Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006710.1 Hibiscus syriacus cultivar Beakdansim tig00016725_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2941931
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 11
Found at i:1858355 original size:43 final size:42
Alignment explanation
Indices: 1858265--1858371 Score: 144
Period size: 43 Copynumber: 2.5 Consensus size: 42
1858255 TTAAAAACAC
* *
1858265 CGCTATAGATCTTGACCTTTTACGACGTTTTAAGAAAAATGT
1 CGCTATAGAGCTTGACCTTTTGCGACGTTTTAAGAAAAATGT
* *
1858307 TGCTATAGAGCTTGACCTTTTGC-AGTGTTTTTAAGAAAAATGT
1 CGCTATAGAGCTTGACCTTTTGCGA-CG-TTTTAAGAAAAATGT
*
1858350 CGCTATAGAGCTAGACCTTTTG
1 CGCTATAGAGCTTGACCTTTTG
1858372 TAGCATTTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
41 1 0.02
42 21 0.37
43 35 0.61
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (42 bp):
CGCTATAGAGCTTGACCTTTTGCGACGTTTTAAGAAAAATGT
Found at i:1858381 original size:43 final size:43
Alignment explanation
Indices: 1858292--1858381 Score: 135
Period size: 43 Copynumber: 2.1 Consensus size: 43
1858282 TTTTACGACG
* * **
1858292 TTTTAAGAAAAATGTTGCTATAGAGCTTGACCTTTTGCAGTGT
1 TTTTAAGAAAAATGTCGCTATAGAGCTAGACCTTTTGCAGCAT
*
1858335 TTTTAAGAAAAATGTCGCTATAGAGCTAGACCTTTTGTAGCAT
1 TTTTAAGAAAAATGTCGCTATAGAGCTAGACCTTTTGCAGCAT
1858378 TTTT
1 TTTT
1858382 TGTTCACAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (43 bp):
TTTTAAGAAAAATGTCGCTATAGAGCTAGACCTTTTGCAGCAT
Found at i:1872737 original size:22 final size:22
Alignment explanation
Indices: 1872683--1872738 Score: 80
Period size: 20 Copynumber: 2.6 Consensus size: 22
1872673 CATTATGTGC
1872683 ACTTAATATCGATATTGTTCAT
1 ACTTAATATCGATATTGTTCAT
*
1872705 A--TAATATCGATATTGTTCTT
1 ACTTAATATCGATATTGTTCAT
*
1872725 ACTTAGTATCGATA
1 ACTTAATATCGATA
1872739 CTCTTCATCC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 19 0.63
22 11 0.37
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.45
Consensus pattern (22 bp):
ACTTAATATCGATATTGTTCAT
Found at i:1873212 original size:20 final size:20
Alignment explanation
Indices: 1873187--1873230 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
1873177 ATACAATTTG
1873187 TTTCTTCAAAATCATCATAA
1 TTTCTTCAAAATCATCATAA
*
1873207 TTTCTTCAAAATCTTCATAA
1 TTTCTTCAAAATCATCATAA
1873227 TTTC
1 TTTC
1873231 GAAAATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.34, C:0.20, G:0.00, T:0.45
Consensus pattern (20 bp):
TTTCTTCAAAATCATCATAA
Found at i:1873311 original size:15 final size:16
Alignment explanation
Indices: 1873287--1873326 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
1873277 TGTATATACT
1873287 ATTG-TTTTTCA-AAA
1 ATTGTTTTTTCACAAA
1873301 ATTGTTTTTTCACAAA
1 ATTGTTTTTTCACAAA
*
1873317 GTT-TTTTTTC
1 ATTGTTTTTTC
1873327 TTGTAGCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 4 0.17
15 14 0.61
16 5 0.22
ACGTcount: A:0.25, C:0.10, G:0.07, T:0.57
Consensus pattern (16 bp):
ATTGTTTTTTCACAAA
Found at i:1879763 original size:20 final size:20
Alignment explanation
Indices: 1879725--1879761 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1879715 AAGAATTTCA
1879725 ACAATTCCTGCCATTTTTTG
1 ACAATTCCTGCCATTTTTTG
1879745 ACAATTCCT-CC-TTTTTT
1 ACAATTCCTGCCATTTTTT
1879762 TTCGTGCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 2 0.12
20 9 0.53
ACGTcount: A:0.19, C:0.27, G:0.05, T:0.49
Consensus pattern (20 bp):
ACAATTCCTGCCATTTTTTG
Found at i:1881149 original size:13 final size:13
Alignment explanation
Indices: 1881131--1881155 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1881121 AATTACAACC
1881131 GATAATAATTTCA
1 GATAATAATTTCA
1881144 GATAATAATTTC
1 GATAATAATTTC
1881156 GGTTACAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (13 bp):
GATAATAATTTCA
Found at i:1882337 original size:14 final size:14
Alignment explanation
Indices: 1882313--1882352 Score: 73
Period size: 14 Copynumber: 2.9 Consensus size: 14
1882303 AGTCATCGTT
1882313 ATTAG-ATTATTTC
1 ATTAGAATTATTTC
1882326 ATTAGAATTATTTC
1 ATTAGAATTATTTC
1882340 ATTAGAATTATTT
1 ATTAGAATTATTT
1882353 TGAACTAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 5 0.19
14 21 0.81
ACGTcount: A:0.35, C:0.05, G:0.07, T:0.53
Consensus pattern (14 bp):
ATTAGAATTATTTC
Found at i:1882799 original size:18 final size:19
Alignment explanation
Indices: 1882772--1882811 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
1882762 TTAAACATCT
1882772 ACTTT-AAAAAAATTAAAC
1 ACTTTAAAAAAAATTAAAC
1882790 ACTTTGAAAAAAAATTAAAC
1 ACTTT-AAAAAAAATTAAAC
1882810 AC
1 AC
1882812 CTAAAATCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 5 0.25
20 15 0.75
ACGTcount: A:0.60, C:0.12, G:0.03, T:0.25
Consensus pattern (19 bp):
ACTTTAAAAAAAATTAAAC
Found at i:1886493 original size:25 final size:24
Alignment explanation
Indices: 1886465--1886533 Score: 58
Period size: 23 Copynumber: 3.0 Consensus size: 24
1886455 TTTATAAGAC
1886465 TAATATAATAAAATAATAATTAAA
1 TAATATAATAAAATAATAATTAAA
*
1886489 GTAATGAT-TTAAAAT-AT-ATTAAA
1 -TAAT-ATAATAAAATAATAATTAAA
*
1886512 -AA-ATAATAATAATAAAAATTAA
1 TAATATAATAA-AATAATAATTAA
1886534 GTTAAAATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 12
0.71 0.06 0.24
Matches are distributed among these distances:
19 2 0.06
20 3 0.08
21 5 0.14
22 1 0.03
23 11 0.31
24 2 0.06
25 10 0.28
26 2 0.06
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (24 bp):
TAATATAATAAAATAATAATTAAA
Found at i:1888261 original size:73 final size:73
Alignment explanation
Indices: 1888171--1888827 Score: 1152
Period size: 73 Copynumber: 9.0 Consensus size: 73
1888161 GGTCTTATGA
* * *
1888171 ATGACCCTGAGGCTTTAAAATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGG
1 ATGACCCTGAGGGTTTAAGATCAAAAAGCTCCTGAAGGCTTTTTGAAAACATCATGCACTGTAGG
1888236 TCTTACAG
66 TCTTACAG
*
1888244 ATGACCCTGAGGGTTTAAGATCAAAAAGCTCCTGAAGGCTTTTTGAAAACATCATGCACTGTATG
1 ATGACCCTGAGGGTTTAAGATCAAAAAGCTCCTGAAGGCTTTTTGAAAACATCATGCACTGTAGG
*
1888309 TCTTACAT
66 TCTTACAG
*
1888317 ATGACCCTGAGGGTTTAAGATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGG
1 ATGACCCTGAGGGTTTAAGATCAAAAAGCTCCTGAAGGCTTTTTGAAAACATCATGCACTGTAGG
1888382 TCTTACAG
66 TCTTACAG
*
1888390 ATGACACTGAGGGTTTAAGATCAAAAAGCTCCTGAAGGCTTTTTGAAAACATCATGCACTGTAGG
1 ATGACCCTGAGGGTTTAAGATCAAAAAGCTCCTGAAGGCTTTTTGAAAACATCATGCACTGTAGG
1888455 TCTTACAG
66 TCTTACAG
*
1888463 ATGACCCTGAGGGTTTAAGATCAAAAAGCTCCTGAAGGCTTTTTGAAAACATCATGCACTGTAGA
1 ATGACCCTGAGGGTTTAAGATCAAAAAGCTCCTGAAGGCTTTTTGAAAACATCATGCACTGTAGG
1888528 TCTTACAG
66 TCTTACAG
* * *
1888536 ATGACCCTGAGGGTTTAAGATCAAAAAGCTCCCGAATGCTTTTTGAAAACATCATGCATTGTAGG
1 ATGACCCTGAGGGTTTAAGATCAAAAAGCTCCTGAAGGCTTTTTGAAAACATCATGCACTGTAGG
1888601 TCTTACAG
66 TCTTACAG
1888609 ATGACCCTGAGGGTTTAAGATCAAAAAGCTCCTGAAGGCTTTTTGAAAACATCATGCACTGTAGG
1 ATGACCCTGAGGGTTTAAGATCAAAAAGCTCCTGAAGGCTTTTTGAAAACATCATGCACTGTAGG
1888674 TCTTACAG
66 TCTTACAG
* *
1888682 ATGACCCTAAGGATTTAAGATCAAAAAGCTCCTGAAGGCTTTTTGAAAACATCATGCACTGTAGG
1 ATGACCCTGAGGGTTTAAGATCAAAAAGCTCCTGAAGGCTTTTTGAAAACATCATGCACTGTAGG
1888747 TCTTACAG
66 TCTTACAG
* * * * *
1888755 ATGACCCTGAGGGTTTAAGATCAAAAAGCTCCGGAAGACTTTTTGAAAACATCAAGCACTATAGA
1 ATGACCCTGAGGGTTTAAGATCAAAAAGCTCCTGAAGGCTTTTTGAAAACATCATGCACTGTAGG
1888820 TCTTACAG
66 TCTTACAG
1888828 GGAAATCGTT
Statistics
Matches: 556, Mismatches: 28, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
73 556 1.00
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.27
Consensus pattern (73 bp):
ATGACCCTGAGGGTTTAAGATCAAAAAGCTCCTGAAGGCTTTTTGAAAACATCATGCACTGTAGG
TCTTACAG
Found at i:1889681 original size:22 final size:22
Alignment explanation
Indices: 1889624--1889681 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
1889614 AAATCCAATA
* **
1889624 AATCTTTCATCTTCGAAAAGAG
1 AATCTATCATCTTTAAAAAGAG
1889646 AATCTATCATCTTTAAAAAGAG
1 AATCTATCATCTTTAAAAAGAG
*
1889668 AATTTATCATCTTT
1 AATCTATCATCTTT
1889682 GAAGAATGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (22 bp):
AATCTATCATCTTTAAAAAGAG
Found at i:1893838 original size:18 final size:18
Alignment explanation
Indices: 1893817--1893882 Score: 52
Period size: 18 Copynumber: 3.7 Consensus size: 18
1893807 CTTTTTTCCC
1893817 TTTTCTTTTCTTTTTCTT
1 TTTTCTTTTCTTTTTCTT
1893835 TTTTC---TCATTTTTC-T
1 TTTTCTTTTC-TTTTTCTT
1893850 TTTTCATCTTT-TTTTTCTT
1 TTTTC-T-TTTCTTTTTCTT
*
1893869 TTTACTTCTTCTTT
1 TTTTCTT-TTCTTT
1893883 CTTTACTGGA
Statistics
Matches: 38, Mismatches: 1, Indels: 17
0.68 0.02 0.30
Matches are distributed among these distances:
15 8 0.21
16 6 0.16
17 1 0.03
18 14 0.37
19 8 0.21
20 1 0.03
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTTCTTTTCTTTTTCTT
Found at i:1893861 original size:15 final size:15
Alignment explanation
Indices: 1893825--1893886 Score: 52
Period size: 16 Copynumber: 3.7 Consensus size: 15
1893815 CCTTTTCTTT
1893825 TCTTTTTCTTTTTTC
1 TCTTTTTCTTTTTTC
1893840 TCATTTTTCTTTTTCATC
1 TC-TTTTTCTTTTT--TC
* *
1893858 TTTTTTTTCTTTTTAC
1 -TCTTTTTCTTTTTTC
1893874 TTCTTCTTTCTTT
1 -TCTT-TTTCTTT
1893887 ACTGGATGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
15 2 0.05
16 16 0.41
17 7 0.18
18 13 0.33
19 1 0.03
ACGTcount: A:0.05, C:0.19, G:0.00, T:0.76
Consensus pattern (15 bp):
TCTTTTTCTTTTTTC
Found at i:1898660 original size:46 final size:49
Alignment explanation
Indices: 1898593--1898683 Score: 127
Period size: 46 Copynumber: 1.9 Consensus size: 49
1898583 TATAATGTAT
* *
1898593 CCTAACCTCATGCTTTCTAGTTC-CATGC-TTTGTTT-GGAAAAATTAA
1 CCTAACCTCATGATTTCTAGTTCGCATGCATTTATTTAGGAAAAATTAA
1898639 CCTAA-CTGCATGATTTCTAGTTCGCATGCATTTATTTAGGAAAAA
1 CCTAACCT-CATGATTTCTAGTTCGCATGCATTTATTTAGGAAAAA
1898684 GAAAGGAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
45 2 0.05
46 19 0.49
47 5 0.13
48 6 0.15
49 7 0.18
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (49 bp):
CCTAACCTCATGATTTCTAGTTCGCATGCATTTATTTAGGAAAAATTAA
Found at i:1900047 original size:25 final size:24
Alignment explanation
Indices: 1900019--1900087 Score: 58
Period size: 23 Copynumber: 3.0 Consensus size: 24
1900009 TTTATAAGAC
1900019 TAATATAATAAAATAATAATTAAA
1 TAATATAATAAAATAATAATTAAA
*
1900043 GTAATGAT-TTAAAAT-AT-ATTAAA
1 -TAAT-ATAATAAAATAATAATTAAA
*
1900066 -AA-ATAATAATAATAAAAATTAA
1 TAATATAATAA-AATAATAATTAA
1900088 GTTAAAATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 12
0.71 0.06 0.24
Matches are distributed among these distances:
19 2 0.06
20 3 0.08
21 5 0.14
22 1 0.03
23 11 0.31
24 2 0.06
25 10 0.28
26 2 0.06
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (24 bp):
TAATATAATAAAATAATAATTAAA
Found at i:1900892 original size:29 final size:29
Alignment explanation
Indices: 1900832--1900886 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
1900822 TCTTTACTCG
* *
1900832 TGTCGATCTGTGTTCCTCTTCTTTCTTGC
1 TGTCGATCTCTGTTCCTCTTCGTTCTTGC
*
1900861 TGTCGATCTCTGTTGCTC-TCGTTCTT
1 TGTCGATCTCTGTTCCTCTTCGTTCTT
1900887 TTCTGTTTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 7 0.30
29 16 0.70
ACGTcount: A:0.04, C:0.27, G:0.18, T:0.51
Consensus pattern (29 bp):
TGTCGATCTCTGTTCCTCTTCGTTCTTGC
Found at i:1901381 original size:3 final size:3
Alignment explanation
Indices: 1901373--1901408 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
1901363 GTATTTTATT
*
1901373 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAT TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1901409 AATTGAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:1901999 original size:25 final size:26
Alignment explanation
Indices: 1901968--1902017 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
1901958 ATAAGATGCT
*
1901968 AAAAGTGAC-ATTTTATTATTGTCAC
1 AAAAGTGACAATTTAATTATTGTCAC
1901993 AAAAGTGACAATTTAATTATTGTCA
1 AAAAGTGACAATTTAATTATTGTCA
1902018 TATTTGAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (26 bp):
AAAAGTGACAATTTAATTATTGTCAC
Found at i:1908903 original size:55 final size:56
