Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032244.1 Gossypioides kirkii chromosome KI_01
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: 38174113
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1000 characters in sequence are not A, C, G, or T
File 71 of 126
Found at i:20969627 original size:95 final size:96
Alignment explanation
Indices: 20969456--20969634 Score: 240
Period size: 95 Copynumber: 1.9 Consensus size: 96
20969446 GGATGTTCGG
** **
20969456 TTATCTCGATTTGAAGAAAGGTTACACCTAGTAAGTTAAGGCGTAAATTTTCAGAATCGAAGATA
1 TTATCTCGATTTGAAGAAACATTACACCTAGTAAGTTAAGGCACAAATTTTCAGAATCGAAGATA
*
20969521 AGGAAACATTGCCTCGATTAAGGGTATTTGA
66 AAGAAACATTGCCTCGATTAAGGGTATTTGA
*
20969552 TTAT-TCGATTTGAAGAAACATTCCACCTAGTAAGTTAAGGCACAAATTTTC-GAAACTCGAA-A
1 TTATCTCGATTTGAAGAAACATTACACCTAGTAAGTTAAGGCACAAATTTTCAG-AA-TCGAAGA
*
20969614 TAAA-AGAATATTGCCTCGATT
64 TAAAGA-AACATTGCCTCGATT
20969635 TTAAAGTTTT
Statistics
Matches: 73, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
94 2 0.03
95 62 0.85
96 9 0.12
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (96 bp):
TTATCTCGATTTGAAGAAACATTACACCTAGTAAGTTAAGGCACAAATTTTCAGAATCGAAGATA
AAGAAACATTGCCTCGATTAAGGGTATTTGA
Found at i:20969909 original size:28 final size:27
Alignment explanation
Indices: 20969850--20969914 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
20969840 TGGATACCCG
** *
20969850 AGGGCAAAATGGTAATTTTGGACTCTTG
1 AGGGC-AAATGGTAATTTTGGAAACTTC
*
20969878 AGGGCAAATGGTAATTTTGGGAAAGTTC
1 AGGGCAAATGGTAATTTT-GGAAACTTC
20969906 AGGGTCAAA
1 AGGG-CAAA
20969915 ATAGAATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
27 13 0.42
28 14 0.45
29 4 0.13
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (27 bp):
AGGGCAAATGGTAATTTTGGAAACTTC
Found at i:20970085 original size:29 final size:29
Alignment explanation
Indices: 20970053--20970208 Score: 95
Period size: 29 Copynumber: 5.4 Consensus size: 29
20970043 TGGATATCCG
*
20970053 AGGG-AAAAATGATAAATTTTGAAAGTTTT
1 AGGGTAAAAATG-GAAATTTTGAAAGTTTT
* * **
20970082 AGGGTCAAAATGGAATTTTTGAAAGTTCA
1 AGGGTAAAAATGGAAATTTTGAAAGTTTT
* * *
20970111 AGGGGT-AAAATGGTATTTTTAAAAGTTTT
1 A-GGGTAAAAATGGAAATTTTGAAAGTTTT
* * * * *
20970140 GGGGTCAAAATTGGGATTTTATG-AAGTTTA
1 AGGGT-AAAAATGGAAATTT-TGAAAGTTTT
* * *
20970170 AGGGTAAAAATGTAATTTTTGGAAGTTTT
1 AGGGTAAAAATGGAAATTTTGAAAGTTTT
*
20970199 -GGGTCAAAAT
1 AGGGTAAAAAT
20970209 ATAATTTTTT
Statistics
Matches: 101, Mismatches: 20, Indels: 13
0.75 0.15 0.10
Matches are distributed among these distances:
28 15 0.15
29 54 0.53
30 31 0.31
31 1 0.01
ACGTcount: A:0.37, C:0.03, G:0.25, T:0.36
Consensus pattern (29 bp):
AGGGTAAAAATGGAAATTTTGAAAGTTTT
Found at i:20970136 original size:58 final size:57
Alignment explanation
Indices: 20970025--20970227 Score: 182
Period size: 58 Copynumber: 3.5 Consensus size: 57
20970015 GGAGTTTCGA
* * * *
20970025 GGTCAAAAATGGAATTTTTGGATA-TCCGAGGG-AAAAATGATAAATTTTGAAAGTTTTAG
1 GGTC-AAAATGGAATTTTT-GAAAGTTCAAGGGTAAAAATG-TAATTTTTGAAAGTTTT-G
*
20970084 GGTCAAAATGGAATTTTTGAAAGTTCAAGGGGT-AAAATGGT-ATTTTTAAAAGTTTTGG
1 GGTCAAAATGGAATTTTTGAAAGTTCAA-GGGTAAAAAT-GTAATTTTTGAAAGTTTT-G
* * *
20970142 GGTCAAAATTGGGATTTTATG-AAGTTTAAGGGTAAAAATGTAATTTTTGGAAGTTTTG
1 GGTCAAAA-TGGAATTTT-TGAAAGTTCAAGGGTAAAAATGTAATTTTTGAAAGTTTTG
** *
20970200 GGTCAAAATATAATTTTTTGATAGTTCA
1 GGTCAAAATGGAA-TTTTTGAAAGTTCA
20970228 GGGACCTCTA
Statistics
Matches: 119, Mismatches: 15, Indels: 21
0.77 0.10 0.14
Matches are distributed among these distances:
57 7 0.06
58 63 0.53
59 46 0.39
60 3 0.03
ACGTcount: A:0.35, C:0.04, G:0.24, T:0.37
Consensus pattern (57 bp):
GGTCAAAATGGAATTTTTGAAAGTTCAAGGGTAAAAATGTAATTTTTGAAAGTTTTG
Found at i:20970219 original size:29 final size:29
Alignment explanation
Indices: 20970162--20970217 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
20970152 GGGATTTTAT
*
20970162 GAAGTTTAAGGGTAAAAATGTAATTTTTG
1 GAAGTTTAAGGGTAAAAATATAATTTTTG
* *
20970191 GAAGTTT-TGGGTCAAAATATAATTTTT
1 GAAGTTTAAGGGTAAAAATATAATTTTT
20970218 TGATAGTTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 17 0.71
29 7 0.29
ACGTcount: A:0.36, C:0.02, G:0.21, T:0.41
Consensus pattern (29 bp):
GAAGTTTAAGGGTAAAAATATAATTTTTG
Found at i:20971375 original size:16 final size:15
Alignment explanation
Indices: 20971337--20971379 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 15
20971327 ATGCCAATAT
20971337 TATTTATTA-TTTGA
1 TATTTATTATTTTGA
20971351 TATCATTATTATTATTGA
1 TAT--TTATTATT-TTGA
20971369 TATTTATTATT
1 TATTTATTATT
20971380 GTCAATTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 3 0.12
16 14 0.56
17 1 0.04
18 7 0.28
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (15 bp):
TATTTATTATTTTGA
Found at i:20972554 original size:50 final size:51
Alignment explanation
Indices: 20972484--20972638 Score: 160
Period size: 50 Copynumber: 3.1 Consensus size: 51
20972474 TCCTTTCATG
* *
20972484 CTTCTGAGGTACACGGTCCGCCATTACGACTTAGACCTTTCCCTTTTGTAT
1 CTTCTGAGGTACAAGGTCCGCCATTGCGACTTAGACCTTTCCCTTTTGTAT
* * * *
20972535 CTT-TGCGGTAC-TGGATCCGCCATTGCGGTCTTAGATCC-TT-CC-TTT-CAT
1 CTTCTGAGGTACAAGG-TCCGCCATTGC-GACTTAGA-CCTTTCCCTTTTGTAT
* *
20972583 GCTTCTGAGGTACAAGGTTCGCCATTGCGACTTAAACCTTTCCCTTTTGTAT
1 -CTTCTGAGGTACAAGGTCCGCCATTGCGACTTAGACCTTTCCCTTTTGTAT
20972635 CTTC
1 CTTC
20972639 ATTATGGTAC
Statistics
Matches: 83, Mismatches: 11, Indels: 20
0.73 0.10 0.18
Matches are distributed among these distances:
48 4 0.05
49 16 0.19
50 38 0.46
51 21 0.25
52 4 0.05
ACGTcount: A:0.16, C:0.28, G:0.19, T:0.37
Consensus pattern (51 bp):
CTTCTGAGGTACAAGGTCCGCCATTGCGACTTAGACCTTTCCCTTTTGTAT
Found at i:20976330 original size:210 final size:210
Alignment explanation
Indices: 20975968--20976387 Score: 822
Period size: 210 Copynumber: 2.0 Consensus size: 210
20975958 CTTTCTCAAG
*
20975968 ACCTTTACATGTTCTTCCCCAGTTCGCGACTTTGCGATCATGTTATCGACATAGACCTCAATTTC
1 ACCTTTACATGTTCTTCCCCAGTTCGCGACTTTGCGATCATGTCATCGACATAGACCTCAATTTC
20976033 CTTGTACATCATATCATGAAACAATACCACCATGGCTCTTTGATATGTTGCCCCTACATTCTTAA
66 CTTGTACATCATATCATGAAACAATACCACCATGGCTCTTTGATATGTTGCCCCTACATTCTTAA
20976098 GTCCGAACGGCATCACCTTATAACAGAATGTCCCCCACATTGTGATGAAGGTAGTTTTCTCCATC
131 GTCCGAACGGCATCACCTTATAACAGAATGTCCCCCACATTGTGATGAAGGTAGTTTTCTCCATC
20976163 TCTGCAGGGTCCATC
196 TCTGCAGGGTCCATC
20976178 ACCTTTACATGTTCTTCCCCAGTTCGCGACTTTGCGATCATGTCATCGACATAGACCTCAATTTC
1 ACCTTTACATGTTCTTCCCCAGTTCGCGACTTTGCGATCATGTCATCGACATAGACCTCAATTTC
*
20976243 CTTGTGCATCATATCATGAAACAATACCACCATGGCTCTTTGATATGTTGCCCCTACATTCTTAA
66 CTTGTACATCATATCATGAAACAATACCACCATGGCTCTTTGATATGTTGCCCCTACATTCTTAA
20976308 GTCCGAACGGCATCACCTTATAACAGAATGTCCCCCACATTGTGATGAAGGTAGTTTTCTCCATC
131 GTCCGAACGGCATCACCTTATAACAGAATGTCCCCCACATTGTGATGAAGGTAGTTTTCTCCATC
20976373 TCTGCAGGGTCCATC
196 TCTGCAGGGTCCATC
20976388 TTTATTTGGT
Statistics
Matches: 208, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
210 208 1.00
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.32
Consensus pattern (210 bp):
ACCTTTACATGTTCTTCCCCAGTTCGCGACTTTGCGATCATGTCATCGACATAGACCTCAATTTC
CTTGTACATCATATCATGAAACAATACCACCATGGCTCTTTGATATGTTGCCCCTACATTCTTAA
GTCCGAACGGCATCACCTTATAACAGAATGTCCCCCACATTGTGATGAAGGTAGTTTTCTCCATC
TCTGCAGGGTCCATC
Found at i:20977624 original size:18 final size:19
Alignment explanation
Indices: 20977595--20977635 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
20977585 CTGTCGTGCT
20977595 TTTCTCATCTCTTGCTTCC
1 TTTCTCATCTCTTGCTTCC
* *
20977614 TTTCT-ATCTCTTTCTTCT
1 TTTCTCATCTCTTGCTTCC
20977632 TTTC
1 TTTC
20977636 CTTCTCATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.05, C:0.32, G:0.02, T:0.61
Consensus pattern (19 bp):
TTTCTCATCTCTTGCTTCC
Found at i:20984636 original size:29 final size:29
Alignment explanation
Indices: 20984605--20984704 Score: 91
Period size: 29 Copynumber: 3.5 Consensus size: 29
20984595 ATTGAGAGCA
*
20984605 AAAATGG-AATTTTTGGTTATCCGGGGGT
1 AAAATGGTAATTTTTGGTTATTCGGGGGT
* * **
20984633 AAAAGGGTAATTTTGGGATT-TTCGGGTTT
1 AAAATGGTAATTTTTGG-TTATTCGGGGGT
*
20984662 AAAAATGG-AATTTTTGG-AAGTTCGGGGGT
1 -AAAATGGTAATTTTTGGTTA-TTCGGGGGT
20984691 AAAATGGTAATTTT
1 AAAATGGTAATTTT
20984705 CGAAAGTTTT
Statistics
Matches: 56, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
28 13 0.23
29 35 0.62
30 8 0.14
ACGTcount: A:0.29, C:0.04, G:0.30, T:0.37
Consensus pattern (29 bp):
AAAATGGTAATTTTTGGTTATTCGGGGGT
Found at i:20984742 original size:30 final size:29
Alignment explanation
Indices: 20984663--20984742 Score: 74
Period size: 30 Copynumber: 2.7 Consensus size: 29
20984653 TTCGGGTTTA
* * *
20984663 AAAATGGAATTTTTGGAAG-TTCGGGGGT
1 AAAATGGAATTTTTAGAAGTTTCGAGGAT
* *
20984691 AAAATGGTAA-TTTTCGAAAGTTTTGAGGAT
1 AAAATGG-AATTTTTAG-AAGTTTCGAGGAT
20984721 AAAATTGGAATTTTTAGAAGTT
1 AAAA-TGGAATTTTTAGAAGTT
20984743 CAAGGGTAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
28 12 0.29
29 5 0.12
30 17 0.40
31 8 0.19
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.36
Consensus pattern (29 bp):
AAAATGGAATTTTTAGAAGTTTCGAGGAT
Found at i:20986750 original size:17 final size:17
Alignment explanation
Indices: 20986728--20986771 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
20986718 AAAATGAATT
** *
20986728 TAAATTTAAATTTTAAG
1 TAAATTTAAATTAGAAA
20986745 TAAATTTAAATTAGAAA
1 TAAATTTAAATTAGAAA
20986762 TAAATTTAAA
1 TAAATTTAAA
20986772 ACTAATCTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.41
Consensus pattern (17 bp):
TAAATTTAAATTAGAAA
Found at i:20986771 original size:6 final size:6
Alignment explanation
Indices: 20986704--20986756 Score: 54
Period size: 6 Copynumber: 9.0 Consensus size: 6
20986694 AAATTTATAC
** * * *
20986704 TAAATT TAAATT TAAAAA TGAATT TAAATT TAAATT TTAA-G TAAATT
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT
20986751 TAAATT
1 TAAATT
20986757 AGAAATAAAT
Statistics
Matches: 36, Mismatches: 10, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
5 3 0.08
6 33 0.92
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (6 bp):
TAAATT
Found at i:20990322 original size:28 final size:29
Alignment explanation
Indices: 20990282--20990338 Score: 91
Period size: 28 Copynumber: 2.0 Consensus size: 29
20990272 TTGTAATAAC
20990282 TTTTAAATAATTTTTA-AATT-TATTAAAA
1 TTTTAAATAATTTTTATAATTAT-TTAAAA
20990310 TTTTAAATAATTTTTATAATTATTTAAAA
1 TTTTAAATAATTTTTATAATTATTTAAAA
20990339 AATAACGGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 16 0.59
29 10 0.37
30 1 0.04
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (29 bp):
TTTTAAATAATTTTTATAATTATTTAAAA
Found at i:20991112 original size:15 final size:15
Alignment explanation
Indices: 20991068--20991112 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
20991058 TATAATGTGG
*
20991068 GGGTTTGGTTATTTT
1 GGGTTTGGTTTTTTT
**
20991083 GGGTTTGAATTTTTT
1 GGGTTTGGTTTTTTT
20991098 GGGTTTGGTTTTTTT
1 GGGTTTGGTTTTTTT
20991113 TTAAATCATT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.07, C:0.00, G:0.31, T:0.62
Consensus pattern (15 bp):
GGGTTTGGTTTTTTT
Found at i:20995362 original size:9 final size:9
Alignment explanation
Indices: 20995348--20995434 Score: 74
Period size: 9 Copynumber: 9.6 Consensus size: 9
