Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr4
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: 31929104
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1434590 characters in sequence are not A, C, G, or T
File 52 of 82
Found at i:19029332 original size:17 final size:17
Alignment explanation
Indices: 19029310--19029368 Score: 77
Period size: 17 Copynumber: 3.5 Consensus size: 17
19029300 TTCTCTCATT
*
19029310 AAATTAAAATAAATTTA
1 AAATTAAAATAAATTAA
19029327 AAATTAAAAGTAAA--AA
1 AAATTAAAA-TAAATTAA
*
19029343 AAATTAAAAAAAATTAA
1 AAATTAAAATAAATTAA
19029360 AAATTAAAA
1 AAATTAAAA
19029369 GATTTAAGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
15 3 0.08
16 10 0.27
17 20 0.54
18 4 0.11
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (17 bp):
AAATTAAAATAAATTAA
Found at i:19029362 original size:10 final size:10
Alignment explanation
Indices: 19029310--19029362 Score: 61
Period size: 10 Copynumber: 5.0 Consensus size: 10
19029300 TTCTCTCATT
19029310 AAATTAAAATA
1 AAATTAAAA-A
*
19029321 AATTTAAAATTA
1 AAATTAAAA--A
*
19029333 AAAGTAAAAA
1 AAATTAAAAA
19029343 AAATTAAAAA
1 AAATTAAAAA
19029353 AAATTAAAAA
1 AAATTAAAAA
19029363 TTAAAAGATT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
10 20 0.54
11 8 0.22
12 9 0.24
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.25
Consensus pattern (10 bp):
AAATTAAAAA
Found at i:19034290 original size:33 final size:33
Alignment explanation
Indices: 19034248--19034313 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
19034238 CTTCTCATGT
19034248 TGGGTCATTTTCAATGAACTTGCTTTCCTATGG
1 TGGGTCATTTTCAATGAACTTGCTTTCCTATGG
19034281 TGGGTCATTTTCAATGAACTTGCTTTCCTATGG
1 TGGGTCATTTTCAATGAACTTGCTTTCCTATGG
19034314 CAAGCACCTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.18, C:0.18, G:0.21, T:0.42
Consensus pattern (33 bp):
TGGGTCATTTTCAATGAACTTGCTTTCCTATGG
Found at i:19046012 original size:28 final size:27
Alignment explanation
Indices: 19045945--19046019 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 27
19045935 AAATCGTGTT
* * *
19045945 AAAAATGTAGTTATTACATGTCATGTT
1 AAAAATGTAGTTGTTACATGTCATCTA
* * *
19045972 AAAACTTTAGTTGTTATATGTCATACTA
1 AAAAATGTAGTTGTTACATGTCAT-CTA
19046000 AAAAATGTAGTTGTTACATG
1 AAAAATGTAGTTGTTACATG
19046020 CTATGATGAA
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
27 20 0.53
28 18 0.47
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.40
Consensus pattern (27 bp):
AAAAATGTAGTTGTTACATGTCATCTA
Found at i:19046031 original size:28 final size:28
Alignment explanation
Indices: 19045945--19046032 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
19045935 AAATCGTGTT
* *
19045945 AAAAATGTAGTTATTACATGTCATG-TT
1 AAAAATGTAGTTGTTACATGTCATGATA
* * *
19045972 AAAACTTTAGTTGTTATATGTCAT-ACTA
1 AAAAATGTAGTTGTTACATGTCATGA-TA
*
19046000 AAAAATGTAGTTGTTACATG-CTATGATG
1 AAAAATGTAGTTGTTACATGTC-ATGATA
19046028 AAAAA
1 AAAAA
19046033 GTTATTATAC
Statistics
Matches: 48, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
27 21 0.44
28 26 0.54
29 1 0.02
ACGTcount: A:0.40, C:0.08, G:0.15, T:0.38
Consensus pattern (28 bp):
AAAAATGTAGTTGTTACATGTCATGATA
Found at i:19049100 original size:2 final size:2
Alignment explanation
Indices: 19049093--19049142 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
19049083 TTACCAATCA
19049093 AT AT AT 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 AT AT AT
19049135 AT AT AT AT
1 AT AT AT AT
19049143 NNNNNNNNNN
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19059620 original size:133 final size:131
Alignment explanation
Indices: 19059244--19059627 Score: 469
Period size: 133 Copynumber: 2.9 Consensus size: 131
19059234 TATATATATT
*
19059244 ATACATTATTGTTCTTTAACCTTTTAAAGTAATTAAACAATATAGAGAAATTCCATT-ACGGTTT
1 ATACATTATTGTTCTTTAACCTTTTAAAGTAATTAAAC-ACATAGAGAAATTCCATTGA-GGTTT
*
19059308 AAGGATCAAAA--G---ACCAACCACCCTTCAAAAGCTA-TATATATATATAGATAGATAGATAG
64 -AGGATAAAAAGGGCACACCAACCACCCTTCAAAAGC-ACTATATATATAT--ATAGATAGATAG
19059367 ATAAATAAAA
125 ---AATAAAA
* *
19059377 ATACATTATTGTTCTTTAACTTTTTAAAGTAATTAAACACTATAGAGAAATTCCAGTGAGGCTTT
1 ATACATTATTGTTCTTTAACCTTTTAAAGTAATTAAACAC-ATAGAGAAATTCCATTGAGG-TTT
** *
19059442 AGGATCAATGAGGGCACACCAACCACCCTTCAAAAGGACTATATATATATATAGATAGATAG-AT
64 AGGAT-AAAAAGGGCACACCAACCACCCTTCAAAAGCACTATATATATATATAGATAGATAGAAT
19059506 AAAA
128 AAAA
* * *
19059510 ATGCATTATTGTTCTTTAACCTTTTAAAATAATTAAACGACATAGAGAAATTTCATTGAGTGTTT
1 ATACATTATTGTTCTTTAACCTTTTAAAGTAATTAAAC-ACATAGAGAAATTCCATTGAG-GTTT
* *
19059575 AGGATAAAAAAGGGCACACCAACCATCCTTTAAAAGCACTATATATATATATA
64 AGGAT-AAAAAGGGCACACCAACCACCCTTCAAAAGCACTATATATATATATA
19059628 TATATATACA
Statistics
Matches: 221, Mismatches: 18, Indels: 24
0.84 0.07 0.09
Matches are distributed among these distances:
132 1 0.00
133 167 0.76
134 9 0.04
136 1 0.00
137 12 0.05
138 1 0.00
139 30 0.14
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.31
Consensus pattern (131 bp):
ATACATTATTGTTCTTTAACCTTTTAAAGTAATTAAACACATAGAGAAATTCCATTGAGGTTTAG
GATAAAAAGGGCACACCAACCACCCTTCAAAAGCACTATATATATATATAGATAGATAGAATAAA
A
Found at i:19060328 original size:2 final size:2
Alignment explanation
Indices: 19060317--19060352 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
19060307 TATATGTGTG
*
19060317 TA TA TC TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19060353 ATTCCTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:19064614 original size:25 final size:24
Alignment explanation
Indices: 19064565--19064614 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 24
19064555 TGGAGAAGCT
*
19064565 GAAACCCTAGAAAAAAAAAATTAA
1 GAAACCCTAGAAAAAAAAAACTAA
19064589 GAAACCCTA-ACAAAAAAAAACCTAA
1 GAAACCCTAGA-AAAAAAAAA-CTAA
19064614 G
1 G
19064615 TTTTTACGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 1 0.04
24 18 0.78
25 4 0.17
ACGTcount: A:0.64, C:0.18, G:0.08, T:0.10
Consensus pattern (24 bp):
GAAACCCTAGAAAAAAAAAACTAA
Found at i:19068864 original size:1 final size:1
Alignment explanation
Indices: 19068816--19068854 Score: 69
Period size: 1 Copynumber: 39.0 Consensus size: 1
19068806 TTTCATCCCA
*
19068816 TTTTTTTTTTTTTCTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
19068855 AAAATTTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:0.00, C:0.03, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:19070970 original size:59 final size:59
Alignment explanation
Indices: 19070878--19070995 Score: 218
Period size: 59 Copynumber: 2.0 Consensus size: 59
19070868 GAGAAGCTTG
*
19070878 TAGAAACGAGTTATCTCGGGAACTTCCCTAAGTAAGGAAAACGTTTTAGACTTCACCAA
1 TAGAAACGAGTTATCTCGGGAACTTCCCTAAGTAAGGAAAAAGTTTTAGACTTCACCAA
*
19070937 TAGAAACGAGTTATCTCGGGAACTTCCCTAAGTAAGGAAAAATTTTTAGACTTCACCAA
1 TAGAAACGAGTTATCTCGGGAACTTCCCTAAGTAAGGAAAAAGTTTTAGACTTCACCAA
19070996 AGCGTTGGGA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.26
Consensus pattern (59 bp):
TAGAAACGAGTTATCTCGGGAACTTCCCTAAGTAAGGAAAAAGTTTTAGACTTCACCAA
Found at i:19071308 original size:4 final size:4
Alignment explanation
Indices: 19071299--19071328 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
19071289 TAATAATAAT
19071299 AATG AATG AATG AATG AATG AATG AATG AA
1 AATG AATG AATG AATG AATG AATG AATG AA
19071329 ATAAATAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.23, T:0.23
Consensus pattern (4 bp):
AATG
Found at i:19078890 original size:16 final size:16
Alignment explanation
Indices: 19078864--19078903 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
19078854 CATGGTTCTC
19078864 AAATAAATAAT-AATA
1 AAATAAATAATAAATA
*
19078879 ATAATAAGTAATAAATA
1 A-AATAAATAATAAATA
19078896 AAATAAAT
1 AAATAAAT
19078904 TTGTTAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 1 0.05
16 15 0.71
17 5 0.24
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.28
Consensus pattern (16 bp):
AAATAAATAATAAATA
Found at i:19080224 original size:2 final size:2
Alignment explanation
Indices: 19080213--19080247 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
19080203 TTATGAGTGC
19080213 AT AT -T 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
19080248 TATCAAGCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:19084738 original size:20 final size:20
Alignment explanation
Indices: 19084713--19084751 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
19084703 GAAGATAGGC
19084713 AAATTCCAATCATTCTTGGT
1 AAATTCCAATCATTCTTGGT
19084733 AAATTCCAATCATTCTTGG
1 AAATTCCAATCATTCTTGG
19084752 GAGACCATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (20 bp):
AAATTCCAATCATTCTTGGT
Found at i:19088212 original size:18 final size:18
Alignment explanation
Indices: 19088189--19088223 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
19088179 ATTGGTTTCA
*
19088189 AAAAAAAATTAAAAATTT
1 AAAAAAAATAAAAAATTT
19088207 AAAAAAAATAAAAAATT
1 AAAAAAAATAAAAAATT
19088224 GAAGTCAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (18 bp):
AAAAAAAATAAAAAATTT
Found at i:19090489 original size:20 final size:20
Alignment explanation
Indices: 19090460--19090505 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
19090450 TATTTTAAGA
*
19090460 TATGTCTTGCATGTTTTATT
1 TATGTTTTGCATGTTTTATT
19090480 TATGTTTTGCATGTTTTATT
1 TATGTTTTGCATGTTTTATT
*
19090500 TGTGTT
1 TATGTT
19090506 AAAAAAAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.13, C:0.07, G:0.17, T:0.63