Alignment explanation
Indices: 1908837--1908953 Score: 227
Period size: 56 Copynumber: 2.1 Consensus size: 56
1908827 ATATAAATTG
1908837 TTTGTGTTTTGCTACAAT-ATCTTTTCGTCACATATAAGTTGATTTTAATGCATTA
1 TTTGTGTTTTGCTACAATAATCTTTTCGTCACATATAAGTTGATTTTAATGCATTA
1908892 TTTGTGTTTTGCTACAATAATCTTTTCGTCACATATAAGTTGATTTTAATGCATTA
1 TTTGTGTTTTGCTACAATAATCTTTTCGTCACATATAAGTTGATTTTAATGCATTA
1908948 TTTGTG
1 TTTGTG
1908954 AAAATATAAA
Statistics
Matches: 61, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
55 18 0.30
56 43 0.70
ACGTcount: A:0.25, C:0.12, G:0.14, T:0.50
Consensus pattern (56 bp):
TTTGTGTTTTGCTACAATAATCTTTTCGTCACATATAAGTTGATTTTAATGCATTA
Found at i:1909262 original size:194 final size:194
Alignment explanation
Indices: 1908905--1909263 Score: 441
Period size: 194 Copynumber: 1.9 Consensus size: 194
1908895 GTGTTTTGCT
* *** *
1908905 ACAATAATCTTTTCGTCACATATAAGTTGATTTTAATGCATTATTTGTGAAAATATAAATTATCA
1 ACAATAATCTTTTCGTCACATATAAGTTGATTTGAATGCATTATCCATGAAAATATAAATCATCA
** * *
1908970 ATAACGAAATCTTATTTAATTTAGTGACGTAACCAACTGTCATAGAATATAAATTATAAAGTGAT
66 ATAACGAAATCTTACATAATTTAGTGACATAACCAACTGTCATAGAATATAAATTATAAAGTGAC
* * * *
1909035 GTTATGCGTAAACGTCATTCATAATATTATTAGGTAATATTTATATTATGTCACTGAAAATGTG
131 GTTATACATAAACGTCATCCATAATACTATTAGGTAATATTTATATTATGTCACTGAAAATGTG
* * **
1909099 ACAAT-ATCTCTTTCGTCACATATAGGTTGATTTGAATGTATTATCCATGACTATATAAATCATC
1 ACAATAATCT-TTTCGTCACATATAAGTTGATTTGAATGCATTATCCATGAAAATATAAATCATC
* ** ** * * *
1909163 AATAACGAAATTTTACATAATTTAGTGACATAATTAGTTGTCATTGAATATTAATTATATAGTGA
65 AATAACGAAATCTTACATAATTTAGTGACATAACCAACTGTCATAGAATATAAATTATAAAGTGA
* * **
1909228 CGTTATATATAAATGTCATCCATGCTACTATTAGGT
130 CGTTATACATAAACGTCATCCATAATACTATTAGGT
1909264 GACGATATAC
Statistics
Matches: 135, Mismatches: 29, Indels: 2
0.81 0.17 0.01
Matches are distributed among these distances:
193 4 0.03
194 131 0.97
ACGTcount: A:0.37, C:0.11, G:0.12, T:0.39
Consensus pattern (194 bp):
ACAATAATCTTTTCGTCACATATAAGTTGATTTGAATGCATTATCCATGAAAATATAAATCATCA
ATAACGAAATCTTACATAATTTAGTGACATAACCAACTGTCATAGAATATAAATTATAAAGTGAC
GTTATACATAAACGTCATCCATAATACTATTAGGTAATATTTATATTATGTCACTGAAAATGTG
Found at i:1910588 original size:30 final size:30
Alignment explanation
Indices: 1910554--1910610 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
1910544 GGGTTTACAG
1910554 GATCAAAGAAGAGCACGATGGGAGCAATAT
1 GATCAAAGAAGAGCACGATGGGAGCAATAT
*
1910584 GATCAAAGAAGATCACGATGGGAGCAA
1 GATCAAAGAAGAGCACGATGGGAGCAA
1910611 ACGCTACAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.44, C:0.14, G:0.30, T:0.12
Consensus pattern (30 bp):
GATCAAAGAAGAGCACGATGGGAGCAATAT
Found at i:1910621 original size:30 final size:30
Alignment explanation
Indices: 1910554--1910623 Score: 97
Period size: 30 Copynumber: 2.3 Consensus size: 30
1910544 GGGTTTACAG
*
1910554 GATCAAAGAAGAGCACGATGGGAGCAATAT
1 GATCAAAGAAGAGCACGATGGGAGCAATAC
*
1910584 GATCAAAGAAGATCACGATGGGAGCAA-AC
1 GATCAAAGAAGAGCACGATGGGAGCAATAC
*
1910613 GCTACAAAGAA
1 GAT-CAAAGAA
1910624 AGAATTGTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 3 0.08
30 33 0.92
ACGTcount: A:0.46, C:0.16, G:0.27, T:0.11
Consensus pattern (30 bp):
GATCAAAGAAGAGCACGATGGGAGCAATAC
Found at i:1911088 original size:15 final size:15
Alignment explanation
Indices: 1911068--1911103 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
1911058 TTATAAACTT
1911068 GAAGCAAAAATTGTC
1 GAAGCAAAAATTGTC
1911083 GAAGCAAAAATTGTC
1 GAAGCAAAAATTGTC
1911098 GAAGCA
1 GAAGCA
1911104 GTTTGAAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.47, C:0.14, G:0.22, T:0.17
Consensus pattern (15 bp):
GAAGCAAAAATTGTC
Found at i:1914977 original size:196 final size:193
Alignment explanation
Indices: 1914637--1915025 Score: 679
Period size: 196 Copynumber: 2.0 Consensus size: 193
1914627 CCTGGAATAA
*
1914637 AGACTTATTACATCCTTCTGATGCTTCGGCCAAGTGTAATGAATCCACTTAGAATATAGGAGGGT
1 AGACTTATTACATCCTCCTGATGCTTCGGCCAAGTGTAATGAATCCACTTAGAATATAGGAGGGT
*
1914702 TTTCGCTCTCTCTTGGTTTTCATTCATAGCTTGAGTATCATAAGGTAAAGGTTGTGGGTTAAGCG
66 TTTCGCTATCTCTTGGTTTTCATTCATAGCTTGAGTATCATAAGGTAAAGGTTGTGGGTTAAGCG
*
1914767 GAACCAATGAAAGGCTAGTAATTGATGATATTGCTGCAGAGCCTACAACCTCCACTGGCATGT
131 GAACCAAAGAAAGGCTAGTAATTGATGATATTGCTGCAGAGCCTACAACCTCCACTGGCATGT
* * * *
1914830 AGACTTGTTACATCCTCCTGCTGCTTCTGCCCAGTGTAATGAATCCACTTAGAATATTGGAGGAG
1 AGACTTATTACATCCTCCTGATGCTTCGGCCAAGTGTAATGAATCCACTTAGAATA-T--AGGAG
1914895 GGTTTTCGCTATCTCTTGGTTTTCATTCATAGCTTGAGTATCATAAGGTAAAGGTTGTGGGTTAA
63 GGTTTTCGCTATCTCTTGGTTTTCATTCATAGCTTGAGTATCATAAGGTAAAGGTTGTGGGTTAA
*
1914960 GCGGAACCAAAGAAAGGCTAGTAATTGATGATATTGCTGCAGAGCCTACAATCTCCACTGGCATG
128 GCGGAACCAAAGAAAGGCTAGTAATTGATGATATTGCTGCAGAGCCTACAACCTCCACTGGCATG
1915025 T
193 T
1915026 TCAGAAGAGG
Statistics
Matches: 185, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
193 51 0.28
194 1 0.01
196 133 0.72
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (193 bp):
AGACTTATTACATCCTCCTGATGCTTCGGCCAAGTGTAATGAATCCACTTAGAATATAGGAGGGT
TTTCGCTATCTCTTGGTTTTCATTCATAGCTTGAGTATCATAAGGTAAAGGTTGTGGGTTAAGCG
GAACCAAAGAAAGGCTAGTAATTGATGATATTGCTGCAGAGCCTACAACCTCCACTGGCATGT
Found at i:1929287 original size:81 final size:80
Alignment explanation
Indices: 1929152--1929376 Score: 342
Period size: 81 Copynumber: 2.8 Consensus size: 80
1929142 TGCATTGTTC
* * * * * *
1929152 TTCATCTAACTTGCATTAGTGGAACCTTTATGCCAAATGCACAGTTAGGCATTTAATCTTTTACT
1 TTCATCTAACTGGCATGA-TTGAACCTTTCTGTCAAATGCACAGCTAGGCATTTAATCTTTTACT
1929217 CAAAGGTATTTAACCT
65 CAAAGGTATTTAACCT
* *
1929233 TTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGTACAGCTAGGCATTTACTCTTTTACT
1 TTCATCTAACTGGCATGATTGA-ACCTTTCTGTCAAATGCACAGCTAGGCATTTAATCTTTTACT
1929298 CAAAGGTATTTAACCT
65 CAAAGGTATTTAACCT
*
1929314 TTCATCTAACTGGCATGATTGATACCTTTCTGTAAAATGCACAGCTAGGCATTTAATCTTTTA
1 TTCATCTAACTGGCATGATTGA-ACCTTTCTGTCAAATGCACAGCTAGGCATTTAATCTTTTA
1929377 TTTTAAGACA
Statistics
Matches: 131, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
80 3 0.02
81 128 0.98
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.37
Consensus pattern (80 bp):
TTCATCTAACTGGCATGATTGAACCTTTCTGTCAAATGCACAGCTAGGCATTTAATCTTTTACTC
AAAGGTATTTAACCT
Found at i:1929931 original size:94 final size:95
Alignment explanation
Indices: 1929796--1929971 Score: 228
Period size: 94 Copynumber: 1.9 Consensus size: 95
1929786 CATGGTATCG
* * * *
1929796 ATACTTCTATACTGTGGTACCAATACTCCCTTTCAGTATCGATACCATTTCTACATTATGG-ATC
1 ATACTTCTATACTATGGTACCAATACTCCATTACAATATCGATACCATTTCTACATTATGGAATC
** *
1929860 CTTGGTATCGATACCTTTCTCTTAGTACAT
66 AATGGTATCAATACCTTTCTCTTAGTACAT
** * * * *
1929890 ATACTTCTATACTATGGTACTGATACTCTATTACAATATCGATACCATTTTTGCATTCTGGAATC
1 ATACTTCTATACTATGGTACCAATACTCCATTACAATATCGATACCATTTCTACATTATGGAATC
1929955 AATGGTATCAATACCTT
66 AATGGTATCAATACCTT
1929972 CCTTATAGTA
Statistics
Matches: 68, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
94 51 0.75
95 17 0.25
ACGTcount: A:0.27, C:0.22, G:0.11, T:0.39
Consensus pattern (95 bp):
ATACTTCTATACTATGGTACCAATACTCCATTACAATATCGATACCATTTCTACATTATGGAATC
AATGGTATCAATACCTTTCTCTTAGTACAT
Found at i:1935173 original size:81 final size:81
Alignment explanation
Indices: 1934690--1935164 Score: 682
Period size: 81 Copynumber: 5.9 Consensus size: 81
1934680 TTAGACATTT
1934690 TCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGCTAG
1 TCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGCTAG
*
1934755 GCATTTAATATTTTAC
66 GCATTTAATCTTTTAC
* * * * * ** * *
1934771 TCAAAGGTATTTAACATTTCATTTAACT-GCATTATTAAAATATTTCTGTTAAATGCACAACTAG
1 TCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGCTAG
1934835 GCATTTAATCTTTTAC
66 GCATTTAATCTTTTAC
* * * *
1934851 TCAAAGGTATTTAACATTTCATATAACTGGCATGATTGACACCTTTCTGTCAAATGCATAACTAG
1 TCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGCTAG
1934916 GCATTTAATCTTTTAC
66 GCATTTAATCTTTTAC
* * * * *
1934932 TGAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGATACATTTCTCTCAAATACACAGCTAG
1 TCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGCTAG
1934997 GCATTTAATCTTTTAC
66 GCATTTAATCTTTTAC
* * *
1935013 TCAAAGGTATTTAACCTTTCATATAACTGGCATTATTAACACCTTTCTGTCAAATGCACAGCTAG
1 TCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGCTAG
*
1935078 ACATTTAATCTTTTAC
66 GCATTTAATCTTTTAC
* * * * *
1935094 TCAAAGGTATATAACCTTTCATCTAACTAGCATGACTGACACCTTTCTGTCAAATGTATAGCTAG
1 TCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGCTAG
*
1935159 ACATTT
66 GCATTT
1935165 TGTTTTTTAT
Statistics
Matches: 349, Mismatches: 44, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
80 71 0.20
81 278 0.80
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.37
Consensus pattern (81 bp):
TCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGCTAG
GCATTTAATCTTTTAC
Found at i:1935822 original size:21 final size:21
Alignment explanation
Indices: 1935796--1935841 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
1935786 ATACCCACCT
* *
1935796 CAGTATCTATACTAGTTGTAA
1 CAGTATCGATAATAGTTGTAA
1935817 CAGTATCGATAATAGTTGTAA
1 CAGTATCGATAATAGTTGTAA
1935838 CAGT
1 CAGT
1935842 GTAGATACTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (21 bp):
CAGTATCGATAATAGTTGTAA
Found at i:1935848 original size:21 final size:21
Alignment explanation
Indices: 1935808--1935848 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1935798 GTATCTATAC
*
1935808 TAGTTGTAACAGTATCGATAA
1 TAGTTGTAACAGTATAGATAA
*
1935829 TAGTTGTAACAGTGTAGATA
1 TAGTTGTAACAGTATAGATA
1935849 CTGTTAAGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.34
Consensus pattern (21 bp):
TAGTTGTAACAGTATAGATAA
Found at i:1938732 original size:53 final size:53
Alignment explanation
Indices: 1938669--1938770 Score: 168
Period size: 53 Copynumber: 1.9 Consensus size: 53
1938659 AATAAAAGAC
* * *
1938669 AGATTGGAGAACTTTTACAGCAGTCCTTATCCCACTAAAGTGCCTTCTAAGCT
1 AGATTGGAGAACTTTTACAGCAGTCCTTAACCCACCAAAGTGCCCTCTAAGCT
*
1938722 AGATTGGAGAACTTTTGCAGCAGTCCTTAACCCACCAAAGTGCCCTCTA
1 AGATTGGAGAACTTTTACAGCAGTCCTTAACCCACCAAAGTGCCCTCTA
1938771 TACGGGGATG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 45 1.00
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.27
Consensus pattern (53 bp):
AGATTGGAGAACTTTTACAGCAGTCCTTAACCCACCAAAGTGCCCTCTAAGCT
Found at i:1941966 original size:23 final size:24
Alignment explanation
Indices: 1941931--1941975 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
1941921 CAATCAAATA
1941931 TTATTTTAAAAAACAATT-ATGACT
1 TTATTTTAAAAAA-AATTGATGACT
*
1941955 TTATTTT-GAAAAAATTGATGA
1 TTATTTTAAAAAAAATTGATGA
1941976 TTTTGAGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 4 0.21
23 8 0.42
24 7 0.37
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.42
Consensus pattern (24 bp):
TTATTTTAAAAAAAATTGATGACT
Found at i:1943855 original size:21 final size:21
Alignment explanation
Indices: 1943818--1943870 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
1943808 AGTTTGTTTG
*
1943818 TTTCTTTCTTTTT-CTTTTT-
1 TTTCTCTCTTTTTCCTTTTTA
1943837 TTTCTCTCTGTTTTCCTTTTTA
1 TTTCTCTCT-TTTTCCTTTTTA
1943859 TTTC-CTCTTTTT
1 TTTCTCTCTTTTT
1943871 TCTGATCTCC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 8 0.27
20 8 0.27
21 10 0.33
22 4 0.13
ACGTcount: A:0.02, C:0.21, G:0.02, T:0.75
Consensus pattern (21 bp):
TTTCTCTCTTTTTCCTTTTTA
Found at i:1951818 original size:20 final size:19
Alignment explanation
Indices: 1951795--1951834 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
1951785 GTGCTGCAAC
1951795 AAAAAAACAAAAGAAAGAAG
1 AAAAAAACAAAAGAAA-AAG
*
1951815 AAAAAAAGAAAAGAAAAAG
1 AAAAAAACAAAAGAAAAAG
1951834 A
1 A
1951835 CTCCTACATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (19 bp):
AAAAAAACAAAAGAAAAAG
Found at i:1952147 original size:17 final size:17
Alignment explanation
Indices: 1952122--1952157 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
1952112 ATCCTACCTT
