Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008062.1 Hibiscus syriacus cultivar Beakdansim tig00110557_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: 2089609
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 9
Found at i:732072 original size:21 final size:21
Alignment explanation
Indices: 732046--732085 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
732036 CCCCCTTTGA
*
732046 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
732067 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
732086 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:738020 original size:50 final size:48
Alignment explanation
Indices: 737892--738072 Score: 161
Period size: 48 Copynumber: 3.7 Consensus size: 48
737882 AAGGAGGTGA
* * * *
737892 TGGAGGTGGTGATTTGTAGTAGTATGGTGGTGG-GG-GACTAGGAGACGG
1 TGGAGGTGGTGACTTGTAGTAGTAAGGAGGAGGTGGTGA-T-GGAGACGG
* * *
737940 TGGAGGCGGTGACTTGTA-AATGTAAGGAGGAGGTGGTGGATGGGAGAGGG
1 TGGAGGTGGTGACTTGTAGTA-GTAAGGAGGAGGTGGT-GAT-GGAGACGG
* * * * *
737990 TGGAGGTGGAGACTTGTAGTAGTAAAGAGGAAGTGGTGATGGAGATGA
1 TGGAGGTGGTGACTTGTAGTAGTAAGGAGGAGGTGGTGATGGAGACGG
* * *
738038 CGGAGGTGGTGACTTATAGTAGTAAGGAGGTGGTG
1 TGGAGGTGGTGACTTGTAGTAGTAAGGAGGAGGTG
738073 AATTGTAGTA
Statistics
Matches: 107, Mismatches: 21, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
47 1 0.01
48 60 0.56
49 5 0.05
50 38 0.36
51 3 0.03
ACGTcount: A:0.24, C:0.04, G:0.48, T:0.24
Consensus pattern (48 bp):
TGGAGGTGGTGACTTGTAGTAGTAAGGAGGAGGTGGTGATGGAGACGG
Found at i:738066 original size:24 final size:24
Alignment explanation
Indices: 738039--738089 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
738029 TGGAGATGAC
* *
738039 GGAGGTGGTGACTTATAGTAGTAA
1 GGAGGTGGTGAATTATAGTAGCAA
*
738063 GGAGGTGGTGAATTGTAGTAGCAA
1 GGAGGTGGTGAATTATAGTAGCAA
738087 GGA
1 GGA
738090 CGAGGAGAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.04, G:0.41, T:0.25
Consensus pattern (24 bp):
GGAGGTGGTGAATTATAGTAGCAA
Found at i:738099 original size:24 final size:24
Alignment explanation
Indices: 738054--738099 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
738044 TGGTGACTTA
* * * *
738054 TAGTAGTAAGGAGGTGGTGAATTG
1 TAGTAGCAAGGACGAGGAGAATTG
738078 TAGTAGCAAGGACGAGGAGAAT
1 TAGTAGCAAGGACGAGGAGAAT
738100 GTTTGTCCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.35, C:0.04, G:0.39, T:0.22
Consensus pattern (24 bp):
TAGTAGCAAGGACGAGGAGAATTG
Found at i:740867 original size:14 final size:14
Alignment explanation
Indices: 740836--740873 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
740826 TTGTTTCACA
740836 GAAAAT-AATTCCG
1 GAAAATGAATTCCG
*
740849 GAAAATGAATTTCG
1 GAAAATGAATTCCG
*
740863 TAAAATGAATT
1 GAAAATGAATT
740874 ACATTTCCAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 6 0.27
14 16 0.73
ACGTcount: A:0.47, C:0.08, G:0.16, T:0.29
Consensus pattern (14 bp):
GAAAATGAATTCCG
Found at i:741107 original size:15 final size:16
Alignment explanation
Indices: 741052--741148 Score: 74
Period size: 16 Copynumber: 5.9 Consensus size: 16
741042 ATTTATGTCA
741052 ATATTATTATTAGAATATT
1 ATATTATTATT--AA-ATT
*
741071 ATATT-TTATTAAAATA
1 ATATTATTATT-AAATT
*
741087 AAATTATTA-TAAATT
1 ATATTATTATTAAATT
*
741102 ATATTATTATTTAATT
1 ATATTATTATTAAATT
*
741118 A-ATTATTTATTAAAATA
1 ATATTA-TTATT-AAATT
*
741135 ATAATATTATTAAA
1 ATATTATTATTAAA
741149 ACATTAAAAT
Statistics
Matches: 64, Mismatches: 9, Indels: 13
0.74 0.10 0.15
Matches are distributed among these distances:
15 16 0.25
16 21 0.33
17 14 0.22
18 8 0.12
19 5 0.08
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (16 bp):
ATATTATTATTAAATT
Found at i:741182 original size:14 final size:15
Alignment explanation
Indices: 741151--741183 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
741141 TTATTAAAAC
*
741151 ATTAAAATTTATAAT
1 ATTAAAATTTAGAAT
741166 ATTAAAATTT-GAAT
1 ATTAAAATTTAGAAT
741180 ATTA
1 ATTA
741184 TATTATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (15 bp):
ATTAAAATTTAGAAT
Found at i:741319 original size:37 final size:37
Alignment explanation
Indices: 741278--741352 Score: 100
Period size: 37 Copynumber: 2.0 Consensus size: 37
741268 ATTAATAATT
741278 TATTATATATTATTAAAATAAAATTAT-AAT-AATATAA
1 TATTATATATTATT--AATAAAATTATCAATAAATATAA
* *
741315 TATTATATTTTATTATTAAAATTATCAATAAATATAA
1 TATTATATATTATTAATAAAATTATCAATAAATATAA
741352 T
1 T
741353 TAAATACTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
35 10 0.29
36 3 0.09
37 21 0.62
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (37 bp):
TATTATATATTATTAATAAAATTATCAATAAATATAA
Found at i:741401 original size:24 final size:24
Alignment explanation
Indices: 741356--741402 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
741346 ATATAATTAA
* * * *
741356 ATACTTAAATATTTTATTAATATG
1 ATACTAAAATAATATATAAATATG
741380 ATACTAAAATAATATATAAATAT
1 ATACTAAAATAATATATAAATAT
741403 TAAATATATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (24 bp):
ATACTAAAATAATATATAAATATG
Found at i:758193 original size:14 final size:14
Alignment explanation
Indices: 758170--758201 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
758160 TTCAAGGGGA
*
758170 AGTTCGTAAAATTT
1 AGTTCCTAAAATTT
758184 AGTTCCTAAAATTT
1 AGTTCCTAAAATTT
758198 AGTT
1 AGTT
758202 GTTATTCTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.44
Consensus pattern (14 bp):
AGTTCCTAAAATTT
Found at i:759751 original size:2 final size:2
Alignment explanation
Indices: 759744--759771 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
759734 AGAAGTAAAA
759744 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
759772 TTAAGATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:764568 original size:39 final size:37
Alignment explanation
Indices: 764465--764568 Score: 91
Period size: 39 Copynumber: 2.7 Consensus size: 37
764455 GATGTAATCT
* * * *
764465 AAAATATTACATCATTCTTAATATTTTTTATTGAACTG
1 AAAATATTACATTATTCATAATA-TTTTTATTCAACCG
* * * *
764503 AAAGTATTATATTCTTCATAACATTTTTATTAACAACCG
1 AAAATATTACATTATTCATAATATTTTTATT--CAACCG
* *
764542 AAAATATTACATTTTTCGTAATATTTT
1 AAAATATTACATTATTCATAATATTTT
764569 AGGTTTAATA
Statistics
Matches: 51, Mismatches: 13, Indels: 3
0.76 0.19 0.04
Matches are distributed among these distances:
37 8 0.16
38 17 0.33
39 26 0.51
ACGTcount: A:0.38, C:0.12, G:0.05, T:0.46
Consensus pattern (37 bp):
AAAATATTACATTATTCATAATATTTTTATTCAACCG
Found at i:770766 original size:31 final size:30
Alignment explanation
Indices: 770708--770791 Score: 80
Period size: 30 Copynumber: 2.8 Consensus size: 30
770698 AGTTGACCAA
** * *
770708 AACCGAAAAT-AATTAATCTGATATTGATTC
1 AACCGAAAATCAACCAATCCGAT-TTGATCC
*
770738 AACCAGAAAATCAACCGATCCGATTTGATCC
1 AACC-GAAAATCAACCAATCCGATTTGATCC
* *
770769 AATCTAAAATCAACCAATCCGAT
1 AACCGAAAATCAACCAATCCGAT
770792 ATCCGAACCG
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
30 21 0.48
31 15 0.34
32 8 0.18
ACGTcount: A:0.43, C:0.23, G:0.10, T:0.25
Consensus pattern (30 bp):
AACCGAAAATCAACCAATCCGATTTGATCC
Found at i:773274 original size:29 final size:29
Alignment explanation
Indices: 773242--773314 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
773232 GTCGTCGGGC
* **
773242 GTGCATGGCGACCTCATTGGTCGCCCGGA
1 GTGCATGGCGACCTAAGAGGTCGCCCGGA
**
773271 GTGCATGGCGACCTAAGAGGTCGCTGGGA
1 GTGCATGGCGACCTAAGAGGTCGCCCGGA
773300 GTGCATGGCGACCTA
1 GTGCATGGCGACCTA
773315 TGGGTTGGGT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.18, C:0.26, G:0.37, T:0.19
Consensus pattern (29 bp):
GTGCATGGCGACCTAAGAGGTCGCCCGGA
Found at i:780819 original size:32 final size:32
Alignment explanation
Indices: 780762--780822 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
780752 TTTCAATCTA
* *
780762 TTCGGGTTGCTTTCGGGTCGGGTTAAATTCAT
1 TTCGGGTTGCTTTCGGATCAGGTTAAATTCAT
* *
780794 TTCGGGTTGCTTTTGGATCATGTTAAATT
1 TTCGGGTTGCTTTCGGATCAGGTTAAATT
780823 TCGATTCGAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.15, C:0.13, G:0.28, T:0.44
Consensus pattern (32 bp):
TTCGGGTTGCTTTCGGATCAGGTTAAATTCAT
Found at i:780892 original size:47 final size:47
Alignment explanation
Indices: 780819--780929 Score: 125
Period size: 47 Copynumber: 2.3 Consensus size: 47
780809 GATCATGTTA
*** *
780819 AATTTC-GATTCGAGTTTCTTTCGGTTCGGGCTATTTTCGATTCAGGTT
1 AATTTCAG-TTCG-GTTTCTTTCGGTTCAAACTAATTTCGATTCAGGTT
* * *
780867 AATTTCAGTTCGGTTTCTTTTGGTTCAAATTAATTTCGATTCGGGTT
1 AATTTCAGTTCGGTTTCTTTCGGTTCAAACTAATTTCGATTCAGGTT
780914 AATTTCAGTTCTGGTT
1 AATTTCAGTTC-GGTT
780930 GATTTTAGTT
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
47 39 0.72
48 14 0.26
49 1 0.02
ACGTcount: A:0.17, C:0.14, G:0.21, T:0.48
Consensus pattern (47 bp):
AATTTCAGTTCGGTTTCTTTCGGTTCAAACTAATTTCGATTCAGGTT
Found at i:782128 original size:21 final size:21
Alignment explanation
Indices: 782090--782129 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
782080 TATACCCTTA
** *
782090 ATATATATTTTAATAAAAAGT
1 ATATATATGATAAAAAAAAGT
782111 ATATATATGATAAAAAAAA
1 ATATATATGATAAAAAAAA
782130 CCCCTAACTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (21 bp):
ATATATATGATAAAAAAAAGT
Found at i:786079 original size:7 final size:7
Alignment explanation
Indices: 786069--786108 Score: 80
Period size: 7 Copynumber: 5.7 Consensus size: 7
786059 GAGAATTGAG
786069 TTTTATT
1 TTTTATT
786076 TTTTATT
1 TTTTATT
786083 TTTTATT
1 TTTTATT
786090 TTTTATT
1 TTTTATT
786097 TTTTATT
1 TTTTATT
786104 TTTTA
1 TTTTA
786109 ATTCTGTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTATT
Found at i:797379 original size:34 final size:34
Alignment explanation
Indices: 797314--797416 Score: 118
