 725501--725967 Score: 765
Period size: 79 Copynumber: 5.9 Consensus size: 79
725491 TTTCCTTTAA
* * *
725501 TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCACAATTGGGGATACTC
1 TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTC
725566 CAACCCCGTTATTT
66 CAACCCCGTTATTT
* * *
725580 TCGAGGGGATACTCCAA-CCCGGTTTTATCTCTAAAATATTAATTTTTCACAATCGGGGATACTC
1 TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTC
725644 CAACCCCGTTATTT
66 CAACCCCGTTATTT
* * *
725658 TCGAGGGGATACTCCAACCTCGGTTTTATTTCTAAAACACCAATTTTTCATAATCGGGGATACTC
1 TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTC
725723 CAACCCCGTTATTT
66 CAACCCCGTTATTT
* *
725737 TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCACAATCGGGGATACTC
1 TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTC
*
725802 CAACCCCATTATTT
66 CAACCCCGTTATTT
* * *
725816 CCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCATAATCGGGGATACTC
1 TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTC
725881 CAACCCCGTTATTT
66 CAACCCCGTTATTT
* *
725895 TCGAGGGGATACTCCAATCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTC
1 TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTC
*
725960 TAACCCCG
66 CAACCCCG
725968 ATTTTATTTT
Statistics
Matches: 363, Mismatches: 24, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
78 76 0.21
79 287 0.79
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (79 bp):
TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTC
CAACCCCGTTATTT
Found at i:726007 original size:52 final size:51
Alignment explanation
Indices: 725900--726034 Score: 148
Period size: 52 Copynumber: 2.6 Consensus size: 51
725890 TATTTTCGAG
* * * *
725900 GGGATACTCCAATCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCG
1 GGGATACTCTAACCCCGATTTTATTTCTAAAACATCAATTTTTCATAATCA
* **
725951 GGGATACTCTAACCCCGATTTTATTTTTTAAAACA-CCGTTTTTCCATAATCA
1 GGGATACTCTAACCCCGATTTTA-TTTCTAAAACATCAATTTTT-CATAATCA
* *
726003 GGGATACTCTAGCCCCG-TTGTTATCTCTAAAA
1 GGGATACTCTAACCCCGATT-TTATTTCTAAAA
726035 TACTAATTTT
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
51 35 0.49
52 36 0.51
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (51 bp):
GGGATACTCTAACCCCGATTTTATTTCTAAAACATCAATTTTTCATAATCA
Found at i:726045 original size:52 final size:51
Alignment explanation
Indices: 725900--726045 Score: 145
Period size: 51 Copynumber: 2.8 Consensus size: 51
725890 TATTTTCGAG
* * * *
725900 GGGATACTCCAATCCCGGTTTTATT-TCTAAAACATCAATTTTTCATAATCG
1 GGGATACTCTAACCCCGATTTTATTCTCTAAAACA-CAATTTTTCATAATCA
* * **
725951 GGGATACTCTAACCCCGATTTTATTTTTTAAAACACCGTTTTTCCATAATCA
1 GGGATACTCTAACCCCGATTTTATTCTCTAAAACACAATTTTT-CATAATCA
* *
726003 GGGATACTCTAGCCCCG-TTGTTA-TCTCTAAAATACTAATTTTT
1 GGGATACTCTAACCCCGATT-TTATTCTCTAAAACAC-AATTTTT
726046 TTTCTCGTCA
Statistics
Matches: 78, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
51 39 0.50
52 39 0.50
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.38
Consensus pattern (51 bp):
GGGATACTCTAACCCCGATTTTATTCTCTAAAACACAATTTTTCATAATCA
Found at i:728408 original size:21 final size:21
Alignment explanation
Indices: 728382--728434 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
728372 TTCAACATAT
*
728382 TGTATCAATACAAT-AGGGTAA
1 TGTATCAATACAATAAGTG-AA
*
728403 TGTATCGATAC-ATAAGTGAA
1 TGTATCAATACAATAAGTGAA
728423 TGTATCAATACA