Consensus pattern (20 bp):
TATGTTTTGCATGTTTTATT
Found at i:19097283 original size:29 final size:29
Alignment explanation
Indices: 19097251--19097306 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
19097241 AAGGTGTACA
* * *
19097251 AGAATAGGTACGATAGAAGAAGCTGTATG
1 AGAATAGGAACAAGAGAAGAAGCTGTATG
*
19097280 AGAATAGGAACAAGAGAATAAGCTGTA
1 AGAATAGGAACAAGAGAAGAAGCTGTA
19097307 CATGAATAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.46, C:0.07, G:0.29, T:0.18
Consensus pattern (29 bp):
AGAATAGGAACAAGAGAAGAAGCTGTATG
Found at i:19097313 original size:29 final size:28
Alignment explanation
Indices: 19097245--19097314 Score: 68
Period size: 29 Copynumber: 2.4 Consensus size: 28
19097235 AGAAAAAAGG
* * *
19097245 TGTACAAGAATAGGTACGATAGAAGAAGC
1 TGTAC-AGAATAGGAACAAGAGAAGAAGC
* *
19097274 TGTATGAGAATAGGAACAAGAGAATAAGC
1 TGTA-CAGAATAGGAACAAGAGAAGAAGC
19097303 TGTACATGAATA
1 TGTACA-GAATA
19097315 AGTATACGAG
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
28 1 0.03
29 32 0.97
ACGTcount: A:0.46, C:0.09, G:0.26, T:0.20
Consensus pattern (28 bp):
TGTACAGAATAGGAACAAGAGAAGAAGC
Found at i:19097477 original size:14 final size:14
Alignment explanation
Indices: 19097458--19097487 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
19097448 CATGAACCCT
19097458 GTCTCTTATTCTGA
1 GTCTCTTATTCTGA
19097472 GTCTCTTATTCTGA
1 GTCTCTTATTCTGA
19097486 GT
1 GT
19097488 TACTTTCACT
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:0.13, C:0.20, G:0.17, T:0.50
Consensus pattern (14 bp):
GTCTCTTATTCTGA
Found at i:19097658 original size:35 final size:35
Alignment explanation
Indices: 19097609--19097675 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 35
19097599 AAGTAATACT
* *
19097609 TGAAGTAGCGCTTCACTTATTCCAGTTATTCTACG
1 TGAAGTAGCACTTCACTTATTCAAGTTATTCTACG
*
19097644 TGAAGTAGCACTTCACTTGTTCAAGTTATTCT
1 TGAAGTAGCACTTCACTTATTCAAGTTATTCT
19097676 TTGTACAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.39
Consensus pattern (35 bp):
TGAAGTAGCACTTCACTTATTCAAGTTATTCTACG
Found at i:19098031 original size:41 final size:41
Alignment explanation
Indices: 19097974--19098107 Score: 157
Period size: 41 Copynumber: 3.3 Consensus size: 41
19097964 TTTTGTAATG
*
19097974 TTAAAATCTTTTGTAATATTTGATTGATTATGCAATAATAT
1 TTAATATCTTTTGTAATATTTGATTGATTATGCAATAATAT
* ** **
19098015 TTAATATCTTTCGTAATATTTGATTGCATT-T--TTTTTTAT
1 TTAATATCTTTTGTAATATTTGATTG-ATTATGCAATAATAT
* *
19098054 GTCAATATCTTTTGTAATATTTTATTGATTATGCAATAATAT
1 -TTAATATCTTTTGTAATATTTGATTGATTATGCAATAATAT
19098096 TTAATATCTTTT
1 TTAATATCTTTT
19098108 TCATAAAAAA
Statistics
Matches: 74, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
39 7 0.09
40 24 0.32
41 36 0.49
42 7 0.09
ACGTcount: A:0.31, C:0.07, G:0.08, T:0.54
Consensus pattern (41 bp):
TTAATATCTTTTGTAATATTTGATTGATTATGCAATAATAT
Found at i:19098136 original size:65 final size:64
Alignment explanation
Indices: 19098064--19098193 Score: 215
Period size: 65 Copynumber: 2.0 Consensus size: 64
19098054 GTCAATATCT
*
19098064 TTTGTAATATTTTATTGATTATGCAATAATATTTAATATCTTTTTCATAAAAAATCTTGATTCTA
1 TTTGTAATATTTTATTGATTATGCAATAATATTGAATATCTTTTTCATAAAAAAT-TTGATTCTA
* * *
19098129 TTTGTAATATTTTATTGATTATGTAATAATATTGAATATCTTTTTCATTAAAACTTTGATTCTA
1 TTTGTAATATTTTATTGATTATGCAATAATATTGAATATCTTTTTCATAAAAAATTTGATTCTA
19098193 T
1 T
19098194 GTGACTTATA
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
64 10 0.16
65 51 0.84
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.52
Consensus pattern (64 bp):
TTTGTAATATTTTATTGATTATGCAATAATATTGAATATCTTTTTCATAAAAAATTTGATTCTA
Found at i:19098430 original size:11 final size:11
Alignment explanation
Indices: 19098414--19098443 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
19098404 CCTGCATGAT
19098414 TTTATTTTTTA
1 TTTATTTTTTA
19098425 TTTA-TTTTTA
1 TTTATTTTTTA
19098435 TTTATTTTT
1 TTTATTTTT
19098444 NNNNNNNNNN
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTATTTTTTA
Found at i:19100739 original size:29 final size:29
Alignment explanation
Indices: 19100673--19100744 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 29
19100663 AAAAGAGGTA
* * *
19100673 TACATGAAAAGGTACAAAAGCAGAAGCTG
1 TACATGAATAGGTACAAAAGAAAAAGCTG
*
19100702 -A-ATGAGAATAGGTACAAGAGAAAAAGCTG
1 TACAT--GAATAGGTACAAAAGAAAAAGCTG
19100731 TACATGAATAGGTA
1 TACATGAATAGGTA
19100745 TACGAGAACA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
27 2 0.06
28 1 0.03
29 29 0.83
30 1 0.03
31 2 0.06
ACGTcount: A:0.49, C:0.10, G:0.25, T:0.17
Consensus pattern (29 bp):
TACATGAATAGGTACAAAAGAAAAAGCTG
Found at i:19104867 original size:19 final size:19
Alignment explanation
Indices: 19104843--19104880 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
19104833 AGTGAAAGAC
19104843 AGTGAAAGGGAAAGAGGAA
1 AGTGAAAGGGAAAGAGGAA
19104862 AGTGAAAGGGAAAGAGGAA
1 AGTGAAAGGGAAAGAGGAA
19104881 GGAAGGTAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.42, T:0.05
Consensus pattern (19 bp):
AGTGAAAGGGAAAGAGGAA
Found at i:19111907 original size:70 final size:70
Alignment explanation
Indices: 19111775--19111918 Score: 191
Period size: 70 Copynumber: 2.0 Consensus size: 70
19111765 ATTCAAAACC
* * * *
19111775 TATACTTATAAATATGTATTCATTAAATGATCGTTATCGAAATTTTTTTTATTATAATTATTAGT
1 TATACTTATAAATATGTATTCATCAAATAATC-TTATCGAAATATTTTTTATTATAACTATTAGT
19111840 AAAATT
65 AAAATT
* * *
19111846 TATATTTATAAATGTGTATTCATCAAATAAT-TTCATTGAAATATTTTTTATTATAACTATTAGT
1 TATACTTATAAATATGTATTCATCAAATAATCTT-ATCGAAATATTTTTTATTATAACTATTAGT
*
19111910 AAGATT
65 AAAATT
19111916 TAT
1 TAT
19111919 TTCATTTATA
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
69 2 0.03
70 35 0.55
71 27 0.42
ACGTcount: A:0.38, C:0.06, G:0.07, T:0.49
Consensus pattern (70 bp):
TATACTTATAAATATGTATTCATCAAATAATCTTATCGAAATATTTTTTATTATAACTATTAGTA
AAATT
Found at i:19112044 original size:15 final size:14
Alignment explanation
Indices: 19112010--19112044 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
19112000 TTTGAATATT
19112010 AATATTTTAAATTA
1 AATATTTTAAATTA
*
19112024 ATTATTTTAAAGTTA
1 AATATTTTAAA-TTA
19112039 AATATT
1 AATATT
19112045 ATATGTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (14 bp):
AATATTTTAAATTA
Found at i:19119296 original size:29 final size:29
Alignment explanation
Indices: 19119255--19119346 Score: 121
Period size: 29 Copynumber: 3.2 Consensus size: 29
19119245 CAACAAAATG
* * *
19119255 TTTTTGAATATGGCATGTAACAACGATAT
1 TTTTTCAACATGGAATGTAACAACGATAT
*
19119284 TTTTTCAACATGGAATATAACAACGATAT
1 TTTTTCAACATGGAATGTAACAACGATAT
* **
19119313 TTTTTCAACATGAAATGTAACAATAATAT
1 TTTTTCAACATGGAATGTAACAACGATAT
19119342 TTTTT
1 TTTTT
19119347 TTTCAACATG
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 55 1.00
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.40
Consensus pattern (29 bp):
TTTTTCAACATGGAATGTAACAACGATAT
Found at i:19119559 original size:120 final size:120
Alignment explanation
Indices: 19119426--19119645 Score: 262
Period size: 120 Copynumber: 1.8 Consensus size: 120
19119416 AACAATACTT
* * * * * *
19119426 TTTTTTTTAACATGACATGTTACAACCTAATCATGATGTGTAACATGTTTTTGTACACAGCATGT
1 TTTTTTTCAACATGACATGTAACAACCTAACCATGATATGTAACAAGTTTTCGTACACAGCATGT
* *
19119491 AACAACTTAA-TCATGACGTGTAACATGTTTTTGTATATGGTATATAACAACAGTA
66 AACAACCTAACT-ATGACGTGTAACATGCTTTTGTATATGGTATATAACAACAGTA
* * * * * * ** *
19119546 TTTTTTTCAACATGGCGTGTAACAACTTAACCGTGATATGTCATAAGTTTTCGTACATGGCGTGT
1 TTTTTTTCAACATGACATGTAACAACCTAACCATGATATGTAACAAGTTTTCGTACACAGCATGT
*
19119611 AACAACCTAACTATGATGTGTAACATGCTTTTGTA
66 AACAACCTAACTATGACGTGTAACATGCTTTTGTA
19119646 CATGACATGT
Statistics
Matches: 81, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
120 80 0.99
121 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (120 bp):
TTTTTTTCAACATGACATGTAACAACCTAACCATGATATGTAACAAGTTTTCGTACACAGCATGT
AACAACCTAACTATGACGTGTAACATGCTTTTGTATATGGTATATAACAACAGTA
Found at i:19119647 original size:45 final size:45
Alignment explanation
Indices: 19119555--19119659 Score: 113
Period size: 45 Copynumber: 2.3 Consensus size: 45
19119545 ATTTTTTTCA
* * * *
19119555 ACATGGCGTGTAACAACTTAACCGTGATATGTCATAAGTTTTCGT
1 ACATGGCGTGTAACAACCTAACCATGATATGTAACAAGTTTTCGT
* * *
19119600 ACATGGCGTGTAACAACCTAACTATGATGTGTAACATGCTTTT-GT
1 ACATGGCGTGTAACAACCTAACCATGATATGTAACAAG-TTTTCGT
* *
19119645 ACATGACATGTAACA
1 ACATGGCGTGTAACA
19119660 TCATGGTGTA
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
45 46 0.92
46 4 0.08
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.31
Consensus pattern (45 bp):
ACATGGCGTGTAACAACCTAACCATGATATGTAACAAGTTTTCGT
Found at i:19130569 original size:32 final size:32
Alignment explanation
Indices: 19130509--19130569 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
19130499 AGTCTTTGTA
*
19130509 TTTTTATTTTCAGTCAAATAAATTTTTATTTT
1 TTTTTATTTTCAGTCAAATAAATCTTTATTTT
* *
19130541 TTTTTATTTTGAGTCAAATAAGTCTTTAT
1 TTTTTATTTTCAGTCAAATAAATCTTTAT
19130570 AACTAATTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.28, C:0.07, G:0.07, T:0.59
Consensus pattern (32 bp):
TTTTTATTTTCAGTCAAATAAATCTTTATTTT
Found at i:19151517 original size:2 final size:2
Alignment explanation
Indices: 19151510--19151540 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
19151500 AAGCACCATA
19151510 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
