Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_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: 12923621
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 55 of 65
Found at i:10850973 original size:19 final size:22
Alignment explanation
Indices: 10850938--10850991 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
10850928 ACGCAGACTG
*
10850938 TAAATTTTTTTTAATTAAAAT-
1 TAAATATTTTTTAATTAAAATA
10850959 T-AATATTTTTT-ATTAAAATGA
1 TAAATATTTTTTAATTAAAAT-A
10850980 TAAATATTTTTT
1 TAAATATTTTTT
10850992 TGGTGCGCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 8 0.28
20 9 0.31
21 2 0.07
22 10 0.34
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
TAAATATTTTTTAATTAAAATA
Found at i:10852461 original size:23 final size:23
Alignment explanation
Indices: 10852415--10852482 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
10852405 CACCACAGCT
* *
10852415 CGTATAAATGCACCG-AGTGCCA
1 CGTAGAAATGCACCGAAGTGTCA
* **
10852437 CGTAGAATTGCACTTAAGTGTCA
1 CGTAGAAATGCACCGAAGTGTCA
10852460 CGTAGAAATGCACCGAAGTGTCA
1 CGTAGAAATGCACCGAAGTGTCA
10852483 TATAAGATGT
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
22 11 0.30
23 26 0.70
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.22
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGTCA
Found at i:10856471 original size:3 final size:3
Alignment explanation
Indices: 10856456--10856548 Score: 168
Period size: 3 Copynumber: 30.7 Consensus size: 3
10856446 CGATTTAATT
*
10856456 TTA TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10856504 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TT
10856549 GTAAAGACTT
Statistics
Matches: 87, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
3 84 0.97
4 3 0.03
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:10856828 original size:31 final size:30
Alignment explanation
Indices: 10856730--10856834 Score: 103
Period size: 31 Copynumber: 3.5 Consensus size: 30
10856720 GCAGTGTTCA
* *
10856730 ACTCGTGTTCGTTAAAAAAAATTTGTTGCTCA
1 ACTCGTGCTCGTT-AAAAAAA-TTGTTGCTCG
*
10856762 ACTCGTTGCTCGTT---AAAATT-TTGTTCG
1 ACTCG-TGCTCGTTAAAAAAATTGTTGCTCG
10856789 ACAT-GTGCTCGTTAAAAAAACTTGTTGCTCG
1 AC-TCGTGCTCGTTAAAAAAA-TTGTTGCTCG
10856820 ACTCGTGCTCGTTAA
1 ACTCGTGCTCGTTAA
10856835 GGTCGTTGCT
Statistics
Matches: 61, Mismatches: 4, Indels: 17
0.74 0.05 0.21
Matches are distributed among these distances:
26 8 0.13
27 8 0.13
28 3 0.05
29 8 0.13
30 3 0.05
31 19 0.31
32 5 0.08
33 7 0.11
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (30 bp):
ACTCGTGCTCGTTAAAAAAATTGTTGCTCG
Found at i:10858054 original size:20 final size:20
Alignment explanation
Indices: 10858022--10858059 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
10858012 GTCTTCTTCT
*
10858022 TTTTCTTTATGCT-GTTTTG
1 TTTTCTTGATGCTAGTTTTG
10858041 TTTTCTTGATTGCTAGTTT
1 TTTTCTTGA-TGCTAGTTT
10858060 ACAAGTAGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 8 0.50
20 4 0.25
21 4 0.25
ACGTcount: A:0.08, C:0.11, G:0.16, T:0.66
Consensus pattern (20 bp):
TTTTCTTGATGCTAGTTTTG
Found at i:10859255 original size:14 final size:14
Alignment explanation
Indices: 10859236--10859262 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10859226 AAGTTAACTC
10859236 GTCTGAGTCAACCA
1 GTCTGAGTCAACCA
10859250 GTCTGAGTCAACC
1 GTCTGAGTCAACC
10859263 CGTTTACTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.22
Consensus pattern (14 bp):
GTCTGAGTCAACCA
Found at i:10865678 original size:27 final size:25
Alignment explanation
Indices: 10865619--10865685 Score: 64
Period size: 25 Copynumber: 2.5 Consensus size: 25
10865609 CTATATTGTA
10865619 TCTCTATTTTTTTTATATTTTGATTT
1 TCTC-ATTTTTTTTATATTTTGATTT
**
10865645 TGACATTTTTTTTAT-TGTTTAGCATTT
1 TCTCATTTTTTTTATAT-TTT-G-ATTT
10865672 TCTCATTTATTTTT
1 TCTCATTT-TTTTT
10865686 TTCTAAGGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
24 1 0.03
25 14 0.42
26 3 0.09
27 10 0.30
28 5 0.15
ACGTcount: A:0.16, C:0.09, G:0.06, T:0.69
Consensus pattern (25 bp):
TCTCATTTTTTTTATATTTTGATTT
Found at i:10866688 original size:15 final size:16
Alignment explanation
Indices: 10866661--10866690 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
10866651 TTGTTCAAAA
10866661 AATAATATTTTTTATG
1 AATAATATTTTTTATG
10866677 AATAAT-TTTTTTAT
1 AATAATATTTTTTAT
10866691 TTTACTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (16 bp):
AATAATATTTTTTATG
Found at i:10868008 original size:19 final size:19
Alignment explanation
Indices: 10867981--10868020 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
10867971 CCAAGCTTAC
10867981 GAATATGCACGACATGGGT
1 GAATATGCACGACATGGGT
*
10868000 GAATTTGCACGACATGGGT
1 GAATATGCACGACATGGGT
10868019 GA
1 GA
10868021 CATGCATGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.30, C:0.15, G:0.33, T:0.23
Consensus pattern (19 bp):
GAATATGCACGACATGGGT
Found at i:10869035 original size:20 final size:21
Alignment explanation
Indices: 10869010--10869143 Score: 139
Period size: 21 Copynumber: 6.5 Consensus size: 21
10869000 TTTTCCCAAT
*
10869010 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
10869030 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
10869051 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
10869071 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
10869092 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
10869112 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
10869133 TCGCAATGCGA
1 TCGCAATGCGA
10869144 TACTTACTAT
Statistics
Matches: 90, Mismatches: 21, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
20 43 0.48
21 47 0.52
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:10869158 original size:41 final size:41
Alignment explanation
Indices: 10869010--10869143 Score: 268
Period size: 41 Copynumber: 3.3 Consensus size: 41
10869000 TTTTCCCAAT
10869010 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
10869051 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
10869092 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
10869133 TCGCAATGCGA
1 TCGCAATGCGA
10869144 TACTTACTAT
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 93 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:10869174 original size:82 final size:82
Alignment explanation
Indices: 10869010--10869179 Score: 245
Period size: 82 Copynumber: 2.1 Consensus size: 82
10869000 TTTTCCCAAT
10869010 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAATCGCAATGCGAATAAGTAAATCGC
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAATCGCAATGCGAATAAGTAAATCGC
* **
10869075 AACGCGAATTGGGAAAA
66 AACGCGAAATGACAAAA
** *
10869092 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTTACTATCG
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAATCGCAATGCGAATAAGTA-AATCG
*
10869156 CAATGCGATAAT-ACAAAA
65 CAACGCGA-AATGACAAAA
10869174 TCGCAA
1 TCGCAA
10869180 CGAGATACTG
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
81 5 0.06
82 72 0.91
83 2 0.03
ACGTcount: A:0.41, C:0.19, G:0.22, T:0.19
Consensus pattern (82 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAATCGCAATGCGAATAAGTAAATCGC
AACGCGAAATGACAAAA
Found at i:10869222 original size:20 final size:20
Alignment explanation
Indices: 10869174--10869226 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
10869164 TAATACAAAA
* *
10869174 TCGCAACGAGATACTGACTT
1 TCGCAACGCGATTCTGACTT
10869194 TCGCAACGCGATTCTGACTT
1 TCGCAACGCGATTCTGACTT
10869214 TCGCAACGCGATT
1 TCGCAACGCGATT
10869227 TACATAGCGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (20 bp):
TCGCAACGCGATTCTGACTT
Found at i:10869780 original size:19 final size:19
Alignment explanation
Indices: 10869742--10869808 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
10869732 TTCGAGAATG
10869742 AAAATCGCAACGCGGAAATA
1 AAAATCGCAACGC-GAAATA
**
10869762 ACTATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
**
10869781 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATA
10869800 AAAATCGCA
1 AAAATCGCA
10869809 TTGCGATTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
19 30 0.73
20 11 0.27
ACGTcount: A:0.48, C:0.25, G:0.16, T:0.10
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:10869848 original size:19 final size:19
Alignment explanation
Indices: 10869804--10869986 Score: 138
Period size: 20 Copynumber: 10.1 Consensus size: 19
10869794 GAAACCAAAA
*
10869804 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
10869823 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
10869840 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
*
10869859 TCGTGGTTGCGATTTTCATT
1 TCG-CGTTGCGATTTTCATT
*
10869879 TCGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* **
10869895 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
10869912 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * **
10869926 TCTCATTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
10869945 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
10869965 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
10869985 TC
1 TC
10869987 AACCAAAAGA
Statistics
Matches: 130, Mismatches: 19, Indels: 30
0.73 0.11 0.17
Matches are distributed among these distances:
14 19 0.15
15 1 0.01
16 3 0.02
17 19 0.15
18 1 0.01
19 39 0.30
20 47 0.36
21 1 0.01
ACGTcount: A:0.13, C:0.21, G:0.21, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:10869879 original size:39 final size:36
Alignment explanation
