Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009572.1 Hibiscus syriacus cultivar Beakdansim tig00116937_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2529503
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 13
Found at i:1334901 original size:19 final size:20
Alignment explanation
Indices: 1334877--1334945 Score: 65
Period size: 19 Copynumber: 3.5 Consensus size: 20
1334867 GTCGGTCGGG
1334877 TCAG-ACCGGTCAAACCGGT
1 TCAGAACCGGTCAAACCGGT
*
1334896 TCAG-ACCGGTTTCGAACCGGT
1 TCAGAACCGG--TCAAACCGGT
* *
1334917 T-TGAAACGGTCAAACCGG-
1 TCAGAACCGGTCAAACCGGT
1334935 TCAGAACCGGT
1 TCAGAACCGGT
1334946 TGAAAAACCG
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
18 1 0.03
19 24 0.60
20 1 0.03
21 14 0.35
ACGTcount: A:0.26, C:0.28, G:0.28, T:0.19
Consensus pattern (20 bp):
TCAGAACCGGTCAAACCGGT
Found at i:1334942 original size:10 final size:10
Alignment explanation
Indices: 1334875--1334945 Score: 53
Period size: 10 Copynumber: 7.3 Consensus size: 10
1334865 CGGTCGGTCG
1334875 GGTCAG-ACC
1 GGTCAGAACC
1334884 GGTCA-AACC
1 GGTCAGAACC
1334893 GGTTCAG-ACC
1 GG-TCAGAACC
1334903 GGTTTC-GAACC
1 GG--TCAGAACC
** *
1334914 GGTTTGAAAC
1 GGTCAGAACC
1334924 GGTCA-AACC
1 GGTCAGAACC
1334933 GGTCAGAACC
1 GGTCAGAACC
1334943 GGT
1 GGT
1334946 TGAAAAACCG
Statistics
Matches: 50, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
9 19 0.38
10 23 0.46
11 8 0.16
ACGTcount: A:0.25, C:0.27, G:0.30, T:0.18
Consensus pattern (10 bp):
GGTCAGAACC
Found at i:1337282 original size:13 final size:13
Alignment explanation
Indices: 1337258--1337297 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
1337248 ATTCTACAAA
* *
1337258 CTTTTTTCTTTTG
1 CTTTTTACTTTTT
1337271 C-TTTTACTTTTT
1 CTTTTTACTTTTT
1337283 CTTTTTACTTTTT
1 CTTTTTACTTTTT
1337296 CT
1 CT
1337298 GAAACACAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 10 0.42
13 14 0.58
ACGTcount: A:0.05, C:0.17, G:0.03, T:0.75
Consensus pattern (13 bp):
CTTTTTACTTTTT
Found at i:1337460 original size:13 final size:13
Alignment explanation
Indices: 1337436--1337475 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
1337426 ATTCTACAAA
* *
1337436 CTTTTTTCTTTTG
1 CTTTTTACTTTTT
1337449 C-TTTTACTTTTT
1 CTTTTTACTTTTT
1337461 CTTTTTACTTTTT
1 CTTTTTACTTTTT
1337474 CT
1 CT
1337476 GAAACACAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 10 0.42
13 14 0.58
ACGTcount: A:0.05, C:0.17, G:0.03, T:0.75
Consensus pattern (13 bp):
CTTTTTACTTTTT
Found at i:1337508 original size:178 final size:180
Alignment explanation
Indices: 1337208--1337566 Score: 704
Period size: 178 Copynumber: 2.0 Consensus size: 180
1337198 TGGGAATGAA
1337208 CCTCCCCAAATACATTTTTTATTCAGGTTATATAAGGCCGATTCTACAAACTTTTTTCTTTTGCT
1 CCTCCCCAAATACATTTTTTATTCAGGTTATATAAGGCCGATTCTACAAACTTTTTTCTTTTGCT
1337273 TTTACTTTTTCTTTTTACTTTTTCTGAAACACAATGATGAAAGTAAAAACTATTGCTATCATTGT
66 TTTACTTTTTCTTTTTACTTTTTCTGAAACACAATGATGAAAGTAAAAACTATTGCTATCATTGT
1337338 GTTTTTGTTGTGGATCCAGTTGGAATTC-GTTGGTGGCAATTATGGTTGT
131 GTTTTTGTTGTGGATCCAGTTGGAATTCGGTTGGTGGCAATTATGGTTGT
1337387 CCTCCCCAAATACATTTTTTATTCAGGTTATAT-AGGCCGATTCTACAAACTTTTTTCTTTTGCT
1 CCTCCCCAAATACATTTTTTATTCAGGTTATATAAGGCCGATTCTACAAACTTTTTTCTTTTGCT
1337451 TTTACTTTTTCTTTTTACTTTTTCTGAAACACAATGATGAAAGTAAAAACTATTGCTATCATTGT
66 TTTACTTTTTCTTTTTACTTTTTCTGAAACACAATGATGAAAGTAAAAACTATTGCTATCATTGT
1337516 GTTTTTGTTGTGGATCCAGTTGGAATTCGGTTGGTGGCAATTATGGTTGT
131 GTTTTTGTTGTGGATCCAGTTGGAATTCGGTTGGTGGCAATTATGGTTGT
1337566 C
1 C
1337567 GATGGATGAA
Statistics
Matches: 179, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
178 124 0.69
179 55 0.31
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.45
Consensus pattern (180 bp):
CCTCCCCAAATACATTTTTTATTCAGGTTATATAAGGCCGATTCTACAAACTTTTTTCTTTTGCT
TTTACTTTTTCTTTTTACTTTTTCTGAAACACAATGATGAAAGTAAAAACTATTGCTATCATTGT
GTTTTTGTTGTGGATCCAGTTGGAATTCGGTTGGTGGCAATTATGGTTGT
Found at i:1341921 original size:20 final size:20
Alignment explanation
Indices: 1341887--1341953 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
1341877 CGGGTCTGTT
** *
1341887 TGACCCGAACCGAGTCAACC
1 TGACCCGAATTGAGTCAATC
1341907 TGACCCGAATTGAGTCAATC
1 TGACCCGAATTGAGTCAATC
* *
1341927 AGACCTGAATT-ATGTCAATC
1 TGACCCGAATTGA-GTCAATC
1341947 TGACCCG
1 TGACCCG
1341954 TTAAATTTGA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
19 1 0.03
20 38 0.97
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (20 bp):
TGACCCGAATTGAGTCAATC
Found at i:1343275 original size:15 final size:16
Alignment explanation
Indices: 1343232--1343277 Score: 60
Period size: 15 Copynumber: 2.9 Consensus size: 16
1343222 ATATAAATAA
1343232 GAAATGGAAGAAGAAAG
1 GAAATGG-AGAAGAAAG
*
1343249 GAAAT-GATAAGAAAG
1 GAAATGGAGAAGAAAG
1343264 GAAATGGA-AAGAAA
1 GAAATGGAGAAGAAA
1343278 TGATATCAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
15 19 0.70
16 3 0.11
17 5 0.19
ACGTcount: A:0.61, C:0.00, G:0.30, T:0.09
Consensus pattern (16 bp):
GAAATGGAGAAGAAAG
Found at i:1345363 original size:64 final size:62
Alignment explanation
Indices: 1345269--1345475 Score: 173
Period size: 64 Copynumber: 3.2 Consensus size: 62
1345259 TTTCAAAGGG
* * * *
1345269 ATGCACCGATGCACCAATCCATACATCGATGCATCAATGAATAAATTG-AACATTGAATGCAGTT
1 ATGCATCGATGCACC--TCCATGCATCGATGCATC-AGGAATAAA-TGAAACATCGAATGCAGTT
1345333 T
62 T
* ** * *
1345334 ATGCATCGATGCACTCTCCATGCATCGATGCGCTCAGGTTTTAATGAAACATCGAATGCATTTT
1 ATGCATCGATGCAC-CTCCATGCATCGATGC-ATCAGGAATAAATGAAACATCGAATGCAGTTT
* * ** ** * * *
1345398 ATGCATCGATGCACACACCATGCATCGATGCACTTAGGCTTATTTAAAACATCAAATGCATTTT
1 ATGCATCGATGCAC-CTCCATGCATCGATGCA-TCAGGAATAAATGAAACATCGAATGCAGTTT
1345462 ATGCATCGATGCAC
1 ATGCATCGATGCAC
1345476 ACTTAGTACA
Statistics
Matches: 119, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
63 2 0.02
64 101 0.85
65 15 0.13
66 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (62 bp):
ATGCATCGATGCACCTCCATGCATCGATGCATCAGGAATAAATGAAACATCGAATGCAGTTT
Found at i:1345476 original size:64 final size:63
Alignment explanation
Indices: 1345324--1345477 Score: 211
Period size: 64 Copynumber: 2.4 Consensus size: 63
1345314 TTGAACATTG
* * * * * *
1345324 AATGCAGTTTATGCATCGATGCACTCTCCATGCATCGATGCGCTCAGGTTTTAATGAAACATCG
1 AATGCATTTTATGCATCGATGCACACACCATGCATCGATGCACTCAGGTTTT-ATAAAACATCA
*
1345388 AATGCATTTTATGCATCGATGCACACACCATGCATCGATGCACTTAGGCTTATT-TAAAACATCA
1 AATGCATTTTATGCATCGATGCACACACCATGCATCGATGCACTCAGG-TT-TTATAAAACATCA
1345452 AATGCATTTTATGCATCGATGCACAC
1 AATGCATTTTATGCATCGATGCACAC
1345478 TTAGTACACC
Statistics
Matches: 81, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
64 77 0.95
65 2 0.02
66 2 0.02
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (63 bp):
AATGCATTTTATGCATCGATGCACACACCATGCATCGATGCACTCAGGTTTTATAAAACATCA
Found at i:1345851 original size:20 final size:20
Alignment explanation
Indices: 1345772--1345835 Score: 58
Period size: 20 Copynumber: 3.1 Consensus size: 20
1345762 AATTACATTA
*
1345772 TTAAAAATATATTAAAAACTCA
1 TTAAAAATATATTAAAAA-T-T
***
1345794 TTATTGATA-ATTATAAAATT
1 TTAAAAATATATTA-AAAATT
1345814 TTAAAAATATATTAAAAATT
1 TTAAAAATATATTAAAAATT
1345834 TT
1 TT
1345836 TATAAAATTT
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
20 14 0.42
21 9 0.27
22 10 0.30
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (20 bp):
TTAAAAATATATTAAAAATT
Found at i:1346323 original size:7 final size:7
Alignment explanation
Indices: 1346313--1346409 Score: 104
Period size: 7 Copynumber: 13.9 Consensus size: 7
1346303 ATGAGTCATG
1346313 AACCCTA
1 AACCCTA
1346320 AACCCTA
1 AACCCTA
1346327 AACCCTA
1 AACCCTA
*
1346334 AACCTTA
1 AACCCTA
1346341 AACCCTA
1 AACCCTA
**
1346348 AACATTA
1 AACCCTA
*
1346355 AACCATA
1 AACCCTA
**
1346362 AACTATA
1 AACCCTA
1346369 AACCCTA
1 AACCCTA
* *
1346376 AAACCAA
1 AACCCTA
*
1346383 AACCATA
1 AACCCTA
1346390 AACCCTA
1 AACCCTA
*
1346397 AACTCTA
1 AACCCTA
1346404 AACCCT
1 AACCCT
1346410 TAATCCAATT
Statistics
Matches: 73, Mismatches: 17, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
7 73 1.00
ACGTcount: A:0.48, C:0.34, G:0.00, T:0.18
Consensus pattern (7 bp):
AACCCTA
Found at i:1347804 original size:12 final size:12
Alignment explanation
Indices: 1347787--1347831 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
1347777 AATTAATCCG
1347787 AATCGAGCTCAA
1 AATCGAGCTCAA
**
1347799 AATCGAGCT-TG
1 AATCGAGCTCAA
1347810 AATCGAGCTCAA
1 AATCGAGCTCAA
1347822 AATCGAGCTC
1 AATCGAGCTC
1347832 GAGTTTCGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 9 0.32
12 19 0.68
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (12 bp):
AATCGAGCTCAA
Found at i:1347813 original size:23 final size:23
Alignment explanation
Indices: 1347786--1347830 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
1347776 AAATTAATCC
1347786 GAATCGAGCTCAAAATCGAGCTT
1 GAATCGAGCTCAAAATCGAGCTT
1347809 GAATCGAGCTCAAAATCGAGCT
1 GAATCGAGCTCAAAATCGAGCT
1347831 CGAGTTTCGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (23 bp):
GAATCGAGCTCAAAATCGAGCTT
Found at i:1349432 original size:24 final size:24
Alignment explanation
Indices: 1349405--1349454 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
1349395 ATAAAGAACC
1349405 AAAATAAA-CTTAAACATACCATTA
1 AAAATAAAGCTTAAACAT-CCATTA
*
1349429 AAAATAAAGTTTAAACATCCATTA
1 AAAATAAAGCTTAAACATCCATTA
1349453 AA
1 AA
1349455 CCAACCACCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 16 0.67
25 8 0.33
ACGTcount: A:0.58, C:0.14, G:0.02, T:0.26
Consensus pattern (24 bp):
AAAATAAAGCTTAAACATCCATTA
Found at i:1355000 original size:24 final size:24
Alignment explanation
Indices: 1354973--1355022 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
1354963 ATAAAGAACC
1354973 AAAATAAA-CTTAAACATACCATTA
1 AAAATAAAGCTTAAACAT-CCATTA
*
1354997 AAAATAAAGTTTAAACATCCATTA
1 AAAATAAAGCTTAAACATCCATTA
1355021 AA
1 AA
1355023 CCAACCACCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 16 0.67
25 8 0.33
ACGTcount: A:0.58, C:0.14, G:0.02, T:0.26
Consensus pattern (24 bp):
AAAATAAAGCTTAAACATCCATTA
Found at i:1364180 original size:18 final size:18
Alignment explanation
Indices: 1364157--1364194 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
1364147 GAGAGTCCCT
1364157 AGCCTGCTGAAC-CTGAAG
1 AGCCTGCT-AACGCTGAAG
1364175 AGCCTGCTAACGCTGAAG
1 AGCCTGCTAACGCTGAAG
1364193 AG
1 AG
1364195 ACCGATGACC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 3 0.16
18 16 0.84
ACGTcount: A:0.29, C:0.26, G:0.29, T:0.16
Consensus pattern (18 bp):
AGCCTGCTAACGCTGAAG
Found at i:1372594 original size:20 final size:20
Alignment explanation
Indices: 1372565--1372602 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1372555 TTTCAAAGGG
1372565 ATGCACCGATGCACCAATCC
1 ATGCACCGATGCACCAATCC
*
1372585 ATGCATCGATGCACCAAT
1 ATGCACCGATGCACCAAT
1372603 GAGTAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.34, G:0.16, T:0.18
Consensus pattern (20 bp):
ATGCACCGATGCACCAATCC
Found at i:1372658 original size:64 final size:63
Alignment explanation
Indices: 1372565--1372771 Score: 204
Period size: 64 Copynumber: 3.2 Consensus size: 63
1372555 TTTCAAAGGG
* * *
1372565 ATGCACCGATGCACCAATCCATGCATCGATGCAC-CAATGAGTAAATTG-ATCATCGAATGCAGT
1 ATGCATCGATGCACC--TCCATGCATCGATGCACTC-AGGAGTAAA-TGAAACATCGAATGCAGT
1372628 TT
62 TT
** * *
1372630 ATGCATCGATGCACTCTCCATGCATCGATGCACTCAGGTTTTAATGAAACATCGAATGCATTTT
1 ATGCATCGATGCAC-CTCCATGCATCGATGCACTCAGGAGTAAATGAAACATCGAATGCAGTTT
* * * * * * *
1372694 ATGCATCGATGCACACACCATGCATCGATGCACTTAGG-CTTATTCAAAACATCGAATGCATTTT
1 ATGCATCGATGCAC-CTCCATGCATCGATGCACTCAGGAGTAAAT-GAAACATCGAATGCAGTTT
1372758 ATGCATCGATGCAC
1 ATGCATCGATGCAC
1372772 ACTTAGTGCA
Statistics
Matches: 125, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
63 6 0.05
64 104 0.83
65 14 0.11
66 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (63 bp):
ATGCATCGATGCACCTCCATGCATCGATGCACTCAGGAGTAAATGAAACATCGAATGCAGTTT
Found at i:1372772 original size:64 final size:63
Alignment explanation
Indices: 1372615--1372773 Score: 239
Period size: 64 Copynumber: 2.5 Consensus size: 63
1372605 GTAAATTGAT
* * *
1372615 CATCGAATGCAGTTTATGCATCGATGCACTCTCCATGCATCGATGCACTCAGGTTTTAATGAAA
1 CATCGAATGCATTTTATGCATCGATGCACACACCATGCATCGATGCACTCAGGTTTTAA-GAAA
* *
1372679 CATCGAATGCATTTTATGCATCGATGCACACACCATGCATCGATGCACTTAGGCTTATTCA-AAA
1 CATCGAATGCATTTTATGCATCGATGCACACACCATGCATCGATGCACTCAGG-TT-TTAAGAAA
1372743 CATCGAATGCATTTTATGCATCGATGCACAC
1 CATCGAATGCATTTTATGCATCGATGCACAC
1372774 TTAGTGCACC
Statistics
Matches: 88, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
64 83 0.94
65 2 0.02
66 3 0.03
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.29
Consensus pattern (63 bp):
CATCGAATGCATTTTATGCATCGATGCACACACCATGCATCGATGCACTCAGGTTTTAAGAAA
Found at i:1372787 original size:64 final size:62
Alignment explanation
Indices: 1372615--1372791 Score: 230
Period size: 64 Copynumber: 2.8 Consensus size: 62
1372605 GTAAATTGAT
* *
1372615 CATCGAATGCAGTTTATGCATCGATGCACTCTCCATGCATCGATGCACTCAGGTTTTAATGAAA
1 CATCGAATGCATTTTATGCATCGATGCACACT-CATGCATCGATGCACTCAGGTTTTAA-GAAA
* * *
1372679 CATCGAATGCATTTTATGCATCGATGCACACACCATGCATCGATGCACTTAGGCTTATTCA-AAA
1 CATCGAATGCATTTTATGCATCGATGCACAC-TCATGCATCGATGCACTCAGG-TT-TTAAGAAA
* *
1372743 CATCGAATGCATTTTATGCATCGATGCACACTTAGTGCACCGATGCACT
1 CATCGAATGCATTTTATGCATCGATGCACACTCA-TGCATCGATGCACT
1372792 AAGTGTTCCA
Statistics
Matches: 101, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
63 1 0.01
64 95 0.94
65 2 0.02
66 3 0.03
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.29
Consensus pattern (62 bp):
