Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007816.1 Hibiscus syriacus cultivar Beakdansim tig00110151_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3994936
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 14
Found at i:1551551 original size:23 final size:23
Alignment explanation
Indices: 1551481--1551551 Score: 55
Period size: 23 Copynumber: 3.2 Consensus size: 23
1551471 CTCGTAAGCC
1551481 TATTTTACCAATATACTTACCAT
1 TATTTTACCAATATACTTACCAT
*
1551504 TA--TT-CCAAAAT-CTCGTAAGCC--
1 TATTTTACCAATATACT--T-A-CCAT
1551525 TATTTTACCAATATACTTACCAT
1 TATTTTACCAATATACTTACCAT
1551548 TATT
1 TATT
1551552 CTATAAGCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 20
0.62 0.03 0.34
Matches are distributed among these distances:
19 2 0.06
20 6 0.17
21 7 0.19
22 2 0.06
23 11 0.31
24 6 0.17
25 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.03, T:0.41
Consensus pattern (23 bp):
TATTTTACCAATATACTTACCAT
Found at i:1551676 original size:266 final size:266
Alignment explanation
Indices: 1551191--1551814 Score: 914
Period size: 266 Copynumber: 2.3 Consensus size: 266
1551181 AATTTATCAT
* * * * *
1551191 TTATCCCATAAGCTCGTAATCTTATTTTACCAACATACTTCCATTTATTGCATAAGCTAGTAAAC
1 TTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTCCA-TTATTCCATAAGCTAGTAAGC
*
1551256 CTATTTTACCAACATACTTACCATTTATTTCATAAGCATCGTAAGCCTACTTTACCAACATACTT
65 CTATTTTACCAATATACTTACCA-TTATTTCATAAGCATCGTAAGCCTACTTTACCAACATACTT
* * *
1551321 ACCATTTATTCTATAAGCTTGTAAGCCTATTTTACCAACATACTTACCATTATTCCATAAGCTCG
129 ACCATTTATTCCATAAGCTCGTAAGCCTATTTTACCAACATAATTACCATTATTCCATAAGCTCG
* * * * *
1551386 TAAGCTTATTTTACCAACATACTTATCATTTATTCCATAAGCTCGTAAGCCTATTTTTCCAATAT
194 TAAGCCTATTTTACCAACATACTTACCATTTAGTCCATAAGCACGTAAGCCTATTTTACCAATAT
1551451 ACTTACCA
259 ACTTACCA
* * * *
1551459 TTATTCCATAAGCTCGTAAGCCTATTTTACCAATATACTTACCATTATTCCAAAATCTCGTAAGC
1 TTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTT-CCATTATTCCATAAGCTAGTAAGC
*
1551524 CTATTTTACCAATATACTTACCATTA-TTCTATAAGC-TCGTAAGCCTATTTTACCAACATACTT
65 CTATTTTACCAATATACTTACCATTATTTC-ATAAGCATCGTAAGCCTACTTTACCAACATACTT
*
1551587 A-CATTTATTCCATAAGCTCGTAAGCCTATTTTACCAATATAATTACCATTTATTCCATAAGCTC
129 ACCATTTATTCCATAAGCTCGTAAGCCTATTTTACCAACATAATTACCA-TTATTCCATAAGCTC
*
1551651 GTAAGCCTATTTTACCAATATACTTACCATTTAGTCCATAAGCACGTAAGCCTATTTTACCAATA
193 GTAAGCCTATTTTACCAACATACTTACCATTTAGTCCATAAGCACGTAAGCCTATTTTACCAATA
1551716 TACTTACCA
258 TACTTACCA
* * * * * *
1551725 TTATTCCATAAGCTCGTAAGTTTATTTTACCAATATACTTGTCATTATTCTATAGGCTAATGAGC
1 TTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTT-CCATTATTCCATAAGCTAGTAAGC
*
1551790 CTATTTTACAAATATACTT-CCATTA
65 CTATTTTACCAATATACTTACCATTA
1551815 ACCTCATTTA
Statistics
Matches: 320, Mismatches: 33, Indels: 9
0.88 0.09 0.02
Matches are distributed among these distances:
265 49 0.15
266 185 0.58
267 9 0.03
268 74 0.23
269 3 0.01
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.38
Consensus pattern (266 bp):
TTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTCCATTATTCCATAAGCTAGTAAGCC
TATTTTACCAATATACTTACCATTATTTCATAAGCATCGTAAGCCTACTTTACCAACATACTTAC
CATTTATTCCATAAGCTCGTAAGCCTATTTTACCAACATAATTACCATTATTCCATAAGCTCGTA
AGCCTATTTTACCAACATACTTACCATTTAGTCCATAAGCACGTAAGCCTATTTTACCAATATAC
TTACCA
Found at i:1552010 original size:59 final size:59
Alignment explanation
Indices: 1551947--1552058 Score: 147
Period size: 59 Copynumber: 1.9 Consensus size: 59
1551937 CTTCCACTTT
*
1551947 CATTTTAGCACACGAAGTGCCCTAT-TAAAAAAT-TCATACCATTAGTATAATTTTGCTAC
1 CATTTTAGCACACGAAATGCCCTATGT-AAAAATCT-ATACCATTAGTATAATTTTGCTAC
** * *
1552006 CATTTTAGCACTTGAAATGCCCTATGTCAAAATCTATACCATTAGTATGATTT
1 CATTTTAGCACACGAAATGCCCTATGTAAAAATCTATACCATTAGTATAATTT
1552059 CCTTGTCTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
59 44 0.96
60 2 0.04
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.36
Consensus pattern (59 bp):
CATTTTAGCACACGAAATGCCCTATGTAAAAATCTATACCATTAGTATAATTTTGCTAC
Found at i:1552150 original size:59 final size:59
Alignment explanation
Indices: 1552091--1552602 Score: 438
Period size: 59 Copynumber: 8.8 Consensus size: 59
1552081 GTACTTTATC
* * * *
1552091 TGGAAATCCATACACTCAGTATGATTCCCTTACCATTTTATCACATAAAATACCCTATC
1 TGGAAATCCATACACTCAGTATGATTTCCTTACCATTTTAGCACATAAAATGCCCTATA
*** * * * * *
1552150 TGGAAATCCATATTTTCAATATGATTTCCCTATCA-CTTAGCACA-ATCAATGCTCC-ATA
1 TGGAAATCCATACACTCAGTATGATTTCCTTACCATTTTAGCACATA-AAATGC-CCTATA
* * *
1552208 TGGAAATCTATACACTTAGTATGATTTCCTTACCATTTTAGCACATAAAATGCCCTATC
1 TGGAAATCCATACACTCAGTATGATTTCCTTACCATTTTAGCACATAAAATGCCCTATA
**** * * * *
1552267 TGGAAATCCATGTTTTCAATATGATTTCCTTATCA-TTTAGCACACT-CAGTGCTCC-ATA
1 TGGAAATCCATACACTCAGTATGATTTCCTTACCATTTTAGCACA-TAAAATGC-CCTATA
* *
1552325 TGGAAATCTATACACTCAGTATGATTTCCCTACCATTTTAGCACATAAAATGCCCTATA
1 TGGAAATCCATACACTCAGTATGATTTCCTTACCATTTTAGCACATAAAATGCCCTATA
*** * * * ***
1552384 TGGAAATCCATATTTTCAATATGATTTCCTTATCA-TTTAGTACACT-CGGTGCTCC-ATA
1 TGGAAATCCATACACTCAGTATGATTTCCTTACCATTTTAGCACA-TAAAATGC-CCTATA
* * *
1552442 TGAAAATCTATACACTCAGTATGATTTCCTTACCATTTTAGCACATAAAATGCCCTATC
1 TGGAAATCCATACACTCAGTATGATTTCCTTACCATTTTAGCACATAAAATGCCCTATA
* * ** * * * * *
1552501 TAGAAATCAATA-TTTCCGATATGATTTCCTTATCA-TTT-GCACACT-CAGTGCTCTATA
1 TGGAAATCCATACACTCAG-TATGATTTCCTTACCATTTTAGCACA-TAAAATGCCCTATA
*
1552558 TGGAAATCTATACACTCAGTATGATTTCCTTACCATTTTAGCACA
1 TGGAAATCCATACACTCAGTATGATTTCCTTACCATTTTAGCACA
1552603 CAAGGTGCCA
Statistics
Matches: 349, Mismatches: 84, Indels: 40
0.74 0.18 0.08
Matches are distributed among these distances:
57 39 0.11
58 145 0.42
59 164 0.47
60 1 0.00
ACGTcount: A:0.31, C:0.23, G:0.10, T:0.36
Consensus pattern (59 bp):
TGGAAATCCATACACTCAGTATGATTTCCTTACCATTTTAGCACATAAAATGCCCTATA
Found at i:1552239 original size:117 final size:117
Alignment explanation
Indices: 1552091--1552602 Score: 837
Period size: 117 Copynumber: 4.4 Consensus size: 117
1552081 GTACTTTATC
* * * *
1552091 TGGAAATCCATACACTCAGTATGATTCCCTTACCATTTTATCACATAAAATACCCTATCTGGAAA
1 TGGAAATCTATACACTCAGTATGATTTCCTTACCATTTTAGCACATAAAATGCCCTATCTGGAAA
* * * *
1552156 TCCATATTTTCAATATGATTTCCCTATCACTTAGCACAATCAATGCTCCATA
66 TCCATATTTTCAATATGATTTCCTTATCATTTAGCACACTCAGTGCTCCATA
*
1552208 TGGAAATCTATACACTTAGTATGATTTCCTTACCATTTTAGCACATAAAATGCCCTATCTGGAAA
1 TGGAAATCTATACACTCAGTATGATTTCCTTACCATTTTAGCACATAAAATGCCCTATCTGGAAA
*
1552273 TCCATGTTTTCAATATGATTTCCTTATCATTTAGCACACTCAGTGCTCCATA
66 TCCATATTTTCAATATGATTTCCTTATCATTTAGCACACTCAGTGCTCCATA
* *
1552325 TGGAAATCTATACACTCAGTATGATTTCCCTACCATTTTAGCACATAAAATGCCCTATATGGAAA
1 TGGAAATCTATACACTCAGTATGATTTCCTTACCATTTTAGCACATAAAATGCCCTATCTGGAAA
* *
1552390 TCCATATTTTCAATATGATTTCCTTATCATTTAGTACACTCGGTGCTCCATA
66 TCCATATTTTCAATATGATTTCCTTATCATTTAGCACACTCAGTGCTCCATA
* *
1552442 TGAAAATCTATACACTCAGTATGATTTCCTTACCATTTTAGCACATAAAATGCCCTATCTAGAAA
1 TGGAAATCTATACACTCAGTATGATTTCCTTACCATTTTAGCACATAAAATGCCCTATCTGGAAA
* * * *
1552507 TCAATATTTCCGATATGATTTCCTTATCATTT-GCACACTCAGTGCTCTATA
66 TCCATATTTTCAATATGATTTCCTTATCATTTAGCACACTCAGTGCTCCATA
1552558 TGGAAATCTATACACTCAGTATGATTTCCTTACCATTTTAGCACA
1 TGGAAATCTATACACTCAGTATGATTTCCTTACCATTTTAGCACA
1552603 CAAGGTGCCA
Statistics
Matches: 368, Mismatches: 27, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
116 60 0.16
117 308 0.84
ACGTcount: A:0.31, C:0.23, G:0.10, T:0.36
Consensus pattern (117 bp):
TGGAAATCTATACACTCAGTATGATTTCCTTACCATTTTAGCACATAAAATGCCCTATCTGGAAA
TCCATATTTTCAATATGATTTCCTTATCATTTAGCACACTCAGTGCTCCATA
Found at i:1561779 original size:22 final size:22
Alignment explanation
Indices: 1561751--1561797 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
1561741 GGAAACAATG
1561751 CCATTAATATATAGCTACTCGA
1 CCATTAATATATAGCTACTCGA
1561773 CCATTAATATATAGCTACTCGA
1 CCATTAATATATAGCTACTCGA
1561795 CCA
1 CCA
1561798 ATGTATCCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.36, C:0.26, G:0.09, T:0.30
Consensus pattern (22 bp):
CCATTAATATATAGCTACTCGA
Found at i:1563427 original size:45 final size:45
Alignment explanation
Indices: 1563323--1563502 Score: 256
Period size: 45 Copynumber: 4.0 Consensus size: 45
1563313 ATAACATTTC
* *
1563323 TTACCAATATACTAACCATTTAATCTCATAAGCTCGTAAGCTTATT
1 TTACCAATATACTTACCATTTATTC-CATAAGCTCGTAAGCTTATT
* *
1563369 TTACAAATA-ACTTACCATTTATTCCATAAACTCGTAAGCTTATT
1 TTACCAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATT
* * *
1563413 TTACCAATATACTTAGCATTTATTCGATAAGCTCATAAGCTTATT
1 TTACCAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATT
* *
1563458 TTACCAATATACTTACCA-TTATTTCATAATCTCGTAAGCTTATT
1 TTACCAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATT
1563502 T
1 T
1563503 GTATGGTTAC
Statistics
Matches: 119, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
44 50 0.42
45 61 0.51
46 8 0.07
ACGTcount: A:0.34, C:0.20, G:0.06, T:0.40
Consensus pattern (45 bp):
TTACCAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATT
Found at i:1563486 original size:89 final size:90
Alignment explanation
Indices: 1563323--1563502 Score: 267
Period size: 89 Copynumber: 2.0 Consensus size: 90
1563313 ATAACATTTC
*
1563323 TTACCAATATACTAACCATTTAATCTCATAAGCTCGTAAGCTTATTTTACAAATAACTTACCATT
1 TTACCAATATACTAACCATTTAATCTCATAAGCTCATAAGCTTATTTTACAAATAACTTACCATT
1563388 TATTCCATAAACTCGTAAGCTTATT
66 TATTCCATAAACTCGTAAGCTTATT
* * *
1563413 TTACCAATATACTTAGCATTT-AT-TCGATAAGCTCATAAGCTTATTTTACCAATATACTTACCA
1 TTACCAATATACTAACCATTTAATCTC-ATAAGCTCATAAGCTTATTTTACAAATA-ACTTACCA
* *
1563476 -TTATTTCATAATCTCGTAAGCTTATT
64 TTTATTCCATAAACTCGTAAGCTTATT
1563502 T
1 T
1563503 GTATGGTTAC
Statistics
Matches: 82, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
88 2 0.02
89 53 0.65
90 27 0.33
ACGTcount: A:0.34, C:0.20, G:0.06, T:0.40
Consensus pattern (90 bp):
TTACCAATATACTAACCATTTAATCTCATAAGCTCATAAGCTTATTTTACAAATAACTTACCATT
TATTCCATAAACTCGTAAGCTTATT
Found at i:1565484 original size:30 final size:30
Alignment explanation
Indices: 1565450--1565514 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
1565440 TCTTATTTTA
* *
1565450 GTCACCAAAC-TTATCAAAGTTTATACTTTG
1 GTCACCAAACTTTACCAAA-TTTATAATTTG
1565480 GTCACCAAACTTTACCAAATTTATAATTTG
1 GTCACCAAACTTTACCAAATTTATAATTTG
1565510 GTCAC
1 GTCAC
1565515 TAAATAAATC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 25 0.78
31 7 0.22
ACGTcount: A:0.34, C:0.22, G:0.09, T:0.35
Consensus pattern (30 bp):
GTCACCAAACTTTACCAAATTTATAATTTG
Found at i:1566163 original size:13 final size:13
Alignment explanation
Indices: 1566145--1566169 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1566135 CCAGATAAAT
1566145 AAGTATCTTTTTC
1 AAGTATCTTTTTC
1566158 AAGTATCTTTTT
1 AAGTATCTTTTT
1566170 AGAAGAGATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.12, G:0.08, T:0.56
Consensus pattern (13 bp):
AAGTATCTTTTTC
Found at i:1570319 original size:11 final size:11
Alignment explanation
Indices: 1570303--1570332 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
1570293 TGACTAAATC
1570303 ATATGAATTTT
1 ATATGAATTTT
1570314 ATATGAATTTT
1 ATATGAATTTT
1570325 ATATGAAT
1 ATATGAAT
1570333 GATTAATGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (11 bp):
ATATGAATTTT
Found at i:1573351 original size:20 final size:20
Alignment explanation
Indices: 1573322--1573360 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
1573312 AATTCAAAAG
1573322 AATGAACCATTC-ACCAAGC
1 AATGAACCATTCGACCAAGC
1573341 AATGCAACCATTCGACCAAG
1 AATG-AACCATTCGACCAAG
1573361 TCTTCCTAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 8 0.44
21 6 0.33
ACGTcount: A:0.41, C:0.31, G:0.13, T:0.15
Consensus pattern (20 bp):
AATGAACCATTCGACCAAGC
Found at i:1581601 original size:26 final size:26
Alignment explanation
Indices: 1581565--1581633 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 26
1581555 TTAAGCTCGC
1581565 TAGTTTTCGAGTCGAGCTCCATTTCA
1 TAGTTTTCGAGTCGAGCTCCATTTCA
1581591 TAGTTTTCGAGTCAGGTCGAGCTCCATTTCA
1 TAGTTTTC--G--A-GTCGAGCTCCATTTCA
*
1581622 GAGTTTTCGAGT
1 TAGTTTTCGAGT
1581634 AGAGTCAAGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
26 10 0.27
27 1 0.03
28 1 0.03
29 1 0.03
30 1 0.03
31 23 0.62
ACGTcount: A:0.19, C:0.20, G:0.23, T:0.38
Consensus pattern (26 bp):
TAGTTTTCGAGTCGAGCTCCATTTCA
Found at i:1581645 original size:31 final size:32
Alignment explanation
Indices: 1581573--1581645 Score: 114
Period size: 31 Copynumber: 2.3 Consensus size: 32
1581563 GCTAGTTTTC
*
1581573 GAGTCGAGCTCCATTTCATAGTTTTCGAGTCA
1 GAGTCGAGCTCCATTTCAGAGTTTTCGAGTCA
1581605 G-GTCGAGCTCCATTTCAGAGTTTTCGAGT-A
1 GAGTCGAGCTCCATTTCAGAGTTTTCGAGTCA
*
1581635 GAGTCAAGCTC
1 GAGTCGAGCTC
1581646 GACTCGGCTC
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
30 2 0.05
31 35 0.92
32 1 0.03
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.32
Consensus pattern (32 bp):
GAGTCGAGCTCCATTTCAGAGTTTTCGAGTCA
Found at i:1586100 original size:185 final size:183
Alignment explanation
Indices: 1585788--1586162 Score: 626
Period size: 185 Copynumber: 2.0 Consensus size: 183
