Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 133 of 349
Found at i:42323986 original size:37 final size:37
Alignment explanation
Indices: 42323923--42324068 Score: 238
Period size: 37 Copynumber: 3.9 Consensus size: 37
42323913 AGCTCAGATG
* * *
42323923 AAATCTCCACACGAAGTTATCTGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
42323960 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
42323997 TAATCTCCACACGTAGTCATCGGGTCTTACCTGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
42324034 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
42324069 AAATATTTCC
Statistics
Matches: 103, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 103 1.00
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:42324267 original size:48 final size:48
Alignment explanation
Indices: 42324209--42324500 Score: 512
Period size: 48 Copynumber: 6.0 Consensus size: 48
42324199 ATATACACAC
* *
42324209 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
42324257 ATCTCATACATAATTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
42324305 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
42324353 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
42324401 ATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
42324451 ATCTCATTCATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
42324499 AT
1 AT
42324501 ATTTATCTTG
Statistics
Matches: 233, Mismatches: 9, Indels: 4
0.95 0.04 0.02
Matches are distributed among these distances:
48 187 0.80
50 46 0.20
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:42328352 original size:30 final size:30
Alignment explanation
Indices: 42328318--42328378 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
42328308 TCCTTAACTC
42328318 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
42328348 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
42328378 A
1 A
42328379 GGCTCGAGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:42334377 original size:46 final size:44
Alignment explanation
Indices: 42334322--42334498 Score: 158
Period size: 46 Copynumber: 3.9 Consensus size: 44
42334312 ATGGTTGAGC
42334322 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
* * * * *** * *
42334366 ATGTCCAAACTCATTGAGTTGAGTTCAAGTTCGAGAGATGTAACTAG-GC
1 A--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGA
* *
42334415 ATCCGAGCTCGTTGAGTTGAGTCCGAGTACACTTATGGATGCGAA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-A
* *
42334460 CACCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
42334499 GCGGGTTACA
Statistics
Matches: 102, Mismatches: 22, Indels: 16
0.73 0.16 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 65 0.64
47 27 0.26
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.28
Consensus pattern (44 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
Found at i:42334490 original size:93 final size:93
Alignment explanation
Indices: 42334320--42334490 Score: 252
Period size: 93 Copynumber: 1.8 Consensus size: 93
42334310 GGATGGTTGA
* ***
42334320 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCAAACTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTACACTTATGGATGCGAACACCCAAACTCATTGAGT
*
42334385 TGAGTTCAAGTTCGAGAGATGTAACTAG
66 TGAGTCCAAGTTCGAGAGATGTAACTAG
* * * *
42334413 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTACACTTATGGATGCGAACACCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTACACTTATGGATGCGAACACCCAAACTCATTGAGT
*
42334478 TGAGTCCGAGTTC
66 TGAGTCCAAGTTC
42334491 ACTTATGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 68 1.00
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTACACTTATGGATGCGAACACCCAAACTCATTGAGT
TGAGTCCAAGTTCGAGAGATGTAACTAG
Found at i:42359428 original size:32 final size:32
Alignment explanation
Indices: 42359387--42359447 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
42359377 AGCCGTTGGG
42359387 AAGGAAATACTAGTTCATTTAATTCACCTACA
1 AAGGAAATACTAGTTCATTTAATTCACCTACA
42359419 AAGGAAATACTAGTTCATTTAATTCACCT
1 AAGGAAATACTAGTTCATTTAATTCACCT
42359448 GCAACATCGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (32 bp):
AAGGAAATACTAGTTCATTTAATTCACCTACA
Found at i:42365793 original size:44 final size:43
Alignment explanation
Indices: 42365745--42365862 Score: 121
Period size: 44 Copynumber: 2.7 Consensus size: 43
42365735 AAGGTTTAGC
*
42365745 CGAAGCTAGAACGATTCCGCACACTTAGTGCCATCACAATTAAT
1 CGAAGCTA-AACGATTCCGCACACTTAGTGCCATCAAAATTAAT
* * * * *
42365789 CGAAGCT-ATCTTGGTACTGCACACATAGTGCCATCAAAATTAAT
1 CGAAGCTAAAC--GATTCCGCACACTTAGTGCCATCAAAATTAAT
* * *
42365833 CGAAGCTATACCATTTCGCACACTTAGTGC
1 CGAAGCTAAACGATTCCGCACACTTAGTGC
42365863 TATTTATAGT
Statistics
Matches: 57, Mismatches: 14, Indels: 7
0.73 0.18 0.09
Matches are distributed among these distances:
42 2 0.04
43 13 0.23
44 41 0.72
45 1 0.02
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.25
Consensus pattern (43 bp):
CGAAGCTAAACGATTCCGCACACTTAGTGCCATCAAAATTAAT
Found at i:42377975 original size:46 final size:45
Alignment explanation
Indices: 42377925--42378100 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
42377915 ATGTTGAGCA
42377925 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
42377971 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
42378018 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
42378064 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
42378101 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:42378081 original size:93 final size:93
Alignment explanation
Indices: 42377922--42378092 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
42377912 AGGATGTTGA
* *
42377922 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
42377987 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* *
42378015 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
42378080 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
42378093 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:42381044 original size:15 final size:15
Alignment explanation
Indices: 42381024--42381087 Score: 89
Period size: 15 Copynumber: 4.4 Consensus size: 15
42381014 GTATCTTGGG
42381024 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
42381039 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
42381054 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
42381069 TTTCTTTATTC-GG-
1 TTTCTTTATTCTGGA
42381082 TTTCTT
1 TTTCTT
42381088 GTTATCTTTG
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
13 6 0.13
14 4 0.09
15 33 0.73
16 2 0.04
ACGTcount: A:0.11, C:0.16, G:0.12, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:42383523 original size:46 final size:45
Alignment explanation
Indices: 42383473--42383648 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
42383463 TGGTTGAGCA
42383473 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
42383519 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
42383566 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
42383612 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
42383649 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:42383629 original size:93 final size:93
Alignment explanation
Indices: 42383470--42383640 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
42383460 GGATGGTTGA
* *
42383470 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
42383535 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* *
42383563 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
42383628 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
42383641 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:42387663 original size:25 final size:24
Alignment explanation
Indices: 42387611--42387663 Score: 56
Period size: 25 Copynumber: 2.2 Consensus size: 24
42387601 TGCACGAAAT
*
42387611 TATTCTGAAGAAAGTACATGAGCC
1 TATTCTCAAGAAAGTACATGAGCC
*
42387635 -ATTCTCAAGCAATAGTAGATGA-CC
1 TATTCTCAAG-AA-AGTACATGAGCC
42387659 TATTC
1 TATTC
42387664 ATGATGAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
23 8 0.33
24 4 0.17
25 12 0.50
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (24 bp):
TATTCTCAAGAAAGTACATGAGCC
Found at i:42388778 original size:20 final size:20
Alignment explanation
Indices: 42388735--42388780 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
42388725 AAAATAATCT
* *
42388735 TCATTTTTCTCATTTTACTT
1 TCATTTTGCTCATTTTACTA
42388755 TCATTTTGCTCATTATT-CTA
1 TCATTTTGCTCATT-TTACTA
42388775 TCATTT
1 TCATTT
42388781 AATTTGCATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 21 0.91
21 2 0.09
ACGTcount: A:0.17, C:0.20, G:0.02, T:0.61
Consensus pattern (20 bp):
TCATTTTGCTCATTTTACTA
Found at i:42392311 original size:13 final size:13
Alignment explanation
Indices: 42392293--42392320 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
42392283 GAAGCACAAC
42392293 TCACACGGGCGTG
1 TCACACGGGCGTG
42392306 TCACACGGGCGTG
1 TCACACGGGCGTG
42392319 TC
1 TC
42392321 CCTACCGAGC
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:0.14, C:0.32, G:0.36, T:0.18
Consensus pattern (13 bp):
TCACACGGGCGTG
Found at i:42394215 original size:55 final size:55
Alignment explanation
Indices: 42394155--42394270 Score: 133
Period size: 55 Copynumber: 2.1 Consensus size: 55
42394145 CTGCCAAAAC
* * ** *
42394155 AACACGAGCGTGCGACACGCCCGTGCCTGGAAATCATGGTCTAACCTGTCAAATT
1 AACACGAGCGTACGACACGACCGTGCCAAGAAATCATGGTCGAACCTGTCAAATT
* * * * * *
42394210 AACACGGGCGTACGACATGACCGTGCCAAGTACTCGTGGTCGAACCTGTTAAATT
1 AACACGAGCGTACGACACGACCGTGCCAAGAAATCATGGTCGAACCTGTCAAATT
42394265 AACACG
1 AACACG
42394271 GGTGTGGGCC
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.20
Consensus pattern (55 bp):
AACACGAGCGTACGACACGACCGTGCCAAGAAATCATGGTCGAACCTGTCAAATT
Found at i:42394800 original size:23 final size:23
Alignment explanation
Indices: 42394774--42394820 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
42394764 TATTCTATTG
*
42394774 TCATACCCATGCCATTACTATGC
1 TCATACCCATGCCATTACCATGC
* * *
42394797 TCATTCTCATGCTATTACCATGC
1 TCATACCCATGCCATTACCATGC
42394820 T
1 T
42394821 AATATCATGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.23, C:0.32, G:0.09, T:0.36
Consensus pattern (23 bp):
TCATACCCATGCCATTACCATGC
Found at i:42399736 original size:40 final size:40
Alignment explanation
Indices: 42399638--42399807 Score: 225
Period size: 40 Copynumber: 4.3 Consensus size: 40
42399628 TCCTCGTTCA
* * * *
42399638 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
42399677 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
* *
42399717 AATGCCTTCGAGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
* * * *
42399757 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
42399797 AAGGCCTTCGG
1 AATGCCTTCGG
42399808 ATCTTAGTCC
Statistics
