Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 ID=Chr07-JGI_221_v2.0
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: 60982465
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 868082 characters in sequence are not A, C, G, or T
File 155 of 204
Found at i:46632017 original size:28 final size:28
Alignment explanation
Indices: 46631970--46632034 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 28
46631960 ATATACCATG
* * * *
46631970 TGGTACCT-AATATTTTAATATTTAATT
1 TGGTACTTGAATATTTCAATAATCAATT
46631997 TGGTACTTGAATATTTCAATAATCAATT
1 TGGTACTTGAATATTTCAATAATCAATT
*
46632025 TGGTATTTGA
1 TGGTACTTGA
46632035 GTTTATTTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 7 0.22
28 25 0.78
ACGTcount: A:0.32, C:0.08, G:0.12, T:0.48
Consensus pattern (28 bp):
TGGTACTTGAATATTTCAATAATCAATT
Found at i:46642111 original size:22 final size:19
Alignment explanation
Indices: 46642086--46642127 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
46642076 TGATAATCAT
46642086 TAATATATAATTATATCTATTA
1 TAATATAT-ATTA-AT-TATTA
46642108 TAATATATATTAATTATTA
1 TAATATATATTAATTATTA
46642127 T
1 T
46642128 CAACTTTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 4 0.20
22 8 0.40
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
TAATATATATTAATTATTA
Found at i:46642187 original size:16 final size:17
Alignment explanation
Indices: 46642166--46642200 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
46642156 AAATTTGATC
46642166 ATATTT-TATTTAATAA
1 ATATTTATATTTAATAA
*
46642182 ATATTTATTTTTAATAA
1 ATATTTATATTTAATAA
46642199 AT
1 AT
46642201 TAATAGCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATATTTATATTTAATAA
Found at i:46642653 original size:22 final size:21
Alignment explanation
Indices: 46642623--46642663 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
46642613 GAGTTTCACA
*
46642623 ATGTCTAATTACAGTCTCTAAC
1 ATGTCTAA-TAAAGTCTCTAAC
*
46642645 ATGTGTAATAAAGTCTCTA
1 ATGTCTAATAAAGTCTCTA
46642664 CCAAGCCTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.37
Consensus pattern (21 bp):
ATGTCTAATAAAGTCTCTAAC
Found at i:46646934 original size:6 final size:6
Alignment explanation
Indices: 46646902--46646946 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
46646892 TAAGTCTAAG
* * * *
46646902 AAAATA ACAATA AACATA AGAAGA AAAATA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA
46646947 CAAATAAACT
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.78, C:0.04, G:0.04, T:0.13
Consensus pattern (6 bp):
AAAATA
Found at i:46668947 original size:62 final size:61
Alignment explanation
Indices: 46668851--46668971 Score: 215
Period size: 62 Copynumber: 2.0 Consensus size: 61
46668841 TCAGAAAATG
*
46668851 ACCAATACAAAATAATTTAATACAAACTCAACCATTTCTGTCATGCACATGGCAGACAACA
1 ACCAATACAAAATAATTTAATACAAACACAACCATTTCTGTCATGCACATGGCAGACAACA
*
46668912 ACCAATACAAAAATAATTTAATACAAACACAACCATTTTTGTCATGCACATGGCAGACAA
1 ACCAATAC-AAAATAATTTAATACAAACACAACCATTTCTGTCATGCACATGGCAGACAA
46668972 TAATATACAA
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
61 8 0.14
62 49 0.86
ACGTcount: A:0.45, C:0.23, G:0.08, T:0.23
Consensus pattern (61 bp):
ACCAATACAAAATAATTTAATACAAACACAACCATTTCTGTCATGCACATGGCAGACAACA
Found at i:46669239 original size:6 final size:6
Alignment explanation
Indices: 46669230--46669431 Score: 135
Period size: 6 Copynumber: 33.7 Consensus size: 6
46669220 AAATAACCTT
46669230 AAATCG AAATCG AAATCG AAATCG AAATCG AAATCG AAATCG AAATCG
1 AAATCG AAATCG AAATCG AAATCG AAATCG AAATCG AAATCG AAATCG
* * * * * * *
46669278 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATTG AAATC-
1 AAATCG AAATCG AAATCG AAATCG AAATCG AAATCG AAATCG AAATCG
* * * * ** * * * *
46669325 AAAGTCA AAATCA AAATCAG TGAGT-G -TTTCA AAATTG AAATCA AAATCA
1 AAA-TCG AAATCG AAATC-G -AAATCG AAATCG AAATCG AAATCG AAATCG
* * * *
46669374 AAATCG AAATCA AAAT-T AGAATC- ATAATCG AAATCA AAATTG AAATCG
1 AAATCG AAATCG AAATCG A-AATCG A-AATCG AAATCG AAATCG AAATCG
46669422 AAATCG AAAT
1 AAATCG AAAT
46669432 AACCCTAAAT
Statistics
Matches: 163, Mismatches: 24, Indels: 18
0.80 0.12 0.09
Matches are distributed among these distances:
4 1 0.01
5 4 0.02
6 152 0.93
7 4 0.02
8 2 0.01
ACGTcount: A:0.55, C:0.14, G:0.10, T:0.21
Consensus pattern (6 bp):
AAATCG
Found at i:46669247 original size:12 final size:12
Alignment explanation
Indices: 46669230--46669431 Score: 149
Period size: 12 Copynumber: 16.8 Consensus size: 12
46669220 AAATAACCTT
*
46669230 AAATCGAAATCG
1 AAATCGAAATCA
*
46669242 AAATCGAAATCG
1 AAATCGAAATCA
*
46669254 AAATCGAAATCG
1 AAATCGAAATCA
*
46669266 AAATCGAAATCG
1 AAATCGAAATCA
*
46669278 AAATCAAAATCA
1 AAATCGAAATCA
*
46669290 AAATCAAAATCA
1 AAATCGAAATCA
*
46669302 AAATCAAAATCA
1 AAATCGAAATCA
*
46669314 AAATTGAAATCA
1 AAATCGAAATCA
* *
46669326 AAGTCAAAATCA
1 AAATCGAAATCA
* *
46669338 AAATC--AGTGA
1 AAATCGAAATCA
*** * **
46669348 GTGTTTCAAAATTG
1 --AAATCGAAATCA
*
46669362 AAATCAAAATCA
1 AAATCGAAATCA
46669374 AAATCGAAATCA
1 AAATCGAAATCA
*
46669386 AAAT-TAGAATCA
1 AAATCGA-AATCA
*
46669398 TAATCGAAATCA
1 AAATCGAAATCA
* *
46669410 AAATTGAAATCG
1 AAATCGAAATCA
46669422 AAATCGAAAT
1 AAATCGAAAT
46669432 AACCCTAAAT
Statistics
Matches: 155, Mismatches: 29, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
10 3 0.02
11 1 0.01
12 148 0.95
13 1 0.01
14 2 0.01
ACGTcount: A:0.55, C:0.14, G:0.10, T:0.21
Consensus pattern (12 bp):
AAATCGAAATCA
Found at i:46669253 original size:18 final size:18
Alignment explanation
Indices: 46669230--46669431 Score: 160
Period size: 18 Copynumber: 11.2 Consensus size: 18
46669220 AAATAACCTT
*
46669230 AAATCGAAATCGAAATCG
1 AAATCGAAATCGAAATCA
*
46669248 AAATCGAAATCGAAATCG
1 AAATCGAAATCGAAATCA
46669266 AAATCGAAATCGAAATCA
1 AAATCGAAATCGAAATCA
* *
46669284 AAATCAAAATCAAAATCA
1 AAATCGAAATCGAAATCA
* * **
46669302 AAATCAAAATCAAAATTG
1 AAATCGAAATCGAAATCA
*
46669320 AAATC-AAAGTCAAAATCA
1 AAATCGAAA-TCGAAATCA
* * **
46669338 AAATCAGTGAGT-G-TTTCA
1 AAATC-G-AAATCGAAATCA
* *
46669356 AAATTGAAATCAAAATCA
1 AAATCGAAATCGAAATCA
* *
46669374 AAATCGAAATCAAAATTA
1 AAATCGAAATCGAAATCA
*
46669392 GAATC-ATAATCGAAATCA
1 AAATCGA-AATCGAAATCA
* *
46669410 AAATTGAAATCGAAATCG
1 AAATCGAAATCGAAATCA
46669428 AAAT
1 AAAT
46669432 AACCCTAAAT
Statistics
Matches: 150, Mismatches: 26, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
16 2 0.01
17 5 0.03
18 140 0.93
19 1 0.01
20 1 0.01
21 1 0.01
ACGTcount: A:0.55, C:0.14, G:0.10, T:0.21
Consensus pattern (18 bp):
AAATCGAAATCGAAATCA
Found at i:46669457 original size:16 final size:17
Alignment explanation
Indices: 46669438--46669473 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
46669428 AAATAACCCT
46669438 AAATAACCCTAAATT-G
1 AAATAACCCTAAATTCG
46669454 AAATAACCCTAAATTCG
1 AAATAACCCTAAATTCG
46669471 AAA
1 AAA
46669474 AATAAAAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.53, C:0.19, G:0.06, T:0.22
Consensus pattern (17 bp):
AAATAACCCTAAATTCG
Found at i:46670887 original size:50 final size:50
Alignment explanation
Indices: 46670762--46671059 Score: 353
Period size: 50 Copynumber: 5.8 Consensus size: 50
46670752 ATTTGGGTAA
* * * *
46670762 AGAGATCCCATGTAAGACTATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-C--CGAG---ATG
46670818 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* * *
46670868 AGAGGTCTCATATAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
46670918 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* ** * * * * *