1952122 TACCATAACCATTTCTA
1 TACCATAACCATTTCTA
*
1952139 TACCCTAACCATTTCTA
1 TACCATAACCATTTCTA
1952156 TA
1 TA
1952158 GCCGATGCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.33, C:0.31, G:0.00, T:0.36
Consensus pattern (17 bp):
TACCATAACCATTTCTA
Found at i:1956578 original size:19 final size:20
Alignment explanation
Indices: 1956535--1956579 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
1956525 AGATAATCCT
*
1956535 TGAAAATACAGGAAAATATA
1 TGAAAATACAAGAAAATATA
1956555 T-AAAATA-AAGAAAA-ACTA
1 TGAAAATACAAGAAAATA-TA
1956573 TGAAAAT
1 TGAAAAT
1956580 GCAATTGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
17 1 0.05
18 9 0.41
19 11 0.50
20 1 0.05
ACGTcount: A:0.64, C:0.04, G:0.11, T:0.20
Consensus pattern (20 bp):
TGAAAATACAAGAAAATATA
Found at i:1957655 original size:2 final size:2
Alignment explanation
Indices: 1957648--1957676 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1957638 ATCTTTTCAT
1957648 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1957677 GATTCAACTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1959648 original size:20 final size:19
Alignment explanation
Indices: 1959620--1959675 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
1959610 AATAAAGTGT
* *
1959620 TATTGAATTTTAAGATTTTA
1 TATTCAATTTTAA-ATATTA
*
1959640 TATTCAATTTCAAATATTA
1 TATTCAATTTTAAATATTA
*
1959659 TATTC-ATTTTAATTATT
1 TATTCAATTTTAAATATT
1959676 CAAATATTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
18 10 0.32
19 10 0.32
20 11 0.35
ACGTcount: A:0.36, C:0.05, G:0.04, T:0.55
Consensus pattern (19 bp):
TATTCAATTTTAAATATTA
Found at i:1970758 original size:69 final size:69
Alignment explanation
Indices: 1970684--1970819 Score: 168
Period size: 69 Copynumber: 2.0 Consensus size: 69
1970674 ACTTTCATGG
* ** *
1970684 GAGTCACTCCAAT-ATTCCGGGGTTCCCGTTTGAGACA-CATGATATAATCATAATTATGTGCTC
1 GAGTCACTCCAATCATT-CAGGACTCCCGTATGAGACATC-TGATATAATCATAATTATGTGCTC
1970747 TCGTTT
64 TCGTTT
* * * *
1970753 GAGTCATTCTAATCCTTCAGGACTCCCGTATGAGACATCTGGTATAATCATAATTATGTGCTCTC
1 GAGTCACTCCAATCATTCAGGACTCCCGTATGAGACATCTGATATAATCATAATTATGTGCTCTC
1970818 GT
66 GT
1970820 GCGAGTGACC
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
69 54 0.95
70 3 0.05
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (69 bp):
GAGTCACTCCAATCATTCAGGACTCCCGTATGAGACATCTGATATAATCATAATTATGTGCTCTC
GTTT
Found at i:1977730 original size:21 final size:21
Alignment explanation
Indices: 1977704--1977754 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
1977694 TAGTATGATT
*
1977704 GTATCGATACTAAGTCCTTTA
1 GTATCGATACTAAGCCCTTTA
**
1977725 GTATCGATA-TTGGCCCTTTA
1 GTATCGATACTAAGCCCTTTA
1977745 GTATCGATAC
1 GTATCGATAC
1977755 CCACCCTCAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (21 bp):
GTATCGATACTAAGCCCTTTA
Found at i:1977761 original size:20 final size:20
Alignment explanation
Indices: 1977719--1977774 Score: 51
Period size: 20 Copynumber: 2.9 Consensus size: 20
1977709 GATACTAAGT
****
1977719 CCTTTAGTATCGATATTGGC
1 CCTTTAGTATCGATACCCAC
1977739 CCTTTAGTATCGATACCCAC
1 CCTTTAGTATCGATACCCAC
* *
1977759 CC-TCAGTATTGATACC
1 CCTTTAGTATCGATACC
1977775 AAATATGTGT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 12 0.40
20 18 0.60
ACGTcount: A:0.23, C:0.29, G:0.14, T:0.34
Consensus pattern (20 bp):
CCTTTAGTATCGATACCCAC
Found at i:1978272 original size:20 final size:20
Alignment explanation
Indices: 1978247--1978299 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
1978237 ACTTATCCAA
*
1978247 TATGGATACTGGTCCTCCGG
1 TATGGATACTAGTCCTCCGG
* *
1978267 TATGGATTCTAGTCCTTCGG
1 TATGGATACTAGTCCTCCGG
*
1978287 TATGGATTCTAGT
1 TATGGATACTAGT
1978300 TTATCTAGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.17, C:0.19, G:0.26, T:0.38
Consensus pattern (20 bp):
TATGGATACTAGTCCTCCGG
Found at i:1979678 original size:3 final size:3
Alignment explanation
Indices: 1979672--1979708 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
1979662 ACATTATTAA
1979672 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1979709 ATTAAACATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:1988706 original size:17 final size:17
Alignment explanation
Indices: 1988684--1988717 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
1988674 TAGGATTAGA
1988684 AATTGGAATAGGTGGAG
1 AATTGGAATAGGTGGAG
1988701 AATTGGAATAGGTGGAG
1 AATTGGAATAGGTGGAG
1988718 GATTTGGAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.41, T:0.24
Consensus pattern (17 bp):
AATTGGAATAGGTGGAG
Found at i:1989267 original size:20 final size:20
Alignment explanation
Indices: 1989230--1989268 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1989220 AGATTGAGTG
* * *
1989230 GATTTTGATGTTGTTTGCAT
1 GATTTTAATGATGATTGCAT
1989250 GATTTTAATGATGATTGCA
1 GATTTTAATGATGATTGCA
1989269 AGTTTAGGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.05, G:0.23, T:0.49
Consensus pattern (20 bp):
GATTTTAATGATGATTGCAT
Found at i:1996387 original size:35 final size:35
Alignment explanation
Indices: 1996340--1996438 Score: 117
Period size: 35 Copynumber: 2.8 Consensus size: 35
1996330 ACAAGCTCAA
* **
1996340 GTGGGGCATCAAAGCACATAATGTAGCATCTGTTT
1 GTGGGGCGTCAAAGCACATAATGTAGCATCCATTT
* * * * *
1996375 GTGGGGTGTCAAAGCATAAAATGTAACAACCATTT
1 GTGGGGCGTCAAAGCACATAATGTAGCATCCATTT
*
1996410 GTGGGGCGTCAAAGCACATAATATAGCAT
1 GTGGGGCGTCAAAGCACATAATGTAGCAT
1996439 TCGTTTGGGT
Statistics
Matches: 50, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
35 50 1.00
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.25
Consensus pattern (35 bp):
GTGGGGCGTCAAAGCACATAATGTAGCATCCATTT
Found at i:1997549 original size:9 final size:9
Alignment explanation
Indices: 1997532--1997617 Score: 65
Period size: 9 Copynumber: 9.9 Consensus size: 9
1997522 AAGGAAAGGA
*
1997532 AAAAAAAAG
1 AAAAGAAAG
*
1997541 AAAATAAAG
1 AAAAGAAAG
*
1997550 AAAATAAAG
1 AAAAGAAAG
1997559 AAAAGAAA-
1 AAAAGAAAG
1997567 AAAAGAAAG
1 AAAAGAAAG
*
1997576 AAAA-AATG
1 AAAAGAAAG
1997584 --AAGAAA-
1 AAAAGAAAG
*
1997590 AAAAGGAGAAA
1 AAAA-GA-AAG
1997601 AAAAGAAAG
1 AAAAGAAAG
*
1997610 AAATGAAA
1 AAAAGAAA
1997618 TTGAATCAAG
Statistics
Matches: 64, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
6 2 0.03
7 2 0.03
8 13 0.20
9 39 0.61
10 4 0.06
11 4 0.06
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (9 bp):
AAAAGAAAG
Found at i:1997587 original size:23 final size:22
Alignment explanation
Indices: 1997519--1997612 Score: 77
Period size: 23 Copynumber: 4.1 Consensus size: 22
1997509 TCCATCAGAG
* *
1997519 AAAAAGGAAAGGAAAAAAAAAGA
1 AAAAAAGAAA-GAAAAAAGAAGA
1997542 AAATAAAGAAA-ATAAAGAA-AAGA
1 AAA-AAAGAAAGA-AAA-AAGAAGA
1997565 AAAAAAGAAAGAAAAAATGAAGA
1 AAAAAAGAAAGAAAAAA-GAAGA
*
1997588 AAAAAAG-GAGAAAAAAAGAAAGA
1 AAAAAAGAAAG-AAAAAAG-AAGA
1997611 AA
1 AA
1997613 TGAAATTGAA
Statistics
Matches: 61, Mismatches: 2, Indels: 16
0.77 0.03 0.20
Matches are distributed among these distances:
21 2 0.03
22 14 0.23
23 37 0.61
24 8 0.13
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (22 bp):
AAAAAAGAAAGAAAAAAGAAGA
Found at i:1997588 original size:46 final size:46
Alignment explanation
Indices: 1997519--1997612 Score: 113
Period size: 46 Copynumber: 2.0 Consensus size: 46
1997509 TCCATCAGAG
* *
1997519 AAAAAGGAAAGGAAAAAAAAAGAAAATAAA-GA-AAATAAAGAAAAGA
1 AAAAAAGAAAGGAAAAAAAAAGAAAA-AAAGGAGAAAAAAAG-AAAGA
*
1997565 AAAAAAGAAA-GAAAAAATGAAGAAAAAAAGGAGAAAAAAAGAAAGA
1 AAAAAAGAAAGGAAAAAA-AAAGAAAAAAAGGAGAAAAAAAGAAAGA
1997611 AA
1 AA
1997613 TGAAATTGAA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
45 10 0.24
46 25 0.60
47 7 0.17
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (46 bp):
AAAAAAGAAAGGAAAAAAAAAGAAAAAAAGGAGAAAAAAAGAAAGA
Found at i:2000456 original size:43 final size:43
Alignment explanation
Indices: 2000408--2000532 Score: 178
Period size: 43 Copynumber: 2.9 Consensus size: 43
2000398 TATAAGAAAC
*
2000408 TAAGCTTGAGGGACCATCATGATATGTAGGGGTTCCTTGATGA
1 TAAGCTTGAGGGACCATCGTGATATGTAGGGGTTCCTTGATGA
* * * *
2000451 TAAGCTTGAAGGACTATCGTGATATGTAGGGGTTTCTTAATGA
1 TAAGCTTGAGGGACCATCGTGATATGTAGGGGTTCCTTGATGA
* **
2000494 CAAATTTGAGGGACCATCGTGATATGTAGGGGTTCCTTG
1 TAAGCTTGAGGGACCATCGTGATATGTAGGGGTTCCTTG
2000533 GTGACAATTA
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 70 1.00
ACGTcount: A:0.26, C:0.13, G:0.30, T:0.32
Consensus pattern (43 bp):
TAAGCTTGAGGGACCATCGTGATATGTAGGGGTTCCTTGATGA
Found at i:2000694 original size:90 final size:90
Alignment explanation
Indices: 2000540--2000855 Score: 490
Period size: 90 Copynumber: 3.5 Consensus size: 90
2000530 TTGGTGACAA
* *
2000540 TTAAGAAACTGAGCCTTC-AAGGGTTTCTTGATTTTTAAGTCCTTCAGGCTATCCATAAGACCTT
1 TTAAGAAACTAAGCCTTCGGA-GGTTTCTTGATTTTTAAGTCCTTCAGGCTATCCATAAGACCTT
*
2000604 CAGTGTAGGATGTTTTCAAATGAGAT
65 CAGTGCAGGATGTTTTCAAATGAGAT
* *
2000630 CTAAGAAACTAAGCCTTCGGAGGTTTCTTGATTTTTAAGTCCTTCAGGCCATCCATAAGACCTTC
1 TTAAGAAACTAAGCCTTCGGAGGTTTCTTGATTTTTAAGTCCTTCAGGCTATCCATAAGACCTTC
*
2000695 AGTGCAGGATGTTTTCAAATGAAAT
66 AGTGCAGGATGTTTTCAAATGAGAT
* * * * *
2000720 TTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTCGGGCTATCCATAAGACCTTA
1 TTAAGAAACTAAGCCTTCGGAGGTTTCTTGATTTTTAAGTCCTTCAGGCTATCCATAAGACCTTC
2000785 AGTGCAGGATGTTTTCAAATGAGATT
66 AGTGCAGGATGTTTTCAAATGAGA-T
* *
2000811 TTAAGAAACTAAGCCTTCGGGGGTTTCTTGATTTTTAAATCCTTC
1 TTAAGAAACTAAGCCTTCGGAGGTTTCTTGATTTTTAAGTCCTTC
2000856 GGGTCATCTG
Statistics
Matches: 207, Mismatches: 17, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
90 163 0.79
91 44 0.21
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (90 bp):
TTAAGAAACTAAGCCTTCGGAGGTTTCTTGATTTTTAAGTCCTTCAGGCTATCCATAAGACCTTC
AGTGCAGGATGTTTTCAAATGAGAT
Found at i:2000910 original size:42 final size:42
Alignment explanation
Indices: 2000846--2000927 Score: 119
Period size: 42 Copynumber: 2.0 Consensus size: 42
2000836 TCTTGATTTT
* *
2000846 TAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGCATGATGTG
1 TAAATCATTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGTG
* * *
2000888 TAAATCATTCGGGTTATTTGTAAGTTTTTCGAGCAAGATG
1 TAAATCATTCGGGTCATCTGTAAGTCTTTCGAGCAAGATG
2000928 ATAAGTCCTT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.24, C:0.15, G:0.23, T:0.38
Consensus pattern (42 bp):
TAAATCATTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGTG
Found at i:2001165 original size:3 final size:3
Alignment explanation
Indices: 2001159--2001192 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
2001149 ACATTATTAA
2001159 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
2001193 ATTAAACATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:2003946 original size:69 final size:69
Alignment explanation
Indices: 2003834--2003964 Score: 163
Period size: 69 Copynumber: 1.9 Consensus size: 69
2003824 TACGAGTAAA
* * * * *
2003834 TCTAATCCTTCGGGGCTCTCATGCAAGATACCTAGTATAGTCATAATTAGGTGCTCCTGTACAAA
1 TCTAATCCTTCGGGGCTCCCATACAAGAAACCTAGTATAGTCATAATTAGGAGCTCCCGTACAAA
2003899 TCAT
66 TCAT
* * * * * *
2003903 TCTAATCTTTCGGGGCTCCCATACAAGAAACTTGGTATCGTCATGATTCGGAGCTCCCGTAC
1 TCTAATCCTTCGGGGCTCCCATACAAGAAACCTAGTATAGTCATAATTAGGAGCTCCCGTAC
2003965 GAGTTACCCA
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
69 51 1.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (69 bp):
TCTAATCCTTCGGGGCTCCCATACAAGAAACCTAGTATAGTCATAATTAGGAGCTCCCGTACAAA
TCAT
Found at i:2005100 original size:12 final size:13
Alignment explanation
Indices: 2005078--2005106 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
2005068 CTTAGTTGCG
2005078 AAAATTTAAAATT
1 AAAATTTAAAATT
2005091 AAAA-TTAAAATT
1 AAAATTTAAAATT
2005103 AAAA
1 AAAA
2005107 AGCATTCGAT
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAATTTAAAATT
Found at i:2005254 original size:22 final size:22
Alignment explanation
Indices: 2005224--2005274 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
