Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 134 of 205
Found at i:40495709 original size:26 final size:26
Alignment explanation
Indices: 40495673--40495729 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
40495663 ACTAACCTAA
40495673 ATTTTTTTGGCTTAATAATTTTACAT
1 ATTTTTTTGGCTTAATAATTTTACAT
40495699 ATTTTTTTGGCTTAATAATTTTACAT
1 ATTTTTTTGGCTTAATAATTTTACAT
40495725 ATTTT
1 ATTTT
40495730 GAACACTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.26, C:0.07, G:0.07, T:0.60
Consensus pattern (26 bp):
ATTTTTTTGGCTTAATAATTTTACAT
Found at i:40495786 original size:55 final size:56
Alignment explanation
Indices: 40495701--40495831 Score: 142
Period size: 55 Copynumber: 2.3 Consensus size: 56
40495691 TTTTACATAT
* * *
40495701 TTTTTTGGCTTAATAATTTTACATATTTTGA-ACACTTTAATAACCATTAACACAA
1 TTTTTTGGCTTAATAATTTGACATATTTTGATAAACTTTAATAACCATTAACAAAA
* * ** *
40495756 -TTTTTGGACTTAATAATTTGAGAT-TATTTGATAAATTTTTCTAACCATTAAGAAAA
1 TTTTTTGG-CTTAATAATTTGACATAT-TTTGATAAACTTTAATAACCATTAACAAAA
40495812 TTGTTTTGGCTTAATAATTT
1 TT-TTTTGGCTTAATAATTT
40495832 TATATAATTT
Statistics
Matches: 63, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
54 8 0.13
55 19 0.30
56 18 0.29
57 12 0.19
58 6 0.10
ACGTcount: A:0.34, C:0.10, G:0.09, T:0.47
Consensus pattern (56 bp):
TTTTTTGGCTTAATAATTTGACATATTTTGATAAACTTTAATAACCATTAACAAAA
Found at i:40499120 original size:125 final size:125
Alignment explanation
Indices: 40498898--40499985 Score: 2124
Period size: 125 Copynumber: 8.7 Consensus size: 125
40498888 CCCAAACTTG
* *
40498898 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCAATTTCACAATTTCTTCTCAAATAGCATCCTCG
1 CTACTGTAGCAAAATCGCATCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
40498963 TAGAAATGATTTTATACTATTTGCTCTGAAACATCAGAAAAAAAGTATTTCTTACATGAC
66 TAGAAATGATTTTATACTATTTGCTCTGAAACATCAGAAAAAAAGTATTTCTTACATGAC
40499023 CTACTGTAGCAAAATCGCATCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
1 CTACTGTAGCAAAATCGCATCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
40499088 TAGAAATGATTTTATACTATTTGCTCTGAAACATCAGAAAAAAAGTATTTCTTACATGAC
66 TAGAAATGATTTTATACTATTTGCTCTGAAACATCAGAAAAAAAGTATTTCTTACATGAC
40499148 CTACTGTAGCAAAATCGCATCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
1 CTACTGTAGCAAAATCGCATCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
40499213 TAGAAATGATTTTATACTATTTGCTCTGAAACATCAGAAAAAAAGTATTTCTTACATGAC
66 TAGAAATGATTTTATACTATTTGCTCTGAAACATCAGAAAAAAAGTATTTCTTACATGAC
40499273 CTACTGTAGCAAAATCGCATCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
1 CTACTGTAGCAAAATCGCATCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
40499338 TAGAAATGATTTTATACTATTTGCTCTGAAACATCAGAAAAAAAGTATTTCTTACATGAC
66 TAGAAATGATTTTATACTATTTGCTCTGAAACATCAGAAAAAAAGTATTTCTTACATGAC
40499398 CTACTGTAGCAAAATCGCATCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
1 CTACTGTAGCAAAATCGCATCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
40499463 TAGAAATGATTTTATACTATTTGCTCTGAAACATCAGAAAAAAAGTATTTCTTACATGAC
66 TAGAAATGATTTTATACTATTTGCTCTGAAACATCAGAAAAAAAGTATTTCTTACATGAC
40499523 CTACTGTAGCAAAATCGCATCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
1 CTACTGTAGCAAAATCGCATCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
40499588 TAGAAATGATTTTATACTATTTGCTCTGAAACATCAGAAAAAAAGTATTTCTTACATGAC
66 TAGAAATGATTTTATACTATTTGCTCTGAAACATCAGAAAAAAAGTATTTCTTACATGAC
40499648 CTACTGTAGCAAAATCGCATCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
1 CTACTGTAGCAAAATCGCATCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
40499713 TAGAAATGATTTTATACTATTTGCTCTGAAACATCAGAAAAAAAGTATTTCTTACATGAC
66 TAGAAATGATTTTATACTATTTGCTCTGAAACATCAGAAAAAAAGTATTTCTTACATGAC
40499773 CTACTGTAGCAAAATCGCATCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
1 CTACTGTAGCAAAATCGCATCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
40499838 TAGAAATGATTTTATACTATTTGCTCTGAAACATCAGAAAAAAAGTATTTCTTACATGAC
66 TAGAAATGATTTTATACTATTTGCTCTGAAACATCAGAAAAAAAGTATTTCTTACATGAC
*
40499898 CTACTGTAGCAAAATCGCATCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCATCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
*
40499963 TA-AAAGCGATTTTATACTATTTG
66 TAGAAA-TGATTTTATACTATTTG
40499986 ACCAGAGACG
Statistics
Matches: 958, Mismatches: 4, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
124 3 0.00
125 955 1.00
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (125 bp):
CTACTGTAGCAAAATCGCATCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
TAGAAATGATTTTATACTATTTGCTCTGAAACATCAGAAAAAAAGTATTTCTTACATGAC
Found at i:40508426 original size:11 final size:11
Alignment explanation
Indices: 40508404--40508443 Score: 64
Period size: 11 Copynumber: 3.6 Consensus size: 11
40508394 AACTAATCCT
40508404 CTCTCAAATTTC
1 CTCTC-AATTTC
40508416 CTCTCAATTTC
1 CTCTCAATTTC
40508427 CTCTCAATTTC
1 CTCTCAATTTC
40508438 CT-TCAA
1 CTCTCAA
40508444 AAATTCTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 4 0.14
11 19 0.68
12 5 0.18
ACGTcount: A:0.23, C:0.35, G:0.00, T:0.42
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:40508523 original size:12 final size:12
Alignment explanation
Indices: 40508484--40508526 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
40508474 TTAACTCCCT
40508484 TTTTTAAAAATA
1 TTTTTAAAAATA
* *
40508496 ATTTTAAAACTA
1 TTTTTAAAAATA
40508508 TTTTTAAAAAT-
1 TTTTTAAAAATA
40508519 TTTTTAAA
1 TTTTTAAA
40508527 CCGTAAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
11 8 0.30
12 19 0.70
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (12 bp):
TTTTTAAAAATA
Found at i:40510552 original size:23 final size:23
Alignment explanation
Indices: 40510526--40511429 Score: 803
Period size: 23 Copynumber: 39.7 Consensus size: 23
40510516 AATACCCTTA
*
40510526 AATTAAAAATCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
*
40510549 AATTAAAAACCTTAAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
* ***
40510571 ACTTAAAAACCCTAACC-CCCTT
1 AATTAAAAACCCTAACCTAATTT
*
40510593 AACTTAAAAACCCTAACCTAATTA
1 AA-TTAAAAACCCTAACCTAATTT
40510617 AATTAAAAACCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
*
40510640 AATTAAAAACCTTAAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
* * *
40510662 ACTTAAAAACCCTAATCTAATTA
1 AATTAAAAACCCTAACCTAATTT
40510685 AATTAAAAACCCTCAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
* *
40510707 ACTTAAAAACCCTAACCTAA-TG
1 AATTAAAAACCCTAACCTAATTT
*
40510729 AACTTAAAAACCCTAACCTAATTA
1 AA-TTAAAAACCCTAACCTAATTT
40510753 AATTAAAAACCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
40510776 AATTAAAAACCCTAAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
* *
40510798 ACTTAAAAACCCTAACCTAA-TG
1 AATTAAAAACCCTAACCTAATTT
*
40510820 AACTTAAAAACCCTAACCTAATTA
1 AA-TTAAAAACCCTAACCTAATTT
40510844 AATTAAAAACCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
40510867 AATTAAAAACCCTAAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
* *
40510889 ACTTAAAAACCCTAACCTAA-TG
1 AATTAAAAACCCTAACCTAATTT
40510911 AACTTAAAAACCCTAACCTAATTT
1 AA-TTAAAAACCCTAACCTAATTT
40510935 AATT-AAAACCCTAAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
*
40510956 ACTTAAAAACCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
40510979 AATTAAAAACCCTAA-CTCAATTT
1 AATTAAAAACCCTAACCT-AATTT
40511002 AATTAAAAACCCTAAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
* * *
40511024 ACTTAAAAACGCTAACCTAATTA
1 AATTAAAAACCCTAACCTAATTT
40511047 AATTAAAAACCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
* *
40511070 AATTAAAAACCCAAAACCCAA---
1 AATTAAAAACCC-TAACCTAATTT
*
40511091 AACTTAAAAACCCTAACCTAATTA
1 AA-TTAAAAACCCTAACCTAATTT
*
40511115 AATT-AAAACCCTAACCTAATTA
1 AATTAAAAACCCTAACCTAATTT
*
40511137 AATTAAAAACCCTAAACCCTAAACTT
1 AATTAAAAACCCT-AA-CCT-AATTT
* *
40511163 AA-AAACCCTAAACCCTAACCTAA-TG
1 AATTAA----AAACCCTAACCTAATTT
*
40511188 AACTTAAAAACCCTAACCTAATTA
1 AA-TTAAAAACCCTAACCTAATTT
40511212 AATTAAAAACCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
**
40511235 AATTAAAAATTCTAAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
* *
40511257 ACTTAAAAACCATAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
40511280 AATTAAAAACCCTAAACCTAA---
1 AATTAAAAACCCT-AACCTAATTT
* *
40511301 ACTTAAAAACCCTAAACTAATTT
1 AATTAAAAACCCTAACCTAATTT
*
40511324 AATTAAAAACCTTAAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
* * *
40511346 ATTTAAAAACCCTAACTTAATTA
1 AATTAAAAACCCTAACCTAATTT
* *
40511369 AATTAAAAATCCTAACCTAATTA
1 AATTAAAAACCCTAACCTAATTT
* *
40511392 AATTAAAAACCCTAACGTAATTA
1 AATTAAAAACCCTAACCTAATTT
40511415 AATTAAAAACCCTAA
1 AATTAAAAACCCTAA
40511430 ACCCTAAACC
Statistics
Matches: 740, Mismatches: 68, Indels: 146
0.78 0.07 0.15
Matches are distributed among these distances:
20 46 0.06
21 41 0.06
22 143 0.19
23 391 0.53
24 53 0.07
25 43 0.06
26 9 0.01
27 5 0.01
28 2 0.00
29 7 0.01
ACGTcount: A:0.50, C:0.24, G:0.01, T:0.25
Consensus pattern (23 bp):
AATTAAAAACCCTAACCTAATTT
Found at i:40510665 original size:68 final size:66
Alignment explanation
Indices: 40510525--40511544 Score: 733
Period size: 68 Copynumber: 15.1 Consensus size: 66
40510515 TAATACCCTT
* * * *
40510525 AAATTAAAAATCCTAACCTAATTTAATTAAAAACCTTAAACCCTAA---ACTTAAAAACCCTAAC
1 AAATTAAAAACCCTAACCTAATTAAATTAAAAACCCT-AA-CCTAATTTAATTAAAAACCCTAA-
*
40510587 CCCCTT
63 --CCTA
* *
40510593 AACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCTTAAACC
1 AAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCT-AA-C
40510658 CTA
64 CTA
* * *
40510661 AACTTAAAAACCCTAATCTAATTAAATTAAAAACCCTCAACCCTAA---ACTTAAAAACCCTAAC
1 AAATTAAAAACCCTAACCTAATTAAATTAAAAACCCT-AA-CCTAATTTAATTAAAAACCCTAAC
40510723 CTA
64 CTA
40510726 ATGAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAA
1 A--AA-TTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCT-A
40510791 ACCCTA
62 A-CCTA
* * * *
40510797 AACTTAAAAACCCTAACCTAATGAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCT
1 AAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCT
40510862 A
66 A
* *
40510863 ATTTAATTAAAAACCCTAAACCCT-A--AACTTAAAAACCCTAACCTAA-TGAACTTAAAAACCC
1 A---AATTAAAAACCCT-AA-CCTAATTAAATTAAAAACCCTAACCTAATTTAA-TTAAAAACCC
40510924 TAACCTA
60 TAACCTA
*
40510931 ATTTAATT-AAAACCCTAAACCCT-A--AACTTAAAAACCCTAACCTAATTTAATTAAAAACCCT
1 A---AATTAAAAACCCT-AA-CCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCT
40510992 AA-CTCA
61 AACCT-A
* * *
40510998 ATTTAATTAAAAACCCTAAACCCT-A--AACTTAAAAACGCTAACCTAATTAAATTAAAAACCCT
1 A---AATTAAAAACCCT-AA-CCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCT
40511060 AACCTA
61 AACCTA
* * * *
40511066 ATTTAATTAAAAACCCAAAACCCAA--AACTTAAAAACCCTAACCTAATTAAATT-AAAACCCTA
1 A---AATTAAAAACCC-TAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTA
40511128 ACCTAA
62 ACCT-A
*
40511134 TTAAATTAAAAACCCTAAACCCTAAACTTAAA--AACCCTAAACCCTAACCTAA-TGAACTTAAA
1 --AAATTAAAAACCCT-AA-CCT-AA-TTAAATTAA----AAACCCTAACCTAATTTAA-TTAAA
40511196 AACCCTAACCTAA
55 AACCCTAACCT-A
* ** * *
40511209 TTAAATTAAAAACCCTAACCTAATTTAATTAAAAATTCTAAACCCTAA---ACTTAAAAACCATA
1 --AAATTAAAAACCCTAACCTAATTAAATTAAAAACCCT-AA-CCTAATTTAATTAAAAACCCTA
40511271 ACCTA
62 ACCTA
* * *
40511276 ATTTAATTAAAAACCCTAAACCT-A--AACTTAAAAACCCTAAACTAATTTAATTAAAAACCTTA
1 A---AATTAAAAACCCT-AACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCT-
40511338 AACCCTA
61 AA-CCTA
* * * * *
40511345 AATTTAAAAACCCTAACTTAATTAAATTAAAAATCCTAACCTAATTAAATTAAAAACCCTAACGT
1 AAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCT
40511410 AA
66 -A
* *
40511412 TTAAATTAAAAACCCTAAACC--------CT--AAACCCTAAACCCTAA---ACTTAAAAACCCT
1 --AAATTAAAAACCCT-AACCTAATTAAATTAAAAACCCT-AA-CCTAATTTAATTAAAAACCCT
*
40511464 AACCCCCTT
61 AA---CCTA
* * *
40511473 AACTTAAAAACCCTAACCTAATTAAATTATAAACCCTAACCTAATTTAATTAAAAACCCTAAACT
1 AAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCT
40511538 -
66 A
40511538 AAATTAA
1 AAATTAA
40511545 TAATTTTACT
Statistics
Matches: 812, Mismatches: 61, Indels: 161
0.79 0.06 0.16
Matches are distributed among these distances:
58 4 0.00
59 27 0.03
60 6 0.01
61 2 0.00
62 8 0.01
64 4 0.00
65 18 0.02
66 52 0.06
67 126 0.16
68 382 0.47
69 85 0.10
70 20 0.02
71 17 0.02
72 4 0.00
73 8 0.01
74 18 0.02
75 31 0.04
ACGTcount: A:0.50, C:0.25, G:0.01, T:0.25
Consensus pattern (66 bp):
AAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCT
A
Found at i:40511156 original size:30 final size:29
Alignment explanation