46670968 AAAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATAGGCACCTATATT
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** * * * *
46671018 AGAACTCTCATGTAAGACCATATCTGGGATATGGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
46671060 GTACAAGAAA
Statistics
Matches: 214, Mismatches: 28, Indels: 6
0.86 0.11 0.02
Matches are distributed among these distances:
50 171 0.80
53 3 0.01
55 1 0.00
56 39 0.18
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:46682124 original size:15 final size:15
Alignment explanation
Indices: 46682104--46682134 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
46682094 ATATTATGTA
46682104 TAATTGAGGTAAAAT
1 TAATTGAGGTAAAAT
46682119 TAATTGAGGTAAAAT
1 TAATTGAGGTAAAAT
46682134 T
1 T
46682135 TGAAGGTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.19, T:0.35
Consensus pattern (15 bp):
TAATTGAGGTAAAAT
Found at i:46699121 original size:17 final size:17
Alignment explanation
Indices: 46699099--46699134 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
46699089 AAGATAAAAA
46699099 CAATCTTAATACCAGAC
1 CAATCTTAATACCAGAC
46699116 CAATCTTAATACCAGAC
1 CAATCTTAATACCAGAC
46699133 CA
1 CA
46699135 CAAAAGCCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.31, G:0.06, T:0.22
Consensus pattern (17 bp):
CAATCTTAATACCAGAC
Found at i:46720253 original size:10 final size:11
Alignment explanation
Indices: 46720231--46720262 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
46720221 TGCTTATTGC
46720231 TTTTCATTCTT
1 TTTTCATTCTT
46720242 TTTTCATT-TT
1 TTTTCATTCTT
46720252 TTTTC-TTCTT
1 TTTTCATTCTT
46720262 T
1 T
46720263 AATCTACAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
9 2 0.10
10 10 0.50
11 8 0.40
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTTCATTCTT
Found at i:46720494 original size:11 final size:11
Alignment explanation
Indices: 46720478--46720510 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
46720468 AATACTTAAA
46720478 ATATTTTTCTT
1 ATATTTTTCTT
46720489 ATATTTTT-TT
1 ATATTTTTCTT
46720499 ATAATTTTTCTT
1 AT-ATTTTTCTT
46720511 TTTATCTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 4 0.20
11 14 0.70
12 2 0.10
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (11 bp):
ATATTTTTCTT
Found at i:46732057 original size:24 final size:24
Alignment explanation
Indices: 46732021--46732069 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
46732011 TCATACTTCT
* *
46732021 ATTTTTTTTTTATAAATTTATATG
1 ATTTATTTGTTATAAATTTATATG
* *
46732045 ATTTATTTGTTATAATTTTGTATG
1 ATTTATTTGTTATAAATTTATATG
46732069 A
1 A
46732070 ATTCTAATAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (24 bp):
ATTTATTTGTTATAAATTTATATG
Found at i:46738493 original size:11 final size:11
Alignment explanation
Indices: 46738477--46738556 Score: 112
Period size: 11 Copynumber: 7.5 Consensus size: 11
46738467 TGTAATTTTT
*
46738477 AAATTTTTATA
1 AAATTTTAATA
46738488 AAATTTTAAT-
1 AAATTTTAATA
*
46738498 AAATTTTTATA
1 AAATTTTAATA
46738509 AAATTTTAAT-
1 AAATTTTAATA
*
46738519 AAATTTTTATA
1 AAATTTTAATA
46738530 AAATTTTAAT-
1 AAATTTTAATA
46738540 AAATTTTAATA
1 AAATTTTAATA
46738551 AAATTT
1 AAATTT
46738557 AAAAACTTTT
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
10 28 0.46
11 33 0.54
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (11 bp):
AAATTTTAATA
Found at i:46738494 original size:10 final size:10
Alignment explanation
Indices: 46738470--46738556 Score: 97
Period size: 10 Copynumber: 8.5 Consensus size: 10
46738460 CTATTCTTGT
46738470 AATTTT-TAA
1 AATTTTATAA
*
46738479 ATTTTTATAA
1 AATTTTATAA
46738489 AATTTTAATAA
1 AATTTT-ATAA
*
46738500 ATTTTTATAA
1 AATTTTATAA
46738510 AATTTTAATAA
1 AATTTT-ATAA
*
46738521 ATTTTTATAA
1 AATTTTATAA
46738531 AATTTTA-ATA
1 AATTTTATA-A
46738541 AATTTTAATAA
1 AATTTT-ATAA
46738552 AATTT
1 AATTT
46738557 AAAAACTTTT
Statistics
Matches: 66, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
9 6 0.09
10 34 0.52
11 25 0.38
12 1 0.02
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
AATTTTATAA
Found at i:46738567 original size:21 final size:21
Alignment explanation
Indices: 46738476--46738556 Score: 153
Period size: 21 Copynumber: 3.9 Consensus size: 21
46738466 TTGTAATTTT
46738476 TAAATTTTTATAAAATTTTAA
1 TAAATTTTTATAAAATTTTAA
46738497 TAAATTTTTATAAAATTTTAA
1 TAAATTTTTATAAAATTTTAA
46738518 TAAATTTTTATAAAATTTTAA
1 TAAATTTTTATAAAATTTTAA
*
46738539 TAAATTTTAATAAAATTT
1 TAAATTTTTATAAAATTT
46738557 AAAAACTTTT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 59 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TAAATTTTTATAAAATTTTAA
Found at i:46739164 original size:42 final size:42
Alignment explanation
Indices: 46739090--46739402 Score: 337
Period size: 42 Copynumber: 7.4 Consensus size: 42
46739080 ACGTCGCTAA
* * *
46739090 CTTTTGCGGCGCTTACATAAAAAAACACCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTT--AGAAAAAAACGCCGCTAAAGATCATGTT
* * *
46739134 TTTTAGCAGCGCTTAGAAAAAAACGTCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
* *
46739176 CTTTAGCGGCGCTTAGAAAAAAACACCGCTAGAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
* * *
46739218 CTTTAGCAGCGCTTAGAAACAAACGCTGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
46739260 CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTA-GAAAAAAACGCCGCTAAAGATCATGTT
* ** * * *
46739303 CTTTAGCGGCGCTTTGGAGGAAAACACCTCTAAA-AGTAATGTT
1 CTTTAGCGGCGC-TTAGAAAAAAACGCCGCTAAAGA-TCATGTT
* **
46739346 CTATAGCGGCGCTT-GTTCAAAAACGCCGCTAAA-AGT-AGTGTT
1 CTTTAGCGGCGCTTAG-AAAAAAACGCCGCTAAAGA-TCA-TGTT
*
46739388 CTTTAGCGGTGCTTA
1 CTTTAGCGGCGCTTA
46739403 TTTCACAAAC
Statistics
Matches: 230, Mismatches: 33, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
41 2 0.01
42 147 0.64
43 68 0.30
44 13 0.06
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (42 bp):
CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
Found at i:46739858 original size:21 final size:21
Alignment explanation
Indices: 46739834--46739881 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
46739824 GCTTCTATTG
* *
46739834 CTGCTTCTCTCGCTGTAGCCT
1 CTGCTTCCCTCGCTGCAGCCT
* *
46739855 CTGCTTCCCTCGTTGCCGCCT
1 CTGCTTCCCTCGCTGCAGCCT
46739876 CTGCTT
1 CTGCTT
46739882 TAAGTTGCTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.02, C:0.42, G:0.19, T:0.38
Consensus pattern (21 bp):
CTGCTTCCCTCGCTGCAGCCT
Found at i:46745430 original size:9 final size:9
Alignment explanation
Indices: 46745416--46745666 Score: 167
Period size: 9 Copynumber: 29.8 Consensus size: 9
46745406 AACTTATTTA
46745416 TTATGTAAG
1 TTATGTAAG
46745425 TTATGTAAG
1 TTATGTAAG
*
46745434 TTGTGTAAG
1 TTATGTAAG
46745443 TTATGTAAG
1 TTATGTAAG
*
46745452 CTATGTAAG
1 TTATGTAAG
*
46745461 TTGTGT-A-
1 TTATGTAAG
* *
46745468 TTATGCAAC
1 TTATGTAAG
46745477 TTATGTAAG
1 TTATGTAAG
*
46745486 TTGTGT-A-
1 TTATGTAAG
46745493 TTATGTAAG
1 TTATGTAAG
*
46745502 TTATGTCAG
1 TTATGTAAG
*
46745511 TTGTGT-A-
1 TTATGTAAG
* *
46745518 TTATGAAAC
1 TTATGTAAG
46745527 TTATGTAAG
1 TTATGTAAG
*
46745536 TTATGT--C
1 TTATGTAAG
*
46745543 TTTTGTAAG
1 TTATGTAAG
* * *
46745552 TGACGTAAA
1 TTATGTAAG
*
46745561 ATATGT-A-
1 TTATGTAAG
46745568 TTATGTAAG
1 TTATGTAAG
*
46745577 TTATGTCAG
1 TTATGTAAG
*
46745586 TTGTGT-A-
1 TTATGTAAG
*
46745593 TTATGTAAA
1 TTATGTAAG
46745602 TTATGT-A-
1 TTATGTAAG
46745609 TTATGTAAG
1 TTATGTAAG
*
46745618 TTATGTAAT
1 TTATGTAAG
*
46745627 TTGTGT-A-
1 TTATGTAAG
*
46745634 TTATGTAAC
1 TTATGTAAG
* *
46745643 TTATTTAAT
1 TTATGTAAG
46745652 TTATGTAAG
1 TTATGTAAG
