Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold72
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: 5928628
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 261288 characters in sequence are not A, C, G, or T
File 4 of 39
Found at i:384684 original size:64 final size:63
Alignment explanation
Indices: 384426--384740 Score: 199
Period size: 61 Copynumber: 5.0 Consensus size: 63
384416 GGTGAAAGAG
* * * * * *
384426 TGCCACGGAGTTGTGGGCTTTGAAAAGAAAAGGAGTGCCACGGAGTTGT-GAGCTTTGAAAAGAA
1 TGCCACTGAGTCGTGGACTTT--AAAGAAAA-GAGTGCCACTGAGTCGTGGA-CTTTGAGAA-AA
384490 GG-
61 GGA
* * * * * *
384492 TGCCCCGGAGTTGTGGAC-TTAGAAGAAAAAAGAGTGCCACAGAGTTGTGGGC-TT---AAAAGG
1 TGCCACTGAGTCGTGGACTTTA-AAG--AAAAGAGTGCCACTGAGTCGTGGACTTTGAGAAAAGG
*
384552 G
63 A
* * * * *
384553 TGCCACGGAGTTGTGGAC-TTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTTGAGACGAA-
1 TGCCACTGAGTCGTGGACTTTA-AA-G-AAAAGAGTGCCACTGAGTCGTGGACTTTGAGA-AAAG
384616 -A
62 GA
*
384617 TGCCACTGAGTCGTGGACTTTAAAGAAAAG-GATGCCACTTAGTCGTGGACTTTGAAGAAAAGGA
1 TGCCACTGAGTCGTGGACTTTAAAGAAAAGAG-TGCCACTGAGTCGTGGACTTTG-AGAAAAGGA
* * * *
384681 TGCCACTGAGTCGTGGGCTTT-GAGAAGAGATTGCCACTGAGTCGTGGACTTT-A-AAAAGGA
1 TGCCACTGAGTCGTGGACTTTAAAGAAAAGAGTGCCACTGAGTCGTGGACTTTGAGAAAAGGA
384741 ACTTGAAGAA
Statistics
Matches: 212, Mismatches: 20, Indels: 40
0.78 0.07 0.15
Matches are distributed among these distances:
60 11 0.05
61 51 0.24
62 29 0.14
63 31 0.15
64 44 0.21
65 23 0.11
66 23 0.11
ACGTcount: A:0.30, C:0.15, G:0.33, T:0.22
Consensus pattern (63 bp):
TGCCACTGAGTCGTGGACTTTAAAGAAAAGAGTGCCACTGAGTCGTGGACTTTGAGAAAAGGA
Found at i:384719 original size:31 final size:31
Alignment explanation
Indices: 384546--384740 Score: 184
Period size: 32 Copynumber: 6.2 Consensus size: 31
384536 TTGTGGGCTT
* * * *
384546 AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGG
1 AAAAGGATGCCACTGAGTCGTGGACTTTG-A-G
* * *
384579 AAAAAGAGTGCCACGGAGTTGTGGACTTTGAG
1 AAAAGGA-TGCCACTGAGTCGTGGACTTTGAG
* *
384611 ACGAA--ATGCCACTGAGTCGTGGACTTTAAAG
1 A-AAAGGATGCCACTGAGTCGTGGACTTT-GAG
*
384642 AAAAGGATGCCACTTAGTCGTGGACTTTGAAG
1 AAAAGGATGCCACTGAGTCGTGGACTTTG-AG
*
384674 AAAAGGATGCCACTGAGTCGTGGGCTTTGAG
1 AAAAGGATGCCACTGAGTCGTGGACTTTGAG
*
384705 AAGA-GATTGCCACTGAGTCGTGGACTTT-A-
1 AAAAGGA-TGCCACTGAGTCGTGGACTTTGAG
384734 AAAAGGA
1 AAAAGGA
384741 ACTTGAAGAA
Statistics
Matches: 139, Mismatches: 15, Indels: 19
0.80 0.09 0.11
Matches are distributed among these distances:
29 3 0.02
30 26 0.19
31 29 0.21
32 52 0.37
33 8 0.06
34 21 0.15
ACGTcount: A:0.31, C:0.15, G:0.32, T:0.22
Consensus pattern (31 bp):
AAAAGGATGCCACTGAGTCGTGGACTTTGAG
Found at i:385735 original size:27 final size:26
Alignment explanation
Indices: 385694--385746 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
385684 GGGTATTTTC
385694 TTTCTCTTTTCTCTTTTTGTTTGTTTG
1 TTTCTCTTTTCTCTTTTT-TTTGTTTG
*
385721 TTTCTTCTTTT-TCTTTTTTTTTTTTG
1 TTTC-TCTTTTCTCTTTTTTTTGTTTG
385747 GAAAAGAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 7 0.29
27 11 0.46
28 6 0.25
ACGTcount: A:0.00, C:0.13, G:0.08, T:0.79
Consensus pattern (26 bp):
TTTCTCTTTTCTCTTTTTTTTGTTTG
Found at i:386029 original size:12 final size:13
Alignment explanation
Indices: 386012--386037 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
386002 GTTTTGTTTG
386012 TTTTTTGACTTTT
1 TTTTTTGACTTTT
386025 TTTTTTGACTTTT
1 TTTTTTGACTTTT
386038 GTTTGTGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.08, G:0.08, T:0.77
Consensus pattern (13 bp):
TTTTTTGACTTTT
Found at i:386054 original size:31 final size:29
Alignment explanation
Indices: 385995--386055 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 29
385985 TTTTTGTGTG
*
385995 TTTTTTTGTTTTGTTTGTTTTTTGACTTT
1 TTTTTTTGTTTTGTTTGTTGTTTGACTTT
386024 TTTTTTTGACTTTTGTTTGTGTGTTT-ACTTT
1 TTTTTTTG--TTTTGTTTGT-TGTTTGACTTT
386055 T
1 T
386056 GACTGTTCCG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 8 0.29
31 16 0.57
32 4 0.14
ACGTcount: A:0.05, C:0.05, G:0.15, T:0.75
Consensus pattern (29 bp):
TTTTTTTGTTTTGTTTGTTGTTTGACTTT
Found at i:393016 original size:52 final size:52
Alignment explanation
Indices: 392931--393055 Score: 205
Period size: 52 Copynumber: 2.4 Consensus size: 52
392921 ATATGAAAAG
* * *
392931 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATAAATCTGGGCAAAT
* *
392983 TTTCCTGCATGTATCGATACATTTTATAATGTATCGATAAATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATAAATCTGGGCAAAT
393035 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
393056 AAGATCAATG
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.37
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATAAATCTGGGCAAAT
Found at i:393066 original size:52 final size:52
Alignment explanation
Indices: 392931--393073 Score: 182
Period size: 52 Copynumber: 2.8 Consensus size: 52
392921 ATATGAAAAG
* * * *
392931 TTGCTTGCATGTATCGATACATTTA-ATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TAAGATAATGTATCGATAAATCTGGGCAAAT
* ***
392983 TTTCCTGCATGTATCGATACATTTTATAATGTATCGATAAATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATAAGATAATGTATCGATAAATCTGGGCAAAT
393035 TTGCCTGCATGTATCGATACA-AAGATCAATGTATCGATA
1 TTGCCTGCATGTATCGATACATAAGAT-AATGTATCGATA
393074 CAATGTATCG
Statistics
Matches: 80, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
51 4 0.05
52 76 0.95
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATAAGATAATGTATCGATAAATCTGGGCAAAT
Found at i:393079 original size:13 final size:13
Alignment explanation
Indices: 393061--393088 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
393051 ATACAAAGAT
393061 CAATGTATCGATA
1 CAATGTATCGATA
393074 CAATGTATCGATA
1 CAATGTATCGATA
393087 CA
1 CA
393089 TTTGAGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:393156 original size:20 final size:20
Alignment explanation
Indices: 393127--393167 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
393117 GTAGTAGCTT
393127 AAATTGTATCGATACA-AAA
1 AAATTGTATCGATACATAAA
393146 AAATATGTATCGATACATAAA
1 AAAT-TGTATCGATACATAAA
393167 A
1 A
393168 CAAATCGTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 4 0.20
20 12 0.60
21 4 0.20
ACGTcount: A:0.54, C:0.10, G:0.10, T:0.27
Consensus pattern (20 bp):
AAATTGTATCGATACATAAA
Found at i:394547 original size:13 final size:13
Alignment explanation
Indices: 394529--394553 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
394519 CATAAAATGT
394529 TGTATCGATACAA
1 TGTATCGATACAA
394542 TGTATCGATACA
1 TGTATCGATACA
394554 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:394742 original size:52 final size:52
Alignment explanation
Indices: 394649--394778 Score: 201
Period size: 52 Copynumber: 2.5 Consensus size: 52
394639 CACTGATCTT
* *
394649 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACA-TTTTAAAA
1 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATT-AAA
394700 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATTAAA
* *
394752 TGTATCGATACATGCAAGCAACTTTTC
1 TGTATCGATACATGCAGGCAAATTTTC
394779 ATATTTCGGG
Statistics
Matches: 73, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
51 19 0.26
52 51 0.70
53 3 0.04
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATTAAA
Found at i:400962 original size:20 final size:19
Alignment explanation
Indices: 400916--400972 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
400906 TTGTATAGAT
*
400916 ACATTGTATTGATACATGT
1 ACATTGTATTGATACATGG
*
400935 TCATTGTATTGATACATGG
1 ACATTGTATTGATACATGG
*
400954 ACAATTGTATCGATACATG
1 AC-ATTGTATTGATACATG
400973 AGATTGGCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.39
Consensus pattern (19 bp):
ACATTGTATTGATACATGG
Found at i:401038 original size:13 final size:13
Alignment explanation
Indices: 401017--401047 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
401007 CGATACATGG
*
401017 TACAATGTATCGA
1 TACATTGTATCGA
401030 TACATTGTATCGA
1 TACATTGTATCGA
401043 TACAT
1 TACAT
401048 GATGAATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:401041 original size:33 final size:33
Alignment explanation
Indices: 401001--401067 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
400991 CTACCATTGT
*
401001 TTGTATCGATACATGGT-ACAATGTATCGATACA
1 TTGTATCGATACATGATGA-AATGTATCGATACA
*
401034 TTGTATCGATACATGATGAATTGTATCGATACA
1 TTGTATCGATACATGATGAAATGTATCGATACA
401067 T
1 T
401068 AGCTTGTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 30 0.97
34 1 0.03
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (33 bp):
TTGTATCGATACATGATGAAATGTATCGATACA
Found at i:407195 original size:20 final size:20
Alignment explanation
Indices: 407170--407221 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
407160 AAAACCCAGA
407170 TGTATCGATACAATATTCCT
1 TGTATCGATACAATATTCCT
*
407190 TGTATCGATACAATATTGCT
1 TGTATCGATACAATATTCCT
407210 TGTATCGATACA
1 TGTATCGATACA
407222 TTGTATCAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.38
Consensus pattern (20 bp):
TGTATCGATACAATATTCCT
Found at i:407508 original size:77 final size:77
Alignment explanation
Indices: 407426--407569 Score: 252
Period size: 77 Copynumber: 1.9 Consensus size: 77
407416 GGTTTTAATT
407426 TCATCAAATTAAACTTTTAAAGTCATCCAAAAACCATTTTCTATCACTTTTTAAATCCTTCAAAT
1 TCATCAAATTAAACTTTTAAAGTCATCCAAAAACCATTTTCTATCACTTTTTAAATCCTTCAAAT
407491 CTCTCCATTTGA
66 CTCTCCATTTGA
* * * *
407503 TCATCATATTGAACTTTTAAAGTCATCCAAAAACTATTTTCTGTCACTTTTTAAATCCTTCAAAT
1 TCATCAAATTAAACTTTTAAAGTCATCCAAAAACCATTTTCTATCACTTTTTAAATCCTTCAAAT
407568 CT
66 CT
407570 TTAATTTTTC
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
77 63 1.00
ACGTcount: A:0.34, C:0.22, G:0.03, T:0.40
Consensus pattern (77 bp):
TCATCAAATTAAACTTTTAAAGTCATCCAAAAACCATTTTCTATCACTTTTTAAATCCTTCAAAT
CTCTCCATTTGA
Found at i:414231 original size:19 final size:19
Alignment explanation
Indices: 414174--414231 Score: 71
Period size: 19 Copynumber: 3.0 Consensus size: 19
414164 TACAAGCCAA
* *
414174 TGTATCGATACAATTTTTTG
1 TGTATCGATAC-ATATTTGG
*
414194 TGTATCGATACATACTTGG
1 TGTATCGATACATATTTGG
*
414213 TGTATCGATACATGTTTGG
1 TGTATCGATACATATTTGG
414232 CTACTGCCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
19 22 0.67
20 11 0.33
ACGTcount: A:0.24, C:0.12, G:0.21, T:0.43
Consensus pattern (19 bp):
TGTATCGATACATATTTGG
Found at i:414700 original size:13 final size:13
Alignment explanation
Indices: 414682--414709 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
414672 CATTATTCAA
414682 TGTATCGATACAT
1 TGTATCGATACAT
414695 TGTATCGATACAT
1 TGTATCGATACAT
414708 TG
1 TG
414710 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:414719 original size:33 final size:33
Alignment explanation
Indices: 414662--414728 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
414652 GCCAAGGAAA
*
414662 TGTATCGATACATTATTCAATGTATCGATACAT
1 TGTATCGATACATTATTCAATGTATCAATACAT
**
414695 TGTATCGATACATTGA-TCTTTGTATCAATACAT
1 TGTATCGATACATT-ATTCAATGTATCAATACAT
414728 T
1 T
414729 TGGGAATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATTATTCAATGTATCAATACAT
Found at i:420255 original size:13 final size:13
Alignment explanation
Indices: 420237--420261 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
420227 CAAAGATCAG
420237 TGTATCGATACAA
1 TGTATCGATACAA
420250 TGTATCGATACA
1 TGTATCGATACA
420262 TTGGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:420340 original size:19 final size:19
Alignment explanation
Indices: 420316--420378 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 19
420306 CTATACATTA
420316 TATCGATACAAAACTTATG
1 TATCGATACAAAACTTATG
420335 TATCGATAC---A--T-TG
1 TATCGATACAAAACTTATG
*
420348 TATCGATACAACACTTATG
1 TATCGATACAAAACTTATG
420367 TATCGATACAAA
1 TATCGATACAAA
420379 TCGTTGAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 11 0.30
14 1 0.03
16 2 0.05
18 1 0.03
19 22 0.59
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.32
Consensus pattern (19 bp):
TATCGATACAAAACTTATG
Found at i:420351 original size:13 final size:13
Alignment explanation
Indices: 420333--420357 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
420323 ACAAAACTTA
420333 TGTATCGATACAT
1 TGTATCGATACAT
420346 TGTATCGATACA
1 TGTATCGATACA
420358 ACACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:420352 original size:32 final size:32
Alignment explanation
Indices: 420308--420376 Score: 120
Period size: 32 Copynumber: 2.2 Consensus size: 32
420298 CTTCGTAACT
420308 ATACATTATATCGATACAAAACTTATGTATCG
1 ATACATTATATCGATACAAAACTTATGTATCG
* *
420340 ATACATTGTATCGATACAACACTTATGTATCG
1 ATACATTATATCGATACAAAACTTATGTATCG
420372 ATACA
1 ATACA
420377 AATCGTTGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.33
Consensus pattern (32 bp):
ATACATTATATCGATACAAAACTTATGTATCG
Found at i:421218 original size:49 final size:49
Alignment explanation
Indices: 421143--421409 Score: 314
Period size: 49 Copynumber: 5.6 Consensus size: 49
421133 AATAGTGTTA
* **
421143 ATTCATGGCCAGCGACGTT-GATCTTAAAGATGACGGTGCCAATATGCTG
1 ATTCAAGGCCAGCGATATTGGA-CTTAAAGATGACGGTGCCAATATGCTG