Matches: 117, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 34 0.29
40 83 0.71
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
Found at i:42399739 original size:79 final size:80
Alignment explanation
Indices: 42399638--42399784 Score: 224
Period size: 79 Copynumber: 1.9 Consensus size: 80
42399628 TCCTCGTTCA
* * * *
42399638 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGGGACATAACCCGGAT
1 AATGCCTTCGAGACATAACCCGGATTTAATAACTCACACGAATGCCTTCGGGACATAACCCGGAT
42399702 TTAACAACTCGCACG
66 TTAACAACTCGCACG
* * *
42399717 AATGCCTTCGAGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGAGACATAACCCGGATTTAATAACTCACACGAATGCCTTCGGGACATAACCCGGAT
42399782 TTA
66 TTA
42399785 GTATCTCGCA
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
79 33 0.55
80 27 0.45
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGAGACATAACCCGGATTTAATAACTCACACGAATGCCTTCGGGACATAACCCGGAT
TTAACAACTCGCACG
Found at i:42399820 original size:40 final size:38
Alignment explanation
Indices: 42399636--42399859 Score: 182
Period size: 40 Copynumber: 5.7 Consensus size: 38
42399626 GCTCCTCGTT
* * * * *
42399636 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTC-GGACTTAACCCGGATTTAAT-ACTCGCA
* *
42399676 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTC-GGACTTAACCCGGATTTAA-TACTCGCA
*
42399715 CGAATGCCTTCGAGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCG-GACTTAACCCGGATTTAAT-ACTCGCA
* *
42399755 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTC-GGACTTAACCCGGATTTAATA-CTCGCA
* ** * * *
42399795 CAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAACCCGGATTTAAT-AC-TCGCA
*
42399836 CAAA-GCCTTCGGACTTAGCCCGGA
1 CAAATGCCTTCGGACTTAACCCGGA
42399860 CAGCATTCAA
Statistics
Matches: 159, Mismatches: 16, Indels: 19
0.82 0.08 0.10
Matches are distributed among these distances:
39 48 0.30
40 101 0.64
41 10 0.06
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (38 bp):
CAAATGCCTTCGGACTTAACCCGGATTTAATACTCGCA
Found at i:42399844 original size:80 final size:79
Alignment explanation
Indices: 42399674--42399859 Score: 205
Period size: 80 Copynumber: 2.3 Consensus size: 79
42399664 TAGTAACTCA
* * *
42399674 CACAATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATGCCTTCGAGACTTAACCCG
1 CACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGAGACTTAACCCG
* *
42399739 GATTTAATAACTCG
66 GATATAATAACTAG
** * **
42399753 CACGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCG-GATCTTAGTC
1 CAC-AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGAGA-CTTAACC
* *
42399817 CGGATATATTCACTTAG
64 CGGATATAATAAC-TAG
* *
42399834 CACAAAGCCTTC-GGACTTAGCCCGGA
1 CACAATGCCTTCGGGACTTAACCCGGA
42399860 CAGCATTCAA
Statistics
Matches: 90, Mismatches: 14, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
79 18 0.20
80 67 0.74
81 5 0.06
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (79 bp):
CACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGAGACTTAACCCG
GATATAATAACTAG
Found at i:42399868 original size:40 final size:41
Alignment explanation
Indices: 42399792--42399868 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 41
42399782 TTAGTATCTC
* * *
42399792 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
42399833 GCACAAA-GCCTTCGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACA-CATTCA
42399869 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
39 11 0.34
40 14 0.44
41 7 0.22
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:42401748 original size:12 final size:13
Alignment explanation
Indices: 42401712--42401749 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
42401702 AAATATTTGG
42401712 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
42401725 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
42401739 CTTG-TCTTAAT
1 CTTGTTCTTAAT
42401750 ATTCCAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:42402763 original size:27 final size:27
Alignment explanation
Indices: 42402733--42402784 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
42402723 CAGTAACAGT
*
42402733 TGGGCCTAGACC-ATTAACAGAATCAGC
1 TGGGCCTAAACCTATT-ACAGAATCAGC
42402760 TGGGCCTAAACCTATTACAGAATCA
1 TGGGCCTAAACCTATTACAGAATCA
42402785 ATATCAGATG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 20 0.87
28 3 0.13
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (27 bp):
TGGGCCTAAACCTATTACAGAATCAGC
Found at i:42406393 original size:22 final size:22
Alignment explanation
Indices: 42406354--42406396 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
42406344 AATAGAACGA
42406354 CTCAACACCATAGACAGGACGG
1 CTCAACACCATAGACAGGACGG
* * *
42406376 CTCAACGCCGTAGGCAGGACG
1 CTCAACACCATAGACAGGACG
42406397 ACTAAAGGCC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.30, C:0.33, G:0.28, T:0.09
Consensus pattern (22 bp):
CTCAACACCATAGACAGGACGG
Found at i:42406407 original size:22 final size:22
Alignment explanation
Indices: 42406350--42406409 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
42406340 AGTCAATAGA
* * * *
42406350 ACGACTCAACACCATAGACAGG
1 ACGACTAAACGCCGTAGGCAGG
* *
42406372 ACGGCTCAACGCCGTAGGCAGG
1 ACGACTAAACGCCGTAGGCAGG
*
42406394 ACGACTAAAGGCCGTA
1 ACGACTAAACGCCGTA
42406410 AATATCGCAG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.33, C:0.30, G:0.27, T:0.10
Consensus pattern (22 bp):
ACGACTAAACGCCGTAGGCAGG
Found at i:42415952 original size:48 final size:48
Alignment explanation
Indices: 42415864--42415990 Score: 166
Period size: 48 Copynumber: 2.7 Consensus size: 48
42415854 TACCACGGTT
* * * * *
42415864 ATACGTGTAACATGGTGCTAAGTGGGTATACCAAGATTACACATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACACATATTG
* *
42415912 ATACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACACATATTG
* *
42415960 ATTCAT-CAACGTGGTGCTAAGTGGATATACC
1 ATACATGTAACGTGGTGCTAAGTGGATATACC
42415991 GTGGTTAAAC
Statistics
Matches: 69, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
47 23 0.33
48 46 0.67
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.30
Consensus pattern (48 bp):
ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACACATATTG
Found at i:42416035 original size:38 final size:38
Alignment explanation
Indices: 42415967--42416042 Score: 116
Period size: 38 Copynumber: 2.0 Consensus size: 38
42415957 TTGATTCATC
**
42415967 AACGTGGTGCTAAGTGGATATACCGTGGTTAAACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTAAACATGT
* *
42416005 AACGTGGTGCTAAGTGGATATGCCACGGTTATACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTAAACATGT
42416043 TAATTTGAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.29
Consensus pattern (38 bp):
AACGTGGTGCTAAGTGGATATACCACGGTTAAACATGT
Found at i:42419771 original size:68 final size:68
Alignment explanation
Indices: 42419679--42419836 Score: 271
Period size: 68 Copynumber: 2.3 Consensus size: 68
42419669 TTCACTTGGA
* *
42419679 ATCACTCATGCGACCTAGCTACATTTATCTCTCACATAGCTCTCTTGTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATTTATCTCTCACATAGCTCTCTTGTCTACATGGGATACATCC
42419744 CGC
66 CGC
*
42419747 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATTTATCTCTCACATAGCTCTCTTGTCTACATGGGATACATCC
*
42419812 CGT
66 CGC
*
42419815 ATCACACATGTGACCAAGCTAC
1 ATCACACATGTGACCTAGCTAC
42419837 TATATAGTAT
Statistics
Matches: 85, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
68 85 1.00
ACGTcount: A:0.25, C:0.31, G:0.14, T:0.30
Consensus pattern (68 bp):
ATCACACATGTGACCTAGCTACATTTATCTCTCACATAGCTCTCTTGTCTACATGGGATACATCC
CGC
Found at i:42422359 original size:47 final size:45
Alignment explanation
Indices: 42422159--42422522 Score: 243
Period size: 47 Copynumber: 7.8 Consensus size: 45
42422149 TGGGTTATAT
**
42422159 TGCCGATGCCATGTCTCC-GACATGGTCTTACACTGGCTCTCATATACGCG
1 TGCCGATG-CATGTC-CCAGACAT-GTCTTACACTGGCTCTC--AT-CTTG
** * * * *
42422209 TGATGATGCATGTCCCAGACATGTCTTACACTAG--CACAACTTT
1 TGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTTG
* * * *
42422252 TAGCCGATGCGTGTCCCAGACACGTCTTACACTGGCTATC-TGTGTCG
1 T-GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCT-T-G
* * * *
42422299 AGGCTGATGCATGTCCCAGACATGTCTTACATTGGCACTCATCTCTG
1 -TGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCT-TG
* * *
42422346 TGCCGATGCCATGTCCCAGAGATGGTCTTACACTGGCTGTCATAGTATG
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-CT-TG
* * * * * *
42422395 -GCTGATGCATGTCCCAAACATGTCTTACACTAGCCCTCGTCTGG
1 TGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTTG
* * **
42422439 ATGCCAATGCCATGTCCCAGACAATGTCTTACACTGGCTCCCATAATG
1 -TGCCGATG-CATGTCCCAGAC-ATGTCTTACACTGGCTCTCATCTTG
* *
42422487 TGGACGAAGCATGTCCCAGACATGTCTTACACTGGC
1 T-GCCGATGCATGTCCCAGACATGTCTTACACTGGC
42422523 GCACAAATCA
Statistics
Matches: 241, Mismatches: 57, Indels: 36
0.72 0.17 0.11
Matches are distributed among these distances:
43 2 0.01
44 30 0.12
45 2 0.01
46 45 0.19
47 82 0.34
48 60 0.25
49 14 0.06
50 6 0.02
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (45 bp):
TGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTTG
Found at i:42422416 original size:94 final size:93
Alignment explanation
Indices: 42422159--42422519 Score: 355
Period size: 94 Copynumber: 3.9 Consensus size: 93
42422149 TGGGTTATAT
* *
42422159 TGCCGATGCCATGTCTCC-GACATGGTCTTACACTGGCTCTCATA-TACGCGTGATGATGCATGT
1 TGCCGATGCCATGTC-CCAGACATGGTCTTACACTGGCTCTCATAGTA--TG-GCTGATGCATGT
* *
42422222 CCCAGACATGTCTTACACTAGCA--CAACTTT
62 CCCAGACATGTCTTACACTAGCACTCATCTTG
* * * *
42422252 TAGCCGATG-CGTGTCCCAGACA-CGTCTTACACTGGCTATC-T-GTGTCGAGGCTGATGCATGT
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAGTAT---GGCTGATGCATGT
* *
42422313 CCCAGACATGTCTTACATTGGCACTCATCTCTG
62 CCCAGACATGTCTTACACTAGCACTCATCT-TG
* *
42422346 TGCCGATGCCATGTCCCAGAGATGGTCTTACACTGGCTGTCATAGTATGGCTGATGCATGTCCCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAGTATGGCTGATGCATGTCCCA
* * * *
42422411 AACATGTCTTACACTAGCCCTCGTCTGG
66 GACATGTCTTACACTAGCACTCATCTTG
* * * * *
42422439 ATGCCAATGCCATGTCCCAGACAAT-GTCTTACACTGGCTCCCATAATGTGGAC-GAAGCATGTC
1 -TGCCGATGCCATGTCCCAGAC-ATGGTCTTACACTGGCTCTCATAGTATGG-CTGATGCATGTC
42422502 CCAGACATGTCTTACACT
63 CCAGACATGTCTTACACT
42422520 GGCGCACAAA
Statistics
Matches: 223, Mismatches: 29, Indels: 31
0.79 0.10 0.11
Matches are distributed among these distances:
91 34 0.15
92 19 0.09
93 22 0.10
94 125 0.56
95 19 0.09
96 1 0.00
97 3 0.01
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (93 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAGTATGGCTGATGCATGTCCCA
GACATGTCTTACACTAGCACTCATCTTG
Found at i:42427459 original size:43 final size:43
Alignment explanation
Indices: 42427410--42427574 Score: 158
Period size: 43 Copynumber: 3.9 Consensus size: 43
42427400 ATTAACAAGA
* *
