Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 116 of 147
Found at i:20918100 original size:48 final size:49
Alignment explanation
Indices: 20918045--20918207 Score: 181
Period size: 48 Copynumber: 3.3 Consensus size: 49
20918035 ATTGAAAAAG
*
20918045 CTTTAAAAAT-TCATCTTGAAAAAGTTTCTCTAAGCAAAGGCTCAACAA
1 CTTTAAAAATCTCATCTTGAAAAAGTTTCTCTAAGTAAAGGCTCAACAA
* * *
20918093 CTTTAAAAATC-CATCTTGAAAAGGCTCTT-T-TATGTAAAGGCTCAATAA
1 CTTTAAAAATCTCATCTTGAAAAAG-T-TTCTCTAAGTAAAGGCTCAACAA
* * * * *
20918141 CTTTAAAATTCATCATCTTGGAAAAGCTTCTCTAAGTAGAGGCTTAACAA
1 CTTTAAAAATC-TCATCTTGAAAAAGTTTCTCTAAGTAAAGGCTCAACAA
*
20918191 CTTTAAATATCTCATCT
1 CTTTAAAAATCTCATCT
20918208 GTTTTCGAAA
Statistics
Matches: 94, Mismatches: 14, Indels: 13
0.78 0.12 0.11
Matches are distributed among these distances:
48 49 0.52
49 9 0.10
50 36 0.38
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.33
Consensus pattern (49 bp):
CTTTAAAAATCTCATCTTGAAAAAGTTTCTCTAAGTAAAGGCTCAACAA
Found at i:20918960 original size:18 final size:18
Alignment explanation
Indices: 20918937--20918973 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
20918927 CTGTGTTATG
20918937 GGATCTTTTCTTGATGAT
1 GGATCTTTTCTTGATGAT
20918955 GGATCTTTTCTTGATGAT
1 GGATCTTTTCTTGATGAT
20918973 G
1 G
20918974 CTTCTTTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.11, G:0.24, T:0.49
Consensus pattern (18 bp):
GGATCTTTTCTTGATGAT
Found at i:20918979 original size:18 final size:18
Alignment explanation
Indices: 20918939--20918981 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
20918929 GTGTTATGGG
*
20918939 ATCTTTTCTTGATGATGG
1 ATCTTTTCTTGATGATGC
20918957 ATCTTTTCTTGATGATGC
1 ATCTTTTCTTGATGATGC
*
20918975 TTCTTTT
1 ATCTTTT
20918982 TCGTATCCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.14, G:0.16, T:0.56
Consensus pattern (18 bp):
ATCTTTTCTTGATGATGC
Found at i:20929852 original size:18 final size:18
Alignment explanation
Indices: 20929831--20929869 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
20929821 AAAAATTTTA
20929831 AAAATTCCAAAAAATTAG
1 AAAATTCCAAAAAATTAG
**
20929849 AAAATTTTAAAAAATTAG
1 AAAATTCCAAAAAATTAG
20929867 AAA
1 AAA
20929870 TTTTTAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.26
Consensus pattern (18 bp):
AAAATTCCAAAAAATTAG
Found at i:20929874 original size:18 final size:18
Alignment explanation
Indices: 20929839--20929910 Score: 85
Period size: 18 Copynumber: 4.0 Consensus size: 18
20929829 TAAAAATTCC
*
20929839 AAAAAATTAGAAAATTTT
1 AAAAAATTAGAAATTTTT
20929857 AAAAAATTAGAAATTTTT
1 AAAAAATTAGAAATTTTT
*
20929875 AAAAAATGT-GAAATATTCT
1 AAAAAAT-TAGAAAT-TTTT
*
20929894 ATAAAATTA-AAATTTTT
1 AAAAAATTAGAAATTTTT
20929911 CTAAAAAATA
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
17 3 0.06
18 34 0.72
19 10 0.21
ACGTcount: A:0.56, C:0.01, G:0.06, T:0.38
Consensus pattern (18 bp):
AAAAAATTAGAAATTTTT
Found at i:20929917 original size:18 final size:17
Alignment explanation
Indices: 20929839--20929923 Score: 73
Period size: 18 Copynumber: 4.7 Consensus size: 17
20929829 TAAAAATTCC
*
20929839 AAAAAATTAGAAAATTTT
1 AAAAAATTA-AAATTTTT
20929857 AAAAAATTAGAAATTTTT
1 AAAAAATTA-AAATTTTT
* *
20929875 AAAAAATGTGAAATATTCT
1 AAAAAAT-TAAAAT-TTTT
*
20929894 ATAAAATTAAAATTTTTCT
1 AAAAAATTAAAA-TTTT-T
20929913 AAAAAA-TAAAA
1 AAAAAATTAAAA
20929924 CTAAAAAATC
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
18 39 0.70
19 17 0.30
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (17 bp):
AAAAAATTAAAATTTTT
Found at i:20930193 original size:25 final size:27
Alignment explanation
Indices: 20930138--20930204 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 27
20930128 TTAAAATTTT
**
20930138 AATTT-TTAAAATTTTGAATTTTTTAGA
1 AATTTATT-AAATTTTTTATTTTTTAGA
*
20930165 AATTTATTAATTTTTTTATTTTTT-G-
1 AATTTATTAAATTTTTTATTTTTTAGA
*
20930190 AATTTCTTAAATTTT
1 AATTTATTAAATTTT
20930205 CATAAATTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
25 13 0.38
26 1 0.03
27 18 0.53
28 2 0.06
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.63
Consensus pattern (27 bp):
AATTTATTAAATTTTTTATTTTTTAGA
Found at i:20930194 original size:43 final size:44
Alignment explanation
Indices: 20930124--20930226 Score: 102
Period size: 43 Copynumber: 2.4 Consensus size: 44
20930114 AAAATTTATT
** * * *
20930124 TTTATTAAAATTTTAATTTTTAAAATTT-TGAATTTTTTAGAAA
1 TTTATTAATTTTTTTATTTTTAAAATTTCTGAAATTTTCAGAAA
** * *
20930167 TTTATTAATTTTTTTATTTTTTGAATTTCTTAAATTTTCATAAA
1 TTTATTAATTTTTTTATTTTTAAAATTTCTGAAATTTTCAGAAA
*
20930211 TTT-TTTATTTTTTTAT
1 TTTATTAATTTTTTTAT
20930227 AATTTTTTAA
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
43 35 0.71
44 14 0.29
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (44 bp):
TTTATTAATTTTTTTATTTTTAAAATTTCTGAAATTTTCAGAAA
Found at i:20930224 original size:36 final size:36
Alignment explanation
Indices: 20930149--20930223 Score: 100
Period size: 35 Copynumber: 2.1 Consensus size: 36
20930139 ATTTTTAAAA
* *
20930149 TTTTGAATTTTTTAGAAATTTATTAATTTTTTTATT
1 TTTTGAATTTCTTAGAAATTTATAAATTTTTTTATT
*
20930185 TTTTGAATTTCTTA-AATTTTCATAAA-TTTTTTATT
1 TTTTGAATTTCTTAGAAATTT-ATAAATTTTTTTATT
20930220 TTTT
1 TTTT
20930224 TATAATTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
35 18 0.51
36 17 0.49
ACGTcount: A:0.27, C:0.03, G:0.04, T:0.67
Consensus pattern (36 bp):
TTTTGAATTTCTTAGAAATTTATAAATTTTTTTATT
Found at i:20931596 original size:21 final size:21
Alignment explanation
Indices: 20931570--20931609 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
20931560 GATTCAATTC
20931570 ATGAAAATAAATATTTAAAGA
1 ATGAAAATAAATATTTAAAGA
*
20931591 ATGAAAATAATTATTTAAA
1 ATGAAAATAAATATTTAAA
20931610 AATTTAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (21 bp):
ATGAAAATAAATATTTAAAGA
Found at i:20939446 original size:18 final size:18
Alignment explanation
Indices: 20939385--20939452 Score: 55
Period size: 18 Copynumber: 3.7 Consensus size: 18
20939375 TTTTTAATTC
* *
20939385 TTTTATTTAGTTCTTTTTA
1 TTTTATTTTGTT-TATTTA
* * *
20939404 TTTTTTTTATGATTAATTA
1 TTTTATTT-TGTTTATTTA
*
20939423 TGTTATTTTGTTTATTTA
1 TTTTATTTTGTTTATTTA
*
20939441 TTTTATATTGTT
1 TTTTATTTTGTT
20939453 GTTAATTATG
Statistics
Matches: 37, Mismatches: 11, Indels: 3
0.73 0.22 0.06
Matches are distributed among these distances:
18 18 0.49
19 17 0.46
20 2 0.05
ACGTcount: A:0.19, C:0.01, G:0.07, T:0.72
Consensus pattern (18 bp):
TTTTATTTTGTTTATTTA
Found at i:20943352 original size:40 final size:40
Alignment explanation
Indices: 20943309--20943453 Score: 166
Period size: 40 Copynumber: 3.6 Consensus size: 40
20943299 CACAAGAAAG
* *
20943309 AGAAAGACATTCACATTTGCATTATTGCATTTGCTTCACG
1 AGAAAGACATTCACATTTGCATCATTGCATTTGCTTCACA
* *
20943349 AGAAAGATATTCACAATTGCATCATTGCATTTGCATT-ACA
1 AGAAAGACATTCACATTTGCATCATTGCATTTGC-TTCACA
* * * * * *
20943389 AGAAAGAAATTCGCATGTGCATCATTACATCTGCATCACA
1 AGAAAGACATTCACATTTGCATCATTGCATTTGCTTCACA
* *
20943429 AAAAAGACATTTACATTTGCATCAT
1 AGAAAGACATTCACATTTGCATCAT
20943454 GAGAAAAAAA
Statistics
Matches: 87, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
39 1 0.01
40 84 0.97
41 2 0.02
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (40 bp):
AGAAAGACATTCACATTTGCATCATTGCATTTGCTTCACA
Found at i:20944020 original size:64 final size:63
Alignment explanation
Indices: 20943881--20944002 Score: 176
Period size: 64 Copynumber: 1.9 Consensus size: 63
20943871 GGTGATGATA
20943881 TTATTCAAACTTCTAGGGGGTGATATTTAAGTTTTTAAAATGTTTTGGTGATGACATACAAATT
1 TTATTCAAACTTCTAGGGGGTGATATTTAAGTTTTTAAAATGTTTTGGTGATGA-ATACAAATT
* * * *
20943945 TTATTCAAACTTGTAGGTGGTGATATCTT-AGTTTTTTACATGTTTTGGTGATG-ATACA
1 TTATTCAAACTTCTAGGGGGTGATAT-TTAAGTTTTTAAAATGTTTTGGTGATGAATACA
20944003 TGGGTTTTAT
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
62 5 0.09
64 46 0.87
65 2 0.04
ACGTcount: A:0.28, C:0.08, G:0.20, T:0.44
Consensus pattern (63 bp):
TTATTCAAACTTCTAGGGGGTGATATTTAAGTTTTTAAAATGTTTTGGTGATGAATACAAATT
Found at i:20944033 original size:64 final size:63
Alignment explanation
Indices: 20943881--20944035 Score: 145
Period size: 64 Copynumber: 2.4 Consensus size: 63
20943871 GGTGATGATA
* * * *
20943881 TTATTCAAACTTCTAGGGGGTGATATTTAAGTTTTTAAAATGTTTTGGTGATGACATACAAATT
1 TTATTAAAACTTATAGGTGATGATATTTAAGTTTTTAAAATGTTTTGGTGATGA-ATACAAATT
* * * * * **
20943945 TTATTCAAACTTGTAGGTGGTGATATCTT-AGTTTTTTACATGTTTTGGTGATG-ATACATGGGT
1 TTATTAAAACTTATAGGTGATGATAT-TTAAGTTTTTAAAATGTTTTGGTGATGAATACA--AAT
20944008 T
63 T
20944009 TTATTAAAACTTATCA-GTGATGATATT
1 TTATTAAAACTTAT-AGGTGATGATATT
20944036 CGAGTGTTCA
Statistics
Matches: 78, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
62 5 0.06
63 1 0.01
64 69 0.88
65 3 0.04
ACGTcount: A:0.28, C:0.08, G:0.19, T:0.45
Consensus pattern (63 bp):
TTATTAAAACTTATAGGTGATGATATTTAAGTTTTTAAAATGTTTTGGTGATGAATACAAATT
Found at i:20944468 original size:58 final size:59
Alignment explanation
Indices: 20944378--20944515 Score: 156
Period size: 59 Copynumber: 2.4 Consensus size: 59
20944368 AGTTTTAATC
*
20944378 AGAATCCTTTGATGGTGATATCCAAAGAC-TTTTTCATT-TTCCTC-AGTGGTGATATCAA
1 AGAATCCTTTGATGGTGATATCCAAAAACTTTTTTCATTCTT-CTCGA-TGGTGATATCAA
* * * * *
20944436 AGAATCTTTTGGTTGTGATATCCAAAAACTTTTTTCATTCTTTTCGATGGTGATATCCA
1 AGAATCCTTTGATGGTGATATCCAAAAACTTTTTTCATTCTTCTCGATGGTGATATCAA
* **
20944495 AGAATCCATTGGCGGTGATAT
1 AGAATCCTTTGATGGTGATAT
20944516 TTTGAAGATA
Statistics
Matches: 67, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
58 25 0.37
59 39 0.58
60 3 0.04
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (59 bp):
AGAATCCTTTGATGGTGATATCCAAAAACTTTTTTCATTCTTCTCGATGGTGATATCAA
Found at i:20944554 original size:94 final size:94
Alignment explanation
Indices: 20944450--20944751 Score: 261
Period size: 99 Copynumber: 3.2 Consensus size: 94
20944440 TCTTTTGGTT
* * *
20944450 GTGATATCCAAAAACTTTTT-TCATTCT-TTTCGATGGTGATATCCAAGAATCCATTGGCGGTGA
1 GTGATATCCAAAAA-TTTTTGTCATTCTCATT-GATGGTGATATCCAAGAATCCATTGACGGTAA
** *
20944513 TATTTTGAAGA-TATTTTCATT-TTCTTTGATG
64 TA-TTCAAAGACTATTTTCATTCTTC-TTGATA
* * * * * *
20944544 GTGATATCCAAAGATTTTTGTCATTCTCATTGGTGGTTATATGCAAGAATCCTTTGATGGTAATA
1 GTGATATCCAAAAATTTTTGTCATTCTCATTGATGGTGATATCCAAGAATCCATTGACGGTAATA
*
20944609 TTCAAAGACTTTTTTCATTCTTCTTGATA
66 TTCAAAGACTATTTTCATTCTTCTTGATA
* * * * * * *
20944638 GTGATATCCAAAGATCTTACTTTTGTCATTCTCGTTGGTGGGGATATGCAAGAATCCTTTGATGG
1 GTGATATCCAAA-A----ATTTTTGTCATTCTCATTGATGGTGATATCCAAGAATCCATTGACGG
* * * *
20944703 TAATATTCGAAGACTTTTTTCATTCTCCTTGGTA
61 TAATATTCAAAGACTATTTTCATTCTTCTTGATA
* *
20944737 GTGATGTCTAAAAAT
1 GTGATATCCAAAAAT
20944752 CCTTTAATGG
Statistics
Matches: 175, Mismatches: 24, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
93 11 0.06
94 74 0.42
95 5 0.03
98 1 0.01
99 84 0.48
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.42
Consensus pattern (94 bp):
GTGATATCCAAAAATTTTTGTCATTCTCATTGATGGTGATATCCAAGAATCCATTGACGGTAATA
TTCAAAGACTATTTTCATTCTTCTTGATA
Found at i:20944693 original size:99 final size:94
Alignment explanation
Indices: 20944526--20944741 Score: 308
Period size: 99 Copynumber: 2.2 Consensus size: 94
20944516 TTTGAAGATA
* **
20944526 TTTTCATT-TTCTTTGATGGTGATATCCAAAGATTTTTGTCATTCTCATTGGTGGTTATATGCAA
1 TTTTCATTCTTC-TTGATAGTGATATCCAAAGATTTTTGTCATTCTCATTGGTGGGGATATGCAA
20944590 GAATCCTTTGATGGTAATATTCAAAGACTT
65 GAATCCTTTGATGGTAATATTCAAAGACTT
*
20944620 TTTTCATTCTTCTTGATAGTGATATCCAAAGATCTTACTTTTGTCATTCTCGTTGGTGGGGATAT
1 TTTTCATTCTTCTTGATAGTGATATCCAAAGA---T--TTTTGTCATTCTCATTGGTGGGGATAT
*
20944685 GCAAGAATCCTTTGATGGTAATATTCGAAGACTT
61 GCAAGAATCCTTTGATGGTAATATTCAAAGACTT
* *
20944719 TTTTCATTCTCCTTGGTAGTGAT