* * ** * * *
421192 ATTCAAAGCCAACGATACCGGACTTAAAGATGAAGATGCCAATGTGCTG
1 ATTCAAGGCCAGCGATATTGGACTTAAAGATGACGGTGCCAATATGCTG
* * *
421241 ATTCAAGGCCAGCGACATTGGTCTTAAAGATGACGGTGCCAATATACTG
1 ATTCAAGGCCAGCGATATTGGACTTAAAGATGACGGTGCCAATATGCTG
* *
421290 ATTCAAGGCCAGCAATATTGGACTT--A-A--A-GGTGCCAATGTGCTG
1 ATTCAAGGCCAGCGATATTGGACTTAAAGATGACGGTGCCAATATGCTG
* *
421333 ATTCAAGGCCAGCGACATTTGACTTAAAGATGACGGTGCCAATATGCTG
1 ATTCAAGGCCAGCGATATTGGACTTAAAGATGACGGTGCCAATATGCTG
*
421382 ATTTAAGGCCAGCGATATTGGACTTAAA
1 ATTCAAGGCCAGCGATATTGGACTTAAA
421410 AGAAGATGCC
Statistics
Matches: 179, Mismatches: 32, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
43 35 0.20
44 1 0.01
45 1 0.01
46 2 0.01
47 1 0.01
48 1 0.01
49 136 0.76
50 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.25
Consensus pattern (49 bp):
ATTCAAGGCCAGCGATATTGGACTTAAAGATGACGGTGCCAATATGCTG
Found at i:421365 original size:92 final size:95
Alignment explanation
Indices: 421143--421420 Score: 375
Period size: 92 Copynumber: 2.9 Consensus size: 95
421133 AATAGTGTTA
* * * *
421143 ATTCATGGCCAGCGAC-GTTGATCTTAAAGATGACGGTGCCAATATGCTGATTCAAAGCCAACGA
1 ATTCAAGGCCAGCGACATTTGA-CTTAAAGATGACGGTGCCAATATGCTGATTCAAGGCCAGCGA
**
421207 TACCGGACTTAAAGATGAAGATGCCAATGTGCTG
65 TATTGGACTT-AA-ATG-AGATGCCAATGTGCTG
* * * *
421241 ATTCAAGGCCAGCGACATTGGTCTTAAAGATGACGGTGCCAATATACTGATTCAAGGCCAGCAAT
1 ATTCAAGGCCAGCGACATTTGACTTAAAGATGACGGTGCCAATATGCTGATTCAAGGCCAGCGAT
421306 ATTGGACTTAAA-G-G-TGCCAATGTGCTG
66 ATTGGACTTAAATGAGATGCCAATGTGCTG
*
421333 ATTCAAGGCCAGCGACATTTGACTTAAAGATGACGGTGCCAATATGCTGATTTAAGGCCAGCGAT
1 ATTCAAGGCCAGCGACATTTGACTTAAAGATGACGGTGCCAATATGCTGATTCAAGGCCAGCGAT
*
421398 ATTGGACTTAAAAGAAGATGCCA
66 ATTGGACTTAAATG-AGATGCCA
421421 CCAACTTATG
Statistics
Matches: 160, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
92 85 0.53
93 2 0.01
95 2 0.01
96 6 0.04
97 2 0.01
98 61 0.38
99 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.24
Consensus pattern (95 bp):
ATTCAAGGCCAGCGACATTTGACTTAAAGATGACGGTGCCAATATGCTGATTCAAGGCCAGCGAT
ATTGGACTTAAATGAGATGCCAATGTGCTG
Found at i:421494 original size:28 final size:28
Alignment explanation
Indices: 421429--421866 Score: 558
Period size: 28 Copynumber: 15.4 Consensus size: 28
421419 CACCAACTTA
**
421429 TGTGGGCTTTTGATAGGGTTG-CACCAACT
1 TGTGGGCTTTTGA-A-GGTTGCCACTGACT
*
421458 TGTGTGCTTTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
* * * *
421486 TGTGGGCTTTTGAAAAGATACCACTAACT
1 TGTGGGCTTTTG-AAGGTTGCCACTGACT
*
421515 TGTGGGCTTTTGAAGGTTGCTACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
*
421543 TGTAGGC-TTTGAAAGGTTGCCACTGACT
1 TGTGGGCTTTTG-AAGGTTGCCACTGACT
* * *
421571 TGTGGGCTTTGGAAAAGGGTGCCACTAACT
1 TGTGGGCTTTTG--AAGGTTGCCACTGACT
421601 TGTGGGCTTTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
* * *
421629 TGTAGCCTTTGGAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
* *
421657 TGTAGGCTTTAGAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
* *
421685 TGTGGGCTTTGGAAAAGGGTGCCACTGACT
1 TGTGGGCTTTTG--AAGGTTGCCACTGACT
421715 TGTGGGCTTTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
421743 TGTGGGCTTTTGAAGGTTGCCACT-AGCT
1 TGTGGGCTTTTGAAGGTTGCCACTGA-CT
* * *
421771 TATGGGCTTTGGAAAAGGGTGCCACTGACT
1 TGTGGGCTTTTG--AAGGTTGCCACTGACT
421801 TGTGGGCTTTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
421829 TGTGGGCTTTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
421857 TGTGGGCTTT
1 TGTGGGCTTT
421867 GGAAAAGGTG
Statistics
Matches: 360, Mismatches: 38, Indels: 23
0.86 0.09 0.05
Matches are distributed among these distances:
27 10 0.03
28 235 0.65
29 39 0.11
30 75 0.21
31 1 0.00
ACGTcount: A:0.18, C:0.17, G:0.31, T:0.34
Consensus pattern (28 bp):
TGTGGGCTTTTGAAGGTTGCCACTGACT
Found at i:421646 original size:114 final size:114
Alignment explanation
Indices: 421470--421870 Score: 585
Period size: 114 Copynumber: 3.5 Consensus size: 114
421460 TGTGCTTTTG
* * * * * *
421470 AAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGATACCACTAACTTGTGGGCTTTTGAAGGTTGC
1 AAGGGTGCCACTGACTTGTGGGCTTTTG-AAGGTTGCCACTGACTTGTGGGCTTTGGAAGGTTGC
*
421535 TACTGACTTGTAGGCTTTGAAAGGTTGCCACTGACTTGTGGGCTTTGGAA
65 CACTGACTTGTAGGCTTTGAAAGGTTGCCACTGACTTGTGGGCTTTGGAA
* * *
421585 AAGGGTGCCACTAACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTAGCCTTTGGAAGGTTGCC
1 AAGGGTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGGAAGGTTGCC
421650 ACTGACTTGTAGGCTTT-AGAAGGTTGCCACTGACTTGTGGGCTTTGGAA
66 ACTGACTTGTAGGCTTTGA-AAGGTTGCCACTGACTTGTGGGCTTTGGAA
*
421699 AAGGGTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTTGAAGGTTGCC
1 AAGGGTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGGAAGGTTGCC
* * * *
421764 ACT-AGCTTATGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTTG--
66 ACTGA-CTTGTAGGCTTT-G-AAAGGTTGCCACTGACTTGTGGGCTTTGGAA
*
421813 AAGGTTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGGAA
1 AAGGGTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGGAA
421871 AAGGTGAGGA
Statistics
Matches: 261, Mismatches: 20, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
113 2 0.01
114 206 0.79
115 26 0.10
116 26 0.10
117 1 0.00
ACGTcount: A:0.19, C:0.17, G:0.31, T:0.32
Consensus pattern (114 bp):
AAGGGTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGGAAGGTTGCC
ACTGACTTGTAGGCTTTGAAAGGTTGCCACTGACTTGTGGGCTTTGGAA
Found at i:421867 original size:86 final size:86
Alignment explanation
Indices: 421455--421874 Score: 580
Period size: 86 Copynumber: 4.9 Consensus size: 86
421445 GGTTGCACCA
* * * *
421455 ACTTGTGTGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGATACCACTAACTTGTGG
1 ACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTTG-AAGGTTGCCACTAACTTGTGG
* * *
421520 GCTTTTG--AAGGTTGCTACTG
65 GCTTTGGAAAAGGGTGCCACTG
* * *
421540 ACTTGTAGGC-TTTGAAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTAACTTGT
1 ACTTGTGGGCTTTTG-AAGGTTGCCACTGACTTGTGGGCTTTTG--AAGGTTGCCACTAACTTGT
* *
421604 GGGCTTTTG--AAGGTTGCCACTG
63 GGGCTTTGGAAAAGGGTGCCACTG
* * * * * *
421626 ACTTGTAGCCTTTGGAAGGTTGCCACTGACTTGTAGGCTTTAGAAGGTTGCCACTGACTTGTGGG
1 ACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTAACTTGTGGG
421691 CTTTGGAAAAGGGTGCCACTG
66 CTTTGGAAAAGGGTGCCACTG
* *
421712 ACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTAGCTTATGGG
1 ACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTAACTTGTGGG
421777 CTTTGGAAAAGGGTGCCACTG
66 CTTTGGAAAAGGGTGCCACTG
*
421798 ACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGG
1 ACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTAACTTGTGGG
421863 CTTTGGAAAAGG
66 CTTTGGAAAAGG
421875 TGAGGAATGT
Statistics
Matches: 304, Mismatches: 26, Indels: 9
0.90 0.08 0.03
Matches are distributed among these distances:
84 29 0.10
85 35 0.12
86 237 0.78
87 3 0.01
ACGTcount: A:0.19, C:0.17, G:0.31, T:0.33
Consensus pattern (86 bp):
ACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTAACTTGTGGG
CTTTGGAAAAGGGTGCCACTG
Found at i:423349 original size:15 final size:16
Alignment explanation
Indices: 423331--423370 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
423321 GTTGTTTCTG
*
423331 TTTTTTTTTCTTT-GT
1 TTTTTTTTTATTTGGT
*
423346 TTTTTGTTTATTTGGT
1 TTTTTTTTTATTTGGT
423362 TTTTTTTTT
1 TTTTTTTTT
423371 GTGGAGGACG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.03, C:0.03, G:0.10, T:0.85
Consensus pattern (16 bp):
TTTTTTTTTATTTGGT
Found at i:437345 original size:13 final size:13
Alignment explanation
Indices: 437327--437351 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
437317 ACAAAACTTA
437327 TGTATCGATACAT
1 TGTATCGATACAT
437340 TGTATCGATACA
1 TGTATCGATACA
437352 AATCGTTGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:442268 original size:79 final size:76
Alignment explanation
Indices: 442117--442414 Score: 250
Period size: 79 Copynumber: 3.8 Consensus size: 76
442107 TTATTTCTGA
* * *
442117 GGGATACTCTAATCCCAG-TTTTATTTTCAAAACACCAA-TTTTCACAATC-AGGATACTCCAAA
1 GGGATACTC-AA-CCCTGATTTTA-TTTCAAAACA-TAATTTTTCACAATCGAGGATACTCCAAC
442179 CCTATTATTTTCAAG
62 CCTATTATTTTCAAG
* * * *
442194 GGGATGCTCTAACCCTGATTTTCTTTCTAAAACATTGATTTTTCACAATCGGGGATACTCCAACC
1 GGGATACTC-AACCCTGATTTTATTTC-AAAACA-TAATTTTTCACAATCGAGGATACTCCAACC
*
442259 CTATTATTTTCGAG
63 CTATTATTTTCAAG
* * * *
442273 GGGATACTCCAACCCT-AGTTTTATTTCCAAAATACTAATTTTCCACGATTGAGGATACTCCAAC
1 GGGATACT-CAACCCTGA-TTTTATTT-CAAAACA-TAATTTTTCACAATCGAGGATACTCCAAC
**
442337 CCCGTTA-TTTCTAAG
62 CCTATTATTTTC-AAG
* * * *
442352 GGGATACTCCACCC-GTATTTTATTTCAAAACACCAA-TTTTCTATAATCGGGGATACTCCAACC
1 GGGATACTCAACCCTG-ATTTTATTTCAAAACA-TAATTTTTC-ACAATCGAGGATACTCCAACC
442415 TTGATTTTAT
Statistics
Matches: 181, Mismatches: 29, Indels: 22
0.78 0.12 0.09
Matches are distributed among these distances:
76 12 0.07
77 48 0.27
78 29 0.16
79 90 0.50
80 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (76 bp):
GGGATACTCAACCCTGATTTTATTTCAAAACATAATTTTTCACAATCGAGGATACTCCAACCCTA
TTATTTTCAAG
Found at i:442382 original size:156 final size:156
Alignment explanation
Indices: 442057--442414 Score: 374
Period size: 156 Copynumber: 2.3 Consensus size: 156
442047 TCATTCATGT
* * * * * * *
442057 TTTTATTTCCAAAACACCAATTTTCCACAAGCTGGGATGCTCCAATGCC-GTTA-TTTCTGA-GG
1 TTTTATTTCTAAAACACCAATTTTCTACAATCGGGGATACTCCAA-CCCTATTATTTTC-GAGGG
* * *
442119 GATACTCTAATCCCAGTTTTATTTTCAAAACACCAATTTTCACAATCAGGATACTCCAAACCTAT
64 GATACTCCAATCCCAGTTTTATTTCCAAAACACCAATTTTCACAATCAGGATACTCCAAACCCAT
*
442184 TATTTTCAAGGGGATGCTCTAACCCTGA
129 TATTTTCAAGGGGATACTCTAACCCTGA
* ***
442212 TTTTCTTTCTAAAACATTGATTTT-TCACAATCGGGGATACTCCAACCCTATTATTTTCGAGGGG
1 TTTTATTTCTAAAACACCAATTTTCT-ACAATCGGGGATACTCCAACCCTATTATTTTCGAGGGG
* * * * *
442276 ATACTCCAA-CCCTAGTTTTATTTCCAAAATACTAATTTTCCACGATTGAGGATACTCCAACCCC
65 ATACTCCAATCCC-AGTTTTATTTCCAAAACACCAATTTT-CAC-AATCAGGATACTCCAAACCC
* *
442340 GTTA-TTTCTAAGGGGATACTC-CACCC-GTA
127 ATTATTTTC-AAGGGGATACTCTAACCCTG-A
*
442369 TTTTATTTC-AAAACACCAATTTTCTATAATCGGGGATACTCCAACC
1 TTTTATTTCTAAAACACCAATTTTCTACAATCGGGGATACTCCAACC
442415 TTGATTTTAT
Statistics
Matches: 166, Mismatches: 27, Indels: 19
0.78 0.13 0.09
Matches are distributed among these distances:
154 2 0.01
155 43 0.26
156 70 0.42
157 21 0.13
158 30 0.18
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.34
Consensus pattern (156 bp):
TTTTATTTCTAAAACACCAATTTTCTACAATCGGGGATACTCCAACCCTATTATTTTCGAGGGGA
TACTCCAATCCCAGTTTTATTTCCAAAACACCAATTTTCACAATCAGGATACTCCAAACCCATTA
TTTTCAAGGGGATACTCTAACCCTGA
Found at i:442408 original size:49 final size:51
Alignment explanation
Indices: 442351--442465 Score: 155
Period size: 51 Copynumber: 2.3 Consensus size: 51
442341 TTATTTCTAA
*
442351 GGGGATACTCCACCCGT-ATTTTA-TTTCAAAACACCAA-TTTTCTATAATC
1 GGGGATACTCCAACCGTGATTTTATTTTCAAAACACCAATTTTTC-ATAATC
* **
442400 GGGGATACTCCAACCTTGATTTTATTTTCAAAACACTGATTTTTCATAATC
1 GGGGATACTCCAACCGTGATTTTATTTTCAAAACACCAATTTTTCATAATC
*
442451 GGGGATACTCTAACC
1 GGGGATACTCCAACC
442466 CCGTTATTTT
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
49 15 0.26
50 6 0.10
51 32 0.55
52 5 0.09
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.35
Consensus pattern (51 bp):
GGGGATACTCCAACCGTGATTTTATTTTCAAAACACCAATTTTTCATAATC
Found at i:442423 original size:128 final size:127
Alignment explanation
Indices: 442272--442672 Score: 486
Period size: 128 Copynumber: 3.1 Consensus size: 127
442262 TTATTTTCGA
* *
442272 GGGGATACTCCAACCCTAGTTTTATTTCCAAAATACTAATTTTCCACGATTGAGGATACTCCAAC
1 GGGGATACTCCAACCCTAGTTTTATTTCCAAAACACTAATTTTCCACAATTGAGGATACTCCAAC
442337 CCCGTTATTTCTAAGGGGATACTCCACCCGTATTTTATTTCAAAACACCAATTTTCTATAATC
66 CCCGTTATTTCTAAGGGGATACTCCACCCG-ATTTTATTTCAAAACACCAATTTTCTATAATC
* * * * * * * *
442400 GGGGATACTCCAA-CCTTGATTTTATTTTCAAAACACTGATTTTTCATAATCGGGGATACTCTAA
1 GGGGATACTCCAACCCTAG-TTTTATTTCCAAAACACTAATTTTCCACAATTGAGGATACTCCAA
* * * * * *
442464 CCCCGTTATTTTCGAA-AGGATACTCCAACCCCAGTTTAATTTCGAAAACATCGATTTT-TCATA
65 CCCCGTTA-TTTCTAAGGGGATACTCC-ACCCGA-TTTTATTTC-AAAACACCAATTTTCT-ATA
442527 ATC
125 ATC
*
442530 GGGGATACTCCAACCCTAGTTTTATTTCCAAAACACCAATTTTCCACAATT-AGGGATACTCCAA
1 GGGGATACTCCAACCCTAGTTTTATTTCCAAAACACTAATTTTCCACAATTGA-GGATACTCCAA
* * * * *
442594 CCTCGTTATTTCTGAGGGAATACTCAACCCCGGTTTTATTTCAAAACACCAATTTTCTATAATC
65 CCCCGTTATTTCTAAGGGGATACTCCA-CCCGATTTTATTTCAAAACACCAATTTTCTATAATC
*
442658 GGGGATGCTCCAACC
1 GGGGATACTCCAACC
442673 TCGTTATTTT
Statistics
Matches: 225, Mismatches: 37, Indels: 22
0.79 0.13 0.08
Matches are distributed among these distances:
127 4 0.02
128 99 0.44
129 34 0.15
130 84 0.37
131 4 0.02
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.33
Consensus pattern (127 bp):
GGGGATACTCCAACCCTAGTTTTATTTCCAAAACACTAATTTTCCACAATTGAGGATACTCCAAC
CCCGTTATTTCTAAGGGGATACTCCACCCGATTTTATTTCAAAACACCAATTTTCTATAATC
Found at i:442493 original size:28 final size:30
Alignment explanation
Indices: 442453--442510 Score: 84
Period size: 28 Copynumber: 2.0 Consensus size: 30
442443 TCATAATCGG
* *
