Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold414
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: 2018024
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 13
Found at i:1510087 original size:13 final size:13
Alignment explanation
Indices: 1510069--1510093 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1510059 ACATTTGACT
1510069 ATGTATCGATACA
1 ATGTATCGATACA
1510082 ATGTATCGATAC
1 ATGTATCGATAC
1510094 TAAGTGAGTT
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):
ATGTATCGATACA
Found at i:1511001 original size:21 final size:23
Alignment explanation
Indices: 1510951--1511013 Score: 76
Period size: 25 Copynumber: 2.7 Consensus size: 23
1510941 CAATATGTAA
1510951 CTCCCCCTTAATAAAATTTATCT
1 CTCCCCCTTAATAAAATTTATCT
*
1510974 CTTTCCCCCTTAATAAGATTT-T-T
1 C--TCCCCCTTAATAAAATTTATCT
*
1510997 CTCCCCTTTAATAAAAT
1 CTCCCCCTTAATAAAAT
1511014 ATTTAATGCT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
21 14 0.40
23 3 0.09
24 1 0.03
25 17 0.49
ACGTcount: A:0.29, C:0.29, G:0.02, T:0.41
Consensus pattern (23 bp):
CTCCCCCTTAATAAAATTTATCT
Found at i:1512994 original size:13 final size:13
Alignment explanation
Indices: 1512976--1513012 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
1512966 ATAGTGCCCT
* *
1512976 TGTATCAATACAG
1 TGTATCGATACAA
1512989 TGTATCGATACAA
1 TGTATCGATACAA
1513002 TGTATCGATAC
1 TGTATCGATAC
1513013 TAAGAATGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1517979 original size:20 final size:20
Alignment explanation
Indices: 1517954--1518028 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 20
1517944 AAAAAGACAG
1517954 AATGTATCGATACATTGAAT
1 AATGTATCGATACATTGAAT
* *
1517974 AATGTATTGATACATT-CAT
1 AATGTATCGATACATTGAAT
* *
1517993 ACATGTATCGATGCATTGAAA
1 A-ATGTATCGATACATTGAAT
*
1518014 AATGTATCAATACAT
1 AATGTATCGATACAT
1518029 CTGGGTAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
19 3 0.07
20 40 0.89
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTGAAT
Found at i:1518076 original size:90 final size:91
Alignment explanation
Indices: 1517904--1518078 Score: 262
Period size: 90 Copynumber: 1.9 Consensus size: 91
1517894 TTTTAACTAG
* * * *
1517904 ATGTATCTATACATTGAAAAATGTATCGATATATCTGAGTAAAAAGACAGAATGTATCGATACAT
1 ATGTATCGATACATTGAAAAATGTATCAATACATCTGAGTAAAAAGACAGAATGTATCAATACAT
* * *
1517969 TGAATAATGTATTGATACATTCATAC
66 TAAAAAATGTATCGATACATTCATAC
* *
1517995 ATGTATCGATGCATTGAAAAATGTATCAATACATCTGGGT-AAAAGACAGAATGTATCAATACAT
1 ATGTATCGATACATTGAAAAATGTATCAATACATCTGAGTAAAAAGACAGAATGTATCAATACAT
1518059 TAAAAAATGTATCGATACAT
66 TAAAAAATGTATCGATACAT
1518079 CTAGGTAAAA
Statistics
Matches: 75, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
90 40 0.53
91 35 0.47
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.31
Consensus pattern (91 bp):
ATGTATCGATACATTGAAAAATGTATCAATACATCTGAGTAAAAAGACAGAATGTATCAATACAT
TAAAAAATGTATCGATACATTCATAC
Found at i:1524322 original size:51 final size:52
Alignment explanation
Indices: 1524238--1524365 Score: 222
Period size: 51 Copynumber: 2.5 Consensus size: 52
1524228 CGAAATATGA
* *
1524238 AAATTTACCTGCATGTATCGATATATTTAATAGTGTATCGATACATCT-GGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
*
1524289 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1524341 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1524366 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
51 45 0.62
52 28 0.38
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
Found at i:1524376 original size:52 final size:50
Alignment explanation
Indices: 1524238--1524385 Score: 208
Period size: 51 Copynumber: 2.9 Consensus size: 50
1524228 CGAAATATGA
* *
1524238 AAATTTACCTGCATGTATCGATATATTTAATAGTGTATCGATACATCTGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGC
*
1524289 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCT-GGC
*
1524341 AAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
1524386 ATGTATCGAT
Statistics
Matches: 89, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
51 47 0.53
52 42 0.47
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (50 bp):
AAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGC
Found at i:1524392 original size:13 final size:13
Alignment explanation
Indices: 1524374--1524398 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1524364 CAAAGATCAG
1524374 TGTATCGATACAA
1 TGTATCGATACAA
1524387 TGTATCGATACA
1 TGTATCGATACA
1524399 TTTGGGTAGC
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:1524465 original size:19 final size:18
Alignment explanation
Indices: 1524441--1524538 Score: 90
Period size: 19 Copynumber: 5.8 Consensus size: 18
1524431 TAGCTTACAT
1524441 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
1524460 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
1524473 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
1524492 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
1524505 TGTATCGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
1524525 TGTATCGATACAAA
1 TGTATCGATACAAA
1524539 TCGTTGAAAT
Statistics
Matches: 66, Mismatches: 0, Indels: 26
0.72 0.00 0.28
Matches are distributed among these distances:
13 22 0.33
14 2 0.03
16 4 0.06
18 1 0.02
19 24 0.36
20 13 0.20
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:1524477 original size:32 final size:32
Alignment explanation
Indices: 1524436--1524536 Score: 184
Period size: 32 Copynumber: 3.1 Consensus size: 32
1524426 GGCAGTAGCT
*
1524436 TACATTGTATCGATACAAAACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
1524468 TACATTGTATCGATACAACACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
1524500 TACATTGTATCGATACAACACTTTATGTATCGA
1 TACATTGTATCGATACAACAC-TTATGTATCGA
1524533 TACA
1 TACA
1524537 AATCGTTGAA
Statistics
Matches: 67, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
32 52 0.78
33 15 0.22
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.35
Consensus pattern (32 bp):
TACATTGTATCGATACAACACTTATGTATCGA
Found at i:1524478 original size:13 final size:13
Alignment explanation
Indices: 1524460--1524516 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
1524450 ACAAAACTTA
1524460 TGTATCGATACAT
1 TGTATCGATACAT
1524473 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
1524491 ATGTATCGATACAT
1 -TGTATCGATACAT
1524505 TGTATCGATACA
1 TGTATCGATACA
1524517 ACACTTTATG
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1525451 original size:67 final size:68
Alignment explanation
Indices: 1525329--1525455 Score: 184
Period size: 67 Copynumber: 1.9 Consensus size: 68
1525319 ATTGGGTTTT
* * *
1525329 AAAGATGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATG
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
1525394 AGA
66 AGA
* * * *
1525397 AAAG-TGATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGA
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGA
1525456 GAAAAAGGAT
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
67 48 0.92
68 4 0.08
ACGTcount: A:0.39, C:0.13, G:0.25, T:0.24
Consensus pattern (68 bp):
AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
AGA
Found at i:1525505 original size:55 final size:52
Alignment explanation
Indices: 1525405--1526008 Score: 385
Period size: 43 Copynumber: 12.7 Consensus size: 52
1525395 GAAAAGTGAT
* * * * * * **
1525405 AAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG-G-A
* *
1525459 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
1 AAAGG-TGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* *
1525512 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* *
1525555 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA---A
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * * *
1525604 GAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* *
1525647 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-GA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * * *
1525698 ATA--TGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * *
1525739 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAGTTAAAGAT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * * * *
1525789 -AAGGTGCCCATATGCTGATTCAAGGCCAACGATATTGGACTT-AA-AT---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * *
1525835 ----GTGACAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * *
1525881 -AAGGTGCCAATATG-TGATTCAAGGCCAGCGATATTGGAC-T-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* *
1525922 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
*
1525972 -AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTG
1526009 GGCTTAGAAG
Statistics
Matches: 455, Mismatches: 54, Indels: 87
0.76 0.09 0.15
Matches are distributed among these distances:
41 2 0.00
42 14 0.03
43 165 0.36
44 6 0.01
45 2 0.00
46 1 0.00
47 3 0.01
48 27 0.06
49 153 0.34
51 3 0.01
52 32 0.07
53 6 0.01
54 5 0.01
55 36 0.08
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (52 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
Found at i:1525573 original size:43 final size:43
Alignment explanation
Indices: 1525512--1526019 Score: 550
Period size: 43 Copynumber: 11.1 Consensus size: 43
1525502 TAAAGATGGA
1525512 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
1525555 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
*
1525598 AAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 -----A-AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
1525647 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
*
1525690 AAAGATGAATATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 AAAG--G----TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * *
1525739 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAGTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * *
1525782 AAAGATGAAGGTGCCCATATGCTGATTCAAGGCCAACGATATTGGACTT
1 ----A--AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * * *
1525831 AAATGTGACAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
*
1525874 AAAGATGAAGGTGCCAATATG-TGATTCAAGGCCAGCGATATTGGACTT
1 ----A--AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
1525922 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
*
1525965 AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTT
1 ----A--AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1526014 AGAAGG
1 A-AAGG
1526020 GTTGCCACCG
Statistics
Matches: 395, Mismatches: 39, Indels: 61
0.80 0.08 0.12
Matches are distributed among these distances:
42 13 0.03
43 178 0.45
44 7 0.02
45 3 0.01
47 4 0.01
48 26 0.07
49 164 0.42
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
Found at i:1525644 original size:92 final size:92
Alignment explanation
Indices: 1525459--1526019 Score: 953
Period size: 92 Copynumber: 6.1 Consensus size: 92
1525449 AAGATGAGAA
* *
1525459 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAAT
*
1525524 ATGCTGATTCAAGGCCAGCTATATTGGACTT
62 ATGCTGATTCAAGGCCAGCGATATTGGACTT
*
1525555 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1525620 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
**
1525647 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAATATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1525712 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
* *
1525739 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAGTTAAAGATGAAGGTGCCCATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
*
1525804 TGATTCAAGGCCAACGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
* *
1525831 AAATGTGACAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATG-
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1525895 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
1525922 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
* *
1525987 TGATTCAAGGCCAGCTATATTGGGCTT
66 TGATTCAAGGCCAGCGATATTGGACTT
1526014 AGAAGG
1 A-AAGG
1526020 GTTGCCACCG
Statistics
Matches: 442, Mismatches: 21, Indels: 7
0.94 0.04 0.01
Matches are distributed among these distances:
91 88 0.20
92 303 0.69
93 4 0.01
94 1 0.00
95 41 0.09
96 5 0.01
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
TGATTCAAGGCCAGCGATATTGGACTT
Found at i:1526058 original size:33 final size:32
Alignment explanation
Indices: 1526007--1526378 Score: 590
Period size: 33 Copynumber: 11.5 Consensus size: 32
1525997 CCAGCTATAT
*
1526007 TGGGC-TTAGA-AGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAGAAGGTTGCCACCGACTTGTG
*
1526037 TGGGCTTTAGAGAATGGTTGCCACCAACTTGTG
1 TGGGCTTTAGAGAA-GGTTGCCACCGACTTGTG
*
1526070 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAGAAGGTTGCCACCGACTTGTG
1526102 TGGGCTTT-GAGAAGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAGAA-GGTTGCCACCGACTTGTG
1526134 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
1 TGGGCTTTAG-AGAAGGTTGCCACCGACTTGTG
1526167 TGGGCTTT-GAGAAGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAGAA-GGTTGCCACCGACTTGTG
1526199 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
1 TGGGCTTTAG-AGAAGGTTGCCACCGACTTGTG
1526232 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
1 TGGGCTTTAG-AGAAGGTTGCCACCGACTTGTG
1526265 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
1 TGGGCTTTAG-AGAAGGTTGCCACCGACTTGTG
** *
1526298 TGGGCTTTAGAGGGGGTTGCCACCAACTTGTG
1 TGGGCTTTAGAGAAGGTTGCCACCGACTTGTG
1526330 TGGGCTTTAGAGAAGGTTTGCCACCGACTTGTG
1 TGGGCTTTAGAGAAGG-TTGCCACCGACTTGTG
1526363 TGGGCTTTAGAGAAGG
1 TGGGCTTTAGAGAAGG
1526379 GTGAAAGATG
Statistics
Matches: 321, Mismatches: 11, Indels: 17
0.92 0.03 0.05
Matches are distributed among these distances:
30 5 0.02
31 13 0.04
32 112 0.35
33 183 0.57
34 8 0.02
ACGTcount: A:0.19, C:0.18, G:0.35, T:0.28
Consensus pattern (32 bp):
TGGGCTTTAGAGAAGGTTGCCACCGACTTGTG
Found at i:1526093 original size:65 final size:66
Alignment explanation
Indices: 1526007--1526380 Score: 622
Period size: 65 Copynumber: 5.8 Consensus size: 66
1525997 CCAGCTATAT
* *
1526007 TGGGC-TTAGAAG--GGTTGCCACCGACTTGTGTGGGCTTTAGAGAATGGTTGCCACCAACTTGT
1 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGT
1526069 G
66 G
*
