Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 372 of 444
Found at i:108053229 original size:40 final size:40
Alignment explanation
Indices: 108053163--108053329 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
108053153 AAATTGAATG
* * *
108053163 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
108053202 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
108053242 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
108053282 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
108053322 ATATCCGG
1 ATATCCGG
108053330 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:108059986 original size:56 final size:54
Alignment explanation
Indices: 108059874--108059982 Score: 132
Period size: 56 Copynumber: 2.0 Consensus size: 54
108059864 ATGAAAAAAA
*
108059874 AAAGAAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAATGTACTAAGG
1 AAAGAAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAATATACTAAGG
* ***
108059928 AAAGAAAAGAAAAATTTGTTCATCCTT-TCTCATCTTCTTGGCCGAA-ATACTAAGG
1 AAAGAAAA-AAAAA-ATGTTCATCCTTCTC-CATAGGCTTGGCCGAATATACTAAGG
108059983 GAAAAGGGGG
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
54 8 0.17
55 15 0.32
56 24 0.51
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.28
Consensus pattern (54 bp):
AAAGAAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAATATACTAAGG
Found at i:108061240 original size:40 final size:40
Alignment explanation
Indices: 108061174--108061340 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
108061164 AAATTGAATG
* * *
108061174 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
108061213 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
108061253 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
108061293 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
108061333 ATATCCGG
1 ATATCCGG
108061341 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:108070518 original size:40 final size:40
Alignment explanation
Indices: 108070452--108070618 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
108070442 AAATTGAATG
* * *
108070452 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
108070491 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
108070531 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
108070571 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
108070611 ATATCCGG
1 ATATCCGG
108070619 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:108077245 original size:56 final size:53
Alignment explanation
Indices: 108077152--108077263 Score: 129
Period size: 56 Copynumber: 2.1 Consensus size: 53
108077142 ATGAAAAAAA
108077152 AAAGAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCG-AATGTACTAAGG
1 AAAGAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAAT-TACTAAGG
*** *
108077205 AAAGAAAAGAAAAATTTGTTCATCCTT-TCTCATCTTCTTGGCCGAAATTACTAGGG
1 AAAGAAAA-AAAAA--TGTTCATCCTTCTC-CATAGGCTTGGCCGAAATTACTAAGG
108077261 AAA
1 AAA
108077264 AGGGGGAGGA
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
53 8 0.16
54 5 0.10
55 2 0.04
56 32 0.64
57 3 0.06
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.28
Consensus pattern (53 bp):
AAAGAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAATTACTAAGG
Found at i:108078520 original size:40 final size:40
Alignment explanation
Indices: 108078454--108078620 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
108078444 AAATTGAATG
* * *
108078454 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
108078493 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * *
108078533 ATATCCGGGCTAAGGCCCGAAGGCATTTGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTG-GTAATT
* * ** *
108078573 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
108078613 ATATCCGG
1 ATATCCGG
108078621 TTATATTCCG
Statistics
Matches: 105, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 13 0.12
40 92 0.88
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:108078587 original size:80 final size:79
Alignment explanation
Indices: 108078454--108078604 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 79
108078444 AAATTGAATG
*
108078454 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAA
1 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
108078519 TTGTGCTAGTGGCT
66 TTGTGCTAGTGGCT
* * * ** *
108078533 ATATCCGGGCTAAGGCCCGAAGGCATTTGTGC-GAGTTATTCTATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAA-GCCCGAAGACAATTATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGC
*
108078597 ATTTGTGC
64 AATTGTGC
108078605 ACGTGATTAT
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
79 14 0.23
80 48 0.77
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCTAGTGGCT
Found at i:108087065 original size:13 final size:13
Alignment explanation
Indices: 108087047--108087071 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
108087037 TTTTACTTTT
108087047 ATTTTATTTTATC
1 ATTTTATTTTATC
108087060 ATTTTATTTTAT
1 ATTTTATTTTAT
108087072 TTTAACAAGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (13 bp):
ATTTTATTTTATC
Found at i:108088756 original size:24 final size:24
Alignment explanation
Indices: 108088720--108088765 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
108088710 TGGGTCTTAA
*
108088720 GCTTTAATAAAACAGTGAGTTTAG
1 GCTTAAATAAAACAGTGAGTTTAG
* *
108088744 GCTTAAATCAAACGGTGAGTTT
1 GCTTAAATAAAACAGTGAGTTT
108088766 TGATTGTATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.33
Consensus pattern (24 bp):
GCTTAAATAAAACAGTGAGTTTAG
Found at i:108097332 original size:16 final size:17
Alignment explanation
Indices: 108097300--108097341 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
108097290 CGGTCATGGC
*
108097300 ATAAATATATGTATATA
1 ATAAATATATCTATATA
108097317 ATAAATATA-CTATATA
1 ATAAATATATCTATATA
*
108097333 AAAAATATA
1 ATAAATATA
108097342 AGTATTATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (17 bp):
ATAAATATATCTATATA
Found at i:108098402 original size:36 final size:36
Alignment explanation
Indices: 108098339--108098439 Score: 98
Period size: 34 Copynumber: 2.8 Consensus size: 36
108098329 GAACAAATAG
* * * * *
108098339 TTGTCGGTTAATTCAACTAGCGATGGGCGCAAAAATC
1 TTGTCGATT-ATTCGACTAGTGCTGGGCACAAAAATC
***
108098376 TTGTCGATTATTCGACTAGTGCTGGGCACACGTATC
1 TTGTCGATTATTCGACTAGTGCTGGGCACAAAAATC
*
108098412 --GTCGATTATTTGACTAGTGCTGGGCACA
1 TTGTCGATTATTCGACTAGTGCTGGGCACA
108098440 CTTATCGTTG
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
34 27 0.49
36 20 0.36
37 8 0.15
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.31
Consensus pattern (36 bp):
TTGTCGATTATTCGACTAGTGCTGGGCACAAAAATC
Found at i:108098421 original size:34 final size:34
Alignment explanation
Indices: 108098378--108098447 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
108098368 CAAAAATCTT
108098378 GTCGATTATTCGACTAGTGCTGGGCACACGTATC
1 GTCGATTATTCGACTAGTGCTGGGCACACGTATC
* *
108098412 GTCGATTATTTGACTAGTGCTGGGCACACTTATC
1 GTCGATTATTCGACTAGTGCTGGGCACACGTATC
108098446 GT
1 GT
108098448 TGGTTTATCC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.20, C:0.21, G:0.26, T:0.33
Consensus pattern (34 bp):
GTCGATTATTCGACTAGTGCTGGGCACACGTATC
Found at i:108108103 original size:2 final size:2
Alignment explanation
Indices: 108108096--108108133 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
108108086 CTGAAATTGC
108108096 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
108108134 GTAACTGATC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:108119472 original size:13 final size:12
Alignment explanation
Indices: 108119444--108119471 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
108119434 CTTTATTTGG
108119444 TTTTCTTTTTTT
1 TTTTCTTTTTTT
108119456 TTTTCTTTTTTT
1 TTTTCTTTTTTT
108119468 TTTT
1 TTTT
108119472 TTTGCTGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (12 bp):
TTTTCTTTTTTT
Found at i:108120795 original size:16 final size:16
Alignment explanation
Indices: 108120774--108120805 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
108120764 AAAATGTAAA
108120774 TTACCCAATAATTTGT
1 TTACCCAATAATTTGT
*
108120790 TTACCCCATAATTTGT
1 TTACCCAATAATTTGT
108120806 CAGTCGTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.22, G:0.06, T:0.44
Consensus pattern (16 bp):
TTACCCAATAATTTGT
Found at i:108127454 original size:18 final size:18
Alignment explanation
Indices: 108127401--108127467 Score: 53
Period size: 18 Copynumber: 3.7 Consensus size: 18
108127391 AATCGGTTAA
* * *
108127401 TCAGTAATATTCATTTAT
1 TCAGTAACAGTCAATTAT
* * **
108127419 TCAATATCAGTCGTTTAT
1 TCAGTAACAGTCAATTAT
*
108127437 TCTGTAACAGTCAATTAT
1 TCAGTAACAGTCAATTAT
*
108127455 TCAGTAGCAGTCA
1 TCAGTAACAGTCA
108127468 GTCTTTAATA
Statistics
Matches: 37, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.40
Consensus pattern (18 bp):
TCAGTAACAGTCAATTAT
Found at i:108127601 original size:6 final size:6
Alignment explanation
Indices: 108127592--108127618 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
108127582 CACCGTAAGG
108127592 GTAACA GTAACA GTAACA GTAACA GTA
1 GTAACA GTAACA GTAACA GTAACA GTA
108127619 GCGGTACACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.19
Consensus pattern (6 bp):
GTAACA
Found at i:108128029 original size:3 final size:3
Alignment explanation
Indices: 108128021--108128064 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
108128011 ATTCAATACC
108128021 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
108128065 TATCATTCAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:108130218 original size:2 final size:2
Alignment explanation
Indices: 108130211--108130242 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
108130201 TTCTTTTTGA
108130211 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
108130243 TAAATTTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:108130534 original size:15 final size:15
Alignment explanation
Indices: 108130514--108130543 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
