Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007823.1 Hibiscus syriacus cultivar Beakdansim tig00110160_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: 6287495
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 26 of 33
Found at i:4725777 original size:81 final size:80
Alignment explanation
Indices: 4725055--4725943 Score: 1043
Period size: 81 Copynumber: 10.8 Consensus size: 80
4725045 AAATTAATCC
* * * * * *** * *
4725055 TTCATCCAACTTGCATTATTGGCATCTTTCTGCCAAATGCACCTTTA-GACATTTAGTCTTTTAC
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCA-TTAATCTTTTAC
* *
4725119 CCAAAGGTATTTAATCT
65 TCAAA-GTATTTAACCT
* * ** *
4725136 TTCATCTAACTGGCATGATTGACACCTTTCTGCCAAATGCACAATTAGGCTTTTAGTCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTAATCTTTTACT
4725201 CAAAGGTATTTAACCT
66 CAAA-GTATTTAACCT
* * *
4725217 TTCATCTAACTGTCATAATTGACACCTTTATGCCAAATGCACAGCTAGGCCATTAATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTAATCTTTTACT
4725282 CAAAGGTATTTAACCT
66 CAAA-GTATTTAACCT
* *
4725298 TTCATCTAACTGGCATAATTGACACCTTTATGCCAAATGCACATCTAGGCCATTAATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTAATCTTTTACT
4725363 CAAAGGTATTTAACCT
66 CAAA-GTATTTAACCT
* * *
4725379 TTAATCTAACTGGCATAATTGACATCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTAATCTTTTACT
4725444 CAAAGGTATTTAACCT
66 CAAA-GTATTTAACCT
* * * *
4725460 TTCATCTAACTGGAATAATTGACACCTTTATGCCAAATGCA-AAGATAGGCCATTAATCGTTTAC
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAA-CTAGGCCATTAATCTTTTAC
4725524 TCAAAGGTATTTAACCT
65 TCAAA-GTATTTAACCT
* * * * *
4725541 TTCATATAACTGGCATAATTGACACATTTCTACTAAATGCACAGCTAGGCCATTAATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTAATCTTTTACT
4725606 CAAAGGT-TTTAACCT
66 CAAA-GTATTTAACCT
**
4725621 TTCATCTAACTGGCATAATTGACATATTTCTGCCAAATGCACAACTAGGCCATTAATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTAATCTTTTACT
4725686 CAAAGGTATTTAACCT
66 CAAA-GTATTTAACCT
* * * ***
4725702 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCAATGCACAAC-TAGG
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCAT-TA-ATCTTTTA
*
4725766 C-CATTAA-TATTTTACTCAAAGGTAT
64 CTCA--AAGTATTTAAC-C-------T
*
4725791 TTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGACCATTAATC
1 TT-------CATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTAATC
4725856 TTTTACTCAAAGGTATTTAACCT
59 TTTTACTCAAA-GTATTTAACCT
* * *
4725879 TTCATCTAACTAGCATAATTGACACCTTTCTACCAAATGCACAGCTAGGCCATTAATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTAATCTTTTACT
4725944 TTAGAACAAT
Statistics
Matches: 713, Mismatches: 68, Indels: 54
0.85 0.08 0.06
Matches are distributed among these distances:
80 76 0.11
81 555 0.78
82 6 0.01
83 4 0.01
88 3 0.00
89 3 0.00
94 4 0.01
95 4 0.01
96 58 0.08
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.34
Consensus pattern (80 bp):
TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTAATCTTTTACT
CAAAGTATTTAACCT
Found at i:4725820 original size:96 final size:96
Alignment explanation
Indices: 4725656--4725845 Score: 371
Period size: 96 Copynumber: 2.0 Consensus size: 96
4725646 ATTTCTGCCA
*
4725656 AATGCACAACTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAAT
1 AATGCACAACTAGGCCATTAATATTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAAT
4725721 TGACACCTTTCTGCCAAATGCACAACTAGGC
66 TGACACCTTTCTGCCAAATGCACAACTAGGC
4725752 AATGCACAACTAGGCCATTAATATTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAAT
1 AATGCACAACTAGGCCATTAATATTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAAT
4725817 TGACACCTTTCTGCCAAATGCACAACTAG
66 TGACACCTTTCTGCCAAATGCACAACTAG
4725846 ACCATTAATC
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 93 1.00
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.31
Consensus pattern (96 bp):
AATGCACAACTAGGCCATTAATATTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAAT
TGACACCTTTCTGCCAAATGCACAACTAGGC
Found at i:4725871 original size:177 final size:176
Alignment explanation
Indices: 4725576--4725928 Score: 625
Period size: 177 Copynumber: 2.0 Consensus size: 176
4725566 ATTTCTACTA
* *
4725576 AATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTTTTAACCTTTCATCTAACTGGCATAATT
1 AATGCACAACTAGGCCATTAATATTTTACTCAAAGGTTTTAACCTTTCATCTAACTGGCATAATT
* *
4725641 GACATATTTCTGCCAAATGCACAACTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCA
66 GACACATTTCTGCCAAATGCACAACTAGACCATTAATCTTTTACTCAAAGGTATTTAACCTTTCA
* *
4725706 TCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGC
131 TCTAACTAGCATAATTGACACCTTTCTACCAAATGCACAACTAGGC
4725752 AATGCACAACTAGGCCATTAATATTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAAT
1 AATGCACAACTAGGCCATTAATATTTTACTCAAAGGT-TTTAACCTTTCATCTAACTGGCATAAT
*
4725817 TGACACCTTTCTGCCAAATGCACAACTAGACCATTAATCTTTTACTCAAAGGTATTTAACCTTTC
65 TGACACATTTCTGCCAAATGCACAACTAGACCATTAATCTTTTACTCAAAGGTATTTAACCTTTC
*
4725882 ATCTAACTAGCATAATTGACACCTTTCTACCAAATGCACAGCTAGGC
130 ATCTAACTAGCATAATTGACACCTTTCTACCAAATGCACAACTAGGC
4725929 CATTAATCTT
Statistics
Matches: 168, Mismatches: 8, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
176 35 0.21
177 133 0.79
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.32
Consensus pattern (176 bp):
AATGCACAACTAGGCCATTAATATTTTACTCAAAGGTTTTAACCTTTCATCTAACTGGCATAATT
GACACATTTCTGCCAAATGCACAACTAGACCATTAATCTTTTACTCAAAGGTATTTAACCTTTCA
TCTAACTAGCATAATTGACACCTTTCTACCAAATGCACAACTAGGC
Found at i:4726194 original size:57 final size:57
Alignment explanation
Indices: 4726104--4726352 Score: 383
Period size: 57 Copynumber: 4.4 Consensus size: 57
4726094 AAATTCATAT
* * * *
4726104 AATTTCTT-AGTTTTTGCACATAAAGTTCTCATACGGAAATTCATAAACTAATTATG
1 AATTTCTTAACTTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTAATTATG
*
4726160 AATTTCTTAACTTTTTGCACACAAAGTGCCCATACAGAAATTCATAAACTAATTATG
1 AATTTCTTAACTTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTAATTATG
* **
4726217 AATTTCTTAGCTTTTTGCACACAAAGTGAACATACGGAAATTCATAAACTAATTATG
1 AATTTCTTAACTTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTAATTATG
* *
4726274 AATTTCTTAGCTTTTTGCACACAAAATGCCCATACGGAAATTCATAAACTAATTATG
1 AATTTCTTAACTTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTAATTATG
* *
4726331 AATTTGTTAACTTTATGCACAC
1 AATTTCTTAACTTTTTGCACAC
4726353 TCAGTGTCAT
Statistics
Matches: 177, Mismatches: 15, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
56 8 0.05
57 169 0.95
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.35
Consensus pattern (57 bp):
AATTTCTTAACTTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTAATTATG
Found at i:4728749 original size:20 final size:20
Alignment explanation
Indices: 4728713--4728750 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4728703 GTCACATTTA
*
4728713 TTCTAAAAAGGTATTGGGAG
1 TTCTAAAAAGATATTGGGAG
4728733 TTCTAAAATAGAT-TTGGG
1 TTCTAAAA-AGATATTGGG
4728751 GAAAATCAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.34, C:0.05, G:0.26, T:0.34
Consensus pattern (20 bp):
TTCTAAAAAGATATTGGGAG
Found at i:4733240 original size:15 final size:17
Alignment explanation
Indices: 4733205--4733241 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
4733195 AAACATAAGA
4733205 TTTTGGAATACATATTC
1 TTTTGGAATACATATTC
*
4733222 TTTTGGATTACA-A-TC
1 TTTTGGAATACATATTC
4733237 TTTTG
1 TTTTG
4733242 CGATGCTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 7 0.37
16 1 0.05
17 11 0.58
ACGTcount: A:0.24, C:0.11, G:0.14, T:0.51
Consensus pattern (17 bp):
TTTTGGAATACATATTC
Found at i:4735982 original size:16 final size:17
Alignment explanation
Indices: 4735958--4735991 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
4735948 GTTTTATTTT
*
4735958 TTACTTTCTTTG-ATAA
1 TTACATTCTTTGAATAA
4735974 TTACATTCTTTGAATAA
1 TTACATTCTTTGAATAA
4735991 T
1 T
4735992 ACCTTGGAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.53
Consensus pattern (17 bp):
TTACATTCTTTGAATAA
Found at i:4740067 original size:24 final size:23
Alignment explanation
Indices: 4740014--4740067 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
4740004 TCGGACGACT
*
4740014 AAATTAAATTAAATAAAAATTGA
1 AAATTAAATTAAAAAAAAATTGA
4740037 AAGATTAAATTATAAAATAAAATT-A
1 AA-ATTAAATTA-AAAA-AAAATTGA
4740062 AAATTA
1 AAATTA
4740068 TGCATACATT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 2 0.07
24 13 0.48
25 6 0.22
26 6 0.22
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (23 bp):
AAATTAAATTAAAAAAAAATTGA
Found at i:4742267 original size:13 final size:13
Alignment explanation
Indices: 4742251--4742371 Score: 80
Period size: 13 Copynumber: 9.7 Consensus size: 13
4742241 TTATGCATAG
4742251 AATATAAGTATAT
1 AATATAAGTATAT
* *
4742264 AATATAGGTATAC
1 AATATAAGTATAT
* *
4742277 ATTAT-ACT-TAT
1 AATATAAGTATAT
*
4742288 AATATATGTATAT
1 AATATAAGTATAT
4742301 AATAT-A-TATA-
1 AATATAAGTATAT
*
4742311 AGTATATA-TATAAT
1 AATATA-AGTAT-AT
*
4742325 ATATATAATTATAT
1 A-ATATAAGTATAT
4742339 -ATAGTAA-TATAT
1 AATA-TAAGTATAT
4742351 AATATAAGTATAT
1 AATATAAGTATAT
4742364 -ATATAAGT
1 AATATAAGT
4742372 GTCTGTATAT
Statistics
Matches: 85, Mismatches: 12, Indels: 23
0.71 0.10 0.19
Matches are distributed among these distances:
10 4 0.05
11 10 0.12
12 25 0.29
13 35 0.41
14 4 0.05
15 7 0.08
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.42
Consensus pattern (13 bp):
AATATAAGTATAT
Found at i:4742301 original size:2 final size:2
Alignment explanation
Indices: 4742285--4742435 Score: 90
Period size: 2 Copynumber: 77.0 Consensus size: 2
4742275 ACATTATACT
*
4742285 TA TA -A TA TA TG TA TA TA -A TA TA TA TA -A GTA TA TA TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
4742324 TA TA TA TA -A T- TA TA TA TA GTA -A TA TA TA -A TA TA -A GTA TA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA
* * * * *
4742363 TA TA TA -A GTG TC TG TA TA TA TA TA TA TA TA AA GTA TA -A AA TA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
*
4742405 TA TA AA CTA TA TA GTA TA TA TA TA GTA TA TA
1 TA TA TA -TA TA TA -TA TA TA TA TA -TA TA TA
4742436 AATTATCAAT
Statistics
Matches: 119, Mismatches: 11, Indels: 38
0.71 0.07 0.23
Matches are distributed among these distances:
1 11 0.09
2 98 0.82
3 10 0.08
ACGTcount: A:0.50, C:0.01, G:0.07, T:0.42
Consensus pattern (2 bp):
TA
Found at i:4742310 original size:9 final size:9
Alignment explanation
Indices: 4742296--4742436 Score: 83
Period size: 9 Copynumber: 14.8 Consensus size: 9
4742286 ATAATATATG
4742296 TATATAATA
1 TATATAATA
4742305 TATATAAGTATA
1 TATAT-A--ATA
4742317 TATATAATA
1 TATATAATA
4742326 TATATAATTA
1 TATATAA-TA
*
4742336 TATATAGTAA
1 TATATAAT-A
4742346 TATATAATA
1 TATATAATA
4742355 TA-AGT-ATA
1 TATA-TAATA
*
4742363 TATATAAGTG
1 TATATAA-TA
* *
4742373 TCTGTATATA
1 TATATA-ATA
4742383 TATATATATA
1 TATATA-ATA
* *
4742393 AAGTATAAAA
1 TA-TATAATA
4742403 TATATAA-A
1 TATATAATA
*
4742411 CTATATAGTA
1 -TATATAATA
4742421 TATAT-ATA
1 TATATAATA
4742429 GTATATAA
1 -TATATAA
4742437 ATTATCAATC
Statistics
Matches: 104, Mismatches: 13, Indels: 29
0.71 0.09 0.20
Matches are distributed among these distances:
8 10 0.10
9 43 0.41
10 37 0.36
11 6 0.06
12 8 0.08
ACGTcount: A:0.50, C:0.01, G:0.06, T:0.42
Consensus pattern (9 bp):
TATATAATA
Found at i:4742321 original size:29 final size:29
Alignment explanation
Indices: 4742252--4742435 Score: 111
Period size: 29 Copynumber: 6.4 Consensus size: 29
4742242 TATGCATAGA
** *
4742252 ATATAAGTATATA-ATATAGGTAT-ACAT
1 ATATAAGTATATATATATATATATAATAT
** *
4742279 -TATACTTATA-ATATATGTATATAATAT
1 ATATAAGTATATATATATATATATAATAT
4742306 ATATAAGTATATATATAATATATATAAT-T
1 ATATAAGTATATATAT-ATATATATAATAT
4742335 ATATATAGTA-ATATATA-ATATA-AGTATAT
1 ATATA-AGTATATATATATATATATA--ATAT
* * * *
4742364 ATATAAGTGTCTGTATATATATATATATAA
1 ATATAAGTATATATATATATATATA-ATAT
* *
4742394 AGTATAA--A-ATATATAAACTATATAGTAT
1 A-TATAAGTATATATATATA-TATATAATAT
4742422 ATATATAGTATATA
1 ATATA-AGTATATA