20995338 GCAAATGATT
20995348 TTAAAATTA
1 TTAAAATTA
20995357 TTAAAATTAA
1 TTAAAATT-A
*
20995367 TTTTAAA-TA
1 -TTAAAATTA
20995376 -TAAAATTA
1 TTAAAATTA
20995384 TTAAAAATT-
1 TT-AAAATTA
*
20995393 TTTAAATT-
1 TTAAAATTA
*
20995401 TTTAAATTA
1 TTAAAATTA
20995410 TTTTAAAATTA
1 --TTAAAATTA
20995421 TTAAAATTA
1 TTAAAATTA
20995430 TTAAA
1 TTAAA
20995435 TAGTTTTAAT
Statistics
Matches: 66, Mismatches: 4, Indels: 16
0.77 0.05 0.19
Matches are distributed among these distances:
7 4 0.06
8 15 0.23
9 26 0.39
10 8 0.12
11 13 0.20
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (9 bp):
TTAAAATTA
Found at i:20995392 original size:37 final size:35
Alignment explanation
Indices: 20995348--20995443 Score: 90
Period size: 37 Copynumber: 2.6 Consensus size: 35
20995338 GCAAATGATT
20995348 TTAAAATTATTAAAATTAATTTTAAA-TA-TAAAATTA
1 TTAAAATTATTAAAA-T--TTTTAAATTATTAAAATTA
*
20995384 TTAAAAATT-TTTAAATTTTTAAATTATTTTAAAATTA
1 TT-AAAATTATTAAAATTTTTAAATTA--TTAAAATTA
*
20995421 TTAAAATTATTAAATAGTTTTAA
1 TTAAAATTATTAAA-ATTTTTAA
20995444 TTTTCAATTT
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
33 7 0.14
34 2 0.04
35 1 0.02
36 13 0.26
37 20 0.40
38 7 0.14
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (35 bp):
TTAAAATTATTAAAATTTTTAAATTATTAAAATTA
Found at i:20995412 original size:19 final size:20
Alignment explanation
Indices: 20995376--20995431 Score: 73
Period size: 19 Copynumber: 3.0 Consensus size: 20
20995366 ATTTTAAATA
20995376 TAAAATTATTAAAA--ATTT
1 TAAAATTATTAAAATTATTT
* *
20995394 TTAAATT-TTTAAATTATTT
1 TAAAATTATTAAAATTATTT
20995413 TAAAATTATTAAAATTATT
1 TAAAATTATTAAAATTATT
20995432 AAATAGTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
17 5 0.16
18 6 0.19
19 10 0.32
20 10 0.32
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
TAAAATTATTAAAATTATTT
Found at i:20995415 original size:28 final size:29
Alignment explanation
Indices: 20995384--20995443 Score: 72
Period size: 28 Copynumber: 2.1 Consensus size: 29
20995374 TATAAAATTA
* *
20995384 TTAAAAATT-TTTAAATTTTTAAATTA-TT
1 TTAAAAATTATTAAAATTATTAAA-TAGTT
20995412 TT-AAAATTATTAAAATTATTAAATAGTT
1 TTAAAAATTATTAAAATTATTAAATAGTT
20995440 TTAA
1 TTAA
20995444 TTTTCAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
27 8 0.30
28 18 0.67
29 1 0.04
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (29 bp):
TTAAAAATTATTAAAATTATTAAATAGTT
Found at i:20995725 original size:99 final size:100
Alignment explanation
Indices: 20995554--20995752 Score: 321
Period size: 99 Copynumber: 2.0 Consensus size: 100
20995544 TTTTGAACCA
* * *
20995554 AACCATGGCTACTTCTCCACTTGGATTCTGAACTAAACCATGACTTCTTCTTCTTCCATCACTCC
1 AACCATGACTACTTCTCCACTTGGATTCTGAACCAAACCATGACTTCTTCTTCTTCCACCACTCC
*
20995619 CTCAACCCTTCAAGGTTCTCTA-TTTCAATCTCAT
66 CTCAACCCTTCAAGATTCTCTATTTTCAATCTCAT
* *
20995653 AACCATGACTACTTCTCCACTTGGATTCTGAACCAAATCATGGCTTCTTCTTCTTCCACCACTCT
1 AACCATGACTACTTCTCCACTTGGATTCTGAACCAAACCATGACTTCTTCTTCTTCCACCACTC-
20995718 CC-CAACCCTTCAAGATTCTCTATTTTCAATCTCAT
65 CCTCAACCCTTCAAGATTCTCTATTTTCAATCTCAT
20995753 TTCTTAGGAA
Statistics
Matches: 92, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
99 78 0.85
100 14 0.15
ACGTcount: A:0.24, C:0.34, G:0.08, T:0.35
Consensus pattern (100 bp):
AACCATGACTACTTCTCCACTTGGATTCTGAACCAAACCATGACTTCTTCTTCTTCCACCACTCC
CTCAACCCTTCAAGATTCTCTATTTTCAATCTCAT
Found at i:20996213 original size:16 final size:16
Alignment explanation
Indices: 20996192--20996241 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 16
20996182 TATTAAAATA
20996192 ATTTTAATAATTTTAT
1 ATTTTAATAATTTTAT
**
20996208 ATTTTAA-AA-AATA-
1 ATTTTAATAATTTTAT
20996221 ATTTTAATAATTTTAT
1 ATTTTAATAATTTTAT
20996237 ATTTT
1 ATTTT
20996242 GAAAAAATAC
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
13 7 0.26
14 4 0.15
15 4 0.15
16 12 0.44
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
ATTTTAATAATTTTAT
Found at i:20996224 original size:29 final size:30
Alignment explanation
Indices: 20996186--20996265 Score: 144
Period size: 29 Copynumber: 2.7 Consensus size: 30
20996176 TTAAAATATT
20996186 AAAATAATTTTAATAATTTTATATTTT-AA
1 AAAATAATTTTAATAATTTTATATTTTGAA
20996215 AAAATAATTTTAATAATTTTATATTTTGAA
1 AAAATAATTTTAATAATTTTATATTTTGAA
*
20996245 AAAATACTTTTAATAATTTTA
1 AAAATAATTTTAATAATTTTA
20996266 AAATCATTTG
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
29 27 0.55
30 22 0.45
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (30 bp):
AAAATAATTTTAATAATTTTATATTTTGAA
Found at i:21006450 original size:30 final size:31
Alignment explanation
Indices: 21006388--21006450 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 31
21006378 TACTTTAATT
* * *
21006388 TTATTAATTTTAGTCGTTGTACTTTTTGAAA
1 TTATTAATTTTAATCCTTGTACTTTTTAAAA
21006419 TTATTAA-TTTAATCCTTGTA-TTTTTCAAAA
1 TTATTAATTTTAATCCTTGTACTTTTT-AAAA
21006449 TT
1 TT
21006451 TGAAAATTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 5 0.18
30 16 0.57
31 7 0.25
ACGTcount: A:0.29, C:0.08, G:0.08, T:0.56
Consensus pattern (31 bp):
TTATTAATTTTAATCCTTGTACTTTTTAAAA
Found at i:21006860 original size:10 final size:10
Alignment explanation
Indices: 21006845--21006873 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
21006835 TAAGCCCTAA
21006845 GCCCTAAATC
1 GCCCTAAATC
21006855 GCCCTAAATC
1 GCCCTAAATC
21006865 GCCCTAAAT
1 GCCCTAAAT
21006874 TCATACTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.31, C:0.38, G:0.10, T:0.21
Consensus pattern (10 bp):
GCCCTAAATC
Found at i:21009789 original size:3 final size:3
Alignment explanation
Indices: 21009781--21009825 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
21009771 TTTTTGTTGG
21009781 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
21009826 AGTTCTGGAC
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:21011819 original size:17 final size:17
Alignment explanation
Indices: 21011797--21011835 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
21011787 CTCCACCATG
* *
21011797 ACAAGAATTCTCTACGA
1 ACAAGAACTCTCAACGA
21011814 ACAAGAACTCTCAACGA
1 ACAAGAACTCTCAACGA
21011831 ACAAG
1 ACAAG
21011836 TTCTCCACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.26, G:0.13, T:0.15
Consensus pattern (17 bp):
ACAAGAACTCTCAACGA
Found at i:21020165 original size:14 final size:14
Alignment explanation
Indices: 21020142--21020175 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
21020132 AATTTACATC
*
21020142 ATTTTATTATTATT
1 ATTTTGTTATTATT
21020156 ATTTTGTTATTATT
1 ATTTTGTTATTATT
21020170 ATTTTG
1 ATTTTG
21020176 GTTTGGGTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (14 bp):
ATTTTGTTATTATT
Found at i:21020740 original size:188 final size:189
Alignment explanation
Indices: 21020412--21020759 Score: 500
Period size: 188 Copynumber: 1.8 Consensus size: 189
21020402 GGGTTACATG
* * *
21020412 ATAAAACTACGATAAAGGGATTATGTCGCTCGAGAATAAGATCCGTAAGTGTAATGGAGAGCCTA
1 ATAAAACTACGATAAAGGCATTAAGTCGCTCGAGAATAAGATCCGTAAGTGTAATGGAGAGACTA
* * ** * * * * * **
21020477 ATTTTACGTGTCAAATTATGACATATCAATTTTTTAATACTTCCATAATGATTACAGTGCAAGGA
66 ATTTGACGTATCAAATTAAAACAAATCAATTATCTAATACTTCCATAATGATAACAATGCAAAAA
*
21020542 CTATACTGGTACTTGTCTTTACAC-TCAATCATTTATTAATACGAAAATCTAAAACTCA
131 CTACACTGGTACTTGTCTTTACACTTCAATCATTTATTAATACGAAAATCTAAAACTCA
* * * *
21020600 ATAAAACTACGGTAAAGGCATTAAGTCTCTCGAGAATAAGTTCCTTAAGTGTAATGGAGAGACTA
1 ATAAAACTACGATAAAGGCATTAAGTCGCTCGAGAATAAGATCCGTAAGTGTAATGGAGAGACTA
* *
21020665 ATTTGATGTATCAAATTAAAACAAATCAATTATCTAATACTTTCATAATGATAACAATGCAAAAA
66 ATTTGACGTATCAAATTAAAACAAATCAATTATCTAATACTTCCATAATGATAACAATGCAAAAA
21020730 CTACACTGGTACTTGTCTTTACACTTCAAT
131 CTACACTGGTACTTGTCTTTACACTTCAAT
21020760 GTCACTCACA
Statistics
Matches: 138, Mismatches: 21, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
188 133 0.96
189 5 0.04
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (189 bp):
ATAAAACTACGATAAAGGCATTAAGTCGCTCGAGAATAAGATCCGTAAGTGTAATGGAGAGACTA
ATTTGACGTATCAAATTAAAACAAATCAATTATCTAATACTTCCATAATGATAACAATGCAAAAA
CTACACTGGTACTTGTCTTTACACTTCAATCATTTATTAATACGAAAATCTAAAACTCA
Found at i:21022648 original size:16 final size:16
Alignment explanation
Indices: 21022600--21022649 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
21022590 AATCATTTCA
21022600 TTCATTTATTTATTAAT
1 TTCATTTATTTA-TAAT
* *
21022617 TACATTTAGGTT-TAAT
1 TTCATTTA-TTTATAAT
21022633 TTCATTTATTTATAAT
1 TTCATTTATTTATAAT
21022649 T
1 T
21022650 ATTTAACTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
15 2 0.07
16 16 0.59
17 7 0.26
18 2 0.07
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.60
Consensus pattern (16 bp):
TTCATTTATTTATAAT
Found at i:21031432 original size:25 final size:24
Alignment explanation
Indices: 21031388--21031434 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
21031378 AAAATCGTGC
* *
21031388 AACTCGACCCGACCCGTTGACTCG
1 AACTCGACCCGAACCATTGACTCG
21031412 AACTCGAACCCGAACCATTGACT
1 AACTCG-ACCCGAACCATTGACT
21031435 GTTAACCGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.28, C:0.38, G:0.17, T:0.17
Consensus pattern (24 bp):
AACTCGACCCGAACCATTGACTCG
Found at i:21031455 original size:7 final size:7
Alignment explanation
Indices: 21031443--21031480 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
21031433 CTGTTAACCG
21031443 TTGACCA
1 TTGACCA
21031450 TTGACCA
1 TTGACCA
21031457 TTGA-C-
1 TTGACCA
21031462 TTGACCA
1 TTGACCA
21031469 TTGACCA
1 TTGACCA
21031476 TTGAC
1 TTGAC
21031481 TTTTTCCATT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 4 0.14
6 2 0.07
7 23 0.79
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (7 bp):
TTGACCA
Found at i:21031467 original size:19 final size:19
Alignment explanation
Indices: 21031443--21031482 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
21031433 CTGTTAACCG
21031443 TTGACCATTGACCATTGAC
1 TTGACCATTGACCATTGAC
21031462 TTGACCATTGACCATTGAC
1 TTGACCATTGACCATTGAC
21031481 TT
1 TT
21031483 TTTCCATTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (19 bp):
TTGACCATTGACCATTGAC
Found at i:21031491 original size:20 final size:20
Alignment explanation
Indices: 21031447--21031505 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
21031437 TAACCGTTGA
**
21031447 CCATTGACCATTGAC-TTGA
1 CCATTGACCATTGACTTTTT
21031466 CCATTGACCATTGACTTTTT
1 CCATTGACCATTGACTTTTT
**
21031486 CCATTGACTGTTGACTTTTT
1 CCATTGACCATTGACTTTTT
21031506 TGAGAAACCC
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
19 15 0.43
20 20 0.57
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.42
Consensus pattern (20 bp):
CCATTGACCATTGACTTTTT
Found at i:21037255 original size:25 final size:23
Alignment explanation
Indices: 21037215--21037260 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
21037205 CCAATTAGGA
21037215 AATTATTGTTTAAATTTAATTCT
1 AATTATTGTTTAAATTTAATTCT
*
21037238 AATTATCTTTTTAGAATTTAATT
1 AATTAT-TGTTTA-AATTTAATT
21037261 TGGATCCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 5 0.25
25 9 0.45
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (23 bp):
AATTATTGTTTAAATTTAATTCT
Found at i:21052421 original size:48 final size:48
Alignment explanation
Indices: 21052326--21052422 Score: 144
Period size: 48 Copynumber: 2.0 Consensus size: 48
