Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 54 of 187
Found at i:16067700 original size:26 final size:26
Alignment explanation
Indices: 16067671--16067720 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
16067661 AATTTTTTCG
* *
16067671 AGTCGAATCGAGTGAAATGAAATTCA
1 AGTCGAATCGAATCAAATGAAATTCA
* *
16067697 AGTCGAGTTGAATCAAATGAAATT
1 AGTCGAATCGAATCAAATGAAATT
16067721 ATTCAAGTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.42, C:0.10, G:0.22, T:0.26
Consensus pattern (26 bp):
AGTCGAATCGAATCAAATGAAATTCA
Found at i:16068038 original size:19 final size:20
Alignment explanation
Indices: 16068008--16068058 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
16067998 AATATATAGG
16068008 TTTTGTAATTTTT-ATAAA-TA
1 TTTTG-AATTTTTGA-AAATTA
16068028 TTTTGAATTTTTGAAAATTA
1 TTTTGAATTTTTGAAAATTA
16068048 TTTTG-ATTTTT
1 TTTTGAATTTTT
16068059 TTGTATTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (20 bp):
TTTTGAATTTTTGAAAATTA
Found at i:16082671 original size:21 final size:22
Alignment explanation
Indices: 16082621--16082672 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
16082611 AAACAAAAAC
* * *
16082621 CCTTACACCCATCACATCCTAA
1 CCTTTCACCCATCAAATCCAAA
16082643 CCTTTCACCCATCAAAT-CAAA
1 CCTTTCACCCATCAAATCCAAA
*
16082664 CTTTTCACC
1 CCTTTCACC
16082673 TAGAAAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 11 0.42
22 15 0.58
ACGTcount: A:0.31, C:0.42, G:0.00, T:0.27
Consensus pattern (22 bp):
CCTTTCACCCATCAAATCCAAA
Found at i:16087039 original size:31 final size:31
Alignment explanation
Indices: 16086989--16087075 Score: 112
Period size: 31 Copynumber: 3.0 Consensus size: 31
16086979 AAAAATCATA
16086989 ATTTAA-TCACTAAACTA---AAAA-TTTTC
1 ATTTAAGTCACTAAACTATTTAAAAGTTTTC
* *
16087015 ATTTAAGTTACTGAACTATTTAAAAGTTTTC
1 ATTTAAGTCACTAAACTATTTAAAAGTTTTC
*
16087046 ATTTAAGTCACTAAACTATTCAAAAGTTTT
1 ATTTAAGTCACTAAACTATTTAAAAGTTTT
16087076 TAAGTCACTA
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
26 6 0.12
27 9 0.18
30 4 0.08
31 32 0.63
ACGTcount: A:0.40, C:0.13, G:0.06, T:0.41
Consensus pattern (31 bp):
ATTTAAGTCACTAAACTATTTAAAAGTTTTC
Found at i:16093085 original size:18 final size:18
Alignment explanation
Indices: 16093062--16093099 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
16093052 AGTCCGTAAA
16093062 TATTAATTATTTAATATT
1 TATTAATTATTTAATATT
16093080 TATTAATTATTTAATATT
1 TATTAATTATTTAATATT
16093098 TA
1 TA
16093100 CTAGGTCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TATTAATTATTTAATATT
Found at i:16096085 original size:13 final size:13
Alignment explanation
Indices: 16096067--16096091 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16096057 TATTTTAATA
16096067 TTATTTTGTGTGT
1 TTATTTTGTGTGT
16096080 TTATTTTGTGTG
1 TTATTTTGTGTG
16096092 CATTCGATGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:16102318 original size:41 final size:41
Alignment explanation
Indices: 16101783--16102307 Score: 973
Period size: 41 Copynumber: 12.8 Consensus size: 41
16101773 TTTATCGTTA
* * * *
16101783 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
16101824 GTGA-A-ATTATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACA-T-TTCAGACTATAAGTCTAGCAGGCTTAATGCCG
16101865 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
16101906 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
16101947 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
16101988 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
16102029 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
16102070 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
16102111 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
16102152 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
16102193 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
16102234 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
16102275 GTGACACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
16102308 AAGAGCCGGT
Statistics
Matches: 476, Mismatches: 4, Indels: 8
0.98 0.01 0.02
Matches are distributed among these distances:
39 1 0.00
40 1 0.00
41 471 0.99
42 2 0.00
43 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:16102580 original size:33 final size:32
Alignment explanation
Indices: 16102524--16102587 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
16102514 AGATATGTAT
16102524 ATATATATATATGTTGCATTCGGCATAGGTGG
1 ATATATATATATGTTGCATTCGGCATAGGTGG
* *
16102556 ATATATTTATGTGTATGCATTCGGCATAGGTG
1 ATATATATATATGT-TGCATTCGGCATAGGTG
16102588 AAAATAAGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.27, C:0.09, G:0.25, T:0.39
Consensus pattern (32 bp):
ATATATATATATGTTGCATTCGGCATAGGTGG
Found at i:16102604 original size:33 final size:33
Alignment explanation
Indices: 16102531--16102604 Score: 87
Period size: 33 Copynumber: 2.3 Consensus size: 33
16102521 TATATATATA
* * **
16102531 TATATGT-TGCATTCGGCATAGGTGGATATATT
1 TATATGTATGCATTCGGCATAGGTGAAAATAAG
*
16102563 TATGTGTATGCATTCGGCATAGGTGAAAATAAG
1 TATATGTATGCATTCGGCATAGGTGAAAATAAG
*
16102596 TGTATGTAT
1 TATATGTAT
16102605 CTATGCATTC
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
32 6 0.18
33 28 0.82
ACGTcount: A:0.28, C:0.08, G:0.26, T:0.38
Consensus pattern (33 bp):
TATATGTATGCATTCGGCATAGGTGAAAATAAG
Found at i:16103763 original size:187 final size:187
Alignment explanation
Indices: 16103493--16103864 Score: 699
Period size: 187 Copynumber: 2.0 Consensus size: 187
16103483 CTAGCGAAAC
*
16103493 GAATTAGTAGAGAGTCAAAAGAGTACGAAGCAAGAGCAAATTGGCATTGATTTAGCAAGCAGGCT
1 GAATTAGTAGAGAGTCAAAAGAGTACGAAGCAAGAGCAAATTGGCATTGATTTAGCAAGCAAGCT
* *
16103558 CAATAATGGAGTGGGAAACAATAAATTGAGAACAAAAAGCACCCTTCAATAGCTTGGACAACAAC
66 CAACAATGGAGAGGGAAACAATAAATTGAGAACAAAAAGCACCCTTCAATAGCTTGGACAACAAC
16103623 AAAAGAGTAGAGAAATGAAAAAGAACATGAAGATGACGAAAAAAAGAAAAAGAAAAA
131 AAAAGAGTAGAGAAATGAAAAAGAACATGAAGATGACGAAAAAAAGAAAAAGAAAAA
16103680 GAATTAGTAGAGAGTCAAAAGAGTACGAAGCAAGAGCAAATTGGCATTGATTTAGCAAGCAAGCT
1 GAATTAGTAGAGAGTCAAAAGAGTACGAAGCAAGAGCAAATTGGCATTGATTTAGCAAGCAAGCT
* *
16103745 CAACAGTGGAGAGGGAAACAATAAATTGAGAACAAAAAGCACCCTTCAATAGCTTGGACGACAAC
66 CAACAATGGAGAGGGAAACAATAAATTGAGAACAAAAAGCACCCTTCAATAGCTTGGACAACAAC
16103810 AAAAGAGTAGAGAAATGAAAAAGAACATGAAGATGACGAAAAAAAGAAAAAGAAA
131 AAAAGAGTAGAGAAATGAAAAAGAACATGAAGATGACGAAAAAAAGAAAAAGAAA
16103865 CAAAGTATTG
Statistics
Matches: 180, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
187 180 1.00
ACGTcount: A:0.51, C:0.12, G:0.23, T:0.15
Consensus pattern (187 bp):
GAATTAGTAGAGAGTCAAAAGAGTACGAAGCAAGAGCAAATTGGCATTGATTTAGCAAGCAAGCT
CAACAATGGAGAGGGAAACAATAAATTGAGAACAAAAAGCACCCTTCAATAGCTTGGACAACAAC
AAAAGAGTAGAGAAATGAAAAAGAACATGAAGATGACGAAAAAAAGAAAAAGAAAAA
Found at i:16110321 original size:4 final size:4
Alignment explanation
Indices: 16110312--16110345 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
16110302 AAGTTTTATT
16110312 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
16110346 AATTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:16110353 original size:22 final size:22
Alignment explanation
Indices: 16110295--16110354 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
16110285 AAGTGGCCCA
*
16110295 AGTTGTAAAGTTTTATTTTTATTT
1 AGTT-TAAATTTTTA-TTTTATTT
*
16110319 A-TTT-ATTTATTTATTTTATTT
1 AGTTTAAATT-TTTATTTTATTT
16110340 AGTTTAAATTTTTAT
1 AGTTTAAATTTTTAT
16110355 ATTCAGTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 11 0.37
22 13 0.43
23 5 0.17
24 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
AGTTTAAATTTTTATTTTATTT
Found at i:16134316 original size:29 final size:29
Alignment explanation
Indices: 16134261--16134316 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
16134251 TACAAATTAA
*
16134261 TTTTTAAAATTATAAAAGAATATTTAATG
1 TTTTTAAAATTATAAAAGAATAATTAATG
*
16134290 TTTTTTAAATTATAAAA-AATTAATTAA
1 TTTTTAAAATTATAAAAGAA-TAATTAA
16134317 ATTATCAACG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (29 bp):
TTTTTAAAATTATAAAAGAATAATTAATG
Found at i:16136451 original size:18 final size:18
Alignment explanation
Indices: 16136428--16136465 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
16136418 AACTTAAATA
*
16136428 AAAATTTTAAAATGATTT
1 AAAATTTTAAAATAATTT
*
16136446 AAAATTTTTAAATAATTT
1 AAAATTTTAAAATAATTT
16136464 AA
1 AA
16136466 TAACTATCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (18 bp):
AAAATTTTAAAATAATTT
Found at i:16149652 original size:5 final size:5
Alignment explanation
Indices: 16149640--16149672 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
16149630 AAAAGTTAAG
16149640 TATA- TATAT TATA- TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT
16149673 AATAAAAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 8 0.30
5 19 0.70
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
TATAT
Found at i:16149777 original size:26 final size:27
Alignment explanation
Indices: 16149726--16149781 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
16149716 AACAGAGAGC
* *
16149726 AAAACGAAAACAGGGGAGAAAGGAAAG
1 AAAAAGAAAACAGGGAAGAAAGGAAAG
16149753 AAAAAGAAAA-AGGGAAGGAAA-GAAAG
1 AAAAAGAAAACAGGGAA-GAAAGGAAAG
16149779 AAA
1 AAA
16149782 GTTTGGGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 13 0.50
27 13 0.50
ACGTcount: A:0.66, C:0.04, G:0.30, T:0.00
Consensus pattern (27 bp):
AAAAAGAAAACAGGGAAGAAAGGAAAG
Found at i:16152994 original size:99 final size:101
Alignment explanation
Indices: 16152825--16153020 Score: 272
Period size: 99 Copynumber: 2.0 Consensus size: 101
16152815 TCTTATTAGG
* * ** * *
16152825 TCGAGTTATAATTTGTGACAAATTAGAGCTTCTTTTCAATCTTTCTATCAACTTGTAGGTGAAAA
1 TCGAGTTATAAATTATGACAAATTAGAGCTTCTCCTCAATCTCTCTATCAACTTGTAGGAGAAAA
**
16152890 TGTGATATTTTGGAATCATAAA-AGTTAAAAGACAAA
66 TGTGATATCCTGGAATCATAAATA-TTAAAAGACAAA
*
16152926 TCGAGTTATAAATTATGACAAATTAGAGTTTCTCCTCAATC-CT-TATCAACTTGTAGGAGAAAA
1 TCGAGTTATAAATTATGACAAATTAGAGCTTCTCCTCAATCTCTCTATCAACTTGTAGGAGAAAA
*
16152989 TGTGATATCCTGGAATCCTAAATATTAAAAGA
66 TGTGATATCCTGGAATCATAAATATTAAAAGA
16153021 GTTGATAGGC
Statistics
Matches: 84, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
99 46 0.55
100 2 0.02
101 36 0.43
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (101 bp):
TCGAGTTATAAATTATGACAAATTAGAGCTTCTCCTCAATCTCTCTATCAACTTGTAGGAGAAAA
TGTGATATCCTGGAATCATAAATATTAAAAGACAAA
Found at i:16164966 original size:20 final size:18
Alignment explanation
Indices: 16164941--16164992 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 18
16164931 TAGATGTAAT
16164941 TAAAATATTATAAATAATTG
1 TAAAATATTATAAAT--TTG
16164961 TAAAATTATTA-AAATTTG
1 TAAAA-TATTATAAATTTG
16164979 TAACAA-ATTATAAA
1 TAA-AATATTATAAA
16164993 ATTATTAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
17 4 0.14
18 9 0.31
19 2 0.07
20 9 0.31
21 5 0.17
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (18 bp):
TAAAATATTATAAATTTG
Found at i:16164968 original size:18 final size:19
Alignment explanation
Indices: 16164947--16164993 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
16164937 TAATTAAAAT
16164947 ATTATAAATAATTGT-A-AA
1 ATTATAAA-AATTGTAACAA
*
16164965 ATTATTAAAATTTGTAACAA
1 ATTA-TAAAAATTGTAACAA
16164985 ATTATAAAA
1 ATTATAAAA
16164994 TTATTAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 9 0.36
19 10 0.40
20 6 0.24
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.38
Consensus pattern (19 bp):
ATTATAAAAATTGTAACAA
Found at i:16172492 original size:19 final size:19
Alignment explanation
Indices: 16172470--16172508 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
16172460 CAATATTCAA