42427410 TGTGATTACATGTAAGACCATGTCTGTGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * *
42427453 TGTGATTACATATAAGATCATGCCTGGGACATTGGCATCGT-T
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * * * * *
42427495 ATATGATTTCGTGTAAGACCCTGTCTAGGACAATGGCATCG-AT
1 -TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * *
42427538 GGTG-TTAACATGTAAGACCATATCTGGGATA-TGGCAT
1 TGTGATT-ACATGTAAGACCATGTCTGGGACATTGGCAT
42427575 TGTACGAGCT
Statistics
Matches: 97, Mismatches: 22, Indels: 8
0.76 0.17 0.06
Matches are distributed among these distances:
41 8 0.08
42 21 0.22
43 68 0.70
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
Found at i:42435195 original size:43 final size:44
Alignment explanation
Indices: 42435145--42435315 Score: 170
Period size: 43 Copynumber: 4.0 Consensus size: 44
42435135 GATTACCGAG
* *
42435145 ATGTGATTACATGTAAGACCGTGTCTGTGACATTGGCATTGTAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* * * *
42435189 -TGTGATTACGTGTAAGACCATGCCTGGGGCATTGGCATCGT-T
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* * * * * *
42435231 ATATGATTTCGTGTAAGACCCTGTCTAGGACAGTGGCATTG-AT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* * * *
42435274 AGGTGATAACATGTAAGACCATATCTGGGATA-TGGCATTGTA
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTA
42435316 CGAGCTTTAT
Statistics
Matches: 101, Mismatches: 23, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
42 9 0.09
43 92 0.91
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.32
Consensus pattern (44 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
Found at i:42442146 original size:40 final size:40
Alignment explanation
Indices: 42442046--42442310 Score: 252
Period size: 40 Copynumber: 6.7 Consensus size: 40
42442036 GCTCCTCGTT
* * * *
42442046 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
42442086 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
42442125 CGAATGCCTTTGGGACTTAACCCGGTTTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
42442165 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
* *
42442205 CAAATGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
42442245 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
42442286 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
42442311 CAGCATTCAA
Statistics
Matches: 193, Mismatches: 26, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
39 39 0.20
40 140 0.73
41 14 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:42442319 original size:41 final size:41
Alignment explanation
Indices: 42442242--42442319 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
42442232 TTTGTATCTC
* * *
42442242 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
42442283 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
42442320 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:42450071 original size:40 final size:40
Alignment explanation
Indices: 42449971--42450233 Score: 263
Period size: 39 Copynumber: 6.7 Consensus size: 40
42449961 GCTCCTCGTT
* * * * *
42449971 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
* ** *
42450011 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
* *
42450050 CGAATGCCTTCGGGACTTAACCCGGTTTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
*
42450090 CAAAGGCCTTCGGG-CTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTATCTCGCA
42450129 CAAATGCCTTCGGG-CTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTATCTCGCA
** * * *
42450168 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGT-ATC-TCGCA
*
42450209 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
42450234 CAGCATTCAA
Statistics
Matches: 195, Mismatches: 20, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
38 2 0.01
39 106 0.54
40 75 0.38
41 12 0.06
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
Found at i:42450074 original size:79 final size:79
Alignment explanation
Indices: 42449971--42450180 Score: 266
Period size: 79 Copynumber: 2.7 Consensus size: 79
42449961 GCTCCTCGTT
* * * *
42449971 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGGGACATAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGTTTTAGTATCTCGCACAAATGCCTTCGGG-CATAACCCGG
42450035 -ATTTAACAACTCGCA
65 AATTT-ACAACTCGCA
* * *
42450050 CGAATGCCTTCGGGACTTAACCCGGTTTTAGTATCTCGCACAAAGGCCTTCGGGCTTAACCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGTTTTAGTATCTCGCACAAATGCCTTCGGGCATAACCCGGA
** *
42450115 ATTTGTATCTCGCA
66 ATTTACAACTCGCA
*
42450129 CAAATGCCTTCGGG-CTTAACCCGGAATTT-GTATCTCGCACAAATGCCTTCGG
1 CAAATGCCTTCGGGACTTAACCCGG-TTTTAGTATCTCGCACAAATGCCTTCGG
42450181 ATCTTAGTCC
Statistics
Matches: 115, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
78 32 0.28
79 68 0.59
80 15 0.13
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAACCCGGTTTTAGTATCTCGCACAAATGCCTTCGGGCATAACCCGGA
ATTTACAACTCGCA
Found at i:42450242 original size:41 final size:41
Alignment explanation
Indices: 42450165--42450242 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
42450155 TTTGTATCTC
* * *
42450165 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
42450206 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
42450243 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:42452686 original size:58 final size:56
Alignment explanation
Indices: 42452537--42452687 Score: 155
Period size: 57 Copynumber: 2.6 Consensus size: 56
42452527 ACCGTATAAC
* * * *
42452537 AGGACTACTAGTCCAGGCTAAATCCTTTATATAACGTATGCTCAGAGGAGCTTGATT
1 AGGATTACCAGTCCAGGCTAAATCCTTTCTATAACATATGCTCAGAGGA-CTTGATT
** *
42452594 AGGATTACCAGTCCAGGCTAAATCCTAACCATAACATATGCTCGAGAGGTA-TT-ATAT
1 AGGATTACCAGTCCAGGCTAAATCCTTTCTATAACATATGCTC-AGAGG-ACTTGAT-T
*
42452651 CAGGATTACCCA-TCCGGGCTAAATCCTTTCTATAACA
1 -AGGATTA-CCAGTCCAGGCTAAATCCTTTCTATAACA
42452688 AGGTCAATGT
Statistics
Matches: 78, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
56 2 0.03
57 39 0.50
58 33 0.42
59 4 0.05
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.28
Consensus pattern (56 bp):
AGGATTACCAGTCCAGGCTAAATCCTTTCTATAACATATGCTCAGAGGACTTGATT
Found at i:42453257 original size:20 final size:20
Alignment explanation
Indices: 42453228--42453272 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
42453218 AACACATATA
* *
42453228 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
42453248 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
42453268 TTCAT
1 TTCAT
42453273 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:42463605 original size:20 final size:20
Alignment explanation
Indices: 42463577--42463622 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
42463567 TCGAGATCAA
*
42463577 CTCTGCTTCCATCTCTCCCT
1 CTCTTCTTCCATCTCTCCCT
42463597 CTCTTCTTCCATCTCTCCCT
1 CTCTTCTTCCATCTCTCCCT
42463617 CTCTTC
1 CTCTTC
42463623 CTAGGTAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.04, C:0.50, G:0.02, T:0.43
Consensus pattern (20 bp):
CTCTTCTTCCATCTCTCCCT
Found at i:42469118 original size:16 final size:17
Alignment explanation
Indices: 42469097--42469130 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
42469087 AATAATAAGG
*
42469097 GCAAAAGTGT-AATTTT
1 GCAAAAGTATGAATTTT
42469113 GCAAAAGTATGAATTTT
1 GCAAAAGTATGAATTTT
42469130 G
1 G
42469131 GGCTGAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.38, C:0.06, G:0.21, T:0.35
Consensus pattern (17 bp):
GCAAAAGTATGAATTTT
Found at i:42478847 original size:39 final size:40
Alignment explanation
Indices: 42478793--42479048 Score: 335
Period size: 40 Copynumber: 6.5 Consensus size: 40
42478783 AAACCAAGTA
* * * *
42478793 CCTTCGGAATTTAG-CCGGATATAGCT-ACTTGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
42478832 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAGTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
42478872 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
42478912 CCTTTGGGACTTAGCCCGGTTACAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
42478952 CCTTC-GGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
42478991 CCTTCGGG-CTTAGCCCGGA-ATTAGTCAC-CAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTC-GCACAAATG
*
42479030 ACTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
42479049 TTATCATCCG
Statistics
Matches: 197, Mismatches: 14, Indels: 11
0.89 0.06 0.05
Matches are distributed among these distances:
38 2 0.01
39 83 0.42
40 112 0.57
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:42478874 original size:40 final size:40
Alignment explanation
Indices: 42478826--42479052 Score: 345
Period size: 40 Copynumber: 5.7 Consensus size: 40
42478816 GCTACTTGCT
42478826 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
42478866 CAAGTGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
42478906 CAAATGCCTTTGGGACTTAGCCCGGTTACAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
42478946 CAAATGCCTTC-GGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
42478985 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCAC-CAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTC-GCA
*
42479024 CAAATGACTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
42479053 CATCCGAATA
Statistics
Matches: 171, Mismatches: 11, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
38 2 0.01
39 69 0.40
40 99 0.58
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:42487027 original size:40 final size:40
Alignment explanation
Indices: 42486931--42487157 Score: 343
Period size: 40 Copynumber: 5.7 Consensus size: 40
42486921 GCTACTTGCT
*
42486931 CAAATGCCTTCGGGACTTAGCCCGGTTCTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
42486971 C-AATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
42487010 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
42487050 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * **
42487090 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTATCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* *
42487129 CAAATGACTTCGGGACTTTGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
42487158 CATCCGAATA
Statistics
Matches: 172, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
38 1 0.01
39 70 0.41
40 100 0.58
41 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:42487028 original size:79 final size:79
Alignment explanation
Indices: 42486931--42487157 Score: 341
Period size: 79 Copynumber: 2.9 Consensus size: 79
42486921 GCTACTTGCT
*
42486931 CAAATGCCTTCGGGACTTAGCCCGGTTCTAGTAACTCGCAC-AATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGTT-TAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
42486995 TTATAGTAACTCGCA
65 TTATAGTAACTCGCA
*
42487010 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGTT-TAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
*
42487075 ATATAGTAACTCGCA
65 TTATAGTAACTCGCA
* * * * *
