Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold162
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: 1959167
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.30
Warning! 205334 characters in sequence are not A, C, G, or T
File 9 of 12
Found at i:1325353 original size:24 final size:24
Alignment explanation
Indices: 1325324--1325393 Score: 70
Period size: 24 Copynumber: 3.0 Consensus size: 24
1325314 TAAAATATAA
1325324 ATTTAAAAATTATAAATATTTAAT
1 ATTTAAAAATTATAAATATTTAAT
* * * *
1325348 ATTTAAAACTTTTAAAAATTAAAT
1 ATTTAAAAATTATAAATATTTAAT
** *
1325372 AAATAAATATTA-AAATATTTAA
1 ATTTAAAAATTATAAATATTTAA
1325394 AATATATAGT
Statistics
Matches: 35, Mismatches: 11, Indels: 1
0.74 0.23 0.02
Matches are distributed among these distances:
23 8 0.23
24 27 0.77
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.41
Consensus pattern (24 bp):
ATTTAAAAATTATAAATATTTAAT
Found at i:1325369 original size:16 final size:16
Alignment explanation
Indices: 1325324--1325395 Score: 67
Period size: 16 Copynumber: 4.5 Consensus size: 16
1325314 TAAAATATAA
1325324 ATTTAAAAATTATAAAT
1 ATTTAAAAATTA-AAAT
* *
1325341 ATTTAATATTTAAAACT
1 ATTTAAAAATTAAAA-T
1325358 -TTTAAAAATT-AAAT
1 ATTTAAAAATTAAAAT
** *
1325372 AAATAAATATTAAAAT
1 ATTTAAAAATTAAAAT
1325388 ATTTAAAA
1 ATTTAAAA
1325396 TATATAGTAA
Statistics
Matches: 42, Mismatches: 10, Indels: 7
0.71 0.17 0.12
Matches are distributed among these distances:
14 1 0.02
15 10 0.24
16 20 0.48
17 11 0.26
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.40
Consensus pattern (16 bp):
ATTTAAAAATTAAAAT
Found at i:1331284 original size:50 final size:49
Alignment explanation
Indices: 1331215--1331348 Score: 162
Period size: 50 Copynumber: 2.7 Consensus size: 49
1331205 TTTCACAATT
* *
1331215 TGTATCGATACATTCTTCATTGTATCGATACATTCTAGGTTTCACCCATA
1 TGTATCGATACA-TATTCATTGTATCGATACATTCTAGGTTTCACCCAGA
* * *
1331265 TGTATCGATACAGTATTCATTGTATCAATACATTCTGGGTTTTACCCAGA
1 TGTATCGATACA-TATTCATTGTATCGATACATTCTAGGTTTCACCCAGA
* * *
1331315 TGTAACGATACATTTCTCAATGTAT-GATACATTC
1 TGTATCGATACATAT-TCATTGTATCGATACATTC
1331349 AGGCATTTTG
Statistics
Matches: 73, Mismatches: 10, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
49 10 0.14
50 63 0.86
ACGTcount: A:0.28, C:0.19, G:0.13, T:0.39
Consensus pattern (49 bp):
TGTATCGATACATATTCATTGTATCGATACATTCTAGGTTTCACCCAGA
Found at i:1333157 original size:23 final size:23
Alignment explanation
Indices: 1333131--1333175 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
1333121 CCCTAGAATA
1333131 AGTAAAATGCATTCTAGTTGGGT
1 AGTAAAATGCATTCTAGTTGGGT
*
1333154 AGTAAAATGCATTTTAGTTGGG
1 AGTAAAATGCATTCTAGTTGGG
1333176 CCATTCAGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.31, C:0.07, G:0.27, T:0.36
Consensus pattern (23 bp):
AGTAAAATGCATTCTAGTTGGGT
Found at i:1333800 original size:51 final size:50
Alignment explanation
Indices: 1333727--1333844 Score: 164
Period size: 51 Copynumber: 2.3 Consensus size: 50
1333717 ATTTCCGAGG
* * **
1333727 GGATACTCCAACCTTGGTTTTATTTTTAAAACACCGATTTTTCACAATCGA
1 GGATACTCCAACCTCGATTTTATTTCCAAAACACCGATTTTTCACAATC-A
* *
1333778 GGATACTCTAACCTCGATTTTATTTCCAAAACACTGATTTTTCACAATCA
1 GGATACTCCAACCTCGATTTTATTTCCAAAACACCGATTTTTCACAATCA
1333828 GAGATACTCCAACCTCG
1 G-GATACTCCAACCTCG
1333845 TTATTTCTGA
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 2 0.03
51 57 0.97
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.34
Consensus pattern (50 bp):
GGATACTCCAACCTCGATTTTATTTCCAAAACACCGATTTTTCACAATCA
Found at i:1333878 original size:79 final size:77
Alignment explanation
Indices: 1333778--1334202 Score: 419
Period size: 79 Copynumber: 5.4 Consensus size: 77
1333768 TCACAATCGA
*
1333778 GGATACTCTAACCTCGATTTTATTTCCAAAACACTGATTTTTCACAATCAGAGATACTCCAACCT
1 GGATACTCCAACCTCGATTTTATTTCCAAAACACTGATTTTTCACAATCAGAGATACTCCAACC-
1333843 CGTTATTTCTGAGG
65 CGTTATTT-TGAGG
* *
1333857 GGATACTCCAACCTCGGTTTTATTTCTAAAACA-TCGATTTTTCACAATC-GAGGATACTCCAAC
1 GGATACTCCAACCTCGATTTTATTTCCAAAACACT-GATTTTTCACAATCAGA-GATACTCCAAC
1333920 CCTGTTATTTTCGAGG
64 CC-GTTATTTT-GAGG
* * * * *
1333936 GGATATTCCAACCTCGATTTTATTTCCAAAACAC-CAATTTTCACAATCAGGGATACTCTAACCT
1 GGATACTCCAACCTCGATTTTATTTCCAAAACACTGATTTTTCACAATCAGAGATACTCCAACC-
*
1334000 CGTTATTTCTTAGG
65 CGTTATTT-TGAGG
* * * ** * * *
1334014 GGATACTCCAACCCCGGTTTTATTTCTAAAACACCAAATTTTCACAAT-TGAAGATACTACAACC
1 GGATACTCCAACCTCGATTTTATTTCCAAAACACTGATTTTTCACAATCAG-AGATACTCCAA-C
1334078 CCGTTATTTTCGAGG
64 CCGTTATTTT-GAGG
* * * * * * * * *
1334093 GGATACTCTAACCCCGATTTTATTTTCAAAACACAGATTTTCCACAATCGGGGATAATCCGACCC
1 GGATACTCCAACCTCGATTTTATTTCCAAAACACTGATTTTTCACAATCAGAGATACTCCAACCC
*
1334158 TGTTATTTTTGAAG
66 -GTTA-TTTTGAGG
* * *
1334172 AGATACTCC-ACCCCTGATTTTATCTCCAAAA
1 GGATACTCCAACCTC-GATTTTATTTCCAAAA
1334203 TATTAAACTT
Statistics
Matches: 291, Mismatches: 39, Indels: 32
0.80 0.11 0.09
Matches are distributed among these distances:
78 78 0.27
79 206 0.71
80 7 0.02
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (77 bp):
GGATACTCCAACCTCGATTTTATTTCCAAAACACTGATTTTTCACAATCAGAGATACTCCAACCC
GTTATTTTGAGG
Found at i:1334070 original size:157 final size:157
Alignment explanation
Indices: 1333778--1334194 Score: 552
Period size: 157 Copynumber: 2.6 Consensus size: 157
1333768 TCACAATCGA
* * *
1333778 GGATACTCTAACCTCGATTTTATTTCCAAAACACTGATTTTTCACAATCAGAGATACTCCAACCT
1 GGATACTCTAACCTCGATTTTATTTCCAAAACAC-CAATTTTCACAATCAGGGATACTCCAACCT
* * * *
1333843 CGTTATTTCTGAGGGGATACTCCAACCTCGGTTTTATTTCTAAAACATCGATTTTTCACAATCGA
65 CGTTATTTCTGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAAATTTTCACAATCGA
* * *
1333908 GGATACTCCAACCCTGTTATTTTCGAGG
130 AGATACTACAACCCCGTTATTTTCGAGG
* * *
1333936 GGATATTCCAACCTCGATTTTATTTCCAAAACACCAATTTTCACAATCAGGGATACTCTAACCTC
1 GGATACTCTAACCTCGATTTTATTTCCAAAACACCAATTTTCACAATCAGGGATACTCCAACCTC
* *
1334001 GTTATTTCTTAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAAATTTTCACAATTGAA
66 GTTATTTCTGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAAATTTTCACAATCGAA
1334066 GATACTACAACCCCGTTATTTTCGAGG
131 GATACTACAACCCCGTTATTTTCGAGG
* * * * *
1334093 GGATACTCTAACCCCGATTTTATTTTCAAAACA-CAGATTTTCCACAATCGGGGATAATCCGACC
1 GGATACTCTAACCTCGATTTTATTTCCAAAACACCA-ATTTT-CACAATCAGGGATACTCCAACC
* * * *
1334157 -CTGTTATTTTTGAAGAGATACTCC-ACCCCTGATTTTAT
64 TC-GTTATTTCTGAGGGGATACTCCAACCCC-GGTTTTAT
1334195 CTCCAAAATA
Statistics
Matches: 227, Mismatches: 28, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
156 2 0.01
157 150 0.66
158 75 0.33
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.33
Consensus pattern (157 bp):
GGATACTCTAACCTCGATTTTATTTCCAAAACACCAATTTTCACAATCAGGGATACTCCAACCTC
GTTATTTCTGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAAATTTTCACAATCGAA
GATACTACAACCCCGTTATTTTCGAGG
Found at i:1334193 original size:236 final size:236
Alignment explanation
Indices: 1333778--1334202 Score: 563
Period size: 236 Copynumber: 1.8 Consensus size: 236
1333768 TCACAATCGA
* * ** * * *
1333778 GGATACTCTAACCTCGATTTTATTTCCAAAACACTGATTTTTCACAATCAGAGATACTCCAACCT
1 GGATACTCCAACCCCGATTTTATTTCCAAAACACCAAATTTTCACAATCAGAGATACTACAACCC
* * *
1333843 CGTTATTTCTGAGGGGATACTCCAACCTCGGTTTTATTTCTAAAACATCGATTTTTCACAATCGA
66 CGTTATTTCTGAGGGGATACTCCAACCCCGATTTTATTTCTAAAACATCGATTTTCCACAATCGA
* * * * *
1333908 GGATACTCCAACCCTGTTATTTTCGAGGGGATATTCCAACCTCGATTTTATTTCCAAAACACCAA
131 GGATAATCCAACCCTGTTATTTTCGAAGAGATACTCCAACCTCGATTTTATCTCCAAAACACCAA
1333973 TTTTCACAATCAGGGATACTCTAACCTCGTTATTTCTTAGG
196 TTTTCACAATCAGGGATACTCTAACCTCGTTATTTCTTAGG
* * *
1334014 GGATACTCCAACCCCGGTTTTATTTCTAAAACACCAAATTTTCACAAT-TGAAGATACTACAACC
1 GGATACTCCAACCCCGATTTTATTTCCAAAACACCAAATTTTCACAATCAG-AGATACTACAACC
*
1334078 CCGTTATTT-TCGAGGGGATACTCTAACCCCGATTTTATTT-TCAAAACA-CAGATTTTCCACAA
65 CCGTTATTTCT-GAGGGGATACTCCAACCCCGATTTTATTTCT-AAAACATC-GATTTTCCACAA
* * * *
1334140 TCGGGGATAATCCGACCCTGTTATTTTTGAAGAGATACTCC-ACCCCTGATTTTATCTCCAAAA
127 TCGAGGATAATCCAACCCTGTTATTTTCGAAGAGATACTCCAACCTC-GATTTTATCTCCAAAA
1334203 TATTAAACTT
Statistics
Matches: 161, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
235 8 0.05
236 153 0.95
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (236 bp):
GGATACTCCAACCCCGATTTTATTTCCAAAACACCAAATTTTCACAATCAGAGATACTACAACCC
CGTTATTTCTGAGGGGATACTCCAACCCCGATTTTATTTCTAAAACATCGATTTTCCACAATCGA
GGATAATCCAACCCTGTTATTTTCGAAGAGATACTCCAACCTCGATTTTATCTCCAAAACACCAA
TTTTCACAATCAGGGATACTCTAACCTCGTTATTTCTTAGG
Found at i:1335576 original size:36 final size:35
Alignment explanation
Indices: 1335493--1335591 Score: 118
Period size: 36 Copynumber: 2.9 Consensus size: 35
1335483 CCTTACAACA
* *
1335493 CTATC-TTTC-AAGACTAAGATAGAAAC-CT--CC
1 CTATCTTTTCAAAGGCTAAGATAGAACCTCTCACC
**
1335523 CTATCTTTTCACGGGCTAAGATAGAACCTCTCACC
1 CTATCTTTTCAAAGGCTAAGATAGAACCTCTCACC
1335558 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTCA
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTCA
1335592 ATCATTTAGA
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
30 5 0.09
31 4 0.07
32 13 0.23
33 2 0.04
35 7 0.12
36 26 0.46
ACGTcount: A:0.31, C:0.27, G:0.12, T:0.29
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCACC
Found at i:1336048 original size:20 final size:20
Alignment explanation
Indices: 1336023--1336072 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
1336013 GGCTTAATGC
1336023 ATCGATACAATTCACCAAGT
1 ATCGATACAATTCACCAAGT
* *
1336043 ATCGATACAATTCATCATGT
1 ATCGATACAATTCACCAAGT
1336063 ATCGAT-CAAT
1 ATCGATACAAT
1336073 GTATTGATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
19 4 0.14
20 24 0.86
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (20 bp):
ATCGATACAATTCACCAAGT
Found at i:1336176 original size:20 final size:16
Alignment explanation
Indices: 1336127--1336179 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 16
1336117 TGATATAACT
1336127 CAATATGTATCGATAC
1 CAATATGTATCGATAC
*
1336143 CAATAATGTTTCGATAC
1 CAAT-ATGTATCGATAC
1336160 TAAGCAATATGTATCGATAC
1 ----CAATATGTATCGATAC
1336180 ATCTGGGTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
16 4 0.13
17 11 0.37
20 11 0.37
21 4 0.13
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (16 bp):
CAATATGTATCGATAC
Found at i:1336316 original size:22 final size:20
Alignment explanation
Indices: 1336276--1336316 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
1336266 GATACTTTGA
*
1336276 ATTATTTTTACTTGAAAAAC
1 ATTATTTTTACGTGAAAAAC
1336296 ATTATTTTTATGCGTGAAAAA
1 ATTATTTTTA--CGTGAAAAA
1336317 AATCTATACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
22 8 0.44
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.44
Consensus pattern (20 bp):
ATTATTTTTACGTGAAAAAC
Found at i:1336884 original size:47 final size:47
Alignment explanation
Indices: 1336802--1337133 Score: 182
Period size: 47 Copynumber: 6.6 Consensus size: 47
1336792 TGATAATAGT
*
1336802 GAGGTAATAATTCTTTTGATTTTAGTCCTTAAGCCTTTGAAAATGGC
1 GAGGTAATAATTCTTTTGACTTTAGTCCTTAAGCCTTTGAAAATGGC
* * * * *
1336849 GAGGTAATTATTCTTTTGACTTTGGTCTTTGAGCCTTTGATAATGGC
1 GAGGTAATAATTCTTTTGACTTTAGTCCTTAAGCCTTTGAAAATGGC
* * * *
1336896 AAGGTAATAATTCCTTTAACCTCAGTGAATGGTTAAGTCCTTAAGCCTTCGAAAATGGT
1 GAGGTAATAATT-C-TT----T---TGACT--TT-AGTCCTTAAGCCTTTGAAAATGGC
* * * ** * *
1336955 GAGGTAGTAATTTTTTTGACCTTT-GTTCTCGAGCCTTTGATAATGGT
1 GAGGTAATAATTCTTTTGA-CTTTAGTCCTTAAGCCTTTGAAAATGGC
* *
1337002 GAGGTAATAATTTTTTTGACTTTGGTAAAAAGTCAAGTCCTCAAGCCTTTGAAAATGGC
1 GAGGTAATAATTCTTTTGAC--T--T------T--AGTCCTTAAGCCTTTGAAAATGGC
* * * **
1337061 AAGGTAATAATTTTTTTGACTTTAGT-CTTCAAGCCTTTGATAATGAT
1 GAGGTAATAATTCTTTTGACTTTAGTCCTT-AAGCCTTTGAAAATGGC
* *
1337108 GAGATAATAAATCTTTTGACTTTAGT
1 GAGGTAATAATTCTTTTGACTTTAGT
1337134 GAATGGTCAA
Statistics
Matches: 220, Mismatches: 38, Indels: 54
0.71 0.12 0.17
Matches are distributed among these distances:
46 3 0.01
47 126 0.57
48 2 0.01
49 5 0.02
50 4 0.02
51 1 0.00
53 2 0.01
55 1 0.00
56 5 0.02
57 3 0.01
58 2 0.01
59 66 0.30
ACGTcount: A:0.28, C:0.13, G:0.20, T:0.40
Consensus pattern (47 bp):
GAGGTAATAATTCTTTTGACTTTAGTCCTTAAGCCTTTGAAAATGGC
Found at i:1337116 original size:106 final size:105
Alignment explanation
Indices: 1336825--1337158 Score: 382
Period size: 106 Copynumber: 3.2 Consensus size: 105
1336815 TTTTGATTTT
* * * *
1336825 AGTCCTTAAGCCTTTGAAAATGGCGAGGTAATTATTCTTTTGACTTTGGTCTTTGAGCCTTTGAT
1 AGTCCTCAAGCCTTTGAAAATGGCGAGGTAATAATTTTTTTGACTTT-GTCTTCGAGCCTTTGAT
** * * * * *
1336890 AATGGCAAGGTAATAATTCCTTTAACCTCAGTGAATGGTTA
65 AATGGTGAGGTAATAATTCTTTTGACTTTAGTGAATGGTCA
* * * *