16172470 ATAAAAAAAAAATAATAAC
1 ATAAAAAAAAAATAATAAC
* **
16172489 ATAATAATGAAATAATAAC
1 ATAAAAAAAAAATAATAAC
16172508 A
1 A
16172509 AAACAACAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.05, G:0.03, T:0.21
Consensus pattern (19 bp):
ATAAAAAAAAAATAATAAC
Found at i:16172520 original size:25 final size:25
Alignment explanation
Indices: 16172491--16172538 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
16172481 ATAATAACAT
*
16172491 AATAATGAAATAATAACAAAACAAC
1 AATAATGAAACAATAACAAAACAAC
*
16172516 AATAATGAAACAATAAGAAAACA
1 AATAATGAAACAATAACAAAACA
16172539 GTAAAAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.69, C:0.10, G:0.06, T:0.15
Consensus pattern (25 bp):
AATAATGAAACAATAACAAAACAAC
Found at i:16174931 original size:10 final size:10
Alignment explanation
Indices: 16174918--16174959 Score: 63
Period size: 10 Copynumber: 4.5 Consensus size: 10
16174908 AATTAAGTTA
16174918 ATTTTAAAAT
1 ATTTTAAAAT
16174928 A-TTT--AAT
1 ATTTTAAAAT
16174935 ATTTTAAAAT
1 ATTTTAAAAT
16174945 ATTTTAAAAT
1 ATTTTAAAAT
16174955 ATTTT
1 ATTTT
16174960 TTCTTGTCGA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
7 4 0.14
8 3 0.10
9 3 0.10
10 19 0.66
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (10 bp):
ATTTTAAAAT
Found at i:16174932 original size:9 final size:9
Alignment explanation
Indices: 16174920--16174958 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
16174910 TTAAGTTAAT
16174920 TTTAAAATA
1 TTTAAAATA
*
16174929 TTTAATAT-
1 TTTAAAATA
16174937 TTTAAAATA
1 TTTAAAATA
16174946 TTTTAAAATA
1 -TTTAAAATA
16174956 TTT
1 TTT
16174959 TTTCTTGTCG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
8 7 0.27
9 10 0.38
10 9 0.35
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (9 bp):
TTTAAAATA
Found at i:16176401 original size:24 final size:24
Alignment explanation
Indices: 16176374--16176433 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
16176364 AGCGATGGAT
16176374 ATGAAGATGAAGACGACGATAGAG
1 ATGAAGATGAAGACGACGATAGAG
* * *
16176398 ATGAAGATG-AGTACGAGGGTGGAG
1 ATGAAGATGAAG-ACGACGATAGAG
16176422 -TGAAGATGAAGA
1 ATGAAGATGAAGA
16176434 AGATGATCAC
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 11 0.35
24 20 0.65
ACGTcount: A:0.42, C:0.05, G:0.38, T:0.15
Consensus pattern (24 bp):
ATGAAGATGAAGACGACGATAGAG
Found at i:16180748 original size:24 final size:25
Alignment explanation
Indices: 16180716--16180769 Score: 74
Period size: 26 Copynumber: 2.2 Consensus size: 25
16180706 TCTTTTGCAT
16180716 TCAAATC-ATATTCTCTCAATGCTC
1 TCAAATCAATATTCTCTCAATGCTC
* *
16180740 TCAATTCATATATTCTCTCAATTCTC
1 TCAAATCA-ATATTCTCTCAATGCTC
16180766 TCAA
1 TCAA
16180770 GTATTTAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 6 0.23
26 20 0.77
ACGTcount: A:0.30, C:0.28, G:0.02, T:0.41
Consensus pattern (25 bp):
TCAAATCAATATTCTCTCAATGCTC
Found at i:16182704 original size:40 final size:40
Alignment explanation
Indices: 16182641--16182793 Score: 191
Period size: 40 Copynumber: 3.8 Consensus size: 40
16182631 ATATACTAAA
* * * * * * *
16182641 TATGTTACCATAAGTATGATAAGCTTTCAATTGAATTTAT
1 TATGTTACCGTAAGCATGTTAAGCATGCCATTGAATTGAT
*
16182681 TATGTTACCTTAAGCATGTTAAGCATGCCATTGAATTGAT
1 TATGTTACCGTAAGCATGTTAAGCATGCCATTGAATTGAT
*
16182721 TATGTTACCGTAAGCATGTTAACCATGCCATTGAATTGAT
1 TATGTTACCGTAAGCATGTTAAGCATGCCATTGAATTGAT
* *
16182761 TATGGTACCGTAAGCATG-TAAGACATGGCATTG
1 TATGTTACCGTAAGCATGTTAAG-CATGCCATTG
16182794 TACTGAAACC
Statistics
Matches: 100, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
39 3 0.03
40 97 0.97
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.36
Consensus pattern (40 bp):
TATGTTACCGTAAGCATGTTAAGCATGCCATTGAATTGAT
Found at i:16185117 original size:5 final size:5
Alignment explanation
Indices: 16185107--16185136 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
16185097 GGTAATTTGA
16185107 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT
1 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT
16185137 AAAAAACAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAAAT
Found at i:16200464 original size:46 final size:43
Alignment explanation
Indices: 16200391--16200489 Score: 128
Period size: 46 Copynumber: 2.2 Consensus size: 43
16200381 AATAATAACA
*
16200391 GATACACGGTGGATTCAGCACACAGCAACCACCTTTTGTAATTAAT
1 GATAC-CGGTGGATTCAGCACACAGCAACCACC--TTATAATTAAT
*
16200437 GATATCCGGTGCGATT-AGCACATAGCAACCACCTTATAATTAAT
1 GATA-CCGGTG-GATTCAGCACACAGCAACCACCTTATAATTAAT
16200481 GATACCGGT
1 GATACCGGT
16200490 TCACATAGTA
Statistics
Matches: 49, Mismatches: 2, Indels: 7
0.84 0.03 0.12
Matches are distributed among these distances:
43 5 0.10
44 14 0.29
46 25 0.51
47 5 0.10
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.26
Consensus pattern (43 bp):
GATACCGGTGGATTCAGCACACAGCAACCACCTTATAATTAAT
Found at i:16200556 original size:51 final size:50
Alignment explanation
Indices: 16200495--16200681 Score: 193
Period size: 51 Copynumber: 3.7 Consensus size: 50
16200485 CCGGTTCACA
* * *
16200495 TAGTAGCCTGCACATTGTACTACACATGTGACCATTACTATCTGATAGACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA-TACTATCTGGTAGACG
* * * *
16200546 TGGTAGCCTGCACATAGTACTACACACGTGATCGA-AGCTATCCGGTACG-CA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATA-CTATCTGGTA-GACG
* * *
16200597 TAGTAGCCTGCACATAGTACTACACATGCGA-CATA-TCATTCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATACT-A-TCTGGTAGACG
*
16200647 TAGTAGCCTGCACATAGTACTACACACGTTACCAT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
16200682 CACTTTCACT
Statistics
Matches: 111, Mismatches: 17, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
48 1 0.01
49 2 0.02
50 37 0.33
51 68 0.61
52 3 0.03
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATACTATCTGGTAGACG
Found at i:16200611 original size:102 final size:101
Alignment explanation
Indices: 16200493--16200675 Score: 280
Period size: 101 Copynumber: 1.8 Consensus size: 101
16200483 TACCGGTTCA
* * * *
16200493 CATAGTAGCCTGCACATTGTACTACACATGTGACCAT-T-ACTATCTGATAGACGTGGTAGCCTG
1 CATAGTAGCCTGCACATAGTACTACACATGCGA-CATATCA-T-TCTGATACACGTAGTAGCCTG
16200556 CACATAGTACTACACACGTGATCGAAGCTATCCGGTACG
63 CACATAGTACTACACACGTGATCGAAGCTATCCGGTACG
*
16200595 CATAGTAGCCTGCACATAGTACTACACATGCGACATATCATTCTGGTACACGTAGTAGCCTGCAC
1 CATAGTAGCCTGCACATAGTACTACACATGCGACATATCATTCTGATACACGTAGTAGCCTGCAC
16200660 ATAGTACTACACACGT
66 ATAGTACTACACACGT
16200676 TACCATCACT
Statistics
Matches: 74, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
101 40 0.54
102 33 0.45
103 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACATATCATTCTGATACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAGCTATCCGGTACG
Found at i:16203376 original size:41 final size:41
Alignment explanation
Indices: 16203331--16203445 Score: 185
Period size: 41 Copynumber: 2.8 Consensus size: 41
16203321 TAAAAAATAT
*
16203331 TCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATTTAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATTCAGA
* * *
16203372 TCACCGGCACTTAGCCAGCTAGGCTTATAGCCTGATTCAGT
1 TCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATTCAGA
*
16203413 TCACCGGCACTTAGCCTGCTAGGCTTTAAGCCT
1 TCACCGGCACTTAGCCTGCTAGGCTTAAAGCCT
16203446 AAATTGATTC
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 67 1.00
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.27
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATTCAGA
Found at i:16203457 original size:41 final size:40
Alignment explanation
Indices: 16203329--16203462 Score: 155
Period size: 41 Copynumber: 3.3 Consensus size: 40
16203319 ATTAAAAAAT
* *
16203329 ATTCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATTTAG
1 ATTCACCGGCACTTAGCCTGCTAGGCTTTAAGCCT-AATT-G
* * *
16203371 A-TCACCGGCACTTAGCCAGCTAGGC-TTATAGCCTGATTC
1 ATTCACCGGCACTTAGCCTGCTAGGCTTTA-AGCCTAATTG
16203410 AGTTCACCGGCACTTAGCCTGCTAGGCTTTAAGCCTAAATTG
1 A-TTCACCGGCACTTAGCCTGCTAGGCTTTAAGCCT-AATTG
*
16203452 ATTCACTGGCA
1 ATTCACCGGCA
16203463 ATATACATGC
Statistics
Matches: 78, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
39 1 0.01
40 4 0.05
41 65 0.83
42 8 0.10
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.28
Consensus pattern (40 bp):
ATTCACCGGCACTTAGCCTGCTAGGCTTTAAGCCTAATTG
Found at i:16203486 original size:82 final size:81
Alignment explanation
Indices: 16203330--16203488 Score: 189
Period size: 82 Copynumber: 1.9 Consensus size: 81
16203320 TTAAAAAATA
* * *
16203330 TTCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATTTAGATCACCGGCACTTAGCCAGCTAGG
1 TTCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTAAATTAGATCACCGGCAATTA-CCAGCTAGG
* *
16203395 CTTATAGCCTGATTCAG
65 CCTAGAGCCTGATTCAG
* *
16203412 TTCACCGGCACTTAGCCTGCTAGGCTTTAAGCCTAAATT-GATTCACTGGCAATATA-CATGCTA
1 TTCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTAAATTAGA-TCACCGGCAAT-TACCA-GCTA
16203475 GGCGCT-GAGCCTGA
63 GGC-CTAGAGCCTGA
16203489 ATACGCAATT
Statistics
Matches: 66, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
81 4 0.06
82 59 0.89
83 3 0.05
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (81 bp):
TTCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTAAATTAGATCACCGGCAATTACCAGCTAGGC
CTAGAGCCTGATTCAG
Found at i:16217316 original size:19 final size:19
Alignment explanation
Indices: 16217294--16217334 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
16217284 AATCCACGTA
**
16217294 TTGGTATCTAATTTTTTTT
1 TTGGTATCTAAACTTTTTT
*
16217313 TTGGTATTTAAACTTTTTT
1 TTGGTATCTAAACTTTTTT
16217332 TTG
1 TTG
16217335 TCACAAGTGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.17, C:0.05, G:0.12, T:0.66
Consensus pattern (19 bp):
TTGGTATCTAAACTTTTTT
Found at i:16218033 original size:12 final size:12
Alignment explanation
Indices: 16218001--16218033 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
16217991 TCAGGTATTT
*
16218001 TTTATTTTATAA
1 TTTATTTAATAA
16218013 TTT-TTTAATAA
1 TTTATTTAATAA
16218024 TTTATTTAAT
1 TTTATTTAAT
16218034 CAAACTAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTATTTAATAA
Found at i:16218832 original size:3 final size:3
Alignment explanation
Indices: 16218824--16218871 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
16218814 ATTTATAGTC
16218824 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
16218872 AGTCTTCTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
TCA
Found at i:16219348 original size:19 final size:18
Alignment explanation
Indices: 16219320--16219356 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
16219310 ATTGAGTGAA
*
16219320 TTTTTCAAAAATATTATT
1 TTTTTCAAAAAAATTATT
16219338 TTTTTCAAAAAAAATTATT
1 TTTTTC-AAAAAAATTATT
16219357 AGATTAGGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTTTCAAAAAAATTATT
Found at i:16222992 original size:27 final size:27
Alignment explanation
Indices: 16222958--16223013 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
16222948 CGACAACTAC
*
16222958 TGACGAAGTAAGTTAACGAGCCGACTG
1 TGACGAAGTAAGTTAACGAACCGACTG
16222985 TGACGAAGTAAGTTAACGAACCGACTG
1 TGACGAAGTAAGTTAACGAACCGACTG
16223012 TG
1 TG
16223014 CAACCTTCCT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.20
Consensus pattern (27 bp):
TGACGAAGTAAGTTAACGAACCGACTG
Found at i:16227319 original size:21 final size:22
Alignment explanation
Indices: 16227290--16227330 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
16227280 TAATAATAAT
*
16227290 ACATGATAAAAGAAT-TAAAAA
1 ACATAATAAAAGAATGTAAAAA
*
16227311 ACATAATAAAATAATGTAAA
1 ACATAATAAAAGAATGTAAA
16227331 TATATATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.66, C:0.05, G:0.07, T:0.22