Indices: 10869804--10869986 Score: 153
Period size: 33 Copynumber: 5.1 Consensus size: 36
10869794 GAAACCAAAA
*
10869804 TCGCATTGCGATTTTCATTTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCGTTGCGATTTTCATT
*
10869840 TCGCGTTGCGATTTTTATTTCGTGGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTC---GTTGCGATTTTCATT
* * * **
10869879 TCGCGTTGCGATTGTC---TGGTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATTTCGTTGCGATTTTCATT
* * **
10869912 TCGCGTTGCGA--TTC-TCTCATTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATTTCGTTGCGATTTTCATT
*
10869945 TCCGCGTTGCGATTCTCATTATCTCGTTGCGATTTTCATT
1 T-CGCGTTGCGATTTTCA-T-T-TCGTTGCGATTTTCATT
10869985 TC
1 TC
10869987 AACCAAAAGA
Statistics
Matches: 118, Mismatches: 17, Indels: 21
0.76 0.11 0.13
Matches are distributed among these distances:
31 2 0.02
33 38 0.32
34 10 0.08
36 22 0.19
38 1 0.01
39 30 0.25
40 15 0.13
ACGTcount: A:0.13, C:0.21, G:0.21, T:0.45
Consensus pattern (36 bp):
TCGCGTTGCGATTTTCATTTCGTTGCGATTTTCATT
Found at i:10872044 original size:42 final size:42
Alignment explanation
Indices: 10871984--10872106 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
10871974 GCCCGACTCG
* * *
10871984 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * *
10872026 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * ** * *
10872068 ACTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CCTATCATCCCTCAAGA-GTCCACTCCCACCGTTCAAGAG
10872107 CCCGATTCAC
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
42 62 0.94
43 4 0.06
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.23
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
Found at i:10872064 original size:21 final size:21
Alignment explanation
Indices: 10872040--10872106 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
10872030 TCATTCCTCG
10872040 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
10872061 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
10872082 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
10872103 AGAG
1 AGAG
10872107 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:10873484 original size:14 final size:14
Alignment explanation
Indices: 10873465--10873500 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
10873455 ATTGTTTAAT
10873465 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
10873479 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
10873493 TGATTTGT
1 TGATTTGT
10873501 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:10873701 original size:19 final size:19
Alignment explanation
Indices: 10873679--10873829 Score: 80
Period size: 19 Copynumber: 8.7 Consensus size: 19
10873669 CGAAATTAAA
10873679 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
10873698 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
10873713 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* *
10873731 TTCGCATTGCGA-----AA
1 TTCGCGTTGCGATTTTCAT
*
10873745 TTAGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
10873764 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
10873779 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* ** *
10873797 TTCGCATTGCGATAGTAAT
1 TTCGCGTTGCGATTTTCAT
10873816 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
10873830 GGACATTAAG
Statistics
Matches: 95, Mismatches: 21, Indels: 31
0.65 0.14 0.21
Matches are distributed among these distances:
14 28 0.29
16 6 0.06
17 6 0.06
19 45 0.47
20 10 0.11
ACGTcount: A:0.15, C:0.23, G:0.21, T:0.42
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:10873725 original size:33 final size:32
Alignment explanation
Indices: 10873683--10873809 Score: 193
Period size: 33 Copynumber: 3.9 Consensus size: 32
10873673 ATTAAATTCG
10873683 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
**
10873716 CGTTGCGATTTTCATTTCGCATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
10873749 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
10873782 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
10873810 AGTAATTTCC
Statistics
Matches: 86, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
31 3 0.03
33 80 0.93
35 3 0.03
ACGTcount: A:0.15, C:0.23, G:0.20, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:10873772 original size:66 final size:66
Alignment explanation
Indices: 10873676--10873808 Score: 248
Period size: 66 Copynumber: 2.0 Consensus size: 66
10873666 ACGCGAAATT
*
10873676 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
10873741 G
66 G
*
10873742 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
10873807 G
66 G
10873808 A
1 A
10873809 TAGTAATTTC
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.41
Consensus pattern (66 bp):
AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
G
Found at i:10876119 original size:12 final size:12
Alignment explanation
Indices: 10876102--10876126 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10876092 TCTTCGGGGA
10876102 CTTTTTCTTCTT
1 CTTTTTCTTCTT
10876114 CTTTTTCTTCTT
1 CTTTTTCTTCTT
10876126 C
1 C
10876127 AGGATTATAT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:10876335 original size:24 final size:24
Alignment explanation
Indices: 10876301--10876354 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
10876291 CTGAAACATC
* *
10876301 ATCAAAATCCGTGTATTGACCAAT
1 ATCAAAATCCGGGTATTGACCAAG
*
10876325 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGGGTATTGACCAAG
10876349 ATCAAA
1 ATCAAA
10876355 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGGGTATTGACCAAG
Found at i:10877437 original size:20 final size:20
Alignment explanation
Indices: 10877412--10877469 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
10877402 ATTCATTTGA
10877412 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
*
10877432 CTATCGTAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
* *
10877452 TTATCGCAACGAGAAAAT
1 CTATCGCAACGCGAAAAT
10877470 CGCAATGCGA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:10877512 original size:14 final size:16
Alignment explanation
Indices: 10877492--10877565 Score: 66
Period size: 19 Copynumber: 4.5 Consensus size: 16
10877482 TGAAAATCGC
10877492 ATTGCGATTTTC-TCG
1 ATTGCGATTTTCTTCG
10877507 -TTGCGATTTTCATTTCG
1 ATTGCGATTTTC--TTCG
10877524 CATTGCGATTTTCATTTCG
1 -ATTGCGATTTTC--TTCG
10877543 CATTGCGATTTTC-TCG
1 -ATTGCGATTTTCTTCG
10877559 -TTGCGAT
1 ATTGCGAT
10877566 AACCATTTTC
Statistics
Matches: 54, Mismatches: 0, Indels: 11
0.83 0.00 0.17
Matches are distributed among these distances:
14 18 0.33
16 3 0.06
17 3 0.06
19 30 0.56
ACGTcount: A:0.14, C:0.20, G:0.19, T:0.47
Consensus pattern (16 bp):
ATTGCGATTTTCTTCG
Found at i:10877529 original size:19 final size:19
Alignment explanation
Indices: 10877488--10877555 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
10877478 GAAATGAAAA
10877488 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
10877504 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
10877521 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
10877540 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
10877556 TCGTTGCGAT
Statistics
Matches: 47, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
14 11 0.23
16 3 0.06
17 3 0.06
19 30 0.64
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:10879611 original size:20 final size:19
Alignment explanation
Indices: 10879579--10879642 Score: 83
Period size: 19 Copynumber: 3.3 Consensus size: 19
10879569 ACTTAAAATT
10879579 GCAACGCGAAATGACTATC
1 GCAACGCGAAATGACTATC
*
10879598 GCAACGCGGAAATGGCTATC
1 GCAACGC-GAAATGACTATC
* **
10879618 GCAATGCGAAATGAAAATC
1 GCAACGCGAAATGACTATC
10879637 GCAACG
1 GCAACG
10879643 ACAAAATCGC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
19 21 0.55
20 17 0.45
ACGTcount: A:0.38, C:0.23, G:0.25, T:0.14
Consensus pattern (19 bp):
GCAACGCGAAATGACTATC
Found at i:10879650 original size:14 final size:14
Alignment explanation
Indices: 10879631--10879688 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
10879621 ATGCGAAATG
10879631 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
10879645 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
10879661 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
10879677 AAAATCGCAACG
1 AAAATCGCAACG
10879689 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:10879673 original size:32 final size:33
Alignment explanation
Indices: 10879615--10879693 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
10879605 GGAAATGGCT
*
10879615 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
10879648 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
10879680 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
10879694 CACAAATCGC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 30 0.67
33 15 0.33
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:10879741 original size:14 final size:14
Alignment explanation
Indices: 10879722--10879811 Score: 90
Period size: 14 Copynumber: 5.9 Consensus size: 14
10879712 TTTCATTTCG
10879722 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
10879736 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
10879752 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
*
10879768 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
10879784 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
10879800 CGTTGCGATTTT
1 CGTTGCGATTTT
10879812 CATTTCGCAT
Statistics
Matches: 64, Mismatches: 4, Indels: 16