1585778 ATAAAAATTA
*
1585788 AATATTTTATAATTAAAAAAACAGTTTATAATTAATTTAAATAATATATAATTATAAAATAAAAA
1 AATATTTTATAATTAAAAAAACAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAAA
*
1585853 TTTTATATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATCTTAAATTA
66 ATTTATATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATCTTAAATTA
**
1585918 TTAATTGGGTTTTAAATGGTTTGGGCTGAGCCCATATGTTATATGTAATATATTT
131 TTAATTGGGTTTTAAATGGTTTGGGCTGAG-CC-TATGTTATATAAAATATATTT
* * *
1585973 AATATTTTTTAATTCAGAAAAATAGTTTACAATTAATTTAAATAATATATAATTAT-AAATAAAA
1 AATATTTTATAATT-AAAAAAACAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAA
* *
1586037 AATTTATATAATTTTTTTAATTAATTAATATTGATTTATGTTTAAAAGTTATTGGATCTTAAATT
65 AATTTATATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATCTTAAATT
*
1586102 ATTAATTGGGTTTTAAATGGTTTGGGTTGAGCCTATGTTATATAAAATATATTT
130 ATTAATTGGGTTTTAAATGGTTTGGGCTGAGCCTATGTTATATAAAATATATTT
1586156 AATATTT
1 AATATTT
1586163 AAAAGTTTAT
Statistics
Matches: 179, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
183 26 0.15
184 2 0.01
185 113 0.63
186 38 0.21
ACGTcount: A:0.41, C:0.03, G:0.10, T:0.46
Consensus pattern (183 bp):
AATATTTTATAATTAAAAAAACAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAAA
ATTTATATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATCTTAAATTA
TTAATTGGGTTTTAAATGGTTTGGGCTGAGCCTATGTTATATAAAATATATTT
Found at i:1591686 original size:24 final size:24
Alignment explanation
Indices: 1591659--1591731 Score: 64
Period size: 24 Copynumber: 3.2 Consensus size: 24
1591649 GCATATGCCA
1591659 TAAATGAAATGCATAACGATGCAT
1 TAAATGAAATGCATAACGATGCAT
** * *
1591683 TAAA-GGCATG-A-AAGGACGCCA-
1 TAAATGAAATGCATAACGATG-CAT
*
1591704 TAAATGAAATGCATAACGGTGCAT
1 TAAATGAAATGCATAACGATGCAT
1591728 TAAA
1 TAAA
1591732 GGCATGAAAG
Statistics
Matches: 35, Mismatches: 9, Indels: 10
0.65 0.17 0.19
Matches are distributed among these distances:
21 9 0.26
22 7 0.20
23 7 0.20
24 12 0.34
ACGTcount: A:0.45, C:0.14, G:0.21, T:0.21
Consensus pattern (24 bp):
TAAATGAAATGCATAACGATGCAT
Found at i:1591705 original size:45 final size:45
Alignment explanation
Indices: 1591653--1591804 Score: 243
Period size: 45 Copynumber: 3.4 Consensus size: 45
1591643 TTAAAGGCAT
1591653 ATGCCATAAATGAAATGCATAACGATGCATTAAAGGCATGAAAGG
1 ATGCCATAAATGAAATGCATAACGATGCATTAAAGGCATGAAAGG
* *
1591698 ACGCCATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGG
1 ATGCCATAAATGAAATGCATAACGATGCATTAAAGGCATGAAAGG
* *
1591743 ATGCCATAATTGAAATGCATAAC-AGTGCATTGAAGGCATGAAAGG
1 ATGCCATAAATGAAATGCATAACGA-TGCATTAAAGGCATGAAAGG
1591788 ATGCCATAAATGGAAAT
1 ATGCCATAAAT-GAAAT
1591805 AATGAATATT
Statistics
Matches: 98, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
45 93 0.95
46 5 0.05
ACGTcount: A:0.43, C:0.14, G:0.23, T:0.20
Consensus pattern (45 bp):
ATGCCATAAATGAAATGCATAACGATGCATTAAAGGCATGAAAGG
Found at i:1598109 original size:45 final size:45
Alignment explanation
Indices: 1598040--1598188 Score: 228
Period size: 45 Copynumber: 3.3 Consensus size: 45
1598030 ATATTTGATT
* *
1598040 CCATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAATGATG
1 CCATAAATGAAATGCATAAAGGTGCATTAAAGGCATGAAAGGATG
1598085 CCATAAATGAAATGCATAAAGGTGCATTAAAGGCATGAAAGGATG
1 CCATAAATGAAATGCATAAAGGTGCATTAAAGGCATGAAAGGATG
* * *
1598130 CCATAATTGAAAAGCATAACA-GTGCATTAAAGACATGAAAGGATG
1 CCATAAATGAAATGCATAA-AGGTGCATTAAAGGCATGAAAGGATG
1598175 CCATAAATGGAAAT
1 CCATAAAT-GAAAT
1598189 AATGAATATT
Statistics
Matches: 95, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
45 90 0.95
46 5 0.05
ACGTcount: A:0.45, C:0.13, G:0.21, T:0.21
Consensus pattern (45 bp):
CCATAAATGAAATGCATAAAGGTGCATTAAAGGCATGAAAGGATG
Found at i:1602389 original size:49 final size:46
Alignment explanation
Indices: 1602287--1602401 Score: 131
Period size: 49 Copynumber: 2.4 Consensus size: 46
1602277 ATTTGGAAAC
* * *
1602287 CCTTTCATACCCATTATGTAATGTTTACGTTTTTCCTTTATGACAT
1 CCTTTCATACCAATTATGCAATGTTTACGTTTTTCCTATATGACAT
* * * *
1602333 CCATTCATACCAATTATGCATTGTTGTACGTTTTATATCTATATGATAT
1 CCTTTCATACCAATTATGCAATGTT-TACGTTTT-T-CCTATATGACAT
*
1602382 CCTTTCATACCACTTATGCA
1 CCTTTCATACCAATTATGCA
1602402 CCGTTTATAT
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
46 21 0.37
47 8 0.14
48 1 0.02
49 27 0.47
ACGTcount: A:0.25, C:0.22, G:0.09, T:0.44
Consensus pattern (46 bp):
CCTTTCATACCAATTATGCAATGTTTACGTTTTTCCTATATGACAT
Found at i:1602590 original size:81 final size:81
Alignment explanation
Indices: 1602453--1603077 Score: 609
Period size: 81 Copynumber: 7.7 Consensus size: 81
1602443 CCCAAAGGCA
* * * * **
1602453 TTTAACCTTTCATCTAACTTGCATGATTGACACTTTTCTAT-CAAATAT--ATAGCTAGGATATT
1 TTTAACCGTTCATCTAACTGGCATAATTGACAC-TTT-TATGCAAAT-TGCACAGCTAGGCCATT
*
1602515 TATCTTTTACTCAACGATC
63 TATCTTTTACTCAACGGTC
* * * *
1602534 CTTAACCGTTAATCTAACTGGCATAATTGACACTTTTATGCAAATTGTACAACTAGGCCATTTAT
1 TTTAACCGTTCATCTAACTGGCATAATTGACACTTTTATGCAAATTGCACAGCTAGGCCATTTAT
* * *
1602599 TTTTTTCTCAACGATC
66 CTTTTACTCAACGGTC
* * * **
1602615 TTTAACCGTTCATCTAACTGGAATAATTGACACCTTTCA-ACAAATTGCACAGCTAATCCATTTA
1 TTTAACCGTTCATCTAACTGGCATAATTGACA-CTTTTATGCAAATTGCACAGCTAGGCCATTTA
*
1602679 TC-TTTATTCAACGGTC
65 TCTTTTACTCAACGGTC
* * * * *
1602695 TTTAACCATTAATCTAACTGGCATAATTGACAAC-TTTCTGCCAATTGCACTGCTAGGCCATTTA
1 TTTAACCGTTCATCTAACTGGCATAATTGAC-ACTTTTATGCAAATTGCACAGCTAGGCCATTTA
*
1602759 TCTTTCACTCAACGGTC
65 TCTTTTACTCAACGGTC
* * ** * * * * * * *
1602776 TTTAACGGTTCATCTAATTGAAATGATTGACACATTTCTACCAATTGAACAACTAGGCCATTTAT
1 TTTAACCGTTCATCTAACTGGCATAATTGACACTTTTATGCAAATTGCACAGCTAGGCCATTTAT
*
1602841 CTTTTTCTCAACGGTC
66 CTTTTACTCAACGGTC
* * * * * **
1602857 TTTAACCGTTCATCAAACTAGCATGATTGACAACTTTCA-GCAAATTGCATAGCTATACCATTTA
1 TTTAACCGTTCATCTAACTGGCATAATTGAC-ACTTTTATGCAAATTGCACAGCTAGGCCATTTA
*
1602921 TCTTTTACTCAACAGTC
65 TCTTTTACTCAACGGTC
* * * * * * *
1602938 TTCAACCATTCATCTAACTAGCATGATTGACACATTTCTGCCAATTGCACAGCTAGGCCATTTAT
1 TTTAACCGTTCATCTAACTGGCATAATTGACACTTTTATGCAAATTGCACAGCTAGGCCATTTAT
*
1603003 ATTTTACTCAACGGTC
66 CTTTTACTCAACGGTC
* * * *
1603019 TTTAACCATTCATTTAACTGGCATAATTGACACCTTTCTGCCAAA-TGCACAGCTAGGCC
1 TTTAACCGTTCATCTAACTGGCATAATTGACACTTTTATG-CAAATTGCACAGCTAGGCC
1603078 TCAAAGGCAC
Statistics
Matches: 448, Mismatches: 85, Indels: 22
0.81 0.15 0.04
Matches are distributed among these distances:
79 6 0.01
80 76 0.17
81 354 0.79
82 12 0.03
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (81 bp):
TTTAACCGTTCATCTAACTGGCATAATTGACACTTTTATGCAAATTGCACAGCTAGGCCATTTAT
CTTTTACTCAACGGTC
Found at i:1602888 original size:242 final size:243
Alignment explanation
Indices: 1602503--1603051 Score: 717
Period size: 242 Copynumber: 2.3 Consensus size: 243
1602493 TCAAATATAT
** * * ** *
1602503 AGCTAGGATATTTATCTTTTACTCAACGATCCTTAACCGTTAATCTAACTGGCATAATTGACACT
1 AGCTAGGCCATTTATCTTTTACTCAACGGTCTTTAACCGTTAATCTAACTGAAATAATTGACACA
* * * *
1602568 TTTATGCAAATTGTACAACTAGGCCATTTATTTTTTTCTCAACGATCTTTAACCGTTCATCTAAC
66 TTTATACAAATTGAACAACTAGGCCATTTATCTTTTTCTCAACGATCTTTAACCGTTCATCAAAC
* * * *
1602633 TGGAATAATTGACACCTTTCAACAAATTGCACAGCTA-ATCCATTTATC-TTTATTCAACGGTCT
131 TAGAATAATTGACAACTTTCAACAAATTGCACAGCTATA-CCATTTATCTTTTACTCAACAGTCT
* *
1602696 TTAACCATTAATCTAACTGGCATAATTGACA-ACTTTCTGCCAATTGCAC
195 TCAACCATTAATCTAACTAGCATAATTGACACA-TTTCTGCCAATTGCAC
* * * * * *
1602745 TGCTAGGCCATTTATCTTTCACTCAACGGTCTTTAACGGTTCATCTAATTGAAATGATTGACACA
1 AGCTAGGCCATTTATCTTTTACTCAACGGTCTTTAACCGTTAATCTAACTGAAATAATTGACACA
* * *
1602810 TTTCTACCAATTGAACAACTAGGCCATTTATCTTTTTCTCAACGGTCTTTAACCGTTCATCAAAC
66 TTTATACAAATTGAACAACTAGGCCATTTATCTTTTTCTCAACGATCTTTAACCGTTCATCAAAC
* * * *
1602875 TAGCATGATTGACAACTTTCAGCAAATTGCATAGCTATACCATTTATCTTTTACTCAACAGTCTT
131 TAGAATAATTGACAACTTTCAACAAATTGCACAGCTATACCATTTATCTTTTACTCAACAGTCTT
* *
1602940 CAACCATTCATCTAACTAGCATGATTGACACATTTCTGCCAATTGCAC
196 CAACCATTAATCTAACTAGCATAATTGACACATTTCTGCCAATTGCAC
* * * * **
1602988 AGCTAGGCCATTTATATTTTACTCAACGGTCTTTAACCATTCATTTAACTGGCATAATTGACAC
1 AGCTAGGCCATTTATCTTTTACTCAACGGTCTTTAACCGTTAATCTAACTGAAATAATTGACAC
1603052 CTTTCTGCCA
Statistics
Matches: 262, Mismatches: 42, Indels: 5
0.85 0.14 0.02
Matches are distributed among these distances:
242 150 0.57
243 111 0.42
244 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (243 bp):
AGCTAGGCCATTTATCTTTTACTCAACGGTCTTTAACCGTTAATCTAACTGAAATAATTGACACA
TTTATACAAATTGAACAACTAGGCCATTTATCTTTTTCTCAACGATCTTTAACCGTTCATCAAAC
TAGAATAATTGACAACTTTCAACAAATTGCACAGCTATACCATTTATCTTTTACTCAACAGTCTT
CAACCATTAATCTAACTAGCATAATTGACACATTTCTGCCAATTGCAC
Found at i:1602922 original size:162 final size:162
Alignment explanation
Indices: 1602453--1603077 Score: 693
Period size: 162 Copynumber: 3.9 Consensus size: 162
1602443 CCCAAAGGCA
* * * * * ** * **
1602453 TTTAACCTTTCATCTAACTTG-CATGATTGACACTTTTCTATCAAATATATAGCTAGGATATTTA
1 TTTAACCGTTCATCTAAC-TGAAATGATTGACACATTTCTACCAATTGCACAGCTAGGCCATTTA
* * * *
1602517 TCTTTTACTCAACGATCCTTAACCGTTAATCTAACTGGCATAATTGAC-ACTTTTATGCAAATTG
65 TCTTTTACTCAACGGTCTTTAACCATTAATCTAACTGGCATAATTGACAACTTTCA-GCAAATTG
* * * * *
1602581 TACAACTAGGCCATTTATTTTTTTCTCAACGATC
129 CACAGCTAGGCCATTTATCTTTTACTCAACGGTC
* * * * * **
1602615 TTTAACCGTTCATCTAACTGGAATAATTGACACCTTTCAACAAATTGCACAGCTAATCCATTTAT
1 TTTAACCGTTCATCTAACTGAAATGATTGACACATTTCTACCAATTGCACAGCTAGGCCATTTAT
* * *
1602680 C-TTTATTCAACGGTCTTTAACCATTAATCTAACTGGCATAATTGACAACTTTCTGCCAATTGCA
66 CTTTTACTCAACGGTCTTTAACCATTAATCTAACTGGCATAATTGACAACTTTCAGCAAATTGCA
* *
1602744 CTGCTAGGCCATTTATCTTTCACTCAACGGTC
131 CAGCTAGGCCATTTATCTTTTACTCAACGGTC
* * * *
1602776 TTTAACGGTTCATCTAATTGAAATGATTGACACATTTCTACCAATTGAACAACTAGGCCATTTAT
1 TTTAACCGTTCATCTAACTGAAATGATTGACACATTTCTACCAATTGCACAGCTAGGCCATTTAT
* * * * * *
1602841 CTTTTTCTCAACGGTCTTTAACCGTTCATCAAACTAGCATGATTGACAACTTTCAGCAAATTGCA
66 CTTTTACTCAACGGTCTTTAACCATTAATCTAACTGGCATAATTGACAACTTTCAGCAAATTGCA
* ** *
1602906 TAGCTATACCATTTATCTTTTACTCAACAGTC
131 CAGCTAGGCCATTTATCTTTTACTCAACGGTC
* * * *
1602938 TTCAACCATTCATCTAACT-AGCATGATTGACACATTTCTGCCAATTGCACAGCTAGGCCATTTA
1 TTTAACCGTTCATCTAACTGA-AATGATTGACACATTTCTACCAATTGCACAGCTAGGCCATTTA
* * * * *
1603002 TATTTTACTCAACGGTCTTTAACCATTCATTTAACTGGCATAATTGACACCTTTCTGCCAAA-TG
65 TCTTTTACTCAACGGTCTTTAACCATTAATCTAACTGGCATAATTGACAACTTTCAG-CAAATTG
1603066 CACAGCTAGGCC
129 CACAGCTAGGCC
1603078 TCAAAGGCAC
Statistics
Matches: 383, Mismatches: 75, Indels: 10
0.82 0.16 0.02
Matches are distributed among these distances:
161 133 0.35
162 246 0.64
163 4 0.01
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (162 bp):
TTTAACCGTTCATCTAACTGAAATGATTGACACATTTCTACCAATTGCACAGCTAGGCCATTTAT
CTTTTACTCAACGGTCTTTAACCATTAATCTAACTGGCATAATTGACAACTTTCAGCAAATTGCA
CAGCTAGGCCATTTATCTTTTACTCAACGGTC
Found at i:1603119 original size:68 final size:68
Alignment explanation
Indices: 1603027--1603281 Score: 375
Period size: 68 Copynumber: 3.8 Consensus size: 68
1603017 TCTTTAACCA
* * *
1603027 TTCATTTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGTTAGGCCTCAAAGACACTTAG
1603092 CCT
66 CCT
* * * * * *
1603095 TTCATCTAACTGCCATAGTTGACACTTTTCTGTCAAATTCACAGTTAGGCCTCAAAGTCACTTAG
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGTTAGGCCTCAAAGACACTTAG
1603160 CCT
66 CCT
* * *
1603163 TTCATCTAACTGACATAATTGAAACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGACACTTAG
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGTTAGGCCTCAAAGACACTTAG
1603228 CCT
66 CCT
* * *
1603231 TTCATCTAACTGGCATAATTGACACATTTCTGCCAATTGCACAGTCAGGCC
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGTTAGGCC
1603282 ACTTATCTTT
Statistics
Matches: 167, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
68 167 1.00
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.30
Consensus pattern (68 bp):
TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGTTAGGCCTCAAAGACACTTAG
CCT
Found at i:1603534 original size:54 final size:55
Alignment explanation
Indices: 1603476--1603796 Score: 290
Period size: 55 Copynumber: 5.9 Consensus size: 55
1603466 CTTCTGATAA
* * * * * **
1603476 TTGCACATATATTTCCCCTACATAAATTCATTTAATTAGTATGAATTTCGTAG-T
1 TTGCACACATAGTGCCCATACAGAAATTCATACAATTAGTATGAATTTCGTAGTT
** * *
1603530 TTGCACACATAGTGCCCATATGGAAATTCATACACTTAGTATGAATTTCTTAGTT
1 TTGCACACATAGTGCCCATACAGAAATTCATACAATTAGTATGAATTTCGTAGTT
* * * *
1603585 TTGCACACAAAGTGCCTATACGGAAATTCATACACTTAGTATGAATTTC-TCAGTT
1 TTGCACACATAGTGCCCATACAGAAATTCATACAATTAGTATGAATTTCGT-AGTT
* * ** * *
1603640 TTGCACACAAAGTGCTCATATGGAAATTCATACACTTAGTATGAATTTCTTAGTT
1 TTGCACACATAGTGCCCATACAGAAATTCATACAATTAGTATGAATTTCGTAGTT
* * *** * * *
1603695 TTGTACACAAAGTGTATATATAGAAATTCATACAGTTAGTATGAATTT-ATCAGTT
1 TTGCACACATAGTGCCCATACAGAAATTCATACAATTAGTATGAATTTCGT-AGTT
* * **
1603750 TTGCACACAAAGTTCCCATAC-GAAAATTCATACTCTTAGTATGAATT
1 TTGCACACATAGTGCCCATACAG-AAATTCATACAATTAGTATGAATT
1603797 CCTCAACTTT
Statistics
Matches: 230, Mismatches: 32, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
54 45 0.20
55 184 0.80
56 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (55 bp):
