Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01023032.1 Corchorus olitorius cultivar O-4 contig23065, 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: 122892
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Found at i:4991 original size:24 final size:24
Alignment explanation
Indices: 4964--5011 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
4954 GAGGGTAAAT
*
4964 TGGTCTTCACATAAATATAATTAA
1 TGGTCTTCAAATAAATATAATTAA
4988 TGGTCTTCAAATAAATATAATTAA
1 TGGTCTTCAAATAAATATAATTAA
5012 GATGTGTGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.44, C:0.10, G:0.08, T:0.38
Consensus pattern (24 bp):
TGGTCTTCAAATAAATATAATTAA
Found at i:8063 original size:30 final size:30
Alignment explanation
Indices: 8002--8078 Score: 93
Period size: 29 Copynumber: 2.6 Consensus size: 30
7992 TGACACCAAA
*
8002 TTATAAGTAGAGGGACCAAATTGACAGTTT
1 TTATAAGTAGAGGGACCAAATTGACACTTT
* *
8032 TTAT-AGTAGGGGGACCAAATTGATCCCTTT
1 TTATAAGTAGAGGGACCAAATTGA-CACTTT
* *
8062 TTGTAAGTAGAAGGACC
1 TTATAAGTAGAGGGACC
8079 TATACGGTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
29 18 0.46
30 11 0.28
31 10 0.26
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (30 bp):
TTATAAGTAGAGGGACCAAATTGACACTTT
Found at i:9012 original size:24 final size:23
Alignment explanation
Indices: 8979--9027 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
8969 AGGGTTTTTC
8979 TATCTCTCTCTTTACCTAGGG-TTT
1 TATCTCTCTCTTT--CTAGGGATTT
*
9003 TATCTTTCTCTTTCTAGGGATTT
1 TATCTCTCTCTTTCTAGGGATTT
9026 TA
1 TA
9028 GGACACCTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 6 0.26
23 5 0.22
24 12 0.52
ACGTcount: A:0.14, C:0.20, G:0.12, T:0.53
Consensus pattern (23 bp):
TATCTCTCTCTTTCTAGGGATTT
Found at i:10035 original size:96 final size:96
Alignment explanation
Indices: 9871--10066 Score: 383
Period size: 96 Copynumber: 2.0 Consensus size: 96
9861 ACTTTACCTA
*
9871 ATGTATTAGCTAATAGTAAATTCAGATTGATTGGTAAGTTACCTGCATTATAAGTTTAATGGTCA
1 ATGTATTAGCTAATAGTAAATTCAGATTGATCGGTAAGTTACCTGCATTATAAGTTTAATGGTCA
9936 AAGTATGATGGAATTCAGGTATGATGTGTTC
66 AAGTATGATGGAATTCAGGTATGATGTGTTC
9967 ATGTATTAGCTAATAGTAAATTCAGATTGATCGGTAAGTTACCTGCATTATAAGTTTAATGGTCA
1 ATGTATTAGCTAATAGTAAATTCAGATTGATCGGTAAGTTACCTGCATTATAAGTTTAATGGTCA
10032 AAGTATGATGGAATTCAGGTATGATGTGTTC
66 AAGTATGATGGAATTCAGGTATGATGTGTTC
10063 ATGT
1 ATGT
10067 TAAAATTTTG
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 99 1.00
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.37
Consensus pattern (96 bp):
ATGTATTAGCTAATAGTAAATTCAGATTGATCGGTAAGTTACCTGCATTATAAGTTTAATGGTCA
AAGTATGATGGAATTCAGGTATGATGTGTTC
Found at i:12086 original size:2 final size:2
Alignment explanation
Indices: 12079--12105 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
12069 TGTCCCCTTT
12079 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 T
12106 GATTTTTGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:12183 original size:18 final size:18
Alignment explanation
Indices: 12160--12197 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
12150 TACTATAGCC
12160 GTCATGTAATATTGGTTT
1 GTCATGTAATATTGGTTT
12178 GTCATGTAATATTGGTTT
1 GTCATGTAATATTGGTTT
12196 GT
1 GT
12198 AATATCGAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.05, G:0.24, T:0.50
Consensus pattern (18 bp):
GTCATGTAATATTGGTTT
Found at i:20541 original size:13 final size:13
Alignment explanation
Indices: 20523--20552 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
20513 ATTATTAGTC
*
20523 ATGTGGTATGGGA
1 ATGTGGTATGAGA
20536 ATGTGGTATGAGA
1 ATGTGGTATGAGA
20549 ATGT
1 ATGT
20553 TACATTCCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.40, T:0.33
Consensus pattern (13 bp):
ATGTGGTATGAGA
Found at i:22862 original size:1 final size:1
Alignment explanation
Indices: 22856--22882 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
22846 AGCAATGGTC
22856 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
22883 GAGTTTGGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:23532 original size:3 final size:3
Alignment explanation
Indices: 23524--23557 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
23514 ATTTCTACTA
23524 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
23558 TATGATTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:25507 original size:19 final size:18
Alignment explanation
Indices: 25483--25518 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
25473 TGAAGACTTA
25483 TTGAAGATAATTTGAAGAT
1 TTGAAGATAA-TTGAAGAT
*
25502 TTGAAGATCATTGAAGA
1 TTGAAGATAATTGAAGA
25519 ATTATCTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.42, C:0.03, G:0.22, T:0.33
Consensus pattern (18 bp):
TTGAAGATAATTGAAGAT
Found at i:32343 original size:25 final size:26
Alignment explanation
Indices: 32307--32357 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
32297 CCAGGCCGCT
32307 AGCAGCAGCAAGCCTGCCGCTGCTTC
1 AGCAGCAGCAAGCCTGCCGCTGCTTC
**
32333 AGCAG-AGCAAGCCTGTTGCTGCTTC
1 AGCAGCAGCAAGCCTGCCGCTGCTTC
32358 GCAAGGTAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 18 0.78
26 5 0.22
ACGTcount: A:0.20, C:0.33, G:0.27, T:0.20
Consensus pattern (26 bp):
AGCAGCAGCAAGCCTGCCGCTGCTTC
Found at i:32837 original size:12 final size:12
Alignment explanation
Indices: 32820--32844 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
32810 GTTTCGACTA
32820 GAAGCAAAATTT
1 GAAGCAAAATTT
32832 GAAGCAAAATTT
1 GAAGCAAAATTT
32844 G
1 G
32845 GCTTGAAGCA
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:0.08, G:0.20, T:0.24
Consensus pattern (12 bp):
GAAGCAAAATTT
Found at i:35036 original size:17 final size:19
Alignment explanation
Indices: 35011--35051 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
35001 AAAGGGTAAT
* *
35011 TAAAAAAAAATTGTTTTCA
1 TAAAAAAGAAGTGTTTTCA
35030 TAAAAAAGAAGTGTTTTCA
1 TAAAAAAGAAGTGTTTTCA
35049 TAA
1 TAA
35052 TAGAGGAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.51, C:0.05, G:0.10, T:0.34
Consensus pattern (19 bp):
TAAAAAAGAAGTGTTTTCA
Found at i:35929 original size:19 final size:18
Alignment explanation
Indices: 35905--35940 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
35895 TGAAGATATA
35905 TTGAAGATAATTTGAAGAT
1 TTGAAGATAA-TTGAAGAT
*
35924 TTGAAGATCATTGAAGA
1 TTGAAGATAATTGAAGA
35941 ATTATCTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.42, C:0.03, G:0.22, T:0.33
Consensus pattern (18 bp):
TTGAAGATAATTGAAGAT
Found at i:39343 original size:51 final size:51
Alignment explanation
Indices: 39215--39347 Score: 180
Period size: 50 Copynumber: 2.6 Consensus size: 51
39205 TATTATATTC
* * *
39215 TATTTACAAATTAGTC-AAAGTTCAATCTTTTAGTTCAAAGATTTCATTTT
1 TATTTACAAATTAATCAAAAGTTCAATCTTTTAGTCCAAAGATCTCATTTT
* * *
39265 TA-TTACAAATTAATCAAAAATTTAATCTTTTAGTCCAAAGGTCTCATTTT
1 TATTTACAAATTAATCAAAAGTTCAATCTTTTAGTCCAAAGATCTCATTTT
* *
39315 TATTTACAAATTAATCAAAAGGTGAATCTTTTA
1 TATTTACAAATTAATCAAAAGTTCAATCTTTTA
39348 TTCACAAATT
Statistics
Matches: 72, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
49 12 0.17
50 33 0.46
51 27 0.38
ACGTcount: A:0.38, C:0.12, G:0.08, T:0.43
Consensus pattern (51 bp):
TATTTACAAATTAATCAAAAGTTCAATCTTTTAGTCCAAAGATCTCATTTT
Found at i:39416 original size:81 final size:81
Alignment explanation
Indices: 39262--39426 Score: 181
Period size: 81 Copynumber: 2.0 Consensus size: 81
39252 AAGATTTCAT
* * * *
39262 TTTTATTACAAATTAATCAAAAATTTAATCTTTTAGTCCAAAGGTCTCATTTTTATTTACAAATT
1 TTTTATTACAAATTAATCAAAAATTCAATCTTTTACTCCAAACGTCTCATTTTTATTTACAAACT
*
39327 AATCAAAAGGTGAATC
66 AATCAAAAGGTCAATC
* * * *
39343 TTTTATTCACAAATTAATCAAAAGCTTCAATCTTTTACT-TAATCTTCTCA-TTTTATTTACAAA
1 TTTTATT-ACAAATTAATCAAAA-ATTCAATCTTTTACTCCAAACGTCTCATTTTTATTTACAAA
** * *
39406 CTGCTTAAAAGTTCAATC
64 CTAATCAAAAGGTCAATC
39424 TTT
1 TTT
39427 ACTCAAAAAT
Statistics
Matches: 69, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
81 35 0.51
82 22 0.32
83 12 0.17
ACGTcount: A:0.36, C:0.15, G:0.05, T:0.43
Consensus pattern (81 bp):
TTTTATTACAAATTAATCAAAAATTCAATCTTTTACTCCAAACGTCTCATTTTTATTTACAAACT
AATCAAAAGGTCAATC
Found at i:39447 original size:50 final size:50
Alignment explanation
Indices: 39343--39521 Score: 175
Period size: 50 Copynumber: 3.6 Consensus size: 50
39333 AAGGTGAATC
* * * * ** *
39343 TTTTATTCACAAATTAATCAAAAGCTTCAATCTTTTACT-TAATCTTCTCA-
1 TTTTATTTACAAACTACTCAAAAG-TTCAATCTTTTACTCAAAAATTAT-AT
* * *
39393 TTTTATTTACAAACTGCTTAAAAGTTCAATC-TTTACTCAAAAATTACTTT
1 TTTTATTTACAAACTACTCAAAAGTTCAATCTTTTACTCAAAAATTA-TAT
* * *
39443 TTTTATTTACAAATTACTCAAATGTTCAATCTTTTACTCAAAGATTATAT
1 TTTTATTTACAAACTACTCAAAAGTTCAATCTTTTACTCAAAAATTATAT
* *
39493 TTTTATTTACAAATTACTCAAATGTTCAA
1 TTTTATTTACAAACTACTCAAAAGTTCAA
39522 AAATTTTAGC
Statistics
Matches: 109, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
48 6 0.06
49 11 0.10
50 78 0.72
51 14 0.13
ACGTcount: A:0.36, C:0.16, G:0.03, T:0.45
Consensus pattern (50 bp):
TTTTATTTACAAACTACTCAAAAGTTCAATCTTTTACTCAAAAATTATAT
Found at i:39582 original size:50 final size:50
Alignment explanation
Indices: 39525--39726 Score: 244
Period size: 50 Copynumber: 4.0 Consensus size: 50
39515 TGTTCAAAAA
* * * * *
39525 TTTTAGCTTAAGGGCTT-CATTTTTATCATAAATCAAACAAAGATCTCATC
1 TTTTAGCTTAA-AGATTACATTTTTATCATTAATCAATCAAAAATCTCATC
39575 TTTTAGCTTAAAGATTACATTTTTATCATTAATCAATCAAAAATCTCATC
1 TTTTAGCTTAAAGATTACATTTTTATCATTAATCAATCAAAAATCTCATC
* * *
39625 TTTTAGCTTAAAGATTATATTTTTATCATTAGTCAATCAAAAATCACATC
1 TTTTAGCTTAAAGATTACATTTTTATCATTAATCAATCAAAAATCTCATC
* ** ** * * *
39675 TTTTAGCTTAAAGATTTCACCTTTATCACAAATTAATAAAAAATTTCATC
1 TTTTAGCTTAAAGATTACATTTTTATCATTAATCAATCAAAAATCTCATC
39725 TT
1 TT
39727 CAGTTTTATT
Statistics
Matches: 132, Mismatches: 19, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
49 3 0.02
50 129 0.98
ACGTcount: A:0.37, C:0.16, G:0.06, T:0.41
Consensus pattern (50 bp):
TTTTAGCTTAAAGATTACATTTTTATCATTAATCAATCAAAAATCTCATC
Found at i:39982 original size:20 final size:20
Alignment explanation
Indices: 39957--39996 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
39947 ACCCTAACCC
*
39957 CTCTTCTAT-TTCTTTCCCTT
1 CTCTTCT-TCTTCTTCCCCTT
39977 CTCTTCTTCTTCTTCCCCTT
1 CTCTTCTTCTTCTTCCCCTT
39997 GCTCGACCCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.03, C:0.40, G:0.00, T:0.57
Consensus pattern (20 bp):
CTCTTCTTCTTCTTCCCCTT
