Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, 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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 88 of 147
Found at i:16141953 original size:18 final size:20
Alignment explanation
Indices: 16141930--16141971 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
16141920 GGCCATATGC
16141930 AAAAAAA-TT-TTAAATATA
1 AAAAAAATTTATTAAATATA
16141948 AAAAAAATTTATTAAATATA
1 AAAAAAATTTATTAAATATA
16141968 AAAA
1 AAAA
16141972 GAAAAAGAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 7 0.32
19 2 0.09
20 13 0.59
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAAAAATTTATTAAATATA
Found at i:16142779 original size:18 final size:17
Alignment explanation
Indices: 16142745--16142810 Score: 64
Period size: 18 Copynumber: 3.9 Consensus size: 17
16142735 TATTAAATAT
*
16142745 AAAG-AAAAGGAAAAAA
1 AAAGAAAAAAGAAAAAA
*
16142761 AAAGAAAAAATAAATAAA
1 AAAGAAAAAAGAAA-AAA
*
16142779 AAAGACAAAAGAAAAAA
1 AAAGAAAAAAGAAAAAA
*
16142796 AATGTAAAAAA-AAAA
1 AAAG-AAAAAAGAAAA
16142811 GAAATGCTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
16 4 0.10
17 17 0.41
18 20 0.49
ACGTcount: A:0.82, C:0.02, G:0.11, T:0.06
Consensus pattern (17 bp):
AAAGAAAAAAGAAAAAA
Found at i:16154332 original size:34 final size:34
Alignment explanation
Indices: 16154266--16154332 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
16154256 TATGCTTTTA
* ** *
16154266 CATCATTTCAATTGTCATATTTTTTGTGTATTTG
1 CATCATTTAAATTGTCATATGGTTTATGTATTTG
*
16154300 CATCATTTAAATTGTCATATGGTTTATTTATTT
1 CATCATTTAAATTGTCATATGGTTTATGTATTT
16154333 AACTTTGGGC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.24, C:0.10, G:0.10, T:0.55
Consensus pattern (34 bp):
CATCATTTAAATTGTCATATGGTTTATGTATTTG
Found at i:16155949 original size:16 final size:18
Alignment explanation
Indices: 16155918--16155952 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
16155908 AATTTCTAAA
16155918 TTTACTTTTCTCTATTCT
1 TTTACTTTTCTCTATTCT
16155936 TTTA-TTTTCT-TATTCT
1 TTTACTTTTCTCTATTCT
16155952 T
1 T
16155953 CAAAATAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 6 0.35
18 4 0.24
ACGTcount: A:0.11, C:0.17, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTACTTTTCTCTATTCT
Found at i:16167194 original size:536 final size:535
Alignment explanation
Indices: 16166097--16169842 Score: 5864
Period size: 536 Copynumber: 7.0 Consensus size: 535
16166087 ACCCAGCAAA
*
16166097 ACAAAAGTTTGCATGCAACCAAAAAAGATTAAACAAAAAACCACAAACAACAAGCAAGTAACGAT
1 ACAAAAGTTTGCATGCAACCAAAAAAGATTAAACAAAGAACCACAAACAACAAGCAAGTAACGAT
* *
16166162 AATCCACACCAATCAACCAAATCTCATGACAACAATCAAACCCTATAACGTACCAAGATAAAATC
66 GATCCACACCAATCAACCAAATCCCATGACAACAATCAAACCC-ATAACGTACCAAGAT-AAATC
* * *
16166227 ATTTTCTCATTCACATAATCCAACATCCAAATAATTACAGAAGGAAAAATAGCATACTAAATACT
129 ATTTTCTCATTCACATAAGCCAACATCCAAATAATTACAAAAGGAAAAATAGCATACCAAATACT
* *
16166292 AAAACA-AGATAGTGCACATAAAAATAAGCAACATTAAAGATAAAGTAAAATCTCCATAACCTAT
194 AAAACAGAGATA--GCACATAAAAATAAGCAACATTGAAGACAAAGTAAAATCTCCATAACCTAT
**
16166356 TCATTCTACACTTAAAAGAGCAACAATATGTTGT-AAA-AAAAACATCTTAATAAACATATACAC
257 TCATTCTACACCCAAAAGAGCAACAATATGTTGTAAAACAAAAACATCTTAATAAACATATACAC
16166419 TCAAGCAATAAACAGTTTATCATCCATGCCTACTATGCTAATGAACCATCAAAATAAACAATACC
322 TCAAGCAATAAACAGTTTATCATCCATGCCTACTATGCTAATGAACCATCAAAATAAACAATACC
* * * *
16166484 CAAACACATCTTATAAATACGAAT-AAAA-AAATTATATGTAAATAGTAAAAAGAAATAACTCAA
387 CAAAAACATCTTACAAATACGAATAAAAAGAAATTATATGCAAACAGTAAAAAGAAATAACTCAA
* * * *
16166547 AAACAAATATCTTCACATGAAAAATAACTTATTCTTTTATCTAGAAATGAAAGAAAACAATAAAA
452 AAATAAATATCTTCACATGAAAAATAACTTATTCTTTTATCTAGAAATGAAGGCAAACAATAGAA
16166612 GTTTAAAACTGTAAAAA-G
517 GTTTAAAACTGTAAAAATG
* *
16166630 AACAAAAGTTTGCATGCAACCAAAAAAGAATAAACAAAGAACCACAAACAACAAGCAAGTAATGA
1 -ACAAAAGTTTGCATGCAACCAAAAAAGATTAAACAAAGAACCACAAACAACAAGCAAGTAACGA
* * **
16166695 TGATCTACACCAATCAACCAAATCCCATGACAACAATCAAAACCCATACCGTATGAAGATAAATC
65 TGATCCACACCAATCAACCAAATCCCATGACAACAATC-AAACCCATAACGTACCAAGATAAATC
*
16166760 GTTTTCTCATTCACATAAGCCAACATCCAAATAATTACAAAAGGAAAAATAGCATACCAAATACT
129 ATTTTCTCATTCACATAAGCCAACATCCAAATAATTACAAAAGGAAAAATAGCATACCAAATACT
* * * *
16166825 AAAACAGAGATAGCACATAAAAATAAGCAACATTGAAGACAAAATAAAATCTACATATCCTAATC
194 AAAACAGAGATAGCACATAAAAATAAGCAACATTGAAGACAAAGTAAAATCTCCATAACCTATTC
* **
16166890 ATTTTACACCCAAAAGAAAAACAATATGTTGTAAAACAAACAACATCTTAATAAACATATACACT
259 ATTCTACACCCAAAAGAGCAACAATATGTTGTAAAACAAA-AACATCTTAATAAACATATACACT
16166955 CAAGCAATAAACAGTTTATCATCCATGCCTACTATGCTAATGAACCATCAAAATAAACAATACCC
323 CAAGCAATAAACAGTTTATCATCCATGCCTACTATGCTAATGAACCATCAAAATAAACAATACCC
* *
16167020 AAAAACATCTTACAAATACGAATAAAAA-AAATTATATGCAAACAATAAAAATAAATAACTCAAA
388 AAAAACATCTTACAAATACGAATAAAAAGAAATTATATGCAAACAGTAAAAAGAAATAACTCAAA
16167084 AATAAATATCTTCACATGAAAAATAACTTATTCTTTTATCTAGAAATGAAGGCAAACAATAGAAG
453 AATAAATATCTTCACATGAAAAATAACTTATTCTTTTATCTAGAAATGAAGGCAAACAATAGAAG
**
16167149 TTTAAAGTTGTAAAAATG
518 TTTAAAACTGTAAAAATG
* * * *
16167167 ATAAAAGTTTGCATGCAATCGAAAAAGATTAAACAAAGAACAACAAACAACAAGCAAGTAACGAT
1 ACAAAAGTTTGCATGCAACCAAAAAAGATTAAACAAAGAACCACAAACAACAAGCAAGTAACGAT
* * * * * *
16167232 GATCCATACCAATCAACCAAATCCCGTGACAACTATCAAACCTCGTAACTTAACAAGATAAATCA
66 GATCCACACCAATCAACCAAATCCCATGACAACAATCAAACC-CATAACGTACCAAGATAAATCA
*
16167297 TTTTCTCATTCACATAA---AACATCTAAATAATTACAAAAGGAAAAATAGCATACCAAATACT-
130 TTTTCTCATTCACATAAGCCAACATCCAAATAATTACAAAAGGAAAAATAGCATACCAAATACTA
* * *
16167358 AAACAGAGATAGCATATAAAAATAAGTAACATTGAAAACAAAGTAAAAT-TCCATAACCTATTCA
195 AAACAGAGATAGCACATAAAAATAAGCAACATTGAAGACAAAGTAAAATCTCCATAACCTATTCA
* *
16167422 TTTTACACCAAAAAGAGCAACAATATGTTGTAAAAC--AAACATCTTAATAAACATATACACTCA
260 TTCTACACCCAAAAGAGCAACAATATGTTGTAAAACAAAAACATCTTAATAAACATATACACTCA
* *
16167485 AGTAAT-AACAATTTATCATCCATGCCTACTATGCTAATGAACCATCAAAATAAACAATACCCAA
325 AGCAATAAACAGTTTATCATCCATGCCTACTATGCTAATGAACCATCAAAATAAACAATACCCAA
* *
16167549 AAATATCTTACAAATACAAATAAAAAGAAATTATATGCAAACAGTAAAAAGAAATAACTCAAAAA
390 AAACATCTTACAAATACGAATAAAAAGAAATTATATGCAAACAGTAAAAAGAAATAACTCAAAAA
*
16167614 TAAATATCTTCACATGAAAAATAACTTATTCTTTTATTTAGAAATGAAGGCAAACAATAGAAGTT
455 TAAATATCTTCACATGAAAAATAACTTATTCTTTTATCTAGAAATGAAGGCAAACAATAGAAGTT
*
16167679 TAAAACTATAAAAATG
520 TAAAACTGTAAAAATG
* *
16167695 ACAAAAGTTTGCATGCAACCAAAAAAGATTAAACAAAGAACCATAAACAACAAGCAAGTAAAGAT
1 ACAAAAGTTTGCATGCAACCAAAAAAGATTAAACAAAGAACCACAAACAACAAGCAAGTAACGAT
* *
16167760 GATCCACACCAATCAACCAAATCCCATGACAACAATCAAACCTCATAACATACCAACATAAATCA
66 GATCCACACCAATCAACCAAATCCCATGACAACAATCAAACC-CATAACGTACCAAGATAAATCA
* * *
16167825 TTTTCTCACTCACATAAGCCAACATCCAAAAAATTACAAAAAGAAAAATAGCATACCAAATACTA
130 TTTTCTCATTCACATAAGCCAACATCCAAATAATTACAAAAGGAAAAATAGCATACCAAATACTA
* *
16167890 AATCAGAGATAGCACATAAAAATAAGCAACATTAAAGACAAAGTAAAATCTCCATAACCTATTCA
195 AAACAGAGATAGCACATAAAAATAAGCAACATTGAAGACAAAGTAAAATCTCCATAACCTATTCA
*
16167955 TTCTACACCCAAAAAAGCAACAATATGTTGTAAAAC--AAACATCTTAATAAACATATACACTCA
260 TTCTACACCCAAAAGAGCAACAATATGTTGTAAAACAAAAACATCTTAATAAACATATACACTCA
* * *
16168018 AGCAATAAACAATTTATCATCCATGCCTACTATGCTAATGAACCATCAAAATAAATAATACCGAA
325 AGCAATAAACAGTTTATCATCCATGCCTACTATGCTAATGAACCATCAAAATAAACAATACCCAA
*
16168083 AAACATCTTACAAATCCGAATAAAAAGAAATTATATGCAAACAGTAAAAAGAAATAACTCAAAAA
390 AAACATCTTACAAATACGAATAAAAAGAAATTATATGCAAACAGTAAAAAGAAATAACTCAAAAA
* * * * *
16168148 CAAATATCTTAACATAAAAAACAACTTATTCTTTTATCTAGAAATGAAGGCAAACAATAAAAGTT
455 TAAATATCTTCACATGAAAAATAACTTATTCTTTTATCTAGAAATGAAGGCAAACAATAGAAGTT
16168213 TAAAACTGTAAAAATG
520 TAAAACTGTAAAAATG
* *
16168229 ACAAAAGTTTGCATGCAACCAAAAAAGATTAAACAAAAAATCACAAACAACAAGCAAGTAACGAT
1 ACAAAAGTTTGCATGCAACCAAAAAAGATTAAACAAAGAACCACAAACAACAAGCAAGTAACGAT
** **
16168294 GATCCACGTCAATCAACCAAATTTCATGACAACAATCAAACCTCATAACGTACCAAGATAAATCA
66 GATCCACACCAATCAACCAAATCCCATGACAACAATCAAACC-CATAACGTACCAAGATAAATCA
* *
16168359 TTTTCTCATTCGCATAAGCCAACATCCAAATAATTATAAAAGGAAAAATAGCATACCAAATACTA
130 TTTTCTCATTCACATAAGCCAACATCCAAATAATTACAAAAGGAAAAATAGCATACCAAATACT-
* * * * * * *
16168424 AAAATAGAAATAACAAATAAAAATAAGCAACATTGAATACAAAATAAAATCTCTATAACCTATTC
194 AAAACAGAGATAGCACATAAAAATAAGCAACATTGAAGACAAAGTAAAATCTCCATAACCTATTC
* * * * *
16168489 ATTTTACACCCAAAAGAGTAAAAATATGTTGTAAAACAAACAATATCTTCATAAACATATACACT
259 ATTCTACACCCAAAAGAGCAACAATATGTTGTAAAACAAA-AACATCTTAATAAACATATACACT
* * *
16168554 CAAGCAATAAAACGGTTTATCATCCATGCCTACTGTGCTAATGAACCTTCAAAATAAACAATACC
323 CAAGCAAT-AAACAGTTTATCATCCATGCCTACTATGCTAATGAACCATCAAAATAAACAATACC
* * * *
16168619 TAAAAACATCTTACAAATACAAATAAAAAGAAATTATATGCAAATAGTAAAAA-AAAAAACTCAA
387 CAAAAACATCTTACAAATACGAATAAAAAGAAATTATATGCAAACAGTAAAAAGAAATAACTCAA
* * *
16168683 AAATAAATATCTTCACATGAAAAATAACTTATTCTTTTATCTAAAAATAAAGGCAAACAATAAAA
452 AAATAAATATCTTCACATGAAAAATAACTTATTCTTTTATCTAGAAATGAAGGCAAACAATAGAA
*
16168748 GTTTAAAGCTGTAAAAATG
517 GTTTAAAACTGTAAAAATG
* * *
16168767 ACAAAATTTTGCATGCAACCAAAAAAAATTAAACAAAGAACCACAAACAACAAGCAAGTAAAGAT
1 ACAAAAGTTTGCATGCAACCAAAAAAGATTAAACAAAGAACCACAAACAACAAGCAAGTAACGAT
* * *
16168832 GATCCACACCAATCAACCAAATCCCATAACAACAATCAAACCCCATAATGTAACAAGATAAATCA
66 GATCCACACCAATCAACCAAATCCCATGACAACAATCAAA-CCCATAACGTACCAAGATAAATCA
*
16168897 TTTTCTCATTCACATAAG-CAACATCCAAATAATTACAAAAGGAAAAATAACATACCAAATACTA
130 TTTTCTCATTCACATAAGCCAACATCCAAATAATTACAAAAGGAAAAATAGCATACCAAATACTA
* *
16168961 AAATAGAGATAGCACATAAAAATAAGCAACATTAAAGACAAAGTAAAATCTCCATAACCTATTCA
195 AAACAGAGATAGCACATAAAAATAAGCAACATTGAAGACAAAGTAAAATCTCCATAACCTATTCA
* * *
16169026 TTCTACACCCAAAAGAGCAACAATATGTTATAAAACATACAATATCTTAATAAACATATACACTC
260 TTCTACACCCAAAAGAGCAACAATATGTTGTAAAACA-AAAACATCTTAATAAACATATACACTC
* * * *
16169091 AAGCAATAAATAATTTATCATACATGCCTACGATGCTAATGAACCATCAAAATAAACAATACCCA
324 AAGCAATAAACAGTTTATCATCCATGCCTACTATGCTAATGAACCATCAAAATAAACAATACCCA
* *
16169156 AAAGCATCTTACAAATACGAATAAAAAGAAATTATATGCAAACAGTAAAAAAAAATAACTCAAAA
389 AAAACATCTTACAAATACGAATAAAAAGAAATTATATGCAAACAGTAAAAAGAAATAACTCAAAA
* *
16169221 ACAAATATCTTCACATGAAAAATAACATATTCTTTTATCTAGAAATGAAGGCAAACAATAGAAGT
454 ATAAATATCTTCACATGAAAAATAACTTATTCTTTTATCTAGAAATGAAGGCAAACAATAGAAGT
*
16169286 ATAAAACTGTAAAAATG
519 TTAAAACTGTAAAAATG
* * * *
16169303 ATAAAAGTTTGCATGCAACCAAAAAGGATTAAACAAAGAACCACAAACAATAAGCAAGTAACAAT
1 ACAAAAGTTTGCATGCAACCAAAAAAGATTAAACAAAGAACCACAAACAACAAGCAAGTAACGAT
* *
16169368 GATCCACACTAATCAACCAAATCCCATGACAACAATCAAACCCCATAACGTACCAAAATAAATCA
66 GATCCACACCAATCAACCAAATCCCATGACAACAATCAAA-CCCATAACGTACCAAGATAAATCA
*
16169433 TTTTCTTATTCACATAAGCCAACATCCAAATAATTACAAAAGGAAAAATAGCATACCAAATACTA
130 TTTTCTCATTCACATAAGCCAACATCCAAATAATTACAAAAGGAAAAATAGCATACCAAATACTA
** *
16169498 AAATGGAGATAGCACATAAAAATAAGCAACATTGAAGGCAAAGTAAAATCTCCATAACCTATTCA
195 AAACAGAGATAGCACATAAAAATAAGCAACATTGAAGACAAAGTAAAATCTCCATAACCTATTCA
* *
16169563 TTCTACACGCAAAAGAGCAACAATATGTTGTAAAATAAATAACATCTTAATAAACATATACACTC
260 TTCTACACCCAAAAGAGCAACAATATGTTGTAAAACAAA-AACATCTTAATAAACATATACACTC
*
16169628 AAGCAATAAACAGTTTATAATCCATGCCTACTATGCTAATGAACCATCAAAATAAACAATA-CCA
324 AAGCAATAAACAGTTTATCATCCATGCCTACTATGCTAATGAACCATCAAAATAAACAATACCCA
* * *
16169692 AAAATATCTTACAAATACAAATAAAAAGAAATTATATGCAACCAGT-AAAA-AAA-AACTCAAAA
389 AAAACATCTTACAAATACGAATAAAAAGAAATTATATGCAAACAGTAAAAAGAAATAACTCAAAA
*
16169754 ATAAATATCTTTACATGAAAAATAACTTATTCTTTTATCTAGAAATGAAGGCAAACAATAGAAGT
454 ATAAATATCTTCACATGAAAAATAACTTATTCTTTTATCTAGAAATGAAGGCAAACAATAGAAGT
16169819 TTAAAACTGTAAAAATG
519 TTAAAACTGTAAAAATG
16169836 ACAAAAG
1 ACAAAAG
16169843 AAAAAATTCA
Statistics
Matches: 2946, Mismatches: 241, Indels: 51
0.91 0.07 0.02
Matches are distributed among these distances:
527 81 0.03
528 277 0.09
529 1 0.00
531 86 0.03
532 163 0.06
533 291 0.10
534 490 0.17
535 312 0.11
536 627 0.21
537 267 0.09
538 249 0.08
539 102 0.03
ACGTcount: A:0.51, C:0.19, G:0.08, T:0.22
Consensus pattern (535 bp):
ACAAAAGTTTGCATGCAACCAAAAAAGATTAAACAAAGAACCACAAACAACAAGCAAGTAACGAT
GATCCACACCAATCAACCAAATCCCATGACAACAATCAAACCCATAACGTACCAAGATAAATCAT
