Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008465.1 Hibiscus syriacus cultivar Beakdansim tig00111278_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 924357
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
File 4 of 5
Found at i:616368 original size:24 final size:23
Alignment explanation
Indices: 616336--616386 Score: 93
Period size: 24 Copynumber: 2.2 Consensus size: 23
616326 GGAATCGATA
616336 CCCCCTTGAAGGGGAACCGATTC
1 CCCCCTTGAAGGGGAACCGATTC
616359 CCCCCTTTGAAGGGGAACCGATTC
1 CCCCC-TTGAAGGGGAACCGATTC
616383 CCCC
1 CCCC
616387 TGTAAGGGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 5 0.19
24 22 0.81
ACGTcount: A:0.20, C:0.39, G:0.24, T:0.18
Consensus pattern (23 bp):
CCCCCTTGAAGGGGAACCGATTC
Found at i:625210 original size:32 final size:33
Alignment explanation
Indices: 625164--625226 Score: 94
Period size: 32 Copynumber: 1.9 Consensus size: 33
625154 TAAATTTCAG
625164 AAAAGAAAAATAAAAAAAT-ATAAA-AAAAGTT
1 AAAAGAAAAATAAAAAAATAATAAATAAAAGTT
*
625195 AAAAGAAAAAATAAAATAATAATAAATAAAAG
1 AAAAG-AAAAATAAAAAAATAATAAATAAAAG
625227 GGAAATATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 5 0.18
32 13 0.46
33 5 0.18
34 5 0.18
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.16
Consensus pattern (33 bp):
AAAAGAAAAATAAAAAAATAATAAATAAAAGTT
Found at i:625316 original size:18 final size:18
Alignment explanation
Indices: 625295--625337 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
625285 GTTATTTTTA
* *
625295 AAATAAAAGATAAGATTT
1 AAATAAAAGAAAAGAATT
*
625313 AAATAAAAGAAAATAATT
1 AAATAAAAGAAAAGAATT
625331 AAATAAA
1 AAATAAA
625338 TAATCTAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (18 bp):
AAATAAAAGAAAAGAATT
Found at i:626247 original size:14 final size:13
Alignment explanation
Indices: 626228--626258 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
626218 TAACAAAATG
626228 AATAAATAAATGAA
1 AATAAATAAAT-AA
626242 AATAAATAAATAA
1 AATAAATAAATAA
626255 AATA
1 AATA
626259 GCATTATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (13 bp):
AATAAATAAATAA
Found at i:626345 original size:22 final size:23
Alignment explanation
Indices: 626304--626346 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
626294 CAAAAAATGC
* *
626304 TTTCAAAACCATATATTATATAT
1 TTTCAAAAACATATACTATATAT
626327 TTTCAAAAAC-TATACTATAT
1 TTTCAAAAACATATACTATAT
626347 TGATACATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.44, C:0.14, G:0.00, T:0.42
Consensus pattern (23 bp):
TTTCAAAAACATATACTATATAT
Found at i:626730 original size:4 final size:4
Alignment explanation
Indices: 626721--626751 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
626711 TGTACAATGT
626721 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
626752 TAAACTATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:627898 original size:20 final size:18
Alignment explanation
Indices: 627863--627900 Score: 58
Period size: 20 Copynumber: 2.0 Consensus size: 18
627853 TTTATTTATT
627863 TATTTTTTTAAAAAATAA
1 TATTTTTTTAAAAAATAA
627881 TATTTTTATTATAAAAATAA
1 TATTTTT-TTA-AAAAATAA
627901 AAAATATAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
19 3 0.17
20 8 0.44
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TATTTTTTTAAAAAATAA
Found at i:628524 original size:15 final size:15
Alignment explanation
Indices: 628504--628552 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
628494 AATAAGAAAT
628504 AATAAATAAATATTA
1 AATAAATAAATATTA
628519 AATAAATCAAATA-TA
1 AATAAAT-AAATATTA
* *
628534 TATATATATAATATTA
1 AATAAATA-AATATTA
628550 AAT
1 AAT
628553 GAATCAAAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 1 0.04
15 18 0.64
16 9 0.32
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (15 bp):
AATAAATAAATATTA
Found at i:628624 original size:29 final size:30
Alignment explanation
Indices: 628592--628649 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 30
628582 TAAATTCTAA
*
628592 AAGTAATAAAATAAAATAAA-AATAATAAG
1 AAGTAAAAAAATAAAATAAATAATAATAAG
628621 AAGTAAAAAAATAAAATAAATAATAATAA
1 AAGTAAAAAAATAAAATAAATAATAATAA
628650 AAAATGCTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 19 0.70
30 8 0.30
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (30 bp):
AAGTAAAAAAATAAAATAAATAATAATAAG
Found at i:628636 original size:23 final size:24
Alignment explanation
Indices: 628604--628653 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 24
628594 GTAATAAAAT
628604 AAAATAAAAAT-AATAAGAAGTAAA
1 AAAATAAAAATAAATAAGAA-TAAA
*
628628 AAAAT-AAAATAAATAATAATAAA
1 AAAATAAAAATAAATAAGAATAAA
628651 AAA
1 AAA
628654 TGCTAAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 12 0.50
24 12 0.50
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (24 bp):
AAAATAAAAATAAATAAGAATAAA
Found at i:628636 original size:24 final size:23
Alignment explanation
Indices: 628604--628653 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 23
628594 GTAATAAAAT
628604 AAAATAAAA-ATAATAAGAAGTAAA
1 AAAATAAAATA-AATAAGAA-TAAA
*
628628 AAAATAAAATAAATAATAATAAA
1 AAAATAAAATAAATAAGAATAAA
628651 AAA
1 AAA
628654 TGCTAAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 7 0.29
24 16 0.67
25 1 0.04
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (23 bp):
AAAATAAAATAAATAAGAATAAA
Found at i:628639 original size:39 final size:39
Alignment explanation
Indices: 628600--628675 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 39
628590 AAAAGTAATA
628600 AAATAA-AAT-AAAAATAATAAGAAGTAAAAAAATAAAAT
1 AAATAATAATAAAAAATAATAA-AAGTAAAAAAATAAAAT
** *
628638 AAATAATAATAAAAAATGCTAAAATTAAAAAAATAAAA
1 AAATAATAATAAAAAATAATAAAAGTAAAAAAATAAAA
628676 CCAACTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
38 6 0.18
39 18 0.55
40 9 0.27
ACGTcount: A:0.75, C:0.01, G:0.04, T:0.20
Consensus pattern (39 bp):
AAATAATAATAAAAAATAATAAAAGTAAAAAAATAAAAT
Found at i:628662 original size:30 final size:30
Alignment explanation
Indices: 628590--628673 Score: 91
Period size: 30 Copynumber: 2.8 Consensus size: 30
628580 GTTAAATTCT
*
628590 AAAAGTAATAAAATAAAATAAA-AATAATA
1 AAAAATAATAAAATAAAATAAATAATAATA
* * *
628619 AGAAGTAAAAAAATAAAATAAATAATAATA
1 AAAAATAATAAAATAAAATAAATAATAATA
**
628649 AAAAATGCTAAAATTAAAA-AAATAA
1 AAAAATAATAAAA-TAAAATAAATAA
628674 AACCAACTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
29 20 0.43
30 21 0.46
31 5 0.11
ACGTcount: A:0.74, C:0.01, G:0.05, T:0.20
Consensus pattern (30 bp):
AAAAATAATAAAATAAAATAAATAATAATA
Found at i:629340 original size:3 final size:3
Alignment explanation
Indices: 629322--629364 Score: 54
Period size: 3 Copynumber: 14.3 Consensus size: 3
629312 GGCTTACAAA
629322 AAT AAT AA- AAT AAAT AAT AAT AAT AAT AAAT AAT AAT AA- AAT A
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT A
629365 TTTTTGTAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
2 4 0.11
3 26 0.72
4 6 0.17
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:629351 original size:16 final size:15
Alignment explanation
Indices: 629322--629364 Score: 77
Period size: 16 Copynumber: 2.8 Consensus size: 15
629312 GGCTTACAAA
629322 AATAATAAAATAAAT
1 AATAATAAAATAAAT
629337 AATAATAATAATAAAT
1 AATAATAA-AATAAAT
629353 AATAATAAAATA
1 AATAATAAAATA
629365 TTTTTGTAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
15 12 0.44
16 15 0.56
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
AATAATAAAATAAAT
Found at i:629353 original size:10 final size:10
Alignment explanation
Indices: 629322--629361 Score: 55
Period size: 10 Copynumber: 3.9 Consensus size: 10
629312 GGCTTACAAA
629322 AATAATAAAAT
1 AATAAT-AAAT
629333 AAATAAT-AAT
1 -AATAATAAAT
629343 AATAATAAAT
1 AATAATAAAT
629353 AATAATAAA
1 AATAATAAA
629362 ATATTTTTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 6 0.22
10 15 0.56
12 6 0.22
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
AATAATAAAT
Found at i:629986 original size:14 final size:14
Alignment explanation
Indices: 629967--630002 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
629957 GTAGTTATTT
*
629967 GTTGATGCAACGCG
1 GTTGATACAACGCG
629981 GTTGATACAACGCG
1 GTTGATACAACGCG
*
629995 GCTGATAC
1 GTTGATAC
630003 GCCCTCGAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.25, C:0.22, G:0.31, T:0.22
Consensus pattern (14 bp):
GTTGATACAACGCG
Found at i:630535 original size:124 final size:124
Alignment explanation
Indices: 630320--631254 Score: 1408
Period size: 124 Copynumber: 7.6 Consensus size: 124
630310 CCCTTCACTA
* ** * *
630320 TGAAGTTGAGCTTTGAATTGGATATAATTCGTTGTGAAGTT-AAATCCAATCTAAAGATGGATGT
1 TGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGT
** *
630384 TGCTGGTGGGCACGATGCCCTTCGTCGTGAAGTTGAAATCGTGGATGACCCCTTCATTG
66 TGCTGGTGGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGACCCCTTCGTTG
* * * * *
630443 TGAAGTTAAACCTTGAATTGGATATTCTTCATCGTGAAGTTAAAATCCAATCTAAAGATGAATGT
1 TGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGT
* *
630508 TGCTGGTGGGCACGATATCCTTAGTCGTGAAGTTGAAATCGTGGATGACCTCTTCGTTG
66 TGCTGGTGGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGACCCCTTCGTTG
*
630567 TGAAGTTGAGCCTTGAATTGGATATCATTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGT
1 TGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGT
* * * * * *
630632 TGCTGGTGGGCACGATATTCGTCATCATGAAATTGAAATCGTGGATGGCCCCTTCGTTG
66 TGCTGGTGGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGACCCCTTCGTTG
* *
630691 TGAAGTTGAGCATTGAATTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTAAAGATGAATGT
1 TGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGT
* * * * *
630756 TGCTGGT-GGCACGATATACTTCGTCGTGAAGTTAAAATCGTGGATGGCCCATTCGTTA
66 TGCTGGTGGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGACCCCTTCGTTG
630814 TGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGT
1 TGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGT
* ** * *
630879 TGCTGGTGGGCACGATATCCTTCTTCAAGAAGTTGAAATCGTGGATGGCCCCTTTGTTG