108130504 CTCAAATTCA
*
108130514 ATTTAATAATTAAAT
1 ATTTAAAAATTAAAT
108130529 ATTTAAAAATTAAAT
1 ATTTAAAAATTAAAT
108130544 TAAATTATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
ATTTAAAAATTAAAT
Found at i:108132082 original size:25 final size:25
Alignment explanation
Indices: 108132028--108132082 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
108132018 TAAGTGATCG
108132028 AAAATTTATGTTTGAATTTAAGTTA
1 AAAATTTATGTTTGAATTTAAGTTA
*
108132053 TAAATTT-TGTTTGATATATTAA-TTA
1 AAAATTTATGTTTGA-AT-TTAAGTTA
108132078 AAAAT
1 AAAAT
108132083 AAATACTGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 7 0.27
25 15 0.58
26 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (25 bp):
AAAATTTATGTTTGAATTTAAGTTA
Found at i:108140842 original size:16 final size:16
Alignment explanation
Indices: 108140821--108140852 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
108140811 GCCCAATAAC
*
108140821 CTAAACTACCAGCCCA
1 CTAAACTAACAGCCCA
108140837 CTAAACTAACAGCCCA
1 CTAAACTAACAGCCCA
108140853 TTACACAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.41, G:0.06, T:0.12
Consensus pattern (16 bp):
CTAAACTAACAGCCCA
Found at i:108141513 original size:16 final size:16
Alignment explanation
Indices: 108141488--108141529 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
108141478 TCTTCCCTTT
*
108141488 TCCCTCCTCTCCTTCC
1 TCCCTTCTCTCCTTCC
* *
108141504 TCCCTTCTCTCTTTTC
1 TCCCTTCTCTCCTTCC
108141520 TCCCTTCTCT
1 TCCCTTCTCT
108141530 TTCTTTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (16 bp):
TCCCTTCTCTCCTTCC
Found at i:108147083 original size:26 final size:25
Alignment explanation
Indices: 108147048--108147119 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 25
108147038 TTACTATCAT
108147048 TATTAC-ATTATTATTATTATATTA
1 TATTACTATTATTATTATTATATTA
*
108147072 TACTTAGTATTATCT-TTA--ATATTA
1 TA-TTACTATTAT-TATTATTATATTA
*
108147096 TATTTCTATTATTA-TATT-TATTA
1 TATTACTATTATTATTATTATATTA
108147119 T
1 T
108147120 TACCTATTGC
Statistics
Matches: 39, Mismatches: 3, Indels: 13
0.71 0.05 0.24
Matches are distributed among these distances:
22 3 0.08
23 14 0.36
24 10 0.26
25 3 0.08
26 8 0.21
27 1 0.03
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.60
Consensus pattern (25 bp):
TATTACTATTATTATTATTATATTA
Found at i:108147120 original size:26 final size:29
Alignment explanation
Indices: 108147058--108147121 Score: 80
Period size: 26 Copynumber: 2.3 Consensus size: 29
108147048 TATTACATTA
*
108147058 TTATTATTATATTATACTTAGTATTATCT
1 TTATTATTATATTATACTTAGTATTATAT
* *
108147087 TTAATATTATATT-T-C-TATTATTATAT
1 TTATTATTATATTATACTTAGTATTATAT
108147113 TTATTATTA
1 TTATTATTA
108147122 CCTATTGCTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
26 17 0.55
27 1 0.03
28 1 0.03
29 12 0.39
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.61
Consensus pattern (29 bp):
TTATTATTATATTATACTTAGTATTATAT
Found at i:108149596 original size:26 final size:26
Alignment explanation
Indices: 108149548--108149618 Score: 126
Period size: 26 Copynumber: 2.8 Consensus size: 26
108149538 AGTTGTAAAG
*
108149548 ATGGAGAAAAGA-GAATGAAATGAGA
1 ATGGGGAAAAGATGAATGAAATGAGA
108149573 ATGGGGAAAAGATGAATGAAATGAGA
1 ATGGGGAAAAGATGAATGAAATGAGA
108149599 ATGGGGAAAAGATGAATGAA
1 ATGGGGAAAAGATGAATGAA
108149619 TTTTATCATC
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
25 11 0.25
26 33 0.75
ACGTcount: A:0.52, C:0.00, G:0.34, T:0.14
Consensus pattern (26 bp):
ATGGGGAAAAGATGAATGAAATGAGA
Found at i:108149924 original size:35 final size:35
Alignment explanation
Indices: 108149885--108149955 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
108149875 GGAAGGGTTA
108149885 TATATAGCGGGGAAATGATTTCCCGGAAGACTTCT
1 TATATAGCGGGGAAATGATTTCCCGGAAGACTTCT
108149920 TATATAGCGGGGAAATGATTTCCCGGAAGACTTCT
1 TATATAGCGGGGAAATGATTTCCCGGAAGACTTCT
108149955 T
1 T
108149956 CTCTAATTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (35 bp):
TATATAGCGGGGAAATGATTTCCCGGAAGACTTCT
Found at i:108150736 original size:45 final size:46
Alignment explanation
Indices: 108150686--108150818 Score: 169
Period size: 45 Copynumber: 2.9 Consensus size: 46
108150676 TTATATACCT
* * *
108150686 AAAATGATTAAGACCATAGCTGAAAGATGCTATGGCATCATGATA-
1 AAAATGACTAAGACCATAGCTAAAAGACGCTATGGCATCATGATAG
* * *
108150731 AAAATGAGTAAGAACATAACTAAAAGACGCTATGGCATCATGATAG
1 AAAATGACTAAGACCATAGCTAAAAGACGCTATGGCATCATGATAG
* * *
108150777 AAACAAGACTAAGACCATAGCTAAAAGACACTATGACATCAT
1 AAA-ATGACTAAGACCATAGCTAAAAGACGCTATGGCATCAT
108150819 TTGATAGTTT
Statistics
Matches: 75, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
45 40 0.53
46 3 0.04
47 32 0.43
ACGTcount: A:0.47, C:0.16, G:0.17, T:0.20
Consensus pattern (46 bp):
AAAATGACTAAGACCATAGCTAAAAGACGCTATGGCATCATGATAG
Found at i:108150925 original size:27 final size:27
Alignment explanation
Indices: 108150895--108150982 Score: 95
Period size: 27 Copynumber: 3.3 Consensus size: 27
108150885 GACATCGTAA
108150895 ATAGTCTGATGGGACATTAAACACGGG
1 ATAGTCTGATGGGACATTAAACACGGG
* * * * *
108150922 ATAGTCCGATAGGACATCAAACATGAG
1 ATAGTCTGATGGGACATTAAACACGGG
* * * *
108150949 ATAGTATGATGGGACAGTAAATACAGG
1 ATAGTCTGATGGGACATTAAACACGGG
108150976 ATAGTCT
1 ATAGTCT
108150983 ACTGGGATAG
Statistics
Matches: 46, Mismatches: 15, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.38, C:0.14, G:0.26, T:0.23
Consensus pattern (27 bp):
ATAGTCTGATGGGACATTAAACACGGG
Found at i:108165238 original size:20 final size:20
Alignment explanation
Indices: 108165204--108165245 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
108165194 AACTATTTAA
** *
108165204 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
108165224 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
108165244 AT
1 AT
108165246 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:108167410 original size:16 final size:15
Alignment explanation
Indices: 108167385--108167428 Score: 65
Period size: 13 Copynumber: 3.0 Consensus size: 15
108167375 AATACTTAAG
108167385 TATATAATATAATAA
1 TATATAATATAATAA
108167400 TATATTAATATAAT-A
1 TATA-TAATATAATAA
108167415 -ATATAATATAATAA
1 TATATAATATAATAA
108167429 AACATAAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 9 0.33
14 4 0.15
15 5 0.19
16 9 0.33
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TATATAATATAATAA
Found at i:108167428 original size:8 final size:8
Alignment explanation
Indices: 108167388--108167422 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
108167378 ACTTAAGTAT
108167388 ATAATATA
1 ATAATATA
108167396 ATAATATA
1 ATAATATA
*
108167404 TTAATATA
1 ATAATATA
108167412 ATAATATA
1 ATAATATA
108167420 ATA
1 ATA
108167423 TAATAAAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
ATAATATA
Found at i:108167520 original size:13 final size:14
Alignment explanation
Indices: 108167489--108167521 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
108167479 GAAATAGGAA
108167489 AGAAAAAAAAAAGG
1 AGAAAAAAAAAAGG
*
108167503 AGAAAAGAAAAAGG
1 AGAAAAAAAAAAGG
108167517 -GAAAA
1 AGAAAA
108167522 TTAGGGTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (14 bp):
AGAAAAAAAAAAGG
Found at i:108171619 original size:44 final size:42
Alignment explanation
Indices: 108171475--108171631 Score: 111
Period size: 43 Copynumber: 3.7 Consensus size: 42
108171465 AACATATACA
* * * *** * *
108171475 ATGCCAATATCCCAAACGTGGTCTTACATGTAATCAAACATTG
1 ATGCCAATGTCCCAGACATGGTCTTACACAAAATCAAATA-AG
* * *
108171518 ATACCACTGTCCCAGACAAGGTCTTACACAAAATCAAATAAG
1 ATGCCAATGTCCCAGACATGGTCTTACACAAAATCAAATAAG
** *
108171560 ATGCTGATGTCCCAGACATGGTCTTACACGTAAAA-CAGAAGT-CG
1 ATGCCAATGTCCCAGACATGGTCTTACAC--AAAATCA-AA-TAAG
* *
108171604 ATGCCAATGTCCCAGACGTGGTTTTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
108171632 GGAAATCAGA
Statistics
Matches: 89, Mismatches: 21, Indels: 7
0.76 0.18 0.06
Matches are distributed among these distances:
42 25 0.28
43 32 0.36
44 31 0.35
45 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.24
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACACAAAATCAAATAAG
Found at i:108175819 original size:78 final size:78
Alignment explanation
Indices: 108175722--108175879 Score: 253
Period size: 78 Copynumber: 2.0 Consensus size: 78
108175712 ATCAGGGAAC
* *
108175722 TCACAGACAACAGACACAAATTCAAATTTCTTTTCTGACATTCTCGAATGAATTACATAAGCAAA
1 TCACAGACAACAGACACAAATTCAAATTTCTTTTCTGACATTCTCGAATCAATTACAGAAGCAAA
*
108175787 ATATGCTTCACAA
66 ATAGGCTTCACAA
** *
108175800 TCACAGACAACAGGTACAAATTCAAATTTTTTTTCTGACATTCTCGAATCAATTACAGAAGCAAA
1 TCACAGACAACAGACACAAATTCAAATTTCTTTTCTGACATTCTCGAATCAATTACAGAAGCAAA
*
108175865 ATAGGCTTCATAA
66 ATAGGCTTCACAA
108175878 TC
1 TC
108175880 TTTTCTCACA
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
78 73 1.00
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (78 bp):
TCACAGACAACAGACACAAATTCAAATTTCTTTTCTGACATTCTCGAATCAATTACAGAAGCAAA
ATAGGCTTCACAA
Found at i:108178590 original size:42 final size:42
Alignment explanation
Indices: 108178529--108178656 Score: 125
Period size: 44 Copynumber: 3.0 Consensus size: 42
108178519 AATTAGACAT
* *
108178529 CGATGCCACTATCCCAGACAGAGTCTTACACGAAATCAAATA-
1 CGATGCCAATGTCCCAGACAG-GTCTTACACGAAATCAAATAG
** * * *
108178571 CGATGCTGATGTCCTAGACATGGTCTTACACATAAAACAAA-AG
1 CGATGCCAATGTCCCAGACA-GGTCTTACAC-GAAATCAAATAG
*
108178614 TCGATGCCAATGTCCCAGACGTGGTCTTACACGAAATCAAATA
1 -CGATGCCAATGTCCCAGAC-AGGTCTTACACGAAATCAAATA
108178657 ACAGAATCCT
Statistics
Matches: 67, Mismatches: 13, Indels: 10
0.74 0.14 0.11
Matches are distributed among these distances:
42 25 0.37
43 15 0.22
44 27 0.40
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.22
Consensus pattern (42 bp):
CGATGCCAATGTCCCAGACAGGTCTTACACGAAATCAAATAG
Found at i:108178671 original size:44 final size:42
Alignment explanation
Indices: 108178540--108178671 Score: 117
Period size: 44 Copynumber: 3.0 Consensus size: 42
108178530 GATGCCACTA
*
108178540 TCCCAGACA-GAGTCTTACACGAAATCAAAT-ACGATGCTGATG
1 TCCCAGACATG-GTCTTACACGAAATCAAATAACGATCCT-ATG