21052316 CCTTTCACCA
*
21052326 TATAGATAATGTCTACAGATTTTCAAAGCAAAAACCATAGTGACTAGC
1 TATAGATAATGTCTACAGATTTTCAAAGCAAAAACCACAGTGACTAGC
*
21052374 TATAGATAATGTCT-CTAGATTTTCAAAGC-AAAACCAACAGTGGCTAGC
1 TATAGATAATGTCTAC-AGATTTTCAAAGCAAAAACC-ACAGTGACTAGC
21052422 T
1 T
21052423 CTAAATCATG
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 7 0.16
48 38 0.84
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (48 bp):
TATAGATAATGTCTACAGATTTTCAAAGCAAAAACCACAGTGACTAGC
Found at i:21058697 original size:51 final size:51
Alignment explanation
Indices: 21058637--21058737 Score: 202
Period size: 51 Copynumber: 2.0 Consensus size: 51
21058627 TTAGAGTGGT
21058637 TACAATTTGGTATTGTTCGACCATCAATATACTCATTTTGAATTAAATTCA
1 TACAATTTGGTATTGTTCGACCATCAATATACTCATTTTGAATTAAATTCA
21058688 TACAATTTGGTATTGTTCGACCATCAATATACTCATTTTGAATTAAATTC
1 TACAATTTGGTATTGTTCGACCATCAATATACTCATTTTGAATTAAATTC
21058738 CTATCTAATA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.33, C:0.16, G:0.10, T:0.42
Consensus pattern (51 bp):
TACAATTTGGTATTGTTCGACCATCAATATACTCATTTTGAATTAAATTCA
Found at i:21072358 original size:5 final size:5
Alignment explanation
Indices: 21072348--21072378 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
21072338 ATATCTAATA
21072348 TGATT TGATT TGATT TGATT TGATT TGATT T
1 TGATT TGATT TGATT TGATT TGATT TGATT T
21072379 AATTATGTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.00, G:0.19, T:0.61
Consensus pattern (5 bp):
TGATT
Found at i:21073029 original size:8 final size:8
Alignment explanation
Indices: 21073016--21073085 Score: 52
Period size: 9 Copynumber: 8.2 Consensus size: 8
21073006 ACAATCTCAA
*
21073016 AATAATTT
1 AATAATAT
21073024 AATAATAT
1 AATAATAT
* **
21073032 AATAGTCCG
1 AATAAT-AT
21073041 AATAATAAT
1 AATAAT-AT
21073050 AATAATAAT
1 AATAAT-AT
21073059 AATAATAAT
1 AATAAT-AT
21073068 AATAATAAT
1 AATAAT-AT
21073077 AA-AATAT
1 AATAATAT
21073084 AA
1 AA
21073086 AAAATGTGAG
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
7 4 0.08
8 15 0.28
9 34 0.64
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (8 bp):
AATAATAT
Found at i:21073047 original size:3 final size:3
Alignment explanation
Indices: 21073041--21073082 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
21073031 TAATAGTCCG
21073041 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
21073083 TAAAAAATGT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:21074152 original size:7 final size:7
Alignment explanation
Indices: 21074139--21074188 Score: 50
Period size: 7 Copynumber: 7.4 Consensus size: 7
21074129 ACTCAACGGA
21074139 CAATGGT
1 CAATGGT
*
21074146 TAATGGT
1 CAATGGT
21074153 CAATGGT
1 CAATGGT
21074160 CAA--GT
1 CAATGGT
*
21074165 CAATGAT
1 CAATGGT
**
21074172 CAACAGT
1 CAATGGT
21074179 CAATGGT
1 CAATGGT
21074186 CAA
1 CAA
21074189 CCAATTGAGT
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
5 5 0.15
7 28 0.85
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (7 bp):
CAATGGT
Found at i:21080772 original size:26 final size:26
Alignment explanation
Indices: 21080742--21080792 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
21080732 AAAAGTAAAT
* * *
21080742 GATCAAATCAATGGTCAATGGTCAAC
1 GATCAAATCAACGATCAATGATCAAC
*
21080768 GATCAAGTCAACGATCAATGATCAA
1 GATCAAATCAACGATCAATGATCAA
21080793 TGGTCAATCG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.22
Consensus pattern (26 bp):
GATCAAATCAACGATCAATGATCAAC
Found at i:21082650 original size:23 final size:23
Alignment explanation
Indices: 21082624--21082749 Score: 89
Period size: 23 Copynumber: 5.5 Consensus size: 23
21082614 ACACTAGCGC
21082624 GCTTACCG-TTCAGCACTGTGTGT
1 GCTTACCGTTTC-GCACTGTGTGT
* *
21082647 GCTTACTGTTTCGCACTTTGTGT
1 GCTTACCGTTTCGCACTGTGTGT
*
21082670 GCTTACTGTTTCGCACT-TCGTGT
1 GCTTACCGTTTCGCACTGT-GTGT
* * * * *
21082693 GCCTACTGATTT-GCGCTATGTGC
1 GCTTACCG-TTTCGCACTGTGTGT
* * *
21082716 GCCTACTGATT-GCACTGTGTGT
1 GCTTACCGTTTCGCACTGTGTGT
*
21082738 GCTTACTGTTTC
1 GCTTACCGTTTC
21082750 CCTAGCACTT
Statistics
Matches: 87, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
22 20 0.23
23 60 0.69
24 7 0.08
ACGTcount: A:0.11, C:0.25, G:0.24, T:0.40
Consensus pattern (23 bp):
GCTTACCGTTTCGCACTGTGTGT
Found at i:21082693 original size:46 final size:45
Alignment explanation
Indices: 21082636--21082773 Score: 138
Period size: 46 Copynumber: 3.0 Consensus size: 45
21082626 TTACCGTTCA
21082636 GCACTGTGTGTGCTTACTGTTTCGCACTTTGTGTGCTTACTGTTT
1 GCACTGTGTGTGCTTACTGTTTCGCACTTTGTGTGCTTACTGTTT
* * * * * *
21082681 CGCACT-TCGTGTGCCTACTGATTT-GCGCTATGTGCGCCTACTGATT
1 -GCACTGT-GTGTGCTTACTG-TTTCGCACTTTGTGTGCTTACTGTTT
21082727 GCACTGTGTGTGCTTACTGTTTCCCTAGCAC-TTGTGTGCTTACTGTT
1 GCACTGTGTGTGCTTACTGTTT--C--GCACTTTGTGTGCTTACTGTT
21082774 AAGTACTTCG
Statistics
Matches: 72, Mismatches: 12, Indels: 14
0.73 0.12 0.14
Matches are distributed among these distances:
44 3 0.04
45 17 0.24
46 34 0.47
47 3 0.04
48 12 0.17
49 3 0.04
ACGTcount: A:0.11, C:0.24, G:0.24, T:0.41
Consensus pattern (45 bp):
GCACTGTGTGTGCTTACTGTTTCGCACTTTGTGTGCTTACTGTTT
Found at i:21089807 original size:17 final size:17
Alignment explanation
Indices: 21089781--21089813 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
21089771 AAAGTAAGAA
21089781 AATAATTTA-TAAAAAC
1 AATAATTTATTAAAAAC
21089797 AATATATTTATTAAAAA
1 AATA-ATTTATTAAAAA
21089814 TCCTCGATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 5 0.33
18 6 0.40
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (17 bp):
AATAATTTATTAAAAAC
Found at i:21091279 original size:19 final size:20
Alignment explanation
Indices: 21091221--21091279 Score: 70
Period size: 19 Copynumber: 3.1 Consensus size: 20
21091211 TTAACCCTAA
21091221 AAGTCAACGGTCAAC-GATC
1 AAGTCAACGGTCAACAGATC
* *
21091240 AACTCAATGGTCAA-AGATC
1 AAGTCAACGGTCAACAGATC
*
21091259 AAGTCAACGATCAACAG-TC
1 AAGTCAACGGTCAACAGATC
21091278 AA
1 AA
21091280 CGGTCAACCG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
19 31 0.94
20 2 0.06
ACGTcount: A:0.42, C:0.24, G:0.17, T:0.17
Consensus pattern (20 bp):
AAGTCAACGGTCAACAGATC
Found at i:21091286 original size:26 final size:26
Alignment explanation
Indices: 21091222--21091287 Score: 64
Period size: 26 Copynumber: 2.5 Consensus size: 26
21091212 TAACCCTAAA
*
21091222 AGTCAACGGTCAACGATCAACTCAAT
1 AGTCAACGGTCAACGATCAACTCAAC
* * *
21091248 GGTCAAAGATCAA-G-TCAACGATCAAC
1 AGTCAACGGTCAACGATCAAC--TCAAC
21091274 AGTCAACGGTCAAC
1 AGTCAACGGTCAAC
21091288 CGGTTGAGTC
Statistics
Matches: 30, Mismatches: 7, Indels: 5
0.71 0.17 0.12
Matches are distributed among these distances:
24 5 0.17
25 1 0.03
26 24 0.80
ACGTcount: A:0.39, C:0.26, G:0.18, T:0.17
Consensus pattern (26 bp):
AGTCAACGGTCAACGATCAACTCAAC
Found at i:21110079 original size:9 final size:9
Alignment explanation
Indices: 21110067--21110134 Score: 73
Period size: 9 Copynumber: 7.6 Consensus size: 9
21110057 CGATCAATAG
21110067 CATCACTAT
1 CATCACTAT
* *
21110076 CATCAATAG
1 CATCACTAT
*
21110085 CATCACTAA
1 CATCACTAT
*
21110094 CATCAATAT
1 CATCACTAT
* *
21110103 CGTCACTAG
1 CATCACTAT
*
21110112 CATCAATAT
1 CATCACTAT
21110121 CATCACTAT
1 CATCACTAT
21110130 CATCA
1 CATCA
21110135 ATAAGAAAAC
Statistics
Matches: 46, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
9 46 1.00
ACGTcount: A:0.38, C:0.29, G:0.04, T:0.28
Consensus pattern (9 bp):
CATCACTAT
Found at i:21110082 original size:18 final size:18
Alignment explanation
Indices: 21110059--21110137 Score: 113
Period size: 18 Copynumber: 4.4 Consensus size: 18
21110049 CAAGGTCACG
21110059 ATCAATAGCATCACTATC
1 ATCAATAGCATCACTATC
*
21110077 ATCAATAGCATCACTAAC
1 ATCAATAGCATCACTATC
* * *
21110095 ATCAATATCGTCACTAGC
1 ATCAATAGCATCACTATC
*
21110113 ATCAATATCATCACTATC
1 ATCAATAGCATCACTATC
21110131 ATCAATA
1 ATCAATA
21110138 AGAAAACCTT
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 55 1.00
ACGTcount: A:0.41, C:0.27, G:0.05, T:0.28
Consensus pattern (18 bp):
ATCAATAGCATCACTATC
Found at i:21112529 original size:21 final size:21
Alignment explanation
Indices: 21112499--21112587 Score: 90
Period size: 21 Copynumber: 4.1 Consensus size: 21
21112489 CTCACAAAGA
* *
21112499 AAAAAG-GAAGTGAGTTAGAC
1 AAAAAGAGAAGTAACTTAGAC
* *
21112519 AAAAAGAGAAGCAACTTGGAC
1 AAAAAGAGAAGTAACTTAGAC
*
21112540 AAAAAGAGAAGTAACTTGGAC
1 AAAAAGAGAAGTAACTTAGAC
*
21112561 AAAAAGAAACGAAGTGACTTAGAC
1 AAAAAG--A-GAAGTAACTTAGAC
21112585 AAA
1 AAA
21112588 TATTTTTTGT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
20 6 0.10
21 36 0.62
23 1 0.02
24 15 0.26
ACGTcount: A:0.54, C:0.10, G:0.24, T:0.12
Consensus pattern (21 bp):
AAAAAGAGAAGTAACTTAGAC
Found at i:21112580 original size:24 final size:21
Alignment explanation
Indices: 21112499--21112567 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
21112489 CTCACAAAGA
* * *
21112499 AAAAAG-GAAGTGAGTTAGAC
1 AAAAAGAGAAGTAACTTGGAC
*
21112519 AAAAAGAGAAGCAACTTGGAC
1 AAAAAGAGAAGTAACTTGGAC
21112540 AAAAAGAGAAGTAACTTGGAC
1 AAAAAGAGAAGTAACTTGGAC
21112561 AAAAAGA
1 AAAAAGA
21112568 AACGAAGTGA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 6 0.14
21 37 0.86
ACGTcount: A:0.55, C:0.09, G:0.25, T:0.12
Consensus pattern (21 bp):
AAAAAGAGAAGTAACTTGGAC
Found at i:21126824 original size:27 final size:27
Alignment explanation
Indices: 21126766--21126816 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
21126756 TAAAACAAAT
* *
21126766 AAAATAATAAAAATAAATTAAAAGGAC
1 AAAATAAAAAAAAGAAATTAAAAGGAC
*
21126793 TAAATAAAAAAAAGAAA-TAAAAGG
1 AAAATAAAAAAAAGAAATTAAAAGG
21126817 GGCAAAATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 7 0.33
27 14 0.67
ACGTcount: A:0.73, C:0.02, G:0.10, T:0.16
Consensus pattern (27 bp):
AAAATAAAAAAAAGAAATTAAAAGGAC
Found at i:21128562 original size:64 final size:64
Alignment explanation
Indices: 21128461--21128584 Score: 205
Period size: 64 Copynumber: 1.9 Consensus size: 64
21128451 CTATTACCTG
* *
21128461 TTTTGATCCACTTTACTATAACCTCAGAAAGATAGGTTTTGAAGTTTCAATCCATTCCACCCTA
1 TTTTGATCCACTTTACTATAACCTCAGAAAGATAGGTTTTGAAGCTTCAATCCACTCCACCCTA
*
21128525 TTTTGATCCACTTTACTGTAACCTCA-AGAAGATAGGTTTTGAAGCTTCAATCCACTCCAC
1 TTTTGATCCACTTTACTATAACCTCAGA-AAGATAGGTTTTGAAGCTTCAATCCACTCCAC
21128585 TGTAACCTCA
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
63 1 0.02
64 55 0.98
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (64 bp):
TTTTGATCCACTTTACTATAACCTCAGAAAGATAGGTTTTGAAGCTTCAATCCACTCCACCCTA
Found at i:21128703 original size:99 final size:98
Alignment explanation
Indices: 21128575--21129184 Score: 376
Period size: 99 Copynumber: 6.4 Consensus size: 98
21128565 GAAGCTTCAA
* * * * *
21128575 TCCACTCCACTGTAACCTCAAAGACATTGAGATCTGCTTTATTACTTTAATCCAACCCACTGCAA
1 TCCATTCCACTGTAACCTCAAGGACATTGAGATCTGCTTTATTATTTTAATCCGACCCACTACAA
21128640 CTCAGGGGTATAGGATTCGATGTTGTAACTTCTT
66 CTCAGGGGTATAGGATT-GATGTTGTAACTTCTT
* * * * * * *
21128674 TCCATTCCACTATAACCTCAGGGACATTGAGATC--CGTTACTCATTTTGACCCGATCCACTACA
1 TCCATTCCACTGTAACCTCAAGGACATTGAGATCTGCTTTA-TTATTTTAATCCGACCCACTACA
* * **
21128737 ACTTCAGGGATATAGGA-TG-TG--GT-GCTTCAC
65 AC-TCAGGGGTATAGGATTGATGTTGTAACTTCTT
* * * *
21128767 TCCATTCCACTGTAACCTCAAGGACATTGAGATCTGCTTTATTATTTTAATCCGACCTAATATAG