1 TTTTCATTCTTCTTGATAGTGAT
20944742 GTCTAAAAAT
Statistics
Matches: 109, Mismatches: 7, Indels: 7
0.89 0.06 0.06
Matches are distributed among these distances:
94 27 0.25
95 3 0.03
97 1 0.01
99 78 0.72
ACGTcount: A:0.24, C:0.14, G:0.18, T:0.44
Consensus pattern (94 bp):
TTTTCATTCTTCTTGATAGTGATATCCAAAGATTTTTGTCATTCTCATTGGTGGGGATATGCAAG
AATCCTTTGATGGTAATATTCAAAGACTT
Found at i:20944729 original size:59 final size:59
Alignment explanation
Indices: 20944656--20944786 Score: 142
Period size: 59 Copynumber: 2.3 Consensus size: 59
20944646 CAAAGATCTT
* * * * * * *
20944656 ACTTTTGTCATTCTCGTTGGTGGGGATATGC-AAGAATCCTTTGATGGTAATATTCGAAG
1 ACTTTTTTCATTCTCCTTGGTAGGGATAT-CTAAAAATCCTTTAATGGTAATATCCAAAG
* * *
20944715 ACTTTTTTCATTCTCCTTGGTAGTGATGTCTAAAAATCCTTTAATGGTGATATCCAAAG
1 ACTTTTTTCATTCTCCTTGGTAGGGATATCTAAAAATCCTTTAATGGTAATATCCAAAG
20944774 AC--TTTTCATTCTC
1 ACTTTTTTCATTCTC
20944787 TTCGATGACA
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
57 11 0.18
58 1 0.02
59 49 0.80
ACGTcount: A:0.24, C:0.17, G:0.18, T:0.40
Consensus pattern (59 bp):
ACTTTTTTCATTCTCCTTGGTAGGGATATCTAAAAATCCTTTAATGGTAATATCCAAAG
Found at i:20945248 original size:33 final size:33
Alignment explanation
Indices: 20945167--20945255 Score: 92
Period size: 32 Copynumber: 2.7 Consensus size: 33
20945157 CTTTTAAGTC
* * *
20945167 CATTGCCTTTGGTTAGAGGAATCTTTCAAAAAT
1 CATTACCTCTGGTTAGAGGAATCTTTAAAAAAT
** *
20945200 CA-TACCTCTAATTAGAGGAGT-TCTTAAAAAAT
1 CATTACCTCTGGTTAGAGGAATCT-TTAAAAAAT
*
20945232 CATTACCTCTGGTTAGATGAATCT
1 CATTACCTCTGGTTAGAGGAATCT
20945256 ATCAAATCCC
Statistics
Matches: 43, Mismatches: 10, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
31 1 0.02
32 24 0.56
33 17 0.40
34 1 0.02
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.35
Consensus pattern (33 bp):
CATTACCTCTGGTTAGAGGAATCTTTAAAAAAT
Found at i:20945278 original size:33 final size:32
Alignment explanation
Indices: 20945086--20945293 Score: 152
Period size: 33 Copynumber: 6.4 Consensus size: 32
20945076 TTTCAAGTAT
*
20945086 AGGAATCTTTCAAATCCATTGCCTCTAGTTAG
1 AGGAATCTTTCAAATCCATTGCCTCTGGTTAG
* * * *
20945118 AGGAATATTTCAAATCTCATGGCTTTTGGTTAG
1 AGGAATCTTTCAAATC-CATTGCCTCTGGTTAG
* * * *
20945151 AAGAATCTTTTAAGTCCATTGCCTTTGGTTAG
1 AGGAATCTTTCAAATCCATTGCCTCTGGTTAG
* **
20945183 AGGAATCTTTCAAAAAT-CA-TACCTCTAATTAG
1 AGGAATCTTTC--AAATCCATTGCCTCTGGTTAG
* ** *
20945215 AGGAGTTCTTAAAAAAT-CATTACCTCTGGTTAG
1 AGGA-ATCTT-TCAAATCCATTGCCTCTGGTTAG
* * *
20945248 ATGAATCTATCAAATCCCATTGCCTTTGGTTAG
1 AGGAATCTTTCAAAT-CCATTGCCTCTGGTTAG
* *
20945281 AGGAGTTTTTCAA
1 AGGAATCTTTCAA
20945294 GTATCATAAT
Statistics
Matches: 134, Mismatches: 34, Indels: 15
0.73 0.19 0.08
Matches are distributed among these distances:
31 4 0.03
32 60 0.45
33 67 0.50
34 3 0.02
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (32 bp):
AGGAATCTTTCAAATCCATTGCCTCTGGTTAG
Found at i:20945809 original size:34 final size:34
Alignment explanation
Indices: 20945768--20945843 Score: 134
Period size: 34 Copynumber: 2.2 Consensus size: 34
20945758 AAGTTTTTTA
*
20945768 TTTCAAAGTCTTATAGCTTCTAGTTAGAGGAGTT
1 TTTCAAAGTCTTATAGCCTCTAGTTAGAGGAGTT
*
20945802 TTTCAAAGTCTTTTAGCCTCTAGTTAGAGGAGTT
1 TTTCAAAGTCTTATAGCCTCTAGTTAGAGGAGTT
20945836 TTTCAAAG
1 TTTCAAAG
20945844 CACCATAGTC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.26, C:0.13, G:0.20, T:0.41
Consensus pattern (34 bp):
TTTCAAAGTCTTATAGCCTCTAGTTAGAGGAGTT
Found at i:20945941 original size:1 final size:1
Alignment explanation
Indices: 20945935--20945959 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
20945925 GTTAGAGGAG
20945935 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
20945960 AAAGTCCCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:20946660 original size:19 final size:18
Alignment explanation
Indices: 20946628--20946675 Score: 57
Period size: 19 Copynumber: 2.8 Consensus size: 18
20946618 AATTTTTAAA
*
20946628 AATTTTATTTTTATTTTC
1 AATTTTATTATTATTTTC
20946646 AATTATTATTATTATTTT-
1 AATT-TTATTATTATTTTC
20946664 -ATTTTATT-TTAT
1 AATTTTATTATTAT
20946676 CTTTTTATCT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 4 0.14
16 5 0.18
17 3 0.11
18 4 0.14
19 12 0.43
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (18 bp):
AATTTTATTATTATTTTC
Found at i:20947676 original size:17 final size:18
Alignment explanation
Indices: 20947645--20947678 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
20947635 ATGAATAAAT
*
20947645 TTTTAGTTTACAAAAAAA
1 TTTTAGTTTAAAAAAAAA
20947663 TTTTA-TTTAAAAAAAA
1 TTTTAGTTTAAAAAAAA
20947679 TTTATTACGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (18 bp):
TTTTAGTTTAAAAAAAAA
Found at i:20947677 original size:16 final size:18
Alignment explanation
Indices: 20947645--20947681 Score: 60
Period size: 16 Copynumber: 2.2 Consensus size: 18
20947635 ATGAATAAAT
20947645 TTTTAGTTTACAAAAAAA
1 TTTTAGTTTACAAAAAAA
20947663 TTTTA-TTTA-AAAAAAA
1 TTTTAGTTTACAAAAAAA
20947679 TTT
1 TTT
20947682 ATTACGAGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.53
17 4 0.21
18 5 0.26
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (18 bp):
TTTTAGTTTACAAAAAAA
Found at i:20953926 original size:39 final size:38
Alignment explanation
Indices: 20953867--20953944 Score: 120
Period size: 39 Copynumber: 2.0 Consensus size: 38
20953857 TTTCTGATCA
20953867 TGAGAAAACTAAAGTTATCAATCACAACTTAAAAACTTT
1 TGAGAAAACTAAAGTTATCAATCACAACTTAAAAA-TTT
* * *
20953906 TGAGGAAACTGAAGTTATCAATCACAACTTGAAAATTT
1 TGAGAAAACTAAAGTTATCAATCACAACTTAAAAATTT
20953944 T
1 T
20953945 CTTGAGTAGT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
38 4 0.11
39 32 0.89
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.29
Consensus pattern (38 bp):
TGAGAAAACTAAAGTTATCAATCACAACTTAAAAATTT
Found at i:20955645 original size:62 final size:61
Alignment explanation
Indices: 20955565--20955681 Score: 180
Period size: 62 Copynumber: 1.9 Consensus size: 61
20955555 CATACATGCT
* * *
20955565 CAATGCATTAAAGTTTGCATTTTCATTATTGGCATTTTAGTAATTTTTGTTACATGAAATCC
1 CAATGCATCAAAGCTTGCATTTTCATTAATGGCATTTTAGTAA-TTTTGTTACATGAAATCC
* *
20955627 CAATGCATCAAAGCTTGCATTTTTATTAATGGCATTTTGGTAATTTTGTTACATG
1 CAATGCATCAAAGCTTGCATTTTCATTAATGGCATTTTAGTAATTTTGTTACATG
20955682 CAATAAAGTT
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
61 12 0.24
62 38 0.76
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.44
Consensus pattern (61 bp):
CAATGCATCAAAGCTTGCATTTTCATTAATGGCATTTTAGTAATTTTGTTACATGAAATCC
Found at i:20955683 original size:50 final size:49
Alignment explanation
Indices: 20955629--20955734 Score: 131
Period size: 50 Copynumber: 2.1 Consensus size: 49
20955619 TGAAATCCCA
* * * *
20955629 ATGCATCAAAGCTTGCATTTTTATTAATGGCATTTTGGTAATTTTGTTAC
1 ATGCAT-AAAGCTTGCATTTTTATCAATAGCATTTTAGTAATCTTGTTAC
* * *
20955679 ATGCAATAAAGTTTGCATTTTTATCAATAGTATTTTAGTAATCTTGTTAT
1 ATGC-ATAAAGCTTGCATTTTTATCAATAGCATTTTAGTAATCTTGTTAC
20955729 ATGCAT
1 ATGCAT
20955735 TTCCTTGCAA
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
49 2 0.04
50 44 0.92
51 2 0.04
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.46
Consensus pattern (49 bp):
ATGCATAAAGCTTGCATTTTTATCAATAGCATTTTAGTAATCTTGTTAC
Found at i:20955882 original size:13 final size:13
Alignment explanation
Indices: 20955859--20955922 Score: 67
Period size: 13 Copynumber: 4.8 Consensus size: 13
20955849 AACTCTAAAG
20955859 CTAAACACTAAGCC
1 CTAAAC-CTAAGCC
*
20955873 CTACACCTAAGCC
1 CTAAACCTAAGCC
*
20955886 TTAAACC-AAGACC
1 CTAAACCTAAG-CC
*
20955899 CTAAACCTAAACC
1 CTAAACCTAAGCC
20955912 CTAAAACCTAA
1 CT-AAACCTAA
20955923 AATCTAAGCC
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
12 3 0.07
13 24 0.57
14 15 0.36
ACGTcount: A:0.44, C:0.36, G:0.05, T:0.16
Consensus pattern (13 bp):
CTAAACCTAAGCC
Found at i:20955916 original size:7 final size:7
Alignment explanation
Indices: 20955896--20956048 Score: 62
Period size: 7 Copynumber: 23.1 Consensus size: 7
20955886 TTAAACCAAG
20955896 ACCCTAA
1 ACCCTAA
20955903 A-CCTAA
1 ACCCTAA
20955909 ACCCTAA
1 ACCCTAA
*
20955916 AACCTAA
1 ACCCTAA
**
20955923 AATCTAA
1 ACCCTAA
*
20955930 GCCCTAA
1 ACCCTAA
*
20955937 ACACTAA
1 ACCCTAA
20955944 A--CTAAA
1 ACCCT-AA
*
20955950 ACCTTAA
1 ACCCTAA
*
20955957 ACCCCAA
1 ACCCTAA
20955964 A-CCT-A
1 ACCCTAA
*
20955969 ACTCTAA
1 ACCCTAA
20955976 ACCCTAA
1 ACCCTAA
* *
20955983 ATACATAA
1 A-CCCTAA
*
20955991 ACACTAA
1 ACCCTAA
20955998 ACCC--A
1 ACCCTAA
*
20956003 A-GCTAGA
1 ACCCTA-A
20956010 A-CCT-A
1 ACCCTAA
20956015 ACCCTAA
1 ACCCTAA
*
20956022 ATCCTAA
1 ACCCTAA
20956029 A-CC--A
1 ACCCTAA
20956033 ACCCTGAA
1 ACCCT-AA
20956041 ACCCTAA
1 ACCCTAA
20956048 A
1 A
20956049 ACCAACACTT
Statistics
Matches: 108, Mismatches: 22, Indels: 32
0.67 0.14 0.20
Matches are distributed among these distances:
4 3 0.03
5 10 0.09
6 18 0.17
7 65 0.60
8 12 0.11
ACGTcount: A:0.47, C:0.34, G:0.03, T:0.16
Consensus pattern (7 bp):
ACCCTAA
Found at i:20956046 original size:19 final size:19
Alignment explanation
Indices: 20956009--20956054 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
20955999 CCCAAGCTAG
*
20956009 AACCTAACCCTAAATCCT-A
1 AACC-AACCCTAAACCCTAA
20956028 AACCAACCCTGAAACCCTAA
1 AACCAACCCT-AAACCCTAA
20956048 AACCAAC
1 AACCAAC
20956055 ACTTGATCCC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 6 0.25
19 10 0.42
20 8 0.33
ACGTcount: A:0.46, C:0.39, G:0.02, T:0.13
Consensus pattern (19 bp):
AACCAACCCTAAACCCTAA
Found at i:20956830 original size:15 final size:16
Alignment explanation
Indices: 20956800--20956833 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
20956790 GCATCTTAAA
*
20956800 ATTATAATTATTTTAT
1 ATTATAAATATTTTAT
20956816 ATTATAAAT-TTTTAT
1 ATTATAAATATTTTAT
20956831 ATT
1 ATT
20956834 TTCAAACTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTATAAATATTTTAT
Found at i:20957844 original size:21 final size:21
Alignment explanation
Indices: 20957818--20957864 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
20957808 TAAAAAATGT
20957818 AAAATTTGGAAAAA-ATTAAAA
1 AAAATTT-GAAAAACATTAAAA
*
20957839 AAAATTTGAAAAACATTAAGA
1 AAAATTTGAAAAACATTAAAA
20957860 AAAAT
1 AAAAT
20957865 GTTTTGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.66, C:0.02, G:0.09, T:0.23
Consensus pattern (21 bp):
AAAATTTGAAAAACATTAAAA
Found at i:20962706 original size:9 final size:9
Alignment explanation
Indices: 20962692--20962717 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
20962682 AATCCTTAAT
20962692 AAAAGAAAA
1 AAAAGAAAA
20962701 AAAAGAAAA
1 AAAAGAAAA
20962710 AAAAGAAA
1 AAAAGAAA
20962718 GAAATTTTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (9 bp):
AAAAGAAAA
Found at i:20963112 original size:33 final size:32
Alignment explanation
Indices: 20963056--20963151 Score: 86
Period size: 33 Copynumber: 2.8 Consensus size: 32
20963046 GAAAATAAGG
20963056 AAAAGGAAAGAAATGGAAGAAAGAAAAAAAAAGAAA
1 AAAAGGAAAGAAA--G-A-AAAGAAAAAAAAAGAAA
* ** *
20963092 AAAAGGGGAA-AAAGAAAAAGAAAAAGGAAGAAT
1 AAAA-GGAAAGAAAG-AAAAGAAAAAAAAAGAAA
*
20963125 AAAAGGAAAGAAAGGAAAGAAAAAAAA
1 AAAAGGAAAGAAAGAAAAGAAAAAAAA
20963152 TGATTGAGTG
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
32 14 0.28
33 22 0.44
34 3 0.06
36 7 0.14
37 4 0.08
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.02
Consensus pattern (32 bp):
AAAAGGAAAGAAAGAAAAGAAAAAAAAAGAAA
Found at i:20965209 original size:40 final size:40
Alignment explanation
Indices: 20965145--20965698 Score: 283
Period size: 40 Copynumber: 14.0 Consensus size: 40
20965135 ATCAGTACAA
* **
20965145 GATTTTCAAGATCTTCAAGCAAAATTTTAAATTTTTAAAT
1 GATTTTCAAGACCTTCTGGCAAAATTTTAAATTTTTAAAT