1336931 AGTCCTTAAGCCTTCGAAAATGGTGAGGTAGTAATTTTTTTGACCTTTGT-TCTCGAGCCTTTGA
1 AGTCCTCAAGCCTTTGAAAATGGCGAGGTAATAATTTTTTTGA-CTTTGTCT-TCGAGCCTTTGA
* * * **
1336995 TAATGGTGAGGTAATAATTTTTTTGACTTTGGTAAAAAGTCA
64 TAATGGTGAGGTAATAATTCTTTTGACTTTAGTGAATGGTCA
* *
1337037 AGTCCTCAAGCCTTTGAAAATGGCAAGGTAATAATTTTTTTGACTTTAGTCTTCAAGCCTTTGAT
1 AGTCCTCAAGCCTTTGAAAATGGCGAGGTAATAATTTTTTTGACTTT-GTCTTCGAGCCTTTGAT
* * *
1337102 AATGATGAGATAATAAATCTTTTGACTTTAGTGAATGGTCA
65 AATGGTGAGGTAATAATTCTTTTGACTTTAGTGAATGGTCA
**
1337143 AGTGTTCAAGCCTTTG
1 AGTCCTCAAGCCTTTG
1337159 GTGTGGTTTT
Statistics
Matches: 190, Mismatches: 34, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
105 5 0.03
106 180 0.95
107 5 0.03
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.38
Consensus pattern (105 bp):
AGTCCTCAAGCCTTTGAAAATGGCGAGGTAATAATTTTTTTGACTTTGTCTTCGAGCCTTTGATA
ATGGTGAGGTAATAATTCTTTTGACTTTAGTGAATGGTCA
Found at i:1337225 original size:40 final size:40
Alignment explanation
Indices: 1337176--1337260 Score: 125
Period size: 40 Copynumber: 2.1 Consensus size: 40
1337166 TTTTGAATTC
* *
1337176 TTAAACCTTTGGCATCAATGAGGTGATGATTTTTTATTTT
1 TTAAACCTTTGGCATCAATAAGATGATGATTTTTTATTTT
* * *
1337216 TTAAGCCTTTGGCATCAGTAAGATGATGATTTTTTTTTTT
1 TTAAACCTTTGGCATCAATAAGATGATGATTTTTTATTTT
1337256 TTAAA
1 TTAAA
1337261 TTCTCAAGCT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.26, C:0.09, G:0.16, T:0.48
Consensus pattern (40 bp):
TTAAACCTTTGGCATCAATAAGATGATGATTTTTTATTTT
Found at i:1337297 original size:40 final size:40
Alignment explanation
Indices: 1337253--1337500 Score: 167
Period size: 40 Copynumber: 6.2 Consensus size: 40
1337243 GATTTTTTTT
*
1337253 TTTTTAAATTCTCAAGCTTTTGGCATTAAAGAGATGATGA
1 TTTTTAAATTCTCAAGCCTTTGGCATTAAAGAGATGATGA
* ** ** *
1337293 TTTTTAAATTTTCAAGCCTTTGGTGTTAGCGAGACGATGA
1 TTTTTAAATTCTCAAGCCTTTGGCATTAAAGAGATGATGA
* * * ** * *
1337333 TTTTTGAATTTTTAAGCCTTTAAC-GT-AAGCAAGATGATGC
1 TTTTTAAATTCTCAAGCCTTTGGCATTAAAG--AGATGATGA
* * ***
1337373 TTTTTGAATTCTCAAGCCTTTAGCATTGGCGAGATGATGA
1 TTTTTAAATTCTCAAGCCTTTGGCATTAAAGAGATGATGA
* ** * * *
1337413 TTTTTTGAATTCTCAAGCCTTTGGCATTAGTGAAATTTATAA
1 -TTTTTAAATTCTCAAGCCTTTGGCATTAAAGAGA-TGATGA
* ** * * *
1337455 TTTTTAAATTCTTAAGTTTTTGGCATCAATGAGATGATGT
1 TTTTTAAATTCTCAAGCCTTTGGCATTAAAGAGATGATGA
1337495 TTTTTA
1 TTTTTA
1337501 GGCATAATAA
Statistics
Matches: 162, Mismatches: 40, Indels: 12
0.76 0.19 0.06
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 97 0.60
41 58 0.36
42 5 0.03
ACGTcount: A:0.28, C:0.11, G:0.18, T:0.43
Consensus pattern (40 bp):
TTTTTAAATTCTCAAGCCTTTGGCATTAAAGAGATGATGA
Found at i:1337332 original size:88 final size:88
Alignment explanation
Indices: 1337165--1337337 Score: 202
Period size: 88 Copynumber: 2.0 Consensus size: 88
1337155 TTTGGTGTGG
* * * * * * *
1337165 TTTTTGAATTCTTAAACCTTTGGCATCAATGAGGTGATGATTTTTTATTTTTTAAGCCTTTGGCA
1 TTTTTAAATTCTCAAACCTTTGGCATCAAAGAGATGATGATTTTTAAATTTTCAAGCCTTTGGCA
* *
1337230 TCAGTAAGATGATGATTTTTTTT
66 TCAGCAAGACGATGATTTTTTTT
* * * **
1337253 TTTTTAAATTCTCAAGCTTTTGGCATTAAAGAGATGATGATTTTTAAATTTTCAAGCCTTTGGTG
1 TTTTTAAATTCTCAAACCTTTGGCATCAAAGAGATGATGATTTTTAAATTTTCAAGCCTTTGGCA
* *
1337318 TTAGCGAGACGATGATTTTT
66 TCAGCAAGACGATGATTTTT
1337338 GAATTTTTAA
Statistics
Matches: 69, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
88 69 1.00
ACGTcount: A:0.25, C:0.10, G:0.18, T:0.46
Consensus pattern (88 bp):
TTTTTAAATTCTCAAACCTTTGGCATCAAAGAGATGATGATTTTTAAATTTTCAAGCCTTTGGCA
TCAGCAAGACGATGATTTTTTTT
Found at i:1337337 original size:80 final size:82
Alignment explanation
Indices: 1337252--1337441 Score: 208
Period size: 80 Copynumber: 2.4 Consensus size: 82
1337242 TGATTTTTTT
* * * *
1337252 TTTTTTAAATTCTCAAGCTTTTGGCATTAAAG-AGATGATGATTTTTAAATTTTCAAGCCTTTGG
1 TTTTTTGAATTCTCAAGCCTTTGGCATTAAAGAAGATGATGATTTTTAAATTCTCAAGCCTTTAG
**
1337316 TGTTAGCGAGACGATGA
66 CATTAGCGAGACGATGA
* * ** * * *
1337333 -TTTTTGAATTTTTAAGCCTTTAAC-GT-AAGCAAGATGATGCTTTTTGAATTCTCAAGCCTTTA
1 TTTTTTGAATTCTCAAGCCTTTGGCATTAAAG-AAGATGATGATTTTTAAATTCTCAAGCCTTTA
* *
1337395 GCATTGGCGAGATGATGA
65 GCATTAGCGAGACGATGA
1337413 TTTTTTGAATTCTCAAGCCTTTGGCATTA
1 TTTTTTGAATTCTCAAGCCTTTGGCATTA
1337442 GTGAAATTTA
Statistics
Matches: 84, Mismatches: 20, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
78 3 0.04
79 1 0.01
80 59 0.70
81 20 0.24
82 1 0.01
ACGTcount: A:0.27, C:0.13, G:0.19, T:0.41
Consensus pattern (82 bp):
TTTTTTGAATTCTCAAGCCTTTGGCATTAAAGAAGATGATGATTTTTAAATTCTCAAGCCTTTAG
CATTAGCGAGACGATGA
Found at i:1354819 original size:13 final size:13
Alignment explanation
Indices: 1354801--1354831 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1354791 ACAATTCATC
*
1354801 ATGTGTTGATACA
1 ATGTGTCGATACA
1354814 ATGTGTCGATACA
1 ATGTGTCGATACA
1354827 ATGTG
1 ATGTG
1354832 CTATGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.29, C:0.10, G:0.26, T:0.35
Consensus pattern (13 bp):
ATGTGTCGATACA
Found at i:1363608 original size:20 final size:19
Alignment explanation
Indices: 1363582--1363654 Score: 78
Period size: 20 Copynumber: 3.7 Consensus size: 19
1363572 CTACCAGTTT
*
1363582 CATGTATCGATACAATTG-T
1 CATGTATCGATACAA-TGAA
1363601 CTATGTATCGATACAATGAA
1 C-ATGTATCGATACAATGAA
*
1363621 CATGTATCGATACAAAGCATA
1 CATGTATCGATACAATG-A-A
1363642 -ATGTATCGATACA
1 CATGTATCGATACA
1363655 TCTAGGTGTG
Statistics
Matches: 48, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
19 18 0.38
20 29 0.60
21 1 0.02
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:1364026 original size:12 final size:12
Alignment explanation
Indices: 1363999--1364066 Score: 68
Period size: 12 Copynumber: 5.7 Consensus size: 12
1363989 CGTCCTTCGT
*
1363999 AAAAAAAAAAAC
1 AAAAACAAAAAC
* *
1364011 AAAAACAGAAAT
1 AAAAACAAAAAC
1364023 AAAAACAAAAAC
1 AAAAACAAAAAC
1364035 AAAAA-AACAAAC
1 AAAAACAA-AAAC
*
1364047 ACAAA-AAAAAC
1 AAAAACAAAAAC
1364058 AACAAACAA
1 AA-AAACAA
1364067 GAAAAGAGGG
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
11 7 0.15
12 37 0.80
13 2 0.04
ACGTcount: A:0.82, C:0.15, G:0.01, T:0.01
Consensus pattern (12 bp):
AAAAACAAAAAC
Found at i:1364044 original size:32 final size:29
Alignment explanation
Indices: 1363999--1364071 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 29
1363989 CGTCCTTCGT
* *
1363999 AAAAA-AAAAAACAAAAACAGAAATAAAAAC
1 AAAAACAAAAAA-ACAAACACAAA-AAAAAC
1364029 AAAAACAAAAAAACAAACACAAAAAAAAC
1 AAAAACAAAAAAACAAACACAAAAAAAAC
*
1364058 AACAAACAAGAAAA
1 AA-AAACAAAAAAA
1364072 GAGGGAAGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 8 0.21
30 24 0.63
31 6 0.16
ACGTcount: A:0.82, C:0.14, G:0.03, T:0.01
Consensus pattern (29 bp):
AAAAACAAAAAAACAAACACAAAAAAAAC
Found at i:1364046 original size:18 final size:18
Alignment explanation
Indices: 1363999--1364066 Score: 77
Period size: 18 Copynumber: 3.8 Consensus size: 18
1363989 CGTCCTTCGT
*
1363999 AAAAAAAAAAACAAAAAC
1 AAAAAAACAAACAAAAAC
*
1364017 AGAAATAA-AAACAAAAAC
1 A-AAAAAACAAACAAAAAC
1364035 AAAAAAACAAACACAAAA-
1 AAAAAAACAAACA-AAAAC
*
1364053 AAAACAACAAACAA
1 AAAAAAACAAACAA
1364067 GAAAAGAGGG
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
17 6 0.14
18 29 0.66
19 9 0.20
ACGTcount: A:0.82, C:0.15, G:0.01, T:0.01
Consensus pattern (18 bp):
AAAAAAACAAACAAAAAC
Found at i:1365638 original size:20 final size:20
Alignment explanation
Indices: 1365615--1365743 Score: 89
Period size: 20 Copynumber: 5.9 Consensus size: 20
1365605 TACATATATG
1365615 AATGTATCGATACATTCTTC
1 AATGTATCGATACATTCTTC
1365635 AATGTATCGATACATTCTGTCTTTTTACCC
1 AATGTATCGATACA---T-TC---TT---C
* *
1365665 AAATGTATCGATGCATTTTTC
1 -AATGTATCGATACATTCTTC
* *
1365686 AATGTATCGATACATGT-ATG
1 AATGTATCGATACAT-TCTTC
*
1365706 AATGTATCGATACATTTTTC
1 AATGTATCGATACATTCTTC
*
1365726 AATGTATCAATACATTCT
1 AATGTATCGATACATTCT
1365744 GTCTTTTTTC
Statistics
Matches: 87, Mismatches: 9, Indels: 26
0.71 0.07 0.21
Matches are distributed among these distances:
19 1 0.01
20 61 0.70
21 2 0.02
23 1 0.01
24 4 0.05
27 3 0.03
28 1 0.01
30 1 0.01
31 13 0.15
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (20 bp):
AATGTATCGATACATTCTTC
Found at i:1365691 original size:51 final size:51
Alignment explanation
Indices: 1365615--1365792 Score: 216
Period size: 51 Copynumber: 3.7 Consensus size: 51
1365605 TACATATATG
*
1365615 AATGTATCGATACATTCTTCAATGTATCGATACATTCTGTCTTTTTACCCA
1 AATGTATCGATACATTTTTCAATGTATCGATACATTCTGTCTTTTTACCCA
* **
1365666 AATGTATCGATGCATTTTTCAATGTATCGATACA---TG------TA--TG
1 AATGTATCGATACATTTTTCAATGTATCGATACATTCTGTCTTTTTACCCA
* *
1365706 AATGTATCGATACATTTTTCAATGTATCAATACATTCTGTCTTTTTTCCCA
1 AATGTATCGATACATTTTTCAATGTATCGATACATTCTGTCTTTTTACCCA
*
1365757 GATGTATCGATACATTTTTCAATGTATCGATACATT
1 AATGTATCGATACATTTTTCAATGTATCGATACATT
1365793 TAGTTAAAAT
Statistics
Matches: 105, Mismatches: 11, Indels: 22
0.76 0.08 0.16
Matches are distributed among these distances:
40 32 0.30
42 2 0.02
43 2 0.02
48 2 0.02
49 1 0.01
51 66 0.63
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (51 bp):
AATGTATCGATACATTTTTCAATGTATCGATACATTCTGTCTTTTTACCCA
Found at i:1365710 original size:71 final size:71
Alignment explanation
Indices: 1365585--1365721 Score: 186
Period size: 71 Copynumber: 1.9 Consensus size: 71
1365575 AAAAGTCGTA
* * *
1365585 TTTTTACCCAGATGTATCAATACATATATGAATGTATCGATACATTCTTCAATGTATCGATACAT
1 TTTTTACCCAAATGTATCAATACATATATCAATGTATCGATACATTCATCAATGTATCGATACAT
1365650 TCTGTC
66 TCTGTC
* * * * *
1365656 TTTTTACCCAAATGTATCGATGCATTTTTCAATGTATCGATACATGT-ATGAATGTATCGATACA
1 TTTTTACCCAAATGTATCAATACATATATCAATGTATCGATACAT-TCATCAATGTATCGATACA
1365720 TT
65 TT
1365722 TTTCAATGTA
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
71 56 0.98
72 1 0.02
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (71 bp):
TTTTTACCCAAATGTATCAATACATATATCAATGTATCGATACATTCATCAATGTATCGATACAT
TCTGTC
Found at i:1365711 original size:91 final size:91
Alignment explanation
Indices: 1365596--1365791 Score: 329
Period size: 91 Copynumber: 2.2 Consensus size: 91
1365586 TTTTACCCAG
* *
1365596 ATGTATCAATACATATATGAATGTATCGATACATTCTTCAATGTATCGATACATTCTGTCTTTTT
1 ATGTATCGATACATATATGAATGTATCGATACATTCTTCAATGTATCAATACATTCTGTCTTTTT
*
1365661 ACCCAAATGTATCGATGCATTTTTCA
66 ACCCAAATGTATCGATACATTTTTCA
* *
1365687 ATGTATCGATACATGTATGAATGTATCGATACATTTTTCAATGTATCAATACATTCTGTCTTTTT
1 ATGTATCGATACATATATGAATGTATCGATACATTCTTCAATGTATCAATACATTCTGTCTTTTT
* *
1365752 TCCCAGATGTATCGATACATTTTTCA
66 ACCCAAATGTATCGATACATTTTTCA
1365778 ATGTATCGATACAT
1 ATGTATCGATACAT
1365792 TTAGTTAAAA
Statistics
Matches: 98, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
91 98 1.00
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (91 bp):
ATGTATCGATACATATATGAATGTATCGATACATTCTTCAATGTATCAATACATTCTGTCTTTTT
ACCCAAATGTATCGATACATTTTTCA
Found at i:1368092 original size:97 final size:97
Alignment explanation
Indices: 1367950--1368196 Score: 334
Period size: 97 Copynumber: 2.5 Consensus size: 97
1367940 AATTTTATTT
* * * * * *
1367950 ATCGGGGATACTCCAAC-CTTATTCCTCCAAGGTGATATTCTAACCCCGCTTTTAAACACATCAA
1 ATCGGGGACACTCCAACAC-CATTCCTCCGAGGAGATACTCCAACCCCGCTTTTAAACACATCAA
1368014 AGTTTAAATCTTATTCTCACTTAAATTGTCATC
65 AGTTTAAATCTTATTCTCACTTAAATTGTCATC
* * * * *
1368047 ATTGGGGACATTTCAACACCATTCCTCCGAGGAGATACTCCAACCCCACTTTTAAACGCATCAAA
1 ATCGGGGACACTCCAACACCATTCCTCCGAGGAGATACTCCAACCCCGCTTTTAAACACATCAAA
* *
1368112 GTTTATATTTTATTCTCACTTAAATTGTCATC
66 GTTTAAATCTTATTCTCACTTAAATTGTCATC
* * *
1368144 ATCGGGGACACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCCCGTTTTT
1 ATCGGGGACACTCCAACACCATTCCTCCGAGGAGATACTCCAACCCCGCTTTT
1368197 CAATAAAAAA
Statistics
Matches: 129, Mismatches: 20, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
97 128 0.99
98 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.31
Consensus pattern (97 bp):
ATCGGGGACACTCCAACACCATTCCTCCGAGGAGATACTCCAACCCCGCTTTTAAACACATCAAA
GTTTAAATCTTATTCTCACTTAAATTGTCATC
Found at i:1369699 original size:32 final size:32
Alignment explanation
Indices: 1369662--1369761 Score: 112
Period size: 32 Copynumber: 3.1 Consensus size: 32
1369652 CTAGTGGAGG
*
1369662 AACCTTCTCTAAAGCCCACACAAGTTAGTGGT
1 AACCTTCTCTAAAGCCCACACAAGTTAGTGGC
* *
1369694 AACCTTCT-TCAAAGCCCACACTAGTTGGTGGC
1 AACCTTCTCT-AAAGCCCACACAAGTTAGTGGC
* * * * *
1369726 GACCTTTTCTAAAGCCCACATAAGTCAATGGC
1 AACCTTCTCTAAAGCCCACACAAGTTAGTGGC
1369758 AACC
1 AACC
1369762 ATTTTTGAAG
Statistics
Matches: 55, Mismatches: 11, Indels: 4
0.79 0.16 0.06
Matches are distributed among these distances:
31 1 0.02
32 53 0.96
33 1 0.02
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (32 bp):