TTTCTCATTCACATAAGCCAACATCCAAATAATTACAAAAGGAAAAATAGCATACCAAATACTAA
AACAGAGATAGCACATAAAAATAAGCAACATTGAAGACAAAGTAAAATCTCCATAACCTATTCAT
TCTACACCCAAAAGAGCAACAATATGTTGTAAAACAAAAACATCTTAATAAACATATACACTCAA
GCAATAAACAGTTTATCATCCATGCCTACTATGCTAATGAACCATCAAAATAAACAATACCCAAA
AACATCTTACAAATACGAATAAAAAGAAATTATATGCAAACAGTAAAAAGAAATAACTCAAAAAT
AAATATCTTCACATGAAAAATAACTTATTCTTTTATCTAGAAATGAAGGCAAACAATAGAAGTTT
AAAACTGTAAAAATG
Found at i:16168440 original size:22 final size:21
Alignment explanation
Indices: 16168402--16168442 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
16168392 TTATAAAAGG
* *
16168402 AAAAATAGCATACCAAATACT
1 AAAAATAGAATAACAAATACT
16168423 AAAAATAGAAATAACAAATA
1 AAAAATAG-AATAACAAATA
16168443 AAAATAAGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.66, C:0.12, G:0.05, T:0.17
Consensus pattern (21 bp):
AAAAATAGAATAACAAATACT
Found at i:16169069 original size:19 final size:19
Alignment explanation
Indices: 16169045--16169083 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
16169035 CAAAAGAGCA
*
16169045 ACAATATGTT-ATAAAACAT
1 ACAATATCTTAAT-AAACAT
16169064 ACAATATCTTAATAAACAT
1 ACAATATCTTAATAAACAT
16169083 A
1 A
16169084 TACACTCAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 16 0.89
20 2 0.11
ACGTcount: A:0.54, C:0.13, G:0.03, T:0.31
Consensus pattern (19 bp):
ACAATATCTTAATAAACAT
Found at i:16170423 original size:29 final size:27
Alignment explanation
Indices: 16170391--16170455 Score: 76
Period size: 29 Copynumber: 2.3 Consensus size: 27
16170381 TTTTGAAAAA
16170391 TTAAAAAATAAAACTTCATAAAATTTTTT
1 TTAAAAAATAAAACTTCAT-AAA-TTTTT
* *
16170420 TTAAATAGTATAAAATTTCATAAATTTTT
1 TTAAA-A-AATAAAACTTCATAAATTTTT
16170449 TTAAAAA
1 TTAAAAA
16170456 TCTAAAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
28 1 0.03
29 15 0.48
30 4 0.13
31 11 0.35
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.43
Consensus pattern (27 bp):
TTAAAAAATAAAACTTCATAAATTTTT
Found at i:16170832 original size:9 final size:9
Alignment explanation
Indices: 16170820--16170873 Score: 51
Period size: 9 Copynumber: 6.2 Consensus size: 9
16170810 GTTTTTTTAA
16170820 TTTTAAATTT
1 TTTTAAA-TT
*
16170830 TTTTAGATT
1 TTTTAAATT
16170839 TTTT---TT
1 TTTTAAATT
*
16170845 TTTTAAAAT
1 TTTTAAATT
*
16170854 TTTTAGATT
1 TTTTAAATT
16170863 TTTTAAATT
1 TTTTAAATT
16170872 TT
1 TT
16170874 GAAAAATGTT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
6 6 0.17
9 24 0.67
10 6 0.17
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (9 bp):
TTTTAAATT
Found at i:16170840 original size:24 final size:24
Alignment explanation
Indices: 16170812--16170893 Score: 83
Period size: 25 Copynumber: 3.2 Consensus size: 24
16170802 ATTTCACAGT
*
16170812 TTTTTTAATTTTAAATTTTTTTAGA
1 TTTTTTAATTTTAAA-ATTTTTAGA
**
16170837 TTTTTTTTTTTTAAAATTTTTAGA
1 TTTTTTAATTTTAAAATTTTTAGA
* *
16170861 TTTTTTAAATTTTGAAAAATGTTAAGA
1 TTTTTT-AATTTT--AAAATTTTTAGA
16170888 TTTTTT
1 TTTTTT
16170894 GTAAATTTTT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
24 14 0.30
25 17 0.36
27 16 0.34
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (24 bp):
TTTTTTAATTTTAAAATTTTTAGA
Found at i:16170848 original size:25 final size:25
Alignment explanation
Indices: 16170811--16170902 Score: 87
Period size: 27 Copynumber: 3.5 Consensus size: 25
16170801 AATTTCACAG
*
16170811 TTTTTTTAATTTTAAATTTTTTTAGA
1 TTTTTTTAATTTTAAA-ATTTTTAGA
*
16170837 TTTTTTT-TTTTTAAAATTTTTAGA
1 TTTTTTTAATTTTAAAATTTTTAGA
* * *
16170861 TTTTTTAAATTTTGAAAAATGTTAAGA
1 TTTTTTTAATTTT--AAAATTTTTAGA
16170888 TTTTTTGTAAATTTT
1 TTTTTT-T-AATTTT
16170903 TTTTAGATAT
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
24 14 0.26
25 11 0.20
26 7 0.13
27 16 0.30
29 6 0.11
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (25 bp):
TTTTTTTAATTTTAAAATTTTTAGA
Found at i:16170873 original size:26 final size:26
Alignment explanation
Indices: 16170811--16170903 Score: 75
Period size: 24 Copynumber: 3.5 Consensus size: 26
16170801 AATTTCACAG
* *
16170811 TTTTTTTAA-TTTTAAATTTTTTTAGA
1 TTTTTTAAATTTTTAAA-ATTTTTAGA
*
16170837 TTTTTT--TTTTTTAAAATTTTTAGA
1 TTTTTTAAATTTTTAAAATTTTTAGA
* * *
16170861 TTTTTTAAATTTTGAAAAATGTTAAGA
1 TTTTTTAAATTTT-TAAAATTTTTAGA
16170888 TTTTTTGTAAATTTTT
1 -TTTTT-TAAATTTTT
16170904 TTTAGATATT
Statistics
Matches: 54, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
24 14 0.26
25 7 0.13
26 10 0.19
27 10 0.19
28 5 0.09
29 8 0.15
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (26 bp):
TTTTTTAAATTTTTAAAATTTTTAGA
Found at i:16170981 original size:19 final size:19
Alignment explanation
Indices: 16170925--16170982 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
16170915 TGAACTTTAA
** *
16170925 AATATTTTTAAAATATTTT
1 AATATTTTTTTAATTTTTT
*
16170944 -ATATTTTTTTGAA-TGTTT
1 AATATTTTTTT-AATTTTTT
16170962 AATATTTTTTTAATTTTTT
1 AATATTTTTTTAATTTTTT
16170981 AA
1 AA
16170983 GGTTTTTGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
18 13 0.42
19 18 0.58
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (19 bp):
AATATTTTTTTAATTTTTT
Found at i:16172119 original size:19 final size:18
Alignment explanation
Indices: 16172088--16172140 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 18
16172078 TGGGTCCCAC
16172088 AAAAATATAAAATATAAA
1 AAAAATATAAAATATAAA
*
16172106 AAAAATTATTAAATATAAA
1 AAAAA-TATAAAATATAAA
16172125 AAGTAAATATAAAATA
1 AA--AAATATAAAATA
16172141 AATAAATGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 5 0.17
19 14 0.47
20 8 0.27
21 3 0.10
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (18 bp):
AAAAATATAAAATATAAA
Found at i:16172832 original size:2 final size:2
Alignment explanation
Indices: 16172825--16172862 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
16172815 TTTTAACCTC
* *
16172825 TA TA TA TA TA CA TT TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
16172863 CTAAATAGCT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:16174219 original size:29 final size:30
Alignment explanation
Indices: 16174181--16174240 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
16174171 CATGGGTCTA
16174181 TTTAGAAATTCTTTTTTG-TTTTTATCTTTG
1 TTTAGAAATT-TTTTTTGTTTTTTATCTTTG
16174211 TTTAG-AATTTTTTTTGTTTTTTTATCTTTG
1 TTTAGAAATTTTTTTTG-TTTTTTATCTTTG
16174241 GAAAGAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
28 7 0.25
29 4 0.14
30 17 0.61
ACGTcount: A:0.15, C:0.05, G:0.10, T:0.70
Consensus pattern (30 bp):
TTTAGAAATTTTTTTTGTTTTTTATCTTTG
Found at i:16176886 original size:107 final size:106
Alignment explanation
Indices: 16176763--16176970 Score: 362
Period size: 107 Copynumber: 2.0 Consensus size: 106
16176753 ATTTTGGATA
* *
16176763 TTCACATCCAAAAGTTCAAAGCTTTTCATTGGAGTTCAAAGATTCACATTCGATAGATTTTAGAG
1 TTCACATCCAAAAGTTCAAAGCTTCTCATTGAAGTTCAAAGATTCACATTCGATAGA-TTTAGAG
*
16176828 TTTCATATCTAAATTCAAAGGTTTTCATTCAAAAATTTGGGG
65 TTTCATATCTAAACTCAAAGGTTTTCATTCAAAAATTTGGGG
* *
16176870 TTCACATCCAAAAGTTCAAAGCTTCTCATTTAAGTTCAAATATTCACATTCGATAGATTTAGAGT
1 TTCACATCCAAAAGTTCAAAGCTTCTCATTGAAGTTCAAAGATTCACATTCGATAGATTTAGAGT
16176935 TTCATATCTAAACTCAAAGGTTTTCATTCAAAAATT
66 TTCATATCTAAACTCAAAGGTTTTCATTCAAAAATT
16176971 CTTAAAGATT
Statistics
Matches: 96, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
106 43 0.45
107 53 0.55
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.37
Consensus pattern (106 bp):
TTCACATCCAAAAGTTCAAAGCTTCTCATTGAAGTTCAAAGATTCACATTCGATAGATTTAGAGT
TTCATATCTAAACTCAAAGGTTTTCATTCAAAAATTTGGGG
Found at i:16176919 original size:20 final size:20
Alignment explanation
Indices: 16176881--16176919 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
16176871 TCACATCCAA
* *
16176881 AAGTTCAAAGCTTCTCATTT
1 AAGTTCAAAGATTCACATTT
*
16176901 AAGTTCAAATATTCACATT
1 AAGTTCAAAGATTCACATT
16176920 CGATAGATTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.36, C:0.18, G:0.08, T:0.38
Consensus pattern (20 bp):
AAGTTCAAAGATTCACATTT
Found at i:16178170 original size:10 final size:10
Alignment explanation
Indices: 16178157--16178189 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
16178147 TTTTTCTCTC
16178157 TTTTTATATT
1 TTTTTATATT
16178167 TTTTTATATT
1 TTTTTATATT
*
16178177 TTTTCAT-TT
1 TTTTTATATT
16178186 TTTT
1 TTTT
16178190 CCTTTCATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 6 0.27
10 16 0.73
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTATATT
Found at i:16182329 original size:29 final size:30
Alignment explanation
Indices: 16182279--16182336 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
16182269 TTTGGGTCTA
16182279 TTTAGATATTC-TTTTTATTTTTATCTTTG
1 TTTAGATATTCTTTTTTATTTTTATCTTTG
* *
16182308 TTTAGA-ATTTTTTTTGTTTTTTTATCTTT
1 TTTAGATATTCTTTTT-TATTTTTATCTTT
16182337 AGAAAGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 3 0.12
29 10 0.40
30 12 0.48
ACGTcount: A:0.16, C:0.05, G:0.07, T:0.72
Consensus pattern (30 bp):
TTTAGATATTCTTTTTTATTTTTATCTTTG
Found at i:16184630 original size:186 final size:188
Alignment explanation
Indices: 16184260--16184640 Score: 491
Period size: 186 Copynumber: 2.0 Consensus size: 188
16184250 AATCAACAAC
* * * *
16184260 ATTAATCACTAAATGGATAATAGATTTACAGGAAAATGACTAGATAAGAAAGAGTAAGAGATTTC
1 ATTAATCACTAAATAGATAATAGATTGACAGAAAAATGACTAGATAAGAAAGAGGAAGAGATTTC
**
16184325 ATCATCTTTGGGTTTAATGAATTAAACTTTTCACTTCATCTTCATGAAGTGATTAATTGTAATAA
66 ATCATCTTTGGG-----TG-ATTAAACTTTTCACTTCATCTTCATGAACAGATTAATTGTAATAA
* **
16184390 TAGGGTAAAGAAACTGATAATTGCTGGAATTGAATGCATTATGCTTTAAACATTCCCTTGGAAG
125 TAGGGTAAAGAAACCGATAATTGCTGGAATTGAATGCATTATAATTTAAACATTCCCTTGGAAG
** *
16184454 ATTAATCACTAAATAGATAATTA-ATTGACAAGAAAAATGGTTGGATAAGAAAGAGGAAGAGATT
1 ATTAATCACTAAATAGATAA-TAGATTGAC-AGAAAAATGACTAGATAAGAAAGAGGAAGAGATT
* * *
16184518 TCATCATCTTT-GG-G-TTAAACTTTTCACTTCCTCTTCATGAACAGATTAATTGTGATAATGGG
64 TCATCATCTTTGGGTGATTAAACTTTTCACTTCATCTTCATGAACAGATTAATTGTAATAATAGG
* * * *
16184580 GTAAAGAAACCGATAATTGCTGGAATTGAATGCTTTGTAATTTGAACATTCTCTTGGAAG
129 GTAAAGAAACCGATAATTGCTGGAATTGAATGCATTATAATTTAAACATTCCCTTGGAAG
16184640 A
1 A
16184641 GCACTTTGAA
Statistics
Matches: 166, Mismatches: 19, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
186 97 0.58
188 1 0.01
194 26 0.16
195 42 0.25
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.33
Consensus pattern (188 bp):
ATTAATCACTAAATAGATAATAGATTGACAGAAAAATGACTAGATAAGAAAGAGGAAGAGATTTC
ATCATCTTTGGGTGATTAAACTTTTCACTTCATCTTCATGAACAGATTAATTGTAATAATAGGGT
AAAGAAACCGATAATTGCTGGAATTGAATGCATTATAATTTAAACATTCCCTTGGAAG
Found at i:16199787 original size:6 final size:6
Alignment explanation
Indices: 16199778--16199818 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
16199768 CATTTTGTTT
* * *
16199778 TTTTTC TTTTTC TTTCTC TTTTTC TTTTGC TTCTTC TTTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
16199819 TTGTAACTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (6 bp):
TTTTTC
Found at i:16202124 original size:19 final size:20
Alignment explanation
Indices: 16202100--16202146 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
16202090 TTTCACTTTC
*
16202100 AATAAAAAA-AAACCAAACA
1 AATAAAAAACAAACCAAAAA
16202119 AATAAAAAACAAACCAAAAA
1 AATAAAAAACAAACCAAAAA
*
16202139 AACAAAAA
1 AATAAAAA
16202147 GGAAAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 9 0.36
20 16 0.64
ACGTcount: A:0.81, C:0.15, G:0.00, T:0.04
Consensus pattern (20 bp):
AATAAAAAACAAACCAAAAA
Found at i:16202136 original size:16 final size:15
Alignment explanation
Indices: 16202103--16202140 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
16202093 CACTTTCAAT
16202103 AAAAAAAAACCAAAC
1 AAAAAAAAACCAAAC
16202118 AAATAAAAAA-CAAACC
1 AAA-AAAAAACCAAA-C
16202134 AAAAAAA
1 AAAAAAA
16202141 CAAAAAGGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.82, C:0.16, G:0.00, T:0.03
Consensus pattern (15 bp):
AAAAAAAAACCAAAC
Found at i:16207247 original size:27 final size:27
Alignment explanation
Indices: 16207213--16207267 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