* * * * *
108178582 TCCTAGACATGGTCTTACACATAAAACAAA-AGTCGATGCCAATG
1 TCCCAGACATGGTCTTACAC-GAAATCAAATA-ACGAT-CCTATG
*
108178626 TCCCAGACGTGGTCTTACACGAAATCAAATAACAGAATCCTATG
1 TCCCAGACATGGTCTTACACGAAATCAAATAAC-G-ATCCTATG
108178670 TC
1 TC
108178672 ATGACATATG
Statistics
Matches: 70, Mismatches: 12, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
42 17 0.24
43 16 0.23
44 34 0.49
45 3 0.04
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACACGAAATCAAATAACGATCCTATG
Found at i:108183897 original size:16 final size:16
Alignment explanation
Indices: 108183871--108183918 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 16
108183861 ACTTAAGTAT
*
108183871 ATAATATAATAACATA
1 ATAAAATAATAACATA
* *
108183887 TTAAAATAATAATATA
1 ATAAAATAATAACATA
*
108183903 ATATAATAA-AACATA
1 ATAAAATAATAACATA
108183918 A
1 A
108183919 AAGAAATAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
15 6 0.23
16 20 0.77
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (16 bp):
ATAAAATAATAACATA
Found at i:108183903 original size:21 final size:21
Alignment explanation
Indices: 108183871--108183913 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
108183861 ACTTAAGTAT
*
108183871 ATAATATAATAACATATTAAA
1 ATAATATAATAACATAATAAA
*
108183892 ATAATA-ATATAATATAATAAA
1 ATAATATA-ATAACATAATAAA
108183913 A
1 A
108183914 CATAAAAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
ATAATATAATAACATAATAAA
Found at i:108183926 original size:29 final size:29
Alignment explanation
Indices: 108183869--108183927 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
108183859 ATACTTAAGT
* * *
108183869 ATATAATATAATAACATATTAAAATAATA
1 ATATAATATAATAAAACATTAAAAAAATA
108183898 ATATAATATAATAAAACA-TAAAAGAAATA
1 ATATAATATAATAAAACATTAAAA-AAATA
108183927 A
1 A
108183928 AGAAACAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 5 0.19
29 21 0.81
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.29
Consensus pattern (29 bp):
ATATAATATAATAAAACATTAAAAAAATA
Found at i:108193139 original size:7 final size:7
Alignment explanation
Indices: 108193127--108193161 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
108193117 TTTAAAGATG
108193127 AATAATT
1 AATAATT
108193134 AATAATT
1 AATAATT
108193141 AATAATT
1 AATAATT
* *
108193148 AATTATA
1 AATAATT
108193155 AATAATT
1 AATAATT
108193162 GCTAAAACTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
AATAATT
Found at i:108205846 original size:25 final size:25
Alignment explanation
Indices: 108205817--108205864 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
108205807 ACGTCACTTC
*
108205817 TATATTTTTATTTCTCA-TATTATCT
1 TATATTTATATTTC-CATTATTATCT
108205842 TATATTTATATTTCCATTATTAT
1 TATATTTATATTTCCATTATTAT
108205865 ACCATATCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 2 0.10
25 19 0.90
ACGTcount: A:0.27, C:0.10, G:0.00, T:0.62
Consensus pattern (25 bp):
TATATTTATATTTCCATTATTATCT
Found at i:108207777 original size:22 final size:22
Alignment explanation
Indices: 108207735--108207784 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 22
108207725 TTTCACAAAC
108207735 TAATAAATAACATATAAATATTT
1 TAAT-AATAACATATAAATATTT
108207758 TAATAATAA-ATATAATATATTT
1 TAATAATAACATATAA-ATATTT
*
108207780 AAATA
1 TAATA
108207785 TGTTTAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 6 0.24
22 15 0.60
23 4 0.16
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
TAATAATAACATATAAATATTT
Found at i:108210333 original size:26 final size:27
Alignment explanation
Indices: 108210285--108210335 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
108210275 TGAAAATAAT
*
108210285 TTAAAAATATAAAATTTCCAAAAATTA
1 TTAAAAATATAAAATTTCAAAAAATTA
*
108210312 TTAAAAATA-AAAATTTTAAAAAAT
1 TTAAAAATATAAAATTTCAAAAAAT
108210336 AGAAAAACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 13 0.59
27 9 0.41
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (27 bp):
TTAAAAATATAAAATTTCAAAAAATTA
Found at i:108210336 original size:16 final size:16
Alignment explanation
Indices: 108210304--108210333 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
108210294 TAAAATTTCC
108210304 AAAAATTATTAAAAAT
1 AAAAATTATTAAAAAT
108210320 AAAAATT-TTAAAAA
1 AAAAATTATTAAAAA
108210334 ATAGAAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
AAAAATTATTAAAAAT
Found at i:108210342 original size:25 final size:27
Alignment explanation
Indices: 108210287--108210342 Score: 62
Period size: 25 Copynumber: 2.1 Consensus size: 27
108210277 AAAATAATTT
* **
108210287 AAAAATATAAAATTTCCAAAAATTATT
1 AAAAATATAAAATTTCCAAAAAATAGA
*
108210314 AAAAATA-AAAATTT-TAAAAAATAGA
1 AAAAATATAAAATTTCCAAAAAATAGA
108210339 AAAA
1 AAAA
108210343 CATTTGAAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 11 0.44
26 7 0.28
27 7 0.28
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.27
Consensus pattern (27 bp):
AAAAATATAAAATTTCCAAAAAATAGA
Found at i:108211473 original size:29 final size:29
Alignment explanation
Indices: 108211414--108211474 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
108211404 AACTTTAAAA
* * *
108211414 TTAATTATTTTTATTTTTAAAATTATATT
1 TTAATTATTTATATTTTAAAAATTACATT
*
108211443 TTAATTATTTATA-TTTAAAATATTACGTT
1 TTAATTATTTATATTTTAAAA-ATTACATT
108211472 TTA
1 TTA
108211475 GTCACTTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 6 0.22
29 21 0.78
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (29 bp):
TTAATTATTTATATTTTAAAAATTACATT
Found at i:108212634 original size:18 final size:18
Alignment explanation
Indices: 108212611--108212648 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
108212601 AATATATATT
108212611 AACCCAAATACCCAACCC
1 AACCCAAATACCCAACCC
*
108212629 AACCCAATTACCCAACCC
1 AACCCAAATACCCAACCC
108212647 AA
1 AA
108212649 TCATAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.45, C:0.47, G:0.00, T:0.08
Consensus pattern (18 bp):
AACCCAAATACCCAACCC
Found at i:108212641 original size:13 final size:13
Alignment explanation
Indices: 108212625--108212649 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
108212615 CAAATACCCA
108212625 ACCCAACCCAATT
1 ACCCAACCCAATT
108212638 ACCCAACCCAAT
1 ACCCAACCCAAT
108212650 CATAAAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:108212715 original size:20 final size:20
Alignment explanation
Indices: 108212677--108212716 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
108212667 ATTTAATAAA
**
108212677 TAAAAATAAAAATCTAAAAC
1 TAAAAATAAAAATAAAAAAC
*
108212697 TAAAACTAAAAATAAAAAAC
1 TAAAAATAAAAATAAAAAAC
108212717 ATATAATTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.72, C:0.10, G:0.00, T:0.17
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAAAC
Found at i:108212755 original size:9 final size:9
Alignment explanation
Indices: 108212743--108212792 Score: 55
Period size: 9 Copynumber: 5.6 Consensus size: 9
108212733 ATAATTCAGT
*
108212743 TAATTTGGG
1 TAATTCGGG
108212752 TAATTCGGG
1 TAATTCGGG
*
108212761 TAATTCGGT
1 TAATTCGGG
**
108212770 TAATTCGAT
1 TAATTCGGG
*
108212779 TAATTCGGT
1 TAATTCGGG
108212788 TAATT
1 TAATT
108212793 TTATACTTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 37 1.00
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.44
Consensus pattern (9 bp):
TAATTCGGG
Found at i:108212772 original size:27 final size:27
Alignment explanation
Indices: 108212734--108212792 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
108212724 TTTATACAAA
* *
108212734 TAATTCAGTTAATTTGGGTAATTCGGG
1 TAATTCAGTTAATTCGAGTAATTCGGG
* * *
108212761 TAATTCGGTTAATTCGATTAATTCGGT
1 TAATTCAGTTAATTCGAGTAATTCGGG
108212788 TAATT
1 TAATT
108212793 TTATACTTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.27, C:0.08, G:0.20, T:0.44
Consensus pattern (27 bp):
TAATTCAGTTAATTCGAGTAATTCGGG
Found at i:108212782 original size:18 final size:18
Alignment explanation
Indices: 108212742--108212792 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
108212732 AATAATTCAG
* * *
108212742 TTAATTTGGGTAATTCGG
1 TTAATTCGGTTAATTCGA
*
108212760 GTAATTCGGTTAATTCGA
1 TTAATTCGGTTAATTCGA
108212778 TTAATTCGGTTAATT
1 TTAATTCGGTTAATT
108212793 TTATACTTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.25, C:0.08, G:0.22, T:0.45
Consensus pattern (18 bp):
TTAATTCGGTTAATTCGA
Found at i:108224633 original size:24 final size:24
Alignment explanation
Indices: 108224601--108224648 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
108224591 AAGACCACAG
108224601 CTGAAAGACACCATGACATTACAT
1 CTGAAAGACACCATGACATTACAT
108224625 CTGAAAGACACCATGACATTACAT
1 CTGAAAGACACCATGACATTACAT
108224649 TTGGTATTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.25, G:0.12, T:0.21
Consensus pattern (24 bp):
CTGAAAGACACCATGACATTACAT
Found at i:108224737 original size:24 final size:24
Alignment explanation
Indices: 108224706--108224766 Score: 106
Period size: 24 Copynumber: 2.5 Consensus size: 24
108224696 AAGGATAACA
108224706 AATGAAAAGGTTGAAAAAT-ATAGC
1 AATGAAAAGGTTG-AAAATGATAGC
108224730 AATGAAAAGGTTGAAAATGATAGC
1 AATGAAAAGGTTGAAAATGATAGC
108224754 AATGAAAAGGTTG
1 AATGAAAAGGTTG
108224767 GTATCTCATC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
23 5 0.14
24 31 0.86
ACGTcount: A:0.51, C:0.03, G:0.25, T:0.21
Consensus pattern (24 bp):
AATGAAAAGGTTGAAAATGATAGC
Found at i:108226391 original size:42 final size:42
Alignment explanation
Indices: 108226312--108226392 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
108226302 ATCAAATGTA
* *
108226312 CACACGGGCTGACACACGATCATGTAACCCTATTTTGAACAC
1 CACACGGGCTGACACACGATCATGTAACCATACTTTGAACAC
* **
108226354 CACACGGGCTGAGACACGATCATGTGTCCATACTTTGAA
1 CACACGGGCTGACACACGATCATGTAACCATACTTTGAA
108226393 TGTCTACACG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (42 bp):
CACACGGGCTGACACACGATCATGTAACCATACTTTGAACAC
Found at i:108226913 original size:2 final size:2
Alignment explanation
Indices: 108226906--108226947 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
108226896 AAACAAGGTA