46745661 -TATGTA
1 TTATGTA
46745667 TTATTATGTA
Statistics
Matches: 188, Mismatches: 38, Indels: 33
0.73 0.15 0.13
Matches are distributed among these distances:
7 39 0.21
8 20 0.11
9 129 0.69
ACGTcount: A:0.30, C:0.04, G:0.20, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:46745481 original size:25 final size:25
Alignment explanation
Indices: 46745414--46745713 Score: 234
Period size: 25 Copynumber: 11.9 Consensus size: 25
46745404 ATAACTTATT
46745414 TATTATGTAAGTTATGTAAGTTGTG
1 TATTATGTAAGTTATGTAAGTTGTG
*
46745439 TAAGTTATGTAAGCTATGTAAGTTGTG
1 T-A-TTATGTAAGTTATGTAAGTTGTG
* *
46745466 TATTATGCAACTTATGTAAGTTGTG
1 TATTATGTAAGTTATGTAAGTTGTG
*
46745491 TATTATGTAAGTTATGTCAGTTGTG
1 TATTATGTAAGTTATGTAAGTTGTG
* * *
46745516 TATTATGAAACTTATGTAAGTTATG
1 TATTATGTAAGTTATGTAAGTTGTG
* * * * ** *
46745541 TCTTTTGTAAGTGACGTAAAATATG
1 TATTATGTAAGTTATGTAAGTTGTG
*
46745566 TATTATGTAAGTTATGTCAGTTGTG
1 TATTATGTAAGTTATGTAAGTTGTG
* *
46745591 TATTATGTAAATTATGT-A-TTATG
1 TATTATGTAAGTTATGTAAGTTGTG
* * *
46745614 TAAGTTATGTAATTTGTGT-A-TTATG
1 T-A-TTATGTAAGTTATGTAAGTTGTG
* * *
46745639 TAACTTATTTAATTTATGTAAGTATGTAT
1 T-A-TTATGTAAGTTATGTAAGT-TGT-G
* * *
46745668 TATTATGTAATTTAT-TATGTAG-G
1 TATTATGTAAGTTATGTAAGTTGTG
*
46745691 ATATTATCTAAGTTATGTAAGTT
1 -TATTATGTAAGTTATGTAAGTT
46745714 TTTTTTTTTG
Statistics
Matches: 221, Mismatches: 44, Indels: 20
0.78 0.15 0.07
Matches are distributed among these distances:
23 5 0.02
24 15 0.07
25 154 0.70
26 7 0.03
27 36 0.16
28 3 0.01
29 1 0.00
ACGTcount: A:0.30, C:0.03, G:0.19, T:0.47
Consensus pattern (25 bp):
TATTATGTAAGTTATGTAAGTTGTG
Found at i:46745506 original size:34 final size:36
Alignment explanation
Indices: 46745417--46745506 Score: 98
Period size: 34 Copynumber: 2.6 Consensus size: 36
46745407 ACTTATTTAT
* * *
46745417 TATGTAAGTTATGTAAGTTGTGTAAGTTATGTAAGC
1 TATGTAAGTTATGTAAGTTATGCAACTTATGTAAGC
* *
46745453 TATGTAAGTTGTGT-A-TTATGCAACTTATGTAAGT
1 TATGTAAGTTATGTAAGTTATGCAACTTATGTAAGC
*
46745487 TGTGT-A-TTATGTAAGTTATG
1 TATGTAAGTTATGTAAGTTATG
46745507 TCAGTTGTGT
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
32 5 0.11
33 2 0.04
34 24 0.53
35 1 0.02
36 13 0.29
ACGTcount: A:0.29, C:0.03, G:0.23, T:0.44
Consensus pattern (36 bp):
TATGTAAGTTATGTAAGTTATGCAACTTATGTAAGC
Found at i:46745522 original size:41 final size:41
Alignment explanation
Indices: 46745477--46745665 Score: 173
Period size: 41 Copynumber: 4.8 Consensus size: 41
46745467 ATTATGCAAC
* *
46745477 TTATGTAAGTTGTGTATTATGTAAGTTATGTCAGTTGTGTA
1 TTATGTAAATTATGTATTATGTAAGTTATGTCAGTTGTGTA
* *
46745518 TTATG--AA--A---CTTATGTAAGTTATGTC--TTTTGTAA
1 TTATGTAAATTATGTATTATGTAAGTTATGTCAGTTGTGT-A
* * *
46745551 GTGACGTAAAATATGTATTATGTAAGTTATGTCAGTTGTGTA
1 -TTATGTAAATTATGTATTATGTAAGTTATGTCAGTTGTGTA
* *
46745593 TTATGTAAATTATGTATTATGTAAGTTATGTAATTTGTGTA
1 TTATGTAAATTATGTATTATGTAAGTTATGTCAGTTGTGTA
* *
46745634 TTATGTAACTTATTTAATTTATGTAAG-TATGT
1 TTATGTAAATTATGT-A-TTATGTAAGTTATGT
46745666 ATTATTATGT
Statistics
Matches: 120, Mismatches: 15, Indels: 25
0.75 0.09 0.16
Matches are distributed among these distances:
32 5 0.04
33 1 0.01
34 19 0.16
36 2 0.02
38 1 0.01
39 1 0.01
41 70 0.58
42 7 0.06
43 14 0.12
ACGTcount: A:0.30, C:0.03, G:0.19, T:0.48
Consensus pattern (41 bp):
TTATGTAAATTATGTATTATGTAAGTTATGTCAGTTGTGTA
Found at i:46745581 original size:16 final size:16
Alignment explanation
Indices: 46745577--46745624 Score: 69
Period size: 16 Copynumber: 3.0 Consensus size: 16
46745567 ATTATGTAAG
* *
46745577 TTATGTCAGTTGTGTA
1 TTATGTAAGTTATGTA
*
46745593 TTATGTAAATTATGTA
1 TTATGTAAGTTATGTA
46745609 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
46745625 ATTTGTGTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.29, C:0.02, G:0.19, T:0.50
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:46745999 original size:51 final size:50
Alignment explanation
Indices: 46745939--46746078 Score: 131
Period size: 43 Copynumber: 2.9 Consensus size: 50
46745929 TTAAAACAAT
46745939 ATTT-ATAATACTAATATAGATATTAAAACAATATTTATAATTATTTATAA
1 ATTTAATAA-ACTAATATAGATATTAAAACAATATTTATAATTATTTATAA
* * *
46745989 ATTTAAT-AA-TAATA-A-AT-TTAATACTAATA--TA-AA-AACCTTATAA
1 ATTTAATAAACTAATATAGATATTAAAAC-AATATTTATAATTA-TTTATAA
*
46746032 ATTTAGA-AAACTTATATAGATATTAAAACAATATTTATAATTATTTA
1 ATTTA-ATAAACTAATATAGATATTAAAACAATATTTATAATTATTTA
46746079 GAAAATGTTA
Statistics
Matches: 70, Mismatches: 7, Indels: 26
0.68 0.07 0.25
Matches are distributed among these distances:
42 1 0.01
43 13 0.19
44 5 0.07
45 10 0.14
46 7 0.10
47 7 0.10
48 11 0.16
49 3 0.04
50 10 0.14
51 3 0.04
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.41
Consensus pattern (50 bp):
ATTTAATAAACTAATATAGATATTAAAACAATATTTATAATTATTTATAA
Found at i:46746005 original size:15 final size:15
Alignment explanation
Indices: 46745985--46746017 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
46745975 ATAATTATTT
46745985 ATAAATTTAATAATA
1 ATAAATTTAATAATA
*
46746000 ATAAATTTAATACTA
1 ATAAATTTAATAATA
46746015 ATA
1 ATA
46746018 TAAAAACCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (15 bp):
ATAAATTTAATAATA
Found at i:46747260 original size:40 final size:40
Alignment explanation
Indices: 46747194--46747273 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
46747184 TGGGGATTTA
* * *
46747194 GGGAAATTAAATCGGGGAAACTGGGGGAATAGGAATTGGG
1 GGGAAATGAAATCGGGGAAACTGGGGGAATACGAAATGGG
*
46747234 GGGAAATGAAATCGGGG-AATTGGGGGGAATACGAAATGGG
1 GGGAAATGAAATCGGGGAAACT-GGGGGAATACGAAATGGG
46747274 AAATTAGGGA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.09
40 32 0.91
ACGTcount: A:0.35, C:0.05, G:0.44, T:0.16
Consensus pattern (40 bp):
GGGAAATGAAATCGGGGAAACTGGGGGAATACGAAATGGG
Found at i:46747278 original size:24 final size:24
Alignment explanation
Indices: 46747227--46747278 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
46747217 GGGGAATAGG
* *
46747227 AATTGGGGGGAAATGAAATCGGGG
1 AATTGGGGGGAAACGAAATCGGGA
46747251 AATTGGGGGGAATACGAAAT-GGGA
1 AATTGGGGGGAA-ACGAAATCGGGA
46747275 AATT
1 AATT
46747279 AGGGAATGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 19 0.76
25 6 0.24
ACGTcount: A:0.37, C:0.04, G:0.40, T:0.19
Consensus pattern (24 bp):
AATTGGGGGGAAACGAAATCGGGA
Found at i:46747481 original size:22 final size:22
Alignment explanation
Indices: 46747447--46747499 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
46747437 ATAGGCCCCT
46747447 AACTTT-AACCCGTAACCTTTA
1 AACTTTAAACCCGTAACCTTTA
46747468 AACTTTAAACCCGTAACCTTTA
1 AACTTTAAACCCGTAACCTTTA
46747490 AACTTTAAAC
1 AACTTTAAAC
46747500 TCTTAAACCC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 6 0.19
22 25 0.81
ACGTcount: A:0.38, C:0.26, G:0.04, T:0.32
Consensus pattern (22 bp):
AACTTTAAACCCGTAACCTTTA
Found at i:46747505 original size:15 final size:14
Alignment explanation
Indices: 46747460--46747536 Score: 55
Period size: 15 Copynumber: 5.3 Consensus size: 14
46747450 TTTAACCCGT
46747460 AACCTTTAAACTTTA
1 AACC-TTAAACTTTA
* *
46747475 AACCCGTAACCTTTA
1 AA-CCTTAAACTTTA
*
46747490 AACTTTAAACTCTTA
1 AACCTTAAACT-TTA
* **
46747505 AACCCTAAACTACA
1 AACCTTAAACTTTA
* *
46747519 AACCTTACACTCTA
1 AACCTTAAACTTTA
46747533 AACC
1 AACC
46747537 CGTAACCTTA
Statistics
Matches: 47, Mismatches: 13, Indels: 5
0.72 0.20 0.08
Matches are distributed among these distances:
14 21 0.45
15 24 0.51
16 2 0.04
ACGTcount: A:0.40, C:0.30, G:0.01, T:0.29
Consensus pattern (14 bp):
AACCTTAAACTTTA
Found at i:46747521 original size:29 final size:30