66 TGCTGGTGGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGACCCCTTCGTTG
* * *
630938 TGAAGTTGAGCCCTGAATTGGATATTCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGATTGT
1 TGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGT
* * *
631003 TGCTGGTGGGCATGATATCCTTCGTCGTGAAGTTGAAATCGTAGATGACCCCTTCGTTA
66 TGCTGGTGGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGACCCCTTCGTTG
* * * * *
631062 TGAAGTTGAGCCTTGAATTGAATATCCTTCATCGTGAAGTTGAAATCCAATCTAAATATAAATGG
1 TGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGT
*
631127 TG-TCGGTGGGCCCGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGACCCCTTCGTTG
66 TGCT-GGTGGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGACCCCTTCGTTG
* *
631186 TAAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCTAATCTAAAGATGAATGT
1 TGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGT
631251 TGCT
66 TGCT
631255 TCGAGTTCAA
Statistics
Matches: 730, Mismatches: 78, Indels: 6
0.90 0.10 0.01
Matches are distributed among these distances:
123 148 0.20
124 581 0.80
125 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.33
Consensus pattern (124 bp):
TGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGT
TGCTGGTGGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGACCCCTTCGTTG
Found at i:630991 original size:371 final size:372
Alignment explanation
Indices: 630309--631254 Score: 1423
Period size: 371 Copynumber: 2.5 Consensus size: 372
630299 TTGACATATG
** * **
630309 CCCCTTCACTATGAAGTTGAGCTTTGAATTGGATATAATTCGTTGTGAAGTT-AAATCCAATCTA
1 CCCCTTCGTTATGAAGTTGAGCATTGAATTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTA
* **
630373 AAGATGGATGTTGCTGGTGGGCACGATGCCCTTCGTCGTGAAGTTGAAATCGTGGATGACCCCTT
66 AAGATGAATGTTGCTGGTGGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGACCCCTT
* * * * * *
630438 CATTGTGAAGTTAAACCTTGAATTGGATATTCTTCATCGTGAAGTTAAAATCCAATCTAAAGATG
131 CGTTGTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATG
** *
630503 AATGTTGCTGGTGGGCACGATATCCTTAGTCGTGAAGTTGAAATCGTGGATGACCTCTTCGTTGT
196 AATGTTGCTGGTGGGCACGATATCCTTAGTCAAGAAGTTGAAATCGTGGATGACCCCTTCGTTGT
*
630568 GAAGTTGAGCCTTGAATTGGATATCATTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTT
261 GAAGTTGAGCCCTGAATTGGATATCATTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTT
* * *
630633 GCTGGTGGGCACGATATTCGTCATCATGAAATTGAAATCGTGGATGG
326 GCTGGTGGGCACGATATCCGTCATCATGAAATTGAAATCGTAGATGA
*
630680 CCCCTTCGTTGTGAAGTTGAGCATTGAATTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTA
1 CCCCTTCGTTATGAAGTTGAGCATTGAATTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTA
* * * *
630745 AAGATGAATGTTGCTGGT-GGCACGATATACTTCGTCGTGAAGTTAAAATCGTGGATGGCCCATT
66 AAGATGAATGTTGCTGGTGGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGACCCCTT
*
630809 CGTTATGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATG
131 CGTTGTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATG
** * *
630874 AATGTTGCTGGTGGGCACGATATCCTTCTTCAAGAAGTTGAAATCGTGGATGGCCCCTTTGTTGT
196 AATGTTGCTGGTGGGCACGATATCCTTAGTCAAGAAGTTGAAATCGTGGATGACCCCTTCGTTGT
*
630939 GAAGTTGAGCCCTGAATTGGATATTC-TTCGTCGTGAAGTTGAAATCCAATCTAAAGATGATTGT
261 GAAGTTGAGCCCTGAATTGGATA-TCATTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGT
* * * * *
631003 TGCTGGTGGGCATGATATCCTTCGTCGTGAAGTTGAAATCGTAGATGA
325 TGCTGGTGGGCACGATATCCGTCATCATGAAATTGAAATCGTAGATGA
* * * *
631051 CCCCTTCGTTATGAAGTTGAGCCTTGAATTGAATATCCTTCATCGTGAAGTTGAAATCCAATCTA
1 CCCCTTCGTTATGAAGTTGAGCATTGAATTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTA
* * * *
631116 AATATAAATGGTG-TCGGTGGGCCCGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGACCCCT
66 AAGATGAATGTTGCT-GGTGGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGACCCCT
* *
631180 TCGTTGTAAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCTAATCTAAAGAT
130 TCGTTGTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGAT
631245 GAATGTTGCT
195 GAATGTTGCT
631255 TCGAGTTCAA
Statistics
Matches: 518, Mismatches: 53, Indels: 7
0.90 0.09 0.01
Matches are distributed among these distances:
370 1 0.00
371 374 0.72
372 143 0.28
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.32
Consensus pattern (372 bp):
CCCCTTCGTTATGAAGTTGAGCATTGAATTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTA
AAGATGAATGTTGCTGGTGGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGACCCCTT
CGTTGTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATG
AATGTTGCTGGTGGGCACGATATCCTTAGTCAAGAAGTTGAAATCGTGGATGACCCCTTCGTTGT
GAAGTTGAGCCCTGAATTGGATATCATTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTT
GCTGGTGGGCACGATATCCGTCATCATGAAATTGAAATCGTAGATGA
Found at i:632655 original size:95 final size:94
Alignment explanation
Indices: 632469--632668 Score: 355
Period size: 95 Copynumber: 2.1 Consensus size: 94
632459 GGACAGCTTA
* *
632469 ATATTATAATCACCTTTATTAGGCTAGCTGAATATTATCCATAAAGCTGGGTGTTTAACCAATTG
1 ATATTATAATCACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCGGGGTGTTTAACCAATTG
632534 CTTTAGAGGGACAACTCAAGCTTTATTGT
66 CTTTAGAGGGACAACTCAAGCTTTATTGT
*
632563 ATATTATAATCACCTTTATCAGGCTAGCTGAATCTTATCCATAAAGTCGGGGTGTTTAACCAATT
1 ATATTATAATCACCTTTATCAGGCTAGCTGAATATTATCCATAAAG-CGGGGTGTTTAACCAATT
632628 GCTTTAGAGGGACAACTCAAGCTTTATTGT
65 GCTTTAGAGGGACAACTCAAGCTTTATTGT
632658 ATATATATAAT
1 ATAT-TATAAT
632669 ATTATAATCT
Statistics
Matches: 101, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
94 44 0.44
95 51 0.50
96 6 0.06
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.36
Consensus pattern (94 bp):
ATATTATAATCACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCGGGGTGTTTAACCAATTG
CTTTAGAGGGACAACTCAAGCTTTATTGT
Found at i:635378 original size:11 final size:11
Alignment explanation
Indices: 635335--635364 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
635325 GTTAGATAAG
635335 AAATAATAAAT
1 AAATAATAAAT
635346 AAATAATAAAT
1 AAATAATAAAT
635357 AAATAATA
1 AAATAATA
635365 TATATATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
AAATAATAAAT
Found at i:635473 original size:28 final size:28
Alignment explanation
Indices: 635422--635477 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
635412 TAAATTCTAA
*
635422 AAGTAATAAAATAAAATAAAAATAATAAG
1 AAGTAAAAAAATAAAAT-AAAATAATAAG
635451 AAGTAAAAAACATAAAAT-AAATAATAA
1 AAGTAAAAAA-ATAAAATAAAATAATAA
635478 TAAAAAATGC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 9 0.36
29 9 0.36
30 7 0.28
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (28 bp):
AAGTAAAAAAATAAAATAAAATAATAAG
Found at i:635492 original size:34 final size:30
Alignment explanation
Indices: 635420--635483 Score: 94
Period size: 29 Copynumber: 2.1 Consensus size: 30
635410 GTTAAATTCT
*
635420 AAAAGTAATAAA-ATAAAATAAAAATAATA
1 AAAAGTAAAAAACATAAAATAAAAATAATA
*
635449 AGAAGTAAAAAACATAAAATAAATAATAATA
1 AAAAGTAAAAAACATAAAATAAA-AATAATA
635480 AAAA
1 AAAA
635484 ATGCTAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 10 0.33
30 10 0.33
31 10 0.33
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.19
Consensus pattern (30 bp):
AAAAGTAAAAAACATAAAATAAAAATAATA
Found at i:636160 original size:3 final size:3
Alignment explanation
Indices: 636152--636192 Score: 52
Period size: 3 Copynumber: 14.3 Consensus size: 3
636142 GGCTTGCAAA
636152 AAT AAT AAT AA- AAT AAT AAT AA- AAT AAAT AAT AAT AA- AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT A
636193 TTTTTGTAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
2 6 0.18
3 25 0.74
4 3 0.09
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:636192 original size:11 final size:11
Alignment explanation
Indices: 636150--636185 Score: 63
Period size: 11 Copynumber: 3.2 Consensus size: 11
636140 GGGGCTTGCA
636150 AAAATAATAAT
1 AAAATAATAAT
636161 AAAATAATAAT
1 AAAATAATAAT
636172 AAAATAAATAAT
1 AAAAT-AATAAT
636184 AA
1 AA
636186 TAAAATATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 16 0.67
12 8 0.33
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (11 bp):
AAAATAATAAT
Found at i:638522 original size:30 final size:30
Alignment explanation
Indices: 638488--638549 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
638478 TTTTTCATGT
638488 ATTTTAAATATGTTTCATTCATGACATTCA
1 ATTTTAAATATGTTTCATTCATGACATTCA
*
638518 ATTTTAAATATGTTTCATTCATGATATTCA
1 ATTTTAAATATGTTTCATTCATGACATTCA
638548 AT
1 AT
638550 AATGTCATTG
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:0.34, C:0.11, G:0.06, T:0.48
Consensus pattern (30 bp):
ATTTTAAATATGTTTCATTCATGACATTCA
Found at i:642337 original size:28 final size:24
Alignment explanation
Indices: 642309--642355 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
642299 CACTGTTGGT
642309 TGGTTTGATGAATTTATTTTGTTG
1 TGGTTTGATGAATTTATTTTGTTG
642333 TGGTTTGATGAATTTATTTTGTT
1 TGGTTTGATGAATTTATTTTGTT
642356 ATTGTTTTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.23, T:0.60
Consensus pattern (24 bp):
TGGTTTGATGAATTTATTTTGTTG
Found at i:642362 original size:24 final size:24
Alignment explanation
Indices: 642309--642362 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
642299 CACTGTTGGT
*
642309 TGGTTTGATGAATTTATTTTGTTG
1 TGGTTTGATGAATTTATTTTGTTA
642333 TGGTTTGATGAATTTATTTTGTTA
1 TGGTTTGATGAATTTATTTTGTTA
*
642357 TTGTTT
1 TGGTTT
642363 TCCTAGAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.17, C:0.00, G:0.22, T:0.61
Consensus pattern (24 bp):
TGGTTTGATGAATTTATTTTGTTA
Found at i:643976 original size:30 final size:32
Alignment explanation
Indices: 643910--643976 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 32
643900 AGTTTGTATC
*
643910 TTCTCTGTTTTTTTTCTTTCTCTCCGATTCTA
1 TTCTCTGTATTTTTTCTTTCTCTCCGATTCTA
*
643942 -TCTCTGTATTTTTT-TTTGTCT-CG-TTCTA
1 TTCTCTGTATTTTTTCTTTCTCTCCGATTCTA
643970 TTTCTCT
1 -TTCTCT
643977 CTCCTTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
28 5 0.16
29 2 0.06
30 11 0.35
31 13 0.42
ACGTcount: A:0.06, C:0.22, G:0.07, T:0.64
Consensus pattern (32 bp):
TTCTCTGTATTTTTTCTTTCTCTCCGATTCTA
Found at i:644382 original size:3 final size:3