2005214 TGGGAAAAAG
2005224 TAATGAAAAATAAATAAAACAGAA
1 TAAT-AAAAATAAATAAAA-AGAA
* *
2005248 -AATAAAATTTAATAAAAAGAA
1 TAATAAAAATAAATAAAAAGAA
2005269 TAATAA
1 TAATAA
2005275 TAAAAAAGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 4 0.17
22 17 0.71
23 3 0.12
ACGTcount: A:0.71, C:0.02, G:0.06, T:0.22
Consensus pattern (22 bp):
TAATAAAAATAAATAAAAAGAA
Found at i:2006670 original size:13 final size:12
Alignment explanation
Indices: 2006652--2006700 Score: 53
Period size: 13 Copynumber: 3.9 Consensus size: 12
2006642 TTGGACCCTA
2006652 AAAAAATGAAAAT
1 AAAAAAT-AAAAT
2006665 AAAAAATAAAAT
1 AAAAAATAAAAT
* *
2006677 TAATAATAATAAT
1 AAAAAATAA-AAT
*
2006690 AACAAATAAAA
1 AAAAAATAAAA
2006701 AAGTAAATAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
12 14 0.47
13 16 0.53
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (12 bp):
AAAAAATAAAAT
Found at i:2006839 original size:28 final size:28
Alignment explanation
Indices: 2006799--2006853 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
2006789 ATTATAATTT
*
2006799 TTTTAAAAATGTTTTCAAAATTATATAG
1 TTTTAAAAATGTTTTCAAAACTATATAG
*
2006827 TTTTAAAAATGTTTTTAAAACTATATA
1 TTTTAAAAATGTTTTCAAAACTATATA
2006854 TTATATAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (28 bp):
TTTTAAAAATGTTTTCAAAACTATATAG
Found at i:2006879 original size:64 final size:64
Alignment explanation
Indices: 2006756--2006889 Score: 166
Period size: 66 Copynumber: 2.1 Consensus size: 64
2006746 TCTATAGAAC
* * * *
2006756 ATATATTTTCAAAAGTATTTTAAAATTATATATATTATAATTTTTTTAAAAATGTTTTCAAAATT
1 ATATATTTTAAAAAGTATTTTAAAACTATATATATTATAA-TGTTTTAAAAATGATTTCAAAATT
*
2006821 ATATAGTTTTAAAAATGT-TTTTAAAACTATATAT-TATATAA-GTTTTCAAAATGATTTCAAAA
1 ATATA-TTTTAAAAA-GTATTTTAAAACTATATATAT-TATAATGTTTTAAAAATGATTTCAAAA
2006883 TT
63 TT
2006885 ATATA
1 ATATA
2006890 ATATATATGT
Statistics
Matches: 61, Mismatches: 5, Indels: 7
0.84 0.07 0.10
Matches are distributed among these distances:
64 25 0.41
65 6 0.10
66 28 0.46
67 2 0.03
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (64 bp):
ATATATTTTAAAAAGTATTTTAAAACTATATATATTATAATGTTTTAAAAATGATTTCAAAATT
Found at i:2006927 original size:30 final size:28
Alignment explanation
Indices: 2006889--2006955 Score: 107
Period size: 28 Copynumber: 2.3 Consensus size: 28
2006879 AAAATTATAT
2006889 AATATATATGTTTTCAAAATGTTTTTAAAA
1 AATATATAT-TTTTCAAAATG-TTTTAAAA
*
2006919 ACTATATATTTTTCAAAATGTTTTAAAA
1 AATATATATTTTTCAAAATGTTTTAAAA
2006947 AATATATAT
1 AATATATAT
2006956 AATATATATT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 16 0.46
29 11 0.31
30 8 0.23
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.46
Consensus pattern (28 bp):
AATATATATTTTTCAAAATGTTTTAAAA
Found at i:2006953 original size:65 final size:65
Alignment explanation
Indices: 2006863--2007070 Score: 213
Period size: 65 Copynumber: 3.0 Consensus size: 65
2006853 ATTATATAAG
* * *
2006863 TTTTCAAAATGATTTCAAAATTATATAATATATATGTTTTCAAAATGTTTTTAAAAACTATATAT
1 TTTTCAAAATGTTTTAAAAAATATATAATATATATGTTTTCAAAATGTTTTTAAAAACTATATAT
* * *
2006928 TTTTCAAAATGTTTTAAAAAATATAT-ATAATATATATTTTCAAAAATGTTTTAAAAAAATATAT
1 TTTTCAAAATGTTTTAAAAAATATATAAT-ATATATGTTTTC-AAAATGTTTT--TAAAA-A-CT
2006992 ATTATATTT
60 A-TATA--T
*
2007001 ATTTTCAAAATGTTTTAAAAAACTATATAATATATAAATGTTTTCAAACATG-TTTTCAAAACTA
1 -TTTTCAAAATGTTTTAAAAAA-TATATAATATAT--ATGTTTTCAAA-ATGTTTTTAAAAACTA
2007065 TATAT
61 TATAT
2007070 T
1 T
2007071 ATATATATAT
Statistics
Matches: 118, Mismatches: 10, Indels: 27
0.76 0.06 0.17
Matches are distributed among these distances:
64 2 0.02
65 34 0.29
66 10 0.08
68 5 0.04
69 2 0.02
70 2 0.02
71 8 0.07
72 2 0.02
73 2 0.02
74 24 0.20
75 9 0.08
76 8 0.07
77 10 0.08
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (65 bp):
TTTTCAAAATGTTTTAAAAAATATATAATATATATGTTTTCAAAATGTTTTTAAAAACTATATAT
Found at i:2006961 original size:101 final size:101
Alignment explanation
Indices: 2006741--2007029 Score: 307
Period size: 101 Copynumber: 2.8 Consensus size: 101
2006731 ATTATTTTCC
* * * * * *
2006741 AAAAATCTATAGAACATATATTTTCAAAA-GTATTTTAAAATTATAT-ATATTATAATTTTTTTA
1 AAAAATATATATAATATATATTTTCAAAATG-ATTTAAAAATTATATAATA-TAT-A-TATTTTC
* * *
2006804 AAAATG-TTTTCAAAATTATATAGTTTTAAAAATGTTTTT
62 AAAATGTTTTTAAAAACTATATAGTTTTAAAAATGTTTTA
* * * *
2006843 AAAACTATATATTATATA-AGTTTTCAAAATGATTTCAAAATTATATAATATATATGTTTTCAAA
1 AAAAATATATATAATATATA-TTTTCAAAATGATTTAAAAATTATATAATATATATATTTTCAAA
* *
2006907 ATGTTTTTAAAAACTATATATTTTTCAAAATGTTTTA
65 ATGTTTTTAAAAACTATATAGTTTTAAAAATGTTTTA
* * * *
2006944 AAAAATATATATAATATATATTTTCAAAAATGTTTTAAAAAAATATATATTATATTTATTTTCAA
1 AAAAATATATATAATATATATTTTC-AAAATGATTT-AAAAATTATATAATATATATATTTTCAA
*
2007009 AATGTTTTAAAAAACTATATA
64 AATGTTTTTAAAAACTATATA
2007030 ATATATAAAT
Statistics
Matches: 158, Mismatches: 22, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
100 11 0.07
101 51 0.32
102 49 0.31
103 47 0.30
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.45
Consensus pattern (101 bp):
AAAAATATATATAATATATATTTTCAAAATGATTTAAAAATTATATAATATATATATTTTCAAAA
TGTTTTTAAAAACTATATAGTTTTAAAAATGTTTTA
Found at i:2006962 original size:37 final size:39
Alignment explanation
Indices: 2006921--2007090 Score: 210
Period size: 37 Copynumber: 4.4 Consensus size: 39
2006911 TTTTAAAAAC
2006921 TATATAT-TTTTCAAAATGTTTT-AAAAA-ATATATATA
1 TATATATATTTTCAAAATGTTTTAAAAAATATATATATA
2006957 -ATATATATTTTCAAAAATGTTTTAAAAAA-ATATATAT-
1 TATATATATTTTC-AAAATGTTTTAAAAAATATATATATA
*
2006994 TATATTTATTTTCAAAATGTTTTAAAAAACTATATA-ATA
1 TATATATATTTTCAAAATGTTTTAAAAAA-TATATATATA
* * * *
2007033 TATAAATGTTTTCAAACATGTTTTCAAAACTATATATTATA
1 TATATATATTTTCAAA-ATGTTTTAAAAAATATATA-TATA
2007074 TATATATATTTTCAAAA
1 TATATATATTTTCAAAA
2007091 ACCATTTGCA
Statistics
Matches: 116, Mismatches: 8, Indels: 16
0.83 0.06 0.11
Matches are distributed among these distances:
35 6 0.05
36 5 0.04
37 26 0.22
38 26 0.22
39 24 0.21
40 12 0.10
41 17 0.15
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.45
Consensus pattern (39 bp):
TATATATATTTTCAAAATGTTTTAAAAAATATATATATA
Found at i:2007938 original size:81 final size:81
Alignment explanation
Indices: 2007699--2008865 Score: 979
Period size: 81 Copynumber: 14.2 Consensus size: 81
2007689 TGCCTTGAGG
* * * * * * * * * *
2007699 TATGCTGTAAATGATGTG-CCTTGGAGTTGAGCGTAGTCAAACTCGAAGGTTTTTGGTAGACAAC
1 TATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGAAGATAAC
* * *
2007763 CCTTCTAGCCTTGAGC
66 CCTTCTCGACTTAAGC
* * * * * * *
2007779 TAT-ATCGTAAATGATATGCCGTTG-AGCTGAGTGTAATCGAACTCAAAGGTTTTTGTTGGAAGA
1 TATGCT-GCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGG--TCT-TTGGAAGA
* * *
2007842 TAACCCTTCTTGACTTGAGT
62 TAACCCTTCTCGACTTAAGC
* * * *
2007862 TATGCTGCAAATGATGTTCCCTCGACGCTGAGTGTAATCGAACTCGAGGGTCTTTGGAAGATAGC
1 TATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGAAGATAAC
2007927 CCTTCTCGACTTAAGC
66 CCTTCTCGACTTAAGC
* ** * * * * * * *
2007943 TATGCTGTAAATGACATGCCGTAG-AGCTGAGCGTAGTTGAACTTGAAGGTCTTTGGTTGGCAGA
1 TATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTC--T--TTGGAAGA
* *
2008007 TAACCCTTCTCGACCTAAGT
62 TAACCCTTCTCGACTTAAGC
* * * * * * * **
2008027 TATGCTACAAATGATAT-ACCTTGGAGCTGAGCGTAGTCGAACTTAAAGGTCTTTTGGTGACAGA
1 TATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTC-TTT-G-GA-AGA
* * * *
2008091 TAACCCTTCTAGCCTTGAGT
62 TAACCCTTCTCGACTTAAGC
* * * * * * * *
2008111 TATACTGTAAATGATGTGTCCTCGAAGCTGACTATAATCAAACTCGAGGGTCTTTGGCAA-ATAG
1 TATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGG-AAGATAA
*
2008175 CCCTTCTTGACTTAAGC
65 CCCTTCTCGACTTAAGC
* * * ** * * *
2008192 TATGTTGCAAATGATGTG-CCTTGGAGCTGAGCATATTCGAACTCGAAGGTATTTGTTGGTAGAT
1 TATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGG--TCT-TTGGAAGAT
* * *
2008256 AACCCTTCTTGACTTGAGT
63 AACCCTTCTCGACTTAAGC
* * *
2008275 TATGCTGCAAATGATGTGCCCTCAAAGCTGAGTGTAATCGAACTCGAATGTCTTT-GACAGATAG
1 TATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGA-AGATAA
2008339 CCCTTCTCGACTTAAGC
65 CCCTTCTCGACTTAAGC
* * * * * **
2008356 TATGCTGCAAATGATGTG-CCTTGGAGCTAAGCGTAGTTAAACTCGAAGGTCTTTGGTGACAGAT
1 TATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTT-G-GA-AGAT
* * * *
2008420 AACCCTTCTAGCCTTGAGT
63 AACCCTTCTCGACTTAAGC
* * * * * * *
2008439 TATGCTGTAAATTATGTGCCCCCAAATCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGC
1 TATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGAAGATAAC
2008504 CCTTCTCGACTTAAGC
66 CCTTCTCGACTTAAGC
* * * * * * * *
2008520 TATGATGCAAATGATATG-CCTTGGATCTGAGCGTAGTCGAACTCGAAGGTCTTTATTGGCAGAT
1 TATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTC--T-TTGGAAGAT
* * *
2008584 AACCCTTCTTGACTTGAGT
63 AACCCTTCTCGACTTAAGC
* * * *
2008603 TATGCTACAAATGATGTGCCCTCGAAGCTGAGTGTAATCAAACTCGAAGGTCTTTGGCAGATAGC
1 TATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGAAGATAAC
*
2008668 CCTTCTCAACTTAAGC
66 CCTTCTCGACTTAAGC
* *
2008684 TATACTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGA
1 TATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGAAGATA-A
2008749 -CCTTCTCGACTTAAGC
65 CCCTTCTCGACTTAAGC
* * * * * *
2008765 TATGCTGCAAATGATGTGCCCTTGAAGCTGAGTGTAATCAAACTTGAATGTCTTTGGCATATAAC
1 TATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGAAGATAAC
*
2008830 TCTTCTCGACTTAAGC
66 CCTTCTCGACTTAAGC
2008846 TATGCTGCAAATGATGTGCC
1 TATGCTGCAAATGATGTGCC
2008866 TTTAAAAAAT
Statistics
Matches: 877, Mismatches: 177, Indels: 65
0.78 0.16 0.06
Matches are distributed among these distances:
79 1 0.00
80 135 0.15
81 340 0.39
82 17 0.02
83 163 0.19
84 198 0.23
85 23 0.03
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (81 bp):
TATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGAAGATAAC
CCTTCTCGACTTAAGC
Found at i:2007955 original size:164 final size:161
Alignment explanation
Indices: 2007699--2008867 Score: 1107
Period size: 164 Copynumber: 7.1 Consensus size: 161
2007689 TGCCTTGAGG
* * * * * *
2007699 TATGCTGTAAATGATGTGCCTTGGAGTTGAGCGTAGTCAAACTCGAAGGTTTTTGGTAGACAACC
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGAAGATAACC
* * * * *
2007764 CTTCTAGCCTTGAGCTATAT-C-GTAAATGATATGCCGTTGAGCTGAGTGTAATCGAACTCAAAG
66 CTTCTAGACTTGAG-T-TATGCTGTAAATGATGTGCCCTAGAGCTGAGTGTAATCGAACTCGAAG
* * * * *
2007827 GTTTTTGTTGGAAGATAACCCTTCTTGACTTGAGT
129 G-TTCT-TTGGAAGATAGCCCTTCTCGACTTAAGC
* * * * * * *
2007862 TATGCTGCAAATGATGTTCCCTCGACGCTGAGTGTAATCGAACTCGAGGGTCTTTGGAAGATAGC
1 TATGCTGCAAATGATGTGCCTTGGA-GCTGAGCGTAGTCGAACTCGAAGGTCTTTGGAAGATAAC
* * * ** * * * * *
2007927 CCTTCTCGACTTAAGCTATGCTGTAAATGACATGCCGTAGAGCTGAGCGTAGTTGAACTTGAAGG
65 CCTTCTAGACTTGAGTTATGCTGTAAATGATGTGCCCTAGAGCTGAGTGTAATCGAACTCGAAGG
* * * * *
2007992 TCTTTGGTTGGCAGATAACCCTTCTCGACCTAAGT
130 T-TCT--TTGGAAGATAGCCCTTCTCGACTTAAGC
* * * **
2008027 TATGCTACAAATGATATACCTTGGAGCTGAGCGTAGTCGAACTTAAAGGTCTTTTGGTGACAGAT
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTT-G-GA-AGAT
* * * * * * *
2008092 AACCCTTCTAGCCTTGAGTTATACTGTAAATGATGTGTCCTCGAAGCTGACTATAATCAAACTCG
62 AACCCTTCTAGACTTGAGTTATGCTGTAAATGATGTGCCCTAG-AGCTGAGTGTAATCGAACTCG
* *
2008157 -AGGGTCTTTGGCAA-ATAGCCCTTCTTGACTTAAGC
126 AAGGTTCTTTGG-AAGATAGCCCTTCTCGACTTAAGC
* * * * *
2008192 TATGTTGCAAATGATGTGCCTTGGAGCTGAGCATATTCGAACTCGAAGGTATTTGTTGGTAGATA
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGG--TCT-TTGGAAGATA
* * *
2008257 ACCCTTCTTGACTTGAGTTATGCTGCAAATGATGTGCCCTCAAAGCTGAGTGTAATCGAACTCGA
63 ACCCTTCTAGACTTGAGTTATGCTGTAAATGATGTGCCCT-AGAGCTGAGTGTAATCGAACTCGA
*
2008322 ATG-TCTTT-GACAGATAGCCCTTCTCGACTTAAGC
127 AGGTTCTTTGGA-AGATAGCCCTTCTCGACTTAAGC
* **
2008356 TATGCTGCAAATGATGTGCCTTGGAGCTAAGCGTAGTTAAACTCGAAGGTCTTTGGTGACAGATA
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTT-G-GA-AGATA
* * * * *
2008421 ACCCTTCTAGCCTTGAGTTATGCTGTAAATTATGTGCCCCCAAATCTGAGTGTAATCGAACTCGA
63 ACCCTTCTAGACTTGAGTTATGCTGTAAATGATGTG-CCCTAGAGCTGAGTGTAATCGAACTCGA
*