Indices: 40511120--40511203 Score: 92
Period size: 30 Copynumber: 3.1 Consensus size: 29
40511110 AATTAAATTA
*
40511120 AAACCCTAACCTAATTAAATTAAAAACCCT
1 AAACCCTAACCTAA-TAACTTAAAAACCCT
40511150 AAA--C---CCT-A-AACTTAAAAACCCT
1 AAACCCTAACCTAATAACTTAAAAACCCT
40511172 AAACCCTAACCTAATGAACTTAAAAACCCT
1 AAACCCTAACCTAAT-AACTTAAAAACCCT
40511202 AA
1 AA
40511204 CCTAATTAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 16
0.73 0.02 0.26
Matches are distributed among these distances:
22 16 0.36
24 2 0.04
25 3 0.07
27 3 0.07
28 2 0.04
30 19 0.42
ACGTcount: A:0.50, C:0.29, G:0.01, T:0.20
Consensus pattern (29 bp):
AAACCCTAACCTAATAACTTAAAAACCCT
Found at i:40511433 original size:7 final size:7
Alignment explanation
Indices: 40511421--40511452 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
40511411 ATTAAATTAA
40511421 AAACCCT
1 AAACCCT
40511428 AAACCCT
1 AAACCCT
40511435 AAACCCT
1 AAACCCT
40511442 AAACCCT
1 AAACCCT
40511449 AAAC
1 AAAC
40511453 TTAAAAACCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.47, C:0.41, G:0.00, T:0.12
Consensus pattern (7 bp):
AAACCCT
Found at i:40511436 original size:91 final size:91
Alignment explanation
Indices: 40510519--40511511 Score: 988
Period size: 91 Copynumber: 11.0 Consensus size: 91
40510509 AACCATTAAT
* * * *
40510519 ACCCTTAAA-TTAAAAATCCTAACCTAATTTAA-TTAAAAACCTTAAACCCT-A--AACTTAAAA
1 ACCC-TAAACTTAAAAACCCTAACCTAA-TGAACTTAAAAACCCT-AA-CCTAATTAAATTAAAA
*** *
40510579 ACCCTAACCCCCTTAACTTAAAAACCCT-A
62 ACCCTAACCTAATTAAATTAAAAACCCTAA
* * * *
40510608 A-CCTAATTAAATTAAAAACCCTAACCTAATTTAA-TTAAAAACCTTAAACCCT-A--AACTTAA
1 ACCCT-A--AACTTAAAAACCCTAACCTAA-TGAACTTAAAAACCCT-AA-CCTAATTAAATTAA
* *
40510668 AAACCCTAATCTAATTAAATTAAAAACCCTCA
60 AAACCCTAACCTAATTAAATTAAAAACCCTAA
40510700 ACCCTAAACTTAAAAACCCTAACCTAATGAACTTAAAAACCCTAACCTAATTAAATTAAAAACCC
1 ACCCTAAACTTAAAAACCCTAACCTAATGAACTTAAAAACCCTAACCTAATTAAATTAAAAACCC
*
40510765 TAACCTAATTTAATTAAAAACCCTAA
66 TAACCTAATTAAATTAAAAACCCTAA
40510791 ACCCTAAACTTAAAAACCCTAACCTAATGAACTTAAAAACCCTAACCTAATTAAATTAAAAACCC
1 ACCCTAAACTTAAAAACCCTAACCTAATGAACTTAAAAACCCTAACCTAATTAAATTAAAAACCC
*
40510856 TAACCTAATTTAATTAAAAACCCTAA
66 TAACCTAATTAAATTAAAAACCCTAA
*
40510882 ACCCTAAACTTAAAAACCCTAACCTAATGAACTTAAAAACCCTAACCTAATTTAATT-AAAACCC
1 ACCCTAAACTTAAAAACCCTAACCTAATGAACTTAAAAACCCTAACCTAATTAAATTAAAAACCC
*
40510946 TAAACCCT-A--AACTTAAAAACCCT-A
66 T-AA-CCTAATTAAATTAAAAACCCTAA
* * *
40510970 A-CCTAATTTAATTAAAAACCCTAA-CTCAATTTAA-TTAAAAACCCTAAACCCT-A--AACTTA
1 ACCCTAA---ACTTAAAAACCCTAACCT-AA-TGAACTTAAAAACCCT-AA-CCTAATTAAATTA
*
40511029 AAAACGCTAACCTAATTAAATTAAAAACCCT-A
59 AAAACCCTAACCTAATTAAATTAAAAACCCTAA
* * *
40511061 A-CCTAATTTAATTAAAAACCCAAAACCCAA--AACTTAAAAACCCTAACCTAATTAAATT-AAA
1 ACCCTAA---ACTTAAAAACCC-TAACCTAATGAACTTAAAAACCCTAACCTAATTAAATTAAAA
40511122 ACCCTAACCTAATTAAATTAAAAACCCTAA
62 ACCCTAACCTAATTAAATTAAAAACCCTAA
40511152 ACCCTAAACTTAAAAACCCTAAACCCTAACCTAATGAACTTAAAAACCCTAACCTAATTAAATTA
1 ACCCTAAACTT---AA----AAACCCTAACCTAATGAACTTAAAAACCCTAACCTAATTAAATTA
* **
40511217 AAAACCCTAACCTAATTTAATTAAAAATTCTAA
59 AAAACCCTAACCTAATTAAATTAAAAACCCTAA
* * *
40511250 ACCCTAAACTTAAAAACCATAACCTAATTTAA-TTAAAAACCCTAAACCT-A--AACTTAAAAAC
1 ACCCTAAACTTAAAAACCCTAACCTAA-TGAACTTAAAAACCCT-AACCTAATTAAATTAAAAAC
* * *
40511311 CCTAAACTAATTTAATTAAAAACCTTAA
64 CCTAACCTAATTAAATTAAAAACCCTAA
* * * * *
40511339 ACCCTAAATTTAAAAACCCTAACTTAATTAAATTAAAAATCCTAACCTAATTAAATTAAAAACCC
1 ACCCTAAACTTAAAAACCCTAACCTAATGAACTTAAAAACCCTAACCTAATTAAATTAAAAACCC
*
40511404 TAACGTAATTAAATTAAAAACCCTAA
66 TAACCTAATTAAATTAAAAACCCTAA
* *** *
40511430 ACCCTAAACCCT--AAA--C---CCT-A--AACTTAAAAACCCTAACCCCCTTAACTTAAAAACC
1 ACCCTAAA-CTTAAAAACCCTAACCTAATGAACTTAAAAACCCTAACCTAATTAAATTAAAAACC
*
40511485 CTAACCTAATTAAATTATAAACCCTAA
65 CTAACCTAATTAAATTAAAAACCCTAA
40511512 CCTAATTTAA
Statistics
Matches: 797, Mismatches: 59, Indels: 103
0.83 0.06 0.11
Matches are distributed among these distances:
82 54 0.07
84 1 0.00
85 2 0.00
87 6 0.01
88 24 0.03
89 104 0.13
90 118 0.15
91 372 0.47
92 29 0.04
93 4 0.01
95 8 0.01
96 6 0.01
97 28 0.04
98 41 0.05
ACGTcount: A:0.49, C:0.25, G:0.01, T:0.25
Consensus pattern (91 bp):
ACCCTAAACTTAAAAACCCTAACCTAATGAACTTAAAAACCCTAACCTAATTAAATTAAAAACCC
TAACCTAATTAAATTAAAAACCCTAA
Found at i:40511476 original size:23 final size:23
Alignment explanation
Indices: 40511435--40511513 Score: 88
Period size: 23 Copynumber: 3.5 Consensus size: 23
40511425 CCTAAACCCT
* *
40511435 AAACCCTAA-ACCCTAAACTTAA
1 AAACCCTAACCCCCTTAACTTAA
40511457 AAACCCTAACCCCCTTAACTTAA
1 AAACCCTAACCCCCTTAACTTAA
*** * *
40511480 AAACCCTAACCTAATTAAATTAT
1 AAACCCTAACCCCCTTAACTTAA
40511503 AAACCCTAACC
1 AAACCCTAACC
40511514 TAATTTAATT
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
22 9 0.18
23 40 0.82
ACGTcount: A:0.46, C:0.33, G:0.00, T:0.22
Consensus pattern (23 bp):
AAACCCTAACCCCCTTAACTTAA
Found at i:40511481 original size:105 final size:105
Alignment explanation
Indices: 40511330--40511536 Score: 315
Period size: 105 Copynumber: 2.0 Consensus size: 105
40511320 ATTTAATTAA
* * ** *
40511330 AAACCTTAAACCCTAAATTTAAAAACCCTAACTTAATTAAATTAAAAATCCTAACCTAATTAAAT
1 AAACCCTAAACCCTAAACTTAAAAACCCTAACCCAATTAAATTAAAAACCCTAACCTAATTAAAT
*
40511395 TAAAAACCCTAACGTAATTAAATTAAAAACCCTAAACCCT
66 TAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACCCT
** *
40511435 AAACCCTAAACCCTAAACTTAAAAACCCTAACCCCCTTAACTTAAAAACCCTAACCTAATTAAAT
1 AAACCCTAAACCCTAAACTTAAAAACCCTAACCCAATTAAATTAAAAACCCTAACCTAATTAAAT
* *
40511500 TATAAACCCTAACCTAATTTAATTAAAAACCCTAAAC
66 TAAAAACCCTAACCTAATTAAATTAAAAACCCTAAAC
40511537 TAAATTAATA
Statistics
Matches: 91, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
105 91 1.00
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.25
Consensus pattern (105 bp):
AAACCCTAAACCCTAAACTTAAAAACCCTAACCCAATTAAATTAAAAACCCTAACCTAATTAAAT
TAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACCCT
Found at i:40511514 original size:23 final size:23
Alignment explanation
Indices: 40511448--40511544 Score: 113
Period size: 23 Copynumber: 4.1 Consensus size: 23
40511438 CCCTAAACCC
***
40511448 TAAACTTAAAAACCCTAACCCCCT
1 TAAA-TTAAAAACCCTAACCTAAT
*
40511472 TAACTTAAAAACCCTAACCTAAT
1 TAAATTAAAAACCCTAACCTAAT
*
40511495 TAAATTATAAACCCTAACCTAAT
1 TAAATTAAAAACCCTAACCTAAT
* *
40511518 TTAATTAAAAACCCTAAACTAAAT
1 TAAATTAAAAACCCTAACCT-AAT
40511542 TAA
1 TAA
40511545 TAATTTTACT
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
23 54 0.87
24 8 0.13
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.27
Consensus pattern (23 bp):
TAAATTAAAAACCCTAACCTAAT
Found at i:40511684 original size:116 final size:116
Alignment explanation
Indices: 40511539--40511782 Score: 409
Period size: 116 Copynumber: 2.1 Consensus size: 116
40511529 CCCTAAACTA
* **
40511539 AATTAATAATTTTACTTTCACATAATGTTAGATTTGGAAAAATGTTTTTTCCTGGTACTAACAAT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATG-TTTTGACTGGTACTAACAAT
* * *
40511604 TAATAATTTTATATAATTTGATAA-TTTTACTAATCATTAATACAATTTATC
65 TAATAATTTTACATAATTTGATAATTTTTACTAACCATTAATACAAATTATC
*
40511655 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTTCTAACAATT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
40511720 AATAATTTTACATAATTTGATAATTTTTACTAACCATTAATACAAATTATC
66 AATAATTTTACATAATTTGATAATTTTTACTAACCATTAATACAAATTATC
40511771 AATTAATAATTT
1 AATTAATAATTT
40511783 CACAAACTTT
Statistics
Matches: 120, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
115 40 0.33
116 80 0.67
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.44
Consensus pattern (116 bp):
AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
AATAATTTTACATAATTTGATAATTTTTACTAACCATTAATACAAATTATC
Found at i:40515020 original size:124 final size:123
Alignment explanation
Indices: 40514794--40515141 Score: 507
Period size: 124 Copynumber: 2.8 Consensus size: 123
40514784 CAAACATGCT
* *
40514794 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCAATTTTACAAATTCTTCTCAAATAGCATCCTGTTA
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTT-CAAATTCTTCTCAAATAGCATCCTGCTA
* * * * *
40514859 GAAGCGATTTTATCCTATTTGCTCAGAAACGTGAAAAAAAGTTATTTCTTTCATGACCG
65 GAAGCGATTTTATACTATTTGCTCAAAAACGTCAAAAAAAATTATTTCTTCCATGACCG
* *
40514918 ACTGTAGCAAAAGCCCGTCCACGAGGGCGCGATTTTCTAAATTCTCCTCAAATAGCATCCTGCTA
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTC-AAATTCTTCTCAAATAGCATCCTGCTA
* *
40514983 GAAGCGATTTTATACTATTTGCTCAAAAATGTCAAAAAAAATTATTTCTTCCATGACCT
65 GAAGCGATTTTATACTATTTGCTCAAAAACGTCAAAAAAAATTATTTCTTCCATGACCG
** * *
40515042 ACTGTAGCAAAAGCGCGTCCACGAGGGCATGATTTCACAAATTCTTCTCAAATAGCATTCTGCTA
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTT-TCAAATTCTTCTCAAATAGCATCCTGCTA
* * *
40515107 GAAGCGATTTTATACTATCTGATCAGAAACGTCAA
65 GAAGCGATTTTATACTATTTGCTCAAAAACGTCAA
40515142 CTCGAAATTA
Statistics
Matches: 201, Mismatches: 21, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
123 1 0.00
124 199 0.99
125 1 0.00
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (123 bp):
ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTCAAATTCTTCTCAAATAGCATCCTGCTAG
AAGCGATTTTATACTATTTGCTCAAAAACGTCAAAAAAAATTATTTCTTCCATGACCG
Found at i:40518271 original size:24 final size:24
Alignment explanation
Indices: 40518243--40518290 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
40518233 GAATTTTTAA
* *
40518243 GTTTTAAATTTTTTAAACTGAATT
1 GTTTTAAATTGTTTAAACTCAATT
40518267 GTTTTAAATTGTTTAAACTCAATT
1 GTTTTAAATTGTTTAAACTCAATT
40518291 TTTAAGTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.33, C:0.06, G:0.08, T:0.52
Consensus pattern (24 bp):
GTTTTAAATTGTTTAAACTCAATT
Found at i:40523391 original size:9 final size:9
Alignment explanation
Indices: 40523377--40523403 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
40523367 TTAAGCATAT
40523377 TTTAAATTA
1 TTTAAATTA
40523386 TTTAAATTA
1 TTTAAATTA
40523395 TTTAAATTA
1 TTTAAATTA
40523404 AAACAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TTTAAATTA
Found at i:40524758 original size:20 final size:21
Alignment explanation
Indices: 40524736--40524780 Score: 51
Period size: 20 Copynumber: 2.2 Consensus size: 21
40524726 TTTTCTCTCT
*
40524736 CTTTCT-TTTTCCGTTTT-TTT
1 CTTTCTATTCTCC-TTTTCTTT
40524756 CTTT-TATTCTCCTTTTCTTT
1 CTTTCTATTCTCCTTTTCTTT
40524776 CTTTC
1 CTTTC
40524781 CCTTTTTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.02, C:0.24, G:0.02, T:0.71
Consensus pattern (21 bp):
CTTTCTATTCTCCTTTTCTTT
Found at i:40534807 original size:16 final size:15
Alignment explanation
Indices: 40534786--40534826 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
40534776 GAAGTTGATA
40534786 ATAATTAATATATATT
1 ATAATTAATATA-ATT
*
40534802 ATAATTGATATAATT
1 ATAATTAATATAATT
40534817 ATATATTAAT
1 ATA-ATTAAT
40534827 GATTATCATC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 6 0.27
16 16 0.73
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (15 bp):
ATAATTAATATAATT
Found at i:40542883 original size:5 final size:6
Alignment explanation
Indices: 40542866--40542898 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
40542856 TACATAATAT
40542866 ATAAAA ATAAAA ATAAAA AT-AAA ATAAACA ATA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAA-A ATA
40542899 TGTTACAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
5 5 0.20
6 16 0.64
7 4 0.16
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (6 bp):
ATAAAA
Found at i:40547587 original size:454 final size:453
Alignment explanation
Indices: 40546810--40547707 Score: 1566
Period size: 454 Copynumber: 2.0 Consensus size: 453
40546800 TGACCCACTA
40546810 AAAAAGGGTAGTCCTATACATGCCATTTCAAAGTTCAACCAAAAGTATACCAAAAGGAGCTTTGA
1 AAAAAGGGTAGTCCTATACATGCCATTTCAAAGTTCAACCAAAAGTATACCAAAAGGAGCTTTGA
*
40546875 TAGTGTGGGCGACTTCGACATCAAGATCCCGAGTCCGATAGCTGGAGAACCAAAATCTATAAAAC
66 TAGTGTGGGCGACTTCGACATCAAAATCCCGAGTCCGATAGCTGGAGAACCAAAATCTATAAAAC
* * * * *
40546940 AGAGAATCAAGGAGACGGAGTAAGCAATTTATGCTTAGTAAGTTTTGAGCAAGGGATTCCAGCAC
131 AGAGAATCAAAGAAACGGAGTAAGCAATTAATGCTTAGTAAGTTTTGAGCAAAGAATTCCAGCAC
*
40547005 AACAAAAGTATAGCATTCATGTAGCTAAACAGATAATTCCATATGCACAAATTTTCAATATCGTA
196 AACAAAAGTATAGCATTCATGTAGCTAAACAGATAATTCCATATGCACAAATTTTCAATATCATA
*
40547070 CTTACGTCACATTACCAACTCTTATATTCATACACAAAGATCAACTTAGCCAAAGGCCGGTAGCT
261 CTTACGTCACATTACCAACCCTTATATTCATACACAAAGATCAACTTAGCCAAAGGCCGGTAGCT