Period size: 34 Copynumber: 2.9 Consensus size: 34
797304 TATTATTAAT
*
797314 TATCCATTAGGGTTGGTCTATCTGTCTGCCTCTACCTC
1 TATCCATTAGGGTTGG---A-CTGTCAGCCTCTACCTC
797352 TATCCATTAGGGTTGGACTGTCAGCCTCTACCTC
1 TATCCATTAGGGTTGGACTGTCAGCCTCTACCTC
* * *
797386 TATTCC-TCAGGGTTGGACCGTCGGCCTCTAC
1 TA-TCCATTAGGGTTGGACTGTCAGCCTCTAC
797417 TTTTGGCTTC
Statistics
Matches: 60, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
34 40 0.67
35 4 0.07
38 16 0.27
ACGTcount: A:0.15, C:0.30, G:0.21, T:0.34
Consensus pattern (34 bp):
TATCCATTAGGGTTGGACTGTCAGCCTCTACCTC
Found at i:799174 original size:15 final size:15
Alignment explanation
Indices: 799154--799183 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
799144 TGAGATAATG
799154 ATAACAATAAAAAAA
1 ATAACAATAAAAAAA
*
799169 ATAACAGTAAAAAAA
1 ATAACAATAAAAAAA
799184 TATCGATTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.77, C:0.07, G:0.03, T:0.13
Consensus pattern (15 bp):
ATAACAATAAAAAAA
Found at i:803149 original size:3 final size:3
Alignment explanation
Indices: 803141--803181 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
803131 GGGTTTTAAT
* *
803141 TTA TTA TTA TTA TCA TTAA TTA CTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA T
803182 AAATAAAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:813349 original size:24 final size:25
Alignment explanation
Indices: 813287--813349 Score: 80
Period size: 24 Copynumber: 2.6 Consensus size: 25
813277 TTCCGTCTGG
813287 CATAACTAGAGTCAAGTTTTATGGA
1 CATAACTAGAGTCAAGTTTTATGGA
813312 C-TAGCACT-GA-TCAAGTTTTAT-GA
1 CATA--ACTAGAGTCAAGTTTTATGGA
813335 CATAACTAGAGTCAA
1 CATAACTAGAGTCAA
813350 TAGATAGAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 11
0.75 0.00 0.25
Matches are distributed among these distances:
22 3 0.09
23 5 0.15
24 19 0.58
25 3 0.09
26 3 0.09
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30
Consensus pattern (25 bp):
CATAACTAGAGTCAAGTTTTATGGA
Found at i:826546 original size:64 final size:63
Alignment explanation
Indices: 826478--826640 Score: 191
Period size: 63 Copynumber: 2.6 Consensus size: 63
826468 TTGAAGGTGC
* * * *
826478 ATCGATGCACAGGAAGTGTATCGATGCACTCCTTTAAAATAAAAACATTGAATGCCATCAGTGT
1 ATCGATGCACAGGTAGTGCATCGATGCAC-CCCTTAAAATAAAAACATCGAATGCCATCAGTGT
* * ** ** **
826542 ATCGATGCACAAGTAGTGCATCGATGCACCCCTTAATATTCAAACATCGAATGGGATTTGTGT
1 ATCGATGCACAGGTAGTGCATCGATGCACCCCTTAAAATAAAAACATCGAATGCCATCAGTGT
* *
826605 ACCGATGCACAGGTAGTGCATCGATGCACCCGTTAA
1 ATCGATGCACAGGTAGTGCATCGATGCACCCCTTAA
826641 GGGATGCATC
Statistics
Matches: 84, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
63 58 0.69
64 26 0.31
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (63 bp):
ATCGATGCACAGGTAGTGCATCGATGCACCCCTTAAAATAAAAACATCGAATGCCATCAGTGT
Found at i:827191 original size:22 final size:22
Alignment explanation
Indices: 827163--827262 Score: 145
Period size: 22 Copynumber: 4.7 Consensus size: 22
827153 AACGGTTTAT
827163 AGTGGTCCTTCGGGACATATCC
1 AGTGGTCCTTCGGGACATATCC
*
827185 AGTGGTCCTTCGGGACGTATCC
1 AGTGGTCCTTCGGGACATATCC
*
827207 AGTGGTCCTTCGGGAC--GT--
1 AGTGGTCCTTCGGGACATATCC
827225 AGTGGTCCTTCGGGACATATCC
1 AGTGGTCCTTCGGGACATATCC
*
827247 AGTGGTCCTTAGGGAC
1 AGTGGTCCTTCGGGAC
827263 GTAATGGTCC
Statistics
Matches: 70, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
18 16 0.23
20 2 0.03
22 52 0.74
ACGTcount: A:0.16, C:0.25, G:0.32, T:0.27
Consensus pattern (22 bp):
AGTGGTCCTTCGGGACATATCC
Found at i:827240 original size:40 final size:40
Alignment explanation
Indices: 827185--827277 Score: 159
Period size: 40 Copynumber: 2.3 Consensus size: 40
827175 GGACATATCC
* *
827185 AGTGGTCCTTCGGGACGTATCCAGTGGTCCTTCGGGACGT
1 AGTGGTCCTTCGGGACATATCCAGTGGTCCTTAGGGACGT
827225 AGTGGTCCTTCGGGACATATCCAGTGGTCCTTAGGGACGT
1 AGTGGTCCTTCGGGACATATCCAGTGGTCCTTAGGGACGT
*
827265 AATGGTCCTTCGG
1 AGTGGTCCTTCGG
827278 AACAAATATT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.15, C:0.24, G:0.33, T:0.28
Consensus pattern (40 bp):
AGTGGTCCTTCGGGACATATCCAGTGGTCCTTAGGGACGT
Found at i:841609 original size:21 final size:22
Alignment explanation
Indices: 841565--841610 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
841555 AGAGCACATA
* *
841565 TTAATGAAGAAAATTTTGAGTT
1 TTAAAGAAGAAAATTTTGAATT
841587 TTAAAGAAGAAAA-TTTGAATT
1 TTAAAGAAGAAAATTTTGAATT
841608 TTA
1 TTA
841611 GGAAATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.39
Consensus pattern (22 bp):
TTAAAGAAGAAAATTTTGAATT
Found at i:854540 original size:21 final size:22
Alignment explanation
Indices: 854516--854558 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
854506 TCAATAAATT
854516 ATAAAATAA-TATCTATTTAAA
1 ATAAAATAATTATCTATTTAAA
*
854537 ATAAAATAATTATTTATTTAAA
1 ATAAAATAATTATCTATTTAAA
854559 TACAATTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (22 bp):
ATAAAATAATTATCTATTTAAA
Found at i:864819 original size:18 final size:18
Alignment explanation
Indices: 864796--864830 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
864786 TATAACCAAA
864796 AGCTCTGGTGAGAAACAT
1 AGCTCTGGTGAGAAACAT
864814 AGCTCTGGTGAGAAACA
1 AGCTCTGGTGAGAAACA
864831 ATCAGCAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.17, G:0.29, T:0.20
Consensus pattern (18 bp):
AGCTCTGGTGAGAAACAT
Found at i:867278 original size:21 final size:23
Alignment explanation
Indices: 867238--867279 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
867228 CATGATTTTT
*
867238 GCAACAAAGCTGTTTTGGAGGCG
1 GCAACAAAGCTGTGTTGGAGGCG
867261 GCAACAAAG-T-TGTTGGAGG
1 GCAACAAAGCTGTGTTGGAGG
867280 AGAAGAAGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
22 1 0.06
23 9 0.50
ACGTcount: A:0.29, C:0.14, G:0.36, T:0.21
Consensus pattern (23 bp):
GCAACAAAGCTGTGTTGGAGGCG
Found at i:874389 original size:22 final size:20
Alignment explanation
Indices: 874352--874391 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
874342 ATTTAGGTAG
*
874352 CTCTTTTTTTTTTTTAATAA
1 CTCTTTTTTTTGTTTAATAA
874372 CTCTTATTTTCTTGTTTAAT
1 CTCTT-TTTT-TTGTTTAAT
874392 GTTGTTATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 4 0.24
22 8 0.47
ACGTcount: A:0.17, C:0.12, G:0.03, T:0.68
Consensus pattern (20 bp):
CTCTTTTTTTTGTTTAATAA
Found at i:877316 original size:79 final size:79
Alignment explanation
Indices: 877141--877292 Score: 223
Period size: 79 Copynumber: 1.9 Consensus size: 79
877131 TTGAATTTAT
* *
877141 AATAAACTATGACAATTAATATGATTACTTTTTAAAAGTTAAAACAAATTGTTAGTTATGATAAT
1 AATAAACTATGATAATTAATATGATTACTCTTTAAAAGTTAAAACAAATTGTTAGTTATGATAAT
*** * *
877206 TTTTTTGACAACTA
66 TAAATTAAAAACTA
* *
877220 AATAAACTATGATAATTAATATGATTACTCTTTAAAAGTTAATATAAATTGTTAGTTATGATAAT
1 AATAAACTATGATAATTAATATGATTACTCTTTAAAAGTTAAAACAAATTGTTAGTTATGATAAT
877285 TAAATTAA
66 TAAATTAA
877293 TAAATTTACT
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
79 65 1.00
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.41
Consensus pattern (79 bp):
AATAAACTATGATAATTAATATGATTACTCTTTAAAAGTTAAAACAAATTGTTAGTTATGATAAT
TAAATTAAAAACTA
Found at i:877782 original size:47 final size:46
Alignment explanation
Indices: 877730--877822 Score: 123
Period size: 47 Copynumber: 2.0 Consensus size: 46
877720 GAAAAATTGA
* *
877730 TTTTTTGAGAATTTAGAAGAGAGAAGAGGGAAAATTTGATTTTTTTT
1 TTTTTTGAGAATTTAGAAAAGAGAAGAGAG-AAATTTGATTTTTTTT
** * *
877777 TTTTTTTTGAATTTAGAAAAGGGAAGAGAGAAATTTTATTTTTTTT
1 TTTTTTGAGAATTTAGAAAAGAGAAGAGAGAAATTTGATTTTTTTT
877823 GACAAATGTT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
46 15 0.38
47 25 0.62
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.46
Consensus pattern (46 bp):
TTTTTTGAGAATTTAGAAAAGAGAAGAGAGAAATTTGATTTTTTTT
Found at i:878389 original size:166 final size:168
Alignment explanation
Indices: 878027--878519 Score: 837
Period size: 166 Copynumber: 2.9 Consensus size: 168
878017 TTATTTTCCC
878027 TTCTTTTTTTAATGTGCACAAATTTAAATGTGAATATTAATTTTAAAATCTTTTATTTTAGTCAC
1 TTCTTTTTTTAATGTGCACAAATTTAAATGTGAATATTAATTTTAAAATCTTTTATTTTAGTCAC
878092 TTATGTTTAATGATATATATATATATATACTTATGTACATCATACATATATACTCATATATACAT
66 TTATGTTTAATGA-ATATATATATATATACTTATGTACATCATACATATATACTCATATATACAT
878157 ATACTTATATATTATACTTTATACTTACTGTGTGTGTGTGTG
130 ATACTTATATATTATACTTTATACTTAC---GTGTGTGTGTG
* *
878199 TTATTTTTTTAATGTGCACAAATTTAAATGTGAATATTAATTTTAAAATCTTTTATTTTAGTAAC
1 TTCTTTTTTTAATGTGCACAAATTTAAATGTGAATATTAATTTTAAAATCTTTTATTTTAGTCAC
*
878264 TTATGTTTAATG-ATATATATATATACACTTATGTACATCATACATATATACTCATATATACATA
66 TTATGTTTAATGAATATATATATATATACTTATGTACATCATACATATATACTCATATATACATA
878328 TACTTATATATTATACTTTATACTTAC-TGTGTGTGTG
131 TACTTATATATTATACTTTATACTTACGTGTGTGTGTG
878365 TTCTTTTTTTAATGTGCACAAATTTAAATGTGAATATTAATTTTAAAATCTTTTATTTTAGTCAC
1 TTCTTTTTTTAATGTGCACAAATTTAAATGTGAATATTAATTTTAAAATCTTTTATTTTAGTCAC
878430 TTATGTTTAATGATATATATATATATATATATATACTTATGTACATCATACATATATACTCATAT
66 TTATGTTTAATG------A-ATATATATATATATACTTATGTACATCATACATATATACTCATAT
*
878495 ATACGTATACTTATATATTATACTT
124 ATACATATACTTATATATTATACTT
878520 ACTCTGTGTG
Statistics
Matches: 306, Mismatches: 7, Indels: 14
0.94 0.02 0.04
Matches are distributed among these distances:
166 85 0.28
170 78 0.25
172 75 0.25
174 68 0.22
ACGTcount: A:0.35, C:0.10, G:0.08, T:0.48
Consensus pattern (168 bp):
TTCTTTTTTTAATGTGCACAAATTTAAATGTGAATATTAATTTTAAAATCTTTTATTTTAGTCAC
TTATGTTTAATGAATATATATATATATACTTATGTACATCATACATATATACTCATATATACATA
TACTTATATATTATACTTTATACTTACGTGTGTGTGTG
Found at i:878787 original size:35 final size:35
Alignment explanation
Indices: 878748--878858 Score: 86
Period size: 35 Copynumber: 3.1 Consensus size: 35
878738 CAATTTAATC
