Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009267.1 Hibiscus syriacus cultivar Beakdansim tig00112925_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1725308
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 10
Found at i:3662 original size:20 final size:20
Alignment explanation
Indices: 3637--3685 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
3627 TGTTTATATA
3637 TGTTTGTGTATTTTTGAAGG
1 TGTTTGTGTATTTTTGAAGG
3657 TGTTTGTGTATTTTTGAAGG
1 TGTTTGTGTATTTTTGAAGG
*
3677 TGTTCGTGT
1 TGTTTGTGT
3686 TTGGTCCATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.12, C:0.02, G:0.31, T:0.55
Consensus pattern (20 bp):
TGTTTGTGTATTTTTGAAGG
Found at i:4645 original size:28 final size:28
Alignment explanation
Indices: 4613--4686 Score: 112
Period size: 28 Copynumber: 2.6 Consensus size: 28
4603 GGCACGTAGA
4613 ATATGTCCCGAAGGACCACATATAACAC
1 ATATGTCCCGAAGGACCACATATAACAC
* * *
4641 ATATGACTCAAAGGACCACATATAACAC
1 ATATGTCCCGAAGGACCACATATAACAC
*
4669 ATATATCCCGAAGGACCA
1 ATATGTCCCGAAGGACCA
4687 TGTAGAACCC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.42, C:0.27, G:0.14, T:0.18
Consensus pattern (28 bp):
ATATGTCCCGAAGGACCACATATAACAC
Found at i:8964 original size:28 final size:28
Alignment explanation
Indices: 8924--8996 Score: 128
Period size: 28 Copynumber: 2.6 Consensus size: 28
8914 GAAAGACCAC
*
8924 TATGTCCCGAAGGAGCACATATAACACA
1 TATGTCCCGAAGGACCACATATAACACA
*
8952 TATGTCTCGAAGGACCACATATAACACA
1 TATGTCCCGAAGGACCACATATAACACA
8980 TATGTCCCGAAGGACCA
1 TATGTCCCGAAGGACCA
8997 TGTAGAACCC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.19
Consensus pattern (28 bp):
TATGTCCCGAAGGACCACATATAACACA
Found at i:11304 original size:3 final size:3
Alignment explanation
Indices: 11296--11368 Score: 69
Period size: 3 Copynumber: 25.0 Consensus size: 3
11286 TTTTTTCATT
* * * *
11296 TTA TTA TTA TTA TAA TT- TT- TTT TTA TAA ATA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
11342 TTA TTA TTA TAA ATA ATA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
11369 CAAGCCAAAT
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
2 4 0.07
3 54 0.93
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:13504 original size:26 final size:24
Alignment explanation
Indices: 13465--13517 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 24
13455 AATTCTTTCC
*
13465 TTTCAAAATTTTTATATACTTATTAT
1 TTTCAAAATATTTATATA--TATTAT
* *
13491 TTTCATAATATTTATGTATATTAT
1 TTTCAAAATATTTATATATATTAT
13515 TTT
1 TTT
13518 TTATTTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 9 0.38
26 15 0.62
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (24 bp):
TTTCAAAATATTTATATATATTAT
Found at i:14904 original size:8 final size:7
Alignment explanation
Indices: 14873--14913 Score: 59
Period size: 7 Copynumber: 6.0 Consensus size: 7
14863 TTTTCATACA
14873 TGCATTT
1 TGCATTT
14880 T-CATTT
1 TGCATTT
14886 TGCATTT
1 TGCATTT
14893 TGCATCTT
1 TGCAT-TT
14901 TGCATTT
1 TGCATTT
14908 T-CATTT
1 TGCATTT
14914 ATACTTTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
6 11 0.34
7 14 0.44
8 7 0.22
ACGTcount: A:0.15, C:0.17, G:0.10, T:0.59
Consensus pattern (7 bp):
TGCATTT
Found at i:14904 original size:15 final size:13
Alignment explanation
Indices: 14873--14913 Score: 64
Period size: 13 Copynumber: 3.0 Consensus size: 13
14863 TTTTCATACA
14873 TGCATTTTCATTT
1 TGCATTTTCATTT
14886 TGCATTTTGCATCTT
1 TGCATTTT-CAT-TT
14901 TGCATTTTCATTT
1 TGCATTTTCATTT
14914 ATACTTTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 10 0.38
14 6 0.23
15 10 0.38
ACGTcount: A:0.15, C:0.17, G:0.10, T:0.59
Consensus pattern (13 bp):
TGCATTTTCATTT
Found at i:18266 original size:32 final size:32
Alignment explanation
Indices: 18226--18292 Score: 107
Period size: 32 Copynumber: 2.1 Consensus size: 32
18216 AGAGTCTGGA
** *
18226 AACAAGAAGTATCTCTAGGAGATGAGCATAAC
1 AACAAGAAGTATCTCTACCAGATAAGCATAAC
18258 AACAAGAAGTATCTCTACCAGATAAGCATAAC
1 AACAAGAAGTATCTCTACCAGATAAGCATAAC
18290 AAC
1 AAC
18293 CATTTCTTCA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.46, C:0.19, G:0.16, T:0.18
Consensus pattern (32 bp):
AACAAGAAGTATCTCTACCAGATAAGCATAAC
Found at i:20697 original size:75 final size:73
Alignment explanation
Indices: 20574--20822 Score: 242
Period size: 75 Copynumber: 3.4 Consensus size: 73
20564 ATCAACAAGA
* * * * *
20574 AACAAATGTTGGGGTATGTTGAAAGCCCATTTCAATCA-TAATCAGGAATATCGATGCGTTTTGA
1 AACAAATGTTGGGGCATGCTGAAAGCCCATTTCAATCAGAAAT-TGGAATAT-GA-GCATTTTGA
*
20638 ATGTTCACGTC
63 ATGTTCATGTC
* *
20649 AACAAATGTTGGGGCATGCTGAAAGCCCATTTCAATAAGAAATTGGAATATTGGCGCATTTTGAA
1 AACAAATGTTGGGGCATGCTGAAAGCCCATTTCAATCAGAAATTGGAATA-T-GAGCATTTTGAA
*
20714 CG-T-ATGT-
64 TGTTCATGTC
* *
20721 ATTAGCAAATGCTGGGGCATGCTGAAAGACCATTTCAATCAGAAATTGGAATA--A-CATTTTGA
1 A--A-CAAATGTTGGGGCATGCTGAAAGCCCATTTCAATCAGAAATTGGAATATGAGCATTTTGA
*
20783 ATGTTCATATC
63 ATGTTCATGTC
* * *
20794 AGCAAATATTGGGGCATGCTGAAGGCCCA
1 AACAAATGTTGGGGCATGCTGAAAGCCCA
20823 CATCATCATG
Statistics
Matches: 145, Mismatches: 21, Indels: 21
0.78 0.11 0.11
Matches are distributed among these distances:
70 33 0.23
71 1 0.01
72 4 0.03
73 4 0.03
74 2 0.01
75 96 0.66
76 5 0.03
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (73 bp):
AACAAATGTTGGGGCATGCTGAAAGCCCATTTCAATCAGAAATTGGAATATGAGCATTTTGAATG
TTCATGTC
Found at i:22182 original size:22 final size:22
Alignment explanation
Indices: 22154--22232 Score: 122
Period size: 22 Copynumber: 3.6 Consensus size: 22
22144 ACATCTACAT
22154 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
* * *
22176 TCTTCAAATATGGTAGATTATC
1 TCTTCAAAGATGATAGATTCTC
22198 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
22220 TTTTCAAAGATGA
1 TCTTCAAAGATGA
22233 AAGCCTTATT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 50 1.00
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (22 bp):
TCTTCAAAGATGATAGATTCTC
Found at i:22970 original size:45 final size:45
Alignment explanation
Indices: 22906--23392 Score: 713
Period size: 45 Copynumber: 10.7 Consensus size: 45
22896 TTCCCACATA
* *
22906 TGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCGGTTCATC
1 TGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATC
* *
22951 TGTAAGCCCTTTAGTGCATGATGTTTTCAAAACCTTCGGGTCATA
1 TGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATC
* *
22996 TGTAAGCCCTTTAGTGCATGATTTTTTCAAAACCTTCGGGTCATC
1 TGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATC
* * *
23041 TGTAATCCCTTAAGTGCATGATGTTTTCAAAACCTTCAGGTCATC
1 TGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATC
* * *
23086 TGTAAGCCCTTCAGTGCATGATGTTTTCAAAATCTTCGGATTATC
1 TGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATC
*
23131 TGTAAGCCCTTCAGTGCATAATGTTTTCAAAAACCTTCGGGTCATC
1 TGTAAGCCCTTCAGTGCATGATGTTTTC-AAAACCTTCGGGTCATC
*
23177 TGTAAGCCCTTCATTGCATGATGTTTTCAAAACCTTCGGGTCATC
1 TGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATC
*
23222 TGTAAGCCCTTCAGTGTATGATGTTTTCAAAACCTTCGGGTCATC
1 TGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATC
*
23267 TGTAAGCCCTTTAGTGCATGATGTTTTCAAAAAAACCTTCGGGTCATC
1 TGTAAGCCCTTCAGTGCATGATGTTTTC---AAAACCTTCGGGTCATC
* * * *
23315 CGTAAGACCTTCAGTGCAGGATGTTTTCAAAAAGCCTCCGGGTCATC
1 TGTAAGCCCTTCAGTGCATGATGTTTTC-AAAA-CCTTCGGGTCATC
* * *
23362 CGTAAGACCTTCAGTGCAGGATGTTTTCAAA
1 TGTAAGCCCTTCAGTGCATGATGTTTTCAAA
23393 TGAGATTTTA
Statistics
Matches: 406, Mismatches: 31, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
45 277 0.68
46 48 0.12
47 40 0.10
48 41 0.10
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.34
Consensus pattern (45 bp):
TGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATC
Found at i:23231 original size:136 final size:136
Alignment explanation
Indices: 22906--23392 Score: 733
Period size: 136 Copynumber: 3.6 Consensus size: 136
22896 TTCCCACATA
* * *
22906 TGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCGGTTCATCTGTAAGCCCTTTAGTGCATG
1 TGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATG
* *
22971 ATGTTTTCAAAACCTTCGGGTCATATGTAAGCCCTTTAGTGCATGATTTTTTC-AAAACCTTCGG
66 ATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTTAGTGCATGATGTTTTCAAAAACCTTCGG
23035 GTCATC
131 GTCATC
* * *
23041 TGTAATCCCTTAAGTGCATGATGTTTTCAAAACCTTCAGGTCATCTGTAAGCCCTTCAGTGCATG
1 TGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATG
* * * * *
23106 ATGTTTTCAAAATCTTCGGATTATCTGTAAGCCCTTCAGTGCATAATGTTTTCAAAAACCTTCGG
66 ATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTTAGTGCATGATGTTTTCAAAAACCTTCGG
23171 GTCATC
131 GTCATC
* *
23177 TGTAAGCCCTTCATTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGTATG
1 TGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATG
23242 ATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTTAGTGCATGATGTTTTCAAAAAAACCTTC
66 ATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTTAGTGCATGATGTTTTC--AAAAACCTTC
23307 GGGTCATC
129 GGGTCATC
* * * * * *
23315 CGTAAGACCTTCAGTGCAGGATGTTTTCAAAAAGCCTCCGGGTCATCCGTAAGACCTTCAGTGCA
1 TGTAAGCCCTTCAGTGCATGATGTTTTC-AAAA-CCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
*
23380 GGATGTTTTCAAA
64 TGATGTTTTCAAA
23393 TGAGATTTTA
Statistics
Matches: 315, Mismatches: 32, Indels: 5
0.89 0.09 0.01
Matches are distributed among these distances:
135 105 0.33
136 125 0.40
138 42 0.13
139 4 0.01
140 39 0.12
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.34
Consensus pattern (136 bp):
TGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATG
ATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTTAGTGCATGATGTTTTCAAAAACCTTCGG
GTCATC
Found at i:23647 original size:3 final size:3
Alignment explanation
Indices: 23636--23719 Score: 80
Period size: 3 Copynumber: 28.3 Consensus size: 3
23626 ACTAATTTTT
* * * * * *
23636 TTA TT- TTA TTA TTA TTA TAA TTA TTT TTA TAA ATA TTT TTA TTA TTG
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
23683 TTA TTA TTA TTA TTA TTA TTA TAA ATA ATA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
23720 ACAGGCCAAA
Statistics
Matches: 64, Mismatches: 16, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
2 2 0.03
3 62 0.97
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:23841 original size:23 final size:23
Alignment explanation
Indices: 23811--23887 Score: 91
Period size: 23 Copynumber: 3.3 Consensus size: 23
23801 TTAGCATCTT
*
23811 CTCCGCCGCCTCTACTCTAACTG
1 CTCCGCCGCCTCTACTCCAACTG
23834 CTCCGCCGCCTCTACTCCAACTG
1 CTCCGCCGCCTCTACTCCAACTG
** ***
23857 CTATGTTACCTCTACTCCAACTG
1 CTCCGCCGCCTCTACTCCAACTG
*
23880 CTCTGCCG
1 CTCCGCCG
23888 TCATGTTCCC
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.14, C:0.45, G:0.13, T:0.27
Consensus pattern (23 bp):
CTCCGCCGCCTCTACTCCAACTG
Found at i:26614 original size:41 final size:41
Alignment explanation
Indices: 26568--26691 Score: 158
Period size: 41 Copynumber: 3.0 Consensus size: 41
26558 CATTTTTTGA
* * * *
26568 ACAAACACCACAAAAGACTCTTACTTTAGTGGTGTTTGTAT
1 ACAAACGCCACTAAAGACTCTTACTTTAGTGGCGTTTATAT
* * *
26609 ACAAACGCCGCTAAAGACTCTTACTTTCGTGGCATTTATAT
1 ACAAACGCCACTAAAGACTCTTACTTTAGTGGCGTTTATAT
* * *
26650 ACAAACGCCACTAAAGATTCGTACTGTAGTGGCGTTTATAT
1 ACAAACGCCACTAAAGACTCTTACTTTAGTGGCGTTTATAT
26691 A
1 A
26692 AAAATGTCGT
Statistics