442453 GGATACTCTAACCCC-G-TTATTTTCGAAA
1 GGATACTCCAACCCCAGTTTAATTTCGAAA
442481 GGATACTCCAACCCCAGTTTAATTTCGAAA
1 GGATACTCCAACCCCAGTTTAATTTCGAAA
442511 ACATCGATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 14 0.54
29 1 0.04
30 11 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (30 bp):
GGATACTCCAACCCCAGTTTAATTTCGAAA
Found at i:442542 original size:51 final size:51
Alignment explanation
Indices: 442481--442595 Score: 149
Period size: 51 Copynumber: 2.3 Consensus size: 51
442471 ATTTTCGAAA
* * * * * *
442481 GGATACTCCAACCCCAGTTTAATTTCGAAAACATCGATTTTTCATAATCGG
1 GGATACTCCAACCCCAGTTTAATTTCCAAAACACCAATTTTCCACAATCAG
* * *
442532 GGATACTCCAACCCTAGTTTTATTTCCAAAACACCAATTTTCCACAATTAG
1 GGATACTCCAACCCCAGTTTAATTTCCAAAACACCAATTTTCCACAATCAG
442583 GGATACTCCAACC
1 GGATACTCCAACC
442596 TCGTTATTTC
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.32, C:0.27, G:0.11, T:0.30
Consensus pattern (51 bp):
GGATACTCCAACCCCAGTTTAATTTCCAAAACACCAATTTTCCACAATCAG
Found at i:442617 original size:79 final size:77
Alignment explanation
Indices: 442531--442955 Score: 407
Period size: 79 Copynumber: 5.4 Consensus size: 77
442521 TTCATAATCG
* *
442531 GGGATACTCCAACCCTAG-TTTTATTTCCAAAACACCAATTTTCCACAATTAGGGATACTCCAAC
1 GGGATACTCCAACCCTCGATTTTATTTCCAAAACACCAATTTTCCACAATCAGGGATACTCCAAC
442595 CTCGTTATTTCTGA
66 C-CGTTATTT-TGA
* * * * *
442609 GGGAATACT-CAACCC-CGGTTTTATTT-CAAAACACCAATTTTCTATAATCGGGGATGCTCCAA
1 GGG-ATACTCCAACCCTCGATTTTATTTCCAAAACACCAATTTTCCACAATCAGGGATACTCCAA
442671 CCTCGTTATTTTCGAA
65 CC-CGTTATTTT-G-A
* * * * * *
442687 GGGATACTTCAACCC-CGATTTTATTTTCAAAACATCAATTTTTCACAATCGGGGATACTCTAAC
1 GGGATACTCCAACCCTCGATTTTATTTCCAAAACACCAATTTTCCACAATCAGGGATACTCCAA-
*
442751 CCCGTTATTTTTTAA
65 CCCGTTA--TTTTGA
* * * ** **
442766 GGGATACTCCAACCTTAG-TTTTATTTCTAAAACACTGATTTTTAACAATCAGGGATACTCCAAC
1 GGGATACTCCAACCCTCGATTTTATTTCCAAAACACCAATTTTCCACAATCAGGGATACTCCAAC
442830 CCTGTTATTTTCGA
66 CC-GTTATTTT-GA
* * * * *
442844 GAGGATACTCCAACCC-CGATTTTATTTTCAAAACATCGATTTTCCACGATCAAGGATACTCCAA
1 G-GGATACTCCAACCCTCGATTTTATTTCCAAAACACCAATTTTCCACAATCAGGGATACTCCAA
*
442908 CCCTGTTATCTTGGAA
65 CCC-GTTAT-TTTG-A
*
442924 GGGATACTCC-ACCCTCGATTTTATCTCCAAAA
1 GGGATACTCCAACCCTCGATTTTATTTCCAAAA
442956 TATTGAACTT
Statistics
Matches: 291, Mismatches: 39, Indels: 33
0.80 0.11 0.09
Matches are distributed among these distances:
76 1 0.00
77 53 0.18
78 47 0.16
79 179 0.62
80 7 0.02
81 4 0.01
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (77 bp):
GGGATACTCCAACCCTCGATTTTATTTCCAAAACACCAATTTTCCACAATCAGGGATACTCCAAC
CCGTTATTTTGA
Found at i:442861 original size:158 final size:157
Alignment explanation
Indices: 442531--442934 Score: 478
Period size: 158 Copynumber: 2.6 Consensus size: 157
442521 TTCATAATCG
* * * *
442531 GGGATACTCCAA-CCCTAGTTTTATTTCCAAAACACCAATTTTCCACAATTAGGGATACTCCAAC
1 GGGATACTCCAACCCCGA-TTTTATTTTCAAAACATCAATTTTCCACAATCAGGGATACTCCAAC
* * * *
442595 CTCGTTA-TTTCTGAGGGAATACT-CAACCCCGGTTTTATTTCAAAACACCAATTTTCTATAATC
65 CCCGTTATTTTCTAAGGG-ATACTCCAACCCCAGTTTTATTTCAAAACACCAATTTTCTACAATC
* *
442658 GGGGATGCTCCAACCTCGTTATTTTCGAA
129 AGGGATACTCCAACCTCGTTATTTTCGAA
* * * *
442687 GGGATACTTCAACCCCGATTTTATTTTCAAAACATCAATTTTTCACAATCGGGGATACTCTAACC
1 GGGATACTCCAACCCCGATTTTATTTTCAAAACATCAATTTTCCACAATCAGGGATACTCCAACC
* ** **
442752 CCGTTATTTTTTAAGGGATACTCCAACCTTAGTTTTATTTCTAAAACACTGATTTT-TAACAATC
66 CCGTTATTTTCTAAGGGATACTCCAACCCCAGTTTTATTTC-AAAACACCAATTTTCT-ACAATC
442816 AGGGATACTCCAACC-CTGTTATTTTCG-A
129 AGGGATACTCCAACCTC-GTTATTTTCGAA
* * *
442844 GAGGATACTCCAACCCCGATTTTATTTTCAAAACATCGATTTTCCACGATCAAGGATACTCCAAC
1 G-GGATACTCCAACCCCGATTTTATTTTCAAAACATCAATTTTCCACAATCAGGGATACTCCAAC
* * **
442909 CCTGTTATCTTGGAAGGGATACTCCA
65 CCCGTTATTTTCTAAGGGATACTCCA
442935 CCCTCGATTT
Statistics
Matches: 211, Mismatches: 30, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
156 62 0.29
157 31 0.15
158 118 0.56
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (157 bp):
GGGATACTCCAACCCCGATTTTATTTTCAAAACATCAATTTTCCACAATCAGGGATACTCCAACC
CCGTTATTTTCTAAGGGATACTCCAACCCCAGTTTTATTTCAAAACACCAATTTTCTACAATCAG
GGATACTCCAACCTCGTTATTTTCGAA
Found at i:449434 original size:119 final size:121
Alignment explanation
Indices: 449086--450558 Score: 1551
Period size: 119 Copynumber: 12.1 Consensus size: 121
449076 GCCCATCTAA
* ** * **
449086 TCCTCAAAGAGCAAGATGCCTTTTTCTTTT-AAAGCCTGCACAAGTTGGTAACACCCTTTAGTCC
1 TCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCC
449150 TCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTT-G
66 TCAAAGAGCAGGATGCCTTTTTC--TT-AAAGCCCACACGAGTTGGTGGCA-CCTTTTAG
* *
449209 TCCTCAAAGAGTAGGAT-CCATTTTTCTTTTCAAAGCCCACATGAGTTGGTGGCACCCTTT-GTC
1 TCCTCAAAGAGCAGGATGCC-TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTC
* * * *
449272 CTTAAAGAGCAAGATGCCATTTTC-T-AAGCCCACACGAGTTGGTGGTACCTTTTAG
65 CTCAAAGAGCAGGATGCCTTTTTCTTAAAGCCCACACGAGTTGGTGGCACCTTTTAG
* * *
449327 TCCTCAAAGAGCAAGATGCCTTTTTCTTTTCAAAGCCCACACGAGTCGGTGGCACCCTTTTGTCC
1 TCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCC
* *
449392 TCAAAGAGCAGGATGCCTTTTTC-T-AAGTCCACACGAGTTGGTGGCACCCTTTAG
66 TCAAAGAGCAGGATGCCTTTTTCTTAAAGCCCACACGAGTTGGTGGCACCTTTTAG
* **
449446 TCCTCAAAGAGCATGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTTTA-TC
1 TCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCAC-CCTTTAGTC
* * *
449510 CTCAAAGAGCAAGA--CTCTTTTGTCCTTTCAAAACCCACACGAGTTGGTGGCACCCTTTAG
65 CTCAAAGAGCAGGATGC-CTTTT-T-C-TT-AAAGCCCACACGAGTTGGTGGCACCTTTTAG
* * *
449570 TCCTCAAAGAGTAGGACGCCTTTTT-TTTCCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCC
1 TCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCC
* * * * * * *
449634 TTAAATAGCATGACGCCTTTTTTTCTTTTCAAAACCCACACGAGTTGGTGACACCCTTTAG
66 TCAAAGAGCAGGATGCC--TTTTTC--TT-AAAGCCCACACGAGTTGGTGGCACCTTTTAG
** * * * * *
449695 TCCTTGAAGGGTAGGATGCC-TTTTCCTTTCTAAAGCCCACACGAGTTGGTGGAACCCTTTTGTC
1 TCCTCAAAGAGCAGGATGCCTTTTTCTTTTC-AAAGCCCACACGAGTTGGTGGCACCCTTTAGTC
* * * *
449759 CTCAAAGAACATGATGCCTTTTTCATTTCAAAGCCCACACAAGTTGGTGGCACCTTTTTG
65 CTCAAAGAGCAGGATGCCTTTTTC--TT-AAAGCCCACACGAGTTGGTGGCACCTTTTAG
* * * * *
449819 TCCTCAAAGAGCAGGATGCCTTTTCCTTTTCAAAGCTCACATGAGTTGGTGGCGCCCTTTTGTCC
1 TCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCC
* * * * *
449884 TCAAAAAGTAGGATGCCTTTTT-TTCAAAACCCACACGAGTTGGTGCCACCCTTT-G
66 TCAAAGAGCAGGATGCCTTTTTCTT-AAAGCCCACACGAGTTGGTGGCACCTTTTAG
* * *
449939 TCCTCAAAGAGCAGGATGCCTTTTTC---T--AAGCCCACACAAGTTGGTGGCAACCTTTAGTCT
1 TCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCC
* * *
449999 TCAAAGAGCAGGATGCCTTTTTGTTTTCAAAGCCCACACGAGTTGGTGGCATCTTTTTG
66 TCAAAGAGCAGGATGCC-TTTT-TCTT-AAAGCCCACACGAGTTGGTGGCACCTTTTAG
* *
450058 TCCTCAAAGAGTAGGATG--TCTTT-TTTT--AAGCCCACACGAGTTGGTGGCACCCTTTAGTCC
1 TCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCC
* ** * *
450118 TCAAAGAGTAGGACACCTTTTTCTTTTCAAAGCCCACA-TAGTTAGTGGCACCCTTTT-G
66 TCAAAGAGCAGGATGCCTTTTTC--TT-AAAGCCCACACGAGTTGGTGGCA-CCTTTTAG
*
450176 TCCTCAAAGAGCAGGA--CTCTTTTGTCTTTTCAAAGCCCACACAAGTTGGTGGCACCCTTTAGT
1 TCCTCAAAGAGCAGGATGC-CTTTT-TCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGT
* * * * *
450239 CCTCAAAAAGCAGGACGCCTTTTTTTCCTAAAGCTCACATGAGTTGGTGGCACC----A-
64 CCTCAAAGAGCAGGATGCC--TTTTTCTTAAAGCCCACACGAGTTGGTGGCACCTTTTAG
* * * *
450294 T-TTCAAAGAACAGGATGCCTTTTTCCTTTTTCAAAGCCCACATGAGTTGGTGGCACCTTTTAGT
1 TCCTCAAAGAGCAGGATGCCTTTTT-C-TTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGT
**
450358 CCTCAAAGAGCAGGACACCTTTTTCCTTTTCAAAGCCCACACGAGTTGGTGGCACC-TTTAG
64 CCTCAAAGAGCAGGATGCCTTTTT-C--TT-AAAGCCCACACGAGTTGGTGGCACCTTTTAG
* * *
450419 TCCTCAAAGAGCAAGATGCATTTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCACCCTTTAGTC
1 TCCTCAAAGAGCAGGATGCCTTTTT-CTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTC
* * *
450484 CTCAAAGAGCAGGGTGCCTTTTTTTTTCAAAGCCCACAAGAGTTGGTGGCACCTTTTAG
65 CTCAAAGAGCAGGATGCC-TTTTTCTT-AAAGCCCACACGAGTTGGTGGCACCTTTTAG
*
450543 TCCTTAAAGAGCAGGA
1 TCCTCAAAGAGCAGGA
450559 CACATTTCAT
Statistics
Matches: 1156, Mismatches: 136, Indels: 115
0.82 0.10 0.08
Matches are distributed among these distances:
115 41 0.04
116 4 0.00
117 32 0.03
118 146 0.13
119 259 0.22
120 33 0.03
121 55 0.05
122 18 0.02
123 174 0.15
124 199 0.17
125 120 0.10
126 75 0.06
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.31
Consensus pattern (121 bp):
TCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCC
TCAAAGAGCAGGATGCCTTTTTCTTAAAGCCCACACGAGTTGGTGGCACCTTTTAG
Found at i:449624 original size:61 final size:62
Alignment explanation
Indices: 449086--450558 Score: 1704
Period size: 62 Copynumber: 24.3 Consensus size: 62
449076 GCCCATCTAA
* ** * **
449086 TCCTCAAAGAGCAAGATGCCTTTTTCTTTT-AAAGCCTGCACAAGTTGGTAACACCCTTTAG
1 TCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAG
*
449147 TCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTTG
1 TCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAG
* *
449209 TCCTCAAAGAGTAGGAT-CCATTTTTCTTTTCAAAGCCCACATGAGTTGGTGGCACCCTTT-G
1 TCCTCAAAGAGCAGGATGCC-TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAG
* * * * *
449270 TCCTTAAAGAGCAAGATGCCATTTTC---T--AAGCCCACACGAGTTGGTGGTACCTTTTAG
1 TCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAG
* * *
449327 TCCTCAAAGAGCAAGATGCCTTTTTCTTTTCAAAGCCCACACGAGTCGGTGGCACCCTTTTG
1 TCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAG
*
449389 TCCTCAAAGAGCAGGATGCCTTTTTC---T--AAGTCCACACGAGTTGGTGGCACCCTTTAG
1 TCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAG
* **
449446 TCCTCAAAGAGCATGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTTTA-
1 TCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCAC-CCTTTAG
* * *
449508 TCCTCAAAGAGCAAGA--CTCTTTTGTCCTTTCAAAACCCACACGAGTTGGTGGCACCCTTTAG
1 TCCTCAAAGAGCAGGATGC-CTTTT-TCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAG
* * *
449570 TCCTCAAAGAGTAGGACGCCTTTTT-TTTCCAAAGCCCACACGAGTTGGTGGCACCCTTTAG
1 TCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAG
* * * * * *
449631 TCCTTAAATAGCATGACGCCTTTTTTTCTTTTCAAAACCCACACGAGTTGGTGACACCCTTTAG
1 TCCTCAAAGAGCAGGATGCC--TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAG
** * * * * *
449695 TCCTTGAAGGGTAGGATGCC-TTTTCCTTTCTAAAGCCCACACGAGTTGGTGGAACCCTTTTG
1 TCCTCAAAGAGCAGGATGCCTTTTTCTTTTC-AAAGCCCACACGAGTTGGTGGCACCCTTTAG
* * * * * *
449757 TCCTCAAAGAACATGATGCCTTTTTCATTTCAAAGCCCACACAAGTTGGTGGCACCTTTTTG
1 TCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAG
* * * * *
449819 TCCTCAAAGAGCAGGATGCCTTTTCCTTTTCAAAGCTCACATGAGTTGGTGGCGCCCTTTTG
1 TCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAG
* * * *
449881 TCCTCAAAAAGTAGGATGCC--TTT-TTTTCAAAACCCACACGAGTTGGTGCCACCCTTT-G
1 TCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAG
* *
449939 TCCTCAAAGAGCAGGATGCCTTTTTC---T--AAGCCCACACAAGTTGGTGGCAACCTTTAG
1 TCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAG
* * * * *
449996 TCTTCAAAGAGCAGGATGCCTTTTTGTTTTCAAAGCCCACACGAGTTGGTGGCATCTTTTTG
1 TCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAG
* *
450058 TCCTCAAAGAGTAGGATG--TCTTT-TTTT--AAGCCCACACGAGTTGGTGGCACCCTTTAG
1 TCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAG
* ** * * *
450115 TCCTCAAAGAGTAGGACACCTTTTTCTTTTCAAAGCCCACA-TAGTTAGTGGCACCCTTTTG
1 TCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAG
*
450176 TCCTCAAAGAGCAGGA--CTCTTTTGTCTTTTCAAAGCCCACACAAGTTGGTGGCACCCTTTAG
1 TCCTCAAAGAGCAGGATGC-CTTTT-TCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAG
* * * * *
450238 TCCTCAAAAAGCAGGACGCC-TTTT-TTTCCTAAAGCTCACATGAGTTGGTGGCA-CC---A-
1 TCCTCAAAGAGCAGGATGCCTTTTTCTTTTC-AAAGCCCACACGAGTTGGTGGCACCCTTTAG
* * * *
450294 T-TTCAAAGAACAGGATGCCTTTTTCCTTTTTCAAAGCCCACATGAGTTGGTGGCACCTTTTAG
1 TCCTCAAAGAGCAGGATGCCTTTTT-C-TTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAG
**
450357 TCCTCAAAGAGCAGGACACCTTTTTCCTTTTCAAAGCCCACACGAGTTGGTGGCA-CCTTTAG
1 TCCTCAAAGAGCAGGATGCCTTTTT-CTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAG
* * *
450419 TCCTCAAAGAGCAAGATGCATTTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCACCCTTTAG
1 TCCTCAAAGAGCAGGATGCCTTTTT-CTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAG
* * *
450482 TCCTCAAAGAGCAGGGTGCCTTTTT-TTTTCAAAGCCCACAAGAGTTGGTGGCACCTTTTAG
1 TCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAG
*
450543 TCCTTAAAGAGCAGGA
1 TCCTCAAAGAGCAGGA
450559 CACATTTCAT
Statistics
Matches: 1212, Mismatches: 144, Indels: 112
0.83 0.10 0.08
Matches are distributed among these distances:
55 14 0.01
56 54 0.04
57 146 0.12
58 43 0.04
59 44 0.04
60 28 0.02
61 235 0.19
62 497 0.41
63 81 0.07
64 70 0.06
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.31
Consensus pattern (62 bp):
TCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAG
Found at i:450719 original size:84 final size:84
Alignment explanation
Indices: 450542--450939 Score: 353
Period size: 84 Copynumber: 4.7 Consensus size: 84
450532 GCACCTTTTA
*
450542 GTCCTTAAAGAGCAGGACACA-TTTCATTTCCTTCTTTTCCTTTGTCCTCAAAGAGCAGGATACA