1526070 TGGGCTTTAG-AGAGGGTTGCCACCGACTTGTGTGGGCTTT-GAGAAGGGTTGCCACCGACTTGT
1 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGT
1526133 G
66 G
1526134 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTT-GAGAAGGGTTGCCACCGACTTGT
1 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGT
1526198 G
66 G
1526199 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAAGAA-GGTTGCCACCGACTTG
1 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAG-AGAAGGGTTGCCACCGACTTG
1526263 TG
65 TG
* *
1526265 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAG-GGGGTTGCCACCAACTTGT
1 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGT
1526329 G
66 G
1526330 TGGGCTTTAG-AGAAGGTTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGT
1 TGGGCTTTAGAAGAAGG-TTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGT
1526381 GAAAGATGCC
Statistics
Matches: 296, Mismatches: 6, Indels: 15
0.93 0.02 0.05
Matches are distributed among these distances:
63 7 0.02
64 42 0.14
65 177 0.60
66 66 0.22
67 4 0.01
ACGTcount: A:0.19, C:0.18, G:0.35, T:0.28
Consensus pattern (66 bp):
TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGT
G
Found at i:1526298 original size:131 final size:129
Alignment explanation
Indices: 1526007--1526378 Score: 619
Period size: 131 Copynumber: 2.9 Consensus size: 129
1525997 CCAGCTATAT
*
1526007 TGGGC-TTAGAAG--GGTTGCCACCGACTTGTGTGGGCTTTAGAGAATGGTTGCCACCAACTTGT
1 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTT-GAGAAGGGTTGCCACCAACTTGT
*
1526069 GTGGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTT-GAGAAGGGTTGCCACCGACTTGT
65 GTGGGCTTTAGAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGAA-GGTTGCCACCGACTTGT
1526133 G
129 G
*
1526134 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTGAGAAGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTGAGAAGGGTTGCCACCAACTTGTG
1526199 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAAGAAGGTTGCCACCGACTTGT
66 TGGGCTTTAG-AGAAGGTTGCCACCGACTTGTGTGGGCTTTAG-AGAAGGTTGCCACCGACTTGT
1526264 G
129 G
*
1526265 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTT-AGAGGGGGTTGCCACCAACTTGT
1 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTGAGA-AGGGTTGCCACCAACTTGT
1526329 GTGGGCTTTAGAGAAGGTTTGCCACCGACTTGTGTGGGCTTTAGAGAAGG
65 GTGGGCTTTAGAGAAGG-TTGCCACCGACTTGTGTGGGCTTTAGAGAAGG
1526379 GTGAAAGATG
Statistics
Matches: 232, Mismatches: 5, Indels: 13
0.93 0.02 0.05
Matches are distributed among these distances:
127 5 0.02
128 7 0.03
129 32 0.14
130 70 0.30
131 114 0.49
132 4 0.02
ACGTcount: A:0.19, C:0.18, G:0.35, T:0.28
Consensus pattern (129 bp):
TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTGAGAAGGGTTGCCACCAACTTGTG
TGGGCTTTAGAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGTTGCCACCGACTTGTG
Found at i:1526458 original size:31 final size:31
Alignment explanation
Indices: 1526422--1527121 Score: 503
Period size: 31 Copynumber: 21.7 Consensus size: 31
1526412 GGGAAAAAGA
*
1526422 GTGCCACGGAGTTGTGGGCTTTGAAAAGAAG
1 GTGCCACGGAGTTGTGGACTTTGAAAAGAAG
* ** *
1526453 GTGCCACGGAGTCGTGGACTTAAAAGGAACAAG
1 GTGCCACGGAGTTGTGGACTTTGAA--AAGAAG
1526486 GTGCCACGGAGTTGTGGACTTT-AAAAGGGAAAAAG
1 GTGCCACGGAGTTGTGGACTTTGAAAA--G---AAG
* *
1526521 AGTGCCACGGAGTTGGGGGCTTTGAAAAGAAG
1 -GTGCCACGGAGTTGTGGACTTTGAAAAGAAG
* ** *
1526553 GTGCCACGGAGTCGTGGACTTAAAAGGAACAAG
1 GTGCCACGGAGTTGTGGACTTTGAA--AAGAAG
1526586 GTGCCACGGAGTTGTGGACTTT-AAAAGGGAAAAAG
1 GTGCCACGGAGTTGTGGACTTTGAAAA--G---AAG
* *
1526621 AGTGCCACGGAGTCGTGGGCTTTGAAAAGAAG
1 -GTGCCACGGAGTTGTGGACTTTGAAAAGAAG
* *
1526653 GTGCCACGGAGTTGTGGACTTAGAAGGAAAAAG
1 GTGCCACGGAGTTGTGGACTTTGAA--AAGAAG
* * *
1526686 AGTGCCACGGAGTTGTGGGCTTTAAAAAGGAAAAAT
1 -GTGCCACGGAGTTGTGGACTTTGAAAA-G---AAG
* * * *
1526722 ATGCCACAGAGTTGTGGGCTTTGGAAAGAAG
1 GTGCCACGGAGTTGTGGACTTTGAAAAGAAG
*
1526753 GTGCCACGGAGTCGTGGACTTTGAAAAGAAG
1 GTGCCACGGAGTTGTGGACTTTGAAAAGAAG
* * *
1526784 GTGCCACAGAGTCGTGGACTTAAAAGGAAAA-AAG
1 GTGCCACGGAGTTGTGGACTT----TGAAAAGAAG
* *
1526818 AGTGCCACGGAGTTGTGGGC-TT-AAACG--G
1 -GTGCCACGGAGTTGTGGACTTTGAAAAGAAG
*
1526846 GTGCCACGGAGTTGTGGACTTAGAAGGAA-AA-
1 GTGCCACGGAGTTGTGGACTTTGAA--AAGAAG
* * *
1526877 GTGCCACGGAGTCGTGGGCTTTGAAATGAAG
1 GTGCCACGGAGTTGTGGACTTTGAAAAGAAG
* * *
1526908 GTGCCACGGAATTGTGGGCTTTAAAAAGGAAAAG
1 GTGCCACGGAGTTGTGGACTTTGAAAA-G--AAG
* * *
1526942 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAT
1 GTGCCACGGAGTTGTGGACTTTGAAAAG---AAG
*
1526976 GTGCCACGGAGTTGTGGGCTTTGAAGAAAGAA-
1 GTGCCACGGAGTTGTGGACTTTG-A-AAAGAAG
* *
1527008 -TGCCACTGAGTCGTGGACTTTGAGACAA-AA-
1 GTGCCACGGAGTTGTGGACTTTGA-A-AAGAAG
* * * *
1527038 -TGCCACTGAGTCGTGGACTTTAAAGAAAAAG
1 GTGCCACGGAGTTGTGGACTTTGAA-AAGAAG
1527069 GTGCCACGGAGTTGTAGG-CTTTGAAAAGAAG
1 GTGCCACGGAGTTGT-GGACTTTGAAAAGAAG
*
1527100 GTGCCACGGAGTCGTGGACTTT
1 GTGCCACGGAGTTGTGGACTTT
1527122 AAGAAGGTAT
Statistics
Matches: 547, Mismatches: 71, Indels: 102
0.76 0.10 0.14
Matches are distributed among these distances:
27 18 0.03
28 2 0.00
29 9 0.02
30 37 0.07
31 201 0.37
32 31 0.06
33 60 0.11
34 82 0.15
35 53 0.10
36 46 0.08
37 8 0.01
ACGTcount: A:0.31, C:0.14, G:0.34, T:0.20
Consensus pattern (31 bp):
GTGCCACGGAGTTGTGGACTTTGAAAAGAAG
Found at i:1526512 original size:100 final size:100
Alignment explanation
Indices: 1526395--1527096 Score: 797
Period size: 100 Copynumber: 7.2 Consensus size: 100
1526385 GATGCCATGA
*
1526395 AGTTGTGGACTTAAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCAC
1 AGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCAC
*
1526460 GGAGTCGTGGACTTAAAAGGAACAAGGTGCCACGG
66 GGAGTCGTGGACTTAAAAGGAAAAAGGTGCCACGG
*
1526495 AGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGGGGGCTTTGAAAAGAAGGTGCCAC
1 AGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCAC
*
1526560 GGAGTCGTGGACTTAAAAGGAACAAGGTGCCACGG
66 GGAGTCGTGGACTTAAAAGGAAAAAGGTGCCACGG
*
1526595 AGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTCGTGGGCTTTGAAAAGAAGGTGCCAC
1 AGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCAC
* *
1526660 GGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGG
66 GGAGTCGTGGACTTAAAAGGAAAAAG-GTGCCACGG
* * * * *
1526696 AGTTGTGGGCTTTAAAAAGGAAAAATA-TGCCACAGAGTTGTGGGCTTTGGAAAGAAGGTGCCAC
1 AGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCAC
** * *
1526760 GGAGTCGTGGACTTTGAA--AAGAAGGTGCCACAG
66 GGAGTCGTGGACTTAAAAGGAAAAAGGTGCCACGG
* * *
1526793 AGTCGTGGAC-TTAAAAGGAAAAAAGAGTGCCACGGAGTTGTGGGC-TT-AAACG--GGTGCCAC
1 AGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCAC
* *
1526853 GGAGTTGTGGACTTAGAAGG-AAAA-GTGCCACGG
66 GGAGTCGTGGACTTAAAAGGAAAAAGGTGCCACGG
* * * * * *
1526886 AGTCGTGGGCTTTGAAA-TG---AAG-GTGCCACGGAATTGTGGGCTTTAAAAAGGAAAAGGTGC
1 AGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA-G--AAGGTGC
* * * *
1526946 CACGGAGTTGTGGGCTTTAAAAAGAAAAATGTGCCACGG
63 CACGGAGTCGTGGAC-TTAAAAGGAAAAAGGTGCCACGG
* * * * * *
1526985 AGTTGTGGGCTTT-GAA--G--AAAGAATGCCACTGAGTCGTGGACTTTGAGACAA-AA--TGCC
1 AGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGA-A-AAGAAGGTGCC
* *
1527042 ACTGAGTCGTGGACTTTAAA-GAAAAAGGTGCCACGG
64 ACGGAGTCGTGGACTTAAAAGGAAAAAGGTGCCACGG
1527078 AGTTGTAGG-CTTTGAAAAG
1 AGTTGT-GGACTTT-AAAAG
1527097 AAGGTGCCAC
Statistics
Matches: 527, Mismatches: 52, Indels: 50
0.84 0.08 0.08
Matches are distributed among these distances:
89 18 0.03
90 5 0.01
91 3 0.01
92 1 0.00
93 66 0.13
94 15 0.03
95 20 0.04
96 34 0.06
97 42 0.08
98 14 0.03
99 39 0.07
100 235 0.45
101 35 0.07
ACGTcount: A:0.32, C:0.14, G:0.34, T:0.20
Consensus pattern (100 bp):
AGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCAC
GGAGTCGTGGACTTAAAAGGAAAAAGGTGCCACGG
Found at i:1526570 original size:67 final size:65
Alignment explanation
Indices: 1526422--1527121 Score: 416
Period size: 65 Copynumber: 10.9 Consensus size: 65
1526412 GGGAAAAAGA
* * * ** *
1526422 GTGCCACGGAGTTGTGGGCTTTGAAAA-G---AAGGTGCCACGGAGTCGTGGACTTAAAAGGAAC
1 GTGCCACGGAGTCGTGGACTTT-AAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTTGAA--AAG
1526483 AAG
63 AAG
* * *
1526486 GTGCCACGGAGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGGGGGCTTTGAAAAGA
1 GTGCCACGGAGTCGTGGACTTTAAAA-GGAAAAAG-GTGCCACGGAGTTGTGGACTTTGAAAAGA
1526551 AG
64 AG
*
1526553 GTGCCACGGAGTCGTGGAC-TTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTT-AAAAGGGA
1 GTGCCACGGAGTCGTGGACTTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTTGAAAA--G-
1526616 AAAAG
63 --AAG
* *
1526621 AGTGCCACGGAGTCGTGGGCTTTGAAAA-G---AAGGTGCCACGGAGTTGTGGACTTAGAAGGAA
1 -GTGCCACGGAGTCGTGGACTTT-AAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTTGAA--AA
*
1526682 AAAG
62 GAAG
* * ** * * *
1526686 AGTGCCACGGAGTTGTGGGCTTTAAAAAGGAAAAATATGCCACAGAGTTGTGGGCTTTGGAAAGA
1 -GTGCCACGGAGTCGTGGACTTT-AAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAGA
1526751 AG
64 AG
* * *
1526753 GTGCCACGGAGTCGTGGACTTTGAAAA-G---AAGGTGCCACAGAGTCGTGGACTTAAAAGGAAA
1 GTGCCACGGAGTCGTGGACTTT-AAAAGGAAAAAGGTGCCACGGAGTTGTGGACTT----TGAAA
1526814 A-AAG
61 AGAAG
* * * *
1526818 AGTGCCACGGAGTTGTGGGC-TT-AAACG-----GGTGCCACGGAGTTGTGGACTTAGAAGGAA-
1 -GTGCCACGGAGTCGTGGACTTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTTGAA--AAG
1526875 AA-
63 AAG
* * * * * *
1526877 GTGCCACGGAGTCGTGGGCTTTGAAATG---AAGGTGCCACGGAATTGTGGGCTTTAAAAAGGAA
1 GTGCCACGGAGTCGTGGACTTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTTGAAAA-G--
1526939 AAG
63 AAG
* * * * *
1526942 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAATGTGCCACGGAGTTGTGGGCTTTGAAGAAAGA
1 GTGCCACGGAGTCGTGGACTTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTTG-A-AAAGA
1527007 A-
64 AG
* * * * * *
1527008 -TGCCACTGAGTCGTGGACTTT--GA-GACAAAA--TGCCACTGAGTCGTGGACTTTAAAGAAAA
1 GTGCCACGGAGTCGTGGACTTTAAAAGGA-AAAAGGTGCCACGGAGTTGTGGACTTTGAA-AAGA
1527067 AG
64 AG
* *
1527069 GTGCCACGGAGTTGTAGG-CTTTGAAAA-G---AAGGTGCCACGGAGTCGTGGACTTT
1 GTGCCACGGAGTCGT-GGACTTT-AAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTT
1527122 AAGAAGGTAT
Statistics
Matches: 521, Mismatches: 62, Indels: 107
0.76 0.09 0.16
Matches are distributed among these distances:
58 21 0.04
59 3 0.01
60 15 0.03
61 20 0.04
62 80 0.15
63 38 0.07
64 44 0.08
65 89 0.17
66 52 0.10
67 54 0.10
68 31 0.06
69 62 0.12
70 8 0.02
71 4 0.01
ACGTcount: A:0.31, C:0.14, G:0.34, T:0.20
Consensus pattern (65 bp):
GTGCCACGGAGTCGTGGACTTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAGAAG
Found at i:1527249 original size:8 final size:8
Alignment explanation
Indices: 1527226--1527271 Score: 65
Period size: 8 Copynumber: 5.6 Consensus size: 8
1527216 GATGCAAATA
*
1527226 ATGATGTT
1 ATGATGTC
*
1527234 ATTGATGTT
1 A-TGATGTC
1527243 ATGATGTC
1 ATGATGTC
1527251 ATGATGTC
1 ATGATGTC
1527259 ATGATGTC
1 ATGATGTC
1527267 ATGAT
1 ATGAT
1527272 TACAGCACAA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
8 28 0.78
9 8 0.22
ACGTcount: A:0.26, C:0.07, G:0.24, T:0.43
Consensus pattern (8 bp):
ATGATGTC
Found at i:1528092 original size:1 final size:1
Alignment explanation
Indices: 1528088--1528148 Score: 50
Period size: 1 Copynumber: 61.0 Consensus size: 1
1528078 GTTTTTCCCC
* * * * * * * *
1528088 TTTTTTTTGTTTTTTTGTTTTTTTTCTTTGTTTTTTTTCTTTTTTGTTTTGTTTCTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1528149 GGAAAAGAAC
Statistics
Matches: 44, Mismatches: 16, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.00, C:0.05, G:0.08, T:0.87
Consensus pattern (1 bp):
T
Found at i:1528110 original size:16 final size:15
Alignment explanation
Indices: 1528088--1528149 Score: 63
Period size: 16 Copynumber: 4.0 Consensus size: 15
1528078 GTTTTTCCCC
1528088 TTTTTTTTGTTTTTT-
1 TTTTTTTT-TTTTTTG
* *
1528103 TGTTTTTTTTCTTTG
1 TTTTTTTTTTTTTTG
1528118 TTTTTTTTCTTTTTTG
1 TTTTTTTT-TTTTTTG
*
1528134 TTTTGTTTCTTTTTTG
1 TTTT-TTTTTTTTTTG
1528150 GAAAAGAACA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
14 5 0.13
15 14 0.36
16 17 0.44
17 3 0.08
ACGTcount: A:0.00, C:0.05, G:0.10, T:0.85
Consensus pattern (15 bp):
TTTTTTTTTTTTTTG
Found at i:1528112 original size:21 final size:21
Alignment explanation
Indices: 1528088--1528147 Score: 77
Period size: 21 Copynumber: 2.8 Consensus size: 21
1528078 GTTTTTCCCC
1528088 TTTTTTTTGTTTTTTTGT-TTT
1 TTTTTTTTGTTTTTTT-TCTTT
*
1528109 TTTTCTTTGTTTTTTTTCTTT
1 TTTTTTTTGTTTTTTTTCTTT
*
1528130 TTTGTTTTGTTTCTTTTT
1 TTTTTTTTGTTT-TTTTT
1528148 TGGAAAAGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 1 0.03
21 28 0.82
22 5 0.15
ACGTcount: A:0.00, C:0.05, G:0.08, T:0.87
Consensus pattern (21 bp):
TTTTTTTTGTTTTTTTTCTTT
Found at i:1528121 original size:29 final size:29
Alignment explanation
Indices: 1528088--1528145 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
1528078 GTTTTTCCCC
* *
1528088 TTTTTTTTGTTTTTTTGTTTTTTTTCTTTG
1 TTTTTTTT-CTTTTTTGTTTTGTTTCTTTG
1528118 TTTTTTTTCTTTTTTGTTTTGTTTCTTT
1 TTTTTTTTCTTTTTTGTTTTGTTTCTTT
1528146 TTTGGAAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 18 0.69
30 8 0.31
ACGTcount: A:0.00, C:0.05, G:0.09, T:0.86
Consensus pattern (29 bp):
TTTTTTTTCTTTTTTGTTTTGTTTCTTTG
Found at i:1530088 original size:79 final size:79
Alignment explanation
Indices: 1529919--1530229 Score: 319
Period size: 79 Copynumber: 3.9 Consensus size: 79
1529909 TGGAGATAAC
* ** * * *
1529919 AACGGGGCTAGAGTATCCCCGATTATG-GAAAATCGGTGTTCTAGAAATAAAAAAATCGGGGTTG
1 AACGGGGTTAGAGTATCCTTGATTATGAG-AAATCGGTATTTTAGAAAT---AAAATCGAGGTTG
*
1529983 GAGAATCCCCTCGAAAAT
62 GAGTATCCCCTCGAAAAT
*
1530001 AACAGGGTTAGAGTATCCTTGATTAT-AGAAAATCGGTATTTT-GAACATAAAATCGAGGTTGGA
1 AACGGGGTTAGAGTATCCTTGATTATGAG-AAATCGGTATTTTAGAA-ATAAAATCGAGGTTGGA
1530064 GTAT-CCCTGCGAAAAT
64 GTATCCCCT-CGAAAAT
* * ** ** * *
1530080 AATGGGGTTCGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAGTCGGGGTTGGAGT
1 AACGGGGTTAGAGTATCCTTGATTATGAGAAATCGGTATTTTAGAAATAAAATCGAGGTTGGAGT
1530145 ATCCCCTC-AGAAAT
66 ATCCCCTCGA-AAAT
* * * *
1530159 AACGGGGTTAGAGTATCCTTGATTGTGAGAAATTGGTGTTTTGGAAATAAAATC-AGAGTTGGAG
1 AACGGGGTTAGAGTATCCTTGATTATGAGAAATCGGTATTTTAGAAATAAAATCGAG-GTTGGAG
1530223 TATCCCC
65 TATCCCC
1530230 GATTGTAAAA
Statistics