Matches: 70, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 70 1.00
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (41 bp):
ACAAACGCCACTAAAGACTCTTACTTTAGTGGCGTTTATAT
Found at i:26788 original size:43 final size:41
Alignment explanation
Indices: 26719--26820 Score: 105
Period size: 43 Copynumber: 2.4 Consensus size: 41
26709 TTGTACTTTC
* *
26719 GTGGTGTTTTTATACAAACGTCGCTATAGAGTCATAATTTA
1 GTGGTGTTTTTATACAAACATCGCTATAGACTCATAATTTA
* * * *
26760 GTGGTGTTTGTGTTTACAAACATTGCTATATACTCGTAATTTA
1 GTGGTGTTT-T-TATACAAACATCGCTATAGACTCATAATTTA
* **
26803 GAGGCATTTTTATACAAA
1 GTGGTGTTTTTATACAAA
26821 TGCCGCTAAA
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
41 16 0.33
42 2 0.04
43 31 0.63
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (41 bp):
GTGGTGTTTTTATACAAACATCGCTATAGACTCATAATTTA
Found at i:27854 original size:21 final size:22
Alignment explanation
Indices: 27825--27882 Score: 75
Period size: 21 Copynumber: 2.7 Consensus size: 22
27815 TCGAGGGTTT
* *
27825 TATGCGGTCCTTCGGGACA-TC
1 TATGTGGTCCTTCAGGACATTC
27846 TATGTGGTCCTTCAGGACATTC
1 TATGTGGTCCTTCAGGACATTC
27868 TATGTGG-CACTTCAG
1 TATGTGGTC-CTTCAG
27883 TGCAATTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 18 0.55
22 15 0.45
ACGTcount: A:0.17, C:0.24, G:0.26, T:0.33
Consensus pattern (22 bp):
TATGTGGTCCTTCAGGACATTC
Found at i:34783 original size:37 final size:37
Alignment explanation
Indices: 34742--34846 Score: 187
Period size: 37 Copynumber: 2.9 Consensus size: 37
34732 CCATGCAATT
34742 TAGGCTCTCAAATAGGACATGTATAAATCATGCACAA
1 TAGGCTCTCAAATAGGACATGTATAAATCATGCACAA
*
34779 TAGGCTCTCAAATAGGTCATGTATAAATCATGCACAA
1 TAGGCTCTCAAATAGGACATGTATAAATCATGCACAA
34816 TAGGCTCTCAAATAGGACATG--TAAATCATGC
1 TAGGCTCTCAAATAGGACATGTATAAATCATGC
34847 TTTAAAAATA
Statistics
Matches: 66, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
35 10 0.15
37 56 0.85
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (37 bp):
TAGGCTCTCAAATAGGACATGTATAAATCATGCACAA
Found at i:37453 original size:16 final size:16
Alignment explanation
Indices: 37429--37481 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
37419 TGTGTGGCTT
*
37429 GCAAATTGACAAGTTG
1 GCAAGTTGACAAGTTG
*
37445 GCAAGTTGA-AGGCTT-
1 GCAAGTTGACAAG-TTG
37460 GCAAGTTGACAAGTTG
1 GCAAGTTGACAAGTTG
37476 GCAAGT
1 GCAAGT
37482 GGCCAACTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
15 13 0.42
16 18 0.58
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.25
Consensus pattern (16 bp):
GCAAGTTGACAAGTTG
Found at i:37535 original size:44 final size:44
Alignment explanation
Indices: 37472--37587 Score: 196
Period size: 44 Copynumber: 2.6 Consensus size: 44
37462 AAGTTGACAA
37472 GTTGGCAAGTGGCCAACTTGTGCACATGGAATAATTCATCTTTG
1 GTTGGCAAGTGGCCAACTTGTGCACATGGAATAATTCATCTTTG
*
37516 GTTGGCAAGTGGCCAACTTGTGCACATGGGATAATTCATCTTTG
1 GTTGGCAAGTGGCCAACTTGTGCACATGGAATAATTCATCTTTG
* **
37560 GTTGGAAAGCAGCCAACTTGTGCACATG
1 GTTGGCAAGTGGCCAACTTGTGCACATG
37588 AGAACTTCAT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 68 1.00
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (44 bp):
GTTGGCAAGTGGCCAACTTGTGCACATGGAATAATTCATCTTTG
Found at i:38427 original size:44 final size:43
Alignment explanation
Indices: 38355--38443 Score: 126
Period size: 44 Copynumber: 2.0 Consensus size: 43
38345 TAGTTTAGGG
38355 ACCAAAGATGAAATTTACATGTGCACAAGTTGACCACTTGCCA
1 ACCAAAGATGAAATTTACATGTGCACAAGTTGACCACTTGCCA
* * *
38398 ACCAAAGATG-AATTATCCCATGTGCACAAGTTGGCCACTTGTCA
1 ACCAAAGATGAAATT-T-ACATGTGCACAAGTTGACCACTTGCCA
38442 AC
1 AC
38444 TTGCAAGCCA
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
42 4 0.10
43 11 0.27
44 26 0.63
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.24
Consensus pattern (43 bp):
ACCAAAGATGAAATTTACATGTGCACAAGTTGACCACTTGCCA
Found at i:39677 original size:14 final size:15
Alignment explanation
Indices: 39648--39679 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
39638 AGATAATTAA
39648 AATAATATATTTTAT
1 AATAATATATTTTAT
39663 AATAATATA-TTTAT
1 AATAATATATTTTAT
39677 AAT
1 AAT
39680 TTTTTTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
AATAATATATTTTAT
Found at i:42691 original size:60 final size:59
Alignment explanation
Indices: 42622--42782 Score: 155
Period size: 60 Copynumber: 2.7 Consensus size: 59
42612 GATTAATTTG
*
42622 GGGATGAAATTAGAATATTCAAAAGTTTGGAA-ACTAATTTAGAAAGAGGGTCATAGCTTA
1 GGGATGAAATTAGAATATTCAAAAGTTT--AAGACTAATTTAGAAAGAGAGTCATAGCTTA
* * * * *
42682 GGGATGAAATTAGAATGTTTAGAAGTTTAAGGACTAATTTAGAATGAGAGTCATAG-TTT
1 GGGATGAAATTAGAATATTCAAAAGTTTAA-GACTAATTTAGAAAGAGAGTCATAGCTTA
** * * * *
42741 GAGGACAAAATAAGAACATTCAAAAGTGTAAGGACCAATTTA
1 G-GGATGAAATTAGAATATTCAAAAGTTTAA-GACTAATTTA
42783 AAATGAAGGT
Statistics
Matches: 83, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
58 2 0.02
59 3 0.04
60 78 0.94
ACGTcount: A:0.42, C:0.07, G:0.23, T:0.28
Consensus pattern (59 bp):
GGGATGAAATTAGAATATTCAAAAGTTTAAGACTAATTTAGAAAGAGAGTCATAGCTTA
Found at i:43754 original size:17 final size:16
Alignment explanation
Indices: 43723--43753 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
43713 AATACTGAAA
*
43723 CTTGAACTCAAAAAAG
1 CTTGAACTAAAAAAAG
43739 CTTGAACTAAAAAAA
1 CTTGAACTAAAAAAA
43754 ATTTAGAAGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.16, G:0.10, T:0.19
Consensus pattern (16 bp):
CTTGAACTAAAAAAAG
Found at i:45010 original size:17 final size:17
Alignment explanation
Indices: 44983--45021 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
44973 AATTTACAAT
44983 TAATT-TAAATAATATC
1 TAATTATAAATAATATC
44999 TAATTATAAATAATATC
1 TAATTATAAATAATATC
45016 TAATTA
1 TAATTA
45022 ATTTGATTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATTATAAATAATATC
Found at i:46130 original size:45 final size:44
Alignment explanation
Indices: 46057--46176 Score: 131
Period size: 45 Copynumber: 2.7 Consensus size: 44
46047 TTATAAATGA
* *
46057 TACTTAAAATATTATTTGTTTA-CTGAAAATTTTAATATTAGACA-C
1 TACTTAAAATATTATTTTTTTATC-GAAAATTGTAATATT-GA-AGC
* *
46102 TACTT-AAATATTATTTTTTCTATCGAAAATGGTAATATTGAATGT
1 TACTTAAAATATTATTTTTT-TATCGAAAATTGTAATATTGAA-GC
46147 TACTTAAAATATTA-TTTTTTATCGAAAATT
1 TACTTAAAATATTATTTTTTTATCGAAAATT
46177 AACTAACGAA
Statistics
Matches: 65, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
43 1 0.02
44 25 0.38
45 30 0.46
46 9 0.14
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.47
Consensus pattern (44 bp):
TACTTAAAATATTATTTTTTTATCGAAAATTGTAATATTGAAGC
Found at i:47042 original size:15 final size:15
Alignment explanation
Indices: 47022--47054 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
47012 TTAATTGATC
47022 AGTAGATCGGATACT
1 AGTAGATCGGATACT
47037 AGTAGATCGGATACT
1 AGTAGATCGGATACT
47052 AGT
1 AGT
47055 TATTAATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.27
Consensus pattern (15 bp):
AGTAGATCGGATACT
Found at i:60321 original size:2 final size:2
Alignment explanation
Indices: 60314--60342 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
60304 ATATCACCAA
60314 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
60343 GAGAGAGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:81266 original size:60 final size:60
Alignment explanation
Indices: 81168--81357 Score: 194
Period size: 60 Copynumber: 3.2 Consensus size: 60
81158 ATCATACATT
** *
81168 CTCAAACTATGACT-TTTTTCCTAAATTAGTCCAAAAACTTTT-AA-ATATTCTAATTTTATC
1 CTCAAACTATGACTATCATT-CTAAATTAGTCCACAAACTTTTGAACAT-TTC-AATTTTATC
* * *
81228 C-CTAAACTATGACTATGATTCTAAATTAGTCCTCAAACTTTTGAACATTTCATTTTTATC
1 CTC-AAACTATGACTATCATTCTAAATTAGTCCACAAACTTTTGAACATTTCAATTTTATC
* * * *
81288 CTCAACCTATGAC-ATTCATTCTAAATTGGTCCCCAAACTTTTTGAACATTTCAATTTCATC
1 CTCAAACTATGACTA-TCATTCTAAATTAGTCCACAAAC-TTTTGAACATTTCAATTTTATC
81349 C-CAAACTAT
1 CTCAAACTAT
81358 ACATACATGC
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
59 2 0.02
60 77 0.69
61 30 0.27
62 2 0.02
ACGTcount: A:0.33, C:0.22, G:0.05, T:0.40
Consensus pattern (60 bp):
CTCAAACTATGACTATCATTCTAAATTAGTCCACAAACTTTTGAACATTTCAATTTTATC
Found at i:81380 original size:16 final size:16
Alignment explanation
Indices: 81359--82137 Score: 617
Period size: 16 Copynumber: 48.3 Consensus size: 16
81349 CCAAACTATA
*
81359 CATACATGCAGGCAGG
1 CATACATGCAGGCATG
*
81375 CATACATGCATGCATG
1 CATACATGCAGGCATG
81391 CATACATGCAGGCATG
1 CATACATGCAGGCATG
*
81407 CATACATGCATGCATG
1 CATACATGCAGGCATG
*
81423 CATACGTGCAGGCATG
1 CATACATGCAGGCATG
*
81439 CATACATGCATGCATG
1 CATACATGCAGGCATG
*
81455 CATACGTGCAGGCATG
1 CATACATGCAGGCATG
*
81471 CATACATGCATGCATG
1 CATACATGCAGGCATG
*
81487 CATACGTGCAGGCATG
1 CATACATGCAGGCATG
81503 CATACATGCAGGCATG
1 CATACATGCAGGCATG
*
81519 CATACGTGCAGGCATG
1 CATACATGCAGGCATG
81535 CATACATGCAGGCATG
1 CATACATGCAGGCATG
* *
81551 CATACATACATGCATG
1 CATACATGCAGGCATG
** *
81567 CATACATATAGGCATA
1 CATACATGCAGGCATG
* *
81583 CATACATACATGCATG
1 CATACATGCAGGCATG
* ** **
81599 CATACGTATATACATG
1 CATACATGCAGGCATG
* ** * *
81615 CATGCATGCATACGTA
1 CATACATGCAGGCATG
**
81631 CATACATGCATACATG
1 CATACATGCAGGCATG
* * ** *
81647 CATACGTACATACATA
1 CATACATGCAGGCATG
** * *
81663 CATACATGCATACGTA
1 CATACATGCAGGCATG
**
81679 CATACATGCATACATG
1 CATACATGCAGGCATG
* * **
81695 CATACGTACATACATG
1 CATACATGCAGGCATG
*
81711 CATACATGCA--TATG
1 CATACATGCAGGCATG
* * * *
81725 CATGCCTGCACGTATG
1 CATACATGCAGGCATG
* * *
81741 CATGCATGCATGTATG
1 CATACATGCAGGCATG
* * * *
81757 CATGCCTGCACGTATG
1 CATACATGCAGGCATG
* * * *
81773 CATGCCTGCATGTATG
1 CATACATGCAGGCATG
* * * *
81789 CATGCCTGCACGTATG
1 CATACATGCAGGCATG
* * *
81805 CATGCATGCATGTATG
1 CATACATGCAGGCATG
* * * *
81821 CATGCCTGCACGTATG
1 CATACATGCAGGCATG
* * *
81837 CATGCATGCATGTATG
1 CATACATGCAGGCATG
* *
81853 CATGCCTGCACGTATGCATG
1 CATACATGCA-G---GCATG
* * *
81873 CATGCATGTATGCATG
1 CATACATGCAGGCATG
* *
81889 CCTGCACGTATGCATGCATG
1 CAT--AC--ATGCAGGCATG
81909 CATACATGCAGGCATG
1 CATACATGCAGGCATG
*
81925 CATACGTGCAGGCATG
1 CATACATGCAGGCATG
*
81941 CATACATGCATGCATG
1 CATACATGCAGGCATG
*
81957 CATACGTGCAGGCATG
1 CATACATGCAGGCATG
*
81973 CATACATGCATGCATG
1 CATACATGCAGGCATG
*
81989 CATACGTGCAGGCATG
1 CATACATGCAGGCATG
*
82005 CATACATGCATGCATG
1 CATACATGCAGGCATG
*
82021 CATACGTGCAGGCATG
1 CATACATGCAGGCATG
82037 CATACATGCAGGCATG
1 CATACATGCAGGCATG
*
82053 CATACGTGCAGGCATG
1 CATACATGCAGGCATG
82069 CATACATGCAGGCATG
1 CATACATGCAGGCATG
* *
82085 CATACATACATGCATG
1 CATACATGCAGGCATG
** *
82101 CATACATATAGGCATA
1 CATACATGCAGGCATG
* *
82117 CATACATACATGCATG
1 CATACATGCAGGCATG
82133 CATAC
1 CATAC
82138 GTATATACAT
Statistics
Matches: 654, Mismatches: 99, Indels: 20
0.85 0.13 0.03
Matches are distributed among these distances:
14 11 0.02
16 616 0.94
18 3 0.00
20 24 0.04
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.24
Consensus pattern (16 bp):
CATACATGCAGGCATG
Found at i:81400 original size:32 final size:32
Alignment explanation
Indices: 81359--82255 Score: 754
Period size: 32 Copynumber: 27.8 Consensus size: 32
81349 CCAAACTATA
* *
81359 CATACATGCAGGCAGGCATACATGCATGCATG
1 CATACATGCATGCATGCATACATGCATGCATG
*
81391 CATACATGCAGGCATGCATACATGCATGCATG
1 CATACATGCATGCATGCATACATGCATGCATG
* *
81423 CATACGTGCAGGCATGCATACATGCATGCATG
1 CATACATGCATGCATGCATACATGCATGCATG
* *
81455 CATACGTGCAGGCATGCATACATGCATGCATG