Consensus pattern (22 bp):
ACATAATAAAAGAATGTAAAAA
Found at i:16231286 original size:6 final size:6
Alignment explanation
Indices: 16231275--16231304 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
16231265 AAATGTTTAT
16231275 TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA
1 TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA
16231305 AATTTGACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
TTAAAA
Found at i:16232099 original size:19 final size:20
Alignment explanation
Indices: 16232075--16232131 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 20
16232065 ATATTCATTT
*
16232075 ATTTATAAATATTTTTAT-A
1 ATTTATATATATTTTTATAA
* *
16232094 ATTTATATGTATTATTATAA
1 ATTTATATATATTTTTATAA
16232114 ATTCT-TATATATTTTTAT
1 ATT-TATATATATTTTTAT
16232132 TGAAAGATGA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
19 15 0.48
20 15 0.48
21 1 0.03
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (20 bp):
ATTTATATATATTTTTATAA
Found at i:16236355 original size:124 final size:124
Alignment explanation
Indices: 16236135--16236480 Score: 620
Period size: 124 Copynumber: 2.8 Consensus size: 124
16236125 AACTTGCTAT
* *
16236135 TGTAGCAAAATCGCATACACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGA
1 TGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGA
16236200 AGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGACCAAC
66 AGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGACCAAC
* *
16236259 TGTAGCAAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTATA
1 TGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGA
*
16236324 AGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGACCTAC
66 AGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGACCAAC
* * *
16236383 TGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAGATAACATCTTGGTAGA
1 TGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGA
16236448 AGCGATTTTATACTATTTGCTCAGAAACGTCAA
66 AGCGATTTTATACTATTTGCTCAGAAACGTCAA
16236481 CTCGAAATAA
Statistics
Matches: 212, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
124 212 1.00
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (124 bp):
TGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGA
AGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGACCAAC
Found at i:16238326 original size:3 final size:3
Alignment explanation
Indices: 16238310--16238359 Score: 73
Period size: 3 Copynumber: 16.7 Consensus size: 3
16238300 ATACCTATAT
* * *
16238310 TAA TAA TAG GAA TAA TAA CAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
16238358 TA
1 TA
16238360 GCATTATAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:16243001 original size:4 final size:4
Alignment explanation
Indices: 16242992--16243018 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
16242982 AATATAAATT
16242992 TTAA TTAA TTAA TTAA TTAA TTAA TTA
1 TTAA TTAA TTAA TTAA TTAA TTAA TTA
16243019 GTCTCTCTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TTAA
Found at i:16248202 original size:18 final size:18
Alignment explanation
Indices: 16248179--16248240 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
16248169 AGGTATGTGA
16248179 ATATTTGTAAGTAATTTC
1 ATATTTGTAAGTAATTTC
* **
16248197 ATATTTATACAAGT-ATGTGG
1 ATATTTGT--AAGTAAT-TTC
16248217 ATATTTGTAAGTAATTTC
1 ATATTTGTAAGTAATTTC
*
16248235 AGATTT
1 ATATTT
16248241 ATCTTTAGAA
Statistics
Matches: 33, Mismatches: 7, Indels: 8
0.69 0.15 0.17
Matches are distributed among these distances:
18 17 0.52
19 4 0.12
20 12 0.36
ACGTcount: A:0.34, C:0.05, G:0.15, T:0.47
Consensus pattern (18 bp):
ATATTTGTAAGTAATTTC
Found at i:16248214 original size:38 final size:38
Alignment explanation
Indices: 16248163--16248242 Score: 133
Period size: 38 Copynumber: 2.1 Consensus size: 38
16248153 ATGCATAACC
* *
16248163 TTATACAGGTATGTGAATATTTGTAAGTAATTTCATAT
1 TTATACAAGTATGTGAATATTTGTAAGTAATTTCAGAT
*
16248201 TTATACAAGTATGTGGATATTTGTAAGTAATTTCAGAT
1 TTATACAAGTATGTGAATATTTGTAAGTAATTTCAGAT
16248239 TTAT
1 TTAT
16248243 CTTTAGAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.34, C:0.05, G:0.16, T:0.45
Consensus pattern (38 bp):
TTATACAAGTATGTGAATATTTGTAAGTAATTTCAGAT
Found at i:16252635 original size:123 final size:123
Alignment explanation
Indices: 16252416--16252661 Score: 492
Period size: 123 Copynumber: 2.0 Consensus size: 123
16252406 GCTAAAAATC
16252416 TTGTACACCATGACAGGACAAAACGCAGTGAAATTGATTGACACTTCATTTCAGAGAAGGTTAAT
1 TTGTACACCATGACAGGACAAAACGCAGTGAAATTGATTGACACTTCATTTCAGAGAAGGTTAAT
16252481 AACAACATTGTCCAACTCAACTATATTCTTAGAAAATGACAGATTGCTAATTTTCTTA
66 AACAACATTGTCCAACTCAACTATATTCTTAGAAAATGACAGATTGCTAATTTTCTTA
16252539 TTGTACACCATGACAGGACAAAACGCAGTGAAATTGATTGACACTTCATTTCAGAGAAGGTTAAT
1 TTGTACACCATGACAGGACAAAACGCAGTGAAATTGATTGACACTTCATTTCAGAGAAGGTTAAT
16252604 AACAACATTGTCCAACTCAACTATATTCTTAGAAAATGACAGATTGCTAATTTTCTTA
66 AACAACATTGTCCAACTCAACTATATTCTTAGAAAATGACAGATTGCTAATTTTCTTA
16252662 CTAAAGCACT
Statistics
Matches: 123, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
123 123 1.00
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (123 bp):
TTGTACACCATGACAGGACAAAACGCAGTGAAATTGATTGACACTTCATTTCAGAGAAGGTTAAT
AACAACATTGTCCAACTCAACTATATTCTTAGAAAATGACAGATTGCTAATTTTCTTA
Found at i:16255848 original size:23 final size:22
Alignment explanation
Indices: 16255818--16255862 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
16255808 CTAAGGATAG
*
16255818 GAAAAATTTCAGATTTATCTTCA
1 GAAAAATTT-AGATTTAACTTCA
16255841 GAAAAATTTAGATTTAACTTCA
1 GAAAAATTTAGATTTAACTTCA
16255863 TCTTCAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (22 bp):
GAAAAATTTAGATTTAACTTCA
Found at i:16271575 original size:20 final size:20
Alignment explanation
Indices: 16271534--16271577 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
16271524 GACAAATGTA
* *
16271534 CAAACAGGGGCACCGTAGTG
1 CAAACAGAGGCACCGAAGTG
*
16271554 CAAACAGAGGCACCGAATTG
1 CAAACAGAGGCACCGAAGTG
16271574 CAAA
1 CAAA
16271578 TCCCGTACAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.25, G:0.27, T:0.09
Consensus pattern (20 bp):
CAAACAGAGGCACCGAAGTG
Found at i:16278227 original size:28 final size:27
Alignment explanation
Indices: 16278196--16278277 Score: 89
Period size: 28 Copynumber: 3.0 Consensus size: 27
16278186 ACATATGAAA
*
16278196 TAAAATTTTAATTAATATAAATTATTT
1 TAAAATTTTAATTAATATAAAATATTT
*
16278223 GTAAAA--TTAATGATATATAAAATATTT
1 -TAAAATTTTAATTA-ATATAAAATATTT
16278250 TAAAATTTTAATATAATA-AATAATATTT
1 TAAAATTTTAAT-TAATATAA-AATATTT
16278278 AAATGATTTA
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
26 11 0.24
27 14 0.30
28 20 0.43
29 1 0.02
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (27 bp):
TAAAATTTTAATTAATATAAAATATTT
Found at i:16278312 original size:32 final size:32
Alignment explanation
Indices: 16278262--16278336 Score: 116
Period size: 32 Copynumber: 2.4 Consensus size: 32
16278252 AAATTTTAAT
*
16278262 ATAATAAAT-AATATTTAAATGATTTAATATA
1 ATAATAAATGAATATTTAAATAATTTAATATA
*
16278293 ATTATAAATGAATATTTAAATAATTTAATATA
1 ATAATAAATGAATATTTAAATAATTTAATATA
*
16278325 ATAATACATGAA
1 ATAATAAATGAA
16278337 AGGTTTAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
31 8 0.21
32 31 0.79
ACGTcount: A:0.55, C:0.01, G:0.04, T:0.40
Consensus pattern (32 bp):
ATAATAAATGAATATTTAAATAATTTAATATA
Found at i:16278379 original size:26 final size:26
Alignment explanation
Indices: 16278350--16278402 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
16278340 TTTAAATACA
16278350 ATAAAATAT-AAAATTTTCTAGTTAAT
1 ATAAAATATGAAAATTTTC-AGTTAAT
* * *
16278376 ATAAATTTTGAAAATTTTCATTTAAT
1 ATAAAATATGAAAATTTTCAGTTAAT
16278402 A
1 A
16278403 ATTCAAAAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 14 0.61
27 9 0.39
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (26 bp):
ATAAAATATGAAAATTTTCAGTTAAT
Found at i:16279847 original size:11 final size:11
Alignment explanation
Indices: 16279831--16279864 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
16279821 ATTAATCATT
16279831 TCTCAATTTCC
1 TCTCAATTTCC
* *
16279842 TCTCAAATTGC
1 TCTCAATTTCC
16279853 TCTCAATTTCC
1 TCTCAATTTCC
16279864 T
1 T
16279865 TCCAAATTTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.21, C:0.32, G:0.03, T:0.44
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:16279859 original size:22 final size:22
Alignment explanation
Indices: 16279831--16279880 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
16279821 ATTAATCATT
16279831 TCTCAATTTCC-TCTCAAATTGC
1 TCTCAATTTCCTTC-CAAATTGC
*
16279853 TCTCAATTTCCTTCCAAATTTC
1 TCTCAATTTCCTTCCAAATTGC
16279875 TCTCAA
1 TCTCAA
16279881 ATCTATATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 24 0.92
23 2 0.08
ACGTcount: A:0.24, C:0.32, G:0.02, T:0.42
Consensus pattern (22 bp):
TCTCAATTTCCTTCCAAATTGC
Found at i:16279941 original size:51 final size:51
Alignment explanation
Indices: 16279842--16279941 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 51
16279832 CTCAATTTCC
*
16279842 TCTCAAATTGCTCTCAATTTCCTTCCAAATTTCTCTCAAATCTATATTTAA
1 TCTCAAATTGCTCTCAATTTCCTTCCAAATTTCTCTCAAATCCATATTTAA
* * * *
16279893 TCTCAATTTGCTCTCAATTT-CTTCTTAAATTTCTCTTAAATCCCTATTT
1 TCTCAAATTGCTCTCAATTTCCTTC-CAAATTTCTCTCAAATCCATATTT
16279942 TTAATTATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
50 4 0.09
51 39 0.91
ACGTcount: A:0.26, C:0.25, G:0.02, T:0.47
Consensus pattern (51 bp):
TCTCAAATTGCTCTCAATTTCCTTCCAAATTTCTCTCAAATCCATATTTAA
Found at i:16281837 original size:32 final size:33
Alignment explanation
Indices: 16281780--16281841 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 33
16281770 AAATAAGATA
* * *
16281780 AAAATAGAAAAGTTTGTATATGTATATATTTAC
1 AAAATAAAAAAGTATGTATAAGTATATATTTAC
16281813 AAAATAAAAAAG-ATGTATAAGTATATATT
1 AAAATAAAAAAGTATGTATAAGTATATATT
16281842 GGTAAATCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 15 0.58
33 11 0.42
ACGTcount: A:0.52, C:0.02, G:0.11, T:0.35
Consensus pattern (33 bp):
AAAATAAAAAAGTATGTATAAGTATATATTTAC
Found at i:16282067 original size:23 final size:23
Alignment explanation
Indices: 16282037--16282176 Score: 117
Period size: 23 Copynumber: 6.2 Consensus size: 23
16282027 AGACGTATAC
*
16282037 TATAAAAAAAAGCATATATATTA
1 TATAAAAAAATGCATATATATTA
* ** *
16282060 TAT-AAAAAATGCGTGCATACTA
1 TATAAAAAAATGCATATATATTA
16282082 TATAAAAAAATGCATATATATTA
1 TATAAAAAAATGCATATATATTA
* * ** *
16282105 TAT--AAAAACGCCTGCATACTA
1 TATAAAAAAATGCATATATATTA
* *
16282126 TATATAAAAATGCGTATATATTA
1 TATAAAAAAATGCATATATATTA
*
16282149 TTATAAAAAAAATGCATATGTA-TA
1 -TAT-AAAAAAATGCATATATATTA
16282173 TATA
1 TATA
16282177 GTAATAATAA
Statistics
Matches: 90, Mismatches: 22, Indels: 11
0.73 0.18 0.09
Matches are distributed among these distances:
21 16 0.18
22 18 0.20
23 37 0.41
24 5 0.06
25 14 0.16
ACGTcount: A:0.51, C:0.09, G:0.08, T:0.32
Consensus pattern (23 bp):
TATAAAAAAATGCATATATATTA
Found at i:16282091 original size:44 final size:44
Alignment explanation
Indices: 16282033--16282158 Score: 175
Period size: 44 Copynumber: 2.8 Consensus size: 44
16282023 AGGTAGACGT
* *
16282033 ATACTATA-AAAAAAAGCATATATATTATATAAAAAATGCGTGC
1 ATACTATATAAAAAAAGCATATATATTATATAAAAAACGCCTGC
16282076 ATACTATATAAAAAAATGCATATATATTATAT-AAAAACGCCTGC
1 ATACTATATAAAAAAA-GCATATATATTATATAAAAAACGCCTGC
* *
16282120 ATACTATATATAAAAATGCGTATATATTATTATAAAAAA
1 ATACTATATA-AAAAAAGCATATATATTA-TATAAAAAA
16282159 AATGCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
43 8 0.11
44 38 0.51
45 23 0.31
46 5 0.07