Matches: 192, Mismatches: 29, Indels: 19
0.80 0.12 0.08
Matches are distributed among these distances:
78 6 0.03
79 137 0.71
80 9 0.05
81 3 0.02
82 37 0.19
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.27
Consensus pattern (79 bp):
AACGGGGTTAGAGTATCCTTGATTATGAGAAATCGGTATTTTAGAAATAAAATCGAGGTTGGAGT
ATCCCCTCGAAAAT
Found at i:1530220 original size:158 final size:159
Alignment explanation
Indices: 1529929--1530228 Score: 405
Period size: 158 Copynumber: 1.9 Consensus size: 159
1529919 AACGGGGCTA
** *
1529929 GAGTATCCCCGATTATGGAAAATCGGTGTTCTAGAAATAAAAAAATCGGGGTTGGAGAATCCCCT
1 GAGTATCCCCGATTATGGAAAATCAATATTCTAGAAAT--AAAAATCGGGGTTGGAGAATCCCCT
1529994 CGAAAATAACAGGGTTAGAGTATCCTTGATTATAGAAAATCGGTATTTTGAACATAAAATCGAGG
64 CGAAAATAACAGGGTTAGAGTATCCTTGATTATAGAAAATCGGTATTTTGAACATAAAATCGAGG
1530059 TTGGAGTATCCCTGCGAAAATAATGGGGTTC
129 TTGGAGTATCCCTGCGAAAATAATGGGGTTC
* * *
1530090 GAGTATCCCCGATTAT-GAGAAATCAATATTTTAGAAAT-AAAGTCGGGGTTGGAGTATCCCCTC
1 GAGTATCCCCGATTATGGA-AAATCAATATTCTAGAAATAAAAATCGGGGTTGGAGAATCCCCTC
* * * *
1530153 -AGAAATAACGGGGTTAGAGTATCCTTGATTGT-GAGAAATTGGTGTTTTGGAA-ATAAAATC-A
65 GA-AAATAACAGGGTTAGAGTATCCTTGATTATAGA-AAATCGGTATTTT-GAACATAAAATCGA
1530214 GAGTTGGAGTATCCC
127 G-GTTGGAGTATCCC
1530229 CGATTGTAAA
Statistics
Matches: 124, Mismatches: 10, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
157 5 0.04
158 83 0.67
159 3 0.02
160 2 0.02
161 31 0.25
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.28
Consensus pattern (159 bp):
GAGTATCCCCGATTATGGAAAATCAATATTCTAGAAATAAAAATCGGGGTTGGAGAATCCCCTCG
AAAATAACAGGGTTAGAGTATCCTTGATTATAGAAAATCGGTATTTTGAACATAAAATCGAGGTT
GGAGTATCCCTGCGAAAATAATGGGGTTC
Found at i:1530227 original size:51 final size:51
Alignment explanation
Indices: 1530164--1530280 Score: 148
Period size: 51 Copynumber: 2.3 Consensus size: 51
1530154 GAAATAACGG
* ** * * *
1530164 GGTTAGAGTATCCTTGATTGTGAGAAA-TTGGTGTTTTGGAAATAAAATC-A
1 GGTTGGAGTATCCCCGATTGT-AAAAATTTGGTATTTTAGAAATAAAATCGA
1530214 GAGTTGGAGTATCCCCGATTGTAAAAATTTGGTATTTTAGAAATAAAATCGA
1 G-GTTGGAGTATCCCCGATTGTAAAAATTTGGTATTTTAGAAATAAAATCGA
1530266 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
1530281 CGAAAATAAC
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
50 5 0.09
51 51 0.88
52 2 0.03
ACGTcount: A:0.32, C:0.10, G:0.25, T:0.33
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTGTAAAAATTTGGTATTTTAGAAATAAAATCGA
Found at i:1530329 original size:28 final size:27
Alignment explanation
Indices: 1530263--1530338 Score: 93
Period size: 28 Copynumber: 2.8 Consensus size: 27
1530253 GAAATAAAAT
1530263 CGAGGTTGGAGTATCCCCCGA-AAATAA
1 CGAGGTTGGAGTAT-CCCCGATAAATAA
*
1530290 C-AGGATTAGAGTATCCCCGATGAAATAA
1 CGAGG-TTGGAGTATCCCCGAT-AAATAA
*
1530318 CGAGGTTGGAGTACCCCCGAT
1 CGAGGTTGGAGTATCCCCGAT
1530339 TATGAAAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
26 9 0.21
27 9 0.21
28 21 0.50
29 3 0.07
ACGTcount: A:0.32, C:0.22, G:0.26, T:0.20
Consensus pattern (27 bp):
CGAGGTTGGAGTATCCCCGATAAATAA
Found at i:1530412 original size:28 final size:28
Alignment explanation
Indices: 1530372--1530473 Score: 91
Period size: 28 Copynumber: 3.6 Consensus size: 28
1530362 GATATAAAGC
*
1530372 CGGGGTTGGAGTATCCCCTCGAAAATAA
1 CGGGGTTAGAGTATCCCCTCGAAAATAA
***
1530400 CGGGGTTAGAGTATCCCCGATAAAATAA
1 CGGGGTTAGAGTATCCCCTCGAAAATAA
* * * **
1530428 CAGGATTGGAACAT--CCTCGATGAAATAA
1 CGGGGTTAGAGTATCCCCTCGA--AAATAA
1530456 CGGGGTTAGAGTATCCCC
1 CGGGGTTAGAGTATCCCC
1530474 AATTGTGAAA
Statistics
Matches: 53, Mismatches: 17, Indels: 6
0.70 0.22 0.08
Matches are distributed among these distances:
26 3 0.06
28 48 0.91
30 2 0.04
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.22
Consensus pattern (28 bp):
CGGGGTTAGAGTATCCCCTCGAAAATAA
Found at i:1530573 original size:51 final size:51
Alignment explanation
Indices: 1530464--1530577 Score: 140
Period size: 51 Copynumber: 2.2 Consensus size: 51
1530454 AACGGGGTTA
* ** * *
1530464 GAGTATCCCCAATTGTGAAAAATTGGTGTTTTGGAAATAAAATCGGAGTTG
1 GAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAATAAAACCGGAGTTG
* * *
1530515 AAATATCCCCGATTAAGAAAAATTGATGTTTTGGAAATGAAACCGG-GATTG
1 GAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAATAAAACCGGAG-TTG
1530566 GAGTATCCCCGA
1 GAGTATCCCCGA
1530578 GATGAAAAAT
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
50 1 0.02
51 51 0.98
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (51 bp):
GAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAATAAAACCGGAGTTG
Found at i:1532924 original size:20 final size:20
Alignment explanation
Indices: 1532885--1532954 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
1532875 TGCCTGAATA
* **
1532885 TATCGATACATTATAAAATG
1 TATCGATACAATGCAAAATG
* *
1532905 TATCGATATAATG-AGCAATG
1 TATCGATACAATGCA-AAATG
*
1532925 TATCAATACAATGCAAAATG
1 TATCGATACAATGCAAAATG
1532945 TATCGATACA
1 TATCGATACA
1532955 TCTGGGTAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 1 0.03
20 38 0.95
21 1 0.03
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.30
Consensus pattern (20 bp):
TATCGATACAATGCAAAATG
Found at i:1533967 original size:61 final size:61
Alignment explanation
Indices: 1533902--1534036 Score: 173
Period size: 61 Copynumber: 2.2 Consensus size: 61
1533892 GGACTAAAAA
* * *
1533902 GTGCCACTAACTCGTGTGGGCATTGAAAAGA-AAAGACGTCCTGCTCTCTAAGGATTGGAAG
1 GTGCCACCAACTCGTATGGGCATTGAAAAGAGAAAG-CATCCTGCTCTCTAAGGATTGGAAG
* * * * * *
1533963 GTGCCACCAACTTGTATGGGCTTTGCAAAGAGAAAGCATCTTGCTCTTTGAGGATTGGAAG
1 GTGCCACCAACTCGTATGGGCATTGAAAAGAGAAAGCATCCTGCTCTCTAAGGATTGGAAG
1534024 GTGCCACCAACTC
1 GTGCCACCAACTC
1534037 AAGTGGTCTT
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
61 59 0.94
62 4 0.06
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.24
Consensus pattern (61 bp):
GTGCCACCAACTCGTATGGGCATTGAAAAGAGAAAGCATCCTGCTCTCTAAGGATTGGAAG
Found at i:1534057 original size:61 final size:60
Alignment explanation
Indices: 1533940--1534097 Score: 167
Period size: 61 Copynumber: 2.6 Consensus size: 60
1533930 AGAAAAGACG
* * **
1533940 TCCTGCTCTCTAAGGATTGGAAGGTGCCACCAACTTGTATGGGCTTTGCAAAGAGAAAGCA
1 TCCTGCTCTTTGAGGATTGGAAGGTGCCACCAACTTCAATGGGCTTT-CAAAGAGAAAGCA
* *
1534001 TCTTGCTCTTTGAGGATTGGAAGGTGCCACCAAC-TCAAGTGGTCTTT-AAATGGAGAAAGCA
1 TCCTGCTCTTTGAGGATTGGAAGGTGCCACCAACTTCAA-TGGGCTTTCAAA--GAGAAAGCA
* * ** *
1534062 TCCTACTCTTTGAGGACTGGAAAATGCCACCGACTT
1 TCCTGCTCTTTGAGGATTGGAAGGTGCCACCAACTT
1534098 GTGTGGGCTT
Statistics
Matches: 81, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
59 3 0.04
60 2 0.02
61 75 0.93
62 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.27
Consensus pattern (60 bp):
TCCTGCTCTTTGAGGATTGGAAGGTGCCACCAACTTCAATGGGCTTTCAAAGAGAAAGCA
Found at i:1534138 original size:55 final size:55
Alignment explanation
Indices: 1534062--1534251 Score: 254
Period size: 55 Copynumber: 3.3 Consensus size: 55
1534052 GGAGAAAGCA
* *
1534062 TCCTACTCTTTGAGGACTGGAAAATGCCACCGACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
1534117 TCCGGCTCTTTGAGGACTGGAAAATGCCACCCACTTGTGTGGGCTTTAACAGGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCG
** *
1534178 TCCTGCTCTTTGAGGACTAAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1534234 TCCTGCTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
1534252 AAAGGGCGAA
Statistics
Matches: 120, Mismatches: 8, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
55 44 0.37
56 25 0.21
60 1 0.01
61 28 0.23
62 22 0.18
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:1534201 original size:28 final size:28
Alignment explanation
Indices: 1534170--1534254 Score: 73
Period size: 28 Copynumber: 3.0 Consensus size: 28
1534160 CTTTAACAGG
1534170 AAAAGGCGTCCTGCTCTTTGAGGACTAA
1 AAAAGGCGTCCTGCTCTTTGAGGACTAA
** ** * * * **
1534198 AAAAGTGCCACCAACT-TGTGTGGGCTTT
1 AAAAG-GCGTCCTGCTCTTTGAGGACTAA
1534226 AAAAGGCGTCCTGCTCTTTGAGGACTAA
1 AAAAGGCGTCCTGCTCTTTGAGGACTAA
1534254 A
1 A
1534255 GGGCGAAAGG
Statistics
Matches: 37, Mismatches: 18, Indels: 4
0.63 0.31 0.07
Matches are distributed among these distances:
27 6 0.16
28 25 0.68
29 6 0.16
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (28 bp):
AAAAGGCGTCCTGCTCTTTGAGGACTAA
Found at i:1534339 original size:94 final size:95
Alignment explanation
Indices: 1534177--1534348 Score: 301
Period size: 94 Copynumber: 1.8 Consensus size: 95
1534167 AGGAAAAGGC
*
1534177 GTCCTGCTCTTTGAGGACTAAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTC
1 GTCCTGCTCTTTGAGGACTAAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTC
1534242 TTTGAGGACTAAAGGGCGAAAGGAGAGAGT
66 TTTGAGGACTAAAGGGCGAAAGGAGAGAGT
***
1534272 GTCCTGCTCTTTGAGGACT-GGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTC
1 GTCCTGCTCTTTGAGGACTAAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTC
1534336 TTTGAGGACTAAA
66 TTTGAGGACTAAA
1534349 AAATGCCACA
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
94 54 0.74
95 19 0.26
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.26
Consensus pattern (95 bp):
GTCCTGCTCTTTGAGGACTAAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTC
TTTGAGGACTAAAGGGCGAAAGGAGAGAGT
Found at i:1534357 original size:55 final size:55
Alignment explanation
Indices: 1534272--1534748 Score: 578
Period size: 55 Copynumber: 8.5 Consensus size: 55
1534262 AGGAGAGAGT
**
1534272 GTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGC
* * * * *
1534327 ATCCTGCTCTTTGAGGACTAAAAAATGCCACAAACTTGTGTGGGCTTTGAAAGGC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGC
* * * * *
1534382 GTCTTGATATTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGC
* *
1534437 ATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT------AAAAGGC
** * *
1534498 GTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTAGGTTTTAAAAGGC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGC
* * * * * *
1534553 ATCCTGCTTTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCATTGAAAGGC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGC
* *
1534608 GTCCTGCTCTTTGAGGACTGAAAAATGCCACCCACTTGTGTGGGCTTTAACAGGAAAAGGC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT------AAAAGGC
*
1534669 GTCATGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGC
1 GTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGC
*
1534725 GTCCTACTCTTTGAGGACT-AAAAG
1 GTCCTGCTCTTTGAGGACTGAAAAG
1534749 GCAAAAGAAG
Statistics
Matches: 362, Mismatches: 47, Indels: 27
0.83 0.11 0.06
Matches are distributed among these distances:
54 5 0.01
55 234 0.65
56 24 0.07
61 72 0.20
62 27 0.07
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (55 bp):
GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGC
Found at i:1534537 original size:437 final size:427
Alignment explanation
Indices: 1533887--1535555 Score: 1399
Period size: 437 Copynumber: 3.8 Consensus size: 427
1533877 TGTCCTGCTT
* * * * * * *
1533887 TTTGAGGACTAAAAAGTGCCACTAACTCGTGTGGGCATTGAAAAGAAAAGACGTCCTGCTCTCTA
1 TTTGAGGACTAAAAAATGCCACAAACTTGTGTGGGCTTTG-AAAG----G-CGTCCTGATCTTTG
* * * *
1533952 AGGATTGGAAGGTGCCACCAACTTGTATGGGCTTTGCAAAGAGAAAGCATCTTGCTCTTTGAGGA
60 AGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG--AA-AG---GCATCCTGCTCTTTGAGGA
* * *** * * *
1534017 TTGGAAGGTGCCACCAACTCAAGTGGTCTTTAAATGGAGAAAGCATCCTACTCTTTGAGGACTGG
119 CTGAAAGGTGCCACCAACTTGTGTGGGC-TT---T-GA-AAGGCATCCTGCTCTTTGAGGACT-G
* * *
1534082 AAA-ATGCCACCGACTTGTGTGGGCTTT-G-AAAGGCGTCCGGCTCTTTGAGGACTGGAAAATGC
177 AAAGGTGCCACCAACTTGTGTGGGCTTTAGAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGC
*
1534144 CACCCACTTGTGTGGGCTTTAACAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAAAGTGCCAC
242 CACCAACTTGTGTGGGCTTT------AAAAGGCGTCCTGCTCTTTGAGGACTAAAAAA-TGCCAC
* * *
1534209 CAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACT-AAAGGGCGAAAGGAGAGA-GT
300 CAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGGCCAAAGGAGAAAGGC
** *
1534272 GTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTC
365 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGC-TTAAAAGGCATCCTACTC
* *
1534336 TTTGAGGACTAAAAAATGCCACAAACTTGTGTGGGCTTTGAAAGGCGTCTTGATATTTGAGGACT
1 TTTGAGGACTAAAAAATGCCACAAACTTGTGTGGGCTTTGAAAGGCGTCCTGATCTTTGAGGACT
1534401 GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTGAAAGGTGCC
66 GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTGAAAGGTGCC
* *
1534466 ACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGGGAA-GTGCCACC
131 ACCAACTTGTGTGGGCTTT-----G-AAAGGCATCCTGCTCTTTGAGGACT-GAAAGGTGCCACC
* * * * **
1534530 AACTTGTGTAGG-TTT-TAAAAGGCATCCTGCTTTTTGAGGACTAAAAAATGCCACCAACTTGTG
189 AACTTGTGTGGGCTTTAGAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTG
* * * *
1534593 TGGGCATTGAAAGGCGTCCTGCTCTTTGAGGACTGAAAAATGCCACCCACTTGTGTGGGCTTTAA
254 TGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTT--
* * *
1534658 CAGGAAAAGGCGTCATGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
317 ----AAAAGGCGTCCTGCTCTTTGAGGACT--AAAAGGGCCA--AA-----G-GAG-----AAAG
* * * *
1534723 GCGTCCTACTCTTTGAGGACT-AAAAG-G-CA--AA--------AG---AAGAGAGCGTCCTACT
363 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTAAAAG-GCATCCTACT
1534772 C
427 C
*** * * * *
1534773 TTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCT-ACTCTTTGAGGAC
1 TTTGAGGACTAAAAAATGCCACAAACTTGTGTGGGCTTTGAAAGGCGTCCTGA-TCTTTGAGGAC
* ** * **
1534837 TAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTATTCTTTGAGGACTGAAAGGTGC
65 TGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTGAAAGGTGC
* *
1534902 CACCAAGTTGTGTGGGCTTTGAAAGGCATCTTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTG
130 CACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTG
* * * * *
1534967 TGTGGGCTTTAAAAAGAAAAGACGTCTTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTATG
195 TGTGGGCTTT----AGAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTG
* * * *
1535032 GGCTTTAAAAAGCGTCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTATGGGCATTGAAA
256 GGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTAAAA
* *
1535097 TGCGTCCTGCTCTTTGAGGACTGGAGAATGCCACCCACTTGTGTGGGCTTTAACAGGA-AAAGGC