CATCGAATGCATTTTATGCATCGATGCACACTCATGCATCGATGCACTCAGGTTTTAAGAAA
Found at i:1373947 original size:24 final size:24
Alignment explanation
Indices: 1373869--1373952 Score: 80
Period size: 24 Copynumber: 3.5 Consensus size: 24
1373859 TGTAATGAAC
*
1373869 TTGGAGCTTCAA-TGATCATAACTT
1 TTGGAACTTCAAGTGA-CATAACTT
* * *
1373893 TTGGCACTTCAAGTGACACATCTT
1 TTGGAACTTCAAGTGACATAACTT
* * *
1373917 TTTGAACTTCAAGTGGCATAACTG
1 TTGGAACTTCAAGTGACATAACTT
*
1373941 TTGGAACGTCAA
1 TTGGAACTTCAA
1373953 AGGACATGTC
Statistics
Matches: 47, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
24 44 0.94
25 3 0.06
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (24 bp):
TTGGAACTTCAAGTGACATAACTT
Found at i:1375008 original size:17 final size:18
Alignment explanation
Indices: 1374981--1375017 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
1374971 TTGTGTCGTC
*
1374981 TATAGGAAATGGTTATGG
1 TATAGGAAATGGATATGG
1374999 TATA-GAAATGGATATGG
1 TATAGGAAATGGATATGG
1375016 TA
1 TA
1375018 AAGGTAGGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.38, C:0.00, G:0.30, T:0.32
Consensus pattern (18 bp):
TATAGGAAATGGATATGG
Found at i:1379091 original size:64 final size:64
Alignment explanation
Indices: 1378990--1379111 Score: 226
Period size: 64 Copynumber: 1.9 Consensus size: 64
1378980 CTACTTTAAG
*
1378990 GATATTTTCCCTTGATTTTGTTTCTAATATGGTGGTGACACGTGTCACTATCTTATTAGTTTAC
1 GATATTTTCCCTTGATTTTGTTTCTAATATGGTGGTGACACGTGTCACCATCTTATTAGTTTAC
*
1379054 GATATTTTCCCTTGATTTTGTTTCTAATATGGTGGTGACACGTGTTACCATCTTATTA
1 GATATTTTCCCTTGATTTTGTTTCTAATATGGTGGTGACACGTGTCACCATCTTATTA
1379112 ATTTGTGTCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 56 1.00
ACGTcount: A:0.20, C:0.16, G:0.17, T:0.47
Consensus pattern (64 bp):
GATATTTTCCCTTGATTTTGTTTCTAATATGGTGGTGACACGTGTCACCATCTTATTAGTTTAC
Found at i:1379603 original size:23 final size:23
Alignment explanation
Indices: 1379561--1379610 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
1379551 ATATATAGTA
* * *
1379561 ATTTAATTTTTTAGTGTTTTTAT
1 ATTTAATTTTTGAATATTTTTAT
*
1379584 ATTTAATTTTTGAATATTTTTTT
1 ATTTAATTTTTGAATATTTTTAT
1379607 ATTT
1 ATTT
1379611 TAAATTTAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.70
Consensus pattern (23 bp):
ATTTAATTTTTGAATATTTTTAT
Found at i:1380337 original size:287 final size:285
Alignment explanation
Indices: 1379817--1380388 Score: 751
Period size: 287 Copynumber: 2.0 Consensus size: 285
1379807 GGTCGGATCG
* *
1379817 GATTCGGGTTTAGGATGAAAAATACCTGACCCAACCCGACTCGAGAAAAAAAGGTAAATTTATCT
1 GATTCGGGTTTAGGATAAAAAATACCTGACCCAACCCGACTCGAGAAAAAAA-GTAAATTTACCT
* * *
1379882 TATATATTTAGGGATAATTGCAATAATATCCCTTTATATATTATTTTTTAATTAAATCCCTATTT
65 TATATATTTAGGGATAATTGCAATAAAATCCCTTTATATATTATTTTTCAATGAAATCCCTATTT
* * * * * *
1379947 TTATTGAATAAAAGTAATATTTTTATAAATATATTATTTCGGGTAGGATTGATTTTAGGTTTTAT
130 TTATTGAATAAAAATAATATTTTTATAAATATATTAATTCAGGTAGGATCGAGTTCAGGTTTTAT
* * *
1380012 CTCAAAAAGACGGGTCGGATTCGGGTTGGGTGAAGAGTGTATATTTTTTGGGT-TG-TCGGGTCC
195 CTCAAAAAGACGGGTCGGATTCGGGTCGGGTAAAGAGTGTATATTTTTTGGGTCTGATCAGGTCC
1380075 GGTGGATG-GTGTATAATTTTCGGGTCA
260 GGTGGA-GAGTGTATAA-TTTCGGGTCA
* * * * * *
1380102 GATTCGGGTTTAGGATAAAAAATATCTGATCCGACCCTAC-C-CGAAAAAAA-TAATTTTACCTT
1 GATTCGGGTTTAGGATAAAAAATACCTGACCCAACCCGACTCGAGAAAAAAAGTAAATTTACCTT
*
1380164 ATATATTTAGGGATAATTGTAATAAAATCCCTCTATATATTATTATTTTTCAATGAAATCCCTAT
66 ATATATTTAGGGATAATTGCAATAAAATCCCT-T-TATA-TATTATTTTTCAATGAAATCCCTA-
* * * *
1380229 TTTTTATTGAATAAAAAATAATATTTTTTATAAGTATATTAATTCAGGTCGGGTCGAGTTCATGT
127 TTTTTATTGAAT-AAAAATAATA-TTTTTATAAATATATTAATTCAGGTAGGATCGAGTTCAGGT
* * *
1380294 TTTATCTCAAAAAGGCGGGTCGGGTTTGGGTCGGGTAAAGAGTGTATATTTTTTGGGTCTGATTC
190 TTTATCTCAAAAAGACGGGTCGGATTCGGGTCGGGTAAAGAGTGTATATTTTTTGGGTCTGA-TC
*
1380359 AGGTCGGGTGGAGAGTGTATAATTTCGGGT
254 AGGTCCGGTGGAGAGTGTATAATTTCGGGT
1380389 TGGGTCGGGT
Statistics
Matches: 248, Mismatches: 29, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
281 40 0.16
282 1 0.00
283 12 0.05
284 23 0.09
285 47 0.19
286 9 0.04
287 85 0.34
288 2 0.01
289 9 0.04
290 20 0.08
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (285 bp):
GATTCGGGTTTAGGATAAAAAATACCTGACCCAACCCGACTCGAGAAAAAAAGTAAATTTACCTT
ATATATTTAGGGATAATTGCAATAAAATCCCTTTATATATTATTTTTCAATGAAATCCCTATTTT
TATTGAATAAAAATAATATTTTTATAAATATATTAATTCAGGTAGGATCGAGTTCAGGTTTTATC
TCAAAAAGACGGGTCGGATTCGGGTCGGGTAAAGAGTGTATATTTTTTGGGTCTGATCAGGTCCG
GTGGAGAGTGTATAATTTCGGGTCA
Found at i:1380818 original size:5 final size:5
Alignment explanation
Indices: 1380808--1380942 Score: 270
Period size: 5 Copynumber: 27.0 Consensus size: 5
1380798 TGATTAAGAG
1380808 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1380858 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1380908 ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1380943 TGGTATAAGA
Statistics
Matches: 130, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 130 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:1384813 original size:5 final size:5
Alignment explanation
Indices: 1384803--1384846 Score: 56
Period size: 5 Copynumber: 9.2 Consensus size: 5
1384793 AACGATCAAC
* *
1384803 GGTCG GGTCG GGTC- GGTCG GTTAG GGTC- GGTCG GGTCG GGTCG G
1 GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG G
1384847 TTCAGACCGG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
4 8 0.24
5 25 0.76
ACGTcount: A:0.02, C:0.18, G:0.57, T:0.23
Consensus pattern (5 bp):
GGTCG
Found at i:1384821 original size:14 final size:14
Alignment explanation
Indices: 1384802--1384847 Score: 74
Period size: 14 Copynumber: 3.3 Consensus size: 14
1384792 CAACGATCAA
1384802 CGGTCGGGTCGGGT
1 CGGTCGGGTCGGGT
* *
1384816 CGGTCGGTTAGGGT
1 CGGTCGGGTCGGGT
1384830 CGGTCGGGTCGGGT
1 CGGTCGGGTCGGGT
1384844 CGGT
1 CGGT
1384848 TCAGACCGGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.02, C:0.20, G:0.54, T:0.24
Consensus pattern (14 bp):
CGGTCGGGTCGGGT
Found at i:1384858 original size:28 final size:25
Alignment explanation
Indices: 1384802--1384848 Score: 71
Period size: 24 Copynumber: 1.9 Consensus size: 25
1384792 CAACGATCAA
1384802 CGGTCGGGTCGGGTCGGTCGGTTAG
1 CGGTCGGGTCGGGTCGGTCGGTTAG
1384827 -GGTC-GGTCGGGTCGGGTCGGTT
1 CGGTCGGGTCGGGTC-GGTCGGTT
1384849 CAGACCGGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.02, C:0.19, G:0.53, T:0.26
Consensus pattern (25 bp):
CGGTCGGGTCGGGTCGGTCGGTTAG
Found at i:1384866 original size:19 final size:19
Alignment explanation
Indices: 1384844--1384883 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
1384834 CGGGTCGGGT
1384844 CGGTTCAGACCGGTCAAAC
1 CGGTTCAGACCGGTCAAAC
* *
1384863 CGGTTTAGACTGGTCAAAC
1 CGGTTCAGACCGGTCAAAC
1384882 CG
1 CG
1384884 ATCAAAACCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.25, C:0.28, G:0.28, T:0.20
Consensus pattern (19 bp):
CGGTTCAGACCGGTCAAAC
Found at i:1391983 original size:5 final size:5
Alignment explanation
Indices: 1391973--1392002 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
1391963 AACGATCAAC
1391973 GGTCG GGTCG GGTCG GGTC- GGTCG GGTCG G
1 GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG G
1392003 ACTGGTCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.00, C:0.20, G:0.60, T:0.20
Consensus pattern (5 bp):
GGTCG
Found at i:1391995 original size:14 final size:15
Alignment explanation
Indices: 1391973--1392002 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
1391963 AACGATCAAC
1391973 GGTCGGGTCGGGTCG
1 GGTCGGGTCGGGTCG
1391988 GGTC-GGTCGGGTCG
1 GGTCGGGTCGGGTCG
1392002 G
1 G
1392003 ACTGGTCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.00, C:0.20, G:0.60, T:0.20
Consensus pattern (15 bp):
GGTCGGGTCGGGTCG
Found at i:1391997 original size:9 final size:9
Alignment explanation
Indices: 1391972--1392002 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
1391962 CAACGATCAA
1391972 CGGTCGGGT
1 CGGTCGGGT
1391981 CGGGTCGGGT
1 C-GGTCGGGT
1391991 CGGTCGGGT
1 CGGTCGGGT
1392000 CGG
1 CGG
1392003 ACTGGTCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.00, C:0.23, G:0.58, T:0.19
Consensus pattern (9 bp):
CGGTCGGGT
Found at i:1392036 original size:19 final size:19
Alignment explanation
Indices: 1392008--1392044 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1391998 GTCGGACTGG
* *
1392008 TCAAACCGGTTCAGACCGA
1 TCAAAACGGTTCAAACCGA
1392027 TCAAAACGGTTCAAACCG
1 TCAAAACGGTTCAAACCG
1392045 GTCGAAATCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.30, G:0.19, T:0.16
Consensus pattern (19 bp):
TCAAAACGGTTCAAACCGA
Found at i:1396978 original size:14 final size:14
Alignment explanation
Indices: 1396959--1396988 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
1396949 TTAAAGATTC
1396959 AGTTAGAGTCTGTT
1 AGTTAGAGTCTGTT
1396973 AGTTAGAGTCTGTT
1 AGTTAGAGTCTGTT
1396987 AG
1 AG
1396989 GCTTAACAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.07, G:0.30, T:0.40
Consensus pattern (14 bp):
AGTTAGAGTCTGTT
Found at i:1398125 original size:18 final size:18
Alignment explanation
Indices: 1398025--1398113 Score: 115
Period size: 18 Copynumber: 4.9 Consensus size: 18
1398015 CTGTGTCACA
1398025 AATGATAATCGTGCTTCC
1 AATGATAATCGTGCTTCC
1398043 AATGATAATCGTGCTTCC
1 AATGATAATCGTGCTTCC
* ** *
1398061 AATGGTCGTCGTCCTTCC
1 AATGATAATCGTGCTTCC
* *
1398079 TACGATAATCGTGCTTCC
1 AATGATAATCGTGCTTCC
*
1398097 AATGATCATCGTGCTTC
1 AATGATAATCGTGCTTC
1398114 TTACGATAAT
Statistics
Matches: 58, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 58 1.00
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (18 bp):
AATGATAATCGTGCTTCC
Found at i:1398138 original size:36 final size:36
Alignment explanation
Indices: 1398025--1398125 Score: 130
Period size: 36 Copynumber: 2.8 Consensus size: 36
1398015 CTGTGTCACA
* * * *
1398025 AATGATAATCGTGCTTCCAATGATAATCGTGCTTCC
1 AATGATCATCGTCCTTCCTACGATAATCGTGCTTCC
* *
1398061 AATGGTCGTCGTCCTTCCTACGATAATCGTGCTTCC
1 AATGATCATCGTCCTTCCTACGATAATCGTGCTTCC
* *
1398097 AATGATCATCGTGCTTCTTACGATAATCG
1 AATGATCATCGTCCTTCCTACGATAATCG
1398126 GACTTTCTAT
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 55 1.00
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.34
Consensus pattern (36 bp):
AATGATCATCGTCCTTCCTACGATAATCGTGCTTCC
Found at i:1398140 original size:54 final size:54
Alignment explanation
Indices: 1398026--1398141 Score: 133
Period size: 54 Copynumber: 2.1 Consensus size: 54
1398016 TGTGTCACAA
* * ** **
1398026 ATGATAATCGTGCTTCCAATGATAATCGTGCTTCCAATGGTCGTCGTCCTTCCT
1 ATGATAATCGTGCTTCCAATGATAATCGTGCTTCCAACGATAATCGGACTTCCT
* * ** *
1398080 ACGATAATCGTGCTTCCAATGATCATCGTGCTTCTTACGATAATCGGACTTTCT
1 ATGATAATCGTGCTTCCAATGATAATCGTGCTTCCAACGATAATCGGACTTCCT
1398134 ATGATAAT
1 ATGATAAT
1398142 TGTGGTTTTT
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.35
Consensus pattern (54 bp):
ATGATAATCGTGCTTCCAATGATAATCGTGCTTCCAACGATAATCGGACTTCCT
Found at i:1401356 original size:14 final size:14
Alignment explanation
Indices: 1401337--1401366 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
1401327 TTAAAGATTC
1401337 AGTTAGAGTCTGTT
1 AGTTAGAGTCTGTT
1401351 AGTTAGAGTCTGTT
1 AGTTAGAGTCTGTT
1401365 AG
1 AG
1401367 GCTTAACAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.07, G:0.30, T:0.40
Consensus pattern (14 bp):
AGTTAGAGTCTGTT
Found at i:1404460 original size:11 final size:11
Alignment explanation
Indices: 1404444--1404468 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1404434 AGGAAAGGCG
1404444 GGTTAATATAC
1 GGTTAATATAC
1404455 GGTTAATATAC
1 GGTTAATATAC
1404466 GGT
1 GGT
1404469 ATTACCGGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (11 bp):
GGTTAATATAC
Found at i:1405160 original size:23 final size:23
Alignment explanation
Indices: 1405129--1405185 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
1405119 ATAGGTAAAA
* *
1405129 ATATGATGTAATAGATAGCGCTT
1 ATATAATGTAATAGATAGAGCTT
* *
1405152 ATATAATGTAATAGGTAGAGTTT
1 ATATAATGTAATAGATAGAGCTT
1405175 ATATAATGTAA
1 ATATAATGTAA
1405186 GTAATAGGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.40, C:0.04, G:0.19, T:0.37
Consensus pattern (23 bp):
ATATAATGTAATAGATAGAGCTT
Found at i:1405210 original size:25 final size:26
Alignment explanation
Indices: 1405159--1405210 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
1405149 CTTATATAAT
*
1405159 GTAATAGGTAGAGTTTATATAATGTAA
1 GTAATAGGTAGAGCTTATAT-ATGTAA
*
1405186 GTAATAGGTAGTGCTTATAT-TGTAA
1 GTAATAGGTAGAGCTTATATATGTAA
1405211 AGTATATCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 5 0.22
27 18 0.78
ACGTcount: A:0.37, C:0.02, G:0.23, T:0.38
Consensus pattern (26 bp):
GTAATAGGTAGAGCTTATATATGTAA
Found at i:1405604 original size:23 final size:23
Alignment explanation
Indices: 1405573--1405645 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
1405563 ATAGGTAAAA
*
1405573 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
1405596 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
1405619 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
1405642 ATAT
1 ATAT
1405646 TGTAAAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1406083 original size:23 final size:23
Alignment explanation
Indices: 1406049--1406121 Score: 96
Period size: 23 Copynumber: 3.2 Consensus size: 23
1406039 ATAGGTAAAA
*
1406049 ATATGATATAATAGGTAGCTCTT
1 ATATAATATAATAGGTAGCTCTT
*
1406072 ATATAATGTAATAGGTAGCGT-TT
1 ATATAATATAATAGGTAGC-TCTT
1406095 ATATAATATAATAGGTAG-TGCTT
1 ATATAATATAATAGGTAGCT-CTT
1406118 ATAT
1 ATAT
1406122 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
21 1 0.02
23 42 0.95
24 1 0.02
ACGTcount: A:0.37, C:0.05, G:0.18, T:0.40