19151541 GCCTTCTTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:19159235 original size:15 final size:16
Alignment explanation
Indices: 19159217--19159258 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
19159207 TCTAAAAAAA
*
19159217 ATAATTA-ATAAAATT
1 ATAATTATAAAAAATT
19159232 ATAATATATAAAAAATT
1 ATAAT-TATAAAAAATT
19159249 ATTAATTATA
1 A-TAATTATA
19159259 TATATCGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 5 0.22
16 2 0.09
17 12 0.52
18 4 0.17
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
ATAATTATAAAAAATT
Found at i:19159248 original size:17 final size:19
Alignment explanation
Indices: 19159226--19159260 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
19159216 AATAATTAAT
19159226 AAAATTA-TAA-TATATAA
1 AAAATTATTAATTATATAA
19159243 AAAATTATTAATTATATA
1 AAAATTATTAATTATATA
19159261 TATCGAATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 3 0.19
19 6 0.38
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
AAAATTATTAATTATATAA
Found at i:19172196 original size:2 final size:2
Alignment explanation
Indices: 19172189--19172223 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
19172179 ACATCAAAAT
19172189 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
19172224 GTATGACTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:19173141 original size:18 final size:18
Alignment explanation
Indices: 19173118--19173159 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
19173108 TTATTTGTTT
*
19173118 CAAAGTAAAATAAATTAA
1 CAAAGTAAAATAAAATAA
*
19173136 CAAAGT-CAATAAAATAA
1 CAAAGTAAAATAAAATAA
*
19173153 TAAAGTA
1 CAAAGTA
19173160 GAAAACAGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.64, C:0.07, G:0.07, T:0.21
Consensus pattern (18 bp):
CAAAGTAAAATAAAATAA
Found at i:19191486 original size:16 final size:16
Alignment explanation
Indices: 19191465--19191500 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
19191455 CCCCCCAATA
19191465 ATATATATATATATCC
1 ATATATATATATATCC
19191481 ATATATATATATATCC
1 ATATATATATATATCC
19191497 ATAT
1 ATAT
19191501 TGAGGGTGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (16 bp):
ATATATATATATATCC
Found at i:19194049 original size:20 final size:23
Alignment explanation
Indices: 19194021--19194075 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 23
19194011 ATTTCTATTT
19194021 AAACTTATAATAC-T-AAATATA
1 AAACTTATAATACATAAAATATA
*
19194042 AAAC-TATAATGCATAAAATATA
1 AAACTTATAATACATAAAATATA
19194064 AATACTTA-AATA
1 AA-ACTTATAATA
19194076 TGATATACAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
20 7 0.25
21 5 0.18
22 9 0.32
23 5 0.18
24 2 0.07
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.31
Consensus pattern (23 bp):
AAACTTATAATACATAAAATATA
Found at i:19196442 original size:25 final size:25
Alignment explanation
Indices: 19196404--19196464 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
19196394 CCAATCAATC
*
19196404 ATCAATATATATAATCCAAAGCATA-AA
1 ATCAATA-A-ATAATCCAAA-CAAACAA
*
19196431 ATCAATAAATAATCTAAACAAACAA
1 ATCAATAAATAATCCAAACAAACAA
19196456 ATCAATAAA
1 ATCAATAAA
19196465 CCAAGTATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 3 0.10
25 20 0.65
26 1 0.03
27 7 0.23
ACGTcount: A:0.61, C:0.15, G:0.02, T:0.23
Consensus pattern (25 bp):
ATCAATAAATAATCCAAACAAACAA
Found at i:19197330 original size:12 final size:12
Alignment explanation
Indices: 19197298--19197333 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
19197288 AATTTTGTTA
19197298 TTTTATGAATAT
1 TTTTATGAATAT
*
19197310 TGTTATGAATAT
1 TTTTATGAATAT
*
19197322 TTTTGTGAATAT
1 TTTTATGAATAT
19197334 CTATTTATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.56
Consensus pattern (12 bp):
TTTTATGAATAT
Found at i:19198458 original size:6 final size:6
Alignment explanation
Indices: 19198447--19198471 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
19198437 TTAAAAACTC
19198447 TGGTCG TGGTCG TGGTCG TGGTCG T
1 TGGTCG TGGTCG TGGTCG TGGTCG T
19198472 AATCATGGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.48, T:0.36
Consensus pattern (6 bp):
TGGTCG
Found at i:19208689 original size:18 final size:18
Alignment explanation
Indices: 19208656--19208690 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
19208646 GATTAATAAT
*
19208656 ACATTTAACACTATTAAC
1 ACATTTAACACGATTAAC
*
19208674 ACATTTAATACGATTAA
1 ACATTTAACACGATTAA
19208691 ATAAAAGTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.17, G:0.03, T:0.34
Consensus pattern (18 bp):
ACATTTAACACGATTAAC
Found at i:19209359 original size:2 final size:2
Alignment explanation
Indices: 19209352--19209445 Score: 156
Period size: 2 Copynumber: 47.5 Consensus size: 2
19209342 AATTACCAAG
19209352 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
19209393 TA TA -A TA AA NTA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19209435 TA TA TA TA TA T
1 TA TA TA TA TA T
19209446 TGTAATAAAT
Statistics
Matches: 87, Mismatches: 2, Indels: 6
0.92 0.02 0.06
Matches are distributed among these distances:
1 2 0.02
2 84 0.97
3 1 0.01
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:19224449 original size:23 final size:22
Alignment explanation
Indices: 19224407--19224459 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 22
19224397 ATTATGTAGT
19224407 TATATCATTATATTACATT-AA
1 TATATCATTATATTACATTAAA
*
19224428 TATATCATTTTATTATCAATTAGAA
1 TATATCATTATATTA-C-ATTA-AA
19224453 TATATCA
1 TATATCA
19224460 GTACCGCATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 14 0.52
22 1 0.04
23 3 0.11
25 9 0.33
ACGTcount: A:0.42, C:0.09, G:0.02, T:0.47
Consensus pattern (22 bp):
TATATCATTATATTACATTAAA
Found at i:19229234 original size:49 final size:49
Alignment explanation
Indices: 19229157--19229255 Score: 171
Period size: 49 Copynumber: 2.0 Consensus size: 49
19229147 CAAAAATAGT
* * *
19229157 TTCATCTTTATTACCAACTCAAGCATAATAAAGGAAGTGTAGCAAATGC
1 TTCATCCTTATTACCAACTCAAGAATAATAAAGGAAGTATAGCAAATGC
19229206 TTCATCCTTATTACCAACTCAAGAATAATAAAGGAAGTATAGCAAATGC
1 TTCATCCTTATTACCAACTCAAGAATAATAAAGGAAGTATAGCAAATGC
19229255 T
1 T
19229256 AACAGCTGAA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.40, C:0.18, G:0.13, T:0.28
Consensus pattern (49 bp):
TTCATCCTTATTACCAACTCAAGAATAATAAAGGAAGTATAGCAAATGC
Found at i:19229448 original size:98 final size:97
Alignment explanation
Indices: 19229279--19229732 Score: 551
Period size: 98 Copynumber: 4.7 Consensus size: 97
19229269 TAGCAGAATA
*
19229279 TTGACCACACCCACCAAAATAAACAACAGACTAAGCATGAAAATGTAAAGAAATCAGGGAAAGAG
1 TTGACCACACCCATCAAAATAAACAACA-ACTAAGCATGAAAATGTAAAGAAATCAGGGAAAGAG
*
19229344 ATGCAAAAGAGACCTGTGAAAATGCAAAGTGAG
65 ATGCAAAAGAGACCTGTGAAAATGCAAAATGAG
** *
19229377 TTGACCACACCCATCAAAATAAGTAACAACCTAGGCATGAAAATGTAAAGAAATCAGGGAAAGAG
1 TTGACCACACCCATCAAAATAAACAACAA-CTAAGCATGAAAATGTAAAGAAATCAGGGAAAGAG
* *
19229442 AAGCAAAACAGACCTGTGAAAATGCAAAATGAG
65 ATGCAAAAGAGACCTGTGAAAATGCAAAATGAG
* * * * * *
19229475 TTGAACACACCCATCAAAATAAGCAACAGGCTAAGCATGTAAATCTAAAGAAATTAAGGGAAAGA
1 TTGACCACACCCATCAAAATAAACAACA-ACTAAGCATGAAAATGTAAAGAAA-TCAGGGAAAGA
* *
19229540 GATTCAAATA-AGACATGTGAAAATGC-AAATGAAG
64 GATGCAAA-AGAGACCTGTGAAAATGCAAAATG-AG
* * * *
19229574 -TGACCACACCCATCAAAAT--A-AACAACTAAGTATGAAAGTGTGAAGAAATCAGGGAAATAGA
1 TTGACCACACCCATCAAAATAAACAACAACTAAGCATGAAAATGTAAAGAAATCAGGGAAAGAGA
*
19229635 TGCAAAAGAGACCTGTGAAAATGCAAAATGAC
66 TGCAAAAGAGACCTGTGAAAATGCAAAATGAG
* * * * * * *
19229667 TCGACCATATCACTTCAAAACAAACAACAAACTAAGCATGAACATGTAAAGAAATCAGAGAAAGA
1 TTGACCACA-CCCATCAAAATAAACAAC-AACTAAGCATGAAAATGTAAAGAAATCAGGGAAAGA
19229732 G
64 G
19229733 GAAGAAAATA
Statistics
Matches: 302, Mismatches: 41, Indels: 25
0.82 0.11 0.07
Matches are distributed among these distances:
92 1 0.00
93 32 0.11
94 29 0.10
95 12 0.04
97 2 0.01
98 161 0.53
99 64 0.21
100 1 0.00
ACGTcount: A:0.49, C:0.17, G:0.19, T:0.15
Consensus pattern (97 bp):
TTGACCACACCCATCAAAATAAACAACAACTAAGCATGAAAATGTAAAGAAATCAGGGAAAGAGA
TGCAAAAGAGACCTGTGAAAATGCAAAATGAG
Found at i:19231204 original size:2 final size:2
Alignment explanation
Indices: 19231199--19231231 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
19231189 ACACACATAC
19231199 AT AT 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 AT AT A
19231232 CTAAAAGNNN
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:19231295 original size:2 final size:2
Alignment explanation
Indices: 19231288--19231319 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
19231278 NNNNNNNNNN
19231288 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
19231320 CTAAAAAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19234041 original size:22 final size:22
Alignment explanation
Indices: 19234016--19234078 Score: 56
Period size: 27 Copynumber: 2.6 Consensus size: 22
19234006 TTATTAGATT
19234016 TTTAAATATTAATAA-TATAGAA
1 TTTAAATATTAATAACTA-AGAA
*
19234038 TTTAAGAAAAATATTAATAACTAATAA
1 TTT----A-AATATTAATAACTAAGAA
19234065 TTTAAATATTAATA
1 TTTAAATATTAATA
19234079 TTTTTTTATA
Statistics
Matches: 34, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
22 13 0.38
23 1 0.03
26 1 0.03
27 17 0.50
28 2 0.06
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.40
Consensus pattern (22 bp):
TTTAAATATTAATAACTAAGAA
Found at i:19235246 original size:19 final size:18
Alignment explanation