0.76 0.05 0.19
Matches are distributed among these distances:
14 30 0.47
16 16 0.25
18 18 0.28
ACGTcount: A:0.11, C:0.18, G:0.23, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:10879753 original size:32 final size:32
Alignment explanation
Indices: 10879712--10879827 Score: 214
Period size: 32 Copynumber: 3.6 Consensus size: 32
10879702 GCATTGCAAT
*
10879712 TTTCATTTCGCGTTGCGATTTTGTCGTTGCGA
1 TTTCATTTCGCATTGCGATTTTGTCGTTGCGA
10879744 TTTCATTTCGCATTGCGATTTTGTCGTTGCGA
1 TTTCATTTCGCATTGCGATTTTGTCGTTGCGA
10879776 TTTCATTTCGCATTGCGATTTTGTCGTTGCGA
1 TTTCATTTCGCATTGCGATTTTGTCGTTGCGA
10879808 TTTTCATTTCGCATTGCGAT
1 -TTTCATTTCGCATTGCGAT
10879828 AGCCATTTCC
Statistics
Matches: 82, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
32 63 0.77
33 19 0.23
ACGTcount: A:0.12, C:0.19, G:0.22, T:0.47
Consensus pattern (32 bp):
TTTCATTTCGCATTGCGATTTTGTCGTTGCGA
Found at i:10879846 original size:20 final size:19
Alignment explanation
Indices: 10879812--10879866 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
10879802 TTGCGATTTT
*
10879812 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
10879831 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
10879851 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
10879867 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:10880365 original size:18 final size:18
Alignment explanation
Indices: 10880339--10880383 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
10880329 GTCGATCAGA
**
10880339 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGACGAGG
*
10880357 TGATAGCTCTGGACGAGG
1 TGATGGCTCTGGACGAGG
10880375 TGATGGCTC
1 TGATGGCTC
10880384 CCGAAGTGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.16, G:0.42, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGACGAGG
Found at i:10882028 original size:22 final size:22
Alignment explanation
Indices: 10882003--10882046 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
10881993 GATTTAGATA
10882003 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGTCGGAGATGGG
10882025 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGTCGGAGATGGG
10882047 TGAGAGAGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.14, G:0.45, T:0.23
Consensus pattern (22 bp):
GACGGATTTCGTCGGAGATGGG
Found at i:10882259 original size:20 final size:20
Alignment explanation
Indices: 10882234--10882327 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
10882224 GATTATGTAT
10882234 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
10882254 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
* *** * *
10882274 TATCTCGTTGCGATTTTTTAT
1 TATCGCGTTGCGA-AAGTCAG
* *
10882295 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
10882315 TATCGCATTGCGA
1 TATCGCGTTGCGA
10882328 TTTTCCCAAT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.78
21 13 0.22
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:10882299 original size:41 final size:41
Alignment explanation
Indices: 10882254--10882331 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
10882244 CGAAAGTCAG
* * *
10882254 TATCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTTTTAT
1 TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTTTAT
* *
10882295 TATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT
1 TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTT
10882332 CCCAATTCGC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.40
Consensus pattern (41 bp):
TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTTTAT
Found at i:10882328 original size:20 final size:20
Alignment explanation
Indices: 10882214--10882328 Score: 88
Period size: 20 Copynumber: 5.7 Consensus size: 20
10882204 CGCTTTGAAA
*
10882214 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* *
10882235 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * *
10882255 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTCAGT
* * ** * *
10882275 ATCTCGTTGCGATTTTTTATT
1 ATCGCATTGCGA-TAGTCAGT
10882296 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
10882316 ATCGCATTGCGAT
1 ATCGCATTGCGAT
10882329 TTTCCCAATT
Statistics
Matches: 76, Mismatches: 16, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
19 2 0.03
20 50 0.66
21 24 0.32
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.36
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:10882347 original size:41 final size:41
Alignment explanation
Indices: 10882254--10882349 Score: 104
Period size: 41 Copynumber: 2.3 Consensus size: 41
10882244 CGAAAGTCAG
* * * ** *
10882254 TATCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTTTTAT
1 TATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCAA
* *
10882295 TATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAA
1 TATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTT-CCAA
10882337 T-TCGCGTTGCGAT
1 TATCGCGTTGCGAT
10882350 TTACTTATTC
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
41 43 0.96
42 2 0.04
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.38
Consensus pattern (41 bp):
TATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCAA
Found at i:10895981 original size:18 final size:18
Alignment explanation
Indices: 10895955--10895992 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
10895945 AAAGGCGATG
10895955 GCGGAATCATATATGGCT
1 GCGGAATCATATATGGCT
*
10895973 GCGGCATCATATATGGCT
1 GCGGAATCATATATGGCT
10895991 GC
1 GC
10895993 AGTGGCTGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (18 bp):
GCGGAATCATATATGGCT
Found at i:10897629 original size:111 final size:111
Alignment explanation
Indices: 10897435--10897656 Score: 374
Period size: 111 Copynumber: 2.0 Consensus size: 111
10897425 ATTACAAAAA
* *
10897435 TTAATTCTTAATCTAATAATCATGCATTAAATGAATCAACTAATTATTAATAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTAATAATAATTTAAATTA
* * * *
10897500 AATTAAAACGTTAAAATGTTATCGTATTAGCAAAGTGTCGAGATAT
66 AATTAAAACATTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
10897546 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTACA-AATAATTTAAATT
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTA-ATAATAATTTAAATT
10897610 AAATTAAAACATTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
65 AAATTAAAACATTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
10897657 ATGATTTCCA
Statistics
Matches: 104, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
111 103 0.99
112 1 0.01
ACGTcount: A:0.46, C:0.10, G:0.08, T:0.36
Consensus pattern (111 bp):
TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTAATAATAATTTAAATTA
AATTAAAACATTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
Found at i:10897794 original size:12 final size:10
Alignment explanation
Indices: 10897780--10897820 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
10897770 ACCTTAAAAA
*
10897780 GAGAGTATTT
1 GAGAGAATTT
10897790 GAGAGAAATTT
1 GAGAG-AATTT
10897801 -AGAGAATTT
1 GAGAGAATTT
10897810 GAGAGAATTT
1 GAGAGAATTT
10897820 G
1 G
10897821 GTGTGATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 5 0.18
10 19 0.68
11 4 0.14
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.32
Consensus pattern (10 bp):
GAGAGAATTT
Found at i:10897985 original size:50 final size:51
Alignment explanation
Indices: 10897931--10898057 Score: 166
Period size: 51 Copynumber: 2.5 Consensus size: 51
10897921 AGATATACAG
* * * **
10897931 GTATAACGCGGTGCAAGGGGCACGCTATA-CCCACGTGGCACCAGTTCACC
1 GTATAGCGCGGTGCAGGGGGCGCGCTATACCCCACGTGGCACCAAATCACC
* * *
10897981 GTATAGCGTGGTGCAGGGGGCGCGCTATACCCCACGTGGCGCCAAATCATC
1 GTATAGCGCGGTGCAGGGGGCGCGCTATACCCCACGTGGCACCAAATCACC
*
10898032 GTATAGCGCGGTACAGGGGGCGCGCT
1 GTATAGCGCGGTGCAGGGGGCGCGCT
10898058 TTACTGCTAA
Statistics
Matches: 66, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
50 25 0.38
51 41 0.62
ACGTcount: A:0.20, C:0.29, G:0.34, T:0.17
Consensus pattern (51 bp):
GTATAGCGCGGTGCAGGGGGCGCGCTATACCCCACGTGGCACCAAATCACC
Found at i:10898777 original size:61 final size:62
Alignment explanation
Indices: 10898706--10898837 Score: 157
Period size: 58 Copynumber: 2.2 Consensus size: 62
10898696 TAACTTATCT
* * *
10898706 AATATAT-TTTATTATTAACTTAA-TTTAAAAAATA-ATTTAATT-TAATTTTAA-TTTTAAA
1 AATATATATTT-TTATTATCTAAACTTTTAAAAATATATTTAATTATAATTTTAACTTTTAAA
* * * *
10898764 AATATATCTTTTTATTATCTAAACTTTTAAAAATATATTTTATTATTATTTTAACTTTTCAA
1 AATATATATTTTTATTATCTAAACTTTTAAAAATATATTTAATTATAATTTTAACTTTTAAA
10898826 AATATATATTTT
1 AATATATATTTT
10898838 ATCTTAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
58 17 0.27
59 13 0.21
60 7 0.11
61 8 0.13
62 17 0.27
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.54
Consensus pattern (62 bp):
AATATATATTTTTATTATCTAAACTTTTAAAAATATATTTAATTATAATTTTAACTTTTAAA
Found at i:10898795 original size:31 final size:30
Alignment explanation
Indices: 10898757--10898839 Score: 112
Period size: 31 Copynumber: 2.7 Consensus size: 30
10898747 TTAATTTTAA
10898757 TTTTAAAAATATATCTTTTTATTATCTAAAC
1 TTTTAAAAATATAT-TTTTTATTATCTAAAC
* *
10898788 TTTTAAAAATATATTTTATTATTATTTTAAC
1 TTTTAAAAATATATTTT-TTATTATCTAAAC
* *
10898819 TTTTCAAAATATATATTTTAT
1 TTTTAAAAATATATTTTTTAT
10898840 CTTAATTTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
30 7 0.15
31 40 0.85
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (30 bp):
TTTTAAAAATATATTTTTTATTATCTAAAC
Found at i:10898838 original size:61 final size:59
Alignment explanation
