Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold479
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: 1265690
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 4 of 9
Found at i:429281 original size:20 final size:20
Alignment explanation
Indices: 429199--429293 Score: 102
Period size: 20 Copynumber: 4.7 Consensus size: 20
429189 CATTTCAGGC
*
429199 ATGTATCAATACATTCACTT
1 ATGTATCGATACATTCACTT
***
429219 ATGTATCGATACATTTCAGGC
1 ATGTATCGATACA-TTCACTT
*
429240 ATGTATCAATACATTCACTT
1 ATGTATCGATACATTCACTT
*
429260 ATGTATCGATACATTGC-TTT
1 ATGTATCGATACATT-CACTT
429280 ATTGTATCGATACA
1 A-TGTATCGATACA
429294 AATTGTTGAA
Statistics
Matches: 62, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
20 33 0.53
21 29 0.47
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTCACTT
Found at i:430093 original size:53 final size:53
Alignment explanation
Indices: 429987--430137 Score: 180
Period size: 53 Copynumber: 2.8 Consensus size: 53
429977 TAGAGACACC
* * *
429987 GGACTCAAAGATGGTAAGAATGCCAAATGTGCTAATTCAAGGCCAACACCATT
1 GGACTTAAAGATGATAAGAATGCCAAATGTGCTGATTCAAGGCCAACACCATT
* *
430040 GGACTTAAAAATGATAAGAATGCCAAATGTGCTGATTCAAGGCCAATGA-CATT
1 GGACTTAAAGATGATAAGAATGCCAAATGTGCTGATTCAAGGCCAA-CACCATT
* * * * *
430093 GGATTTAAAGATGATAAAAAATG-CTAATATGCTGATTCACGGCCA
1 GGACTTAAAGATGAT-AAGAATGCCAAATGTGCTGATTCAAGGCCA
430138 GCGTCTTAAA
Statistics
Matches: 85, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
53 78 0.92
54 7 0.08
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.24
Consensus pattern (53 bp):
GGACTTAAAGATGATAAGAATGCCAAATGTGCTGATTCAAGGCCAACACCATT
Found at i:436808 original size:22 final size:22
Alignment explanation
Indices: 436783--436825 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
436773 CAACATTCCC
* *
436783 AATAAGCATTAAGGAGAGAATT
1 AATAAGAATTAAGAAGAGAATT
436805 AATAAGAATTAAGAAGAGAAT
1 AATAAGAATTAAGAAGAGAAT
436826 ATATATATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.56, C:0.02, G:0.21, T:0.21
Consensus pattern (22 bp):
AATAAGAATTAAGAAGAGAATT
Found at i:439111 original size:16 final size:17
Alignment explanation
Indices: 439090--439123 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
439080 TCTACTTCTA
439090 TAACACCTCTCCC-CTT
1 TAACACCTCTCCCTCTT
*
439106 TAACACTTCTCCCTCTT
1 TAACACCTCTCCCTCTT
439123 T
1 T
439124 TTTTGTCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.18, C:0.44, G:0.00, T:0.38
Consensus pattern (17 bp):
TAACACCTCTCCCTCTT
Found at i:448758 original size:33 final size:33
Alignment explanation
Indices: 448704--448768 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
448694 TAACTGTTTG
448704 TATCAATACAGACAAAGATGTATCGATACATTA
1 TATCAATACAGACAAAGATGTATCGATACATTA
* *
448737 TATCGATACATGACCAA-ATGTATCGATACATT
1 TATCAATACA-GACAAAGATGTATCGATACATT
448769 GGCTTGTAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 24 0.83
34 5 0.17
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.29
Consensus pattern (33 bp):
TATCAATACAGACAAAGATGTATCGATACATTA
Found at i:450358 original size:6 final size:6
Alignment explanation
Indices: 450347--450380 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
450337 CATCAAGGAT
* *
450347 GATGAA GATGAA GATGAA GATGAT GATGAT GATG
1 GATGAA GATGAA GATGAA GATGAA GATGAA GATG
450381 GTGACTCAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.41, C:0.00, G:0.35, T:0.24
Consensus pattern (6 bp):
GATGAA
Found at i:454929 original size:13 final size:13
Alignment explanation
Indices: 454911--454948 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
454901 CAGCATTCTC
*
454911 TGTATCGATACAT
1 TGTATCGATACAG
454924 TGTATCGATACAG
1 TGTATCGATACAG
454937 TGTATCGATACA
1 TGTATCGATACA
454949 AAAGGTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:456851 original size:73 final size:73
Alignment explanation
Indices: 456763--456918 Score: 285
Period size: 73 Copynumber: 2.1 Consensus size: 73
456753 AATTAAGGGG
*
456763 GAAAAAGAAACATGTGATTAAAGGAAATTATTTTATTAAGGGGGAGAAATTTTTTATTTGATTAA
1 GAAAAGGAAACATGTGATTAAAGGAAATTATTTTATTAAGGGGGAGAAATTTTTTATTTGATTAA
456828 GGGGGAGA
66 GGGGGAGA
* *
456836 GAAAAGGAAACATGTGATTAAAGGACATTGTTTTATTAAGGGGGAGAAATTTTTTATTTGATTAA
1 GAAAAGGAAACATGTGATTAAAGGAAATTATTTTATTAAGGGGGAGAAATTTTTTATTTGATTAA
456901 GGGGGAGA
66 GGGGGAGA
456909 GAAAAGGAAA
1 GAAAAGGAAA
456919 ATGAAAAATC
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 80 1.00
ACGTcount: A:0.41, C:0.02, G:0.28, T:0.29
Consensus pattern (73 bp):
GAAAAGGAAACATGTGATTAAAGGAAATTATTTTATTAAGGGGGAGAAATTTTTTATTTGATTAA
GGGGGAGA
Found at i:457480 original size:13 final size:13
Alignment explanation
Indices: 457462--457486 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
457452 ATAATGCACA
457462 GTATCGATACATT
1 GTATCGATACATT
457475 GTATCGATACAT
1 GTATCGATACAT
457487 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:457520 original size:21 final size:21
Alignment explanation
Indices: 457472--457526 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
457462 GTATCGATAC
*
457472 ATTGTATCGATACATGACCAA
1 ATTGTATCGATACATGACAAA
*
457493 A-TGTATCGATACTTG-CAAA
1 ATTGTATCGATACATGACAAA
457512 GATTGTATCGATACA
1 -ATTGTATCGATACA
457527 GGTGATTGGC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 3 0.10
20 14 0.48
21 12 0.41
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.31
Consensus pattern (21 bp):
ATTGTATCGATACATGACAAA
Found at i:457595 original size:13 final size:13
Alignment explanation
Indices: 457577--457602 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
457567 CAGACAAAGA
457577 TGTATCGATACAT
1 TGTATCGATACAT
457590 TGTATCGATACAT
1 TGTATCGATACAT
457603 GACCAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:457598 original size:33 final size:33
Alignment explanation
Indices: 457556--457624 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
457546 CCTTAACTGT
*
457556 TTGTATCGATACA-GACAAAGATGTATCGATACA
1 TTGTATCGATACATGACAAA-ATGTATCAATACA
*
457589 TTGTATCGATACATGACCAAATGTATCAATACA
1 TTGTATCGATACATGACAAAATGTATCAATACA
457622 TTG
1 TTG
457625 GCTTGTAACG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 28 0.85
34 5 0.15
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (33 bp):
TTGTATCGATACATGACAAAATGTATCAATACA
Found at i:458457 original size:22 final size:20
Alignment explanation
Indices: 458429--458483 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
458419 ATAAGTGGAG
*
458429 GTATCGATACATTGCTTAAATT
1 GTATCGATACATT-ATT-AATT
* *
458451 GTATCGATATATTATTCATT
1 GTATCGATACATTATTAATT
458471 GTATCGATACATT
1 GTATCGATACATT
458484 TTGGGTTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 15 0.52
21 2 0.07
22 12 0.41
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.44
Consensus pattern (20 bp):
GTATCGATACATTATTAATT
Found at i:460723 original size:11 final size:11
Alignment explanation
Indices: 460709--460738 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
460699 CAAAAAGGAT
460709 AAAAAAATTTA
1 AAAAAAATTTA
*
460720 AAAAAAAATTA
1 AAAAAAATTTA
460731 AAAAAAAT
1 AAAAAAAT
460739 ACATTTTTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (11 bp):
AAAAAAATTTA
Found at i:460869 original size:19 final size:21
Alignment explanation
Indices: 460821--460875 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
460811 AATTTCAATA
*
460821 ATTTGTATCGATACATTCAGT
1 ATTTGTATCGATACATTAAGT
**
460842 AAATGTATCGATACA-TAAGT
1 ATTTGTATCGATACATTAAGT
460862 -TTTGTATCGATACA
1 ATTTGTATCGATACA
460876 ATGTATCGCT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 12 0.41
20 4 0.14
21 13 0.45
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.38
Consensus pattern (21 bp):
ATTTGTATCGATACATTAAGT
Found at i:460926 original size:21 final size:21
Alignment explanation
Indices: 460900--460940 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
460890 AGCTACTACC
460900 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
*
460921 AAGGAAGTGTATCGATACAT
1 AAGGAAATGTATCGATACAT
460941 CGATCTTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (21 bp):
AAGGAAATGTATCGATACATT
Found at i:461387 original size:13 final size:13
Alignment explanation
Indices: 461369--461393 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
461359 AGATTGCACA
461369 GTATCGATACATT
1 GTATCGATACATT
461382 GTATCGATACAT
1 GTATCGATACAT
461394 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:464130 original size:13 final size:13
Alignment explanation
Indices: 464112--464137 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
464102 ATTTTTTTGG
464112 TGTATCGATACAT
1 TGTATCGATACAT
464125 TGTATCGATACAT
1 TGTATCGATACAT
464138 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:464152 original size:32 final size:34
Alignment explanation
Indices: 464091--464155 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 34
464081 TGCAAGCCAA
**
464091 TGTATCGATACATTTTTTTGGTGTATCGATACAT
1 TGTATCGATACATTACTTTGGTGTATCGATACAT
464125 TGTATCGATACA-TACTTT-GTGTATCGATACA
1 TGTATCGATACATTACTTTGGTGTATCGATACA
464156 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 13 0.45
33 4 0.14
34 12 0.41
ACGTcount: A:0.26, C:0.14, G:0.17, T:0.43
Consensus pattern (34 bp):
TGTATCGATACATTACTTTGGTGTATCGATACAT
Found at i:466218 original size:21 final size:20
Alignment explanation
Indices: 466189--466231 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
466179 GGCTAGTGTG
*
466189 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCGTGACCT
*
466210 GGGAGTGCCGGTCGTGACCT
1 GGGACTGCCGGTCGTGACCT
466230 GG
1 GG
466232 TGGGTGCTGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.09, C:0.26, G:0.44, T:0.21
Consensus pattern (20 bp):
GGGACTGCCGGTCGTGACCT
Found at i:466688 original size:13 final size:13
Alignment explanation
Indices: 466672--466707 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
466662 AATCCCCCTA
466672 TATCGATACAGTG
1 TATCGATACAGTG
*
466685 TATCGATACATTG
1 TATCGATACAGTG
466698 TATCGATACA
1 TATCGATACA
466708 AAGAATGATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (13 bp):
TATCGATACAGTG
Found at i:466733 original size:20 final size:20
Alignment explanation
Indices: 466696--466773 Score: 66
Period size: 20 Copynumber: 3.6 Consensus size: 20
466686 ATCGATACAT
*
466696 TGTATCGATACAAAGAATGA
1 TGTATCGATACATAGAATGA
*
466716 TGTATCGATACATTGAATTTCCAGA
1 TGTATCGATACATAGAA--T---GA
* **
466741 TGTATCGATACACAGAAACA
1 TGTATCGATACATAGAATGA
466761 TGTATCGATACAT
1 TGTATCGATACAT
466774 TTTGGAAATT
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
20 28 0.61
22 1 0.02
25 17 0.37
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.29
Consensus pattern (20 bp):
TGTATCGATACATAGAATGA
Found at i:472870 original size:13 final size:13
Alignment explanation
Indices: 472852--472877 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
472842 ATTTTTTTGG
472852 TGTATCGATACAT
1 TGTATCGATACAT
472865 TGTATCGATACAT
1 TGTATCGATACAT
472878 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:472892 original size:32 final size:34
Alignment explanation
Indices: 472831--472895 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 34
472821 TGCAAGCCAA
**
472831 TGTATCGATACATTTTTTTGGTGTATCGATACAT
1 TGTATCGATACATTACTTTGGTGTATCGATACAT
472865 TGTATCGATACA-TACTTT-GTGTATCGATACA
1 TGTATCGATACATTACTTTGGTGTATCGATACA
472896 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 13 0.45
33 4 0.14
34 12 0.41
ACGTcount: A:0.26, C:0.14, G:0.17, T:0.43
Consensus pattern (34 bp):
TGTATCGATACATTACTTTGGTGTATCGATACAT
Found at i:473693 original size:20 final size:22
Alignment explanation
Indices: 473654--473701 Score: 82
Period size: 21 Copynumber: 2.3 Consensus size: 22
473644 AAGTAGACAT
473654 TAAAAAATTAGCTAATG-AAAA
1 TAAAAAATTAGCTAATGAAAAA
473675 TAAAAAATTAGCTAA-GAAAAA
1 TAAAAAATTAGCTAATGAAAAA
473696 TAAAAA
1 TAAAAA
473702 CTTGCATGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 1 0.04
21 25 0.96
ACGTcount: A:0.67, C:0.04, G:0.08, T:0.21
Consensus pattern (22 bp):
TAAAAAATTAGCTAATGAAAAA
Found at i:477380 original size:8 final size:8
Alignment explanation
Indices: 477367--477391 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
477357 TTGATTAAAT
477367 TTTTGTGA
1 TTTTGTGA
477375 TTTTGTGA
1 TTTTGTGA
477383 TTTTGTGA
1 TTTTGTGA
477391 T
1 T
477392 GAATGATGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.24, T:0.64
Consensus pattern (8 bp):
TTTTGTGA
Found at i:478082 original size:61 final size:61
Alignment explanation
Indices: 477922--478096 Score: 222
Period size: 61 Copynumber: 3.0 Consensus size: 61
477912 CTAGTTTAGG
* * * ** * *
477922 CCTTCTCCTTTTAAAGCCCA-ACGAGTTGATGGCATTTTCCAGTCCTCAAAGAGCAGGACG
1 CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACA
477982 CC-TTT-C----AAAGCCCACACAAGTTGGTGGCACCTT-TCAGTCCTCAAAGAGCAGGACA
1 CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT-AGTCCTCAAAGAGCAGGACA
478037 CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGAC
1 CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGAC
478097 GCTCTCTCTT
Statistics
Matches: 99, Mismatches: 7, Indels: 17
0.80 0.06 0.14
Matches are distributed among these distances:
54 8 0.08
55 35 0.35
56 3 0.03
57 1 0.01
58 1 0.01
59 2 0.02
60 2 0.02
61 46 0.46
62 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (61 bp):
CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACA
Found at i:478182 original size:55 final size:55
Alignment explanation
Indices: 478117--478314 Score: 218
Period size: 55 Copynumber: 3.5 Consensus size: 55
478107 TTCACCCTTT
* * *
478117 AGTCCTCAAAGGGCAAGACGCCTTTCAAAGCCCACATGAGTTGGTGGCACTTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCACTTTTC
* * ** *
478172 AGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACGAGTTGGTGGCACCCTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCACTTTTC
*
478227 AGTCCTCAAAGAGCAGGACGTCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTGT-
1 AGTCCTCAAAGAGCAGGACG-C-----C-TTTCAAAGCCCACACGAGTTGGTGGCACTTT-TC
* *
478289 AGTCCTCAAAAAGCAGGACGCATTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTC
478315 GTTTTCCTTT
Statistics
Matches: 119, Mismatches: 16, Indels: 16
0.79 0.11 0.11
Matches are distributed among these distances:
55 70 0.59
56 1 0.01
61 2 0.02
62 46 0.39
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCACTTTTC
Found at i:478347 original size:43 final size:43
Alignment explanation
Indices: 478290--478427 Score: 172
Period size: 43 Copynumber: 3.1 Consensus size: 43
478280 GCACTTTGTA
* *
478290 GTCCTCAAAAAGCAGGACGCATTTCGTTTTCCTTTTCTCCTTT
1 GTCCTCAAAGAGCAGGACGCATTTCGTTTTCCTTTTTTCCTTT
*
478333 GTCCTCAAAGAGCAGGACGC-TTT-TTATTTCCTTCTTTTCCCTTCT
1 GTCCTCAAAGAGCAGGACGCATTTCGT-TTTCCTT-TTTT-CCTT-T
*
478378 AGTCCTCAAAGAGCAGGACACATTTCGTTTTCCTTTTTTCCTTT
1 -GTCCTCAAAGAGCAGGACGCATTTCGTTTTCCTTTTTTCCTTT
*
478422 TTCCTC
1 GTCCTC
478428 GAAAAATGGG
Statistics
Matches: 82, Mismatches: 6, Indels: 14
0.80 0.06 0.14
Matches are distributed among these distances:
41 1 0.01
42 10 0.12
43 27 0.33
44 5 0.06
45 5 0.06
46 23 0.28
47 10 0.12
48 1 0.01
ACGTcount: A:0.17, C:0.28, G:0.13, T:0.41
Consensus pattern (43 bp):
GTCCTCAAAGAGCAGGACGCATTTCGTTTTCCTTTTTTCCTTT
Found at i:478388 original size:46 final size:44
Alignment explanation
Indices: 478288--478421 Score: 166
Period size: 46 Copynumber: 3.0 Consensus size: 44
478278 TGGCACTTTG
*
478288 TAGTCCTCAAAAAGCAGGACGCATTTCGTTTTCCTTTTCTCCTT
1 TAGTCCTCAAAGAGCAGGACGCATTTCGTTTTCCTTTTCTCCTT
* *
478332 T-GTCCTCAAAGAGCAGGACGC-TTT-TTATTTCCTTCTTTTCCCTT
1 TAGTCCTCAAAGAGCAGGACGCATTTCGT-TTTCCTT-TTCT-CCTT
* *
478376 CTAGTCCTCAAAGAGCAGGACACATTTCGTTTTCCTTTTTTCCTT
1 -TAGTCCTCAAAGAGCAGGACGCATTTCGTTTTCCTTTTCTCCTT
478421 T
1 T
478422 TTCCTCGAAA
Statistics
Matches: 78, Mismatches: 5, Indels: 14
0.80 0.05 0.14
Matches are distributed among these distances:
41 1 0.01
42 10 0.13
43 22 0.28
44 6 0.08
45 5 0.06
46 23 0.29
47 10 0.13
48 1 0.01
ACGTcount: A:0.19, C:0.27, G:0.13, T:0.41
Consensus pattern (44 bp):
TAGTCCTCAAAGAGCAGGACGCATTTCGTTTTCCTTTTCTCCTT
Found at i:480011 original size:474 final size:475
Alignment explanation
Indices: 478977--482069 Score: 4055
Period size: 474 Copynumber: 6.5 Consensus size: 475
478967 ATGTGGGGAT
* *
478977 GAATTGATGCTTGTGTTATTTAGGGGATGAACTTTAATTTTAAGAAAAATAGGGCAAAGAAAAGA
1 GAATCGATGCTTGTGTTATTTAGGGGATGAACTTTAATTTTAAGGAAAATAGGGCAAAGAAAAGA
* * * * * * *
479042 ATTTCA--CGAAAAAAATCATTAATATCGTTTATCCTAAAGAGGAGAATGTGTTTATAGTGCGCA
66 ATTCCATGCAAAAAAAATCATCAATATCATTTATCCTAATGAGAAGAATGTGTTTATAGTGCGTA
* * *
479105 ATTAGAAAATGAATGAAGATCTATC-CTAGAATCCATGTTTGTCTCATTCGGGGCACGAACTTAG
131 ATCAGAAAATGAATGAAGATCTA-CACTAGAATCCATGTTTGTCTCATTTGAGGCACGAACTTAG