Alignment explanation
Indices: 46747463--46747541 Score: 92
Period size: 29 Copynumber: 2.7 Consensus size: 30
46747453 AACCCGTAAC
* **
46747463 CTTTAAACT-TTAAACCCGTAACCTTTAAA
1 CTTTAAACTCTTAAACCCGTAAACTACAAA
46747492 CTTTAAACTCTTAAACCC-TAAACTACAAA
1 CTTTAAACTCTTAAACCCGTAAACTACAAA
* *
46747521 CCTTACACTC-TAAACCCGTAA
1 CTTTAAACTCTTAAACCCGTAA
46747542 CCTTACACTC
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
28 7 0.16
29 28 0.65
30 8 0.19
ACGTcount: A:0.39, C:0.29, G:0.03, T:0.29
Consensus pattern (30 bp):
CTTTAAACTCTTAAACCCGTAAACTACAAA
Found at i:46748564 original size:266 final size:266
Alignment explanation
Indices: 46748083--46748889 Score: 1337
Period size: 266 Copynumber: 3.1 Consensus size: 266
46748073 GTATTTTGCT
* *
46748083 TTTTTGTGGCGTTTTAACGTCAGCACCACTAATTGAAGTATACATCGAGACCAAAACGGTGCGTT
1 TTTTTGCGGCGTTTTAACGTCAGCGCCACTAATTGAAGTATACATCGAGACCAAAACGGTGCGTT
* *
46748148 TTGGTTCAGATATTTTACGGCATTTTCATATAAGCGCCACTAAATGTAACATAGCTTAAGACAAA
66 TTGGTTCAGATATTTTGCGGCGTTTTCATATAAGCGCCACTAAATGTAACATAGCTTAAGACAAA
*
46748213 ACACTGCGTTTTGTTAAGATACGTTGCGGCGCTTGACCCAAAGCGCCGCTAAATCTATTCTTTAA
131 ACACTGCGTTTTGTTAAGATACTTTGCGGCGCTTGACCCAAAGCGCCGCTAAATCTATTCTTTAA
*
46748278 CGGCATTTTCTAGTAAGCGCCACTAATATAAGTATACATCAAAATTAAAACTACGCGTTTTAGTT
196 CGGCGTTTTCTAGTAAGCGCCACTAATATAAGTATACATCAAAATTAAAACTACGCGTTTTAGTT
46748343 AAGATA
261 AAGATA
* *
46748349 TTTTTGCGGCGTTTCAACGTCAGCGCCACTAATTGAAGTATACATCGAGACCAAAACGGTGTGTT
1 TTTTTGCGGCGTTTTAACGTCAGCGCCACTAATTGAAGTATACATCGAGACCAAAACGGTGCGTT
46748414 TTGGTTCAGATATTTTGCGGCGTTTTCATATAAGCGCCACTAAATGTAACATAGCTTAAGACAAA
66 TTGGTTCAGATATTTTGCGGCGTTTTCATATAAGCGCCACTAAATGTAACATAGCTTAAGACAAA
46748479 ACACTGCGTTTTGTTAAGATACTTTGCGGCGCTTGACCCAAAGCGCCGCTAAATCTATTCTTTAA
131 ACACTGCGTTTTGTTAAGATACTTTGCGGCGCTTGACCCAAAGCGCCGCTAAATCTATTCTTTAA
46748544 CGGCGTTTTCTAGTAAGCGCCAC-----TAA-TATA-ATCAAAATTAAAACTACGCGTTTTAGTT
196 CGGCGTTTTCTAGTAAGCGCCACTAATATAAGTATACATCAAAATTAAAACTACGCGTTTTAGTT
46748602 AAGATA
261 AAGATA
* *
46748608 TTTTTGCGGCGTTTTAACGTCAGCGCCACTAATTAAAGTATACATCAAGACCAAAACGGTGCGTT
1 TTTTTGCGGCGTTTTAACGTCAGCGCCACTAATTGAAGTATACATCGAGACCAAAACGGTGCGTT
* * *
46748673 TTGGTTCAGATTTTTTGCGGCGTTTTCCTATAAGCGCCACTAAATGTAACATAGCTTAAGACCAA
66 TTGGTTCAGATATTTTGCGGCGTTTTCATATAAGCGCCACTAAATGTAACATAGCTTAAGACAAA
* * * **
46748738 ACACTGCGTTTTGTTAAGATA-TGTTGCGGCGCTTTGGCTC-AATCGCCGCTAAAGATATTCTTT
131 ACACTGCGTTTTGTTAAGATACT-TTGCGGCGC-TTGACCCAAAGCGCCGCTAAATCTATTCTTT
*
46748801 AACGGCGTTTTCTAGTAAGTGCCACTAATATAAGTATACATCAAAATTAAAACTACGCGTTTTAG
194 AACGGCGTTTTCTAGTAAGCGCCACTAATATAAGTATACATCAAAATTAAAACTACGCGTTTTAG
*
46748866 TAAAGATA
259 TTAAGATA
*
46748874 -TTTTGCGGCGCTTTAA
1 TTTTTGCGGCGTTTTAA
46748890 ACGAAATGCC
Statistics
Matches: 509, Mismatches: 23, Indels: 19
0.92 0.04 0.03
Matches are distributed among these distances:
258 1 0.00
259 231 0.45
260 9 0.02
261 3 0.01
264 3 0.01
265 19 0.04
266 243 0.48
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.32
Consensus pattern (266 bp):
TTTTTGCGGCGTTTTAACGTCAGCGCCACTAATTGAAGTATACATCGAGACCAAAACGGTGCGTT
TTGGTTCAGATATTTTGCGGCGTTTTCATATAAGCGCCACTAAATGTAACATAGCTTAAGACAAA
ACACTGCGTTTTGTTAAGATACTTTGCGGCGCTTGACCCAAAGCGCCGCTAAATCTATTCTTTAA
CGGCGTTTTCTAGTAAGCGCCACTAATATAAGTATACATCAAAATTAAAACTACGCGTTTTAGTT
AAGATA
Found at i:46749013 original size:116 final size:113
Alignment explanation
Indices: 46748857--46749097 Score: 261
Period size: 113 Copynumber: 2.1 Consensus size: 113
46748847 TTAAAACTAC
* * * * *
46748857 GCGTTTTAGTAAAGATATTTTGCGGCGCTTTAAACGAAATGCCGCTAATACGGTGCTTTAGCAGC
1 GCGTTTTGGTTAAGATATTTTGCGGCGCTATAAACGAAATGCCGCT-A-A-GATACTTTAGCAGC
46748922 GCATATCAAAAAGCGCCACTAAATCTAGGATACATCAACACCAAAAACGAT
63 GCATATCAAAAAGCGCCACTAAATCTAGGATACATCAACACCAAAAACGAT
* *
46748973 GCGTTTTGGTTAAGATATTTTGCGGCGC-AT-ATCGCAAAATGCCGCTAAGATACTTTAGCGGCG
1 GCGTTTTGGTTAAGATATTTTGCGGCGCTATAAACG--AAATGCCGCTAAGATACTTTAGCAGCG
** * **** * **
46749036 TTTTTTTCGAAGCGCCACTAATTCTAGGATACATCAACACTGAAAACGAT
64 CATATCAAAAAGCGCCACTAAATCTAGGATACATCAACACCAAAAACGAT
*
46749086 GCATTTTGGTTA
1 GCGTTTTGGTTA
46749098 GGAGAAATTA
Statistics
Matches: 105, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
113 63 0.60
114 4 0.04
115 2 0.02
116 36 0.34
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.28
Consensus pattern (113 bp):
GCGTTTTGGTTAAGATATTTTGCGGCGCTATAAACGAAATGCCGCTAAGATACTTTAGCAGCGCA
TATCAAAAAGCGCCACTAAATCTAGGATACATCAACACCAAAAACGAT
Found at i:46749182 original size:114 final size:113
Alignment explanation
Indices: 46748932--46749246 Score: 375
Period size: 113 Copynumber: 2.8 Consensus size: 113
46748922 GCATATCAAA
* * * *
46748932 AAGCGCCACTAAATCTAGGATACATCAACACCAAAAACGATGCGTTTTGGTTAAGATATTTTGCG
1 AAGCGCCACTAATTCTAGGATACATCAACA-CGAAAACGATGCGTTTTGGTTAGGAGATTTTGCG
* * * * * *
46748997 GCGC-ATATCGCAAAATGCCGCTAAGATACTTTAGCGGCGTTTTTTTCG
65 GCGCGTTGTTGTAAAACGCCGCTAAGACACTTTAGCGGCGTTTTTTTCG
* ** *
46749045 AAGCGCCACTAATTCTAGGATACATCAACACTGAAAACGATGCATTTTGGTTAGGAGAAATTACG
1 AAGCGCCACTAATTCTAGGATACATCAACAC-GAAAACGATGCGTTTTGGTTAGGAGATTTTGCG
46749110 GCGCGTTGTTGTAAAACGCCGCTAAGACACTTTAGCGGCGTGTTTTTT-G
65 GCGCGTTGTTGTAAAACGCCGCTAAGACACTTTAGCGGCGT-TTTTTTCG
* * * * * * * *
46749159 AGGCGCCACTAATTCTTGCATACATAAAGACGAAAACGTTGCGTTTTGGATAGGAGATTTTGTGG
1 AAGCGCCACTAATTCTAGGATACATCAACACGAAAACGATGCGTTTTGGTTAGGAGATTTTGCGG
*
46749224 CGCGTGGTTGT-AAACGCCGCTAA
66 CGCGTTGTTGTAAAACGCCGCTAA
46749247 TGATATTCTT
Statistics
Matches: 172, Mismatches: 27, Indels: 7
0.83 0.13 0.03
Matches are distributed among these distances:
112 13 0.08
113 96 0.56
114 57 0.33
115 6 0.03
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (113 bp):
AAGCGCCACTAATTCTAGGATACATCAACACGAAAACGATGCGTTTTGGTTAGGAGATTTTGCGG
CGCGTTGTTGTAAAACGCCGCTAAGACACTTTAGCGGCGTTTTTTTCG
Found at i:46749599 original size:11 final size:12
Alignment explanation
Indices: 46749583--46749615 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
46749573 AGACCCAAGA
46749583 TGAATTAATTT-
1 TGAATTAATTTG
*
46749594 TGAATTCATTTG
1 TGAATTAATTTG
46749606 TGAATTAATT
1 TGAATTAATT
46749616 CACTTGTGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.33, C:0.03, G:0.12, T:0.52
Consensus pattern (12 bp):
TGAATTAATTTG
Found at i:46750868 original size:30 final size:30
Alignment explanation
Indices: 46750799--46750871 Score: 85
Period size: 32 Copynumber: 2.4 Consensus size: 30
46750789 AAATAACAAA
*
46750799 CATTTTTATATATATTTTTATATTTTTCAT
1 CATTTTAATATATATTTTTATATTTTTCAT
* *
46750829 AACTATTTAATATATATTTTTA-ATTTTTTTAT
1 CA-T-TTTAATATATATTTTTATA-TTTTTCAT
46750861 CATTTTAATAT
1 CATTTTAATAT
46750872 TTTTATATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
30 9 0.25
31 3 0.08
32 24 0.67
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (30 bp):
CATTTTAATATATATTTTTATATTTTTCAT
Found at i:46758102 original size:21 final size:21
Alignment explanation
Indices: 46758052--46758107 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
46758042 ATAATTCTTT
46758052 CATTTTTTTATAATATATTAA
1 CATTTTTTTATAATATATTAA
* *
46758073 CAATATTTTATAATAT-TTAA
1 CATTTTTTTATAATATATTAA
*
46758093 TACTTTTTTTATAAT
1 CA-TTTTTTTATAAT
46758108 TCTAAGTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 5 0.17
21 24 0.83
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (21 bp):
CATTTTTTTATAATATATTAA
Found at i:46758181 original size:20 final size:20
Alignment explanation
Indices: 46758147--46758184 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