42487090 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTCACTATCACAAATGACTTCGGGACTTTGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG-TTTAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
42487154 TTAT
65 TTAT
42487158 CATCCGAATA
Statistics
Matches: 136, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
79 84 0.62
80 52 0.38
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTTAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGT
TATAGTAACTCGCA
Found at i:42487131 original size:119 final size:119
Alignment explanation
Indices: 42486898--42487157 Score: 357
Period size: 119 Copynumber: 2.2 Consensus size: 119
42486888 AAACCAAGTA
* * * * * *
42486898 CCTTCGGAATTTAG-CCGGATATAGCTACTTGCTCAAATGCCTTCGGGACTTAGCCCGGTTCTAG
1 CCTTCGGGACTTAGCCCGGTTATAGCTACTTGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
* *
42486962 TAACTCGCACAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
66 TAACTCGCACAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
42487016 CCTTCGGGACTTAGCCCGGTTATAG-TAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGTTATAGCT-ACTTGCACAAATGCCTTCGGGACTTAGCCCGGATATA
* *
42487080 GTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTCACTATCACAAATG
65 GTAACTCGCAC-AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTAGCACAAATG
* *
42487135 ACTTCGGGACTTTGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
42487158 CATCCGAATA
Statistics
Matches: 126, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
118 14 0.11
119 100 0.79
120 12 0.10
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (119 bp):
CCTTCGGGACTTAGCCCGGTTATAGCTACTTGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TAACTCGCACAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:42495811 original size:25 final size:25
Alignment explanation
Indices: 42495783--42495858 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
42495773 ATATATATGC
42495783 ATGATAAGGCCGAATGGCCAATGTG
1 ATGATAAGGCCGAATGGCCAATGTG
* * **
42495808 ATGA-ATGTG--AACAT-GCGTATGTG
1 ATGATAAG-GCCGA-ATGGCCAATGTG
42495831 -TGATAAGGCCGAATGGCCAATGTG
1 ATGATAAGGCCGAATGGCCAATGTG
42495855 ATGA
1 ATGA
42495859 ATGTGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 4 0.11
23 12 0.33
24 12 0.33
25 8 0.22
ACGTcount: A:0.32, C:0.13, G:0.32, T:0.24
Consensus pattern (25 bp):
ATGATAAGGCCGAATGGCCAATGTG
Found at i:42495829 original size:23 final size:23
Alignment explanation
Indices: 42495803--42495877 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
42495793 CGAATGGCCA
42495803 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
* * **
42495826 ATGTG-TGATAAG-G-CCGAATGGCCA
1 ATGTGATGA-ATGTGAAC--AT-GCGT
42495850 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
42495873 ATGTG
1 ATGTG
42495878 TGATAAGGCC
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
21 1 0.03
22 4 0.11
23 16 0.43
24 11 0.30
25 4 0.11
26 1 0.03
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.28
Consensus pattern (23 bp):
ATGTGATGAATGTGAACATGCGT
Found at i:42495903 original size:22 final size:22
Alignment explanation
Indices: 42495876--42495950 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
42495866 CATGCGTATG
42495876 TGTGATAAGGCCGAATAGCCAA
1 TGTGATAAGGCCGAATAGCCAA
* * * *
42495898 TGTGATGAATG-TGAACATGCATATA
1 TGTGAT-AAGGCCGAATA-GC-CA-A
*
42495923 TGAGATAAGGCCGAATAGCCAA
1 TGTGATAAGGCCGAATAGCCAA
42495945 TGTGAT
1 TGTGAT
42495951 GAATGTGAAC
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 16 0.42
23 6 0.16
24 6 0.16
25 10 0.26
ACGTcount: A:0.36, C:0.13, G:0.27, T:0.24
Consensus pattern (22 bp):
TGTGATAAGGCCGAATAGCCAA
Found at i:42495985 original size:47 final size:47
Alignment explanation
Indices: 42495705--42495993 Score: 371
Period size: 47 Copynumber: 6.1 Consensus size: 47
42495695 TTAGGATTTT
** * * *
42495705 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
42495752 ATGTGATGAATGTGAACCTGTATATATATGCATGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATG--CATATATG--TGATAAGGCCGAATGGCCA
* *
42495803 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
42495850 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATAGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
42495897 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATAGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * ** *
42495944 ATGTGATGAATGTGAACATGTATATATGTGGTAAGAACGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
42495991 ATG
1 ATG
42495994 CGAAATGTGT
Statistics
Matches: 219, Mismatches: 19, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
47 170 0.78
49 13 0.06
51 36 0.16
ACGTcount: A:0.34, C:0.11, G:0.28, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:42496023 original size:46 final size:46
Alignment explanation
Indices: 42495967--42496102 Score: 184
Period size: 46 Copynumber: 3.0 Consensus size: 46
42495957 GAACATGTAT
*
42495967 ATATGTGGT-AAGAACGAATGGCTAATGCGAAATGTGTATGAGATAG
1 ATATGTGGTAAAG-CCGAATGGCTAATGCGAAATGTGTATGAGATAG
* * *
42496013 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
* * * *
42496059 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGAT
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGAT
42496103 GTGTATATAT
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
46 76 0.96
47 3 0.04
ACGTcount: A:0.36, C:0.08, G:0.30, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
Found at i:42502727 original size:37 final size:37
Alignment explanation
Indices: 42502677--42502755 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
42502667 TTATTACGAA
* *
42502677 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
42502714 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
42502751 GTCTT
1 GTCTT
42502756 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:42502952 original size:47 final size:47
Alignment explanation
Indices: 42502874--42503149 Score: 347
Period size: 47 Copynumber: 5.6 Consensus size: 47
42502864 CCCTTCGGGA
* * * *
42502874 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTT-GGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCA-TTAGGC
* *
42502921 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
42502968 CTTATCACATATCACATATATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 C---T----TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
42503022 CTTATCACATATATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
42503069 CTTATCACATATATACACTCTCACATTCATCACGTCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
42503116 CTTATCACATATATATATACACTTTCACATTCAT
1 CTTATCAC----ATATATACACTTTCACATTCAT
42503150 TCAAATATAC
Statistics
Matches: 204, Mismatches: 13, Indels: 20
0.86 0.05 0.08
Matches are distributed among these distances:
46 2 0.01
47 136 0.67
51 22 0.11
54 44 0.22
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:42503008 original size:25 final size:25
Alignment explanation
Indices: 42502925--42503009 Score: 68
Period size: 25 Copynumber: 3.2 Consensus size: 25
42502915 CTTGGCCCTG
*
42502925 TCACATATATACACTTTCACATTCA
1 TCACATATATACGCTTTCACATTCA
*
42502950 TCACATCGGCCAT-TAGGCCTTATCACA-T-A
1 TCACAT-----ATATACG-CTT-TCACATTCA
42502979 TCACATATATACGCTTTCACATTCA
1 TCACATATATACGCTTTCACATTCA
42503004 TCACAT
1 TCACAT
42503010 CGGCCATTAG
Statistics
Matches: 47, Mismatches: 3, Indels: 20
0.67 0.04 0.29
Matches are distributed among these distances:
23 5 0.11
24 6 0.13
25 16 0.34
29 9 0.19
30 6 0.13
31 5 0.11
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.33
Consensus pattern (25 bp):
TCACATATATACGCTTTCACATTCA
Found at i:42506610 original size:40 final size:40
Alignment explanation
Indices: 42506565--42506760 Score: 189
Period size: 40 Copynumber: 4.9 Consensus size: 40
42506555 CGAATACACG
* * * *
42506565 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA
1 TCACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATATA
* * *** *
42506605 ACACCAGCACGAATGCTCTTTGGGGTTTAGCACGGATATA
1 TCACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATATA
* * *
42506645 TCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
1 TCACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATATA
* * *
42506685 TCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATATGG
1 TCACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATAT-A
* * *
42506726 TCACTTAGCAC-AAAGC-CTTCGGGACTTAGCCCGGA
1 TCAC-CAGCACGAATGCTCTTCGGAACTTAGCCCGGA
42506761 CATCATTCAA
Statistics
Matches: 132, Mismatches: 22, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
40 118 0.89
41 8 0.06
42 6 0.05
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
TCACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATATA
Found at i:42506721 original size:80 final size:81
Alignment explanation
Indices: 42506578--42506760 Score: 212
Period size: 80 Copynumber: 2.3 Consensus size: 81
42506568 CCAGCATGAT
* * * ***
42506578 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTTGGGGTTTAGCACGGATA
1 TGCTCTTCGGGACTTAGCCCGGATACAACACCAGCACGAATGCTCTTCGGAACTTAGCACGGATA
42506643 T-ATCAC-TAGCACGAA
66 TGATCACTTAGCAC-AA
* * * *
42506658 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTC-CGGAT
1 TGCTCTTCGGGACTTAGCCCGGATACAACACCAGCACGAATGCTCTTCGGAACTTAG-CACGGAT
*
42506722 ATGGTCACTTAGCACAA
65 ATGATCACTTAGCACAA
*
42506739 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
42506761 CATCATTCAA
Statistics
Matches: 86, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
80 71 0.83
81 9 0.10
82 6 0.07
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
TGCTCTTCGGGACTTAGCCCGGATACAACACCAGCACGAATGCTCTTCGGAACTTAGCACGGATA
TGATCACTTAGCACAA
Found at i:42507105 original size:29 final size:29
Alignment explanation
Indices: 42507066--42507144 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
42507056 CTTAATAATC
*
42507066 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
42507096 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
42507125 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
42507145 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:42507187 original size:43 final size:43
Alignment explanation
Indices: 42507126--42507228 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
42507116 TGCATTTCAA
42507126 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
42507169 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
42507212 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
42507229 TGAAAACCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:42509144 original size:37 final size:37
Alignment explanation
Indices: 42509094--42509172 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
42509084 TTATTACGAA
* *
42509094 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