4742436 AATTATCAAT
Statistics
Matches: 120, Mismatches: 19, Indels: 32
0.70 0.11 0.19
Matches are distributed among these distances:
25 1 0.01
26 16 0.13
27 12 0.10
28 24 0.20
29 33 0.28
30 25 0.21
31 9 0.08
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.42
Consensus pattern (29 bp):
ATATAAGTATATATATATATATATAATAT
Found at i:4742570 original size:2 final size:2
Alignment explanation
Indices: 4742563--4742713 Score: 94
Period size: 2 Copynumber: 72.0 Consensus size: 2
4742553 GATTGAGCGT
* *
4742563 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA CTA TA TA GCA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA
* * * *
4742607 -A GTA TA TA -A GTA TA CA TG TA -A GTA TA TA AA CTA TA TGG TA TA
1 TA -TA TA TA TA -TA TA TA TA TA TA -TA TA TA TA -TA TA T-A TA TA
* * *
4742649 -A GTA TA TA TA TG TGA TG TA TG TA CTCA TA TA TA TA TA TA TA TA
1 TA -TA TA TA TA TA T-A TA TA TA TA -T-A TA TA TA TA TA TA TA TA
4742692 TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
4742714 GTCCATAATT
Statistics
Matches: 116, Mismatches: 18, Indels: 30
0.71 0.11 0.18
Matches are distributed among these distances:
1 4 0.03
2 100 0.86
3 11 0.09
4 1 0.01
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.42
Consensus pattern (2 bp):
TA
Found at i:4742775 original size:2 final size:2
Alignment explanation
Indices: 4742762--4742992 Score: 104
Period size: 2 Copynumber: 113.5 Consensus size: 2
4742752 TAAAGTTAAC
*
4742762 AT AT AC 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
* * * * * *
4742804 AC ACT AT AT GGT AT A- AGT AT AT AC GT A- AGT AT AT AT GT AT GT
1 AT A-T AT AT -AT AT AT A-T AT AT AT AT AT A-T AT AT AT AT AT AT
* * * *
4742846 AC AT A- ACT GT AT AT AT AT AT AT AT AT A- AA AGT AT AT AT AT CT
1 AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT
* * *
4742888 A- AGT AT AA AGT AT AT A- AT AT AT A- AGT AT A- AA AT AT AT AC
1 AT A-T AT AT A-T AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT
* * * *
4742927 AT A- AGT AT GT AT AT AT AT A- AGT AT AT AT GT GAT GT AT GT ACT
1 AT AT A-T AT AT AT AT AT AT AT A-T AT AT AT AT -AT AT AT AT A-T
4742969 CAT AT AT AT AT AT AT AT AT AT AT A
1 -AT AT AT AT AT AT AT AT AT AT AT A
4742993 AAAGTCTATA
Statistics
Matches: 171, Mismatches: 34, Indels: 48
0.68 0.13 0.19
Matches are distributed among these distances:
1 10 0.06
2 147 0.86
3 13 0.08
4 1 0.01
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.41
Consensus pattern (2 bp):
AT
Found at i:4744749 original size:265 final size:261
Alignment explanation
Indices: 4744015--4744757 Score: 886
Period size: 265 Copynumber: 2.8 Consensus size: 261
4744005 AGGTTGGACT
* * * *
4744015 TAAAATGTTATTAGAATTTAAGCTGATTG-A-CCTTTAGATTTTCTTA-GTATAAGAATATAAGT
1 TAAAATGTTATAAGAGTTTAAGCTGA-TGAAGCC-TTAAATTTTCTCACG-ATAAGAA-ATAAGT
* * *
4744077 TAAAAACTGAAAATGTTATGAATATATATAAAAAAAACGTTTGCGACCAATAATATCATGGTTAA
62 TAAAAACTGAAAATGTTATGAATATATATAAAAAATACGATTGCG-CCAATAATATCATGGTTCA
* * * *
4744142 CTAAGAAATAGGGTTGCGATCTGTAATGCTAATATTTTTATTAATAAACTA-TGTTGTGTCCAAG
126 TTAAGAAATA-TGTTGCGATCTGTAATGTTAATATTTTTATTAATAAAATAGT-TTGTGTCCAAG
*
4744206 AATATTATGGTTCACTAAGAAAGCACGTTGCAATCTAAAATCTTAATATTTTTAATAATAAAATG
189 AATA-TATGGTTCACTAAAAAAGCACGTTGCAATCTAAAATCTTAATATTTTTAATAATAAAATG
4744271 AGTTGCGCC
253 AGTTGCGCC
* *** *
4744280 TAAAATGTTATAAGAGTTTAAGCTGATGGAGCCTTGTGTTTTTTCACGATAAGAAAATAAGTTAA
1 TAAAATGTTATAAGAGTTTAAGCTGATGAAGCCTTAAATTTTCTCACGATAAG-AAATAAGTTAA
* * * * * *
4744345 AAACAGACAATGTTATGAATATATATAACAAATACGATTTCACCCAATAATATCATGATTCATTA
65 AAACTGAAAATGTTATGAATATATATAAAAAATACGATTGC-GCCAATAATATCATGGTTCATTA
* * * * * * *
4744410 AGAAATATGTTGTGATCTATACTGTTAATATTTTTATTAATAAAATTGGTTGCGCCCAAGAATAT
129 AGAAATATGTTGCGATCTGTAATGTTAATATTTTTATTAATAAAATAGTTTGTGTCCAAGAATAT
* * ** * *
4744475 CATGGTTCACTAAAAAAGCAGGTTGTAA-CATGGAATCTTCATATTTTTAATGATAAAATGAGTT
194 -ATGGTTCACTAAAAAAGCACGTTGCAATC-TAAAATCTTAATATTTTTAATAATAAAATGAGTT
4744539 GCGCC
257 GCGCC
* *
4744544 TAAAATGTTATATGAGTTTAAGTTGATGAAGCCTTAAATTTTCTCACGATAAGACAATAAGTTAA
1 TAAAATGTTATAAGAGTTTAAGCTGATGAAGCCTTAAATTTTCTCACGATAAGA-AATAAGTTAA
* * * *
4744609 AAGCTGAAAAATGTTATGAATATATACAAGAAATAC-AGTTGCGCTCAATAATGTCATGGTTCAT
65 AAACTG-AAAATGTTATGAATATATATAAAAAATACGA-TTGCGC-CAATAATATCATGGTTCAT
*
4744673 TAAGAAATATGTTGCGATCTGTAATGTTAATATTTTTATTAATAAAATAGTTTGTTTCCAAGAAT
127 TAAGAAATATGTTGCGATCTGTAATGTTAATATTTTTATTAATAAAATAGTTTGTGTCCAAGAAT
*
4744738 CCTATGGTTCACTAAGAAAA
192 -ATATGGTTCACTAA-AAAA
4744758 TAAATTGTGA
Statistics
Matches: 405, Mismatches: 59, Indels: 27
0.82 0.12 0.05
Matches are distributed among these distances:
263 3 0.01
264 169 0.42
265 223 0.55
266 10 0.02
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (261 bp):
TAAAATGTTATAAGAGTTTAAGCTGATGAAGCCTTAAATTTTCTCACGATAAGAAATAAGTTAAA
AACTGAAAATGTTATGAATATATATAAAAAATACGATTGCGCCAATAATATCATGGTTCATTAAG
AAATATGTTGCGATCTGTAATGTTAATATTTTTATTAATAAAATAGTTTGTGTCCAAGAATATAT
GGTTCACTAAAAAAGCACGTTGCAATCTAAAATCTTAATATTTTTAATAATAAAATGAGTTGCGC
C
Found at i:4745531 original size:99 final size:101
Alignment explanation
Indices: 4745278--4745541 Score: 275
Period size: 102 Copynumber: 2.6 Consensus size: 101
4745268 CTACCTACTG
* * * * * *
4745278 TGTTATACTTATAAACATGTTTTCTCTTACTTTTTCATAATATAAACGGTTACAAACATATAATG
1 TGTTAAACTTATAAACATCTTTTGTTTTACTTTTTCATAATATAAACGGTTTCAAACATATAATC
** * * *
4745343 TAAACGTTTGACAATTTTAAAAAGGCACAACCTAGAA
66 TAAACAATTGACAAGTTAAAAAAGG-ACAACCTACAA
* ** * *
4745380 TGTTAAACTTATAAACATGTTTTGTTTTACTTTTTTGTAATATAAACAGTTTCAGACATATAATC
1 TGTTAAACTTATAAACATCTTTTGTTTTACTTTTTCATAATATAAACGGTTTCAAACATATAATC
*
4745445 TAAACAATTGAC-AGTTAAAAAAGTG-CTACCTACAA
66 TAAACAATTGACAAGTTAAAAAAG-GACAACCTACAA
* * * * *
4745480 TGTTATA-TGTGT-AACATCTTTTGTTTTAGTTTTTCATAACATAAACGGTTTCATACATATAA
1 TGTTAAACT-TATAAACATCTTTTGTTTTACTTTTTCATAATATAAACGGTTTCAAACATATAA
4745542 AAAATTTGAA
Statistics
Matches: 136, Mismatches: 24, Indels: 7
0.81 0.14 0.04
Matches are distributed among these distances:
99 44 0.32
100 16 0.12
101 9 0.07
102 67 0.49
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.39
Consensus pattern (101 bp):
TGTTAAACTTATAAACATCTTTTGTTTTACTTTTTCATAATATAAACGGTTTCAAACATATAATC
TAAACAATTGACAAGTTAAAAAAGGACAACCTACAA
Found at i:4746006 original size:77 final size:76
Alignment explanation
Indices: 4745911--4746279 Score: 370
Period size: 77 Copynumber: 4.8 Consensus size: 76
4745901 CTTTCGAATT
* * *
4745911 TTTTA-TAATAAAAATATTAACATTCC-GAATCACAACATATGTCTTAGATAACAATGACATTTT
1 TTTTATTAATAAAAATATTAACATTCCAG-ATCACAACCTATTTCTTAGA-AACCATGACATTTT
* *
4745974 TGGGCGCATCATA
64 TGGGCGCAACACA
* * * * * * * *
4745987 TTTCATTAATAAAATTATTAACATTCTAGTTGACAACCTATTTCTTAGCAAACCATAATATTCTT
1 TTTTATTAATAAAAATATTAACATTCCAGATCACAACCTATTTCTTAG-AAACCATGACATTTTT
* * *
4746052 GTGTGCAACCCA
65 GGGCGCAACACA
* *
4746064 TTTTATTAATAAAAATATTAATATTCCAGATTACAACCTATTTCTTAGCAAACCATGACATTTTT
1 TTTTATTAATAAAAATATTAACATTCCAGATCACAACCTATTTCTTAG-AAACCATGACATTTTT
** *
4746129 TAGCGCAACCCA
65 GGGCGCAACACA
* **
4746141 TTTTATTAATAAAAATATTAACATTTCAGATTGCAACCTATTTCTTA-ACGAACCATGACATTTT
1 TTTTATTAATAAAAATATTAACATTCCAGATCACAACCTATTTCTTAGA--AACCATGACATTTT
*
4746205 TGGGCTCAA-ACAA
64 TGGGCGCAACAC-A
* * *
4746218 TTTTATTAATAAAAATATTAATATTCCAAATCGCAACCTATTTCTTA-ATGAACCATGACATT
1 TTTTATTAATAAAAATATTAACATTCCAGATCACAACCTATTTCTTAGA--AACCATGACATT
4746280 CTTAGGCGTA
Statistics
Matches: 247, Mismatches: 40, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
75 1 0.00
76 5 0.02
77 239 0.97
78 2 0.01
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.37
Consensus pattern (76 bp):
TTTTATTAATAAAAATATTAACATTCCAGATCACAACCTATTTCTTAGAAACCATGACATTTTTG
GGCGCAACACA
Found at i:4746029 original size:40 final size:40
Alignment explanation
Indices: 4745985--4746107 Score: 103
Period size: 40 Copynumber: 3.1 Consensus size: 40
4745975 GGGCGCATCA
* *
4745985 TATTTCATTAATAAAATTATTAACATTCTAGTTGACAACC
1 TATTTCATTAATAAAAATATTAATATTCTAGTTGACAACC
** ** *
4746025 TATTTC-TT-AGCAAACCA-TAATATTCTTGTGTG-CAACC
1 TATTTCATTAATAAAAATATTAATATTCTAGT-TGACAACC
* * *
4746062 CATTTTATTAATAAAAATATTAATATTCCAGATT-ACAACC
1 TATTTCATTAATAAAAATATTAATATTCTAG-TTGACAACC
4746102 TATTTC
1 TATTTC
4746108 TTAGCAAACC
Statistics
Matches: 61, Mismatches: 16, Indels: 12
0.69 0.18 0.13
Matches are distributed among these distances:
37 19 0.31
38 9 0.15
39 7 0.11
40 25 0.41
41 1 0.02
ACGTcount: A:0.37, C:0.17, G:0.06, T:0.40
Consensus pattern (40 bp):
TATTTCATTAATAAAAATATTAATATTCTAGTTGACAACC
Found at i:4746177 original size:40 final size:40
Alignment explanation
Indices: 4746055--4746183 Score: 93
Period size: 40 Copynumber: 3.3 Consensus size: 40
4746045 TATTCTTGTG
* *
4746055 TGCAACCCATTTTATTAATAAAAATATTAATATTCCAGAT
1 TGCAACCCATTTTATTAATAAAAATATTAACATTTCAGAT
* * * ** ** * *** *
4746095 TACAACCTA-TTTCTT-AGCAAACCA-TGACATTTTTTAG
1 TGCAACCCATTTTATTAATAAAAATATTAACATTTCAGAT
*
4746132 CGCAACCCATTTTATTAATAAAAATATTAACATTTCAGAT
1 TGCAACCCATTTTATTAATAAAAATATTAACATTTCAGAT
*
4746172 TGCAACCTATTT
1 TGCAACCCATTT
4746184 CTTAACGAAC
Statistics
Matches: 57, Mismatches: 29, Indels: 6
0.62 0.32 0.07
Matches are distributed among these distances:
37 12 0.21
38 10 0.18
39 10 0.18
40 25 0.44
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (40 bp):
TGCAACCCATTTTATTAATAAAAATATTAACATTTCAGAT
Found at i:4746196 original size:154 final size:153
Alignment explanation
Indices: 4745911--4746279 Score: 426
Period size: 154 Copynumber: 2.4 Consensus size: 153
4745901 CTTTCGAATT
* * * *
4745911 TTTTA-TAATAAAAATATTAACATTCC-GAATCACAACATATGTCTTAGATAACAATGACATTTT
1 TTTTATTAATAAAAATATTAATATTCCAG-ATCACAACCTATTTCTTAGA-AACCATGACATTTT
* * * * *
4745974 TGGGCGCATCATATTTCATTAATAAAATTATTAACATTCTAGTTGACAACCTATTTCTTAGCAAA
64 TGAGCGCAACACATTTCATTAATAAAAATATTAACATTCTAGTTGACAACCTATTTCTTAACAAA
* * * *
4746039 CCATAATATTCTTGTG-TGCAACCCA
129 CCATAACATTCTTGGGCT-CAAACAA
*
4746064 TTTTATTAATAAAAATATTAATATTCCAGATTACAACCTATTTCTTAGCAAACCATGACATTTTT
1 TTTTATTAATAAAAATATTAATATTCCAGATCACAACCTATTTCTTAG-AAACCATGACATTTTT
* * * *
4746129 TAGCGCAACCCATTTTATTAATAAAAATATTAACATT-TCAGATTG-CAACCTATTTCTTAACGA
65 GAGCGCAACACATTTCATTAATAAAAATATTAACATTCT-AG-TTGACAACCTATTTCTTAACAA
* *
4746192 ACCATGACATTTTTGGGCTCAAACAA
128 ACCATAACATTCTTGGGCTCAAACAA
* *
4746218 TTTTATTAATAAAAATATTAATATTCCAAATCGCAACCTATTTCTTA-ATGAACCATGACATT
1 TTTTATTAATAAAAATATTAATATTCCAGATCACAACCTATTTCTTAGA--AACCATGACATT
4746280 CTTAGGCGTA
Statistics
Matches: 185, Mismatches: 23, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
152 1 0.01
153 6 0.03
154 172 0.93
155 6 0.03
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.37
Consensus pattern (153 bp):
TTTTATTAATAAAAATATTAATATTCCAGATCACAACCTATTTCTTAGAAACCATGACATTTTTG
AGCGCAACACATTTCATTAATAAAAATATTAACATTCTAGTTGACAACCTATTTCTTAACAAACC
ATAACATTCTTGGGCTCAAACAA
Found at i:4747795 original size:24 final size:24
Alignment explanation
Indices: 4747778--4747907 Score: 147
Period size: 24 Copynumber: 5.4 Consensus size: 24
4747768 ATCAAAACAT
4747778 AATTCAAGTCAAGTATCATATCA-
1 AATTCAAGTCAAGTATCATATCAG
* * *
4747801 AAATCTAGGTCAAGTATCAGATCAG
1 AATTC-AAGTCAAGTATCATATCAG
* *
4747826 AATCCAAGTTAAGTATCATATCAG
1 AATTCAAGTCAAGTATCATATCAG
* *
4747850 AATCCATGTC-AGATATCATATCAG
1 AATTCAAGTCAAG-TATCATATCAG
* *
4747874 AATTCATGTCAAGTATCAGATCAG
1 AATTCAAGTCAAGTATCATATCAG
4747898 AATTCAAGTC
1 AATTCAAGTC
4747908 GAAAATCATA
Statistics
Matches: 90, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
23 6 0.07
24 79 0.88
25 5 0.06
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (24 bp):
AATTCAAGTCAAGTATCATATCAG
Found at i:4758299 original size:3 final size:3
Alignment explanation
Indices: 4758291--4758352 Score: 67
Period size: 3 Copynumber: 21.3 Consensus size: 3
4758281 CTGGAGATTG
* *