Alignment explanation
Indices: 644374--644476 Score: 143
Period size: 3 Copynumber: 33.7 Consensus size: 3
644364 GGCCCGTTTG
* * * *
644374 TAA TAA TAA TTAA TAA TAA TAT TAG TAA TAAA TAA TAA TAT TAG TAA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
*
644421 TTA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
644469 TAA TAA TA
1 TAA TAA TA
644477 TTTAAATGAA
Statistics
Matches: 90, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
3 84 0.93
4 6 0.07
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:644935 original size:113 final size:113
Alignment explanation
Indices: 644724--645374 Score: 953
Period size: 113 Copynumber: 5.7 Consensus size: 113
644714 TTTTGATGAG
* *
644724 TTCTTCTCATTATGAACTTCTTCCTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTTC
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAAC-CTTC
* ** * * * *
644789 T-TGACACTGTTGATTCATCAAATGATGAATTCAAACAAAAGGTTGAACAAA
62 TCTGGCAAAGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAA
*
644840 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTATTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
*
644905 GCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAA
66 GCAAAGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAA
644953 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
* *** ***
645018 GCAATGATAATCCATCTCTTGATGAATTCAGGTAAAAGGTTGAACAAA
66 GCAAAGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAA
* * * *
645066 TTCTTCTTATTATGAACTTCTTCTTCCTTCTTCATATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
* *
645131 GCAAAGCTGATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAA
66 GCAAAGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAA
* *
645179 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATAAACTTTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
* * * ** *
645244 GAAAAGCTAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAA
66 GCAAAGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAA
645292 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
* *
645357 GCAAAAATGATCCATCAA
66 GCAAAGATAATCCATCAA
645375 ATGAATTTGA
Statistics
Matches: 489, Mismatches: 45, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
112 5 0.01
113 449 0.92
116 35 0.07
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.39
Consensus pattern (113 bp):
TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
GCAAAGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAA
Found at i:645103 original size:24 final size:23
Alignment explanation
Indices: 645068--645112 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
645058 TGAACAAATT
645068 CTTCTTATTATGAACTTCTTCTTC
1 CTTCTTATTATG-ACTTCTTCTTC
*
645092 CTTCTTCA-TATGAGTTCTTCT
1 CTTCTT-ATTATGACTTCTTCT
645113 CATTATGAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 8 0.42
24 10 0.53
25 1 0.05
ACGTcount: A:0.16, C:0.24, G:0.07, T:0.53
Consensus pattern (23 bp):
CTTCTTATTATGACTTCTTCTTC
Found at i:646251 original size:82 final size:82
Alignment explanation
Indices: 646028--646493 Score: 774
Period size: 82 Copynumber: 5.7 Consensus size: 82
646018 ATTCTTACCA
*
646028 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCCAAATT
* *
646093 TAATGATTGGTT-TCG-CTA
66 CAATGATT-GTTCT-GTC-C
* *
646111 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACATATTCTTCTTCCAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCCAAATT
646176 CAATGATTGTTCTGTCC
66 CAATGATTGTTCTGTCC
*
646193 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCCAAATT
*
646258 TAATGATTGTTCTGTCC
66 CAATGATTGTTCTGTCC
* *
646275 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACACATTCTTCTTCCAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCCAAATT
646340 CAATGATTGTTCTGTCC
66 CAATGATTGTTCTGTCC
* * *
646357 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCCATTAACACATTCTTCTTCCAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCCAAATT
646422 CAATGATTGTTCTGTCC
66 CAATGATTGTTCTGTCC
*
646439 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACACATTCAT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCAT
646494 TTGTTCTATT
Statistics
Matches: 365, Mismatches: 16, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
82 294 0.81
83 71 0.19
ACGTcount: A:0.36, C:0.24, G:0.12, T:0.28
Consensus pattern (82 bp):
AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCCAAATT
CAATGATTGTTCTGTCC
Found at i:647543 original size:27 final size:27
Alignment explanation
Indices: 647512--647569 Score: 91
Period size: 27 Copynumber: 2.1 Consensus size: 27
647502 ACCTTGACCC
647512 TTCTCTTTTTTTTTCCTTTTCTATT-TT
1 TTCTCTTTTTTTTTCCTTTTCT-TTCTT
*
647539 TTCTCTTTTTTTTTCTTTTTCTTTCTT
1 TTCTCTTTTTTTTTCCTTTTCTTTCTT
647566 TTCT
1 TTCT
647570 TCAAGCATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 2 0.07
27 27 0.93
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (27 bp):
TTCTCTTTTTTTTTCCTTTTCTTTCTT
Found at i:647561 original size:16 final size:16
Alignment explanation
Indices: 647515--647562 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
647505 TTGACCCTTC
*
647515 TCTTTTTTTTTCCTTT
1 TCTTTTTTTTTCTTTT
*
647531 TCTATTTTTTCTCTTTT
1 TCT-TTTTTTTTCTTTT
647548 T-TTTTCTTTTTCTTT
1 TCTTTT-TTTTTCTTT
647563 CTTTTCTTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 3 0.11
16 12 0.44
17 12 0.44
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (16 bp):
TCTTTTTTTTTCTTTT
Found at i:654916 original size:15 final size:15
Alignment explanation
Indices: 654896--654926 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
654886 GAAATGAATG
654896 ATGAATGTATGCAAA
1 ATGAATGTATGCAAA
*
654911 ATGAATGTATGTAAA
1 ATGAATGTATGCAAA
654926 A
1 A
654927 ACATTGATCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.03, G:0.19, T:0.29
Consensus pattern (15 bp):
ATGAATGTATGCAAA
Found at i:659921 original size:30 final size:32
Alignment explanation
Indices: 659855--659921 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 32
659845 AGTTTGTATC
*
659855 TTCTCTGTTTTTTTTCTTTCTCTCCGATTCTA
1 TTCTCTGTATTTTTTCTTTCTCTCCGATTCTA
*
659887 -TCTCTGTATTTTTT-TTTGTCT-CG-TTCTA
1 TTCTCTGTATTTTTTCTTTCTCTCCGATTCTA
659915 TTTCTCT
1 -TTCTCT
659922 CTCCTTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
28 5 0.16
29 2 0.06
30 11 0.35
31 13 0.42
ACGTcount: A:0.06, C:0.22, G:0.07, T:0.64
Consensus pattern (32 bp):
TTCTCTGTATTTTTTCTTTCTCTCCGATTCTA
Found at i:660327 original size:3 final size:3
Alignment explanation
Indices: 660319--660409 Score: 128
Period size: 3 Copynumber: 29.7 Consensus size: 3
660309 GGCCCGTTTG
* * * *
660319 TAA TAA TAA TTAA TAA TAA TAT TAG TAA TAAA TAA TAA TAT TAG TAA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
660366 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
660410 TTTAAATGAA
Statistics
Matches: 80, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
3 74 0.93
4 6 0.08
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:663648 original size:24 final size:24
Alignment explanation
Indices: 663621--663735 Score: 142
Period size: 24 Copynumber: 4.8 Consensus size: 24
663611 TTGATTTGAC
*
663621 TTCTGATCTGATACTTGGCATGGA
1 TTCTGATCTGATACTTGACATGGA
*
663645 TTCTGATCCGATA-TCTGACATGGA
1 TTCTGATCTGATACT-TGACATGGA
* *
663669 TTCTAATCTGATACTTGACTTGGA
1 TTCTGATCTGATACTTGACATGGA
* *
663693 TTTTGATCTGATACTTGACCTGGA
1 TTCTGATCTGATACTTGACATGGA
* *
663717 TTTTGATATGATACTTGAC
1 TTCTGATCTGATACTTGAC
663736 CTGATTTATG
Statistics
Matches: 80, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
23 1 0.01
24 78 0.98
25 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.40
Consensus pattern (24 bp):
TTCTGATCTGATACTTGACATGGA
Found at i:668381 original size:24 final size:24
Alignment explanation
Indices: 668354--668465 Score: 154
Period size: 24 Copynumber: 4.7 Consensus size: 24
668344 ATTTGAATTA
* *
668354 TGATCTGATACTTGACGTGGTTTC
1 TGATCTGATACTTGACTTGGATTC
* *
668378 TGATCTGATA-TCTGACATGGATTT
1 TGATCTGATACT-TGACTTGGATTC
668402 TGATCTGATACTTGACTTGGATTC
1 TGATCTGATACTTGACTTGGATTC
*
668426 TGATATGATACTTGACTTGGATTC
1 TGATCTGATACTTGACTTGGATTC
*
668450 TGATATGATACTTGAC
1 TGATCTGATACTTGAC
668466 CTGATTTATG
Statistics
Matches: 80, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
23 1 0.01
24 78 0.98
25 1 0.01
ACGTcount: A:0.23, C:0.14, G:0.21, T:0.41
Consensus pattern (24 bp):
TGATCTGATACTTGACTTGGATTC
Found at i:672639 original size:3 final size:3
Alignment explanation
Indices: 672631--672655 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
672621 TTTATAATTA
672631 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
672656 ATGTCTATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:677528 original size:19 final size:19
Alignment explanation
Indices: 677504--677541 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
677494 ATTTCTCAAG
677504 TAGAGAAAAGAAAAGAGAT
1 TAGAGAAAAGAAAAGAGAT
677523 TAGAGAAAAGAAAAGAGAT
1 TAGAGAAAAGAAAAGAGAT
677542 GGTCTATCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.26, T:0.11
Consensus pattern (19 bp):
TAGAGAAAAGAAAAGAGAT
Found at i:679910 original size:2 final size:2
Alignment explanation
Indices: 679903--679960 Score: 109
Period size: 2 Copynumber: 29.5 Consensus size: 2
679893 GAAATAGGTT
679903 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
679945 TA TA TA T- TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
679961 GACACATTAT
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 54 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:682300 original size:45 final size:45
Alignment explanation
Indices: 682251--682786 Score: 675
Period size: 45 Copynumber: 11.9 Consensus size: 45
682241 CATACTTATT
* * *
682251 ATGCA-CCATCATGCATTTTCATTTATGGCAT-TTTTCATGCCAATA
1 ATGCACCCAT-ATGCA-TTTCAATTATGGCATCATTTCATGCCGATA
* *
682296 ATGCACCCATATGCATTTCAATCATGGCATCCTTTCATGCCGATA
1 ATGCACCCATATGCATTTCAATTATGGCATCATTTCATGCCGATA