* * * * *
20965185 GATTTTCGATACC-TCTGGGTAAAATTTTAAAATTTTAAAA
1 GATTTTCAAGACCTTCT-GGCAAAATTTTAAATTTTTAAAT
20965225 GATTTTCAAGACCTTCTGGCAAAATTTTAAATTTTTAAAT
1 GATTTTCAAGACCTTCTGGCAAAATTTTAAATTTTTAAAT
* * * * * * * * * *
20965265 AATCTCCAACACATTCGGGTAAAATTTTAAAGTTTCAAAA
1 GATTTTCAAGACCTTCTGGCAAAATTTTAAATTTTTAAAT
* ** * *
20965305 GATTTTCAAGACCTTCAGAAAAAATCTTAAATTTCTGAAA-
1 GATTTTCAAGACCTTCTGGCAAAATTTTAAATTT-TTAAAT
* ** * *
20965345 GATTTTCAAGACCTAC-GAGCAAAACCTTAAAATTTTGAAT
1 GATTTTCAAGACCTTCTG-GCAAAATTTTAAATTTTTAAAT
* * * * ** * *
20965385 GA-TTTCTAATACCTCCAGGTAAAACCTTAAAATTTTGAAT
1 GATTTTC-AAGACCTTCTGGCAAAATTTTAAATTTTTAAAT
* ** * * * *
20965425 GATTTTCAAAACCTTCAAGTAAAACTTTAAATCTTTGAAT
1 GATTTTCAAGACCTTCTGGCAAAATTTTAAATTTTTAAAT
* * * * * *
20965465 GATTTCCAAGACCTCCAGGTAGAAA-ATT---TTTTTGAAT
1 GATTTTCAAGACCTTCTGGCA-AAATTTTAAATTTTTAAAT
** * * *
20965502 GATTTTTTAGA-CTTCTAGCCAAAATCTTAAAATTTTAAAT
1 GATTTTCAAGACCTTCT-GGCAAAATTTTAAATTTTTAAAT
* * * *
20965542 GATTTCCAAGACCTTCGGGCAAAATTTTAAAGTTTTGAAT
1 GATTTTCAAGACCTTCTGGCAAAATTTTAAATTTTTAAAT
* *
20965582 GATTTAT-AAGACCTT-AGGCAAAATCTTAAATTTCTT-AAT
1 GATTT-TCAAGACCTTCTGGCAAAATTTTAAATTT-TTAAAT
* * * * * *
20965621 GATTTCCAAGGCCTTC-GGCAAAATCTTAAGTTTTTGAAC
1 GATTTTCAAGACCTTCTGGCAAAATTTTAAATTTTTAAAT
* * * *
20965660 AATTTTTAAGAGCTT-TCGG-AAGAATTTTAAAATTTTAAA
1 GATTTTCAAGACCTTCT-GGCAA-AATTTTAAATTTTTAAA
20965699 AGACCTTTAG
Statistics
Matches: 400, Mismatches: 91, Indels: 46
0.74 0.17 0.09
Matches are distributed among these distances:
36 6 0.01
37 20 0.05
38 2 0.00
39 70 0.17
40 283 0.71
41 19 0.05
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.37
Consensus pattern (40 bp):
GATTTTCAAGACCTTCTGGCAAAATTTTAAATTTTTAAAT
Found at i:20965389 original size:80 final size:79
Alignment explanation
Indices: 20965145--20965654 Score: 315
Period size: 80 Copynumber: 6.4 Consensus size: 79
20965135 ATCAGTACAA
* * * * * * * * *
20965145 GATTTTCAAGATCTTCAAGCAAAATTTTAAATTTTTAAATGATTTTCGATACCT-CTGGGTAAAA
1 GATTTCCAAGACCTTCAGGCAAAATCTTAAA-TTTTGAATGATTTTCAAGACCTAC-GAGCAAAA
* * *
20965209 TTTTAAAATTTTAAAA
64 TCTTAAAATTTTGAAT
* * * * * * * * * * * *
20965225 GATTTTCAAGACCTTCTGGCAAAATTTTAAATTTTTAAATAATCTCCAACACATTCGGGTAAAAT
1 GATTTCCAAGACCTTCAGGCAAAATCTTAAA-TTTTGAATGATTTTCAAGACCTACGAGCAAAAT
* * ** *
20965290 TTTAAAGTTTCAAAA
65 CTTAAAATTTTGAAT
* ** * *
20965305 GATTTTCAAGACCTTCAGAAAAAATCTTAAATTTCTGAAAGATTTTCAAGACCTACGAGCAAAAC
1 GATTTCCAAGACCTTCAGGCAAAATCTTAAATTT-TGAATGATTTTCAAGACCTACGAGCAAAAT
20965370 CTTAAAATTTTGAAT
65 CTTAAAATTTTGAAT
* * * * * * * * *
20965385 GATTTCTAATACCTCCAGGTAAAACCTTAAAATTTTGAATGATTTTCAAAACCTTCAAGTAAAA-
1 GATTTCCAAGACCTTCAGGCAAAATCTT-AAATTTTGAATGATTTTCAAGACCTACGAGCAAAAT
*
20965449 CTTTAAATCTTTGAAT
65 CTTAAAAT-TTTGAAT
* * ** * *
20965465 GATTTCCAAGACCTCCAGGTAGAAAAT-TT---TTTTGAATGATTTTTTAGA-CTTCTAGCCAAA
1 GATTTCCAAGACCTTCAGG--CAAAATCTTAAATTTTGAATGATTTTCAAGACCTACGAG-CAAA
*
20965525 ATCTTAAAATTTTAAAT
63 ATCTTAAAATTTTGAAT
* *
20965542 GATTTCCAAGACCTTCGGGCAAAATTTTAAAGTTTTGAATGATTTAT-AAGACCTTA-G-GCAAA
1 GATTTCCAAGACCTTCAGGCAAAATCTTAAA-TTTTGAATGATTT-TCAAGACC-TACGAGCAAA
*
20965604 ATCTT-AAATTTCTTAAT
63 ATCTTAAAATTT-TGAAT
* *
20965621 GATTTCCAAGGCCTTC-GGCAAAATCTTAAGTTTT
1 GATTTCCAAGACCTTCAGGCAAAATCTTAAATTTT
20965655 TGAACAATTT
Statistics
Matches: 348, Mismatches: 65, Indels: 37
0.77 0.14 0.08
Matches are distributed among these distances:
75 5 0.01
76 8 0.02
77 47 0.14
78 25 0.07
79 38 0.11
80 209 0.60
81 11 0.03
82 5 0.01
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (79 bp):
GATTTCCAAGACCTTCAGGCAAAATCTTAAATTTTGAATGATTTTCAAGACCTACGAGCAAAATC
TTAAAATTTTGAAT
Found at i:20965949 original size:15 final size:15
Alignment explanation
Indices: 20965929--20965973 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
20965919 AACCTCAAAC
*
20965929 AACAAAAAAGAAAAA
1 AACAAAAAAAAAAAA
*
20965944 AGCAAAAAAAAAAAA
1 AACAAAAAAAAAAAA
20965959 AACAACAAATAAAAA
1 AACAA-AAA-AAAAA
20965974 CCTGTTAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 17 0.68
16 3 0.12
17 5 0.20
ACGTcount: A:0.84, C:0.09, G:0.04, T:0.02
Consensus pattern (15 bp):
AACAAAAAAAAAAAA
Found at i:20967676 original size:13 final size:13
Alignment explanation
Indices: 20967649--20967803 Score: 81
Period size: 13 Copynumber: 11.7 Consensus size: 13
20967639 CTTTGACCCT
*
20967649 ACCTCAAACCATAA
1 ACCT-AAACCTTAA
20967663 ACCTAAACCTTAA
1 ACCTAAACCTTAA
*
20967676 ACAC-AAACCCTAA
1 AC-CTAAACCTTAA
20967689 ACCTAAA-CTTAAA
1 ACCTAAACCTT-AA
*
20967702 ACCTAAACCCTAA
1 ACCTAAACCTTAA
20967715 ACCTTAAACC-T-A
1 ACC-TAAACCTTAA
*
20967727 ACCTTAAACCCTAAA
1 ACC-TAAA-CCTTAA
* *
20967742 TACATAAATCTTAA
1 -ACCTAAACCTTAA
20967756 ACCCTAAACC--AA
1 A-CCTAAACCTTAA
*
20967768 GCCTAGAACC-TAA
1 ACCTA-AACCTTAA
* * *
20967781 CCCCAAACCCTAA
1 ACCTAAACCTTAA
20967794 ACCCTAAACC
1 A-CCTAAACC
20967804 AACCTCCAAA
Statistics
Matches: 112, Mismatches: 15, Indels: 28
0.72 0.10 0.18
Matches are distributed among these distances:
11 4 0.04
12 22 0.20
13 49 0.44
14 30 0.27
15 5 0.04
16 2 0.02
ACGTcount: A:0.46, C:0.35, G:0.01, T:0.17
Consensus pattern (13 bp):
ACCTAAACCTTAA
Found at i:20967734 original size:26 final size:25
Alignment explanation
Indices: 20967649--20967825 Score: 121
Period size: 26 Copynumber: 6.8 Consensus size: 25
20967639 CTTTGACCCT
*
20967649 ACCTCAAACCATAAACCTAAACCTTA
1 ACCTCAAACCCTAAACCTAAACC-TA
* * *
20967675 AACACAAACCCTAAACCTAAACTTAAA
1 ACCTCAAACCCTAAACCTAAACCT--A
20967702 ACCT-AAACCCTAAACCTTAAACCTA
1 ACCTCAAACCCTAAACC-TAAACCTA
* * *
20967727 ACCTTAAACCCTAAATACATAAATCTTAA
1 ACCTCAAACCCT-AA-ACCTAAA-CCT-A
*
20967756 ACC-CTAAA-CC-AAGCCTAGAACCTA
1 ACCTC-AAACCCTAAACCTA-AACCTA
*
20967780 ACCCCAAACCCTAAACCCTAAACC-A
1 ACCTCAAACCCTAAA-CCTAAACCTA
*
20967805 ACCTCCAAACCCTAAAACTAA
1 ACCT-CAAACCCTAAACCTAA
20967826 CATTTTACCC
Statistics
Matches: 120, Mismatches: 16, Indels: 31
0.72 0.10 0.19
Matches are distributed among these distances:
24 7 0.06
25 22 0.18
26 59 0.49
27 19 0.16
28 6 0.05
29 7 0.06
ACGTcount: A:0.47, C:0.35, G:0.01, T:0.17
Consensus pattern (25 bp):
ACCTCAAACCCTAAACCTAAACCTA
Found at i:20967822 original size:8 final size:7
Alignment explanation
Indices: 20967654--20967803 Score: 88
Period size: 7 Copynumber: 22.7 Consensus size: 7
20967644 ACCCTACCTC
*
20967654 AAACCAT
1 AAACCCT
20967661 AAA-CCT
1 AAACCCT
*
20967667 AAACCTT
1 AAACCCT
*
20967674 AAACAC-
1 AAACCCT
20967680 AAACCCT
1 AAACCCT
20967687 AAA-CCT
1 AAACCCT
*
20967693 AAA-CTT
1 AAACCCT
*
20967699 AAAACCT
1 AAACCCT
20967706 AAACCCT
1 AAACCCT
*
20967713 AAACCTT
1 AAACCCT
20967720 AAA-CCT
1 AAACCCT
*
20967726 -AACCTT
1 AAACCCT
20967732 AAACCCT
1 AAACCCT
* *
20967739 AAATACAT
1 AAA-CCCT
* *
20967747 AAATCTT
1 AAACCCT
20967754 AAACCCT
1 AAACCCT
20967761 AAA-CC-
1 AAACCCT
*
20967766 -AAGCCT
1 AAACCCT
20967772 AGAA-CCT
1 A-AACCCT
*
20967779 -AACCCC
1 AAACCCT
20967785 AAACCCT
1 AAACCCT
20967792 AAACCCT
1 AAACCCT
20967799 AAACC
1 AAACC
20967804 AACCTCCAAA
Statistics
Matches: 111, Mismatches: 20, Indels: 24
0.72 0.13 0.15
Matches are distributed among these distances:
4 2 0.02
5 6 0.05
6 29 0.26
7 67 0.60
8 7 0.06
ACGTcount: A:0.47, C:0.34, G:0.01, T:0.17
Consensus pattern (7 bp):
AAACCCT
Found at i:20980423 original size:22 final size:22
Alignment explanation
Indices: 20980398--20980445 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
20980388 GATACAACAT
*
20980398 AAATATAATTATAACAAATTAC
1 AAATATAATTATAAAAAATTAC
* *
20980420 AAATTTACTTATAAAAAATTAC
1 AAATATAATTATAAAAAATTAC
20980442 AAAT
1 AAAT
20980446 TCACATTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.33
Consensus pattern (22 bp):
AAATATAATTATAAAAAATTAC
Found at i:20980590 original size:15 final size:13
Alignment explanation
Indices: 20980566--20980609 Score: 56
Period size: 12 Copynumber: 3.4 Consensus size: 13
20980556 TATAAAAATT
20980566 AAAAAA-AAAAAC
1 AAAAAATAAAAAC
20980578 AAGAAAATTAAAAAC
1 AA-AAAA-TAAAAAC
20980593 AAAAAAT-AAAAC
1 AAAAAATAAAAAC
20980605 AAAAA
1 AAAAA
20980610 TATCAAAGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
12 12 0.41
13 5 0.17
14 4 0.14
15 8 0.28
ACGTcount: A:0.84, C:0.07, G:0.02, T:0.07
Consensus pattern (13 bp):
AAAAAATAAAAAC
Found at i:20982852 original size:8 final size:8
Alignment explanation
Indices: 20982841--20983122 Score: 144
Period size: 8 Copynumber: 35.6 Consensus size: 8
20982831 AATTTCAAGA
20982841 TTTTAGGG
1 TTTTAGGG
*
20982849 TTTTAAGG
1 TTTTAGGG
20982857 TTTTAGGG
1 TTTTAGGG
***
20982865 TTTTAAAA
1 TTTTAGGG
20982873 TTTTAGGG
1 TTTTAGGG
* * *
20982881 TATTAAGA
1 TTTTAGGG
*
20982889 TTCTAGGG
1 TTTTAGGG
*
20982897 -TTTCGAGG
1 TTTTAG-GG
* *
20982905 TTTTAAGA
1 TTTTAGGG
* *
20982913 TTTCAAGG
1 TTTTAGGG
*
20982921 TTTT-GAGA
1 TTTTAG-GG
*
20982929 TTTTAGGA
1 TTTTAGGG
20982937 TTTTAGGG
1 TTTTAGGG
*
20982945 TTTCAGGG
1 TTTTAGGG
**
20982953 TTTTAGAA
1 TTTTAGGG
* *
20982961 TTTTAAGA
1 TTTTAGGG
20982969 TTTTAGGG
1 TTTTAGGG
*
20982977 TTTCAGGG
1 TTTTAGGG
20982985 TTTTAGGG
1 TTTTAGGG
*
20982993 TTTTAGGA
1 TTTTAGGG
* *
20983001 TTTTAAGA
1 TTTTAGGG
*
20983009 TTTTAGGA
1 TTTTAGGG
* *
20983017 TTTCAAGG
1 TTTTAGGG
20983025 TTTTAGGG
1 TTTTAGGG
***
20983033 TTTTAAAA
1 TTTTAGGG
20983041 TTTT-GGG
1 TTTTAGGG
*
20983048 TTTTCAAGG
1 TTTT-AGGG
*
20983057 TTTTAGGA
1 TTTTAGGG
*
20983065 TTTTAGTG
1 TTTTAGGG
20983073 -TTTAGGG
1 TTTTAGGG
*
20983080 -TTTAAGG
1 TTTTAGGG
*
20983087 TTTTAGGC
1 TTTTAGGG
** *
20983095 TTCCAGAG
1 TTTTAGGG
20983103 -TTTAGGG
1 TTTTAGGG
*
20983110 TTTTAAGG
1 TTTTAGGG
20983118 TTTTA
1 TTTTA
20983123 AAAGATTCAA
Statistics
Matches: 199, Mismatches: 67, Indels: 16
0.71 0.24 0.06
Matches are distributed among these distances:
7 23 0.12
8 166 0.83
9 10 0.05
ACGTcount: A:0.23, C:0.04, G:0.27, T:0.47
Consensus pattern (8 bp):
TTTTAGGG
Found at i:20982860 original size:16 final size:16
Alignment explanation
Indices: 20982841--20983160 Score: 170
Period size: 16 Copynumber: 20.7 Consensus size: 16
20982831 AATTTCAAGA
20982841 TTTTAGGGTTTTAAGG
1 TTTTAGGGTTTTAAGG
**
20982857 TTTTAGGGTTTTAAAA
1 TTTTAGGGTTTTAAGG
* *
20982873 TTTTAGGGTATTAAGA
1 TTTTAGGGTTTTAAGG
* **
20982889 TTCTAGGGTTTCGAGG
1 TTTTAGGGTTTTAAGG
* * *
20982905 TTTTAAGATTTCAAGG
1 TTTTAGGGTTTTAAGG
*
20982921 TTTT-GAGATTTT-AGG
1 TTTTAG-GGTTTTAAGG
* *
20982936 ATTTTAGGGTTTCAGGG
1 -TTTTAGGGTTTTAAGG
** *
20982953 TTTTAGAATTTTAAGA
1 TTTTAGGGTTTTAAGG
* *
20982969 TTTTAGGGTTTCAGGG
1 TTTTAGGGTTTTAAGG
20982985 TTTTAGGGTTTT-AGG
1 TTTTAGGGTTTTAAGG
*
20983000 ----A---TTTTAAGA
1 TTTTAGGGTTTTAAGG
* *
20983009 TTTTAGGATTTCAAGG
1 TTTTAGGGTTTTAAGG
**
20983025 TTTTAGGGTTTTAAAA
1 TTTTAGGGTTTTAAGG
20983041 TTTT-GGGTTTTCAAGG
1 TTTTAGGGTTTT-AAGG
*
20983057 TTTTAGGATTTT-A-G
1 TTTTAGGGTTTTAAGG
20983071 TGTTTAGGG-TTTAAGG
1 T-TTTAGGGTTTTAAGG
* **
20983087 TTTTA-GGCTTCCAGAG
1 TTTTAGGGTTTTAAG-G
20983103 -TTTAGGGTTTTAAGG
1 TTTTAGGGTTTTAAGG
** * *
20983118 TTTTAAAAGATTCAAGG
1 TTTT-AGGGTTTTAAGG
*
20983135 -TTTAAGGTTTTAAGG
1 TTTTAGGGTTTTAAGG
*
20983150 TTTCAGGGTTT
1 TTTTAGGGTTT
20983161 AGTGTTTTAG
Statistics
Matches: 226, Mismatches: 55, Indels: 46
0.69 0.17 0.14
Matches are distributed among these distances:
8 4 0.02
9 2 0.01
11 1 0.00
13 1 0.00
14 7 0.03
15 42 0.19
16 152 0.67
17 17 0.08
ACGTcount: A:0.23, C:0.04, G:0.27, T:0.46
Consensus pattern (16 bp):
TTTTAGGGTTTTAAGG
Found at i:20982993 original size:40 final size:40
Alignment explanation
Indices: 20982921--20983044 Score: 185
Period size: 40 Copynumber: 3.1 Consensus size: 40
20982911 GATTTCAAGG
* * *
20982921 TTTTGAGATTTTAGGATTTTAGGGTTTCAGGGTTTTAGAA