4758291 TTA TTA TTA TTA TTA TTA TTA CTA TTA TTA TTAA TTA TT- TTA TTT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA
*
4758336 TTA TT- TT- TTA TCA TTA T
1 TTA TTA TTA TTA TTA TTA T
4758353 ATGTCAAAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
2 6 0.12
3 41 0.82
4 3 0.06
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:4758750 original size:34 final size:34
Alignment explanation
Indices: 4758703--4758779 Score: 118
Period size: 34 Copynumber: 2.3 Consensus size: 34
4758693 TATGCTCCAA
* * *
4758703 CACGTCTCTTCCAACTGCTGCTACACCAACACTC
1 CACGTCACCTCCAACTACTGCTACACCAACACTC
4758737 CACGTCACCTCCAACTACTGCTACACCAACACTC
1 CACGTCACCTCCAACTACTGCTACACCAACACTC
*
4758771 CACGCCACC
1 CACGTCACC
4758780 ACCATACTCA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.26, C:0.48, G:0.08, T:0.18
Consensus pattern (34 bp):
CACGTCACCTCCAACTACTGCTACACCAACACTC
Found at i:4763829 original size:20 final size:20
Alignment explanation
Indices: 4763789--4763827 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
4763779 CATTACAGGA
*
4763789 ATTTATGGCTTCATCAAAAG
1 ATTTATGGCTTCAACAAAAG
4763809 ATTTCATGGCTTCAACAAA
1 ATTT-ATGGCTTCAACAAA
4763828 GACTTTGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (20 bp):
ATTTATGGCTTCAACAAAAG
Found at i:4764097 original size:15 final size:15
Alignment explanation
Indices: 4764077--4764105 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
4764067 ACCACCAACA
4764077 CGACAAATTAATCAC
1 CGACAAATTAATCAC
4764092 CGACAAATTAATCA
1 CGACAAATTAATCA
4764106 GAAAAAAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.24, G:0.07, T:0.21
Consensus pattern (15 bp):
CGACAAATTAATCAC
Found at i:4764671 original size:2 final size:2
Alignment explanation
Indices: 4764664--4764763 Score: 200
Period size: 2 Copynumber: 50.0 Consensus size: 2
4764654 TCAACTAATG
4764664 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
4764706 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
4764748 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
4764764 CACAATCCAA
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 98 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4768490 original size:16 final size:16
Alignment explanation
Indices: 4768465--4768500 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
4768455 ATTTATGTTA
*
4768465 TTTAACTTTATGCATT
1 TTTAAATTTATGCATT
4768481 TTTAAATTTATGCATT
1 TTTAAATTTATGCATT
4768497 TTTA
1 TTTA
4768501 TTTTTTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.28, C:0.08, G:0.06, T:0.58
Consensus pattern (16 bp):
TTTAAATTTATGCATT
Found at i:4770819 original size:30 final size:31
Alignment explanation
Indices: 4770783--4770842 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
4770773 TAAAATCTTA
*
4770783 ATATG-TTTGGTACATAAACTATCAATTTTG
1 ATATGTTTTAGTACATAAACTATCAATTTTG
* *
4770813 ATATGTTTTAGTACCTAAACTTTCAATTTT
1 ATATGTTTTAGTACATAAACTATCAATTTT
4770843 TCAAAACTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 5 0.19
31 21 0.81
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.47
Consensus pattern (31 bp):
ATATGTTTTAGTACATAAACTATCAATTTTG
Found at i:4771393 original size:8 final size:9
Alignment explanation
Indices: 4771367--4771407 Score: 52
Period size: 8 Copynumber: 4.9 Consensus size: 9
4771357 TCCAAAACAA
*
4771367 AATACCAAT
1 AATACAAAT
4771376 AATACAAAT
1 AATACAAAT
4771385 AAT-CAAAT
1 AATACAAAT
4771393 -ATACAAAT
1 AATACAAAT
4771401 -ATACAAA
1 AATACAAA
4771408 GTCAATAGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
7 2 0.07
8 17 0.57
9 11 0.37
ACGTcount: A:0.63, C:0.15, G:0.00, T:0.22
Consensus pattern (9 bp):
AATACAAAT
Found at i:4781147 original size:29 final size:30
Alignment explanation
Indices: 4781110--4781171 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
4781100 TTTTTTATAA
*
4781110 AATTAAAATTTCAAAT-AAAAAATTAAATT
1 AATTAAAATATCAAATAAAAAAATTAAATT
* *
4781139 AATTGAAATATGAAATAAAAAAATTAAATT
1 AATTAAAATATCAAATAAAAAAATTAAATT
4781169 AAT
1 AAT
4781172 AAACCGAGGA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 13 0.45
30 16 0.55
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (30 bp):
AATTAAAATATCAAATAAAAAAATTAAATT
Found at i:4782392 original size:3 final size:3
Alignment explanation
Indices: 4782384--4782445 Score: 115
Period size: 3 Copynumber: 20.3 Consensus size: 3
4782374 TCCTACACAT
4782384 TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
4782430 TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA T
4782446 AGTTAAATAA
Statistics
Matches: 58, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 55 0.95
4 3 0.05
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:4789089 original size:98 final size:99
Alignment explanation
Indices: 4788976--4789177 Score: 309
Period size: 98 Copynumber: 2.1 Consensus size: 99
4788966 ATATAATATT
* *
4788976 ATATGTATACAATAAAGCTTG-AACTGTCCCTCTAGAGCAATTGGTTAAACACCCAG-CTTTATG
1 ATATATATACAATAAAGCTTGCAA-TGTCCCTCTAGAGCAATTGGTTAAACACCCAGAATTTATG
*
4789039 GATAAGATTTAGCTAGCATGATAAAGGTGATTATA
65 GATAAGATTCAGCTAGCATGATAAAGGTGATTATA
* * * *
4789074 ATATATATACAATAAAGCTTGCGATGTCCTTCTAGAGCAATTGGTTAAACGCCCCGAATTTATGG
1 ATATATATACAATAAAGCTTGCAATGTCCCTCTAGAGCAATTGGTTAAACACCCAGAATTTATGG
*
4789139 ATAAGATTCAGCTAGCTTGATAAAGGTGATTATA
66 ATAAGATTCAGCTAGCATGATAAAGGTGATTATA
4789173 ATATA
1 ATATA
4789178 CAATAAAGCT
Statistics
Matches: 94, Mismatches: 8, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
98 49 0.52
99 45 0.48
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (99 bp):
ATATATATACAATAAAGCTTGCAATGTCCCTCTAGAGCAATTGGTTAAACACCCAGAATTTATGG
ATAAGATTCAGCTAGCATGATAAAGGTGATTATA
Found at i:4790301 original size:43 final size:43
Alignment explanation
Indices: 4790236--4790322 Score: 140
Period size: 43 Copynumber: 2.0 Consensus size: 43
4790226 TACGACTTGT
*
4790236 AATATTGGGAGTATTTTTAAGGCCCATATCATCCAGAAATTATA
1 AATATTGGGAGTACTTTTAAGGCCCATATCATCCAGAAA-TATA
*
4790280 AATATTGGG-GTACTTTTAAGGCCCATATCATCCAGGAATATA
1 AATATTGGGAGTACTTTTAAGGCCCATATCATCCAGAAATATA
4790322 A
1 A
4790323 GATCATTGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
42 5 0.12
43 27 0.66
44 9 0.22
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (43 bp):
AATATTGGGAGTACTTTTAAGGCCCATATCATCCAGAAATATA
Found at i:4791996 original size:250 final size:250
Alignment explanation
Indices: 4791534--4792268 Score: 1051
Period size: 250 Copynumber: 2.9 Consensus size: 250
4791524 GAAAATGAGA
* * *
4791534 AATTATCAAATTTTCTCATTTAATGTTTTCAGAAAATGAAATTCTTGAAAAGTAAGAAAGTGATT
1 AATTACCAAAGTTTCTCATTTAATGTTTTCAGAAAATGAAATTCTTGAAAAGTAA-AAAGCGATT
* * * *
4791599 ATCAAAGTTTCTTACCCAGTAAATTATTTCCCAAAATTTGTATGTCCTTTGGGCCATCAGTAAGT
65 ACCAAAGTTTCTTACCCAGTAAATTATTTCCCAAAATTTGTAAGTCCTTCGGGCAATCAGTAAGT
* * * * *
4791664 CTTTTGAGCATAATGATTAAATCATTCGGGTCATCTGTAAGTCTTTCGAGCAAGATAATAAGTCT
130 CTTTCGAGCATGATGATTAAATCTTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCA
* * *
4791729 TTCGGGCCGTTCGTAAGACCTTCGGGTAGGATGTTTTCGCATGAAAATAAAAAAGT
195 TTCGGGCCATCCGTAAGACCTTCGGGTAGGATGTTTTCACATGAAAATAAAAAAGT
* *
4791785 AATTACCAAAGTTTCTCATTTAATATTTTCAAAAAATGAAATTCTTGAAAAGTAAAAAGCGATTA
1 AATTACCAAAGTTTCTCATTTAATGTTTTCAGAAAATGAAATTCTTGAAAAGTAAAAAGCGATTA
* * *
4791850 CCAAAGTTTCTTACCTAGTAAATTATTTCCCAAAATTTATAAGTCCTTCAGGCAATCAGTAAGTC
66 CCAAAGTTTCTTACCCAGTAAATTATTTCCCAAAATTTGTAAGTCCTTCGGGCAATCAGTAAGTC
* * *
4791915 TTTCGAGCATGATGTTTAAATCTTTCGGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTCCT
131 TTTCGAGCATGATGATTAAATCTTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCAT
* *
4791980 TCGGGCCATCCGTAAGACCTTCGGGTAGGATGTTTTCACATGAAAATGAGAAAGT
196 TCGGGCCATCCGTAAGACCTTCGGGTAGGATGTTTTCACATGAAAATAAAAAAGT
* * * * * *
4792035 GATTTCCAAAGTTTCTCAGTTAATGTTTTTAGAAAATGAAATTTTTGAAAAGTAGGAAAA-CAAT
1 AATTACCAAAGTTTCTCATTTAATGTTTTCAGAAAATGAAATTCTTGAAAAGTA--AAAAGCGAT
* * *
4792099 TACCAAAGTTTCTTACCCAGTAAATTATTTCCCAAAACTTGTAAGTCCTTCGGGCTATCAATAAG
64 TACCAAAGTTTCTTACCCAGTAAATTATTTCCCAAAATTTGTAAGTCCTTCGGGCAATCAGTAAG
** * * *
4792164 TCTTTCTTGCATGATGCTTAAATCTTTCGGGTCATCTGTAAGTCTTTCGAACAAAATGATAAGTC
129 TCTTTCGAGCATGATGATTAAATCTTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTC
* * *
4792229 ATTC-GGCCAACCGTAAAACCTTTGGGTAGGATGTTTTCAC
194 ATTCGGGCCATCCGTAAGACCTTCGGGTAGGATGTTTTCAC
4792269 TCTTTGTTAT
Statistics
Matches: 434, Mismatches: 48, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
250 255 0.59
251 175 0.40
252 4 0.01
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (250 bp):
AATTACCAAAGTTTCTCATTTAATGTTTTCAGAAAATGAAATTCTTGAAAAGTAAAAAGCGATTA
CCAAAGTTTCTTACCCAGTAAATTATTTCCCAAAATTTGTAAGTCCTTCGGGCAATCAGTAAGTC
TTTCGAGCATGATGATTAAATCTTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCAT
TCGGGCCATCCGTAAGACCTTCGGGTAGGATGTTTTCACATGAAAATAAAAAAGT
Found at i:4792361 original size:62 final size:62
Alignment explanation
Indices: 4792280--4792430 Score: 239
Period size: 62 Copynumber: 2.4 Consensus size: 62
4792270 CTTTGTTATT
*
4792280 CTTGACTTCCTCGTGAAGAGAAGTCAACCTTTGTTATTTATAACTCCCCAGTAGAGTCAATC
1 CTTGACTTCCTCGTGAAGAGAAGTCAACCTTTATTATTTATAACTCCCCAGTAGAGTCAATC
* * * *
4792342 CTTGACTTCTTCGTTAAGAGAAGTCAACCTTTATTATTTCTACCTCCCCAGTAGAGTCAATC
1 CTTGACTTCCTCGTGAAGAGAAGTCAACCTTTATTATTTATAACTCCCCAGTAGAGTCAATC
* *
4792404 ATTGACTTCCTCATGAAGAGAAGTCAA
1 CTTGACTTCCTCGTGAAGAGAAGTCAA
4792431 TCATTGACAT
Statistics
Matches: 80, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
62 80 1.00
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.32
Consensus pattern (62 bp):
CTTGACTTCCTCGTGAAGAGAAGTCAACCTTTATTATTTATAACTCCCCAGTAGAGTCAATC
Found at i:4792428 original size:29 final size:29
Alignment explanation
Indices: 4792396--4792459 Score: 119
Period size: 29 Copynumber: 2.2 Consensus size: 29
4792386 TCCCCAGTAG
*
4792396 AGTCAATCATTGACTTCCTCATGAAGAGA
1 AGTCAATCATTGACATCCTCATGAAGAGA
4792425 AGTCAATCATTGACATCCTCATGAAGAGA
1 AGTCAATCATTGACATCCTCATGAAGAGA
4792454 AGTCAA
1 AGTCAA
4792460 CCTTTTTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (29 bp):
AGTCAATCATTGACATCCTCATGAAGAGA
Found at i:4792507 original size:92 final size:91
Alignment explanation
Indices: 4792334--4792522 Score: 245
Period size: 92 Copynumber: 2.1 Consensus size: 91
4792324 TCCCCAGTAG
* * * * *
4792334 AGTCAATCCTTGACTTCTTCGTTAAGAGAAGTCAACCTTTATTATTTCTACCTCCCCAGTAGAGT
1 AGTCAATCATTGACATCCTCATGAAGAGAAGTCAACCTTTATTATTTCTACCTCCCCAGTAGAGT
4792399 CAATCATTGACTTCCTCATGAAGAGA
66 CAATCATTGACTTCCTCATGAAGAGA
* * * *
4792425 AGTCAATCATTGACATCCTCATGAAGAGAAGTCAACCTTTTTTTATTTTTGA-TTCCCTAGTAGA
1 AGTCAATCATTGACATCCTCATGAAGAGAAGTCAACC-TTTATTATTTCT-ACCTCCCCAGTAGA
* * *
4792489 GTCAATCCTTGACTTCCTCGTTAAGAGA
64 GTCAATCATTGACTTCCTCATGAAGAGA
4792517 AGTCAA
1 AGTCAA
4792523 CCTTTATTAT
Statistics
Matches: 84, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
91 32 0.38
92 51 0.61
93 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (91 bp):
AGTCAATCATTGACATCCTCATGAAGAGAAGTCAACCTTTATTATTTCTACCTCCCCAGTAGAGT
CAATCATTGACTTCCTCATGAAGAGA
Found at i:4792563 original size:154 final size:153
Alignment explanation
Indices: 4792281--4792584 Score: 484
Period size: 154 Copynumber: 2.0 Consensus size: 153
4792271 TTTGTTATTC
* *
4792281 TTGACTTCCTCGTGAAGAGAAGTCAACCTTTGTTATTTATAACTCCCCAGTAGAGTCAATCCTTG
1 TTGACATCCTCATGAAGAGAAGTCAACCTTTGTTATTTATAACTCCCCAGTAGAGTCAATCCTTG
*
4792346 ACTTCTTCGTTAAGAGAAGTCAACCTTTATTATTTCTACCTCCCCAGTAGAGTCAATCATTGACT
66 ACTTCCTCGTTAAGAGAAGTCAACCTTTATTATTTCTACCTCCCCAGTAGAGTCAATCATTGACT
4792411 TCCTCATGAAGAGAAGTCAATCA
131 TCCTCATGAAGAGAAGTCAATCA
* * * * *
4792434 TTGACATCCTCATGAAGAGAAGTCAACCTTTTTTTATTTTTGATTCCCTAGTAGAGTCAATCCTT
1 TTGACATCCTCATGAAGAGAAGTCAACC-TTTGTTATTTATAACTCCCCAGTAGAGTCAATCCTT
* *
4792499 GACTTCCTCGTTAAGAGAAGTCAACCTTTATTATTTCTGA-CTCCCCATTAGAGTCAATCCTTGA
65 GACTTCCTCGTTAAGAGAAGTCAACCTTTATTATTTCT-ACCTCCCCAGTAGAGTCAATCATTGA
*
4792563 CTTCCTCGTGAAGAGAAGTCAA