1 TGTATCAATACA
728435 TGTCTAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 14 0.52
21 13 0.48
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.30
Consensus pattern (21 bp):
TGTATCAATACAATAAGTGAA
Found at i:728564 original size:51 final size:52
Alignment explanation
Indices: 728491--728601 Score: 179
Period size: 51 Copynumber: 2.2 Consensus size: 52
728481 TCTGGAATGA
*
728491 AAATGTATCGATACATTCTTCATTGTATCGATACATTCTAGG-TTTTGACCC
1 AAATGTATAGATACATTCTTCATTGTATCGATACATTCTAGGTTTTTGACCC
* * *
728542 AAATGTATAGATATATTTTTCATTGTATCGATACATTCTGGGTTTTTGACCC
1 AAATGTATAGATACATTCTTCATTGTATCGATACATTCTAGGTTTTTGACCC
728594 AAATGTAT
1 AAATGTAT
728602 CCATACAGTA
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
51 38 0.69
52 17 0.31
ACGTcount: A:0.29, C:0.15, G:0.14, T:0.41
Consensus pattern (52 bp):
AAATGTATAGATACATTCTTCATTGTATCGATACATTCTAGGTTTTTGACCC
Found at i:729331 original size:19 final size:19
Alignment explanation
Indices: 729307--729370 Score: 86
Period size: 19 Copynumber: 3.7 Consensus size: 19
729297 TTTTAACAAT
729307 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
729326 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
729340 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
729358 TTGTATCGATACA
1 TTGTATCGATACA
729371 ATGTTTCGCT
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.28
15 2 0.05
17 2 0.05
19 24 0.62
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:729345 original size:13 final size:13
Alignment explanation
Indices: 729327--729351 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
729317 ACATAAGTGT
729327 TGTATCGATACAA
1 TGTATCGATACAA
729340 TGTATCGATACA
1 TGTATCGATACA
729352 TAAGTGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:729345 original size:32 final size:32
Alignment explanation
Indices: 729308--729383 Score: 134
Period size: 32 Copynumber: 2.4 Consensus size: 32
729298 TTTAACAATT
729308 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
729340 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* *
729372 TGTTTCGCTACA
1 TGTATCGATACA
729384 AAGCTACTGC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:730419 original size:20 final size:20
Alignment explanation
Indices: 730382--730420 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
730372 TCAACCTTGA
*
730382 TCATGCATTTTTACCATGTT
1 TCATGCATTTATACCATGTT
*
730402 TCATGCATTTATAGCATGT
1 TCATGCATTTATACCATGT
730421 CCAGCACCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.18, G:0.13, T:0.46
Consensus pattern (20 bp):
TCATGCATTTATACCATGTT
Found at i:743407 original size:10 final size:10
Alignment explanation
Indices: 743387--743466 Score: 58
Period size: 10 Copynumber: 8.0 Consensus size: 10
743377 GCATCCTCCG
*
743387 CAAAAAAAAA
1 CAAAAACAAA
*
743397 CAAAGACAAA
1 CAAAAACAAA
*
743407 CAAACA-AAA
1 CAAAAACAAA
*
743416 C-AGAACAAA
1 CAAAAACAAA
*
743425 AAAAGAGACAAA
1 CAAA-A-ACAAA
743437 -AAAAACAAA
1 CAAAAACAAA
*
743446 AAAAAACAAA
1 CAAAAACAAA
743456 CAAACAACAAA
1 CAAA-AACAAA
743467 AAGGGTCCAG
Statistics
Matches: 56, Mismatches: 8, Indels: 11
0.75 0.11 0.15
Matches are distributed among these distances:
8 2 0.04
9 12 0.21
10 27 0.48
11 10 0.18
12 5 0.09
ACGTcount: A:0.79, C:0.16, G:0.05, T:0.00
Consensus pattern (10 bp):
CAAAAACAAA
Found at i:743413 original size:14 final size:14