2008486 AGG-TCTTTGGCAGATAGCCCTTCTCGACTTAAGC
127 AGGTTCTTTGGAAGATAGCCCTTCTCGACTTAAGC
* * * *
2008520 TATGATGCAAATGATATGCCTTGGATCTGAGCGTAGTCGAACTCGAAGGTCTTTATTGGCAGATA
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC--T-TTGGAAGATA
* ** * *
2008585 ACCCTTCTTGACTTGAGTTATGCTACAAATGATGTGCCCTCGAAGCTGAGTGTAATCAAACTCGA
63 ACCCTTCTAGACTTGAGTTATGCTGTAAATGATGTGCCCTAG-AGCTGAGTGTAATCGAACTCGA
* *
2008650 AGG-TCTTTGGCAGATAGCCCTTCTCAACTTAAGC
127 AGGTTCTTTGGAAGATAGCCCTTCTCGACTTAAGC
* * * * * *
2008684 TATACTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGA
1 TATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGAAGATA-A
* * * * * * *
2008749 -CCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCCTTGAAGCTGAGTGTAATCAAACTTGAA
64 CCCTTCTAGACTTGAGTTATGCTGTAAATGATGTGCCCTAG-AGCTGAGTGTAATCGAACTCGAA
* * * * *
2008813 TG-TCTTTGGCATATAACTCTTCTCGACTTAAGC
128 GGTTCTTTGGAAGATAGCCCTTCTCGACTTAAGC
2008846 TATGCTGCAAATGATGTGCCTT
1 TATGCTGCAAATGATGTGCCTT
2008868 TAAAAAATGG
Statistics
Matches: 837, Mismatches: 140, Indels: 60
0.81 0.14 0.06
Matches are distributed among these distances:
161 5 0.01
162 120 0.14
163 31 0.04
164 467 0.56
165 146 0.17
166 6 0.01
167 9 0.01
168 39 0.05
169 14 0.02
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (161 bp):
TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGAAGATAACC
CTTCTAGACTTGAGTTATGCTGTAAATGATGTGCCCTAGAGCTGAGTGTAATCGAACTCGAAGGT
TCTTTGGAAGATAGCCCTTCTCGACTTAAGC
Found at i:2008493 original size:328 final size:326
Alignment explanation
Indices: 2007671--2008867 Score: 1291
Period size: 328 Copynumber: 3.7 Consensus size: 326
2007661 GATAATTTTA
* * * * * * * *
2007671 TTGACAGATAGACCTTTTTGCCTTGAGGTATGCTGTAAATGATGTGCCTTGGAGTTGAGCGTAGT
1 TTGACAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
* * *
2007736 CAAACTCGAAGGTTTTTGGT--AGACAACCCTTCTAGCCTTGAGCTATAT-C-GTAAATGATATG
66 CAAACTCGAAGGTCTTTGGTGCAGATAACCCTTCTAGCCTTGAG-T-TATGCTGTAAATGATGTG
* * * * * * * *
2007797 CCGTTG-AGCTGAGTGTAATCGAACTCAAAGGTTTTTGTTGGAAGATAACCCTTCTTGACTTGAG
129 CCCTCGAAGCTGAGTGTAATCAAACTCGAAGGTCTTTG--GCAA-ATAACCCTTCTCGACTTAAG
* * * * * * *
2007861 TTATGCTGCAAATGATGTTCCCTCGACGCTGAGTGTAATCGAACTCG-AGG-GTCTTTGGAAGAT
191 CTATGCTGCAAATGATGTGCCTTGGA-GCTGAGCGTAATCGAACTCGAAGGTATTTTTGGAAGAT
* * * * * ** * * * * * *
2007924 AGCCCTTCTCGACTTAAGCTATGCTGTAAATGACATGCCGT-AGAGCTGAGCGTAGTTGAACTTG
255 AACCCTTCTTGACTTGAGTTATGCTGCAAATGATGTGCCCTCAAAGCTGAGTGTAATCGAACTCG
2007988 AAGGTCTTT
320 AAGGTC--T
* * * * * * *
2007997 GGTTGGCAGATAACCCTTCTCGACCTAAGTTATGCTACAAATGATATACCTTGGAGCTGAGCGTA
1 --TTGACAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTA
* ** *
2008062 GTCGAACTTAAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATG
64 GTCAAACTCGAAGGTC-TTTGGTG-CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATG
* * * * * *
2008127 TGTCCTCGAAGCTGACTATAATCAAACTCGAGGGTCTTTGGCAAATAGCCCTTCTTGACTTAAGC
127 TGCCCTCGAAGCTGAGTGTAATCAAACTCGAAGGTCTTTGGCAAATAACCCTTCTCGACTTAAGC
* * * *
2008192 TATGTTGCAAATGATGTGCCTTGGAGCTGAGCATATTCGAACTCGAAGGTATTTGTTGGTAGATA
192 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAATCGAACTCGAAGGTATTT-TTGGAAGATA
2008257 ACCCTTCTTGACTTGAGTTATGCTGCAAATGATGTGCCCTCAAAGCTGAGTGTAATCGAACTCGA
256 ACCCTTCTTGACTTGAGTTATGCTGCAAATGATGTGCCCTCAAAGCTGAGTGTAATCGAACTCGA
*
2008322 ATGTCT
321 AGGTCT
*
2008328 TTGACAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTAAGCGTAGT
1 TTGACAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
* *
2008393 TAAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATTATGTGC
66 CAAACTCGAAGGTCTTTGGTG-CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGC
* * * * * *
2008458 CCCCAAATCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTAT
130 CCTCGAAGCTGAGTGTAATCAAACTCGAAGGTCTTTGGCAAATAACCCTTCTCGACTTAAGCTAT
* * * * * *
2008523 GATGCAAATGATATGCCTTGGATCTGAGCGTAGTCGAACTCGAAGGTCTTTATTGGCAGATAACC
195 GCTGCAAATGATGTGCCTTGGAGCTGAGCGTAATCGAACTCGAAGGTATTT-TTGGAAGATAACC
* * *
2008588 CTTCTTGACTTGAGTTATGCTACAAATGATGTGCCCTCGAAGCTGAGTGTAATCAAACTCGAAGG
259 CTTCTTGACTTGAGTTATGCTGCAAATGATGTGCCCTCAAAGCTGAGTGTAATCGAACTCGAAGG
2008653 TCT
324 TCT
* * * * * * *
2008656 TTGGCAGATAGCCCTTCTCAACTTAAGCTATACTGCAAATGATGTGCCCTCGAAGCTGAGTGTAA
1 TTGACAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAG
* * * * * *
2008721 TCGAACTCGAAGGTCTTT-G-GCAGATAGA-CCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
65 TCAAACTCGAAGGTCTTTGGTGCAGATA-ACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTG
* * * * *
2008783 CCCTTGAAGCTGAGTGTAATCAAACTTGAATGTCTTTGGCATATAACTCTTCTCGACTTAAGCTA
129 CCCTCGAAGCTGAGTGTAATCAAACTCGAAGGTCTTTGGCAAATAACCCTTCTCGACTTAAGCTA
2008848 TGCTGCAAATGATGTGCCTT
194 TGCTGCAAATGATGTGCCTT
2008868 TAAAAAATGG
Statistics
Matches: 735, Mismatches: 121, Indels: 28
0.83 0.14 0.03
Matches are distributed among these distances:
326 107 0.15
327 2 0.00
328 330 0.45
329 119 0.16
330 45 0.06
331 8 0.01
332 76 0.10
333 48 0.07
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (326 bp):
TTGACAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
CAAACTCGAAGGTCTTTGGTGCAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCC
CTCGAAGCTGAGTGTAATCAAACTCGAAGGTCTTTGGCAAATAACCCTTCTCGACTTAAGCTATG
CTGCAAATGATGTGCCTTGGAGCTGAGCGTAATCGAACTCGAAGGTATTTTTGGAAGATAACCCT
TCTTGACTTGAGTTATGCTGCAAATGATGTGCCCTCAAAGCTGAGTGTAATCGAACTCGAAGGTC
T
Found at i:2008531 original size:245 final size:242
Alignment explanation
Indices: 2007738--2008867 Score: 926
Period size: 245 Copynumber: 4.6 Consensus size: 242
2007728 AGCGTAGTCA
* * * * * * * * * * *
2007738 AACTCGAAGGTTTTTGGTAGACAACCCTTCTAGCCTTGAGCTAT-ATCGTAAATGATATGCCGTT
1 AACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCT-GCAAATGATGTGCCCTT
* * * * * * *
2007802 G-AGCTGAGTGTAATCGAACTCAAAGGTTTTTGTTGGAAGATAACCCTTCTTGACTTGAGTTATG
65 GAAGCTGAGTGTAATCGAACTCGAA--TGTCT-TTGGCAGATAACCCTTCTCGACTTAAGCTATG
* * * * * * * * *
2007866 CTGCAAATGATGTTCCCTCGACGCTGAGTGTAATCGAACTCGAGGGTCTTTGGAAGATAGCCCTT
127 CTGCAAATGATG-TGCCTTGAAGCTAAGCGTAATCAAACTCGAAGGTCTTTGGCAGATAACCCTT
* * * ** ** * * * *
2007931 CTCGACTTAAGCTATGCTGTAAATGACATG-CCGTAGAGCTGAGCGTAGTTG
191 CTCAACTTAAGCTATACTGCAAATGATGTGCCCCCAAAGCTGAGTGTAATCG
* * * * * * *
2007982 AACTTGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACCTAAGTTATGCTACAAATGATAT-AC
1 AACTCGAAGGTC--T--TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCC
* * * ** * * * * *
2008046 CTTGGAGCTGAGCGTAGTCGAACTTAAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGT
62 CTTGAAGCTGAGTGTAATCGAACTCGAATGTC-TTT-G-G-CAGATAACCCTTCTCGACTTAAGC
* * * * * * * *
2008111 TATACTGTAAATGATGTGTCCTCGAAGCTGA-CTATAATCAAACTCGAGGGTCTTTGGCAAATAG
123 TATGCTGCAAATGATGTG-CCTTGAAGCTAAGC-GTAATCAAACTCGAAGGTCTTTGGCAGATAA
** ** **** ** *
2008175 CCCTTCTTGACTTAAGCTATGTTGCAAATGATGTG-CCTTGGAGCTGAGCATATTCG
186 CCCTTCTCAACTTAAGCTATACTGCAAATGATGTGCCCCCAAAGCTGAGTGTAATCG
* * * * * *
2008231 AACTCGAAGGTATTTGTTGGTAGATAACCCTTCTTGACTTGAGTTATGCTGCAAATGATGTGCCC
1 AACTCGAAGG--TCT-TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCC
** * *
2008296 TCAAAGCTGAGTGTAATCGAACTCGAATGTCTTTGACAGATAGCCCTTCTCGACTTAAGCTATGC
63 TTGAAGCTGAGTGTAATCGAACTCGAATGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGC
* * *
2008361 TGCAAATGATGTGCCTTGGAGCTAAGCGTAGTTAAACTCGAAGGTCTTTGGTGACAGATAACCCT
128 TGCAAATGATGTGCCTTGAAGCTAAGCGTAATCAAACTCGAAGGTCTTT-G-G-CAGATAACCCT
* * * * * * *
2008426 TCT-AGCCTTGAGTTATGCTGTAAATTATGTGCCCCCAAATCTGAGTGTAATCG
190 TCTCA-ACTTAAGCTATACTGCAAATGATGTGCCCCCAAAGCTGAGTGTAATCG
* *
2008479 AACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGATGCAAATGATATG-CCTTG
1 AACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCCTTG
* * * * * * * *
2008543 GATCTGAGCGTAGTCGAACTCGAAGGTCTTTATTGGCAGATAACCCTTCTTGACTTGAGTTATGC
66 AAGCTGAGTGTAATCGAACTCGAATGTC--T-TTGGCAGATAACCCTTCTCGACTTAAGCTATGC
* * * * *
2008608 TACAAATGATGTGCCCTCGAAGCTGAGTGTAATCAAACTCGAAGGTCTTTGGCAGATAGCCCTTC
128 TGCAAATGATGTG-CCTTGAAGCTAAGCGTAATCAAACTCGAAGGTCTTTGGCAGATAACCCTTC
* *
2008673 TCAACTTAAGCTATACTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCG
192 TCAACTTAAGCTATACTGCAAATGATGTGCCCCCAAAGCTGAGTGTAATCG
*
2008724 AACTCGAAGGTCTTTGGCAGATAGACCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCCTTG
1 AACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCCTTG
* * * *
2008789 AAGCTGAGTGTAATCAAACTTGAATGTCTTTGGCATATAACTCTTCTCGACTTAAGCTATGCTGC
66 AAGCTGAGTGTAATCGAACTCGAATGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGC
2008854 AAATGATGTGCCTT
131 AAATGATGTGCCTT
2008868 TAAAAAATGG
Statistics
Matches: 714, Mismatches: 145, Indels: 56
0.78 0.16 0.06
Matches are distributed among these distances:
242 3 0.00
243 40 0.06
244 64 0.09
245 184 0.26
246 36 0.05
247 80 0.11
248 151 0.21
249 155 0.22
251 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (242 bp):
AACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCCTTG
AAGCTGAGTGTAATCGAACTCGAATGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGC
AAATGATGTGCCTTGAAGCTAAGCGTAATCAAACTCGAAGGTCTTTGGCAGATAACCCTTCTCAA
CTTAAGCTATACTGCAAATGATGTGCCCCCAAAGCTGAGTGTAATCG
Found at i:2013945 original size:6 final size:6
Alignment explanation
Indices: 2013929--2013964 Score: 54
Period size: 6 Copynumber: 5.7 Consensus size: 6
2013919 CTTAGTTGCA
2013929 AAAATTT AAAATT AAAATT AAAATT AAAATTT AAAA
1 AAAA-TT AAAATT AAAATT AAAATT AAAA-TT AAAA
2013965 GCATTTGATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 18 0.64
7 10 0.36
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AAAATT
Found at i:2013951 original size:12 final size:13
Alignment explanation
Indices: 2013929--2013964 Score: 65
Period size: 12 Copynumber: 2.8 Consensus size: 13
2013919 CTTAGTTGCA
2013929 AAAATTTAAAATT
1 AAAATTTAAAATT
2013942 AAAA-TTAAAATT
1 AAAATTTAAAATT
2013954 AAAATTTAAAA
1 AAAATTTAAAA
2013965 GCATTTGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 12 0.55
13 10 0.45
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
AAAATTTAAAATT
Found at i:2014111 original size:22 final size:22
Alignment explanation
Indices: 2014086--2014131 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
2014076 AAAAGTAATG
2014086 AAAAATAAATAAAACAGAA-AAT
1 AAAAATAAATAAAA-AGAAGAAT
* *
2014108 AAAATTTAATAAAAAGAAGAAT
1 AAAAATAAATAAAAAGAAGAAT
2014130 AA
1 AA
2014132 TAAAAAAGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.74, C:0.02, G:0.07, T:0.17
Consensus pattern (22 bp):
AAAAATAAATAAAAAGAAGAAT
Found at i:2014190 original size:26 final size:25
Alignment explanation
Indices: 2014151--2014206 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
2014141 TTAAATATTA
** * *
2014151 AAAAATAAGGAAATAAATATTAATAT
1 AAAAATAAAAAAATAAAGATGAA-AT
2014177 AAAAATAAAAAAATAAAGATGAAAT
1 AAAAATAAAAAAATAAAGATGAAAT
2014202 AAAAA
1 AAAAA
2014207 AGGGATCAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
25 7 0.27
26 19 0.73
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (25 bp):
AAAAATAAAAAAATAAAGATGAAAT
Found at i:2015087 original size:25 final size:25
Alignment explanation
Indices: 2015053--2015113 Score: 122
Period size: 25 Copynumber: 2.4 Consensus size: 25
2015043 ACCGATTGTT
2015053 TGTGGGTTCTCTCGTTTGAATCCTC
1 TGTGGGTTCTCTCGTTTGAATCCTC
2015078 TGTGGGTTCTCTCGTTTGAATCCTC
1 TGTGGGTTCTCTCGTTTGAATCCTC
2015103 TGTGGGTTCTC
1 TGTGGGTTCTC
2015114 GATGATGGCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.07, C:0.23, G:0.26, T:0.44
Consensus pattern (25 bp):
TGTGGGTTCTCTCGTTTGAATCCTC
Found at i:2015637 original size:36 final size:35
Alignment explanation
Indices: 2015597--2015774 Score: 110
Period size: 36 Copynumber: 5.1 Consensus size: 35
2015587 TCCAAAAATC
2015597 TATATAATATATATTTTCAAAAGTATTTTAAAATTA
1 TATATAATATATATTTTCAAAAGT-TTTTAAAATTA
* *
2015633 TATATATTATA-ATTTAT-AAAATGTTTTCAAAATTA
1 TATATAATATATATTT-TCAAAA-GTTTTTAAAATTA
* *