129 CTTCCTCATGAAGAGAAGTCAA
4792585 CCTTTATTTT
Statistics
Matches: 138, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
153 26 0.19
154 111 0.80
155 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (153 bp):
TTGACATCCTCATGAAGAGAAGTCAACCTTTGTTATTTATAACTCCCCAGTAGAGTCAATCCTTG
ACTTCCTCGTTAAGAGAAGTCAACCTTTATTATTTCTACCTCCCCAGTAGAGTCAATCATTGACT
TCCTCATGAAGAGAAGTCAATCA
Found at i:4792745 original size:185 final size:184
Alignment explanation
Indices: 4792425--4792878 Score: 606
Period size: 185 Copynumber: 2.4 Consensus size: 184
4792415 CATGAAGAGA
* * * * * *
4792425 AGTCAATCATTGACATCCTCATGAAGAGAAGTCAACCTTTTTTTATTTTTGA-TTCCCTAGTAGA
1 AGTCAATCCTTAACTTCCTCGTGAAGAGAAGTCAACC-TTTATTA-TTTTAACTT-CC-AGTAGA
* *
4792489 GTCAATC-CTTGACTTCCTCGTTAAGAGAAGTCAACCTTTATTATTTCTGACTCCCCATTAGAGT
62 GTCAATCTC-TGACTTCCTCGTGAAGAGAAGTCAACCTTTATTATTTCTGACTCCCCAGTAGAGT
* * * * *
4792553 CAATCCTTGACTTCCTCGTGAAGAGAAGTCAACCTTTATTTTTTCTGACTCCCCAGTAG
126 CAATCCTTGAATTCATCGTGAAGAGAAGTCAACCTTTATTATTCCTGACTCACCAGTAG
* *
4792612 AGTCAATCCTTAACTTTCTCGTTAAGAGAAGTCAACCTTTATTATTTATAACTTCCAGTAGAGTC
1 AGTCAATCCTTAACTTCCTCGTGAAGAGAAGTCAACCTTTATTATTT-TAACTTCCAGTAGAGTC
* * *
4792677 AATCTCTGACTTCCTTGTGAAGAGAAGTCAACCTTTGTTATTTCTGACTCCCCAGTAGAGTTAAT
65 AATCTCTGACTTCCTCGTGAAGAGAAGTCAACCTTTATTATTTCTGACTCCCCAGTAGAGTCAAT
* * *
4792742 CCTTGAATTCATTGTTAAGAGAAGTCAACCTTTATTATTCCTGACTCACTAGTAG
130 CCTTGAATTCATCGTGAAGAGAAGTCAACCTTTATTATTCCTGACTCACCAGTAG
*
4792797 AGTCAATCCTTGACTTCCTCGTGAAGAGAAGTCAACCTTTATTATTCTTAACTCTCCAGTAGAGT
1 AGTCAATCCTTAACTTCCTCGTGAAGAGAAGTCAACCTTTATTATT-TTAACT-TCCAGTAGAGT
* *
4792862 CAATTTTTGACTTCCTC
64 CAATCTCTGACTTCCTC
4792879 ACGAAGATGA
Statistics
Matches: 235, Mismatches: 27, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
185 165 0.70
186 37 0.16
187 33 0.14
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.36
Consensus pattern (184 bp):
AGTCAATCCTTAACTTCCTCGTGAAGAGAAGTCAACCTTTATTATTTTAACTTCCAGTAGAGTCA
ATCTCTGACTTCCTCGTGAAGAGAAGTCAACCTTTATTATTTCTGACTCCCCAGTAGAGTCAATC
CTTGAATTCATCGTGAAGAGAAGTCAACCTTTATTATTCCTGACTCACCAGTAG
Found at i:4792885 original size:62 final size:62
Alignment explanation
Indices: 4792425--4792878 Score: 590
Period size: 62 Copynumber: 7.3 Consensus size: 62
4792415 CATGAAGAGA
* * * * * * *
4792425 AGTCAATCATTGACATCCTCATGAAGAGAAGTCAACCTTTTTTTATTTTTGATTCCCTAGTAG
1 AGTCAATCCTTGACTTCCTCGTGAAGAGAAGTCAACC-TTTATTATTTCTGACTCCCCAGTAG
* *
4792488 AGTCAATCCTTGACTTCCTCGTTAAGAGAAGTCAACCTTTATTATTTCTGACTCCCCATTAG
1 AGTCAATCCTTGACTTCCTCGTGAAGAGAAGTCAACCTTTATTATTTCTGACTCCCCAGTAG
*
4792550 AGTCAATCCTTGACTTCCTCGTGAAGAGAAGTCAACCTTTATTTTTTCTGACTCCCCAGTAG
1 AGTCAATCCTTGACTTCCTCGTGAAGAGAAGTCAACCTTTATTATTTCTGACTCCCCAGTAG
* * * * * *
4792612 AGTCAATCCTTAACTTTCTCGTTAAGAGAAGTCAACCTTTATTATTTATAACT-TCCAGTAG
1 AGTCAATCCTTGACTTCCTCGTGAAGAGAAGTCAACCTTTATTATTTCTGACTCCCCAGTAG
* *
4792673 AGTCAAT-CTCTGACTTCCTTGTGAAGAGAAGTCAACCTTTGTTATTTCTGACTCCCCAGTAG
1 AGTCAATCCT-TGACTTCCTCGTGAAGAGAAGTCAACCTTTATTATTTCTGACTCCCCAGTAG
* * * * * * * *
4792735 AGTTAATCCTTGAATTCATTGTTAAGAGAAGTCAACCTTTATTATTCCTGACTCACTAGTAG
1 AGTCAATCCTTGACTTCCTCGTGAAGAGAAGTCAACCTTTATTATTTCTGACTCCCCAGTAG
* *
4792797 AGTCAATCCTTGACTTCCTCGTGAAGAGAAGTCAACCTTTATTA-TTCTTAACTCTCCAGTAG
1 AGTCAATCCTTGACTTCCTCGTGAAGAGAAGTCAACCTTTATTATTTC-TGACTCCCCAGTAG
**
4792859 AGTCAATTTTTGACTTCCTC
1 AGTCAATCCTTGACTTCCTC
4792879 ACGAAGATGA
Statistics
Matches: 341, Mismatches: 46, Indels: 9
0.86 0.12 0.02
Matches are distributed among these distances:
60 2 0.01
61 52 0.15
62 252 0.74
63 35 0.10
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.36
Consensus pattern (62 bp):
AGTCAATCCTTGACTTCCTCGTGAAGAGAAGTCAACCTTTATTATTTCTGACTCCCCAGTAG
Found at i:4792971 original size:61 final size:61
Alignment explanation
Indices: 4792887--4793108 Score: 214
Period size: 61 Copynumber: 3.6 Consensus size: 61
4792877 TCACGAAGAT
*
4792887 GAGTGAATCCTTGACTTT-CTCGTGAAGAGAAGTCATCCTTTGTTATTTCTGACTTCCAGTA
1 GAGTCAATCCTTGA-TTTCCTCGTGAAGAGAAGTCATCCTTTGTTATTTCTGACTTCCAGTA
* * * * * *
4792948 AAGCCAATCCTTGATTTCCTCGTGAAGAAAAGTCAACTTTTGTTATTTCTGACTCCCTAGTA
1 GAGTCAATCCTTGATTTCCTCGTGAAGAGAAGTCATCCTTTGTTATTTCTGACTTCC-AGTA
** * ** ** *
4793010 GAGTCAATTTTTGACTTCCTCGTGAAGAGAAAACAAT-CTTTGTTAATCACTTGACTCTCCAATA
1 GAGTCAATCCTTGATTTCCTCGTGAAGAGAAGTC-ATCCTTTGTT-ATTTC-TGACT-TCCAGTA
* * *
4793074 GAGTCAATCCTTGATTCCCTTGTGAAGAGGAGTCA
1 GAGTCAATCCTTGATTTCCTCGTGAAGAGAAGTCA
4793109 ATCATTGACT
Statistics
Matches: 126, Mismatches: 29, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
60 3 0.02
61 46 0.37
62 36 0.29
63 5 0.04
64 34 0.27
65 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.35
Consensus pattern (61 bp):
GAGTCAATCCTTGATTTCCTCGTGAAGAGAAGTCATCCTTTGTTATTTCTGACTTCCAGTA
Found at i:4793131 original size:29 final size:29
Alignment explanation
Indices: 4793074--4793138 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 29
4793064 CTCTCCAATA
* *
4793074 GAGTCAATCCTTGATTCCCTTGTGAAGAG
1 GAGTCAATCATTGATTCCCTCGTGAAGAG
4793103 GAGTCAATCATTGACTT-CCTCGT-ATAGAG
1 GAGTCAATCATTGA-TTCCCTCGTGA-AGAG
*
4793132 AAGTCAA
1 GAGTCAA
4793139 CCTTTGTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
28 1 0.03
29 28 0.90
30 2 0.06
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (29 bp):
GAGTCAATCATTGATTCCCTCGTGAAGAG
Found at i:4793479 original size:3 final size:3
Alignment explanation
Indices: 4793471--4793512 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
4793461 ACATATTTAC
* * *
4793471 TAT TAT TAT TAT TGT TAT TAT TAT TAT TA- AAT AAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
4793513 TTTACAAAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 1 0.03
3 33 0.97
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:4799496 original size:13 final size:14
Alignment explanation
Indices: 4799470--4799503 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
4799460 AAGAAATATT
4799470 AAATAAATCAAATA
1 AAATAAATCAAATA
*
4799484 GAATAAA-CAAATA
1 AAATAAATCAAATA
4799497 AAATAAA
1 AAATAAA
4799504 AATTTTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.74, C:0.06, G:0.03, T:0.18
Consensus pattern (14 bp):
AAATAAATCAAATA
Found at i:4801610 original size:3 final size:3
Alignment explanation
Indices: 4801597--4801657 Score: 59
Period size: 3 Copynumber: 18.3 Consensus size: 3
4801587 GGCATGTAAA
*
4801597 AAT ATT AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAAT AAAT AAAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT -AAT -AAT -AAT -AAT
4801647 AAGT AAT AAT A
1 AA-T AAT AAT A
4801658 TTTTTTAAAC
Statistics
Matches: 54, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
3 32 0.59
4 22 0.41
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:4801633 original size:4 final size:4
Alignment explanation
Indices: 4801624--4801648 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
4801614 TAATAATAAT
4801624 AATA AATA AATA AATA AATA AATA A
1 AATA AATA AATA AATA AATA AATA A
4801649 GTAATAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:4803283 original size:35 final size:35
Alignment explanation
Indices: 4803232--4803332 Score: 175
Period size: 35 Copynumber: 2.9 Consensus size: 35
4803222 CGACAAGTCT
*
4803232 AGTATGGCCCTGAGCACACAGCCGAGGAGCCGGTA
1 AGTAAGGCCCTGAGCACACAGCCGAGGAGCCGGTA
*
4803267 AGTAAGGCCCTGAGCACACAGCCGATGAGCCGGTA
1 AGTAAGGCCCTGAGCACACAGCCGAGGAGCCGGTA
*
4803302 AGTAAGTCCCTGAGCACACAGCCGAGGAGCC
1 AGTAAGGCCCTGAGCACACAGCCGAGGAGCC
4803333 TCCAGCTATA
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 62 1.00
ACGTcount: A:0.28, C:0.30, G:0.32, T:0.11
Consensus pattern (35 bp):
AGTAAGGCCCTGAGCACACAGCCGAGGAGCCGGTA
Found at i:4803509 original size:24 final size:24
Alignment explanation
Indices: 4803412--4803500 Score: 126
Period size: 24 Copynumber: 3.7 Consensus size: 24
4803402 ATCATAACAT
*
4803412 AATCCAGGTCAAGTA-TCAGATCAA
1 AATCCAGGTCAAGTATTCA-ATCAG
*
4803436 AATCCATGTCAAGTATTCAATCAG
1 AATCCAGGTCAAGTATTCAATCAG
*
4803460 AATCCAGGTCAAGTATCCAATCAG
1 AATCCAGGTCAAGTATTCAATCAG
*
4803484 AATCCAGGTCAGGTATT
1 AATCCAGGTCAAGTATT
4803501 ATAATAGAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
24 55 0.95
25 3 0.05
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (24 bp):
AATCCAGGTCAAGTATTCAATCAG
Found at i:4807710 original size:2 final size:2
Alignment explanation
Indices: 4807703--4807727 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4807693 ATCTTTTTAA
4807703 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
4807728 CCCCATCCGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4807951 original size:24 final size:24
Alignment explanation
Indices: 4807919--4808017 Score: 74
Period size: 24 Copynumber: 4.1 Consensus size: 24
4807909 AACGGATATA
* * *
4807919 TCAAAAATCATAACATAATCCAGG
1 TCAAGAATCAGAACAAAATCCAGG
*
4807943 TCAAGAATCAGATCAAAATCCAGG
1 TCAAGAATCAGAACAAAATCCAGG
* * * *
4807967 TCAAGTATTCA-ATCAGAATCCAAG
1 TCAAG-AATCAGAACAAAATCCAGG
* * * *
4807991 TCAAGTATCCGATCAGAATCCAGG
1 TCAAGAATCAGAACAAAATCCAGG
4808015 TCA
1 TCA
4808018 GGTATTATAA
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
23 2 0.03
24 56 0.90
25 4 0.06
ACGTcount: A:0.42, C:0.22, G:0.14, T:0.21
Consensus pattern (24 bp):
TCAAGAATCAGAACAAAATCCAGG
Found at i:4807970 original size:12 final size:13
Alignment explanation
Indices: 4807935--4808017 Score: 61
Period size: 12 Copynumber: 6.8 Consensus size: 13
4807925 ATCATAACAT
4807935 AATCCAGGTCAAG
1 AATCCAGGTCAAG
*
4807948 AAT-CAGATCAA-
1 AATCCAGGTCAAG
4807959 AATCCAGGTCAAG
1 AATCCAGGTCAAG
* * *
4807972 TATTCA-ATC-AG
1 AATCCAGGTCAAG
*
4807983 AATCCAAGTCAAG
1 AATCCAGGTCAAG
* *
4807996 TATCC-GATC-AG
1 AATCCAGGTCAAG
4808007 AATCCAGGTCA
1 AATCCAGGTCA
4808018 GGTATTATAA
Statistics
Matches: 51, Mismatches: 13, Indels: 12
0.67 0.17 0.16
Matches are distributed among these distances:
11 15 0.29
12 23 0.45
13 13 0.25
ACGTcount: A:0.40, C:0.23, G:0.17, T:0.20
Consensus pattern (13 bp):
AATCCAGGTCAAG
Found at i:4808022 original size:24 final size:24
Alignment explanation
Indices: 4807935--4808022 Score: 113
Period size: 24 Copynumber: 3.7 Consensus size: 24
4807925 ATCATAACAT
* * *
4807935 AATCCAGGTCAAGAATCAGATCAA
1 AATCCAGGTCAAGTATCCGATCAG
* *
4807959 AATCCAGGTCAAGTATTCAATCAG
1 AATCCAGGTCAAGTATCCGATCAG
*
4807983 AATCCAAGTCAAGTATCCGATCAG
1 AATCCAGGTCAAGTATCCGATCAG
*
4808007 AATCCAGGTCAGGTAT
1 AATCCAGGTCAAGTAT
4808023 TATAATAGAA
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 54 1.00
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.22
Consensus pattern (24 bp):
AATCCAGGTCAAGTATCCGATCAG
Found at i:4812038 original size:201 final size:201
Alignment explanation
Indices: 4811716--4812586 Score: 1187
Period size: 201 Copynumber: 4.3 Consensus size: 201
4811706 TGATATGCCC
* ** * * * * * *
4811716 TCGAGTTGAATGGGATCAAACTCGAAGATTTTTGTTGACAGCTAACCCTTCTCGCCTTGAGATAT
1 TCGAGCTGAATGAAATCGAACTCGAAAATTCTTGTTGACAGATAACCCTTCTCGCCTTAAGCTAT
* * * *
4811781 GTTGTAAATTTGACTTAGAGATAGTTCCTTGTTGCTAAATCGCAACCAACCTAGGTCTTCATCTT
66 GCTGTAAATTTGACTTAGATATAGTTCCTTGTTGCTAAATCACAACCAACCTAGGTCTTCTTCTT
*
4811846 GACTTAAAGACCTCGGTTTAAAATTCAACCAAAAGGTAGTTCCTTGATGCTACCATGCAGTTGAT
131 GACTTAAAGACCTCGGTTTAAAATTCAACCAAAAGGTAGTTCCTCGATGCTACCATGCAGTTGAT
4811911 ATATCT
196 ATATCT
* * * *
4811917 TCGAGCTGAATGAAATCGAACTCGAAAATTCTTATTGACAGATAGCCCTTCTTGCCTTAAACTAT
1 TCGAGCTGAATGAAATCGAACTCGAAAATTCTTGTTGACAGATAACCCTTCTCGCCTTAAGCTAT
* * *
4811982 GCTATAAATTTGACTAAGATATAGTTCCTTGTTGCTAAATCGCAACCAACCTAGGTCTTCTTCTT
66 GCTGTAAATTTGACTTAGATATAGTTCCTTGTTGCTAAATCACAACCAACCTAGGTCTTCTTCTT
* ** * * *
4812047 GACTTAAAGACCTCGTTTTAAAATTCAACCGGAAGGTAGTTTCTCGCTGCTACCATGCAATTGAT
131 GACTTAAAGACCTCGGTTTAAAATTCAACCAAAAGGTAGTTCCTCGATGCTACCATGCAGTTGAT
4812112 ATATCT
196 ATATCT
* *
4812118 TCGAGCTGAATGAAATCGATCTCGAAAATTCTTGTTGACATATAACCCTTCTCGCCTTAAGCTAT