Indices: 10898707--10898839 Score: 146
Period size: 61 Copynumber: 2.2 Consensus size: 59
10898697 AACTTATCTA
10898707 ATATATTTTATTATTAACTTAATTTAAAAAATAATTTAATTTAATTTTAATTTTAAAAAT
1 ATATATTTTATTATTAACTT-ATTTAAAAAATAATTTAATTTAATTTTAATTTTAAAAAT
* * * *
10898767 ATATCTTTTTATTATCTAAAC-T-TTT-AAAAATATATTTTATTATTATTTTAACTTTTCAAAAT
1 ATAT-ATTTTATTAT-T-AACTTATTTAAAAAATA-ATTTAATT-TAATTTTAA-TTTTAAAAAT
10898829 ATATATTTTAT
1 ATATATTTTAT
10898840 CTTAATTTAT
Statistics
Matches: 62, Mismatches: 5, Indels: 11
0.79 0.06 0.14
Matches are distributed among these distances:
59 7 0.11
60 14 0.23
61 23 0.37
62 15 0.24
63 3 0.05
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (59 bp):
ATATATTTTATTATTAACTTATTTAAAAAATAATTTAATTTAATTTTAATTTTAAAAAT
Found at i:10898882 original size:30 final size:30
Alignment explanation
Indices: 10898794--10898887 Score: 115
Period size: 30 Copynumber: 3.2 Consensus size: 30
10898784 AAACTTTTAA
* *
10898794 AAATATATTTTATTATTATTTTAACTT-TT
1 AAATATATTATATTATTATTTTAAATTATT
* *
10898823 CAAA-ATA-TATATT-TTATCTTAATTTATT
1 -AAATATATTATATTATTATTTTAAATTATT
10898851 AAATATATTATATTATTATTTTAAATTATT
1 AAATATATTATATTATTATTTTAAATTATT
10898881 AAATATA
1 AAATATA
10898888 CTTTATTCTT
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
27 13 0.24
28 10 0.18
29 9 0.16
30 23 0.42
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.55
Consensus pattern (30 bp):
AAATATATTATATTATTATTTTAAATTATT
Found at i:10898894 original size:27 final size:27
Alignment explanation
Indices: 10898804--10898887 Score: 82
Period size: 27 Copynumber: 3.0 Consensus size: 27
10898794 AAATATATTT
*
10898804 TATTATTATTTTAACTT-TTCAAAATATA
1 TATTATTATTTTAAATTATT--AAATATA
* *
10898832 TATT-TTATCTTAATTTATTAAATATATTA
1 TATTATTATTTTAAATTATT-AA-ATA-TA
10898861 TATTATTATTTTAAATTATTAAATATA
1 TATTATTATTTTAAATTATTAAATATA
10898888 CTTTATTCTT
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
27 15 0.31
28 12 0.25
29 8 0.17
30 13 0.27
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (27 bp):
TATTATTATTTTAAATTATTAAATATA
Found at i:10898940 original size:21 final size:21
Alignment explanation
Indices: 10898915--10898957 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
10898905 CCTCAAAATA
*
10898915 TTAAACATAAAAT-ATATATTT
1 TTAAACA-AAAATAAAATATTT
*
10898936 TTAAATAAAAATAAAATATTT
1 TTAAACAAAAATAAAATATTT
10898957 T
1 T
10898958 AAATTAAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (21 bp):
TTAAACAAAAATAAAATATTT
Found at i:10898964 original size:25 final size:26
Alignment explanation
Indices: 10898936--10898985 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
10898926 ATATATATTT
10898936 TTAAATAAAAATAAAATAT-TTTAAA
1 TTAAATAAAAATAAAATATATTTAAA
* *
10898961 TTAAGTAATAATAAAATATATTTAA
1 TTAAATAAAAATAAAATATATTTAA
10898986 GTAAAGTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (26 bp):
TTAAATAAAAATAAAATATATTTAAA
Found at i:10899221 original size:26 final size:28
Alignment explanation
Indices: 10899169--10899231 Score: 87
Period size: 26 Copynumber: 2.3 Consensus size: 28
10899159 TGTTAGTTTC
10899169 TTTTCTTCTTCTTCTTCTTGCAGCTTCT
1 TTTTCTTCTTCTTCTTCTTGCAGCTTCT
10899197 TTTTCTTCTT-TAT-TT-TTGCAGCTTCT
1 TTTTCTTCTTCT-TCTTCTTGCAGCTTCT
*
10899223 TATTCTTCT
1 TTTTCTTCT
10899232 AAACTTAAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
26 19 0.58
27 3 0.09
28 11 0.33
ACGTcount: A:0.06, C:0.24, G:0.06, T:0.63
Consensus pattern (28 bp):
TTTTCTTCTTCTTCTTCTTGCAGCTTCT
Found at i:10900922 original size:21 final size:21
Alignment explanation
Indices: 10900879--10900922 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
10900869 ACCGAAGTGT
* *
10900879 CACATATTTGTCCCGGATGAC
1 CACATATTTGTCCCGAATAAC
10900900 CACATATTTGTCCCGAATAAC
1 CACATATTTGTCCCGAATAAC
10900921 CA
1 CA
10900923 TATAAAACCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.27
Consensus pattern (21 bp):
CACATATTTGTCCCGAATAAC
Found at i:10901469 original size:20 final size:22
Alignment explanation
Indices: 10901444--10901489 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
10901434 GAGGCATTGG
10901444 TACCA-CCAT-AAGGGTATCGA
1 TACCACCCATCAAGGGTATCGA
*
10901464 TACCACCCTTCAAGGGTATCGA
1 TACCACCCATCAAGGGTATCGA
10901486 TACC
1 TACC
10901490 TCCGCATGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.22
21 3 0.13
22 15 0.65
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.22
Consensus pattern (22 bp):
TACCACCCATCAAGGGTATCGA
Found at i:10902615 original size:3 final size:3
Alignment explanation
Indices: 10902600--10902726 Score: 60
Period size: 3 Copynumber: 41.0 Consensus size: 3
10902590 TTTGAGTTTT
* * * * *
10902600 GAA GAA GAC GAA GAA GAA GAA GCTA CAA AAA GAAA GAA GAA GAA AAA
1 GAA GAA GAA GAA GAA GAA GAA G-AA GAA GAA G-AA GAA GAA GAA GAA
** * * * *
10902647 GAA GAA GAA GAA GGT GCTA CAA AAA GAAA GAA GAA GAA GAA GAT GATA
1 GAA GAA GAA GAA GAA G-AA GAA GAA G-AA GAA GAA GAA GAA GAA GA-A
** *
10902695 -AA GAA GAA GTT GCAA GAA GAA GAT GAA -AA GAA
1 GAA GAA GAA GAA G-AA GAA GAA GAA GAA GAA GAA
10902727 ATTGCCACGT
Statistics
Matches: 91, Mismatches: 25, Indels: 16
0.69 0.19 0.12
Matches are distributed among these distances:
2 3 0.03
3 80 0.88
4 8 0.09
ACGTcount: A:0.61, C:0.05, G:0.28, T:0.06
Consensus pattern (3 bp):
GAA
Found at i:10902666 original size:41 final size:41
Alignment explanation
Indices: 10902604--10902703 Score: 139
Period size: 41 Copynumber: 2.4 Consensus size: 41
10902594 AGTTTTGAAG
*
10902604 AAGACGAAGAAGAAGAAGCTACAAAAAGAAAGAAGAAGAAA
1 AAGAAGAAGAAGAAGAAGCTACAAAAAGAAAGAAGAAGAAA
** *
10902645 AAGAAGAAGAAGAAGGTGCTACAAAAAGAAAGAAGAAGAAG
1 AAGAAGAAGAAGAAGAAGCTACAAAAAGAAAGAAGAAGAAA
*
10902686 AAGATGATA-AAGAAGAAG
1 AAGAAGA-AGAAGAAGAAG
10902704 TTGCAAGAAG
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
41 50 0.98
42 1 0.02
ACGTcount: A:0.63, C:0.05, G:0.27, T:0.05
Consensus pattern (41 bp):
AAGAAGAAGAAGAAGAAGCTACAAAAAGAAAGAAGAAGAAA
Found at i:10903820 original size:3 final size:3
Alignment explanation
Indices: 10903803--10903858 Score: 59
Period size: 3 Copynumber: 20.0 Consensus size: 3
10903793 TTTATTTCAT
*
10903803 TTA TT- TTA TTTA TTA TTA TTA TT- TTG TT- TTA TTA TTA -TA TTA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10903845 -TA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA
10903859 AATAATTAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
2 10 0.21
3 34 0.72
4 3 0.06
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:10903826 original size:13 final size:13
Alignment explanation
Indices: 10903803--10903858 Score: 57
Period size: 13 Copynumber: 4.5 Consensus size: 13
10903793 TTTATTTCAT
10903803 TTATT-TTATTTA
1 TTATTATTATTTA
10903815 TTATTATTATTT-
1 TTATTATTATTTA
*
10903827 TGTTTTATTATTATA
1 T-TATTATTATT-TA
10903842 TTA-TATTA-TTA
1 TTATTATTATTTA
10903853 TTATTA
1 TTATTA
10903859 AATAATTAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
11 5 0.14
12 9 0.24
13 20 0.54
14 2 0.05
15 1 0.03
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.70
Consensus pattern (13 bp):
TTATTATTATTTA
Found at i:10903835 original size:19 final size:18
Alignment explanation
Indices: 10903811--10903858 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
10903801 ATTTATTTTA
* *
10903811 TTTATTATTATTATTTTGT
1 TTTATTATTA-TATTATAT
10903830 TTTATTATTATATTATAT
1 TTTATTATTATATTATAT
10903848 TATTATTATTA
1 T-TTATTATTA
10903859 AATAATTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 7 0.27
19 19 0.73
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (18 bp):
TTTATTATTATATTATAT
Found at i:10903836 original size:16 final size:16
Alignment explanation
Indices: 10903803--10903857 Score: 65
Period size: 16 Copynumber: 3.3 Consensus size: 16
10903793 TTTATTTCAT
10903803 TTATTTTATTTATTATTA
1 TTATTTTA--TATTATTA
* *
10903821 TTATTTTGTTTTATTA
1 TTATTTTATATTATTA
*
10903837 TTATATTATATTATTA
1 TTATTTTATATTATTA
10903853 TTATT
1 TTATT
10903858 AAATAATTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
16 24 0.77
18 7 0.23
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (16 bp):
TTATTTTATATTATTA
Found at i:10905664 original size:2 final size:2
Alignment explanation
Indices: 10905657--10905688 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
10905647 TGTTATTTAA
10905657 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10905689 TCTTTAAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10906191 original size:21 final size:21
Alignment explanation
Indices: 10906161--10906201 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
10906151 AATTAATTAA
* *
10906161 TTTAATTTTTAATTATTTTCT
1 TTTAAATTTTAATGATTTTCT
*
10906182 TTTAAATTTTTATGATTTTC
1 TTTAAATTTTAATGATTTTC
10906202 ATAATATTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.24, C:0.05, G:0.02, T:0.68
Consensus pattern (21 bp):
TTTAAATTTTAATGATTTTCT
Found at i:10908519 original size:27 final size:27
Alignment explanation
Indices: 10908483--10908542 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
10908473 CATTCACATA
10908483 TTTACATTTGCATTTACATTTGCATTT
1 TTTACATTTGCATTTACATTTGCATTT
* * *
10908510 TTTACGTTTGTATTTACATTTTCA-TT
1 TTTACATTTGCATTTACATTTGCATTT
10908536 TTTACAT
1 TTTACAT
10908543 AATTACATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.13, G:0.07, T:0.58
Consensus pattern (27 bp):
TTTACATTTGCATTTACATTTGCATTT
Found at i:10908536 original size:12 final size:12
Alignment explanation