1 GTCCTTAAAGAGCAGGACACACTTT-ATTTCCTTCTCTTCCTTTGTCCTCAAAGAGCAGGATACA
* *
450606 CTTCATTTCCTTTT-TTCTTT
65 CTTTATTT-CTTTTCTCCTTT
* * * *
450626 CATCCTTAAAGAGCAGGACATACTCTT-TTTCCTTCTCTT-CTTTGTCCTCAAAAAGCAGGATGC
1 -GTCCTTAAAGAGCAGGACACACT-TTATTTCCTTCTCTTCCTTTGTCCTCAAAGAGCAGGATAC
450689 ACTTTATTTCTTTCTCTCCTTT
64 ACTTTATTTCTTT-TCTCCTTT
* * ** * * ** *
450711 GTCTTTAAAGAGCATGATGCACTTCATTTCCTTCTTTTCCCTTTTGTCCTCAAAGAGCAACATGC
1 GTCCTTAAAGAGCAGGACACACTTTATTTCCTTCTCTT-CC-TTTGTCCTCAAAGAGCAGGATAC
* *
450776 ATTTTATTT-TTTTTTCCCTTTT
64 ACTTTATTTCTTTTCT-CC-TTT
* * * * * *
450798 GTCCTCAAAGAGCAAGCCACACTTTATTTCCTT-T-TCCCTTTGTCCTCAAGGAGCAGGACACAC
1 GTCCTTAAAGAGCAGGACACACTTTATTTCCTTCTCTTCCTTTGTCCTCAAAGAGCAGGATACAC
*
450861 TTTATTTCCCTTTC-CCTTT
66 TTTATTT-CTTTTCTCCTTT
* * * * * * * *
450880 TTCCTCAAAGAGCAAGACACACTTAATTTTCTTCTTTTCCTTTGTCCTTAAAGAGTAGGA
1 GTCCTTAAAGAGCAGGACACACTTTATTTCCTTCTCTTCCTTTGTCCTCAAAGAGCAGGA
450940 CGTACTCTTT
Statistics
Matches: 255, Mismatches: 44, Indels: 29
0.78 0.13 0.09
Matches are distributed among these distances:
82 32 0.13
83 34 0.13
84 81 0.32
85 41 0.16
86 8 0.03
87 59 0.23
ACGTcount: A:0.22, C:0.26, G:0.12, T:0.41
Consensus pattern (84 bp):
GTCCTTAAAGAGCAGGACACACTTTATTTCCTTCTCTTCCTTTGTCCTCAAAGAGCAGGATACAC
TTTATTTCTTTTCTCCTTT
Found at i:450852 original size:41 final size:41
Alignment explanation
Indices: 450542--450934 Score: 281
Period size: 42 Copynumber: 9.3 Consensus size: 41
450532 GCACCTTTTA
* * *
450542 GTCCTTAAAGAGCAGGACACA-TTTCATTTCCTTCTTTTCCTTT
1 GTCCTCAAAGAGCAAGACACACTTT-ATTTCC-T-TTTCCCTTT
* * * **
450585 GTCCTCAAAGAGCAGGATACACTTCATTTCCTTTTTTCTTT
1 GTCCTCAAAGAGCAAGACACACTTTATTTCCTTTTCCCTTT
* * * * * *
450626 CATCCTTAAAGAGCAGGACATACTCTT-TTTCCTTCTCTTCTTT
1 -GTCCTCAAAGAGCAAGACACACT-TTATTTCCTTTTC-CCTTT
* * **
450669 GTCCTCAAAAAGCAGGATGCACTTTATTT-CTTTCTCTCCTTT
1 GTCCTCAAAGAGCAAGACACACTTTATTTCCTTT-TC-CCTTT
* * * ** *
450711 GTCTTTAAAGAGCATGATGCACTTCATTTCCTTCTTTTCCCTTTT
1 GTCCTCAAAGAGCAAGACACACTTTATTT-C--CTTTTCCC-TTT
* ** * **
450756 GTCCTCAAAGAGCAACATGCATTTTATTTTTTTTTCCCTTTT
1 GTCCTCAAAGAGCAAGACACACTTTATTTCCTTTTCCC-TTT
*
450798 GTCCTCAAAGAGCAAGCCACACTTTATTTCCTTTTCCCTTT
1 GTCCTCAAAGAGCAAGACACACTTTATTTCCTTTTCCCTTT
* * *
450839 GTCCTCAAGGAGCAGGACACACTTTATTTCCCTTTCCCTTT
1 GTCCTCAAAGAGCAAGACACACTTTATTTCCTTTTCCCTTT
* *
450880 TTCCTCAAAGAGCAAGACACACTTAATTTTCTTCTTTT-CCTTT
1 GTCCTCAAAGAGCAAGACACACTTTA-TTTC--CTTTTCCCTTT
*
450923 GTCCTTAAAGAG
1 GTCCTCAAAGAG
450935 TAGGACGTAC
Statistics
Matches: 286, Mismatches: 50, Indels: 28
0.79 0.14 0.08
Matches are distributed among these distances:
41 75 0.26
42 125 0.44
43 46 0.16
44 8 0.03
45 28 0.10
46 4 0.01
ACGTcount: A:0.22, C:0.26, G:0.11, T:0.41
Consensus pattern (41 bp):
GTCCTCAAAGAGCAAGACACACTTTATTTCCTTTTCCCTTT
Found at i:451654 original size:27 final size:27
Alignment explanation
Indices: 451594--451654 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
451584 CACTCCTTGT
*
451594 TCTTTTTAAGTCCACGACTCCGTGGCA
1 TCTTTTTAAGTCCACAACTCCGTGGCA
* *
451621 CCCTTTTAAGTCCACAACTCCGTGGCA
1 TCTTTTTAAGTCCACAACTCCGTGGCA
451648 TCTTTTT
1 TCTTTTT
451655 CCTTTTAAGC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.18, C:0.31, G:0.15, T:0.36
Consensus pattern (27 bp):
TCTTTTTAAGTCCACAACTCCGTGGCA
Found at i:451697 original size:29 final size:28
Alignment explanation
Indices: 451661--451755 Score: 100
Period size: 29 Copynumber: 3.3 Consensus size: 28
451651 TTTTCCTTTT
*
451661 AAGCCCACAAGTTAGTGGCACCCCTTTTA
1 AAGCCCACAAGTTAGTGGCA-CCCTTTAA
* * * *
451690 AAGCCCACAAGTCAGTGACAACCTTCAA
1 AAGCCCACAAGTTAGTGGCACCCTTTAA
* * *
451718 AAGCACACAAGTTGGTGGAACCCTTTCAA
1 AAGCCCACAAGTTAGTGGCACCCTTT-AA
451747 AAGCCCACA
1 AAGCCCACA
451756 CAAGTTGGTG
Statistics
Matches: 52, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
28 24 0.46
29 28 0.54
ACGTcount: A:0.35, C:0.31, G:0.17, T:0.18
Consensus pattern (28 bp):
AAGCCCACAAGTTAGTGGCACCCTTTAA
Found at i:451714 original size:28 final size:29
Alignment explanation
Indices: 451655--451729 Score: 82
Period size: 28 Copynumber: 2.7 Consensus size: 29
451645 GCATCTTTTT
* * *
451655 CCTTTT-AAGCCCACAAGTTAGTGGCACC
1 CCTTTTAAAGCCCACAAGTCAGTGACACA
451683 CCTTTTAAAGCCCACAAGTCAGTGACA-A
1 CCTTTTAAAGCCCACAAGTCAGTGACACA
** *
451711 CCTTCAAAAGCACACAAGT
1 CCTTTTAAAGCCCACAAGT
451730 TGGTGGAACC
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
28 22 0.55
29 18 0.45
ACGTcount: A:0.33, C:0.31, G:0.15, T:0.21
Consensus pattern (29 bp):
CCTTTTAAAGCCCACAAGTCAGTGACACA
Found at i:451847 original size:49 final size:49
Alignment explanation
Indices: 451764--452562 Score: 634
Period size: 49 Copynumber: 17.2 Consensus size: 49
451754 CACAAGTTGG
* * *
451764 TGGCATCTTC-T-TCTAAGTCCAATGTCGCTAGCCTTGAATCAGCACAT
1 TGGCATCTTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACAT
*
451811 TGGCATCTTCATCTTTAAGACAAATGTCGCTGGCCTTGAATCAGCACAT
1 TGGCATCTTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACAT
*
451860 TGACATCTTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACAT
1 TGGCATCTTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACAT
* * *
451909 TGGCATCTTCATCTTTAAGCCCAATATCGCTGACCTTGAATCAGCACAT
1 TGGCATCTTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACAT
* *
451958 TAGCATCTTCATCTTTAAGACCAATGTCACTGGCCTTGAATCAGCACAT
1 TGGCATCTTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACAT
* * *
452007 TGGCATCTTCATCTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATAT
1 TGGCATCTTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACAT
* * *
452056 TGGCACCTT-ATCTCTCAGACCAATGTCGCTGGCCTTGAATCAGCACAT
1 TGGCATCTTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACAT
* * * *
452104 TGG------CA----TAAGCCCAATATCGCT-ACCTTGAATCAGCATAT
1 TGGCATCTTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACAT
* * * * *
452142 TGGCACCTT-GTCTCTCAGACCAATGTCGCTGGCCTTGAATCAGCCCAT
1 TGGCATCTTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACAT
* * * *
452190 TGG------CA----TAAGCCCAATATCGCTGGCATTGAATCAGCATAT
1 TGGCATCTTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACAT
* * * * *
452229 TGGCACCTT-GTCTCTCAGACCAATGTAGCTGGCCTTGAATCAGCACAT
1 TGGCATCTTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACAT
* * * * *
452277 TGG------CA----TAAGCCCAATATCGCTAGCCTTGAATCAACATAT
1 TGGCATCTTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACAT
* * *
452316 TGGCACCTT-GTCTTTAAGACCAATGTCGCTAGCCTTGAATCAGCACAT
1 TGGCATCTTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACAT
* * * * *
452364 TGG------CA----TAAGCCCAATATCGCTGGCTTTGAATCAACATAT
1 TGGCATCTTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACAT
* * * * *
452403 TGACACCTTTATCTTTAAGACCAATATCGCTGGCCTTGAATCAGCATAT
1 TGGCATCTTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACAT
* * * **
452452 TGGCACCTTTGTCATCTTTAAAGCCCAATGTCGTTGGCCTTGTCTCAGCACAT
1 TGGCA--TCT-TCATCTTT-AAGACCAATGTCGCTGGCCTTGAATCAGCACAT
* * * * * *
452505 TGGCA--TTCTTCTTCAAGTCTAATGTCGCTGGCCATGAATCAGCATAT
1 TGGCATCTTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACAT
*
452552 TGTCATTCTTC
1 TGGCA-TCTTC
452563 GCATCTTCGA
Statistics
Matches: 601, Mismatches: 97, Indels: 105
0.75 0.12 0.13
Matches are distributed among these distances:
38 18 0.03
39 104 0.17
43 1 0.00
45 1 0.00
47 53 0.09
48 125 0.21
49 256 0.43
50 3 0.00
51 1 0.00
52 7 0.01
53 32 0.05
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (49 bp):
TGGCATCTTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACAT
Found at i:451951 original size:98 final size:92
Alignment explanation
Indices: 451772--452456 Score: 746
Period size: 87 Copynumber: 7.5 Consensus size: 92
451762 GGTGGCATCT
* * * * *
451772 TCTTCTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGACAAATG
1 TCTT-TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCAT-TTCA----TAAGCCCAATA
* * *
451837 TCGCTGGCCTTGAATCAGCACATTGACATCTTCA
60 TCGCTGGCCTTGAATCAGCATATTGGCACCTT-A
451871 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGCCCAATAT
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCAT-TTCA----TAAGCCCAATAT
* * * *
451936 CGCTGACCTTGAATCAGCACATTAGCATCTTCA
61 CGCTGGCCTTGAATCAGCATATTGGCACCTT-A
*
451969 TCTTTAAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGCCCAATAT
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCAT-TTCA----TAAGCCCAATAT
452034 CGCTGGCCTTGAATCAGCATATTGGCACCTTA
61 CGCTGGCCTTGAATCAGCATATTGGCACCTTA
* *
452066 TCTCTCAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG-----CATAAGCCCAATATCGCT-
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATTTCATAAGCCCAATATCGCTG
* *
452125 ACCTTGAATCAGCATATTGGCACCTTG
66 GCCTTGAATCAGCATATTGGCACCTTA
* * *
452152 TCTCTCAGACCAATGTCGCTGGCCTTGAATCAGCCCATTGG-----CATAAGCCCAATATCGCTG
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATTTCATAAGCCCAATATCGCTG
* *
452212 GCATTGAATCAGCATATTGGCACCTTG
66 GCCTTGAATCAGCATATTGGCACCTTA
* * * *
452239 TCTCTCAGACCAATGTAGCTGGCCTTGAATCAGCACATTGG-----CATAAGCCCAATATCGCTA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATTTCATAAGCCCAATATCGCTG
* *
452299 GCCTTGAATCAACATATTGGCACCTTG
66 GCCTTGAATCAGCATATTGGCACCTTA
*
452326 TCTTTAAGACCAATGTCGCTAGCCTTGAATCAGCACATTGG-----CATAAGCCCAATATCGCTG
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATTTCATAAGCCCAATATCGCTG
* * *
452386 GCTTTGAATCAACATATTGACACCTTTA
66 GCCTTGAATCAGCATATTGGCACC-TTA
* *
452414 TCTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
452457 CCTTTGTCAT
Statistics
Matches: 545, Mismatches: 37, Indels: 17
0.91 0.06 0.03
Matches are distributed among these distances:
86 83 0.15
87 200 0.37
88 40 0.07
91 2 0.00
97 39 0.07
98 177 0.32
99 4 0.01
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (92 bp):
TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATTTCATAAGCCCAATATCGCTG
GCCTTGAATCAGCATATTGGCACCTTA
Found at i:452219 original size:39 final size:39
Alignment explanation
Indices: 452161--452396 Score: 175
Period size: 39 Copynumber: 5.6 Consensus size: 39
452151 GTCTCTCAGA
* *
452161 CCAATGTCGCTGGCCTTGAATCAGCCCATTGGCATAAGC
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCATAAGC
* * * *
452200 CCAATATCGCTGGCATTGAATCAGCATATTGGCACCTTGTCTCTCAGA
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCA---------TAAGC
* *
452248 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCATAAGC
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCATAAGC
* * * *
452287 CCAATATCGCTAGCCTTGAATCAACATATTGGCACCTTGTCTTTAAGA
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCA---------TAAGC
* *
452335 CCAATGTCGCTAGCCTTGAATCAGCACATTGGCATAAGC
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCATAAGC
*
452374 CCAATATCGCTGGCTTTGAATCA
1 CCAATATCGCTGGCCTTGAATCA
452397 ACATATTGAC
Statistics
Matches: 154, Mismatches: 25, Indels: 36
0.72 0.12 0.17
Matches are distributed among these distances:
39 86 0.56
48 68 0.44
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (39 bp):
CCAATATCGCTGGCCTTGAATCAGCACATTGGCATAAGC
Found at i:458823 original size:50 final size:51
Alignment explanation
Indices: 458767--458865 Score: 173
Period size: 51 Copynumber: 2.0 Consensus size: 51
458757 TCATTCATGT
458767 TTTTA-TTTCAAAACACCAATTTTTCACAATCGAGGATACTCTAACCCTAA
1 TTTTATTTTCAAAACACCAATTTTTCACAATCGAGGATACTCTAACCCTAA
* *
458817 TTTTATTTTCAAAACATCAATTTTTCACAATCGATGATACTCTAACCCT
1 TTTTATTTTCAAAACACCAATTTTTCACAATCGAGGATACTCTAACCCT
458866 GTTATTTTCA
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
50 5 0.11
51 41 0.89
ACGTcount: A:0.34, C:0.23, G:0.05, T:0.37
Consensus pattern (51 bp):
TTTTATTTTCAAAACACCAATTTTTCACAATCGAGGATACTCTAACCCTAA
Found at i:458997 original size:78 final size:78
Alignment explanation
Indices: 458800--459024 Score: 294
Period size: 79 Copynumber: 2.8 Consensus size: 78
458790 TCACAATCGA
* * *
458800 GGATACTCTAACCCTAATTTTATTT-TCAAAACATCAATTTTTCACAATCGATGATACTCTAACC
1 GGATACTCCAACCC-AATTTTATTTCT-AAAACATCGATTTTTCACAATCGAGGATACTCTAACC
*
458864 CTGTTATTTTCAAGG
64 CCGTTATTTTCAAGG
* *
458879 GGATACTTCAATCCCAATTTTATTTCTAAAACA-CTGA-TTTTCAACAATTGAGGATACTCTAAC
1 GGATACTCCAA-CCCAATTTTATTTCTAAAACATC-GATTTTTC-ACAATCGAGGATACTCTAAC
458942 CCCGTTATTTTCAAGG
63 CCCGTTATTTTCAAGG
* * *
458958 GGATACTCCAACCCAGTTTTATTTCTAAAACATCGATTTTTCACAATCGGGGGATACTCCAACCC
1 GGATACTCCAACCCAATTTTATTTCTAAAACATCGATTTTTCACAATC-GAGGATACTCTAACCC
459023 CG
65 CG
459025 ATTTTATTTT
Statistics
Matches: 128, Mismatches: 11, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
78 33 0.26
79 91 0.71
80 4 0.03
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.34
Consensus pattern (78 bp):
GGATACTCCAACCCAATTTTATTTCTAAAACATCGATTTTTCACAATCGAGGATACTCTAACCCC
GTTATTTTCAAGG
Found at i:459011 original size:130 final size:130
Alignment explanation
Indices: 458877--459150 Score: 364
Period size: 130 Copynumber: 2.1 Consensus size: 130
458867 TTATTTTCAA
* * *
458877 GGGGATACTTCAATCCCAATTTTA-TTTCTAAAACA-CTGATTTTC-AACAATTGAGGATACT-C
1 GGGGATACTCCAACCCCAATTTTATTTTC-AAAACAGC-AATTTTCTAA-AATTGAGGATACTCC