1 CATACATGCATGCATGCATACATGCATGCATG
* * *
81487 CATACGTGCAGGCATGCATACATGCAGGCATG
1 CATACATGCATGCATGCATACATGCATGCATG
* * *
81519 CATACGTGCAGGCATGCATACATGCAGGCATG
1 CATACATGCATGCATGCATACATGCATGCATG
* * *
81551 CATACATACATGCATGCATACATATAGGCATACATA
1 CATACATGCATGCATGCATAC--AT--GCATGCATG
*
81587 CATACATGCATGCATACGTATATACATGCATGCATG
1 CATACATGCATGCAT--G--CATACATGCATGCATG
* * * * * *
81623 CATACGTACATACATGCATACATGCATACGTA
1 CATACATGCATGCATGCATACATGCATGCATG
* * * * *
81655 CATACATACATACATGCATACGTACATACATG
1 CATACATGCATGCATGCATACATGCATGCATG
* * * *
81687 CATACATGCATACGTACATACATGCATACATG
1 CATACATGCATGCATGCATACATGCATGCATG
* ***
81719 CAT--ATGCATGCCTGCACGTATGCATGCATG
1 CATACATGCATGCATGCATACATGCATGCATG
** * *** *
81749 CATGTATGCATGCCTGCACGTATGCATGCCTG
1 CATACATGCATGCATGCATACATGCATGCATG
** * ***
81781 CATGTATGCATGCCTGCACGTATGCATGCATG
1 CATACATGCATGCATGCATACATGCATGCATG
** * ***
81813 CATGTATGCATGCCTGCACGTATGCATGCATG
1 CATACATGCATGCATGCATACATGCATGCATG
** * ***
81845 CATGTATGCATGCCTGCACGTATGCATGCATG
1 CATACATGCATGCATGCATACATGCATGCATG
** * ***
81877 CATGTATGCATGCCTGCACGTATGCATGCATG
1 CATACATGCATGCATGCATACATGCATGCATG
* * *
81909 CATACATGCAGGCATGCATACGTGCAGGCATG
1 CATACATGCATGCATGCATACATGCATGCATG
* *
81941 CATACATGCATGCATGCATACGTGCAGGCATG
1 CATACATGCATGCATGCATACATGCATGCATG
* *
81973 CATACATGCATGCATGCATACGTGCAGGCATG
1 CATACATGCATGCATGCATACATGCATGCATG
* *
82005 CATACATGCATGCATGCATACGTGCAGGCATG
1 CATACATGCATGCATGCATACATGCATGCATG
* * *
82037 CATACATGCAGGCATGCATACGTGCAGGCATG
1 CATACATGCATGCATGCATACATGCATGCATG
* *
82069 CATACATGCAGGCATGCATACATACATGCATG
1 CATACATGCATGCATGCATACATGCATGCATG
** * * *
82101 CATACATATAGGCATACATACATACATGCATG
1 CATACATGCATGCATGCATACATGCATGCATG
* ** * * * * *
82133 CATACGTATATACATGCATGCATGCATACGTA
1 CATACATGCATGCATGCATACATGCATGCATG
* * * * *
82165 CATACATGCATACATGCATACGTACATACATA
1 CATACATGCATGCATGCATACATGCATGCATG
* * * *
82197 CATACATGCATACGTACATACATGCATACATG
1 CATACATGCATGCATGCATACATGCATGCATG
* * *
82229 CATACGTACATACATGCATACATGCAT
1 CATACATGCATGCATGCATACATGCAT
82256 AAGTATATAA
Statistics
Matches: 774, Mismatches: 81, Indels: 20
0.88 0.09 0.02
Matches are distributed among these distances:
30 23 0.03
32 702 0.91
34 3 0.00
36 39 0.05
38 3 0.00
40 4 0.01
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.24
Consensus pattern (32 bp):
CATACATGCATGCATGCATACATGCATGCATG
Found at i:81438 original size:48 final size:48
Alignment explanation
Indices: 81359--82255 Score: 754
Period size: 48 Copynumber: 18.6 Consensus size: 48
81349 CCAAACTATA
* * *
81359 CATACATGCAGGCAGGCATACATGCATGCATGCATACATGCAGGCATG
1 CATACATGCATGCATGCATACATGCATGCATGCATACATGCATGCATG
* *
81407 CATACATGCATGCATGCATACGTGCAGGCATGCATACATGCATGCATG
1 CATACATGCATGCATGCATACATGCATGCATGCATACATGCATGCATG
* * * *
81455 CATACGTGCAGGCATGCATACATGCATGCATGCATACGTGCAGGCATG
1 CATACATGCATGCATGCATACATGCATGCATGCATACATGCATGCATG
* * * *
81503 CATACATGCAGGCATGCATACGTGCAGGCATGCATACATGCAGGCATG
1 CATACATGCATGCATGCATACATGCATGCATGCATACATGCATGCATG
* * *
81551 CATACATACATGCATGCATACATATAGGCATACATACATACATGCATGCATACG
1 CATACATGCATGCATGCATAC--AT--GCATGCATGCATACATGCATGCAT--G
* * * * * * *
81605 TATATACATGCATGCATGCATACGTACATACATGCATACATGCATACGTA
1 --CATACATGCATGCATGCATACATGCATGCATGCATACATGCATGCATG
* * * * * * * *
81655 CATACATACATACATGCATACGTACATACATGCATACATGCATACGTA
1 CATACATGCATGCATGCATACATGCATGCATGCATACATGCATGCATG
* * ***
81703 CATACATGCATACATGCAT--ATGCATGCCTGCACGTATGCATGCATG
1 CATACATGCATGCATGCATACATGCATGCATGCATACATGCATGCATG
** * *** * ** *
81749 CATGTATGCATGCCTGCACGTATGCATGCCTGCATGTATGCATGCCTG
1 CATACATGCATGCATGCATACATGCATGCATGCATACATGCATGCATG
*** ** * ***
81797 CACGTATGCATGCATGCATGTATGCATGCCTGCACGTATGCATGCATG
1 CATACATGCATGCATGCATACATGCATGCATGCATACATGCATGCATG
** * *** ** *
81845 CATGTATGCATGCCTGCACGTATGCATGCATGCATGTATGCATGCCTG
1 CATACATGCATGCATGCATACATGCATGCATGCATACATGCATGCATG
*** * * *
81893 CACGTATGCATGCATGCATACATGCAGGCATGCATACGTGCAGGCATG
1 CATACATGCATGCATGCATACATGCATGCATGCATACATGCATGCATG
* *
81941 CATACATGCATGCATGCATACGTGCAGGCATGCATACATGCATGCATG
1 CATACATGCATGCATGCATACATGCATGCATGCATACATGCATGCATG
* * * *
81989 CATACGTGCAGGCATGCATACATGCATGCATGCATACGTGCAGGCATG
1 CATACATGCATGCATGCATACATGCATGCATGCATACATGCATGCATG
* * * *
82037 CATACATGCAGGCATGCATACGTGCAGGCATGCATACATGCAGGCATG
1 CATACATGCATGCATGCATACATGCATGCATGCATACATGCATGCATG
* ** * * *
82085 CATACATACATGCATGCATACATATAGGCATACATACATACATGCATG
1 CATACATGCATGCATGCATACATGCATGCATGCATACATGCATGCATG
* ** * * * * * *
82133 CATACGTATATACATGCATGCATGCATACGTACATACATGCATACATG
1 CATACATGCATGCATGCATACATGCATGCATGCATACATGCATGCATG
* * * * * * * *
82181 CATACGTACATACATACATACATGCATACGTACATACATGCATACATG
1 CATACATGCATGCATGCATACATGCATGCATGCATACATGCATGCATG
* * *
82229 CATACGTACATACATGCATACATGCAT
1 CATACATGCATGCATGCATACATGCAT
82256 AAGTATATAA
Statistics
Matches: 727, Mismatches: 112, Indels: 20
0.85 0.13 0.02
Matches are distributed among these distances:
46 31 0.04
48 634 0.87
50 1 0.00
52 40 0.06
54 2 0.00
56 19 0.03
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.24
Consensus pattern (48 bp):
CATACATGCATGCATGCATACATGCATGCATGCATACATGCATGCATG
Found at i:82148 original size:16 final size:16
Alignment explanation
Indices: 81901--82256 Score: 216
Period size: 16 Copynumber: 22.5 Consensus size: 16
81891 TGCACGTATG
* *
81901 CATGCATGCATACATG
1 CATGCATACATACATA
* * * *
81917 CAGGCATGCATACGTG
1 CATGCATACATACATA
* * *
81933 CAGGCATGCATACATG
1 CATGCATACATACATA
* * *
81949 CATGCATGCATACGTG
1 CATGCATACATACATA
* * *
81965 CAGGCATGCATACATG
1 CATGCATACATACATA
* * *
81981 CATGCATGCATACGTG
1 CATGCATACATACATA
* * *
81997 CAGGCATGCATACATG
1 CATGCATACATACATA
* * *
82013 CATGCATGCATACGTG
1 CATGCATACATACATA
* * *
82029 CAGGCATGCATACATG
1 CATGCATACATACATA
* * * *
82045 CAGGCATGCATACGTG
1 CATGCATACATACATA
* * *
82061 CAGGCATGCATACATG
1 CATGCATACATACATA
* *
82077 CAGGCATGCATACATA
1 CATGCATACATACATA
*
82093 CATGCATGCATACATA
1 CATGCATACATACATA
* *
82109 TAGGCATACATACATA
1 CATGCATACATACATA
* *
82125 CATGCATGCATACGT-
1 CATGCATACATACATA
* *
82140 -AT--ATACATGCATG
1 CATGCATACATACATA
*
82153 CATGCATACGTACATA
1 CATGCATACATACATA
*
82169 CATGCATACATGCATA
1 CATGCATACATACATA
* *
82185 CGTACATACATACATA
1 CATGCATACATACATA
*
82201 CATGCATACGTACATA
1 CATGCATACATACATA
*
82217 CATGCATACATGCATA
1 CATGCATACATACATA
* * *
82233 CGTACATACATGCATA
1 CATGCATACATACATA
82249 CATGCATA
1 CATGCATA
82257 AGTATATAAG
Statistics
Matches: 290, Mismatches: 46, Indels: 8
0.84 0.13 0.02
Matches are distributed among these distances:
12 7 0.02
14 4 0.01
16 279 0.96
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.23
Consensus pattern (16 bp):
CATGCATACATACATA
Found at i:82279 original size:24 final size:24
Alignment explanation
Indices: 81941--82256 Score: 254
Period size: 24 Copynumber: 12.8 Consensus size: 24
81931 TGCAGGCATG
* *
81941 CATACATGCATGCATGCATACGTG
1 CATACATGCATACATGCATACGTA
** * * *
81965 CAGGCATGCATACATGCATGCATG
1 CATACATGCATACATGCATACGTA
* ** * *
81989 CATACGTGCAGGCATGCATACATG
1 CATACATGCATACATGCATACGTA
* * ** * *
82013 CATGCATGCATACGTGCAGGCATG
1 CATACATGCATACATGCATACGTA
** *
82037 CATACATGCAGGCATGCATACGTG
1 CATACATGCATACATGCATACGTA
** ** * *
82061 CAGGCATGCATACATGCAGGCATG
1 CATACATGCATACATGCATACGTA
* * *
82085 CATACATACATGCATGCATACATATA
1 CATACATGCATACATGCATAC--GTA
*
82111 GGCATACATACATACATGCATGCATACGTA
1 --CATACATGCAT--A--CATGCATACGTA
* *
82141 TATACATGCATGCATGCATACGTA
1 CATACATGCATACATGCATACGTA
82165 CATACATGCATACATGCATACGTA
1 CATACATGCATACATGCATACGTA
*
82189 CATACATACATACATGCATACGTA
1 CATACATGCATACATGCATACGTA
82213 CATACATGCATACATGCATACGTA
1 CATACATGCATACATGCATACGTA
82237 CATACATGCATACATGCATA
1 CATACATGCATACATGCATA
82257 AGTATATAAG
Statistics
Matches: 236, Mismatches: 48, Indels: 16
0.79 0.16 0.05
Matches are distributed among these distances:
24 203 0.86
26 2 0.01
28 20 0.08
30 2 0.01
32 9 0.04
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.23
Consensus pattern (24 bp):
CATACATGCATACATGCATACGTA
Found at i:82288 original size:32 final size:32
Alignment explanation
Indices: 82234--82320 Score: 147
Period size: 32 Copynumber: 2.7 Consensus size: 32
82224 ACATGCATAC
*
82234 GTACATACATGCATACATGCATAAGTATATAA
1 GTACATGCATGCATACATGCATAAGTATATAA
82266 GTACATGCATGCATACATGCATAAGTATATAA
1 GTACATGCATGCATACATGCATAAGTATATAA
* *
82298 GTACTTGCATGCATACACGCATA
1 GTACATGCATGCATACATGCATA
82321 CATGCATATG
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 52 1.00
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (32 bp):
GTACATGCATGCATACATGCATAAGTATATAA
Found at i:82325 original size:48 final size:48
Alignment explanation
Indices: 81909--82328 Score: 228
Period size: 48 Copynumber: 8.8 Consensus size: 48
81899 TGCATGCATG
* * * * ** * * *
81909 CATACATGCAGGCATGCATACGTGCAGGCATGCATACATGCATGCATG
1 CATACATACATGCATGCATACATACATACATGCATACATGCATACGTA
* * * * * * ** * *
81957 CATACGTGCAGGCATGCATACATGCATGCATGCATACGTGCAGGCATG
1 CATACATACATGCATGCATACATACATACATGCATACATGCATACGTA
* * * ** *
82005 CATACATGCATGCATGCATACGTGCAGGCATGCATACATGC--A-G-G
1 CATACATACATGCATGCATACATACATACATGCATACATGCATACGTA
* * * * * * * * * *
82049 CATGCATACGTGCAGGCATGCATACATGCAGGCATGCATACATACATG
1 CATACATACATGCATGCATACATACATACATGCATACATGCATACGTA
* ** *
82097 CATGCATACATATAGGCATACATACATACATG----CATGCATACGTA
1 CATACATACATGCATGCATACATACATACATGCATACATGCATACGTA
* * *
82141 TATACATGCATGCATGCATACGTACATACATGCATACATGCATACGTA
1 CATACATACATGCATGCATACATACATACATGCATACATGCATACGTA
* *
82189 CATACATACATACATGCATACGTACATACATGCATACATGCATACGTA
1 CATACATACATGCATGCATACATACATACATGCATACATGCATACGTA
* * * *
82237 CATACATGCATACATGCATAAGTATATAAGTACATGCATGCATACATGCATAAGTA
1 CAT--A--CATACATGCAT--GCATA-CA-TACATACATGCATACATGCATACGTA
* * **
82293 TATA-AGTACTTGCATGCATACACGCATACATGCATA
1 CATACA-TACATGCATGCATACATACATACATGCATA
82329 TGTACGTACG
Statistics
Matches: 299, Mismatches: 56, Indels: 34
0.77 0.14 0.09
Matches are distributed among these distances:
44 65 0.22
46 1 0.00
48 177 0.59
49 1 0.00
50 5 0.02
51 1 0.00
52 18 0.06
54 5 0.02
56 26 0.09
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (48 bp):
CATACATACATGCATGCATACATACATACATGCATACATGCATACGTA
Found at i:82339 original size:4 final size:4
Alignment explanation
Indices: 82330--82373 Score: 52
Period size: 4 Copynumber: 11.0 Consensus size: 4
82320 ACATGCATAT
* * * *
82330 GTAC GTAC GTAC ATAC GTAC GTAC ATAC ATAC GAAC GTAC GTAC
1 GTAC GTAC GTAC GTAC GTAC GTAC GTAC GTAC GTAC GTAC GTAC
82374 ATACATACTA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (4 bp):
GTAC
Found at i:82344 original size:16 final size:16
Alignment explanation
Indices: 82325--82377 Score: 79
Period size: 16 Copynumber: 3.3 Consensus size: 16
82315 CGCATACATG
*
82325 CATATGTACGTACGTA
1 CATACGTACGTACGTA
*
82341 CATACGTACGTACATA
1 CATACGTACGTACGTA
*
82357 CATACGAACGTACGTA
1 CATACGTACGTACGTA
82373 CATAC
1 CATAC
82378 ATACTAATCA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.25
Consensus pattern (16 bp):
CATACGTACGTACGTA
Found at i:82348 original size:12 final size:12
Alignment explanation
Indices: 82331--82381 Score: 66
Period size: 12 Copynumber: 4.2 Consensus size: 12
82321 CATGCATATG
82331 TACGTACGTACA
1 TACGTACGTACA
82343 TACGTACGTACA
1 TACGTACGTACA
* * *
