Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004731.1 Hibiscus syriacus cultivar Beakdansim tig00010682_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: 85853
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.32
Found at i:15646 original size:2 final size:2
Alignment explanation
Indices: 15639--15664 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
15629 ATATTGAAAC
15639 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
15665 TTCCATATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16966 original size:17 final size:17
Alignment explanation
Indices: 16944--16979 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
16934 GTATAGCGTC
16944 ATTATCTATCATTAAAA
1 ATTATCTATCATTAAAA
16961 ATTATCTATCATTAAAA
1 ATTATCTATCATTAAAA
16978 AT
1 AT
16980 GTGATGTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (17 bp):
ATTATCTATCATTAAAA
Found at i:19175 original size:6 final size:6
Alignment explanation
Indices: 19164--19194 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
19154 CCATCTCGTC
19164 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
19195 AATACGTGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.16, G:0.48, T:0.35
Consensus pattern (6 bp):
TCGTGG
Found at i:19550 original size:145 final size:145
Alignment explanation
Indices: 19287--19589 Score: 534
Period size: 145 Copynumber: 2.1 Consensus size: 145
19277 TGCGATTTTG
19287 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGTGAACTTGGA
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGTGAACTTGGA
19352 CTATCGCAACAAATTTGGAATAAATCGCAACGCGAATTTGGAAAATCACAACGAAATTGGAAAAT
66 CTATCGCAACAAATTTGGAATAAATCGCAACGCGAATTTGGAAAATCACAACGAAATTGGAAAAT
*
19417 TGCAACGCGAACTTC
131 CGCAACGCGAACTTC
* * * * *
19432 GACTATCACAACGAATTTGTAATAAATCGCAACGTGAACTTGGAGTATCGCAACGTGAACTTGGA
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGTGAACTTGGA
* *
19497 CTATCGCAACAAATTTGGAATAAATCGCAACGCGAATTTGGAAAATCGCAACGAACTTGGAAAAT
66 CTATCGCAACAAATTTGGAATAAATCGCAACGCGAATTTGGAAAATCACAACGAAATTGGAAAAT
19562 CGCAACGCGAACTTC
131 CGCAACGCGAACTTC
19577 GACTATCGCAACG
1 GACTATCGCAACG
19590 CGAACTTGGA
Statistics
Matches: 149, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
145 149 1.00
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.21
Consensus pattern (145 bp):
GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGTGAACTTGGA
CTATCGCAACAAATTTGGAATAAATCGCAACGCGAATTTGGAAAATCACAACGAAATTGGAAAAT
CGCAACGCGAACTTC
Found at i:19614 original size:21 final size:21
Alignment explanation
Indices: 19284--19608 Score: 215
Period size: 21 Copynumber: 15.7 Consensus size: 21
19274 CATTGCGATT
* *
19284 TTGGACTATCGCAA--CGAAT
1 TTGGAATATCGCAACGCGAAC
19303 TTGGAATAAATCGCAACGCGAAC
1 TTGGAAT--ATCGCAACGCGAAC
* * *
19326 TTCGACTATCGCAACGTGAAC
1 TTGGAATATCGCAACGCGAAC
* * *
19347 TTGGACTATCGCAA--CAAAT
1 TTGGAATATCGCAACGCGAAC
*
19366 TTGGAATAAATCGCAACGCGAAT
1 TTGGAAT--ATCGCAACGCGAAC
* * *
19389 TTGGAAAATCACAA--CGAAA
1 TTGGAATATCGCAACGCGAAC
* *
19408 TTGGAAAATTGCAACGCGAAC
1 TTGGAATATCGCAACGCGAAC
* * * *
19429 TTCGACTATCACAA--CGAAT
1 TTGGAATATCGCAACGCGAAC
* *
19448 TTGTAATAAATCGCAACGTGAAC
1 TTGGAAT--ATCGCAACGCGAAC
* *
19471 TTGGAGTATCGCAACGTGAAC
1 TTGGAATATCGCAACGCGAAC
* * *
19492 TTGGACTATCGCAA--CAAAT
1 TTGGAATATCGCAACGCGAAC
*
19511 TTGGAATAAATCGCAACGCGAAT
1 TTGGAAT--ATCGCAACGCGAAC
*
19534 TTGGAAAATCGCAA--CGAAC
1 TTGGAATATCGCAACGCGAAC
*
19553 TTGGAAAATCGCAACGCGAAC
1 TTGGAATATCGCAACGCGAAC
* *
19574 TTCGACTATCGCAACGCGAAC
1 TTGGAATATCGCAACGCGAAC
*
19595 TTGGACTATCGCAA
1 TTGGAATATCGCAA
19609 TACGAATATG
Statistics
Matches: 243, Mismatches: 43, Indels: 38
0.75 0.13 0.12
Matches are distributed among these distances:
19 64 0.26
21 142 0.58
23 37 0.15
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.22
Consensus pattern (21 bp):
TTGGAATATCGCAACGCGAAC
Found at i:25305 original size:29 final size:31
Alignment explanation
Indices: 25251--25308 Score: 84
Period size: 29 Copynumber: 1.9 Consensus size: 31
25241 ATATAAAAGG
25251 TGCCCAACGTATGACTTTAGTTCTAGTTTAA
1 TGCCCAACGTATGACTTTAGTTCTAGTTTAA
* *
25282 TGCCTAACGTAT-A-TTTCGTTCTAGTTT
1 TGCCCAACGTATGACTTTAGTTCTAGTTT
25309 GGTATCTAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 13 0.52
30 1 0.04
31 11 0.44
ACGTcount: A:0.22, C:0.19, G:0.16, T:0.43
Consensus pattern (31 bp):
TGCCCAACGTATGACTTTAGTTCTAGTTTAA
Found at i:25452 original size:4 final size:4
Alignment explanation
Indices: 25443--27727 Score: 4129
Period size: 4 Copynumber: 575.8 Consensus size: 4
25433 TTAAAATTTT
25443 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
25491 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
25539 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
25587 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATGC ATGC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * *
25635 ATCC ATAC ATGC ATAC ATCC ATAC ATCC ATAC ATCC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
25683 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
25731 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
25779 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
25827 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
25875 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
25923 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
25971 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATGC ATAC ATAC ATGC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * *
26019 ATGC ATAC ATAC ATAC ATAC ATGC ATAC ATGC ATAC ATAC ATGC ATGC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * *
26067 ATAC ATAC ATAC ATAC AT-- ATAC ATGC ATGC ATGC ATGC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * * *
26113 ATGC ATAC ATGC ATGC ATGC ATGC ATAC ATAC ATGC ATAC ATAC ATGC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * *
26161 ATGC ATGC ATGC ATAC ATGC ATAC ATAC ATGC ATGC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
26209 ATGC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
26257 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
26305 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
26353 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
26401 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
26449 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC --AC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
26495 ATAC AT-- ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
26541 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
26589 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
26637 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
26685 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
26733 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
26781 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
26829 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
26877 ATAC ATAC ATAC ATAC --AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
26923 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * *
26971 ATAC ATAC ATAC ATAC ATAC ATAC ACAT ACAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
27019 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
27067 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
27115 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC --AC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
27161 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
27209 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC --AC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
27255 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT-- ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
27301 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC --AC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
27347 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
27395 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
27443 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
27491 ATAC ATAC ATAC ATAC ATAC --AC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
27537 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
27585 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
27633 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