Found at i:46564 original size:13 final size:13
Alignment explanation
Indices: 46525--46583 Score: 61
Period size: 13 Copynumber: 4.6 Consensus size: 13
46515 GACCGACCCT
46525 TTATATATATA-A
1 TTATATATATATA
*
46537 TAATAT-TATTATA
1 TTATATATA-TATA
46550 TTAT-TAATATATA
1 TTATAT-ATATATA
46563 TTATATATATATA
1 TTATATATATATA
*
46576 TGATATAT
1 TTATATAT
46584 CCGTTTATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
11 2 0.05
12 8 0.21
13 26 0.67
14 3 0.08
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (13 bp):
TTATATATATATA
Found at i:46573 original size:11 final size:11
Alignment explanation
Indices: 46526--46583 Score: 56
Period size: 11 Copynumber: 5.6 Consensus size: 11
46516 ACCGACCCTT
46526 TATATATA-TA
1 TATATATATTA
46536 -ATA-ATATTA
1 TATATATATTA
46545 T-TATATTATTA
1 TATATA-TATTA
46556 -ATATATATTA
1 TATATATATTA
46566 TATATATA-TA
1 TATATATATTA
46576 TGATATAT
1 T-ATATAT
46584 CCGTTTATAT
Statistics
Matches: 41, Mismatches: 0, Indels: 13
0.76 0.00 0.24
Matches are distributed among these distances:
8 3 0.07
9 7 0.17
10 9 0.22
11 22 0.54
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (11 bp):
TATATATATTA
Found at i:46594 original size:2 final size:2
Alignment explanation
Indices: 46526--46583 Score: 51
Period size: 2 Copynumber: 32.5 Consensus size: 2
46516 ACCGACCCTT
46526 TA TA TA TA TA -A TA -A TA T- TA T- TA TA T- TA T- TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
46561 TA T- TA TA TA TA TA TA TGA TA TA T
1 TA TA TA TA TA TA TA TA T-A TA TA T
46584 CCGTTTATAT
Statistics
Matches: 47, Mismatches: 0, Indels: 18
0.72 0.00 0.28
Matches are distributed among these distances:
1 8 0.17
2 37 0.79
3 2 0.04
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (2 bp):
TA
Found at i:46727 original size:10 final size:10
Alignment explanation
Indices: 46712--46736 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
46702 CGTCTTCTCC
46712 TTCTCTCTTT
1 TTCTCTCTTT
46722 TTCTCTCTTT
1 TTCTCTCTTT
46732 TTCTC
1 TTCTC
46737 AGATCTCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (10 bp):
TTCTCTCTTT
Found at i:56103 original size:24 final size:24
Alignment explanation
Indices: 56058--56107 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
56048 AGTCAGGCAC
* *
56058 GCGGGCTTGAGCTAACCTAGGCGT
1 GCGGGCCTGAGCTAACCCAGGCGT
**
56082 GCGGGCCTGAGCTGGCCCAGGCGT
1 GCGGGCCTGAGCTAACCCAGGCGT
56106 GC
1 GC
56108 CAGGCCTTGG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.12, C:0.30, G:0.42, T:0.16
Consensus pattern (24 bp):
GCGGGCCTGAGCTAACCCAGGCGT
Found at i:61161 original size:26 final size:26
Alignment explanation
Indices: 61104--61157 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
61094 TACTTCTTGA
*
61104 TTACTGATTACCATTCTTTACTCTTT
1 TTACTTATTACCATTCTTTACTCTTT
*
61130 TTACTTATTACCATT-TTTGCTCTTT
1 TTACTTATTACCATTCTTTACTCTTT
61155 TTA
1 TTA
61158 ACTTTAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 12 0.46
26 14 0.54
ACGTcount: A:0.19, C:0.20, G:0.04, T:0.57
Consensus pattern (26 bp):
TTACTTATTACCATTCTTTACTCTTT
Found at i:61210 original size:33 final size:33
Alignment explanation
Indices: 61136--61235 Score: 105
Period size: 33 Copynumber: 2.9 Consensus size: 33
61126 CTTTTTACTT
*
61136 ATTACCATTTTTGCTCTTTTT-AACTTTAATTACTG
1 ATTACCATTTTT--TCTTTTTAAAC-TTAATTACCG
* *
61171 AATACCATTTTTTCTTTTTAAACTTACTTACCG
1 ATTACCATTTTTTCTTTTTAAACTTAATTACCG
*
61204 ATTACCA-TTTTACTTTTTTAAACTTAAATTAC
1 ATTACCATTTTTTC-TTTTTAAACTT-AATTAC
61236 TAATTACCCT
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
32 5 0.09
33 32 0.57
34 8 0.14
35 11 0.20
ACGTcount: A:0.28, C:0.18, G:0.03, T:0.51
Consensus pattern (33 bp):
ATTACCATTTTTTCTTTTTAAACTTAATTACCG
Found at i:61373 original size:65 final size:64
Alignment explanation
Indices: 61302--61560 Score: 231
Period size: 67 Copynumber: 3.9 Consensus size: 64
61292 TTTTTTAAAC
*
61302 TTAATTACTAAATACCATTTTTACTTCAACTTTAATTACTCAAAACCATTTTTACTTTTTCCTTT
1 TTAATTACTAAATACCATTTTTACTTCTACTTTAATTACTCAAAACCATTTTTACTTTTT-CTTT
* * * * * *
61367 TTAATTACTAAATACTATTTTTACTTTTTCCTTAATTAC-CTAATACCCTTTTTACTTTTTTTCT
1 TTAATTACTAAATACCATTTTTACTTCTACTTTAATTACTC-AAAACCATTTTTAC--TTTTTCT
61431 TT
63 TT
* *
61433 TTAATTACTAAATACTATTTTTACTCATTTTCTACTTTAATTACT-AAATACCATTTTTAC--TC
1 TTAATTACTAAATACCATTTTTA--C---TTCTACTTTAATTACTCAAA-ACCATTTTTACTTTT
**
61495 TAATT
60 TCTTT
*
61500 TTAATTACTAAATACCATTTTTACTCATTTTCTACTTTAATTAC-CGAATACCATTTTTACT
1 TTAATTACTAAATACCATTTTTA--C---TTCTACTTTAATTACTC-AAAACCATTTTTACT
61561 CATTTTAATC
Statistics
Matches: 164, Mismatches: 17, Indels: 23
0.80 0.08 0.11
Matches are distributed among these distances:
64 1 0.01
65 46 0.28
66 27 0.16
67 63 0.38
68 3 0.02
70 2 0.01
71 22 0.13
ACGTcount: A:0.30, C:0.19, G:0.00, T:0.51
Consensus pattern (64 bp):
TTAATTACTAAATACCATTTTTACTTCTACTTTAATTACTCAAAACCATTTTTACTTTTTCTTT
Found at i:61479 original size:36 final size:35
Alignment explanation
Indices: 61302--61566 Score: 249
Period size: 31 Copynumber: 7.9 Consensus size: 35
61292 TTTTTTAAAC
*
61302 TTAATTACTAAATACCATTTTTA--C--TTCAACT
1 TTAATTACTAAATACCATTTTTACTCTTTTCTACT
*
61333 TTAATTACTCAAA-ACCATTTTTACT-TTTTCCT-TT
1 TTAATTACT-AAATACCATTTTTACTCTTTT-CTACT
*
61367 TTAATTACTAAATACTATTTTTACT-TTTTC--C-
1 TTAATTACTAAATACCATTTTTACTCTTTTCTACT
* * *
61398 TTAATTACCT-AATACCCTTTTTACTTTTTTTCT-TT
1 TTAATTA-CTAAATACCATTTTTAC-TCTTTTCTACT
*
61433 TTAATTACTAAATACTATTTTTACTCATTTTCTACT
1 TTAATTACTAAATACCATTTTTACTC-TTTTCTACT
* *
61469 TTAATTACTAAATACCATTTTTACTC---T-AATT
1 TTAATTACTAAATACCATTTTTACTCTTTTCTACT
61500 TTAATTACTAAATACCATTTTTACTCATTTTCTACT
1 TTAATTACTAAATACCATTTTTACTC-TTTTCTACT
**
61536 TTAATTACCGAATACCATTTTTACTCATTTT
1 TTAATTACTAAATACCATTTTTACTC-TTTT
61567 AATCTTTTTA
Statistics
Matches: 196, Mismatches: 18, Indels: 35
0.79 0.07 0.14
Matches are distributed among these distances:
31 66 0.34
32 7 0.04
33 9 0.05
34 30 0.15
35 27 0.14
36 57 0.29
ACGTcount: A:0.29, C:0.18, G:0.00, T:0.52
Consensus pattern (35 bp):
TTAATTACTAAATACCATTTTTACTCTTTTCTACT
Found at i:61480 original size:102 final size:103
Alignment explanation
Indices: 61302--61566 Score: 295
Period size: 102 Copynumber: 2.7 Consensus size: 103
61292 TTTTTTAAAC
*
61302 TTAATTACTAAATACCATTTTTA--C---TTCAACTTTAATTACTCAAA-ACCATTTTTACT--T
1 TTAATTACTAAATACCATTTTTACTCATTTTCTACTTTAATTACT-AAATACCATTTTTACTCAT
* * *
61359 TTTCCTTTTTAATTACTAAATACTATTTTTACT-T-TTT
65 TTTCCTCTTTAATTACTAAATACCATTTTTACTCTAATT
* ** * *
61396 CCTTAATTACCT-AATACCCTTTTTACTTTTTTTCT-TTTTAATTACTAAATACTATTTTTACTC
1 --TTAATTA-CTAAATACCATTTTTACTCATTTTCTACTTTAATTACTAAATACCATTTTTACTC
61459 ATTTT-CTACTTTAATTACTAAATACCATTTTTACTCTAATT
63 ATTTTCCT-CTTTAATTACTAAATACCATTTTTACTCTAATT
**
61500 TTAATTACTAAATACCATTTTTACTCATTTTCTACTTTAATTACCGAATACCATTTTTACTCATT
1 TTAATTACTAAATACCATTTTTACTCATTTTCTACTTTAATTACTAAATACCATTTTTACTCATT
61565 TT
66 TT
61567 AATCTTTTTA
Statistics
Matches: 140, Mismatches: 15, Indels: 21
0.80 0.09 0.12
Matches are distributed among these distances:
96 19 0.14
97 2 0.01
99 3 0.02
100 21 0.15
101 7 0.05
102 56 0.40
103 30 0.21
104 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.00, T:0.52
Consensus pattern (103 bp):
TTAATTACTAAATACCATTTTTACTCATTTTCTACTTTAATTACTAAATACCATTTTTACTCATT
TTCCTCTTTAATTACTAAATACCATTTTTACTCTAATT
Found at i:61649 original size:21 final size:20
Alignment explanation
Indices: 61621--61791 Score: 129
Period size: 21 Copynumber: 8.2 Consensus size: 20
61611 CCGTTACCAT
61621 TTTACTGATTATTCTTTACTC
1 TTTACTGATTA-TCTTTACTC
*
61642 TTTCCTGATTA-CTATTAC-C
1 TTTACTGATTATCT-TTACTC
* *
61661 ATTTTACTGTTTACTGTTTACTC
1 --TTTACTGATTA-TCTTTACTC
61684 TTTTTACTGATTA-CTATTACTC
1 --TTTACTGATTATCT-TTACTC
61706 TTT-CTCGATTACTCTTTACTC
1 TTTACT-GATTA-TCTTTACTC
*
61727 TTTACTGATTA-CTATTGCTC
1 TTTACTGATTATCT-TTACTC
61747 TTTTACTGATTACTCTTTACTC
1 -TTTACTGATTA-TCTTTACTC
*
61769 TTTACTGACTAT-TATTACTC
1 TTTACTGATTATCT-TTACTC
61789 TTT
1 TTT
61792 TACTCTTTAC
Statistics
Matches: 124, Mismatches: 10, Indels: 33
0.74 0.06 0.20
Matches are distributed among these distances:
19 8 0.06
20 27 0.22
21 55 0.44
22 19 0.15
23 15 0.12
ACGTcount: A:0.19, C:0.21, G:0.06, T:0.54
Consensus pattern (20 bp):
TTTACTGATTATCTTTACTC
Found at i:61663 original size:42 final size:41
Alignment explanation
Indices: 61614--61822 Score: 217
Period size: 42 Copynumber: 5.0 Consensus size: 41
61604 CTGGTTACCG
* *
61614 TTACCATTTTACTGATTATTCTTTACTCTTTCCTGATTACTA
1 TTACC-TTTTACTGATTACTCTTTACTCTTTACTGATTACTA
* *
61656 TTACCATTTTACTGTTTACTGTTTACTCTTTTTACTGATTACTA
1 TTACC-TTTTACTGATTACTCTTTACTC--TTTACTGATTACTA
61700 TTA-CTCTTT-CTCGATTACTCTTTACTCTTTACTGATTACTA
1 TTACCT-TTTACT-GATTACTCTTTACTCTTTACTGATTACTA
* * *
61741 TTGCTCTTTTACTGATTACTCTTTACTCTTTACTGACTATTA
1 TTAC-CTTTTACTGATTACTCTTTACTCTTTACTGATTACTA
** * **
61783 TTACTCTTTTACTCTTTACTTTTTACTGATTACT-ATTACT
1 TTAC-CTTTTACTGATTACTCTTTACTCTTTACTGATTACT
61823 GAATTACTAA
Statistics
Matches: 143, Mismatches: 17, Indels: 15
0.82 0.10 0.09
Matches are distributed among these distances:
41 20 0.14
42 86 0.60
43 21 0.15
44 16 0.11
ACGTcount: A:0.20, C:0.21, G:0.05, T:0.54
Consensus pattern (41 bp):
TTACCTTTTACTGATTACTCTTTACTCTTTACTGATTACTA
Found at i:61830 original size:35 final size:34
Alignment explanation
Indices: 61749--61830 Score: 101
Period size: 35 Copynumber: 2.4 Consensus size: 34
61739 TATTGCTCTT
*
61749 TTACTGATTACTCTTTACTCTTTACTGACTATTA
1 TTACTGATTACTCTTTACTCTTTACTGACTACTA
** * *
61783 TTACTCTTTTACTCTTTACTTTTTACTGATTACTA
1 TTACT-GATTACTCTTTACTCTTTACTGACTACTA
61818 TTACTGAATTACT
1 TTACTG-ATTACT
61831 AATTATCATT
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
34 5 0.13
35 34 0.87
ACGTcount: A:0.23, C:0.20, G:0.05, T:0.52
Consensus pattern (34 bp):
TTACTGATTACTCTTTACTCTTTACTGACTACTA
Found at i:63664 original size:31 final size:31
Alignment explanation
Indices: 63525--63663 Score: 170
Period size: 31 Copynumber: 4.5 Consensus size: 31
63515 GTGGCACGAA
**
63525 ACACATGGCATGCCATGTGTCACTTTTTGAA
1 ACACATGGCATGCCATGTGTCACTTTTTGGT
*
63556 ACACATGGCATGCCATGTGTCGCTTTTTGGT
1 ACACATGGCATGCCATGTGTCACTTTTTGGT
* **
63587 ACACATGGCGTGATATGTGTCACTTTTTGGT
1 ACACATGGCATGCCATGTGTCACTTTTTGGT
* * ** *
63618 ACACATAGCGTGCCACATGTCGCTTTTTGGT
1 ACACATGGCATGCCATGTGTCACTTTTTGGT
*
63649 ACACGTGGCATGCCA