878748 CTTATAATTATATTTGTATATGAAATCAACCCATA
1 CTTATAATTATATTTGTATATGAAATCAACCCATA
* ** * *
878783 CTTAT--TTATATTTTTGTA-ATTTACTTCAATCTAGT-
1 CTTATAATTATA--TTTGTATA-TGAAATCAACCCA-TA
* *
878818 CATTAAAATTATATTTGTATATGAAATTAACCCATA
1 C-TTATAATTATATTTGTATATGAAATCAACCCATA
878854 CTTAT
1 CTTAT
878859 TTATTTTTCA
Statistics
Matches: 54, Mismatches: 13, Indels: 18
0.64 0.15 0.21
Matches are distributed among these distances:
33 5 0.09
34 1 0.02
35 24 0.44
36 18 0.33
37 1 0.02
38 5 0.09
ACGTcount: A:0.36, C:0.13, G:0.05, T:0.46
Consensus pattern (35 bp):
CTTATAATTATATTTGTATATGAAATCAACCCATA
Found at i:882900 original size:31 final size:32
Alignment explanation
Indices: 882859--882927 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 32
882849 AAATTAATAA
882859 AGACTATGTATCAATCTACAGGCAAACACAACG
1 AGACT-TGTATCAATCTACAGGCAAACACAACG
882892 AGACTGTATGTATCAATCTACAGGCAAACACAACG
1 AGAC--T-TGTATCAATCTACAGGCAAACACAACG
882927 A
1 A
882928 ATTTCAGAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 4 0.12
35 30 0.88
ACGTcount: A:0.42, C:0.23, G:0.16, T:0.19
Consensus pattern (32 bp):
AGACTTGTATCAATCTACAGGCAAACACAACG
Found at i:885939 original size:50 final size:51
Alignment explanation
Indices: 885875--885996 Score: 129
Period size: 51 Copynumber: 2.4 Consensus size: 51
885865 GAGTTTATCT
* * * * * * *
885875 AAATAATATCTTTTATTAAAATATGTCATGTTAAAGTGAT-GAGTTCTAATA
1 AAAT-ATATATTTTATTAAAATATATCAAGTCAAAATGATAAAATTCTAATA
* * * *
885926 AAATATATTTTTTATTATATTTTATCAAGTCAAAATGATAAAATTCTAATA
1 AAATATATATTTTATTAAAATATATCAAGTCAAAATGATAAAATTCTAATA
885977 AAATATATATTTTATTAAAA
1 AAATATATATTTTATTAAAA
885997 CCCGTCATGC
Statistics
Matches: 57, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
50 27 0.47
51 30 0.53
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (51 bp):
AAATATATATTTTATTAAAATATATCAAGTCAAAATGATAAAATTCTAATA
Found at i:886431 original size:22 final size:22
Alignment explanation
Indices: 886403--886445 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
886393 CTGTAAATGT
886403 TAAAAAACAT-TAATGTTTTAGG
1 TAAAAAA-ATATAATGTTTTAGG
886425 TAAAAAAATAATAATGTTTTA
1 TAAAAAAAT-ATAATGTTTTA
886446 AGTATTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 2 0.11
22 7 0.37
23 10 0.53
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.37
Consensus pattern (22 bp):
TAAAAAAATATAATGTTTTAGG
Found at i:895792 original size:14 final size:14
Alignment explanation
Indices: 895775--895806 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
895765 TTTACGCAAT
895775 GATTTATTTGCAGG
1 GATTTATTTGCAGG
895789 GATTTATTTGCAGG
1 GATTTATTTGCAGG
895803 GATT
1 GATT
895807 ACTTCCTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.22, C:0.06, G:0.28, T:0.44
Consensus pattern (14 bp):
GATTTATTTGCAGG
Found at i:898391 original size:21 final size:20
Alignment explanation
Indices: 898305--898462 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
898295 AAATGACCAA
**
898305 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
898324 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
898344 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
898364 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
898385 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
898406 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
898426 CAAGAATCGCAACGCGAATAT
1 CAA-AATCGCAACGCGATTTT
*
898447 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
898463 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 42 0.40
21 46 0.44
ACGTcount: A:0.39, C:0.25, G:0.18, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:898491 original size:20 final size:20
Alignment explanation
Indices: 898430--898658 Score: 230
Period size: 20 Copynumber: 11.4 Consensus size: 20
898420 GATTTTCAAG
* ** *
898430 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
898450 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
898470 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
898490 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
898510 AATAGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
898530 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
898550 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
898570 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
898590 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
898610 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
898630 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
898650 AATCACAAC
1 AATCGCAAC
898659 ACTGAAATTT
Statistics
Matches: 175, Mismatches: 28, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 171 0.98
21 2 0.01
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:899390 original size:24 final size:24
Alignment explanation
Indices: 899351--899397 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
899341 AAATTTGGTC
899351 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
899375 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
899398 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:899589 original size:12 final size:12
Alignment explanation
Indices: 899572--899596 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
899562 ATATAATCCT
899572 GAAGAAGAAAAA
1 GAAGAAGAAAAA
899584 GAAGAAGAAAAA
1 GAAGAAGAAAAA
899596 G
1 G
899597 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:901931 original size:33 final size:34
Alignment explanation
Indices: 901861--902026 Score: 192
Period size: 33 Copynumber: 4.8 Consensus size: 34
901851 GCATTTGACT
** * * * *
901861 ATCGCAACACGGAAATTACAATCGCAACGAGAGA
1 ATCGCAATGCGGAAATGAAAATCGCAACAAGAAA
*
901895 ATCGCAATGC-GAAATGAAAATCCCAACAAGAAA
1 ATCGCAATGCGGAAATGAAAATCGCAACAAGAAA
901928 ATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAA
1 ATCGCAATGCGGAAATGAAAATCGCAA--C--AA-GAAA
* *
901967 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGGAAATGAAAATCGCAACAAGAAA
902000 ATCGCAATGCGGAAATGAAAATCGCAA
1 ATCGCAATGCGGAAATGAAAATCGCAA
902027 TGTGAAATGA
Statistics
Matches: 115, Mismatches: 10, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
33 41 0.36
34 40 0.35
36 2 0.02
38 18 0.16
39 14 0.12
ACGTcount: A:0.46, C:0.19, G:0.21, T:0.13
Consensus pattern (34 bp):
ATCGCAATGCGGAAATGAAAATCGCAACAAGAAA
Found at i:901957 original size:53 final size:49
Alignment explanation
Indices: 901880--902130 Score: 240
Period size: 53 Copynumber: 4.8 Consensus size: 49
901870 CGGAAATTAC
* *
901880 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAA-CAA-GAA
1 AATCGCAACGAGAAAATCGCAATGCGAAATGAAAATCGCAAGCAATGAA
901927 AATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--C-G--A-GAAAATCGCAATGCGAAATGAAAATCGCAA-GC--AATGAA
* *
901985 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGTGAAATGAA
1 AATCGCAACGAGAAAATCGCAATGC-GAAATGAAAATCGCAA---GCAATGAA
* * *
902038 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAA-CGA-GAG
1 AATCGCAACGAGAAAATCGCAATGCGAAATGAAAATCGCAAGCAATGAA
902085 AATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCA
1 AATCGCAA--C-G--A-GAAAATCGCAATGCGAAATGAAAATCGCA
902131 TTGCGATTCT
Statistics
Matches: 176, Mismatches: 8, Indels: 34
0.81 0.04 0.16
Matches are distributed among these distances:
47 18 0.10
48 1 0.01
49 2 0.01
50 2 0.01
52 31 0.18
53 104 0.59
55 4 0.02
56 1 0.01
57 2 0.01
58 11 0.06
ACGTcount: A:0.46, C:0.18, G:0.23, T:0.14
Consensus pattern (49 bp):
AATCGCAACGAGAAAATCGCAATGCGAAATGAAAATCGCAAGCAATGAA
Found at i:901987 original size:72 final size:72
Alignment explanation
Indices: 901894--902127 Score: 286
Period size: 72 Copynumber: 3.3 Consensus size: 72
901884 GCAACGAGAG
901894 AATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
1 AATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
901959 AAATGAA
66 AAATGAA
* * * *
901966 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGTG
1 AATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
902031 AAATGAA
66 AAATGAA
* * * * * * *
902038 AATCGCAACGAGAGAATCG-CAATGCGAA-ATGAAAATCGCAA--C-G--A-GAGAATCGCAATG
1 AATCGCAATGCGA-AAT-GAAAATCCCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAATG
902095 CGGAAATGAA
64 C-GAAATGAA
902105 AATCGCAATGCGAAATGAAAATC
1 AATCGCAATGCGAAATGAAAATC
902128 GCATTGCGAT
Statistics
Matches: 139, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
65 1 0.01
66 18 0.13
67 20 0.14
69 1 0.01
70 1 0.01
72 89 0.64
73 8 0.06
74 1 0.01
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.14
Consensus pattern (72 bp):
AATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
AAATGAA
Found at i:902057 original size:14 final size:14
Alignment explanation
Indices: 902038--902092 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
902028 GTGAAATGAA
902038 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
902052 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
902071 AATCGCAACGAGAG
1 AATCGCAACGAGAG
902085 AATCGCAA
1 AATCGCAA
902093 TGCGGAAATG
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:902061 original size:33 final size:33
Alignment explanation
Indices: 902019--902112 Score: 170
Period size: 33 Copynumber: 2.8 Consensus size: 33
902009 CGGAAATGAA
*
902019 AATCGCAATGTGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
902052 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
902085 AATCGCAATGCGGAAATGAAAATCGCAA
1 AATCGCAATGC-GAAATGAAAATCGCAA
902113 TGCGAAATGA
Statistics
Matches: 59, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
33 43 0.73
34 16 0.27
ACGTcount: A:0.46, C:0.17, G:0.23, T:0.14
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAG
Found at i:902129 original size:86 final size:89
Alignment explanation
Indices: 901924--902130 Score: 348
Period size: 86 Copynumber: 2.3 Consensus size: 89
901914 ATCCCAACAA
901924 GAAAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATC
1 GAAAATCGCAATGC-GAAATGAAAATCGCAA-GCG-AATGAAAATCGCAATGCGAAATGAAAATC
901989 GCAACGAGAGAATCGCAATGCGGAAAT
63 GCAACGAGAGAATCGCAATGCGGAAAT
* *
902016 GAAAATCGCAATGTGAAATGAAAATCGCAA-CG-A-GAGAATCGCAATGCGAAATGAAAATCGCA
1 GAAAATCGCAATGCGAAATGAAAATCGCAAGCGAATGAAAATCGCAATGCGAAATGAAAATCGCA
902078 ACGAGAGAATCGCAATGCGGAAAT
66 ACGAGAGAATCGCAATGCGGAAAT
902102 GAAAATCGCAATGCGAAATGAAAATCGCA
1 GAAAATCGCAATGCGAAATGAAAATCGCA
902131 TTGCGATTCT
Statistics
Matches: 112, Mismatches: 3, Indels: 6
0.93 0.02 0.05
Matches are distributed among these distances:
86 80 0.71
87 1 0.01
89 2 0.02
91 16 0.14
92 13 0.12
ACGTcount: A:0.46, C:0.16, G:0.24, T:0.14
Consensus pattern (89 bp):
GAAAATCGCAATGCGAAATGAAAATCGCAAGCGAATGAAAATCGCAATGCGAAATGAAAATCGCA
ACGAGAGAATCGCAATGCGGAAAT
Found at i:902170 original size:53 final size:52
Alignment explanation
Indices: 902107--902222 Score: 160
Period size: 53 Copynumber: 2.2 Consensus size: 52
902097 GAAATGAAAA
*
902107 TCGCAATGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
** ** **
902159 TCCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 T-CGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
902212 TCGCATTGCGA
1 TCGCATTGCGA
902223 TTTTCATTTC
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
52 11 0.20
53 45 0.80
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.39
Consensus pattern (52 bp):
TCGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:902185 original size:19 final size:19
Alignment explanation
Indices: 902145--902232 Score: 123
Period size: 19 Copynumber: 4.8 Consensus size: 19
902135 GATTCTCTCG
902145 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
902165 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
902184 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
902198 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
902217 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
902233 AACATAATGC
Statistics
Matches: 61, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
14 6 0.10
16 7 0.11
17 7 0.11
19 26 0.43
20 15 0.25
ACGTcount: A:0.14, C:0.23, G:0.16, T:0.48
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:902342 original size:14 final size:14
Alignment explanation
Indices: 902323--902359 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
902313 CATCAATTAC
902323 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
902337 ACAAATCATCTTTT
1 ACAAATCAACTTTT
902351 ACAAATCAA
1 ACAAATCAA
902360 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:904321 original size:19 final size:19
Alignment explanation
Indices: 904279--904414 Score: 111
Period size: 19 Copynumber: 7.4 Consensus size: 19
904269 TAGTTTACTT
* *
904279 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TCAAAA
* *
904299 TCGCAACGCGAAATGAGAA
1 TCGCAACGCGAAATCAAAA
* *
904318 TCGCAACGAGAAACCAAAA
1 TCGCAACGCGAAATCAAAA
* *
904337 TCACAACGCGAAACCAAAA
1 TCGCAACGCGAAATCAAAA
* *
904356 TCGCAACGCTAAATGAAAA
1 TCGCAACGCGAAATCAAAA
*
904375 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAATCAAAA
* *
904389 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATCAAAA
904408 TCGCAAC
1 TCGCAAC
904415 AAGAGAATCG
Statistics
Matches: 92, Mismatches: 19, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
14 9 0.10
15 1 0.01
16 2 0.02
17 1 0.01
18 1 0.01
19 66 0.72
20 12 0.13
ACGTcount: A:0.47, C:0.25, G:0.17, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATCAAAA
Found at i:904403 original size:33 final size:33
Alignment explanation
Indices: 904354--904432 Score: 122
Period size: 33 Copynumber: 2.4 Consensus size: 33
904344 GCGAAACCAA
* * *
904354 AATCGCAACGCTAAATGAAAATCGCAACGACAG
1 AATCGCAATGCGAAATGAAAATCGCAACAACAG
*
904387 AATCGCAATGCGAAATGAAAATCGCAACAAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACAACAG
904420 AATCGCAATGCGA
1 AATCGCAATGCGA
904433 TTTTGGTTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.46, C:0.22, G:0.20, T:0.13
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACAACAG
Found at i:904452 original size:19 final size:18
Alignment explanation
Indices: 904428--904519 Score: 74
Period size: 19 Copynumber: 5.4 Consensus size: 18
904418 AGAATCGCAA
904428 TGCGATTTTGGTTTAGCGT
1 TGCGATTTTGGTTT-GCGT
904447 TGCGATTTT-G--T-CGT
1 TGCGATTTTGGTTTGCGT
904461 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTT-GCGT
*
904480 TGCGATTCT-G--T-CGT
1 TGCGATTTTGGTTTGCGT
**
904494 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTT-GCGT
904513 TGCGATT
1 TGCGATT
904520 CTCTCGTTGC
Statistics
Matches: 60, Mismatches: 3, Indels: 20
0.72 0.04 0.24
Matches are distributed among these distances:
14 23 0.38
15 1 0.02
16 2 0.03
17 2 0.03
18 2 0.03
19 30 0.50
ACGTcount: A:0.09, C:0.16, G:0.28, T:0.47
Consensus pattern (18 bp):
TGCGATTTTGGTTTGCGT
Found at i:904463 original size:14 final size:14
Alignment explanation
Indices: 904444--904502 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
904434 TTTGGTTTAG
904444 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
904458 CGTTGCGATTTTGGTTT
1 CGTTGCGATTTT-G--T
*
904475 CGCGTTGCGATTCTGT
1 --CGTTGCGATTTTGT
904491 CGTTGCGATTTT
1 CGTTGCGATTTT
904503 CATTTCGCGT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 23 0.61
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 11 0.29
ACGTcount: A:0.07, C:0.17, G:0.29, T:0.47
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:904470 original size:33 final size:33
Alignment explanation
Indices: 904428--904551 Score: 176
Period size: 33 Copynumber: 3.7 Consensus size: 33
904418 AGAATCGCAA
* *
904428 TGCGATTTTGGTTTAGCGTTGCGATTTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
904461 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
** *
904494 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
* *
904527 TGCGATTTTAAGTTTCGTGTTGCGA
1 TGCGATTTT-GGTTTCGCGTTGCGA
904552 AAGTAAACTA
Statistics
Matches: 82, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
33 70 0.85
34 12 0.15
ACGTcount: A:0.10, C:0.17, G:0.27, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:904529 original size:14 final size:14
Alignment explanation
Indices: 904477--904533 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
904467 TTTGGTTTCG
*
904477 CGTTGCGATTCTGT
1 CGTTGCGATTCTCT
*
904491 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
904510 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
904524 CGTTGCGATT
1 CGTTGCGATT
904534 TTAAGTTTCG
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 20 0.57
16 3 0.09
17 3 0.09
19 9 0.26
ACGTcount: A:0.09, C:0.23, G:0.25, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:904808 original size:93 final size:93
Alignment explanation
Indices: 904649--904962 Score: 587
Period size: 93 Copynumber: 3.4 Consensus size: 93
904639 TCAGGGTATT
*
904649 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTTAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
904714 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
*
904742 AGTTTAGCAGATTTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
904807 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
904835 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGAC--A
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
904898 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
*
904926 AGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACT
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
904963 AAGCAATCTA
Statistics
Matches: 217, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
91 65 0.30
93 152 0.70
ACGTcount: A:0.45, C:0.19, G:0.14, T:0.23
Consensus pattern (93 bp):
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACAC
Found at i:906692 original size:41 final size:40
Alignment explanation
Indices: 906647--906730 Score: 114
Period size: 40 Copynumber: 2.1 Consensus size: 40
906637 TCTTTTGGTT
* ***
906647 GAAATGAAAATCGCAACTAGAGAATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA-AATGAAAATCGCAACGAGA
*
906688 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGAAATGAAAATCGCAACGAGA
906728 GAA
1 GAA
906731 TCGCAACGCG
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
40 19 0.50
41 19 0.50
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.12
Consensus pattern (40 bp):
GAAATGAAAATCGCAACGAGAAATGAAAATCGCAACGAGA
Found at i:906712 original size:19 final size:19
Alignment explanation
Indices: 906647--906760 Score: 94
Period size: 19 Copynumber: 6.1 Consensus size: 19
906637 TCTTTTGGTT
**
906647 GAAATGAAAATCGCAACTA
1 GAAATGAAAATCGCAACGC
*** *
906666 GAGAATGACTGTCGCAACGAGA
1 GA-AATGAAAATCGCAAC--GC
906688 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
906707 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
906724 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
906740 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
906759 GA
1 GA
906761 TTTTGGTTTC
Statistics
Matches: 76, Mismatches: 11, Indels: 16
0.74 0.11 0.16
Matches are distributed among these distances:
14 10 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 33 0.43
20 12 0.16
21 12 0.16
22 3 0.04
ACGTcount: A:0.46, C:0.18, G:0.24, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:906808 original size:21 final size:21
Alignment explanation
Indices: 906783--906856 Score: 96
Period size: 21 Copynumber: 3.5 Consensus size: 21