Indices: 19235224--19235261 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
19235214 ATAATTGATA
19235224 ATTTA-AATATTAATATTTT
1 ATTTATAAT-TTAAT-TTTT
19235243 ATTTATAATTTAATTTTT
1 ATTTATAATTTAATTTTT
19235261 A
1 A
19235262 ATATTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.28
19 10 0.56
20 3 0.17
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTTATAATTTAATTTTT
Found at i:19235253 original size:12 final size:12
Alignment explanation
Indices: 19235192--19235263 Score: 51
Period size: 12 Copynumber: 5.9 Consensus size: 12
19235182 TAAATAGGAA
19235192 TAATTTATAATT
1 TAATTTATAATT
*
19235204 TATTTTATTAA--
1 TAATTTA-TAATT
*
19235215 TAATTGATAATT
1 TAATTTATAATT
19235227 TAAATATTA-ATATT
1 T-AAT-TTATA-ATT
*
19235241 TTATTTATAATT
1 TAATTTATAATT
*
19235253 TAATTTTTAAT
1 TAATTTATAAT
19235264 ATTTTAAACT
Statistics
Matches: 46, Mismatches: 7, Indels: 14
0.69 0.10 0.21
Matches are distributed among these distances:
10 3 0.07
11 5 0.11
12 22 0.48
13 10 0.22
14 6 0.13
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.58
Consensus pattern (12 bp):
TAATTTATAATT
Found at i:19235284 original size:46 final size:49
Alignment explanation
Indices: 19235194--19235291 Score: 139
Period size: 46 Copynumber: 2.1 Consensus size: 49
19235184 AATAGGAATA
* **
19235194 ATTTATAATTTATTTTATTAATAATTGATAATTTAAATATTAATATTTT
1 ATTTATAATTTAATTTATTAATAATTGATAAACTAAATATTAATATTTT
*
19235243 ATTTATAATTTAATTT-TTAAT-ATT-TTAAACTAAATATTAATATTTT
1 ATTTATAATTTAATTTATTAATAATTGATAAACTAAATATTAATATTTT
19235289 ATT
1 ATT
19235292 AAAAATTGGA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
46 22 0.49
47 3 0.07
48 5 0.11
49 15 0.33
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (49 bp):
ATTTATAATTTAATTTATTAATAATTGATAAACTAAATATTAATATTTT
Found at i:19236919 original size:2 final size:2
Alignment explanation
Indices: 19236912--19236938 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
19236902 TGGATTAATT
19236912 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
19236939 TGACCTTAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:19242461 original size:2 final size:2
Alignment explanation
Indices: 19242454--19242513 Score: 93
Period size: 2 Copynumber: 29.5 Consensus size: 2
19242444 ATCCGTAGCT
**
19242454 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GTA TT
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G-A GA
19242497 GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA G
19242514 GTTTTCTTGG
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
2 52 0.98
3 1 0.02
ACGTcount: A:0.47, C:0.00, G:0.48, T:0.05
Consensus pattern (2 bp):
GA
Found at i:19253412 original size:75 final size:74
Alignment explanation
Indices: 19253286--19253430 Score: 209
Period size: 75 Copynumber: 1.9 Consensus size: 74
19253276 TGCAACCATT
* * * * *
19253286 GTCATTTTTCCTAATTCTTGTGACTTTGCCCATGAAGTTAGTTACTGAAAGCTGGCATCAAATCT
1 GTCATTTCTCCTAATCCTTGTGACCTTGCCCATAAAGTTAGTGACTGAAAGCTGGCATCAAATCT
19253351 ACCCTATTA
66 ACCCTATTA
* * *
19253360 GTCATTTCTCCTAATCCTTGTGGACCTTGCCCATAAAGTTTGTGATTGAAAGCTGGCATCGAATC
1 GTCATTTCTCCTAATCCTTGT-GACCTTGCCCATAAAGTTAGTGACTGAAAGCTGGCATCAAATC
19253425 TACCCT
65 TACCCT
19253431 GTAATGCTTT
Statistics
Matches: 62, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
74 19 0.31
75 43 0.69
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.36
Consensus pattern (74 bp):
GTCATTTCTCCTAATCCTTGTGACCTTGCCCATAAAGTTAGTGACTGAAAGCTGGCATCAAATCT
ACCCTATTA
Found at i:19258556 original size:30 final size:30
Alignment explanation
Indices: 19258520--19258579 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
19258510 AATACAGCTG
19258520 CACGTAGTTGATCACCCAACCCCACAAACA
1 CACGTAGTTGATCACCCAACCCCACAAACA
19258550 CACGTAGTTGATCACCCAACCCCACAAACA
1 CACGTAGTTGATCACCCAACCCCACAAACA
19258580 AAACCCTTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.40, G:0.10, T:0.13
Consensus pattern (30 bp):
CACGTAGTTGATCACCCAACCCCACAAACA
Found at i:19272005 original size:42 final size:43
Alignment explanation
Indices: 19271920--19272010 Score: 175
Period size: 43 Copynumber: 2.1 Consensus size: 43
19271910 TTATGTGAGA
19271920 AGATCTTTTTACCTTGGAAATCCAAGGGTAACTACAATATCGT
1 AGATCTTTTTACCTTGGAAATCCAAGGGTAACTACAATATCGT
19271963 AGATCTTTTTACCTTGGAAATCCAA-GGTAACTACAATATCGT
1 AGATCTTTTTACCTTGGAAATCCAAGGGTAACTACAATATCGT
19272005 AGATCT
1 AGATCT
19272011 GGAGGAGAAC
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 23 0.48
43 25 0.52
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (43 bp):
AGATCTTTTTACCTTGGAAATCCAAGGGTAACTACAATATCGT
Found at i:19283232 original size:31 final size:31
Alignment explanation
Indices: 19283197--19283355 Score: 141
Period size: 31 Copynumber: 5.2 Consensus size: 31
19283187 TGACCCGAAA
*
19283197 TCAAATAACTAGAAATTTAAGTAACTCAAAT
1 TCAAATAACTCGAAATTTAAGTAACTCAAAT
* * *
19283228 TCAAATCAATTCTAAGTTTAAG--ACTCAAAAT
1 TCAAAT-AACTCGAAATTTAAGTAACTC-AAAT
* *
19283259 T-GAATAACTCGAAATCTAAGTAACTCAAAT
1 TCAAATAACTCGAAATTTAAGTAACTCAAAT
* * *
19283289 TCAAATCAATTCTAAGTTTAAG--ACTCAAAAT
1 TCAAAT-AACTCGAAATTTAAGTAACTC-AAAT
* *
19283320 T-GAATAACTCGAAATCTAAGTAACTCAAAT
1 TCAAATAACTCGAAATTTAAGTAACTCAAAT
19283350 TCAAAT
1 TCAAAT
19283356 CAATTCTAAG
Statistics
Matches: 98, Mismatches: 20, Indels: 20
0.71 0.14 0.14
Matches are distributed among these distances:
29 22 0.22
30 24 0.24
31 30 0.31
32 22 0.22
ACGTcount: A:0.47, C:0.16, G:0.08, T:0.30
Consensus pattern (31 bp):
TCAAATAACTCGAAATTTAAGTAACTCAAAT
Found at i:19283273 original size:61 final size:61
Alignment explanation
Indices: 19283200--19283366 Score: 316
Period size: 61 Copynumber: 2.7 Consensus size: 61
19283190 CCCGAAATCA
* *
19283200 AATAACTAGAAATTTAAGTAACTCAAATTCAAATCAATTCTAAGTTTAAGACTCAAAATTG
1 AATAACTCGAAATCTAAGTAACTCAAATTCAAATCAATTCTAAGTTTAAGACTCAAAATTG
19283261 AATAACTCGAAATCTAAGTAACTCAAATTCAAATCAATTCTAAGTTTAAGACTCAAAATTG
1 AATAACTCGAAATCTAAGTAACTCAAATTCAAATCAATTCTAAGTTTAAGACTCAAAATTG
19283322 AATAACTCGAAATCTAAGTAACTCAAATTCAAATCAATTCTAAGT
1 AATAACTCGAAATCTAAGTAACTCAAATTCAAATCAATTCTAAGT
19283367 CCAAAAATCA
Statistics
Matches: 104, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 104 1.00
ACGTcount: A:0.47, C:0.16, G:0.08, T:0.30
Consensus pattern (61 bp):
AATAACTCGAAATCTAAGTAACTCAAATTCAAATCAATTCTAAGTTTAAGACTCAAAATTG
Found at i:19284458 original size:113 final size:113
Alignment explanation
Indices: 19284332--19284561 Score: 426
Period size: 113 Copynumber: 2.0 Consensus size: 113
19284322 AAAAGAAAGA
19284332 GAAAAATATGATTGATGGTTCGTAAAAATTTGTGAAAGAAAATCTATAGAGATTTAAAATATATG
1 GAAAAATATGATTGATGGTTCGTAAAAATTTGTGAAAGAAAATCTATAGAGATTTAAAATATATG
*
19284397 AATAAATAGAATAGAATTAAAT-AATAAAAATAATAATTATATAAATT
66 AATAAATAGAATAGAAATAAATAAATAAAAATAATAATTATATAAATT
*
19284444 GAAANAATATGATTGATGGTTCGTAAAAATTTGTGAAAGAAAATCTATAGAGATTTAGAATATAT
1 GAAA-AATATGATTGATGGTTCGTAAAAATTTGTGAAAGAAAATCTATAGAGATTTAAAATATAT
19284509 GAATAAATAGAATAGAAATAAATAAATAAAAATAATAATTATATAAATT
65 GAATAAATAGAATAGAAATAAATAAATAAAAATAATAATTATATAAATT
19284558 GAAA
1 GAAA
19284562 GAAAAATTTA
Statistics
Matches: 114, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
112 4 0.04
113 81 0.71
114 29 0.25
ACGTcount: A:0.54, C:0.02, G:0.13, T:0.31
Consensus pattern (113 bp):
GAAAAATATGATTGATGGTTCGTAAAAATTTGTGAAAGAAAATCTATAGAGATTTAAAATATATG
AATAAATAGAATAGAAATAAATAAATAAAAATAATAATTATATAAATT
Found at i:19284541 original size:14 final size:15
Alignment explanation
Indices: 19284510--19284543 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
19284500 AGAATATATG
*
19284510 AATAAATAGAATAGA
1 AATAAATAGAATAAA
19284525 AATAAATA-AATAAA
1 AATAAATAGAATAAA
19284539 AATAA
1 AATAA
19284544 TAATTATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (15 bp):
AATAAATAGAATAAA
Found at i:19285497 original size:18 final size:18
Alignment explanation
Indices: 19285476--19285525 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
19285466 ACATAAATTT
19285476 TTGAACAAAAATAACTGG
1 TTGAACAAAAATAACTGG
* * *
19285494 TTGAACAAATATAATTGT
1 TTGAACAAAAATAACTGG
*
19285512 TTGAAAAAAAATAA
1 TTGAACAAAAATAA
19285526 AACAGTTTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.54, C:0.06, G:0.12, T:0.28
Consensus pattern (18 bp):
TTGAACAAAAATAACTGG
Found at i:19285926 original size:18 final size:19
Alignment explanation
Indices: 19285895--19285936 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
19285885 CACTTTTGAA
19285895 ATAAAATTAAATTA-TAAT
1 ATAAAATTAAATTAGTAAT
**
19285913 ATAAAATTTTATTAGTAAT
1 ATAAAATTAAATTAGTAAT
*
19285932 TTAAA
1 ATAAA
19285937 TATAAGTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (19 bp):
ATAAAATTAAATTAGTAAT
Found at i:19286139 original size:10 final size:10
Alignment explanation
Indices: 19286124--19286170 Score: 71
Period size: 10 Copynumber: 4.9 Consensus size: 10
19286114 ACAGTTATAA
19286124 AGAAAAAAAG
1 AGAAAAAAAG
19286134 AGAAAAAAAG
1 AGAAAAAAAG
*
19286144 A-AAAAGAAG
1 AGAAAAAAAG
19286153 -GAAAAAAAG
1 AGAAAAAAAG
19286162 AGAAAAAAA
1 AGAAAAAAA
19286171 AAAAGAAGGA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
9 14 0.42
10 19 0.58
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (10 bp):
AGAAAAAAAG
Found at i:19286145 original size:18 final size:17
Alignment explanation
Indices: 19286122--19286169 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 17