* * * *
479169 ACCCTGCAAAAATTGGTGGGAAGAAAGCTTTTCTTGCGAAATAAAAGCATCAATATTATATATCC
195 ACCCTACAAAAATTGGTGGGAAGAAAGCTTTTCTTGCGAAACAAAAGCATCAATATTGTGTATCC
* * * *
479234 CTACGAGAACG-CTACATTTATGGAGCCTAATCCCAAAAAGAATTGGGAATAGTATGGTTATTCA
260 TTACGAGAA-GACTACGTTTATGGAGCCTAATCCCGAAAAGAATTGGGAATAGTATGGCTATTCA
* * * * *
479298 AGTTTGTCTTATTTAAGAGGCAAACTTTGATTCTATTAAAAATGG-GGCAAAGAAATGCTTTTCT
324 TGTTTGTCTTATTTAAAAGGCAAACTTTGATTCTATCAAAAACGGTGG-AAAGAAAAGCTTTTCT
* * * * *
479362 TGTGACACCAAAGCATCAATGTCAGGTACCCTAATGAAGGGAATGTGTTTTAGCTTCCCAACCCT
388 TGCGACACCAAAGCATCAATGTCATGTACCCTAATGAAGGAAATGTGTTTTAGCTTCCTAATCCT
* *
479427 -AAAAAAATGGAGACTGTTACAA
453 GAAAAAAATGGAGACTATTACGA
* * ** * * * *
479449 GAATCAATGCTTGTATTATTCGGGGGAAGAACATTAATTTTAAGGAAAATAAGGCAAAGGAAAGA
1 GAATCGATGCTTGTGTTATTTAGGGGATGAACTTTAATTTTAAGGAAAATAGGGCAAAGAAAAGA
* * * * ** *
479514 ACTACATGCCAAAAAAATCATCAATATCTTTTATCCTAATGAGAAGAATGTGTTTGCAGTGCATA
66 ATTCCATGCAAAAAAAATCATCAATATCATTTATCCTAATGAGAAGAATGTGTTTATAGTGCGTA
** *
479579 ATCAGAAAATGAATGAAGATCTACACTAGAATCCATGTTTGTCTTTTTTGAGGCACAAACTTAGA
131 ATCAGAAAATGAATGAAGATCTACACTAGAATCCATGTTTGTCTCATTTGAGGCACGAACTTAGA
*
479644 CCCTACAAAAATTGGTGGGAAGAAAGCTTTTCTTGCAAAACAAAAGCATCAATATTGTGTATCCT
196 CCCTACAAAAATTGGTGGGAAGAAAGCTTTTCTTGCGAAACAAAAGCATCAATATTGTGTATCCT
* * *
479709 TACGAGAGGACTACGTTTATGGAGCCTAATCCCGAAAAGAATTGGGAAGAGTATGGCTATTCTTG
261 TACGAGAAGACTACGTTTATGGAGCCTAATCCCGAAAAGAATTGGGAATAGTATGGCTATTCATG
* * *
479774 TTTGTCTTATTTAAAAGGCAAACTTTGATTCTATCAAAAACGGTAGAAAGAAAAGCATTTCTTGT
326 TTTGTCTTATTTAAAAGGCAAACTTTGATTCTATCAAAAACGGTGGAAAGAAAAGCTTTTCTTGC
* *
479839 GACACCAAAGCATCAATGTCATGTATCCTAATGAAGGAAATGTGTTTTAGGTTCCTAATCCTGAA
391 GACACCAAAGCATCAATGTCATGTACCCTAATGAAGGAAATGTGTTTTAGCTTCCTAATCCTGAA
479904 AAAAATGGAGACTATTACGA
456 AAAAATGGAGACTATTACGA
* ** * *
479924 TAATCGATATTTGGGTTATTTAGGGGATGAACTTTAATTTTAGGGAAAATAGGGCAAAGAAAAGA
1 GAATCGATGCTTGTGTTATTTAGGGGATGAACTTTAATTTTAAGGAAAATAGGGCAAAGAAAAGA
* * * * *
479989 ATTCCATG-GAAAAAAGTCATCAATATCATTTATCCTAAAGAGGAA-AATGTGTTTATGGTGCGC
66 ATTCCATGCAAAAAAAATCATCAATATCATTTATCCTAATGA-GAAGAATGTGTTTATAGTGCGT
* * * * * * *
480052 AATTAGAAAATGAATGAAGATCTATACTATAATCCATGTTTATCTCA-TTCATGGCACGACCATA
130 AATCAGAAAATGAATGAAGATCTACACTAGAATCCATGTTTGTCTCATTTGA-GGCACGAACTTA
* *
480116 GACCCTACAAAAATTGG-GGAGAAGTAAGCTTTTCTTGCGAAACAACAGCATCAATATTGTGTAT
194 GACCCTACAAAAATTGGTGG-GAAGAAAGCTTTTCTTGCGAAACAAAAGCATCAATATTGTGTAT
* * * * *
480180 CGTTACGAGAAGACCACGTTTATGGTGCCTAATCTCGAAAAGAATTGGGAATTGTATGGCTATTC
258 CCTTACGAGAAGACTACGTTTATGGAGCCTAATCCCGAAAAGAATTGGGAATAGTATGGCTATTC
* * * * * *
480245 AT-TTTGTCCTATTTAAGAGGCAAACTTTGAATCTATAAAAAATGGTGGAAAGAAAAGCTTTTGT
323 ATGTTTGTCTTATTTAAAAGGCAAACTTTGATTCTATCAAAAACGGTGGAAAGAAAAGCTTTTCT
** * * * * *
480309 ACCAACACCAAAGCATCAATGTCATATATCCTAATGAAGGAAATGTGTTTTAGGTTCCCAATCCT
388 TGCGACACCAAAGCATCAATGTCATGTACCCTAATGAAGGAAATGTGTTTTAGCTTCCTAATCCT
* *
480374 AAAAAAAATGGAGACTATTATGA
453 GAAAAAAATGGAGACTATTACGA
* * * * *
480397 GAATCGATACTTGTATTATTTGGGGGATGAACTTTAATTTTAAGAAAAATAGGGCTAAGAAAAGA
1 GAATCGATGCTTGTGTTATTTAGGGGATGAACTTTAATTTTAAGGAAAATAGGGCAAAGAAAAGA
* * * *
480462 ATTACATGCAAAAAAATTCATCAATA-CAGTTTATCCTAATGAGAAAAATGTGTTTATAGTACGT
66 ATTCCATGCAAAAAAAATCATCAATATCA-TTTATCCTAATGAGAAGAATGTGTTTATAGTGCGT
* * * *
480526 AATCAGAAAATGAATAAAGATTTACACTAGAATCCATGTTTATCTCATTTGAGGCACAAACTTAG
130 AATCAGAAAATGAATGAAGATCTACACTAGAATCCATGTTTGTCTCATTTGAGGCACGAACTTAG
* **
480591 ACCCTACAAAAATTGGAGGGAAGAAAGCTTTTCTTATGAAACAAAAGCATCAATATTGTGTATCC
195 ACCCTACAAAAATTGGTGGGAAGAAAGCTTTTCTTGCGAAACAAAAGCATCAATATTGTGTATCC
* * * * * * * *
480656 TTACTAGAAGACTACATTTATGGTGCCTAATCTCAAAAAGAATTGCGATTAGTATGGCTATTAAT
260 TTACGAGAAGACTACGTTTATGGAGCCTAATCCCGAAAAGAATTGGGAATAGTATGGCTATTCAT
* * * * ** *
480721 GTTTGTCTTATTTTAAAGGCAAACTTTGAATCTATCAAAAATGATGGAAAGAAGTGCTTTTCTTA
325 GTTTGTCTTATTTAAAAGGCAAACTTTGATTCTATCAAAAACGGTGGAAAGAAAAGCTTTTCTTG
* *
480786 CGACACCAAAGCGTCAATGTCATGTACCCTAATGAA-GAGAATGTGTTTTAGCTTCTTAATCCTG
390 CGACACCAAAGCATCAATGTCATGTACCCTAATGAAGGA-AATGTGTTTTAGCTTCCTAATCCTG
* *
480850 AAAAAAATGGAGAGTGTTACGA
454 AAAAAAATGGAGACTATTACGA
* * *
480872 AAATCGATGCTTGTGTTATTTAGGGGATGAACCTTAATTTTAAGGAAAATAAGGCAAAGAAAAGA
1 GAATCGATGCTTGTGTTATTTAGGGGATGAACTTTAATTTTAAGGAAAATAGGGCAAAGAAAAGA
* *
480937 ATTCCATCGCAAAAAGAAAATCATCAACATCATTTATCCTAACGAGAAGAATGTGTTTATAGTGC
66 ATTCCAT-GC-AAAA-AAAATCATCAATATCATTTATCCTAATGAGAAGAATGTGTTTATAGTGC
*
481002 GTAATCAGAAAATGAATGAAGATCTACAGTAGAATCCATGTTTGTCTCATTTGAGGCACGAACTT
128 GTAATCAGAAAATGAATGAAGATCTACACTAGAATCCATGTTTGTCTCATTTGAGGCACGAACTT
* * * *
481067 AGACTCTACAAAAATTGGTGGGAAGAAAGCTTTTCCTGTGAAACAAAATCATCAATATTGTGTAT
193 AGACCCTACAAAAATTGGTGGGAAGAAAGCTTTTCTTGCGAAACAAAAGCATCAATATTGTGTAT
*
481132 CCTTACGAGAAGACTACGTTTATGGAGCCTAATCCCGAAAAGAATTGGGAAAAGTATGGCTATTC
258 CCTTACGAGAAGACTACGTTTATGGAGCCTAATCCCGAAAAGAATTGGGAATAGTATGGCTATTC
** * * * *
481197 ATGTTTGTCTTATTTAAGTGGTAAACTTTGATTCTATCAAAAACGGTGGAAATAAATGCTTGTCT
323 ATGTTTGTCTTATTTAAAAGGCAAACTTTGATTCTATCAAAAACGGTGGAAAGAAAAGCTTTTCT
* * *
481262 TGCGACACCAAAGCATTAATGTCATGTACCCTAATGAAGGGAATGTGTTTTAGCTT-TTAATCCT
388 TGCGACACCAAAGCATCAATGTCATGTACCCTAATGAAGGAAATGTGTTTTAGCTTCCTAATCCT
* * * *
481326 GAAAAAAATGGGGACTGTTGCCA
453 GAAAAAAATGGAGACTATTACGA
* *** * * *
481349 GAGTCGATGCTTACATTATTTAGGGGATGAACTTTAATTTTAAGAAAAATAGGGCGAGGAAAAGA
1 GAATCGATGCTTGTGTTATTTAGGGGATGAACTTTAATTTTAAGGAAAATAGGGCAAAGAAAAGA
* * * *
481414 ATTCCATGCAAAAAAAATCATCAATATCATTTATCCTAATAAGGAGAATGTTTTTATAGTGCATA
66 ATTCCATGCAAAAAAAATCATCAATATCATTTATCCTAATGAGAAGAATGTGTTTATAGTGCGTA
* * * * * *
481479 ATCAAAAAATGAATGAAGATCTATACTAGAATCCGTGTTTGTCTTATTTAAGGCACGACCTTAGA
131 ATCAGAAAATGAATGAAGATCTACACTAGAATCCATGTTTGTCTCATTTGAGGCACGAACTTAGA
* * * * * *
481544 GCCTGCAAAAATTAGTGGGAAGAGAGC-TTTCTTTGCGAAATAAAAGCATCAATATTGGGTATCC
196 CCCTACAAAAATTGGTGGGAAGAAAGCTTTTC-TTGCGAAACAAAAGCATCAATATTGTGTATCC
* *
481608 TTACGAGAAGACTACGTTTATGGCGCCTAATCCCGAAAAGAATTGGCAATAGTATGGCTATTCAT
260 TTACGAGAAGACTACGTTTATGGAGCCTAATCCCGAAAAGAATTGGGAATAGTATGGCTATTCAT
** *
481673 -TTTGTCTTATTTAAAAGGCAAACTTTGATTCTATCAAAAACGGCAGAAAGAAAAGCTTTTCTTC
325 GTTTGTCTTATTTAAAAGGCAAACTTTGATTCTATCAAAAACGGTGGAAAGAAAAGCTTTTCTTG
* * * ** * *
481737 CGACACCAAAGCATCAATGTCATTTATCTTAACAAAAGGAAA-GTG-TTTAGGTTACC-AATCTT
390 CGACACCAAAGCATCAATGTCATGTACCCTAA-TGAAGGAAATGTGTTTTAGCTT-CCTAATCCT
* *
481799 GAAAAAAATAGAGACTACTACGA
453 GAAAAAAATGGAGACTATTACGA
* * * **
481822 GAATCGATGCTTGTGTTATTTAGGGGGTGAACTTTAATTCTACGGAAAATAGGTTAAAGAAAAGA
1 GAATCGATGCTTGTGTTATTTAGGGGATGAACTTTAATTTTAAGGAAAATAGGGCAAAGAAAAGA
* * *
481887 ATTCCATGCAAAAAAAATCATCAATATCATTTATCCTAATGAGGAGAATGTGGTTATAGTGTGTA
66 ATTCCATGCAAAAAAAATCATCAATATCATTTATCCTAATGAGAAGAATGTGTTTATAGTGCGTA
* * *
481952 ACCAGAAAATGAATGAAGATCTATACTAGAATCCATGTTTGTCTCATTCGAGGCACGAACTTAGA
131 ATCAGAAAATGAATGAAGATCTACACTAGAATCCATGTTTGTCTCATTTGAGGCACGAACTTAGA
* * *
482017 CCCTATAAAAATTGGTGGGAAGAAAGCTTTTCTTGCGACACCAAAGCATCAAT
196 CCCTACAAAAATTGGTGGGAAGAAAGCTTTTCTTGCGAAACAAAAGCATCAAT
482070 GTCAGGTACC
Statistics
Matches: 2278, Mismatches: 317, Indels: 51
0.86 0.12 0.02
Matches are distributed among these distances:
472 66 0.03
473 533 0.23
474 977 0.43
475 280 0.12
476 4 0.00
477 93 0.04
478 322 0.14
479 3 0.00
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (475 bp):
GAATCGATGCTTGTGTTATTTAGGGGATGAACTTTAATTTTAAGGAAAATAGGGCAAAGAAAAGA
ATTCCATGCAAAAAAAATCATCAATATCATTTATCCTAATGAGAAGAATGTGTTTATAGTGCGTA
ATCAGAAAATGAATGAAGATCTACACTAGAATCCATGTTTGTCTCATTTGAGGCACGAACTTAGA
CCCTACAAAAATTGGTGGGAAGAAAGCTTTTCTTGCGAAACAAAAGCATCAATATTGTGTATCCT
TACGAGAAGACTACGTTTATGGAGCCTAATCCCGAAAAGAATTGGGAATAGTATGGCTATTCATG
TTTGTCTTATTTAAAAGGCAAACTTTGATTCTATCAAAAACGGTGGAAAGAAAAGCTTTTCTTGC
GACACCAAAGCATCAATGTCATGTACCCTAATGAAGGAAATGTGTTTTAGCTTCCTAATCCTGAA
AAAAATGGAGACTATTACGA
Found at i:482041 original size:158 final size:157
Alignment explanation
Indices: 481878--482357 Score: 335
Period size: 158 Copynumber: 3.0 Consensus size: 157
481868 AAATAGGTTA
*
481878 AAGAAAAGAATTCCATGCAAAAAAAATCATCAATATCATTTATCCTAATGAGGAGAATGTGGTTA
1 AAGAAAAGAATTACATGCAAAAAAAATCATCAATATCATTTATCCTAATGAGGAGAATGTGGTTA
*
481943 TAGTGTGTAACCAGAAAATGAATGAAGATCTATACTAGAATCCATGTTTGTCTCATTCGAGGCAC
66 TAGTGTATAACCAGAAAATGAATGAAGATCTATACTAGAATCCATGTTTGTCTCATTCGAGGCAC
*
482008 GAACTTAGACCCTATAAAAATTGGTGGG
131 AAACTTAGACCCTA-AAAAATTGGTGGG
** * * * ** * * ** *
482036 AAG-AAAGCTTTTCTTGCGACACCAAAGCATCAATGTCAGGTACCCTAATGAAGG-GAATGT-GT
1 AAGAAAAGAATTACATGC-AAAAAAAATCATCAATATCATTTATCCTAATG-AGGAGAATGTGGT
* * ** ** ** * * * * * * *
482098 TTTAACT-TCCCAACCCTAAAAAAAATGGAGA-CTATTACAAGAATCAATGCTTGTATTATTCGG
64 TAT-AGTGT-ATAACCAGAAAATGAATGAAGATCTA-TACTAGAATCCATGTTTGTCTCATTCGA
* ** *** ** **
482161 GGGATTAACATTA-ATTTTAAGGAAAATAAG-GCA
126 GGCACAAAC-TTAGACCCTAA--AAAATTGGTGGG
* * * * * * *
482194 AAGGAAAGAACTACATGCCAAAAAAATCATCAATATCTTTTATCCTAATGAGAAGAATGTGTTTG
1 AAGAAAAGAATTACATGCAAAAAAAATCATCAATATCATTTATCCTAATGAGGAGAATGTGGTTA
* * * * * * *
482259 CAGTGCATAATCAGAAAATGAATGAAGATCTACACTGGAATCCATGTTTGTCTCTTTTGAGGCAC
66 TAGTGTATAACCAGAAAATGAATGAAGATCTATACTAGAATCCATGTTTGTCTCATTCGAGGCAC
482324 AAACTTAGACCCTACAAAAATTGGTGGG
131 AAACTTAGACCCTA-AAAAATTGGTGGG
482352 AAGAAA
1 AAGAAA
482358 GCTTTTCCTA
Statistics
Matches: 219, Mismatches: 87, Indels: 32
0.65 0.26 0.09
Matches are distributed among these distances:
157 30 0.14
158 162 0.74
159 27 0.12
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.27
Consensus pattern (157 bp):
AAGAAAAGAATTACATGCAAAAAAAATCATCAATATCATTTATCCTAATGAGGAGAATGTGGTTA
TAGTGTATAACCAGAAAATGAATGAAGATCTATACTAGAATCCATGTTTGTCTCATTCGAGGCAC
AAACTTAGACCCTAAAAAATTGGTGGG
Found at i:482224 original size:316 final size:315
Alignment explanation
Indices: 481724--482364 Score: 845
Period size: 316 Copynumber: 2.0 Consensus size: 315
481714 GGCAGAAAGA
** * * **
481724 AAAGCTTTTCTTCCGACACCAAAGCATCAATGTCATTTATCTTAACAAAAGGAAAGTGTTTAGGT
1 AAAGCTTTTCTTCCGACACCAAAGCATCAATGTCAGGTACCCTAACAAAAGGAAAGTGTTTAACT
* * * * * *
481789 TACCAATCTTGAAAAAAATAGAGACTACTACGAGAATCGATGCTTGTGTTATTTAGGGGGTGAAC
66 TACCAACCCTAAAAAAAATAGAGACTACTACAAGAATCAATGCTTGTATTATTTAGGGGGTGAAC
* * * * *
481854 TTTAATTCTACGGAAAATAGGTTAAAGAAAAGAATTCCATGCAAAAAAAATCATCAATATCATTT
131 ATTAATTCTAAGGAAAATAGGTCAAAGAAAAGAACTACATGCAAAAAAAATCATCAATATCATTT
* * ** *
481919 ATCCTAATGAGGAGAATGTGGTTATAGTGTGTAACCAGAAAATGAATGAAGATCTATACTAGAAT
196 ATCCTAATGAGAAGAATGTGGTTACAGTGCATAACCAGAAAATGAATGAAGATCTACACTAGAAT
* *
481984 CCATGTTTGTCTCATTCGAGGCACGAACTTAGACCCTATAAAAATTGGTGGGAAG
261 CCATGTTTGTCTCATTCGAGGCACAAACTTAGACCCTACAAAAATTGGTGGGAAG
* ** * *
482039 AAAGCTTTTCTTGCGACACCAAAGCATCAATGTCAGGTACCCTAATGAAGGGAATGTGTTTTAAC
1 AAAGCTTTTCTTCCGACACCAAAGCATCAATGTCAGGTACCCTAACAAAAGGAAAGTG-TTTAAC
* * * * *
482104 TTCCCAACCCTAAAAAAAATGGAGACTATTACAAGAATCAATGCTTGTATTA-TTCGGGGGATTA
65 TTACCAACCCTAAAAAAAATAGAGACTACTACAAGAATCAATGCTTGTATTATTTAGGGGG-TGA
* * * *
482168 ACATTAATTTTAAGGAAAATAAGG-CAAAGGAAAGAACTACATGCCAAAAAAATCATCAATATCT
129 ACATTAATTCTAAGGAAAAT-AGGTCAAAGAAAAGAACTACATGCAAAAAAAATCATCAATATCA
* * * *
482232 TTTATCCTAATGAGAAGAATGTGTTTGCAGTGCATAATCAGAAAATGAATGAAGATCTACACTGG
193 TTTATCCTAATGAGAAGAATGTGGTTACAGTGCATAACCAGAAAATGAATGAAGATCTACACTAG
* *
482297 AATCCATGTTTGTCTCTTTTGAGGCACAAACTTAGACCCTACAAAAATTGGTGGGAAG
258 AATCCATGTTTGTCTCATTCGAGGCACAAACTTAGACCCTACAAAAATTGGTGGGAAG
482355 AAAGCTTTTC
1 AAAGCTTTTC
482365 CTAGGAAACA
Statistics
Matches: 279, Mismatches: 44, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
315 56 0.20
316 220 0.79
317 3 0.01
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.28
Consensus pattern (315 bp):
AAAGCTTTTCTTCCGACACCAAAGCATCAATGTCAGGTACCCTAACAAAAGGAAAGTGTTTAACT
TACCAACCCTAAAAAAAATAGAGACTACTACAAGAATCAATGCTTGTATTATTTAGGGGGTGAAC
ATTAATTCTAAGGAAAATAGGTCAAAGAAAAGAACTACATGCAAAAAAAATCATCAATATCATTT
ATCCTAATGAGAAGAATGTGGTTACAGTGCATAACCAGAAAATGAATGAAGATCTACACTAGAAT
CCATGTTTGTCTCATTCGAGGCACAAACTTAGACCCTACAAAAATTGGTGGGAAG
Found at i:483244 original size:472 final size:474
Alignment explanation
Indices: 482019--483686 Score: 2118
Period size: 472 Copynumber: 3.5 Consensus size: 474
482009 AACTTAGACC
* *
482019 CTAT-AAAAATTGGTGGGAAG-AAAGCTTTTCTTGCGACACCAAAGCATCAATGTCAGGTACCCT
1 CTATCAAAAA-TGGTGGAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCATGTACCCT
* * *
482082 AATGAAGGGAATGTGTTTTAACTTCCCAACCCTAAAAAAAATGGAGACTATTACAAGAATCAATG
65 AATGAAGGGAATGTGTTTTAGCTTCCCAATCCTGAAAAAAATGGAGACTATTACAAGAATCAATG
** * * *
482147 CTTGTATTATTCGGGGGATTAACATTAATTTTAAGGAAAATAAGGCAAAGGAAAGAACTACATGC
130 CTTGTATTATTTAGGGGATGAACATTAATTTTAAGGAAAAAAAGGCAAA-GAAAGAATTACATGC
* * * ** *
482212 CAAAAAAATCATCAATATCTTTTATCCTAATGAGAAGAATGTGTTTGCAGTGCATAATCAGAAAA
194 AAAAAAAATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCGTAATCAGAAAA
*
482277 TGAATGAAGATCTACACTGGAATCCATGTTTGTCTCTTTTGAGGCACAAACTTAGACCCTACAAA
259 TGAATGAAGATCTACACTAGAATCCATGTTTGTCTCTTTTGAGGCACAAACTTAGACCCTACAAA
* * *
482342 AATTGGTGGGAAGAAAGCTTTTCCTAG-GAAACAAAAGCATCAATATTGTGTATCCTGATGAGAA
324 AATTGGTGGGAAGAAAGCTTTT-CTTGCGAAACAAAAGCATCAATATTGTGTATCCTTAAGAGAA
* * *
482406 GACTACGTTTATGG-CGCCTAATCCCGAAAAGAATTGGGAAGAGTATGGCTATTCATGTTTGTCT
388 GACTACGTTTATGGTC-CCTAATCCCAAAAAGAATTGGGAATAGTATGGCTATTCATTTTTGTCT
*
482470 TATTTAAGAGGCAAACTTTGATT
452 TATTTAAGAGGGAAACTTTGATT
* * * * *
482493 CTATCAAAAATGGTGGAAAGAAATGCTTTTCTTGCGGCACCAAAGCATTAATGTCATGGATCCTA
1 CTATCAAAAATGGTGGAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCATGTACCCTA
* * ** * * *
482558 ATGAAGAGAATGTGTTTTAGGTTCCCAATCCTGAAAAAAAAAGAGTCTATTACGAGAATCGATGC
66 ATGAAGGGAATGTGTTTTAGCTTCCCAATCCTGAAAAAAATGGAGACTATTACAAGAATCAATGC
** * * * *
482623 TTGTGCTATTTAGGGCATGAACTTTAATTTTAAGG-AAAATAGCGC-AAGCAAAGAATTCCATGC
131 TTGTATTATTTAGGGGATGAACATTAATTTTAAGGAAAAAAAG-GCAAAG-AAAGAATTACATGC
* * * *
482686 AAAAAAAATCATCAACATTATTTATCCTAATGAGGAGAATGTGTTTATAGTGCGTAACCAAAAAA
194 AAAAAAAATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCGTAATCAGAAAA
* * * * *
482751 TGAATAAAGATCTATACTAGAATCTATGTTTGTGTCTTTTGAGGCACGAACTTAGACCCTACAAA
259 TGAATGAAGATCTACACTAGAATCCATGTTTGTCTCTTTTGAGGCACAAACTTAGACCCTACAAA
* * *
482816 AATTGGTGGGAAGAAAGCTTTTCTTGCAAAACAAAAGCATCAATATTGTGTATACTTACGAGAAG
324 AATTGGTGGGAAGAAAGCTTTTCTTGCGAAACAAAAGCATCAATATTGTGTATCCTTAAGAGAAG
* * * *
482881 ACTACATTTACGGTCCCTAATGCCAAAAAGAGTTGGGAATAGTATGGCTATTC-TTTTTGTCTTA
389 ACTACGTTTATGGTCCCTAATCCCAAAAAGAATTGGGAATAGTATGGCTATTCATTTTTGTCTTA
482945 TTTAAGAGGGAAACTTTGATT
454 TTTAAGAGGGAAACTTTGATT
* * *
482966 CTATCAAAAATGGTGGAAAGAAAAGCTTTTATTGCGACACCAAAGCATCAATGTCTTGTATCCTA
1 CTATCAAAAATGGTGGAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCATGTACCCTA
* * * * * * *
483031 ATGAAGGGACTGTGTCTTAGGTTCCCAATCCTGAAAAAAATGGA-ACTGTTACGAGAATCGATGT
66 ATGAAGGGAATGTGTTTTAGCTTCCCAATCCTGAAAAAAATGGAGACTATTACAAGAATCAATGC
* *
483095 TTGTGTTATTTAGGGGATGAACTTTAATTTTAA-GAAAAAAAGGCAAAGAAAAGAATTACATG-A
131 TTGTATTATTTAGGGGATGAACATTAATTTTAAGGAAAAAAAGGCAAAG-AAAGAATTACATGCA
* * * *
483158 AAATAAAATCATCAATATCATTTATCCTTATGAGGAGATTGTGTTTATAATGCGTAATCTGAAAA
195 AAA-AAAATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCGTAATCAGAAAA
*
483223 TGAATGAAGATCTACACTAGAATCCATGTTTGTCTCATTTGAGGCACAAACTTAGACCCTACAAA
259 TGAATGAAGATCTACACTAGAATCCATGTTTGTCTCTTTTGAGGCACAAACTTAGACCCTACAAA
* *
483288 AATTGGTGGGAAGAAAGCTTTTTTTACGAAACAAAAGCATCAATATTGTGTATCCTTAAGAGAAG
324 AATTGGTGGGAAGAAAGCTTTTCTTGCGAAACAAAAGCATCAATATTGTGTATCCTTAAGAGAAG
* * * *
483353 ACTATGTTTATGGTGCCTAATCCCAAAAAGACTTGGGAATAGTATGGCTATTCATGTTTGTCTAT
389 ACTACGTTTATGGTCCCTAATCCCAAAAAGAATTGGGAATAGTATGGCTATTCA--TTT-T-TGT
483418 CAAAAATGGGAATAGTATCCTTAAGAGAAGGCAAACTTTGATT
450 C-----------T--TAT--TTAAGAG--GG-AAACTTTGATT
* * *
483461 CTATCAAAAATGG-GGAAAAAAAAGCTTTTCTTGCAACACCAAAGCGTCAATGTCATGTACCCTA
1 CTATCAAAAATGGTGGAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCATGTACCCTA
* * **
483525 ATAAAGGGAATATGTTTTAGCTTCCCAA-CCACAAAAATAATGGAGACTATTACAAGAATCAATG
66 ATGAAGGGAATGTGTTTTAGCTTCCCAATCCTGAAAAA-AATGGAGACTATTACAAGAATCAATG
* * * * * *
483589 CTTGTATTATTTGGGGGATGAACATTAATTTTAAGGAAAATAAGGCAGAGGAAGAATTACAAGCC
130 CTTGTATTATTTAGGGGATGAACATTAATTTTAAGGAAAAAAAGGCAAAGAAAGAATTACATGCA
*
483654 AAAAAAATCATCAATATCTTTTATCCTAATGAG
195 AAAAAAATCATCAATATCATTTATCCTAATGAG
483687 AAAAATGGTT
Statistics
Matches: 1029, Mismatches: 129, Indels: 51
0.85 0.11 0.04
Matches are distributed among these distances:
471 7 0.01
472 288 0.28
473 132 0.13
474 247 0.24
475 132 0.13
476 1 0.00
477 3 0.00
488 1 0.00
490 3 0.00
492 7 0.01
493 7 0.01
494 76 0.07
495 109 0.11
496 16 0.02
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (474 bp):
CTATCAAAAATGGTGGAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCATGTACCCTA
ATGAAGGGAATGTGTTTTAGCTTCCCAATCCTGAAAAAAATGGAGACTATTACAAGAATCAATGC
TTGTATTATTTAGGGGATGAACATTAATTTTAAGGAAAAAAAGGCAAAGAAAGAATTACATGCAA
AAAAAATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCGTAATCAGAAAATG
AATGAAGATCTACACTAGAATCCATGTTTGTCTCTTTTGAGGCACAAACTTAGACCCTACAAAAA
TTGGTGGGAAGAAAGCTTTTCTTGCGAAACAAAAGCATCAATATTGTGTATCCTTAAGAGAAGAC
TACGTTTATGGTCCCTAATCCCAAAAAGAATTGGGAATAGTATGGCTATTCATTTTTGTCTTATT
TAAGAGGGAAACTTTGATT
Found at i:483935 original size:19 final size:21
Alignment explanation
Indices: 483887--483941 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
483877 AATTTCAATA
*
483887 ATTTGTATCGATACATTCAGT
1 ATTTGTATCGATACATTAAGT
**
483908 AAATGTATCGATACA-TAAGT
1 ATTTGTATCGATACATTAAGT
483928 -TTTGTATCGATACA
1 ATTTGTATCGATACA
483942 ATGTATCGCT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 12 0.41
20 4 0.14
21 13 0.45
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.38
Consensus pattern (21 bp):
ATTTGTATCGATACATTAAGT
Found at i:484652 original size:12 final size:13
Alignment explanation
Indices: 484622--484655 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
484612 ATTCCCGTAG
484622 CTCCAAAAAACAC
1 CTCCAAAAAACAC
*
484635 CACCAAAAAA-AC
1 CTCCAAAAAACAC
484647 CTCCAAAAA
1 CTCCAAAAA
484656 CTCCATATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.59, C:0.35, G:0.00, T:0.06
Consensus pattern (13 bp):
CTCCAAAAAACAC
Found at i:486373 original size:51 final size:53
Alignment explanation
Indices: 486312--486411 Score: 150
Period size: 51 Copynumber: 1.9 Consensus size: 53
486302 CAATTGTTCA
* *
486312 TAATTAGGGATACTCCAACCCCAGTTTTATTTTC-AAAACACCAATTTTCCTT
1 TAATTAGGGATACTCCAACCCCAATTTTATTTCCAAAAACACCAATTTTCCTT
* *
486364 TAATT-GGGATACTCCAACTCCAATTTTATTTCCAAAAACACTAATTTT
1 TAATTAGGGATACTCCAACCCCAATTTTATTTCCAAAAACACCAATTTT
486412 TCACAATCGA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 25 0.58
52 18 0.42
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.37
Consensus pattern (53 bp):
TAATTAGGGATACTCCAACCCCAATTTTATTTCCAAAAACACCAATTTTCCTT
Found at i:486575 original size:51 final size:50
Alignment explanation
Indices: 486476--486696 Score: 221
Period size: 51 Copynumber: 4.3 Consensus size: 50
486466 TTACCTCCGA
* * * * *
486476 GGGGATACTCCCACCCCAGCTTTATTTCGAAAATATTGA-TTTCTCATAATC
1 GGGGATACTCCAACCCCAGTTTTATTTC-AAAACACTAATTTTC-CATAATC
* *
486527 GGTGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTCCATAATC
1 GGGGATACTCCAACCCCAGTTTTATTTC-AAAACACTAATTTTCCATAATC
* *
486578 GGGGATACTCCAACCCCAGTTTTATCTTCAAAACACCAATTTTCCTTTAATC
1 GGGGATACTCCAACCCCAGTTTTAT-TTCAAAACACTAATTTTCC-ATAATC
* * * * *
486630 GGGGATACTCTAGCTCC-GATTTTATTTCCAAAAACACTAATTTTTCACAATC
1 GGGGATACTCCAACCCCAG-TTTTATTT-C-AAAACACTAATTTTCCATAATC
*
486682 GAGGATACTCCAACC
1 GGGGATACTCCAACC
486697 TCGTTATTTC
Statistics
Matches: 141, Mismatches: 23, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
51 79 0.56
52 48 0.34
53 14 0.10
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (50 bp):
GGGGATACTCCAACCCCAGTTTTATTTCAAAACACTAATTTTCCATAATC
Found at i:486653 original size:52 final size:50
Alignment explanation
Indices: 486515--486696 Score: 195
Period size: 52 Copynumber: 3.5 Consensus size: 50
486505 AAAATATTGA
* * *
486515 TTTCTCATAATCGGTGATACTCCAACCCCGGTTTTATTTCTAAAACACTAAT
1 TTTC-CATAATCGGGGATACTCCAA-CCCGATTTTATTTCAAAAACACTAAT
* *
486567 TTTCCATAATCGGGGATACTCCAACCCCAGTTTTATCTTC-AAAACACCAAT
1 TTTCCATAATCGGGGATACTCCAACCCGA-TTTTAT-TTCAAAAACACTAAT
* * *
486618 TTTCCTTTAATCGGGGATACTCTAGCTCCGATTTTATTTCCAAAAACACTAAT
1 TTTCC-ATAATCGGGGATACTCCAAC-CCGATTTTATTT-CAAAAACACTAAT
* * *
486671 TTTTCACAATCGAGGATACTCCAACC
1 TTTCCATAATCGGGGATACTCCAACC
486697 TCGTTATTTC
Statistics
Matches: 109, Mismatches: 15, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
50 3 0.03
51 43 0.39
52 46 0.42
53 17 0.16
ACGTcount: A:0.30, C:0.26, G:0.10, T:0.34
Consensus pattern (50 bp):
TTTCCATAATCGGGGATACTCCAACCCGATTTTATTTCAAAAACACTAAT
Found at i:486782 original size:262 final size:261
Alignment explanation
Indices: 486318--486806 Score: 798
Period size: 262 Copynumber: 1.9 Consensus size: 261
486308 TTCATAATTA
* *
486318 GGGATACTCCAACCCCAGTTTTATTTTCAAAACACCAATTTTCCTTTAATTGGGATACTCCAACT
1 GGGATACTCCAACCCCAGTTTTATCTTCAAAACACCAATTTTCCTTTAATGGGGATACTCCAACT
486383 CCAATTTTATTTCCAAAAACACTAATTTTTCACAATCGAGGACACTCCAACCTCATTATTTCATC
66 CCAATTTTATTTCCAAAAACACTAATTTTTCACAATCGAGGACACTCCAACCTCATTATTTCATC
* * * * * *
486448 AGGGATACTCCAACCCTGTTACCTCCGAGGGGATACTCCCACCCCAGCTTTATTTCGAAAATATT
131 AGGGATACTCCAACCCCGTTACCTCCGACGGAATACTCCAACCCCAGCTTTATTCCCAAAATATT
*
486513 GATTTCTCATAATCGGTGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTCCATAATC
196 GATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTCCATAATC
486578 G
261 G
* *
486579 GGGATACTCCAACCCCAGTTTTATCTTCAAAACACCAATTTTCCTTTAATCGGGGATACTCTAGC
1 GGGATACTCCAACCCCAGTTTTATCTTCAAAACACCAATTTTCCTTTAAT-GGGGATACTCCAAC
* * *
486644 TCCGATTTTATTTCCAAAAACACTAATTTTTCACAATCGAGGATACTCCAACCTCGTTATTTCAT
65 TCCAATTTTATTTCCAAAAACACTAATTTTTCACAATCGAGGACACTCCAACCTCATTATTTCAT
* *
486709 CGGGGATACTCTAACCCCGTTACCTCCGACGGAATACTCCAACCCCAGCTTTATTCCCAAAATAT
130 CAGGGATACTCCAACCCCGTTACCTCCGACGGAATACTCCAACCCCAGCTTTATTCCCAAAATAT
* * *
486774 TGATTTCTCATCATTGGGGATACTTCAACCCCG
195 TGATTTCTCATAATCGGGGATACTCCAACCCCG
486807 TTATTTCCGA
Statistics
Matches: 208, Mismatches: 19, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
261 49 0.24
262 159 0.76
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.32
Consensus pattern (261 bp):
GGGATACTCCAACCCCAGTTTTATCTTCAAAACACCAATTTTCCTTTAATGGGGATACTCCAACT
CCAATTTTATTTCCAAAAACACTAATTTTTCACAATCGAGGACACTCCAACCTCATTATTTCATC
AGGGATACTCCAACCCCGTTACCTCCGACGGAATACTCCAACCCCAGCTTTATTCCCAAAATATT
GATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTCCATAATC
G
Found at i:486927 original size:20 final size:20
Alignment explanation
Indices: 486902--486941 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
486892 TCAAGGGGAT
486902 ACTCCAACCCCGTTATTATC
1 ACTCCAACCCCGTTATTATC
486922 ACTCCAACCCCGTTATTATC
1 ACTCCAACCCCGTTATTATC
486942 CCCAAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.40, G:0.05, T:0.30
Consensus pattern (20 bp):
ACTCCAACCCCGTTATTATC
Found at i:491863 original size:32 final size:31
Alignment explanation
Indices: 491819--492348 Score: 544
Period size: 32 Copynumber: 16.6 Consensus size: 31
491809 TCTAAAAGAC
* * *
491819 CAAGTCGATGGTAACCCTTCTCAAAGCCCATA
1 CAAGTCGGTGGCAACCCTTCT-AAAGCCCACA
* * *
491851 CAAGTCGGTGGTAACTCTTCTCTAAAGCCCATA
1 CAAGTCGGTGGCAAC-CCT-TCTAAAGCCCACA
* *
491884 CAAGTCAGTGGCAACCCCTCTTAAAGCCCACA
1 CAAGTCGGTGGCAACCCTTC-TAAAGCCCACA
* ** *
491916 TAAGTTAGTGGCAACCCTTCTAAAGCCCATA
1 CAAGTCGGTGGCAACCCTTCTAAAGCCCACA
* * *
491947 TAAGTCGGTGGCAACCTTTCTCTAAAAGCCTACA
1 CAAGTCGGTGGCAACC-CT-TCT-AAAGCCCACA
491981 CAAGTCGGTGGCAACCCCTTCTAAAGCCCACA
1 CAAGTCGGTGGCAA-CCCTTCTAAAGCCCACA
* * *
492013 CAAGTCAGTGGC-ACCTCTTTTTAAAGCCCACG
1 CAAGTCGGTGGCAACC-C-TTCTAAAGCCCACA
* * *
492045 CAAGTCGATGGCAACCCTCCTTTAAAGCCCATA
1 CAAGTCGGTGGCAACCCT--TCTAAAGCCCACA
* * *
492078 TAAGTCAGTGGCAACCCTTCTAAAGCCAACA
1 CAAGTCGGTGGCAACCCTTCTAAAGCCCACA
*
492109 CAAGTTGGTGGCAACCCTTCTCTAAAGCCCACA
1 CAAGTCGGTGGCAACCC-T-TCTAAAGCCCACA
**
492142 CAAGTTAGTGGCAACCTCTTCTAAAGCCCACA
1 CAAGTCGGTGGCAACC-CTTCTAAAGCCCACA
* * * *
492174 TAAGTTGGTGGCAACCCTTCTCAAAACCCATA
1 CAAGTCGGTGGCAACCCTTCT-AAAGCCCACA
*
492206 CAAGTCGGTGGCAACCATTCTCTAAAGCCCACA
1 CAAGTCGGTGGCAACC-CT-TCTAAAGCCCACA
*
492239 CAAGTCAGTGGCAACCCTTCTAAAGCCCACA
1 CAAGTCGGTGGCAACCCTTCTAAAGCCCACA
* *
492270 TAAGTCGGTGGCAACCCTTTTTAAAGCCCACA
1 CAAGTCGGTGGCAACCC-TTCTAAAGCCCACA
*
492302 CAAGTCGGTGGCAACCC-T-TAAAGTCCACA
1 CAAGTCGGTGGCAACCCTTCTAAAGCCCACA
492331 CAAGTCGGTGGCAACCCT
1 CAAGTCGGTGGCAACCCT
492349 CTTAAAAGCA
Statistics
Matches: 425, Mismatches: 53, Indels: 42
0.82 0.10 0.08
Matches are distributed among these distances:
29 27 0.06
30 3 0.01
31 86 0.20
32 166 0.39
33 112 0.26
34 29 0.07
35 2 0.00
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.21
Consensus pattern (31 bp):
CAAGTCGGTGGCAACCCTTCTAAAGCCCACA
Found at i:491910 original size:65 final size:65
Alignment explanation
Indices: 491831--492354 Score: 572
Period size: 65 Copynumber: 8.2 Consensus size: 65
491821 AGTCGATGGT
* * * * *
491831 AACCCTTCTCAAAGCCCATACAAGTCGGTGGTAACTCTTCTCTAAAGCCCATACAAGTCAGTGGC
1 AACCCTTCTTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCAGTGGC
* * ** * * *
491896 AACCCCTCTTAAAGCCCACATAAGTTAGTGGCAACCC-T-TCTAAAGCCCATATAAGTCGGTGGC
1 AACCCTTCTTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCAGTGGC
* * *
491959 AACCTTTCTCTAAAAGCCTACACAAGTCGGTGGCAACCCCT-TCTAAAGCCCACACAAGTCAGTG
1 AACCCTTCT-T-AAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCAGTG
492023 GC
64 GC
* * * * * * *
492025 -ACCTCTTTTTAAAGCCCACGCAAGTCGATGGCAACCCTCCTTTAAAGCCCATATAAGTCAGTGG
1 AACC-CTTCTTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCAGTGG
492089 C
65 C
* * *
492090 AACCCTTC-TAAAGCCAACACAAGTTGGTGGCAACCCTTCTCTAAAGCCCACACAAGTTAGTGGC
1 AACCCTTCTTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCAGTGGC
* * * * *
492154 AACCTCTTC-TAAAGCCCACATAAGTTGGTGGCAACCCTTCTC-AAAACCCATACAAGTCGGTGG
1 AACC-CTTCTTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCAGTGG
492217 C
65 C
* * * *
492218 AACCATTCTCTAAAGCCCACACAAGTCAGTGGCAACCC-T-TCTAAAGCCCACATAAGTCGGTGG
1 AACCCTTCT-TAAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCAGTGG
492281 C
65 C
* * *
492282 AACCCTTTTTAAAGCCCACACAAGTCGGTGGCAA-CC--CT-TAAAGTCCACACAAGTCGGTGGC
1 AACCCTTCTTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCAGTGGC
492343 AACCC-TCTTAAA
1 AACCCTTCTTAAA
492355 AGCACACCCA
Statistics
Matches: 390, Mismatches: 58, Indels: 27
0.82 0.12 0.06
Matches are distributed among these distances:
60 6 0.02
61 26 0.07
62 3 0.01
63 59 0.15
64 126 0.32
65 141 0.36
66 29 0.07
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.21
Consensus pattern (65 bp):
AACCCTTCTTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCAGTGGC
Found at i:492166 original size:161 final size:160
Alignment explanation
Indices: 491819--492343 Score: 650
Period size: 161 Copynumber: 3.3 Consensus size: 160
491809 TCTAAAAGAC
* * * * * *
491819 CAAGTCGATGGTAACCCTTCTCAAAGCCCATACAAGTCGGTGGTAACTCTTCTCTAAAGCCCATA
1 CAAGTCGGTGGCAACCCTTCT-AAAGCCCACACAAGTCGGTGGCACCTCTT-TTTAAAGCCCATA
* *
491884 CAAGTC-AGTGGCAA-CC-CCTCTTAAAGCCCACATAAGTTAGTGGCAACCCTTCTAAAGCCCAT
64 CAAGTCGA-TGGCAACCCTCCT-TTAAAGCCCACATAAGTCAGTGGCAACCCTTCTAAAGCCCAC
* *
491946 ATAAGTCGGTGGCAACCTTTCTCTAAAAGCCTACA
127 ATAAGTCGGTGGCAACCCTTCTCT-AAAGCCCACA
* **
491981 CAAGTCGGTGGCAACCCCTTCTAAAGCCCACACAAGTCAGTGGCACCTCTTTTTAAAGCCCACGC
1 CAAGTCGGTGGCAA-CCCTTCTAAAGCCCACACAAGTCGGTGGCACCTCTTTTTAAAGCCCATAC
* * *
492046 AAGTCGATGGCAACCCTCCTTTAAAGCCCATATAAGTCAGTGGCAACCCTTCTAAAGCCAACACA
65 AAGTCGATGGCAACCCTCCTTTAAAGCCCACATAAGTCAGTGGCAACCCTTCTAAAGCCCACATA
*
492111 AGTTGGTGGCAACCCTTCTCTAAAGCCCACA
130 AGTCGGTGGCAACCCTTCTCTAAAGCCCACA
** * * * * *
492142 CAAGTTAGTGGCAACCTCTTCTAAAGCCCACATAAGTTGGTGGCAACC-CTTCTCAAAACCCATA
1 CAAGTCGGTGGCAACC-CTTCTAAAGCCCACACAAGTCGGTGGC-ACCTCTTTTTAAAGCCCATA
* * * * *
492206 CAAGTCGGTGGCAACCATTCTCTAAAGCCCACACAAGTCAGTGGCAACCCTTCTAAAGCCCACAT
64 CAAGTCGATGGCAACCCTCCTTTAAAGCCCACATAAGTCAGTGGCAACCCTTCTAAAGCCCACAT
*
492271 AAGTCGGTGGCAACCCTT-TTTAAAGCCCACA
129 AAGTCGGTGGCAACCCTTCTCTAAAGCCCACA
*
492302 CAAGTCGGTGGCAACCC-T-TAAAGTCCACACAAGTCGGTGGCA
1 CAAGTCGGTGGCAACCCTTCTAAAGCCCACACAAGTCGGTGGCA
492344 ACCCTCTTAA
Statistics
Matches: 315, Mismatches: 42, Indels: 18
0.84 0.11 0.05
Matches are distributed among these distances:
156 1 0.00
157 20 0.06
158 1 0.00
159 1 0.00
160 28 0.09
161 152 0.48
162 102 0.32
163 10 0.03
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.21
Consensus pattern (160 bp):
CAAGTCGGTGGCAACCCTTCTAAAGCCCACACAAGTCGGTGGCACCTCTTTTTAAAGCCCATACA
AGTCGATGGCAACCCTCCTTTAAAGCCCACATAAGTCAGTGGCAACCCTTCTAAAGCCCACATAA
GTCGGTGGCAACCCTTCTCTAAAGCCCACA
Found at i:492513 original size:52 final size:52
Alignment explanation
Indices: 492436--492998 Score: 231
Period size: 52 Copynumber: 10.2 Consensus size: 52
492426 TCAAACCATC
* * * *
492436 TCTTT-TTAAGTCTAATATCGCTGGCCTTGAATCAATATATTAGCACCTTTT
1 TCTTTCTTAAGTCCAATATCGCTGGCCTTGAATCAGTATATTGGCACCTTTA
* * *
492487 TCTTTCTTAAGTCCAATATCGCTGGCCTTGAATCGGCATATTGGCACCTTTG
1 TCTTTCTTAAGTCCAATATCGCTGGCCTTGAATCAGTATATTGGCACCTTTA
* * * *
492539 TC-ATCTTTAAG-CCTGATATCACTGGGCTTGAATCAGTATATTGGCACCTTTATCA
1 TCTTTC-TTAAGTCC-AATATCGCTGGCCTTGAATCAGTATATTGGCACC-TT-T-A
* ** ** * *
492594 TTCTTTTCATCTTTAGGTCCAATATCGCTAACCTTGAATCAACATATCGACACCTTTATCA
1 -TC--TT--TC-TTAAGTCCAATATCGCTGGCCTTGAATCAGTATATTGGCACC-TT-T-A
* * * * *
492655 TTCTTTCCATCTTCAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTTG
1 -TC-TT---TCTT-AAGTCCAATATCGCTGGCCTTGAATCAGTATATTGGCACCTTTA
* * * * * * *
492713 TC-ATCTTTAAG-CCTACTATCGCTAGCCTTGAATCAGCATATCGCCATCTTTATCA
1 TCTTTC-TTAAGTCC-AATATCGCTGGCCTTGAATCAGTATATTGGCA-CCTT-T-A
* * * *
492768 TTCTTTTCATCTTCAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTT
1 -TC--TT--TCTT-AAGTCCAATATCGCTGGCCTTGAATCAGTATATTGGCACCTTTA
* * * * * *
492826 TC-ATCTTTAAGTCCAATATCGCTAGCCATGAATTAGCATATCGGCACCTTTGTCA
1 TCTTTC-TTAAGTCCAATATCGCTGGCCTTGAATCAGTATATTGGCACC-TT-T-A
* * * * * *
492881 TTCTTCTCATCTTCAAGTCTAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTTG
1 -TC-T-T--TCTT-AAGTCCAATATCGCTGGCCTTGAATCAGTATATTGGCACCTTTA
* * * * *
492939 TC-ATCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGTACCTTTG
1 TCTTTC-TTAAGTCCAATATCGCTGGCCTTGAATCAGTATATTGGCACCTTTA
*
492991 TCATTCTT
1 TCTTTCTT
492999 CTCATCTTTA
Statistics
Matches: 392, Mismatches: 79, Indels: 81
0.71 0.14 0.15
Matches are distributed among these distances:
51 11 0.03
52 186 0.47
53 15 0.04
54 3 0.01
56 6 0.02
57 6 0.02
59 3 0.01
60 16 0.04
61 142 0.36
62 4 0.01
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.37
Consensus pattern (52 bp):
TCTTTCTTAAGTCCAATATCGCTGGCCTTGAATCAGTATATTGGCACCTTTA
Found at i:492634 original size:61 final size:61
Alignment explanation
Indices: 492554--493014 Score: 375
Period size: 61 Copynumber: 8.0 Consensus size: 61
492544 TTTAAGCCTG
* * * * * *
492554 ATATCACTGGGCTTGAATCAGTATATTGGCACCTTTATCATTCTTTTCATCTTTAGGTCCA
1 ATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATTCTTTTCATCTTCAAGTCCA
** * * * * *
492615 ATATCGCTAACCTTGAATCAACATATCGACACCTTTATCATTCTTTCCATCTTCAAGTCCA
1 ATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATTCTTTTCATCTTCAAGTCCA
* * *
492676 ATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCA------TC-T-TT-AAG-CCTA
1 ATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATTCTTTTCATCTTCAAGTCC-A
* * * * * *
492728 CTATCGCTAGCCTTGAATCAGCATATCGCCATCTTTATCATTCTTTTCATCTTCAAGTCCA
1 ATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATTCTTTTCATCTTCAAGTCCA
* * *
492789 ATGTCGCTGGCCTTGAATCAGCACATTGGCA-C-----C--T-TTTTCATCTTTAAGTCCA
1 ATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATTCTTTTCATCTTCAAGTCCA
* * * * * *
492841 ATATCGCTAGCCATGAATTAGCATATCGGCACCTTTGTCATTCTTCTCATCTTCAAGTCTA
1 ATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATTCTTTTCATCTTCAAGTCCA
* * *
492902 ATGTCACTGGCCTTGAATCAGCACATTGGCACCTTTGTCA------TC-T-TT-AAGTCCA
1 ATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATTCTTTTCATCTTCAAGTCCA
* * * *
492954 ATATCGTTGGCCTTGAATCAGCATATTGGTACCTTTGTCATTCTTCTCATCTTTAAGTCCA
1 ATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATTCTTTTCATCTTCAAGTCCA
493015 GTGTTACAGG
Statistics
Matches: 312, Mismatches: 59, Indels: 58
0.73 0.14 0.14
Matches are distributed among these distances:
51 2 0.01
52 118 0.38
53 6 0.02
54 2 0.01
55 4 0.01
58 5 0.02
59 2 0.01
60 6 0.02
61 165 0.53
62 2 0.01
ACGTcount: A:0.23, C:0.26, G:0.14, T:0.37
Consensus pattern (61 bp):
ATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATTCTTTTCATCTTCAAGTCCA
Found at i:492717 original size:113 final size:113
Alignment explanation
Indices: 492596--493033 Score: 612
Period size: 113 Copynumber: 3.9 Consensus size: 113
492586 CTTTATCATT
* * * *
492596 CTTT-TCATCTTTAGGTCCAATATCGCTAACCTTGAATCAACATATCGACACCTTTATCATTCTT
1 CTTTGTCATCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATCGGCACCTTTATCATTCTT
**
492660 -TCCATCTTCAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCAC
66 CT-CATCTTCAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCAC
* * *
492708 CTTTGTCATCTTTAAG-CCTACTATCGCTAGCCTTGAATCAGCATATCGCCATCTTTATCATTCT
1 CTTTGTCATCTTTAAGTCC-AATATCGCTAGCCTTGAATCAGCATATCGGCACCTTTATCATTCT
* *
