Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007963.1 Hibiscus syriacus cultivar Beakdansim tig00110392_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1627826
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 7
Found at i:396565 original size:13 final size:14
Alignment explanation
Indices: 396547--396577 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
396537 TGAAAAAACA
396547 ATATTATTTTA-TT
1 ATATTATTTTACTT
396560 ATATTATTTTACTT
1 ATATTATTTTACTT
396574 ATAT
1 ATAT
396578 ATAAGTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (14 bp):
ATATTATTTTACTT
Found at i:397534 original size:14 final size:15
Alignment explanation
Indices: 397515--397544 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
397505 TTGAGTATTA
397515 TTTT-AATTTAAATT
1 TTTTAAATTTAAATT
397529 TTTTAAATTTAAATT
1 TTTTAAATTTAAATT
397544 T
1 T
397545 GATTCATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTTAAATTTAAATT
Found at i:397607 original size:4 final size:4
Alignment explanation
Indices: 397598--397626 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
397588 GATTCCTATG
397598 AATA AATA AATA AATA AATA AATA AATA A
1 AATA AATA AATA AATA AATA AATA AATA A
397627 TTTTATCGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:398039 original size:45 final size:44
Alignment explanation
Indices: 397975--398071 Score: 122
Period size: 45 Copynumber: 2.2 Consensus size: 44
397965 AGTATCAATA
* * * *
397975 GGTTGGTGGTTAATAATTATCCTTTACTAACTCGGGTAGGTTGGT
1 GGTTGGTGATTAATAATTATCCATTAATAAC-CCGGTAGGTTGGT
* *
398020 GGTTGGTGATTATTAATTATCCATTAATATCCCGGTAGGTTGGT
1 GGTTGGTGATTAATAATTATCCATTAATAACCCGGTAGGTTGGT
*
398064 TGTTGGTG
1 GGTTGGTG
398072 GTTGCACAGG
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.42
45 26 0.58
ACGTcount: A:0.20, C:0.10, G:0.29, T:0.41
Consensus pattern (44 bp):
GGTTGGTGATTAATAATTATCCATTAATAACCCGGTAGGTTGGT
Found at i:401052 original size:27 final size:27
Alignment explanation
Indices: 401015--401348 Score: 95
Period size: 27 Copynumber: 11.8 Consensus size: 27
401005 CATATTATGG
401015 ATAATATCAATAGTTGAATGAATGTGA
1 ATAATATCAATAGTTGAATGAATGTGA
* **
401042 ATAATATCAATAGTTGAATTAATACGA
1 ATAATATCAATAGTTGAATGAATGTGA
* * * * *
401069 TTAATATAAATAATTGAATTAATATGTTGG
1 ATAATATCAATAGTTGAA-TGA-ATG-TGA
* * * * *
401099 ATATTTGTTGGCGATATATTTTAATGAATATGA
1 ATA-AT-AT--C-A-ATAGTTGAATGAATGTGA
* * *
401132 TTAGATA-CAAT-G-TAAAAGAAATGTGA
1 ATA-ATATCAATAGTTGAATG-AATGTGA
*
401158 ATAATATCAATAGTTGAATTAATGTGA
1 ATAATATCAATAGTTGAATGAATGTGA
* * * *
401185 TTAATATCAATATTTGAATTAATATGTTGG
1 ATAATATCAATAGTTGAA-TGA-ATG-TGA
* * * * *
401215 ATATTTGTTGACGATATATTTTAATGAATATGA
1 ATA-AT-AT--C-A-ATAGTTGAATGAATGTGA
* * **
401248 TTAATATCAATAG--AAAAAAAGTGTGA
1 ATAATATCAATAGTTGAATGAA-TGTGA
* *
401274 ATAATATCAATAGTCGAATTAATGTGA
1 ATAATATCAATAGTTGAATGAATGTGA
* * * *
401301 TTAATATCAATATTTGAATTAATATG-
1 ATAATATCAATAGTTGAATGAATGTGA
*
401327 ATGAATATTAATAGTTGAATGA
1 AT-AATATCAATAGTTGAATGA
401349 TGGATATTAA
Statistics
Matches: 219, Mismatches: 62, Indels: 52
0.66 0.19 0.16
Matches are distributed among these distances:
25 11 0.05
26 29 0.13
27 111 0.51
28 13 0.06
29 7 0.03
30 7 0.03
31 3 0.01
32 3 0.01
33 9 0.04
34 5 0.02
35 6 0.03
36 15 0.07
ACGTcount: A:0.43, C:0.04, G:0.15, T:0.38
Consensus pattern (27 bp):
ATAATATCAATAGTTGAATGAATGTGA
Found at i:401187 original size:116 final size:115
Alignment explanation
Indices: 401035--401335 Score: 480
Period size: 116 Copynumber: 2.6 Consensus size: 115
401025 TAGTTGAATG
** * *
401035 AATGTGAATAATATCAATAGTTGAATTAATACGATTAATATAAATAATTGAATTAATATGTTGGA
1 AATGTGAATAATATCAATAGTTGAATTAATGTGATTAATATCAATATTTGAATTAATATGTTGGA
*
401100 TATTTGTTGGCGATATATTTTAATGAATATGATTAGATA-CAAT-GTAAAAGA
66 TATTTGTTGACGATATATTTTAATGAATATGATTA-ATATCAATAG-AAAA-A
401151 AATGTGAATAATATCAATAGTTGAATTAATGTGATTAATATCAATATTTGAATTAATATGTTGGA
1 AATGTGAATAATATCAATAGTTGAATTAATGTGATTAATATCAATATTTGAATTAATATGTTGGA
401216 TATTTGTTGACGATATATTTTAATGAATATGATTAATATCAATAGAAAAA
66 TATTTGTTGACGATATATTTTAATGAATATGATTAATATCAATAGAAAAA
* * *
401266 AAGTGTGAATAATATCAATAGTCGAATTAATGTGATTAATATCAATATTTGAATTAATATGATGA
1 AA-TGTGAATAATATCAATAGTTGAATTAATGTGATTAATATCAATATTTGAATTAATATGTTGG
401331 ATATT
65 ATATT
401336 AATAGTTGAA
Statistics
Matches: 174, Mismatches: 8, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
115 6 0.03
116 167 0.96
117 1 0.01
ACGTcount: A:0.43, C:0.04, G:0.15, T:0.39
Consensus pattern (115 bp):
AATGTGAATAATATCAATAGTTGAATTAATGTGATTAATATCAATATTTGAATTAATATGTTGGA
TATTTGTTGACGATATATTTTAATGAATATGATTAATATCAATAGAAAAA
Found at i:409607 original size:20 final size:19
Alignment explanation
Indices: 409582--409626 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 19
409572 AGTTGATGGT
*
409582 AAAAGATGAAGAAGATGAAG
1 AAAAGATGAA-AAGAAGAAG
409602 AAAAGA--AAAAGAAGAAG
1 AAAAGATGAAAAGAAGAAG
409619 AAAA-ATGA
1 AAAAGATGA
409627 GGTAGGCATT
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
16 1 0.05
17 12 0.55
18 3 0.14
20 6 0.27
ACGTcount: A:0.69, C:0.00, G:0.24, T:0.07
Consensus pattern (19 bp):
AAAAGATGAAAAGAAGAAG
Found at i:410452 original size:18 final size:18
Alignment explanation
Indices: 410429--410466 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
410419 CAAAGCAATT
410429 TGGGTACCAAAATCCAAA
1 TGGGTACCAAAATCCAAA
410447 TGGGTACCAAAATCCAAA
1 TGGGTACCAAAATCCAAA
410465 TG
1 TG
410467 AATGTCTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.18
Consensus pattern (18 bp):
TGGGTACCAAAATCCAAA
Found at i:413090 original size:2 final size:2
Alignment explanation
Indices: 413083--413122 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
413073 AAAATTTAGA
413083 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
413123 TCAAAAATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:413598 original size:20 final size:20
Alignment explanation
Indices: 413573--413650 Score: 84
Period size: 20 Copynumber: 3.8 Consensus size: 20
413563 GATGCTACAA
* *
413573 GAACAATATCAGTACTGGAT
1 GAACAATATCAATACTGTAT
*
413593 GAACAATATCAATACCTAGTAA
1 GAACAATATCAATA-CT-GTAT
*
413615 GAACAATATCAATATTGTAT
1 GAACAATATCAATACTGTAT
* *
413635 GAACGATATCTATACT
1 GAACAATATCAATACT
413651 AAATGCTCTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
20 29 0.60
21 3 0.06
22 16 0.33
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (20 bp):
GAACAATATCAATACTGTAT
Found at i:413621 original size:22 final size:20
Alignment explanation
Indices: 413571--413628 Score: 71
Period size: 22 Copynumber: 2.8 Consensus size: 20
413561 GCGATGCTAC
*
413571 AAGAACAATATCAGTACTGG
1 AAGAACAATATCAATACTGG
* *
413591 ATGAACAATATCAATACCTAGT
1 AAGAACAATATCAATA-CT-GG
413613 AAGAACAATATCAATA
1 AAGAACAATATCAATA
413629 TTGTATGAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 14 0.44
21 2 0.06
22 16 0.50
ACGTcount: A:0.50, C:0.16, G:0.12, T:0.22
Consensus pattern (20 bp):
AAGAACAATATCAATACTGG
Found at i:420635 original size:93 final size:94
Alignment explanation
Indices: 420454--420665 Score: 268
Period size: 93 Copynumber: 2.3 Consensus size: 94
420444 GAATGATATT
** *
420454 GATAC-TAATATACTAGTATCGATACTAAGAAAAAAATATCGATACCTTGGAATCCAGAAGGTAG
1 GATACATAATATAGAAGTATCGATACTAAGAAAAAAATATCGATACCATGGAATCCAGAAGGTAG
* * *
420518 AAATTGTATCGATATTGAAAGGGAGTATC
66 AAATGGTATCGATACTAAAAGGGAGTATC
* * * * *
420547 GATACATAATATAGAAGTATCAATACTAGGAGAAAAGTATCGATACCATGG-ATCCAGAATGTAG
1 GATACATAATATAGAAGTATCGATACTAAGAAAAAAATATCGATACCATGGAATCCAGAAGGTAG
*
420611 AAATGGTATTGATACTAAAAGGGAGTATC
66 AAATGGTATCGATACTAAAAGGGAGTATC
* *
420640 G-TACCATAGTCTAGAAGTATCGATAC
1 GATA-CATAATATAGAAGTATCGATAC
420666 CATGGTAGGG
Statistics
Matches: 102, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
92 2 0.02
93 62 0.61
94 38 0.37
ACGTcount: A:0.42, C:0.12, G:0.20, T:0.26
Consensus pattern (94 bp):
GATACATAATATAGAAGTATCGATACTAAGAAAAAAATATCGATACCATGGAATCCAGAAGGTAG
AAATGGTATCGATACTAAAAGGGAGTATC
Found at i:421063 original size:54 final size:54
Alignment explanation
Indices: 421002--421222 Score: 388
Period size: 54 Copynumber: 4.1 Consensus size: 54
420992 AATTTACCCA
* *
421002 ATTGGCACTATGTGTGTAACCTAAGAAATTCATAATAAGTTTATGAATTTATGT
1 ATTGGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCTGT
421056 ATTGGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCTGT
1 ATTGGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCTGT
*
421110 ATTGGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTTGT
1 ATTGGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCTGT
* * *
421164 ATTGGCACTGTGTGTGCAACCTAAGAAATTCATAATGAGTTTATGAATTTCCGT
1 ATTGGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCTGT
421218 ATTGG
1 ATTGG
421223 TATGTAACCT
Statistics
Matches: 160, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 160 1.00
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.38
Consensus pattern (54 bp):
ATTGGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCTGT
Found at i:427706 original size:93 final size:95
Alignment explanation
Indices: 427516--427714 Score: 260
Period size: 93 Copynumber: 2.1 Consensus size: 95
427506 TACTTAAGTG
* *
427516 AGTATCGATACTAATAAAAATGTATCGATACCTTGGAATCCATAAGGTAAAAATGATATCGATAC
1 AGTATCGATACTAAGAAAAATGTATCGATACCATGGAATCCATAAGGTAAAAATGATATCGATAC
* *
427581 TGGAAGGGAGTATTGGTACCATAGTATAGA
66 TGGAAAGGAGTATCGGTACCATAGTATAGA
* * * * * *
427611 AGTATCGATACTAGGAGAAAA-GTATCGATACCATGG-ATCTATAATGTAGACATGGTATCGATA
1 AGTATCGATACTAAGA-AAAATGTATCGATACCATGGAATCCATAAGGTAAAAATGATATCGATA
* *
427674 CT-GAAATGAGTATCGGTACCATATTATAGA
65 CTGGAAAGGAGTATCGGTACCATAGTATAGA
427704 AGTATCGATAC
1 AGTATCGATAC
427715 CATGGTAGGG
Statistics
Matches: 91, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
93 35 0.38
94 24 0.26
95 28 0.31
96 4 0.04
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.28
Consensus pattern (95 bp):
AGTATCGATACTAAGAAAAATGTATCGATACCATGGAATCCATAAGGTAAAAATGATATCGATAC
TGGAAAGGAGTATCGGTACCATAGTATAGA
Found at i:428186 original size:55 final size:55
Alignment explanation
Indices: 428050--428217 Score: 234
Period size: 54 Copynumber: 3.1 Consensus size: 55
428040 CATTTACCCA
* * *
428050 ATTGG-CACTATCTGTACAACCTAAGAAATTCATAATAAGTTTATGAATTTCTGT
1 ATTGGACACTATATGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGT
*
428104 ATT-GACACTATATGTGCAACCTAAGAAATTCATAATAAGTATATGAATTTTCCGT
1 ATTGGACACTATATGTGCAACCTAAGAAATTCATAATAAGTTTATGAA-TTTCCGT
* * * *
428159 ATTGGA-ACTGTGTGTGCAACCTAAGAAATTCATAATGAGTTTATGAATTTCCAT
1 ATTGGACACTATATGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGT
428213 ATTGG
1 ATTGG
428218 TATTAGATGT
Statistics
Matches: 102, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
53 1 0.01
54 53 0.52
55 46 0.45
56 2 0.02
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36
Consensus pattern (55 bp):
ATTGGACACTATATGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGT
Found at i:428643 original size:23 final size:23
Alignment explanation
Indices: 428613--428675 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
428603 CTAAATGATT
*
428613 CAGTGCTGACTGATTCATCAAAA
1 CAGTGCTGACTGATTCAGCAAAA
428636 CAGTGCTGACTGATTCAGCAAAA
1 CAGTGCTGACTGATTCAGCAAAA
* * *
428659 TAGTACTGAATGATTCA
1 CAGTGCTGACTGATTCA
428676 ACACAGAAGT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (23 bp):
CAGTGCTGACTGATTCAGCAAAA
Found at i:433162 original size:22 final size:22
Alignment explanation
Indices: 433130--433185 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
433120 ATGTTGGTTT
433130 ATTTTAGAAATTAAGTAACCAAG
1 ATTTT-GAAATTAAGTAACCAAG
433153 ATTTTGAAATTAAGTAACCAAG
1 ATTTTGAAATTAAGTAACCAAG
433175 ATTTTGAAATT
1 ATTTTGAAATT
433186 CAGCATAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 28 0.85
23 5 0.15
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.36
Consensus pattern (22 bp):
ATTTTGAAATTAAGTAACCAAG
Found at i:433686 original size:140 final size:140
Alignment explanation
Indices: 433423--433694 Score: 454
Period size: 140 Copynumber: 1.9 Consensus size: 140
433413 TCATGCTAGA
433423 ATGTCTAAGTTTTCTATGCCATAACCATGAATCATTTTCATCTTTAGCTACAAGGCATACATTTG
1 ATGTCTAAGTTTTCTATGCCATAACCATGAATCATTTTCATCTTTAGCTACAAGGCATACATTTG
* *
433488 AGGAAACAATATCAACTAAGTGCACCATGTAAATGTTTCCTATTCTATGTCCAACAAGCATAATC
66 AGGAAACAATATCAACTAAGTGCACCATGTAAATATTTCATATTCTATGTCCAACAAGCATAATC
433553 ATCAACAAGC
131 ATCAACAAGC
* * * * *
433563 ATGTTTAAGTTTTCTATGCCATAACCATGAATCATTTTCTTTTTTAGCTTCTAGGCATACATTTG
1 ATGTCTAAGTTTTCTATGCCATAACCATGAATCATTTTCATCTTTAGCTACAAGGCATACATTTG
* * *
433628 AGGAAACAATATCATCTAAGTGCACCATGTAAATATTTCATATTCTATGTCTAGCAAGCATAATC
66 AGGAAACAATATCAACTAAGTGCACCATGTAAATATTTCATATTCTATGTCCAACAAGCATAATC
433693 AT
131 AT
433695 GATTGATGCA
Statistics
Matches: 122, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
140 122 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.35
Consensus pattern (140 bp):
ATGTCTAAGTTTTCTATGCCATAACCATGAATCATTTTCATCTTTAGCTACAAGGCATACATTTG
AGGAAACAATATCAACTAAGTGCACCATGTAAATATTTCATATTCTATGTCCAACAAGCATAATC
ATCAACAAGC
Found at i:434252 original size:22 final size:23
Alignment explanation
Indices: 434210--434261 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 23
434200 ATTAAAAATA
*
434210 AAATTGAAAGAAAAATTATAAAG
1 AAATTGAAAGAAAAATAATAAAG
*
434233 AAATTAAAGAAGAAAAATAATTAAAG
1 AAATT-GA-AAGAAAAATAA-TAAAG
434259 AAA
1 AAA
434262 ATAAAATCTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 5 0.21
24 1 0.04
25 10 0.42
26 8 0.33
ACGTcount: A:0.69, C:0.00, G:0.12, T:0.19
Consensus pattern (23 bp):
AAATTGAAAGAAAAATAATAAAG
Found at i:441753 original size:27 final size:27
Alignment explanation
Indices: 441710--441761 Score: 63
Period size: 27 Copynumber: 1.9 Consensus size: 27
441700 AAATTGAAAG
*
441710 AAATAATGTGAAGAAATTAAA-AAAGAA
1 AAATAATGTAAAGAAA-TAAAGAAAGAA
441737 AAATAAT-TAAAGAAAATAAAGAAAG
1 AAATAATGTAAAG-AAATAAAGAAAG
441762 GTAAATTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.69, C:0.00, G:0.13, T:0.17
Consensus pattern (27 bp):
AAATAATGTAAAGAAATAAAGAAAGAA
Found at i:441754 original size:13 final size:13
Alignment explanation
Indices: 441690--441755 Score: 50
Period size: 13 Copynumber: 5.2 Consensus size: 13
441680 AATGGTTGAG
441690 AATTAAA-AAAA-
1 AATTAAAGAAAAT
441701 AATTGAAAG-AAAT
1 AATT-AAAGAAAAT
* *
441714 AATGTGAAGAAATT
1 AAT-TAAAGAAAAT
*
441728 AA-AAAAGAAAAAT
1 AATTAAAG-AAAAT
441741 AATTAAAGAAAAT
1 AATTAAAGAAAAT
441754 AA
1 AA
441756 AGAAAGGTAA
Statistics
Matches: 42, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
11 4 0.10
12 9 0.21
13 19 0.45
14 10 0.24
ACGTcount: A:0.70, C:0.00, G:0.11, T:0.20
Consensus pattern (13 bp):
AATTAAAGAAAAT
Found at i:442359 original size:14 final size:15
Alignment explanation
Indices: 442330--442360 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
442320 CCATATTTTT
442330 ATTTTAAAATTAAAA
1 ATTTTAAAATTAAAA
442345 ATTTTAAAA-TAAAA
1 ATTTTAAAATTAAAA
442359 AT
1 AT
442361 AACAGAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
ATTTTAAAATTAAAA
Found at i:444315 original size:135 final size:136
Alignment explanation
Indices: 444071--444325 Score: 433
Period size: 135 Copynumber: 1.9 Consensus size: 136
444061 ATATAAAATC
*
444071 ATTTTGATGTCTTCATCATCCTTCATTTTGAAATTCTTATAACTGAGAGTGAGAATTCCAATCTT
1 ATTTTGATGTCTTCATCATCCTTCATTTTGAAATTCTCATAACTGAGAGT-AGAATTCCAATCTT