19286112 GTACAGTTAT
19286122 AAAGAAAAAAAGAGAAAA
1 AAAGAAAAAAAG-GAAAA
19286140 AAAGAAAAAGAAGGAAAA
1 AAAGAAAAA-AAGGAAAA
19286158 AAAGAGAAAAAA
1 AAAGA-AAAAAA
19286170 AAAAAGAAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 21 0.75
19 7 0.25
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (17 bp):
AAAGAAAAAAAGGAAAA
Found at i:19286167 original size:26 final size:27
Alignment explanation
Indices: 19286125--19286182 Score: 100
Period size: 26 Copynumber: 2.1 Consensus size: 27
19286115 CAGTTATAAA
19286125 GAAAAAAAGAGAAAAAAAGAAAAAGAAG
1 GAAAAAAAGAGAAAAAAA-AAAAAGAAG
19286153 GAAAAAAAGAG-AAAAAAAAAAAGAAG
1 GAAAAAAAGAGAAAAAAAAAAAAGAAG
19286179 GAAA
1 GAAA
19286183 TTTAGTATAC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
26 13 0.43
27 6 0.20
28 11 0.37
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (27 bp):
GAAAAAAAGAGAAAAAAAAAAAAGAAG
Found at i:19286233 original size:75 final size:76
Alignment explanation
Indices: 19286107--19286246 Score: 180
Period size: 75 Copynumber: 1.9 Consensus size: 76
19286097 TTCATTTATG
* * *
19286107 ATTTAGTACAGTTATAAAGAAAAAAAGAGAAAAAAAGAAAAAGAAGGAAAAA-AAGAGAAAAAAA
1 ATTTAGTACACTTATAAAGAAAAAAAGAGAAAAAAAGAAAAAGAAGAAAAAAGAAAAGAAAAAAA
19286171 AAAAGAAGGAA
66 AAAAGAAGGAA
* *
19286182 ATTTAGTATACTTATAAA-AGAAAAAGA-AAAAAGAAGGAAAAA-AGAGAAAAAAGAAAAGAAAA
1 ATTTAGTACACTTATAAAGAAAAAAAGAGAAAAA-AA-GAAAAAGA-AGAAAAAAGAAAAGAAAA
19286244 AAA
63 AAA
19286247 GGACTTATAA
Statistics
Matches: 56, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
73 5 0.09
74 11 0.20
75 29 0.52
76 11 0.20
ACGTcount: A:0.71, C:0.01, G:0.17, T:0.11
Consensus pattern (76 bp):
ATTTAGTACACTTATAAAGAAAAAAAGAGAAAAAAAGAAAAAGAAGAAAAAAGAAAAGAAAAAAA
AAAAGAAGGAA
Found at i:19286243 original size:20 final size:19
Alignment explanation
Indices: 19286197--19286245 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
19286187 GTATACTTAT
19286197 AAAAG-AAAAAGAAAAAAG
1 AAAAGAAAAAAGAAAAAAG
*
19286215 AAGGAA-AAAAGAGAAAAAAG
1 AA--AAGAAAAAAGAAAAAAG
19286235 AAAAGAAAAAA
1 AAAAGAAAAAA
19286246 AGGACTTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
18 4 0.16
19 5 0.20
20 16 0.64
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (19 bp):
AAAAGAAAAAAGAAAAAAG
Found at i:19286253 original size:58 final size:62
Alignment explanation
Indices: 19286138--19286269 Score: 159
Period size: 64 Copynumber: 2.2 Consensus size: 62
19286128 AAAAAGAGAA
* *
19286138 AAAAAG-AAAAAGAAGGAAAAAAAGAGAAAAAAAAAAAGAAGGAAATTTAGTATACTTATAAAAG
1 AAAAAGAAAAAAGAAGGAAAAAAAGAGAAAAAAAAAAAGAA-GAAA-TAAG-AGACTTATAAAAG
*
19286202 AAAAAGAAAAAAGAAGG-AAAAAAGAGAAAAAAGAAAAGAA-AAA-AAG-GACTTATAAAAG
1 AAAAAGAAAAAAGAAGGAAAAAAAGAGAAAAAAAAAAAGAAGAAATAAGAGACTTATAAAAG
*
19286260 AGAAA-AAAAA
1 AAAAAGAAAAA
19286270 GAATAAAAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
57 5 0.08
58 15 0.24
60 2 0.03
62 3 0.05
64 28 0.44
65 10 0.16
ACGTcount: A:0.73, C:0.02, G:0.17, T:0.08
Consensus pattern (62 bp):
AAAAAGAAAAAAGAAGGAAAAAAAGAGAAAAAAAAAAAGAAGAAATAAGAGACTTATAAAAG
Found at i:19286278 original size:20 final size:21
Alignment explanation
Indices: 19286202--19286277 Score: 66
Period size: 20 Copynumber: 3.6 Consensus size: 21
19286192 CTTATAAAAG
19286202 AAAAAGAAAAAAGAAG-GAAA
1 AAAAAGAAAAAAGAAGAGAAA
* *
19286222 AAAGAGAAAAAAGAAAAGAAA
1 AAAAAGAAAAAAGAAGAGAAA
* * *
19286243 AAAAGGACTTATAA-AAGAGAAA
1 AAAAAGA--AAAAAGAAGAGAAA
19286265 AAAAAGAATAAAA
1 AAAAAGAA-AAAA
19286278 AAGGACAAGA
Statistics
Matches: 42, Mismatches: 10, Indels: 7
0.71 0.17 0.12
Matches are distributed among these distances:
20 14 0.33
21 12 0.29
22 13 0.31
23 3 0.07
ACGTcount: A:0.76, C:0.01, G:0.17, T:0.05
Consensus pattern (21 bp):
AAAAAGAAAAAAGAAGAGAAA
Found at i:19287420 original size:2 final size:2
Alignment explanation
Indices: 19287409--19287540 Score: 157
Period size: 2 Copynumber: 68.0 Consensus size: 2
19287399 AATGAATTGA
*
19287409 AT AT AT -T AT AT AT AC AT AT AT AT -T AT A- 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 AT AT AT
* * * * * *
19287448 AT AT CT CT AT AT AT AT A- AT AT AT AT ACT GT TT AT -T AG NT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT
19287489 AT AT AT 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 AT AT AT
19287531 AT AT AT AT AT
1 AT AT AT AT AT
19287541 GTTTTACAAT
Statistics
Matches: 113, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
1 5 0.04
2 107 0.95
3 1 0.01
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:19299929 original size:2 final size:2
Alignment explanation
Indices: 19299922--19299962 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
19299912 GATTGTGGAT
19299922 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
19299963 TATGCAATTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:19300820 original size:39 final size:41
Alignment explanation
Indices: 19300764--19300845 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 41
19300754 ACGTACACGT
* *
19300764 ACACGTTTAATACACGTGT-A-ACACGACACGACATGATTA
1 ACACGTTTAATAAACGTGTAATACACGACACGACACGATTA
* *
19300803 ACACGTTTATTAAACGTGTCAATATACGACACGACACGATTA
1 ACACGTTTAATAAACGTGT-AATACACGACACGACACGATTA
19300845 A
1 A
19300846 TAACACATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
39 17 0.47
41 1 0.03
42 18 0.50
ACGTcount: A:0.39, C:0.22, G:0.15, T:0.24
Consensus pattern (41 bp):
ACACGTTTAATAAACGTGTAATACACGACACGACACGATTA
Found at i:19300869 original size:18 final size:18
Alignment explanation
Indices: 19300846--19300884 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
19300836 ACACGATTAA
19300846 TAACACATTTAACACGAT
1 TAACACATTTAACACGAT
* *
19300864 TAACACGTTTAATACGAT
1 TAACACATTTAACACGAT
19300882 TAA
1 TAA
19300885 ATAAAAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.44, C:0.18, G:0.08, T:0.31
Consensus pattern (18 bp):
TAACACATTTAACACGAT
Found at i:19301865 original size:40 final size:40
Alignment explanation
Indices: 19301738--19301865 Score: 106
Period size: 40 Copynumber: 3.2 Consensus size: 40
19301728 CTCACTTATG
19301738 AAACCAATAATTGATCTTATTGTTAAAGTATGGGATACTT
1 AAACCAATAATTGATCTTATTGTTAAAGTATGGGATACTT
* * ** * *
19301778 AAACCAATATATGGGTGC---TTGTTAAA-TGACTAAG-TTCAAT
1 AAACCAATA-ATTGAT-CTTATTGTTAAAGT-A-TGGGATAC-TT
*
19301818 GAA-CAATAATTGATCTTATTGTTAAAGTATGGGATACTT
1 AAACCAATAATTGATCTTATTGTTAAAGTATGGGATACTT
19301857 AAACCAATA
1 AAACCAATA
19301866 TATGGGATAC
Statistics
Matches: 63, Mismatches: 14, Indels: 22
0.64 0.14 0.22
Matches are distributed among these distances:
37 1 0.02
38 5 0.08
39 21 0.33
40 30 0.48
41 5 0.08
42 1 0.02
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (40 bp):
AAACCAATAATTGATCTTATTGTTAAAGTATGGGATACTT
Found at i:19305170 original size:28 final size:28
Alignment explanation
Indices: 19305123--19305268 Score: 141
Period size: 28 Copynumber: 5.0 Consensus size: 28
19305113 TGGTAGCTTT
*
19305123 AAAATAT-TTTGTCTTAATTTAGACAAG
1 AAAATATATTTATCTTAATTTAGACAAG
*
19305150 AAAATATATTTATTTTAATTTAAGACAAG
1 AAAATATATTTATCTTAATTT-AGACAAG
* * *
19305179 AAAAATATGTTTTGTCTTAATCTAGACAAG
1 -AAAATAT-ATTTATCTTAATTTAGACAAG
* * *
19305209 AAAACATATTTGTCTCAATTTAGACAAG
1 AAAATATATTTATCTTAATTTAGACAAG
* *
19305237 ATAACATATTTTTATCTTAATTAAAGACAAG
1 A-AA-ATATATTTATCTTAATT-TAGACAAG
19305268 A
1 A
19305269 GTTGTCTTAA
Statistics
Matches: 97, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
27 7 0.07
28 30 0.31
29 15 0.15
30 27 0.28
31 18 0.19
ACGTcount: A:0.44, C:0.09, G:0.10, T:0.38
Consensus pattern (28 bp):
AAAATATATTTATCTTAATTTAGACAAG
Found at i:19305218 original size:59 final size:58
Alignment explanation
Indices: 19305122--19305257 Score: 177
Period size: 59 Copynumber: 2.3 Consensus size: 58
19305112 ATGGTAGCTT
* * * *
19305122 TAAAATA-TTTTGTCTTAATTTAGACAAGAAAATATATTTATTTTAATTTAAGACAAGA
1 TAAAATATTTTTGTCTTAATCTAGACAAGAAAACATATTTATCTCAATTT-AGACAAGA
*
19305180 -AAAATATGTTTTGTCTTAATCTAGACAAGAAAACATATTTGTCTCAATTTAGACAAGA
1 TAAAATAT-TTTTGTCTTAATCTAGACAAGAAAACATATTTATCTCAATTTAGACAAGA
* *
19305238 TAACATATTTTTATCTTAAT
1 TAAAATATTTTTGTCTTAAT
19305258 TAAAGACAAG
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
57 6 0.09
58 19 0.28
59 43 0.63
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (58 bp):
TAAAATATTTTTGTCTTAATCTAGACAAGAAAACATATTTATCTCAATTTAGACAAGA
Found at i:19311134 original size:35 final size:36
Alignment explanation
Indices: 19311066--19311135 Score: 90
Period size: 35 Copynumber: 2.0 Consensus size: 36
19311056 TGTGCACTTT
* *
19311066 CACACCACACATAGCTAGAATCATTCTGTGCACTCC
1 CACACCACACATAGCTAGAATCATTATGCGCACTCC
*
19311102 CACACCACACA-AGGTA-ATATCATTATGCGCACTC
1 CACACCACACATAGCTAGA-ATCATTATGCGCACTC
19311136 TTACATCGCT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
34 1 0.03
35 18 0.60
36 11 0.37
ACGTcount: A:0.33, C:0.34, G:0.11, T:0.21
Consensus pattern (36 bp):
CACACCACACATAGCTAGAATCATTATGCGCACTCC
Found at i:19311348 original size:52 final size:52
Alignment explanation
Indices: 19311146--19311347 Score: 318
Period size: 52 Copynumber: 3.9 Consensus size: 52
19311136 TTACATCGCT
*
19311146 CATGGCATATATCATCA--GTGTGCACTCACACAGCACACCAGTATCACGCA
1 CATGGCATATATCATCAGTGTGTGCACTCACACAGCACACCACTATCACGCA
*
19311196 CATGGCATATATCATAAGTGTGTGCACTCACACAGCACACCACTATCACGCA
1 CATGGCATATATCATCAGTGTGTGCACTCACACAGCACACCACTATCACGCA
* * * * *