1 TCGAGCTGAATGAAATCGAACTCGAAAATTCTTGTTGACAGATAACCCTTCTCGCCTTAAGCTAT
*
4812183 GCTGTAAATTTGACTTGGATATAGTTCCTTGTTGCTAAATCACAACCAACCTAGGTCTTCTTCTT
66 GCTGTAAATTTGACTTAGATATAGTTCCTTGTTGCTAAATCACAACCAACCTAGGTCTTCTTCTT
* * * * *
4812248 GACTTAAAGACCTCGGTTTAAAATTCAACCAGAAGGTAGTTCATCGCTGTTACCATGTAGTTGAT
131 GACTTAAAGACCTCGGTTTAAAATTCAACCAAAAGGTAGTTCCTCGATGCTACCATGCAGTTGAT
4812313 ATATCT
196 ATATCT
*
4812319 TCGAGCTGAATGAAATCGAACTC-AAAATTTGTTGTTGACAGATAACCCTTCTCGCCTTAAGCTA
1 TCGAGCTGAATGAAATCGAACTCGAAAA-TTCTTGTTGACAGATAACCCTTCTCGCCTTAAGCTA
* * * * *
4812383 TGCTGTAAATTTGAATGT-GATATACTTCTTTGTTTCTAAATCACAACCAACCCAGGTCTTCTTC
65 TGCTGTAAATTTGACT-TAGATATAGTTCCTTGTTGCTAAATCACAACCAACCTAGGTCTTCTTC
* * ***
4812447 TTGACTTAAATACCTCGGTTTAAAATTCAACTGAAAA-GTAGTTCCT--ACTGCTACCATATGGT
129 TTGACTTAAAGACCTCGGTTTAAAATTCAAC-CAAAAGGTAGTTCCTCGA-TGCTACCATGCAGT
*
4812509 TGATATGTCT
192 TGATATATCT
* * * * *
4812519 TTGAGCTGAATGAAATCGAACTC-AAAAGTTCTCGTTGACAGATAGCTCTTCTCGCCTTGAGCTA
1 TCGAGCTGAATGAAATCGAACTCGAAAA-TTCTTGTTGACAGATAACCCTTCTCGCCTTAAGCTA
4812583 TGCT
65 TGCT
4812587 ACAGACAATT
Statistics
Matches: 600, Mismatches: 66, Indels: 9
0.89 0.10 0.01
Matches are distributed among these distances:
200 85 0.14
201 511 0.85
202 4 0.01
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.34
Consensus pattern (201 bp):
TCGAGCTGAATGAAATCGAACTCGAAAATTCTTGTTGACAGATAACCCTTCTCGCCTTAAGCTAT
GCTGTAAATTTGACTTAGATATAGTTCCTTGTTGCTAAATCACAACCAACCTAGGTCTTCTTCTT
GACTTAAAGACCTCGGTTTAAAATTCAACCAAAAGGTAGTTCCTCGATGCTACCATGCAGTTGAT
ATATCT
Found at i:4812743 original size:77 final size:78
Alignment explanation
Indices: 4812635--4812852 Score: 233
Period size: 86 Copynumber: 2.7 Consensus size: 78
4812625 TGGGTCTAGG
4812635 CCAAGTGAGATGATCTTTGGATGACTCCCCTTCACAGTAAAGTCATGTGAGA-G-GTGGTTCCCC
1 CCAAGTGAGATGATCTTTGGATGACTCCCCTTCACAG-AAAGTCATGTGAGATGTGTGGTTCCCC
*
4812698 TTCGCGAGTCTAAA
65 TTCACGAGTCTAAA
* * ** *
4812712 CCAACTGAGATGATCTTTGGATGAGTCCCCTTCATGGGAAAGTCACGTGAGATGTTCTTCACGTG
1 CCAAGTGAGATGATCTTTGGATGACTCCCCTTCA-CAGAAAGTCATGTGAGATG----T---GTG
* * *
4812777 GTTCCCCTTCATGGGTCTGAA
58 GTTCCCCTTCACGAGTCTAAA
* *
4812798 CCAAGTCAGATGATATTTGGATGACTCCCCTTCACGAGAAAGTCATGTGAGATGT
1 CCAAGTGAGATGATCTTTGGATGACTCCCCTTCAC-AGAAAGTCATGTGAGATGT
4812853 TCTTCAAGTG
Statistics
Matches: 114, Mismatches: 16, Indels: 17
0.78 0.11 0.12
Matches are distributed among these distances:
77 45 0.39
78 2 0.02
82 1 0.01
86 66 0.58
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.28
Consensus pattern (78 bp):
CCAAGTGAGATGATCTTTGGATGACTCCCCTTCACAGAAAGTCATGTGAGATGTGTGGTTCCCCT
TCACGAGTCTAAA
Found at i:4812839 original size:86 final size:86
Alignment explanation
Indices: 4812688--4812858 Score: 243
Period size: 86 Copynumber: 2.0 Consensus size: 86
4812678 CATGTGAGAG
* * * * * *
4812688 GTGGTTCCCCTTCGCGAGTCTAAACCAACTGAGATGATCTTTGGATGAGTCCCCTTCATGGGAAA
1 GTGGTTCCCCTTCACGAGTCTAAACCAACTCAGATGATATTTGGATGACTCCCCTTCACGAGAAA
4812753 GTCACGTGAGATGTTCTTCAC
66 GTCACGTGAGATGTTCTTCAC
* * * *
4812774 GTGGTTCCCCTTCATGGGTCTGAACCAAGTCAGATGATATTTGGATGACTCCCCTTCACGAGAAA
1 GTGGTTCCCCTTCACGAGTCTAAACCAACTCAGATGATATTTGGATGACTCCCCTTCACGAGAAA
*
4812839 GTCATGTGAGATGTTCTTCA
66 GTCACGTGAGATGTTCTTCA
4812859 AGTGACGTTA
Statistics
Matches: 74, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
86 74 1.00
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.30
Consensus pattern (86 bp):
GTGGTTCCCCTTCACGAGTCTAAACCAACTCAGATGATATTTGGATGACTCCCCTTCACGAGAAA
GTCACGTGAGATGTTCTTCAC
Found at i:4813311 original size:32 final size:32
Alignment explanation
Indices: 4813228--4813313 Score: 120
Period size: 32 Copynumber: 2.7 Consensus size: 32
4813218 TTCACATCAG
* * *
4813228 GATGTTAAATC-CCTAAAGAGGCCCCAATATTT
1 GATGTTGAATCTCC-AAAGATGCCCCAACATTT
4813260 GATGTTGAATCTCCAAAGATGCCCCAACATTT
1 GATGTTGAATCTCCAAAGATGCCCCAACATTT
*
4813292 GATGTTGAATCTTCAAAGATGC
1 GATGTTGAATCTCCAAAGATGC
4813314 AACCATTGTT
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
32 47 0.96
33 2 0.04
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (32 bp):
GATGTTGAATCTCCAAAGATGCCCCAACATTT
Found at i:4816223 original size:18 final size:18
Alignment explanation
Indices: 4816190--4816239 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
4816180 TAGAGTTTTT
* *
4816190 CCCGAATGACCACTATGT
1 CCCGAAGGACCACTATGA
* *
4816208 CCTGAAGGACCGCTATGA
1 CCCGAAGGACCACTATGA
4816226 CCCGAAGGACCACT
1 CCCGAAGGACCACT
4816240 CCTTAAGAAC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.28, C:0.34, G:0.22, T:0.16
Consensus pattern (18 bp):
CCCGAAGGACCACTATGA
Found at i:4817035 original size:21 final size:22
Alignment explanation
Indices: 4816986--4817038 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
4816976 TACCCTTAGT
*
4816986 GTACCGA-ACCTCTATGCTAGG
1 GTACCGATACCTCTATACTAGG
*
4817007 GTATCGATACCTCTATACTA-G
1 GTACCGATACCTCTATACTAGG
4817028 GTACCGATACC
1 GTACCGATACC
4817039 AAAATTAGCT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 17 0.61
22 11 0.39
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.26
Consensus pattern (22 bp):
GTACCGATACCTCTATACTAGG
Found at i:4817093 original size:21 final size:22
Alignment explanation
Indices: 4817073--4817114 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
4817063 GTATTAATAC
4817073 CCTCCA-CATA-GGTATCGATA
1 CCTCCACCATATGGTATCGATA
*
4817093 CCTCTACCATATGGTATCGATA
1 CCTCCACCATATGGTATCGATA
4817115 TTGTTCATAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 4 0.21
22 10 0.53
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.29
Consensus pattern (22 bp):
CCTCCACCATATGGTATCGATA
Found at i:4818693 original size:11 final size:11
Alignment explanation
Indices: 4818672--4818706 Score: 52
Period size: 12 Copynumber: 3.0 Consensus size: 11
4818662 AATCAAATGG
4818672 AAAAAATAAAAT
1 AAAAAA-AAAAT
4818684 AAAAAAAAAATT
1 AAAAAAAAAA-T
4818696 AAAAAAAAAAT
1 AAAAAAAAAAT
4818707 TAAAGGTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 5 0.23
12 17 0.77
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (11 bp):
AAAAAAAAAAT
Found at i:4827238 original size:12 final size:12
Alignment explanation
Indices: 4827221--4827255 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
4827211 ATGGGGCCTG
4827221 TAAAAATATTAA
1 TAAAAATATTAA
*
4827233 TAAAAATATTAT
1 TAAAAATATTAA
*
4827245 TAATAATATTA
1 TAAAAATATTA
4827256 TTAATAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
TAAAAATATTAA
Found at i:4827256 original size:12 final size:12
Alignment explanation
Indices: 4827225--4827264 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
4827215 GGCCTGTAAA
* *
4827225 AATATTAATAAA
1 AATATTATTAAT
4827237 AATATTATTAAT
1 AATATTATTAAT
4827249 AATATTATTAAT
1 AATATTATTAAT
4827261 AATA
1 AATA
4827265 AATAAATAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
AATATTATTAAT
Found at i:4836140 original size:24 final size:24
Alignment explanation
Indices: 4836100--4836149 Score: 57
Period size: 23 Copynumber: 2.0 Consensus size: 24
4836090 ATTATTCAAA
*
4836100 TATTAAAAAAATGAATA-TAAAAT
1 TATTAAAAAAATAAATACTAAAAT
*
4836123 TATTTAAAAAATAAAATACTTAAAAT
1 TATTAAAAAAAT-AAATAC-TAAAAT
4836149 T
1 T
4836150 TTGAATATAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 11 0.50
24 4 0.18
26 7 0.32
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (24 bp):
TATTAAAAAAATAAATACTAAAAT
Found at i:4843105 original size:23 final size:23
Alignment explanation
Indices: 4843072--4843115 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
4843062 GAGTTGAGGG
*
4843072 TCTACGCGGTCCTTTGGGACAAT
1 TCTACGCGGTCCTTCGGGACAAT
*
4843095 TCTACGTGGTCCTTCGGGACA
1 TCTACGCGGTCCTTCGGGACA
4843116 TATATGTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.16, C:0.27, G:0.27, T:0.30
Consensus pattern (23 bp):
TCTACGCGGTCCTTCGGGACAAT
Found at i:4843235 original size:23 final size:23
Alignment explanation
Indices: 4843205--4843259 Score: 110
Period size: 23 Copynumber: 2.4 Consensus size: 23
4843195 GGAGTGATCA
4843205 TTCGGGACATTTCTACGCGGTCC
1 TTCGGGACATTTCTACGCGGTCC
4843228 TTCGGGACATTTCTACGCGGTCC
1 TTCGGGACATTTCTACGCGGTCC
4843251 TTCGGGACA
1 TTCGGGACA
4843260 AATATTCAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.15, C:0.29, G:0.27, T:0.29
Consensus pattern (23 bp):
TTCGGGACATTTCTACGCGGTCC
Found at i:4849666 original size:23 final size:23
Alignment explanation
Indices: 4849633--4849676 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
4849623 GAGTTGAGGG
*
4849633 TCTACGCGGTCCTTCGGGACAAT
1 TCTACGCGGTCCTTCGAGACAAT
*
4849656 TCTACGTGGTCCTTCGAGACA
1 TCTACGCGGTCCTTCGAGACA
4849677 TATATGTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.18, C:0.30, G:0.25, T:0.27
Consensus pattern (23 bp):
TCTACGCGGTCCTTCGAGACAAT
Found at i:4850418 original size:22 final size:22
Alignment explanation
Indices: 4850390--4850432 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
4850380 TACGGAAGTA
*
4850390 CTGTAGCAGGGGAATTGGTTCC
1 CTGTAGCAGGGAAATTGGTTCC
4850412 CTGTAGCAGGGAAATTGGTTC
1 CTGTAGCAGGGAAATTGGTTC
4850433 TCTATTTGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.21, C:0.16, G:0.35, T:0.28
Consensus pattern (22 bp):
CTGTAGCAGGGAAATTGGTTCC
Found at i:4857378 original size:16 final size:16
Alignment explanation
Indices: 4857357--4857389 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4857347 AATTCAATAA
4857357 AATTTACTTT-ATTTTT
1 AATTTA-TTTGATTTTT
4857373 AATTTATTTGATTTTT
1 AATTTATTTGATTTTT
4857389 A
1 A
4857390 TGCTTGTGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.19
16 13 0.81
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.67
Consensus pattern (16 bp):
AATTTATTTGATTTTT
Found at i:4857461 original size:2 final size:2
Alignment explanation
Indices: 4857454--4857478 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4857444 AAAGAGAAAC
4857454 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
4857479 TGAGAAAGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4857599 original size:47 final size:47
Alignment explanation
Indices: 4857520--4857612 Score: 168
Period size: 47 Copynumber: 2.0 Consensus size: 47
4857510 TTTAATAATT
* *
4857520 TGATGTAAGTACAAGTAAGTATTTGTTTAAAAATAATTCTCAACATC
1 TGATGTAAGTACAAGTAAGTATCTGTTCAAAAATAATTCTCAACATC
4857567 TGATGTAAGTACAAGTAAGTATCTGTTCAAAAATAATTCTCAACAT
1 TGATGTAAGTACAAGTAAGTATCTGTTCAAAAATAATTCTCAACAT
4857613 TTTAATATTA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.34
Consensus pattern (47 bp):
TGATGTAAGTACAAGTAAGTATCTGTTCAAAAATAATTCTCAACATC
Found at i:4860574 original size:31 final size:31
Alignment explanation
Indices: 4860536--4860599 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
4860526 GTAATTTTAC
4860536 TAGCATGATACTTCCATGTAGATATGTTTCA
1 TAGCATGATACTTCCATGTAGATATGTTTCA
4860567 TAGCATGATACTTCCATGTAGATATGTTTCA
1 TAGCATGATACTTCCATGTAGATATGTTTCA
4860598 TA
1 TA
4860600 TATAAGTGGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.39
Consensus pattern (31 bp):
TAGCATGATACTTCCATGTAGATATGTTTCA
Found at i:4863551 original size:19 final size:19
Alignment explanation
Indices: 4863527--4863565 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
4863517 CAACACGTGT
4863527 GAGTTGAGGTTTTCATTGG
1 GAGTTGAGGTTTTCATTGG
*
4863546 GAGTTGAGGTTTTCTTTGG
1 GAGTTGAGGTTTTCATTGG
4863565 G
1 G
4863566 TGTTCAAGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.13, C:0.05, G:0.38, T:0.44
Consensus pattern (19 bp):
GAGTTGAGGTTTTCATTGG
Found at i:4865488 original size:14 final size:15
Alignment explanation
Indices: 4865460--4865492 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
4865450 ATAGAGTCTC
4865460 ATATCTCATTATCAT
1 ATATCTCATTATCAT
4865475 ATATCTCA-TATCAT
1 ATATCTCATTATCAT
4865489 ATAT
1 ATAT
4865493 TCACATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.36, C:0.18, G:0.00, T:0.45
Consensus pattern (15 bp):
ATATCTCATTATCAT