* *
444136 CAATTTCTTCACTTGAGTTGTACCCTCATGTGTGACTTCAATCTTGTCTCAAATCACTTGAGTTA
65 CAACTTCTTCACTTGAGTTGTACCCTCATGTGTGACTCCAATCTTGTCTCAAATCACTTGAGTTA
444201 TACCTTA
130 TACCTTA
* *
444208 ATTTTGATGTCTTTATCGA-CCTTCATTTTGAAATTCTCATAATTGAGAGT-GAATTCCAATCTT
1 ATTTTGATGTCTTCATC-ATCCTTCATTTTGAAATTCTCATAACTGAGAGTAGAATTCCAATCTT
444271 CAACTTCTTCACTTGAGTTGTACCCTCATGTGTGACTCCAATCTTGTCTCAAATC
65 CAACTTCTTCACTTGAGTTGTACCCTCATGTGTGACTCCAATCTTGTCTCAAATC
444326 CCTTTTGCAT
Statistics
Matches: 112, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
135 66 0.59
137 45 0.40
138 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.13, T:0.41
Consensus pattern (136 bp):
ATTTTGATGTCTTCATCATCCTTCATTTTGAAATTCTCATAACTGAGAGTAGAATTCCAATCTTC
AACTTCTTCACTTGAGTTGTACCCTCATGTGTGACTCCAATCTTGTCTCAAATCACTTGAGTTAT
ACCTTA
Found at i:448236 original size:23 final size:25
Alignment explanation
Indices: 448210--448261 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
448200 GAAGGACGTG
*
448210 TAGAATTTGT-CC-GAAGGACCACA
1 TAGAATTTGTCCCGGAAGAACCACA
*
448233 TAG-ATTTGTCCCGGAAGAACCACG
1 TAGAATTTGTCCCGGAAGAACCACA
448257 TAGAA
1 TAGAA
448262 CCCTCGACTC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
22 6 0.25
23 5 0.21
24 12 0.50
25 1 0.04
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (25 bp):
TAGAATTTGTCCCGGAAGAACCACA
Found at i:452327 original size:21 final size:21
Alignment explanation
Indices: 452301--452342 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
452291 CCATAATGGG
452301 GGGAATC-AGTACCCCTTCATA
1 GGGAATCGA-TACCCCTTCATA
452322 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
452343 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:452494 original size:34 final size:36
Alignment explanation
Indices: 452455--452535 Score: 112
Period size: 34 Copynumber: 2.3 Consensus size: 36
452445 AAACTATGCA
*
452455 GGGGGAATCTGGACCCGGGGAATCGATA-CCCCT-G
1 GGGGGAATCTGGACCCGAGGAATCGATACCCCCTGG
** *
452489 GGGGGAATCTGTTCCCGATGAATCGATACCCCCTGG
1 GGGGGAATCTGGACCCGAGGAATCGATACCCCCTGG
452525 GGGGGAATCTG
1 GGGGGAATCTG
452536 TAACCTCTGG
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
34 24 0.59
35 5 0.12
36 12 0.29
ACGTcount: A:0.20, C:0.25, G:0.37, T:0.19
Consensus pattern (36 bp):
GGGGGAATCTGGACCCGAGGAATCGATACCCCCTGG
Found at i:453667 original size:306 final size:306
Alignment explanation
Indices: 453114--453727 Score: 1201
Period size: 306 Copynumber: 2.0 Consensus size: 306
453104 AACTCACACT
453114 TAGTCAACTTAGCATACATCTTATTGGCTCGTAGTATTTAAAGAATCACCCGAATATGGGAATCA
1 TAGTCAACTTAGCATACATCTTATTGGCTCGTAGTATTTAAAGAATCACCCGAATATGGGAATCA
*
453179 TGTTCCTCATTTGTCTTTGAATACACCAAGATATTGTCAATGAAGACGACCACTGACTGATCACG
66 TGTTCCTCATTTGTCTTTGAATACACCAAGATATTGTCAATGAAGACGACCACTGACTAATCACG
*
453244 ATGGGGTTGGAATACTCTATTCATGAGGTCCATAAACACTGCAGGGGCATTTGTTAATCCAAATG
131 ATGGGGTTGGAATACTCTATTCATGAGGTCCATAAACACTACAGGGGCATTTGTTAATCCAAATG
453309 GCATAACTACGAGTTCATAATGGTCATATCAACTCCTAAAAGTCATTTTTGGAATGTCCCTTTCT
196 GCATAACTACGAGTTCATAATGGTCATATCAACTCCTAAAAGTCATTTTTGGAATGTCCCTTTCT
453374 TGAATCTTTAACTGGTGATAGCCAGAATTCAAATCAATCATGGAAA
261 TGAATCTTTAACTGGTGATAGCCAGAATTCAAATCAATCATGGAAA
453420 TAGTCAACTTAGCATACATCTTATTGGCTCGTAGTATTTAAAGAATCACCCGAATATGGGAATCA
1 TAGTCAACTTAGCATACATCTTATTGGCTCGTAGTATTTAAAGAATCACCCGAATATGGGAATCA
453485 TGTTCCTCATTTGTCTTTGAATACACCAAGATATTGTCAATGAAGACGACCACTGACTAATCACG
66 TGTTCCTCATTTGTCTTTGAATACACCAAGATATTGTCAATGAAGACGACCACTGACTAATCACG
453550 ATGGGGTTGGAATACTCTATTCATGAGGTCCATAAACACTACAGGGGCATTTGTTAATCCAAATG
131 ATGGGGTTGGAATACTCTATTCATGAGGTCCATAAACACTACAGGGGCATTTGTTAATCCAAATG
*
453615 GCATAACTACGAGTTCATAATGGTCATATCAAGTCCTAAAAGTCATTTTTGGAATGTCCCTTTCT
196 GCATAACTACGAGTTCATAATGGTCATATCAACTCCTAAAAGTCATTTTTGGAATGTCCCTTTCT
453680 TGAATCTTTAACTGGTGATAGCCAGAATTCAAATCAATCATGGAAA
261 TGAATCTTTAACTGGTGATAGCCAGAATTCAAATCAATCATGGAAA
453726 TA
1 TA
453728 CGGTATTATG
Statistics
Matches: 305, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
306 305 1.00
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (306 bp):
TAGTCAACTTAGCATACATCTTATTGGCTCGTAGTATTTAAAGAATCACCCGAATATGGGAATCA
TGTTCCTCATTTGTCTTTGAATACACCAAGATATTGTCAATGAAGACGACCACTGACTAATCACG
ATGGGGTTGGAATACTCTATTCATGAGGTCCATAAACACTACAGGGGCATTTGTTAATCCAAATG
GCATAACTACGAGTTCATAATGGTCATATCAACTCCTAAAAGTCATTTTTGGAATGTCCCTTTCT
TGAATCTTTAACTGGTGATAGCCAGAATTCAAATCAATCATGGAAA
Found at i:456347 original size:21 final size:21
Alignment explanation
Indices: 456323--456424 Score: 159
Period size: 21 Copynumber: 4.9 Consensus size: 21
456313 CATATGAAAT
* *
456323 TTGTCCCGAATGACCACTGTA
1 TTGTCCCGAAGGACCACTTTA
456344 TTGTCCCGAAGGACCACTTTA
1 TTGTCCCGAAGGACCACTTTA
*
456365 TTGCCCCGAAGGACCACTTTA
1 TTGTCCCGAAGGACCACTTTA
* *
456386 TTGTCCCAAAGGACCACTATA
1 TTGTCCCGAAGGACCACTTTA
456407 TTGTCCCGAAGGACCACT
1 TTGTCCCGAAGGACCACT
456425 ATGCCTCGTA
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 74 1.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (21 bp):
TTGTCCCGAAGGACCACTTTA
Found at i:468036 original size:21 final size:21
Alignment explanation
Indices: 468010--468049 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
468000 TACCTCTTTT
468010 AGGAATAGAGGTAGGTTCTGG
1 AGGAATAGAGGTAGGTTCTGG
468031 AGGAATAGAGGTAGGTTCT
1 AGGAATAGAGGTAGGTTCT
468050 AGATCCTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.05, G:0.40, T:0.25
Consensus pattern (21 bp):
AGGAATAGAGGTAGGTTCTGG
Found at i:471315 original size:29 final size:29
Alignment explanation
Indices: 471267--471323 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 29
471257 AAATATAAAA
471267 TATCATATAAATAATAATAATAC-TGTAAG
1 TATCATATAAATAATAATAA-ACATGTAAG
471296 TATCATA-AAATAGCAT-ATAAACATGTAA
1 TATCATATAAATA--ATAATAAACATGTAA
471324 AATATACTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
28 7 0.28
29 16 0.64
30 2 0.08
ACGTcount: A:0.53, C:0.09, G:0.07, T:0.32
Consensus pattern (29 bp):
TATCATATAAATAATAATAAACATGTAAG
Found at i:479674 original size:17 final size:17
Alignment explanation
Indices: 479639--479674 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
479629 TTGCTTCAGC
*
479639 TATAGAAATGGTTAGGG
1 TATAGAAATGGATAGGG
*
479656 TATAGAAATGGATATGG
1 TATAGAAATGGATAGGG
479673 TA
1 TA
479675 AAGGTAGGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.31, T:0.31
Consensus pattern (17 bp):
TATAGAAATGGATAGGG
Found at i:479725 original size:18 final size:18
Alignment explanation
Indices: 479699--479736 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
479689 AGGTTAAGAA
* *
479699 AAGATAAGGTAATGAAAT
1 AAGAAAAGGAAATGAAAT
479717 AAGAAAAGGAAATGAAAT
1 AAGAAAAGGAAATGAAAT
479735 AA
1 AA
479737 TGAGAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.63, C:0.00, G:0.21, T:0.16
Consensus pattern (18 bp):
AAGAAAAGGAAATGAAAT
Found at i:479992 original size:19 final size:18
Alignment explanation
Indices: 479952--479993 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 18
479942 ATGTAGGAGT
479952 CTTTTTCTTTTCTTTTTG
1 CTTTTTCTTTTCTTTTTG
479970 -TTTTTCTTCTT-TCTTTTG
1 CTTTTTCTT-TTCT-TTTTG
479988 CTTTTT
1 CTTTTT
479994 GTTGCAGCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 9 0.43
18 7 0.33
19 5 0.24
ACGTcount: A:0.00, C:0.17, G:0.05, T:0.79
Consensus pattern (18 bp):
CTTTTTCTTTTCTTTTTG
Found at i:479994 original size:7 final size:6
Alignment explanation
Indices: 479951--479993 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
479941 AATGTAGGAG
* *
479951 TCTTTT TC-TTT TCTTTT TGTTTT TCTTCTT TCTTTT GCTTTT T
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTT-TT TCTTTT TCTTTT T
479994 GTTGCAGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
5 5 0.16
6 20 0.65
7 6 0.19
ACGTcount: A:0.00, C:0.16, G:0.05, T:0.79
Consensus pattern (6 bp):
TCTTTT
Found at i:488918 original size:26 final size:26
Alignment explanation
Indices: 488882--488933 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
488872 CAGCAAATTT
*
488882 TTTTAATGAGC-ACGAGTCGAGCACAA
1 TTTTAACGAGCAACGAGTCGAG-ACAA
488908 TTTTAACGAGCAACGAGTCGAGACAA
1 TTTTAACGAGCAACGAGTCGAGACAA
488934 ACAGCAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 14 0.58
27 10 0.42
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.21
Consensus pattern (26 bp):
TTTTAACGAGCAACGAGTCGAGACAA
Found at i:488949 original size:63 final size:63
Alignment explanation
Indices: 488846--488968 Score: 165
Period size: 63 Copynumber: 2.0 Consensus size: 63
488836 TTTTATTGAG
*** * * * **
488846 TTTAACGAGCAACGAGTCGAGTTGAGCAGCAAATTTTTTTAATGAGCACGAGTCGAGCACAAT
1 TTTAACGAGCAACGAGTCGAGACAAACAGCAAAATGTTTTAACAAGCACGAGTCGAGCACAAT
*
488909 TTTAACGAGCAACGAGTCGAGACAAACAGCAAAATGTTTTAACAAGCACGAGTTGAGCAC
1 TTTAACGAGCAACGAGTCGAGACAAACAGCAAAATGTTTTAACAAGCACGAGTCGAGCAC
488969 TGCCAACTCG
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
63 51 1.00
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.22
Consensus pattern (63 bp):
TTTAACGAGCAACGAGTCGAGACAAACAGCAAAATGTTTTAACAAGCACGAGTCGAGCACAAT
Found at i:490165 original size:48 final size:47
Alignment explanation
Indices: 490020--490190 Score: 154
Period size: 49 Copynumber: 3.7 Consensus size: 47
490010 AAAATATATT
* * *
490020 AAAAATATTATA-TATATCTTAACTTAAACTCACATCTTAATATTAA
1 AAAAATATTTTATTTTATCTTAACTTAAATTCACATCTTAATATTAA
** * * ***
490066 AAGTATAATTTATTCTTTATCTTAAC-TAAATCCGTGTCTTAATATTGAAA
1 AAAAATATTTTA-T-TTTATCTTAACTTAAATTCACATCTTAATATT--AA
*
490116 AAAAATATTTTATTTTATCTTATCTTAAATTCACATCTTAATATT-A
1 AAAAATATTTTATTTTATCTTAACTTAAATTCACATCTTAATATTAA
* *
490162 AAAAATATTTTATATT-T-TTAAATTAAATT
1 AAAAATATTTTATTTTATCTTAACTTAAATT
490191 ATTTTTCGCA
Statistics
Matches: 98, Mismatches: 21, Indels: 14
0.74 0.16 0.11
Matches are distributed among these distances:
44 10 0.10
45 1 0.01
46 24 0.24
48 25 0.26
49 27 0.28
50 11 0.11
ACGTcount: A:0.42, C:0.10, G:0.02, T:0.46
Consensus pattern (47 bp):
AAAAATATTTTATTTTATCTTAACTTAAATTCACATCTTAATATTAA
Found at i:491096 original size:94 final size:94
Alignment explanation
Indices: 490932--491103 Score: 240
Period size: 94 Copynumber: 1.8 Consensus size: 94
490922 TTTGCCCGGT
* * *
490932 GGTTGAGATGTGCCCTAGGATTCTTGAGGTCCTTCGATTCGAACCTCGCAAGAAGAATTTCACTA
1 GGTTGAGATGTGCCCTAGGATTCTTGAGGCCCTTAGATTCGAACCTCCCAAGAAGAATTTCACTA
*
490997 TCCATTTATTTTCCCTACACAGGTGGTGA
66 ACCATTTATTTTCCCTACACAGGTGGTGA
* * * *
491026 GGTTGAGATGTTCCCTAGGACTT-TTGGGGCCCTTAGATTCGAACCTCCCATGAAGTATTTC-CT
1 GGTTGAGATGTGCCCTAGGA-TTCTTGAGGCCCTTAGATTCGAACCTCCCAAGAAGAATTTCAC-
491089 TAACCATTTATTTTC
64 TAACCATTTATTTTC
491104 TACACAAGTG
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
93 1 0.01
94 65 0.96
95 2 0.03
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.34
Consensus pattern (94 bp):
GGTTGAGATGTGCCCTAGGATTCTTGAGGCCCTTAGATTCGAACCTCCCAAGAAGAATTTCACTA
ACCATTTATTTTCCCTACACAGGTGGTGA
Found at i:509092 original size:8 final size:8
Alignment explanation
Indices: 509077--509109 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
509067 CGGTAAAGGT
509077 ACTGGTTC
1 ACTGGTTC
*
509085 ATTGGTTC
1 ACTGGTTC
509093 ACTGGTTC
1 ACTGGTTC
509101 ACTGGTTC
1 ACTGGTTC
509109 A
1 A
509110 ACCGGGTTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.15, C:0.21, G:0.24, T:0.39
Consensus pattern (8 bp):
ACTGGTTC
Found at i:509197 original size:2 final size:2
Alignment explanation
Indices: 509190--509214 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
509180 AGCAATATTA
509190 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
509215 ACATTTTTTA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:510580 original size:19 final size:20
Alignment explanation
Indices: 510512--510580 Score: 72
Period size: 19 Copynumber: 3.5 Consensus size: 20
510502 TTAAATATCT
*
510512 TTATTAA-AATATTATTAGA
1 TTATTAATAATATTATTAAA
*
510531 TTATT-ATATTATTATTAAA
1 TTATTAATAATATTATTAAA
* *
510550 TATATAAATAATATTATT-CA
1 T-TATTAATAATATTATTAAA
510570 TTATTAATAAT
1 TTATTAATAAT
510581 TTAATAAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
18 1 0.02
19 25 0.61
20 5 0.12
21 10 0.24
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (20 bp):
TTATTAATAATATTATTAAA
Found at i:513759 original size:23 final size:23
Alignment explanation
Indices: 513724--513771 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
513714 ATAAAGTACA
*
513724 ATAATATACTAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
*
513747 ATAATGTAATAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
513770 AT
1 AT
513772 TTACCTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.35
Consensus pattern (23 bp):
ATAATATAATAGGTAGCGCTTAT
Found at i:514303 original size:23 final size:23
Alignment explanation
Indices: 514244--514316 Score: 83
Period size: 23 Copynumber: 3.2 Consensus size: 23
514234 ATACTTTACA
* *
514244 ATATAACCACTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
*
514267 ATATAAACGATACCTATTACATT
1 ATATAAACGCTACCTATTACATT
** * *
514290 ATATAAGTGCTACCGATTACATC
1 ATATAAACGCTACCTATTACATT
514313 ATAT
1 ATAT
514317 TTTTACCTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.40, C:0.21, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATAAACGCTACCTATTACATT
Found at i:514711 original size:23 final size:23
Alignment explanation
Indices: 514685--514747 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
514675 ATATAACCAC
*
514685 TACCCATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
514708 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
514731 TACCTATTACATCATAT
1 TACCTATTACATTATAT
514748 TTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.35
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:514956 original size:428 final size:430
Alignment explanation
Indices: 514081--515383 Score: 2409
Period size: 428 Copynumber: 3.0 Consensus size: 430
514071 ATGTTTATTG
514081 TTTTTAATTTAATAAT-A-ATATATCGTAACGT-AAAAATAAATCATTAGACGCCTATAATTACT
1 TTTTTAATTTAATAATAATATATATCGTAACGTGAAAAATAAATCATTAGACGCCTATAATTACT
514143 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
66 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
514208 TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAA
131 TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAA
* *
514273 ACGATACCTATTACATTATATAAGTGCTACCGATTACATCATATTTTTACCTATTATATTGAAAG
196 ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
*
514338 TGTCCATACTTTTTATAAAAAGAATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
261 TGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAA-TT
514403 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAA
325 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAA
*
514468 TTATTTGATTGTTTTGATATTTTCTAAAATAATATTTAGAA
390 TTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA
*
514509 TTTTTAATTTAATAATAATATATATCGTAACGTGAAAAATAAATCATTAGACGCATATAATTACT
1 TTTTTAATTTAATAATAATATATATCGTAACGTGAAAAATAAATCATTAGACGCCTATAATTACT
*
514574 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTGTTCCACAGTGAAAAAAG
66 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
* * *
514639 TATAGACAATTTTATAAAAATGATAGATACTTTACAATATAACCACTACCCATTACATTATATAA
131 TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAA
514704 ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
196 ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
