Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 16 of 171
Found at i:7561456 original size:24 final size:25
Alignment explanation
Indices: 7561401--7561462 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 25
7561391 ATTGTCATTG
* * *
7561401 TATAAAAGTAAAATGTTTATTACAT
1 TATAAAATTAAAATATTTATCACAT
*
7561426 T-TGAAATTAAAATATTTATCAC-T
1 TATAAAATTAAAATATTTATCACAT
*
7561449 TATAAAATTCAAAT
1 TATAAAATTAAAAT
7561463 TTATTTTAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
23 2 0.07
24 27 0.90
25 1 0.03
ACGTcount: A:0.48, C:0.06, G:0.05, T:0.40
Consensus pattern (25 bp):
TATAAAATTAAAATATTTATCACAT
Found at i:7562884 original size:18 final size:17
Alignment explanation
Indices: 7562858--7562892 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
7562848 TTAATTTCTG
7562858 AATTATTTTATTTATATT
1 AATTATTTTA-TTATATT
*
7562876 AATTTTTTTATTATATT
1 AATTATTTTATTATATT
7562893 GATGTGATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
AATTATTTTATTATATT
Found at i:7564489 original size:26 final size:25
Alignment explanation
Indices: 7564455--7564525 Score: 73
Period size: 23 Copynumber: 3.0 Consensus size: 25
7564445 TAGATTTTAG
7564455 ATTTTTAAATATTTTTATTAATTTGT
1 ATTTTTAAATATTTTTATTAATTT-T
*
7564481 ATTTTTAAA-A--TTTA-AAATTTT
1 ATTTTTAAATATTTTTATTAATTTT
*
7564502 A--TTTAAATTTTTTTATTAATTTT
1 ATTTTTAAATATTTTTATTAATTTT
7564525 A
1 A
7564526 ATAATGTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 11
0.73 0.06 0.21
Matches are distributed among these distances:
19 6 0.16
21 2 0.05
22 9 0.24
23 11 0.29
25 1 0.03
26 9 0.24
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.63
Consensus pattern (25 bp):
ATTTTTAAATATTTTTATTAATTTT
Found at i:7567064 original size:6 final size:6
Alignment explanation
Indices: 7567053--7567080 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
7567043 TCAATTGCAA
7567053 CAACTG CAACTG CAACTG CAACTG CAAC
1 CAACTG CAACTG CAACTG CAACTG CAAC
7567081 ATTCTTCTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.36, C:0.36, G:0.14, T:0.14
Consensus pattern (6 bp):
CAACTG
Found at i:7569899 original size:62 final size:62
Alignment explanation
Indices: 7569799--7570012 Score: 256
Period size: 62 Copynumber: 3.5 Consensus size: 62
7569789 ATGAGAAAAT
*
7569799 TTGCATGGCCGACA-CCCCTTATTTCTCGAGAAAAAAATTTAAAATTTTTTTGGTGTTGGTCA
1 TTGCATGGCCGACACCCCCTTTTTTCTCGAG-AAAAAATTTAAAATTTTTTTGGTGTTGGTCA
* * * *
7569861 TTGCATGACCGAAACCCCCTTTTTTCTCGAGAAAAAATTTTAAATTTTTTT-GTGTTGGCCA
1 TTGCATGGCCGACACCCCCTTTTTTCTCGAGAAAAAATTTAAAATTTTTTTGGTGTTGGTCA
* * * *
7569922 TTGCATGGCTGACACCCCC--TTTTCTCGAGAAAAAAATTCAAATATTTTTGGTGTTGGTCA
1 TTGCATGGCCGACACCCCCTTTTTTCTCGAGAAAAAATTTAAAATTTTTTTGGTGTTGGTCA
*** * *
7569982 TCAAATGGTCGACACCAACCTTTTTTCTCGA
1 TTGCATGGCCGACACC-CCCTTTTTTCTCGA
7570013 AATTTTTTTT
Statistics
Matches: 129, Mismatches: 18, Indels: 9
0.83 0.12 0.06
Matches are distributed among these distances:
59 27 0.21
60 20 0.16
61 27 0.21
62 31 0.24
63 24 0.19
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (62 bp):
TTGCATGGCCGACACCCCCTTTTTTCTCGAGAAAAAATTTAAAATTTTTTTGGTGTTGGTCA
Found at i:7569997 original size:60 final size:59
Alignment explanation
Indices: 7569799--7569982 Score: 233
Period size: 61 Copynumber: 3.0 Consensus size: 59
7569789 ATGAGAAAAT
*
7569799 TTGCATGGCCGACACCCCTTATTTCTCGAGAAAAAAATTTAAAATTTTTTTGGTGTTGGTCA
1 TTGCATGGCCGACACCCCCT-TTTCTCGAGAAAAAAA-TTAAAA-TTTTTTGGTGTTGGTCA
* * * * * *
7569861 TTGCATGACCGAAACCCCCTTTTTTCTCGAGAAAAAATTTTAAATTTTTTTGTGTTGGCCA
1 TTGCATGGCCGACACCCCC--TTTTCTCGAGAAAAAAATTAAAATTTTTTGGTGTTGGTCA
* *
7569922 TTGCATGGCTGACACCCCCTTTTCTCGAGAAAAAAATTCAAATATTTTTGGTGTTGGTCA
1 TTGCATGGCCGACACCCCCTTTTCTCGAGAAAAAAATTAAAAT-TTTTTGGTGTTGGTCA
7569982 T
1 T
7569983 CAAATGGTCG
Statistics
Matches: 105, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
59 22 0.21
60 15 0.14
61 31 0.30
62 21 0.20
63 15 0.14
64 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.38
Consensus pattern (59 bp):
TTGCATGGCCGACACCCCCTTTTCTCGAGAAAAAAATTAAAATTTTTTGGTGTTGGTCA
Found at i:7570473 original size:23 final size:22
Alignment explanation
Indices: 7570429--7570486 Score: 55
Period size: 23 Copynumber: 2.5 Consensus size: 22
7570419 ACATTTTAAA
*
7570429 TTTAATTTGTAATTTCGTTTTTAT
1 TTTAAATT-TAATTTCGTTTTT-T
7570453 TTTAAATTTAATTTC-TATTTTT
1 TTTAAATTTAATTTCGT-TTTTT
*
7570475 TTGTATATTTAA
1 TT-TAAATTTAA
7570487 ATTTTTCTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
22 4 0.13
23 19 0.63
24 7 0.23
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.66
Consensus pattern (22 bp):
TTTAAATTTAATTTCGTTTTTT
Found at i:7570484 original size:30 final size:30
Alignment explanation
Indices: 7570421--7570504 Score: 93
Period size: 30 Copynumber: 2.8 Consensus size: 30
7570411 TTCCGTTTAC
*
7570421 ATTTTAAATTTAATTTGTAATTTCGTTTTT
1 ATTTTAAATTTAATTTCTAATTTCGTTTTT
7570451 ATTTTAAATTTAATTTCT-ATTT--TTTTGT
1 ATTTTAAATTTAATTTCTAATTTCGTTTT-T
**
7570479 ATATTTAAATTTTTCTTTCTAATTTC
1 AT-TTTAAA-TTTAATTTCTAATTTC
7570505 CTGTATATTC
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
27 4 0.09
28 3 0.07
29 10 0.22
30 25 0.54
31 4 0.09
ACGTcount: A:0.26, C:0.06, G:0.04, T:0.64
Consensus pattern (30 bp):
ATTTTAAATTTAATTTCTAATTTCGTTTTT
Found at i:7571528 original size:62 final size:61
Alignment explanation
Indices: 7571401--7571692 Score: 349
Period size: 62 Copynumber: 4.8 Consensus size: 61
7571391 ATCCGAGGAA
* * * *
7571401 AATGACCAACACC-CAAAAATGTAAATTTTTTTTCTCGAGAAAA-GGGGGTGTCGGCCAT-C
1 AATGGCCAACACCAAAAAAATTTGAA-TTTTTTTCTCGAGAAAAGGGGGGTGTCGGCCATGC
* * *
7571460 TGATGGCTAACACCAAAAAAATTTGAAATTTTTTTCTCGAGAAAAGGGGGGTGTCGACCATGC
1 -AATGGCCAACACCAAAAAAATTTG-AATTTTTTTCTCGAGAAAAGGGGGGTGTCGGCCATGC
* * * **
7571523 AATGGCCAACACCAAAAAATTTTGAA-TTTTTTCTCGAGAAAAAAAGGGGGTGTCGGTCATTT
1 AATGGCCAACACCAAAAAAATTTGAATTTTTTTCTCGAG--AAAAGGGGGGTGTCGGCCATGC
* * *
7571585 GATGGCGAACACCAAAAAAATTTGAATTTTTTTCTCGAGAAAACGGGGGTGTCGGCCATGC
1 AATGGCCAACACCAAAAAAATTTGAATTTTTTTCTCGAGAAAAGGGGGGTGTCGGCCATGC
* *
7571646 AATGGCCAACACCAAAAAAATTTAAATTTTTTTTCTTGAGAAAAGGG
1 AATGGCCAACACCAAAAAAATTTGAA-TTTTTTTCTCGAGAAAAGGG
7571693 CATGATCGAC
Statistics
Matches: 197, Mismatches: 27, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
60 22 0.11
61 67 0.34
62 95 0.48
63 13 0.07
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (61 bp):
AATGGCCAACACCAAAAAAATTTGAATTTTTTTCTCGAGAAAAGGGGGGTGTCGGCCATGC
Found at i:7571646 original size:123 final size:121
Alignment explanation
Indices: 7571401--7571692 Score: 408
Period size: 123 Copynumber: 2.4 Consensus size: 121
7571391 ATCCGAGGAA
* * *
7571401 AATGACCAACACC-CAAAAATGTAAATTTTTTTTCTCGAGAAAAGGGGGTGTCGGCCATCTGATG
1 AATGGCCAACACCAAAAAAATTTAAA--TTTTTTCTCGAGAAAAGGGGGTGTCGGCCATCTGATG
* *
7571465 GCTAACACCAAAAAAATTTGAAATTTTTTTCTCGAGAAAAGGGGGGTGTCGACCATGC
64 GCGAACACCAAAAAAATTTGAAATTTTTTTCTCGAGAAAACGGGGGTGTCGACCATGC
* * * *
7571523 AATGGCCAACACCAAAAAATTTTGAATTTTTTCTCGAGAAAAAAAGGGGGTGTCGGTCATTTGAT
1 AATGGCCAACACCAAAAAAATTTAAATTTTTTCTCGAG---AAAAGGGGGTGTCGGCCATCTGAT
*
7571588 GGCGAACACCAAAAAAATTTG-AATTTTTTTCTCGAGAAAACGGGGGTGTCGGCCATGC
63 GGCGAACACCAAAAAAATTTGAAATTTTTTTCTCGAGAAAACGGGGGTGTCGACCATGC
*
7571646 AATGGCCAACACCAAAAAAATTTAAATTTTTTTTCTTGAGAAAAGGG
1 AATGGCCAACACCAAAAAAATTTAAA--TTTTTTCTCGAGAAAAGGG
7571693 CATGATCGAC
Statistics
Matches: 151, Mismatches: 13, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
121 12 0.08
122 19 0.13
123 67 0.44
124 42 0.28
125 11 0.07
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (121 bp):
AATGGCCAACACCAAAAAAATTTAAATTTTTTCTCGAGAAAAGGGGGTGTCGGCCATCTGATGGC
GAACACCAAAAAAATTTGAAATTTTTTTCTCGAGAAAACGGGGGTGTCGACCATGC
Found at i:7571724 original size:47 final size:48
Alignment explanation
Indices: 7571650--7571785 Score: 152
Period size: 47 Copynumber: 2.8 Consensus size: 48
7571640 CCATGCAATG
*
7571650 GCCAACACCAAAAAAATTTAAATTTTTTTTCTTGAGAAAAGGG-CA-T
1 GCCAACACCAAAAAAATTTAAAATTTTTTTCTTGAGAAAAGGGACATT
* * *
7571696 GATCGACACCAAAAAAATTTAAAA-TTTTTTCTCGAGAAAAAAAGGGACATT
1 G-CCAACACCAAAAAAATTTAAAATTTTTTTCTTGAG---AAAAGGGACATT
* * *
7571747 GCCAACACAAAAAAAAATTGAAATTTTTTTCTTGAGAAA
1 GCCAACACCAAAAAAATTTAAAATTTTTTTCTTGAGAAA
7571786 TAAGGGGTGT
Statistics
Matches: 73, Mismatches: 10, Indels: 12
0.77 0.11 0.13
Matches are distributed among these distances:
46 12 0.16
47 19 0.26
48 3 0.04
49 7 0.10
50 19 0.26
51 13 0.18
ACGTcount: A:0.46, C:0.14, G:0.12, T:0.28
Consensus pattern (48 bp):
GCCAACACCAAAAAAATTTAAAATTTTTTTCTTGAGAAAAGGGACATT
Found at i:7571791 original size:50 final size:46
Alignment explanation
Indices: 7571650--7571791 Score: 151
Period size: 51 Copynumber: 2.9 Consensus size: 46
7571640 CCATGCAATG
7571650 GCCAACACCAAAAAAATTTAAATTTTTTTTCTTGAG-AAAAGGGCAT
1 GCCAACACCAAAAAAATTTAAA-TTTTTTTCTTGAGAAAAAGGGCAT
* * * *
7571696 GATCGACACCAAAAAAATTTAAAATTTTTTCTCGAGAAAAAAAGGGACATT
1 G-CCAACACCAAAAAAATTTAAATTTTTTTCTTGAG--AAAAAGGG-CA-T
* *
7571747 GCCAACACAAAAAAAAATTGAAATTTTTTTCTTGAGAAATAAGGG
1 GCCAACAC-CAAAAAAATTTAAATTTTTTTCTTGAGAAA-AAGGG
7571792 GTGTCGGCCA
Statistics
Matches: 78, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
46 12 0.15
47 19 0.24
49 10 0.13
50 12 0.15
51 25 0.32
ACGTcount: A:0.45, C:0.13, G:0.14, T:0.27
Consensus pattern (46 bp):
GCCAACACCAAAAAAATTTAAATTTTTTTCTTGAGAAAAAGGGCAT
Found at i:7575483 original size:23 final size:22
Alignment explanation
Indices: 7575450--7575492 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
7575440 TAAGATTATT
7575450 ATTAAATATATGATAATAAATA
1 ATTAAATATATGATAATAAATA
**
7575472 ATTAAATCATATTTTAATAAA
1 ATTAAAT-ATATGATAATAAA
7575493 ATTTAGTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (22 bp):
ATTAAATATATGATAATAAATA
Found at i:7576282 original size:11 final size:11
Alignment explanation
Indices: 7576266--7576290 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
7576256 AGACATACCC
7576266 AAAAAAAGAAA
1 AAAAAAAGAAA
7576277 AAAAAAAGAAA
1 AAAAAAAGAAA
7576288 AAA
1 AAA
7576291 TACAAAATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAAGAAA
Found at i:7582760 original size:717 final size:718
Alignment explanation
Indices: 7581167--7584219 Score: 4545
Period size: 717 Copynumber: 4.3 Consensus size: 718
7581157 AACTAGAAAC
* * * * **
7581167 ACATAATCATGTTTTTTGTTCAAACAGAAGAATAACTCACGTGCTGTGTGTGCAGAGACTATAAG
1 ACATAATCTTGTTTTTTGTCCAAACAGAAGAATAACTCACGTGCTTTGTGTGCAGGGACTACGAG