1 ACACATGGCATGCCA
63664 CCGTCGGACA
Statistics
Matches: 92, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 92 1.00
ACGTcount: A:0.21, C:0.23, G:0.24, T:0.32
Consensus pattern (31 bp):
ACACATGGCATGCCATGTGTCACTTTTTGGT
Found at i:66210 original size:12 final size:12
Alignment explanation
Indices: 66177--66221 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
66167 ATGGCCAAAC
66177 TGCTAATGCCTAA
1 TGCTAATGCC-AA
*
66190 TTACTAATGCCAA
1 -TGCTAATGCCAA
*
66203 TGCTAATGTCAA
1 TGCTAATGCCAA
66215 TGCTAAT
1 TGCTAAT
66222 ACCTAATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
12 17 0.61
13 2 0.07
14 9 0.32
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.33
Consensus pattern (12 bp):
TGCTAATGCCAA
Found at i:83401 original size:29 final size:29
Alignment explanation
Indices: 83366--83445 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 29
83356 GCTAAATACC
* * *
83366 CAAAAAAATCTCTTATGTTTTGCTTTTGGGA
1 CAAAATAATCCCTTATGTTTT--TTTCGGGA
83397 CAAAATAATCCCTTATGTTTTTTTCGGGA
1 CAAAATAATCCCTTATGTTTTTTTCGGGA
* * *
83426 CAAATTAGTCCCTTACGTTT
1 CAAAATAATCCCTTATGTTT
83446 CAAAAATGAG
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
29 24 0.56
31 19 0.44
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (29 bp):
CAAAATAATCCCTTATGTTTTTTTCGGGA
Found at i:83401 original size:31 final size:29
Alignment explanation
Indices: 83366--83429 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 29
83356 GCTAAATACC
* *
83366 CAAAAAAATCTCTTATGTTTTGCTTTTGGGA
1 CAAAAAAATCCCTTATGTTTT--TTTCGGGA
*
83397 CAAAATAATCCCTTATGTTTTTTTCGGGA
1 CAAAAAAATCCCTTATGTTTTTTTCGGGA
83426 CAAA
1 CAAA
83430 TTAGTCCCTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 11 0.37
31 19 0.63
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (29 bp):
CAAAAAAATCCCTTATGTTTTTTTCGGGA
Found at i:83637 original size:30 final size:30
Alignment explanation
Indices: 83569--83663 Score: 154
Period size: 31 Copynumber: 3.1 Consensus size: 30
83559 AAGGGACTGA
83569 TTTGTCCCAAAAGAAAAACATAAGGGATTT
1 TTTGTCCCAAAAGAAAAACATAAGGGATTT
83599 TTTCGTCCCAAAAGAAAAACATAAGGGATTT
1 TTT-GTCCCAAAAGAAAAACATAAGGGATTT
* *
83630 TTTGTCCCAAAAGAAAAATATAAGAGAATTT
1 TTTGTCCCAAAAGAAAAACATAAG-GGATTT
83661 TTT
1 TTT
83664 TAGTATTTAG
Statistics
Matches: 61, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
30 23 0.38
31 38 0.62
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.29
Consensus pattern (30 bp):
TTTGTCCCAAAAGAAAAACATAAGGGATTT
Found at i:84403 original size:126 final size:126
Alignment explanation
Indices: 84273--84512 Score: 313
Period size: 126 Copynumber: 1.9 Consensus size: 126
84263 CTTATTTTTC
* * ** ** *
84273 AAATATATTTTTTAAATGCCATT-TTTATTCTTTTACAATTTTACTCAATTTAAAACCTCTATTT
1 AAATATATTTCTTAAATGACATTATTTAAACTTTTACAATTTTACTCAA-CCAAAAACTCTATTT
*
84337 TTATTTAATCAAA-TCTAATATATTTATAACTATTTTATTTTTACCATTTTACTATTTTAATT
65 TTATTTAATCAAATTC-AATATATTTATAACTATTTTATCTTTACCATTTTACTATTTTAATT
* * ** *
84399 AAATATATTTCTTAAATGACATTATTTAAACTTTTACAGTTTTATTTTACCAAAAATTCTATTTT
1 AAATATATTTCTTAAATGACATTATTTAAACTTTTACAATTTTACTCAACCAAAAACTCTATTTT
* *
84464 TATTTAATTAAATTCAATATTTTTATAACTATTTTATCTTTACCATTTT
66 TATTTAATCAAATTCAATATATTTATAACTATTTTATCTTTACCATTTT
84513 TTTAGGGAAT
Statistics
Matches: 97, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
126 76 0.78
127 21 0.22
ACGTcount: A:0.34, C:0.11, G:0.01, T:0.53
Consensus pattern (126 bp):
AAATATATTTCTTAAATGACATTATTTAAACTTTTACAATTTTACTCAACCAAAAACTCTATTTT
TATTTAATCAAATTCAATATATTTATAACTATTTTATCTTTACCATTTTACTATTTTAATT
Found at i:84613 original size:7 final size:7
Alignment explanation
Indices: 84601--84635 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
84591 GAAGGAGAAG
84601 GAAAAAA
1 GAAAAAA
84608 GAAAAAA
1 GAAAAAA
*
84615 GAAAAAT
1 GAAAAAA
*
84622 GAAAAAT
1 GAAAAAA
84629 GAAAAAA
1 GAAAAAA
84636 ATCAATTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.06
Consensus pattern (7 bp):
GAAAAAA
Found at i:84718 original size:32 final size:32
Alignment explanation
Indices: 84678--84772 Score: 151
Period size: 32 Copynumber: 3.1 Consensus size: 32
84668 ACTAAATACT
*
84678 AAAAAAATCCCTAATGTTTTTCTTTTGGGACA
1 AAAAAAATCCCTTATGTTTTTCTTTTGGGACA
84710 AAAAAAATCCCTTATGTTTTTCTTTTGGGAC-
1 AAAAAAATCCCTTATGTTTTTCTTTTGGGACA
*
84741 AAAAAAATTCCTTATGTTTTT-TTTT-GGACA
1 AAAAAAATCCCTTATGTTTTTCTTTTGGGACA
84771 AA
1 AA
84773 TTAGTCCCTT
Statistics
Matches: 60, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
29 4 0.07
30 6 0.10
31 20 0.33
32 30 0.50
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.41
Consensus pattern (32 bp):
AAAAAAATCCCTTATGTTTTTCTTTTGGGACA
Found at i:84992 original size:29 final size:29
Alignment explanation
Indices: 84916--84989 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
84906 CTCATTTTTG
* * * *
84916 AAACGTAAGGGACTAATTTGTCCCGAAAA
1 AAACATAAGGGATTATTTTGTCCCAAAAA
84945 AAACATAAGGGATTATTTTGTCCCAAAAGCA
1 AAACATAAGGGATTATTTTGTCCCAAAA--A
84976 AAACATAAGGGATT
1 AAACATAAGGGATT
84990 TTTCTGGGTA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 24 0.62
31 15 0.38
ACGTcount: A:0.43, C:0.15, G:0.19, T:0.23
Consensus pattern (29 bp):
AAACATAAGGGATTATTTTGTCCCAAAAA
Found at i:86062 original size:11 final size:11
Alignment explanation
Indices: 86046--86078 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
86036 AGTTAGTTCC
86046 AAAAACAATTT
1 AAAAACAATTT
86057 AAAAACAATTT
1 AAAAACAATTT
86068 AAAAACAATTT
1 AAAAACAATTT
86079 TCAAAAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.27
Consensus pattern (11 bp):
AAAAACAATTT
Found at i:87297 original size:15 final size:17
Alignment explanation
Indices: 87274--87318 Score: 76
Period size: 15 Copynumber: 2.8 Consensus size: 17
87264 AATGCAATGC
87274 ATGCAAACAAAAAAAA-
1 ATGCAAACAAAAAAAAT
87290 ATGC-AACAAAAAAAAT
1 ATGCAAACAAAAAAAAT
87306 ATGCAAACAAAAA
1 ATGCAAACAAAAA
87319 TGCAATTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 11 0.41
16 8 0.30
17 8 0.30
ACGTcount: A:0.71, C:0.13, G:0.07, T:0.09
Consensus pattern (17 bp):
ATGCAAACAAAAAAAAT
Found at i:92412 original size:23 final size:22
Alignment explanation
Indices: 92386--92445 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
92376 AAAATCAAAG
*
92386 AAAAGAGAAGATTAAACGAAATA
1 AAAATAGAAGATTAAAC-AAATA
* *
92409 AAAATAAAAGA-TAGAACAAATT
1 AAAATAGAAGATTA-AACAAATA
92431 AAAATAGAA-ATTAAA
1 AAAATAGAAGATTAAA
92446 GTGTTCCCCA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
21 3 0.10
22 16 0.52
23 12 0.39
ACGTcount: A:0.68, C:0.03, G:0.12, T:0.17
Consensus pattern (22 bp):
AAAATAGAAGATTAAACAAATA
Found at i:96501 original size:5 final size:5
Alignment explanation
Indices: 96473--96512 Score: 53
Period size: 5 Copynumber: 7.6 Consensus size: 5
96463 CCTTGGCCCC
*
96473 AAAGA AAAAA AAAGGA AAACGA AAAGA AAAGA AAAGA AAA
1 AAAGA AAAGA AAA-GA AAA-GA AAAGA AAAGA AAAGA AAA
96513 AGGGAAAAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
5 22 0.71
6 9 0.29
ACGTcount: A:0.80, C:0.03, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:96528 original size:7 final size:7
Alignment explanation
Indices: 96504--96571 Score: 93
Period size: 7 Copynumber: 9.4 Consensus size: 7
96494 AAAAGAAAAG
96504 AAAA-GA
1 AAAAGGA
96510 AAAAGGGA
1 AAAA-GGA
96518 AAAAGGGA
1 AAAA-GGA
96526 AAAAGGA
1 AAAAGGA
96533 AAAAGGA
1 AAAAGGA
96540 AAAAGGA
1 AAAAGGA
96547 AAAAGGA
1 AAAAGGA
96554 AAAAGGGA
1 AAAA-GGA
*
96562 AATAGGA
1 AAAAGGA
96569 AAA
1 AAA
96572 TAATAATAAA
Statistics
Matches: 57, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
6 4 0.07
7 33 0.58
8 20 0.35
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.01
Consensus pattern (7 bp):
AAAAGGA
Found at i:102266 original size:20 final size:20
Alignment explanation
Indices: 102243--102282 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
102233 GGCAAAACGG
*
102243 GAATAAAATGTTGAAAACAA
1 GAATAAAATATTGAAAACAA
102263 GAATAAAATATTGAAAACAA
1 GAATAAAATATTGAAAACAA
102283 CACCTTCCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.62, C:0.05, G:0.12, T:0.20
Consensus pattern (20 bp):
GAATAAAATATTGAAAACAA
Found at i:102327 original size:48 final size:48
Alignment explanation
Indices: 102263--103731 Score: 883
Period size: 48 Copynumber: 29.4 Consensus size: 48
102253 TTGAAAACAA
102263 GAATAAAATATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACTG
1 GAATAAAATATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACTG
* * *
102311 GAATAGAAGATTGAAAACAACACCTTCCGGCCGGGAAGGGCAAAA-TAG
1 GAATAAAATATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACT-G
* * *
102359 GAATAAAATATTGAAAACAACACCTTCCAACCGGGAAAGGCAAAACAG
1 GAATAAAATATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACTG
* *
102407 GAATCAAATATTGAGAACAACACCTTCCGACCGGGAAGGGCAAAACTG
1 GAATAAAATATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACTG
*
102455 GAATAAAATATTGAAAACAACACCTTCCGATCGGGAAGGGCAAAAC-G
1 GAATAAAATATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACTG
* * ** * * ***** ** ** *
102502 AGAATAAAACATTGAAAACAGGAATAAAATTTTGAAATCAACACCTTCCGACCGGGAA-GG
1 -GAATAAAATATTGAAAAC------AACACCTT----CCGAC-CGGGAAGGGC-AAAACTG
* * * *
102562 GCAAAACAGGAATAAAAGATTGAAAACAACAACTTTCGACCGGGAAGGTCAAAACTG
1 G-AATA-A--AAT-----ATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACTG
* * * * * **
102619 GAATAGAAGATT-ATAAACAACGCCTTCTGGCCGGGAAGGGCAAAACAA
1 GAATAAAATATTGA-AAACAACACCTTCCGACCGGGAAGGGCAAAACTG
* * * *
102667 GAATAAAACATTGAAAACAACGCCTTCCGGCCGGGAAGGGCAAAACAG
1 GAATAAAATATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACTG
* * *
102715 GAATAAAACATTGAAAACAACACCTTCCGACCGTGAAGGGAAAAAC-G
1 GAATAAAATATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACTG
* * ** * * ***** ** ** *
102762 AGAATAAAACATTGAAAACAGAAATAAAATATTGAAATCAACACCTTCTGACCGGGAA-GG
1 -GAATAAAATATTGAAAAC------AACACCTT----CCGAC-CGGGAAGGGC-AAAACTG
* * *
102822 GCAAAACAGGAATAAAAGATTGAAAACAACACCTTCCGACTGGAAAGGGCAAAACTG
1 G-AATA-A--AAT-----ATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACTG
* * * * * * *
102879 GAATAGAAGATTGAAAACAACGCCTTCTGGCCGGGAAGGACAAAACAG
1 GAATAAAATATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACTG
* * * *
102927 GAATAAAACATTGAAAACAACGCCTTTCGGCCGGGAAGGGCAAAACTG
1 GAATAAAATATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACTG
* * **