* *
458938 TAACCCCGTTATTTTCAAGGGGATACTCCAA-CCCAGTTTTATTTCTAAAACATCGATTTTTCAC
63 T-A-CCCATTATTTTCAAGGGGATACTCCAACCCCAGTTTTATTTATAAAACATCGATTTTTCAC
459002 AATCG
126 AATCG
* *
459007 GGGGATACTCCAACCCCGATTTTATTTTCAAAACAGCAATTTTCTAAAATTGGGGATACTCCTAC
1 GGGGATACTCCAACCCCAATTTTATTTTCAAAACAGCAATTTTCTAAAATTGAGGATACTCCTAC
* *
459072 CCATTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTATAAAACATCGATTTTTCACAATC-
66 CCATTATTTTCAAGGGGATACTCCAACCCCAGTTTTATTTATAAAACATCGATTTTTCACAATCG
*
459136 -GGAATACTCCAACCC
1 GGGGATACTCCAACCC
459151 TGTTATTTTC
Statistics
Matches: 129, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
128 14 0.11
129 25 0.19
130 81 0.63
131 9 0.07
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.33
Consensus pattern (130 bp):
GGGGATACTCCAACCCCAATTTTATTTTCAAAACAGCAATTTTCTAAAATTGAGGATACTCCTAC
CCATTATTTTCAAGGGGATACTCCAACCCCAGTTTTATTTATAAAACATCGATTTTTCACAATCG
Found at i:459050 original size:51 final size:51
Alignment explanation
Indices: 458956--459074 Score: 136
Period size: 51 Copynumber: 2.3 Consensus size: 51
458946 TTATTTTCAA
* * *
458956 GGGGATACTCCAACCCAGTTTTATTTCTAAAACATCGATTTTTC-ACAATCG
1 GGGGATACTCCAACCCAGTTTTATTTCTAAAACAGCGAATTTTCTAAAAT-G
* *
459007 GGGGATACTCCAACCCCGATTTTATTT-TCAAAACAGC-AATTTTCTAAAATT
1 GGGGATACTCCAACCCAG-TTTTATTTCT-AAAACAGCGAATTTTCTAAAATG
*
459058 GGGGATACTCCTACCCA
1 GGGGATACTCCAACCCA
459075 TTATTTTCGA
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
51 39 0.67
52 19 0.33
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.31
Consensus pattern (51 bp):
GGGGATACTCCAACCCAGTTTTATTTCTAAAACAGCGAATTTTCTAAAATG
Found at i:459095 original size:78 final size:78
Alignment explanation
Indices: 459007--459344 Score: 438
Period size: 78 Copynumber: 4.3 Consensus size: 78
458997 TTCACAATCG
* *
459007 GGGGATACTCCAACCCCGATTTTATTTTCAAAACAGCAA-TTTTCTAAAATTGGGGATACTCCTA
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAACATCAATTTTTC-ACAATTGGGGATACTCC-A
*
459071 CCC-ATTATTTTCGA
64 CCCTGTTATTTTCGA
* * * *
459085 GGGGATACTCCAACCCCGGTTTTATTTAT-AAAACATCGATTTTTCACAA-TCGGAATACTCCAA
1 GGGGATACTCCAACCCCGATTTTATTT-TCAAAACATCAATTTTTCACAATTGGGGATACTCC-A
459148 CCCTGTTATTTTCGA
64 CCCTGTTATTTTCGA
459163 GGGGATACTCCAACCCCGATTTTA-TTTCTAAAACATCAATTTTTCACAATT-GGGATACTCCAC
1 GGGGATACTCCAACCCCGATTTTATTTTC-AAAACATCAATTTTTCACAATTGGGGATACTCCA-
459226 CCCTGTTATTTTCGA
64 CCCTGTTATTTTCGA
* * * *
459241 AGGGATACTCCAACCCCGATTTTATTTTCAAAACATCGATTTTCCACAATCGGGGATACTCCGAC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAACATCAATTTTTCACAATTGGGGATACTCC-AC
*
459306 CTTGTTATTTTCGA
65 CCTGTTATTTTCGA
*
459320 GGGGATACTCC-ACCTCCAATTTTAT
1 GGGGATACTCCAACC-CCGATTTTAT
459345 CTCCAAAATA
Statistics
Matches: 231, Mismatches: 18, Indels: 21
0.86 0.07 0.08
Matches are distributed among these distances:
76 1 0.00
77 17 0.07
78 158 0.68
79 54 0.23
80 1 0.00
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (78 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAACATCAATTTTTCACAATTGGGGATACTCCACC
CTGTTATTTTCGA
Found at i:459188 original size:208 final size:208
Alignment explanation
Indices: 458767--459228 Score: 582
Period size: 208 Copynumber: 2.2 Consensus size: 208
458757 TCATTCATGT
* * * *
458767 TTTTATTTC-AAAACACCAATTTTTCACAATCGAGGATACTCTAACCCTAATTTTATTTTCAAAA
1 TTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCCAATTTTATTTTCAAAA
* * * * * *
458831 CATCAATTTTTCACAATCGATGATACTCTAACCCTGTTATTTTCAAGGGGATACTTCAATCCCAA
66 CAGCAATTTTTCAAAATCGAGGATACTCTAACCCTATTATTTTCAAGGGGATACTCCAACCCCAA
* * * *
458896 TTTTATTTCTAAAACACTGATTTTCAACAATTGAGGATACTCTAACCCCGTTATTTTCAAGGGGA
131 TTTTATTTATAAAACACTGATTTTCAACAATCGAGAATACTCCAACCCCGTTATTTTCAAGGGGA
458961 TACTCCAACCCAG
196 TACTCCAACCCAG
* *
458974 TTTTATTTCTAAAACATCGATTTTTCACAATCGGGGGATACTCCAACCCCGATTTTATTTTCAAA
1 TTTTATTTCTAAAACATCAATTTTTCACAATC-GGGGATACTCCAACCCCAATTTTATTTTCAAA
* * *
459039 ACAGCAA-TTTTCTAAAATTGGGGATACTCCT-ACCC-ATTATTTTCGAGGGGATACTCCAACCC
65 ACAGCAATTTTTC-AAAATCGAGGATACT-CTAACCCTATTATTTTCAAGGGGATACTCCAACCC
** * *
459101 CGGTTTTATTTATAAAACA-TCGATTTTTC-ACAATCG-GAATACTCCAACCCTGTTATTTTCGA
128 CAATTTTATTTATAAAACACT-GA-TTTTCAACAATCGAGAATACTCCAACCCCGTTATTTTCAA
*
459163 GGGGATACTCCAACCCCG
191 GGGGATACTCCAACCCAG
*
459181 ATTTTATTTCTAAAACATCAATTTTTCACAAT-TGGGATACTCC-ACCCC
1 -TTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCC
459229 TGTTATTTTC
Statistics
Matches: 222, Mismatches: 26, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
205 5 0.02
206 10 0.05
207 49 0.22
208 102 0.46
209 54 0.24
210 2 0.01
ACGTcount: A:0.31, C:0.24, G:0.11, T:0.35
Consensus pattern (208 bp):
TTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCCAATTTTATTTTCAAAA
CAGCAATTTTTCAAAATCGAGGATACTCTAACCCTATTATTTTCAAGGGGATACTCCAACCCCAA
TTTTATTTATAAAACACTGATTTTCAACAATCGAGAATACTCCAACCCCGTTATTTTCAAGGGGA
TACTCCAACCCAG
Found at i:459215 original size:156 final size:157
Alignment explanation
Indices: 459007--459344 Score: 483
Period size: 156 Copynumber: 2.2 Consensus size: 157
458997 TTCACAATCG
459007 GGGGATACTCCAACCCCGATTTTATTTTCAAAACAGCAATTTTCTAAAATTGGGGATACTCCTA-
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAACAGCAATTTTCTAAAATT-GGGATACTCC-AC
* * *
459071 CCC-ATTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTAT-AAAACATCGATTTTTCACAA
64 CCCTATTATTTTCGAAGGGATACTCCAACCCCGATTTTATTT-TCAAAACATCGATTTTCCACAA
459134 TC-GGAATACTCCAACCCTGTTATTTTCGA
128 TCGGGAATACTCCAACCCTGTTATTTTCGA
* *
459163 GGGGATACTCCAACCCCGATTTTA-TTTCTAAAACATCAATTTT-TCACAATTGGGATACTCCAC
1 GGGGATACTCCAACCCCGATTTTATTTTC-AAAACAGCAATTTTCT-AAAATTGGGATACTCCAC
*
459226 CCCTGTTATTTTCGAAGGGATACTCCAACCCCGATTTTATTTTCAAAACATCGATTTTCCACAAT
64 CCCTATTATTTTCGAAGGGATACTCCAACCCCGATTTTATTTTCAAAACATCGATTTTCCACAAT
* * *
459291 CGGGGATACTCCGACCTTGTTATTTTCGA
129 CGGGAATACTCCAACCCTGTTATTTTCGA
*
459320 GGGGATACTCC-ACCTCCAATTTTAT
1 GGGGATACTCCAACC-CCGATTTTAT
459345 CTCCAAAATA
Statistics
Matches: 164, Mismatches: 10, Indels: 14
0.87 0.05 0.07
Matches are distributed among these distances:
154 1 0.01
155 19 0.12
156 101 0.62
157 43 0.26
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (157 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAACAGCAATTTTCTAAAATTGGGATACTCCACCC
CTATTATTTTCGAAGGGATACTCCAACCCCGATTTTATTTTCAAAACATCGATTTTCCACAATCG
GGAATACTCCAACCCTGTTATTTTCGA
Found at i:460602 original size:79 final size:79
Alignment explanation
Indices: 460454--460625 Score: 204
Period size: 79 Copynumber: 2.2 Consensus size: 79
460444 GATAAAGGAG
* * * * * *** * *
460454 GGGTAGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCTGATTGTGAAAAATTGGTGTTT
1 GGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGAAGTATCCCCGAATGTGAAAAATCAATATTC
460519 TGAAAATAAAACCGA
66 TGAAAATAAAA-CGA
460534 -GGTTGGAGTATCCCCTCAAAAATAACGGGGTTGAAGTATCCCCGAATGT-AGAAAATCAATATT
1 GGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGAAGTATCCCCGAATGTGA-AAAATCAATATT
**
460597 CTGAAAATAAAATTA
65 CTGAAAATAAAACGA
460612 GGGTTGGAGTATCC
1 GGGTTGGAGTATCC
460626 TCGATGGTGG
Statistics
Matches: 78, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
78 2 0.03
79 76 0.97
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (79 bp):
GGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGAAGTATCCCCGAATGTGAAAAATCAATATTC
TGAAAATAAAACGA
Found at i:460656 original size:51 final size:50
Alignment explanation
Indices: 460601--460728 Score: 166
Period size: 51 Copynumber: 2.5 Consensus size: 50
460591 AATATTCTGA
* * *
460601 AAATAAAATTAGGGTTGGAGTATCCTCGATGGTGGAAAATTGGTGTTTTAG
1 AAATAAAA-CAGGGTTGGAGTATCCCCGATGGTGGAAAATTGGTGTCTTAG
* *
460652 AAATAAAACCGAGGTTGAAGTATCCCCGATGGTGGAAAATTGGTGTCTTAG
1 AAATAAAACAG-GGTTGGAGTATCCCCGATGGTGGAAAATTGGTGTCTTAG
* *
460703 GAATAAAACCAGGTTTGGAGTATCCC
1 AAATAAAA-CAGGGTTGGAGTATCCC
460729 TTCGGAAATA
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
50 1 0.02
51 63 0.95
52 2 0.03
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.28
Consensus pattern (50 bp):
AAATAAAACAGGGTTGGAGTATCCCCGATGGTGGAAAATTGGTGTCTTAG
Found at i:462821 original size:20 final size:20
Alignment explanation
Indices: 462796--462833 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
462786 AGGTAAAACC
462796 AAGAATGTATCGATATAATG
1 AAGAATGTATCGATATAATG
462816 AAGAATGTATCGATATAA
1 AAGAATGTATCGATATAA
462834 ATTGTGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.47, C:0.05, G:0.18, T:0.29
Consensus pattern (20 bp):
AAGAATGTATCGATATAATG
Found at i:463629 original size:41 final size:42
Alignment explanation
Indices: 463451--463641 Score: 213
Period size: 42 Copynumber: 4.6 Consensus size: 42
463441 AAAGAGAATG
* * * * * *
463451 AAATGGGTCCTATTCCTTGAGGACATAGGAAAAAAGGAAATT
1 AAATGCGTCCTACTCTTTGAGGACACAGGAGAAAAGGAAATA
* * *
463493 AAATGTGTCTTGCTCTTTGAGGACACAGGAGAAAAGGAAATA
1 AAATGCGTCCTACTCTTTGAGGACACAGGAGAAAAGGAAATA
* *
463535 AAGTGCGTCCTGCTCTTTGAGGACACAGGAGAAAAGGAAATA
1 AAATGCGTCCTACTCTTTGAGGACACAGGAGAAAAGGAAATA
* * * **
463577 AAGTGCATCCTACTCTTTGAGGATA-AAAAGAAAAGGAAATA
1 AAATGCGTCCTACTCTTTGAGGACACAGGAGAAAAGGAAATA
* *
463618 AAATGCGTCCTACTCCTTGGGGAC
1 AAATGCGTCCTACTCTTTGAGGAC
463642 TACAAGGTGC
Statistics
Matches: 128, Mismatches: 21, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
41 33 0.26
42 95 0.74
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.23
Consensus pattern (42 bp):
AAATGCGTCCTACTCTTTGAGGACACAGGAGAAAAGGAAATA
Found at i:463754 original size:61 final size:61
Alignment explanation
Indices: 463617--464136 Score: 568
Period size: 61 Copynumber: 8.5 Consensus size: 61
463607 AAAAGGAAAT
* * * *
463617 AAAATGCGTCCTACTCCTTGGGGACT-ACAAGGTGCCACCAAC-T-TATGGGCTTTGAAAA-G
1 AAAAGGCGTCCTACTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGG
*
463676 AAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
1 AAAAGGCGTCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
* *
463737 AAAAGGTGTCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGG
1 AAAAGGCGTCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
* * * *
463798 AAAAGACGTCCTACTCTTTGAGGACT-ACAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGA
1 AAAAGGCGTCCTACTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGG
* * * * * * * * * *
463860 AAAATGTGACCAACTCTTCGAGGATTGAAAGATGCCTCTAACTTGTGTGGGCTTTAAAATG
1 AAAAGGCGTCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
** * * *
463921 AAAAGGTATCCTGCTCTTTGAGGACT-AAATGGTGCCACCAACTTGTGTAGGCTTTAACA-G
1 AAAAGGCGTCCTACTCTTTGAGGACTGAAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAGG
* * ** * * *
463981 AAAAGAAGTGTCCTGCTCTTCAAGGACTAAAAGGTGACACCAACTTATGTGGGCTTTAAAAGG
1 AAAAG--GCGTCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
* * * * *
464044 AAAAAGCATCTTACTCTTTGACGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTTAAAGG
1 AAAAGGCGTCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
* *
464105 AAAAGGCATCCTACTCTTTAAGGACTGAAAGG
1 AAAAGGCGTCCTACTCTTTGAGGACTGAAAGG
464137 ATAAAAGGTT
Statistics
Matches: 386, Mismatches: 63, Indels: 22
0.82 0.13 0.05
Matches are distributed among these distances:
59 36 0.09
60 16 0.04
61 236 0.61
62 89 0.23
63 9 0.02
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.26
Consensus pattern (61 bp):
AAAAGGCGTCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
Found at i:463938 original size:123 final size:122
Alignment explanation
Indices: 463624--464136 Score: 563
Period size: 123 Copynumber: 4.2 Consensus size: 122
463614 AATAAAATGC
* * *
463624 GTCCTACTCCTT-GGGGACT-ACAAGGTGCCACCAAC-T-TATGGGCTTTGAAAA-GAAAAGGCG
1 GTCCTACT-CTTCGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGCA
* * *
463684 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGT
63 TCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAAGT
* * * *
463744 GTCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAGACGTCC
1 GTCCTACTCTTCGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCC
* * *
463809 TACTCTTTGAGGACT-ACAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAATGT
66 TACTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAAAGT
* * * * * * * *
463867 GACCAACTCTTCGAGGATTGAAAGATGCCTCTAACTTGTGTGGGCTTTAAAATGAAAAGGTATCC
1 GTCCTACTCTTCGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCC
* * *
463932 TGCTCTTTGAGGACT-AAATGGTGCCACCAACTTGTGTAGGCTTTAACAGAAAAGAAGT
66 TACTCTTTGAGGACTGAAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAA-AAGT
* * * * * * *
463990 GTCCTGCTCTTCAAGGACTAAAAGGTGACACCAACTTATGTGGGCTTTAAAAGGAAAAAGCATCT
1 GTCCTACTCTTCGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCC
* * * * *
464055 TACTCTTTGACGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTTAAAGGAAAAGGC
66 TACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAAGT
* **
464112 ATCCTACTCTTTAAGGACTGAAAGG
1 GTCCTACTCTTCGAGGACTGAAAGG
464137 ATAAAAGGTT
Statistics
Matches: 329, Mismatches: 54, Indels: 18
0.82 0.13 0.04
Matches are distributed among these distances:
119 3 0.01