Indices: 10908482--10908509 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
10908472 ACATTCACAT
10908482 ATTTACATTTGC
1 ATTTACATTTGC
10908494 ATTTACATTTGC
1 ATTTACATTTGC
10908506 ATTT
1 ATTT
10908510 TTTACGTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.25, C:0.14, G:0.07, T:0.54
Consensus pattern (12 bp):
ATTTACATTTGC
Found at i:10910162 original size:2 final size:2
Alignment explanation
Indices: 10910155--10910188 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
10910145 ATCCTTTTAA
10910155 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10910189 CCTTTGTTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10910501 original size:7 final size:7
Alignment explanation
Indices: 10910489--10910539 Score: 57
Period size: 7 Copynumber: 6.9 Consensus size: 7
10910479 AACAAAGAAA
10910489 GAAAAAG
1 GAAAAAG
10910496 GAAAAATG
1 GAAAAA-G
10910504 AGAAAAAAG
1 -G-AAAAAG
* *
10910513 AAAAAAA
1 GAAAAAG
10910520 GAAAAAG
1 GAAAAAG
10910527 GAAAAAG
1 GAAAAAG
10910534 GAAAAA
1 GAAAAA
10910540 TGGAGAAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
7 29 0.78
8 1 0.03
9 2 0.05
10 5 0.14
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (7 bp):
GAAAAAG
Found at i:10910509 original size:16 final size:15
Alignment explanation
Indices: 10910486--10910532 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
10910476 TTCAACAAAG
10910486 AAAGAAAAAGGAAAA
1 AAAGAAAAAGGAAAA
* *
10910501 ATGAGAAAAAAGAAAA
1 A-AAGAAAAAGGAAAA
10910517 AAAGAAAAAGGAAAA
1 AAAGAAAAAGGAAAA
10910532 A
1 A
10910533 GGAAAAATGG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
15 14 0.52
16 13 0.48
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (15 bp):
AAAGAAAAAGGAAAA
Found at i:10916011 original size:113 final size:113
Alignment explanation
Indices: 10915563--10915998 Score: 631
Period size: 113 Copynumber: 3.9 Consensus size: 113
10915553 ATCCATCACA
* *
10915563 ATGGATCAACATTTCCAGAAAGTGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
1 ATGGATCAACATTTCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
* * * *
10915628 TCATAATTAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTCG
66 TCATAATGAGAAGAACTTGTTCAACCTTTTGCTTAAATTCATCACTCG
* * * *
10915676 ATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGT
1 ATGGATCAACATTTCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
* * * *
10915741 TCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCATTTG
66 TCATAATGAGAAGAACTTGTTCAACCTTTTGCTTAAATTCATCACTCG
* * * *
10915789 ATGGATCAGCATTGCCA-AGTAGAGTTCATAATGAGAAGAACTCGTCTGAAGAAGGAAGAAGAAA
1 ATGGATCAACATTTCCAGAG-AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
* * * *
10915853 TTCATAATGAGAAGAATTTGTTCAACTTTTTGTTTGAATTCATCACTCG
65 TTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTAAATTCATCACTCG
* * *
10915902 ATGGATCAACTTTTCCAGAGAGAGTTCATAATGAGAAGAACCCATCTGAAAAAGGAAGAAGAAGT
1 ATGGATCAACATTTCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
10915967 TCATAATGAGAAGAACTTGTTCAACCTTTTGC
66 TCATAATGAGAAGAACTTGTTCAACCTTTTGC
10915999 ATGATTCTAT
Statistics
Matches: 287, Mismatches: 34, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
112 2 0.01
113 283 0.99
114 2 0.01
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.28
Consensus pattern (113 bp):
ATGGATCAACATTTCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
TCATAATGAGAAGAACTTGTTCAACCTTTTGCTTAAATTCATCACTCG
Found at i:10916336 original size:3 final size:3
Alignment explanation
Indices: 10916319--10916374 Score: 59
Period size: 3 Copynumber: 20.0 Consensus size: 3
10916309 TTTATTTCAT
*
10916319 TTA TT- TTA TTTA TTA TTA TTA TT- TTG TT- TTA TTA TTA -TA TTA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10916361 -TA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA
10916375 AATAATTAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
2 10 0.21
3 34 0.72
4 3 0.06
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:10916342 original size:13 final size:13
Alignment explanation
Indices: 10916319--10916374 Score: 57
Period size: 13 Copynumber: 4.5 Consensus size: 13
10916309 TTTATTTCAT
10916319 TTATT-TTATTTA
1 TTATTATTATTTA
10916331 TTATTATTATTT-
1 TTATTATTATTTA
*
10916343 TGTTTTATTATTATA
1 T-TATTATTATT-TA
10916358 TTA-TATTA-TTA
1 TTATTATTATTTA
10916369 TTATTA
1 TTATTA
10916375 AATAATTAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
11 5 0.14
12 9 0.24
13 20 0.54
14 2 0.05
15 1 0.03
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.70
Consensus pattern (13 bp):
TTATTATTATTTA
Found at i:10916351 original size:19 final size:18
Alignment explanation
Indices: 10916327--10916374 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
10916317 ATTTATTTTA
* *
10916327 TTTATTATTATTATTTTGT
1 TTTATTATTA-TATTATAT
10916346 TTTATTATTATATTATAT
1 TTTATTATTATATTATAT
10916364 TATTATTATTA
1 T-TTATTATTA
10916375 AATAATTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 7 0.27
19 19 0.73
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (18 bp):
TTTATTATTATATTATAT
Found at i:10916352 original size:16 final size:16
Alignment explanation
Indices: 10916319--10916373 Score: 65
Period size: 16 Copynumber: 3.3 Consensus size: 16
10916309 TTTATTTCAT
10916319 TTATTTTATTTATTATTA
1 TTATTTTA--TATTATTA
* *
10916337 TTATTTTGTTTTATTA
1 TTATTTTATATTATTA
*
10916353 TTATATTATATTATTA
1 TTATTTTATATTATTA
10916369 TTATT
1 TTATT
10916374 AAATAATTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
16 24 0.77
18 7 0.23
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (16 bp):
TTATTTTATATTATTA
Found at i:10917829 original size:12 final size:12
Alignment explanation
Indices: 10917806--10917843 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
10917796 ATTATTTTTA
*
10917806 TATTTCAATTAT
1 TATTTTAATTAT
*
10917818 TGTTTTAATTAT
1 TATTTTAATTAT
10917830 TATTTT-ATTAT
1 TATTTTAATTAT
10917841 TAT
1 TAT
10917844 CTTAGTCATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
11 8 0.35
12 15 0.65
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (12 bp):
TATTTTAATTAT
Found at i:10918180 original size:2 final size:2
Alignment explanation
Indices: 10918173--10918202 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
10918163 TGTTATTTAA
10918173 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10918203 TTTCTTTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10918204 original size:115 final size:114
Alignment explanation
Indices: 10917989--10918204 Score: 260
Period size: 115 Copynumber: 1.9 Consensus size: 114
10917979 AATATTGAAG
* * *
10917989 GAAAGAGCTGTCTTAAAATAACTAGAAGTCATTTTCTAATATTTTTAAATAAATAAATATCTTAC
1 GAAAGAGCTGTCTTAAAATAACTAAAAGTCATTTTATAATATTTTTAAATAAATAAATATCGTA-
* * * *
10918054 TATATTAAAATAATTTTTATTATTATTTATTTATTTATTTTATATCAAAA
65 TATATTAAAATAATATATATTATTATATATATATTTATTTTATATCAAAA
* * *
10918104 GAAAGAGCTGTCTTAAAGTACCTAAAAGTC-TATTTATGATATTTTTAAATAAATAAATAT-GT-
1 GAAAGAGCTGTCTTAAAATAACTAAAAGTCAT-TTTATAATATTTTTAAATAAATAAATATCGTA
10918166 TAT-TTAAATATATATATATATATATATATATATATATTT
65 TATATTAAA-ATA-ATATATAT-TAT-TATATATATATTT
10918205 TCTTTAAATT
Statistics
Matches: 86, Mismatches: 10, Indels: 10
0.81 0.09 0.09
Matches are distributed among these distances:
111 5 0.06
112 6 0.07
113 6 0.07
114 5 0.06
115 64 0.74
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (114 bp):
GAAAGAGCTGTCTTAAAATAACTAAAAGTCATTTTATAATATTTTTAAATAAATAAATATCGTAT
ATATTAAAATAATATATATTATTATATATATATTTATTTTATATCAAAA
Found at i:10922527 original size:110 final size:113
Alignment explanation
Indices: 10922334--10922704 Score: 399
Period size: 132 Copynumber: 3.1 Consensus size: 113
10922324 TTTAACATAT
* *
10922334 ATTTCAAATATATATTCTTAACTTAAATAATAAACTTGGCCTACTTTAAACCAAAAATATATATA
1 ATTT-AAATATATATTCTTAACTCAAATAATAAACTTGGCCCACTTTAAACCAAAAATATATATA
*
10922399 TTCGTTAAATTAAGAAAAAATAAT-AAA-ATATATTTTTATAGTTAAGA
65 TTCGATAAATTAAGAAAAAATAATAAAATATATATTTTTATAGTTAAGA
* *
10922446 ATTTAAATATATATT-TTACCTCAAATAATAAACTTGGCCCACTTTAAACCATAAATATATATAT
1 ATTTAAATATATATTCTTAACTCAAATAATAAACTTGGCCCACTTTAAACCAAAAATATATATAT
10922510 TCGATAAATTAAGAAAAAATAATAAAATATATATTTTTATAGTTAAGAATTTAA
66 TCGATAAATTAAGAAAAAATAATAAAATATATATTTTTATAGTTAAG------A
* * **
10922564 TTATTTTAAAATATTTTAAATATATATTCTTACCTCAAATAATAAACTTGACATACTTTAAACCA
1 --A-TTT-AAATA---T-A-----TATTCTTAACTCAAATAATAAACTTGGCCCACTTTAAACCA
* * * * *
10922629 AAAAAATATATATTCAATAAATTAAGAAAAAGTAATAAGATATATATTTCTATAGTTAAGA
53 AAAATATATATATTCGATAAATTAAGAAAAAATAATAAAATATATATTTTTATAGTTAAGA
10922690 ATTTAAGAT-TATATT
1 ATTTAA-ATATATATT
10922705 AGAAAACAAG
Statistics
Matches: 222, Mismatches: 14, Indels: 45
0.79 0.05 0.16
Matches are distributed among these distances:
110 67 0.30
111 14 0.06
112 23 0.10
113 4 0.02
118 2 0.01
119 1 0.00
120 1 0.00
121 3 0.01
122 7 0.03
123 5 0.02
124 1 0.00
125 1 0.00
126 2 0.01
131 4 0.02
132 87 0.39
ACGTcount: A:0.48, C:0.09, G:0.05, T:0.38
Consensus pattern (113 bp):
ATTTAAATATATATTCTTAACTCAAATAATAAACTTGGCCCACTTTAAACCAAAAATATATATAT
TCGATAAATTAAGAAAAAATAATAAAATATATATTTTTATAGTTAAGA
Found at i:10922608 original size:132 final size:131
Alignment explanation
Indices: 10922447--10922695 Score: 408
Period size: 132 Copynumber: 1.9 Consensus size: 131
10922437 TAGTTAAGAA
* * * *
10922447 TTTAAATATATATTTTACCTCAAATAATAAACTTGGCCCACTTTAAACCATAAATATATATATTC
1 TTTAAATATATATTTTACCTCAAATAATAAACTTGACACACTTTAAACCAAAAAAATATATATTC
* *