* ** * * *
7581232 AACAAAT----AAATGACATATTACCAGCTTCACCAAACTTCTTTAGGTGTTGCATTAGTGATTT
66 AACAAATGAGAAAAAGACATCCTACTAGCTTCACCAAACTTCATTGGGTGTTGCATTAGTGATTT
* * * * *
7581293 TTGACATCCACAAAAAAGTTCGCAACTAATGACATCCACAAAAGCTCATAAAATATTGAAGTGAT
131 GTGACATCCACAAAAAAGTTCGTAACTAATGACGTCCACAAAAGGTCACAAAATATTGAAGTGAT
*
7581358 ATTTACCGACCAATCGCAACCTTTGCCAAAGAGATCTCAATAATAGCATAAAGTGCACTAAGATC
196 ATTTACCGACCAATCGCAACCTTTGCCAAAGAGATCTCAATAATAGCATAAAGTGCACCAAGATC
*
7581423 TAGAATACCATTCAATTGGTCATAGTTGATGATTATTCTATGTATTTATGCATGTTTCGCTTTTG
261 TAGAATACCATCCAATTGGTCATAGTTGATGATTATTCTATGTATTTATGCATGTTTCGCTTTTG
* * *
7581488 ACTTTTATTATTTCTTGTTCATACAAAAAACACAAATTCCAACTGTAACAACCTGCGTTATTATT
326 ACTTTTATTATCTCTTGTTCGTACAAAAAACACAAATTCCAACTGTAACAACCTGCGTTATTGTT
** *
7581553 GGAACTAAAAAAAGATATATAAATTTATGGAAGAAAAAATGATTATCGACAAATGACACCACCTC
391 GGAACTAAAAAAAGATATATAAATTTAAAGAAGAAAAAATGATTATCGACAAATGGCACCACCTC
* * * **
7581618 TTACCAAAGAGGTTTCAATCATAGTGTAACGCCTAACTAGTTTCACATAAGCTTTTCTTTTTTTG
456 TTACCAAAGAGGTTTCAATAATAGCGTAACGCCCAACTAGAATCACATAAGC---T-TTTTTTTG
* * * * * *
7581683 GTAACGTAAGAATATCTCACGTGCTGTGTGTACAAAGACTATGAGAACAAATAAAAGACATATTA
517 CTAACGTAAGAATATCTCACATGCTGTGTGTGCAGAGACTATAAGAACAAATAAAGGACATATTA
* *
7581748 CTAGCTTCACCAAACTCCATTGGGTGTTGCATCAGTGACAGATGACATCTACAAAAAGTTAGCAA
582 CTAGCTTCACCAAACTCCATTGGGTGTTGCATCAGTGACAGATGACATCTACAAAAAGTTCGTAA
* *
7581813 TTAATGACGCCCGCAAAAGGTTACAAAATATTGAAGTGATATCTATTAACCAATGGCAACCCTTG
647 TTAATGACGTCCGCAAAAGGTTACAAAATATTGAAGTGATATCTACTAACCAATGGCAACCCTTG
* *
7581878 TAAATAA
712 CAAATGA
* *
7581885 ACATAATCTTGTTCTTTGTCCAAACAGAAGAATAACTCACGTGCTTTGTTTGCAGGGACTACGAG
1 ACATAATCTTGTTTTTTGTCCAAACAGAAGAATAACTCACGTGCTTTGTGTGCAGGGACTACGAG
* * * *
7581950 AACAAATGAGAAAAAGGCATCCTACTAACTTCAACAAACTTCATTGGGTGTCGCATTAGTGATTT
66 AACAAATGAGAAAAAGACATCCTACTAGCTTCACCAAACTTCATTGGGTGTTGCATTAGTGATTT
* *
7582015 ATGACATCCACAAAAAAGTTCGTAACTAATGACGCCCACAAAAGGTCACAAAATATTGAAGTGAT
131 GTGACATCCACAAAAAAGTTCGTAACTAATGACGTCCACAAAAGGTCACAAAATATTGAAGTGAT
* *
7582080 ATTTACCAACCAATCGCAACCTTTGCCAAAAAGATCTCAATAATAGCATAAAGTGCACCAAGATC
196 ATTTACCGACCAATCGCAACCTTTGCCAAAGAGATCTCAATAATAGCATAAAGTGCACCAAGATC
* **
7582145 TAGAATACCATCCAATTGGTCATAGTTGATGATTATTCTATGTATTTATGCGTGTTTCAATTTTG
261 TAGAATACCATCCAATTGGTCATAGTTGATGATTATTCTATGTATTTATGCATGTTTCGCTTTTG
* * **
7582210 ACTTTTATTATCTCTTGTTCGTACAAAAAACACAAATTCCAACTGTAAGAACCTACAATATTGTT
326 ACTTTTATTATCTCTTGTTCGTACAAAAAACACAAATTCCAACTGTAACAACCTGCGTTATTGTT
* *
7582275 GGAACTAAAAAAAGATATATCAATTTAAAGAAGAAAAAATGATTATCGACAAATGGCACCACTTC
391 GGAACTAAAAAAAGATATATAAATTTAAAGAAGAAAAAATGATTATCGACAAATGGCACCACCTC
* * * * *
7582340 TTACCAAGGAGGTTTCAATAATAACGTAGCGCCAAACTAGAATCACATAAGC-TTTTTTTGCCAA
456 TTACCAAAGAGGTTTCAATAATAGCGTAACGCCCAACTAGAATCACATAAGCTTTTTTTTGCTAA
*
7582404 CGTAAGAATATCTCACATGCTGTGTGTGCAGAGACTATAAGAACAAATAAAGGACATATTATTAG
521 CGTAAGAATATCTCACATGCTGTGTGTGCAGAGACTATAAGAACAAATAAAGGACATATTACTAG
* * * * *
7582469 CTTCACCAAACTCCATCGGGTGTTCCATAAGCGACAGGTGACATCTACAAAAAGTTCGTAATTAA
586 CTTCACCAAACTCCATTGGGTGTTGCATCAGTGACAGATGACATCTACAAAAAGTTCGTAATTAA
* * *
7582534 TGATGTCCGTAAAAGGTTACAAAATATTGAAGTGATATCTACTAACCAATGGCAACCCTTTCAAA
651 TGACGTCCGCAAAAGGTTACAAAATATTGAAGTGATATCTACTAACCAATGGCAACCCTTGCAAA
7582599 TGA
716 TGA
* * *
7582602 ACATAATCTTGATTTTTGTCCAAATAGAAGAATAACTCACGTGCTTTGCGTGCAGGGACTACGAG
1 ACATAATCTTGTTTTTTGTCCAAACAGAAGAATAACTCACGTGCTTTGTGTGCAGGGACTACGAG
* *
7582667 AACAAATGAGAAAAAAACATCCTACTAGCTTCACCAAACTTCATTAGGTGTTGCATTAGTGATTT
66 AACAAATGAGAAAAAGACATCCTACTAGCTTCACCAAACTTCATTGGGTGTTGCATTAGTGATTT
* * * * *
7582732 GTGACATCCACAAAAAAGTTCATAACTAATGACTTTCAAAAAAGGTCACAAAATATTGAACTGAT
131 GTGACATCCACAAAAAAGTTCGTAACTAATGACGTCCACAAAAGGTCACAAAATATTGAAGTGAT
* ** *
7582797 ATTTATCGACCAATTACAACCTTTGCCAAAGAGATCTCAATAATAACATAAAGTGCACCAAGATC
196 ATTTACCGACCAATCGCAACCTTTGCCAAAGAGATCTCAATAATAGCATAAAGTGCACCAAGATC
* *
7582862 TAGAATACCATTCAATTGATCATAGTTGATGATTATTCTATGTATTTATGCATGTTTCGC-TTTG
261 TAGAATACCATCCAATTGGTCATAGTTGATGATTATTCTATGTATTTATGCATGTTTCGCTTTTG
* * *
7582926 AACTTTTATTATCTCTTGTTCGTACAAAAAACACAAATTCTAATTGTAACAACTTGCGTTATTGT
326 -ACTTTTATTATCTCTTGTTCGTACAAAAAACACAAATTCCAACTGTAACAACCTGCGTTATTGT
*
7582991 TGGAACTAGAAAAAGATATATAAATTT-AAGAAAGAAAAAATGATTATCGACAAATGGCACCACC
390 TGGAACTAAAAAAAGATATATAAATTTAAAG-AAGAAAAAATGATTATCGACAAATGGCACCACC
* * *
7583055 TCCTACCAAAGAGGTTTCAATAATAGCATAATGCCCAACTAGAATCAC--AAGCTTTTTTTTTTG
454 TCTTACCAAAGAGGTTTCAATAATAGCGTAACGCCCAACTAGAATCACATAAGC--TTTTTTTTG
* * * * *
7583118 CTAACATAAAAATATCTCACATGCTGTGTGTGCAGAGATTATGAGAACAAATAAATGACATATTA
517 CTAACGTAAGAATATCTCACATGCTGTGTGTGCAGAGACTATAAGAACAAATAAAGGACATATTA
* * * *
7583183 TTAGCTTCACCAAACTCCATTGGGTGTTGCATCAGTGAGAGATGACATCTACAAAGAGTTTGTAA
582 CTAGCTTCACCAAACTCCATTGGGTGTTGCATCAGTGACAGATGACATCTACAAAAAGTTCGTAA
* *
7583248 TTAATGAAGTTCGCAAAAGGTTACAAAATATTGAAGTGATATCTACTAACCAATGGCAACCCTTG
647 TTAATGACGTCCGCAAAAGGTTACAAAATATTGAAGTGATATCTACTAACCAATGGCAACCCTTG
7583313 CAAATGA
712 CAAATGA
** * *
7583320 ACATAATCTTGTTTTTTGTCCAAACAGAAGAATAACTCATATGCTTCT-TGTGTAGGGACTGCGA
1 ACATAATCTTGTTTTTTGTCCAAACAGAAGAATAACTCACGTGCTT-TGTGTGCAGGGACTACGA
7583384 GAACAAATGAGAAAAAGACATCCTACTAGCTTCACCAAACTTCATTGGGTGTTGCATTAGTGATT
65 GAACAAATGAGAAAAAGACATCCTACTAGCTTCACCAAACTTCATTGGGTGTTGCATTAGTGATT
* * *
7583449 TGTGACATTCAAAAAAAAGTTCGTAACTAATGACGTCCATAAAAGGTCACAAAATA-TGAAGTGA
130 TGTGACATCCACAAAAAAGTTCGTAACTAATGACGTCCACAAAAGGTCACAAAATATTGAAGTGA
* *
7583513 TATTTACCGACCAATTGTAACCTTTGCCAAAGAGATCTCAATAATAGCATAAAGTGCACCAAGAT
195 TATTTACCGACCAATCGCAACCTTTGCCAAAGAGATCTCAATAATAGCATAAAGTGCACCAAGAT
*
7583578 CTAGAATACCA-CTCAATTGGTCATAGTTGATGATTATTCTATGTATTTATGTATGTTTCGCTTT
260 CTAGAATACCATC-CAATTGGTCATAGTTGATGATTATTCTATGTATTTATGCATGTTTCGCTTT
* * * * * *
7583642 GGACTTTTATTATCTCTTATTCGTACAAAAAACACAAATTCTAATTATAACAACCCGCGTTATTG
324 TGACTTTTATTATCTCTTGTTCGTACAAAAAACACAAATTCCAACTGTAACAACCTGCGTTATTG
* *
7583707 TTGGAACTAGAAAAAGATATATAAATTTAAGGAAGAAAAAATTG-TTATCGACAAATGGCACCAC
389 TTGGAACTAAAAAAAGATATATAAATTTAAAGAAGAAAAAA-TGATTATCGACAAATGGCACCAC
* * *
7583771 CTCTTACCAAAGAGGTTTCAATAATAGTGTAGCGCCCAACTAAAATCACATAAGCTTTTTTTTGC
453 CTCTTACCAAAGAGGTTTCAATAATAGCGTAACGCCCAACTAGAATCACATAAGCTTTTTTTTGC
* * *
7583836 TAACGTAAGAATATCTCACGTGCTGTGTGTGCAGAGACTATAAAAACAAATAAAGGACATGTTAC
518 TAACGTAAGAATATCTCACATGCTGTGTGTGCAGAGACTATAAGAACAAATAAAGGACATATTAC
* * * * *
7583901 TAGCTTCACCAATCTCCATTGGGTGTTGCATCAGTGACTGATGACATATAC--AAA-TTCATACT
583 TAGCTTCACCAAACTCCATTGGGTGTTGCATCAGTGACAGATGACATCTACAAAAAGTTCGTAAT
* ** *
7583963 TAATGACGTTCGCAAAATATTACAAAATATTGAAGTGATATCTACTAACCAATGACAACCCTTGC
648 TAATGACGTCCGCAAAAGGTTACAAAATATTGAAGTGATATCTACTAACCAATGGCAACCCTTGC
7584028 AAATGA
713 AAATGA
* * *
7584034 ACATAATCTTGTTTTTTGTTCAAACAGAAGAATAATTCACGTGCTTTGTTTGCAGGGACTACGAG
1 ACATAATCTTGTTTTTTGTCCAAACAGAAGAATAACTCACGTGCTTTGTGTGCAGGGACTACGAG
* *
7584099 AACAAATGAGAAAAAGACATCCTACCAGCTTCACCAAACTTCATTGGGTGTTACATTAGTGATTT
66 AACAAATGAGAAAAAGACATCCTACTAGCTTCACCAAACTTCATTGGGTGTTGCATTAGTGATTT
* *
7584164 GTGACATCCACAAAAAAGTTCATAACTAATGACGTCCACAAAAGGTCTCAATAATA
131 GTGACATCCACAAAAAAGTTCGTAACTAATGACGTCCACAAAAGGTCACAA-AATA
7584220 GCATAAACTG
Statistics
Matches: 2110, Mismatches: 207, Indels: 39
0.90 0.09 0.02
Matches are distributed among these distances:
713 1 0.00
714 237 0.11
715 10 0.00
716 7 0.00
717 1031 0.49
718 431 0.20
719 5 0.00
722 388 0.18
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (718 bp):
ACATAATCTTGTTTTTTGTCCAAACAGAAGAATAACTCACGTGCTTTGTGTGCAGGGACTACGAG
AACAAATGAGAAAAAGACATCCTACTAGCTTCACCAAACTTCATTGGGTGTTGCATTAGTGATTT
GTGACATCCACAAAAAAGTTCGTAACTAATGACGTCCACAAAAGGTCACAAAATATTGAAGTGAT
ATTTACCGACCAATCGCAACCTTTGCCAAAGAGATCTCAATAATAGCATAAAGTGCACCAAGATC
TAGAATACCATCCAATTGGTCATAGTTGATGATTATTCTATGTATTTATGCATGTTTCGCTTTTG
ACTTTTATTATCTCTTGTTCGTACAAAAAACACAAATTCCAACTGTAACAACCTGCGTTATTGTT
GGAACTAAAAAAAGATATATAAATTTAAAGAAGAAAAAATGATTATCGACAAATGGCACCACCTC
TTACCAAAGAGGTTTCAATAATAGCGTAACGCCCAACTAGAATCACATAAGCTTTTTTTTGCTAA
CGTAAGAATATCTCACATGCTGTGTGTGCAGAGACTATAAGAACAAATAAAGGACATATTACTAG
CTTCACCAAACTCCATTGGGTGTTGCATCAGTGACAGATGACATCTACAAAAAGTTCGTAATTAA
TGACGTCCGCAAAAGGTTACAAAATATTGAAGTGATATCTACTAACCAATGGCAACCCTTGCAAA
TGA
Found at i:7586473 original size:29 final size:29
Alignment explanation
Indices: 7586405--7586473 Score: 68
Period size: 29 Copynumber: 2.4 Consensus size: 29
7586395 TTTATTACAC
* * *
7586405 AAATTTTTTAACTCACATATAAATTGATA
1 AAATTATTTAACTCACATACAAATTAATA
* * *
7586434 ATATGAATTAACTCCACA-ACAAATTAATA
1 AAATTATTTAACT-CACATACAAATTAATA
7586463 AAATTATTTAA
1 AAATTATTTAA
7586474 ATTTTTAATA
Statistics
Matches: 30, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
29 26 0.87
30 4 0.13
ACGTcount: A:0.49, C:0.12, G:0.03, T:0.36
Consensus pattern (29 bp):
AAATTATTTAACTCACATACAAATTAATA
Found at i:7589433 original size:18 final size:18
Alignment explanation
Indices: 7589406--7589443 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
7589396 TATATTGCAT
*
7589406 GCAACTATGTAGTAGGAA
1 GCAACAATGTAGTAGGAA
*
7589424 GCAACAATGTATTAGGAA
1 GCAACAATGTAGTAGGAA
7589442 GC
1 GC
7589444 TACTAAGTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.13, G:0.26, T:0.21
Consensus pattern (18 bp):
GCAACAATGTAGTAGGAA
Found at i:7590414 original size:47 final size:47
Alignment explanation
Indices: 7590345--7590599 Score: 236
Period size: 47 Copynumber: 5.5 Consensus size: 47
7590335 ATATTCCAAG
* * *
7590345 AAAACTTCAATATGTTTCAAGACAGACAAAGAAATAATAAATTATTT
1 AAAACCTCAAAATGTTTCAAGACAGACAAAGAAATAATAAATTATTA
*
7590392 AAAACC-CAAAAATGTTTCAAGACAAACAAA-AAGATAATAAATTATTA
1 AAAACCTC-AAAATGTTTCAAGACAGACAAAGAA-ATAATAAATTATTA
* * * * *
7590439 AAAAACTCAAACTGTTTC---A-AGATAAACAAATAGTAAATTA-TA
1 AAAACCTCAAAATGTTTCAAGACAGACAAAGAAATAATAAATTATTA
* * ** *
7590481 AAAACCTCAAAATCTCTCAAGACATCCAAAGAGATAATAAATTATTA
1 AAAACCTCAAAATGTTTCAAGACAGACAAAGAAATAATAAATTATTA
* ** * *
7590528 AAAACCTCAAAATGTTTCAAAATTGACAAAGAGATAGTAAATTATTATTA
1 AAAACCTCAAAATGTTTCAAGACAGACAAAGAAATAAT-AA--ATTATTA
*
7590578 AAAACCTCAAAATATTTCAAGA
1 AAAACCTCAAAATGTTTCAAGA
7590600 TAACCTCAAA
Statistics
Matches: 167, Mismatches: 29, Indels: 21
0.77 0.13 0.10
Matches are distributed among these distances:
42 16 0.10
43 15 0.09
44 3 0.02
45 1 0.01
46 18 0.11
47 84 0.50
48 3 0.02
50 27 0.16
ACGTcount: A:0.53, C:0.13, G:0.07, T:0.26