27681 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
27728 TTAAAAAGAA
Statistics
Matches: 2219, Mismatches: 44, Indels: 36
0.97 0.02 0.02
Matches are distributed among these distances:
2 18 0.01
4 2201 0.99
ACGTcount: A:0.49, C:0.25, G:0.01, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:28144 original size:2 final size:2
Alignment explanation
Indices: 28137--28197 Score: 113
Period size: 2 Copynumber: 30.5 Consensus size: 2
28127 TTTCTTTTTA
28137 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
*
28179 AT AT AT AT AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT A
28198 AAATTTTAAT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:35275 original size:104 final size:103
Alignment explanation
Indices: 35045--35250 Score: 342
Period size: 104 Copynumber: 2.0 Consensus size: 103
35035 TGTCAAATAT
*
35045 TGGTAAGAGGAAATACTCATGAAGCATGGAGACAAGCTGTAACAAAATGTTTCAAAAATCACAAT
1 TGGTAAGAGGAAATACACATGAAGCATGGAGACAAGCTGTAACAAAATGTTTCAAAAATCAC-AT
* * *
35110 AACATTCTACTCAATTTCAAGAGCCCATAATGTTAATAT
65 AACATTCTACTCAATTTCAAGAGCCCATAATGTAAAAAA
*
35149 TGGTAAGAGGAAATACTCATGAAGCATGGAGACAAGCTGTAACAAAATGTTTCAAAAATCAC-TA
1 TGGTAAGAGGAAATACACATGAAGCATGGAGACAAGCTGTAACAAAATGTTTCAAAAATCACATA
35213 ACATTCTACTCAATTTCAAGAGCCCATAATGCTAAAAA
66 ACATTCTACTCAATTTCAAGAGCCCATAATG-TAAAAA
35251 CCATGTTTCA
Statistics
Matches: 99, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
102 33 0.33
103 4 0.04
104 62 0.63
ACGTcount: A:0.43, C:0.17, G:0.16, T:0.25
Consensus pattern (103 bp):
TGGTAAGAGGAAATACACATGAAGCATGGAGACAAGCTGTAACAAAATGTTTCAAAAATCACATA
ACATTCTACTCAATTTCAAGAGCCCATAATGTAAAAAA
Found at i:39244 original size:719 final size:714
Alignment explanation
Indices: 36891--39897 Score: 3103
Period size: 700 Copynumber: 4.2 Consensus size: 714
36881 AGGTATCGTA
* * * * * * * ** *
36891 TACCTTTTCAACGAAAAATAATAAAGTTATCATGTAAATAGTTACTCAATG-TTTTAGGGGGAAA
1 TACCTTTTCATCGATAAAGAGTAATGTCATCATGTAAATAGTTACTCATTGTTTTTAAAGAG-AA
* * * ** *
36955 TGCATAGGTATCGTAGAAAGTATGCAAGCAAAAGTTACAAAATTTATTT-AGTTTTAAGCAACTT
65 TGTATAGGTATCATAGAAAGCATGCAAGCTGAAGTTACAAAAGTTATTTGA-TTTTAAGCAACTT
* * * * *
37019 GTCG-GGTATTAATAATAGAAGAAAAAAACTCACGATGAATAGAGACAAGATGTAGTAAAATTA-
129 GTCGAGAT-TTAGTAATAGAAG-AAAAAACTCATGATGAATTGAGACAAGATGTAGCAAAA-TAC
* * * * **
37082 TT-TAAAATCATAATAATACT-CTCCTCAA-TTT-----CCCCTAACGTTTAAAACAATATTTTA
191 TTCAAAAATCATAATAATA-TACTCCTCAACTTTAGGAGCCCCTAATGTTCAAAACCATATTCCA
* *** * * * * * * * *
37139 CAGACTCGGTTAA-AATCTATATTTAAA-ATAGAAAGTAATAGTATAGAGATAATTTACCTTTAG
255 AAGACTC-AACAAGAATCTATATCTAAATAAAAAAAGTAACATTATATAGATAATTTACCTTAAC
* * * * * *
37202 TTTGATAAAGAGTAATTCTCATCATGTAAATAGTTACATTAACATATTATTTTTGCAGATAAAAC
319 TTTGATAAAGAGCAA-CCTCATCATGTAAATAATTACA-CATCATATTATGTTTGCAGATAAAAC
* * * * * * * *
37267 ATATATTATATCATACAAGTTATGT-CACTAGAATTTCTAAAAG-TTTTCTAATTTTAAGCAACT
382 ATAAATCATATCATACAAATCATGTGCAC-AGAATTTATAAAAGTTTTTTTTATTTT---TAACT
* * * * * * *
37330 TACAATAAGTAACAAATATTAGTAATAAAAGCAAAAGTCCTCAAGCACAAACACAAGTTGTAGAA
443 TACAATAAATAACAAATATTAATAATAGAAGCAAAAGTCCTCAAGCACAAAGACAAGCTATAGCA
*
37395 AAGTATTTCAAAAATCAAAAAAAATATTCTTCTTAAATACAAGAATCCATAATA-TAGAAAACCA
508 AAGT-TTTCAAAAATC-AAAAAAATATTCTTCTTAAATTCAAGAATCC-TAATATTA-AAAACCA
* * *
37459 TTTTCTAAAGACTCAACATTTTAT-TTCTAAAATGGGTAGCCAAGGTTTCAAGATAATTTTATTT
569 TTTTCTAAAGACTCAACATTCTATATT-TAAAAT-GGTAGCCAAGGTATCAAAATAATTTTATTT
* * *
37523 TACCTCGATAGAGAGTAACCCTCATCATGTAAATAATTACTCATACTGCTTCTAGAGATAAAATG
632 TACCTCGATAGAGAGTAACCCTCATCATGTAAATAGTTACTCATATTGCTTCTATAGATAAAATG
* * * *
37588 TATAGGTATTATACAGTG
697 TATAGATATCATACAATT
* *
37606 TACCTTTTCATCGATAAA-AGTAATATCATCATGTAAATAGTTACTCATTGTTTTTAGAGAGAAA
1 TACCTTTTCATCGATAAAGAGTAATGTCATCATGTAAATAGTTACTCATTGTTTTTA-A-AGAGA
* * *
37670 AAGTATAGGTATCATAGAAA-CATGCAAACTGAAGTTACAAAAGTTATTTGATTTTAAGCAACTC
64 ATGTATAGGTATCATAGAAAGCATGCAAGCTGAAGTTACAAAAGTTATTTGATTTTAAGCAACTT
* * *
37734 GTCAAGATTTAGTAATAGAATAAAAAAACTCATGATGAATGGAGATGAATGGGGACAAGATGTAA
129 GTCGAGATTTAGTAATAGAA-GAAAAAACTCATGATGAAT-----TG-A----GACAAGATGTAG
* * ** *
37799 CAAAATACTTCAAAAATCAAAATAATATACTTCTCAACTTTAAAAGCCCCTAAAGTTCAAAACCA
183 CAAAATACTTCAAAAATCATAATAATATACTCCTCAACTTTAGGAGCCCCTAATGTTCAAAACCA
* * * * * *
37864 TATTCTAAAGAGTCAACATGTATCTATATCTAAA-ATAGAAAA-TAACATTATATAAATAATTTA
248 TATTCCAAAGACTCAACAAGAATCTATATCTAAATA-AAAAAAGTAACATTATATAGATAATTTA
* * * * *
37927 CCTTAACTTTGAAAAAGTGTAACCCTCGTCATGTAAATAATTACACATCATATTATGTTTGCAAA
312 CCTTAACTTTGATAAAGAGCAA-CCTCATCATGTAAATAATTACACATCATATTATGTTTGCAGA
*
37992 TAAAACATAAATCATATCATACAAATCATGTGCCCAGAATTTATAAAAG-TTTTTTTATTTTTAA
376 TAAAACATAAATCATATCATACAAATCATGTGCACAGAATTTATAAAAGTTTTTTTTATTTTTAA
* * *
38056 CTTAC----AGTAACAAATATTAGTACTAGAAGCAAAAGTCCTCAAGCACAAAGACAAGCTATAG
441 CTTACAATAAATAACAAATATTAATAATAGAAGCAAAAGTCCTCAAGCACAAAGACAAGCTATAG
* * * * *
38117 CAAAGTTCTTCAAAAAT-AAGAAAAATCTTCTTCTTAAATTCAGGAGACCCTAATATTGAAAATC
506 CAAAGTT-TTCAAAAATCAA-AAAAATATTCTTCTTAAATTCAAGA-ATCCTAATATTAAAAACC
* * * * *
38181 ATTTTCT-AAGAACTCAACATTTTATATGTACAATAGGTAGTCAA--TATTAAAATAATTTTATT
568 ATTTTCTAAAG-ACTCAACATTCTATATTTAAAAT-GGTAGCCAAGGTATCAAAATAATTTTATT
* * * * *
38243 TTACCTAGTTAGAGAGTAAGCCTCAATCATATAAATAGTTACTTATATTGCTTCTATAGATAAAA
631 TTACCTCGATAGAGAGTAACCCTC-ATCATGTAAATAGTTACTCATATTGCTTCTATAGATAAAA
* * *
38308 TATATGGATATCATATAATT
695 TGTATAGATATCATACAATT
* * * *
38328 TACCTTTAT-ATCGATAGAGAGTAACGTCATCAAGTAAATAGTTACTCATTGTTTTTAGAGAGAA
1 TACCTTT-TCATCGATAAAGAGTAATGTCATCATGTAAATAGTTACTCATTGTTTTTA-A-AGAG
* *
38392 AATATATAGGTATCATAGAAAGCATGCAAGCTGAAGTTGCATAAA-TTATTTGATTTTAAGCAAC
63 AATGTATAGGTATCATAGAAAGCATGCAAGCTGAAGTTACA-AAAGTTATTTGATTTTAAGCAAC
* * * * * * *
38456 TTG-CCAGGATATAGTAATAGAAGAAAAAACTCATCATAAATGGGGACAAGATGTAGC-AAATAT
127 TTGTCGA-GATTTAGTAATAGAAGAAAAAACTCATGATGAATTGAGACAAGATGTAGCAAAATAC
*
38519 TTCAAAAATCATAATAATCTACTCCTCAACTTTAGGAGCCCCTAATGTTCAAAACCATATTCCAA
191 TTCAAAAATCATAATAATATACTCCTCAACTTTAGGAGCCCCTAATGTTCAAAACCATATTCCAA
* *
38584 AGACTCAACAAGAATTTATATCTAAATTAAAAAAAG-AATATTATATAGATAATTTACCTTAACT
256 AGACTCAACAAGAATCTATATCTAAA-TAAAAAAAGTAACATTATATAGATAATTTACCTTAACT
* * * *
38648 TTGATAAGGAGCAACACTCATTATCTAAATAATTACACATCATATTATGTTTACAGATAAAACAT
320 TTGATAAAGAGCAAC-CTCATCATGTAAATAATTACACATCATATTATGTTTGCAGATAAAACAT
* ** * * *
38713 AAATCATATCATACAAATCATGCGCATTGAATTTTTAAACGTTTTTTTTTGTTTTTAACTTACAA
384 AAATCATATCATACAAATCATGTGCACAGAATTTATAAAAG-TTTTTTTTATTTTTAACTTACAA
* * * *
38778 TAAATAATAAATATTAATAATGGAAGCAAAAGTCCTCGAGCAAAAAGACAAGCTATAGCAAAGTT
448 TAAATAACAAATATTAATAATAGAAGCAAAAGTCCTCAAGCACAAAGACAAGCTATAGCAAAGTT
* * * * *
38843 CATAAAAAATCAGAAAAATATTCTAT-TTAAATTCAGGAGGTCCTAATATTAAAAACCATTTTCT
513 -TTCAAAAATCAAAAAAATATTCT-TCTTAAATTCAAGA-ATCCTAATATTAAAAACCATTTTCT
*
38907 AAAGACTCAACATTCTATATTTAAAATGGATAGCCAATGTATCAAAATAATTTTATTTTACCTCG
575 AAAGACTCAACATTCTATATTTAAAATGG-TAGCCAAGGTATCAAAATAATTTTATTTTACCTCG
* *
38972 ATAGAGAGTAACCCTCATCATGTAAATAGTTACTCATATTGCTTTTAT-GAATAAAATGTATATA
639 ATAGAGAGTAACCCTCATCATGTAAATAGTTACTCATATTGCTTCTATAG-ATAAAATGTATAGA
39036 TATCATACAATT
703 TATCATACAATT
* * *
39048 TACCTTTTCATCGATAAAGAGTGATGTCATCATGTAAATAATTACTCATTATTTTTAAAGAGAAT
1 TACCTTTTCATCGATAAAGAGTAATGTCATCATGTAAATAGTTACTCATTGTTTTTAAAGAGAAT
* * **
39113 GTATAGGTATCATAGAAAGTATGCAAGCTGAAGTTACAAATGTTATTTGAAATTAAGCAACTTGT
66 GTATAGGTATCATAGAAAGCATGCAAGCTGAAGTTACAAAAGTTATTTGATTTTAAGCAACTTGT
* * *
39178 GGAGATTTAGTAATAGAAGAAAAAGCTTATGATGAATTGAGACAAGATGTAGCAAAATACTTCAA
131 CGAGATTTAGTAATAGAAGAAAAAACTCATGATGAATTGAGACAAGATGTAGCAAAATACTTCAA
* * ** * * * *
39243 AAGTCATAATAATATACTTCTTGACTTCAGGAGCCCCTAATGATCAAAATCATATTCCAAAGGCT
196 AAATCATAATAATATACTCCTCAACTTTAGGAGCCCCTAATGTTCAAAACCATATTCCAAAGACT
*
39308 CAACATGAATCTATA--T--ATAAAATAAAGTAACATTATATAGATAATTTACC---A----G-T
261 CAACAAGAATCTATATCTAAATAAAA-AAAGTAACATTATATAGATAATTTACCTTAACTTTGAT
* *
39361 --A-A-C--CCTCATCATGTAAATAATTACACATCATATTATGTTTGCATATAAAACATAAGTCA
325 AAAGAGCAACCTCATCATGTAAATAATTACACATCATATTATGTTTGCAGATAAAACATAAATCA
* * * * * *
39420 TATCATGCAAATCATGTGCACTGAATTTGTAAAAGTTTTTTTTACTTTGAACTTACAGTAAGA-A
390 TATCATACAAATCATGTGCACAGAATTTATAAAAGTTTTTTTTATTTTTAACTTACAATAA-ATA
* * * * *
39484 ACAAATATTAATAATGGAAACAAAAGTCCTCGACCACAAAGACAAGAC-ATAGCAAAATGTTTCA
454 ACAAATATTAATAATAGAAGCAAAAGTCCTCAAGCACAAAGACAAG-CTATAGCAAAGT-TTTCA