40547135 CATTTATCAACTGAGCGAATACTTATTTGTAAGGGCTCAACTAATTCAAAGCACATACGAAACAT
326 CATTTATCAACTGAGCGAATACTTATTTGTAAGGGCTCAACTAATTCAAAGCACATACGAAACAT
40547200 ACCTCAATGTTGGGATGTTACAAGCGTATTAACTGAAATTTTTACAGCAAGATCATTCACAAC
391 ACCTCAATGTTGGGATGTTACAAGCGTATTAACTGAAATTTTTACAGCAAGATCATTCACAAC
* * * * *
40547263 AAAACGGGTAGTCCTATACATGCCATTTCGAAGTTCAACCAAAATTGTACCAAAAGGGGGCTTTG
1 AAAAAGGGTAGTCCTATACATGCCATTTCAAAGTTCAACCAAAAGTATACCAAAA-GGAGCTTTG
*
40547328 ATAGTGTGGGCGACTTCGACTTCAAAATCCCGAGTCCGATAGCTGGAGAACCAAAATCTATAAAA
65 ATAGTGTGGGCGACTTCGACATCAAAATCCCGAGTCCGATAGCTGGAGAACCAAAATCTATAAAA
*
40547393 CAGAGAATCAAAGAAACGGAGTAAGC-ATTAAATGCTTAGTAAGTTTTGAGCAAAGAATT-TAGA
130 CAGAGAATCAAAGAAACGGAGTAAGCAATT-AATGCTTAGTAAGTTTTGAGCAAAGAATTCCAG-
* * * *
40547456 CACAACCAAAGTATAGCATTCATGTAGCTAAACGGATAATTTCATATGCACAATTTTTCAATATC
193 CACAACAAAAGTATAGCATTCATGTAGCTAAACAGATAATTCCATATGCACAAATTTTCAATATC
* *
40547521 ATACTTACTTCACATTACCAACCCTTTTATTCATACACAAAGATCAACTTAGCCAAAGGCCGGTA
258 ATACTTACGTCACATTACCAACCCTTATATTCATACACAAAGATCAACTTAGCCAAAGGCCGGTA
40547586 GCTCATTTATCAACTGAGCGAATACTTATTTGTAAGGGCTCAACTAATTCAAAGCACATACGAAA
323 GCTCATTTATCAACTGAGCGAATACTTATTTGTAAGGGCTCAACTAATTCAAAGCACATACGAAA
40547651 CATACCTCAATGTTGGGATGTTACAAGCGTATTAACTGAAATTTTTACAGCAAGATC
388 CATACCTCAATGTTGGGATGTTACAAGCGTATTAACTGAAATTTTTACAGCAAGATC
40547708 GCTCATTCCC
Statistics
Matches: 421, Mismatches: 21, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
453 56 0.13
454 365 0.87
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (453 bp):
AAAAAGGGTAGTCCTATACATGCCATTTCAAAGTTCAACCAAAAGTATACCAAAAGGAGCTTTGA
TAGTGTGGGCGACTTCGACATCAAAATCCCGAGTCCGATAGCTGGAGAACCAAAATCTATAAAAC
AGAGAATCAAAGAAACGGAGTAAGCAATTAATGCTTAGTAAGTTTTGAGCAAAGAATTCCAGCAC
AACAAAAGTATAGCATTCATGTAGCTAAACAGATAATTCCATATGCACAAATTTTCAATATCATA
CTTACGTCACATTACCAACCCTTATATTCATACACAAAGATCAACTTAGCCAAAGGCCGGTAGCT
CATTTATCAACTGAGCGAATACTTATTTGTAAGGGCTCAACTAATTCAAAGCACATACGAAACAT
ACCTCAATGTTGGGATGTTACAAGCGTATTAACTGAAATTTTTACAGCAAGATCATTCACAAC
Found at i:40547906 original size:79 final size:81
Alignment explanation
Indices: 40547763--40547945 Score: 216
Period size: 79 Copynumber: 2.3 Consensus size: 81
40547753 TACTCGTTCA
* *
40547763 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACTCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACTCGGA
* *
40547827 TTTAGTAAC-TCGCACC
66 TATAGTAACTTAGCA-C
* *
40547843 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTC-GGATCTT-AGTCCG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACT-CG
* *
40547904 GATATGGTCACTTAGCAC
64 GATATAGTAACTTAGCAC
*
40547922 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
40547946 CATCATTCGA
Statistics
Matches: 89, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
78 5 0.06
79 56 0.63
80 28 0.31
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACTCGGA
TATAGTAACTTAGCAC
Found at i:40547945 original size:40 final size:40
Alignment explanation
Indices: 40547742--40547945 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
40547732 CGGAATTTAA
** *
40547742 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
40547782 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
40547822 TCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
40547861 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
40547901 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
40547941 CCGGA
1 CCGGA
40547946 CATCATTCGA
Statistics
Matches: 137, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
38 2 0.01
39 31 0.23
40 92 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:40550399 original size:33 final size:33
Alignment explanation
Indices: 40550362--40550433 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
40550352 ACGTTCATAG
** *
40550362 TGCCATAACCGGGTTAGGGTCTTATCATCAAGA
1 TGCCATAACCCAGCTAGGGTCTTATCATCAAGA
* * *
40550395 TGCCATAGCCCAGCTATGGTCTTATCATCAGGA
1 TGCCATAACCCAGCTAGGGTCTTATCATCAAGA
40550428 TGCCAT
1 TGCCAT
40550434 TGGCTAGCTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (33 bp):
TGCCATAACCCAGCTAGGGTCTTATCATCAAGA
Found at i:40550443 original size:33 final size:33
Alignment explanation
Indices: 40550379--40550451 Score: 101
Period size: 33 Copynumber: 2.2 Consensus size: 33
40550369 ACCGGGTTAG
40550379 GGTCTTATCATCAAGATGCCATAGCCCAGCTAT
1 GGTCTTATCATCAAGATGCCATAGCCCAGCTAT
* * * *
40550412 GGTCTTATCATCAGGATGCCATTGGCTAGCTAT
1 GGTCTTATCATCAAGATGCCATAGCCCAGCTAT
*
40550445 GGCCTTA
1 GGTCTTA
40550452 CGTATATACA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.23, C:0.25, G:0.22, T:0.30
Consensus pattern (33 bp):
GGTCTTATCATCAAGATGCCATAGCCCAGCTAT
Found at i:40575247 original size:174 final size:174
Alignment explanation
Indices: 40574955--40575282 Score: 584
Period size: 174 Copynumber: 1.9 Consensus size: 174
40574945 AACTCAAGGT
* *
40574955 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
**
40575020 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGTGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
40575085 ACTTTAAACTCACACACTTAGTGCCATGTATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGTATTTCAAGTTCGCAC
* *
40575129 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAGTAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
40575194 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
40575259 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
40575283 TGTACAATTT
Statistics
Matches: 146, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 146 1.00
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGTATTTCAAGTTCGCAC
Found at i:40575274 original size:29 final size:30
Alignment explanation
Indices: 40575235--40575313 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
40575225 CTTAATAATC
40575235 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
40575265 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
40575294 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
40575314 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:40584917 original size:16 final size:16
Alignment explanation
Indices: 40584893--40584966 Score: 57
Period size: 15 Copynumber: 4.9 Consensus size: 16
40584883 CACTATAGTA
*
40584893 TCAGTATCTATAGTTT
1 TCAGAATCTATAGTTT
*
40584909 TCAGAATCTAAAG-TT
1 TCAGAATCTATAGTTT
* *
40584924 TCA-CA-GTATAGTTT
1 TCAGAATCTATAGTTT
* *
40584938 TCAAAATCTAGAG-TT
1 TCAGAATCTATAGTTT
*
40584953 TCATAATCTATAGT
1 TCAGAATCTATAGT
40584967 ATTCTATACT
Statistics
Matches: 44, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
13 4 0.09
14 6 0.14
15 19 0.43
16 15 0.34
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.41
Consensus pattern (16 bp):
TCAGAATCTATAGTTT
Found at i:40591953 original size:51 final size:52
Alignment explanation
Indices: 40591737--40592078 Score: 303
Period size: 51 Copynumber: 6.8 Consensus size: 52
40591727 TTTTATCATT
** *
40591737 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGGTC--AGTTTTAC
1 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTAC
* * * *
40591787 AG-TTCACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAGTTTTAC
1 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTAC
* * * * *
40591837 GGCT-CACGTAGTAGCCTTCACATAGTACTACATATGTGACCAAAGCTTT-T
1 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTAC
* * * * * * **
40591887 CGGTATC-CATTGTAGCCTTCACTTAGTACTACACATGTAACCGTAG-TTTAC
1 CGATA-CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTAC
* * *
40591938 CGATACACGTAGTAGCATTCACACAGTACTACACACGTG-CTCAAAGCTTT-T
1 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGAC-CAAAGCTTTAC
* * * * *
40591989 CGATACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATTA--TTTAT
1 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AAGCTTTAC
* *
40592040 CGATACACGTAGTAGCCTCCACACAGTACTACACACGTG
1 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTG
40592079 TTCATCGACA
Statistics
Matches: 239, Mismatches: 41, Indels: 23
0.79 0.14 0.08
Matches are distributed among these distances:
49 37 0.15
50 54 0.23
51 142 0.59
52 6 0.03
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (52 bp):
CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTAC
Found at i:40591983 original size:102 final size:102
Alignment explanation
Indices: 40591737--40592078 Score: 396
Period size: 102 Copynumber: 3.4 Consensus size: 102
40591727 TTTTATCATT
* * * *
40591737 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGGTC--AG-TTTTACAGT-TCACGTAG
1 CGATACACGTAGTAGCCTTCACACAGTACTACACACGTGCTCAAAGCTTTT-CGGTATCACATAG
* * * *
40591798 TAGCCTTCACATAGTACTACACACGTGATCAAGTTTTAC
65 TAGCCTTCACTTAGTACTACACATGTGACCTAG-TTTAC
* * * * * *
40591837 GGCT-CACGTAGTAGCCTTCACATAGTACTACATATGTGAC-CAAAGCTTTTCGGTATC-CATTG
1 CGATACACGTAGTAGCCTTCACACAGTACTACACACGTG-CTCAAAGCTTTTCGGTATCACATAG
*
40591899 TAGCCTTCACTTAGTACTACACATGTAACCGTAGTTTAC
65 TAGCCTTCACTTAGTACTACACATGTGACC-TAGTTTAC
* *
40591938 CGATACACGTAGTAGCATTCACACAGTACTACACACGTGCTCAAAGCTTTTCGATA-CACATAGT
1 CGATACACGTAGTAGCCTTCACACAGTACTACACACGTGCTCAAAGCTTTTCGGTATCACATAGT
*
40592002 AGCCTTCACTTAGTACTACACATGTGACCATTA-TTTAT
66 AGCCTTCACTTAGTACTACACATGTGACC--TAGTTTAC
*
40592040 CGATACACGTAGTAGCCTCCACACAGTACTACACACGTG
1 CGATACACGTAGTAGCCTTCACACAGTACTACACACGTG
40592079 TTCATCGACA
Statistics
Matches: 206, Mismatches: 26, Indels: 18
0.82 0.10 0.07
Matches are distributed among these distances:
99 33 0.16
100 2 0.01
101 43 0.21
102 126 0.61
103 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (102 bp):
CGATACACGTAGTAGCCTTCACACAGTACTACACACGTGCTCAAAGCTTTTCGGTATCACATAGT
AGCCTTCACTTAGTACTACACATGTGACCTAGTTTAC
Found at i:40592055 original size:153 final size:149
Alignment explanation
Indices: 40591735--40592077 Score: 383
Period size: 153 Copynumber: 2.3 Consensus size: 149
40591725 ATTTTTATCA
* *
40591735 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGGTCAGTTTTACAGTTCACGTAGTA
1 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTCGTCAGTTTTACAGTACACGTAGTA
* * * *
40591800 GCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGCTCACGTAGTAGCCTTCACATAGTAC
66 GCATTCACACAGTACTACACACGTGATCAAGTTTTACGGATCACATAGTAGCCTTCACATAGTAC
*
40591865 TACATATGTGACCAAAGCTT
131 TACACATGTGACCAAA-CTT
* * * * * *
40591885 TTCGGTATC-CATTGTAGCCTTCACTTAGTACTACACATGTAACCGT-AG-TTTACCGATACACG
1 TTCGATA-CACGTAGTAGCCTTCACATAGTACTACACACGT---CGTCAGTTTTACAG-TACACG
*
40591947 TAGTAGCATTCACACAGTACTACACACGTGCTCAAAGCTTTT-C-GATACACATAGTAGCCTTCA
61 TAGTAGCATTCACACAGTACTACACACGTGATC-AAG-TTTTACGGAT-CACATAGTAGCCTTCA
* *
40592010 CTTAGTACTACACATGTGACCATTA-TT
123 CATAGTACTACACATGTGACCA-AACTT
* *
40592037 TATCGATACACGTAGTAGCCTCCACACAGTACTACACACGT
1 T-TCGATACACGTAGTAGCCTTCACATAGTACTACACACGT
40592078 GTTCATCGAC
Statistics
Matches: 159, Mismatches: 23, Indels: 19
0.79 0.11 0.09
Matches are distributed among these distances:
150 33 0.21
151 7 0.04
152 43 0.27
153 71 0.45
154 5 0.03
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (149 bp):
TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTCGTCAGTTTTACAGTACACGTAGTA
GCATTCACACAGTACTACACACGTGATCAAGTTTTACGGATCACATAGTAGCCTTCACATAGTAC
TACACATGTGACCAAACTT
Found at i:40592874 original size:10 final size:10
Alignment explanation
Indices: 40592859--40592918 Score: 66
Period size: 11 Copynumber: 5.6 Consensus size: 10
40592849 GAATCTTGAA
*
40592859 AAAATTAATC
1 AAAATTAATT
40592869 AAAATTTAATAT
1 AAAA-TTAAT-T
40592881 AAAATTAATT
1 AAAATTAATT
*
40592891 AAAATTTATTAT
1 AAAA-TTAAT-T
40592903 AAAATTAATT
1 AAAATTAATT
40592913 AAAATT
1 AAAATT
40592919 CAACATGTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
10 16 0.37
11 18 0.42
12 9 0.21
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (10 bp):
AAAATTAATT
Found at i:40592887 original size:22 final size:22
Alignment explanation
Indices: 40592859--40592918 Score: 102
Period size: 22 Copynumber: 2.7 Consensus size: 22
40592849 GAATCTTGAA
*
40592859 AAAATTAATCAAAATTTAATAT
1 AAAATTAATTAAAATTTAATAT
*
40592881 AAAATTAATTAAAATTTATTAT
1 AAAATTAATTAAAATTTAATAT
40592903 AAAATTAATTAAAATT
1 AAAATTAATTAAAATT
40592919 CAACATGTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
AAAATTAATTAAAATTTAATAT
Found at i:40594900 original size:28 final size:27
Alignment explanation
Indices: 40594837--40594988 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
40594827 TTATTAAGTC
* *
40594837 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