Alignment explanation
Indices: 743394--743459 Score: 53
Period size: 14 Copynumber: 4.5 Consensus size: 14
743384 CCGCAAAAAA
743394 AAACAAAGACAAAC
1 AAACAAAGACAAAC
743408 AAACAAA-ACAGAAC
1 AAACAAAGACA-AAC
* *
743422 AAAAAAAGAGACAAAAA
1 -AAACAA-AGAC-AAAC
* *
743439 AAACAAAAAAAAAC
1 AAACAAAGACAAAC
743453 AAACAAA
1 AAACAAA
743460 CAACAAAAAG
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
13 3 0.07
14 20 0.49
15 7 0.17
16 6 0.15
17 4 0.10
18 1 0.02
ACGTcount: A:0.79, C:0.15, G:0.06, T:0.00
Consensus pattern (14 bp):
AAACAAAGACAAAC
Found at i:743435 original size:12 final size:13
Alignment explanation
Indices: 743405--743459 Score: 55
Period size: 12 Copynumber: 4.5 Consensus size: 13
743395 AACAAAGACA
743405 AACAAACAAAACAG
1 AACAAA-AAAACAG
*
743419 AACAAAAAAAGAG
1 AACAAAAAAACAG
*
743432 -ACAAAAAAA-AC
1 AACAAAAAAACAG
743443 AA-AAAAAAACA-
1 AACAAAAAAACAG
743454 AACAAA
1 AACAAA
743460 CAACAAAAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
11 10 0.28
12 14 0.39
13 6 0.17
14 6 0.17
ACGTcount: A:0.80, C:0.15, G:0.05, T:0.00
Consensus pattern (13 bp):
AACAAAAAAACAG
Found at i:744933 original size:28 final size:28
Alignment explanation
Indices: 744893--745031 Score: 145
Period size: 28 Copynumber: 4.9 Consensus size: 28
744883 CCTCACCCTG
744893 TCAAAAGCCCACAAGTCAGTGGCAACCT
1 TCAAAAGCCCACAAGTCAGTGGCAACCT
* *
744921 TCAAAAGCCCACAAATCAGTGGCACCCTTT
1 TCAAAAGCCCACAAGTCAGTGGCAACC--T
** * * *
744951 TCCGAAGCCCATAAGTCAGTGGCATCTTT
1 TCAAAAGCCCACAAGTCAGTGGCAAC-CT
* *
744980 TCCAAAGCCCACAAGCCAGTGGCAACCT
1 TCAAAAGCCCACAAGTCAGTGGCAACCT
*
745008 TCAAAAGTCCACAAGTTC-GTGGCA
1 TCAAAAGCCCACAAG-TCAGTGGCA
745032 CTTTTTTTCT
Statistics
Matches: 91, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
28 45 0.49
29 24 0.26
30 22 0.24
ACGTcount: A:0.32, C:0.32, G:0.18, T:0.19
Consensus pattern (28 bp):
TCAAAAGCCCACAAGTCAGTGGCAACCT
Found at i:745073 original size:29 final size:29
Alignment explanation
Indices: 744896--745074 Score: 93
Period size: 28 Copynumber: 6.0 Consensus size: 29
744886 CACCCTGTCA
* *
744896 AAAGCCCACAAGTCAGTGGCAACC--TTC
1 AAAGCCCACAACTCAGTGGCATCCTTTTC
* *
744923 AAAAGCCCACAAATCAGTGGCACCCTTTTCC
1 -AAAGCCCACAACTCAGTGGCATCCTTTT-C
* * *
744954 GAAGCCCATAAGTCAGTGGCAT-CTTTTCC
1 AAAGCCCACAACTCAGTGGCATCCTTTT-C
*
744983 AAAGCCCACAAGC-CAGTGGCAACC--TTC
1 AAAGCCCACAA-CTCAGTGGCATCCTTTTC
* * *
745010 AAAAGTCCACAAGTTC-GTGGCACTTTTTTTCTTTTC
1 -AAAGCCCACAA-CTCAGTGGCA------TCCTTTTC
*
745046 AAAGTCCACAACTCAGTGGCATCCTTTTC
1 AAAGCCCACAACTCAGTGGCATCCTTTTC
745075 TTCCAAGTCC
Statistics
Matches: 119, Mismatches: 16, Indels: 31
0.72 0.10 0.19
Matches are distributed among these distances:
27 1 0.01
28 41 0.34
29 32 0.27
30 21 0.18
31 1 0.01
34 3 0.03
35 17 0.14
36 3 0.03
ACGTcount: A:0.28, C:0.31, G:0.16, T:0.25
Consensus pattern (29 bp):
AAAGCCCACAACTCAGTGGCATCCTTTTC
Found at i:745133 original size:34 final size:34
Alignment explanation
Indices: 745012--745202 Score: 170
Period size: 34 Copynumber: 5.6 Consensus size: 34
745002 CAACCTTCAA
* * ** *
745012 AAGTCCACAAGTTCGTGGCACTTTTTTTCTTTTC
1 AAGTCCACAACTCCGTGGCACCCTTTTTCCTTTC
* * *
745046 AAAGTCCACAACTCAGTGGCATCC-TTTT-CTTCC
1 -AAGTCCACAACTCCGTGGCACCCTTTTTCCTTTC
* * * *
745079 AAGTCCACGATTCTGTGGCACCCTTTTCCCTTTC
1 AAGTCCACAACTCCGTGGCACCCTTTTTCCTTTC