* * * * * *
39548 AAAATCAAAAAAATATTCTTCTTAAATTTAAGAGTCCCTAATACTGAAAATCATTTTCTAAAAAC
517 AAAATCAAAAAAATATTCTTCTTAAATTCAAGAAT-CCTAATATTAAAAACCATTTTCTAAAGAC
* * * * *
39613 TAAACATTCAATATCTAAAATGTGTAGCCAAGGTATCAAGATAATTTTATTTTACCTCAATAGAG
581 TCAACATTCTATATTTAAAATG-GTAGCCAAGGTATCAAAATAATTTTATTTTACCTCGATAGAG
* * * * * *
39678 AGTAACACTCATCATGTAAATAGTTACTCATATTGTTTCTATAGATAAAATGCAGAGGTATCAAA
645 AGTAACCCTCATCATGTAAATAGTTACTCATATTGCTTCTATAGATAAAATGTATAGATATCATA
*
39743 CAGTT
710 CAATT
* * * *
39748 GACCTTTTCATCGATAAAGAGTAACT-TCATCATGTAAATAGTTATTCAATGTTTTTAGAGAGAA
1 TACCTTTTCATCGATAAAGAGTAA-TGTCATCATGTAAATAGTTACTCATTGTTTTTAAAGAG-A
* * *
39812 AGTGTATAAGTATCATAGAAACCATGCAAGCTGAAGTTACAAAAGTTATTTGATTCTT-AGCTAC
64 A-TGTATAGGTATCATAGAAAGCATGCAAGCTGAAGTTACAAAAGTTATTTGATT-TTAAGCAAC
39876 TTGTC-AGGATTTAGTAATAGAA
127 TTGTCGA-GATTTAGTAATAGAA
39898 ATAACGCGCC
Statistics
Matches: 1940, Mismatches: 277, Indels: 163
0.82 0.12 0.07
Matches are distributed among these distances:
699 3 0.00
700 298 0.15
701 89 0.05
702 72 0.04
703 2 0.00
704 1 0.00
705 1 0.00
708 1 0.00
709 1 0.00
712 86 0.04
713 133 0.07
714 33 0.02
715 112 0.06
716 42 0.02
717 4 0.00
718 107 0.06
719 217 0.11
720 106 0.05
721 75 0.04
722 68 0.04
723 147 0.08
724 124 0.06
725 21 0.01
726 21 0.01
727 3 0.00
728 7 0.00
731 67 0.03
732 96 0.05
733 3 0.00
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (714 bp):
TACCTTTTCATCGATAAAGAGTAATGTCATCATGTAAATAGTTACTCATTGTTTTTAAAGAGAAT
GTATAGGTATCATAGAAAGCATGCAAGCTGAAGTTACAAAAGTTATTTGATTTTAAGCAACTTGT
CGAGATTTAGTAATAGAAGAAAAAACTCATGATGAATTGAGACAAGATGTAGCAAAATACTTCAA
AAATCATAATAATATACTCCTCAACTTTAGGAGCCCCTAATGTTCAAAACCATATTCCAAAGACT
CAACAAGAATCTATATCTAAATAAAAAAAGTAACATTATATAGATAATTTACCTTAACTTTGATA
AAGAGCAACCTCATCATGTAAATAATTACACATCATATTATGTTTGCAGATAAAACATAAATCAT
ATCATACAAATCATGTGCACAGAATTTATAAAAGTTTTTTTTATTTTTAACTTACAATAAATAAC
AAATATTAATAATAGAAGCAAAAGTCCTCAAGCACAAAGACAAGCTATAGCAAAGTTTTCAAAAA
TCAAAAAAATATTCTTCTTAAATTCAAGAATCCTAATATTAAAAACCATTTTCTAAAGACTCAAC
ATTCTATATTTAAAATGGTAGCCAAGGTATCAAAATAATTTTATTTTACCTCGATAGAGAGTAAC
CCTCATCATGTAAATAGTTACTCATATTGCTTCTATAGATAAAATGTATAGATATCATACAATT
Found at i:40230 original size:376 final size:376
Alignment explanation
Indices: 39531--41029 Score: 2566
Period size: 376 Copynumber: 4.0 Consensus size: 376
39521 AAAGACAAGA
* * * * * *
39531 CATAGCAAAATGTTTCAAAAATCAAAAAAATATTCTTCTTAAATTTAAGAGTCCCTAATACTGAA
1 CATAGAAAAATGTTTCAAAACTCAGAAAAATATTCTTCTTAAATTCAGGAGTCCATAATACTGAA
* *
39596 AATCATTTTCTAAAAACTAAACATTCAATATCTAAAATGTGTAGCCAAGGTATCAAGATAATTTT
66 AACCATTTTCTAAAAACTAAACATTCAATATCTAAAATGTGTAGCAAAGGTATCAAGATAATTTT
* * * * *
39661 ATTTTACCTCAATAGAGAGTAACACTCATCATGTAAATAGTTACTCATATTGTTTCTATAGATAA
131 ATTTTACCTCGATAAAGAGTAACCCTCATCATGTAAATAATTACTCATATTGTTTCTATGGATAA
**
39726 AATGCAGAGGTATCAAACAGTTGACCTTTTCATCGATAAAGAGTAACTTCATCATGTAAATAGTT
196 AATGCAGAGGTATCAAACAGTTGACCTTTTCATCGATAAAGAGTAACGCCATCATGTAAATAGTT
*
39791 ATTCAATGTTTTTAGAGAGAAAGTGTATAAGTATCATAGAAACCATGCAAGCTGAAGTTACAAAA
261 ACTCAATGTTTTTAGAGAGAAAGTGTATAAGTATCATAGAAACCATGCAAGCTGAAGTTACAAAA
*
39856 GTTATTTGATTCTTAGCTACTTGTCAGGATTTAGTAATAGAAATAACGCGC
326 GTTATTTGATTCTTAGCAACTTGTCAGGATTTAGTAATAGAAATAACGCGC
39907 CATAGAAAAATGTTTCAAAACTCAGAAAAATATTCTTCTTAAATTCAGGAGTCCATAATACTGAA
1 CATAGAAAAATGTTTCAAAACTCAGAAAAATATTCTTCTTAAATTCAGGAGTCCATAATACTGAA
39972 AACCATTTTCTAAAAACTAAACATTCAATATCTAAAATGTGTAGCAAAGGTATCAAGATAATTTT
66 AACCATTTTCTAAAAACTAAACATTCAATATCTAAAATGTGTAGCAAAGGTATCAAGATAATTTT
*
40037 ATTTTACCTCGATAAAGAGTAACCCTCATCATGTTAATAATTACTCATATTGTTTCTATGGATAA
131 ATTTTACCTCGATAAAGAGTAACCCTCATCATGTAAATAATTACTCATATTGTTTCTATGGATAA
40102 AATGCAGAGGTATCAAACAGTTGACCTTTTCATCGATAAAGAGTAACGCCATCATGTAAATAGTT
196 AATGCAGAGGTATCAAACAGTTGACCTTTTCATCGATAAAGAGTAACGCCATCATGTAAATAGTT
*
40167 ACTCAATGTTTTTAGAGAGAAAGTGTATAAGTATCATAGAAACCATGCAAGTTGAAGTTACAAAA
261 ACTCAATGTTTTTAGAGAGAAAGTGTATAAGTATCATAGAAACCATGCAAGCTGAAGTTACAAAA
*
40232 GTTATTTGATTCTTAGCAACTTGTCAGGATTTAGTAATAGAAATAGCGCGC
326 GTTATTTGATTCTTAGCAACTTGTCAGGATTTAGTAATAGAAATAACGCGC
*
40283 CATAGAAAAATGTTTCAAAACTCATAAAAATATTCTTCTTAAATTCAGGAGTCCATAATACTGAA
1 CATAGAAAAATGTTTCAAAACTCAGAAAAATATTCTTCTTAAATTCAGGAGTCCATAATACTGAA
40348 AACCATTTTCTAAAAACTAAACATTCAATATCTAAAATGTGTAGCAAAGGTATCAAGATAATTTT
66 AACCATTTTCTAAAAACTAAACATTCAATATCTAAAATGTGTAGCAAAGGTATCAAGATAATTTT
* *
40413 ATTTTACCTCGATAAAGAGTAACCCTCATCATGTTAATAATTACTCATATTGTTTTTATGGATAA
131 ATTTTACCTCGATAAAGAGTAACCCTCATCATGTAAATAATTACTCATATTGTTTCTATGGATAA
40478 AATGCAGAGGTATCAAACAGTTGACCTTTTCATCGATAAAGAGTAACGCCATCATGTAAATAGTT
196 AATGCAGAGGTATCAAACAGTTGACCTTTTCATCGATAAAGAGTAACGCCATCATGTAAATAGTT
* *
40543 ACTCAATGTTTTTAGAGAGAAAGTGTATAAGTATCATAGAAATCATGCAAGTTGAAGTTACAAAA
261 ACTCAATGTTTTTAGAGAGAAAGTGTATAAGTATCATAGAAACCATGCAAGCTGAAGTTACAAAA
* ***
40608 GTTATTTGATTCTTAGCAACTTGTCAGGATTTAGTAATAGAAAAAAAATGC
326 GTTATTTGATTCTTAGCAACTTGTCAGGATTTAGTAATAGAAATAACGCGC
* *
40659 CATAGCAAAATGTTTCAAAACTCAGAAAAATATTCTTCTTCTTAAATTCAGGAGTCCCTAATACT
1 CATAGAAAAATGTTTCAAAACTCAGAAAAATA---TTCTTCTTAAATTCAGGAGTCCATAATACT
* * *
40724 GAAAACCATTTTCTAAAAACTAAACATTCAATGTCTAAAATGTGTAGCCAAGGTATAAAGATAAT
63 GAAAACCATTTTCTAAAAACTAAACATTCAATATCTAAAATGTGTAGCAAAGGTATCAAGATAAT
* * * * *
40789 TTTATTTTACCTCGATACAGAGTAACCTTCATCTTGTAAATAGTTACTCATATTGTTTTTATGGA
128 TTTATTTTACCTCGATAAAGAGTAACCCTCATCATGTAAATAATTACTCATATTGTTTCTATGGA
* * * * * *
40854 TAAAATACAGAGGTATCAAACAGTTGACCTTTTCATCGATAAAAATTAATGTCATCATGCAAATA
193 TAAAATGCAGAGGTATCAAACAGTTGACCTTTTCATCGATAAAGAGTAACGCCATCATGTAAATA
40919 GTTACTCAATGTTTTTAGAGAGAAAGTGTATAAGTATCATAGAAACCATGCAAGCTGAAGTTACA
258 GTTACTCAATGTTTTTAGAGAGAAAGTGTATAAGTATCATAGAAACCATGCAAGCTGAAGTTACA
40984 AAAGTTATTTGATTCTTAGCAACTTGTCAGGATTTAGTAATAGAAA
323 AAAGTTATTTGATTCTTAGCAACTTGTCAGGATTTAGTAATAGAAA
41030 AAAACGCTCA
Statistics
Matches: 1073, Mismatches: 47, Indels: 3
0.96 0.04 0.00
Matches are distributed among these distances:
376 754 0.70
379 319 0.30
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.32
Consensus pattern (376 bp):
CATAGAAAAATGTTTCAAAACTCAGAAAAATATTCTTCTTAAATTCAGGAGTCCATAATACTGAA
AACCATTTTCTAAAAACTAAACATTCAATATCTAAAATGTGTAGCAAAGGTATCAAGATAATTTT
ATTTTACCTCGATAAAGAGTAACCCTCATCATGTAAATAATTACTCATATTGTTTCTATGGATAA
AATGCAGAGGTATCAAACAGTTGACCTTTTCATCGATAAAGAGTAACGCCATCATGTAAATAGTT
ACTCAATGTTTTTAGAGAGAAAGTGTATAAGTATCATAGAAACCATGCAAGCTGAAGTTACAAAA
GTTATTTGATTCTTAGCAACTTGTCAGGATTTAGTAATAGAAATAACGCGC
Found at i:43239 original size:684 final size:691
Alignment explanation
Indices: 41601--44533 Score: 2911
Period size: 740 Copynumber: 4.1 Consensus size: 691
41591 TTTTACTCAT
* * * *
41601 TGTAAATAGTTACTCATTGTTTTTACAGAGAAAATGTATAAATATCATAGAAATCATGCAAGCTG
1 TGTAAATAGTTACTCA---TTTTTAGAGAGAAAATGTATAAGTATCATAGAAAACATGTAAGCTG
* * * * * *
41666 AAGTTACAAAAGTTATTTGATTCTAAGTAACTTGTTAG-GATTTAGTAATAAAAGAAAAATCTTA
63 AAGTTACAAAA-TTATTTGATTCTAAGCAACTTATCAGAGATTTAGTAATAGAAGAAAAAGCTCA
* * *
41730 TTATGAATGGAGACAAGATATAG-AAAAATACTTCAAAAATCATAATAACATA---CTCAACTTC
127 TTATGAATAGAGACAAGATGTAGCAAAAAGACTTCAAAAATCATAATAACATACTCCTCAACTTC
* *
41791 AAGAGCCCTTAATGTTCAAAACCATATTCCAAAGACTCGACATGAATCTATA-ACTAAAATAGAA
192 AAGAGCCCCTAATATTCAAAACCATATTCCAAAGACTCGACATGAATCTATATA-TAAAATA-AA
* **
41855 TGTAACATTATATAGATAATTTACCTTAACTTTGAGTAACCCTTGTCACGTA-AATAATTACACA
255 AGTAACATTATATAGATAATTTACCTTAACTTTGAGTAACCCTCATCA--TATAAT-ATT--A-A
* * *
41919 TCATATTATGTTTGTAGATAAAACATAAGTCATATCATACAAATCATGTGCACTAAATTTGTAAA
314 TC------T-TTTGCAGATAAAACATAAGTCATATCATCCAAATCATGTGCACTGAATTTGTAAA
* * *
41984 TGTTTTTTATTTTTAACTTACAATAAGTAACAAATATTAGTAATATAAGCAAAAGTCCTC-AGGC
372 AGTTTTTTATTTTTAACTTACAATAAGTAACAAATATTAGTAATAGAAGCAAAAGTCATCGA-GC
* * * * ** * *
42048 GCAGAGACAAGCTATAGTAAAGTGCTTCAAAAATTGGATAAATATTCTTCTTAAATTAAGGAGTC
436 ACAAAG-CCA-C-A-A-CAAAGTGCTTCAAAAATCAGAAAAATATTCTTCTTAAATTAAGGAGCC
* ** * *
42113 TATAATACTGAAAAACCATCTTCTAAAAACTCAACATTCTATATCTAAAATGGGTAGATAATGTA
496 TATAATACTG-AAAACCATCTTCTAAAGACTCAACATTCTATATCTAAAATGGGTAGCCAAGGAA
* * * *
42178 TCAAGATAATTTTATTTTACCTCGATATAGAGTAACCCTCATCATGTAAATAGTTACCCAAATTG
560 TCAAGATAATTTTATTTTACCTCGATAGAGAGTAACCCTCATCATGTAAATAGTTACTCATACTG
* * ** ** * *
42243 TTTATATAAATAAAATGTATAGGTATCGTACAATTTA-CATT-T-TC-AT--CGAGTAACGTCAT