120 28 0.09
121 7 0.02
122 90 0.27
123 198 0.60
124 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.26
Consensus pattern (122 bp):
GTCCTACTCTTCGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCC
TACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAAGT
Found at i:463940 original size:184 final size:181
Alignment explanation
Indices: 463622--464136 Score: 642
Period size: 184 Copynumber: 2.8 Consensus size: 181
463612 GAAATAAAAT
* * * * *
463622 GCGTCCTACTCCTTGGGGACTACAAGGTGCCACCAACTTATGGGCTTTGAAAAGAAAAGGCGTCC
1 GCGTCCTACTCTTTGAGGACTACAAGGTGCCACCAACTTGTGGGCTTTGAAAAGAAAAAG-GACC
* *
463687 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCCTACT
65 TACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTATCCTACT
463752 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAG-A
130 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTTAAAA-GAAAAGAA
*
463804 -CGTCCTACTCTTTGAGGACTACAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAATGTG
1 GCGTCCTACTCTTTGAGGACTACAAGGTGCCACCAACT--TGTGGGCTTTGAAAAGAAAAA-G-G
* * * * * * *
463868 ACCAACTCTTCGAGGATTGAAAGATGCCTCTAACTTGTGTGGGCTTTAAAATGAAAAGGTATCCT
62 ACCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTATCCT
* *
463933 GCTCTTTGAGGACT-AAATGGTGCCACCAACTTGTGTAGGCTTTAACAGAAAAGAA
127 ACTCTTTGAGGACTGAAA-GGTGCCACCAACTTGTGTAGGCTTTAAAAGAAAAGAA
* * ** * * *
463988 GTGTCCTGCTCTTCAAGGACTAAAAGGTGACACCAACTTATGTGGGCTTT-AAAAGGAAAAAGCA
1 GCGTCCTACTCTTTGAGGACTACAAGGTGCCACCAAC-T-TGTGGGCTTTGAAAA-GAAAAAGGA
* * * *
464052 TCTTACTCTTTGACGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTTAAAGGAAAAGGCATCCT
63 -CCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTATCCT
*
464117 ACTCTTTAAGGACTGAAAGG
127 ACTCTTTGAGGACTGAAAGG
464137 ATAAAAGGTT
Statistics
Matches: 283, Mismatches: 40, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
181 34 0.12
183 29 0.10
184 171 0.60
185 48 0.17
186 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.26
Consensus pattern (181 bp):
GCGTCCTACTCTTTGAGGACTACAAGGTGCCACCAACTTGTGGGCTTTGAAAAGAAAAAGGACCT
ACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTATCCTACTC
TTTGAGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGAAAAGAA
Found at i:465133 original size:1 final size:1
Alignment explanation
Indices: 465122--465169 Score: 51
Period size: 1 Copynumber: 48.0 Consensus size: 1
465112 TTCTTTTCTC
* * * **
465122 TTTTTTATTTTTTTTTTTTGTTTTTTTATTTTTTGGTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
465170 GAGAAAAAGG
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.04, C:0.00, G:0.06, T:0.90
Consensus pattern (1 bp):
T
Found at i:465139 original size:21 final size:21
Alignment explanation
Indices: 465110--465155 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
465100 AAGTAGGTTA
465110 TTTTCTTTTCT-CTTTTTTATT
1 TTTTCTTTT-TGCTTTTTTATT
* *
465131 TTTTTTTTTTGTTTTTTTATT
1 TTTTCTTTTTGCTTTTTTATT
465152 TTTT
1 TTTT
465156 GGTTTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.04, C:0.07, G:0.02, T:0.87
Consensus pattern (21 bp):
TTTTCTTTTTGCTTTTTTATT
Found at i:465161 original size:21 final size:21
Alignment explanation
Indices: 465122--465169 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
465112 TTCTTTTCTC
**
465122 TTTTTTATTTTTTTTTTTTGT
1 TTTTTTATTTTTTGGTTTTGT
*
465143 TTTTTTATTTTTTGGTTTTTT
1 TTTTTTATTTTTTGGTTTTGT
465164 TTTTTT
1 TTTTTT
465170 GAGAAAAAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.04, C:0.00, G:0.06, T:0.90
Consensus pattern (21 bp):
TTTTTTATTTTTTGGTTTTGT
Found at i:475423 original size:4 final size:4
Alignment explanation
Indices: 475414--475452 Score: 69
Period size: 4 Copynumber: 9.8 Consensus size: 4
475404 AAACAAAACA
*
475414 AAAT AAAT AAAT AAAT AAAT AAAT GAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
475453 CACCTCAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:477551 original size:78 final size:79
Alignment explanation
Indices: 477469--477650 Score: 215
Period size: 78 Copynumber: 2.3 Consensus size: 79
477459 TATTTTGGAG
* *
477469 ATAAAAGCGGGGTTAGAGTATCCCCTCAGAAATAATAAGGTTAGAGTATC-CCGAATGT-GAAAA
1 ATAAAACCGGGGTTAGAGTATCCCCTCAGAAATAACAAGGTTAGAGTATCTCCGAATGTAG-AAA
*
477532 AATGGTGTTATGAAA
65 AATGATGTTATGAAA
* ** * * *
477547 ATAAAACCGGGGTTAGAGTATCCCTTCAGAAATAACGGGGTTGGAGTATCTCTGATTGTAGAAAA
1 ATAAAACCGGGGTTAGAGTATCCCCTCAGAAATAACAAGGTTAGAGTATCTCCGAATGTAGAAAA
* *
477612 TTGATGTTCTGAAA
66 ATGATGTTATGAAA
* * *
477626 ATAAAATCGAGGTTGGAGTATCCCC
1 ATAAAACCGGGGTTAGAGTATCCCC
477651 GATGGTGGAA
Statistics
Matches: 87, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
78 44 0.51
79 42 0.48
80 1 0.01
ACGTcount: A:0.36, C:0.13, G:0.25, T:0.26
Consensus pattern (79 bp):
ATAAAACCGGGGTTAGAGTATCCCCTCAGAAATAACAAGGTTAGAGTATCTCCGAATGTAGAAAA
ATGATGTTATGAAA
Found at i:477662 original size:51 final size:51
Alignment explanation
Indices: 477582--477751 Score: 241
Period size: 51 Copynumber: 3.3 Consensus size: 51
477572 TCAGAAATAA
* * * * * * *
477582 CGGGGTTGGAGTATCTCTGATTGTAGAAAATTGATGTTCTGAAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATGGTGGAAAATTGGTGTTTTGGAAATAAAAT
*
477633 CGAGGTTGGAGTATCCCCGATGGTGGAAAATTGGTGTTTTGGAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATGGTGGAAAATTGGTGTTTTGGAAATAAAAT
*
477684 CAGGGGTTGAAGTATCCCCGATGGTGGAAAATTGGTGTTTTGGAAATAAAAT
1 C-GGGGTTGGAGTATCCCCGATGGTGGAAAATTGGTGTTTTGGAAATAAAAT
*
477736 CGGGGTTAGAGTATCC
1 CGGGGTTGGAGTATCC
477752 TCTTGGAAAT
Statistics
Matches: 106, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
51 57 0.54
52 49 0.46
ACGTcount: A:0.30, C:0.10, G:0.30, T:0.30
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATGGTGGAAAATTGGTGTTTTGGAAATAAAAT
Found at i:477790 original size:79 final size:77
Alignment explanation
Indices: 477687--477917 Score: 266
Period size: 79 Copynumber: 2.9 Consensus size: 77
477677 ATAAAATCAG
* * * *
477687 GGGTTGAAGTATCCCCGATGGTGGAAAATTGGTGTTTTGGAAATAAAATCGGGGTTAGAGTATCC
1 GGGTTGGAGTATCCCCGATTGTGGAAAATTGATGTTTTGGAAATAAAATCGGGGTTGGAGTATCC
477752 TCTTGGAAATAATA
66 -CTTGGAAATAA-A
** * * * * **
477766 GGGTTGGAGTATCCCTAATTGTGGAAAATCGATATTTTAGAAAAAAAATTAGGGTTGGAGTATTC
1 GGGTTGGAGTATCCCCGATTGTGGAAAATTGATGTTTTGGAAATAAAATCGGGGTTGGAGTA-TC
** *
477831 CCTCAGAAATAAC
65 CCTTGGAAATAAA
*
477844 GGGTTGGAGTATCCCCGATTGTGGAAAACTGATGTTTTGGAAATAAAA-CTGGGGTTGGAGTATC
1 GGGTTGGAGTATCCCCGATTGTGGAAAATTGATGTTTTGGAAATAAAATC-GGGGTTGGAGTATC
477908 CCTTTGGAAA
65 CC-TTGGAAA
477918 ACCGGGGTTT
Statistics
Matches: 123, Mismatches: 26, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
77 4 0.03
78 57 0.46
79 59 0.48
80 3 0.02
ACGTcount: A:0.31, C:0.11, G:0.28, T:0.30
Consensus pattern (77 bp):
GGGTTGGAGTATCCCCGATTGTGGAAAATTGATGTTTTGGAAATAAAATCGGGGTTGGAGTATCC
CTTGGAAATAAA
Found at i:477926 original size:78 final size:77
Alignment explanation
Indices: 477686--477937 Score: 260
Period size: 78 Copynumber: 3.2 Consensus size: 77
477676 AATAAAATCA
* * * *
477686 GGGGTTGAAGTATCCCCGATGGTGGAAAATTGGTGTTTTGGAAATAAAATCGGGGTTAGAGTAT-
1 GGGGTTGGAGTATCCCCGATTGTGGAAAA-TGATGTTTTGGAAATAAAAT-GGGGTTGGAGTATC
*
477750 CCTCTTGGAAATAAT
64 CCT-TTGGAAATAAC
* ** * * * *
477765 AGGGTTGGAGTATCCCTAATTGTGGAAAATCGATATTTTAGAAAAAAAATTAGGGTTGGAGTATT
1 GGGGTTGGAGTATCCCCGATTGTGGAAAAT-GATGTTTTGGAAATAAAA-TGGGGTTGGAGTA-T
**
477830 CCC-TCAGAAATAAC
63 CCCTTTGGAAATAAC
477844 -GGGTTGGAGTATCCCCGATTGTGGAAAACTGATGTTTTGGAAATAAAACTGGGGTTGGAGTATC
1 GGGGTTGGAGTATCCCCGATTGTGGAAAA-TGATGTTTTGGAAATAAAA-TGGGGTTGGAGTATC
*
477908 CCTTTGGAAA-ACC
64 CCTTTGGAAATAAC
*
477921 GGGGTTTGAGTATCCCC
1 GGGGTTGGAGTATCCCC
477938 TCGGAAATAA
Statistics
Matches: 141, Mismatches: 25, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
77 6 0.04
78 74 0.52
79 57 0.40
80 2 0.01
81 2 0.01
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.29
Consensus pattern (77 bp):
GGGGTTGGAGTATCCCCGATTGTGGAAAATGATGTTTTGGAAATAAAATGGGGTTGGAGTATCCC
TTTGGAAATAAC
Found at i:477943 original size:27 final size:27
Alignment explanation
Indices: 477888--477944 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
477878 TTTTGGAAAT
* * *
477888 AAAACTGGGGTTGGAGTATCCCTTTGG
1 AAAACCGGGGTTGGAGTATCCCCTCGG
*
477915 AAAACCGGGGTTTGAGTATCCCCTCGG
1 AAAACCGGGGTTGGAGTATCCCCTCGG
477942 AAA
1 AAA
477945 TAAAAACATG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (27 bp):
AAAACCGGGGTTGGAGTATCCCCTCGG
Found at i:480349 original size:29 final size:29
Alignment explanation
Indices: 480316--480409 Score: 134
Period size: 30 Copynumber: 3.2 Consensus size: 29
480306 TACATTGAGA
* * *
480316 AATGTATTGATACATTTGGGTAAAACCGG
1 AATGTATCGATACATCTGGGTAAAACCAG
480345 AATGTATCGATACATCTGGGTAAAACTCAG
1 AATGTATCGATACATCTGGGTAAAAC-CAG
*
480375 AATATATCGATACATCTGGGTAAAACCCAG
1 AATGTATCGATACATCTGGGTAAAA-CCAG
480405 AATGT
1 AATGT
480410 GATTTTGAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
29 24 0.41
30 33 0.57
31 1 0.02
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (29 bp):
AATGTATCGATACATCTGGGTAAAACCAG
Found at i:484817 original size:40 final size:40
Alignment explanation
Indices: 484772--484847 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
484762 TGTGTATAAA
* * * *
484772 ATTAATTTTTCCTATCTTCATTTTGCTTTGTAAATTTTGG
1 ATTAATTCTACCTATCTTCATATTCCTTTGTAAATTTTGG
*
484812 ATTAATTCTACCTATCTTTATATTCCTTTGTAAATT
1 ATTAATTCTACCTATCTTCATATTCCTTTGTAAATT
484848 CTATCATTAG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.24, C:0.14, G:0.07, T:0.55
Consensus pattern (40 bp):
ATTAATTCTACCTATCTTCATATTCCTTTGTAAATTTTGG
Found at i:491052 original size:149 final size:149
Alignment explanation
Indices: 490887--491176 Score: 404
Period size: 149 Copynumber: 1.9 Consensus size: 149
490877 CGACTTAAAA
** * * * *
490887 AGATAAAAACAAACCTACTCCTAATTCATACCTTC-GACGTAGAAGTGGTCCTAATAGCTTTATA
1 AGATAAAAACAAACCTACTAATAATTCATACCTTCAG-CGTAAAAGCGGACCCAATAGCTTTATA
*
490951 GGACTAGGTTT-TGGGAGAATGCTAAAATATCCGTAAGGTTTACCATCAACTTAGAAATACCTGA
65 GGACTAGGTTTCT-GGAGAATACTAAAATATCCGTAAGGTTTACCATCAACTTAGAAATACCTGA
491015 TGATCCTAAGGGACATTGATG
129 TGATCCTAAGGGACATTGATG
* * ** *
491036 AGATAAAAACAAACCTACTAATAATTCGTACCTTCAGTGTAAAAGCGGACCCGGTAGTTTTATAG
1 AGATAAAAACAAACCTACTAATAATTCATACCTTCAGCGTAAAAGCGGACCCAATAGCTTTATAG
* * * *
491101 GACTAGGTTTCTGGAGAATACTAAAATATCCTTAAGGTTTACCATCAACTTAGAAGTGCCTGGTG
66 GACTAGGTTTCTGGAGAATACTAAAATATCCGTAAGGTTTACCATCAACTTAGAAATACCTGATG
491166 ATCCTAAGGGA
131 ATCCTAAGGGA
491177 TTTAATAAAA
Statistics
Matches: 123, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
149 121 0.98
150 2 0.02
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (149 bp):
AGATAAAAACAAACCTACTAATAATTCATACCTTCAGCGTAAAAGCGGACCCAATAGCTTTATAG
GACTAGGTTTCTGGAGAATACTAAAATATCCGTAAGGTTTACCATCAACTTAGAAATACCTGATG
ATCCTAAGGGACATTGATG
Found at i:492821 original size:62 final size:62
Alignment explanation
Indices: 492724--492848 Score: 241
Period size: 62 Copynumber: 2.0 Consensus size: 62
492714 TCATATGTTT
*
492724 TCAAGTGAAAATAATTTAAAGTATCGATACATAGGTATTTGTATCAACACATAAAGGTTGAC
1 TCAAGTGAAAATAATCTAAAGTATCGATACATAGGTATTTGTATCAACACATAAAGGTTGAC
492786 TCAAGTGAAAATAATCTAAAGTATCGATACATAGGTATTTGTATCAACACATAAAGGTTGAC
1 TCAAGTGAAAATAATCTAAAGTATCGATACATAGGTATTTGTATCAACACATAAAGGTTGAC
492848 T
1 T
492849 TAGGCTATAA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (62 bp):
TCAAGTGAAAATAATCTAAAGTATCGATACATAGGTATTTGTATCAACACATAAAGGTTGAC
Found at i:492934 original size:13 final size:13
Alignment explanation
Indices: 492916--492940 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
492906 CATATTACTT
492916 TGTATCGATACAC
1 TGTATCGATACAC
492929 TGTATCGATACA
1 TGTATCGATACA
492941 TGTTCTTGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:492958 original size:32 final size:33
Alignment explanation
Indices: 492896--492960 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
492886 CACAGCTAGA
* *
492896 TGTATTGATACATATTACTTTGTATCGATACAC
1 TGTATCGATACATATTACTTGGTATCGATACAC
*
492929 TGTATCGATACATGTT-CTTGGTATCGATACAC
1 TGTATCGATACATATTACTTGGTATCGATACAC
492961 AGTAATTTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATATTACTTGGTATCGATACAC
Found at i:494640 original size:3 final size:3
Alignment explanation
Indices: 494632--494666 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
494622 AACCATCAAA
494632 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
494667 AGTTAACTCG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:495128 original size:15 final size:16
Alignment explanation
Indices: 495094--495135 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
495084 GAATAAATCA
495094 AAAATTGTTGAAAATG
1 AAAATTGTTGAAAATG
*
495110 -AAATTTTTGAAAA-G
1 AAAATTGTTGAAAATG
*
495124 AAAATAGTTGAA
1 AAAATTGTTGAA
495136 GTAGAAAAGG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
14 1 0.05
15 21 0.95
ACGTcount: A:0.52, C:0.00, G:0.17, T:0.31
Consensus pattern (16 bp):
AAAATTGTTGAAAATG
Found at i:501074 original size:25 final size:25
Alignment explanation