321 GGCGTCCTGCTCTTTGAGGACT----AA----A---A-------GGGC--CAA-AGGAGAAAGGC
1535161 GTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTGTAAAAGGCATCCTACTC
365 GTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCT-TAAAAGGCATCCTACTC
* * * * * *
1535226 TTTGAGGACT---AAAGGGC-GAAA--------GG---AGAGA-GCGTCCTGCTCTTTGAGGACT
1 TTTGAGGACTAAAAAATGCCACAAACTTGTGTGGGCTTTGAAAGGCGTCCTGATCTTTGAGGACT
* * * **
1535275 AGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGGACTAAAAAATGC
66 -GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTGAAAGGTGC
1535339 CACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTG
130 CACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTG
* *
1535404 TGTGGGCTTTAAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTG
195 TGTGGGCTTT----AGAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTG
* * * *
1535469 GGCTTTAAAAGGCGTCTTGCTCTTTAAGGACCAAAAAATGCCACCAACTTGTGTGGGCTTTGAAA
256 GGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTAAAA
1535534 GGCGTCCTGCTCTTTGAGGACT
321 GGCGTCCTGCTCTTTGAGGACT
1535556 GGAAAATGCC
Statistics
Matches: 1013, Mismatches: 130, Indels: 166
0.77 0.10 0.13
Matches are distributed among these distances:
430 25 0.02
431 95 0.09
432 4 0.00
433 5 0.00
436 59 0.06
437 639 0.63
438 10 0.01
439 8 0.01
440 6 0.01
441 6 0.01
442 3 0.00
443 43 0.04
444 1 0.00
446 1 0.00
447 6 0.01
448 7 0.01
449 39 0.04
450 7 0.01
451 1 0.00
452 5 0.00
453 39 0.04
454 4 0.00
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (427 bp):
TTTGAGGACTAAAAAATGCCACAAACTTGTGTGGGCTTTGAAAGGCGTCCTGATCTTTGAGGACT
GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTGAAAGGTGCC
ACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGT
GTGGGCTTTAGAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTT
TAAAAGGCGTCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGT
CCTGCTCTTTGAGGACTAAAAGGGCCAAAGGAGAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGT
GCCACCAACTTGTGTGGGCTTAAAAGGCATCCTACTC
Found at i:1534584 original size:171 final size:169
Alignment explanation
Indices: 1534272--1535672 Score: 1357
Period size: 171 Copynumber: 8.5 Consensus size: 169
1534262 AGGAGAGAGT
* *
1534272 GTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTT----AAAAGGCATCCTG
1 GTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAGAAAAGGCGTCCTG
* * * * * * *
1534333 CTCTTTGAGGACTAAAAAATGCCACAAACTTGTGTGGGCTTTGAAAGGCGTCTTGATATTTGAGG
66 CTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGG
* ** *
1534398 ACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGC
131 ACTAAAAAATGCCACCAACTTGTGTGGGCATTGAAAGGC
*
1534437 ATCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTC
1 GTCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTT--AAAGAAAAGGCGTC
** * * * *
1534501 CTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTAGGTTTTAAAAGGCATCCTGCTTTTTG
63 CTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTG
1534566 AGGACTAAAAAATGCCACCAACTTGTGTGGGCATTGAAAGGC
128 AGGACTAAAAAATGCCACCAACTTGTGTGGGCATTGAAAGGC
* * * *
1534608 GTCCTGCTCTTTGAGGACTGAAAAATGCCACCCACTTGTGTGGGCTTTAACAGGAAAAGGCGTCA
1 GTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAA-A-GAAAAGGCGTCC
*
1534673 TGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTACTCTTTG
64 TGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTG
* * * *
1534738 AGGACT--AAAA-GGCA--AA--------AG-A-AGAGA-GC
128 AGGACTAAAAAATGCCACCAACTTGTGTGGGCATTGAAAGGC
* * * *
1534764 GTCCTACTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTT----AAAAGGCATCCTA
1 GTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAGAAAAGGCGTCCTG
* * * **
1534825 CTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTATTCTTTGAGG
66 CTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGG
* ** * *
1534890 ACTGAAAGGTGCCACCAAGTTGTGTGGGCTTTGAAAGGC
131 ACTAAAAAATGCCACCAACTTGTGTGGGCATTGAAAGGC
* * *
1534929 ATCTTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGACGTC
1 GTCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTT--AAAGAAAAGGCGTC
* ** * *
1534993 TTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTATGGGCTTTAAAAAGCGTCCTGCTCTTTG
63 CTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTG
* *
1535058 AGGACTAAAAAATGCCACCAACTTGTATGGGCATTGAAATGC
128 AGGACTAAAAAATGCCACCAACTTGTGTGGGCATTGAAAGGC
*
1535100 GTCCTGCTCTTTGAGGACTGGAGAA-TGCCACCCACTTGTGTGGGCTTTAACAGGAAAAGGCGTC
1 GTCCTGCTCTTTGAGGACTGGA-AAGTGCCACCAACTTGTGTGGGCTTTAA-A-GAAAAGGCGTC
* * *
1535164 CTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTGTAAAAGGCATCCTACTCTTT
63 CTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTT
** * *
1535229 GAGGACT--AAAGGGCGA--AA--------GG-A--GAGA-GC
127 GAGGACTAAAAAATGCCACCAACTTGTGTGGGCATTGAAAGGC
*
1535256 GTCCTGCTCTTTGAGGACTAGG-AAGTGCCACCAACTTGTGTGGGCTTT----AAAAGGCATCCT
1 GTCCTGCTCTTTGAGGACT-GGAAAGTGCCACCAACTTGTGTGGGCTTTAAAGAAAAGGCGTCCT
* * * *
1535316 GCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAG
65 GCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAG
* ** *
1535381 GACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGC
130 GACTAAAAAATGCCACCAACTTGTGTGGGCATT-----G-AAAGGC
* *
1535427 GTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTT----AAAAGGCGTCTTG
1 GTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAGAAAAGGCGTCCTG
* ** * *
1535488 CTCTTTAAGGACCAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGG
66 CTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGG
** * * * *
1535553 ACTGGAAAATGCCACCCACTTGTTTGGGCTTTAACAGGAAAAGGT
131 ACTAAAAAATGCCACCAACTTGTGTGGGCATT-----G-AAAGGC
* * * * * *
1535598 GTCATGCTTTTTGATGACTAGAAAGGTGCCACCAACTTCTTTGGGCTTT----AAAAGGCGTCCT
1 GTCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAGAAAAGGCGTCCT
*
1535659 GCTTTTTGAGGACT
65 GCTCTTTGAGGACT
1535673 AAAGGGTGAA
Statistics
Matches: 1041, Mismatches: 130, Indels: 123
0.80 0.10 0.10
Matches are distributed among these distances:
149 101 0.10
150 48 0.05
151 8 0.01
152 3 0.00
153 2 0.00
154 2 0.00
155 2 0.00
156 88 0.08
157 8 0.01
158 1 0.00
159 2 0.00
160 2 0.00
161 2 0.00
162 1 0.00
164 9 0.01
165 84 0.08
167 2 0.00
168 2 0.00
169 8 0.01
170 16 0.02
171 503 0.48
172 145 0.14
173 2 0.00
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (169 bp):
GTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAGAAAAGGCGTCCTG
CTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGG
ACTAAAAAATGCCACCAACTTGTGTGGGCATTGAAAGGC
Found at i:1534625 original size:492 final size:492
Alignment explanation
Indices: 1533872--1535581 Score: 2495
Period size: 492 Copynumber: 3.5 Consensus size: 492
1533862 GAGAAAAGGA
* * * * * * * *
1533872 AAAGGTGTCCTGCTTTTTGAGGACTAAAAAGTGCCACTAACTCGTGTGGGCATTGAAAAGAAAAG
1 AAAGGCGTCCTGATCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAG----G
* * * * * * ** *
1533937 ACGTCCTGCTCTCTAAGGATTGGAAGGTGCCACCAACTTGTATGGGCTTTGCAAAGAGAAA-GCA
61 -CATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGA-AAAGGCG
* *** *
1534001 TCTTGCTCTTTGAGGA-TTGGAAGGTGCCACCAACTCAAGTGGTCTTTAAATGGAGAAAGCATCC
124 TCTTGCTCTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTGGGCTTTAAA---AG---GCATCC
* ** * * *
1534065 TACTCTTTGAGGACTGGAAAATGCCACCGACTTGTGTGGGCTTTGAAAGGCGTCCGGCTCTTTGA
182 TGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCATTGAAAGGCGTCCTGCTCTTTGA
1534130 GGACTGGAAAATGCCACCCACTTGTGTGGGCTTTAACAGGAAAAGGCGTCCTGCTCTTTGAGGAC
247 GGACTGGAAAATGCCACCCACTTGTGTGGGCTTTAACAGGAAAAGGCGTCCTGCTCTTTGAGGAC
* *
1534195 TAAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGCG
312 TAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTACTCTTTGAGGACTAAAGGGCG
*
1534260 AAAGGAGAGAGTGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
377 AAAGGAGAGAGCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
*
1534325 GCATCCTGCTCTTTGAGGACTAAAAAATGCCACAAACTTGTGTGGGCTTTG
442 GCATCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTG
* *
1534376 AAAGGCGTCTTGATATTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCC
1 AAAGGCGTCCTGATCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCC
*
1534441 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTCCTGCT
66 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTCTTGCT
* * *
1534506 CTTTGAGGACTGGGAAGTGCCACCAACTTGTGTAGGTTTTAAAAGGCATCCTGCTTTTTGAGGAC
131 CTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGGAC
*
1534571 TAAAAAATGCCACCAACTTGTGTGGGCATTGAAAGGCGTCCTGCTCTTTGAGGACTGAAAAATGC
196 TAAAAAATGCCACCAACTTGTGTGGGCATTGAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGC
*
1534636 CACCCACTTGTGTGGGCTTTAACAGGAAAAGGCGTCATGCTCTTTGAGGACTAGAAAAGTGCCAC
261 CACCCACTTGTGTGGGCTTTAACAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCAC
* * *
1534701 CAACTTGTGTGGGCTTTAAAAGGCGTCCTACTCTTTGAGGACTAAAAGGCAAAAGAAGAGAGCGT
326 CAACTTGTGTGGGCTTTAAAAGGCGTCCTACTCTTTGAGGACTAAAGGGCGAAAGGAGAGAGCGT
* *
1534766 CCTACTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTACTCTTT
391 CCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTT
1534831 GAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTG
456 GAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTG
*
1534868 AAAGGCGTCCT-ATTCTTTGAGGACTGAAAGGTGCCACCAAGTTGTGTGGGCTTTGAAAGGCATC
1 AAAGGCGTCCTGA-TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATC
* *
1534932 TTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGACGTCTTGC
65 CTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTCTTGC
* * *
1534997 TCTTTGAGGACTGGGAAGTGCCACCAACTTGTATGGGCTTTAAAAAGCGTCCTGCTCTTTGAGGA
130 TCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGGA
* * *
1535062 CTAAAAAATGCCACCAACTTGTATGGGCATTGAAATGCGTCCTGCTCTTTGAGGACTGGAGAATG
195 CTAAAAAATGCCACCAACTTGTGTGGGCATTGAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATG
1535127 CCACCCACTTGTGTGGGCTTTAACAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCA
260 CCACCCACTTGTGTGGGCTTTAACAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCA
* *
1535192 CCAACTTGTGTGGGCTGTAAAAGGCATCCTACTCTTTGAGGACTAAAGGGCGAAAGGAGAGAGCG
325 CCAACTTGTGTGGGCTTTAAAAGGCGTCCTACTCTTTGAGGACTAAAGGGCGAAAGGAGAGAGCG
*
1535257 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTT
390 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTT
1535322 TGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTG
455 TGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTG
* *
1535360 AAAGGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAG
1 AAAGGCGTCCTGATCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-----G-AAAG
* *
1535425 GCGTCCTGCTCTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTGGGCTTT------AAAAGGCG
60 GCATCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCG
* **** * * *
1535483 TCTTGCTCTTTAAGGACCAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
124 TCTTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTT
** * *
1535548 TGAGGACTGGAAAATGCCACCCACTTGTTTGGGC
189 TGAGGACTAAAAAATGCCACCAACTTGTGTGGGC
1535582 TTTAACAGGA
Statistics
Matches: 1106, Mismatches: 89, Indels: 34
0.90 0.07 0.03
Matches are distributed among these distances:
491 1 0.00
492 907 0.82
495 2 0.00
497 4 0.00
498 133 0.12
499 9 0.01
503 4 0.00
504 46 0.04
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (492 bp):
AAAGGCGTCCTGATCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCC
TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTCTTGCT
CTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGGAC
TAAAAAATGCCACCAACTTGTGTGGGCATTGAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGC
CACCCACTTGTGTGGGCTTTAACAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCAC
CAACTTGTGTGGGCTTTAAAAGGCGTCCTACTCTTTGAGGACTAAAGGGCGAAAGGAGAGAGCGT
CCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTT
GAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTG
Found at i:1534849 original size:55 final size:55
Alignment explanation
Indices: 1534762--1535235 Score: 527
Period size: 55 Copynumber: 8.4 Consensus size: 55
1534752 AAAGAAGAGA
* **
1534762 GCGTCCTACTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * * * *
1534817 GCATCCTACTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
** * * *
1534872 GCGTCCTATTCTTTGAGGACTGAAAGGTGCCACCAAGTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * *
1534927 GCATCTTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAG
* ** * *
1534983 AAAAGACGTCTTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTATGGGCTTTAAAAA
1 ----G-CGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * * * * *
1535043 GCGTCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTATGGGCATTGAAAT
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* *
1535098 GCGTCCTGCTCTTTGAGGACTGGAGAA-TGCCACCCACTTGTGTGGGCTTTAACAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTT------AAAAG
*
1535159 GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTGTAAAAG
1 GCGTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* *
1535215 GCATCCTACTCTTTGAGGACT
1 GCGTCCTGCTCTTTGAGGACT
1535236 AAAGGGCGAA
Statistics
Matches: 360, Mismatches: 45, Indels: 27
0.83 0.10 0.06
Matches are distributed among these distances:
55 230 0.64
56 32 0.09
60 5 0.01
61 72 0.20
62 21 0.06
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.27
Consensus pattern (55 bp):
GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
Found at i:1535321 original size:94 final size:95
Alignment explanation
Indices: 1535159--1535332 Score: 314
Period size: 94 Copynumber: 1.8 Consensus size: 95
1535149 ACAGGAAAAG
1535159 GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTGTAAAAGGCATCCTAC
1 GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTGTAAAAGGCATCCTAC
1535224 TCTTTGAGGACTAAAGGGCGAAAGGAGAGA
66 TCTTTGAGGACTAAAGGGCGAAAGGAGAGA
* * *
1535254 GCGTCCTGCTCTTTGAGGACTAG-GAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGC
1 GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTGTAAAAGGCATCCTAC
1535318 TCTTTGAGGACTAAA
66 TCTTTGAGGACTAAA
1535333 AAATGCCACC
Statistics
Matches: 76, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