Consensus pattern (23 bp):
ATATAATATAATAGGTAGCTCTT
Found at i:1406499 original size:21 final size:20
Alignment explanation
Indices: 1406462--1406504 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
1406452 TAACTTTAAA
1406462 AAAAGTATCGATCCTTTTTAT
1 AAAAGTATCGATCC-TTTTAT
*
1406483 AAAAGTATGGA-CACTTTTAT
1 AAAAGTATCGATC-CTTTTAT
1406503 AA
1 AA
1406505 TAGGTAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.37
Consensus pattern (20 bp):
AAAAGTATCGATCCTTTTAT
Found at i:1406545 original size:23 final size:23
Alignment explanation
Indices: 1406514--1406563 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
1406504 ATAGGTAAAA
*
1406514 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
1406537 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
1406560 ATAT
1 ATAT
1406564 TGTAAAGTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.34, C:0.06, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1406866 original size:919 final size:925
Alignment explanation
Indices: 1404707--1407764 Score: 4743
Period size: 919 Copynumber: 3.3 Consensus size: 925
1404697 TTTTTACATG
*
1404707 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTAGAAAACATT
1404772 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
66 AATTTAAGG------TTTGA--GAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
1404837 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
123 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
1404902 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAA
188 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAA
1404967 ACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
253 ACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
1405032 CACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAATATCGATCATTTTGATAAA
318 CACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAATATCGATCATTTTGATAAA
*
1405097 AAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGATAGCGCTTATATAATGTA
383 AAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTA
*
1405162 ATAGGTAGAGTTTATATAATGTAAGTAATAGGTAGTGCTTATATTGTAAAG--TATATCCTTTTA
448 ATAGGTAGCGTTTATATAA--T-A-TAATAGGTAGTGCTTATATTGTAAAGTATATATCCTTTTA
1405225 ATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTA-TCTTTAAGATATTA
509 ATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTAGT-TTTAAGATATTA
*
1405289 ATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATA-TATTATATTAAATT-
573 ATTTAGTAATTATA-GCGTCTAATGATTTATTTTTTACGTTACGGTATATTA-T-TATTAAATTA
*
1405352 AAAACAATAAAC--ATATATTAAATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATT
635 AAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATT
*
1405415 CCAAATAATATTTTTAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAAT
700 CTAAATAATATTTTTAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAAT
*
1405480 TAATATTGTAGGTAGAAAACATGAAACACTATTAAAAAATTGAAACATAAATTACATAACTTTAA
765 TAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAATTGAAACATAAATTACATAACTTTAA
** * * *** *
1405545 AAAAAGTATCGA-CATATAATAGGTAAAAATATG--A----TGTAATAGGTAGCGCTTATATAAT
830 AAAAAGTATCGATCAT-TTTTA--TAAAAGTATGACACTTTTATAATAGGTA---AAAATATGAT
*
1405603 GTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
889 GTAATAGGTAGCGCTTATATAATGTAATAGGTAGTGC
1405640 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT-GAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTAGAAAACATT
1405704 AATTTAAGG-TT---AGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTT
66 AATTTAAGGTTTGAGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTT
1405765 TACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATT
131 TACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATT
1405830 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAA
196 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAA
* *
1405895 ATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGAGAAAAACATGAAACACTATTA
261 ATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTA
* * *
1405960 AAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGG
326 AAAAAATTGAAACATAAATTACATAACTTTAAAAAAAATATCGATCATTTTGATAAAAAGTATGG
* *
1406025 ACACTTTCAATATAATAGGTAAAAATATGATATAATAGGTAGCTCTTATATAATGTAATAGGTAG
391 ACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAG
* *
1406090 CGTTTATATAATATAATAGGTAGTGCTTATATTGTAAAGTATATATCCTTTTTATAAAAGTGTTC
456 CGTTTATATAATATAATAGGTAGTGCTTATATTGTAAAGTATATATCCTTTTAATAAAAGTGTCC
*
1406155 ATACTTTTTTCACTGTGGAAAATATTAATTTAAGGTTAGTTTTAAGATATTAATTTAGTAATTAT
521 ATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTAGTTTTAAGATATTAATTTAGTAATTAT
1406220 -GCGTCTAATGATTTATTTTTTACGTTACGGTATATTATTATTAAATTAAAAACAATAAACATAT
586 AGCGTCTAATGATTTATTTTTTACGTTACGGTATATTATTATTAAATTAAAAACAATAAACATAT
*
1406284 ATATTACATATTTATTATTATCTTTGGTTAATATTGTTACATTTAAATTCTAAATAATATTTTCT
651 ATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTT-T
*
1406349 AAAATATCAAAACAATCAAATATTTTTTTGTGTAAATGAAATTATTAAATTAATA-TGTAGGTGG
715 AAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGG
* *
1406413 AAAACATGAAACA-T-TAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCC
780 AAAACATGAAACACTATTAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCA
1406476 TTTTTATAAAAGTATGGACACTTTTATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATAT
845 TTTTTATAAAAGTAT-GACACTTTTATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATAT
1406541 AATGTAATAGGTAGTGC
909 AATGTAATAGGTAGTGC
*
1406558 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTTCATACTTTTTTCACTGTAGAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTAGAAAACATT
1406623 AATTTAAGG-TT-A-A-TTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTT
66 AATTTAAGGTTTGAGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTT
* *
1406684 TACGTTACGGTATATATTGTTATTAAATTAAAAACAATAAATATATATATTACATATTTATTATT
131 TACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATT
1406749 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAA
196 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAA
1406814 ATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTA
261 ATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTA
1406879 AAAAAATTGAAACATAAATTACATAACTTTAAAAAAAATATCGATCATTTTGATAAAAAGTATGG
326 AAAAAATTGAAACATAAATTACATAACTTTAAAAAAAATATCGATCATTTTGATAAAAAGTATGG
*
1406944 ACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAA
391 ACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAG
* * *
1407009 CGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTAATAAAAGTATCC
456 CGTTTATATAATATAATAGGTAGTGCTTATATTGTAAAGTATATATCCTTTTAATAAAAGTGTCC
*
1407074 ATACTTTTTTCACTATGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAA
521 ATACTTTTTTCACTGTGGAAAACATTAATTTAAGG--------T---T-AGTTTTAAGATATTAA
*
1407139 TTTAGTAATTATAGGCGTCTAATGATTTATTTTTTATGTTACGGTATATATTATTATTAAATTAA
574 TTTAGTAATTATA-GCGTCTAATGATTTATTTTTTACGTTACGG--TATATTATTATTAAATTAA
1407204 AAACAATAAACATATATATTACATATTTATTATTATCTTTGGTT-A-ATTGTTAAATTTAAATTC
636 AAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTC
* * *
1407267 TAAATAATATTTTATAAAATATCAAAACAATTAAATAGTTTTTTGAGTAAATGAAATTATTAAAT
701 TAAATAATATTTT-TAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAAT
* *
1407332 TAATATTGTAGGTGGAAAATATGAAACACTATGTAGAAAATTGAAACATAAATTACATAACTTTA
765 TAATATTGTAGGTGGAAAACATGAAACACTAT-TAAAAAATTGAAACATAAATTACATAACTTT-
*
1407397 AAAAAAAATATCGATCATTTTTATAAAAAGTATAGACACTTTCAATATAATAGGTAAAAATATGA
828 AAAAAAAGTATCGATCATTTTTAT-AAAAGTAT-GACACTTT---TATAATAGGTAAAAATATGA
*
1407462 TGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAA
888 TGTAATAGGTAGCGCTTATATAATGTAATAGGTA--G---------TG--C
* *
1407513 TAGGTAGTGTTTATAGTGTAAAGTATCTATCCTTTTAATAAAAGTGTCCATATTTTTTTCACTGT
1 T---TA-----TAT--TGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
*
1407578 AGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAATAATTATAGGC
56 AGAAAACATTAATTTAAGG------TTTGA--GAGTTTTAAGATATTAATTTAGTAATTATAGGC
* *
1407643 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTTTTAAATTAAAAACAATAAACATATA
113 GTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATA
*
1407708 TATTACATATTTATTATTATCTTTGATTAATATTGTTAAATTTAAATTCTAAATAAT
178 TATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAAT
1407765 TGTGCAACCG
Statistics
Matches: 1978, Mismatches: 69, Indels: 112
0.92 0.03 0.05
Matches are distributed among these distances:
914 8 0.00
915 10 0.01
916 120 0.06
917 7 0.00
918 264 0.13
919 532 0.27
920 378 0.19
921 10 0.01
925 2 0.00
927 1 0.00
930 1 0.00
931 28 0.01
932 18 0.01
933 167 0.08
934 22 0.01
935 64 0.03
936 1 0.00
937 29 0.01
938 22 0.01
939 16 0.01
942 54 0.03
944 1 0.00
953 2 0.00
955 1 0.00
958 2 0.00
963 3 0.00
965 65 0.03
972 2 0.00
973 1 0.00
976 1 0.00
977 146 0.07
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (925 bp):
TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTAGAAAACATT
AATTTAAGGTTTGAGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTT
TACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATT
ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAA
ATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTA
AAAAAATTGAAACATAAATTACATAACTTTAAAAAAAATATCGATCATTTTGATAAAAAGTATGG
ACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAG
CGTTTATATAATATAATAGGTAGTGCTTATATTGTAAAGTATATATCCTTTTAATAAAAGTGTCC
ATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTAGTTTTAAGATATTAATTTAGTAATTAT
AGCGTCTAATGATTTATTTTTTACGTTACGGTATATTATTATTAAATTAAAAACAATAAACATAT
ATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTTA
AAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGA
AAACATGAAACACTATTAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCAT
TTTTATAAAAGTATGACACTTTTATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAA
TGTAATAGGTAGTGC
Found at i:1406999 original size:23 final size:23
Alignment explanation
Indices: 1406968--1407040 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
1406958 ATAGGTAAAA
*
1406968 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1406991 ATATAATGTAATAGGTAACGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
1407014 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
1407037 ATAT
1 ATAT
1407041 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1407524 original size:23 final size:23
Alignment explanation
Indices: 1407456--1407527 Score: 117
Period size: 23 Copynumber: 3.1 Consensus size: 23
1407446 ATAGGTAAAA
* *
1407456 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGTTT
1407479 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGTTT
*
1407502 ATATAATGTAATAGGTAGTGTTT
1 ATATAATGTAATAGGTAGCGTTT
1407525 ATA
1 ATA
1407528 GTGTAAAGTA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.35, C:0.04, G:0.22, T:0.39
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGTTT
Found at i:1407553 original size:488 final size:489
Alignment explanation
Indices: 1406514--1407764 Score: 2154
Period size: 488 Copynumber: 2.6 Consensus size: 489
1406504 ATAGGTAAAA
* *
1406514 ATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATC
1 ATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATC
* *
1406579 CTTTTTATAAAAGTGTTCATACTTTTTTCACTGTAGAAAACATTAATTTAAGG-------TT-A-
66 CTTTTAATAAAAGTGTCCATACTTTTTTCACTGTAGAAAACATTAATTTAAGGTTATCTTTTGAG
1406635 --A-TTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTAT
131 TGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTAT
* *
1406697 ATATTGTTATTAAATTAAAAACAATAAATATATATATTACATATTTATTATTATCTTTGGTTAAT
196 ATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAAT
*
1406762 ATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTG
261 ATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGAG
1406827 TAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAAC
326 TAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAAC
*
1406892 ATAAATTACATAACTTTAAAAAAAATATCGATCATTTTGATAAAAAGTATGGACACTTTCAATAT
391 ATAAATTACATAACTTTAAAAAAAATATCGATCATTTTGATAAAAAGTATAGACACTTTCAATAT
1406957 AATAGGTAAAAATATGATGTAATAGGTAGCGCTT
456 AATAGGTAAAAATATGATGTAATAGGTAGCGCTT
*
1406991 ATATAATGTAATAGGTAACGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATC
1 ATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATC
* * *
1407056 CTTTTAATAAAAGTATCCATACTTTTTTCACTATGGAAAACATTAATTTAAGGTTATCTTTTGAG
66 CTTTTAATAAAAGTGTCCATACTTTTTTCACTGTAGAAAACATTAATTTAAGGTTATCTTTTGAG
*
1407121 TGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTATGTTACGGTAT
131 TGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTAT
1407186 ATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTT-A-
196 ATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAAT
* *
1407249 ATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATTAAATAGTTTTTTGAG
261 ATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGAG
* *
1407314 TAAATGAAATTATTAAATTAATATTGTAGGTGGAAAATATGAAACACTATGT-AGAAAATTGAAA
326 TAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTAT-TAAAAAAATTGAAA
*
1407378 CATAAATTACATAACTTTAAAAAAAAATATCGATCATTTTTATAAAAAGTATAGACACTTTCAAT
390 CATAAATTACATAACTTT-AAAAAAAATATCGATCATTTTGATAAAAAGTATAGACACTTTCAAT
1407443 ATAATAGGTAAAAATATGATGTAATAGGTAGCGCTT
454 ATAATAGGTAAAAATATGATGTAATAGGTAGCGCTT
* *
1407479 ATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGTTTATAGTGTAAAGTATCTATC
1 ATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATC
*
1407544 CTTTTAATAAAAGTGTCCATATTTTTTTCACTGTAGAAAACATTAATTTAAGGTTATCTTTTGAG
66 CTTTTAATAAAAGTGTCCATACTTTTTTCACTGTAGAAAACATTAATTTAAGGTTATCTTTTGAG
* *