ACGTcount: A:0.52, C:0.10, G:0.07, T:0.31
Consensus pattern (44 bp):
ATACTATATAAAAAAAGCATATATATTATATAAAAAACGCCTGC
Found at i:16282165 original size:44 final size:43
Alignment explanation
Indices: 16282033--16282176 Score: 157
Period size: 45 Copynumber: 3.3 Consensus size: 43
16282023 AGGTAGACGT
* *
16282033 ATACTATA-A-AAAAAAGCATATATATTATATAAAAAATGCGTGC
1 ATACTATATATAAAAATGCATATATATTATATAAAAAA--CATGC
* * *
16282076 ATACTATATAAAAAAATGCATATATATTATATAAAAACGCCTGC
1 ATACTATATATAAAAATGCATATATATTATATAAAAA-ACATGC
* *
16282120 ATACTATATATAAAAATGCGTATATATTATTATAAAAAAAATGC
1 ATACTATATATAAAAATGCATATATATTA-TATAAAAAACATGC
*
16282164 ATATGTATATATA
1 ATA-CTATATATA
16282177 GTAATAATAA
Statistics
Matches: 87, Mismatches: 9, Indels: 8
0.84 0.09 0.08
Matches are distributed among these distances:
43 8 0.09
44 38 0.44
45 41 0.47
ACGTcount: A:0.51, C:0.09, G:0.08, T:0.32
Consensus pattern (43 bp):
ATACTATATATAAAAATGCATATATATTATATAAAAAACATGC
Found at i:16282455 original size:20 final size:22
Alignment explanation
Indices: 16282416--16282456 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
16282406 CCTTTTTTAA
*
16282416 AATCGTAAATAAGTAAAAAAAT
1 AATCGTAAATAAGAAAAAAAAT
16282438 AATCG-AAA-AAGAAAAAAAA
1 AATCGTAAATAAGAAAAAAAA
16282457 CAGTAAGCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 3 0.17
22 5 0.28
ACGTcount: A:0.71, C:0.05, G:0.10, T:0.15
Consensus pattern (22 bp):
AATCGTAAATAAGAAAAAAAAT
Found at i:16282667 original size:23 final size:22
Alignment explanation
Indices: 16282624--16282681 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
16282614 AAAGGGTATC
* *
16282624 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
16282645 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
16282668 TACATATCATATCT
1 TACAAATCATATCT
16282682 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:16282675 original size:17 final size:17
Alignment explanation
Indices: 16282653--16282705 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 17
16282643 ATTACAAAAT
16282653 CATATCTTCTAAGATTA
1 CATATCTTCTAAGATTA
*
16282670 CATATCATATCTAAGATTG
1 CATATC-T-TCTAAGATTA
* *
16282689 CATATCCTCGAAGATTA
1 CATATCTTCTAAGATTA
16282706 TGTTTCCATA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
17 14 0.47
18 1 0.03
19 15 0.50
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.36
Consensus pattern (17 bp):
CATATCTTCTAAGATTA
Found at i:16282684 original size:19 final size:20
Alignment explanation
Indices: 16282637--16282694 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 20
16282627 AAATTAAATC
*
16282637 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTAC-ATATCATA--T
16282660 TCTAAGATTACATATCATA-
1 TCTAAGATTACATATCATAT
*
16282679 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
16282695 CTCGAAGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.45
22 7 0.21
23 11 0.33
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.36
Consensus pattern (20 bp):
TCTAAGATTACATATCATAT
Found at i:16283290 original size:45 final size:44
Alignment explanation
Indices: 16283007--16283945 Score: 282
Period size: 44 Copynumber: 21.6 Consensus size: 44
16282997 TAATCCACTC
* * * * * * * *
16283007 CACTACAACTT-AGGGAGACAGGATTTGTTTATTTAGTATGCCC
1 CACTGCAACTTCAGGGAGATAAGACTTGATTACTTAGTCTGCCT
* * ** * *
16283050 CACTGCAATTTCAGGGGGATAAGGTTTGCTTTCTTGAGTCTG-CT
1 CACTGCAACTTCAGGGAGATAAGACTTGATTACTT-AGTCTGCCT
* * * *
16283094 CCACTGCAACTTCAAGGAGATAAGACTTGA-T-GTGA-TCT-ACT
1 -CACTGCAACTTCAGGGAGATAAGACTTGATTACTTAGTCTGCCT
* * * *
16283135 CTACTGTAACTTCAGAGAGATAAGATCTGTGGTT--TTAATCTG-CT
1 C-ACTGCAACTTCAGGGAGATAAGA-CT-TGATTACTTAGTCTGCCT
* ** * * * * * *
16283179 CCACTGCAACTTCAAGGAGGCAGGATTTGTTTATTTAGTATGCCC
1 -CACTGCAACTTCAGGGAGATAAGACTTGATTACTTAGTCTGCCT
16283224 CACTGCAACTTCAGGGAGATAAGA-TTCGCCA-T-CTTCAGTCTGCCT
1 CACTGCAACTTCAGGGAGATAAGACTT-G--ATTACTT-AGTCTGCCT
16283269 CACTGCAACTTCA-GGAGGATAAGACTTGATTACTTAGTCTG-CT
1 CACTGCAACTTCAGGGA-GATAAGACTTGATTACTTAGTCTGCCT
* * *
16283312 CCACTGCAACTTCAGGGAGATAAGACTAGA-TGC-GA-TCTG-CT
1 -CACTGCAACTTCAGGGAGATAAGACTTGATTACTTAGTCTGCCT
* * * * *
16283353 CTCTGCAACTTCAGAGAGATAAGATCTAAGGTT--TTAATC--CACT
1 CACTGCAACTTCAGGGAGATAAGA-CT-TGATTACTTAGTCTGC-CT
* * * ** *
16283396 CCACTACAACTTCAGGAAGATAGGA-TT-ATCGGCTTTA-ACTTG-CT
1 -CACTGCAACTTCAGGGAGATAAGACTTGAT-TAC-TTAGTC-TGCCT
* * **
16283440 CCACTGCAAATTCAGGGAGATAAGA-TTTAACATCTTCAGTCTGCCT
1 -CACTGCAACTTCAGGGAGATAAGACTTGATTA-CTT-AGTCTGCCT
* *
16283486 CACTGCAACTTCA-GGAGGATAAGACTTGA-TGC-GA-TCTG-CT
1 CACTGCAACTTCAGGGA-GATAAGACTTGATTACTTAGTCTGCCT
* ** * *
16283526 CTCTGCAACTTCAGATAGATAAGA-TTCAAGGTT--TTAATC--CACT
1 CACTGCAACTTCAGGGAGATAAGACTT---GATTACTTAGTCTGC-CT
* * * **
16283569 CCACTGCAACTTCAGGAAGATAGGA-TT-ATCGACTTTAACCTG-CT
1 -CACTGCAACTTCAGGGAGATAAGACTTGAT-TAC-TTAGTCTGCCT
*
16283613 CCACTGCAACTTCAGGGAGATAAGATTTGCCA-T-CTTCAGTCTGCCT
1 -CACTGCAACTTCAGGGAGATAAGACTTG--ATTACTT-AGTCTGCCT
* * * *
16283659 CACTGCAACCTCA-GGAGGACAAGACTTGCTTGCTTAGTCTG-CT
1 CACTGCAACTTCAGGGA-GATAAGACTTGATTACTTAGTCTGCCT
* * * * *
16283702 CCATTGTAACTTCAGGGAGATAAGACTAGA-TAC-GA-TCT-ACT
1 -CACTGCAACTTCAGGGAGATAAGACTTGATTACTTAGTCTGCCT
* * * *
16283743 CTCTGCAACTTCAGAGAGATAAGATCTGTGATT--TTAATCCG-CT
1 CACTGCAACTTCAGGGAGATAAGA-CT-TGATTACTTAGTCTGCCT
** *
16283786 CCACTGCAACTTCAGGGAGATAAGA-TTG-TCGGCTTTAATCTG-CT
1 -CACTGCAACTTCAGGGAGATAAGACTTGAT-TAC-TTAGTCTGCCT
* * * * *
16283830 CCACTGTAACCTCAGAGAGATAAGATTTG-TCATCTTCAGTCTGCCT
1 -CACTGCAACTTCAGGGAGATAAGACTTGATTA-CTT-AGTCTGCCT
* * *
16283876 CACTGCAACTTCA-AGAGGATAAGACCTGCTTACTTAGTCTG-CT
1 CACTGCAACTTCAGGGA-GATAAGACTTGATTACTTAGTCTGCCT
*
16283919 CCACTGCAACTTCAAGGAGATAAGACT
1 -CACTGCAACTTCAGGGAGATAAGACT
16283946 AGATGCGATC
Statistics
Matches: 678, Mismatches: 125, Indels: 185
0.69 0.13 0.19
Matches are distributed among these distances:
39 2 0.00
40 67 0.10
41 47 0.07
42 20 0.03
43 44 0.06
44 325 0.48
45 158 0.23
46 14 0.02
48 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (44 bp):
CACTGCAACTTCAGGGAGATAAGACTTGATTACTTAGTCTGCCT
Found at i:16283352 original size:174 final size:173
Alignment explanation
Indices: 16283004--16283365 Score: 430
Period size: 174 Copynumber: 2.1 Consensus size: 173
16282994 CTCTAATCCA
* * * *
16283004 CTCCACTACAACTT-AGGGAGACAGGATTTGTTTATTTAGTATGCCCCACTGCAATTTCAGGGGG
1 CTCCACTGCAACTTCAAGGAGACAGGATTTGTTTATTTAGTATGCCCCACTGCAACTTCAGGGAG
* * ** * *
16283068 ATAAGGTTTGCTTTCTTGAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGATGTGATCTA
66 ATAAGATTCGCCATCTTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGATCTGATCTA
* * * * **
16283133 CTCTACTGTAACTTCAGAGAGATAAGATCTGTGGTTTTAATCTG
131 CTCCACTGCAACTTCAGAGAGATAAGATC-GTAGATGCAATCTG
*
16283177 CTCCACTGCAACTTCAAGGAGGCAGGATTTGTTTATTTAGTATGCCCCACTGCAACTTCAGGGAG
1 CTCCACTGCAACTTCAAGGAGACAGGATTTGTTTATTTAGTATGCCCCACTGCAACTTCAGGGAG
*
16283242 ATAAGATTCGCCATCTTCAGTCTGC-CTCACTGCAACTTC-AGGAGGATAAGACTTGATTACTTA
66 ATAAGATTCGCCATCTTCAGTCTGCTC-CACTGCAACTTCAAGGA-GATAAGACTTGA-T-CTGA
* * *
16283305 GTCTGCTCCACTGCAACTTCAGGGAGATAAGA-C-TAGATGCGATCTG
127 -TCTACTCCACTGCAACTTCAGAGAGATAAGATCGTAGATGCAATCTG
*
16283351 CT-CTCTGCAACTTCA
1 CTCCACTGCAACTTCA
16283366 GAGAGATAAG
Statistics
Matches: 161, Mismatches: 22, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
173 30 0.19
174 100 0.62
175 1 0.01
176 3 0.02
177 27 0.17
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.30
Consensus pattern (173 bp):
CTCCACTGCAACTTCAAGGAGACAGGATTTGTTTATTTAGTATGCCCCACTGCAACTTCAGGGAG
ATAAGATTCGCCATCTTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGATCTGATCTA
CTCCACTGCAACTTCAGAGAGATAAGATCGTAGATGCAATCTG
Found at i:16283389 original size:217 final size:219
Alignment explanation
Indices: 16283045--16283515 Score: 628
Period size: 217 Copynumber: 2.2 Consensus size: 219
16283035 TTATTTAGTA
* * * ** * *
16283045 TGCCCCACTGCAATTTCAGGGGGATAAGGTTTGCTTTCTTGAGTCTGCTCCACTGCAACTTCAAG
1 TGCCTCACTGCAACTTCAGGAGGATAAGACTTGATTACTTGAGTCTGCTCCACTGCAACTTCAAG
* * * **
16283110 GAGATAAGACTTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTGTGGTTTTAATC
66 GAGATAAGACTAGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATC
** * * ** * * *
16283175 TGCTCCACTGCAACTTCAAGG-AGGCAGGATT-T-GTTTATTTAGTATGCCCCACTGCAACTTCA
131 CACTCCACTACAACTTC-AGGAAGACAGGATTATCGGCT-TTAACT-TGCCCCACTGCAAATTCA
**
16283237 GGGAGATAAGATTCGCCATCTTCAGTC
193 GGGAGATAAGATTCAACATCTTCAGTC
*
16283264 TGCCTCACTGCAACTTCAGGAGGATAAGACTTGATTACTT-AGTCTGCTCCACTGCAACTTCAGG
1 TGCCTCACTGCAACTTCAGGAGGATAAGACTTGATTACTTGAGTCTGCTCCACTGCAACTTCAAG
*
16283328 GAGATAAGACTAGATGCGATCTGCTCT-CTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATC
66 GAGATAAGACTAGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATC
* *
16283392 CACTCCACTACAACTTCAGGAAGATAGGATTATCGGCTTTAACTTGCTCCACTGCAAATTCAGGG
131 CACTCCACTACAACTTCAGGAAGACAGGATTATCGGCTTTAACTTGCCCCACTGCAAATTCAGGG
*
16283457 AGATAAGATTTAACATCTTCAGTC
196 AGATAAGATTCAACATCTTCAGTC
16283481 TGCCTCACTGCAACTTCAGGAGGATAAGACTTGAT
1 TGCCTCACTGCAACTTCAGGAGGATAAGACTTGAT
16283516 GCGATCTGCT
Statistics
Matches: 221, Mismatches: 28, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
216 3 0.01
217 131 0.59
218 52 0.24
219 35 0.16
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (219 bp):
TGCCTCACTGCAACTTCAGGAGGATAAGACTTGATTACTTGAGTCTGCTCCACTGCAACTTCAAG
GAGATAAGACTAGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATC
CACTCCACTACAACTTCAGGAAGACAGGATTATCGGCTTTAACTTGCCCCACTGCAAATTCAGGG
AGATAAGATTCAACATCTTCAGTC
Found at i:16283578 original size:217 final size:215
Alignment explanation
Indices: 16283137--16284026 Score: 791
Period size: 217 Copynumber: 4.1 Consensus size: 215
16283127 GATCTACTCT
* ** * * **
16283137 ACTGTAACTTCAGAGAGATAAGATCTGTGGTTTTAATCTGCTCCACTGCAACTTCAAGG-AGGCA
1 ACTGCAACTTCAGAGAGATAAGAT-TACGGCTTTAATCCGCTCCACTGCAACTTC-AGGAAGATA
* * * *
16283201 GGATTTGTTTAT-TT-AGTATGCCCCACTGCAACTTCAGG-GAGATAAGA-TTCGCCAT-CTTCA
64 AGATTTG-TCATCTTCAGTCTGCCTCACTGCAACTTCAGGAG-GATAAGACTT-G-CATACTT-A
* * * *
16283261 GTCTGC-CTCACTGCAACTTCAGGAGGATAAGACTTGATTACTTAGTCTGCTCCACTGCAACTTC
124 GTCTGCTC-CACTGCAACTTCAGGAGGATAAGACTAGA-TAC-GA-TCTACT-CTCTGCAACTTC
* * * *** *
16283325 AGGGAGATAAGA-CTA-GATGCGATCTGCT-C
184 AGAGAGATAAGATCAAGGTTTTAATCCGCTCC
* * * * * *
16283354 TCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCACTCCACTACAACTTCAGGAAGATAG
1 ACTGCAACTTCAGAGAGATAAGAT-TACGGCTTTAATCCGCTCCACTGCAACTTCAGGAAGATAA
* * * * * *
16283419 GATTATCGGC-T-TTAACT-TG-CTCCACTGCAAATTCAGG-GAGATAAGATTTAACAT-CTTCA
65 GATT-T-GTCATCTTCAGTCTGCCT-CACTGCAACTTCAGGAG-GATAAGACTT-GCATACTT-A
* * * *
16283478 GTCTGC-CTCACTGCAACTTCAGGAGGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGAT
124 GTCTGCTC-CACTGCAACTTCAGGAGGATAAGACTAGATACGATCTACTCTCTGCAACTTCAGAG
*
16283542 AGATAAGATTCAAGGTTTTAATCCACTCC
188 AGATAAGA-TCAAGGTTTTAATCCGCTCC
* * *
16283571 ACTGCAACTTCAG-GAAGATAGGATTATCGACTTTAA-CCTGCTCCACTGCAACTTCAGGGAGAT
1 ACTGCAACTTCAGAG-AGATAAGATTA-CGGCTTTAATCC-GCTCCACTGCAACTTCAGGAAGAT
* * * * *
16283634 AAGATTTGCCATCTTCAGTCTGCCTCACTGCAACCTCAGGAGGACAAGACTTGCTTGCTTAGTCT
63 AAGATTTGTCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCATACTTAGTCT
* *
16283699 GCTCCATTGTAACTTCAGG-GAGATAAGACTAGATACGATCTACTCTCTGCAACTTCAGAGAGAT
128 GCTCCACTGCAACTTCAGGAG-GATAAGACTAGATACGATCTACTCTCTGCAACTTCAGAGAGAT
*
16283763 AAGATC-TGTGATTTTAATCCGCTCC
192 AAGATCAAG-G-TTTTAATCCGCTCC
* * * * *
16283788 ACTGCAACTTCAGGGAGATAAGATTGTCGGCTTTAATCTGCTCCACTGTAACCTCA-GAGAGATA
1 ACTGCAACTTCAGAGAGATAAGATT-ACGGCTTTAATCCGCTCCACTGCAACTTCAGGA-AGATA
* * *