42509131 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
42509168 GTCTT
1 GTCTT
42509173 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:42509369 original size:47 final size:47
Alignment explanation
Indices: 42509291--42509566 Score: 345
Period size: 47 Copynumber: 5.6 Consensus size: 47
42509281 CCCTTCGGGA
* * * * * *
42509291 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
42509338 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
42509385 CTTATCACATATCACATATATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 C---T----TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
42509439 CTTATCACATATATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
42509486 CTTATCACATATATACACTCTCACATTCATCACGTCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
42509533 CTTATCACATATATATATACACTTTCACATTCAT
1 CTTATCAC----ATATATACACTTTCACATTCAT
42509567 TCAAATATAC
Statistics
Matches: 203, Mismatches: 15, Indels: 18
0.86 0.06 0.08
Matches are distributed among these distances:
47 137 0.67
51 22 0.11
54 44 0.22
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:42509425 original size:25 final size:25
Alignment explanation
Indices: 42509342--42509426 Score: 68
Period size: 25 Copynumber: 3.2 Consensus size: 25
42509332 CTCGGCCCTG
*
42509342 TCACATATATACACTTTCACATTCA
1 TCACATATATACGCTTTCACATTCA
*
42509367 TCACATCGGCCAT-TAGGCCTTATCACA-T-A
1 TCACAT-----ATATACG-CTT-TCACATTCA
42509396 TCACATATATACGCTTTCACATTCA
1 TCACATATATACGCTTTCACATTCA
42509421 TCACAT
1 TCACAT
42509427 CGGCCATTAG
Statistics
Matches: 47, Mismatches: 3, Indels: 20
0.67 0.04 0.29
Matches are distributed among these distances:
23 5 0.11
24 6 0.13
25 16 0.34
29 9 0.19
30 6 0.13
31 5 0.11
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.33
Consensus pattern (25 bp):
TCACATATATACGCTTTCACATTCA
Found at i:42514460 original size:34 final size:34
Alignment explanation
Indices: 42514422--42514490 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
42514412 AAAAGTATGT
42514422 AGATATTTTGGTATGACTCATCCATGGAAAAATA
1 AGATATTTTGGTATGACTCATCCATGGAAAAATA
42514456 AGATATTTTGGTATGACTCATCCATGGAAAAATA
1 AGATATTTTGGTATGACTCATCCATGGAAAAATA
42514490 A
1 A
42514491 AAAAAGGCTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.32
Consensus pattern (34 bp):
AGATATTTTGGTATGACTCATCCATGGAAAAATA
Found at i:42516889 original size:11 final size:11
Alignment explanation
Indices: 42516873--42516898 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
42516863 ACACGGGCAT
42516873 GTGTCTAGACC
1 GTGTCTAGACC
42516884 GTGTCTAGACC
1 GTGTCTAGACC
42516895 GTGT
1 GTGT
42516899 GTGACACACG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.23, G:0.31, T:0.31
Consensus pattern (11 bp):
GTGTCTAGACC
Found at i:42520930 original size:20 final size:20
Alignment explanation
Indices: 42520902--42521042 Score: 67
Period size: 20 Copynumber: 7.1 Consensus size: 20
42520892 ATTCATTTTT
* *
42520902 ATTCGTATAAACTGTAATCC
1 ATTCATATAAACTGTAATTC
*
42520922 ATTCATAT-AACTAGTAGTTC
1 ATTCATATAAACT-GTAATTC
* * * *
42520942 ATCCGTATAACCAGTAATTC
1 ATTCATATAAACTGTAATTC
*
42520962 ATTCATAT-AACTAGTAGTTC
1 ATTCATATAAACT-GTAATTC
* * *
42520982 -TTCCGTATAACCAGTAATTC
1 ATT-CATATAAACTGTAATTC
* * *
42521002 A-TCAGTAT-ATCAGTAATTT
1 ATTCA-TATAAACTGTAATTC
* *
42521021 ATTCATATCAACAGTAATTC
1 ATTCATATAAACTGTAATTC
42521041 AT
1 AT
42521043 ATAATCTATA
Statistics
Matches: 90, Mismatches: 22, Indels: 18
0.69 0.17 0.14
Matches are distributed among these distances:
19 22 0.24
20 64 0.71
21 4 0.04
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.37
Consensus pattern (20 bp):
ATTCATATAAACTGTAATTC
Found at i:42520965 original size:40 final size:40
Alignment explanation
Indices: 42520905--42521003 Score: 162
Period size: 40 Copynumber: 2.5 Consensus size: 40
42520895 CATTTTTATT
* * *
42520905 CGTATAAACTGTAATCCATTCATATAACTAGTAGTTCATC
1 CGTATAACCAGTAATTCATTCATATAACTAGTAGTTCATC
*
42520945 CGTATAACCAGTAATTCATTCATATAACTAGTAGTTCTTC
1 CGTATAACCAGTAATTCATTCATATAACTAGTAGTTCATC
42520985 CGTATAACCAGTAATTCAT
1 CGTATAACCAGTAATTCAT
42521004 CAGTATATCA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.35
Consensus pattern (40 bp):
CGTATAACCAGTAATTCATTCATATAACTAGTAGTTCATC
Found at i:42521233 original size:23 final size:23
Alignment explanation
Indices: 42521176--42521292 Score: 71
Period size: 23 Copynumber: 5.0 Consensus size: 23
42521166 GAGTCATGCT
**
42521176 CGGTAAGCTCCTCCTGAGCTGATAAA
1 CGGTAAGCT-CTAATGAGCTG--AAA
*
42521202 TGGTAAGCTCTAATGAGCTGAAA
1 CGGTAAGCTCTAATGAGCTGAAA
*
42521225 CGGTAAGCTCT-GTCGAGCTGAATA
1 CGGTAAGCTCTAAT-GAGCTGAA-A
* * *
42521249 --GTAAGCT-TATACGAGTTGAAT
1 CGGTAAGCTCTA-ATGAGCTGAAA
* *
42521270 TGGTAAGCACTAATGAGCTGAAA
1 CGGTAAGCTCTAATGAGCTGAAA
42521293 ACACTAAGCT
Statistics
Matches: 71, Mismatches: 13, Indels: 17
0.70 0.13 0.17
Matches are distributed among these distances:
21 1 0.01
22 15 0.21
23 35 0.49
24 3 0.04
25 9 0.13
26 8 0.11
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.26
Consensus pattern (23 bp):
CGGTAAGCTCTAATGAGCTGAAA
Found at i:42533030 original size:29 final size:29
Alignment explanation
Indices: 42532995--42533068 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
42532985 GTTGTGAGAT
* *
42532995 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
42533024 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
42533053 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
42533069 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:42542992 original size:27 final size:27
Alignment explanation
Indices: 42542920--42543012 Score: 87
Period size: 27 Copynumber: 3.4 Consensus size: 27
42542910 ATTATAATTA
*
42542920 GCACATAGCCATGGGTAAATATGATCG
1 GCACATAGCCATGGGTAAATATGATAG
** * * ***
42542947 ATACAGAGTCATCAATAAATATGATAG
1 GCACATAGCCATGGGTAAATATGATAG
* *
42542974 GCACATAGCCATGGGTAAATACGATTG
1 GCACATAGCCATGGGTAAATATGATAG
*
42543001 GCACAAAGCCAT
1 GCACATAGCCAT
42543013 AATCAAGATG
Statistics
Matches: 48, Mismatches: 18, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.39, C:0.18, G:0.22, T:0.22
Consensus pattern (27 bp):
GCACATAGCCATGGGTAAATATGATAG
Found at i:42543027 original size:22 final size:22
Alignment explanation
Indices: 42542999--42543061 Score: 81
Period size: 22 Copynumber: 2.9 Consensus size: 22
42542989 TAAATACGAT
42542999 TGGCACAAAGCCATAATCAAGA
1 TGGCACAAAGCCATAATCAAGA
* * * *
42543021 TGGCACAAAGCCATATTTAGGT
1 TGGCACAAAGCCATAATCAAGA
*
42543043 TGGCACAGAGCCATAATCA
1 TGGCACAAAGCCATAATCA
42543062 GATTAAGCGG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.19
Consensus pattern (22 bp):
TGGCACAAAGCCATAATCAAGA
Found at i:42543445 original size:27 final size:27
Alignment explanation
Indices: 42543415--42543746 Score: 173
Period size: 27 Copynumber: 12.3 Consensus size: 27
42543405 CAAAACAGTC
* *
42543415 ATTTTACCCTACAAGGGTATTTCGGTG
1 ATTTTACACTACAAGGGTATTTCGGTA
*
42543442 ATTTTATACTACAAGGGTATTTCGGTA
1 ATTTTACACTACAAGGGTATTTCGGTA
* **
42543469 ATTTTACA-AATTGAGGGTATTTCGGTA
1 ATTTTACACTA-CAAGGGTATTTCGGTA
* * ** *
42543496 ACTTTACA-AATCGGGGGTATTTCAGTA
1 ATTTTACACTA-CAAGGGTATTTCGGTA
* * *
42543523 ATTTTACAAT-CTGAGGGTATTTTGGTA
1 ATTTTACACTAC-AAGGGTATTTCGGTA
* * **
42543550 ATTTTACA-AATCGAGGGTATTTTAGTA
1 ATTTTACACTA-CAAGGGTATTTCGGTA
* *
42543577 ATTTTACAAT-CTGAGGGTATTGT-GGTA
1 ATTTTACACTAC-AAGGGTATT-TCGGTA
* ** *
42543604 ATTTTACA-AACTGGGGGTATTTCGATA
1 ATTTTACACTAC-AAGGGTATTTCGGTA
* * *
42543631 ATTTTACAAT-CTGAGGGTATTTCGATA
1 ATTTTACACTAC-AAGGGTATTTCGGTA
* ** *
42543658 ATTTTACA-AATCGGGGGTATTTCGATA
1 ATTTTACACTA-CAAGGGTATTTCGGTA
* *
42543685 ATTTTACA-AACTAGAGGTATTTCGGTA
1 ATTTTACACTACAAG-GGTATTTCGGTA
* *
42543712 ATTTTACAAT-CTAAGGGTATTTCGATA
1 ATTTTACACTAC-AAGGGTATTTCGGTA
42543739 ATTTTACA
1 ATTTTACA
42543747 AATCGAGGGC
Statistics
Matches: 256, Mismatches: 33, Indels: 32
0.80 0.10 0.10
Matches are distributed among these distances:
26 6 0.02
27 245 0.96
28 5 0.02
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCGGTA
Found at i:42543486 original size:54 final size:54
Alignment explanation
Indices: 42543428--42543755 Score: 386
Period size: 54 Copynumber: 6.1 Consensus size: 54
42543418 TTACCCTACA
* * * * *
42543428 AGGGTATTTCGGTGATTTTA-TACTACAAGGGTATTTCGGTAATTTTACAAAT-TG
1 AGGGTATTTCGGTAATTTTACAAAT-CGAGGGTATTTCGATAATTTTAC-AATCTG
* *
42543482 AGGGTATTTCGGTAACTTTACAAATCGGGGGTATTTC-AGTAATTTTACAATCTG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGA-TAATTTTACAATCTG
* *
42543536 AGGGTATTTTGGTAATTTTACAAATCGAGGGTATTT-TAGTAATTTTACAATCTG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGA-TAATTTTACAATCTG
*
42543590 AGGGTATTGT-GGTAATTTTACAAA-CTGGGGGTATTTCGATAATTTTACAATCTG
1 AGGGTATT-TCGGTAATTTTACAAATC-GAGGGTATTTCGATAATTTTACAATCTG
* * *
42543644 AGGGTATTTCGATAATTTTACAAATCGGGGGTATTTCGATAATTTTACAAACT-
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGATAATTTTACAATCTG
*
42543697 AGAGGTATTTCGGTAATTTTAC-AATCTAAGGGTATTTCGATAATTTTACAAATC-G
1 AG-GGTATTTCGGTAATTTTACAAATC-GAGGGTATTTCGATAATTTTAC-AATCTG
42543752 AGGG
1 AGGG
42543756 CCTTAACGAC
Statistics
Matches: 243, Mismatches: 18, Indels: 26
0.85 0.06 0.09
Matches are distributed among these distances:
53 11 0.05
54 222 0.91
55 10 0.04
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.39
Consensus pattern (54 bp):
AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGATAATTTTACAATCTG
Found at i:42543518 original size:81 final size:81
Alignment explanation
Indices: 42543429--42543751 Score: 399
Period size: 81 Copynumber: 4.0 Consensus size: 81
42543419 TACCCTACAA
* * * *
42543429 GGGTATTTCGGTGATTTTATACTAC-AAGGGTATTTCGGTAATTTTACAAAT-TGAGGGTATTTC
1 GGGTATTTCGGTAATTTTACA-AACTGAGGGTATTTCGGTAATTTTAC-AATCTGAGGGTATTTC
* *
42543492 GGTAACTTTACAAATCGG
64 GATAATTTTACAAATCGG
* * * *
42543510 GGGTATTTCAGTAATTTTACAATCTGAGGGTATTTTGGTAATTTTACAAATC-GAGGGTATTT-T
1 GGGTATTTCGGTAATTTTACAAACTGAGGGTATTTCGGTAATTTTAC-AATCTGAGGGTATTTCG
*
42543573 AGTAATTTTAC-AATCTGA
65 A-TAATTTTACAAATC-GG
* *
42543591 GGGTATTGT-GGTAATTTTACAAACTGGGGGTATTTCGATAATTTTACAATCTGAGGGTATTTCG
1 GGGTATT-TCGGTAATTTTACAAACTGAGGGTATTTCGGTAATTTTACAATCTGAGGGTATTTCG
42543655 ATAATTTTACAAATCGG
65 ATAATTTTACAAATCGG
* *
42543672 GGGTATTTCGATAATTTTACAAACT-AGAGGTATTTCGGTAATTTTACAATCTAAGGGTATTTCG
1 GGGTATTTCGGTAATTTTACAAACTGAG-GGTATTTCGGTAATTTTACAATCTGAGGGTATTTCG
42543736 ATAATTTTACAAATCG
65 ATAATTTTACAAATCG
42543752 AGGGCCTTAA
Statistics
Matches: 210, Mismatches: 22, Indels: 20
0.83 0.09 0.08
Matches are distributed among these distances:
80 11 0.05
81 193 0.92
82 6 0.03
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.39
Consensus pattern (81 bp):
GGGTATTTCGGTAATTTTACAAACTGAGGGTATTTCGGTAATTTTACAATCTGAGGGTATTTCGA