* * * *
745113 AAGCCCACAATTCCGTGGCACTCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTTTCCTTTC
* * *
745147 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTTTCCTTTC
* *
745181 AAGTCCACGACTCTGTGGCACC
1 AAGTCCACAACTCCGTGGCACC
745203 TTTAAGCCCA
Statistics
Matches: 129, Mismatches: 25, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
32 19 0.15
33 6 0.05
34 87 0.67
35 17 0.13
ACGTcount: A:0.19, C:0.32, G:0.14, T:0.35
Consensus pattern (34 bp):
AAGTCCACAACTCCGTGGCACCCTTTTTCCTTTC
Found at i:745197 original size:102 final size:100
Alignment explanation
Indices: 745016--745202 Score: 252
Period size: 102 Copynumber: 1.8 Consensus size: 100
745006 CTTCAAAAGT
* *
745016 CCACAAGTTCGTGGCACTTTTTTTCTTTTCAAAGTCCACAACTCAGTGGCATCCTTTTCTTCCAA
1 CCACAAGTTCGTGGCACTTTTTTCCTTTT-AAAGCCCACAACTCAGTGGCATCCTTTTCTTCCAA
*
745081 GTCCACGATTCTGTGGCACCCTTTTCCCTTTCAAGC
65 GTCCACGACTCTGTGGCACCCTTTTCCCTTTCAAGC
* * *
745117 CCACAA-TTCCGTGGCACTCTTTTTCCTTTT-AAGCCCACAACTCCGTGGCACTCTTTTTCCTTT
1 CCACAAGTT-CGTGGCACT-TTTTTCCTTTTAAAGCCCACAACTCAGTGGCA-TCCTTTT-CTTC
*
745180 TAAGTCCACGACTCTGTGGCACC
62 CAAGTCCACGACTCTGTGGCACC
745203 TTTAAGCCCA
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
100 20 0.27
101 21 0.28
102 34 0.45
ACGTcount: A:0.18, C:0.33, G:0.14, T:0.35
Consensus pattern (100 bp):
CCACAAGTTCGTGGCACTTTTTTCCTTTTAAAGCCCACAACTCAGTGGCATCCTTTTCTTCCAAG
TCCACGACTCTGTGGCACCCTTTTCCCTTTCAAGC
Found at i:745277 original size:52 final size:51
Alignment explanation
Indices: 745202--745975 Score: 667
Period size: 52 Copynumber: 15.8 Consensus size: 51
745192 TCTGTGGCAC
* * *
745202 CTTTAAGCCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCAC
1 CTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTATCAT
* * * *
745254 CTTTAAGCCCAATATTGCTGGCCTTGAATCAGCATATTGGCACATTTTTCAC
1 CTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC-CTTATCAT
*
745306 CTTCAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CTT-T-AT
1 CTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCAT
* * ** *
745354 CTTTAAGTCCAATGTCATTGGCCTTGAATCAGCACATTGGCACC---T--T
1 CTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCAT
* * *
745400 C---AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTT-T-GT
1 CTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCAT
* * * * *
745446 CTTTAAGACCACTATCGCTAGCCTTGAATCAGC--A----CA--TTGTCAC
1 CTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCAT
745489 CTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCA-
1 CTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCAT
*
745539 C---AAGCCCAGTATCGCTGGCCTTGAATCAGCATATTGGCA-C--ATCAT
1 CTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCAT
* * * * * *
745584 CTTTAAGACCTATGTCGCTGGCCTTGAATCAGCACATCGGCA-CTTCAACCAT
1 CTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT--ATCAT
745636 CTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-C--ATCAT
1 CTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCAT
* * * *
745684 CTTTAAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCACC--ATCAT
1 CTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCAT
* * * * *
745733 CTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCGCATTCGTCAT
1 CTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-ATCAT
* * * * * *