TTGCACACATAGTGCCCATACAGAAATTCATACAATTAGTATGAATTTCGTAGTT
Found at i:1603613 original size:55 final size:55
Alignment explanation
Indices: 1603511--1603796 Score: 396
Period size: 55 Copynumber: 5.2 Consensus size: 55
1603501 ATTCATTTAA
* * *
1603511 TTAGTATGAATTTCGTAG-TTTGCACACATAGTGCCCATATGGAAATTCATACAC
1 TTAGTATGAATTTCTTAGTTTTGCACACAAAGTGCCTATATGGAAATTCATACAC
*
1603565 TTAGTATGAATTTCTTAGTTTTGCACACAAAGTGCCTATACGGAAATTCATACAC
1 TTAGTATGAATTTCTTAGTTTTGCACACAAAGTGCCTATATGGAAATTCATACAC
*
1603620 TTAGTATGAATTTCTCAGTTTTGCACACAAAGTG-CTCATATGGAAATTCATACAC
1 TTAGTATGAATTTCTTAGTTTTGCACACAAAGTGCCT-ATATGGAAATTCATACAC
* ** * *
1603675 TTAGTATGAATTTCTTAGTTTTGTACACAAAGTGTATATATAGAAATTCATACAG
1 TTAGTATGAATTTCTTAGTTTTGCACACAAAGTGCCTATATGGAAATTCATACAC
* * * * * * *
1603730 TTAGTATGAATTTATCAGTTTTGCACACAAAGTTCCCATACGAAAATTCATACTC
1 TTAGTATGAATTTCTTAGTTTTGCACACAAAGTGCCTATATGGAAATTCATACAC
1603785 TTAGTATGAATT
1 TTAGTATGAATT
1603797 CCTCAACTTT
Statistics
Matches: 206, Mismatches: 23, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
54 19 0.09
55 186 0.90
56 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (55 bp):
TTAGTATGAATTTCTTAGTTTTGCACACAAAGTGCCTATATGGAAATTCATACAC
Found at i:1604166 original size:20 final size:20
Alignment explanation
Indices: 1604138--1604195 Score: 62
Period size: 22 Copynumber: 2.8 Consensus size: 20
1604128 ATTTATGGCT
* *
1604138 CCATAGTATCGATACCCCTA
1 CCATGGTATCGATACCCATA
*
1604158 CCATGGTATCGATACTACTATA
1 CCATGGTATCGATAC--CCATA
*
1604180 CTATGGTATCGATACC
1 CCATGGTATCGATACC
1604196 ATTTTTGCAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 15 0.47
22 17 0.53
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (20 bp):
CCATGGTATCGATACCCATA
Found at i:1604243 original size:20 final size:20
Alignment explanation
Indices: 1604218--1604268 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
1604208 TGTTTTGAAA
*
1604218 CGGTATCGATAC-CTTACCTT
1 CGGTATCGATACTC-CACCTT
*
1604238 CGGTATCGATACTCCCCCTT
1 CGGTATCGATACTCCACCTT
1604258 CGGTATCGATA
1 CGGTATCGATA
1604269 GCGATTGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 27 0.96
21 1 0.04
ACGTcount: A:0.20, C:0.31, G:0.18, T:0.31
Consensus pattern (20 bp):
CGGTATCGATACTCCACCTT
Found at i:1608342 original size:49 final size:46
Alignment explanation
Indices: 1608228--1608342 Score: 119
Period size: 49 Copynumber: 2.4 Consensus size: 46
1608218 ACATTTGGGA
*
1608228 ATCCTTTCATA-CACATTATGTATTGTTTACTTTTTTCCTTTATCAC
1 ATCCTTTCATACCAC-TTATGTATTGTTTACTTTTTTCCTATATCAC
* * *
1608274 AT-CTATTCATACCAATTATGTATTGTTGTACATTTTATAT-CTATATGAT
1 ATCCT-TTCATACCACTTATGTATTGTT-TAC-TTTT-T-TCCTATATCAC
1608323 ATCCTTTCATACCACTTATG
1 ATCCTTTCATACCACTTATG
1608343 CACCGTTTAT
Statistics
Matches: 57, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
45 2 0.04
46 20 0.35
47 5 0.09
48 4 0.07
49 23 0.40
50 3 0.05
ACGTcount: A:0.26, C:0.19, G:0.06, T:0.49
Consensus pattern (46 bp):
ATCCTTTCATACCACTTATGTATTGTTTACTTTTTTCCTATATCAC
Found at i:1608482 original size:81 final size:81
Alignment explanation
Indices: 1608404--1608931 Score: 539
Period size: 81 Copynumber: 6.6 Consensus size: 81
1608394 CATTTAACAT
* * * *
1608404 TTCATCTAACTT-GCATGATTGACACTTTTCTGTCAAATGTATAACTAGGCCATTTATCTTTTAC
1 TTCATCTAA-TTGGCATGATTGACACTTTTCTGCCAATTGCACAACTAGGCCATTTATCTTTTAC
* *
1608468 TCAACGATCCTTAACCA
65 TCAACGATCTTTAACCG
* * * *
1608485 TTCATCTAATTGGCATAATTGACACCTTTATGCCAATTGCACAGCTAGGCCATTTATCTTTTACT
1 TTCATCTAATTGGCATGATTGACACTTTTCTGCCAATTGCACAACTAGGCCATTTATCTTTTACT
1608550 CAACTG-TCTTTAACCG
66 CAAC-GATCTTTAACCG
* * * * * *
1608566 TTCATCTAACTAGCATAATTGACACATTTT-TACCAATTGAACAACTAGGCCATTTATCGTTTAC
1 TTCATCTAATTGGCATGATTGACAC-TTTTCTGCCAATTGCACAACTAGGCCATTTATCTTTTAC
* * *
1608630 TCAATGGTCTTTAATCG
65 TCAACGATCTTTAACCG
* * * *
1608647 TTCATCTAATTGGCATGATTGGA-A-TCTTTCTGCCAATTACACAGCTAGGCCATCTATCTTTCA
1 TTCATCTAATTGGCATGATT-GACACT-TTTCTGCCAATTGCACAACTAGGCCATTTATCTTTTA
*
1608710 CTCAACGGTCTTTAACCG
64 CTCAACGATCTTTAACCG
* * * *
1608728 TTCATGTAACAT-GCATGATTGACACCTTTCTGCCAATTGCACAACTAGACCATTTATCTTTTAC
1 TTCATCTAA-TTGGCATGATTGACACTTTTCTGCCAATTGCACAACTAGGCCATTTATCTTTTAC
1608792 TCAACGATCTTTAACCG
65 TCAACGATCTTTAACCG
* *
1608809 TTCATCTAATTGGCATGATTAACACATTTCTGCCAATTG-----C-A---CATTTATCTTTTACT
1 TTCATCTAATTGGCATGATTGACACTTTTCTGCCAATTGCACAACTAGGCCATTTATCTTTTACT
*
1608865 CAAC-AGTTTTTAACCG
66 CAACGA-TCTTTAACCG
* ** * * * *
1608881 TTCATCTAACTAACATAATTGACACCTTTCAGCCAAATGCACAACTAGGCC
1 TTCATCTAATTGGCATGATTGACACTTTTCTGCCAATTGCACAACTAGGCC
1608932 TCAAAGGCAC
Statistics
Matches: 373, Mismatches: 53, Indels: 42
0.80 0.11 0.09
Matches are distributed among these distances:
71 1 0.00
72 59 0.16
75 1 0.00
76 1 0.00
77 1 0.00
78 1 0.00
79 1 0.00
80 9 0.02
81 292 0.78
82 7 0.02
ACGTcount: A:0.28, C:0.24, G:0.11, T:0.36
Consensus pattern (81 bp):
TTCATCTAATTGGCATGATTGACACTTTTCTGCCAATTGCACAACTAGGCCATTTATCTTTTACT
CAACGATCTTTAACCG
Found at i:1608653 original size:162 final size:160
Alignment explanation
Indices: 1608404--1608931 Score: 617
Period size: 162 Copynumber: 3.3 Consensus size: 160
1608394 CATTTAACAT
* * ** * *
1608404 TTCATCTAACTTGCATGATTGACACTTTTCTGTCAAATGTATAACTAGGCCATTTATCTTTTACT
1 TTCATCTAACTAGCATAATTGACACTTTT-TACCAAATGCACAACTAGGCCATTTATCTTTTACT
* * * *
1608469 CAACGATCCTTAACCATTCATCTAATTGGCATAATTGACACCTTTATGCCAATTGCACAGCTAGG
65 CAACGATCTTTAACCGTTCATCTAATTGGCATGATTGACACCTTTCTGCCAATT-CACAGCTAGG
*
1608534 CCATTTATCTTTTACTCAACTGTCTTTAACCG
129 CCATTTATCTTTTACTCAACAGTCTTTAACCG
* * *
1608566 TTCATCTAACTAGCATAATTGACACATTTTTACCAATTGAACAACTAGGCCATTTATCGTTTACT
1 TTCATCTAACTAGCATAATTGACAC-TTTTTACCAAATGCACAACTAGGCCATTTATCTTTTACT
* * * *
1608631 CAATGGTCTTTAATCGTTCATCTAATTGGCATGATTGGA-ATCTTTCTGCCAATTACACAGCTAG
65 CAACGATCTTTAACCGTTCATCTAATTGGCATGATT-GACACCTTTCTGCCAATT-CACAGCTAG
* * *
1608695 GCCATCTATCTTTCACTCAACGGTCTTTAACCG
128 GCCATTTATCTTTTACTCAACAGTCTTTAACCG
* * * * * *
1608728 TTCATGTAAC-ATGCATGATTGACACCTTTCTGCCAATTGCACAACTAGACCATTTATCTTTTAC
1 TTCATCTAACTA-GCATAATTGACA-CTTTTTACCAAATGCACAACTAGGCCATTTATCTTTTAC
* *
1608792 TCAACGATCTTTAACCGTTCATCTAATTGGCATGATTAACACATTTCTGCCAATT----GC-A--
64 TCAACGATCTTTAACCGTTCATCTAATTGGCATGATTGACACCTTTCTGCCAATTCACAGCTAGG
*
1608850 -CATTTATCTTTTACTCAACAGTTTTTAACCG
129 CCATTTATCTTTTACTCAACAGTCTTTAACCG
* * *
1608881 TTCATCTAACTAACATAATTGACACCTTTCAGCCAAATGCACAACTAGGCC
1 TTCATCTAACTAGCATAATTGACACTTTTTA-CCAAATGCACAACTAGGCC
1608932 TCAAAGGCAC
Statistics
Matches: 313, Mismatches: 46, Indels: 23
0.82 0.12 0.06
Matches are distributed among these distances:
152 3 0.01
153 63 0.20
154 1 0.00
156 1 0.00
157 2 0.01
161 2 0.01
162 234 0.75
163 7 0.02
ACGTcount: A:0.28, C:0.24, G:0.11, T:0.36
Consensus pattern (160 bp):
TTCATCTAACTAGCATAATTGACACTTTTTACCAAATGCACAACTAGGCCATTTATCTTTTACTC
AACGATCTTTAACCGTTCATCTAATTGGCATGATTGACACCTTTCTGCCAATTCACAGCTAGGCC
ATTTATCTTTTACTCAACAGTCTTTAACCG
Found at i:1608916 original size:72 final size:72
Alignment explanation
Indices: 1608778--1608923 Score: 195
Period size: 72 Copynumber: 2.0 Consensus size: 72
1608768 ACAACTAGAC
* ** * *
1608778 CATTTATCTTTTACTCAACGATCTTTAACCGTTCATCTAATTGGCATGATTAACACATTTCTGCC
1 CATTTATCTTTTACTCAACGATCTTTAACCGTTCATCTAACTAACATAATTAACACATTTCAGCC
*
1608843 AATTGCA
66 AAATGCA
* * *
1608850 CATTTATCTTTTACTCAAC-AGTTTTTAACCGTTCATCTAACTAACATAATTGACACCTTTCAGC
1 CATTTATCTTTTACTCAACGA-TCTTTAACCGTTCATCTAACTAACATAATTAACACATTTCAGC
1608914 CAAATGCA
65 CAAATGCA
1608922 CA
1 CA
1608924 ACTAGGCCTC
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
71 1 0.02
72 63 0.98
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (72 bp):
CATTTATCTTTTACTCAACGATCTTTAACCGTTCATCTAACTAACATAATTAACACATTTCAGCC
AAATGCA
Found at i:1608967 original size:68 final size:68
Alignment explanation
Indices: 1608881--1609134 Score: 370
Period size: 68 Copynumber: 3.8 Consensus size: 68
1608871 TTTTTAACCG
* * * *
1608881 TTCATCTAACT-AACATAATTGACACCTTTCAGCCAAATGCACAACTAGGCCTCAAAGGCACTTA
1 TTCATCTAACTGGA-ATAATTGACACCTTTCTGTCAAATGCACAATTAGGCCTCAAAGGCACTTA
1608945 GCCT
65 GCCT
*
1608949 TTCATCTAACTGGAATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGAATAATTGACACCTTTCTGTCAAATGCACAATTAGGCCTCAAAGGCACTTAG
1609014 CCT
66 CCT
* * *
1609017 TTCATCTAACTGGCATAATTAACA-CATTCTGTCAAATGCACAATTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGAATAATTGACACCTTTCTGTCAAATGCACAATTAGGCCTCAAAGGCACTTAG
1609081 CCT
66 CCT
* * *
1609084 TTCATCTAACTGGTATAATTGACACATTTCTGTC-AATGGCACAGTTAGGCC
1 TTCATCTAACTGGAATAATTGACACCTTTCTGTCAAAT-GCACAATTAGGCC
1609135 ACTTATCTTT
Statistics
Matches: 169, Mismatches: 14, Indels: 6
0.89 0.07 0.03
Matches are distributed among these distances:
67 66 0.39
68 102 0.60
69 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.29
Consensus pattern (68 bp):
TTCATCTAACTGGAATAATTGACACCTTTCTGTCAAATGCACAATTAGGCCTCAAAGGCACTTAG
CCT
Found at i:1609075 original size:135 final size:136
Alignment explanation
Indices: 1608881--1609134 Score: 404
Period size: 135 Copynumber: 1.9 Consensus size: 136
1608871 TTTTTAACCG
* *
1608881 TTCATCTAACTAACATAATTGACACCTTTCAGCCAAATGCACAACTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTAACATAATTAACACCATTCAGCCAAATGCACAACTAGGCCTCAAAGGCACTTAG
*
1608946 CCTTTCATCTAACTGGAATAATTGACACCTTTCTGTCAAAT-GCACAGTTAGGCCTCAAAGGCAC
66 CCTTTCATCTAACTGGAATAATTGACACATTTCTGTC-AATGGCACAGTTAGGCCTCAAAGGCAC
1609010 TTAGCCT
130 TTAGCCT
** * * *
1609017 TTCATCTAACTGGCATAATTAACA-CATTCTGTCAAATGCACAATTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTAACATAATTAACACCATTCAGCCAAATGCACAACTAGGCCTCAAAGGCACTTAG
*
1609081 CCTTTCATCTAACTGGTATAATTGACACATTTCTGTCAATGGCACAGTTAGGCC
66 CCTTTCATCTAACTGGAATAATTGACACATTTCTGTCAATGGCACAGTTAGGCC
1609135 ACTTATCTTT
Statistics
Matches: 108, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
134 3 0.03
135 84 0.78
136 21 0.19
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.29
Consensus pattern (136 bp):
TTCATCTAACTAACATAATTAACACCATTCAGCCAAATGCACAACTAGGCCTCAAAGGCACTTAG
CCTTTCATCTAACTGGAATAATTGACACATTTCTGTCAATGGCACAGTTAGGCCTCAAAGGCACT
TAGCCT
Found at i:1609468 original size:55 final size:55
Alignment explanation
Indices: 1609352--1609600 Score: 324
Period size: 55 Copynumber: 4.6 Consensus size: 55
1609342 TCTCCCCTAA
* * * * *
1609352 GGAAATTCATTCACTTAGTATGAATATC-CTAG-TTCGCACATATAGTGCCCATAC
1 GGAAATTCATACACTTAGTATGAATTTCTC-AGTTTTGCACACAAAGTGCCCATAC
* * *
1609406 GAAAATTCATACACTTAGTATGAATTTCTTATTTTTGCACACAAAGTGCCCATAC
1 GGAAATTCATACACTTAGTATGAATTTCTCAGTTTTGCACACAAAGTGCCCATAC
* * * *
1609461 AGAAATTCATACACTTAGTATGAATTTCTCAGTTTTACATACAAAGTGCGCATAC
1 GGAAATTCATACACTTAGTATGAATTTCTCAGTTTTGCACACAAAGTGCCCATAC
* * *
1609516 GGAAATTCATACACTTAGTATAAATTTCTCAGTTTTGCACACAAAGTGCACAAAC
1 GGAAATTCATACACTTAGTATGAATTTCTCAGTTTTGCACACAAAGTGCCCATAC
*
1609571 GGAAATTCATACACTT-GTATGAATTCCTCA
1 GGAAATTCATACACTTAGTATGAATTTCTCA
1609601 ACTTTTTGCA
Statistics
Matches: 170, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
54 38 0.22
55 132 0.78
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.32
Consensus pattern (55 bp):
GGAAATTCATACACTTAGTATGAATTTCTCAGTTTTGCACACAAAGTGCCCATAC
Found at i:1613294 original size:22 final size:22
Alignment explanation
Indices: 1613220--1613293 Score: 69
Period size: 22 Copynumber: 3.2 Consensus size: 22
1613210 CTAATAATAT
*
1613220 TAAAATAAATCAAT-CATACAA
1 TAAAATAAATCAATCCATATAA
**
1613241 CTACAATAATAAATCAATCCATATTT
1 -T--AA-AATAAATCAATCCATATAA
1613267 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
1613290 TAAA
1 TAAA
1613294 TTATTTAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
22 17 0.40
23 7 0.17
24 2 0.05
25 12 0.29
26 4 0.10
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.28
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:1613304 original size:32 final size:32
Alignment explanation
Indices: 1613265--1613650 Score: 301
Period size: 32 Copynumber: 13.7 Consensus size: 32
1613255 CAATCCATAT
1613265 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1613297 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1613319 TTTAAAATAAATCAATCCATACAAATAAATAAATTA
1 TTTAAAATAAATCAATCCATAC---T-AATAAATTA
1613355 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1613387 TTTAAAATAATTCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1613409 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1613441 TTTAAAATAAATCAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
1613471 --T--AATAAATCAATCC--A-T-AT------
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1613489 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1613521 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1613543 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1613575 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1613597 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1613629 TTTTAAAATAAATCAATCCATA
1 -TTTAAAATAAATCAATCCATA
1613651 TTTTATAATA
Statistics
Matches: 290, Mismatches: 3, Indels: 121
0.70 0.01 0.29