TAATTTTACAAATCGG
Found at i:42543747 original size:27 final size:27
Alignment explanation
Indices: 42543455--42543755 Score: 332
Period size: 27 Copynumber: 11.1 Consensus size: 27
42543445 TTATACTACA
*
42543455 AGGGTATTTCGGTAATTTTACAAAT-TG
1 AGGGTATTTCGATAATTTTAC-AATCTG
* *
42543482 AGGGTATTTCGGTAACTTTACAAATC-G
1 AGGGTATTTCGATAATTTTAC-AATCTG
*
42543509 GGGGTATTTC-AGTAATTTTACAATCTG
1 AGGGTATTTCGA-TAATTTTACAATCTG
* *
42543536 AGGGTATTTTGGTAATTTTACAAATC-G
1 AGGGTATTTCGATAATTTTAC-AATCTG
*
42543563 AGGGTATTT-TAGTAATTTTACAATCTG
1 AGGGTATTTCGA-TAATTTTACAATCTG
* *
42543590 AGGGTATTGT-GGTAATTTTACAAACTG
1 AGGGTATT-TCGATAATTTTACAATCTG
*
42543617 GGGGTATTTCGATAATTTTACAATCTG
1 AGGGTATTTCGATAATTTTACAATCTG
42543644 AGGGTATTTCGATAATTTTACAAATC-G
1 AGGGTATTTCGATAATTTTAC-AATCTG
* *
42543671 GGGGTATTTCGATAATTTTACAAACT-
1 AGGGTATTTCGATAATTTTACAATCTG
* *
42543697 AGAGGTATTTCGGTAATTTTACAATCTA
1 AG-GGTATTTCGATAATTTTACAATCTG
42543725 AGGGTATTTCGATAATTTTACAAATC-G
1 AGGGTATTTCGATAATTTTAC-AATCTG
42543752 AGGG
1 AGGG
42543756 CCTTAACGAC
Statistics
Matches: 237, Mismatches: 23, Indels: 28
0.82 0.08 0.10
Matches are distributed among these distances:
26 13 0.05
27 209 0.88
28 15 0.06
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.39
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTACAATCTG
Found at i:42545499 original size:46 final size:46
Alignment explanation
Indices: 42545432--42545603 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
42545422 TGTAACCCGC
*
42545432 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCACAT
*
42545478 CCATAGGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCACAT
* * * * * *
42545528 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCACAT
*
42545571 CCATAAGTGAACTCAGACTCAACTCAACGAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
42545604 TGGATGCTCA
Statistics
Matches: 104, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 2 0.02
46 58 0.56
47 28 0.27
48 2 0.02
49 1 0.01
50 4 0.04
51 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCACAT
Found at i:42545599 original size:93 final size:93
Alignment explanation
Indices: 42545440--42545610 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
42545430 GCCCATAAGT
* * * *
42545440 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
42545505 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
42545533 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
*
42545598 CGAGTTTGGATGC
66 CGAGTTCGGATGC
42545611 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:42547243 original size:59 final size:59
Alignment explanation
Indices: 42547151--42547269 Score: 229
Period size: 59 Copynumber: 2.0 Consensus size: 59
42547141 CAAATAGTGT
42547151 TAGAAAAACCCTTAACAACCATCTAACCGAAAGATCGACTACCACTTACCTTGAGTAGA
1 TAGAAAAACCCTTAACAACCATCTAACCGAAAGATCGACTACCACTTACCTTGAGTAGA
*
42547210 TAGAAAAACCCTTAACAACCATCTAACCGAAAGATCGACTACCACTTGCCTTGAGTAGA
1 TAGAAAAACCCTTAACAACCATCTAACCGAAAGATCGACTACCACTTACCTTGAGTAGA
42547269 T
1 T
42547270 CGGTCGACTG
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.39, C:0.27, G:0.13, T:0.21
Consensus pattern (59 bp):
TAGAAAAACCCTTAACAACCATCTAACCGAAAGATCGACTACCACTTACCTTGAGTAGA
Found at i:42547788 original size:5 final size:6
Alignment explanation
Indices: 42547771--42547795 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
42547761 ATCGGTCACT
42547771 AGAAAA AGAAAA AGAAAA AGAAAA A
1 AGAAAA AGAAAA AGAAAA AGAAAA A
42547796 AATACATGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:42551841 original size:92 final size:92
Alignment explanation
Indices: 42551719--42551894 Score: 228
Period size: 92 Copynumber: 1.9 Consensus size: 92
42551709 TAGCATATCT
* * ** *
42551719 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAACACATCTC-ATAGTTGATGCATGTCCTA
1 ATGCCGATGCCATGTCCCAAACATGATCTTACACTAACAC-TCACAATAGCCGATGCATGTCCCA
42551783 GACATGTCTTACACTAGCACTCGTCTTA
65 GACATGTCTTACACTAGCACTCGTCTTA
* * ** *
42551811 ATGCCGATGCCATGTCCTAGACATGATCTTACACTGGCTCTCACAATATAGCCGATGCATGTCCC
1 ATGCCGATGCCATGTCCCAAACATGATCTTACACTAACACTCAC-A-ATAGCCGATGCATGTCCC
42551876 AGACATGTCTTACACTAGC
64 AGACATGTCTTACACTAGC
42551895 TCACAATAGC
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
91 3 0.04
92 34 0.48
94 34 0.48
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.28
Consensus pattern (92 bp):
ATGCCGATGCCATGTCCCAAACATGATCTTACACTAACACTCACAATAGCCGATGCATGTCCCAG
ACATGTCTTACACTAGCACTCGTCTTA
Found at i:42554054 original size:86 final size:86
Alignment explanation
Indices: 42553935--42554105 Score: 211
Period size: 86 Copynumber: 2.0 Consensus size: 86
42553925 CCCTCCTCTT
* * *
42553935 TTTTTTTCACTTAATTAAACACTTGAACTTTCAAAATGCATAAAAAAG-GCCTTCAAACTTCTTC
1 TTTTTTTCACTCAATTAAACACGTGAACTTTCAAAATGCATAAAAAAGACCCTT-AAACTTCTTC
42553999 AAAAACAA-AATTAAGCCCCTAC
65 AAAAA-AACAATTAAGCCCCTAC
** * * * ** *
42554021 TTTTTTTCACTCAATTGGATACGTGAACTTTCAAAATGTATCAAAAAGACCCTTAATTTTTTTCA
1 TTTTTTTCACTCAATTAAACACGTGAACTTTCAAAATGCATAAAAAAGACCCTTAAACTTCTTCA
42554086 AAAAAACAATTAAGCCCCTA
66 AAAAAACAATTAAGCCCCTA
42554106 GTCTAATTAA
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
85 2 0.03
86 66 0.92
87 4 0.06
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.33
Consensus pattern (86 bp):
TTTTTTTCACTCAATTAAACACGTGAACTTTCAAAATGCATAAAAAAGACCCTTAAACTTCTTCA
AAAAAACAATTAAGCCCCTAC
Found at i:42554163 original size:19 final size:19
Alignment explanation
Indices: 42554126--42554172 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
42554116 AAAATACAAA
* *
42554126 AAATTATTATAAAATTTATT
1 AAATT-TTAGAAAACTTATT
42554146 AAATTTTAGAAAACTTATT
1 AAATTTTAGAAAACTTATT
42554165 AAATTTTA
1 AAATTTTA
42554173 ATAAAAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 20 0.80
20 5 0.20
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (19 bp):
AAATTTTAGAAAACTTATT
Found at i:42554194 original size:17 final size:18
Alignment explanation
Indices: 42554163--42554198 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
42554153 AGAAAACTTA
42554163 TTAAATTTTAATAAAAAT
1 TTAAATTTTAATAAAAAT
*
42554181 TTAAA-TTTATTAAAAAT
1 TTAAATTTTAATAAAAAT
42554198 T
1 T
42554199 AGATTTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAAATTTTAATAAAAAT
Found at i:42554242 original size:11 final size:10
Alignment explanation
Indices: 42554229--42554267 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
42554219 AAAAAATAAA
42554229 AAAAATTTAT
1 AAAAATTTAT
*
42554239 AAAATTTTAT
1 AAAAATTTAT
42554249 AAAAA-TTAT
1 AAAAATTTAT
42554258 AAAAAATTTA
1 -AAAAATTTA
42554268 ACAGCCCCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 4 0.16
10 18 0.72
11 3 0.12
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
AAAAATTTAT
Found at i:42554480 original size:10 final size:10
Alignment explanation
Indices: 42554467--42554552 Score: 60
Period size: 9 Copynumber: 9.2 Consensus size: 10
42554457 CTTTATAAAA
42554467 TTTTATAT-T
1 TTTTATATAT
42554476 TTTT-TATAT
1 TTTTATATAT
*
42554485 TTCTATATA-
1 TTTTATATAT
42554494 TTTTATATA-
1 TTTTATATAT
*
42554503 TTTTAT-GAT
1 TTTTATATAT
* *
42554512 TTTTATAAAA
1 TTTTATATAT
*
42554522 TTTTACA-AT
1 TTTTATATAT
*
42554531 TTTTAATAAAT
1 TTTT-ATATAT
42554542 TTTTA-ATAT
1 TTTTATATAT
42554551 TT
1 TT
42554553 GAATTTTTAT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
8 4 0.06
9 38 0.61
10 14 0.23
11 6 0.10
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (10 bp):
TTTTATATAT
Found at i:42554524 original size:19 final size:18
Alignment explanation
Indices: 42554458--42554552 Score: 77
Period size: 19 Copynumber: 5.1 Consensus size: 18
42554448 TTATTATGAC
42554458 TTTATAAAATTTTATATT
1 TTTATAAAATTTTATATT
* *
42554476 TTT-TTATATTTCTATATAT
1 TTTATAAAATTT-TATAT-T
*
42554495 TTTAT-ATATTTTATGATT
1 TTTATAAAATTTTAT-ATT
*
42554513 TTTATAAAATTTTACAATT
1 TTTATAAAATTTTA-TATT
*
42554532 TTTAATAAATTTTTAATATT
1 TTT-ATAAAATTTT-ATATT
42554552 T
1 T
42554553 GAATTTTTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
17 6 0.10
18 17 0.27
19 25 0.40
20 14 0.22
21 1 0.02
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (18 bp):
TTTATAAAATTTTATATT
Found at i:42554533 original size:27 final size:27
Alignment explanation
Indices: 42554458--42554526 Score: 86
Period size: 27 Copynumber: 2.5 Consensus size: 27
42554448 TTATTATGAC
*
42554458 TTTATAAAATTTTATATTTTTTTATATT
1 TTTATAAAATTTTATA-TATTTTATATT
* *
42554486 TCTAT-ATATTTTATATATTTTATGATT
1 TTTATAAAATTTTATATATTTTAT-ATT
42554513 TTTATAAAATTTTA
1 TTTATAAAATTTTA
42554527 CAATTTTTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
26 7 0.21
27 16 0.47
28 11 0.32
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (27 bp):
TTTATAAAATTTTATATATTTTATATT
Found at i:42554566 original size:26 final size:28
Alignment explanation
Indices: 42554528--42554580 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 28
42554518 AAAATTTTAC
*
42554528 AATTTTTAAT-AAATTT-TTAATATTTG
1 AATTTTTAATAAAATTTAATAATATTTG
*
42554554 AATTTTTATTAAAATTTAATAATATTT
1 AATTTTTAATAAAATTTAATAATATTT
42554581 ATAACTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 9 0.39
27 6 0.26
28 8 0.35
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (28 bp):
AATTTTTAATAAAATTTAATAATATTTG
Found at i:42554603 original size:45 final size:46
Alignment explanation
Indices: 42554510--42554610 Score: 109
Period size: 46 Copynumber: 2.2 Consensus size: 46
42554500 ATATTTTATG
* * *
42554510 ATTTTTA-TAAAATTTTACAATTTTTAATAAATTTTTAATATTTGA
1 ATTTTTATTAAAATTTAACAATATTTAATAAACTTTTAATATTTGA
* * *
42554555 ATTTTTATTAAAATTTAATAATATTT-AT-AACTTTTATTGATTTTA
1 ATTTTTATTAAAATTTAACAATATTTAATAAACTTTTAAT-ATTTGA
42554600 ATTTTTTATTA
1 A-TTTTTATTA
42554611 TTTTTTCTAA
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
44 8 0.17
45 15 0.32
46 24 0.51
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (46 bp):
ATTTTTATTAAAATTTAACAATATTTAATAAACTTTTAATATTTGA
Found at i:42554785 original size:97 final size:95
Alignment explanation
Indices: 42554637--42554924 Score: 335
Period size: 90 Copynumber: 3.1 Consensus size: 95
42554627 ATAAAAGCAT
**
42554637 GGGCTTAA-TTGTG-TTTTTTTTTTTGGAAAA-GTTCAAGGGTCC-TTTTGATGCATTTTGAAAG
1 GGGCTTAAGTT-TGATTTTTTTTTTT-GAAAAGGTTTGAGGG-CCTTTTTGATGCATTTTGAAAG
* *
42554698 TTCAAGTACCCAATTGAGTGCAAAAAAAAAGTAG
63 TTCAAGTACCAAAATGAGTGCAAAAAAAAA-TAG
**
42554732 GGGCTTAAGTTTTTCTTTTTTTTTTTGAAAAGGTTTGAGGGCCTTTTTGATGCATTTTGAAAGTT
1 GGGCTTAAG-TTTGATTTTTTTTTTTGAAAAGGTTTGAGGGCCTTTTTGATGCATTTTGAAAGTT
*
42554797 CAAGTACCTAAATGAGTGCAAAAAAAAATCA-
65 CAAGTACCAAAATGAGTGCAAAAAAAAAT-AG
** * * *
42554828 -GG----AGTTTGATTGCTTTTTTTGAAAAGGTTTGAAGACCTTTTTGATACATTTTGAAAGTTC
1 GGGCTTAAGTTTGATTTTTTTTTTTGAAAAGGTTTGAGGGCCTTTTTGATGCATTTTGAAAGTTC
*
42554888 AAGTACCAAAATGAGTGCAAAAAAAATTAG