82355 TACATACGAACG
1 TACGTACGTACA
*
82367 TACGTACATACA
1 TACGTACGTACA
82379 TAC
1 TAC
82382 TAATCACATC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.24
Consensus pattern (12 bp):
TACGTACGTACA
Found at i:82378 original size:20 final size:20
Alignment explanation
Indices: 82344--82381 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
82334 GTACGTACAT
82344 ACGTACGTACATACATACGA
1 ACGTACGTACATACATACGA
82364 ACGTACGTACATACATAC
1 ACGTACGTACATACATAC
82382 TAATCACATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.26, G:0.13, T:0.21
Consensus pattern (20 bp):
ACGTACGTACATACATACGA
Found at i:82598 original size:60 final size:60
Alignment explanation
Indices: 82529--82643 Score: 140
Period size: 60 Copynumber: 1.9 Consensus size: 60
82519 TTTGGGGACC
* ** * * * * *
82529 AATTTAGAATGATGATCATAATTTGGGGATGATATCAGATTGTTCAAAAGTTTAAGGCCT
1 AATTAAGAATGAAAATCATAATTTGAGGATGAAATCAAAATATTCAAAAGTTTAAGGCCT
* *
82589 AATTAAGAATGAAAATCATAGTTTGAGGATGAAATTAAAATATTCAAAAGTTTAA
1 AATTAAGAATGAAAATCATAATTTGAGGATGAAATCAAAATATTCAAAAGTTTAA
82644 AGATCAATTT
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
60 45 1.00
ACGTcount: A:0.43, C:0.06, G:0.18, T:0.33
Consensus pattern (60 bp):
AATTAAGAATGAAAATCATAATTTGAGGATGAAATCAAAATATTCAAAAGTTTAAGGCCT
Found at i:92362 original size:46 final size:46
Alignment explanation
Indices: 92285--92381 Score: 131
Period size: 46 Copynumber: 2.1 Consensus size: 46
92275 AAGTGCCACA
* * * *
92285 TAGAAATGTCCTAAAGGACCACATAGTATTGTCCCGAATGACCGCG
1 TAGAAATGTCCCAAAGGACAACATAGAATTGTCCCGAAGGACCGCG
* * *
92331 TAGAAATGTCCCGAAGGACAACGTAGAATTGTCCTGAAGGACCGCG
1 TAGAAATGTCCCAAAGGACAACATAGAATTGTCCCGAAGGACCGCG
92377 TAGAA
1 TAGAA
92382 CCCTCGACTC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.20
Consensus pattern (46 bp):
TAGAAATGTCCCAAAGGACAACATAGAATTGTCCCGAAGGACCGCG
Found at i:92378 original size:23 final size:23
Alignment explanation
Indices: 92280--92381 Score: 96
Period size: 23 Copynumber: 4.4 Consensus size: 23
92270 CATTGAAGTG
* **
92280 CCACATAGAAATGTCCTAAAGGA
1 CCACGTAGAAATGTCCCGAAGGA
* * * *
92303 CCACATAGTATTGTCCCGAATGA
1 CCACGTAGAAATGTCCCGAAGGA
*
92326 CCGCGTAGAAATGTCCCGAAGGA
1 CCACGTAGAAATGTCCCGAAGGA
* * *
92349 CAACGTAGAATTGTCCTGAAGGA
1 CCACGTAGAAATGTCCCGAAGGA
*
92372 CCGCGTAGAA
1 CCACGTAGAA
92382 CCCTCGACTC
Statistics
Matches: 63, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 63 1.00
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.19
Consensus pattern (23 bp):
CCACGTAGAAATGTCCCGAAGGA
Found at i:94121 original size:27 final size:27
Alignment explanation
Indices: 94091--94177 Score: 84
Period size: 27 Copynumber: 3.2 Consensus size: 27
94081 CAATGCCGTC
* * *
94091 TTTGAAGCGCGTTCTATCAGCAGCGCT
1 TTTGAAGAGTGTTCTATCAGCAACGCT
* * **
94118 TTTGAAGTGTGTTCTATTAATAACGCT
1 TTTGAAGAGTGTTCTATCAGCAACGCT
* * *
94145 TTTGAAAAGTGTTCTATCAGCAACACC
1 TTTGAAGAGTGTTCTATCAGCAACGCT
94172 TTTGAA
1 TTTGAA
94178 AATGATGCAA
Statistics
Matches: 47, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (27 bp):
TTTGAAGAGTGTTCTATCAGCAACGCT
Found at i:96313 original size:14 final size:14
Alignment explanation
Indices: 96294--96322 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
96284 CTATATATAT
96294 ATAGAGAGAGAGAG
1 ATAGAGAGAGAGAG
96308 ATAGAGAGAGAGAG
1 ATAGAGAGAGAGAG
96322 A
1 A
96323 CCTCTTCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.41, T:0.07
Consensus pattern (14 bp):
ATAGAGAGAGAGAG
Found at i:105400 original size:36 final size:36
Alignment explanation
Indices: 105360--105432 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
105350 TATATTTTGT
105360 ACATCTTTATGTAGAATTGAGATATACAATATATCC
1 ACATCTTTATGTAGAATTGAGATATACAATATATCC
105396 ACATCTTTATGTAGAATTGAGATATACAATATATCC
1 ACATCTTTATGTAGAATTGAGATATACAATATATCC
105432 A
1 A
105433 ACATAAAAGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.36
Consensus pattern (36 bp):
ACATCTTTATGTAGAATTGAGATATACAATATATCC
Found at i:109078 original size:18 final size:18
Alignment explanation
Indices: 109055--109090 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
109045 TTCAAAAAAT
109055 AAAAAATAC-TAAATTTTA
1 AAAAAAT-CTTAAATTTTA
109073 AAAAAATCTTAAATTTTA
1 AAAAAATCTTAAATTTTA
109091 TTATTTTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 1 0.06
18 16 0.94
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (18 bp):
AAAAAATCTTAAATTTTA
Found at i:111022 original size:7 final size:7
Alignment explanation
Indices: 111010--111039 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
111000 TTTTTGGCTA
111010 ATGATTC
1 ATGATTC
111017 ATGATTC
1 ATGATTC
111024 ATGATTC
1 ATGATTC
111031 ATGATTC
1 ATGATTC
111038 AT
1 AT
111040 TTATTTTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.43
Consensus pattern (7 bp):
ATGATTC
Found at i:120272 original size:65 final size:64
Alignment explanation
Indices: 120074--120274 Score: 205
Period size: 65 Copynumber: 3.1 Consensus size: 64
120064 TGCACTAAGA
* * *
120074 GTGCATCGATGCATGAAATGCATTCGATGTTTAAAAATAGCCA-GAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATGAAATGCATTCGATGTTCAATAATA-CCATGAGTGCATCGATGCATGGTTG
* * * * *
120138 GTGCCTTGATGCATCAAATGCATTCGATGTTTTC-ATAAAACTC-TGAGTGCATCGATGCATAGT
1 GTGCATCGATGCATGAAATGCATTCGATG--TTCAATAATAC-CATGAGTGCATCGATGCATGGT
120201 AT-
63 -TG
* * *
120203 GTGCATCGATGCATGAAATGCATTCGATGTTCAATTTATTCCATG-GTGCGTCGATGCATGGATT
1 GTGCATCGATGCATGAAATGCATTCGATGTTCAA-TAATACCATGAGTGCATCGATGCATGG-TT
120267 G
64 G
120268 GTGCATC
1 GTGCATC
120275 AGTGTATCAC
Statistics
Matches: 111, Mismatches: 16, Indels: 19
0.76 0.11 0.13
Matches are distributed among these distances:
63 3 0.03
64 44 0.40
65 61 0.55
66 3 0.03
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.31
Consensus pattern (64 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTCAATAATACCATGAGTGCATCGATGCATGGTTG
Found at i:122969 original size:23 final size:23
Alignment explanation
Indices: 122934--123006 Score: 78
Period size: 23 Copynumber: 3.3 Consensus size: 23
122924 GCATGACCTT
122934 GTGCATCGATGCACATTGAAGAC
1 GTGCATCGATGCACATTGAAGAC
* * * * *
122957 GTGCATTGGTGCACCTTCATG--
1 GTGCATCGATGCACATTGAAGAC
*
122978 GTGTATCGATGCACATTGAAGAC
1 GTGCATCGATGCACATTGAAGAC
123001 GTGCAT
1 GTGCAT
123007 TGGTGCACCT
Statistics
Matches: 36, Mismatches: 12, Indels: 4
0.69 0.23 0.08
Matches are distributed among these distances:
21 15 0.42
23 21 0.58
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (23 bp):
GTGCATCGATGCACATTGAAGAC
Found at i:122986 original size:44 final size:44
Alignment explanation
Indices: 122938--123038 Score: 202
Period size: 44 Copynumber: 2.3 Consensus size: 44
122928 GACCTTGTGC
122938 ATCGATGCACATTGAAGACGTGCATTGGTGCACCTTCATGGTGT
1 ATCGATGCACATTGAAGACGTGCATTGGTGCACCTTCATGGTGT
122982 ATCGATGCACATTGAAGACGTGCATTGGTGCACCTTCATGGTGT
1 ATCGATGCACATTGAAGACGTGCATTGGTGCACCTTCATGGTGT
123026 ATCGATGCACATT
1 ATCGATGCACATT
123039 CAACGGGATG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 57 1.00
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.30
Consensus pattern (44 bp):
ATCGATGCACATTGAAGACGTGCATTGGTGCACCTTCATGGTGT
Found at i:122991 original size:21 final size:21
Alignment explanation
Indices: 122966--123040 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 21
122956 CGTGCATTGG
*
122966 TGCACCTTCATGGTGTATCGA
1 TGCACATTCATGGTGTATCGA
* * * * *
122987 TGCACATTGAAGACGTGCATTGG
1 TGCACATTCATG--GTGTATCGA
*
123010 TGCACCTTCATGGTGTATCGA
1 TGCACATTCATGGTGTATCGA
123031 TGCACATTCA
1 TGCACATTCA
123041 ACGGGATGCA
Statistics
Matches: 39, Mismatches: 13, Indels: 4
0.70 0.23 0.07
Matches are distributed among these distances:
21 24 0.62
23 15 0.38
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.31
Consensus pattern (21 bp):
TGCACATTCATGGTGTATCGA
Found at i:127297 original size:6 final size:6
Alignment explanation
Indices: 127286--127317 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
127276 TGTCATTTCC
*
127286 TCGTCA TCGTCA TCGTCA TCGTCA TCTTCA TC
1 TCGTCA TCGTCA TCGTCA TCGTCA TCGTCA TC
127318 CGAATCACTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.34, G:0.12, T:0.38
Consensus pattern (6 bp):
TCGTCA
Found at i:128956 original size:17 final size:17
Alignment explanation
Indices: 128923--128964 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
128913 CTCTAAGTGT
*
128923 ATCGATGCATAGTATGC
1 ATCGATGCATAGAATGC
128940 ATCGATGCAT-GAAATGC
1 ATCGATGCATAG-AATGC
128957 ATTCGATG
1 A-TCGATG
128965 TTCAATTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 15 0.68
18 6 0.27
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.29
Consensus pattern (17 bp):
ATCGATGCATAGAATGC
Found at i:128957 original size:63 final size:65
Alignment explanation
Indices: 128816--128966 Score: 197
Period size: 63 Copynumber: 2.4 Consensus size: 65
128806 TGCATCGACT
* * *
128816 GATGCATGAAATGCATTAGATG-TTTCAAAATAGCCAGAGTGTATCGATGCATGGCTGGTGCATC
1 GATGCATGAAATGCATTCGATGTTTTCAAAATAGCCAGAGTGTATCGATGCATAGCTGATGCATC
*
128880 GATGCATCAAATGCATTCGATGTTTTCATAAA-A-CTCTA-AGTGTATCGATGCATAG-T-ATGC
1 GATGCATGAAATGCATTCGATGTTTTCA-AAATAGC-C-AGAGTGTATCGATGCATAGCTGATGC
128940 ATC
63 ATC
128943 GATGCATGAAATGCATTCGATGTT
1 GATGCATGAAATGCATTCGATGTT
128967 CAATTTATTC
Statistics
Matches: 78, Mismatches: 5, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
63 29 0.37
64 22 0.28
65 23 0.29
66 4 0.05
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (65 bp):
GATGCATGAAATGCATTCGATGTTTTCAAAATAGCCAGAGTGTATCGATGCATAGCTGATGCATC
Found at i:135225 original size:49 final size:49
Alignment explanation
Indices: 135143--135241 Score: 171
Period size: 49 Copynumber: 2.0 Consensus size: 49
135133 CTTGCTTGAC
135143 TTTTGTTTTAGTCCTTAAACACTGTTTTAGAAGATAAATATTTAGTTTA
1 TTTTGTTTTAGTCCTTAAACACTGTTTTAGAAGATAAATATTTAGTTTA
* * *
135192 TTTTGTTTTAGTCCTTAAACACTTTTTTGGAAGATTAATATTTAGTTTA
1 TTTTGTTTTAGTCCTTAAACACTGTTTTAGAAGATAAATATTTAGTTTA
135241 T
1 T
135242 ACTATAGATC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.28, C:0.08, G:0.12, T:0.52
Consensus pattern (49 bp):
TTTTGTTTTAGTCCTTAAACACTGTTTTAGAAGATAAATATTTAGTTTA
Found at i:135351 original size:17 final size:18
Alignment explanation
Indices: 135331--135373 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
135321 CATATTTATG
*
135331 TTTTATTATTTTGTCC-C
1 TTTTATTATTTAGTCCTC
*
135348 TTTTATGATTTAGTCCTC
1 TTTTATTATTTAGTCCTC
135366 TTGTTATT
1 TT-TTATT
135374 TAGTTTTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 14 0.67
18 3 0.14
19 4 0.19
ACGTcount: A:0.14, C:0.14, G:0.09, T:0.63
Consensus pattern (18 bp):
TTTTATTATTTAGTCCTC
Found at i:136842 original size:2 final size:2
Alignment explanation
Indices: 136835--136986 Score: 59
Period size: 2 Copynumber: 82.5 Consensus size: 2
136825 TAAGTATTAG
*
136835 TA TA TA TA T- TA TA TA T- TA T- TT TA TA TA T- TA TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
136872 TA TA GTA T- TA TT TA T- TA CA TA T- TA TA TA T- TA TA -A GCA TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
* * * * *
136911 TA TA TT TA T- TA TA GA -A T- TA TG TA T- TG CA T- TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
136948 TA TA TT TA CTA TA TCA T- TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA -TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA T