1407609 TGAGTTTTAAGATATTAATTTAATAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATAT
131 TGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTAT
* *
1407674 ATATTATTTTTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGATTAAT
196 ATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAAT
1407739 ATTGTTAAATTTAAATTCTAAATAAT
261 ATTGTTAAATTTAAATTCTAAATAAT
1407765 TGTGCAACCG
Statistics
Matches: 728, Mismatches: 30, Indels: 19
0.94 0.04 0.02
Matches are distributed among these distances:
477 110 0.15
484 2 0.00
485 1 0.00
487 140 0.19
488 328 0.45
489 121 0.17
490 26 0.04
ACGTcount: A:0.40, C:0.07, G:0.11, T:0.41
Consensus pattern (489 bp):
ATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATC
CTTTTAATAAAAGTGTCCATACTTTTTTCACTGTAGAAAACATTAATTTAAGGTTATCTTTTGAG
TGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTAT
ATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAAT
ATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGAG
TAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAAC
ATAAATTACATAACTTTAAAAAAAATATCGATCATTTTGATAAAAAGTATAGACACTTTCAATAT
AATAGGTAAAAATATGATGTAATAGGTAGCGCTT
Found at i:1408185 original size:180 final size:181
Alignment explanation
Indices: 1407820--1408219 Score: 577
Period size: 180 Copynumber: 2.2 Consensus size: 181
1407810 TAAAAATGTG
* * * * **
1407820 TCGATCCAAAACGATGTAACAGGTAAAACTATGACAAAACCGGTATTGAAATGATAAAACCAGTA
1 TCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCAGTATCAAAATGATAAAACCAGTA
* * * * *
1407885 AAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTTTGTGAATTTA
66 AAACGCTACCAGATACATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTTGTGAATCTA
* * **
1407950 AAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTTAAAAATGTA
131 AAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAAAAAAAATA
* *
1408001 TCGATCCAAAACGATATACCAGGTAAAAATATGATAAAACCAGTATCAAAATGATAAAACCGGTA
1 TCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCAGTATCAAAATGATAAAACCAGTA
* *
1408066 AAACGTTACCAGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGACACTTTGTGAATCTA
66 AAACGCTACCAGATACATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTTGTGAATCTA
** * *
1408130 AAAGAGAAGCAGTTTTAGCGCCTATAATGTGTTGATACTTTAAAAAAAATA
131 AAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAAAAAAAATA
*
1408181 TCGATCCACAACGATATAACAGGTAAAAATATGATAAAA
1 TCGATCCAAAACGATATAACAGGTAAAAATATGATAAAA
1408220 TCGGTAAAAC
Statistics
Matches: 194, Mismatches: 25, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
180 107 0.55
181 87 0.45
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (181 bp):
TCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCAGTATCAAAATGATAAAACCAGTA
AAACGCTACCAGATACATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTTGTGAATCTA
AAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAAAAAAAATA
Found at i:1410472 original size:21 final size:21
Alignment explanation
Indices: 1410448--1410510 Score: 99
Period size: 21 Copynumber: 3.0 Consensus size: 21
1410438 GACAATCAAT
*
1410448 AGTCGAAGAGAAACTTGATAG
1 AGTCGAAGAGAAACTTGAGAG
1410469 AGTCGAAGAGAAACTTGAGAG
1 AGTCGAAGAGAAACTTGAGAG
* *
1410490 AGTCGAAGATACACTTGAGAG
1 AGTCGAAGAGAAACTTGAGAG
1410511 GCATAAGGGG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.41, C:0.11, G:0.30, T:0.17
Consensus pattern (21 bp):
AGTCGAAGAGAAACTTGAGAG
Found at i:1410586 original size:33 final size:33
Alignment explanation
Indices: 1410544--1410609 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
1410534 AAATAGATGG
*
1410544 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
1410577 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
1410610 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:1411805 original size:4 final size:4
Alignment explanation
Indices: 1411796--1415348 Score: 6314
Period size: 4 Copynumber: 905.8 Consensus size: 4
1411786 TAAGAGATTG
1411796 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1411844 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1411892 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1411940 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1411988 GTAT GTAT GTAT G-AT GTAT GTAT GTAT GTA- GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
*
1412034 GT-T GTAT GTCT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1412081 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1412129 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1412177 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1412225 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
*
1412273 GTAT GTAT GTCT GTAT GTAT GTAT GTA- GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1412320 GTAT GTAT GTAT GTAT GTAT GTA- -TAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1412366 GTAT GTAT GTAT GTAT G--T GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
*
1412412 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAG GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
*
1412460 GTAT GTAT GTAT GTAT GTTGT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT G-TAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1412509 GTAT GTAT GTA- GT-T GTAT GTAT GTAT GTAT GTAT GTAT GTA- GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
*
1412554 GTAT GTAT -TAT GTAT GTAT GTAT GTA- GTAT GTAG GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1412600 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1412648 GTAT GTAT GTAT GTAT GTTAT GTAT GTAT GTAT GTAT GTAT GGTAT GTAT
1 GTAT GTAT GTAT GTAT G-TAT GTAT GTAT GTAT GTAT GTAT -GTAT GTAT
1412698 GTAT GTAT GTAT GTAT GTAT GTAT GTAT -TAT GTAT GTA- GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1412744 GTAT GTAT GTAT GTAT GTA- GTAT GTAT GTAT GTAT GTAT GTA- -TAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1412789 GTAT GTAT GTA- GTAT GTGAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GT-AT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1412837 GTAT GTAT GTAT GTA- GTAT GTAT GTA- GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1412883 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT G-AT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1412930 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1412978 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1413026 GTAT GTAT GTAT GTAT GTA- GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
*
1413073 GTAT GTAT GTAT GGAT GTAT GTAT GTAT GTAT GTAT GT-T GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1413120 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1413168 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTA- GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1413215 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
*
1413263 GTAT GTAT GTAG GTAT GTAT GTAT GTAT GTA- GT-T GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1413309 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1413357 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1413405 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTA- GTAGT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTA-T GTAT
1413453 GTAT GTAT GTAT GTAT -TAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1413500 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1413548 GTA- GTAT GTAT GTAT GTAT GTAT G--T GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
*
1413593 GTAT GGAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1413641 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
*
1413689 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAG
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1413737 GTAT GTA- GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTA- GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1413783 GTA- GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1413830 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1413878 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTA- GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1413925 GTAT GTAT GGTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTA-
1 GTAT GTAT -GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1413973 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTA-
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1414020 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1414068 GTAT GTAT GGTAT GT-T GTAT GTA- -TAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT -GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1414114 GTAT GTAT -TAT GTA- GTAT GTAT GTAT GTA- GTAT G--T GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1414157 GTAT GTAT GTAT GTAT GTAT G--T GTAT GTAT GT-T GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1414202 GTAT GTAT GT-T GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTA- GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1414248 GTAGT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTA-T GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1414297 GTA- -TAT GTAT GT-T GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1414342 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
*
1414390 GTAT GTAT -TAT GTAG GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTA-
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1414436 GTAT GTAT GTAT GTAT GTAT GTAT GTA- GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1414483 GTAT GTAT GTAT -TAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1414530 GTAT GTAT GTAT GTAT GTAT -TAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1414577 GT-T GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1414624 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GT-T GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1414671 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTA- GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1414718 GTAT GTAT GTAT GTAT GTAT GTAT -TAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1414765 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1414813 GTAT GTAT G--T GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1414859 GTA- -TAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
*
1414905 GTAT GTAT GTA- GTAT GTAT GTAT GTAT GTAT GTAT GTAG GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1414952 G--T GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTA- -TAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
*
1414996 GTAT GTAT GTAT GTAT GTAT GTAT GTCT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1415044 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
*
1415092 GTAGT ATAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT G--T GTAT
1 GTA-T GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1415139 GTAT GTAT -TAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTA-
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
*
1415185 -TAT GTAT GTAT GTAT GTAT GTAT GTAG GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1415232 G--T GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTA- GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1415277 GTA- GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GT-AT
1415325 GTAT GTAT GTAAT GTAT GTAT GTA
1 GTAT GTAT GT-AT GTAT GTAT GTA
1415349 ATGCATAATT
Statistics
Matches: 3429, Mismatches: 28, Indels: 184
0.94 0.01 0.05
Matches are distributed among these distances:
2 30 0.01
3 149 0.04
4 3209 0.94
5 41 0.01
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.49
Consensus pattern (4 bp):
GTAT
Found at i:1415923 original size:19 final size:19
Alignment explanation
Indices: 1415899--1415947 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
1415889 AATGTAGGGT
1415899 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
1415918 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
1415937 TAATTTTGTAT
1 TAATTTTGTAT
1415948 GTGAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:1416870 original size:200 final size:200
Alignment explanation
Indices: 1416552--1417271 Score: 1230
Period size: 200 Copynumber: 3.6 Consensus size: 200
1416542 GTGCAACAAT
*
1416552 AAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAA-TTGTCAATCTAA
1 AAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAA
* *
1416616 CCGGTACAAGTATACTGATTTTATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTT
66 CCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTT
* * *
1416681 TGTATCGATATTTTTGGTCCAGAATGAATGGCAAACATGGTGCAACAATAAAGTGTCGATCCATA
131 TGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATA
1416746 TATAA
196 TATAA
1416751 AAAGTGTCGATCCCATAAACATCGAAACCCATAA-TCATAATGTAATAGGTAATTTTTCAATCTA
1 AAAGTGTCGATCCCATAAACATCGAAACCCATAAGT-ATAATGTAATAGGTAATTTTTCAATCTA
*
1416815 ACCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATATGTCGACACTTTTGTAGT
65 ACCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGT
* *
1416880 TTGTGTCGATATTTTTGGTCCATAATGAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCAT
130 TTGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCAT
1416945 ATATAA
195 ATATAA
*
1416951 AAAGTGTCAATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAA
1 AAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAA
1417016 CCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTT
66 CCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTT
*
1417081 TGTGTCGATATTTTTGGTCCAGAATGAATGGCAAATAGGGTGCAACCATAAAGTGTCGATCCATA
131 TGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATA
1417146 TATAA
196 TATAA
* *
1417151 AAAGTGTCGATCCCATAAACATCGAAACCCAAAAGTATAATGTATTAGGTAATTTTTCAATCTAA
1 AAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAA
* * * * * *
1417216 CAGGTATAAGTATACCGGTTTTATGGGAGAATTGGTATATAAT-ATGTATCGACACT
66 CCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTA-AATAATGTGTCGACACT
1417272 GTTTAATGTT
Statistics
Matches: 494, Mismatches: 23, Indels: 7
0.94 0.04 0.01
Matches are distributed among these distances:
198 1 0.00
199 50 0.10
200 439 0.89
201 4 0.01
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (200 bp):
AAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAA
CCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTT
TGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATA
TATAA
Found at i:1416870 original size:378 final size:386
Alignment explanation
Indices: 1416169--1417271 Score: 1708
Period size: 378 Copynumber: 2.8 Consensus size: 386
1416159 GTCGATCCAT
*
1416169 ATATAAAAAGTGTCGATCCCATAAACATCGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCA
1 ATAT-AAAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCA
* ** *
1416234 ATCTAATCAATACAAGTATACCGGTTTTATGAGAGAATAGGTCT-AA-AATGTATCGACACTTTT
65 ATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTT
1416297 GTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGA
130 GTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGA
* * *
1416362 TCCATATATAAAAAGTATCGATCCGATAAACATCGAAACCCATAAGTATAATATAATAGGTAATT
195 TCCATATATAAAAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATT
* *
1416427 TTTCAATCTAACCGGTACAAGTATACCAGTTTTATGAGAGAATAGGTCTAAATAATGTATCGACA
260 TTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATATATCGACA
*
1416492 CTTTTGTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTG-C-A-A-C-
325 CTTTTGTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGGAAAACAGGGTGACAAGACCA
*
1416549 A-AT-AAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAA-TTGTCAA
1 ATATAAAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAA
* *
1416611 TCTAACCGGTACAAGTATACTGATTTTATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTG
66 TCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTG
* *
1416676 TAGTTTGTATCGATATTTTTGGTCCAGAATGAATGGCAAACATGGTGCAACAATAAAGTGTCGAT
131 TAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGAT
1416741 CCATATATAAAAAGTGTCGATCCCATAAACATCGAAACCCATAA-TCATAATGTAATAGGTAATT
196 CCATATATAAAAAGTGTCGATCCCATAAACATCGAAACCCATAAGT-ATAATGTAATAGGTAATT
*
1416805 TTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATATGTCGACA
260 TTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATATATCGACA
*
1416870 CTTTTGTAGTTTGTGTCGATATTTTTGGTCCATAATGAATGGAAAACAGGGTGCAACCATAAAGT
325 CTTTTGTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGGAAAACAGGGTG--A-C---AA--
1416935 GTCGATCCA
382 ---GA-CCA
*
1416944 TATATAAAAAGTGTCAATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTC
1 -ATAT-AAAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTC
1417009 AATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTGTCGACACTTT
64 AATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTGTCGACACTTT
* *
1417074 TGTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGGCAAATAGGGTGCAACCATAAAGTGTCG
129 TGTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCG
* *
1417139 ATCCATATATAAAAAGTGTCGATCCCATAAACATCGAAACCCAAAAGTATAATGTATTAGGTAAT
194 ATCCATATATAAAAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAAT
* * * * * *
1417204 TTTTCAATCTAACAGGTATAAGTATACCGGTTTTATGGGAGAATTGGTATATAAT-ATGTATCGA
259 TTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTA-AATAATATATCGA
1417268 CACT
323 CACT
1417272 GTTTAATGTT
Statistics
Matches: 661, Mismatches: 35, Indels: 34
0.91 0.05 0.05
Matches are distributed among these distances:
376 44 0.07
377 54 0.08
378 252 0.38
379 2 0.00
380 1 0.00
382 1 0.00
386 1 0.00
392 1 0.00
394 1 0.00
396 1 0.00
397 2 0.00
399 51 0.08
400 246 0.37
401 4 0.01
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (386 bp):
ATATAAAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAA
TCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTG
TAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGAT
CCATATATAAAAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTT
TTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATATATCGACAC
TTTTGTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGGAAAACAGGGTGACAAGACCA
Found at i:1418786 original size:12 final size:12
Alignment explanation
Indices: 1418764--1418809 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
1418754 CAAGCGGTCA
*
1418764 ATGAAGATGAAG
1 ATGACGATGAAG
*
1418776 CTGACGATGAAG
1 ATGACGATGAAG
*
1418788 ATGACGATGATG
1 ATGACGATGAAG
*
1418800 ATGATGATGA
1 ATGACGATGA
1418810 TGATCCAAAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.39, C:0.07, G:0.33, T:0.22
Consensus pattern (12 bp):
ATGACGATGAAG
Found at i:1418802 original size:18 final size:18
Alignment explanation
Indices: 1418764--1418809 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
1418754 CAAGCGGTCA
*
1418764 ATGAAGATGAAGCTGACG
1 ATGAAGATGAAGATGACG
* *
1418782 ATGAAGATGACGATGATG
1 ATGAAGATGAAGATGACG
*
1418800 ATGATGATGA
1 ATGAAGATGA
1418810 TGATCCAAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.39, C:0.07, G:0.33, T:0.22
Consensus pattern (18 bp):
ATGAAGATGAAGATGACG
Found at i:1420349 original size:172 final size:171
Alignment explanation
Indices: 1420062--1420407 Score: 577
Period size: 172 Copynumber: 2.0 Consensus size: 171
1420052 ATGTCCAGAA
* * *
1420062 TGGAAGAAAAATGTGTCGATACCTTTTCAAAAAGTGTCGATTGAAAAAATATCGGAACCCATAAT
1 TGGAAGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGATT--AAAAACATCGGAACCCAGAAT
* *
1420127 TATAATGTAATAGATAATTTTTTAATATAATCGGTATAAATATACCGGTTTTATGAGCGAATAGG
64 TATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGG
1420192 TCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTT
129 TCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTT
* *
1420235 TGGAAGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATT-TACACATCGGAACCCAGAAT
1 TGGAAGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCG--ATTAAAAACATCGGAACCCAGAAT
1420299 TATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGG
64 TATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGG
*
1420364 TCTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTT
129 TCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTT
1420407 T
1 T
1420408 ATGTCCAGAA
Statistics
Matches: 163, Mismatches: 8, Indels: 5
0.93 0.05 0.03
Matches are distributed among these distances:
172 122 0.75
173 38 0.23
175 3 0.02
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (171 bp):
TGGAAGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGATTAAAAACATCGGAACCCAGAATTA
TAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTC
TACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTT
Found at i:1423048 original size:22 final size:22
Alignment explanation
Indices: 1423004--1423048 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
1422994 ATTACATAAC
*
1423004 TTTAAAAAAAGTATCGATCCTT
1 TTTAAAAAAAGTATCGAACCTT
*
1423026 TTTATAAAAAGTAT-GAACACTT
1 TTTAAAAAAAGTATCGAAC-CTT
1423048 T
1 T
1423049 CAATATAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (22 bp):
TTTAAAAAAAGTATCGAACCTT
Found at i:1423100 original size:23 final size:23
Alignment explanation
Indices: 1423074--1423138 Score: 103
Period size: 23 Copynumber: 2.8 Consensus size: 23
1423064 AAATATGATG
1423074 TAATAGGTAGCGCTTATATAATA
1 TAATAGGTAGCGCTTATATAATA
* *
1423097 TAATAGGTAGCGTTTATATAATG
1 TAATAGGTAGCGCTTATATAATA
*
1423120 TAATAGGTAGTGCTTATAT
1 TAATAGGTAGCGCTTATAT
1423139 TGTAAAATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.35, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
TAATAGGTAGCGCTTATATAATA
Found at i:1423142 original size:21 final size:22
Alignment explanation
Indices: 1423066--1423143 Score: 95
Period size: 23 Copynumber: 3.5 Consensus size: 22
1423056 ATAGGTAAAA
1423066 ATATGATGTAATAGGTAGCGCTT
1 ATAT-ATGTAATAGGTAGCGCTT
* *
1423089 ATATAATATAATAGGTAGCGTTT
1 ATAT-ATGTAATAGGTAGCGCTT
*
1423112 ATATAATGTAATAGGTAGTGCTT
1 ATAT-ATGTAATAGGTAGCGCTT
1423135 ATAT-TGTAA
1 ATATATGTAA
1423144 AATATCTATC
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
21 5 0.10
23 44 0.90
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (22 bp):
ATATATGTAATAGGTAGCGCTT
Found at i:1423163 original size:46 final size:46
Alignment explanation
Indices: 1423066--1423163 Score: 106
Period size: 46 Copynumber: 2.1 Consensus size: 46
1423056 ATAGGTAAAA
* * * *
1423066 ATATGATGTAATAGGTAGCGCTTATATAATATAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTTATATAATAAAATAGCTAGCATTT
* ** * *
1423112 ATATAATGTAATAGGTAGTGCTTATATTGTAAAATATCTATCATTT
1 ATATAATGTAATAGGTAGCGCTTATATAATAAAATAGCTAGCATTT
*
1423158 TTATAA
1 ATATAA
1423164 AAGTGTCCAT
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.37, C:0.06, G:0.16, T:0.41
Consensus pattern (46 bp):
ATATAATGTAATAGGTAGCGCTTATATAATAAAATAGCTAGCATTT
Found at i:1423950 original size:21 final size:21
Alignment explanation
Indices: 1423926--1423971 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
1423916 CTAACGTTCT
*
1423926 ATGACTATGAGCCAGATCCTG
1 ATGACTATGAGCCAGACCCTG
* *
1423947 ATGACTCTGAGCCCGACCCTG
1 ATGACTATGAGCCAGACCCTG
1423968 ATGA
1 ATGA
1423972 GTCTTCGACT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.28, G:0.24, T:0.22
Consensus pattern (21 bp):
ATGACTATGAGCCAGACCCTG
Found at i:1424461 original size:21 final size:21
Alignment explanation
Indices: 1424432--1424472 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
1424422 ATATAAATTG
*
1424432 TGTATCGATGCACTGCTACAA
1 TGTACCGATGCACTGCTACAA
1424453 TGTACCGATGCACTGCTACA
1 TGTACCGATGCACTGCTACA
1424473 GTAACTTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (21 bp):
TGTACCGATGCACTGCTACAA
Found at i:1425210 original size:23 final size:23
Alignment explanation
Indices: 1425182--1425225 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
1425172 AATACATATA
1425182 TGTCCCAAAGGACCACGTAGAAT
1 TGTCCCAAAGGACCACGTAGAAT
*
1425205 TGTCCCAAAGGACCGCGTAGA
1 TGTCCCAAAGGACCACGTAGA
1425226 CCCTCTACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.32, C:0.27, G:0.25, T:0.16
Consensus pattern (23 bp):
TGTCCCAAAGGACCACGTAGAAT
Found at i:1429834 original size:13 final size:14
Alignment explanation
Indices: 1429816--1429844 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1429806 TGAAAAATTT
1429816 ATTAATT-TTTAAA
1 ATTAATTGTTTAAA
1429829 ATTAATTGTTTAAA
1 ATTAATTGTTTAAA
1429843 AT
1 AT
1429845 ATAAAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (14 bp):
ATTAATTGTTTAAA
Found at i:1434436 original size:4 final size:4
Alignment explanation
Indices: 1434424--1434475 Score: 86
Period size: 4 Copynumber: 13.0 Consensus size: 4
1434414 ATGTACATAC
* *
1434424 ATAT TTAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAC
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
1434472 ATAT
1 ATAT
1434476 TTTAAAACTA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 44 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (4 bp):
ATAT
Found at i:1434438 original size:6 final size:6
Alignment explanation
Indices: 1434424--1434475 Score: 86
Period size: 6 Copynumber: 8.7 Consensus size: 6
1434414 ATGTACATAC
* *
1434424 ATATTT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAC
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
1434472 ATAT
1 ATAT
1434476 TTTAAAACTA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (6 bp):
ATATAT
Found at i:1434623 original size:36 final size:36
Alignment explanation
Indices: 1434544--1434800 Score: 184
Period size: 36 Copynumber: 7.2 Consensus size: 36
1434534 AGTTTTTAAA
*
1434544 AAAACATTTT-AAAA-ATATATATAATATAATTTTT-
1 AAAACATTTTGAAAACTTATATAT-ATATAATTTTTG
1434578 AAAATCATTTTGAAAACTTATATATATATAATTTTTG
1 AAAA-CATTTTGAAAACTTATATATATATAATTTTTG
*
1434615 AAAACATTTTGAAAAC--ATATAT-TAT-A-GTTTG
1 AAAACATTTTGAAAACTTATATATATATAATTTTTG
* *
1434646 AAAATATTTTTGAAAACATT-TATATTATATAGTTTTT-
1 AAAACA-TTTTGAAAAC-TTATATA-TATATAATTTTTG
1434683 AAAACGATTTTTGAAAAC-T-TATATA-AT-ATTTTTG
1 AAAAC-A-TTTTGAAAACTTATATATATATAATTTTTG
* * * ***
1434717 AAAACATGTTGAAAACATTCGTATATTATATAGTTTAAA
1 AAAACATTTTGAAAAC-TT-ATATA-TATATAATTTTTG
* * *
1434756 AAAATATTTTGAAAATTTATATAT-TATATGTTTTTG
1 AAAACATTTTGAAAACTTATATATATATA-ATTTTTG
*
1434792 AAAATATTT
1 AAAACATTT
1434801 ATGTATATAT
Statistics
Matches: 182, Mismatches: 19, Indels: 42
0.75 0.08 0.17
Matches are distributed among these distances:
31 9 0.05
32 20 0.11
33 9 0.05
34 22 0.12
35 13 0.07
36 53 0.29
37 21 0.12
38 19 0.10
39 16 0.09
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.45
Consensus pattern (36 bp):
AAAACATTTTGAAAACTTATATATATATAATTTTTG
Found at i:1434729 original size:70 final size:69
Alignment explanation
Indices: 1434544--1434778 Score: 223
Period size: 71 Copynumber: 3.3 Consensus size: 69
1434534 AGTTTTTAAA
* *
1434544 AAAACA-TTTT-AAAAATATATATAATATAATTTTTAAAATCATTTTGAAAAC--TTATATATAT
1 AAAACATTTTTGAAAACT-TATATAATAT--TTTTGAAAA-CATTTTGAAAACATTTATAT-TAT
*
1434605 ATAATTTTT
61 ATAGTTTTT
* * * *
1434614 GAAAACA-TTTTGAAAACATATATTATA-GTTTGAAAATATTTTTGAAAACATTTATATTATATA
1 -AAAACATTTTTGAAAACTTATATAATATTTTTGAAAACA-TTTTGAAAACATTTATATTATATA
1434677 GTTTTT
64 GTTTTT
*
1434683 AAAACGATTTTTGAAAACTTATATAATATTTTTGAAAACATGTTGAAAACATTCGTATATTATAT
1 AAAAC-ATTTTTGAAAACTTATATAATATTTTTGAAAACATTTTGAAAACATT--TATATTATAT