1 TTTTAAGATTTTAGGATTTCAGGGTTTTAGGGTTTTAGAA
* *
20982961 TTTTAAGATTTTAGGGTTTCAGGGTTTTAGGGTTTTAGGA
1 TTTTAAGATTTTAGGATTTCAGGGTTTTAGGGTTTTAGAA
* *
20983001 TTTTAAGATTTTAGGATTTCAAGGTTTTAGGGTTTTAAAA
1 TTTTAAGATTTTAGGATTTCAGGGTTTTAGGGTTTTAGAA
20983041 TTTT
1 TTTT
20983045 GGGTTTTCAA
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 75 1.00
ACGTcount: A:0.23, C:0.02, G:0.25, T:0.49
Consensus pattern (40 bp):
TTTTAAGATTTTAGGATTTCAGGGTTTTAGGGTTTTAGAA
Found at i:20983123 original size:8 final size:8
Alignment explanation
Indices: 20982841--20983208 Score: 120
Period size: 8 Copynumber: 46.4 Consensus size: 8
20982831 AATTTCAAGA
*
20982841 TTTTAGGG
1 TTTTAAGG
20982849 TTTTAAGG
1 TTTTAAGG
*
20982857 TTTTAGGG
1 TTTTAAGG
**
20982865 TTTTAAAA
1 TTTTAAGG
*
20982873 TTTTAGGG
1 TTTTAAGG
* *
20982881 TATTAAGA
1 TTTTAAGG
* *
20982889 TTCTAGGG
1 TTTTAAGG
**
20982897 TTTCGAGG
1 TTTTAAGG
*
20982905 TTTTAAGA
1 TTTTAAGG
*
20982913 TTTCAAGG
1 TTTTAAGG
* *
20982921 TTTTGAGA
1 TTTTAAGG
20982929 TTTT-AGG
1 TTTTAAGG
*
20982936 ATTTTAGGG
1 -TTTTAAGG
* *
20982945 TTTCAGGG
1 TTTTAAGG
*
20982953 TTTT-AGAA
1 TTTTAAG-G
*
20982961 TTTTAAGA
1 TTTTAAGG
*
20982969 TTTTAGGG
1 TTTTAAGG
* *
20982977 TTTCAGGG
1 TTTTAAGG
*
20982985 TTTTAGGG
1 TTTTAAGG
20982993 TTTT-AGG
1 TTTTAAGG
*
20983000 ATTTTAAGA
1 -TTTTAAGG
20983009 TTTT-AGG
1 TTTTAAGG
*
20983016 ATTTCAAGG
1 -TTTTAAGG
*
20983025 TTTTAGGG
1 TTTTAAGG
**
20983033 TTTTAAAA
1 TTTTAAGG
*
20983041 TTTT-GGG
1 TTTTAAGG
20983048 TTTTCAAGG
1 TTTT-AAGG
20983057 TTTT-AGG
1 TTTTAAGG
20983064 ATTTT-A-G
1 -TTTTAAGG
20983071 TGTTT-AGG
1 T-TTTAAGG
*
20983079 GTTTAAGG
1 TTTTAAGG
20983087 TTTT-AGG
1 TTTTAAGG
* **
20983094 CTTCCAGAG
1 TTTTAAG-G
*
20983103 -TTTAGGG
1 TTTTAAGG
20983110 TTTTAAGG
1 TTTTAAGG
*
20983118 TTTTAAAAG
1 TTTT-AAGG
* *
20983127 ATTCAAGG
1 TTTTAAGG
20983135 -TTTAAGG
1 TTTTAAGG
20983142 TTTTAAGG
1 TTTTAAGG
*
20983150 -TTTCAGG
1 TTTTAAGG
*
20983157 GTTT-AGTG
1 TTTTAAG-G
20983165 TTTT-AGG
1 TTTTAAGG
**
20983172 TTTTTTGGGGG
1 --TTTT-AAGG
20983183 TTTTAAGG
1 TTTTAAGG
20983191 -TTTAAGG
1 TTTTAAGG
*
20983198 TTTCAAGG
1 TTTTAAGG
20983206 TTT
1 TTT
20983209 AGGTTTATTA
Statistics
Matches: 265, Mismatches: 69, Indels: 52
0.69 0.18 0.13
Matches are distributed among these distances:
6 1 0.00
7 50 0.19
8 183 0.69
9 29 0.11
11 2 0.01
ACGTcount: A:0.23, C:0.04, G:0.27, T:0.47
Consensus pattern (8 bp):
TTTTAAGG
Found at i:20983205 original size:15 final size:14
Alignment explanation
Indices: 20983181--20983214 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
20983171 GTTTTTTGGG
*
20983181 GGTTTTAAGGTTTAA
1 GGTTTCAAGGTTT-A
20983196 GGTTTCAAGGTTTA
1 GGTTTCAAGGTTTA
20983210 GGTTT
1 GGTTT
20983215 ATTATGAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.21, C:0.03, G:0.29, T:0.47
Consensus pattern (14 bp):
GGTTTCAAGGTTTA
Found at i:20984975 original size:149 final size:147
Alignment explanation
Indices: 20984815--20985112 Score: 472
Period size: 149 Copynumber: 2.0 Consensus size: 147
20984805 TCTCATTCTC
* *
20984815 TGTGAATTCATGAGTGTGGTGGAAGTAAAGGTGAGTGATCAACCCCTGTGTTCA-TTTTCCCCTT
1 TGTGAATTCATGAGTGTAGTGGAAGTAAAGGTGAGTAATCAACCCCTGTGTTCATTTTTCCCC-T
* * *
20984879 TTTTTGTAAAACCATAATGGAACTTTTTTCTTTTTTCTTTACTTTGTTTGTAGTTGGCATTTTAA
65 CTTTTGTAAAACCAAAATGGAA-TTTTTT-TTTTTTCTTTACTTTGTTTGTAGTTGCCATTTTAA
*
20984944 AGGTTTTTTGCAGCAGTAGT
128 AGGTTTTTTGCAACAGTAGT
* *
20984964 TGTGAATTCATGAGTGTAGTGGAAGTAAGGGTGAGTAATCAACCCTTGTGTTCATTTTTCCCCTC
1 TGTGAATTCATGAGTGTAGTGGAAGTAAAGGTGAGTAATCAACCCCTGTGTTCATTTTTCCCCTC
* *
20985029 TTTTGTAAAACCAAAATTGAATTTTTTTTTTTTTTTTACTTTGTTTGTAGTTGCCATTTTAAAGG
66 TTTTGTAAAACCAAAATGGAATTTTTTTTTTTTCTTTACTTTGTTTGTAGTTGCCATTTTAAAGG
20985094 TTTTTTGCAACAGTAGT
131 TTTTTTGCAACAGTAGT
20985111 TG
1 TG
20985113 CTACATTTTG
Statistics
Matches: 138, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
147 54 0.39
148 6 0.04
149 70 0.51
150 8 0.06
ACGTcount: A:0.22, C:0.13, G:0.20, T:0.45
Consensus pattern (147 bp):
TGTGAATTCATGAGTGTAGTGGAAGTAAAGGTGAGTAATCAACCCCTGTGTTCATTTTTCCCCTC
TTTTGTAAAACCAAAATGGAATTTTTTTTTTTTCTTTACTTTGTTTGTAGTTGCCATTTTAAAGG
TTTTTTGCAACAGTAGT
Found at i:20985862 original size:22 final size:22
Alignment explanation
Indices: 20985832--20985873 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
20985822 TAAAGTATTC
20985832 TGCTCGAA-GTACTTACAAATTT
1 TGCTCGAAGGT-CTTACAAATTT
*
20985854 TGCTTGAAGGTCTTACAAAT
1 TGCTCGAAGGTCTTACAAAT
20985874 CCTGACATCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.36
Consensus pattern (22 bp):
TGCTCGAAGGTCTTACAAATTT
Found at i:20986069 original size:123 final size:123
Alignment explanation
Indices: 20985866--20986197 Score: 407
Period size: 124 Copynumber: 2.7 Consensus size: 123
20985856 CTTGAAGGTC
* * * * * *
20985866 TTACAAATCCTGACATCTACAAATGCTCATCTAGATAGAGGCTCTAGAACTTTAGAATTTAAAAT
1 TTACAAATCTTGACATCTAC-AATG-TCTTCTAGATAAAGGCTCCACAACTTTAAAATTTAAAAT
* *
20985931 ATTCTACTCAAAAGACTTATGAA-TTTGCCTAGAGGACTTAAAGATAATGCCCAAAAGTT
64 ATTCTGCTCAAAAGACTTATGAATTTTGCATAGAGGACTTAAAGATAATGCCCAAAAGTT
* * *
20985990 TTACAAATCTTAACATCTACACATGTCTTCTAAATAAAGGCTCCATAACTTTAAAATTTAAAATA
1 TTACAAATCTTGACATCTACA-ATGTCTTCTAGATAAAGGCTCCACAACTTTAAAATTTAAAATA
* * * * ** *
20986055 TTTTGCCCATAAGACTTATGAATTTTGCATGGAGGACTTCGAGATAATGCCCGAAAGTT
65 TTCTGCTCAAAAGACTTATGAATTTTGCATAGAGGACTTAAAGATAATGCCCAAAAGTT
* *
20986114 TTACAAATCTTGACATCTACAAT-TGCTGCTCTAGATTAAGGCTTCACAACTTTAAAATTTAAAA
1 TTACAAATCTTGACATCTACAATGT-CT--TCTAGATAAAGGCTCCACAACTTTAAAATTTAAAA
*
20986178 TATTCTGCTCAGAAGACTTA
63 TATTCTGCTCAAAAGACTTA
20986198 GAGATAATGT
Statistics
Matches: 178, Mismatches: 25, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
122 1 0.01
123 57 0.32
124 72 0.40
125 48 0.27
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (123 bp):
TTACAAATCTTGACATCTACAATGTCTTCTAGATAAAGGCTCCACAACTTTAAAATTTAAAATAT
TCTGCTCAAAAGACTTATGAATTTTGCATAGAGGACTTAAAGATAATGCCCAAAAGTT
Found at i:20986392 original size:40 final size:40
Alignment explanation
Indices: 20986299--20986447 Score: 135
Period size: 40 Copynumber: 3.8 Consensus size: 40
20986289 CCTGAAGTAT
* * * ** *
20986299 TTGGAAATCATTTAAAATTTTAAG-TTTTGCCCA-ATGGTC
1 TTGGAAATCATTCAAAAATCTAAGATTTTGCTTAGA-GGTA
* *
20986338 TTGGAAATCGTTCAAAAATCTAAAATTTTGCTTAGAGGTA
1 TTGGAAATCATTCAAAAATCTAAGATTTTGCTTAGAGGTA
* * * * *
20986378 TT-GAAGATCATTCAAAGATTTAAGATTTTGTTTGGAGGTT
1 TTGGAA-ATCATTCAAAAATCTAAGATTTTGCTTAGAGGTA
20986418 TTGGAAATCATTC-AAAATCTAAGATTTTGC
1 TTGGAAATCATTCAAAAATCTAAGATTTTGC
20986448 CCAAAAGTCT
Statistics
Matches: 88, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
39 36 0.41
40 48 0.55
41 4 0.05
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (40 bp):
TTGGAAATCATTCAAAAATCTAAGATTTTGCTTAGAGGTA
Found at i:20986465 original size:39 final size:39
Alignment explanation
Indices: 20986303--20986467 Score: 116
Period size: 40 Copynumber: 4.2 Consensus size: 39
20986293 AAGTATTTGG
* * * *
20986303 AAATCATTTAAAATTTTAAG-TTTTGCCCAATGGTCTTGG
1 AAATCATTCAAAA-TCTAAGATTTTGCCCAAAGGTCTTGA
* * ** * *
20986342 AAATCGTTCAAAAATCTAAAATTTTGCTTAGAGGTATTGA
1 AAATCATTC-AAAATCTAAGATTTTGCCCAAAGGTCTTGA
* * ***** * *
20986382 AGATCATTCAAAGATTTAAGATTTTGTTTGGAGGTTTTGG
1 AAATCATTCAAA-ATCTAAGATTTTGCCCAAAGGTCTTGA
*
20986422 AAATCATTCAAAATCTAAGATTTTGCCCAAAAGTCTTGA
1 AAATCATTCAAAATCTAAGATTTTGCCCAAAGGTCTTGA
20986461 AAATCAT
1 AAATCAT
20986468 GTACTTATTC
Statistics
Matches: 95, Mismatches: 28, Indels: 6
0.74 0.22 0.05
Matches are distributed among these distances:
39 39 0.41
40 56 0.59
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.37
Consensus pattern (39 bp):
AAATCATTCAAAATCTAAGATTTTGCCCAAAGGTCTTGA
Found at i:20986539 original size:23 final size:23
Alignment explanation
Indices: 20986510--20986557 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
20986500 ACTTTGAAAT
**
20986510 TTTTTCACTTCAAATTTTTTTCA
1 TTTTTCACTTCAAAAGTTTTTCA
*
20986533 TTTTTCATTTCAAAAGTTTTTCA
1 TTTTTCACTTCAAAAGTTTTTCA
20986556 TT
1 TT
20986558 CTTTGTTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.23, C:0.15, G:0.02, T:0.60
Consensus pattern (23 bp):
TTTTTCACTTCAAAAGTTTTTCA
Found at i:20986570 original size:23 final size:23
Alignment explanation
Indices: 20986526--20986570 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
20986516 ACTTCAAATT
*
20986526 TTTTTCATTTTTCATTTCAAAAG
1 TTTTTCATTTTTCATTTAAAAAG
*
20986549 TTTTTCATTCTTT-GTTTAAAAA
1 TTTTTCATT-TTTCATTTAAAAA
20986571 AACATTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.27, C:0.11, G:0.04, T:0.58
Consensus pattern (23 bp):
TTTTTCATTTTTCATTTAAAAAG
Found at i:20988354 original size:36 final size:34
Alignment explanation
Indices: 20988314--20988398 Score: 82
Period size: 36 Copynumber: 2.4 Consensus size: 34
20988304 TCCGTTTTTA
*
20988314 TTTCTTTTTCTTTTGTTTCTCCCTTTCAT-TTTATTT
1 TTTCTTTTTCTTTT-TTT-T-CCTTTCATATATATTT
* * *
20988350 TTTCTTCTTCATTTTTTTTTCTTTTATATATATTT
1 TTTCTTTTTC-TTTTTTTTCCTTTCATATATATTT
20988385 TTTCATTTTTCTTT
1 TTTC-TTTTTCTTT
20988399 CTCTCATGTT
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
34 6 0.15
35 14 0.34
36 17 0.41
37 4 0.10
ACGTcount: A:0.09, C:0.15, G:0.01, T:0.74
Consensus pattern (34 bp):
TTTCTTTTTCTTTTTTTTCCTTTCATATATATTT
Found at i:20989606 original size:11 final size:11
Alignment explanation
Indices: 20989582--20989620 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
20989572 TAAAAGAAAA
20989582 CTTTTTT-TCT
1 CTTTTTTCTCT
20989592 -TTTTTTCTCT
1 CTTTTTTCTCT
*
20989602 CTTTTTTCTTT
1 CTTTTTTCTCT
20989613 CTTTTTTC
1 CTTTTTTC
20989621 AAGACACTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
9 6 0.23
10 3 0.12
11 17 0.65
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (11 bp):
CTTTTTTCTCT
Found at i:20992043 original size:36 final size:36
Alignment explanation
Indices: 20991994--20992104 Score: 143
Period size: 36 Copynumber: 3.1 Consensus size: 36
20991984 ATGTAATGCT
* * *
20991994 TGTATTACTATCAAGATATGCATAAGATGAGGTGTA
1 TGTACTACCATCAAGATATGCATGAGATGAGGTGTA
* *
20992030 TGTACTACCATCAAAATGTGCATGAGATG-GAGTGTA
1 TGTACTACCATCAAGATATGCATGAGATGAG-GTGTA
* *
20992066 TGTACTACCATGAAGATATGCATGAGATGAGGTATA
1 TGTACTACCATCAAGATATGCATGAGATGAGGTGTA
20992102 TGT
1 TGT
20992105 TCTATCTTAT
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
35 1 0.02
36 62 0.97
37 1 0.02
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.31
Consensus pattern (36 bp):
TGTACTACCATCAAGATATGCATGAGATGAGGTGTA
Found at i:20994326 original size:40 final size:40
Alignment explanation
Indices: 20994278--20994361 Score: 123
Period size: 40 Copynumber: 2.1 Consensus size: 40
20994268 AAGGCTTTGC
*
20994278 TTAAGGTTTTAGGATTCTAGGGTTTCAAGGTTTTAGGATT
1 TTAAGGTTTTAGGATTCTAGGGTTTCAAGGTTTCAGGATT
** * *
20994318 TTAAGGTTTTTTGATTTTAGGGTTTTAAGGTTTCAGGATT
1 TTAAGGTTTTAGGATTCTAGGGTTTCAAGGTTTCAGGATT
20994358 TTAA
1 TTAA
20994362 TGCTTAGGGT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.23, C:0.04, G:0.25, T:0.49
Consensus pattern (40 bp):
TTAAGGTTTTAGGATTCTAGGGTTTCAAGGTTTCAGGATT
Found at i:20994333 original size:16 final size:16
Alignment explanation
Indices: 20994279--20994496 Score: 83
Period size: 16 Copynumber: 13.6 Consensus size: 16
20994269 AGGCTTTGCT
*
20994279 TAAGGTTTTAGGATTC
1 TAAGGTTTTAGGATTT
* *
20994295 TAGGGTTTCAAGG-TTT
1 TAAGGTTT-TAGGATTT
20994311 T-AGGATTTTAAGG-TTT
1 TAAGG-TTTT-AGGATTT
** * *
20994327 TTTGATTTTAGGGTTT
1 TAAGGTTTTAGGATTT
*
20994343 TAAGGTTTCAGGATTT
1 TAAGGTTTTAGGATTT
* * * *
20994359 TAATG-CTTAGGGTCT
1 TAAGGTTTTAGGATTT
*
20994374 T-AGGTTTTTAAGATTT
1 TAAGG-TTTTAGGATTT
* ** *
20994390 CAAAACTTTTAAGATTT