514769 TGTCCATAC-TTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAA-TT
261 TGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
*
514832 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGTACAAAAAAT
326 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAAT
514897 TATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA
391 TATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA
*
514937 TTTTTAATTTAATAATAATATATATCGTAACGTGAAAAATAAATCATTAGACGCCTATAATTAAT
1 TTTTTAATTTAATAATAATATATATCGTAACGTGAAAAATAAATCATTAGACGCCTATAATTACT
*
515002 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCTACAGTGAAAAAAG
66 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
* * *
515067 TATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTGCCTATTACATTATATAA
131 TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAA
*
515132 ACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
196 ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
515197 TGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
261 TGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
515262 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAAT
326 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAAT
515327 TATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA
391 TATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA
*
515367 TTTTTAATTTAACAATA
1 TTTTTAATTTAATAATA
515384 TTAACCAAAG
Statistics
Matches: 847, Mismatches: 23, Indels: 8
0.96 0.03 0.01
Matches are distributed among these distances:
428 379 0.45
429 53 0.06
430 187 0.22
431 228 0.27
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.40
Consensus pattern (430 bp):
TTTTTAATTTAATAATAATATATATCGTAACGTGAAAAATAAATCATTAGACGCCTATAATTACT
AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAA
ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
TGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAAT
TATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA
Found at i:515128 original size:21 final size:23
Alignment explanation
Indices: 515103--515175 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
515093 ATACTTTACA
* *
515103 ATATAAGCACTGCCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
515126 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
515149 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
515172 ATAT
1 ATAT
515176 TTTTACCTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:515550 original size:25 final size:25
Alignment explanation
Indices: 515522--515586 Score: 121
Period size: 25 Copynumber: 2.6 Consensus size: 25
515512 ACACAAAAGA
*
515522 TGTATATACCTAAATATGTAGTTAT
1 TGTACATACCTAAATATGTAGTTAT
515547 TGTACATACCTAAATATGTAGTTAT
1 TGTACATACCTAAATATGTAGTTAT
515572 TGTACATACCTAAAT
1 TGTACATACCTAAAT
515587 TTAATGATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.40
Consensus pattern (25 bp):
TGTACATACCTAAATATGTAGTTAT
Found at i:518323 original size:183 final size:183
Alignment explanation
Indices: 518008--519063 Score: 1728
Period size: 183 Copynumber: 5.8 Consensus size: 183
517998 TACATATAAA
*
518008 TATACCAGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGTCG
1 TATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGTCG
518073 ACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATAT
66 ACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATAT
* *
518138 TAGAAAGTGTCGATATAGGTTGTAGACCTATTCACTCATAAAACTGGTATATT
131 TAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATT
* * *
518191 TATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTAGGTTCTGATGTGTAAATTTCG
1 TATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGTCG
* *
518256 ATACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACATAATAT
66 ACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATAT
*
518321 TAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCAGTATATT
131 TAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATT
*
518374 TATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTTCGATGTGTAAATGTCG
1 TATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGTCG
518439 ACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATAT
66 ACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATAT
518504 TAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATT
131 TAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATT
* *
518557 TATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTTCGATGTGTAAATGTCG
1 TATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGTCG
* *
518622 ACACTTTTTGACAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACTGACACAATA
66 ACACTTTTTTA-AATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATA
518686 TTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATT
130 TTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATT
* * *
518740 TATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTTTTTTCAA--
1 TATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATG---TGTAAATG
* **
518803 TCGACAC-TTTTTAAATGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTATAGACACAA
63 TCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
* *
518867 TATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTAATATAACCGGTATATT
128 TATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATT
* * * * *
518923 TATACCGATTATATTACAAAATTATCTATTACATTATAATTCTGGGATCCGATGTTTTTTCAA--
1 TATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATG---TGTAAATG
* **
518986 TCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACATACACAA
63 TCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
*
519051 TATTAAAAAGTGT
128 TATTAGAAAGTGT
519064 GAAAACTTTG
Statistics
Matches: 834, Mismatches: 33, Indels: 11
0.95 0.04 0.01
Matches are distributed among these distances:
182 3 0.00
183 750 0.90
184 77 0.09
186 4 0.00
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (183 bp):
TATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGTCG
ACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATAT
TAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATT
Found at i:520281 original size:12 final size:12
Alignment explanation
Indices: 520268--520354 Score: 111
Period size: 12 Copynumber: 7.2 Consensus size: 12
520258 GTTTGGATCA
*
520268 TCATCATCATCA
1 TCATCATCATCG
520280 TCATCATCATCG
1 TCATCATCATCG
*
520292 TCATCATCATCT
1 TCATCATCATCG
* * *
520304 TCATCGTCAGCT
1 TCATCATCATCG
*
520316 TCATCGTCATCG
1 TCATCATCATCG
520328 TCATCATCATCG
1 TCATCATCATCG
*
520340 TCATCTTCATCG
1 TCATCATCATCG
520352 TCA
1 TCA
520355 GCTTCATCTT
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 67 1.00
ACGTcount: A:0.23, C:0.33, G:0.08, T:0.36
Consensus pattern (12 bp):
TCATCATCATCG
Found at i:520287 original size:18 final size:18
Alignment explanation
Indices: 520264--520350 Score: 111
Period size: 18 Copynumber: 4.8 Consensus size: 18
520254 ACTTGTTTGG
*
520264 ATCATCATCATCATCATC
1 ATCATCATCGTCATCATC
520282 ATCATCATCGTCATCATC
1 ATCATCATCGTCATCATC
* * *
520300 ATCTTCATCGTCAGCTTC
1 ATCATCATCGTCATCATC
*
520318 ATCGTCATCGTCATCATC
1 ATCATCATCGTCATCATC
* *
520336 ATCGTCATCTTCATC
1 ATCATCATCGTCATC
520351 GTCAGCTTCA
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 61 1.00
ACGTcount: A:0.24, C:0.33, G:0.07, T:0.36
Consensus pattern (18 bp):
ATCATCATCGTCATCATC
Found at i:520359 original size:12 final size:12
Alignment explanation
Indices: 520292--520362 Score: 61
Period size: 12 Copynumber: 5.4 Consensus size: 12
520282 ATCATCATCG
* *
520292 TCATCATCATCT
1 TCATCGTCAGCT
520304 TCATCGTCAGCT
1 TCATCGTCAGCT
520316 TCATCGTCATCGTCAT
1 TCATCGTCA--G-C-T
*
520332 CATCATCGTCATCT
1 --TCATCGTCAGCT
520346 TCATCGTCAGCT
1 TCATCGTCAGCT
520358 TCATC
1 TCATC
520363 TTCATTGACC
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
12 35 0.71
14 2 0.04
15 2 0.04
16 1 0.02
18 9 0.18
ACGTcount: A:0.20, C:0.34, G:0.10, T:0.37
Consensus pattern (12 bp):
TCATCGTCAGCT
Found at i:520361 original size:18 final size:18
Alignment explanation
Indices: 520280--520367 Score: 77
Period size: 18 Copynumber: 4.6 Consensus size: 18
520270 ATCATCATCA
* * *
520280 TCATCATCATCGTCATCA
1 TCATCTTCATCGTCAGCT
520298 TCATCTTCATCGTCAGCT
1 TCATCTTCATCGTCAGCT
* *
520316 TCATCGTCATCGTCATCATCAT
1 TCATCTTCATCG---TCAGC-T
520338 CGTCATCTTCATCGTCAGCT
1 --TCATCTTCATCGTCAGCT
520358 TCATCTTCAT
1 TCATCTTCAT
520368 TGACCGCTTG
Statistics
Matches: 57, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
18 36 0.63
20 1 0.02
21 8 0.14
22 1 0.02
24 11 0.19
ACGTcount: A:0.20, C:0.33, G:0.09, T:0.38
Consensus pattern (18 bp):
TCATCTTCATCGTCAGCT
Found at i:520367 original size:6 final size:6
Alignment explanation
Indices: 520268--520354 Score: 93
Period size: 6 Copynumber: 14.5 Consensus size: 6
520258 GTTTGGATCA
* * * * * * *
520268 TCATCA TCATCA TCATCA TCATCG TCATCA TCATCT TCATCG TCAGCT
1 TCATCG TCATCG TCATCG TCATCG TCATCG TCATCG TCATCG TCATCG
* *
520316 TCATCG TCATCG TCATCA TCATCG TCATCT TCATCG TCA
1 TCATCG TCATCG TCATCG TCATCG TCATCG TCATCG TCA
520355 GCTTCATCTT
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 69 1.00
ACGTcount: A:0.23, C:0.33, G:0.08, T:0.36
Consensus pattern (6 bp):
TCATCG
Found at i:522711 original size:198 final size:199
Alignment explanation
Indices: 521827--523380 Score: 2773
Period size: 197 Copynumber: 7.9 Consensus size: 199
521817 TTTAAATTAG
* *
521827 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAAACATATTCTCTCATAAAATCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* *
521892 CCTGTACCAGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
521957 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
131 TCGACAC-TTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
522022 AAAAA
195 AAAAA
* * *
522027 TATCGACACAAACTAAAAACGTGTCGACACATTATTTAGACATAATCTCTCATTAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
522092 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTTGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
*
522157 TCGACACTTTTTATATATGGATTGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
131 TCGACAC-TTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
522222 AAAAA
195 AAAAA
*
522227 TATCGACACAAACTAAAAAGGTGTCGACACATTATTTAGACATATTCTCTCATAAAA-CGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
522291 CTTGTA-CGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGCTTTCGATG-TTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
522354 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
131 TCGACAC-TTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
522419 AAAAA
195 AAAAA
522424 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATA-TCTCTCATAAAA-CGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
522487 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
522552 TCGACACTTTT-TATATGGATCGACACTTTATGGTTGCA-CCTGTTTTCCATTCATTCTGGACCA
131 TCGACACTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC-
522615 AAAAA
195 AAAAA
*
522620 TATCGACACAAACTAAAAAGGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
522685 CTTGTAACGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
*
522750 TCG--ACTTTT-TATATGGATCGACAC-TTATGGTTGTACCCTGTTTTCCATTCATTCTGGACCA
131 TCGACACTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCA
522811 AAAA
196 AAAA
522815 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* *
522880 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-CTTCGATGCTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
*
522944 TCGACACTTTT-TATATGGATCGACACTTTATGGTTGCACCCTGTTTTTCATTCATTCTGGACCA
131 TCGACACTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCA
523008 AAAA
196 AAAA
523012 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAA-CGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
523076 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATG-TTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
523140 TCGACACTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCA-TCTGGACCA
131 TCGACACTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCA
523204 AAAA
196 AAAA
*
523208 TATCGACACAAACTAAAAAAATTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAT
1 TATCGACACAAACT-AAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAT
523273 ACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATAC-TTTGGTTTTCGATGTTTTTGGG
65 ACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGG
*
523337 ATCGACACTTTTATATATGGTTCGACACTTTATGGTTGCACCCT
130 ATCGACACTTTTATATATGGATCGACACTTTATGGTTGCACCCT
523381 TAATGGTATC
Statistics
Matches: 1310, Mismatches: 30, Indels: 30
0.96 0.02 0.02
Matches are distributed among these distances:
194 18 0.01
195 149 0.11
196 266 0.20
197 385 0.29
198 234 0.18
199 13 0.01
200 245 0.19
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (199 bp):
TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
TCGACACTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCA
AAAA
Found at i:523483 original size:18 final size:18
Alignment explanation
Indices: 523460--523520 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
523450 TCTCATTCAT
*
523460 AATTATATTCACATACAA
1 AATTATAATCACATACAA
**
523478 AATTATAAATCGTATACAA
1 AATTAT-AATCACATACAA
**
523497 AATTATAAATCTTATACAA
1 AATTAT-AATCACATACAA
523516 AATTA
1 AATTA
523521 ACTCTGCATT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
18 6 0.16
19 32 0.84
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.34
Consensus pattern (18 bp):
AATTATAATCACATACAA
Found at i:523496 original size:19 final size:19
Alignment explanation
Indices: 523472--523520 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
523462 TTATATTCAC
523472 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
523491 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
523510 ATACAAAATTA
1 ATACAAAATTA
523521 ACTCTGCATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:527538 original size:26 final size:26
Alignment explanation
Indices: 527509--527561 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
527499 AATTAATGGT
527509 TGTAAAGTCATTGACATTGCATCTAA
1 TGTAAAGTCATTGACATTGCATCTAA
527535 TGTAAAGTCATTGACATTGCATCTAA
1 TGTAAAGTCATTGACATTGCATCTAA
527561 T
1 T
527562 CGGATTATGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (26 bp):
TGTAAAGTCATTGACATTGCATCTAA
Found at i:528408 original size:53 final size:56
Alignment explanation
Indices: 528327--528437 Score: 192
Period size: 54 Copynumber: 2.0 Consensus size: 56
528317 TCAAAAATAA
528327 AAAGCCTAACATTAGCTATTTTCATCC-TTTGGATGTAAATGTTT-TGTTTTAAGC
1 AAAGCCTAACATTAGCTATTTTCATCCTTTTGGATGTAAATGTTTGTGTTTTAAGC
*
528381 AAAGCCTAACA-TAGCTATTTTCATCCTTTTGGATGTAAATGTTTGTTTTTTAAGC
1 AAAGCCTAACATTAGCTATTTTCATCCTTTTGGATGTAAATGTTTGTGTTTTAAGC
528436 AA
1 AA
528438 CGTAAGCCAC
Statistics
Matches: 54, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
53 15 0.28
54 28 0.52
55 11 0.20
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.42
Consensus pattern (56 bp):
AAAGCCTAACATTAGCTATTTTCATCCTTTTGGATGTAAATGTTTGTGTTTTAAGC
Found at i:530838 original size:21 final size:21
Alignment explanation
Indices: 530812--530851 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
530802 CCCCATTTGA
*
530812 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
530833 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