Consensus pattern (47 bp):
AAAACCTCAAAATGTTTCAAGACAGACAAAGAAATAATAAATTATTA
Found at i:7590460 original size:115 final size:116
Alignment explanation
Indices: 7590256--7590465 Score: 273
Period size: 115 Copynumber: 1.8 Consensus size: 116
7590246 CATAAACAAT
* * * * * *
7590256 CAAAGAGATAGTAAATTATTAAAAACCTCAAAATATTTCAAGATAACCGAAGAGATAATAAATTA
1 CAAAGAAATAATAAATTATTAAAAACCTCAAAATATTTCAAGACAAACAAAAAGATAATAAATTA
* *
7590321 TTAAATACCTCACAATATTCCAAGA-AAACTTCAATATGTTTCAAGACAGA
66 TTAAAAAACTCACAATATTCCAAGATAAACTTCAATATGTTTCAAGACAGA
* *
7590371 CAAAGAAATAATAAATTATTTAAAACC-CAAAAATGTTTCAAGACAAACAAAAAGATAATAAATT
1 CAAAGAAATAATAAATTATTAAAAACCTC-AAAATATTTCAAGACAAACAAAAAGATAATAAATT
* *
7590435 ATTAAAAAACTCA-AACTGTTTCAAGATAAAC
65 ATTAAAAAACTCACAA-TATTCCAAGATAAAC
7590466 AAATAGTAAA
Statistics
Matches: 80, Mismatches: 12, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
114 3 0.04
115 73 0.91
116 4 0.05
ACGTcount: A:0.53, C:0.14, G:0.08, T:0.25
Consensus pattern (116 bp):
CAAAGAAATAATAAATTATTAAAAACCTCAAAATATTTCAAGACAAACAAAAAGATAATAAATTA
TTAAAAAACTCACAATATTCCAAGATAAACTTCAATATGTTTCAAGACAGA
Found at i:7590503 original size:89 final size:90
Alignment explanation
Indices: 7590376--7590547 Score: 240
Period size: 89 Copynumber: 1.9 Consensus size: 90
7590366 ACAGACAAAG
* * *
7590376 AAATAATAAATTATTTAAAACCCAAAAATGTTTCAAGACAAACAAAAAGATAATAAATTATTAAA
1 AAATAATAAATTATTAAAAACCCAAAAATCTCTCAAGACAAACAAAAAGATAATAAATTATTAAA
*
7590441 AAACTCAAACTGTTTCAAGATAAAC
66 AAACTCAAAATGTTTCAAGATAAAC
* ** *
7590466 AAATAGTAAATTA-TAAAAACCTC-AAAATCTCTCAAGACATCCAAAGAGATAATAAATTATTAA
1 AAATAATAAATTATTAAAAACC-CAAAAATCTCTCAAGACAAACAAAAAGATAATAAATTATTAA
*
7590529 AAACCTCAAAATGTTTCAA
65 AAAACTCAAAATGTTTCAA
7590548 AATTGACAAA
Statistics
Matches: 72, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
89 59 0.82
90 13 0.18
ACGTcount: A:0.55, C:0.14, G:0.06, T:0.26
Consensus pattern (90 bp):
AAATAATAAATTATTAAAAACCCAAAAATCTCTCAAGACAAACAAAAAGATAATAAATTATTAAA
AAACTCAAAATGTTTCAAGATAAAC
Found at i:7590604 original size:21 final size:21
Alignment explanation
Indices: 7590580--7590620 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
7590570 TATTATTAAA
*
7590580 AACCTCAAAATATTTCAAGAT
1 AACCTCAAAAAATTTCAAGAT
*
7590601 AACCTCAAAAAATTTTAAGA
1 AACCTCAAAAAATTTCAAGA
7590621 CAGGTAAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.51, C:0.17, G:0.05, T:0.27
Consensus pattern (21 bp):
AACCTCAAAAAATTTCAAGAT
Found at i:7590865 original size:191 final size:192
Alignment explanation
Indices: 7590506--7591049 Score: 593
Period size: 191 Copynumber: 2.8 Consensus size: 192
7590496 CTCAAGACAT
* * * * **
7590506 CCAAAGAGATAATAAATTATTAAAAACCTCAAAATGTTTCAAAATTGA-CAAAGAGATAGTAAAT
1 CCAAAGAGATAGTAAACTATTAAAAACCTCAAAATGATTCAAGA-CAACCAAAGAGATAGT--A-
* * * * *
7590570 TATTATTAAAAACCTCAAAATATTTCAAGATAA-CCTCAAAAAATTTTAAGACAGGTAAAGAGAT
62 TATTATTAAAAACTTCAAAATATTTCAAGA-AATCCTCAAAATATTTCAAGATAGATAAAGAGAT
* * * * * * *
7590634 AGTATATTACTCAAAATCTCGAAATGTTTCAAGGCAAACAAAGAGATAGTAAATTATTCCAAGAT
126 AATAAATTATTTAAAACCTCAAAATGTTTCAAGACAAACAAAGAGATAGTAAATTATTCCAAGAT
7590699 AG
191 AG
* * * *
7590701 CCAAGGAGATGGTAAACTATTAAAGACCTCAAAAT-CTCTCAAGACAACCAAAGAGATAGTATAT
1 CCAAAGAGATAGTAAACTATTAAAAACCTCAAAATGAT-TCAAGACAACCAAAGAGATAGTATAT
* *
7590765 TATTAAAAA-TTCAAAATATTTCAAGAAATCCGT-AAAATATTTCAAGATAGACAAAGAGATATT
65 TATTAAAAACTTCAAAATATTTCAAGAAATCC-TCAAAATATTTCAAGATAGATAAAGAGATAAT
* *
7590828 AAATTATTTAAAACCTCAAAATATTTCAAGACAAACAAAGAGATGGTAAATTATTCCAAGATAG
129 AAATTATTTAAAACCTCAAAATGTTTCAAGACAAACAAAGAGATAGTAAATTATTCCAAGATAG
* * * * * * *
7590892 TCAAAGAGATAGTAAATTGTTAAAAACCTCAAAATGATTCAGGGCAACCAAAGAAATAGTAAATT
1 CCAAAGAGATAGTAAACTATTAAAAACCTCAAAATGATTCAAGACAACCAAAGAGATAGTATATT
** *
7590957 ATTAAAAAACTTCAAAATACCTCAAGAAAAT-CTCAAAATATATCAAG-TCAGATTAAA-AGATA
66 ATT-AAAAACTTCAAAATATTTCAAG-AAATCCTCAAAATATTTCAAGAT-AGA-TAAAGAGATA
7591019 ATAAATTATTTAAAATCCT-AAAATGTTTCAA
127 ATAAATTATTTAAAA-CCTCAAAATGTTTCAA
7591050 ACCAAGGATC
Statistics
Matches: 296, Mismatches: 41, Indels: 26
0.82 0.11 0.07
Matches are distributed among these distances:
190 2 0.01
191 153 0.52
192 21 0.07
193 61 0.21
194 12 0.04
195 47 0.16
ACGTcount: A:0.50, C:0.13, G:0.11, T:0.26
Consensus pattern (192 bp):
CCAAAGAGATAGTAAACTATTAAAAACCTCAAAATGATTCAAGACAACCAAAGAGATAGTATATT
ATTAAAAACTTCAAAATATTTCAAGAAATCCTCAAAATATTTCAAGATAGATAAAGAGATAATAA
ATTATTTAAAACCTCAAAATGTTTCAAGACAAACAAAGAGATAGTAAATTATTCCAAGATAG
Found at i:7590888 original size:30 final size:30
Alignment explanation
Indices: 7590849--7590909 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
7590839 AACCTCAAAA
* *
7590849 TATTTCAAGACAAACAAAGAGATGGTAAAT
1 TATTCCAAGACAAACAAAGAGATAGTAAAT
* **
7590879 TATTCCAAGATAGTCAAAGAGATAGTAAAT
1 TATTCCAAGACAAACAAAGAGATAGTAAAT
7590909 T
1 T
7590910 GTTAAAAACC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.48, C:0.10, G:0.16, T:0.26
Consensus pattern (30 bp):
TATTCCAAGACAAACAAAGAGATAGTAAAT
Found at i:7590923 original size:77 final size:77
Alignment explanation
Indices: 7590787--7590959 Score: 213
Period size: 77 Copynumber: 2.2 Consensus size: 77
7590777 AAAATATTTC
* * * * *
7590787 AAGAAATCCGTAAAATATTTCAAGATAGACAAAGAGATATTAAATTATTTAAAACCTCAAAAT-A
1 AAGAAAT-AGTAAATTATTCCAAGATAGACAAAGAGATAGTAAATTATTAAAAACCTCAAAATGA
7590851 TTTCAAGACAAACA
65 -TTCAAGACAAACA
* * * *
7590865 AAGAGATGGTAAATTATTCCAAGATAGTCAAAGAGATAGTAAATTGTTAAAAACCTCAAAATGAT
1 AAGAAATAGTAAATTATTCCAAGATAGACAAAGAGATAGTAAATTATTAAAAACCTCAAAATGAT
* * *
7590930 TCAGGGCAACCA
66 TCAAGACAAACA
7590942 AAGAAATAGTAAATTATT
1 AAGAAATAGTAAATTATT
7590960 AAAAAACTTC
Statistics
Matches: 81, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
77 74 0.91
78 7 0.09
ACGTcount: A:0.50, C:0.12, G:0.13, T:0.25
Consensus pattern (77 bp):
AAGAAATAGTAAATTATTCCAAGATAGACAAAGAGATAGTAAATTATTAAAAACCTCAAAATGAT
TCAAGACAAACA
Found at i:7605423 original size:33 final size:34
Alignment explanation
Indices: 7605384--7605455 Score: 85
Period size: 34 Copynumber: 2.1 Consensus size: 34
7605374 AATATAAATG
* * *
7605384 TAAAAAA-GTATATAAAAATT-ATATTTAAAAAAA
1 TAAAAAATGTA-AAAAAAATTAAAATCTAAAAAAA
*
7605417 TAAAAAATGTAAAAAAAATTAAAATCTAAAAAAG
1 TAAAAAATGTAAAAAAAATTAAAATCTAAAAAAA
7605451 TAAAA
1 TAAAA
7605456 TTCAAAAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
33 15 0.45
34 18 0.55
ACGTcount: A:0.69, C:0.01, G:0.04, T:0.25
Consensus pattern (34 bp):
TAAAAAATGTAAAAAAAATTAAAATCTAAAAAAA
Found at i:7605431 original size:17 final size:17
Alignment explanation
Indices: 7605409--7605455 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
7605399 AAATTATATT
*
7605409 TAAAAAAATAAAAAATG
1 TAAAAAAATAAAAAATC
*
7605426 TAAAAAAA-ATTAAAATC
1 TAAAAAAATA-AAAAATC
*
7605443 TAAAAAAGTAAAA
1 TAAAAAAATAAAA
7605456 TTCAAAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
16 1 0.04
17 22 0.92
18 1 0.04
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.19
Consensus pattern (17 bp):
TAAAAAAATAAAAAATC
Found at i:7605433 original size:18 final size:17
Alignment explanation
Indices: 7605410--7605449 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
7605400 AATTATATTT
*
7605410 AAAAAAATAAAAAATGTA
1 AAAAAAAT-AAAAATCTA
*
7605428 AAAAAAATTAAAATCTA
1 AAAAAAATAAAAATCTA
7605445 AAAAA
1 AAAAA
7605450 GTAAAATTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.17
Consensus pattern (17 bp):
AAAAAAATAAAAATCTA
Found at i:7605448 original size:32 final size:32
Alignment explanation
Indices: 7605419--7605482 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
7605409 TAAAAAAATA
7605419 AAAAATGT-AAAAAAAATTAAAATCTAAAAAAG
1 AAAAAT-TCAAAAAAAATTAAAATCTAAAAAAG
* * *
7605451 TAAAATTCAAAAAATATTAAAATTTATAAAAA
1 AAAAATTCAAAAAAAATTAAAATCTA-AAAAA
7605483 TTTAAAAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
31 1 0.04
32 21 0.78
33 5 0.19
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.25
Consensus pattern (32 bp):
AAAAATTCAAAAAAAATTAAAATCTAAAAAAG
Found at i:7605487 original size:17 final size:16
Alignment explanation
Indices: 7605428--7605489 Score: 63
Period size: 17 Copynumber: 3.8 Consensus size: 16
7605418 AAAAAATGTA
* *
7605428 AAAAAAATTAAAATCT
1 AAAAAATTTAAAATTT
* *
7605444 AAAAAA-GTAAAATTC
1 AAAAAATTTAAAATTT
7605459 AAAAAATATTAAAATTT
1 AAAAAAT-TTAAAATTT
7605476 ATAAAAATTTAAAA
1 A-AAAAATTTAAAA
7605490 GAAATAAAGA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
15 12 0.32
16 6 0.16
17 14 0.37
18 6 0.16
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.27
Consensus pattern (16 bp):
AAAAAATTTAAAATTT
Found at i:7605591 original size:13 final size:13
Alignment explanation
Indices: 7605573--7605608 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
7605563 GCTATTAATG
7605573 AAATTTTCAAAAA
1 AAATTTTCAAAAA
*
7605586 AAATTTTGAAAAA
1 AAATTTTCAAAAA
*
7605599 AGATTTTCAA
1 AAATTTTCAA
7605609 TTTTAGAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.33
Consensus pattern (13 bp):
AAATTTTCAAAAA
Found at i:7627613 original size:10 final size:10
Alignment explanation
Indices: 7627584--7627625 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
7627574 AATTTAATGT
7627584 ATTTTGTTTTA
1 ATTTT-TTTTA
7627595 ATTTATTTTTA
1 ATTT-TTTTTA
7627606 A-TTTTTTTA
1 ATTTTTTTTA
*
7627615 ATATTTTTTA
1 ATTTTTTTTA
7627625 A
1 A
7627626 AACACATGAC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
9 7 0.25
10 10 0.36
11 10 0.36
12 1 0.04
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.71
Consensus pattern (10 bp):
ATTTTTTTTA
Found at i:7634152 original size:20 final size:18
Alignment explanation
Indices: 7634113--7634148 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
7634103 CCACCAAAAA
7634113 TAAAATATATATTTAAAT
1 TAAAATATATATTTAAAT
*
7634131 TAAACTATATATTTAAAT
1 TAAAATATATATTTAAAT
7634149 ATTATATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (18 bp):
TAAAATATATATTTAAAT
Found at i:7635402 original size:20 final size:18
Alignment explanation
Indices: 7635363--7635398 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
7635353 CCACCAAAAA
7635363 TAAAATATATATTTAAAT
1 TAAAATATATATTTAAAT
*
7635381 TAAATTATATATTTAAAT
1 TAAAATATATATTTAAAT
7635399 ATTATATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TAAAATATATATTTAAAT
Found at i:7635781 original size:17 final size:16
Alignment explanation