136987 TTTTGTTTAT
Statistics
Matches: 113, Mismatches: 16, Indels: 42
0.66 0.09 0.25
Matches are distributed among these distances:
1 17 0.15
2 89 0.79
3 7 0.06
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.53
Consensus pattern (2 bp):
TA
Found at i:136851 original size:19 final size:18
Alignment explanation
Indices: 136809--136986 Score: 102
Period size: 19 Copynumber: 9.7 Consensus size: 18
136799 TTTAGAATAG
*
136809 TATATATTATACA-ATA-
1 TATATATTATATATATAT
136825 TA-AGTATTAGTATATATAT
1 TATA-TATTA-TATATATAT
*
136844 TATATATTATTTTATATAT
1 TATATATTA-TATATATAT
*
136863 TATATATTATATA-GTAT
1 TATATATTATATATATAT
*
136880 TATTTATTACATATTATATAT
1 TATATATT--ATA-TATATAT
* *
136901 TATA-AGCATATATATTTAT
1 TATATA--TTATATATATAT
* *
136920 TATAGAATTATGTAT-TGCAT
1 TATA-TATTATATATAT--AT
* *
136940 TATATA-TATATATTTAC
1 TATATATTATATATATAT
136957 TATATCATTATATATATA-
1 TATAT-ATTATATATATAT
136975 TATATATTATAT
1 TATATATTATAT
136987 TTTTGTTTAT
Statistics
Matches: 128, Mismatches: 16, Indels: 35
0.72 0.09 0.20
Matches are distributed among these distances:
15 1 0.01
16 7 0.05
17 26 0.20
18 19 0.15
19 54 0.42
20 13 0.10
21 7 0.05
22 1 0.01
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.52
Consensus pattern (18 bp):
TATATATTATATATATAT
Found at i:136873 original size:24 final size:25
Alignment explanation
Indices: 136838--136904 Score: 68
Period size: 24 Copynumber: 2.7 Consensus size: 25
136828 GTATTAGTAT
136838 ATATATTATATATTAT-TTTATATATT
1 ATATATTATATATTATATTTA-A-ATT
*
136864 ATATATTATATAGTATTATTT--ATT
1 ATATATTATATATTA-TATTTAAATT
*
136888 ACATATTATATATTATA
1 ATATATTATATATTATA
136905 AGCATATATA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
23 2 0.06
24 16 0.44
26 14 0.39
27 1 0.03
28 3 0.08
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (25 bp):
ATATATTATATATTATATTTAAATT
Found at i:136874 original size:31 final size:31
Alignment explanation
Indices: 136829--136986 Score: 105
Period size: 31 Copynumber: 5.0 Consensus size: 31
136819 ACAATATAAG
*
136829 TATTAGTATA-TATATTATATATTATTTTATA
1 TATTA-TATATTATATTATATATTATATTATA
*
136860 TATTATATATTATA-TAGTATTATT-TATTACA
1 TATTATATATTATATTA-TA-TATTATATTATA
*
136891 TATTATATATTATAAGCATATATATT-TATTATA
1 TATTATATATTAT-A--TTATATATTATATTATA
* * ** *
136924 GAATTATGTATTGCATTATATA-TATA-TATT
1 -TATTATATATTATATTATATATTATATTATA
*
136954 TACTATATCATTATA-TATATATATATATTATA
1 TATTATAT-ATTATATTATATAT-TATATTATA
136986 T
1 T
136987 TTTTGTTTAT
Statistics
Matches: 99, Mismatches: 15, Indels: 25
0.71 0.11 0.18
Matches are distributed among these distances:
29 11 0.11
30 14 0.14
31 41 0.41
32 9 0.09
33 11 0.11
34 11 0.11
35 2 0.02
ACGTcount: A:0.40, C:0.03, G:0.04, T:0.53
Consensus pattern (31 bp):
TATTATATATTATATTATATATTATATTATA
Found at i:136965 original size:25 final size:25
Alignment explanation
Indices: 136937--136986 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
136927 TTATGTATTG
*
136937 CATTATATATATATATTTACTATAT
1 CATTATATATATATATATACTATAT
*
136962 CATTATATATATATATATATTATAT
1 CATTATATATATATATATACTATAT
136987 TTTTGTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (25 bp):
CATTATATATATATATATACTATAT
Found at i:136968 original size:17 final size:15
Alignment explanation
Indices: 136939--137002 Score: 58
Period size: 15 Copynumber: 4.1 Consensus size: 15
136929 ATGTATTGCA
136939 TTATATATA-TATAT
1 TTATATATATTATAT
136953 TTACTATATCATTATAT
1 TTA-TATAT-ATTATAT
136970 ATATATATATATTATAT
1 -T-TATATATATTATAT
* * *
136987 TTTTGTTTATTATAT
1 TTATATATATTATAT
137002 T
1 T
137003 GGATTTATTT
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
14 3 0.07
15 17 0.40
16 2 0.05
17 12 0.29
18 6 0.14
19 2 0.05
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (15 bp):
TTATATATATTATAT
Found at i:141744 original size:23 final size:22
Alignment explanation
Indices: 141714--141811 Score: 117
Period size: 23 Copynumber: 4.4 Consensus size: 22
141704 GTCGAGGGTT
*
141714 CTATGTGGTCCTTCGGGACAAA
1 CTATGTGGTCATTCGGGACAAA
* *
141736 CCTATGTGGTCGTTCGGGACAATC
1 -CTATGTGGTCATTCGGGACAA-A
* *
141760 CAATGTGGTCTTTCGGGACAAGA
1 CTATGTGGTCATTCGGGACAA-A
141783 CTATGTGGTCATTCGGGACAAA
1 CTATGTGGTCATTCGGGACAAA
141805 -TATGTGG
1 CTATGTGG
141812 CACTTCAGTG
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.11
22 1 0.02
23 58 0.88
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (22 bp):
CTATGTGGTCATTCGGGACAAA
Found at i:141787 original size:46 final size:46
Alignment explanation
Indices: 141716--141803 Score: 142
Period size: 46 Copynumber: 1.9 Consensus size: 46
141706 CGAGGGTTCT
*
141716 ATGTGGTCCTTCGGGACAAACCTATGTGGTCGTTCGGGACAATCCA
1 ATGTGGTCCTTCGGGACAAACCTATGTGGTCATTCGGGACAATCCA
*
141762 ATGTGGTCTTTCGGGACAAGA-CTATGTGGTCATTCGGGACAA
1 ATGTGGTCCTTCGGGACAA-ACCTATGTGGTCATTCGGGACAA
141804 ATATGTGGCA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
46 38 0.97
47 1 0.03
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (46 bp):
ATGTGGTCCTTCGGGACAAACCTATGTGGTCATTCGGGACAATCCA
Found at i:142281 original size:23 final size:25
Alignment explanation
Indices: 142243--142295 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
142233 TGCTCTGATC
**
142243 TATTT-TGTAAACTTA-TATTTTTT
1 TATTTATGTAAACTTATTAAGTTTT
142266 TATTTATGTAAA-TTATTAAGTTTT
1 TATTTATGTAAACTTATTAAGTTTT
142290 TATTTA
1 TATTTA
142296 AATGAGAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 8 0.31
24 18 0.69
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.62
Consensus pattern (25 bp):
TATTTATGTAAACTTATTAAGTTTT
Found at i:142933 original size:20 final size:22
Alignment explanation
Indices: 142894--142933 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
142884 GCTAGAGATA
*
142894 AAAAAGAAGGAATTTGAAGCTG
1 AAAAAGAAGGAATCTGAAGCTG
142916 AAAAAG-AGG-ATCTGAAGC
1 AAAAAGAAGGAATCTGAAGC
142934 AAAGATTGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 3 0.18
22 6 0.35
ACGTcount: A:0.50, C:0.07, G:0.28, T:0.15
Consensus pattern (22 bp):
AAAAAGAAGGAATCTGAAGCTG
Found at i:145249 original size:23 final size:23
Alignment explanation
Indices: 145223--145290 Score: 100
Period size: 23 Copynumber: 2.9 Consensus size: 23
145213 GTGGTATTTT
145223 GGTGCAAACCTATGTGGCCTTTC
1 GGTGCAAACCTATGTGGCCTTTC
**
145246 GGTGCAAACCTATGTGGCAATTC
1 GGTGCAAACCTATGTGGCCTTTC
*
145269 GGTACAAACCTATGTGGTCCTT
1 GGTGCAAACCTATGTGG-CCTT
145291 CGGGACAATT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
23 37 0.95
24 2 0.05
ACGTcount: A:0.22, C:0.24, G:0.25, T:0.29
Consensus pattern (23 bp):
GGTGCAAACCTATGTGGCCTTTC
Found at i:145322 original size:21 final size:22
Alignment explanation
Indices: 145227--145319 Score: 93
Period size: 23 Copynumber: 4.2 Consensus size: 22
145217 TATTTTGGTG
*
145227 CAAACCTATGTGGCCTTTCGGTG
1 CAAACCTATGTGGCC-TTCGGTA
*
145250 CAAACCTATGTGGCAATTCGGTA
1 CAAACCTATGTGGC-CTTCGGTA
*
145273 CAAACCTATGTGGTCCTTCGGGA
1 CAAACCTATGTGG-CCTTCGGTA
*
145296 C-AA-TTATGTGGCACTTCGGT-
1 CAAACCTATGTGGC-CTTCGGTA
145316 CAAA
1 CAAA
145320 TTACGAGCTT
Statistics
Matches: 60, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
20 2 0.03
21 15 0.25
22 2 0.03
23 40 0.67
24 1 0.02
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.28
Consensus pattern (22 bp):
CAAACCTATGTGGCCTTCGGTA
Found at i:150929 original size:45 final size:44
Alignment explanation
Indices: 150878--151014 Score: 114
Period size: 45 Copynumber: 3.3 Consensus size: 44
150868 AGAATAATAC
* *
150878 ATATGGGTGCATTATTGGTATGAAAGGATGCCATAACTGGAATGT
1 ATATGGGTACATTATTGGCATGAAAGGATGCCATAACT-GAATGT
* ** *
150923 ATATGGGTACATTGTCAGCAT-AAA--A-G----AA-T-AATGC
1 ATATGGGTACATTATTGGCATGAAAGGATGCCATAACTGAATGT
* *
150957 ATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGT
1 ATATGGGTACATTATTGGCATGAAAGGATGCCATAACTG-AATGT
151002 ATATGGGTACATT
1 ATATGGGTACATT
151015 GTCAGTATAA
Statistics
Matches: 68, Mismatches: 13, Indels: 22
0.66 0.13 0.21
Matches are distributed among these distances:
34 21 0.31
35 3 0.04
36 1 0.01
37 3 0.04
38 1 0.01
41 1 0.01
42 2 0.03
43 1 0.01
44 3 0.04
45 32 0.47
ACGTcount: A:0.34, C:0.10, G:0.26, T:0.30
Consensus pattern (44 bp):
ATATGGGTACATTATTGGCATGAAAGGATGCCATAACTGAATGT
Found at i:150961 original size:34 final size:34
Alignment explanation
Indices: 150918--151061 Score: 99
Period size: 34 Copynumber: 3.9 Consensus size: 34
150908 CCATAACTGG
* *
150918 AATGTATATGGGTACATTGTCAGCATAAAAGAAT
1 AATGCATATGGGTACATTATCAGCATAAAAGAAT
* **
150952 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCT
1 AATGCATATGGGTACATTATCAGCAT-AAA--A-G--A-A--T
* * *
150995 GAAATGTATATGGGTACATTGTCAGTATAAAAGAAT
1 --AATGCATATGGGTACATTATCAGCATAAAAGAAT
* *
151031 AATGCATATGGGTACTTTATTAGCATAAAAG
1 AATGCATATGGGTACATTATCAGCATAAAAG
151062 TATATTCTAT
Statistics
Matches: 83, Mismatches: 16, Indels: 22
0.69 0.13 0.18
Matches are distributed among these distances:
34 47 0.57
35 3 0.04
36 1 0.01
37 1 0.01
38 2 0.02
39 1 0.01
40 1 0.01
41 2 0.02
42 1 0.01
43 1 0.01
44 3 0.04
45 20 0.24
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.30
Consensus pattern (34 bp):
AATGCATATGGGTACATTATCAGCATAAAAGAAT
Found at i:151051 original size:79 final size:79
Alignment explanation
Indices: 150703--151061 Score: 556
Period size: 79 Copynumber: 4.5 Consensus size: 79
150693 TAGAACGAAT
* *
150703 GCATAAAAGAATAATGCATGTGGGTGCATTATTGGAATGAAAGGATGCCATAACTGAAATGTATA
1 GCATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAACTGAAATGTATA
150768 TGGGTACATTGTCA
66 TGGGTACATTGTCA
* * ** * * *
150782 GCATAAAAGAATAATGCATATGAGTGCATTATTGGCAAGAAATTATGCCATAGCTGGAATATATA
1 GCATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAACTGAAATGTATA
150847 TGGGTACATTGTCA
66 TGGGTACATTGTCA
* * *
150861 GCATAAAAGAATAATACATATGGGTGCATTATTGGTATGAAAGGATGCCATAACTGGAATGTATA
1 GCATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAACTGAAATGTATA
150926 TGGGTACATTGTCA
66 TGGGTACATTGTCA
*
150940 GCATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGTATA
1 GCATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAACTGAAATGTATA
151005 TGGGTACATTGTCA
66 TGGGTACATTGTCA
* * * * *
151019 GTATAAAAGAATAATGCATATGGGTACTTTATTAGCATAAAAG
1 GCATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAG
151062 TATATTCTAT
Statistics
Matches: 254, Mismatches: 26, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
79 254 1.00
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.29
Consensus pattern (79 bp):
GCATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAACTGAAATGTATA
TGGGTACATTGTCA
Found at i:151738 original size:79 final size:79
Alignment explanation
Indices: 151598--151976 Score: 553
Period size: 79 Copynumber: 4.8 Consensus size: 79
151588 TAGAACGAAT
* ** * * * *
151598 GCATAAAAGAATCATATATGTGGGTGCATTATTGGCATGAAAGTATGCCATAACTAAAATGTATA
1 GCATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGTATA
151663 TGGGTACATTGTCA
66 TGGGTACATTGTCA
* * * * * *
151677 GTATCAAAGAATAATGTATATGGGTGCATTATTAGCGTGAAAGGATGCCATAGCTGGAATGTATA
1 GCATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGTATA
*
151742 TGGGTACATTTTCA
66 TGGGTACATTGTCA
* * * *
151756 GCATAAAAGAATAATGCATAT-GGTGCATTATTGGCATGAAAGGACGCCATAGCTGGAATGTGTT