102975 GAATAAAATATTGAAAACTACTCCTTCCGACTAGGAAGGGCAAAAC-G
1 GAATAAAATATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACTG
103022 AGAATAAAATATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACTG
1 -GAATAAAATATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACTG
* * * * **
103071 GAATAGAAGATTGAAAACAACGCCTTCCG-CCGGG-AGGGGAAATAAAG
1 GAATAAAATATTGAAAACAACACCTTCCGACCGGGAAGGGCAAA-ACTG
* * * *
103118 TAATAAAACATTGAAAACAACGCCTTCC-AGTCGGGAAGGGCAAAACAT-
1 GAATAAAATATTGAAAACAACACCTTCCGA-CCGGGAAGGGCAAAAC-TG
* * *
103166 GAAT-AAATCATTGAAAACAACACGTTCCGACCAGGAAGGGCAAAACAG
1 GAATAAAAT-ATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACTG
* * ** *
103214 GAATAAAAGATTGAAAACAACACCTTCCGATCGGGAATTGCGAAACTG
1 GAATAAAATATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACTG
* * * * *
103262 GAATAGAAGATTGAAAACAACGCCTTCCTG-CCGGGAAGGGAAAAACAG
1 GAATAAAATATTGAAAACAACACCTTCC-GACCGGGAAGGGCAAAACTG
* * **
103310 GAATAAAACATTGAAAACAACGCCTTCCGGTCGGGAAGGGCAAAACAT-
1 GAATAAAATATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAAC-TG
103358 GAAT-AAATCATTG-AAACAACACCTTCCGACCGGGAAGGGCAAAACTG
1 GAATAAAAT-ATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACTG
* *
103405 GAATAAAATATTGAAAACAACACCTTCCGACTGGGAAGGGCAAAACAG
1 GAATAAAATATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACTG
* * ** * * *** **
103453 GAATAAAACATTGAAAACAGGAATAAAATAT-TGAAATCAACACCA-TCCAACCGGGAA-TGG
1 GAATAAAATATTGAAAAC---AA-CACCT-TCCG--ACCGGGA--AGGGCAA-----AACT-G
* *
103513 CAAAACAAGAATAAAAGATTGAAAACAATACCTTCCGACCGGGAAGGGCAAAACTG
1 --------GAATAAAATATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACTG
* * * * *
103569 GAATAGAAGATTGAAAACAACGCCTTCCGGCCAGGAAGGGCAAAACAT-
1 GAATAAAATATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAAC-TG
* * * **
103617 GAATAAAACATTGAAAACAACGCCTTCC-AGTCGGGAAGGGCAAAACAA
1 GAATAAAATATTGAAAACAACACCTTCCGA-CCGGGAAGGGCAAAACTG
* * *
103665 GAATAAAACATTGAAAACAACACCTTCCGACCAGGAAGGGCAAAACGG
1 GAATAAAATATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACTG
*
103713 GAATAAAACATTGAAAACA
1 GAATAAAATATTGAAAACA
103732 GGAATAAAAT
Statistics
Matches: 1107, Mismatches: 214, Indels: 200
0.73 0.14 0.13
Matches are distributed among these distances:
46 8 0.01
47 81 0.07
48 854 0.77
49 16 0.01
51 2 0.00
52 3 0.00
53 5 0.00
54 12 0.01
55 3 0.00
56 14 0.01
57 10 0.01
58 12 0.01
59 8 0.01
60 16 0.01
61 5 0.00
62 13 0.01
63 5 0.00
64 3 0.00
65 2 0.00
68 35 0.03
ACGTcount: A:0.45, C:0.20, G:0.22, T:0.14
Consensus pattern (48 bp):
GAATAAAATATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACTG
Found at i:102516 original size:144 final size:145
Alignment explanation
Indices: 102256--103731 Score: 1051
Period size: 144 Copynumber: 9.8 Consensus size: 145
102246 TAAAATGTTG
* * *
102256 AAAACAAGAATAAAATATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACTGGAATAGAAGA
1 AAAACAGGAATAAAACATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACTGGAATAAAAGA
* *
102321 TTGAAAACAACACCTTCCGGCCGGGAAGGGCAAAA-T-AGGAATAAAATATTGAAAACAACACCT
66 TTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACTGA-GAATAAAACATTGAAAACAACACCT
* *
102384 TCCAACCGGGAAAGGC
130 TCCGACCGGGAAGGGC
* * * *
102400 AAAACAGGAATCAAATATTGAGAACAACACCTTCCGACCGGGAAGGGCAAAACTGGAATAAAATA
1 AAAACAGGAATAAAACATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACTGGAATAAAAGA
*
102465 TTGAAAACAACACCTTCCGATCGGGAAGGGCAAAAC-GAGAATAAAACATTGAAAACAGGAATAA
66 TTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACTGAGAATAAAACATTGAAAAC------AA
* ** ** *
102529 AATTTTGAAATCAAC-ACCTTCCGACCGGG-
125 CA-CCT----TC--CGACC--GGGA-AGGGC
** ** * * * *
102558 AAGGGCAAAACAGGAATAAAAGATTGAAAACAACAACTTTCGACCGGGAAGGTCAAAACTGGAAT
1 AA-AACAGGA-----ATAAAACATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACTGGAAT
* * * * *
102623 AGAAGATT-ATAAACAACGCCTTCTGGCCGGGAAGGGCAAAAC-AAGAATAAAACATTGAAAACA
60 AAAAGATTGA-AAACAACACCTTCCGACCGGGAAGGGCAAAACTGAGAATAAAACATTGAAAACA
* *
102686 ACGCCTTCCGGCCGGGAAGGGC
124 ACACCTTCCGACCGGGAAGGGC
* * *
102708 AAAACAGGAATAAAACATTGAAAACAACACCTTCCGACCGTGAAGGGAAAAAC-GAGAATAAAAC
1 AAAACAGGAATAAAACATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACTG-GAATAAAAG
* ** ** * ** ** *
102772 ATTGAAAACAGAAATAAAATATTGAAATCAAC-ACCTTCTGACCGGG-AAGGGCAAAACAGGAAT
65 ATTGAAAAC------AACA-CCT----TC--CGACC--GGGA-AGGGCAA-AAC-TGAG---AAT
* * *
102835 AAAAGATTGAAAACAACACCTTCCGACTGGAAAGGGC
109 AAAACATTGAAAACAACACCTTCCGACCGGGAAGGGC
* * * * * * * * *
102872 AAAACTGGAATAGAAGATTGAAAACAACGCCTTCTGGCCGGGAAGGACAAAACAGGAATAAAACA
1 AAAACAGGAATAAAACATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACTGGAATAAAAGA
* * * * * *
102937 TTGAAAACAACGCCTTTCGGCCGGGAAGGGCAAAACTG-GAATAAAATATTGAAAACTACTCCTT
66 TTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACTGAGAATAAAACATTGAAAACAACACCTT
**
103001 CCGACTAGGAAGGGC
131 CCGACCGGGAAGGGC
* *
103016 AAAAC-GAGAATAAAATATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACTGGAATAGAAG
1 AAAACAG-GAATAAAACATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACTGGAATAAAAG
* * * *
103080 ATTGAAAACAACGCCTTCCG-CCGGG-AGGG-GAAA-TAAAGTAATAAAACATTGAAAACAACGC
65 ATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACT-GAG-AATAAAACATTGAAAACAACAC
*
103141 CTTCC-AGTCGGGAAGGGC
128 CTTCCGA-CCGGGAAGGGC
* * * * *
103159 AAAACATGAATAAATCATTGAAAACAACACGTTCCGACCAGGAAGGGCAAAACAGGAATAAAAGA
1 AAAACAGGAATAAAACATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACTGGAATAAAAGA
* ** * * * *
103224 TTGAAAACAACACCTTCCGATCGGGAATTGCGAAACTG-GAATAGAAGATTGAAAACAACGCCTT
66 TTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACTGAGAATAAAACATTGAAAACAACACCTT
*
103288 CCTG-CCGGGAAGGGA
131 CC-GACCGGGAAGGGC
* ** **
103303 AAAACAGGAATAAAACATTGAAAACAACGCCTTCCGGTCGGGAAGGGCAAAACAT-GAATAAATC
1 AAAACAGGAATAAAACATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAAC-TGGAATAAAAG
*
103367 ATTG-AAACAACACCTTCCGACCGGGAAGGGCAAAACTG-GAATAAAATATTGAAAACAACACCT
65 ATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACTGAGAATAAAACATTGAAAACAACACCT
*
103430 TCCGACTGGGAAGGGC
130 TCCGACCGGGAAGGGC
* ** *** *
103446 AAAACAGGAATAAAACATTGAAAACAGGAATAAAATATTGAAATCAAC-ACCATCCAACCGGGAA
1 AAAACAGGAATAAAACATTGAAAAC------AACA-CCT----TC--CGACC-GGGAA--GGGCA
** *
103510 TGGCAAAACAAGAATAAAAGATTGAAAACAATACCTTCCGACCGGGAAGGGCAAAACTG-GAATA
50 -----AAACTGGAATAAAAGATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACTGAGAATA
* * * * *
103574 GAAGATTGAAAACAACGCCTTCCGGCCAGGAAGGGC
110 AAACATTGAAAACAACACCTTCCGACCGGGAAGGGC
* * * ** *
103610 AAAACATGAATAAAACATTGAAAACAACGCCTTCC-AGTCGGGAAGGGCAAAACAAGAATAAAAC
1 AAAACAGGAATAAAACATTGAAAACAACACCTTCCGA-CCGGGAAGGGCAAAACTGGAATAAAAG
* *
103674 ATTGAAAACAACACCTTCCGACCAGGAAGGGCAAAAC-GGGAATAAAACATTGAAAACA
65 ATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACTGAGAATAAAACATTGAAAACA
103732 GGAATAAAAT
Statistics
Matches: 1054, Mismatches: 185, Indels: 186
0.74 0.13 0.13
Matches are distributed among these distances:
140 1 0.00
141 3 0.00
142 7 0.01
143 204 0.19
144 430 0.41
145 5 0.00
146 4 0.00
147 1 0.00
149 16 0.02
150 14 0.01
151 8 0.01
152 5 0.00
153 5 0.00
154 2 0.00
155 5 0.00
156 8 0.01
157 4 0.00
158 18 0.02
159 9 0.01
161 2 0.00
163 16 0.02
164 286 0.27
165 1 0.00
ACGTcount: A:0.45, C:0.20, G:0.21, T:0.14
Consensus pattern (145 bp):
AAAACAGGAATAAAACATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACTGGAATAAAAGA
TTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACTGAGAATAAAACATTGAAAACAACACCTT
CCGACCGGGAAGGGC
Found at i:102537 original size:68 final size:68
Alignment explanation
Indices: 102448--102589 Score: 223
Period size: 68 Copynumber: 2.1 Consensus size: 68
102438 CGGGAAGGGC
* *
102448 AAAACTGGAATAAAATATTGAAAACAACACCTTCCGATCGGGAAGGGCAAAAC-GAGAATAAAAC
1 AAAACAGGAATAAAATATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACAG-GAATAAAAC
102512 ATTG
65 ATTG
* * *
102516 AAAACAGGAATAAAATTTTGAAATCAACACCTTCCGACCGGGAAGGGCAAAACAGGAATAAAAGA
1 AAAACAGGAATAAAATATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACAGGAATAAAACA
102581 TTG
66 TTG
102584 AAAACA
1 AAAACA
102590 ACAACTTTCG
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
68 67 0.99
69 1 0.01
ACGTcount: A:0.49, C:0.16, G:0.19, T:0.15
Consensus pattern (68 bp):
AAAACAGGAATAAAATATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACAGGAATAAAACA
TTG
Found at i:102567 original size:164 final size:164
Alignment explanation
Indices: 102352--102685 Score: 490
Period size: 164 Copynumber: 2.0 Consensus size: 164
102342 CGGGAAGGGC
* * *
102352 AAAATAGGAATAAAATATTGAAAACAACACCTTCCAACCGGGAAAGGCAAAACAGGAATCAAATA
1 AAAACAGGAATAAAATATTGAAAACAACACCTTCCAACCGGGAAAGGCAAAACAGGAATAAAAGA
* * *
102417 TTGAGAACAACACCTTCCGACCGGGAAGGGCAAAACTGGAATAAAATATTGA-AAACAACACCTT
66 TTGAAAACAACAACTTCCGACCGGGAAGGGCAAAACTGGAATAAAAGATT-ATAAACAACACCTT
* *
102481 CCGATCGGGAAGGGCAAAACGAGAATAAAACATTG
130 CCGACCGGGAAGGGCAAAACAAGAATAAAACATTG
* * * *
102516 AAAACAGGAATAAAATTTTGAAATCAACACCTTCCGACCGGGAAGGGCAAAACAGGAATAAAAGA
1 AAAACAGGAATAAAATATTGAAAACAACACCTTCCAACCGGGAAAGGCAAAACAGGAATAAAAGA
* * * *
102581 TTGAAAACAACAACTTTCGACCGGGAAGGTCAAAACTGGAATAGAAGATTATAAACAACGCCTTC
66 TTGAAAACAACAACTTCCGACCGGGAAGGGCAAAACTGGAATAAAAGATTATAAACAACACCTTC
* *
102646 TGGCCGGGAAGGGCAAAACAAGAATAAAACATTG
131 CGACCGGGAAGGGCAAAACAAGAATAAAACATTG
102680 AAAACA
1 AAAACA
102686 ACGCCTTCCG
Statistics
Matches: 151, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
163 1 0.01
164 150 0.99
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (164 bp):
AAAACAGGAATAAAATATTGAAAACAACACCTTCCAACCGGGAAAGGCAAAACAGGAATAAAAGA
TTGAAAACAACAACTTCCGACCGGGAAGGGCAAAACTGGAATAAAAGATTATAAACAACACCTTC
CGACCGGGAAGGGCAAAACAAGAATAAAACATTG
Found at i:102637 original size:116 final size:116
Alignment explanation
Indices: 102400--102616 Score: 346
Period size: 116 Copynumber: 1.9 Consensus size: 116
102390 CGGGAAAGGC
* * *
102400 AAAACAGGAATCAAATATTGAGAACAACACCTTCCGACCGGGAAGGGCAAAACTGGAATAAAATA
1 AAAACAGGAATAAAATATTGAGAACAACACCTTCCGACCGGGAAGGGCAAAACAGGAATAAAAGA
* *
102465 TTGAAAACAACACCTTCCGATCGGGAAGGGCAAAACGAGAATAAAACATTG
66 TTGAAAACAACAACTTCCGACCGGGAAGGGCAAAACGAGAATAAAACATTG
*
102516 AAAACAGGAATAAAATTTTGA-AATCAACACCTTCCGACCGGGAAGGGCAAAACAGGAATAAAAG
1 AAAACAGGAATAAAATATTGAGAA-CAACACCTTCCGACCGGGAAGGGCAAAACAGGAATAAAAG