19311248 CATGGCATATATCATTAGTGTGTGCACTCACACAACATACCATTATCATGCA
1 CATGGCATATATCATCAGTGTGTGCACTCACACAGCACACCACTATCACGCA
*
19311300 CATGGCATATATCATCAGTGTATGCACTCACACAGCACACCACTATCA
1 CATGGCATATATCATCAGTGTGTGCACTCACACAGCACACCACTATCA
19311348 TCGTCATGTG
Statistics
Matches: 138, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
50 16 0.12
52 122 0.88
ACGTcount: A:0.33, C:0.30, G:0.14, T:0.23
Consensus pattern (52 bp):
CATGGCATATATCATCAGTGTGTGCACTCACACAGCACACCACTATCACGCA
Found at i:19318241 original size:19 final size:20
Alignment explanation
Indices: 19318217--19318256 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
19318207 CCATTTGACT
19318217 TATTGGAGTATGATTT-AAG
1 TATTGGAGTATGATTTGAAG
19318236 TATTGGAGTATGATTTGAAG
1 TATTGGAGTATGATTTGAAG
19318256 T
1 T
19318257 TTAGAAGTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.30, C:0.00, G:0.28, T:0.42
Consensus pattern (20 bp):
TATTGGAGTATGATTTGAAG
Found at i:19319349 original size:13 final size:13
Alignment explanation
Indices: 19319331--19319355 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19319321 GGAAAATGGG
19319331 ATTTTATAAAATA
1 ATTTTATAAAATA
19319344 ATTTTATAAAAT
1 ATTTTATAAAAT
19319356 TTTTGAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTTTATAAAATA
Found at i:19325863 original size:83 final size:82
Alignment explanation
Indices: 19325765--19325929 Score: 314
Period size: 83 Copynumber: 2.0 Consensus size: 82
19325755 TAATATTTAA
19325765 ATTACACAACACAATTAAAATTAAAAAATATTTTTTAATGAAATCGTTCAATACAATTGAATTTT
1 ATTACACAACACAATTAAAATTAAAAAATATTTTTTAATGAAATCGTTCAATACAATTGAATTTT
19325830 TTATTTGTAAATGGAAT
66 TTATTTGTAAATGGAAT
19325847 NATTACACAACACAATTAAAATTAAAAAATATTTTTTAATGAAATCGTTCAATACAATTGAATTT
1 -ATTACACAACACAATTAAAATTAAAAAATATTTTTTAATGAAATCGTTCAATACAATTGAATTT
19325912 TTTATTTGTAAAT-GAAT
65 TTTATTTGTAAATGGAAT
19325929 A
1 A
19325930 AGTCTTACTA
Statistics
Matches: 82, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
81 1 0.01
82 4 0.05
83 77 0.94
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.39
Consensus pattern (82 bp):
ATTACACAACACAATTAAAATTAAAAAATATTTTTTAATGAAATCGTTCAATACAATTGAATTTT
TTATTTGTAAATGGAAT
Found at i:19327630 original size:16 final size:16
Alignment explanation
Indices: 19327609--19327640 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
19327599 CCAAAATTTA
19327609 GATTTTGATTCTTTTG
1 GATTTTGATTCTTTTG
*
19327625 GATTTTGATTTTTTTG
1 GATTTTGATTCTTTTG
19327641 ATATTTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.12, C:0.03, G:0.19, T:0.66
Consensus pattern (16 bp):
GATTTTGATTCTTTTG
Found at i:19327759 original size:15 final size:15
Alignment explanation
Indices: 19327739--19327771 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
19327729 ATGAGGACAT
19327739 TTAATGTAAATAAGC
1 TTAATGTAAATAAGC
19327754 TTAATGTAAATAAGC
1 TTAATGTAAATAAGC
19327769 TTA
1 TTA
19327772 GGGCCTGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.36
Consensus pattern (15 bp):
TTAATGTAAATAAGC
Found at i:19331191 original size:13 final size:13
Alignment explanation
Indices: 19331173--19331197 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19331163 GGAGAAATTG
19331173 TGATTTTATAAAA
1 TGATTTTATAAAA
19331186 TGATTTTATAAA
1 TGATTTTATAAA
19331198 TTTTCTGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:19339997 original size:19 final size:19
Alignment explanation
Indices: 19339973--19340012 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
19339963 TCTTCTCCTC
19339973 CATGCTCCCACGCCATTTT
1 CATGCTCCCACGCCATTTT
* *
19339992 CATGCTCCTATGCCATTTT
1 CATGCTCCCACGCCATTTT
19340011 CA
1 CA
19340013 CCTTACCACC
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:0.17, C:0.38, G:0.10, T:0.35
Consensus pattern (19 bp):
CATGCTCCCACGCCATTTT
Found at i:19345590 original size:64 final size:64
Alignment explanation
Indices: 19345438--19345590 Score: 180
Period size: 64 Copynumber: 2.4 Consensus size: 64
19345428 AGTCATTACA
* * * * * *
19345438 GTGAGGCAACATCCCATATATGGTGAATGCATGTAGCATGATGAATGATGGCGTTTCACACAGT
1 GTGAGGTAACATTCCACATATGGTGAATGCATCTAGCATGATGAATGATGGCGTTCCACACAGC
** * * **
19345502 GTGAGGTAACATTCCACACGTGGTGAATGCATCTAGTATGATGGATGATGGCGTTCCACATGGC
1 GTGAGGTAACATTCCACATATGGTGAATGCATCTAGCATGATGAATGATGGCGTTCCACACAGC
**
19345566 GTGAGGTAATGTTCCACATATGGTG
1 GTGAGGTAACATTCCACATATGGTG
19345591 CCAACACCTA
Statistics
Matches: 73, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
64 73 1.00
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (64 bp):
GTGAGGTAACATTCCACATATGGTGAATGCATCTAGCATGATGAATGATGGCGTTCCACACAGC
Found at i:19361988 original size:34 final size:35
Alignment explanation
Indices: 19361947--19362020 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 35
19361937 GTTTATGTCG
* *
19361947 TTTAAGTTGTTGTTTG-GATACTTGTTTTTAATTA
1 TTTAAGTTGATATTTGAGATACTTGTTTTTAATTA
* * *
19361981 TTTAAGTTGATATTTGAGATATTTGTTTTTGATTT
1 TTTAAGTTGATATTTGAGATACTTGTTTTTAATTA
19362016 TTTAA
1 TTTAA
19362021 ATTTAAATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 14 0.41
35 20 0.59
ACGTcount: A:0.23, C:0.01, G:0.16, T:0.59
Consensus pattern (35 bp):
TTTAAGTTGATATTTGAGATACTTGTTTTTAATTA
Found at i:19362837 original size:21 final size:21
Alignment explanation
Indices: 19362811--19362851 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
19362801 TTTAAATATA
19362811 ATTTTCCAACAACTTCTTCTC
1 ATTTTCCAACAACTTCTTCTC
* *
19362832 ATTTTCCAGCAGCTTCTTCT
1 ATTTTCCAACAACTTCTTCT
19362852 TCTTCTTCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.32, G:0.05, T:0.44
Consensus pattern (21 bp):
ATTTTCCAACAACTTCTTCTC
Found at i:19363769 original size:46 final size:45
Alignment explanation
Indices: 19363673--19363793 Score: 133
Period size: 46 Copynumber: 2.7 Consensus size: 45
19363663 GTGGACCCAA
*
19363673 CTATGTGCTGTGTGGGAGTGCACATGAG-T--TGATGATGACCTAG
1 CTATGTGC-GTGTGGGAGTGCACATGAGCTGATGATGATGACATAG
* * *
19363716 CTATGTGCGGTGTGAGAGTGCACATGAGCTGATGATGATGATATTG
1 CTATGTGC-GTGTGGGAGTGCACATGAGCTGATGATGATGACATAG
*
19363762 C-ATTGTGCATGTAGGGAGTGCACATGAGCTGA
1 CTA-TGTGCGTGT-GGGAGTGCACATGAGCTGA
19363794 GTGTGACGAG
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
43 26 0.39
44 1 0.02
45 4 0.06
46 35 0.53
ACGTcount: A:0.23, C:0.13, G:0.35, T:0.29
Consensus pattern (45 bp):
CTATGTGCGTGTGGGAGTGCACATGAGCTGATGATGATGACATAG
Found at i:19365626 original size:10 final size:10
Alignment explanation
Indices: 19365611--19365643 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
19365601 TTTGGAACTT
19365611 TAACCATTAA
1 TAACCATTAA
19365621 TAACCATTAA
1 TAACCATTAA
*
19365631 TAATCATTAA
1 TAACCATTAA
19365641 TAA
1 TAA
19365644 AACTAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (10 bp):
TAACCATTAA
Found at i:19367126 original size:47 final size:47
Alignment explanation
Indices: 19366974--19367194 Score: 336
Period size: 47 Copynumber: 4.7 Consensus size: 47
19366964 GTATATTTTA
*
19366974 TAATTATTTTTCTTATTTGTTTGGTAAAATTTATAACAATGCATGATG
1 TAATTATTTTTCTTATTTGTTAGGTAAAATTTATAA-AATGCATGATG
* * *
19367022 TAATTATTTTACTTATTTGTTAGGTAAAATTTATAAAAATACATGATA
1 TAATTATTTTTCTTATTTGTTAGGTAAAATTTAT-AAAATGCATGATG
19367070 TAATTATTTTTCTTATTTGTTAGGTAAAATTTATAAAATGCATGATG
1 TAATTATTTTTCTTATTTGTTAGGTAAAATTTATAAAATGCATGATG
*
19367117 TACTTATTTTAT-TTATTTGTTAGGTAAAATTTATAAAATGCATGATG
1 TAATTATTTT-TCTTATTTGTTAGGTAAAATTTATAAAATGCATGATG
** *
19367164 TAATTATTTAACTTATTTGTTAAGTAAAATT
1 TAATTATTTTTCTTATTTGTTAGGTAAAATT
19367195 ATATCCAAAC
Statistics
Matches: 158, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
47 81 0.51
48 75 0.47
49 2 0.01
ACGTcount: A:0.36, C:0.05, G:0.11, T:0.49
Consensus pattern (47 bp):
TAATTATTTTTCTTATTTGTTAGGTAAAATTTATAAAATGCATGATG
Found at i:19367144 original size:95 final size:95
Alignment explanation
Indices: 19366972--19367194 Score: 358
Period size: 95 Copynumber: 2.3 Consensus size: 95
19366962 AAGTATATTT
*
19366972 TATAATTATTTTTCTTATTTGTTTGGTAAAATTTATAACAATGCATGATGTAATTATTTTACTTA
1 TATAATTATTTTTCTTATTTGTTAGGTAAAATTTATAACAATGCATGATGTAATTATTTTACTTA
19367037 TTTGTTAGGTAAAATTTATAAAAATACATGA
66 TTTGTTAGGTAAAATTTAT-AAAATACATGA
* *
19367068 TATAATTATTTTTCTTATTTGTTAGGTAAAATTTATAA-AATGCATGATGTACTTATTTTATTTA
1 TATAATTATTTTTCTTATTTGTTAGGTAAAATTTATAACAATGCATGATGTAATTATTTTACTTA
*
19367132 TTTGTTAGGTAAAATTTATAAAATGCATGA
66 TTTGTTAGGTAAAATTTATAAAATACATGA
* ** *
19367162 TGTAATTATTTAACTTATTTGTTAAGTAAAATT
1 TATAATTATTTTTCTTATTTGTTAGGTAAAATT
19367195 ATATCCAAAC
Statistics
Matches: 119, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
94 39 0.33
95 43 0.36
96 37 0.31
ACGTcount: A:0.36, C:0.04, G:0.11, T:0.49
Consensus pattern (95 bp):
TATAATTATTTTTCTTATTTGTTAGGTAAAATTTATAACAATGCATGATGTAATTATTTTACTTA
TTTGTTAGGTAAAATTTATAAAATACATGA
Found at i:19372476 original size:19 final size:19
Alignment explanation
Indices: 19372452--19372489 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
19372442 CTGCCAAACC
*
19372452 CTCAAATTATAATCCAATA
1 CTCAAATCATAATCCAATA
*
19372471 CTCAAATCATACTCCAATA
1 CTCAAATCATAATCCAATA
19372490 AGTCAAATGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATAATCCAATA
Found at i:19372920 original size:18 final size:18
Alignment explanation
Indices: 19372889--19372928 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
19372879 ATGTTTTGTA
*
19372889 ATATAAAATGGTATGAAT
1 ATATAAAATGGTATAAAT