16207203 TTTTTATGTG
16207213 CATCATTTTAAGAAAAGACATTTGCAT
1 CATCATTTTAAGAAAAGACATTTGCAT
*
16207240 CATCATTTTAAGAGAAGACATTTGCAT
1 CATCATTTTAAGAAAAGACATTTGCAT
16207267 C
1 C
16207268 CTAGTTATGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (27 bp):
CATCATTTTAAGAAAAGACATTTGCAT
Found at i:16207657 original size:42 final size:42
Alignment explanation
Indices: 16207559--16207649 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
16207549 AAAATCTTGG
* * *
16207559 TGGTGATATCCGAGTGTTAAGGTTTGATTTGCATTTTCTAGA
1 TGGTGATATCCAAGTGTTAAGGCTTGAATTGCATTTTCTAGA
*
16207601 TGGTGATATCCAAGTGTTAAGGCTTGAATTGTATTTTCCT-GA
1 TGGTGATATCCAAGTGTTAAGGCTTGAATTGCATTTT-CTAGA
16207643 TGGTGAT
1 TGGTGAT
16207650 TTTCAAGTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 42 0.95
43 2 0.05
ACGTcount: A:0.22, C:0.10, G:0.26, T:0.42
Consensus pattern (42 bp):
TGGTGATATCCAAGTGTTAAGGCTTGAATTGCATTTTCTAGA
Found at i:16207910 original size:42 final size:42
Alignment explanation
Indices: 16207855--16208107 Score: 150
Period size: 42 Copynumber: 6.2 Consensus size: 42
16207845 TACTCGGTGG
*
16207855 TGATATCCGAGTGTCAAAGTTTGAATTACATCTTCTC-AGTGA
1 TGATATCCGAGTGTCAAAGTTTGAATTACATATTCTCGA-TGA
* * * * * *
16207897 TGATATTCAAGTGTCAAAGTATCATTTACATATTTTCGAT-A
1 TGATATCCGAGTGTCAAAGTTTGAATTACATATTCTCGATGA
* * * *
16207938 GTGATATCTGAGTGTCAAGGTTTGAATTACATTTTCTCGATGG
1 -TGATATCCGAGTGTCAAAGTTTGAATTACATATTCTCGATGA
** * * * * * *
16207981 TGATATCCTTGTGTTAAAGTTTGAATTGCATTTTTTCGGTGG
1 TGATATCCGAGTGTCAAAGTTTGAATTACATATTCTCGATGA
** * * * *
16208023 CAATATCCGA-AGTC--A-TTTGTATT---T-TT-TCAATGG
1 TGATATCCGAGTGTCAAAGTTTGAATTACATATTCTCGATGA
* ** *
16208056 TGATATCCGAGTGTCATAGTTTGAATTGTATTTTCTCGATGA
1 TGATATCCGAGTGTCAAAGTTTGAATTACATATTCTCGATGA
16208098 TGATATCCGA
1 TGATATCCGA
16208108 AGTTATTTAC
Statistics
Matches: 159, Mismatches: 40, Indels: 24
0.71 0.18 0.11
Matches are distributed among these distances:
33 13 0.08
34 5 0.03
35 1 0.01
36 1 0.01
37 7 0.04
38 7 0.04
39 1 0.01
40 1 0.01
41 5 0.03
42 117 0.74
43 1 0.01
ACGTcount: A:0.26, C:0.13, G:0.20, T:0.41
Consensus pattern (42 bp):
TGATATCCGAGTGTCAAAGTTTGAATTACATATTCTCGATGA
Found at i:16208104 original size:75 final size:74
Alignment explanation
Indices: 16207968--16208482 Score: 460
Period size: 75 Copynumber: 6.9 Consensus size: 74
16207958 TTTGAATTAC
* ** * * * **
16207968 ATTTTCTCGATGGTGATATCCTTGTGTTAAAGTTTGAATTGCATTTTTTCGGTGGCAATATCCGA
1 ATTTTCTCGGTGGTGATATCCGAGTG-TCAAGTTTGAATTGCATTTTCTCGATGGTGATATCCGA
16208033 AGTCATTTGT
65 AGTCATTTGT
* ** * *
16208043 ATTTTTTCAATGGTGATATCCGAGTGTCATAGTTTGAATTGTATTTTCTCGATGATGATATCCGA
1 ATTTTCTCGGTGGTGATATCCGAGTGTCA-AGTTTGAATTGCATTTTCTCGATGGTGATATCCGA
* *
16208108 AGTTATTTACT
65 AGTCATTT-GT
** * *
16208119 -TTTTCTTAGTGGTGATATCCGAGTGTCAAGGTTTGAATTACATTTTCTCGGTGGTGATATCCGA
1 ATTTTCTCGGTGGTGATATCCGAGTGTCAA-GTTTGAATTGCATTTTCTCGATGGTGATATCCGA
* *
16208183 AATCATTTGC
65 AGTCATTTGT
* * * * * * *
16208193 CTTTTCTCGGTGGTGATATCCTAGTGTCCAAGTTTGAATTGTAGTTTTTTTG-TGGTGAAATTCG
1 ATTTTCTCGGTGGTGATATCCGAGTGT-CAAGTTTGAATTGCA-TTTTCTCGATGGTGATATCCG
16208257 AAGTCATTTGT
64 AAGTCATTTGT
* * * * *
16208268 ATATTCTCGGTGGTAATATTCGAGTGTCAAAGTTTGAATTACATTTTCT-TAGTGGTGATATCCG
1 ATTTTCTCGGTGGTGATATCCGAGTGTC-AAGTTTGAATTGCATTTTCTCGA-TGGTGATATCCG
16208332 AAGTCATTTGT
64 AAGTCATTTGT
* ** * **
16208343 ATATTCTCGGTGGTGATATCTAAGTGTCAAGGTTTGAATTGCATTTTCTCGATGGCGATATCTAA
1 ATTTTCTCGGTGGTGATATCCGAGTGTCAA-GTTTGAATTGCATTTTCTCGATGGTGATATCCGA
* * *
16208408 AGCCAATTGC
65 AGTCATTTGT
* * * * * * * **
16208418 ATATTCTCAGTAGTGATATCCGAGTGTTAAAGCTTGAATTACATTTTCTCAATTATGATATCCGA
1 ATTTTCTCGGTGGTGATATCCGAGTG-TCAAGTTTGAATTGCATTTTCTCGATGGTGATATCCGA
16208483 GTTTCTTTCG
Statistics
Matches: 357, Mismatches: 71, Indels: 24
0.79 0.16 0.05
Matches are distributed among these distances:
74 11 0.03
75 332 0.93
76 14 0.04
ACGTcount: A:0.24, C:0.14, G:0.21, T:0.42
Consensus pattern (74 bp):
ATTTTCTCGGTGGTGATATCCGAGTGTCAAGTTTGAATTGCATTTTCTCGATGGTGATATCCGAA
GTCATTTGT
Found at i:16208261 original size:225 final size:225
Alignment explanation
Indices: 16207969--16208404 Score: 547
Period size: 225 Copynumber: 1.9 Consensus size: 225
16207959 TTGAATTACA
* *
16207969 TTTTCTCGATGGTGATATCCTTGTGTTAAAGTTTGAATTGCATTTTTTCGGTGGCAATATCCGAA
1 TTTTCTCGATGGTGATATCCTAGTGTCAAAGTTTGAATTGCATTTTTTCGGTGGCAATATCCGAA
* * * * **
16208034 GTCATTTGTATTTTTTCAATGGTGATATCCGAGTGTCATAGTTTGAATTGTATTTTCTCGA-TGA
66 GTCATTTGTATATTCTCAATGGTAATATCCGAGTGTCAAAGTTTGAATTACATTTTCT-GAGTGA
* * * *
16208098 TGATATCCGAAGTTATTTACT-TTTTCTTAGTGGTGATATCCGAGTGTCAAGGTTTGAATTACAT
130 TGATATCCGAAGTCATTT-CTATATTCTCAGTGGTGATATCCAAGTGTCAAGGTTTGAATTACAT
* *
16208162 TTTCTCGGTGGTGATATCCGAAATCATTTGCC
194 TTTCTCGATGGCGATATCCGAAATCATTTGCC
* * * * * *
16208194 TTTTCTCGGTGGTGATATCCTAGTGTCCAAGTTTGAATTGTAGTTTTTT-TGTGGTGAA-ATTCG
1 TTTTCTCGATGGTGATATCCTAGTGTCAAAGTTTGAATTGCA-TTTTTTCGGTGG-CAATATCCG
** * *
16208257 AAGTCATTTGTATATTCTCGGTGGTAATATTCGAGTGTCAAAGTTTGAATTACATTTTCTTAGTG
64 AAGTCATTTGTATATTCTCAATGGTAATATCCGAGTGTCAAAGTTTGAATTACATTTTCTGAGTG
* * * * *
16208322 GTGATATCCGAAGTCATTTGTATATTCTCGGTGGTGATATCTAAGTGTCAAGGTTTGAATTGCAT
129 ATGATATCCGAAGTCATTTCTATATTCTCAGTGGTGATATCCAAGTGTCAAGGTTTGAATTACAT
16208387 TTTCTCGATGGCGATATC
194 TTTCTCGATGGCGATATC
16208405 TAAAGCCAAT
Statistics
Matches: 178, Mismatches: 29, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
224 2 0.01
225 168 0.94
226 8 0.04
ACGTcount: A:0.22, C:0.13, G:0.22, T:0.43
Consensus pattern (225 bp):
TTTTCTCGATGGTGATATCCTAGTGTCAAAGTTTGAATTGCATTTTTTCGGTGGCAATATCCGAA
GTCATTTGTATATTCTCAATGGTAATATCCGAGTGTCAAAGTTTGAATTACATTTTCTGAGTGAT
GATATCCGAAGTCATTTCTATATTCTCAGTGGTGATATCCAAGTGTCAAGGTTTGAATTACATTT
TCTCGATGGCGATATCCGAAATCATTTGCC
Found at i:16208281 original size:33 final size:33
Alignment explanation
Indices: 16208244--16208358 Score: 79
Period size: 33 Copynumber: 3.2 Consensus size: 33
16208234 TAGTTTTTTT
16208244 GTGGTGAAATTCGAAGTCATTTGTATATTCTCG
1 GTGGTGAAATTCGAAGTCATTTGTATATTCTCG
* * **
16208277 GTGGT-AATATTCGAGTGTCAAAGTTTGAATTACATTTTCTTA
1 GTGGTGAA-ATTCGA-AGTC--A-TTTG---T--ATATTCTCG
* *
16208319 GTGGTGATATCCGAAGTCATTTGTATATTCTCG
1 GTGGTGAAATTCGAAGTCATTTGTATATTCTCG
16208352 GTGGTGA
1 GTGGTGA
16208359 TATCTAAGTG
Statistics
Matches: 61, Mismatches: 10, Indels: 22
0.66 0.11 0.24
Matches are distributed among these distances:
32 2 0.03
33 24 0.39
34 3 0.05
35 1 0.02
36 1 0.02
37 4 0.07
38 4 0.07
39 1 0.02
40 1 0.02
41 3 0.05
42 16 0.26
43 1 0.02
ACGTcount: A:0.24, C:0.11, G:0.24, T:0.40
Consensus pattern (33 bp):
GTGGTGAAATTCGAAGTCATTTGTATATTCTCG
Found at i:16208436 original size:225 final size:225
Alignment explanation
Indices: 16207980--16208464 Score: 539
Period size: 225 Copynumber: 2.2 Consensus size: 225
16207970 TTTCTCGATG
* *
16207980 GTGATATCCTTGTGTTAAAGTTTGAATTGCATTTTTTCGGTGGCAATATCCGAAGTCATTTGTAT
1 GTGATATCCTAGTGTCAAAGTTTGAATTGCATTTTTTCGGTGGCAATATCCGAAGTCATTTGTAT
* * * * ** *
16208045 TTTTTCAATGGTGATATCCGAGTGTCATAGTTTGAATTGTATTTTCTCGATGATGATATCCGAAG
66 ATTCTCAATGGTAATATCCGAGTGTCAAAGTTTGAATTACATTTTCTAGATGATGATATCCGAAG
* * * * * *
16208110 TTATTTACTTTTTCTTAGTGGTGATATCCGAGTGTCAAGGTTTGAATTACATTTTCTCGGTGGTG
131 TCATTTACTTATTCTCAGTGGTGATATCCAAGTGTCAAGGTTTGAATTACATTTTCTCGATGGCG
* * * * * *
16208175 ATATCCGAAATCATTTGCCTTTTCTCGGTG
196 ATATCCGAAACCAATTGCATATTCTCAGTA
* * * * *
16208205 GTGATATCCTAGTGTCCAAGTTTGAATTGTAGTTTTTT-TGTGGTGAA-ATTCGAAGTCATTTGT
1 GTGATATCCTAGTGTCAAAGTTTGAATTGCA-TTTTTTCGGTGG-CAATATCCGAAGTCATTTGT
** * *
16208268 ATATTCTCGGTGGTAATATTCGAGTGTCAAAGTTTGAATTACATTTTCTTAG-TGGTGATATCCG
64 ATATTCTCAATGGTAATATCCGAGTGTCAAAGTTTGAATTACATTTTC-TAGATGATGATATCCG
* * * *
16208332 AAGTCATTT-GTATATTCTCGGTGGTGATATCTAAGTGTCAAGGTTTGAATTGCATTTTCTCGAT
128 AAGTCATTTACT-TATTCTCAGTGGTGATATCCAAGTGTCAAGGTTTGAATTACATTTTCTCGAT
*
16208396 GGCGATAT-CTAAAGCCAATTGCATATTCTCAGTA
192 GGCGATATCCGAAA-CCAATTGCATATTCTCAGTA
* * * *
16208430 GTGATATCCGAGTGTTAAAGCTTGAATTACATTTT
1 GTGATATCCTAGTGTCAAAGTTTGAATTGCATTTT
16208465 CTCAATTATG
Statistics
Matches: 214, Mismatches: 41, Indels: 11
0.80 0.15 0.04
Matches are distributed among these distances:
224 9 0.04
225 195 0.91
226 10 0.05
ACGTcount: A:0.24, C:0.13, G:0.21, T:0.42
Consensus pattern (225 bp):
GTGATATCCTAGTGTCAAAGTTTGAATTGCATTTTTTCGGTGGCAATATCCGAAGTCATTTGTAT
ATTCTCAATGGTAATATCCGAGTGTCAAAGTTTGAATTACATTTTCTAGATGATGATATCCGAAG
TCATTTACTTATTCTCAGTGGTGATATCCAAGTGTCAAGGTTTGAATTACATTTTCTCGATGGCG
ATATCCGAAACCAATTGCATATTCTCAGTA
Found at i:16208477 original size:150 final size:148
Alignment explanation
Indices: 16207978--16208482 Score: 528
Period size: 150 Copynumber: 3.4 Consensus size: 148
16207968 ATTTTCTCGA
** * * * * **
16207978 TGGTGATATCCTTGTGTTAAAGTTTGAATTGCATTTTTTCGGTGGCAATATCCGAAGTCATTTGT
1 TGGTGATATCCGAGTGTCAAAGTTTGAATTACATTTTCTCAGTGGTGATATCCGAAGTCATTTGT
* ** * * *
16208043 ATTTTTTCAATGGTGATATCCGAGTGTCATAGTTTGAATTGTATTTTCTCGATGATGATATCCGA
66 ATTTTCTCGGTGGTGATAT-CTAGTGTCA-AGTTTGAATTGTATTTTCTCGATGGTGATATCTGA
* * * * *
16208108 AGTTATTTACTTTTTCTTAG
129 AGTCATTTGCATATTCTCAG
* * * *
16208128 TGGTGATATCCGAGTGTCAAGGTTTGAATTACATTTTCTCGGTGGTGATATCCGAAATCATTTGC
1 TGGTGATATCCGAGTGTCAAAGTTTGAATTACATTTTCTCAGTGGTGATATCCGAAGTCATTTGT
* * * *
16208193 CTTTTCTCGGTGGTGATATCCTAGTGTCCAAGTTTGAATTGTAGTTTTTTTG-TGGTGAAAT-TC
66 ATTTTCTCGGTGGTGATAT-CTAGTGT-CAAGTTTGAATTGTA-TTTTCTCGATGGTGATATCT-
* *
16208256 GAAGTCATTTGTATATTCTCGG
127 GAAGTCATTTGCATATTCTCAG
* * *
16208278 TGGTAATATTCGAGTGTCAAAGTTTGAATTACATTTTCTTAGTGGTGATATCCGAAGTCATTTGT
1 TGGTGATATCCGAGTGTCAAAGTTTGAATTACATTTTCTCAGTGGTGATATCCGAAGTCATTTGT
* * * *
16208343 ATATTCTCGGTGGTGATATCTAAGTGTCAAGGTTTGAATTGCATTTTCTCGATGGCGATATCTAA
66 ATTTTCTCGGTGGTGATATCT-AGTGTCAA-GTTTGAATTGTATTTTCTCGATGGTGATATCTGA
* *
16208408 AGCCAATTGCATATTCTCAG
129 AGTCATTTGCATATTCTCAG
* * * * **
16208428 TAGTGATATCCGAGTGTTAAAGCTTGAATTACATTTTCTCAATTATGATATCCGA
1 TGGTGATATCCGAGTGTCAAAGTTTGAATTACATTTTCTCAGTGGTGATATCCGA
16208483 GTTTCTTTCG
Statistics
Matches: 293, Mismatches: 55, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
149 11 0.04
150 273 0.93
151 9 0.03
ACGTcount: A:0.24, C:0.13, G:0.21, T:0.41
Consensus pattern (148 bp):
TGGTGATATCCGAGTGTCAAAGTTTGAATTACATTTTCTCAGTGGTGATATCCGAAGTCATTTGT
ATTTTCTCGGTGGTGATATCTAGTGTCAAGTTTGAATTGTATTTTCTCGATGGTGATATCTGAAG
TCATTTGCATATTCTCAG
Found at i:16208730 original size:48 final size:49
Alignment explanation
Indices: 16208665--16208780 Score: 137
Period size: 48 Copynumber: 2.4 Consensus size: 49
16208655 TTAATAGTTT
* * *
16208665 AATTTTAAAGTTATTGAGCCTCTGCTTAAA-AGAGCTTTTTCAAGATGA-
1 AATTTTAAAGTTGTTGAGCCTCTACTTAAAGA-AGCTTTTCCAAGATGAG
* * * *
16208713 ACTTTTAAATTTGTTGAGCCTTTACTTAGAGAAGCTTTTCCAAGATGATG
1 AATTTTAAAGTTGTTGAGCCTCTACTTAAAGAAGCTTTTCCAAGATGA-G
16208763 AATTTTAAAGTTGTTGAG
1 AATTTTAAAGTTGTTGAG
16208781 GCCTTTGAAT
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
48 39 0.70
49 1 0.02
50 16 0.29
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.40
Consensus pattern (49 bp):
AATTTTAAAGTTGTTGAGCCTCTACTTAAAGAAGCTTTTCCAAGATGAG
Found at i:16209269 original size:22 final size:21
Alignment explanation
Indices: 16209222--16209272 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
16209212 GTAAAAAAAA
*
16209222 AAAAAGAAAAGAGATCCTGAAC
1 AAAAA-AAAAGAGATCCAGAAC
* *
16209244 AAAAAAAAAGAGTTTCCAGAAT
1 AAAAAAAAAGAG-ATCCAGAAC
16209266 AAAAAAA
1 AAAAAAA
16209273 TTCTTCCTGC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 7 0.28
22 18 0.72
ACGTcount: A:0.65, C:0.10, G:0.14, T:0.12
Consensus pattern (21 bp):
AAAAAAAAAGAGATCCAGAAC
Found at i:16211336 original size:15 final size:15
Alignment explanation
Indices: 16211299--16211336 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
16211289 ACTTTCAATA
16211299 AAAAAAAAACCAAAC
1 AAAAAAAAACCAAAC
16211314 AAATAAAAAA-CAAAC
1 AAA-AAAAAACCAAAC
*
16211329 TAAAAAAA
1 AAAAAAAA