492772 TTTCATCTTCAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
65 TCTCATCTTCAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCAC
* * * *
492821 CTTTTTCATCTTTAAGTCCAATATCGCTAGCCATGAATTAGCATATCGGCACCTTTGTCATTCTT
1 CTTTGTCATCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATCGGCACCTTTATCATTCTT
*
492886 CTCATCTTCAAGTCTAATGTCACTGGCCTTGAATCAGCACATTGGCAC
66 CTCATCTTCAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCAC
* * * * *
492934 CTTTGTCATCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGTACCTTTGTCATTCTT
1 CTTTGTCATCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATCGGCACCTTTATCATTCTT
* * * *
492999 CTCATCTTTAAGTCCAGTGTTACAGGCCTTGAATC
66 CTCATCTTCAAGTCCAATGTCACTGGCCTTGAATC
493034 TACACACTGC
Statistics
Matches: 293, Mismatches: 29, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
112 6 0.02
113 284 0.97
114 3 0.01
ACGTcount: A:0.23, C:0.26, G:0.14, T:0.36
Consensus pattern (113 bp):
CTTTGTCATCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATCGGCACCTTTATCATTCTT
CTCATCTTCAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCAC
Found at i:492745 original size:174 final size:173
Alignment explanation
Indices: 492491--492881 Score: 467
Period size: 174 Copynumber: 2.3 Consensus size: 173
492481 CCTTTTTCTT
* *
492491 TCTTAAGTCCAATATCGCTGGCCTTGAATCGGCATATTGGCACCTTTGTCATCTTTAAGCCTGAT
1 TCTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCTTTAAGCCTGAT
* * * * * * *
492556 ATCACTGGGCTTGAATCAGTATATTGGCACCTTTATCATTCTTTTCATCTTTAGGTCCAATATCG
66 ATCACTAGCCTTGAATCAGCATATCGCCACCTTTATCATTCTTTTCATCTTCAAGTCCAATATCG
492621 CTAACCTTGAATCAACATATCGACACCTTTATCATTCTTTCCA
131 CTAACCTTGAATCAACATATCGACACCTTTATCATTCTTTCCA
* *
492664 TCTTCAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCTTTAAGCCT-A
1 TCTT-AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCTTTAAGCCTGA
* * *
492728 CTATCGCTAGCCTTGAATCAGCATATCGCCATCTTTATCATTCTTTTCATCTTCAAGTCCAATGT
65 -TATCACTAGCCTTGAATCAGCATATCGCCACCTTTATCATTCTTTTCATCTTCAAGTCCAATAT
** * * * * *
492793 CGCTGGCCTTGAATCAGCACATTGGCACC-TT-T--TTC-AT-C-
129 CGCTAACCTTGAATCAACATATCGACACCTTTATCATTCTTTCCA
* * * * *
492831 T-TTAAGTCCAATATCGCTAGCCATGAATTAGCATATCGGCACCTTTGTCAT
1 TCTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCAT
492882 TCTTCTCATC
Statistics
Matches: 188, Mismatches: 28, Indels: 12
0.82 0.12 0.05
Matches are distributed among these distances:
165 41 0.22
166 2 0.01
167 1 0.01
168 1 0.01
169 1 0.01
170 3 0.02
172 1 0.01
173 7 0.04
174 131 0.70
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.36
Consensus pattern (173 bp):
TCTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCTTTAAGCCTGAT
ATCACTAGCCTTGAATCAGCATATCGCCACCTTTATCATTCTTTTCATCTTCAAGTCCAATATCG
CTAACCTTGAATCAACATATCGACACCTTTATCATTCTTTCCA
Found at i:498837 original size:79 final size:78
Alignment explanation
Indices: 498694--499142 Score: 490
Period size: 80 Copynumber: 5.7 Consensus size: 78
498684 AAATTTTTAA
* * * * * *
498694 ATTTCTACTTCCAAAATATTGAATTTTTCACCGTCT-GTGAT--TCCAATCCCATCATTTTCGAG
1 ATTTTTACTTCCAAAATA-TCAATTTTTCACCAT-TGGGGATACTCCAACCCCATCATTTCCGAG
498756 GGGATACTCCAACCTT
64 GGGATACTCCAACC-T
* * *
498772 ATTTTTACTTCCAAAATATCGATTTTTCACCATTGGGGATACTCTAACCCTATCATTTCCGAGGG
1 ATTTTTACTTCCAAAATATCAATTTTTCACCATTGGGGATACTCCAACCCCATCATTTCCGAGGG
*
498837 GATACTCCAAACCC
66 GATACTCC-AACCT
* * * *
498851 ATTTTTTACTTCTAAAATATTAATTTTTCACCATCGGGGATACTCCAACCCCATCATTTCTGAGG
1 A-TTTTTACTTCCAAAATATCAATTTTTCACCATTGGGGATACTCCAACCCCATCATTTCCGAGG
*
498916 GGATACTCCAACCCC
65 GGATACTCCAA-CCT
* * * * * *
498931 GTTTTTACTTCCAAAATGTCAAAATTTTCACTATTGGAGATACTCCAACCCCATCATTTTCGAGG
1 ATTTTTACTTCCAAAATATC-AATTTTTCACCATTGGGGATACTCCAACCCCATCATTTCCGAGG
498996 GGATACTCCAACCCT
65 GGATACTCCAA-CCT
* * * ** * * * * *
499011 GTTTTTACTTCCAAAAGCATCAAATTTTCACCATCAGGGATACTTCAACCCAATTATTTCCAAGA
1 ATTTTTACTTCCAAAA-TATCAATTTTTCACCATTGGGGATACTCCAACCCCATCATTTCCGAGG
* *
499076 GGATCCTCTAACCT
65 GGATACTCCAACCT
499090 ATTTTTACTTCCAAAATATCGAATTTTTCACCATTGGGGATACTCCAACCCCA
1 ATTTTTACTTCCAAAATATC-AATTTTTCACCATTGGGGATACTCCAACCCCA
499143 ATTTTTACTT
Statistics
Matches: 313, Mismatches: 49, Indels: 17
0.83 0.13 0.04
Matches are distributed among these distances:
76 1 0.00
77 16 0.05
78 20 0.06
79 91 0.29
80 183 0.58
81 2 0.01
ACGTcount: A:0.29, C:0.27, G:0.11, T:0.34
Consensus pattern (78 bp):
ATTTTTACTTCCAAAATATCAATTTTTCACCATTGGGGATACTCCAACCCCATCATTTCCGAGGG
GATACTCCAACCT
Found at i:499133 original size:159 final size:159
Alignment explanation
Indices: 498735--499142 Score: 509
Period size: 159 Copynumber: 2.6 Consensus size: 159
498725 CGTCTGTGAT
* * *
498735 TCCAATCCC-ATCATTTTCGAGGGGATACTCCAACCTTATTTTTACTTCCAAAATATCG-ATTTT
1 TCCAA-CCCAATCATTTCCAAGAGGATACTCCAACC-TATTTTTACTTCCAAAATATCGAATTTT
* *
498798 TCACCATTGGGGATACTCTAACCCTATCATTTCCGAGGGGATACTCCAAACCCATTTTTTACTTC
64 TCACCATTGGGGATACTCCAACCCCATCATTTCCGAGGGGATACTCCAAACCCATTTTTTACTTC
* * * * *
498863 TAAAATATTAATTTTTCACCATCGGGGATAC
129 CAAAACATCAAATTTTCACCATCAGGGATAC
* ** * ** * * *
498894 TCCAACCCCATCATTTCTGAGGGGATACTCCAACCCCGTTTTTACTTCCAAAATGTCAAAATTTT
1 TCCAACCCAATCATTTCCAAGAGGATACTCCAA-CCTATTTTTACTTCCAAAATATCGAATTTTT
* * *
498959 CACTATTGGAGATACTCCAACCCCATCATTTTCGAGGGGATACTCC-AACCC-TGTTTTTACTTC
65 CACCATTGGGGATACTCCAACCCCATCATTTCCGAGGGGATACTCCAAACCCAT-TTTTTACTTC
499022 CAAAAGCATCAAATTTTCACCATCAGGGATAC
129 CAAAA-CATCAAATTTTCACCATCAGGGATAC
* * * *
499054 TTCAACCCAATTATTTCCAAGAGGATCCTCTAACCTATTTTTACTTCCAAAATATCGAATTTTTC
1 TCCAACCCAATCATTTCCAAGAGGATACTCCAACCTATTTTTACTTCCAAAATATCGAATTTTTC
499119 ACCATTGGGGATACTCCAACCCCA
66 ACCATTGGGGATACTCCAACCCCA
499143 ATTTTTACTT
Statistics
Matches: 212, Mismatches: 32, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
158 4 0.02
159 113 0.53
160 95 0.45
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.33
Consensus pattern (159 bp):
TCCAACCCAATCATTTCCAAGAGGATACTCCAACCTATTTTTACTTCCAAAATATCGAATTTTTC
ACCATTGGGGATACTCCAACCCCATCATTTCCGAGGGGATACTCCAAACCCATTTTTTACTTCCA
AAACATCAAATTTTCACCATCAGGGATAC
Found at i:499188 original size:53 final size:53
Alignment explanation
Indices: 499090--499193 Score: 154
Period size: 53 Copynumber: 2.0 Consensus size: 53
499080 CCTCTAACCT
*** *
499090 ATTTTTACTTCCAAAATATCGAATTTTTCACCATTGGGGATACTCCAACCCCA
1 ATTTTTACTTCCAAAATATCGAATTTTTCACCATCAAGGACACTCCAACCCCA
* *
499143 ATTTTTACTTCCAAAATATTGAATTTTTCACTATCAAGGACACTCCAACCC
1 ATTTTTACTTCCAAAATATCGAATTTTTCACCATCAAGGACACTCCAACCC
499194 TATCATTTCT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
53 45 1.00
ACGTcount: A:0.32, C:0.26, G:0.08, T:0.35
Consensus pattern (53 bp):
ATTTTTACTTCCAAAATATCGAATTTTTCACCATCAAGGACACTCCAACCCCA
Found at i:499222 original size:81 final size:80
Alignment explanation
Indices: 499125--499454 Score: 316
Period size: 81 Copynumber: 4.1 Consensus size: 80
499115 TTTCACCATT
* * * *
499125 GGGGATACTCCAACCCCAATTTTTACTTCCAAAATATTGAATTTTTCACTATCAAGGACACTCCA
1 GGGGATACTTCAACCCC-ATTTTTACTTCCAAAATATCGAATTTTTCACCATCAAGGATACTCCA
499190 ACCCTATCATTTCT-GA
65 ACCCTATCATTT-TAGA
* * * **
499206 GGGGATACTTCAACCCCATTTTTATTTCCAAAA-ACGTCAAATTTTTCACCATCAGGGATACTTT
1 GGGGATACTTCAACCCCATTTTTACTTCCAAAATA--TCGAATTTTTCACCATCAAGGATACTCC
* *
499270 AACCCTATCGTTTTCGA
64 AACCCTATCATTTTAGA
** * *
499287 AAGGATACTTCAACCCCATTTTTTATTTTCAAAATATCG-ATTTTTCACCATCAAGGATACTCCA
1 GGGGATACTTCAACCCCA-TTTTTACTTCCAAAATATCGAATTTTTCACCATCAAGGATACTCCA
499351 ACCCCT-TCATTTTAGA
65 A-CCCTATCATTTTAGA
** * * *
499367 AAGGATAC-TCTAACCTCATTTTTACTTCCAAAATATTC-ATTTTTTC-CTC-TCAGGGATACTC
1 GGGGATACTTC-AACCCCATTTTTACTTCCAAAATA-TCGAATTTTTCAC-CATCAAGGATACTC
* * *
499428 CAACCCTACCATCTTCGA
63 CAACCCTATCATTTTAGA
499446 GGGGATACT
1 GGGGATACT
499455 CTAACCTTGA
Statistics
Matches: 208, Mismatches: 29, Indels: 25
0.79 0.11 0.10
Matches are distributed among these distances:
78 4 0.02
79 46 0.22
80 70 0.34
81 73 0.35
82 14 0.07
83 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.10, T:0.34
Consensus pattern (80 bp):
GGGGATACTTCAACCCCATTTTTACTTCCAAAATATCGAATTTTTCACCATCAAGGATACTCCAA
CCCTATCATTTTAGA
Found at i:499369 original size:80 final size:79
Alignment explanation
Indices: 499127--499435 Score: 301
Period size: 80 Copynumber: 3.9 Consensus size: 79
499117 TCACCATTGG
* * * *
499127 GGATACTCCAACCCCAATTTTTACTTCCAAAATA-TTGAATTTTTCACTATCAAGGACACTCCAA
1 GGATACTTCAACCCC-ATTTTTACTTCCAAAATACTCG-ATTTTTCACCATCAAGGATACTCCAA
**
499191 CCCTATCATTTCTGAGG
64 CCCTATCATTT-TGAAA
* * * **
499208 GGATACTTCAACCCCATTTTTATTTCCAAAA-ACGTCAAATTTTTCACCATCAGGGATACTTTAA
1 GGATACTTCAACCCCATTTTTACTTCCAAAATAC-TC-GATTTTTCACCATCAAGGATACTCCAA
*
499272 CCCTATCGTTTTCGAAA
64 CCCTATCATTTT-GAAA
* *
499289 GGATACTTCAACCCCATTTTTTATTTTCAAAATA-TCGATTTTTCACCATCAAGGATACTCCAAC
1 GGATACTTCAACCCCA-TTTTTACTTCCAAAATACTCGATTTTTCACCATCAAGGATACTCCAA-
499353 CCCT-TCATTTTAGAAA
64 CCCTATCATTTT-GAAA
* * *
499369 GGATAC-TCTAACCTCATTTTTACTTCCAAAATATTC-ATTTTTTC-CTC-TCAGGGATACTCCA
1 GGATACTTC-AACCCCATTTTTACTTCCAAAATACTCGA-TTTTTCAC-CATCAAGGATACTCCA
499430 ACCCTA
63 ACCCTA
499436 CCATCTTCGA
Statistics
Matches: 193, Mismatches: 23, Indels: 26
0.80 0.10 0.11
Matches are distributed among these distances:
78 4 0.02
79 34 0.18
80 70 0.36
81 70 0.36
82 14 0.07
83 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.09, T:0.35
Consensus pattern (79 bp):
GGATACTTCAACCCCATTTTTACTTCCAAAATACTCGATTTTTCACCATCAAGGATACTCCAACC
CTATCATTTTGAAA
Found at i:499431 original size:293 final size:291
Alignment explanation
Indices: 498835--499433 Score: 728
Period size: 293 Copynumber: 2.1 Consensus size: 291
498825 CATTTCCGAG
* * * ** *
498835 GGGATACTCCAAACCCATTTTTTACTTCTAAAATATTAATTTTTCACCATCGGGGATACTCCAAC
1 GGGATACTCCAACCCCAATTTTTACTTCCAAAATATTAATTTTTCACCATCAAGGACACTCCAAC
* * *
498900 CCCATCATTTCTGAGGGGATACTCCAACCCCGTTTTTACTTCCAAAATGTCAAAATTTTCACTAT
66 CCCATCATTTCTGAGGGGATACTCCAACCCCATTTTTACTTCCAAAACGTCAAAATTTTCACCAT
* **
498965 TGGAGATACTCCAACCCCATCATTTTCGAGGGGATACTCCAACCCTGTTTTTACTTCCAAAAGCA
131 AGGAGATACTCCAACCCCATCATTTTCGAAAGGATACTCCAACCCTGTTTTTACTTCCAAAAGCA
* * * *
499030 TCAAATTTTCACCATCAGGGATACTTCAACCCAATTATTTCCAAGAGGATCCTCTAACCTATTTT
196 TCAAATTTTCACCATCAAGGATACTCCAACCCAATTATTTCCAAAAGGATACTCTAACCTATTTT
**
499095 TACTTCCAAAATATCGAATTTTTCACCATTG
261 TACTTCCAAAATATCGAATTTTTCACCATCA
*
499126 GGGATACTCCAACCCCAATTTTTACTTCCAAAATATTGAATTTTTCACTATCAAGGACACTCCAA
1 GGGATACTCCAACCCCAATTTTTACTTCCAAAATATT-AATTTTTCACCATCAAGGACACTCCAA
* * * *
499191 CCCTATCATTTCTGAGGGGATACTTCAACCCCATTTTTATTTCCAAAAACGTCAAATTTTTCACC
65 CCCCATCATTTCTGAGGGGATACTCCAACCCCATTTTTACTTCC-AAAACGTCAAAATTTTCACC
** * * * * *
499256 ATCAGG-GATACTTTAACCCTATCGTTTTCGAAAGGATACTTCAACCCCAT-TTTTTATTTTCAA
129 AT-AGGAGATACTCCAACCCCATCATTTTCGAAAGGATACTCCAA-CCC-TGTTTTTACTTCCAA
* * * * *
499319 AA-TATCGATTTTTCACCATCAAGGATACTCCAACCC-CTTCATTT-TAGAAAGGATACTCTAAC
191 AAGCATCAAATTTTCACCATCAAGGATACTCCAACCCAATT-ATTTCCA-AAAGGATACTCTAAC
*
499381 CTCATTTTTACTTCCAAAATATTC-ATTTTTTC-CTC-TCA
254 CT-ATTTTTACTTCCAAAATA-TCGAATTTTTCAC-CATCA
499419 GGGATACTCCAACCC
1 GGGATACTCCAACCC
499434 TACCATCTTC
Statistics
Matches: 262, Mismatches: 36, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
291 34 0.13
292 66 0.25
293 115 0.44
294 44 0.17
295 3 0.01
ACGTcount: A:0.30, C:0.26, G:0.10, T:0.34
Consensus pattern (291 bp):
GGGATACTCCAACCCCAATTTTTACTTCCAAAATATTAATTTTTCACCATCAAGGACACTCCAAC
CCCATCATTTCTGAGGGGATACTCCAACCCCATTTTTACTTCCAAAACGTCAAAATTTTCACCAT
AGGAGATACTCCAACCCCATCATTTTCGAAAGGATACTCCAACCCTGTTTTTACTTCCAAAAGCA
TCAAATTTTCACCATCAAGGATACTCCAACCCAATTATTTCCAAAAGGATACTCTAACCTATTTT
TACTTCCAAAATATCGAATTTTTCACCATCA
Found at i:503200 original size:13 final size:13
Alignment explanation
Indices: 503182--503206 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
503172 TTCAACGATT
503182 TGTATCGATACAA
1 TGTATCGATACAA
503195 TGTATCGATACA
1 TGTATCGATACA
503207 TAAGTGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:503236 original size:18 final size:19
Alignment explanation
Indices: 503195--503243 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
503185 ATCGATACAA
503195 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
503214 TGTATCGATACATAAGT-T
1 TGTATCGATACATAAGTGT
503232 TGTATCGATACA
1 TGTATCGATACA
503244 ATGTATCGCT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 13 0.43
19 17 0.57
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:503316 original size:13 final size:13
Alignment explanation
Indices: 503298--503333 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
503288 TACTCAAATA
503298 TATCGATACATTG
1 TATCGATACATTG
503311 TATCGATACATTG
1 TATCGATACATTG
503324 TATCGATACA
1 TATCGATACA
503334 CTGATTTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (13 bp):
TATCGATACATTG
Found at i:503458 original size:50 final size:51
Alignment explanation
Indices: 503349--503468 Score: 206
Period size: 50 Copynumber: 2.4 Consensus size: 51
503339 TTTTGTATTA
503349 ATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAATGTATCG
1 ATACATGCAGGCAAATTTGCCCAGATGTATCGA-ACACTATGAAATGTATCG
* *
503401 ATACATGCAGACAAATTTGCCTAGATGTATCG-ACACTATGAAATGTATCG
1 ATACATGCAGGCAAATTTGCCCAGATGTATCGAACACTATGAAATGTATCG
503451 ATACATGCAGGCAAATTT
1 ATACATGCAGGCAAATTT
503469 TCATATTTCG
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
50 35 0.54
52 30 0.46
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (51 bp):
ATACATGCAGGCAAATTTGCCCAGATGTATCGAACACTATGAAATGTATCG
Found at i:510874 original size:16 final size:16
Alignment explanation
Indices: 510855--510885 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
510845 AATACTTTTT
*
510855 TAAAAATTTTTATTAA
1 TAAAAAATTTTATTAA
510871 TAAAAAATTTTATTA
1 TAAAAAATTTTATTA
510886 TTTTTTTAAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TAAAAAATTTTATTAA
Found at i:514489 original size:5 final size:5
Alignment explanation
Indices: 514479--514503 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
514469 CAGAAAAAGG
514479 GAAAA GAAAA GAAAA GAAAA GAAAA
1 GAAAA GAAAA GAAAA GAAAA GAAAA
514504 CAGCCCTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:525913 original size:156 final size:155
Alignment explanation
Indices: 525702--526046 Score: 448
Period size: 156 Copynumber: 2.2 Consensus size: 155
525692 AAAAGTATCG
* * *
525702 CTAACGGACTTAAAGATGATCATAAAT-GAGATGAACCTATCCTAACTGCACACCTTTGGCATAA
1 CTAAAGGACTTAAA-ATGATCATAAATAG-GATGAACCTATCCTAAATACACACCTTTGGCATAA
* *
525766 AAGCATCTCGATGACAACCTAAGACTCGATCTTATGAAAAATTACAAAAGTAT-CC-TTGAGGTA
64 AAGCATATCGATGACAACCTAAGACTCGATCTTA-GAAAAATTACAAAA--ATGCCTTTAAGGTA
* * *
525829 TACCTTCT-ACCTAAAAGTATCTCGATAACT
126 TACCTT-TAACCTAAAAGTATCCCAATAACC
* *
525859 CTAAAGGACTTAAAATGATCATAAATAGGATGAACCTATCCTAAATACTCACCTTTGGCATAGAA
1 CTAAAGGACTTAAAATGATCATAAATAGGATGAACCTATCCTAAATACACACCTTTGGCATAAAA
* *
525924 GCATATCGATGACAACCTAAGACTCGATTTTAGCAAAATTACAAAAATGCCTTTAAGGTATACCT
66 GCATATCGATGACAACCTAAGACTCGATCTTAGAAAAATTACAAAAATGCCTTTAAGGTATACCT
* *
525989 TTAACGTGAAAGTATCCCAATAACC
131 TTAACCTAAAAGTATCCCAATAACC
* *
526014 CTAATGGACACTAAAATGATCATAAA-AGGATGA
1 CTAAAGGAC-TTAAAATGATCATAAATAGGATGA
526047 CTTTTACCCT
Statistics
Matches: 167, Mismatches: 16, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
153 2 0.01
154 3 0.02
155 58 0.35
156 90 0.54
157 14 0.08
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.26
Consensus pattern (155 bp):
CTAAAGGACTTAAAATGATCATAAATAGGATGAACCTATCCTAAATACACACCTTTGGCATAAAA
GCATATCGATGACAACCTAAGACTCGATCTTAGAAAAATTACAAAAATGCCTTTAAGGTATACCT
TTAACCTAAAAGTATCCCAATAACC
Found at i:526628 original size:31 final size:31
Alignment explanation
Indices: 526590--526785 Score: 184
Period size: 31 Copynumber: 6.2 Consensus size: 31
526580 TTGGACATAT
526590 GTGGCATCTTTTCTTCCAAGTCCACGACTCA
1 GTGGCATCTTTTCTTCCAAGTCCACGACTCA
526621 GTGGCATCTTTTCTTCCAAGTCCACGACTCA
1 GTGGCATCTTTTCTTCCAAGTCCACGACTCA
* *
526652 GTGGCGT-TTTT-TTCCCCAACGTCCACGACACA
1 GTGGCATCTTTTCTT--CCAA-GTCCACGACTCA
* * *
526684 GTGGCATCTTTTTTCTTCAAATTTCACGACTCA
1 GTGGCATC--TTTTCTTCCAAGTCCACGACTCA
** *
526717 GTGGCATCTTTT-TTAAAAAGTCCACGACTCC
1 GTGGCATCTTTTCTT-CCAAGTCCACGACTCA
** * *
526748 GTGGCA-CTTTTTCCTTTTAAGTCCACAACTCC
1 GTGGCATC-TTTT-CTTCCAAGTCCACGACTCA
526780 GTGGCA
1 GTGGCA
526786 CCCTTTTTCC
Statistics
Matches: 140, Mismatches: 14, Indels: 21
0.80 0.08 0.12
Matches are distributed among these distances:
29 2 0.01
30 7 0.05
31 67 0.48
32 36 0.26
33 19 0.14
34 3 0.02
35 4 0.03
36 2 0.01
ACGTcount: A:0.20, C:0.30, G:0.16, T:0.34
Consensus pattern (31 bp):
GTGGCATCTTTTCTTCCAAGTCCACGACTCA
Found at i:526773 original size:96 final size:94
Alignment explanation
Indices: 526590--526761 Score: 231