* *
102580 ATTGAAAACAACAACTTTCGACCGGGAAGGTCAAAAC
65 ATTGAAAACAACAACTTCCGACCGGGAAGGGCAAAAC
102617 TGGAATAGAA
Statistics
Matches: 92, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
115 2 0.02
116 90 0.98
ACGTcount: A:0.46, C:0.19, G:0.20, T:0.15
Consensus pattern (116 bp):
AAAACAGGAATAAAATATTGAGAACAACACCTTCCGACCGGGAAGGGCAAAACAGGAATAAAAGA
TTGAAAACAACAACTTCCGACCGGGAAGGGCAAAACGAGAATAAAACATTG
Found at i:102695 original size:260 final size:258
Alignment explanation
Indices: 102210--104298 Score: 1616
Period size: 260 Copynumber: 8.1 Consensus size: 258
102200 AGAGAATAGG
* * * *
102210 AACAACCCCTTCCGATGGGGAAGGGCAAAACGGGAATAAAATGTTGAAAACAAGAATAAAATATT
1 AACAACACCTTCCGATCGGGAAGGGCAAAACGAGAATAAAA-ATTGAAAAC-AGAATAAAATATT
* *
102275 GAAAACAACACCTTCCGACCGGGAAGGGCAAAACTGGAATAGAAGATTGAAAACAACACCTTCCG
64 GAAAACAACACCTTCCGACCGGGAAGGGCAAAACAGGAATAAAAGATTGAAAACAACACCTTCCG
* * * *
102340 GCCGGGAAGGGCAAAA-TAGGAATAAAATATTGAAAACAACACCTTCCAACCGGGAAAGGCAAAA
129 GCCGGGAAGGGCAAAACT-GGAATAAAACATTGAAAACAACGCCTTCCAGCCGGGAAGGGCAAAA
* * * * *
102404 CAGGAATCAAATATTGAGAACAACACCTTCCGACCGGGAAGGGCAAAACTGGAATAAAATATTGA
193 CAGGAATAAAACATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACAGGAATAAAACATTGA
102469 A
258 A
*
102470 AACAACACCTTCCGATCGGGAAGGGCAAAACGAGAATAAAACATTGAAAACAGGAATAAAATTTT
1 AACAACACCTTCCGATCGGGAAGGGCAAAACGAGAATAAAA-ATTGAAAACA-GAATAAAATATT
* * *
102535 GAAATCAACACCTTCCGACCGGGAAGGGCAAAACAGGAATAAAAGATTGAAAACAACAACTTTCG
64 GAAAACAACACCTTCCGACCGGGAAGGGCAAAACAGGAATAAAAGATTGAAAACAACACCTTCCG
* * * * **
102600 ACCGGGAAGGTCAAAACTGGAATAGAAGATT-ATAAACAACGCCTTCTGGCCGGGAAGGGCAAAA
129 GCCGGGAAGGGCAAAACTGGAATAAAACATTGA-AAACAACGCCTTCCAGCCGGGAAGGGCAAAA
* * *
102664 CAAGAATAAAACATTGAAAACAACGCCTTCCGGCCGGGAAGGGCAAAACAGGAATAAAACATTGA
193 CAGGAATAAAACATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACAGGAATAAAACATTGA
102729 A
258 A
* * *
102730 AACAACACCTTCCGACCGTGAAGGGAAAAACGAGAATAAAACATTGAAAACAGAAATAAAATATT
1 AACAACACCTTCCGATCGGGAAGGGCAAAACGAGAATAAAA-ATTGAAAACAG-AATAAAATATT
* *
102795 GAAATCAACACCTTCTGACCGGGAAGGGCAAAACAGGAATAAAAGATTGAAAACAACACCTTCCG
64 GAAAACAACACCTTCCGACCGGGAAGGGCAAAACAGGAATAAAAGATTGAAAACAACACCTTCCG
* * * * * ** *
102860 ACTGGAAAGGGCAAAACTGGAATAGAAGATTGAAAACAACGCCTTCTGGCCGGGAAGGACAAAAC
129 GCCGGGAAGGGCAAAACTGGAATAAAACATTGAAAACAACGCCTTCCAGCCGGGAAGGGCAAAAC
* * * * *
102925 AGGAATAAAACATTGAAAACAACGCCTTTCGGCCGGGAAGGGCAAAACTGGAATAAAATATTGAA
194 AGGAATAAAACATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACAGGAATAAAACATTGAA
* * *
102990 AACTACTCCTTCCGA-CTAGGAAGGGCAAAAC-------------G-----AGAATAAAATATTG
1 AACAACACCTTCCGATC-GGGAAGGGCAAAACGAGAATAAAAATTGAAAACAGAATAAAATATTG
* * *
103036 AAAACAACACCTTCCGACCGGGAAGGGCAAAACTGGAATAGAAGATTGAAAACAACGCCTTCC-G
65 AAAACAACACCTTCCGACCGGGAAGGGCAAAACAGGAATAAAAGATTGAAAACAACACCTTCCGG
* ** * *
103100 CCGGG-AGGGGAAATAAAGTAATAAAACATTGAAAACAACGCCTTCCAGTCGGGAAGGGCAAAAC
130 CCGGGAAGGGCAAA-ACTGGAATAAAACATTGAAAACAACGCCTTCCAGCCGGGAAGGGCAAAAC
* * * * *
103164 ATGAATAAATCATTGAAAACAACACGTTCCGACCAGGAAGGGCAAAACAGGAATAAAAGATTGAA
194 AGGAATAAAACATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACAGGAATAAAACATTGAA
** *
103229 AACAACACCTTCCGATCGGGAATTGCGAAACTG-GAAT----A--G---A-AG--------ATTG
1 AACAACACCTTCCGATCGGGAAGGGCAAAAC-GAGAATAAAAATTGAAAACAGAATAAAATATTG
* * * *
103275 AAAACAACGCCTTCCTG-CCGGGAAGGGAAAAACAGGAATAAAACATTGAAAACAACGCCTTCCG
65 AAAACAACACCTTCC-GACCGGGAAGGGCAAAACAGGAATAAAAGATTGAAAACAACACCTTCCG
* * *
103339 GTCGGGAAGGGCAAAACAT-GAATAAATCATTG-AAACAACACCTTCC-GACCGGGAAGGGCAAA
129 GCCGGGAAGGGCAAAAC-TGGAATAAAACATTGAAAACAACGCCTTCCAG-CCGGGAAGGGCAAA
* * *
103401 ACTGGAATAAAATATTGAAAACAACACCTTCCGACTGGGAAGGGCAAAACAGGAATAAAACATTG
192 ACAGGAATAAAACATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACAGGAATAAAACATTG
103466 AA
257 AA
** * *** *** ** * * * **** * *
103468 AACAGGA--ATAAAATATTGAA-ATCAACACCATCCAACCGGGAATGGCAAAACAAGAATAAAAG
1 AACAACACCTTCCGATCGGGAAGGGCAAAACGA--GAA-TAAAAATTG-AAAAC-AGAATAAAAT
* * * *
103530 ATTGAAAACAATACCTTCCGACCGGGAAGGGCAAAACTGGAATAGAAGATTGAAAACAACGCCTT
61 ATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACAGGAATAAAAGATTGAAAACAACACCTT
* *
103595 CCGGCCAGGAAGGGCAAAACAT-GAATAAAACATTGAAAACAACGCCTTCCAGTCGGGAAGGGCA
126 CCGGCCGGGAAGGGCAAAAC-TGGAATAAAACATTGAAAACAACGCCTTCCAGCCGGGAAGGGCA
* * *
103659 AAACAAGAATAAAACATTGAAAACAACACCTTCCGACCAGGAAGGGCAAAACGGGAATAAAACAT
190 AAACAGGAATAAAACATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACAGGAATAAAACAT
103724 TGAA
255 TGAA
** * *** *** ** * ** ** ** * * * *
103728 AACAGGA--ATAAAATATTGAAATG-AACACCTTCCGACCAGGAAGTGCAAAACTGGAATAGAAG
1 AACAACACCTTCCGATCGGGAAGGGCAA-AAC--GAGAATAAAAATTG-AAAAC-AGAATAAAAT
* * * *
103790 ATTGAAAACAACGCCTTGCGGCCGGGAAGGGCAAAACAGGAATAAAACATTGAAAACAACACCTT
61 ATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACAGGAATAAAAGATTGAAAACAACACCTT
* * *
103855 CCGACCGGGAAGGGCAACAAGGGAATAAAACATTGAAAACAGGAATAAAACATTGAAAGCAACAC
126 CCGGCCGGGAAGGG---C--------AAAAC--T-------GGAATAAAACATTGAAAACAACGC
* * * * *
103920 CTT-CTGACTGGGAAGGGCAAAACGGGAATAAAATATTGATAACAACACCTTCCGACCGGGAAGG
171 CTTCCAG-CCGGGAAGGGCAAAACAGGAATAAAACATTGAAAACAACACCTTCCGACCGGGAAGG
* *
103984 GCAAAACATGAATAAATCATTGAA
235 GCAAAACAGGAATAAAACATTGAA
* * * ***
104008 AACAACATCTTCCGACCTGGAAGGGCAAAACTG-GAATAAAATATTGAAAACA-ACACCTTCCGA
1 AACAACACCTTCCGATCGGGAAGGGCAAAAC-GAGAATAAAA-ATTGAAAACAGA-A---TAAAA
**** **** * * ** ***** ** * * *
104071 CCGGGAAGGGCAAAAC--GAGAATAAAACATTG-AAAACATGAATAAAACATTGAAAGCAACACC
60 TATTGAAAACAACACCTTCCGACCGGGA-AGGGCAAAACAGGAATAAAAGATTGAAAACAACACC
** * * *
104133 TTCCGATCGGGAAGGGCAAAACGGGAATAAAATATTGAAAACAACACCTTCC-GACCGGGAAGGG
124 TTCCGGCCGGGAAGGGCAAAACTGGAATAAAACATTGAAAACAACGCCTTCCAG-CCGGGAAGGG
* * * * * * *
104197 CAAAACTGGAATAGAAGATTGAAAACAACGCCTTCCGGCCGGGAAAGGCAAAACAAGAATAAAAC
188 CAAAACAGGAATAAAACATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACAGGAATAAAAC
104262 ATTGAA
253 ATTGAA
* ** *
104268 AACAACGCCTTCCGGCCGGGAAGGGTAAAAC
1 AACAACACCTTCCGATCGGGAAGGGCAAAAC
104299 TGGAATACTG
Statistics
Matches: 1511, Mismatches: 235, Indels: 166
0.79 0.12 0.09
Matches are distributed among these distances:
236 4 0.00
237 6 0.00
238 10 0.01
239 273 0.18
240 89 0.06
241 9 0.01
243 1 0.00
245 1 0.00
246 2 0.00
247 2 0.00
249 1 0.00
251 2 0.00
258 1 0.00
259 93 0.06
260 813 0.54
261 6 0.00
263 2 0.00
269 5 0.00
271 5 0.00
272 1 0.00
277 1 0.00
278 1 0.00
279 3 0.00
280 156 0.10
281 6 0.00
282 16 0.01
283 2 0.00
ACGTcount: A:0.44, C:0.20, G:0.22, T:0.14
Consensus pattern (258 bp):
AACAACACCTTCCGATCGGGAAGGGCAAAACGAGAATAAAAATTGAAAACAGAATAAAATATTGA
AAACAACACCTTCCGACCGGGAAGGGCAAAACAGGAATAAAAGATTGAAAACAACACCTTCCGGC
CGGGAAGGGCAAAACTGGAATAAAACATTGAAAACAACGCCTTCCAGCCGGGAAGGGCAAAACAG
GAATAAAACATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACAGGAATAAAACATTGAA
Found at i:102796 original size:68 final size:68
Alignment explanation
Indices: 102708--102849 Score: 205
Period size: 68 Copynumber: 2.1 Consensus size: 68
102698 CGGGAAGGGC
* *
102708 AAAACAGGAATAAAACATTGAAAACAACACCTTCCGACCGTGAAGGGAAAAAC-GAGAATAAAAC
1 AAAACAGAAATAAAACATTGAAAACAACACCTTCCGACCGGGAAGGGAAAAACAG-GAATAAAAC
102772 ATTG
65 ATTG
* * * * *
102776 AAAACAGAAATAAAATATTGAAATCAACACCTTCTGACCGGGAAGGGCAAAACAGGAATAAAAGA
1 AAAACAGAAATAAAACATTGAAAACAACACCTTCCGACCGGGAAGGGAAAAACAGGAATAAAACA
102841 TTG
66 TTG
102844 AAAACA
1 AAAACA
102850 ACACCTTCCG
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
68 65 0.98
69 1 0.02
ACGTcount: A:0.52, C:0.16, G:0.18, T:0.14
Consensus pattern (68 bp):
AAAACAGAAATAAAACATTGAAAACAACACCTTCCGACCGGGAAGGGAAAAACAGGAATAAAACA
TTG
Found at i:102811 original size:164 final size:164
Alignment explanation
Indices: 102636--102945 Score: 453
Period size: 164 Copynumber: 1.9 Consensus size: 164
102626 AGATTATAAA
* * * *
102636 CAACGCCTTCTGGCCGGGAAGGGCAAAACAAGAATAAAACATTGAAAACAACGCCTTCCGGCCGG
1 CAACACCTTCTGACCGGGAAGGGCAAAACAAGAATAAAACATTGAAAACAACACCTTCCGACCGG
* *
102701 GAAGGGCAAAACAGGAATAAAACATTGAAAACAACACCTTCCGACCGTGAAGGGA-AAAAC-GAG
66 AAAGGGCAAAACAGGAATAAAACATTGAAAACAACACCTTCCGACCGGGAA-GGACAAAACAG-G
102764 AATAAAACATTGAAAACAGAAATAAAATATTGAAAT
129 AATAAAACATTGAAAACAGAAATAAAATATTGAAAT
* * *
102800 CAACACCTTCTGACCGGGAAGGGCAAAACAGGAATAAAAGATTGAAAACAACACCTTCCGACTGG
1 CAACACCTTCTGACCGGGAAGGGCAAAACAAGAATAAAACATTGAAAACAACACCTTCCGACCGG
* * * * * *
102865 AAAGGGCAAAACTGGAATAGAAGATTGAAAACAACGCCTTCTGGCCGGGAAGGACAAAACAGGAA
66 AAAGGGCAAAACAGGAATAAAACATTGAAAACAACACCTTCCGACCGGGAAGGACAAAACAGGAA
102930 TAAAACATTGAAAACA
131 TAAAACATTGAAAACA
102946 ACGCCTTTCG
Statistics
Matches: 129, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
163 3 0.02
164 125 0.97
165 1 0.01
ACGTcount: A:0.45, C:0.20, G:0.22, T:0.13
Consensus pattern (164 bp):
CAACACCTTCTGACCGGGAAGGGCAAAACAAGAATAAAACATTGAAAACAACACCTTCCGACCGG
AAAGGGCAAAACAGGAATAAAACATTGAAAACAACACCTTCCGACCGGGAAGGACAAAACAGGAA
TAAAACATTGAAAACAGAAATAAAATATTGAAAT
Found at i:102829 original size:116 final size:116
Alignment explanation
Indices: 102660--102898 Score: 340
Period size: 116 Copynumber: 2.1 Consensus size: 116
102650 CGGGAAGGGC
* *
102660 AAAACAAGAATAAAACATTGAAAACAACGCCTTCCGGCCGGGAAGGGCAAAACAGGAATAAAACA
1 AAAACAAGAATAAAACATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACAGGAATAAAACA
102725 TTGAAAACAACACCTTCCGACCGTG-AAGGGAAAAAC-GAGAATAAAACATTG
66 TTGAAAACAACACCTTCCGACCG-GAAAGGGAAAAACTG-GAATAAAACATTG
* * * *
102776 AAAAC-AGAAATAAAATATTGAAATCAACACCTTCTGACCGGGAAGGGCAAAACAGGAATAAAAG
1 AAAACAAG-AATAAAACATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACAGGAATAAAAC
* * * *
102840 ATTGAAAACAACACCTTCCGACTGGAAAGGGCAAAACTGGAATAGAAGATTG
65 ATTGAAAACAACACCTTCCGACCGGAAAGGGAAAAACTGGAATAAAACATTG
102892 AAAACAA
1 AAAACAA
102899 CGCCTTCTGG
Statistics
Matches: 109, Mismatches: 10, Indels: 7
0.87 0.08 0.06
Matches are distributed among these distances:
115 3 0.03
116 104 0.95
117 2 0.02
ACGTcount: A:0.49, C:0.18, G:0.20, T:0.13
Consensus pattern (116 bp):
AAAACAAGAATAAAACATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACAGGAATAAAACA
TTGAAAACAACACCTTCCGACCGGAAAGGGAAAAACTGGAATAAAACATTG
Found at i:103471 original size:20 final size:20
Alignment explanation
Indices: 103446--103488 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