10922512 GATAAATTAAGAAAAAATAATAAAATATATATTTTTATAGTTAAGAATTTAATTATTTTAAAATA
66 AATAAATTAAGAAAAAATAATAAAATATATATTTCTATAGTTAAGAATTTAATTATTTTAAAATA
10922577 T
131 T
*
10922578 TTTAAATATATATTCTTACCTCAAATAATAAACTTGACATACTTTAAACCAAAAAAATATATATT
1 TTTAAATATATATT-TTACCTCAAATAATAAACTTGACACACTTTAAACCAAAAAAATATATATT
* *
10922643 CAATAAATTAAGAAAAAGTAATAAGATATATATTTCTATAGTTAAGAATTTAA
65 CAATAAATTAAGAAAAAATAATAAAATATATATTTCTATAGTTAAGAATTTAA
10922696 GATTATATTA
Statistics
Matches: 108, Mismatches: 9, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
131 14 0.13
132 94 0.87
ACGTcount: A:0.49, C:0.09, G:0.05, T:0.38
Consensus pattern (131 bp):
TTTAAATATATATTTTACCTCAAATAATAAACTTGACACACTTTAAACCAAAAAAATATATATTC
AATAAATTAAGAAAAAATAATAAAATATATATTTCTATAGTTAAGAATTTAATTATTTTAAAATA
T
Found at i:10922640 original size:242 final size:237
Alignment explanation
Indices: 10922262--10922704 Score: 660
Period size: 242 Copynumber: 1.8 Consensus size: 237
10922252 TTATAATATT
*
10922262 TAAAATATATATTCAATAAATTAAGGAAAAATAATAAAATATATATTTTTATAGTTAAGAATTTT
1 TAAAATATATATTCAATAAATTAAGAAAAAATAATAAAATATATATTTTTATAGTTAAGAATTTT
* * * * *
10922327 AACATATATTTCAAATATATATTCTTAACTTAAATAATAAACTTGGCCTACTTTAAACCAAAAAT
66 AACAAATATTTCAAATATATATTCTTAACTCAAATAATAAACTTGACATACTTTAAACCAAAAAA
** *
10922392 ATATATATTCGTTAAATTAAGAAAAAATAATAA-A-ATATATTTTTATAGTTAAGAATTTAA-AT
131 ATATATATTCAATAAATTAAGAAAAAATAATAAGATATATATTTCTATAGTTAAGAATTTAAGAT
10922454 ATATATTTTACCTCAAATAATAAACTTGGCCCACTTTAAACCA
196 -TATATTTTACCTCAAATAATAAACTTGGCCCACTTTAAACCA
*
10922497 TAAATATATATATTCGATAAATTAAGAAAAAATAATAAAATATATATTTTTATAGTTAAGAATTT
1 TAAA-ATATATATTCAATAAATTAAGAAAAAATAATAAAATATATATTTTTATAGTTAAGAA-TT
* *
10922562 AATTATTTTA-AAATATTTTAAATATATATTCTTACCTCAAATAATAAACTTGACATACTTTAAA
64 --TTA----ACAAATATTTCAAATATATATTCTTAACTCAAATAATAAACTTGACATACTTTAAA
*
10922626 CCAAAAAAATATATATTCAATAAATTAAGAAAAAGTAATAAGATATATATTTCTATAGTTAAGAA
123 CCAAAAAAATATATATTCAATAAATTAAGAAAAAATAATAAGATATATATTTCTATAGTTAAGAA
10922691 TTTAAGATTATATT
188 TTTAAGATTATATT
10922705 AGAAAACAAG
Statistics
Matches: 184, Mismatches: 13, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
235 4 0.02
236 55 0.30
237 2 0.01
239 3 0.02
242 85 0.46
243 2 0.01
244 31 0.17
245 2 0.01
ACGTcount: A:0.49, C:0.08, G:0.05, T:0.38
Consensus pattern (237 bp):
TAAAATATATATTCAATAAATTAAGAAAAAATAATAAAATATATATTTTTATAGTTAAGAATTTT
AACAAATATTTCAAATATATATTCTTAACTCAAATAATAAACTTGACATACTTTAAACCAAAAAA
ATATATATTCAATAAATTAAGAAAAAATAATAAGATATATATTTCTATAGTTAAGAATTTAAGAT
TATATTTTACCTCAAATAATAAACTTGGCCCACTTTAAACCA
Found at i:10922742 original size:132 final size:127
Alignment explanation
Indices: 10922486--10922734 Score: 282
Period size: 132 Copynumber: 1.9 Consensus size: 127
10922476 AACTTGGCCC
* * * *
10922486 ACTTTAAACCATAAATATATATATTCGATAAATTAAGAAAAAATAATAAAATATATATTTTTATA
1 ACTTTAAACCAAAAAAATATATATTCAATAAATTAAGAAAAAATAATAAAATATATATTTCTATA
* * * * *
10922551 GTTAAGAATTTAATTATTTTAAAATATTTTAAATATATATTCTTACCTCAAATAATAAACTTGAC
66 GTTAAGAATTTAATTATTTAAAAAGATTATAAACATATAGTCTTA-CT---AT-ATAAACTTGAC
10922616 AT
126 AT
* *
10922618 ACTTTAAACCAAAAAAATATATATTCAATAAATTAAGAAAAAGTAATAAGATATATATTTCTATA
1 ACTTTAAACCAAAAAAATATATATTCAATAAATTAAGAAAAAATAATAAAATATATATTTCTATA
10922683 GTTAAGAATTTAAGATTATATTAGAAAACAAGATTATACAACATATAGTCTT
66 GTTAAGAATTT-A-ATTAT-TT---AAA-AAGATTATA-AACATATAGTCTT
10922735 CTTTAAACCA
Statistics
Matches: 98, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
132 70 0.71
133 1 0.01
134 5 0.05
135 2 0.02
138 2 0.02
139 7 0.07
140 11 0.11
ACGTcount: A:0.50, C:0.08, G:0.06, T:0.37
Consensus pattern (127 bp):
ACTTTAAACCAAAAAAATATATATTCAATAAATTAAGAAAAAATAATAAAATATATATTTCTATA
GTTAAGAATTTAATTATTTAAAAAGATTATAAACATATAGTCTTACTATATAAACTTGACAT
Found at i:10922784 original size:7 final size:7
Alignment explanation
Indices: 10922772--10922835 Score: 128
Period size: 7 Copynumber: 9.1 Consensus size: 7
10922762 AGTGGTTGGG
10922772 CTTCTCC
1 CTTCTCC
10922779 CTTCTCC
1 CTTCTCC
10922786 CTTCTCC
1 CTTCTCC
10922793 CTTCTCC
1 CTTCTCC
10922800 CTTCTCC
1 CTTCTCC
10922807 CTTCTCC
1 CTTCTCC
10922814 CTTCTCC
1 CTTCTCC
10922821 CTTCTCC
1 CTTCTCC
10922828 CTTCTCC
1 CTTCTCC
10922835 C
1 C
10922836 CCATGGTTGC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 57 1.00
ACGTcount: A:0.00, C:0.58, G:0.00, T:0.42
Consensus pattern (7 bp):
CTTCTCC
Found at i:10928252 original size:70 final size:70
Alignment explanation
Indices: 10928176--10928313 Score: 170
Period size: 70 Copynumber: 2.0 Consensus size: 70
10928166 ATCGATCCAA
* ** * * * *
10928176 CTAAAATTTAAATCGGTTTTAATTCAA-TTTGTGTTGTTTTTGATTCAAATCAAGTTGGATACGA
1 CTAAAATTCAAATCAATTTTAATTCAATTTTG-GTTGCTTTTGATTCAAATAAAATTAGATACGA
10928240 GTCTAG
65 GTCTAG
* * *
10928246 CTAAAATTCAAATCAATTTTAATTTAGTTTTGGTTGCTTTTGATTCAAATAAAATTAGATATGAG
1 CTAAAATTCAAATCAATTTTAATTCAATTTTGGTTGCTTTTGATTCAAATAAAATTAGATACGAG
10928311 TCT
66 TCT
10928314 TTACTGATAC
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
70 53 0.93
71 4 0.07
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.43
Consensus pattern (70 bp):
CTAAAATTCAAATCAATTTTAATTCAATTTTGGTTGCTTTTGATTCAAATAAAATTAGATACGAG
TCTAG
Found at i:10928874 original size:14 final size:14
Alignment explanation
Indices: 10928855--10928891 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
10928845 ATAGAAATAG
10928855 AGGAAATGAAGTAT
1 AGGAAATGAAGTAT
10928869 AGGAAATGAAGTAT
1 AGGAAATGAAGTAT
10928883 -GAGAAATGA
1 AG-GAAATGA
10928892 CTACCCAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 1 0.05
14 21 0.95
ACGTcount: A:0.51, C:0.00, G:0.30, T:0.19
Consensus pattern (14 bp):
AGGAAATGAAGTAT
Found at i:10933996 original size:20 final size:21
Alignment explanation
Indices: 10933971--10934012 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
10933961 TCAACTTACA
10933971 ATGCATTATG-AACCATTATT
1 ATGCATTATGCAACCATTATT
*
10933991 ATGCATTATGCAACTATTATT
1 ATGCATTATGCAACCATTATT
10934012 A
1 A
10934013 GTTGCATGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (21 bp):
ATGCATTATGCAACCATTATT
Found at i:10937045 original size:19 final size:19
Alignment explanation
Indices: 10937009--10937045 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
10936999 TGAAAATGAT
*
10937009 TTGATTTTGAAAGCCAAAG
1 TTGATTTTGAAAACCAAAG
*
10937028 TTGATTTTGAAAATCAAA
1 TTGATTTTGAAAACCAAA
10937046 ATGAAATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.08, G:0.16, T:0.35
Consensus pattern (19 bp):
TTGATTTTGAAAACCAAAG
Found at i:10943711 original size:22 final size:22
Alignment explanation
Indices: 10943663--10943722 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
10943653 TTTTGGTGCA
* *
10943663 GAGGGAATCGATCCCCCCTCAT
1 GAGGGAACCGATTCCCCCTCAT
*
10943685 GAGGGAACCGATTCCCCCT-TT
1 GAGGGAACCGATTCCCCCTCAT
10943706 GAAGGGGAACCGATTCC
1 G-A-GGGAACCGATTCC
10943723 TCCCACAGGG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
21 2 0.06
22 18 0.55
23 13 0.39
ACGTcount: A:0.23, C:0.32, G:0.27, T:0.18
Consensus pattern (22 bp):
GAGGGAACCGATTCCCCCTCAT
Found at i:10952495 original size:18 final size:18
Alignment explanation
Indices: 10952466--10952553 Score: 122
Period size: 18 Copynumber: 4.9 Consensus size: 18
10952456 TCGTAGAATT
* *
10952466 TGTCCCGTAGGATCACTA
1 TGTCCCGAAGGACCACTA
* *
10952484 TGTCCAGAAGGACCACTG
1 TGTCCCGAAGGACCACTA
*
10952502 TGTCCCGAAGGACCATTA
1 TGTCCCGAAGGACCACTA
*
10952520 TGTCCCGAAGGACCACCA
1 TGTCCCGAAGGACCACTA
10952538 TGTCCCGAAGGACCAC
1 TGTCCCGAAGGACCAC
10952554 GTAGACCCTC
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 61 1.00
ACGTcount: A:0.26, C:0.32, G:0.24, T:0.18
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:10956505 original size:18 final size:18
Alignment explanation
Indices: 10956484--10956563 Score: 106
Period size: 18 Copynumber: 4.4 Consensus size: 18
10956474 TTTGTCACGT
10956484 AGGACCACTATGTCCCGA
1 AGGACCACTATGTCCCGA
* *
10956502 AGGACCACTGTGTCCCAA
1 AGGACCACTATGTCCCGA
* * * *
10956520 ATGACCATTATGTTCTGA
1 AGGACCACTATGTCCCGA
10956538 AGGACCACTATGTCCCGA
1 AGGACCACTATGTCCCGA
10956556 AGGACCAC
1 AGGACCAC
10956564 GTAGACCCTC
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 50 1.00
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (18 bp):
AGGACCACTATGTCCCGA
Found at i:10957410 original size:24 final size:24
Alignment explanation
Indices: 10957382--10957441 Score: 120
Period size: 24 Copynumber: 2.5 Consensus size: 24
10957372 CATTATACCA
10957382 TGCATCGATGCATCCCGTAACATG
1 TGCATCGATGCATCCCGTAACATG
10957406 TGCATCGATGCATCCCGTAACATG
1 TGCATCGATGCATCCCGTAACATG
10957430 TGCATCGATGCA
1 TGCATCGATGCA
10957442 CTACCCATGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (24 bp):
TGCATCGATGCATCCCGTAACATG
Found at i:10960729 original size:18 final size:18
Alignment explanation
Indices: 10960714--10960793 Score: 106
Period size: 18 Copynumber: 4.4 Consensus size: 18
10960704 TTTGTCCCAT
10960714 AGGACCACTATGTCCCGA
1 AGGACCACTATGTCCCGA
*
10960732 AGGACCACTGTGTCCCGA
1 AGGACCACTATGTCCCGA
* *
10960750 ATGACCATTATGTCCCGA
1 AGGACCACTATGTCCCGA
* **
10960768 AGGACCACTATATCCTAA
1 AGGACCACTATGTCCCGA
10960786 AGGACCAC
1 AGGACCAC
10960794 GTAGACCCTC
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 53 1.00
ACGTcount: A:0.30, C:0.31, G:0.20, T:0.19
Consensus pattern (18 bp):
AGGACCACTATGTCCCGA
Found at i:10963089 original size:20 final size:20
Alignment explanation