40594864 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
*
40594892 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
40594919 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
40594947 CGCACACTTAGTGCTACATATTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
40594974 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
40594989 GCACAATTTA
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 66 0.56
28 52 0.44
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:40594921 original size:55 final size:55
Alignment explanation
Indices: 40594837--40595013 Score: 255
Period size: 55 Copynumber: 3.2 Consensus size: 55
40594827 TTATTAAGTC
* *
40594837 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* *
40594892 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* * * * * *
40594947 CGCACACTTAGTGCTACATATTCAATTCGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAA-TCAAACT
40595003 CGCACACTTAG
1 CGCACACTTAG
40595014 CGCCAATCTC
Statistics
Matches: 110, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
55 94 0.85
56 16 0.15
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:40598804 original size:12 final size:12
Alignment explanation
Indices: 40598787--40598812 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
40598777 ACCTCAAAGA
40598787 TTTTATAAATAT
1 TTTTATAAATAT
40598799 TTTTATAAATAT
1 TTTTATAAATAT
40598811 TT
1 TT
40598813 ATGGAGTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TTTTATAAATAT
Found at i:40600548 original size:51 final size:51
Alignment explanation
Indices: 40600472--40600582 Score: 186
Period size: 51 Copynumber: 2.2 Consensus size: 51
40600462 GATCAGTAAT
40600472 AAGTGATAAGTAGTAGCTTCAGCTACACTTATCTGATCAGTGACAAGTGAC
1 AAGTGATAAGTAGTAGCTTCAGCTACACTTATCTGATCAGTGACAAGTGAC
* * * *
40600523 AAGTGATAAGTGGTAGCTTTAGCTACACTTATTTGTTCAGTGACAAGTGAC
1 AAGTGATAAGTAGTAGCTTCAGCTACACTTATCTGATCAGTGACAAGTGAC
40600574 AAGTGATAA
1 AAGTGATAA
40600583 ATGTGATGTA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (51 bp):
AAGTGATAAGTAGTAGCTTCAGCTACACTTATCTGATCAGTGACAAGTGAC
Found at i:40601875 original size:25 final size:26
Alignment explanation
Indices: 40601847--40601901 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 26
40601837 TAATTAGTAT
*
40601847 AAAATATT-AATAATTCAATAAAATG
1 AAAATATTAAATAATTAAATAAAATG
40601872 AAAA-ATTAAATAATTAAATAAAATG
1 AAAATATTAAATAATTAAATAAAATG
*
40601897 GAAAT
1 AAAAT
40601902 TTATGAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 3 0.12
25 23 0.88
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (26 bp):
AAAATATTAAATAATTAAATAAAATG
Found at i:40602591 original size:16 final size:15
Alignment explanation
Indices: 40602566--40602599 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
40602556 AAAGTTGATA
*
40602566 ATAATTAATATATATT
1 ATAATAAATATA-ATT
40602582 ATAATAAATATAATT
1 ATAATAAATATAATT
40602597 ATA
1 ATA
40602600 TACTAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:40606499 original size:50 final size:52
Alignment explanation
Indices: 40606390--40606499 Score: 134
Period size: 50 Copynumber: 2.2 Consensus size: 52
40606380 TTAACGCAAG
* * * *
40606390 ACTTAATTTAATGATGCAGGCTTAAACTAACATGGGAGTTACATAATGCATG
1 ACTTTATTTAATGATGCAGACTTAAACTAACATGGAAGTTACATAATGCATA
* * * *
40606442 TCATTATTT-ATGATGCATACTT-AACTATCATGGAAGTTACATAATGCATA
1 ACTTTATTTAATGATGCAGACTTAAACTAACATGGAAGTTACATAATGCATA
40606492 ACTTTATT
1 ACTTTATT
40606500 AAATCCAGAA
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
50 31 0.65
51 11 0.23
52 6 0.12
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36
Consensus pattern (52 bp):
ACTTTATTTAATGATGCAGACTTAAACTAACATGGAAGTTACATAATGCATA
Found at i:40619662 original size:79 final size:81
Alignment explanation
Indices: 40619562--40619746 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 81
40619552 GCTCCTCGTT
* *
40619562 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAACC
*
40619624 CGGATTTAGTAAC-TCGCA
63 CGGATATAGTAACTTCGCA
* **
40619642 CAAATGCCTTCGAG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
40619706 ATATGGTCACTTCGCA
66 ATATAGTAACTTCGCA
40619722 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
40619747 CATCATTCAA
Statistics
Matches: 91, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
78 5 0.05
79 52 0.57
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTCGCA
Found at i:40619746 original size:40 final size:40
Alignment explanation
Indices: 40619562--40619746 Score: 211
Period size: 40 Copynumber: 4.7 Consensus size: 40
40619552 GCTCCTCGTT
* * *
40619562 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTACTTCGCA
* *
40619602 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ACTTCGCA
*
40619642 CAAATGCCTTCGAG-CTTAGCCCGGA-ATTAGTA-TCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTACT-TCGCA
* *
40619681 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGT-ACTTCGCA
40619722 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
40619747 CATCATTCAA
Statistics
Matches: 123, Mismatches: 12, Indels: 20
0.79 0.08 0.13
Matches are distributed among these distances:
38 2 0.02
39 30 0.24
40 75 0.61
41 15 0.12
42 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTACTTCGCA
Found at i:40622999 original size:33 final size:33
Alignment explanation
Indices: 40622915--40623001 Score: 111
Period size: 33 Copynumber: 2.6 Consensus size: 33
40622905 AGTCTTCCAA
** * * *
40622915 GACAGTAAACATGGAACAGAGATAGTCTGTTGG
1 GACAGTAAACACAGAATAGAGATACTCTGCTGG
* *
40622948 GACAGTAAACACAAAATAGAGATACTTTGCTGG
1 GACAGTAAACACAGAATAGAGATACTCTGCTGG
40622981 GACAGTAAACACAGAATAGAG
1 GACAGTAAACACAGAATAGAG
40623002 TAAGTCCATC
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.43, C:0.14, G:0.25, T:0.18
Consensus pattern (33 bp):
GACAGTAAACACAGAATAGAGATACTCTGCTGG
Found at i:40623923 original size:31 final size:31
Alignment explanation
Indices: 40623882--40623945 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
40623872 GTAAGGGGGA
40623882 AAGAGGAAGGAAGGAAAGATGAGAAGTAAGG
1 AAGAGGAAGGAAGGAAAGATGAGAAGTAAGG
*
40623913 AAGAGTAAGGAAGGAAAGATGAGAAGTAAGG
1 AAGAGGAAGGAAGGAAAGATGAGAAGTAAGG
40623944 AA
1 AA
40623946 TGGATTCGCT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.53, C:0.00, G:0.39, T:0.08
Consensus pattern (31 bp):
AAGAGGAAGGAAGGAAAGATGAGAAGTAAGG
Found at i:40624637 original size:50 final size:50
Alignment explanation
Indices: 40624578--40624678 Score: 193
Period size: 50 Copynumber: 2.0 Consensus size: 50
40624568 TATAGGATTT
40624578 TTCCTATATAATTCATCACCTTTTTACTTAAAATTATTGTTAAAACCAAG
1 TTCCTATATAATTCATCACCTTTTTACTTAAAATTATTGTTAAAACCAAG
*
40624628 TTCCTATATAATTCATCACCTTTTTACTTAAAATTGTTGTTAAAACCAAG
1 TTCCTATATAATTCATCACCTTTTTACTTAAAATTATTGTTAAAACCAAG
40624678 T
1 T
40624679 AATTTTTTAA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.35, C:0.18, G:0.05, T:0.43
Consensus pattern (50 bp):
TTCCTATATAATTCATCACCTTTTTACTTAAAATTATTGTTAAAACCAAG
Found at i:40625340 original size:16 final size:17
Alignment explanation
Indices: 40625315--40625349 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
40625305 CAATCATCCT
40625315 TCATCCCTCATCC-CTC
1 TCATCCCTCATCCTCTC
*
40625331 TCATCTCTCATCCTCTC
1 TCATCCCTCATCCTCTC
40625348 TC
1 TC
40625350 TCAAATATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.11, C:0.51, G:0.00, T:0.37
Consensus pattern (17 bp):
TCATCCCTCATCCTCTC
Found at i:40627187 original size:39 final size:39
Alignment explanation
Indices: 40627133--40627211 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
40627123 AGCTAGCGGA
*
40627133 TCGATCTTTAGCATATCCCGAAGGAAAGATTGAGGATGT
1 TCGATCTTTAGCATATCCCGAAGGAAAGATCGAGGATGT
40627172 TCGATCTTTAGCATATCCCGAAGGAAAGATCGAGGATGT
1 TCGATCTTTAGCATATCCCGAAGGAAAGATCGAGGATGT
40627211 T
1 T
40627212 TTGGTAAGAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.28
Consensus pattern (39 bp):
TCGATCTTTAGCATATCCCGAAGGAAAGATCGAGGATGT
Found at i:40628644 original size:683 final size:683
Alignment explanation
Indices: 40627339--40628720 Score: 2703
Period size: 683 Copynumber: 2.0 Consensus size: 683
40627329 ATTGATGTGT
40627339 AGAAAGGT-GAACTCACCATGCGAGTTCAAGTCGATCAGGTAACCTTTAATATTCTTAAAGCAAT
1 AGAAAGGTGGAA-TCACCATGCGAGTTCAAGTCGATCAGGTAACCTTTAATATTCTTAAAGCAAT
*
40627403 GAAATTTCTCGATCCGGCAGAGGAGTGTTCAATTATAAAAGAGATAGAAACCTTTGTTTCTTTGG
65 GAAATTTCTCGATCCGACAGAGGAGTGTTCAATTATAAAAGAGATAGAAACCTTTGTTTCTTTGG
40627468 AAAGTAATTTTAAAGAAGATTCATTGGAGAAAGCTTTAGATCTTGACCATTTGGAGTATGAAGAA
130 AAAGTAATTTTAAAGAAGATTCATTGGAGAAAGCTTTAGATCTTGACCATTTGGAGTATGAAGAA
40627533 GGTGAAGAAAACATGGTTTTGATGAAATCCAATTCGAGAAATCATATTCAATCCACACGGTTTGA
195 GGTGAAGAAAACATGGTTTTGATGAAATCCAATTCGAGAAATCATATTCAATCCACACGGTTTGA
40627598 ACCGTTGGAGTTGGAAGTCAGAGAATTTGTACAACCCAAGTTGTCAATCGAAGAACCACCTAAAC
260 ACCGTTGGAGTTGGAAGTCAGAGAATTTGTACAACCCAAGTTGTCAATCGAAGAACCACCTAAAC
40627663 TCGAACTAAAGGTACTTCCTTCCCATTTGAAATACGTGTATTTAGGTGATTGTTCTACTTTTCCT
325 TCGAACTAAAGGTACTTCCTTCCCATTTGAAATACGTGTATTTAGGTGATTGTTCTACTTTTCCT
40627728 GTGATTATTTCAGTGGAACTGACAAAAGATTAAGAGGAGCGATTAATTGCTGTTCTAAAGAAATT
390 GTGATTATTTCAGTGGAACTGACAAAAGATTAAGAGGAGCGATTAATTGCTGTTCTAAAGAAATT
40627793 TAAGAAAGTAATTGGTTGGACCATAGCTGATATTCGAGGTATAAGCCCTTTTTTTGCATGCATAA
455 TAAGAAAGTAATTGGTTGGACCATAGCTGATATTCGAGGTATAAGCCCTTTTTTTGCATGCATAA
40627858 AATCATTTTAAAAGAAGGTGAAAGAGCTAGAATTGATAGGCAAATGAGGCTCAATCCTATTATGA
520 AATCATTTTAAAAGAAGGTGAAAGAGCTAGAATTGATAGGCAAATGAGGCTCAATCCTATTATGA
40627923 AAGAAGTTGTGAGAAAGGAAGTAATCAAATGGCTAGATGAAGGAATCATCTATCCTATTTCAAAT
585 AAGAAGTTGTGAGAAAGGAAGTAATCAAATGGCTAGATGAAGGAATCATCTATCCTATTTCAAAT
40627988 AGTTCGTGGGCAAGTCCGGTGTCGTGTGTGCCGA
650 AGTTCGTGGGCAAGTCCGGTGTCGTGTGTGCCGA
40628022 AGAAAGGTGGAATCACCATGCGAGTTCAAGTCGATCAGGTAACCTTTAATATTCTTAAAGCAATG
1 AGAAAGGTGGAATCACCATGCGAGTTCAAGTCGATCAGGTAACCTTTAATATTCTTAAAGCAATG
**
40628087 AAATTTCTCGATCCGACAGAGGAGTGTTCAATTATGGAAGAGATAGAAACCTTTGTTTCTTTGGA
66 AAATTTCTCGATCCGACAGAGGAGTGTTCAATTATAAAAGAGATAGAAACCTTTGTTTCTTTGGA
40628152 AAGTAATTTTAAAGAAGATTCATTGGAGAAAGCTTTAGATCTTGACCATTTGGAGTATGAAGAAG
131 AAGTAATTTTAAAGAAGATTCATTGGAGAAAGCTTTAGATCTTGACCATTTGGAGTATGAAGAAG
40628217 GTGAAGAAAACATGGTTTTGATGAAATCCAATTCGAGAAATCATATTCAATCCACACGGTTTGAA
196 GTGAAGAAAACATGGTTTTGATGAAATCCAATTCGAGAAATCATATTCAATCCACACGGTTTGAA
40628282 CCGTTGGAGTTGGAAGTCAGAGAATTTGTACAACCCAAGTTGTCAATCGAAGAACCACCTAAACT
261 CCGTTGGAGTTGGAAGTCAGAGAATTTGTACAACCCAAGTTGTCAATCGAAGAACCACCTAAACT
40628347 CGAACTAAAGGTACTTCCTTCCCATTTGAAATACGTGTATTTAGGTGATTGTTCTACTTTTCCTG
326 CGAACTAAAGGTACTTCCTTCCCATTTGAAATACGTGTATTTAGGTGATTGTTCTACTTTTCCTG
40628412 TGATTATTTCAGTGGAACTGACAAAAGATTAAGAGGAGCGATTAATTGCTGTTCTAAAGAAATTT
391 TGATTATTTCAGTGGAACTGACAAAAGATTAAGAGGAGCGATTAATTGCTGTTCTAAAGAAATTT
40628477 AAGAAAGTAATTGGTTGGACCATAGCTGATATTCGAGGTATAAGCCCTTTTTTTGCATGCATAAA
456 AAGAAAGTAATTGGTTGGACCATAGCTGATATTCGAGGTATAAGCCCTTTTTTTGCATGCATAAA
40628542 ATCATTTTAAAAGAAGGTGAAAGAGCTAGAATTGATAGGCAAATGAGGCTCAATCCTATTATGAA
521 ATCATTTTAAAAGAAGGTGAAAGAGCTAGAATTGATAGGCAAATGAGGCTCAATCCTATTATGAA
*
40628607 AGAAGTTGTGAGAAAGGAAGTGATCAAATGGCTAGATGAAGGAATCATCTATCCTATTTCAAATA
586 AGAAGTTGTGAGAAAGGAAGTAATCAAATGGCTAGATGAAGGAATCATCTATCCTATTTCAAATA
40628672 GTTCGTGGGCAAGTCCGGTGTCGTGTGTGCCGA
651 GTTCGTGGGCAAGTCCGGTGTCGTGTGTGCCGA
*
40628705 AGAACGGTGGAATCAC
1 AGAAAGGTGGAATCAC
40628721 GATTGTTGAA
Statistics
Matches: 693, Mismatches: 5, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
683 690 1.00
684 3 0.00
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.29
Consensus pattern (683 bp):
AGAAAGGTGGAATCACCATGCGAGTTCAAGTCGATCAGGTAACCTTTAATATTCTTAAAGCAATG
AAATTTCTCGATCCGACAGAGGAGTGTTCAATTATAAAAGAGATAGAAACCTTTGTTTCTTTGGA
AAGTAATTTTAAAGAAGATTCATTGGAGAAAGCTTTAGATCTTGACCATTTGGAGTATGAAGAAG
GTGAAGAAAACATGGTTTTGATGAAATCCAATTCGAGAAATCATATTCAATCCACACGGTTTGAA
CCGTTGGAGTTGGAAGTCAGAGAATTTGTACAACCCAAGTTGTCAATCGAAGAACCACCTAAACT
CGAACTAAAGGTACTTCCTTCCCATTTGAAATACGTGTATTTAGGTGATTGTTCTACTTTTCCTG
TGATTATTTCAGTGGAACTGACAAAAGATTAAGAGGAGCGATTAATTGCTGTTCTAAAGAAATTT
AAGAAAGTAATTGGTTGGACCATAGCTGATATTCGAGGTATAAGCCCTTTTTTTGCATGCATAAA
ATCATTTTAAAAGAAGGTGAAAGAGCTAGAATTGATAGGCAAATGAGGCTCAATCCTATTATGAA
AGAAGTTGTGAGAAAGGAAGTAATCAAATGGCTAGATGAAGGAATCATCTATCCTATTTCAAATA
GTTCGTGGGCAAGTCCGGTGTCGTGTGTGCCGA
Found at i:40632916 original size:16 final size:17
Alignment explanation
Indices: 40632889--40632923 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