103436 TGGGAAGGGC
103446 AAAACAGGAATAAAACATTG
1 AAAACAGGAATAAAACATTG
*
103466 AAAACAGGAATAAAATATTG
1 AAAACAGGAATAAAACATTG
103486 AAA
1 AAA
103489 TCAACACCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.63, C:0.07, G:0.14, T:0.16
Consensus pattern (20 bp):
AAAACAGGAATAAAACATTG
Found at i:103483 original size:68 final size:68
Alignment explanation
Indices: 103398--103539 Score: 212
Period size: 68 Copynumber: 2.1 Consensus size: 68
103388 CGGGAAGGGC
* * * * *
103398 AAAACTGGAATAAAATATTGAAAACAACACCTTCCGACTGGGAAGGGCAAAACAGGAATAAAACA
1 AAAACAGGAATAAAATATTGAAAACAACACCATCCAACCGGGAAGGGCAAAACAAGAATAAAACA
103463 TTG
66 TTG
* * *
103466 AAAACAGGAATAAAATATTGAAATCAACACCATCCAACCGGGAATGGCAAAACAAGAATAAAAGA
1 AAAACAGGAATAAAATATTGAAAACAACACCATCCAACCGGGAAGGGCAAAACAAGAATAAAACA
103531 TTG
66 TTG
103534 AAAACA
1 AAAACA
103540 ATACCTTCCG
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
68 66 1.00
ACGTcount: A:0.52, C:0.16, G:0.17, T:0.15
Consensus pattern (68 bp):
AAAACAGGAATAAAATATTGAAAACAACACCATCCAACCGGGAAGGGCAAAACAAGAATAAAACA
TTG
Found at i:103516 original size:116 final size:115
Alignment explanation
Indices: 103351--103587 Score: 341
Period size: 116 Copynumber: 2.1 Consensus size: 115
103341 CGGGAAGGGC
* * * ** *
103351 AAAACATGAATAAATCATTGAAACAACACCTTCCGACCGGGAAGGGCAAAACTGGAATAAAATAT
1 AAAACAGGAATAAATCATTGAAACAACACCATCCAACCGGGAAGGGCAAAACAAGAATAAAAGAT
*
103416 TGAAAACAACACCTTCCGACTGGGAAGGGCAAAACAGGAATAAAACATTG
66 TGAAAACAACACCTTCCGACCGGGAAGGGCAAAACAGGAATAAAACATTG
*
103466 AAAACAGGAATAAAAT-ATTGAAATCAACACCATCCAACCGGGAATGGCAAAACAAGAATAAAAG
1 AAAACAGGAAT-AAATCATTGAAA-CAACACCATCCAACCGGGAAGGGCAAAACAAGAATAAAAG
* * * *
103530 ATTGAAAACAATACCTTCCGACCGGGAAGGGCAAAACTGGAATAGAAGATTG
64 ATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACAGGAATAAAACATTG
103582 AAAACA
1 AAAACA
103588 ACGCCTTCCG
Statistics
Matches: 108, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
115 17 0.16
116 91 0.84
ACGTcount: A:0.48, C:0.18, G:0.19, T:0.15
Consensus pattern (115 bp):
AAAACAGGAATAAATCATTGAAACAACACCATCCAACCGGGAAGGGCAAAACAAGAATAAAAGAT
TGAAAACAACACCTTCCGACCGGGAAGGGCAAAACAGGAATAAAACATTG
Found at i:103597 original size:164 final size:163
Alignment explanation
Indices: 103303--103635 Score: 486
Period size: 164 Copynumber: 2.0 Consensus size: 163
103293 CGGGAAGGGA
* * *** * *
103303 AAAACAGGAATAAAACATTGAAAACAACGCCTTCCGGTCGGGAAGGGCAAAACATGAATAAATCA
1 AAAACAGGAATAAAACATTGAAAACAACACCATCCAACCGGGAAGGGCAAAACAAGAATAAAACA
*
103368 TTGAAACAACACCTTCCGACCGGGAAGGGCAAAACTGGAATAAAATATTGAAAACAACACCTTCC
66 TTGAAACAACACCTTCCGACCGGGAAGGGCAAAACTGGAATAAAAGATTGAAAACAACACCTTCC
**
103433 GACTGGGAAGGGCAAAACAGGAATAAAACATTG
131 GACCAGGAAGGGCAAAACAGGAATAAAACATTG
* * * *
103466 AAAACAGGAATAAAATATTGAAATCAACACCATCCAACCGGGAATGGCAAAACAAGAATAAAAGA
1 AAAACAGGAATAAAACATTGAAAACAACACCATCCAACCGGGAAGGGCAAAACAAGAATAAAACA
* * *
103531 TTGAAAACAATACCTTCCGACCGGGAAGGGCAAAACTGGAATAGAAGATTGAAAACAACGCCTTC
66 TTG-AAACAACACCTTCCGACCGGGAAGGGCAAAACTGGAATAAAAGATTGAAAACAACACCTTC
* *
103596 CGGCCAGGAAGGGCAAAACATGAATAAAACATTG
130 CGACCAGGAAGGGCAAAACAGGAATAAAACATTG
103630 AAAACA
1 AAAACA
103636 ACGCCTTCCA
Statistics
Matches: 150, Mismatches: 19, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
163 57 0.38
164 93 0.62
ACGTcount: A:0.47, C:0.19, G:0.20, T:0.14
Consensus pattern (163 bp):
AAAACAGGAATAAAACATTGAAAACAACACCATCCAACCGGGAAGGGCAAAACAAGAATAAAACA
TTGAAACAACACCTTCCGACCGGGAAGGGCAAAACTGGAATAAAAGATTGAAAACAACACCTTCC
GACCAGGAAGGGCAAAACAGGAATAAAACATTG
Found at i:103735 original size:20 final size:20
Alignment explanation
Indices: 103706--103748 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
103696 CAGGAAGGGC
*
103706 AAAACGGGAATAAAACATTG
1 AAAACAGGAATAAAACATTG
*
103726 AAAACAGGAATAAAATATTG
1 AAAACAGGAATAAAACATTG
103746 AAA
1 AAA
103749 TGAACACCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.60, C:0.07, G:0.16, T:0.16
Consensus pattern (20 bp):
AAAACAGGAATAAAACATTG
Found at i:103746 original size:68 final size:68
Alignment explanation
Indices: 103658--103800 Score: 214
Period size: 68 Copynumber: 2.1 Consensus size: 68
103648 CGGGAAGGGC
103658 AAAACAAGAATAAAACATTGAAAACAACACCTTCCGACCAGGAAGGGCAAAACGGGAATAAAACA
1 AAAACAAGAATAAAACATTGAAAACAACACCTTCCGACCAGGAAGGGCAAAACGGGAATAAAACA
103723 TTG
66 TTG
* * ** * * * *
103726 AAAACAGGAATAAAATATTGAAATGAACACCTTCCGACCAGGAAGTGCAAAACTGGAATAGAAGA
1 AAAACAAGAATAAAACATTGAAAACAACACCTTCCGACCAGGAAGGGCAAAACGGGAATAAAACA
103791 TTG
66 TTG
103794 AAAACAA
1 AAAACAA
103801 CGCCTTGCGG
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
68 66 1.00
ACGTcount: A:0.51, C:0.17, G:0.18, T:0.14
Consensus pattern (68 bp):
AAAACAAGAATAAAACATTGAAAACAACACCTTCCGACCAGGAAGGGCAAAACGGGAATAAAACA
TTG
Found at i:103748 original size:164 final size:162
Alignment explanation
Indices: 103562--104059 Score: 665
Period size: 164 Copynumber: 3.0 Consensus size: 162
103552 CGGGAAGGGC
* * * * *
103562 AAAACTGGAATAGAAGATTGAAAACAACGCCTTCCGGCCAGGAAGGGCAAAACATGAATAAAACA
1 AAAACAGGAATAAAACATTGAAAACAACACCTTCCGACCAGGAAGGGCAAAAC-TGAATAAAACA
*
103627 TTGAAAACAACGCCTTCCAGTCGGGAAGGGCAAAACAAGAATAAAACATTGAAAACAACACCTTC
65 TTGAAAACAACGCCTTCC-GCCGGGAAGGGCAAAACAAGAATAAAACATTGAAAACAACACCTTC
103692 CGACCAGGAAGGGCAAAACGGGAATAAAACATTG
129 CGACCAGGAAGGGCAAAACGGGAATAAAACATTG
* ** * * *
103726 AAAACAGGAATAAAATATTGAAATGAACACCTTCCGACCAGGAAGTGCAAAACTGGAATAGAAGA
1 AAAACAGGAATAAAACATTGAAAACAACACCTTCCGACCAGGAAGGGCAAAACT-GAATAAAACA
* *
103791 TTGAAAACAACGCCTTGCGGCCGGGAAGGGCAAAACAGGAATAAAACATTGAAAACAACACCTTC
65 TTGAAAACAACGCCTT-CCGCCGGGAAGGGCAAAACAAGAATAAAACATTGAAAACAACACCTTC
*
103856 CGACCGGGAAGGGCAACAA-GGGAATAAAACATTG
129 CGACCAGGAAGGGCAA-AACGGGAATAAAACATTG
* * ** * *
103890 AAAACAGGAATAAAACATTGAAAGCAACACCTTCTGACTGGGAAGGGCAAAACGGGAATAAAATA
1 AAAACAGGAATAAAACATTGAAAACAACACCTTCCGACCAGGAAGGGCAAAAC-TGAATAAAACA
* * * * *
103955 TTGATAACAACACCTTCCGACCGGGAAGGGCAAAACATGAATAAATCATTGAAAACAACATCTTC
65 TTGAAAACAACGCCTTCCG-CCGGGAAGGGCAAAACAAGAATAAAACATTGAAAACAACACCTTC
* * *
104020 CGACCTGGAAGGGCAAAACTGGAATAAAATATTG
129 CGACCAGGAAGGGCAAAACGGGAATAAAACATTG
104054 AAAACA
1 AAAACA
104060 ACACCTTCCG
Statistics
Matches: 295, Mismatches: 33, Indels: 12
0.87 0.10 0.04
Matches are distributed among these distances:
163 5 0.02
164 287 0.97
165 3 0.01
ACGTcount: A:0.45, C:0.19, G:0.21, T:0.14
Consensus pattern (162 bp):
AAAACAGGAATAAAACATTGAAAACAACACCTTCCGACCAGGAAGGGCAAAACTGAATAAAACAT
TGAAAACAACGCCTTCCGCCGGGAAGGGCAAAACAAGAATAAAACATTGAAAACAACACCTTCCG
ACCAGGAAGGGCAAAACGGGAATAAAACATTG
Found at i:103778 original size:48 final size:48
Alignment explanation
Indices: 103726--103895 Score: 216
Period size: 48 Copynumber: 3.5 Consensus size: 48
103716 TAAAACATTG
* ** * *
103726 AAAACAGGAATAAAATATTGAAATGAACACCTTCCGACCAGGAAGTGC
1 AAAACAGGAATAAAACATTGAAAACAACACCTTCCGACCGGGAAGGGC
* * * * * *
103774 AAAACTGGAATAGAAGATTGAAAACAACGCCTTGCGGCCGGGAAGGGC
1 AAAACAGGAATAAAACATTGAAAACAACACCTTCCGACCGGGAAGGGC
103822 AAAACAGGAATAAAACATTGAAAACAACACCTTCCGACCGGGAAGGGC
1 AAAACAGGAATAAAACATTGAAAACAACACCTTCCGACCGGGAAGGGC
*
103870 AACAA-GGGAATAAAACATTGAAAACA
1 AA-AACAGGAATAAAACATTGAAAACA
103896 GGAATAAAAC
Statistics
Matches: 104, Mismatches: 17, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
48 102 0.98
49 2 0.02
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.13
Consensus pattern (48 bp):
AAAACAGGAATAAAACATTGAAAACAACACCTTCCGACCGGGAAGGGC
Found at i:103785 original size:116 final size:116
Alignment explanation
Indices: 103610--103847 Score: 307
Period size: 116 Copynumber: 2.1 Consensus size: 116
103600 CAGGAAGGGC
* * * *
103610 AAAACATGAATAAAACATTGAAAACAACGCCTTCCAGTCGGGAAGGGCAAAACAAGAATAAAACA
1 AAAACAGGAATAAAACATTGAAAACAACACCTTCCAGCCAGGAAGGGCAAAACAAGAATAAAACA
*
103675 TTGAAAACAACACCTTCCGACCAGGAAGGGCAAAACGGGAATAAAACATTG
66 TTGAAAACAACACCTTCCGACCAGGAAGGGCAAAACAGGAATAAAACATTG
* ** * ** * *
103726 AAAACAGGAATAAAATATTGAAATGAACACCTTCC-GACCAGGAAGTGCAAAACTGGAATAGAAG
1 AAAACAGGAATAAAACATTGAAAACAACACCTTCCAG-CCAGGAAGGGCAAAACAAGAATAAAAC
* * * *
103790 ATTGAAAACAACGCCTTGCGGCCGGGAAGGGCAAAACAGGAATAAAACATTG
65 ATTGAAAACAACACCTTCCGACCAGGAAGGGCAAAACAGGAATAAAACATTG
103842 AAAACA
1 AAAACA
103848 ACACCTTCCG
Statistics
Matches: 104, Mismatches: 17, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
115 1 0.01
116 103 0.99
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.13
Consensus pattern (116 bp):
AAAACAGGAATAAAACATTGAAAACAACACCTTCCAGCCAGGAAGGGCAAAACAAGAATAAAACA
TTGAAAACAACACCTTCCGACCAGGAAGGGCAAAACAGGAATAAAACATTG
Found at i:103894 original size:116 final size:116
Alignment explanation
Indices: 103774--104011 Score: 327
Period size: 116 Copynumber: 2.1 Consensus size: 116
103764 CAGGAAGTGC
* * * * *
103774 AAAACTGGAATAGAAGATTGAAAACAACGCCTTGC-GGCCGGGAAGGGCAAAACAGGAATAAAAC
1 AAAACAGGAATAAAACATTGAAAACAACACCTT-CTGACCGGGAAGGGCAAAACAGGAATAAAAC
*
103838 ATTGAAAACAACACCTTCCGACCGGGAAGGGCAACAA-GGGAATAAAACATTG
65 ATTGAAAACAACACCTTCCGACCGGGAAGGGCAA-AACAGGAATAAAACATTG
* * * *
103890 AAAACAGGAATAAAACATTGAAAGCAACACCTTCTGACTGGGAAGGGCAAAACGGGAATAAAATA
1 AAAACAGGAATAAAACATTGAAAACAACACCTTCTGACCGGGAAGGGCAAAACAGGAATAAAACA
* * *
103955 TTGATAACAACACCTTCCGACCGGGAAGGGCAAAACATGAATAAATCATTG
66 TTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACAGGAATAAAACATTG
104006 AAAACA
1 AAAACA
104012 ACATCTTCCG
Statistics
Matches: 107, Mismatches: 13, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
115 3 0.03
116 104 0.97
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.14
Consensus pattern (116 bp):
AAAACAGGAATAAAACATTGAAAACAACACCTTCTGACCGGGAAGGGCAAAACAGGAATAAAACA
TTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACAGGAATAAAACATTG
Found at i:103907 original size:68 final size:68
Alignment explanation
Indices: 103822--103963 Score: 223
Period size: 68 Copynumber: 2.1 Consensus size: 68
103812 CGGGAAGGGC
103822 AAAACAGGAATAAAACATTGAAAACAACACCTTCCGACCGGGAAGGGCAACAA-GGGAATAAAAC
1 AAAACAGGAATAAAACATTGAAAACAACACCTTCCGACCGGGAAGGGCAA-AACGGGAATAAAAC
103886 ATTG
65 ATTG
* * * *
103890 AAAACAGGAATAAAACATTGAAAGCAACACCTTCTGACTGGGAAGGGCAAAACGGGAATAAAATA
1 AAAACAGGAATAAAACATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACGGGAATAAAACA
103955 TTG
66 TTG
*
103958 ATAACA
1 AAAACA
103964 ACACCTTCCG