906773 GTTGCGATTC
906783 TCTCGTTGCGATTTTCATTTT
1 TCTCGTTGCGATTTTCATTTT
**
906804 TCTCGTTGCAGATAGTCA-TTT
1 TCTCGTTGC-GATTTTCATTTT
* *
906825 TCACGTTGCGATTTTCATTTA
1 TCTCGTTGCGATTTTCATTTT
906846 TCTCGTTGCGA
1 TCTCGTTGCGA
906857 CTCTTCTGCA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
20 6 0.14
21 32 0.73
22 6 0.14
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.47
Consensus pattern (21 bp):
TCTCGTTGCGATTTTCATTTT
Found at i:906978 original size:33 final size:33
Alignment explanation
Indices: 906936--907006 Score: 117
Period size: 33 Copynumber: 2.2 Consensus size: 33
906926 AATACTAACT
906936 TGAAAATCGCAACGAGAGAAT-ATCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATCAT-AACGCGAAA
*
906969 TGAAAATCGCAACGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATCATAACGCGAAA
907002 TGAAA
1 TGAAA
907007 TCTAAGTGAA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
33 35 0.97
34 1 0.03
ACGTcount: A:0.48, C:0.17, G:0.23, T:0.13
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATCATAACGCGAAA
Found at i:907415 original size:20 final size:20
Alignment explanation
Indices: 907390--907578 Score: 238
Period size: 20 Copynumber: 9.4 Consensus size: 20
907380 AAAAATCGCA
907390 TTGCGATTTACGGATACGCG
1 TTGCGATTTACGGATACGCG
* *
907410 TTGCGATTTTACGTAT-TGTCG
1 TTGCGA-TTTACGGATACG-CG
907431 TTGCGATTTACGGATACGCG
1 TTGCGATTTACGGATACGCG
* *
907451 TTGCGATATACGGATACGCA
1 TTGCGATTTACGGATACGCG
907471 TTGCGATTTACGGATACGCG
1 TTGCGATTTACGGATACGCG
*
907491 TTGCGATTTACGGATACACG
1 TTGCGATTTACGGATACGCG
907511 TTGCGATTTACGGATACGCG
1 TTGCGATTTACGGATACGCG
* *
907531 TTGCGATTTATGTG-TTCGCG
1 TTGCGATTTACG-GATACGCG
* ** *
907551 TTGCGATTTTCATATTCGCG
1 TTGCGATTTACGGATACGCG
907571 TTGCGATT
1 TTGCGATT
907579 CTGGAAAATC
Statistics
Matches: 148, Mismatches: 16, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
20 130 0.88
21 18 0.12
ACGTcount: A:0.19, C:0.19, G:0.27, T:0.35
Consensus pattern (20 bp):
TTGCGATTTACGGATACGCG
Found at i:907797 original size:3 final size:3
Alignment explanation
Indices: 907789--907844 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
907779 TTTCTCTTAC
907789 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
907837 TAT TAT TA
1 TAT TAT TA
907845 AGATAATAAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:909067 original size:39 final size:39
Alignment explanation
Indices: 908967--909190 Score: 290
Period size: 39 Copynumber: 5.7 Consensus size: 39
908957 AGATGAACAA
* * *
908967 GGTGAAGTGGATGATAC-AGAAACACCAAAAACTGATCA-G
1 GGTGAAGCGGATGATGCGAG-AACACCAAAATCTGAT-AGG
** *** *
909006 GGTGAAGCAAATGGCACCAGAACACCAAAATCTGATAGG
1 GGTGAAGCGGATGATGCGAGAACACCAAAATCTGATAGG
909045 GGTGAAGCGGATGATGCGAGAACACCAAAATCTGATAGG
1 GGTGAAGCGGATGATGCGAGAACACCAAAATCTGATAGG
* * *
909084 AGTCAAGCGGATGATGCGAGAACACCAAAATCTGATGGG
1 GGTGAAGCGGATGATGCGAGAACACCAAAATCTGATAGG
*
909123 GGTGAAGCGGATGATGCGAGAACACCAAAATCTGATGGG
1 GGTGAAGCGGATGATGCGAGAACACCAAAATCTGATAGG
*
909162 GGTGAAGCGGATGATGCTAGAACACCAAA
1 GGTGAAGCGGATGATGCGAGAACACCAAA
909191 CGCTGGTCAA
Statistics
Matches: 165, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
38 1 0.01
39 162 0.98
40 2 0.01
ACGTcount: A:0.38, C:0.17, G:0.30, T:0.15
Consensus pattern (39 bp):
GGTGAAGCGGATGATGCGAGAACACCAAAATCTGATAGG
Found at i:909215 original size:78 final size:78
Alignment explanation
Indices: 908964--909287 Score: 244
Period size: 78 Copynumber: 4.2 Consensus size: 78
908954 GAAAGATGAA
* * * * ** ***
908964 CAAGGTGAAGTGGATGATAC-AGAAACACCAAAAACTGATCA-GGGTGAAGCAAATGGCACCAGA
1 CAAGGTGAAGCGAATGATGCGAG-AACACCAAAATCTGAT-AGGGGTGAAGCGGATGATGCCAGA
**
909027 ACACCAAAATCTGAT
64 ACACCAAACGCTGAT
* * * * *
909042 -AGGGGTGAAGCGGATGATGCGAGAACACCAAAATCTGATAGGAGTCAAGCGGATGATGCGAGAA
1 CA-AGGTGAAGCGAATGATGCGAGAACACCAAAATCTGATAGGGGTGAAGCGGATGATGCCAGAA
**
909106 CACCAAAATCTGAT
65 CACCAAACGCTGAT
*** * * *
909120 GGGGGTGAAGCGGATGATGCGAGAACACCAAAATCTGATGGGGGTGAAGCGGATGATGCTAGAAC
1 CAAGGTGAAGCGAATGATGCGAGAACACCAAAATCTGATAGGGGTGAAGCGGATGATGCCAGAAC
*
909185 ACCAAACGCTGGT
66 ACCAAACGCTGAT
* ** * * * * * * *
909198 CAAGATGAATTGAATGATGCCATAGCACC-AAATGCTGATCA-AGGTGGAGCGTATGATGCCATA
1 CAAGGTGAAGCGAATGATGCGAGAACACCAAAAT-CTGAT-AGGGGTGAAGCGGATGATGCCAGA
*
909261 GCACCAAACGCTGAT
64 ACACCAAACGCTGAT
909276 CAAGGTGAAGCG
1 CAAGGTGAAGCG
909288 GATGGTGCCA
Statistics
Matches: 199, Mismatches: 41, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
77 6 0.03
78 191 0.96
79 2 0.01
ACGTcount: A:0.36, C:0.18, G:0.29, T:0.16
Consensus pattern (78 bp):
CAAGGTGAAGCGAATGATGCGAGAACACCAAAATCTGATAGGGGTGAAGCGGATGATGCCAGAAC
ACCAAACGCTGAT
Found at i:909254 original size:117 final size:117
Alignment explanation
Indices: 908987--909313 Score: 275
Period size: 117 Copynumber: 2.8 Consensus size: 117
908977 ATGATACAGA
* * ** *** *
908987 AACACCAAAAACTGATCAGGGTGAAGCAAATGGCACCAGAACACCAAAATCTGATAGGGGTGAAG
1 AACACCAAAATCTGATCAAGGTGAAGCGGATGATGCGAGAACACCAAAATCTGATAGGGGTGAAG
* * * *
909052 CGGATGATGCGAGAACACCAAAATCTGATAGGAGTCAAGCGGATGATGCGAG
66 CGGATGATGCGAGAACACCAAAAGCTGATAAGAGTCAAGCGAATGATGCCAG
*** *
909104 AACACCAAAATCTGATGGGGGTGAAGCGGATGATGCGAGAACACCAAAATCTGATGGGGGTGAAG
1 AACACCAAAATCTGATCAAGGTGAAGCGGATGATGCGAGAACACCAAAATCTGATAGGGGTGAAG
* * * * ** *
909169 CGGATGATGCTAGAACACCAAACGCTGGTCAAGA-TGAATTGAATGATGCCAT
66 CGGATGATGCGAGAACACCAAAAGCTGAT-AAGAGTCAAGCGAATGATGCCAG
* * * * * * ** *
909221 AGCACC-AAATGCTGATCAAGGTGGAGCGTATGATGCCATAGCACCAAACGCTGATCA-AGGTGA
1 AACACCAAAAT-CTGATCAAGGTGAAGCGGATGATGCGAGAACACCAAAATCTGAT-AGGGGTGA
* * *
909284 AGCGGATGGTGCCA-ATCTACCAAAAGCTGA
64 AGCGGATGATGCGAGAAC-ACCAAAAGCTGA
909314 AGAGAGTGGA
Statistics
Matches: 167, Mismatches: 39, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
116 6 0.04
117 158 0.95
118 3 0.02
ACGTcount: A:0.36, C:0.19, G:0.28, T:0.16
Consensus pattern (117 bp):
AACACCAAAATCTGATCAAGGTGAAGCGGATGATGCGAGAACACCAAAATCTGATAGGGGTGAAG
CGGATGATGCGAGAACACCAAAAGCTGATAAGAGTCAAGCGAATGATGCCAG
Found at i:909313 original size:39 final size:39
Alignment explanation
Indices: 909028--909313 Score: 191
Period size: 39 Copynumber: 7.3 Consensus size: 39
909018 GGCACCAGAA
* * * * *
909028 CACCAAAATCTGAT-AGGGGTGAAGCGGATGATGCGAGAA
1 CACCAAAAGCTGATCA-AGGTGAAGCGGATGATGCCATAG
* * * * * *
909067 CACCAAAATCTGAT-AGGAGTCAAGCGGATGATGCGAGAA
1 CACCAAAAGCTGATCAAG-GTGAAGCGGATGATGCCATAG
* *** * * *
909106 CACCAAAATCTGATGGGGGTGAAGCGGATGATGCGAGAA
1 CACCAAAAGCTGATCAAGGTGAAGCGGATGATGCCATAG
* *** * * *
909145 CACCAAAATCTGATGGGGGTGAAGCGGATGATGCTAGAA
1 CACCAAAAGCTGATCAAGGTGAAGCGGATGATGCCATAG
* * * ** *
909184 CACCAAACGCTGGTCAAGATGAATTGAATGATGCCATAG
1 CACCAAAAGCTGATCAAGGTGAAGCGGATGATGCCATAG
* * *
909223 CACCAAATGCTGATCAAGGTGGAGCGTATGATGCCATAG
1 CACCAAAAGCTGATCAAGGTGAAGCGGATGATGCCATAG
* * *
909262 CACCAAACGCTGATCAAGGTGAAGCGGATGGTGCCA-AT
1 CACCAAAAGCTGATCAAGGTGAAGCGGATGATGCCATAG
909300 CTACCAAAAGCTGA
1 C-ACCAAAAGCTGA
909314 AGAGAGTGGA
Statistics
Matches: 214, Mismatches: 30, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
38 4 0.02
39 208 0.97
40 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.29, T:0.17
Consensus pattern (39 bp):
CACCAAAAGCTGATCAAGGTGAAGCGGATGATGCCATAG
Found at i:909467 original size:39 final size:38
Alignment explanation
Indices: 909409--909599 Score: 193
Period size: 39 Copynumber: 4.9 Consensus size: 38
909399 GATACCGATG
* *
909409 ATATTTCTAGTGCAATTTCGGAACAACAAAACGGAAGTA
1 ATATTTCTAGTGCAGTTTCGGAACAACAAAA-TGAAGTA
* *
909448 ATATTTCTAGTGCAGTTTCGGAACAACGAAATGAAGGA
1 ATATTTCTAGTGCAGTTTCGGAACAACAAAATGAAGTA
* * *
909486 GATATTTCTAGTGCAGTTTCGAAACAACAAAATGAACCTG
1 -ATATTTCTAGTGCAGTTTCGGAACAACAAAATGAA-GTA
* * * * *
909526 ATATTTCCAGTGCAGTGTCGGAACAACAAAAAGAACTCG
1 ATATTTCTAGTGCAGTTTCGGAACAACAAAATGAAGT-A
** * * *
909565 ATGGTTCTAGTGCAGCTTCGGAACGACGAAATGAA
1 ATATTTCTAGTGCAGTTTCGGAACAACAAAATGAA
909600 CATGAGCCTA
Statistics
Matches: 128, Mismatches: 21, Indels: 6
0.83 0.14 0.04
Matches are distributed among these distances:
38 7 0.05
39 121 0.95
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (38 bp):
ATATTTCTAGTGCAGTTTCGGAACAACAAAATGAAGTA
Found at i:909995 original size:12 final size:12
Alignment explanation
Indices: 909980--910067 Score: 68
Period size: 12 Copynumber: 7.3 Consensus size: 12
909970 AGGCAGAAAC
909980 AAAGACAGAGGT
1 AAAGACAGAGGT
* * * *
909992 AAAGGCGGAAGC
1 AAAGACAGAGGT
910004 AAAGACAGAGGT
1 AAAGACAGAGGT
* * * *
910016 AAAGGCGGAAGC
1 AAAGACAGAGGT
*
910028 AAAGACAGTGGT
1 AAAGACAGAGGT
* **
910040 AAAGGCAGAGCC
1 AAAGACAGAGGT
910052 AAAGACAGAGGT
1 AAAGACAGAGGT
910064 AAAG
1 AAAG
910068 GAAAAGGCAG
Statistics
Matches: 52, Mismatches: 24, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
12 52 1.00
ACGTcount: A:0.47, C:0.12, G:0.35, T:0.06
Consensus pattern (12 bp):
AAAGACAGAGGT
Found at i:909997 original size:24 final size:24
Alignment explanation
Indices: 909970--910068 Score: 146
Period size: 24 Copynumber: 4.1 Consensus size: 24
909960 GCAGAGCCTG
*
909970 AGGCAGAAACAAAGACAGAGGTAA
1 AGGCAGAAGCAAAGACAGAGGTAA
*
909994 AGGCGGAAGCAAAGACAGAGGTAA
1 AGGCAGAAGCAAAGACAGAGGTAA
* *
910018 AGGCGGAAGCAAAGACAGTGGTAA
1 AGGCAGAAGCAAAGACAGAGGTAA
910042 AGGCAG-AGCCAAAGACAGAGGTAA
1 AGGCAGAAG-CAAAGACAGAGGTAA
910066 AGG
1 AGG
910069 AAAAGGCAGA
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
23 2 0.03
24 67 0.97
ACGTcount: A:0.46, C:0.13, G:0.35, T:0.05
Consensus pattern (24 bp):
AGGCAGAAGCAAAGACAGAGGTAA
Found at i:910013 original size:48 final size:48
Alignment explanation
Indices: 909970--910247 Score: 132
Period size: 48 Copynumber: 5.5 Consensus size: 48