Found at i:4869836 original size:57 final size:56
Alignment explanation
Indices: 4869757--4869907 Score: 178
Period size: 56 Copynumber: 2.7 Consensus size: 56
4869747 TTAATACTTC
* ** **
4869757 CAAGAAATAAATTCAACGATTTATTTCTTTTTACAAAGTAGAATCATACTTGATTCT
1 CAAGAAATAAATTCAACAATTTATTTC-TTTTACAAAACAGAATCATACAAGATTCT
* *
4869814 CAAGAAATAAATTCAACTATTTAATTCTTTTACAAAACAGAATCATACAAGATTCT
1 CAAGAAATAAATTCAACAATTTATTTCTTTTACAAAACAGAATCATACAAGATTCT
* * *
4869870 -ATAAAAATAAATTTAACAATTTATTTCCTTCTACAAAA
1 CA-AGAAATAAATTCAACAATTTATTT-CTTTTACAAAA
4869908 TGAAATTGTT
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
55 1 0.01
56 45 0.56
57 35 0.43
ACGTcount: A:0.44, C:0.15, G:0.05, T:0.36
Consensus pattern (56 bp):
CAAGAAATAAATTCAACAATTTATTTCTTTTACAAAACAGAATCATACAAGATTCT
Found at i:4870009 original size:58 final size:56
Alignment explanation
Indices: 4869761--4870021 Score: 185
Period size: 58 Copynumber: 4.6 Consensus size: 56
4869751 TACTTCCAAG
* * * * *
4869761 AAATAAATTCAACGATTTATTTCTTTTTACAAAGTAGAATCATACT-TGATTCTCAAG
1 AAATAAATTCAAAGATTTATTTCCTTTTACAAACTAGAATCATA-TAAGATTCT-AAA
** * *
4869818 AAATAAATTCAACTATTTAATT-CTTTTACAAAAC-AGAATCATACAAGATTCTATAA
1 AAATAAATTCAAAGATTTATTTCCTTTTAC-AAACTAGAATCATATAAGATTCTA-AA
* * * **
4869874 AAATAAATTTAACA-ATTTATTTCCTTCTACAAAAT-GAAATTGT-TCAAGATTTCTAAGA
1 AAATAAATTCAA-AGATTTATTTCCTTTTACAAACTAG-AATCATAT-AAGA-TTCTAA-A
** * * * *
4869932 AAATAAATTTGATGTTTTATTTCCATTTACAAACTAGAATCATATACGATTCATAGAA
1 AAATAAATTCAAAGATTTATTTCCTTTTACAAACTAGAATCATATAAGATTC-TA-AA
*
4869990 AAATAAATTCAAAGATTTATTTCCGTTT-CAAA
1 AAATAAATTCAAAGATTTATTTCCTTTTACAAA
4870022 ATTAAAGTCA
Statistics
Matches: 160, Mismatches: 29, Indels: 30
0.73 0.13 0.14
Matches are distributed among these distances:
55 1 0.01
56 44 0.28
57 45 0.28
58 67 0.42
59 3 0.02
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (56 bp):
AAATAAATTCAAAGATTTATTTCCTTTTACAAACTAGAATCATATAAGATTCTAAA
Found at i:4873637 original size:41 final size:41
Alignment explanation
Indices: 4873403--4873737 Score: 347
Period size: 41 Copynumber: 8.2 Consensus size: 41
4873393 CGTTTGTAGC
* * *
4873403 GGCGTTTTTAAAACAAACGCCGCTAAAGACTTC-TACTATAGC
1 GGCGTTTTT-ATACAAACGCCGCTAAAGAC-TCGTACTTTAGT
* * * * * *
4873445 GTCGTTTTTATAAAAACGTCGCTAAATAAT-GTAATTTAGT
1 GGCGTTTTTATACAAACGCCGCTAAAGACTCGTACTTTAGT
* * *
4873485 GGCGTTTTTATACAAACGCCGCTAAAGTCT-ATAATTTAGT
1 GGCGTTTTTATACAAACGCCGCTAAAGACTCGTACTTTAGT
* * * * **
4873525 GGCATTTTGATATAAACGCCGCTATAGACTTTTACTTTAGT
1 GGCGTTTTTATACAAACGCCGCTAAAGACTCGTACTTTAGT
* * *
4873566 GGCGTTTTTTATACAAACGCCACTATAGACTCATGA-TTTAGT
1 GGCG-TTTTTATACAAACGCCGCTAAAGACTCGT-ACTTTAGT
*
4873608 GGCGTTTTTATAAAAACGCCGCTAAAGACTCGTACTTTAGT
1 GGCGTTTTTATACAAACGCCGCTAAAGACTCGTACTTTAGT
* * * *
4873649 GGTGTTTTTATACAAGCGTCGCTATAGACTCGTGA-TTTAGT
1 GGCGTTTTTATACAAACGCCGCTAAAGACTCGT-ACTTTAGT
4873690 GGCGTTTTTATACAAACGCCGCTAAAGACTCGTACTTTAGT
1 GGCGTTTTTATACAAACGCCGCTAAAGACTCGTACTTTAGT
*
4873731 GGTGTTT
1 GGCGTTT
4873738 GTGTTTACAA
Statistics
Matches: 243, Mismatches: 43, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
40 67 0.28
41 132 0.54
42 43 0.18
43 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (41 bp):
GGCGTTTTTATACAAACGCCGCTAAAGACTCGTACTTTAGT
Found at i:4875030 original size:21 final size:21
Alignment explanation
Indices: 4875004--4875045 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
4874994 AACAAAGGCT
4875004 CGGTGCTGCCGGCTATAACAC
1 CGGTGCTGCCGGCTATAACAC
4875025 CGGTGCTGCCGGCTATAACAC
1 CGGTGCTGCCGGCTATAACAC
4875046 ATTTAAGCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.33, G:0.29, T:0.19
Consensus pattern (21 bp):
CGGTGCTGCCGGCTATAACAC
Found at i:4876458 original size:43 final size:43
Alignment explanation
Indices: 4876436--4876651 Score: 319
Period size: 43 Copynumber: 5.1 Consensus size: 43
4876426 ACAAATGCCA
*
4876436 CTAAATACACAGTCAATAGCGGCGTTTGTAAAGAAAAACGTCG
1 CTAAATACACAGTCAATAGCGGCGTTTGTAAAGAAAAACGCCG
* **
4876479 CTAAATAGACAGTCAATAGCGGCGTTTGTAAAGAAAAATACCG
1 CTAAATACACAGTCAATAGCGGCGTTTGTAAAGAAAAACGCCG
*
4876522 CTAAATACACAGACAATAGCGGCGTTTGTAAAGAAAAACGCCG
1 CTAAATACACAGTCAATAGCGGCGTTTGTAAAGAAAAACGCCG
* * * *
4876565 CTAAATATAAAGTCAATAGCGGTGTTTGT-TA-AAAAACGCCG
1 CTAAATACACAGTCAATAGCGGCGTTTGTAAAGAAAAACGCCG
* *
4876606 CTAAATACACAGTCAATAGCGACGTTTGTAAAGACAAACGCCG
1 CTAAATACACAGTCAATAGCGGCGTTTGTAAAGAAAAACGCCG
4876649 CTA
1 CTA
4876652 TATGTCTTGA
Statistics
Matches: 152, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
41 35 0.23
42 2 0.01
43 115 0.76
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.21
Consensus pattern (43 bp):
CTAAATACACAGTCAATAGCGGCGTTTGTAAAGAAAAACGCCG
Found at i:4882996 original size:35 final size:35
Alignment explanation
Indices: 4882950--4883040 Score: 121
Period size: 35 Copynumber: 2.6 Consensus size: 35
4882940 CTTAGGTCCG
4882950 TAAGGAATTACCAGCTGATCGGTGCTAAACCTATA
1 TAAGGAATTACCAGCTGATCGGTGCTAAACCTATA
* *
4882985 TAAGGAATTACCAG-TCCATCGGTGCTGAACCTATA
1 TAAGGAATTACCAGCT-GATCGGTGCTAAACCTATA
* *
4883020 TAAGAAATTAACAGCTTGATC
1 TAAGGAATTACCAGC-TGATC
4883041 AAAGCTGAAC
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
34 1 0.02
35 43 0.90
36 3 0.06
37 1 0.02
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (35 bp):
TAAGGAATTACCAGCTGATCGGTGCTAAACCTATA
Found at i:4888003 original size:14 final size:14
Alignment explanation
Indices: 4887986--4888012 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4887976 CCTGACCCGA
4887986 CTGAGTCAACTCAG
1 CTGAGTCAACTCAG
4888000 CTGAGTCAACTCA
1 CTGAGTCAACTCA
4888013 CTGGGTTAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.22
Consensus pattern (14 bp):
CTGAGTCAACTCAG
Found at i:4892018 original size:34 final size:35
Alignment explanation
Indices: 4891968--4892043 Score: 109
Period size: 34 Copynumber: 2.2 Consensus size: 35
4891958 GGTCCGTAAA
* *
4891968 GAATTACCAGTTGATCGATGCT-AACCTATATAAG
1 GAATTACAAGTCGATCGATGCTGAACCTATATAAG
*
4892002 GAATTACAAGTCGATCGGTGCTGAACCTATATAAG
1 GAATTACAAGTCGATCGATGCTGAACCTATATAAG
*
4892037 AAATTAC
1 GAATTAC
4892044 CAACTTGATC
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
34 19 0.51
35 18 0.49
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (35 bp):
GAATTACAAGTCGATCGATGCTGAACCTATATAAG
Found at i:4895204 original size:21 final size:20
Alignment explanation
Indices: 4895176--4895216 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
4895166 GGCTTGAGGC
4895176 ATTTAGGGATTTAGGGTTTA
1 ATTTAGGGATTTAGGGTTTA
*
4895196 ATTTGAGGGGTTTAGGGTTTA
1 ATTT-AGGGATTTAGGGTTTA
4895217 TAAATCAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.22, C:0.00, G:0.34, T:0.44
Consensus pattern (20 bp):
ATTTAGGGATTTAGGGTTTA
Found at i:4899888 original size:275 final size:276
Alignment explanation
Indices: 4899407--4900099 Score: 831
Period size: 275 Copynumber: 2.5 Consensus size: 276
4899397 TTTTGCATTC
* *
4899407 AGGAGATCTGATCAGTGGACGACATTGTTCCTTCGTGTTGAGGACGTCTAGTTGTATTTGGAGAT
1 AGGAGATCTGGTCAGTGGACGACATTGTTCCTTCGTGTTGAGGACGTCTAGTTGTTTTTGGAGAT
* * * *
4899472 AATTTGGACG-TAACACGATTCCTTCGCGTTGAGGAAGTCTGATTGTCTGAGGATGACACTTCTC
66 AATTTGGA-GACAACACGGTTCCTTCGCGTTGAGGAAGTATGATTGTCTGAGGATGACACTACTC
* * * * * * * * * *
4899536 CTTCGCGTTGAGGATATTTGGTTGGTAGACAACATTGTTCCTTCTTGTTGAGGACGTCTAGTCTT
130 ATTCGCATTGAGGAGATCTAGTTGGTAGACAACATTGTTCCTTCGTATTGAGGACATATAGTCGT
*
4899601 ATTTCAATAATTTGGAGA-AAAATAG-TCCATTCACATTAAGGAAATCTGATTACCTGAGGATGA
195 ATTTCAATAATTTGGAGACAAAACAGTTCC-TTCACATTAAGGAAATCTGATTACCTGAGGATGA
4899664 CACTTCTCCTTCACGTTG
259 CACTTCTCCTTCACGTTG
* * * * *
4899682 CGGAGATATGGTCAGCGGACGAGATTGTTCCTTCGTGTTGAGGACGTTTAGTTGTTTTTGGAGAT
1 AGGAGATCTGGTCAGTGGACGACATTGTTCCTTCGTGTTGAGGACGTCTAGTTGTTTTTGGAGAT
* * * * *
4899747 AGTTTGGAGACAACACGGTTCCTTCGCATTGAGGAACTATGATTGTCTAAGGATGACACTAGTCA
66 AATTTGGAGACAACACGGTTCCTTCGCGTTGAGGAAGTATGATTGTCTGAGGATGACACTACTCA
* * **
4899812 TTTGCATTGAGGAGGTCTAGTTGGTAGATGACATTGTTCCTTCGTATTGAGGACATATAGTCGTA
131 TTCGCATTGAGGAGATCTAGTTGGTAGACAACATTGTTCCTTCGTATTGAGGACATATAGTCGTA
** * * *** * * ***
4899877 TTTTGATAATTTGGAGACAACACGGTTCCTTTGTATTGAGGAAGTCTGATTGTTTGAGGATGACA
196 TTTCAATAATTTGGAGACAAAACAGTTCCTTCACATTAAGGAAATCTGATTACCTGAGGATGACA
**
4899942 CTTCTCCTTCGTGTTG
261 CTTCTCCTTCACGTTG
* * **
4899958 AGGAGATCTGGTCGGTGGACGACATTGTTCCTTCGTGTTGATGACGTCTAGTCATTTTT--AGAT
1 AGGAGATCTGGTCAGTGGACGACATTGTTCCTTCGTGTTGAGGACGTCTAGTTGTTTTTGGAGAT
* * * *
4900021 AATTTGGAGACAACACGGTTCCTTCGTGTTAAGGAAGTATGATTGTATGAGGATGACACTGCTTC
66 AATTTGGAGACAACACGGTTCCTTCGCGTTGAGGAAGTATGATTGTCTGAGGATGACACTAC-TC
*
4900086 -TTCGCGTTGAGGAG
130 ATTCGCATTGAGGAG
4900100 GTATGGTTGT
Statistics
Matches: 349, Mismatches: 65, Indels: 9
0.83 0.15 0.02
Matches are distributed among these distances:
274 70 0.20
275 180 0.52
276 96 0.28
277 3 0.01
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.34
Consensus pattern (276 bp):
AGGAGATCTGGTCAGTGGACGACATTGTTCCTTCGTGTTGAGGACGTCTAGTTGTTTTTGGAGAT
AATTTGGAGACAACACGGTTCCTTCGCGTTGAGGAAGTATGATTGTCTGAGGATGACACTACTCA
TTCGCATTGAGGAGATCTAGTTGGTAGACAACATTGTTCCTTCGTATTGAGGACATATAGTCGTA
TTTCAATAATTTGGAGACAAAACAGTTCCTTCACATTAAGGAAATCTGATTACCTGAGGATGACA
CTTCTCCTTCACGTTG
Found at i:4899928 original size:137 final size:137
Alignment explanation
Indices: 4899352--4900099 Score: 585
Period size: 137 Copynumber: 5.4 Consensus size: 137
4899342 AAAGACAACG
* * * * * * * * * * *
4899352 TCCTTCGTGTTGAGGAAGTTTGGTTATCTGAGGATGAAATTGCTCTTTTGCATTCAGGAGATCT-
1 TCCTTCGTATTGAGGAAGTATGATTGTATGAGGATGACACTACTCATTCGCATTGAGGAGATCTA
* * * * *
4899416 GATCAGTGGACGACATTGTTCCTTCGTGTTGAGGACGTCTAGTTGTATTTGGAGATAATTTGGAC
66 G-TCGGTAGACGACATTGTTCCTTCGTGTTGAGGACGTATAGTCGT-TTT-TAGATAATTTGGA-
* *
4899481 G-TAACACGAT
127 GACAACACGGT
** * * * * * * * *
4899491 TCCTTCGCGTTGAGGAAGTCTGATTGTCTGAGGATGACACTTCTCCTTCGCGTTGAGGATATTTG
1 TCCTTCGTATTGAGGAAGTATGATTGTATGAGGATGACACTACTCATTCGCATTGAGGAGATCTA
* * * *
4899556 GTTGGTAGACAACATTGTTCCTTCTTGTTGAGGACGTCTAGTC-TTATTTCA-ATAATTTGGAGA
66 GTCGGTAGACGACATTGTTCCTTCGTGTTGAGGACGTATAGTCGTT-TTT-AGATAATTTGGAGA
* **
4899619 -AAAATAG-
129 CAACACGGT
** * * * *** * * * * * *
4899626 TCCATTCACATTAAGGAAATCTGATTACCTGAGGATGACACTTCTCCTTCACGTTGCGGAGATAT
1 TCC-TTCGTATTGAGGAAGTATGATTGTATGAGGATGACACTACTCATTCGCATTGAGGAGATCT
* * ** * * * *
4899691 GGTCAGCGGACGAGATTGTTCCTTCGTGTTGAGGACGTTTAGTTGTTTTTGGAGATAGTTTGGAG
65 AGTCGGTAGACGACATTGTTCCTTCGTGTTGAGGACGTATAGTCGTTTTT--AGATAATTTGGAG
4899756 ACAACACGGT
128 ACAACACGGT
* * * * * * *
4899766 TCCTTCGCATTGAGGAACTATGATTGTCTAAGGATGACACTAGTCATTTGCATTGAGGAGGTCTA
1 TCCTTCGTATTGAGGAAGTATGATTGTATGAGGATGACACTACTCATTCGCATTGAGGAGATCTA
* * * *
4899831 GTTGGTAGATGACATTGTTCCTTCGTATTGAGGACATATAGTCGTATTTT-GATAATTTGGAGAC
66 GTCGGTAGACGACATTGTTCCTTCGTGTTGAGGACGTATAGTCGT-TTTTAGATAATTTGGAGAC
4899895 AACACGGT
130 AACACGGT
* * * * * ** *
4899903 TCCTTTGTATTGAGGAAGTCTGATTGTTTGAGGATGACACTTCTCCTTCGTGTTGAGGAGATCTG
1 TCCTTCGTATTGAGGAAGTATGATTGTATGAGGATGACACTACTCATTCGCATTGAGGAGATCTA
* * * *
4899968 GTCGGTGGACGACATTGTTCCTTCGTGTTGATGACGTCTAGTCATTTTTAGATAATTTGGAGACA
66 GTCGGTAGACGACATTGTTCCTTCGTGTTGAGGACGTATAGTCGTTTTTAGATAATTTGGAGACA
4900033 ACACGGT
131 ACACGGT
* * * *
4900040 TCCTTCGTGTTAAGGAAGTATGATTGTATGAGGATGACACTGCTTC-TTCGCGTTGAGGAG
1 TCCTTCGTATTGAGGAAGTATGATTGTATGAGGATGACACTAC-TCATTCGCATTGAGGAG
4900100 GTATGGTTGT
Statistics
Matches: 491, Mismatches: 105, Indels: 28
0.79 0.17 0.04
Matches are distributed among these distances:
135 3 0.01
136 97 0.20
137 195 0.40
138 17 0.03
139 171 0.35
140 8 0.02
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.35
Consensus pattern (137 bp):
TCCTTCGTATTGAGGAAGTATGATTGTATGAGGATGACACTACTCATTCGCATTGAGGAGATCTA
GTCGGTAGACGACATTGTTCCTTCGTGTTGAGGACGTATAGTCGTTTTTAGATAATTTGGAGACA
ACACGGT
Found at i:4900559 original size:101 final size:100
Alignment explanation
Indices: 4900441--4900909 Score: 466