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
67 2 0.03
68 66 0.97
ACGTcount: A:0.49, C:0.17, G:0.20, T:0.14
Consensus pattern (68 bp):
AAAACAGGAATAAAACATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACGGGAATAAAACA
TTG
Found at i:103942 original size:48 final size:48
Alignment explanation
Indices: 103890--104107 Score: 312
Period size: 48 Copynumber: 4.5 Consensus size: 48
103880 TAAAACATTG
* * *
103890 AAAACAGGAATAAAACATTGAAAGCAACACCTTCTGACTGGGAAGGGC
1 AAAACAGGAATAAAACATTGAAAACAACACCTTCCGACCGGGAAGGGC
* * *
103938 AAAACGGGAATAAAATATTGATAACAACACCTTCCGACCGGGAAGGGC
1 AAAACAGGAATAAAACATTGAAAACAACACCTTCCGACCGGGAAGGGC
* * * *
103986 AAAACATGAATAAATCATTGAAAACAACATCTTCCGACCTGGAAGGGC
1 AAAACAGGAATAAAACATTGAAAACAACACCTTCCGACCGGGAAGGGC
* *
104034 AAAACTGGAATAAAATATTGAAAACAACACCTTCCGACCGGGAAGGGC
1 AAAACAGGAATAAAACATTGAAAACAACACCTTCCGACCGGGAAGGGC
104082 AAAAC-GAGAATAAAACATTGAAAACA
1 AAAACAG-GAATAAAACATTGAAAACA
104108 TGAATAAAAC
Statistics
Matches: 149, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
47 1 0.01
48 148 0.99
ACGTcount: A:0.46, C:0.19, G:0.20, T:0.15
Consensus pattern (48 bp):
AAAACAGGAATAAAACATTGAAAACAACACCTTCCGACCGGGAAGGGC
Found at i:104014 original size:96 final size:95
Alignment explanation
Indices: 103890--104298 Score: 345
Period size: 96 Copynumber: 4.1 Consensus size: 95
103880 TAAAACATTG
* *
103890 AAAACAGGAATAAAACATTGAAAGCAACACCTTCTGA-CTGGGAAGGGCAAAACGGGAATAAAAT
1 AAAACA-GAATAAAACATTGAAAACAACACCTTCCGACCT-GGAAGGGCAAAACGGGAATAAAAT
*
103954 ATTGATAACAACACCTTCCGACCGGGAAGGGC
64 ATTGAAAACAACACCTTCCGACCGGGAAGGGC
* * *
103986 AAAACATGAATAAATCATTGAAAACAACATCTTCCGACCTGGAAGGGCAAAACTGGAATAAAATA
1 AAAACA-GAATAAAACATTGAAAACAACACCTTCCGACCTGGAAGGGCAAAACGGGAATAAAATA
104051 TTGAAAACAACACCTTCCGACCGGGAAGGGC
65 TTGAAAACAACACCTTCCGACCGGGAAGGGC
* * * ** *
104082 AAAACGAGAATAAAACATTGAAAACATGAATAAAACATTGAAAGCAAC-ACCTTCCGATCGGGAA
1 AAAAC-AGAATAAAACATTGAAAAC------AACACCTT-----C--CGACC-T-GGAAGGGCAA
104146 GGGCAAAACGGGAATAAAATATTGAAAACAACACCTTCCGACCGGGAAGGGC
50 ------AACGGGAATAAAATATTGAAAACAACACCTTCCGACCGGGAAGGGC
* * * * * * * ** *
104198 AAAACTGGAATAGAAGATTGAAAACAACGCCTTCCGGCCGGGAAAGGCAAAACAAGAATAAAACA
1 AAAAC-AGAATAAAACATTGAAAACAACACCTTCCGACCTGGAAGGGCAAAACGGGAATAAAATA
* * *
104263 TTGAAAACAACGCCTTCCGGCCGGGAAGGGT
65 TTGAAAACAACACCTTCCGACCGGGAAGGGC
104294 AAAAC
1 AAAAC
104299 TGGAATACTG
Statistics
Matches: 254, Mismatches: 35, Indels: 48
0.75 0.10 0.14
Matches are distributed among these distances:
96 153 0.60
97 3 0.01
102 11 0.04
103 1 0.00
104 2 0.01
105 1 0.00
107 1 0.00
108 3 0.01
109 2 0.01
110 11 0.04
116 66 0.26
ACGTcount: A:0.44, C:0.20, G:0.22, T:0.14
Consensus pattern (95 bp):
AAAACAGAATAAAACATTGAAAACAACACCTTCCGACCTGGAAGGGCAAAACGGGAATAAAATAT
TGAAAACAACACCTTCCGACCGGGAAGGGC
Found at i:104115 original size:164 final size:164
Alignment explanation
Indices: 103945--104271 Score: 514
Period size: 164 Copynumber: 2.0 Consensus size: 164
103935 GGCAAAACGG
* *
103945 GAATAAAATATTGATAA-CAACACCTTCCGACCGGGAAGGGCAAAACATGAAT-AAATCATTGAA
1 GAATAAAACATTGA-AAGCAACACCTTCCGACCGGGAAGGGCAAAACAGGAATAAAAT-ATTGAA
* * *
104008 AACAACATCTTCCGACCTGGAAGGGCAAAACTGGAATAAAATATTGAAAACAACACCTTCCGACC
64 AACAACACCTTCCGACCGGGAAGGGCAAAACTGGAATAAAAGATTGAAAACAACACCTTCCGACC
* *
104073 GGGAAGGGCAAAACGAGAATAAAACATTGAAAACAT
129 GGGAAAGGCAAAACAAGAATAAAACATTGAAAACAT
* *
104109 GAATAAAACATTGAAAGCAACACCTTCCGATCGGGAAGGGCAAAACGGGAATAAAATATTGAAAA
1 GAATAAAACATTGAAAGCAACACCTTCCGACCGGGAAGGGCAAAACAGGAATAAAATATTGAAAA
* * *
104174 CAACACCTTCCGACCGGGAAGGGCAAAACTGGAATAGAAGATTGAAAACAACGCCTTCCGGCCGG
66 CAACACCTTCCGACCGGGAAGGGCAAAACTGGAATAAAAGATTGAAAACAACACCTTCCGACCGG
104239 GAAAGGCAAAACAAGAATAAAACATTGAAAACA
131 GAAAGGCAAAACAAGAATAAAACATTGAAAACA
104272 ACGCCTTCCG
Statistics
Matches: 149, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
163 2 0.01
164 143 0.96
165 4 0.03
ACGTcount: A:0.46, C:0.20, G:0.20, T:0.15
Consensus pattern (164 bp):
GAATAAAACATTGAAAGCAACACCTTCCGACCGGGAAGGGCAAAACAGGAATAAAATATTGAAAA
CAACACCTTCCGACCGGGAAGGGCAAAACTGGAATAAAAGATTGAAAACAACACCTTCCGACCGG
GAAAGGCAAAACAAGAATAAAACATTGAAAACAT
Found at i:104115 original size:212 final size:212
Alignment explanation
Indices: 103256--104298 Score: 1209
Period size: 212 Copynumber: 4.9 Consensus size: 212
103246 GGGAATTGCG
* * * * * * * *
103256 AAACTGGAATAGAAGATTGAAAACAACGCCTTCCTG-CCGGGAAGGGAAAAACAGGAATAAAACA
1 AAACAGGAATAAAACATTGAAAGCAACACCTTCC-GACTGGGAAGGGCAAAACAGGAATAAAATA
* ** * *
103320 TTGAAAACAACGCCTTCCGGTCGGGAAGGGCAAAACAT-GAATA-AATCATTG-AAACAACACCT
65 TTGAAAACAACACCTTCCGACCGGGAAGGGCAAAAC-TGGAATAGAA-GATTGAAAACAACGCCT
* * *
103382 TCCGACCGGGAAGGGCAAAACTGGAATAAAATATTGAAAACAACACCTTCCGACTGGGAAGGGCA
128 TCCGGCCGGGAAGGGCAAAACTGGAATAAAACATTGAAAACAACACCTTCCGACCGGGAAGGGCA
103447 AAAC-AGGAATAAAACATTGA
193 AAACGA-GAATAAAACATTGA
* * * * * * * *
103467 AAACAGGAATAAAATATTGAAATCAACACCATCCAACCGGGAATGGCAAAACAAGAATAAAAGAT
1 AAACAGGAATAAAACATTGAAAGCAACACCTTCCGACTGGGAAGGGCAAAACAGGAATAAAATAT
*
103532 TGAAAACAATACCTTCCGACCGGGAAGGGCAAAACTGGAATAGAAGATTGAAAACAACGCCTTCC
66 TGAAAACAACACCTTCCGACCGGGAAGGGCAAAACTGGAATAGAAGATTGAAAACAACGCCTTCC
* * *
103597 GGCCAGGAAGGGCAAAACAT-GAATAAAACATTGAAAACAACGCCTTCC-AGTCGGGAAGGGCAA
131 GGCCGGGAAGGGCAAAAC-TGGAATAAAACATTGAAAACAACACCTTCCGA-CCGGGAAGGGCAA
*
103660 AACAAGAATAAAACATTGA
194 AACGAGAATAAAACATTGA
** * ** * * * * ** * *** **
103679 AAACAACACCTTCCGACCA-GGAAGGGCAA-AAC--GGGAATAAAACATTG-AAAACAGGAATAA
1 AAACAGGA--AT-AAAACATTGAA-AGCAACACCTTCCGACTGGGA-AGGGCAAAACAGGAATAA
** * *
103739 AATATTGAAATGAACACCTTCCGACCAGGAAGTGCAAAACTGGAATAGAAGATTGAAAACAACGC
61 AATATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACTGGAATAGAAGATTGAAAACAACGC
* *
103804 CTTGCGGCCGGGAAGGGCAAAACAGGAATAAAACATTGAAAACAACACCTTCCGACCGGGAAGGG
126 CTTCCGGCCGGGAAGGGCAAAACTGGAATAAAACATTGAAAACAACACCTTCCGACCGGGAAGGG
*
103869 CAACAA-GGGAATAAAACATTGA
191 CAA-AACGAGAATAAAACATTGA
* *
103891 AAACAGGAATAAAACATTGAAAGCAACACCTTCTGACTGGGAAGGGCAAAACGGGAATAAAATAT
1 AAACAGGAATAAAACATTGAAAGCAACACCTTCCGACTGGGAAGGGCAAAACAGGAATAAAATAT
* * **
103956 TGATAACAACACCTTCCGACCGGGAAGGGCAAAACAT-GAATA-AATCATTGAAAACAACATCTT
66 TGAAAACAACACCTTCCGACCGGGAAGGGCAAAAC-TGGAATAGAA-GATTGAAAACAACGCCTT
* * *
104019 CCGACCTGGAAGGGCAAAACTGGAATAAAATATTGAAAACAACACCTTCCGACCGGGAAGGGCAA
129 CCGGCCGGGAAGGGCAAAACTGGAATAAAACATTGAAAACAACACCTTCCGACCGGGAAGGGCAA
104084 AACGAGAATAAAACATTGA
194 AACGAGAATAAAACATTGA
* *
104103 AAACATGAATAAAACATTGAAAGCAACACCTTCCGA-TCGGGAAGGGCAAAACGGGAATAAAATA
1 AAACAGGAATAAAACATTGAAAGCAACACCTTCCGACT-GGGAAGGGCAAAACAGGAATAAAATA
104167 TTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACTGGAATAGAAGATTGAAAACAACGCCTTC
65 TTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACTGGAATAGAAGATTGAAAACAACGCCTTC
* ** * * *
104232 CGGCCGGGAAAGGCAAAACAAGAATAAAACATTGAAAACAACGCCTTCCGGCCGGGAAGGGTAAA
130 CGGCCGGGAAGGGCAAAACTGGAATAAAACATTGAAAACAACACCTTCCGACCGGGAAGGGCAAA
104297 AC
195 AC
104299 TGGAATACTG
Statistics
Matches: 702, Mismatches: 104, Indels: 51
0.82 0.12 0.06
Matches are distributed among these distances:
209 7 0.01
210 7 0.01
211 102 0.15
212 564 0.80
213 11 0.02
214 6 0.01
215 5 0.01
ACGTcount: A:0.45, C:0.20, G:0.22, T:0.14
Consensus pattern (212 bp):
AAACAGGAATAAAACATTGAAAGCAACACCTTCCGACTGGGAAGGGCAAAACAGGAATAAAATAT
TGAAAACAACACCTTCCGACCGGGAAGGGCAAAACTGGAATAGAAGATTGAAAACAACGCCTTCC
GGCCGGGAAGGGCAAAACTGGAATAAAACATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAA
CGAGAATAAAACATTGA
Found at i:104122 original size:68 final size:68
Alignment explanation
Indices: 104041--104175 Score: 225
Period size: 68 Copynumber: 2.0 Consensus size: 68
104031 GGCAAAACTG
*
104041 GAATAAAATATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACGAGAATAAAACATTGAAAA
1 GAATAAAACATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACGAGAATAAAACATTGAAAA
104106 CAT
66 CAT
* * * *
104109 GAATAAAACATTGAAAGCAACACCTTCCGATCGGGAAGGGCAAAACGGGAATAAAATATTGAAAA
1 GAATAAAACATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACGAGAATAAAACATTGAAAA
104174 CA
66 CA
104176 ACACCTTCCG
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
68 62 1.00
ACGTcount: A:0.49, C:0.17, G:0.19, T:0.15
Consensus pattern (68 bp):
GAATAAAACATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACGAGAATAAAACATTGAAAA
CAT
Found at i:104146 original size:116 final size:116
Alignment explanation
Indices: 103986--104223 Score: 388
Period size: 116 Copynumber: 2.1 Consensus size: 116
103976 CGGGAAGGGC
* * * *
103986 AAAACATGAATAAATCATTGAAAACAACATCTTCCGACCTGGAAGGGCAAAACTGGAATAAAATA
1 AAAACATGAATAAAACATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACGGGAATAAAATA
104051 TTGAAAACAACACCTTCCGACCGGGAAGGGCAAAAC-GAGAATAAAACATTG
66 TTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACTG-GAATAAAACATTG
* *
104102 AAAACATGAATAAAACATTGAAAGCAACACCTTCCGATCGGGAAGGGCAAAACGGGAATAAAATA
1 AAAACATGAATAAAACATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACGGGAATAAAATA
* *
104167 TTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACTGGAATAGAAGATTG
66 TTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACTGGAATAAAACATTG
104218 AAAACA
1 AAAACA
104224 ACGCCTTCCG
Statistics
Matches: 113, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
116 112 0.99
117 1 0.01
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (116 bp):
AAAACATGAATAAAACATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACGGGAATAAAATA
TTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACTGGAATAAAACATTG
Found at i:104305 original size:48 final size:48
Alignment explanation
Indices: 104109--104305 Score: 268
Period size: 48 Copynumber: 4.1 Consensus size: 48
104099 TTGAAAACAT
* * *
104109 GAATAAAACATTGAAAGCAACACCTTCCGATCGGGAAGGGCAAAACGG
1 GAATAAAACATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACTG
*
104157 GAATAAAATATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACTG
1 GAATAAAACATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACTG
* * * * * **
104205 GAATAGAAGATTGAAAACAACGCCTTCCGGCCGGGAAAGGCAAAACAA
1 GAATAAAACATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACTG
* * *
104253 GAATAAAACATTGAAAACAACGCCTTCCGGCCGGGAAGGGTAAAACTG
1 GAATAAAACATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACTG
104301 GAATA
1 GAATA
104306 CTGAAGAAAA