40632879 AGAGAGTTGA
40632889 GAGAGAGGATGAGAGAT
1 GAGAGAGGATGAGAGAT
*
40632906 GAGAG-GGATGAGGGAT
1 GAGAGAGGATGAGAGAT
40632922 GA
1 GA
40632924 TTGAAAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.37, C:0.00, G:0.51, T:0.11
Consensus pattern (17 bp):
GAGAGAGGATGAGAGAT
Found at i:40634905 original size:45 final size:45
Alignment explanation
Indices: 40634841--40634927 Score: 147
Period size: 45 Copynumber: 1.9 Consensus size: 45
40634831 CAGATACTCG
*
40634841 GTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTCCT
1 GTGGAATCAGCACATAGCAACCACCTTATTAATCAATGATGTCCT
* *
40634886 GTGGAATCAGCACATAGCAACCGCCTTATTAATTAATGATGT
1 GTGGAATCAGCACATAGCAACCACCTTATTAATCAATGATGT
40634928 TCGGTTCACA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (45 bp):
GTGGAATCAGCACATAGCAACCACCTTATTAATCAATGATGTCCT
Found at i:40634996 original size:51 final size:49
Alignment explanation
Indices: 40634938--40635120 Score: 170
Period size: 51 Copynumber: 3.6 Consensus size: 49
40634928 TCGGTTCACA
* *
40634938 TAGTAGCCTGCACATAGTACTATACATGTGACCATTACCATCTGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATTA-CATC-GATACACG
* * ** * * *
40634989 TAGTAGCCTACACATAGTACTACACACGTGATCAAAACTATCCAGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATTAC-ATCGA-TACACG
* * * * * *
40635040 TAGTAGCCTGCACATAGTACTGCACATGCGACCTATTA-TTCCGGTATACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACC-ATTACAT-CGATACACG
40635090 TAGTAGCCTGCACATAGTACTACACACGTGA
1 TAGTAGCCTGCACATAGTACTACACACGTGA
40635121 TCATCACTTT
Statistics
Matches: 103, Mismatches: 25, Indels: 9
0.75 0.18 0.07
Matches are distributed among these distances:
50 34 0.33
51 67 0.65
52 2 0.02
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATTACATCGATACACG
Found at i:40635115 original size:101 final size:101
Alignment explanation
Indices: 40634936--40635123 Score: 279
Period size: 101 Copynumber: 1.9 Consensus size: 101
40634926 GTTCGGTTCA
* * *
40634936 CATAGTAGCCTGCACATAGTACTATACATGTGACCATTACCATCTGATACACGTAGTAGCCTACA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATTA-CATCCGATACACGTAGTAGCCTACA
40635001 CATAGTACTACACACGTGATCAAAACTATCCAGTACG
65 CATAGTACTACACACGTGATCAAAACTATCCAGTACG
* * * * *
40635038 CATAGTAGCCTGCACATAGTACTGCACATGCGACCTATTA-TTCCGGTATACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACC-ATTACATCCGATACACGTAGTAGCCTACA
40635102 CATAGTACTACACACGTGATCA
65 CATAGTACTACACACGTGATCA
40635124 TCACTTTCAC
Statistics
Matches: 77, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
101 41 0.53
102 32 0.42
103 4 0.05
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATTACATCCGATACACGTAGTAGCCTACAC
ATAGTACTACACACGTGATCAAAACTATCCAGTACG
Found at i:40642846 original size:50 final size:50
Alignment explanation
Indices: 40642771--40643765 Score: 1765
Period size: 50 Copynumber: 19.9 Consensus size: 50
40642761 TTTCTTGTAT
* * * * * ** * *
40642771 TGCCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTTCATGGGACCTCTCATCTCGG
* ** * * ** *
40642821 TGCCCATACCATGTCCCAAACATGGTCTTACGGGGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTTCATGGGACCTCTCATCTCGG
40642871 TGCCAACGCCATGTCCCAGACATGGTCTTTCATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTTCATGGGACCTCTCATCTCGG
40642921 TGCCAACGCCATGTCCCAGACATGGTCTTTCATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTTCATGGGACCTCTCATCTCGG
40642971 TGCCAACGCCATGTCCCAGACATGGTCTTTCATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTTCATGGGACCTCTCATCTCGG
40643021 TGCCAACGCCATGTCCCAGACATGGTCTTTCATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTTCATGGGACCTCTCATCTCGG
40643071 TGCCAACGCCATGTCCCAGACATGGTCTTTCATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTTCATGGGACCTCTCATCTCGG
40643121 TGCCAACGCCATGTCCCAGACATGGTCTTTCATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTTCATGGGACCTCTCATCTCGG
40643171 TGCCAACGCCATGTCCCAGACATGGTCTTTCATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTTCATGGGACCTCTCATCTCGG
40643221 TGCCAACGCCATGTCCCAGACATGGTCTTTCATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTTCATGGGACCTCTCATCTCGG
40643271 TGCCAACGCCATGTCCCAGACATGGTCTTTCATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTTCATGGGACCTCTCATCTCGG
40643321 TGCCAACGCCATGTCCCAGACATGGTCTTTCATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTTCATGGGACCTCTCATCTCGG
40643371 TGCCAACGCCATGTCCCAGACATGGTCTTTCATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTTCATGGGACCTCTCATCTCGG
40643421 TGCCAACGCCATGTCCCAGACATGGTCTTTCATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTTCATGGGACCTCTCATCTCGG
40643471 TGCCAACGCCATGTCCCAGACATGGTCTTTCATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTTCATGGGACCTCTCATCTCGG
40643521 TGCCAACGCCATGTCCCAGACATGGTCTTTCATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTTCATGGGACCTCTCATCTCGG
40643571 TGCCAACGCCATGTCCCAGACATGGTCTTTCATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTTCATGGGACCTCTCATCTCGG
* **
40643621 TGCCAACGCCATGTCCCAGACATGGTCTTACATAAGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTTCATGGGACCTCTCATCTCGG
* * *
40643671 TGCCAACGCCATGTCCCAAACATGGTCTTACATGAGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTTCATGGGACCTCTCATCTCGG
* *
40643721 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGGCCTCTCAT
1 TGCCAACGCCATGTCCCAGACATGGTCTTTCATGGGACCTCTCAT
40643766 AATCTCAATG
Statistics
Matches: 917, Mismatches: 28, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
50 917 1.00
ACGTcount: A:0.19, C:0.33, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTTCATGGGACCTCTCATCTCGG
Found at i:40646858 original size:16 final size:17
Alignment explanation
Indices: 40646837--40646872 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
40646827 TCAATCATCC
40646837 CTCATCCCTCATCC-CT
1 CTCATCCCTCATCCTCT
*
40646853 CTCATCTCTCATCCTCT
1 CTCATCCCTCATCCTCT
40646870 CTC
1 CTC
40646873 TCAACTCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.11, C:0.53, G:0.00, T:0.36
Consensus pattern (17 bp):
CTCATCCCTCATCCTCT
Found at i:40649365 original size:131 final size:131
Alignment explanation
Indices: 40649131--40649430 Score: 555
Period size: 131 Copynumber: 2.3 Consensus size: 131
40649121 ATGGTCAAGA
40649131 AATTTGGAAATGGATCAAGTAGAGGACTTGAAGAAGTAGAAAAACATTGGTAATAGGAGTTGTAG
1 AATTTGGAAATGGATCAAGTAGAGGACTTGAAGAAGTAGAAAAACATTGGTAATAGGAGTTGTAG
*
40649196 GGGAAACTACACTCCAATATTTTATTTAAGTGAAGAAAAGAAATATAGGAGAAGAGGTGGAATGA
66 GGGAAACTACACTCCAATATTTTATTTAAGTGAAGAAAAGAAATATAGGAGAAGAGGTGGAAGGA
*
40649261 T
131 C
40649262 AATTTGGAAATGGATCAAGTAGAGGACTTGAAGAAGTAGAAAAACATTGGTAATAGGAGTTGTAG
1 AATTTGGAAATGGATCAAGTAGAGGACTTGAAGAAGTAGAAAAACATTGGTAATAGGAGTTGTAG
40649327 GGGAAACTACACTCCAATATTTTATTTAAGTGAAGAAAAGAAATATAGGAGAAGAGGTGGAAGGA
66 GGGAAACTACACTCCAATATTTTATTTAAGTGAAGAAAAGAAATATAGGAGAAGAGGTGGAAGGA
40649392 C
131 C
* * *
40649393 AATTTGGAAAGGGATCAAGTAGAGTACTTGAAAAAGTA
1 AATTTGGAAATGGATCAAGTAGAGGACTTGAAGAAGTA
40649431 TGGACTAACT
Statistics
Matches: 164, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
131 164 1.00
ACGTcount: A:0.43, C:0.06, G:0.27, T:0.24
Consensus pattern (131 bp):
AATTTGGAAATGGATCAAGTAGAGGACTTGAAGAAGTAGAAAAACATTGGTAATAGGAGTTGTAG
GGGAAACTACACTCCAATATTTTATTTAAGTGAAGAAAAGAAATATAGGAGAAGAGGTGGAAGGA
C
Found at i:40665233 original size:50 final size:50
Alignment explanation
Indices: 40665158--40665254 Score: 185
Period size: 50 Copynumber: 1.9 Consensus size: 50
40665148 ACCTCTATCC
*
40665158 GTCAATTCTTGCAACTGAGCTTTCAACTCTTTTAACTCGGTTAGTGCTCT
1 GTCAATTCTTGCAACTAAGCTTTCAACTCTTTTAACTCGGTTAGTGCTCT
40665208 GTCAATTCTTGCAACTAAGCTTTCAACTCTTTTAACTCGGTTAGTGC
1 GTCAATTCTTGCAACTAAGCTTTCAACTCTTTTAACTCGGTTAGTGC
40665255 CATACGATAC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (50 bp):
GTCAATTCTTGCAACTAAGCTTTCAACTCTTTTAACTCGGTTAGTGCTCT
Found at i:40667219 original size:74 final size:74
Alignment explanation
Indices: 40667098--40667244 Score: 285
Period size: 74 Copynumber: 2.0 Consensus size: 74
40667088 CGGTGTCCCT
40667098 TGTGCAGGAGCAGCCGCTACACTTTCAACGTCATCCGCTAAGATTCTTTCTACACCGGGATCCAT
1 TGTGCAGGAGCAGCCGCTACACTTTCAACGTCATCCGCTAAGATTCTTTCTACACCGGGATCCAT
40667163 TTACTAATG
66 TTACTAATG
*
40667172 TGTGCAGGAGCAGCCGCTACACTTTCAATGTCATCCGCTAAGATTCTTTCTACACCGGGATCCAT
1 TGTGCAGGAGCAGCCGCTACACTTTCAACGTCATCCGCTAAGATTCTTTCTACACCGGGATCCAT
40667237 TTACTAAT
66 TTACTAAT
40667245 CAAAACATAA
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 72 1.00
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.29
Consensus pattern (74 bp):
TGTGCAGGAGCAGCCGCTACACTTTCAACGTCATCCGCTAAGATTCTTTCTACACCGGGATCCAT
TTACTAATG
Found at i:40668977 original size:28 final size:27
Alignment explanation
Indices: 40668913--40669064 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
40668903 TTATTAAGTC
* *
40668913 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
40668940 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*
40668968 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
40668995 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
40669023 CGCACACTTAGTGCTACATATTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
40669050 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
40669065 GCACAATTTA
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 66 0.56
28 52 0.44
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:40668997 original size:55 final size:55
Alignment explanation
Indices: 40668913--40669089 Score: 246
Period size: 55 Copynumber: 3.2 Consensus size: 55
40668903 TTATTAAGTC
* * *
40668913 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* *
40668968 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* * * * * *
40669023 CGCACACTTAGTGCTACATATTCAATTCGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAA-TCAAACT
40669079 CGCACACTTAG
1 CGCACACTTAG
40669090 CGCCAATCTC
Statistics
Matches: 109, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
55 93 0.85
56 16 0.15
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:40683864 original size:47 final size:47
Alignment explanation
Indices: 40683801--40684151 Score: 603
Period size: 47 Copynumber: 7.4 Consensus size: 47
40683791 CCCTTCGGGA
* * * *
40683801 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
40683848 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
40683895 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
40683942 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
40683989 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
40684036 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
40684083 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
40684132 CCTATCACATATATATACTT
1 CTTATCACATATATACACTT
40684152 GTACATCAAT
Statistics
Matches: 293, Mismatches: 9, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
47 250 0.85
49 43 0.15
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:40694327 original size:50 final size:50
Alignment explanation
Indices: 40694273--40694379 Score: 126
Period size: 50 Copynumber: 2.1 Consensus size: 50
40694263 ACATGAGACT
* * * * *
40694273 TCTCATATCGG-AGCCTATGCCATGTCTCAGACATGGTCTTATGGGGGACC
1 TCTCATATCGGTA-CCAATGCCATGTCCCAAACATGGTCTAACGGGGGACC
* * *
40694323 TCTCATCTCGGTACCAATGTCATGTCCCAAACATGGTCTAACGTGGGACC
1 TCTCATATCGGTACCAATGCCATGTCCCAAACATGGTCTAACGGGGGACC
40694373 TCTCATA
1 TCTCATA
40694380 ACCTCAATAA
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
50 46 0.98
51 1 0.02
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
TCTCATATCGGTACCAATGCCATGTCCCAAACATGGTCTAACGGGGGACC
Found at i:40701688 original size:20 final size:20
Alignment explanation
Indices: 40701663--40701701 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
40701653 TACTTTCTTC
40701663 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
40701683 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
40701702 AAATACCTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:40702030 original size:50 final size:49
Alignment explanation
Indices: 40701907--40702032 Score: 121
Period size: 49 Copynumber: 2.6 Consensus size: 49
40701897 ATAACATGCC
* * * *
40701907 AATGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCCTGTACTACA
1 AATGCCATGTCCCAGACATGGTCTTACATGAGATGTTTCATATACGACA
* * * * *
40701956 AATGTCATATCCCAAATATGGTCTTACATGAGA-GTTCTCATAT-CGGAGCC
1 AATGCCATGTCCCAGACATGGTCTTACATGAGATGTT-TCATATAC-GA-CA