108226906 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
108226948 TACAAAGCTC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:108234786 original size:3 final size:3
Alignment explanation
Indices: 108234375--108234767 Score: 117
Period size: 3 Copynumber: 128.3 Consensus size: 3
108234365 AGAAAGAGAT
* * * * * * *
108234375 ATA ATA CTA ATA ATA ATA ATA ATA ATG CTA A-A TTA AT- TTG ATG ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
108234421 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA CGCTA ATA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA --ATA ATA ATA ATA ATA
* *
108234468 AAA ATA ATA A-A TATAA ATA AT- ATA A-A AT- TTA A-A AGTA TATGA
1 ATA ATA ATA ATA -AT-A ATA ATA ATA ATA ATA ATA ATA A-TA -AT-A
*
108234510 A-A ATA TATAA ATAA ATA GATA ATA A-A ATA ATA ATA ATA ATA A-A GGTA
1 ATA ATA -AT-A AT-A ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
* * * * *
108234557 A-A AGTA AAA ATA A-A ACCA ATCT ATA AAA ATC ATA ATGA ATAA ATAA
1 ATA A-TA ATA ATA ATA A-TA AT-A ATA ATA ATA ATA AT-A AT-A AT-A
* * * * *
108234603 ATA A-A CA-A ACAA ATAA ATA TTAA ATA TTA ACTAA ATCA GT- TTA ATA
1 ATA ATA -ATA A-TA AT-A ATA AT-A ATA ATA A-T-A AT-A ATA ATA ATA
*
108234649 GT- ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
108234696 TTA A-A A-A AT- ACA ATA GTA TTA ATA GTA ATA ATA ATA ATGA AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA
*
108234738 ATAA ATA ATA GTA A-A AGTAA ATA ATA ATA A
1 AT-A ATA ATA ATA ATA A-T-A ATA ATA ATA A
108234768 AATTATCCGA
Statistics
Matches: 293, Mismatches: 53, Indels: 88
0.68 0.12 0.20
Matches are distributed among these distances:
2 32 0.11
3 201 0.69
4 50 0.17
5 10 0.03
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:108235096 original size:5 final size:5
Alignment explanation
Indices: 108235086--108235116 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
108235076 GGTCCTGAAG
*
108235086 CGGGT CGGGT CGGGT CGGGT CGGAT CGGGT C
1 CGGGT CGGGT CGGGT CGGGT CGGGT CGGGT C
108235117 AGACCAGGGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.03, C:0.23, G:0.55, T:0.19
Consensus pattern (5 bp):
CGGGT
Found at i:108236380 original size:95 final size:97
Alignment explanation
Indices: 108236252--108236437 Score: 252
Period size: 96 Copynumber: 1.9 Consensus size: 97
108236242 AGGGAGATGA
* ** *
108236252 GATTTGCTATCTTCAATCTGCTCCGTTGCAACTTTAGGGAGATAAGACTT-G-TAACTTCAACCT
1 GATTTGCTAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTCGATAACTTCAACCT
108236315 GCTCCACTGCAACTTCAGGGAGATAAGGTTTGT
65 GCTCCACTGCAACTTCAGGGAGATAAGGTTTGT
** **
108236348 GATTTG-TAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGATATTTTCAGTCTG
1 GATTTGCTAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGATAACTTCAACCTG
* *
108236412 CTTCGCTGCAACTTCAGGGAGATAAG
66 CTCCACTGCAACTTCAGGGAGATAAG
108236438 ACTTGTAACT
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
94 2 0.03
95 37 0.47
96 39 0.50
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.32
Consensus pattern (97 bp):
GATTTGCTAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGATAACTTCAACCTG
CTCCACTGCAACTTCAGGGAGATAAGGTTTGT
Found at i:108236427 original size:45 final size:45
Alignment explanation
Indices: 108236348--108236476 Score: 147
Period size: 45 Copynumber: 2.9 Consensus size: 45
108236338 TAAGGTTTGT
*
108236348 GATTTG-TAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA
1 GATTTGATATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA
* * * * *
108236392 GATTCGATATTTTCAGTCTGCTTCGCTGCAACTTCAGGGAGATAA
1 GATTTGATATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA
* * * *
108236437 GACTTG-TAACTTCAACCTGCTCCACTACAAC-TCAGGGAGA
1 GATTTGATATCTTCAATCTGCTCCACTGCAACTTCAGGGAGA
108236477 CAAGGCTAGT
Statistics
Matches: 69, Mismatches: 15, Indels: 3
0.79 0.17 0.03
Matches are distributed among these distances:
43 9 0.13
44 23 0.33
45 37 0.54
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (45 bp):
GATTTGATATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA
Found at i:108236442 original size:140 final size:139
Alignment explanation
Indices: 108236227--108236481 Score: 402
Period size: 140 Copynumber: 1.8 Consensus size: 139
108236217 TGTTCCACTA
* * * * * *
108236227 CTCCACTGTAACTTCAGGGAGATGAGATTTGCTATCTTCAATCTGCTCCGTTGCAACTTTAGGGA
1 CTCCACTGCAACTTCAGGGAGATAAGATTCGATATCTTCAATCTGCTCCGCTGCAACTTCAGGGA
* *
108236292 GATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGATTTGTAA
66 GATAAGACTTGTAACTTCAACCTGCTCCACTACAAC-TCAGGGAGACAAGGTTTGTGATTTGTAA
108236357 CTTCAATCTG
130 CTTCAATCTG
* * *
108236367 CTCCACTGCAACTTCAGGGAGATAAGATTCGATATTTTCAGTCTGCTTCGCTGCAACTTCAGGGA
1 CTCCACTGCAACTTCAGGGAGATAAGATTCGATATCTTCAATCTGCTCCGCTGCAACTTCAGGGA
108236432 GATAAGACTTGTAACTTCAACCTGCTCCACTACAACTCAGGGAGACAAGG
66 GATAAGACTTGTAACTTCAACCTGCTCCACTACAACTCAGGGAGACAAGG
108236482 CTAGTGGCTT
Statistics
Matches: 104, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
139 13 0.12
140 91 0.88
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (139 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTCGATATCTTCAATCTGCTCCGCTGCAACTTCAGGGA
GATAAGACTTGTAACTTCAACCTGCTCCACTACAACTCAGGGAGACAAGGTTTGTGATTTGTAAC
TTCAATCTG
Found at i:108236679 original size:45 final size:45
Alignment explanation
Indices: 108236626--108237015 Score: 230
Period size: 45 Copynumber: 8.8 Consensus size: 45
108236616 TAGTGGCTTA
*
108236626 AATCTGCTCCCTTGCTACCTCAAGGAGATAAGATTCTCCGT-TTT
1 AATCTGCTCCATTGCTACCTCAAGGAGATAAGATTCTCCGTCTTT
* * **
108236670 CAATCTGCTCCATTGCTACCTCATGGAGATAATA-TCTACAATC-TT
1 -AATCTGCTCCATTGCTACCTCAAGGAGATAAGATTCT-CCGTCTTT
* * * * * * **
108236715 CATCTTGCTCCACTGCT-GCT-TAGAGAGATAAG--GCT-AGTGGCTGA
1 AATC-TGCTCCATTGCTACCTCAAG-GAGATAAGATTCTCCGT--CTTT
* *
108236759 AATCTGCTCCCTTGCTACCTCAAGGAGATAAGATTCGCCGTCTTT
1 AATCTGCTCCATTGCTACCTCAAGGAGATAAGATTCTCCGTCTTT
* *
108236804 AATCTGCTCTATTGCTACCTCAAGGAGATAAGATTCGCCGTCTTT
1 AATCTGCTCCATTGCTACCTCAAGGAGATAAGATTCTCCGTCTTT
* * * **
108236849 AATCTGCTCTATTGCTACCTCATGGAAATAAGATT-TACAATCTTT
1 AATCTGCTCCATTGCTACCTCAAGGAGATAAGATTCT-CCGTCTTT
** * * * * * * * *
108236894 AGCCTGCTCCACTACT-GCTCAGGGAGACAAG--GCT-AGTGGCTTG
1 AATCTGCTCCATTGCTACCTCAAGGAGATAAGATTCTCCGT--CTTT
* ** * * *
108236937 AATCTGCTCCCTAACTACCTTAAGGAGATAAGATTCACCGTCTTC
1 AATCTGCTCCATTGCTACCTCAAGGAGATAAGATTCTCCGTCTTT
* * * *
108236982 GATCTACTCCATTACTACCTCATGGAGATAAGAT
1 AATCTGCTCCATTGCTACCTCAAGGAGATAAGAT
108237016 CTGTGAATTT
Statistics
Matches: 262, Mismatches: 63, Indels: 40
0.72 0.17 0.11
Matches are distributed among these distances:
41 4 0.02
43 29 0.11
44 50 0.19
45 173 0.66
46 2 0.01
47 4 0.02
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.31
Consensus pattern (45 bp):
AATCTGCTCCATTGCTACCTCAAGGAGATAAGATTCTCCGTCTTT
Found at i:108236810 original size:178 final size:178
Alignment explanation
Indices: 108236626--108237015 Score: 541
Period size: 178 Copynumber: 2.2 Consensus size: 178
108236616 TAGTGGCTTA
* *
108236626 AATCTGCTCCCTTGCTACCTCAAGGAGATAAGATTCTCCGT-TTTCAATCTGCTCCATTGCTACC
1 AATCTGCTCCATTGCTACCTCAAGGAGATAAGATTCGCCGTCTTT-AATCTGCTCCATTGCTACC
* * * * * * *
108236690 TCATGGAGATAATATCTACAATCTTCATCTTGCTCCACTGCTGCTTAGAGAGATAAGGCTAGTGG
65 TCATGGAAATAAGATCTACAATCTTCAGCCTGCTCCACTACTGCTCAGAGAGACAAGGCTAGTGG
** * *
108236755 C-TGAAATCTGCTCCCTTGCTACCTCAAGGAGATAAGATTCGCCGTCTTT
130 CTTG-AATCTGCTCCCTAACTACCTCAAGGAGATAAGATTCACCGTCTTC
* *
108236804 AATCTGCTCTATTGCTACCTCAAGGAGATAAGATTCGCCGTCTTTAATCTGCTCTATTGCTACCT
1 AATCTGCTCCATTGCTACCTCAAGGAGATAAGATTCGCCGTCTTTAATCTGCTCCATTGCTACCT
* * *
108236869 CATGGAAATAAGATTTACAATCTTTAGCCTGCTCCACTACTGCTCAGGGAGACAAGGCTAGTGGC
66 CATGGAAATAAGATCTACAATCTTCAGCCTGCTCCACTACTGCTCAGAGAGACAAGGCTAGTGGC
*
108236934 TTGAATCTGCTCCCTAACTACCTTAAGGAGATAAGATTCACCGTCTTC
131 TTGAATCTGCTCCCTAACTACCTCAAGGAGATAAGATTCACCGTCTTC
* * * *
108236982 GATCTACTCCATTACTACCTCATGGAGATAAGAT
1 AATCTGCTCCATTGCTACCTCAAGGAGATAAGAT
108237016 CTGTGAATTT
Statistics
Matches: 186, Mismatches: 24, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
178 181 0.97
179 5 0.03
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.31
Consensus pattern (178 bp):
AATCTGCTCCATTGCTACCTCAAGGAGATAAGATTCGCCGTCTTTAATCTGCTCCATTGCTACCT
CATGGAAATAAGATCTACAATCTTCAGCCTGCTCCACTACTGCTCAGAGAGACAAGGCTAGTGGC
TTGAATCTGCTCCCTAACTACCTCAAGGAGATAAGATTCACCGTCTTC
Found at i:108236831 original size:133 final size:133
Alignment explanation
Indices: 108236446--108236837 Score: 504
Period size: 133 Copynumber: 2.9 Consensus size: 133
108236436 AGACTTGTAA
* ** * * *
108236446 CTTCAACCTGCTCCACTACAACTCAGGGAGACAAGGCTAGTGGCTTG-AATCTGCTCCCTTGCTA
1 CTTCAGCCTGCTCCACTACTGCTCTGAGAGATAAGGCTAGTGGC-TGAAATCTGCTCCCTTGCTA
* * ** * * * * *
108236510 CCT-TAGGAAGATAAGATTCGTCGTCTTCGATCTGCTCCATTACTACCTTATGCAAATGAGATCT
65 CCTCAAGG-AGATAAGATTCGCCGTCTTTAATCTGCTCCATTGCTACCTCATGGAGATAAGATCT
108236574 ACAAT
129 ACAAT
* *
108236579 CTTCAGCCTGCTCCACTACTGCTCTGGGAGATAAGGCTAGTGGCTTAAATCTGCTCCCTTGCTAC
1 CTTCAGCCTGCTCCACTACTGCTCTGAGAGATAAGGCTAGTGGCTGAAATCTGCTCCCTTGCTAC
* *
108236644 CTCAAGGAGATAAGATTCTCCGT-TTTCAATCTGCTCCATTGCTACCTCATGGAGATAATATCTA
66 CTCAAGGAGATAAGATTCGCCGTCTTT-AATCTGCTCCATTGCTACCTCATGGAGATAAGATCTA
108236708 CAAT
130 CAAT
* * *
108236712 CTTCATCTTGCTCCACTGCTGCT-TAGAGAGATAAGGCTAGTGGCTGAAATCTGCTCCCTTGCTA
1 CTTCAGCCTGCTCCACTACTGCTCT-GAGAGATAAGGCTAGTGGCTGAAATCTGCTCCCTTGCTA
* *
108236776 CCTCAAGGAGATAAGATTCGCCGTCTTTAATCTGCTCTATTGCTACCTCAAGGAGATAAGAT
65 CCTCAAGGAGATAAGATTCGCCGTCTTTAATCTGCTCCATTGCTACCTCATGGAGATAAGAT
108236838 TCGCCGTCTT
Statistics
Matches: 228, Mismatches: 26, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
132 4 0.02
133 218 0.96
134 6 0.03
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (133 bp):
CTTCAGCCTGCTCCACTACTGCTCTGAGAGATAAGGCTAGTGGCTGAAATCTGCTCCCTTGCTAC
CTCAAGGAGATAAGATTCGCCGTCTTTAATCTGCTCCATTGCTACCTCATGGAGATAAGATCTAC
AAT
Found at i:108243716 original size:19 final size:20
Alignment explanation