46758137 TTTATAATGG
46758147 TTTTCGTAATATTAATAACA
1 TTTTCGTAATATTAATAACA
46758167 TTTT-GTAATATTTAATAA
1 TTTTCGTAATA-TTAATAA
46758185 TTTTAGCGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.50
Consensus pattern (20 bp):
TTTTCGTAATATTAATAACA
Found at i:46758851 original size:62 final size:60
Alignment explanation
Indices: 46758727--46758856 Score: 154
Period size: 61 Copynumber: 2.1 Consensus size: 60
46758717 TTATCTTAAA
* * ** * *
46758727 TCTAAAAAATTCAACAAATTTAACCCTCAATGTTTACAAAATTCGTCATTTTAGTTCTAAT
1 TCTAAAAAAATCAACAAATTTAACCCTAAACATTTACAAAATTCG-CAATTTAGTTCAAAT
*
46758788 TCTAAAAAAATCAATAAATTTAACCCTAAACATTTACAAAAAATTAC-CAATTTAGTTCAAAT
1 TCTAAAAAAATCAACAAATTTAACCCTAAACATTTAC--AAAATT-CGCAATTTAGTTCAAAT
46758850 TCTAAAA
1 TCTAAAA
46758857 GTTTAAAAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
61 32 0.54
62 20 0.34
63 6 0.10
64 1 0.02
ACGTcount: A:0.46, C:0.17, G:0.03, T:0.34
Consensus pattern (60 bp):
TCTAAAAAAATCAACAAATTTAACCCTAAACATTTACAAAATTCGCAATTTAGTTCAAAT
Found at i:46759112 original size:11 final size:10
Alignment explanation
Indices: 46759096--46759133 Score: 51
Period size: 9 Copynumber: 3.8 Consensus size: 10
46759086 AAATATAAAA
46759096 ATAAAAATCT
1 ATAAAAATCT
46759106 ATAAAAAT-T
1 ATAAAAATCT
46759115 ATAAAAATCGT
1 ATAAAAATC-T
*
46759126 AAAAAAAT
1 ATAAAAAT
46759134 ATAAAGTGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
9 9 0.36
10 8 0.32
11 8 0.32
ACGTcount: A:0.66, C:0.05, G:0.03, T:0.26
Consensus pattern (10 bp):
ATAAAAATCT
Found at i:46759120 original size:19 final size:19
Alignment explanation
Indices: 46759092--46759138 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
46759082 AAAAAAATAT
46759092 AAAA-ATAAAAATC-TATAA
1 AAAATATAAAAATCGTA-AA
*
46759110 AAATTATAAAAATCGTAAA
1 AAAATATAAAAATCGTAAA
46759129 AAAATATAAA
1 AAAATATAAA
46759139 GTGTATCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 3 0.12
19 20 0.80
20 2 0.08
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.23
Consensus pattern (19 bp):
AAAATATAAAAATCGTAAA
Found at i:46759446 original size:26 final size:26
Alignment explanation
Indices: 46759423--46759473 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
46759413 TTCTTTTATG
46759423 ATTTTT-TATTTTTAATAAAATTTAA
1 ATTTTTATATTTTTAATAAAATTTAA
*
46759448 ATTTTTATATTTTTATTAAAATTTAA
1 ATTTTTATATTTTTAATAAAATTTAA
46759474 TACTTTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (26 bp):
ATTTTTATATTTTTAATAAAATTTAA
Found at i:46759466 original size:19 final size:19
Alignment explanation
Indices: 46759444--46759501 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
46759434 TTAATAAAAT
46759444 TTAAATTTTTATATTTTTA
1 TTAAATTTTTATATTTTTA
* *
46759463 TTAAAATTTAATACTTTTT-
1 TTAAATTTTTATA-TTTTTA
46759482 TTATAATTTTTAT-TTTTTA
1 TTA-AATTTTTATATTTTTA
46759501 T
1 T
46759502 CATTTTTGTC
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
18 5 0.16
19 15 0.47
20 12 0.38
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (19 bp):
TTAAATTTTTATATTTTTA
Found at i:46759499 original size:16 final size:16
Alignment explanation
Indices: 46759478--46759508 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
46759468 ATTTAATACT
46759478 TTTTTTATAATTTTTA
1 TTTTTTATAATTTTTA
*
46759494 TTTTTTATCATTTTT
1 TTTTTTATAATTTTT
46759509 GTCACATGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTTTATAATTTTTA
Found at i:46770251 original size:20 final size:20
Alignment explanation
Indices: 46770202--46770257 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 20
46770192 ATTAATTAAT
*
46770202 AATATTATAAAATAAAA-AAA
1 AATATTA-AAATTAAAATAAA
* *
46770222 CATA-TCAAATTAAAATAAA
1 AATATTAAAATTAAAATAAA
*
46770241 AATATTAAAATTCAAAT
1 AATATTAAAATTAAAAT
46770258 TTAATCATAA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
18 8 0.29
19 7 0.25
20 13 0.46
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (20 bp):
AATATTAAAATTAAAATAAA
Found at i:46776410 original size:17 final size:19
Alignment explanation
Indices: 46776388--46776424 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
46776378 CTTATTTGTT
46776388 TTATTATATT-T-TATTTA
1 TTATTATATTATATATTTA
46776405 TTATTATATTATATATTTA
1 TTATTATATTATATATTTA
46776424 T
1 T
46776425 ATATATACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 10 0.56
18 1 0.06
19 7 0.39
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TTATTATATTATATATTTA
Found at i:46777431 original size:46 final size:46
Alignment explanation
Indices: 46777378--46777465 Score: 108
Period size: 46 Copynumber: 1.9 Consensus size: 46
46777368 AAAAGTGTAG
*
46777378 TGTGGGCCGT-AGCCCATTACAGT-ATCAGAATCAAAAATAGAATACA
1 TGTGGGCC-TAAGCCCAATACAGTGA-CAGAATCAAAAATAGAATACA
* **
46777424 TGTGGGCCTAAGCCTAATACAGTGACAGAATCAGTAATAGAA
1 TGTGGGCCTAAGCCCAATACAGTGACAGAATCAAAAATAGAA
46777466 ATGCAACAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
45 1 0.03
46 34 0.94
47 1 0.03
ACGTcount: A:0.39, C:0.18, G:0.22, T:0.22
Consensus pattern (46 bp):
TGTGGGCCTAAGCCCAATACAGTGACAGAATCAAAAATAGAATACA
Found at i:46777684 original size:22 final size:21
Alignment explanation
Indices: 46777625--46777689 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 21
46777615 TGCCAGTAAC
* *
46777625 CAGAATGACTAAGAGCTGTAAA
1 CAGAATAACTAA-AGCTATAAA
* *
46777647 CAGGATAGCTATAAGCTATAAA
1 CAGAATAACTA-AAGCTATAAA
*
46777669 CAGAATAACTACAAGCCATAA
1 CAGAATAACTA-AAGCTATAA
46777690 GTATAGTAAT
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
22 33 0.97
23 1 0.03
ACGTcount: A:0.48, C:0.17, G:0.17, T:0.18
Consensus pattern (21 bp):
CAGAATAACTAAAGCTATAAA
Found at i:46777825 original size:26 final size:26
Alignment explanation
Indices: 46777790--46777843 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
46777780 CATTAGTAGC
* * *
46777790 ATTACCGCAAAGCTGCTAGCAATAGT
1 ATTACAGCAAAGCTACCAGCAATAGT
*
46777816 ATTACAGCAAAGCTACCAGTAATAGT
1 ATTACAGCAAAGCTACCAGCAATAGT
46777842 AT
1 AT
46777844 ATGTGGCCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (26 bp):
ATTACAGCAAAGCTACCAGCAATAGT
Found at i:46777986 original size:24 final size:24
Alignment explanation
Indices: 46777959--46778040 Score: 101
Period size: 24 Copynumber: 3.4 Consensus size: 24
46777949 CCATGCTCAG
*
46777959 AATCAGTAATACAAATCACAGACA
1 AATCAGTCATACAAATCACAGACA
* *
46777983 AATCAATCATACCAATCACAGACA
1 AATCAGTCATACAAATCACAGACA
* ** *
46778007 AATTAGTCATTTAAATCACAAACA
1 AATCAGTCATACAAATCACAGACA
46778031 AATCAGTCAT
1 AATCAGTCAT
46778041 TTACATCATG
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.50, C:0.22, G:0.06, T:0.22
Consensus pattern (24 bp):
AATCAGTCATACAAATCACAGACA
Found at i:46778041 original size:24 final size:24
Alignment explanation
Indices: 46777971--46778069 Score: 108
Period size: 24 Copynumber: 4.1 Consensus size: 24
46777961 TCAGTAATAC
**
46777971 AAATCACAGACAAATCAATCATAC
1 AAATCACAGACAAATCAATCATTT
* * *
46777995 CAATCACAGACAAATTAGTCATTT
1 AAATCACAGACAAATCAATCATTT
* *
46778019 AAATCACAAACAAATCAGTCATTT
1 AAATCACAGACAAATCAATCATTT
* **
46778043 ACATCATGGACAAATCAATCATTT
1 AAATCACAGACAAATCAATCATTT
46778067 AAA
1 AAA
46778070 CTCGAGGGGT
Statistics
Matches: 61, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 61 1.00
ACGTcount: A:0.48, C:0.21, G:0.06, T:0.24
Consensus pattern (24 bp):
AAATCACAGACAAATCAATCATTT
Found at i:46778130 original size:27 final size:27
Alignment explanation
Indices: 46778100--46778338 Score: 146
Period size: 27 Copynumber: 8.8 Consensus size: 27
46778090 TTTACCCTCT
*