*
40702006 CATGCCATGTCCCAGACATGGTCTTAC
1 AATGCCATGTCCCAGACATGGTCTTAC
40702033 GGAGGACCTC
Statistics
Matches: 60, Mismatches: 14, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
48 4 0.07
49 33 0.55
50 23 0.38
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.29
Consensus pattern (49 bp):
AATGCCATGTCCCAGACATGGTCTTACATGAGATGTTTCATATACGACA
Found at i:40708898 original size:12 final size:12
Alignment explanation
Indices: 40708881--40708911 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
40708871 ATATTGCAAG
40708881 AAATAATTTCAA
1 AAATAATTTCAA
40708893 AAATAATTTCAA
1 AAATAATTTCAA
40708905 AAATAAT
1 AAATAAT
40708912 GATTAAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.32
Consensus pattern (12 bp):
AAATAATTTCAA
Found at i:40712644 original size:16 final size:16
Alignment explanation
Indices: 40712623--40712653 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
40712613 TCCCGACCCC
*
40712623 ATGCAGTATGTCATGT
1 ATGCAGTATGCCATGT
40712639 ATGCAGTATGCCATG
1 ATGCAGTATGCCATG
40712654 CTCAGAATCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (16 bp):
ATGCAGTATGCCATGT
Found at i:40714184 original size:24 final size:24
Alignment explanation
Indices: 40714135--40714185 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
40714125 TTTTCAAAAT
* * *
40714135 TCCTTGATTTTCTCCCCAATCTCC
1 TCCTTGATTTGCTCCCAAAACTCC
40714159 TCCTTGATTTGCTCCACAAAAC-CC
1 TCCTTGATTTGCTCC-CAAAACTCC
40714183 TCC
1 TCC
40714186 AAGACCAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.18, C:0.41, G:0.06, T:0.35
Consensus pattern (24 bp):
TCCTTGATTTGCTCCCAAAACTCC
Found at i:40723401 original size:3 final size:3
Alignment explanation
Indices: 40723393--40723448 Score: 103
Period size: 3 Copynumber: 18.7 Consensus size: 3
40723383 CTCTGTGGGA
*
40723393 TCT TCT TCT TCT TCT TCT TCT TCT TCT TTT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
40723441 TCT TCT TC
1 TCT TCT TC
40723449 AGGATCCTCA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:40724370 original size:25 final size:26
Alignment explanation
Indices: 40724342--40724395 Score: 76
Period size: 25 Copynumber: 2.1 Consensus size: 26
40724332 TAATTAGTAT
*
40724342 AAAATATT-AATAATTCAAT-AAATTG
1 AAAA-ATTAAATAATTAAATAAAATTG
40724367 AAAAATTAAATAATTAAATAAAATTG
1 AAAAATTAAATAATTAAATAAAATTG
40724393 AAA
1 AAA
40724396 TTTAGGAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 3 0.12
25 14 0.54
26 9 0.35
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (26 bp):
AAAAATTAAATAATTAAATAAAATTG
Found at i:40724534 original size:21 final size:20
Alignment explanation
Indices: 40724505--40724546 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
40724495 ATGTCTTGAT
40724505 GGTGTGGTGCGA-TAGGCAAG
1 GGTGTGGTGCGAGTA-GCAAG
40724525 GGTGTTGGTGCGAGTAGCAAG
1 GGTG-TGGTGCGAGTAGCAAG
40724546 G
1 G
40724547 CGGCAGCGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 14 0.70
22 2 0.10
ACGTcount: A:0.19, C:0.10, G:0.50, T:0.21
Consensus pattern (20 bp):
GGTGTGGTGCGAGTAGCAAG
Found at i:40736000 original size:43 final size:39
Alignment explanation
Indices: 40735921--40736003 Score: 94
Period size: 43 Copynumber: 2.0 Consensus size: 39
40735911 TAATCCTAGG
* * *
40735921 GAAAAAGAATTTAAAAAGAGAAGATAATCTTAGGTTGTT
1 GAAAAAGAATTTAAAAAGAGAACATAAACATAGGTTGTT
*
40735960 GAAAAGAGAATTTTAAAAAAGGAGAACATAAACATGGGTTGTT
1 GAAAA-AGAA-TTT-AAAAA-GAGAACATAAACATAGGTTGTT
40736003 G
1 G
40736004 GATTTACCCT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
39 5 0.14
40 4 0.11
41 3 0.08
42 5 0.14
43 19 0.53
ACGTcount: A:0.48, C:0.04, G:0.23, T:0.25
Consensus pattern (39 bp):
GAAAAAGAATTTAAAAAGAGAACATAAACATAGGTTGTT
Found at i:40739588 original size:90 final size:92
Alignment explanation
Indices: 40739423--40739600 Score: 243
Period size: 90 Copynumber: 1.9 Consensus size: 92
40739413 CATTAATATG
* * *
40739423 AACTGAATCGAATTCAATTTTCTATTTGTCATGGTTTTCTTTTTCAAAATCCTCTTCCAAAACAG
1 AACTGAATCCAATTCAATATGCTATTTGTCATGGTTTTCTTTTT-AAAATCCTCTTCCAAAACAG
* * *
40739488 AGTCTGACAAACTGACAGCATGACGCTC
65 AGTCTAACAAACTAACAACATGACGCTC
* * * *
40739516 AACTGAATCCAATTCACTATGCTCTTTGTCATGGTTTT-TTTTT-AATTCCTCTTCCACAACAGA
1 AACTGAATCCAATTCAATATGCTATTTGTCATGGTTTTCTTTTTAAAATCCTCTTCCAAAACAGA
40739579 GTCTAACAAACTAACAACATGA
66 GTCTAACAAACTAACAACATGA
40739601 GACTCTTCTA
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
90 37 0.49
92 5 0.07
93 33 0.44
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.35
Consensus pattern (92 bp):
AACTGAATCCAATTCAATATGCTATTTGTCATGGTTTTCTTTTTAAAATCCTCTTCCAAAACAGA
GTCTAACAAACTAACAACATGACGCTC
Found at i:40745524 original size:21 final size:21
Alignment explanation
Indices: 40745491--40745534 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
40745481 TTGTTTTTAC
40745491 TTAGGTACATTTAGTT-GTATT
1 TTAGGTACATTTA-TTCGTATT
40745512 TTAGG-ACATTTTATTCGTATT
1 TTAGGTACA-TTTATTCGTATT
40745533 TT
1 TT
40745535 CATCATTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.23, C:0.07, G:0.16, T:0.55
Consensus pattern (21 bp):
TTAGGTACATTTATTCGTATT
Found at i:40747061 original size:27 final size:27
Alignment explanation
Indices: 40747020--40747080 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
40747010 CTAGGAACGG
* * * *
40747020 AAATGATCCTGGTCTTAACATTAATCC
1 AAATGGTCCTAGTCTCAACAATAATCC
* *
40747047 AAATGGTCCTAGTCTCGATAATAATCC
1 AAATGGTCCTAGTCTCAACAATAATCC
40747074 AAATGGT
1 AAATGGT
40747081 TAGGATTTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (27 bp):
AAATGGTCCTAGTCTCAACAATAATCC
Found at i:40751065 original size:20 final size:20
Alignment explanation
Indices: 40751042--40751079 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
40751032 AGCTATTTGC
40751042 TTGTACTT-AGGTACATTTAG
1 TTGTACTTCAGG-ACATTTAG
*
40751062 TTGTATTTCAGGACATTT
1 TTGTACTTCAGGACATTT
40751080 TATTCATAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.24, C:0.11, G:0.18, T:0.47
Consensus pattern (20 bp):
TTGTACTTCAGGACATTTAG
Found at i:40757209 original size:9 final size:9
Alignment explanation
Indices: 40757195--40757225 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
40757185 AGAGGAAAGA
40757195 GAAGAGGAG
1 GAAGAGGAG
40757204 GAAGAGGAG
1 GAAGAGGAG
40757213 GAAGAGGA-
1 GAAGAGGAG
40757221 GAAGA
1 GAAGA
40757226 ATGATGATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 5 0.23
9 17 0.77
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (9 bp):
GAAGAGGAG
Found at i:40759849 original size:28 final size:28
Alignment explanation
Indices: 40759740--40759874 Score: 137
Period size: 28 Copynumber: 4.8 Consensus size: 28
40759730 TCTAGTGAAT
* * *
40759740 TATCTATGTGTTTATTTTCCCAAC-GAAC
1 TATCTCTGTGTTTATTGTCCCAGCAG-AC
* *
40759768 TATCTCTTTGTTTATTGTCCCAGCGGAC
1 TATCTCTGTGTTTATTGTCCCAGCAGAC
*
40759796 TATCTCTGTGTTTACTGTCCCAGCAGAC
1 TATCTCTGTGTTTATTGTCCCAGCAGAC
* * ** *
40759824 TATCTCTATGTTTATTATCCTTGCAGGC
1 TATCTCTGTGTTTATTGTCCCAGCAGAC
* *
40759852 TATCTTTGTGTTTACTGTCCCAG
1 TATCTCTGTGTTTATTGTCCCAG
40759875 TGAACTATTT
Statistics
Matches: 87, Mismatches: 19, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
28 86 0.99
29 1 0.01
ACGTcount: A:0.18, C:0.24, G:0.16, T:0.43
Consensus pattern (28 bp):
TATCTCTGTGTTTATTGTCCCAGCAGAC
Found at i:40759874 original size:56 final size:56
Alignment explanation
Indices: 40759740--40759888 Score: 167
Period size: 56 Copynumber: 2.7 Consensus size: 56
40759730 TCTAGTGAAT
* * * * *
40759740 TATCTATGTGTTTATTTTCCCAACGAACTATCTCTTTGTTTATTGTCCCAGCGGAC
1 TATCTATGTGTTTACTGTCCCAGCGAACTATCTCTATGTTTATTATCCCAGCGGAC
* **
40759796 TATCTCTGTGTTTACTGTCCCAGC-AGACTATCTCTATGTTTATTATCCTTGCAGG-C
1 TATCTATGTGTTTACTGTCCCAGCGA-ACTATCTCTATGTTTATTATCCCAGC-GGAC
* * *
40759852 TATCTTTGTGTTTACTGTCCCAGTGAACTATTTCTAT
1 TATCTATGTGTTTACTGTCCCAGCGAACTATCTCTAT
40759889 AGATGTCATG
Statistics
Matches: 79, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
55 1 0.01
56 75 0.95
57 3 0.04
ACGTcount: A:0.19, C:0.23, G:0.15, T:0.44
Consensus pattern (56 bp):
TATCTATGTGTTTACTGTCCCAGCGAACTATCTCTATGTTTATTATCCCAGCGGAC
Found at i:40762944 original size:49 final size:50
Alignment explanation
Indices: 40762811--40762947 Score: 150
Period size: 49 Copynumber: 2.8 Consensus size: 50
40762801 TCACCATTTG
* * * *
40762811 TGGACAAGCCACCACTGATTTCTAGATAAACTGACACTGATAACACTTTG
1 TGGACAAGCCACCACTAATTTGTAGATAAACTGCCACTGATAACACTTTA
* ** * * **
40762861 TGGACAAGCCACCACTTATACGCAAATATGCTGCCACTGA-AACACTTTA
1 TGGACAAGCCACCACTAATTTGTAGATAAACTGCCACTGATAACACTTTA
* *
40762910 TGGACAAGTCGCCACTAATTTGTAGATAAACTGCCACT
1 TGGACAAGCCACCACTAATTTGTAGATAAACTGCCACT
40762948 TACTTCCATC
Statistics
Matches: 68, Mismatches: 19, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
49 37 0.54
50 31 0.46
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.25
Consensus pattern (50 bp):
TGGACAAGCCACCACTAATTTGTAGATAAACTGCCACTGATAACACTTTA
Found at i:40763115 original size:26 final size:26
Alignment explanation
Indices: 40763079--40763134 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
40763069 CATGCTTTTT
40763079 ACATTAGATCATAGATCTCAATATTA
1 ACATTAGATCATAGATCTCAATATTA
40763105 ACATTAGATCATAGATCTCAATATTA
1 ACATTAGATCATAGATCTCAATATTA
40763131 ACAT
1 ACAT
40763135 ACTCATTTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.07, T:0.34
Consensus pattern (26 bp):
ACATTAGATCATAGATCTCAATATTA
Found at i:40764346 original size:32 final size:32
Alignment explanation
Indices: 40764308--40764378 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
40764298 GAAAGCAATG
40764308 ATAGGTGGGTGAGTAGGAGGAAAGGTTGGTCA
1 ATAGGTGGGTGAGTAGGAGGAAAGGTTGGTCA
40764340 ATAGGTGGGTGAGTAGGAGGAAAGGTTGGTCA
1 ATAGGTGGGTGAGTAGGAGGAAAGGTTGGTCA
40764372 ACTAGGT
1 A-TAGGT
40764379 CTAGGTTCAA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 33 0.87
33 5 0.13
ACGTcount: A:0.28, C:0.04, G:0.45, T:0.23
Consensus pattern (32 bp):
ATAGGTGGGTGAGTAGGAGGAAAGGTTGGTCA
Found at i:40768660 original size:120 final size:120
Alignment explanation
Indices: 40768428--40768686 Score: 312
Period size: 120 Copynumber: 2.2 Consensus size: 120
40768418 TTGAATGATG
* *
40768428 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* **
40768493 GTGCGAGTTACTAAATCCGGGTTAAGGCCCGAAGGCATTTGTGCGAGTTA-CTAAA
66 GTGCGAGTTACTAAATCCGGGCTAAGGCCCGAAGGCATTTGAACGAG-TAGCTAAA
* * * **
40768548 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * *
40768611 TTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATA
64 TTGTGCGAGTTACTA-AATCCGGGCTAAGGCCCGAAGGCATTTGAACGAGTAGCTAAA
* *
40768668 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
40768687 TACGTGATTT
Statistics
Matches: 120, Mismatches: 15, Indels: 9
0.83 0.10 0.06
Matches are distributed among these distances:
119 17 0.14
120 94 0.78
121 9 0.08
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTAAATCCGGGCTAAGGCCCGAAGGCATTTGAACGAGTAGCTAAA
Found at i:40768667 original size:40 final size:40
Alignment explanation
Indices: 40768428--40768653 Score: 314
Period size: 40 Copynumber: 5.7 Consensus size: 40
40768418 TTGAATGATG
* * * * *
40768428 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
**
40768468 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
40768508 TCCGGGTTAAGGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
40768548 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
40768588 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
40768629 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
40768654 AACGAGTAGC
Statistics
Matches: 171, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
40 161 0.94
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:40776584 original size:79 final size:81
Alignment explanation
Indices: 40776448--40776632 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
40776438 TTGAATGATG
*
40776448 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
40776512 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
40776527 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
40776589 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
40776607 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
40776633 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:40776646 original size:40 final size:40
Alignment explanation
Indices: 40776449--40776632 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
40776439 TGAATGATGT
* * * *