AACCTTCTCTAAAGCCCACACAAGTTAGTGGC
Found at i:1369974 original size:21 final size:21
Alignment explanation
Indices: 1369908--1369974 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
1369898 GTGTTGTTGG
1369908 CCTTGAATCAACATATTGGCA
1 CCTTGAATCAACATATTGGCA
* *
1369929 CCTTTAATTCCA-ATATCCTGG--
1 CCTTGAA-TCAACATAT--TGGCA
1369950 CCTTGAATCAACATATTGGCA
1 CCTTGAATCAACATATTGGCA
1369971 CCTT
1 CCTT
1369975 TATCATCATT
Statistics
Matches: 36, Mismatches: 4, Indels: 12
0.69 0.08 0.23
Matches are distributed among these distances:
19 3 0.08
20 3 0.08
21 24 0.67
22 3 0.08
23 3 0.08
ACGTcount: A:0.28, C:0.27, G:0.12, T:0.33
Consensus pattern (21 bp):
CCTTGAATCAACATATTGGCA
Found at i:1370155 original size:52 final size:51
Alignment explanation
Indices: 1369983--1370349 Score: 224
Period size: 52 Copynumber: 6.9 Consensus size: 51
1369973 TTTATCATCA
* * * * *
1369983 TTCTCATCCTTAAGTCCAATGTCGCTGGCCTTGAATCAGTACATTGGCA--C
1 TTCTCAT-TTTAAGTCTAATGTCGTTGGCCTTGAATCAGCATATTGGCATTC
* * *
1370033 --CATCATCTTTAAGTCTAATATCGTTGGCCTTGAATCAACATATTGGCATCC
1 TTC-TCAT-TTTAAGTCTAATGTCGTTGGCCTTGAATCAGCATATTGGCATTC
* ** * * *
1370084 CTAACATTCCTAAGCCTAATGTCGTTGGCCTCGAATCAGCATATTGGCATTC
1 TTCTCATT-TTAAGTCTAATGTCGTTGGCCTTGAATCAGCATATTGGCATTC
* * * * *
1370136 TTCTCATTTTCAAGTCTAATGTCGCTGGCCGTGAATTAGCACATTGACATTC
1 TTCTCATTTT-AAGTCTAATGTCGTTGGCCTTGAATCAGCATATTGGCATTC
* * * * * *
1370188 TT-TGTATCTTTAAGCCCAATATCGTTGGCCTTGAATCAACATATTAGCACCTTTC
1 TTCT-CAT-TTTAAGTCTAATGTCGTTGGCCTTGAATCAGCATATTGGCA---TTC
* * * * *
1370243 TCATCCTTATCATGTTAAAGTCTAATGTCGCTAGCCTTGAATCAGCATATTAGCA-AC
1 T--T-C---TCAT-TTTAAGTCTAATGTCGTTGGCCTTGAATCAGCATATTGGCATTC
* * *
1370300 TTTCTCATTTTTAAGTCCAATATCGTTGGCCTTGAATCAGTATATTGGCA
1 -TTCTCA-TTTTAAGTCTAATGTCGTTGGCCTTGAATCAGCATATTGGCA
1370350 CTTTTATCGT
Statistics
Matches: 242, Mismatches: 54, Indels: 40
0.72 0.16 0.12
Matches are distributed among these distances:
48 1 0.00
49 39 0.16
51 4 0.02
52 148 0.61
53 4 0.02
55 5 0.02
56 1 0.00
57 2 0.01
58 1 0.00
61 36 0.15
62 1 0.00
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (51 bp):
TTCTCATTTTAAGTCTAATGTCGTTGGCCTTGAATCAGCATATTGGCATTC
Found at i:1370345 original size:113 final size:111
Alignment explanation
Indices: 1370147--1370431 Score: 302
Period size: 113 Copynumber: 2.5 Consensus size: 111
1370137 TCTCATTTTC
* * * * *
1370147 AAGTCTAATGTCGCTGGCCGTGAATTAGCACATTGACATTCTTTGTATCTTTAAGCCCAATATCG
1 AAGTCTAATGTCGCTAGCCTTGAATTAGCACATTG-CA-ACTTTCTATCTTTAAGTCCAATATCG
*
1370212 TTGGCCTTGAATCAACATATTAGCACCTTTCTCATCCTTATCATGTTA
64 TTGGCCTTGAATCAACATATTAGCACCTTTATCATCCTTATCATGTTA
* * *
1370260 AAGTCTAATGTCGCTAGCCTTGAATCAGCATATTAGCAACTTTCTCATTTTTAAGTCCAATATCG
1 AAGTCTAATGTCGCTAGCCTTGAATTAGCACATT-GCAACTTTCT-ATCTTTAAGTCCAATATCG
** * * * * * * *
1370325 TTGGCCTTGAATCAGTATATTGGCACTTTTATCGTTCTTCTCATTTTT
64 TTGGCCTTGAATCAACATATTAGCACCTTTATCATCCTTATCATGTTA
* ** *
1370373 AAGTCCAATGTCATTAGTCTTGAATTAGCACATTGGC-ACTCTTCTTATCTTTAAGTCCA
1 AAGTCTAATGTCGCTAGCCTTGAATTAGCACATT-GCAACT-TTC-TATCTTTAAGTCCA
1370432 TGCCTTGAAT
Statistics
Matches: 142, Mismatches: 26, Indels: 8
0.81 0.15 0.05
Matches are distributed among these distances:
112 8 0.06
113 132 0.93
114 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (111 bp):
AAGTCTAATGTCGCTAGCCTTGAATTAGCACATTGCAACTTTCTATCTTTAAGTCCAATATCGTT
GGCCTTGAATCAACATATTAGCACCTTTATCATCCTTATCATGTTA
Found at i:1371433 original size:88 final size:88
Alignment explanation
Indices: 1371284--1371467 Score: 323
Period size: 88 Copynumber: 2.1 Consensus size: 88
1371274 AGTCATTCCA
* *
1371284 TGCTTTCATGCCTTCATGCATACATGCATTTCATACTTTCATGTGAAACTTAAGAAACATTTCAT
1 TGCTTTCACGCCTTCATGCATACATGCATTTCATACCTTCATGTGAAACTTAAGAAACATTTCAT
* *
1371349 GCATTGCATTCATTTCTTTGTAT
66 GCATTACATTCATTTCATTGTAT
1371372 TGCTTTCACGCCTTCATGCATACATGCATTTCATACCTTCATGTGAAACTTAAGAAACATTTCAT
1 TGCTTTCACGCCTTCATGCATACATGCATTTCATACCTTCATGTGAAACTTAAGAAACATTTCAT
1371437 GCATTACATTCATTTCATTGTAT
66 GCATTACATTCATTTCATTGTAT
*
1371460 TACTTTCA
1 TGCTTTCA
1371468 TGCATGCATT
Statistics
Matches: 91, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
88 91 1.00
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.41
Consensus pattern (88 bp):
TGCTTTCACGCCTTCATGCATACATGCATTTCATACCTTCATGTGAAACTTAAGAAACATTTCAT
GCATTACATTCATTTCATTGTAT
Found at i:1376095 original size:21 final size:21
Alignment explanation
Indices: 1376071--1376147 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
1376061 AAAAATTTCA
1376071 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
1376092 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
* *
1376113 AATGTATCGATACA-TTCTACA
1 AATGTATCGATACATTTGTA-G
1376134 AATGTATCGATACA
1 AATGTATCGATACA
1376148 GGGTCCCAAC
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 3 0.06
21 48 0.94
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:1376207 original size:19 final size:19
Alignment explanation
Indices: 1376183--1376250 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
1376173 AATTCAACAA
1376183 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
1376202 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
1376217 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
1376234 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
1376251 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:1376222 original size:13 final size:13
Alignment explanation
Indices: 1376204--1376228 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1376194 ACATAAGTTT
1376204 TGTATCGATACAA
1 TGTATCGATACAA
1376217 TGTATCGATACA
1 TGTATCGATACA
1376229 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1376226 original size:32 final size:32
Alignment explanation
Indices: 1376185--1376247 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1376175 TTCAACAATT
*
1376185 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
1376217 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
1376248 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:1376308 original size:13 final size:13
Alignment explanation
Indices: 1376290--1376315 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1376280 CATTTTTCTG
1376290 TGTATCGATACAT
1 TGTATCGATACAT
1376303 TGTATCGATACAT
1 TGTATCGATACAT
1376316 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1376377 original size:20 final size:20
Alignment explanation
Indices: 1376352--1376406 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
1376342 TTTTACCCAG
1376352 ATGTATCGATACATTTTACA
1 ATGTATCGATACATTTTACA
1376372 ATGTATCGATACATTTTACA
1 ATGTATCGATACATTTTACA
*
1376392 ATGTATTGATACATT
1 ATGTATCGATACATT
1376407 CAGGCATTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTTTACA
Found at i:1378871 original size:28 final size:27
Alignment explanation
Indices: 1378804--1378877 Score: 96
Period size: 27 Copynumber: 2.7 Consensus size: 27
1378794 TCTTCACAAT
* *
1378804 CGGGGATACTCCAATCCCGTTAATCAT
1 CGGGGATACTCCAACCCCGTTAATCAC
*
1378831 CGGGGATACTCCAACCCCGTTATTC-C
1 CGGGGATACTCCAACCCCGTTAATCAC
1378857 CGAGGGGATACTCCAACCCCG
1 C--GGGGATACTCCAACCCCG
1378878 ACTTTATTTC
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
26 1 0.02
27 23 0.55
28 18 0.43
ACGTcount: A:0.23, C:0.35, G:0.22, T:0.20
Consensus pattern (27 bp):
CGGGGATACTCCAACCCCGTTAATCAC
Found at i:1378988 original size:104 final size:104
Alignment explanation
Indices: 1378860--1379082 Score: 254
Period size: 104 Copynumber: 2.1 Consensus size: 104
1378850 TTATTCCCGA
* *** *
1378860 GGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTTTC-ATAATCGGGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAACACCAATTTTCCTATAATCGGGGATACTCCAA
* * * *
1378924 C-CTCGGTTTTA-TTGCTAAAACACTAATTTTTTTTACAATC
66 CTC-CGATTTTATTTGCAAAAACACCAA--TTTTTCACAATC
** * * *
1378964 GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACTCTAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAACACCAATTTTCCTATAATCGGGGATACTCCAA
*
1379029 CTCCGATTTTATTTTCAAAAACACCAATTTTTCACAATC
66 CTCCGATTTTATTTGCAAAAACACCAATTTTTCACAATC
*
1379068 GTGGATACTCCAACC
1 GGGGATACTCCAACC
1379083 TCGTTATTTC
Statistics
Matches: 100, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
104 62 0.62
105 25 0.25
106 13 0.13
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (104 bp):
GGGGATACTCCAACCCCGACTTTATTTCCAAAACACCAATTTTCCTATAATCGGGGATACTCCAA
CTCCGATTTTATTTGCAAAAACACCAATTTTTCACAATC
Found at i:1379039 original size:52 final size:51
Alignment explanation
Indices: 1378906--1379082 Score: 189
Period size: 53 Copynumber: 3.4 Consensus size: 51
1378896 TGATTTTTCA
* * * *
1378906 TAATCGGGGATACTCCAACCTCGGTTTTA-TTGCTAAAACACTAATTTTTTT
1 TAATCGGGGATACTCCAACC-CGGTTTTATTTTCAAAAACACCAATTTTCTT
1378957 TACAATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTTCCTT
1 T--AATCGGGGATACTCCAA-CCCGGTTTTATTTTCAAAAACACCAATTTT-CTT
* * *
1379011 TAATCGGGGATACTCTAACTCCGATTTTATTTTCAAAAACACCAATTTT-TCA
1 TAATCGGGGATACTCCAAC-CCGGTTTTATTTTCAAAAACACCAATTTTCT-T
* *
1379063 CAATCGTGGATACTCCAACC
1 TAATCGGGGATACTCCAACC
1379083 TCGTTATTTC
Statistics
Matches: 109, Mismatches: 9, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
51 4 0.04
52 45 0.41
53 52 0.48
54 8 0.07
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.34
Consensus pattern (51 bp):
TAATCGGGGATACTCCAACCCGGTTTTATTTTCAAAAACACCAATTTTCTT
Found at i:1379101 original size:28 final size:28
Alignment explanation
Indices: 1379065--1379141 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
1379055 ATTTTTCACA
* * *
1379065 ATCGTGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
1379093 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
1379121 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
1379142 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.22, C:0.34, G:0.19, T:0.25
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:1379189 original size:264 final size:264
Alignment explanation
Indices: 1378696--1379189 Score: 798
Period size: 264 Copynumber: 1.9 Consensus size: 264
1378686 AATTCTCCAT
* * *
1378696 AATCAGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGATACTC
1 AATCAGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGATACTC
1378761 CAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAATCCCGTTA
66 CAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAATCCCGTTA
*
1378826 ATCATCGGGGATACTCCAACCCCGTTATTCCCGAGGGGATACTCCAACCCCGACTTTATTTCCAA
131 ATCATCGGGGATACTCCAACCCCGTTATTCCCGAGGGGATACTCCAACCCCGACTTTATTCCCAA
*
1378891 AATATTGATTTTTCATAATCGGGGATACTCCAACCTCGGTTTTATTGCTAAAACACTAATTTTTT
196 AATATTGATTTCTCATAATCGGGGATACTCCAACCTCGGTTTTATTGCTAAAACACTAATTTTTT
1378956 TTAC
261 TTAC
* * *
1378960 AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
1 AATCAGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTT-CTATAATCGGGGATACT
* * *
1379025 CTAACTCCGATTTTATTTTC-AAAAACACCAATTT-TTCACAATCGTGGATACTCCAA-CCTCGT
65 CCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAATCC-CGT
* *
1379087 TATTTCATCGGGGATACTCCAACCCCGTTACTT-CCGAGGGGATACTCCAACCCCGGCTTTATTC
129 TA-ATCATCGGGGATACTCCAACCCCGTTA-TTCCCGAGGGGATACTCCAACCCCGACTTTATTC
*
1379151 CCAAAATATTGATTTCTCATAATTGGGGATACTCCAACC
192 CCAAAATATTGATTTCTCATAATCGGGGATACTCCAACC
1379190 CCGTTATTTT
Statistics
Matches: 212, Mismatches: 14, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
262 2 0.01
263 26 0.12
264 148 0.70
265 36 0.17
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (264 bp):
AATCAGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGATACTC
CAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAATCCCGTTA
ATCATCGGGGATACTCCAACCCCGTTATTCCCGAGGGGATACTCCAACCCCGACTTTATTCCCAA
AATATTGATTTCTCATAATCGGGGATACTCCAACCTCGGTTTTATTGCTAAAACACTAATTTTTT
TTAC
Found at i:1379215 original size:28 final size:29
Alignment explanation
Indices: 1379175--1379229 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
1379165 TCTCATAATT
1379175 GGGGATACTCCAACCCCG-TTATTTTCGA
1 GGGGATACTCCAACCCCGATTATTTTCGA
* * *
1379203 GGGGATATTCCAATCCCGATTTTTTTC
1 GGGGATACTCCAACCCCGATTATTTTC
1379230 TAATCATCGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 16 0.70
29 7 0.30
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (29 bp):
GGGGATACTCCAACCCCGATTATTTTCGA
Found at i:1384083 original size:13 final size:13
Alignment explanation
Indices: 1384065--1384090 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1384055 AATTTTTTTG
1384065 TGTATCGATACAT
1 TGTATCGATACAT
1384078 TGTATCGATACAT
1 TGTATCGATACAT