46778100 AGGGGCATTACGATCATTTTACCTTAC
1 AGGGGTATTACGATCATTTTACCTTAC
* ** *
46778127 AGGGGTATTTCGGCCATTTAATCCTATA-
1 AGGGGTATTACGATCATTTTA-CCT-TAC
* *
46778155 A-GGGTATTACGATTATTTTACCCTAC
1 AGGGGTATTACGATCATTTTACCTTAC
* * * *
46778181 AAGGGCATTACGGTCATTTTACCTTATG
1 AGGGGTATTACGATCATTTTACCTTA-C
* * *
46778209 AGGGGTTTTTCGGTCATTTTACAC-TAC
1 AGGGGTATTACGATCATTTTAC-CTTAC
* ** * *
46778236 AGAGGTATTACGATTGTTTTATCTTAT
1 AGGGGTATTACGATCATTTTACCTTAC
* **
46778263 TGGGACATTAC-AGTCATTTTATCC-TAC
1 AGGGGTATTACGA-TCATTTTA-CCTTAC
* * *
46778290 GGGGGCATTACGATCATTTTACCCTAC
1 AGGGGTATTACGATCATTTTACCTTAC
* *
46778317 AAGGGTATTACAATCATTTTAC
1 AGGGGTATTACGATCATTTTAC
46778339 AAATATTGGG
Statistics
Matches: 158, Mismatches: 43, Indels: 22
0.71 0.19 0.10
Matches are distributed among these distances:
25 2 0.01
26 7 0.04
27 120 0.76
28 26 0.16
29 3 0.02
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (27 bp):
AGGGGTATTACGATCATTTTACCTTAC
Found at i:46778256 original size:82 final size:81
Alignment explanation
Indices: 46778102--46778256 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 81
46778092 TACCCTCTAG
*
46778102 GGGCATTACGATCATTTTACCTTACAGGGGTATTTCGGCCATTTAATCCTATAAGGGTATTACGA
1 GGGCATTACGATCATTTTACCTTACAGGGGTATTTCGGCCATTTAATCCTACAAGGGTATTACGA
46778167 TTATTTTACCCTACAA
66 TTATTTTACCCTACAA
* * * * *
46778183 GGGCATTACGGTCATTTTACCTTATGAGGGGTTTTTCGGTCATTTTA-CACTAC-AGAGGTATTA
1 GGGCATTACGATCATTTTACCTTA-CAGGGGTATTTCGGCCATTTAATC-CTACAAG-GGTATTA
*
46778246 CGATTGTTTTA
63 CGATTATTTTA
46778257 TCTTATTGGG
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
81 26 0.41
82 38 0.59
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (81 bp):
GGGCATTACGATCATTTTACCTTACAGGGGTATTTCGGCCATTTAATCCTACAAGGGTATTACGA
TTATTTTACCCTACAA
Found at i:46778272 original size:82 final size:81
Alignment explanation
Indices: 46778102--46778338 Score: 212
Period size: 81 Copynumber: 2.9 Consensus size: 81
46778092 TACCCTCTAG
* *
46778102 GGGCATTACGATCATTTTACCTTACAGGGGTATTTCGGCCATTTAATCCTATAAGGGTATTACGA
1 GGGCATTACGGTCATTTTACCTTACAGGGGTATTTCGGCCATTTAATCCTACAAGGGTATTACGA
46778167 TTATTTTACCCTACAA
66 TTATTTTACCCTACAA
* * * *
46778183 GGGCATTACGGTCATTTTACCTTATGAGGGGTTTTTCGGTCATTTTA-CACTAC-AGAGGTATTA
1 GGGCATTACGGTCATTTTACCTTA-CAGGGGTATTTCGGCCATTTAATC-CTACAAG-GGTATTA
* * * **
46778246 CGATTGTTTTATCTTA-TT
63 CGATTATTTTACCCTACAA
* * * * ** * *
46778264 GGGACATTACAGTCATTTTATCC-TACGGGGGCATTACGATCATTTTACCCTACAAGGGTATTAC
1 GGG-CATTACGGTCATTTTA-CCTTACAGGGGTATTTCGGCCATTTAATCCTACAAGGGTATTAC
* *
46778328 AATCATTTTAC
64 GATTATTTTAC
46778339 AAATATTGGG
Statistics
Matches: 127, Mismatches: 22, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
81 64 0.50
82 61 0.48
83 2 0.02
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.38
Consensus pattern (81 bp):
GGGCATTACGGTCATTTTACCTTACAGGGGTATTTCGGCCATTTAATCCTACAAGGGTATTACGA
TTATTTTACCCTACAA
Found at i:46779257 original size:25 final size:25
Alignment explanation
Indices: 46779223--46779272 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
46779213 AATAAAGTGG
46779223 TTGTAACACCCCCTTACCAAAAAAA
1 TTGTAACACCCCCTTACCAAAAAAA
46779248 TTGTAACACCCCCTTACCAAAAAAA
1 TTGTAACACCCCCTTACCAAAAAAA
46779273 CAAACGTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.32, G:0.04, T:0.20
Consensus pattern (25 bp):
TTGTAACACCCCCTTACCAAAAAAA
Found at i:46782674 original size:41 final size:40
Alignment explanation
Indices: 46782550--46782729 Score: 179
Period size: 40 Copynumber: 4.5 Consensus size: 40
46782540 ACACACCAGT
* * * * *
46782550 TTGGCACCTAGTGCCTTATCGGA-TAATTCGAAGTAATAAA
1 TTGGCACCCAGTGCCTCATCGAATTAA-TCCAAGTAGTAAA
* * ** * *
46782590 TTGACACCCAGTGTCTCATC-AGCTAAACC--GAAGTAAA
1 TTGGCACCCAGTGCCTCATCGAATTAATCCAAGTAGTAAA
*
46782627 TTGGCACCCAGCGCCTCATCGAATTAATCCGAAGTAGTAAA
1 TTGGCACCCAGTGCCTCATCGAATTAATCC-AAGTAGTAAA
*
46782668 TTGGCACCTAGTGCCTCATCGAATTAATCCAAGTAGTAAA
1 TTGGCACCCAGTGCCTCATCGAATTAATCCAAGTAGTAAA
* *
46782708 TTGACACCCAGTGTCTCATCGA
1 TTGGCACCCAGTGCCTCATCGA
46782730 CTCGAAATCG
Statistics
Matches: 113, Mismatches: 22, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
37 23 0.20
38 6 0.05
39 1 0.01
40 48 0.42
41 35 0.31
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (40 bp):
TTGGCACCCAGTGCCTCATCGAATTAATCCAAGTAGTAAA
Found at i:46785708 original size:18 final size:18
Alignment explanation
Indices: 46785681--46785715 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
46785671 ACATACAGAG
*
46785681 CCACCGTTCACCATGCTA
1 CCACCATTCACCATGCTA
46785699 CCACCATTCACCATGCT
1 CCACCATTCACCATGCT
46785716 GCCATTGCAT
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:0.23, C:0.46, G:0.09, T:0.23
Consensus pattern (18 bp):
CCACCATTCACCATGCTA
Found at i:46787180 original size:34 final size:34
Alignment explanation
Indices: 46787106--46787182 Score: 102
Period size: 34 Copynumber: 2.3 Consensus size: 34
46787096 AACTTTCAAT
* **
46787106 AAATAAAATATATATAAAATTTTATTAAATATTA
1 AAATAATATATATATAAAATTTTATTAAATAAAA
*
46787140 AAATAATATA-ATATAAATATTTTTTTAAATAAAA
1 AAATAATATATATATAAA-ATTTTATTAAATAAAA
46787174 AAATAATAT
1 AAATAATAT
46787183 GAGCGGGTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
33 7 0.18
34 31 0.82
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (34 bp):
AAATAATATATATATAAAATTTTATTAAATAAAA
Found at i:46790245 original size:16 final size:15
Alignment explanation
Indices: 46790213--46790248 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
46790203 AAAGTAAAAG
*
46790213 AATAATTAATGATTA
1 AATAATTAATGAATA
46790228 AATAATTAAATGAATA
1 AATAATT-AATGAATA
46790244 AATAA
1 AATAA
46790249 AAAATGTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (15 bp):
AATAATTAATGAATA
Found at i:46790606 original size:23 final size:22
Alignment explanation
Indices: 46790563--46790620 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
46790553 AAAGGGTATC
* *
46790563 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
46790584 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
46790607 TGCATATCATATCT
1 TACAAATCATATCT
46790621 AGGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:46790626 original size:19 final size:19
Alignment explanation
Indices: 46790599--46790635 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
46790589 AATCATATCT
46790599 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
46790618 TCTAGGATTGCATATCAT
1 TCTAAGATTGCATATCAT
46790636 TGAAGATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:46805687 original size:6 final size:6
Alignment explanation
Indices: 46805676--46805704 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
46805666 ACTAAAGTGT
46805676 GAAAAG GAAAAG GAAAAG GAAAAG GAAAA
1 GAAAAG GAAAAG GAAAAG GAAAAG GAAAA
46805705 AAATAGTGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (6 bp):
GAAAAG
Found at i:46806258 original size:21 final size:22
Alignment explanation
Indices: 46806210--46806264 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 22
46806200 CAAAAGATAG
*
46806210 AAGTCCCATTTC-AATGGAATG
1 AAGTCCCATTTCAAATGGAATC
* *
46806231 AAATCCCATTTCAAAT-GCATC
1 AAGTCCCATTTCAAATGGAATC
46806252 AAGTCCCATTTCA
1 AAGTCCCATTTCA
46806265 TCAGGAACAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 26 0.90
22 3 0.10
ACGTcount: A:0.35, C:0.25, G:0.11, T:0.29
Consensus pattern (22 bp):
AAGTCCCATTTCAAATGGAATC
Found at i:46808406 original size:14 final size:14
Alignment explanation
Indices: 46808387--46808415 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