66 AAGTACCAAAATGAGTGCAAAAAAAAATAG
42554918 GGGCTTA
1 GGGCTTA
42554925 GTTGCTTTGT
Statistics
Matches: 167, Mismatches: 14, Indels: 24
0.81 0.07 0.12
Matches are distributed among these distances:
89 1 0.01
90 75 0.45
91 4 0.02
95 10 0.06
96 9 0.05
97 68 0.41
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.37
Consensus pattern (95 bp):
GGGCTTAAGTTTGATTTTTTTTTTTGAAAAGGTTTGAGGGCCTTTTTGATGCATTTTGAAAGTTC
AAGTACCAAAATGAGTGCAAAAAAAAATAG
Found at i:42554859 original size:90 final size:88
Alignment explanation
Indices: 42554751--42554958 Score: 301
Period size: 90 Copynumber: 2.3 Consensus size: 88
42554741 TTTTTCTTTT
*
42554751 TTTTTTTGAAAAGGTTTGAGGGCCTTTTTGATGCATTTTGAAAGTTCAAGTACCTAAATGAGTGC
1 TTTTTTTGAAAAGGTTTGAGGGCCTTTTTGATGCATTTTGAAAGTTCAAGTACCAAAATGAGTGC
42554816 AAAAAAAAATCAGGAGTTTGATTGC
66 AAAAAAAAAT-AGGAGTTT-ATTGC
* * *
42554841 TTTTTTTGAAAAGGTTTGAAGACCTTTTTGATACATTTTGAAAGTTCAAGTACCAAAATGAGTGC
1 TTTTTTTGAAAAGGTTTGAGGGCCTTTTTGATGCATTTTGAAAGTTCAAGTACCAAAATGAGTGC
* * *
42554906 AAAAAAAATTAGGGGCTTAGTTGC
66 AAAAAAAAATAGGAGTTTA-TTGC
* *
42554930 TTTGTTTGAAAAAGTTTGA-GGCCTTTTTG
1 TTTTTTTGAAAAGGTTTGAGGGCCTTTTTG
42554959 CACCTTTAAG
Statistics
Matches: 107, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
88 10 0.09
89 27 0.25
90 70 0.65
ACGTcount: A:0.32, C:0.10, G:0.22, T:0.37
Consensus pattern (88 bp):
TTTTTTTGAAAAGGTTTGAGGGCCTTTTTGATGCATTTTGAAAGTTCAAGTACCAAAATGAGTGC
AAAAAAAAATAGGAGTTTATTGC
Found at i:42565934 original size:76 final size:77
Alignment explanation
Indices: 42565811--42565957 Score: 242
Period size: 76 Copynumber: 1.9 Consensus size: 77
42565801 ATTCTACGAT
42565811 TGTTGTCCTAAAAACAGTTCTTAAATCTTACTAAGATTAGAGTTCCTTTACATGTTCTAATTTAA
1 TGTTGTCCTAAAAACAG-T-TTAAATCTTACTAAGATTAGAGTTCCTTTACATGTTCTAATTTAA
42565876 ATGGATTCTAGGGC
64 ATGGATTCTAGGGC
* * *
42565890 TGTTGTCCTAGAAACAG-TTAAATTTTACTAAGATTCGAGTTCCTTTACATGTTCTAATTTAAAT
1 TGTTGTCCTAAAAACAGTTTAAATCTTACTAAGATTAGAGTTCCTTTACATGTTCTAATTTAAAT
42565954 GGAT
66 GGAT
42565958 GTGGATTTTG
Statistics
Matches: 65, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
76 49 0.75
79 16 0.25
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.40
Consensus pattern (77 bp):
TGTTGTCCTAAAAACAGTTTAAATCTTACTAAGATTAGAGTTCCTTTACATGTTCTAATTTAAAT
GGATTCTAGGGC
Found at i:42567794 original size:30 final size:31
Alignment explanation
Indices: 42567760--42567821 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
42567750 AAAGGAAAAG
* *
42567760 TTTAA-AATTTTAAAATAAAATTTTGATTTT
1 TTTAACAATTTCAAAATAAAATTTTAATTTT
*
42567790 TTTAACTATTTCAAAATAAAATTTTAATTTT
1 TTTAACAATTTCAAAATAAAATTTTAATTTT
42567821 T
1 T
42567822 AAGAAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 5 0.18
31 23 0.82
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (31 bp):
TTTAACAATTTCAAAATAAAATTTTAATTTT
Found at i:42567840 original size:148 final size:143
Alignment explanation
Indices: 42567402--42567832 Score: 504
Period size: 139 Copynumber: 3.0 Consensus size: 143
42567392 AAAGTTTTGA
* *
42567402 TTTTTTTT--AAAAGAGAAAGTTTAGATTTTTAAAAATAAAAATATGTTTTTTACTCATTTTAGA
1 TTTTTTTTAAAAAAGAGAAAGTTTAGATTTTTAAAAATAAAAATAT-ATTTTTAGTCATTTTA-A
* * *
42567465 A-GAAAAGTTTAAAATTTTAAAGCAAAGTTTTGACCTTTTTCAACTATTTCGAAATAAAAGTTTG
64 AGGAAAAGTTTAAAATTTTAAAACAAAATTTTGA--TTTTT-AACTATTTCGAAATAAAATTTTG
42567529 ATTTTTAAGAAAAATAGT
126 ATTTTTAAGAAAAATAGT
* * * * *
42567547 TATTTTTTAAAAAAAAGAGAAACTTTTGGTTTTTAAAAAATAAAAATATGTTTTTAGTCATTTTA
1 T-TTTTTT-TAAAAAAGAGAAAGTTTAGATTTTT-AAAAATAAAAATATATTTTTAGTCATTTTA
* * *
42567612 AAGGAAAATTTTAAATTTTTAAAACAAAATTTTG-------ACTATTTCGAAATAAATTTTTGAT
63 AAGGAAAAGTTTAAAATTTTAAAACAAAATTTTGATTTTTAACTATTTCGAAATAAAATTTTGAT
42567670 TTTTAAGAAAAATAGT
128 TTTTAAGAAAAATAGT
* * *
42567686 GATTTTTTTTAAAAAATGAGAAAGTTTAAATTTTTAAAAATTAAAATATATATTTAGTCATTTTA
1 --TTTTTTTTAAAAAA-GAGAAAGTTTAGATTTTTAAAAATAAAAATATATTTTTAGTCATTTTA
* * *
42567751 AAGGAAAAGTTTAAAATTTTAAAATAAAATTTTGATTTTTTTAACTATTTCAAAATAAAATTTTA
63 AAGGAAAAGTTTAAAATTTTAAAACAAAATTTTGA--TTTTTAACTATTTCGAAATAAAATTTTG
42567816 ATTTTTAAGAAAAATAG
126 ATTTTTAAGAAAAATAG
42567833 ACTTTTTTAA
Statistics
Matches: 242, Mismatches: 26, Indels: 33
0.80 0.09 0.11
Matches are distributed among these distances:
139 102 0.42
140 20 0.08
141 1 0.00
145 1 0.00
146 6 0.02
148 38 0.16
149 60 0.25
150 14 0.06
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.43
Consensus pattern (143 bp):
TTTTTTTTAAAAAAGAGAAAGTTTAGATTTTTAAAAATAAAAATATATTTTTAGTCATTTTAAAG
GAAAAGTTTAAAATTTTAAAACAAAATTTTGATTTTTAACTATTTCGAAATAAAATTTTGATTTT
TAAGAAAAATAGT
Found at i:42569055 original size:53 final size:53
Alignment explanation
Indices: 42568997--42569102 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
42568987 TGTTGACATG
42568997 AAGTTAGTTAAGTAGGTGTTACATTTTAATGAAACCATAAGGTTTTTACATTC
1 AAGTTAGTTAAGTAGGTGTTACATTTTAATGAAACCATAAGGTTTTTACATTC
*
42569050 AAGTTAGTTAAGTAGGTGTTACATTTTAATGAAATCATAAGGTTTTTACATTC
1 AAGTTAGTTAAGTAGGTGTTACATTTTAATGAAACCATAAGGTTTTTACATTC
42569103 GAATTTAGGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.41
Consensus pattern (53 bp):
AAGTTAGTTAAGTAGGTGTTACATTTTAATGAAACCATAAGGTTTTTACATTC
Found at i:42569100 original size:27 final size:27
Alignment explanation
Indices: 42569015--42569101 Score: 72
Period size: 27 Copynumber: 3.3 Consensus size: 27
42569005 TAAGTAGGTG
*
42569015 TTACATTTTAATGAAACCATAAGGTTT
1 TTACATTTTAATGAAATCATAAGGTTT
* * ** * *
42569042 TTACA-TTCAAGTTAGTTAAGT-AGG-TG
1 TTACATTTTAA-TGAAATCA-TAAGGTTT
42569068 TTACATTTTAATGAAATCATAAGGTTT
1 TTACATTTTAATGAAATCATAAGGTTT
42569095 TTACATT
1 TTACATT
42569102 CGAATTTAGG
Statistics
Matches: 42, Mismatches: 13, Indels: 10
0.65 0.20 0.15
Matches are distributed among these distances:
25 1 0.02
26 17 0.40
27 23 0.55
28 1 0.02
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (27 bp):
TTACATTTTAATGAAATCATAAGGTTT
Found at i:42569926 original size:14 final size:14
Alignment explanation
Indices: 42569904--42569942 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
42569894 TTATTGTCTA
*
42569904 GAATATGTGAATAT
1 GAATGTGTGAATAT
42569918 GAATGTGTGAATAT
1 GAATGTGTGAATAT
42569932 GAATGTGTGAA
1 GAATGTGTGAA
42569943 AGTTTTAAGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.28, T:0.33
Consensus pattern (14 bp):
GAATGTGTGAATAT
Found at i:42571580 original size:39 final size:40
Alignment explanation
Indices: 42571443--42571580 Score: 226
Period size: 40 Copynumber: 3.5 Consensus size: 40
42571433 CGGATGATAA
42571443 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
42571483 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
42571523 CCGGGCTAAGTCCCGAAGGCAGTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
42571563 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
42571581 TACTTGGTTT
Statistics
Matches: 94, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
39 17 0.18
40 77 0.82
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:42574371 original size:68 final size:67
Alignment explanation
Indices: 42574299--42574448 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
42574289 CATCATGTGT
* * * *
42574299 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
42574361 ATGTAG
62 ATGTAG
** * *
42574367 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
42574432 AG
66 AG
42574434 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
42574449 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:42574404 original size:64 final size:64
Alignment explanation
Indices: 42574323--42574506 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
42574313 AGACATTATG
* *
42574323 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
42574387 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
42574452 AA
63 AA
* * * *
42574454 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
42574507 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:42580664 original size:39 final size:39
Alignment explanation
Indices: 42580621--42580787 Score: 244
Period size: 39 Copynumber: 4.3 Consensus size: 39
42580611 GGTCTTTAAC
** *
42580621 CCGGATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
* * *
42580660 CCGGATATATTTCTAGCATATAGCCTGCGGATCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
* * *
42580699 CCGGATATTTTTCTAGCATATAGCCTTCGGATCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
*
42580738 CCGGATATTTTTCCAGCATATAGCCTACGGACCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
42580777 CCGGATATTTT
1 CCGGATATTTT
42580788 CAATCTCATA
Statistics
Matches: 117, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 117 1.00
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.33
Consensus pattern (39 bp):
CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
Found at i:42590688 original size:39 final size:41
Alignment explanation
Indices: 42590659--42590789 Score: 191
Period size: 39 Copynumber: 3.3 Consensus size: 41
42590649 GCTACTCGTT
*
42590659 CAAATGCCTTCGGGACATAGCCC-G-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTATAGTAACTCGCA
*
42590698 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTATAGTAACTCGCA
*
42590738 CAAATGCCTTCGGGACTTAACCCGGA-T-TAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTATAGTAACTCGCA
*
42590777 CCAATGCCTTCGG
1 CAAATGCCTTCGG
42590790 ATCTTAGTCC
Statistics
Matches: 87, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
39 46 0.53
40 39 0.45
41 2 0.02
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (41 bp):
CAAATGCCTTCGGGACATAACCCGGATTATAGTAACTCGCA
Found at i:42590741 original size:40 final size:40
Alignment explanation
Indices: 42590659--42590842 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
42590649 GCTACTCGTT
*
42590659 CAAATGCCTTCGGGACATAGCCC-G-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
42590698 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
42590738 CAAATGCCTTCGGGACTTAACCCGGA-TTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
42590777 CCAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
42590818 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
42590843 CATCATTCGA
Statistics
Matches: 128, Mismatches: 11, Indels: 11
0.85 0.07 0.07
Matches are distributed among these distances:
38 3 0.02
39 53 0.41
40 60 0.47
41 12 0.09
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:42590769 original size:79 final size:81
Alignment explanation
Indices: 42590659--42590842 Score: 234
Period size: 79 Copynumber: 2.3 Consensus size: 81
42590649 GCTACTCGTT
* *
42590659 CAAATGCCTTCGGGACATAGCCC-GTTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCG
* *
42590722 GATTTAGTAAC-TCGCA
65 GATATAGTAACTTAGCA
* * **