Indices: 108243691--108243741 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
108243681 AAAACAATAG
108243691 ATAAAAAAACTAAAGAAT-AA
1 ATAAAAAAA-TAAAGAATAAA
*
108243711 ATAAAAAAATAAAGAGTAAA
1 ATAAAAAAATAAAGAATAAA
*
108243731 ATAAAATAATA
1 ATAAAAAAATA
108243742 GGACCTAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 7 0.25
20 21 0.75
ACGTcount: A:0.75, C:0.02, G:0.06, T:0.18
Consensus pattern (20 bp):
ATAAAAAAATAAAGAATAAA
Found at i:108243822 original size:24 final size:25
Alignment explanation
Indices: 108243795--108243849 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
108243785 TAGACTGAAG
108243795 AATAATAATT-ATA-ACAATAATG-A
1 AATAATAATTAATATA-AATAATGTA
108243818 TAATAAT-ATTAATATAAATAATGTA
1 -AATAATAATTAATATAAATAATGTA
108243843 AATAATA
1 AATAATA
108243850 GAATACCTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
23 3 0.11
24 22 0.81
25 2 0.07
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (25 bp):
AATAATAATTAATATAAATAATGTA
Found at i:108244444 original size:3 final size:3
Alignment explanation
Indices: 108243954--108244425 Score: 180
Period size: 3 Copynumber: 155.3 Consensus size: 3
108243944 AGAAAGAGAT
* * *
108243954 ATA ATA CTA ATA CTA ATA CTA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * * * * *
108244002 ATA ATA ATA ATA ATA ATG CTA A-A TTA AT- TTG ATG ATG ATG ATG ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
108244048 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A ATAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A
* * * *
108244093 AGA ATA ATA ATA CGCTA ATA ATA ATA ATA GTA AAA ATA ATA A-A TATAA
1 ATA ATA ATA ATA --ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -AT-A
* *
108244141 ATA AT- ATA A-A AT- TTA A-A AGTA TATGA A-A AGA TATAA ATAA ATA
1 ATA ATA ATA ATA ATA ATA ATA A-TA -AT-A ATA ATA -AT-A AT-A ATA
* *
108244184 GATA ATA A-A ATA ATA ATA ATA ATA ATA A-A GGTA A-A AGTA AAA ATA
1 -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA A-TA ATA ATA
* * * *
108244229 A-A ACCA ATCT ATA AAA ATA ATA ATGA ATAA ATAA ATA A-A CA-A ACAA
1 ATA A-TA AT-A ATA ATA ATA ATA AT-A AT-A AT-A ATA ATA -ATA A-TA
* * * * * *
108244275 ATAA ATA TTAA ATA TTAA ATA TTA ACTAA ATCA GT- TTA ATA GT- ATA
1 AT-A ATA AT-A ATA AT-A ATA ATA A-T-A AT-A ATA ATA ATA ATA ATA
* *
108244321 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA GTA A-A A-A AT- ACA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
108244366 ATA GTA GTA ATA GTA ATA ATA ATA ATGA AT- ATAA ATA ATA GTA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA AT-A ATA ATA ATA ATA
*
108244411 AGA A-A ATA ATA ATA A
1 ATA ATA ATA ATA ATA A
108244426 AATTAACTGA
Statistics
Matches: 364, Mismatches: 59, Indels: 92
0.71 0.11 0.18
Matches are distributed among these distances:
2 36 0.10
3 268 0.74
4 52 0.14
5 8 0.02
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:108245722 original size:2 final size:2
Alignment explanation
Indices: 108245715--108245758 Score: 72
Period size: 2 Copynumber: 22.0 Consensus size: 2
108245705 TTGTTTTGGG
108245715 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT ACT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT
108245757 AT
1 AT
108245759 TTTAATTTGA
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 1 0.03
2 37 0.93
3 2 0.05
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:108246411 original size:23 final size:22
Alignment explanation
Indices: 108246361--108246412 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 22
108246351 ATTTTGAAAC
108246361 TTTTTTTTTAGATAATTATGTT
1 TTTTTTTTTAGATAATTATGTT
*
108246383 TATTTTATTTAGATTAA-TA-GTT
1 T-TTTTTTTTAGA-TAATTATGTT
*
108246405 ATTTTTTT
1 TTTTTTTT
108246413 AACTTCATGA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
21 6 0.24
22 4 0.16
23 12 0.48
24 3 0.12
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (22 bp):
TTTTTTTTTAGATAATTATGTT
Found at i:108247702 original size:2 final size:2
Alignment explanation
Indices: 108247697--108247731 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
108247687 TATTATGATT
108247697 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
108247732 TTGGAAAAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:108249961 original size:44 final size:44
Alignment explanation
Indices: 108249878--108249969 Score: 114
Period size: 44 Copynumber: 2.1 Consensus size: 44
108249868 TGTTCAGGGA
* *
108249878 TACTTCGACCTTGAGTCGATGAGGCACTATAAGTTTCGTACTGT
1 TACTTCGACCTTAAGTCGATGAGGCACTATAAGTGTCGTACTGT
* * **
108249922 TACTTCGACTTTAAGTCGTTGAGGCACCT-TGTGTGTCGTACTGT
1 TACTTCGACCTTAAGTCGATGAGGCA-CTATAAGTGTCGTACTGT
108249966 TACT
1 TACT
108249970 GTTACTTCGG
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 39 0.95
45 2 0.05
ACGTcount: A:0.20, C:0.21, G:0.23, T:0.37
Consensus pattern (44 bp):
TACTTCGACCTTAAGTCGATGAGGCACTATAAGTGTCGTACTGT
Found at i:108250364 original size:12 final size:12
Alignment explanation
Indices: 108250347--108250371 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
108250337 AAAGTGTAAT
108250347 TATGAATTGAAA
1 TATGAATTGAAA
108250359 TATGAATTGAAA
1 TATGAATTGAAA
108250371 T
1 T
108250372 TGAGATATCA
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:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (12 bp):
TATGAATTGAAA
Found at i:108252550 original size:14 final size:14
Alignment explanation
Indices: 108252528--108252561 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
108252518 CTTTTATACT
108252528 AAATAAATAATAATA
1 AAAT-AATAATAATA
108252543 AAATAATAATAATA
1 AAATAATAATAATA
108252557 AAATA
1 AAATA
108252562 TCTCATTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 15 0.79
15 4 0.21
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
AAATAATAATAATA
Found at i:108252872 original size:30 final size:31
Alignment explanation
Indices: 108252804--108252862 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
108252794 CACCCTTACA
* *
108252804 ATATTTTCACTATTAGTCCTTCAAATTTTTC
1 ATATTTACACTATTAATCCTTCAAATTTTTC
*
108252835 ATGTTTACACT-TTAATCCTTCAAATTTT
1 ATATTTACACTATTAATCCTTCAAATTTT
108252863 GAGTATTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 16 0.64
31 9 0.36
ACGTcount: A:0.27, C:0.19, G:0.03, T:0.51
Consensus pattern (31 bp):
ATATTTACACTATTAATCCTTCAAATTTTTC
Found at i:108255118 original size:20 final size:20
Alignment explanation
Indices: 108255093--108255138 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
108255083 AATTAAAAGC
108255093 TGAGAACCAAAAAGAGATGT
1 TGAGAACCAAAAAGAGATGT
*
108255113 TGAGAACCAAAAAGAGATTT
1 TGAGAACCAAAAAGAGATGT
108255133 TGAGAA
1 TGAGAA
108255139 ATTGAGGTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.50, C:0.09, G:0.24, T:0.17
Consensus pattern (20 bp):
TGAGAACCAAAAAGAGATGT
Found at i:108257212 original size:13 final size:13
Alignment explanation
Indices: 108257194--108257226 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
108257184 CCCTTGTTGT
108257194 TTAATGTATGTCA
1 TTAATGTATGTCA
108257207 TTAATGTATGTCA
1 TTAATGTATGTCA
108257220 TTAATGT
1 TTAATGT
108257227 TAGTGAAGCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.30, C:0.06, G:0.15, T:0.48
Consensus pattern (13 bp):
TTAATGTATGTCA
Found at i:108259803 original size:2 final size:2
Alignment explanation
Indices: 108259798--108259825 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
108259788 GATTTCTTCA
108259798 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
108259826 TAAAATTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:108261620 original size:24 final size:24
Alignment explanation
Indices: 108261593--108261639 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
108261583 TTAGATTTTA
108261593 TTAGAAATAAACTATATATTAACT
1 TTAGAAATAAACTATATATTAACT
* *
108261617 TTAGAAATAAATTATATTTTAAC
1 TTAGAAATAAACTATATATTAAC
108261640 ATATACTAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.40
Consensus pattern (24 bp):
TTAGAAATAAACTATATATTAACT
Found at i:108262297 original size:16 final size:16
Alignment explanation
Indices: 108262261--108262308 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
108262251 AATATATAAC
* *
108262261 ATATTTAATATAAGTA
1 ATATTTAAAATAAATA
108262277 ATATTTAAAATAAATA
1 ATATTTAAAATAAATA
*
108262293 TTATTTTATAAATAAA
1 ATA-TTTA-AAATAAA
108262309 AAAATTGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
16 16 0.59
17 4 0.15
18 7 0.26
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (16 bp):
ATATTTAAAATAAATA
Found at i:108271698 original size:43 final size:43
Alignment explanation
Indices: 108271637--108271720 Score: 132
Period size: 43 Copynumber: 2.0 Consensus size: 43
108271627 ATATATGCAC
*
108271637 TGATTGCAAGCACATATCATGATAAGGAAACCAACCTTGGATG
1 TGATTGCAAGCACATATCATGATAAGGAAACCAACATTGGATG
* * *
108271680 TGATTGGAAGCACCTATCATGATAATGAAACCAACATTGGA
1 TGATTGCAAGCACATATCATGATAAGGAAACCAACATTGGA
108271721 CTGTTAAAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (43 bp):
TGATTGCAAGCACATATCATGATAAGGAAACCAACATTGGATG
Found at i:108281068 original size:12 final size:12
Alignment explanation
Indices: 108281051--108281075 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
108281041 TTGTGTGTTC
108281051 TTTATTTTATTT
1 TTTATTTTATTT
108281063 TTTATTTTATTT
1 TTTATTTTATTT
108281075 T
1 T
108281076 ATTTTTCATA
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):
TTTATTTTATTT
Found at i:108289428 original size:152 final size:159
Alignment explanation
Indices: 108289127--108289441 Score: 403
Period size: 152 Copynumber: 2.0 Consensus size: 159
108289117 CTAAAAATTG
* * *
108289127 TATATAATGAAAATTTTGTATTATTTTATATTTATAAAATTATTAAAAACATGTTAAAGTATAAT
1 TATATAATGAAAATTTTGGATTATTTGATATTTATAAAATTACTAAAAACATGTTAAAGTATAAT
** *
108289192 TTCAATAATAAAACAACAATATGTATAGTATTTTTAAATTTATTTTTATTGCATATGCAATCACT
66 TTCAATAAT-AAACAACAATATGTATAGTATTAATAAATTTATTTTTATCGCATATGCAATCACT
108289257 TATTGTTTATATAAATAATGATGTAATTAT
130 TATTGTTTATATAAATAATGATGTAATTAT
** *
108289287 TATATAAAT-AAAATTTTGGATTATTTGATATTTATAACGTTACT-AAAATATGTT-AAGTATAA