Indices: 7635759--7635790 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
7635749 AGTAAAATTA
7635759 TTTTCAAATCTTTTTAT
1 TTTTCAAAT-TTTTTAT
7635776 TTTTCAAATTTTTTA
1 TTTTCAAATTTTTTA
7635791 GTATTTCTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.25, C:0.09, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTTCAAATTTTTTAT
Found at i:7635797 original size:17 final size:17
Alignment explanation
Indices: 7635756--7635797 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
7635746 AAAAGTAAAA
7635756 TTAT-TTTCAAATCTTT
1 TTATATTTCAAATCTTT
*
7635772 TTATTTTTCAAAT-TTT
1 TTATATTTCAAATCTTT
7635788 TTAGTATTTC
1 TTA-TATTTC
7635798 TATAATATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 10 0.43
17 13 0.57
ACGTcount: A:0.24, C:0.10, G:0.02, T:0.64
Consensus pattern (17 bp):
TTATATTTCAAATCTTT
Found at i:7636837 original size:13 final size:13
Alignment explanation
Indices: 7636821--7636845 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7636811 ATGAAATTGC
7636821 ATTAATAAATTTA
1 ATTAATAAATTTA
7636834 ATTAATAAATTT
1 ATTAATAAATTT
7636846 TATGATTTGA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTAATAAATTTA
Found at i:7639304 original size:28 final size:29
Alignment explanation
Indices: 7639239--7639312 Score: 73
Period size: 28 Copynumber: 2.5 Consensus size: 29
7639229 TGCCCATAGC
7639239 AATTT-TTTTTATGCATTATAATTATGTTAA
1 AATTTATTTTTAT--ATTATAATTATGTTAA
*
7639269 GATATTATTTTTATATT-TAA-TATGTTAA
1 AAT-TTATTTTTATATTATAATTATGTTAA
7639297 TAATTTATTTTATATA
1 -AATTTATTTT-TATA
7639313 ACATTTTAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
28 15 0.39
29 9 0.24
30 5 0.13
31 2 0.05
32 7 0.18
ACGTcount: A:0.35, C:0.01, G:0.05, T:0.58
Consensus pattern (29 bp):
AATTTATTTTTATATTATAATTATGTTAA
Found at i:7639968 original size:13 final size:13
Alignment explanation
Indices: 7639935--7639971 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
7639925 CAAAATAATT
7639935 TTTTC-AAAGCAC
1 TTTTCAAAAGCAC
*
7639947 TTTTTAAAAGCAC
1 TTTTCAAAAGCAC
7639960 TTTTCAAAAGCA
1 TTTTCAAAAGCA
7639972 ATGTTAAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 4 0.18
13 18 0.82
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.35
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:7640117 original size:17 final size:16
Alignment explanation
Indices: 7640082--7640127 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
7640072 TTGTAACAAG
* *
7640082 AATAATTACAAGTTCA
1 AATAATTATAAATTCA
7640098 AATAATTATAAATATCA
1 AATAATTATAAAT-TCA
*
7640115 AATTATTATAAAT
1 AATAATTATAAAT
7640128 GAATAATTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
16 11 0.42
17 15 0.58
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.37
Consensus pattern (16 bp):
AATAATTATAAATTCA
Found at i:7640392 original size:29 final size:30
Alignment explanation
Indices: 7640347--7640403 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
7640337 AATTAGTAAA
7640347 GATAAAATTATATTTTGA-CATTTAAAAAT
1 GATAAAATTATATTTTGATCATTTAAAAAT
* *
7640376 GATAAAATTTTGA-TTTGATCTTTTAAAA
1 GATAAAATTAT-ATTTTGATCATTTAAAA
7640404 TTTATAAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 15 0.62
30 9 0.38
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.44
Consensus pattern (30 bp):
GATAAAATTATATTTTGATCATTTAAAAAT
Found at i:7653534 original size:20 final size:19
Alignment explanation
Indices: 7653505--7653547 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
7653495 AAAACCTAGG
* *
7653505 TTTATTAGGGTTTTTGTTT
1 TTTATTAGGGTTTATGGTT
7653524 TTTACTTAGGGTTTATGGTT
1 TTTA-TTAGGGTTTATGGTT
7653544 TTTA
1 TTTA
7653548 GGTTTTGAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.14, C:0.02, G:0.21, T:0.63
Consensus pattern (19 bp):
TTTATTAGGGTTTATGGTT
Found at i:7653670 original size:28 final size:28
Alignment explanation
Indices: 7653635--7653719 Score: 145
Period size: 28 Copynumber: 3.1 Consensus size: 28
7653625 TTTTGAGTTC
*
7653635 ATGGTTTAATGTTTTAGTGTTTATGCTT
1 ATGGTTTAATGTTTTAGTGTTTATGTTT
*
7653663 ATTGTTTAATGTTTTAGTGTTTATGTTT
1 ATGGTTTAATGTTTTAGTGTTTATGTTT
7653691 ATGGTTTAAT-TTTTAGTGTTTATGTTT
1 ATGGTTTAATGTTTTAGTGTTTATGTTT
7653718 AT
1 AT
7653720 AGTGTTAGTG
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 19 0.35
28 35 0.65
ACGTcount: A:0.19, C:0.01, G:0.19, T:0.61
Consensus pattern (28 bp):
ATGGTTTAATGTTTTAGTGTTTATGTTT
Found at i:7653697 original size:21 final size:21
Alignment explanation
Indices: 7653665--7653732 Score: 77
Period size: 21 Copynumber: 3.2 Consensus size: 21
7653655 TTATGCTTAT
7653665 TGTTTAATGTTTTAGTGTTTA-
1 TGTTT-ATGTTTTAGTGTTTAG
* * *
7653686 TGTTTATGGTTTAATTTTTAG
1 TGTTTATGTTTTAGTGTTTAG
7653707 TGTTTATGTTTATAGTG-TTAG
1 TGTTTATGTTT-TAGTGTTTAG
7653728 TGTTT
1 TGTTT
7653733 CAACTTTCAA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
20 12 0.31
21 24 0.62
22 3 0.08
ACGTcount: A:0.18, C:0.00, G:0.21, T:0.62
Consensus pattern (21 bp):
TGTTTATGTTTTAGTGTTTAG
Found at i:7655048 original size:1 final size:1
Alignment explanation
Indices: 7655042--7655067 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
7655032 TATATATATA
7655042 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
7655068 GTTTACTTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:7660525 original size:206 final size:207
Alignment explanation
Indices: 7660162--7660575 Score: 758
Period size: 206 Copynumber: 2.0 Consensus size: 207
7660152 TTTTTTTTAA
7660162 TATAGACTCTATAAGGATTTCTATGTCTGAAACTTAAGGATCCTTTTTTTTTTTTTTACCCTTTC
1 TATAGACTCTATAAGGATTTCTATGTCTGAAACTTAAGGATCC---TTTTTTTTTTTACCCTTTC
7660227 TCTTATTTAATTTTTCCTGTCTTCCTTGAGTATTCATATCTGAAAGCAGCCACAAACTTAACCTC
63 TCTTATTTAATTTTTCCTGTCTTCCTTGAGTATTCATATCTGAAAGCAGCCACAAACTTAACCTC
*
7660292 CTAGTCCTAGATGTCCTACATCAGAAACATAGTAAAAAACATATATGATATGCATGGAGGTAACA
128 CTAGTCCTAGATGTCCTACATCAGAAACATAGTAAAAAACATATATGATATGCATAGAGGTAACA
7660357 AGGAAGGCAAAGAAG
193 AGGAAGGCAAAGAAG
*
7660372 TATATACTCTATAAGGATTTCTATGTCTGAAACTTAAGGATCC-TTTTTTTTTTACCCTTTCTCT
1 TATAGACTCTATAAGGATTTCTATGTCTGAAACTTAAGGATCCTTTTTTTTTTTACCCTTTCTCT
7660436 TATTTAATTTTTCCTGTCTTCCTTGAGTATTCATATCTGAAAGCAGCCACAAACTTAACCTCCTA
66 TATTTAATTTTTCCTGTCTTCCTTGAGTATTCATATCTGAAAGCAGCCACAAACTTAACCTCCTA
* *
7660501 GTCCTAGATGTCCTACATCAGAAACATAGTAAAAAACATATATGATATGCATAGTGGTAAGAAGG
131 GTCCTAGATGTCCTACATCAGAAACATAGTAAAAAACATATATGATATGCATAGAGGTAACAAGG
7660566 AAGGCAAAGA
196 AAGGCAAAGA
7660576 TAGTGATACA
Statistics
Matches: 200, Mismatches: 4, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
206 158 0.79
210 42 0.21
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (207 bp):
TATAGACTCTATAAGGATTTCTATGTCTGAAACTTAAGGATCCTTTTTTTTTTTACCCTTTCTCT
TATTTAATTTTTCCTGTCTTCCTTGAGTATTCATATCTGAAAGCAGCCACAAACTTAACCTCCTA
GTCCTAGATGTCCTACATCAGAAACATAGTAAAAAACATATATGATATGCATAGAGGTAACAAGG
AAGGCAAAGAAG
Found at i:7662964 original size:30 final size:31
Alignment explanation
Indices: 7662930--7662987 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
7662920 ATTTTTAAAT
*
7662930 TTTAAAATATTTATAT-ATTTTTATTTAATA
1 TTTAAAATATTTATATAAATTTTATTTAATA
* *
7662960 TTTAATATTTTTATATAAATTTTATTTA
1 TTTAAAATATTTATATAAATTTTATTTA
7662988 TTAATATTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 14 0.58
31 10 0.42
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (31 bp):
TTTAAAATATTTATATAAATTTTATTTAATA
Found at i:7662968 original size:14 final size:15
Alignment explanation
Indices: 7662935--7663003 Score: 58
Period size: 14 Copynumber: 4.9 Consensus size: 15
7662925 TAAATTTTAA
7662935 AATATTTATATATTT
1 AATATTTATATATTT
*
7662950 -TTATTTA-ATATTT
1 AATATTTATATATTT
* *
7662963 AATATTTTTATA-TA
1 AATATTTATATATTT
*
7662977 AAT-TTTATTTA-TT
1 AATATTTATATATTT
7662990 AATATTTCATATAT
1 AATATTT-ATATAT
7663004 AAGTATCTTG
Statistics
Matches: 41, Mismatches: 8, Indels: 9
0.71 0.14 0.16
Matches are distributed among these distances:
13 16 0.39
14 18 0.44
15 7 0.17
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (15 bp):
AATATTTATATATTT
Found at i:7662969 original size:20 final size:21
Alignment explanation
Indices: 7662935--7662981 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
7662925 TAAATTTTAA
7662935 AATATTTATATATTTTTATTT
1 AATATTTATATATTTTTATTT
*
7662956 AATATTTA-ATATTTTTATAT
1 AATATTTATATATTTTTATTT
7662976 AA-ATTT
1 AATATTT
7662982 TATTTATTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 4 0.16
20 13 0.52
21 8 0.32
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
AATATTTATATATTTTTATTT
Found at i:7662989 original size:21 final size:21
Alignment explanation
Indices: 7662934--7662989 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
7662924 TTAAATTTTA
7662934 AAATATTTATATATTTTTATT
1 AAATATTTATATATTTTTATT
*
7662955 TAATATTTA-ATATTTTTATAT
1 AAATATTTATATATTTTTAT-T
*
7662976 AAAT-TTTATTTATT
1 AAATATTTATATATT
7662990 AATATTTCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 14 0.47
21 16 0.53
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
AAATATTTATATATTTTTATT
Found at i:7663746 original size:29 final size:24
Alignment explanation
Indices: 7663694--7663756 Score: 81
Period size: 26 Copynumber: 2.5 Consensus size: 24
7663684 ATTAAGAATG
7663694 TTATTAAATTATATATTTTTATTA
1 TTATTAAATTATATATTTTTATTA
* *
7663718 TTATTAAATTATATTATATTTAATAA
1 TTATTAAATTATA-TAT-TTTTATTA
*
7663744 TTATTATATTATA
1 TTATTAAATTATA
7663757 ATTCAATGAG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 13 0.38
25 3 0.09
26 18 0.53
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (24 bp):
TTATTAAATTATATATTTTTATTA
Found at i:7664074 original size:28 final size:28
Alignment explanation
Indices: 7664033--7664098 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 28
7664023 TTTTTTATAA
* *
7664033 AAATAACCTCTTTTTTAATTAATTACGT
1 AAATAACCTATTTTTTAATTAAATACGT
* *
7664061 AAATAATCTATTTTTTTATTAAATACG-
1 AAATAACCTATTTTTTAATTAAATACGT
7664088 AATATAACCTA
1 AA-ATAACCTA
7664099 AAATCTACAG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 2 0.06
28 30 0.94
ACGTcount: A:0.41, C:0.12, G:0.03, T:0.44
Consensus pattern (28 bp):
AAATAACCTATTTTTTAATTAAATACGT
Found at i:7664362 original size:13 final size:13
Alignment explanation
Indices: 7664346--7664401 Score: 51
Period size: 13 Copynumber: 4.3 Consensus size: 13
7664336 TCTTTTTCTT
7664346 TTTTATTATTTAA
1 TTTTATTATTTAA
7664359 TTTTATTA-TTATA
1 TTTTATTATTTA-A
* **
7664372 TTTTATAATAAAA
1 TTTTATTATTTAA