625 CTTCTATGGATAAAATGTATAGGTATCACACAATTTACCTTTCTATCGATAAAGAGTAACGTCAT
42302 CA
690 CA
* * ** ** * * * *
42304 TATAATTTTTTACTCATTGTTTTTAGAGAGAATGTATAGGTATCATAGAAAGCATGCAAGCTGAA
1 TGTAAATAGTTACTCATT-TTTAGAGAGAAAATGTATAAGTATCATAGAAAACATGTAAGCTGAA
* * * * *
42369 ATTACAAATGTTATTTGAATT-TAAGCAACTTGTC-GAGATTTAGTAATAGGAGAAAAAACTCAT
65 GTTACAAA-ATTATTTG-ATTCTAAGCAACTTATCAGAGATTTAGTAATAGAAGAAAAAGCTCAT
* * * * ***
42432 TATGAATAGAGATAAGATGTAGC-AAAATACTTCAAAAGTTATAATAATGCACTCCTCAACTTCA
128 TATGAATAGAGACAAGATGTAGCAAAAAGACTTCAAAAATCATAATAACATACTCCTCAACTTCA
* * ** * * *
42496 AGAGCCTCGAATATTCAAAATTATATTCCAAAGACTCGATATGAATTTATATCTAAAAT-AAAGT
193 AGAGCCCCTAATATTCAAAACCATATTCCAAAGACTCGACATGAATCTATATATAAAATAAAAGT
*
42560 AACATTATATAGATAATTTACCTTAACTTTGAGTAA-CC-CA-CAT-T-ATATT-ATC-CTTGCA
258 AACATTATATAGATAATTTACCTTAACTTTGAGTAACCCTCATCATATAATATTAATCTTTTGCA
* * * * * *
42618 AAAAAAACATAACTCGTATCATCCAAATCATGGGCACTGAATTTGTAAAAGTTTTTTACTTTTAA
323 GATAAAACATAAGTCATATCATCCAAATCATGTGCACTGAATTTGTAAAAGTTTTTTATTTTTAA
* * *
42683 CTTACAGTAAGTAACAAATATTAATAATAGAAGAAAAAGTCATCGAGCACACAAGCCACAACAAA
388 CTTACAATAAGTAACAAATATTAGTAATAGAAGCAAAAGTCATCGAGCACA-AAGCCACAACAAA
* * * * * * * *
42748 GTACTTCAAAACTCAGAAAAATATTATTTTTAAATTCAGGAGTCCCA-AATACCGAAAACCATTT
452 GTGCTTCAAAAATCAGAAAAATATTCTTCTTAAATTAAGGAG-CCTATAATACTGAAAACCATCT
* * **
42812 TCTAAAGACTAAACATTC-ATTATCTAAAATGTGTAGCCAAGTTATCAAGATAATTTTATTTTAC
516 TCTAAAGACTCAACATTCTA-TATCTAAAATGGGTAGCCAAGGAATCAAGATAATTTTATTTTAC
* * *
42876 CTCGACATAGAGTAACCCTCATCATGTAAATAGTTACTCGTACTGCTTCTATGGATAAAATGTAT
580 CTCGATAGAGAGTAACCCTCATCATGTAAATAGTTACTCATACTGCTTCTATGGATAAAATGTAT
* * * *
42941 AGGTATCATATAATTTA-CTTTTTCATCGATAAAGAGTAAGGTCATCA
645 AGGTATCACACAATTTACCTTTCT-ATCGATAAAGAGTAACGTCATCA
* * * *
42988 TGTAAATAGTTACTCATTTTTAGAGAAAAATATATATAAGTATCATAGAAAGCATGTAAGTTGAA
1 TGTAAATAGTTACTCATTTTTAGAGAGAAA-ATGTATAAGTATCATAGAAAACATGTAAGCTGAA
*
43053 GTTACAAGAATTATTTGATTCAAAGCAACTTATCAG-GATTTAGTAATAGAAGAAAAAGCTCATT
65 GTTACAA-AATTATTTGATTCTAAGCAACTTATCAGAGATTTAGTAATAGAAGAAAAAGCTCATT
* * *
43117 ATGAATGGAGACGAGATGTAGCAAAAA-ACTTCAAAAATCATAATAACATACCCCTCAACTTCAA
129 ATGAATAGAGACAAGATGTAGCAAAAAGACTTCAAAAATCATAATAACATACTCCTCAACTTCAA
* * *
43181 AAGCCCCTAATATTCAAAATCATATTCCAAAGACTCGACATGAATCTATTTATAAAATAGAAAGT
194 GAGCCCCTAATATTCAAAACCATATTCCAAAGACTCGACATGAATCTATATATAAAATA-AAAGT
* * *
43246 TACATTATATAAATAATTTACCTTAACTTTGAGTAACCCTCATCATGTAAATAATTACACATCAT
258 AACATTATATAGATAATTTACCTTAACTTTGAGTAACCCTCATCATAT-AAT-ATT--A-ATC--
* * *
43311 ATTGTGTTTGCAGGTAAAACATAAGTCATATCATCCAAATAATGTGCATTGAATTTGTAAAAGTT
316 ----T-TTTGCAGATAAAACATAAGTCATATCATCCAAATCATGTGCACTGAATTTGTAAAAGTT
* * * * *
43376 TTTTATTTTTAACTTACATTAACTAACAAATATTAGTAATAGAAGCAAAAGTCCTCGGGCGCAAA
376 TTTTATTTTTAACTTACAATAAGTAACAAATATTAGTAATAGAAGCAAAAGTCATCGAGCACAAA
* * * * * *
43441 GACAAGTTATAGTAAAGTGCTTCAATAATC-GAAAAATATTCTTCTTAAATTCAGGAGCCTTTAA
441 G-CCA--CA-A-CAAAGTGCTTCAAAAATCAGAAAAATATTCTTCTTAAATTAAGGAGCCTATAA
* * * *
43505 TACTAAAAACCTTCTTCTAAAGACTCACCCTTCTATATCTAAAATGGGTAGCCAAGGAATCAAGA
501 TACTGAAAACCATCTTCTAAAGACTCAACATTCTATATCTAAAATGGGTAGCCAAGGAATCAAGA
* * * *
43570 TAATTTTATTTTGCCTCGATAGAGAGTAACCCTCATCATGTAAATAGTTACTTATATTGCTTCCA
566 TAATTTTATTTTACCTCGATAGAGAGTAACCCTCATCATGTAAATAGTTACTCATACTGCTTCTA
* **
43635 TGGATAAAATGTGTATTTATCACACAATTTACCTTTCTATCGATAAAGAGTAACGTCATCA
631 TGGATAAAATGTATAGGTATCACACAATTTACCTTTCTATCGATAAAGAGTAACGTCATCA
*
43696 TGTAAATAGTTACTCATTATTTTTAGAGAGAAAATGTATAAGTATCATAGAAAACATGTCAGCTG
1 TGTAAATAGTTACTC---ATTTTTAGAGAGAAAATGTATAAGTATCATAGAAAACATGTAAGCTG
* * **
43761 AAGTTACAAAAAATATTTGATTCTAAGCAACTTGTCATCATGTAAATAGTTACTCATTGTTTTTA
63 AAGTTAC-AAAATTATTTGATTCTAAGCAAC-T-T-ATCA-G---AGA-TT--T-A--G-TAATA
* * * * * * * *
43826 GGGAGAAAATG-T-ATAAAAGAA-AAAGCTCATTTTGAATGGAGACAAGATGTAGCAGAATACTT
113 -GAAGAAAAAGCTCAT-TATGAATAGAG-ACA---AG-ATGTAG-CAA-A---A--AG---ACTT
* * *
43888 CAAAAATCATAATAACATACTCTTCAACTTCATGAGCCCCTAATGTTCAAAACCATATTCCAAAG
161 CAAAAATCATAATAACATACTCCTCAACTTCAAGAGCCCCTAATATTCAAAACCATATTCCAAAG
* *
43953 AGTCGACATGAATCTATATCTAAAATAGAAAGTAACATTATATAGATAATTTACCTTAACTTTGA
226 ACTCGACATGAATCTATATATAAAATA-AAAGTAACATTATATAGATAATTTACCTTAACTTTGA
* * * * *
44018 GTAACCCTAATCATGTAAACAATTACACATCATATTATGTTTACATATAAAACATATGTCATATC
290 GTAACCCTCATCATAT-AA-TATT--A-ATC-T-TT-TG----CAGATAAAACATAAGTCATATC
* *
44083 ATGCAAATCATGTGCACTGAATTTGTAAAAG-TTTTTATTTTTAACTAACAATAAGTAACAAATA
343 ATCCAAATCATGTGCACTGAATTTGTAAAAGTTTTTTATTTTTAACTTACAATAAGTAACAAATA
* *
44147 TTGGTAATAGAAGCAAAAGTTCA-CGAGCGCAAA--CACAAACTATTGTGAAGTGCTTCAAAAAT
408 TTAGTAATAGAAGCAAAAG-TCATCGAGCACAAAGCCAC-AAC-A-----AAGTGCTTCAAAAAT
* * *
44209 CAGAAAAATATTCTTCTTAAATTAAGGAGCCTATAATATTGAAACCCATCTTCTAAGGACTCAAC
465 CAGAAAAATATTCTTCTTAAATTAAGGAGCCTATAATACTGAAAACCATCTTCTAAAGACTCAAC
* * * *
44274 CTTCTATATTTAAAATGGGTAGTCAAGGAATTAAGATAATTTTATTTTACCTCGATAGAGAGTAA
530 ATTCTATATCTAAAATGGGTAGCCAAGGAATCAAGATAATTTTATTTTACCTCGATAGAGAGTAA
*
44339 CCCTCATCATGTAAATAGTTACTCATACTGCTTCTATGGATAAAATGTGTAGGTATCACACAGA-
595 CCCTCATCATGTAAATAGTTACTCATACTGCTTCTATGGATAAAATGTATAGGTATCACACA-AT
44403 TTACCTTTCTATCGATAAAGAGTAACGTCATCA
659 TTACCTTTCTATCGATAAAGAGTAACGTCATCA
* * *
44436 TGTAAATAGTTACTCATTATTTTTATAGAGAAAATGTATAAGTATCATAGAAAACTTGTCAGCTG
1 TGTAAATAGTTACTC---ATTTTTAGAGAGAAAATGTATAAGTATCATAGAAAACATGTAAGCTG
44501 AAGTTACAAAAGTTATTTGATTCTAAGCAACTT
63 AAGTTACAAAA-TTATTTGATTCTAAGCAACTT
44534 GTCATCATGT
Statistics
Matches: 1872, Mismatches: 250, Indels: 181
0.81 0.11 0.08
Matches are distributed among these distances:
677 1 0.00
678 138 0.07
679 44 0.02
680 3 0.00
681 3 0.00
682 3 0.00
683 116 0.06
684 210 0.11
685 6 0.00
686 39 0.02
687 2 0.00
688 2 0.00
689 3 0.00
690 1 0.00
691 3 0.00
692 2 0.00
693 3 0.00
695 3 0.00
696 2 0.00
697 4 0.00
699 2 0.00
700 3 0.00
701 132 0.07
702 43 0.02
703 12 0.01
704 62 0.03
705 107 0.06
707 3 0.00
708 202 0.11
709 20 0.01
710 54 0.03
711 17 0.01
712 1 0.00
713 4 0.00
714 1 0.00
718 1 0.00
719 2 0.00
721 1 0.00
722 1 0.00
724 5 0.00
725 9 0.00
726 8 0.00
728 1 0.00
729 5 0.00
730 3 0.00
731 1 0.00
734 3 0.00
735 4 0.00
736 4 0.00
738 1 0.00
739 77 0.04
740 494 0.26
741 1 0.00
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.32
Consensus pattern (691 bp):
TGTAAATAGTTACTCATTTTTAGAGAGAAAATGTATAAGTATCATAGAAAACATGTAAGCTGAAG
TTACAAAATTATTTGATTCTAAGCAACTTATCAGAGATTTAGTAATAGAAGAAAAAGCTCATTAT
GAATAGAGACAAGATGTAGCAAAAAGACTTCAAAAATCATAATAACATACTCCTCAACTTCAAGA
GCCCCTAATATTCAAAACCATATTCCAAAGACTCGACATGAATCTATATATAAAATAAAAGTAAC
ATTATATAGATAATTTACCTTAACTTTGAGTAACCCTCATCATATAATATTAATCTTTTGCAGAT
AAAACATAAGTCATATCATCCAAATCATGTGCACTGAATTTGTAAAAGTTTTTTATTTTTAACTT
ACAATAAGTAACAAATATTAGTAATAGAAGCAAAAGTCATCGAGCACAAAGCCACAACAAAGTGC
TTCAAAAATCAGAAAAATATTCTTCTTAAATTAAGGAGCCTATAATACTGAAAACCATCTTCTAA
AGACTCAACATTCTATATCTAAAATGGGTAGCCAAGGAATCAAGATAATTTTATTTTACCTCGAT
AGAGAGTAACCCTCATCATGTAAATAGTTACTCATACTGCTTCTATGGATAAAATGTATAGGTAT
CACACAATTTACCTTTCTATCGATAAAGAGTAACGTCATCA
Found at i:44521 original size:740 final size:739
Alignment explanation
Indices: 43102--44724 Score: 2586
Period size: 740 Copynumber: 2.2 Consensus size: 739
43092 TTAGTAATAG
* * * *
43102 AAGAAAAAGCTCATTATGAATGGAGACGAGATGTAGCAAAAAACTTCAAAAATCATAATAACATA
1 AAGAAAAAGCTCATTTTGAATGGAGACAAGATGTAGCAGAATACTTCAAAAATCATAATAACATA
* * * * * *
43167 CCCCTCAACTTCAAAAGCCCCTAATATTCAAAATCATATTCCAAAGACTCGACATGAATCTATTT
66 CTCCTCAACTTCAAGAGCCCCTAATGTTCAAAACCATATTCCAAAGAGTCGACATGAATCTATAT
* * *
43232 ATAAAATAGAAAGTTACATTATATAAATAATTTACCTTAACTTTGAGTAACCCTCATCATGTAAA
131 CTAAAATAGAAAGTAACATTATATAAATAATTTACCTTAACTTTGAGTAACCCTAATCATGTAAA
* * * * *
43297 TAATTACACATCATATTGTGTTTGCAGGTAAAACATAAGTCATATCATCCAAATAATGTGCATTG
196 CAATTACACATCATATTATGTTTACAGATAAAACATAAGTCATATCATCCAAATAATGTGCACTG
* *
43362 AATTTGTAAAAGTTTTTTATTTTTAACTTACATTAACTAACAAATATTAGTAATAGAAGCAAAAG
261 AATTTGTAAAAGTTTTTTATTTTTAACTAACAATAACTAACAAATATTAGTAATAGAAGCAAAAG
* * * ** *
43427 TCCTCGGGCGCAAAGACAAGTTATAGTAAAGTGCTTCAATAATCGAAAAATATTCTTCTTAAATT
326 TCCACGAGCGCAAACACAAACTATAGTAAAGTGCTTCAAAAATCGAAAAATATTCTTCTTAAATT
* * * *
43492 CAGGAGCCTTTAATACTAAAAACCTTCTTCTAAAGACTCACCCTTCTATATCTAAAATGGGTAGC
391 AAGGAGCCTATAATACTAAAAACCATCTTCTAAAGACTCAACCTTCTATATCTAAAATGGGTAGC
*