745785 CTTTAAAACCCAATGTCGTTGGCCTTGAATCAACACATTGGCA---T-TCTT
1 CTTT-AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCAT
* * * * * *
745833 CTTTAAGTCC-ATTTCACTAGCCTTGACTCAGCACATTGGCACC-T-TCAT
1 CTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCAT
* ** *
745881 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTGCCTTCGTCAT
1 CTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-ATCAT
* * ** *
745933 CTTTAAAGCACAATGTCGCTGGCCTTGTCTCAGCACATTGGCA
1 CTTT-AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
745976 TTCTTCTTCA
Statistics
Matches: 600, Mismatches: 84, Indels: 75
0.79 0.11 0.10
Matches are distributed among these distances:
41 2 0.00
42 1 0.00
43 67 0.11
44 4 0.01
45 3 0.00
46 30 0.05
47 43 0.07
48 133 0.22
49 99 0.17
50 5 0.01
51 5 0.01
52 148 0.25
53 60 0.10
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (51 bp):
CTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCAT
Found at i:745672 original size:100 final size:100
Alignment explanation
Indices: 745202--745976 Score: 655
Period size: 100 Copynumber: 7.9 Consensus size: 100
745192 TCTGTGGCAC
* * * * ** *
745202 CTTTAAGCCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCACCTTTAAGCCCAAT
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CTTCATCATCTTTAAGCCCAAT
* *
745267 ATTGCTGGCCTTGAATCAGCATATTGGCA-CATTTTTCAC
65 ATCGCTGGCCTTGAATCAGCATATTGGCATCA----TCAT
* * * * * *
745306 CTTCAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTT--T-ATCTTTAAGTCCAATG
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTCATCATCTTTAAGCCCAATA
** *
745368 TCATTGGCCTTGAATCAGCACATTGG---CA-C--
66 TCGCTGGCCTTGAATCAGCATATTGGCATCATCAT
* * * * * * *
745397 CTTCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTT--T-GTCTTTAAGACCACT
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CTTCATCATCTTTAAGCCCAAT
* *
745459 ATCGCTAGCCTTGAATCAGCACATT-G--TCA-C--
65 ATCGCTGGCCTTGAATCAGCATATTGGCATCATCAT
* * * *
745489 CTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-ATCA-C---AAGCCCAGT
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CTTCATCATCTTTAAGCCCAAT
745549 ATCGCTGGCCTTGAATCAGCATATTGGCA-CATCAT
65 ATCGCTGGCCTTGAATCAGCATATTGGCATCATCAT
* * *
745584 CTTTAAGACCTATGTCGCTGGCCTTGAATCAGCACATCGGCACTTCAACCATCTTTAAGCCCAAT
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTC-ATCATCTTTAAGCCCAAT
745649 ATCGCTGGCCTTGAATCAGCATATTGGCA-CATCAT
65 ATCGCTGGCCTTGAATCAGCATATTGGCATCATCAT
* *
745684 CTTTAAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCAC--CATCATCTTTAAGTCCAATA
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTCATCATCTTTAAGCCCAATA
* *
745747 TCGCTAGCCTTGAATCAGCATATTGGCGCATTCGTCAT
66 TCGCTGGCCTTGAATCAGCATATT-G-GCA-TCATCAT
* * * *
745785 CTTTAAAACCCAATGTCGTTGGCCTTGAATCAACACATTGGCA-TTC-T--TCTTTAAGTCC-AT
1 CTTTAAGA-CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTCATCATCTTTAAGCCCAAT
* * * * * * *
745845 TTCACTAGCCTTGACTCAGCACATTGGCACCTTCAT
65 ATCGCTGGCCTTGAATCAGCATATTGGCATCATCAT
* * * * *
745881 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTGC-CTTCGTCATCTTTAAAGCACA
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATT-G-GCACTTCATCATCTTT-AAGCCCA
* ** *
745945 ATGTCGCTGGCCTTGTCTCAGCACATTGGCAT
63 ATATCGCTGGCCTTGAATCAGCATATTGGCAT
745977 TCTTCTTCAA
Statistics
Matches: 578, Mismatches: 62, Indels: 64
0.82 0.09 0.09