1384091 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1384799 original size:16 final size:16
Alignment explanation
Indices: 1384774--1384825 Score: 95
Period size: 16 Copynumber: 3.2 Consensus size: 16
1384764 ATTGTAGCAA
1384774 TTTACGCATTCTCCCC
1 TTTACGCATTCTCCCC
*
1384790 TTTACACATTCTCCCC
1 TTTACGCATTCTCCCC
1384806 TTTACGCATTCTCCCC
1 TTTACGCATTCTCCCC
1384822 TTTA
1 TTTA
1384826 TCTCCCCCGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.15, C:0.40, G:0.04, T:0.40
Consensus pattern (16 bp):
TTTACGCATTCTCCCC
Found at i:1384867 original size:21 final size:21
Alignment explanation
Indices: 1384826--1384869 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1384816 CTCCCCTTTA
* *
1384826 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
1384847 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
1384868 TC
1 TC
1384870 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:1386692 original size:13 final size:13
Alignment explanation
Indices: 1386674--1386712 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
1386664 ATAATCACCC
1386674 TGTATCGATACAA
1 TGTATCGATACAA
1386687 TGTATCGATACAA
1 TGTATCGATACAA
1386700 TGTATCGATACAA
1 TGTATCGATACAA
1386713 AGAAAAATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1386927 original size:8 final size:8
Alignment explanation
Indices: 1386914--1386942 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
1386904 CATCATTCAA
1386914 CACAAAAT
1 CACAAAAT
1386922 CACAAAAT
1 CACAAAAT
1386930 CACAAAAT
1 CACAAAAT
1386938 CACAA
1 CACAA
1386943 GATTTAATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.28, G:0.00, T:0.10
Consensus pattern (8 bp):
CACAAAAT
Found at i:1390660 original size:21 final size:21
Alignment explanation
Indices: 1390631--1390675 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1390621 AAGTTTTTAT
*
1390631 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
1390651 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
1390673 TTT
1 TTT
1390676 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:1392913 original size:13 final size:13
Alignment explanation
Indices: 1392895--1392920 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1392885 AATTTTTTTG
1392895 TGTATCGATACAT
1 TGTATCGATACAT
1392908 TGTATCGATACAT
1 TGTATCGATACAT
1392921 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1397691 original size:17 final size:17
Alignment explanation
Indices: 1397669--1397702 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1397659 AAGAGGTAAG
*
1397669 AAGGAAGGCAAAGTCAA
1 AAGGAAGCCAAAGTCAA
*
1397686 AAGGAAGCCACAGTCAA
1 AAGGAAGCCAAAGTCAA
1397703 GAATCAATGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.18, G:0.26, T:0.06
Consensus pattern (17 bp):
AAGGAAGCCAAAGTCAA
Found at i:1403392 original size:23 final size:23
Alignment explanation
Indices: 1403363--1403406 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
1403353 TCTCTTCAAA
1403363 AAAGAAAAAAAACAAAAAAAAAC
1 AAAGAAAAAAAACAAAAAAAAAC
* *
1403386 AAAGAAACAAAACAAAGAAAA
1 AAAGAAAAAAAACAAAAAAAA
1403407 TGGAGAGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.84, C:0.09, G:0.07, T:0.00
Consensus pattern (23 bp):
AAAGAAAAAAAACAAAAAAAAAC
Found at i:1403397 original size:13 final size:12
Alignment explanation
Indices: 1403363--1403406 Score: 56
Period size: 13 Copynumber: 3.7 Consensus size: 12
1403353 TCTCTTCAAA
1403363 AAAGAAAAAAA-
1 AAAGAAAAAAAC
1403374 ACAA-AAAAAAAC
1 A-AAGAAAAAAAC
1403386 AAAGAAACAAAAC
1 AAAGAAA-AAAAC
1403399 AAAGAAAA
1 AAAGAAAA
1403407 TGGAGAGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
11 10 0.34
12 7 0.24
13 12 0.41
ACGTcount: A:0.84, C:0.09, G:0.07, T:0.00
Consensus pattern (12 bp):
AAAGAAAAAAAC
Found at i:1404576 original size:55 final size:55
Alignment explanation
Indices: 1404416--1405043 Score: 652
Period size: 55 Copynumber: 11.0 Consensus size: 55
1404406 GATGCCTTTT
** *
1404416 CCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGACGC
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGAC-C
* *
1404472 CTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCC-GTCCCCAAAGAGCAGGACC
1 C----CTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCCAGTCCTCAAAGAGCAGGACC
*
1404531 CCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCCAGTCCTCAAAGAGTAGGACGCCTTC
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CCAGTCCTCAAAGAGCAGGA---C--C
** *
1404591 TCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGATGCC
1 -CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGA--CC
* * *
1404649 TTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAATCCTCAAAGAGCGGGATGCC
1 ---CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGA--CC
* * * *
1404708 TTTTCTTTAAAAGCCCACCCAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCAGGATGCTTTT
1 ---CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGA--C---C
* * *
1404770 TCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACC
1 CCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACC
* * * *
1404826 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACA
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACC
** *
1404881 CCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACA
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACC
* * *
1404936 CCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACG
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACC
* ** * **
1404991 CCTTTCAAAGCCCACATGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGA
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGA
1405044 TACACTTTAT
Statistics
Matches: 506, Mismatches: 45, Indels: 43
0.85 0.08 0.07
Matches are distributed among these distances:
53 2 0.00
54 3 0.01
55 237 0.47
56 5 0.01
58 2 0.00
59 84 0.17
60 102 0.20
61 69 0.14
62 2 0.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (55 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACC
Found at i:1405841 original size:19 final size:19
Alignment explanation
Indices: 1405817--1405916 Score: 107
Period size: 19 Copynumber: 5.9 Consensus size: 19
1405807 AATTCAACAA
1405817 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
1405836 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
1405851 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
1405868 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
1405883 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
1405900 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
1405917 TTAGCTACTT
Statistics
Matches: 69, Mismatches: 0, Indels: 24
0.74 0.00 0.26
Matches are distributed among these distances:
13 22 0.32
15 4 0.06
17 4 0.06
19 39 0.57
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:1405856 original size:13 final size:13
Alignment explanation
Indices: 1405838--1405894 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
1405828 ACATAAGTTT
1405838 TGTATCGATACAA
1 TGTATCGATACAA
1405851 TGTATCGATACATAA
1 TGTATCGATAC--AA
1405866 GTTTTGTATCGATACAA
1 ----TGTATCGATACAA
1405883 TGTATCGATACA
1 TGTATCGATACA
1405895 TAAGTATTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1405860 original size:32 final size:32
Alignment explanation
Indices: 1405819--1405913 Score: 181
Period size: 32 Copynumber: 3.0 Consensus size: 32
1405809 TTCAACAATT
1405819 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTTTTGTATCGATACAA
1405851 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTTTTGTATCGATACAA
*
1405883 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTTTTGTATCGATACA
1405914 TAATTAGCTA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 62 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTTTTGTATCGATACAA
Found at i:1405974 original size:13 final size:13
Alignment explanation
Indices: 1405956--1405981 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1405946 CATTTTTCTG
1405956 TGTATCGATACAT
1 TGTATCGATACAT
1405969 TGTATCGATACAT
1 TGTATCGATACAT
1405982 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1405978 original size:33 final size:33
Alignment explanation
Indices: 1405936--1406002 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1405926 TCCAAGGAAA
***
1405936 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
1405969 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
1406002 T
1 T
1406003 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:1408378 original size:51 final size:52
Alignment explanation
Indices: 1408322--1408708 Score: 224
Period size: 51 Copynumber: 7.3 Consensus size: 52
1408312 AATTCTCACC
*
1408322 AATCGGGGATATTCCAACTCCGATTTTATTTTC-AAAACACTAATTTTCTAT
1 AATCGGGGATACTCCAACTCCGATTTTATTTTCAAAAACACTAATTTTCTAT
* * *
1408373 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAA-TTTCTTCAC
1 AATCGGGGATACTCCAACTCCGATTTTATTTTC-AAAAACACTAATTTTC-T-AT
* * * ** ** * * * *
1408427 AATCGAGGATACTCCAAC-CCCA-TTAATCATCGGGGATACTCCAACCCCGTTATTC-CT
1 AATCGGGGATACTCCAACTCCGATTTTATTTTC--AAAAACACTAA-----TT-TTCTAT
* * * * * * *
1408484 GA--GGGGATACTCCAACCCCGACTTTA-TTTCCAAAATATTGATTTT-TCAT
1 AATCGGGGATACTCCAACTCCGATTTTATTTTCAAAAACACTAATTTTCT-AT
* * * * *
1408533 AATTGGGGATACTCCAAC-CTCGATTTTA-TTGCTAAAACACTAATTTTTTTTTAC
1 AATCGGGGATACTCCAACTC-CGATTTTATTTTCAAAAACACTAA---TTTTCTAT
* * *
1408587 AATCGGGGATACTCCAACCCCGATTTTATTTTC-AAAACACCAATTTTCCTTT
1 AATCGGGGATACTCCAACTCCGATTTTATTTTCAAAAACACTAATTTT-CTAT
* *
1408639 AATCGGGGATACTCCAACTCTGATTTTATTTTCAAAAACACTAATTTT-TCAC
1 AATCGGGGATACTCCAACTCCGATTTTATTTTCAAAAACACTAATTTTCT-AT
*
1408691 AATCGAGGATACTCCAAC
1 AATCGGGGATACTCCAAC
1408709 CTTGTTATTT
Statistics
Matches: 256, Mismatches: 52, Indels: 55
0.71 0.14 0.15
Matches are distributed among these distances:
48 2 0.01
49 4 0.02
50 1 0.00
51 67 0.26
52 58 0.23
53 33 0.13
54 60 0.23
55 18 0.07
56 5 0.02
57 4 0.02
59 1 0.00
60 3 0.01
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.33
Consensus pattern (52 bp):
AATCGGGGATACTCCAACTCCGATTTTATTTTCAAAAACACTAATTTTCTAT
Found at i:1408498 original size:28 final size:27
Alignment explanation
Indices: 1408433--1408503 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
1408423 TCACAATCGA
* *
1408433 GGATACTCCAACCCCATTAATCATCGG
1 GGATACTCCAACCCCGTTAATCATAGG
* *
1408460 GGATACTCCAACCCCGTTATTCCTGAGG
1 GGATACTCCAACCCCGTTAATCAT-AGG
1408488 GGATACTCCAACCCCG
1 GGATACTCCAACCCCG
1408504 ACTTTATTTC
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 21 0.54
28 18 0.46
ACGTcount: A:0.25, C:0.35, G:0.18, T:0.21
Consensus pattern (27 bp):
GGATACTCCAACCCCGTTAATCATAGG
Found at i:1408605 original size:54 final size:53
Alignment explanation
Indices: 1408537--1408710 Score: 189
Period size: 54 Copynumber: 3.3 Consensus size: 53
1408527 TTTCATAATT
1408537 GGGGATACTCCAACCTCGATTTTATTGCTAAAACACTAATTTTTTTTTACAATC
1 GGGGATACTCCAACCTCGATTTTATT-CTAAAACACTAATTTTTTTTTACAATC
* * * **
1408591 GGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCCTTT--AATC
1 GGGGATACTCCAACCTCGATTTTATTCT-AAAACACTAATTTTTTTTTACAATC
* *
1408643 GGGGATACTCCAA-CTCTGATTTTATTTTCAAAAACACTAA---TTTTTCACAATC
1 GGGGATACTCCAACCTC-GATTTTA--TTCTAAAACACTAATTTTTTTTTACAATC
*
1408695 GAGGATACTCCAACCT
1 GGGGATACTCCAACCT
1408711 TGTTATTTCA
Statistics
Matches: 100, Mismatches: 13, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
50 3 0.03
51 2 0.02
52 40 0.40
53 12 0.12
54 43 0.43
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.35
Consensus pattern (53 bp):
GGGGATACTCCAACCTCGATTTTATTCTAAAACACTAATTTTTTTTTACAATC
Found at i:1408608 original size:105 final size:104
Alignment explanation
Indices: 1408486--1408709 Score: 274
Period size: 105 Copynumber: 2.1 Consensus size: 104
1408476 TTATTCCTGA
* *** * *
1408486 GGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTTTC-ATAATTGGGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAACACCAATTTTCCTATAATCGGGGATACTCCAA
* *
1408550 C-CTCGATTTTA-TTGCTAAAACACTAATTTTTTTTTACAATC
66 CTCT-GATTTTATTTGCAAAAACACTAA---TTTTTCACAATC
* * *
1408591 GGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAACACCAATTTTCCTATAATCGGGGATACTCCAA
*
1408656 CTCTGATTTTATTTTCAAAAACACTAATTTTTCACAATC
66 CTCTGATTTTATTTGCAAAAACACTAATTTTTCACAATC
*
1408695 GAGGATACTCCAACC
1 GGGGATACTCCAACC
1408710 TTGTTATTTC
Statistics
Matches: 103, Mismatches: 13, Indels: 7
0.84 0.11 0.06
Matches are distributed among these distances:
104 25 0.24
105 38 0.37
106 25 0.24
107 15 0.15
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.35
Consensus pattern (104 bp):
GGGGATACTCCAACCCCGACTTTATTTCCAAAACACCAATTTTCCTATAATCGGGGATACTCCAA
CTCTGATTTTATTTGCAAAAACACTAATTTTTCACAATC