1 -TAAGGTTTTAGGATTT
*
20994407 TAAGGTTTTAGGGTTT
1 TAAGGTTTTAGGATTT
**
20994423 TGGGGTTTT-GGAGTTT
1 TAAGGTTTTAGGA-TTT
*
20994439 T-AGGATTTTAAGATTT
1 TAAGG-TTTTAGGATTT
** *
20994455 TAAAATTTCAAGG-TTT
1 TAAGGTTT-TAGGATTT
*
20994471 TAAGGTTTTAAGATTT
1 TAAGGTTTTAGGATTT
20994487 TAAGGTTTTA
1 TAAGGTTTTA
20994497 ATGTTTTAGG
Statistics
Matches: 144, Mismatches: 43, Indels: 30
0.66 0.20 0.14
Matches are distributed among these distances:
14 2 0.01
15 18 0.12
16 103 0.72
17 20 0.14
18 1 0.01
ACGTcount: A:0.25, C:0.04, G:0.23, T:0.48
Consensus pattern (16 bp):
TAAGGTTTTAGGATTT
Found at i:20994497 original size:16 final size:16
Alignment explanation
Indices: 20994396--20994497 Score: 91
Period size: 16 Copynumber: 6.4 Consensus size: 16
20994386 ATTTCAAAAC
20994396 TTTTAAGATTTTAAGG
1 TTTTAAGATTTTAAGG
* * **
20994412 TTTTAGGGTTTTGGGG
1 TTTTAAGATTTTAAGG
*
20994428 TTTT-GGAGTTTT-AGG
1 TTTTAAGA-TTTTAAGG
**
20994443 ATTTTAAGATTTTAAAA
1 -TTTTAAGATTTTAAGG
* *
20994460 TTTCAAGGTTTTAAGG
1 TTTTAAGATTTTAAGG
20994476 TTTTAAGATTTTAAGG
1 TTTTAAGATTTTAAGG
20994492 TTTTAA
1 TTTTAA
20994498 TGTTTTAGGA
Statistics
Matches: 67, Mismatches: 15, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
15 4 0.06
16 60 0.90
17 3 0.04
ACGTcount: A:0.26, C:0.01, G:0.23, T:0.50
Consensus pattern (16 bp):
TTTTAAGATTTTAAGG
Found at i:20994518 original size:24 final size:24
Alignment explanation
Indices: 20994278--20994512 Score: 122
Period size: 24 Copynumber: 9.8 Consensus size: 24
20994268 AAGGCTTTGC
* * *
20994278 TTAAGGTTTTAGGATTCTAGGGTT
1 TTAAGGTTTTAAGATTTTAAGGTT
* *
20994302 TCAAGGTTTTAGGATTTTAAGGTT
1 TTAAGGTTTTAAGATTTTAAGGTT
** * * *
20994326 TTTTGATTTTAGGGTTTTAAGG-T
1 TTAAGGTTTTAAGATTTTAAGGTT
* * * *
20994349 TTCAGGATTTT-A-ATGCTTAGGGTC
1 TTAAGG-TTTTAAGAT-TTTAAGGTT
* **
20994373 TT-AGGTTTTTAAGATTTCAAAACTT
1 TTAAGG-TTTTAAGATTT-TAAGGTT
* * *
20994398 TTAAGATTTTAAGGTTTTAGGGTT
1 TTAAGGTTTTAAGATTTTAAGGTT
** *
20994422 TTGGGGTTTT-GGAGTTTT-AGGATT
1 TTAAGGTTTTAAGA-TTTTAAGG-TT
* * *
20994446 TTAAGATTTTAAAATTTCAAGGTT
1 TTAAGGTTTTAAGATTTTAAGGTT
20994470 TTAAGGTTTTAAGATTTTAAGGTT
1 TTAAGGTTTTAAGATTTTAAGGTT
* *
20994494 TTAATGTTTTAGGATTTTA
1 TTAAGGTTTTAAGATTTTA
20994513 GTGTTTAGGG
Statistics
Matches: 154, Mismatches: 46, Indels: 22
0.69 0.21 0.10
Matches are distributed among these distances:
22 1 0.01
23 19 0.12
24 112 0.73
25 20 0.13
26 2 0.01
ACGTcount: A:0.25, C:0.03, G:0.23, T:0.49
Consensus pattern (24 bp):
TTAAGGTTTTAAGATTTTAAGGTT
Found at i:20994629 original size:17 final size:17
Alignment explanation
Indices: 20994607--20994651 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
20994597 CAGTTTCAAG
*
20994607 TTTTAGGTTTTTAGGGC
1 TTTTAGGTTTTCAGGGC
* * *
20994624 TTTTAGGATTGCAGGGT
1 TTTTAGGTTTTCAGGGC
20994641 TTTTAGGTTTT
1 TTTTAGGTTTT
20994652 AAAGTTTTAG
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.13, C:0.04, G:0.29, T:0.53
Consensus pattern (17 bp):
TTTTAGGTTTTCAGGGC
Found at i:20994666 original size:8 final size:8
Alignment explanation
Indices: 20994282--20994560 Score: 64
Period size: 8 Copynumber: 35.1 Consensus size: 8
20994272 CTTTGCTTAA
20994282 GGTTTTAG
1 GGTTTTAG
* *
20994290 GATTCTAG
1 GGTTTTAG
* *
20994298 GGTTTCAA
1 GGTTTTAG
20994306 GGTTTTAG
1 GGTTTTAG
* *
20994314 GATTTTAA
1 GGTTTTAG
**
20994322 GGTTTTTT
1 GGTTTTAG
*
20994330 GATTTTAG
1 GGTTTTAG
*
20994338 GGTTTTAA
1 GGTTTTAG
*
20994346 GGTTTCAG
1 GGTTTTAG
* *
20994354 GATTTTAA
1 GGTTTTAG
* *
20994362 TG-CTTAG
1 GGTTTTAG
*
20994369 GGTCTTAG
1 GGTTTTAG
* *
20994377 GTTTTTAA
1 GGTTTTAG
* * *
20994385 GATTTCAAA
1 GGTTT-TAG
** *
20994394 ACTTTTAA
1 GGTTTTAG
* *
20994402 GATTTTAA
1 GGTTTTAG
20994410 GGTTTTAG
1 GGTTTTAG
*
20994418 GGTTTTGG
1 GGTTTTAG
20994426 GGTTTT-G
1 GGTTTTAG
20994433 GAGTTTTAG
1 G-GTTTTAG
* *
20994442 GATTTTAA
1 GGTTTTAG
* *
20994450 GATTTTAA
1 GGTTTTAG
** * *
20994458 AATTTCAA
1 GGTTTTAG
*
20994466 GGTTTTAA
1 GGTTTTAG
*
20994474 GGTTTTAA
1 GGTTTTAG
* *
20994482 GATTTTAA
1 GGTTTTAG
*
20994490 GGTTTTAA
1 GGTTTTAG
*
20994498 TGTTTTAG
1 GGTTTTAG
*
20994506 GATTTTAG
1 GGTTTTAG
*
20994514 TG-TTTAG
1 GGTTTTAG
*
20994521 GG-TTTAA
1 GGTTTTAG
*
20994528 AG-TTTAG
1 GGTTTTAG
*
20994535 GGGTTTAG
1 GGTTTTAG
**
20994543 AATTTTTAG
1 -GGTTTTAG
20994552 GGTTTTAG
1 GGTTTTAG
20994560 G
1 G
20994561 TTCAAAGTTT
Statistics
Matches: 199, Mismatches: 66, Indels: 12
0.72 0.24 0.04
Matches are distributed among these distances:
7 22 0.11
8 165 0.83
9 12 0.06
ACGTcount: A:0.24, C:0.03, G:0.25, T:0.48
Consensus pattern (8 bp):
GGTTTTAG
Found at i:20994735 original size:23 final size:23
Alignment explanation
Indices: 20994648--20994724 Score: 73
Period size: 23 Copynumber: 3.3 Consensus size: 23
20994638 GGTTTTTAGG
* * * *
20994648 TTTTAAAGTTTTAGGGTTTAAAA
1 TTTTAAGGTTTCAAGGTTTAAGA
* * *
20994671 TTTCAAGGGTTCATGGTTTAAGA
1 TTTTAAGGTTTCAAGGTTTAAGA
* *
20994694 TTTTAAGGTTTCAAGGTTTAGGG
1 TTTTAAGGTTTCAAGGTTTAAGA
20994717 TTTTAAGG
1 TTTTAAGG
20994725 CTTTTAGGTT
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.27, C:0.04, G:0.25, T:0.44
Consensus pattern (23 bp):
TTTTAAGGTTTCAAGGTTTAAGA
Found at i:20994992 original size:3 final size:3
Alignment explanation
Indices: 20994984--20995010 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
20994974 GATAAAAGAA
20994984 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
20995011 TATTTTTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:20995341 original size:24 final size:24
Alignment explanation
Indices: 20995309--20995372 Score: 71
Period size: 24 Copynumber: 2.7 Consensus size: 24
20995299 GATTTTCAAA
*
20995309 TTTATTTTTACTTAAAAGTA-TTCT
1 TTTATTTTTACTTAAAA-TATTTAT
20995333 TTTATTTTTAC--AAAATATTTAT
1 TTTATTTTTACTTAAAATATTTAT
20995355 TTGTATTTTTGACTTAAA
1 TT-TATTTTT-ACTTAAA
20995373 CTAAAAGAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
21 2 0.06
22 9 0.26
23 7 0.21
24 13 0.38
26 3 0.09
ACGTcount: A:0.31, C:0.06, G:0.05, T:0.58
Consensus pattern (24 bp):
TTTATTTTTACTTAAAATATTTAT
Found at i:20995399 original size:22 final size:22
Alignment explanation
Indices: 20995369--20995422 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
20995359 ATTTTTGACT
*
20995369 TAAACTAAAAGAAAACAAATATG
1 TAAA-TAAAAGAAAACAAATATA
* *
20995392 TAAATAAATGTAAACAAATATA
1 TAAATAAAAGAAAACAAATATA
20995414 TAAATAAAA
1 TAAATAAAA
20995423 CTTAGTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
22 23 0.85
23 4 0.15
ACGTcount: A:0.67, C:0.06, G:0.06, T:0.22
Consensus pattern (22 bp):
TAAATAAAAGAAAACAAATATA
Found at i:20997495 original size:18 final size:18
Alignment explanation
Indices: 20997472--20997510 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
20997462 TTTCAAATAT
20997472 ATAATTTGATTCTTAAAA
1 ATAATTTGATTCTTAAAA
20997490 ATAATTTGATTCTTAAAA
1 ATAATTTGATTCTTAAAA
20997508 ATA
1 ATA
20997511 TATAATAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (18 bp):
ATAATTTGATTCTTAAAA
Found at i:20997532 original size:22 final size:23
Alignment explanation
Indices: 20997507--20997560 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
20997497 GATTCTTAAA
20997507 AATATATA-ATAATAAAATACAT
1 AATATATATATAATAAAATACAT
* *
20997529 AATAT-TATATAATAATATATAT
1 AATATATATATAATAAAATACAT
20997551 AATATATATA
1 AATATATATA
20997561 AAAATCGATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 2 0.07
22 22 0.79
23 4 0.14
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (23 bp):
AATATATATATAATAAAATACAT
Found at i:21001295 original size:71 final size:71
Alignment explanation
Indices: 21001179--21001314 Score: 245
Period size: 71 Copynumber: 1.9 Consensus size: 71
21001169 ATTTGGGTCC
* * *
21001179 TTATTTTTGTAAATTATTACTTACTGTGTTTTATTATGCATTATGATTTATAGATATTCATTTTT
1 TTATTATTGTAAATTATTACGTACAGTGTTTTATTATGCATTATGATTTATAGATATTCATTTTT
21001244 AATCGT
66 AATCGT
21001250 TTATTATTGTAAATTATTACGTACAGTGTTTTATTATGCATTATGATTTATAGATATTCATTTTT
1 TTATTATTGTAAATTATTACGTACAGTGTTTTATTATGCATTATGATTTATAGATATTCATTTTT
21001315 CATCTTTGGC
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
71 62 1.00
ACGTcount: A:0.28, C:0.07, G:0.10, T:0.55
Consensus pattern (71 bp):
TTATTATTGTAAATTATTACGTACAGTGTTTTATTATGCATTATGATTTATAGATATTCATTTTT
AATCGT
Found at i:21011156 original size:25 final size:25
Alignment explanation
Indices: 21011100--21011156 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 25
21011090 ATCAGCATTG
* * * *
21011100 TATTCAGACACACCTTTTAGCAAAC
1 TATTCAGAAACACCATTCAACAAAC
* *
21011125 CACTCAGAAACACCATTCAACAAAC
1 TATTCAGAAACACCATTCAACAAAC
21011150 TATTCAG
1 TATTCAG
21011157 CATACGATTC
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.40, C:0.30, G:0.07, T:0.23
Consensus pattern (25 bp):
TATTCAGAAACACCATTCAACAAAC
Found at i:21011281 original size:80 final size:80
Alignment explanation
Indices: 21011145--21011472 Score: 410
Period size: 80 Copynumber: 4.1 Consensus size: 80
21011135 CACCATTCAA
* * * *
21011145 CAAACTATTCAGCATACGATTCAGCCCCCTAATATCATAGAAAATCATTCAACAAAACAATATCA
1 CAAACCATTCAGCATACGATTCAGCCCCCTAATATCATACAAAACCATTCAGCAAAACAATATCA
21011210 GACAACAAGGTTTAG
66 GACAACAAGGTTTAG
* * *
21011225 CAAACCATTCAGCATATGATTCAATCCCCC-AATATCATATAAAACCATTCAGCAAAACAATATC
1 CAAACCATTCAGCATACGATTC-AGCCCCCTAATATCATACAAAACCATTCAGCAAAACAATATC
* *
21011289 AAACAACAAGATTTAG
65 AGACAACAAGGTTTAG
* * * **
21011305 CAAACCATTCAGCATATGATGT-AGCCCCCCTAATATTATACAATACCATTTTGCAAAACAATAT
1 CAAACCATTCAGCATACGAT-TCAG-CCCCCTAATATCATACAAAACCATTCAGCAAAACAATAT
*
21011369 CAGATAACAAGGTTTAG
64 CAGACAACAAGGTTTAG
* * * * *
21011386 CAAACCATTCAGTATACGATTCAGCCCCC-AATATCTTACAATACCATTCAGCAAAACAATGTTA
1 CAAACCATTCAGCATACGATTCAGCCCCCTAATATCATACAAAACCATTCAGCAAAACAATATCA
*
21011450 GATAACAAGGTTTAG
66 GACAACAAGGTTTAG
*
21011465 CAATCCAT
1 CAAACCAT
21011473 AATATTTAAG
Statistics
Matches: 217, Mismatches: 26, Indels: 11
0.85 0.10 0.04
Matches are distributed among these distances:
79 52 0.24
80 96 0.44
81 69 0.32
ACGTcount: A:0.42, C:0.24, G:0.09, T:0.24
Consensus pattern (80 bp):
CAAACCATTCAGCATACGATTCAGCCCCCTAATATCATACAAAACCATTCAGCAAAACAATATCA
GACAACAAGGTTTAG
Found at i:21011310 original size:40 final size:40
Alignment explanation
Indices: 21011190--21011318 Score: 109
Period size: 40 Copynumber: 3.2 Consensus size: 40
21011180 CATAGAAAAT
* * *
21011190 CATTCAACAAAACAATATCAGACAACAAGGTTTAGCAAAC
1 CATTCAGCAAAACAATATCAAACAACAAGATTTAGCAAAC
* ** * ** * * **
21011230 CATTCAGC-ATATGAT-TCAATCCCCCAATATCATATAAAAC
1 CATTCAGCAAAACAATATCAA-ACAACAAGAT-TTAGCAAAC
21011270 CATTCAGCAAAACAATATCAAACAACAAGATTTAGCAAAC
1 CATTCAGCAAAACAATATCAAACAACAAGATTTAGCAAAC
21011310 CATTCAGCA
1 CATTCAGCA
21011319 TATGATGTAG
Statistics
Matches: 62, Mismatches: 23, Indels: 8
0.67 0.25 0.09
Matches are distributed among these distances:
38 3 0.05
39 9 0.15
40 36 0.58
41 10 0.16
42 4 0.06
ACGTcount: A:0.47, C:0.25, G:0.08, T:0.21
Consensus pattern (40 bp):
CATTCAGCAAAACAATATCAAACAACAAGATTTAGCAAAC
Found at i:21012500 original size:187 final size:186
Alignment explanation
Indices: 21012150--21012489 Score: 412
Period size: 187 Copynumber: 1.8 Consensus size: 186
21012140 TATAACAAAT
* * *
21012150 TATTGAAGGCGTTTTATAATAAAAAATGCCTTTAATAATCTCAAAAATTTTTTAAAAGAAATTAT
1 TATTGAAAGCGTTTTATAATAAAAAACGCCTTTAATAATCCCAAAAA-TTTTTAAAAGAAATTAT
* ** ** * *
21012215 TGAAGGCGGTTATTATCTGCAAATGCCTTCACTAATTATCTATAAAATTTAAAAAGAATTATTAA
65 TGAAAGCGGTTATTATCAACAAACACCTTCAATAATTATCTACAAAATTTAAAAAGAATTATTAA
* * * * *
21012280 AGGTATTTTTTTTGAATATACGCATTCAATAATCGTGTTAAAATTTGTGTAGCTGTA
130 AGGCATTTTTGTAGAAGACACGCATTCAATAATCGTGTTAAAATTTGTGTAGCTGTA
* *