16211337 CGAAAAGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 5 0.24
15 10 0.48
16 6 0.29
ACGTcount: A:0.82, C:0.13, G:0.00, T:0.05
Consensus pattern (15 bp):
AAAAAAAAACCAAAC
Found at i:16216922 original size:30 final size:28
Alignment explanation
Indices: 16216862--16216922 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 28
16216852 AGGTAAAAAC
*
16216862 TTTTTGTTTTTAAATTTTTTGAATATTA
1 TTTTTGTTTTTAAATTTTTTGAATAATA
*
16216890 TTTTTGTTACTTTAAATTTTATT-ATTAATA
1 TTTTTGTT--TTTAAATTTT-TTGAATAATA
16216920 TTT
1 TTT
16216923 ATGCATGTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 8 0.29
30 18 0.64
31 2 0.07
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.67
Consensus pattern (28 bp):
TTTTTGTTTTTAAATTTTTTGAATAATA
Found at i:16224895 original size:10 final size:10
Alignment explanation
Indices: 16224882--16224914 Score: 66
Period size: 10 Copynumber: 3.3 Consensus size: 10
16224872 CATAAATAGT
16224882 ATAATATTAC
1 ATAATATTAC
16224892 ATAATATTAC
1 ATAATATTAC
16224902 ATAATATTAC
1 ATAATATTAC
16224912 ATA
1 ATA
16224915 GGAGAGTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (10 bp):
ATAATATTAC
Found at i:16226566 original size:16 final size:15
Alignment explanation
Indices: 16226547--16226577 Score: 53
Period size: 15 Copynumber: 2.0 Consensus size: 15
16226537 TGGTTATAAA
16226547 TAATAATTAAAAAAAT
1 TAATAA-TAAAAAAAT
16226563 TAATAATAAAAAAAT
1 TAATAATAAAAAAAT
16226578 AAAAAAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
TAATAATAAAAAAAT
Found at i:16234183 original size:16 final size:16
Alignment explanation
Indices: 16234175--16234216 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
16234165 TTTTATTTTG
16234175 TTTCTTTTTTCAGTTT
1 TTTCTTTTTTCAGTTT
**
16234191 TTTC-TTTTT-AAATT
1 TTTCTTTTTTCAGTTT
16234205 TTTCTTTTTTCA
1 TTTCTTTTTTCA
16234217 TAAGGTATGC
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 7 0.32
15 10 0.45
16 5 0.23
ACGTcount: A:0.12, C:0.12, G:0.02, T:0.74
Consensus pattern (16 bp):
TTTCTTTTTTCAGTTT
Found at i:16236089 original size:16 final size:16
Alignment explanation
Indices: 16236044--16236090 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
16236034 TAAAAAAATT
16236044 TTAATATGATTTTTAAA
1 TTAATATGATTTTT-AA
*
16236061 TT-ATA-AATTTTTAA
1 TTAATATGATTTTTAA
*
16236075 TTAATATGATATTTAA
1 TTAATATGATTTTTAA
16236091 AATATTATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
14 4 0.16
15 9 0.36
16 10 0.40
17 2 0.08
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (16 bp):
TTAATATGATTTTTAA
Found at i:16236624 original size:11 final size:11
Alignment explanation
Indices: 16236604--16236640 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
16236594 ACCCTAAGAT
*
16236604 AAAAATTAAAA
1 AAAAAATAAAA
16236615 AAAAAAT-AAA
1 AAAAAATAAAA
16236625 AAAAAATAAAA
1 AAAAAATAAAA
16236636 AAAAA
1 AAAAA
16236641 TTAAGAATCT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 10 0.42
11 14 0.58
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (11 bp):
AAAAAATAAAA
Found at i:16236625 original size:10 final size:10
Alignment explanation
Indices: 16236612--16236641 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
16236602 ATAAAAATTA
16236612 AAAAAAAAAT
1 AAAAAAAAAT
16236622 AAAAAAAAAT
1 AAAAAAAAAT
16236632 AAAAAAAAAT
1 AAAAAAAAAT
16236642 TAAGAATCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (10 bp):
AAAAAAAAAT
Found at i:16241712 original size:16 final size:16
Alignment explanation
Indices: 16241691--16241723 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
16241681 TAACTTTTTA
16241691 TTTTTAAATCTAAGGG
1 TTTTTAAATCTAAGGG
16241707 TTTTTAAATCTAAGGG
1 TTTTTAAATCTAAGGG
16241723 T
1 T
16241724 AAGGCTAGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.06, G:0.18, T:0.45
Consensus pattern (16 bp):
TTTTTAAATCTAAGGG
Found at i:16243790 original size:12 final size:12
Alignment explanation
Indices: 16243773--16243825 Score: 61
Period size: 12 Copynumber: 4.2 Consensus size: 12
16243763 AGTTTCTGTT
16243773 TTTAAGGTTTCA
1 TTTAAGGTTTCA
*
16243785 TTTAAGGTTTTAA
1 TTTAAGG-TTTCA
*
16243798 TTTTAGGGTTTCA
1 -TTTAAGGTTTCA
*
16243811 TTTAGGGTTTCA
1 TTTAAGGTTTCA
16243823 TTT
1 TTT
16243826 TAGGATTTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
12 22 0.61
13 8 0.22
14 6 0.17
ACGTcount: A:0.21, C:0.06, G:0.19, T:0.55
Consensus pattern (12 bp):
TTTAAGGTTTCA
Found at i:16243808 original size:26 final size:27
Alignment explanation
Indices: 16243772--16243899 Score: 138
Period size: 27 Copynumber: 4.9 Consensus size: 27
16243762 AAGTTTCTGT
*
16243772 TTTTAAGGTTTCA-TTTAAGGTTTTAA
1 TTTTAGGGTTTCACTTTAAGGTTTTAA
* *
16243798 TTTTAGGGTTTCA-TTT-AGGGTTTCA
1 TTTTAGGGTTTCACTTTAAGGTTTTAA
* * * * *
16243823 TTTTAGGATTT-ATTTTAGGGATATAA
1 TTTTAGGGTTTCACTTTAAGGTTTTAA
* *
16243849 TTTTAGAGTTTCACTTTAGGGTTTTAA
1 TTTTAGGGTTTCACTTTAAGGTTTTAA
16243876 TTTTAGGGTTTCACTTTAAGGTTT
1 TTTTAGGGTTTCACTTTAAGGTTT
16243900 CGGTTTTAAG
Statistics
Matches: 84, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
24 1 0.01
25 20 0.24
26 29 0.35
27 34 0.40
ACGTcount: A:0.23, C:0.05, G:0.20, T:0.52
Consensus pattern (27 bp):
TTTTAGGGTTTCACTTTAAGGTTTTAA
Found at i:16243837 original size:12 final size:13
Alignment explanation
Indices: 16243772--16243900 Score: 118
Period size: 13 Copynumber: 9.9 Consensus size: 13
16243762 AAGTTTCTGT
*
16243772 TTTTAAGGTTTCA
1 TTTTAGGGTTTCA
* * *
16243785 TTTAAGGTTTTAA
1 TTTTAGGGTTTCA
16243798 TTTTAGGGTTTCA
1 TTTTAGGGTTTCA
16243811 -TTTAGGGTTTCA
1 TTTTAGGGTTTCA
*
16243823 TTTTAGGATTT-A
1 TTTTAGGGTTTCA
* *
16243835 TTTTAGGGATATAA
1 TTTTAGGG-TTTCA
*
16243849 TTTTAGAGTTTCA
1 TTTTAGGGTTTCA
* *
16243862 CTTTAGGGTTTTAA
1 TTTTAGGG-TTTCA
16243876 TTTTAGGGTTTCA
1 TTTTAGGGTTTCA
* *
16243889 CTTTAAGGTTTC
1 TTTTAGGGTTTC
16243901 GGTTTTAAGA
Statistics
Matches: 92, Mismatches: 20, Indels: 8
0.77 0.17 0.07
Matches are distributed among these distances:
12 20 0.22
13 53 0.58
14 19 0.21
ACGTcount: A:0.22, C:0.06, G:0.19, T:0.52
Consensus pattern (13 bp):
TTTTAGGGTTTCA
Found at i:16244157 original size:23 final size:23
Alignment explanation
Indices: 16244113--16244157 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
16244103 TATTATTATA
* * *
16244113 ATTTATTAATCTTTTATTATTTG
1 ATTTATTAATATTTAATAATTTG
*
16244136 ATTTTTTAATATTTAATAATTT
1 ATTTATTAATATTTAATAATTT
16244158 TTCAATATTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (23 bp):
ATTTATTAATATTTAATAATTTG
Found at i:16244408 original size:17 final size:17
Alignment explanation
Indices: 16244355--16244418 Score: 58
Period size: 17 Copynumber: 3.8 Consensus size: 17
16244345 AAAGTAATCT
*
16244355 ACATGGAAATTAAA-TT
1 ACATGGAAATTAAACTA
** * *
16244371 ACATAAAAACTAAAACAA
1 ACATGGAAA-TTAAACTA
16244389 ACATGGAAATTAAACTA
1 ACATGGAAATTAAACTA
*
16244406 ACAGGGAAATTAA
1 ACATGGAAATTAA
16244419 GCATGCATGA
Statistics
Matches: 36, Mismatches: 10, Indels: 3
0.73 0.20 0.06
Matches are distributed among these distances:
16 7 0.19
17 22 0.61
18 7 0.19
ACGTcount: A:0.58, C:0.11, G:0.11, T:0.20
Consensus pattern (17 bp):
ACATGGAAATTAAACTA
Found at i:16246372 original size:2 final size:2
Alignment explanation
Indices: 16246367--16246392 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
16246357 CTTTTTTTTA
16246367 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
16246393 TTATGGTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16246782 original size:72 final size:72
Alignment explanation
Indices: 16246631--16246785 Score: 166
Period size: 72 Copynumber: 2.2 Consensus size: 72
16246621 AATCATAAGC
* * * * * * * *
16246631 CAAAGAATAAAGAAACGACTAAGATTGAGCTACAAGTTGAGGAATAAAAATAATCGAGATTAAAT
1 CAAAAAATAAAAAAACGACTAAGACTGAACTACAAGTTGAGAAATAAAAATAACCAAGATTAAAC
* *
16246696 TGCAAGT
66 TACAAAT
* * * ** *
16246703 TAGAAAATAAAAAAACGACTAGGACTGAACTGTAAGTTGAGAAATAAAAATGACCAAGATTAAAC
1 CAAAAAATAAAAAAACGACTAAGACTGAACTACAAGTTGAGAAATAAAAATAACCAAGATTAAAC
16246768 TACAAAT
66 TACAAAT
16246775 CAAAAAATAAA
1 CAAAAAATAAA
16246786 GATGATCGAG
Statistics
Matches: 65, Mismatches: 18, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
72 65 1.00
ACGTcount: A:0.54, C:0.10, G:0.16, T:0.19
Consensus pattern (72 bp):
CAAAAAATAAAAAAACGACTAAGACTGAACTACAAGTTGAGAAATAAAAATAACCAAGATTAAAC
TACAAAT
Found at i:16246783 original size:35 final size:35
Alignment explanation
Indices: 16246744--16246825 Score: 101
Period size: 35 Copynumber: 2.3 Consensus size: 35
16246734 GTAAGTTGAG
* *
16246744 AAATAAAAATGACCAAGATTAAACTACAAATCAAA
1 AAATAAAGATGACCAAGACTAAACTACAAATCAAA
* * * * *
16246779 AAATAAAGATGATCGAGACTGAACTGCAAGTCAAA
1 AAATAAAGATGACCAAGACTAAACTACAAATCAAA
16246814 AAATAAAGATGA
1 AAATAAAGATGA
16246826 TTAGGACTGA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.57, C:0.12, G:0.13, T:0.17
Consensus pattern (35 bp):
AAATAAAGATGACCAAGACTAAACTACAAATCAAA
Found at i:16246834 original size:35 final size:35
Alignment explanation
Indices: 16246765--16246967 Score: 105
Period size: 35 Copynumber: 5.8 Consensus size: 35
16246755 ACCAAGATTA
* * *
16246765 AACTACAAATCAAAAAATAAAGATGA-TCGAGACTG
1 AACTGCAAGTCAAAAAATAAAGATGATTAG-GACTG
16246800 AACTGCAAGTCAAAAAATAAAGATGATTAGGACTG
1 AACTGCAAGTCAAAAAATAAAGATGATTAGGACTG
** * **
16246835 AA-T-CATAGATTGAAAAATAATGATGATCGGGACT-
1 AACTGCA-AG-TCAAAAAATAAAGATGATTAGGACTG
* * *
16246869 AAGCTGGATGTC--AAAATAAAGAATGACTAGGACTG
1 AA-CTGCAAGTCAAAAAATAAAG-ATGATTAGGACTG
* * * ** *
16246904 AACCAG-AAGTCAAAGAATAAAAAATGATTAACACTA
1 AA-CTGCAAGTCAAAAAAT-AAAGATGATTAGGACTG
* ** *
16246940 AATTGTGAGTTAAAAAATAAAGATGATT
1 AACTGCAAGTCAAAAAATAAAGATGATT
16246968 GAGAATTGAA
Statistics
Matches: 126, Mismatches: 30, Indels: 24
0.70 0.17 0.13
Matches are distributed among these distances:
33 10 0.08
34 18 0.14
35 66 0.52
36 28 0.22
37 4 0.03
ACGTcount: A:0.50, C:0.10, G:0.18, T:0.22
Consensus pattern (35 bp):
AACTGCAAGTCAAAAAATAAAGATGATTAGGACTG
Found at i:16246959 original size:36 final size:37
Alignment explanation
Indices: 16246919--16247005 Score: 99
Period size: 36 Copynumber: 2.4 Consensus size: 37
16246909 GAAGTCAAAG
16246919 AATAAAAAATGATT-A-ACACTAAATTGTGAGTTAAAA
1 AATAAAAAATGATTGAGA-ACTAAATTGTGAGTTAAAA
* * * *
16246955 AAT-AAAGATGATTGAGAATTGAATTGTGAGTTAGAA
1 AATAAAAAATGATTGAGAACTAAATTGTGAGTTAAAA
*
16246991 AATAAAAAATAATTG
1 AATAAAAAATGATTG
16247006 GAATTGAACC
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
35 9 0.21
36 23 0.55
37 10 0.24
ACGTcount: A:0.53, C:0.02, G:0.16, T:0.29
Consensus pattern (37 bp):
AATAAAAAATGATTGAGAACTAAATTGTGAGTTAAAA
Found at i:16247010 original size:36 final size:36
Alignment explanation
Indices: 16246940--16247013 Score: 105
Period size: 36 Copynumber: 2.1 Consensus size: 36
16246930 ATTAACACTA
* *
16246940 AATTGTGAGTTAAAAAATAAAGATGATTGAGAATTG
1 AATTGTGAGTTAAAAAATAAAAATAATTGAGAATTG
*
16246976 AATTGTGAGTTAGAAAATAAAAAATAATTG-GAATTG
1 AATTGTGAGTTAAAAAAT-AAAAATAATTGAGAATTG
16247012 AA
1 AA
16247014 CCATGAGTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
36 25 0.74
37 9 0.26
ACGTcount: A:0.50, C:0.00, G:0.20, T:0.30
Consensus pattern (36 bp):
AATTGTGAGTTAAAAAATAAAAATAATTGAGAATTG
Found at i:16247021 original size:36 final size:36
Alignment explanation
Indices: 16246945--16247021 Score: 84
Period size: 36 Copynumber: 2.1 Consensus size: 36
16246935 CACTAAATTG
* * ***
16246945 TGAGTTAAAAAATAAAGATGATTGAGAATTGAATTG
1 TGAGTTAAAAAATAAAAATAATTGAGAATTGAACCA
*
16246981 TGAGTTAGAAAATAAAAAATAATTG-GAATTGAACCA
1 TGAGTTAAAAAAT-AAAAATAATTGAGAATTGAACCA
16247017 TGAGT
1 TGAGT
16247022 CAGGAAATCA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
36 25 0.74
37 9 0.26
ACGTcount: A:0.48, C:0.03, G:0.21, T:0.29
Consensus pattern (36 bp):
TGAGTTAAAAAATAAAAATAATTGAGAATTGAACCA
Found at i:16249856 original size:18 final size:18
Alignment explanation
Indices: 16249833--16249869 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
16249823 GCTTTATGGA
16249833 CTCATAATCTTCTGTGGC
1 CTCATAATCTTCTGTGGC