530852 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:534601 original size:13 final size:13
Alignment explanation
Indices: 534583--534615 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
534573 TGTCATCAAT
534583 TCCGCTTGGAATA
1 TCCGCTTGGAATA
534596 TCCGCTTGGAATA
1 TCCGCTTGGAATA
534609 TCCGCTT
1 TCCGCTT
534616 TTTCAACCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.18, C:0.27, G:0.21, T:0.33
Consensus pattern (13 bp):
TCCGCTTGGAATA
Found at i:535067 original size:31 final size:32
Alignment explanation
Indices: 535027--535086 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
535017 TTAATATCAC
*
535027 CCCTTAACACC-CAACTTCTTTCACCACTTCA
1 CCCTCAACACCTCAACTTCTTTCACCACTTCA
*
535058 CCCTCAACACCTCTACTTCTTTCACCACT
1 CCCTCAACACCTCAACTTCTTTCACCACT
535087 CCATCTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 10 0.38
32 16 0.62
ACGTcount: A:0.23, C:0.47, G:0.00, T:0.30
Consensus pattern (32 bp):
CCCTCAACACCTCAACTTCTTTCACCACTTCA
Found at i:535155 original size:20 final size:20
Alignment explanation
Indices: 535118--535180 Score: 83
Period size: 20 Copynumber: 3.1 Consensus size: 20
535108 CCCCTTATGC
*
535118 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGT-TCTCTTCGACT
535139 CTCTCAAGTTCTCTTCGACT
1 CTCTCAAGTTCTCTTCGACT
*
535159 CTAT-AAGTTTCTCTTCGACT
1 CTCTCAAG-TTCTCTTCGACT
535179 CT
1 CT
535181 TGATTGTCTT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
19 3 0.08
20 27 0.69
21 9 0.23
ACGTcount: A:0.17, C:0.30, G:0.11, T:0.41
Consensus pattern (20 bp):
CTCTCAAGTTCTCTTCGACT
Found at i:537225 original size:24 final size:24
Alignment explanation
Indices: 537188--537240 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
537178 CCGTTCTATC
537188 TATTTTCAGAGGATAT-TTAGCTTA
1 TATTTTCAGAGGATATGTTA-CTTA
** *
537212 TATTTTCATCGGATATGTTATTTA
1 TATTTTCAGAGGATATGTTACTTA
537236 TATTT
1 TATTT
537241 AATCGATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (24 bp):
TATTTTCAGAGGATATGTTACTTA
Found at i:537430 original size:20 final size:19
Alignment explanation
Indices: 537385--537440 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
537375 TCCGGTATCA
537385 TTTACCGGTTTTATCATTT
1 TTTACCGGTTTTATCATTT
*
537404 TGATACCGGTTTTATCATATT
1 T-TTACCGGTTTTATCAT-TT
*
537425 TTTACCTGTTTATATC
1 TTTACCGGTTT-TATC
537441 GTTGTGAATC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
19 1 0.03
20 23 0.74
21 7 0.23
ACGTcount: A:0.20, C:0.16, G:0.11, T:0.54
Consensus pattern (19 bp):
TTTACCGGTTTTATCATTT
Found at i:537592 original size:20 final size:20
Alignment explanation
Indices: 537565--537611 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
537555 TCCGGTAACG
537565 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
537584 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
537605 TTTTACC
1 TTTTACC
537612 TGGTATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.55
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:537663 original size:180 final size:181
Alignment explanation
Indices: 537352--537823 Score: 709
Period size: 180 Copynumber: 2.6 Consensus size: 181
537342 CGTACTTACG
* *
537352 AAAGTATCGACACTTTCAATATATCCGGTATC-ATTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * *
537416 TATCATATTTTTACCTGTTTATATCGTTGTGAATCGATATATTTTTTAAAGTATCGACACATTAT
66 TATCATATTTTTACCTG-TTATATCGTTTTGGATCGATACATTTTTTAAAGTATCGACACATTAT
*
537481 AGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
130 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
*
537532 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGTTACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
*
537597 TATCATATTTTTACCTGGTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACAC-TTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTT-AAAGTATCGACACATTAT
** *
537661 AGGATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
130 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* * * * *
537713 AAAGTACCGACACTTTAAATGTATCCGGTAGCGCTTTAACCGGTTTTATCATTTCT-ATACCGGT
1 AAAGTATCGACACTTTCAATATATCCGGTAACG-TTTTACCGGTTTTATCATTT-TGATACCGGT
* * *
537777 TTTGTCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTT
64 TTTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTT
537824 AATTTGGATC
Statistics
Matches: 266, Mismatches: 21, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
180 106 0.40
181 90 0.34
182 69 0.26
183 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (181 bp):
AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAGTATCGACACATTATA
GGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
Found at i:538311 original size:229 final size:227
Alignment explanation
Indices: 537890--538384 Score: 870
Period size: 229 Copynumber: 2.2 Consensus size: 227
537880 ACCTACTTTT
537890 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTTAAAGTTATGTAATTTATGTTTC
1 ATAAGTATGGACACTTTTATAAAAATGATATATAC-TTTTTTTAAAGTTATGTAATTTATGTTTC
537955 AATTTTTTTAATAGTGTTTCATGTTTTCCACCTACATATTAATTTAATAATTTCATTTACACAAA
65 AATTTTTTTAATAGTGTTTCATGTTTTCCACCTACATATTAATTTAATAATTTCATTTACACAAA
538020 AAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATT-AC
130 AAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAAC
* *
538084 CAAATATAATAAT-AATATGTTTTTCACAGTGAA
195 CAAAGATAATAATAAATATATTTTT-ACAGTGAA
*
538117 ATAAGTATGAACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
1 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
538182 ATTTTTTGTAATAGTGTTTCATGTTTTCCACCTGTA-ATATTAATTTAATAATTTCATTTACACA
66 ATTTTTT-TAATAGTGTTTCATGTTTTCCACC--TACATATTAATTTAATAATTTCATTTACAC-
538246 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATT
127 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATT
538311 AACCAAAGATAATAATAAATATATTTTTACAGTGAA
192 AACCAAAGATAATAATAAATATATTTTTACAGTGAA
* *
538347 ATAAGTATGGACACTTTTATAAAAAGGATAGATACTTT
1 ATAAGTATGGACACTTTTATAAAAATGATATATACTTT
538385 ACAATATAAC
Statistics
Matches: 256, Mismatches: 6, Indels: 9
0.94 0.02 0.03
Matches are distributed among these distances:
226 37 0.14
227 58 0.23
228 27 0.11
229 67 0.26
230 57 0.22
231 10 0.04
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.45
Consensus pattern (227 bp):
ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
ATTTTTTTAATAGTGTTTCATGTTTTCCACCTACATATTAATTTAATAATTTCATTTACACAAAA
AATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACC
AAAGATAATAATAAATATATTTTTACAGTGAA
Found at i:539437 original size:23 final size:23
Alignment explanation
Indices: 539402--539449 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
539392 ATCAAGTACA
* *
539402 ATAATATATTAGGTAGCGCTTAT
1 ATAATATAATAGGCAGCGCTTAT
*
539425 ATAATGTAATAGGCAGCGCTTAT
1 ATAATATAATAGGCAGCGCTTAT
539448 AT
1 AT
539450 TAACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.35
Consensus pattern (23 bp):
ATAATATAATAGGCAGCGCTTAT
Found at i:540232 original size:181 final size:182
Alignment explanation
Indices: 539832--540286 Score: 759
Period size: 181 Copynumber: 2.5 Consensus size: 182
539822 ACTTTTTTAC
*
539832 TACCGGTTTTGTCATTTCGAGACCGGTCTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
1 TACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
* * * *
539897 TACATTTTTATAAAGTATCGACACTTTATTAGTGCTATAACTTCTTTTCTTTTAAATTTCAAAAG
66 TACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAA
* * * * *
539962 TGTCGATACTTATAATAAAGTATCGACACTTTCAACATATCTGGTAGCTCTT
131 TGTCAATACTTATAATAAAGTATCGACACTTTCAACATATCCGATAACTCAT
* * * *
540014 TACCAGTTTTGTCATTTCGATACCGATTTTATCATATTTTTACCTGTTATATTGTTATGGATCGA
1 TACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
540079 TACATTTTTATAAAGTATCGACACTTTATTAGCGC-ATAACTTCTTCTCTTTTAAATTCCAAAAA
66 TACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAA
540143 TGTCAATACTTATAATAAAGTATCGACACTTTCAACATATCCGATAACTCAT
131 TGTCAATACTTATAATAAAGTATCGACACTTTCAACATATCCGATAACTCAT
*
540195 TACCGGTTTTGTCATTTCGAGATCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
1 TACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
*
540260 TATATTTTTATAAAGTATCGACACTTT
66 TACATTTTTATAAAGTATCGACACTTT
540287 CAATATATCC
Statistics
Matches: 253, Mismatches: 20, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
181 159 0.63
182 94 0.37
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.43
Consensus pattern (182 bp):
TACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
TACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAA
TGTCAATACTTATAATAAAGTATCGACACTTTCAACATATCCGATAACTCAT
Found at i:540357 original size:112 final size:112
Alignment explanation
Indices: 540157--540398 Score: 360
Period size: 112 Copynumber: 2.2 Consensus size: 112
540147 AATACTTATA
* *
540157 ATAAAGTATCGACACTTTCAACATATCCGATAACTCATTACCGGTTTTGTCATTTCGAGATCGGT
1 ATAAAGTATCGACACTTTCAACATATCCGATAACTCATTACCGGTTTTGTCATTTAGAGACCGGT
* * *
540222 TTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATATATTTTT
66 TTTGTCATATTTTTACCTATTATATTATTATGGATCGATACATTTTT
* * * * * *
540269 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGT-TTTACCTGTTTTGTCATTTATAGACCGG
1 ATAAAGTATCGACACTTTCAACATATCCGATAAC-TCATTACCGGTTTTGTCATTTAGAGACCGG
*
540333 TTTTGTCATTTTTTTACCTATTATATTATTATGGATCGATACATTTTT
65 TTTTGTCATATTTTTACCTATTATATTATTATGGATCGATACATTTTT
540381 ATAAAGTATCGACACTTT
1 ATAAAGTATCGACACTTT
540399 ATTGGCGCTA
Statistics
Matches: 117, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
112 116 0.99
113 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.44
Consensus pattern (112 bp):
ATAAAGTATCGACACTTTCAACATATCCGATAACTCATTACCGGTTTTGTCATTTAGAGACCGGT
TTTGTCATATTTTTACCTATTATATTATTATGGATCGATACATTTTT
Found at i:540518 original size:294 final size:293
Alignment explanation
Indices: 539976--540692 Score: 1175
Period size: 294 Copynumber: 2.4 Consensus size: 293
539966 GATACTTATA
* * * ** * *
539976 ATAAAGTATCGACACTTTCAACATATCTGGTAGC-TCTTTACCAGTTTTGTCATTTCGATACCGA
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGT-TTTACCTGTTTTGTCATTTATAGACCGG
*
540040 TTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTT
65 TTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTT
540105 TATTAGCGCATAACTTCTTCTCTTTTAAATTCCAAAAATGTCAATACTTATAATAAAGTATCGAC
130 TATTAGCGCATAACTTCTTCTCTTTTAAATTCCAAAAATGTCAATACTTATAATAAAGTATCGAC
*
540170 ACTTTCAACATATCCGATAACTCATTACCGGTTTTGTCATTTCGAGATCGGTTTTGTCATATTTT
195 ACTTTCAACATATCCGATAACTCATTACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTT
* *
540235 TACCTGTTATATTGTTATGGATCGATATATTTTT
260 TACCTGTTATATTGTTATGGATAGATACATTTTT
540269 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGTTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGTTTTACCTGTTTTGTCATTTATAGACCGGT
* * *
540334 TTTGTCATTTTTTTACCTATTATATTATTATGGATCGATACATTTTTATAAAGTATCGACACTTT
66 TTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTT
* * * *
540399 ATTGGCGCTATAACTTCTTTTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAAGTATCGAC
131 ATTAGCGC-ATAACTTCTTCTCTTTTAAATTCCAAAAATGTCAATACTTATAATAAAGTATCGAC
* * * * *
540464 ACTTTTAACATATCTGGTAGCTCTTTACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTT
195 ACTTTCAACATATCCGATAACTCATTACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTT
*
540529 TATCTGTTATATTGTTATGGATAGATACATTTTT
260 TACCTGTTATATTGTTATGGATAGATACATTTTT
* *
540563 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACTGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGTTTTACCTGTTTTGTCATTTATAGACCGGT
540628 TTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTT
66 TTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTT
540693 CAATATATCC
Statistics
Matches: 393, Mismatches: 29, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
293 124 0.32
294 269 0.68
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.44
Consensus pattern (293 bp):
ATAAAGTATCGACACTTTCAATATATCCGGTAGCGTTTTACCTGTTTTGTCATTTATAGACCGGT
TTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTT
ATTAGCGCATAACTTCTTCTCTTTTAAATTCCAAAAATGTCAATACTTATAATAAAGTATCGACA
CTTTCAACATATCCGATAACTCATTACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTT
ACCTGTTATATTGTTATGGATAGATACATTTTT
Found at i:540648 original size:112 final size:112
Alignment explanation
Indices: 540451--540803 Score: 591
Period size: 112 Copynumber: 3.2 Consensus size: 112
540441 GATACTTATA
* * * * * **
540451 ATAAAGTATCGACACTTTTAACATATCTGGTAGCTCTTTACCGGTTTTGTCATTTCGAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* *
540516 TTTGTCATATTTTTATCTGTTATATTGTTATGGATAGATACATTTTT
66 TTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
*
540563 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACTGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
540628 TTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
* *
540675 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTATTTTGTCATTTATAAACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
540740 TTTGTCAT-TTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
540786 ATAAAGTATCGACACTTT
1 ATAAAGTATCGACACTTT
540804 ATTATCGCTA
Statistics
Matches: 228, Mismatches: 13, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
111 56 0.25
112 172 0.75
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.45
Consensus pattern (112 bp):
ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
TTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
Found at i:540927 original size:405 final size:405
Alignment explanation
Indices: 540157--541097 Score: 1544
Period size: 405 Copynumber: 2.3 Consensus size: 405
540147 AATACTTATA
* * * * * * **
540157 ATAAAGTATCGACACTTTCAACATATCCGATAACTCATTACCGGTTTTGTCATTTCGAGA-TCGG
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACT-GG
540221 TTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATATATTTTTATAAAGTATCGACACTT
65 TTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATATATTTTTATAAAGTATCGACACTT
* * *
540286 TCAATATATCCGGTAGCGTTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTACC
130 TCAATATATCCGGTAGCGCTTTACCTATTTTGTCATTTATAAACCGGTTTTGTCATTTTTTTACC
*
540351 TATTATATTATTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTC
195 TATTATATTATTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTC
* *
540416 TTTTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAAGTATCGACACTTTTAACATATCTGG
260 TTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAAGTATCGACACTTTCAACATATCTGG
* * *
540481 TAGCTCTTTACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTATCTGTTATATTGTTA
325 TAGCTCTTTACCGGTTTTGTCATTTCGAGACAGGTTTTGTCATATTTTTACCTATTATATTGTTA
540546 TGGATAGATACATTTTT
390 TGGATAGATACA-TTTT
540563 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACTGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACTGGT
*
540628 TTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTT
66 TTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATATATTTTTATAAAGTATCGACACTTT
540693 CAATATATCCGGTAGCGCTTTACCTATTTTGTCATTTATAAACCGGTTTTGTCA-TTTTTTACCT
131 CAATATATCCGGTAGCGCTTTACCTATTTTGTCATTTATAAACCGGTTTTGTCATTTTTTTACCT
* * *
540757 GTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTATCGCTATAACTTCT
196 ATTATATTATTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCT
540822 TCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAAGTATCGACACTTTCAACATATCTGGT
261 TCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAAGTATCGACACTTTCAACATATCTGGT