Matches are distributed among these distances:
20 1 0.00
22 77 0.27
23 9 0.03
24 6 0.02
25 1 0.00
26 27 0.09
28 11 0.04
30 4 0.01
31 9 0.03
32 99 0.34
33 22 0.08
34 1 0.00
35 1 0.00
36 22 0.08
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.34
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:1613306 original size:54 final size:54
Alignment explanation
Indices: 1613248--1613661 Score: 479
Period size: 54 Copynumber: 7.5 Consensus size: 54
1613238 CAACTACAAT
1613248 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1613302 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATAC---T-AATAAATTATTTAA
** * ** * * * **
1613360 AATAAATCAATCCATACTAATAAATTATTTAAAAT-AATTC-AATCCA-TATTTTAA
1 AATAAATCAATCCATA-TTTTAAAATAAAT-CAATCCATACTAATAAATTA-TTTAA
*
1613414 AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAC-AACTACA--A--T--
1 AATAAATCAAT-C---C--AT--A-T-TTTAAAATAAATCAATCCATACTAA-TAAATTATTTAA
1613472 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1613526 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1613580 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA-TTTAA
*
1613635 AATAAATCAATCCATATTTTATAATAA
1 AATAAATCAATCCATATTTTAAAATAA
1613662 TTTATTTTAA
Statistics
Matches: 312, Mismatches: 22, Indels: 51
0.81 0.06 0.13
Matches are distributed among these distances:
48 25 0.08
49 3 0.01
50 2 0.01
52 3 0.01
53 2 0.01
54 163 0.52
55 32 0.10
57 2 0.01
58 42 0.13
59 11 0.04
60 6 0.02
62 5 0.02
63 13 0.04
64 3 0.01
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (54 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
Found at i:1613323 original size:22 final size:22
Alignment explanation
Indices: 1613297--1613339 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1613287 TAATAAATTA
1613297 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
1613319 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
1613340 CAAATAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:1613348 original size:22 final size:22
Alignment explanation
Indices: 1613299--1613352 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
1613289 ATAAATTATT
***
1613299 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATAAAA
1613321 TAAAATAAATCAATCCATACAAA
1 TAAAATAAATCAATCCATA-AAA
1613344 T-AAATAAAT
1 TAAAATAAAT
1613353 TATTTAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 27 0.96
23 1 0.04
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (22 bp):
TAAAATAAATCAATCCATAAAA
Found at i:1613368 original size:90 final size:86
Alignment explanation
Indices: 1613265--1613661 Score: 456
Period size: 90 Copynumber: 4.7 Consensus size: 86
1613255 CAATCCATAT
1613265 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1613330 TCAATCCATACAAATAAATAAATTA
66 TCAATCCATAC---T-AATAAATTA
*
1613355 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAATTCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1613420 TCAATCCATACTAATAAATTA
66 TCAATCCATACTAATAAATTA
*
1613441 TTTAAAATAAATCAATCCATAC-AACTACA--A--T--AATAAATCAATCCATATTTTAAAATAA
1 TTTAAAATAAATCAATCCATACTAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAA
1613499 ATCAATCCATACTAATAAATTA
65 ATCAATCCATACTAATAAATTA
** * *
1613521 TTTAAAATAAATCAAT-C---C--AT--A-T-TTTAAAATAAATCAATCCATACTAATAAATTAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAA
* * ** **
1613576 TTAAAATAAAT-C-AATCCA-TA
65 AT-CAATCCATACTAATAAATTA
*
1613596 TTTTAAAATAAATCAATCCATACTAATAAATTATTTTAAAATAAATCAATCCATATTTTATAATA
1 -TTTAAAATAAATCAATCCATACTAATAAATTA-TTTAAAATAAATCAATCCATATTTTAAAATA
1613661 A
64 A
1613662 TTTATTTTAA
Statistics
Matches: 269, Mismatches: 18, Indels: 44
0.81 0.05 0.13
Matches are distributed among these distances:
72 1 0.00
74 2 0.01
75 3 0.01
76 37 0.14
77 10 0.04
78 5 0.02
79 1 0.00
80 65 0.24
82 3 0.01
84 2 0.01
85 3 0.01
86 40 0.15
87 22 0.08
90 75 0.28
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (86 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
TCAATCCATACTAATAAATTA
Found at i:1613413 original size:22 final size:22
Alignment explanation
Indices: 1613387--1613429 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
1613377 TAATAAATTA
*
1613387 TTTAAAATAATTCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
1613409 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
1613430 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:1613438 original size:22 final size:22
Alignment explanation
Indices: 1613389--1613437 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
1613379 ATAAATTATT
* **
1613389 TAAAATAATTCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
1613411 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
1613434 TAAA
1 TAAA
1613438 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:1613503 original size:80 final size:83
Alignment explanation
Indices: 1613265--1613661 Score: 414
Period size: 80 Copynumber: 4.7 Consensus size: 83
1613255 CAATCCATAT
1613265 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA-TT-AAATAAATCAATCCATATTTTAAAATAAA
1613330 TCAATCCATACAAATAAATAAATTA
63 TCAATCCATAC---T-AATAAATTA
*
1613355 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAATTCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA-TT-AAATAAATCAATCCATATTTTAAAATAAA
1613420 TCAATCCATACTAATAAATTA
63 TCAATCCATACTAATAAATTA
*
1613441 TTTAAAATAAATCAATCCATAC-AACTACA-A-T-AATAAATCAATCCATATTTTAAAATAAATC
1 TTTAAAATAAATCAATCCATACTAA-TAAATATTAAATAAATCAATCCATATTTTAAAATAAATC
1613502 AATCCATACTAATAAATTA
65 AATCCATACTAATAAATTA
** * * *
1613521 TTTAAAATAAATCAATCCATA-TTTTAAA-A-TAAATCAATCCATACTAATAAATTATTTAAAAT
1 TTTAAAATAAATCAATCCATACTAATAAATATTAAATAAATCAAT-C-CAT--A-T-TTTAAAAT
1613583 AAATCAAT-C---C--AT--A-T-
60 AAATCAATCCATACTAATAAATTA
*
1613597 TTTAAAATAAATCAATCCATACTAATAAATTATTTTAAAATAAATCAATCCATATTTTATAATAA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA--TT-AAATAAATCAATCCATATTTTAAAATAA
1613662 TTTATTTTAA
Statistics
Matches: 276, Mismatches: 15, Indels: 45
0.82 0.04 0.13
Matches are distributed among these distances:
76 21 0.08
77 15 0.05
78 2 0.01
79 7 0.03
80 80 0.29
81 3 0.01
82 6 0.02
83 10 0.04
84 2 0.01
85 4 0.01
86 50 0.18
87 1 0.00
90 75 0.27
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (83 bp):
TTTAAAATAAATCAATCCATACTAATAAATATTAAATAAATCAATCCATATTTTAAAATAAATCA
ATCCATACTAATAAATTA
Found at i:1613518 original size:22 final size:23
Alignment explanation
Indices: 1613443--1613517 Score: 82
Period size: 22 Copynumber: 3.2 Consensus size: 23
1613433 ATAAATTATT
1613443 TAAAATAAATCAATCCATAC-AA
1 TAAAATAAATCAATCCATACTAA
**
1613465 CTACAATAATAAATCAATCCATA-TTT
1 -T--AA-AATAAATCAATCCATACTAA
1613491 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
1613514 TAAA
1 TAAA
1613518 TTATTTAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
22 16 0.37
23 8 0.19
25 3 0.07
26 16 0.37
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (23 bp):
TAAAATAAATCAATCCATACTAA
Found at i:1613608 original size:224 final size:216
Alignment explanation
Indices: 1613160--1613595 Score: 761
Period size: 224 Copynumber: 2.0 Consensus size: 216
1613150 ACAACTACAA
*
1613160 TAATAAA-TATTTAAAATAAATCATCCATATTTTAAAATAATCAATTCATACTAATAATATTAAA
1 TAATAAATTATTTAAAATAAATCATCCATATTTTAAAATAATCAATCCATACTAATAATATTAAA
1613224 ATAAATCAATCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTA
66 ATAAATCAATCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTA
1613289 ATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATAAATT
131 ATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC--ATAAATAAATT
1613354 ATTTAAAATAAATCAATCCATAC
194 ATTTAAAATAAATCAATCCATAC
*
1613377 TAATAAATTATTTAAAATAATTCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATC-ATCCATATTTTAAAAT-AATCAATCCATACTAAT-AA-TA-
1613442 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
61 TTAAAATAAATCAAT-CATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
1613507 ATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC-T-AATA
125 ATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACATAAATA
1613570 AATTATTTAAAATAAATCAATCCATA
190 AATTATTTAAAATAAATCAATCCATA
1613596 TTTTAAAATA
Statistics
Matches: 210, Mismatches: 2, Indels: 11
0.94 0.01 0.05
Matches are distributed among these distances:
217 7 0.03
218 14 0.07
219 16 0.08
220 46 0.22
221 3 0.01
222 2 0.01
223 15 0.07
224 107 0.51
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.34
Consensus pattern (216 bp):
TAATAAATTATTTAAAATAAATCATCCATATTTTAAAATAATCAATCCATACTAATAATATTAAA
ATAAATCAATCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTA
ATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACATAAATAAATTAT
TTAAAATAAATCAATCCATAC
Found at i:1613636 original size:33 final size:34
Alignment explanation
Indices: 1613594--1613677 Score: 116
Period size: 33 Copynumber: 2.4 Consensus size: 34
1613584 AATCAATCCA
*
1613594 TATTTTAAAATAAATCAATCCATA-CTAATAAAT
1 TATTTTAAAATAAATCAATCCATATATAATAAAT
*
1613627 TATTTTAAAATAAATCAATCCATATTTTATAATAATT
1 TATTTTAAAATAAATCAATCCATA---TATAATAAAT
1613664 TATTTTAAAATAAA
1 TATTTTAAAATAAA
1613678 CTATTTTAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
33 24 0.53
37 21 0.47
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (34 bp):
TATTTTAAAATAAATCAATCCATATATAATAAAT
Found at i:1613640 original size:15 final size:15
Alignment explanation
Indices: 1613620--1613693 Score: 58
Period size: 15 Copynumber: 4.5 Consensus size: 15
1613610 AATCCATACT
1613620 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
1613635 AATAAATCAATCCATATTTTAT
1 AATAAAT---T--AT--TTTAA
*
1613657 AATAATTTATTTTAA
1 AATAAATTATTTTAA
*
1613672 AATAAACTATTTTAA
1 AATAAATTATTTTAA
1613687 AATAAAT
1 AATAAAT
1613694 AACCTTATTA
Statistics
Matches: 46, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
15 30 0.65
17 2 0.04
18 1 0.02
19 1 0.02
20 2 0.04
22 10 0.22
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:1613669 original size:37 final size:33
Alignment explanation
Indices: 1613486--1613677 Score: 144
Period size: 22 Copynumber: 6.4 Consensus size: 33
1613476 AATCAATCCA
*
1613486 TATTTTAAAATAAATCAATCCATACTAATAAAT
1 TATTTTAAAATAAATCAATCCATAATAATAAAT
1613519 TA-TTTAAAATAAATCAATCC----------A-
1 TATTTTAAAATAAATCAATCCATAATAATAAAT
*
1613540 TATTTTAAAATAAATCAATCCATACTAATAAAT
1 TATTTTAAAATAAATCAATCCATAATAATAAAT
1613573 TA-TTTAAAATAAATCAATCC----------A-
1 TATTTTAAAATAAATCAATCCATAATAATAAAT
*
1613594 TATTTTAAAATAAATCAATCCATACTAATAAAT
1 TATTTTAAAATAAATCAATCCATAATAATAAAT
*
1613627 TATTTTAAAATAAATCAATCCATATTTTATAATAATT
1 TATTTTAAAATAAATCAATCCATA----ATAATAAAT
1613664 TATTTTAAAATAAA
1 TATTTTAAAATAAA
1613678 CTATTTTAAA
Statistics
Matches: 129, Mismatches: 2, Indels: 52
0.70 0.01 0.28
Matches are distributed among these distances:
21 4 0.03
22 38 0.29
32 38 0.29
33 28 0.22
37 21 0.16
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (33 bp):
TATTTTAAAATAAATCAATCCATAATAATAAAT
Found at i:1613706 original size:134 final size:134
Alignment explanation
Indices: 1613159--1613716 Score: 512
Period size: 134 Copynumber: 4.1 Consensus size: 134
1613149 TACAACTACA
*
1613159 ATAATAAA-TATTTAAAATAAATC-ATCCATATTTTAAAAT-AATCAATTCATACTAAT-AATA-
1 ATAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATAT
* * * **
1613219 TTAAAATAAATCAAT-CATA-CA-ACTACA-AT-AATAAATCAATCCATATTTTAAAATAAATCA
66 TTAAAATAAATCAATCCATATTATAATA-ATTTAAATAAAT-AAAACATATTTTAAAATAAATCA
1613279 ATCCAT
129 ATCCAT
1613285 ACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATA
1 A-TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC---T-AATA
* * * **
1613350 AATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAATTCAATCCATATTTTAAA
61 AA-TATTTAAAATAAATCAATCCATA-TTAT-AATAATTT-AAATAAAT-AAAACATATTTTAAA
1613415 ATAAATCAATCCAT
121 ATAAATCAATCCAT
*** * * * *
1613429 ACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT-AATAAATCAAT-C-CAT--AT
1 A-TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAATCAATCCATACTAATAAAT
* * **
1613489 -TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAA
64 ATTTAAAATAAATCAATCCATA-TTAT-AATAATTT-AAATAAAT-AAAACATATTTTAAAATAA
1613553 ATCAATCCAT
125 ATCAATCCAT
1613563 ACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATT
1 A-TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAA-T
**
1613628 ATTTTAAAATAAATCAATCCATATTTTATAATAATTTATTTTAAA-ATAAAC-TATTTTAAAATA
64 A-TTTAAAATAAATCAATCCATA--TTATAATAATTTA-AATAAATA-AAACATATTTTAAAATA
1613691 AAT-AA-CC-T
124 AATCAATCCAT
*
1613699 -TATTAAATTATTTAAAAT
1 ATAATAAATTATTTAAAAT
1613717 TATTTTAATA
Statistics
Matches: 372, Mismatches: 29, Indels: 54
0.82 0.06 0.12
Matches are distributed among these distances:
126 1 0.00
127 7 0.02
128 15 0.04
129 16 0.04
130 12 0.03
133 6 0.02
134 135 0.36
135 4 0.01
136 6 0.02
137 17 0.05
138 9 0.02
139 17 0.05
140 4 0.01
141 33 0.09
142 6 0.02
143 1 0.00
144 78 0.21
145 5 0.01
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.35
Consensus pattern (134 bp):
ATAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATAT
TTAAAATAAATCAATCCATATTATAATAATTTAAATAAATAAAACATATTTTAAAATAAATCAAT
CCAT
Found at i:1614571 original size:156 final size:158
Alignment explanation
Indices: 1614276--1614590 Score: 616
Period size: 156 Copynumber: 2.0 Consensus size: 158
1614266 CAGATCAGGG
1614276 ACTATGTTGAAAAGATTTGAAAATTTAAGATTTAATTGAATAAGTGGTAAAAGATGAGAAAAATG
1 ACTATGTTGAAAAGATTTGAAAATTTAAGATTTAATTGAATAAGTGGTAAAAGATGAGAAAAATG
1614341 ATTTGGAATAGTGTTTACACTAATTTGTAGCAATAAACAAGTTAAGAGGGCACTTTGGTCTTTTA
66 ATTTGGAATAGTGTTTACACTAATTTGTAGCAATAAACAAGTTAAGAGGGCACTTTGGTCTTTTA
1614406 AGAGAGATAATTAATTTAAAAATAGATT
131 AGAGAGATAATTAATTTAAAAATAGATT
1614434 ACTATGTTG-AAAGATTTGAAAATTTAAGATTTAATTGAATAAGTGGTAAAAGATGAGAAAAATG
1 ACTATGTTGAAAAGATTTGAAAATTTAAGATTTAATTGAATAAGTGGTAAAAGATGAGAAAAATG
1614498 ATTT-GAATAGTGTTTACACTAATTTGTAGCAATAAACAAGTTAAGAGGGCACTTTGGTCTTTTA
66 ATTTGGAATAGTGTTTACACTAATTTGTAGCAATAAACAAGTTAAGAGGGCACTTTGGTCTTTTA
1614562 AGAGAGATAATTAATTTAAAAATAGATT
131 AGAGAGATAATTAATTTAAAAATAGATT
1614590 A
1 A
1614591 GAAATTTTAA
Statistics
Matches: 157, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
156 89 0.57
157 59 0.38
158 9 0.06
ACGTcount: A:0.43, C:0.05, G:0.19, T:0.34
Consensus pattern (158 bp):
ACTATGTTGAAAAGATTTGAAAATTTAAGATTTAATTGAATAAGTGGTAAAAGATGAGAAAAATG
ATTTGGAATAGTGTTTACACTAATTTGTAGCAATAAACAAGTTAAGAGGGCACTTTGGTCTTTTA
AGAGAGATAATTAATTTAAAAATAGATT
Found at i:1615232 original size:20 final size:20
Alignment explanation
Indices: 1615207--1615244 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1615197 TGATTCAATC
*
1615207 AGTATTGATACTGAAGGGGG
1 AGTATTGATACCGAAGGGGG
1615227 AGTATTGATACCGAAGGG
1 AGTATTGATACCGAAGGG
1615245 AAGGTATCGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.08, G:0.37, T:0.24
Consensus pattern (20 bp):
AGTATTGATACCGAAGGGGG
Found at i:1615333 original size:22 final size:20
Alignment explanation
Indices: 1615288--1615352 Score: 78
Period size: 22 Copynumber: 3.2 Consensus size: 20
1615278 AATGGTATTA
*
1615288 ATACCATAATAGG-GTATCG
1 ATACCATAGTAGGAGTATCG
*
1615307 GTACCATAGTATGGTAGTATCG
1 ATACCATAGTA-GG-AGTATCG
*
1615329 ATACCATAGTAGGGGTATCG
1 ATACCATAGTAGGAGTATCG
1615349 ATAC
1 ATAC
1615353 TGAGGAGCCA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
19 9 0.23
20 12 0.31
21 2 0.05
22 16 0.41
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (20 bp):
ATACCATAGTAGGAGTATCG
Found at i:1620975 original size:12 final size:12
Alignment explanation
Indices: 1620958--1620984 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
1620948 CATCTTGATG
1620958 ACATGAGCTCCT
1 ACATGAGCTCCT
1620970 ACATGAGCTCCT
1 ACATGAGCTCCT
1620982 ACA
1 ACA
1620985 AGAGTTCCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.33, G:0.15, T:0.22
Consensus pattern (12 bp):
ACATGAGCTCCT
Found at i:1625200 original size:18 final size:17
Alignment explanation
Indices: 1625169--1625202 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
1625159 TTCTTGTGTT
1625169 TTAAGGATTATAAAGAG
1 TTAAGGATTATAAAGAG
*
1625186 TTAAGTGATTTTAAAGA
1 TTAAG-GATTATAAAGA
1625203 ATTGGTTGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.44, C:0.00, G:0.21, T:0.35
Consensus pattern (17 bp):
TTAAGGATTATAAAGAG
Found at i:1626148 original size:59 final size:59
Alignment explanation
Indices: 1626051--1626179 Score: 177
Period size: 59 Copynumber: 2.2 Consensus size: 59
1626041 CAGCAGGCTG
** *
1626051 CATATTCGGGAATACACTAAAGGATACCTAGTGTATATGGTGGGCACGACCTTATGTGT
1 CATATTCGGGAATACACTAAAGGATACCTAGTACATATGGTGGACACGACCTTATGTGT
* * ** *
1626110 TATATTCGGGACTGTACTTAAGGATACCTAGTACATATGGTGGACACGACCTTATGTGT
1 CATATTCGGGAATACACTAAAGGATACCTAGTACATATGGTGGACACGACCTTATGTGT
*
1626169 CATACTCGGGA
1 CATATTCGGGA
1626180 TTGCACTACG
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (59 bp):
CATATTCGGGAATACACTAAAGGATACCTAGTACATATGGTGGACACGACCTTATGTGT
Found at i:1626309 original size:44 final size:44
Alignment explanation
Indices: 1626280--1626409 Score: 226
Period size: 44 Copynumber: 2.9 Consensus size: 44
1626270 ATGGAAAATG
1626280 TATTGGTAAAATAAGCTTAC-AGGCTTATGGATAAATGGTAAGTA
1 TATTGGTAAAATAAGCTTACGA-GCTTATGGATAAATGGTAAGTA
1626324 TATTGGTAAAATAAGCTTACGAGCTTATGGATAAATGGTAAGTA
1 TATTGGTAAAATAAGCTTACGAGCTTATGGATAAATGGTAAGTA
*
1626368 TATTGGTAAAATAAGCTTACGAGCTTTTGGGATAAATGGTAA
1 TATTGGTAAAATAAGCTTACGAGCTTAT-GGATAAATGGTAA
1626410 AAGATTTTAT
Statistics
Matches: 83, Mismatches: 1, Indels: 3
0.95 0.01 0.03
Matches are distributed among these distances:
44 69 0.83
45 14 0.17
ACGTcount: A:0.38, C:0.07, G:0.23, T:0.32
Consensus pattern (44 bp):
TATTGGTAAAATAAGCTTACGAGCTTATGGATAAATGGTAAGTA
Found at i:1627410 original size:45 final size:45
Alignment explanation
Indices: 1627361--1627509 Score: 176
Period size: 45 Copynumber: 3.3 Consensus size: 45
1627351 CATACTCTAA
* *
1627361 CATATGGGTGCATTATCATCATGAAAGGATGCCAAAAGAATAATG
1 CATATGGGTGCATTATCAGCATGAAATGATGCCAAAAGAATAATG
* *
1627406 CATATGGGTGCATTATCAGCATAAAATGATGCCAGAAGAATAATG
1 CATATGGGTGCATTATCAGCATGAAATGATGCCAAAAGAATAATG
* * ** * *
1627451 AATATGGATGCATTATTGGCATGAAATGATGCC-ATAG-CTGAAATG
1 CATATGGGTGCATTATCAGCATGAAATGATGCCAAAAGAAT--AATG
1627496 CATATGGGTGCATT
1 CATATGGGTGCATT
1627510 TTCAACATAA
Statistics
Matches: 88, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
43 1 0.01
44 2 0.02
45 85 0.97
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (45 bp):
CATATGGGTGCATTATCAGCATGAAATGATGCCAAAAGAATAATG
Found at i:1634496 original size:45 final size:45
Alignment explanation
Indices: 1634447--1634551 Score: 156
Period size: 45 Copynumber: 2.3 Consensus size: 45
1634437 AGAATCAACA
* * * *
1634447 TCCCAAGTATCTTAGGCGAGGTCTGGGTCACACATCATCGGCCCC
1 TCCCAAATACCTTAGGCGAGGTATGGGTCACACATCATCGGCACC
* *
1634492 TCCCAAATACCTTAGGCTAGGTATGGGTCACACATCATTGGCACC
1 TCCCAAATACCTTAGGCGAGGTATGGGTCACACATCATCGGCACC
1634537 TCCCAAATACCTTAG
1 TCCCAAATACCTTAG
1634552 TCTACTCCTC
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 54 1.00
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.24
Consensus pattern (45 bp):
TCCCAAATACCTTAGGCGAGGTATGGGTCACACATCATCGGCACC
Found at i:1637401 original size:18 final size:18
Alignment explanation
Indices: 1637378--1637415 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
1637368 TTTTAAGATT
1637378 TTATATTCGAATT-AATTA
1 TTATATTCG-ATTAAATTA
*
1637396 TTATATTTGATTAAATTA
1 TTATATTCGATTAAATTA
1637414 TT
1 TT
1637416 CGAATATTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.55
Consensus pattern (18 bp):
TTATATTCGATTAAATTA
Found at i:1638268 original size:16 final size:16
Alignment explanation
Indices: 1638247--1638283 Score: 67
Period size: 15 Copynumber: 2.4 Consensus size: 16
1638237 TTAGTGAATT
1638247 TGTGGAAAATCCTTAG
1 TGTGGAAAATCCTTAG
1638263 TGTGG-AAATCCTTAG
1 TGTGGAAAATCCTTAG
1638278 TGTGGA
1 TGTGGA
1638284 TAGCTAAGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 15 0.75
16 5 0.25
ACGTcount: A:0.27, C:0.11, G:0.30, T:0.32
Consensus pattern (16 bp):
TGTGGAAAATCCTTAG
Found at i:1641399 original size:20 final size:18
Alignment explanation
Indices: 1641370--1641409 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
1641360 AACAAAATGT
1641370 TAATTAATTTTAATATTTTA
1 TAATTAA-TTTAA-ATTTTA
*
1641390 TAATTGATTTAAATTTTA
1 TAATTAATTTAAATTTTA
1641408 TA
1 TA
1641410 TTCGATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 5 0.26
20 6 0.32
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (18 bp):
TAATTAATTTAAATTTTA
Found at i:1641420 original size:17 final size:18
Alignment explanation
Indices: 1641378--1641421 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 18
1641368 GTTAATTAAT
1641378 TTTAATATTTTATAATTGA
1 TTTAA-ATTTTATAATTGA
1641397 TTTAAATTTTAT-ATTCGA
1 TTTAAATTTTATAATT-GA
1641415 -TTAAATT
1 TTTAAATT
1641422 ATTCAAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 10 0.42
18 9 0.38
19 5 0.21
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (18 bp):
TTTAAATTTTATAATTGA
Found at i:1641784 original size:24 final size:23
Alignment explanation
Indices: 1641752--1641828 Score: 72
Period size: 24 Copynumber: 3.4 Consensus size: 23
1641742 ACCGTGTTAG
1641752 GTATCGATACTACTTTACATAGTA
1 GTATCGATACTAC-TTACATAGTA
*
1641776 GTATCGATACT-C--AC-TAGAA
1 GTATCGATACTACTTACATAGTA
*
1641795 GGTATTGATACTACTTCACATAGTA
1 -GTATCGATACTACTT-ACATAGTA
*
1641820 ATATCGATA
1 GTATCGATA
1641829 ATCTCTTGAC
Statistics
Matches: 42, Mismatches: 5, Indels: 12
0.71 0.08 0.20
Matches are distributed among these distances:
19 4 0.10
20 12 0.29
21 1 0.02
23 1 0.02
24 20 0.48
25 4 0.10
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (23 bp):
GTATCGATACTACTTACATAGTA
Found at i:1646691 original size:91 final size:94
Alignment explanation
Indices: 1646533--1646718 Score: 342
Period size: 91 Copynumber: 2.0 Consensus size: 94
1646523 TTCCTCATCT
*
1646533 GGATTGCGAAGTCGATGGAAACACACCCCTTCTTATCTACTGGAAGAATCCTAATAAATTGTGAA
1 GGATTGCGAAGTCGATGGAAACACACCCCTTCTTAGCTACTGGAAGAATCCTAATAAATTGTGAA
1646598 AATGGAGAGTTCACAATGAGAGTAGGAGA
66 AATGGAGAGTTCACAATGAGAGTAGGAGA
1646627 GGATTGCGAAGTCGATGG-AA-A-ACCCCTTCTTAGCTACTGGAAGAATCCTAATAAATTGTGAA
1 GGATTGCGAAGTCGATGGAAACACACCCCTTCTTAGCTACTGGAAGAATCCTAATAAATTGTGAA
1646689 AATGGAGAGTTCACAATGAGAGTAGGAGA
66 AATGGAGAGTTCACAATGAGAGTAGGAGA
1646718 G
1 G
1646719 CAAAGTACTT
Statistics
Matches: 91, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
91 70 0.77
92 1 0.01
93 2 0.02
94 18 0.20
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.23
Consensus pattern (94 bp):
GGATTGCGAAGTCGATGGAAACACACCCCTTCTTAGCTACTGGAAGAATCCTAATAAATTGTGAA
AATGGAGAGTTCACAATGAGAGTAGGAGA
Found at i:1647178 original size:14 final size:15
Alignment explanation
Indices: 1647152--1647180 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1647142 AGATATTTCT
1647152 GCACAAGGACAGCTG
1 GCACAAGGACAGCTG
1647167 GCACAA-GACAGCTG
1 GCACAAGGACAGCTG
1647181 TCTCTGTACG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.34, C:0.28, G:0.31, T:0.07
Consensus pattern (15 bp):
GCACAAGGACAGCTG
Found at i:1673863 original size:19 final size:20
Alignment explanation
Indices: 1673839--1673878 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
1673829 TACTTTCACA
1673839 TTTCAGATTCATAACT-ATT
1 TTTCAGATTCATAACTCATT
1673858 TTTCAGATTCATAACTCATT
1 TTTCAGATTCATAACTCATT
1673878 T
1 T
1673879 CCATATTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.30, C:0.17, G:0.05, T:0.47
Consensus pattern (20 bp):
TTTCAGATTCATAACTCATT
Found at i:1673886 original size:19 final size:19
Alignment explanation
Indices: 1673842--1673889 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
1673832 TTTCACATTT
*
1673842 CAGATTCATAACTATTTTT
1 CAGATTCATAACTATTTTC
1673861 CAGATTCATAACTCA-TTTC
1 CAGATTCATAACT-ATTTTC
*
1673880 CATATTCATA
1 CAGATTCATA
1673890 TACCAAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 25 0.96
20 1 0.04
ACGTcount: A:0.33, C:0.21, G:0.04, T:0.42
Consensus pattern (19 bp):
CAGATTCATAACTATTTTC
Found at i:1682880 original size:21 final size:21
Alignment explanation
Indices: 1682854--1682930 Score: 136
Period size: 21 Copynumber: 3.7 Consensus size: 21
1682844 TTAGGGTGTG
*
1682854 AGTATCGATACTAGGTGGAAT
1 AGTATCGATACTAGGAGGAAT
*
1682875 AATATCGATACTAGGAGGAAT
1 AGTATCGATACTAGGAGGAAT
1682896 AGTATCGATACTAGGAGGAAT
1 AGTATCGATACTAGGAGGAAT
1682917 AGTATCGATACTAG
1 AGTATCGATACTAG
1682931 ATGAATTAGG
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 53 1.00
ACGTcount: A:0.38, C:0.10, G:0.26, T:0.26
Consensus pattern (21 bp):
AGTATCGATACTAGGAGGAAT
Found at i:1683031 original size:41 final size:41
Alignment explanation
Indices: 1682986--1683200 Score: 367
Period size: 41 Copynumber: 5.2 Consensus size: 41
1682976 TTCTAGGGAG
* * *
1682986 AGTATCGATAATGCCTCTACAGTATCGATATTCAGGGTGAT
1 AGTATCGATACTGCCCCTACAGTATCGATACTCAGGGTGAT
1683027 AGTATCGATACTGCCCCTACAGTATCGATACTCAGGGTGAT
1 AGTATCGATACTGCCCCTACAGTATCGATACTCAGGGTGAT
*
1683068 AGTATCGATACTTCCCCTACAGTATCGATACTCAGGGTGAT
1 AGTATCGATACTGCCCCTACAGTATCGATACTCAGGGTGAT
*
1683109 AGTATCGATACTGCCCCTACAGTATCGATACTTAGGGTGAT
1 AGTATCGATACTGCCCCTACAGTATCGATACTCAGGGTGAT
1683150 AGTATCGATACTGCCCCTACAGTATCGATACTCAGGGTGAT
1 AGTATCGATACTGCCCCTACAGTATCGATACTCAGGGTGAT
* *
1683191 AATATTGATA
1 AGTATCGATA
1683201 TTGGGCCTAT
Statistics
Matches: 165, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 165 1.00
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.29
Consensus pattern (41 bp):
AGTATCGATACTGCCCCTACAGTATCGATACTCAGGGTGAT
Found at i:1683032 original size:21 final size:21
Alignment explanation
Indices: 1683006--1683118 Score: 81
Period size: 21 Copynumber: 5.5 Consensus size: 21
1682996 ATGCCTCTAC
1683006 AGTATCGATATTCAGGGTGAT
1 AGTATCGATATTCAGGGTGAT
* *** *
1683027 AGTATCGATACTGC-CCCT-AC
1 AGTATCGATA-TTCAGGGTGAT
*
1683047 AGTATCGATACTCAGGGTGAT
1 AGTATCGATATTCAGGGTGAT
*** *
1683068 AGTATCGATACTTC-CCCT-AC
1 AGTATCGATA-TTCAGGGTGAT
*
1683088 AGTATCGATACTCAGGGTGAT
1 AGTATCGATATTCAGGGTGAT