Period size: 96 Copynumber: 1.8 Consensus size: 94
526580 TTGGACATAT
* **
526590 GTGGCATCTTTTCTTCCAAGTCCACGACTCAGTGGCATCTTTTCTTCCAAGTCCACGACTCAGTG
1 GTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCATCTTTTCTTAAAAGTCCACGACTCAGTG
**
526655 GCGTTTTTTTCCCCAACGTCCACGACACA
66 GCGACTTTTTCCCCAACGTCCACGACACA
* * *
526684 GTGGCATCTTTTTTCTTCAAATTTCACGACTCAGTGGCATCTTTT-TTAAAAAGTCCACGACTCC
1 GTGGCATC--TTTTCTTCAAAGTCCACGACTCAGTGGCATCTTTTCTT-AAAAGTCCACGACTCA
526748 GTGGC-ACTTTTTCC
63 GTGGCGACTTTTTCC
526762 TTTTAAGTCC
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
94 8 0.12
95 9 0.13
96 50 0.75
ACGTcount: A:0.20, C:0.30, G:0.16, T:0.34
Consensus pattern (94 bp):
GTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCATCTTTTCTTAAAAGTCCACGACTCAGTG
GCGACTTTTTCCCCAACGTCCACGACACA
Found at i:526793 original size:96 final size:96
Alignment explanation
Indices: 526598--526794 Score: 211
Period size: 96 Copynumber: 2.1 Consensus size: 96
526588 ATGTGGCATC
* ** **
526598 TTTTCTTCCAAGTCCACGACTCAGTGGCATCTTTTCTTCCAAGTCCACGACTCAGTGGCGTTTTT
1 TTTTCTTCAAAGTCCACGACTCAGTGGCATCTTTTCTTAAAAGTCCACGACTCAGTGGCGACTTT
* * *
526663 TTCCCCAACGTCCACGACACAGTGGCATCTT
66 TTCCCCAACGTCCACAACACAGTGGCACCCT
* * *
526694 TTTTCTTCAAATTTCACGACTCAGTGGCATCTTTT-TTAAAAAGTCCACGACTCCGTGGC-ACTT
1 TTTTCTTCAAAGTCCACGACTCAGTGGCATCTTTTCTT-AAAAGTCCACGACTCAGTGGCGACTT
** * *
526757 TTTCCTTTTAA-GTCCACAACTCCGTGGCACCCT
65 TTTCC--CCAACGTCCACAACACAGTGGCACCCT
526790 TTTTC
1 TTTTC
526795 CTTTTAAGCC
Statistics
Matches: 83, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
95 9 0.11
96 72 0.87
97 2 0.02
ACGTcount: A:0.20, C:0.30, G:0.15, T:0.35
Consensus pattern (96 bp):
TTTTCTTCAAAGTCCACGACTCAGTGGCATCTTTTCTTAAAAGTCCACGACTCAGTGGCGACTTT
TTCCCCAACGTCCACAACACAGTGGCACCCT
Found at i:526797 original size:34 final size:34
Alignment explanation
Indices: 526738--526890 Score: 177
Period size: 34 Copynumber: 4.5 Consensus size: 34
526728 TTTAAAAAGT
* *
526738 CCACGACTCCGTGGCA--CTTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCACCCTTTTTCCTTTTAAGC
526770 CCACAACTCCGTGGCACCCTTTTTCCTTTTAAGC
1 CCACAACTCCGTGGCACCCTTTTTCCTTTTAAGC
* *
526804 CCACACCTCCGCGGCATCCCTTTTTCCTTTTAAGC
1 CCACAACTCCGTGGCA-CCCTTTTTCCTTTTAAGC
* ** * *
526839 CCACACCTTTGTGGCATCCCTTTTTCC-TATAAGG
1 CCACAACTCCGTGGCA-CCCTTTTTCCTTTTAAGC
*
526873 CCACAACTTCGTGGCACC
1 CCACAACTCCGTGGCACC
526891 TCATCTTTAA
Statistics
Matches: 107, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
32 15 0.14
33 2 0.02
34 48 0.45
35 42 0.39
ACGTcount: A:0.17, C:0.37, G:0.14, T:0.32
Consensus pattern (34 bp):
CCACAACTCCGTGGCACCCTTTTTCCTTTTAAGC
Found at i:527015 original size:49 final size:48
Alignment explanation
Indices: 526884--527668 Score: 658
Period size: 49 Copynumber: 16.9 Consensus size: 48
526874 CACAACTTCG
* * *
526884 TGGCACCTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
1 TGGCACTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* *
526932 TGGCACCTTTGTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAACACAT
1 TGGCA-C--T-TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
*
526984 TGGCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAACACAT
1 TGGCA-CTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * * *
527033 TGGCACCCTCATCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATAT
1 TGGCA-CTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* ** *
527082 TGGCGCCTTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACAT
1 TGGC-ACTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * * * *
527131 TAGCATCCTCATCTTTAAGTCCGATTTCGCTGGCCTTGAATCAGCATAT
1 TGGCA-CTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * * *
527180 TGGCACTTCATCTTTAAGACAAATGTCGTTGGCCTTGAATCAACACAT
1 TGGCACTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* *
527228 TGG-----CA----TAAGCCCAATGTAGCTGGCCTTGAATCAGCACAT
1 TGGCACTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * *
527267 TGGCA---C--CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATAT
1 TGGCACTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* ** * *
527310 TGGCGCATTTGTCTTTAAGACCAATGTCGTTGGCCTTGAATCAGCACAT
1 TGGCAC-TTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
** * *
527359 TGGCATCCTT-ATCTTTAAGTCCGGTATCGCTGGCCTTGAATCAGCATAT
1 TGGCA--CTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * *
527408 TGGCACTTCATCTTTAAGGCCAATGTCGTTGGCCTTGAATCAACACAT
1 TGGCACTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * ** *
527456 TGG-----CA----TAAGACAAATGTCATTGGCCTTGAATCAACACAT
1 TGGCACTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* *
527495 TGG-----CA----TAAGCCCAATGTCGCTGGCCTTGAATCAGCATAT
1 TGGCACTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * * *
527534 TGGCA---C--CTTTAAGTCTAATATCGCTAGCCTTGAATCAGCATAT
1 TGGCACTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
** * *
527577 TGGTTC-CTTTGTCTTTAAGACCAATGTCGCTGACCTTGAATCAGCACAT
1 TGG--CACTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* *
527626 TGGCATCTTCATCTTTAAGTCCAATATCGCTAGCCTTGAATCA
1 TGGCA-CTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCA
527669 TGAAAGCTTA
Statistics
Matches: 608, Mismatches: 95, Indels: 67
0.79 0.12 0.09
Matches are distributed among these distances:
39 99 0.16
41 2 0.00
43 70 0.12
45 1 0.00
47 4 0.01
48 78 0.13
49 307 0.50
50 3 0.00
51 1 0.00
52 43 0.07
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.31
Consensus pattern (48 bp):
TGGCACTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
Found at i:527407 original size:228 final size:229
Alignment explanation
Indices: 526884--527668 Score: 934
Period size: 228 Copynumber: 3.4 Consensus size: 229
526874 CACAACTTCG
526884 TGGCA-CCTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATC
1 TGGCATCCTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--T-TCATC
* *
526948 TTTAAGACCAATGTCGCTGGCCTTGAATCAACACATTGGCATCTTCATCTTTAAGTCCAATGTCG
63 TTTAAGACCAATGTCGCTGGCCTTGAATCAACACATTGG------CA----TAAGACCAATGTAG
527013 CTGGCCTTGAATCAACACATTGGCACCCTCATCTTTAAGTCCAATATCGTTGGCCTTGAATCAGC
118 CTGGCCTTGAATCAACACATTGGCA----C--CTTTAAGTCCAATATCGTTGGCCTTGAATCAGC
*
527078 ATATTGGCGCCTTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACAT
177 ATATTGGCGCATTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACAT
* * *
527131 TAGCATCCTCATCTTTAAGTCCGATTTCGCTGGCCTTGAATCAGCATATTGGCA-CTTCATCTTT
1 TGGCATCCTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTT
* * *
527195 AAGACAAATGTCGTTGGCCTTGAATCAACACATTGGCATAAGCCCAATGTAGCTGGCCTTGAATC
66 AAGACCAATGTCGCTGGCCTTGAATCAACACATTGGCATAAGACCAATGTAGCTGGCCTTGAATC
*
527260 AGCACATTGGCACCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCGCATTTGTCTT
131 AACACATTGGCACCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCGCATTTGTCTT
*
527325 TAAGACCAATGTCGTTGGCCTTGAATCAGCACAT
196 TAAGACCAATGTCGCTGGCCTTGAATCAGCACAT
* **
527359 TGGCATCCTTATCTTTAAGTCCGGTATCGCTGGCCTTGAATCAGCATATTGGCA-CTTCATCTTT
1 TGGCATCCTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTT
* * * *
527423 AAGGCCAATGTCGTTGGCCTTGAATCAACACATTGGCATAAGACAAATGTCA-TTGGCCTTGAAT
66 AAGACCAATGTCGCTGGCCTTGAATCAACACATTGGCATAAGACCAATGT-AGCTGGCCTTGAAT
* * * *
527487 CAACACATTGGCA----TAAGCCCAATGTCGCTGGCCTTGAATCAGCATATT-G-GCA----CCT
130 CAACACATTGGCACCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCGCATTTGTCT
* * * * *
527542 TTAAGTCTAATATCGCTAGCCTTGAATCAGCATAT
195 TTAAGACCAATGTCGCTGGCCTTGAATCAGCACAT
* ** * * * * *
527577 TGG-TTCCTTTGTCTTTAAGACCAATGTCGCTGACCTTGAATCAGCACATTGGCATCTTCATCTT
1 TGGCATCC-TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * *
527641 TAAGTCCAATATCGCTAGCCTTGAATCA
65 TAAGACCAATGTCGCTGGCCTTGAATCA
527669 TGAAAGCTTA
Statistics
Matches: 492, Mismatches: 42, Indels: 36
0.86 0.07 0.06
Matches are distributed among these distances:
217 3 0.01
218 73 0.15
219 33 0.07
222 3 0.01
223 1 0.00
224 32 0.07
228 213 0.43
229 1 0.00
230 1 0.00
234 36 0.07
238 2 0.00
244 42 0.09
245 1 0.00
247 5 0.01
248 46 0.09
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.31
Consensus pattern (229 bp):
TGGCATCCTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTT
AAGACCAATGTCGCTGGCCTTGAATCAACACATTGGCATAAGACCAATGTAGCTGGCCTTGAATC
AACACATTGGCACCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCGCATTTGTCTT
TAAGACCAATGTCGCTGGCCTTGAATCAGCACAT
Found at i:527483 original size:39 final size:39
Alignment explanation
Indices: 527429--527538 Score: 166
Period size: 39 Copynumber: 2.8 Consensus size: 39
527419 CTTTAAGGCC
527429 AATGTCGTTGGCCTTGAATCAACACATTGGCATAAGACA
1 AATGTCGTTGGCCTTGAATCAACACATTGGCATAAGACA
* * *
527468 AATGTCATTGGCCTTGAATCAACACATTGGCATAAGCCC
1 AATGTCGTTGGCCTTGAATCAACACATTGGCATAAGACA
* * *
527507 AATGTCGCTGGCCTTGAATCAGCATATTGGCA
1 AATGTCGTTGGCCTTGAATCAACACATTGGCA
527539 CCTTTAAGTC
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 64 1.00
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (39 bp):
AATGTCGTTGGCCTTGAATCAACACATTGGCATAAGACA
Found at i:527545 original size:267 final size:270
Alignment explanation
Indices: 526950--527668 Score: 917
Period size: 267 Copynumber: 2.6 Consensus size: 270
526940 TTGTCATCTT
* * *
526950 TAAGACCAATGTCGCTGGCCTTGAATCAACACATTGGCATCTTCATCTTTAAGTCCAATGTCGCT
1 TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATCGCT
* * * ** * * *
527015 GGCCTTGAATCAACACATTGGCACCCTCATCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCAT
60 GGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCGTTGGCCTTGAATCAGCAC
* * * *
527080 ATTGGC-GCCTTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTAGCATCCTCATC
125 ATTGGCATCC-TTATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTAGCATCCTCATC
* * * * * *
527144 TTTAAGTCCGATTTCGCTGGCCTTGAATCAGCATATTGGCACTTCATCTTTAAGACAAATGTCGT
189 TTTAAGGCCAATGTCGCTGGCCTTGAATCAACACATTGG--C--CA---TTAAGACAAATGTCAT
527209 TGGCCTTGAATCAACACATTGGCA
247 TGGCCTTGAATCAACACATTGGCA
* *
527233 TAAGCCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGTTGGCCTT
1 TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTT
* *
527298 GAATCAGCATATTGGCGCATTTGTCTTTAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGC
66 GAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGC
** * * *
527363 ATCCTTATCTTTAAGTCCGGTATCGCTGGCCTTGAATCAGCATATTGGCA-CTTCATCTTTAAGG
131 ATCCTTATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTAGCATCCTCATCTTTAAGG
*
527427 CCAATGTCGTTGGCCTTGAATCAACACATTGG-CA-TAAGACAAATGTCATTGGCCTTGAATCAA
196 CCAATGTCGCTGGCCTTGAATCAACACATTGGCCATTAAGACAAATGTCATTGGCCTTGAATCAA
527490 CACATTGGCA
261 CACATTGGCA
* * *
527500 TAAGCCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCTAATATCGCTAGCCTT
1 TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTT
** * *
527565 GAATCAGCATATTGGTTCCTTTGTCTTTAAGACCAATGTCGCTGACCTTGAATCAGCACATTGGC
66 GAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGC
*
527630 AT-CTTCATCTTTAAGTCCAATATCGCTAGCCTTGAATCA
131 ATCCTT-ATCTTTAAGTCCAATATCGCTGGCCTTGAATCA
527669 TGAAAGCTTA
Statistics
Matches: 390, Mismatches: 44, Indels: 20
0.86 0.10 0.04
Matches are distributed among these distances:
266 3 0.01
267 190 0.49
271 2 0.01
276 39 0.10
277 117 0.30
278 2 0.01
279 1 0.00
283 36 0.09
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (270 bp):
TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTT
GAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGC
ATCCTTATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTAGCATCCTCATCTTTAAGG
CCAATGTCGCTGGCCTTGAATCAACACATTGGCCATTAAGACAAATGTCATTGGCCTTGAATCAA
CACATTGGCA
Found at i:528434 original size:13 final size:13
Alignment explanation
Indices: 528416--528441 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
528406 CAATTTTTTG
528416 TGTATCGATACAT
1 TGTATCGATACAT
528429 TGTATCGATACAT
1 TGTATCGATACAT
528442 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:528506 original size:21 final size:21
Alignment explanation
Indices: 528480--528555 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
528470 CTGCCAAGAA
*
528480 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
528501 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
528521 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
528542 ATGTATCGATACAT
1 ATGTATCGATACAT
528556 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:528526 original size:20 final size:20
Alignment explanation
Indices: 528501--528573 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
528491 CATCTTTTTT
528501 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
528521 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
528542 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
528562 ATGTATCGATAC
1 ATGTATCGATAC
528574 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:528537 original size:41 final size:41
Alignment explanation
Indices: 528480--528573 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
528470 CTGCCAAGAA
*
528480 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
528521 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
528562 ATGTATCGATAC
1 ATGTATCGATAC
528574 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:531035 original size:13 final size:13
Alignment explanation
Indices: 531017--531055 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
531007 ATAAACACCC
*
531017 TGTATCGATACAG
1 TGTATCGATACAA
531030 TGTATCGATACAA
1 TGTATCGATACAA
531043 TGTATCGATACAA
1 TGTATCGATACAA
531056 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:531066 original size:20 final size:20
Alignment explanation
Indices: 531041--531119 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
531031 GTATCGATAC
531041 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
531061 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
*
531086 GATGTATCGATACACAA-AAA
1 AATGTATCGATACA-AAGAAA
*
531106 CATGTATCGATACA
1 AATGTATCGATACA
531120 TTTTGGACAT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
20 32 0.65
25 16 0.33
26 1 0.02
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:533155 original size:15 final size:15
Alignment explanation
Indices: 533135--533165 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
533125 ATTTCGTTTG
*
533135 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
533150 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
533165 G
1 G
533166 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:534997 original size:21 final size:21
Alignment explanation
Indices: 534968--535012 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
534958 AAGTTTTCAT
*
534968 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
534988 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
535010 TTT
1 TTT
535013 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:537245 original size:13 final size:13
Alignment explanation
Indices: 537227--537252 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
537217 CAATTTTTTG
537227 TGTATCGATACAT
1 TGTATCGATACAT
537240 TGTATCGATACAT
1 TGTATCGATACAT
537253 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:537317 original size:21 final size:21
Alignment explanation
Indices: 537291--537366 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
537281 CTGCCAAGAA
*
537291 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
537312 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
537332 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
537353 ATGTATCGATACAT
1 ATGTATCGATACAT
537367 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:537337 original size:20 final size:20
Alignment explanation
Indices: 537312--537384 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
537302 CATCTTTTTT
537312 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
537332 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
537353 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
537373 ATGTATCGATAC
1 ATGTATCGATAC
537385 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:537348 original size:41 final size:41
Alignment explanation
Indices: 537291--537384 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
537281 CTGCCAAGAA
*
537291 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
537332 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
537373 ATGTATCGATAC
1 ATGTATCGATAC
537385 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:537731 original size:49 final size:49
Alignment explanation
Indices: 537676--538256 Score: 474
Period size: 49 Copynumber: 12.3 Consensus size: 49
537666 GATCCTAACA
* * ** *
537676 AATCAGCATATTGGCGCCTTTGTCTTTAAGACCAATGTCGCTGGCCTTG
1 AATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTG
* ** *