1 TCCATTCCACTGTAACCTCAAGGACATTGAGATCTGCTTTATTATTTTAATCCGACCCACTACAA
*
21128832 CTCAGGGGTATGGGATTTGATGTTGTAACTTCTT
66 CTCAGGGGTATAGGA-TTGATGTTGTAACTTCTT
* * * * * * ** * *
21128866 TTCATTCCACTGTAACCTCAGGGAGATTGAGAT-T-CGTTACTCATTTTGATATGATCCACTATA
1 TCCATTCCACTGTAACCTCAAGGACATTGAGATCTGCTTTA-TTATTTTAATCCGACCCACTACA
* * **
21128929 ACTTCAGGGATATAGGA-T-ATAG--G--GCTTCAC
65 AC-TCAGGGGTATAGGATTGAT-GTTGTAACTTCTT
* * * * **
21128959 TCTATTCCACTGTAACATCAACGAC----A-CTCTGCTTCGTTATTTTAATCCGACCCACTACAA
1 TCCATTCCACTGTAACCTCAAGGACATTGAGATCTGCTTTATTATTTTAATCCGACCCACTACAA
* * *
21129019 CTCAAGGGTATGGGATTTGATATTGTAACTTCTT
66 CTCAGGGGTATAGGA-TTGATGTTGTAACTTCTT
* * * * * * * ** * ** *
21129053 TCAATTCCAGTATAACCTTAGGGACATTGAGATC--CGTTATTCATTTTGATTTGATCCAAAATA
1 TCCATTCCACTGTAACCTCAAGGACATTGAGATCTGCTTTATT-ATTTTAATCCGACCCACTACA
* * **
21129116 ACTTCAAGGATATAGGATCTG--G-TG---CTTCAC
65 AC-TCAGGGGTATAGGAT-TGATGTTGTAACTTCTT
21129146 TCCATTCCACTGTAACCTCAAGGACATTGAGATCTGCTT
1 TCCATTCCACTGTAACCTCAAGGACATTGAGATCTGCTT
21129185 CGTTGTTTTG
Statistics
Matches: 378, Mismatches: 101, Indels: 68
0.69 0.18 0.12
Matches are distributed among these distances:
88 12 0.03
89 21 0.06
90 3 0.01
91 2 0.01
92 1 0.00
93 104 0.28
94 41 0.11
95 9 0.02
96 8 0.02
97 15 0.04
98 57 0.15
99 105 0.28
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (98 bp):
TCCATTCCACTGTAACCTCAAGGACATTGAGATCTGCTTTATTATTTTAATCCGACCCACTACAA
CTCAGGGGTATAGGATTGATGTTGTAACTTCTT
Found at i:21128773 original size:256 final size:259
Alignment explanation
Indices: 21128304--21128776 Score: 589
Period size: 256 Copynumber: 1.8 Consensus size: 259
21128294 AGATTTGGTG
** * * * * **
21128304 TTGAAGCTTCTCTCCATTCCACTGTAATCTCAAGGACATTGAGATCTGCTTTTGTTTTTTTAATC
1 TTGAAGCTTCAATCCACTCCACTGTAACCTCAAAGACATTGAGATCTGCTTTTATTACTTTAATC
* * * *
21128369 CGACCCAGTGCAAACTTCAAGGGTATAGGATTTGGTGTTGTAACTTCACTTCATTCCACTATAAC
66 CAACCCACTGCAAACTTCAAGGGTATAGGATTCGATGTTGTAACTTCACTTCATTCCACTATAAC
* * * * ** * *
21128434 CTTAGGGACATTGAGATCTATTACCTGTTTTGATCCACTTTACTATAACCTCAGAAAGATAGGTT
131 CTCAGGGACATTGAGATCCATTACCTATTTTGACCCACTCCACTACAACCTCAGAAAGATAGGAT
* *
21128499 TTGAAGTTTCAATCCATTCCACCCTATTTTGATCCACTTTACTGTAACCTCAAGAAGATAGGTT
196 GTGAAGCTTCAATCCATTCCACCCTATTTTGATCCACTTTACTGTAACCTCAAGAAGATAGGTT
21128563 TTGAAGCTTCAATCCACTCCACTGTAACCTCAAAGACATTGAGATCTGC-TTTATTACTTTAATC
1 TTGAAGCTTCAATCCACTCCACTGTAACCTCAAAGACATTGAGATCTGCTTTTATTACTTTAATC
* *
21128627 CAACCCACTGC-AAC-TCAGGGGTATAGGATTCGATGTTGTAACTTC-TTTCCATTCCACTATAA
66 CAACCCACTGCAAACTTCAAGGGTATAGGATTCGATGTTGTAACTTCACTT-CATTCCACTATAA
* * ** *
21128689 CCTCAGGGACATTGAGATCCGTTA-CTCATTTTGACCCGA-TCCACTACAACTTCAGGGATATAG
130 CCTCAGGGACATTGAGATCCATTACCT-ATTTTGACCC-ACTCCACTACAACCTCAGAAAGATAG
** *
21128752 GATGTGGTGCTTCACTCCATTCCAC
193 GATGTGAAGCTTCAATCCATTCCAC
21128777 TGTAACCTCA
Statistics
Matches: 179, Mismatches: 32, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
255 4 0.02
256 106 0.59
257 4 0.02
258 21 0.12
259 44 0.25
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.34
Consensus pattern (259 bp):
TTGAAGCTTCAATCCACTCCACTGTAACCTCAAAGACATTGAGATCTGCTTTTATTACTTTAATC
CAACCCACTGCAAACTTCAAGGGTATAGGATTCGATGTTGTAACTTCACTTCATTCCACTATAAC
CTCAGGGACATTGAGATCCATTACCTATTTTGACCCACTCCACTACAACCTCAGAAAGATAGGAT
GTGAAGCTTCAATCCATTCCACCCTATTTTGATCCACTTTACTGTAACCTCAAGAAGATAGGTT
Found at i:21128856 original size:192 final size:192
Alignment explanation
Indices: 21128568--21129184 Score: 841
Period size: 192 Copynumber: 3.2 Consensus size: 192
21128558 AGGTTTTGAA
* * * * *
21128568 GCTTCAATCCACTCCACTGTAACCTCAAAGACATTGAGATCTGCTTTATTACTTTAATCCAACCC
1 GCTTCACTCCATTCCACTGTAACCTCAAGGACATTGAGATCTGCTTTATTATTTTAATCCGACCC
* * *
21128633 ACTGCAACTCAGGGGTATAGGATTCGATGTTGTAACTTCTTTCCATTCCACTATAACCTCAGGGA
66 ACTACAACTCAGGGGTATGGGATTTGATGTTGTAACTTCTTTCCATTCCACTATAACCTCAGGGA
*** * *
21128698 CATTGAGATCCGTTACTCATTTTGACCCGATCCACTACAACTTCAGGGATATAGGATGTGGT
131 CATTGAGATCCGTTACTCATTTTGATATGATCCACTATAACTTCAGGGATATAGGATATGGT
*
21128760 GCTTCACTCCATTCCACTGTAACCTCAAGGACATTGAGATCTGCTTTATTATTTTAATCCGACCT
1 GCTTCACTCCATTCCACTGTAACCTCAAGGACATTGAGATCTGCTTTATTATTTTAATCCGACCC
* * * * *
21128825 AATATAGCTCAGGGGTATGGGATTTGATGTTGTAACTTCTTTTCATTCCACTGTAACCTCAGGGA
66 ACTACAACTCAGGGGTATGGGATTTGATGTTGTAACTTCTTTCCATTCCACTATAACCTCAGGGA
* *
21128890 GATTGAGATTCGTTACTCATTTTGATATGATCCACTATAACTTCAGGGATATAGGATATAGG-
131 CATTGAGATCCGTTACTCATTTTGATATGATCCACTATAACTTCAGGGATATAGGATAT-GGT
* * * * **
21128952 GCTTCACTCTATTCCACTGTAACATCAACGAC----A-CTCTGCTTCGTTATTTTAATCCGACCC
1 GCTTCACTCCATTCCACTGTAACCTCAAGGACATTGAGATCTGCTTTATTATTTTAATCCGACCC
* * * * *
21129012 ACTACAACTCAAGGGTATGGGATTTGATATTGTAACTTCTTTCAATTCCAGTATAACCTTAGGGA
66 ACTACAACTCAGGGGTATGGGATTTGATGTTGTAACTTCTTTCCATTCCACTATAACCTCAGGGA
* * ** * *
21129077 CATTGAGATCCGTTATTCATTTTGATTTGATCCAAAATAACTTCAAGGATATAGGATCTGGT
131 CATTGAGATCCGTTACTCATTTTGATATGATCCACTATAACTTCAGGGATATAGGATATGGT
21129139 GCTTCACTCCATTCCACTGTAACCTCAAGGACATTGAGATCTGCTT
1 GCTTCACTCCATTCCACTGTAACCTCAAGGACATTGAGATCTGCTT
21129185 CGTTGTTTTG
Statistics
Matches: 368, Mismatches: 50, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
186 2 0.01
187 158 0.43
188 1 0.00
191 1 0.00
192 204 0.55
193 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (192 bp):
GCTTCACTCCATTCCACTGTAACCTCAAGGACATTGAGATCTGCTTTATTATTTTAATCCGACCC
ACTACAACTCAGGGGTATGGGATTTGATGTTGTAACTTCTTTCCATTCCACTATAACCTCAGGGA
CATTGAGATCCGTTACTCATTTTGATATGATCCACTATAACTTCAGGGATATAGGATATGGT
Found at i:21129626 original size:49 final size:49
Alignment explanation
Indices: 21129391--21129628 Score: 237
Period size: 49 Copynumber: 4.9 Consensus size: 49
21129381 CCTCATCTTC
** * **
21129391 AAGGTATAAGATTTTTCATTTCGACTTCAACCTTTCCCTTCACAAATCT
1 AAGGTATAAGATTTGCCATTGCGACTTCAACCTTTCCCTTCACATCTCT
* * * *
21129440 AAGGTATAAGGTTTGCCATTACGACTCCAACCTTTCCCTCCACATCTCT
1 AAGGTATAAGATTTGCCATTGCGACTTCAACCTTTCCCTTCACATCTCT
* * ** * * * *
21129489 -AGTGTATAAGATTCGCCGTTGCGGTTTTAACCTTTCCCTCCATATCACT
1 AAG-GTATAAGATTTGCCATTGCGACTTCAACCTTTCCCTTCACATCTCT
* * *
21129538 -AGGATACAAGATTTGCCATTGCTACTTCAATCTTTCCCTTCACATCTCT
1 AAGG-TATAAGATTTGCCATTGCGACTTCAACCTTTCCCTTCACATCTCT
* * *
21129587 AAGGTATAAGATTCGCCATTGCGGCTTCAATCTTTCCCTTCA
1 AAGGTATAAGATTTGCCATTGCGACTTCAACCTTTCCCTTCA
21129629 TGTCTTCTAG
Statistics
Matches: 153, Mismatches: 33, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
48 3 0.02
49 147 0.96
50 3 0.02
ACGTcount: A:0.24, C:0.28, G:0.13, T:0.35
Consensus pattern (49 bp):
AAGGTATAAGATTTGCCATTGCGACTTCAACCTTTCCCTTCACATCTCT
Found at i:21130612 original size:6 final size:6
Alignment explanation
Indices: 21130601--21130664 Score: 71
Period size: 6 Copynumber: 10.8 Consensus size: 6
21130591 TCCTTTTTAT
* *
21130601 TTTTTC TCTTTC TTTTTCC TTATTTC -TTTTC -TTTTC -TTTTA TTTTTC
1 TTTTTC TTTTTC TTTTT-C TT-TTTC TTTTTC TTTTTC TTTTTC TTTTTC
21130648 TTTTTC TTTTTC TTTTT
1 TTTTTC TTTTTC TTTTT
21130665 TTTGGGTGAA
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
5 13 0.25
6 31 0.61
7 4 0.08
8 3 0.06
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTTC
Found at i:21130645 original size:28 final size:27
Alignment explanation
Indices: 21130614--21130667 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
21130604 TTCTCTTTCT
21130614 TTTTCCTTATTTC-TTTTCTTTTCTTTTA
1 TTTTCCTT-TTTCTTTTTCTTTT-TTTTA
*
21130642 TTTTTCTTTTTCTTTTTCTTTTTTTT
1 TTTTCCTTTTTCTTTTTCTTTTTTTT
21130668 GGGTGAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 8 0.33
28 16 0.67
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (27 bp):
TTTTCCTTTTTCTTTTTCTTTTTTTTA
Found at i:21135560 original size:192 final size:192
Alignment explanation
Indices: 21135233--21136313 Score: 1551
Period size: 192 Copynumber: 5.6 Consensus size: 192
21135223 ATCTTAAAAG
* * * * * * *
21135233 GGGACATTCAGATCCGTTAGTCATTTTAATCCGATCCACTATA-ACTTTAGGGATATAGGATGTG
1 GGGACATTGAGATCCGTTACTCATTTTGATCTGATCCACTACATA-TTCAGGGATATAGGATCTG
* * * * *
21135297 GTGCTTCACTCCATTCCACTGTAATCTCAGGGACAATGAGATCTGCTTTATTGTTTTAATCCGAC
65 GTGCTTCACTCCATTCCACTGTAACCTCAAGGACATTGAGATCTGCTTCATTGTTTTAATTCGAC
* * *
21135362 CCAATACAACTCAAGGATATGGGATTTGATGTTGTAACTTCTC-CTCATTCCACTGTAACCTCA
130 CCACTACAACTCAAGGGTATGGGATTTGATATTGTAACTTCTCTC-CATTCCACTGTAACCTCA
* *
21135425 GGGACATTGAGATCCGTTACTCATTTTGATCTGATCCACTACATATTCAAGCATATAGGATCTGG
1 GGGACATTGAGATCCGTTACTCATTTTGATCTGATCCACTACATATTCAGGGATATAGGATCTGG
* * * *
21135490 TGCTTCACTCCATTCCACTGTAACCTCAGGGACAGTGAGATCTGCTTTATTATTTTAATTCGACC
66 TGCTTCACTCCATTCCACTGTAACCTCAAGGACATTGAGATCTGCTTCATTGTTTTAATTCGACC
* * *
21135555 CAATACAACTCAAGGATATGGGATTTGATATTGTAACTTCTC-CTCATTCCACTGTAACCTTA
131 CACTACAACTCAAGGGTATGGGATTTGATATTGTAACTTCTCTC-CATTCCACTGTAACCTCA
* * * * *
21135617 GGGACATTGAGATACGTTACTCATTTTGATCTGATCCACTACATACTCAAGCATATAGGATCTTG
1 GGGACATTGAGATCCGTTACTCATTTTGATCTGATCCACTACATATTCAGGGATATAGGATCTGG
* *
21135682 TGCTTCACTCCATTCCACTGTAACCTCAGGGACATTGAGATCTACTTCATTGTTTTAA-TCTGAC
66 TGCTTCACTCCATTCCACTGTAACCTCAAGGACATTGAGATCTGCTTCATTGTTTTAATTC-GAC
*
21135746 CGACTACAACTCAAGGGTATGGGATTTGATATTGTAACTTCTCTCCATTCCACTGTAACCTCA
130 CCACTACAACTCAAGGGTATGGGATTTGATATTGTAACTTCTCTCCATTCCACTGTAACCTCA
*
21135809 GGGACATTGAGATCCGTTACTCATTTTGATCTGATCCACTACATATTCAGGGATATAGGATTTGG
1 GGGACATTGAGATCCGTTACTCATTTTGATCTGATCCACTACATATTCAGGGATATAGGATCTGG
* * * * *
21135874 TGCTTCACTCCATTCCATTGTAACCTCAAGGACGTTGAGATCTACTTCGTTGTTTTAATTTGACC
66 TGCTTCACTCCATTCCACTGTAACCTCAAGGACATTGAGATCTGCTTCATTGTTTTAATTCGACC
*
21135939 GACTACAACTCAAGGGTATGGGATTTGATATTGTAACTTCTCTCCATTCCACTGTAACCTCA
131 CACTACAACTCAAGGGTATGGGATTTGATATTGTAACTTCTCTCCATTCCACTGTAACCTCA
* * * *
21136001 GGGACATTGAGATTCGTTACTCATTTTGATCCGATCCAATGCA-ACTTCAGGGATATAGGATCTG
1 GGGACATTGAGATCCGTTACTCATTTTGATCTGATCCACTACATA-TTCAGGGATATAGGATCTG
* * *
21136065 GTGCTTCACTCCATTCCACTATAACCTCAAGGACATTGAGATCTGCTTCATTATTTTAATCCGAC
65 GTGCTTCACTCCATTCCACTGTAACCTCAAGGACATTGAGATCTGCTTCATTGTTTTAATTCGAC
* * * * *
21136130 CCACTATAACTCAAGGGTATGGGATTTGATGTTGTAACTTCTTTCCATTCCATTGTAACCTTA
130 CCACTACAACTCAAGGGTATGGGATTTGATATTGTAACTTCTCTCCATTCCACTGTAACCTCA
* * * * **
21136193 CGGACATTGAGATCCGTTACTCATTTTGACCTGATCCACTACATCTTCAGGGTTATAGGATGGGG
1 GGGACATTGAGATCCGTTACTCATTTTGATCTGATCCACTACATATTCAGGGATATAGGATCTGG
* *
21136258 TGCTTCACTTCATTCCACTGTAACCTCAAGGACATTGAGATTTGCTTCATTGTTTT
66 TGCTTCACTCCATTCCACTGTAACCTCAAGGACATTGAGATCTGCTTCATTGTTTT
21136314 TATCCGTTTC
Statistics
Matches: 813, Mismatches: 70, Indels: 12
0.91 0.08 0.01
Matches are distributed among these distances:
191 3 0.00
192 807 0.99
193 3 0.00
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (192 bp):
GGGACATTGAGATCCGTTACTCATTTTGATCTGATCCACTACATATTCAGGGATATAGGATCTGG
TGCTTCACTCCATTCCACTGTAACCTCAAGGACATTGAGATCTGCTTCATTGTTTTAATTCGACC
CACTACAACTCAAGGGTATGGGATTTGATATTGTAACTTCTCTCCATTCCACTGTAACCTCA
Found at i:21136440 original size:42 final size:43
Alignment explanation
Indices: 21136393--21136508 Score: 152
Period size: 42 Copynumber: 2.8 Consensus size: 43
21136383 TAGGGATGTA
*
21136393 AGATTCGCCTTTGCAGCTTCAATCTTGCCTT-T-TATAG-CTTTG
1 AGATTCGCCTTTGCAGCTTCAATCTTG-CTTCTCTACAGTC-TTG
*