21012337 TATTGAAAGCGTTTTATAGTAGAAAACGCCTTTAATAATCCCAACAAA-TTTTAAAAGGAAATTA
1 TATTGAAAGCGTTTTATAATAAAAAACGCCTTTAATAATCCCAA-AAATTTTTAAAA-GAAATTA
* * * * * *
21012401 TTGAAAGTGTTTATTATCAATAAACACCTTCAATATTTATGTACAAAATTTAAAAGGAATTATTA
64 TTGAAAGCGGTTATTATCAACAAACACCTTCAATAATTATCTACAAAATTTAAAAAGAATTATTA
*
21012466 AAGGCGTTTATTAGTAGAAGACAC
129 AAGGCATTT-TT-GTAGAAGACAC
21012490 CTTTAATAAT
Statistics
Matches: 125, Mismatches: 24, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
186 8 0.06
187 105 0.84
188 5 0.04
189 7 0.06
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.36
Consensus pattern (186 bp):
TATTGAAAGCGTTTTATAATAAAAAACGCCTTTAATAATCCCAAAAATTTTTAAAAGAAATTATT
GAAAGCGGTTATTATCAACAAACACCTTCAATAATTATCTACAAAATTTAAAAAGAATTATTAAA
GGCATTTTTGTAGAAGACACGCATTCAATAATCGTGTTAAAATTTGTGTAGCTGTA
Found at i:21012678 original size:146 final size:146
Alignment explanation
Indices: 21012394--21012670 Score: 392
Period size: 146 Copynumber: 1.9 Consensus size: 146
21012384 ATTTTAAAAG
* * *
21012394 GAAATTATTGAAAGTGTTTATTATCAATAAACACCTTCAATATTTATGTACAAAATTTAAAAGGA
1 GAAATTATTGAAAGCGTTTATTATCAAAAAACACCTTCAATATTTATGTAAAAAATTTAAAAGGA
* * * * *
21012459 ATTATTAAAGGCGTTTATTAGTAGAAGACACCTTTAATAATCTCAAAATTTTTTAAAGAAAAATT
66 ATTATTAAAGGCATTTATCAGTAGAAGACACCTTGAATAATCCCAAAACTTTTTAAAGAAAAATT
21012524 ACTAAAGGCATTTGTT
131 ACTAAAGGCATTTGTT
* * ** *
21012540 GAAATTCTTGAAGGCGTTTATTATCAAAAAATGCCTTCATTATTTATGTAAAAAATTTAAAAGGA
1 GAAATTATTGAAAGCGTTTATTATCAAAAAACACCTTCAATATTTATGTAAAAAATTTAAAAGGA
* * * * *
21012605 ATTATTGAAGGCATTTGTCAGTATAAGACGCCTTGAATAATCCCAAAACTTTTTAGAGAAAAATT
66 ATTATTAAAGGCATTTATCAGTAGAAGACACCTTGAATAATCCCAAAACTTTTTAAAGAAAAATT
21012670 A
131 A
21012671 TTGAAGGCGT
Statistics
Matches: 113, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
146 113 1.00
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (146 bp):
GAAATTATTGAAAGCGTTTATTATCAAAAAACACCTTCAATATTTATGTAAAAAATTTAAAAGGA
ATTATTAAAGGCATTTATCAGTAGAAGACACCTTGAATAATCCCAAAACTTTTTAAAGAAAAATT
ACTAAAGGCATTTGTT
Found at i:21017396 original size:13 final size:13
Alignment explanation
Indices: 21017378--21017402 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21017368 TTGTGGCTTC
21017378 ATCAACTACTAGA
1 ATCAACTACTAGA
21017391 ATCAACTACTAG
1 ATCAACTACTAG
21017403 CTATGCTAGT
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:0.44, C:0.24, G:0.08, T:0.24
Consensus pattern (13 bp):
ATCAACTACTAGA
Found at i:21022267 original size:234 final size:232
Alignment explanation
Indices: 21021739--21022419 Score: 764
Period size: 235 Copynumber: 2.9 Consensus size: 232
21021729 TCTTGCTGTC
** * * * * * *
21021739 AAATTTTACTGCCAAATTGATTTTGTGAGAAATTTTTTTTTAACGTTTTGGATTTTACGTGACGT
1 AAATTTTACAACCAAATTTATTTGGTGGGAAATTTTTTTGTAATGTTTT-GATTTTAGGTGACGT
* * * * *
21021804 TATAATTTTATCATCAATTTAAAATTTTATTTGTGACAAATTTTGTCT-AATAGATTTTAAGTGG
65 TATAATTTTGTCATCAATTTAAAATTTTATCTGTGACAAATTTTATTTGAA-AGATTTTAAGTGA
* * * *
21021868 CTTTATTAATTTTTGTCACGAATTAAACATTTTAGTTAACTATTAATGACATTGCAGTTTCATCA
129 CTTTATTAATTTATGTCACAAATGAAAC--TTTAGTTAACTATTAATGACATTGCAATTTCATCA
* * *
21021933 CATCAATGTATAGTGTTATATGACTAGAACATAAATGTTAT
192 CATCAATATATAGTGTTATATGACTAGAACATAAATGTCAA
* *
21021974 AAATTTTA-ACACCAAATTTATTTGGT-GAAAACTTTTTTTGTAATGTTTCTTATTTTAGGTGAC
1 AAATTTTACA-ACCAAATTTATTTGGTGGGAAA-TTTTTTTGTAATGTTT-TGATTTTAGGTGAC
*
21022037 GTTATAATTTTGTCAAT-AATTTAAAATTTTATCTATGACAAATTTT-TTTGAAAGATTTTAAGT
63 GTTATAATTTTGTC-ATCAATTTAAAATTTTATCTGTGACAAATTTTATTTGAAAGATTTTAAGT
* **
21022100 GACATTATTAATTTATGTCACAAATGAATACTTTAGTTAACTATTAATGACATTGCAATTTTGTC
127 GACTTTATTAATTTATGTCACAAATGAA-ACTTTAGTTAACTATTAATGACATTGCAATTTCATC
*
21022165 ACATCAATATAT-GTTGTTATATGA-TGATAACATAAATGTCACA
191 ACATCAATATATAG-TGTTATATGACT-AGAACATAAATGTCA-A
* * * *
21022208 AAATTTTACAACCAAATTTATTTGGTGGGAAATTTTTTTGTCATATTTTAGAGTTTAGGTGACAT
1 AAATTTTACAACCAAATTTATTTGGTGGGAAATTTTTTTGTAATGTTTT-GATTTTAGGTGACGT
* ** * *
21022273 TATAATTTTGTCATCGATTTAAAATTTTATCTGTGATGAATTTTATTTGATAGATTTTAGGTGAC
65 TATAATTTTGTCATCAATTTAAAATTTTATCTGTGACAAATTTTATTTGAAAGATTTTAAGTGAC
* * * * ** *
21022338 TTTATTAATGTATGTTACAAATTGAACACTTTAGTTAATTATTAATGATATTATAATTTCATCAT
130 TTTATTAATTTATGTCACAAA-TGAA-ACTTTAGTTAACTATTAATGACATTGCAATTTCATCAC
* * *
21022403 GTTAATATATGGTGTTA
193 ATCAATATATAGTGTTA
21022420 AGGGAAAATA
Statistics
Matches: 379, Mismatches: 51, Indels: 31
0.82 0.11 0.07
Matches are distributed among these distances:
232 2 0.01
233 68 0.18
234 126 0.33
235 131 0.35
236 51 0.13
237 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.45
Consensus pattern (232 bp):
AAATTTTACAACCAAATTTATTTGGTGGGAAATTTTTTTGTAATGTTTTGATTTTAGGTGACGTT
ATAATTTTGTCATCAATTTAAAATTTTATCTGTGACAAATTTTATTTGAAAGATTTTAAGTGACT
TTATTAATTTATGTCACAAATGAAACTTTAGTTAACTATTAATGACATTGCAATTTCATCACATC
AATATATAGTGTTATATGACTAGAACATAAATGTCAA
Found at i:21023314 original size:20 final size:20
Alignment explanation
Indices: 21023289--21023363 Score: 132
Period size: 20 Copynumber: 3.8 Consensus size: 20
21023279 TTTGGATTGT
* *
21023289 TGCATTTGCATCATTTAAAA
1 TGCATTTCCATTATTTAAAA
21023309 TGCATTTCCATTATTTAAAA
1 TGCATTTCCATTATTTAAAA
21023329 TGCATTTCCATTATTTAAAA
1 TGCATTTCCATTATTTAAAA
21023349 TGCATTTCCATTATT
1 TGCATTTCCATTATT
21023364 ATCATGATAT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 53 1.00
ACGTcount: A:0.32, C:0.16, G:0.07, T:0.45
Consensus pattern (20 bp):
TGCATTTCCATTATTTAAAA
Found at i:21023670 original size:46 final size:46
Alignment explanation
Indices: 21023615--21023702 Score: 104
Period size: 46 Copynumber: 1.9 Consensus size: 46
21023605 TGTGAAACCC
* *
21023615 TAAAATTTTTCGAATGAGAATTTTTGAAATTCTCAATGTGAAATAA
1 TAAAATTTTTCGAATGAGAATATTTGAAATTCTCAAAGTGAAATAA
* ** ***
21023661 TAAAGTTTTTTTAATTTTAATATTTGAAATTCTCAAAGTGAA
1 TAAAATTTTTCGAATGAGAATATTTGAAATTCTCAAAGTGAA
21023703 TCCCTAAGTT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
46 34 1.00
ACGTcount: A:0.40, C:0.06, G:0.11, T:0.43
Consensus pattern (46 bp):
TAAAATTTTTCGAATGAGAATATTTGAAATTCTCAAAGTGAAATAA
Found at i:21023999 original size:17 final size:17
Alignment explanation
Indices: 21023950--21024001 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
21023940 AATTTTTGCG
*
21023950 AATTTAAAAATTTTGCA
1 AATTTAAAAATTTTACA
**
21023967 AATCTTTAAATTTTTTACA
1 AA--TTTAAAAATTTTACA
*
21023986 AATTTAAAGATTTTAC
1 AATTTAAAAATTTTAC
21024002 GAATCTTCAA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
17 14 0.50
19 14 0.50
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.46
Consensus pattern (17 bp):
AATTTAAAAATTTTACA
Found at i:21024098 original size:35 final size:35
Alignment explanation
Indices: 21024020--21024086 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 35
21024010 AATTCATGTG
* ** *
21024020 AATCTAAAATTCTTACAAATTTTTGAGTTTTTGCA
1 AATCTAAAAGTCTTACAAAACTTTAAGTTTTTGCA
*
21024055 AATCTAAAAGTCTTGCAAAACTTTAAGTTTTT
1 AATCTAAAAGTCTTACAAAACTTTAAGTTTTT
21024087 TATAATCTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 27 1.00
ACGTcount: A:0.36, C:0.12, G:0.09, T:0.43
Consensus pattern (35 bp):
AATCTAAAAGTCTTACAAAACTTTAAGTTTTTGCA
Found at i:21024204 original size:18 final size:18
Alignment explanation
Indices: 21024167--21024224 Score: 73
Period size: 18 Copynumber: 3.3 Consensus size: 18
21024157 AAATCTAAAG
*
21024167 TTCTTGTGAACATG-AAA
1 TTCTTGTGAATATGAAAA
*
21024184 TTCTTGCGAATATGAAAA
1 TTCTTGTGAATATGAAAA
* *
21024202 TTCTTGTAAATCTGAAAA
1 TTCTTGTGAATATGAAAA
21024220 TTCTT
1 TTCTT
21024225 ACAAATCTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
17 12 0.34
18 23 0.66
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (18 bp):
TTCTTGTGAATATGAAAA
Found at i:21024237 original size:35 final size:34
Alignment explanation
Indices: 21024141--21024267 Score: 121
Period size: 35 Copynumber: 3.6 Consensus size: 34
21024131 AATTTTTACG
* * *
21024141 AATCTAAAATTTTTACAAATCTAAAGTTCTTGTG
1 AATCTAAAATTCTTACAAATCTAAAATTCTTGTA
* * * *
21024175 AA-CATGAAATTCTTGCGAATATGAAAATTCTTGTA
1 AATC-TAAAATTCTTACAAATCT-AAAATTCTTGTA
* **
21024210 AATCTGAAAATTCTTACAAATCTAAAATTATTACA
1 AATCT-AAAATTCTTACAAATCTAAAATTCTTGTA
21024245 AATCTATAAATTCTTACAAATCT
1 AATCTA-AAATTCTTACAAATCT
21024268 TTCATTCTTA
Statistics
Matches: 74, Mismatches: 14, Indels: 9
0.76 0.14 0.09
Matches are distributed among these distances:
33 1 0.01
34 16 0.22
35 43 0.58
36 14 0.19
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (34 bp):
AATCTAAAATTCTTACAAATCTAAAATTCTTGTA
Found at i:21024243 original size:17 final size:17
Alignment explanation
Indices: 21024124--21024282 Score: 113
Period size: 17 Copynumber: 9.2 Consensus size: 17
21024114 AATTCTTGTG
* * *
21024124 AATCTGAAATTTTTACG
1 AATCTAAAATTCTTACA
*
21024141 AATCTAAAATTTTTACA
1 AATCTAAAATTCTTACA
* ***
21024158 AATCTAAAGTTCTTGTG
1 AATCTAAAATTCTTACA
* * *
21024175 AA-CATGAAATTCTTGCG
1 AATC-TAAAATTCTTACA
* **
21024192 AATATGAAAATTCTTGTA
1 AATCT-AAAATTCTTACA
21024210 AATCTGAAAATTCTTACA
1 AATCT-AAAATTCTTACA
*
21024228 AATCTAAAATTATTACA
1 AATCTAAAATTCTTACA
21024245 AATCTATAAATTCTTACA
1 AATCTA-AAATTCTTACA
***
21024263 AATCTTTCATTCTTACA
1 AATCTAAAATTCTTACA
21024280 AAT
1 AAT
21024283 ATGAGCTTTT
Statistics
Matches: 116, Mismatches: 22, Indels: 8
0.79 0.15 0.05
Matches are distributed among these distances:
16 1 0.01
17 71 0.61
18 44 0.38
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.38
Consensus pattern (17 bp):
AATCTAAAATTCTTACA
Found at i:21024397 original size:17 final size:17
Alignment explanation
Indices: 21024377--21024418 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
21024367 GAAAGTCTAG
21024377 TGAATCTTTGTA-TCTTA
1 TGAATCTTTG-AGTCTTA
*
21024394 TGAATCTTAGAGTCTTA
1 TGAATCTTTGAGTCTTA
21024411 -GAATCTTT
1 TGAATCTTT
21024419 CAATGAAACC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.26, C:0.12, G:0.14, T:0.48
Consensus pattern (17 bp):
TGAATCTTTGAGTCTTA
Found at i:21024520 original size:43 final size:43
Alignment explanation
Indices: 21024472--21024626 Score: 159
Period size: 43 Copynumber: 3.6 Consensus size: 43
21024462 ATTTAAAGTT
* * * * * *
21024472 TTTAAAATTGTTTAGCCTTTGTATAGAGGAACCCATTTTTTAA
1 TTTAAAGTTGTTTAGCCTCTGTATAAAAGAGCCCATTTATTAA
* * ***
21024515 TTTAAAGTTGTTTAGCCTCTATATAGAAGAGTTTATTTATTAA
1 TTTAAAGTTGTTTAGCCTCTGTATAAAAGAGCCCATTTATTAA
* * *
21024558 TTTAAAGTTATTTAGCCTTTGTATAAAAGAGCCCATTTCTT-A
1 TTTAAAGTTGTTTAGCCTCTGTATAAAAGAGCCCATTTATTAA
* *
21024600 TCTAAAGTTGTTTAACCTCTGTATAAA
1 TTTAAAGTTGTTTAGCCTCTGTATAAA
21024627 GGAGTTCATT
Statistics
Matches: 91, Mismatches: 21, Indels: 1
0.81 0.19 0.01
Matches are distributed among these distances:
42 24 0.26
43 67 0.74
ACGTcount: A:0.32, C:0.12, G:0.13, T:0.44
Consensus pattern (43 bp):
TTTAAAGTTGTTTAGCCTCTGTATAAAAGAGCCCATTTATTAA
Found at i:21025058 original size:19 final size:19
Alignment explanation
Indices: 21025036--21025082 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
21025026 AAAGTCCAGT
*
21025036 TAAAAAAAAAGGTCAAAAG
1 TAAAAAAAAAAGTCAAAAG
21025055 TAAAAAAAAAAGTCAAAAG
1 TAAAAAAAAAAGTCAAAAG
*
21025074 CAAAAAAAA
1 TAAAAAAAA
21025083 GGGAAAAGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.74, C:0.06, G:0.11, T:0.09
Consensus pattern (19 bp):
TAAAAAAAAAAGTCAAAAG
Found at i:21025089 original size:17 final size:17
Alignment explanation
Indices: 21025038--21025096 Score: 55
Period size: 17 Copynumber: 3.3 Consensus size: 17
21025028 AGTCCAGTTA
*
21025038 AAAAAAAAGGTCAAAAGTAA
1 AAAAAAAAGG-CAAAAG--C
*
21025058 AAAAAAAAGTCAAAAGC
1 AAAAAAAAGGCAAAAGC
* *
21025075 AAAAAAAAGGGAAAAGG
1 AAAAAAAAGGCAAAAGC
21025092 AAAAA
1 AAAAA