1 GCATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGTATA
151820 TGGGTACATTGTCA
66 TGGGTACATTGTCA
* **
151834 GTATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATTTCATAGCTGAAATGTATA
1 GCATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGTATA
151899 TGGGTACATTGTCA
66 TGGGTACATTGTCA
*
151913 GCATAAAATAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGTAT
1 GCATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGTAT
151977 GGTTTCCTTA
Statistics
Matches: 267, Mismatches: 32, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
78 71 0.27
79 196 0.73
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (79 bp):
GCATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGTATA
TGGGTACATTGTCA
Found at i:151906 original size:157 final size:158
Alignment explanation
Indices: 151598--151976 Score: 571
Period size: 157 Copynumber: 2.4 Consensus size: 158
151588 TAGAACGAAT
* ** * * * *
151598 GCATAAAAGAATCATATATGTGGGTGCATTATTGGCATGAAAGTATGCCATAACTAAAATGTATA
1 GCATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGTATA
* * *
151663 TGGGTACATTGTCAGTATCAAAGAATAATGTATATGGGTGCATTATTAGCGTGAAAGGATGCCAT
66 TGGGTACATTGTCAGTATAAAAGAATAATGCATATGGGTGCATTATTAGCATGAAAGGATGCCAT
* *
151728 AGCTGGAATGTATATGGGTACATTTTCA
131 AGCTGAAATGTATATGGGTACATTGTCA
* * * *
151756 GCATAAAAGAATAATGCATAT-GGTGCATTATTGGCATGAAAGGACGCCATAGCTGGAATGTGTT
1 GCATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGTATA
* **
151820 TGGGTACATTGTCAGTATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATTTCAT
66 TGGGTACATTGTCAGTATAAAAGAATAATGCATATGGGTGCATTATTAGCATGAAAGGATGCCAT
151885 AGCTGAAATGTATATGGGTACATTGTCA
131 AGCTGAAATGTATATGGGTACATTGTCA
*
151913 GCATAAAATAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGTAT
1 GCATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGTAT
151977 GGTTTCCTTA
Statistics
Matches: 197, Mismatches: 23, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
157 141 0.72
158 56 0.28
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (158 bp):
GCATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGTATA
TGGGTACATTGTCAGTATAAAAGAATAATGCATATGGGTGCATTATTAGCATGAAAGGATGCCAT
AGCTGAAATGTATATGGGTACATTGTCA
Found at i:155294 original size:23 final size:23
Alignment explanation
Indices: 155236--155288 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
155226 TCGGGACAAT
155236 TATGTGGCACTTCGGTGCAAACC
1 TATGTGGCACTTCGGTGCAAACC
*
155259 TATGTAGCACTTCGGTGCAAACC
1 TATGTGGCACTTCGGTGCAAACC
155282 TATGTGG
1 TATGTGG
155289 TCCTTCAGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (23 bp):
TATGTGGCACTTCGGTGCAAACC
Found at i:160090 original size:12 final size:12
Alignment explanation
Indices: 160073--160103 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
160063 TTCTGTCTCG
160073 TTATTATTTATA
1 TTATTATTTATA
160085 TTATTATTTATA
1 TTATTATTTATA
160097 -TATTATT
1 TTATTATT
160104 ATTGTATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.37
12 12 0.63
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTATTATTTATA
Found at i:160100 original size:14 final size:14
Alignment explanation
Indices: 160073--160120 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
160063 TTCTGTCTCG
160073 TTATTA-TT-TATA
1 TTATTATTTATATA
160085 TTATTATTTATATA
1 TTATTATTTATATA
160099 TTATTATTGTATA-A
1 TTATTATT-TATATA
*
160113 ATATTATT
1 TTATTATT
160121 AATAAATACT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
12 6 0.19
13 2 0.06
14 20 0.62
15 4 0.12
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (14 bp):
TTATTATTTATATA
Found at i:160105 original size:17 final size:17
Alignment explanation
Indices: 160083--160121 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
160073 TTATTATTTA
* *
160083 TATTATTATTTATATAT
1 TATTATTATATAAATAT
*
160100 TATTATTGTATAAATAT
1 TATTATTATATAAATAT
160117 TATTA
1 TATTA
160122 ATAAATACTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (17 bp):
TATTATTATATAAATAT
Found at i:161933 original size:2 final size:2
Alignment explanation
Indices: 161877--161917 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
161867 GTCATGATTA
*
161877 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT A- AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
161918 TTTTAAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:161967 original size:21 final size:23
Alignment explanation
Indices: 161930--161974 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 23
161920 TTAAAAAAAT
161930 ATATCTTATTAATATTTATTATC
1 ATATCTTATTAATATTTATTATC
*
161953 ATAT-TTATT-ATATTTTTTATC
1 ATATCTTATTAATATTTATTATC
161974 A
1 A
161975 AATAAAAGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 12 0.57
22 5 0.24
23 4 0.19
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (23 bp):
ATATCTTATTAATATTTATTATC
Found at i:162628 original size:12 final size:12
Alignment explanation
Indices: 162611--162635 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
162601 CAAGTCATTT
162611 TTTTATTTTTTA
1 TTTTATTTTTTA
162623 TTTTATTTTTTA
1 TTTTATTTTTTA
162635 T
1 T
162636 ATCCTTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTATTTTTTA
Found at i:171815 original size:137 final size:137
Alignment explanation
Indices: 171568--172081 Score: 735
Period size: 137 Copynumber: 3.8 Consensus size: 137
171558 TTTTAGGAAG
* * * *
171568 CATCATCCTTAGATAACCAAATGTCCTCATCACTAAGGAACCGTGTTATCTTAAATATCTTTAAA
1 CATCATCCTTAGATAACCAGATGTCCTCATCACGAAGGAACCATGTTATCTCAAATATCTTTAAA
* *
171633 GATGGTTAGACGTCCTCATCATGAAGGAACAATGTCATCCACCGATCAGAACTCCTCATCACGAA
66 GATGGCTAGACGTCCTCATCACGAAGGAACAATGTCATCCACCGATCAGAACTCCTCATCACGAA
171698 GAAGCAT
131 GAAGCAT
* * * * *
171705 TATCATCATTAGATAACCAGATATTCTCATCACGAAGGAACCATGTTATCTTAAATATCTTTAAA
1 CATCATCCTTAGATAACCAGATGTCCTCATCACGAAGGAACCATGTTATCTCAAATATCTTTAAA
* * *
171770 GATGGCCAGACGTCCTCATCATGAAGGAACAATGTCATCCACCGATCAGAACTTCTCATCACGAA
66 GATGGCTAGACGTCCTCATCACGAAGGAACAATGTCATCCACCGATCAGAACTCCTCATCACGAA
* *
171835 GAAGTAA
131 GAAGCAT
* ***
171842 CATCATCCTTAGATAACCAGATGTCCTCATCACGAAAGAATTGTGTTATCTCAAATATCTTTAAA
1 CATCATCCTTAGATAACCAGATGTCCTCATCACGAAGGAACCATGTTATCTCAAATATCTTTAAA
** * *
171907 GATGGCTAGACGTCCTCATCACGAAGGAACAATGTCATCCATTGATCAGAATTCCTCATTA-GAA
66 GATGGCTAGACGTCCTCATCACGAAGGAACAATGTCATCCACCGATCAGAACTCCTCATCACG-A
*
171971 AGGAGCAT
130 AGAAGCAT
* * * *
171979 CATCATTCTTAGATAGCCAGATGTCCTCATCATGAAGGAACCGA-GTTATCTCAAATATCTTTGA
1 CATCATCCTTAGATAACCAGATGTCCTCATCACGAAGGAACC-ATGTTATCTCAAATATCTTTAA
172043 AGATGGCTAGACGTCCTCATCACGAAGGAACAATGTCAT
65 AGATGGCTAGACGTCCTCATCACGAAGGAACAATGTCAT
172082 ACACTAGTTT
Statistics
Matches: 336, Mismatches: 39, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
136 1 0.00
137 335 1.00
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (137 bp):
CATCATCCTTAGATAACCAGATGTCCTCATCACGAAGGAACCATGTTATCTCAAATATCTTTAAA
GATGGCTAGACGTCCTCATCACGAAGGAACAATGTCATCCACCGATCAGAACTCCTCATCACGAA
GAAGCAT
Found at i:172249 original size:12 final size:12
Alignment explanation
Indices: 172232--172263 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
172222 TTTTCATCCC
172232 ATTATTATTTAT
1 ATTATTATTTAT
172244 ATTATTATTTAT
1 ATTATTATTTAT
172256 A-TATTATT
1 ATTATTATT
172264 ATTGTATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.35
12 13 0.65
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
ATTATTATTTAT
Found at i:172260 original size:14 final size:14
Alignment explanation
Indices: 172232--172280 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
172222 TTTTCATCCC
172232 ATTATTA-TT-TAT
1 ATTATTATTTATAT
172244 ATTATTATTTATAT
1 ATTATTATTTATAT
172258 ATTATTATTGTATA-
1 ATTATTATT-TATAT
*
172272 AATATTATT
1 ATTATTATT
172281 AATAAATACT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
12 7 0.21
13 2 0.06
14 20 0.61
15 4 0.12
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (14 bp):
ATTATTATTTATAT
Found at i:172265 original size:17 final size:17
Alignment explanation
Indices: 172243--172281 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
172233 TTATTATTTA
* *
172243 TATTATTATTTATATAT
1 TATTATTATATAAATAT
*
172260 TATTATTGTATAAATAT
1 TATTATTATATAAATAT
172277 TATTA
1 TATTA
172282 ATAAATACTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (17 bp):
TATTATTATATAAATAT
Found at i:172604 original size:22 final size:22
Alignment explanation
Indices: 172574--172626 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
172564 TGGTGCTGCC
**
172574 TCCAACTGCTTCGCCGCCTATA
1 TCCAACTGCCCCGCCGCCTATA
* **
172596 TCCAGCTGCCCCGCCGCCTACG
1 TCCAACTGCCCCGCCGCCTATA
172618 TCCAACTGC
1 TCCAACTGC
172627 TCCACCACTA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.15, C:0.47, G:0.17, T:0.21
Consensus pattern (22 bp):
TCCAACTGCCCCGCCGCCTATA
Found at i:173699 original size:43 final size:44
Alignment explanation
Indices: 173642--173738 Score: 119
Period size: 45 Copynumber: 2.2 Consensus size: 44
173632 TTGGTCACTA
* * *
173642 TTTTATTTTATATTTT-ATTATT-TCTCCTTTATTTTTTAAT-AT
1 TTTTATTTTATATTTTAATTTTTATCCCCTATA-TTTTTAATAAT
*
173684 TTTTAATTTAGTATTTTAATTTTTATCCCCTATATTTTTAATAAT
1 TTTTATTTTA-TATTTTAATTTTTATCCCCTATATTTTTAATAAT
173729 TTTTATTTTA
1 TTTTATTTTA
173739 ATTCCTTATA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
42 9 0.20
43 6 0.13
44 13 0.28
45 18 0.39
ACGTcount: A:0.25, C:0.07, G:0.01, T:0.67
Consensus pattern (44 bp):
TTTTATTTTATATTTTAATTTTTATCCCCTATATTTTTAATAAT
Found at i:175296 original size:2 final size:2
Alignment explanation
Indices: 175289--175521 Score: 90
Period size: 2 Copynumber: 126.0 Consensus size: 2
175279 TAAGTATACA
175289 AT AT AT AT AT AGT AT AT AT -T AT AT -T AT AT AT -T AT AT AT -T
1 AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
175328 AT AT -T AT AT GAT AT AT AT -T AT AC AT -T AC AT AT -T AT AGT AT
1 AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
* * *
175368 AT -T AT AT -T AT -T AT -T AT GGT AT -T AT TT AT -T GT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT
* *
175404 AT AT AGT AT -T AT AT AT -T AC AT AT -T AT AT AT -T AT A- AGC AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
* * *
175443 AT AT AT TT AT -T AT AG A- AT -T AT GT AT -T AT AGT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT
*
175482 AT AT AT ACT -T AT -T AT AT CAT -T AT AT TT AT AT -T AT AT AT AT
1 AT AT AT A-T AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT
175522 TTTTTTATTA
Statistics
Matches: 175, Mismatches: 19, Indels: 74
0.65 0.07 0.28
Matches are distributed among these distances:
1 28 0.16
2 132 0.75
3 15 0.09
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (2 bp):
AT
Found at i:175304 original size:7 final size:7
Alignment explanation
Indices: 175259--175331 Score: 50
Period size: 7 Copynumber: 11.3 Consensus size: 7
175249 TTCGTCTGGG
175259 ATAGTAT
1 ATAGTAT
*
175266 ATATTAT
1 ATAGTAT
*
175273 ACAGTAT
1 ATAGTAT
175280 A-AGTAT
1 ATAGTAT
*
175286 ACA--AT
1 ATAGTAT
175291 ATA-TAT
1 ATAGTAT
175297 ATAGTAT
1 ATAGTAT
175304 ATA-T-T
1 ATAGTAT
*
175309 ATATTAT
1 ATAGTAT
*
175316 ATATTAT
1 ATAGTAT
*
175323 ATATTAT
1 ATAGTAT
175330 AT
1 AT
175332 TATATGATAT
Statistics
Matches: 57, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
5 8 0.14
6 13 0.23
7 36 0.63