Matches are distributed among these distances:
90 30 0.05
91 43 0.07
92 85 0.15
93 4 0.01
94 3 0.01
95 63 0.11
96 15 0.03
97 49 0.08
98 6 0.01
99 26 0.04
100 134 0.23
101 17 0.03
102 59 0.10
103 4 0.01
104 40 0.07
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (100 bp):
CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTCATCATCTTTAAGCCCAATA
TCGCTGGCCTTGAATCAGCATATTGGCATCATCAT
Found at i:745725 original size:287 final size:282
Alignment explanation
Indices: 745199--745771 Score: 731
Period size: 287 Copynumber: 2.0 Consensus size: 282
745189 GACTCTGTGG
* *
745199 CACCTTTAAGCCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCACCTTTAAGCCC
1 CACCTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCACC--TAAGCCC
* *
745264 AATATTGCTGGCCTTGAATCAGCATATTGGCACATTTTTCACCTTCAAGCCCAATATCGCTGGCC
64 AATATCGCTGGCCTTGAATCAGCATATTGGCACA---TTCACCTTCAAGACCAATATCGCTGGCC
* * * * * *
745329 TTGAATCAGCATATTGGCACTTTATCTTTAAGTCCAATGTCATTGGCCTTGAATCAGCACATTGG
126 TTGAATCAGCACATCGGCACTTCATCTTTAAGCCCAATATCACTGGCCTTGAATCAGCACATTGG
* * * * * ** *
745394 CACCTTCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTGTCTTTAAGACCACT
191 CACCTTCAAGACCAATATCACTGGCCTTGAATCAGCACATTGGCACCATCATCTTTAAGACCAAT
745459 ATCGCTAGCCTTGAATCAGCACATTGT
256 ATCGCTAGCCTTGAATCAGCACATTGT
*
745486 CACCTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTATCA-C-AAGCCCAG
1 CACCTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCACCTAAGCCCAA
* * * *
745548 TATCGCTGGCCTTGAATCAGCATATTGGCACA-TCATCTTTAAGACCTATGTCGCTGGCCTTGAA
66 TATCGCTGGCCTTGAATCAGCATATTGGCACATTCACCTTCAAGACCAATATCGCTGGCCTTGAA
* *
745612 TCAGCACATCGGCACTTCAACCATCTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGC
131 TCAGCACATCGGCACTT----CATCTTTAAGCCCAATATCACTGGCCTTGAATCAGCACATTGG-
* * *
745677 ACATCATCTTTAAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCACCATCATCTTTAAGTC
191 -CA-C--CTTCAAGACCAATATCACTGGCCTTGAATCAGCACATTGGCACCATCATCTTTAAGAC
*
745742 CAATATCGCTAGCCTTGAATCAGCATATTG
252 CAATATCGCTAGCCTTGAATCAGCACATTG
745772 GCGCATTCGT
Statistics
Matches: 248, Mismatches: 29, Indels: 18
0.84 0.10 0.06
Matches are distributed among these distances:
278 42 0.17
282 75 0.30
284 2 0.01
285 2 0.01
286 5 0.02
287 122 0.49
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (282 bp):
CACCTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCACCTAAGCCCAA
TATCGCTGGCCTTGAATCAGCATATTGGCACATTCACCTTCAAGACCAATATCGCTGGCCTTGAA
TCAGCACATCGGCACTTCATCTTTAAGCCCAATATCACTGGCCTTGAATCAGCACATTGGCACCT
TCAAGACCAATATCACTGGCCTTGAATCAGCACATTGGCACCATCATCTTTAAGACCAATATCGC
TAGCCTTGAATCAGCACATTGT
Found at i:745888 original size:148 final size:146
Alignment explanation
Indices: 745202--745989 Score: 721
Period size: 148 Copynumber: 5.4 Consensus size: 146
745192 TCTGTGGCAC
* * * * * *
745202 CTTTAAGCCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCACCTTTAAGCCCAAT
1 CTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA---TCTT---CTTCAAGTCCAAT
** * * * *
745267 ATTGCTGGCCTTGAATCAGCATATTGGCA-CATTTTTCACCTTCAAGCCCAATATCGCTGGCCTT
60 ATCACTGGCCTTGAATCAGCACATTGGCACCA----TCATCTTTAAGACCAATATCGCTGGCCTT
745331 GAATCAGCATATTGGCACTT--T-AT
121 GAATCAGCATATTGGCACTTCGTCAT
* ** *
745354 CTTTAAGTCCAATGTCATTGGCCTTGAATCAGCACATTGGCA-C--CTTCAAGTCCAATATCGCT
1 CTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCTTCAAGTCCAATATCACT
* * * ** * *
745416 GGCCTTGAATCAGCATATTGGCATCTTTGTCTTTAAGACCACTATCGCTAGCCTTGAATCAGC--
66 GGCCTTGAATCAGCACATTGGCACCATCATCTTTAAGACCAATATCGCTGGCCTTGAATCAGCAT
*
745479 A----CA-TT-GTCAC
131 ATTGGCACTTCGTCAT
* * * * * * * *
745489 CTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCACAAGCCCAGTATCGC
1 CTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCT-TCAAGTCCAATATCAC
* * *
745554 TGGCCTTGAATCAGCATATTGGCA-CATCATCTTTAAGACCTATGTCGCTGGCCTTGAATCAGCA
65 TGGCCTTGAATCAGCACATTGGCACCATCATCTTTAAGACCAATATCGCTGGCCTTGAATCAGCA
* * **
745618 CATCGGCACTTCAACCAT
130 TATTGGCACTTC-GTCAT
* * * * * *
745636 CTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACATCATCTTTAAGACCAATGTCA
1 CTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGG--CATCTTCTTCAAGTCCAATATCA
* *
745701 CTGGCCTTGAATCAGCACATTGGCACCATCATCTTTAAGTCCAATATCGCTAGCCTTGAATCAGC
64 CTGGCCTTGAATCAGCACATTGGCACCATCATCTTTAAGACCAATATCGCTGGCCTTGAATCAGC
*
745766 ATATTGGCGCATTCGTCAT
129 ATATTGGCAC-TTCGTCAT
* * * * *
745785 CTTTAAAACCCAATGTCGTTGGCCTTGAATCAACACATTGGCATTCTTCTTTAAGTCC-ATTTCA
1 CTTT-AAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-TCTTCTTCAAGTCCAATATCA
* * * *
745849 CTAGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGC
64 CTGGCCTTGAATCAGCACATTGGCACCATCATCTTTAAGACCAATATCGCTGGCCTTGAATCAGC
745914 ATATTGGTGC-CTTCGTCAT
129 ATATT-G-GCACTTCGTCAT
* **
745933 CTTTAAAGCACAATGTCGCTGGCCTTGTCTCAGCACATTGGCATTCTTCTTCAAGTC
1 CTTT-AAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-TCTTCTTCAAGTC
745990 TAATGACGCT
Statistics
Matches: 536, Mismatches: 76, Indels: 52
0.81 0.11 0.08
Matches are distributed among these distances:
133 2 0.00
134 3 0.01
135 38 0.07
136 1 0.00
138 34 0.06
139 37 0.07
140 31 0.06
143 39 0.07
144 3 0.01
145 2 0.00
147 42 0.08
148 164 0.31
149 68 0.13
150 36 0.07
152 36 0.07
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (146 bp):
CTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCTTCAAGTCCAATATCACT
GGCCTTGAATCAGCACATTGGCACCATCATCTTTAAGACCAATATCGCTGGCCTTGAATCAGCAT
ATTGGCACTTCGTCAT
Found at i:746764 original size:19 final size:18
Alignment explanation
Indices: 746740--746798 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 18
746730 CAACAATTTC
746740 TATCGATACATAAGTGTTG
1 TATCGATACATAAGT-TTG
746759 TATCGATAC--AA---TG
1 TATCGATACATAAGTTTG
746772 TATCGATACATAAGTTTTG
1 TATCGATACATAAG-TTTG
746791 TATCGATA
1 TATCGATA
746799 TAATGTATCG
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
13 11 0.32
15 2 0.06
17 2 0.06
19 19 0.56
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (18 bp):
TATCGATACATAAGTTTG
Found at i:746775 original size:13 final size:13
Alignment explanation
Indices: 746757--746781 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
746747 ACATAAGTGT
746757 TGTATCGATACAA
1 TGTATCGATACAA
746770 TGTATCGATACA
1 TGTATCGATACA
746782 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:746776 original size:32 final size:32
Alignment explanation
Indices: 746740--746813 Score: 121
Period size: 32 Copynumber: 2.3 Consensus size: 32
746730 CAACAATTTC
746740 TATCGATACATAAGTGTTGTATCGATACAATG
1 TATCGATACATAAGTGTTGTATCGATACAATG
* *
746772 TATCGATACATAAGTTTTGTATCGATATAATG
1 TATCGATACATAAGTGTTGTATCGATACAATG
*
746804 TATCGCTACA
1 TATCGATACA