16249851 CTCATAATCTTCTGTGGC
1 CTCATAATCTTCTGTGGC
16249869 C
1 C
16249870 CTACCGACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.30, G:0.16, T:0.38
Consensus pattern (18 bp):
CTCATAATCTTCTGTGGC
Found at i:16255300 original size:12 final size:12
Alignment explanation
Indices: 16255285--16255319 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
16255275 ATCATCATTA
*
16255285 TTATTATTGTTG
1 TTATTATTATTG
*
16255297 TTATTATAATTG
1 TTATTATTATTG
16255309 TTATTATTATT
1 TTATTATTATT
16255320 AATTCTCATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.66
Consensus pattern (12 bp):
TTATTATTATTG
Found at i:16255300 original size:15 final size:15
Alignment explanation
Indices: 16255281--16255320 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
16255271 CATCATCATC
16255281 ATTATTATTATTGTT
1 ATTATTATTATTGTT
* *
16255296 GTTATTATAATTGTT
1 ATTATTATTATTGTT
16255311 ATTATTATTA
1 ATTATTATTA
16255321 ATTCTCATGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.62
Consensus pattern (15 bp):
ATTATTATTATTGTT
Found at i:16265504 original size:13 final size:14
Alignment explanation
Indices: 16265486--16265514 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
16265476 GTATATCTAG
16265486 AAAATAATTTT-AA
1 AAAATAATTTTCAA
16265499 AAAATAATTTTCAA
1 AAAATAATTTTCAA
16265513 AA
1 AA
16265515 GTTGATCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (14 bp):
AAAATAATTTTCAA
Found at i:16268560 original size:21 final size:22
Alignment explanation
Indices: 16268512--16268566 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
16268502 TCTCTTCCTT
*
16268512 TTTGTTTATGCTCTTTATACCA
1 TTTGTTTAAGCTCTTTATACCA
** *
16268534 AATGTTTAAGCTC-TTATATCA
1 TTTGTTTAAGCTCTTTATACCA
16268555 TTTGTTATAAGC
1 TTTGTT-TAAGC
16268567 ATACAAGAAG
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 11 0.42
22 15 0.58
ACGTcount: A:0.25, C:0.15, G:0.11, T:0.49
Consensus pattern (22 bp):
TTTGTTTAAGCTCTTTATACCA
Found at i:16268958 original size:16 final size:16
Alignment explanation
Indices: 16268937--16268967 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16268927 AAGCTCATAT
*
16268937 CAATTGTTATAGATAC
1 CAATTGTTAAAGATAC
16268953 CAATTGTTAAAGATA
1 CAATTGTTAAAGATA
16268968 TGTTATGATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (16 bp):
CAATTGTTAAAGATAC
Found at i:16278984 original size:23 final size:21
Alignment explanation
Indices: 16278957--16279023 Score: 59
Period size: 23 Copynumber: 3.1 Consensus size: 21
16278947 AAGTAATATT
16278957 AAATATGTAAAATATAAAAGATA
1 AAATAT-TAAAATATAAAA-ATA
**
16278980 AAATAATTTTAATATAAAAAT-
1 AAAT-ATTAAAATATAAAAATA
16279001 AAA-A-TAAAATATAAGAAATA
1 AAATATTAAAATATAA-AAATA
16279021 AAA
1 AAA
16279024 ATATATAGTG
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
18 8 0.22
19 5 0.14
20 3 0.08
21 3 0.08
22 2 0.05
23 14 0.38
24 2 0.05
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (21 bp):
AAATATTAAAATATAAAAATA
Found at i:16279026 original size:20 final size:18
Alignment explanation
Indices: 16278964--16279023 Score: 66
Period size: 19 Copynumber: 3.0 Consensus size: 18
16278954 ATTAAATATG
16278964 TAAAATATAAAAGATAAAA
1 TAAAATATAAAA-ATAAAA
16278983 TAATTTTAATATAAAAATAAAA
1 TAA----AATATAAAAATAAAA
16279005 TAAAATATAAGAAATAAAA
1 TAAAATATAA-AAATAAAA
16279024 ATATATAGTG
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
18 7 0.19
19 11 0.31
22 9 0.25
23 9 0.25
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (18 bp):
TAAAATATAAAAATAAAA
Found at i:16293410 original size:21 final size:22
Alignment explanation
Indices: 16293386--16293426 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
16293376 GAATCAAATT
* *
16293386 AAAAAT-TATATTTTTAATTAA
1 AAAAATCTAAATTTTGAATTAA
16293407 AAAAATCTAAATTTTGAATT
1 AAAAATCTAAATTTTGAATT
16293427 TTAAATTGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (22 bp):
AAAAATCTAAATTTTGAATTAA
Found at i:16294849 original size:274 final size:267
Alignment explanation
Indices: 16294328--16294872 Score: 779
Period size: 268 Copynumber: 2.0 Consensus size: 267
16294318 GAACTACATT
* * * *
16294328 TTGGTTTTATAATTGTAGTCTTTTAATTAAACATGATGTTTGTATAATTATAAACACAATATTTG
1 TTGGATTTATAAATGTAGTCTTTTAATTAAACATGATGCTTGTATAATTATAAACACAATATTTA
* * * **
16294393 ATAATTAAATAGGCATGATATTTTGAAATTATAAACGTAGTCTATATTCAAAGACAAAATGATGT
66 ACAATTAAATAAGCACGATATTTTGAAATTATAAACACAGTCTATATTCAAAGACAAAATGATGT
* *
16294458 TTATAAGTGTAGTGTTTTACAACTCATAAAAAAAAAATTAATTTAACAAGCATGATGTTTATCAA
131 TTATAAGTGTAGTGTTTGACAAATCAT-AAAAAAAAATTAATTTAACAAGCATGATGTTTATCAA
*
16294523 ATTATAAACATAGTGTTTAATATTCTTAATAAACATTTTTCCTAAAATCAAATTACGAGT-TTCT
195 ATTATAAACATAGTGTTTAATATTCTTAATAAACATTTTTCCTAAAATCAAATTACAAGTCTT-T
16294587 TAACATCTC
259 TAACATCTC
** *
16294596 TTGGATTTATAAATGTAGTCTTTTAATTAAACATGATGCTTGTATAATTATAAATGCAGTATTTA
1 TTGGATTTATAAATGTAGTCTTTTAATTAAACATGATGCTTGTATAATTATAAACACAATATTTA
* * **
16294661 ACAATTAAATAAGCACGATGTTTTGAAATTATAAACACAGTTTATATTCAAAGACAAGTTGACAT
66 ACAATTAAATAAGCACGATATTTTGAAATTATAAACACAGTCTATATTCAAAGACAAAATG--AT
* *
16294726 TTCTGCCACTATAAGTGTAGTGTTTGACAAATCAT-AAAAAAATTTAATTTAACAAGCATGATGT
129 GT-T-----TATAAGTGTAGTGTTTGACAAATCATAAAAAAAAATTAATTTAACAAGCATGATGT
*
16294790 TTATCAAATTATAAACTTAGTGTTTAATATTCTTAATAAACATTTTTCCTAAAATCAAATTACAA
188 TTATCAAATTATAAACATAGTGTTTAATATTCTTAATAAACATTTTTCCTAAAATCAAATTACAA
*
16294855 GTCTTTTGACATCTC
253 GTCTTTTAACATCTC
16294870 TTG
1 TTG
16294873 ATATTCATAC
Statistics
Matches: 245, Mismatches: 23, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
268 110 0.45
270 3 0.01
271 1 0.00
274 105 0.43
275 2 0.01
276 24 0.10
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (267 bp):
TTGGATTTATAAATGTAGTCTTTTAATTAAACATGATGCTTGTATAATTATAAACACAATATTTA
ACAATTAAATAAGCACGATATTTTGAAATTATAAACACAGTCTATATTCAAAGACAAAATGATGT
TTATAAGTGTAGTGTTTGACAAATCATAAAAAAAAATTAATTTAACAAGCATGATGTTTATCAAA
TTATAAACATAGTGTTTAATATTCTTAATAAACATTTTTCCTAAAATCAAATTACAAGTCTTTTA
ACATCTC
Found at i:16295473 original size:29 final size:29
Alignment explanation
Indices: 16295431--16295519 Score: 117
Period size: 29 Copynumber: 3.1 Consensus size: 29
16295421 GATTGATGTA
16295431 TATTGATTATGGAATGCAATTACACTGTC
1 TATTGATTATGGAATGCAATTACACTGTC
* * *
16295460 TATTTATTATGGAAAGCAATTACA-TAGCC
1 TATTGATTATGGAATGCAATTACACT-GTC
* *
16295489 TATTGATTATAGAATGCAATTACACTATC
1 TATTGATTATGGAATGCAATTACACTGTC
16295518 TA
1 TA
16295520 ATGCAGTTAC
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
28 1 0.02
29 48 0.96
30 1 0.02
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.37
Consensus pattern (29 bp):
TATTGATTATGGAATGCAATTACACTGTC
Found at i:16295589 original size:40 final size:40
Alignment explanation
Indices: 16295534--16295615 Score: 128
Period size: 40 Copynumber: 2.0 Consensus size: 40
16295524 AGTTACATTG
*
16295534 CATTGCTCGGTTGATGTCTATTGATTATGAAATGCAATTA
1 CATTGCTCAGTTGATGTCTATTGATTATGAAATGCAATTA
* * *
16295574 CATTGCTCAGTTGATGTTTATTGATTATGGAATGTAATTA
1 CATTGCTCAGTTGATGTCTATTGATTATGAAATGCAATTA
16295614 CA
1 CA
16295616 CTATCTACTG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.28, C:0.11, G:0.20, T:0.41
Consensus pattern (40 bp):
CATTGCTCAGTTGATGTCTATTGATTATGAAATGCAATTA
Found at i:16295637 original size:69 final size:68
Alignment explanation
Indices: 16295550--16295739 Score: 265
Period size: 69 Copynumber: 2.8 Consensus size: 68
16295540 TCGGTTGATG
*
16295550 TCTATTGATTATGAAATGCAATTACATTGCTC-AGTTGATGTTTATTGATTATGGAATGTAATTA
1 TCTATTGATTATG-AATGCAATTACATTGCTCGA-TTGATGTTTATTGATTATGGAATGCAATTA
16295614 CACTA
64 CACTA
* * * * *
16295619 TCTACTGATTATAGAATGCTATTACATTGCTTGATTGATGTCTATTGATTATGGAATGCACTTAC
1 TCTATTGATTAT-GAATGCAATTACATTGCTCGATTGATGTTTATTGATTATGGAATGCAATTAC
*
16295684 ATTA
65 ACTA
*
16295688 TCTATTGAATATGGAATGCAATTACATTGCTCGATTGATGTTTATTGATTAT
1 TCTATTGATTAT-GAATGCAATTACATTGCTCGATTGATGTTTATTGATTAT
16295740 AAAATCCAAT
Statistics
Matches: 106, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
69 104 0.98
70 2 0.02
ACGTcount: A:0.30, C:0.11, G:0.16, T:0.43
Consensus pattern (68 bp):
TCTATTGATTATGAATGCAATTACATTGCTCGATTGATGTTTATTGATTATGGAATGCAATTACA
CTA
Found at i:16295692 original size:29 final size:29
Alignment explanation
Indices: 16295659--16295715 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
16295649 TTGATTGATG
* *
16295659 TCTATTGATTATGGAATGCACTTACATTA
1 TCTATTGAATATGGAATGCAATTACATTA
16295688 TCTATTGAATATGGAATGCAATTACATT
1 TCTATTGAATATGGAATGCAATTACATT
16295716 GCTCGATTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.40
Consensus pattern (29 bp):
TCTATTGAATATGGAATGCAATTACATTA
Found at i:16295858 original size:92 final size:92
Alignment explanation
Indices: 16295701--16295882 Score: 346
Period size: 92 Copynumber: 2.0 Consensus size: 92
16295691 ATTGAATATG
16295701 GAATGCAATTACATTGCTCGATTGATGTTTATTGATTATAAAATCCAATGTATTATTTTATTCTT
1 GAATGCAATTACATTGCTCGATTGATGTTTATTGATTATAAAATCCAATGTATTATTTTATTCTT
*
16295766 TATTGGAATGCTTCTGGCATTCTAGTT
66 TATTAGAATGCTTCTGGCATTCTAGTT
16295793 GAATGCAATTACATTGCTCGATTGATGTTTATTGATTATAAAATCCAATGTATTATTTTATTCTT
1 GAATGCAATTACATTGCTCGATTGATGTTTATTGATTATAAAATCCAATGTATTATTTTATTCTT
*
16295858 TATTAGAATGCTTTTGGCATTCTAG
66 TATTAGAATGCTTCTGGCATTCTAG
16295883 CTGAGTATAA
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
92 88 1.00
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.46
Consensus pattern (92 bp):
GAATGCAATTACATTGCTCGATTGATGTTTATTGATTATAAAATCCAATGTATTATTTTATTCTT
TATTAGAATGCTTCTGGCATTCTAGTT
Found at i:16311353 original size:70 final size:70
Alignment explanation
Indices: 16311279--16311413 Score: 191
Period size: 70 Copynumber: 1.9 Consensus size: 70
16311269 TTTCAAATTT
* ** *
16311279 CATATTTTCAACTTTTCCTTTTCCTCCATTCCATTTTCA-TGAAAAATAATCAAAATAATTTTTT
1 CATATTTTCAACTTTTCCATTTCCTCCATTAAATTTTCATTG-AAAATAATCAAAACAATTTTTT
16311343 TTATTG
65 TTATTG
* **
16311349 CATATTTTCAACTTTTTCATTTCCTCTTTTAAATTTTCATTGAAAATAATCAAAACAATTTTTTT
1 CATATTTTCAACTTTTCCATTTCCTCCATTAAATTTTCATTGAAAATAATCAAAACAATTTTTTT
16311414 ATTTTGACTT
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
70 55 0.96
71 2 0.04
ACGTcount: A:0.31, C:0.17, G:0.02, T:0.50
Consensus pattern (70 bp):
CATATTTTCAACTTTTCCATTTCCTCCATTAAATTTTCATTGAAAATAATCAAAACAATTTTTTT
TATTG
Found at i:16312253 original size:38 final size:37
Alignment explanation
Indices: 16312183--16312254 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 37
16312173 TGTAAATTAT
16312183 TTTATTTAATATTTATAAAATTAATAAATAATTTAAA
1 TTTATTTAATATTTATAAAATTAATAAATAATTTAAA
*
16312220 TTTATTTAAATTATTTAT-ATATTAA-ATAATAATTT
1 TTTATTT-AA-TATTTATAAAATTAATA-AATAATTT
16312255 TATAAATAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
37 8 0.26
38 16 0.52
39 7 0.23
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (37 bp):
TTTATTTAATATTTATAAAATTAATAAATAATTTAAA
Found at i:16312969 original size:58 final size:60
Alignment explanation
Indices: 16312900--16313016 Score: 202
Period size: 60 Copynumber: 2.0 Consensus size: 60
16312890 GAATTACTTA
*
16312900 AAAAAATAAAAATAA-AATTATTTTAGAACT-AAAAATTTGTTAAATATATTATAATTTT
1 AAAAAATAAAAATAATAATTATTTTAGAACTAAAAAAATTGTTAAATATATTATAATTTT
*
16312958 AAAAAATAAAAATAATAATTATTTTAGAATTAAAAAAATTGTTAAATATATTATAATTT
1 AAAAAATAAAAATAATAATTATTTTAGAACTAAAAAAATTGTTAAATATATTATAATTT
16313017 CTTCTAACAT
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
58 15 0.27
59 14 0.25
60 26 0.47
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.39
Consensus pattern (60 bp):
AAAAAATAAAAATAATAATTATTTTAGAACTAAAAAAATTGTTAAATATATTATAATTTT
Found at i:16314829 original size:31 final size:31
Alignment explanation
Indices: 16314791--16314852 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
16314781 ATGGAATATA
* *
16314791 ATTTGAAAGTTCAATG-TGCTAATTGTACATT
1 ATTTGAAAATTCAA-GATGCAAATTGTACATT
16314822 ATTTGAAAATTCAAGATGCAAATTGTACATT
1 ATTTGAAAATTCAAGATGCAAATTGTACATT
16314853 TTATTTCTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 1 0.04