Indices: 501028--501076 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
501018 CGCTAGCTAT
*
501028 GTTTGACTTGACATTATTTTCAATG
1 GTTTGACTTGACATTATGTTCAATG
*
501053 GTTTCGACTTGATATTA-GTTCAAT
1 GTTT-GACTTGACATTATGTTCAAT
501077 ACGATCCCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.24, C:0.12, G:0.16, T:0.47
Consensus pattern (25 bp):
GTTTGACTTGACATTATGTTCAATG
Found at i:503925 original size:20 final size:20
Alignment explanation
Indices: 503899--503953 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
503889 AAAAAGATAG
*
503899 AATGTATCGATACATTCATA
1 AATGTATCGATACATTCAAA
* *
503919 CATGTATCGATACATTGAAA
1 AATGTATCGATACATTCAAA
503939 AATGTATCGATACAT
1 AATGTATCGATACAT
503954 CTGGGTAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:503965 original size:71 final size:71
Alignment explanation
Indices: 503849--504035 Score: 286
Period size: 71 Copynumber: 2.6 Consensus size: 71
503839 TTTTAACTAG
** * * * *
503849 ATGTATCGATACATT-ATTCAATGTATCAATAGATCTGGGTAAAAAGATAGAATGTATCGATACA
1 ATGTATCGATACATTGA-AAAATGTATCGATACATCTGGGTAAAAAGACAAAATGTATCGATACA
503913 TTCATAC
65 TTCATAC
503920 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAGACAAAATGTATCGATACAT
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAGACAAAATGTATCGATACAT
503985 TCATAC
66 TCATAC
* *
503991 ATGTATCGATACATTGAAAAATGTCTCGATACATCTGGTTAAAAA
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAA
504036 TGTGATTTTT
Statistics
Matches: 107, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
71 106 0.99
72 1 0.01
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (71 bp):
ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAGACAAAATGTATCGATACAT
TCATAC
Found at i:503996 original size:20 final size:20
Alignment explanation
Indices: 503968--504024 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
503958 GTAAAAAGAC
503968 AAAATGTATCGATACATTCA
1 AAAATGTATCGATACATTCA
* * *
503988 TACATGTATCGATACATTGA
1 AAAATGTATCGATACATTCA
*
504008 AAAATGTCTCGATACAT
1 AAAATGTATCGATACAT
504025 CTGGTTAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (20 bp):
AAAATGTATCGATACATTCA
Found at i:504987 original size:32 final size:30
Alignment explanation
Indices: 504936--505020 Score: 116
Period size: 32 Copynumber: 2.7 Consensus size: 30
504926 TTTTTTTAAA
*
504936 AAAAAGGCTGCCACTAACTTGTGTGGGCTTT
1 AAAAAGG-TGCCACCAACTTGTGTGGGCTTT
*
504967 AAAAAGAGTTTCCACCAACTTGTGTGGGCTTT
1 AAAAAG-G-TGCCACCAACTTGTGTGGGCTTT
*
504999 GAAAAGGTGCCACCAACTTGTG
1 AAAAAGGTGCCACCAACTTGTG
505021 GGCTTTGAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
30 14 0.29
31 7 0.15
32 27 0.56
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (30 bp):
AAAAAGGTGCCACCAACTTGTGTGGGCTTT
Found at i:505995 original size:28 final size:28
Alignment explanation
Indices: 504989--505989 Score: 1241
Period size: 28 Copynumber: 35.5 Consensus size: 28
504979 CACCAACTTG
**
504989 TGTGGGCTTTGAAAAGG-TGCCACCAACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
505017 TGTGGGCTTTGAAAGGGTATGCCACTGACT
1 TGTGGGCTTTGAAA-GG-ATGCCACTGACT
* * *
505047 TGTGGGCTTTGAAAGGGTGCCACTAACA
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * *
505075 TGTAGGCTTTGAAGGGGTACCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
505103 TATGGGCTTTGATAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
505131 TGTGGGTTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
505159 TGTGGGCTTTGGAAGGGTGCCACTGATTT
1 TGTGGGCTTTGAAAGGATGCCACTGA-CT
505188 GTGTGGGCTTTGAAAGGGTATGCCACTGACT
1 -TGTGGGCTTTGAAA-GG-ATGCCACTGACT
*
505219 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
505247 TATGGGCTTTGAAAAGG-TGCCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
* *
505275 TATGGTCTTTTG-AAGAGATGCCACTGACT
1 TGTGGGC-TTTGAAAG-GATGCCACTGACT
505304 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
505332 TGTGGGTTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
505360 TGTGGGCTTTGAAAAGG-TGCCACTCACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
* * *
505388 TGTGGCCTTTGAAAGGGTGCCATTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
505416 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
505444 TATGGGCTTTGAAATGG-TGCCACTG-CC
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
* **
505471 TGTGGTCTTTTCAAGAGATGCCACTGACT
1 TGTGGGCTTTGAAAG-GATGCCACTGACT
505500 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
505528 TGTGGGTTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
505556 TGTGGGCTTTGAAAAGG-TGCCACTCACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
* *
505584 TGTGGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
505612 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
505640 TGTGGTCTTTTG-AAGAGATGCCACTGACT
1 TGTGGGC-TTTGAAAG-GATGCCACTGACT
*
505669 TGTGGGCTTTGAAAGGATACCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
505697 TCTGGGTTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
505725 TGTGGGCTTTGAAAAGG-TGCCACTCACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
* *
505753 TGTAGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
505781 TGTGGGC-TTGAAAGGATGCCACTGATT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
505808 TGTGGTCTTTTG-AAGAGATGCCACTGACT
1 TGTGGGC-TTTGAAAG-GATGCCACTGACT
*
505837 TGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
505865 TGTGGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
505893 TATGGGCTTTGAAAGGATGCCATTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
505921 TGTGGGCTTTGAAAAGATGCCACTGATT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
505949 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
505977 AGTGGGCTTTGAA
1 TGTGGGCTTTGAA
505990 GAGATGAACG
Statistics
Matches: 858, Mismatches: 86, Indels: 58
0.86 0.09 0.06
Matches are distributed among these distances:
26 1 0.00
27 57 0.07
28 626 0.73
29 112 0.13
30 50 0.06
31 3 0.00
32 9 0.01
ACGTcount: A:0.21, C:0.17, G:0.31, T:0.30
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:507201 original size:79 final size:79
Alignment explanation
Indices: 507068--507266 Score: 229
Period size: 79 Copynumber: 2.5 Consensus size: 79
507058 AATAACGGGG
* ** * *
507068 TTGGAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCCCGGTCGTGAAAAATCGATGA-TTAG
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATCATGAAAAATCAAT-ATTTAG
*
507132 GAAATAAAATCAGGA
65 GAAATAAAACCAGGA
* * *
507147 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGG
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATCATGAAAAATCAATATTTAGG
* * * *
507212 GAATAAAGCCGGGG
66 AAATAAAACCAGGA
* * **
507226 TTAGAGTATCCCCTCGGAGGTAACGGGGTTGGAGTATCCCC
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCC
507267 GATGAAATAA
Statistics
Matches: 102, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
78 1 0.01
79 101 0.99
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.25
Consensus pattern (79 bp):
TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATCATGAAAAATCAATATTTAGG
AAATAAAACCAGGA
Found at i:507340 original size:52 final size:52
Alignment explanation
Indices: 507281--507631 Score: 216
Period size: 51 Copynumber: 6.7 Consensus size: 52
507271 AAATAACGAG
*
507281 GTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCTCGATTATGAAAAATTGGTGTTTTTGGAAATAAAATCGGA
* * * *
507333 GTTGGAGTATCCTCGATTAAAGGAAAATTGGTG-TTTTGAAAATAAAATCGGG
1 GTTGGAGTATCCTCGATT-ATGAAAAATTGGTGTTTTTGGAAATAAAATCGGA
* * * * * * *
507385 GTTGGAGTATCCCCGATTGTGGAAAATTAGTG-TTTTAGAAATAAAACCGGG
1 GTTGGAGTATCCTCGATTATGAAAAATTGGTGTTTTTGGAAATAAAATCGGA
* * * *** * * ** *
507436 GTTAGAGTATCCCCGATTATGAGAAATCAAT-ATTTTGGGAATAAAGCCGGG
1 GTTGGAGTATCCTCGATTATGAAAAATTGGTGTTTTTGGAAATAAAATCGGA
* *** * ***
507487 GTTGGAGTATCCCCTCGGAGGTA--ACAGGGTTGGAGTATCCCCGATGAAAT--AA-C-GA
1 GTTGGAGTAT--CCTC-GA-TTATGA-AAAATTGGTGT-T-TTTG--GAAATAAAATCGGA
*
507542 GGTTGGAGTATCCTCGATTATGAAAAATTAGTGTTTTTGGAAATAAAATCGGA
1 -GTTGGAGTATCCTCGATTATGAAAAATTGGTGTTTTTGGAAATAAAATCGGA
* * *
507595 GTCGGAGTATCCTCGATTAAAGGAAAATTGGTGTTTT
1 GTTGGAGTATCCTCGATT-ATGAAAAATTGGTGTTTT
507632 GTTCATGACC
Statistics
Matches: 227, Mismatches: 52, Indels: 39
0.71 0.16 0.12
Matches are distributed among these distances:
49 5 0.02
51 80 0.35
52 73 0.32
53 40 0.18
54 8 0.04
55 3 0.01
56 12 0.05
57 2 0.01
59 4 0.02
ACGTcount: A:0.31, C:0.11, G:0.27, T:0.30
Consensus pattern (52 bp):
GTTGGAGTATCCTCGATTATGAAAAATTGGTGTTTTTGGAAATAAAATCGGA
Found at i:507430 original size:51 final size:51
Alignment explanation
Indices: 507280--507500 Score: 237
Period size: 51 Copynumber: 4.3 Consensus size: 51
507270 GAAATAACGA
* * * * *
507280 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGGAAAATTAGTG-TTTTGGAAATAAAACCGG
* * * * * *
507332 AGTTGGAGTATCCTCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATT-ATGGAAAATTAGTGTTTTGGAAATAAAACCGG
* *
507384 GGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAACCGG
1 GGTTGGAGTATCCCCGATTATGGAAAATTAGTGTTTTGGAAATAAAACCGG
* * * * * *
507435 GGTTAGAGTATCCCCGATTAT-GAGAAATCAATATTTTGGGAATAAAGCCGG
1 GGTTGGAGTATCCCCGATTATGGA-AAATTAGTGTTTTGGAAATAAAACCGG
507486 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
507501 TCGGAGGTAA
Statistics
Matches: 145, Mismatches: 22, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
50 2 0.01
51 80 0.55
52 52 0.36
53 11 0.08
ACGTcount: A:0.31, C:0.11, G:0.27, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGGAAAATTAGTGTTTTGGAAATAAAACCGG
Found at i:507539 original size:28 final size:27
Alignment explanation
Indices: 507485--507559 Score: 78
Period size: 28 Copynumber: 2.7 Consensus size: 27
507475 AATAAAGCCG
*** **
507485 GGGTTGGAGTATCCCCTCGGAGGTAAC
1 GGGTTGGAGTATCCCCGATGAAATAAC
507512 AGGGTTGGAGTATCCCCGATGAAATAAC
1 -GGGTTGGAGTATCCCCGATGAAATAAC
*
507540 GAGGTTGGAGTATCCTCGAT
1 G-GGTTGGAGTATCCCCGAT
507560 TATGAAAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
27 1 0.03
28 39 0.98
ACGTcount: A:0.24, C:0.19, G:0.33, T:0.24
Consensus pattern (27 bp):
GGGTTGGAGTATCCCCGATGAAATAAC
Found at i:507632 original size:52 final size:51
Alignment explanation
Indices: 507281--507632 Score: 215
Period size: 52 Copynumber: 6.7 Consensus size: 51
507271 AAATAACGAG
** *
507281 GTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCTCGATTAAGGAAAATTGGTG-TTTTGGAAATAAAATCGGA
* *
507333 GTTGGAGTATCCTCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAATCGGG
1 GTTGGAGTATCCTCGATT-AAGGAAAATTGGTGTTTTGGAAATAAAATCGGA
* ** * * * *
507385 GTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAACCGGG
1 GTTGGAGTATCCTCGATTAAGGAAAATTGGTGTTTTGGAAATAAAATCGGA
* * * *** * * ** *
507436 GTTAGAGTATCCCCGATT-ATGAGAAATCAATATTTTGGGAATAAAGCCGGG
1 GTTGGAGTATCCTCGATTAAGGA-AAATTGGTGTTTTGGAAATAAAATCGGA
* * *** * * ***** *
507487 GTTGGAGTATCCCCTCGGAGGTAA-CAGGGTTGGAGTATCCCCGATGAAATAAC-GA
1 GTTGGAGTAT--CCTC-GA-TTAAGGAAAATTGGTGTTTTGGAAAT-AAA-ATCGGA
* * *
507542 GGTTGGAGTATCCTCGATTATGAAAAATTAGTGTTTTTGGAAATAAAATCGGA
1 -GTTGGAGTATCCTCGATTAAGGAAAATTGGTG-TTTTGGAAATAAAATCGGA
*
507595 GTCGGAGTATCCTCGATTAAAGGAAAATTGGTGTTTTG
1 GTTGGAGTATCCTCGATT-AAGGAAAATTGGTGTTTTG
507633 TTCATGACCA
Statistics
Matches: 225, Mismatches: 61, Indels: 28
0.72 0.19 0.09
Matches are distributed among these distances:
50 2 0.01
51 75 0.33
52 78 0.35
53 37 0.16
54 15 0.07
55 6 0.03
56 12 0.05
ACGTcount: A:0.31, C:0.11, G:0.27, T:0.30
Consensus pattern (51 bp):
GTTGGAGTATCCTCGATTAAGGAAAATTGGTGTTTTGGAAATAAAATCGGA
Found at i:509982 original size:21 final size:18
Alignment explanation
Indices: 509936--509986 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 18
509926 TAGCGATACA
509936 TTGTATCGATACAACACT
1 TTGTATCGATACAACACT
*
509954 TATGTATCGATACATTTACAGT
1 T-TGTATCGATACA---ACACT
509976 TTGTATCGATA
1 TTGTATCGATA
509987 TAAATTGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 1 0.04
19 12 0.43
21 10 0.36
22 5 0.18
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (18 bp):
TTGTATCGATACAACACT
Found at i:511464 original size:12 final size:12
Alignment explanation
Indices: 511443--511503 Score: 68
Period size: 13 Copynumber: 4.8 Consensus size: 12
511433 CTGGACCCCA
*
511443 TTTTTGTTTGTT
1 TTTTTTTTTGTT
511455 TTTTTTTTTGTT
1 TTTTTTTTTGTT
*
511467 TTTTTTCTTGGTT
1 TTTTTT-TTTGTT
*
511480 TTTTTGTTTTTTT
1 TTTTT-TTTTGTT
511493 TTATTTTTTTG
1 TT-TTTTTTTG
511504 GTACGAAGGA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
12 17 0.41
13 20 0.49
14 4 0.10
ACGTcount: A:0.02, C:0.02, G:0.11, T:0.85
Consensus pattern (12 bp):
TTTTTTTTTGTT
Found at i:511468 original size:9 final size:9
Alignment explanation
Indices: 511443--511503 Score: 56
Period size: 9 Copynumber: 6.7 Consensus size: 9
511433 CTGGACCCCA
511443 TTTTTGTTT
1 TTTTTGTTT
511452 GTTTTT-TTT
1 -TTTTTGTTT
511461 TTTGTT-TTT
1 TTT-TTGTTT
*
511470 TTTCTTGGTT
1 TTT-TTGTTT
511480 TTTTTGTTT
1 TTTTTGTTT
511489 TTTTT-TATT
1 TTTTTGT-TT
511498 TTTTTG
1 TTTTTG
511504 GTACGAAGGA
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
8 4 0.09
9 30 0.68
10 10 0.23