*
1434748 AG-TTTA
63 AGTTTTT
* *
1434754 AAAAAATATTTTGAAAATTTATATA
1 AAAACAT-TTTTGAAAACTTATATA
1434779 TTATATGTTT
Statistics
Matches: 139, Mismatches: 15, Indels: 20
0.80 0.09 0.11
Matches are distributed among these distances:
67 1 0.01
68 22 0.16
69 12 0.09
70 38 0.27
71 50 0.36
72 16 0.12
ACGTcount: A:0.46, C:0.05, G:0.06, T:0.43
Consensus pattern (69 bp):
AAAACATTTTTGAAAACTTATATAATATTTTTGAAAACATTTTGAAAACATTTATATTATATAGT
TTTT
Found at i:1434818 original size:3 final size:3
Alignment explanation
Indices: 1434810--1434843 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
1434800 TATGTATATA
1434810 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1434844 TTCATTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:1435974 original size:17 final size:19
Alignment explanation
Indices: 1435936--1435985 Score: 68
Period size: 18 Copynumber: 2.7 Consensus size: 19
1435926 AAGTTTTATT
*
1435936 TTATTTTGTTTTATCGTCA
1 TTATTTTATTTTATCGTCA
*
1435955 TTATTTT-TTTTCTCGT-A
1 TTATTTTATTTTATCGTCA
1435972 TTATTTTATTTTAT
1 TTATTTTATTTTAT
1435986 TGCTTCTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 8 0.29
18 13 0.46
19 7 0.25
ACGTcount: A:0.16, C:0.08, G:0.06, T:0.70
Consensus pattern (19 bp):
TTATTTTATTTTATCGTCA
Found at i:1438024 original size:20 final size:20
Alignment explanation
Indices: 1438001--1438047 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
1437991 ATTTAGACAT
*
1438001 TTTGCATTTTTTTTATTTTC
1 TTTGCATTTTTGTTATTTTC
1438021 TTTGCA-TTTTGTTATTTTC
1 TTTGCATTTTTGTTATTTTC
*
1438040 TCTGCATT
1 TTTGCATT
1438048 CACATTAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.11, C:0.13, G:0.09, T:0.68
Consensus pattern (20 bp):
TTTGCATTTTTGTTATTTTC
Found at i:1441710 original size:165 final size:165
Alignment explanation
Indices: 1441396--1442672 Score: 1389
Period size: 165 Copynumber: 7.7 Consensus size: 165
1441386 TTTTTTTAAA
* * **
1441396 CACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCG
1 CACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG----CCAAAGACCCCCGAGTTCG
* * * * * * *
1441461 ACTACGCTCAGC-TCCAAGGCATATCATTTGCAGCACAACTTGAA-TCTAGAAGGGTTGTCTGCC
62 ATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAAC-TCAAGTCTAGAAGGGTTGTCTGCC
* * *
1441524 AACCAAAGACCTTTGAGTTCGATTACACTCAGCTCAACGG
126 AACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAACGG
*
1441564 CACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTA
1 CACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTA
* * * * **
1441629 CACTCAGCTTCGAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTG-TGACCA
66 CACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTCAAGTCTAGAAGGGTTGTCTGCCAACC-
1441693 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GG
130 AAAGACCTTCGAGTTCGACTACGCTCAGCT-CAACGG
* * * * * * ***
1441729 CATATCATTTGCAGCACAACTTGAA-TCTAGAAGGGTTGTCTGCCAACCAAAGACCTTTGAGTTC
1 CACATCATTTGCAGCATAGCTT-AAGTCGAGAAGGGCTATCTG----CCAAAGACCCCCGAGTTC
* * * * * * * * *
1441793 GATTACGCTCAGC-TCAACGACACATCATTTGCAGTATAGC-CTAAGTCGAGAAGGGCTATCTG-
61 GATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTC-AAGTCTAGAAGGGTTGTCTGC
* ** * * * *
1441855 ---CTAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGG
125 CAACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCAACGG
* * * * * * * ***
1441894 CACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGATCTTTGAGTTCG
1 CACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATC--TG-CC-AAAGACCCCCGAGTTCG
* * * * * * *
1441959 ACTACGCTCAGC-TCCAAGGCATATCATTTGCAGCACAACTTGAA-TCTAGAAGGGTTGTCTGCC
62 ATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAAC-TCAAGTCTAGAAGGGTTGTCTGCC
* *
1442022 AACCAAAGACCTTTGAGTTCGATTACGCTCAGCTCAACGG
126 AACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAACGG
*
1442062 CACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTA
1 CACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTA
* * * * **
1442127 CACTCAGCTTCGAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTG-TGACCA
66 CACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTCAAGTCTAGAAGGGTTGTCTGCCAACC-
*
1442191 AAAGACCTTCGAGTTCGACTACGCTCAGCTCAACGA
130 AAAGACCTTCGAGTTCGACTACGCTCAGCTCAACGG
* *
1442227 CACATCATTTCCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCAATTA
1 CACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTA
* * *
1442292 CACTCAGCTTCGAGGGCACATCATTTGCAGCATACCTGAAGTCGAGAAGGGTTGTCTGCCAACCA
66 CACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTCAAGTCTAGAAGGGTTGTCTGCCAACCA
* *
1442357 AAGACCTTTGAGTTCGACTACGTTCAGCTCAACGG
131 AAGACCTTCGAGTTCGACTACGCTCAGCTCAACGG
*
1442392 CACATCATTTCCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTA
1 CACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTA
* * *
1442457 CACTCAGCTTCGAGGGCACATCATTTGCAGCATACCTGAAGTCGAGAAGGGTTGTCTGCCAACCA
66 CACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTCAAGTCTAGAAGGGTTGTCTGCCAACCA
*
1442522 AAAACCTTCGAGTTCGACTACGCTCAGCTCTAA-GG
131 AAGACCTTCGAGTTCGACTACGCTCAGCTC-AACGG
* * *
1442557 CATATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCTGGGTTCGATTA
1 CACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTA
* * * * * * *
1442622 CACTCAACTTCGAGGTC-CTATCATTTACAACATAGCTCAAGGCAAGAAGGG
66 CACTCAGCTTCGAGGGCAC-ATCATTTGCAGCATAACTCAAGTCTAGAAGGG
1442673 CTATTTGTCA
Statistics
Matches: 951, Mismatches: 130, Indels: 59
0.83 0.11 0.05
Matches are distributed among these distances:
164 95 0.10
165 672 0.71
166 14 0.01
167 3 0.00
168 114 0.12
169 53 0.06
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (165 bp):
CACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTA
CACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTCAAGTCTAGAAGGGTTGTCTGCCAACCA
AAGACCTTCGAGTTCGACTACGCTCAGCTCAACGG
Found at i:1441840 original size:249 final size:249
Alignment explanation
Indices: 1441396--1442672 Score: 1711
Period size: 249 Copynumber: 5.1 Consensus size: 249
1441386 TTTTTTTAAA
* * * * **
1441396 CACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACC-AAAGACCTTCGAGTTC
1 CACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTG-TGACCAAAAGACCTTCGAGTTC
1441460 GACTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTGAATCTAGAAGGGTTGTCTGCCA
65 GACTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTGAATCTAGAAGGGTTGTCTGCCA
*
1441525 ACCAAAGACCTTTGAGTTCGATTACACTCAGCTCAACGGCACATCATTTGCAGTATAGCTTAAGT
130 ACCAAAGACCTTTGAGTTCGATTACGCTCAGCTCAACGGCACATCATTTGCAGTATAGCTTAAGT
1441590 CGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGG
195 CGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGG
*
1441645 CATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCG
1 CACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCG
1441710 ACTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTGAATCTAGAAGGGTTGTCTGCCAA
66 ACTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTGAATCTAGAAGGGTTGTCTGCCAA
* *
1441775 CCAAAGACCTTTGAGTTCGATTACGCTCAGCTCAACGACACATCATTTGCAGTATAGCCTAAGTC
131 CCAAAGACCTTTGAGTTCGATTACGCTCAGCTCAACGGCACATCATTTGCAGTATAGCTTAAGTC
*
1441840 GAGAAGGGCTATCTGCTAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGG
196 GAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGG
* *
1441894 CACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGATCTTTGAGTTCG
1 CACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCG
1441959 ACTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTGAATCTAGAAGGGTTGTCTGCCAA
66 ACTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTGAATCTAGAAGGGTTGTCTGCCAA
1442024 CCAAAGACCTTTGAGTTCGATTACGCTCAGCTCAACGGCACATCATTTGCAGTATAGCTTAAGTC
131 CCAAAGACCTTTGAGTTCGATTACGCTCAGCTCAACGGCACATCATTTGCAGTATAGCTTAAGTC
1442089 GAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGG
196 GAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGG
*
1442143 CACATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCG
1 CACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCG
* * * * * * * *
1442208 ACTACGCTCAGCT-CAACGACACATCATTTCCAGCATAGCTT-AAGTCGAGAAGGGCTATCTG--
66 ACTACGCTCAGCTCCAA-GGCATATCATTTGCAGCACAACTTGAA-TCTAGAAGGGTTGTCTGCC
*** * * * * * * *
1442269 --CCAAAGACCCCCGAGTTCAATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATACCTGAA
129 AACCAAAGACCTTTGAGTTCGATTACGCTCAGC-TCAACGGCACATCATTTGCAGTATAGCTTAA
* * *** * ** * *
1442332 GTCGAGAAGGGTTGTCTGCCAACCAAAGACCTTTGAGTTCGACTACGTTCAGC-TCAACGG
193 GTCGAGAAGGGCTATCTG----CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGG
* * * * * * **
1442392 CACATCATTTCCAGCATAGCTTAAGTCGAGAAGGGCTATC--TG-CC-AAAGACCCCCGAGTTCG
1 CACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCG
* * * * * * * *
1442453 ATTACACTCAGCTTCGAGGGCACATCATTTGCAGCA-TACCTGAAGTCGAGAAGGGTTGTCTGCC
66 ACTACGCTCAGC-TCCAAGGCATATCATTTGCAGCACAACTTGAA-TCTAGAAGGGTTGTCTGCC
* * * * *
1442517 AACCAAAAACCTTCGAGTTCGACTACGCTCAGCTCTAA-GGCATATCATTTGCAGCATAGCTTAA
129 AACCAAAGACCTTTGAGTTCGATTACGCTCAGCTC-AACGGCACATCATTTGCAGTATAGCTTAA
* * * *
1442581 GTCGAGAAGGGCTATCTGCCAAAGACCCCTGGGTTCGATTACACTCAACTTCGAGGT
193 GTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGG
* * *
1442638 C-CTATCATTTACAACATAGCTCAAGGCAAGAAGGG
1 CAC-ATCATTTACAGCATAACTCAAGGCTAGAAGGG
1442673 CTATTTGTCA
Statistics
Matches: 915, Mismatches: 95, Indels: 39
0.87 0.09 0.04
Matches are distributed among these distances:
245 78 0.09
246 111 0.12
247 3 0.00
248 8 0.01
249 664 0.73
250 51 0.06
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (249 bp):
CACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCG
ACTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTGAATCTAGAAGGGTTGTCTGCCAA
CCAAAGACCTTTGAGTTCGATTACGCTCAGCTCAACGGCACATCATTTGCAGTATAGCTTAAGTC
GAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGG
Found at i:1443369 original size:39 final size:38
Alignment explanation
Indices: 1443307--1443582 Score: 141
Period size: 37 Copynumber: 7.4 Consensus size: 38
1443297 AATAGTTTTT
* * *
1443307 AAAACTATATAATGTATAGTTTTTAAAAAAACATTTT-A
1 AAAATTATATAATATATAATTTTT-AAAAAACATTTTGA
*
1443345 AAAATATATATAATATATAATTTTT-AAAATCATTTTGA
1 AAAAT-TATATAATATATAATTTTTAAAAAACATTTTGA
* *
1443383 AAACTTATAT-ATATATAATTTTT-GAAAACATTTTTGA
1 AAAATTATATAATATATAATTTTTAAAAAACA-TTTTGA
* * * * *
1443420 AAACA-CATAT-AT-TATAGTTTTGAAAATA-TTTTTGA
1 AAA-ATTATATAATATATAATTTTTAAAAAACATTTTGA
* * ****
1443455 AAACATTTATATATTATATAGTTTTTAAAATGTTTTTTG-
1 AAA-A-TTATATAATATATAATTTTTAAAAAACATTTTGA
* * *
1443494 AAAACT-TAT-ATA-AT-ATTTTT-GAAAACATGTTGA
1 AAAATTATATAATATATAATTTTTAAAAAACATTTTGA
* * * *
1443527 AAACATTCGTATATTATAT-AGTTTAAAAAAACATTTTGA
1 AAA-ATT-ATATAATATATAATTTTTAAAAAACATTTTGA
* *
1443566 AAATTTATATATTATAT
1 AAAATTATATAATATAT
1443583 GTTTTTGAAA
Statistics
Matches: 186, Mismatches: 35, Indels: 35
0.73 0.14 0.14
Matches are distributed among these distances:
32 6 0.03
33 8 0.04
34 4 0.02
35 13 0.07
36 32 0.17
37 50 0.27
38 19 0.10
39 48 0.26
40 6 0.03
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.44
Consensus pattern (38 bp):
AAAATTATATAATATATAATTTTTAAAAAACATTTTGA
Found at i:1443379 original size:37 final size:38
Alignment explanation
Indices: 1443278--1443509 Score: 166
Period size: 36 Copynumber: 6.3 Consensus size: 38
1443268 TAAAACTACG
*
1443278 TATATAATATATAGTTTTT--AAT-AGTTTTT-AAAA-C
1 TATATAATATATAGTTTTTAAAATCA-TTTTTAAAAATA
* *
1443312 TATATAATGTATAGTTTTTAAAAAAACA-TTTTAAAAATA
1 TATATAATATATAGTTTTT--AAAATCATTTTTAAAAATA
* * *
1443351 TATATAATATATAATTTTTAAAATCATTTTGAAAACT-
1 TATATAATATATAGTTTTTAAAATCATTTTTAAAAATA
* * *
1443388 TATAT-ATATATAATTTTTGAAAA-CATTTTTGAAAACA
1 TATATAATATATAGTTTTT-AAAATCATTTTTAAAAATA
* * *
1443425 CATAT-AT-TATAGTTTTGAAAAT-ATTTTTGAAAACATT
1 TATATAATATATAGTTTTTAAAATCATTTTT-AAAA-ATA
* ** *
1443462 TATATATTATATAGTTTTTAAAATGTTTTTTGAAAACT-
1 TATATAATATATAGTTTTTAAAATCATTTTT-AAAAATA
1443500 TATATAATAT
1 TATATAATAT
1443510 TTTTGAAAAC
Statistics
Matches: 158, Mismatches: 24, Indels: 28
0.75 0.11 0.13
Matches are distributed among these distances:
34 18 0.11
35 10 0.06
36 33 0.21
37 30 0.19
38 24 0.15
39 33 0.21
40 10 0.06
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.47
Consensus pattern (38 bp):
TATATAATATATAGTTTTTAAAATCATTTTTAAAAATA
Found at i:1443417 original size:12 final size:12
Alignment explanation
Indices: 1443400--1443424 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1443390 TATATATATA
1443400 ATTTTTGAAAAC
1 ATTTTTGAAAAC
1443412 ATTTTTGAAAAC
1 ATTTTTGAAAAC
1443424 A
1 A
1443425 CATATATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (12 bp):
ATTTTTGAAAAC
Found at i:1443436 original size:111 final size:106
Alignment explanation
Indices: 1443321--1443598 Score: 305
Period size: 109 Copynumber: 2.5 Consensus size: 106
1443311 CTATATAATG
* * *
1443321 TATAGTTTTTAAAAAAACATTTTAAAAATATATATAATATATAATTTTTAAAATCATTTTGAAAA
1 TATAGTTTTTAAAAAAACATTTTAAAAATTTATATATTATATAGTTTTTAAAAT-ATTTTGAAAA
*
1443386 CTTATATATATATAATTTTTGAAAACATTTTTGAAAACA-CATATAT
65 C-T-TATATA-AT-ATTTTTGAAAACA-TGTTGAAAACATCATATAT
* * * *
1443432 TATAG-TTTTGAAAATA-TTTTTGAAAACATTTATATATTATATAGTTTTTAAAATGTTTTTTGA
1 TATAGTTTTTAAAAAAACATTTT-AAAA-ATTTATATATTATATAGTTTTTAAAA--TATTTTGA
*
1443495 AAACTTATATAATATTTTTGAAAACATGTTGAAAACATTCGTATAT
62 AAACTTATATAATATTTTTGAAAACATGTTGAAAACA-TCATATAT
* *
1443541 TATA-TAGTTTAAAAAAACATTTTGAAAATTTATATATTATAT-GTTTTTGAAAATATTT
1 TATAGT-TTTTAAAAAAACATTTTAAAAATTTATATATTATATAGTTTTT-AAAATATTT
1443599 ATGTATATAT
Statistics
Matches: 142, Mismatches: 15, Indels: 24
0.78 0.08 0.13
Matches are distributed among these distances:
107 14 0.10
108 19 0.13
109 35 0.25
110 30 0.21
111 33 0.23
112 10 0.07
113 1 0.01
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (106 bp):
TATAGTTTTTAAAAAAACATTTTAAAAATTTATATATTATATAGTTTTTAAAATATTTTGAAAAC
TTATATAATATTTTTGAAAACATGTTGAAAACATCATATAT
Found at i:1443455 original size:72 final size:72
Alignment explanation
Indices: 1443377--1443598 Score: 211
Period size: 72 Copynumber: 3.0 Consensus size: 72
1443367 TTTAAAATCA
*
1443377 TTTTGAAAAC-TTATATA-TATATAATTTTTGAAAACATTTTTGAAAACACATATATTATAGTTT
1 TTTTGAAAACATTATATATTATATAGTTTTT-AAAACATTTTTGAAAA-ACATATATTATAGTTT
1443440 TGAAAATAT
64 TGAAAATAT
** * * *
1443449 TTTTGAAAACATTTATATATTATATAGTTTTTAAAATGTTTTTTG-AAAACTTATATAATATTTT
1 TTTTGAAAACA-TTATATATTATATAGTTTTTAAAA-CATTTTTGAAAAACATATATTATAGTTT
*
1443513 TGAAAACA-
64 TGAAAATAT
* * ** **
1443521 TGTTGAAAACATTCGTATATTATATAGTTTAAAAAAACA-TTTTGAAAATTTATATATTATATGT
1 TTTTGAAAACATT-ATATATTATATAGTTT-TTAAAACATTTTTGAAAA-ACATATATTATA-G-
1443585 TTTTGAAAATAT
61 TTTTGAAAATAT
1443597 TT
1 TT
1443599 ATGTATATAT
Statistics
Matches: 119, Mismatches: 20, Indels: 18
0.76 0.13 0.11
Matches are distributed among these distances:
71 7 0.06
72 38 0.32
73 32 0.27
74 14 0.12
75 27 0.23
76 1 0.01
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.46
Consensus pattern (72 bp):
TTTTGAAAACATTATATATTATATAGTTTTTAAAACATTTTTGAAAAACATATATTATAGTTTTG
AAAATAT
Found at i:1443579 original size:37 final size:36
Alignment explanation
Indices: 1443312--1443587 Score: 154
Period size: 36 Copynumber: 7.5 Consensus size: 36
1443302 TTTTTAAAAC
* * *
1443312 TATATAATGTATAGTTTTTAAAAAAACATTTTAAAAATA
1 TATAT-ATATATAG-TTTT-AAAAAACATTTTGAAAATT
* * * *
1443351 TATATAATATATAATTTTTAAAATCATTTTGAAAACT
1 TATAT-ATATATAGTTTTAAAAAACATTTTGAAAATT
* ** **
1443388 TATATATATATAATTTTTGAAAACATTTTTGAAAACA
1 TATATATATATAGTTTTAAAAAACA-TTTTGAAAATT
* * *
1443425 CATATAT-TATAGTTTTGAAAATA-TTTTTGAAAACATT
1 TATATATATATAGTTTT-AAAAAACATTTTG-AAA-ATT
**** *
1443462 TATATATTATATAGTTTTTAAAATGTTTTTTGAAAACT
1 TATATA-TATATAG-TTTTAAAAAACATTTTGAAAATT
* *
1443500 TATATA-ATAT--TTTT-GAAAACATGTTGAAAACATT
1 TATATATATATAGTTTTAAAAAACATTTTG-AAA-ATT
*
1443534 CGTATAT-TATATAGTTTAAAAAAACATTTTGAAAATT
1 --TATATATATATAGTTTTAAAAAACATTTTGAAAATT
1443571 TATATAT-TATATGTTTT
1 TATATATATATA-GTTTT
1443588 TGAAAATATT
Statistics
Matches: 187, Mismatches: 32, Indels: 39
0.72 0.12 0.15
Matches are distributed among these distances:
32 6 0.03
33 7 0.04
34 2 0.01
35 14 0.07
36 47 0.25
37 47 0.25
38 19 0.10
39 35 0.19
40 10 0.05
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.46
Consensus pattern (36 bp):
TATATATATATAGTTTTAAAAAACATTTTGAAAATT
Found at i:1443618 original size:3 final size:3
Alignment explanation
Indices: 1443610--1443637 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
1443600 TGTATATATA
1443610 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1443638 TTTCATTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:1444770 original size:17 final size:19
Alignment explanation
Indices: 1444732--1444781 Score: 68
Period size: 18 Copynumber: 2.7 Consensus size: 19
1444722 AAGTTTTATT
*
1444732 TTATTTTGTTTTATCGTCA
1 TTATTTTATTTTATCGTCA
*
1444751 TTATTTT-TTTTCTCGT-A
1 TTATTTTATTTTATCGTCA
1444768 TTATTTTATTTTAT
1 TTATTTTATTTTAT
1444782 TGCTTCTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 8 0.29
18 13 0.46
19 7 0.25
ACGTcount: A:0.16, C:0.08, G:0.06, T:0.70
Consensus pattern (19 bp):
TTATTTTATTTTATCGTCA
Found at i:1444932 original size:29 final size:29
Alignment explanation
Indices: 1444891--1444962 Score: 67
Period size: 28 Copynumber: 2.5 Consensus size: 29
1444881 TTATGTACCA
* *
1444891 TATTTTTCCTTTTTTTTTTTTGTAACTT-T
1 TATTTTT-ATTTTTTTTTTTTTTAACTTGT
** *
1444920 TATTTTTATTTTTCATTTTTTTAATTTGT
1 TATTTTTATTTTTTTTTTTTTTAACTTGT
*
1444949 TA-TTTTATTCTTTT
1 TATTTTTATTTTTTT
1444963 ATTTACTCTT
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
28 24 0.71
29 10 0.29
ACGTcount: A:0.14, C:0.07, G:0.03, T:0.76
Consensus pattern (29 bp):
TATTTTTATTTTTTTTTTTTTTAACTTGT
Found at i:1444941 original size:21 final size:20
Alignment explanation
Indices: 1444916--1444966 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
1444906 TTTTTTGTAA
1444916 CTTTTATTT-TTATTTTTCATT
1 CTTTTATTTGTTA-TTTT-ATT
*
1444937 TTTTTAATTTGTTATTTTATT
1 CTTTT-ATTTGTTATTTTATT
1444958 CTTTTATTT
1 CTTTTATTT
1444967 ACTCTTGATC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 4 0.15
21 11 0.42
22 8 0.31
23 3 0.12
ACGTcount: A:0.16, C:0.06, G:0.02, T:0.76
Consensus pattern (20 bp):
CTTTTATTTGTTATTTTATT
Found at i:1444948 original size:35 final size:36
Alignment explanation
Indices: 1444891--1444966 Score: 93
Period size: 35 Copynumber: 2.1 Consensus size: 36
1444881 TTATGTACCA
* **
1444891 TATTTTTCCTTTTTTTTTTTTGTAACTTTTA-T-TTT
1 TATTTTTCATTTTTTTAATTTGTAA-TTTTATTCTTT
*
1444926 TATTTTTCATTTTTTTAATTTGTTATTTTATTCTTT
1 TATTTTTCATTTTTTTAATTTGTAATTTTATTCTTT
1444962 TATTT
1 TATTT
1444967 ACTCTTGATC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
34 5 0.14
35 22 0.63
36 8 0.23
ACGTcount: A:0.14, C:0.07, G:0.03, T:0.76
Consensus pattern (36 bp):
TATTTTTCATTTTTTTAATTTGTAATTTTATTCTTT
Found at i:1450897 original size:2 final size:2
Alignment explanation
Indices: 1450892--1450927 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1450882 ATGTGAAGAA
1450892 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1450928 TATTTAAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1452274 original size:49 final size:45
Alignment explanation
Indices: 1452234--1452396 Score: 122
Period size: 49 Copynumber: 3.5 Consensus size: 45
1452224 CTACTCACAG
1452234 ATCAAATGATAATACATGTTTAATGATATCAATTCAATCCTA-T--
1 ATCAAATGATAATACATGTTTAATGATATCAATT-AATCCTACTAA
* * * *
1452277 -TTATACGATAATACATGTTTAATTGAGTAAGTCAA-T-ATCACTAGTAA
1 ATCAAATGATAATACATGTTTAA-TGA-T-A-TCAATTAATC-CTACTAA
** * *
1452324 ATCAAATGATAATACACCTTTAATAATATCAAGTTAATCCCACTCATAA
1 ATCAAATGATAATACATGTTTAATGATATCAA-TTAATCCTA--C-TAA
1452373 ATCAAATGATAATACATGTTTAAT
1 ATCAAATGATAATACATGTTTAAT
1452397 CATACCAAAT
Statistics
Matches: 92, Mismatches: 13, Indels: 24
0.71 0.10 0.19
Matches are distributed among these distances:
42 19 0.21
43 6 0.07
44 8 0.09
45 4 0.04
46 8 0.09
47 5 0.05
48 17 0.18
49 25 0.27
ACGTcount: A:0.43, C:0.14, G:0.08, T:0.35
Consensus pattern (45 bp):
ATCAAATGATAATACATGTTTAATGATATCAATTAATCCTACTAA
Found at i:1454425 original size:22 final size:22
Alignment explanation
Indices: 1454397--1454441 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
1454387 TAACCGACTC
1454397 CTGAACTTATTTTTTTTGGTAA
1 CTGAACTTATTTTTTTTGGTAA
1454419 CTGAACTTATTTTTTTTGGTAA
1 CTGAACTTATTTTTTTTGGTAA
1454441 C
1 C
1454442 GCATATCACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.22, C:0.11, G:0.13, T:0.53
Consensus pattern (22 bp):
CTGAACTTATTTTTTTTGGTAA
Found at i:1454779 original size:23 final size:22
Alignment explanation
Indices: 1454753--1454812 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 22
1454743 ATCAAGTAAA
*
1454753 ATAACAAATTAGGTAGCGCTTAT
1 ATAACAAA-TAGGTAGCACTTAT
**
1454776 ATAATGTAATAGGTAGCACTTAT
1 ATAA-CAAATAGGTAGCACTTAT
*
1454799 ATAATAAAATAGGT
1 ATAA-CAAATAGGT
1454813 TAATTACTAG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
23 29 0.94
24 2 0.06
ACGTcount: A:0.43, C:0.08, G:0.17, T:0.32
Consensus pattern (22 bp):
ATAACAAATAGGTAGCACTTAT
Found at i:1454886 original size:87 final size:87
Alignment explanation
Indices: 1454735--1454974 Score: 381
Period size: 87 Copynumber: 2.8 Consensus size: 87
1454725 CATTTAACCG
* * *
1454735 GAAATATTATCAAGTAAAATAACAAATTAGGTAGCGCTTATATAATGTAATAGGTAGCACTTATA
1 GAAATATTATCAAGCAAAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTATA
1454800 TAATAAAATAGGTTAATTACTA
66 TAATAAAATAGGTTAATTACTA
* * * **
1454822 GAAACATTATCAAGCATAATAACATATTAGGTAACATTTATATAATGTAATAGGTAGCGCTTATA
1 GAAATATTATCAAGCAAAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTATA
*
1454887 TAATAAAATAGGTTAATTACTG
66 TAATAAAATAGGTTAATTACTA
* *
1454909 GAAATATTATCAAGCACAATAACATATTAGATAGCGCTTATATAATGTAATAGGTAGCGCTTATA
1 GAAATATTATCAAGCAAAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTATA
1454974 T
66 T
1454975 TGACATATTC
Statistics
Matches: 138, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
87 138 1.00
ACGTcount: A:0.44, C:0.10, G:0.14, T:0.33
Consensus pattern (87 bp):
GAAATATTATCAAGCAAAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTATA
TAATAAAATAGGTTAATTACTA
Found at i:1455330 original size:198 final size:199
Alignment explanation
Indices: 1454987--1455653 Score: 934
Period size: 198 Copynumber: 3.4 Consensus size: 199
1454977 ACATATTCTA
* * ** * * *
1454987 TCATAAAATCGGTATATTTATACCGACAACATTGCAAATTTATCTATTACATTATAATTATTGGT
1 TCATAAAACCGATATATTTATACCGAGTACATTGTAAATTTACCTATTACATTATAATTATCGGT
* ** *
1455052 TTCGATGTTTTTGGGATCGATAAAATTT--TAAATGTATCGACATTTTATGCGTGCACCTCGTTG
66 TTCGATATTTTTGGGATCGAT-ACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTG
* *
1455115 GGCATTCATTTTGGAAAAAAGTATCGACACAAACTTAAAACGTGTCGATACATTATGTAGACCTA
130 GACATTCATTCTGGAAAAAAGTATCGACACAAACTTAAAACGTGTCGATACATTATGTAGACCTA
1455180 TTTTC
195 TTTTC
* *
1455185 TCATAAAACCGATATATTTCTACCGAGTACATTGTAAATTTACCTATTACATTGTAATTATCGGT
1 TCATAAAACCGATATATTTATACCGAGTACATTGTAAATTTACCTATTACATTATAATTATCGGT
* *
1455250 TTCGAT-TTTTTGAGATCGATACTTTTAATAAATGTATCGATACTTTATGCGTGCACCTCGTTGG
66 TTCGATATTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTGG
*
1455314 ACATTCATTCTGGAAAAAAGTATCGACACAAACTTAAAACGTGTCGATACATTATGTAGATCTAT
131 ACATTCATTCTGGAAAAAAGTATCGACACAAACTTAAAACGTGTCGATACATTATGTAGACCTAT
1455379 TTTC
196 TTTC
* * *
1455383 TCATAAAACCGATATATTTCTACCGAGTACATTATAAATTTACCTATTACATTGTAATTATCGGT
1 TCATAAAACCGATATATTTATACCGAGTACATTGTAAATTTACCTATTACATTATAATTATCGGT
*
1455448 TTCGATATTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTG
66 TTCGATATTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTGG
* ** ** *
1455513 TCATTCATTCTGGACAAAATA-TATCGACAC--TTTTCAAATTTGTGTCGATATATTATGTAGAC
131 ACATTCATTCTGGA-AAAA-AGTATCGACACAAACTT-AAA-ACGTGTCGATACATTATGTAGAC
*
1455575 CTATTCTC
192 CTATTTTC
* * * *
1455583 TCATAAAACCGGTATATTTATA-CTAGTTACATTGTAAATTTAGCTATTACATTATAATTATCTG
1 TCATAAAACCGATATATTTATACCGAG-TACATTGTAAATTTACCTATTACATTATAATTATCGG
1455647 TTTCGAT
65 TTTCGAT
1455654 GTAACATATG
Statistics
Matches: 425, Mismatches: 36, Indels: 14
0.89 0.08 0.03
Matches are distributed among these distances:
196 4 0.01
197 13 0.03
198 234 0.55
199 74 0.17
200 99 0.23
201 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (199 bp):
TCATAAAACCGATATATTTATACCGAGTACATTGTAAATTTACCTATTACATTATAATTATCGGT
TTCGATATTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTGG
ACATTCATTCTGGAAAAAAGTATCGACACAAACTTAAAACGTGTCGATACATTATGTAGACCTAT
TTTC
Found at i:1455851 original size:14 final size:15
Alignment explanation
Indices: 1455832--1455876 Score: 67
Period size: 14 Copynumber: 3.1 Consensus size: 15
1455822 ATTTATAGAT
1455832 ATAATATTTAAATAA
1 ATAATATTTAAATAA
*
1455847 A-AATATTTACATAA
1 ATAATATTTAAATAA
1455861 ATAATA-TTAAATAA
1 ATAATATTTAAATAA
1455875 AT
1 AT
1455877 TATTCTAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
14 22 0.81
15 5 0.19
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAATATTTAAATAA
Found at i:1455936 original size:24 final size:25
Alignment explanation
Indices: 1455868--1455936 Score: 76
Period size: 24 Copynumber: 2.9 Consensus size: 25
1455858 TAAATAATAT
*
1455868 TAAATAA-ATTATTCTAATATT-TTAA
1 TAAATAATATTA-T-TATTATTGTTAA
1455893 -AAATAATATTATTATT-TTGTTAA
1 TAAATAATATTATTATTATTGTTAA
1455916 TAAATAATATTATT-TTATTGT
1 TAAATAATATTATTATTATTGT
1455937 ATTTGATGTT
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
22 2 0.05
23 9 0.23
24 24 0.62
25 4 0.10
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.52
Consensus pattern (25 bp):
TAAATAATATTATTATTATTGTTAA
Found at i:1456532 original size:36 final size:33
Alignment explanation
Indices: 1456491--1456589 Score: 98
Period size: 31 Copynumber: 3.0 Consensus size: 33
1456481 CTCTCATTAT
1456491 AATATAATTAATGATATATTATTCTTATTATAAAAA
1 AATATAATTAAT-ATA-ATTATT-TTATTATAAAAA
* * *
1456527 AATATAATT--TATAATAATTTTATTTTAATAA
1 AATATAATTAATATAATTATTTTATTATAAAAA
1456558 AATATAA-TAATCATAATT-TTTTATTTATAAAA
1 AATATAATTAAT-ATAATTATTTTA-TTATAAAA
1456590 TTATAGATAT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
30 1 0.02
31 17 0.32
32 11 0.21
33 14 0.26
34 1 0.02
36 9 0.17
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.47
Consensus pattern (33 bp):
AATATAATTAATATAATTATTTTATTATAAAAA
Found at i:1456576 original size:30 final size:31
Alignment explanation
Indices: 1456491--1456590 Score: 87
Period size: 30 Copynumber: 3.1 Consensus size: 31
1456481 CTCTCATTAT
* *
1456491 AATATAATTAATGATATATTATTCTTATTATAAAAA
1 AATATAATTAAT-A-ATA--ATT-TTATTTTAATAA
*
1456527 AATATAATTTATAATAATTTTATTTTAATAA
1 AATATAATTAATAATAATTTTATTTTAATAA
* *
1456558 AATATAA-TAATCATAATTTT-TTATTTATAA
1 AATATAATTAATAATAATTTTATT-TTAATAA
1456588 AAT
1 AAT
1456591 TATAGATATA
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
29 2 0.04
30 20 0.35
31 17 0.30
32 3 0.05
34 3 0.05
35 1 0.02
36 11 0.19
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (31 bp):
AATATAATTAATAATAATTTTATTTTAATAA
Found at i:1456615 original size:14 final size:14
Alignment explanation
Indices: 1456533--1456634 Score: 57
Period size: 14 Copynumber: 7.2 Consensus size: 14
1456523 AAAAAATATA
**
1456533 ATTTATAATAATTTT
1 ATTT-TAATAATAAT