94 53 0.70
95 23 0.30
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (95 bp):
GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTGTAAAAGGCATCCTAC
TCTTTGAGGACTAAAGGGCGAAAGGAGAGA
Found at i:1535341 original size:55 final size:55
Alignment explanation
Indices: 1535254--1535675 Score: 468
Period size: 55 Copynumber: 7.4 Consensus size: 55
1535244 AAAGGAGAGA
**
1535254 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * *
1535309 GCATCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * *
1535364 GCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT------AAAAG
***
1535425 GCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * * * *
1535480 GCGTCTTGCTCTTTAAGGACCAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * *
1535535 GCGTCCTGCTCTTTGAGGACTGGAAAA-TGCCACCCACTTGTTTGGGCTTTAACAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACT-AAAAAGTGCCACCAACTTGTGTGGGCTTT------AAAAG
* * * * * * *
1535596 GTGTCATGCTTTTTGATGACTAGAAAGGTGCCACCAACTTCTTTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACTA-AAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
*
1535652 GCGTCCTGCTTTTTGAGGACTAAA
1 GCGTCCTGCTCTTTGAGGACTAAA
1535676 GGGTGAAAGG
Statistics
Matches: 313, Mismatches: 39, Indels: 30
0.82 0.10 0.08
Matches are distributed among these distances:
55 190 0.61
56 28 0.09
61 74 0.24
62 21 0.07
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (55 bp):
GCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
Found at i:1535466 original size:116 final size:112
Alignment explanation
Indices: 1535254--1535672 Score: 499
Period size: 116 Copynumber: 3.7 Consensus size: 112
1535244 AAAGGAGAGA
* *
1535254 GCGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTT-AAAAGGCATCCTG
1 GCGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGGCGTCCTG
**
1535317 CTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
66 CTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
*
1535364 GCATCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCG
1 GCGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTT-----GAAAAGGCG
* * *
1535428 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
61 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
* * * **
1535480 GCGTCTTGCTCTTTAAGGACCA-AAAAATGCCACCAACTTGTGTGGGCTTTG-AAAGGCGTCCTG
1 GCGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGGCGTCCTG
* *
1535543 CTCTTTGAGGACTGGAAAATGCCACCCACTTGTTTGGGCTTTAACAGGAAAAG
66 CTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-----G-AAAG
* * * * * *
1535596 GTGTCATGCTTTTTGATGACTAGAAAGGTGCCACCAACTTCTTTGGGCTTT-AAAAGGCGTCCTG
1 GCGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGGCGTCCTG
*
1535660 CTTTTTGAGGACT
66 CTCTTTGAGGACT
1535673 AAAGGGTGAA
Statistics
Matches: 263, Mismatches: 30, Indels: 25
0.83 0.09 0.08
Matches are distributed among these distances:
109 3 0.01
110 94 0.36
111 1 0.00
116 117 0.44
117 48 0.18
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.28
Consensus pattern (112 bp):
GCGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGGCGTCCTG
CTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
Found at i:1535652 original size:437 final size:436
Alignment explanation
Indices: 1534820--1535746 Score: 1494
Period size: 437 Copynumber: 2.1 Consensus size: 436
1534810 TTAAAAGGCA
* * * * *
1534820 TCCTACTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTATTCTT
1 TCCTACTCTTTGAGGACT-AGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTACTCTT
* ** * *
1534885 TGAGGACTGAAAGGTGCCACCAAGTTGTGTGGGCTTTGAAAGGCATCTTGCTCTTTGAGGACTGA
65 TGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTGA
*
1534950 AAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGACGTCTTGCTCTTTGAGGACTGGGAAG
130 AAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGACGTCCTGCTCTTTGAGGACTGGGAAG
* *
1535015 TGCCACCAACTTGTATGGGCTTTAAAAAGCGTCCTGCTCTTTGAGGACTAAAAAATGCCACCAAC
195 TGCCACCAACTTGTATGGGCTTTAAAAAGCGTCCTGCTCTTTAAGGACCAAAAAATGCCACCAAC
* *
1535080 TTGTATGGGCATTGAAATGCGTCCTGCTCTTTGAGGACTGGAGAATGCCACCCACTTGTGTGGGC
260 TTGTATGGGCATTGAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCCACTTGTGTGGGC
* *
1535145 TTTAACAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTGT
325 TTTAACAGGAAAAGGCGTCATGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTCTGTGGGCTGT
1535210 AAAAGGCATCCTACTCTTTGAGGACTAAAGGGCGAAAGGAGAGAGCG
390 AAAAGGCATCCTACTCTTTGAGGACTAAAGGGCGAAAGGAGAGAGCG
* *
1535257 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTT
1 TCCTACTCTTTGAGGACTA-GAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTACTCTT
1535322 TGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTGA
65 TGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTGA
*
1535387 AAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGGGAAG
130 AAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGACGTCCTGCTCTTTGAGGACTGGGAAG
* * *
1535452 TGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCTTGCTCTTTAAGGACCAAAAAATGCCACCAAC
195 TGCCACCAACTTGTATGGGCTTTAAAAAGCGTCCTGCTCTTTAAGGACCAAAAAATGCCACCAAC
* * *
1535517 TTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCCACTTGTTTGGGC
260 TTGTATGGGCATTGAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCCACTTGTGTGGGC
* * * * * *
1535582 TTTAACAGGAAAAGGTGTCATGCTTTTTGATGACTAGAAAGGTGCCACCAACTTCTTTGGGCTTT
325 TTTAACAGGAAAAGGCGTCATGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTCTGTGGGCTGT
* * * *
1535647 AAAAGGCGTCCTGCTTTTTGAGGACTAAAGGGTGAAAGGAGAGAGCG
390 AAAAGGCATCCTACTCTTTGAGGACTAAAGGGCGAAAGGAGAGAGCG
*
1535694 TCCTACTGTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
1 TCCTACTCTTTGAGGACTAGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGG
1535747 AAAAGATGTC
Statistics
Matches: 450, Mismatches: 38, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
436 4 0.01
437 446 0.99
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (436 bp):
TCCTACTCTTTGAGGACTAGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTACTCTTT
GAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTGAA
AGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGACGTCCTGCTCTTTGAGGACTGGGAAGT
GCCACCAACTTGTATGGGCTTTAAAAAGCGTCCTGCTCTTTAAGGACCAAAAAATGCCACCAACT
TGTATGGGCATTGAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCCACTTGTGTGGGCT
TTAACAGGAAAAGGCGTCATGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTCTGTGGGCTGTA
AAAGGCATCCTACTCTTTGAGGACTAAAGGGCGAAAGGAGAGAGCG
Found at i:1536779 original size:21 final size:21
Alignment explanation
Indices: 1536753--1536808 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
1536743 AGTTCTTTTC
* *
1536753 TTTTCTTTCTTTTTTTTTTGT
1 TTTTCTTTCTTTTTTTGTTAT
*
1536774 TTTTCTGTTGTTTTTTTGTTAT
1 TTTTCT-TTCTTTTTTTGTTAT
* *
1536796 TATTATTTCTTTT
1 TTTTCTTTCTTTT
1536809 AAAAAAAAAG
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
21 12 0.43
22 16 0.57
ACGTcount: A:0.05, C:0.07, G:0.07, T:0.80
Consensus pattern (21 bp):
TTTTCTTTCTTTTTTTGTTAT
Found at i:1546171 original size:52 final size:52
Alignment explanation
Indices: 1546093--1546221 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
1546083 CGAAATATGA
* *
1546093 AAATTTACTTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
1546145 AAATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
1546197 AAATTTGCCTGCATATATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1546222 AAGATCAGTG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:1546232 original size:52 final size:52
Alignment explanation
Indices: 1546093--1546241 Score: 192
Period size: 52 Copynumber: 2.9 Consensus size: 52
1546083 CGAAATATGA
* * * **
1546093 AAATTTACTTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATATATCGATACATAACATAGTGTATCGATACATCTGGGC
* * **
1546145 AAATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATATATCGATACATAACATAGTGTATCGATACATCTGGGC
*
1546197 AAATTTGCCTGCATATATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATATATCGATACATAACAT-AGTGTATCGATACA
1546242 ATGTATCGAT
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
51 2 0.02
52 86 0.98
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATATATCGATACATAACATAGTGTATCGATACATCTGGGC
Found at i:1546248 original size:13 final size:13
Alignment explanation
Indices: 1546230--1546254 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1546220 CAAAGATCAG
1546230 TGTATCGATACAA
1 TGTATCGATACAA
1546243 TGTATCGATACA
1 TGTATCGATACA
1546255 TTTGAGTAAT
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:1546331 original size:19 final size:17
Alignment explanation
Indices: 1546307--1546487 Score: 142
Period size: 19 Copynumber: 10.9 Consensus size: 17
1546297 AGCGATACAT
1546307 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAA-TTA
1546326 TGTATCGATAC--A-T-
1 TGTATCGATACAAATTA
1546339 TGTATCGATACAACACTTA
1 TGTATCGATACAA-A-TTA
1546358 TGTATCGATAC--A-T-
1 TGTATCGATACAAATTA
1546371 TGTATCGATACAACACTTA
1 TGTATCGATACAA-A-TTA
1546390 TGTATCGATAC--A-T-
1 TGTATCGATACAAATTA
1546403 TGTATCGATACAACAATTA
1 TGTATCGATAC-A-AATTA
1546422 TGTATCGATAC--A-T-
1 TGTATCGATACAAATTA
1546435 TGTATCGATACAACACTTA
1 TGTATCGATACAA-A-TTA
1546454 TGTATCGATACAACACTTA
1 TGTATCGATACAA-A-TTA
1546473 TGTATCGATACAAAT
1 TGTATCGATACAAAT
1546488 CGTTGAAATT
Statistics
Matches: 138, Mismatches: 0, Indels: 50
0.73 0.00 0.27
Matches are distributed among these distances:
13 44 0.32
14 4 0.03
15 1 0.01
16 6 0.04
17 2 0.01
18 5 0.04
19 76 0.55
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (17 bp):
TGTATCGATACAAATTA
Found at i:1546340 original size:32 final size:32
Alignment explanation
Indices: 1546299--1546465 Score: 316
Period size: 32 Copynumber: 5.2 Consensus size: 32
1546289 AGCTTCGTAG
*
1546299 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
1546331 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
1546363 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
*
1546395 CGATACATTGTATCGATACAACAATTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
1546427 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
1546459 CGATACA
1 CGATACA
1546466 ACACTTATGT
Statistics
Matches: 132, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 132 1.00
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.34
Consensus pattern (32 bp):
CGATACATTGTATCGATACAACACTTATGTAT
Found at i:1553116 original size:79 final size:79
Alignment explanation
Indices: 1552947--1553258 Score: 308
Period size: 79 Copynumber: 3.9 Consensus size: 79
1552937 TGGAGATAAC
* * * * *
1552947 AACGGGGCTAGAGTATCCCCGATTATG-GAAAATCGGTGTTCTAGAAATAAAAAAATC-GGGTTT
1 AACGGGGTTGGAGTATCCCCGATTATGAG-AAATCAGTATTTTAGAAAT---AAAATCAGGG-TT
* *
1553010 GGAGTATCCCCTCGAAAAT
61 GGAGTATCCCCGCCAAAAT
* ** *
1553029 AACAGGGTTGGAGTATCCTTGATTAT-AGAAAATCAGTATTTTAAAAATAAAATCAGGGTTGGAG
1 AACGGGGTTGGAGTATCCCCGATTATGAG-AAATCAGTATTTTAGAAATAAAATCAGGGTTGGAG
1553093 TATCCCCGCCAAAAT
65 TATCCCCGCCAAAAT
* * * * * * *
1553108 AATGGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTCTAGAAATAAAGTCGGGGTTGGAGT
1 AACGGGGTTGGAGTATCCCCGATTATGAGAAATCAGTATTTTAGAAATAAAATCAGGGTTGGAGT
**
1553173 ATCCCC-TTAGAAAT
66 ATCCCCGCCA-AAAT
** * * *
1553187 AACGGGGTTGGAGTATCCCCGATTATGAGAAATTGGTGTTTTGGAAATAAAATCAGAGTTGGAGT
1 AACGGGGTTGGAGTATCCCCGATTATGAGAAATCAGTATTTTAGAAATAAAATCAGGGTTGGAGT
1553252 ATCCCCG
66 ATCCCCG
1553259 ATTGTGAAAA
Statistics
Matches: 189, Mismatches: 36, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
78 1 0.01
79 145 0.77
80 5 0.03
82 38 0.20
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.27
Consensus pattern (79 bp):
AACGGGGTTGGAGTATCCCCGATTATGAGAAATCAGTATTTTAGAAATAAAATCAGGGTTGGAGT
ATCCCCGCCAAAAT
Found at i:1553189 original size:158 final size:159
Alignment explanation
Indices: 1552958--1553258 Score: 385
Period size: 158 Copynumber: 1.9 Consensus size: 159
1552948 ACGGGGCTAG
** * * *
1552958 AGTATCCCCGATTATGGAAAATCGGTGTTCTAGAAATAAAAAAATCGGGTTTGGAGTATCCCCTC
1 AGTATCCCCGATTATGGAAAATCAATATTCTAGAAAT--AAAAATCGGGGTTGGAGTATCCCCTA
** *
1553023 GAAAATAACAGGGTTGGAGTATCCTTGATTAT-AGAAAATCAGTATTTTAAAAATAAAATCAGGG
64 GAAAATAACAGGGTTGGAGTATCCCCGATTATGAG-AAATCAGTATTTTAAAAATAAAATCAGAG
1553087 TTGGAGTATCCCCGCCAAAATAATGGGGTTGA
128 TTGGAGTATCCCCGCCAAAATAATGGGGTTGA
* *
1553119 AGTATCCCCGATTGT-GAGAAATCAATATTCTAGAAAT-AAAGTCGGGGTTGGAGTATCCCCTTA
1 AGTATCCCCGATTATGGA-AAATCAATATTCTAGAAATAAAAATCGGGGTTGGAGTATCCCC-TA
* ** * **
1553182 G-AAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATTGGTGTTTTGGAAATAAAATCAGAGT
64 GAAAATAACAGGGTTGGAGTATCCCCGATTATGAGAAATCAGTATTTTAAAAATAAAATCAGAGT
1553246 TGGAGTATCCCCG
129 TGGAGTATCCCCG
1553259 ATTGTGAAAA
Statistics
Matches: 121, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
158 85 0.70
159 4 0.03
160 2 0.02
161 30 0.25
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.28
Consensus pattern (159 bp):
AGTATCCCCGATTATGGAAAATCAATATTCTAGAAATAAAAATCGGGGTTGGAGTATCCCCTAGA
AAATAACAGGGTTGGAGTATCCCCGATTATGAGAAATCAGTATTTTAAAAATAAAATCAGAGTTG
GAGTATCCCCGCCAAAATAATGGGGTTGA
Found at i:1553255 original size:51 final size:51
Alignment explanation
Indices: 1553193--1553308 Score: 169
Period size: 51 Copynumber: 2.3 Consensus size: 51
1553183 AAATAACGGG
* * *
1553193 GTTGGAGTATCCCCGATTATGAGAAATTGGTGTTTTGGAAATAAAATCAGA
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTAGAAATAAAATCAGA
* * *
1553244 GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAATAAAATCGGG
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTAGAAATAAAATCAGA
*
1553295 GTTAGAGTATCCCC
1 GTTGGAGTATCCCC
1553309 TCGAAAATAA
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTAGAAATAAAATCAGA
Found at i:1553322 original size:28 final size:28
Alignment explanation
Indices: 1553291--1553366 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
1553281 GAAATAAAAT
*
1553291 CGGGGTTAGAGTATCCCCTCGA-AAATAA
1 CGGGGTTGGAGTATCCCC-CGAGAAATAA
*
1553319 CGGGATTGGAGTAT-CCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCCGA-GAAATAA
1553347 CGGGGTTGGAGTA-CCCCCGA
1 CGGGGTTGGAGTATCCCCCGA