16283852 AGATTTGTCATCTTCAGTCTGCCTCACTGCAACTTCAAGAGGATAAGACCTGCTTACTTAGTCTG
64 AGATTTGTCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCATACTTAGTCTG
* *
16283917 CTCCACTGCAACTTCAAGGA-GATAAGACTAGATGCGATCTACTCTCTGCAACTTCCGAGAGATA
129 CTCCACTGCAACTTC-AGGAGGATAAGACTAGATACGATCTACTCTCTGCAACTTCAGAGAGATA
16283981 AGATCCAAGGTTTTAATCCGCTCC
193 AGAT-CAAGGTTTTAATCCGCTCC
*
16284005 ACTGCAACTTCAGGGAGATAAG
1 ACTGCAACTTCAGAGAGATAAG
16284027 GCTTGGTGGC
Statistics
Matches: 570, Mismatches: 72, Indels: 62
0.81 0.10 0.09
Matches are distributed among these distances:
213 21 0.04
214 6 0.01
215 6 0.01
216 25 0.04
217 468 0.82
218 39 0.07
219 5 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (215 bp):
ACTGCAACTTCAGAGAGATAAGATTACGGCTTTAATCCGCTCCACTGCAACTTCAGGAAGATAAG
ATTTGTCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCATACTTAGTCTGCT
CCACTGCAACTTCAGGAGGATAAGACTAGATACGATCTACTCTCTGCAACTTCAGAGAGATAAGA
TCAAGGTTTTAATCCGCTCC
Found at i:16283619 original size:390 final size:389
Alignment explanation
Indices: 16282997--16283900 Score: 1169
Period size: 390 Copynumber: 2.3 Consensus size: 389
16282987 TCCATCACTC
* ** * * *
16282997 TAATCCACTCCACTACAACTT-AGGGAGACAGGATTT-GTTTATTTAGTATGCCCCACTGCAATT
1 TAATCCACTCCACTACAACTTCAGGGAGATAGGATTTCG--GCTTTAATATGCTCCACTGCAAAT
* * * * *
16283060 TCAGGGGGATAAGGTTTGCTTTCTTGAGTCTG-CTCCACTGCAACTTCAAGGA-GATAAGACTTG
64 TCAGGGAGATAAGATTTAC-ATCTTCAGTCTGCCT-CACTGCAACTTC-AGGAGGATAAGACTTG
* * ** **
16283123 ATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTGTGGTTTTAATCTGCTCCACTGCAA
126 ATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCACTCCACTGCAA
* * ** **
16283188 CTTCAAGGAGGCAGGATTTGTTTATTTAGTATGCCCCACTGCAACTTCAGGGAGATAAGATTCGC
191 CTTCAAGGAGACAGGATTTATCGATTTAACATGCCCCACTGCAACTTCAGGGAGATAAGATTCGC
* *
16283253 CATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGATTACTTAGTCTGCTCCACTG
256 CATCTTCAGTCTGCCTCACTGCAACCTCAGGAGGACAAGACTTGATTACTTAGTCTGCTCCACTG
* *
16283318 CAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAG
321 CAACTTCAGGGAGATAAGACTAGATACGATCTACTCTCTGCAACTTCAGAGAGATAAGATCTAAG
*
16283383 GTTT
386 ATTT
*
16283387 TAATCCACTCCACTACAACTTCAGGAAGATAGGATTATCGGCTTTAACT-TGCTCCACTGCAAAT
1 TAATCCACTCCACTACAACTTCAGGGAGATAGGATT-TCGGCTTTAA-TATGCTCCACTGCAAAT
16283451 TCAGGGAGATAAGATTTAACATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGAT
64 TCAGGGAGATAAGATTT-ACATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGAT
* *
16283516 GCGATCTGCTCT-CTGCAACTTCAGATAGATAAGAT-TCAAGGTTTTAATCCACTCCACTGCAAC
128 GCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCT-AAGGTTTTAATCCACTCCACTGCAAC
* * * *
16283579 TTC-AGGAAGATAGGA-TTATCGACTTTAACCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG
192 TTCAAGG-AGACAGGATTTATCGA-TTTAACATGCCCCACTGCAACTTCAGGGAGATAAGATTCG
* * *
16283642 CCATCTTCAGTCTGCCTCACTGCAACCTCAGGAGGACAAGACTTGCTTGCTTAGTCTGCTCCATT
255 CCATCTTCAGTCTGCCTCACTGCAACCTCAGGAGGACAAGACTTGATTACTTAGTCTGCTCCACT
* **
16283707 GTAACTTCAGGGAGATAAGACTAGATACGATCTACTCTCTGCAACTTCAGAGAGATAAGATCTGT
320 GCAACTTCAGGGAGATAAGACTAGATACGATCTACTCTCTGCAACTTCAGAGAGATAAGATCTAA
16283772 GATTT
385 GATTT
* * * * * **
16283777 TAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTGTCGGCTTTAATCTGCTCCACTGTAACCT
1 TAATCCACTCCACTACAACTTCAGGGAGATAGGATT-TCGGCTTTAATATGCTCCACTGCAAATT
* * *
16283842 CAGAGAGATAAGATTTGTCATCTTCAGTCTGCCTCACTGCAACTTCAAGAGGATAAGAC
65 CAGGGAGATAAGATTT-ACATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGAC
16283901 CTGCTTACTT
Statistics
Matches: 450, Mismatches: 53, Indels: 22
0.86 0.10 0.04
Matches are distributed among these distances:
389 9 0.02
390 346 0.77
391 89 0.20
392 5 0.01
393 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (389 bp):
TAATCCACTCCACTACAACTTCAGGGAGATAGGATTTCGGCTTTAATATGCTCCACTGCAAATTC
AGGGAGATAAGATTTACATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGATGCG
ATCTACTCTACTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCACTCCACTGCAACTTCA
AGGAGACAGGATTTATCGATTTAACATGCCCCACTGCAACTTCAGGGAGATAAGATTCGCCATCT
TCAGTCTGCCTCACTGCAACCTCAGGAGGACAAGACTTGATTACTTAGTCTGCTCCACTGCAACT
TCAGGGAGATAAGACTAGATACGATCTACTCTCTGCAACTTCAGAGAGATAAGATCTAAGATTT
Found at i:16283685 original size:173 final size:172
Alignment explanation
Indices: 16283269--16283686 Score: 632
Period size: 173 Copynumber: 2.4 Consensus size: 172
16283259 CAGTCTGCCT
*
16283269 CACTGCAACTTCA-GGAGGATAAGACTTG-ATTACTT-AGTCTG-CTCCACTGCAACTTCAGG-G
1 CACTGCAACTTCAGGGA-GATAAGATTTGCA-T-CTTCAGTCTGCCT-CACTGCAACTTCAGGAG
*
16283329 AGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCA
62 -GATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCA
* *
16283394 CTCCACTACAACTTCAGGAAGATAGGATTATCGGCTTTAACTTGCTC
126 CTCCACTACAACTTCAGGAAGATAGGATTATCGACTTTAACCTGCTC
* *
16283441 CACTGCAAATTCAGGGAGATAAGATTTAACATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGAT
1 CACTGCAACTTCAGGGAGATAAGATTT-GCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGAT
*
16283506 AAGACTTGATGCGATCTGCTCTCTGCAACTTCAGATAGATAAGAT-TCAAGGTTTTAATCCACTC
65 AAGACTTGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCT-AAGGTTTTAATCCACTC
*
16283570 CACTGCAACTTCAGGAAGATAGGATTATCGACTTTAACCTGCTC
129 CACTACAACTTCAGGAAGATAGGATTATCGACTTTAACCTGCTC
* *
16283614 CACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACCTCAGGAGGAC
1 CACTGCAACTTCAGGGAGATAAGATTTG-CATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGAT
16283679 AAGACTTG
65 AAGACTTG
16283687 CTTGCTTAGT
Statistics
Matches: 226, Mismatches: 12, Indels: 15
0.89 0.05 0.06
Matches are distributed among these distances:
172 25 0.11
173 197 0.87
174 4 0.02
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (172 bp):
CACTGCAACTTCAGGGAGATAAGATTTGCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATA
AGACTTGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCACTCCA
CTACAACTTCAGGAAGATAGGATTATCGACTTTAACCTGCTC
Found at i:16283751 original size:173 final size:172
Alignment explanation
Indices: 16283269--16283812 Score: 590
Period size: 173 Copynumber: 3.2 Consensus size: 172
16283259 CAGTCTGCCT
* * * *
16283269 CACTGCAACTTCA-GGAGGATAAGACTTGA-TTACTT-AGTCTG-CTCCACTGCAACTTCAGG-G
1 CACTGCAACTTCAGGGA-GATAAGATTTAACAT-CTTCAGTCTGCCT-CACTGCAACCTCAGGAG
* * * **
16283329 AGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCA
63 -GACAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATC-AAGGATACAATCCA
* * *
16283394 CTCCACTACAACTTCAGGAAGATAGGATTATCGGCTTTAACTTGCTC
126 CTCCACTGCAACTTCAGGAAGATAGGATTATCGACTTTAACCTGCTC
* * *
16283441 CACTGCAAATTCAGGGAGATAAGATTTAACATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGAT
1 CACTGCAACTTCAGGGAGATAAGATTTAACATCTTCAGTCTGCCTCACTGCAACCTCAGGAGGAC
* * **
16283506 AAGACTTGATGCGATCTGCTCTCTGCAACTTCAGATAGATAAGATTCAAGGTTTTAATCCACTCC
66 AAGACTTGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGA-TCAAGGATACAATCCACTCC
16283571 ACTGCAACTTCAGGAAGATAGGATTATCGACTTTAACCTGCTC
130 ACTGCAACTTCAGGAAGATAGGATTATCGACTTTAACCTGCTC
**
16283614 CACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACCTCAGGAGGAC
1 CACTGCAACTTCAGGGAGATAAGATTTAACATCTTCAGTCTGCCTCACTGCAACCTCAGGAGGAC
* * * * * * *
16283679 AAGACTTGCTTGCTTAGTCTGCTC-CATTGTAACTTCAGGGAGATAAGA-CTA-GATACGATCTA
66 AAGACTTG-ATGC-GA-TCTGCTCTC--TGCAACTTCAGAGAGATAAGATCAAGGATACAATCCA
* * * *
16283741 CT-CTCTGCAACTTCA-GAGAGATAAGATCTGT-GATTTTAATCC-GCTC
126 CTCCACTGCAACTTCAGGA-AGATAGGAT-TATCGACTTTAA-CCTGCTC
16283787 CACTGCAACTTCAGGGAGATAAGATT
1 CACTGCAACTTCAGGGAGATAAGATT
16283813 GTCGGCTTTA
Statistics
Matches: 329, Mismatches: 29, Indels: 27
0.85 0.08 0.07
Matches are distributed among these distances:
172 27 0.08
173 253 0.77
174 20 0.06
175 4 0.01
176 7 0.02
177 18 0.05
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (172 bp):
CACTGCAACTTCAGGGAGATAAGATTTAACATCTTCAGTCTGCCTCACTGCAACCTCAGGAGGAC
AAGACTTGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCAAGGATACAATCCACTCCA
CTGCAACTTCAGGAAGATAGGATTATCGACTTTAACCTGCTC
Found at i:16283899 original size:173 final size:173
Alignment explanation
Indices: 16283402--16283900 Score: 475
Period size: 173 Copynumber: 2.9 Consensus size: 173
16283392 CACTCCACTA
* * * *
16283402 CAACTTCAGGAAGATAGGATTATCGGCTTTAACTTGCTCCACTGCAAATTCAGGGAGATAAGATT
1 CAACTTCAGGAAGATAAGATTATCGACTTTAACCTGCTCCACTGCAACTTCAGGGAGATAAGATT
** * * * * * *
16283467 TAACATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTG-ATGC-GA-TCTGCT-CT
66 TGCCAGCTTCAATCTGCCTCACTGCAACCTCAGGAGGACAAGACTTGCATGCTTAGTCTGCTCCA
* * * *** * *
16283528 CTGCAACTTCAGATAGATAAGATTCAAGGTTTTAATCCACTCCACTG
131 CTGCAACTTCAGAGAGATAAGA--CTA-GATACGATCTACT-CTCTG
*
16283575 CAACTTCAGGAAGATAGGATTATCGACTTTAACCTGCTCCACTGCAACTTCAGGGAGATAAGATT
1 CAACTTCAGGAAGATAAGATTATCGACTTTAACCTGCTCCACTGCAACTTCAGGGAGATAAGATT
* * *
16283640 TGCCATCTTCAGTCTGCCTCACTGCAACCTCAGGAGGACAAGACTTGCTTGCTTAGTCTGCTCCA
66 TGCCAGCTTCAATCTGCCTCACTGCAACCTCAGGAGGACAAGACTTGCATGCTTAGTCTGCTCCA
* * *
16283705 TTGTAACTTCAGGGAGATAAGACTAGATACGATCTACTCTCTG
131 CTGCAACTTCAGAGAGATAAGACTAGATACGATCTACTCTCTG
* *
16283748 CAACTTCA-GAGAGATAAGATCTGT-GATTTTAATCC-GCTCCACTGCAACTTCAGGGAGATAAG
1 CAACTTCAGGA-AGATAAGAT-TATCGACTTTAA-CCTGCTCCACTGCAACTTCAGGGAGATAAG
* * * * * *
16283810 A-TTGTCGGCTTTAATCTG-CTCCACTGTAACCTCA-GAGAGATAAGATTTGTCAT-CTTCAGTC
63 ATTTGCCAGCTTCAATCTGCCT-CACTGCAACCTCAGGAG-GACAAGACTTG-CATGCTT-AGTC
16283871 TGC-CTCACTGCAACTTCA-AGAGGATAAGAC
124 TGCTC-CACTGCAACTTCAGAGA-GATAAGAC
16283901 CTGCTTACTT
Statistics
Matches: 277, Mismatches: 36, Indels: 26
0.82 0.11 0.08
Matches are distributed among these distances:
171 5 0.02
172 41 0.15
173 188 0.68
174 15 0.05
175 3 0.01
176 6 0.02
177 19 0.07
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (173 bp):
CAACTTCAGGAAGATAAGATTATCGACTTTAACCTGCTCCACTGCAACTTCAGGGAGATAAGATT
TGCCAGCTTCAATCTGCCTCACTGCAACCTCAGGAGGACAAGACTTGCATGCTTAGTCTGCTCCA
CTGCAACTTCAGAGAGATAAGACTAGATACGATCTACTCTCTG
Found at i:16283968 original size:390 final size:389
Alignment explanation
Indices: 16283223--16284026 Score: 1075
Period size: 390 Copynumber: 2.1 Consensus size: 389
16283213 TTAGTATGCC
*
16283223 CCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGA
1 CCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTGCAACCTCAGGAGGA
* * *
16283288 TAAGACTTGATTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCT
66 CAAGACTTGATTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATACGATCTACT
*
16283353 CTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCACTCCACTACAACTTCAGGAAGATA
131 CTCTGCAACTTCAGAGAGATAAGATCTAAGATTTTAATCCACTCCACTACAACTTCAGGAAGATA
* * *
16283418 GGATTATCGGCTTTAACTTGCTCCACTGCAAATTCAGGGAGATAAGATTTAACATCTTCAGTCTG
196 AGATTATCGGCTTTAACTTGCTCCACTGCAAACTCAGAGAGATAAGATTTAACATCTTCAGTCTG
* * * * *
16283483 CCTCACTGCAACTTCAGGAGGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGATAGATAA
261 CCTCACTGCAACTTCAAGAGGATAAGACCTGATACGATCTGCTCACTGCAACTTCAGAGAGATAA
* ** * * * *
16283548 GATTCAAGGTTTTAATCCACTCCACTGCAACTTCAG-GAAGATAGGAT-TATCGACTTTAA-CCT
326 GA-TCAAGGATGCAATCCACTCCACTGCAACTTCCGAG-AGATAAGATCCA-AGACTTTAATCC-
16283610 GCT
387 GCT
*
16283613 CCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACCTCAGGAGGA
1 CCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTGCAACCTCAGGAGGA
* * * *
16283678 CAAGACTTGCTTGCTTAGTCTGCTCCATTGTAACTTCAGGGAGATAAGACTAGATACGATCTACT
66 CAAGACTTGATTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATACGATCTACT
** * * *
16283743 CTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATA
131 CTCTGCAACTTCAGAGAGATAAGATCTAAGATTTTAATCCACTCCACTACAACTTCAGGAAGATA
* * * **