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (7 bp):
ATAGTAT
Found at i:175316 original size:19 final size:19
Alignment explanation
Indices: 175259--175518 Score: 126
Period size: 19 Copynumber: 14.2 Consensus size: 19
175249 TTCGTCTGGG
*
175259 ATAGTATATATTATA-CAGT
1 ATAGTATATATTATATTA-T
* *
175278 ATAAGTATACAATATA-TAT
1 AT-AGTATATATTATATTAT
175297 ATAGTATATATTATATTAT
1 ATAGTATATATTATATTAT
*
175316 ATATTATATATTATATTAT
1 ATAGTATATATTATATTAT
*
175335 AT-GATATATATTATACATTAC
1 ATAG-TATATATTAT--ATTAT
*
175356 ATA-T-TATAGTATATTAT
1 ATAGTATATATTATATTAT
**
175373 AT--TAT-TATTATGGTAT
1 ATAGTATATATTATATTAT
*
175389 -TA-TTTAT-TGTATATTAT
1 ATAGTATATAT-TATATTAT
*
175406 ATAGTAT-TA-TATATTAC
1 ATAGTATATATTATATTAT
* **
175423 ATATTATATATTATAAGCAT
1 ATAGTATATATTAT-ATTAT
* **
175443 ATA-TATTTATTATAGAAT
1 ATAGTATATATTATATTAT
*
175461 -TATGTATTATAGTATA-TAT
1 ATA-GTA-TATATTATATTAT
*
175480 ATA-TATATACT-TATTAT
1 ATAGTATATATTATATTAT
*
175497 ATCATTATAT-TTATATTAT
1 AT-AGTATATATTATATTAT
175516 ATA
1 ATA
175519 TATTTTTTTA
Statistics
Matches: 188, Mismatches: 29, Indels: 49
0.71 0.11 0.18
Matches are distributed among these distances:
15 1 0.01
16 14 0.07
17 39 0.21
18 25 0.13
19 76 0.40
20 27 0.14
21 6 0.03
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.50
Consensus pattern (19 bp):
ATAGTATATATTATATTAT
Found at i:175336 original size:38 final size:38
Alignment explanation
Indices: 175259--175518 Score: 155
Period size: 38 Copynumber: 7.1 Consensus size: 38
175249 TTCGTCTGGG
* * * *
175259 ATAGTATATATTATA-CAGTATAAGTATACAATATA-TAT
1 ATAGTATATATTATATTA-TAT-ATTATATATTATATTAT
175297 ATAGTATATATTATATTATATATTATATATTATATTAT
1 ATAGTATATATTATATTATATATTATATATTATATTAT
* *
175335 AT-GATATATATTATACATTACATA-T-TATAGTATATTAT
1 ATAG-TATATATTAT--ATTATATATTATATATTATATTAT
**
175373 AT--TAT-TATTATGGTAT-TATT-TAT-TGTATATTAT
1 ATAGTATATATTATATTATATATTATATAT-TATATTAT
*
175406 ATAGTAT-TA-TATATTACATATTATATATTATA--A-
1 ATAGTATATATTATATTATATATTATATATTATATTAT
** * * *
175439 GCA-TATATATT-TATTATAGAATTATGTATTATAGTAT
1 ATAGTATATATTATATTATA-TATTATATATTATATTAT
175476 ATA-TATATATATACTTATTATATCATTATAT-TTATATTAT
1 ATAGTATATAT-TA--TATTATAT-ATTATATATTATATTAT
175516 ATA
1 ATA
175519 TATTTTTTTA
Statistics
Matches: 176, Mismatches: 23, Indels: 44
0.72 0.09 0.18
Matches are distributed among these distances:
32 5 0.03
33 25 0.14
34 19 0.11
35 15 0.09
36 11 0.06
37 20 0.11
38 48 0.27
39 2 0.01
40 18 0.10
41 13 0.07
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.50
Consensus pattern (38 bp):
ATAGTATATATTATATTATATATTATATATTATATTAT
Found at i:175342 original size:7 final size:6
Alignment explanation
Indices: 175289--175521 Score: 90
Period size: 5 Copynumber: 42.0 Consensus size: 6
175279 TAAGTATACA
175289 ATATAT ATATAGT ATATAT -TATAT -TATAT AT-TAT ATAT-T ATAT-T
1 ATATAT ATATA-T ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* *
175333 ATATGAT ATATAT -TATAC AT-TAC ATAT-T ATAGTAT AT-TAT AT-TAT
1 ATAT-AT ATATAT ATATAT ATATAT ATATAT ATA-TAT ATATAT ATATAT
* * *
175378 -TAT-T ATGGTAT -TATTT AT-TGT ATAT-T ATATAGT AT-TAT ATAT-T
1 ATATAT AT-ATAT ATATAT ATATAT ATATAT ATATA-T ATATAT ATATAT
* * * *
175421 ACATAT -TATAT AT-TAT A-AGCAT ATATAT TTAT-T ATAGA- AT-TAT
1 ATATAT ATATAT ATATAT ATA-TAT ATATAT ATATAT ATATAT ATATAT
* *
175464 GTAT-T ATAGTAT ATATAT ATATAT ACT-TAT -TATAT CAT-TAT ATTTAT
1 ATATAT ATA-TAT ATATAT ATATAT A-TATAT ATATAT -ATATAT ATATAT
175511 AT-TAT ATATAT
1 ATATAT ATATAT
175522 TTTTTTATTA
Statistics
Matches: 177, Mismatches: 16, Indels: 68
0.68 0.06 0.26
Matches are distributed among these distances:
4 4 0.02
5 92 0.52
6 56 0.32
7 25 0.14
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (6 bp):
ATATAT
Found at i:175429 original size:14 final size:14
Alignment explanation
Indices: 175289--175519 Score: 144
Period size: 14 Copynumber: 16.4 Consensus size: 14
175279 TAAGTATACA
*
175289 ATATA-TATATAGT
1 ATATATTATATATT
175302 ATATA-T-TATATT
1 ATATATTATATATT
175314 ATATATTATATA-T
1 ATATATTATATATT
175327 -TATATTATATGA-T
1 ATATATTATAT-ATT
*
175340 ATATATTATACATT
1 ATATATTATATATT
*
175354 ACATATTATAGTA-T
1 ATATATTATA-TATT
175368 ATTATATTAT-TATT
1 A-TATATTATATATT
* *
175382 ATGGTATTATTTATT
1 AT-ATATTATATATT
*
175397 GTATATTATATAGTATT
1 ATATA-T-TATA-TATT
*
175414 ATATATTACATATT
1 ATATATTATATATT
**
175428 ATATATTATA-AGC
1 ATATATTATATATT
*
175441 ATATA-TATTTATT
1 ATATATTATATATT
* *
175454 ATAGAATTATGTATT
1 ATA-TATTATATATT
175469 ATAGTA-TATATATAT
1 ATA-TATTATATAT-T
*
175484 ATATACTTATTATATC
1 ATATA-TTA-TATATT
175500 ATTATATT-TATATT
1 A-TATATTATATATT
175514 ATATAT
1 ATATAT
175520 ATTTTTTTAT
Statistics
Matches: 174, Mismatches: 23, Indels: 42
0.73 0.10 0.18
Matches are distributed among these distances:
12 23 0.13
13 29 0.17
14 63 0.36
15 33 0.19
16 9 0.05
17 17 0.10
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (14 bp):
ATATATTATATATT
Found at i:175504 original size:41 final size:40
Alignment explanation
Indices: 175441--175521 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 40
175431 TATTATAAGC
* *
175441 ATATATATTTATTATAGAATTATGTATTATAGTATATATAT
1 ATATATACTTATTATAGAATTATAT-TTATAGTATATATAT
** *
175482 ATATATACTTATTATATCATTATATTTATATTATATATAT
1 ATATATACTTATTATAGAATTATATTTATAGTATATATAT
175522 TTTTTTATTA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
40 14 0.40
41 21 0.60
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (40 bp):
ATATATACTTATTATAGAATTATATTTATAGTATATATAT
Found at i:175532 original size:17 final size:19
Alignment explanation
Indices: 175490--175532 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 19
175480 ATATATATAC
175490 TTATTATATCATTATATTT
1 TTATTATATCATTATATTT
* *
175509 ATATTATAT-A-TATTTTT
1 TTATTATATCATTATATTT
175526 TTATTAT
1 TTATTAT
175533 GTTGGATTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 12 0.57
18 1 0.05
19 8 0.38
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (19 bp):
TTATTATATCATTATATTT
Found at i:184063 original size:18 final size:18
Alignment explanation
Indices: 184040--184074 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
184030 CTATCGGTTC
*
184040 ACTGGTTCAACCGGTCGA
1 ACTGGTCCAACCGGTCGA
*
184058 ACTGGTCCGACCGGTCG
1 ACTGGTCCAACCGGTCG
184075 GAAGAACCGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.31, G:0.31, T:0.20
Consensus pattern (18 bp):
ACTGGTCCAACCGGTCGA
Found at i:186471 original size:34 final size:33
Alignment explanation
Indices: 186379--186471 Score: 84
Period size: 34 Copynumber: 2.7 Consensus size: 33
186369 CGTCCTTTGC
*
186379 ATTTTTTCTTCATTTT-GATTTATTATTTTATTTT
1 ATTTTTTC-TCATTTTCGATTT-TTATTTTATTTA
*
186413 ATTTTTT-TCATTTTGTACGCTTTTTA-TTTATTTA
1 ATTTTTTCTCA-TTT-T-CGATTTTTATTTTATTTA
186447 ATTTTTTCTAACATTTTCGATTTTT
1 ATTTTTTCT--CATTTTCGATTTTT
186472 TTAGAAGGAT
Statistics
Matches: 49, Mismatches: 3, Indels: 14
0.74 0.05 0.21
Matches are distributed among these distances:
32 3 0.06
33 3 0.06
34 29 0.59
35 5 0.10
36 7 0.14
37 2 0.04
ACGTcount: A:0.18, C:0.09, G:0.04, T:0.69
Consensus pattern (33 bp):
ATTTTTTCTCATTTTCGATTTTTATTTTATTTA
Found at i:186801 original size:37 final size:36
Alignment explanation
Indices: 186760--187159 Score: 146
Period size: 37 Copynumber: 10.6 Consensus size: 36
186750 TCAAATATAG
** * *
186760 TTTTTTGAAAGTATATAGTATAT-GTTTTGAAAACG
1 TTTTTTGAAAACATATAATATATCGTTTTGAAAACA
186795 TATTTTTGAAAACATATAATATATCGTTTTGAAAACA
1 T-TTTTTGAAAACATATAATATATCGTTTTGAAAACA
** ** * *
186832 TTTTTTGGAAAATGTATAATATATAATTTTTAAAAAA
1 TTTTTT-GAAAACATATAATATATCGTTTTGAAAACA
* * * * ** ***
186869 TAGTTTTGGAATCTTATAATATATAATTTTTG-AATTT
1 T-TTTTTGAAAACATATAATATAT-CGTTTTGAAAACA
* *
186906 TTTTTTGAAAACGTATAATATATAGATTTTTAGAAAACA
1 TTTTTTGAAAACATATAATATATCG--TTTT-GAAAACA
* * * **
186945 TATTTTTGAAAACGTATATTATATAGTTGAGGAAAACAAA
1 T-TTTTTGAAAACATATAATATATCGTT-TTGAAAAC--A
* * * *
186985 GTTTTT--AAACGTATATTATATAGTTTTGAAAAACA
1 TTTTTTGAAAACATATAATATATCGTTTTG-AAAACA
* * * *
187020 CTTTTTGAAAATATAT-ATATTATGGTTTTGGAAAGCA
1 TTTTTTGAAAACATATAATA-TATCGTTTT-GAAAACA
* * * * *
187057 ATTATTAAAAACATATATATTATATAGTTTCT-AAAATA
1 TTTTTTGAAAACATATA-A-TATATCGTTT-TGAAAACA
* * * * *
187095 ATTTTTGAAATCATATGTAATATATAGTTTTAAAAATGA
1 TTTTTTGAAAACATA--TAATATATCGTTTTGAAAA-CA
*
187134 TTTTTTTGGAAACCTATATAATATAT
1 -TTTTTT-GAAAAC-ATATAATATAT
187160 AATATTTTGA
Statistics
Matches: 283, Mismatches: 53, Indels: 53
0.73 0.14 0.14
Matches are distributed among these distances:
35 8 0.03
36 45 0.16
37 113 0.40
38 49 0.17
39 18 0.06
40 42 0.15
41 5 0.02
42 3 0.01
ACGTcount: A:0.41, C:0.04, G:0.11, T:0.44
Consensus pattern (36 bp):
TTTTTTGAAAACATATAATATATCGTTTTGAAAACA
Found at i:186855 original size:73 final size:72
Alignment explanation
Indices: 186760--186969 Score: 181
Period size: 74 Copynumber: 2.8 Consensus size: 72
186750 TCAAATATAG
* * * * *
186760 TTTTTTGAAAGTATATAGTATAT-GTTTTGAAAACGTATTTTTGAAAACATATAATATAT-CGTT
1 TTTTTTGAAAATGTATAATATATAGTTTTGAAAACATATTTTTGAAAACATATAATATATAAGTT
186823 TTGAAAACA
66 TTG--AACA
* * * * * * * *
186832 TTTTTTGGAAAATGTATAATATATAATTTTTAAAAAATAGTTTTGGAATCTTATAATATATAATT
1 TTTTTT-GAAAATGTATAATATATAGTTTTGAAAACATATTTTTGAAAACATATAATATATAAGT
**
186897 TTTGAATTT
65 TTTGAA-CA
* * *
186906 TTTTTTGAAAACGTATAATATATAGATTTTTAGAAAACATATTTTTGAAAACGTATATTATATA
1 TTTTTTGAAAATGTATAATATATAG--TTTT-GAAAACATATTTTTGAAAACATATAATATATA
186970 GTTGAGGAAA
Statistics
Matches: 107, Mismatches: 24, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
72 6 0.06
73 33 0.31
74 34 0.32
75 9 0.08
76 25 0.23
ACGTcount: A:0.40, C:0.04, G:0.10, T:0.46
Consensus pattern (72 bp):
TTTTTTGAAAATGTATAATATATAGTTTTGAAAACATATTTTTGAAAACATATAATATATAAGTT
TTGAACA
Found at i:186887 original size:74 final size:76
Alignment explanation
Indices: 186809--186952 Score: 179
Period size: 73 Copynumber: 1.9 Consensus size: 76
186799 TTTGAAAACA
* *
186809 TATAATATAT-CGTTTTGAAAACATTTTTTGGAAAATGTATAATATATA-ATTTTTA-AAAA-AT
1 TATAATATATAAGTTTTG--AACATTTTTTGGAAAACGTATAATATATAGATTTTTAGAAAACAT
186870 AGTTTTGGAATCT
64 AGTTTTGGAATCT
* ** * *
186883 TATAATATATAATTTTTGAATTTTTTTTTGAAAACGTATAATATATAGATTTTTAGAAAACATAT
1 TATAATATATAAGTTTTGAACATTTTTTGGAAAACGTATAATATATAGATTTTTAGAAAACATAG
186948 TTTTG
66 TTTTG
186953 AAAACGTATA
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
73 25 0.42
74 17 0.29
75 9 0.15
76 8 0.14
ACGTcount: A:0.40, C:0.03, G:0.10, T:0.47
Consensus pattern (76 bp):
TATAATATATAAGTTTTGAACATTTTTTGGAAAACGTATAATATATAGATTTTTAGAAAACATAG
TTTTGGAATCT
Found at i:187005 original size:113 final size:110
Alignment explanation
Indices: 186797--187011 Score: 238
Period size: 113 Copynumber: 1.9 Consensus size: 110
186787 TGAAAACGTA
* * **
186797 TTTTTGAAAACATATAATATATCGTTTTGAAAACATTTTTTGGAAAATGTATAATATATAATTTT
1 TTTTTGAAAACATATAATATATAGTTTTGAAAACATTTTTTGGAAAACGTATAATATATAATTAG
* * *
186862 TAAAAAATAGTTTTGGAATCTTATAATATATAATTTTTGAATTTT
66 GAAAAAATAGTTTTGGAAACGTATAATATATAATTTTTGAATTTT
* * *
186907 TTTTTGAAAACGTATAATATATAGATTTTTAGAAAACATATTTTT-GAAAACGTATATTATATAG
1 TTTTTGAAAACATATAATATATAG--TTTT-GAAAACAT-TTTTTGGAAAACGTATAATATATAA
* * *
186971 TTGAGGAAAACAA-AGTTTT-TAAACGTATATTATATAGTTTT
62 TT-AGGAAAA-AATAGTTTTGGAAACGTATAATATATAATTTT
187012 GAAAAACACT
Statistics