* *
7664385 TATTAGTATTTAA
1 TTTTATTATTTAA
7664398 TTTT
1 TTTT
7664402 TAAACTTTAA
Statistics
Matches: 32, Mismatches: 9, Indels: 4
0.71 0.20 0.09
Matches are distributed among these distances:
12 3 0.09
13 28 0.88
14 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (13 bp):
TTTTATTATTTAA
Found at i:7665829 original size:23 final size:25
Alignment explanation
Indices: 7665802--7665848 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
7665792 AAATTCTAGC
*
7665802 TTTTT-AAATAAACATAAATATATA
1 TTTTTAAAATAAACAAAAATATATA
*
7665826 TTTTTAAAATAAATAAAAATATA
1 TTTTTAAAATAAACAAAAATATA
7665849 AAAATAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (25 bp):
TTTTTAAAATAAACAAAAATATATA
Found at i:7665852 original size:9 final size:9
Alignment explanation
Indices: 7665831--7665865 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
7665821 ATATATTTTT
7665831 AAAATAAATA
1 AAAAT-AATA
7665841 AAAAT-ATA
1 AAAATAATA
7665849 AAAATAATA
1 AAAATAATA
7665858 AAAATAAT
1 AAAATAAT
7665866 TTTTTTGACA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 8 0.33
9 11 0.46
10 5 0.21
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (9 bp):
AAAATAATA
Found at i:7669657 original size:41 final size:40
Alignment explanation
Indices: 7669609--7669709 Score: 100
Period size: 38 Copynumber: 2.6 Consensus size: 40
7669599 TCGACCTTGA
** *
7669609 GTCGATGAGACACTGGGTGTCATTATTTTACTTCGGATAG
1 GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
* ** *
7669649 ATTCGATGAGGTACT-GG-GT-ACCACTTTACTTCGGCTAG
1 -GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
*
7669687 GCCGATGAGACACTGGGTGTCAC
1 GTCGATGAGACACTGGGTGTCAC
7669710 TTTATTGCTT
Statistics
Matches: 46, Mismatches: 11, Indels: 7
0.72 0.17 0.11
Matches are distributed among these distances:
37 10 0.22
38 17 0.37
39 4 0.09
40 4 0.09
41 11 0.24
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (40 bp):
GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
Found at i:7677936 original size:26 final size:28
Alignment explanation
Indices: 7677876--7677936 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 28
7677866 TGGAGCCATT
* **
7677876 AAAAT-AAAATAATATTTTATAATTTTT
1 AAAATAAAAATAATATTTTAAAATTTAA
*
7677903 AAATTAAAAATAA-A-TTTAAAATTTAA
1 AAAATAAAAATAATATTTTAAAATTTAA
7677929 AAAATAAA
1 AAAATAAA
7677937 TAATGAACAA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 16 0.57
27 5 0.18
28 7 0.25
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (28 bp):
AAAATAAAAATAATATTTTAAAATTTAA
Found at i:7678021 original size:18 final size:18
Alignment explanation
Indices: 7677998--7678033 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
7677988 CCACTAAAAA
7677998 TAAAATATATATTTAAAT
1 TAAAATATATATTTAAAT
7678016 TAAAATATATATTTAAAT
1 TAAAATATATATTTAAAT
7678034 ATTATATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TAAAATATATATTTAAAT
Found at i:7678160 original size:13 final size:13
Alignment explanation
Indices: 7678144--7678169 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7678134 AAATATAAAT
7678144 AAAAATTATTTAA
1 AAAAATTATTTAA
7678157 AAAAATTATTTAA
1 AAAAATTATTTAA
7678170 TTCAAGTGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AAAAATTATTTAA
Found at i:7678250 original size:93 final size:94
Alignment explanation
Indices: 7678042--7678405 Score: 484
Period size: 94 Copynumber: 3.9 Consensus size: 94
7678032 ATATTATATA
* * **
7678042 ATAAATAAAAAATAATTTTAAAAAATTTATTTAATTAAAGTGGTGGCATCATCTAATATGACACC
1 ATAAAT-AAAAATTA-TTTAAAAAAATTATTTAATTAAAGTGGTGGCGCCATCTAATATGACACC
* *
7678107 ACTAAAAAATTTTTAAATTTATTTTAAAAAT
64 ACCAAAAAAATTTTAAATTTATTTTAAAAAT
* * * *
7678138 ATAAATAAAAATTATTTAAAAAAATTATTTAATTCAAGTGGTGGCGCTATTTAATATGGCACCAC
1 ATAAATAAAAATTATTTAAAAAAATTATTTAATTAAAGTGGTGGCGCCATCTAATATGACACCAC
7678203 CAAAAAAATTTTAAATTTATTTT-AAAAT
66 CAAAAAAATTTTAAATTTATTTTAAAAAT
* * * *
7678231 ATAAATAAAAATTATTTAAAAAAATTATTTAATTAAACG-GTTGGTGCCATTTAATATGACATCA
1 ATAAATAAAAATTATTTAAAAAAATTATTTAATTAAA-GTGGTGGCGCCATCTAATATGACACCA
* * *
7678295 CTAAAAAAAATTTAAAATTATTTTAAAAAT
65 CCAAAAAAATTTTAAATTTATTTTAAAAAT
* * * *
7678325 ATAAATAAAAAATAATTAAAAAATTTATTTAATTAAAGTGGTGGCGCCATCTAATATGACATCAC
1 ATAAATAAAAATTATTTAAAAAAATTATTTAATTAAAGTGGTGGCGCCATCTAATATGACACCAC
7678390 C-AAAAAA-TTTAAATTT
66 CAAAAAAATTTTAAATTT
7678406 TCAAAAAAAA
Statistics
Matches: 238, Mismatches: 27, Indels: 10
0.87 0.10 0.04
Matches are distributed among these distances:
92 8 0.03
93 89 0.37
94 128 0.54
95 7 0.03
96 6 0.03
ACGTcount: A:0.49, C:0.08, G:0.07, T:0.36
Consensus pattern (94 bp):
ATAAATAAAAATTATTTAAAAAAATTATTTAATTAAAGTGGTGGCGCCATCTAATATGACACCAC
CAAAAAAATTTTAAATTTATTTTAAAAAT
Found at i:7678255 original size:13 final size:13
Alignment explanation
Indices: 7678237--7678262 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7678227 AAATATAAAT
7678237 AAAAATTATTTAA
1 AAAAATTATTTAA
7678250 AAAAATTATTTAA
1 AAAAATTATTTAA
7678263 TTAAACGGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AAAAATTATTTAA
Found at i:7678263 original size:187 final size:186
Alignment explanation
Indices: 7678042--7678405 Score: 511
Period size: 187 Copynumber: 1.9 Consensus size: 186
7678032 ATATTATATA
*
7678042 ATAAATAAAAAATAATTTTAAAAAATTTATTTAATTAAA-G-TGGTGGCATCATCTAATATGACA
1 ATAAATAAAAAATAATTTTAAAAAAATTATTTAATTAAACGTTGGT-GC--CATCTAATATGACA
** * * *
7678105 CCACTAAAAAATTTTTAAATTTATTTTAAAAATATAAATAAAAATTATTTAAAAAAATTATTTAA
63 CCACTAAAAAAAATTTAAAATTATTTTAAAAATATAAATAAAAAATAATTAAAAAAATTATTTAA
* * * *
7678170 TTCAAGTGGTGGCGCTATTTAATATGGCACCACCAAAAAAATTTTAAATTTATTTTAAAAT
128 TTAAAGTGGTGGCGCCATCTAATATGACACCACC-AAAAAA-TTTAAATTTATTTTAAAAT
* * *
7678231 ATAAAT-AAAAATTA-TTTAAAAAAATTATTTAATTAAACGGTTGGTGCCATTTAATATGACATC
1 ATAAATAAAAAATAATTTTAAAAAAATTATTTAATTAAAC-GTTGGTGCCATCTAATATGACACC
*
7678294 ACTAAAAAAAATTTAAAATTATTTTAAAAATATAAATAAAAAATAATTAAAAAATTTATTTAATT
65 ACTAAAAAAAATTTAAAATTATTTTAAAAATATAAATAAAAAATAATTAAAAAAATTATTTAATT
*
7678359 AAAGTGGTGGCGCCATCTAATATGACATCACCAAAAAATTTAAATTT
130 AAAGTGGTGGCGCCATCTAATATGACACCACCAAAAAATTTAAATTT
7678406 TCAAAAAAAA
Statistics
Matches: 157, Mismatches: 15, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
185 9 0.06
186 6 0.04
187 122 0.78
188 7 0.04
189 9 0.06
190 4 0.03
ACGTcount: A:0.49, C:0.08, G:0.07, T:0.36
Consensus pattern (186 bp):
ATAAATAAAAAATAATTTTAAAAAAATTATTTAATTAAACGTTGGTGCCATCTAATATGACACCA
CTAAAAAAAATTTAAAATTATTTTAAAAATATAAATAAAAAATAATTAAAAAAATTATTTAATTA
AAGTGGTGGCGCCATCTAATATGACACCACCAAAAAATTTAAATTTATTTTAAAAT
Found at i:7678711 original size:29 final size:29
Alignment explanation
Indices: 7678668--7678725 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
7678658 CTATAGATTT
*
7678668 TAAGTTAATTTCATATTTAATAAAAAAAA
1 TAAGTTAATTTCATAATTAATAAAAAAAA
*
7678697 TAAGTT-ATTTACATAATTAATTAAAAAAA
1 TAAGTTAATTT-CATAATTAATAAAAAAAA
7678726 GGGTTTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 4 0.15
29 22 0.85
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.38
Consensus pattern (29 bp):
TAAGTTAATTTCATAATTAATAAAAAAAA
Found at i:7684090 original size:19 final size:19
Alignment explanation
Indices: 7684052--7684092 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
7684042 ATTTGATTTT
* * *
7684052 TGTTAAAAATAAGGTGAAA
1 TGTTAAAAAAAAGATAAAA
7684071 TGTTAAAAAAAAGATAAAA
1 TGTTAAAAAAAAGATAAAA
7684090 TGT
1 TGT
7684093 AGAATTTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.17, T:0.27
Consensus pattern (19 bp):
TGTTAAAAAAAAGATAAAA
Found at i:7684152 original size:13 final size:12
Alignment explanation
Indices: 7684136--7684201 Score: 50
Period size: 11 Copynumber: 5.6 Consensus size: 12
7684126 TATTAAGCAA
7684136 TTTAATTATATT
1 TTTAATTATATT
7684148 CTTTAATTA-ATT
1 -TTTAATTATATT
*
7684160 TTTAATAATA-T
1 TTTAATTATATT
* *
7684171 GTTAAATA-ATT
1 TTTAATTATATT
7684182 TTATAACTTA-ATT
1 TT-TAA-TTATATT
7684195 TTTAATT
1 TTTAATT
7684202 TTTAATATTT
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
10 1 0.02
11 17 0.40
12 10 0.23
13 15 0.35
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.58
Consensus pattern (12 bp):
TTTAATTATATT
Found at i:7684201 original size:7 final size:7
Alignment explanation
Indices: 7684189--7684247 Score: 73
Period size: 7 Copynumber: 8.3 Consensus size: 7
7684179 ATTTTATAAC
7684189 TTAATTT
1 TTAATTT
7684196 TTAATTT
1 TTAATTT
*
7684203 TTAATAT
1 TTAATTT
7684210 TTAATTTT
1 TTAA-TTT
*
7684218 TTAATTA
1 TTAATTT
7684225 TTAATTT
1 TTAATTT
**
7684232 TTAACAT
1 TTAATTT
7684239 TTAATTT
1 TTAATTT
7684246 TT
1 TT
7684248 CAGTTTATCA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
7 37 0.86
8 6 0.14
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (7 bp):
TTAATTT
Found at i:7684204 original size:21 final size:22
Alignment explanation
Indices: 7684187--7684229 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
7684177 TAATTTTATA
7684187 ACTTAA-TTTTTAATTTTTAAT
1 ACTTAATTTTTTAATTTTTAAT
* *
7684208 ATTTAATTTTTTAATTATTAAT
1 ACTTAATTTTTTAATTTTTAAT
7684230 TTTTAACATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (22 bp):
ACTTAATTTTTTAATTTTTAAT
Found at i:7684221 original size:29 final size:29
Alignment explanation
Indices: 7684189--7684247 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
7684179 ATTTTATAAC
* *
7684189 TTAATTTTTAATTTTTAATATTTAATTTT
1 TTAATTATTAATTTTTAACATTTAATTTT
7684218 TTAATTATTAATTTTTAACATTTAATTTT
1 TTAATTATTAATTTTTAACATTTAATTTT
7684247 T
1 T
7684248 CAGTTTATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (29 bp):
TTAATTATTAATTTTTAACATTTAATTTT
Found at i:7684421 original size:28 final size:28
Alignment explanation
Indices: 7684389--7684443 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
7684379 AATTCAAGAT
* *
7684389 ATAAAAAATGTAAGATATTTTTATATTA
1 ATAAAAAATGTAAAATATATTTATATTA
*
7684417 ATAAAAAGTGTAAAATATATTTATATT
1 ATAAAAAATGTAAAATATATTTATATT
7684444 TTATATTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (28 bp):
ATAAAAAATGTAAAATATATTTATATTA
Found at i:7693270 original size:7 final size:7
Alignment explanation
Indices: 7693254--7693286 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
7693244 GTGTTCTTAA
7693254 TTTTTG-
1 TTTTTGT
7693260 TTTTTGT
1 TTTTTGT
7693267 TTTTTGT
1 TTTTTGT
7693274 TTTTTGT
1 TTTTTGT
7693281 TTTTTG
1 TTTTTG
7693287 ACAGGAAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.23
7 20 0.77