Period size: 101 Copynumber: 4.8 Consensus size: 100
4900431 TTTTTTTGAT
* * * *
4900441 TGAAACATTTTCAAAATTTGTGTTTCAAAGGAAAATTATCTCAAGCGAGACGAAACTTTTTTTAG
1 TGAAACAATTTCAAAATTTGTGTTTCAAAGGAAAACTGTCTCAAGCGAGATGAAA-TTTTTTTAG
*
4900506 GAAAACAATCTCAAGTGAGATCAATTTTGTTTCAAT
65 GAAAACAATCTCAAGTGAGATCAATTTTGTTTCAAG
* ** *
4900542 TGAAACAACTTCAAAATTTGTGTTTTGAAGGAAAACTGTCTCAAGCGAGATGAAA----TTT-GT
1 TGAAACAATTTCAAAATTTGTGTTTCAAAGGAAAACTGTCTCAAGCGAGATGAAATTTTTTTAGG
* *
4900602 AAAA-AATCTCAAGTGAGATCAATTTTGTTGCAGG
66 AAAACAATCTCAAGTGAGATCAATTTTGTTTCAAG
* * *
4900636 TGTAAA-AATTTCAAAA------TTT--ATGGAAAACCGTCTCAAGTGAGATGAAATTTGTTTT-
1 TG-AAACAATTTCAAAATTTGTGTTTCAAAGGAAAACTGTCTCAAGCGAGATGAAATTT-TTTTA
* *
4900691 GTGGAAACAATCTCAAGTGAGATCAATGTTGTTTCAAG
64 G-GAAAACAATCTCAAGTGAGATCAATTTTGTTTCAAG
** * * *
4900729 TGAAACAATTTCAAAATTTGTGTTTTGAGGGAGAACTGTCTCAAGCGAGATGAATTTTTTTTAGA
1 TGAAACAATTTCAAAATTTGTGTTTCAAAGGAAAACTGTCTCAAGCGAGATGAAATTTTTTTAG-
*
4900794 GAAAACAATCTCAAGTAAGATCAATTTTGTTTCAAG
65 GAAAACAATCTCAAGTGAGATCAATTTTGTTTCAAG
* * *** * * * * *
4900830 TGAAATAAATTCAAAATTTACATCTCAAGGGAAAACTATCTCAAGCGAGACGAATTTTGTTTATA
1 TGAAACAATTTCAAAATTTGTGTTTCAAAGGAAAACTGTCTCAAGCGAGATGAAATTT-TTT-TA
*
4900895 GGAAAATAATCTCAA
64 GGAAAACAATCTCAA
4900910 AGGTTTATGT
Statistics
Matches: 307, Mismatches: 41, Indels: 39
0.79 0.11 0.10
Matches are distributed among these distances:
86 25 0.08
88 3 0.01
91 4 0.01
92 6 0.02
93 39 0.13
94 38 0.12
95 8 0.03
96 3 0.01
99 3 0.01
100 4 0.01
101 155 0.50
102 16 0.05
103 3 0.01
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (100 bp):
TGAAACAATTTCAAAATTTGTGTTTCAAAGGAAAACTGTCTCAAGCGAGATGAAATTTTTTTAGG
AAAACAATCTCAAGTGAGATCAATTTTGTTTCAAG
Found at i:4900962 original size:36 final size:35
Alignment explanation
Indices: 4900919--4901053 Score: 148
Period size: 36 Copynumber: 3.8 Consensus size: 35
4900909 AAGGTTTATG
*
4900919 TTTCAAGAGAAATTGTCTCAAGTGGGACAAAATTTA
1 TTTCAAGAGAAATTGTCTCAAG-GAGACAAAATTTA
* * *
4900955 TTTCAAGAGAAATTGTCTCAAGG-GAGATAATTTC
1 TTTCAAGAGAAATTGTCTCAAGGAGACAAAATTTA
* * *
4900989 TTTCAAGAAAAATTATCTCAAGGGAGACAAAATTTG
1 TTTCAAGAGAAATTGTCTCAA-GGAGACAAAATTTA
* *
4901025 TTTCAAAAGAAA-TGTATCAATGGAGACAA
1 TTTCAAGAGAAATTGTCTCAA-GGAGACAA
4901054 GCAGTTTTCT
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
34 27 0.32
35 17 0.20
36 40 0.48
ACGTcount: A:0.41, C:0.11, G:0.19, T:0.29
Consensus pattern (35 bp):
TTTCAAGAGAAATTGTCTCAAGGAGACAAAATTTA
Found at i:4901002 original size:70 final size:69
Alignment explanation
Indices: 4900919--4901050 Score: 185
Period size: 70 Copynumber: 1.9 Consensus size: 69
4900909 AAGGTTTATG
* * * *
4900919 TTTCAAGAGAAATTGTCTCAAGTGG-GACAAAATTTATTTCAAGAGAAATTGTCTCAAGGGAGAT
1 TTTCAAGAAAAATTATCTCAAG-GGAGACAAAATTTATTTCAAAAGAAA-TGTATCAAGGGAGAT
4900983 AATTTC
64 AATTTC
* *
4900989 TTTCAAGAAAAATTATCTCAAGGGAGACAAAATTTGTTTCAAAAGAAATGTATCAATGGAGA
1 TTTCAAGAAAAATTATCTCAAGGGAGACAAAATTTATTTCAAAAGAAATGTATCAAGGGAGA
4901051 CAAGCAGTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
69 14 0.25
70 41 0.75
ACGTcount: A:0.41, C:0.11, G:0.19, T:0.30
Consensus pattern (69 bp):
TTTCAAGAAAAATTATCTCAAGGGAGACAAAATTTATTTCAAAAGAAATGTATCAAGGGAGATAA
TTTC
Found at i:4904564 original size:78 final size:78
Alignment explanation
Indices: 4904433--4904577 Score: 186
Period size: 77 Copynumber: 1.9 Consensus size: 78
4904423 AATATGATTT
** *
4904433 AATTAATTCAAATTAAATATACATTAAAGACTTATAATCTGAATTACAATC-TTTAATGTTTGTT
1 AATTAATTCAAATTAAATATACATTAAAGACTTATAATCAAAATTACAATCTTTTAATGTTTATT
4904497 TAAACTCTTATTA
66 TAAACTCTTATTA
* * * * *
4904510 AATTATTTCGAATTAAATAT-CGATTAAAAGAGTTGTAATCAAAATTACATTCTTTTAATGTTTA
1 AATTAATTCAAATTAAATATAC-ATT-AAAGACTTATAATCAAAATTACAATCTTTTAATGTTTA
4904574 TTTA
64 TTTA
4904578 CTATATTCAG
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
76 1 0.02
77 21 0.37
78 21 0.37
79 14 0.25
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.43
Consensus pattern (78 bp):
AATTAATTCAAATTAAATATACATTAAAGACTTATAATCAAAATTACAATCTTTTAATGTTTATT
TAAACTCTTATTA
Found at i:4910862 original size:20 final size:20
Alignment explanation
Indices: 4910837--4910878 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
4910827 AAATTTGTAT
*
4910837 GGGGGTATCGATACCATCTG
1 GGGGGTACCGATACCATCTG
4910857 GGGGGTACCGATACCATCTG
1 GGGGGTACCGATACCATCTG
4910877 GG
1 GG
4910879 CAATCTAGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.19, C:0.21, G:0.38, T:0.21
Consensus pattern (20 bp):
GGGGGTACCGATACCATCTG
Found at i:4911613 original size:16 final size:16
Alignment explanation
Indices: 4911592--4911629 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
4911582 AAACAAATTT
4911592 AAACATAACAATCCAA
1 AAACATAACAATCCAA
*
4911608 AAACATATCAATCCAA
1 AAACATAACAATCCAA
*
4911624 CAACAT
1 AAACAT
4911630 CAAAGTGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.58, C:0.26, G:0.00, T:0.16
Consensus pattern (16 bp):
AAACATAACAATCCAA
Found at i:4912742 original size:30 final size:30
Alignment explanation
Indices: 4912706--4912767 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
4912696 TCTTGAAGAG
4912706 TAGGAAGATATCTAAAGTTTATTGCATTCA
1 TAGGAAGATATCTAAAGTTTATTGCATTCA
*
4912736 TAGGAAGATATCTACAGTTTATTGCATTCA
1 TAGGAAGATATCTAAAGTTTATTGCATTCA
4912766 TA
1 TA
4912768 CCTCGAAGAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.37
Consensus pattern (30 bp):
TAGGAAGATATCTAAAGTTTATTGCATTCA
Found at i:4913612 original size:21 final size:22
Alignment explanation
Indices: 4913585--4913641 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 22
4913575 AACTCGTGAA
*
4913585 GGGTATCGATACCC-TC-ATGG
1 GGGTATCGATACCCATCAAAGG
*
4913605 GGGTTATCGGTACCCATTCAAAGG
1 GGG-TATCGATACCCA-TCAAAGG
4913629 GGGTATCGATACC
1 GGGTATCGATACC
4913642 TAGCTCGCAG
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 3 0.10
21 10 0.33
23 11 0.37
24 6 0.20
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.25
Consensus pattern (22 bp):
GGGTATCGATACCCATCAAAGG
Found at i:4914891 original size:13 final size:13
Alignment explanation
Indices: 4914873--4914901 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
4914863 TAATAAATCG
4914873 TTACCTTTTCTCT
1 TTACCTTTTCTCT
4914886 TTACCTTTTCTCT
1 TTACCTTTTCTCT
4914899 TTA
1 TTA
4914902 AAAATAATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.10, C:0.28, G:0.00, T:0.62
Consensus pattern (13 bp):
TTACCTTTTCTCT
Found at i:4920428 original size:17 final size:15
Alignment explanation
Indices: 4920406--4920463 Score: 61
Period size: 14 Copynumber: 3.9 Consensus size: 15
4920396 AAAGGGTTTA
4920406 AAAATAATGAAATTAAT
1 AAAATAAT-AAA-TAAT
4920423 AAAATAATAAA-AAT
1 AAAATAATAAATAAT
4920437 -AAATAATAAATAA-
1 AAAATAATAAATAAT
4920450 AATAA-AATAAATAA
1 AA-AATAATAAATAA
4920464 AGTAGAAGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
13 10 0.26
14 15 0.39
15 2 0.05
16 3 0.08
17 8 0.21
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (15 bp):
AAAATAATAAATAAT
Found at i:4920443 original size:30 final size:31
Alignment explanation
Indices: 4920407--4920464 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
4920397 AAGGGTTTAA
*
4920407 AAATAATGAAAT-TAATAAAAT-AATAAAAAT
1 AAATAAT-AAATAAAATAAAATAAATAAAAAT
4920437 AAATAATAAATAAAATAAAATAAATAAA
1 AAATAATAAATAAAATAAAATAAATAAA
4920465 GTAGAAGAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 4 0.16
30 15 0.60
31 6 0.24
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (31 bp):
AAATAATAAATAAAATAAAATAAATAAAAAT
Found at i:4920445 original size:21 final size:21
Alignment explanation
Indices: 4920419--4920463 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
4920409 ATAATGAAAT
*
4920419 TAATAAA-ATAATAAAAATAAA
1 TAATAAATAAAAT-AAAATAAA
4920440 TAATAAATAAAATAAAATAAA
1 TAATAAATAAAATAAAATAAA
4920461 TAA
1 TAA
4920464 AGTAGAAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (21 bp):
TAATAAATAAAATAAAATAAA
Found at i:4920453 original size:9 final size:9
Alignment explanation
Indices: 4920406--4920464 Score: 50
Period size: 9 Copynumber: 6.3 Consensus size: 9
4920396 AAAGGGTTTA
4920406 AAAAT-AAT
1 AAAATAAAT
* *
4920414 GAAATTAAT
1 AAAATAAAT
4920423 AAAAT-AAT
1 AAAATAAAT
4920431 AAAAATAAAT
1 -AAAATAAAT
4920441 AATAAATAAAAT
1 -A-AAAT-AAAT
4920453 AAAATAAAT
1 AAAATAAAT
4920462 AAA
1 AAA
4920465 GTAGAAGAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
8 7 0.16
9 19 0.43
10 9 0.20
11 5 0.11
12 4 0.09
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.24
Consensus pattern (9 bp):
AAAATAAAT
Found at i:4927045 original size:15 final size:16
Alignment explanation
Indices: 4927011--4927045 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
4927001 ATTTCGGTTA
4927011 TTTAAATTTATGCACT
1 TTTAAATTTATGCACT
4927027 TTTAAATTTATGC-CT
1 TTTAAATTTATGCACT
4927042 TTTA
1 TTTA
4927046 TTTTCTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.29, C:0.11, G:0.06, T:0.54
Consensus pattern (16 bp):
TTTAAATTTATGCACT
Found at i:4932781 original size:3 final size:3
Alignment explanation
Indices: 4932773--4932802 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
4932763 ACAGTAATTC
4932773 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
4932803 TTGTTCTCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:4935077 original size:13 final size:13
Alignment explanation
Indices: 4935059--4935092 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
4935049 AGTTTTGTGG
4935059 AAAGAAAATAATC
1 AAAGAAAATAATC
4935072 AAAGAAAATAATC
1 AAAGAAAATAATC
4935085 AAAGAAAA
1 AAAGAAAA
4935093 GGGGAAACGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.74, C:0.06, G:0.09, T:0.12
Consensus pattern (13 bp):
AAAGAAAATAATC
Found at i:4936231 original size:25 final size:25
Alignment explanation
Indices: 4936189--4936236 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
4936179 GGTTAGTACC
*
4936189 TCAATTATCATTTATTTTGTTTTGG
1 TCAATTATCATTTATTTTATTTTGG
*
4936214 TCAATTAATTATTT-TTTTATTTT
1 TCAATT-ATCATTTATTTTATTTT
4936237 AAAATCATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 14 0.70
26 6 0.30
ACGTcount: A:0.23, C:0.06, G:0.06, T:0.65
Consensus pattern (25 bp):
TCAATTATCATTTATTTTATTTTGG
Found at i:4937795 original size:17 final size:17
Alignment explanation
Indices: 4937777--4937810 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
4937767 AACTTACGAT
4937777 AAATCTTAAATTAAAATA
1 AAAT-TTAAATTAAAATA
*
4937795 AAATTTAGATTAAAAT
1 AAATTTAAATTAAAAT
4937811 TTTATATTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (17 bp):
AAATTTAAATTAAAATA
Found at i:4938202 original size:45 final size:44
Alignment explanation
Indices: 4938153--4938270 Score: 107
Period size: 45 Copynumber: 2.7 Consensus size: 44
4938143 TTAGGTTGTA
*
4938153 AAATAAAAATAAATAT-GAAAAAAGGAAAAAATATAATAATAAAAT
1 AAATAAAAATAAATATAGAAAAAA--AAAAAATATAATAAAAAAAT
* * * *
4938198 AAATAAAATATATAA-ATAGAGATAAATAAAATTTAATAAAAAAAT
1 AAATAAAA-ATA-AATATAGAAAAAAAAAAAATATAATAAAAAAAT
* * *
4938243 -AATAAAAATAAATAAATAAAAATAAAAA
1 AAATAAAAATAAATATAGAAAAAAAAAAA
4938271 GGTTAAATAT
Statistics
Matches: 58, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
42 2 0.03
43 12 0.21
44 7 0.12
45 25 0.43
46 5 0.09
47 7 0.12
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (44 bp):
AAATAAAAATAAATATAGAAAAAAAAAAAATATAATAAAAAAAT
Found at i:4938207 original size:14 final size:14
Alignment explanation
Indices: 4938185--4938268 Score: 52
Period size: 14 Copynumber: 6.1 Consensus size: 14
4938175 AGGAAAAAAT
4938185 ATAATAATAAAATAA
1 ATAA-AATAAAATAA
*
4938200 ATAAAAT-ATATAA
1 ATAAAATAAAATAA
*
4938213 ATAGAGAT-AAATAAA
1 ATA-AAATAAAAT-AA
**
4938228 ATTTAATAAAA-AA
1 ATAAAATAAAATAA
*
4938241 ATAATA-AAAATAA
1 ATAAAATAAAATAA
4938254 AT-AAATAAAAATAA
1 ATAAAAT-AAAATAA
4938268 A
1 A
4938269 AAGGTTAAAT
Statistics
Matches: 53, Mismatches: 10, Indels: 13
0.70 0.13 0.17