1 TATAT-AATGAAAATTTTGGATTATTTGATATTTATAAAATTACTAAAAACATGTTAAAGTATAA
* * * * * *
108289349 TTTCAGTAAT-AA-AATAATA-GTAT-GTA-TAATAATTTTATTTTTATCGTATATGTAATCATT
65 TTTCAATAATAAACAACAATATGTATAGTATTAATAAATTTATTTTTATCGCATATGCAATCACT
* *
108289409 TATTGTTTATATAAGTAATGCTGTAATTAT
130 TATTGTTTATATAAATAATGATGTAATTAT
108289439 TAT
1 TAT
108289442 TTATTTTTTT
Statistics
Matches: 137, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
152 58 0.42
153 3 0.02
154 4 0.03
155 6 0.04
156 2 0.01
158 17 0.12
159 9 0.07
160 35 0.26
161 3 0.02
ACGTcount: A:0.41, C:0.04, G:0.08, T:0.46
Consensus pattern (159 bp):
TATATAATGAAAATTTTGGATTATTTGATATTTATAAAATTACTAAAAACATGTTAAAGTATAAT
TTCAATAATAAACAACAATATGTATAGTATTAATAAATTTATTTTTATCGCATATGCAATCACTT
ATTGTTTATATAAATAATGATGTAATTAT
Found at i:108289998 original size:21 final size:20
Alignment explanation
Indices: 108289947--108289998 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
108289937 AAATCCAAAT
*
108289947 TAAAATACTAAAATTCAGGA
1 TAAAATACTGAAATTCAGGA
*
108289967 TAAAATCCTGAAATTCAGGA
1 TAAAATACTGAAATTCAGGA
108289987 TAAAAATACTGA
1 T-AAAATACTGA
108289999 TGTGGCATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 19 0.68
21 9 0.32
ACGTcount: A:0.52, C:0.12, G:0.12, T:0.25
Consensus pattern (20 bp):
TAAAATACTGAAATTCAGGA
Found at i:108296275 original size:33 final size:33
Alignment explanation
Indices: 108296233--108296300 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
108296223 GTGTGCTCAA
108296233 AGATAGTTTTCATTTACCCTTAATTGATAGATT
1 AGATAGTTTTCATTTACCCTTAATTGATAGATT
108296266 AGATAGTTTTCATTTACCCTTAATTGATAGATT
1 AGATAGTTTTCATTTACCCTTAATTGATAGATT
108296299 AG
1 AG
108296301 TGGATGCTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.31, C:0.12, G:0.13, T:0.44
Consensus pattern (33 bp):
AGATAGTTTTCATTTACCCTTAATTGATAGATT
Found at i:108302058 original size:134 final size:134
Alignment explanation
Indices: 108301826--108302411 Score: 651
Period size: 134 Copynumber: 4.4 Consensus size: 134
108301816 AACAATTTGT
* * ** * *
108301826 TGATTTGTGATCATGACTGATATTATTAAGGCTCACTGATTTATGATTACAACCTAAGTTTATTG
1 TGATTTATGATCACGACTGATATTATTAAGGCTCGTTGATTTATGATCACAACCTAAGTTCATTG
* * *
108301891 ATTTACGATCATAAACAA-TTCCATT-TGAGTTAGTTGATTTACAATCACAACTCCATTCAAACA
66 ATTTATGATCATGAACAAGTT-C-TTCTGAATTAGTTGATTTACAATCACAACTCCATTCAAACA
108301954 GTTCGC
129 GTTCGC
* * *
108301960 TGATTTATGATCACAACTAATATTGTTAAGGCTCGTTGATTTATGATCACAACCTAAGTTCATTG
1 TGATTTATGATCACGACTGATATTATTAAGGCTCGTTGATTTATGATCACAACCTAAGTTCATTG
* * * * *
108302025 ATTTATAATCATGAACAAGTTCTTTTGAATTAGTTGATTTACGATCGCAACTCCATTCAAATAGT
66 ATTTATGATCATGAACAAGTTCTTCTGAATTAGTTGATTTACAATCACAACTCCATTCAAACAGT
* *
108302090 TTGT
131 TCGC
* * * * * * *
108302094 TGATTTACGATCACGGCTGATATTGTTAAGGCTCGCTAATTAAAGATCACAACCTAAGTTCATTG
1 TGATTTATGATCACGACTGATATTATTAAGGCTCGTTGATTTATGATCACAACCTAAGTTCATTG
* ** ** *
108302159 ATTT-TCGATCATGAATAAGTTCTTCT-AAGTTAGTTGATTTATGATCACAACTTTATTTAAACA
66 ATTTAT-GATCATGAACAAGTTCTTCTGAA-TTAGTTGATTTACAATCACAACTCCATTCAAACA
108302222 GTTCGC
129 GTTCGC
* * * * * *
108302228 TAATTTACGATCACGACTAATATTATTAAGGCTTGTTGATTTATGATCAAAACCTAAGTTCATTA
1 TGATTTATGATCACGACTGATATTATTAAGGCTCGTTGATTTATGATCACAACCTAAGTTCATTG
* * ** *
108302293 ATTTATGATCATGAACAAGTTCTTCTGAGTAAGCTT-ATTTACAATTGCAACTCCATTCAAATAG
66 ATTTATGATCATGAACAAGTTCTTCTGAATTAG-TTGATTTACAATCACAACTCCATTCAAACAG
*
108302357 TTCAC
130 TTCGC
* ** * *
108302362 TAATTTATGATCACGACTGATGCTATTAAGGCTCATTGATTTACGATCAC
1 TGATTTATGATCACGACTGATATTATTAAGGCTCGTTGATTTATGATCAC
108302412 GACTAATATT
Statistics
Matches: 377, Mismatches: 68, Indels: 14
0.82 0.15 0.03
Matches are distributed among these distances:
133 5 0.01
134 366 0.97
135 6 0.02
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (134 bp):
TGATTTATGATCACGACTGATATTATTAAGGCTCGTTGATTTATGATCACAACCTAAGTTCATTG
ATTTATGATCATGAACAAGTTCTTCTGAATTAGTTGATTTACAATCACAACTCCATTCAAACAGT
TCGC
Found at i:108302306 original size:268 final size:268
Alignment explanation
Indices: 108301821--108302396 Score: 744
Period size: 268 Copynumber: 2.1 Consensus size: 268
108301811 TATTAAACAA
** * * * * *
108301821 TTTGTTGATTTGTGATCATGACTGATATTATTAAGGCTCACTGATTTATGATTACAACCTAAGTT
1 TTTGTTGATTTACGATCACGACTGATATTATTAAGGCTCACTAATTAAAGATCACAACCTAAGTT
* *
108301886 TATTGATTTACGATCATAAACAATTCCATTTGAGTTAGTTGATTTACAATCACAACTCCATTCAA
66 CATTGATTTACGATCATAAACAATTCCATTTAAGTTAGTTGATTTACAATCACAACTCCATTCAA
* * * *
108301951 ACAGTTCGCTGATTTATGATCACAACTAATATTGTTAAGGCTCGTTGATTTATGATCACAACCTA
131 ACAGTTCGCTAATTTACGATCACAACTAATATTATTAAGGCTCGTTGATTTATGATCAAAACCTA
* * * *
108302016 AGTTCATTGATTTATAATCATGAACAAGTTCTTTTGAATTAG-TTGATTTACGATCGCAACTCCA
196 AGTTCATTAATTTATAATCATGAACAAGTTCTTCTGAATAAGCTT-ATTTACAATCGCAACTCCA
108302080 TTCAAATAG
260 TTCAAATAG
* * *
108302089 TTTGTTGATTTACGATCACGGCTGATATTGTTAAGGCTCGCTAATTAAAGATCACAACCTAAGTT
1 TTTGTTGATTTACGATCACGACTGATATTATTAAGGCTCACTAATTAAAGATCACAACCTAAGTT
* * * ** ** *
108302154 CATTGATTTTCGATCATGAATAAGTT-C-TTCTAAGTTAGTTGATTTATGATCACAACTTTATTT
66 CATTGATTTACGATCATAAACAA-TTCCATT-TAAGTTAGTTGATTTACAATCACAACTCCATTC
* *
108302217 AAACAGTTCGCTAATTTACGATCACGACTAATATTATTAAGGCTTGTTGATTTATGATCAAAACC
129 AAACAGTTCGCTAATTTACGATCACAACTAATATTATTAAGGCTCGTTGATTTATGATCAAAACC
* * *
108302282 TAAGTTCATTAATTTATGATCATGAACAAGTTCTTCTGAGTAAGCTTATTTACAATTGCAACTCC
194 TAAGTTCATTAATTTATAATCATGAACAAGTTCTTCTGAATAAGCTTATTTACAATCGCAACTCC
108302347 ATTCAAATAG
259 ATTCAAATAG
*** * * **
108302357 TTCACTAATTTATGATCACGACTGATGCTATTAAGGCTCA
1 TTTGTTGATTTACGATCACGACTGATATTATTAAGGCTCA
108302397 TTGATTTACG
Statistics
Matches: 262, Mismatches: 43, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
267 2 0.01
268 256 0.98
269 4 0.02
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (268 bp):
TTTGTTGATTTACGATCACGACTGATATTATTAAGGCTCACTAATTAAAGATCACAACCTAAGTT
CATTGATTTACGATCATAAACAATTCCATTTAAGTTAGTTGATTTACAATCACAACTCCATTCAA
ACAGTTCGCTAATTTACGATCACAACTAATATTATTAAGGCTCGTTGATTTATGATCAAAACCTA
AGTTCATTAATTTATAATCATGAACAAGTTCTTCTGAATAAGCTTATTTACAATCGCAACTCCAT
TCAAATAG
Found at i:108302411 original size:36 final size:36
Alignment explanation
Indices: 108302364--108302447 Score: 98
Period size: 36 Copynumber: 2.3 Consensus size: 36
108302354 TAGTTCACTA
* * * *
108302364 ATTTATGATCACGACTGATGCTATTAAGGCTCA-TTG
1 ATTTACGATCACGACTAATACTATTAAGG-TCAGTGG
* *
108302400 ATTTACGATCACGACTAATATTATTAAGGTTAGTGG
1 ATTTACGATCACGACTAATACTATTAAGGTCAGTGG
108302436 ATTTACGATCAC
1 ATTTACGATCAC
108302448 AACCTAAGTT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
35 2 0.05
36 39 0.95
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (36 bp):
ATTTACGATCACGACTAATACTATTAAGGTCAGTGG
Found at i:108308798 original size:18 final size:18
Alignment explanation
Indices: 108308775--108308857 Score: 70
Period size: 18 Copynumber: 4.8 Consensus size: 18
108308765 CCCTGGCCTG
108308775 TTGATTATATAATTTAAA
1 TTGATTATATAATTTAAA
*
108308793 TTGATTATATAATTAAAAA
1 TTGATTATATAATT-TAAA
108308812 TT-ATTATCAT--TTT--A
1 TTGATTAT-ATAATTTAAA
* *
108308826 TCT-AATAAATAATTTAAA
1 T-TGATTATATAATTTAAA
108308844 TTGATTATATAATT
1 TTGATTATATAATT
108308858 CATTAAAATA
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
14 4 0.08
15 4 0.08
16 3 0.06
17 3 0.06
18 30 0.59
19 7 0.14
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (18 bp):
TTGATTATATAATTTAAA
Found at i:108309104 original size:21 final size:21
Alignment explanation
Indices: 108309078--108309130 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
108309068 CGCTGTTTCT
*
108309078 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
108309099 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
108309120 AATCTCACCGC
1 AATCTCACCGC
108309131 CACCGCTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.38, G:0.09, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:108309983 original size:30 final size:30
Alignment explanation
Indices: 108309947--108310008 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
108309937 ACTTAACAAG
108309947 AAATGTCTCTAAAATAATAACAAAATTAAC
1 AAATGTCTCTAAAATAATAACAAAATTAAC
*
108309977 AAATGTCTTTAAAATAATAACAAAATTAAC
1 AAATGTCTCTAAAATAATAACAAAATTAAC
108310007 AA
1 AA
108310009 TAAAGTAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.58, C:0.11, G:0.03, T:0.27
Consensus pattern (30 bp):
AAATGTCTCTAAAATAATAACAAAATTAAC
Found at i:108310063 original size:22 final size:22
Alignment explanation
Indices: 108310038--108310080 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
108310028 TATCAAAACA
108310038 ATAACAATAAAAT-AGTAGCAAC
1 ATAACAATAAAATGA-TAGCAAC
* *
108310060 ATAATAGTAAAATGATAGCAA
1 ATAACAATAAAATGATAGCAA
108310081 AATAGAGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.58, C:0.09, G:0.12, T:0.21
Consensus pattern (22 bp):
ATAACAATAAAATGATAGCAAC
Found at i:108310931 original size:43 final size:44
Alignment explanation
Indices: 108310834--108310931 Score: 108
Period size: 43 Copynumber: 2.2 Consensus size: 44
108310824 CAAGCATGTT
* * *
108310834 GTGGCGTTTGTAGCTAGAATCGCCGCAAAAGACCATGTTCTTTA
1 GTGGCGTTTGTAGCTAAAATCGCCACAAAAGACCATGTTCTATA
* * * * *
108310878 GCGGTGTTTGTAG-TAAAATTGCCACTAAAGATCATGTTCTATA
1 GTGGCGTTTGTAGCTAAAATCGCCACAAAAGACCATGTTCTATA
*
108310921 GTGGCATTTGT
1 GTGGCGTTTGT
108310932 GGGAATATGC
Statistics
Matches: 43, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
43 32 0.74
44 11 0.26
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (44 bp):
GTGGCGTTTGTAGCTAAAATCGCCACAAAAGACCATGTTCTATA
Found at i:108314237 original size:32 final size:32
Alignment explanation
Indices: 108314171--108314237 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
108314161 CGTTTTTAAG
* * * *
108314171 ATCAAGTTTCAACAATCCTTTAAGCAAATTGC
1 ATCAAGTCTCAACAACCCTTAAAGCAAATCGC
108314203 ATCAAGTCTCAACAACCCTTAAAG-AAGATCGC
1 ATCAAGTCTCAACAACCCTTAAAGCAA-ATCGC
108314235 ATC
1 ATC
108314238 TATTAAAGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 2 0.07
32 28 0.93