537725 AATCAGCACATTGGCATCTTCATCTTTAAGTCCGGTATCGCTGGCCTTG
1 AATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTG
* * * *
537774 AATCGGCATATTGGCA-CTTCATCTTTAAGACCAATGTCGTTGGCCTTG
1 AATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTG
* * *
537822 AATCAACACATTGG------CA----TAAGACCAATGTCGTTGGCCTTG
1 AATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTG
* * *
537861 AATCAACACATTGG------CA----TAAGCCCAATGTTGCTGGCCTTG
1 AATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTG
* ** *
537900 AATCAGCACATTGGCATCTTCATCTTTAAGTCCGGTATCGCTGGCCTTG
1 AATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTG
* * * * *
537949 AATCAACATATTGGCACCGTCATCTTTAAGACCAATGTCGCTGGCCATG
1 AATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTG
* * ** * *
537998 AATCAGCACATTGGTATCTTCATCTTTAAGTCCGGTATCGCTGGCCTTC
1 AATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTG
* *
538047 AATCAGCATATTGGCACCGTCATCTTTAAGTCCAATGTCGCTGGCCTTG
1 AATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTG
* *
538096 AATCAGCACATTGGCACCCTCATCTTTAAGTCCAATATCG-TGAGCCTTG
1 AATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTCGCTG-GCCTTG
* * * * * * * *
538145 CATCAGCATATTGGCATCTTTAACATTCCTAAGCCCAATGTTGTTGGCCTTG
1 AATCAGCACATTGGCACCTTCATC-TT--TAAGTCCAATGTCGCTGGCCTTG
** * * * *
538197 TCTCAGCACATTGGCA--TTCTTCTTCAAATCTAATGTCGCTGGCCATT-
1 AATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCC-TTG
538244 AATCAGCACATTG
1 AATCAGCACATTG
538257 TATCGATACA
Statistics
Matches: 434, Mismatches: 82, Indels: 34
0.79 0.15 0.06
Matches are distributed among these distances:
39 72 0.17
43 2 0.00
45 2 0.00
47 25 0.06
48 42 0.10
49 254 0.59
50 5 0.01
52 30 0.07
53 2 0.00
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (49 bp):
AATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTG
Found at i:537853 original size:39 final size:39
Alignment explanation
Indices: 537799--537916 Score: 200
Period size: 39 Copynumber: 3.0 Consensus size: 39
537789 ACTTCATCTT
537799 TAAGACCAATGTCGTTGGCCTTGAATCAACACATTGGCA
1 TAAGACCAATGTCGTTGGCCTTGAATCAACACATTGGCA
537838 TAAGACCAATGTCGTTGGCCTTGAATCAACACATTGGCA
1 TAAGACCAATGTCGTTGGCCTTGAATCAACACATTGGCA
* * * *
537877 TAAGCCCAATGTTGCTGGCCTTGAATCAGCACATTGGCA
1 TAAGACCAATGTCGTTGGCCTTGAATCAACACATTGGCA
537916 T
1 T
537917 CTTCATCTTT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 75 1.00
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (39 bp):
TAAGACCAATGTCGTTGGCCTTGAATCAACACATTGGCA
Found at i:539123 original size:9 final size:9
Alignment explanation
Indices: 539109--539134 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
539099 GTAGTTTTAG
539109 GATGATTTT
1 GATGATTTT
539118 GATGATTTT
1 GATGATTTT
539127 GATGATTT
1 GATGATTT
539135 GAAGTCATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.54
Consensus pattern (9 bp):
GATGATTTT
Found at i:541811 original size:165 final size:161
Alignment explanation
Indices: 541470--541842 Score: 439
Period size: 165 Copynumber: 2.3 Consensus size: 161
541460 CTTTGAAATT
* * * *
541470 TTTTTAATATTTACAATTAAACCTTTAAACTTTTTAAAATTACAAATTGATCTTAATATAATCAA
1 TTTTCAATATTTACAATTAAACC-CTAAACTTTTTAAAATTACAAATTGACCTTAATATAATAAA
* * * *
541535 ACATAAAATTAAATATCAAACATATCAAAATCAGCACTTAAAATCATAAAAAGTCACAAGAAAGA
65 ACACAAAATTAAATATCAAACATATCAAAATCAACACTAAAAATCATAAAAAATCACAAGAAAGA
* *
541600 TTTGGCCAAGTAACTTTAGCCTTGGAACAAAA
130 TTCGGCCAAGTAACTTTAGCCTTAGAACAAAA
* **
541632 TTTTCAATATTTACACTTAAATCCCTAAACTTTTTAAAATTACAAATT-AGCCTTTGTATAATTA
1 TTTTCAATATTTACAATTAAA-CCCTAAACTTTTTAAAATTACAAATTGA-CCTTAATATAA-TA
* * *
541696 AAACACAAAGTT-AATATCAACCATATCAAAATCAACAC-AAAAATCAAATCCAAAAAATTACAA
63 AAACACAAAATTAAATATCAAACATATCAAAATCAACACTAAAAATC--AT--AAAAAATCACAA
*
541759 GAAAGATTCGGCCAAGT-ACTTTTGGCCTTAGAACAAAA
124 GAAAGATTCGGCCAAGTAAC-TTTAGCCTTAGAACAAAA
* * * *
541797 TTTTCAATATTTACAAATTTACCCCTAAACTTTCTAAACTTACAAA
1 TTTTCAATATTTAC-AATTAAACCCTAAACTTTTTAAAATTACAAA
541843 AAAGCCCCAT
Statistics
Matches: 180, Mismatches: 22, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
161 7 0.04
162 74 0.41
163 15 0.08
164 2 0.01
165 78 0.43
166 4 0.02
ACGTcount: A:0.46, C:0.17, G:0.06, T:0.31
Consensus pattern (161 bp):
TTTTCAATATTTACAATTAAACCCTAAACTTTTTAAAATTACAAATTGACCTTAATATAATAAAA
CACAAAATTAAATATCAAACATATCAAAATCAACACTAAAAATCATAAAAAATCACAAGAAAGAT
TCGGCCAAGTAACTTTAGCCTTAGAACAAAA
Found at i:543782 original size:3 final size:3
Alignment explanation
Indices: 543774--543807 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
543764 CATGAAAATC
543774 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
543808 TTTTAGGAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:544209 original size:160 final size:149
Alignment explanation
Indices: 544131--544414 Score: 371
Period size: 148 Copynumber: 1.9 Consensus size: 149
544121 TTCCTTTTAG
* * *
544131 TTATGAAAGTATT-ATTTTAATTTAATTTATTTGTTTTCGAAAAATACCTTTTTATACCTTAATG
1 TTATGAAAGTATTGA-TTTAATTTAATTTATTTATTTTCGAAAAATACCATTTCATACCTTAATG
**
544195 GAAACTCGAAAAGATACGAAAAGTTTTTGAAATCTTTTATA-CCCTTATGGACCCCCATAGGAAT
65 GAAACTCGAAAAGATACGAAAAGTTTTTGAAATCTTTTATACCCCTTACAGACCCCCATAGGAAT
544259 ATAAAAGATATTTATTTCAA
130 ATAAAAGATATTTATTTCAA
* * * * *
544279 TTATGAAAGTGTTGATTTAATTTTATTTATTTATTTTTGAAAAATACCATTTCGTACTTTAATGG
1 TTATGAAAGTATTGATTTAATTTAATTTATTTATTTTCGAAAAATACCATTTCATACCTTAATGG
* * * * * *
544344 AAACCCGAAAAGATACGAAAAGTTTTTAAAAT-TTTTATA-CCTTTA-TGAACTCCCATAGAAAT
66 AAACTCGAAAAGATACGAAAAGTTTTTGAAATCTTTTATACCCCTTACAG-ACCCCCATAGGAAT
544406 ATAAAAGAT
130 ATAAAAGAT
544415 TAAAAAATGA
Statistics
Matches: 120, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
146 1 0.01
147 33 0.28
148 85 0.71
149 1 0.01
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.40
Consensus pattern (149 bp):
TTATGAAAGTATTGATTTAATTTAATTTATTTATTTTCGAAAAATACCATTTCATACCTTAATGG
AAACTCGAAAAGATACGAAAAGTTTTTGAAATCTTTTATACCCCTTACAGACCCCCATAGGAATA
TAAAAGATATTTATTTCAA
Found at i:545213 original size:12 final size:10
Alignment explanation
Indices: 545191--545225 Score: 52
Period size: 10 Copynumber: 3.3 Consensus size: 10
545181 GCTAGCTTAG
545191 TTTTTCTATT
1 TTTTTCTATT
545201 TTTTTACCTATT
1 TTTTT--CTATT
545213 TTTTTCTATT
1 TTTTTCTATT
545223 TTT
1 TTT
545226 CTTGCCTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 13 0.57
12 10 0.43
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.77
Consensus pattern (10 bp):
TTTTTCTATT
Found at i:545239 original size:21 final size:21
Alignment explanation
Indices: 545193--545249 Score: 53
Period size: 22 Copynumber: 2.6 Consensus size: 21
545183 TAGCTTAGTT
*
545193 TTTCTATTTTTTTACCTATTTT
1 TTTCTATTTTTTTACC-ATTTC
*
545215 TTTCTATTTTTCTTGCC-TTTC
1 TTTCTATTTTT-TTACCATTTC
545236 TTTCTCCATTTTTT
1 TTTCT--ATTTTTT
545250 CTCTTTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
21 8 0.27
22 12 0.40
23 10 0.33
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (21 bp):
TTTCTATTTTTTTACCATTTC
Found at i:547452 original size:84 final size:84
Alignment explanation
Indices: 547359--547792 Score: 349
Period size: 84 Copynumber: 5.2 Consensus size: 84
547349 ATGCTAATGA
* * * *
547359 GCAGGCAAAGGATAAAGAAGTCTCTTGGGTTTGAGCCGACAAGCA-ACAAAAAGATGAAGAAGTC
1 GCAGACAAAGGATAAAGAAGTCTCTTGGGTCTGAGCTGACAAGCAGAC-AAAAGATAAAGAAGTC
*
547423 TCCCGAGCTTGAGTCGACGG
65 TCCCGAGCTTGAGTCGACAG
* * * *** *
547443 GCAGACAAAGGATATAGATGTCTCTTGGGTCTAAGCTGATGGGTAGACAAAAAGATAAAGAAGTC
1 GCAGACAAAGGATAAAGAAGTCTCTTGGGTCTGAGCTGACAAGCAGAC-AAAAGATAAAGAAGTC
* *
547508 TCCCGGGCTTGAGTTGACAG
65 TCCCGAGCTTGAGTCGACAG
* ** ** * * **
547528 GCGGACAAAGGATATAATTA-TCTCTTGGGTCTGAGCTGA-TGGACAGACAAAGGATATAGTTGT
1 GCAGACAAAGGATA-AAGAAGTCTCTTGGGTCTGAGCTGACAAG-CAGACAAAAGATAAAGAAGT
* * * * *
547591 CTCTCAAGTTTGAGCCAACAG
64 CTCCCGAGCTTGAGTCGACAG
* * ** * *
547612 GCAGACAAAAGATAAAGTAGTCTCCCGAGTCTGAGCTGACAAGCAGACAAAGGATAAAGAAGTCT
1 GCAGACAAAGGATAAAGAAGTCTCTTGGGTCTGAGCTGACAAGCAGACAAAAGATAAAGAAGTCT
547677 -CCGAG-TCTGAGTCGACAG
66 CCCGAGCT-TGAGTCGACAG
* * *** * *
547695 GCAGACAAAAGATACAA-AAGTCTCTCGGGTCTGAGCTGATGGGCAAACAAAAGATATAGAAGTC
1 GCAGACAAAGGATA-AAGAAGTCTCTTGGGTCTGAGCTGACAAGCAGACAAAAGATAAAGAAGTC
** * *
547759 TCTTGGGCCTGAGTCGACAG
65 TCCCGAGCTTGAGTCGACAG
* *
547779 GTAGACAAAAGATA
1 GCAGACAAAGGATA
547793 TTATCACAAC
Statistics
Matches: 279, Mismatches: 62, Indels: 18
0.78 0.17 0.05
Matches are distributed among these distances:
82 1 0.00
83 69 0.25
84 137 0.49
85 71 0.25
86 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.20
Consensus pattern (84 bp):
GCAGACAAAGGATAAAGAAGTCTCTTGGGTCTGAGCTGACAAGCAGACAAAAGATAAAGAAGTCT
CCCGAGCTTGAGTCGACAG
Found at i:547745 original size:42 final size:42
Alignment explanation
Indices: 547359--547792 Score: 258
Period size: 42 Copynumber: 10.3 Consensus size: 42
547349 ATGCTAATGA
* * * * * * *
547359 GCAGGCAAAGGATAAAGAAGTCTCTTGGGTTTGAGCCGACAA
1 GCAGACAAAAGATAAAGAAGTCTCTCGAGTCTGAGCTGACAG
* * *
547401 GCA-ACAAAAAGATGAAGAAGTCTCCCGAG-CTTGAG-TCGACGG
1 GCAGAC-AAAAGATAAAGAAGTCTCTCGAGTC-TGAGCT-GACAG
* * * * * * **
547443 GCAGACAAAGGATATAGATGTCTCTTGGGTCTAAGCTGATGG
1 GCAGACAAAAGATAAAGAAGTCTCTCGAGTCTGAGCTGACAG
* * * *
547485 GTAGACAAAAAGATAAAGAAGTCTCCCG-GGCTTGAGTTGACAG
1 GCAGAC-AAAAGATAAAGAAGTCTCTCGAGTC-TGAGCTGACAG
* * ** * * *
547528 GCGGACAAAGGATATAATTA-TCTCTTGGGTCTGAGCTGA-TG
1 GCAGACAAAAGATA-AAGAAGTCTCTCGAGTCTGAGCTGACAG
* * ** * * **
547569 GACAGACAAAGGATATAGTTGTCTCTCAAGTTTGAGCCAACAG
1 G-CAGACAAAAGATAAAGAAGTCTCTCGAGTCTGAGCTGACAG
* * *
547612 GCAGACAAAAGATAAAGTAGTCTCCCGAGTCTGAGCTGACAA
1 GCAGACAAAAGATAAAGAAGTCTCTCGAGTCTGAGCTGACAG
*
547654 GCAGACAAAGGATAAAGAAGTCTC-CGAGTCTGAG-TCGACAG
1 GCAGACAAAAGATAAAGAAGTCTCTCGAGTCTGAGCT-GACAG
* **
547695 GCAGACAAAAGATACAA-AAGTCTCTCGGGTCTGAGCTGATGG
1 GCAGACAAAAGATA-AAGAAGTCTCTCGAGTCTGAGCTGACAG
* * * * *
547737 GCAAACAAAAGATATAGAAGTCTCTTGGGCCTGAG-TCGACAG
1 GCAGACAAAAGATAAAGAAGTCTCTCGAGTCTGAGCT-GACAG
*
547779 GTAGACAAAAGATA
1 GCAGACAAAAGATA
547793 TTATCACAAC
Statistics
Matches: 298, Mismatches: 75, Indels: 38
0.73 0.18 0.09
Matches are distributed among these distances:
40 1 0.00
41 41 0.14
42 217 0.73
43 39 0.13
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.20
Consensus pattern (42 bp):
GCAGACAAAAGATAAAGAAGTCTCTCGAGTCTGAGCTGACAG
Found at i:547787 original size:167 final size:169
Alignment explanation
Indices: 547487--547792 Score: 377
Period size: 167 Copynumber: 1.8 Consensus size: 169
547477 GCTGATGGGT
* * * * *
547487 AGACAAAAAGATAAAGAAGTCTCCCGGGCTTGAGTTGACAGGCGGACAAAGGATATAATTATCTC
1 AGACAAAAAGATAAAGAAGTCTCCCGGGCTTGAGTCGACAGGCAGACAAAAGATACAATAATCTC
* * * ** **
547552 TTGGGTCTGAGCTGATGGACAGACAAAGGATATAGTTGTCTCTCAAGTTTGAGCCAACAGGCAGA
66 TCGGGTCTGAGCTGATGGACAAACAAAAGATATAGAAGTCTCTCAAGCCTGAGCCAACAGGCAGA
547617 CAAAAGATAAAGTAGTCTCCCGAGTCTGAGCTGACAAGC
131 CAAAAGATAAAGTAGTCTCCCGAGTCTGAGCTGACAAGC
* *
547656 AGAC-AAAGGATAAAGAAGTCT-CCGAG-TCTGAGTCGACAGGCAGACAAAAGATACAA-AAGTC
1 AGACAAAAAGATAAAGAAGTCTCCCGGGCT-TGAGTCGACAGGCAGACAAAAGATACAATAA-TC
* *** * * *
547717 TCTCGGGTCTGAGCTGATGGGCAAACAAAAGATATAGAAGTCTCTTGGGCCTGAGTCGACAGGTA
64 TCTCGGGTCTGAGCTGATGGACAAACAAAAGATATAGAAGTCTCTCAAGCCTGAGCCAACAGGCA
547782 GACAAAAGATA
129 GACAAAAGATA
547793 TTATCACAAC
Statistics
Matches: 114, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
166 2 0.02
167 92 0.81
168 16 0.14
169 4 0.04
ACGTcount: A:0.36, C:0.18, G:0.26, T:0.20
Consensus pattern (169 bp):
AGACAAAAAGATAAAGAAGTCTCCCGGGCTTGAGTCGACAGGCAGACAAAAGATACAATAATCTC
TCGGGTCTGAGCTGATGGACAAACAAAAGATATAGAAGTCTCTCAAGCCTGAGCCAACAGGCAGA
CAAAAGATAAAGTAGTCTCCCGAGTCTGAGCTGACAAGC
Found at i:548839 original size:97 final size:96
Alignment explanation
Indices: 548673--548901 Score: 368
Period size: 97 Copynumber: 2.4 Consensus size: 96
548663 AACGGGATTG
*
548673 GAGTATCCCCTCGGAGGAATGGGGTTGGAGTGTCCCTAATGATGACAATTTAAGTGAGATTAAAA
1 GAGTAT-CCCTCGGAGGAATGGGGTTGGAGTGTCCCTAATGATGACAATTTAAGTGAGAATAAAA
*
548738 TTTAAACTGTGATGCGTTTAAAAGCGGGGTTA
65 TTTAAACTGTGATGCATTTAAAAGCGGGGTTA
*
548770 GAGTATCCTCTCGGAGGAATGTGGTTGGAGTGTCCCTAATGATGACAATTTAAGTGAGAATAAAA
1 GAGTATCC-CTCGGAGGAATGGGGTTGGAGTGTCCCTAATGATGACAATTTAAGTGAGAATAAAA
* * *
548835 TTTAAACTTTGATGCATTTGAAAGCGGGGTTG
65 TTTAAACTGTGATGCATTTAAAAGCGGGGTTA
*
548867 GAGTATTCCCTCGGAGGAATGGGGTTGAAGTGTCC
1 GAGTA-TCCCTCGGAGGAATGGGGTTGGAGTGTCC
548902 TCGATAAATA
Statistics
Matches: 122, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
96 2 0.02
97 117 0.96
98 3 0.02
ACGTcount: A:0.28, C:0.13, G:0.30, T:0.29
Consensus pattern (96 bp):
GAGTATCCCTCGGAGGAATGGGGTTGGAGTGTCCCTAATGATGACAATTTAAGTGAGAATAAAAT
TTAAACTGTGATGCATTTAAAAGCGGGGTTA
Found at i:551110 original size:31 final size:30
Alignment explanation
Indices: 551072--551185 Score: 93
Period size: 31 Copynumber: 3.5 Consensus size: 30
551062 TACATTGAAA
551072 AATGTATCGATACATCTAGGTAAAAAGACAG
1 AATGTATCGATACATCTAGGTAAAAAGA-AG
* * **
551103 AATGTATCGATATATTCATACAAGTTATACATTGAAG
1 AATGTATCG--ATA--CAT-CTAGGTA-A-AAAGAAG
* *
551140 AATGTATCGATACATCTGGGTAAAAGGATAG
1 AATGTATCGATACATCTAGGTAAAAAGA-AG
551171 AATGTATCGATACAT
1 AATGTATCGATACAT
551186 TGAAGAATAT
Statistics
Matches: 66, Mismatches: 9, Indels: 16
0.73 0.10 0.18
Matches are distributed among these distances:
30 3 0.05
31 27 0.41
32 4 0.06
33 6 0.09
35 6 0.09
36 5 0.08
37 12 0.18
38 3 0.05
ACGTcount: A:0.41, C:0.11, G:0.18, T:0.29
Consensus pattern (30 bp):
AATGTATCGATACATCTAGGTAAAAAGAAG
Found at i:551397 original size:28 final size:28
Alignment explanation
Indices: 551328--553694 Score: 2355
Period size: 28 Copynumber: 83.0 Consensus size: 28
551318 CGGGCACCAT
* *
551328 TGACTTGTGGGCTTTGAAAAGAGTGCCAT
1 TGACTTGTGGGCTTT-AAAAGGGTGCCAC
*
551357 TGACTTGTAGGCTTTAAAAGGGTGCCAC
1 TGACTTGTGGGCTTTAAAAGGGTGCCAC
* *
551385 TAACTCGTGGGCTTTGAAAA-GGTGCCAC
1 TGACTTGTGGGCTTT-AAAAGGGTGCCAC
* * *
551413 TTACTTATGGGCTTTGAAAGGGTGCCAC
1 TGACTTGTGGGCTTTAAAAGGGTGCCAC
*
551441 TGACTTGTGGGCTTTGAAAAGAGTGCCAC
1 TGACTTGTGGGCTTT-AAAAGGGTGCCAC
* * * *
551470 TGACTCGCGAGCTTTGAAAA-GATGCCAC
1 TGACTTGTGGGCTTT-AAAAGGGTGCCAC
* *
551498 TAACTTGTGGGCTTTGAAAAGAGTTGCCAC
1 TGACTTGTGGGCTTT-AAAAG-GGTGCCAC
* * *
551528 CGACTCGTGGGCTTTGAAAGGGTGCCAC
1 TGACTTGTGGGCTTTAAAAGGGTGCCAC
*
551556 TGACTTGTGGGCTTTGAAAAGAGTGCCAC
1 TGACTTGTGGGCTTT-AAAAGGGTGCCAC
* * *
551585 TGACTTGCGGGCTTTGAAAGAGTGCCAC
1 TGACTTGTGGGCTTTAAAAGGGTGCCAC
* *
551613 TGACTTATGGGCTTTGAAAAGAGTGCCAC
1 TGACTTGTGGGCTTT-AAAAGGGTGCCAC
* * * *
551642 TAACTTATGGGCTTTGAAAGGCTGCCAC
1 TGACTTGTGGGCTTTAAAAGGGTGCCAC
* *
551670 TGACTTGTGGGCTTTGAAAGGATGCCAC
1 TGACTTGTGGGCTTTAAAAGGGTGCCAC
* * * *
551698 TGACTTGTAGGCTTTGAAAAGAGTTACC-G
1 TGACTTGTGGGCTTT-AAAAG-GGTGCCAC
* *
551727 TCGACTCGTGGGCTTTGAAAA-AGTGCCAC
1 T-GACTTGTGGGCTTT-AAAAGGGTGCCAC
* **
551756 TGACTCGTGGGCTTTGAAAAAAGTGCCAC
1 TGACTTGTGGGCTTT-AAAAGGGTGCCAC
* * *
551785 TGACTTGCGGGCTTTGAAAGAGTGCCAC
1 TGACTTGTGGGCTTTAAAAGGGTGCCAC
* * *
551813 TGACTTGTAGGCTTTGAAAGGGAGCCAC
1 TGACTTGTGGGCTTTAAAAGGGTGCCAC
*
551841 TGACTTGTGGGCTTTGAAAAGAGTGCCAC
1 TGACTTGTGGGCTTT-AAAAGGGTGCCAC
* * * *
551870 TGACTCGCGAGCTTTGAAAA-GATGCCAC
1 TGACTTGTGGGCTTT-AAAAGGGTGCCAC
* *
551898 TAACTTGTGGGCTTTGAAAAGAGTTGCCA-
1 TGACTTGTGGGCTTT-AAAAG-GGTGCCAC
* *
551927 TCGACTCGTGGGCTTTGAAAGGGTGCCAC
1 T-GACTTGTGGGCTTTAAAAGGGTGCCAC
* *
551956 TGACTTGTGGGCTTTGAAAAGAGTGTCAC
1 TGACTTGTGGGCTTT-AAAAGGGTGCCAC
* * *
551985 TGACTTGCGGGCTTTGAAAGAGTGCCAC
1 TGACTTGTGGGCTTTAAAAGGGTGCCAC
* *
552013 TGACTTATGGGCTTTGAAAAGAGTGCCAC
1 TGACTTGTGGGCTTT-AAAAGGGTGCCAC
* * * *
552042 TAACTTATGGGCTTTGAAAGGCTGCCAC
1 TGACTTGTGGGCTTTAAAAGGGTGCCAC
* * *
552070 TGACTTGTGGGCTTTGAAAGGATGCCAA
1 TGACTTGTGGGCTTTAAAAGGGTGCCAC
* * *
552098 TGACTTGTAGGCTTTGAAAGGATGCCAC
1 TGACTTGTGGGCTTTAAAAGGGTGCCAC
* * *
552126 TGACTCGTGGGCTTTGAAAGGATGCCAC
1 TGACTTGTGGGCTTTAAAAGGGTGCCAC
* *
552154 TAACTTGTGGGCTTTGAAAAGAGTTGCCAC
1 TGACTTGTGGGCTTT-AAAAG-GGTGCCAC
* * *
552184 TGACTTGCGGGCTTTGAAAGAGTGCCAC
1 TGACTTGTGGGCTTTAAAAGGGTGCCAC
* * *
552212 TGACTTGTAGGCTTTGAAAGGGAGCCAC
1 TGACTTGTGGGCTTTAAAAGGGTGCCAC
*
552240 TGACTTGTGGGCTTTGAAAAGAGTGCCAC
1 TGACTTGTGGGCTTT-AAAAGGGTGCCAC
* *
552269 TGACTTGTGGGCTTTGAAAGAGTGCCAC
1 TGACTTGTGGGCTTTAAAAGGGTGCCAC
* *
552297 TGACTTGTGGGTTTTGAAAGGGTGCCAC
1 TGACTTGTGGGCTTTAAAAGGGTGCCAC
* *
552325 TGACTTGTGGGCTTTGAAAAGAGTGCCAT
1 TGACTTGTGGGCTTT-AAAAGGGTGCCAC
* * *
552354 TAACTTGTGGGCTTCGAAAAGAGTGCCAC
1 TGACTTGTGGGCTT-TAAAAGGGTGCCAC
* * * * *
552383 CGACTCGTGGGCTTTGAAAGTGTGCCAT
1 TGACTTGTGGGCTTTAAAAGGGTGCCAC
* * *
552411 TGACTTGTGAGCTTGGAAAAGAGTGCCAC
1 TGACTTGTGGGCTT-TAAAAGGGTGCCAC
* * *
552440 TGACTTGTGGGCTTTGAAAGAGTACCAC
1 TGACTTGTGGGCTTTAAAAGGGTGCCAC
* *
552468 TAACTTGTGGGCTTTGAAAAGAGTGCCAC
1 TGACTTGTGGGCTTT-AAAAGGGTGCCAC