31 27 0.96
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.39
Consensus pattern (31 bp):
ATTTGAAAATTCAAGATGCAAATTGTACATT
Found at i:16318782 original size:15 final size:15
Alignment explanation
Indices: 16318759--16318797 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
16318749 TAGGTGGAGA
* *
16318759 ATGATAAGGATGATG
1 ATGACAAGGATGAAG
16318774 ATGACAAGGATGAAG
1 ATGACAAGGATGAAG
*
16318789 ATGTCAAGG
1 ATGACAAGG
16318798 TAGACACTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.41, C:0.05, G:0.33, T:0.21
Consensus pattern (15 bp):
ATGACAAGGATGAAG
Found at i:16319260 original size:21 final size:21
Alignment explanation
Indices: 16319236--16319281 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
16319226 GACCAATTTG
16319236 ATTTAATAAATTAACTTGAGA
1 ATTTAATAAATTAACTTGAGA
**
16319257 ATTTGTTAAATTAACTTGAGA
1 ATTTAATAAATTAACTTGAGA
16319278 ATTT
1 ATTT
16319282 TGAAGGTTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.41, C:0.04, G:0.11, T:0.43
Consensus pattern (21 bp):
ATTTAATAAATTAACTTGAGA
Found at i:16319290 original size:26 final size:21
Alignment explanation
Indices: 16319242--16319281 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
16319232 TTTGATTTAA
16319242 TAAATTAACTTGAGAATTTGT
1 TAAATTAACTTGAGAATTTGT
16319263 TAAATTAACTTGAGAATTT
1 TAAATTAACTTGAGAATTT
16319282 TGAAGGTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.05, G:0.12, T:0.42
Consensus pattern (21 bp):
TAAATTAACTTGAGAATTTGT
Found at i:16330147 original size:2 final size:2
Alignment explanation
Indices: 16330140--16330170 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
16330130 TTTACTAAAA
*
16330140 AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
16330171 AATACATGCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:16330316 original size:21 final size:22
Alignment explanation
Indices: 16330292--16330348 Score: 55
Period size: 22 Copynumber: 2.5 Consensus size: 22
16330282 TCTATTGTTT
16330292 TCTTTTTTTCTTCATTT-TTTC
1 TCTTTTTTTCTTCATTTATTTC
*
16330313 TCTTATTTTGT-TTCTTTTATTTC
1 TCTT-TTTT-TCTTCATTTATTTC
*
16330336 CCTTTTTGTTCTT
1 TCTTTTT-TTCTT
16330349 TCTTTTGGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
21 4 0.14
22 14 0.48
23 11 0.38
ACGTcount: A:0.05, C:0.18, G:0.04, T:0.74
Consensus pattern (22 bp):
TCTTTTTTTCTTCATTTATTTC
Found at i:16331259 original size:16 final size:17
Alignment explanation
Indices: 16331238--16331274 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
16331228 AGTATACTCG
16331238 TTCACA-AT-TAATTAGA
1 TTCACAGATATAA-TAGA
16331254 TTCACAGATATAATAGA
1 TTCACAGATATAATAGA
16331271 TTCA
1 TTCA
16331275 TGAATGATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 6 0.32
17 10 0.53
18 3 0.16
ACGTcount: A:0.43, C:0.14, G:0.08, T:0.35
Consensus pattern (17 bp):
TTCACAGATATAATAGA
Found at i:16332034 original size:22 final size:21
Alignment explanation
Indices: 16332008--16332048 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
16331998 AATTTCCTAT
16332008 TTTATTAATTCTCATATATATA
1 TTTATTAATT-TCATATATATA
*
16332030 TTTATTAATTTTATATATA
1 TTTATTAATTTCATATATA
16332049 GATATTTCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.59
Consensus pattern (21 bp):
TTTATTAATTTCATATATATA
Found at i:16332047 original size:23 final size:22
Alignment explanation
Indices: 16332008--16332055 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
16331998 AATTTCCTAT
*
16332008 TTTATTAATTCTCATATATATA
1 TTTATTAATTCTCATATAGATA
* *
16332030 TTTATTAATTTTATATATAGATA
1 TTTATTAATTCT-CATATAGATA
16332053 TTT
1 TTT
16332056 CCTTTTTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.58
Consensus pattern (22 bp):
TTTATTAATTCTCATATAGATA
Found at i:16345405 original size:50 final size:50
Alignment explanation
Indices: 16345340--16345677 Score: 248
Period size: 50 Copynumber: 6.8 Consensus size: 50
16345330 TTTTGAAAGG
** *
16345340 AAATTTCTAAAGTTCCTTGCCTATCTTCATAGGAACCTTTTTCAAAAAAAAA
1 AAATTT-TAAAGTTTGTTGCCTATCTTTATAGGAACCTTTTTC-AAAAAAAA
** * * * *
16345392 AAATTTT-AAGTTCCTTGTCTAT-TTTCATAGGAGCCCTTTTCAAAAAAATT
1 AAATTTTAAAGTTTGTTGCCTATCTTT-ATAGGAACCTTTTTCAAAAAAA-A
*** * * *
16345442 TTTTTTTAAA--CTGTTGCCTATCTTTATAGGAACCCTTTTC-AAAAAGA
1 AAATTTTAAAGTTTGTTGCCTATCTTTATAGGAACCTTTTTCAAAAAAAA
* * * **
16345489 AAATTTTAAAGTTTGTTGCCTAAT-TTTATATGAGCATTTTT-TTAAAAAA
1 AAATTTTAAAGTTTGTTGCCT-ATCTTTATAGGAACCTTTTTCAAAAAAAA
* * * * **
16345538 AAATTTT-AAGTTTGTTGCTTATGTTTATA-AAAGCCCTTTTCAAAATGAA
1 AAATTTTAAAGTTTGTTGCCTATCTTTATAGGAA-CCTTTTTCAAAAAAAA
* *
16345587 AATTTTTAAAGTTTGTTGCCTATCTTTATAGGAA-CTCTTTTCAAAAAAGA
1 AAATTTTAAAGTTTGTTGCCTATCTTTATAGGAACCT-TTTTCAAAAAAAA
* * *
16345637 AAATTTTAAAGTTTGTTGTCTAT-TTTCGTAGGAGCCTTTTT
1 AAATTTTAAAGTTTGTTGCCTATCTTT-ATAGGAACCTTTTT
16345678 TCCAAAATGA
Statistics
Matches: 224, Mismatches: 46, Indels: 34
0.74 0.15 0.11
Matches are distributed among these distances:
47 10 0.04
48 28 0.12
49 77 0.34
50 96 0.43
51 7 0.03
52 6 0.03
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (50 bp):
AAATTTTAAAGTTTGTTGCCTATCTTTATAGGAACCTTTTTCAAAAAAAA
Found at i:16345499 original size:148 final size:145
Alignment explanation
Indices: 16345335--16345677 Score: 372
Period size: 148 Copynumber: 2.3 Consensus size: 145
16345325 GCCCTTTTTG
* ** *
16345335 AAAGGAAATTTCTAAAGTTCCTTGCCTATCTTCATAGGAACCTTTTTCAAAAAAAAAAAATTTTA
1 AAAGAAAATTT-TAAAGTTTGTTGCCTAT-TTCATAGGAGCCTTTTT--AAAAAAAAAAATTTTA
** *
16345400 AGTTCCTTG-TCTAT-TTTCATAGGAGCCCTTTTCAAAA-AAATTTTTTTTTAAA-CTGTTGCCT
62 AGTTCCTTGCT-TATGTTT-ATAAAAGCCCTTTTCAAAAGAAA---ATTTTTAAAGCTGTTGCCT
16345461 ATCTTTATAGGAACCCTTTTC-AA
122 ATCTTTATAGGAACCCTTTTCAAA
* * * **
16345484 AAAGAAAATTTTAAAGTTTGTTGCCTAATTTTATATGAGCATTTTTTTAAAAAAAAATTTTAAGT
1 AAAGAAAATTTTAAAGTTTGTTGCCT-ATTTCATAGGAGCCTTTTTAAAAAAAAAAATTTTAAGT
** *
16345549 TTGTTGCTTATGTTTATAAAAGCCCTTTTCAAAATGAAAATTTTTAAAGTTTGTTGCCTATCTTT
65 TCCTTGCTTATGTTTATAAAAGCCCTTTTCAAAA-GAAAATTTTTAAAG-CTGTTGCCTATCTTT
*
16345614 ATAGGAACTCTTTTCAAA
128 ATAGGAACCCTTTTCAAA
* *
16345632 AAAGAAAATTTTAAAGTTTGTTGTCTATTTTCGTAGGAGCCTTTTT
1 AAAGAAAATTTTAAAGTTTGTTGCCTA-TTTCATAGGAGCCTTTTT
16345678 TCCAAAATGA
Statistics
Matches: 164, Mismatches: 21, Indels: 19
0.80 0.10 0.09
Matches are distributed among these distances:
145 8 0.05
146 41 0.25
147 33 0.20
148 70 0.43
149 12 0.07
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (145 bp):
AAAGAAAATTTTAAAGTTTGTTGCCTATTTCATAGGAGCCTTTTTAAAAAAAAAAATTTTAAGTT
CCTTGCTTATGTTTATAAAAGCCCTTTTCAAAAGAAAATTTTTAAAGCTGTTGCCTATCTTTATA
GGAACCCTTTTCAAA
Found at i:16345693 original size:50 final size:50
Alignment explanation
Indices: 16345279--16345659 Score: 254
Period size: 49 Copynumber: 7.7 Consensus size: 50
16345269 ACTTTCAAAC
* * * * * * *
16345279 CTTTTC-AAAAAGAAAATTTTCAAGTTTGTTGCTTATCTTAACATGAGCC
1 CTTTTCAAAAAAGAAAATTTTAAAGTTTGTTGCCTATCTTTATAGGAACT
** * ** *
16345328 CTTTT--TGAAAGGAAATTTCTAAAGTTCCTTGCCTATCTTCATAGGAAC-
1 CTTTTCAAAAAAGAAAATTT-TAAAGTTTGTTGCCTATCTTTATAGGAACT
* ** * * *
16345376 CTTTTTCAAAAAAAAAAAATTTT-AAGTTCCTTGTCTAT-TTTCATAGGAGCC
1 C-TTTTC-AAAAAAGAAAATTTTAAAGTTTGTTGCCTATCTTT-ATAGGAACT
*** * *
16345427 CTTTTCAAAAAA-ATTTTTTTTTAAA--CTGTTGCCTATCTTTATAGGAACC
1 CTTTTCAAAAAAGA--AAATTTTAAAGTTTGTTGCCTATCTTTATAGGAACT
* *
16345476 CTTTTC-AAAAAGAAAATTTTAAAGTTTGTTGCCTAAT-TTTATATGAGCAT
1 CTTTTCAAAAAAGAAAATTTTAAAGTTTGTTGCCT-ATCTTTATAGGAAC-T
** * * * *
16345526 -TTTTTTAAAAA-AAAATTTT-AAGTTTGTTGCTTATGTTTATA-AAAGCC
1 CTTTTCAAAAAAGAAAATTTTAAAGTTTGTTGCCTATCTTTATAGGAA-CT
*
16345573 CTTTTC-AAAATGAAAATTTTTAAAGTTTGTTGCCTATCTTTATAGGAACT
1 CTTTTCAAAAAAGAAAA-TTTTAAAGTTTGTTGCCTATCTTTATAGGAACT
*
16345623 CTTTTCAAAAAAGAAAATTTTAAAGTTTGTTGTCTAT
1 CTTTTCAAAAAAGAAAATTTTAAAGTTTGTTGCCTAT
16345660 TTTCGTAGGA
Statistics
Matches: 261, Mismatches: 46, Indels: 49
0.73 0.13 0.14
Matches are distributed among these distances:
47 14 0.05
48 44 0.17
49 93 0.36
50 86 0.33
51 15 0.06
52 9 0.03
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.42
Consensus pattern (50 bp):
CTTTTCAAAAAAGAAAATTTTAAAGTTTGTTGCCTATCTTTATAGGAACT
Found at i:16356992 original size:74 final size:74
Alignment explanation
Indices: 16356890--16357029 Score: 183
Period size: 74 Copynumber: 1.9 Consensus size: 74
16356880 ATCAATTGGA
** * ** *
16356890 TTTTTATATTAAATAAGTCTTAATTTTGAAACTACCAAAATAGATCGGTCCTTTCCAAAAATGGA
1 TTTTTATACAAAATAAGTCTTAATTTTGAAACTACCAAAATAGATCGATCCCCTCAAAAAATGGA
16356955 TTGATCAAT
66 TTGATCAAT
** *
16356964 TTTTTATACAAAATAAGTCTTGAA-TTTGAAACTAGGAAAATGGATCGATCCCCTCAAAAAATGG
1 TTTTTATACAAAATAAGTCTT-AATTTTGAAACTACCAAAATAGATCGATCCCCTCAAAAAATGG
16357028 AT
65 AT
16357030 CAATCAGCTT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
74 54 0.96
75 2 0.04
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.34
Consensus pattern (74 bp):
TTTTTATACAAAATAAGTCTTAATTTTGAAACTACCAAAATAGATCGATCCCCTCAAAAAATGGA
TTGATCAAT
Found at i:16368929 original size:38 final size:38
Alignment explanation
Indices: 16368887--16368965 Score: 140
Period size: 38 Copynumber: 2.1 Consensus size: 38
16368877 TTTGCACAAG
*
16368887 GAACTTGTGAACTTATCTAGTTGAAGAGACTTTTGGGA
1 GAACTTGTGAACTTATCTAGTTGAAGAGACTTTTGAGA
*
16368925 GAACTTGTGAACTTATCTGGTTGAAGAGACTTTTGAGA
1 GAACTTGTGAACTTATCTAGTTGAAGAGACTTTTGAGA
16368963 GAA
1 GAA
16368966 TTAAAAATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.30, C:0.10, G:0.27, T:0.33
Consensus pattern (38 bp):
GAACTTGTGAACTTATCTAGTTGAAGAGACTTTTGAGA
Found at i:16370537 original size:11 final size:10
Alignment explanation
Indices: 16370512--16370536 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
16370502 AAAGTTTCAT
16370512 AAAAATTAAA
1 AAAAATTAAA
16370522 AAAAATTAAA
1 AAAAATTAAA
16370532 AAAAA
1 AAAAA
16370537 AAGTGGTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (10 bp):
AAAAATTAAA
Found at i:16371057 original size:44 final size:44
Alignment explanation
Indices: 16370994--16371108 Score: 212
Period size: 44 Copynumber: 2.6 Consensus size: 44
16370984 AAGTATATGT
16370994 TAATTCCAAATGGAAGAAGTTCTTTTAGGGATACTAAGAGTCAA
1 TAATTCCAAATGGAAGAAGTTCTTTTAGGGATACTAAGAGTCAA
* *
16371038 TAATTCCAAATGGAAGAAGTTATTTTAGGGATACTAAGAGTCTA
1 TAATTCCAAATGGAAGAAGTTCTTTTAGGGATACTAAGAGTCAA
16371082 TAATTCCAAATGGAAGAAGTTCTTTTA
1 TAATTCCAAATGGAAGAAGTTCTTTTA
16371109 AAGACAGATG
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 68 1.00
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.32
Consensus pattern (44 bp):
TAATTCCAAATGGAAGAAGTTCTTTTAGGGATACTAAGAGTCAA
Found at i:16375543 original size:17 final size:16
Alignment explanation
Indices: 16375508--16375539 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
16375498 TTTTTATTCA
16375508 ATTTTTAACTTTTTTT
1 ATTTTTAACTTTTTTT
16375524 ATTTTTAACTTTTTTT
1 ATTTTTAACTTTTTTT
16375540 TATTATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (16 bp):
ATTTTTAACTTTTTTT
Found at i:16378901 original size:6 final size:6
Alignment explanation
Indices: 16378890--16378925 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
16378880 TTGAAAAAAT
*
16378890 TTTTTA TTTTTA CTTTTA TTTTTA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
16378926 AATAAAAGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTTA
Found at i:16379034 original size:18 final size:18
Alignment explanation
Indices: 16379005--16379059 Score: 96
Period size: 18 Copynumber: 3.2 Consensus size: 18
16378995 AAGGAAGTTG
16379005 AAAATA-AAAATAAATTA
1 AAAATATAAAATAAATTA
16379022 AAAATATAAAATAAATTA
1 AAAATATAAAATAAATTA
16379040 AAAATATAAAATAAA-TA
1 AAAATATAAAATAAATTA
16379057 AAA
1 AAA
16379060 TAAAAAACTA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
17 11 0.30
18 26 0.70
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (18 bp):
AAAATATAAAATAAATTA
Found at i:16379051 original size:14 final size:14
Alignment explanation
Indices: 16379012--16379064 Score: 56
Period size: 13 Copynumber: 3.9 Consensus size: 14
16379002 TTGAAAATAA
*