Matches: 86, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
110 22 0.26
112 4 0.05
113 43 0.50
114 15 0.17
115 2 0.02
ACGTcount: A:0.40, C:0.04, G:0.11, T:0.45
Consensus pattern (110 bp):
TTTTTGAAAACATATAATATATAGTTTTGAAAACATTTTTTGGAAAACGTATAATATATAATTAG
GAAAAAATAGTTTTGGAAACGTATAATATATAATTTTTGAATTTT
Found at i:187156 original size:40 final size:37
Alignment explanation
Indices: 187065--187160 Score: 104
Period size: 38 Copynumber: 2.5 Consensus size: 37
187055 CAATTATTAA
*
187065 AAACATATATATTATATAGTTTCTAAAATAATTTTTG
1 AAACATATATAATATATAGTTTCTAAAATAATTTTTG
* *
187102 AAATCATATGTAATATATAGTTT-TAAAAATGATTTTTTTGG
1 AAA-CATATATAATATATAGTTTCT-AAAAT-A-ATTTTT-G
*
187143 AAACCTATATAATATATA
1 AAACATATATAATATATA
187161 ATATTTTGAA
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
37 4 0.08
38 22 0.45
39 1 0.02
40 18 0.37
41 4 0.08
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (37 bp):
AAACATATATAATATATAGTTTCTAAAATAATTTTTG
Found at i:187220 original size:17 final size:17
Alignment explanation
Indices: 187188--187235 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
187178 TATTTTTAGT
* *
187188 TTTAATTATATATTAA-
1 TTTATTTATTTATTAAG
*
187204 TATTATTTTTTTATTAAG
1 T-TTATTTATTTATTAAG
187222 TTTATTTATTTATT
1 TTTATTTATTTATT
187236 TACTTCGTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 1 0.04
17 24 0.92
18 1 0.04
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (17 bp):
TTTATTTATTTATTAAG
Found at i:187487 original size:12 final size:13
Alignment explanation
Indices: 187465--187493 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
187455 CGGATCAAAC
187465 TTTTAAATTTTAA
1 TTTTAAATTTTAA
187478 TTTT-AATTTTAA
1 TTTTAAATTTTAA
187490 TTTT
1 TTTT
187494 CACAATTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTAAATTTTAA
Found at i:188210 original size:2 final size:2
Alignment explanation
Indices: 188203--188262 Score: 58
Period size: 2 Copynumber: 32.5 Consensus size: 2
188193 GAGTGACGTG
*
188203 TA TA TA TA TA TA TA TA TA T- TA T- TA TA TA TA TA TA AA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
188242 TA AA TA T- TA T- TA TA TT TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
188263 TATTATTCTT
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
1 5 0.11
2 42 0.89
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:192580 original size:20 final size:21
Alignment explanation
Indices: 192554--192634 Score: 69
Period size: 19 Copynumber: 3.9 Consensus size: 21
192544 TCTAGAACCC
*
192554 CAAGGGGGTATCGATTCCCCT
1 CAAGGGGGAATCGATTCCCCT
*
192575 -AA-GGGGAATCGGTTCCCCTT
1 CAAGGGGGAATCGATTCCCC-T
*
192595 CAAAGGGGGAATCGGTT-CCCT
1 C-AAGGGGGAATCGATTCCCCT
* * *
192616 CATGAGGGTATCGATTCCC
1 CAAGGGGGAATCGATTCCC
192635 TCTGCACCAA
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
19 14 0.29
20 14 0.29
21 4 0.08
22 5 0.10
23 12 0.24
ACGTcount: A:0.21, C:0.26, G:0.30, T:0.23
Consensus pattern (21 bp):
CAAGGGGGAATCGATTCCCCT
Found at i:205653 original size:20 final size:21
Alignment explanation
Indices: 205613--205662 Score: 75
Period size: 20 Copynumber: 2.3 Consensus size: 21
205603 TTAATATTAA
205613 ATATTATAGTGTTAATAGTATTT
1 ATATTA-AGTGTT-ATAGTATTT
205636 ATATTAAGTGTT-TAGTATTT
1 ATATTAAGTGTTATAGTATTT
205656 ATATTAA
1 ATATTAA
205663 ATTATTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 15 0.56
22 6 0.22
23 6 0.22
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (21 bp):
ATATTAAGTGTTATAGTATTT
Found at i:206139 original size:39 final size:39
Alignment explanation
Indices: 206096--206173 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
206086 CCTTTTTTCT
206096 CATTTATTTCATGCTATATTTGTAGAATTTTTGGATGAA
1 CATTTATTTCATGCTATATTTGTAGAATTTTTGGATGAA
206135 CATTTATTTCATGCTATATTTGTAGAATTTTTGGATGAA
1 CATTTATTTCATGCTATATTTGTAGAATTTTTGGATGAA
206174 ATGAAAGGTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.28, C:0.08, G:0.15, T:0.49
Consensus pattern (39 bp):
CATTTATTTCATGCTATATTTGTAGAATTTTTGGATGAA
Found at i:207318 original size:27 final size:27
Alignment explanation
Indices: 207283--207337 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
207273 ATTTCAAAAT
207283 TATAATTATGAAA-AAAATATTAATTTA
1 TATAATTAT-AAATAAAATATTAATTTA
* *
207310 TATATTTATAAATAAAATATTTATTTA
1 TATAATTATAAATAAAATATTAATTTA
207337 T
1 T
207338 TTAGAAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 3 0.12
27 22 0.88
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (27 bp):
TATAATTATAAATAAAATATTAATTTA
Found at i:207427 original size:20 final size:21
Alignment explanation
Indices: 207394--207441 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
207384 TTCTTCGATA
207394 TAAAAAAATAAATAAATAA-T
1 TAAAAAAATAAATAAATAATT
* * *
207414 TAAAACAATTAATATATAATT
1 TAAAAAAATAAATAAATAATT
207435 TAAAAAA
1 TAAAAAA
207442 TAGGATATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (21 bp):
TAAAAAAATAAATAAATAATT
Found at i:207638 original size:3 final size:3
Alignment explanation
Indices: 207632--207674 Score: 61
Period size: 3 Copynumber: 14.3 Consensus size: 3
207622 TATTTATATA
*
207632 AAT AAT AAA AAT AAT AAT AAT AAAT AAT AAT AAT AA- AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT A
207675 TTGAAAATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 31 0.86
4 3 0.08
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:207645 original size:13 final size:13
Alignment explanation
Indices: 207632--207674 Score: 70
Period size: 13 Copynumber: 3.3 Consensus size: 13
207622 TATTTATATA
207632 AATAATAA-AAAT
1 AATAATAATAAAT
207644 AATAATAATAAAT
1 AATAATAATAAAT
207657 AATAATAATAAAAT
1 AATAATAAT-AAAT
207671 AATA
1 AATA
207675 TTGAAAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.28
13 13 0.45
14 8 0.28
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AATAATAATAAAT
Found at i:207649 original size:12 final size:12
Alignment explanation
Indices: 207632--207696 Score: 67
Period size: 12 Copynumber: 5.2 Consensus size: 12
207622 TATTTATATA
207632 AATAATAAAAAT
1 AATAATAAAAAT
207644 AATAATAATAAAT
1 AATAATAA-AAAT
207657 AATAATAATAAAAT
1 AATAAT-A-AAAAT
* *
207671 AATATTGAAAAT
1 AATAATAAAAAT
* *
207683 AATGATTAAAAT
1 AATAATAAAAAT
207695 AA
1 AA
207697 AAGGAATTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
12 24 0.53
13 10 0.22
14 10 0.22
15 1 0.02
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (12 bp):
AATAATAAAAAT
Found at i:208988 original size:3 final size:3
Alignment explanation
Indices: 208982--209043 Score: 53
Period size: 3 Copynumber: 22.0 Consensus size: 3
208972 ATTATTTATT
* * *
208982 TAA TAA TAA TAA T-A TAA T-A TAA TAA CAA TAT TAA -AA CAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
209026 TAA TAA TAA CTAA -AA TAA
1 TAA TAA TAA -TAA TAA TAA
209044 ATGAAATAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
2 10 0.20
3 36 0.73
4 3 0.06
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:209004 original size:19 final size:19
Alignment explanation
Indices: 208982--209034 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 19
208972 ATTATTTATT
* *
208982 TAATAATAATAATATAATA
1 TAATAATAATAATAAAACA
* *
209001 TAATAACAATATTAAAACA
1 TAATAATAATAATAAAACA
*
209020 AAATAATAATAATAA
1 TAATAATAATAATAA
209035 CTAAAATAAA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (19 bp):
TAATAATAATAATAAAACA
Found at i:209045 original size:22 final size:21
Alignment explanation
Indices: 208982--209045 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 21
208972 ATTATTTATT
*
208982 TAATAATAATAATATAATATAA
1 TAATAATAATAAAATAA-ATAA
* * *
209004 TAACAATATTAAAACAAAATAA
1 TAATAATAATAAAA-TAAATAA
209026 TAATAATAACTAAAATAAAT
1 TAATAATAA-TAAAATAAAT
209046 GAAATAAAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
22 26 0.79
23 7 0.21
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.30
Consensus pattern (21 bp):
TAATAATAATAAAATAAATAA
Found at i:209531 original size:113 final size:113
Alignment explanation
Indices: 209406--209686 Score: 382
Period size: 113 Copynumber: 2.5 Consensus size: 113
209396 TCGAACAAGC
* ***
209406 TCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTTTAG
1 TCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAACTAG
* * * *
209471 AAAAGTTGATCCATCGAGTGATGAATTCAAACAAAAAGTTGAACAAAT
66 AAAAGCTGATCCACCGAATGATGAATTCAAACAAAAAGTTAAACAAAT
* * *
209519 TCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAACTGG
1 TCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAACTAG
* ** * * * *
209584 CACTGCTGATTCACCGAATGATGAATTCAAGCGAAACGTTAAACAAAT
66 AAAAGCTGATCCACCGAATGATGAATTCAAACAAAAAGTTAAACAAAT
* *
209632 TCTTCTTATTATGAACTTCTTCTTACTTCTTCAGATGAATTCTTCTCATTATGAA
1 TCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
209687 TTCTTCTGGA
Statistics
Matches: 146, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
113 146 1.00
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.40
Consensus pattern (113 bp):
TCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAACTAG
AAAAGCTGATCCACCGAATGATGAATTCAAACAAAAAGTTAAACAAAT
Found at i:209842 original size:76 final size:75
Alignment explanation
Indices: 209703--209857 Score: 283
Period size: 76 Copynumber: 2.1 Consensus size: 75
209693 TGGAAATGCT
209703 GATGACCCGAAGGTTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAACATCATGCACTGT
1 GATGACCCGAAGGTTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAACATCATGCACTGT
209768 AGGACTTACA
66 AGGACTTACA
* *
209778 GATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
1 GATGACCCGAAGG-TTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAACATCATGCACTG
209843 TAGGACTTACA
65 TAGGACTTACA
209854 GATG
1 GATG
209858 TGGGAAATAG
Statistics
Matches: 77, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
75 12 0.16
76 65 0.84
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (75 bp):
GATGACCCGAAGGTTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAACATCATGCACTGT
AGGACTTACA
Found at i:210556 original size:22 final size:22
Alignment explanation
Indices: 210531--210590 Score: 93
Period size: 22 Copynumber: 2.7 Consensus size: 22
210521 AATAAAGCTT
*
210531 TCATTTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
* *
210553 TCATCTTTAAAAAGATAATCTA
1 TCATCTTTGAAAAGAGAATCTA
210575 TCATCTTTGAAAAGAG
1 TCATCTTTGAAAAGAG
210591 TGTAGATGTA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:212025 original size:76 final size:77
Alignment explanation
Indices: 211925--212097 Score: 197
Period size: 76 Copynumber: 2.2 Consensus size: 77
211915 GATATGGGTC
* * * * *
211925 TTCAGTATGACCCAACA-ATTGCTGATACGAACGTTCAAAATACATCAACAGTCCTGATTCTGAT
1 TTCAGCATGCCCCAACATTTTGCTGATACAAACATTCAAAATACATCAACAGTCCTGATTCTGAT
*
211989 TG-AAAGGGGCT
66 TGAAAAAGGGCT
* * * * * *
212000 TTCAGCATGCCCCAACATTTTGCTGATATAAATATTCAGAATACTTCAATATTCCTGATTCTGAT
1 TTCAGCATGCCCCAACATTTTGCTGATACAAACATTCAAAATACATCAACAGTCCTGATTCTGAT
*
212065 TGAAAAAAAGGGTT
66 TG--AAAAAGGGCT
212079 TTCAGCATGCCCCAACATT
1 TTCAGCATGCCCCAACATT
212098 CGCTTCTTGT
Statistics
Matches: 81, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
75 15 0.19
76 40 0.49
79 26 0.32
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (77 bp):
TTCAGCATGCCCCAACATTTTGCTGATACAAACATTCAAAATACATCAACAGTCCTGATTCTGAT
TGAAAAAGGGCT
Done.