43557 CAAGGAATCAAGATAATTTTATTTTGCCTCGATAGAGAGTAACCCTCATCATGTAAATAGTTACT
456 CAAGGAATCAAGATAATTTTATTTTACCTCGATAGAGAGTAACCCTCATCATGTAAATAGTTACT
* * **
43622 TATATTGCTTCCATGGATAAAATGTGTATTTATCACACAATTTACCTTTCTATCGATAAAGAGTA
521 CATACTGCTTCCATGGATAAAATGTGTAGGTATCACACAATTTACCTTTCTATCGATAAAGAGTA
43687 ACGTCATCATGTAAATAGTTACTCATTATTTTTAGAGAGAAAATGTATAAGTATCATAGAAAACA
586 ACGTCATCATGTAAATAGTTACTCATTATTTTTAGAGAGAAAATGTATAAGTATCATAGAAAACA
*
43752 TGTCAGCTGAAGTTACAAAAAATATTTGATTCTAAGCAACTTGTCATCATGTAAATAGTTACTCA
651 TGTCAGCTGAAGTTACAAAAAATATTTGATTCTAAGCAACTTGTCATCATGTAAATAATTACTCA
* *
43817 TTGTTTTTAGGGAGAAAATGTATAA
716 TTATTTTTAGAGAGAAAATGTAT-A
43842 AAGAAAAAGCTCATTTTGAATGGAGACAAGATGTAGCAGAATACTTCAAAAATCATAATAACATA
1 AAGAAAAAGCTCATTTTGAATGGAGACAAGATGTAGCAGAATACTTCAAAAATCATAATAACATA
* *
43907 CTCTTCAACTTCATGAGCCCCTAATGTTCAAAACCATATTCCAAAGAGTCGACATGAATCTATAT
66 CTCCTCAACTTCAAGAGCCCCTAATGTTCAAAACCATATTCCAAAGAGTCGACATGAATCTATAT
*
43972 CTAAAATAGAAAGTAACATTATATAGATAATTTACCTTAACTTTGAGTAACCCTAATCATGTAAA
131 CTAAAATAGAAAGTAACATTATATAAATAATTTACCTTAACTTTGAGTAACCCTAATCATGTAAA
* * * *
44037 CAATTACACATCATATTATGTTTACATATAAAACATATGTCATATCATGCAAATCATGTGCACTG
196 CAATTACACATCATATTATGTTTACAGATAAAACATAAGTCATATCATCCAAATAATGTGCACTG
* *
44102 AATTTGTAAAAG-TTTTTATTTTTAACTAACAATAAGTAACAAATATTGGTAATAGAAGCAAAAG
261 AATTTGTAAAAGTTTTTTATTTTTAACTAACAATAACTAACAAATATTAGTAATAGAAGCAAAAG
* * *
44166 TTCACGAGCGCAAACACAAACTATTGTGAAGTGCTTCAAAAATCAGAAAAATATTCTTCTTAAAT
326 TCCACGAGCGCAAACACAAACTATAGTAAAGTGCTTCAAAAATC-GAAAAATATTCTTCTTAAAT
* * * * *
44231 TAAGGAGCCTATAATATTGAAACCCATCTTCTAAGGACTCAACCTTCTATATTTAAAATGGGTAG
390 TAAGGAGCCTATAATACTAAAAACCATCTTCTAAAGACTCAACCTTCTATATCTAAAATGGGTAG
* *
44296 TCAAGGAATTAAGATAATTTTATTTTACCTCGATAGAGAGTAACCCTCATCATGTAAATAGTTAC
455 CCAAGGAATCAAGATAATTTTATTTTACCTCGATAGAGAGTAACCCTCATCATGTAAATAGTTAC
*
44361 TCATACTGCTTCTATGGATAAAATGTGTAGGTATCACACAGA-TTACCTTTCTATCGATAAAGAG
520 TCATACTGCTTCCATGGATAAAATGTGTAGGTATCACACA-ATTTACCTTTCTATCGATAAAGAG
*
44425 TAACGTCATCATGTAAATAGTTACTCATTATTTTTATAGAGAAAATGTATAAGTATCATAGAAAA
584 TAACGTCATCATGTAAATAGTTACTCATTATTTTTAGAGAGAAAATGTATAAGTATCATAGAAAA
* **
44490 CTTGTCAGCTGAAGTTACAAAAGTTATTTGATTCTAAGCAACTTGTCATCATGTAAATAATTACT
649 CATGTCAGCTGAAGTTACAAAAAATATTTGATTCTAAGCAACTTGTCATCATGTAAATAATTACT
44555 CATTATTTTTAGAGAGAAAATGTATA
714 CATTATTTTTAGAGAGAAAATGTATA
* * * *
44581 AA-AAAAAGCTCATTTTGAATGAAGACAAGATATAGTAGAATACTTTAAAAATTCATAATAACAT
1 AAGAAAAAGCTCATTTTGAATGGAGACAAGATGTAGCAGAATACTTCAAAAA-TCATAATAACAT
*
44645 ACTCCTCAACTTCAAGAGCCCCTAATGTTCAAAACTATATTCCAAAGAGTCGACATGAATCTATA
65 ACTCCTCAACTTCAAGAGCCCCTAATGTTCAAAACCATATTCCAAAGAGTCGACATGAATCTATA
44710 TCTAAAATAGAAAGT
130 TCTAAAATAGAAAGT
44725 GCTTAAAAAT
Statistics
Matches: 811, Mismatches: 69, Indels: 7
0.91 0.08 0.01
Matches are distributed among these distances:
738 45 0.06
739 175 0.22
740 590 0.73
741 1 0.00
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.32
Consensus pattern (739 bp):
AAGAAAAAGCTCATTTTGAATGGAGACAAGATGTAGCAGAATACTTCAAAAATCATAATAACATA
CTCCTCAACTTCAAGAGCCCCTAATGTTCAAAACCATATTCCAAAGAGTCGACATGAATCTATAT
CTAAAATAGAAAGTAACATTATATAAATAATTTACCTTAACTTTGAGTAACCCTAATCATGTAAA
CAATTACACATCATATTATGTTTACAGATAAAACATAAGTCATATCATCCAAATAATGTGCACTG
AATTTGTAAAAGTTTTTTATTTTTAACTAACAATAACTAACAAATATTAGTAATAGAAGCAAAAG
TCCACGAGCGCAAACACAAACTATAGTAAAGTGCTTCAAAAATCGAAAAATATTCTTCTTAAATT
AAGGAGCCTATAATACTAAAAACCATCTTCTAAAGACTCAACCTTCTATATCTAAAATGGGTAGC
CAAGGAATCAAGATAATTTTATTTTACCTCGATAGAGAGTAACCCTCATCATGTAAATAGTTACT
CATACTGCTTCCATGGATAAAATGTGTAGGTATCACACAATTTACCTTTCTATCGATAAAGAGTA
ACGTCATCATGTAAATAGTTACTCATTATTTTTAGAGAGAAAATGTATAAGTATCATAGAAAACA
TGTCAGCTGAAGTTACAAAAAATATTTGATTCTAAGCAACTTGTCATCATGTAAATAATTACTCA
TTATTTTTAGAGAGAAAATGTATA
Found at i:46110 original size:21 final size:20
Alignment explanation
Indices: 46085--46183 Score: 72
Period size: 21 Copynumber: 4.8 Consensus size: 20
46075 AATCAGTTTC
46085 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
46106 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
46127 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
46147 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
* *
46168 GAAAATTGCAACGCGA
1 CAAAATCGCAACGCGA
46184 ACACATAAAT
Statistics
Matches: 60, Mismatches: 16, Indels: 5
0.74 0.20 0.06
Matches are distributed among these distances:
20 15 0.25
21 45 0.75
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.22
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:46212 original size:20 final size:19
Alignment explanation
Indices: 46189--46420 Score: 230
Period size: 20 Copynumber: 11.6 Consensus size: 19
46179 CGCGAACACA
46189 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACG-GTATCCG
46209 TAAATCGCAACGTGTATCCG
1 TAAATCGCAACG-GTATCCG
*
46229 TTAATCGCAACGCGTATCCG
1 TAAATCGCAACG-GTATCCG
* * *
46249 TAAATCGCAACGATAATACA
1 TAAATCGCAACGGT-ATCCG
46269 TAAAATCGCAACGCGTATCCG
1 T-AAATCGCAACG-GTATCCG
*
46290 TAAATCGCAACGATAATCCG
1 TAAATCGCAACGGT-ATCCG
* *
46310 TAAATCGCAACGAGAATCTG
1 TAAATCGCAACG-GTATCCG
*
46330 TAAATCGCAACGATAATCCG
1 TAAATCGCAACGGT-ATCCG
* *
46350 TAAATCGCAACGAGAATCTG
1 TAAATCGCAACG-GTATCCG
*
46370 TAAATCGCAACGATAATCCG
1 TAAATCGCAACGGT-ATCCG
* *
46390 TAAATCGCAACGAGAATCTG
1 TAAATCGCAACG-GTATCCG
*
46410 TAAATCACAAC
1 TAAATCGCAAC
46421 ACTGAAATTT
Statistics
Matches: 176, Mismatches: 27, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
19 2 0.01
20 158 0.90
21 15 0.09
22 1 0.01
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.21
Consensus pattern (19 bp):
TAAATCGCAACGGTATCCG
Found at i:46219 original size:40 final size:39
Alignment explanation
Indices: 46150--46420 Score: 281
Period size: 40 Copynumber: 6.8 Consensus size: 39
46140 CGATTTTCCA
** * * ** *
46150 AAATCGCAACGCGAATATGAAAATTGCAACGCGAACACAT
1 AAATCGCAACGCGAATCCGTAAATCGCAACGATAAC-CGT
* * *
46190 AAATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGAATCCGTAAATCGCAACG-ATAACCGT
* * * *
46230 TAATCGCAACGCGTATCCGTAAATCGCAACGATAATACAT
1 AAATCGCAACGCGAATCCGTAAATCGCAACGATAA-CCGT
*
46270 AAAATCGCAACGCGTATCCGTAAATCGCAACGATAATCCGT
1 -AAATCGCAACGCGAATCCGTAAATCGCAACGATAA-CCGT
* *
46311 AAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCGT
1 AAATCGCAACGCGAATCCGTAAATCGCAACGATAA-CCGT
* *
46351 AAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCGT
1 AAATCGCAACGCGAATCCGTAAATCGCAACGATAA-CCGT
* * *
46391 AAATCGCAACGAGAATCTGTAAATCACAAC
1 AAATCGCAACGCGAATCCGTAAATCGCAAC
46421 ACTGAAATTT
Statistics
Matches: 207, Mismatches: 21, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
39 2 0.01
40 166 0.80
41 39 0.19
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.20
Consensus pattern (39 bp):
AAATCGCAACGCGAATCCGTAAATCGCAACGATAACCGT
Found at i:46239 original size:60 final size:60
Alignment explanation
Indices: 46189--46420 Score: 279
Period size: 60 Copynumber: 3.9 Consensus size: 60
46179 CGCGAACACA
* * * *
46189 TAAATCGCAACGCGT-ATCCGTAAATCGCAACGTGTATCCGTTAATCGCAACGCGTATCCG
1 TAAATCGCAACG-ATAATCCGTAAATCGCAACGTGTATCCGTAAATCGCAACGAGAATCCG
* * * *
46249 TAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGTAAATCGCAACGATAATCCG
1 TAAATCGCAACGATAATCCGT-AAATCGCAACGTGTATCCGTAAATCGCAACGAGAATCCG
* * * *
46310 TAAATCGCAACGAGAATCTGTAAATCGCAACGAT-AATCCGTAAATCGCAACGAGAATCTG
1 TAAATCGCAACGATAATCCGTAAATCGCAACG-TGTATCCGTAAATCGCAACGAGAATCCG
* * * *
46370 TAAATCGCAACGATAATCCGTAAATCGCAACGAGAATCTGTAAATCACAAC
1 TAAATCGCAACGATAATCCGTAAATCGCAACGTGTATCCGTAAATCGCAAC
46421 ACTGAAATTT
Statistics
Matches: 147, Mismatches: 21, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
59 1 0.01
60 95 0.65
61 51 0.35
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.21
Consensus pattern (60 bp):
TAAATCGCAACGATAATCCGTAAATCGCAACGTGTATCCGTAAATCGCAACGAGAATCCG
Found at i:46281 original size:101 final size:101
Alignment explanation
Indices: 46169--46420 Score: 273
Period size: 101 Copynumber: 2.5 Consensus size: 101
46159 CGCGAATATG
* * * * *
46169 AAAATTGCAACGCG-AACACATAAATCGCAACGCGT-ATCCGTAAATCGCAACGTGTATCCGTTA
1 AAAATCGCAACGCGTAAC-CATAAATCGCAACG-ATAATCCGTAAATCGCAACGAGAATCCGTAA
*
46232 ATCGCAACGCGT-ATCCGTAAATCGCAACGATAATACAT
64 ATCGCAACG-ATAATCCGTAAATCGCAACGATAATACAT
* * *
46270 AAAATCGCAACGCGTATCCGTAAATCGCAACGATAATCCGTAAATCGCAACGAGAATCTGTAAAT