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (7 bp):
TTTTTGT
Found at i:7704871 original size:54 final size:54
Alignment explanation
Indices: 7704768--7704874 Score: 126
Period size: 54 Copynumber: 2.0 Consensus size: 54
7704758 TTTTAATTTG
* * * *
7704768 ATTATATAGATTTAAATAAATAAATACATCGATTTAGTTTTATATTAATTTAAT
1 ATTATATAGATTTAAATAAACAAAAACATCGATTTAATTTTATAGTAATTTAAT
* * * *
7704822 ATTATATGGATTTAGATGAACAAAAACATCGATTTTAATTTTGT-GTAATTTAA
1 ATTATATAGATTTAAATAAACAAAAACATCGA-TTTAATTTTATAGTAATTTAA
7704875 CACATAAAAG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
54 35 0.80
55 9 0.20
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.44
Consensus pattern (54 bp):
ATTATATAGATTTAAATAAACAAAAACATCGATTTAATTTTATAGTAATTTAAT
Found at i:7706622 original size:19 final size:20
Alignment explanation
Indices: 7706598--7706640 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
7706588 TATTTTTAAA
* *
7706598 ATTTAAAATCAT-TAAAATT
1 ATTTAAAAACATATAAAAAT
7706617 ATTTAAAAACATATAAAAAT
1 ATTTAAAAACATATAAAAAT
7706637 ATTT
1 ATTT
7706641 TTTATACTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (20 bp):
ATTTAAAAACATATAAAAAT
Found at i:7709125 original size:12 final size:12
Alignment explanation
Indices: 7709108--7709132 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7709098 GAAATTAAAT
7709108 TATAATTTTTAA
1 TATAATTTTTAA
7709120 TATAATTTTTAA
1 TATAATTTTTAA
7709132 T
1 T
7709133 GGTGTAAATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TATAATTTTTAA
Found at i:7713552 original size:18 final size:18
Alignment explanation
Indices: 7713529--7713580 Score: 65
Period size: 18 Copynumber: 3.0 Consensus size: 18
7713519 TTTTCAGTTG
7713529 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAAATTATT
*
7713547 TAATTAATTAAATTTATT
1 TAATTAATTAAAATTATT
7713565 TAATTAA--AAAATTATT
1 TAATTAATTAAAATTATT
7713581 CTCACTCGCA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 8 0.26
17 7 0.23
18 16 0.52
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
TAATTAATTAAAATTATT
Found at i:7719726 original size:15 final size:16
Alignment explanation
Indices: 7719701--7719735 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
7719691 AATCTAATTC
*
7719701 ATTTGATATATTTAAT
1 ATTTGATATATTAAAT
7719717 ATTT-ATATATTAAAT
1 ATTTGATATATTAAAT
7719732 ATTT
1 ATTT
7719736 TTTAAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (16 bp):
ATTTGATATATTAAAT
Found at i:7722053 original size:17 final size:17
Alignment explanation
Indices: 7722033--7722066 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
7722023 TAATATTATT
7722033 AAGTTTTAATTCGGTTA
1 AAGTTTTAATTCGGTTA
7722050 AAGTTTTAATTCGGTTA
1 AAGTTTTAATTCGGTTA
7722067 GCTAATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.06, G:0.18, T:0.47
Consensus pattern (17 bp):
AAGTTTTAATTCGGTTA
Found at i:7734907 original size:41 final size:41
Alignment explanation
Indices: 7734850--7735119 Score: 307
Period size: 41 Copynumber: 6.6 Consensus size: 41
7734840 AAACGTTGCA
* *
7734850 AAAGGT-AGAGCAATAGCGGCTCTTAAAGGAAAGCACCGCT
1 AAAGGTCAGAGCAATAGCGGCGCTTAAAGGAAAGCGCCGCT
7734890 AAAGGTCAGAGCAATAGCGGCGCTTATGAA--AAAGCGCCGCT
1 AAAGGTCAGAGCAATAGCGGCGCTTA--AAGGAAAGCGCCGCT
* * ** *
7734931 AAAGGTTAGAGAAATAGCGGCGCTTATGGGAAAGCGCTGCT
1 AAAGGTCAGAGCAATAGCGGCGCTTAAAGGAAAGCGCCGCT
* *
7734972 AAAGGTCAGAGAAATAGCGGCGCTT-ATGGAAAAGCGCCGCT
1 AAAGGTCAGAGCAATAGCGGCGCTTAAAGG-AAAGCGCCGCT
* * * *
7735013 AAAGGTCAGATCAATAGCGGCGCTT-ATGGTGAAGCGCCGTT
1 AAAGGTCAGAGCAATAGCGGCGCTTAAAGG-AAAGCGCCGCT
** * *
7735054 AAAGGTCAGAGCAATAGCGGCGCTTATGGGAAAGCACTGCT
1 AAAGGTCAGAGCAATAGCGGCGCTTAAAGGAAAGCGCCGCT
*
7735095 AAAGGTCAAAGCAATAGCGGCGCTT
1 AAAGGTCAGAGCAATAGCGGCGCTT
7735120 TCCCATAAGC
Statistics
Matches: 199, Mismatches: 24, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
40 8 0.04
41 187 0.94
42 2 0.01
43 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.31, T:0.17
Consensus pattern (41 bp):
AAAGGTCAGAGCAATAGCGGCGCTTAAAGGAAAGCGCCGCT
Found at i:7734963 original size:82 final size:82
Alignment explanation
Indices: 7734850--7735119 Score: 382
Period size: 82 Copynumber: 3.3 Consensus size: 82
7734840 AAACGTTGCA
* ** *
7734850 AAAGGT-AGAGCAATAGCGGCTCTTAAAGGAAAGCACCGCTAAAGGTCAGAGCAATAGCGGCGCT
1 AAAGGTCAGAGCAATAGCGGCGCTTATGGGAAAGCGCCGCTAAAGGTCAGAGCAATAGCGGCGCT
*
7734914 TATGAAAAAGCGCCGCT
66 TATGGAAAAGCGCCGCT
* * * *
7734931 AAAGGTTAGAGAAATAGCGGCGCTTATGGGAAAGCGCTGCTAAAGGTCAGAGAAATAGCGGCGCT
1 AAAGGTCAGAGCAATAGCGGCGCTTATGGGAAAGCGCCGCTAAAGGTCAGAGCAATAGCGGCGCT
7734996 TATGGAAAAGCGCCGCT
66 TATGGAAAAGCGCCGCT
* *
7735013 AAAGGTCAGATCAATAGCGGCGCTTATGGTG-AAGCGCCGTTAAAGGTCAGAGCAATAGCGGCGC
1 AAAGGTCAGAGCAATAGCGGCGCTTATGG-GAAAGCGCCGCTAAAGGTCAGAGCAATAGCGGCGC
* * *
7735077 TTATGGGAAAGCACTGCT
65 TTATGGAAAAGCGCCGCT
*
7735095 AAAGGTCAAAGCAATAGCGGCGCTT
1 AAAGGTCAGAGCAATAGCGGCGCTT
7735120 TCCCATAAGC
Statistics
Matches: 168, Mismatches: 19, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
81 6 0.04
82 161 0.96
83 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.31, T:0.17
Consensus pattern (82 bp):
AAAGGTCAGAGCAATAGCGGCGCTTATGGGAAAGCGCCGCTAAAGGTCAGAGCAATAGCGGCGCT
TATGGAAAAGCGCCGCT
Found at i:7735019 original size:123 final size:123
Alignment explanation
Indices: 7734850--7735119 Score: 400
Period size: 123 Copynumber: 2.2 Consensus size: 123
7734840 AAACGTTGCA
*
7734850 AAAGGT-AGAGCAATAGCGGCTCTTAAAGGAAAGCACCGCTAAAGGTCAGAGCAATAGCGGCGCT
1 AAAGGTCAGAGCAATAGCGGCGCTTAAAGGAAAGCACCGCTAAAGGTCAGAGCAATAGCGGCGCT
* *
7734914 TATGAAAAAGCGCCGCTAAAGGTTAGAGAAATAGCGGCGCTTATGGGAAAGCGCTGCT
66 TATGAAAAAGCGCCGCTAAAGGTCAGAGAAATAGCGGCGCTTATGGGAAAGCACTGCT
* * * *
7734972 AAAGGTCAGAGAAATAGCGGCGCTT-ATGGAAAAGCGCCGCTAAAGGTCAGATCAATAGCGGCGC
1 AAAGGTCAGAGCAATAGCGGCGCTTAAAGG-AAAGCACCGCTAAAGGTCAGAGCAATAGCGGCGC
*** * *
7735036 TTATGGTGAAGCGCCGTTAAAGGTCAGAGCAATAGCGGCGCTTATGGGAAAGCACTGCT
65 TTATGAAAAAGCGCCGCTAAAGGTCAGAGAAATAGCGGCGCTTATGGGAAAGCACTGCT
*
7735095 AAAGGTCAAAGCAATAGCGGCGCTT
1 AAAGGTCAGAGCAATAGCGGCGCTT
7735120 TCCCATAAGC
Statistics
Matches: 132, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
122 9 0.07
123 123 0.93
ACGTcount: A:0.33, C:0.19, G:0.31, T:0.17
Consensus pattern (123 bp):
AAAGGTCAGAGCAATAGCGGCGCTTAAAGGAAAGCACCGCTAAAGGTCAGAGCAATAGCGGCGCT
TATGAAAAAGCGCCGCTAAAGGTCAGAGAAATAGCGGCGCTTATGGGAAAGCACTGCT
Found at i:7737281 original size:41 final size:41
Alignment explanation
Indices: 7737234--7737523 Score: 241
Period size: 41 Copynumber: 7.1 Consensus size: 41
7737224 AGGTTAAGTA
* * *
7737234 AGCGGCGTTTATATGAAAGCACCGCTAAAGGTCGGAGTATT
1 AGCGGCGTTTATATGAAAGCGCCGCTAAAGGTCAGAGCATT
* * * * *
7737275 AGCGGCGATTATGTCAAAGCGCCGCTAAAATGTCAAAGCATT
1 AGCGGCGTTTATATGAAAGCGCCGCT-AAAGGTCAGAGCATT
* * * * * * *
7737317 AGGGGCGTTTTTAAGAAAGCGTCGCTAAAGATTATAGCATT
1 AGCGGCGTTTATATGAAAGCGCCGCTAAAGGTCAGAGCATT
* * * *
7737358 AGTGGCG-TT-TATGAAAGCGCTGCTAAAGATTAGAGCATT
1 AGCGGCGTTTATATGAAAGCGCCGCTAAAGGTCAGAGCATT
*
7737397 AGCGGGGTTTATGA-GAAAGCGCCGCTAAAGGTCAGAGCATT
1 AGCGGCGTTTAT-ATGAAAGCGCCGCTAAAGGTCAGAGCATT
* * * * *
7737438 AGAGGTGTTTATGA-GGAAGAGCCGCTAAAGGTTAGAGCATT
1 AGCGGCGTTTAT-ATGAAAGCGCCGCTAAAGGTCAGAGCATT
* * * *
7737479 AGCGGCGTTTATGA-GGAAGCGTCGCTAAAGGT-TGAGCAAT
1 AGCGGCGTTTAT-ATGAAAGCGCCGCTAAAGGTCAGAGCATT
7737519 AGCGG
1 AGCGG
7737524 TATTTTTCCA
Statistics
Matches: 205, Mismatches: 40, Indels: 9
0.81 0.16 0.04
Matches are distributed among these distances:
39 31 0.15
40 15 0.07
41 128 0.62
42 31 0.15
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (41 bp):
AGCGGCGTTTATATGAAAGCGCCGCTAAAGGTCAGAGCATT
Found at i:7737499 original size:82 final size:80
Alignment explanation
Indices: 7737234--7737510 Score: 286
Period size: 80 Copynumber: 3.4 Consensus size: 80
7737224 AGGTTAAGTA
* * * * *
7737234 AGCGGCGTTTAT-ATGAAAGCACCGCTAAAGGTCGGAGTATTAGCGGCGATTATGTCAAAGCGCC
1 AGCGGCGTTTATGA-GAAAGCGCCGCTAAAGGTCAGAGCATTAGAGGCGTTTATG--AAAGCGCC
* * *
7737298 GCTAAAATGTCAAAGCATT
63 GCT-AAAGGTTAGAGCATT
* * * * * * * * *
7737317 AGGGGCGTTTTTAAGAAAGCGTCGCTAAAGATTATAGCATTAGTGGCGTTTATGAAAGCGCTGCT
1 AGCGGCGTTTATGAGAAAGCGCCGCTAAAGGTCAGAGCATTAGAGGCGTTTATGAAAGCGCCGCT
*
7737382 AAAGATTAGAGCATT
66 AAAGGTTAGAGCATT
* * *
7737397 AGCGGGGTTTATGAGAAAGCGCCGCTAAAGGTCAGAGCATTAGAGGTGTTTATGAGGAAGAGCCG
1 AGCGGCGTTTATGAGAAAGCGCCGCTAAAGGTCAGAGCATTAGAGGCGTTTATGA--AAGCGCCG
7737462 CTAAAGGTTAGAGCATT
64 CTAAAGGTTAGAGCATT
* *
7737479 AGCGGCGTTTATGAGGAAGCGTCGCTAAAGGT
1 AGCGGCGTTTATGAGAAAGCGCCGCTAAAGGT
7737511 TGAGCAATAG
Statistics
Matches: 159, Mismatches: 32, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
80 56 0.35
81 10 0.06
82 51 0.32
83 41 0.26
84 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.24
Consensus pattern (80 bp):
AGCGGCGTTTATGAGAAAGCGCCGCTAAAGGTCAGAGCATTAGAGGCGTTTATGAAAGCGCCGCT
AAAGGTTAGAGCATT
Found at i:7737636 original size:15 final size:15
Alignment explanation
Indices: 7737613--7737651 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
7737603 ACAGATTTTG
*
7737613 AAATTCCTAAATTCT
1 AAATCCCTAAATTCT
*
7737628 AAATCCCTAATTTCT
1 AAATCCCTAAATTCT
7737643 AAATTCCCT
1 AAA-TCCCT
7737652 CTCCTCCTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 16 0.76
16 5 0.24
ACGTcount: A:0.36, C:0.26, G:0.00, T:0.38
Consensus pattern (15 bp):
AAATCCCTAAATTCT
Found at i:7739604 original size:30 final size:30
Alignment explanation
Indices: 7739568--7739733 Score: 120
Period size: 30 Copynumber: 5.4 Consensus size: 30
7739558 ATTTATTTAT
7739568 TTAATTATTTAAAACAATCCAATTAATTAA
1 TTAATTATTTAAAACAATCCAATTAATTAA
* * *
7739598 TTAATTATTAAAAACAATCCAAATATTTAA
1 TTAATTATTTAAAACAATCCAATTAATTAA
* ** ** * *
7739628 TTTAAAATATTT--AATTATTTAATTAAATAT
1 -TT-AATTATTTAAAACAATCCAATTAATTAA
* * *
7739658 TTAATTATTAAAAACAACCCAAATACTTAATTAT
1 TTAATTATTTAAAACAATCC--A-A-TTAATTAA
* *
7739692 TTAATTATTTAAATCAACCCAATTAATTAA
1 TTAATTATTTAAAACAATCCAATTAATTAA
*
7739722 TTAATTAATTAA
1 TTAATTATTTAA
7739734 TTATTAAAAA
Statistics
Matches: 103, Mismatches: 25, Indels: 16
0.72 0.17 0.11
Matches are distributed among these distances:
28 6 0.06
29 2 0.02
30 58 0.56
31 3 0.03
32 8 0.08
33 1 0.01
34 25 0.24
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (30 bp):
TTAATTATTTAAAACAATCCAATTAATTAA
Found at i:7739657 original size:20 final size:22
Alignment explanation
Indices: 7739621--7739666 Score: 78
Period size: 20 Copynumber: 2.2 Consensus size: 22