46808377 ATCCAAGCAA
46808387 TAACAACATAATAG
1 TAACAACATAATAG
46808401 TAACAACATAATAG
1 TAACAACATAATAG
46808415 T
1 T
46808416 GAAATGGTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.14, G:0.07, T:0.24
Consensus pattern (14 bp):
TAACAACATAATAG
Found at i:46814267 original size:32 final size:32
Alignment explanation
Indices: 46814226--46814322 Score: 142
Period size: 32 Copynumber: 3.0 Consensus size: 32
46814216 AATAATTAAA
46814226 ATTTAAAAATATTATGAAAGAATAAATAATATT
1 ATTTAAAAAT-TTATGAAAGAATAAATAATATT
46814259 A-TTAAAAATTTTATGAAAGAATAAATAATATT
1 ATTTAAAAA-TTTATGAAAGAATAAATAATATT
* * *
46814291 ATTTAAAAGTTTATGAATGGATAAATAATATT
1 ATTTAAAAATTTATGAAAGAATAAATAATATT
46814323 TTATCCTTAA
Statistics
Matches: 59, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
32 51 0.86
33 8 0.14
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (32 bp):
ATTTAAAAATTTATGAAAGAATAAATAATATT
Found at i:46815172 original size:30 final size:32
Alignment explanation
Indices: 46815109--46815169 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 32
46815099 AACTTTTTAA
**
46815109 TTTTATGAAAGAATAAATAATATTTTTAAAAT
1 TTTTATGAAAGAATAAATAATATCCTTAAAAT
46815141 TTTTATGAAA-AAT-AATAATTATCCTTAAA
1 TTTTATGAAAGAATAAATAA-TATCCTTAAA
46815170 TTTATAACAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 5 0.19
31 11 0.42
32 10 0.38
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.43
Consensus pattern (32 bp):
TTTTATGAAAGAATAAATAATATCCTTAAAAT
Found at i:46815195 original size:42 final size:43
Alignment explanation
Indices: 46815149--46815304 Score: 149
Period size: 42 Copynumber: 3.6 Consensus size: 43
46815139 ATTTTTATGA
*
46815149 AAAATAATAATTATCCTTAA-ATTTATAACAGTCAAAATATCT
1 AAAATAATAATTATCCTTAATATTTATAACAGTCAAAATATAT
* * * * *
46815191 AAAATATTATTTATCCTTAATATTTA-AACAATTAAAATTTTAT
1 AAAATAATAATTATCCTTAATATTTATAACAGTCAAAA-TATAT
* *
46815234 GAAAGGATAA-ATATTATCCTTAA-ATTTATAAGAGTCAAAATATTT
1 -AAA--ATAATA-ATTATCCTTAATATTTATAACAGTCAAAATATAT
* *
46815279 AAAATATTATTTATCCTTAATATTTA
1 AAAATAATAATTATCCTTAATATTTA
46815305 AGCAATTAAA
Statistics
Matches: 90, Mismatches: 15, Indels: 17
0.74 0.12 0.14
Matches are distributed among these distances:
42 40 0.44
43 14 0.16
44 6 0.07
45 9 0.10
46 21 0.23
ACGTcount: A:0.47, C:0.08, G:0.04, T:0.41
Consensus pattern (43 bp):
AAAATAATAATTATCCTTAATATTTATAACAGTCAAAATATAT
Found at i:46815250 original size:88 final size:88
Alignment explanation
Indices: 46815134--46815334 Score: 334
Period size: 88 Copynumber: 2.3 Consensus size: 88
46815124 AATAATATTT
46815134 TTAAAATTTTTATGAAA-AAT-AATAATTATCCTTAAATTTATAACAGTCAAAATATCTAAAATA
1 TTAAAA-TTTTATGAAAGAATAAAT-ATTATCCTTAAATTTATAACAGTCAAAATATCTAAAATA
46815197 TTATTTATCCTTAATATTTAAACAA
64 TTATTTATCCTTAATATTTAAACAA
* * *
46815222 TTAAAATTTTATGAAAGGATAAATATTATCCTTAAATTTATAAGAGTCAAAATATTTAAAATATT
1 TTAAAATTTTATGAAAGAATAAATATTATCCTTAAATTTATAACAGTCAAAATATCTAAAATATT
*
46815287 ATTTATCCTTAATATTTAAGCAA
66 ATTTATCCTTAATATTTAAACAA
46815310 TTAAAATTTTATGAAAGAATAAATA
1 TTAAAATTTTATGAAAGAATAAATA
46815335 ATATTTTTTA
Statistics
Matches: 106, Mismatches: 5, Indels: 4
0.92 0.04 0.03
Matches are distributed among these distances:
87 10 0.09
88 93 0.88
89 3 0.03
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.40
Consensus pattern (88 bp):
TTAAAATTTTATGAAAGAATAAATATTATCCTTAAATTTATAACAGTCAAAATATCTAAAATATT
ATTTATCCTTAATATTTAAACAA
Found at i:46815348 original size:32 final size:32
Alignment explanation
Indices: 46815310--46815404 Score: 165
Period size: 32 Copynumber: 3.0 Consensus size: 32
46815300 ATTTAAGCAA
*
46815310 TTAAAATTTTATGAAAGAATAAATAATATTTT
1 TTAAAATTTTATGAAAGGATAAATAATATTTT
46815342 TTAAAATTTTATGAAAGGATAAATAATA-TTT
1 TTAAAATTTTATGAAAGGATAAATAATATTTT
46815373 TTAAAATTTTTATGAAAGGATAAATAATATTT
1 TTAAAA-TTTTATGAAAGGATAAATAATATTT
46815405 GATTTTTAAA
Statistics
Matches: 60, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
31 9 0.15
32 49 0.82
33 2 0.03
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.43
Consensus pattern (32 bp):
TTAAAATTTTATGAAAGGATAAATAATATTTT
Found at i:46815795 original size:17 final size:17
Alignment explanation
Indices: 46815773--46815806 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
46815763 ACCGGTTATG
*
46815773 ATTCTGTTGCAATTAGT
1 ATTCTGTTACAATTAGT
46815790 ATTCTGTTACAATTAGT
1 ATTCTGTTACAATTAGT
46815807 TACAGTTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.12, G:0.15, T:0.47
Consensus pattern (17 bp):
ATTCTGTTACAATTAGT
Found at i:46816173 original size:33 final size:33
Alignment explanation
Indices: 46816131--46816373 Score: 243
Period size: 33 Copynumber: 7.0 Consensus size: 33
46816121 GGCATCATCC
*
46816131 CCTGCTACCTCTCCTCCGGAAAAAGAAACGACT
1 CCTGCTACCTCTCCTCCGGAAAAAGTAACGACT
* *
46816164 CCTGCTACCTTTCCTCCGGAAAAAGAAACGACT
1 CCTGCTACCTCTCCTCCGGAAAAAGTAACGACT
* * *
46816197 CCTGTTACCTTTCCTCCGGAAAAGGTAACGACT
1 CCTGCTACCTCTCCTCCGGAAAAAGTAACGACT
* * *
46816230 TCTTCTACCTCTCCTCTGGAAAAAGTAACGACTCCT
1 CCTGCTACCTCTCCTCCGGAAAAAGTAACGA---CT
46816266 GCTACTGCTACCTCTCCTCCGGAAAAAGTAACGACTCTT
1 -C--CTGCTACCTCTCCTCCGGAAAAAGTAACGA--C-T
* * *
46816305 GCTACTGCCACCTCTCCTCCGGCAAAAGAAACGACT
1 -C--CTGCTACCTCTCCTCCGGAAAAAGTAACGACT
* * *
46816341 CCTTCTACTTCTCCTTCGGAAAAAGTAACGACT
1 CCTGCTACCTCTCCTCCGGAAAAAGTAACGACT
46816374 TCTGAAAAAG
Statistics
Matches: 179, Mismatches: 24, Indels: 14
0.82 0.11 0.06
Matches are distributed among these distances:
33 113 0.63
35 1 0.01
36 3 0.02
37 1 0.01
38 1 0.01
39 60 0.34
ACGTcount: A:0.27, C:0.34, G:0.15, T:0.24
Consensus pattern (33 bp):
CCTGCTACCTCTCCTCCGGAAAAAGTAACGACT
Found at i:46817153 original size:45 final size:45
Alignment explanation
Indices: 46817089--46817177 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
46817079 TCTTATATTC
*
46817089 TACCATTAAACCATCATCCTTTCATTTCACCAGCTGGGGGAGTCG
1 TACCATTAAACCATCATCCTTTCATTTCACCAGCTGGGAGAGTCG
*
46817134 TACCATTAAACCATCATCCTTTGATTTCACCAGCTGGGAGAGTC
1 TACCATTAAACCATCATCCTTTCATTTCACCAGCTGGGAGAGTC
46817178 AGTGATCATG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (45 bp):
TACCATTAAACCATCATCCTTTCATTTCACCAGCTGGGAGAGTCG
Found at i:46822277 original size:3 final size:3
Alignment explanation
Indices: 46822269--46822303 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
46822259 TCGTTAATAT
46822269 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
46822304 TTCATTTTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:46837478 original size:9 final size:9
Alignment explanation
Indices: 46837466--46837500 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
46837456 ACCCAATTTT
*
46837466 TTATTTGAG
1 TTATTCGAG
*
46837475 TTATTCGAA
1 TTATTCGAG
46837484 TTATTCGAG
1 TTATTCGAG
46837493 TTATTCGA
1 TTATTCGA
46837501 ATTTAAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.26, C:0.09, G:0.17, T:0.49
Consensus pattern (9 bp):
TTATTCGAG
Found at i:46837493 original size:18 final size:18
Alignment explanation
Indices: 46837466--46837503 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
46837456 ACCCAATTTT
*
46837466 TTATTTGAGTTATTCGAA
1 TTATTCGAGTTATTCGAA
46837484 TTATTCGAGTTATTCGAA
1 TTATTCGAGTTATTCGAA
46837502 TT
1 TT
46837504 TAAAATTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.26, C:0.08, G:0.16, T:0.50
Consensus pattern (18 bp):
TTATTCGAGTTATTCGAA
Found at i:46837576 original size:32 final size:32
Alignment explanation
Indices: 46837528--46837594 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