1553367 TTATGAAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
26 3 0.07
27 3 0.07
28 36 0.86
ACGTcount: A:0.28, C:0.22, G:0.30, T:0.20
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCCGAGAAATAA
Found at i:1553427 original size:110 final size:110
Alignment explanation
Indices: 1553276--1553485 Score: 332
Period size: 110 Copynumber: 1.9 Consensus size: 110
1553266 AAAATTGGTA
1553276 TTTTAGAAATAAAATCGGGGTTAGAGTATCCCCTCGAAAATAAC-GGGATTGGAGTATCCCCGAT
1 TTTTAGAAATAAAATCGGGGTTAGAGTATCCCCTCGAAAATAACAGGG-TTGGAGTATCCCCGAT
* *
1553340 GAAATAACGGGGTTGGAGTACCCCCGATTATGAAAAAAATCAATAT
65 GAAATAACAGGGTTGGAGTACCCCCAATTATGAAAAAAATCAATAT
* * * *
1553386 TTTTAGATATAAAGTCGGGGTTGGAGTATCCCCTCGGAAATAACAGGGTTGGAGTATCCCCGATG
1 TTTTAGAAATAAAATCGGGGTTAGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCCGATG
* *
1553451 AAATAACAGGGTTGGAGTATCCCCAATTGTGAAAA
66 AAATAACAGGGTTGGAGTACCCCCAATTATGAAAA
1553486 TTTGGTGTTT
Statistics
Matches: 91, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
110 88 0.97
111 3 0.03
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (110 bp):
TTTTAGAAATAAAATCGGGGTTAGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCCGATG
AAATAACAGGGTTGGAGTACCCCCAATTATGAAAAAAATCAATAT
Found at i:1553443 original size:28 final size:28
Alignment explanation
Indices: 1553403--1553474 Score: 117
Period size: 28 Copynumber: 2.6 Consensus size: 28
1553393 TATAAAGTCG
**
1553403 GGGTTGGAGTATCCCCTCGGAAATAACA
1 GGGTTGGAGTATCCCCGAGGAAATAACA
*
1553431 GGGTTGGAGTATCCCCGATGAAATAACA
1 GGGTTGGAGTATCCCCGAGGAAATAACA
1553459 GGGTTGGAGTATCCCC
1 GGGTTGGAGTATCCCC
1553475 AATTGTGAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.22
Consensus pattern (28 bp):
GGGTTGGAGTATCCCCGAGGAAATAACA
Found at i:1553536 original size:51 final size:51
Alignment explanation
Indices: 1553459--1553576 Score: 132
Period size: 52 Copynumber: 2.3 Consensus size: 51
1553449 TGAAATAACA
** * * *
1553459 GGGTTGGAGTATCCCCAATTGTG-AAAATTTGGTGTTTTGAAAAT-AATATC
1 GGGTTGGAGTATCCCCAATTAAGAAAAAATTGATGTTTTGAAAATGAA-ACC
* *
1553509 GGAGTTGGAGTATCCCCGATTAAGAAAAAATTGATGTTTTGGAAATGAAACC
1 GG-GTTGGAGTATCCCCAATTAAGAAAAAATTGATGTTTTGAAAATGAAACC
1553561 GGGATTGGAGTATCCC
1 GGG-TTGGAGTATCCC
1553577 GGAGATGAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
50 2 0.04
51 19 0.33
52 34 0.60
53 2 0.04
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (51 bp):
GGGTTGGAGTATCCCCAATTAAGAAAAAATTGATGTTTTGAAAATGAAACC
Found at i:1555940 original size:33 final size:33
Alignment explanation
Indices: 1555898--1555967 Score: 140
Period size: 33 Copynumber: 2.1 Consensus size: 33
1555888 TACATTGTAA
1555898 AATGTATTGATACAATGAGCAATGTATCGATAC
1 AATGTATTGATACAATGAGCAATGTATCGATAC
1555931 AATGTATTGATACAATGAGCAATGTATCGATAC
1 AATGTATTGATACAATGAGCAATGTATCGATAC
1555964 AATG
1 AATG
1555968 CAAAATGTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.30
Consensus pattern (33 bp):
AATGTATTGATACAATGAGCAATGTATCGATAC
Found at i:1555941 original size:53 final size:53
Alignment explanation
Indices: 1555878--1555984 Score: 137
Period size: 53 Copynumber: 2.0 Consensus size: 53
1555868 AAAATGCCTG
* * * *
1555878 AATGTGTTGATACATTGTA-AAATGTATTGATACAATG-AGCAATGTATCGATAC
1 AATGTATTGATACAATG-AGAAATGTATCGATACAATGCA-AAATGTATCGATAC
*
1555931 AATGTATTGATACAATGAGCAATGTATCGATACAATGCAAAATGTATCGATAC
1 AATGTATTGATACAATGAGAAATGTATCGATACAATGCAAAATGTATCGATAC
1555984 A
1 A
1555985 TCTAGGTAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
52 1 0.02
53 45 0.96
54 1 0.02
ACGTcount: A:0.40, C:0.11, G:0.18, T:0.31
Consensus pattern (53 bp):
AATGTATTGATACAATGAGAAATGTATCGATACAATGCAAAATGTATCGATAC
Found at i:1555966 original size:13 final size:13
Alignment explanation
Indices: 1555917--1555947 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1555907 ATACAATGAG
1555917 CAATGTATCGATA
1 CAATGTATCGATA
*
1555930 CAATGTATTGATA
1 CAATGTATCGATA
1555943 CAATG
1 CAATG
1555948 AGCAATGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1555974 original size:20 final size:20
Alignment explanation
Indices: 1555897--1555984 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 20
1555887 ATACATTGTA
*
1555897 AAATGTATTGATACAATGAG
1 AAATGTATCGATACAATGAG
*
1555917 CAATGTATCGATAC------
1 AAATGTATCGATACAATGAG
*
1555931 -AATGTATTGATACAATGAG
1 AAATGTATCGATACAATGAG
*
1555950 CAATGTATCGATACAATGCA-
1 AAATGTATCGATACAATG-AG
1555970 AAATGTATCGATACA
1 AAATGTATCGATACA
1555985 TCTAGGTAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 16
0.72 0.07 0.21
Matches are distributed among these distances:
13 12 0.22
20 42 0.76
21 1 0.02
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.28
Consensus pattern (20 bp):
AAATGTATCGATACAATGAG
Found at i:1556047 original size:13 final size:13
Alignment explanation
Indices: 1556000--1556029 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
1555990 GTAAACCCAG
1556000 AATGTATCGATAC
1 AATGTATCGATAC
1556013 AATGTATCGATAC
1 AATGTATCGATAC
1556026 AATG
1 AATG
1556030 AACAATGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:1558134 original size:22 final size:21
Alignment explanation
Indices: 1558088--1558134 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
1558078 ATACTTTGGA
* *
1558088 TTATTTTTACTTGAAAACATT
1 TTATTTATACTTGAAAACATC
1558109 TTATTTATACCTTGAAAAACA-C
1 TTATTTATA-CTTG-AAAACATC
1558131 TTAT
1 TTAT
1558135 ACTTAATTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 8 0.36
22 8 0.36
23 6 0.27
ACGTcount: A:0.36, C:0.13, G:0.04, T:0.47
Consensus pattern (21 bp):
TTATTTATACTTGAAAACATC
Found at i:1559687 original size:2 final size:2
Alignment explanation
Indices: 1559680--1559709 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1559670 TTTACCATTT
1559680 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1559710 CACACTGTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1562585 original size:14 final size:14
Alignment explanation
Indices: 1562566--1562627 Score: 63
Period size: 14 Copynumber: 4.4 Consensus size: 14
1562556 ATATAATATA
1562566 TATTAAATATATTT
1 TATTAAATATATTT
*
1562580 TATTAATTATATTT
1 TATTAAATATATTT
* *
1562594 TATTATATTTA-TT
1 TATTAAATATATTT
*
1562607 TAATATAATATATTT
1 TATTA-AATATATTT
1562622 ATATTA
1 -TATTA
1562628 TGTTTAAAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
13 6 0.16
14 25 0.68
15 2 0.05
16 4 0.11
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TATTAAATATATTT
Found at i:1562598 original size:28 final size:29
Alignment explanation
Indices: 1562549--1562627 Score: 81
Period size: 28 Copynumber: 2.7 Consensus size: 29
1562539 TAAAATTTTA
*
1562549 AATATAAATATAATATATATTAAATATATTT
1 AATAT-AATAT-ATTTATATTAAATATATTT
* * *
1562580 TAT-TAATTATATTT-TATTATATTTATTT
1 AATATAA-TATATTTATATTAAATATATTT
1562608 AATATAATATATTTATATTA
1 AATATAATATATTTATATTA
1562628 TGTTTAAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
28 21 0.52
29 13 0.32
30 4 0.10
31 2 0.05
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (29 bp):
AATATAATATATTTATATTAAATATATTT
Found at i:1563120 original size:15 final size:16
Alignment explanation
Indices: 1563083--1563120 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
1563073 CAAGTCACGC
1563083 AAATAAAAATAATTAA
1 AAATAAAAATAATTAA
1563099 AATATAAAAA-AATTAA
1 AA-ATAAAAATAATTAA
1563115 AAATAA
1 AAATAA
1563121 TATAAATATC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.19
16 10 0.48
17 7 0.33
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
AAATAAAAATAATTAA
Found at i:1563159 original size:5 final size:5
Alignment explanation
Indices: 1563149--1563249 Score: 77
Period size: 5 Copynumber: 20.6 Consensus size: 5
1563139 TTTAGATTTT
* * * *
1563149 ATATA ATATA A-ATT AT-TA ATAT- ATATA AAATT ATATAA ATATA AAATTA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATAT-A ATATA ATA-TA
* * *
1563198 CTTTT ATATA ATTATA ATATA ATATA ATATA ATATA ATATA A-A-A ATATA
1 ATATA ATATA A-TATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1563247 ATA
1 ATA
1563250 AAAATATACG
Statistics
Matches: 74, Mismatches: 14, Indels: 16
0.71 0.13 0.15
Matches are distributed among these distances:
3 2 0.03
4 12 0.16
5 49 0.66
6 11 0.15
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:1563179 original size:18 final size:16
Alignment explanation
Indices: 1563147--1563246 Score: 68
Period size: 16 Copynumber: 6.3 Consensus size: 16
1563137 GTTTTAGATT
1563147 TTATATA-ATAT-AAA
1 TTATATATATATAAAA
1563161 TTATTAATATATATAAAA
1 TTA-T-ATATATATAAAA
*
1563179 TTATATAAATATAAAA
1 TTATATATATATAAAA
*
1563195 TTACT-T-T-TATATAA
1 TTA-TATATATATAAAA
*
1563209 TTATAATATAATATAATA
1 TTAT-ATAT-ATATAAAA
*
1563227 TAATATA-ATATAAAA
1 TTATATATATATAAAA
*
1563242 ATATA
1 TTATA
1563247 ATAAAAATAT
Statistics
Matches: 67, Mismatches: 9, Indels: 19
0.71 0.09 0.20
Matches are distributed among these distances:
13 1 0.01
14 12 0.18
15 12 0.18
16 19 0.28
17 9 0.13
18 14 0.21
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (16 bp):
TTATATATATATAAAA
Found at i:1563246 original size:13 final size:13
Alignment explanation
Indices: 1563213--1563257 Score: 58
Period size: 15 Copynumber: 3.5 Consensus size: 13
1563203 ATATAATTAT
1563213 AATATAATATAATA
1 AATATAATATAA-A
1563227 TAATATAATATAAA
1 -AATATAATATAAA
1563241 AATAT-A-ATAAA
1 AATATAATATAAA
1563252 AATATA
1 AATATA
1563258 CGAATATAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
11 10 0.34
12 1 0.03
13 5 0.17
14 1 0.03
15 12 0.41
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
AATATAATATAAA
Found at i:1564639 original size:2 final size:2
Alignment explanation
Indices: 1564632--1564658 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1564622 TAGAGTGGTG
1564632 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1564659 GTTTTTGGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1565970 original size:109 final size:107
Alignment explanation
Indices: 1565842--1566052 Score: 343
Period size: 108 Copynumber: 2.0 Consensus size: 107
1565832 CTCTGACAGC
* *
1565842 TTTTATAGTATTACAAATTTAATAATTTTAAAAAATTTCTTTTATAATAATAGTTTTTTCG-CTC
1 TTTTATAATATTACAAATTTAATAATTTTAAAAAATTTCTTTTATAATAAAAG-TTTTT-GACTC
1565906 TTTGATAAGTTATTCTTTTTTAATATAATCATATTTTTTTATTT
64 TTTGATAAGTTATTCTTTTTTAATATAATCATATTTTTTTATTT
*
1565950 TTTTCATAATATTACAAATTTAATAATTTTAAAAATTTTCTTTTATAATAAAAGTTTTTGACTCT
1 TTTT-ATAATATTACAAATTTAATAATTTTAAAAAATTTCTTTTATAATAAAAGTTTTTGACTCT
* *
1566015 TTGATAAGTTATTCTTTTTTAATATTATTATATTTTTT
65 TTGATAAGTTATTCTTTTTTAATATAATCATATTTTTT
1566053 GTTTTTTATT
Statistics
Matches: 96, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
107 1 0.01
108 49 0.51
109 46 0.48
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.56
Consensus pattern (107 bp):
TTTTATAATATTACAAATTTAATAATTTTAAAAAATTTCTTTTATAATAAAAGTTTTTGACTCTT
TGATAAGTTATTCTTTTTTAATATAATCATATTTTTTTATTT
Found at i:1567922 original size:17 final size:17
Alignment explanation
Indices: 1567880--1567922 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
1567870 TTTATCATCA
*
1567880 TTTAAATAATTTTATAT
1 TTTAATTAATTTTATAT
* *
1567897 TTTACTTAATTTTATTT
1 TTTAATTAATTTTATAT
1567914 TTTAATTAA
1 TTTAATTAA
1567923 ATACTTTTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTAATTAATTTTATAT
Found at i:1568257 original size:4 final size:4
Alignment explanation
Indices: 1568248--1568277 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
1568238 GCCAAATTCT
1568248 CAGA CAGA CAGA CAGA CAGA CAGA CAGA CA
1 CAGA CAGA CAGA CAGA CAGA CAGA CAGA CA
1568278 ACCTTTCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.50, C:0.27, G:0.23, T:0.00
Consensus pattern (4 bp):
CAGA
Found at i:1568305 original size:2 final size:2
Alignment explanation
Indices: 1568298--1568322 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1568288 TCAATCCCCA
1568298 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
1568323 CCCCTATAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:1572198 original size:25 final size:25
Alignment explanation
Indices: 1572170--1572217 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
1572160 ATGTATACAT
*
1572170 ATTTAAAATTTTAA-TATATTTAATA
1 ATTT-AAATTCTAATTATATTTAATA
*
1572195 ATTTATATTCTAATTATATTTAA
1 ATTTAAATTCTAATTATATTTAA
1572218 CGATTGATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (25 bp):
ATTTAAATTCTAATTATATTTAATA
Found at i:1572770 original size:32 final size:32
Alignment explanation
Indices: 1572697--1572770 Score: 78
Period size: 32 Copynumber: 2.3 Consensus size: 32
1572687 TTTTTGTTTC
** *
1572697 TTTATTTCCATTTAAATAATAATTTAAATTTA
1 TTTATTTATATTTAAATAATAATTTAAATTGA
* *
1572729 ATTATTTTATATTT-AATAATAATTTAAAATTGG
1 TTTA-TTTATATTTAAATAATAATTT-AAATTGA
1572762 TTTATTTAT
1 TTTATTTAT
1572771 TTCTTTTTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
32 19 0.56
33 15 0.44
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (32 bp):
TTTATTTATATTTAAATAATAATTTAAATTGA
Found at i:1573362 original size:93 final size:92
Alignment explanation
Indices: 1573166--1573446 Score: 436
Period size: 93 Copynumber: 3.0 Consensus size: 92
1573156 GCAATTATAC
* * *
1573166 TATTTCATAAAAATGCATGAATACCATATTGACTAATAAAACCAACGACACATTAACTAAATCTT
1 TATTTCATAAAAATACATG-ATACCATATTGACTAATAAAAACAACGACATATTAACT-AATCTT
*
1573231 AACCATGAAGGCAAATGAATTTGGCAATA
64 AACCATGAAGGCATATGAATTTGGCAATA
*
1573260 TATTTCATAAAAATACATGATACCACATTGACTAATAAAAACAACGACATATTAACTAATCTTAA
1 TATTTCATAAAAATACATGATACCATATTGACTAATAAAAACAACGACATATTAACTAATCTTAA
* *
1573325 ACATGAAGGCATCTGAATTTGGCAATA
66 CCATGAAGGCATATGAATTTGGCAATA
* * *
1573352 TATTTCCATAAAAATACAAGATACCATATTGACTAATAAAAACAGCGACATATTAACTATACCTT
1 TATTT-CATAAAAATACATGATACCATATTGACTAATAAAAACAACGACATATTAACTA-ATCTT
1573417 AACCATGAAGGCATATGAATTTGGCAATA
64 AACCATGAAGGCATATGAATTTGGCAATA
1573446 T
1 T
1573447 CTGAGTAAGA
Statistics
Matches: 172, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
92 37 0.22
93 85 0.49
94 50 0.29
ACGTcount: A:0.45, C:0.17, G:0.10, T:0.28
Consensus pattern (92 bp):
TATTTCATAAAAATACATGATACCATATTGACTAATAAAAACAACGACATATTAACTAATCTTAA