21136435 AGATTCGCCTTTGCAGCTTCAAT-ATGCTTCTCTACAGTCTTG
1 AGATTCGCCTTTGCAGCTTCAATCTTGCTTCTCTACAGTCTTG
*
21136477 AGATTCGCCTTTTCAGCTTCAATC-TGCTTCTC
1 AGATTCGCCTTTGCAGCTTCAATCTTGCTTCTC
21136509 CTCATCTTTA
Statistics
Matches: 67, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
40 3 0.04
41 3 0.04
42 60 0.90
43 1 0.01
ACGTcount: A:0.17, C:0.27, G:0.16, T:0.41
Consensus pattern (43 bp):
AGATTCGCCTTTGCAGCTTCAATCTTGCTTCTCTACAGTCTTG
Found at i:21136452 original size:21 final size:21
Alignment explanation
Indices: 21136393--21136453 Score: 54
Period size: 21 Copynumber: 2.9 Consensus size: 21
21136383 TAGGGATGTA
21136393 AGATTCGCCTTTGCAGC-TTC
1 AGATTCGCCTTTGCAGCTTTC
* ** *
21136413 A-ATCTTGCCTTTTATAGCTTTG
1 AGAT-TCGCC-TTTGCAGCTTTC
21136435 AGATTCGCCTTTGCAGCTT
1 AGATTCGCCTTTGCAGCTT
21136454 CAATATGCTT
Statistics
Matches: 30, Mismatches: 7, Indels: 7
0.68 0.16 0.16
Matches are distributed among these distances:
19 2 0.07
20 5 0.17
21 14 0.47
22 7 0.23
23 2 0.07
ACGTcount: A:0.16, C:0.25, G:0.18, T:0.41
Consensus pattern (21 bp):
AGATTCGCCTTTGCAGCTTTC
Found at i:21136769 original size:49 final size:49
Alignment explanation
Indices: 21136512--21136770 Score: 236
Period size: 49 Copynumber: 5.3 Consensus size: 49
21136502 GCTTCTCCTC
* * * * *
21136512 ATCTTTAGGGTATAAGATTCGTCATTACAACTTCAATATTTCCCTTCAC
1 ATCTCTAGGGTATAAGATTCGTCATTGCGACTTCAATCTTTCCCTTCAT
* * * * * * * * *
21136561 ATATCTATGGTATAAGGTTTGCCCTTGC-AGCTTCAACCTTTGCCTCCAT
1 ATCTCTAGGGTATAAGATTCGTCATTGCGA-CTTCAATCTTTCCCTTCAT
* * * *
21136610 ATCGCTAGGGTATAAGATTCGTCGTTGCCG-CTTCAACCTTTCCCTCCAT
1 ATCTCTAGGGTATAAGATTCGTCATTG-CGACTTCAATCTTTCCCTTCAT
* * * * *
21136659 ATCACTAGGGTACAAGATTCGCCATTACGACTTCAATCTTTCCCTTCAC
1 ATCTCTAGGGTATAAGATTCGTCATTGCGACTTCAATCTTTCCCTTCAT
* *
21136708 ATCTCTAAGGTATAAGATTCGTCGTTGCGACTTCAATCTTT-CCTTCAT
1 ATCTCTAGGGTATAAGATTCGTCATTGCGACTTCAATCTTTCCCTTCAT
*
21136756 GTCTTCTAGGGTATA
1 ATC-TCTAGGGTATA
21136771 TGGTTTAACG
Statistics
Matches: 167, Mismatches: 38, Indels: 10
0.78 0.18 0.05
Matches are distributed among these distances:
48 11 0.07
49 155 0.93
50 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.36
Consensus pattern (49 bp):
ATCTCTAGGGTATAAGATTCGTCATTGCGACTTCAATCTTTCCCTTCAT
Found at i:21137414 original size:113 final size:112
Alignment explanation
Indices: 21137217--21137425 Score: 337
Period size: 113 Copynumber: 1.9 Consensus size: 112
21137207 ACCACCAACT
* * **
21137217 GTTATTTCAATGCAAAAATGCTTAAACAGGATTGTAAGGTGGATAAAATTGAATTTTATTGGAGG
1 GTTATTTCAATGCAAAAATGCTTAAACAGGATCGAAAGGCAGATAAAATTGAATTTTATTGGAGG
*
21137282 CAAAGCTTACATGAATGAAAAGATTAAAAATCATTTGTCCACTAATC
66 CAAAGCTCACATGAATGAAAAGATTAAAAATCATTTGTCCACTAATC
* * *
21137329 GTTATTTCGATGCAAAAATGCTTGAACAGGGTCGCAAAGGCAGATAAAATTGAATTTTATTGGAG
1 GTTATTTCAATGCAAAAATGCTTAAACAGGATCG-AAAGGCAGATAAAATTGAATTTTATTGGAG
21137394 GCAAAGCTCACATGAATGAAAAGATTAAAAAT
65 GCAAAGCTCACATGAATGAAAAGATTAAAAAT
21137426 GACTGATATT
Statistics
Matches: 88, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
112 30 0.34
113 58 0.66
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.29
Consensus pattern (112 bp):
GTTATTTCAATGCAAAAATGCTTAAACAGGATCGAAAGGCAGATAAAATTGAATTTTATTGGAGG
CAAAGCTCACATGAATGAAAAGATTAAAAATCATTTGTCCACTAATC
Found at i:21137761 original size:6 final size:6
Alignment explanation
Indices: 21137739--21137804 Score: 73
Period size: 6 Copynumber: 10.8 Consensus size: 6
21137729 AGACCTCTCA
* *
21137739 TTTTTC TTTTT- TTTTTC TTTTTCCC TATTTC TTTTCTT TTTTTC TTTTTC
1 TTTTTC TTTTTC TTTTTC TTTTT--C TTTTTC TTTT-TC TTTTTC TTTTTC
21137789 TTTTTC TTTTT- TTTTT
1 TTTTTC TTTTTC TTTTT
21137805 GGTGAAATTC
Statistics
Matches: 52, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
5 10 0.19
6 32 0.62
7 5 0.10
8 5 0.10
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTC
Found at i:21137769 original size:25 final size:23
Alignment explanation
Indices: 21137741--21137804 Score: 83
Period size: 27 Copynumber: 2.6 Consensus size: 23
21137731 ACCTCTCATT
21137741 TTTCTTTTTTTTTTCTTTTTCCCTA
1 TTTCTTTTTTTTTTCTTTTT--CTA
*
21137766 TTTCTTTTCTTTTTTTCTTTTTCTT
1 TTTC-TTT-TTTTTTTCTTTTTCTA
21137791 TTTCTTTTTTTTTT
1 TTTCTTTTTTTTTT
21137805 GGTGAAATTC
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
23 7 0.19
24 3 0.08
25 10 0.28
26 3 0.08
27 13 0.36
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.83
Consensus pattern (23 bp):
TTTCTTTTTTTTTTCTTTTTCTA
Found at i:21137800 original size:19 final size:19
Alignment explanation
Indices: 21137739--21137804 Score: 75
Period size: 19 Copynumber: 3.5 Consensus size: 19
21137729 AGACCTCTCA
21137739 TTTTTCTTTTT-TTTTTCT
1 TTTTTCTTTTTCTTTTTCT
* *
21137757 TTTTCCCTATTTC-TTTTCTT
1 TTTT-TCTTTTTCTTTTTC-T
21137777 TTTTTCTTTTTCTTTTTCT
1 TTTTTCTTTTTCTTTTTCT
21137796 TTTTT-TTTT
1 TTTTTCTTTT
21137805 GGTGAAATTC
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
18 8 0.20
19 22 0.55
20 10 0.25
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (19 bp):
TTTTTCTTTTTCTTTTTCT
Found at i:21138497 original size:6 final size:6
Alignment explanation
Indices: 21138481--21138520 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
21138471 TATCTCAACC
*
21138481 CTTTTT C-TTTT CTTTTT CTTTTG C-TTTT CTTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
21138521 TATTCTTCTC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
5 9 0.30
6 21 0.70
ACGTcount: A:0.00, C:0.17, G:0.03, T:0.80
Consensus pattern (6 bp):
CTTTTT
Found at i:21138497 original size:11 final size:11
Alignment explanation
Indices: 21138481--21138520 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
21138471 TATCTCAACC
21138481 CTTTTTCTTTT
1 CTTTTTCTTTT
21138492 CTTTTTCTTTT
1 CTTTTTCTTTT
21138503 GC-TTTTCTTTTT
1 -CTTTTTC-TTTT
21138515 CTTTTT
1 CTTTTT
21138521 TATTCTTCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 17 0.65
12 9 0.35
ACGTcount: A:0.00, C:0.17, G:0.03, T:0.80
Consensus pattern (11 bp):
CTTTTTCTTTT
Found at i:21138507 original size:17 final size:17
Alignment explanation
Indices: 21138481--21138519 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
21138471 TATCTCAACC
*
21138481 CTTTTTCTTTTCTTTTT
1 CTTTTGCTTTTCTTTTT
21138498 CTTTTGCTTTTCTTTTT
1 CTTTTGCTTTTCTTTTT
21138515 CTTTT
1 CTTTT
21138520 TTATTCTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (17 bp):
CTTTTGCTTTTCTTTTT
Found at i:21143334 original size:24 final size:25
Alignment explanation
Indices: 21143300--21143352 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
21143290 CATCATGGTA
*
21143300 TTTTTTTTTGCATTTG-TC-TTCTTG
1 TTTTTTGTTGC-TTTGCTCTTTCTTG
*
21143324 TTTTTTGTTGCTTTGCTCTTTTTTG
1 TTTTTTGTTGCTTTGCTCTTTCTTG
21143349 TTTT
1 TTTT
21143353 GCAGGTTGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 4 0.16
24 12 0.48
25 9 0.36
ACGTcount: A:0.02, C:0.11, G:0.13, T:0.74
Consensus pattern (25 bp):
TTTTTTGTTGCTTTGCTCTTTCTTG
Found at i:21143343 original size:21 final size:23
Alignment explanation
Indices: 21143300--21143353 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 23
21143290 CATCATGGTA
21143300 TTTTTTT-TTGCATTTGTCTTCT
1 TTTTTTTGTTGCATTTGTCTTCT
21143322 TGTTTTTTGTTGC-TTTGCTCTT-T
1 T-TTTTTTGTTGCATTTG-TCTTCT
21143345 TTTGTTTTG
1 TTT-TTTTG
21143354 CAGGTTGTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
22 3 0.11
23 17 0.61
24 8 0.29
ACGTcount: A:0.02, C:0.11, G:0.15, T:0.72
Consensus pattern (23 bp):
TTTTTTTGTTGCATTTGTCTTCT
Found at i:21144383 original size:99 final size:97
Alignment explanation
Indices: 21143843--21144712 Score: 414
Period size: 93 Copynumber: 9.0 Consensus size: 97
21143833 TAGGAAGATG
* * * *
21143843 GGATTTGGTGTTG-AAGCTTCTCTCCATTCCATTGTAACCTCAGGGACATTAAGATTTGCTTCTT
1 GGATTTGATGTTGTAA-CTTCTCTCCATTCCACTGTAACCTCAGGGACATTGAGA-TCGCTTC--
*
21143907 TTTTTGTTTTAATCTGACCCACT-TCAACTTCA-AGGGTATA
62 ---TTATTTTAATCTGACCCACTGT-AAC-TCAGA-GGTATA
* * * * ** * *
21143947 GGATTTGGTGTTGTAACTTCACTCCATTCCATTGTAACCTCAGGGACGTTGAGATCTATTACCTG
1 GGATTTGATGTTGTAACTTCTCTCCATTCCACTGTAACCTCAGGGACATTGAGATCGCTT-CTTA
* * ** * * * *
21144012 TTTTGATC-CACTTTATTATAACCTTAGGAAG-ATA
65 TTTTAATCTGAC-CCACTGTAA-CTCA-GAGGTATA
** * * * *
21144046 GG-TTT--TGAAGT---TTCACTCCATTCTATTGTAACCTTAGGGACATTGAGATCCGCTT-TGT
1 GGATTTGATGTTGTAACTTCTCTCCATTCCACTGTAACCTCAGGGACATTGAGAT-CGCTTCT-T
* ** ** *
21144104 TTCTTTAATCCAACCCACTACAACTCAGGGGGTATA
64 AT-TTTAATCTGACCCACTGTAACTCA-GAGGTATA
* * **
21144140 GGATTTGATGTTGTAACTTCTCTCTATTCCACTATAACCTCAGGGACATTGAGATACG-TTACAC
1 GGATTTGATGTTGTAACTTCTCTCCATTCCACTGTAACCTCAGGGACATTGAGAT-CGCTT-CTT
* *
21144204 ATTTTGAA-CTGATCCACTGTAACTTTA-AGGATATA
64 ATTTT-AATCTGACCCACTGTAAC-TCAGAGG-TATA
* * *
21144239 GGATCTG--G-TG---CTTCACTCCATTCCACTGTAACCTTAGGGACATTGAGATCTGCTTCGTT
1 GGATTTGATGTTGTAACTTCTCTCCATTCCACTGTAACCTCAGGGACATTGAGATC-GCTTC-TT
*
21144298 ATTTAAATCTGACCCACTGTAACTCAGAGGTATA
64 ATTTTAATCTGACCCACTGTAACTCAGAGGTATA
* * *
21144332 GGATTTGATGTTGTAAATTCTCTCCATTCCATTGTAACCTCAGAGACATTGAGATC-CATTACTT
1 GGATTTGATGTTGTAACTTCTCTCCATTCCACTGTAACCTCAGGGACATTGAGATCGC-TT-CTT
* * * ** *
21144396 ATTTTGATTTGATCCACTGTAACTTTTG-GGATAGA
64 ATTTTAATCTGACCCACTGTAAC-TCAGAGG-TATA
* * * *
21144431 GGATCT-A-G-TG---CTTCACTCCATTCCACTGTAACCTTAGGGACATTGAGATCTACTTCATT
1 GGATTTGATGTTGTAACTTCTCTCCATTCCACTGTAACCTCAGGGACATTGAGATC-GCTTC-TT
* * * * * * *
21144490 GTTTTAATCCGAGCCATTATAACTCAGGGGTATG
64 ATTTTAATCTGACCCACTGTAACTCAGAGGTATA
* * *
21144524 GGATTTTATGTTGTAACTTCTCTCCATTCCACTGTAACCTCAGGGGCATTGAGATC-CATTACTC
1 GGATTTGATGTTGTAACTTCTCTCCATTCCACTGTAACCTCAGGGACATTGAGATCGC-TT-CTT
* * * * *
21144588 ATTTTGATCTGATCCACTGCAACTTCAAAGATATA
64 ATTTTAATCTGACCCACTGTAAC-TCAGAGGTATA
* * * * * * *
21144623 GAATCT-A-G-TG---CTTCGCTCTATTCCACTGTAACCTCAAGAACATTGAGAT--CTACTTCA
1 GGATTTGATGTTGTAACTTCTCTCCATTCCACTGTAACCTCAGGGACATTGAGATCGCTTCTT-A
* **
21144680 TTTTAATCTG-CTTCACTGTAACTTTGAGGTATA
65 TTTTAATCTGAC-CCACTGTAACTCAGAGGTATA
21144713 AAATTTATCG
Statistics
Matches: 589, Mismatches: 124, Indels: 120
0.71 0.15 0.14
Matches are distributed among these distances:
90 9 0.02
91 19 0.03
92 2 0.00
93 173 0.29
94 65 0.11
95 8 0.01
96 14 0.02
97 9 0.02
98 53 0.09
99 140 0.24
100 42 0.07
101 1 0.00
103 3 0.01
104 49 0.08
105 2 0.00
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (97 bp):
GGATTTGATGTTGTAACTTCTCTCCATTCCACTGTAACCTCAGGGACATTGAGATCGCTTCTTAT
TTTAATCTGACCCACTGTAACTCAGAGGTATA
Found at i:21144402 original size:192 final size:192
Alignment explanation
Indices: 21143858--21144678 Score: 866
Period size: 192 Copynumber: 4.2 Consensus size: 192
21143848 TGGTGTTGAA
* * * * * * *
21143858 GCTTCTCTCCATTCCATTGTAACCTCAGGGACATTAAGATTTGCTTCTTTTTTTGTTTTAATCTG
1 GCTTCACTCCATTCCACTGTAACCTTAGGGACATTGAGATCTGCTTC----GTTGTTTTAATCCG
* * *
21143923 ACCCACT-TCAACTTCA-AGGGTATAGGATTTGGTGTTGTAACTTCACTCCATTCCATTGTAACC
62 ACCCACTAT-AAC-TCAGA-GGTATAGGATTTGATGTTGTAACTTCTCTCCATTCCACTGTAACC
* * * * ** * * * *
21143986 TCAGGGACGTTGAGATCTATTAC-CTGTTTTGATC-CACTTTATTATAACCTT-AGGAAGATAGG
124 TCAGGGACATTGAGATCCATTACTC-ATTTTGATCTGA-TCCACTGTAACTTTAAGG-ATATAGG
* *
21144048 TTTTGAAGT
186 ATCT--AGT
* * * * *
21144057 --TTCACTCCATTCTATTGTAACCTTAGGGACATTGAGATCCGCTTTGTT-TCTTTAATCCAACC