16283808 AGATTGTCGGCTTTAA-TCTGCTCCACTGTAACCTCAGAGAGATAAGATTTGTCATCTTCAGTCT
196 AGATTATCGGCTTTAACT-TGCTCCACTGCAAACTCAGAGAGATAAGATTTAACATCTTCAGTCT
* *
16283872 GCCTCACTGCAACTTCAAGAGGATAAGACCTGCTTACTTAGTCTGCTCCACTGCAACTTCA-AGG
260 GCCTCACTGCAACTTCAAGAGGATAAGACCTG-ATAC-GA-TCTGCT-CACTGCAACTTCAGA-G
* * * * **
16283936 AGATAAGA-CTA-GATGCGATCTACT-CTCTGCAACTTCCGAGAGATAAGATCCAAGGTTTTAAT
320 AGATAAGATCAAGGATGCAATCCACTCCACTGCAACTTCCGAGAGATAAGATCCAAGACTTTAAT
16283998 CCGCT
385 CCGCT
16284003 CCACTGCAACTTCAGGGAGATAAG
1 CCACTGCAACTTCAGGGAGATAAG
16284027 GCTTGGTGGC
Statistics
Matches: 362, Mismatches: 43, Indels: 18
0.86 0.10 0.04
Matches are distributed among these distances:
389 1 0.00
390 317 0.88
391 14 0.04
392 3 0.01
393 7 0.02
394 20 0.06
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.28
Consensus pattern (389 bp):
CCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTGCAACCTCAGGAGGA
CAAGACTTGATTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATACGATCTACT
CTCTGCAACTTCAGAGAGATAAGATCTAAGATTTTAATCCACTCCACTACAACTTCAGGAAGATA
AGATTATCGGCTTTAACTTGCTCCACTGCAAACTCAGAGAGATAAGATTTAACATCTTCAGTCTG
CCTCACTGCAACTTCAAGAGGATAAGACCTGATACGATCTGCTCACTGCAACTTCAGAGAGATAA
GATCAAGGATGCAATCCACTCCACTGCAACTTCCGAGAGATAAGATCCAAGACTTTAATCCGCT
Found at i:16284151 original size:132 final size:132
Alignment explanation
Indices: 16284014--16284425 Score: 655
Period size: 132 Copynumber: 3.1 Consensus size: 132
16284004 CACTGCAACT
* * * *
16284014 TCAGGGAGATAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATTTTGGAAAGATATGATTTGCCG
1 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCG
* *
16284079 TCTTCGATCTGCTCCATTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCT
66 TCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCT
16284144 GC
131 GC
* *
16284146 TCAGGGAGACAATGCTTGGTGGCTTAAATCTGCTTCCCATTATCTTGGAAAGATAAGATTTGTCG
1 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCG
* * * *
16284211 TCTTCAATCTTCTCCACTACTACTTAGGGAGATAAAATCTACAATCTTCAACCTACTCCGCTGCT
66 TCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCT
16284276 GC
131 GC
*
16284278 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTATCG
1 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCG
* * * *
16284343 TCCTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACGATCCTCAACCTACTCCGCTGTT
66 TCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCT
16284408 GC
131 GC
*
16284410 TCA-AGAGACAAGGCTT
1 TCAGGGAGACAAGGCTT
16284426 AGTGTTTCAC
Statistics
Matches: 257, Mismatches: 23, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
131 12 0.05
132 245 0.95
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.30
Consensus pattern (132 bp):
TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCG
TCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCT
GC
Found at i:16289535 original size:32 final size:33
Alignment explanation
Indices: 16289478--16289539 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 33
16289468 AAATAAGATA
* * *
16289478 AAAATAGAAAAGTTTGTATATGTATATATTTAC
1 AAAATAAAAAAGTATGTATAAGTATATATTTAC
16289511 AAAATAAAAAAG-ATGTATAAGTATATATT
1 AAAATAAAAAAGTATGTATAAGTATATATT
16289540 GGTAAATCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 15 0.58
33 11 0.42
ACGTcount: A:0.52, C:0.02, G:0.11, T:0.35
Consensus pattern (33 bp):
AAAATAAAAAAGTATGTATAAGTATATATTTAC
Found at i:16289784 original size:23 final size:23
Alignment explanation
Indices: 16289758--16289867 Score: 91
Period size: 23 Copynumber: 4.7 Consensus size: 23
16289748 ATATATATAT
16289758 TATATAAAAAAATGCGTGCATAC
1 TATATAAAAAAATGCGTGCATAC
*
16289781 TATATAAAAAAATGCAT--ATA-
1 TATATAAAAAAATGCGTGCATAC
* * * *
16289801 TATTATATAAAAACGCCTGCATGC
1 TA-TATAAAAAAATGCGTGCATAC
* * *
16289825 TATATATAAAAATGCGTATGTATAT
1 TATATAAAAAAATGCG--TGCATAC
16289850 TATTATAAAAAAATGCGT
1 TA-TATAAAAAAATGCGT
16289868 ATGTATATAT
Statistics
Matches: 69, Mismatches: 11, Indels: 13
0.74 0.12 0.14
Matches are distributed among these distances:
20 2 0.03
21 15 0.22
23 30 0.43
24 3 0.04
25 6 0.09
26 13 0.19
ACGTcount: A:0.47, C:0.10, G:0.11, T:0.32
Consensus pattern (23 bp):
TATATAAAAAAATGCGTGCATAC
Found at i:16289790 original size:46 final size:46
Alignment explanation
Indices: 16289735--16289867 Score: 141
Period size: 46 Copynumber: 2.9 Consensus size: 46
16289725 TAGACGTATG
16289735 CTATA-AAAAAAGCATATATATATTATATAAAAAAATGCGTGCATA
1 CTATATAAAAAAGCATATATATATTATATAAAAAAATGCGTGCATA
* * *
16289780 CTATATAAAAAA--ATGCATATATATTATAT--AAAAACGCCTGCATG
1 CTATATAAAAAAGCAT--ATATATATTATATAAAAAAATGCGTGCATA
* *
16289824 CTATATATAAAAATGCGTATGTATATTATTATAAAAAAATGCGT
1 CTATATA-AAAAA-GCATATATATATTA-TATAAAAAAATGCGT
16289868 ATGTATATAT
Statistics
Matches: 71, Mismatches: 7, Indels: 16
0.76 0.07 0.17
Matches are distributed among these distances:
44 21 0.30
45 10 0.14
46 28 0.39
47 3 0.04
48 1 0.01
49 8 0.11
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.32
Consensus pattern (46 bp):
CTATATAAAAAAGCATATATATATTATATAAAAAAATGCGTGCATA
Found at i:16289875 original size:46 final size:44
Alignment explanation
Indices: 16289736--16289878 Score: 107
Period size: 44 Copynumber: 3.1 Consensus size: 44
16289726 AGACGTATGC
* *
16289736 TATA-AAAAAAGCATATATATATTA-TATAAAAAAATGCGTGCATACTA
1 TATATAAAAATGC-TAT-TATATTATTATAAAAAAATGCGT--AT-GTA
* * * *
16289783 TATAAAAAAATGC-A-TATA-TATTATATAAAAACGCCTGCATGCTA
1 TATATAAAAATGCTATTATATTATTATAAAAAAATG-C-GTATG-TA
16289827 TATATAAAAATGCGTATGTATATTATTATAAAAAAATGCGTATGTA
1 TATATAAAAATGC-TAT-TATATTATTATAAAAAAATGCGTATGTA
16289873 TATATA
1 TATATA
16289879 GTAATAATAA
Statistics
Matches: 77, Mismatches: 9, Indels: 21
0.72 0.08 0.20
Matches are distributed among these distances:
43 2 0.03
44 30 0.39
45 1 0.01
46 11 0.14
47 8 0.10
48 12 0.16
49 13 0.17
ACGTcount: A:0.49, C:0.08, G:0.10, T:0.33
Consensus pattern (44 bp):
TATATAAAAATGCTATTATATTATTATAAAAAAATGCGTATGTA
Found at i:16290161 original size:20 final size:22
Alignment explanation
Indices: 16290122--16290162 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
16290112 TTTTTTTCTA
*
16290122 AATCGTAAATAAGTAAAAAAAT
1 AATCGTAAATAAGAAAAAAAAT
16290144 AATCG-AAA-AAGAAAAAAAA
1 AATCGTAAATAAGAAAAAAAA
16290163 AAAGAAAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 3 0.17
22 5 0.28
ACGTcount: A:0.71, C:0.05, G:0.10, T:0.15
Consensus pattern (22 bp):
AATCGTAAATAAGAAAAAAAAT
Found at i:16290376 original size:23 final size:22
Alignment explanation
Indices: 16290333--16290390 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
16290323 AAAGGGTATC
* *
16290333 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
16290354 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
16290377 TACATATCATATCT
1 TACAAATCATATCT
16290391 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:16290393 original size:19 final size:19
Alignment explanation
Indices: 16290346--16290443 Score: 106
Period size: 19 Copynumber: 4.8 Consensus size: 19
16290336 AAATTAAATC
*
16290346 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
16290366 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
*
16290388 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
*
16290409 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
16290428 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
16290444 CTCGAAGATT
Statistics
Matches: 69, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
19 33 0.48
21 18 0.26
22 7 0.10
23 11 0.16
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:16290406 original size:21 final size:21
Alignment explanation
Indices: 16290380--16290442 Score: 112
Period size: 21 Copynumber: 3.1 Consensus size: 21
16290370 CTAAGATTAC
16290380 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
16290401 ATATCATATCTAAGATTGC--
1 ATATCATATCTAAGATTGCAT
16290420 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
16290441 AT
1 AT
16290443 CCTCGAAGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
19 19 0.47
21 21 0.52
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:16293857 original size:124 final size:123
Alignment explanation
Indices: 16293502--16293907 Score: 604
Period size: 120 Copynumber: 3.3 Consensus size: 123
16293492 CCCAAACATG
*
16293502 CTACTGTAGCAAAAGCGCGTCCACGTGGAAGCGATTTCAAAAATTCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAAAAATTCTTCT-ATAAAGCATCCTGC
* *
16293567 TTAAAGCGTTTTTTATACTATTTGCTCAGAAACATCAACTCGAAATTATTTTTTAGGAC
65 TTAAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCAGGAC
* * * * *
16293626 CTACTATAGCAAAAGTGCGTCTATGTGGGAGCGATTTCAAAAATTCTTC--T-AAGCATCTTGCT
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAAAAATTCTTCTATAAAGCATCCTGCT
*
16293688 TAAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTACTTTTCAGGA-
66 TAAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCAGGAC
* *
16293745 CTAACTGTAGCAAAAGCGCGTCTACGTAGGAGCGATTTCAAAAATTCTTCTTATAAAGCATCCTG
1 CT-ACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAAAAATTCTTC-TATAAAGCATCCTG
* * *
16293810 CTTGAAGCGTTTTTTATACTATTTGCTTAGAAACGTCAACTCAAAATTATTTTTTCAGGAC
64 CTTAAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTA-TTTTTCAGGAC
* *
16293871 CTACTGTATCAAAAACGCGTCCACGTGGGAGCGATTT
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTT
16293908 TCTTAATAAA
Statistics
Matches: 253, Mismatches: 22, Indels: 13
0.88 0.08 0.05
Matches are distributed among these distances:
119 2 0.01
120 108 0.43
121 1 0.00
123 1 0.00
124 99 0.39
125 40 0.16
126 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.33
Consensus pattern (123 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAAAAATTCTTCTATAAAGCATCCTGCT
TAAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCAGGAC
Found at i:16301355 original size:18 final size:18
Alignment explanation
Indices: 16301332--16301403 Score: 56
Period size: 18 Copynumber: 4.0 Consensus size: 18
16301322 GCCACAACCA
16301332 CCACAGCAGCAGCCTCAG
1 CCACAGCAGCAGCCTCAG
* * * *
16301350 CCACAGCCGCA-TCTTATT
1 CCACAGCAGCAGCCTCA-G
*
16301368 CAACAGCAGCAGCCTCAG
1 CCACAGCAGCAGCCTCAG
* **
16301386 CCTCAGCCTCAGCCTCAG
1 CCACAGCAGCAGCCTCAG
16301404 TCTCTGTCTC
Statistics
Matches: 39, Mismatches: 13, Indels: 4
0.70 0.23 0.07
Matches are distributed among these distances:
17 3 0.08
18 33 0.85
19 3 0.08
ACGTcount: A:0.25, C:0.43, G:0.18, T:0.14
Consensus pattern (18 bp):
CCACAGCAGCAGCCTCAG
Found at i:16301386 original size:6 final size:6
Alignment explanation
Indices: 16301381--16301477 Score: 149
Period size: 6 Copynumber: 16.2 Consensus size: 6
16301371 CAGCAGCAGC
* * * * *
16301381 CTCAGC CTCAGC CTCAGC CTCAGT CTCTGT CTCTGT CTCAGT CTCAGT
1 CTCAGT CTCAGT CTCAGT CTCAGT CTCAGT CTCAGT CTCAGT CTCAGT
16301429 CTCAGT CTCAGT CTCAGT CTCAGT CTCAGT CTCAGT CTCAGT CTCAGT
1 CTCAGT CTCAGT CTCAGT CTCAGT CTCAGT CTCAGT CTCAGT CTCAGT
16301477 C
1 C
16301478 ACATTCGCAG
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 88 1.00
ACGTcount: A:0.14, C:0.37, G:0.16, T:0.32
Consensus pattern (6 bp):
CTCAGT
Found at i:16301494 original size:6 final size:6
Alignment explanation
Indices: 16301485--16301511 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
16301475 GTCACATTCG
16301485 CAGCCA CAGCCA CAGCCA CAGCCA CAG
1 CAGCCA CAGCCA CAGCCA CAGCCA CAG
16301512 GCACCTCCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.48, G:0.19, T:0.00
Consensus pattern (6 bp):
CAGCCA
Found at i:16308351 original size:20 final size:20
Alignment explanation
Indices: 16308288--16308351 Score: 58
Period size: 20 Copynumber: 3.1 Consensus size: 20
16308278 GCATCATAGA