40776449 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
40776489 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
40776529 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
40776567 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
40776608 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
40776633 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:40776654 original size:79 final size:79
Alignment explanation
Indices: 40776449--40776665 Score: 201
Period size: 79 Copynumber: 2.7 Consensus size: 79
40776439 TGAATGATGT
** * * * **
40776449 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTAAATCCGGGTTAA-ATCCCGAAGGCATT
*
40776512 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
** * *
40776529 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
*
40776594 GCGAGTTACT-ATAA
66 GCGAGATACTAAT-A
* * *
40776608 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
40776666 TACGTGATTT
Statistics
Matches: 116, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 71 0.61
80 42 0.36
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
GCGAGATACTAATA
Found at i:40779259 original size:21 final size:22
Alignment explanation
Indices: 40779234--40779275 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
40779224 TTTGGCAAGA
40779234 AATTTTATATTATTA-CAAATT
1 AATTTTATATTATTACCAAATT
* *
40779255 AATTTTTTATTGTTACCAAAT
1 AATTTTATATTATTACCAAAT
40779276 CGGTAGCGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.52
Consensus pattern (22 bp):
AATTTTATATTATTACCAAATT
Found at i:40780072 original size:18 final size:18
Alignment explanation
Indices: 40780029--40780079 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
40780019 TCGAGAAAGG
40780029 GAAAGA-AAACGAGATAGA
1 GAAAGAGAAA-GAGATAGA
** *
40780047 GAGCGAGATAGAGATAGA
1 GAAAGAGAAAGAGATAGA
40780065 GAAAGAGAAAGAGAT
1 GAAAGAGAAAGAGAT
40780080 CGCTTTAGTA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
18 24 0.92
19 2 0.08
ACGTcount: A:0.55, C:0.04, G:0.33, T:0.08
Consensus pattern (18 bp):
GAAAGAGAAAGAGATAGA
Found at i:40791266 original size:22 final size:22
Alignment explanation
Indices: 40791230--40791273 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
40791220 GATAATAATA
40791230 TTTAAAAATTCAA-TTAAAATT
1 TTTAAAAATTCAATTTAAAATT
*
40791251 TTTAAAGAATTTAATTTAAAATT
1 TTTAAA-AATTCAATTTAAAATT
40791274 AGAGTCATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 6 0.30
22 6 0.30
23 8 0.40
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (22 bp):
TTTAAAAATTCAATTTAAAATT
Found at i:40791321 original size:22 final size:22
Alignment explanation
Indices: 40791293--40791338 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
40791283 GTTTAGGCAC
40791293 GTATGTTGAAATTAACACATAA
1 GTATGTTGAAATTAACACATAA
40791315 GTATGTTGAAATTAACACATAA
1 GTATGTTGAAATTAACACATAA
40791337 GT
1 GT
40791339 GATGCAAACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.43, C:0.09, G:0.15, T:0.33
Consensus pattern (22 bp):
GTATGTTGAAATTAACACATAA
Found at i:40791973 original size:23 final size:21
Alignment explanation
Indices: 40791934--40791991 Score: 55
Period size: 23 Copynumber: 2.6 Consensus size: 21
40791924 GGATTAAAGC
*
40791934 TTAATTAATTATGATTAAGTAAA
1 TTAATTAATTATAATT-A-TAAA
40791957 TTAATTAAGTT-TAATTATAAA
1 TTAATTAA-TTATAATTATAAA
*
40791978 TTAATCTAACTATA
1 TTAAT-TAATTATA
40791992 TAAATCAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
21 10 0.33
22 6 0.20
23 12 0.40
24 2 0.07
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (21 bp):
TTAATTAATTATAATTATAAA
Found at i:40793406 original size:25 final size:25
Alignment explanation
Indices: 40793368--40793456 Score: 85
Period size: 25 Copynumber: 3.6 Consensus size: 25
40793358 TTACTGATTG
*
40793368 CAGCTCGTAAGAGCTTACCGATTCT
1 CAGCTCGTATGAGCTTACCGATTCT
* **
40793393 CAACTCGTATGAGCTTATTGATT-T
1 CAGCTCGTATGAGCTTACCGATTCT
*
40793417 ACAGCTCGTGA-GAGCATACCGATTCAT
1 -CAGCTCGT-ATGAGCTTACCGATTC-T
40793444 -AGCTCGTATGAGC
1 CAGCTCGTATGAGC
40793457 ATACATGTAC
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
24 2 0.04
25 47 0.92
26 1 0.02
27 1 0.02
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (25 bp):
CAGCTCGTATGAGCTTACCGATTCT
Found at i:40809344 original size:27 final size:27
Alignment explanation
Indices: 40809313--40809490 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
40809303 TAAATTGTAC
40809313 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
40809340 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
40809366 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
40809394 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
40809422 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
40809449 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
40809476 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
40809491 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:40809427 original size:82 final size:81
Alignment explanation
Indices: 40809314--40809469 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
40809304 AAATTGTACA
* *
40809314 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
40809378 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
40809395 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
40809460 TGCGAGTTGA
65 TGCGAATTGA
40809470 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:40809481 original size:82 final size:81
Alignment explanation
Indices: 40809310--40809490 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
40809300 GATTAAATTG
* *
40809310 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
40809375 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
40809391 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
40809455 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
40809473 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
40809491 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:40812578 original size:19 final size:20
Alignment explanation
Indices: 40812554--40812598 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
40812544 CTTTGTGGAT
*
40812554 TTTTGG-ACTTTTAA-TTTTG
1 TTTTGGAAC-TTTAACTTTGG
40812573 TTTTGGAACTTTAACTTTGG
1 TTTTGGAACTTTAACTTTGG
40812593 TTTTGG
1 TTTTGG
40812599 TATTCGTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.16, C:0.07, G:0.20, T:0.58
Consensus pattern (20 bp):
TTTTGGAACTTTAACTTTGG
Found at i:40813538 original size:19 final size:19
Alignment explanation
Indices: 40813514--40813584 Score: 65
Period size: 19 Copynumber: 3.7 Consensus size: 19
40813504 GTGTTAATGC
40813514 GCTAGGATGCACTTCGTGT
1 GCTAGGATGCACTTCGTGT
* **
40813533 GCTAGGATGTACTT--TAA
1 GCTAGGATGCACTTCGTGT
* *
40813550 GCTTCAGTATGCGCTTCGTGT
1 GC-T-AGGATGCACTTCGTGT
40813571 GCTAGGATGCACTT
1 GCTAGGATGCACTT
40813585 TATATGTCAA
Statistics
Matches: 38, Mismatches: 10, Indels: 8
0.68 0.18 0.14
Matches are distributed among these distances:
17 3 0.08
18 1 0.03
19 30 0.79
20 1 0.03
21 3 0.08
ACGTcount: A:0.18, C:0.20, G:0.28, T:0.34
Consensus pattern (19 bp):
GCTAGGATGCACTTCGTGT
Found at i:40813599 original size:38 final size:37
Alignment explanation
Indices: 40813520--40813600 Score: 101
Period size: 38 Copynumber: 2.1 Consensus size: 37
40813510 ATGCGCTAGG
* *
40813520 ATGCACTTCGTGTGCTAGGATGTACTTTAAGCTTCAGT
1 ATGCACTTCGTGTGCTAGGATGCACTTTAAGC-TCAAT
*
40813558 ATGCGCTTCGTGTGCTAGGATGCACTTTATATG-TCAAT
1 ATGCACTTCGTGTGCTAGGATGCACTTTA-A-GCTCAAT
40813596 ATGCA
1 ATGCA
40813601 ATATCTTTGC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
38 35 0.95
39 1 0.03
40 1 0.03
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.36
Consensus pattern (37 bp):
ATGCACTTCGTGTGCTAGGATGCACTTTAAGCTCAAT
Found at i:40817963 original size:49 final size:49
Alignment explanation
Indices: 40817801--40817965 Score: 124
Period size: 49 Copynumber: 3.3 Consensus size: 49
40817791 CTCCATTCAA
*
40817801 TGGGACATGTTTGTTATGTTGGAGAGTGTTAGCTTTATGATTCACTTTT
1 TGGGACATGTTTGTTATGTTGGAGAGTGTTAGCTTTATGATTCACATTT
* * ** * * *
40817850 TGGGATATGTTTGACTCTATGAATCAATTAGTG-T-G-TTGGA-GATGCTC-CATTCAA
1 TGGGACATGTTTG--T-TATG-TTGGA-GAGTGTTAGCTT-TATGAT--TCACATT--T
40817904 TGGGACATGTTTGTTATGTTGGAGAGTGTTAGCTTTATGATTCACATTT
1 TGGGACATGTTTGTTATGTTGGAGAGTGTTAGCTTTATGATTCACATTT
*
40817953 TGGGATATGTTTG
1 TGGGACATGTTTG
40817966 ACTATGAATC
Statistics
Matches: 85, Mismatches: 16, Indels: 30
0.65 0.12 0.23
Matches are distributed among these distances:
49 28 0.33
50 5 0.06
51 16 0.19
52 15 0.18
53 5 0.06
54 16 0.19
ACGTcount: A:0.21, C:0.09, G:0.27, T:0.43
Consensus pattern (49 bp):
TGGGACATGTTTGTTATGTTGGAGAGTGTTAGCTTTATGATTCACATTT
Found at i:40824263 original size:21 final size:21
Alignment explanation
Indices: 40824239--40824280 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
40824229 TTTATCTATA
40824239 CAGATA-AATTTAATTCAATTT
1 CAGATATAA-TTAATTCAATTT
*
40824260 CAGATATAATTCATTCAATTT
1 CAGATATAATTAATTCAATTT
40824281 AATCCAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.43
Consensus pattern (21 bp):
CAGATATAATTAATTCAATTT
Found at i:40839264 original size:25 final size:25
Alignment explanation
Indices: 40839227--40839296 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 25
40839217 TGCTCTTATA
** *
40839227 AGCTTACTATTATTCAGCTCGGAGG
1 AGCTTACCGTTATTCAGCTCGAAGG
** *
40839252 AGCTTACCGTTATTTGGCTCAAAGG
1 AGCTTACCGTTATTCAGCTCGAAGG
*
40839277 AGCTTACCGTT-TACAGCTCG
1 AGCTTACCGTTATTCAGCTCG
40839297 TATGAGCATA
Statistics
Matches: 35, Mismatches: 10, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
24 5 0.14
25 30 0.86
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (25 bp):
AGCTTACCGTTATTCAGCTCGAAGG
Found at i:40840385 original size:48 final size:48
Alignment explanation
Indices: 40840324--40840545 Score: 239
Period size: 48 Copynumber: 4.6 Consensus size: 48
40840314 ACACTGGCTT
* * * *
40840324 AGACGTGGTCTTACACTAGCTCTCATCTC-ATGGTCGATGCCATGTCCC
1 AGACATGGTCTTACACTAGCACTCATATCAAT-GCCGATGCCATGTCCC
* * * *
40840372 AGACATGGTCTTACACTAGCGCACTTATCAATGCCGATGCTATGTCCC
1 AGACATGGTCTTACACTAGCACTCATATCAATGCCGATGCCATGTCCC
* * * *** *
40840420 AGACATGGTCTTACATTGGCTCTCATATTGTTGCTGATGCCATGTCCC
1 AGACATGGTCTTACACTAGCACTCATATCAATGCCGATGCCATGTCCC
* * * * *
40840468 AAACATGGTCTTACACTAGCACACACATCAATGCCAATGCCATGTCCT
1 AGACATGGTCTTACACTAGCACTCATATCAATGCCGATGCCATGTCCC
*
40840516 AGACATGGTCTTACACTGGCACTCATATCA
1 AGACATGGTCTTACACTAGCACTCATATCA
40840546 CCCAAATGTC
Statistics
Matches: 140, Mismatches: 33, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
48 138 0.99
49 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (48 bp):
AGACATGGTCTTACACTAGCACTCATATCAATGCCGATGCCATGTCCC
Found at i:40840498 original size:96 final size:96
Alignment explanation
Indices: 40840359--40840543 Score: 289
Period size: 96 Copynumber: 1.9 Consensus size: 96
40840349 TCTCATGGTC
* * ** * *
40840359 GATGCCATGTCCCAGACATGGTCTTACACTAGCGCACTTATCAATGCCGATGCTATGTCCCAGAC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCACACACATCAATGCCAATGCCATGTCCCAGAC
* *
40840424 ATGGTCTTACATTGGCTCTCATATTGTTGCT
66 ATGGTCTTACACTGGCACTCATATTGTTGCT
*
40840455 GATGCCATGTCCCAAACATGGTCTTACACTAGCACACACATCAATGCCAATGCCATGTCCTAGAC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCACACACATCAATGCCAATGCCATGTCCCAGAC
40840520 ATGGTCTTACACTGGCACTCATAT
66 ATGGTCTTACACTGGCACTCATAT
40840544 CACCCAAATG
Statistics
Matches: 80, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
96 80 1.00
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (96 bp):
GATGCCATGTCCCAAACATGGTCTTACACTAGCACACACATCAATGCCAATGCCATGTCCCAGAC
ATGGTCTTACACTGGCACTCATATTGTTGCT
Found at i:40846277 original size:25 final size:26
Alignment explanation
Indices: 40846249--40846297 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
40846239 TAACAAAACT
*
40846249 AAAATCTAACCT-AAAAAGAAAAGTG
1 AAAACCTAACCTAAAAAAGAAAAGTG
*
40846274 AAAACCTAATCTAAAAAAGAAAAG
1 AAAACCTAACCTAAAAAAGAAAAG
40846298 AAAAATTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.63, C:0.12, G:0.10, T:0.14
Consensus pattern (26 bp):
AAAACCTAACCTAAAAAAGAAAAGTG
Found at i:40848502 original size:142 final size:146
Alignment explanation
Indices: 40848338--40848667 Score: 392
Period size: 142 Copynumber: 2.3 Consensus size: 146
40848328 TTTTTGGTAA
* * * *
40848338 ATTGTAAATAAGTATATATTATTGATGTAAAATATAGTAGAATACAATATAAACAAA-TT-TTTT