* *
540887 AGCTCTTTACCGGTTTTGTCGTTTTGAGACAGGTTTTGTCATATTTTTACCTATTATATTGTTAT
326 AGCTCTTTACCGGTTTTGTCATTTCGAGACAGGTTTTGTCATATTTTTACCTATTATATTGTTAT
*
540952 GGATCGATACATTTT
391 GGATAGATACATTTT
* * * *
540967 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACATGTTTTGTCATTTATATACCGAT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACTGGT
* * * * *
541032 TTTGTCATTTTTTGTACCTATTATATTGTTATAGATCGATATATTTTTATAAAGTGTAGACACTT
66 TTTGTCATATTTT-TACCTGTTATATTGTTATGGATCGATATATTTTTATAAAGTATCGACACTT
541097 T
130 T
541098 ATTGGTGCTA
Statistics
Matches: 499, Mismatches: 34, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
404 77 0.15
405 251 0.50
406 170 0.34
407 1 0.00
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.44
Consensus pattern (405 bp):
ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACTGGT
TTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATATATTTTTATAAAGTATCGACACTTT
CAATATATCCGGTAGCGCTTTACCTATTTTGTCATTTATAAACCGGTTTTGTCATTTTTTTACCT
ATTATATTATTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCT
TCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAAGTATCGACACTTTCAACATATCTGGT
AGCTCTTTACCGGTTTTGTCATTTCGAGACAGGTTTTGTCATATTTTTACCTATTATATTGTTAT
GGATAGATACATTTT
Found at i:541038 original size:111 final size:113
Alignment explanation
Indices: 540856--541097 Score: 328
Period size: 111 Copynumber: 2.2 Consensus size: 113
540846 GATACTTATA
* * * * *
540856 ATAAAGTATCGACACTTTCAACATATCTGGTAGCTCTTTACCGGTTTTGTCGTTTTGAGACAGGT
1 ATAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACAGGTTTTGTCATTTTGAGACAGAT
*
540921 TTTGTCATATTTT-TACCTATTATATTGTTATGGATCGATACA-TTTT
66 TTTGTCATATTTTGTACCTATTATATTGTTATAGATCGATACATTTTT
* * * *
540967 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACATGTTTTGTCATTTAT-ATACCGA
1 ATAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACAGGTTTTGTCATTT-TGAGACAGA
* *
541031 TTTTGTCATTTTTTGTACCTATTATATTGTTATAGATCGATATATTTTT
65 TTTTGTCATATTTTGTACCTATTATATTGTTATAGATCGATACATTTTT
* *
541080 ATAAAGTGTAGACACTTT
1 ATAAAGTATCGACACTTT
541098 ATTGGTGCTA
Statistics
Matches: 114, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
111 66 0.58
112 28 0.25
113 20 0.18
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.45
Consensus pattern (113 bp):
ATAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACAGGTTTTGTCATTTTGAGACAGAT
TTTGTCATATTTTGTACCTATTATATTGTTATAGATCGATACATTTTT
Found at i:541052 original size:699 final size:698
Alignment explanation
Indices: 539976--542090 Score: 3466
Period size: 699 Copynumber: 3.0 Consensus size: 698
539966 GATACTTATA
* * * ** *
539976 ATAAAGTATCGACACTTTCAACATATCTGGTAGCTCTTTACC-AGTTTTGTCATTTCGATACCGA
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTA-TTTTGTCATTTATAAACCGA
540040 TTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTT
65 TTTTATCAT-TTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTT
* *
540105 TATTAGCGC-ATAACTTCTTCTCTTTTAAATTCCAAAAATGTCAATACTTATAATAAAGTATCGA
129 TATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAAGTATCGA
* * *
540169 CACTTTCAACATATCCGATAACTCATTACCGGTTTTGTCATTTCGAGATCGGTTTTGTCATATTT
194 CACTTTCAACATATCCGGTAGCTCTTTACCGGTTTTGTCATTTCGAGA-CGGTTTTGTCATATTT
*
540234 TTACCTGTTATATTGTTATGGATCGATATATTTTTATAAAGTATCGACACTTTCAATATATCCGG
258 TTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTCAATATATCCGG
* *
540299 TAGCGTTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTACCTATTATATTATTA
323 TAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTACCTATTATATTGTTA
540364 TGGATCGATACATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTTTCTTTTAAAT
388 TGGATCGATACATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTTTCTTTTAAAT
* *
540429 TCCAAAAGTGTCGATACTTATAATAAAGTATCGACACTTTTAACATATCTGGTAGCTCTTTACCG
453 TCCAAAAGTGTCGATACTTATAATAAAGTATCGACACTTTCAACATATCCGGTAGCTCTTTACCG
* *
540494 GTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTATCTGTTATATTGTTATGGATAGATACAT
518 GTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACAT
540559 TTTTATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGAC
583 TTTTATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGAC
540624 TGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
648 TGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
*
540675 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTATTTTGTCATTTATAAACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTATTTTGTCATTTATAAACCGAT
*
540740 TTTGTCATTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTA
66 TTTATCATTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTA
*
540805 TTATCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAAGTATCGACA
131 TTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAAGTATCGACA
* * *
540870 CTTTCAACATATCTGGTAGCTCTTTACCGGTTTTGTCGTTTTGAGACAGGTTTTGTCATATTTTT
196 CTTTCAACATATCCGGTAGCTCTTTACCGGTTTTGTCATTTCGAGAC-GGTTTTGTCATATTTTT
*
540935 ACCTATTATATTGTTATGGATCGATACA-TTTTATAAAGTATCGACACTTTCAATATATCCGGTA
260 ACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTCAATATATCCGGTA
* * *
540999 GCGCTTTACATGTTTTGTCATTTATATACCGATTTTGTCATTTTTTGTACCTATTATATTGTTAT
325 GCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTT-TACCTATTATATTGTTAT
* * * * *
541064 AGATCGATATATTTTTATAAAGTGTAGACACTTTATTGGTGCTATAACTTCTTTTCTTTTAAATT
389 GGATCGATACATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTTTCTTTTAAATT
541129 CCAAAAGTGTCGATACTTATAATAAAGTATCGACACTTTCAACATATCCGGTAGCTCTTTACCGG
454 CCAAAAGTGTCGATACTTATAATAAAGTATCGACACTTTCAACATATCCGGTAGCTCTTTACCGG
* * *
541194 TTTTTTCATTTCGAGACCGGTTTTGTCATATTTTTGCCTGTTATATTGTTGTGGATCGATAC-TT
519 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATT
* *
541258 ATAATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGA-T
584 TTTATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACT
*
541322 CGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTT
649 -GGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
* * * * * *
541373 ATAAAGTATCAACACTTTCAATATATTCTGTAGCGCTTTACATGTTTTGTCATTTATAGACCGAT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTATTTTGTCATTTATAAACCGAT
* * * *
541438 TTTATCATTTTTTTACATGTTATATTGTTATGGATCAATATAATTTTATAAAGTATCGACACTTT
66 TTTATCA-TTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTT
* * * * *
541503 ATTAGCGCTATAACTTCTTTTCCTTTAAGTTCTAAAAGTGTCGATACTTATAATAAAGTATTGAC
130 ATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAAGTATCGAC
*
541568 ACTTTCAACATATCCGGTAGCTCTTTACCGGTTTTATCATTTCGAGACCGGTTTTGTCATATTTT
195 ACTTTCAACATATCCGGTAGCTCTTTACCGGTTTTGTCATTTCGAGA-CGGTTTTGTCATATTTT
* * *
541633 TACCTGTTATATTGTTATGGATCGATACATTTTTATAACGTATCGACATTTTCAATATATCCTGT
259 TACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTCAATATATCCGGT
* * *
541698 AGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTAATTTTTTTATCTGTTATATTGTTAT
324 AGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTACCTATTATATTGTTAT
* *
541763 GGATCGATACATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCATTTCTGTTAAATT
389 GGATCGATACATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTTTCTTTTAAATT
* *
541828 CCAAAAGTATCGATACTTATAATAAAGTATTGACACTTTCAACATATCCGGTAGCTCTTTACCGG
454 CCAAAAGTGTCGATACTTATAATAAAGTATCGACACTTTCAACATATCCGGTAGCTCTTTACCGG
* *
541893 TTTTGTCATTTCGAGATCAGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATT
519 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATT
* * * *
541958 TTTATAAAGTATCGACACTTTTAATATATTCTGTAGCGCTTTACCTGTTTTGTCATTTATAGACC
584 TTTATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACT
* *
542023 GGTTTTGTCATTTTTTTATCTGTTATATTGTTATGGATCGATACATTTTT
649 GGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
542073 ATAAAGTATCGACACTTT
1 ATAAAGTATCGACACTTT
542091 ATTGGCGCTA
Statistics
Matches: 1311, Mismatches: 95, Indels: 19
0.92 0.07 0.01
Matches are distributed among these distances:
697 1 0.00
698 318 0.24
699 791 0.60
700 201 0.15
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.44
Consensus pattern (698 bp):
ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTATTTTGTCATTTATAAACCGAT
TTTATCATTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTA
TTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAAGTATCGACA
CTTTCAACATATCCGGTAGCTCTTTACCGGTTTTGTCATTTCGAGACGGTTTTGTCATATTTTTA
CCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTCAATATATCCGGTAG
CGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTACCTATTATATTGTTATGG
ATCGATACATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTTTCTTTTAAATTCC
AAAAGTGTCGATACTTATAATAAAGTATCGACACTTTCAACATATCCGGTAGCTCTTTACCGGTT
TTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTT
TATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACTGG
TTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
Found at i:541144 original size:294 final size:293
Alignment explanation
Indices: 540563--541390 Score: 1315
Period size: 294 Copynumber: 2.8 Consensus size: 293
540553 ATACATTTTT
* * * *
540563 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTAT-AGACTGG
1 ATAAAGTATCGACACTTTCAACATATCCGGTAGCTCTTTACCGGTTTTGTCATTT-TGAGACAGG
540627 TTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTT
65 TTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACA-TTTTATAAAGTATCGACACTT
*
540692 TCAATATATCCGGTAGCGCTTTACCTATTTTGTCATTTATAAACCGGTTTTGTCA-TTTTTTACC
129 TCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAAACCGGTTTTGTCATTTTTTTACC
*
540756 TGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTATCGCTATAACTTC
194 TGTTATATTGTTATGGATCGATACATTTTTATAAAGTATAGACACTTTATTATCGCTATAACTTC
540821 TTCTCTTTTAAATTCCAAAAGTGTCGATACTTATA
259 TTCTCTTTTAAATTCCAAAAGTGTCGATACTTATA
* *
540856 ATAAAGTATCGACACTTTCAACATATCTGGTAGCTCTTTACCGGTTTTGTCGTTTTGAGACAGGT
1 ATAAAGTATCGACACTTTCAACATATCCGGTAGCTCTTTACCGGTTTTGTCATTTTGAGACAGGT
*
540921 TTTGTCATATTTTTACCTATTATATTGTTATGGATCGATACATTTTATAAAGTATCGACACTTTC
66 TTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTATAAAGTATCGACACTTTC
* * *
540986 AATATATCCGGTAGCGCTTTACATGTTTTGTCATTTATATACCGATTTTGTCATTTTTTGTACCT
131 AATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAAACCGGTTTTGTCATTTTTT-TACCT
* * * * *
541051 ATTATATTGTTATAGATCGATATATTTTTATAAAGTGTAGACACTTTATTGGT-GCTATAACTTC
195 GTTATATTGTTATGGATCGATACATTTTTATAAAGTATAGACACTTTATT-ATCGCTATAACTTC
*
541115 TTTTCTTTTAAATTCCAAAAGTGTCGATACTTATA
259 TTCTCTTTTAAATTCCAAAAGTGTCGATACTTATA
* * *
541150 ATAAAGTATCGACACTTTCAACATATCCGGTAGCTCTTTACCGGTTTTTTCATTTCGAGACCGGT
1 ATAAAGTATCGACACTTTCAACATATCCGGTAGCTCTTTACCGGTTTTGTCATTTTGAGACAGGT
* * *
541215 TTTGTCATATTTTTGCCTGTTATATTGTTGTGGATCGATAC-TTATAATAAAGTATCGACACTTT
66 TTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATT-TTATAAAGTATCGACACTTT
* * * *
541279 CAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGATCGGTTTTGTCATATTTTTACAT
130 CAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAAACCGGTTTTGTCATTTTTTTACCT
541344 GTTATATTGTTATGGATCGATACATTTTTATAAAGTATCA-ACACTTT
195 GTTATATTGTTATGGATCGATACATTTTTATAAAGTAT-AGACACTTT
541391 CAATATATTC
Statistics
Matches: 492, Mismatches: 37, Indels: 12
0.91 0.07 0.02
Matches are distributed among these distances:
292 73 0.15
293 150 0.30
294 268 0.54
295 1 0.00
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.44
Consensus pattern (293 bp):
ATAAAGTATCGACACTTTCAACATATCCGGTAGCTCTTTACCGGTTTTGTCATTTTGAGACAGGT
TTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTATAAAGTATCGACACTTTC
AATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAAACCGGTTTTGTCATTTTTTTACCTG
TTATATTGTTATGGATCGATACATTTTTATAAAGTATAGACACTTTATTATCGCTATAACTTCTT
CTCTTTTAAATTCCAAAAGTGTCGATACTTATA
Found at i:541255 original size:405 final size:404
Alignment explanation
Indices: 540844--541796 Score: 1507
Period size: 405 Copynumber: 2.3 Consensus size: 404
540834 TCCAAAAGTG
* * * *
540844 TCGATACTTATAATAAAGTATCGACACTTTCAACATATCTGGTAGCTCTTTACCGGTTTTGTCGT
1 TCGATACTTATAATAAAGTATCGACACTTTCAATATATCTGGTAGCGCTTTACCTGTTTTGTCAT
*
540909 TT-TGAGACAGGTTTTGTCATATTTTTACCTATTATATTGTTATGGATCGATACA-TTTTATAAA
66 TTAT-AGAC-GGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAA
* *
540972 GTATCGACACTTTCAATATATCCGGTAGCGCTTTACATGTTTTGTCATTTATATACCGATTTTGT
129 GTATCGACACTTTCAATATATCCGGTAGCGCTTTACATGTTTTGTCATTTATAGACCGATTTTAT
* * * * *
541037 CATTTTTTGTACCTATTATATTGTTATAGATCGATATATTTTTATAAAGTGTAGACACTTTATTG
194 CATTTTTT-TACATATTATATTGTTATAGATCAATATAATTTTATAAAGTATAGACACTTTATTA
* *
541102 GTGCTATAACTTCTTTTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAAGTATCGACACTT
258 GCGCTATAACTTCTTTTCCTTTAAATTCCAAAAGTGTCGATACTTATAATAAAGTATCGACACTT
* *
541167 TCAACATATCCGGTAGCTCTTTACCGGTTTTTTCATTTCGAGACCGGTTTTGTCATATTTTTGCC
323 TCAACATATCCGGTAGCTCTTTACCGGTTTTATCATTTCGAGACCGGTTTTGTCATATTTTTACC
*
541232 TGTTATATTGTTGTGGA
388 TGTTATATTGTTATGGA
*
541249 TCGATACTTATAATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCAT
1 TCGATACTTATAATAAAGTATCGACACTTTCAATATATCTGGTAGCGCTTTACCTGTTTTGTCAT
*
541314 TTATAGATCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAG
66 TTATAGA-CGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAG
* * *
541379 TATCAACACTTTCAATATATTCTGTAGCGCTTTACATGTTTTGTCATTTATAGACCGATTTTATC
130 TATCGACACTTTCAATATATCCGGTAGCGCTTTACATGTTTTGTCATTTATAGACCGATTTTATC
* * *
541444 ATTTTTTTACATGTTATATTGTTATGGATCAATATAATTTTATAAAGTATCGACACTTTATTAGC
195 ATTTTTTTACATATTATATTGTTATAGATCAATATAATTTTATAAAGTATAGACACTTTATTAGC
* * *
541509 GCTATAACTTCTTTTCCTTTAAGTTCTAAAAGTGTCGATACTTATAATAAAGTATTGACACTTTC
260 GCTATAACTTCTTTTCCTTTAAATTCCAAAAGTGTCGATACTTATAATAAAGTATCGACACTTTC
541574 AACATATCCGGTAGCTCTTTACCGGTTTTATCATTTCGAGACCGGTTTTGTCATATTTTTACCTG
325 AACATATCCGGTAGCTCTTTACCGGTTTTATCATTTCGAGACCGGTTTTGTCATATTTTTACCTG
541639 TTATATTGTTATGGA
390 TTATATTGTTATGGA
* * * *
541654 TCGATACATTTTTATAACGTATCGACATTTTCAATATATCCT-GTAGCGCTTTACCTGTTTTGTC
1 TCGATAC-TTATAATAAAGTATCGACACTTTCAATATAT-CTGGTAGCGCTTTACCTGTTTTGTC
* * *
541718 ATTTATAGACCGGTTTTGTAATTTTTTTATCTGTTATATTGTTATGGATCGATACATTTTTATAA
64 ATTTATAGA-CGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAA
541783 AGTATCGACACTTT
128 AGTATCGACACTTT
541797 ATTGGCGCTA
Statistics
Matches: 504, Mismatches: 39, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
405 302 0.60
406 201 0.40
407 1 0.00
ACGTcount: A:0.26, C:0.15, G:0.14, T:0.44
Consensus pattern (404 bp):
TCGATACTTATAATAAAGTATCGACACTTTCAATATATCTGGTAGCGCTTTACCTGTTTTGTCAT
TTATAGACGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGT
ATCGACACTTTCAATATATCCGGTAGCGCTTTACATGTTTTGTCATTTATAGACCGATTTTATCA
TTTTTTTACATATTATATTGTTATAGATCAATATAATTTTATAAAGTATAGACACTTTATTAGCG
CTATAACTTCTTTTCCTTTAAATTCCAAAAGTGTCGATACTTATAATAAAGTATCGACACTTTCA
ACATATCCGGTAGCTCTTTACCGGTTTTATCATTTCGAGACCGGTTTTGTCATATTTTTACCTGT
TATATTGTTATGGA
Found at i:541424 original size:112 final size:112
Alignment explanation
Indices: 541150--541502 Score: 501
Period size: 112 Copynumber: 3.2 Consensus size: 112
541140 GATACTTATA
* * * * **
541150 ATAAAGTATCGACACTTTCAACATATCCGGTAGCTCTTTACCGGTTTTTTCATTTCGAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* * * * *
541215 TTTGTCATATTTTTGCCTGTTATATTGTTGTGGATCGATAC-TTATA
66 TTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTT
*
541261 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGATCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