746814 AAGCTACTAC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (32 bp):
TATCGATACATAAGTGTTGTATCGATACAATG
Found at i:747848 original size:20 final size:20
Alignment explanation
Indices: 747811--747849 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
747801 ACAACCTTGA
*
747811 TCATGCATTTTTACCATGTT
1 TCATGCATTTATACCATGTT
*
747831 TCATGCATTTATAGCATGT
1 TCATGCATTTATACCATGT
747850 CCAGCACCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.18, G:0.13, T:0.46
Consensus pattern (20 bp):
TCATGCATTTATACCATGTT
Found at i:751407 original size:24 final size:21
Alignment explanation
Indices: 751364--751407 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
751354 CAGCTAGATG
*
751364 ATTTTTCCAAATTTTCTGAAT
1 ATTTTTCCAAAATTTCTGAAT
751385 ATTTTTCCTAATAATTTCATGAA
1 ATTTTTCC-AA-AATTTC-TGAA
751408 ATTCCCTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 8 0.42
22 2 0.11
23 5 0.26
24 4 0.21
ACGTcount: A:0.32, C:0.14, G:0.05, T:0.50
Consensus pattern (21 bp):
ATTTTTCCAAAATTTCTGAAT
Found at i:754899 original size:15 final size:15
Alignment explanation
Indices: 754879--754908 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
754869 TTAATATAAA
754879 AAATTCTCATTTATT
1 AAATTCTCATTTATT
754894 AAATTCTCATTTATT
1 AAATTCTCATTTATT
754909 TTTTATATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.13, G:0.00, T:0.53
Consensus pattern (15 bp):
AAATTCTCATTTATT
Found at i:756898 original size:20 final size:19
Alignment explanation
Indices: 756875--756920 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 19
756865 TTTTAATTAA
756875 ATTAAATTAGATTGAATT-TT
1 ATTAAATTA-ATT-AATTATT
756895 ATTAAATTAATTAATTATT
1 ATTAAATTAATTAATTATT
756914 -TTAAATT
1 ATTAAATT
756921 TGAATCATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 11 0.44
19 5 0.20
20 9 0.36
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (19 bp):
ATTAAATTAATTAATTATT
Found at i:760527 original size:14 final size:14
Alignment explanation
Indices: 760508--760542 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
760498 TTTTCCCTCT
760508 CTCTCTATCTCTCG
1 CTCTCTATCTCTCG
*
760522 CTCTCTCTCTCTCG
1 CTCTCTATCTCTCG
760536 CTCTCTA
1 CTCTCTA
760543 ATTTTCAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.06, C:0.46, G:0.06, T:0.43
Consensus pattern (14 bp):
CTCTCTATCTCTCG
Found at i:760778 original size:29 final size:29
Alignment explanation
Indices: 760727--760784 Score: 82
Period size: 31 Copynumber: 2.0 Consensus size: 29
760717 AAACTAAAAG
*
760727 ATATTTATTTTTTAAAATTTTTATAAAAATT
1 ATATTTATTTTTT-AAATATTTA-AAAAATT
760758 ATATTTATTTTTT-AATATTTAAAAAAT
1 ATATTTATTTTTTAAATATTTAAAAAAT
760785 ATCTATCTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 6 0.23
29 7 0.27
31 13 0.50
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (29 bp):
ATATTTATTTTTTAAATATTTAAAAAATT
Found at i:760972 original size:21 final size:19
Alignment explanation
Indices: 760929--760972 Score: 52
Period size: 21 Copynumber: 2.2 Consensus size: 19
760919 AAAATATCAT
*
760929 AAAAAAATTAATCTCAAAT
1 AAAAAAATTAATCTCAAAA
*
760948 AAAAAAATATATATCTTAAAA
1 AAAAAAAT-TA-ATCTCAAAA
760969 AAAA
1 AAAA
760973 TTATTTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 8 0.38
20 2 0.10
21 11 0.52
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.25
Consensus pattern (19 bp):
AAAAAAATTAATCTCAAAA
Done.