16379012 AAATAAATTAAAA-
1 AAATAAAATAAAAT
* *
16379025 ATATAAAATAAATT
1 AAATAAAATAAAAT
*
16379039 AAA-AATATAAAAT
1 AAATAAAATAAAAT
16379052 AAATAAAATAAAA
1 AAATAAAATAAAA
16379065 AACTAAAAAG
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
13 21 0.68
14 10 0.32
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (14 bp):
AAATAAAATAAAAT
Found at i:16379072 original size:22 final size:22
Alignment explanation
Indices: 16379012--16379065 Score: 71
Period size: 18 Copynumber: 2.6 Consensus size: 22
16379002 TTGAAAATAA
*
16379012 AAATAAATTAAAAATATAAAAT
1 AAATAAAATAAAAATATAAAAT
16379034 AAAT----TAAAAATATAAAAT
1 AAATAAAATAAAAATATAAAAT
16379052 AAATAAAATAAAAA
1 AAATAAAATAAAAA
16379066 ACTAAAAAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
18 18 0.64
22 10 0.36
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (22 bp):
AAATAAAATAAAAATATAAAAT
Found at i:16379079 original size:35 final size:36
Alignment explanation
Indices: 16379004--16379079 Score: 88
Period size: 35 Copynumber: 2.2 Consensus size: 36
16378994 AAAGGAAGTT
* *
16379004 GAAAATAAAAATAAATTAAAAATATAAAATAAATTA
1 GAAAATAAAAATAAATTAAAAATAAAAAATAAATAA
16379040 -AAAATATAAAATAAA-T-AAAATAAAAAACTAAA-AA
1 GAAAATA-AAAATAAATTAAAAATAAAAAA-TAAATAA
16379074 GAAAAT
1 GAAAAT
16379080 GGAAAAGGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
34 11 0.31
35 16 0.46
36 8 0.23
ACGTcount: A:0.75, C:0.01, G:0.03, T:0.21
Consensus pattern (36 bp):
GAAAATAAAAATAAATTAAAAATAAAAAATAAATAA
Found at i:16379881 original size:3 final size:3
Alignment explanation
Indices: 16379848--16379930 Score: 73
Period size: 3 Copynumber: 28.3 Consensus size: 3
16379838 TTAAGAAAAA
* * * *
16379848 AAT AAA AAT AAA AAT AGA- AAT AAT GAT AAT AAT AGT AAT AAT AAT
1 AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
16379893 AAT AAT AAT AA- AGT AAC AAT AAT AAT AA- AAT AAA AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
16379931 GAAACAACAA
Statistics
Matches: 62, Mismatches: 14, Indels: 8
0.74 0.17 0.10
Matches are distributed among these distances:
2 4 0.06
3 57 0.92
4 1 0.02
ACGTcount: A:0.69, C:0.01, G:0.05, T:0.25
Consensus pattern (3 bp):
AAT
Found at i:16380047 original size:23 final size:23
Alignment explanation
Indices: 16379958--16380064 Score: 79
Period size: 23 Copynumber: 4.4 Consensus size: 23
16379948 TAATAAAGTA
*** *
16379958 ATAATAATATACCCTACTATATT
1 ATAATAATATATTATACTATACT
* *
16379981 ATAATGATATAATATAATAATAATACT
1 ATAAT-A-AT-ATATTATACT-ATACT
*
16380008 ATAATGTAATATGTTATACTATACT
1 ATAA--TAATATATTATACTATACT
16380033 ATAATAATATATTATACTATACT
1 ATAATAATATATTATACTATACT
* *
16380056 TTAGTAATA
1 ATAATAATA
16380065 AAATAATACT
Statistics
Matches: 67, Mismatches: 11, Indels: 12
0.74 0.12 0.13
Matches are distributed among these distances:
23 30 0.45
24 1 0.01
25 11 0.16
26 13 0.19
27 10 0.15
28 1 0.01
29 1 0.01
ACGTcount: A:0.47, C:0.08, G:0.04, T:0.41
Consensus pattern (23 bp):
ATAATAATATATTATACTATACT
Found at i:16381817 original size:17 final size:17
Alignment explanation
Indices: 16381795--16381827 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
16381785 TTTTTAAACC
16381795 TCTTATTCATT-TTTTTT
1 TCTTATT-ATTCTTTTTT
16381812 TCTTATTATTCTTTTT
1 TCTTATTATTCTTTTT
16381828 CATGTGGTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (17 bp):
TCTTATTATTCTTTTTT
Found at i:16386470 original size:13 final size:12
Alignment explanation
Indices: 16386452--16386497 Score: 51
Period size: 11 Copynumber: 3.9 Consensus size: 12
16386442 GAAGTTGAAA
16386452 ATAAAATAAAATT
1 ATAAAATAAAA-T
16386465 ATAAAAT-AAAT
1 ATAAAATAAAAT
*
16386476 AAAAAATAAAA-
1 ATAAAATAAAAT
*
16386487 AGAAAATAAAA
1 ATAAAATAAAA
16386498 AAAACCTACA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 17 0.57
12 6 0.20
13 7 0.23
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (12 bp):
ATAAAATAAAAT
Found at i:16386472 original size:18 final size:18
Alignment explanation
Indices: 16386449--16386499 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
16386439 AAAGAAGTTG
*
16386449 AAAATAAAAT-AAAATTA
1 AAAATAAAATAAAAAATA
16386466 TAAAAT-AAATAAAAAATA
1 -AAAATAAAATAAAAAATA
*
16386484 AAAAGAAAATAAAAAA
1 AAAATAAAATAAAAAA
16386500 AACCTACAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 8 0.28
18 21 0.72
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (18 bp):
AAAATAAAATAAAAAATA
Found at i:16387286 original size:6 final size:6
Alignment explanation
Indices: 16387266--16387350 Score: 50
Period size: 6 Copynumber: 14.0 Consensus size: 6
16387256 GACAATTAAG
* * *
16387266 AAAA-A AAAATAA AAAATAA AAAATAAA AAAACA AAAATA GAAATA ATAATA
1 AAAATA AAAAT-A AAAAT-A AAAAT--A AAAATA AAAATA AAAATA AAAATA
* * * *
16387317 ATAAT- AAAGTA ACAATA ATAAT- AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
16387351 GAAACAACAA
Statistics
Matches: 64, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
5 11 0.17
6 34 0.53
7 13 0.20
8 6 0.09
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:16387288 original size:14 final size:14
Alignment explanation
Indices: 16387269--16387348 Score: 65
Period size: 14 Copynumber: 5.4 Consensus size: 14
16387259 AATTAAGAAA
16387269 AAAAAATAAAAAAT
1 AAAAAATAAAAAAT
16387283 AAAAAATAAAAAA-
1 AAAAAATAAAAAAT
16387296 ACAAAAATAGAAATAAT
1 A-AAAAATA-AAA-AAT
* *
16387313 -AATAATAATAAAGT
1 AAAAAATAA-AAAAT
16387327 AACAATAATAATAAAAT
1 AA-AA-AATAA-AAAAT
16387344 AAAAA
1 AAAAA
16387349 TAGAAACAAC
Statistics
Matches: 54, Mismatches: 4, Indels: 15
0.74 0.05 0.21
Matches are distributed among these distances:
13 1 0.02
14 23 0.43
15 13 0.24
16 5 0.09
17 12 0.22
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.17
Consensus pattern (14 bp):
AAAAAATAAAAAAT
Found at i:16387313 original size:23 final size:21
Alignment explanation
Indices: 16387269--16387350 Score: 67
Period size: 23 Copynumber: 3.7 Consensus size: 21
16387259 AATTAAGAAA
16387269 AAAAAATAAAAAATAAAA-AAT
1 AAAAAA-AAAAAATAAAATAAT
16387290 AAAAAAACAAAAATAGAAATAAT
1 AAAAAAA-AAAAATA-AAATAAT
* * *
16387313 AATAATAATAAAGTAACAATAAT
1 AA-AAAAAAAAAATAA-AATAAT
*
16387336 AATAAAATAAAAATA
1 AA-AAAAAAAAAATA
16387351 GAAACAACAA
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
20 1 0.02
21 13 0.27
22 4 0.08
23 27 0.55
24 4 0.08
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.18
Consensus pattern (21 bp):
AAAAAAAAAAAATAAAATAAT
Found at i:16393306 original size:3 final size:3
Alignment explanation
Indices: 16393293--16393412 Score: 69
Period size: 3 Copynumber: 42.3 Consensus size: 3
16393283 TAGTATAATA
* * *
16393293 TAT TA- TAT TAT TAT GAT CTAT TAG TAT TAT TA- TATT TAT TAT T-C
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TA-T TAT TAT TAT
* * * * *
16393337 TAT T-G TAC CA- TAT TAC TAT TAC TAT TAT TA- TAT TAT TA- TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
16393381 TA- TAT TAT TA- TGT TAT TAT TAT TAT CAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
16393413 TTTTTCTTCT
Statistics
Matches: 88, Mismatches: 18, Indels: 22
0.69 0.14 0.17
Matches are distributed among these distances:
2 14 0.16
3 70 0.80
4 4 0.05
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:16393306 original size:8 final size:8
Alignment explanation
Indices: 16393275--16393405 Score: 97
Period size: 8 Copynumber: 15.5 Consensus size: 8
16393265 ACTATTAGCG
16393275 TTATTATA
1 TTATTATA
*
16393283 -TAGTATAA
1 TTATTAT-A
16393291 TATATTATA
1 T-TATTATA
16393300 TTATTATGA
1 TTATTAT-A
16393309 TCTATTAGTA
1 T-TATTA-TA
16393319 TTATTATA
1 TTATTATA
16393327 TTTATTAT-
1 -TTATTATA
*
16393335 TCTATTGTA
1 T-TATTATA
**
16393344 CCA-TATTA
1 TTATTA-TA
*
16393352 CTATTACTA
1 TTATTA-TA
16393361 TTATTATA
1 TTATTATA
16393369 TTATTATA
1 TTATTATA
16393377 TTATTATA
1 TTATTATA
*
16393385 TTATTATG
1 TTATTATA
16393393 TTATTATTA
1 TTATTA-TA
16393402 TTAT
1 TTAT
16393406 CATTATTTTT
Statistics
Matches: 100, Mismatches: 11, Indels: 23
0.75 0.08 0.17
Matches are distributed among these distances:
7 7 0.07
8 50 0.50
9 30 0.30
10 12 0.12
11 1 0.01
ACGTcount: A:0.34, C:0.05, G:0.04, T:0.57
Consensus pattern (8 bp):
TTATTATA
Found at i:16393386 original size:36 final size:36
Alignment explanation
Indices: 16393293--16393412 Score: 93
Period size: 42 Copynumber: 3.1 Consensus size: 36
16393283 TAGTATAATA
*
16393293 TATTATATTATTATGA-T-CTATTAGTATTATTATATT
1 TATTATATTATTAT-ATTACTATTACTATTATTATA-T
16393329 TATTAT-TCTATTGTACCATATTACTATTACTATTATTATAT
1 TATTATAT-TA-T-T---ATATTACTATTACTATTATTATAT
* *
16393370 TATTATATTATTATATTATTATGTTATTATTATTATCAT
1 TATTATATTATTATATTACTA--TTACTATTATTAT-AT
16393409 TATT
1 TATT
16393413 TTTTTCTTCT
Statistics
Matches: 69, Mismatches: 3, Indels: 21
0.74 0.03 0.23
Matches are distributed among these distances:
35 1 0.01
36 16 0.23
37 1 0.01
38 13 0.19
39 7 0.10
40 2 0.03
41 12 0.17
42 17 0.25
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.58
Consensus pattern (36 bp):
TATTATATTATTATATTACTATTACTATTATTATAT
Found at i:16394286 original size:19 final size:18
Alignment explanation
Indices: 16394250--16394307 Score: 62
Period size: 19 Copynumber: 3.0 Consensus size: 18
16394240 TTTTCCATTG
*
16394250 TCATTATATTTTCCATTTT
1 TCATT-TATTTTCAATTTT
16394269 TCATTTATTTTCATATTTT
1 TCATTTATTTTCA-ATTTT
*
16394288 TAAGTTTTATTTTCAATTTT
1 TCA--TTTATTTTCAATTTT
16394308 CTATTTTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 7 0.21
19 12 0.35
20 5 0.15
21 10 0.29
ACGTcount: A:0.22, C:0.10, G:0.02, T:0.66
Consensus pattern (18 bp):
TCATTTATTTTCAATTTT
Found at i:16394287 original size:18 final size:19
Alignment explanation
Indices: 16394240--16394280 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
16394230 CAAGGTTTCC
*
16394240 TTTTCCA-TTGTCATTATA
1 TTTTCCATTTTTCATTATA
16394258 TTTTCCATTTTTCATT-TA
1 TTTTCCATTTTTCATTATA
16394276 TTTTC
1 TTTTC
16394281 ATATTTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.17, C:0.17, G:0.02, T:0.63
Consensus pattern (19 bp):
TTTTCCATTTTTCATTATA
Found at i:16396649 original size:132 final size:131
Alignment explanation
Indices: 16396382--16396710 Score: 396
Period size: 132 Copynumber: 2.5 Consensus size: 131
16396372 CAATTCTTAG
* * * * * * *
16396382 GAAATTTTAAGCTTAGTCTAGCTGGTATCTTTAAAGTTTTAAACCTAGTTTAGTTGGCACTCATG
1 GAAAATTTAAGCCTAGTCTAGCTGGCACCTTTAAAGTTTTAAGCCTAGTTTAGCTGGCAATCATG
** *
16396447 AAAAAAATTTAAGTCCAGTTTAGCCTGCATCCAATGAAAACTTAACCCTAGTTTATCTAGCACTC
66 AAAAAAATTTAAGTCCAGTTTAGCCAACATCCAATGAAAACTTAACCCCAGTTTATCTAGCACTC
16396512 A
131 A
* * * *
16396513 GAAAAATTTAAGCCTAGTCTAACTGGCACCTTTAAAGTTTTAAGCCCAGTTTAGCTAGCATTCAT
1 G-AAAATTTAAGCCTAGTCTAGCTGGCACCTTTAAAGTTTTAAGCCTAGTTTAGCTGGCAATCAT
* * * * *
16396578 GAAAAAAATTTAAG-CATAGTTTAGTCAATATCTAATGAAAACTT-ACCCCGGTTTATCT-GACA
65 GAAAAAAATTTAAGTC-CAGTTTAGCCAACATCCAATGAAAACTTAACCCCAGTTTATCTAG-CA
16396640 CTCA
128 CTCA
* * *
16396644 GGAAAATTTAAGCCCAGTCTAGC-AGCACCTTTAAAGTTTCAAGCCTAGTTTAGCTGGCAATCAT
1 -GAAAATTTAAGCCTAGTCTAGCTGGCACCTTTAAAGTTTTAAGCCTAGTTTAGCTGGCAATCAT
16396708 GAA
65 GAA
16396711 TAGATTTAAA
Statistics
Matches: 169, Mismatches: 25, Indels: 9
0.83 0.12 0.04
Matches are distributed among these distances:
130 40 0.24
131 39 0.23
132 90 0.53
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (131 bp):
GAAAATTTAAGCCTAGTCTAGCTGGCACCTTTAAAGTTTTAAGCCTAGTTTAGCTGGCAATCATG
AAAAAAATTTAAGTCCAGTTTAGCCAACATCCAATGAAAACTTAACCCCAGTTTATCTAGCACTC
A
Found at i:16396768 original size:33 final size:33
Alignment explanation
Indices: 16396684--16396802 Score: 109
Period size: 34 Copynumber: 3.5 Consensus size: 33
16396674 TTAAAGTTTC
* *
16396684 AAGCCTAGTTTAGCTGGCAATC-ATGAATAGATTT
1 AAGCCTAATTTAGCTGGC-ATCAATGAA-AAATTT
* *
16396718 AAACCTAGTTT-GACTGGCATCAATGAAAAATTT
1 AAGCCTAATTTAG-CTGGCATCAATGAAAAATTT
*
16396751 AAGCCTAATTTAGCTGGCA-CATCTTGAAAAGATTT
1 AAGCCTAATTTAGCTGGCATCA--ATGAAAA-ATTT
*
16396786 AAGCCCAATTTAGCTGG
1 AAGCCTAATTTAGCTGG
16396803 AACCTAGGTT
Statistics
Matches: 73, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