CCATGAAGGCATATGAATTTGGCAATA
Found at i:1579295 original size:21 final size:20
Alignment explanation
Indices: 1579269--1579308 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
1579259 TTCTTGCAGA
1579269 ATAAAAACTAACCTTAAAAAG
1 ATAAAAAC-AACCTTAAAAAG
* *
1579290 ATAAAAGCAATCTTAAAAA
1 ATAAAAACAACCTTAAAAA
1579309 TGTGCTCGCC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.62, C:0.12, G:0.05, T:0.20
Consensus pattern (20 bp):
ATAAAAACAACCTTAAAAAG
Found at i:1591938 original size:31 final size:31
Alignment explanation
Indices: 1591903--1591999 Score: 167
Period size: 31 Copynumber: 3.1 Consensus size: 31
1591893 GTTTGATATT
1591903 TCTTATTATTTTAAAATGTTATTTATTTATA
1 TCTTATTATTTTAAAATGTTATTTATTTATA
*
1591934 TCTTATTATTTTAAGATGTTATTTATTTATA
1 TCTTATTATTTTAAAATGTTATTTATTTATA
* *
1591965 TCTTATTATTTTAAAATATTATTTAATTATA
1 TCTTATTATTTTAAAATGTTATTTATTTATA
1591996 TCTT
1 TCTT
1592000 TTGTTAGTTT
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.61
Consensus pattern (31 bp):
TCTTATTATTTTAAAATGTTATTTATTTATA
Found at i:1591944 original size:14 final size:14
Alignment explanation
Indices: 1591925--1591975 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 14
1591915 AAAATGTTAT
1591925 TTATTTATATCTTA
1 TTATTTATATCTTA
* *
1591939 TTATTTTAAGATGTTA
1 TTA-TTT-ATATCTTA
1591955 TTTATTTATATCTTA
1 -TTATTTATATCTTA
1591970 TTATTT
1 TTATTT
1591976 TAAAATATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
14 9 0.30
15 9 0.30
16 9 0.30
17 3 0.10
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.65
Consensus pattern (14 bp):
TTATTTATATCTTA
Found at i:1593721 original size:17 final size:16
Alignment explanation
Indices: 1593680--1593718 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
1593670 ATTAGAGTTA
* *
1593680 TTTTAATTTTAAATTT
1 TTTTAAATTAAAATTT
*
1593696 TTTTGAATTAAAATTT
1 TTTTAAATTAAAATTT
1593712 TTTTAAA
1 TTTTAAA
1593719 ATTCAAACCT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (16 bp):
TTTTAAATTAAAATTT
Found at i:1594297 original size:2 final size:2
Alignment explanation
Indices: 1594286--1594330 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
1594276 CACTTATCTG
1594286 AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1594327 AT AT
1 AT AT
1594331 TTGGATGCCC
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:1595217 original size:2 final size:2
Alignment explanation
Indices: 1595210--1595249 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
1595200 AAAAGAAGGC
1595210 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1595250 AAGGATTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1599026 original size:19 final size:19
Alignment explanation
Indices: 1598998--1599043 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
1598988 TGCCTAGATT
*
1598998 ATCAGTTTCAAGGATCTTC
1 ATCAGCTTCAAGGATCTTC
*
1599017 ATCAGCTTCAAGGATTTTC
1 ATCAGCTTCAAGGATCTTC
1599036 ATCAGCTT
1 ATCAGCTT
1599044 TACTACTTCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (19 bp):
ATCAGCTTCAAGGATCTTC
Found at i:1603255 original size:52 final size:52
Alignment explanation
Indices: 1603177--1603305 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
1603167 CGAAATATGA
* *
1603177 AAATTTATCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTACCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
* *
1603229 AAATTTACCTGCATGTATTGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTACCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
*
1603281 AAATTTGCCTGCATGTATCGATACA
1 AAATTTACCTGCATGTATCGATACA
1603306 AAGATCAATG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.36
Consensus pattern (52 bp):
AAATTTACCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
Found at i:1603316 original size:52 final size:51
Alignment explanation
Indices: 1603177--1603325 Score: 201
Period size: 52 Copynumber: 2.9 Consensus size: 51
1603167 CGAAATATGA
* *
1603177 AAATTTATCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTACCTGCATGTATCGATACA-TTAATAATGTATCGATACATCTGGGC
* *
1603229 AAATTTACCTGCATGTATTGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTACCTGCATGTATCGATACA-TTAATAATGTATCGATACATCTGGGC
* *
1603281 AAATTTGCCTGCATGTATCGATACA-AAGATCAATGTATCGATACA
1 AAATTTACCTGCATGTATCGATACATTA-AT-AATGTATCGATACA
1603326 ATGTATCGAT
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 2 0.02
52 85 0.98
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (51 bp):
AAATTTACCTGCATGTATCGATACATTAATAATGTATCGATACATCTGGGC
Found at i:1603329 original size:13 final size:13
Alignment explanation
Indices: 1603311--1603338 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1603301 ATACAAAGAT
1603311 CAATGTATCGATA
1 CAATGTATCGATA
1603324 CAATGTATCGATA
1 CAATGTATCGATA
1603337 CA
1 CA
1603339 TTTGAGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1603416 original size:33 final size:33
Alignment explanation
Indices: 1603379--1603445 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1603369 AGTAGCTTAA
1603379 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1603412 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1603445 A
1 A
1603446 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1603419 original size:13 final size:13
Alignment explanation
Indices: 1603401--1603425 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1603391 CAAAAAAATA
1603401 TGTATCGATACAT
1 TGTATCGATACAT
1603414 TGTATCGATACA
1 TGTATCGATACA
1603426 ACATTTTATG
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):
TGTATCGATACAT
Found at i:1604419 original size:18 final size:18
Alignment explanation
Indices: 1604396--1604431 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
1604386 TTTTTAACCT
1604396 TCTTA-TTTTCCTTTCATC
1 TCTTATTTTTCC-TTCATC
1604414 TCTTATTTTTCCTTCATC
1 TCTTATTTTTCCTTCATC
1604432 CTTCCCATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.11, C:0.28, G:0.00, T:0.61
Consensus pattern (18 bp):
TCTTATTTTTCCTTCATC
Found at i:1609209 original size:22 final size:21
Alignment explanation
Indices: 1609184--1609227 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
1609174 AATTTTGAAT
*
1609184 TTCAATAATTTGTATCGATACA
1 TTCAATAA-ATGTATCGATACA
*
1609206 TTCAGTAAATGTATCGATACA
1 TTCAATAAATGTATCGATACA
1609227 T
1 T
1609228 AAGTTTGGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (21 bp):
TTCAATAAATGTATCGATACA
Found at i:1609296 original size:21 final size:21
Alignment explanation
Indices: 1609270--1609311 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
1609260 AGCTACTGCC
1609270 AAAGAAATGTATCGATACATT
1 AAAGAAATGTATCGATACATT
*
1609291 AAAGAAGTGTATCGATACATT
1 AAAGAAATGTATCGATACATT
1609312 GTATCGATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.45, C:0.10, G:0.17, T:0.29
Consensus pattern (21 bp):
AAAGAAATGTATCGATACATT
Found at i:1609316 original size:13 final size:13
Alignment explanation
Indices: 1609298--1609323 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1609288 ATTAAAGAAG
1609298 TGTATCGATACAT
1 TGTATCGATACAT
1609311 TGTATCGATACAT
1 TGTATCGATACAT
1609324 CGATCTTTGT
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:1611764 original size:52 final size:51
Alignment explanation
Indices: 1611707--1612086 Score: 180
Period size: 51 Copynumber: 7.3 Consensus size: 51
1611697 TTCATAATCG
* * *
1611707 GGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATTA
1 GGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCC-ATAATTA
* * * *
1611759 GGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAA-TC
1 GGGATACTCCAACCCCGATTTTATTTCC-AAAACACCAATTTTCCATAATTA
* * ** * * * * ***
1611810 GAGGATACTCCAACCTCGTTATTTCA-TTGGAGATACTCCAACCCCGTTACC-T-CCGA
1 G-GGATACTCCAACCCCG--ATTTTATTTCCA-AAACACCAA----TTTTCCATAATTA
** * *** * **
1611866 GGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTTTTCATAATCG
1 -GGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCATAATTA
* * ** * *
1611918 GGGATACTCCAACCCCGGTTTTATTTCTAAAACATTAATTTTCCACAA-TC
1 GGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCATAATTA
* * * * **
1611968 GGAGATACTCCAACCCCAATTTTATTTTCAAAACATCAATTTTCCTTTAATCG
1 GG-GATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCC-ATAATTA
* * * *
1612021 GGGATACTCCAACTCCGATTTTATTTCCAAAAACACAAAATTTT-CACAA-TC
1 GGGATACTCCAACCCCGATTTTATTTCC-AAAACAC-CAATTTTCCATAATTA
1612072 GAGGATACTCCAACC
1 G-GGATACTCCAACC
1612087 TCGTTATTTC
Statistics
Matches: 241, Mismatches: 67, Indels: 40
0.69 0.19 0.11
Matches are distributed among these distances:
50 5 0.02
51 83 0.34
52 81 0.34
53 33 0.14
54 17 0.07
55 3 0.01
56 15 0.06
57 4 0.02
ACGTcount: A:0.31, C:0.27, G:0.11, T:0.32
Consensus pattern (51 bp):
GGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCATAATTA
Found at i:1611929 original size:51 final size:51
Alignment explanation
Indices: 1611866--1612086 Score: 246
Period size: 51 Copynumber: 4.3 Consensus size: 51
1611856 TTACCTCCGA
** * * *
1611866 GGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACATTAATTTTCCATAATC
* * *
1611917 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATTAATTTTCCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACATTAATTTTCCATAATC
* * * * *
1611968 GGAGATACTCCAACCCCAATTTTATTTTCAAAACATCAATTTTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACATTAATTTTCC-ATAATC
* ** *
1612020 GGGGATACTCCAACTCCGATTTTATTTCCAAAAACACAAAATTTT-CACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCC-AAAACA-TTAATTTTCCATAATC
*
1612072 GAGGATACTCCAACC
1 GGGGATACTCCAACC
1612087 TCGTTATTTC
Statistics
Matches: 143, Mismatches: 24, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
51 84 0.59
52 46 0.32
53 7 0.05
54 6 0.04
ACGTcount: A:0.32, C:0.25, G:0.11, T:0.32
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAACATTAATTTTCCATAATC
Found at i:1612177 original size:262 final size:262
Alignment explanation
Indices: 1611702--1612194 Score: 878
Period size: 262 Copynumber: 1.9 Consensus size: 262
1611692 AATTGTTCAT
* ** *
1611702 AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATTAGGGATACT
1 AATCGGAGATACTCCAACCCCAATTTTATTTTCAAAACACCAATTTTCCTTTAATCAGGGATACT
* *
1611767 CCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTAT
66 CCAACTCCGATTTTATTTCCAAAAACACAAAATTTTCACAATCGAGGATACTCCAACCTCGTTAT
*
1611832 TTCATTGGAGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCAA
131 TTCATCGGAGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCAA
*
1611897 AATATTGATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATTAATTTTCC
196 AATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATTAATTTTCC
1611962 AC
261 AC
* *
1611964 AATCGGAGATACTCCAACCCCAATTTTATTTTCAAAACATCAATTTTCCTTTAATCGGGGATACT
1 AATCGGAGATACTCCAACCCCAATTTTATTTTCAAAACACCAATTTTCCTTTAATCAGGGATACT
1612029 CCAACTCCGATTTTATTTCCAAAAACACAAAATTTTCACAATCGAGGATACTCCAACCTCGTTAT
66 CCAACTCCGATTTTATTTCCAAAAACACAAAATTTTCACAATCGAGGATACTCCAACCTCGTTAT
*
1612094 TTCATCGGAGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCTGGCTTTATTTCCAA
131 TTCATCGGAGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCAA
*
1612159 AATATTGATTTCTCATAATTGGGGATACTCCAACCC
196 AATATTGATTTCTCATAATCGGGGATACTCCAACCC
1612195 TGTTATTTCT
Statistics
Matches: 219, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
262 219 1.00
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.31
Consensus pattern (262 bp):
AATCGGAGATACTCCAACCCCAATTTTATTTTCAAAACACCAATTTTCCTTTAATCAGGGATACT
CCAACTCCGATTTTATTTCCAAAAACACAAAATTTTCACAATCGAGGATACTCCAACCTCGTTAT
TTCATCGGAGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCAA
AATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATTAATTTTCC
AC
Found at i:1612192 original size:79 final size:78
Alignment explanation
Indices: 1612103--1612301 Score: 236
Period size: 79 Copynumber: 2.5 Consensus size: 78
1612093 TTTCATCGGA
** * *
1612103 GATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCTGGCTTTATTTCCAAAATATTGAT
1 GATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCC-GACTTTATTTCCAAAATATCGAT
* **
1612168 TTCTCATAATTGGG
65 TTCTCACAACCGGG
* * * * *
1612182 GATACTCCAACCCTGTTATTTCTGAGGGGATACTCCAATCCCGATTTTATTTCCTAATTATCGAT
1 GATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAA-CCCGACTTTATTTCCAAAATATCGAT
*
1612247 TTTTCACAACCGGG
65 TTCTCACAACCGGG
* * *
1612261 GATACTCCAACCCCGTTATTTTCAAGGGGATACTCTAACCC
1 GATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCC
1612302 CATTATTATC
Statistics
Matches: 101, Mismatches: 18, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
78 3 0.03
79 95 0.94
80 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.32
Consensus pattern (78 bp):
GATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCGACTTTATTTCCAAAATATCGATT
TCTCACAACCGGG
Found at i:1613642 original size:53 final size:49
Alignment explanation
Indices: 1613503--1613675 Score: 166
Period size: 53 Copynumber: 3.4 Consensus size: 49
1613493 GTAGGGACGA
** * * * *
1613503 ATTGGCATATTCATCTTTAAATCCAATGTCGTTGGCCTGGAATCAACAC
1 ATTGGCACCTTCATCTTTAAAACCAATATCGTTGGCCTTGAATCAGCAC
** * * *
1613552 ATTGGCACCTTCATCTTTAAAGATTAGTATCGCTGGCCTTGAATCAGCAT
1 ATTGGCACCTTCATCTTTAAA-ACCAATATCGTTGGCCTTGAATCAGCAC
*
1613602 ATTGGCGCCTTTGTCATCTTTAAAACCCAATATCGTTGGCCTTGAATCAGCAC
1 ATTGGCACC--T-TCATCTTTAAAA-CCAATATCGTTGGCCTTGAATCAGCAC
1613655 ATTGGCATTCCTCTCATCTTT
1 ATTGGCA--CCT-TCATCTTT
1613676 GAGCCCTATA
Statistics
Matches: 98, Mismatches: 19, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
49 19 0.19
50 27 0.28
52 2 0.02
53 48 0.49
55 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (49 bp):
ATTGGCACCTTCATCTTTAAAACCAATATCGTTGGCCTTGAATCAGCAC
Found at i:1614395 original size:19 final size:19
Alignment explanation
Indices: 1614371--1614434 Score: 86
Period size: 19 Copynumber: 3.7 Consensus size: 19
1614361 TTTCAACGAT
1614371 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
1614390 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
1614404 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
1614422 TTGTATCGATACA
1 TTGTATCGATACA