909960 GCAGAGCCTG
* *
909970 AGGCAGAAACAAAGACAGAGGTAAAGGCGGAAGCAAAGACAGAGGTAA
1 AGGCAGAAACAAAGACAGAGGTAAAGGCAGAAGCAAAGACAGAGCTAA
* * * *
910018 AGGCGGAAGCAAAGACAGTGGTAAAGGCAG-AGCCAAAGACAGAGGTAAAGGAAA
1 AGGCAGAAACAAAGACAGAGGTAAAGGCAGAAG-CAAAGACAGAGCT------AA
* * * * * *
910072 AGGCAGACACAGAGGCAGAGACGGTGATAATGG-AAAAACAAAAGACAGAGGTAA
1 AGGCAGAAACA-AAG-ACAGA-GGT-A-AA-GGCAGAAGC-AAAGACAGAGCTAA
* * * * * * * *
910126 AGGCAGAAGCCAAGGCAGTGGTAAAGGAAG-TGCCAAAAACAGAGTTAA
1 AGGCAGAAACAAAGACAGAGGTAAAGGCAGAAG-CAAAGACAGAGCTAA
* * * * * *
910174 AGGCGGAAGCCAAGACAGTGGTAAAGGCAG-AGCCAAAAACAGAGGTAA
1 AGGCAGAAACAAAGACAGAGGTAAAGGCAGAAG-CAAAGACAGAGCTAA
* *
910222 AGGCAGAACCAAAGACAGAGGCAAAG
1 AGGCAGAAACAAAGACAGAGGTAAAG
910248 ACAGTGGTAA
Statistics
Matches: 179, Mismatches: 34, Indels: 34
0.72 0.14 0.14
Matches are distributed among these distances:
47 2 0.01
48 117 0.65
49 4 0.02
50 1 0.01
51 3 0.02
52 2 0.01
53 2 0.01
54 20 0.11
55 2 0.01
56 3 0.02
57 3 0.02
58 1 0.01
59 4 0.02
60 15 0.08
ACGTcount: A:0.47, C:0.14, G:0.33, T:0.06
Consensus pattern (48 bp):
AGGCAGAAACAAAGACAGAGGTAAAGGCAGAAGCAAAGACAGAGCTAA
Found at i:910191 original size:24 final size:25
Alignment explanation
Indices: 910112--910247 Score: 147
Period size: 24 Copynumber: 5.6 Consensus size: 25
910102 TGGAAAAACA
910112 AAAGACAGAGGTAAAGGCAGAAGCC
1 AAAGACAGAGGTAAAGGCAGAAGCC
* * * *
910137 -AAGGCAGTGGTAAAGGAAG-TGCC
1 AAAGACAGAGGTAAAGGCAGAAGCC
* * *
910160 AAAAACAGAGTTAAAGGCGGAAGCC
1 AAAGACAGAGGTAAAGGCAGAAGCC
*
910185 -AAGACAGTGGTAAAGGCAG-AGCC
1 AAAGACAGAGGTAAAGGCAGAAGCC
*
910208 AAAAACAGAGGTAAAGGCAGAA-CC
1 AAAGACAGAGGTAAAGGCAGAAGCC
*
910232 AAAGACAGAGGCAAAG
1 AAAGACAGAGGTAAAG
910248 ACAGTGGTAA
Statistics
Matches: 88, Mismatches: 19, Indels: 9
0.76 0.16 0.08
Matches are distributed among these distances:
23 7 0.08
24 77 0.88
25 4 0.05
ACGTcount: A:0.46, C:0.15, G:0.32, T:0.07
Consensus pattern (25 bp):
AAAGACAGAGGTAAAGGCAGAAGCC
Found at i:910228 original size:12 final size:12
Alignment explanation
Indices: 910185--910287 Score: 62
Period size: 12 Copynumber: 8.6 Consensus size: 12
910175 GGCGGAAGCC
* *
910185 AAGACAGTGGTA
1 AAGACAGAGGCA
* *
910197 AAGGCAGAGCCA
1 AAGACAGAGGCA
* *
910209 AAAACAGAGGTA
1 AAGACAGAGGCA
* **
910221 AAGGCAGAACCA
1 AAGACAGAGGCA
910233 AAGACAGAGGCA
1 AAGACAGAGGCA
* *
910245 AAGACAGTGGTA
1 AAGACAGAGGCA
*
910257 AAGGCAGAGGCA
1 AAGACAGAGGCA
* * * *
910269 GACACAGTGGGA
1 AAGACAGAGGCA
910281 AAGACAG
1 AAGACAG
910288 TAGTAAAGGT
Statistics
Matches: 63, Mismatches: 28, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
12 63 1.00
ACGTcount: A:0.46, C:0.16, G:0.33, T:0.06
Consensus pattern (12 bp):
AAGACAGAGGCA
Found at i:910257 original size:36 final size:36
Alignment explanation
Indices: 910196--910296 Score: 103
Period size: 36 Copynumber: 2.8 Consensus size: 36
910186 AGACAGTGGT
* * * *
910196 AAAGGCAGAGCCAAAAACAGAGGTAAAGGCAGAACC
1 AAAGACAGAGGCAAAGACAGTGGTAAAGGCAGAACC
**
910232 AAAGACAGAGGCAAAGACAGTGGTAAAGGCAGAGGC
1 AAAGACAGAGGCAAAGACAGTGGTAAAGGCAGAACC
* * * * *
910268 AGACACAGTGGGAAAGACAGTAGTAAAGG
1 AAAGACAGAGGCAAAGACAGTGGTAAAGG
910297 TTAAGCCAAA
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 54 1.00
ACGTcount: A:0.47, C:0.15, G:0.33, T:0.06
Consensus pattern (36 bp):
AAAGACAGAGGCAAAGACAGTGGTAAAGGCAGAACC
Found at i:910259 original size:24 final size:24
Alignment explanation
Indices: 910232--910287 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
910222 AGGCAGAACC
* *
910232 AAAGACAGAGGCAAAGACAGTGGT
1 AAAGACAGAGGCAAACACAGTGGG
* *
910256 AAAGGCAGAGGCAGACACAGTGGG
1 AAAGACAGAGGCAAACACAGTGGG
910280 AAAGACAG
1 AAAGACAG
910288 TAGTAAAGGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.45, C:0.14, G:0.36, T:0.05
Consensus pattern (24 bp):
AAAGACAGAGGCAAACACAGTGGG
Found at i:911378 original size:15 final size:15
Alignment explanation
Indices: 911358--911388 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
911348 AACAATTTTC
911358 ACGGTAGTCATCTAT
1 ACGGTAGTCATCTAT
911373 ACGGTAGTCATCTAT
1 ACGGTAGTCATCTAT
911388 A
1 A
911389 ATAGGAACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.32
Consensus pattern (15 bp):
ACGGTAGTCATCTAT
Found at i:914615 original size:21 final size:20
Alignment explanation
Indices: 914535--914616 Score: 67
Period size: 21 Copynumber: 4.0 Consensus size: 20
914525 CGCAAATCAG
914535 TTTCCAGATTCGCAATGCGAT
1 TTTCCA-ATTCGCAATGCGAT
* * * *
914556 TAT-GACTATCGCAATGCAAT
1 TTTCCAAT-TCGCAATGCGAT
**
914576 TTTCCAATTTCGCGTTGCGAT
1 TTTCCAA-TTCGCAATGCGAT
914597 TTTCCCAATTCGCAATGCGA
1 TTT-CCAATTCGCAATGCGA
914617 ATAAGTAAAT
Statistics
Matches: 45, Mismatches: 12, Indels: 8
0.69 0.18 0.12
Matches are distributed among these distances:
19 1 0.02
20 14 0.31
21 25 0.56
22 5 0.11
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.34
Consensus pattern (20 bp):
TTTCCAATTCGCAATGCGAT
Found at i:914671 original size:20 final size:20
Alignment explanation
Indices: 914646--914760 Score: 97
Period size: 20 Copynumber: 5.7 Consensus size: 20
914636 AATTTGGAAA
*
914646 ATCGCAACGCGGTACTGACT
1 ATCGCAACGCGATACTGACT
* *
914666 ATCGCAACGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
914687 ATCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * *
914707 TTCGCAACTCGATACTTAAT
1 ATCGCAACGCGATACTGACT
* * *
914727 TTCGCAACTCAATACTGACT
1 ATCGCAACGCGATACTGACT
* *
914747 TTCGCAACGAGATA
1 ATCGCAACGCGATA
914761 ATACATAATC
Statistics
Matches: 77, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
19 2 0.03
20 58 0.75
21 15 0.19
22 2 0.03
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:914688 original size:41 final size:41
Alignment explanation
Indices: 914643--914780 Score: 161
Period size: 41 Copynumber: 3.4 Consensus size: 41
914633 ACAAATTTGG
* *
914643 AAAATCGCAACGCGGTACTGACTATCGCAACGCGATAATAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
* * *
914684 AAAATCGCAACGCGATACTGACTTTCGCAACTCGATACT-T
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
** * * *
914724 AATTTCGCAACTCAATACTGACTTTCGCAACGAGATAATAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
* *
914765 ATAATCGCAATGCGAT
1 AAAATCGCAACGCGAT
914781 TTTCAAAGCG
Statistics
Matches: 77, Mismatches: 19, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
40 32 0.42
41 45 0.58
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.23
Consensus pattern (41 bp):
AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
Found at i:915302 original size:20 final size:20
Alignment explanation
Indices: 915253--915311 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
915243 TTTATTCTCT
* **
915253 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATTGTCATTTTCG
915273 CGTTGCGATTGTCATTTTCG
1 CGTTGCGATTGTCATTTTCG
* *
915293 TGTTGCGATTTTCATTTTC
1 CGTTGCGATTGTCATTTTC
915312 AGAAACTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.15, C:0.19, G:0.22, T:0.44
Consensus pattern (20 bp):
CGTTGCGATTGTCATTTTCG
Found at i:915502 original size:25 final size:24
Alignment explanation
Indices: 915448--915502 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
915438 TGTTTATTAT
* *
915448 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
915472 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
915498 TGTTT
1 TGTTT
915503 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:916652 original size:18 final size:18
Alignment explanation
Indices: 916631--916678 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
916621 TCCACTTCGG
916631 GAGCCATCACCTCACCCA
1 GAGCCATCACCTCACCCA
*
916649 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
916667 GAGCCATCACCT
1 GAGCCATCACCT
916679 GATCGACCCG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.27, C:0.46, G:0.12, T:0.15
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:917238 original size:20 final size:19
Alignment explanation
Indices: 917213--917278 Score: 69
Period size: 20 Copynumber: 3.4 Consensus size: 19
917203 TAGTTTACTT
917213 TCGCAACACGAAAATGACTA
1 TCGCAACACG-AAATGACTA
* *
917233 TCGCAACGCTGAAATGGCTA
1 TCGCAACAC-GAAATGACTA
* **
917253 TCGCAATACGAAATGAAAA
1 TCGCAACACGAAATGACTA
917272 TCGCAAC
1 TCGCAAC
917279 GACAAAATCG
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
19 13 0.35
20 23 0.62
21 1 0.03
ACGTcount: A:0.41, C:0.24, G:0.18, T:0.17
Consensus pattern (19 bp):
TCGCAACACGAAATGACTA
Found at i:917287 original size:14 final size:14
Alignment explanation
Indices: 917268--917326 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
917258 ATACGAAATG
917268 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
917282 AAAATCGCAATGCGAAATG
1 AAAATCGCAA--CG--A-C
917301 AAAATCGCAACGAC
1 AAAATCGCAACGAC
917315 AAAATCGCAACG
1 AAAATCGCAACG
917327 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 22 0.58
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 10 0.26
ACGTcount: A:0.49, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:917298 original size:33 final size:33
Alignment explanation
Indices: 917252--917343 Score: 166
Period size: 33 Copynumber: 2.8 Consensus size: 33
917242 TGAAATGGCT
*
917252 ATCGCAATACGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
917285 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
917318 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
917344 TGCGATTTGT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.49, C:0.22, G:0.17, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:917348 original size:19 final size:19
Alignment explanation
Indices: 917252--917348 Score: 88
Period size: 19 Copynumber: 5.6 Consensus size: 19