1 AAAATCGCAACGCGTAACCATAAATCGCAACGATAATCCGTAAATCGCAACGAGAATCCGTAAAT
*
46335 CGCAACGATAATCCGTAAATCGCAACGAGAAT-C-T
66 CGCAACGATAATCCGTAAATCGCAACGATAATACAT
* * * * * *
46369 GTAAATCGCAACG-ATAATCCGTAAATCGCAACGAGAATCTGTAAATCACAAC
1 -AAAATCGCAACGCGTAA-CCATAAATCGCAACGATAATCCGTAAATCGCAAC
46421 ACTGAAATTT
Statistics
Matches: 130, Mismatches: 16, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
99 3 0.02
100 45 0.35
101 80 0.62
102 2 0.02
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.20
Consensus pattern (101 bp):
AAAATCGCAACGCGTAACCATAAATCGCAACGATAATCCGTAAATCGCAACGAGAATCCGTAAAT
CGCAACGATAATCCGTAAATCGCAACGATAATACAT
Found at i:47141 original size:24 final size:24
Alignment explanation
Indices: 47102--47148 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
47092 AAATTTGGTC
47102 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
47126 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
47149 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:47340 original size:12 final size:12
Alignment explanation
Indices: 47323--47347 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47313 ATATAATCCT
47323 GAAGAAGAAAAA
1 GAAGAAGAAAAA
47335 GAAGAAGAAAAA
1 GAAGAAGAAAAA
47347 G
1 G
47348 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:49678 original size:33 final size:33
Alignment explanation
Indices: 49627--49837 Score: 307
Period size: 33 Copynumber: 6.2 Consensus size: 33
49617 CGGAAATTAC
*
49627 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAAAATCGCAATGCGAAATGAA
*
49660 AATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAACGA-GAAAATCGCAATGC-GAAATGAA
49694 AATCGCAACGAGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAAAATCGCAATGCGAAATGAA
*
49727 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAAAATCGCAATGCGAAATGAA
49760 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAAAATCGCAATGCGAAATGAA
* *
49798 AATCGCAACGAGAGAATCGCAATGCGAAATTAA
1 AATCGCAACGAGAAAATCGCAATGCGAAATGAA
49831 AATCGCA
1 AATCGCA
49838 TTGCGATTCT
Statistics
Matches: 163, Mismatches: 7, Indels: 16
0.88 0.04 0.09
Matches are distributed among these distances:
32 1 0.01
33 96 0.59
34 31 0.19
35 3 0.02
36 2 0.01
37 1 0.01
38 29 0.18
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.14
Consensus pattern (33 bp):
AATCGCAACGAGAAAATCGCAATGCGAAATGAA
Found at i:49708 original size:14 final size:14
Alignment explanation
Indices: 49691--49748 Score: 62
Period size: 14 Copynumber: 3.8 Consensus size: 14
49681 ATGCGGAAAT
49691 GAAAATCGCAACGA
1 GAAAATCGCAACGA
49705 GAAAATCGCAATGCGAAA
1 GAAAATCGCAA--CG--A
49723 TGAAAATCGCAACGA
1 -GAAAATCGCAACGA
*
49738 GAGAATCGCAA
1 GAAAATCGCAA
49749 TGCGAAATGA
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
14 21 0.55
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 11 0.29
ACGTcount: A:0.48, C:0.19, G:0.22, T:0.10
Consensus pattern (14 bp):
GAAAATCGCAACGA
Found at i:49716 original size:67 final size:66
Alignment explanation
Indices: 49627--49837 Score: 316
Period size: 71 Copynumber: 3.1 Consensus size: 66
49617 CGGAAATTAC
* * *
49627 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAAC-ATGAAAATCGCAATGCGGAAAT
1 AATCGCAACGAGAAAATCGCAATGCGAAATGAAAATCGCAACGA-GAGAATCGCAATGC-GAAAT
49691 GAA
64 GAA
49694 AATCGCAACGAGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGA
1 AATCGCAACGAGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGA
49759 A
66 A
49760 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGA
1 AATCGCAA--CG--A-GAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGA
*
49825 AATTAA
61 AATGAA
49831 AATCGCA
1 AATCGCA
49838 TTGCGATTCT
Statistics
Matches: 134, Mismatches: 4, Indels: 8
0.92 0.03 0.05
Matches are distributed among these distances:
66 16 0.12
67 53 0.40
68 3 0.02
70 1 0.01
71 61 0.46
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.14
Consensus pattern (66 bp):
AATCGCAACGAGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGA
A
Found at i:49727 original size:19 final size:19
Alignment explanation
Indices: 49641--49843 Score: 212
Period size: 19 Copynumber: 11.7 Consensus size: 19
49631 GCAACGAGAG
49641 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
49660 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
49674 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
49694 AATCGCAA--CG--A-GAA
1 AATCGCAATGCGAAATGAA
49708 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
49727 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
49741 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
49760 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
49779 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
49798 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
*
49812 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
49831 AATCGCATTGCGA
1 AATCGCAATGCGA
49844 TTCTCCCGTT
Statistics
Matches: 155, Mismatches: 8, Indels: 42
0.76 0.04 0.20
Matches are distributed among these distances:
14 43 0.28
15 3 0.02
16 7 0.05
17 6 0.04
18 4 0.03
19 79 0.51
20 13 0.08
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:49892 original size:19 final size:19
Alignment explanation
Indices: 49852--49949 Score: 134
Period size: 19 Copynumber: 5.4 Consensus size: 19
49842 GATTCTCCCG
49852 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
49872 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
49891 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
49905 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
49924 TTGCAATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
49943 TTGCGAT
1 TTGCGAT
49950 AGTCAATTTT
Statistics
Matches: 69, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
14 6 0.09
16 7 0.10
17 7 0.10
19 34 0.49
20 15 0.22
ACGTcount: A:0.15, C:0.22, G:0.16, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:49946 original size:52 final size:53
Alignment explanation
Indices: 49833--49949 Score: 209
Period size: 53 Copynumber: 2.2 Consensus size: 53
49823 GAAATTAAAA
*
49833 TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCAATTTTCATT
*
49886 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCAATTTTCATT
1 TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCAATTTTCATT
49938 TCGCATTGCGAT
1 TCGCATTGCGAT
49950 AGTCAATTTT
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
52 29 0.47
53 33 0.53
ACGTcount: A:0.15, C:0.25, G:0.17, T:0.44
Consensus pattern (53 bp):
TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCAATTTTCATT
Found at i:50075 original size:14 final size:14
Alignment explanation
Indices: 50056--50092 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
50046 CATCAATTAC
50056 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
50070 ACAAATCATCTTTT
1 ACAAATCAACTTTT
50084 ACAAATCAA
1 ACAAATCAA
50093 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:52088 original size:14 final size:14
Alignment explanation
Indices: 52069--52125 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
52059 GCGAAATGAA
*
52069 AATCGCAACGACAG
1 AATCGCAACGAAAG
52083 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
52100 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
52116 AATCGCAACG
1 AATCGCAACG
52126 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:52096 original size:33 final size:33
Alignment explanation
Indices: 52050--52142 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
52040 GCGAAACCAA
*
52050 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
52083 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
52116 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
52143 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:52107 original size:19 final size:19
Alignment explanation
Indices: 52013--52147 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
52003 TAGTTTACTT
* *
52013 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
52033 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
52052 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
52071 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
52085 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
52104 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
52118 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