2015668 TATAGT--T-T-TA----AAAAATGTTTTTAAAACTA
1 TATA-TAATATATATTTTCAAAA-GTTTTTAAAATTA
* * *
2015697 TATATTATATA-AGTTTTCAAAATGATTTCAAAATTA
1 TATATAATATATA-TTTTCAAAA-GTTTTTAAAATTA
*
2015733 TATA-ATATATATGTTTTCAAAATGTTTTTAAAAATTA
1 TATATA-ATATATATTTTCAAAA-GTTTTT-AAAATTA
2015770 TATAT
1 TATAT
2015775 TTTTCAAAAT
Statistics
Matches: 112, Mismatches: 12, Indels: 34
0.71 0.08 0.22
Matches are distributed among these distances:
28 1 0.01
29 20 0.18
30 1 0.01
31 2 0.02
33 2 0.02
34 1 0.01
35 22 0.20
36 52 0.46
37 11 0.10
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.47
Consensus pattern (35 bp):
TATATAATATATATTTTCAAAAGTTTTTAAAATTA
Found at i:2015682 original size:29 final size:29
Alignment explanation
Indices: 2015645--2015700 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
2015635 TATATTATAA
* *
2015645 TTTATAAAATGTTTTCAAAATTATATAGT
1 TTTAAAAAATGTTTTCAAAACTATATAGT
*
2015674 TTTAAAAAATGTTTTTAAAACTATATA
1 TTTAAAAAATGTTTTCAAAACTATATA
2015701 TTATATAAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (29 bp):
TTTAAAAAATGTTTTCAAAACTATATAGT
Found at i:2015714 original size:100 final size:102
Alignment explanation
Indices: 2015590--2015861 Score: 281
Period size: 102 Copynumber: 2.7 Consensus size: 102
2015580 ATTATTTTCC
* *
2015590 AAAAATCTATATAATATAT-A-TTTTCAAAA-GTATTTTAAAATTATAT-ATATTATAAT-TTAT
1 AAAAAACTATATAATATATAAGTTTTCAAAATG-ATTTCAAAATTATATAATA-TAT-ATGTTAT
*
2015650 -AAAATG-TTTTCAAAATTATATAGTTTTAAAAAATGTT-T
63 CAAAATGTTTTTAAAAATTATATA-TTTTAAAAAATGTTCT
** * *
2015688 TTAAAACTATATATTATATAAGTTTTCAAAATGATTTCAAAATTATATAATATATATGTTTTCAA
1 AAAAAACTATATAATATATAAGTTTTCAAAATGATTTCAAAATTATATAATATATATGTTATCAA
**
2015753 AATGTTTTTAAAAATTATATATTTTTCAAAATGTTCT
66 AATGTTTTTAAAAATTATATATTTTAAAAAATGTTCT
* * * *
2015790 AAAAAACTATATAATATATAAATGTTTTCAAACATGTTTTACAAACTATATATTATATATATATT
1 AAAAAACTATATAATATAT-AA-GTTTTCAAA-ATGATTT-CAAAAT-TATATAATATATATGTT
*
2015855 TTCAAAA
61 ATCAAAA
2015862 ACCATTTGCA
Statistics
Matches: 145, Mismatches: 16, Indels: 17
0.81 0.09 0.10
Matches are distributed among these distances:
98 15 0.10
99 3 0.02
100 29 0.20
101 22 0.15
102 32 0.22
103 2 0.01
104 9 0.06
105 6 0.04
106 5 0.03
107 22 0.15
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.45
Consensus pattern (102 bp):
AAAAAACTATATAATATATAAGTTTTCAAAATGATTTCAAAATTATATAATATATATGTTATCAA
AATGTTTTTAAAAATTATATATTTTAAAAAATGTTCT
Found at i:2015783 original size:29 final size:30
Alignment explanation
Indices: 2015738--2015802 Score: 96
Period size: 29 Copynumber: 2.2 Consensus size: 30
2015728 AATTATATAA
* * *
2015738 TATATATGTTTTCAAAATGTTTTTAAAAAT
1 TATATATGTTTTCAAAATGTTCTAAAAAAC
2015768 TATATAT-TTTTCAAAATGTTCTAAAAAAC
1 TATATATGTTTTCAAAATGTTCTAAAAAAC
2015797 TATATA
1 TATATA
2015803 ATATATAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 25 0.78
30 7 0.22
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.46
Consensus pattern (30 bp):
TATATATGTTTTCAAAATGTTCTAAAAAAC
Found at i:2015801 original size:66 final size:66
Alignment explanation
Indices: 2015700--2015843 Score: 177
Period size: 68 Copynumber: 2.2 Consensus size: 66
2015690 AAAACTATAT
* * *
2015700 ATTATATAAGTTTTCAAAATGATTTCAAAATTATATAATATAT-ATGTTTTCAAA-ATGTTTTTA
1 ATTATAT-ATTTTTCAAAATGATTTAAAAACTATATAATATATAATGTTTTCAAACATG-TTTTA
2015763 AAA
64 AAA
2015766 ATTATATATTTTTCAAAATG-TTCTAAAAAACTATATAATATATAAATGTTTTCAAACATGTTTT
1 ATTATATATTTTTCAAAATGATT-T-AAAAACTATATAATATAT-AATGTTTTCAAACATGTTTT
*
2015830 ACAA
63 AAAA
*
2015834 ACTATATATT
1 ATTATATATT
2015844 ATATATATAT
Statistics
Matches: 68, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
64 2 0.03
65 13 0.19
66 23 0.34
68 27 0.40
69 3 0.04
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (66 bp):
ATTATATATTTTTCAAAATGATTTAAAAACTATATAATATATAATGTTTTCAAACATGTTTTAAA
A
Found at i:2015819 original size:39 final size:38
Alignment explanation
Indices: 2015775--2015861 Score: 111
Period size: 39 Copynumber: 2.2 Consensus size: 38
2015765 AATTATATAT
*
2015775 TTTTCAAAATGTTCTAAAAAACTATATAATATATAAATG
1 TTTTCAAAATGTT-TAAAAAACTATATAATATATAAATA
* * * *
2015814 TTTTCAAACATGTTTTACAAACTATATATTATATATATA
1 TTTTCAAA-ATGTTTAAAAAACTATATAATATATAAATA
2015853 TTTTCAAAA
1 TTTTCAAAA
2015862 ACCATTTGCA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
38 1 0.02
39 36 0.86
40 5 0.12
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.43
Consensus pattern (38 bp):
TTTTCAAAATGTTTAAAAAACTATATAATATATAAATA
Found at i:2015874 original size:39 final size:39
Alignment explanation
Indices: 2015793--2015887 Score: 118
Period size: 39 Copynumber: 2.4 Consensus size: 39
2015783 ATGTTCTAAA
* * ***
2015793 AAACTATATAATATATAAATGTTTTCAAACATGTTTTAC
1 AAACTATATAATATATAAATATTTTCAAAAACCATTTAC
* * *
2015832 AAACTATATATTATATATATATTTTCAAAAACCATTTGC
1 AAACTATATAATATATAAATATTTTCAAAAACCATTTAC
2015871 AAACTATATAATATATA
1 AAACTATATAATATATA
2015888 GACGTATATG
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.46, C:0.11, G:0.03, T:0.40
Consensus pattern (39 bp):
AAACTATATAATATATAAATATTTTCAAAAACCATTTAC
Found at i:2017417 original size:12 final size:12
Alignment explanation
Indices: 2017400--2017433 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
2017390 AAATTTATAA
2017400 ATTAAAAAAATT
1 ATTAAAAAAATT
2017412 ATTAAAAAAATT
1 ATTAAAAAAATT
*
2017424 -TAAAAAAAAT
1 ATTAAAAAAAT
2017434 AAAATATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (12 bp):
ATTAAAAAAATT
Found at i:2018014 original size:42 final size:41
Alignment explanation
Indices: 2017967--2018093 Score: 125
Period size: 42 Copynumber: 3.1 Consensus size: 41
2017957 AAAATTAAAT
2017967 TATTATAAATTGTATTAATTATTTATTAAAATAAGAATAATA
1 TATTATAAATT-TATTAATTATTTATTAAAATAAGAATAATA
* * *
2018009 TATTATTATTTATATTAATTATTTATTAAAATAATAAT-AT-
1 TATTATAAATT-TATTAATTATTTATTAAAATAAGAATAATA
** * * *
2018049 TATTA-AAATATTAAAAACTATACTATTAAAATAAGAATATTA
1 TATTATAAAT-TTATTAATTAT-TTATTAAAATAAGAATAATA
2018091 TAT
1 TAT
2018094 ATGGAAAACC
Statistics
Matches: 69, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
39 9 0.13
40 20 0.29
41 3 0.04
42 37 0.54
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (41 bp):
TATTATAAATTTATTAATTATTTATTAAAATAAGAATAATA
Found at i:2018224 original size:46 final size:46
Alignment explanation
Indices: 2018144--2018268 Score: 169
Period size: 46 Copynumber: 2.7 Consensus size: 46
2018134 TAGTCGGCAT
* * *
2018144 GAAAAGATGGCATAAATGAAAATGCATAACGGTGCATTATCGACAA
1 GAAAGGATGCCATAAATGAAAATGCATAACGGTGCATAATCGACAA
* * * *
2018190 GAAAGGATGTCATAAATGAAAATGCATAATGGTGCATAATCGGCAT
1 GAAAGGATGCCATAAATGAAAATGCATAACGGTGCATAATCGACAA
* *
2018236 GAAAGGATGCCACAAATGAAAATACATAACGGT
1 GAAAGGATGCCATAAATGAAAATGCATAACGGT
2018269 ATATTAACGG
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 69 1.00
ACGTcount: A:0.45, C:0.13, G:0.22, T:0.20
Consensus pattern (46 bp):
GAAAGGATGCCATAAATGAAAATGCATAACGGTGCATAATCGACAA
Found at i:2018280 original size:46 final size:46
Alignment explanation
Indices: 2018138--2018293 Score: 165
Period size: 46 Copynumber: 3.4 Consensus size: 46
2018128 TGTTATTAGT
* * * *
2018138 CGGCATGAAAAGATGGCATAAATGAAAATGCATAACGGTGCATTAT
1 CGGCATGAAAGGATGCCACAAATGAAAATGCATAACGGTGCATTAA
* * * * *
2018184 CGACAAGAAAGGATGTCATAAATGAAAATGCATAATGGTGCA-TAA
1 CGGCATGAAAGGATGCCACAAATGAAAATGCATAACGGTGCATTAA
* **
2018229 TCGGCATGAAAGGATGCCACAAATGAAAATACATAACGGTATATTAA
1 -CGGCATGAAAGGATGCCACAAATGAAAATGCATAACGGTGCATTAA
2018276 CGGCAT-ATAAGG-TGCCAC
1 CGGCATGA-AAGGATGCCAC
2018294 TCATGGTAAT
Statistics
Matches: 93, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
45 9 0.10
46 81 0.87
47 3 0.03
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.21
Consensus pattern (46 bp):
CGGCATGAAAGGATGCCACAAATGAAAATGCATAACGGTGCATTAA
Found at i:2022592 original size:15 final size:16
Alignment explanation
Indices: 2022574--2022606 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
2022564 AGAGTTAATA
*
2022574 TATATATATAT-ATTT
1 TATATACATATGATTT
2022589 TATATACATATGATTT
1 TATATACATATGATTT
2022605 TA
1 TA
2022607 ATTATCCCGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATACATATGATTT
Found at i:2028047 original size:45 final size:45
Alignment explanation
Indices: 2027986--2028096 Score: 158
Period size: 45 Copynumber: 2.5 Consensus size: 45
2027976 CCATTTAATA
*
2027986 ACCATAAGCTCATAAGCTTATTTTACCAAAATACTTACCATT-TGT
1 ACCATAAGCTCGTAAGCTTATTTTACCAAAATACTTACCATTAT-T
* *
2028031 ACCATAAGCTCGTAAGCTTATTTTATCAACATACTTACCATTATT
1 ACCATAAGCTCGTAAGCTTATTTTACCAAAATACTTACCATTATT
2028076 ---ATAAGCTCGTAAGCTTATTTT
1 ACCATAAGCTCGTAAGCTTATTTT
2028097 CATGCTTACC
Statistics
Matches: 62, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
42 21 0.34
45 40 0.65
46 1 0.02
ACGTcount: A:0.33, C:0.21, G:0.08, T:0.38
Consensus pattern (45 bp):
ACCATAAGCTCGTAAGCTTATTTTACCAAAATACTTACCATTATT
Found at i:2030746 original size:17 final size:17
Alignment explanation
Indices: 2030726--2030758 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2030716 TTGATCATCG
2030726 TTGACCGTCATTGACCA
1 TTGACCGTCATTGACCA
*
2030743 TTGACCGTCGTTGACC
1 TTGACCGTCATTGACC
2030759 GGACCGTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.30, G:0.21, T:0.30
Consensus pattern (17 bp):
TTGACCGTCATTGACCA
Found at i:2031647 original size:27 final size:26
Alignment explanation
Indices: 2031617--2031678 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
2031607 GAAATGATTG
*
2031617 AAATATCTTGGATCTGTAAAATGA-CCA
1 AAATATCTTGGA-ATG-AAAATGACCCA
*
2031644 AAATACCCTTGGAATGAAAATGACCCA
1 AAATA-TCTTGGAATGAAAATGACCCA
2031671 AGAATATC
1 A-AATATC
2031679 ACCAAGCCCA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
26 7 0.24
27 12 0.41
28 10 0.34
ACGTcount: A:0.44, C:0.18, G:0.15, T:0.24
Consensus pattern (26 bp):
AAATATCTTGGAATGAAAATGACCCA
Found at i:2032515 original size:20 final size:20
Alignment explanation
Indices: 2032488--2032535 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
2032478 TGGACCTAAG
2032488 GCGACCCTTGGATAGGCTCT
1 GCGACCCTTGGATAGGCTCT
*
2032508 GCGGCCCTTGGATAGGCTCT
1 GCGACCCTTGGATAGGCTCT
2032528 GCGACCCT
1 GCGACCCT
2032536 GAGATTTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.12, C:0.33, G:0.31, T:0.23
Consensus pattern (20 bp):
GCGACCCTTGGATAGGCTCT
Found at i:2034677 original size:22 final size:22
Alignment explanation
Indices: 2034649--2034697 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
2034639 AGCTACCTAG
*
2034649 CCGTTGATTGCCT-TTGATAGGA
1 CCGTTGATCG-CTATTGATAGGA
*
2034671 CCGTTGATCGTTATTGATAGGA
1 CCGTTGATCGCTATTGATAGGA
2034693 CCGTT
1 CCGTT
2034698 TACTTTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 1 0.04
22 23 0.96
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.37
Consensus pattern (22 bp):
CCGTTGATCGCTATTGATAGGA
Found at i:2037890 original size:31 final size:31
Alignment explanation
Indices: 2037855--2037920 Score: 132
Period size: 31 Copynumber: 2.1 Consensus size: 31
2037845 AATCTGCGTG
2037855 TTTTATTTTCCTCCATTAAGGGTTAAAGAGA
1 TTTTATTTTCCTCCATTAAGGGTTAAAGAGA
2037886 TTTTATTTTCCTCCATTAAGGGTTAAAGAGA
1 TTTTATTTTCCTCCATTAAGGGTTAAAGAGA
2037917 TTTT
1 TTTT
2037921 TAAAGAGGTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.27, C:0.12, G:0.15, T:0.45
Consensus pattern (31 bp):
TTTTATTTTCCTCCATTAAGGGTTAAAGAGA
Found at i:2038191 original size:14 final size:14
Alignment explanation
Indices: 2038169--2038201 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
2038159 AAAATTATCA
2038169 ATAAATATTATTTT
1 ATAAATATTATTTT
*
2038183 ATAATTATTATTTT
1 ATAAATATTATTTT
2038197 ATAAA
1 ATAAA
2038202 AATGATATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
ATAAATATTATTTT
Found at i:2039369 original size:22 final size:21
Alignment explanation
Indices: 2039316--2039365 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
2039306 CTTTTAAAAG
2039316 TTTTGCAGCAAAAATGACATT