21025097 TCAGAAACAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
17 19 0.56
19 6 0.18
20 9 0.26
ACGTcount: A:0.73, C:0.05, G:0.17, T:0.05
Consensus pattern (17 bp):
AAAAAAAAGGCAAAAGC
Found at i:21026006 original size:6 final size:6
Alignment explanation
Indices: 21025995--21026074 Score: 65
Period size: 6 Copynumber: 12.5 Consensus size: 6
21025985 TTTGCCTTTC
21025995 TTTTTA TTTTTA -TTTTA TTTTCTAA TTTTTTA TTTTTA TTTTCT- TGTTTTA
1 TTTTTA TTTTTA TTTTTA TTTT-T-A -TTTTTA TTTTTA TTTT-TA T-TTTTA
* *
21026046 TATTTA TATTTA TATTTTA TTATTTA TTT
1 TTTTTA TTTTTA T-TTTTA TT-TTTA TTT
21026075 CTTTTAATTG
Statistics
Matches: 63, Mismatches: 2, Indels: 18
0.76 0.02 0.22
Matches are distributed among these distances:
5 5 0.08
6 34 0.54
7 18 0.29
8 2 0.03
9 4 0.06
ACGTcount: A:0.20, C:0.03, G:0.01, T:0.76
Consensus pattern (6 bp):
TTTTTA
Found at i:21026031 original size:21 final size:21
Alignment explanation
Indices: 21026001--21026056 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
21025991 TTTCTTTTTA
21026001 TTTTTA-TTTTATTTTCTAAT
1 TTTTTATTTTTATTTTCTAAT
**
21026021 TTTTTATTTTTATTTTCTTGT
1 TTTTTATTTTTATTTTCTAAT
* *
21026042 TTTATATTTATATTT
1 TTTTTATTTTTATTT
21026057 ATATTTTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 6 0.19
21 25 0.81
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.77
Consensus pattern (21 bp):
TTTTTATTTTTATTTTCTAAT
Found at i:21026044 original size:20 final size:20
Alignment explanation
Indices: 21026001--21026074 Score: 73
Period size: 19 Copynumber: 3.8 Consensus size: 20
21025991 TTTCTTTTTA
21026001 TTTTTA-TTTTATTTTCTAAT
1 TTTTTATTTTTATTTTCT-AT
21026021 TTTTTATTTTTATTTTCT-T
1 TTTTTATTTTTATTTTCTAT
* * *
21026040 GTTTTATATTTATATT-TAT
1 TTTTTATTTTTATTTTCTAT
*
21026059 ATTTTATTATTTATTT
1 TTTTTATT-TTTATTT
21026075 CTTTTAATTG
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
18 1 0.02
19 21 0.47
20 12 0.27
21 11 0.24
ACGTcount: A:0.20, C:0.03, G:0.01, T:0.76
Consensus pattern (20 bp):
TTTTTATTTTTATTTTCTAT
Found at i:21026191 original size:24 final size:23
Alignment explanation
Indices: 21026161--21026302 Score: 130
Period size: 24 Copynumber: 6.0 Consensus size: 23
21026151 GATATATTTG
*
21026161 CATGATATGATTCTATATTTATTA
1 CATGATAT-ATTATATATTTATTA
* *
21026185 CATGATATAATTTTATATTTATTG
1 CATGATAT-ATTATATATTTATTA
*
21026209 CATGATATGATTATATATTTATTTG
1 CATGATAT-ATTATATATTTA-TTA
*
21026234 TATGATTATATT-TA-ATTTGATTA
1 CATGA-TATATTATATATTT-ATTA
21026257 CATGAT-TATTAATATATTTAATTA
1 CATGATATATT-ATATATTT-ATTA
21026281 CATGAT-TATTAATATATTTATT
1 CATGATATATT-ATATATTTATT
21026303 TGTGCGATTA
Statistics
Matches: 103, Mismatches: 9, Indels: 13
0.82 0.07 0.10
Matches are distributed among these distances:
21 4 0.04
22 1 0.01
23 15 0.15
24 70 0.68
25 10 0.10
26 3 0.03
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.53
Consensus pattern (23 bp):
CATGATATATTATATATTTATTA
Found at i:21026226 original size:48 final size:46
Alignment explanation
Indices: 21026144--21026302 Score: 153
Period size: 48 Copynumber: 3.3 Consensus size: 46
21026134 ATTTTGCATG
* *
21026144 ATTTTATGATATATTTGCATGATATGATTCTATATTTATTACATGATAT
1 ATTTTAT-ATTTA-TTGCATGATATGATTATATATTTATTACATGAT-T
**
21026193 AATTTTATATTTATTGCATGATATGATTATATATTTATTTGTATGATT
1 -ATTTTATATTTATTGCATGATATGATTATATATTTA-TTACATGATT
*
21026241 ATATTTA-ATTTGATTACATGAT-T-ATTAATATATTTAATTACATGATT
1 AT-TTTATATTT-ATTGCATGATATGATT-ATATATTT-ATTACATGATT
*
21026288 ATTAATATATTTATT
1 ATT-TTATATTTATT
21026303 TGTGCGATTA
Statistics
Matches: 94, Mismatches: 8, Indels: 17
0.79 0.07 0.14
Matches are distributed among these distances:
46 4 0.04
47 30 0.32
48 42 0.45
49 11 0.12
50 7 0.07
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.53
Consensus pattern (46 bp):
ATTTTATATTTATTGCATGATATGATTATATATTTATTACATGATT
Found at i:21026299 original size:71 final size:72
Alignment explanation
Indices: 21026141--21026317 Score: 186
Period size: 71 Copynumber: 2.4 Consensus size: 72
21026131 TATATTTTGC
* * * *
21026141 ATGATTTTATGATATATTTGCATGA-TATGATTCTATATTTATTACATGATATAATTTTATATTT
1 ATGATTATAT-ATTTATTTGTATGATTAT-ATT-TATATTTATTACATGATATAATTATATATTT
*
21026205 ATTGCATGAT
63 ATTACATGAT
21026215 ATGATTATATATTTATTTGTATGATTATATTTA-ATTTGATTACATGAT-T-ATTAATATATTTA
1 ATGATTATATATTTATTTGTATGATTATATTTATATTT-ATTACATGATATAATT-ATATATTT-
21026277 ATTACATGAT
63 ATTACATGAT
**
21026287 -T-ATTAATATATTTATTTGTGCGATTATATTT
1 ATGATT-ATATATTTATTTGTATGATTATATTT
21026318 GATTGCATGA
Statistics
Matches: 91, Mismatches: 7, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
70 6 0.07
71 37 0.41
72 21 0.23
73 15 0.16
74 12 0.13
ACGTcount: A:0.33, C:0.04, G:0.10, T:0.53
Consensus pattern (72 bp):
ATGATTATATATTTATTTGTATGATTATATTTATATTTATTACATGATATAATTATATATTTATT
ACATGAT
Found at i:21026484 original size:19 final size:19
Alignment explanation
Indices: 21026413--21026493 Score: 74
Period size: 19 Copynumber: 4.2 Consensus size: 19
21026403 TGATTTGTTA
* *
21026413 CATGATATATTGTATTATAG
1 CATGATAT-TTATATTATTG
* *
21026433 CATGAT-TATATTATTATTA
1 CATGATATTTA-TATTATTG
* *
21026452 CATTATATTTTATATTATCG
1 CATGATA-TTTATATTATTG
21026472 CATGATATTTATATTATTG
1 CATGATATTTATATTATTG
21026491 CAT
1 CAT
21026494 TATTTGCATG
Statistics
Matches: 48, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
18 1 0.02
19 26 0.54
20 18 0.38
21 3 0.06
ACGTcount: A:0.33, C:0.07, G:0.09, T:0.51
Consensus pattern (19 bp):
CATGATATTTATATTATTG
Found at i:21026487 original size:39 final size:39
Alignment explanation
Indices: 21026410--21026496 Score: 104
Period size: 39 Copynumber: 2.2 Consensus size: 39
21026400 GCATGATTTG
* *
21026410 TTACATGATATATTGTATTATAGCATGATTATATTATTA
1 TTACATTATATATTATATTATAGCATGATTATATTATTA
* * *
21026449 TTACATTATATTTTATATTATCGCATGA-TATTTATATTA
1 TTACATTATATATTATATTATAGCATGATTATAT-TATTA
*
21026488 TTGCATTAT
1 TTACATTAT
21026497 TTGCATGATA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
38 4 0.10
39 37 0.90
ACGTcount: A:0.33, C:0.07, G:0.08, T:0.52
Consensus pattern (39 bp):
TTACATTATATATTATATTATAGCATGATTATATTATTA
Found at i:21027332 original size:21 final size:21
Alignment explanation
Indices: 21027307--21027348 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
21027297 TAGATTCTTT
*
21027307 TCATCAAAGAGACAGTTACCA
1 TCATCAAAGAGACAATTACCA
21027328 TCATCAAAGAGACAATTACCA
1 TCATCAAAGAGACAATTACCA
21027349 CTTCCAACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.45, C:0.24, G:0.12, T:0.19
Consensus pattern (21 bp):
TCATCAAAGAGACAATTACCA
Found at i:21028839 original size:102 final size:101
Alignment explanation
Indices: 21028696--21028883 Score: 263
Period size: 102 Copynumber: 1.9 Consensus size: 101
21028686 TTGTACAAGA
* * *
21028696 AAAATTGATACTTTCAACTTTTCCCAAAATGTTTTTCTGAAACTTTAATTTTG-AGAAAAATTGA
1 AAAATTGATACTTCCAACTTTTCCCAAAATATTTTTCTGAAACTTTAATTTCGAAG-AAAATTGA
21028760 TACTTTTAACTTATCCTTAAAATGTTTTTTTTTAAGG
65 TACTTTTAACTTATCCTTAAAATGTTTTTTTTTAAGG
* *
21028797 AAAATTGGTACTTCCAACTTTTTTCCAAAATATGTTTT-TGAAACTTTAATTTCGAAGAAAATTG
1 AAAATTGATACTTCCAAC-TTTTCCCAAAATAT-TTTTCTGAAACTTTAATTTCGAAGAAAATTG
* * *
21028861 ATATTTTTAACTTTTCTTTAAAA
64 ATACTTTTAACTTATCCTTAAAA
21028884 ATATATTTTT
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
101 16 0.21
102 54 0.71
103 6 0.08
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.45
Consensus pattern (101 bp):
AAAATTGATACTTCCAACTTTTCCCAAAATATTTTTCTGAAACTTTAATTTCGAAGAAAATTGAT
ACTTTTAACTTATCCTTAAAATGTTTTTTTTTAAGG
Found at i:21028988 original size:3 final size:3
Alignment explanation
Indices: 21028980--21029023 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
21028970 TTAATCAATG
*
21028980 AAT AAT AAT AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
21029024 ATAAATAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:21029440 original size:18 final size:19
Alignment explanation
Indices: 21029396--21029441 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
21029386 AAAAAGATGT
* *
21029396 CGAAAACTTCAAAGTTGGC
1 CGAAAAATTCAAAGTTCGC
*
21029415 CGAAAAATTCAAAGTTCGT
1 CGAAAAATTCAAAGTTCGC
21029434 C-AAAAATT
1 CGAAAAATT
21029442 TCGTCAGATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.43, C:0.17, G:0.15, T:0.24
Consensus pattern (19 bp):
CGAAAAATTCAAAGTTCGC
Found at i:21029798 original size:34 final size:33
Alignment explanation
Indices: 21029749--21029833 Score: 100
Period size: 34 Copynumber: 2.5 Consensus size: 33
21029739 AAATCAATCA
* *
21029749 AGATAAAATAAAAAAATACATATTAATAATTAAT
1 AGAT-AAATAAAAAAAAACATATTAATAAATAAT
*
21029783 AGATAAATAATAAAAAAATATATTAATAAATAAT
1 AGATAAATAA-AAAAAAACATATTAATAAATAAT
*
21029817 A-ATAAAATAAAATAAAA
1 AGAT-AAATAAAAAAAAA
21029834 TAAAAATATA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
33 14 0.31
34 31 0.69
ACGTcount: A:0.69, C:0.01, G:0.02, T:0.27
Consensus pattern (33 bp):
AGATAAATAAAAAAAAACATATTAATAAATAAT
Found at i:21035456 original size:23 final size:23
Alignment explanation
Indices: 21035399--21035444 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
21035389 ATTTCCTTTG
21035399 ATTTGATA-TTTTATTTATTTATT
1 ATTT-ATAGTTTTATTTATTTATT
*
21035422 ATTTATAGTTTTATTTGTTTATT
1 ATTTATAGTTTTATTTATTTATT
21035445 TGTTTAGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 3 0.14
23 18 0.86
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.70
Consensus pattern (23 bp):
ATTTATAGTTTTATTTATTTATT
Found at i:21035468 original size:22 final size:22
Alignment explanation
Indices: 21035407--21035455 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
21035397 TGATTTGATA
*
21035407 TTTTATTTATTTATTAT-TTATAG
1 TTTTATTTGTTTATT-TGTT-TAG
21035430 TTTTATTTGTTTATTTGTTTAG
1 TTTTATTTGTTTATTTGTTTAG
21035452 TTTT
1 TTTT
21035456 TTTTTTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 8 0.33
23 16 0.67
ACGTcount: A:0.18, C:0.00, G:0.08, T:0.73
Consensus pattern (22 bp):
TTTTATTTGTTTATTTGTTTAG
Found at i:21037088 original size:15 final size:14
Alignment explanation
Indices: 21037046--21037082 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
21037036 TTTTAATAAA
*
21037046 TTTT-GATATATAT
1 TTTTAGATAAATAT
21037059 TTTTAGATAAATAT
1 TTTTAGATAAATAT
21037073 TTTTA-ATAAA
1 TTTTAGATAAA
21037083 AATATTGATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 9 0.41
14 13 0.59
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (14 bp):
TTTTAGATAAATAT
Found at i:21038287 original size:2 final size:2
Alignment explanation
Indices: 21038280--21038308 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
21038270 CAAATCATGA
21038280 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
21038309 ATATATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:21041113 original size:14 final size:13
Alignment explanation
Indices: 21041064--21041104 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
21041054 AAAATAGTAT
*
21041064 AAAATATCATGCA
1 AAAAAATCATGCA
21041077 AAAAAATCAT--A
1 AAAAAATCATGCA
21041088 AAAAAATCATGCA
1 AAAAAATCATGCA
21041101 AAAA
1 AAAA
21041105 CAATTATGCG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
11 11 0.44
13 14 0.56
ACGTcount: A:0.66, C:0.12, G:0.05, T:0.17
Consensus pattern (13 bp):
AAAAAATCATGCA
Found at i:21041145 original size:24 final size:24
Alignment explanation
Indices: 21041109--21041180 Score: 83
Period size: 24 Copynumber: 3.0 Consensus size: 24
21041099 CAAAAACAAT
* *
21041109 TATGCGATTATATCATAATAAAAA
1 TATGCAATAATATCATAATAAAAA
*
21041133 TATGCAATCATATCATAAT-AAAA
1 TATGCAATAATATCATAATAAAAA
* *
21041156 TCATGTAAAAATATCATAATAAAAA
1 T-ATGCAATAATATCATAATAAAAA
21041181 ATGATAAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