1683109 AGTATCGATA
1 AGTATCGATA
1683119 CTGCCCCTAC
Statistics
Matches: 65, Mismatches: 21, Indels: 12
0.66 0.21 0.12
Matches are distributed among these distances:
19 3 0.05
20 24 0.37
21 34 0.52
22 4 0.06
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.29
Consensus pattern (21 bp):
AGTATCGATATTCAGGGTGAT
Found at i:1683052 original size:20 final size:20
Alignment explanation
Indices: 1683027--1683181 Score: 116
Period size: 20 Copynumber: 7.6 Consensus size: 20
1683017 TCAGGGTGAT
1683027 AGTATCGATACTGCCCCTAC
1 AGTATCGATACTGCCCCTAC
*** *
1683047 AGTATCGATACT-CAGGGTGAT
1 AGTATCGATACTGC-CCCT-AC
*
1683068 AGTATCGATACTTCCCCTAC
1 AGTATCGATACTGCCCCTAC
*** *
1683088 AGTATCGATACT-CAGGGTGAT
1 AGTATCGATACTGC-CCCT-AC
1683109 AGTATCGATACTGCCCCTAC
1 AGTATCGATACTGCCCCTAC
***** *
1683129 AGTATCGATACTTAGGGTGAT
1 AGTATCGATACTGCCCCT-AC
1683150 AGTATCGATACTGCCCCTAC
1 AGTATCGATACTGCCCCTAC
1683170 AGTATCGATACT
1 AGTATCGATACT
1683182 CAGGGTGATA
Statistics
Matches: 100, Mismatches: 28, Indels: 14
0.70 0.20 0.10
Matches are distributed among these distances:
19 2 0.02
20 54 0.54
21 42 0.42
22 2 0.02
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (20 bp):
AGTATCGATACTGCCCCTAC
Found at i:1686161 original size:79 final size:79
Alignment explanation
Indices: 1686007--1686161 Score: 184
Period size: 79 Copynumber: 2.0 Consensus size: 79
1685997 TTACGCACTG
* * * *
1686007 CGAGGTTCATTATGACACATTGGATATTATTCCAATTAAAAGCCACGTCTTTTCAACATACCTCA
1 CGAGGTCCATTATGACACATTGGATATTATTCCAATTAAAAGCCACATCATTTCAACAGACCTCA
** *
1686072 TGTCATGTGTAACA
66 CATCACGTGTAACA
* * * * **
1686086 CGAGGTCCATTCTGACACGTTGGATATTATTCCAATTAAAAGTCTCATCATTTCAATGGACCTCA
1 CGAGGTCCATTATGACACATTGGATATTATTCCAATTAAAAGCCACATCATTTCAACAGACCTCA
*
1686151 CATCCCGTGTA
66 CATCACGTGTA
1686162 GCGTGAAGTC
Statistics
Matches: 62, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
79 62 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (79 bp):
CGAGGTCCATTATGACACATTGGATATTATTCCAATTAAAAGCCACATCATTTCAACAGACCTCA
CATCACGTGTAACA
Found at i:1692092 original size:313 final size:314
Alignment explanation
Indices: 1691460--1692093 Score: 959
Period size: 316 Copynumber: 2.0 Consensus size: 314
1691450 GGACTACATG
* * * * *
1691460 CTCCTAAACCTTCGTAGAATACATATGTACTTTCAATTCCTCTTTTTGATAATAAGTTTTCTATT
1 CTCCTAAACCATCGTAGAATACATATGTACTTTCAATTCATATTTTTGATAATAAATTTTCTAAT
* * *
1691525 TTTCAATTTAGTCTTCAATTTTTCATAATTACCTTATTTCTTCAATTCATCCTTTATTTTAAGTC
66 TTTCAATTTAGTCCTCAATTTTTAATAATTACCTTATTTCTTCAATTCATCCTATATTTTAAGTC
* *** *
1691590 CGTCTTTTACCAAATTTGAACCACATGCTCATATACCATAATAGAATTTTTATATAATTTCAATT
131 CGTCTTTTACCAAATTTGAACCACATGCTCATATACCACAATAGAATGCCTATATAACTTCAATT
* *
1691655 CTTACTTTTTTACTAAAAATGTACTCTCTTTTTTATTTAGTCTCTTAATTTTGCATTTCACTTAA
196 CTTACTTTTTTACTAAAAATGTAC-CTCTTTTTTATTTAGTCTCTTAACTTTGCATTTCACTCAA
*
1691720 TTTGGTCTTTTGACTACAATTGTTTACAAATTCTTTCTTCCTATCAATTCATTGA
260 TTTGGTCTTTTGACTACAATTGTTTACAAATTCTTTCTTCCCATCAATTCATTGA
* *
1691775 CTCCTAAATCATCGTAGAATACATATGTACTTTTAATTCATATTTTTGATAATAAATTTTCTAAT
1 CTCCTAAACCATCGTAGAATACATATGTACTTTCAATTCATATTTTTGATAATAAATTTTCTAAT
** *
1691840 TTTCAATTTAGTCCCTCAATTTTTAATAATTTTCTTATTTCTTCAATTTATCCTATATTTTAAGT
66 TTTCAATTTAGT-CCTCAATTTTTAATAATTACCTTATTTCTTCAATTCATCCTATATTTTAAGT
* * * * *
1691905 CTGT-TGTTTACCAAATTTGAAGCACATGCTCATATATCACAATATAATGCCTATGTAACTTCAA
130 CCGTCT-TTTACCAAATTTGAACCACATGCTCATATACCACAATAGAATGCCTATATAACTTCAA
*
1691969 TTCTTACTTTTTTACTAAAAAT-TA-CTCTTTTTTATTTAGTCTCTTAACTTTGCATTTTACTCA
194 TTCTTACTTTTTTACTAAAAATGTACCTCTTTTTTATTTAGTCTCTTAACTTTGCATTTCACTCA
* *
1692032 ATTTGGTCTTTTGACTACAATTGTTTGCAAATTCTTTCTTCCCATCAATTCCTTGA
259 ATTTGGTCTTTTGACTACAATTGTTTACAAATTCTTTCTTCCCATCAATTCATTGA
1692088 CTCCTA
1 CTCCTA
1692094 TATACTCTCA
Statistics
Matches: 288, Mismatches: 29, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
313 95 0.33
315 73 0.25
316 120 0.42
ACGTcount: A:0.28, C:0.18, G:0.06, T:0.48
Consensus pattern (314 bp):
CTCCTAAACCATCGTAGAATACATATGTACTTTCAATTCATATTTTTGATAATAAATTTTCTAAT
TTTCAATTTAGTCCTCAATTTTTAATAATTACCTTATTTCTTCAATTCATCCTATATTTTAAGTC
CGTCTTTTACCAAATTTGAACCACATGCTCATATACCACAATAGAATGCCTATATAACTTCAATT
CTTACTTTTTTACTAAAAATGTACCTCTTTTTTATTTAGTCTCTTAACTTTGCATTTCACTCAAT
TTGGTCTTTTGACTACAATTGTTTACAAATTCTTTCTTCCCATCAATTCATTGA
Found at i:1694040 original size:117 final size:117
Alignment explanation
Indices: 1693824--1694044 Score: 347
Period size: 117 Copynumber: 1.9 Consensus size: 117
1693814 GAACACTATT
* * *
1693824 CCCATCCAATCACTCCGATCACTAGAATGTGTAGGTTCTCCATAACCATACACCCACCTGCAAAC
1 CCCATCCAATCACTCCGATCACCAAAATGTGTAGGTTCTCCAGAACCATACACCCACCTGCAAAC
*
1693889 CAATAAGGACTTACCCTGAGCACAAAGCATAGGAGCTTGCGGTAATGACTGC
66 CAATAAGGACTTACCCTGAGCACAAAGCAAAGGAGCTTGCGGTAATGACTGC
*
1693941 CCCATCCAATCACTCCGATCACCAAAATGTGTAGGTTC-CACAGAACCATACACCCACCTGCACA
1 CCCATCCAATCACTCCGATCACCAAAATGTGTAGGTTCTC-CAGAACCATACACCCACCTGCAAA
* *
1694005 CTAGTAAGGACTTACCCTGAGCACACAA-CAAAGGAGCTTG
65 CCAATAAGGACTTACCCTGAGCACA-AAGCAAAGGAGCTTG
1694045 AAATACTTCC
Statistics
Matches: 95, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
116 1 0.01
117 92 0.97
118 2 0.02
ACGTcount: A:0.33, C:0.32, G:0.16, T:0.19
Consensus pattern (117 bp):
CCCATCCAATCACTCCGATCACCAAAATGTGTAGGTTCTCCAGAACCATACACCCACCTGCAAAC
CAATAAGGACTTACCCTGAGCACAAAGCAAAGGAGCTTGCGGTAATGACTGC
Found at i:1694884 original size:17 final size:17
Alignment explanation
Indices: 1694864--1694920 Score: 105
Period size: 17 Copynumber: 3.4 Consensus size: 17
1694854 CTAAAATATG
*
1694864 ACTTTTCAAAAAATTTA
1 ACTTTTCGAAAAATTTA
1694881 ACTTTTCGAAAAATTTA
1 ACTTTTCGAAAAATTTA
1694898 ACTTTTCGAAAAATTTA
1 ACTTTTCGAAAAATTTA
1694915 ACTTTT
1 ACTTTT
1694921 TGGTCAAAGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
17 39 1.00
ACGTcount: A:0.40, C:0.12, G:0.04, T:0.44
Consensus pattern (17 bp):
ACTTTTCGAAAAATTTA
Found at i:1694946 original size:20 final size:22
Alignment explanation
Indices: 1694921--1694961 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
1694911 TTTAACTTTT
1694921 TGGTCAA-AGTCAAC-AGTCAA
1 TGGTCAACAGTCAACGAGTCAA
*
1694941 TGGTCAACGGTCAACGAGTCA
1 TGGTCAACAGTCAACGAGTCA
1694962 GGTCATCGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 6 0.33
22 5 0.28
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (22 bp):
TGGTCAACAGTCAACGAGTCAA
Found at i:1695040 original size:23 final size:23
Alignment explanation
Indices: 1695004--1695051 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
1694994 GTCATGTCAC
*
1695004 CGGGTCGGGTCAGGTCAACGGGT
1 CGGGTCAGGTCAGGTCAACGGGT
*
1695027 CGGGTCAGGTCAGGTTAACGGGT
1 CGGGTCAGGTCAGGTCAACGGGT
1695050 CG
1 CG
1695052 AACTGGTTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.15, C:0.21, G:0.46, T:0.19
Consensus pattern (23 bp):
CGGGTCAGGTCAGGTCAACGGGT
Found at i:1695050 original size:18 final size:18
Alignment explanation
Indices: 1694958--1695038 Score: 117
Period size: 18 Copynumber: 4.5 Consensus size: 18
1694948 CGGTCAACGA
* *
1694958 GTCAGGTCATCGGGTCAG
1 GTCAGGTCACCGGGTCGG
*
1694976 GTCAGGTCACCGGGTTGG
1 GTCAGGTCACCGGGTCGG
*
1694994 GTCATGTCACCGGGTCGG
1 GTCAGGTCACCGGGTCGG
*
1695012 GTCAGGTCAACGGGTCGG
1 GTCAGGTCACCGGGTCGG
1695030 GTCAGGTCA
1 GTCAGGTCA
1695039 GGTTAACGGG
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 56 1.00
ACGTcount: A:0.15, C:0.23, G:0.41, T:0.21
Consensus pattern (18 bp):
GTCAGGTCACCGGGTCGG
Found at i:1696475 original size:23 final size:23
Alignment explanation
Indices: 1696422--1696483 Score: 56
Period size: 23 Copynumber: 2.8 Consensus size: 23
1696412 AACCGTAAGC
*
1696422 TACCA-AAAGACATAGAAAAACG
1 TACCACAAAGACAGAGAAAAACG
* * * *
1696444 TGCCTCAAATACAGAGATAAACG
1 TACCACAAAGACAGAGAAAAACG
*
1696467 TACCACAAAAACA-AGAA
1 TACCACAAAGACAGAGAA
1696484 TATGTCACAA
Statistics
Matches: 30, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
22 6 0.20
23 24 0.80
ACGTcount: A:0.55, C:0.21, G:0.13, T:0.11
Consensus pattern (23 bp):
TACCACAAAGACAGAGAAAAACG
Found at i:1697532 original size:21 final size:21
Alignment explanation
Indices: 1697496--1697552 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
1697486 AGCGATGGAA
1697496 CAGTGGAAGGAG-CAATTAGAG
1 CAGTGGAA-GAGTCAATTAGAG
* * *
1697517 CAGTTGAAGATTCAATTGGAG
1 CAGTGGAAGAGTCAATTAGAG
*
1697538 CCGTGGAAGAGTCAA
1 CAGTGGAAGAGTCAA
1697553 GCTAAGGATC
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
20 2 0.07
21 27 0.93
ACGTcount: A:0.35, C:0.12, G:0.33, T:0.19
Consensus pattern (21 bp):
CAGTGGAAGAGTCAATTAGAG
Found at i:1702990 original size:94 final size:95
Alignment explanation
Indices: 1702842--1703014 Score: 242
Period size: 94 Copynumber: 1.8 Consensus size: 95
1702832 ATGAGGAAGG
* * *
1702842 TATCGATACCATTGATTACAGAATGCATAAATGATATCGATACCGTAATAGAGTATC-AGTACCA
1 TATCGATACCATGGATTACAGAATGCAGAAATGATATCGATACCGAAATAGAGTATCGA-TACCA
* *
1702906 TACTATAGAAGTATCAGTACTAAGAGACAGA
65 CAATATAGAAGTATCAGTACTAAGAGACAGA
* * * *
1702937 TATCGATACCATGGATT-CATAATGTAGAAATGGTATCGATACTGAAATAGAGTATCGATACCAC
1 TATCGATACCATGGATTACAGAATGCAGAAATGATATCGATACCGAAATAGAGTATCGATACCAC
1703001 AATATAGAAGTATC
66 AATATAGAAGTATC
1703015 GATACCATTG
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
94 51 0.75
95 17 0.25
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.27
Consensus pattern (95 bp):
TATCGATACCATGGATTACAGAATGCAGAAATGATATCGATACCGAAATAGAGTATCGATACCAC
AATATAGAAGTATCAGTACTAAGAGACAGA
Found at i:1703004 original size:19 final size:21
Alignment explanation
Indices: 1702969--1703021 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 21
1702959 TGTAGAAATG
**
1702969 GTATCGATACTGAA-ATAG-A
1 GTATCGATACCAAATATAGAA
1702988 GTATCGATACCACAATATAGAA
1 GTATCGATACCA-AATATAGAA
1703010 GTATCGATACCA
1 GTATCGATACCA
1703022 TTGTAGGGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 10 0.34
20 2 0.07
21 4 0.14
22 13 0.45
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.25
Consensus pattern (21 bp):
GTATCGATACCAAATATAGAA
Found at i:1703445 original size:55 final size:55
Alignment explanation
Indices: 1703357--1703783 Score: 623
Period size: 55 Copynumber: 7.9 Consensus size: 55
1703347 ATTACAGAAT
* * *
1703357 GGCACTATGCGTGCAAAACTAATAAATTCATAATAAGTTTATGAATTTCCGTATG
1 GGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
*
1703412 GGCACTGTGTGTGCAAAACTAAGAAATTTATAATAAGTTTATGAATTT-CGTATG
1 GGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
* * *
1703466 GGTACTGTGTGTGTAAAACTAAGAAATTCATAATAATTTTATGAATTTCCGTATG
1 GGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
* * * * *
1703521 GGCACT-T-T-TCCAAAATTAAGAAAGTCGTAATAAGTTTATGAATTTCTGTATG
1 GGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
*
1703573 GGCACTGTGTGTGCAAAACTAAAAAATTCATAATAAGTTTATGAATTTCCGTATG
1 GGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
* *
1703628 GGCACTGTG-G-GCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCATATC
1 GGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
* * * **
1703681 GGCACTATGTGTGCAAAATTAAGGAATTCATAATAAGTTTATGAATTTATGTATG
1 GGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
*
1703736 GGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGCTTATGAATTT
1 GGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTT
1703784 TTGGCAGAAA
Statistics
Matches: 330, Mismatches: 36, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
52 43 0.13
53 50 0.15
54 54 0.16
55 183 0.55
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.34
Consensus pattern (55 bp):
GGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
Found at i:1703695 original size:108 final size:110
Alignment explanation
Indices: 1703357--1703783 Score: 623
Period size: 108 Copynumber: 3.9 Consensus size: 110
1703347 ATTACAGAAT
* *
1703357 GGCACTATGCGTGCAAAACTAATAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTGTGT
1 GGCACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTGTGT
*
1703422 GTGCAAAACTAAGAAATTTATAATAAGTTTATGAATTT-CGTATG
66 GTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
* * * *
1703466 GGTACTGTGTGTGTAAAACTAAGAAATTCATAATAATTTTATGAATTTCCGTATGGGCACT-T-T
1 GGCACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTGTGT
* * * * *
1703529 -TCCAAAATTAAGAAAGTCGTAATAAGTTTATGAATTTCTGTATG
66 GTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
* *
1703573 GGCACTGTGTGTGCAAAACTAAAAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTGTG-
1 GGCACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTGTGT
* *
1703637 G-GCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCATATC
66 GTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
* * **
1703681 GGCACTATGTGTGCAAAATTAAGGAATTCATAATAAGTTTATGAATTTATGTATGGGCACTGTGT
1 GGCACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTGTGT
*
1703746 GTGCAAAACTAAGAAATTCATAATAAGCTTATGAATTT
66 GTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTT
1703784 TTGGCAGAAA
Statistics
Matches: 282, Mismatches: 30, Indels: 11
0.87 0.09 0.03
Matches are distributed among these distances:
106 32 0.11
107 63 0.22
108 96 0.34
109 56 0.20
110 35 0.12
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.34
Consensus pattern (110 bp):
GGCACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTGTGT
GTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
Found at i:1703850 original size:47 final size:48
Alignment explanation
Indices: 1703780--1703912 Score: 196
Period size: 49 Copynumber: 2.8 Consensus size: 48
1703770 AAGCTTATGA
* * *
1703780 ATTTTTGGCAGAAAAGTTCCATTAATGCATGTTAGATTCTAACTGTGC
1 ATTTTTGGCAGAAAGGTTCCATTAATGCAAGTTAGATTCTAACGGTGC
* *
1703828 -TTTTTGGCAGAAAGGTGCCATTAATGCAAGTTAGAAGTCTAACGGTGC
1 ATTTTTGGCAGAAAGGTTCCATTAATGCAAGTTAG-ATTCTAACGGTGC
*
1703876 ACTTTTGGCAGAAAGGTTCCATTAATGCAAGTTAGAT
1 ATTTTTGGCAGAAAGGTTCCATTAATGCAAGTTAGAT
1703913 GAGGAACAAT
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
47 31 0.41
48 12 0.16
49 32 0.43
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (48 bp):
ATTTTTGGCAGAAAGGTTCCATTAATGCAAGTTAGATTCTAACGGTGC
Found at i:1708803 original size:18 final size:21
Alignment explanation
Indices: 1708780--1708825 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 21
1708770 TGCAGAAATG
1708780 GTATCGATA-CATA-ATAG-A
1 GTATCGATATCATAGATAGAA
1708798 GTATCGATATCATAGTATAGAA
1 GTATCGATATCATAG-ATAGAA
1708820 GTATCG
1 GTATCG
1708826 GTACTAAGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 9 0.38
19 4 0.17
21 4 0.17
22 7 0.29
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (21 bp):
GTATCGATATCATAGATAGAA
Found at i:1708923 original size:22 final size:22
Alignment explanation
Indices: 1708891--1708948 Score: 89
Period size: 22 Copynumber: 2.6 Consensus size: 22
1708881 ATTGAAAGGG
*
1708891 AGTATCAGTACCATAGTATAGA
1 AGTATCGGTACCATAGTATAGA
*
1708913 AGTATCGGTACCACAGTATAGA
1 AGTATCGGTACCATAGTATAGA
*
1708935 AGTATCGATACCAT
1 AGTATCGGTACCAT
1708949 TGTAGGGGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (22 bp):
AGTATCGGTACCATAGTATAGA
Found at i:1709357 original size:55 final size:55
Alignment explanation
Indices: 1709284--1709791 Score: 685
Period size: 55 Copynumber: 9.3 Consensus size: 55
1709274 ATTACCGAAT
* * * *
1709284 GGCACTATGCGTGCAAAACTAAGAAATTCATAATAAGTTTATAAATTTCCATATG
1 GGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
* * * *
1709339 GGCACTATGTGTGAAAAACTAAAAAATTCATAATAAGTTTATGAATTTCTGTAT-
1 GGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
* * **
1709393 GACACTGTGTGTGCAAAACTATGAAATTCATAATAAGTTTATGAATTTTTGTATG
1 GGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
* * * *
1709448 GGCACTGTATGTACAAAATTAAGAAATTCATAATAAGTTTATGAATTTCCTTATG
1 GGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
*
1709503 GGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTACG
1 GGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
* * *
1709558 GGCACTGTGTGTGCAAAACTAAGTAATTCATAATAAGTTTATTAATTTACGTATG
1 GGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
* ** ** *
1709613 GGCACTCTGTGTGCAAATTTAAGAAATTCATAATAAGAGTAAGAATTTCCGTATG
1 GGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
* * * * *
1709668 GGAACTGTGCGTGCAAAATTAATAAATTCATAATATGTTTATGAATTTCCGTATG
1 GGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
* * * **
1709723 GGCATTATGTGTGCAAAACTTAGAAATTCATAATAAGTTTATGAATTTCCAAATG
1 GGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
1709778 GGCACTGTGTGTGC
1 GGCACTGTGTGTGC
1709792 TTTATGAATT
Statistics
Matches: 393, Mismatches: 59, Indels: 2
0.87 0.13 0.00
Matches are distributed among these distances:
54 48 0.12
55 345 0.88
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (55 bp):
GGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
Found at i:1709796 original size:32 final size:32
Alignment explanation
Indices: 1709760--1709823 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
1709750 TCATAATAAG
*
1709760 TTTATGAATTTCCAAATGGGCACTGTGTGTGC
1 TTTATGAATTTCCAAATGGGCACCGTGTGTGC
**
1709792 TTTATGAATTTCCGTATGGGCACCGTGTGTGC
1 TTTATGAATTTCCAAATGGGCACCGTGTGTGC
1709824 AAAACTAAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.19, C:0.17, G:0.27, T:0.38
Consensus pattern (32 bp):
TTTATGAATTTCCAAATGGGCACCGTGTGTGC
Found at i:1709851 original size:87 final size:87
Alignment explanation
Indices: 1709705--1709878 Score: 303
Period size: 87 Copynumber: 2.0 Consensus size: 87
1709695 TCATAATATG
** *
1709705 TTTATGAATTTCCGTATGGGCATTATGTGTGCAAAACTTAGAAATTCATAATAAGTTTATGAATT
1 TTTATGAATTTCCGTATGGGCACCATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATT
1709770 TCCAAATGGGCACTGTGTGTGC
66 TCCAAATGGGCACTGTGTGTGC
*
1709792 TTTATGAATTTCCGTATGGGCACCGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATT
1 TTTATGAATTTCCGTATGGGCACCATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATT
*
1709857 TCCATATGGGCACTGTGTGTGC
66 TCCAAATGGGCACTGTGTGTGC
1709879 AAAATTAAGA
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
87 82 1.00
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (87 bp):
TTTATGAATTTCCGTATGGGCACCATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATT
TCCAAATGGGCACTGTGTGTGC
Found at i:1709876 original size:55 final size:55
Alignment explanation
Indices: 1709792--1709912 Score: 215
Period size: 55 Copynumber: 2.2 Consensus size: 55
1709782 CTGTGTGTGC
*
1709792 TTTATGAATTTCCGTATGGGCACCGTGTGTGCAAAACTAAGAAATTCATAATAAG
1 TTTATGAATTTCCATATGGGCACCGTGTGTGCAAAACTAAGAAATTCATAATAAG
* *
1709847 TTTATGAATTTCCATATGGGCACTGTGTGTGCAAAATTAAGAAATTCATAATAAG
1 TTTATGAATTTCCATATGGGCACCGTGTGTGCAAAACTAAGAAATTCATAATAAG
1709902 TTTATGAATTT
1 TTTATGAATTT
1709913 TTGTATCATA
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 63 1.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.36
Consensus pattern (55 bp):
TTTATGAATTTCCATATGGGCACCGTGTGTGCAAAACTAAGAAATTCATAATAAG
Found at i:1709911 original size:142 final size:142
Alignment explanation
Indices: 1709655--1709912 Score: 419
Period size: 142 Copynumber: 1.8 Consensus size: 142
1709645 ATAAGAGTAA
* * * * *
1709655 GAATTTCCGTATGGGAACTGTGCGTGCAAAATTAATAAATTCATAATATGTTTATGAATTTCCGT
1 GAATTTCCGTATGGGAACCGTGCGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCAT
*
1709720 ATGGGCATTATGTGTGCAAAACTTAGAAATTCATAATAAGTTTATGAATTTCCAAATGGGCACTG
66 ATGGGCACTATGTGTGCAAAACTTAGAAATTCATAATAAGTTTATGAATTTCCAAATGGGCACTG
1709785 TGTGTGCTTTAT
131 TGTGTGCTTTAT
* *
1709797 GAATTTCCGTATGGGCACCGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCAT
1 GAATTTCCGTATGGGAACCGTGCGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCAT
*
1709862 ATGGGCACTGTGTGTGCAAAA-TTAAGAAATTCATAATAAGTTTATGAATTT
66 ATGGGCACTATGTGTGCAAAACTT-AGAAATTCATAATAAGTTTATGAATTT
1709913 TTGTATCATA
Statistics
Matches: 106, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
141 2 0.02
142 104 0.98
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.35
Consensus pattern (142 bp):
GAATTTCCGTATGGGAACCGTGCGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCAT
ATGGGCACTATGTGTGCAAAACTTAGAAATTCATAATAAGTTTATGAATTTCCAAATGGGCACTG
TGTGTGCTTTAT
Found at i:1709953 original size:60 final size:55
Alignment explanation
Indices: 1709792--1709963 Score: 200
Period size: 55 Copynumber: 3.0 Consensus size: 55
1709782 CTGTGTGTGC
* * *
1709792 TTTATGAATTTCCGTATGGGCACCGTGTGTGCAAAACTAAGAAATTCATAATAAG
1 TTTATGAATTTCCATATGGGCACTGTGTGTGCAAAACCAAGAAATTCATAATAAG
**
1709847 TTTATGAATTTCCATATGGGCACTGTGTGTGCAAAATTAAGAAATTCATAATAAG
1 TTTATGAATTTCCATATGGGCACTGTGTGTGCAAAACCAAGAAATTCATAATAAG
* * ** * *
1709902 TTTATGAATTTTTGTATCATATTGGCACTGTGTGTGCAACCCCATGTAATTCATAATAAG
1 TTTATGAA---TT-T-CCATATGGGCACTGTGTGTGCAAAACCAAGAAATTCATAATAAG
1709962 TT
1 TT
1709964 GTGAATTACC
Statistics
Matches: 101, Mismatches: 11, Indels: 5
0.86 0.09 0.04
Matches are distributed among these distances:
55 60 0.59
58 2 0.02
59 1 0.01
60 38 0.38
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (55 bp):
TTTATGAATTTCCATATGGGCACTGTGTGTGCAAAACCAAGAAATTCATAATAAG
Found at i:1710248 original size:47 final size:47
Alignment explanation
Indices: 1710177--1710309 Score: 160
Period size: 47 Copynumber: 2.8 Consensus size: 47
1710167 TAGCTGTGTA
* *
1710177 TTTTTGGCAAAAAAGTGCCATTAATGCAAGTTAGATG-CTAACTGTG
1 TTTTTGGCAAAAAGGTGCCATTAATGCAAGTTAGATGTCTAACAGTG
* * * *
1710223 CTTTTTGGCATAAAGGTACCGTTAATGCAAGTTAGAAGTCTAACAGTG
1 -TTTTTGGCAAAAAGGTGCCATTAATGCAAGTTAGATGTCTAACAGTG
* *
1710271 TACTTTTGGTAGAAAGGTGCCATTAATGCAAGTTAGATG
1 T--TTTTGGCAAAAAGGTGCCATTAATGCAAGTTAGATG
1710310 AGGAAAAGTG
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
47 33 0.46
48 8 0.11
49 31 0.43
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.32
Consensus pattern (47 bp):
TTTTTGGCAAAAAGGTGCCATTAATGCAAGTTAGATGTCTAACAGTG
Found at i:1710407 original size:46 final size:46
Alignment explanation
Indices: 1710316--1710407 Score: 105
Period size: 46 Copynumber: 2.0 Consensus size: 46
1710306 GATGAGGAAA
* * * **
1710316 AGTGCATAGTTGGCATGAAATGATATCATAAATGAAAATGTATAAC
1 AGTGCATAATTGGCATGAAAGGATATCACAAATGAAAATACATAAC
* *
1710362 AGTGCATAATTGGCTTGAAAGGATGA-CACAAATGACAATACATAAC
1 AGTGCATAATTGGCATGAAAGGAT-ATCACAAATGAAAATACATAAC
1710408 GGTGTATTAA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
46 37 0.97
47 1 0.03
ACGTcount: A:0.43, C:0.12, G:0.20, T:0.25
Consensus pattern (46 bp):
AGTGCATAATTGGCATGAAAGGATATCACAAATGAAAATACATAAC
Found at i:1711744 original size:97 final size:96
Alignment explanation
Indices: 1711578--1711771 Score: 361
Period size: 97 Copynumber: 2.0 Consensus size: 96
1711568 ACATTTGGGG
1711578 TAAACTACATATAGTATATATTTTGTATATTAGTCTAAACATAAATTTTTAATATTTTATATATA
1 TAAACTACATATAGTATATATTTTGTATATTAGTCTAAACATAAATTTTTAATATTTTATATATA
1711643 TTACATACTAACATTAAAAATATTTTTTTATT
66 TTACATACTAACATT-AAAATATTTTTTTATT
*
1711675 TAAACTACATATAGTATATATTTTGTATATTAGTCTAAACATAAATTTTTAATATTTTATATATT
1 TAAACTACATATAGTATATATTTTGTATATTAGTCTAAACATAAATTTTTAATATTTTATATATA
*
1711740 TTACATACTAACATTAAAATTTTTTTTTATT
66 TTACATACTAACATTAAAATATTTTTTTATT
1711771 T
1 T
1711772 TTTAAATTAT
Statistics
Matches: 95, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
96 16 0.17
97 79 0.83
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (96 bp):
TAAACTACATATAGTATATATTTTGTATATTAGTCTAAACATAAATTTTTAATATTTTATATATA
TTACATACTAACATTAAAATATTTTTTTATT
Found at i:1711832 original size:38 final size:41
Alignment explanation
Indices: 1711781--1711860 Score: 103
Period size: 38 Copynumber: 2.0 Consensus size: 41
1711771 TTTTAAATTA
* *
1711781 TTAAATATATTTTATTCTTGCCTTAACATAA-AAT-TATTT
1 TTAAATATATTTTAATCTTACCTTAACATAACAATATATTT
* *
1711820 TTAAA-ATATTTTAATCTTATCTTAACTTAACAATATATTT
1 TTAAATATATTTTAATCTTACCTTAACATAACAATATATTT
1711860 T
1 T
1711861 ATTTTTATCT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
38 21 0.60
39 8 0.23
40 6 0.17
ACGTcount: A:0.38, C:0.10, G:0.01, T:0.51
Consensus pattern (41 bp):
TTAAATATATTTTAATCTTACCTTAACATAACAATATATTT
Found at i:1712016 original size:25 final size:26
Alignment explanation
Indices: 1711997--1712127 Score: 97
Period size: 27 Copynumber: 4.7 Consensus size: 26
1711987 ATTTTATGTT
1711997 AAAATATATATTTGATTTTTTAATTTA
1 AAAATATATATTT-ATTTTTTAATTTA
*
1712024 AAAATGTATATTTATTTTTTTAATTT-
1 AAAATATATATTTA-TTTTTTAATTTA
* * *
1712050 CAAATGTATATTTTATTTTTATTTTTATTTA
1 AAAATATATA-TTTA---TT-TTTTAATTTA
*
1712081 AAAATATAT-TTTATTTTTATCTTAATTTT
1 AAAATATATATTTA--TTT-T-TTAATTTA
1712110 AAAATATAT-TTTATTTTT
1 AAAATATATATTTATTTTT
1712128 ATCTTAATTT
Statistics
Matches: 89, Mismatches: 7, Indels: 18
0.78 0.06 0.16
Matches are distributed among these distances:
25 1 0.01
26 11 0.12
27 31 0.35
28 5 0.06
29 26 0.29
30 8 0.09
31 7 0.08
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (26 bp):
AAAATATATATTTATTTTTTAATTTA
Found at i:1712096 original size:29 final size:29
Alignment explanation
Indices: 1711825--1712145 Score: 194
Period size: 29 Copynumber: 11.1 Consensus size: 29
1711815 TATTTTTAAA
* * * * *
1711825 ATATTTTAATCTTATCTTAACTTAACAAT
1 ATATTTTATTTTTATTTTAATTTAAAAAT
* *
1711854 ATATTTTATTTTTATCTTAACTTTTAAAAAC
1 ATATTTTATTTTTATTTTAA--TTTAAAAAT
* * * *
1711885 ATATTTTATTTTTATTTTTACTTATTACAT
1 ATATTTTATTTTTATTTTAATTTA-AAAAT
** * *
1711915 ATATTAAATTCTTTA-ATTAAATTAACAAAT
1 ATATTTTATT-TTTATTTTAATTTAA-AAAT
* * * * * *
1711945 ATATTATAGTCTTATCTTAAATTATTAAAT
1 ATATTTTATTTTTATTTTAATTTA-AAAAT
**
1711975 ATA-TTTATCCTTATTTT-ATGTTAAAATAT
1 ATATTTTATTTTTATTTTAAT-TTAAAA-AT
*
1712004 ATATTTGA---TT-TTTTAATTTAAAAAT
1 ATATTTTATTTTTATTTTAATTTAAAAAT
* **
1712029 GTATATTTA--TTT-TTTTAATTTCAAATGT
1 ATAT-TTTATTTTTATTTTAATTT-AAAAAT
*
1712057 ATATTTTATTTTTATTTTTATTTAAAAAT
1 ATATTTTATTTTTATTTTAATTTAAAAAT
* *
1712086 ATATTTTATTTTTATCTTAATTTTAAAAT
1 ATATTTTATTTTTATTTTAATTTAAAAAT
* *
1712115 ATATTTTATTTTTATCTTAATTTTAAAAT
1 ATATTTTATTTTTATTTTAATTTAAAAAT
1712144 AT
1 AT
1712146 TACAAGAATA
Statistics
Matches: 234, Mismatches: 41, Indels: 34
0.76 0.13 0.11
Matches are distributed among these distances:
25 5 0.02
26 13 0.06
27 19 0.08
28 10 0.04
29 106 0.45
30 53 0.23