917242 TGAAATGGCT
*
917252 ATCGCAATACGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
917271 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
917285 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
917304 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
*
917318 ATCGCAACGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
917337 ATCGCAATGCGA
1 ATCGCAATGCGA
917349 TTTGTGTTTC
Statistics
Matches: 63, Mismatches: 5, Indels: 20
0.72 0.06 0.23
Matches are distributed among these distances:
14 20 0.32
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 31 0.49
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.12
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:917392 original size:33 final size:33
Alignment explanation
Indices: 917355--917434 Score: 106
Period size: 33 Copynumber: 2.4 Consensus size: 33
917345 GCGATTTGTG
*
917355 TTTCGCGTTACGATTTTGTCGTTACGATTTTCA
1 TTTCGCATTACGATTTTGTCGTTACGATTTTCA
* * *
917388 TTTCGCATTGCGATTTTGTTGTTGCGATTTTCA
1 TTTCGCATTACGATTTTGTCGTTACGATTTTCA
* *
917421 TTTCACATTGCGAT
1 TTTCGCATTACGAT
917435 AGCCATTTCC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.15, C:0.17, G:0.19, T:0.49
Consensus pattern (33 bp):
TTTCGCATTACGATTTTGTCGTTACGATTTTCA
Found at i:917451 original size:39 final size:40
Alignment explanation
Indices: 917408--917493 Score: 111
Period size: 40 Copynumber: 2.2 Consensus size: 40
917398 CGATTTTGTT
**
917408 GTTGCGATTTTCATTT-CACATTGCGATAGCCATTTCCGC
1 GTTGCGATAGTCATTTCCACATTGCGATAGCCATTTCCGC
* * * *
917447 GTTGCGATAGTCATTTCCGCGTTGCGATAGTCATTTTCGC
1 GTTGCGATAGTCATTTCCACATTGCGATAGCCATTTCCGC
917487 GTTGCGA
1 GTTGCGA
917494 AAGTAAGTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 14 0.35
40 26 0.65
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.37
Consensus pattern (40 bp):
GTTGCGATAGTCATTTCCACATTGCGATAGCCATTTCCGC
Found at i:917453 original size:20 final size:20
Alignment explanation
Indices: 917428--917493 Score: 114
Period size: 20 Copynumber: 3.3 Consensus size: 20
917418 TCATTTCACA
*
917428 TTGCGATAGCCATTTCCGCG
1 TTGCGATAGTCATTTCCGCG
917448 TTGCGATAGTCATTTCCGCG
1 TTGCGATAGTCATTTCCGCG
*
917468 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTCCGCG
917488 TTGCGA
1 TTGCGA
917494 AAGTAAGTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.15, C:0.24, G:0.26, T:0.35
Consensus pattern (20 bp):
TTGCGATAGTCATTTCCGCG
Found at i:917504 original size:20 final size:19
Alignment explanation
Indices: 917439--917519 Score: 81
Period size: 20 Copynumber: 4.1 Consensus size: 19
917429 TGCGATAGCC
* *
917439 ATTTCCGCGTTGCGATAGTC
1 ATTT-CGCGTTGCGAAAGTA
*
917459 ATTTCCGCGTTGCGATAGTCA
1 ATTT-CGCGTTGCGAAAGT-A
*
917480 TTTTCGCGTTGCGAAAGTA
1 ATTTCGCGTTGCGAAAGTA
*
917499 AGTTTCGTGTTGCGAAAGTA
1 A-TTTCGCGTTGCGAAAGTA
917519 A
1 A
917520 ACTATTCTTC
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
19 1 0.02
20 50 0.93
21 3 0.06
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.35
Consensus pattern (19 bp):
ATTTCGCGTTGCGAAAGTA
Found at i:917511 original size:40 final size:40
Alignment explanation
Indices: 917428--917513 Score: 111
Period size: 40 Copynumber: 2.1 Consensus size: 40
917418 TCATTTCACA
* *
917428 TTGCGATAGCCATTTCCGCGTTGCGATAGTCATTTCCGCG
1 TTGCGATAGCCATTTCCGCGTTGCGAAAGTAATTTCCGCG
* * *
917468 TTGCGATAGTCATTTTCGCGTTGCGAAAGTAAGTTT-CGTG
1 TTGCGATAGCCATTTCCGCGTTGCGAAAGTAA-TTTCCGCG
917508 TTGCGA
1 TTGCGA
917514 AAGTAAACTA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 37 0.93
41 3 0.08
ACGTcount: A:0.17, C:0.21, G:0.27, T:0.35
Consensus pattern (40 bp):
TTGCGATAGCCATTTCCGCGTTGCGAAAGTAATTTCCGCG
Found at i:917948 original size:41 final size:41
Alignment explanation
Indices: 917859--917978 Score: 114
Period size: 42 Copynumber: 2.9 Consensus size: 41
917849 CTGACTCACA
* * ** *
917859 TGTCATTCCTCAAGAGTCCCCTCCAATAGTTCAAGAGGCCCC
1 TGTCATCCCTCAAGAGTCCCCCCCACCA-TTCAAGAGGCCAC
* *
917901 TATCATCCCTCAAGAGTCCCCCCCACCATTCAAGAGGCTAC
1 TGTCATCCCTCAAGAGTCCCCCCCACCATTCAAGAGGCCAC
** * * *
917942 TGTCATCGTTGAAGAGGTCCCTCCCACCATTCCAGAG
1 TGTCATCCCTCAAGA-GTCCCCCCCACCATTCAAGAG
917979 CCCGATTCAC
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
41 22 0.34
42 42 0.66
ACGTcount: A:0.24, C:0.37, G:0.17, T:0.23
Consensus pattern (41 bp):
TGTCATCCCTCAAGAGTCCCCCCCACCATTCAAGAGGCCAC
Found at i:919393 original size:14 final size:14
Alignment explanation
Indices: 919359--919397 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
919349 TTGATTGTTT
919359 AATTGATTTGTAAA
1 AATTGATTTGTAAA
*
919373 AAATGATTTGTAAA
1 AATTGATTTGTAAA
**
919387 TGTTGATTTGT
1 AATTGATTTGT
919398 TTAATTGGTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:919568 original size:20 final size:20
Alignment explanation
Indices: 919545--919611 Score: 64
Period size: 20 Copynumber: 3.3 Consensus size: 20
919535 AAAATCGCAA
919545 TGCGATAGCCATTTTCGCGT
1 TGCGATAGCCATTTTCGCGT
*** **
919565 TGCGATTTTTTCA-TTTCGAAT
1 TGCGA--TAGCCATTTTCGCGT
919586 TGCGATAGCCATTTTCGCGT
1 TGCGATAGCCATTTTCGCGT
919606 TGCGAT
1 TGCGAT
919612 TTCCCCGTTG
Statistics
Matches: 34, Mismatches: 10, Indels: 6
0.68 0.20 0.12
Matches are distributed among these distances:
19 3 0.09
20 17 0.50
21 11 0.32
22 3 0.09
ACGTcount: A:0.16, C:0.21, G:0.22, T:0.40
Consensus pattern (20 bp):
TGCGATAGCCATTTTCGCGT
Found at i:920724 original size:24 final size:24
Alignment explanation
Indices: 920697--920750 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
920687 GTATTCGAAA
*
920697 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* *
920721 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
920745 TTTGAT
1 TTTGAT
920751 GATGTTTCAG
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:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:920942 original size:12 final size:12
Alignment explanation
Indices: 920925--920949 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
920915 ATATAATCCT
920925 GAAGAAGAAAAA
1 GAAGAAGAAAAA
920937 GAAGAAGAAAAA
1 GAAGAAGAAAAA
920949 G
1 G
920950 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:923191 original size:14 final size:14
Alignment explanation
Indices: 923150--923184 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
923140 TGCGAAATGA
923150 AAATT-GCAATGCG
1 AAATTCGCAATGCG
*
923163 AATTTCGCAATGCG
1 AAATTCGCAATGCG
923177 AAATTCGC
1 AAATTCGC
923185 GTTGCGATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 4 0.21
14 15 0.79
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (14 bp):
AAATTCGCAATGCG
Found at i:923201 original size:33 final size:33
Alignment explanation
Indices: 923164--923237 Score: 105
Period size: 33 Copynumber: 2.2 Consensus size: 33
923154 TGCAATGCGA
923164 ATTTCGCAATGCGAAAT-TCGCGTTGCGATTTTC
1 ATTTCGCAATGCG-AATCTCGCGTTGCGATTTTC
* * *
923197 ATTTCGCAGTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCAATGCGAATCTCGCGTTGCGATTTTC
923230 ATTTCGCA
1 ATTTCGCA
923238 TTCCGATAGT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
32 2 0.05
33 35 0.95
ACGTcount: A:0.18, C:0.23, G:0.20, T:0.39
Consensus pattern (33 bp):
ATTTCGCAATGCGAATCTCGCGTTGCGATTTTC
Found at i:923370 original size:14 final size:15
Alignment explanation
Indices: 923351--923387 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
923341 CATCAATTAA
923351 ACAAATCAAC-TTTT
1 ACAAATCAACATTTT
923365 ACAAATC-ACATTTT
1 ACAAATCAACATTTT
923379 ACAAATCAA
1 ACAAATCAA
923388 TTAAACAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 2 0.10
14 18 0.86
15 1 0.05
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (15 bp):
ACAAATCAACATTTT
Found at i:924805 original size:21 final size:21
Alignment explanation
Indices: 924739--924805 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
924729 GTGAATCGGG
*
924739 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
924759 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
924781 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
924802 CTCT
1 CTCT
924806 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:925264 original size:91 final size:94
Alignment explanation
Indices: 925079--925264 Score: 308
Period size: 91 Copynumber: 2.0 Consensus size: 94
925069 ATTTCAAACT
925079 TTCAACCAAAAGACAAAAAAAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAG
1 TTCAACCAAAAGACAAAAAAAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAG
925144 CAGAATTGGCAGCAACCGAATAAATTTAC
66 CAGAATTGGCAGCAACCGAATAAATTTAC
*
925173 TTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTT-AATAA-ACA-A-TTTA
1 TTCAACCAAAAGACAAAA-AAAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTA
* *
925234 GTAGTATTGGCAGCAACCGAATAAATTTAC
65 GCAGAATTGGCAGCAACCGAATAAATTTAC
925264 T
1 T
925265 AAGCAATCTA
Statistics
Matches: 88, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
91 33 0.38
92 1 0.01
93 3 0.03
94 22 0.25
95 29 0.33
ACGTcount: A:0.48, C:0.18, G:0.12, T:0.22
Consensus pattern (94 bp):
TTCAACCAAAAGACAAAAAAAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAG
CAGAATTGGCAGCAACCGAATAAATTTAC
Found at i:926914 original size:14 final size:14
Alignment explanation
Indices: 926895--926950 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
926885 GGAAATGACT
*
926895 ATCGCAACGAGAGA
1 ATCGCAACGAAAGA
926909 ATCGCAACGCGAAATGA
1 ATCGCAA--CGAAA-GA
926926 CTATCGCAACGAAAGA
1 --ATCGCAACGAAAGA
926942 ATCGCAACG
1 ATCGCAACG
926951 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.44
16 6 0.17
17 7 0.19
19 7 0.19
ACGTcount: A:0.41, C:0.25, G:0.23, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAAAGA
Found at i:926928 original size:33 final size:33
Alignment explanation
Indices: 926871--926969 Score: 162
Period size: 33 Copynumber: 3.0 Consensus size: 33
926861 ACGAGATAAT
926871 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACGA
926905 GAGAATCGCAACGCGAAATGACTATCGCAACGA
1 GAGAATCGCAACGCGAAATGACTATCGCAACGA
* **
926938 AAGAATCGCAACGCGAAATGAAAATCGCAACG
1 GAGAATCGCAACGCGAAATGACTATCGCAACG
926970 CGAAATGAAA
Statistics
Matches: 62, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
33 48 0.77
34 14 0.23
ACGTcount: A:0.41, C:0.23, G:0.24, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACGA
Found at i:926933 original size:19 final size:18
Alignment explanation
Indices: 926846--926991 Score: 119
Period size: 19 Copynumber: 8.1 Consensus size: 18
926836 TCTTTTGGTT
*
926846 GAAATGAAAATCGCAACGA
1 GAAATG-AAATCGCAACGC
926865 GATAATGAGAATCGCAACGC
1 GA-AATGA-AATCGCAACGC
*
926885 GGAAATGACTATCGCAA--C
1 -GAAATGA-AATCGCAACGC
*
926903 GAGA-G-AATCGCAACGC
1 GAAATGAAATCGCAACGC
*
926919 GAAATGACTATCGCAA--C
1 GAAATGA-AATCGCAACGC
926936 GAAA-G-AATCGCAACGC
1 GAAATGAAATCGCAACGC
926952 GAAATGAAAATCGCAACGC
1 GAAATG-AAATCGCAACGC
*
926971 GAAATGAAAATCGCAATGC
1 GAAATG-AAATCGCAACGC
926990 GA
1 GA
926992 TTTTGGTTTC
Statistics
Matches: 105, Mismatches: 9, Indels: 26
0.75 0.06 0.19
Matches are distributed among these distances:
14 14 0.13
16 11 0.10
17 10 0.10
18 1 0.01
19 41 0.39
20 26 0.25
21 2 0.02
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (18 bp):
GAAATGAAATCGCAACGC
Found at i:927009 original size:19 final size:19
Alignment explanation
Indices: 926987--927034 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
926977 AAAATCGCAA
*
926987 TGCGATTTTGGTTT-CGCGT
1 TGCGATTTT-ATTTCCGCGT
*
927006 TGCGATAGTTATTTCCGCGT
1 TGCGAT-TTTATTTCCGCGT
927026 TGCGATTTT
1 TGCGATTTT
927035 CATTCTCGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.10, C:0.17, G:0.27, T:0.46
Consensus pattern (19 bp):
TGCGATTTTATTTCCGCGT
Found at i:927581 original size:20 final size:20
Alignment explanation
Indices: 927539--927605 Score: 68
Period size: 20 Copynumber: 3.4 Consensus size: 20
927529 GTTAATACGA
*
927539 ATTGCGCTATGTAA-ATT-GC
1 ATTGCGATA-GTAAGATTCGC
927558 ATTGCGATAGTAAGATTCGC
1 ATTGCGATAGTAAGATTCGC
* *
927578 ATTGCGAT-TTACGTATTCGC
1 ATTGCGATAGTAAG-ATTCGC
927598 ATTGCGAT
1 ATTGCGAT
927606 TTTCCTAATT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
18 4 0.10
19 14 0.33
20 24 0.57
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.36
Consensus pattern (20 bp):
ATTGCGATAGTAAGATTCGC
Found at i:927618 original size:21 final size:20
Alignment explanation
Indices: 927572--927645 Score: 121
Period size: 20 Copynumber: 3.6 Consensus size: 20
927562 CGATAGTAAG
927572 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* *
927592 ATTCGCATTGCGATTTTCCT
1 ATTCGCATTGCGATTTACGT
927612 AATTCGCATTGCGATTTACGT
1 -ATTCGCATTGCGATTTACGT
927633 ATTCGCATTGCGA
1 ATTCGCATTGCGA
927646 ATTATGAAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 31 0.63
21 18 0.37
ACGTcount: A:0.20, C:0.22, G:0.19, T:0.39
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:927660 original size:41 final size:41
Alignment explanation
Indices: 927574--927660 Score: 122
Period size: 41 Copynumber: 2.1 Consensus size: 41
927564 ATAGTAAGAT
* * *
927574 TCGCATTGCGATTTACGTATTCGCATTGCGATTTTCCTAAT
1 TCGCATTGCGATTTACGTATTCGCATTGCGATTATCCAAAA
*
927615 TCGCATTGCGATTTACGTATTCGCATTGCGAATTAT-GAAAA
1 TCGCATTGCGATTTACGTATTCGCATTGCG-ATTATCCAAAA
927656 TCGCA
1 TCGCA
927661 ACGCGAATAC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
41 37 0.90
42 4 0.10
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (41 bp):
TCGCATTGCGATTTACGTATTCGCATTGCGATTATCCAAAA
Found at i:927678 original size:20 final size:20
Alignment explanation
Indices: 927653--927708 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
927643 CGAATTATGA
927653 AAATCGCAACGCGAATACGT
1 AAATCGCAACGCGAATACGT
*
927673 AAATCGCAACGTGAATACGT
1 AAATCGCAACGCGAATACGT
*
927693 AAATCGCAATGCGAAT
1 AAATCGCAACGCGAAT
927709 TAGGAAAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.41, C:0.21, G:0.20, T:0.18
Consensus pattern (20 bp):
AAATCGCAACGCGAATACGT
Found at i:927781 original size:20 final size:21
Alignment explanation
Indices: 927737--927788 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
927727 ATAGTCAGTA
*
927737 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTACAAAT
**
927758 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACAAAT
927778 TCGCATTGCGA
1 TCGCATTGCGA
927789 ATTGGGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTACAAAT
Found at i:927808 original size:21 final size:21
Alignment explanation
Indices: 927635--927830 Score: 105
Period size: 21 Copynumber: 9.5 Consensus size: 21
927625 ATTTACGTAT
*
927635 TCGCATTGCGAATTATGAAAA
1 TCGCATTGCGAATTAGGAAAA
** * *
927656 TCGCAACGCGAA-TACGTAAA
1 TCGCATTGCGAATTAGGAAAA
** * * *
927676 TCGCAACGTGAA-TACGTAAA
1 TCGCATTGCGAATTAGGAAAA
*
927696 TCGCAATGCGAATTAGGAAAA
1 TCGCATTGCGAATTAGGAAAA
* * **
927717 TTGCATTGC-AA-TAGTCAGTA
1 TCGCATTGCGAATTAG-GAAAA
* *** *
927737 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGAATTAGGAAAA
* *** *
927758 TCGCATTGCGATTTA-CTTAT
1 TCGCATTGCGAATTAGGAAAA
*
927778 TCGCATTGCGAATTGGGAAAA
1 TCGCATTGCGAATTAGGAAAA
*
927799 TCGCAATGCGAATTAGGAAAA
1 TCGCATTGCGAATTAGGAAAA
927820 TCGCATTGCGA
1 TCGCATTGCGA
927831 TAGTCATAAT
Statistics
Matches: 137, Mismatches: 33, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
19 3 0.02
20 63 0.46
21 70 0.51
22 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (21 bp):
TCGCATTGCGAATTAGGAAAA
Found at i:929653 original size:23 final size:23
Alignment explanation
Indices: 929622--929670 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
929612 ACTCATGGAC
*
929622 GGGACTAGGATTAGATATAGACA
1 GGGAATAGGATTAGATATAGACA
929645 GGGAATAGGATTAGATATAGACA
1 GGGAATAGGATTAGATATAGACA
929668 GGG
1 GGG
929671 GCCGAAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.39, C:0.06, G:0.35, T:0.20
Consensus pattern (23 bp):
GGGAATAGGATTAGATATAGACA
Found at i:930819 original size:3 final size:3
Alignment explanation
Indices: 930811--930862 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
930801 TCTGTTCTTT
930811 TTA TTA TTA 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
930859 TTA T
1 TTA T
930863 GAATAATTAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:937554 original size:17 final size:19
Alignment explanation
Indices: 937532--937585 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
937522 TGACAAAACA
937532 TTTATTAAAAAAT-T-ATT
1 TTTATTAAAAAATATAATT
937549 TTTATTTAATAAAAATATAATT
1 TTTA-TT-A-AAAAATATAATT
*
937571 TTAATTAAAAAATAT
1 TTTATTAAAAAATAT
937586 GTAAAGGTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
17 4 0.13
18 2 0.06
19 9 0.29
20 7 0.23
21 3 0.10
22 6 0.19
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
TTTATTAAAAAATATAATT
Found at i:937555 original size:21 final size:22
Alignment explanation
Indices: 937531--937572 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
937521 ATGACAAAAC
* *
937531 ATTTATTAAAAA-ATTATTTTT
1 ATTTAATAAAAATATAATTTTT
937552 ATTTAATAAAAATATAATTTT
1 ATTTAATAAAAATATAATTTT
937573 AATTAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
ATTTAATAAAAATATAATTTTT
Found at i:937573 original size:21 final size:19
Alignment explanation
Indices: 937538--937582 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 19
937528 AACATTTATT
* *
937538 AAAAAATTATTTTTATTTA
1 AAAAAATTAATTTTAATTA
937557 ATAAAAATATAATTTTAATTA
1 A-AAAAAT-TAATTTTAATTA
937578 AAAAA
1 AAAAA
937583 TATGTAAAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 1 0.05
20 10 0.45
21 11 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
AAAAAATTAATTTTAATTA
Found at i:950003 original size:35 final size:35
Alignment explanation
Indices: 949957--950032 Score: 125
Period size: 35 Copynumber: 2.2 Consensus size: 35
949947 AAAACAGTCC
* *
949957 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
*
949992 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
950027 TCAATT
1 TCAATT
950033 AAATTGAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.39, C:0.24, G:0.01, T:0.36
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
Found at i:950575 original size:130 final size:130
Alignment explanation
Indices: 950429--950676 Score: 397
Period size: 130 Copynumber: 1.9 Consensus size: 130
950419 TATTTATATA
* **
950429 ATCAATTTGGTCCTAAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
* * * *
950494 TTAGCACATGATCATGACACGTGTCATTGGTGACACCGGTCACCACCTAATTATTTATATATGCT
66 TTAACACATGATCATGACACATGTCATTGGTGACACAGGCCACCACCTAATTATTTATATATGCT
950559 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
* * * *
950624 TTAACACATGATCATGATATATGTTATTGGTGACACATGCCACCACCTAATTA
66 TTAACACATGATCATGACACATGTCATTGGTGACACAGGCCACCACCTAATTA
950677 GAAGAAAATT
Statistics
Matches: 107, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
130 107 1.00
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (130 bp):
ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
TTAACACATGATCATGACACATGTCATTGGTGACACAGGCCACCACCTAATTATTTATATATGCT
Found at i:951165 original size:16 final size:18
Alignment explanation
Indices: 951144--951177 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
951134 ATTTCTTATT
951144 AAAAATA-AAAT-ATTCA
1 AAAAATATAAATGATTCA
951160 AAAAATATAAATGATTCA
1 AAAAATATAAATGATTCA
951178 TACATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAATATAAATGATTCA
Done.