32 2 0.03
33 24 0.33
34 27 0.37
35 20 0.27
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.30
Consensus pattern (33 bp):
AAGCCTAATTTAGCTGGCATCAATGAAAAATTT
Found at i:16396787 original size:35 final size:35
Alignment explanation
Indices: 16396676--16396931 Score: 155
Period size: 35 Copynumber: 7.6 Consensus size: 35
16396666 CAGCACCTTT
*
16396676 AAAG-TTTCAAGCCTAGTTTAGCTGGCA-ATCATGA
1 AAAGATTT-AAGCCTAATTTAGCTGGCACATCATGA
* * *
16396710 ATAGATTTAAACCTAGTTT-GACTGG--CATCAATGA
1 AAAGATTTAAGCCTAATTTAG-CTGGCACATC-ATGA
*
16396744 AAA-ATTTAAGCCTAATTTAGCTGGCACATCTTGA
1 AAAGATTTAAGCCTAATTTAGCTGGCACATCATGA
* *
16396778 AAAGATTTAAGCCCAATTTAGCTGG-A-A-CCT--
1 AAAGATTTAAGCCTAATTTAGCTGGCACATCATGA
* * **
16396808 -AGGTTTTAAGCCTAATATTAATTGGCACATCATG-
1 AAAGATTTAAGCCTAAT-TTAGCTGGCACATCATGA
* * * * *
16396842 AAAGATTTAAACCTAATTTGGCT--AACATTAATAA
1 AAAGATTTAAGCCTAATTTAGCTGGCACA-TCATGA
* * * * * *
16396876 AAAAATTTAAGCCCAGTTTAGGTGGCACATTATAA
1 AAAGATTTAAGCCTAATTTAGCTGGCACATCATGA
*
16396911 AAAGATTTAAGCCTAGTTTAG
1 AAAGATTTAAGCCTAATTTAG
16396932 TTGGTACTAA
Statistics
Matches: 171, Mismatches: 33, Indels: 35
0.72 0.14 0.15
Matches are distributed among these distances:
29 13 0.08
30 6 0.04
31 1 0.01
32 6 0.04
33 27 0.16
34 51 0.30
35 64 0.37
36 3 0.02
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.31
Consensus pattern (35 bp):
AAAGATTTAAGCCTAATTTAGCTGGCACATCATGA
Found at i:16396840 original size:133 final size:133
Alignment explanation
Indices: 16396679--16397125 Score: 349
Period size: 132 Copynumber: 3.4 Consensus size: 133
16396669 CACCTTTAAA
* * * * **
16396679 GTTTCAAGCCTAGT-TTAGCTGGCA-ATCATGAATAGATTTAAACCTAGTTTGACTGGCATCAAT
1 GTTTTAAGCCTAATATTAACTGGCACATCATGAA-AGATTTAAACCTAATTTGACTAACATCAAT
* * *
16396742 -GAAAAATTTAAGCCTAATTTAGCTGGCACATCT-TGAAAAGATTTAAGCCCAATTTAGCTGGAA
65 AAAAAAATTTAAGCCCAATTTAGCTGGCACAT-TATAAAAAGATTTAAGCCCAATTTAGCTGGAA
16396805 CCT-AG
129 -CTAAG
* * *
16396810 GTTTTAAGCCTAATATTAATTGGCACATCATGAAAGATTTAAACCTAATTTGGCTAACATTAATA
1 GTTTTAAGCCTAATATTAACTGGCACATCATGAAAGATTTAAACCTAATTTGACTAACATCAATA
* * * * * *
16396875 AAAAAATTTAAGCCCAGTTTAGGTGGCACATTATAAAAAGATTTAAGCCTAGTTTAGTTGGTACT
66 AAAAAATTTAAGCCCAATTTAGCTGGCACATTATAAAAAGATTTAAGCCCAATTTAGCTGGAACT
16396940 AAG
131 AAG
* ** * * * * *
16396943 GTTTTAGGCCTGGTATTAACTGGCAC--CAAT-AGAA-ATTTAAGCCCAGTTT-AGTTAGCACTC
1 GTTTTAAGCCTAATATTAACTGGCACATC-ATGA-AAGATTTAAACCTAATTTGA-CTAACA-TC
* * * ** * * * * *
16397003 -ATAAAAAAGATTTAAACCCAGTTTAACCAGCATATCATAAAAATATTTAAGCCCAGTTTAGTTG
62 AATAAAAAA-ATTTAAGCCCAATTTAGCTGGCACATTATAAAAAGATTTAAGCCCAATTTAGCTG
* ** *
16397067 GCACCCAT
126 GAACTAAG
* * * *
16397075 GTTTTAAGCCTAGTATTAATTGGCACATCATGAAAGATTTAAGCCCAATTT
1 GTTTTAAGCCTAATATTAACTGGCACATCATGAAAGATTTAAACCTAATTT
16397126 ATGTCGCACC
Statistics
Matches: 256, Mismatches: 46, Indels: 25
0.78 0.14 0.08
Matches are distributed among these distances:
131 38 0.15
132 114 0.45
133 88 0.34
134 16 0.06
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.32
Consensus pattern (133 bp):
GTTTTAAGCCTAATATTAACTGGCACATCATGAAAGATTTAAACCTAATTTGACTAACATCAATA
AAAAAATTTAAGCCCAATTTAGCTGGCACATTATAAAAAGATTTAAGCCCAATTTAGCTGGAACT
AAG
Found at i:16397023 original size:35 final size:34
Alignment explanation
Indices: 16396977--16397230 Score: 129
Period size: 35 Copynumber: 7.6 Consensus size: 34
16396967 ACCAATAGAA
16396977 ATTTAAGCCCAGTTTAGTTAGCACTCATAAAAAAG
1 ATTTAAGCCCAGTTTAGTTAGCACTCAT-AAAAAG
* *** * *
16397012 ATTTAAACCCAGTTTAACCAGCATATCATAAAAAT
1 ATTTAAGCCCAGTTTAGTTAGCA-CTCATAAAAAG
* *
16397047 ATTTAAGCCCAGTTTAGTTGGCACCCAT-----G
1 ATTTAAGCCCAGTTTAGTTAGCACTCATAAAAAG
* * * * *
16397076 TTTTAAGCCTAGTATTAATTGGCACATCAT-GAAAG
1 ATTTAAGCCCAGT-TTAGTTAGCAC-TCATAAAAAG
* *
16397111 ATTTAAGCCCAATTTA-TGTCGCACCTCATAAAAAG
1 ATTTAAGCCCAGTTTAGT-TAGCA-CTCATAAAAAG
* * * * *
16397146 ATTTAAGCTCAATTTGGTTGGTA-TCA-ATAAAAG
1 ATTTAAGCCCAGTTTAGTTAGCACTCATA-AAAAG
*
16397179 ATTTTAAGCCCAGTTT-GATTAGCA-TCA-ATGAAA-
1 A-TTTAAGCCCAGTTTAG-TTAGCACTCATA-AAAAG
*
16397212 ATTTAAGCCCAATTTAGTT
1 ATTTAAGCCCAGTTTAGTT
16397231 GGCAGCCAGG
Statistics
Matches: 171, Mismatches: 33, Indels: 33
0.72 0.14 0.14
Matches are distributed among these distances:
29 11 0.06
30 10 0.06
31 3 0.02
32 16 0.09
33 13 0.08
34 38 0.22
35 75 0.44
36 5 0.03
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.32
Consensus pattern (34 bp):
ATTTAAGCCCAGTTTAGTTAGCACTCATAAAAAG
Found at i:16397061 original size:132 final size:135
Alignment explanation
Indices: 16396767--16397151 Score: 376
Period size: 132 Copynumber: 2.9 Consensus size: 135
16396757 AATTTAGCTG
* * * * * * * *
16396767 GCACATCTTGAAAAGATTTAAGCCCAATTTAGCTGGAACCTAGGTTTTAAGCCTAATATTAATTG
1 GCACATCATAAAAAGATTTAAGCCCAGTTTAGTTGGCACCAAGGTTTTAAGCCTAGTATTAACTG
* * * * * * *
16396832 GCACATCATGAAAGATTTAAACCTAATTT-GGCTAACA-TTAATAAAAAA-ATTTAAGCCCAGTT
66 GCACATCATGAAAGATTTAAGCCCAATTTATG-TAGCACCTCATAAAAAAGATTTAAACCCAGTT
****
16396894 TAGGTG
130 TAACCA
* * * * * *
16396900 GCACATTATAAAAAGATTTAAGCCTAGTTTAGTTGGTACTAAGGTTTTAGGCCTGGTATTAACTG
1 GCACATCATAAAAAGATTTAAGCCCAGTTTAGTTGGCACCAAGGTTTTAAGCCTAGTATTAACTG
*
16396965 GCAC--CAAT-AGAA-ATTTAAGCCCAGTTTA-GTTAGCA-CTCATAAAAAAGATTTAAACCCAG
66 GCACATC-ATGA-AAGATTTAAGCCCAATTTATG-TAGCACCTCATAAAAAAGATTTAAACCCAG
16397024 TTTAACCA
128 TTTAACCA
* * * * *
16397032 GCATATCATAAAAATATTTAAGCCCAGTTTAGTTGGCACCCATGTTTTAAGCCTAGTATTAATTG
1 GCACATCATAAAAAGATTTAAGCCCAGTTTAGTTGGCACCAAGGTTTTAAGCCTAGTATTAACTG
*
16397097 GCACATCATGAAAGATTTAAGCCCAATTTATGTCGCACCTCAT-AAAAAGATTTAA
66 GCACATCATGAAAGATTTAAGCCCAATTTATGTAGCACCTCATAAAAAAGATTTAA
16397152 GCTCAATTTG
Statistics
Matches: 204, Mismatches: 38, Indels: 19
0.78 0.15 0.07
Matches are distributed among these distances:
131 28 0.14
132 77 0.38
133 60 0.29
134 33 0.16
135 6 0.03
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.31
Consensus pattern (135 bp):
GCACATCATAAAAAGATTTAAGCCCAGTTTAGTTGGCACCAAGGTTTTAAGCCTAGTATTAACTG
GCACATCATGAAAGATTTAAGCCCAATTTATGTAGCACCTCATAAAAAAGATTTAAACCCAGTTT
AACCA
Found at i:16397171 original size:132 final size:132
Alignment explanation
Indices: 16396777--16397194 Score: 361
Period size: 132 Copynumber: 3.2 Consensus size: 132
16396767 GCACATCTTG
* * * *
16396777 AAAAGATTTAAGCCCAATTTAGCTGGAACCTAGGTTTTAAGCCTAATATTAATTGGCACATCATG
1 AAAAGATTTAAGCCCAGTTTAGTTGGAACCAAGGTTTTAAGCCTAGTATTAATTGGCACATCATG
* * * ** * * * *
16396842 AAAGATTTAAACCTAA-TT-TGGCTAACATTAATAAAAAAATTTAAGCCCAGTTTAGGTGGCACA
66 AAAGATTTAAGCCCAATTTATGTCGCAC-CTCATAAAAAGATTTAAGCCCAGTTTAGGTGG--TA
*
16396905 TTATA
128 TCATA
* * * * * *
16396910 AAAAGATTTAAGCCTAGTTTAGTTGGTACTAAGGTTTTAGGCCTGGTATTAACTGGCAC--CAAT
1 AAAAGATTTAAGCCCAGTTTAGTTGGAACCAAGGTTTTAAGCCTAGTATTAATTGGCACATC-AT
* * * ***
16396973 -AGAA-ATTTAAGCCCAGTTTA-GTTAGCA-CTCATAAAAAAGATTTAAACCCAGTTTAACCAGC
65 GA-AAGATTTAAGCCCAATTTATG-TCGCACCTCAT-AAAAAGATTTAAGCCCAGTTT-AGGTG-
*
16397034 ATATCATA
125 GTATCATA
* * * *
16397042 AAAATATTTAAGCCCAGTTTAGTTGGCACCCATGTTTTAAGCCTAGTATTAATTGGCACATCATG
1 AAAAGATTTAAGCCCAGTTTAGTTGGAACCAAGGTTTTAAGCCTAGTATTAATTGGCACATCATG
* *
16397107 AAAGATTTAAGCCCAATTTATGTCGCACCTCATAAAAAGATTTAAGCTCAATTT-GGTTGGTATC
66 AAAGATTTAAGCCCAATTTATGTCGCACCTCATAAAAAGATTTAAGCCCAGTTTAGG-TGGTATC
16397171 A-A
130 ATA
16397173 TAAAAGATTTTAAGCCCAGTTT
1 -AAAAGA-TTTAAGCCCAGTTT
16397195 GATTAGCATC
Statistics
Matches: 222, Mismatches: 46, Indels: 34
0.74 0.15 0.11
Matches are distributed among these distances:
131 15 0.07
132 91 0.41
133 71 0.32
134 39 0.18
135 6 0.03
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (132 bp):
AAAAGATTTAAGCCCAGTTTAGTTGGAACCAAGGTTTTAAGCCTAGTATTAATTGGCACATCATG
AAAGATTTAAGCCCAATTTATGTCGCACCTCATAAAAAGATTTAAGCCCAGTTTAGGTGGTATCA
TA
Found at i:16397185 original size:34 final size:33
Alignment explanation
Indices: 16397107--16397234 Score: 109
Period size: 34 Copynumber: 3.8 Consensus size: 33
16397097 GCACATCATG
* *
16397107 AAAGATTTAAGCCCAATTT-ATGTCGCACCTC-ATAA
1 AAAGATTTAAGCCCAATTTGGT-TGGCA--TCAAT-A
* *
16397142 AAAGATTTAAGCTCAATTTGGTTGGTATCAATA
1 AAAGATTTAAGCCCAATTTGGTTGGCATCAATA
* * * *
16397175 AAAGATTTTAAGCCCAGTTTGATTAGCATCAATG
1 AAAGA-TTTAAGCCCAATTTGGTTGGCATCAATA
*
16397209 AAA-ATTTAAGCCCAATTTAGTTGGCA
1 AAAGATTTAAGCCCAATTTGGTTGGCA
16397235 GCCAGGTTTT
Statistics
Matches: 76, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
32 18 0.24
33 9 0.12
34 27 0.36
35 21 0.28
36 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.32
Consensus pattern (33 bp):
AAAGATTTAAGCCCAATTTGGTTGGCATCAATA
Found at i:16397293 original size:60 final size:61
Alignment explanation
Indices: 16397180--16397293 Score: 133
Period size: 60 Copynumber: 1.9 Consensus size: 61
16397170 CAATAAAAGA
* * * * *
16397180 TTTTAAGCCCAGTTTGATTAGCATCAATGAAAATTTAAGCCCAATTTAGTTGGCAGCCAGG
1 TTTTAAGCCCAGTTAGACTAGCACCAATGAAAATTTAAGCCCAAATTACTTGGCAGCCAGG
* **
16397241 TTTTAAGCTCAGTTAG-CTAGCACCAAT-AAAGATTTAAGCTTAAATTACTTGGC
1 TTTTAAGCCCAGTTAGACTAGCACCAATGAAA-ATTTAAGCCCAAATTACTTGGC
16397294 CTTTATGGAA
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
59 3 0.07
60 27 0.61
61 14 0.32
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (61 bp):
TTTTAAGCCCAGTTAGACTAGCACCAATGAAAATTTAAGCCCAAATTACTTGGCAGCCAGG
Found at i:16397467 original size:100 final size:99
Alignment explanation
Indices: 16397284--16397477 Score: 241
Period size: 100 Copynumber: 1.9 Consensus size: 99
16397274 TTAAGCTTAA
* *
16397284 ATTACTTGGCCTTTATGGAAAGATTTAAGTCCAATTTGCTTGGCACCTAATGAAGAATTAAGCCT
1 ATTACTTGGCCTTCATGGAAAGATTTAAG-CCAATTTGCTTGGCACCCAATGAAGAATTAAGCCT
* ** * *
16397349 AGGTTGGCTGGCACCCAATGAATATTTAAACCCAG
65 AGATTAACTGACACCCAATGAAAATTTAAACCCAG
**
16397384 ATTACCTT-GCCTTCATGGAAAGATTTAAG-CATAGTTTGCTTGGCACCCAATGAAGTTTTAAGC
1 ATTA-CTTGGCCTTCATGGAAAGATTTAAGCCA-A-TTTGCTTGGCACCCAATGAAGAATTAAGC
16397447 CTAGTATTAACTGACA-CCAATGAAAATTTAA
63 CTAG-ATTAACTGACACCCAATGAAAATTTAA
16397478 GCTCAGTTTA
Statistics
Matches: 81, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
98 2 0.02
99 1 0.01
100 68 0.84
101 10 0.12
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (99 bp):
ATTACTTGGCCTTCATGGAAAGATTTAAGCCAATTTGCTTGGCACCCAATGAAGAATTAAGCCTA
GATTAACTGACACCCAATGAAAATTTAAACCCAG
Found at i:16397541 original size:35 final size:33
Alignment explanation
Indices: 16397453--16397591 Score: 115
Period size: 32 Copynumber: 4.2 Consensus size: 33
16397443 AAGCCTAGTA
* * *
16397453 TTAACTGACACCAATG-AAA-ATTTAAGCTCAGT
1 TTAACTGACATC-ATGAAAAGATTTAAGCCCAAT
* * *
16397485 TTAGCTAGTAC-TCATAAAAAGATTTAAACCCAAT
1 TTAACT-G-ACATCATGAAAAGATTTAAGCCCAAT
* *
16397519 TTAATTGGCACATCATGAAAAGATTTAAGCCCAGT
1 TTAACT-G-ACATCATGAAAAGATTTAAGCCCAAT
* *
16397554 TTAGCTGACATTATG-AAAGATTTAAGCCCAAT
1 TTAACTGACATCATGAAAAGATTTAAGCCCAAT
16397586 TTAACT
1 TTAACT
16397592 AGTATCTAAT
Statistics
Matches: 84, Mismatches: 18, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
32 28 0.33
33 12 0.14
34 20 0.24
35 24 0.29
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (33 bp):
TTAACTGACATCATGAAAAGATTTAAGCCCAAT
Found at i:16397578 original size:32 final size:34
Alignment explanation
Indices: 16397466--16397617 Score: 118
Period size: 33 Copynumber: 4.6 Consensus size: 34
16397456 ACTGACACCA
* * *
16397466 ATGAAA-ATTTAAGCTCAGTTTAGCTAGTAC-TC
1 ATGAAAGATTTAAGCCCAATTTAGCTAGCACATC
* * ** *
16397498 ATAAAAAGATTTAAACCCAATTTAATTGGCACATC
1 AT-GAAAGATTTAAGCCCAATTTAGCTAGCACATC
* *
16397533 ATGAAAAGATTTAAGCCCAGTTTAGCT-G-ACATT
1 ATG-AAAGATTTAAGCCCAATTTAGCTAGCACATC
* * *
16397566 ATGAAAGATTTAAGCCCAATTTAACTAGTATC-TA
1 ATGAAAGATTTAAGCCCAATTTAGCTAGCA-CATC
16397600 ATG-AAGATTTAAGCCCAA
1 ATGAAAGATTTAAGCCCAA
16397618 ATTACTTGTC
Statistics
Matches: 96, Mismatches: 17, Indels: 13
0.76 0.13 0.10
Matches are distributed among these distances:
32 23 0.24
33 26 0.27
34 23 0.24
35 24 0.25
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (34 bp):
ATGAAAGATTTAAGCCCAATTTAGCTAGCACATC
Done.