*** * *
682341 ATGCACCCATATGCATTTCAATTATTATATCATTTCATACTGATA
1 ATGCACCCATATGCATTTCAATTATGGCATCATTTCATGCCGATA
* ** *
682386 ATACACCCATATGCATTTCAATTATAACATCATTTCATGTCGATA
1 ATGCACCCATATGCATTTCAATTATGGCATCATTTCATGCCGATA
682431 ATGCACCCATATGCATTTCAATTATGGCATTC-TTTCATGCCGATA
1 ATGCACCCATATGCATTTCAATTATGGCA-TCATTTCATGCCGATA
* *
682476 ATGCACCCATATGCATTTCAATTATGACATCATTTCATGCCAATA
1 ATGCACCCATATGCATTTCAATTATGGCATCATTTCATGCCGATA
* * * *
682521 ATGCACCCATATGGATTTCAATTATGACATCCTTTCATGTCGATA
1 ATGCACCCATATGCATTTCAATTATGGCATCATTTCATGCCGATA
*
682566 ATGCACCCATATTCATTTCAATTATGGCATCATTTCATGCCGATA
1 ATGCACCCATATGCATTTCAATTATGGCATCATTTCATGCCGATA
*
682611 ATGCACCCATATTCATTTCAATTATGGCATCATTTCATGCCGATA
1 ATGCACCCATATGCATTTCAATTATGGCATCATTTCATGCCGATA
* * * * * **
682656 ATGCACCCACATGCATTTCAATTATGACATCCTTTTATACTAATA
1 ATGCACCCATATGCATTTCAATTATGGCATCATTTCATGCCGATA
*
682701 ATACACCCATATGCATTTCAATTATGGCATTC-TTTCATGCCGATA
1 ATGCACCCATATGCATTTCAATTATGGCA-TCATTTCATGCCGATA
* *** * * *
682746 ATACACTTTTATACATTTCATTTATGGCATCCTTTCATGCC
1 ATGCACCCATATGCATTTCAATTATGGCATCATTTCATGCC
682787 TTTTATACAA
Statistics
Matches: 433, Mismatches: 52, Indels: 12
0.87 0.10 0.02
Matches are distributed among these distances:
44 17 0.04
45 408 0.94
46 8 0.02
ACGTcount: A:0.30, C:0.24, G:0.10, T:0.36
Consensus pattern (45 bp):
ATGCACCCATATGCATTTCAATTATGGCATCATTTCATGCCGATA
Found at i:682975 original size:81 final size:81
Alignment explanation
Indices: 682821--682975 Score: 215
Period size: 81 Copynumber: 1.9 Consensus size: 81
682811 ATACATCTAG
* * * *
682821 TCTTTTACTCAAAGACATTTAACCTTTCATCTATCTGGCATGATTGACACCTTTTTGTCAAATGA
1 TCTTTTACTCAAAGACATTTAACCTTTCATCTAACCGGCATAATTGACACCTTTTTATCAAATGA
*
682886 TCAGCTAGGCCATTAA
66 TCAACTAGGCCATTAA
**
682902 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACCGGCATAATTGACA-CTTTTCTATCAAATG
1 TCTTTTACTCAAAGACATTTAACCTTTCATCTAACCGGCATAATTGACACCTTTT-TATCAAATG
682966 CA-CAACTAGG
65 -ATCAACTAGG
682976 TCTCAAAGGC
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
80 5 0.08
81 59 0.91
82 1 0.02
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.36
Consensus pattern (81 bp):
TCTTTTACTCAAAGACATTTAACCTTTCATCTAACCGGCATAATTGACACCTTTTTATCAAATGA
TCAACTAGGCCATTAA
Found at i:683072 original size:67 final size:67
Alignment explanation
Indices: 682909--683308 Score: 541
Period size: 67 Copynumber: 6.0 Consensus size: 67
682899 TAATCTTTTA
* * * * * * **
682909 CTCAAAGGTATTTAACCTTTCATCTAACCGGCATAATTGACACTTTTCTATCAAATGCACAACTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTC-AATGCACAGTTA
682974 GGT
65 GGT
* * * *
682977 CTCAAAGGCACTTATCCTTTCATCTAACTGACATAATTGACACATTTCTGTCAATTCACAGTTA-
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAATGCACAGTTAG
683041 GT
66 GT
* *
683043 CCTCAAAGGCACTTAGCCTTTCATCTAACTGACATAATTGACACCTTTATGTCAATGCACAGTTA
1 -CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAATGCACAGTTA
*
683108 GGC
65 GGT
* * ** *
683111 CTCAAAGGCACTTAACCTTTCATCTAACTGGCATAATTGATATTTTTCTGTCAATGCATAGTTAG
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAATGCACAGTTAG
683176 GT
66 GT
* * *
683178 CTCAAAGGTACTTAGCCTTTCATCTAACTGGCTTAATTGACACCTTTATGTCAATGCACAGTTAG
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAATGCACAGTTAG
683243 GT
66 GT
* * *
683245 ATCATAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAATGCATAGTTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAATGCACAGTTA
683309 TGACTTAAAT
Statistics
Matches: 293, Mismatches: 37, Indels: 5
0.87 0.11 0.01
Matches are distributed among these distances:
66 2 0.01
67 245 0.84
68 46 0.16
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (67 bp):
CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAATGCACAGTTAG
GT
Found at i:683572 original size:57 final size:57
Alignment explanation
Indices: 683488--683651 Score: 197
Period size: 57 Copynumber: 2.9 Consensus size: 57
683478 AAATTCATAT
* * * ** *
683488 AATTTCTTA-ATTTTTGCAAATAAAGTTCTTATACGGAAATTCATAAACAAATTATG
1 AATTCCTTATATTTTTGCACACAAAGTTCCCATACGGAAATTCATAAACAAATTACG
** * *
683544 AATTCCTTA-ACTTTTTGCACACTCAGTTCCCATAAGGAAATTCATAAATAAATTACG
1 AATTCCTTATA-TTTTTGCACACAAAGTTCCCATACGGAAATTCATAAACAAATTACG
* *
683601 AATTTCTTATATTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACAA
1 AATTCCTTATATTTTTGCACACAAAGTTCCCATACGGAAATTCATAAACAA
683652 TGCCTAAATG
Statistics
Matches: 90, Mismatches: 16, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
56 9 0.10
57 80 0.89
58 1 0.01
ACGTcount: A:0.39, C:0.17, G:0.09, T:0.35
Consensus pattern (57 bp):
AATTCCTTATATTTTTGCACACAAAGTTCCCATACGGAAATTCATAAACAAATTACG
Found at i:683771 original size:67 final size:67
Alignment explanation
Indices: 683654--683852 Score: 299
Period size: 67 Copynumber: 3.0 Consensus size: 67
683644 ATAAACAATG
* *
683654 CCTAAATGTGCATTGACAGAAAGGTGTCAGTTATGCCAGTTAGATTAAAGGCTAAGTGCCTTTGA
1 CCTAACTGTGCATTGACAGAAAGGTGTCAGTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
*
683719 GG
66 GA
* * * *
683721 CCTTACTGTGCATTGACATAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTACCTTTGA
1 CCTAACTGTGCATTGACAGAAAGGTGTCAGTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
683786 GA
66 GA
* * * *
683788 TCTAATTGTGTATTGACAGAAAGGTGTCAGTTATGCCAGTTAGATGAAAGACTAAGTGCCTTTGA
1 CCTAACTGTGCATTGACAGAAAGGTGTCAGTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
683853 CAGAAAGGTG
Statistics
Matches: 117, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
67 117 1.00
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.30
Consensus pattern (67 bp):
CCTAACTGTGCATTGACAGAAAGGTGTCAGTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
GA
Found at i:683899 original size:49 final size:49
Alignment explanation
Indices: 683800--683901 Score: 159
Period size: 49 Copynumber: 2.1 Consensus size: 49
683790 TAATTGTGTA
* * *
683800 TTGACAGAAAGGTGTCAGTTATGCCAGTTAGATGAAAGACTAAGTGCCT
1 TTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGACTAAATACCT
**
683849 TTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCT
1 TTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGACTAAATACCT
683898 TTGA
1 TTGA
683902 GTAAAAGATT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (49 bp):
TTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGACTAAATACCT
Found at i:684228 original size:43 final size:44
Alignment explanation
Indices: 684148--684230 Score: 123
Period size: 43 Copynumber: 1.9 Consensus size: 44
684138 AAAATAATTG
* *
684148 AAATGCATATGTGTACATTATCGGCATGAAAGGATGCCATGATT
1 AAATGCATATGGGTACATTATCGGCATGAAAGAATGCCATGATT
* *
684192 AAATGCATATGGGTGCATT-TTGGCATGAAAGAATGCCAT
1 AAATGCATATGGGTACATTATCGGCATGAAAGAATGCCAT
684231 AAATGAAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
43 18 0.51
44 17 0.49
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (44 bp):
AAATGCATATGGGTACATTATCGGCATGAAAGAATGCCATGATT
Found at i:684478 original size:2 final size:2
Alignment explanation
Indices: 684466--684523 Score: 102
Period size: 2 Copynumber: 30.0 Consensus size: 2
684456 GAATACTTAT
684466 TA TA TA T- TA TA TA TA TA TA TA TA T- TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
684506 TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
684524 GATTTCTTTA
Statistics
Matches: 54, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 2 0.04
2 52 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:687050 original size:22 final size:19
Alignment explanation
Indices: 687022--687071 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 19
687012 CCTATCACGA
687022 TATCGATACTACTACACTATGG
1 TATCGATACT-CT--ACTATGG
*
687044 TATCGATACTCTATTATGG
1 TATCGATACTCTACTATGG
687063 TATCGATAC
1 TATCGATAC
687072 CATTTTTGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 15 0.56
21 2 0.07
22 10 0.37
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (19 bp):
TATCGATACTCTACTATGG
Found at i:688362 original size:149 final size:149
Alignment explanation
Indices: 688092--688366 Score: 550
Period size: 149 Copynumber: 1.8 Consensus size: 149
688082 TTTTCAATGA
688092 TACACTCAAAAAGAGGGAATAGATTTTTATGAAACTTATGCTCCCGTAGCTACGATGGAAGCTAT
1 TACACTCAAAAAGAGGGAATAGATTTTTATGAAACTTATGCTCCCGTAGCTACGATGGAAGCTAT
688157 TAGAATGTTGTTGGCATTTGCATGTTATCATAGATTCACTTTATTTCAAATTGTTGTGAAAGTGG
66 TAGAATGTTGTTGGCATTTGCATGTTATCATAGATTCACTTTATTTCAAATTGTTGTGAAAGTGG
688222 ACTCTAGTTGAATGGCTAG
131 ACTCTAGTTGAATGGCTAG
688241 TACACTCAAAAAGAGGGAATAGATTTTTATGAAACTTATGCTCCCGTAGCTACGATGGAAGCTAT
1 TACACTCAAAAAGAGGGAATAGATTTTTATGAAACTTATGCTCCCGTAGCTACGATGGAAGCTAT
688306 TAGAATGTTGTTGGCATTTGCATGTTATCATAGATTCACTTTATTTCAAATTGTTGTGAAA
66 TAGAATGTTGTTGGCATTTGCATGTTATCATAGATTCACTTTATTTCAAATTGTTGTGAAA
688367 AGTGTATTTT
Statistics
Matches: 126, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
149 126 1.00
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.35
Consensus pattern (149 bp):
TACACTCAAAAAGAGGGAATAGATTTTTATGAAACTTATGCTCCCGTAGCTACGATGGAAGCTAT
TAGAATGTTGTTGGCATTTGCATGTTATCATAGATTCACTTTATTTCAAATTGTTGTGAAAGTGG
ACTCTAGTTGAATGGCTAG
Found at i:697635 original size:13 final size:13
Alignment explanation
Indices: 697617--697641 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
697607 CCTCGATAGG
697617 GTATCGATACCAA
1 GTATCGATACCAA
697630 GTATCGATACCA
1 GTATCGATACCA
697642 TTCAATTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (13 bp):
GTATCGATACCAA
Found at i:706230 original size:21 final size:21
Alignment explanation
Indices: 706201--706241 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
706191 ATAAATCGAA
706201 AAATATTATAATAATGATTCT
1 AAATATTATAATAATGATTCT
*
706222 AAATGTTATAATAATGATTC
1 AAATATTATAATAATGATTC
706242 ATAATTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.41
Consensus pattern (21 bp):
AAATATTATAATAATGATTCT
Found at i:707476 original size:13 final size:13
Alignment explanation
Indices: 707458--707483 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
707448 TTTGTAAGTG