* *
552497 TGGCTTGTGGGCTTTGAAAGGGTGCCAC
1 TGACTTGTGGGCTTTAAAAGGGTGCCAC
* * *
552525 TAACTTGTGGGCTTTGAAAGGATGCCAC
1 TGACTTGTGGGCTTTAAAAGGGTGCCAC
* *
552553 TAACTTGTGGGCTTTGAAAAGAGTTGCCAC
1 TGACTTGTGGGCTTT-AAAAG-GGTGCCAC
* * *
552583 CGACTCGTGGGCTTTGAAAGGGTGCCAC
1 TGACTTGTGGGCTTTAAAAGGGTGCCAC
* *
552611 TGACTCGTGGGCTTTGAAAAGAGTGCCAC
1 TGACTTGTGGGCTTT-AAAAGGGTGCCAC
* *
552640 TGACTTGCGGGCTTTAAAAGAGTGCCAC
1 TGACTTGTGGGCTTTAAAAGGGTGCCAC
*
552668 TGACTTGTGGGCTTTGAAAAGAGTGCCAC
1 TGACTTGTGGGCTTT-AAAAGGGTGCCAC
* *
552697 TGACTTGTGGGCTTTGAAAGAGTGCCAC
1 TGACTTGTGGGCTTTAAAAGGGTGCCAC
* *
552725 TGACTTGTGGGTTTTGAAAGGGTGCCAC
1 TGACTTGTGGGCTTTAAAAGGGTGCCAC
* * *
552753 TAACTTGTGGGCTTTGAAAAGAGTGCCAT
1 TGACTTGTGGGCTTT-AAAAGGGTGCCAC
* *
552782 TGACTTGTGGGCTTCGAAAAGAGTGCCAC
1 TGACTTGTGGGCTT-TAAAAGGGTGCCAC
* * * *
552811 CGACTCGTGGGCTTTGAAAGGGTGCCAT
1 TGACTTGTGGGCTTTAAAAGGGTGCCAC
* *
552839 TGACTTGTGAGCTTTGAAAAGAGTGCCAC
1 TGACTTGTGGGCTTT-AAAAGGGTGCCAC
* * *
552868 TGACTTGCGGGCTTTGAAAGAGTGCCAC
1 TGACTTGTGGGCTTTAAAAGGGTGCCAC
*
552896 TGACTTGTGGGCTTTGAAAAGAGTGCCAC
1 TGACTTGTGGGCTTT-AAAAGGGTGCCAC
* * *
552925 TGACTCGTGGGCTTTGAAAGGATGCCAC
1 TGACTTGTGGGCTTTAAAAGGGTGCCAC
* * *
552953 TGACTCGTGGGCTTTGAAAGGATGCCAC
1 TGACTTGTGGGCTTTAAAAGGGTGCCAC
* * *
552981 TAACTTGTGGGCTTTGAAAAGAGTTACCAC
1 TGACTTGTGGGCTTT-AAAAG-GGTGCCAC
* * *
553011 CGACTCGTGGGCTTTGAAAGGGTGCCAC
1 TGACTTGTGGGCTTTAAAAGGGTGCCAC
* *
553039 TGACTTGTGGGCTTTGAAAAGAGTGCTAC
1 TGACTTGTGGGCTTT-AAAAGGGTGCCAC
* ** *
553068 TGACTTGCGGGCTTTGGAAGAGTGCCAC
1 TGACTTGTGGGCTTTAAAAGGGTGCCAC
*
553096 TGACTTGTGGG-TTTGAAAGGGTGCCAC
1 TGACTTGTGGGCTTTAAAAGGGTGCCAC
* *
553123 TGACTCT-TGAGCTTTGAAAGGGTGCCAC
1 TGACT-TGTGGGCTTTAAAAGGGTGCCAC
* * *
553151 TGACTTATGGGCTTTGAAAAGAGTTACCAC
1 TGACTTGTGGGCTTT-AAAAG-GGTGCCAC
* *
553181 CGACTTGTGGGCTTTGAAAGGGTGCCA-
1 TGACTTGTGGGCTTTAAAAGGGTGCCAC
* *
553208 TCGACTCGTGGGCTTTGAAAGGGTGCCAC
1 T-GACTTGTGGGCTTTAAAAGGGTGCCAC
* *
553237 CGA-TTCGTGGGCTTTGAAAGGGTGCCAC
1 TGACTT-GTGGGCTTTAAAAGGGTGCCAC
* * *
553265 CGACTCGTGGGCTTTGAAAAGTGTGCCAC
1 TGACTTGTGGGCTTT-AAAAGGGTGCCAC
* * * *
553294 TGATTTGTGGGATTTGAAAAGAGTGTCAC
1 TGACTTGTGGGCTTT-AAAAGGGTGCCAC
*
553323 TGACTTGTGGGCTTTAAAAGAGTGCCAC
1 TGACTTGTGGGCTTTAAAAGGGTGCCAC
* * *
553351 TGACTTGCGGGCTTTGAAAGAGTGCCAC
1 TGACTTGTGGGCTTTAAAAGGGTGCCAC
* **
553379 TGACTTGTGTGCTTTGAAAAAAGTGCCAC
1 TGACTTGTGGGCTTT-AAAAGGGTGCCAC
553408 TGACTTGTGGGCTTTGAAAA-GGTGCCAC
1 TGACTTGTGGGCTTT-AAAAGGGTGCCAC
**
553436 TGACTTGTGGGCTTTGAAAAGATTGCCAC
1 TGACTTGTGGGCTTT-AAAAGGGTGCCAC
*
553465 TGACTTGTGGGCTTTGAAAAGAGTGCCAC
1 TGACTTGTGGGCTTT-AAAAGGGTGCCAC
*
553494 TGACTTGTGGGCTTTGAAAAGAGTTGCCAC
1 TGACTTGTGGGCTTT-AAAAG-GGTGCCAC
* * *
553524 CGACTCGTGGGCTTTGAAAGGGTGCCAC
1 TGACTTGTGGGCTTTAAAAGGGTGCCAC
553552 TGACTTGTGGGCTTTGAAAA-GGTGCCAC
1 TGACTTGTGGGCTTT-AAAAGGGTGCCAC
*
553580 TGACTTGTGGGCTTTGAAAGGGTGCCAC
1 TGACTTGTGGGCTTTAAAAGGGTGCCAC
*
553608 TGACTTGTGGGCTTTGAAAAGAGTGCCAC
1 TGACTTGTGGGCTTT-AAAAGGGTGCCAC
* * ** *
553637 TGACTCGTGGGCTTTGAAAGCATGTCAC
1 TGACTTGTGGGCTTTAAAAGGGTGCCAC
* * *
553665 TAACCTGTGGGCTTTGAAAAGAGTTGCCAC
1 TGACTTGTGGGCTTT-AAAAG-GGTGCCAC
553695 CGACCCTTTT
Statistics
Matches: 1995, Mismatches: 288, Indels: 109
0.83 0.12 0.05
Matches are distributed among these distances:
27 30 0.02
28 1105 0.55
29 702 0.35
30 158 0.08
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (28 bp):
TGACTTGTGGGCTTTAAAAGGGTGCCAC
Found at i:551403 original size:57 final size:57
Alignment explanation
Indices: 551328--553694 Score: 3056
Period size: 57 Copynumber: 41.5 Consensus size: 57
551318 CGGGCACCAT
* * *
551328 TGACTTGTGGGCTTTGAAAAGAGTGCCATTGACTTGTAGGCTTTAAAAGGGTGCCAC
1 TGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCAC
* * * *
551385 TAACTCGTGGGCTTTGAAAAG-GTGCCACTTACTTATGGGCTTTGAAAGGGTGCCAC
1 TGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCAC
* * * * *
551441 TGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTCGCGAGCTTTGAAAAGATGCCAC
1 TGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCAC
* * *
551498 TAACTTGTGGGCTTTGAAAAGAGTTGCCACCGACTCGTGGGCTTTGAAAGGGTGCCAC
1 TGACTTGTGGGCTTTGAAAAGAG-TGCCACTGACTTGTGGGCTTTGAAAGGGTGCCAC
* *
551556 TGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGCGGGCTTTGAAAGAGTGCCAC
1 TGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCAC
* * * *
551613 TGACTTATGGGCTTTGAAAAGAGTGCCACTAACTTATGGGCTTTGAAAGGCTGCCAC
1 TGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCAC
* * * * *
551670 TGACTTGTGGGCTTTGAAAGGA-TGCCACTGACTTGTAGGCTTTGAAAAGAGTTACC-G
1 TGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAG-GGTGCCAC
* * **
551727 TCGACTCGTGGGCTTTGAAAA-AGTGCCACTGACTCGTGGGCTTTGAAAAAAGTGCCAC
1 T-GACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCAC
* * *
551785 TGACTTGCGGGCTTTG-AAAGAGTGCCACTGACTTGTAGGCTTTGAAAGGGAGCCAC
1 TGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCAC
* * * * *
551841 TGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTCGCGAGCTTTGAAAAGATGCCAC
1 TGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCAC
* *
551898 TAACTTGTGGGCTTTGAAAAGAGTTGCCA-TCGACTCGTGGGCTTTGAAAGGGTGCCAC
1 TGACTTGTGGGCTTTGAAAAGAG-TGCCACT-GACTTGTGGGCTTTGAAAGGGTGCCAC
* * *
551956 TGACTTGTGGGCTTTGAAAAGAGTGTCACTGACTTGCGGGCTTTGAAAGAGTGCCAC
1 TGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCAC
* * * *
552013 TGACTTATGGGCTTTGAAAAGAGTGCCACTAACTTATGGGCTTTGAAAGGCTGCCAC
1 TGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCAC
* * * *
552070 TGACTTGTGGGCTTTGAAAGGA-TGCCAATGACTTGTAGGCTTTGAAAGGATGCCAC
1 TGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCAC
* * * *
552126 TGACTCGTGGGCTTTGAAAGGA-TGCCACTAACTTGTGGGCTTTGAAAAGAGTTGCCAC
1 TGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAG-GGTGCCAC
* * *
552184 TGACTTGCGGGCTTTG-AAAGAGTGCCACTGACTTGTAGGCTTTGAAAGGGAGCCAC
1 TGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCAC
*
552240 TGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCAC
1 TGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCAC
* * * *
552297 TGACTTGTGGGTTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCAT
1 TGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCAC
* * * * * *
552354 TAACTTGTGGGCTTCGAAAAGAGTGCCACCGACTCGTGGGCTTTGAAAGTGTGCCAT
1 TGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCAC
* * * *
552411 TGACTTGTGAGCTTGGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTACCAC
1 TGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCAC
* *
552468 TAACTTGTGGGCTTTGAAAAGAGTGCCACTGGCTTGTGGGCTTTGAAAGGGTGCCAC
1 TGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCAC
* * * *
552525 TAACTTGTGGGCTTTGAAAGGA-TGCCACTAACTTGTGGGCTTTGAAAAGAGTTGCCAC
1 TGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAG-GGTGCCAC
* * * * *
552583 CGACTCGTGGGCTTTG-AAAGGGTGCCACTGACTCGTGGGCTTTGAAAAGAGTGCCAC
1 TGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCAC
* *
552640 TGACTTGCGGGCTTT-AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCAC
1 TGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCAC
*
552697 TGACTTGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGTTTTGAAAGGGTGCCAC
1 TGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCAC
* * * *
552753 TAACTTGTGGGCTTTGAAAAGAGTGCCATTGACTTGTGGGCTTCGAAAAGAGTGCCAC
1 TGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCAC
* * * * * *
552811 CGACTCGTGGGCTTTG-AAAGGGTGCCATTGACTTGTGAGCTTTGAAAAGAGTGCCAC
1 TGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCAC
* *
552868 TGACTTGCGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCAC
1 TGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCAC
* * * *
552925 TGACTCGTGGGCTTTGAAAGGA-TGCCACTGACTCGTGGGCTTTGAAAGGATGCCAC
1 TGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCAC
* * * *
552981 TAACTTGTGGGCTTTGAAAAGAGTTACCACCGACTCGTGGGCTTTGAAAGGGTGCCAC
1 TGACTTGTGGGCTTTGAAAAGAG-TGCCACTGACTTGTGGGCTTTGAAAGGGTGCCAC
* * * *
553039 TGACTTGTGGGCTTTGAAAAGAGTGCTACTGACTTGCGGGCTTTGGAAGAGTGCCAC
1 TGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCAC
* *
553096 TGACTTGTGGG-TTTG-AAAGGGTGCCACTGACTCT-TGAGCTTTGAAAGGGTGCCAC
1 TGACTTGTGGGCTTTGAAAAGAGTGCCACTGACT-TGTGGGCTTTGAAAGGGTGCCAC
* * *
553151 TGACTTATGGGCTTTGAAAAGAGTTACCACCGACTTGTGGGCTTTGAAAGGGTGCCA-
1 TGACTTGTGGGCTTTGAAAAGAG-TGCCACTGACTTGTGGGCTTTGAAAGGGTGCCAC
* * *
553208 TCGACTCGTGGGCTTTG-AAAGGGTGCCACCGA-TTCGTGGGCTTTGAAAGGGTGCCAC
1 T-GACTTGTGGGCTTTGAAAAGAGTGCCACTGACTT-GTGGGCTTTGAAAGGGTGCCAC
* * * * * * *
553265 CGACTCGTGGGCTTTGAAAAGTGTGCCACTGATTTGTGGGATTTGAAAAGAGTGTCAC
1 TGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCAC
* *
553323 TGACTTGTGGGCTTT-AAAAGAGTGCCACTGACTTGCGGGCTTTGAAAGAGTGCCAC
1 TGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCAC
* * *
553379 TGACTTGTGTGCTTTGAAAAAAGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCAC
1 TGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCAC
* *
553436 TGACTTGTGGGCTTTGAAAAGATTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCAC
1 TGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCAC
* *
553494 TGACTTGTGGGCTTTGAAAAGAGTTGCCACCGACTCGTGGGCTTTGAAAGGGTGCCAC
1 TGACTTGTGGGCTTTGAAAAGAG-TGCCACTGACTTGTGGGCTTTGAAAGGGTGCCAC
553552 TGACTTGTGGGCTTTGAAAAG-GTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCAC
1 TGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCAC
* ** *
553608 TGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTCGTGGGCTTTGAAAGCATGTCAC
1 TGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCAC
* *
553665 TAACCTGTGGGCTTTGAAAAGAGTTGCCAC
1 TGACTTGTGGGCTTTGAAAAGAG-TGCCAC
553695 CGACCCTTTT
Statistics
Matches: 2029, Mismatches: 237, Indels: 87
0.86 0.10 0.04
Matches are distributed among these distances:
55 44 0.02
56 418 0.21
57 1071 0.53
58 476 0.23
59 20 0.01
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (57 bp):
TGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCAC
Found at i:551686 original size:200 final size:201
Alignment explanation
Indices: 551328--553694 Score: 3109
Period size: 200 Copynumber: 11.9 Consensus size: 201
551318 CGGGCACCAT
* * * * * * *
551328 TGACTTGTGGGCTTTGAAAAGAGTGCCATTGACTTGTAGGCTTT-AAAAGGGTGCCACTAACTCG
1 TGACTCGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTG
* *
551392 TGGGCTTTGAAA-AGGTGCCACTTACTTATGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTT
65 TGGGCTTTGAAAGA-GTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTT
* * * *
551456 GAAAAGAGTGCCACTGACTCGCGAGCTTTGAAAAGA-TGCCACTAACTTGTGGGCTTTGAAAAGA
129 GAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGA
551520 GTTGCCAC
194 GTTGCCAC
* *
551528 CGACTCGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGC
1 TGACTCGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGT
* * * *
551593 GGGCTTTGAAAGAGTGCCACTGACTTATGGGCTTTGAAAAGAGTGCCACTAACTTATGGGCTTTG
66 GGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTG
* *
551658 -AAAG-GCTGCCACTGACTTGTGGGCTTTGAAAGGA-TGCCACTGACTTGTAGGCTTTGAAAAGA
130 AAAAGAG-TGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGA
* *
551720 GTTACC-G
194 GTTGCCAC
** * *
551727 TCGACTCGTGGGCTTTGAAAAAGTGCCACTGACTCGTGGGCTTTGAAAAAAGTGCCACTGACTTG
1 T-GACTCGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTG
* * *
551792 CGGGCTTTGAAAGAGTGCCACTGACTTGTAGGCTTTGAAAGGGAGCCACTGACTTGTGGGCTTTG
65 TGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG
* * * *
551857 AAAAGAGTGCCACTGACTCGCGAGCTTTGAAAAGA-TGCCACTAACTTGTGGGCTTTGAAAAGAG
130 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAG
551921 TTGCCA-
195 TTGCCAC
*
551927 TCGACTCGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGTCACTGACTTG
1 T-GACTCGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTG
* * * * *
551992 CGGGCTTTGAAAGAGTGCCACTGACTTATGGGCTTTGAAAAGAGTGCCACTAACTTATGGGCTTT
65 TGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTT
* * *
552057 G-AAAG-GCTGCCACTGACTTGTGGGCTTTGAAAGGA-TGCCAATGACTTGTAGGCTTTG-AAAG
129 GAAAAGAG-TGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAG
*
552118 -GATGCCAC
193 AGTTGCCAC
* *
552126 TGACTCGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGAGTTGCCACTGACTTG
1 TGACTCGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAG-TGCCACTGACTTG
* * *
552191 CGGGCTTTGAAAGAGTGCCACTGACTTGTAGGCTTTGAAAGGGAGCCACTGACTTGTGGGCTTTG
65 TGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG
*
552256 AAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGTTTTG-AAAG-G
130 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAG
*
552318 GTGCCAC
195 TTGCCAC
* * * * * * *
552325 TGACTTGTGGGCTTTGAAAAGAGTGCCATTAACTTGTGGGCTTCGAAAAGAGTGCCACCGACTCG
1 TGACTCGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTG
* * * * *
552390 TGGGCTTTGAAAGTGTGCCATTGACTTGTGAGCTTGGAAAAGAGTGCCACTGACTTGTGGGCTTT
65 TGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTT
* * *
552455 G-AAAGAGTACCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGGCTTGTGGGCTTTG-AAAG-
129 GAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGA
*
552517 GGTGCCAC
194 GTTGCCAC
* * * * * *
552525 TAACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGAGTTGCCACCGACTCG
1 TGACTCGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAG-TGCCACTGACTTG
* * * *
552590 TGGGCTTTGAAAGGGTGCCACTGACTCGTGGGCTTTGAAAAGAGTGCCACTGACTTGCGGGCTTT
65 TGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTT
552655 -AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGA
129 GAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGA
552718 G-TGCCAC
194 GTTGCCAC
* * * *
552725 TGACTTGTGGGTTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCATTGACTTGT
1 TGACTCGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGT
* * * * *
552790 GGGCTTCGAAAAGAGTGCCACCGACTCGTGGGCTTTGAAAGGGTGCCATTGACTTGTGAGCTTTG
66 GGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG
*
552855 AAAAGAGTGCCACTGACTTGCGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAG
130 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAG
552919 -TGCCAC
195 TTGCCAC
* * * *
552925 TGACTCGTGGGCTTTGAAAGGATGCCACTGACTCGTGGGCTTTGAAAGGA-TGCCACTAACTTGT
1 TGACTCGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGT
* * *
552989 GGGCTTTGAAAAGAGTTACCACCGACTCGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTT
66 GGGCTTTG-AAAGAG-TGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTT
* * *
553054 GAAAAGAGTGCTACTGACTTGCGGGCTTTG-GAAGAGTGCCACTGACTTGTGGG-TTTG-AAAG-
129 GAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGA
*
553115 GGTGCCAC
194 GTTGCCAC
* * * * *
553123 TGACTCTTGAGCTTTGAAAGGGTGCCACTGACTTATGGGCTTTGAAAAGAGTTACCACCGACTTG
1 TGACTCGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAG-TGCCACTGACTTG
* * *
553188 TGGGCTTTGAAAGGGTGCCA-TCGACTCGTGGGCTTTGAAAGGGTGCCACCGA-TTCGTGGGCTT
65 TGGGCTTTGAAAGAGTGCCACT-GACTTGTGGGCTTTGAAAGGGTGCCACTGACTT-GTGGGCTT
* * * * * *
553251 TG-AAAGGGTGCCACCGACTCGTGGGCTTTGAAAAGTGTGCCACTGATTTGTGGGATTTGAAAAG
128 TGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAG
*
553315 AG-TGTCAC
193 AGTTGCCAC
* * * *
553323 TGACTTGTGGGCTTTAAAAGAGTGCCACTGACTTGCGGGCTTTG-AAAGAGTGCCACTGACTTGT
1 TGACTCGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGT
* * *
553387 GTGCTTTGAAAAAAGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTG
66 GGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG
*
553452 AAAAGATTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAG
130 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAG
553517 TTGCCAC
195 TTGCCAC
*
553524 CGACTCGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAG-GTGCCACTGACTTGT
1 TGACTCGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGT
* * *
553588 GGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTCGTGGGCTTTG
66 GGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTG
* * *
553653 -AAAGCA-TGTCACTAACCTGTGGGCTTTGAAAAGAGTTGCCAC
130 AAAAG-AGTGCCACTGACTTGTGGGCTTTGAAAAGAG-TGCCAC
553695 CGACCCTTTT
Statistics
Matches: 1932, Mismatches: 192, Indels: 85
0.87 0.09 0.04
Matches are distributed among these distances:
197 26 0.01
198 218 0.11
199 432 0.22
200 1101 0.57
201 151 0.08
202 4 0.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (201 bp):
TGACTCGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGT
GGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGA
AAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGT
TGCCAC
Found at i:559656 original size:21 final size:20
Alignment explanation
Indices: 559631--559684 Score: 76
Period size: 18 Copynumber: 2.8 Consensus size: 20
559621 TTCTACAATG
559631 TGTATCGATACAAATAGTAAA
1 TGTATCGATACAAA-AGTAAA
*
559652 TGTATCGAGAC--AAGTAAA
1 TGTATCGATACAAAAGTAAA
559670 TGTATCGATACAAAA