1614435 ATGTATCGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.28
15 2 0.05
17 2 0.05
19 24 0.62
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:1614408 original size:32 final size:32
Alignment explanation
Indices: 1614372--1614447 Score: 152
Period size: 32 Copynumber: 2.4 Consensus size: 32
1614362 TTCAACGATT
1614372 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
1614404 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
1614436 TGTATCGATACA
1 TGTATCGATACA
1614448 AGGTCCCAAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.34
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:1614409 original size:13 final size:13
Alignment explanation
Indices: 1614391--1614448 Score: 62
Period size: 13 Copynumber: 4.0 Consensus size: 13
1614381 ACATAAGTGT
1614391 TGTATCGATACAA
1 TGTATCGATACAA
1614404 TGTATCGATACATAA
1 TGTATCGATAC--AA
1614419 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
1614436 TGTATCGATACAA
1 TGTATCGATACAA
1614449 GGTCCCAACG
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 24 0.62
15 2 0.05
17 2 0.05
19 11 0.28
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1614508 original size:19 final size:18
Alignment explanation
Indices: 1614483--1614611 Score: 117
Period size: 19 Copynumber: 7.8 Consensus size: 18
1614473 ATTTCAACGA
1614483 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
1614501 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
1614517 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
1614533 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
1614549 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
1614565 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
1614581 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
1614597 TTTTGTATCGATACA
1 -TTTGTATCGATACA
1614612 ATGTATCGCT
Statistics
Matches: 92, Mismatches: 0, Indels: 37
0.71 0.00 0.29
Matches are distributed among these distances:
13 33 0.36
15 6 0.07
17 6 0.07
18 1 0.01
19 46 0.50
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.36
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:1614519 original size:113 final size:113
Alignment explanation
Indices: 1614321--1614560 Score: 480
Period size: 113 Copynumber: 2.1 Consensus size: 113
1614311 ACATTGTTAG
1614321 AATGTATCGATACAAGGTCCCAACGGTCAAAAATTTTGAATTTCAACGATTTGTATCGATACATA
1 AATGTATCGATACAAGGTCCCAACGGTCAAAAATTTTGAATTTCAACGATTTGTATCGATACATA
1614386 AGTGTTGTATCGATACAATGTATCGATACATAAGTGTTGTATCGATAC
66 AGTGTTGTATCGATACAATGTATCGATACATAAGTGTTGTATCGATAC
1614434 AATGTATCGATACAAGGTCCCAACGGTCAAAAATTTTGAATTTCAACGATTTGTATCGATACATA
1 AATGTATCGATACAAGGTCCCAACGGTCAAAAATTTTGAATTTCAACGATTTGTATCGATACATA
1614499 AGTGTTGTATCGATACAATGTATCGATACATAAGTGTTGTATCGATAC
66 AGTGTTGTATCGATACAATGTATCGATACATAAGTGTTGTATCGATAC
1614547 AATGTATCGATACA
1 AATGTATCGATACA
1614561 TAAGTGTTGT
Statistics
Matches: 127, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
113 127 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (113 bp):
AATGTATCGATACAAGGTCCCAACGGTCAAAAATTTTGAATTTCAACGATTTGTATCGATACATA
AGTGTTGTATCGATACAATGTATCGATACATAAGTGTTGTATCGATAC
Found at i:1614521 original size:32 final size:32
Alignment explanation
Indices: 1614485--1614619 Score: 261
Period size: 32 Copynumber: 4.2 Consensus size: 32
1614475 TTCAACGATT
1614485 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
1614517 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
1614549 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
1614581 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
1614613 TGTATCG
1 TGTATCG
1614620 CTACGAAGCT
Statistics
Matches: 102, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
32 102 1.00
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:1614522 original size:13 final size:13
Alignment explanation
Indices: 1614504--1614592 Score: 70
Period size: 13 Copynumber: 5.9 Consensus size: 13
1614494 ACATAAGTGT
1614504 TGTATCGATACAA
1 TGTATCGATACAA
1614517 TGTATCGATACATAA
1 TGTATCGATAC--AA
1614532 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
1614549 TGTATCGATACATAA
1 TGTATCGATAC--AA
1614564 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
1614581 TGTATCGATACA
1 TGTATCGATACA
1614593 TAAGTTTTGT
Statistics
Matches: 64, Mismatches: 0, Indels: 24
0.73 0.00 0.27
Matches are distributed among these distances:
13 34 0.53
15 4 0.06
17 4 0.06
19 22 0.34
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1614668 original size:96 final size:96
Alignment explanation
Indices: 1614485--1614689 Score: 229
Period size: 96 Copynumber: 2.1 Consensus size: 96
1614475 TTCAACGATT
* ** * *
1614485 TGTATCGATACATAAGTGTTGTATCGATACAATGTATCGATACATAAGTGTTGTATCGATACAAT
1 TGTATCGATACATAAGTGTTGTATCGATACAATGTATCGATACAGAAGTACTGCATAGATACAAT
* ** *
1614550 GTATCGATACATAAGTGTTGTATCGATACAA
66 GTATCGATACATAACTAATGTATCAATACAA
* *
1614581 TGTATCGATACATAAGTTTTGTATCGATACAATGTATCGCTAC-GAAGCTACTGCCA-AGA-A-A
1 TGTATCGATACATAAGTGTTGTATCGATACAATGTATCGATACAGAAG-TACTG-CATAGATACA
* *
1614642 ATGTATCGATACATTACTCAAATGTATCAATACAT
64 ATGTATCGATACATAACT--AATGTATCAATACAA
1614677 TGTATCGATACAT
1 TGTATCGATACAT
1614690 GCAAGCAAAT
Statistics
Matches: 92, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
94 17 0.18
95 4 0.04
96 70 0.76
97 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (96 bp):
TGTATCGATACATAAGTGTTGTATCGATACAATGTATCGATACAGAAGTACTGCATAGATACAAT
GTATCGATACATAACTAATGTATCAATACAA
Found at i:1614757 original size:52 final size:52
Alignment explanation
Indices: 1614679--1614805 Score: 218
Period size: 52 Copynumber: 2.4 Consensus size: 52
1614669 CAATACATTG
* *
1614679 TATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACACTATGAAATA
1 TATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACCATGAAATA
* *
1614731 TATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACCATGAAATG
1 TATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACCATGAAATA
1614783 TATCGATACATGCAGGCAAATTT
1 TATCGATACATGCAGGCAAATTT
1614806 TCATATTTCG
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.27
Consensus pattern (52 bp):
TATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACCATGAAATA
Found at i:1628653 original size:15 final size:15
Alignment explanation
Indices: 1628617--1628733 Score: 93
Period size: 15 Copynumber: 8.0 Consensus size: 15
1628607 CCTCCACAAA
1628617 AAAAAAAACCAAATAA-
1 AAAAAAAA-CAAA-AAG
* *
1628633 ACAAAAAA-AAGAAG
1 AAAAAAAACAAAAAG
*
1628647 AAAAAAAACAAAACG
1 AAAAAAAACAAAAAG
1628662 AAAAAAAACAAACAA-
1 AAAAAAAACAAA-AAG
*
1628677 AAAAAAAAGAAAAAG
1 AAAAAAAACAAAAAG
*
1628692 AAAAAAAA-ACAAA-
1 AAAAAAAACAAAAAG
* *
1628705 CAAACAAACAAAAA-
1 AAAAAAAACAAAAAG
*
1628719 AAAAACAACAAAAAG
1 AAAAAAAACAAAAAG
1628734 GGTCTGGATG
Statistics
Matches: 81, Mismatches: 14, Indels: 13
0.75 0.13 0.12
Matches are distributed among these distances:
13 8 0.10
14 30 0.37
15 35 0.43
16 8 0.10
ACGTcount: A:0.83, C:0.11, G:0.05, T:0.01
Consensus pattern (15 bp):
AAAAAAAACAAAAAG
Found at i:1628669 original size:30 final size:28
Alignment explanation
Indices: 1628615--1628723 Score: 105
Period size: 30 Copynumber: 3.8 Consensus size: 28
1628605 GTCCTCCACA
* * *
1628615 AAAAAAAAAACCAAATAAACAAAAAAAAG
1 AAAAAAAAAACAAAAGAAA-AAAAAAAAC
1628644 AAGAAAAAAAACAAAACGAAAAAAAACAAAC
1 AA-AAAAAAAACAAAA-GAAAAAAAA-AAAC
* *
1628675 AAAAAAAAAAGAAAA-AGAAAAAAAAAC
1 AAAAAAAAAACAAAAGAAAAAAAAAAAC
*
1628702 AAACAAACAAACAAAA-AAAAAA
1 AAA-AAAAAAACAAAAGAAAAAA
1628724 CAACAAAAAG
Statistics
Matches: 68, Mismatches: 8, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
27 7 0.10
28 22 0.32
29 2 0.03
30 29 0.43
31 8 0.12
ACGTcount: A:0.84, C:0.10, G:0.05, T:0.01
Consensus pattern (28 bp):
AAAAAAAAAACAAAAGAAAAAAAAAAAC
Found at i:1628682 original size:31 final size:30
Alignment explanation
Indices: 1628612--1628732 Score: 111
Period size: 31 Copynumber: 3.9 Consensus size: 30
1628602 GGCGTCCTCC
* *
1628612 ACAAAAAAAAAAACCAAATAAACAAAAA-AA
1 ACAAAAAAAAAAACAAAAGAAA-AAAAACAA
* *
1628642 AGAAGAAAAAAAACAAAACGAAAAAAAACAA
1 ACAAAAAAAAAAACAAAA-GAAAAAAAACAA
1628673 ACAAAAAAAAAAGA-AAAAGAAAAAAAAACAA
1 ACAAAAAAAAAA-ACAAAAG-AAAAAAAACAA
* * *
1628704 ACAAACAAACAAAAAAAAAACAACAAAAA
1 ACAAA-AAA-AAAAACAAAAGAAAAAAAA
1628733 GGGTCTGGAT
Statistics
Matches: 76, Mismatches: 8, Indels: 12
0.79 0.08 0.12
Matches are distributed among these distances:
30 21 0.28
31 35 0.46
32 12 0.16
33 8 0.11
ACGTcount: A:0.83, C:0.12, G:0.04, T:0.01
Consensus pattern (30 bp):
ACAAAAAAAAAAACAAAAGAAAAAAAACAA
Found at i:1628690 original size:39 final size:38
Alignment explanation
Indices: 1628614--1628732 Score: 136
Period size: 39 Copynumber: 3.1 Consensus size: 38
1628604 CGTCCTCCAC
* *
1628614 AAAAAAAAA-AACCAAATAAACAAAAAAAAGAAGAAAAA
1 AAAAAAAAACAAACAAACAAACAAAAAAAA-AAGAAAAA
1628652 AAACAAAACGAA-AAA-AAACAAACAAAAAAAAAAGAAAAA
1 AAA-AAAA--AACAAACAAACAAACAAAAAAAAAAGAAAAA
* *
1628691 GAAAAAAAAACAAACAAACAAACAAAAAAAAAACAACAA
1 -AAAAAAAAACAAACAAACAAACAAAAAAAAAAGAAAAA
1628730 AAA
1 AAA
1628733 GGGTCTGGAT
Statistics
Matches: 71, Mismatches: 4, Indels: 12
0.82 0.05 0.14
Matches are distributed among these distances:
37 2 0.03
38 9 0.13
39 38 0.54
40 18 0.25
41 4 0.06
ACGTcount: A:0.84, C:0.11, G:0.04, T:0.01
Consensus pattern (38 bp):
AAAAAAAAACAAACAAACAAACAAAAAAAAAAGAAAAA
Found at i:1628732 original size:1 final size:1
Alignment explanation
Indices: 1628614--1628723 Score: 67
Period size: 1 Copynumber: 110.0 Consensus size: 1
1628604 CGTCCTCCAC
** * * * * * ** * *
1628614 AAAAAAAAAAACCAAATAAACAAAAAAAAGAAGAAAAAAAACAAAACGAAAAAAAACAAACAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * *
1628679 AAAAAAGAAAAAGAAAAAAAAACAAACAAACAAACAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1628724 CAACAAAAAG
Statistics
Matches: 78, Mismatches: 31, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 78 1.00
ACGTcount: A:0.85, C:0.10, G:0.05, T:0.01
Consensus pattern (1 bp):
A
Found at i:1630256 original size:28 final size:28
Alignment explanation
Indices: 1630189--1630435 Score: 322
Period size: 28 Copynumber: 8.8 Consensus size: 28
1630179 TATCTTTTTC
* *
1630189 AAAGCCTACAAGTCAGTGGCAACCTTC-
1 AAAGCCCACAAATCAGTGGCAACCTTCA
1630216 AAAGCCCACAAATCAGTGGCAACCTTCA
1 AAAGCCCACAAATCAGTGGCAACCTTCA
1630244 AAAGCCCACAAATCAGTGGCAACCTTCA
1 AAAGCCCACAAATCAGTGGCAACCTTCA
* * *
1630272 AAAGCCCACAAGTCAGTGGCACCCTTTTTA
1 AAAGCCCACAAATCAGTGGCAACC--TTCA
*
1630302 AAAGCCCACAAATCAGTAGCAACCTTC-
1 AAAGCCCACAAATCAGTGGCAACCTTCA
*
1630329 AAAGCCCACAAATCAGGGGCAACCTTCA
1 AAAGCCCACAAATCAGTGGCAACCTTCA
*
1630357 AAAGCCCACAAGTCAGTGGC-ACCTTTTTTC-
1 AAAGCCCACAAATCAGTGGCAACC----TTCA
1630387 AAAGCCCACAAATCAGTGGCAACCTTCA
1 AAAGCCCACAAATCAGTGGCAACCTTCA
* *
1630415 AAAGCCCACAAGTCCGTGGCA
1 AAAGCCCACAAATCAGTGGCA
1630436 TCTTTTTCCT
Statistics
Matches: 194, Mismatches: 16, Indels: 19
0.85 0.07 0.08
Matches are distributed among these distances:
27 56 0.29
28 89 0.46
30 43 0.22
31 6 0.03
ACGTcount: A:0.36, C:0.32, G:0.16, T:0.17
Consensus pattern (28 bp):
AAAGCCCACAAATCAGTGGCAACCTTCA
Found at i:1630353 original size:113 final size:112
Alignment explanation
Indices: 1630155--1630425 Score: 361
Period size: 113 Copynumber: 2.4 Consensus size: 112
1630145 TCCTCACCCT
* * * * * * *
1630155 TTTCAAAAGCCCACAAGTTAGTGGTATCTTTTTCAAAGCCTACAAGTCAGTGGCAACCTTCAAAG
1 TTTCAAAAGCCCACAAGTCAGTGGCACCTTTTTAAAAGCCCACAAATCAGTAGCAACCTTCAAAG
*
1630220 CCCACAAATCAGTGGCAACCTTCAAAAGCCCACAAATCAGTGGCAACC
66 CCCACAAATCAGGGGCAACCTTCAAAAGCCCACAAATCAGTGGC-ACC
1630268 -TTCAAAAGCCCACAAGTCAGTGGCACCCTTTTTAAAAGCCCACAAATCAGTAGCAACCTTCAAA
1 TTTCAAAAGCCCACAAGTCAGTGGCA-CCTTTTTAAAAGCCCACAAATCAGTAGCAACCTTCAAA
*
1630332 GCCCACAAATCAGGGGCAACCTTCAAAAGCCCACAAGTCAGTGGCACC
65 GCCCACAAATCAGGGGCAACCTTCAAAAGCCCACAAATCAGTGGCACC
* *
1630380 TTTTTTC-AAAGCCCACAAATCAGTGGCAACC--TTCAAAAGCCCACAA
1 ---TTTCAAAAGCCCACAAGTCAGTGGC-ACCTTTTTAAAAGCCCACAA
1630426 GTCCGTGGCA
Statistics
Matches: 141, Mismatches: 11, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
112 26 0.18
113 90 0.64
115 21 0.15
116 4 0.03
ACGTcount: A:0.35, C:0.30, G:0.15, T:0.19
Consensus pattern (112 bp):
TTTCAAAAGCCCACAAGTCAGTGGCACCTTTTTAAAAGCCCACAAATCAGTAGCAACCTTCAAAG
CCCACAAATCAGGGGCAACCTTCAAAAGCCCACAAATCAGTGGCACC
Found at i:1630358 original size:85 final size:86
Alignment explanation
Indices: 1630189--1630425 Score: 392
Period size: 85 Copynumber: 2.8 Consensus size: 86
1630179 TATCTTTTTC
* *
1630189 AAAGCCTACAAGTCAGTGGCAACC---TTCAAAGCCCACAAATCAGTGGCAACCTTCAAAAGCCC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTTCAAAGCCCACAAATCAGTGGCAACCTTCAAAAGCCC
*
1630251 ACAAATCAGTGGCAACCTTCA
66 ACAAATCAGGGGCAACCTTCA
* *
1630272 AAAGCCCACAAGTCAGTGGCACCCTTTTTAAAAGCCCACAAATCAGTAGCAACCTTC-AAAGCCC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTTCAAAGCCCACAAATCAGTGGCAACCTTCAAAAGCCC
1630336 ACAAATCAGGGGCAACCTTCA
66 ACAAATCAGGGGCAACCTTCA
*
1630357 AAAGCCCACAAGTCAGTGGCACCTTTTTTCAAAGCCCACAAATCAGTGGCAACCTTCAAAAGCCC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTTCAAAGCCCACAAATCAGTGGCAACCTTCAAAAGCCC
1630422 ACAA
66 ACAA
1630426 GTCCGTGGCA
Statistics
Matches: 142, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
83 22 0.15
85 81 0.57
86 39 0.27
ACGTcount: A:0.37, C:0.32, G:0.15, T:0.16
Consensus pattern (86 bp):
AAAGCCCACAAGTCAGTGGCACCCTTTTTCAAAGCCCACAAATCAGTGGCAACCTTCAAAAGCCC
ACAAATCAGGGGCAACCTTCA
Found at i:1630504 original size:31 final size:32
Alignment explanation
Indices: 1630416--1630504 Score: 108
Period size: 31 Copynumber: 2.8 Consensus size: 32
1630406 CAACCTTCAA
* *
1630416 AAGCCCACAAGTCCGTGGCATCTTTTTCCTTTT
1 AAGCCCACAACTCCGTGGCA-CCTTTTCCTTTT
**
1630449 AAGCCCACAACTCCGTGGTGCCTTTT-CTTTT
1 AAGCCCACAACTCCGTGGCACCTTTTCCTTTT
* *
1630480 AAGTCCACAACTTCGTGGCACCTTT
1 AAGCCCACAACTCCGTGGCACCTTT
1630505 AAGCCCAATA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
31 26 0.54
32 5 0.10
33 17 0.35
ACGTcount: A:0.19, C:0.31, G:0.16, T:0.34
Consensus pattern (32 bp):
AAGCCCACAACTCCGTGGCACCTTTTCCTTTT
Done.