ACGTcount: A:0.02, C:0.02, G:0.11, T:0.85
Consensus pattern (9 bp):
TTTTTGTTT
Found at i:511499 original size:27 final size:25
Alignment explanation
Indices: 511443--511505 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 25
511433 CTGGACCCCA
* *
511443 TTTTTGTTTGTTTTTTTTTTTGTTT
1 TTTTTCTTGGTTTTTTTTTTTGTTT
*
511468 TTTTTCTTGGTTTTTTTGTTTTTTTT
1 TTTTTCTTGGTTTTTTT-TTTTGTTT
*
511494 TATTTTTTTGGT
1 T-TTTTCTTGGT
511506 ACGAAGGACG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 15 0.47
26 8 0.25
27 9 0.28
ACGTcount: A:0.02, C:0.02, G:0.13, T:0.84
Consensus pattern (25 bp):
TTTTTCTTGGTTTTTTTTTTTGTTT
Found at i:513744 original size:15 final size:16
Alignment explanation
Indices: 513718--513747 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
513708 TTAAAGGATG
513718 ACCAAGCACTGGCGGT
1 ACCAAGCACTGGCGGT
513734 ACCAA-CACTGGCGG
1 ACCAAGCACTGGCGG
513748 GTTTGACAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.27, C:0.33, G:0.30, T:0.10
Consensus pattern (16 bp):
ACCAAGCACTGGCGGT
Found at i:517043 original size:19 final size:19
Alignment explanation
Indices: 517019--517104 Score: 67
Period size: 19 Copynumber: 4.7 Consensus size: 19
517009 AGCGATACAT
517019 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
517038 TGTATCGATAC---A-TTA
1 TGTATCGATACAAAACTTA
*
517053 --TATCAATACAAAACTTA
1 TGTATCGATACAAAACTTA
* ** *
517070 TATATCGATACATTTACTGTT
1 TGTATCGATACA-AAACT-TA
517091 TGTATCGATACAAA
1 TGTATCGATACAAA
517105 TTGTTGAAAT
Statistics
Matches: 51, Mismatches: 8, Indels: 15
0.69 0.11 0.20
Matches are distributed among these distances:
13 8 0.16
15 3 0.06
16 2 0.04
17 3 0.06
19 20 0.39
20 3 0.06
21 12 0.24
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.36
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:517062 original size:32 final size:32
Alignment explanation
Indices: 517006--517083 Score: 120
Period size: 32 Copynumber: 2.4 Consensus size: 32
516996 GCAGTAGCTT
* * *
517006 TGTAGCGATACATTGTATCGATACAAAACTTA
1 TGTATCGATACATTATATCAATACAAAACTTA
517038 TGTATCGATACATTATATCAATACAAAACTTA
1 TGTATCGATACATTATATCAATACAAAACTTA
*
517070 TATATCGATACATT
1 TGTATCGATACATT
517084 TACTGTTTGT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATTATATCAATACAAAACTTA
Found at i:526207 original size:20 final size:20
Alignment explanation
Indices: 526181--526377 Score: 79
Period size: 20 Copynumber: 8.8 Consensus size: 20
526171 AAAAAGACAG
* *
526181 AATGTATTGATACATTCATA
1 AATGTATCGATACATTCAAA
* *
526201 CATGTATCGATACATTGAAA
1 AATGTATCGATACATTCAAA
*
526221 AATGTATCGATACATCTGGGTAAAAAGA
1 AATGTATCGATACA--T---T--CAA-A
* *
526249 TAGAATGTATCGATATATTCATA
1 -A-A-TGTATCGATACATTCAAA
* *
526272 CATGTATCGATACATTGAAA
1 AATGTATCGATACATTCAAA
*
526292 AATGTATCGATACATTTGGGTAAAA
1 AATGTATCGATACA--T---TCAAA
*
526317 AGATAGAATGTATCGATACATTCATA
1 A-AT-----GTATCGATACATTCAAA
* *
526343 CATGTATCGATACATTGAAA
1 AATGTATCGATACATTCAAA
526363 AATGTATCGATACAT
1 AATGTATCGATACAT
526378 CTAGGTAAAA
Statistics
Matches: 134, Mismatches: 21, Indels: 44
0.67 0.11 0.22
Matches are distributed among these distances:
20 86 0.64
21 1 0.01
22 2 0.01
23 1 0.01
24 1 0.01
25 8 0.06
26 6 0.04
27 2 0.01
28 1 0.01
29 3 0.02
30 1 0.01
31 22 0.16
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.32
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:526282 original size:71 final size:71
Alignment explanation
Indices: 526166--526457 Score: 471
Period size: 71 Copynumber: 4.1 Consensus size: 71
526156 AGAAAGTGTT
*
526166 TGGGTAAAAAGACAGAATGTATTGATACATTCATACATGTATCGATACATTGAAAAATGTATCGA
1 TGGGTAAAAAGACAGAATGTATCGATACATTCATACATGTATCGATACATTGAAAAATGTATCGA
526231 TACATC
66 TACATC
* *
526237 TGGGTAAAAAGATAGAATGTATCGATATATTCATACATGTATCGATACATTGAAAAATGTATCGA
1 TGGGTAAAAAGACAGAATGTATCGATACATTCATACATGTATCGATACATTGAAAAATGTATCGA
*
526302 TACATT
66 TACATC
*
526308 TGGGTAAAAAGATAGAATGTATCGATACATTCATACATGTATCGATACATTGAAAAATGTATCGA
1 TGGGTAAAAAGACAGAATGTATCGATACATTCATACATGTATCGATACATTGAAAAATGTATCGA
526373 TACATC
66 TACATC
* * *
526379 TAGGT-AAAAGACAGAATGTATTGATA-AATCATACATGTATCGATACATTGAAAAATGTATCGA
1 TGGGTAAAAAGACAGAATGTATCGATACATTCATACATGTATCGATACATTGAAAAATGTATCGA
*
526442 TATATC
66 TACATC
**
526448 TCTGTAAAAA
1 TGGGTAAAAA
526458 TATGACTTTT
Statistics
Matches: 207, Mismatches: 13, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
69 44 0.21
70 23 0.11
71 140 0.68
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.30
Consensus pattern (71 bp):
TGGGTAAAAAGACAGAATGTATCGATACATTCATACATGTATCGATACATTGAAAAATGTATCGA
TACATC
Found at i:528013 original size:21 final size:23
Alignment explanation
Indices: 527967--528014 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
527957 AGAGTGAAGT
*
527967 ATAA-ATGTTTTTCAAGCTATAA
1 ATAATATGTTTTTCAAGCTAAAA
527989 ATAATATG-TTTTCAAG-TAAAA
1 ATAATATGTTTTTCAAGCTAAAA
528010 ATAAT
1 ATAAT
528015 CCAAAGTATC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 9 0.38
22 12 0.50
23 3 0.12
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.40
Consensus pattern (23 bp):
ATAATATGTTTTTCAAGCTAAAA
Found at i:528154 original size:33 final size:33
Alignment explanation
Indices: 528110--528175 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
528100 CACACCCAGA
* **
528110 TGTATCAATACATATTGCTTTGTATCAATACAT
1 TGTATCAATACATAGTGAATTGTATCAATACAT
* *
528143 TGTATCGATACATAGTGAATTGTATCGATACAT
1 TGTATCAATACATAGTGAATTGTATCAATACAT
528176 GAAACTGGCA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (33 bp):
TGTATCAATACATAGTGAATTGTATCAATACAT
Found at i:528240 original size:13 final size:13
Alignment explanation
Indices: 528203--528240 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
528193 AACTTACTCA
*
528203 GTATCGATACAGT
1 GTATCGATACATT
528216 GTATCGATACATT
1 GTATCGATACATT
528229 GTATCGATACAT
1 GTATCGATACAT
528241 GGTGAAGTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:529162 original size:12 final size:12
Alignment explanation
Indices: 529145--529171 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
529135 AAGAAATGAA
529145 CAAGAAAGAAAG
1 CAAGAAAGAAAG
529157 CAAGAAAGAAAG
1 CAAGAAAGAAAG
529169 CAA
1 CAA
529172 AATAGGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.67, C:0.11, G:0.22, T:0.00
Consensus pattern (12 bp):
CAAGAAAGAAAG
Found at i:529248 original size:12 final size:11
Alignment explanation
Indices: 529224--529258 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
529214 TGCTTTTATT
*
529224 TCTTTTATTTC
1 TCTTTTTTTTC
529235 TCTTTTTTTCTC
1 TCTTTTTTT-TC
529247 TCTTTTTTTTC
1 TCTTTTTTTTC
529258 T
1 T
529259 TCACTTGCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.77
Consensus pattern (11 bp):
TCTTTTTTTTC
Found at i:531464 original size:13 final size:13
Alignment explanation
Indices: 531429--531478 Score: 52
Period size: 13 Copynumber: 4.0 Consensus size: 13
531419 AATTGCACAT
531429 TTTTCTCTTTTTC
1 TTTTCTCTTTTTC
**
531442 -TTT-TAGTTTTC
1 TTTTCTCTTTTTC
531453 TTTTCTCTTTTTC
1 TTTTCTCTTTTTC
531466 TTTTGCT-TTTTTC
1 TTTT-CTCTTTTTC
531479 ACTTTTTACA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
11 6 0.20
12 6 0.20
13 16 0.53
14 2 0.07
ACGTcount: A:0.02, C:0.18, G:0.04, T:0.76
Consensus pattern (13 bp):
TTTTCTCTTTTTC
Found at i:533469 original size:13 final size:13
Alignment explanation
Indices: 533451--533476 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
533441 TACACAAAGT
533451 ATGTATCGATACA
1 ATGTATCGATACA
533464 ATGTATCGATACA
1 ATGTATCGATACA
533477 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:533474 original size:32 final size:33
Alignment explanation
Indices: 533433--533496 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
533423 TAGCCAAACT
**
533433 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
533465 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
533497 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:539837 original size:20 final size:20
Alignment explanation
Indices: 539794--539839 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
539784 AAATCTTTTG
539794 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
539815 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
539835 CAAAA
1 CAAAA
539840 CCAGCGTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:542270 original size:13 final size:13
Alignment explanation
Indices: 542252--542277 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
542242 TACACAAAGT
542252 ATGTATCGATACA
1 ATGTATCGATACA
542265 ATGTATCGATACA
1 ATGTATCGATACA
542278 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:542275 original size:32 final size:33
Alignment explanation
Indices: 542234--542297 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
542224 TAGCCAAACT
**
542234 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
542266 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
542298 TTGACTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:544577 original size:13 final size:13
Alignment explanation
Indices: 544559--544584 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
544549 ACATTTTGGG
544559 ATGTATCGATACA
1 ATGTATCGATACA
544572 ATGTATCGATACA
1 ATGTATCGATACA
544585 TATTGTGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:544579 original size:33 final size:32
Alignment explanation
Indices: 544537--544604 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 32
544527 CGTTACAAGC
*
544537 CAATGTATCGATACATTTTGGGATGTATCGATA
1 CAATGTATCGATACATATTGGG-TGTATCGATA
*
544570 CAATGTATCGATACATATTGTGTGTATCGATA
1 CAATGTATCGATACATATTGGGTGTATCGATA
544602 CAA
1 CAA
544605 ATTTGGCTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATACATATTGGGTGTATCGATA
Found at i:544683 original size:20 final size:21
Alignment explanation
Indices: 544636--544688 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
544626 GCCAATGACC
**
544636 TGTATCGATACATTCTTTTCA
1 TGTATCGATACATTCTGGTCA
*
544657 AGTATCGATACATT-TGGTCA
1 TGTATCGATACATTCTGGTCA
544677 TGTATCGATACA
1 TGTATCGATACA
544689 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTCTGGTCA
Found at i:544694 original size:13 final size:13
Alignment explanation
Indices: 544676--544700 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
544666 ACATTTGGTC
544676 ATGTATCGATACA
1 ATGTATCGATACA
544689 ATGTATCGATAC
1 ATGTATCGATAC
544701 TGTGCAATCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:546700 original size:22 final size:21
Alignment explanation
Indices: 546672--546721 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 21
546662 ACTGCTAGTG
**
546672 TGGGGGTTGCCCGGTTGCGACC
1 TGGGGGTTG-CCGGTCACGACC
546694 TGGGGG-TGCCGGTCACGACC
1 TGGGGGTTGCCGGTCACGACC
546714 TGGTGGGT
1 TGG-GGGT
546722 GTTGCCTAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 13 0.54
21 5 0.21
22 6 0.25
ACGTcount: A:0.06, C:0.24, G:0.48, T:0.22
Consensus pattern (21 bp):
TGGGGGTTGCCGGTCACGACC
Found at i:547014 original size:20 final size:21
Alignment explanation
Indices: 546985--547025 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
546975 TGTTTTTGTT
546985 GATGATTTTG-A-TGAAAAAC
1 GATGATTTTGAAGTGAAAAAC
547004 GATGTATTTTGAAGTGAAAAAC
1 GATG-ATTTTGAAGTGAAAAAC
547026 AAGAAATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 6 0.32
21 1 0.05
22 8 0.42
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.32
Consensus pattern (21 bp):
GATGATTTTGAAGTGAAAAAC
Found at i:547383 original size:8 final size:8
Alignment explanation
Indices: 547370--547403 Score: 68
Period size: 8 Copynumber: 4.2 Consensus size: 8
547360 AACATCATTC
547370 ATCACAAA
1 ATCACAAA
547378 ATCACAAA
1 ATCACAAA
547386 ATCACAAA
1 ATCACAAA
547394 ATCACAAA
1 ATCACAAA
547402 AT
1 AT
547404 TTAATCAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.62, C:0.24, G:0.00, T:0.15
Consensus pattern (8 bp):
ATCACAAA
Found at i:551104 original size:13 final size:13
Alignment explanation
Indices: 551086--551111 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
551076 ACATTTTGGG
551086 ATGTATCGATACA
1 ATGTATCGATACA
551099 ATGTATCGATACA
1 ATGTATCGATACA
551112 TATTGTGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:551128 original size:32 final size:33
Alignment explanation
Indices: 551064--551131 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
551054 CGTTAGAAGC
* *
551064 CAATGTATTGATACATTTTGGGATGTATCGATA
1 CAATGTATCGATACATATTGGGATGTATCGATA
*
551097 CAATGTATCGATACATATTGTG-TGTATCGATA
1 CAATGTATCGATACATATTGGGATGTATCGATA
551129 CAA
1 CAA
551132 ATTTGGCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (33 bp):
CAATGTATCGATACATATTGGGATGTATCGATA
Found at i:551190 original size:21 final size:21
Alignment explanation
Indices: 551164--551205 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
551154 CCAATGACCT
551164 GTATCGATACATTCTTTTCAA
1 GTATCGATACATTCTTTTCAA
551185 GTATCGATACATTCTTTTCAA
1 GTATCGATACATTCTTTTCAA
551206 CTACTGCCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.43
Consensus pattern (21 bp):
GTATCGATACATTCTTTTCAA
Done.