16308288 TGCATAACAGGGGCACCGAAG
1 TGCA-AACAGGGGCACCGAAG
* * * *
16308309 TGTAGACAGGGGTA-CAAATG
1 TGCAAACAGGGGCACCGAA-G
*
16308329 TGCAAACAGGGGCACCGTAG
1 TGCAAACAGGGGCACCGAAG
16308349 TGC
1 TGC
16308352 GAATAGGAAC
Statistics
Matches: 32, Mismatches: 9, Indels: 5
0.70 0.20 0.11
Matches are distributed among these distances:
19 3 0.09
20 24 0.75
21 5 0.16
ACGTcount: A:0.31, C:0.20, G:0.34, T:0.14
Consensus pattern (20 bp):
TGCAAACAGGGGCACCGAAG
Found at i:16310008 original size:124 final size:124
Alignment explanation
Indices: 16309788--16310037 Score: 482
Period size: 124 Copynumber: 2.0 Consensus size: 124
16309778 ACAACCTTAG
16309788 TAACACTCCGTAAATATCTCAATTTATAGAAACAAGGTCCTAATACCTCATTTTCTAAATGGGTC
1 TAACACTCCGTAAATATCTCAATTTATAGAAACAAGGTCCTAATACCTCATTTTCTAAATGGGTC
16309853 CAACCACTTGAACCTAATTGTTCTTCCATTTAACCAAAAATCATTAAATTAAAATTTAT
66 CAACCACTTGAACCTAATTGTTCTTCCATTTAACCAAAAATCATTAAATTAAAATTTAT
* *
16309912 TAACACTCCGTAAATATCTCAATTTATAGAAACGAGGTTCTAATACCTCATTTTCTAAATGGGTC
1 TAACACTCCGTAAATATCTCAATTTATAGAAACAAGGTCCTAATACCTCATTTTCTAAATGGGTC
16309977 CAACCACTTGAACCTAATTGTTCTTCCATTTAACCAAAAATCATTAAATTAAAATTTAT
66 CAACCACTTGAACCTAATTGTTCTTCCATTTAACCAAAAATCATTAAATTAAAATTTAT
16310036 TA
1 TA
16310038 TTACACCATT
Statistics
Matches: 124, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
124 124 1.00
ACGTcount: A:0.38, C:0.20, G:0.08, T:0.34
Consensus pattern (124 bp):
TAACACTCCGTAAATATCTCAATTTATAGAAACAAGGTCCTAATACCTCATTTTCTAAATGGGTC
CAACCACTTGAACCTAATTGTTCTTCCATTTAACCAAAAATCATTAAATTAAAATTTAT
Found at i:16315746 original size:29 final size:28
Alignment explanation
Indices: 16315702--16315774 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 28
16315692 ACGGTCATCA
*
16315702 AATATGAAAAGAGATACCTTCAGCTATC
1 AATATGAAAAGGGATACCTTCAGCTATC
* *
16315730 GAATATGAAAAGGGATAGCTTCGGCTATC
1 -AATATGAAAAGGGATACCTTCAGCTATC
16315759 AATTATGAAAAGGGAT
1 AA-TATGAAAAGGGAT
16315775 GGTGATGACC
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 2 0.05
29 38 0.95
ACGTcount: A:0.41, C:0.12, G:0.22, T:0.25
Consensus pattern (28 bp):
AATATGAAAAGGGATACCTTCAGCTATC
Found at i:16315788 original size:29 final size:29
Alignment explanation
Indices: 16315756--16315923 Score: 103
Period size: 29 Copynumber: 5.8 Consensus size: 29
16315746 AGCTTCGGCT
16315756 ATCAATTATGAAAAGGGATGGTGATGACC
1 ATCAATTATGAAAAGGGATGGTGATGACC
* *** *
16315785 ATCAACTATGAAAATTCATGTTGATGACC
1 ATCAATTATGAAAAGGGATGGTGATGACC
* * * *
16315814 ATC-ATTAAGCAAAAGGGATAGCT--TCGGCT
1 ATCAATTATG-AAAAGGGAT-GGTGAT-GACC
* * *
16315843 ATCGAA-TATGAAAAGGGATAGCT-TTAACC
1 ATC-AATTATGAAAAGGGAT-GGTGATGACC
* * *
16315872 ATCGATTATGAAAAGGGATGGTGACGATC
1 ATCAATTATGAAAAGGGATGGTGATGACC
*
16315901 ATCAATTAATGAAAATGGATGGT
1 ATCAATT-ATGAAAAGGGATGGT
16315924 TTCGACCATT
Statistics
Matches: 105, Mismatches: 25, Indels: 17
0.71 0.17 0.12
Matches are distributed among these distances:
28 8 0.08
29 76 0.72
30 20 0.19
31 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.26
Consensus pattern (29 bp):
ATCAATTATGAAAAGGGATGGTGATGACC
Found at i:16315904 original size:87 final size:88
Alignment explanation
Indices: 16315734--16315946 Score: 218
Period size: 87 Copynumber: 2.4 Consensus size: 88
16315724 GCTATCGAAT
* *
16315734 ATGAAAAGGGATAGCTTCGGCTATC-AATTATGAAAAGGGATGGTGATGACCATCAACTATGAAA
1 ATGAAAAGGGATAGCTTCGGCTATCGAA-TATGAAAAGGGATGCTGATAACCATCAACTATGAAA
** * *
16315798 ATTCATGTTGATGACCATC-ATTA
65 AGGCATGGTGACGACCATCAATTA
* * *
16315821 A-GCAAAAGGGATAGCTTCGGCTATCGAATATGAAAAGGGATAGCT-TTAACCATCGATTATGAA
1 ATG-AAAAGGGATAGCTTCGGCTATCGAATATGAAAAGGGAT-GCTGATAACCATCAACTATGAA
* *
16315884 AAGGGATGGTGACGATCATCAATTA
64 AAGGCATGGTGACGACCATCAATTA
* * * * * *
16315909 ATGAAAATGGATGGTTTCGACCATTGAATATGAAAAGG
1 ATGAAAAGGGATAGCTTCGGCTATCGAATATGAAAAGG
16315947 TATGGTTACA
Statistics
Matches: 104, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
86 1 0.01
87 64 0.62
88 38 0.37
89 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.26
Consensus pattern (88 bp):
ATGAAAAGGGATAGCTTCGGCTATCGAATATGAAAAGGGATGCTGATAACCATCAACTATGAAAA
GGCATGGTGACGACCATCAATTA
Found at i:16318449 original size:21 final size:21
Alignment explanation
Indices: 16318423--16318465 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
16318413 CATAAATGAG
16318423 TAAGTTTATTAATGTCGCACA
1 TAAGTTTATTAATGTCGCACA
16318444 TAAGTTTATTAATGTCGCACA
1 TAAGTTTATTAATGTCGCACA
16318465 T
1 T
16318466 TTATTGACCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.40
Consensus pattern (21 bp):
TAAGTTTATTAATGTCGCACA
Found at i:16325679 original size:15 final size:17
Alignment explanation
Indices: 16325643--16325683 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
16325633 ATCTCACAAC
*
16325643 CTATAGTTTTCATAATT
1 CTATAGTTTTCATAACT
16325660 CTATAGTTTT-A-AACT
1 CTATAGTTTTCATAACT
16325675 CTATAGTTT
1 CTATAGTTT
16325684 CACATGTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 12 0.52
16 1 0.04
17 10 0.43
ACGTcount: A:0.29, C:0.12, G:0.07, T:0.51
Consensus pattern (17 bp):
CTATAGTTTTCATAACT
Found at i:16348212 original size:29 final size:29
Alignment explanation
Indices: 16348180--16348305 Score: 123
Period size: 29 Copynumber: 4.4 Consensus size: 29
16348170 CCATCGAATA
*
16348180 TGAAAAAGGATAGCTTTGGCTATCAAATG
1 TGAAAAGGGATAGCTTTGGCTATCAAATG
*
16348209 TGAAAAGGGATAG-TTTCGTCTATCGAAA--
1 TGAAAAGGGATAGCTTT-GGCTATC-AAATG
* *
16348237 TGAAAAGGGATAACTTTGGCTATCGAATG
1 TGAAAAGGGATAGCTTTGGCTATCAAATG
* * * * * *
16348266 TGGAAAGGGATAGCCTCGGCTATCGATTA
1 TGAAAAGGGATAGCTTTGGCTATCAAATG
16348295 TGAAAAGGGAT
1 TGAAAAGGGAT
16348306 GGTAACGACC
Statistics
Matches: 80, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
27 2 0.03
28 21 0.26
29 54 0.68
30 3 0.04
ACGTcount: A:0.35, C:0.11, G:0.28, T:0.26
Consensus pattern (29 bp):
TGAAAAGGGATAGCTTTGGCTATCAAATG
Found at i:16348259 original size:57 final size:57
Alignment explanation
Indices: 16348172--16348305 Score: 178
Period size: 57 Copynumber: 2.3 Consensus size: 57
16348162 GGTGACGACC
* * ** *
16348172 ATCGAATATGAAAAAGGATAGCTTTGGCTATCAAATGTGAAAAGGGATAGTTTCGTCT
1 ATCGAA-ATGAAAAGGGATAACTTTGGCTATCAAATGTGAAAAGGGATAGCCTCGGCT
* *
16348230 ATCGAAATGAAAAGGGATAACTTTGGCTATCGAATGTGGAAAGGGATAGCCTCGGCT
1 ATCGAAATGAAAAGGGATAACTTTGGCTATCAAATGTGAAAAGGGATAGCCTCGGCT
*
16348287 ATCGATTATGAAAAGGGAT
1 ATCGA-AATGAAAAGGGAT
16348306 GGTAACGACC
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
57 49 0.73
58 18 0.27
ACGTcount: A:0.36, C:0.11, G:0.27, T:0.26
Consensus pattern (57 bp):
ATCGAAATGAAAAGGGATAACTTTGGCTATCAAATGTGAAAAGGGATAGCCTCGGCT
Found at i:16348330 original size:30 final size:29
Alignment explanation
Indices: 16348287--16348378 Score: 112
Period size: 29 Copynumber: 3.1 Consensus size: 29
16348277 AGCCTCGGCT
* *
16348287 ATCGATTATGAAAAGGGATGGTAACGACC
1 ATCGATTATGAAAAAGGATGGTTACGACC
* *
16348316 ATCGATTAATGAAAAATGATGGTTTCGACC
1 ATCGATT-ATGAAAAAGGATGGTTACGACC
* * *
16348346 ATCGAATATAAAAAAGGATGGTTACAACC
1 ATCGATTATGAAAAAGGATGGTTACGACC
16348375 ATCG
1 ATCG
16348379 TTTAACACAC
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
29 29 0.55
30 24 0.45
ACGTcount: A:0.40, C:0.14, G:0.22, T:0.24
Consensus pattern (29 bp):
ATCGATTATGAAAAAGGATGGTTACGACC
Found at i:16352137 original size:2 final size:2
Alignment explanation
Indices: 16352130--16352164 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
16352120 TGTGTATTTA
16352130 AG AG AG 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 AG AG AG A
16352165 AATCTCTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:16368998 original size:50 final size:50
Alignment explanation
Indices: 16368940--16369182 Score: 308
Period size: 50 Copynumber: 4.8 Consensus size: 50
16368930 ATTTGGGTAA
* * *
16368940 AGAGGTCCCAAGTAAGACCATGTCTGGGACATGACGTTGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* * *
16368990 AGAGGTCCCATGTAATACCATGTTTGGAACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* *
16369040 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGACACTGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* * * * * *
16369090 AGAGGTCTCC-CGTAAGACCATGTATGGGACATGGCATGGGCACTGATATG
1 AGAGGTC-CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** *
16369140 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
16369183 TGTTATTATC
Statistics
Matches: 167, Mismatches: 23, Indels: 5
0.86 0.12 0.03
Matches are distributed among these distances:
50 134 0.80
51 33 0.20
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:16369775 original size:19 final size:19
Alignment explanation
Indices: 16369751--16369825 Score: 87
Period size: 19 Copynumber: 3.8 Consensus size: 19
16369741 AATCTTCGAG
*
16369751 GATATGTAATCTTAGATAA
1 GATATGCAATCTTAGATAA
16369770 GATATGCAATCTTAGATATGA
1 GATATGCAATCTTAGATA--A
* *
16369791 TATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAA
* *
16369810 GATATGTAATTTTAGA
1 GATATGCAATCTTAGA
16369826 AGATATGATT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
19 30 0.62
21 18 0.38
ACGTcount: A:0.39, C:0.07, G:0.16, T:0.39
Consensus pattern (19 bp):
GATATGCAATCTTAGATAA
Found at i:16369797 original size:21 final size:21
Alignment explanation
Indices: 16369752--16369814 Score: 94
Period size: 21 Copynumber: 3.1 Consensus size: 21
16369742 ATCTTCGAGG
* *
16369752 ATATGTAATCTTAGATA--AG
1 ATATGCAATCTTAGATATGAT
16369771 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
16369792 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
16369813 AT
1 AT
16369815 GTAATTTTAG
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
19 16 0.40
21 24 0.60
ACGTcount: A:0.40, C:0.08, G:0.14, T:0.38
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:16369832 original size:22 final size:23
Alignment explanation
Indices: 16369783--16369848 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
16369773 ATGCAATCTT
*
16369783 AGATATGATATATGCAATCTT---
1 AGATATGAT-TATGTAATCTTAGA
*
16369804 AGATATGA-TATGTAATTTTAGA
1 AGATATGATTATGTAATCTTAGA
*
16369826 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
16369849 TATTTAATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
19 9 0.24
21 8 0.22
22 8 0.22
23 12 0.32
ACGTcount: A:0.38, C:0.05, G:0.17, T:0.41
Consensus pattern (23 bp):
AGATATGATTATGTAATCTTAGA
Found at i:16369847 original size:23 final size:22
Alignment explanation
Indices: 16369751--16369848 Score: 68
Period size: 19 Copynumber: 4.7 Consensus size: 22
16369741 AATCTTCGAG
*
16369751 GATATGTAATCTT---AGATAA
1 GATATGTAATCTTAGAAGATAT
* *
16369770 GATATGCAATCTTAG-ATATGAT
1 GATATGTAATCTTAGAAGAT-AT
*
16369792 -ATATGCAATCTT---AGATAT
1 GATATGTAATCTTAGAAGATAT
*
16369810 GATATGTAATTTTAGAAGATAT
1 GATATGTAATCTTAGAAGATAT
*
16369832 GATTTTGTAATCTTAGA
1 GA-TATGTAATCTTAGA
16369849 TATTTAATTT
Statistics
Matches: 63, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
18 2 0.03
19 25 0.40
21 15 0.24
22 9 0.14
23 12 0.19
ACGTcount: A:0.38, C:0.06, G:0.16, T:0.40
Consensus pattern (22 bp):
GATATGTAATCTTAGAAGATAT
Found at i:16374603 original size:32 final size:31
Alignment explanation
Indices: 16374545--16374611 Score: 82
Period size: 33 Copynumber: 2.1 Consensus size: 31
16374535 ACTCAATTCT
* * *
16374545 AATTTTAATTTATTTAATTTATTAATAGTATAA
1 AATTTTAATTAATCTAATTTAATAATAG-A-AA
16374578 AATTTTAATTAATCT-ATTTAATAATAGAAA
1 AATTTTAATTAATCTAATTTAATAATAGAAA
16374608 AATT
1 AATT
16374612 AATTTAAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 6 0.19
31 1 0.03
32 11 0.35
33 13 0.42
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.49