* *
19372907 ATATATAATTGTATAAAT
1 ATATAAAATGGTATAAAT
19372925 ATAT
1 ATAT
19372929 TATATATACA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (18 bp):
ATATAAAATGGTATAAAT
Found at i:19373363 original size:21 final size:21
Alignment explanation
Indices: 19373337--19373392 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
19373327 CACGCTATGA
* *
19373337 TGTTACATGCCATGGTCAAGT
1 TGTTACACGCCATAGTCAAGT
19373358 TGTTACACGCCATAGTCAAGT
1 TGTTACACGCCATAGTCAAGT
*
19373379 TGTTACACACCATA
1 TGTTACACGCCATA
19373393 TACAAAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (21 bp):
TGTTACACGCCATAGTCAAGT
Found at i:19373462 original size:44 final size:45
Alignment explanation
Indices: 19373377--19373481 Score: 167
Period size: 44 Copynumber: 2.4 Consensus size: 45
19373367 CCATAGTCAA
*
19373377 GTTGTTACACACCATATACAAAAAAATGTGACAAGCCATGGTTAG
1 GTTGTTACACACCATGTACAAAAAAATGTGACAAGCCATGGTTAG
* *
19373422 GTTGTTACACCCCATGTAC-AAAATATGTGACAAGCCATGGTTAG
1 GTTGTTACACACCATGTACAAAAAAATGTGACAAGCCATGGTTAG
*
19373466 GTTGTTACACGCCATG
1 GTTGTTACACACCATG
19373482 GTTAGATTGT
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
44 39 0.70
45 17 0.30
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (45 bp):
GTTGTTACACACCATGTACAAAAAAATGTGACAAGCCATGGTTAG
Found at i:19373502 original size:21 final size:21
Alignment explanation
Indices: 19373411--19373495 Score: 73
Period size: 21 Copynumber: 4.0 Consensus size: 21
19373401 AATGTGACAA
*
19373411 GCCATGGTTAGGTTGTTACAC
1 GCCATGGTTAGATTGTTACAC
* * * * *
19373432 CCCAT-GTACAAAATATGTGACAA
1 GCCATGGT--TAGAT-TGTTACAC
*
19373455 GCCATGGTTAGGTTGTTACAC
1 GCCATGGTTAGATTGTTACAC
19373476 GCCATGGTTAGATTGTTACA
1 GCCATGGTTAGATTGTTACA
19373496 TGTCATGTTG
Statistics
Matches: 47, Mismatches: 13, Indels: 8
0.69 0.19 0.12
Matches are distributed among these distances:
20 2 0.04
21 29 0.62
22 4 0.09
23 10 0.21
24 2 0.04
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.31
Consensus pattern (21 bp):
GCCATGGTTAGATTGTTACAC
Found at i:19373622 original size:29 final size:30
Alignment explanation
Indices: 19373569--19373639 Score: 99
Period size: 32 Copynumber: 2.3 Consensus size: 30
19373559 TTAAAAAAGG
*
19373569 TTGTTACACGTCATGTTGAAAAAAAATTATTA
1 TTGTTACACGCCATGTTG-AAAAAAA-TATTA
*
19373601 TTGTTACACGCCATGTTG-AAAAAATATTG
1 TTGTTACACGCCATGTTGAAAAAAATATTA
19373630 TTGTTACACG
1 TTGTTACACG
19373640 ACATATTCAA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
29 14 0.38
30 6 0.16
32 17 0.46
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (30 bp):
TTGTTACACGCCATGTTGAAAAAAATATTA
Found at i:19373651 original size:29 final size:30
Alignment explanation
Indices: 19373589--19373652 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 30
19373579 TCATGTTGAA
* * *
19373589 AAAAAATTATTATTGTTACACGCCATGTTG
1 AAAAAATTATTATTGTTACACGACATATTC
*
19373619 AAAAAA-TATTGTTGTTACACGACATATTC
1 AAAAAATTATTATTGTTACACGACATATTC
19373648 AAAAA
1 AAAAA
19373653 CATTTTGATA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 24 0.80
30 6 0.20
ACGTcount: A:0.44, C:0.12, G:0.11, T:0.33
Consensus pattern (30 bp):
AAAAAATTATTATTGTTACACGACATATTC
Found at i:19374260 original size:19 final size:19
Alignment explanation
Indices: 19374233--19374270 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
19374223 CCATTTGACT
19374233 TATTAGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
*
19374252 TATTGGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
19374271 GTTAAGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTAGAGTATGATTTGAG
Found at i:19375776 original size:509 final size:510
Alignment explanation
Indices: 19374817--19375832 Score: 1734
Period size: 509 Copynumber: 2.0 Consensus size: 510
19374807 GAATTTCAAA
*
19374817 GGTAACTTAGTGTTTTTAGGTGTTTAGTAACATTTAGTATGAAAATTAAGCAAGAAATCCACATG
1 GGTAACTTAGTGTTTTTAGGTGTTTAGTAACATTTAGTATGAAAATTAAACAAGAAATCCACATG
*
19374882 CCCATTATAGAACCTACCTTGGCCCAAATTTTATGGCTGAGGTTTGATGATGAATTTGGTTGTTT
66 CCCATTATAGAACCTACCTTGGCCCAAATTTTATGGCTGAGGTTTGATGATGAATTTGGTAGTTT
* *
19374947 TTCATGCCCTTTAGATTGTATTTGGTGCTTAGGAATACCGAAAATCGAAAATGGGTACCGAAAAA
131 TTCATGCCCTTTAGATTGTATGTGGTGCTTAGGAATACCGAAAATCGAAAACGGGTACCGAAAAA
* *
19375012 TTTTACTCCCGCTAGTTAACAATTTACACCATAATGAGGGATATTTTGGTAATTGCACTTAGAAT
196 TTTTACTCCCGCTAGTTAACAATTTACACAATAATGAGGGATATTTCGGTAATTGCACTTAGAAT
*
19375077 AGACTTTTAGTGAAGTGTGTGGAATTTTGGGGAGTATTGGAAGTGCAATAAATTAATTGGAATCG
261 AGACTTTTAGTGAAGTGTGTGGAATTTTGGGGAGTACTGGAAGTGCAATAAATTAATTGGAATCG
* * *
19375142 AATTGGACATTTAGACCGATTAAATAGTGTATAGTGTGCGATAGGCCGAACACCTCCCATTTTAT
326 AATTGGACATTTAGACCGATTAAATAATGTATAGTGCGCGATAGGCCGAACACCTCCCATTTCAT
*
19375207 TGCATGCATTCATATAAAACATAGAATAGTTTTGTGACAATTTGGAATAAGTATATTAAATTTCC
391 TGCATGCATTCATATAAAACATAGAATAGTTTTGTGACAATTTAGAATAAGTATATTAAATTTCC
* *
19375272 TGTTACACATTATGTATAGGTGTTGAGCCCTCAGATAAGGGTAAAGATATTGTGC
456 TGTTACACATTATGTATAGGTGGTGAGCCCTCAGATAAGGGCAAAGATATTGTGC
*
19375327 NGGTAACTTAGTGTTTTTAGGTGTTTAGTAACATTTAGTTTGAAAATTAAACAAGAAATCCACAT
1 -GGTAACTTAGTGTTTTTAGGTGTTTAGTAACATTTAGTATGAAAATTAAACAAGAAATCCACAT
* * *
19375392 GCCCATTATAGAACCTATCTTGG-CCGAATTTTATGGGTGAGGTTTGATGATGAATTTGGTAGTT
65 GCCCATTATAGAACCTACCTTGGCCCAAATTTTATGGCTGAGGTTTGATGATGAATTTGGTAGTT
*
19375456 TTTTATGCCCTTTAGATTGTATGTGGTGCTTAGGAATACCG-AAATCGAAAACGGGTACCGAAAA
130 TTTCATGCCCTTTAGATTGTATGTGGTGCTTAGGAATACCGAAAATCGAAAACGGGTACCGAAAA
* *
19375520 ATTTTACTCCCGTTAG-TAAGCAATTTGCACAATAATGAGGGATATTTCGGTAATTGCACTTAGA
195 ATTTTACTCCCGCTAGTTAA-CAATTTACACAATAATGAGGGATATTTCGGTAATTGCACTTAGA
19375584 ATAGA-TTTTGAGTGAAGTGTGTGGAATTTTGGGGAGTACTGGAAGTGCAATAAATTAATTGGAA
259 ATAGACTTTT-AGTGAAGTGTGTGGAATTTTGGGGAGTACTGGAAGTGCAATAAATTAATTGGAA
19375648 TCGAATTGGACATTTAGACCGATTAAATAATGTATAGTGCGCGATAGGCCGAACACCTCCCATTT
323 TCGAATTGGACATTTAGACCGATTAAATAATGTATAGTGCGCGATAGGCCGAACACCTCCCATTT
* * *
19375713 CATTGCATGCATTCATATAGAACATAGAATAGTTTTGTGACGATTTAGCATAAGTATATTAAATT
388 CATTGCATGCATTCATATAAAACATAGAATAGTTTTGTGACAATTTAGAATAAGTATATTAAATT
* ** *
19375778 TTCTGTTACACATTATGTATAGGTGGTGAGCCCTTGGATAAGGGCAAAGGTATTG
453 TCCTGTTACACATTATGTATAGGTGGTGAGCCCTCAGATAAGGGCAAAGATATTG
19375833 CACCCCAGGA
Statistics
Matches: 476, Mismatches: 27, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
508 7 0.01
509 308 0.65
510 77 0.16
511 84 0.18
ACGTcount: A:0.31, C:0.13, G:0.22, T:0.34
Consensus pattern (510 bp):
GGTAACTTAGTGTTTTTAGGTGTTTAGTAACATTTAGTATGAAAATTAAACAAGAAATCCACATG
CCCATTATAGAACCTACCTTGGCCCAAATTTTATGGCTGAGGTTTGATGATGAATTTGGTAGTTT
TTCATGCCCTTTAGATTGTATGTGGTGCTTAGGAATACCGAAAATCGAAAACGGGTACCGAAAAA
TTTTACTCCCGCTAGTTAACAATTTACACAATAATGAGGGATATTTCGGTAATTGCACTTAGAAT
AGACTTTTAGTGAAGTGTGTGGAATTTTGGGGAGTACTGGAAGTGCAATAAATTAATTGGAATCG
AATTGGACATTTAGACCGATTAAATAATGTATAGTGCGCGATAGGCCGAACACCTCCCATTTCAT
TGCATGCATTCATATAAAACATAGAATAGTTTTGTGACAATTTAGAATAAGTATATTAAATTTCC
TGTTACACATTATGTATAGGTGGTGAGCCCTCAGATAAGGGCAAAGATATTGTGC
Found at i:19385508 original size:10 final size:10
Alignment explanation
Indices: 19385477--19385523 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
19385467 AAATATTATA
*
19385477 TTAATATTTT
1 TTAATTTTTT
*
19385487 TTAAGTTATTT
1 TTAA-TTTTTT
19385498 TTAATTTTTT
1 TTAATTTTTT
*
19385508 TTTA-TTTTT
1 TTAATTTTTT
19385517 TTAATTT
1 TTAATTT
19385524 ATTAACAAGA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
9 8 0.27
10 14 0.47
11 8 0.27
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (10 bp):
TTAATTTTTT
Found at i:19387194 original size:21 final size:22
Alignment explanation
Indices: 19387145--19387188 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
19387135 TAAGAATTAT
*
19387145 TCATAAAATATTAATTAAAAAA
1 TCATAAAATATTAAGTAAAAAA
19387167 TCATAAAATATT-AGTAAAAAA
1 TCATAAAATATTAAGTAAAAAA
19387188 T
1 T
19387189 ATTAAATCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (22 bp):
TCATAAAATATTAAGTAAAAAA
Found at i:19387835 original size:33 final size:33
Alignment explanation
Indices: 19387793--19387858 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
19387783 TCTCTACACA
* *
19387793 AAAGGCTATACACAACAAGGACCAATTGAAAAG
1 AAAGACTATAAACAACAAGGACCAATTGAAAAG
* *
19387826 AAAGACTATAAACAGCAAGGACCAATTGTAAAG
1 AAAGACTATAAACAACAAGGACCAATTGAAAAG
19387859 TATCTGTGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.52, C:0.17, G:0.18, T:0.14
Consensus pattern (33 bp):
AAAGACTATAAACAACAAGGACCAATTGAAAAG
Found at i:19395822 original size:23 final size:23
Alignment explanation
Indices: 19395762--19395839 Score: 75
Period size: 23 Copynumber: 3.4 Consensus size: 23
19395752 TACGTGACTG
* *
19395762 GTTGATAGATTATTGCGTAACTG
1 GTTGATAGGTTATTGCGTAACTA
* * *
19395785 GTTGATAAGTTATTGCTTTACTA
1 GTTGATAGGTTATTGCGTAACTA
* * *
19395808 GTTGATAGGTCATTGAGTGACTA
1 GTTGATAGGTTATTGCGTAACTA
*
19395831 GTTCATAGG
1 GTTGATAGG
19395840 ATCAATAGAA
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.26, C:0.09, G:0.26, T:0.40
Consensus pattern (23 bp):
GTTGATAGGTTATTGCGTAACTA
Found at i:19396241 original size:21 final size:21
Alignment explanation
Indices: 19396204--19396243 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
19396194 TGTCACAAGA
*
19396204 CATGCATGACTGGTTGATAAG
1 CATGCATGACTAGTTGATAAG
*
19396225 CATGCATGACTATTTGATA
1 CATGCATGACTAGTTGATA
19396244 GGGAATTGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.33