1 GCTTCACTCCATTCCACTGTAACCTTAGGGACATTGAGATCTGCTTCGTTGT-TTTAATCCGACC
* * * *
21144119 CACTACAACTCAGGGGGTATAGGATTTGATGTTGTAACTTCTCTCTATTCCACTATAACCTCAGG
65 CACTATAACTCA-GAGGTATAGGATTTGATGTTGTAACTTCTCTCCATTCCACTGTAACCTCAGG
* * * * *
21144184 GACATTGAGATACGTTACACATTTTGAACTGATCCACTGTAACTTTAAGGATATAGGATCTGGT
129 GACATTGAGATCCATTACTCATTTTGATCTGATCCACTGTAACTTTAAGGATATAGGATCTAGT
* * *
21144248 GCTTCACTCCATTCCACTGTAACCTTAGGGACATTGAGATCTGCTTCGTTATTTAAATCTGACCC
1 GCTTCACTCCATTCCACTGTAACCTTAGGGACATTGAGATCTGCTTCGTTGTTTTAATCCGACCC
* * * *
21144313 ACTGTAACTCAGAGGTATAGGATTTGATGTTGTAAATTCTCTCCATTCCATTGTAACCTCAGAGA
66 ACTATAACTCAGAGGTATAGGATTTGATGTTGTAACTTCTCTCCATTCCACTGTAACCTCAGGGA
* * ** *
21144378 CATTGAGATCCATTACTTATTTTGATTTGATCCACTGTAACTTTTGGGATAGAGGATCTAGT
131 CATTGAGATCCATTACTCATTTTGATCTGATCCACTGTAACTTTAAGGATATAGGATCTAGT
* * *
21144440 GCTTCACTCCATTCCACTGTAACCTTAGGGACATTGAGATCTACTTCATTGTTTTAATCCGAGCC
1 GCTTCACTCCATTCCACTGTAACCTTAGGGACATTGAGATCTGCTTCGTTGTTTTAATCCGACCC
* * * * *
21144505 ATTATAACTCAGGGGTATGGGATTTTATGTTGTAACTTCTCTCCATTCCACTGTAACCTCAGGGG
66 ACTATAACTCAGAGGTATAGGATTTGATGTTGTAACTTCTCTCCATTCCACTGTAACCTCAGGGA
* * * *
21144570 CATTGAGATCCATTACTCATTTTGATCTGATCCACTGCAACTTCAAAGATATAGAATCTAGT
131 CATTGAGATCCATTACTCATTTTGATCTGATCCACTGTAACTTTAAGGATATAGGATCTAGT
* * * * * *
21144632 GCTTCGCTCTATTCCACTGTAACCTCAAGAACATTGAGATCTACTTC
1 GCTTCACTCCATTCCACTGTAACCTTAGGGACATTGAGATCTGCTTC
21144679 ATTTTAATCT
Statistics
Matches: 525, Mismatches: 87, Indels: 27
0.82 0.14 0.04
Matches are distributed among these distances:
191 2 0.00
192 314 0.60
193 165 0.31
194 6 0.01
197 38 0.07
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.36
Consensus pattern (192 bp):
GCTTCACTCCATTCCACTGTAACCTTAGGGACATTGAGATCTGCTTCGTTGTTTTAATCCGACCC
ACTATAACTCAGAGGTATAGGATTTGATGTTGTAACTTCTCTCCATTCCACTGTAACCTCAGGGA
CATTGAGATCCATTACTCATTTTGATCTGATCCACTGTAACTTTAAGGATATAGGATCTAGT
Found at i:21144672 original size:93 final size:93
Alignment explanation
Indices: 21144156--21144703 Score: 430
Period size: 93 Copynumber: 5.8 Consensus size: 93
21144146 GATGTTGTAA
* * * * ** *
21144156 CTTCTCTCTATTCCACTATAACCTCAGGGACATTGAGATACGTTACACATTTTGAACTGATCCAC
1 CTTCTCTCCATTCCACTGTAACCTCAGGGACATTGAGATCCATTACTTATTTTGATCTGATCCAC
* * *
21144221 TGTAACTTTAAGGATATAGGATCTGGTG
66 TGTAACTTCAGGGATATAGGATCTAGTG
* * ** *
21144249 CTTCACTCCATTCCACTGTAACCTTAGGGACATTGAGATCTGC-TT-CGTTATTTAAATCTGACC
1 CTTCTCTCCATTCCACTGTAACCTCAGGGACATTGAGATC--CATTAC-TTATTTTGATCTGATC
*
21144312 CACTGTAAC-TCAGAGG-TATAGGATTTGATGTTG
63 CACTGTAACTTCAG-GGATATAGGATCT-A-G-TG
* * * *
21144345 TAAATTCTCTCCATTCCATTGTAACCTCAGAGACATTGAGATCCATTACTTATTTTGATTTGATC
1 ---CTTCTCTCCATTCCACTGTAACCTCAGGGACATTGAGATCCATTACTTATTTTGATCTGATC
** *
21144410 CACTGTAACTTTTGGGATAGAGGATCTAGTG
63 CACTGTAACTTCAGGGATATAGGATCTAGTG
* * * * * * *
21144441 CTTCACTCCATTCCACTGTAACCTTAGGGACATTGAGATCTACTT-CATTGTTTTAATCCGAGCC
1 CTTCTCTCCATTCCACTGTAACCTCAGGGACATTGAGATCCA-TTAC-TTATTTTGATCTGATCC
* * * * *
21144505 ATTATAAC-TCAGGGGTATGGGATTTTATGTTG
64 ACTGTAACTTCAGGGATATAGGA-TCTA-G-TG
* *
21144537 TAACTTCTCTCCATTCCACTGTAACCTCAGGGGCATTGAGATCCATTACTCATTTTGATCTGATC
1 ---CTTCTCTCCATTCCACTGTAACCTCAGGGACATTGAGATCCATTACTTATTTTGATCTGATC
* ** *
21144602 CACTGCAACTTCAAAGATATAGAATCTAGTG
63 CACTGTAACTTCAGGGATATAGGATCTAGTG
* * * * * * *
21144633 CTTCGCTCTATTCCACTGTAACCTCAAGAACATTGAGAT-C--TACTTCATTTTAATCTGCTTCA
1 CTTCTCTCCATTCCACTGTAACCTCAGGGACATTGAGATCCATTACTT-ATTTTGATCTGATCCA
21144695 CTGTAACTT
65 CTGTAACTT
21144704 TGAGGTATAA
Statistics
Matches: 355, Mismatches: 75, Indels: 52
0.74 0.16 0.11
Matches are distributed among these distances:
90 4 0.01
91 21 0.06
92 1 0.00
93 127 0.36
94 46 0.13
95 3 0.01
96 8 0.02
97 3 0.01
98 48 0.14
99 94 0.26
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.35
Consensus pattern (93 bp):
CTTCTCTCCATTCCACTGTAACCTCAGGGACATTGAGATCCATTACTTATTTTGATCTGATCCAC
TGTAACTTCAGGGATATAGGATCTAGTG
Found at i:21144848 original size:42 final size:42
Alignment explanation
Indices: 21144763--21144878 Score: 128
Period size: 42 Copynumber: 2.8 Consensus size: 42
21144753 TAGGGACGTA
* * * *
21144763 AGATTTGCCTTTATAGCTTCAATCTAGC-CCTTTACAGCTTTG
1 AGATTTGCCTTTGTGGCTTCAATCT-GCTTCTCTACAGCTTTG
*
21144805 AGATTTGCCTTTGTGGCTTCAATCTGCTTCTCTACA-ATCTTG
1 AGATTTGCCTTTGTGGCTTCAATCTGCTTCTCTACAGCT-TTG
** *
21144847 AGATTCACCTTTGCGGCTTCAATCTGCTTCTC
1 AGATTTGCCTTTGTGGCTTCAATCTGCTTCTC
21144879 CTCATCTTCA
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
41 3 0.05
42 61 0.95
ACGTcount: A:0.18, C:0.26, G:0.16, T:0.41
Consensus pattern (42 bp):
AGATTTGCCTTTGTGGCTTCAATCTGCTTCTCTACAGCTTTG
Found at i:21144976 original size:98 final size:98
Alignment explanation
Indices: 21144857--21145064 Score: 353
Period size: 98 Copynumber: 2.1 Consensus size: 98
21144847 AGATTCACCT
*
21144857 TTGCGGCTTCAATCTGCTTCTCCTCATCTTCAAGATATAAGATTCGTCGCTGCGGCTTCAATCTT
1 TTGCGGCTTCAATCTGCTTCTCCTCATCTTCAAGATATAAGATTCATCGCTGCGGCTTCAATCTT
*
21144922 TCCCTTTACATATCTAAGGTATAAGGTTTGTCG
66 TCCCTTCACATATCTAAGGTATAAGGTTTGTCG
* * *
21144955 TTGCGGCTTCAATCTGCTTCTCTTCATCTTCAAGATATAAGATTCATCGTTGTGGCTTCAATCTT
1 TTGCGGCTTCAATCTGCTTCTCCTCATCTTCAAGATATAAGATTCATCGCTGCGGCTTCAATCTT
*
21145020 TCCCTTCATATATCTAAGGTATAAGGTTTGTCG
66 TCCCTTCACATATCTAAGGTATAAGGTTTGTCG
*
21145053 TTGCAGCTTCAA
1 TTGCGGCTTCAA
21145065 CCTTTCCCTC
Statistics
Matches: 103, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 103 1.00
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.39
Consensus pattern (98 bp):
TTGCGGCTTCAATCTGCTTCTCCTCATCTTCAAGATATAAGATTCATCGCTGCGGCTTCAATCTT
TCCCTTCACATATCTAAGGTATAAGGTTTGTCG
Found at i:21145043 original size:49 final size:49
Alignment explanation
Indices: 21144857--21145244 Score: 272
Period size: 49 Copynumber: 7.9 Consensus size: 49
21144847 AGATTCACCT
* *
21144857 TTGCGGCTTCAATCTGCTTCTCC-TCATCT-TC-AAGATATAAGATTCGTCG
1 TTGCGGCTTCAATCT--TTC-CCTTCATATCTCTAAGGTATAAGATTCGTCG
* * * * * *
21144906 CTGCGGCTTCAATCTTTCCCTTTACATATCTAAGGTATAAGGTTTGTCG
1 TTGCGGCTTCAATCTTTCCCTTCATATCTCTAAGGTATAAGATTCGTCG
* * * *
21144955 TTGCGGCTTCAATCTGCTTCTCTTCATCT-TC-AAGATATAAGATTCATCG
1 TTGCGGCTTCAATCT--TTCCCTTCATATCTCTAAGGTATAAGATTCGTCG
* * * *
21145004 TTGTGGCTTCAATCTTTCCCTTCATATATCTAAGGTATAAGGTTTGTCG
1 TTGCGGCTTCAATCTTTCCCTTCATATCTCTAAGGTATAAGATTCGTCG
* * * * * * *
21145053 TTGCAGCTTCAACCTTTCCCTCCACATCTCT-TGGATATAAGGTTC-TCCA
1 TTGCGGCTTCAATCTTTCCCTTCATATCTCTAAGG-TATAAGATTCGT-CG
* * * * * * * ** *
21145102 TTACGACTTCAACCTTT-CCTCCATATCTCTAGGGTACAAAATTCACCA
1 TTGCGGCTTCAATCTTTCCCTTCATATCTCTAAGGTATAAGATTCGTCG
* * * *
21145150 TTGCAGCTTCAATCTTTCCCTTCACATCTCTAAGGTATAATATTC-TCCA
1 TTGCGGCTTCAATCTTTCCCTTCATATCTCTAAGGTATAAGATTCGT-CG
* * *
21145199 TTGCGGCTTCAATCTTTCCCTTCATGTCTTTTAAGGTATATGATTC
1 TTGCGGCTTCAATCTTTCCCTTCATATC-TCTAAGGTATAAGATTC
21145245 AACATTTCCT
Statistics
Matches: 268, Mismatches: 57, Indels: 27
0.76 0.16 0.08
Matches are distributed among these distances:
46 2 0.01
47 16 0.06
48 41 0.15
49 185 0.69
50 16 0.06
51 8 0.03
ACGTcount: A:0.22, C:0.26, G:0.14, T:0.38
Consensus pattern (49 bp):
TTGCGGCTTCAATCTTTCCCTTCATATCTCTAAGGTATAAGATTCGTCG
Found at i:21145090 original size:98 final size:99
Alignment explanation
Indices: 21144890--21145223 Score: 319
Period size: 98 Copynumber: 3.4 Consensus size: 99
21144880 TCATCTTCAA
* *
21144890 GATATAAGATTCGTCGC--TGCGGCTTCAATCTTTCCCTTTACATATCTAAGGTATAAGGTTTGT
1 GATATAAGATTC-TC-CATTGCGGCTTCAATCTTTCCCTTCATATATCTAAGGTATAAGGTTTGT
* **
21144953 CGTTGCGGCTTCAATCTGCTT--CTCTTCATCT-TCAA-
64 CGTTGCAGCTTCAATCT--TTCCCTCCACATCTCT-AAG
* *
21144988 GATATAAGATTCAT-CGTTGTGGCTTCAATCTTTCCCTTCATATATCTAAGGTATAAGGTTTGTC
1 GATATAAGATTC-TCCATTGCGGCTTCAATCTTTCCCTTCATATATCTAAGGTATAAGGTTTGTC
* *
21145052 GTTGCAGCTTCAACCTTTCCCTCCACATCTCT-TG
65 GTTGCAGCTTCAATCTTTCCCTCCACATCTCTAAG
* * * * * * * * ** *** *
21145086 GATATAAGGTTCTCCATTACGACTTCAACCTTT-CCTCCATATCTCTAGGGTACAAAATTCACCA
1 GATATAAGATTCTCCATTGCGGCTTCAATCTTTCCCTTCATATATCTAAGGTATAAGGTTTGTCG
*
21145150 TTGCAGCTTCAATCTTTCCCTTCACATCTCTAAG
66 TTGCAGCTTCAATCTTTCCCTCCACATCTCTAAG
*
21145184 G-TATAATATTCTCCATTGCGGCTTCAATCTTTCCCTTCAT
1 GATATAAGATTCTCCATTGCGGCTTCAATCTTTCCCTTCAT
21145224 GTCTTTTAAG
Statistics
Matches: 193, Mismatches: 34, Indels: 18
0.79 0.14 0.07
Matches are distributed among these distances:
96 3 0.02
97 77 0.40
98 112 0.58
99 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.14, T:0.38
Consensus pattern (99 bp):
GATATAAGATTCTCCATTGCGGCTTCAATCTTTCCCTTCATATATCTAAGGTATAAGGTTTGTCG
TTGCAGCTTCAATCTTTCCCTCCACATCTCTAAG
Found at i:21145874 original size:113 final size:112
Alignment explanation
Indices: 21145674--21145891 Score: 328
Period size: 113 Copynumber: 1.9 Consensus size: 112
21145664 TATCGTTAGA
* *
21145674 CCACTAACTGCTATTTCAATGCAAAAATGCTTGAACAGGATTGTAAGGTGGATAAAATTGAATTT
1 CCACTAACCGCTATTTCAATGCAAAAATGCTTGAACAGGATTGCAAGGTGGATAAAATTGAATTT
* *
21145739 TATTGAAGGCAAAGCTCGCATGAATGAAAAAAATTAAAAATCATTGGT
66 TATTGAAGGAAAAGCTCACATGAATG-AAAAAATTAAAAATCATTGGT
* * *
21145787 CCACTAACCGTTATTTCGATGCAAAAATGCTTGAACAGGGTTGCAAGGTGGATAAAATTGAATTT
1 CCACTAACCGCTATTTCAATGCAAAAATGCTTGAACAGGATTGCAAGGTGGATAAAATTGAATTT
** * *
21145852 TATTGGTGGAAAAGCTTACATGAATGAAAAGATTAAAAAT
66 TATTGAAGGAAAAGCTCACATGAATGAAAAAATTAAAAAT
21145892 GACCCATATT
Statistics
Matches: 94, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
112 13 0.14
113 81 0.86
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.28
Consensus pattern (112 bp):
CCACTAACCGCTATTTCAATGCAAAAATGCTTGAACAGGATTGCAAGGTGGATAAAATTGAATTT
TATTGAAGGAAAAGCTCACATGAATGAAAAAATTAAAAATCATTGGT
Found at i:21146210 original size:6 final size:6
Alignment explanation
Indices: 21146201--21146229 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
21146191 TCGACCTCTC
21146201 CTTTTT CTTTTT -TTTTT CTTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
21146230 TTGGGTGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (6 bp):
CTTTTT
Found at i:21146218 original size:11 final size:12
Alignment explanation
Indices: 21146201--21146229 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
21146191 TCGACCTCTC
21146201 CTTTTTCTTTTT
1 CTTTTTCTTTTT
21146213 -TTTTTCTTTTT
1 CTTTTTCTTTTT
21146224 CTTTTT
1 CTTTTT
21146230 TTGGGTGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (12 bp):
CTTTTTCTTTTT
Found at i:21148260 original size:25 final size:23
Alignment explanation
Indices: 21148211--21148267 Score: 71
Period size: 25 Copynumber: 2.4 Consensus size: 23
21148201 TAATCAATAG
21148211 ATAAATAAACAATATGAACATAA
1 ATAAATAAACAATATGAACATAA
*
21148234 ATAAATAAATGCAAT-TGAATATAAA
1 ATAAATAAA--CAATATGAACAT-AA
21148259 ATAAATAAA
1 ATAAATAAA
21148268 ATAATAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 9 0.30
24 6 0.20
25 15 0.50
ACGTcount: A:0.65, C:0.05, G:0.05, T:0.25
Consensus pattern (23 bp):
ATAAATAAACAATATGAACATAA
Found at i:21148271 original size:14 final size:13
Alignment explanation
Indices: 21148254--21148314 Score: 52
Period size: 14 Copynumber: 4.5 Consensus size: 13
21148244 GCAATTGAAT
21148254 ATAAAATAAATAAA
1 ATAAAA-AAATAAA
21148268 ATAATAAAAATAAA
1 ATAA-AAAAATAAA
* * *