42590738 CAAATGCCTTCGGGACTTAACCCGGAT-TAGTAACTCGCACCAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
42590802 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
42590818 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
42590843 CATCATTCGA
Statistics
Matches: 91, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
78 3 0.03
79 78 0.86
80 10 0.11
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:42592037 original size:56 final size:56
Alignment explanation
Indices: 42591970--42592089 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
42591960 TATTAGTTTA
42591970 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
42592026 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
42592082 TTGCCCAT
1 TTGCCCAT
42592090 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:42599769 original size:56 final size:56
Alignment explanation
Indices: 42599702--42599821 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
42599692 TATTAGATTA
42599702 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
42599758 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
42599814 TTGCCCAT
1 TTGCCCAT
42599822 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:42602363 original size:30 final size:30
Alignment explanation
Indices: 42602327--42602396 Score: 104
Period size: 30 Copynumber: 2.3 Consensus size: 30
42602317 CACGGGCACA
*
42602327 AGACACGGCCGTATCTCTCGGCCGTGTGAG
1 AGACACGGCCGTATATCTCGGCCGTGTGAG
* *
42602357 AGACACGGCTGTATATCTCGGTCGTGTGAG
1 AGACACGGCCGTATATCTCGGCCGTGTGAG
*
42602387 AGACAAGGCC
1 AGACACGGCC
42602397 ATAGGACATG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.21, C:0.26, G:0.33, T:0.20
Consensus pattern (30 bp):
AGACACGGCCGTATATCTCGGCCGTGTGAG
Found at i:42603494 original size:10 final size:10
Alignment explanation
Indices: 42603479--42603525 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
42603469 TAACATGTTG
42603479 AATTTTAATT
1 AATTTTAATT
42603489 AATTTTATAATT
1 AA-TTT-TAATT
*
42603501 AATTTTGATT
1 AATTTTAATT
*
42603511 AATTTTGATT
1 AATTTTAATT
42603521 -ATTTT
1 AATTTT
42603526 CAACAGATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
9 5 0.15
10 16 0.47
11 6 0.18
12 7 0.21
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (10 bp):
AATTTTAATT
Found at i:42605932 original size:28 final size:28
Alignment explanation
Indices: 42605906--42605958 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
42605896 ATGAATTTGA
*
42605906 GTAAATT-GGG-CTAAATTGTGAAATTT
1 GTAAATTAGGGACTAAAATGTGAAATTT
42605932 GTAAATTGAGGGACTAAAATGTGAAAT
1 GTAAATT-AGGGACTAAAATGTGAAAT
42605959 AAATGAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 7 0.30
28 3 0.13
29 13 0.57
ACGTcount: A:0.40, C:0.04, G:0.25, T:0.32
Consensus pattern (28 bp):
GTAAATTAGGGACTAAAATGTGAAATTT
Found at i:42606579 original size:44 final size:42
Alignment explanation
Indices: 42606510--42606664 Score: 134
Period size: 43 Copynumber: 3.6 Consensus size: 42
42606500 TGTGTTGTCA
* * **
42606510 TGTAAGACCACGTCTGGGACGTTGGCATC-TATTTGTGATTTACG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTA--TACGATTT-CG
*
42606554 TGTATGACCATGTCTGGGACATTGGCATCGTATACGATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATACGATTTCG
* * * * * *
42606596 TGTAAGACCCTGTCTGGGACAGTGGCATTG-ATAATTGATTACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGTAT-A-CGATTTCG
* *
42606639 TGTAAGACCACGTCTGGGACGTTGGC
1 TGTAAGACCATGTCTGGGACATTGGC
42606665 CTTGTACGAG
Statistics
Matches: 92, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
41 2 0.02
42 29 0.32
43 33 0.36
44 26 0.28
45 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTATACGATTTCG
Found at i:42606657 original size:43 final size:43
Alignment explanation
Indices: 42606508--42606658 Score: 132
Period size: 42 Copynumber: 3.5 Consensus size: 43
42606498 TATGTGTTGT
* *
42606508 CATGTAAGACCACGTCTGGGAC-GTTGGCATCT-ATTTGTGATTTA
1 CATGTAAGACCACGTCTGGGACAG-TGGCAT-TGATATATGA-TTA
* * * * * * *
42606552 CGTGTATGACCATGTCTGGGACATTGGCATCG-TATACGATTT
1 CATGTAAGACCACGTCTGGGACAGTGGCATTGATATATGATTA
*
42606594 CGTGTAAGACC-CTGTCTGGGACAGTGGCATTGATA-ATTGATTA
1 CATGTAAGACCAC-GTCTGGGACAGTGGCATTGATATA-TGATTA
42606637 CATGTAAGACCACGTCTGGGAC
1 CATGTAAGACCACGTCTGGGAC
42606659 GTTGGCCTTG
Statistics
Matches: 85, Mismatches: 16, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
42 30 0.35
43 29 0.34
44 26 0.31
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.30
Consensus pattern (43 bp):
CATGTAAGACCACGTCTGGGACAGTGGCATTGATATATGATTA
Found at i:42608043 original size:55 final size:54
Alignment explanation
Indices: 42607928--42608045 Score: 130
Period size: 55 Copynumber: 2.1 Consensus size: 54
42607918 CTTACGATTT
* * * *
42607928 TAAGTCAGTCTCGAGCACGGCCAAGGCACATAGGTGTGTGGCTAGTCGTGTGAC
1 TAAGTCAGTATCGACCACGGCCAAGGCACATAGGTGTCTGGCTAGTCGTGTGAA
* * * *
42607982 TCAAGTCAGTATCGACCACGGCCAAGGCACGTGGGCATGTCTTG-TGGTCGTGTGAA
1 T-AAGTCAGTATCGACCACGGCCAAGGCACATAGG--TGTCTGGCTAGTCGTGTGAA
42608038 TAAGTCAG
1 TAAGTCAG
42608046 CATGTATGCC
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
54 1 0.02
55 36 0.68
56 11 0.21
57 5 0.09
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (54 bp):
TAAGTCAGTATCGACCACGGCCAAGGCACATAGGTGTCTGGCTAGTCGTGTGAA
Found at i:42608125 original size:42 final size:42
Alignment explanation
Indices: 42608076--42608172 Score: 176
Period size: 42 Copynumber: 2.3 Consensus size: 42
42608066 ATGGCCTAGA
*
42608076 CACACGGGTGTGTCTAATGCCGTGTGAGGCACACGGCCTGTT
1 CACACGGGCGTGTCTAATGCCGTGTGAGGCACACGGCCTGTT
*
42608118 CATACGGGCGTGTCTAATGCCGTGTGAGGCACACGGCCTGTT
1 CACACGGGCGTGTCTAATGCCGTGTGAGGCACACGGCCTGTT
42608160 CACACGGGCGTGT
1 CACACGGGCGTGT
42608173 GACCTTTGTA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.16, C:0.27, G:0.34, T:0.23
Consensus pattern (42 bp):
CACACGGGCGTGTCTAATGCCGTGTGAGGCACACGGCCTGTT
Found at i:42613426 original size:44 final size:42
Alignment explanation
Indices: 42613361--42613470 Score: 130
Period size: 44 Copynumber: 2.6 Consensus size: 42
42613351 ATATGTGTTA
* ** * **
42613361 TCGTGTAAGACCACGTCTGGGATGTTGGCATCGATTTGTGATT
1 TCGTGTAAGACCATGTCTGGGACATTGGCATCG-TATACGATT
*
42613404 TAGGTGTAAGACCATGTCTGGGACATTGGCATCGTATACGATT
1 T-CGTGTAAGACCATGTCTGGGACATTGGCATCGTATACGATT
*
42613447 TCGTGTAAGACCCTGTCTGGGACA
1 TCGTGTAAGACCATGTCTGGGACA
42613471 GCGGCATTGA
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
42 21 0.37
43 8 0.14
44 28 0.49
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (42 bp):
TCGTGTAAGACCATGTCTGGGACATTGGCATCGTATACGATT
Found at i:42618006 original size:12 final size:12
Alignment explanation
Indices: 42617985--42618015 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
42617975 ATTCAAATCC
42617985 AAAAAAAAAAAG
1 AAAAAAAAAAAG
*
42617997 AAAAAGAAAAAG
1 AAAAAAAAAAAG
42618009 AAAAAAA
1 AAAAAAA
42618016 GAAACCATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:42619201 original size:11 final size:11
Alignment explanation
Indices: 42619169--42619193 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
42619159 ATATTTAGGG
42619169 AGTGTTATTAA
1 AGTGTTATTAA
42619180 AGTGTTATTAA
1 AGTGTTATTAA
42619191 AGT
1 AGT
42619194 TTCATTAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.20, T:0.44
Consensus pattern (11 bp):
AGTGTTATTAA
Found at i:42620421 original size:45 final size:45
Alignment explanation
Indices: 42620308--42620421 Score: 183
Period size: 45 Copynumber: 2.5 Consensus size: 45
42620298 CCAAATATCC
* *
42620308 CTTCTCCTCCCTCTCAAATAGTTTCTCCTTGACCGATTACTTCTT
1 CTTCTCCTCCCTCTCAAATGGTTTCTCCTTGACCAATTACTTCTT
*
42620353 CTTCTCCTCCCTCTCAAATGGTTTCTCCTTGACCAATTGCTTCTT
1 CTTCTCCTCCCTCTCAAATGGTTTCTCCTTGACCAATTACTTCTT
* *
42620398 CTTCTCCTCTCTCTCAAACGGTTT
1 CTTCTCCTCCCTCTCAAATGGTTT
42620422 TCTTCTCAAC
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 64 1.00
ACGTcount: A:0.14, C:0.36, G:0.08, T:0.42
Consensus pattern (45 bp):
CTTCTCCTCCCTCTCAAATGGTTTCTCCTTGACCAATTACTTCTT
Found at i:42620448 original size:46 final size:45
Alignment explanation
Indices: 42620308--42620457 Score: 140
Period size: 45 Copynumber: 3.3 Consensus size: 45
42620298 CCAAATATCC
** ** * *
42620308 CTTCTCCTCCCTCTCAAATAGTTTCTCCTTGACCGATTACTTCTT
1 CTTCTCCTCCCTCTCAAACGGTTTCTCCTCAACCAATTGCTTCTT
* **
42620353 CTTCTCCTCCCTCTCAAATGGTTTCTCCTTGACCAATTGCTTCTT
1 CTTCTCCTCCCTCTCAAACGGTTTCTCCTCAACCAATTGCTTCTT
* * **
42620398 CTTCTCCTCTCTCTCAAACGGTTTTCTTCTCAACTGATTGCTT-TT
1 CTTCTCCTCCCTCTCAAACGG-TTTCTCCTCAACCAATTGCTTCTT
*
42620443 ACTTCTTCTGCCCTC
1 -CTTCTCCT-CCCTC
42620458 ACTGTAACAC
Statistics
Matches: 90, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
45 63 0.70
46 23 0.26
47 4 0.04
ACGTcount: A:0.13, C:0.35, G:0.08, T:0.43
Consensus pattern (45 bp):
CTTCTCCTCCCTCTCAAACGGTTTCTCCTCAACCAATTGCTTCTT
Found at i:42621332 original size:37 final size:37
Alignment explanation
Indices: 42621273--42621374 Score: 168
Period size: 37 Copynumber: 2.8 Consensus size: 37
42621263 AGCTCAGACG
* *
42621273 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
42621310 AAATCTCCATACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
42621347 TAATCTCCACACGTAGTCATCGGGTCTT
1 AAATCTCCACACGTAGTCATCGGGTCTT
42621375 TAGAGCTCGG
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:42621665 original size:49 final size:47
Alignment explanation
Indices: 42621491--42621707 Score: 353
Period size: 47 Copynumber: 4.6 Consensus size: 47
42621481 CCCTTCGGGA
* * * *
42621491 CTTATCACATTTATACACTTTCACATCCATCACATCGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
42621538 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
42621585 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
42621632 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
42621681 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
42621708 TATTCAAATA
Statistics
Matches: 159, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
47 113 0.71
49 46 0.29
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:42621688 original size:96 final size:94
Alignment explanation
Indices: 42621491--42621707 Score: 353
Period size: 96 Copynumber: 2.3 Consensus size: 94
42621481 CCCTTCGGGA
* * * *
42621491 CTTATCACATTTATACACTTTCACATCCATCACATCGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATACAC
42621556 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* *
42621585 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCAC--ATATATAC
*
42621650 ACTTTCACATTCATCACATCGGCTATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
42621681 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
42621708 TATTCAAATA
Statistics
Matches: 114, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
94 49 0.43
96 65 0.57
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Done.