23 5 0.12
24 32 0.78
25 4 0.10
ACGTcount: A:0.54, C:0.10, G:0.06, T:0.31
Consensus pattern (24 bp):
TATGCAATAATATCATAATAAAAA
Found at i:21041188 original size:24 final size:23
Alignment explanation
Indices: 21041118--21041189 Score: 81
Period size: 24 Copynumber: 3.0 Consensus size: 23
21041108 TTATGCGATT
* **
21041118 ATATCATAATAAAAATATGCAATC
1 ATATCATAATAAAAA-ATGTAAAA
*
21041142 ATATCATAATAAAATCATGTAAAA
1 ATATCATAATAAAA-AATGTAAAA
21041166 ATATCATAATAAAAAATGATAAAA
1 ATATCATAATAAAAAATG-TAAAA
21041190 TTAAAAAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
23 3 0.07
24 38 0.93
ACGTcount: A:0.60, C:0.08, G:0.04, T:0.28
Consensus pattern (23 bp):
ATATCATAATAAAAAATGTAAAA
Found at i:21041514 original size:15 final size:15
Alignment explanation
Indices: 21041485--21041528 Score: 72
Period size: 15 Copynumber: 3.0 Consensus size: 15
21041475 TTCACTTTTC
*
21041485 CTCTT-TTTTTCTCT
1 CTCTTCTTTCTCTCT
21041499 CTCTTCTTTCTCTCT
1 CTCTTCTTTCTCTCT
21041514 CTCTTCTTTCTCTCT
1 CTCTTCTTTCTCTCT
21041529 AGAATAATCA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
14 5 0.18
15 23 0.82
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (15 bp):
CTCTTCTTTCTCTCT
Found at i:21041723 original size:21 final size:20
Alignment explanation
Indices: 21041697--21041745 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
21041687 CAATCTTGTC
21041697 AAAAAATTTAAAAA-TTCAGGA
1 AAAAAATTTAAAAATTTCA--A
*
21041718 AAAAAA-TAAAAAATTTCAA
1 AAAAAATTTAAAAATTTCAA
21041737 AAAAAATTT
1 AAAAAATTT
21041746 TCAAAAATCT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
19 7 0.29
20 7 0.29
21 10 0.42
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.24
Consensus pattern (20 bp):
AAAAAATTTAAAAATTTCAA
Found at i:21042149 original size:11 final size:11
Alignment explanation
Indices: 21042133--21042163 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
21042123 TTTAATTCTG
21042133 AAATCTAAATA
1 AAATCTAAATA
21042144 AAATCTAAATA
1 AAATCTAAATA
*
21042155 AAATTTAAA
1 AAATCTAAA
21042164 AATTTCAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (11 bp):
AAATCTAAATA
Found at i:21045652 original size:3 final size:3
Alignment explanation
Indices: 21045638--21045756 Score: 122
Period size: 3 Copynumber: 40.3 Consensus size: 3
21045628 AGTATATTTG
* ** * * *
21045638 ATT ATT AGT ATT ATT ATT ATT A-T ACC CTT ATT A-T ATT TTT ATT ACT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
21045684 A-T ATTT ATT ATT ATT A-T ACCTT A-T ATT ATT ATT ATT ATT ATT ATT
1 ATT A-TT ATT ATT ATT ATT A--TT ATT ATT ATT ATT ATT ATT ATT ATT
21045729 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
21045757 GTAGTAGTAG
Statistics
Matches: 98, Mismatches: 10, Indels: 16
0.79 0.08 0.13
Matches are distributed among these distances:
2 10 0.10
3 84 0.86
4 2 0.02
5 2 0.02
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:21046724 original size:25 final size:27
Alignment explanation
Indices: 21046663--21046725 Score: 78
Period size: 25 Copynumber: 2.4 Consensus size: 27
21046653 TTTTATTTTA
* *
21046663 TTTTATTTATCTTATTGTTTTGAATTT
1 TTTTATTTATTTTATTATTTTGAATTT
*
21046690 TTTT-TATATTTTA-TATTTTG-ATTT
1 TTTTATTTATTTTATTATTTTGAATTT
21046714 TTTTATTTATTT
1 TTTTATTTATTT
21046726 AGTAATTCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
24 8 0.26
25 12 0.39
26 7 0.23
27 4 0.13
ACGTcount: A:0.19, C:0.02, G:0.05, T:0.75
Consensus pattern (27 bp):
TTTTATTTATTTTATTATTTTGAATTT
Found at i:21047559 original size:35 final size:35
Alignment explanation
Indices: 21047510--21047581 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
21047500 TTTTTTTTTC
* *
21047510 TTTTCATTGTTTATACTTGCTTAATTATTTATTTA
1 TTTTCATTGCTTATACTTACTTAATTATTTATTTA
21047545 TTTTCATTGCTTATACTTACTTAATTATTTATTTA
1 TTTTCATTGCTTATACTTACTTAATTATTTATTTA
21047580 TT
1 TT
21047582 GTATATATGG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.24, C:0.10, G:0.04, T:0.62
Consensus pattern (35 bp):
TTTTCATTGCTTATACTTACTTAATTATTTATTTA
Found at i:21057859 original size:114 final size:114
Alignment explanation
Indices: 21057602--21057871 Score: 328
Period size: 114 Copynumber: 2.4 Consensus size: 114
21057592 CATCCAAGTT
* * * * *
21057602 ATTCATCTATGACCTCGACTTAGTCGTAGTCACTTTCAAACTCGTGACATTATCTCAGTCATCTG
1 ATTCATCTATAACCTCGACTTAGTCTTGGTCACTTTCAAACTCGCGACATTATCTCAGTCATCCG
* * *
21057667 ATCTTGACTTAGGTTAAATCATTTTCAAACTCATAGCATCATATTGATC
66 ATCTCGACTTAGGTTAAATCATCTTCAAACTCACAGCATCATATTGATC
* * * *
21057716 ATTCATCTACAACCTCGA-TTTGATCTTGGT-AGCTTTCAAACTTGCGACATTGTCTCAGTCATC
1 ATTCATCTATAACCTCGACTTAG-TCTTGGTCA-CTTTCAAACTCGCGACATTATCTCAGTCATC
* * * * *
21057779 CGATCTCGACTTAGGTTAGATCATCTTCAGACTCACAGCATTATCTTGGTC
64 CGATCTCGACTTAGGTTAAATCATCTTCAAACTCACAGCATCATATTGATC
* * *
21057830 ATTCATTTATAACCTCGACTTAGTATTGGTCACTTTTAAACT
1 ATTCATCTATAACCTCGACTTAGTCTTGGTCACTTTCAAACT
21057872 GACGGTATCA
Statistics
Matches: 130, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
113 4 0.03
114 122 0.94
115 4 0.03
ACGTcount: A:0.26, C:0.23, G:0.13, T:0.37
Consensus pattern (114 bp):
ATTCATCTATAACCTCGACTTAGTCTTGGTCACTTTCAAACTCGCGACATTATCTCAGTCATCCG
ATCTCGACTTAGGTTAAATCATCTTCAAACTCACAGCATCATATTGATC
Found at i:21058108 original size:114 final size:114
Alignment explanation
Indices: 21057631--21058126 Score: 390
Period size: 114 Copynumber: 4.4 Consensus size: 114
21057621 TTAGTCGTAG
* * * * * * *
21057631 TCACTTTCAAACTCGTGACATTATCTCAGTCA-TCTGATCTTGACTTAGGTTAAATCATTTTCAA
1 TCACTTTCAAACTTGCGACATCATTTCAGTCATTC-GATCTTGACTCAGGTTAGATCATTTTCAG
* * * * * * * *
21057695 ACTCATAGCATCATATTGATCATTCATCTACAACCTCGATTTGATCTTGG
65 ACTCACAACATCATCTCGATCATTCATCTATAACCTCGACTCGATCTTGA
** * * * * *
21057745 T-AGCTTTCAAACTTGCGACATTGTCTCAGTCATCCGATCTCGACTTAGGTTAGATCATCTTCAG
1 TCA-CTTTCAAACTTGCGACATCATTTCAGTCATTCGATCTTGACTCAGGTTAGATCATTTTCAG
* * * * * * * *
21057809 ACTCACAGCATTATCTTGGTCATTCATTTATAACCTCGACT-TAGTATTGG
65 ACTCACAACATCATCTCGATCATTCATCTATAACCTCGACTCGA-TCTTGA
* ** * * * * * *
21057859 TCACTTTTAAAC-TGACGGTATCATTTTAGTTATCCGATCTTGGCTCAAGTTAGATCATTTTTAG
1 TCACTTTCAAACTTG-CGACATCATTTCAGTCATTCGATCTTGACTCAGGTTAGATCATTTTCAG
** * * * * * ** *
21057923 ACTTGCGACATCATCCCGATCATTTATCTATGATCTTAACTCGATCTTAA
65 ACTCACAACATCATCTCGATCATTCATCTATAACCTCGACTCGATCTTGA
* * ** *
21057973 TCACTTTTAAACTCGTAACATCATTTTAGTCATTCGATCTT-AGCTCAGGTTAGATCATTTTCAG
1 TCACTTTCAAACTTGCGACATCATTTCAGTCATTCGATCTTGA-CTCAGGTTAGATCATTTTCAG
* * *
21058037 ACTCACAACATCATCTCGATCATTCATCTATGACCTTGACTCGATTTTGA
65 ACTCACAACATCATCTCGATCATTCATCTATAACCTCGACTCGATCTTGA
*
21058087 TCACTTTCAAACTTGCGACATCATTCCAGTCATTCGATCT
1 TCACTTTCAAACTTGCGACATCATTTCAGTCATTCGATCT
21058127 CAGTGTAGGC
Statistics
Matches: 300, Mismatches: 74, Indels: 16
0.77 0.19 0.04
Matches are distributed among these distances:
113 4 0.01
114 292 0.97
115 4 0.01
ACGTcount: A:0.26, C:0.23, G:0.13, T:0.38
Consensus pattern (114 bp):
TCACTTTCAAACTTGCGACATCATTTCAGTCATTCGATCTTGACTCAGGTTAGATCATTTTCAGA
CTCACAACATCATCTCGATCATTCATCTATAACCTCGACTCGATCTTGA
Found at i:21058144 original size:114 final size:113
Alignment explanation
Indices: 21057910--21058322 Score: 303
Period size: 114 Copynumber: 3.6 Consensus size: 113
21057900 GGCTCAAGTT
* * * * * *
21057910 AGATCATTTTTAGACTTGCGACATCATCCCGATCATTTATCTATGATCTTAACTCGATCTTAATC
1 AGATCA-TTTTAGACTCGCGACATCATCTCGATCATTCATCTATGACCTTGACTCGATCTTGATC
* * ** * **
21057975 ACTTTTAAACTCGTAACATCATTTTAGTCATTCGATCTTAGCTCAGGTT
65 ACTTTCAAACTCGCAACATCATTCCAGTCATTCGATCTCAGCTCAGGCC
* * *
21058024 AGATCATTTTCAGACTCACAACATCATCTCGATCATTCATCTATGACCTTGACTCGATTTTGATC
1 AGATCATTTT-AGACTCGCGACATCATCTCGATCATTCATCTATGACCTTGACTCGATCTTGATC
* * *
21058089 ACTTTCAAACTTGCGACATCATTCCAGTCATTCGATCTCAG-TGTAGGCC
65 ACTTTCAAACTCGCAACATCATTCCAGTCATTCGATCTCAGCT-CAGGCC
* * * ** * * * *
21058138 ATATCATATTTAGACTCGTGGCATTGTCTTGGTCATTCATCTACGACCTTGACTCGATCTTGGTC
1 AGATCAT-TTTAGACTCGCGACATCATCTCGATCATTCATCTATGACCTTGACTCGATCTTGATC
* * * * * * * * *
21058203 ACTTTTAGACTCACGATATTA-TCCTAGTCATTCAATCT-TGACTCAAGCC
65 ACTTTCAAACTCGCAACATCATTCC-AGTCATTCGATCTCAG-CTCAGGCC
* * ** * * * * *
21058252 AAATCATTTTTAGACTTC-CAACATTGTCTCGATCATTCTTCTAAGACATCGACTCGGTCTTGAT
1 AGATCA-TTTTAGAC-TCGCGACATCATCTCGATCATTCATCTATGACCTTGACTCGATCTTGAT
*
21058316 CATTTTC
64 CACTTTC
21058323 CTGACTCACG
Statistics
Matches: 236, Mismatches: 55, Indels: 16
0.77 0.18 0.05
Matches are distributed among these distances:
113 9 0.04
114 220 0.93
115 7 0.03
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (113 bp):
AGATCATTTTAGACTCGCGACATCATCTCGATCATTCATCTATGACCTTGACTCGATCTTGATCA
CTTTCAAACTCGCAACATCATTCCAGTCATTCGATCTCAGCTCAGGCC
Found at i:21058260 original size:342 final size:342
Alignment explanation
Indices: 21057631--21058268 Score: 723
Period size: 342 Copynumber: 1.9 Consensus size: 342
21057621 TTAGTCGTAG
* * *
21057631 TCACTTTCAAACTCGTGACATTATCTCAGTCATCTGATCTTGACTTAGGTTAAATCATTTTCAAA
1 TCACTTTCAAACTCGTAACATCATCTCAGTCATCTGATCTTGACTCAGGTTAAATCATTTTCAAA
* * * * * *
21057696 CTCATAGCATCATATTGATCATTCATCTACAACCTCGATTTGATCTTGGTAGCTTTCAAACTTGC
66 CTCACAACATCATATCGATCATTCATCTACAACCTCGACTCGATCTTGATAGCTTTCAAACTTGC
** *
21057761 GACATTGTCTCAGTCATCCGATCTCGACTTAGGTTAGATCATCTTCAGACTCACAGCATTATCTT
131 GACATTGTCTCAGTCATCCGATCTCGACTTAGGCCAGATCATATTCAGACTCACAGCATTATCTT
* * * * * ** *
21057826 GGTCATTCATTTATAACCTCGACTTAGTATTGGTCACTTTTAAACTGACGGTATCATTTTAGTTA
196 GGTCATTCATCTACAACCTCGACTGAGTATTGGTCACTTTTAAACTCACGATATCATCCTAGTCA
* * ** *
21057891 TCCGATCTTGGCTCAAGTTAGATCATTTTTAGACTTGCGACATCATCCCGATCATTTATCTATGA
261 TCCAATCTTGACTCAAGCCAAATCATTTTTAGACTTGCGACATCATCCCGATCATTTATCTATGA
21057956 TCTTAACTCGATCTTAA
326 TCTTAACTCGATCTTAA
* * * *
21057973 TCACTTTTAAACTCGTAACATCATTTTAGTCAT-TCGATCTT-AGCTCAGGTTAGATCATTTTCA
1 TCACTTTCAAACTCGTAACATCATCTCAGTCATCT-GATCTTGA-CTCAGGTTAAATCATTTTCA
* * ** * *
21058036 GACTCACAACATCATCTCGATCATTCATCTATGACCTTGACTCGATTTTGATCA-CTTTCAAACT
64 AACTCACAACATCATATCGATCATTCATCTACAACCTCGACTCGATCTTGAT-AGCTTTCAAACT
* * * * ***
21058100 TGCGACATCAT-TC-CAGTCATTCGATCTC-AGTGTAGGCCATATCATATTTAGACTCGTGGCAT
128 TGCGACAT--TGTCTCAGTCATCCGATCTCGACT-TAGGCCAGATCATATTCAGACTCACAGCAT
* * * * * *
21058162 TGTCTTGGTCATTCATCTACGACCTTGACTCGA-TCTTGGTCACTTTTAGACTCACGATATTATC
190 TATCTTGGTCATTCATCTACAACCTCGACT-GAGTATTGGTCACTTTTAAACTCACGATATCATC
*
21058226 CTAGTCATTCAATCTTGACTCAAGCCAAATCATTTTTAGACTT
254 CTAGTCATCCAATCTTGACTCAAGCCAAATCATTTTTAGACTT
21058269 CCAACATTGT
Statistics
Matches: 240, Mismatches: 49, Indels: 14
0.79 0.16 0.05
Matches are distributed among these distances:
341 4 0.02
342 231 0.96
343 4 0.02
344 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.13, T:0.37
Consensus pattern (342 bp):
TCACTTTCAAACTCGTAACATCATCTCAGTCATCTGATCTTGACTCAGGTTAAATCATTTTCAAA
CTCACAACATCATATCGATCATTCATCTACAACCTCGACTCGATCTTGATAGCTTTCAAACTTGC
GACATTGTCTCAGTCATCCGATCTCGACTTAGGCCAGATCATATTCAGACTCACAGCATTATCTT
GGTCATTCATCTACAACCTCGACTGAGTATTGGTCACTTTTAAACTCACGATATCATCCTAGTCA
TCCAATCTTGACTCAAGCCAAATCATTTTTAGACTTGCGACATCATCCCGATCATTTATCTATGA
TCTTAACTCGATCTTAA
Found at i:21058636 original size:21 final size:21
Alignment explanation
Indices: 21058610--21058668 Score: 86
Period size: 20 Copynumber: 2.9 Consensus size: 21
21058600 TATTATCATT
*
21058610 TTATTAATATAGTATAGTGTG
1 TTATTAATATATTATAGTGTG
21058631 TTATT-ATATATTATAGTGTG
1 TTATTAATATATTATAGTGTG
21058651 TTA-TAATAATATTATAGT
1 TTATTAAT-ATATTATAGT
21058669 ATTATTATTA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
19 1 0.03
20 19 0.54
21 15 0.43
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.51
Consensus pattern (21 bp):
TTATTAATATATTATAGTGTG
Done.