1456548 ATTTTAATAA-AAT
1 ATTTTAATAATAAT
** *
1456561 ATAATAATCATAAT
1 ATTTTAATAATAAT
* * * *
1456575 TTTTTATTTATAAA
1 ATTTTAATAATAAT
*
1456589 ATTATAGAT-ATAAT
1 ATTTTA-ATAATAAT
1456603 ATTTTAATAATAAT
1 ATTTTAATAATAAT
1456617 A-TTTACATAAATAAT
1 ATTTTA-AT-AATAAT
1456632 ATT
1 ATT
1456635 AAATAAATTA
Statistics
Matches: 65, Mismatches: 16, Indels: 11
0.71 0.17 0.12
Matches are distributed among these distances:
13 14 0.22
14 38 0.58
15 12 0.18
16 1 0.02
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (14 bp):
ATTTTAATAATAAT
Found at i:1456615 original size:28 final size:28
Alignment explanation
Indices: 1456547--1456615 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 28
1456537 ATAATAATTT
*
1456547 TATTTTAATAA-AATATAATAATCATAA
1 TATTTTAATAATAAAATAATAATCATAA
* * * *
1456574 TTTTTTATTTATAAAATTATAGAT-ATAA
1 TATTTTAATAATAAAATAATA-ATCATAA
1456602 TATTTTAATAATAA
1 TATTTTAATAATAA
1456616 TATTTACATA
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
27 8 0.25
28 22 0.69
29 2 0.06
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (28 bp):
TATTTTAATAATAAAATAATAATCATAA
Found at i:1456640 original size:14 final size:15
Alignment explanation
Indices: 1456598--1456642 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
1456588 AATTATAGAT
*
1456598 ATAATATTTTAAT-A
1 ATAATATTTAAATAA
*
1456612 ATAATATTTACATAA
1 ATAATATTTAAATAA
1456627 ATAATA-TTAAATAA
1 ATAATATTTAAATAA
1456641 AT
1 AT
1456643 TATTCTTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
14 20 0.74
15 7 0.26
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAATATTTAAATAA
Found at i:1456658 original size:22 final size:21
Alignment explanation
Indices: 1456633--1456686 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
1456623 ATAAATAATA
*
1456633 TTAAATAAATTATTCTTATATT
1 TTAAATAAATTATTATTAT-TT
1456655 TTAAA-AATATTATTATTATTT
1 TTAAATAA-ATTATTATTATTT
*
1456676 TGTTAATAAAT
1 T-TAAATAAAT
1456687 AATATTGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
21 5 0.19
22 20 0.74
23 2 0.07
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (21 bp):
TTAAATAAATTATTATTATTT
Found at i:1456702 original size:24 final size:24
Alignment explanation
Indices: 1456635--1456702 Score: 61
Period size: 24 Copynumber: 2.9 Consensus size: 24
1456625 AAATAATATT
* *
1456635 AAATAA-ATTATTCTTATATTTTAA
1 AAATAATATTATTATTAT-TGTTAA
*
1456659 AAATATTATTATTATT-TTGTTAA
1 AAATAATATTATTATTATTGTTAA
*
1456682 TAAATAATATTGTT-TTATTGT
1 -AAATAATATTATTATTATTGT
1456703 ATTTGATGTT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
23 7 0.19
24 21 0.58
25 8 0.22
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.54
Consensus pattern (24 bp):
AAATAATATTATTATTATTGTTAA
Found at i:1456995 original size:23 final size:23
Alignment explanation
Indices: 1456957--1457006 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
1456947 ACCTATTTTA
*
1456957 TTATATAAGCACTACCTATTACG
1 TTATATAAGCACTACCTAATACG
** *
1456980 TTATATAAGCGTTACCTAATATG
1 TTATATAAGCACTACCTAATACG
1457003 TTAT
1 TTAT
1457007 TGTGCTTAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.40
Consensus pattern (23 bp):
TTATATAAGCACTACCTAATACG
Found at i:1457060 original size:23 final size:23
Alignment explanation
Indices: 1457034--1457084 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
1457024 CTAGTAATTA
**
1457034 ACCTATTTTATTATATAAGCGCT
1 ACCTATTACATTATATAAGCGCT
*
1457057 ACCTATTACATTATATAAGCGGT
1 ACCTATTACATTATATAAGCGCT
1457080 ACCTA
1 ACCTA
1457085 ATATGTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (23 bp):
ACCTATTACATTATATAAGCGCT
Found at i:1457072 original size:87 final size:87
Alignment explanation
Indices: 1456939--1457167 Score: 370
Period size: 87 Copynumber: 2.6 Consensus size: 87
1456929 TAACAAATTA
*
1456939 AATAATTAACCTATTTTATTATATAAGCACTACCTATTACGTTATATAAGCGTTACCTAATATGT
1 AATAATTAACCTATTTTATTATATAAGCACTACCTATTACATTATATAAGCGTTACCTAATATGT
*
1457004 TATTGTGCTTAATAATATTTCT
66 TATTGTGCTTAATAATATTTCC
* * *
1457026 AGTAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGGTACCTAATATGT
1 AATAATTAACCTATTTTATTATATAAGCACTACCTATTACATTATATAAGCGTTACCTAATATGT
* * *
1457091 TATTGTGCTTGATTATGTTTCC
66 TATTGTGCTTAATAATATTTCC
*
1457113 AATAATTAACCTATTTTATTATATAA-CACTACCTATTACATTATATTAGCGTTAC
1 AATAATTAACCTATTTTATTATATAAGCACTACCTATTACATTATATAAGCGTTAC
1457168 TTATTACATT
Statistics
Matches: 130, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
86 26 0.20
87 104 0.80
ACGTcount: A:0.34, C:0.15, G:0.09, T:0.43
Consensus pattern (87 bp):
AATAATTAACCTATTTTATTATATAAGCACTACCTATTACATTATATAAGCGTTACCTAATATGT
TATTGTGCTTAATAATATTTCC
Found at i:1457176 original size:109 final size:110
Alignment explanation
Indices: 1457034--1457303 Score: 398
Period size: 109 Copynumber: 2.5 Consensus size: 110
1457024 CTAGTAATTA
**
1457034 ACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGGTACCTAATATGTTATTGTGC
1 ACCTATTACATTATATAAGCGCTACCTATTACATTATATAAGCGGTACCTAATATGTTATTGTGC
* *
1457099 TTGATTATGTTTCCAATAATTAACCTATTTTATTATATAA-CACT
66 TTGATAATGTTTCCAATAATTAACATATTTTATTATATAAGCACT
* * * * *
1457143 ACCTATTACATTATATTAGCGTTACTTATTACATTATATAAGCGGTGCCTAATATGTTATTGTGT
1 ACCTATTACATTATATAAGCGCTACCTATTACATTATATAAGCGGTACCTAATATGTTATTGTGC
* * *
1457208 TTGATAATGTTTCTAGTAATTAACATATTTTATTATATAAGCGCT
66 TTGATAATGTTTCCAATAATTAACATATTTTATTATATAAGCACT
* * *
1457253 ACCTATTACATTATATAAACGCTACCTATTACATTATATAAGTGCTACCTA
1 ACCTATTACATTATATAAGCGCTACCTATTACATTATATAAGCGGTACCTA
1457304 TTACATCATA
Statistics
Matches: 141, Mismatches: 19, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
109 94 0.67
110 47 0.33
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (110 bp):
ACCTATTACATTATATAAGCGCTACCTATTACATTATATAAGCGGTACCTAATATGTTATTGTGC
TTGATAATGTTTCCAATAATTAACATATTTTATTATATAAGCACT
Found at i:1457265 original size:23 final size:23
Alignment explanation
Indices: 1457239--1457314 Score: 125
Period size: 23 Copynumber: 3.3 Consensus size: 23
1457229 AACATATTTT
1457239 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGCGCTACCTATTAC
*
1457262 ATTATATAAACGCTACCTATTAC
1 ATTATATAAGCGCTACCTATTAC
*
1457285 ATTATATAAGTGCTACCTATTAC
1 ATTATATAAGCGCTACCTATTAC
*
1457308 ATCATAT
1 ATTATAT
1457315 TTTTACCTGT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.37, C:0.20, G:0.07, T:0.37
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTATTAC
Found at i:1458829 original size:26 final size:25
Alignment explanation
Indices: 1458796--1458874 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 25
1458786 GTTGGAGTGA
*
1458796 TTTT-AGGTTAAAGTTGTATAGGGT
1 TTTTAAGGTTAAAGTGGTATAGGGT
* *
1458820 TTGTTAAGGTGAAAGTGGTGA-AGGAT
1 TT-TTAAGGTTAAAGTGGT-ATAGGGT
*
1458846 TTTGT-AGGTTAAAGTGGTTTAGGGT
1 TTT-TAAGGTTAAAGTGGTATAGGGT
1458871 TTTT
1 TTTT
1458875 TAATGTGAGA
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
24 3 0.07
25 22 0.50
26 18 0.41
27 1 0.02
ACGTcount: A:0.24, C:0.00, G:0.33, T:0.43
Consensus pattern (25 bp):
TTTTAAGGTTAAAGTGGTATAGGGT
Found at i:1458859 original size:25 final size:25
Alignment explanation
Indices: 1458826--1458914 Score: 79
Period size: 25 Copynumber: 3.5 Consensus size: 25
1458816 GGGTTTGTTA
*
1458826 AGGTGAAAGTGGTGAAGGATTTTGT
1 AGGTGAAAGTGGTCAAGGATTTTGT
* ** * *
1458851 AGGTTAAAGTGGTTTAGGGTTTTTT
1 AGGTGAAAGTGGTCAAGGATTTTGT
* * *
1458876 AATGTGAGAGTGGTCAAGGATTGTGT
1 -AGGTGAAAGTGGTCAAGGATTTTGT
*
1458902 AGGTTAAAGTGGT
1 AGGTGAAAGTGGT
1458915 TTAAGGTAAG
Statistics
Matches: 47, Mismatches: 16, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
25 30 0.64
26 17 0.36
ACGTcount: A:0.26, C:0.01, G:0.37, T:0.36
Consensus pattern (25 bp):
AGGTGAAAGTGGTCAAGGATTTTGT
Found at i:1458915 original size:51 final size:51
Alignment explanation
Indices: 1458799--1458917 Score: 175
Period size: 51 Copynumber: 2.3 Consensus size: 51
1458789 GGAGTGATTT
* * * *
1458799 TAGGTTAAAGTTGTATAGGGTTTGTTAAGGTGAAAGTGGTGAAGGATTTTG
1 TAGGTTAAAGTGGTTTAGGGTTTGTTAAGGTGAAAGTGGTCAAGGATTGTG
* * *
1458850 TAGGTTAAAGTGGTTTAGGGTTTTTTAATGTGAGAGTGGTCAAGGATTGTG
1 TAGGTTAAAGTGGTTTAGGGTTTGTTAAGGTGAAAGTGGTCAAGGATTGTG
1458901 TAGGTTAAAGTGGTTTA
1 TAGGTTAAAGTGGTTTA
1458918 AGGTAAGGTT
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.26, C:0.01, G:0.34, T:0.39
Consensus pattern (51 bp):
TAGGTTAAAGTGGTTTAGGGTTTGTTAAGGTGAAAGTGGTCAAGGATTGTG
Found at i:1462617 original size:49 final size:49
Alignment explanation
Indices: 1462526--1462654 Score: 181
Period size: 49 Copynumber: 2.7 Consensus size: 49
1462516 CATTATGAAC
* *
1462526 TTTAATTGGAATATAAAGTT-ACTTTGAATTTTGAATACAATTTTAAAT
1 TTTAATTGGAATATAAAGTTGACATTGAATTTCGAATACAATTTTAAAT
*
1462574 TTTAATTGGAATATGAAGTTGACATTGAATTTCGAATACAATTTTAAAT
1 TTTAATTGGAATATAAAGTTGACATTGAATTTCGAATACAATTTTAAAT
** *
1462623 TGGAATTGGAATATTAAGTTGA-ATTTGAATTT
1 TTTAATTGGAATATAAAGTTGACA-TTGAATTT
1462655 TAAAAACATA
Statistics
Matches: 73, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
48 20 0.27
49 53 0.73
ACGTcount: A:0.38, C:0.04, G:0.15, T:0.43
Consensus pattern (49 bp):
TTTAATTGGAATATAAAGTTGACATTGAATTTCGAATACAATTTTAAAT
Found at i:1462647 original size:24 final size:23
Alignment explanation
Indices: 1462577--1462653 Score: 57
Period size: 24 Copynumber: 3.2 Consensus size: 23
1462567 TTTAAATTTT
*
1462577 AATTGGAATATGAAGTTGACATTG
1 AATTGGAATATCAAGTTGA-ATTG
* * *
1462601 AATTTCGAATA-CAATTTTAAATTGG
1 AA-TTGGAATATCAA-GTTGAATT-G
*
1462626 AATTGGAATATTAAGTTGAATTTG
1 AATTGGAATATCAAGTTGAA-TTG
1462650 AATT
1 AATT
1462654 TTAAAAACAT
Statistics
Matches: 40, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
24 23 0.57
25 17 0.43
ACGTcount: A:0.39, C:0.04, G:0.18, T:0.39
Consensus pattern (23 bp):
AATTGGAATATCAAGTTGAATTG
Found at i:1463233 original size:42 final size:42
Alignment explanation
Indices: 1463174--1463294 Score: 206
Period size: 42 Copynumber: 2.9 Consensus size: 42
1463164 GGAATGTAAT
1463174 GTGGCATATGAAATGTTGGACTGGGCATATACCCCTGCAGAG
1 GTGGCATATGAAATGTTGGACTGGGCATATACCCCTGCAGAG
1463216 GTGGCATATGAAATGTTGGACTGGGCATATACCCCTGCAGAG
1 GTGGCATATGAAATGTTGGACTGGGCATATACCCCTGCAGAG
* * * *
1463258 GTGGCATCTGAACTGGTGGACTGGGCATGTACCCCTG
1 GTGGCATATGAAATGTTGGACTGGGCATATACCCCTG
1463295 AGACCTCATA
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 75 1.00
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (42 bp):
GTGGCATATGAAATGTTGGACTGGGCATATACCCCTGCAGAG
Found at i:1464742 original size:23 final size:25
Alignment explanation
Indices: 1464708--1464770 Score: 71
Period size: 23 Copynumber: 2.7 Consensus size: 25
1464698 AATAAATTTA
1464708 ATTA-TTTAATAATTATATAA-A-T
1 ATTATTTTAATAATTATATAACATT
**
1464730 ATTATTTTAATAAAAATATAACATT
1 ATTATTTTAATAATTATATAACATT
*
1464755 ATT-TTTAAATAATTAT
1 ATTATTTTAATAATTAT
1464771 TTATAAAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
22 4 0.12
23 14 0.42
24 11 0.33
25 4 0.12
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (25 bp):
ATTATTTTAATAATTATATAACATT
Found at i:1464789 original size:24 final size:25
Alignment explanation
Indices: 1464762--1464813 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
1464752 ATTATTTTTA
1464762 AATAA-TTATTTATAAAAAAAATA-T
1 AATAACTT-TTTATAAAAAAAATACT
* *
1464786 AATAACTTTTTTTAAAAAATATACT
1 AATAACTTTTTATAAAAAAAATACT
1464811 AAT
1 AAT
1464814 TTAAAAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 18 0.75
25 6 0.25
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (25 bp):
AATAACTTTTTATAAAAAAAATACT
Found at i:1464796 original size:36 final size:35
Alignment explanation
Indices: 1464716--1464787 Score: 90
Period size: 37 Copynumber: 2.0 Consensus size: 35
1464706 TAATTATTTA
* *
1464716 ATAATTATATAAATATTATTTTAATAAAAATATAAC
1 ATAATT-TTTAAATATTATTTTAAAAAAAATATAAC
*
1464752 ATTATTTTTAAATAATTATTTATAAAAAAAATATAA
1 ATAATTTTTAAAT-ATTATTT-TAAAAAAAATATAA
1464788 TAACTTTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
35 6 0.19
36 12 0.39
37 13 0.42
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (35 bp):
ATAATTTTTAAATATTATTTTAAAAAAAATATAAC
Found at i:1464797 original size:37 final size:35
Alignment explanation
Indices: 1464725--1464801 Score: 91
Period size: 37 Copynumber: 2.1 Consensus size: 35
1464715 AATAATTATA
* * *
1464725 TAAATATTATTTTAATAAAAATATAACATTATTTT
1 TAAATATTATTTTAAAAAAAATATAAAACTATTTT
*
1464760 TAAATAATTATTTATAAAAAAAATATAATAACTTTTTT
1 TAAAT-ATTATTT-TAAAAAAAATATAA-AACTATTTT
1464798 TAAA
1 TAAA
1464802 AAATATACTA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
35 5 0.14
36 7 0.20
37 13 0.37
38 10 0.29
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (35 bp):
TAAATATTATTTTAAAAAAAATATAAAACTATTTT
Found at i:1471515 original size:2 final size:2
Alignment explanation
Indices: 1471510--1471538 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1471500 AAAAAAAAAA
1471510 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1471539 ACCTTGCACC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1476067 original size:26 final size:24
Alignment explanation
Indices: 1476034--1476112 Score: 70
Period size: 26 Copynumber: 3.1 Consensus size: 24
1476024 AATTTAAAAA
1476034 TTATTCTAAAATATTTAAATAATATT
1 TTATTCTAAAAT-TTTAAATAA-ATT
* * *
1476060 TT-TGTCTATTATTTTTAATTAAAATT
1 TTAT-TCTA-AAATTTTAAAT-AAATT
*
1476086 TTATTTTAAAATTTTAAATAAATT
1 TTATTCTAAAATTTTAAATAAATT
1476110 TTA
1 TTA
1476113 AAGATGTAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
24 8 0.19
25 9 0.21
26 20 0.48
27 5 0.12
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.56
Consensus pattern (24 bp):
TTATTCTAAAATTTTAAATAAATT
Done.