Consensus pattern (21 bp):
CATGCATGACTAGTTGATAAG
Found at i:19409511 original size:19 final size:19
Alignment explanation
Indices: 19409487--19409528 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
19409477 TTGACCTAAA
* *
19409487 TTCTTAACTATCCGAGGGT
1 TTCTTAACTAGCCAAGGGT
*
19409506 TTCTTAACTGGCCAAGGGT
1 TTCTTAACTAGCCAAGGGT
19409525 TTCT
1 TTCT
19409529 CACCAAACCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.38
Consensus pattern (19 bp):
TTCTTAACTAGCCAAGGGT
Found at i:19410144 original size:38 final size:40
Alignment explanation
Indices: 19410055--19410160 Score: 135
Period size: 38 Copynumber: 2.7 Consensus size: 40
19410045 CACACCAGAC
*
19410055 TCATGTACATCCCCCCACATCGTGCACATAGTCGGCACCA
1 TCATGTACATCCCCCCACATCGTGCACATAGTCAGCACCA
* * * **
19410095 TCATGTGCATCCCCCCACGTTGTGCACA-A-TCAGTGCCA
1 TCATGTACATCCCCCCACATCGTGCACATAGTCAGCACCA
*
19410133 TCGTGTACATCCCCCCACATCGTGCACA
1 TCATGTACATCCCCCCACATCGTGCACA
19410161 CGGGCATTAT
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
38 30 0.54
39 1 0.02
40 25 0.45
ACGTcount: A:0.23, C:0.40, G:0.16, T:0.22
Consensus pattern (40 bp):
TCATGTACATCCCCCCACATCGTGCACATAGTCAGCACCA
Found at i:19416647 original size:42 final size:42
Alignment explanation
Indices: 19416582--19416666 Score: 98
Period size: 42 Copynumber: 2.0 Consensus size: 42
19416572 TCGTAAATAA
* *
19416582 GGTCATCACACTCAACATATTCTAAAACAATAGTTATGGCAT
1 GGTCATCACACTAAACATATTCTAAAACAACAGTTATGGCAT
* * * * * *
19416624 GGTCATCGCACTAAACCTCTTCTAACATAACAGTTGTGGCAT
1 GGTCATCACACTAAACATATTCTAAAACAACAGTTATGGCAT
19416666 G
1 G
19416667 TTCTGTACTA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (42 bp):
GGTCATCACACTAAACATATTCTAAAACAACAGTTATGGCAT
Found at i:19417797 original size:22 final size:22
Alignment explanation
Indices: 19417772--19417824 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
19417762 ATGGCCCTAC
*
19417772 TCACACAATACATAAAAATCAG
1 TCACACAATACATAAAAACCAG
* *
19417794 TCACAGAATACATAATAACCAG
1 TCACACAATACATAAAAACCAG
*
19417816 TCACGCAAT
1 TCACACAAT
19417825 GCCTAATATC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.49, C:0.25, G:0.08, T:0.19
Consensus pattern (22 bp):
TCACACAATACATAAAAACCAG
Found at i:19417831 original size:22 final size:22
Alignment explanation
Indices: 19417806--19417873 Score: 73
Period size: 22 Copynumber: 3.1 Consensus size: 22
19417796 ACAGAATACA
* *
19417806 TAATAACCAGTCACGCAATGCC
1 TAATATCCATTCACGCAATGCC
* * *
19417828 TAATATCCATTCACACGATGCG
1 TAATATCCATTCACGCAATGCC
* *
19417850 TAATATCCATTCATGTAATGCC
1 TAATATCCATTCACGCAATGCC
19417872 TA
1 TA
19417874 TAAACAAAAT
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.28
Consensus pattern (22 bp):
TAATATCCATTCACGCAATGCC
Found at i:19424220 original size:93 final size:93
Alignment explanation
Indices: 19424041--19424248 Score: 301
Period size: 93 Copynumber: 2.2 Consensus size: 93
19424031 CTCTCATGCC
* * * *
19424041 ATTTTTCGATGTTAAATGTAACTAATGTGACAGGGTGCATATCAACTAGCTAAGAGATAGGGCAT
1 ATTTTTCAATGTTAAATGTAACTAATGTAAAAGGGTGCATATCAACTAGCTAAGAGATAAGGCAT
19424106 TGAGAGAGATTGAGTTACTACATATTTT
66 TGAGAGAGATTGAGTTACTACATATTTT
** * * **
19424134 ATTTTTCAAGTGTTAAATGTAACTAATGTAAAATTGTGCATATCAGCTAGCTAA-AGATAATGTT
1 ATTTTTCAA-TGTTAAATGTAACTAATGTAAAAGGGTGCATATCAACTAGCTAAGAGATAAGGCA
19424198 TTGAGAGAGATTGAGTTACTACATATTTT
65 TTGAGAGAGATTGAGTTACTACATATTTT
*
19424227 ATTTTTCAATATTAAATGTAAC
1 ATTTTTCAATGTTAAATGTAAC
19424249 GAATAAAAAG
Statistics
Matches: 103, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
92 12 0.12
93 52 0.50
94 39 0.38
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.37
Consensus pattern (93 bp):
ATTTTTCAATGTTAAATGTAACTAATGTAAAAGGGTGCATATCAACTAGCTAAGAGATAAGGCAT
TGAGAGAGATTGAGTTACTACATATTTT
Found at i:19424306 original size:92 final size:93
Alignment explanation
Indices: 19424110--19424312 Score: 261
Period size: 92 Copynumber: 2.2 Consensus size: 93
19424100 GGGCATTGAG
* * * *
19424110 AGAGATTGAGTTACTACATATTTTATTTTTCAAGTGTTAAATGTAACTAATGTAAAATTGTGCAT
1 AGAGATTGAGTTACTACATATTTTATTTTTCAAGTATTAAATGTAACGAATGAAAAAGTGTGCAT
* * * *
19424175 ATCAGCTAGCTAAAGATAATGTTTTGAG
66 ATCAACTAGCTAAAGATAATATTTTAAA
*
19424203 AGAGATTGAGTTACTACATATTTTATTTTTCAA-TATTAAATGTAACGAAT-AAAAAGTG-GTAT
1 AGAGATTGAGTTACTACATATTTTATTTTTCAAGTATTAAATGTAACGAATGAAAAAGTGTGCAT
*
19424265 AGATCAATTAGCTAAAGATAGA-ATTTTAAA
66 --ATCAACTAGCTAAAGATA-ATATTTTAAA
19424295 AGAGATTGAGTTACTACA
1 AGAGATTGAGTTACTACA
19424313 CATTGTACCG
Statistics
Matches: 97, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
90 3 0.03
91 6 0.06
92 54 0.56
93 34 0.35
ACGTcount: A:0.39, C:0.08, G:0.16, T:0.36
Consensus pattern (93 bp):
AGAGATTGAGTTACTACATATTTTATTTTTCAAGTATTAAATGTAACGAATGAAAAAGTGTGCAT
ATCAACTAGCTAAAGATAATATTTTAAA
Found at i:19427939 original size:14 final size:13
Alignment explanation
Indices: 19427914--19427943 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
19427904 ATGTCTTGTT
19427914 AATAAATTAAAAA
1 AATAAATTAAAAA
*
19427927 AATAAATTTAAAA
1 AATAAATTAAAAA
19427940 AATA
1 AATA
19427944 TTGATATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (13 bp):
AATAAATTAAAAA
Found at i:19432836 original size:92 final size:93
Alignment explanation
Indices: 19432712--19432941 Score: 284
Period size: 93 Copynumber: 2.5 Consensus size: 93
19432702 TTTAGTTAGT
* *
19432712 TGATCTGCACCACTTT-TCATTAGTTACATTTAACATTGAAAAATAGAATATGCAATAACTCAAT
1 TGATATGCACCACTTTAT-ATTAGTTACATTTAACATTGAAAAATAAAATATGCAATAACTCAAT
*
19432776 TTCTCTCAAAACCCTATCT-TTAACTAGC
65 CTCTCTCAAAACCCTATCTCTTAACTAGC
* * * *
19432804 TGATATGCACCGCTTTATATTAGTTACATTTAACACTTAAAAAATAAAATATGTAGTAACTCAAT
1 TGATATGCACCACTTTATATTAGTTACATTTAACA-TTGAAAAATAAAATATGCAATAACTCAAT
* ** *
19432869 CTCTCTCAAAGCCCTATCTCTTAGTTAGT
65 CTCTCTCAAAACCCTATCTCTTAACTAGC
* ** * *
19432898 TGATATGCAACTTTTTACATTAGTTACATTTAATATTGAAAAAT
1 TGATATGCACCACTTTATATTAGTTACATTTAACATTGAAAAAT
19432942 GATATGAGAG
Statistics
Matches: 118, Mismatches: 17, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
92 31 0.26
93 51 0.43
94 36 0.31
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.37
Consensus pattern (93 bp):
TGATATGCACCACTTTATATTAGTTACATTTAACATTGAAAAATAAAATATGCAATAACTCAATC
TCTCTCAAAACCCTATCTCTTAACTAGC
Found at i:19432875 original size:93 final size:92
Alignment explanation
Indices: 19432663--19432941 Score: 317
Period size: 92 Copynumber: 3.0 Consensus size: 92
19432653 AAACTTATAG
* * * ** * *
19432663 TAAAATGTGTAGTAACTCAATCTCCCTTAAAATTCTATTTTTAGTTAGTTGATCTGCACCACTTT
1 TAAAATATGTAGTAACTCAATCTCTCTCAAAACCCTATCTTTAGTTAGTTGATATGCACCACTTT
*
19432728 -TCATTAGTTACATTTAACATTGAAAAA
66 AT-ATTAGTTACATTTAACATTAAAAAA
* * * * ** * *
19432755 TAGAATATGCAATAACTCAATTTCTCTCAAAACCCTATCTTTAACTAGCTGATATGCACCGCTTT
1 TAAAATATGTAGTAACTCAATCTCTCTCAAAACCCTATCTTTAGTTAGTTGATATGCACCACTTT
19432820 ATATTAGTTACATTTAACACTTAAAAAA
66 ATATTAGTTACATTTAACA-TTAAAAAA
* * **
19432848 TAAAATATGTAGTAACTCAATCTCTCTCAAAGCCCTATCTCTTAGTTAGTTGATATGCAACTTTT
1 TAAAATATGTAGTAACTCAATCTCTCTCAAAACCCTATCT-TTAGTTAGTTGATATGCACCACTT
* * *
19432913 TACATTAGTTACATTTAATATTGAAAAA
65 TATATTAGTTACATTTAACATTAAAAAA
19432941 T
1 T
19432942 GATATGAGAG
Statistics
Matches: 154, Mismatches: 30, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
92 67 0.44
93 51 0.33
94 36 0.23
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.38
Consensus pattern (92 bp):
TAAAATATGTAGTAACTCAATCTCTCTCAAAACCCTATCTTTAGTTAGTTGATATGCACCACTTT
ATATTAGTTACATTTAACATTAAAAAA
Found at i:19435612 original size:69 final size:69
Alignment explanation
Indices: 19435500--19435636 Score: 179
Period size: 69 Copynumber: 2.0 Consensus size: 69
19435490 GATATTACAT
* * * *
19435500 GTCATGTACAAAAACCTGTGACAAGCTATGGTTAGTGTATTACACGCTATGTACAAAAA-TATGT
1 GTCATGTACAAAAACCTATGACAAGCTATGATTACTGTATTACACGCCATGTACAAAAACT-TGT
19435564 GATAC
65 GATAC
* * *
19435569 GTCATGTACAAAAACCTATGACAAGTTATGATTAACT-TGTTACATGCCATGTACAAAAACTTGT
1 GTCATGTACAAAAACCTATGACAAGCTATGATT-ACTGTATTACACGCCATGTACAAAAACTTGT
19435633 GATA
65 GATA
19435637 TGCCGTGGTT
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
69 56 0.95
70 3 0.05
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30
Consensus pattern (69 bp):
GTCATGTACAAAAACCTATGACAAGCTATGATTACTGTATTACACGCCATGTACAAAAACTTGTG
ATAC
Found at i:19435694 original size:69 final size:68
Alignment explanation
Indices: 19435614--19435824 Score: 255
Period size: 69 Copynumber: 3.1 Consensus size: 68
19435604 CTTGTTACAT
* * * ** *
19435614 GCCATGTACAAAAACTTGTGATATGCCGTGGTTAGTGTGTTACATGCTATATACAAAAATATGTG
1 GCCAAGTACAAAAACTTGTGACAAGCTATGGTTAG-GTGTTACACGCTATATACAAAAATATGTG
*
19435679 ACAC
65 ACAA
* *
19435683 GTCATA-TACAAAAACTTGTGACAAGCTATGATTAGCGTGTTACACGCTATATACAAAAATATGT
1 GCCA-AGTACAAAAACTTGTGACAAGCTATGGTTAG-GTGTTACACGCTATATACAAAAATATGT
19435747 GACAA
64 GACAA
* * *
19435752 GCCAAGTACAAAATCCTGTGACAAGCTATGGTTAGGATGTTACACGCCATATACAAAAACT-TGT
1 GCCAAGTACAAAAACTTGTGACAAGCTATGGTTAGG-TGTTACACGCTATATACAAAAA-TATGT
19435816 GACAA
64 GACAA
19435821 GCCA
1 GCCA
19435825 TGATTAGGTT
Statistics
Matches: 123, Mismatches: 15, Indels: 8
0.84 0.10 0.05
Matches are distributed among these distances:
68 2 0.02
69 120 0.98
70 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (68 bp):
GCCAAGTACAAAAACTTGTGACAAGCTATGGTTAGGTGTTACACGCTATATACAAAAATATGTGA
CAA
Done.