707458 ATGTCAACTAAAA
1 ATGTCAACTAAAA
707471 ATGTCAACTAAAA
1 ATGTCAACTAAAA
707484 CTATACATCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.15, G:0.08, T:0.23
Consensus pattern (13 bp):
ATGTCAACTAAAA
Found at i:707702 original size:2 final size:2
Alignment explanation
Indices: 707695--707725 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
707685 TGAATAAAAT
707695 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 T
707726 TCCACTTCAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:708948 original size:17 final size:17
Alignment explanation
Indices: 708926--708975 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
708916 AAATTCTTCT
708926 AACATTCATAGAAACCA
1 AACATTCATAGAAACCA
*
708943 AACA-T--T-GATACTCA
1 AACATTCATAGAAAC-CA
708957 AACATTCATAGAAACCA
1 AACATTCATAGAAACCA
708974 AA
1 AA
708976 ACATGAACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 10
0.68 0.05 0.26
Matches are distributed among these distances:
13 4 0.15
14 7 0.27
15 1 0.04
16 1 0.04
17 9 0.35
18 4 0.15
ACGTcount: A:0.52, C:0.22, G:0.06, T:0.20
Consensus pattern (17 bp):
AACATTCATAGAAACCA
Found at i:719211 original size:29 final size:28
Alignment explanation
Indices: 719165--719254 Score: 76
Period size: 29 Copynumber: 3.1 Consensus size: 28
719155 TAAAACCTAG
719165 AATTTAAAGG-ACTGAAATGTAAATACGAGA
1 AATTTAAAGGCA-T-AAATGTAAATAC-AGA
*
719195 AATTTAAAGGCATAAAT-TAAAGGTGCAGA
1 AATTTAAAGGCATAAATGTAAA--TACAGA
* * *
719224 AAATTAAAGGCAAAAAAGTAAATAACAGA
1 AATTTAAAGGCATAAATGTAAAT-ACAGA
719253 AA
1 AA
719255 ATAAATCAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 11
0.76 0.08 0.17
Matches are distributed among these distances:
28 5 0.10
29 27 0.54
30 17 0.34
31 1 0.02
ACGTcount: A:0.56, C:0.07, G:0.18, T:0.20
Consensus pattern (28 bp):
AATTTAAAGGCATAAATGTAAATACAGA
Found at i:719420 original size:23 final size:24
Alignment explanation
Indices: 719384--719449 Score: 82
Period size: 23 Copynumber: 2.8 Consensus size: 24
719374 ACATTTTATA
*
719384 AAAGTTAGAAGTTAGAAAATTAGC
1 AAAGTTAGCAGTTAGAAAATTAGC
* *
719408 -GAGTTAGCGGTTAG-AAATTAGC
1 AAAGTTAGCAGTTAGAAAATTAGC
*
719430 AAAGTTAGCAGTTAAAAAAT
1 AAAGTTAGCAGTTAGAAAAT
719450 AGAATTTTAC
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
22 8 0.24
23 22 0.65
24 4 0.12
ACGTcount: A:0.45, C:0.06, G:0.23, T:0.26
Consensus pattern (24 bp):
AAAGTTAGCAGTTAGAAAATTAGC
Found at i:719421 original size:30 final size:30
Alignment explanation
Indices: 719387--719443 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
719377 TTTTATAAAA
*
719387 GTTAGAAGTTAG-AAAATTAGCGAGTTAGCG
1 GTTAGAAATTAGCAAAATTAGC-AGTTAGCG
*
719417 GTTAGAAATTAGCAAAGTTAGCAGTTA
1 GTTAGAAATTAGCAAAATTAGCAGTTA
719444 AAAAATAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 16 0.67
31 8 0.33
ACGTcount: A:0.39, C:0.07, G:0.26, T:0.28
Consensus pattern (30 bp):
GTTAGAAATTAGCAAAATTAGCAGTTAGCG
Found at i:721454 original size:34 final size:34
Alignment explanation
Indices: 721416--721484 Score: 104
Period size: 34 Copynumber: 2.0 Consensus size: 34
721406 GATTGTTACT
721416 TGTTACATAGTTCATTAGGTCA-TTGCATATTATA
1 TGTTACATAGTTCATTAGGT-AGTTGCATATTATA
**
721450 TGTTATGTAGTTCATTAGGTAGTTGCATATTATA
1 TGTTACATAGTTCATTAGGTAGTTGCATATTATA
721484 T
1 T
721485 AGTTTTGTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 1 0.03
34 31 0.97
ACGTcount: A:0.28, C:0.09, G:0.17, T:0.46
Consensus pattern (34 bp):
TGTTACATAGTTCATTAGGTAGTTGCATATTATA
Found at i:722099 original size:34 final size:34
Alignment explanation
Indices: 722056--722129 Score: 148
Period size: 34 Copynumber: 2.2 Consensus size: 34
722046 AGGATTACCA
722056 AAAATAAAGATCAATGCTGCAACTTAAAATAGAG
1 AAAATAAAGATCAATGCTGCAACTTAAAATAGAG
722090 AAAATAAAGATCAATGCTGCAACTTAAAATAGAG
1 AAAATAAAGATCAATGCTGCAACTTAAAATAGAG
722124 AAAATA
1 AAAATA
722130 TTTTAGCAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.55, C:0.11, G:0.14, T:0.20
Consensus pattern (34 bp):
AAAATAAAGATCAATGCTGCAACTTAAAATAGAG
Found at i:726373 original size:10 final size:9
Alignment explanation
Indices: 726349--726382 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
726339 AAATCTGGAA
*
726349 ACCGGTTTA
1 ACCGGTTTG
726358 ACCGGTTTTG
1 ACCGG-TTTG
726368 ACCGGTTTG
1 ACCGGTTTG
726377 ACCGGT
1 ACCGGT
726383 CATGAACTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.15, C:0.24, G:0.29, T:0.32
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:726412 original size:18 final size:17
Alignment explanation
Indices: 726391--726432 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
726381 GTCATGAACT
726391 GTTGACCCGACCCGACCC
1 GTTGACCCGACCCGA-CC
**
726409 GTTGATTCGACCCGACC
1 GTTGACCCGACCCGACC
726426 GTTGACC
1 GTTGACC
726433 GTTGACCGGT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.17, C:0.40, G:0.24, T:0.19
Consensus pattern (17 bp):
GTTGACCCGACCCGACC
Found at i:726501 original size:29 final size:29
Alignment explanation
Indices: 726469--726600 Score: 128
Period size: 29 Copynumber: 4.7 Consensus size: 29
726459 ATTCGGTTTT
*
726469 GGTGCTATTCTGGGAATTAATTTGAAATG
1 GGTGCTATTCTGGGAATTAATTCGAAATG
* * *
726498 GGTGCTATTTTGGTAATT-TTTCGAAA--
1 GGTGCTATTCTGGGAATTAATTCGAAATG
* * * *
726524 AGTGATATTATGGGAATTAATTCGAAATT
1 GGTGCTATTCTGGGAATTAATTCGAAATG
*
726553 GGTGCTATTTCT-GGAATTAATTCGAAAAG
1 GGTGCTA-TTCTGGGAATTAATTCGAAATG
* *
726582 GGTGCTATTTTGGTAATTA
1 GGTGCTATTCTGGGAATTA
726601 TTAAAAAAAA
Statistics
Matches: 82, Mismatches: 16, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
26 14 0.17
27 7 0.09
28 9 0.11
29 49 0.60
30 3 0.04
ACGTcount: A:0.29, C:0.07, G:0.24, T:0.40
Consensus pattern (29 bp):
GGTGCTATTCTGGGAATTAATTCGAAATG
Found at i:726545 original size:55 final size:56
Alignment explanation
Indices: 726474--726581 Score: 157
Period size: 55 Copynumber: 1.9 Consensus size: 56
726464 GTTTTGGTGC
* * *
726474 TATTCTGGGAATTAATTTGAAATGGGTGCTATTT-TGGTAATT-TTTCGAAAAGTGA
1 TATTATGGGAATTAATTCGAAATGGGTGCTATTTCTGG-AATTAATTCGAAAAGTGA
*
726529 TATTATGGGAATTAATTCGAAATTGGTGCTATTTCTGGAATTAATTCGAAAAG
1 TATTATGGGAATTAATTCGAAATGGGTGCTATTTCTGGAATTAATTCGAAAAG
726582 GGTGCTATTT
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
55 35 0.74
56 12 0.26
ACGTcount: A:0.31, C:0.06, G:0.22, T:0.40
Consensus pattern (56 bp):
TATTATGGGAATTAATTCGAAATGGGTGCTATTTCTGGAATTAATTCGAAAAGTGA
Found at i:727358 original size:24 final size:24
Alignment explanation
Indices: 727302--727366 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 24
727292 ATATAAATAG
* * *
727302 TTTATATTATTTTTGACCTGGATT
1 TTTATATGATATTTGACCTGAATT
* * *
727326 CTGAAATGATATTTGACCTGAATT
1 TTTATATGATATTTGACCTGAATT
*
727350 TTTATATGATACTTGAC
1 TTTATATGATATTTGAC
727367 ATGGACTCTG
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.28, C:0.11, G:0.14, T:0.48
Consensus pattern (24 bp):
TTTATATGATATTTGACCTGAATT
Found at i:733011 original size:23 final size:23
Alignment explanation
Indices: 732985--733029 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
732975 CTCAATCGCC
732985 TAGAAAATCCTAAATTCATCGTT
1 TAGAAAATCCTAAATTCATCGTT
*
733008 TAGAAAATTCTAAATTCATCGT
1 TAGAAAATCCTAAATTCATCGT
733030 CGATCGTTGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.36
Consensus pattern (23 bp):
TAGAAAATCCTAAATTCATCGTT
Found at i:733362 original size:12 final size:13
Alignment explanation
Indices: 733330--733363 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
733320 AACCGGTTTA
733330 ACCCGTTGACCCG
1 ACCCGTTGACCCG
733343 ACCCGTTGACCCG
1 ACCCGTTGACCCG
733356 A-CCGTTGA
1 ACCCGTTGA
733364 TCGGTGTGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 7 0.33
13 14 0.67
ACGTcount: A:0.18, C:0.41, G:0.24, T:0.18
Consensus pattern (13 bp):
ACCCGTTGACCCG
Found at i:733411 original size:29 final size:29
Alignment explanation
Indices: 733369--733519 Score: 171
Period size: 29 Copynumber: 5.3 Consensus size: 29
733359 GTTGATCGGT
***
733369 GTGCTATTCTGGGAATTAATTCGGTTTTG
1 GTGCTATTCTGGGAATTAATTCGAAATTG
*
733398 GTGCTATTCTGGGAATTAATTCGAAATGG
1 GTGCTATTCTGGGAATTAATTCGAAATTG
* * * **
733427 GTGCTATTTTGGTAATT-TTTCGAAA-AA
1 GTGCTATTCTGGGAATTAATTCGAAATTG
*
733454 GTGATATTCTGGGAATTAATTCGAAATTG
1 GTGCTATTCTGGGAATTAATTCGAAATTG
* **
733483 GTGCTATTTTGGGAATTAATTCGAAAAGG
1 GTGCTATTCTGGGAATTAATTCGAAATTG
733512 GTGCTATT
1 GTGCTATT
733520 TCGGTAATTA
Statistics
Matches: 101, Mismatches: 19, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
27 14 0.14
28 14 0.14
29 73 0.72
ACGTcount: A:0.26, C:0.09, G:0.25, T:0.40
Consensus pattern (29 bp):
GTGCTATTCTGGGAATTAATTCGAAATTG
Found at i:733465 original size:56 final size:57
Alignment explanation
Indices: 733402--733509 Score: 182
Period size: 56 Copynumber: 1.9 Consensus size: 57
733392 GTTTTGGTGC
* *
733402 TATTCTGGGAATTAATTCGAAATGGGTGCTATTTTGGTAATT-TTTCGAAAAAGTGA
1 TATTCTGGGAATTAATTCGAAATGGGTGCTATTTTGGGAATTAATTCGAAAAAGTGA
*
733458 TATTCTGGGAATTAATTCGAAATTGGTGCTATTTTGGGAATTAATTCGAAAA
1 TATTCTGGGAATTAATTCGAAATGGGTGCTATTTTGGGAATTAATTCGAAAA
733510 GGGTGCTATT
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
56 40 0.83
57 8 0.17
ACGTcount: A:0.31, C:0.07, G:0.22, T:0.39
Consensus pattern (57 bp):
TATTCTGGGAATTAATTCGAAATGGGTGCTATTTTGGGAATTAATTCGAAAAAGTGA
Found at i:733520 original size:29 final size:29
Alignment explanation
Indices: 733369--733549 Score: 168
Period size: 29 Copynumber: 6.3 Consensus size: 29
733359 GTTGATCGGT
* *****
733369 GTGCTATTCTGGGAATTAATTCGGTTTTG
1 GTGCTATTTTGGGAATTAATTCGAAAAGG
* *
733398 GTGCTATTCTGGGAATTAATTCGAAATGG
1 GTGCTATTTTGGGAATTAATTCGAAAAGG
* * *
733427 GTGCTATTTTGGTAATT-TTTCGAAAA-A
1 GTGCTATTTTGGGAATTAATTCGAAAAGG
* * **
733454 GTGATATTCTGGGAATTAATTCGAAATTG
1 GTGCTATTTTGGGAATTAATTCGAAAAGG
733483 GTGCTATTTTGGGAATTAATTCGAAAAGG
1 GTGCTATTTTGGGAATTAATTCGAAAAGG
* * * **
733512 GTGCTATTTCGGTAATTATTTTAAAAAGG
1 GTGCTATTTTGGGAATTAATTCGAAAAGG
733541 GTGCTATTT
1 GTGCTATTT
733550 GTGTAAAATG
Statistics