Indices: 10963064--10963146 Score: 121
Period size: 20 Copynumber: 4.2 Consensus size: 20
10963054 ATCAAAATGA
*
10963064 ATATACATACAAACATACAT
1 ATATACATACATACATACAT
10963084 ATATACATACATACATACAT
1 ATATACATACATACATACAT
* * *
10963104 ACATATATACATACATATAT
1 ATATACATACATACATACAT
*
10963124 ATATACATACATACATATAT
1 ATATACATACATACATACAT
10963144 ATA
1 ATA
10963147 GTTTTTAAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 57 1.00
ACGTcount: A:0.52, C:0.17, G:0.00, T:0.31
Consensus pattern (20 bp):
ATATACATACATACATACAT
Found at i:10963146 original size:4 final size:4
Alignment explanation
Indices: 10963066--10963140 Score: 105
Period size: 4 Copynumber: 18.8 Consensus size: 4
10963056 CAAAATGAAT
* * *
10963066 ATAC ATAC AAAC ATAC ATAT ATAC ATAC ATAC ATAC ATAC ATAT ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
10963114 ATAC ATAT ATAT ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATA
10963141 TATATAGTTT
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 63 1.00
ACGTcount: A:0.52, C:0.19, G:0.00, T:0.29
Consensus pattern (4 bp):
ATAC
Found at i:10963213 original size:17 final size:17
Alignment explanation
Indices: 10963187--10963233 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
10963177 AAAAAATATA
10963187 TAAT-ATATATAATTTT
1 TAATAATATATAATTTT
*
10963203 TGAA-AATATATAGTTTT
1 T-AATAATATATAATTTT
*
10963220 TAATAAAATATAAT
1 TAATAATATATAAT
10963234 ATATATATAG
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
16 3 0.12
17 22 0.88
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (17 bp):
TAATAATATATAATTTT
Found at i:10964394 original size:17 final size:19
Alignment explanation
Indices: 10964357--10964398 Score: 61
Period size: 17 Copynumber: 2.3 Consensus size: 19
10964347 TTTGGTCACC
10964357 ATTTATAATTTTACCTTTCA
1 ATTTATAATTTTA-CTTTCA
10964377 ATTT-TAATTTTA-TTTCA
1 ATTTATAATTTTACTTTCA
10964394 ATTTA
1 ATTTA
10964399 ATCCTTTACA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 9 0.43
19 8 0.38
20 4 0.19
ACGTcount: A:0.31, C:0.10, G:0.00, T:0.60
Consensus pattern (19 bp):
ATTTATAATTTTACTTTCA
Found at i:10968184 original size:63 final size:63
Alignment explanation
Indices: 10968106--10968231 Score: 243
Period size: 63 Copynumber: 2.0 Consensus size: 63
10968096 CATGTTGGGT
10968106 AGCCTTTCTCTCCGTTTTATGCATGAAGCGCAAATGTATTTCCAGCAACTCCTGGAAGTTAAA
1 AGCCTTTCTCTCCGTTTTATGCATGAAGCGCAAATGTATTTCCAGCAACTCCTGGAAGTTAAA
*
10968169 AGCCTTTCTCTCCGTTTTATGCATGAAGCGCAAATGTATTTCCAGCACCTCCTGGAAGTTAAA
1 AGCCTTTCTCTCCGTTTTATGCATGAAGCGCAAATGTATTTCCAGCAACTCCTGGAAGTTAAA
10968232 CACCGGCTTC
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (63 bp):
AGCCTTTCTCTCCGTTTTATGCATGAAGCGCAAATGTATTTCCAGCAACTCCTGGAAGTTAAA
Found at i:10972260 original size:29 final size:29
Alignment explanation
Indices: 10972226--10972284 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
10972216 CCTAAATTAA
10972226 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
10972255 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
10972284 T
1 T
10972285 AGGTGAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:10976943 original size:29 final size:29
Alignment explanation
Indices: 10976909--10976967 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
10976899 CCTAAATTAA
10976909 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
10976938 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
10976967 T
1 T
10976968 AGGTGAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:10980694 original size:2 final size:2
Alignment explanation
Indices: 10980687--10980763 Score: 154
Period size: 2 Copynumber: 38.5 Consensus size: 2
10980677 ATATAAGATG
10980687 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10980729 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 A
10980764 AAGTAACTAG
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 75 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10985041 original size:36 final size:35
Alignment explanation
Indices: 10984946--10985047 Score: 96
Period size: 38 Copynumber: 2.8 Consensus size: 35
10984936 ATATATATTA
* **
10984946 ATATAATTTTTGAAAATATTCTTAAAAGTATATAAT
1 ATATAATTTTT-AAAATATTTTTAAAAACATATAAT
* * *
10984982 ATATAGGTTTTTTTTAAATATTTTTAAAAACATATAGT
1 ATATA---ATTTTTAAAATATTTTTAAAAACATATAAT
*
10985020 ATATAATTTTTAAAATGATTTTTGAAAA
1 ATATAATTTTTAAAAT-ATTTTTAAAAA
10985048 TATAATGTAT
Statistics
Matches: 53, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
35 9 0.17
36 15 0.28
38 24 0.45
39 5 0.09
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.47
Consensus pattern (35 bp):
ATATAATTTTTAAAATATTTTTAAAAACATATAAT
Found at i:10985110 original size:11 final size:12
Alignment explanation
Indices: 10985090--10985119 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
10985080 TATAGTATAC
10985090 ATATTATTTATT
1 ATATTATTTATT
10985102 ATATT-TTTATT
1 ATATTATTTATT
10985113 ATATTAT
1 ATATTAT
10985120 ATTGTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTATTTATT
Found at i:10985117 original size:16 final size:16
Alignment explanation
Indices: 10985093--10985140 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
10985083 AGTATACATA
10985093 TTATT-TATTATATTT
1 TTATTATATTATATTT
*
10985108 TTATTATATTATATTG
1 TTATTATATTATATTT
10985124 TTATTAATATTAT-TTT
1 TTATT-ATATTATATTT
10985140 T
1 T
10985141 CATTTTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 5 0.17
16 17 0.59
17 7 0.24
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (16 bp):
TTATTATATTATATTT
Found at i:10987320 original size:25 final size:24
Alignment explanation
Indices: 10987287--10987345 Score: 100
Period size: 25 Copynumber: 2.4 Consensus size: 24
10987277 ACTCAGAGAT
*
10987287 TATCGATACCATACGAAGTAGGGG
1 TATCAATACCATACGAAGTAGGGG
10987311 TATCAAATACCATACGAAGTAGGGG
1 TATC-AATACCATACGAAGTAGGGG
10987336 TATCAATACC
1 TATCAATACC
10987346 CCAAGTAAGG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
24 10 0.30
25 23 0.70
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (24 bp):
TATCAATACCATACGAAGTAGGGG
Found at i:10987562 original size:20 final size:19
Alignment explanation
Indices: 10987515--10987572 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
10987505 TTGGTATCGG
* *
10987515 TACTAAGGGTGAGTATCGA
1 TACTAAGGGTTAGTATCAA
*
10987534 TATTGAAGGGTTAGTATCAA
1 TACT-AAGGGTTAGTATCAA
10987554 TACTAAAGGGTTTAGTATC
1 TACT-AAGGG-TTAGTATC
10987573 GGTACCATCA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 3 0.09
20 21 0.66
21 8 0.25
ACGTcount: A:0.33, C:0.09, G:0.26, T:0.33
Consensus pattern (19 bp):
TACTAAGGGTTAGTATCAA
Found at i:10991146 original size:32 final size:32
Alignment explanation
Indices: 10991101--10991161 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
10991091 TAAATTTTGG
*
10991101 TCACTTATATTATCGTTTTATTAAGTTTTTCA
1 TCACTTACATTATCGTTTTATTAAGTTTTTCA
* *
10991133 TCACTTACGTTATCTTTTTATTAAGTTTT
1 TCACTTACATTATCGTTTTATTAAGTTTT
10991162 AGTCACTTGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.23, C:0.13, G:0.07, T:0.57
Consensus pattern (32 bp):
TCACTTACATTATCGTTTTATTAAGTTTTTCA
Found at i:10992602 original size:31 final size:31
Alignment explanation
Indices: 10992554--10992663 Score: 139
Period size: 31 Copynumber: 3.5 Consensus size: 31
10992544 TTCAACGTCC
* * *
10992554 AAGTGACCAAAATTTAATTAAATGATAACAT
1 AAGTGACCAAAACTTAATAAAACGATAACAT
* *
10992585 AAGTAACCAAAGCTTAATAAAACGATAACAT
1 AAGTGACCAAAACTTAATAAAACGATAACAT
* * * *
10992616 ATGTGACCAAATCTTACTAAAACGATAACGT
1 AAGTGACCAAAACTTAATAAAACGATAACAT
10992647 AAGTGACCAAAACTTAA
1 AAGTGACCAAAACTTAA
10992664 GTTTTTTAAA
Statistics
Matches: 66, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 66 1.00
ACGTcount: A:0.50, C:0.15, G:0.11, T:0.24
Consensus pattern (31 bp):
AAGTGACCAAAACTTAATAAAACGATAACAT
Found at i:10993081 original size:20 final size:20
Alignment explanation
Indices: 10993056--10993294 Score: 131
Period size: 20 Copynumber: 11.6 Consensus size: 20
10993046 AATGACCAAT
10993056 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
10993076 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
** ***
10993096 AAAATCGCAACGTTAAAAAG
1 AAAATCGCAACGCGATTTAG
**
10993116 AAAATCGCAACG-G-TCAAAAG
1 AAAATCGCAACGCGAT--TTAG
* **
10993136 AAAATCGCAACGCGAGCTTCC
1 AAAATCGCAACGCGA-TTTAG
** *
10993157 AAGTTCGCAACACGATTTAGAAG
1 AAAATCGCAACGCGATTT---AG
* * *
10993180 AAAATCGCAATGCGATTGAT
1 AAAATCGCAACGCGATTTAG
* * *
10993200 AGAATCGCAATGCGATTGAG
1 AAAATCGCAACGCGATTTAG
* *
10993220 AGAGTCGCAACGCGATTTAGAAG
1 AAAATCGCAACGCGATTT---AG
* * *
10993243 AAAATCGCAATGCGACTGAG
1 AAAATCGCAACGCGATTTAG
* * *
10993263 AGAATCGCAATGCGATTTAT
1 AAAATCGCAACGCGATTTAG
*
10993283 AGAATCGCAACG
1 AAAATCGCAACG
10993295 GTCAAAAGAA
Statistics
Matches: 169, Mismatches: 39, Indels: 22
0.73 0.17 0.10
Matches are distributed among these distances:
20 128 0.76
21 13 0.08
23 28 0.17
ACGTcount: A:0.40, C:0.19, G:0.22, T:0.18
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTAG
Found at i:10993245 original size:63 final size:63
Alignment explanation
Indices: 10993161--10993294 Score: 214
Period size: 63 Copynumber: 2.1 Consensus size: 63
10993151 GCTTCCAAGT
* * * *
10993161 TCGCAACACGATTTAGAAGAAAATCGCAATGCGATTGATAGAATCGCAATGCGATTGAGAGAG
1 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGATTGAGAGAA
* *
10993224 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGATTTATAGAA
1 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGATTGAGAGAA
10993287 TCGCAACG
1 TCGCAACG
10993295 GTCAAAAGAA
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 65 1.00
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.20
Consensus pattern (63 bp):
TCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGATTGAGAGAA
Found at i:10993393 original size:6 final size:6
Alignment explanation
Indices: 10993382--10993462 Score: 162
Period size: 6 Copynumber: 13.5 Consensus size: 6
10993372 GACACGTATT
10993382 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
10993430 ACCACG ACCACG ACCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACC
10993463 CGAGACGAGA
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 75 1.00
ACGTcount: A:0.33, C:0.51, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:10994154 original size:6 final size:6
Alignment explanation
Indices: 10994145--10994211 Score: 134
Period size: 6 Copynumber: 11.2 Consensus size: 6
10994135 CGCCGCCGTC
10994145 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
10994193 TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG T
10994212 AATACGTGTC
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 61 1.00
ACGTcount: A:0.00, C:0.16, G:0.49, T:0.34
Consensus pattern (6 bp):
TCGTGG
Found at i:10994322 original size:20 final size:20
Alignment explanation
Indices: 10994299--10994596 Score: 206
Period size: 20 Copynumber: 14.6 Consensus size: 20
10994289 TTCTTTTGAC
10994299 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCTAAATCG
*
10994319 CGTTGCGATTTTCTCAATCG
1 CGTTGCGATTTTCTAAATCG
* *
10994339 CGTTGCGATTTTCTCAGTCG
1 CGTTGCGATTTTCTAAATCG
* * *
10994359 CGTTGCGATTCTCTCAGTCG
1 CGTTGCGATTTTCTAAATCG
* * *
10994379 CGTTGCGATTCTCTCAGTCG
1 CGTTGCGATTTTCTAAATCG
*
10994399 CATTGCGATTTTCTTCTAAATCG
1 CGTTGCGA--TT-TTCTAAATCG
* * *
10994422 CGTTGCGACTCTCTCAATCG
1 CGTTGCGATTTTCTAAATCG
* * * *
10994442 CATTGCGATTCTATCAATCG
1 CGTTGCGATTTTCTAAATCG
*
10994462 CATTGCGATTTTCTTCTAAATCG
1 CGTTGCGA--TT-TTCTAAATCG
** ** *
10994485 CGTTGCGAACTTGGAAGCTCG
1 CGTTGCGATTTTCTAA-ATCG
* *
10994506 CGTTGCGATTTTCT--TTTG
1 CGTTGCGATTTTCTAAATCG
*** **
10994524 ACCGTTGCGATTTTCTTTTTAA
1 --CGTTGCGATTTTCTAAATCG
10994546 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCTAAATCG
* *
10994566 CGTTGCGATTTT-GATATCG
1 CGTTGCGATTTTCTAAATCG
10994585 CGTTGCGATTTT
1 CGTTGCGATTTT
10994597 ATTAGTCATT
Statistics
Matches: 229, Mismatches: 38, Indels: 23
0.79 0.13 0.08
Matches are distributed among these distances:
18 2 0.01
19 17 0.07
20 162 0.71
21 14 0.06
22 6 0.03
23 28 0.12
ACGTcount: A:0.16, C:0.23, G:0.21, T:0.40
Consensus pattern (20 bp):
CGTTGCGATTTTCTAAATCG
Found at i:10994360 original size:40 final size:40
Alignment explanation
Indices: 10994299--10994596 Score: 228
Period size: 40 Copynumber: 7.3 Consensus size: 40
10994289 TTCTTTTGAC
*
10994299 CGTTGCGATTTTCTAAATCGCGTTGCGATTTTCTCAATCG
1 CGTTGCGATTTTCTCAATCGCGTTGCGATTTTCTCAATCG
* * *
10994339 CGTTGCGATTTTCTCAGTCGCGTTGCGATTCTCTCAGTCG
1 CGTTGCGATTTTCTCAATCGCGTTGCGATTTTCTCAATCG
* * *
10994379 CGTTGCGATTCTCTCAGTCGCATTGCGATTTTCTTCTAAATCG
1 CGTTGCGATTTTCTCAATCGCGTTGCGATTTTC-TC--AATCG
* * * * *
10994422 CGTTGCGACTCTCTCAATCGCATTGCGATTCTATCAATCG
1 CGTTGCGATTTTCTCAATCGCGTTGCGATTTTCTCAATCG
* ** **
10994462 CATTGCGATTTTCTTCTAAATCGCGTTGCGAACTT-GGAAGCTCG
1 CGTTGCGATTTTC-TC--AATCGCGTTGCGATTTTCTCAA--TCG
* * *** **
10994506 CGTTGCGATTTTCT--TTTGACCGTTGCGATTTTCTTTTTAA
1 CGTTGCGATTTTCTCAATCG--CGTTGCGATTTTCTCAATCG
* *
10994546 CGTTGCGATTTTCTAAATCGCGTTGCGA-TTT-TGATATCG
1 CGTTGCGATTTTCTCAATCGCGTTGCGATTTTCTCA-ATCG
10994585 CGTTGCGATTTT
1 CGTTGCGATTTT
10994597 ATTAGTCATT
Statistics
Matches: 205, Mismatches: 39, Indels: 29
0.75 0.14 0.11
Matches are distributed among these distances:
38 1 0.00
39 18 0.09
40 104 0.51
41 14 0.07
42 6 0.03
43 47 0.23
44 15 0.07
ACGTcount: A:0.16, C:0.23, G:0.21, T:0.40
Consensus pattern (40 bp):
CGTTGCGATTTTCTCAATCGCGTTGCGATTTTCTCAATCG
Found at i:10994448 original size:63 final size:63
Alignment explanation
Indices: 10994299--10994492 Score: 277
Period size: 63 Copynumber: 3.1 Consensus size: 63
10994289 TTCTTTTGAC
* * * * *
10994299 CGTTGCGATTTTCTAAATCGCGTTGCGATTTTCTCAATCGCGTTGCGATTTTC-TC--AGTCG
1 CGTTGCGATTCTCTCAATCGCGTTGCGATTCTCTCAATCGCATTGCGATTTTCTTCTAAATCG
* *
10994359 CGTTGCGATTCTCTCAGTCGCGTTGCGATTCTCTCAGTCGCATTGCGATTTTCTTCTAAATCG
1 CGTTGCGATTCTCTCAATCGCGTTGCGATTCTCTCAATCGCATTGCGATTTTCTTCTAAATCG
* * *
10994422 CGTTGCGACTCTCTCAATCGCATTGCGATTCTATCAATCGCATTGCGATTTTCTTCTAAATCG
1 CGTTGCGATTCTCTCAATCGCGTTGCGATTCTCTCAATCGCATTGCGATTTTCTTCTAAATCG
10994485 CGTTGCGA
1 CGTTGCGA
10994493 ACTTGGAAGC
Statistics
Matches: 119, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
60 47 0.39
61 2 0.02
63 70 0.59
ACGTcount: A:0.16, C:0.26, G:0.20, T:0.38
Consensus pattern (63 bp):
CGTTGCGATTCTCTCAATCGCGTTGCGATTCTCTCAATCGCATTGCGATTTTCTTCTAAATCG
Found at i:10994586 original size:19 final size:20
Alignment explanation
Indices: 10994546--10994596 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
10994536 TTCTTTTTAA
*
10994546 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCGAAATCG
*
10994566 CGTTGCGATTTT-GATATCG
1 CGTTGCGATTTTCGAAATCG
10994585 CGTTGCGATTTT
1 CGTTGCGATTTT
10994597 ATTAGTCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.16, C:0.18, G:0.24, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTTTCGAAATCG
Found at i:10994706 original size:2 final size:2
Alignment explanation
Indices: 10994701--10994729 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
10994691 ATATATATAT
10994701 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
10994730 ATTCAAACTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:10994983 original size:22 final size:21
Alignment explanation
Indices: 10994937--10994983 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
10994927 GGTATTTGAT
* *
10994937 AAATGTAAATTTAGAAATTAA
1 AAATGAAAATTTAGAAAGTAA
10994958 AAATGAAATATTTAG-AAGTAA
1 AAATGAAA-ATTTAGAAAGTAA
10994979 CAAAT
1 -AAAT
10994984 TATATAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.57, C:0.02, G:0.11, T:0.30
Consensus pattern (21 bp):
AAATGAAAATTTAGAAAGTAA
Found at i:11001884 original size:41 final size:41
Alignment explanation
Indices: 11001803--11001885 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 41
11001793 GACAGGTTTG
* *
11001803 CCTTCCAATCTTACATCTCAACCAATATTAGCTTTTGAACCT
1 CCTTCCAATCCTACATCTCAA-CAATATTAGCTTGTGAACCT
**
11001845 CCTTCCAATCCTACATCTCAA-AGATATTTTCTTGTGAACCT
1 CCTTCCAATCCTACATCTCAACA-ATATTAGCTTGTGAACCT
11001886 TCTCCTTCAC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
40 1 0.03
41 15 0.42
42 20 0.56
ACGTcount: A:0.28, C:0.30, G:0.06, T:0.36
Consensus pattern (41 bp):
CCTTCCAATCCTACATCTCAACAATATTAGCTTGTGAACCT
Found at i:11008501 original size:15 final size:16
Alignment explanation
Indices: 11008476--11008510 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
11008466 ATCGATACTC
11008476 ACTAGATAGTATCGAT
1 ACTAGATAGTATCGAT
11008492 ACTA-ATAGTATCGAT
1 ACTAGATAGTATCGAT
11008507 ACTA
1 ACTA
11008511 CCAGCATTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.31
Consensus pattern (16 bp):
ACTAGATAGTATCGAT
Found at i:11010593 original size:29 final size:30
Alignment explanation
Indices: 11010549--11010633 Score: 102
Period size: 31 Copynumber: 2.8 Consensus size: 30
11010539 TCAATAATAT
*
11010549 TTTAGATATTTATTTTAATTAAAAAA-AA-
1 TTTAGATATTTATTTTGATTAAAAAACAAC
**
11010577 TTCTAGATATTTATTTTGACCAAAATAACAAC
1 TT-TAGATATTTATTTTGATTAAAA-AACAAC
*
11010609 TTTAAATATTTATTTTGATTAAAAA
1 TTTAGATATTTATTTTGATTAAAAA
11010634 TATTTTTGGT
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
28 2 0.04
29 19 0.40
30 3 0.06
31 21 0.45
32 2 0.04
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.45
Consensus pattern (30 bp):
TTTAGATATTTATTTTGATTAAAAAACAAC
Found at i:11011258 original size:13 final size:13
Alignment explanation
Indices: 11011240--11011265 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11011230 TTTATTAAAA
11011240 AATAAAAAATTTT
1 AATAAAAAATTTT
11011253 AATAAAAAATTTT
1 AATAAAAAATTTT
11011266 GGATTAAATG
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AATAAAAAATTTT
Found at i:11011335 original size:2 final size:2
Alignment explanation
Indices: 11011328--11011358 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
11011318 GGGTTTGAGT
11011328 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
11011359 GGATATAAGA
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:11026511 original size:16 final size:17
Alignment explanation
Indices: 11026492--11026530 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
11026482 TGATAAATTA
11026492 ACTAAA-ATTAAAATAT
1 ACTAAACATTAAAATAT
*
11026508 ACTAAACATTTAAATAT
1 ACTAAACATTAAAATAT
*
11026525 ATTAAA
1 ACTAAA
11026531 TTTTACATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (17 bp):
ACTAAACATTAAAATAT
Found at i:11031182 original size:18 final size:18
Alignment explanation
Indices: 11031159--11031194 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
11031149 GGTTAGTAGT
11031159 TGTTTTTTTTCCTTTCTC
1 TGTTTTTTTTCCTTTCTC
*
11031177 TGTTTTTTTTTCTTTCTC
1 TGTTTTTTTTCCTTTCTC
11031195 CGGTTCTGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.00, C:0.19, G:0.06, T:0.75
Consensus pattern (18 bp):
TGTTTTTTTTCCTTTCTC
Done.