Statistics
Matches: 132, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 132 1.00
ACGTcount: A:0.43, C:0.20, G:0.24, T:0.13
Consensus pattern (48 bp):
GAATAAAACATTGAAAACAACACCTTCCGACCGGGAAGGGCAAAACTG
Found at i:105103 original size:50 final size:50
Alignment explanation
Indices: 104938--105646 Score: 1053
Period size: 50 Copynumber: 14.1 Consensus size: 50
104928 ATATTCCCTT
* * * * * *
104938 TTTATTTAGAAATTGCTTAGAATGTTTACTCTTTTAATAAAAAAATCCAATC
1 TTTATTTACAAATTTCTTA-AAAGTTCAATCTTTTAAT-TAAAAATCCAATC
* * *
104990 TTTATTTACAAATTTCTTAAAAATTCAATCTTTTAACATAAAAATCCAATT
1 TTTATTTACAAATTTCTTAAAAGTTCAATCTTTTAA-TTAAAAATCCAATC
*
105041 TTTATTCACAAATTTCTTAAAAGTTCAATCTTTTAATTAAAAATCCAATC
1 TTTATTTACAAATTTCTTAAAAGTTCAATCTTTTAATTAAAAATCCAATC
* *
105091 TTTATTTACAAATTTCTTAAAAGTTCAATCCTTTAGCA-TAAAAATCCAATT
1 TTTATTTACAAATTTCTTAAAAGTTCAATCTTTTA--ATTAAAAATCCAATC
*
105142 TTTATTCACAAATTTCTTAAAAGTTCAATCTTTTAATTAAAAATCCAATC
1 TTTATTTACAAATTTCTTAAAAGTTCAATCTTTTAATTAAAAATCCAATC
* * ** *
105192 TTTATTTACAAATTCCTTAAAGGTTTGATCTTTTAATTAATAATCCAATC
1 TTTATTTACAAATTTCTTAAAAGTTCAATCTTTTAATTAAAAATCCAATC
* * *
105242 TTTATTTACGAATCTCCTAAAAGTTCAATCTTTTAATTAAAAATCCAATC
1 TTTATTTACAAATTTCTTAAAAGTTCAATCTTTTAATTAAAAATCCAATC
* * * *
105292 TTTATTTACAAATTTCTTAAAAATTCAATCATTTAACATAAAAATCCAATT
1 TTTATTTACAAATTTCTTAAAAGTTCAATCTTTTAA-TTAAAAATCCAATC
*
105343 TTTATTTACGAATTTCTTAAAAGTTCAATCTTTTAATTAAAAATCCAATC
1 TTTATTTACAAATTTCTTAAAAGTTCAATCTTTTAATTAAAAATCCAATC
105393 TTTATTTACAAATTTCTTAAAAGTTCAATCTTTTAATTAAAAATCCAATC
1 TTTATTTACAAATTTCTTAAAAGTTCAATCTTTTAATTAAAAATCCAATC
* *
105443 TTTATTTA-AAACTTTCTTAAAAGTTCAATCTTTTAATTAAAAGTCCAATA
1 TTTATTTACAAA-TTTCTTAAAAGTTCAATCTTTTAATTAAAAATCCAATC
*
105493 TTTATTTACAAATTTCTTAAAAGTTCAATCTTTTAATTAAAAGTCCAATC
1 TTTATTTACAAATTTCTTAAAAGTTCAATCTTTTAATTAAAAATCCAATC
*
105543 TTTATTTACAAATTTCTTAAAAGTTCAATCTTTTAATTAAAAGTCCAATC
1 TTTATTTACAAATTTCTTAAAAGTTCAATCTTTTAATTAAAAATCCAATC
* *
105593 TTTATTTACAAATTTCTTAAAAGTTCAATCTTTTAATTAAAAGTCTAATC
1 TTTATTTACAAATTTCTTAAAAGTTCAATCTTTTAATTAAAAATCCAATC
105643 TTTA
1 TTTA
105647 ACTCAAAGGT
Statistics
Matches: 600, Mismatches: 50, Indels: 16
0.90 0.08 0.02
Matches are distributed among these distances:
49 4 0.01
50 427 0.71
51 151 0.25
52 18 0.03
ACGTcount: A:0.39, C:0.14, G:0.03, T:0.43
Consensus pattern (50 bp):
TTTATTTACAAATTTCTTAAAAGTTCAATCTTTTAATTAAAAATCCAATC
Found at i:105285 original size:201 final size:200
Alignment explanation
Indices: 104936--105646 Score: 1075
Period size: 201 Copynumber: 3.5 Consensus size: 200
104926 AAATATTCCC
* * * * * *
104936 TTTTTATTTAGAAATTGCTTAGAATGTTTACTCTTTTAATAAAAAAATCCAATCTTTATTTACAA
1 TTTTTATTTACAAATTTCTTA-AAAGTTCAATCTTTTAAT-TAAAAATCCAATCTTTATTTACAA
* * * *
105001 ATTTCTTAAAAATTCAATCTTTTAACATAAAAATCCAATTTTTATTCACAAATTTCTTAAAAGTT
64 ATTTCTTAAAAGTTCAATCTTTTAA-TTAAAAATCCAATCTTTATTTACAAATTTCTTAAAAGTT
*
105066 CAATCTTTTAATTAAAAATCCAATCTTTATTTACAAATTTCTTAAAAGTTCAATCCTTTAGCATA
128 CAATCTTTTAATTAAAAATCCAATCTTTATTTACAAATTTCTTAAAAGTTCAATCATTTA-CATA
105131 AAAATCCAA
192 AAAATCCAA
*
105140 TTTTTATTCACAAATTTCTTAAAAGTTCAATCTTTTAATTAAAAATCCAATCTTTATTTACAAAT
1 TTTTTATTTACAAATTTCTTAAAAGTTCAATCTTTTAATTAAAAATCCAATCTTTATTTACAAAT
* * ** * * * *
105205 TCCTTAAAGGTTTGATCTTTTAATTAATAATCCAATCTTTATTTACGAATCTCCTAAAAGTTCAA
66 TTCTTAAAAGTTCAATCTTTTAATTAAAAATCCAATCTTTATTTACAAATTTCTTAAAAGTTCAA
*
105270 TCTTTTAATTAAAAATCCAATCTTTATTTACAAATTTCTTAAAAATTCAATCATTTAACATAAAA
131 TCTTTTAATTAAAAATCCAATCTTTATTTACAAATTTCTTAAAAGTTCAATCATTT-ACATAAAA
105335 ATCCAA
195 ATCCAA
*
105341 TTTTTATTTACGAATTTCTTAAAAGTTCAATCTTTTAATTAAAAATCCAATCTTTATTTACAAAT
1 TTTTTATTTACAAATTTCTTAAAAGTTCAATCTTTTAATTAAAAATCCAATCTTTATTTACAAAT
105406 TTCTTAAAAGTTCAATCTTTTAATTAAAAATCCAATCTTTATTTA-AAACTTTCTTAAAAGTTCA
66 TTCTTAAAAGTTCAATCTTTTAATTAAAAATCCAATCTTTATTTACAAA-TTTCTTAAAAGTTCA
* * *
105470 ATCTTTTAATTAAAAGTCCAATATTTATTTACAAATTTCTTAAAAGTTCAATCTTTTA-ATTAAA
130 ATCTTTTAATTAAAAATCCAATCTTTATTTACAAATTTCTTAAAAGTTCAATCATTTACA-TAAA
*
105534 AGTCCAA
194 AATCCAA
* *
105541 TCTTTATTTACAAATTTCTTAAAAGTTCAATCTTTTAATTAAAAGTCCAATCTTTATTTACAAAT
1 TTTTTATTTACAAATTTCTTAAAAGTTCAATCTTTTAATTAAAAATCCAATCTTTATTTACAAAT
* *
105606 TTCTTAAAAGTTCAATCTTTTAATTAAAAGTCTAATCTTTA
66 TTCTTAAAAGTTCAATCTTTTAATTAAAAATCCAATCTTTA
105647 ACTCAAAGGT
Statistics
Matches: 463, Mismatches: 41, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
199 1 0.00
200 114 0.25
201 271 0.59
202 44 0.10
203 15 0.03
204 18 0.04
ACGTcount: A:0.39, C:0.14, G:0.03, T:0.43
Consensus pattern (200 bp):
TTTTTATTTACAAATTTCTTAAAAGTTCAATCTTTTAATTAAAAATCCAATCTTTATTTACAAAT
TTCTTAAAAGTTCAATCTTTTAATTAAAAATCCAATCTTTATTTACAAATTTCTTAAAAGTTCAA
TCTTTTAATTAAAAATCCAATCTTTATTTACAAATTTCTTAAAAGTTCAATCATTTACATAAAAA
TCCAA
Found at i:105514 original size:30 final size:30
Alignment explanation
Indices: 105479--105621 Score: 83
Period size: 30 Copynumber: 5.4 Consensus size: 30
105469 AATCTTTTAA
105479 TTAAAAGTCCAATATTTATTTACAAATTTC
1 TTAAAAGTCCAATATTTATTTACAAATTTC
* *
105509 TTAAAAGTTC-A-ATCT-TTT---AA----
1 TTAAAAGTCCAATATTTATTTACAAATTTC
*
105529 TTAAAAGTCCAATCTTTATTTACAAATTTC
1 TTAAAAGTCCAATATTTATTTACAAATTTC
* *
105559 TTAAAAGTTC-A-ATCT-TTT---AA----
1 TTAAAAGTCCAATATTTATTTACAAATTTC
*
105579 TTAAAAGTCCAATCTTTATTTACAAATTTC
1 TTAAAAGTCCAATATTTATTTACAAATTTC
*
105609 TTAAAAGTTCAAT
1 TTAAAAGTCCAAT
105622 CTTTTAATTA
Statistics
Matches: 81, Mismatches: 12, Indels: 40
0.61 0.09 0.30
Matches are distributed among these distances:
20 18 0.22
21 2 0.02
22 4 0.05
23 6 0.07
24 4 0.05
26 4 0.05
27 6 0.07
28 5 0.06
29 2 0.02
30 30 0.37
ACGTcount: A:0.39, C:0.13, G:0.04, T:0.43
Consensus pattern (30 bp):
TTAAAAGTCCAATATTTATTTACAAATTTC
Found at i:105534 original size:20 final size:20
Alignment explanation
Indices: 105509--105595 Score: 66
Period size: 20 Copynumber: 3.9 Consensus size: 20
105499 TACAAATTTC
*
105509 TTAAAAGTTCAATCTTTTAA
1 TTAAAAGTCCAATCTTTTAA
105529 TTAAAAGTCCAATCTTTATTTACAAA
1 TTAAAAGTCCAATC--T-TTT---AA
*
105555 TTTCTTAAAAGTTCAATCTTTTAA
1 ----TTAAAAGTCCAATCTTTTAA
105579 TTAAAAGTCCAATCTTT
1 TTAAAAGTCCAATCTTT
105596 ATTTACAAAT
Statistics
Matches: 54, Mismatches: 3, Indels: 20
0.70 0.04 0.26
Matches are distributed among these distances:
20 29 0.54
22 1 0.02
23 3 0.06
24 2 0.04
26 2 0.04
27 3 0.06
28 1 0.02
30 13 0.24
ACGTcount: A:0.38, C:0.14, G:0.05, T:0.44
Consensus pattern (20 bp):
TTAAAAGTCCAATCTTTTAA
Found at i:108112 original size:10 final size:9
Alignment explanation
Indices: 108088--108145 Score: 50
Period size: 10 Copynumber: 6.4 Consensus size: 9
108078 ATTTTTTACC
*
108088 CTTATCTTT
1 CTTATTTTT
108097 -TTATTTTT
1 CTTATTTTT
108105 CGTTATTTTT
1 C-TTATTTTT
108115 CTT-TTTCTT
1 CTTATTT-TT
108124 -TTATTTTT
1 CTTATTTTT
*
108132 GTTTATTTTT
1 -CTTATTTTT
108142 CTTA
1 CTTA
108146 GTCACTTTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
8 14 0.34
9 10 0.24
10 17 0.41
ACGTcount: A:0.10, C:0.10, G:0.03, T:0.76
Consensus pattern (9 bp):
CTTATTTTT
Found at i:108113 original size:16 final size:17
Alignment explanation
Indices: 108094--108131 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
108084 TACCCTTATC
108094 TTTTTATTTTTC-GTTA
1 TTTTTATTTTTCTGTTA
* *
108110 TTTTTCTTTTTCTTTTA
1 TTTTTATTTTTCTGTTA
108127 TTTTT
1 TTTTT
108132 GTTTATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.08, C:0.08, G:0.03, T:0.82
Consensus pattern (17 bp):
TTTTTATTTTTCTGTTA
Found at i:118745 original size:25 final size:25
Alignment explanation
Indices: 118717--118807 Score: 137
Period size: 25 Copynumber: 3.6 Consensus size: 25
118707 TAGCCTATGT
*
118717 GTTTTCTAAACGCAAGCACAGGCTC
1 GTTTGCTAAACGCAAGCACAGGCTC
*
118742 GTTTGCTAAACGCTAGCACAGGCTC
1 GTTTGCTAAACGCAAGCACAGGCTC
*
118767 GTTTGCTAAACGCAAGCACAGACTC
1 GTTTGCTAAACGCAAGCACAGGCTC
* *
118792 GTTTTCCAAACGCAAG
1 GTTTGCTAAACGCAAG
118808 AACATGAGTC
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 60 1.00
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (25 bp):
GTTTGCTAAACGCAAGCACAGGCTC
Found at i:120284 original size:27 final size:27
Alignment explanation
Indices: 120244--120357 Score: 219
Period size: 27 Copynumber: 4.2 Consensus size: 27
120234 GGCGCCACCG
*
120244 CAAGTGGCTACGCTTCATCCGCAACCC
1 CAAGTGGCTGCGCTTCATCCGCAACCC
120271 CAAGTGGCTGCGCTTCATCCGCAACCC
1 CAAGTGGCTGCGCTTCATCCGCAACCC
120298 CAAGTGGCTGCGCTTCATCCGCAACCC
1 CAAGTGGCTGCGCTTCATCCGCAACCC
120325 CAAGTGGCTGCGCTTCATCCGCAACCC
1 CAAGTGGCTGCGCTTCATCCGCAACCC
120352 CAAGTG
1 CAAGTG
120358 AATGGCCGCT
Statistics
Matches: 86, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
27 86 1.00
ACGTcount: A:0.20, C:0.39, G:0.22, T:0.18
Consensus pattern (27 bp):
CAAGTGGCTGCGCTTCATCCGCAACCC
Found at i:120455 original size:33 final size:33
Alignment explanation
Indices: 120418--120484 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
120408 AAAATTGGCA
*
120418 CCGTTTCATAAACAACCGTTGCAAAAACATCAT
1 CCGTTTCAGAAACAACCGTTGCAAAAACATCAT
*
120451 CCGTTTCAGAAACAACCGTTGCAGAAACATCAT
1 CCGTTTCAGAAACAACCGTTGCAAAAACATCAT
120484 C
1 C
120485 TGGTGCAGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.37, C:0.28, G:0.12, T:0.22
Consensus pattern (33 bp):
CCGTTTCAGAAACAACCGTTGCAAAAACATCAT
Found at i:120475 original size:15 final size:15
Alignment explanation
Indices: 120417--120479 Score: 63
Period size: 15 Copynumber: 4.0 Consensus size: 15
120407 AAAAATTGGC
* *
120417 ACCGTTTCATAAACA
1 ACCGTTGCAGAAACA
*
120432 ACCGTTGCAAAAACA
1 ACCGTTGCAGAAACA
*
120447 TCATCCGTTTCAGAAACA
1 --A-CCGTTGCAGAAACA
120465 ACCGTTGCAGAAACA
1 ACCGTTGCAGAAACA
120480 TCATCTGGTG
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
15 26 0.65
16 1 0.03
17 1 0.03
18 12 0.30
ACGTcount: A:0.40, C:0.27, G:0.13, T:0.21
Consensus pattern (15 bp):
ACCGTTGCAGAAACA
Found at i:120494 original size:33 final size:33
Alignment explanation
Indices: 120427--120495 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
120417 ACCGTTTCAT
* *
120427 AAACAACCGTTGCAAAAACATCATCCGTTTCAG
1 AAACAACCGTTGCAAAAACATCATCCGGTGCAG
* *
120460 AAACAACCGTTGCAGAAACATCATCTGGTGCAG
1 AAACAACCGTTGCAAAAACATCATCCGGTGCAG
120493 AAA
1 AAA
120496 ATTACAAATG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.41, C:0.25, G:0.16, T:0.19
Consensus pattern (33 bp):
AAACAACCGTTGCAAAAACATCATCCGGTGCAG
Done.