Matches: 126, Mismatches: 24, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
27 14 0.11
28 14 0.11
29 98 0.78
ACGTcount: A:0.27, C:0.08, G:0.24, T:0.40
Consensus pattern (29 bp):
GTGCTATTTTGGGAATTAATTCGAAAAGG
Found at i:733539 original size:85 final size:85
Alignment explanation
Indices: 733373--733528 Score: 258
Period size: 85 Copynumber: 1.8 Consensus size: 85
733363 ATCGGTGTGC
*** * *
733373 TATTCTGGGAATTAATTCGGTTTTGGTGCTATTCTGGGAATTAATTCGAAATGGGTGCTATTTTG
1 TATTCTGGGAATTAATTCGAAATTGGTGCTATTCTGGGAATTAATTCGAAAAGGGTGCTATTTCG
733438 GTAATTTTTCGAAAAAGTGA
66 GTAATTTTTCGAAAAAGTGA
*
733458 TATTCTGGGAATTAATTCGAAATTGGTGCTATTTTGGGAATTAATTCGAAAAGGGTGCTATTTCG
1 TATTCTGGGAATTAATTCGAAATTGGTGCTATTCTGGGAATTAATTCGAAAAGGGTGCTATTTCG
733523 GTAATT
66 GTAATT
733529 ATTTTAAAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
85 65 1.00
ACGTcount: A:0.27, C:0.08, G:0.24, T:0.40
Consensus pattern (85 bp):
TATTCTGGGAATTAATTCGAAATTGGTGCTATTCTGGGAATTAATTCGAAAAGGGTGCTATTTCG
GTAATTTTTCGAAAAAGTGA
Found at i:734275 original size:24 final size:24
Alignment explanation
Indices: 734240--734295 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
734230 TAAATAGTTT
* *
734240 ATATGATTTTTGACCTGGATTCTG
1 ATATGATATTTGACCTGAATTCTG
* *
734264 ATATGATATTTGACCTGAATTTTT
1 ATATGATATTTGACCTGAATTCTG
734288 ATATGATA
1 ATATGATA
734296 ATGGACTCTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.29, C:0.09, G:0.16, T:0.46
Consensus pattern (24 bp):
ATATGATATTTGACCTGAATTCTG
Found at i:746218 original size:53 final size:53
Alignment explanation
Indices: 746134--746350 Score: 291
Period size: 53 Copynumber: 4.2 Consensus size: 53
746124 TTTCTAGGTA
* *
746134 CTAAGATATTGAGAGATGTACATACTTACACCAGTATAAATATGTGTTAATTG
1 CTAAGATATTGAGAGATGTACATACTTACACCAGTGTAAGTATGTGTTAATTG
*
746187 CTATGATATTGAGAGATGTACATACTTACACC-GATGTAAGTATGTGTTAATTG
1 CTAAGATATTGAGAGATGTACATACTTACACCAG-TGTAAGTATGTGTTAATTG
* * * * * *
746240 CTAAGGTATTGCGAAATGTACATACTTACACCGGTGCAAGTATATGTTAATTG
1 CTAAGATATTGAGAGATGTACATACTTACACCAGTGTAAGTATGTGTTAATTG
* *
746293 CTAAGATATTGAGATATG----TACGTACACCAGTGTAAGTATGTGTTAATTG
1 CTAAGATATTGAGAGATGTACATACTTACACCAGTGTAAGTATGTGTTAATTG
746342 CTAAGATAT
1 CTAAGATAT
746351 GATAGTCGTT
Statistics
Matches: 146, Mismatches: 16, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
49 36 0.25
52 1 0.01
53 108 0.74
54 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34
Consensus pattern (53 bp):
CTAAGATATTGAGAGATGTACATACTTACACCAGTGTAAGTATGTGTTAATTG
Found at i:750609 original size:32 final size:32
Alignment explanation
Indices: 750563--750630 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
750553 TATGTGAGTG
750563 AAGACTCTGCTTAACCTATGAACAAAAATTTA
1 AAGACTCTGCTTAACCTATGAACAAAAATTTA
* *
750595 AAGACTCTGGTTAACCTATGAACAACAATTTA
1 AAGACTCTGCTTAACCTATGAACAAAAATTTA
750627 AAGA
1 AAGA
750631 GACCATTTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (32 bp):
AAGACTCTGCTTAACCTATGAACAAAAATTTA
Found at i:752351 original size:37 final size:37
Alignment explanation
Indices: 752292--752402 Score: 161
Period size: 37 Copynumber: 3.0 Consensus size: 37
752282 ATTCCCACCA
** *
752292 TGGGAAAGCATGGTGCTGAATATTATTCATTATCCAT
1 TGGGAAAGCATACTGCTGAATATTATGCATTATCCAT
* *
752329 TGGGAAAGCATACTGCTAAATATTATGCATTATCTAT
1 TGGGAAAGCATACTGCTGAATATTATGCATTATCCAT
752366 TGGGAAAGCATACTGCTGAATA-TAGTGCATTATCCAT
1 TGGGAAAGCATACTGCTGAATATTA-TGCATTATCCAT
752403 GGTGCTAGAT
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
36 2 0.03
37 64 0.97
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.33
Consensus pattern (37 bp):
TGGGAAAGCATACTGCTGAATATTATGCATTATCCAT
Found at i:765581 original size:15 final size:16
Alignment explanation
Indices: 765563--765594 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
765553 TAGATAAGAA
765563 AAAATAAAT-AAATAT
1 AAAATAAATCAAATAT
765578 AAAATAAATCAAATAT
1 AAAATAAATCAAATAT
765594 A
1 A
765595 TATATATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (16 bp):
AAAATAAATCAAATAT
Found at i:765601 original size:24 final size:25
Alignment explanation
Indices: 765564--765612 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
765554 AGATAAGAAA
765564 AAATAAATAAATATAA-AATAAATC
1 AAATAAATAAATATAATAATAAATC
* * *
765588 AAATATATATATATAATATTAAATC
1 AAATAAATAAATATAATAATAAATC
765613 TGAAGAGACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (25 bp):
AAATAAATAAATATAATAATAAATC
Found at i:767055 original size:25 final size:24
Alignment explanation
Indices: 766987--767047 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 24
766977 AAAAAGTTAA
*
766987 AAATGTTAAATAAGAA-ATAATAAAT
1 AAATATTAAATAA-AACA-AATAAAT
*
767012 AAATATTAAATAAAACAAATATAT
1 AAATATTAAATAAAACAAATAAAT
767036 ATAATATTAAAT
1 A-AATATTAAAT
767048 GAATCAAAGG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 9 0.28
25 23 0.72
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (24 bp):
AAATATTAAATAAAACAAATAAAT
Found at i:767085 original size:10 final size:8
Alignment explanation
Indices: 767059--767173 Score: 58
Period size: 8 Copynumber: 14.2 Consensus size: 8
767049 AATCAAAGGG
767059 AAAAATAA
1 AAAAATAA
767067 AAAAATAA
1 AAAAATAA
767075 AAAAATGTAA
1 AAAAA--TAA
***
767085 AATTCTAA
1 AAAAATAA
*
767093 AAGTAAT-A
1 AA-AAATAA
767101 AAAAATAA
1 AAAAATAA
767109 AAAAAT-A
1 AAAAATAA
* *
767116 AGAAGT-A
1 AAAAATAA
*
767123 AAAAATAT
1 AAAAATAA
*
767131 AAAATTAA
1 AAAAATAA
767139 AAATAAT-A
1 AAA-AATAA
**
767147 AAAAATGCT
1 AAAAAT-AA
*
767156 AAAATTAA
1 AAAAATAA
767164 AAAAATAA
1 AAAAATAA
767172 AA
1 AA
767174 CCAACTTTTT
Statistics
Matches: 80, Mismatches: 19, Indels: 16
0.70 0.17 0.14
Matches are distributed among these distances:
7 16 0.20
8 50 0.62
9 9 0.11
10 5 0.06
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.20
Consensus pattern (8 bp):
AAAAATAA
Found at i:767160 original size:25 final size:23
Alignment explanation
Indices: 767059--767173 Score: 97
Period size: 24 Copynumber: 4.8 Consensus size: 23
767049 AATCAAAGGG
* *
767059 AAAAATAAAAAAATAAAAAAATGT
1 AAAATTAAAAAAAT-AAAAAATAT
* *
767083 AAAATTCTAAAAGTAATAAAAAATAA
1 AAAA-T-TAAAA-AAATAAAAAATAT
* * *
767109 AAAAAT-AAGAAGTAAAAAATAT
1 AAAATTAAAAAAATAAAAAATAT
*
767131 AAAATTAAAAATAATAAAAAATGCT
1 AAAATTAAAAA-AATAAAAAAT-AT
767156 AAAATTAAAAAAATAAAA
1 AAAATTAAAAAAATAAAA
767174 CCAACTTTTT
Statistics
Matches: 72, Mismatches: 13, Indels: 12
0.74 0.13 0.12
Matches are distributed among these distances:
22 15 0.21
23 5 0.07
24 21 0.29
25 12 0.17
26 16 0.22
27 3 0.04
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.20
Consensus pattern (23 bp):
AAAATTAAAAAAATAAAAAATAT
Found at i:767173 original size:14 final size:14
Alignment explanation
Indices: 767101--767150 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
767091 AAAAGTAATA
767101 AAAAATAAAAAAAT
1 AAAAATAAAAAAAT
*
767115 AAGAAGTAAAAAATAT
1 AA-AAATAAAAAA-AT
*
767131 AAAATTAAAAATAAT
1 AAAAATAAAAA-AAT
767146 AAAAA
1 AAAAA
767151 ATGCTAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
14 2 0.07
15 23 0.77
16 5 0.17
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (14 bp):
AAAAATAAAAAAAT
Found at i:767838 original size:3 final size:3
Alignment explanation
Indices: 767820--767862 Score: 54
Period size: 3 Copynumber: 14.3 Consensus size: 3
767810 GGCTTACAAA
767820 AAT AAT AA- AAT AAAT AAT AAT AAT AAT AAT AAAT AAT AA- AAT A
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT A
767863 TTTTTGTAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
2 4 0.11
3 26 0.72
4 6 0.17
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:768802 original size:124 final size:124
Alignment explanation
Indices: 768570--769764 Score: 1730
Period size: 124 Copynumber: 9.7 Consensus size: 124
768560 GTTGAAAGAT
* * * * * * * *
768570 GCCCCTTCATTGTGAAGTTGAGCTTTGAAATGGATATCATTTGTTGTGAAGTTGAAATTCAATCT
1 GCCCATTCGTTGTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCT
* * * **
768635 AAAGATGGATGTTGTTGGTGGGCATGATGCCCTTCGTCGTGAAGTTGAAATCGTGGATG
66 AAAGATGAATGTTGCTGGTGGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATG
* * * *
768694 ACCCATTTGTTATGAAGTTGAGCCTTGAATTGGATATCCTTCGCCGTGAAGTTGAAATCCAATCT
1 GCCCATTCGTTGTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCT
* * *
768759 AAAGATTAATGTTGCTGGTGGGTACGTTATCCTTCGTCGTGAAGTTGAAATCGTGGATG
66 AAAGATGAATGTTGCTGGTGGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATG
* * * *
768818 ACCCCTTCGTTATGAAGTTGAGCCTTGAATTGGATATCCTTCGCCGTGAAGTTGAAATCCAATCT
1 GCCCATTCGTTGTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCT
* * * * *
768883 AAAGATTAATGTTGCTGGTGGGTATGTTATCCTTCGTCGTGAAGTTGAAATCGTGAATG
66 AAAGATGAATGTTGCTGGTGGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATG
* * *
768942 ACCTATTCGTTATGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCT
1 GCCCATTCGTTGTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCT
* * * *
769007 AAAGATGAATATTACTGGTGGGCACGATATCCTTCGTCATGAAGTTGAAATCGTAGATG
66 AAAGATGAATGTTGCTGGTGGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATG
* *
769066 GCTCATTCGTTGTGAAGTTGAGCCTTGAATTGGATATCCTTCTTCGTGAAGTTGAAATCCAATCT
1 GCCCATTCGTTGTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCT
* *
769131 AAAGATGAATGTTGCTGGT-GGCATGATATCCTTCGTCGTGAAGTTAAAATCGTGGATG
66 AAAGATGAATGTTGCTGGTGGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATG
* *
769189 GCCCATTCGTTGTGAAGTTGAGCCTTGAATTGGATATCATTCGTCGTGAAGTTTAAATCCAATCT
1 GCCCATTCGTTGTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCT
* *
769254 AAAGATGAATGTTGTTGGTGGGCACGATATCCTTCGTCATGAAGTTGAAATCGTGGATG
66 AAAGATGAATGTTGCTGGTGGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATG
* * *
769313 GCCCCTTCGTTGTGAAGTTGAGCCTTGAATTGGACATCCTTCGTCGCGAAGTTGAAATCCAATCT
1 GCCCATTCGTTGTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCT
* * * * *
769378 AAAGATGAATGTTACTGGTGGGCACGATATCATTCATGGTGAAGTTGAAATTGTGGATG
66 AAAGATGAATGTTGCTGGTGGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATG
* * * *
769437 ACCCTTTCGTTGTAAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCA
1 GCCCATTCGTTGTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCT
* * *
769502 AAAGATGAATGTTGTTGGTGGGCACGATATCCTTCGTCATGAAGTTGAAATTGTGGATG
66 AAAGATGAATGTTGCTGGTGGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATG
* * * *
769561 GCCCTTTCGTTATGAAGTTGAGCCTTGAATTGAATATCCTTCGTTGTGAAGTTGAAATCCAATCT
1 GCCCATTCGTTGTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCT
* * * *
769626 AAATATTAATGTTACTGGTGGGCACGATATCCTTCG-CTGTGAAGTTGAAATCATGGATG
66 AAAGATGAATGTTGCTGGTGGGCACGATATCCTTCGTC-GTGAAGTTGAAATCGTGGATG
* * *
769685 GCCCCTTCGTTGTAAAGTTGAGCCTTGAATTGGATATCCTTCATCGTGAAGTTGAAAT-CAATCT
1 GCCCATTCGTTGTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCT
769749 AAAGATGAATGTTGCT
66 AAAGATGAATGTTGCT
769765 TCGAGTTCAA
Statistics
Matches: 968, Mismatches: 101, Indels: 5
0.90 0.09 0.00
Matches are distributed among these distances:
123 134 0.14
124 834 0.86
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (124 bp):
GCCCATTCGTTGTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCT
AAAGATGAATGTTGCTGGTGGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATG
Found at i:774757 original size:24 final size:24
Alignment explanation
Indices: 774724--774775 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
774714 GGGATGGAAG
774724 TGAAAAAACACTTTCTATTAAGCT
1 TGAAAAAACACTTTCTATTAAGCT
* *
774748 TGAAAGAACACTTTCTATTGAGCT
1 TGAAAAAACACTTTCTATTAAGCT
774772 TGAA
1 TGAA
774776 GGACACCGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.33
Consensus pattern (24 bp):
TGAAAAAACACTTTCTATTAAGCT
Found at i:775542 original size:24 final size:24
Alignment explanation
Indices: 775515--775568 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
775505 CACTGTTGGT
775515 TGGTTTGATGAATTTATTTTGTTA
1 TGGTTTGATGAATTTATTTTGTTA
775539 TGGTTTGATGAATTTATTTTGTTA
1 TGGTTTGATGAATTTATTTTGTTA
*
775563 TTGTTT
1 TGGTTT
775569 TCCTAGAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.19, C:0.00, G:0.20, T:0.61
Consensus pattern (24 bp):
TGGTTTGATGAATTTATTTTGTTA
Found at i:779401 original size:15 final size:15
Alignment explanation
Indices: 779383--779438 Score: 67
Period size: 15 Copynumber: 3.6 Consensus size: 15
779373 TAACCGGTTT
779383 CGGTTTTAAAAAAAC
1 CGGTTTTAAAAAAAC
*
779398 CGGTTTTTTTAAAAAAC
1 CGG--TTTTAAAAAAAC
*
779415 CGGTTATAAAAAAAC
1 CGGTTTTAAAAAAAC
*
779430 CGATTTTAA
1 CGGTTTTAA
779439 TATTCCAGAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
15 20 0.59
17 14 0.41
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.32
Consensus pattern (15 bp):
CGGTTTTAAAAAAAC
Found at i:779411 original size:17 final size:17
Alignment explanation
Indices: 779386--779436 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
779376 CCGGTTTCGG
779386 TTTTAAAAAAACCGGTT
1 TTTTAAAAAAACCGGTT
*
779403 TTTTTAAAAAACCGG--
1 TTTTAAAAAAACCGGTT
* *
779418 TTATAAAAAAACCGATT
1 TTTTAAAAAAACCGGTT
779435 TT
1 TT
779437 AATATTCCAG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 12 0.43
17 16 0.57
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (17 bp):
TTTTAAAAAAACCGGTT
Found at i:779855 original size:13 final size:13
Alignment explanation
Indices: 779834--779888 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
779824 AAGTTCGATA
*
779834 AATTTAAATACTT
1 AATTGAAATACTT
779847 AATTGAAATACTT
1 AATTGAAATACTT
* *
779860 AATT-AACTCAACAT
1 AATTGAAAT--ACTT
779874 AATTGAAATACTT
1 AATTGAAATACTT
779887 AA
1 AA
779889 ATACTTCCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.49, C:0.11, G:0.04, T:0.36
Consensus pattern (13 bp):
AATTGAAATACTT
Found at i:779970 original size:32 final size:33
Alignment explanation
Indices: 779874--779972 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
779864 AACTCAACAT
* * *
779874 AATTGAAATACTTAAATACTTCCAAGTTTGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
779907 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
779940 AATTCAAATACTTAAAAACTT-CAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
779972 A
1 A
779973 TTGAAAAAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 12 0.19
33 51 0.81
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.32
Consensus pattern (33 bp):
AATTCAAATACTTAAAAACTTCCAAGTTCGATA
Found at i:779992 original size:21 final size:21
Alignment explanation
Indices: 779967--780006 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
779957 ACTTCAAGTT
779967 CGATAATTGAAAAAAAGTTTA
1 CGATAATTGAAAAAAAGTTTA
*
779988 CGATAATTGAAATAAAGTT
1 CGATAATTGAAAAAAAGTT
780007 ATAAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.50, C:0.05, G:0.15, T:0.30
Consensus pattern (21 bp):
CGATAATTGAAAAAAAGTTTA
Found at i:782324 original size:12 final size:12
Alignment explanation
Indices: 782307--782352 Score: 56
Period size: 12 Copynumber: 3.6 Consensus size: 12
782297 TTCGGATAAA
782307 AACCGGTTTTTT
1 AACCGGTTTTTT
782319 AACCGGTTTTTTT
1 AACCGG-TTTTTT
782332 CAAACCGGTTTTTT
1 --AACCGGTTTTTT
*
782346 ATCCGGT
1 AACCGGT
782353 AAAAAAACCG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
12 12 0.40
13 6 0.20
14 6 0.20
15 6 0.20
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.46
Consensus pattern (12 bp):
AACCGGTTTTTT
Found at i:782337 original size:15 final size:14
Alignment explanation
Indices: 782306--782345 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
782296 TTTCGGATAA
782306 AAACCGG-TTTTTT
1 AAACCGGTTTTTTT
782319 -AACCGGTTTTTTT
1 AAACCGGTTTTTTT
782332 CAAACCGGTTTTTT
1 -AAACCGGTTTTTT
782346 ATCCGGTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 6 0.25
13 6 0.25
15 12 0.50
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.47
Consensus pattern (14 bp):
AAACCGGTTTTTTT
Found at i:796726 original size:21 final size:22
Alignment explanation
Indices: 796634--796754 Score: 111
Period size: 23 Copynumber: 5.4 Consensus size: 22
796624 GTTCTACGAA
**
796634 GTCCTTCGGGACAATTCTACCTG
1 GTCCTTCGGGAC-ATTCTATGTG
* * *
796657 GTCCTTCGGAGTA-TTTCTACGCG
1 GTCCTTCGG-G-ACATTCTATGTG
*
796680 GTCCTTCGGGACATTTCTATGCG
1 GTCCTTCGGGACA-TTCTATGTG
*
796703 GTCCTTCGGGACA-TATATGTG
1 GTCCTTCGGGACATTCTATGTG
*
796724 GTCCTCCGGGACATTCTATGTG
1 GTCCTTCGGGACATTCTATGTG
*
796746 GTACTTCGG
1 GTCCTTCGG
796755 TGCAAATTTC
Statistics
Matches: 82, Mismatches: 11, Indels: 11
0.79 0.11 0.11
Matches are distributed among these distances:
21 19 0.23
22 15 0.18
23 46 0.56
24 1 0.01
25 1 0.01
ACGTcount: A:0.15, C:0.26, G:0.26, T:0.33
Consensus pattern (22 bp):
GTCCTTCGGGACATTCTATGTG
Found at i:804448 original size:2 final size:2
Alignment explanation
Indices: 804436--804477 Score: 75
Period size: 2 Copynumber: 20.5 Consensus size: 2
804426 TAATACGATA
804436 AT AT GAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
804478 CTCACACAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 37 0.95
3 2 0.05
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:805008 original size:2 final size:2
Alignment explanation
Indices: 805001--805069 Score: 138
Period size: 2 Copynumber: 34.5 Consensus size: 2
804991 ATTAAACAAT
805001 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
805043 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
805070 TTTCATATTA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:805991 original size:60 final size:60
Alignment explanation
Indices: 805868--805980 Score: 154
Period size: 60 Copynumber: 1.9 Consensus size: 60
805858 CACCTATGTT
* * * * * * *
805868 CTATAGGGAGTTTCTTTGTTGAGTCCCTCGACTATTAAAAGTCATAAAATGGTAGCCCGA
1 CTATAGGGAGTTGCTTTGTTAAGTCCCTCAAATATTAAAAGTCACAAAATGATAGCCCAA
*
805928 CTATAGGGAGTTGCTTTGTTAAGTCCCTCAAATATTAAAAGTTACAAAATGAT
1 CTATAGGGAGTTGCTTTGTTAAGTCCCTCAAATATTAAAAGTCACAAAATGAT
805981 CACTCAACTA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
60 46 1.00
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (60 bp):
CTATAGGGAGTTGCTTTGTTAAGTCCCTCAAATATTAAAAGTCACAAAATGATAGCCCAA
Found at i:806816 original size:26 final size:26
Alignment explanation
Indices: 806733--806820 Score: 72
Period size: 26 Copynumber: 3.3 Consensus size: 26
806723 ACAATAAACC
*
806733 AACACAAGATGTGCAAAATAAAAATAT
1 AACACAAGATGTTCAAAAT-AAAATAT
* * ** *
806760 TACATAAGA-GTATCAAGTCTCAAAT-T
1 AACACAAGATGT-TCAA-AATAAAATAT
806786 AACACAAGATGTTCAAAATAAAATAT
1 AACACAAGATGTTCAAAATAAAATAT
*
806812 CACACAAGA
1 AACACAAGA
806821 GTATCAAGTC
Statistics
Matches: 45, Mismatches: 12, Indels: 9
0.68 0.18 0.14
Matches are distributed among these distances:
25 5 0.11
26 23 0.51
27 16 0.36
28 1 0.02
ACGTcount: A:0.53, C:0.15, G:0.10, T:0.22
Consensus pattern (26 bp):
AACACAAGATGTTCAAAATAAAATAT
Found at i:808058 original size:21 final size:21
Alignment explanation
Indices: 808029--808081 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
808019 ATTATGACTA
808029 TCGCATTGCGATTTTCCAATT
1 TCGCATTGCGATTTTCCAATT
* *
808050 TCGCGTTGCGATTTTCCCATT
1 TCGCATTGCGATTTTCCAATT
*
808071 TCGCAATGCGA
1 TCGCATTGCGA
808082 ATACGTAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.17, C:0.26, G:0.19, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAATT
Found at i:808114 original size:21 final size:20
Alignment explanation
Indices: 808071--808117 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
808061 TTTTCCCATT
*
808071 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGAAAA
**
808091 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAA-TACGAAAA
808112 TCGCAA
1 TCGCAA
808118 CTCGATACTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.21
Consensus pattern (20 bp):
TCGCAATGCGAATACGAAAA
Found at i:808137 original size:20 final size:20
Alignment explanation
Indices: 808112--808170 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
808102 ATTTGGAAAA
808112 TCGCAACTCGATACTGACTT
1 TCGCAACTCGATACTGACTT
808132 TCGCAACTCGATACTGACTT
1 TCGCAACTCGATACTGACTT
* *
808152 TCGCAACGCGATTCTGACT
1 TCGCAACTCGATACTGACT