21148282 TTAAAAGGACT-AA
1 ATAAAA-AAATAAA
21148295 ATAAAAAAATAGAA
1 ATAAAAAAATA-AA
21148309 ATAAAA
1 ATAAAA
21148315 GGGGCAAAGT
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
12 2 0.05
13 9 0.24
14 24 0.65
15 2 0.05
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.20
Consensus pattern (13 bp):
ATAAAAAAATAAA
Found at i:21152975 original size:21 final size:21
Alignment explanation
Indices: 21152951--21153005 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
21152941 GAGAGGTAAG
*
21152951 ACTTGTATCAGTAG-AGGAGTC
1 ACTTGTATCAGTAGAACGA-TC
* *
21152972 ACTTGTATCGGTAGAACTATC
1 ACTTGTATCAGTAGAACGATC
21152993 ACTTGTATCAGTA
1 ACTTGTATCAGTA
21153006 CAAATCTGCA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 27 0.93
22 2 0.07
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (21 bp):
ACTTGTATCAGTAGAACGATC
Found at i:21154030 original size:147 final size:147
Alignment explanation
Indices: 21153762--21154057 Score: 556
Period size: 147 Copynumber: 2.0 Consensus size: 147
21153752 GCTTGTCCAC
*
21153762 ATGAAGATTTTGTGAGGTGTGTCGTTTCATTGCTGAAAGACGAAGCTTACAATTGGTGGGCAATG
1 ATGAAGATTTTGTGAGATGTGTCGTTTCATTGCTGAAAGACGAAGCTTACAATTGGTGGGCAATG
** *
21153827 ATTGCAGCAGTGATGATGAAAAACGAGGCTACTTGGAAATTTTTCCAAACAGAGTTTAAAAAGAA
66 ATTGCAGCAGTGATGACAAAAAACGAGGCTACTTGGAAATTTTTCCAAACAAAGTTTAAAAAGAA
21153892 ATATGTCAGCAAGAGGT
131 ATATGTCAGCAAGAGGT
21153909 ATGAAGATTTTGTGAGATGTGTCGTTTCATTGCTGAAAGACGAAGCTTACAATTGGTGGGCAATG
1 ATGAAGATTTTGTGAGATGTGTCGTTTCATTGCTGAAAGACGAAGCTTACAATTGGTGGGCAATG
21153974 ATTGCAGCAGTGATGACAAAAAACGAGGCTACTTGGAAATTTTTCCAAACAAAGTTTAAAAAGAA
66 ATTGCAGCAGTGATGACAAAAAACGAGGCTACTTGGAAATTTTTCCAAACAAAGTTTAAAAAGAA
21154039 ATATGTCAGCAAGAGGT
131 ATATGTCAGCAAGAGGT
21154056 AT
1 AT
21154058 TTAGATAAAA
Statistics
Matches: 145, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
147 145 1.00
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.28
Consensus pattern (147 bp):
ATGAAGATTTTGTGAGATGTGTCGTTTCATTGCTGAAAGACGAAGCTTACAATTGGTGGGCAATG
ATTGCAGCAGTGATGACAAAAAACGAGGCTACTTGGAAATTTTTCCAAACAAAGTTTAAAAAGAA
ATATGTCAGCAAGAGGT
Found at i:21164105 original size:20 final size:20
Alignment explanation
Indices: 21164080--21164117 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
21164070 GGTTTATTGG
21164080 AAAAAGTCAACGATCAACGA
1 AAAAAGTCAACGATCAACGA
*
21164100 AAAAAGTCAACGGTCAAC
1 AAAAAGTCAACGATCAAC
21164118 AGTCAGGTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.21, G:0.16, T:0.11
Consensus pattern (20 bp):
AAAAAGTCAACGATCAACGA
Found at i:21164154 original size:26 final size:26
Alignment explanation
Indices: 21164105--21164154 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
21164095 AACGAAAAAA
*
21164105 GTCAACGGTCAACAGTCAGGTCAATG
1 GTCAACGGTCAACAGTCAGATCAATG
*
21164131 GTCAATGGTCAACAGGTC-GATCAA
1 GTCAACGGTCAACA-GTCAGATCAA
21164155 ATTCAATGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 18 0.86
27 3 0.14
ACGTcount: A:0.32, C:0.22, G:0.26, T:0.20
Consensus pattern (26 bp):
GTCAACGGTCAACAGTCAGATCAATG
Found at i:21165060 original size:30 final size:30
Alignment explanation
Indices: 21165026--21165101 Score: 100
Period size: 30 Copynumber: 2.5 Consensus size: 30
21165016 CAAATTTATG
* *
21165026 AATTAAACCCTAAATTTCA-TAAAATTTCCA
1 AATTAATCCCTAAAATTCACTAAAATTT-CA
*
21165056 AATTAATCCTTAAAATTCACTAAAATTTCA
1 AATTAATCCCTAAAATTCACTAAAATTTCA
*
21165086 ATTTAATCCCTAAAAT
1 AATTAATCCCTAAAAT
21165102 AAAAATTGGG
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
30 32 0.80
31 8 0.20
ACGTcount: A:0.46, C:0.18, G:0.00, T:0.36
Consensus pattern (30 bp):
AATTAATCCCTAAAATTCACTAAAATTTCA
Found at i:21168574 original size:14 final size:15
Alignment explanation
Indices: 21168546--21168574 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
21168536 TTTGTGCTAA
21168546 AATTTTTAATATATT
1 AATTTTTAATATATT
21168561 AATTTTTAAT-TATT
1 AATTTTTAATATATT
21168575 TTTATAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
AATTTTTAATATATT
Found at i:21170354 original size:12 final size:13
Alignment explanation
Indices: 21170332--21170360 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
21170322 TTGCCGAGGA
21170332 TTGTCAAAATTAT
1 TTGTCAAAATTAT
21170345 TTGT-AAAATTAT
1 TTGTCAAAATTAT
21170357 TTGT
1 TTGT
21170361 TTTACATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.34, C:0.03, G:0.10, T:0.52
Consensus pattern (13 bp):
TTGTCAAAATTAT
Found at i:21171997 original size:12 final size:12
Alignment explanation
Indices: 21171980--21172006 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
21171970 AACCAGTTTC
21171980 ACTAGAACCAGA
1 ACTAGAACCAGA
21171992 ACTAGAACCAGA
1 ACTAGAACCAGA
21172004 ACT
1 ACT
21172007 GGTGAATGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.26, G:0.15, T:0.11
Consensus pattern (12 bp):
ACTAGAACCAGA
Found at i:21173528 original size:37 final size:37
Alignment explanation
Indices: 21173477--21173627 Score: 198
Period size: 37 Copynumber: 4.1 Consensus size: 37
21173467 ACATCTAAAA
*
21173477 ATTCAGGCTGTGTGCCTAGCAGGCTTCGTGCCAGTGT
1 ATTCAGGCTATGTGCCTAGCAGGCTTCGTGCCAGTGT
*
21173514 ATTCAGGCTATGTGCCTAGCAGGCTTCGTGCCGGTGT
1 ATTCAGGCTATGTGCCTAGCAGGCTTCGTGCCAGTGT
* * * *
21173551 ATTCAAGCTGTGTGCCTAGCAGGTTTTGTGCCAGTGT
1 ATTCAGGCTATGTGCCTAGCAGGCTTCGTGCCAGTGT
* * *
21173588 ATTC-GAGCTATGTGCCTAGCAAGATTTGTGCCAGTG-
1 ATTCAG-GCTATGTGCCTAGCAGGCTTCGTGCCAGTGT
21173624 ATTC
1 ATTC
21173628 CAGAACAAGT
Statistics
Matches: 102, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
36 4 0.04
37 98 0.96
ACGTcount: A:0.17, C:0.22, G:0.30, T:0.32
Consensus pattern (37 bp):
ATTCAGGCTATGTGCCTAGCAGGCTTCGTGCCAGTGT
Found at i:21174670 original size:8 final size:8
Alignment explanation
Indices: 21174657--21174682 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
21174647 ATATATGGTA
21174657 TTGAAATG
1 TTGAAATG
21174665 TTGAAATG
1 TTGAAATG
21174673 TTGAAATG
1 TTGAAATG
21174681 TT
1 TT
21174683 AAACATTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (8 bp):
TTGAAATG
Found at i:21178855 original size:9 final size:8
Alignment explanation
Indices: 21178810--21178856 Score: 51
Period size: 8 Copynumber: 5.9 Consensus size: 8
21178800 AGAAATTTGT
21178810 TTTTTTAA
1 TTTTTTAA
21178818 -TTTTTAA
1 TTTTTTAA
21178825 TTTATTTAA
1 TTT-TTTAA
*
21178834 TTTATTAA
1 TTTTTTAA
*
21178842 CTTTTTAA
1 TTTTTTAA
*
21178850 TATTTTA
1 TTTTTTA
21178857 CACTAATTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
7 7 0.22
8 17 0.53
9 8 0.25
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (8 bp):
TTTTTTAA
Found at i:21182791 original size:13 final size:13
Alignment explanation
Indices: 21182759--21182797 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
21182749 TATCTTTAAC
*
21182759 TTAGATTAATTTAGT
1 TTAGATTAA--TACT
21182774 TTAGATTAATACT
1 TTAGATTAATACT
21182787 TTAGATTAATA
1 TTAGATTAATA
21182798 TCCTTCACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 14 0.61
15 9 0.39
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.49
Consensus pattern (13 bp):
TTAGATTAATACT
Found at i:21188156 original size:28 final size:27
Alignment explanation
Indices: 21188124--21188210 Score: 77
Period size: 28 Copynumber: 3.1 Consensus size: 27
21188114 CCATCAAGAA
*
21188124 AAGCCTATATGGTAAGCTCTGAAAAGGT
1 AAGCCTATATGGTAAACTCT-AAAAGGT
* * * *
21188152 AAGCCTTTGTGGTGAACCTCTCAAAGG-
1 AAGCCTATATGGT-AAACTCTAAAAGGT
*
21188179 ACAGCCTCTATGGTAAACTCTAGAAAGGT
1 A-AGCCTATATGGTAAACTCTA-AAAGGT
21188208 AAG
1 AAG
21188211 AGACTTTGTG
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
27 7 0.15
28 33 0.70
29 7 0.15
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.24
Consensus pattern (27 bp):
AAGCCTATATGGTAAACTCTAAAAGGT
Found at i:21188235 original size:58 final size:56
Alignment explanation
Indices: 21188125--21188273 Score: 210
Period size: 58 Copynumber: 2.6 Consensus size: 56
21188115 CATCAAGAAA
* * *
21188125 AGCCTATATGGTAAGCTCT-GAAAAGGTAAGCCTTTGTGGTGAACCTCTCAAAGGAC
1 AGCCTCTATGGTAAACTCTAG-AAAGGTAAGACTTTGTGGTGAACCTCTCAAAGGAC
*
21188181 AGCCTCTATGGTAAACTCTAGAAAGGTAAGAGACTTTGTGGTGAACCTCTCAAAGGAT
1 AGCCTCTATGGTAAACTCTAGAAAGGT-A-AGACTTTGTGGTGAACCTCTCAAAGGAC
* *
21188239 AGCCTCTATGGAAAACTCTAGAAAGGTTAGACTTT
1 AGCCTCTATGGTAAACTCTAGAAAGGTAAGACTTT
21188274 CTAGCTATCT
Statistics
Matches: 84, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
56 30 0.36
57 2 0.02
58 52 0.62
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.26
Consensus pattern (56 bp):
AGCCTCTATGGTAAACTCTAGAAAGGTAAGACTTTGTGGTGAACCTCTCAAAGGAC
Found at i:21188264 original size:28 final size:28
Alignment explanation
Indices: 21188174--21188264 Score: 67
Period size: 28 Copynumber: 3.2 Consensus size: 28
21188164 TGAACCTCTC
*
21188174 AAAGGACAGCCTCTATGGTAAACTCTAG
1 AAAGGACAGCCTCTATGGAAAACTCTAG
* * * * * * *
21188202 AAAGGTAAGAGACTTTGTGGTGAACCTCT-C
1 AAAGG--ACAGCCTCTATGG-AAAACTCTAG
*
21188232 AAAGGATAGCCTCTATGGAAAACTCTAG
1 AAAGGACAGCCTCTATGGAAAACTCTAG
21188260 AAAGG
1 AAAGG
21188265 TTAGACTTTC
Statistics
Matches: 45, Mismatches: 14, Indels: 8
0.67 0.21 0.12
Matches are distributed among these distances:
27 6 0.13
28 19 0.42
30 14 0.31
31 6 0.13
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (28 bp):
AAAGGACAGCCTCTATGGAAAACTCTAG
Found at i:21190253 original size:47 final size:47
Alignment explanation
Indices: 21190184--21190277 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
21190174 TAAGTTTTGG
21190184 AAACTAACAAAACCAACCTTTACTTTCCCAAAAGTGATCATTCCTCA
1 AAACTAACAAAACCAACCTTTACTTTCCCAAAAGTGATCATTCCTCA
21190231 AAACTAACAAAACCAACCTTTACTTTCCCAAAAGTGATCATTCCTCA
1 AAACTAACAAAACCAACCTTTACTTTCCCAAAAGTGATCATTCCTCA
21190278 TACTCCATTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.40, C:0.30, G:0.04, T:0.26
Consensus pattern (47 bp):
AAACTAACAAAACCAACCTTTACTTTCCCAAAAGTGATCATTCCTCA
Found at i:21191181 original size:17 final size:17
Alignment explanation
Indices: 21191159--21191194 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
21191149 CATCTGAAAT
21191159 TGATTATATTTATGTGA
1 TGATTATATTTATGTGA
21191176 TGATTATATTTATGTGA
1 TGATTATATTTATGTGA
21191193 TG
1 TG
21191195 TTAATAATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.19, T:0.53
Consensus pattern (17 bp):
TGATTATATTTATGTGA
Found at i:21196616 original size:38 final size:38
Alignment explanation
Indices: 21196574--21196654 Score: 144
Period size: 38 Copynumber: 2.1 Consensus size: 38
21196564 GTTTATTCAG
*
21196574 AATTACGCCCAGAATTGTCACTGCATGACAATGTCCAA
1 AATTACGCCCAAAATTGTCACTGCATGACAATGTCCAA
*
21196612 AATTACGCCCAAAATTGTCACTGCATGACGATGTCCAA
1 AATTACGCCCAAAATTGTCACTGCATGACAATGTCCAA
21196650 AATTA
1 AATTA
21196655 TCACTGAATG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.25
Consensus pattern (38 bp):
AATTACGCCCAAAATTGTCACTGCATGACAATGTCCAA
Found at i:21199079 original size:17 final size:17
Alignment explanation
Indices: 21199057--21199089 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
21199047 GTTAGTAAGA
21199057 ATTGTCGTTGCATTTTC
1 ATTGTCGTTGCATTTTC
21199074 ATTGTCGTTGCATTTT
1 ATTGTCGTTGCATTTT
21199090 AGTGTTAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.15, G:0.18, T:0.55