1 ATTGTAAATAAGTATATATTATTGATGTAAAATACAATAAAATACAATACAAA-AAATTTATTTT
* * ** *
40848401 TTCGTATGTTGTAAATAAAT-ATATTATTAGA-AGGCA-TACAATAGAATATAATACAAATAATT
65 TTCATATATTGTAAATAAATAATATTATT-GATAGAAATTACAATAGAATACAATACAAATAATT
*
40848463 TTT-TAATT-TATTT-TTAG
129 TTTCT-ATTGT-TTTCATAG
*
40848480 ATTGTAAATAAGTATATATTATTGATATAAAATACAATAAAATACAATACAAAAAATTTTTAAAT
1 ATTGTAAATAAGTATATATTATTGATGTAAAATACAATAAAATACAATACAAAAAA--TTT--AT
* *
40848545 TTTTTCATATATTGTAAATAAATAAATGTTATTGATATAAATTACAATAGAATACAATACAAATA
62 TTTTTCATATATTGTAAATAAAT-AATATTATTGATAGAAATTACAATAGAATACAATACAAATA
40848610 ATTTTTCTATTGTTTTCATAG
126 ATTTTTCTATTGTTTTCATAG
40848631 ATTGTAAATAAG--TATATTATTGATGTAAAATACAATA
1 ATTGTAAATAAGTATATATTATTGATGTAAAATACAATA
40848668 GTGATTGCGT
Statistics
Matches: 161, Mismatches: 14, Indels: 19
0.83 0.07 0.10
Matches are distributed among these distances:
141 3 0.02
142 48 0.30
144 2 0.01
147 22 0.14
148 2 0.01
149 33 0.20
150 34 0.21
151 17 0.11
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (146 bp):
ATTGTAAATAAGTATATATTATTGATGTAAAATACAATAAAATACAATACAAAAAATTTATTTTT
TCATATATTGTAAATAAATAATATTATTGATAGAAATTACAATAGAATACAATACAAATAATTTT
TCTATTGTTTTCATAG
Found at i:40848529 original size:75 final size:75
Alignment explanation
Indices: 40848338--40848668 Score: 337
Period size: 75 Copynumber: 4.5 Consensus size: 75
40848328 TTTTTGGTAA
* * * * * *
40848338 ATTGTAAATAAGTATATATTATTGATGTAAAATATAGTAGAATACAATATAAACAAATTTTT--T
1 ATTGTAAATAAGTATATATTATTGATATAAAATACAATAGAATACAATACAAATAATTTTTTAAT
**
40848401 TTCGT-AT-G
66 TTTTTCATAG
*** *
40848409 -TTGTAAATAA--ATATATTATTAGA-A-GGCATACAATAGAATATAATACAAATAATTTTTTAA
1 ATTGTAAATAAGTATATATTATT-GATATAAAATACAATAGAATACAATACAAATAATTTTTTAA
*
40848469 TTTATTT-TTAG
65 TTT-TTTCATAG
* * *
40848480 ATTGTAAATAAGTATATATTATTGATATAAAATACAATAAAATACAATACAAAAAATTTTTAAAT
1 ATTGTAAATAAGTATATATTATTGATATAAAATACAATAGAATACAATACAAATAATTTTTTAAT
*
40848545 TTTTTCATAT
66 TTTTTCATAG
* * * *
40848555 ATTGTAAATAAATAAATGTTATTGATATAAATTACAATAGAATACAATACAAATAATTTTTCT-A
1 ATTGTAAATAAGTATATATTATTGATATAAAATACAATAGAATACAATACAAATAATTTTT-TAA
40848619 TTGTTTTCATAG
65 TT-TTTTCATAG
*
40848631 ATTGTAAATAAG--TATATTATTGATGTAAAATACAATAG
1 ATTGTAAATAAGTATATATTATTGATATAAAATACAATAG
40848669 TGATTGCGTT
Statistics
Matches: 212, Mismatches: 35, Indels: 23
0.79 0.13 0.09
Matches are distributed among these distances:
67 25 0.12
68 10 0.05
69 5 0.02
70 12 0.06
71 1 0.00
72 10 0.05
73 2 0.01
74 36 0.17
75 92 0.43
76 19 0.09
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.40
Consensus pattern (75 bp):
ATTGTAAATAAGTATATATTATTGATATAAAATACAATAGAATACAATACAAATAATTTTTTAAT
TTTTTCATAG
Found at i:40864810 original size:42 final size:43
Alignment explanation
Indices: 40864696--40864841 Score: 122
Period size: 43 Copynumber: 3.4 Consensus size: 43
40864686 TCTGAGACAT
* *
40864696 CGTGTAAGACCGTGTCTGGGACACAGGCCTCGATTGAGATTTA
1 CGTGTAAGACCATGTCTGGGACACAGGCATCGATTGAGATTTA
* * * **
40864739 CGTATAAGACCATGTTTGGAACATC-GGCATCG-TGTTTGATTT-
1 CGTGTAAGACCATGTCTGGGACA-CAGGCATCGAT-TGAGATTTA
* * *
40864781 TGTGTAAGACCCTGTCTGGGACAGAGGCATCGATATTGAG--TTA
1 CGTGTAAGACCATGTCTGGGACACAGGCATCG--ATTGAGATTTA
*
40864824 CATGTAAGACCATGTCTG
1 CGTGTAAGACCATGTCTG
40864842 AGACGTCAGT
Statistics
Matches: 78, Mismatches: 18, Indels: 14
0.71 0.16 0.13
Matches are distributed among these distances:
42 28 0.36
43 46 0.59
44 3 0.04
45 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.29
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACACAGGCATCGATTGAGATTTA
Found at i:40879669 original size:16 final size:18
Alignment explanation
Indices: 40879648--40879688 Score: 59
Period size: 16 Copynumber: 2.4 Consensus size: 18
40879638 CACCTATTAG
40879648 TTATTTTTA-CTTT-TTT
1 TTATTTTTATCTTTATTT
40879664 TTATTTTTATCTTTATTT
1 TTATTTTTATCTTTATTT
*
40879682 ATATTTT
1 TTATTTT
40879689 GAAATTACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 9 0.41
17 4 0.18
18 9 0.41
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (18 bp):
TTATTTTTATCTTTATTT
Found at i:40883820 original size:23 final size:23
Alignment explanation
Indices: 40883790--40883835 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
40883780 CGAATGCCGA
40883790 GTTCGCATACTAACCTAGTGGGT
1 GTTCGCATACTAACCTAGTGGGT
*
40883813 GTTCGCATCCTAACCTAGTGGGT
1 GTTCGCATACTAACCTAGTGGGT
40883836 TATCTGTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.20, C:0.24, G:0.26, T:0.30
Consensus pattern (23 bp):
GTTCGCATACTAACCTAGTGGGT
Found at i:40901049 original size:17 final size:17
Alignment explanation
Indices: 40901024--40901066 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
40901014 CACTTTTGGG
*
40901024 CATAT-ATCACATTACA
1 CATATAATCACACTACA
40901040 CATATAATCACACTACA
1 CATATAATCACACTACA
40901057 CATATAATCA
1 CATATAATCA
40901067 TATAACATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
16 5 0.20
17 20 0.80
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.28
Consensus pattern (17 bp):
CATATAATCACACTACA
Found at i:40901075 original size:39 final size:37
Alignment explanation
Indices: 40901027--40901142 Score: 115
Period size: 39 Copynumber: 3.0 Consensus size: 37
40901017 TTTTGGGCAT
* * *
40901027 ATATCACATTACACATATAATCACACTACACATATAATC
1 ATATAACATTA-ACATAT-ATCACAATACTCATATAATC
* *
40901066 ATATAACATTTAAGCATGTATCAGAATACTCATATAATC
1 ATATAACA-TTAA-CATATATCACAATACTCATATAATC
* *
40901105 ACATAAGATTCAAACATATATCACAATACTCATATAAT
1 ATATAACATT--AACATATATCACAATACTCATATAAT
40901143 TACATAACGT
Statistics
Matches: 64, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
38 2 0.03
39 53 0.83
40 9 0.14
ACGTcount: A:0.47, C:0.20, G:0.03, T:0.30
Consensus pattern (37 bp):
ATATAACATTAACATATATCACAATACTCATATAATC
Found at i:40901170 original size:39 final size:39
Alignment explanation
Indices: 40901039--40901162 Score: 133
Period size: 39 Copynumber: 3.2 Consensus size: 39
40901029 ATCACATTAC
* * * * *
40901039 ACATATAATCACACTACACATATAATCATATAACATTTAA
1 ACATAT-ATCACAATACTCATATAATCACATAAGATTCAA
* * *
40901079 GCATGTATCAGAATACTCATATAATCACATAAGATTCAA
1 ACATATATCACAATACTCATATAATCACATAAGATTCAA
*
40901118 ACATATATCACAATACTCATATAATTACATAACG-TTCAA
1 ACATATATCACAATACTCATATAATCACATAA-GATTCAA
*
40901157 GCATAT
1 ACATAT
40901163 GTTACAATGT
Statistics
Matches: 70, Mismatches: 13, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
39 65 0.93
40 5 0.07
ACGTcount: A:0.46, C:0.19, G:0.05, T:0.30
Consensus pattern (39 bp):
ACATATATCACAATACTCATATAATCACATAAGATTCAA
Found at i:40904588 original size:43 final size:43
Alignment explanation
Indices: 40904524--40904631 Score: 164
Period size: 43 Copynumber: 2.5 Consensus size: 43
40904514 TAAGTGCAGA
*
40904524 CTTCACACGGCCTGAG-TACATGCCCATGTTCTAAGGCTGTGTC
1 CTTCACACGG-CTGAGACACATGCCCATGTTCTAAGGCTGTGTC
* *
40904567 CTTCACATGGTTGAGACACATGCCCATGTTCTAAGGCTGTGTC
1 CTTCACACGGCTGAGACACATGCCCATGTTCTAAGGCTGTGTC
*
40904610 CTTCACACGGCTGAGACGCATG
1 CTTCACACGGCTGAGACACATG
40904632 GTCGTGCCCT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
42 4 0.07
43 54 0.93
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (43 bp):
CTTCACACGGCTGAGACACATGCCCATGTTCTAAGGCTGTGTC
Found at i:40905706 original size:48 final size:48
Alignment explanation
Indices: 40905654--40905776 Score: 125
Period size: 43 Copynumber: 2.7 Consensus size: 48
40905644 TATCCTGGAT
*
40905654 ATGGTCTTACATGGGATCACATATCGATGCCAA-TGCCATGTCCCAAAC
1 ATGGTCTTACATGGGATCACATATCGATGCCAACT-CAATGTCCCAAAC
* * *
40905702 ATGGTCTTATATGGGAT-ATCA-AT-G-T--CAACTCAATGTCCTAGAC
1 ATGGTCTTACATGGGATCA-CATATCGATGCCAACTCAATGTCCCAAAC
* *
40905745 ATGGCCTTACATGGGATCACATATCAATGCCA
1 ATGGTCTTACATGGGATCACATATCGATGCCA
40905777 TCTTACATGG
Statistics
Matches: 60, Mismatches: 7, Indels: 16
0.72 0.08 0.19
Matches are distributed among these distances:
43 30 0.50
44 4 0.07
45 1 0.02
46 2 0.03
47 3 0.05
48 20 0.33
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.28
Consensus pattern (48 bp):
ATGGTCTTACATGGGATCACATATCGATGCCAACTCAATGTCCCAAAC
Found at i:40912474 original size:30 final size:31
Alignment explanation
Indices: 40912449--40912507 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
40912439 ATAAATACTC
* *
40912449 AAAATTTGAAGGGCTAA-AGTGTAAATATGA
1 AAAAGTTGAAGGACTAATAGTGTAAATATGA
*
40912479 AAAAGTTGAAGGACTAATAGTGCAAATAT
1 AAAAGTTGAAGGACTAATAGTGTAAATAT
40912508 TTTAAGGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.47, C:0.05, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAAGTTGAAGGACTAATAGTGTAAATATGA
Found at i:40914093 original size:51 final size:51
Alignment explanation
Indices: 40914010--40914121 Score: 170
Period size: 51 Copynumber: 2.2 Consensus size: 51
40914000 TATCCGGATA
* * *
40914010 AAATATGAAGCTCTTGTTGAAGCTAGAGCAACAAAGTAATTATTCCAGATG
1 AAATATGAAGCTCTTGTTGAAGCTAGAACAACAAAGCAATAATTCCAGATG
* *
40914061 AAATATGAAGCTCTTGTTGAAGTTAGAACAACAAGGCAATAATTCCAGATG
1 AAATATGAAGCTCTTGTTGAAGCTAGAACAACAAAGCAATAATTCCAGATG
*
40914112 AAGTATGAAG
1 AAATATGAAG
40914122 TAAATTTGAG
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.41, C:0.12, G:0.21, T:0.26
Consensus pattern (51 bp):
AAATATGAAGCTCTTGTTGAAGCTAGAACAACAAAGCAATAATTCCAGATG
Found at i:40918250 original size:39 final size:39
Alignment explanation
Indices: 40918188--40918336 Score: 253
Period size: 39 Copynumber: 3.8 Consensus size: 39
40918178 CACCACAAAA
* *
40918188 CCTGCGGAACTTTAGCCCGGATACATTTCCTGCACGAAG
1 CCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAG
*
40918227 CCTACGGGACTTTAGCCCGGATACATTTCCAGCACGAAG
1 CCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAG
*
40918266 CCTGCGGGACTTTAGCCCAGATACATTTCCAGCACGAAG
1 CCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAG
*
40918305 CCTGCGGGACTTTAGCCTGGATACATTTCCAG
1 CCTGCGGGACTTTAGCCCGGATACATTTCCAG
40918337 TGTCTTTCAT
Statistics
Matches: 103, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 103 1.00
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.23
Consensus pattern (39 bp):
CCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAG
Found at i:40925354 original size:39 final size:39
Alignment explanation
Indices: 40925299--40925396 Score: 160
Period size: 39 Copynumber: 2.5 Consensus size: 39
40925289 GCTTAAAGAC
* *
40925299 CCGCAGGCTATATGCTGGAATTATATCCGGACTTAAGGT
1 CCGCAGGCTATGTGCTGGAATTATAACCGGACTTAAGGT
40925338 CCGCAGGCTATGTGCTGGAATTATAACCGGACTTAAGGT
1 CCGCAGGCTATGTGCTGGAATTATAACCGGACTTAAGGT
* *
40925377 CTGCAGGCTACGTGCTGGAA
1 CCGCAGGCTATGTGCTGGAA
40925397 ATATGTACGG
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 55 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (39 bp):
CCGCAGGCTATGTGCTGGAATTATAACCGGACTTAAGGT
Found at i:40928541 original size:34 final size:34
Alignment explanation
Indices: 40928498--40928564 Score: 134
Period size: 34 Copynumber: 2.0 Consensus size: 34
40928488 ATATCAATTC
40928498 GTACCAATACTAGAACAAAAATGAATGTCCCCTA
1 GTACCAATACTAGAACAAAAATGAATGTCCCCTA
40928532 GTACCAATACTAGAACAAAAATGAATGTCCCCT
1 GTACCAATACTAGAACAAAAATGAATGTCCCCT
40928565 GGAGTGATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.43, C:0.24, G:0.12, T:0.21
Consensus pattern (34 bp):
GTACCAATACTAGAACAAAAATGAATGTCCCCTA
Found at i:40940873 original size:37 final size:37
Alignment explanation
Indices: 40940801--40940875 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
40940791 ACGGAATCCA
40940801 TAAACAAATAAACAAAACCACAAATTAAAGACTTTTG
1 TAAACAAATAAACAAAACCACAAATTAAAGACTTTTG
*
40940838 TAAACAAATAAACAAAACCACAAATTAAAGTCTTTTG
1 TAAACAAATAAACAAAACCACAAATTAAAGACTTTTG
40940875 T
1 T
40940876 GCCTATCATT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.55, C:0.16, G:0.05, T:0.24
Consensus pattern (37 bp):
TAAACAAATAAACAAAACCACAAATTAAAGACTTTTG
Found at i:40942729 original size:56 final size:56
Alignment explanation
Indices: 40942616--40942722 Score: 133
Period size: 56 Copynumber: 1.9 Consensus size: 56
40942606 TTACAAGCTC
* * * * * *
40942616 AATCTTTTGTTTTGAGGAAATTGTTAGCCTTTACACAAATGGTGAGAACTTCAAAG
1 AATCTTTGGTTTTAAGGAAATTATTAGCCTCTACACAAATGATGAGAACATCAAAG
* * *
40942672 AATCTTTGGTTTTAAGGATATTATTAGCCTCTATACAAATGATGAGGACAT
1 AATCTTTGGTTTTAAGGAAATTATTAGCCTCTACACAAATGATGAGAACAT
40942723 AGAAGAAAGA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
56 42 1.00
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (56 bp):
AATCTTTGGTTTTAAGGAAATTATTAGCCTCTACACAAATGATGAGAACATCAAAG
Done.