541326 TTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTT
* * * * *
541373 ATAAAGTATCAACACTTTCAATATATTCTGTAGCGCTTTACATGTTTTGTCATTTATAGACCGAT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* * * * *
541438 TTTATCATTTTTTTACATGTTATATTGTTATGGATCAATATAATTTT
66 TTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTT
541485 ATAAAGTATCGACACTTT
1 ATAAAGTATCGACACTTT
541503 ATTAGCGCTA
Statistics
Matches: 217, Mismatches: 24, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
111 96 0.44
112 121 0.56
ACGTcount: A:0.26, C:0.15, G:0.14, T:0.44
Consensus pattern (112 bp):
ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
TTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTT
Found at i:541549 original size:294 final size:294
Alignment explanation
Indices: 541249--542266 Score: 1734
Period size: 294 Copynumber: 3.5 Consensus size: 294
541239 TTGTTGTGGA
* * * *
541249 TCGATACTTATAATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCAT
1 TCGATACTTATAATAAAGTATTGACACTTTCAACATATCCGGTAGCTCTTTACCGGTTTTGTCAT
** *
541314 TTATAGATCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAG
66 TTCGAGATCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAG
* * * *
541379 TATCAACACTTTCAATATATTCTGTAGCGCTTTACATGTTTTGTCATTTATAGACCGATTTTATC
131 TATCGACACTTTCAATATATTCTGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTC
* * * *
541444 ATTTTTTTA-CATGTTATATTGTTATGGATCAATATAATTTTATAAAGTATCGACACTTTATTAG
196 ATTTTTTTATC-TGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGG
* * *
541508 CGCTATAACTTCTTTTCCT-TTAAGTTCTAAAAGTG
260 CGCTATAACTTCATTT-CTGTTAAATTCCAAAAGTG
*
541543 TCGATACTTATAATAAAGTATTGACACTTTCAACATATCCGGTAGCTCTTTACCGGTTTTATCAT
1 TCGATACTTATAATAAAGTATTGACACTTTCAACATATCCGGTAGCTCTTTACCGGTTTTGTCAT
* *
541608 TTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAACG
66 TTCGAGATCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAG
* * *
541673 TATCGACATTTTCAATATATCCTGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTA
131 TATCGACACTTTCAATATATTCTGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTC
541738 ATTTTTTTATCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGGC
196 ATTTTTTTATCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGGC
*
541803 GCTATAACTTCATTTCTGTTAAATTCCAAAAGTA
261 GCTATAACTTCATTTCTGTTAAATTCCAAAAGTG
541837 TCGATACTTATAATAAAGTATTGACACTTTCAACATATCCGGTAGCTCTTTACCGGTTTTGTCAT
1 TCGATACTTATAATAAAGTATTGACACTTTCAACATATCCGGTAGCTCTTTACCGGTTTTGTCAT
*
541902 TTCGAGATCAGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAG
66 TTCGAGATCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAG
*
541967 TATCGACACTTTTAATATATTCTGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTC
131 TATCGACACTTTCAATATATTCTGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTC
542032 ATTTTTTTATCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGGC
196 ATTTTTTTATCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGGC
542097 GCTATAACTTCATTTCTGTTAAATTCCAAAAGTG
261 GCTATAACTTCATTTCTGTTAAATTCCAAAAGTG
* * *
542131 TCGATACTTATAAGAAAGTATTGACACTTTCAACATATCCGGTAGCTCTTTATCTGTTTTGTCAT
1 TCGATACTTATAATAAAGTATTGACACTTTCAACATATCCGGTAGCTCTTTACCGGTTTTGTCAT
542196 TTCGAGATCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAG
66 TTCGAGATCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAG
542261 TATCGA
131 TATCGA
542267 TACATTATTA
Statistics
Matches: 684, Mismatches: 38, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
293 2 0.00
294 681 1.00
295 1 0.00
ACGTcount: A:0.27, C:0.15, G:0.14, T:0.44
Consensus pattern (294 bp):
TCGATACTTATAATAAAGTATTGACACTTTCAACATATCCGGTAGCTCTTTACCGGTTTTGTCAT
TTCGAGATCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAG
TATCGACACTTTCAATATATTCTGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTC
ATTTTTTTATCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGGC
GCTATAACTTCATTTCTGTTAAATTCCAAAAGTG
Found at i:541767 original size:112 final size:112
Alignment explanation
Indices: 541555--541796 Score: 367
Period size: 112 Copynumber: 2.2 Consensus size: 112
541545 GATACTTATA
* * *
541555 ATAAAGTATTGACACTTTCAACATATCCGGTAGCTCTTTACCGGTTTTATCATTTCGAGACCGGT
1 ATAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTATCATTTAGAGACCGGT
*
541620 TTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTAATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
* * * * * * *
541667 ATAACGTATCGACATTTTCAATATATCCTGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTATCATTTAGAGACCGGT
* *
541732 TTTGTAATTTTTTTATCTGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTAATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
541779 ATAAAGTATCGACACTTT
1 ATAAAGTATCGACACTTT
541797 ATTGGCGCTA
Statistics
Matches: 115, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
112 115 1.00
ACGTcount: A:0.25, C:0.16, G:0.14, T:0.45
Consensus pattern (112 bp):
ATAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTATCATTTAGAGACCGGT
TTTGTAATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
Found at i:542015 original size:112 final size:112
Alignment explanation
Indices: 541836--542090 Score: 368
Period size: 112 Copynumber: 2.3 Consensus size: 112
541826 TTCCAAAAGT
* * * *
541836 ATCGATAC-TTATAATAAAGTATTGACACTTTCAACATATCCGGTAGCTCTTTACCGGTTTTGTC
1 ATCGATACATTTTTATAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTC
* *
541900 ATTTCGAGATCAGTTTTGTCATATTTTTACCTGTTATATTGTTATGG
66 ATTTAGAGACCAGTTTTGTCATATTTTTACCTGTTATATTGTTATGG
* * * * *
541947 ATCGATACATTTTTATAAAGTATCGACACTTTTAATATATTCTGTAGCGCTTTACCTGTTTTGTC
1 ATCGATACATTTTTATAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTC
* * * *
542012 ATTTATAGACCGGTTTTGTCATTTTTTTATCTGTTATATTGTTATGG
66 ATTTAGAGACCAGTTTTGTCATATTTTTACCTGTTATATTGTTATGG
542059 ATCGATACATTTTTATAAAGTATCGACACTTT
1 ATCGATACATTTTTATAAAGTATCGACACTTT
542091 ATTGGCGCTA
Statistics
Matches: 128, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
111 8 0.06
112 120 0.94
ACGTcount: A:0.25, C:0.15, G:0.14, T:0.45
Consensus pattern (112 bp):
ATCGATACATTTTTATAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTC
ATTTAGAGACCAGTTTTGTCATATTTTTACCTGTTATATTGTTATGG
Found at i:542397 original size:183 final size:182
Alignment explanation
Indices: 541961--542452 Score: 747
Period size: 182 Copynumber: 2.7 Consensus size: 182
541951 ATACATTTTT
* * * **
541961 ATAAAGTATCGACACTTTTAATATATTCT-GTAGCGCTTTACCTGTTTTGTCATTTATAGACCGG
1 ATAAAGTATCGACACTTTCAACATA-TCTGGTAGCTCTTTACCTGTTTTGTCATTTCGAGACCGG
* * *
542025 TTTTGTCATTTTTTTATCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTT
65 TTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACAT
*
542090 TATTGGCGCTATAACTTCATTTCTGTTAAATTCCAAAAGTGTCGATACTTATA
130 TATTAGCGCTATAACTTCATTTCTGTTAAATTCCAAAAGTGTCGATACTTATA
* * * * *
542143 AGAAAGTATTGACACTTTCAACATATCCGGTAGCTCTTTATCTGTTTTGTCATTTCGAGATCGGT
1 ATAAAGTATCGACACTTTCAACATATCTGGTAGCTCTTTACCTGTTTTGTCATTTCGAGACCGGT
*
542208 TTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGATACATT
66 TTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACATT
* *
542273 ATTAGCGCTATAACTTC-TTCTCTTTTAAATTCCAAAAAGTTTCGATACTTATA
131 ATTAGCGCTATAACTTCATT-TCTGTTAAATTCC-AAAAGTGTCGATACTTATA
*
542326 ATAAAGTATCGACTCTTTCAACATATCTGGTAGCTCTTTA-CTGGTTTTGTCATTTCGAGACCGG
1 ATAAAGTATCGACACTTTCAACATATCTGGTAGCTCTTTACCT-GTTTTGTCATTTCGAGACCGG
* *
542390 TTTTGTCATATTTTTACCTATTATATTGTTATGGATCGATAAATTTTTATAAAGTATCGACAC
65 TTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACAC
542453 TTTCAATATA
Statistics
Matches: 281, Mismatches: 25, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
181 4 0.01
182 143 0.51
183 134 0.48
ACGTcount: A:0.27, C:0.15, G:0.14, T:0.43
Consensus pattern (182 bp):
ATAAAGTATCGACACTTTCAACATATCTGGTAGCTCTTTACCTGTTTTGTCATTTCGAGACCGGT
TTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACATT
ATTAGCGCTATAACTTCATTTCTGTTAAATTCCAAAAGTGTCGATACTTATA
Found at i:542430 original size:588 final size:584
Alignment explanation
Indices: 540969--542680 Score: 2092
Period size: 588 Copynumber: 2.9 Consensus size: 584
540959 TACATTTTAT
* * * ** * *
540969 AAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACATGTTTTGTCATTTATATACCGATTT
1 AAAGTATTGACACTTTCAACATATCCGGTAGCTCTTTAC-TGTTTTGTCATTTCGAGACCGGTTT
* * * * * * * *
541034 TGTCATTTTTTGTACCTATTATATTGTTATAGATCGATATATTTTTATAAAGTGTAGACACTTTA
65 TGTCATATTTT-TACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGATACATTA
* * * * *
541099 TTGGTGCTATAACTTCTTTTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAAGTATCGACA
129 TTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTTTCGATACTTATAATAAAGTATCGACT
* * *
541164 CTTTCAACATATCCGGTAGCTCTTTACCGGTTTTTTCATTTCGAGACCGGTTTTGTCATATTTTT
194 CTTTCAACATATCTGGTAGCTCTTTACTGGTTTTATCATTTCGAGACCGGTTTTGTCATATTTTT
*
541229 GCCTGTTATATTGTTGTGGATCGATACTTATAATAAAGTATCGACACTTTCAATATATCCGGTAG
259 -CCTGTTATATTGTTATGGATCGATACTTATAATAAAGTATCGACACTTTCAATATATCCGGTAG
541294 CGCTTTACCTGTTTTGTCATTTATAGATCGGTTTTGTCATATTTTTACATGTTATATTGTTATGG
323 CGCTTTACCTGTTTTGTCATTTATAGATCGGTTTTGTCATATTTTTACATGTTATATTGTTATGG
*
541359 ATCGATACATTTTTATAAAGTATCAACACTTTCAATATATTCTGTAGCGCTTTACATGTTTTGTC
388 ATCGATACATTTTTATAAAGTATCGACACTTTCAATATATTCTGTAGCGCTTTACATGTTTTGTC
* * *
541424 ATTTATAGACCGATTTTATCATTTTTTTACATGTTATATTGTTATGGATCAATATAATTTTATAA
453 ATTTATAGACCGGTTTTGTCATTTTTTTAC-TGTTATATTGTTATGGATCAATATATTTTTATAA
* * *
541489 AGTATCGACACTTTATTAGCGCTATAACTTCTTTTCCTTTAAGTTCTAAAAGTGTCGATACTTAT
517 AGTATCGACACTTTATTAGCGCTATAACTTCATTTCCTTTAAATTCCAAAAGTGTCGATACTTAT
*
541554 AAT
582 AAG
* *
541557 AAAGTATTGACACTTTCAACATATCCGGTAGCTCTTTACCGGTTTTATCATTTCGAGACCGGTTT
1 AAAGTATTGACACTTTCAACATATCCGGTAGCTCTTTA-CTGTTTTGTCATTTCGAGACCGGTTT
* *
541622 TGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAACGTATCGACATTTTCA
65 TGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCG--A--TAC-
* * * * * * ** * * *
541687 ATATATCCTGTAGCGCTTTACCTGTTTTGTCATTTATAGACC---GGTTTTG-TAATT-T--T--
125 AT-TA---T-TAGCGCTATAACT-TCTTCTCTTTTAAATTCCAAAAGTTTCGATACTTATAATAA
* * * ** * * *
541743 --T-T-TA-TCTGTT----ATAT-TGTTATGGATCGATACAT--TTTTATAAAGTATCGACA-C-
184 AGTATCGACTCT-TTCAACATATCTGGTA--GCTCTTTAC-TGGTTTTAT-CA-TTTCGAGACCG
* * * *** * *
541794 TTTATTGGCGCTATAACTTCATTT-CTGTTAAATTCCAAAAGTATCGATACTTATAATAAAGTAT
243 GTT-TT-G-TC-AT-A-TT--TTTCCTGTTATATT-GTTATGGATCGATACTTATAATAAAGTAT
* * * * ** *
541858 TGACACTTTCAACATATCCGGTAGCTCTTTACCGGTTTTGTCATTTCGAGATCAGTTTTGTCATA
299 CGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGATCGGTTTTGTCATA
* *
541923 TTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTTAATATATT
364 TTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTCAATATATT
*
541988 CTGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTATCTGTTATATTG
429 CTGTAGCGCTTTACATGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTA-CTGTTATATTG
* * *
542053 TTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCATTT-CTGTT
493 TTATGGATCAATATATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCATTTCCT-TT
542117 AAATTCCAAAAGTGTCGATACTTATAAG
557 AAATTCCAAAAGTGTCGATACTTATAAG
*
542145 AAAGTATTGACACTTTCAACATATCCGGTAGCTCTTTATCTGTTTTGTCATTTCGAGATCGGTTT
1 AAAGTATTGACACTTTCAACATATCCGGTAGCTCTTTA-CTGTTTTGTCATTTCGAGACCGGTTT
542210 TGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGATACATTAT
65 TGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGATACATTAT
542275 TAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAAGTTTCGATACTTATAATAAAGTATCGACT
130 TAGCGCTATAACTTCTTCTCTTTTAAATTCC-AAAAGTTTCGATACTTATAATAAAGTATCGACT
*
542340 CTTTCAACATATCTGGTAGCTCTTTACTGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTT
194 CTTTCAACATATCTGGTAGCTCTTTACTGGTTTTATCATTTCGAGACCGGTTTTGTCATATTTTT
* * * *
542405 ACCTATTATATTGTTATGGATCGATAAATTTTTATAAAGTATCGACACTTTCAATATATCCGGTA
259 -CCTGTTATATTGTTATGGATCGAT-ACTTATAATAAAGTATCGACACTTTCAATATATCCGGTA
* *
542470 GCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCAT-TTTGTTACTTGTTATATTGTTAT
322 GCGCTTTACCTGTTTTGTCATTTATAGATCGGTTTTGTCATATTT-TTACATGTTATATTGTTAT
* *
542534 GGATCGATACATTTTTATAAAGTATCGACACTTTCAATATA-TCTAGTAGCTCTTTACTTGTTTT
386 GGATCGATACATTTTTATAAAGTATCGACACTTTCAATATATTCT-GTAGCGCTTTACATGTTTT
542598 GTCATTTATAGACCGGTTTTGTCATTTTTTTTAACTGTTATATTGTTATGGATCAATATATTTTT
450 GTCATTTATAGACCGGTTTTGTCA-TTTTTTT-ACTGTTATATTGTTATGGATCAATATATTTTT
542663 ATAAAGTATCGACACTTT
513 ATAAAGTATCGACACTTT
542681 CAATATATCC
Statistics
Matches: 937, Mismatches: 127, Indels: 118
0.79 0.11 0.10
Matches are distributed among these distances:
577 12 0.01
578 11 0.01
579 1 0.00
580 3 0.00
581 16 0.02
582 16 0.02
583 10 0.01
584 5 0.01
585 6 0.01
586 3 0.00
587 56 0.06
588 478 0.51
589 185 0.20
590 56 0.06
591 8 0.01
592 5 0.01
593 11 0.01
594 14 0.01
595 15 0.02
596 5 0.01
597 9 0.01
598 12 0.01
ACGTcount: A:0.26, C:0.15, G:0.14, T:0.45
Consensus pattern (584 bp):
AAAGTATTGACACTTTCAACATATCCGGTAGCTCTTTACTGTTTTGTCATTTCGAGACCGGTTTT
GTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGATACATTATT
AGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTTTCGATACTTATAATAAAGTATCGACTCT
TTCAACATATCTGGTAGCTCTTTACTGGTTTTATCATTTCGAGACCGGTTTTGTCATATTTTTCC
TGTTATATTGTTATGGATCGATACTTATAATAAAGTATCGACACTTTCAATATATCCGGTAGCGC
TTTACCTGTTTTGTCATTTATAGATCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATC
GATACATTTTTATAAAGTATCGACACTTTCAATATATTCTGTAGCGCTTTACATGTTTTGTCATT
TATAGACCGGTTTTGTCATTTTTTTACTGTTATATTGTTATGGATCAATATATTTTTATAAAGTA
TCGACACTTTATTAGCGCTATAACTTCATTTCCTTTAAATTCCAAAAGTGTCGATACTTATAAG
Found at i:542688 original size:113 final size:112
Alignment explanation
Indices: 542326--542789 Score: 707
Period size: 112 Copynumber: 4.1 Consensus size: 112
542316 GATACTTATA
* * * * **
542326 ATAAAGTATCGACTCTTTCAACATATCTGGTAGCTCTTTA-CTGGTTTTGTCATTTCGAGACCGG
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCT-GTTTTGTCATTTATAGACCGG
* * * * *
542390 TTTTGTCATATTTTTACCTATTATATTGTTATGGATCGATAAATTTTT
65 TTTTGTCATTTTTTTACATGTTATATTGTTATGGATCAATATATTTTT
542438 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* * * *
542503 TTTGTCATTTTGTTACTTGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTCATTTTTTTACATGTTATATTGTTATGGATCAATATATTTTT
** * *
542550 ATAAAGTATCGACACTTTCAATATATCTAGTAGCTCTTTACTTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
542615 TTTGTCATTTTTTTTA-ACTGTTATATTGTTATGGATCAATATATTTTT
66 TTTGTCA-TTTTTTTACA-TGTTATATTGTTATGGATCAATATATTTTT
*
542663 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTTATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
542728 TTTGTCATTTTTTTACATGTTATATTGTTATGGATCAATATATTTTT
66 TTTGTCATTTTTTTACATGTTATATTGTTATGGATCAATATATTTTT
542775 ATAAAGTATCGACAC
1 ATAAAGTATCGACAC
542790 AAACCGAAAA
Statistics
Matches: 324, Mismatches: 24, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
112 219 0.68
113 105 0.32
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.46
Consensus pattern (112 bp):
ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
TTTGTCATTTTTTTACATGTTATATTGTTATGGATCAATATATTTTT
Found at i:542720 original size:225 final size:224
Alignment explanation
Indices: 542326--542789 Score: 775
Period size: 225 Copynumber: 2.1 Consensus size: 224
542316 GATACTTATA
* * *
542326 ATAAAGTATCGACTCTTTCAACATATCTGGTAGCTCTTTACTGGTTTTGTCATTTCGAGACCGGT