52137 TCGCAATGCGA
1 TCGCAACGCGA
52148 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:52165 original size:19 final size:19
Alignment explanation
Indices: 52143--52271 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
52133 AAAATCGCAA
52143 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
52162 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
52176 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
52195 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
52209 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
52228 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
52247 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
52267 TGCGA
1 TGCGA
52272 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:52185 original size:33 final size:33
Alignment explanation
Indices: 52143--52234 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
52133 AAAATCGCAA
52143 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
52176 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
52209 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
52235 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:52478 original size:93 final size:93
Alignment explanation
Indices: 52319--52602 Score: 550
Period size: 93 Copynumber: 3.1 Consensus size: 93
52309 ATGGATTGCA
52319 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
52384 TAGCAGAATTGGCAGCAACTGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
52412 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
52477 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
52505 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
52570 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
52598 TTACT
1 TTACT
52603 AAGCAATCTA
Statistics
Matches: 189, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 189 1.00
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.23
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:54326 original size:14 final size:14
Alignment explanation
Indices: 54307--54396 Score: 63
Period size: 14 Copynumber: 5.7 Consensus size: 14
54297 TTGAAATGAA
54307 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
54321 AATCGCAACGCGAAATGAC
1 AATCGCAA--CG--A-GAG
*
54340 AATCGCAACGAGAT
1 AATCGCAACGAGAG
*
54354 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
54373 AATCGCAACGAGAG
1 AATCGCAACGAGAG
54387 AATCGCAACG
1 AATCGCAACG
54397 CGAAATGAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 30 0.48
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 20 0.32
ACGTcount: A:0.43, C:0.23, G:0.23, T:0.10
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:54344 original size:33 final size:33
Alignment explanation
Indices: 54299--54413 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
54289 TCTTTTGGTT
54299 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
54332 GAAATGACAATCGCAACGAGATAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
54365 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
54398 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
54414 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.46, C:0.21, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:54345 original size:19 final size:19
Alignment explanation
Indices: 54321--54418 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
54311 GCAACGAGAG
*
54321 AATCGCAACGCGAAATGAC
1 AATCGCAACGCGAAATGAA
*
54340 AATCGCAA--CG--A-GAT
1 AATCGCAACGCGAAATGAA
54354 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
54373 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
54387 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
54406 AATCGCAATGCGA
1 AATCGCAACGCGA
54419 TTTTGGTTTC
Statistics
Matches: 64, Mismatches: 5, Indels: 20
0.72 0.06 0.22
Matches are distributed among these distances:
14 20 0.31
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 32 0.50
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:54449 original size:14 final size:14
Alignment explanation
Indices: 54430--54485 Score: 67
Period size: 14 Copynumber: 3.7 Consensus size: 14
54420 TTTGGTTTCG
54430 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
54444 CGTTGCGATTTCATTTCG
1 CGTTGCGA-TTC---TCT
54462 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
54476 CGTTGCGATT
1 CGTTGCGATT
54486 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
14 20 0.56
15 3 0.08
17 3 0.08
18 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:54464 original size:32 final size:33
Alignment explanation
Indices: 54414--54493 Score: 135
Period size: 32 Copynumber: 2.5 Consensus size: 33
54404 AAAATCGCAA
**
54414 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
54447 TGCGA-TTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
54479 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
54494 TCTCGTTGCG
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
32 30 0.68
33 14 0.32
ACGTcount: A:0.09, C:0.23, G:0.23, T:0.46
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:54467 original size:18 final size:17
Alignment explanation
Indices: 54425--54471 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 17
54415 GCGATTTTGG
54425 TTTCGCGTTGCGA-TTC
1 TTTCGCGTTGCGATTTC
*
54441 --TCTCGTTGCGATTTC
1 TTTCGCGTTGCGATTTC
54456 ATTTCGCGTTGCGATT
1 -TTTCGCGTTGCGATT
54472 CTCTCGTTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
14 10 0.40
15 3 0.12
18 12 0.48
ACGTcount: A:0.09, C:0.23, G:0.23, T:0.45
Consensus pattern (17 bp):
TTTCGCGTTGCGATTTC
Found at i:54514 original size:41 final size:41
Alignment explanation
Indices: 54469--54546 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
54459 TCGCGTTGCG
*
54469 ATTCTCTCGTTGCGATTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
54510 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
54547 TCTTCTGCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.13, C:0.26, G:0.17, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:54531 original size:20 final size:21
Alignment explanation
Indices: 54470--54545 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
54460 CGCGTTGCGA
54470 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
54491 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
54511 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
54532 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
54546 CTCTTCTGCA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.12, C:0.25, G:0.17, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:54669 original size:33 final size:33
Alignment explanation
Indices: 54627--54695 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
54617 TACTAACTTA
*
54627 AAAATCGCAACGAGAGAATAGCAACGCGAAATG
1 AAAATCGCAACGACAGAATAGCAACGCGAAATG
* *
54660 AAAATCGCAACGACAGAATCGTAACGCGAAATG
1 AAAATCGCAACGACAGAATAGCAACGCGAAATG
54693 AAA
1 AAA
54696 TCTAAGTGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.49, C:0.19, G:0.22, T:0.10
Consensus pattern (33 bp):
AAAATCGCAACGACAGAATAGCAACGCGAAATG
Found at i:54929 original size:22 final size:22
Alignment explanation
Indices: 54877--54931 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
54867 TGGTTGTGAG
**
54877 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
54899 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
54921 GGATTTCTTCG
1 GGATTTCTTCG
54932 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:55103 original size:20 final size:20
Alignment explanation
Indices: 55078--55192 Score: 151
Period size: 20 Copynumber: 5.7 Consensus size: 20
55068 CTTTAAATAT
55078 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
55098 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
55120 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
55139 CGCGTTGCGATTAACGGATA
1 CGCGTTGCGATTTACGGATA
**
55159 CATGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
55179 CGCGTTGCGATTTA
1 CGCGTTGCGATTTA
55193 TGTGTTCACG
Statistics
Matches: 80, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.03
20 62 0.77
21 14 0.17
22 2 0.03
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:55224 original size:20 final size:19
Alignment explanation
Indices: 55179--55232 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
55169 TTTACGGATA
* *
55179 CGCGTTGCGATTTATGTGTT