Found at i:1408664 original size:52 final size:52
Alignment explanation
Indices: 1408486--1408710 Score: 208
Period size: 52 Copynumber: 4.3 Consensus size: 52
1408476 TTATTCCTGA
* * * * * * * *
1408486 GGGGATACTCCAACCCCGACTTTA-TTTCCAAAATATTGATTTTTC-ATAATT
1 GGGGATACTCCAA-CCTGATTTTATTTTCAAAAACACTAATTTTTCTTTAATC
* * *
1408537 GGGGATACTCCAACCTCGATTTTA-TTGCTAAAACACTAATTTTTTTTTACAATC
1 GGGGATACTCCAACCT-GATTTTATTTTCAAAAACACTAATTTTTCTTT--AATC
* * *
1408591 GGGGATACTCCAACCCCGATTTTATTTTC-AAAACACCAATTTTCCTTTAATC
1 GGGGATACTCCAA-CCTGATTTTATTTTCAAAAACACTAATTTTTCTTTAATC
**
1408643 GGGGATACTCCAACTCTGATTTTATTTTCAAAAACACTAATTTTTC-ACAATC
1 GGGGATACTCCAAC-CTGATTTTATTTTCAAAAACACTAATTTTTCTTTAATC
*
1408695 GAGGATACTCCAACCT
1 GGGGATACTCCAACCT
1408711 TGTTATTTCA
Statistics
Matches: 145, Mismatches: 21, Indels: 16
0.80 0.12 0.09
Matches are distributed among these distances:
50 2 0.01
51 37 0.26
52 48 0.33
53 14 0.10
54 39 0.27
55 5 0.03
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (52 bp):
GGGGATACTCCAACCTGATTTTATTTTCAAAAACACTAATTTTTCTTTAATC
Found at i:1408841 original size:28 final size:29
Alignment explanation
Indices: 1408796--1408850 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 29
1408786 TCTCATAATT
1408796 GGGGATACTCCAACCCCG-TTATTTTCGA
1 GGGGATACTCCAACCCCGATTATTTTCGA
* * * *
1408824 GGGGATATTCTAATCCCGATTTTTTTC
1 GGGGATACTCCAACCCCGATTATTTTC
1408851 TAATCATCGA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 15 0.68
29 7 0.32
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.36
Consensus pattern (29 bp):
GGGGATACTCCAACCCCGATTATTTTCGA
Found at i:1408849 original size:265 final size:261
Alignment explanation
Indices: 1408321--1408813 Score: 715
Period size: 265 Copynumber: 1.9 Consensus size: 261
1408311 CAATTCTCAC
* * *
1408321 CAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGATACT
1 CAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGATACT
1408386 CCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCCCATT
66 CCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCCCATT
* *
1408451 AATCATCGGGGATACTCCAACCCCGTTATTCCTGAGGGGATACTCCAACCCCGACTTTATTTCCA
131 AATCATCAGGGATACTCCAACCCCG---TT-CTGAGGGGATACTCCAACCCCGACTTTATTCCCA
* * ** * *
1408516 AAATATTGATTTTTCATAATTGGGGATACTCCAACCTCGATTTTATTGCTAAAACACTAATTTTT
192 AAATATTGATTTCTCATAATTGGGGATACTCCAACCCCGATTTTAGAGCGAAAACACTAATATTT
1408581 TTTTA
257 TTTTA
*
1408586 CAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATAC
1 CAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTT-CTATAATCGGGGATAC
* * * ***
1408651 TCCAACTCTGATTTTATTTTC-AAAAACACTAATTT-TTCACAATCGAGGATACTCCAACCTTGT
65 TCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCCCAT
* * *
1408714 TATTTCATCAGGGATACTCCAACCCCG-T-TGAGGGGATGCTCCAACCCCGGCTTTATTCCCAAA
130 TA-ATCATCAGGGATACTCCAACCCCGTTCTGAGGGGATACTCCAACCCCGACTTTATTCCCAAA
1408777 ATATTGATTTCTCATAATTGGGGATACTCCAACCCCG
194 ATATTGATTTCTCATAATTGGGGATACTCCAACCCCG
1408814 TTATTTTCGA
Statistics
Matches: 209, Mismatches: 17, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
259 67 0.32
261 1 0.00
264 27 0.13
265 80 0.38
266 34 0.16
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (261 bp):
CAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGATACT
CCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCCCATT
AATCATCAGGGATACTCCAACCCCGTTCTGAGGGGATACTCCAACCCCGACTTTATTCCCAAAAT
ATTGATTTCTCATAATTGGGGATACTCCAACCCCGATTTTAGAGCGAAAACACTAATATTTTTTT
A
Found at i:1413149 original size:3 final size:3
Alignment explanation
Indices: 1413141--1413175 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
1413131 AACAAAATGA
1413141 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1413176 CAACAACAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:1413180 original size:3 final size:3
Alignment explanation
Indices: 1413174--1413200 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
1413164 TAATAATAAT
1413174 AAC AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC
1413201 TAGAATATAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:1418814 original size:5 final size:5
Alignment explanation
Indices: 1418804--1418835 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
1418794 AAAGAATAAA
1418804 AAAAT AAAAT AAAAT --AAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1418836 AGATAATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
3 3 0.12
5 22 0.88
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:1418831 original size:13 final size:13
Alignment explanation
Indices: 1418798--1418833 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
1418788 CTAATGAAAG
*
1418798 AATAAAAAAATAA
1 AATAAAATAATAA
1418811 AATAAAATAATAA
1 AATAAAATAATAA
1418824 AATAAAATAA
1 AATAAAATAA
1418834 AAAGATAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (13 bp):
AATAAAATAATAA
Found at i:1418841 original size:18 final size:18
Alignment explanation
Indices: 1418798--1418835 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
1418788 CTAATGAAAG
*
1418798 AATAAAAAAATAAAATAA
1 AATAATAAAATAAAATAA
1418816 AATAATAAAATAAAATAA
1 AATAATAAAATAAAATAA
1418834 AA
1 AA
1418836 AGATAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (18 bp):
AATAATAAAATAAAATAA
Found at i:1419276 original size:19 final size:18
Alignment explanation
Indices: 1419252--1419314 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
1419242 ATTCAATAAA
1419252 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
1419271 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
1419284 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
1419303 TGTATCGATACA
1 TGTATCGATACA
1419315 ATGTATCGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
17 2 0.05
19 23 0.61
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:1419289 original size:13 final size:13
Alignment explanation
Indices: 1419271--1419295 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1419261 ACATAAGTGT
1419271 TGTATCGATACAA
1 TGTATCGATACAA
1419284 TGTATCGATACA
1 TGTATCGATACA
1419296 TAAGTTTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1419291 original size:32 final size:32
Alignment explanation
Indices: 1419250--1419322 Score: 137
Period size: 32 Copynumber: 2.3 Consensus size: 32
1419240 ACATTCAATA
1419250 AATGTATCGATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
*
1419282 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
1419314 AATGTATCG
1 AATGTATCG
1419323 CTAGGAAGCT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCGATAC
Found at i:1421810 original size:52 final size:51
Alignment explanation
Indices: 1421751--1422087 Score: 213
Period size: 51 Copynumber: 6.5 Consensus size: 51
1421741 CTCAATTGTT
1421751 TATAATCGGGGATACTCCAATCCCGGTTTTATTTTCAAAACACCAATTTTCC
1 TATAATCGGGGATACTCCAA-CCCGGTTTTATTTTCAAAACACCAATTTTCC
* * * *
1421803 TTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTTTC
1 TATAATCGGGGATACTCCAAC-CCGGTTTTATTTTC--AAAACACCAATTTTCC
* * * * ***** * * *
1421857 -ACAAGCGAGGATACTCCAACCTCGTTATTTCATCGGGGATACTCCAA---CCC
1 TATAATCGGGGATACTCCAACC-CGGT-TTT-ATTTTCAAAACACCAATTTTCC
* * * * *
1421907 CATTACCTCCGAGGGATACTCCAACCCCGGCTTTATTTTCAAAATATCAA-TTT-C
1 TA-TA-AT-CG-GGGATACTCCAA-CCCGGTTTTATTTTCAAAACACCAATTTTCC
* * *
1421961 TCATAATCGGGGATACTCCAACCTCGGTTTTA-TCTCTAAAACACTAATTTTTC
1 T-ATAATCGGGGATACTCCAACC-CGGTTTTATTTTC-AAAACACCAATTTTCC
* *
1422014 -ACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCC
1 TATAATCGGGGATACTCCAA-CCCGGTTTTATTTTCAAAACACCAATTTTCC
* * *
1422065 TTTCATCGAGGATACTCCAACCC
1 TATAATCGGGGATACTCCAACCC
1422088 CATTGCCTCC
Statistics
Matches: 213, Mismatches: 50, Indels: 45
0.69 0.16 0.15
Matches are distributed among these distances:
50 6 0.03
51 70 0.33
52 58 0.27
53 35 0.16
54 26 0.12
55 16 0.08
56 2 0.01
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (51 bp):
TATAATCGGGGATACTCCAACCCGGTTTTATTTTCAAAACACCAATTTTCC
Found at i:1422160 original size:51 final size:50
Alignment explanation
Indices: 1422100--1422271 Score: 200
Period size: 51 Copynumber: 3.4 Consensus size: 50
1422090 TTGCCTCCGA
* * *
1422100 GGGGATACTCCAACCCCGGCTTTATTTCCAAAATATCAATTTTTCATAATC
1 GGGGATACTCCAACCCCGGTTTTATTTACAAAACA-CAATTTTTCATAATC
* * *
1422151 GGGGATACTCCAACCCCGGTTTTATCTATAAAACACTAATTTTTCACAATC
1 GGGGATACTCCAACCCCGGTTTTATTTACAAAACAC-AATTTTTCATAATC
* * * * * *
1422202 GGGGATACTCAAACCCTGGTTTTATTTTCAAAACACCAATTTTCCTTTTATC
1 GGGGATACTCCAACCCCGGTTTTATTTACAAAACA-CAATTTTTC-ATAATC
1422254 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
1422272 TTATTTTCGA
Statistics
Matches: 101, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
50 1 0.01
51 80 0.79
52 20 0.20
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.32
Consensus pattern (50 bp):
GGGGATACTCCAACCCCGGTTTTATTTACAAAACACAATTTTTCATAATC
Found at i:1422190 original size:182 final size:182
Alignment explanation
Indices: 1421884--1422351 Score: 724
Period size: 182 Copynumber: 2.6 Consensus size: 182
1421874 AACCTCGTTA
*
1421884 TTTCATCGGGGATACTCCAACCCCATTACCTCCGA-GGGATACTCCAACCCCGGCTTTATTTTCA
1 TTTCATCGGGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCA
* *
1421948 AAATATCAATTTCTCATAATCGGGGATACTCCAACCTCGGTTTTATCTCTAAAACACTAATTTTT
66 AAATATCAATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATCTATAAAACACTAATTTTT
*
1422013 CACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCC
131 CACAATCGGGGATACTCAAACCCCGATTTTATTTTCAAAACACCAATTTTCC
* *
1422065 TTTCATCGAGGATACTCCAACCCCATTGCCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCA
1 TTTCATCGGGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCA
*
1422130 AAATATCAATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATCTATAAAACACTAATTTTT
66 AAATATCAATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATCTATAAAACACTAATTTTT
* *
1422195 CACAATCGGGGATACTCAAACCCTGGTTTTATTTTCAAAACACCAATTTTCC
131 CACAATCGGGGATACTCAAACCCCGATTTTATTTTCAAAACACCAATTTTCC
* * ** * * * *
1422247 TTTTATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGTTACTCTAACTCCCAGCTTTA-TTCC
1 TTTCATCGGGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAAC-CCCGGCTTTATTTCC
** *
1422311 TAAAATATTGATTTCTCATAATCGGGGATACTCTAACCCCG
65 -AAAATATCAATTTCTCATAATCGGGGATACTCCAACCCCG
1422352 TTATTTTCGA
Statistics
Matches: 261, Mismatches: 23, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
181 33 0.13
182 183 0.70
183 45 0.17
ACGTcount: A:0.27, C:0.28, G:0.13, T:0.32
Consensus pattern (182 bp):
TTTCATCGGGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCA
AAATATCAATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATCTATAAAACACTAATTTTT
CACAATCGGGGATACTCAAACCCCGATTTTATTTTCAAAACACCAATTTTCC
Found at i:1422430 original size:78 final size:79
Alignment explanation
Indices: 1422202--1422543 Score: 311
Period size: 78 Copynumber: 4.3 Consensus size: 79
1422192 TTTCACAATC
* * * * *
1422202 GGGGATACTCAAACCCTGGTTTTATTT-TCAAAACACCAATTTTCCTTTTATCGGGGATACTCCA
1 GGGGATACTCCAACCC-GGTTTTATTTCT-AAAACATCAATTTTTC-ATAATCGGGGATACTCCA
1422266 ACCCCGTTATTTTCG-A
63 ACCCCGTTATTTTCGAA
* * * * * * ** * *
1422282 GGGGTTACTCTAACTCCCAGCTTTATTCCTAAAATATTGATTTCTCATAATCGGGGATACTCTAA
1 GGGGATACTCCAA--CCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAA
1422347 CCCCGTTATTTTCGAA
64 CCCCGTTATTTTCGAA
* ** *
1422363 -GGGATACTCCAACCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGAATACTTTAATC
1 GGGGATACTCCAACCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAACC
*
1422427 CCGTTA-TTTCCAA
66 CCGTTATTTTCGAA
* * * * * *
1422440 GGGGATACTCCAATCCCGATTTCATTTCCT-AATCATCAATTTTTCACT-ACCCGAGATACTCCA
1 GGGGATACTCCAA-CCCGGTTTTATTT-CTAAAACATCAATTTTTCA-TAATCGGGGATACTCCA
1422503 ACCCCGTTATTTTC-AA
63 ACCCCGTTATTTTCGAA
*
1422519 GGGGATACTCCAACCCCGTTATTAT
1 GGGGATACTCCAACCCGGTT-TTAT
1422544 CTCCAAAATT
Statistics
Matches: 212, Mismatches: 40, Indels: 21
0.78 0.15 0.08
Matches are distributed among these distances:
77 6 0.03
78 65 0.31
79 61 0.29
80 58 0.27
81 18 0.08
82 4 0.02
ACGTcount: A:0.27, C:0.25, G:0.13, T:0.35
Consensus pattern (79 bp):
GGGGATACTCCAACCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAACC
CCGTTATTTTCGAA
Found at i:1422560 original size:79 final size:78
Alignment explanation
Indices: 1422255--1422565 Score: 265
Period size: 79 Copynumber: 3.9 Consensus size: 78
1422245 CCTTTTATCG
* * * *
1422255 GGGATACTCCAACCCCGTTATTTTCGAGGGGTTACTCTAACTCCCAGCTTTA-TTCCTAAAAT-A
1 GGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAAC-CCC-GTTTTATTTCC-AAAATAA
** * *
1422318 TTGATTTCTCATAATCG
63 TCAATTTTTCATAA-CC