7739611 ACAATCCAAA
7739621 TATTTAATTTAAAATATTTAAT
1 TATTTAATTTAAAATATTTAAT
7739643 TATTTAA-TT-AAATATTTAAT
1 TATTTAATTTAAAATATTTAAT
7739663 TATT
1 TATT
7739667 AAAAACAACC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 15 0.62
21 2 0.08
22 7 0.29
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TATTTAATTTAAAATATTTAAT
Found at i:7739693 original size:34 final size:34
Alignment explanation
Indices: 7739647--7739761 Score: 131
Period size: 34 Copynumber: 3.3 Consensus size: 34
7739637 TTTAATTATT
*
7739647 TAATTAAATATTTAATTATTAAAAACAACCCAAA
1 TAATTAATTATTTAATTATTAAAAACAACCCAAA
* * *
7739681 TACTTAATTATTTAATTATTTAAATCAACCCAATTAA
1 TAATTAATTATTTAATTATTAAAAACAACCC-A--AA
* *
7739718 TTAATTAATTAATTAATTATTAAAAATAACCCAAA
1 -TAATTAATTATTTAATTATTAAAAACAACCCAAA
*
7739753 TATTTAATT
1 TAATTAATT
7739762 CAAAATATTT
Statistics
Matches: 67, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
34 35 0.52
35 3 0.04
37 3 0.04
38 26 0.39
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (34 bp):
TAATTAATTATTTAATTATTAAAAACAACCCAAA
Found at i:7739721 original size:4 final size:4
Alignment explanation
Indices: 7739712--7739740 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
7739702 AAATCAACCC
7739712 AATT AATT AATT AATT AATT AATT -ATT AA
1 AATT AATT AATT AATT AATT AATT AATT AA
7739741 AAATAACCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
3 3 0.12
4 21 0.88
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:7739726 original size:38 final size:38
Alignment explanation
Indices: 7739640--7739835 Score: 152
Period size: 38 Copynumber: 5.2 Consensus size: 38
7739630 TAAAATATTT
* *
7739640 AATTATTTAATTAAATATTTAATTATTAAAAACAACCC
1 AATTAATTAATTAAATATTTAATTATTAAAATCAACCC
* * *
7739678 -A--AA-TACTTAATTATTTAATTATTTAAATCAACCC
1 AATTAATTAATTAAATATTTAATTATTAAAATCAACCC
* *
7739712 AATTAATTAATTAATTAATTAATTATTAAAAAT-AACCC
1 AATTAATTAATTAAATATTTAATTATT-AAAATCAACCC
* * * * ***
7739750 AAATATTTAATTCAAAATATTTAATTATT-TAATTATATTT
1 AATTAATTAATT--AAATATTTAATTATTAAAATCA-ACCC
* * *
7739790 AATTATTTAATTAAATATTTAATTATTAAAAACAATCC
1 AATTAATTAATTAAATATTTAATTATTAAAATCAACCC
*
7739828 AAATAATT
1 AATTAATT
7739836 TTGATGATTC
Statistics
Matches: 124, Mismatches: 24, Indels: 20
0.74 0.14 0.12
Matches are distributed among these distances:
34 27 0.22
35 2 0.02
37 3 0.02
38 59 0.48
39 8 0.06
40 25 0.20
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.43
Consensus pattern (38 bp):
AATTAATTAATTAAATATTTAATTATTAAAATCAACCC
Found at i:7739780 original size:22 final size:20
Alignment explanation
Indices: 7739753--7739816 Score: 96
Period size: 18 Copynumber: 3.2 Consensus size: 20
7739743 ATAACCCAAA
7739753 TATTTAATTCAAAATATTTAAT
1 TATTTAATT--AAATATTTAAT
7739775 TATTTAATT--ATATTTAAT
1 TATTTAATTAAATATTTAAT
7739793 TATTTAATTAAATATTTAAT
1 TATTTAATTAAATATTTAAT
7739813 TATT
1 TATT
7739817 AAAAACAATC
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
18 18 0.45
20 13 0.32
22 9 0.22
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
TATTTAATTAAATATTTAAT
Found at i:7739816 original size:8 final size:8
Alignment explanation
Indices: 7739767--7739802 Score: 54
Period size: 8 Copynumber: 4.2 Consensus size: 8
7739757 TAATTCAAAA
7739767 TATTTAAT
1 TATTTAAT
7739775 TATTTAATT
1 TATTTAA-T
7739784 ATATTTAAT
1 -TATTTAAT
7739793 TATTTAAT
1 TATTTAAT
7739801 TA
1 TA
7739803 AATATTTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 17 0.65
9 2 0.08
10 7 0.27
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
TATTTAAT
Found at i:7755232 original size:221 final size:222
Alignment explanation
Indices: 7754846--7755287 Score: 841
Period size: 221 Copynumber: 2.0 Consensus size: 222
7754836 TACAACATAT
7754846 AATGAATAGAAGCTAAAGATATACAACTAAAATAGTGGCTGTGGCAGAAAAGCTGAGCTGGGTTC
1 AATGAATAGAAGCTAAAGATATACAACT-AAATAGTGGCTGTGGCAGAAAAGCTGAGCTGGGTTC
*
7754911 ATAAAGACAAGTTCAAAGAGTAAAAATTCACACTTTAACACCATCAAACTAAAGCTGGCTACATA
65 ATAAAGACAAGTTCAAAGAGTAAAAAATCACACTTTAACACCATCAAACTAAAGCTGGCTACATA
*
7754976 ACAGCCTAAATGAAAATAACCTTCATGTCCTGGTTATGTCCCGGAAAACCTGAAGCCGATTCCTC
130 ACAGCCTAAATGAAAATAACCTTCATGTACTGGTTATGTCCCGGAAAACCTGAAGCCGATTCCTC
7755041 CTCGATGAAACAGTGTTTGCTGATGCAC
195 CTCGATGAAACAGTGTTTGCTGATGCAC
*
7755069 AATGAATGGAAGCTAAAGATATACAACT-AATAGTGGCTGTGGCAGAAAAGCTGAGCTGGGTTCA
1 AATGAATAGAAGCTAAAGATATACAACTAAATAGTGGCTGTGGCAGAAAAGCTGAGCTGGGTTCA
7755133 TAAAGACAAGTTCAAAGAGTAAAAAATCACACTTTAACACCATCAAACTAAAGCTGGCTACATAA
66 TAAAGACAAGTTCAAAGAGTAAAAAATCACACTTTAACACCATCAAACTAAAGCTGGCTACATAA
7755198 CAGCCTAAATGAAAATAACCTTCATGTACTGGTTATGTCCCGGAAAACCTGAAGCCGATTCCTCC
131 CAGCCTAAATGAAAATAACCTTCATGTACTGGTTATGTCCCGGAAAACCTGAAGCCGATTCCTCC
7755263 TCGATGAAACAGTGTTTGCTGATGC
196 TCGATGAAACAGTGTTTGCTGATGC
7755288 GTTATATCCA
Statistics
Matches: 216, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
221 189 0.88
223 27 0.12
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.23
Consensus pattern (222 bp):
AATGAATAGAAGCTAAAGATATACAACTAAATAGTGGCTGTGGCAGAAAAGCTGAGCTGGGTTCA
TAAAGACAAGTTCAAAGAGTAAAAAATCACACTTTAACACCATCAAACTAAAGCTGGCTACATAA
CAGCCTAAATGAAAATAACCTTCATGTACTGGTTATGTCCCGGAAAACCTGAAGCCGATTCCTCC
TCGATGAAACAGTGTTTGCTGATGCAC
Found at i:7758992 original size:17 final size:18
Alignment explanation
Indices: 7758956--7758993 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
7758946 ATCCTTTTAA
*
7758956 TTTTTTTCATTTTGATCT
1 TTTTTTTCATTTTGAGCT
*
7758974 TTTTTTTTATTTT-AGCT
1 TTTTTTTCATTTTGAGCT
7758991 TTT
1 TTT
7758994 AATCTTCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.11, C:0.08, G:0.05, T:0.76
Consensus pattern (18 bp):
TTTTTTTCATTTTGAGCT
Found at i:7759472 original size:82 final size:82
Alignment explanation
Indices: 7759327--7759477 Score: 214
Period size: 82 Copynumber: 1.8 Consensus size: 82
7759317 CCAAAGATAA
* * * * *
7759327 TTTTCAGTTTTGGTTATTCTAATTTGCTTAAATTTGGTATTTAATCCTTATATTTCAATTTCTAA
1 TTTTCAGTTTCGGTTATTCTAATATGCTTAAATTTAGTATTTAATCCTTACATTTCAAATTCTAA
7759392 CATATAAAAGTGGTTAT
66 CATATAAAAGTGGTTAT
* * *
7759409 TTTTTAGTTTCGGTTCTTCTAATATGCTTAAATTTAAG-ATTTAATCCTTACATTTTAAATTCTA
1 TTTTCAGTTTCGGTTATTCTAATATGCTTAAATTT-AGTATTTAATCCTTACATTTCAAATTCTA
7759473 ACATA
65 ACATA
7759478 ATTTGGTCTC
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
82 59 0.98
83 1 0.02
ACGTcount: A:0.29, C:0.11, G:0.09, T:0.50
Consensus pattern (82 bp):
TTTTCAGTTTCGGTTATTCTAATATGCTTAAATTTAGTATTTAATCCTTACATTTCAAATTCTAA
CATATAAAAGTGGTTAT
Found at i:7760117 original size:18 final size:17
Alignment explanation
Indices: 7760070--7760134 Score: 89
Period size: 18 Copynumber: 3.9 Consensus size: 17
7760060 TTTAAAAAAT
7760070 TCAAAAATA-TTTTAT-
1 TCAAAAATATTTTTATC
* *
7760085 TTAATAATATTTTTATC
1 TCAAAAATATTTTTATC
7760102 TCAAAAATATTTTTTATC
1 TCAAAAATA-TTTTTATC
7760120 TCAAAAATATTTTTA
1 TCAAAAATATTTTTA
7760135 AAAAACAATG
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
15 7 0.16
16 6 0.14
17 13 0.30
18 17 0.40
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.51
Consensus pattern (17 bp):
TCAAAAATATTTTTATC
Found at i:7772137 original size:32 final size:32
Alignment explanation
Indices: 7772101--7772165 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
7772091 GTCAAAAAGA
7772101 ACAGATATGATCAAAACCTATAATAAAGTTAT
1 ACAGATATGATCAAAACCTATAATAAAGTTAT
7772133 ACAGATATGATCAAAACCTATAATAAAGTTAT
1 ACAGATATGATCAAAACCTATAATAAAGTTAT
7772165 A
1 A
7772166 TATATATACC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.51, C:0.12, G:0.09, T:0.28
Consensus pattern (32 bp):
ACAGATATGATCAAAACCTATAATAAAGTTAT
Found at i:7782759 original size:3 final size:3
Alignment explanation
Indices: 7782751--7782775 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
7782741 AAGAAAGTTA
7782751 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
7782776 TTTACTTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:7790440 original size:24 final size:22
Alignment explanation
Indices: 7790406--7790466 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 22
7790396 ATTTCATAAG
7790406 TATAATTATATTAAATAAAAAT
1 TATAATTATATTAAATAAAAAT
* *
7790428 TATAATATCATATTATATAAAATT
1 TATAAT-T-ATATTAAATAAAAAT
7790452 TA-AATTTATAATTAA
1 TATAA-TTAT-ATTAA
7790467 TTTTGGGTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
22 8 0.25
23 8 0.25
24 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
TATAATTATATTAAATAAAAAT
Found at i:7790463 original size:30 final size:28
Alignment explanation
Indices: 7790387--7790468 Score: 87
Period size: 29 Copynumber: 2.9 Consensus size: 28
7790377 AAATAAAATA
7790387 AAAATTTAAATTTCATAAGTATAATTATAT
1 AAAATTTAAATTT-ATAA-TATAATTATAT
* * *
7790417 TAAA-TAAAAATTATAATATCATATTATAT
1 AAAATTTAAATTTATAATAT-A-ATTATAT
7790446 AAAATTTAAATTTATAAT-TAATT
1 AAAATTTAAATTTATAATATAATT
7790469 TTGGGTTAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 9
0.74 0.10 0.16
Matches are distributed among these distances:
27 6 0.14
28 6 0.14
29 17 0.40
30 14 0.33
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.44
Consensus pattern (28 bp):
AAAATTTAAATTTATAATATAATTATAT
Found at i:7798280 original size:30 final size:31
Alignment explanation
Indices: 7798246--7798309 Score: 87
Period size: 30 Copynumber: 2.1 Consensus size: 31
7798236 ATGAAATGTC
7798246 AATATTTTATTA-AGTTTTTAA-AATTTTAAA
1 AATATTTT-TTATAGTTTTTAATAATTTTAAA
* *
7798276 AATATTTTTTATATTTTTTAATACTTTTAAA
1 AATATTTTTTATAGTTTTTAATAATTTTAAA
7798307 AAT
1 AAT
7798310 GTTGATGTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
29 3 0.10
30 16 0.53
31 11 0.37
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (31 bp):
AATATTTTTTATAGTTTTTAATAATTTTAAA
Found at i:7799059 original size:22 final size:22
Alignment explanation
Indices: 7799019--7799068 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
7799009 TGATGGGTCA
*
7799019 AATTATTGTTTTAATAATATAT
1 AATTATTATTTTAATAATATAT
7799041 AATTAATTATTTTAA-AATAT-T
1 AATT-ATTATTTTAATAATATAT
*
7799062 TATTATT
1 AATTATT
7799069 TTGGAAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 3 0.12
21 4 0.16
22 9 0.36
23 9 0.36
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
AATTATTATTTTAATAATATAT
Found at i:7811266 original size:16 final size:16
Alignment explanation
Indices: 7811247--7811280 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
7811237 TAGCAATACT
*
7811247 AATAATTTGACTAAAA
1 AATAATTTGACCAAAA