1 TTTTGCAGCAAAAATGACATT
2039337 TTTTGCAGCAAAAATGACATT
1 TTTTGCAGCAAAAATGACATT
2039358 TTTTGCAG
1 TTTTGCAG
2039366 GCAACAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (21 bp):
TTTTGCAGCAAAAATGACATT
Found at i:2047161 original size:19 final size:18
Alignment explanation
Indices: 2047139--2047174 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
2047129 TTAAAGGCTA
*
2047139 TTTGTACTATTTCTCTCTC
1 TTTGTAATATTTC-CTCTC
2047158 TTTGTAATATTTCCTCT
1 TTTGTAATATTTCCTCT
2047175 ATTAGTGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.14, C:0.22, G:0.06, T:0.58
Consensus pattern (18 bp):
TTTGTAATATTTCCTCTC
Found at i:2054744 original size:31 final size:31
Alignment explanation
Indices: 2054692--2054768 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 31
2054682 CTAATGTAAC
* *
2054692 TCTTAGGTAGGCTCTGCGGCCCTGAGATCAT
1 TCTTAGGTAGGCCCTGCGGCCCTAAGATCAT
* * **
2054723 TCTTGGGTAGGCCCTGTGGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCTGCGGCCCTAAGAT-CAT
*
2054755 TCTTAGATAGGCCC
1 TCTTAGGTAGGCCC
2054769 CGTGGCCCCA
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
31 24 0.65
32 13 0.35
ACGTcount: A:0.16, C:0.25, G:0.30, T:0.30
Consensus pattern (31 bp):
TCTTAGGTAGGCCCTGCGGCCCTAAGATCAT
Found at i:2058820 original size:45 final size:45
Alignment explanation
Indices: 2058765--2059202 Score: 750
Period size: 45 Copynumber: 9.7 Consensus size: 45
2058755 TTATTTTATT
* * *
2058765 CTTTCATGCCTATAATACACTCATATGTATTATTATTTTGGCATC
1 CTTTCATGCCTATAATGCACCCATATGCATTATTATTTTGGCATC
* *
2058810 CTTTCATGCCTATAATGTACCCATATGCATTCTTATTTTGGCATC
1 CTTTCATGCCTATAATGCACCCATATGCATTATTATTTTGGCATC
* * *
2058855 CTTTTATGCCTATAATGCATCCATATGCATTATTATTTTGACATC
1 CTTTCATGCCTATAATGCACCCATATGCATTATTATTTTGGCATC
2058900 CTTTCATGCCTATAATGCACCCATATGCATTATTATTTTGGCATC
1 CTTTCATGCCTATAATGCACCCATATGCATTATTATTTTGGCATC
2058945 CTTTCATGCCTATAATGCACCCATATGCATTATTATTTTGGCATC
1 CTTTCATGCCTATAATGCACCCATATGCATTATTATTTTGGCATC
* *
2058990 ATTTCATGCCTATAATGCACCCATATGCATTCTTATTTTGGCATC
1 CTTTCATGCCTATAATGCACCCATATGCATTATTATTTTGGCATC
2059035 CTTTCATGCCTATAATGCACCCATATGCATTATTATTTTGGCATC
1 CTTTCATGCCTATAATGCACCCATATGCATTATTATTTTGGCATC
2059080 CTTTCATGCCTATAATGCACCCATATGCATTATTATTTTGGCATC
1 CTTTCATGCCTATAATGCACCCATATGCATTATTATTTTGGCATC
* *
2059125 CTTTCATGCCTATAATCCACCCATATGCATTATTATTTTCGCATC
1 CTTTCATGCCTATAATGCACCCATATGCATTATTATTTTGGCATC
* *
2059170 CTTTCATACATATAATGCACCCATATGCATTAT
1 CTTTCATGCCTATAATGCACCCATATGCATTAT
2059203 CAATTTGGTC
Statistics
Matches: 371, Mismatches: 22, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 371 1.00
ACGTcount: A:0.25, C:0.24, G:0.10, T:0.41
Consensus pattern (45 bp):
CTTTCATGCCTATAATGCACCCATATGCATTATTATTTTGGCATC
Found at i:2059210 original size:135 final size:134
Alignment explanation
Indices: 2058712--2059202 Score: 745
Period size: 135 Copynumber: 3.6 Consensus size: 134
2058702 ACTTTAGTTA
* ** *
2058712 TGGCATCCTTTCATGCCT-TAGTGCATCCTTTCATGCATTTTAGTTATTTT--ATTCTTTCATGC
1 TGGCATCCTTTCATGCCTATAATGCA-CCCAT-ATGCA--TTA-TTATTTTGCATCCTTTCATGC
* * * *
2058774 CTATAATACACTCATATGTATTATTATTTTGGCATCCTTTCATGCCTATAATGTACCCATATGCA
61 CTATAATGCACCCATATGCATTATTATTTTGGCATCCTTTCATGCCTATAATGCACCCATATGCA
*
2058839 TTCTTATTT
126 TTATTATTT
* *
2058848 TGGCATCCTTTTATGCCTATAATGCATCCATATGCATTATTATTTTGACATCCTTTCATGCCTAT
1 TGGCATCCTTTCATGCCTATAATGCACCCATATGCATTATTATTTTG-CATCCTTTCATGCCTAT
2058913 AATGCACCCATATGCATTATTATTTTGGCATCCTTTCATGCCTATAATGCACCCATATGCATTAT
65 AATGCACCCATATGCATTATTATTTTGGCATCCTTTCATGCCTATAATGCACCCATATGCATTAT
2058978 TATTT
130 TATTT
* *
2058983 TGGCATCATTTCATGCCTATAATGCACCCATATGCATTCTTATTTTGGCATCCTTTCATGCCTAT
1 TGGCATCCTTTCATGCCTATAATGCACCCATATGCATTATTATTTT-GCATCCTTTCATGCCTAT
2059048 AATGCACCCATATGCATTATTATTTTGGCATCCTTTCATGCCTATAATGCACCCATATGCATTAT
65 AATGCACCCATATGCATTATTATTTTGGCATCCTTTCATGCCTATAATGCACCCATATGCATTAT
2059113 TATTT
130 TATTT
* * *
2059118 TGGCATCCTTTCATGCCTATAATCCACCCATATGCATTATTATTTTCGCATCCTTTCATACATAT
1 TGGCATCCTTTCATGCCTATAATGCACCCATATGCATTATTATTTT-GCATCCTTTCATGCCTAT
2059183 AATGCACCCATATGCATTAT
65 AATGCACCCATATGCATTAT
2059203 CAATTTGGTC
Statistics
Matches: 329, Mismatches: 21, Indels: 11
0.91 0.06 0.03
Matches are distributed among these distances:
132 7 0.02
133 3 0.01
135 293 0.89
136 20 0.06
137 6 0.02
ACGTcount: A:0.24, C:0.24, G:0.10, T:0.42
Consensus pattern (134 bp):
TGGCATCCTTTCATGCCTATAATGCACCCATATGCATTATTATTTTGCATCCTTTCATGCCTATA
ATGCACCCATATGCATTATTATTTTGGCATCCTTTCATGCCTATAATGCACCCATATGCATTATT
ATTT
Found at i:2060441 original size:21 final size:21
Alignment explanation
Indices: 2060393--2060494 Score: 134
Period size: 21 Copynumber: 4.8 Consensus size: 21
2060383 ACATATAATT
* *
2060393 TGTCCCGAAGGACCACGTAGAAA
1 TGTCCCGAAGGACCAC--ATATA
2060416 TGTCCCGAAGGACCACATATA
1 TGTCCCGAAGGACCACATATA
*
2060437 TGTCCTGAAGGACCACATATA
1 TGTCCCGAAGGACCACATATA
*
2060458 TATCCCGAAGGACCACAT-TGA
1 TGTCCCGAAGGACCACATAT-A
2060479 TGTCCCGAAGGACCAC
1 TGTCCCGAAGGACCAC
2060495 TCCTTAAGGA
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
20 1 0.01
21 55 0.76
23 16 0.22
ACGTcount: A:0.32, C:0.28, G:0.22, T:0.18
Consensus pattern (21 bp):
TGTCCCGAAGGACCACATATA
Found at i:2060543 original size:56 final size:56
Alignment explanation
Indices: 2060439--2060550 Score: 136
Period size: 56 Copynumber: 2.0 Consensus size: 56
2060429 CACATATATG
* * * *
2060439 TCCTGAAGGACCACATATATATCCCGAAGGACCACATTGATGTCCCGAAGGACCAC
1 TCCTGAAGGACCACATACATATCCCGAAGGACCAAATAGATGTACCGAAGGACCAC
* * * *
2060495 TCCTTAAGGACCACATACATATTCC-AATGGACCAAATAGGTGTACCGAAGTACCAC
1 TCCTGAAGGACCACATACATATCCCGAA-GGACCAAATAGATGTACCGAAGGACCAC
2060551 ATATATGCTC
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
55 2 0.04
56 45 0.96
ACGTcount: A:0.34, C:0.29, G:0.18, T:0.20
Consensus pattern (56 bp):
TCCTGAAGGACCACATACATATCCCGAAGGACCAAATAGATGTACCGAAGGACCAC
Found at i:2062378 original size:19 final size:20
Alignment explanation
Indices: 2062330--2062378 Score: 55
Period size: 22 Copynumber: 2.4 Consensus size: 20
2062320 TTTTGGGATG
*
2062330 TTACAGTATCGATACTACTA
1 TTACGGTATCGATACTACTA
*
2062350 TACTATGGTATCGATACT-CTA
1 T--TACGGTATCGATACTACTA
2062371 TTACGGTA
1 TTACGGTA
2062379 CTGATACCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
19 6 0.25
20 1 0.04
21 4 0.17
22 13 0.54
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (20 bp):
TTACGGTATCGATACTACTA
Found at i:2067137 original size:179 final size:180
Alignment explanation
Indices: 2066829--2067188 Score: 582
Period size: 179 Copynumber: 2.0 Consensus size: 180
2066819 ATTTTAGTTA
* *
2066829 TGGCATTCTTTCATGCCTATAATGCACCCATATGTATTATTATTTTGGCATCACTTCATGCCTAT
1 TGGCATTCTTTCATGACTATAATGCACCCATATGCATTATTATTTTGGCATCACTTCATGCCTAT
* * * *
2066894 AATGCACCCATATGTATTCTTATTTTGGCATCCTTTCATTCCTATAATGCACTCATATGCATTAT
66 AATGCACCCATATGCATTATTATTTTGGCATCCTTTCATGCCTATAATGCACCCATATGCATTAT
2066959 TATTTTGGCATCCTTTCATGCCTAT-ATGCACCCATACACATTATTATTT
131 TATTTTGGCATCCTTTCATGCCTATAATGCACCCATACACATTATTATTT
2067008 TGGCA-TCTTTTCATGACTATAATGCACCCATATGCATTATTATTTTGGCATC-CTTTCATGCCT
1 TGGCATTC-TTTCATGACTATAATGCACCCATATGCATTATTATTTTGGCATCAC-TTCATGCCT
*
2067071 ATAATGCACCCATATGCATTATTATTTTTGCATCCTTTCATGCCTATAATGCACCCATATGCATT
64 ATAATGCACCCATATGCATTATTATTTTGGCATCCTTTCATGCCTATAATGCACCCATATGCATT
* * **
2067136 ATTATTTTTGCATCCTTTCATGTCTATAATGCACCCATATGCATTATTATTT
129 ATTATTTTGGCATCCTTTCATGCCTATAATGCACCCATACACATTATTATTT
2067188 T
1 T
2067189 TTTCATTCAT
Statistics
Matches: 167, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
178 3 0.02
179 141 0.84
180 23 0.14
ACGTcount: A:0.25, C:0.23, G:0.10, T:0.42
Consensus pattern (180 bp):
TGGCATTCTTTCATGACTATAATGCACCCATATGCATTATTATTTTGGCATCACTTCATGCCTAT
AATGCACCCATATGCATTATTATTTTGGCATCCTTTCATGCCTATAATGCACCCATATGCATTAT
TATTTTGGCATCCTTTCATGCCTATAATGCACCCATACACATTATTATTT
Found at i:2067189 original size:45 final size:45
Alignment explanation
Indices: 2066815--2067188 Score: 583
Period size: 45 Copynumber: 8.3 Consensus size: 45
2066805 GCATCCTTTC
* *
2066815 ATGCATT-TTAGTTATGGCATTCTTTCATGCCTATAATGCACCCAT
1 ATGCATTATTA-TTTTGGCATCCTTTCATGCCTATAATGCACCCAT
*
2066860 ATGTATTATTATTTTGGCATCAC-TTCATGCCTATAATGCACCCAT
1 ATGCATTATTATTTTGGCATC-CTTTCATGCCTATAATGCACCCAT
* * * *
2066905 ATGTATTCTTATTTTGGCATCCTTTCATTCCTATAATGCACTCAT
1 ATGCATTATTATTTTGGCATCCTTTCATGCCTATAATGCACCCAT
2066950 ATGCATTATTATTTTGGCATCCTTTCATGCCTAT-ATGCACCCAT
1 ATGCATTATTATTTTGGCATCCTTTCATGCCTATAATGCACCCAT
** * *
2066994 ACACATTATTATTTTGGCATCTTTTCATGACTATAATGCACCCAT
1 ATGCATTATTATTTTGGCATCCTTTCATGCCTATAATGCACCCAT
2067039 ATGCATTATTATTTTGGCATCCTTTCATGCCTATAATGCACCCAT
1 ATGCATTATTATTTTGGCATCCTTTCATGCCTATAATGCACCCAT
*
2067084 ATGCATTATTATTTTTGCATCCTTTCATGCCTATAATGCACCCAT
1 ATGCATTATTATTTTGGCATCCTTTCATGCCTATAATGCACCCAT
* *
2067129 ATGCATTATTATTTTTGCATCCTTTCATGTCTATAATGCACCCAT
1 ATGCATTATTATTTTGGCATCCTTTCATGCCTATAATGCACCCAT
2067174 ATGCATTATTATTTT
1 ATGCATTATTATTTT
2067189 TTTCATTCAT
Statistics
Matches: 305, Mismatches: 20, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
44 40 0.13
45 261 0.86
46 4 0.01
ACGTcount: A:0.25, C:0.22, G:0.10, T:0.43
Consensus pattern (45 bp):
ATGCATTATTATTTTGGCATCCTTTCATGCCTATAATGCACCCAT
Found at i:2067661 original size:19 final size:21
Alignment explanation
Indices: 2067617--2067668 Score: 63
Period size: 19 Copynumber: 2.5 Consensus size: 21
2067607 CCCCCACCAT
*
2067617 GGTATCGATACTACTATACTAT
1 GGTATCGATACTACTATA-TAC
2067639 GGTATCGATACT-CTAT-TAC
1 GGTATCGATACTACTATATAC
*
2067658 GGTACCGATAC
1 GGTATCGATAC
2067669 CATTTTTGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 12 0.43
21 4 0.14
22 12 0.43
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (21 bp):
GGTATCGATACTACTATATAC
Found at i:2069276 original size:39 final size:38
Alignment explanation
Indices: 2069221--2069310 Score: 137
Period size: 37 Copynumber: 2.3 Consensus size: 38
2069211 GGAAATATGT
*
2069221 TTTTTAGAAAATATTTTTTGAAAATGTATATACTATATAG
1 TTTTT-GAAAACA-TTTTTGAAAATGTATATACTATATAG
*
2069261 TTTTTGAAAACA-TTTTGAAAATGTATATATTATATAG
1 TTTTTGAAAACATTTTTGAAAATGTATATACTATATAG
2069298 TTTTTGAAAACAT
1 TTTTTGAAAACAT
2069311 ATATAATATA
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
37 36 0.77
39 6 0.13
40 5 0.11
ACGTcount: A:0.40, C:0.03, G:0.10, T:0.47
Consensus pattern (38 bp):
TTTTTGAAAACATTTTTGAAAATGTATATACTATATAG
Found at i:2069282 original size:37 final size:35
Alignment explanation
Indices: 2069236--2069516 Score: 239
Period size: 35 Copynumber: 8.1 Consensus size: 35
2069226 AGAAAATATT
* *
2069236 TTTTGAAAATGTATATACTATATAGTTTTTGAAAACA
1 TTTTGAAAA-ATATATAATATATAG-TTTTGAAAACA
* *
2069273 TTTTGAAAATGTATATATTATATAG--TT-------
1 TTTTGAAAA-ATATATAATATATAGTTTTGAAAACA
*
2069300 TTT-GAAAACATATATAATATATAATTTT-AAAACA
1 TTTTGAAAA-ATATATAATATATAGTTTTGAAAACA
*
2069334 TTTTTGAAAACATATATAATATATAGTTTTAAAAACATA
1 -TTTTGAAAA-ATATATAATATATAGTTTTGAAAAC--A
2069373 TTTTGAAAACATATATAATATATAGTTTT-AAAACA
1 TTTTGAAAA-ATATATAATATATAGTTTTGAAAACA
* * *
2069408 TTTTTTAAAACTATATAATATATAATTTTGAAAACA
1 -TTTTGAAAAATATATAATATATAGTTTTGAAAACA
* *
2069444 TTTT-TAAAATATATAATATATAGTTTT-AAAATA
1 TTTTGAAAAATATATAATATATAGTTTTGAAAACA
* * *
2069477 TTTTTGAAAAATATATATTATATAGTTTTGGAAATA
1 -TTTTGAAAAATATATAATATATAGTTTTGAAAACA
2069513 TTTT
1 TTTT
2069517 TGAGAATATA
Statistics
Matches: 210, Mismatches: 16, Indels: 38
0.80 0.06 0.14
Matches are distributed among these distances:
26 17 0.08
27 3 0.01
28 2 0.01
33 5 0.02
34 26 0.12
35 50 0.24
36 43 0.20
37 34 0.16
38 29 0.14
39 1 0.00
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (35 bp):
TTTTGAAAAATATATAATATATAGTTTTGAAAACA
Found at i:2069331 original size:24 final size:26
Alignment explanation
Indices: 2069272--2069334 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
2069262 TTTTGAAAAC
** *
2069272 ATTTTGAAAATGTATATATTATATAG