1 CGCGTTGCGATTT-TATATT
*
55199 CACGTTGCGATTTTCATATT
1 CGCGTTGCGATTTT-ATATT
55219 CGCGTTGCGATTTT
1 CGCGTTGCGATTTT
55233 TGAAAATCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 1 0.03
20 28 0.97
ACGTcount: A:0.13, C:0.19, G:0.24, T:0.44
Consensus pattern (19 bp):
CGCGTTGCGATTTTATATT
Found at i:55231 original size:40 final size:40
Alignment explanation
Indices: 55080--55231 Score: 182
Period size: 40 Copynumber: 3.8 Consensus size: 40
55070 TTAAATATCG
*
55080 CGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATT-A
1 CGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTGTTCA
* * *
55120 TCGTTGCGATTTACGGATACGCGTTGCGATTAACG-GATACA
1 -CGTTGCGATTTACGGATACGCGTTGCGATTTATGTG-TTCA
*
55161 TGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCA
1 CGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCA
* ** *
55201 CGTTGCGATTTTCATATTCGCGTTGCGATTT
1 CGTTGCGATTTACGGATACGCGTTGCGATTT
55232 TTGAAAATCG
Statistics
Matches: 95, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
40 65 0.68
41 30 0.32
ACGTcount: A:0.19, C:0.17, G:0.26, T:0.38
Consensus pattern (40 bp):
CGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCA
Found at i:55242 original size:21 final size:20
Alignment explanation
Indices: 55201--55355 Score: 80
Period size: 21 Copynumber: 7.7 Consensus size: 20
55191 TATGTGTTCA
* * *
55201 CGTTGCGATTTTCATATTCG
1 CGTTGCGATTTTGAAAATCG
55221 CGTTGCGATTTTTGAAAATCG
1 CGTTGCGA-TTTTGAAAATCG
** * **
55242 CAATGCGAATTTGTACTATCG
1 CGTTGCGATTTTG-AAAATCG
* *
55263 CATTGCGATTTTCAAGAATCG
1 CGTTGCGATTTTGAA-AATCG
*
55284 CGTTGCGATTTTGGAAA-CTG
1 CGTTGCGATTTTGAAAATC-G
** * ***
55304 ATTTGCGATTCTGGGGATCG
1 CGTTGCGATTTTGAAAATCG
* **
55324 CGTTGCGATTTT-TATTTCG
1 CGTTGCGATTTTGAAAATCG
55343 CGTTGCGATTTTG
1 CGTTGCGATTTTG
55356 TTGGTCATTT
Statistics
Matches: 101, Mismatches: 28, Indels: 12
0.72 0.20 0.09
Matches are distributed among these distances:
19 16 0.16
20 38 0.38
21 47 0.47
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.39
Consensus pattern (20 bp):
CGTTGCGATTTTGAAAATCG
Found at i:65718 original size:31 final size:31
Alignment explanation
Indices: 65680--65770 Score: 164
Period size: 31 Copynumber: 2.9 Consensus size: 31
65670 TAACCTGTGC
65680 AGAATGTGGATTTAGGTACTTGTTCTACTGT
1 AGAATGTGGATTTAGGTACTTGTTCTACTGT
65711 AGAATGTGGATTTAGGTACTTGTTCTACTGT
1 AGAATGTGGATTTAGGTACTTGTTCTACTGT
* *
65742 AGAATTTGGATTTAGGAACTTGTTCTACT
1 AGAATGTGGATTTAGGTACTTGTTCTACT
65771 TGGGGATGGC
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 58 1.00
ACGTcount: A:0.24, C:0.10, G:0.24, T:0.42
Consensus pattern (31 bp):
AGAATGTGGATTTAGGTACTTGTTCTACTGT
Found at i:66544 original size:21 final size:22
Alignment explanation
Indices: 66520--66561 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
66510 AGAAAGAAAA
* *
66520 AAATATAATA-AAAATTAAATT
1 AAATAAAATATAAAATAAAATT
66541 AAATAAAATATAAAATAAAAT
1 AAATAAAATATAAAATAAAAT
66562 AAGAGAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (22 bp):
AAATAAAATATAAAATAAAATT
Found at i:66826 original size:33 final size:32
Alignment explanation
Indices: 66773--66848 Score: 98
Period size: 33 Copynumber: 2.3 Consensus size: 32
66763 AATATTTAAT
* * *
66773 TTAACTGAGTTATCAAGTTAATTTATTTTGAA
1 TTAATTGAGTTATCAAGTTAAATAATTTTGAA
*
66805 TTAATTGAGTTAATTAAGTTAAATAATTTTGAA
1 TTAATTGAGTT-ATCAAGTTAAATAATTTTGAA
*
66838 TTAGTTGAGTT
1 TTAATTGAGTT
66849 GATGAGTCAT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
32 10 0.26
33 28 0.74
ACGTcount: A:0.36, C:0.03, G:0.14, T:0.47
Consensus pattern (32 bp):
TTAATTGAGTTATCAAGTTAAATAATTTTGAA
Found at i:74307 original size:51 final size:51
Alignment explanation
Indices: 74231--74335 Score: 201
Period size: 51 Copynumber: 2.1 Consensus size: 51
74221 GAAACGTAGG
74231 TATCAAAGAAAGTGTGCTTTCGCTATGAAGGTCATTTCCTATGGCATTGAT
1 TATCAAAGAAAGTGTGCTTTCGCTATGAAGGTCATTTCCTATGGCATTGAT
*
74282 TATCAAAGAAAGTGTGCTTTCGCTATTAAGGTCATTTCCTATGGCATTGAT
1 TATCAAAGAAAGTGTGCTTTCGCTATGAAGGTCATTTCCTATGGCATTGAT
74333 TAT
1 TAT
74336 ATTATCGACC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (51 bp):
TATCAAAGAAAGTGTGCTTTCGCTATGAAGGTCATTTCCTATGGCATTGAT
Found at i:78534 original size:20 final size:22
Alignment explanation
Indices: 78509--78548 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
78499 AGTCGTATCT
78509 AGCCG-TTGGGGATG-TTTTGG
1 AGCCGTTTGGGGATGATTTTGG
78529 AGCCGTTTGGGGATGATTTT
1 AGCCGTTTGGGGATGATTTT
78549 TCTGCAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.12, C:0.10, G:0.40, T:0.38
Consensus pattern (22 bp):
AGCCGTTTGGGGATGATTTTGG
Found at i:78678 original size:20 final size:20
Alignment explanation
Indices: 78653--78743 Score: 84
Period size: 20 Copynumber: 4.8 Consensus size: 20
78643 TACAGCCAGG
78653 GTGTATGGATACACTGCAGA
1 GTGTATGGATACACTGCAGA
78673 GTGTATCGG-TACAC--C--A
1 GTGTAT-GGATACACTGCAGA
* *
78689 GTGTATGGATATACTGCAGG
1 GTGTATGGATACACTGCAGA
** *
78709 GTGTATCCATACACTGCAGG
1 GTGTATGGATACACTGCAGA
*
78729 GTGTATCGATACACT
1 GTGTATGGATACACT
78744 AATTACATTC
Statistics
Matches: 59, Mismatches: 6, Indels: 12
0.77 0.08 0.16
Matches are distributed among these distances:
15 2 0.03
16 11 0.19
18 2 0.03
20 42 0.71
21 2 0.03
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.27
Consensus pattern (20 bp):
GTGTATGGATACACTGCAGA
Found at i:78722 original size:36 final size:36
Alignment explanation
Indices: 78653--78722 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
78643 TACAGCCAGG
**
78653 GTGTATGGATACACTGCAGAGTGTATCGGTACACCA
1 GTGTATGGATACACTGCAGAGTGTATCCATACACCA
* *
78689 GTGTATGGATATACTGCAGGGTGTATCCATACAC
1 GTGTATGGATACACTGCAGAGTGTATCCATACAC
78723 TGCAGGGTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (36 bp):
GTGTATGGATACACTGCAGAGTGTATCCATACACCA
Found at i:78805 original size:20 final size:19
Alignment explanation
Indices: 78770--78823 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 19
78760 TGAGCAGTCA
78770 TAGGGGTATGGATACACTT
1 TAGGGGTATGGATACACTT
78789 TAGGGTGTATCGG-TACAC--
1 TAGGG-GTAT-GGATACACTT
*
78807 TA-GTGTATGGATACACT
1 TAGGGGTATGGATACACT
78824 GCAGAGTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 10
0.73 0.02 0.24
Matches are distributed among these distances:
15 2 0.07
16 9 0.30
17 1 0.03
18 2 0.07
19 5 0.17
20 9 0.30
21 2 0.07
ACGTcount: A:0.26, C:0.13, G:0.30, T:0.31
Consensus pattern (19 bp):
TAGGGGTATGGATACACTT
Found at i:82037 original size:21 final size:20
Alignment explanation
Indices: 82011--82064 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 20
82001 CCATAACATG
*
82011 GGGTATCGATACCTCATCATA
1 GGGTATCG-TACCCCATCATA
*
82032 GGGTATATGTACCCCATCATA
1 GGGTAT-CGTACCCCATCATA
82053 GGGTATCAGTAC
1 GGGTATC-GTAC
82065 ACCTTCATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
21 27 0.96
22 1 0.04
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (20 bp):
GGGTATCGTACCCCATCATA
Found at i:82072 original size:21 final size:21
Alignment explanation
Indices: 82025--82072 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
82015 ATCGATACCT
*
82025 CATCATAGGGTATATGTACCC
1 CATCATAGGGTATATGTACAC
82046 CATCATAGGGTATCA-GTACAC
1 CATCATAGGGTAT-ATGTACAC
*
82067 CTTCAT
1 CATCAT
82073 TAAATTCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 23 0.96
22 1 0.04
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (21 bp):
CATCATAGGGTATATGTACAC
Found at i:82154 original size:16 final size:18
Alignment explanation
Indices: 82106--82154 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 18
82096 TGCAGCCAGG
82106 GTGTATGGATACACTGCAGA
1 GTGTATGGATACAC-GCA-A
82126 GTGTATCGG-TACAC-C-A
1 GTGTAT-GGATACACGCAA
82142 GTGTATGGATACA
1 GTGTATGGATACA
82155 TTAGGGTGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
15 2 0.07
16 11 0.41
18 1 0.04
20 11 0.41
21 2 0.07
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.27
Consensus pattern (18 bp):
GTGTATGGATACACGCAA
Found at i:83906 original size:20 final size:20
Alignment explanation
Indices: 83881--83918 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
83871 TATTATTATA
*
83881 ATAAAATTTATTAATAGAGT
1 ATAAAATTTAATAATAGAGT
83901 ATAAAATTTAATAATAGA
1 ATAAAATTTAATAATAGA
83919 ATAAAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.37
Consensus pattern (20 bp):
ATAAAATTTAATAATAGAGT
Done.