7811263 AATAATTTGACCAAAA
1 AATAATTTGACCAAAA
7811279 AA
1 AA
7811281 GGGAAAACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.59, C:0.09, G:0.06, T:0.26
Consensus pattern (16 bp):
AATAATTTGACCAAAA
Found at i:7814642 original size:17 final size:18
Alignment explanation
Indices: 7814622--7814655 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7814612 AAATTAATTT
7814622 CTAAA-AAAAATATGAAA
1 CTAAACAAAAATATGAAA
*
7814639 CTAAACAAATATATGAA
1 CTAAACAAAAATATGAA
7814656 TAGTACAAAA
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:0.65, C:0.09, G:0.06, T:0.21
Consensus pattern (18 bp):
CTAAACAAAAATATGAAA
Found at i:7815048 original size:18 final size:17
Alignment explanation
Indices: 7815014--7815056 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
7815004 TTATTCATAT
7815014 TTTATTTTTTAGAGTAAA
1 TTTATTTTTTAGAGT-AA
* *
7815032 TTTATTTTTTTGTGTAA
1 TTTATTTTTTAGAGTAA
7815049 -TTATTTTT
1 TTTATTTTT
7815057 ATAATTATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 8 0.35
17 2 0.09
18 13 0.57
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.67
Consensus pattern (17 bp):
TTTATTTTTTAGAGTAA
Found at i:7815140 original size:22 final size:22
Alignment explanation
Indices: 7815115--7815158 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
7815105 TTTAGTGGAA
* *
7815115 ATCAAAATTAAATTATATTTTT
1 ATCAAAATAAAAATATATTTTT
*
7815137 ATCATAATAAAAATATATTTTT
1 ATCAAAATAAAAATATATTTTT
7815159 TAAATGATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (22 bp):
ATCAAAATAAAAATATATTTTT
Found at i:7815683 original size:30 final size:30
Alignment explanation
Indices: 7815637--7815693 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
7815627 TTTAGTTAGC
7815637 TGGTTTTAGATTTGTTTTTTGGTTTTGTCAA
1 TGGTTTTAGATTTGTTTTTT-GTTTTGTCAA
*
7815668 TGGTTTTA-TTTTGTTTTTTGTTTTGT
1 TGGTTTTAGATTTGTTTTTTGTTTTGT
7815694 TTTGACTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 7 0.28
30 10 0.40
31 8 0.32
ACGTcount: A:0.09, C:0.02, G:0.21, T:0.68
Consensus pattern (30 bp):
TGGTTTTAGATTTGTTTTTTGTTTTGTCAA
Found at i:7816548 original size:26 final size:26
Alignment explanation
Indices: 7816517--7816574 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 26
7816507 TAAAAGGAAA
7816517 TTTTAAT-TTCTTT-TTTTATTA-TTGAT
1 TTTTAATATT-TTTATTTT-TTACTT-AT
7816543 TTTTAATATTTTTATTTTTTACTTAT
1 TTTTAATATTTTTATTTTTTACTTAT
7816569 TTTTAA
1 TTTTAA
7816575 AAATCATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
26 21 0.72
27 8 0.28
ACGTcount: A:0.22, C:0.03, G:0.02, T:0.72
Consensus pattern (26 bp):
TTTTAATATTTTTATTTTTTACTTAT
Found at i:7817134 original size:35 final size:35
Alignment explanation
Indices: 7817089--7817158 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
7817079 AAAGTTTTAA
7817089 GTATACATTTGAACCACAATTAAGATTTCACGTGT
1 GTATACATTTGAACCACAATTAAGATTTCACGTGT
*
7817124 GTATACATTTGAACCACAATTAATATTTCACGTGT
1 GTATACATTTGAACCACAATTAAGATTTCACGTGT
7817159 ATAATTGCAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (35 bp):
GTATACATTTGAACCACAATTAAGATTTCACGTGT
Found at i:7817200 original size:61 final size:61
Alignment explanation
Indices: 7817124--7817238 Score: 187
Period size: 61 Copynumber: 1.9 Consensus size: 61
7817114 TTTCACGTGT
* *
7817124 GTATACATTTGAACCACAATTAATATTTCACGTGTATAATTGCA-CTAAATTAAAGTTTTAA
1 GTATACATTTGAACCACAATTAAGATTTCACGTATATAATTGCATC-AAATTAAAGTTTTAA
*
7817185 GTATACATTTTAACCACAATTAAGATTTCACGTATATAATTGCATCAAATTAAA
1 GTATACATTTGAACCACAATTAAGATTTCACGTATATAATTGCATCAAATTAAA
7817239 ATTTATATAT
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
61 49 0.98
62 1 0.02
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.37
Consensus pattern (61 bp):
GTATACATTTGAACCACAATTAAGATTTCACGTATATAATTGCATCAAATTAAAGTTTTAA
Found at i:7817251 original size:29 final size:30
Alignment explanation
Indices: 7817217--7817280 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 30
7817207 AGATTTCACG
* *
7817217 TATATAATTGCA-TCAAATTAAAATTTATA
1 TATATAATTACACTCAAATCAAAATTTATA
*
7817246 TATATAATTACACTTTAAATCAAAATTTATA
1 TATATAATTACAC-TCAAATCAAAATTTATA
7817277 TATA
1 TATA
7817281 ATTTTGAGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 11 0.37
31 19 0.63
ACGTcount: A:0.48, C:0.08, G:0.02, T:0.42
Consensus pattern (30 bp):
TATATAATTACACTCAAATCAAAATTTATA
Found at i:7817726 original size:2 final size:2
Alignment explanation
Indices: 7817719--7817744 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7817709 TTAAAGTTAA
7817719 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
7817745 TAAAAAAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7817764 original size:22 final size:21
Alignment explanation
Indices: 7817739--7817781 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
7817729 ATATATATAT
7817739 ATATATTAAAAAAATGAAAAAA
1 ATATATTAAAAAAAT-AAAAAA
**
7817761 ATATATTTTAAAAATAAAAAA
1 ATATATTAAAAAAATAAAAAA
7817782 CAAATTATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (21 bp):
ATATATTAAAAAAATAAAAAA
Found at i:7817786 original size:24 final size:23
Alignment explanation
Indices: 7817737--7817790 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
7817727 ATATATATAT
7817737 ATATATATTAAAAAAATGAAAAAA
1 ATATATATTAAAAAAA-GAAAAAA
*
7817761 ATATATTTTAAAAATAA-AAAACAA
1 ATATATATTAAAAA-AAGAAAA-AA
7817785 AT-TATA
1 ATATATA
7817791 ACATAAAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 7 0.27
24 17 0.65
25 2 0.08
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (23 bp):
ATATATATTAAAAAAAGAAAAAA
Found at i:7820796 original size:80 final size:80
Alignment explanation
Indices: 7820663--7820817 Score: 247
Period size: 80 Copynumber: 1.9 Consensus size: 80
7820653 CCAATATTGA
* * *
7820663 CCATAAATTCCCTCTAATAGTGGTTCTATTGTTGATTTTGAGTTATTCTAGAACATCTTTTTGCC
1 CCATAAATCCCCTCTAATAGTGGTTCTATAGTTGATATTGAGTTATTCTAGAACATCTTTTTGCC
7820728 AAATATACTTATTCC
66 AAATATACTTATTCC
* * *
7820743 CCATAAATCCCCTCTATTAGTGGTTCTGTAGTTGATATTGAGTTATTCTAGAACATCTTTTTGGC
1 CCATAAATCCCCTCTAATAGTGGTTCTATAGTTGATATTGAGTTATTCTAGAACATCTTTTTGCC
*
7820808 AAATTTACTT
66 AAATATACTT
7820818 TCAGATATAA
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
80 68 1.00
ACGTcount: A:0.26, C:0.18, G:0.13, T:0.43
Consensus pattern (80 bp):
CCATAAATCCCCTCTAATAGTGGTTCTATAGTTGATATTGAGTTATTCTAGAACATCTTTTTGCC
AAATATACTTATTCC
Found at i:7823967 original size:21 final size:21
Alignment explanation
Indices: 7823941--7823983 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
7823931 AAAAAAATTG
* *
7823941 TATATAAATTTTTATTTTTTA
1 TATATAAAATTTTAATTTTTA
7823962 TATATAAAATTTTAATTTTTA
1 TATATAAAATTTTAATTTTTA
7823983 T
1 T
7823984 TCAATCTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
TATATAAAATTTTAATTTTTA
Found at i:7823974 original size:22 final size:21
Alignment explanation
Indices: 7823941--7823981 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
7823931 AAAAAAATTG
*
7823941 TATATAAATTTTTATTTTTTA
1 TATATAAATTTTAATTTTTTA
7823962 TATATAAAATTTTAATTTTT
1 TATAT-AAATTTTAATTTTT
7823982 ATTCAATCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
TATATAAATTTTAATTTTTTA
Found at i:7824990 original size:27 final size:29
Alignment explanation
Indices: 7824959--7825021 Score: 71
Period size: 27 Copynumber: 2.3 Consensus size: 29
7824949 TATTATATAA
7824959 TTATTAATTCT-TTTTT-AATTATTC-TCG
1 TTATTAATTCTATTTTTAAATT-TTCTTCG
*
7824986 TTATT-ATTTTATTTTTAAATTTTCTTCG
1 TTATTAATTCTATTTTTAAATTTTCTTCG
*
7825014 TAATTAAT
1 TTATTAAT
7825022 AATATTTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
26 4 0.13
27 13 0.43
28 11 0.37
29 2 0.07
ACGTcount: A:0.25, C:0.08, G:0.03, T:0.63
Consensus pattern (29 bp):
TTATTAATTCTATTTTTAAATTTTCTTCG
Found at i:7825787 original size:22 final size:22
Alignment explanation
Indices: 7825755--7825806 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
7825745 TATAAAAATT
*
7825755 AATTTAATATTTTAA-AATTAG
1 AATTTAATATTATAACAATTAG
*
7825776 ATATTTATTATTATAACAATTAG
1 A-ATTTAATATTATAACAATTAG
7825799 AATTTAAT
1 AATTTAAT
7825807 TTTAGTCTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 1 0.04
22 18 0.69
23 7 0.27
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (22 bp):
AATTTAATATTATAACAATTAG
Found at i:7829569 original size:18 final size:18
Alignment explanation
Indices: 7829546--7829580 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7829536 TTCAAATATA
*
7829546 AAGTTTAGAATTCCAAAC
1 AAGTTTAGAAATCCAAAC
*
7829564 AAGTTTATAAATCCAAA
1 AAGTTTAGAAATCCAAA
7829581 TTACATAATC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.14, G:0.09, T:0.29
Consensus pattern (18 bp):
AAGTTTAGAAATCCAAAC
Found at i:7833054 original size:15 final size:15
Alignment explanation
Indices: 7833034--7833074 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
7833024 AAATTTCATC
7833034 ATTTTAATCCTTAAA
1 ATTTTAATCCTTAAA
*
7833049 ATTTTAAAT-TTTAAA
1 ATTTT-AATCCTTAAA
7833064 ATTTTAATCCT
1 ATTTTAATCCT
7833075 AATTCAAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 3 0.14
15 16 0.73
16 3 0.14
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.51
Consensus pattern (15 bp):
ATTTTAATCCTTAAA
Found at i:7838292 original size:2 final size:2
Alignment explanation
Indices: 7838285--7838318 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
7838275 TAAATTTAAA
* *
7838285 AT AT AT AT AT AT AT AT AT AT AT AC AC AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7838319 GCCAAAAATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:7840035 original size:3 final size:3
Alignment explanation
Indices: 7840027--7840106 Score: 160
Period size: 3 Copynumber: 26.7 Consensus size: 3
7840017 AAGGAGCCCG
7840027 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
7840075 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
7840107 ATACACTCCA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 77 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:7842193 original size:17 final size:19
Alignment explanation
Indices: 7842155--7842193 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
7842145 TAATTTCAAA
*
7842155 ATATGTATATTTATTCATT
1 ATATGTATATTTATTAATT
7842174 ATATGT-TATTT-TTAATT
1 ATATGTATATTTATTAATT
7842191 ATA
1 ATA
7842194 AATTTATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 5 0.26
19 6 0.32
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (19 bp):
ATATGTATATTTATTAATT
Done.