* * * *
1422335 GGGATACTCTAACCCCGTTATTTTCGAA-GGGATACTCCAACCCGGTTTTATTTCTAAAA-CATC
1 GGGATACTCCAACCCCGTTATTTTC-AAGGGGATACTCCAACCCCGTTTTATTTCCAAAATAATC
*
1422398 AATTTTTCATAATC
65 AATTTTTCATAACC
** * * * * * *
1422412 GGGAATACTTTAATCCCGTTATTTCCAAGGGGATACTCCAATCCCGATTTCATTTCC-TAATCAT
1 GGG-ATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCCG-TTTTATTTCCAAAATAAT
*
1422476 CAATTTTTCACTACCC
64 CAATTTTTCA-TAACC
* * * *
1422492 GAGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCCGTTATTATCTCCAAAAT-TTA
1 GGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCCGTT-TTATTTCCAAAATAATC
1422556 AATTTTTCAT
65 AATTTTTCAT
1422566 CGGGAAATAT
Statistics
Matches: 188, Mismatches: 33, Indels: 22
0.77 0.14 0.09
Matches are distributed among these distances:
77 5 0.03
78 60 0.32
79 79 0.42
80 43 0.23
81 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.13, T:0.35
Consensus pattern (78 bp):
GGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCCGTTTTATTTCCAAAATAATCA
ATTTTTCATAACC
Found at i:1429055 original size:55 final size:55
Alignment explanation
Indices: 1428916--1430268 Score: 1459
Period size: 55 Copynumber: 24.0 Consensus size: 55
1428906 TTTTCTTTTT
* * *
1428916 AAAGCCCACACAAGCTGGTGGCACCTTTTAGTCCTCAAAGAGCACGACGCCTTCTCC
1 AAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTT-T-C
*
1428973 TTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCCAAGAGCAGGACGCCTTTC
1 ----AAAGCCCACACAAGTTGGTGGCACCTT-CTAGTCCTCAAAGAGCAGGACGCCTTTC
* * * *
1429032 AAAGCCCACACGAGTTGGTGGCACCTTTTAGTCTTCAAAGAGCAGGACGCCTTTT
1 AAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTC
*
1429087 AAAGCCCACACAAGTTGGTGGCACCTT-TAGTCCTCAAAGAGCAGGATGCCTTTC
1 AAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTC
* * * *
1429141 AAAGCCCACACGAGCTGGTGGCA-CTTCCTAGTCCTTAAAGAGTAGGACGCCTTTC
1 AAAGCCCACACAAGTTGGTGGCACCTT-CTAGTCCTCAAAGAGCAGGACGCCTTTC
* * * *
1429196 AAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGACGCCTTTT
1 AAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTC
*
1429251 AAAGCCCACACAAGTTGGTGGCACCTT-TAGTCCTCAAAGAGCAGGATGCCTTTC
1 AAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTC
* * * * *
1429305 AAAACCCATACGAGTTGGTGGCA-TTTC-AGTCCTCAAAGAGCAGGATGCCTTTTCC
1 AAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCC-TTT-C
* *
1429360 TTTTAAAGCCCACACAAGCTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCC
1 ----AAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCC-TTT-C
*
1429421 TTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGCAGGACACCTTTC
1 ----AAAGCCCACACAAGTTGGTGGCACCTT-CTAGTCCTCAAAGAGCAGGACGCCTTTC
* * * * *
1429480 AAAGCCCACACTAGTTGGTGGCATCTTTTAGTCCTCAAAGAGCAGGACGCATTTT
1 AAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTC
*
1429535 AAAGCCCACACAAGTTGGTGGCACCTT-TAGTCCTCAAAGAGCAGGATGCCTTTC
1 AAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTC
* * * *
1429589 AAAGCCTACACGAGTTGGTGGCA-TTTC-AGTCCTCAAAGAGCAGGATGCCTTTTCC
1 AAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCC-TTT-C
* * * * *
1429644 TTTTAAAGCCCACACAAGCTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGAGGTCTTCTCCTTTT
1 ----AAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGC---AGG---ACGCCTTTC
* *
1429709 AAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGCATGATGCCTTTC
1 AAAGCCCACACAAGTTGGTGGCACCTT-CTAGTCCTCAAAGAGCAGGACGCCTTTC
* * * * *
1429764 AAAGCCCACATAAGTTGGTGGCACCTTTTAGTCCTCAAAAAACAGGACGCCTTTT
1 AAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTC
* * *
1429819 AAAGCCCACACAAGTTGGTGGCA-CTTTTAGTCCTCAAAGAGCAAGATGCCTTTC
1 AAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTC
* *
1429873 AAAGCCCACACGAGTTGGTGGCA-CTTC-AGTCCTCAAAGAGCAGGATGCCTTTTCC
1 AAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCC-TTT-C
* *
1429928 TTTTAAAGCCCACACAAGCTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCC
1 ----AAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCC-TTT-C
* *
1429989 TTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCTTCAAAGAGCAGGACGCCTTTT
1 ----AAAGCCCACACAAGTTGGTGGCACCTT-CTAGTCCTCAAAGAGCAGGACGCCTTTC
* *
1430048 AAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCGTCAAAGAGCAGGACGTCTTTC
1 AAAGCCCACACAAGTTGGTGGCACCTT-CTAGTCCTCAAAGAGCAGGACGCCTTTC
* * * *
1430103 AAAGCCCACACCAGTTGGTGGCACCTT-TAGTCCTCAAAGAGCAGGATGCGTTGC
1 AAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTC
* * * *
1430157 AAAGCCCACACGAGTTGGTGGCA-CTTC-AGTCCTCAAAGAGTAGGATGTCTTTTCCTTTT
1 AAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGA---C---GCCTTTC
*
1430216 AAAGCCCACACAAGTTGGTGGCA-CTTCTCAATCCTCAAAGAGCAGGACGCCTT
1 AAAGCCCACACAAGTTGGTGGCACCTTCT-AGTCCTCAAAGAGCAGGACGCCTT
1430269 CTCCCTTCAC
Statistics
Matches: 1125, Mismatches: 115, Indels: 110
0.83 0.09 0.08
Matches are distributed among these distances:
53 92 0.08
54 238 0.21
55 390 0.35
56 15 0.01
58 3 0.00
59 91 0.08
60 26 0.02
61 262 0.23
64 3 0.00
66 3 0.00
67 2 0.00
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (55 bp):
AAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTC
Found at i:1429486 original size:284 final size:284
Alignment explanation
Indices: 1428696--1430534 Score: 2403
Period size: 284 Copynumber: 6.5 Consensus size: 284
1428686 CTCTTTTAGC
* * **
1428696 CCTTTCAGTCCTCAAAGAGCAAGATGCCTTTTAAAGCCCACACGAGTTGGTGGCACCCTCTAGTC
1 CCTTT-AGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACGAGTTGGTGGCA-TTTC-AGTC
* * *
1428761 CTCAAAGAGCAGGACGCCTTTTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTT-GTC
63 CTCAAAGAGCAGGATGCC----TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTC
* * * * *
1428825 CTCAAAGAGTAGGACACCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCCTCC-GGTCCTC
124 CTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTC
* *
1428889 AAAGAGCAGGATGCCTTTTTTCTTTTTAAAGCCCACACAAGCTGGTGGCACCTTTTAGTCCTCAA
188 AAAGAGCAGGACGCC---TTTC-----AAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAA
*
1428954 AGAGCACGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA
245 AGAGCAGGACG------CCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
1429000 -CTTCCTAGTCCTCCAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGT
1 CCTT--TAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACGAGTTGGTGGCA--TTTCAGT
* *
1429064 CTTCAAAGAGCAGGA---C---GCCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTTAGTCCTC
62 CCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTC
* * * *
1429122 AAAGAGCAGGATGCC-TTT-C----AAAGCCCACACGAGCTGGTGGCACTTCCTAGTCCTTAAAG
127 AAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAG
* * *
1429181 AGTAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGACGC
192 AGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGC
1429246 CTTTTAAAGCCCACACAAGTTGGTGGCA
257 CTTTTAAAGCCCACACAAGTTGGTGGCA
* *
1429274 CCTTTAGTCCTCAAAGAGCAGGATGCCTTTCAAAACCCATACGAGTTGGTGGCATTTCAGTCCTC
1 CCTTTAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACGAGTTGGTGGCATTTCAGTCCTC
*
1429339 AAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTTAGTCCTCAAAG
66 AAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAG
1429404 AGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCA
131 AGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCA
* * * *
1429469 GGACACCTTTCAAAGCCCACACTAGTTGGTGGCATCTTTTAGTCCTCAAAGAGCAGGACGCATTT
196 GGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCCTTT
1429534 TAAAGCCCACACAAGTTGGTGGCA
261 TAAAGCCCACACAAGTTGGTGGCA
*
1429558 CCTTTAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCTACACGAGTTGGTGGCATTTCAGTCCTC
1 CCTTTAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACGAGTTGGTGGCATTTCAGTCCTC
*
1429623 AAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTTAGTCCTCAAAG
66 AAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAG
* * * *
1429688 AGCAAGAGGTCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCA
131 AGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCA
* * * * *
1429753 TGATGCCTTTCAAAGCCCACATAAGTTGGTGGCACCTTTTAGTCCTCAAAAAACAGGACGCCTTT
196 GGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCCTTT
1429818 TAAAGCCCACACAAGTTGGTGGCA
261 TAAAGCCCACACAAGTTGGTGGCA
* * *
1429842 CTTTTAGTCCTCAAAGAGCAAGATGCCTTTCAAAGCCCACACGAGTTGGTGGCACTTCAGTCCTC
1 CCTTTAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACGAGTTGGTGGCATTTCAGTCCTC
*
1429907 AAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTTAGTCCTCAAAG
66 AAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAG
*
1429972 AGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCTTCAAAGAGCA
131 AGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCA
* * * *
1430037 GGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCGTCAAAGAGCAGGACGTCTT
196 GGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-TTAGTCCTCAAAGAGCAGGACGCCTT
* *
1430101 TCAAAGCCCACACCAGTTGGTGGCA
260 TTAAAGCCCACACAAGTTGGTGGCA
* * *
1430126 CCTTTAGTCCTCAAAGAGCAGGATGCGTTGCAAAGCCCACACGAGTTGGTGGCACTTCAGTCCTC
1 CCTTTAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACGAGTTGGTGGCATTTCAGTCCTC
* * * *
1430191 AAAGAGTAGGATGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCTCAATCCTCAAA
66 AAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-TTAGTCCTCAAA
* * *
1430255 GAGCAGGACGCCTTCTCC-CTT--------CAC----------C-CTT--TAGTCCTTAAAGAGC
130 GAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGC
* * *
1430298 ATGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTTAGTCCTCAAAGTGCAGGACGCCTT
195 AGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCCTT
* *
1430362 TCAAAGCCCACACGAGTTGGTGGCA
260 TTAAAGCCCACACAAGTTGGTGGCA
* * * *
1430387 -TTTTCCAGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGTACTTTTCAGT
1 CCTTT--AGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACGAGTTGGTGG--CATTTCAGT
*
1430451 CCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTC
62 CCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTC
1430516 AAAGAGCAGGACGCACTTT
127 AAAGAGCAGGACGC-CTTT
1430535 ATTTTCCTCT
Statistics
Matches: 1397, Mismatches: 110, Indels: 95
0.87 0.07 0.06
Matches are distributed among these distances:
260 3 0.00
261 46 0.03
262 91 0.07
263 1 0.00
264 80 0.06
265 7 0.01
271 20 0.01
273 46 0.03
274 30 0.02
275 6 0.00
277 30 0.02
278 24 0.02
279 3 0.00
280 47 0.03
283 8 0.01
284 785 0.56
285 4 0.00
287 4 0.00
288 39 0.03
292 1 0.00
293 6 0.00
294 47 0.03
301 1 0.00
303 3 0.00
304 62 0.04
305 3 0.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (284 bp):
CCTTTAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACGAGTTGGTGGCATTTCAGTCCTC
AAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAG
AGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCA
GGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCCTTT
TAAAGCCCACACAAGTTGGTGGCA
Found at i:1430361 original size:54 final size:54
Alignment explanation
Indices: 1430279--1430534 Score: 307
Period size: 55 Copynumber: 4.6 Consensus size: 54
1430269 CTCCCTTCAC
* * *
1430279 CCTTTAGTCCTTAAAGAGCATGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
1430333 CCTTTAGTCCTCAAAGTGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
1430387 -TTTTCCAGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGTA
1 CCTTT--AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
1430442 CTTTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTT-AGTCCTCAAAGAGCAGGACGCC-TTT-C----AAAGCCCACACAAGTTGGTGGCA
1430503 CCTTCTAGTCCTCAAAGAGCAGGACGCACTTT
1 CCTT-TAGTCCTCAAAGAGCAGGACGC-CTTT
1430535 ATTTTCCTCT
Statistics
Matches: 176, Mismatches: 15, Indels: 15
0.85 0.07 0.07
Matches are distributed among these distances:
53 3 0.02
54 49 0.28
55 67 0.38
56 7 0.04
57 1 0.01
61 47 0.27
62 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (54 bp):
CCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:1430411 original size:148 final size:149
Alignment explanation
Indices: 1430126--1430416 Score: 363
Period size: 148 Copynumber: 1.9 Consensus size: 149
1430116 GTTGGTGGCA
* * *
1430126 CCTTTAGTCCTCAAAGAGCAGGATGCGTTGCAAAGCCCACACGAGTTGGTGGCACTTCAGTCCTC
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTGCAAAGCCCACACAAGTTGGTGGCACTTCAGTCCTC
* * *
1430191 AAAGAGTAGGATGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCTCAATCCTCAAAG
66 AAAGAGCAGGA--TC--TGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCTCAATCCTCAAAG
1430256 AGCAGGACGCCTTCTCCCTTCAC
127 AGCAGGACGCCTTCTCCCTTCAC
* * ** *
1430279 CCTTTAGTCCTTAAAGAGCATGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCT
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTGCAAAGCCCACACAAGTTGGTGGCA-CTTCAGTCCT
* * * *
1430344 CAAAGTGCAGGA-C-GCCTTTCAAAGCCCACACGAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAG
65 CAAAGAGCAGGATCTGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCT-CAATCCTCAAAGAG
*
1430406 TAGGACGCCTT
129 CAGGACGCCTT
1430417 TCAAAGCCCA
Statistics
Matches: 120, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
147 3 0.03
148 50 0.42
151 1 0.01
153 47 0.39
154 19 0.16
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (149 bp):
CCTTTAGTCCTCAAAGAGCAGGACGCCTTGCAAAGCCCACACAAGTTGGTGGCACTTCAGTCCTC
AAAGAGCAGGATCTGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCTCAATCCTCAAAGAGCA
GGACGCCTTCTCCCTTCAC
Found at i:1430433 original size:27 final size:27
Alignment explanation
Indices: 1430352--1430433 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
1430342 CTCAAAGTGC
1430352 AGGACGCCTTTCAAAGCCCACACGAGT
1 AGGACGCCTTTCAAAGCCCACACGAGT
* ** * * *
1430379 TGGTGGCATTTTC-CAGTCCTCA-AAGAGT
1 AGGACGC-CTTTCAAAG-CC-CACACGAGT
1430407 AGGACGCCTTTCAAAGCCCACACGAGT
1 AGGACGCCTTTCAAAGCCCACACGAGT
1430434 TGGTGGTACT
Statistics
Matches: 38, Mismatches: 12, Indels: 10
0.63 0.20 0.17
Matches are distributed among these distances:
26 2 0.05
27 17 0.45
28 17 0.45
29 2 0.05
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.21
Consensus pattern (27 bp):
AGGACGCCTTTCAAAGCCCACACGAGT
Found at i:1430514 original size:116 final size:109
Alignment explanation
Indices: 1430279--1430534 Score: 316
Period size: 109 Copynumber: 2.3 Consensus size: 109
1430269 CTCCCTTCAC
* * *
1430279 CCTT-TAGTCCTTAAAGAGCATGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCC
1 CCTTCTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTAGTCC
* *
1430343 TCAAAGTGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCA
66 TCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
** * * * * *
1430387 TTTTCCAGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGTACTTTTCAGTC
1 CCTTCTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-AGTC
*
1430452 CTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
65 CTCAAAGAGCAGGACGCC-TTT-C----AAAGCCCACACAAGTTGGTGGCA
1430503 CCTTCTAGTCCTCAAAGAGCAGGACGCACTTT
1 CCTTCTAGTCCTCAAAGAGCAGGACGC-CTTT
1430535 ATTTTCCTCT
Statistics
Matches: 122, Mismatches: 17, Indels: 9
0.82 0.11 0.06
Matches are distributed among these distances:
108 2 0.02
109 47 0.39
110 20 0.16
111 3 0.02
112 1 0.01
116 45 0.37
117 4 0.03
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (109 bp):
CCTTCTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTAGTCC
TCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:1430570 original size:42 final size:42
Alignment explanation
Indices: 1430511--1430717 Score: 215
Period size: 42 Copynumber: 4.9 Consensus size: 42
1430501 CACCTTCTAG
1430511 TCCTCAAAGAGCAGGACGCACTTTATTTTCCTCTTTCTTTTA
1 TCCTCAAAGAGCAGGACGCACTTTATTTTCCTCTTTCTTTTA
* *
1430553 TCCTCAAAGAGCAGGACGCA-TTTCGTTTTCCT-TTTCTCCTTTG
1 TCCTCAAAGAGCAGGACGCACTTT-ATTTTCCTCTTTCT--TTTA
* * * **
1430596 TCCTCAAAGAGCAGGACGCTCTTTATTTTCTTATTTTCCCTCCTA
1 TCCTCAAAGAGCAGGACGCACTTTATTTTCCT-CTTT--CTTTTA
* **
1430641 GTCCTCAAAGAGCAGAACGCACTTTATTTTCCTCTTTCTTTCG
1 -TCCTCAAAGAGCAGGACGCACTTTATTTTCCTCTTTCTTTTA
* *
1430684 TCCTCAAAGAGCAGGACGTA-TTTTTTTTCC-CTTT
1 TCCTCAAAGAGCAGGACGCACTTTATTTTCCTCTTT
1430718 TTTCCCTTGT
Statistics
Matches: 137, Mismatches: 19, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
40 4 0.03
41 17 0.12
42 45 0.33
43 30 0.22
44 3 0.02
45 7 0.05
46 29 0.21
47 2 0.01
ACGTcount: A:0.20, C:0.27, G:0.14, T:0.40
Consensus pattern (42 bp):
TCCTCAAAGAGCAGGACGCACTTTATTTTCCTCTTTCTTTTA
Found at i:1430620 original size:85 final size:86
Alignment explanation
Indices: 1430510--1430717 Score: 239
Period size: 85 Copynumber: 2.4 Consensus size: 86
1430500 GCACCTTCTA
* ** *
1430510 GTCCTCAAAGAGCAGGACGCACTTTATTTTCCTCTTT-CTTTTA-TCCTCAAAGAGCAGGACGCA
1 GTCCTCAAAGAGCAGGACGCTCTTTATTTTCCTCTTTCCTCCTAGTCCTCAAAGAGCAGAACGCA
* *
1430573 -TTTCGTTTTCCT-TTTCTCCTTT
66 CTTT-ATTTTCCTCTTTCT--TTC
* *
1430595 GTCCTCAAAGAGCAGGACGCTCTTTATTTTCTTATTTTCCCTCCTAGTCCTCAAAGAGCAGAACG
1 GTCCTCAAAGAGCAGGACGCTCTTTATTTTCCT-CTTT-CCTCCTAGTCCTCAAAGAGCAGAACG
1430660 CACTTTATTTTCCTCTTTCTTTC
64 CACTTTATTTTCCTCTTTCTTTC
* *
1430683 GTCCTCAAAGAGCAGGACG-TATTTTTTTTCC-CTTT
1 GTCCTCAAAGAGCAGGACGCTCTTTATTTTCCTCTTT
1430718 TTTCCCTTGT
Statistics
Matches: 105, Mismatches: 12, Indels: 12
0.81 0.09 0.09
Matches are distributed among these distances:
85 34 0.32
86 3 0.03
87 9 0.09
88 25 0.24
89 26 0.25
90 8 0.08
ACGTcount: A:0.20, C:0.27, G:0.14, T:0.39
Consensus pattern (86 bp):
GTCCTCAAAGAGCAGGACGCTCTTTATTTTCCTCTTTCCTCCTAGTCCTCAAAGAGCAGAACGCA
CTTTATTTTCCTCTTTCTTTC
Found at i:1431500 original size:19 final size:19
Alignment explanation
Indices: 1431476--1431525 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
1431466 ATTCAATAAA
1431476 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
*
1431495 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAGTGT
1431514 TGTATCGATACA
1 TGTATCGATACA
1431526 ATGTATCGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:1431595 original size:13 final size:13
Alignment explanation
Indices: 1431577--1431602 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1431567 CATTTTTCTG
1431577 TGTATCGATACAT
1 TGTATCGATACAT
1431590 TGTATCGATACAT
1 TGTATCGATACAT
1431603 CTATTCTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1431620 original size:34 final size:33
Alignment explanation
Indices: 1431557--1431623 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 33
1431547 ACCAAGGAAA
*
1431557 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATTATTCTGTGTATCGATACAT
*
1431590 TGTATCGATACATCTATTCTTTGTATCGATACAT
1 TGTATCGATACAT-TATTCTGTGTATCGATACAT
1431624 CTAGGAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 13 0.42
34 18 0.58
ACGTcount: A:0.25, C:0.16, G:0.13, T:0.45
Consensus pattern (33 bp):
TGTATCGATACATTATTCTGTGTATCGATACAT
Found at i:1434029 original size:52 final size:53
Alignment explanation
Indices: 1433969--1434306 Score: 211
Period size: 51 Copynumber: 6.5 Consensus size: 53
1433959 CTCAATTGTT
* *
1433969 TATAATCGGGGATACTCCAATCCCGGTTTTATTTTC-AAAACACCAATTTTCC
1 TATAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAAACACCAATTTTCC
* * * *
1434021 TTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTTTC
1 TATAATCGGGGATACTCCAACCCCGATTTTATTTTC-AAAAACACCAATTTTCC
* * * * ** * *
1434075 -ACAAGCGAGGATACTCCAACCTC-A--TTATTTCATCGGGGATACTCCAA----CC
1 TATAATCGGGGATACTCCAACCCCGATTTTATTT--TC--AAAAACACCAATTTTCC
* * ** * * *
1434124 CATTACCTCCGAGAGGATACTCCAACCCCGGCTTTA-TTTCTAAAATATCAA-TTT-C
1 TA-TA-AT-CG-G-GGATACTCCAACCCCGATTTTATTTTCAAAAACACCAATTTTCC
* * * *
1434179 TCATAATCGGGGATACTCCAACCCCGATTTTA-TCTCTAAAACACTAATTTTTC
1 T-ATAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAAACACCAATTTTCC
*
1434232 -ACAATCGGGGATACTCCAACCCCGATTTTATTTTC-AAAACACCAATTTTCC
1 TATAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAAACACCAATTTTCC
* * *
1434283 TTTCATCGAGGATACTCCAACCCC
1 TATAATCGGGGATACTCCAACCCC
1434307 ATTGCCTCCG
Statistics
Matches: 217, Mismatches: 47, Indels: 44
0.70 0.15 0.14
Matches are distributed among these distances:
49 1 0.00
50 7 0.03
51 75 0.35
52 59 0.27
53 34 0.16
54 16 0.07
55 19 0.09
56 1 0.00
57 2 0.01
58 3 0.01
ACGTcount: A:0.30, C:0.28, G:0.11, T:0.31
Consensus pattern (53 bp):
TATAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAAACACCAATTTTCC
Found at i:1434141 original size:27 final size:27
Alignment explanation
Indices: 1434081--1434151 Score: 83
Period size: 27 Copynumber: 2.6 Consensus size: 27
1434071 TTTCACAAGC
**
1434081 GAGGATACTCCAACCTCATTATTTCATCG
1 GAGGATACTCCAACC-CATTACCTCA-CG
1434110 G-GGATACTCCAACCCATTACCTC-CG
1 GAGGATACTCCAACCCATTACCTCACG
1434135 AGAGGATACTCCAACCC
1 -GAGGATACTCCAACCC
1434152 CGGCTTTATT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
25 2 0.05
26 1 0.03
27 21 0.55
28 13 0.34
29 1 0.03
ACGTcount: A:0.28, C:0.34, G:0.15, T:0.23
Consensus pattern (27 bp):
GAGGATACTCCAACCCATTACCTCACG
Found at i:1434378 original size:51 final size:50
Alignment explanation
Indices: 1434318--1434489 Score: 200
Period size: 51 Copynumber: 3.4 Consensus size: 50
1434308 TTGCCTCCGA
* * *
1434318 GGGGATACTCCAACCCCGGCTTTATTTCCAAAATATCAATTTTTCATAATC
1 GGGGATACTCCAACCCCGGTTTTATTTACAAAACA-CAATTTTTCATAATC
* * *
1434369 GGGGATACTCCAACCCCGGTTTTATCTATAAAACACTAATTTTTCACAATC
1 GGGGATACTCCAACCCCGGTTTTATTTACAAAACAC-AATTTTTCATAATC
* * * * * *
1434420 GGGGATACTCAAACCCTGGTTTTATTTTCAAAACACCAATTTTCCTTTTATC
1 GGGGATACTCCAACCCCGGTTTTATTTACAAAACA-CAATTTTTC-ATAATC
1434472 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
1434490 TTATTTTCGA
Statistics
Matches: 101, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
50 1 0.01
51 80 0.79
52 20 0.20
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.32
Consensus pattern (50 bp):
GGGGATACTCCAACCCCGGTTTTATTTACAAAACACAATTTTTCATAATC
Found at i:1434408 original size:182 final size:182
Alignment explanation
Indices: 1434102--1434611 Score: 783
Period size: 182 Copynumber: 2.8 Consensus size: 182
1434092 AACCTCATTA
* *
1434102 TTTCATCGGGGATACTCCAA-CCCATTACCTCCGAGAGGATACTCCAACCCCGGCTTTATTTCTA
1 TTTCATCGGGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCA
*
1434166 AAATATCAATTTCTCATAATCGGGGATACTCCAACCCCGATTTTATCTCTAAAACACTAATTTTT
66 AAATATCAATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATCTCTAAAACACTAATTTTT
*
1434231 CACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCC
131 CACAATCGGGGATACTCAAACCCCGATTTTATTTTCAAAACACCAATTTTCC
* *
1434283 TTTCATCGAGGATACTCCAACCCCATTGCCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCA
1 TTTCATCGGGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCA
* *
1434348 AAATATCAATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATCTATAAAACACTAATTTTT
66 AAATATCAATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATCTCTAAAACACTAATTTTT
* *
1434413 CACAATCGGGGATACTCAAACCCTGGTTTTATTTTCAAAACACCAATTTTCC
131 CACAATCGGGGATACTCAAACCCCGATTTTATTTTCAAAACACCAATTTTCC
* * ** * *
1434465 TTTTATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCAAACCCCCGGCTTTA-TTCC
1 TTTCATCGGGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAA-CCCCGGCTTTATTTCC
** *
1434529 TAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACA-TCAATT
65 -AAAATATCAATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATCTCTAAAACACT-AATT
* *
1434593 TTTCATAATCGGGAATACT
128 TTTCACAATCGGGGATACT
1434612 TTAATCCCGT
Statistics
Matches: 300, Mismatches: 25, Indels: 6
0.91 0.08 0.02
Matches are distributed among these distances:
181 19 0.06
182 197 0.66
183 84 0.28
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (182 bp):
TTTCATCGGGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCA
AAATATCAATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATCTCTAAAACACTAATTTTT
CACAATCGGGGATACTCAAACCCCGATTTTATTTTCAAAACACCAATTTTCC
Found at i:1434504 original size:131 final size:130
Alignment explanation
Indices: 1434369--1434648 Score: 321
Period size: 132 Copynumber: 2.1 Consensus size: 130
1434359 TTTCATAATC
* *
1434369 GGGGATACTCCAACCCCGGTTTTA-TCTATAAAACACTAATTTTTCACAATCGGGGATACTCAAA
1 GGGGATACTCCAACCCCGGCTTTATTC-ATAAAACACTAATTTCTCACAATCGGGGATACTCAAA
* * * * *
1434433 CCCTGGTTTTATTT-TCAAAACACCAATTTTCCTTTTATCGGGGATACTCCAACCCCGTTATTTT
65 CCCCGGTTTTATTTCT-AAAACACCAATTTTCC-ATAATCGGGAATACTCCAACCCCGTTATTTC
*
1434497 CGA
128 CAA
* * * * * * *
1434500 GGGGATACTCAAACCCCCGGCTTTATTCCTAAAATATTGATTTCTCATAATCGGGGATACTCCAA
1 GGGGATACTCCAA-CCCCGGCTTTATTCATAAAACACTAATTTCTCACAATCGGGGATACTCAAA
* * ** *
1434565 CCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGAATACTTTAATCCCGTTATTTCCA
65 CCCCGGTTTTATTTCTAAAACACCAATTTTCCATAATCGGGAATACTCCAACCCCGTTATTTCCA
1434630 A
130 A
*
1434631 GGGGATACTCCAATCCCG
1 GGGGATACTCCAACCCCG
1434649 ATTTCATTTC
Statistics
Matches: 124, Mismatches: 22, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
130 4 0.03
131 50 0.40
132 67 0.54
133 3 0.02
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (130 bp):
GGGGATACTCCAACCCCGGCTTTATTCATAAAACACTAATTTCTCACAATCGGGGATACTCAAAC
CCCGGTTTTATTTCTAAAACACCAATTTTCCATAATCGGGAATACTCCAACCCCGTTATTTCCAA
Found at i:1434583 original size:51 final size:52
Alignment explanation
Indices: 1434500--1434611 Score: 145
Period size: 51 Copynumber: 2.2 Consensus size: 52
1434490 TTATTTTCGA
* **
1434500 GGGGATACTCAAACCCCCGGCTTTATTCCTAAAATATTGATTTCTCATAATC