Consensus pattern (31 bp):
AATTTTAATTAATCTAATTTAATAATAGAAA
Found at i:16374608 original size:29 final size:28
Alignment explanation
Indices: 16374553--16374608 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 28
16374543 CTAATTTTAA
* * * *
16374553 TTTATTTAATTTATTAATAGTATAAAAT
1 TTTAATTAATCTATTAATAATAGAAAAT
16374581 TTTAATTAATCTATTTAATAATAGAAAA
1 TTTAATTAATCTA-TTAATAATAGAAAA
16374609 ATTAATTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 11 0.48
29 12 0.52
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (28 bp):
TTTAATTAATCTATTAATAATAGAAAAT
Found at i:16374618 original size:29 final size:28
Alignment explanation
Indices: 16374551--16374618 Score: 66
Period size: 29 Copynumber: 2.4 Consensus size: 28
16374541 TTCTAATTTT
* * * *
16374551 AATTTATTTAATTTATTAATAGTATAAA
1 AATTAATTTAATCTATTAATAATAGAAA
*
16374579 ATTTTAA-TTAATCTATTTAATAATAGAAA
1 A-ATTAATTTAATCTA-TTAATAATAGAAA
16374608 AATTAATTTAA
1 AATTAATTTAA
16374619 ATAGATTTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
28 12 0.39
29 19 0.61
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (28 bp):
AATTAATTTAATCTATTAATAATAGAAA
Found at i:16375791 original size:30 final size:30
Alignment explanation
Indices: 16375726--16375807 Score: 107
Period size: 30 Copynumber: 2.8 Consensus size: 30
16375716 TTTCAAAAAG
* * *
16375726 AATA-TAATAATAAATTAAAT-TTTATATT
1 AATATTAATATTAAATAAAATAATTATATT
16375754 AATATTAATATTAAATAGAAATAATTATATT
1 AATATTAATATTAAATA-AAATAATTATATT
16375785 -ATATTAATATTAAATAAAATAAT
1 AATATTAATATTAAATAAAATAAT
16375808 AATAAAAACT
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
28 4 0.08
29 17 0.35
30 20 0.42
31 7 0.15
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (30 bp):
AATATTAATATTAAATAAAATAATTATATT
Found at i:16390521 original size:41 final size:41
Alignment explanation
Indices: 16390472--16390597 Score: 137
Period size: 41 Copynumber: 3.1 Consensus size: 41
16390462 ACAAAAATGC
**
16390472 ATTCAGGGGTACC-AGAGTACAAGTAGGGGCACGTATGTGCA
1 ATTCAGGGGTACCGA-AGTACAAACAGGGGCACGTATGTGCA
* *
16390513 ATTCAGGGGTACCGAAGTATAAACAGGGGCACGTATGTTCA
1 ATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCA
* * *** * *
16390554 ATTCAAGGATATTAAAGTACAAACAGGAGCACATATGTGCA
1 ATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCA
16390595 ATT
1 ATT
16390598 TAGGAATAAT
Statistics
Matches: 71, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
41 70 0.99
42 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.27, T:0.22
Consensus pattern (41 bp):
ATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCA
Found at i:16403343 original size:42 final size:40
Alignment explanation
Indices: 16403296--16403390 Score: 95
Period size: 40 Copynumber: 2.3 Consensus size: 40
16403286 TATGTAATTA
*
16403296 ATATAAATTATTTGTAAAATCAAT-AATATAATAATATATAAC
1 ATATAAATTATTT-TAAAA--AATAAATATAATAATAAATAAC
* *
16403338 ATATAACA-TATTTTAAAAATTAAATATAATAATAAATAAG
1 ATATAA-ATTATTTTAAAAAATAAATATAATAATAAATAAC
* *
16403378 ATTTAAATAATTT
1 ATATAAATTATTT
16403391 AATATAATGA
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
39 3 0.07
40 25 0.56
41 5 0.11
42 11 0.24
43 1 0.02
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (40 bp):
ATATAAATTATTTTAAAAAATAAATATAATAATAAATAAC
Found at i:16403396 original size:31 final size:32
Alignment explanation
Indices: 16403349--16403430 Score: 89
Period size: 31 Copynumber: 2.6 Consensus size: 32
16403339 TATAACATAT
*
16403349 TTTAAA-AATTAAATATAATAATAAAT-AAGA
1 TTTAAATAATTTAATATAATAATAAATAAAGA
* * *
16403379 TTTAAATAATTTAATATAATGATACATGAAATA
1 TTTAAATAATTTAATATAATAATAAAT-AAAGA
*
16403412 TTTAAGTAA-TTAATATAAT
1 TTTAAATAATTTAATATAAT
16403431 GATATATGAA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
30 6 0.14
31 17 0.39
32 10 0.23
33 11 0.25
ACGTcount: A:0.55, C:0.01, G:0.05, T:0.39
Consensus pattern (32 bp):
TTTAAATAATTTAATATAATAATAAATAAAGA
Found at i:16403430 original size:32 final size:33
Alignment explanation
Indices: 16403349--16403444 Score: 110
Period size: 32 Copynumber: 3.0 Consensus size: 33
16403339 TATAACATAT
* * * *
16403349 TTTAAA-AATTAAATATAATAATAAAT--AAGA
1 TTTAAATAATTTAATATAATGATACATGAAATA
16403379 TTTAAATAATTTAATATAATGATACATGAAATA
1 TTTAAATAATTTAATATAATGATACATGAAATA
* *
16403412 TTTAAGTAA-TTAATATAATGATATATGAAATA
1 TTTAAATAATTTAATATAATGATACATGAAATA
16403444 T
1 T
16403445 AAATCAATCC
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
30 6 0.11
31 17 0.30
32 23 0.40
33 11 0.19
ACGTcount: A:0.54, C:0.01, G:0.06, T:0.39
Consensus pattern (33 bp):
TTTAAATAATTTAATATAATGATACATGAAATA
Found at i:16411734 original size:17 final size:17
Alignment explanation
Indices: 16411696--16411728 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
16411686 GCCCATTAGA
16411696 AAAAAAAACAAATAAAC
1 AAAAAAAACAAATAAAC
16411713 AAAAAAAACAAATAAA
1 AAAAAAAACAAATAAA
16411729 ATAAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.85, C:0.09, G:0.00, T:0.06
Consensus pattern (17 bp):
AAAAAAAACAAATAAAC
Found at i:16412810 original size:24 final size:22
Alignment explanation
Indices: 16412783--16412829 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 22
16412773 ATTGTTCATA
*
16412783 TTAAACTGTTTGATATTATCTATT
1 TTAAACTGTTTCATA-TAT-TATT
*
16412807 TTAAATTGTTTCATATATTATT
1 TTAAACTGTTTCATATATTATT
16412829 T
1 T
16412830 ATTTCGAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 5 0.24
23 3 0.14
24 13 0.62
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.57
Consensus pattern (22 bp):
TTAAACTGTTTCATATATTATT
Found at i:16412832 original size:26 final size:26
Alignment explanation
Indices: 16412795--16412946 Score: 80
Period size: 26 Copynumber: 5.9 Consensus size: 26
16412785 AAACTGTTTG
*
16412795 ATATTATCTATTTTAAATTGTTTCAT
1 ATATTATTTATTTTAAATTGTTTCAT
**
16412821 ATATTATTTATTTCGAATTGCTTTC--
1 ATATTATTTATTTTAAATTG-TTTCAT
* * *
16412846 -TATTATTTTATCTTAAACTGTTTTATGT
1 ATATTA-TTTATTTTAAATTGTTTCA--T
* *
16412874 ATATTATTTATTTTAGATT-TTT-AG
1 ATATTATTTATTTTAAATTGTTTCAT
* * * * * *
16412898 GTGTCATTTCTTTTAAACTATTTCAT
1 ATATTATTTATTTTAAATTGTTTCAT
* * *
16412924 GTAATGTTTATTTTAAATTGTTT
1 ATATTATTTATTTTAAATTGTTT
16412947 AAAATTGTTT
Statistics
Matches: 91, Mismatches: 26, Indels: 18
0.67 0.19 0.13
Matches are distributed among these distances:
24 21 0.23
25 13 0.14
26 35 0.38
27 7 0.08
28 10 0.11
29 5 0.05
ACGTcount: A:0.26, C:0.07, G:0.08, T:0.59
Consensus pattern (26 bp):
ATATTATTTATTTTAAATTGTTTCAT
Found at i:16417847 original size:16 final size:16
Alignment explanation
Indices: 16417807--16417851 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
16417797 AAAAGTTTAT
*
16417807 AATATATAATATATAA
1 AATATAAAATATATAA
*
16417823 ACT-TAAAAATATATAA
1 AATAT-AAAATATATAA
16417839 AATATAAAATATA
1 AATATAAAATATA
16417852 AATATTTTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
15 1 0.04
16 22 0.92
17 1 0.04
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (16 bp):
AATATAAAATATATAA
Found at i:16421090 original size:14 final size:14
Alignment explanation
Indices: 16421073--16421119 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
16421063 TATAGGTTAT
*
16421073 GGGTTAGGGGTTAA
1 GGGTTAGGGATTAA
*
16421087 GGGTTAGAGATTAA
1 GGGTTAGGGATTAA
* *
16421101 GAGTTAGGGATTTA
1 GGGTTAGGGATTAA
16421115 GGGTT
1 GGGTT
16421120 TATAGATTAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.43, T:0.32
Consensus pattern (14 bp):
GGGTTAGGGATTAA
Found at i:16421107 original size:28 final size:28
Alignment explanation
Indices: 16421075--16421147 Score: 73
Period size: 28 Copynumber: 2.7 Consensus size: 28
16421065 TAGGTTATGG
*
16421075 GTTAGGGGTTAAGGG-TTAGAGATTAAGA
1 GTTAGGGATTAAGGGTTTAGAGATT-AGA
* * *
16421103 GTTAGGGATTTAGGGTTTATAGATTAGT
1 GTTAGGGATTAAGGGTTTAGAGATTAGA
16421131 GTTA-GG-TT-AGGGTTTAG
1 GTTAGGGATTAAGGGTTTAG
16421148 GGTTTAGATT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
25 8 0.21
26 2 0.05
27 2 0.05
28 19 0.49
29 8 0.21
ACGTcount: A:0.26, C:0.00, G:0.37, T:0.37
Consensus pattern (28 bp):
GTTAGGGATTAAGGGTTTAGAGATTAGA
Found at i:16421369 original size:41 final size:39
Alignment explanation
Indices: 16421324--16421449 Score: 110
Period size: 40 Copynumber: 3.2 Consensus size: 39
16421314 AGCGGCGTTC
*
16421324 TTAGCGGCGTTTGGACAAAAAAGGCCACTAAAAATCGAGCA
1 TTAGCGGCGTTT--ACAAAAAACGCCACTAAAAATCGAGCA
* ** * *
16421365 TTAGCAGCGATTTACGTAAAACGCCGCTAAAGATCGAGCA
1 TTAGCGGCG-TTTACAAAAAACGCCACTAAAAATCGAGCA
* * * * *
16421405 TTAGCGGCGTTTCCAGTAAAGCGCCGCTAAAAAT-TAGCA
1 TTAGCGGCGTTTACA-AAAAACGCCACTAAAAATCGAGCA
16421444 TTAGCG
1 TTAGCG
16421450 TTTTTTGGAA
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
39 14 0.20
40 46 0.65
41 8 0.11
42 3 0.04
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (39 bp):
TTAGCGGCGTTTACAAAAAACGCCACTAAAAATCGAGCA
Found at i:16421395 original size:40 final size:40
Alignment explanation
Indices: 16421342--16421448 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 40
16421332 GTTTGGACAA
* *
16421342 AAAAGGCCACTAAAAATCGAGCATTAGCAGCGATTTAC-GT
1 AAAACGCCGCTAAAAATCGAGCATTAGCAGCG-TTTACAGT
* * *
16421382 AAAACGCCGCTAAAGATCGAGCATTAGCGGCGTTTCCAGT
1 AAAACGCCGCTAAAAATCGAGCATTAGCAGCGTTTACAGT
* *
16421422 AAAGCGCCGCTAAAAAT-TAGCATTAGC
1 AAAACGCCGCTAAAAATCGAGCATTAGC
16421449 GTTTTTTGGA
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
39 13 0.22
40 45 0.78
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.20
Consensus pattern (40 bp):
AAAACGCCGCTAAAAATCGAGCATTAGCAGCGTTTACAGT
Found at i:16421996 original size:28 final size:29
Alignment explanation
Indices: 16421965--16422046 Score: 78
Period size: 28 Copynumber: 2.9 Consensus size: 29
16421955 GGGTTGTGAT
* * *
16421965 TTAAGGTTTATAGGTTATGGGTTAGGG-G
1 TTAAGGTTTATAGATTAAGAGTTAGGGAG
* * *
16421993 TTAAGGGTTAGAGATTAAGAGTTAGGGAT
1 TTAAGGTTTATAGATTAAGAGTTAGGGAG
* *
16422022 TTAGGGTTTATAGATT-AGTGTTAGG
1 TTAAGGTTTATAGATTAAGAGTTAGG
16422047 TTAGGGTTTA
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
28 30 0.70
29 13 0.30
ACGTcount: A:0.27, C:0.00, G:0.35, T:0.38
Consensus pattern (29 bp):
TTAAGGTTTATAGATTAAGAGTTAGGGAG
Found at i:16422000 original size:14 final size:14
Alignment explanation
Indices: 16421983--16422029 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
16421973 TATAGGTTAT
*
16421983 GGGTTAGGGGTTAA
1 GGGTTAGGGATTAA
*
16421997 GGGTTAGAGATTAA
1 GGGTTAGGGATTAA
* *
16422011 GAGTTAGGGATTTA
1 GGGTTAGGGATTAA
16422025 GGGTT
1 GGGTT
16422030 TATAGATTAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.43, T:0.32
Consensus pattern (14 bp):
GGGTTAGGGATTAA
Found at i:16422118 original size:89 final size:90
Alignment explanation
Indices: 16422025--16422208 Score: 228
Period size: 89 Copynumber: 2.1 Consensus size: 90
16422015 TAGGGATTTA
* * * **
16422025 GGGTTTATAGA-TTAGTGTTAGGTTAGGGTTTAGGGTTTAGATTAATTAGTGTATTTTAATTTAT
1 GGGTTTAGAGACTTAGGGTCAGGTTAGGGTTTAGAATTTAGATTAATTAGTGTATTTTAATTTAT
* *
16422089 ATATTAAATAATGTTTAGGGGTTAG
66 ATATTAAATAAGGTTTAGAGGTTAG
* * * * * *
16422114 GGG-TTAGGGACTTGGGGTCGGGTTAGGGTTTATAATTTAGATTAATTAGTGTTTTTTAATTTCT
1 GGGTTTAGAGACTTAGGGTCAGGTTAGGGTTTAGAATTTAGATTAATTAGTGTATTTTAATTTAT
16422178 ATATTAAATAAGGTTTAGAGGTTAG
66 ATATTAAATAAGGTTTAGAGGTTAG
*
16422203 TGGTTT
1 GGGTTT
16422209 GGGGTTAAGA
Statistics
Matches: 79, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
88 5 0.06
89 72 0.91
90 2 0.03
ACGTcount: A:0.26, C:0.02, G:0.27, T:0.45
Consensus pattern (90 bp):
GGGTTTAGAGACTTAGGGTCAGGTTAGGGTTTAGAATTTAGATTAATTAGTGTATTTTAATTTAT
ATATTAAATAAGGTTTAGAGGTTAG
Done.