ACGTcount: A:0.39, C:0.25, G:0.10, T:0.25
Consensus pattern (32 bp):
ATCAAGTCTCAACAACCCTTAAAGCAAATCGC
Found at i:108315123 original size:170 final size:170
Alignment explanation
Indices: 108314841--108315175 Score: 591
Period size: 170 Copynumber: 2.0 Consensus size: 170
108314831 TTCCATGGCA
* *
108314841 GGGGATGAGATCATTACACAATTGCAAAAGGATGTAAGTGTTTTGCAACAAGAGATGATTAAGAT
1 GGGGATGAGATCATTACACAATTGCAAAAGAATGTAAGTGTTTTGCAACAAGAGATAATTAAGAT
108314906 TAAGGGGAACTATCTCATTAGGATACTAGGCATACAATGGCTTCTCTCCCTATGTTCTATCATCT
66 TAAGGGGAACTATCTCATTAGGATACTAGGCATACAATGGCTTCTCTCCCTATGTTCTATCAT-T
108314971 T-GAATTTTGATTCCATGACCATGCATTTCTCTTCCATAGG
130 TAGAATTTTGATTCCATGACCATGCATTTCTCTTCCATAGG
*
108315011 GGGGATGAGATCATTACACAATTGCAAAAGAATGTAAGTGTTTTGCAACAAGGGATAATTAAGAT
1 GGGGATGAGATCATTACACAATTGCAAAAGAATGTAAGTGTTTTGCAACAAGAGATAATTAAGAT
* *
108315076 TAAGGGGAACTATCTCATTGGGATACTGGGCATACAATGGCTTCTCTCCCTATGTTCTATCATTT
66 TAAGGGGAACTATCTCATTAGGATACTAGGCATACAATGGCTTCTCTCCCTATGTTCTATCATTT
* *
108315141 AGAATTTTGGTTTCATGACCATGCATTTCTCTTCC
131 AGAATTTTGATTCCATGACCATGCATTTCTCTTCC
108315176 CAAAGAAGTC
Statistics
Matches: 157, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
169 2 0.01
170 155 0.99
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (170 bp):
GGGGATGAGATCATTACACAATTGCAAAAGAATGTAAGTGTTTTGCAACAAGAGATAATTAAGAT
TAAGGGGAACTATCTCATTAGGATACTAGGCATACAATGGCTTCTCTCCCTATGTTCTATCATTT
AGAATTTTGATTCCATGACCATGCATTTCTCTTCCATAGG
Found at i:108320449 original size:32 final size:29
Alignment explanation
Indices: 108320366--108320430 Score: 105
Period size: 29 Copynumber: 2.2 Consensus size: 29
108320356 TGTGGTGGTT
*
108320366 GGAGGGGTGGA-GAGAGAAGGTTGGTTGTC
1 GGAGGAGTGGAGGAG-GAAGGTTGGTTGTC
108320395 GGAGGAGTGGAGGAGGAAGGTTGGTTGTC
1 GGAGGAGTGGAGGAGGAAGGTTGGTTGTC
108320424 GGAGGAG
1 GGAGGAG
108320431 GAGTGTGTAC
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
29 31 0.91
30 3 0.09
ACGTcount: A:0.22, C:0.03, G:0.57, T:0.18
Consensus pattern (29 bp):
GGAGGAGTGGAGGAGGAAGGTTGGTTGTC
Found at i:108325269 original size:23 final size:23
Alignment explanation
Indices: 108325239--108325286 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
108325229 ATACTTCACA
108325239 TAGTTGAGCTCAACATTAACAAC
1 TAGTTGAGCTCAACATTAACAAC
108325262 TAGTTGAGCTCAACATTAACAAC
1 TAGTTGAGCTCAACATTAACAAC
108325285 TA
1 TA
108325287 CTCAATCTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.27
Consensus pattern (23 bp):
TAGTTGAGCTCAACATTAACAAC
Found at i:108325534 original size:40 final size:39
Alignment explanation
Indices: 108325409--108325545 Score: 130
Period size: 35 Copynumber: 3.7 Consensus size: 39
108325399 GGTTTTCCTC
* * *
108325409 ATTGA-AATACCGTACCTACATTTTACAACTCGGTATGG
1 ATTGATAATACCATACCTACATTTCACAACTCAGTATGG
** * **
108325447 ---GA-AATGTCATACCTACGTTTCTTAACTCAGTATGG
1 ATTGATAATACCATACCTACATTTCACAACTCAGTATGG
108325482 ATTTGATAATACCATACCTACATTTCACAACTCAGTATGG
1 A-TTGATAATACCATACCTACATTTCACAACTCAGTATGG
108325522 A-TG---ATACCATACCTACATTTCACA
1 ATTGATAATACCATACCTACATTTCACA
108325546 CTTTTCCATG
Statistics
Matches: 81, Mismatches: 13, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
35 48 0.59
38 2 0.02
39 2 0.02
40 29 0.36
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.32
Consensus pattern (39 bp):
ATTGATAATACCATACCTACATTTCACAACTCAGTATGG
Found at i:108328536 original size:17 final size:16
Alignment explanation
Indices: 108328511--108328544 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
108328501 AAATTTAGGG
108328511 GGAAAATAAAAAGTTTT
1 GGAAAAT-AAAAGTTTT
*
108328528 GGAAGATAAAAGTTTT
1 GGAAAATAAAAGTTTT
108328544 G
1 G
108328545 AGGGAAAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.47, C:0.00, G:0.24, T:0.29
Consensus pattern (16 bp):
GGAAAATAAAAGTTTT
Found at i:108328920 original size:9 final size:9
Alignment explanation
Indices: 108328906--108328942 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
108328896 TATAGTTTGA
108328906 TATTCGAAT
1 TATTCGAAT
108328915 TATTCGAAT
1 TATTCGAAT
*
108328924 TATTCGAGT
1 TATTCGAAT
108328933 TATTCGAAT
1 TATTCGAAT
108328942 T
1 T
108328943 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:108334223 original size:40 final size:39
Alignment explanation
Indices: 108334098--108334234 Score: 130
Period size: 35 Copynumber: 3.7 Consensus size: 39
108334088 GGTTTTCCTC
* * *
108334098 ATTGA-AATACCGTACCTACATTTTACAACTCGGTATGG
1 ATTGATAATACCATACCTACATTTCACAACTCAGTATGG
** * **
108334136 ---GA-AATGTCATACCTACGTTTCTTAACTCAGTATGG
1 ATTGATAATACCATACCTACATTTCACAACTCAGTATGG
108334171 ATTTGATAATACCATACCTACATTTCACAACTCAGTATGG
1 A-TTGATAATACCATACCTACATTTCACAACTCAGTATGG
108334211 A-TG---ATACCATACCTACATTTCACA
1 ATTGATAATACCATACCTACATTTCACA
108334235 CTTTGCCATG
Statistics
Matches: 81, Mismatches: 13, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
35 48 0.59
38 2 0.02
39 2 0.02
40 29 0.36
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.32
Consensus pattern (39 bp):
ATTGATAATACCATACCTACATTTCACAACTCAGTATGG
Found at i:108339280 original size:22 final size:22
Alignment explanation
Indices: 108339255--108339302 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
108339245 CCTGCCTCCA
108339255 ACTCTGTGTGTCCCCTCTAATC
1 ACTCTGTGTGTCCCCTCTAATC
*
108339277 ACTCAGTGTGTCCCCTCTAATC
1 ACTCTGTGTGTCCCCTCTAATC
108339299 -CTCT
1 ACTCT
108339303 TCTGGGGTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 3 0.12
22 21 0.88
ACGTcount: A:0.15, C:0.38, G:0.12, T:0.35
Consensus pattern (22 bp):
ACTCTGTGTGTCCCCTCTAATC
Found at i:108339503 original size:30 final size:30
Alignment explanation
Indices: 108339469--108339556 Score: 124
Period size: 30 Copynumber: 2.9 Consensus size: 30
108339459 CATGGTTATG
* *
108339469 ACACACGGGGGTGTAGTCTACTCGTGTGTC
1 ACACACGGGCGTGTAGTCTACCCGTGTGTC
108339499 ACACACGGGCGTGTAGTCTACCCGTGTGTC
1 ACACACGGGCGTGTAGTCTACCCGTGTGTC
* *
108339529 ACACAAGGGCGTGTGGAT-TACCCGTGTG
1 ACACACGGGCGTGTAG-TCTACCCGTGTG
108339557 GAAGTGCCTA
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
30 52 0.98
31 1 0.02
ACGTcount: A:0.18, C:0.25, G:0.33, T:0.24
Consensus pattern (30 bp):
ACACACGGGCGTGTAGTCTACCCGTGTGTC
Found at i:108342504 original size:28 final size:28
Alignment explanation
Indices: 108342473--108342549 Score: 118
Period size: 28 Copynumber: 2.8 Consensus size: 28
108342463 CATCAAATAC
*
108342473 GGCATTTAGTGTGCGAAATATTGAGAAT
1 GGCACTTAGTGTGCGAAATATTGAGAAT
* * *
108342501 GGCACTTAGTGTACGAGATATTGATAAT
1 GGCACTTAGTGTGCGAAATATTGAGAAT
108342529 GGCACTTAGTGTGCGAAATAT
1 GGCACTTAGTGTGCGAAATAT
108342550 CAAATGATTC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.31, C:0.10, G:0.27, T:0.31
Consensus pattern (28 bp):
GGCACTTAGTGTGCGAAATATTGAGAAT
Found at i:108349834 original size:23 final size:23
Alignment explanation
Indices: 108349777--108349835 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
108349767 ATGTTGCTTG
* *
108349777 TGTGGCGTAATATGCTAAGCCTT
1 TGTGGCGTATTCTGCTAAGCCTT
* *
108349800 TGTGGTGCATTCTG-TATAGCCTT
1 TGTGGCGTATTCTGCTA-AGCCTT
108349823 TGTGGCGTATTCT
1 TGTGGCGTATTCT
108349836 ATATGGTTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
22 2 0.07
23 27 0.93
ACGTcount: A:0.15, C:0.17, G:0.27, T:0.41
Consensus pattern (23 bp):
TGTGGCGTATTCTGCTAAGCCTT
Found at i:108353251 original size:14 final size:14
Alignment explanation
Indices: 108353232--108353263 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
108353222 AAAGCGTATG
*
108353232 AGTCACACATATAT
1 AGTCACACATACAT
108353246 AGTCACACATACAT
1 AGTCACACATACAT
108353260 AGTC
1 AGTC
108353264 TGTCATCCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.41, C:0.25, G:0.09, T:0.25
Consensus pattern (14 bp):
AGTCACACATACAT
Found at i:108367083 original size:17 final size:16
Alignment explanation
Indices: 108367043--108367085 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
108367033 AACATACTTT
*
108367043 AAAAATGTTAAATTAA
1 AAAAATATTAAATTAA
**
108367059 TTAAATATTAAATTACA
1 AAAAATATTAAATTA-A
108367076 AAAAATATTA
1 AAAAATATTA
108367086 GTAATTTTTT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (16 bp):
AAAAATATTAAATTAA
Found at i:108372350 original size:38 final size:38
Alignment explanation
Indices: 108372307--108372607 Score: 224
Period size: 38 Copynumber: 7.2 Consensus size: 38
108372297 TTTCAAATTA
108372307 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
* * **
108372345 ACATGTTTAACCGTGGTATATCCACTTAGCACCATATTAAT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCA-CGT--T
* * *
108372386 GAATCAATATATGTAACCGTGGCATATCCATTTAGCATCACGTT
1 --A-C-ATGTA--TAACCGTGGCATATCCACTTAGCACCACGTT
* *
108372430 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTTAAT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACG-T--T
*
108372471 GAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGCATATCCACTTAGCACCACGTT
* *
108372515 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTTAAT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACG-T--T
* * *
108372556 GAATCAATATATGTAACTGTGGCATATCCATTTAGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGCATATCCACTTAGCACCACGTT
108372600 ACATGTAT
1 ACATGTAT
108372608 CAATATTTGT
Statistics
Matches: 208, Mismatches: 28, Indels: 54
0.72 0.10 0.19
Matches are distributed among these distances:
38 87 0.42
39 3 0.01
40 10 0.05
41 6 0.03
42 3 0.01
43 3 0.01
44 6 0.03
45 9 0.04
46 3 0.01
47 78 0.38
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (38 bp):
ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
Found at i:108372406 original size:47 final size:47
Alignment explanation
Indices: 108372352--108372647 Score: 322
Period size: 47 Copynumber: 6.7 Consensus size: 47
108372342 GTTACATGTT
**
108372352 TAACCGTGGTATATCCACTTAGCACCATATTAATGAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
* * * *
108372399 TAACCGTGGCATATCCATTTAGCATCACG-T--T--A-C-ATGT-T-
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