1 GGGGATACTCAAACCCCCGGCTTTATTCCTAAAACATCAATTTCTCATAATC
* * * *
1434552 GGGGATACTCCAA-CCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATC
1 GGGGATACTCAAACCCCCGGCTTTATTCCTAAAACATCAATTTCTCATAATC
*
1434603 GGGAATACT
1 GGGGATACT
1434612 TTAATCCCGT
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
51 40 0.77
52 12 0.23
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.33
Consensus pattern (52 bp):
GGGGATACTCAAACCCCCGGCTTTATTCCTAAAACATCAATTTCTCATAATC
Found at i:1434690 original size:79 final size:79
Alignment explanation
Indices: 1434552--1434704 Score: 175
Period size: 79 Copynumber: 1.9 Consensus size: 79
1434542 TCTCATAATC
* * ** *
1434552 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGAATACTTTAAT
1 GGGGATACTCCAACCCCGATTTCATTTCTAAAACATCAATTTTTCATAATCGGGAATACTCCAAC
1434617 CCCGTTATTTCCAA
66 CCCGTTATTTCCAA
* * * * * *
1434631 GGGGATACTCCAATCCCGATTTCATTTCCT-AATCATCGATTTTTTACTACT-GGGGATACTCCA
1 GGGGATACTCCAACCCCGATTTCATTT-CTAAAACATCAATTTTTCA-TAATCGGGAATACTCCA
1434694 ACCCCGTTATT
64 ACCCCGTTATT
1434705 ATCTCCAAAA
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
79 56 0.92
80 5 0.08
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.35
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGATTTCATTTCTAAAACATCAATTTTTCATAATCGGGAATACTCCAAC
CCCGTTATTTCCAA
Found at i:1436031 original size:16 final size:16
Alignment explanation
Indices: 1436012--1436044 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1436002 TCTTTTTTTC
1436012 TTTTTTT-TTTTTATAA
1 TTTTTTTATTTTT-TAA
1436028 TTTTTTTATTTTTTAA
1 TTTTTTTATTTTTTAA
1436044 T
1 T
1436045 ATTTCTCTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTTTTATTTTTTAA
Found at i:1437292 original size:19 final size:20
Alignment explanation
Indices: 1437258--1437295 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1437248 CAAATACTAT
1437258 ATGAAAAAAAATTTTGAAAA
1 ATGAAAAAAAATTTTGAAAA
*
1437278 ATGAAAATAAA-TTTGAAA
1 ATGAAAAAAAATTTTGAAA
1437296 TAGTATATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.63, C:0.00, G:0.11, T:0.26
Consensus pattern (20 bp):
ATGAAAAAAAATTTTGAAAA
Found at i:1438008 original size:18 final size:22
Alignment explanation
Indices: 1437984--1438031 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 22
1437974 AAATAATATT
1437984 TTAAAATT-A-TTTTAAA-TAA
1 TTAAAATTAATTTTTAAATTAA
1438003 -TAAAATTAATTTTTAAATTAA
1 TTAAAATTAATTTTTAAATTAA
1438024 TTAAAATT
1 TTAAAATT
1438032 TAACTCGACT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 7 0.28
19 1 0.04
20 7 0.28
21 3 0.12
22 7 0.28
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TTAAAATTAATTTTTAAATTAA
Found at i:1438027 original size:29 final size:32
Alignment explanation
Indices: 1437962--1438028 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 32
1437952 TTAATTATAA
1437962 ATATT-AA-AATAAAAATAATATTTTAAAATT
1 ATATTAAATAATAAAAATAATATTTTAAAATT
* *
1437992 ATTTTAAATAATAAAATTAAT-TTTT-AAATT
1 ATATTAAATAATAAAAATAATATTTTAAAATT
1438022 A-ATTAAA
1 ATATTAAA
1438029 ATTTAACTCG
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
29 5 0.16
30 10 0.31
31 6 0.19
32 11 0.34
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (32 bp):
ATATTAAATAATAAAAATAATATTTTAAAATT
Found at i:1443141 original size:13 final size:13
Alignment explanation
Indices: 1443123--1443147 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1443113 TCACTATTCA
1443123 TGTATCGATACAG
1 TGTATCGATACAG
1443136 TGTATCGATACA
1 TGTATCGATACA
1443148 ATGTGAATAG
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:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:1443668 original size:36 final size:33
Alignment explanation
Indices: 1443621--1443708 Score: 92
Period size: 32 Copynumber: 2.6 Consensus size: 33
1443611 TGATTGTGAA
1443621 GTTCTATCTTAGCCTTTGAAAAAGATAGGGAGAAAG
1 GTTCTATCTTAGCCTTTGAAAAAGATA-GG-G-AAG
* *
1443657 GTTCTATCTTAG-CTCGTG-GAAAGATAGGGAAG
1 GTTCTATCTTAGCCT-TTGAAAAAGATAGGGAAG
*
1443689 TTTCTATCTTAGCC-TTGAAA
1 GTTCTATCTTAGCCTTTGAAA
1443709 GATAGTGTTG
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
31 2 0.05
32 15 0.34
33 2 0.05
34 2 0.05
35 9 0.20
36 14 0.32
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.32
Consensus pattern (33 bp):
GTTCTATCTTAGCCTTTGAAAAAGATAGGGAAG
Found at i:1445316 original size:21 final size:21
Alignment explanation
Indices: 1445266--1445309 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
1445256 TAATATTCTT
* *
1445266 GAAAATAAATTAAGTGAATTA
1 GAAAAGAAATTAAATGAATTA
1445287 GAAAAGAAATTAAATGAATTA
1 GAAAAGAAATTAAATGAATTA
1445308 GA
1 GA
1445310 GGAGAAAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (21 bp):
GAAAAGAAATTAAATGAATTA
Found at i:1450920 original size:35 final size:35
Alignment explanation
Indices: 1450880--1450950 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
1450870 TTTTGACTTC
*
1450880 AATTTGTTTCAAGGGTCTTGGAAACTTGATCTTGA
1 AATTTGCTTCAAGGGTCTTGGAAACTTGATCTTGA
* * *
1450915 AATTTGCTTCAAGGTTCTTTGAGACTTGATCTTGA
1 AATTTGCTTCAAGGGTCTTGGAAACTTGATCTTGA
1450950 A
1 A
1450951 TCAAATGAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.25, C:0.13, G:0.21, T:0.41
Consensus pattern (35 bp):
AATTTGCTTCAAGGGTCTTGGAAACTTGATCTTGA
Found at i:1453265 original size:36 final size:36
Alignment explanation
Indices: 1453218--1453291 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
1453208 TTCCTAACAC
*
1453218 CTATTGTTGAAAATAATAATTTTTTTATCCATCTTA
1 CTATTGTTGAAAACAATAATTTTTTTATCCATCTTA
1453254 CTATTGTTGAAAACAATAATTTTTTTATCCATCTTA
1 CTATTGTTGAAAACAATAATTTTTTTATCCATCTTA
1453290 CT
1 CT
1453292 TTCATTTCAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.32, C:0.14, G:0.05, T:0.49
Consensus pattern (36 bp):
CTATTGTTGAAAACAATAATTTTTTTATCCATCTTA
Found at i:1454005 original size:21 final size:21
Alignment explanation
Indices: 1453962--1454005 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
1453952 AATAAAAAAA
* * *
1453962 ATATGATTATTATTTAATTTT
1 ATATAATTATTATTGAATATT
*
1453983 ATATAATTATTATTGGATATT
1 ATATAATTATTATTGAATATT
1454004 AT
1 AT
1454006 TGCAAATAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (21 bp):
ATATAATTATTATTGAATATT
Found at i:1459871 original size:164 final size:163
Alignment explanation
Indices: 1459672--1459977 Score: 449
Period size: 164 Copynumber: 1.9 Consensus size: 163
1459662 TTTGCTTCTC
* * *
1459672 TGTAAATTTTTTTGAGAGACTTTTTTTTATTTTTAATTTTTAAAATTCATCAAATATTATTATTT
1 TGTAAATTTTTTTGAGAGACTTTTTCTTATTTTTAATTTTTAAAATTCATCAAATATCATTACTT
*
1459737 ATTT-ATATTAAATC-TTTTTTCAAAAATTAACTCATTTTCATGAGTTTTTGAATTTTTT-CTTG
66 ATTTCATATTAAATCAGTTTTT-AAAAA-TAACTCATTTTCATGAGTTTTTGAATTTTTTCCTTG
1459799 AAATTCTTCTTTTTTCGAAATACGTTGTTTTCTACTT
129 AAATT-TT-TTTTTTCGAAATACGTTGTTTTCTACTT
* * *
1459836 TGTAATTTTTTTTGAGGGA-TTTTTCTTAGTTTTTAATTTTTAAAATTCATCAAATATCATTGCT
1 TGTAAATTTTTTTGAGAGACTTTTTCTTA-TTTTTAATTTTTAAAATTCATCAAATATCATTACT
* * *
1459900 TATTTCATATTGAATCAGTTTTTAAAAATAATTTATTTTCATGAGTTTTTGAATTTTTTCCTTGA
65 TATTTCATATTAAATCAGTTTTTAAAAATAACTCATTTTCATGAGTTTTTGAATTTTTTCCTTGA
1459965 AATTTTTTTTTTC
130 AATTTTTTTTTTC
1459978 AAAAAACCGA
Statistics
Matches: 128, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
163 15 0.12
164 85 0.66
165 23 0.18
166 5 0.04
ACGTcount: A:0.27, C:0.08, G:0.08, T:0.56
Consensus pattern (163 bp):
TGTAAATTTTTTTGAGAGACTTTTTCTTATTTTTAATTTTTAAAATTCATCAAATATCATTACTT
ATTTCATATTAAATCAGTTTTTAAAAATAACTCATTTTCATGAGTTTTTGAATTTTTTCCTTGAA
ATTTTTTTTTTCGAAATACGTTGTTTTCTACTT
Found at i:1460228 original size:165 final size:161
Alignment explanation
Indices: 1459758--1460231 Score: 458
Period size: 168 Copynumber: 2.9 Consensus size: 161
1459748 ATCTTTTTTC
* *
1459758 AAAAATTAACTCATTTTCATGAGTTTTTGAATTTTTTCTTGAAATTCTTCTTTTTTCGAAATACG
1 AAAAATTAATTCATTTTCATGAGTTTTTGAATTTTTTCTTGAAA-TCTT-TTTTTTCGAAAAACG
* * * * **
1459823 TTGTTTTCTACTT-TGT-AATTTTTTTTGAGGGATTTTTCTTAGTTTTTAATTTTTAAAATTCAT
64 -AGTTTTCTTCTTCT-TAAATTTTTTTGGGGGGATTTTTC-TAGTTTAAAATTTTTAAAATTCAT
* ** * * *
1459886 CAAATATCATTG-C-TTATTTCATATTGAATCAGTTTTT
126 -ATA-AT-ATTGTCATTAAATCAAATTGAATCAGTGTTG
* * *
1459923 AAAAA-TAATTTATTTTCATGAGTTTTTGAATTTTTTCCTTGAAATTTTTTTTTTCAAAAAACCG
1 AAAAATTAATTCATTTTCATGAGTTTTTGAATTTTTT-CTTGAAATCTTTTTTTTCGAAAAA-CG
* * *** **
1459987 AGTTTTCTT-TCCCATAAAGGTTTTCGGGGGGGGGAGGTTTCTAGATTTAAAATTTTTAAAATTC
64 AGTTTTCTTCT-TCTTAAA--TTTT-TTTGGGGGGATTTTTCTAG-TTTAAAATTTTTAAAATTC
* * *
1460051 ATCTAATATTGTCATTAAAATCAAATTTTATTCAGTGTTG
124 ATATAATATTGTCATT-AAATCAAA-TTGAATCAGTGTTG
* *
1460091 AAAAATTAATTCATTTTCAAGAG-TTTTGAATTTTTTCTTTGAAATCCTTTTTTTCGAAAAACGA
1 AAAAATTAATTCATTTTCATGAGTTTTTGAATTTTTTC-TTGAAATCTTTTTTTTCGAAAAACG-
1460155 AGTTTTCTTCTTCTTAAATTTTTTTGGGGGGATTTTTCTCAGTTTAAAATTTTTAAAATTCATAT
64 AGTTTTCTTCTTCTTAAATTTTTTTGGGGGGATTTTTCT-AGTTTAAAATTTTTAAAATTCATAT
1460220 AATATTGTCATT
128 AATATTGTCATT
1460232 GAACTCCCAT
Statistics
Matches: 251, Mismatches: 40, Indels: 36
0.77 0.12 0.11
Matches are distributed among these distances:
162 1 0.00
163 19 0.08
164 40 0.16
165 61 0.24
166 16 0.06
167 36 0.14
168 62 0.25
169 16 0.06
ACGTcount: A:0.29, C:0.10, G:0.12, T:0.50
Consensus pattern (161 bp):
AAAAATTAATTCATTTTCATGAGTTTTTGAATTTTTTCTTGAAATCTTTTTTTTCGAAAAACGAG
TTTTCTTCTTCTTAAATTTTTTTGGGGGGATTTTTCTAGTTTAAAATTTTTAAAATTCATATAAT
ATTGTCATTAAATCAAATTGAATCAGTGTTG
Found at i:1461176 original size:32 final size:30
Alignment explanation
Indices: 1461140--1461198 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
1461130 GAAATCAAAT
1461140 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
1461172 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
1461199 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:1461498 original size:13 final size:13
Alignment explanation
Indices: 1461480--1461505 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1461470 CAATTTTTTG
1461480 TGTATCGATACAT
1 TGTATCGATACAT
1461493 TGTATCGATACAT
1 TGTATCGATACAT
1461506 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1461520 original size:32 final size:33
Alignment explanation
Indices: 1461460--1461523 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
1461450 TAGAAGCCAA
** *
1461460 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
1461493 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
1461524 AGTTTGGCTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:1464089 original size:13 final size:13
Alignment explanation
Indices: 1464071--1464108 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
1464061 ATAATCCCCC
1464071 TGTATCGATACAG
1 TGTATCGATACAG
*
1464084 TGTATCGATACAT
1 TGTATCGATACAG
1464097 TGTATCGATACA
1 TGTATCGATACA
1464109 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:1466210 original size:15 final size:15
Alignment explanation
Indices: 1466190--1466220 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1466180 ATTTCGTTTG
*
1466190 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1466205 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1466220 G
1 G
1466221 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1469988 original size:32 final size:30
Alignment explanation
Indices: 1469952--1470010 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
1469942 GAAATCAAAT
1469952 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
1469984 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
1470011 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:1470309 original size:13 final size:13
Alignment explanation
Indices: 1470291--1470316 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1470281 CAATTTTTTG
1470291 TGTATCGATACAT
1 TGTATCGATACAT
1470304 TGTATCGATACAT
1 TGTATCGATACAT
1470317 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1470331 original size:32 final size:33
Alignment explanation
Indices: 1470271--1470334 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
1470261 TAGAAGCCAA
** *
1470271 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
1470304 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
1470335 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:1471868 original size:23 final size:23
Alignment explanation
Indices: 1471837--1471880 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
1471827 ATTGAACATA
1471837 AAAAATAACATGAAAACAATATG
1 AAAAATAACATGAAAACAATATG
* *
1471860 AAAAGTAACATGAACACAATA
1 AAAAATAACATGAAAACAATA
1471881 ATGTATCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.64, C:0.11, G:0.09, T:0.16
Consensus pattern (23 bp):
AAAAATAACATGAAAACAATATG
Done.