Matches are distributed among these distances:
12 6 0.11
13 17 0.32
14 19 0.36
15 11 0.21
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (14 bp):
ATAAAATAAAATAA
Found at i:4938259 original size:17 final size:17
Alignment explanation
Indices: 4938181--4938261 Score: 60
Period size: 17 Copynumber: 4.6 Consensus size: 17
4938171 AAAAAGGAAA
4938181 AAATATAATAAT-AAAAT
1 AAATA-AATAATAAAAAT
*
4938198 AAATAAA-ATATATAAAT
1 AAATAAATA-ATAAAAAT
*
4938215 AGAGATAAATAA-AATTTAAT
1 A-A-ATAAATAATAA--AAAT
*
4938235 AAAAAAATAATAAAAAT
1 AAATAAATAATAAAAAT
4938252 AAATAAATAA
1 AAATAAATAA
4938262 AAATAAAAAG
Statistics
Matches: 50, Mismatches: 6, Indels: 16
0.69 0.08 0.22
Matches are distributed among these distances:
15 1 0.02
16 4 0.08
17 22 0.44
18 9 0.18
19 9 0.18
20 5 0.10
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (17 bp):
AAATAAATAATAAAAAT
Found at i:4938654 original size:2 final size:2
Alignment explanation
Indices: 4938638--4938737 Score: 184
Period size: 2 Copynumber: 50.0 Consensus size: 2
4938628 GCTTCATTTT
4938638 GA GA CGA GA GA -A GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA -GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
4938680 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
4938722 GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA
4938738 AAATTCTCTC
Statistics
Matches: 96, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.01
2 93 0.97
3 2 0.02
ACGTcount: A:0.50, C:0.01, G:0.49, T:0.00
Consensus pattern (2 bp):
GA
Found at i:4939563 original size:37 final size:35
Alignment explanation
Indices: 4939522--4939954 Score: 300
Period size: 37 Copynumber: 11.7 Consensus size: 35
4939512 AATAATAATA
4939522 ATATATATATTTTCAAAAAATATTTTAAAACTATATT
1 ATATATATATTTTC-AAAAATATTTTAAAACTATA-T
*
4939559 ATATATATATATATATTAAAAA-AGTTTTCAAAA-T-TAT
1 ATATATATAT-T-T-TCAAAAATA-TTTT-AAAACTATAT
* *
4939596 ATATCATATAGTTTTCAATAATGTTTTAAAACTATAT
1 ATAT-ATATA-TTTTCAAAAATATTTTAAAACTATAT
* *
4939633 ATTATATATGTTTTCAAAAAAATGTTTTTAAAACTATAT
1 A-TATATATATTTTC--AAAAAT-ATTTTAAAACTATAT
*
4939672 AT-TATATAAGTTTTCAAAAATGTTTTCAAAACTATAT
1 ATATATAT-A-TTTTCAAAAATATTTT-AAAACTATAT
*
4939709 AT-TATATAAGTTTTC-AAAATGATTTCAAAACTATAT
1 ATATATAT-A-TTTTCAAAAAT-ATTTTAAAACTATAT
* *
4939745 ATTATATAAGATTTTC-AAAATGATTTCAAAACTATAT
1 A-TATAT-ATATTTTCAAAAAT-ATTTTAAAACTATAT
*
4939782 AT-TATATAAGTTTTTC-AAAATGATTTCAAAACTATAT
1 ATATATAT-A--TTTTCAAAAAT-ATTTTAAAACTATAT
* *
4939819 AT-TATATAAGTTTT-TAAAATGTTTTCAAAAACTATAT
1 ATATATAT-A-TTTTCAAAAATATTTT--AAAACTATAT
* *
4939856 -TATATATATATTC-AAAATGTTTTCAAAAACTATAT
1 ATATATATATTTTCAAAAATATTTT--AAAACTATAT
4939891 ATTATATATATTTTC-AAAATATTTTCAAAAACTATAT
1 A-TATATATATTTTCAAAAATATTTT--AAAACTATAT
*
4939928 AATATATACATTTTCAAAAATCATTTT
1 -ATATATATATTTTCAAAAAT-ATTTT
4939955 CTAAAAAAAT
Statistics
Matches: 342, Mismatches: 20, Indels: 66
0.80 0.05 0.15
Matches are distributed among these distances:
34 1 0.00
35 36 0.11
36 47 0.14
37 186 0.54
38 29 0.08
39 38 0.11
40 5 0.01
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.44
Consensus pattern (35 bp):
ATATATATATTTTCAAAAATATTTTAAAACTATAT
Found at i:4939708 original size:74 final size:71
Alignment explanation
Indices: 4939558--4939946 Score: 435
Period size: 74 Copynumber: 5.3 Consensus size: 71
4939548 AAAACTATAT
* * * * * *
4939558 TATATATATATATATATTAAAAAAGTTTTCAAAATTATATATCATAT-AGTTTTCAATAATGTTT
1 TATAT-TATATATGTTTTCAAAATGTTTTCAAAACTATATATTATATAAGTTTTCAA-AATGTTT
4939622 T-AAAACTA
64 TCAAAAC-A
*
4939630 TATATTATATATGTTTTCAAAAAAATGTTTTTAAAACTATATATTATATAAGTTTTCAAAAATGT
1 TATATTATATATGTTTTC---AAAATGTTTTCAAAACTATATATTATATAAGTTTTC-AAAATGT
4939695 TTTCAAAACTA
62 TTTCAAAAC-A
* * *
4939706 TATATTATATAAGTTTTCAAAATGATTTCAAAACTATATATTATATAAGATTTTCAAAATGATTT
1 TATATTATATATGTTTTCAAAATGTTTTCAAAACTATATATTATATAAG-TTTTCAAAATGTTTT
4939771 CAAAACTA
65 CAAAAC-A
* * *
4939779 TATATTATATAAGTTTTTCAAAATGATTTCAAAACTATATATTATATAAGTTTTTAAAATGTTTT
1 TATATTATATATG-TTTTCAAAATGTTTTCAAAACTATATATTATATAAGTTTTCAAAATGTTTT
4939844 CAAAA-A
65 CAAAACA
* * *
4939850 CTATATTATATATATATTCAAAATGTTTTCAAAAACTATATATTATATATA-TTTTCAAAATATT
1 -TATATTATATATGTTTTCAAAATGTTTTC-AAAACTATATATTATATA-AGTTTTCAAAATGTT
4939914 TTCAAAAACTA
63 TTC-AAAAC-A
* **
4939925 TATAATATATACATTTTCAAAA
1 TATATTATATATGTTTTCAAAA
4939947 ATCATTTTCT
Statistics
Matches: 281, Mismatches: 22, Indels: 26
0.85 0.07 0.08
Matches are distributed among these distances:
71 25 0.09
72 48 0.17
73 82 0.29
74 84 0.30
75 16 0.06
76 26 0.09
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.44
Consensus pattern (71 bp):
TATATTATATATGTTTTCAAAATGTTTTCAAAACTATATATTATATAAGTTTTCAAAATGTTTTC
AAAACA
Found at i:4943513 original size:3 final size:3
Alignment explanation
Indices: 4943505--4943544 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
4943495 TAAACACACT
*
4943505 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-T TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
4943545 TTTTTTAACC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 1 0.03
3 33 0.97
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:4943838 original size:16 final size:16
Alignment explanation
Indices: 4943784--4943839 Score: 51
Period size: 16 Copynumber: 3.3 Consensus size: 16
4943774 AGGAACAAGT
4943784 TCTTCTCATTATGAAC
1 TCTTCTCATTATGAAC
* *
4943800 T-TTCTCCTTTATGATGAGT
1 TCTTCT-CATTATGA--A-C
4943819 TCTTCTCATTATGAAC
1 TCTTCTCATTATGAAC
4943835 TCTTC
1 TCTTC
4943840 ATTGGAAATG
Statistics
Matches: 31, Mismatches: 4, Indels: 10
0.69 0.09 0.22
Matches are distributed among these distances:
15 4 0.13
16 13 0.42
17 1 0.03
18 1 0.03
19 8 0.26
20 4 0.13
ACGTcount: A:0.20, C:0.23, G:0.09, T:0.48
Consensus pattern (16 bp):
TCTTCTCATTATGAAC
Found at i:4944082 original size:91 final size:92
Alignment explanation
Indices: 4943916--4944082 Score: 275
Period size: 91 Copynumber: 1.8 Consensus size: 92
4943906 CAAAAAAAAC
4943916 TCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTTTCATTATGAACTCTCCATTG
1 TCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTTTCATTATGAACTCTCCATTG
4943981 AAAATATTGATGCGAAGTTGAACAAGT
66 AAAATATTGATGCGAAGTTGAACAAGT
* *
4944008 TCTTCTCATTATGAACTTCTTCTCTCTC-ATTGGATGAGTTCTTCTT-ATTATGAACTCTCCATT
1 TCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTT-TTCATTATGAACTCTCCATT
* *
4944071 GGAAATGTTGAT
65 GAAAATATTGAT
4944083 CCATCTCTTT
Statistics
Matches: 70, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
91 41 0.59
92 29 0.41
ACGTcount: A:0.24, C:0.20, G:0.14, T:0.42
Consensus pattern (92 bp):
TCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTTTCATTATGAACTCTCCATTG
AAAATATTGATGCGAAGTTGAACAAGT
Found at i:4945216 original size:20 final size:20
Alignment explanation
Indices: 4945187--4945268 Score: 66
Period size: 20 Copynumber: 4.2 Consensus size: 20
4945177 AACCCTCCTT
*
4945187 TTTCTCTTTTT-ATTTTTTCA
1 TTTCTTTTTTTCA-TTTTTCA
4945207 TTTCTTTTTTTCATTTTTCA
1 TTTCTTTTTTTCATTTTTCA
4945227 --T-TTTTTTTC-TTTTTCA
1 TTTCTTTTTTTCATTTTTCA
* *
4945243 TTTTTTCATTTTTCATCTTTTTA
1 TTTCTT--TTTTTCAT-TTTTCA
4945266 TTT
1 TTT
4945269 GTTCCCTTTT
Statistics
Matches: 52, Mismatches: 2, Indels: 13
0.78 0.03 0.19
Matches are distributed among these distances:
16 7 0.13
17 8 0.15
18 2 0.04
19 2 0.04
20 17 0.33
21 7 0.13
22 1 0.02
23 8 0.15
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTCTTTTTTTCATTTTTCA
Found at i:4945254 original size:15 final size:15
Alignment explanation
Indices: 4945193--4945268 Score: 81
Period size: 15 Copynumber: 5.2 Consensus size: 15
4945183 CCTTTTTCTC
4945193 TTTTT-ATTTTTTCA
1 TTTTTCATTTTTTCA
*
4945207 --TTTCTTTTTTTCA
1 TTTTTCATTTTTTCA
4945220 TTTTTCATTTTTTTTC-
1 TTTTTCA--TTTTTTCA
4945236 TTTTTCATTTTTTCA
1 TTTTTCATTTTTTCA
4945251 TTTTTCATCTTTTT-A
1 TTTTTCAT-TTTTTCA
4945266 TTT
1 TTT
4945269 GTTCCCTTTT
Statistics
Matches: 53, Mismatches: 2, Indels: 13
0.78 0.03 0.19
Matches are distributed among these distances:
12 3 0.06
13 8 0.15
14 7 0.13
15 16 0.30
16 12 0.23
17 7 0.13
ACGTcount: A:0.11, C:0.12, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTTCATTTTTTCA
Found at i:4945264 original size:31 final size:30
Alignment explanation
Indices: 4945199--4945264 Score: 96
Period size: 31 Copynumber: 2.2 Consensus size: 30
4945189 TCTCTTTTTA
* *
4945199 TTTTTTCATTTCTTTTTTTCATTTTTCATT
1 TTTTTTCATTTCATTTTTTCATTTTTCATC
*
4945229 TTTTTTCTTTTTCATTTTTTCATTTTTCATC
1 TTTTTTC-ATTTCATTTTTTCATTTTTCATC
4945260 TTTTT
1 TTTTT
4945265 ATTTGTTCCC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 7 0.22
31 25 0.78
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (30 bp):
TTTTTTCATTTCATTTTTTCATTTTTCATC
Found at i:4945279 original size:31 final size:31
Alignment explanation
Indices: 4945213--4945279 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
4945203 TTCATTTCTT
* * *
4945213 TTTTTCATTTTTCATTTTTTTTCTTTTTCAT
1 TTTTTCATTTTTCATTTTTTATCTTGTTCAC
*
4945244 TTTTTCATTTTTCATCTTTTTAT-TTGTTCCC
1 TTTTTCATTTTTCAT-TTTTTATCTTGTTCAC
4945275 TTTTT
1 TTTTT
4945280 TTTTCTTCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 25 0.81
32 6 0.19
ACGTcount: A:0.09, C:0.15, G:0.01, T:0.75
Consensus pattern (31 bp):
TTTTTCATTTTTCATTTTTTATCTTGTTCAC
Found at i:4958823 original size:3 final size:3
Alignment explanation
Indices: 4958815--4958857 Score: 70
Period size: 3 Copynumber: 14.7 Consensus size: 3
4958805 TAAACACACT
*
4958815 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-T TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
4958858 TTTTTTAACC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 1 0.03
3 36 0.97
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:4960137 original size:21 final size:22
Alignment explanation
Indices: 4960103--4960154 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
4960093 TGTGCTAAAA
4960103 TAATAATTATTAATTAATTATT
1 TAATAATTATTAATTAATTATT
* *
4960125 TAAT-ATTTTTAATTATTTATT
1 TAATAATTATTAATTAATTATT
4960146 TGAA-AATTA
1 T-AATAATTA
4960155 ATAGATTAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
21 16 0.64
22 9 0.36
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
TAATAATTATTAATTAATTATT
Found at i:4960652 original size:27 final size:28
Alignment explanation
Indices: 4960595--4960652 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
4960585 AGAGGTGCAC
4960595 AAAAAATCCGAATATCCGATTTTGGGTAA
1 AAAAAATCCGAATATCCGATTTTGGG-AA
*
4960624 AAAATATCCGAA-A-CCGGATTTT-GGAA
1 AAAAAATCCGAATATCC-GATTTTGGGAA
4960650 AAA
1 AAA
4960653 CCCGTTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
26 5 0.19
27 4 0.15
28 7 0.26
29 11 0.41
ACGTcount: A:0.45, C:0.14, G:0.17, T:0.24
Consensus pattern (28 bp):
AAAAAATCCGAATATCCGATTTTGGGAA
Found at i:4960766 original size:27 final size:24
Alignment explanation
Indices: 4960723--4960807 Score: 95
Period size: 27 Copynumber: 3.5 Consensus size: 24
4960713 AAATTGAACG
*
4960723 ACCGGTTTTTTTACCGGATTAAAA
1 ACCGGTTTTTTTACCGGATAAAAA
4960747 ACCGGTTTTTTTCAAACCGGATAAAAA
1 ACCGGTTTTTTT---ACCGGATAAAAA
4960774 ACCGG-TTTTTTATCC-GA-AAAAA
1 ACCGGTTTTTTTA-CCGGATAAAAA
*
4960796 TCCGGTTTTTTT
1 ACCGGTTTTTTT
4960808 TTAAAAAACC
Statistics
Matches: 54, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
22 9 0.17
23 9 0.17
24 14 0.26
26 6 0.11
27 16 0.30
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (24 bp):
ACCGGTTTTTTTACCGGATAAAAA
Found at i:4964266 original size:9 final size:9
Alignment explanation
Indices: 4964254--4964287 Score: 59
Period size: 9 Copynumber: 3.7 Consensus size: 9
4964244 GAATTTAGTT
4964254 AATTAACCG
1 AATTAACCG
4964263 AATTAACCG
1 AATTAACCG
4964272 AATTAACCG
1 AATTAACCG
4964281 AAATTAA
1 -AATTAA
4964288 AGTTTAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 18 0.75
10 6 0.25
ACGTcount: A:0.50, C:0.18, G:0.09, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Done.