Consensus pattern (17 bp):
ATTGTCGTTGCATTTTC
Found at i:21200143 original size:38 final size:38
Alignment explanation
Indices: 21200101--21200183 Score: 114
Period size: 38 Copynumber: 2.2 Consensus size: 38
21200091 TGAGTCTATT
* * *
21200101 CAGAATTGCGCCCAGAATTGTCACTGCATGAC-ATTGTC
1 CAGAATTGCACCCAAAATTATCACTGCATGACGA-TGTC
21200139 CAGAATTGCACCCAAAATTATCACTGCATGACGATGTC
1 CAGAATTGCACCCAAAATTATCACTGCATGACGATGTC
*
21200177 CAAAATT
1 CAGAATT
21200184 ATCACTGCAT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
38 39 0.98
39 1 0.03
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (38 bp):
CAGAATTGCACCCAAAATTATCACTGCATGACGATGTC
Found at i:21207194 original size:22 final size:22
Alignment explanation
Indices: 21207166--21207207 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
21207156 CAGAATTGGG
21207166 TGTGTTCGAAGGCACACAGGCA
1 TGTGTTCGAAGGCACACAGGCA
21207188 TGTGTTCGAAGGCACACAGG
1 TGTGTTCGAAGGCACACAGG
21207208 TGTGTGTCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.26, C:0.21, G:0.33, T:0.19
Consensus pattern (22 bp):
TGTGTTCGAAGGCACACAGGCA
Found at i:21207213 original size:22 final size:22
Alignment explanation
Indices: 21207165--21207214 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
21207155 TCAGAATTGG
21207165 GTGTGTTCGAAGGCACACAGGC
1 GTGTGTTCGAAGGCACACAGGC
* *
21207187 ATGTGTTCGAAGGCACACAGGT
1 GTGTGTTCGAAGGCACACAGGC
21207209 GTGTGT
1 GTGTGT
21207215 CCAGGTCGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.22, C:0.18, G:0.36, T:0.24
Consensus pattern (22 bp):
GTGTGTTCGAAGGCACACAGGC
Found at i:21208039 original size:26 final size:26
Alignment explanation
Indices: 21208010--21208065 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
21208000 GAAACAATAT
*
21208010 CTGTATCTGTTGACTATACAACTGAA
1 CTGTAACTGTTGACTATACAACTGAA
* *
21208036 CTGTAACTGTTGACTGTATAACTGAA
1 CTGTAACTGTTGACTATACAACTGAA
21208062 CTGT
1 CTGT
21208066 GTAATTGGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (26 bp):
CTGTAACTGTTGACTATACAACTGAA
Found at i:21209000 original size:18 final size:19
Alignment explanation
Indices: 21208972--21209008 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
21208962 ATATAGTATT
*
21208972 TTAATAAATTAGAAATTAA
1 TTAATAAATTAAAAATTAA
21208991 TTAA-AAATTAAAAATTAA
1 TTAATAAATTAAAAATTAA
21209009 AAAATCCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (19 bp):
TTAATAAATTAAAAATTAA
Found at i:21214117 original size:14 final size:14
Alignment explanation
Indices: 21214071--21214118 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
21214061 TTTGACCAAC
21214071 TCGTTGACCGTTGA
1 TCGTTGACCGTTGA
* *
21214085 TAGTTGACCTTTGA
1 TCGTTGACCGTTGA
*
21214099 TCGTTGTCCGTTGA
1 TCGTTGACCGTTGA
*
21214113 CCGTTG
1 TCGTTG
21214119 CCTTTTTTGG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.12, C:0.21, G:0.27, T:0.40
Consensus pattern (14 bp):
TCGTTGACCGTTGA
Found at i:21214118 original size:28 final size:27
Alignment explanation
Indices: 21214071--21214123 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
21214061 TTTGACCAAC
*
21214071 TCGTTGACCGTTGATAGTTGACCTTTGA
1 TCGTTGACCGTTGACAGTTG-CCTTTGA
* *
21214099 TCGTTGTCCGTTGACCGTTGCCTTT
1 TCGTTGACCGTTGACAGTTGCCTTT
21214124 TTTGGGAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 5 0.23
28 17 0.77
ACGTcount: A:0.11, C:0.23, G:0.25, T:0.42
Consensus pattern (27 bp):
TCGTTGACCGTTGACAGTTGCCTTTGA
Found at i:21222909 original size:28 final size:28
Alignment explanation
Indices: 21222869--21222930 Score: 124
Period size: 28 Copynumber: 2.2 Consensus size: 28
21222859 CCAGCAAGAA
21222869 AAGCCTCTATGGCAAGCTCTAGAAAGGT
1 AAGCCTCTATGGCAAGCTCTAGAAAGGT
21222897 AAGCCTCTATGGCAAGCTCTAGAAAGGT
1 AAGCCTCTATGGCAAGCTCTAGAAAGGT
21222925 AAGCCT
1 AAGCCT
21222931 TTGTGGAGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.21
Consensus pattern (28 bp):
AAGCCTCTATGGCAAGCTCTAGAAAGGT
Found at i:21222950 original size:28 final size:28
Alignment explanation
Indices: 21222869--21222996 Score: 86
Period size: 28 Copynumber: 4.6 Consensus size: 28
21222859 CCAGCAAGAA
* * *
21222869 AAGCCTCTATGGCAAGCTCTAG-AAAGGT
1 AAGCCTTTGTGGCAAACTCT-GCAAAGGT
* * *
21222897 AAGCCTCTATGGCAAGCTCTAG-AAAGGT
1 AAGCCTTTGTGGCAAACTCT-GCAAAGGT
21222925 AAGCCTTTGTGG-AGAACCTCT-CAAAGG-
1 AAGCCTTTGTGGCA-AA-CTCTGCAAAGGT
* * *
21222952 ACAACCTTTATGGCAAACTCTGGAAAGGT
1 A-AGCCTTTGTGGCAAACTCTGCAAAGGT
*
21222981 AAGCCTTTGTGACAAA
1 AAGCCTTTGTGGCAAA
21222997 TGTCTAAACG
Statistics
Matches: 84, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
27 6 0.07
28 72 0.86
29 6 0.07
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (28 bp):
AAGCCTTTGTGGCAAACTCTGCAAAGGT
Found at i:21222964 original size:56 final size:56
Alignment explanation
Indices: 21222900--21223159 Score: 294
Period size: 56 Copynumber: 4.7 Consensus size: 56
21222890 GAAAGGTAAG
* * *
21222900 CCTCTATGGCAAGCTCTAGAAAGGTAAGCCTTTGTGGAGAACCTCTCAAAGGACAA
1 CCTCTATGGCAAACTCTGGAAAGGTAAGCCTTTGTGGAGAACCTTTCAAAGGACAA
* * * *
21222956 CCTTTATGGCAAACTCTGGAAAGGTAAGCCTTTGT-GACAA-ATGTCTAAACGGACAA
1 CCTCTATGGCAAACTCTGGAAAGGTAAGCCTTTGTGGAGAACCTTTC-AAA-GGACAA
* * * *
21223012 TCTCTATGGAAAACTCTGGAAAGGTAAGCCTTTATGGCGAACCTTTCAAAGGACAA
1 CCTCTATGGCAAACTCTGGAAAGGTAAGCCTTTGTGGAGAACCTTTCAAAGGACAA
* * * **
21223068 CCACTATGTCAAACTCTGTAAAGGTAAGCCTTTAACGG-GAACCTTTCAAAGGACAA
1 CCTCTATGGCAAACTCTGGAAAGGTAAGCCTTT-GTGGAGAACCTTTCAAAGGACAA
* * *
21223124 CCTCTATGTCAAACTTTGGAAAGG-ACGCCTTTGTGG
1 CCTCTATGGCAAACTCTGGAAAGGTAAGCCTTTGTGG
21223160 CGATATTTGT
Statistics
Matches: 173, Mismatches: 26, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
54 5 0.03
55 14 0.08
56 142 0.82
57 9 0.05
58 3 0.02
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.25
Consensus pattern (56 bp):
CCTCTATGGCAAACTCTGGAAAGGTAAGCCTTTGTGGAGAACCTTTCAAAGGACAA
Found at i:21223062 original size:28 final size:28
Alignment explanation
Indices: 21223031--21223119 Score: 67
Period size: 28 Copynumber: 3.2 Consensus size: 28
21223021 AAAACTCTGG
21223031 AAAGGTAAGCCTTTATGGCGAACCTTTC
1 AAAGGTAAGCCTTTATGGCGAACCTTTC
* ** * * *
21223059 AAAGG-ACAACCACTATGTCAAACTCTGT-
1 AAAGGTA-AGCCTTTATGGCGAAC-CTTTC
*
21223087 AAAGGTAAGCCTTTAACGG-GAACCTTTC
1 AAAGGTAAGCCTTT-ATGGCGAACCTTTC
21223115 AAAGG
1 AAAGG
21223120 ACAACCTCTA
Statistics
Matches: 43, Mismatches: 13, Indels: 10
0.65 0.20 0.15
Matches are distributed among these distances:
27 4 0.09
28 33 0.77
29 6 0.14
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.24
Consensus pattern (28 bp):
AAAGGTAAGCCTTTATGGCGAACCTTTC
Found at i:21226288 original size:20 final size:20
Alignment explanation
Indices: 21226238--21226294 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 20
21226228 TACTTTATCC
**
21226238 ATTTTT-TATTTTTGTTTTA
1 ATTTTTCTATTTTTAATTTA
*
21226257 ATATTTGC-ATTTTTAATTTA
1 AT-TTTTCTATTTTTAATTTA
21226277 ATTTTTCTA-TTTTAATTT
1 ATTTTTCTATTTTTAATTT
21226295 TTTCCTTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.23, C:0.04, G:0.04, T:0.70
Consensus pattern (20 bp):
ATTTTTCTATTTTTAATTTA
Found at i:21228043 original size:13 final size:13
Alignment explanation
Indices: 21228025--21228050 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21228015 TAAGAGGAAG
21228025 TTAGACGATTTGT
1 TTAGACGATTTGT
21228038 TTAGACGATTTGT
1 TTAGACGATTTGT
21228051 CGACTGTGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (13 bp):
TTAGACGATTTGT
Found at i:21230204 original size:3 final size:3
Alignment explanation
Indices: 21230198--21230289 Score: 70
Period size: 3 Copynumber: 31.3 Consensus size: 3
21230188 TTTCTTTTTT
* *
21230198 TTA TTA TT- TTA TCA TTA -TA TTT TTA -TA TTTA TTTA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA -TTA TTA TTA TTA
* *
21230241 TTA CTA TTA TTA TTA TTA -TA TTTA TTA TTA CTA CTT- TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA -TTA TTA TTA TTA
21230286 TTA T
1 TTA T
21230290 ATTTTGTTTA
Statistics
Matches: 72, Mismatches: 8, Indels: 18
0.73 0.08 0.18
Matches are distributed among these distances:
2 12 0.17
3 51 0.71
4 9 0.12
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:21230267 original size:15 final size:15
Alignment explanation
Indices: 21230206--21230293 Score: 87
Period size: 15 Copynumber: 5.9 Consensus size: 15
21230196 TTTTATTATT
*
21230206 TTATCATTATATTT-
1 TTATTATTATATTTA
21230220 TTA-TATT-TATTTA
1 TTATTATTATATTTA
21230233 TT-TTATTATTACTATTA
1 TTATTATTA-TA-T-TTA
21230250 TTATTATTATATTTA
1 TTATTATTATATTTA
*
21230265 TTATTACTACT-TTTA
1 TTATTATTA-TATTTA
21230280 TTATTATTATATTT
1 TTATTATTATATTT
21230294 TGTTTATGTT
Statistics
Matches: 62, Mismatches: 3, Indels: 17
0.76 0.04 0.21
Matches are distributed among these distances:
12 5 0.08
13 9 0.15
14 4 0.06
15 28 0.45
16 3 0.05
17 7 0.11
18 6 0.10
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.66
Consensus pattern (15 bp):
TTATTATTATATTTA
Found at i:21230270 original size:21 final size:21
Alignment explanation
Indices: 21230198--21230352 Score: 64
Period size: 21 Copynumber: 7.5 Consensus size: 21
21230188 TTTCTTTTTT
*
21230198 TTATTAT-TTTATCATTA-TA
1 TTATTATATTTATTATTATTA
*
21230217 TTTTTATATTTATTTATT-TTA
1 TTATTATATTTA-TTATTATTA
21230238 TTATTACTA-TTATTATTATTA
1 TTATTA-TATTTATTATTATTA
*
21230259 -TATT-TA-TTATTACTACTT-
1 TTATTATATTTATTATTA-TTA
*
21230277 TTATTATTATTATATT-TTGTTTA
1 TTATTA-TATT-TATTATT-ATTA
* *
21230300 TGT-TTGT-TTATATTATTCTTA
1 T-TATTATATT-TATTATTATTA
* *
21230321 CTATTATA-TTATTTAGTATTA
1 TTATTATATTTA-TTATTATTA
*
21230342 TTTTTATATTT
1 TTATTATATTT
21230353 GTTTTGCTCA
Statistics
Matches: 103, Mismatches: 14, Indels: 35
0.68 0.09 0.23
Matches are distributed among these distances:
18 10 0.10
19 12 0.12
20 16 0.16
21 46 0.45
22 11 0.11
23 7 0.07
24 1 0.01
ACGTcount: A:0.27, C:0.04, G:0.03, T:0.66
Consensus pattern (21 bp):
TTATTATATTTATTATTATTA
Found at i:21230281 original size:30 final size:30
Alignment explanation
Indices: 21230191--21230293 Score: 107
Period size: 27 Copynumber: 3.7 Consensus size: 30
21230181 TTCCTTTTTT
*
21230191 CTTTT-TT-TTATTAT-TTTATCATTA-TA
1 CTTTTATTATTATTATATTTATTATTACTA
*
21230217 TTTTTA-TATTTATT-TATTTTATTATTACTA
1 CTTTTATTA-TTATTATA-TTTATTATTACTA
21230247 ---TTATTATTATTATATTTATTATTACTA
1 CTTTTATTATTATTATATTTATTATTACTA
21230274 CTTTTATTATTATTATATTT
1 CTTTTATTATTATTATATTT
21230294 TGTTTATGTT
Statistics
Matches: 64, Mismatches: 2, Indels: 18
0.76 0.02 0.21
Matches are distributed among these distances:
26 5 0.08
27 22 0.34
28 9 0.14
29 9 0.14
30 19 0.30
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (30 bp):
CTTTTATTATTATTATATTTATTATTACTA
Found at i:21230327 original size:27 final size:27
Alignment explanation
Indices: 21230297--21230356 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 27
21230287 TATATTTTGT
*
21230297 TTATGTTTGTTTA-TATTATTCTTACTA
1 TTATGTTTATTTAGTATTATTCTTA-TA
* *
21230324 TTAT-ATTATTTAGTATTATTTTTATA
1 TTATGTTTATTTAGTATTATTCTTATA
21230350 TT-TGTTT
1 TTATGTTT
21230357 TGCTCACTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
25 1 0.04
26 12 0.44
27 14 0.52
ACGTcount: A:0.23, C:0.03, G:0.07, T:0.67
Consensus pattern (27 bp):
TTATGTTTATTTAGTATTATTCTTATA
Done.