808171 ATCACAACGA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.29
Consensus pattern (20 bp):
TCGCAACTCGATACTGACTT
Found at i:808178 original size:20 final size:20
Alignment explanation
Indices: 808112--808203 Score: 94
Period size: 20 Copynumber: 4.6 Consensus size: 20
808102 ATTTGGAAAA
*
808112 TCGCAACTCGATACTGACTT
1 TCGCAACGCGATACTGACTT
*
808132 TCGCAACTCGATACTGACTT
1 TCGCAACGCGATACTGACTT
* *
808152 TCGCAACGCGATTCTGACTA
1 TCGCAACGCGATACTGACTT
* * * * *
808172 TCACAACGAGATAATCATTT
1 TCGCAACGCGATACTGACTT
*
808192 TCGCAATGCGAT
1 TCGCAACGCGAT
808204 TTTCAAAGCG
Statistics
Matches: 59, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 59 1.00
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.28
Consensus pattern (20 bp):
TCGCAACGCGATACTGACTT
Found at i:808374 original size:22 final size:22
Alignment explanation
Indices: 808349--808394 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
808339 CTACGGCGAC
808349 ATCCGTCCCCATCTCCGACGAA
1 ATCCGTCCCCATCTCCGACGAA
*
808371 ATCCGTCCCCATCTCCGGCGAA
1 ATCCGTCCCCATCTCCGACGAA
808393 AT
1 AT
808395 TCTTCTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.22, C:0.43, G:0.15, T:0.20
Consensus pattern (22 bp):
ATCCGTCCCCATCTCCGACGAA
Found at i:808775 original size:20 final size:19
Alignment explanation
Indices: 808736--808787 Score: 68
Period size: 20 Copynumber: 2.7 Consensus size: 19
808726 ATTTGAAACC
*
808736 GAGAATCGCAACACGAAAT
1 GAGAATCGCAACGCGAAAT
808755 GAGAATCGCAACGCGGAAAT
1 GAGAATCGCAACGC-GAAAT
**
808775 GACTATCGCAACG
1 GAGAATCGCAACG
808788 AGAGAATCAC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.40, C:0.23, G:0.25, T:0.12
Consensus pattern (19 bp):
GAGAATCGCAACGCGAAAT
Found at i:808827 original size:14 final size:14
Alignment explanation
Indices: 808808--808866 Score: 73
Period size: 14 Copynumber: 3.9 Consensus size: 14
808798 AATACGAATT
808808 AAAATCGCAACGAC
1 AAAATCGCAACGAC
808822 AAAATCGCAACGCGAAACC
1 AAAATCGCAA--CG--A-C
808841 AAAATCGCAACGAC
1 AAAATCGCAACGAC
808855 AAAATCGCAACG
1 AAAATCGCAACG
808867 CGAAACCAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
14 23 0.57
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 11 0.28
ACGTcount: A:0.49, C:0.29, G:0.15, T:0.07
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:808850 original size:33 final size:33
Alignment explanation
Indices: 808808--808885 Score: 156
Period size: 33 Copynumber: 2.4 Consensus size: 33
808798 AATACGAATT
808808 AAAATCGCAACGACAAAATCGCAACGCGAAACC
1 AAAATCGCAACGACAAAATCGCAACGCGAAACC
808841 AAAATCGCAACGACAAAATCGCAACGCGAAACC
1 AAAATCGCAACGACAAAATCGCAACGCGAAACC
808874 AAAATCGCAACG
1 AAAATCGCAACG
808886 CGAAACCAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.49, C:0.29, G:0.15, T:0.06
Consensus pattern (33 bp):
AAAATCGCAACGACAAAATCGCAACGCGAAACC
Found at i:808907 original size:19 final size:19
Alignment explanation
Indices: 808821--808901 Score: 118
Period size: 19 Copynumber: 4.5 Consensus size: 19
808811 ATCGCAACGA
808821 CAAAATCGCAACGCGAAAC
1 CAAAATCGCAACGCGAAAC
808840 CAAAATCGCAA--CG--A-
1 CAAAATCGCAACGCGAAAC
808854 CAAAATCGCAACGCGAAAC
1 CAAAATCGCAACGCGAAAC
808873 CAAAATCGCAACGCGAAAC
1 CAAAATCGCAACGCGAAAC
*
808892 CAAATTCGCA
1 CAAAATCGCA
808902 TTGCGATTTT
Statistics
Matches: 56, Mismatches: 1, Indels: 10
0.84 0.01 0.15
Matches are distributed among these distances:
14 11 0.20
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 39 0.70
ACGTcount: A:0.47, C:0.31, G:0.15, T:0.07
Consensus pattern (19 bp):
CAAAATCGCAACGCGAAAC
Found at i:808959 original size:18 final size:18
Alignment explanation
Indices: 808936--808994 Score: 65
Period size: 18 Copynumber: 3.5 Consensus size: 18
808926 GATTTTCTAG
808936 TTGCGATTTCAATTCGCA
1 TTGCGATTTCAATTCGCA
808954 TTGCGATTT---TCTCG--
1 TTGCGATTTCAAT-TCGCA
808968 TTGCGATTTCAATTCGCA
1 TTGCGATTTCAATTCGCA
*
808986 TTACGATTT
1 TTGCGATTT
808995 TTGCGTTGCG
Statistics
Matches: 34, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
14 9 0.26
15 1 0.03
16 6 0.18
17 1 0.03
18 17 0.50
ACGTcount: A:0.19, C:0.20, G:0.17, T:0.44
Consensus pattern (18 bp):
TTGCGATTTCAATTCGCA
Found at i:809002 original size:32 final size:32
Alignment explanation
Indices: 808902--809006 Score: 149
Period size: 32 Copynumber: 3.2 Consensus size: 32
808892 CAAATTCGCA
* *
808902 TTGCGATTTTCATTTCCGCATTACGATTTTCTAG
1 TTGCGA-TTTCAATT-CGCATTACGATTTTCTCG
*
808936 TTGCGATTTCAATTCGCATTGCGATTTTCTCG
1 TTGCGATTTCAATTCGCATTACGATTTTCTCG
808968 TTGCGATTTCAATTCGCATTACGATTTT-TGCG
1 TTGCGATTTCAATTCGCATTACGATTTTCT-CG
809000 TTGCGAT
1 TTGCGAT
809007 AGTCATTTTC
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
31 1 0.02
32 52 0.79
33 7 0.11
34 6 0.09
ACGTcount: A:0.17, C:0.20, G:0.18, T:0.45
Consensus pattern (32 bp):
TTGCGATTTCAATTCGCATTACGATTTTCTCG
Found at i:809020 original size:20 final size:19
Alignment explanation
Indices: 808993--809047 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 19
808983 GCATTACGAT
808993 TTTTGCGTTGCGATAGTCA
1 TTTTGCGTTGCGATAGTCA
809012 TTTTCGCGTTGCGATAGTCA
1 TTTT-GCGTTGCGATAGTCA
809032 TTTTGTCGTTGCGATA
1 TTTTG-CGTTGCGATA
809048 TTAAGTTTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
19 5 0.15
20 29 0.85
ACGTcount: A:0.15, C:0.16, G:0.25, T:0.44
Consensus pattern (19 bp):
TTTTGCGTTGCGATAGTCA
Found at i:810394 original size:18 final size:18
Alignment explanation
Indices: 810373--810420 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
810363 TCCACTTCGG
810373 GAGCCATCACCTCACCCA
1 GAGCCATCACCTCACCCA
810391 GAGCCATCACCTCACCCA
1 GAGCCATCACCTCACCCA
*
810409 GAACCATCACCT
1 GAGCCATCACCT
810421 GATCGACCCG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.29, C:0.48, G:0.10, T:0.12
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:810956 original size:20 final size:19
Alignment explanation
Indices: 810933--811000 Score: 82
Period size: 20 Copynumber: 3.5 Consensus size: 19
810923 GAAACTTAAA
810933 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCG-AAATGACT
*
810953 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
810973 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
810992 ATCGCAACG
1 ATCGCAACG
811001 ACAAAATCGC
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
19 14 0.34
20 26 0.63
21 1 0.02
ACGTcount: A:0.38, C:0.24, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:811067 original size:14 final size:14
Alignment explanation
Indices: 811048--811106 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
811038 TTTCATTTCG
811048 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
811062 CGTTGCGATTTTCATTT
1 CGTTGCGA-TTT--TGT
811079 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
811095 CGTTGCGATTTT
1 CGTTGCGATTTT
811107 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 18 0.47
15 3 0.08
16 4 0.11
17 4 0.11
18 3 0.08
19 6 0.16
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.49
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:811141 original size:20 final size:20
Alignment explanation
Indices: 811095--811163 Score: 95
Period size: 20 Copynumber: 3.5 Consensus size: 20
811085 GCGATTTTGT
**
811095 CGTTGCGATTTTCATTT-CG
1 CGTTGCGATTGCCATTTCCG
*
811114 CATTGCGATTGCCATTTCCG
1 CGTTGCGATTGCCATTTCCG
*
811134 CGTTGCGATAGCCATTTCCG
1 CGTTGCGATTGCCATTTCCG
811154 CGTTGCGATT
1 CGTTGCGATT
811164 TTAAGTTTCG
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
19 14 0.33
20 29 0.67
ACGTcount: A:0.13, C:0.26, G:0.23, T:0.38
Consensus pattern (20 bp):
CGTTGCGATTGCCATTTCCG
Found at i:811142 original size:39 final size:33
Alignment explanation
Indices: 811031--811123 Score: 177
Period size: 33 Copynumber: 2.8 Consensus size: 33
811021 TAAATTCACA
*
811031 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
811064 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
811097 TTGCGATTTTCATTTCGCATTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATT
811124 GCCATTTCCG
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.12, C:0.18, G:0.22, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:811617 original size:42 final size:42
Alignment explanation
Indices: 811526--811617 Score: 121
Period size: 42 Copynumber: 2.2 Consensus size: 42
811516 CCCGACTCAC
* ** *
811526 CTGTCATCCCTCAAGAGTCCCCTCCAATTGTTCAAGAGACCC
1 CTGTCATCCCTCAAGAGTCACCTCCAACCGTTCAAGAGACCA
* * *
811568 CTATCATCCCTCAAGAGTCACCTCCCACCGTTCAAGAGGCCA
1 CTGTCATCCCTCAAGAGTCACCTCCAACCGTTCAAGAGACCA
811610 CTGTCATC
1 CTGTCATC
811618 GTTGAAGAGG
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.24, C:0.39, G:0.14, T:0.23
Consensus pattern (42 bp):
CTGTCATCCCTCAAGAGTCACCTCCAACCGTTCAAGAGACCA
Found at i:813039 original size:14 final size:14
Alignment explanation
Indices: 813019--813096 Score: 86
Period size: 14 Copynumber: 5.6 Consensus size: 14
813009 GATTGTTTAA
813019 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
* *
813033 ATGATTTGTAAATG
1 TTGATTTGTAAAAG
**
813047 TTGATTTGTTTAA-
1 TTGATTTGTAAAAG
*
813060 TTGGTTTGTAAAAG
1 TTGATTTGTAAAAG
* *
813074 ATGATTTGTAAATG
1 TTGATTTGTAAAAG
813088 TTGATTTGT
1 TTGATTTGT
813097 TTAATTGATG
Statistics
Matches: 50, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
13 10 0.20
14 40 0.80
ACGTcount: A:0.29, C:0.00, G:0.22, T:0.49
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:813058 original size:41 final size:41
Alignment explanation
Indices: 813007--813110 Score: 183
Period size: 41 Copynumber: 2.6 Consensus size: 41
812997 TTATTATTTT
813007 TTGA-TTGTTTAATTGATTTGTAAAAGATGATTTGTAAATG
1 TTGATTTGTTTAATTGATTTGTAAAAGATGATTTGTAAATG
*
813047 TTGATTTGTTTAATTGGTTTGTAAAAGATGATTTGTAAATG
1 TTGATTTGTTTAATTGATTTGTAAAAGATGATTTGTAAATG
*
813088 TTGATTTGTTTAATTGATGTGTA
1 TTGATTTGTTTAATTGATTTGTA
813111 CATAATTCTT
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
40 4 0.07
41 56 0.93
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (41 bp):
TTGATTTGTTTAATTGATTTGTAAAAGATGATTTGTAAATG
Done.