1 ATAAAGTATCGACACTTTCAACATATCTAGTAGCTCTTTACTGGTTTTGTCATTTAGAGACCGGT
* *
542391 TTTGTCATATTTTTACCTATTATATTGTTATGGATCGATAAATTTTTATAAAGTATCGACACTTT
66 TTTGTCATATTTTTAACTATTATATTGTTATGGATCAATAAATTTTTATAAAGTATCGACACTTT
*
542456 CAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTGTTACTT
131 CAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTGTTACAT
*
542521 GTTATATTGTTATGGATCGATACATTTTT
196 GTTATATTGTTATGGATCAATACATTTTT
* * *
542550 ATAAAGTATCGACACTTTCAATATATCTAGTAGCTCTTTACTTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAACATATCTAGTAGCTCTTTACTGGTTTTGTCATTTAGAGACCGGT
* * *
542615 TTTGTCATTTTTTTTAACTGTTATATTGTTATGGATCAATATATTTTTATAAAGTATCGACACTT
66 TTTGTCA-TATTTTTAACTATTATATTGTTATGGATCAATAAATTTTTATAAAGTATCGACACTT
* *
542680 TCAATATATCCGGTAGCGCTTTACCTGTTTTGTTATTTATAGACCGGTTTTGTCATTTTTTTACA
130 TCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTGTTACA
*
542745 TGTTATATTGTTATGGATCAATATATTTTT
195 TGTTATATTGTTATGGATCAATACATTTTT
542775 ATAAAGTATCGACAC
1 ATAAAGTATCGACAC
542790 AAACCGAAAA
Statistics
Matches: 223, Mismatches: 16, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
224 66 0.30
225 157 0.70
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.46
Consensus pattern (224 bp):
ATAAAGTATCGACACTTTCAACATATCTAGTAGCTCTTTACTGGTTTTGTCATTTAGAGACCGGT
TTTGTCATATTTTTAACTATTATATTGTTATGGATCAATAAATTTTTATAAAGTATCGACACTTT
CAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTGTTACAT
GTTATATTGTTATGGATCAATACATTTTT
Found at i:546380 original size:20 final size:20
Alignment explanation
Indices: 546355--546406 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
546345 TTTTTAGCTC
*
546355 AAAGGATCGATCCCTTAGCA
1 AAAGGATCGATCCATTAGCA
* * **
546375 AAAGGATAGATCCATTTGTT
1 AAAGGATCGATCCATTAGCA
546395 AAAGGATCGATC
1 AAAGGATCGATC
546407 ACTTGGATTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (20 bp):
AAAGGATCGATCCATTAGCA
Found at i:547852 original size:44 final size:44
Alignment explanation
Indices: 547804--547980 Score: 264
Period size: 44 Copynumber: 4.0 Consensus size: 44
547794 TGTTACCGAA
* * *
547804 ATAAATGAAAATGCATAATGGTGCATTATTGGCAAAAATGTACT
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAAAAAGGTACC
* * * *
547848 ATAAATGAAAATACATAATGGTGCATTATTGGCAGAAAGGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAAAAAGGTACC
* *
547892 ATAAATGAAAATGCATAACGGTGCATTATTGGTAAAAAGGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAAAAAGGTACC
*
547936 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTACC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAAAAAGGTACC
547980 A
1 A
547981 CTCATGGTAT
Statistics
Matches: 121, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 121 1.00
ACGTcount: A:0.42, C:0.11, G:0.21, T:0.25
Consensus pattern (44 bp):
ATAAATGAAAATGCATAACGGTGCATTATTGGCAAAAAGGTACC
Found at i:550295 original size:3 final size:3
Alignment explanation
Indices: 550287--550354 Score: 127
Period size: 3 Copynumber: 22.7 Consensus size: 3
550277 AATATATATT
*
550287 TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
550335 TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TA
550355 TGGATAAAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:550879 original size:113 final size:113
Alignment explanation
Indices: 550668--551227 Score: 820
Period size: 113 Copynumber: 5.0 Consensus size: 113
550658 TGTGATAGCA
** *
550668 TCAAAC-AAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTATTCCTTCTTCAGATGAGTTCT
1 TCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCT
*** * *
550732 TCTCATTATGAACTTTCTCTGGAAAGGCTGATCCATCAATTGATGAAT
66 TCTCATTATGAACTTTCTCTGGAAAAAATAATCCATCAAGTGATGAAT
***
550780 TCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCT
1 TCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCT
*
550845 TCTCATTATGAACTTTCTCTGGAAAAAATAATCCATCCAGTGATGAAT
66 TCTCATTATGAACTTTCTCTGGAAAAAATAATCCATCAAGTGATGAAT
* ** *
550893 TCAGATTAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCT
1 TCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCT
* *
550958 TCTCATTATGAACCTTCTCTGGCAAAAATAATCCATCAAGTGATGAAT
66 TCTCATTATGAACTTTCTCTGGAAAAAATAATCCATCAAGTGATGAAT
551006 TCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCT
1 TCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCT
* *** *
551071 TCTCATTATGAACTTTCTCTGGCAATGTTGATCCATCCAA-TGATGAAT
66 TCTCATTATGAACTTTCTCTGGAAAAAATAATCCAT-CAAGTGATGAAT
* *
551119 TCAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCT
1 TCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCT
* *** *
551184 TCTCATTATGAAC-TTCTCTGGCAATGTTGATCCATCAAGTGATG
66 TCTCATTATGAACTTTCTCTGGAAAAAATAATCCATCAAGTGATG
551228 GATTTGAATC
Statistics
Matches: 416, Mismatches: 29, Indels: 6
0.92 0.06 0.01
Matches are distributed among these distances:
111 3 0.01
112 30 0.07
113 380 0.91
114 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (113 bp):
TCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCT
TCTCATTATGAACTTTCTCTGGAAAAAATAATCCATCAAGTGATGAAT
Found at i:552158 original size:84 final size:84
Alignment explanation
Indices: 551961--552260 Score: 550
Period size: 84 Copynumber: 3.6 Consensus size: 84
551951 CCTACTAAAT
* * *
551961 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAACACATTCATCTTTTAAACTCA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATCTTCTAAATTCA
552025 ATGATT-GTTCTGTCCAAC
66 ATGATTGGTTCTGTCCAAC
552043 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATCTTCTAAATTCA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATCTTCTAAATTCA
*
552108 ATGATTGGTTTTGTCCAAC
66 ATGATTGGTTCTGTCCAAC
552127 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATCTTCTAAATTCA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATCTTCTAAATTCA
552192 ATGATTGGTTCTGTCCAAC
66 ATGATTGGTTCTGTCCAAC
552211 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATT
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATT
552261 ATATTTGTTC
Statistics
Matches: 211, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
82 39 0.18
83 28 0.13
84 144 0.68
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (84 bp):
CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATCTTCTAAATTCA
ATGATTGGTTCTGTCCAAC
Found at i:553413 original size:10 final size:10
Alignment explanation
Indices: 553398--553433 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
553388 TTGACCCCCC
553398 CTTTTTTTTT
1 CTTTTTTTTT
*
553408 C-TTTTTTTC
1 CTTTTTTTTT
553417 CTTTTTTTTT
1 CTTTTTTTTT
553427 CTTTTTT
1 CTTTTTT
553434 CTTTTCTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
9 8 0.35
10 15 0.65
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (10 bp):
CTTTTTTTTT
Found at i:553419 original size:19 final size:19
Alignment explanation
Indices: 553397--553433 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
553387 CTTGACCCCC
553397 CCTTTTTTTTTCTTTTTTT
1 CCTTTTTTTTTCTTTTTTT
553416 CCTTTTTTTTTCTTTTTT
1 CCTTTTTTTTTCTTTTTT
553434 CTTTTCTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (19 bp):
CCTTTTTTTTTCTTTTTTT
Found at i:560712 original size:14 final size:15
Alignment explanation
Indices: 560693--560724 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
560683 TATTTTTTCA
560693 AATTTTAA-TTAATG
1 AATTTTAACTTAATG
560707 AATTTTAACTTAATG
1 AATTTTAACTTAATG
560722 AAT
1 AAT
560725 AAAATAATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (15 bp):
AATTTTAACTTAATG
Found at i:565900 original size:3 final size:3
Alignment explanation
Indices: 565892--565977 Score: 106
Period size: 3 Copynumber: 28.3 Consensus size: 3
565882 TTAATATATT
*
565892 TAA TAA TAA TAA TAA TAA TAA TGAA TAA TAAA TAAA TAA TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA T-AA T-AA TAA TAA TAA TAA
565940 -AA -AA TAA T-A TAA TAA TAA TAA TAA TAAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA T
565978 GATGGGTAAT
Statistics
Matches: 76, Mismatches: 2, Indels: 10
0.86 0.02 0.11
Matches are distributed among these distances:
2 6 0.08
3 57 0.75
4 13 0.17
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:572253 original size:57 final size:57
Alignment explanation
Indices: 572179--572301 Score: 137
Period size: 58 Copynumber: 2.1 Consensus size: 57
572169 AAATCGAGGT
* *
572179 AAAGTATATAAATGAT-CCC-AACTAT-AGGATATTATTTTATTGAGTCATCCT-ACTATTA
1 AAAGT-TATAAATGATCCCCTAACTATGA-GACATTATTTT-TTAAGTC--CCTCACTATTA
*
572237 AAAGTTATCAATGATCCCCTAACTATGAGACATTATTTTTTAAGTCCCTCGACTATTA
1 AAAGTTATAAATGATCCCCTAACTATGAGACATTATTTTTTAAGTCCCTC-ACTATTA
572295 AAAGTTA
1 AAAGTTA
572302 CAAAATGGTC
Statistics
Matches: 57, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
56 3 0.05
57 9 0.16
58 28 0.49
59 16 0.28
60 1 0.02
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (57 bp):
AAAGTTATAAATGATCCCCTAACTATGAGACATTATTTTTTAAGTCCCTCACTATTA
Found at i:572709 original size:20 final size:19
Alignment explanation
Indices: 572675--572718 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
572665 ATGAATGATT
572675 ATTTTATAATCATTTCATA
1 ATTTTATAATCATTTCATA
* *
572694 ATTTTAATAATTATTTTATA
1 ATTTT-ATAATCATTTCATA
572714 ATTTT
1 ATTTT
572719 TAAAAAGTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (19 bp):
ATTTTATAATCATTTCATA
Found at i:572766 original size:24 final size:24
Alignment explanation
Indices: 572736--572782 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
572726 TTAATGCTTA
*
572736 AAAATAATTTGTTGG-CCTATGATT
1 AAAATAATTT-ATGGACCTATGATT
572760 AAAATAATTTATGGACCTATGAT
1 AAAATAATTTATGGACCTATGAT
572783 AAATTTTATC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 3 0.14
24 18 0.86
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.38
Consensus pattern (24 bp):
AAAATAATTTATGGACCTATGATT
Found at i:573118 original size:2 final size:2
Alignment explanation
Indices: 573111--573139 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
573101 AATTTTAAAT
573111 TA 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 TA T
573140 TATCCCTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:574145 original size:15 final size:16
Alignment explanation
Indices: 574121--574153 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
574111 GCTCTTTTCT
574121 TTGATATT-AATAAAA
1 TTGATATTAAATAAAA
*
574136 TTGATTTTAAATAAAA
1 TTGATATTAAATAAAA
574152 TT
1 TT
574154 AAATAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (16 bp):
TTGATATTAAATAAAA
Found at i:575245 original size:18 final size:18
Alignment explanation
Indices: 575222--575256 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
575212 TTTCGTTTTT
* *
575222 TTTTCTTTTTTTTTTCTG
1 TTTTCTATTTTTGTTCTG
575240 TTTTCTATTTTTGTTCT
1 TTTTCTATTTTTGTTCT
575257 CTGTCTCTCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.03, C:0.11, G:0.06, T:0.80
Consensus pattern (18 bp):
TTTTCTATTTTTGTTCTG
Found at i:575259 original size:20 final size:18
Alignment explanation
Indices: 575222--575260 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
575212 TTTCGTTTTT
*
575222 TTTTCTTTTTTTTTTCTG
1 TTTTCTTTTTTTTCTCTG
575240 TTTTCTATTTTTGTTCTCTG
1 TTTTCT-TTTTT-TTCTCTG
575260 T
1 T
575261 CTCTCTGTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 5 0.28
20 7 0.39
ACGTcount: A:0.03, C:0.13, G:0.08, T:0.77
Consensus pattern (18 bp):
TTTTCTTTTTTTTCTCTG
Found at i:575653 original size:3 final size:3
Alignment explanation
Indices: 575645--575738 Score: 100
Period size: 3 Copynumber: 30.7 Consensus size: 3
575635 GGCCCGTTTG
* * *
575645 TAA TAA TAA TTAA TAA TAA TAT TAG TAA TAAA TAA TAA -AA TTAG TAA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA -TAA TAA
* * *
575692 TTA TAA TTA TAA TAA TAA TAA TTA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
575739 TTTAAATGAA
Statistics
Matches: 76, Mismatches: 11, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
2 2 0.03
3 67 0.88
4 7 0.09
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:576270 original size:113 final size:113
Alignment explanation
Indices: 575987--576772 Score: 1375
Period size: 113 Copynumber: 6.9 Consensus size: 113
575977 TCTTGATGAG
* * *
575987 TTCTTCTCATTATGAACTTCTTCCTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTAC
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAAC-CTTC
* * * *
576052 -CTGGCAATGTTGATCCATCAAATGATGAATTCAAGCAAAAGGTTTGAACAAA
62 TCTGGCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGG-TTGAACAAA
* *
576104 TTCTTCTCATTATGAATTTCTTCTTCTTTATTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
576169 GCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAA
66 GCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAA
576217 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
576282 GCAATGATAATCCATCAAGTGATGAATTCAAAC-AAAGGTTGAACAAA
66 GCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAA
576329 TTCTTCTCATTATGAATTTCTT-TTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
576393 GCAATGATAATCCATCAAGTGATGAATTCAAAC-AAAGGTTGAACAAA
66 GCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAA
576440 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
576505 GCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAA
66 GCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAA
576553 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
576618 GCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAA
66 GCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAA
576666 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
* **
576731 GCAATGATAATCCATC-AGATGATGGATTTGAACAAAAGGTTG
66 GCAATGATAATCCATCAAG-TGATGAATTCAAACAAAAGGTTG
576773 GTTCTTCTCA
Statistics
Matches: 651, Mismatches: 14, Indels: 12
0.96 0.02 0.02
Matches are distributed among these distances:
111 111 0.17
112 113 0.17
113 336 0.52
114 58 0.09
117 33 0.05
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (113 bp):
TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
GCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAA
Found at i:576642 original size:336 final size:340
Alignment explanation
Indices: 575987--576771 Score: 1382
Period size: 336 Copynumber: 2.3 Consensus size: 340
575977 TCTTGATGAG
* * *
575987 TTCTTCTCATTATGAACTTCTTCCTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTAC
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAAC-CTTC
* * *
576052 -CTGGCAATGTTGATCCATCAAATGATGAATTCAAGCAAAAGGTTTGAACAAATTCTTCTCATTA
62 TCTGGCAATGATAATCCATCAAATGATGAATTCAAACAAAAGGTTTGAACAAATTCTTCTCATTA
*
576116 TGAATTTCTTCTTCTTTATTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATC
127 TGAATTTCTTCTTCCTTATTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATC
576181 CATCAAGTGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTT
192 CATCAAGTGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTT
576246 CTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAAGTGATGAATTC
257 CTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAAGTGATGAATTC
576311 AAAC-AAAGGTTGAACAAA
322 AAACAAAAGGTTGAACAAA
576329 TTCTTCTCATTATGAATTTCTT-TTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
*
576393 GCAATGATAATCCATCAAGTGATGAATTCAAAC-AAAGG-TTGAACAAATTCTTCTCATTATGAA
66 GCAATGATAATCCATCAAATGATGAATTCAAACAAAAGGTTTGAACAAATTCTTCTCATTATGAA
*
576456 TTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATC
131 TTTCTTCTTCCTTATTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATC
576521 AAGTGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTC
196 AAGTGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTC
576586 AGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAAGTGATGAATTCAAAC
261 AGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAAGTGATGAATTCAAAC
576651 AAAAGGTTGAACAAA
326 AAAAGGTTGAACAAA
576666 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
* * **
576731 GCAATGATAATCCATCAGATGATGGATTTGAACAAAAGGTT
66 GCAATGATAATCCATCAAATGATGAATTCAAACAAAAGGTT
576772 GGTTCTTCTC
Statistics
Matches: 424, Mismatches: 14, Indels: 12
0.94 0.03 0.03
Matches are distributed among these distances:
336 218 0.51
337 44 0.10
338 122 0.29
339 5 0.01
340 1 0.00
341 13 0.03
342 21 0.05
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (340 bp):
TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
GCAATGATAATCCATCAAATGATGAATTCAAACAAAAGGTTTGAACAAATTCTTCTCATTATGAA
TTTCTTCTTCCTTATTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATC
AAGTGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTC
AGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAAGTGATGAATTCAAAC
AAAAGGTTGAACAAA
Found at i:576799 original size:181 final size:181
Alignment explanation
Indices: 576592--576928 Score: 631
Period size: 181 Copynumber: 1.9 Consensus size: 181
576582 CTTCAGATGA
576592 GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCA-AGTGATGAATTCAAACAAAAG
1 GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAGA-TGATGAATTCAAACAAAAG
576656 GTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
65 GTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
576721 ACCTTCTCTGGCAATGATAATCCATCAGATGATGGATTTGAACAAAAGGTTG
130 ACCTTCTCTGGCAATGATAATCCATCAGATGATGGATTTGAACAAAAGGTTG
* **
576773 GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAGATGATGGATTTGAACAAAAGG
1 GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAGATGATGAATTCAAACAAAAGG
576838 TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
66 TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
576903 CCTTCTCTGGCAATGATAATCCATCA
131 CCTTCTCTGGCAATGATAATCCATCA
576929 AGTGATGAAT
Statistics
Matches: 152, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
181 151 0.99
182 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (181 bp):
GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAGATGATGAATTCAAACAAAAGG
TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
CCTTCTCTGGCAATGATAATCCATCAGATGATGGATTTGAACAAAAGGTTG
Found at i:576814 original size:68 final size:68
Alignment explanation
Indices: 576705--576840 Score: 272
Period size: 68 Copynumber: 2.0 Consensus size: 68
576695 CTTCAGATGA
576705 GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAGATGATGGATTTGAACAAAAGG
1 GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAGATGATGGATTTGAACAAAAGG
576770 TTG
66 TTG
576773 GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAGATGATGGATTTGAACAAAAGG
1 GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAGATGATGGATTTGAACAAAAGG
576838 TTG
66 TTG
576841 AACAAATTCT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (68 bp):
GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAGATGATGGATTTGAACAAAAGG
TTG
Found at i:576901 original size:407 final size:406
Alignment explanation
Indices: 576367--577179 Score: 1504
Period size: 407 Copynumber: 2.0 Consensus size: 406
576357 CTTCAGATGA
576367 GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAAGTGATGAATTCAAACAAAGGT
1 GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAAGTGATGAATTCAAACAAAGGT
576432 TGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC
66 TGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC
576497 CTTCTCTGGCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCA
131 CTTCTCTGGCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCA
576562 TTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATA
196 TTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATA
576627 ATCCATCA-AGTGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTT
261 ATCCATCAGA-TGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTT
576691 CCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAGATGATGG
325 CCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAGATGATGG
576756 ATTTGAACAAAAGGTTG
390 ATTTGAACAAAAGGTTG
* **
576773 GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATC-AGATGATGGATTTGAACAAAAG
1 GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAAG-TGATGAATTCAAAC-AAAG
576837 GTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
64 GTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
*
576902 ACCTTCTCTGGCAATGATAATCCATCAAGTGATGAATTCAAACGAAAGGTTGAACAAATTCTTCT
129 ACCTTCTCTGGCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAATTCTTCT
576967 CATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGA
194 CATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGA
* * **
577032 TGATCCATCAGATGATGGATTTGAACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCT
259 TAATCCATCAGATGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCT
*
577097 TCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATGATCCATCAGATGATG
324 TCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAGATGATG
577162 GATTTGAACAAAAGGTTG
389 GATTTGAACAAAAGGTTG
577180 AACAAATTCT
Statistics
Matches: 395, Mismatches: 9, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
405 2 0.01
406 53 0.13
407 339 0.86
408 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (406 bp):
GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAAGTGATGAATTCAAACAAAGGT
TGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC
CTTCTCTGGCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCA
TTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATA
ATCCATCAGATGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTC
CTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAGATGATGGA
TTTGAACAAAAGGTTG
Found at i:576971 original size:113 final size:113
Alignment explanation
Indices: 576773--577282 Score: 896
Period size: 113 Copynumber: 4.5 Consensus size: 113
576763 CAAAAGGTTG
576773 GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAGATGATGGATTTGAACAAAAGG
1 GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAGATGATGGATTTGAACAAAAGG
576838 TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGA
66 TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGA
* ** *
576886 GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCA-AGTGATGAATTCAAACGAAAG
1 GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAGA-TGATGGATTTGAACAAAAG
576950 GTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGA
65 GTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGA
*
576999 GTTCTTCTCATTATGAACCTTCTCTGGCAATGATGATCCATCAGATGATGGATTTGAACAAAAGG
1 GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAGATGATGGATTTGAACAAAAGG
577064 TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGA
66 TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGA
*
577112 GTTCTTCTCATTATGAACCTTCTCTGGCAATGATGATCCATCAGATGATGGATTTGAACAAAAGG
1 GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAGATGATGGATTTGAACAAAAGG
577177 TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGA
66 TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGA
* * * * * *
577225 GTTCTTCTCATTATGAACCTTTTCTGGAAAAGCTGATCCATCATATGATGGATTTGAA
1 GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAGATGATGGATTTGAA
577283 TCTTTGCTAA
Statistics
Matches: 381, Mismatches: 14, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
112 1 0.00
113 379 0.99
114 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (113 bp):
GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAGATGATGGATTTGAACAAAAGG
TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGA
Found at i:577008 original size:294 final size:294
Alignment explanation
Indices: 576479--577066 Score: 1115
Period size: 294 Copynumber: 2.0 Consensus size: 294
576469 CTTCAGATGA
576479 GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGG
1 GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGG
576544 TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
66 TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
576609 CCTTCTCTGGCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTC
131 CCTTCTCTGGCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTC
576674 ATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGAT
196 ATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGAT
576739 AATCCATCAGATGATGGATTTGAACAAAAGGTTG
261 AATCCATCAGATGATGGATTTGAACAAAAGGTTG
* **
576773 GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATC-AGATGATGGATTTGAACAAAAG
1 GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAAG-TGATGAATTCAAACAAAAG
576837 GTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
65 GTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
*
576902 ACCTTCTCTGGCAATGATAATCCATCAAGTGATGAATTCAAACGAAAGGTTGAACAAATTCTTCT
130 ACCTTCTCTGGCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAATTCTTCT
576967 CATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGA
195 CATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGA
*
577032 TGATCCATCAGATGATGGATTTGAACAAAAGGTTG
260 TAATCCATCAGATGATGGATTTGAACAAAAGGTTG
577067 AACAAATTCT
Statistics
Matches: 288, Mismatches: 5, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
293 2 0.01
294 286 0.99
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.37
Consensus pattern (294 bp):
GTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGG
TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
CCTTCTCTGGCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTC
ATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGAT
AATCCATCAGATGATGGATTTGAACAAAAGGTTG
Found at i:577707 original size:21 final size:21
Alignment explanation
Indices: 577681--577734 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 21
577671 CATAAAGTTT
*
577681 TCATCTTTGAAAGAGAATCTG
1 TCATCTTTGAAAGAGAATCTA
*
577702 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTT-GAAAGAGAATCTA
*
577724 CCATCTTTGAA
1 TCATCTTTGAA
577735 GAGTGTAGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 10 0.36
22 18 0.64
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (21 bp):
TCATCTTTGAAAGAGAATCTA
Found at i:579313 original size:83 final size:83
Alignment explanation
Indices: 579173--579354 Score: 303
Period size: 83 Copynumber: 2.2 Consensus size: 83
579163 CTTATTTCTA
*
579173 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTATGTCCAACCAGATTAGATAACTCAAA
1 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTATGTCCAACCAGATCAGATAACTCAAA
579238 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
* * *
579256 CTATGAACAAATTCATCTTCTAAATTCAATGATTGGTTTTG-CCAAACCAGATCAGATAACTCAA
1 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTATGTCC-AACCAGATCAGATAACTCAA
579320 AGAACACTTCCAGAAGATG
65 AGAACACTTCCAGAAGATG
*
579339 CTATGAGCACATTCAT
1 CTATGAGCAAATTCAT
579355 TTGTTCCATT
Statistics
Matches: 92, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
82 2 0.02
83 90 0.98
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.28
Consensus pattern (83 bp):
CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTATGTCCAACCAGATCAGATAACTCAAA
GAACACTTCCAGAAGATG
Found at i:587307 original size:2 final size:2
Alignment explanation
Indices: 587300--587331 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
587290 ATTTACCTAA
587300 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
587332 TCTGATAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:587932 original size:17 final size:19
Alignment explanation
Indices: 587910--587944 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
587900 TTTCGTTTTT
587910 TTTTCT-TTTTTT-TTCTG
1 TTTTCTATTTTTTGTTCTG
587927 TTTTCTATTTTTTGTTCT
1 TTTTCTATTTTTTGTTCT
587945 CTGTCTCTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 6 0.38
19 4 0.25
ACGTcount: A:0.03, C:0.11, G:0.06, T:0.80
Consensus pattern (19 bp):
TTTTCTATTTTTTGTTCTG
Found at i:588342 original size:3 final size:3
Alignment explanation
Indices: 588334--588430 Score: 106
Period size: 3 Copynumber: 31.7 Consensus size: 3
588324 GGCCCGTTTG
* * *
588334 TAA TAA TAA TTAA TAA TAA TAT TAG TAA TAAA TAA TAA -AA TTAG TAA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA -TAA TAA
* * *
588381 TTA TAA TTA TAA TAA TAA TAA TTA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
588429 TA
1 TA
588431 TTTAAATGAA
Statistics
Matches: 79, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
2 2 0.03
3 70 0.89
4 7 0.09
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:588551 original size:20 final size:20
Alignment explanation
Indices: 588526--588563 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
588516 TTTCATTCCC
*
588526 TTTCATTCTAAACTAACATA
1 TTTCATTCTAAACGAACATA
588546 TTTCATTCTAAACGAACA
1 TTTCATTCTAAACGAACA
588564 CGTTTACGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.21, G:0.03, T:0.37
Consensus pattern (20 bp):
TTTCATTCTAAACGAACATA
Found at i:593325 original size:20 final size:19
Alignment explanation
Indices: 593283--593329 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
593273 TTAATTTAAG
*
593283 TAATATAAATATTTATATTT
1 TAAT-TAAATATTTATATAT
593303 TAAATTAAATATATTATA-AT
1 T-AATTAAATAT-TTATATAT
593323 TAATTAA
1 TAATTAA
593330 TTAATTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 6 0.25
20 10 0.42
21 8 0.33
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TAATTAAATATTTATATAT
Found at i:596736 original size:53 final size:54
Alignment explanation
Indices: 596673--596775 Score: 145
Period size: 54 Copynumber: 1.9 Consensus size: 54
596663 CTTGTAAACC
* * *
596673 AACCATCTTCATTGTA-GATATTTTAAAATAATAAATATTAATAGTGAAGATGG
1 AACCAGCTTCATTGTATCATATTTTAAAATAATAAATATGAATAGTGAAGATGG
* * *
596726 AACCAGCTTCATTGTATCTTTTTTTAAAATAATAAATATGAATGGTGAAG
1 AACCAGCTTCATTGTATCATATTTTAAAATAATAAATATGAATAGTGAAG
596776 GCAACTTGTA
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
53 15 0.35
54 28 0.65
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.37
Consensus pattern (54 bp):
AACCAGCTTCATTGTATCATATTTTAAAATAATAAATATGAATAGTGAAGATGG
Found at i:601456 original size:2 final size:2
Alignment explanation
Indices: 601410--601437 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
601400 CCCTCATTCC
601410 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
601438 AATCTTAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:604538 original size:2 final size:2
Alignment explanation
Indices: 604531--604573 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
604521 TAAATTTAAA
604531 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
604573 A
1 A
604574 AAGTTTGTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:610531 original size:21 final size:21
Alignment explanation
Indices: 610505--610556 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
610495 TCTGGACATC
610505 TGGAGGAGTTCATTGTTTTAT
1 TGGAGGAGTTCATTGTTTTAT
610526 TGGAGGAGTTCATTGTTTTAT
1 TGGAGGAGTTCATTGTTTTAT
* *
610547 TTGAGAAGTT
1 TGGAGGAGTT
610557 ATCATTCTGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.21, C:0.04, G:0.29, T:0.46
Consensus pattern (21 bp):
TGGAGGAGTTCATTGTTTTAT
Done.