108372437 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
* *
108372484 TAACCGTGGCATATCCACTTAGCACCACG-T--T--A-C-ATGT-T-
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
108372522 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
* * * * *
108372569 TAACTGTGGCATATCCATTTAGCACCACGTTACATGTATCAATATTTG
1 TAACCGTGGTATATCCACTTAGCACCACGTTA-ATGAATCAATATATG
* *
108372617 TAATCGTCGTATATCCACTTAGCACCACGTT
1 TAACCGTGGTATATCCACTTAGCACCACGTT
108372648 TTTTTCATTC
Statistics
Matches: 206, Mismatches: 24, Indels: 37
0.77 0.09 0.14
Matches are distributed among these distances:
38 54 0.26
39 4 0.02
40 6 0.03
41 4 0.02
42 2 0.01
43 2 0.01
44 4 0.02
45 6 0.03
46 4 0.02
47 81 0.39
48 39 0.19
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.32
Consensus pattern (47 bp):
TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
Found at i:108372406 original size:85 final size:85
Alignment explanation
Indices: 108372314--108372605 Score: 530
Period size: 85 Copynumber: 3.4 Consensus size: 85
108372304 TTAACATGTA
108372314 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
**
108372379 TATTAATGAATCAATATATG
66 CGTTAATGAATCAATATATG
* *
108372399 TAACCGTGGCATATCCATTTAGCATCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
108372464 CGTTAATGAATCAATATATG
66 CGTTAATGAATCAATATATG
108372484 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
108372549 CGTTAATGAATCAATATATG
66 CGTTAATGAATCAATATATG
* *
108372569 TAACTGTGGCATATCCATTTAGCACCACGTTACATGT
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGT
108372606 ATCAATATTT
Statistics
Matches: 199, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 199 1.00
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (85 bp):
TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
CGTTAATGAATCAATATATG
Found at i:108372631 original size:48 final size:47
Alignment explanation
Indices: 108372530--108372647 Score: 166
Period size: 48 Copynumber: 2.5 Consensus size: 47
108372520 TTTAACCGTG
*
108372530 GTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACTGTG
1 GTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACTGTC
* * * *
108372577 GCATATCCATTTAGCACCACGTTACATGTATCAATATTTGTAA-TCGTC
1 GTATATCCACTTAGCACCACGTTA-ATGAATCAATATATGTAACT-GTC
108372625 GTATATCCACTTAGCACCACGTT
1 GTATATCCACTTAGCACCACGTT
108372648 TTTTTCATTC
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
47 23 0.37
48 39 0.63
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.33
Consensus pattern (47 bp):
GTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACTGTC
Found at i:108375379 original size:15 final size:15
Alignment explanation
Indices: 108375356--108375397 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
108375346 AAAGCCCAGA
108375356 ATAAGGAAATCCAAG
1 ATAAGGAAATCCAAG
* *
108375371 ATAAAGAAATCCATG
1 ATAAGGAAATCCAAG
108375386 ATAAGGAAATCC
1 ATAAGGAAATCC
108375398 CATCTACAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.52, C:0.14, G:0.17, T:0.17
Consensus pattern (15 bp):
ATAAGGAAATCCAAG
Found at i:108376386 original size:21 final size:21
Alignment explanation
Indices: 108376360--108376399 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
108376350 AGTGTACTTA
108376360 TACATGTATTTCCATGTTTCC
1 TACATGTATTTCCATGTTTCC
108376381 TACATGTATTTCCATGTTT
1 TACATGTATTTCCATGTTT
108376400 TCTAGATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.20, C:0.20, G:0.10, T:0.50
Consensus pattern (21 bp):
TACATGTATTTCCATGTTTCC
Found at i:108378706 original size:38 final size:38
Alignment explanation
Indices: 108378663--108378916 Score: 265
Period size: 38 Copynumber: 6.2 Consensus size: 38
108378653 TTTCAAATTA
108378663 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
* *
108378701 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTTAAT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACG-T--T
*
108378742 GAATCAATATATATAGCCGTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTATA-A-CCGTGGCATATCCACTTAGCACCACGTT
* * *
108378786 ACATGTTTAACTGTGGCATATCCACTTAGAACCACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
* *
108378824 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTTAAT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACG-T--T
*
108378865 GAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGCATATCCACTTAGCACCACGTT
108378909 ACATGTAT
1 ACATGTAT
108378917 CAATATTTGT
Statistics
Matches: 182, Mismatches: 16, Indels: 36
0.78 0.07 0.15
Matches are distributed among these distances:
38 94 0.52
39 3 0.02
40 9 0.05
41 4 0.02
42 2 0.01
43 2 0.01
44 4 0.02
45 8 0.04
46 3 0.02
47 53 0.29
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (38 bp):
ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
Found at i:108378774 original size:85 final size:85
Alignment explanation
Indices: 108378668--108378824 Score: 278
Period size: 85 Copynumber: 1.8 Consensus size: 85
108378658 AATTAACATG
* *
108378668 TATAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCAC
1 TATAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGCATATCCACTTAGAAC
108378733 CACGTTAATGAATCAATATA
66 CACGTTAATGAATCAATATA
* *
108378753 TATAGCCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACTGTGGCATATCCACTTAGAAC
1 TATAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGCATATCCACTTAGAAC
108378818 CACGTTA
66 CACGTTA
108378825 CATGTTTAAC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
85 68 1.00
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.29
Consensus pattern (85 bp):
TATAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGCATATCCACTTAGAAC
CACGTTAATGAATCAATATA
Found at i:108378885 original size:123 final size:123
Alignment explanation
Indices: 108378663--108378916 Score: 463
Period size: 123 Copynumber: 2.1 Consensus size: 123
108378653 TTTCAAATTA
*
108378663 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTT
1 ACATGTATAACCGTGGCATATCCACTTAGAACCACGTTACATGTTTAACCGTGGTATATCCACTT
*
108378728 AGCACCACGTTAATGAATCAATATATATAGCCGTGGCATATCCACTTAGCACCACGTT
66 AGCACCACGTTAATGAATCAATATATATAACCGTGGCATATCCACTTAGCACCACGTT
* *
108378786 ACATGTTTAACTGTGGCATATCCACTTAGAACCACGTTACATGTTTAACCGTGGTATATCCACTT
1 ACATGTATAACCGTGGCATATCCACTTAGAACCACGTTACATGTTTAACCGTGGTATATCCACTT
*
108378851 AGCACCACGTTAATGAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTT
66 AGCACCACGTTAATGAATCAATATATATAACCGTGGCATATCCACTTAGCACCACGTT
108378909 ACATGTAT
1 ACATGTAT
108378917 CAATATTTGT
Statistics
Matches: 125, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
123 125 1.00
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (123 bp):
ACATGTATAACCGTGGCATATCCACTTAGAACCACGTTACATGTTTAACCGTGGTATATCCACTT
AGCACCACGTTAATGAATCAATATATATAACCGTGGCATATCCACTTAGCACCACGTT
Found at i:108378900 original size:47 final size:48
Alignment explanation
Indices: 108378831--108378953 Score: 185
Period size: 48 Copynumber: 2.6 Consensus size: 48
108378821 GTTACATGTT
108378831 TAACCGTGGTATATCCACTTAGCACCACGTTA-ATGAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAATATATG
* * *
108378878 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAATATTTG
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAATATATG
** *
108378926 TAATAGTGGTATACCCACTTAGCACCAC
1 TAACCGTGGTATATCCACTTAGCACCAC
108378954 TTTAGCCTTG
Statistics
Matches: 68, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
47 31 0.46
48 37 0.54
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (48 bp):
TAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAATATATG
Found at i:108379410 original size:29 final size:29
Alignment explanation
Indices: 108379377--108379432 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
108379367 AAAAAAAAAT
* * *
108379377 AAAAAAATAATGAAAAAACAAGAAATCGA
1 AAAAAAAGAAGGAAAAAAAAAGAAATCGA
*
108379406 AAAAAGAGAAGGAAAAAAAAAGAAATC
1 AAAAAAAGAAGGAAAAAAAAAGAAATC
108379433 AAATCAACCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.73, C:0.05, G:0.14, T:0.07
Consensus pattern (29 bp):
AAAAAAAGAAGGAAAAAAAAAGAAATCGA
Found at i:108379588 original size:25 final size:24
Alignment explanation
Indices: 108379557--108379607 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
108379547 CTATTTTCTG
* *
108379557 TTTGTTTCTTCCTTTTTTTTTGCTT
1 TTTGTTTCCTCCTTCTTTTTTG-TT
*
108379582 TTTGTTTCCTGCTTCTTTTTTGTT
1 TTTGTTTCCTCCTTCTTTTTTGTT
108379606 TT
1 TT
108379608 GTCCTTCTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.00, C:0.16, G:0.10, T:0.75
Consensus pattern (24 bp):
TTTGTTTCCTCCTTCTTTTTTGTT
Found at i:108380525 original size:134 final size:134
Alignment explanation
Indices: 108380332--108380722 Score: 631
Period size: 134 Copynumber: 2.9 Consensus size: 134
108380322 TTCAGTCTAT
* * *
108380332 TCCACTGCAACTTCAGAGAGACAAGATCTGTAATTTTCAGCCTATTACCCTACTACTTAGGGGGT
1 TCCACTGCAACTTCAGGGAGGCAAGATCTGTAATTTTCAGCCTATTACCCTACTGCTTAGGGGGT
*
108380397 TAAGGCTTGGTGGCTTGAATCTGCTTCACTGCAACTTCAGGAAGGCGAGATTCGTCGTCTTTGAT
66 TAAGGCTTGGTGGCTTGAATCTGCTTCACTGCAACTTCAGGAAGGCAAGATTCGTCGTCTTTGAT
108380462 CTGC
131 CTGC
* * *
108380466 TCCACTGCAATTTCAGGGAGGCAAGATTTGTAATTTTCAGCCTATTACACTACTGCTTAGGGGGT
1 TCCACTGCAACTTCAGGGAGGCAAGATCTGTAATTTTCAGCCTATTACCCTACTGCTTAGGGGGT
* *
108380531 TAAGGCTTGGTGGTTTGAATCTGCTTCACTGCAACTTTAGGAAGGCAAGATTCGTCGTCTTTGAT
66 TAAGGCTTGGTGGCTTGAATCTGCTTCACTGCAACTTCAGGAAGGCAAGATTCGTCGTCTTTGAT
108380596 CTGC
131 CTGC
* **
108380600 TCCACTGCAACTTCAGGAAGGCAAGATCCATAA-TTTCAGCCTATTACCCTACTGCTTAGGGGGT
1 TCCACTGCAACTTCAGGGAGGCAAGATCTGTAATTTTCAGCCTATTACCCTACTGCTTAGGGGGT
* * * *
108380664 TAAGGCTTAGTAGCTTAAATCTGCTTCACTGCAACTTCAAGAAGGCAAGATTCGTCGTC
66 TAAGGCTTGGTGGCTTGAATCTGCTTCACTGCAACTTCAGGAAGGCAAGATTCGTCGTC
108380723 GTGATTTCAG
Statistics
Matches: 236, Mismatches: 21, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
133 83 0.35
134 153 0.65
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (134 bp):
TCCACTGCAACTTCAGGGAGGCAAGATCTGTAATTTTCAGCCTATTACCCTACTGCTTAGGGGGT
TAAGGCTTGGTGGCTTGAATCTGCTTCACTGCAACTTCAGGAAGGCAAGATTCGTCGTCTTTGAT
CTGC
Done.