1 ATTTTGAAAACATATATAATATATAG
*
2069298 TTTTTGAAAACATATATAATATATA-
1 ATTTTGAAAACATATATAATATATAG
2069323 ATTTT-AAAACAT
1 ATTTTGAAAACAT
2069335 TTTTGAAAAC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
24 7 0.22
25 4 0.12
26 21 0.66
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.44
Consensus pattern (26 bp):
ATTTTGAAAACATATATAATATATAG
Found at i:2069423 original size:35 final size:36
Alignment explanation
Indices: 2069298--2069529 Score: 312
Period size: 36 Copynumber: 6.5 Consensus size: 36
2069288 TATTATATAG
*
2069298 TTTTTGAAAACATATATAATATATAATTTTAAAACA
1 TTTTTGAAAACATATATAATATATAGTTTTAAAACA
2069334 TTTTTGAAAACATATATAATATATAGTTTTAAAAACA
1 TTTTTGAAAACATATATAATATATAGTTTT-AAAACA
2069371 TATTTTGAAAACATATATAATATATAGTTTTAAAACA
1 T-TTTTGAAAACATATATAATATATAGTTTTAAAACA
* *
2069408 TTTTTTAAAAC-TATATAATATATAATTTTGAAAACA
1 TTTTTGAAAACATATATAATATATAGTTTT-AAAACA
*
2069444 TTTTT--AAA-ATATATAATATATAGTTTTAAAATA
1 TTTTTGAAAACATATATAATATATAGTTTTAAAACA
* * *
2069477 TTTTTGAAAA-ATATATATTATATAGTTTTGGAAATA
1 TTTTTGAAAACATATATAATATATAGTTTT-AAAACA
* *
2069513 TTTTTGAGAATATATAT
1 TTTTTGAAAACATATAT
2069530 TATTATTATT
Statistics
Matches: 180, Mismatches: 8, Indels: 15
0.89 0.04 0.07
Matches are distributed among these distances:
33 10 0.06
34 20 0.11
35 38 0.21
36 63 0.35
37 20 0.11
38 29 0.16
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (36 bp):
TTTTTGAAAACATATATAATATATAGTTTTAAAACA
Found at i:2069535 original size:3 final size:3
Alignment explanation
Indices: 2069527--2069566 Score: 57
Period size: 3 Copynumber: 13.7 Consensus size: 3
2069517 TGAGAATATA
2069527 TAT TAT TAT TAT TAT TAT TAT T-T TAT TAT ATAT T-T TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TA
2069567 ATTCTTTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 4 0.12
3 27 0.79
4 3 0.09
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:2069554 original size:20 final size:20
Alignment explanation
Indices: 2069529--2069566 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2069519 AGAATATATA
2069529 TTATTAT-TATTATTATTATT
1 TTATTATATATT-TTATTATT
2069549 TTATTATATATTTTATTA
1 TTATTATATATTTTATTA
2069567 ATTCTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
TTATTATATATTTTATTATT
Found at i:2069574 original size:12 final size:12
Alignment explanation
Indices: 2069527--2069580 Score: 53
Period size: 12 Copynumber: 4.7 Consensus size: 12
2069517 TGAGAATATA
2069527 TATT-ATTATTAT
1 TATTAATTATT-T
2069539 TATT-ATTATTT
1 TATTAATTATTT
2069550 TATT-ATATATTT
1 TATTAAT-TATTT
*
2069562 TATTAATTCTTT
1 TATTAATTATTT
2069574 T-TTAATT
1 TATTAATT
2069581 TCTTTTTTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
11 13 0.33
12 24 0.62
13 2 0.05
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.69
Consensus pattern (12 bp):
TATTAATTATTT
Found at i:2070744 original size:16 final size:15
Alignment explanation
Indices: 2070723--2070773 Score: 59
Period size: 17 Copynumber: 3.3 Consensus size: 15
2070713 GTCATTTAAA
2070723 TTTTTAGTTATTCATT
1 TTTTTAGTT-TTCATT
*
2070739 TTTTTAATTTTTGCATT
1 TTTTT-AGTTTT-CATT
2070756 TTTTT-GTTTTCATT
1 TTTTTAGTTTTCATT
2070770 TTTT
1 TTTT
2070774 ACTTCTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
14 8 0.26
15 4 0.13
16 7 0.23
17 12 0.39
ACGTcount: A:0.14, C:0.06, G:0.06, T:0.75
Consensus pattern (15 bp):
TTTTTAGTTTTCATT
Found at i:2070957 original size:7 final size:6
Alignment explanation
Indices: 2070845--2070957 Score: 54
Period size: 6 Copynumber: 17.8 Consensus size: 6
2070835 TTTAATCATT
* * *
2070845 TTTTTA TTTTTA TTTTTA TATTTT- TCCTTTGA TTTATTT TTTTTA -TTTTG
1 TTTTTA TTTTTA TTTTTA T-TTTTA T--TTTTA TTT-TTA TTTTTA TTTTTA
* * *
2070895 TTTTCA TTTTTA ATTTT- TTGTTA TTTTT- TCTTTTA TTTATTTAA TATTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA T-TTTTA -TT-TTT-A T-TTTTA
2070946 TTTTTA TCTTTT
1 TTTTTA T-TTTT
2070958 TCCTTTGATT
Statistics
Matches: 81, Mismatches: 13, Indels: 25
0.68 0.11 0.21
Matches are distributed among these distances:
5 8 0.10
6 44 0.54
7 18 0.22
8 9 0.11
9 2 0.02
ACGTcount: A:0.16, C:0.04, G:0.03, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:2070976 original size:17 final size:18
Alignment explanation
Indices: 2070948--2070987 Score: 73
Period size: 17 Copynumber: 2.3 Consensus size: 18
2070938 ATATTTTATT
2070948 TTTATCTTTTTCCTTTGA
1 TTTATCTTTTTCCTTTGA
2070966 TTTAT-TTTTTCCTTTGA
1 TTTATCTTTTTCCTTTGA
2070983 TTTAT
1 TTTAT
2070988 ATATTATCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 17 0.77
18 5 0.23
ACGTcount: A:0.12, C:0.12, G:0.05, T:0.70
Consensus pattern (18 bp):
TTTATCTTTTTCCTTTGA
Found at i:2076506 original size:86 final size:86
Alignment explanation
Indices: 2076189--2076499 Score: 469
Period size: 86 Copynumber: 3.6 Consensus size: 86
2076179 CATTTGGGTC
2076189 AGGGGAACCACCTGAGGAGTATACCACATGGCTTTCCCGTGAAGGGGAGTCATCCAAAGATCATC
1 AGGGGAACCACCTGAGGAGTATACCACATGGCTTTCCCGTGAAGGGGAGTCATCCAAAGATCATC
2076254 TCATTTGGTTCAGACCCGCTA
66 TCATTTGGTTCAGACCCGCTA
* * * * *
2076275 AGGGGAACAACCTGAGGAGTATACCACATGACTTTCCTGTGAAAGGGAATCATCCAAAGATCATC
1 AGGGGAACCACCTGAGGAGTATACCACATGGCTTTCCCGTGAAGGGGAGTCATCCAAAGATCATC
2076340 TCATTTGGTTCAGACCCGCTA
66 TCATTTGGTTCAGACCCGCTA
* *
2076361 AGGGGAATCACCTTAGGAGTATACCACATGGCTTTCCCGTGAAGGGGAGTCATCCAAAGATCATC
1 AGGGGAACCACCTGAGGAGTATACCACATGGCTTTCCCGTGAAGGGGAGTCATCCAAAGATCATC
* *
2076426 TCATCTGGTTCAGACCCGCAA
66 TCATTTGGTTCAGACCCGCTA
* * * * * ** *
2076447 AGGGGAACCACATGAAGAATGTACCACTTGTTTTTCCCTTGAAGGGGAGTCAT
1 AGGGGAACCACCTGAGGAGTATACCACATGGCTTTCCCGTGAAGGGGAGTCAT
2076500 TTAAAGAATT
Statistics
Matches: 201, Mismatches: 24, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
86 201 1.00
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.23
Consensus pattern (86 bp):
AGGGGAACCACCTGAGGAGTATACCACATGGCTTTCCCGTGAAGGGGAGTCATCCAAAGATCATC
TCATTTGGTTCAGACCCGCTA
Found at i:2076703 original size:85 final size:84
Alignment explanation
Indices: 2076555--2076952 Score: 471
Period size: 85 Copynumber: 4.7 Consensus size: 84
2076545 TCACTTAACT
* * * *
2076555 ATTTGCAGCATAGCTCAAGGCGAGAAGGGATATCTGCCAATAAATACCTTCGAGTTCGATTACAT
1 ATTTACAGCATAACTCAAGGCGAGAAGGGCTATCTGCCAACAAA-ACCTTCGAGTTCGATTACAT
2076620 TCAGCTCAAAGG-CATATCAA
65 TCAGCTC-AAGGACATATCAA
* * * *
2076640 ATTTACAGCATAGCTCAAGGTGAGAAGGGCTATCTTCCAACCAAAACCTTTGAGTTCGATTACAT
1 ATTTACAGCATAACTCAAGGCGAGAAGGGCTATCTGCCAA-CAAAACCTTCGAGTTCGATTACAT
* * *
2076705 TTAGCTCAAGGACGTGTCAA
65 TCAGCTCAAGGACATATCAA
* * * * * * * *
2076725 ATATATAGCATAACTCATGGCAAGAAGGGTTATCTGTCAACCAAGACCTTCGAATTCGATTACAT
1 ATTTACAGCATAACTCAAGGCGAGAAGGGCTATCTGCCAA-CAAAACCTTCGAGTTCGATTACAT
2076790 TCAGCTCAAAGG-CATATCAA
65 TCAGCTC-AAGGACATATCAA
* **
2076810 ATTTACAACATAACTCAAGGCGAGAAGGGCTATCTGCCAA-TTAACCTTCGAGTTCGATTACATT
1 ATTTACAGCATAACTCAAGGCGAGAAGGGCTATCTGCCAACAAAACCTTCGAGTTCGATTACATT
*
2076874 CAGCTCGAGGACATATCAA
66 CAGCTCAAGGACATATCAA
* * * *
2076893 ATTTACAGCATAACTCAAGGTGAGAAGGGTTATCTGTCAACAAATA-CTTCGAGTTTGATT
1 ATTTACAGCATAACTCAAGGCGAGAAGGGCTATCTGCCAACAAA-ACCTTCGAGTTCGATT
2076953 CTTAAGGGTA
Statistics
Matches: 264, Mismatches: 43, Indels: 13
0.82 0.13 0.04
Matches are distributed among these distances:
82 3 0.01
83 70 0.27
84 18 0.07
85 166 0.63
86 7 0.03
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.27
Consensus pattern (84 bp):
ATTTACAGCATAACTCAAGGCGAGAAGGGCTATCTGCCAACAAAACCTTCGAGTTCGATTACATT
CAGCTCAAGGACATATCAA
Found at i:2077908 original size:37 final size:36
Alignment explanation
Indices: 2077865--2078281 Score: 435
Period size: 37 Copynumber: 11.5 Consensus size: 36
2077855 GAAAACAATT
* * *
2077865 TTTTGAAAATGTACATATTATATAGTTTTTGAAAACA
1 TTTTGAAAATATATATAATATATAG-TTTTGAAAACA
*
2077902 TTTTGAAAATATATATAATATATAGTTTTTGAAAATA
1 TTTTGAAAATATATATAATATATAG-TTTTGAAAACA
*
2077939 TTTTGAAAATATATATAATATATAGTTTTTTGGAAACA
1 TTTTGAAAATATATATAATATATAG--TTTTGAAAACA
2077977 TTTTGAAAAAATATATATAATATATAGTTTTTGAAAACA
1 TTTTG--AAAATATATATAATATATAG-TTTTGAAAACA
* * *
2078016 TTTTAAAAACT-TATATAATATAAAGTTTTGAAATCA
1 TTTTGAAAA-TATATATAATATATAGTTTTGAAAACA
2078052 TTTTGAAAA-ACTTATATAATATATAGTTTT-AAAACA
1 TTTTGAAAATA--TATATAATATATAGTTTTGAAAACA
* *
2078088 TTTTTGAAAACATATATAATATATAGTTTTAAAAACA
1 -TTTTGAAAATATATATAATATATAGTTTTGAAAACA
*
2078125 TTTTTTGAAAAAATATATAATATATAGTTTT-AAAACA
1 --TTTTGAAAATATATATAATATATAGTTTTGAAAACA
*
2078162 TTTTTGAAAA-CTATAT-A-ATATA-TTTTGAAAACA
1 -TTTTGAAAATATATATAATATATAGTTTTGAAAACA
* *
2078195 TTTT-TAAA-ATATATAATATATAGTTTT-AAAATA
1 TTTTGAAAATATATATAATATATAGTTTTGAAAACA
* * * *
2078228 TTTTTACAAA-ATATATATTATATAGTTTTGGAAATA
1 TTTTGA-AAATATATATAATATATAGTTTTGAAAACA
*
2078264 TTTTTGAGAATATATATA
1 -TTTTGAAAATATATATA
2078282 TTATTATTAT
Statistics
Matches: 337, Mismatches: 23, Indels: 40
0.84 0.06 0.10
Matches are distributed among these distances:
31 8 0.02
32 9 0.03
33 25 0.07
34 5 0.01
35 26 0.08
36 58 0.17
37 125 0.37
38 46 0.14
39 15 0.04
40 20 0.06
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.44
Consensus pattern (36 bp):
TTTTGAAAATATATATAATATATAGTTTTGAAAACA
Found at i:2079493 original size:24 final size:23
Alignment explanation
Indices: 2079466--2079528 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
2079456 GGTCCTTTAA
*
2079466 CTTTTTAGTTATTCA-TTTTTTTTT
1 CTTTTTAGTT-TT-AGTATTTTTTT
*
2079490 CTTTTTTAATTTTAGTATTTTTTT
1 C-TTTTTAGTTTTAGTATTTTTTT
2079514 CTTTTTAGTTTTAGT
1 CTTTTTAGTTTTAGT
2079529 GGTTTTTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
23 14 0.41
24 12 0.35
25 8 0.24
ACGTcount: A:0.14, C:0.06, G:0.06, T:0.73
Consensus pattern (23 bp):
CTTTTTAGTTTTAGTATTTTTTT
Found at i:2079534 original size:23 final size:24
Alignment explanation
Indices: 2079484--2079535 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
2079474 TTATTCATTT
*
2079484 TTTTTTCTTTTTTAATTTTAGTAT
1 TTTTTTCTTTTTTAATTTTAGTAG
* *
2079508 TTTTTTC-TTTTTAGTTTTAGTGG
1 TTTTTTCTTTTTTAATTTTAGTAG
2079531 TTTTT
1 TTTTT
2079536 ATTTTATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 18 0.72
24 7 0.28
ACGTcount: A:0.12, C:0.04, G:0.10, T:0.75
Consensus pattern (24 bp):
TTTTTTCTTTTTTAATTTTAGTAG
Found at i:2079535 original size:24 final size:24
Alignment explanation
Indices: 2079483--2079528 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
2079473 GTTATTCATT
2079483 TTTTTTTCTTTTTTAATTTTAGTA
1 TTTTTTTCTTTTTTAATTTTAGTA
*
2079507 TTTTTTTC-TTTTTAGTTTTAGT
1 TTTTTTTCTTTTTTAATTTTAGT
2079529 GGTTTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.13, C:0.04, G:0.07, T:0.76
Consensus pattern (24 bp):
TTTTTTTCTTTTTTAATTTTAGTA
Found at i:2079549 original size:13 final size:13
Alignment explanation
Indices: 2079531--2079572 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
2079521 GTTTTAGTGG
2079531 TTTTTATTTTATT
1 TTTTTATTTTATT
2079544 TTTTTATTTTATT
1 TTTTTATTTTATT
2079557 TATTTT-TATTTATT
1 T-TTTTAT-TTTATT
2079571 TT
1 TT
2079573 CAGTTTTTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 16 0.59
14 11 0.41
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTTATTTTATT
Found at i:2079580 original size:61 final size:58
Alignment explanation
Indices: 2079483--2079613 Score: 131
Period size: 61 Copynumber: 2.2 Consensus size: 58
2079473 GTTATTCATT
* * *
2079483 TTTTTTTCTTTTTTAATTTTAGTATTTTTTTCTTTTTAGTT-TTAGTGGTTTTTATTTTA
1 TTTTTTTATTTTTTAATTTTA-TATTTTTTTCTTTTTACTTCTTA-TGATTTTTATTTTA
* *
2079542 TTTTTTTATTTTATTTATTTT-TATTTATTTTCAGTTTTTACTTCTTATTATTTTTATTTTA
1 TTTTTTTATTTT-TTAATTTTATATTT-TTTTC--TTTTTACTTCTTATGATTTTTATTTTA
**
2079603 TTACTTTATTT
1 TTTTTTTATTT
2079614 AACATTTTTC
Statistics
Matches: 60, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
58 5 0.08
59 16 0.27
60 7 0.12
61 29 0.48
62 3 0.05
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.75
Consensus pattern (58 bp):
TTTTTTTATTTTTTAATTTTATATTTTTTTCTTTTTACTTCTTATGATTTTTATTTTA
Done.