31 28 0.12
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.57
Consensus pattern (29 bp):
ATATTTTATTTTTATTTTAATTTAAAAAT
Found at i:1712286 original size:31 final size:30
Alignment explanation
Indices: 1712149--1712289 Score: 153
Period size: 29 Copynumber: 4.7 Consensus size: 30
1712139 AAAATATTAC
* * *
1712149 AAGAATAAAATATAAATATTTCAGTTAAGAT
1 AAGAAT-AAATATATATTTTTAAGTTAAGAT
* *
1712180 AAGAATAAAT-TATATTTTTTAAGTTAATAA
1 AAGAATAAATATATA-TTTTTAAGTTAAGAT
* * *
1712210 AAAAATAAA-ATATATTTTAAAGTTAAAAT
1 AAGAATAAATATATATTTTTAAGTTAAGAT
1712239 AAGAATAAA-ATATATTTTTAAGTTAAGAT
1 AAGAATAAATATATATTTTTAAGTTAAGAT
*
1712268 TAGAATAATATATATATTTTTA
1 AAGAATAA-ATATATATTTTTA
1712290 TTGTTAATAT
Statistics
Matches: 93, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
29 48 0.52
30 28 0.30
31 17 0.18
ACGTcount: A:0.53, C:0.01, G:0.07, T:0.39
Consensus pattern (30 bp):
AAGAATAAATATATATTTTTAAGTTAAGAT
Found at i:1713618 original size:59 final size:59
Alignment explanation
Indices: 1713525--1713656 Score: 156
Period size: 59 Copynumber: 2.2 Consensus size: 59
1713515 CACCGTAGTG
* * * * **
1713525 CAATCCTGAGTATGACACATAAGGTCATGTCCACCATCTGTACTAGGTATCCTTAAGTA
1 CAATCCCGAATATGACACATAAGGTCATGCCCACCATATACACTAGGTATCCTTAAGTA
* * * *
1713584 CAATCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTTGGTATCCTTTAGTG
1 CAATCCCGAATATGACACATAAGGTCATGCCCACCATATACACTAGGTATCCTTAAGTA
* *
1713643 TATTCCCGAATATG
1 CAATCCCGAATATG
1713657 CAGCCTGTTA
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
59 61 1.00
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.29
Consensus pattern (59 bp):
CAATCCCGAATATGACACATAAGGTCATGCCCACCATATACACTAGGTATCCTTAAGTA
Found at i:1717313 original size:18 final size:18
Alignment explanation
Indices: 1717292--1717341 Score: 73
Period size: 18 Copynumber: 2.7 Consensus size: 18
1717282 ATCTCTTATT
1717292 TTTTTTCTTTTTATTTTC
1 TTTTTTCTTTTTATTTTC
*
1717310 TTTTTTCTTTTTGTTTTC
1 TTTTTTCTTTTTATTTTC
1717328 TTCTTTTCTGTTTT
1 TT-TTTTCT-TTTT
1717342 TATATATATA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 19 0.66
19 6 0.21
20 4 0.14
ACGTcount: A:0.02, C:0.12, G:0.04, T:0.82
Consensus pattern (18 bp):
TTTTTTCTTTTTATTTTC
Found at i:1721570 original size:45 final size:44
Alignment explanation
Indices: 1721517--1721674 Score: 239
Period size: 45 Copynumber: 3.6 Consensus size: 44
1721507 AGTGTAGGTT
* *
1721517 TTACAGCTTATGGATTAAATGGCAAGTATATTGGTAAAATAAGC
1 TTACAGCTTATGGAATAAATGGTAAGTATATTGGTAAAATAAGC
*
1721561 TTACGAGCTTATGGAATAAATGGTTAGTATATTGGTAAAATAAGC
1 TTAC-AGCTTATGGAATAAATGGTAAGTATATTGGTAAAATAAGC
*
1721606 TTA-TGCTTATGGAAT-AATGGTAAGTATATTGGTAAAATAAGC
1 TTACAGCTTATGGAATAAATGGTAAGTATATTGGTAAAATAAGC
*
1721648 TTACAAGCTTATGGGATAAATGGTAAG
1 TTAC-AGCTTATGGAATAAATGGTAAG
1721675 AAATTTTATA
Statistics
Matches: 103, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
42 29 0.28
43 11 0.11
44 14 0.14
45 49 0.48
ACGTcount: A:0.38, C:0.07, G:0.22, T:0.33
Consensus pattern (44 bp):
TTACAGCTTATGGAATAAATGGTAAGTATATTGGTAAAATAAGC
Found at i:1722151 original size:22 final size:22
Alignment explanation
Indices: 1722123--1722173 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
1722113 AGTATGTTAA
*
1722123 AGGGGAACCCATTCCCTGCTAT
1 AGGGGAACCCATTCCCTGCTAC
*
1722145 AGGGGAACCGATTCCCTGCTAC
1 AGGGGAACCCATTCCCTGCTAC
1722167 AGGGGAA
1 AGGGGAA
1722174 TTGATACCCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.25, C:0.27, G:0.29, T:0.18
Consensus pattern (22 bp):
AGGGGAACCCATTCCCTGCTAC
Found at i:1724379 original size:31 final size:30
Alignment explanation
Indices: 1724344--1724403 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
1724334 ACAACCATTC
* * *
1724344 CAACTTTTTCCAAAATTACGAATTGGTCCCT
1 CAACTTTGT-CAAAATTACAAAATGGTCCCT
*
1724375 CAACTTTGTGAAAATTACAAAATGGTCCC
1 CAACTTTGTCAAAATTACAAAATGGTCCC
1724404 AAAATTTTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 17 0.68
31 8 0.32
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.32
Consensus pattern (30 bp):
CAACTTTGTCAAAATTACAAAATGGTCCCT
Found at i:1727041 original size:48 final size:48
Alignment explanation
Indices: 1726941--1727110 Score: 191
Period size: 48 Copynumber: 3.6 Consensus size: 48
1726931 ACTCTATAAG
* ** * * **
1726941 GAAAATTAAATGGATAACGGTGCA-TTTGACAGAAAGTTGGTACTAAT
1 GAAAATTAAATGCATAACAATGCATTTTGGCAGAAAGGTGCCACTAAT
1726988 GAAAATTAAATGCATAACAATGCATTTTGGCAGAAAGGTGCCACTAAT
1 GAAAATTAAATGCATAACAATGCATTTTGGCAGAAAGGTGCCACTAAT
** * *
1727036 GAAAATTAAATGCATAACGGTGTATTTTCGCAGAAAGGTGCCACTAA-
1 GAAAATTAAATGCATAACAATGCATTTTGGCAGAAAGGTGCCACTAAT
* * *
1727083 CAACAATTAAATGTATAACAATTCATTT
1 GAA-AATTAAATGCATAACAATGCATTT
1727111 CGACATAAAA
Statistics
Matches: 104, Mismatches: 17, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
47 23 0.22
48 81 0.78
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.28
Consensus pattern (48 bp):
GAAAATTAAATGCATAACAATGCATTTTGGCAGAAAGGTGCCACTAAT
Found at i:1740418 original size:21 final size:19
Alignment explanation
Indices: 1740390--1740435 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
1740380 ACATTGAATC
1740390 ATTA-TTCTTAGCTCCTTAAT
1 ATTAGTTCTTAGCT--TTAAT
1740410 ATTAGTTCTTAGCTTTAAT
1 ATTAGTTCTTAGCTTTAAT
1740429 ACTTAGT
1 A-TTAGT
1740436 AGGATTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.26, C:0.15, G:0.09, T:0.50
Consensus pattern (19 bp):
ATTAGTTCTTAGCTTTAAT
Found at i:1750716 original size:21 final size:19
Alignment explanation
Indices: 1750688--1750733 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
1750678 TCATTGAATC
1750688 ATTA-TTCTTAGCTCCTTAAT
1 ATTAGTTCTTAGCT--TTAAT
1750708 ATTAGTTCTTAGCTTTAAT
1 ATTAGTTCTTAGCTTTAAT
1750727 ACTTAGT
1 A-TTAGT
1750734 AGGATTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.26, C:0.15, G:0.09, T:0.50
Consensus pattern (19 bp):
ATTAGTTCTTAGCTTTAAT
Found at i:1761600 original size:20 final size:20
Alignment explanation
Indices: 1761549--1761602 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
1761539 AAGTAAAAAT
**
1761549 AAAATAAAAATAAAAAAAGCG
1 AAAATAAAAAT-TGAAAAGCG
*
1761570 AAAATAGAAATTGAAAAG-G
1 AAAATAAAAATTGAAAAGCG
1761589 AAAATGAAAAATTG
1 AAAAT-AAAAATTG
1761603 GGTTGTCTCC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 6 0.21
20 12 0.43
21 10 0.36
ACGTcount: A:0.69, C:0.02, G:0.15, T:0.15
Consensus pattern (20 bp):
AAAATAAAAATTGAAAAGCG
Found at i:1773488 original size:2 final size:2
Alignment explanation
Indices: 1773481--1773560 Score: 135
Period size: 2 Copynumber: 40.5 Consensus size: 2
1773471 TCAATCTACA
1773481 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
1773523 AT -T AT AT AT AT AT AT AC CT AT 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 AT AT AT AT A
1773561 ATTTCCGAAA
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
1 1 0.01
2 72 0.99
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1773712 original size:85 final size:85
Alignment explanation
Indices: 1773618--1773915 Score: 377
Period size: 85 Copynumber: 3.5 Consensus size: 85
1773608 ATGATGTGTA
* * * * * *
1773618 CTTCTATGACACTCAATGTAAGTCATATATGTGTGTCATAAATTTATGACACACAAATGTATGTC
1 CTTCAATGACACGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACGCACAAATGTGTGTC
** *
1773683 A-AGTAGATTTATGACGAGGG
66 ATCTTA-ATTTATGACGGGGG
* * * *
1773703 CTTCAATGACGCGCAATGTAAGTCATACATGCATGTCATAAATTTATGATGCACAAATGGGTGTC
1 CTTCAATGACACGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACGCACAAATGTGTGTC
*
1773768 ATCTTATTTTATGACGGGGG
66 ATCTTAATTTATGACGGGGG
* * *
1773788 CTTCAATGACA-GACAATGTAAATCATACATGTGTGTCCA-AAATTTATGTCGCACAAATGTGTG
1 CTTCAATGACACG-CAATGTAAGTCATACATGCGTGT-CATAAATTTATGACGCACAAATGTGTG
1773851 TCATCTTAATTTATGACGGGGG
64 TCATCTTAATTTATGACGGGGG
* *
1773873 CTTCAATGACGCGCAATGTAAGTCATACATGCGCGTCATAAAT
1 CTTCAATGACACGCAATGTAAGTCATACATGCGTGTCATAAAT
1773916 ACGCGTCATA
Statistics
Matches: 182, Mismatches: 26, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
84 3 0.02
85 174 0.96
86 5 0.03
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (85 bp):
CTTCAATGACACGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACGCACAAATGTGTGTC
ATCTTAATTTATGACGGGGG
Found at i:1781489 original size:21 final size:21
Alignment explanation
Indices: 1781460--1781504 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
1781450 AAGTGGTCTT
*
1781460 TTCAGCCCTTTGTCACTTCGA
1 TTCAACCCTTTGTCACTTCGA
*
1781481 TTCAACCCTTTGTTACTTCGA
1 TTCAACCCTTTGTCACTTCGA
1781502 TTC
1 TTC
1781505 GTCCTTCCCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.16, C:0.31, G:0.11, T:0.42
Consensus pattern (21 bp):
TTCAACCCTTTGTCACTTCGA
Found at i:1786288 original size:21 final size:21
Alignment explanation
Indices: 1786262--1786301 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
1786252 AAAGAGAGTC
1786262 AAAGAGTGCTTGAAATTATCA
1 AAAGAGTGCTTGAAATTATCA
1786283 AAAGAGTGCTTGAAATTAT
1 AAAGAGTGCTTGAAATTAT
1786302 AGTAGAGAAG
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:0.42, C:0.07, G:0.20, T:0.30
Consensus pattern (21 bp):
AAAGAGTGCTTGAAATTATCA
Found at i:1810073 original size:36 final size:36
Alignment explanation
Indices: 1810032--1810168 Score: 233
Period size: 36 Copynumber: 3.9 Consensus size: 36
1810022 AGTTGAGTAT
*
1810032 TATCAGCTTTGGTACATTCATGTATCAATGTTATCA
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
1810068 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
* *
1810104 TATCAGCTTTGGTACATTCGTATATCAATGTTATCC
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
1810140 TATCAGCTTTGGT--ATTCGTGTATCAATGT
1 TATCAGCTTTGGTACATTCGTGTATCAATGT
1810169 CCAGCACCGT
Statistics
Matches: 97, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
34 15 0.15
36 82 0.85
ACGTcount: A:0.25, C:0.17, G:0.16, T:0.42
Consensus pattern (36 bp):
TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
Found at i:1818084 original size:36 final size:36
Alignment explanation
Indices: 1818043--1818177 Score: 243
Period size: 36 Copynumber: 3.8 Consensus size: 36
1818033 AGTTGAGTAT
*
1818043 TATCAGCTTTGGTACATTCATGTATCAATGTTATCA
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
1818079 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
* *
1818115 TATCAACTTTGGTACATTCGTGTATCAATGTTATCC
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
1818151 TATCAGCTTTGGTACATTCGTGTATCA
1 TATCAGCTTTGGTACATTCGTGTATCA
1818178 TTGTCCATCA
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 95 1.00
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.41
Consensus pattern (36 bp):
TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
Found at i:1820606 original size:21 final size:20
Alignment explanation
Indices: 1820580--1820633 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
1820570 TAATATCGAC
1820580 TCTTTAGATCCTGGTACAACT
1 TCTTTAGA-CCTGGTACAACT
* * *
1820601 TTTTTATACCTGGTACATCT
1 TCTTTAGACCTGGTACAACT
*
1820621 TCTTTATACCTGG
1 TCTTTAGACCTGG
1820634 ATGCATAGTC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 23 0.79
21 6 0.21
ACGTcount: A:0.20, C:0.22, G:0.13, T:0.44
Consensus pattern (20 bp):
TCTTTAGACCTGGTACAACT
Found at i:1820614 original size:20 final size:20
Alignment explanation
Indices: 1820589--1820633 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
1820579 CTCTTTAGAT
*
1820589 CCTGGTACAACTTTTTTATA
1 CCTGGTACAACTTCTTTATA
*
1820609 CCTGGTACATCTTCTTTATA
1 CCTGGTACAACTTCTTTATA
1820629 CCTGG
1 CCTGG
1820634 ATGCATAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.20, C:0.24, G:0.13, T:0.42
Consensus pattern (20 bp):
CCTGGTACAACTTCTTTATA
Found at i:1831283 original size:36 final size:36
Alignment explanation
Indices: 1831228--1831300 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 36
1831218 TAATTTAAAT
* * * *
1831228 CTAATCCTAAACCATTATAACATAAAAACCCTAACC
1 CTAACCCTAAACCACTATAACACAAAAAACCTAACC
*
1831264 CTAACCCTAAACCACTATAACCCAAAAAACCTAACC
1 CTAACCCTAAACCACTATAACACAAAAAACCTAACC
1831300 C
1 C
1831301 AAAAACCTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.47, C:0.36, G:0.00, T:0.18
Consensus pattern (36 bp):
CTAACCCTAAACCACTATAACACAAAAAACCTAACC
Found at i:1831306 original size:13 final size:14
Alignment explanation
Indices: 1831281--1831310 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
1831271 TAAACCACTA
1831281 TAACCCAAAAAACC
1 TAACCCAAAAAACC
1831295 TAACCC-AAAAACC
1 TAACCCAAAAAACC
1831308 TAA
1 TAA
1831311 ATCGAATATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.57, C:0.33, G:0.00, T:0.10
Consensus pattern (14 bp):
TAACCCAAAAAACC
Found at i:1832532 original size:16 final size:17
Alignment explanation
Indices: 1832495--1832531 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
1832485 AATATCATTT
* *
1832495 AAAACAATTTTAAGAAA
1 AAAATAATTTAAAGAAA
1832512 AAAATAATTTAAAGAAA
1 AAAATAATTTAAAGAAA
1832529 AAA
1 AAA
1832532 TTGGATTGCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.70, C:0.03, G:0.05, T:0.22
Consensus pattern (17 bp):
AAAATAATTTAAAGAAA
Done.