1 TGTATCGATACAAAA
559685 CCACCCTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
18 16 0.55
19 1 0.03
20 2 0.07
21 10 0.34
ACGTcount: A:0.46, C:0.11, G:0.17, T:0.26
Consensus pattern (20 bp):
TGTATCGATACAAAAGTAAA
Found at i:559732 original size:20 final size:19
Alignment explanation
Indices: 559709--559763 Score: 56
Period size: 22 Copynumber: 2.7 Consensus size: 19
559699 GCTAAGAAAA
559709 TGTATCGATACATAAGTAAT
1 TGTATCGATACATAA-TAAT
* *
559729 TGTATTGATACATGCTTATAAT
1 TGTATCGATACA---TAATAAT
559751 TGTATCGATACAT
1 TGTATCGATACAT
559764 TCTAGGTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
19 1 0.03
20 11 0.38
22 15 0.52
23 2 0.07
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.40
Consensus pattern (19 bp):
TGTATCGATACATAATAAT
Found at i:562515 original size:158 final size:157
Alignment explanation
Indices: 562141--562609 Score: 598
Period size: 158 Copynumber: 3.0 Consensus size: 157
562131 AAATAATTTA
* * * * **
562141 TTAATTTTTTTTCCAAAATATGATTTTCTTCACCATCAGGGATACTCTAACCCCGTTATTTCTGA
1 TTAATTTTATTTCCAAAATATCAATTT-TTCACCATCGGGGATACTCTAACCCCGTTATTTCCAA
*
562206 GGGGATATTCCAACCCCGGTTTTATTTCTAAAATATCAAATTTTCACCATC-GGGATACTCCAAC
65 GGGGATACTCCAACCCCGGTTTTATTTCTAAAATATCAAATTTTCACCATCGGGGATACTCCAA-
*** * *
562270 CCCATTATTTCCAAGGAGATACTCTAACC
129 CCCATTATTTTTGAGGGGATACTCCAACC
** * * * * * * *
562299 CCAATTTTATTTCTAAACTATCGATCTTCCACTATCGGGGATACTCCAACCCCGTTATTTCCAAG
1 TTAATTTTATTTCCAAAATATCAATTTTTCACCATCGGGGATACTCTAACCCCGTTATTTCCAAG
* * * *
562364 GGGATACTCCGACCCTGGTTTTATTTTTAAAATATCAAATTTTCACCATCGGGGATGCTCCAACC
66 GGGATACTCCAACCCCGGTTTTATTTCTAAAATATCAAATTTTCACCATCGGGGATACTCCAACC
*
562429 TTATTATTTTTGAGGGGATACTCCAACC
131 -CATTATTTTTGAGGGGATACTCCAACC
*
562457 TTAATTTTATTTCCAAAATATCAATTTTTCACCATCGGGGATACTCTAACCCCATTATTTCCAAG
1 TTAATTTTATTTCCAAAATATCAATTTTTCACCATCGGGGATACTCTAACCCCGTTATTTCCAAG
* * * *
562522 GGGATACTCCAACCCCAGTTTTATTTCCAAAATATCAATTTTTCACCATCGAGGATACTCCAAAC
66 GGGATACTCCAACCCCGGTTTTATTTCTAAAATATCAAATTTTCACCATCGGGGATACTCC-AAC
* *
562587 CCGTTGTTTTTGAGGGGATACTC
130 CCATTATTTTTGAGGGGATACTC
562610 TAATCTTGTT
Statistics
Matches: 261, Mismatches: 47, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
157 80 0.31
158 177 0.68
159 4 0.02
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.35
Consensus pattern (157 bp):
TTAATTTTATTTCCAAAATATCAATTTTTCACCATCGGGGATACTCTAACCCCGTTATTTCCAAG
GGGATACTCCAACCCCGGTTTTATTTCTAAAATATCAAATTTTCACCATCGGGGATACTCCAACC
CATTATTTTTGAGGGGATACTCCAACC
Found at i:562580 original size:237 final size:236
Alignment explanation
Indices: 562169--562609 Score: 603
Period size: 237 Copynumber: 1.9 Consensus size: 236
562159 TATGATTTTC
* * * **
562169 TTCACCATCAGGGATACTCTAACCCCGTTATTTCTGAGGGGATATTCCAACCCCGGTTTTATTTC
1 TTCACCATCAGGGATACTCCAACCCCATTATTTCTGAGGGGATACTCCAACCCCAATTTTATTTC
* *
562234 TAAAATATCAAATTTTCACCATCGGGATACTCCAACCCCATTATTTCCAAGGAGATACTCTAACC
66 CAAAATATCAAATTTTCACCATCGGGATACTCCAACCCCATTATTTCCAAGGAGATACTCCAACC
* * * * * *
562299 CCAATTTTATTTCTAAACTATCGATCTTCCACTATCGGGGATACTCCAACCCCGTTATTTCCAAG
131 CCAATTTTATTTCCAAAATATCAATCTTCCACCATCGAGGATACTCCAAACCCGTTATTTCCAAG
562364 GGGATACTCCGACCCTGGTTTTATTTTTAAAATATCAAATT
196 GGGATACTCCGACCCTGGTTTTATTTTTAAAATATCAAATT
* * ** * **
562405 TTCACCATCGGGGATGCTCCAACCTTATTATTTTTGAGGGGATACTCCAACCTTAATTTTATTTC
1 TTCACCATCAGGGATACTCCAACCCCATTATTTCTGAGGGGATACTCCAACCCCAATTTTATTTC
* * *
562470 CAAAATATCAATTTTTCACCATCGGGGATACTCTAACCCCATTATTTCCAAGGGGATACTCCAAC
66 CAAAATATCAAATTTTCACCATC-GGGATACTCCAACCCCATTATTTCCAAGGAGATACTCCAAC
* * * * ***
562535 CCCAGTTTTATTTCCAAAATATCAATTTTTCACCATCGAGGATACTCCAAACCCGTTGTTTTTGA
130 CCCAATTTTATTTCCAAAATATCAATCTTCCACCATCGAGGATACTCCAAACCCGTTATTTCCAA
562600 GGGGATACTC
195 GGGGATACTC
562610 TAATCTTGTT
Statistics
Matches: 174, Mismatches: 30, Indels: 1
0.85 0.15 0.00
Matches are distributed among these distances:
236 74 0.43
237 100 0.57
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (236 bp):
TTCACCATCAGGGATACTCCAACCCCATTATTTCTGAGGGGATACTCCAACCCCAATTTTATTTC
CAAAATATCAAATTTTCACCATCGGGATACTCCAACCCCATTATTTCCAAGGAGATACTCCAACC
CCAATTTTATTTCCAAAATATCAATCTTCCACCATCGAGGATACTCCAAACCCGTTATTTCCAAG
GGGATACTCCGACCCTGGTTTTATTTTTAAAATATCAAATT
Found at i:562609 original size:79 final size:79
Alignment explanation
Indices: 562145--562584 Score: 513
Period size: 79 Copynumber: 5.6 Consensus size: 79
562135 AATTTATTAA
* * * * * * **
562145 TTTTTTTTCCAAAATATGATTTTCTTCACCATCAGGGATACTCTAACCCCGTTATTTCTGAGGGG
1 TTTTATTTCCAAAATATCAATTT-TTCACCATCGGGGATACTCCAACCCCATTATTTCCAAGGGG
* *
562210 ATATTCCAACCCCGG
65 ATACTCCAACCCCAG
* * *
562225 TTTTATTTCTAAAATATCAAATTTTCACCATC-GGGATACTCCAACCCCATTATTTCCAAGGAGA
1 TTTTATTTCCAAAATATCAATTTTTCACCATCGGGGATACTCCAACCCCATTATTTCCAAGGGGA
* *
562289 TACTCTAACCCCAA
66 TACTCCAACCCCAG
* * * * * * *
562303 TTTTATTTCTAAACTATCGATCTTCCACTATCGGGGATACTCCAACCCCGTTATTTCCAAGGGGA
1 TTTTATTTCCAAAATATCAATTTTTCACCATCGGGGATACTCCAACCCCATTATTTCCAAGGGGA
* **
562368 TACTCCGACCCTGG
66 TACTCCAACCCCAG
** * * ** ***
562382 TTTTATTTTTAAAATATCAAATTTTCACCATCGGGGATGCTCCAACCTTATTATTTTTGAGGGGA
1 TTTTATTTCCAAAATATCAATTTTTCACCATCGGGGATACTCCAACCCCATTATTTCCAAGGGGA
** *
562447 TACTCCAACCTTAA
66 TACTCCAACCCCAG
*
562461 TTTTATTTCCAAAATATCAATTTTTCACCATCGGGGATACTCTAACCCCATTATTTCCAAGGGGA
1 TTTTATTTCCAAAATATCAATTTTTCACCATCGGGGATACTCCAACCCCATTATTTCCAAGGGGA
562526 TACTCCAACCCCAG
66 TACTCCAACCCCAG
*
562540 TTTTATTTCCAAAATATCAATTTTTCACCATCGAGGATACTCCAA
1 TTTTATTTCCAAAATATCAATTTTTCACCATCGGGGATACTCCAA
562585 ACCCGTTGTT
Statistics
Matches: 299, Mismatches: 60, Indels: 3
0.83 0.17 0.01
Matches are distributed among these distances:
78 63 0.21
79 218 0.73
80 18 0.06
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (79 bp):
TTTTATTTCCAAAATATCAATTTTTCACCATCGGGGATACTCCAACCCCATTATTTCCAAGGGGA
TACTCCAACCCCAG
Found at i:562630 original size:79 final size:78
Alignment explanation
Indices: 562145--562633 Score: 406
Period size: 79 Copynumber: 6.2 Consensus size: 78
562135 AATTTATTAA
* * * * * * * *
562145 TTTTTTTTCCAAAATATGATTTTCTTCACCATCAGGGATACTCTAACCCCGTTATTTCTGAGGGG
1 TTTTATTTCCAAAATATCAATTT-TTCACCATCGGGGATACTCCAAACCCATTATTTTTGAGGGG
* **
562210 ATATTCCAACCCCGG
65 ATACTCCAA-CCTTG
* * * *** *
562225 TTTTATTTCTAAAATATCAAATTTTCACCATC-GGGATACTCCAACCCCATTATTTCCAAGGAGA
1 TTTTATTTCCAAAATATCAATTTTTCACCATCGGGGATACTCCAAACCCATTATTTTTGAGGGGA
* ***
562289 TACTCTAACCCCAA
66 TACTCCAA-CCTTG
* * * * * * * * ***
562303 TTTTATTTCTAAACTATCGATCTTCCACTATCGGGGATACTCCAACCCCGTTATTTCCAAGGGGA
1 TTTTATTTCCAAAATATCAATTTTTCACCATCGGGGATACTCCAAACCCATTATTTTTGAGGGGA
* *
562368 TACTCCGACCCTGG
66 TACTCC-AACCTTG
** * * *
562382 TTTTATTTTTAAAATATCAAATTTTCACCATCGGGGATGCTCC-AACCTTATTATTTTTGAGGGG
1 TTTTATTTCCAAAATATCAATTTTTCACCATCGGGGATACTCCAAACC-CATTATTTTTGAGGGG
*
562446 ATACTCCAACCTTAA
65 ATACTCCAACCTT-G
* * ***
562461 TTTTATTTCCAAAATATCAATTTTTCACCATCGGGGATACTCTAACCCCATTATTTCCAAGGGGA
1 TTTTATTTCCAAAATATCAATTTTTCACCATCGGGGATACTCCAAACCCATTATTTTTGAGGGGA
**
562526 TACTCCAACCCCAG
66 TACTCCAA-CCTTG
* * *
562540 TTTTATTTCCAAAATATCAATTTTTCACCATCGAGGATACTCCAAACCCGTTGTTTTTGAGGGGA
1 TTTTATTTCCAAAATATCAATTTTTCACCATCGGGGATACTCCAAACCCATTATTTTTGAGGGGA
* *
562605 TACTCTAATCTTG
66 TACTCCAACCTTG
*
562618 TTTTCATCTCCAAAAT
1 TTTT-ATTTCCAAAAT
562634 GTTAAATTTT
Statistics
Matches: 332, Mismatches: 70, Indels: 15
0.80 0.17 0.04
Matches are distributed among these distances:
78 76 0.23
79 232 0.70
80 24 0.07
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (78 bp):
TTTTATTTCCAAAATATCAATTTTTCACCATCGGGGATACTCCAAACCCATTATTTTTGAGGGGA
TACTCCAACCTTG
Found at i:565295 original size:164 final size:162
Alignment explanation
Indices: 564800--565371 Score: 529
Period size: 164 Copynumber: 3.5 Consensus size: 162
564790 TAAAAACCCG
** * * * * * *
564800 AAAAGATATAAAAAGTTGTTGAAACCTTTTATACCCCTACGGACCCTCGTAGGTATATAAAAGAT
1 AAAAGATACGAAAAGTTTTTGAAATCTTTTATACCCCTAAGGACCCCCATAGGAATATAAAAGAT
* * ** * * * * *
564865 TAAAAAAAGGTGATTAGAGTTTGT-CT-TGA-TTAAGAAATTGTTAATTTACTTTAATTTGTTT-
66 T-AAAAAA--T-ATAATA-TTT-TCCTCACAGTTATGAAAGTATTAATTTAATTTAATTTATTTA
* ** * * * *
564926 TATTTC-AAAAATATCATTTCGTATCTTAATAGAAGTCTA
125 T-TTTCGAAAAATACCATTTCACACCTTAATGGAA-ACCA
*
564965 AAAAGATACGAAAAGTTTTTGAAATCTTTTATACCCCTTAAGGACCCTCATAGGAATATAAAAGA
1 AAAAGATACGAAAAGTTTTTGAAATCTTTTATACCCC-TAAGGACCCCCATAGGAATATAAAAGA
* *
565030 -TAAAAAAT-TAA-A-GTTCCTCACAGTTATGAAAGTATTAATTTAATTTAATTTATTTGTTTTC
65 TTAAAAAATATAATATTTTCCTCACAGTTATGAAAGTATTAATTTAATTTAATTTATTTATTTTC
*
565091 GAAAAATACCTTTTCACACCTTAATGGAAACCA
130 GAAAAATACCATTTCACACCTTAATGGAAACCA
* *
565124 GAAAAGATACGAAAAATTTTTGAAATCTTTTATACCCCTACGGACCCCCATAGGAATATAAAAGA
1 -AAAAGATACGAAAAGTTTTTGAAATCTTTTATACCCCTAAGGACCCCCATAGGAATATAAAAGA
** * * *
565189 TTACAAAAATAACTAATATTTTTTTCA-A-TTATGAAAGTGTTGATTTAATTTTATTTATTTATT
65 TTA-AAAAAT-A-TAATATTTTCCTCACAGTTATGAAAGTATTAATTTAATTTAATTTATTTATT
* * * **
565252 TTTGAATAGTACCATTTCGGACCTTAATGGAAACCCA
127 TTCGAAAAATACCATTTCACACCTTAATGGAAA-CCA
* *
565289 AAAAGATACGAAAAGTTTTTGAAATCTTTTATACCCCTATA-GATCCCTATAGGAATATAAAAGA
1 AAAAGATACGAAAAGTTTTTGAAATCTTTTATACCCCTA-AGGACCCCCATAGGAATATAAAAGA
565353 TTAAAAAATGATTAATATT
65 TTAAAAAAT-A-TAATATT
565372 GAAATATCTT
Statistics
Matches: 345, Mismatches: 46, Indels: 34
0.81 0.11 0.08
Matches are distributed among these distances:
156 1 0.00
157 3 0.01
158 1 0.00
159 59 0.17
160 63 0.18
161 6 0.02
162 1 0.00
163 14 0.04
164 129 0.37
165 39 0.11
166 29 0.08
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (162 bp):
AAAAGATACGAAAAGTTTTTGAAATCTTTTATACCCCTAAGGACCCCCATAGGAATATAAAAGAT
TAAAAAATATAATATTTTCCTCACAGTTATGAAAGTATTAATTTAATTTAATTTATTTATTTTCG
AAAAATACCATTTCACACCTTAATGGAAACCA
Found at i:565848 original size:12 final size:12
Alignment explanation
Indices: 565831--565855 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
565821 ATGGATCATG
565831 AAGGCTAAATCA
1 AAGGCTAAATCA
565843 AAGGCTAAATCA
1 AAGGCTAAATCA
565855 A
1 A
565856 GCATGCAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (12 bp):
AAGGCTAAATCA
Found at i:574741 original size:21 final size:21
Alignment explanation
Indices: 574708--574748 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
574698 CTAAGTAAAA
574708 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
574729 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
574749 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:574813 original size:20 final size:20
Alignment explanation
Indices: 574788--574858 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
574778 ACCCTGAAAA
574788 GTATCGATACACATTTAAAT
1 GTATCGATACACATTTAAAT
* *
574808 GTATCGATACAGATTGTATA-
1 GTATCGATACACATT-TAAAT
**
574828 GTATCGATACACA-CAAATAT
1 GTATCGATACACATTTAA-AT
574848 GTATCGATACA
1 GTATCGATACA
574859 GGACATTGGC
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
18 1 0.02
19 1 0.02
20 37 0.88
21 3 0.07
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.31
Consensus pattern (20 bp):
GTATCGATACACATTTAAAT
Found at i:574911 original size:53 final size:53
Alignment explanation
Indices: 574828--574964 Score: 247
Period size: 53 Copynumber: 2.6 Consensus size: 53
574818 AGATTGTATA
574828 GTATCGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
574882 GTATCGATACACACAATATGTATCGATACAGGTCATTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
574935 GTATCGATACACAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
574965 TTGAAAGTAG
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
53 67 0.83
54 14 0.17
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
Found at i:575038 original size:21 final size:21
Alignment explanation
Indices: 575014--575055 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
575004 TTCATAACTG
575014 TTCATGTATCGATACATCACT
1 TTCATGTATCGATACATCACT
575035 TTCATGTATCGATACATCACT
1 TTCATGTATCGATACATCACT
575056 ATTTATAGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.38
Consensus pattern (21 bp):
TTCATGTATCGATACATCACT
Found at i:575169 original size:13 final size:13
Alignment explanation
Indices: 575151--575176 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
575141 ACATATTTGT
575151 GTGTATCGATACA
1 GTGTATCGATACA
575164 GTGTATCGATACA
1 GTGTATCGATACA
575177 TCATAAATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
GTGTATCGATACA
Found at i:575709 original size:34 final size:35
Alignment explanation
Indices: 575646--575712 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
575636 CTAAGTGATT
575646 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
575682 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
575713 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:578903 original size:13 final size:13
Alignment explanation
Indices: 578885--578909 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
578875 TTTTCCAGAT
578885 TGTATCGATACAA
1 TGTATCGATACAA
578898 TGTATCGATACA
1 TGTATCGATACA
578910 TTGCTTCAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:580589 original size:21 final size:21
Alignment explanation
Indices: 580556--580596 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
580546 CTAAGTAAAA
580556 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
580577 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
580597 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:580661 original size:20 final size:19
Alignment explanation
Indices: 580636--580706 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
580626 ACCCTGAAAA
580636 GTATCGATACACATTTAAAT
1 GTATCGATACACA-TTAAAT
* **
580656 GTATCGATACAGATTGCAT
1 GTATCGATACACATTAAAT
**
580675 AGTATCGATACACACAAATAT
1 -GTATCGATACACATTAA-AT
580696 GTATCGATACA
1 GTATCGATACA
580707 GGACATTGAC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 4 0.10
20 35 0.85
21 2 0.05
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (19 bp):
GTATCGATACACATTAAAT
Found at i:580759 original size:53 final size:53
Alignment explanation
Indices: 580676--580812 Score: 238
Period size: 53 Copynumber: 2.6 Consensus size: 53
580666 AGATTGCATA
580676 GTATCGATACACACAAATATGTATCGATACAGGACATTGACAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAGGACATTGACAGTAGCCAAATTT
* *
580730 GTATCGATACACACAATATGTATCGATACAGGTCATTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGACATTGACAGTAGCCAAATTT
*
580783 GTATCGATACACAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
580813 TTGAAAGTAG
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
53 66 0.82
54 14 0.17
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAGGACATTGACAGTAGCCAAATTT
Found at i:580886 original size:21 final size:21
Alignment explanation
Indices: 580862--580903 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
580852 TTCATAACTG
580862 TTCATGTATCGATACATCACT
1 TTCATGTATCGATACATCACT
580883 TTCATGTATCGATACATCACT
1 TTCATGTATCGATACATCACT
580904 ATTTATAGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.38
Consensus pattern (21 bp):
TTCATGTATCGATACATCACT
Found at i:581017 original size:13 final size:13
Alignment explanation
Indices: 580999--581024 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
580989 ACATATTTGT
580999 GTGTATCGATACA
1 GTGTATCGATACA
581012 GTGTATCGATACA
1 GTGTATCGATACA
581025 TCATAAATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
GTGTATCGATACA
Found at i:581557 original size:34 final size:35
Alignment explanation
Indices: 581494--581560 Score: 93
Period size: 37 Copynumber: 1.9 Consensus size: 35
581484 CTAAGTGATT
581494 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
*
581530 GAGAGGTTTTTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
581561 TGTTGTAAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
34 8 0.28
36 9 0.31
37 12 0.41
ACGTcount: A:0.33, C:0.10, G:0.25, T:0.31
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:583336 original size:20 final size:20
Alignment explanation
Indices: 583294--583337 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
583284 CTACCACTGT
* * *
583294 TTGTATCAATGCATGGCATA
1 TTGTATCAATACATGACAAA
*
583314 TTGTATCAATACATGATAAA
1 TTGTATCAATACATGACAAA
583334 TTGT
1 TTGT
583338 GTTGTAAGGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (20 bp):
TTGTATCAATACATGACAAA
Found at i:583641 original size:21 final size:22
Alignment explanation
Indices: 583600--583642 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
583590 TACAAAATGT
* *
583600 TTTTCAAGCTATAAATCATATA
1 TTTTCAAGCTAAAAATAATATA
583622 TTTTCAAG-TAAAAATAATATA
1 TTTTCAAGCTAAAAATAATATA
583643 AAGTATCGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.47, C:0.09, G:0.05, T:0.40
Consensus pattern (22 bp):
TTTTCAAGCTAAAAATAATATA
Done.