46837518 ACTCGAATAC
* * *
46837528 AAAACTCGAATTACTT-ATTTGAGTTAACTCGA
1 AAAAATCGAATAACTTAATTTGA-TTAACTCCA
46837560 AAAAATCGAATAACTTAATTTGATTAACTCCA
1 AAAAATCGAATAACTTAATTTGATTAACTCCA
46837592 AAA
1 AAA
46837595 TTAAAAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
32 25 0.81
33 6 0.19
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.31
Consensus pattern (32 bp):
AAAAATCGAATAACTTAATTTGATTAACTCCA
Found at i:46838280 original size:37 final size:38
Alignment explanation
Indices: 46838212--46838285 Score: 89
Period size: 37 Copynumber: 2.0 Consensus size: 38
46838202 ATATTTTACA
*
46838212 TTTTATCTTTAAGATGATTTTTATTAAAAAAT-CATAT
1 TTTTATATTTAAGATGATTTTTATTAAAAAATACATAT
* **
46838249 TTTTATATTTAATAT-ATTTTTAATTTCAAAATACATA
1 TTTTATATTTAAGATGATTTTT-ATTAAAAAATACATA
46838286 GTAACAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
36 6 0.19
37 21 0.68
38 4 0.13
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.53
Consensus pattern (38 bp):
TTTTATATTTAAGATGATTTTTATTAAAAAATACATAT
Found at i:46839398 original size:2 final size:2
Alignment explanation
Indices: 46839391--46839494 Score: 181
Period size: 2 Copynumber: 52.0 Consensus size: 2
46839381 CATCTATTTG
46839391 TA TA TA TA TA TA 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
*
46839433 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA 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
* *
46839475 TA TA GA TA TA CA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
46839495 GATAGAGGTG
Statistics
Matches: 96, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 96 1.00
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (2 bp):
TA
Found at i:46840006 original size:2 final size:2
Alignment explanation
Indices: 46839999--46840074 Score: 143
Period size: 2 Copynumber: 38.0 Consensus size: 2
46839989 AGACATATTC
*
46839999 AT AT AT AT AT AT AT AA 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
46840041 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
46840075 CATTAATAAA
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 72 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:46840330 original size:43 final size:41
Alignment explanation
Indices: 46840280--46840418 Score: 147
Period size: 41 Copynumber: 3.4 Consensus size: 41
46840270 CTCAATGTTT
* * *
46840280 CACACACTAATTGCCAATCATATAGCCGAAGCTATTATAATTC
1 CACACACTAAGTGCC--TCACATAGCCGAAGCTATTACAATTC
* *
46840323 CGCACACTAAGTGCCTTACATAGCCGAAGCTATTACAATTC
1 CACACACTAAGTGCCTCACATAGCCGAAGCTATTACAATTC
* * * *
46840364 CACACACTAAGTGCCTTACATAGCCAAAGCCATTCCAAATT-
1 CACACACTAAGTGCCTCACATAGCCGAAGCTATTAC-AATTC
*
46840405 -GCACACTAAGTGCC
1 CACACACTAAGTGCC
46840419 ATTAATAACT
Statistics
Matches: 85, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
40 13 0.15
41 55 0.65
42 4 0.05
43 13 0.15
ACGTcount: A:0.35, C:0.29, G:0.12, T:0.24
Consensus pattern (41 bp):
CACACACTAAGTGCCTCACATAGCCGAAGCTATTACAATTC
Found at i:46840349 original size:41 final size:40
Alignment explanation
Indices: 46840301--46840436 Score: 161
Period size: 41 Copynumber: 3.4 Consensus size: 40
46840291 TGCCAATCAT
46840301 ATAGCCGAAGCTATTATAATTCCGCACACTAAGTGCCTTAC
1 ATAGCCGAAGCTATTA-AATTCCGCACACTAAGTGCCTTAC
*
46840342 ATAGCCGAAGCTATTACAATTCCACACACTAAGTGCCTTAC
1 ATAGCCGAAGCTATTA-AATTCCGCACACTAAGTGCCTTAC
* *
46840383 ATAGCCAAAGCCATTCCAAATT--GCACACTAAGTGCCATTA-
1 ATAGCCGAAGCTATT--AAATTCCGCACACTAAGTGCC-TTAC
* *
46840423 ATAACTGAAGCTAT
1 ATAGCCGAAGCTAT
46840437 CTCGAATTTC
Statistics
Matches: 83, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
40 23 0.28
41 55 0.66
42 4 0.05
43 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.25
Consensus pattern (40 bp):
ATAGCCGAAGCTATTAAATTCCGCACACTAAGTGCCTTAC
Found at i:46844899 original size:43 final size:43
Alignment explanation
Indices: 46844838--46845080 Score: 244
Period size: 43 Copynumber: 5.7 Consensus size: 43
46844828 TTTTAGAAAT
* **
46844838 AAACGCCGCTAAAGACCATGACCTTTAGCGATGCTTTTCTGGC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGTGCTTTTCTCAC
** *
46844881 AAACGCCGCTAAAGACCATGACCTTTAGCGGCACTTCTC-CGAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGTGCTTTTCTC-AC
* * * **
46844924 AAACGCCACTAAAGACAATGACCTTTAGCGGTGCTTTCCAAAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGTGCTTTTCTCAC
* *
46844967 AAACGCCGCTAAAGACTC-TGATCTTTAGCGGCGCTTTT-TCCAC
1 AAACGCCGCTAAAGAC-CATGACCTTTAGCGGTGCTTTTCT-CAC
* * ** *
46845010 AAACGCCGGTAAAGACCCTGATATTTAACGGTGCTTTT-TCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGTGCTTTTCT-CAC
46845053 AAACGCCGC-AAATGACCATGACCTTTAG
1 AAACGCCGCTAAA-GACCATGACCTTTAG
46845081 TGGCGTTTTT
Statistics
Matches: 165, Mismatches: 29, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
42 4 0.02
43 161 0.98
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGTGCTTTTCTCAC
Found at i:46844945 original size:86 final size:86
Alignment explanation
Indices: 46844838--46845080 Score: 278
Period size: 86 Copynumber: 2.8 Consensus size: 86
46844828 TTTTAGAAAT
* **
46844838 AAACGCCGCTAAAGACCATGACCTTTAGCGATGCTTTTCTGGCAAACGCCGCTAAAGACCATGAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGTGCTTTTCTAACAAACGCCGCTAAAGACCATGAC
46844903 CTTTAGCGGCAC-TTCTCCGAC
66 CTTTAGCGGCACTTTCTCC-AC
* * * *
46844924 AAACGCCACTAAAGACAATGACCTTTAGCGGTGCTTTCCAAACAAACGCCGCTAAAGACTC-TGA
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGTGCTTTTCTAACAAACGCCGCTAAAGAC-CATGA
* * *
46844988 TCTTTAGCGGCGCTTTTTCCAC
65 CCTTTAGCGGCACTTTCTCCAC
* * ** * *
46845010 AAACGCCGGTAAAGACCCTGATATTTAACGGTGCTTTT-TCCACAAACGCCGC-AAATGACCATG
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGTGCTTTTCT-AACAAACGCCGCTAAA-GACCATG
46845073 ACCTTTAG
64 ACCTTTAG
46845081 TGGCGTTTTT
Statistics
Matches: 131, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
85 4 0.03
86 121 0.92
87 6 0.05
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (86 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGTGCTTTTCTAACAAACGCCGCTAAAGACCATGAC
CTTTAGCGGCACTTTCTCCAC
Found at i:46845074 original size:129 final size:129
Alignment explanation
Indices: 46844838--46845080 Score: 287
Period size: 129 Copynumber: 1.9 Consensus size: 129
46844828 TTTTAGAAAT
* **
46844838 AAACGCCGCTAAAGACCATGACCTTTAGCGATGCTTTTCTGGCAAACGCCGCTAAAGACCATGAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGACGCTTTTCTCACAAACGCCGCTAAAGACCATGAC
* *
46844903 CTTTAGCGGCACTTCTCCGACAAACGCCACTAAAGACAATGACCTTTAGCGGTGCTTTCCAAAC
66 ATTTAACGGCACTTCTCCGACAAACGCCACTAAAGACAATGACCTTTAGCGGTGCTTTCCAAAC
* * * *
46844967 AAACGCCGCTAAAGACTC-TGATCTTTAGCGGCGCTTTT-TCCACAAACGCCGGTAAAGACCCTG
1 AAACGCCGCTAAAGAC-CATGACCTTTAGCGACGCTTTTCT-CACAAACGCCGCTAAAGACCATG
* ** * * *
46845030 ATATTTAACGGTGCTTTTTCC-ACAAACGCCGC-AAATGACCATGACCTTTAG
64 ACATTTAACGGCAC-TTCTCCGACAAACGCCACTAAA-GACAATGACCTTTAG
46845081 TGGCGTTTTT
Statistics
Matches: 95, Mismatches: 15, Indels: 8
0.81 0.13 0.07
Matches are distributed among these distances:
128 4 0.04
129 85 0.89
130 6 0.06
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (129 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGACGCTTTTCTCACAAACGCCGCTAAAGACCATGAC
ATTTAACGGCACTTCTCCGACAAACGCCACTAAAGACAATGACCTTTAGCGGTGCTTTCCAAAC
Found at i:46845459 original size:21 final size:21
Alignment explanation
Indices: 46845430--46845500 Score: 97
Period size: 21 Copynumber: 3.4 Consensus size: 21
46845420 TTCTACGTTA
46845430 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* *
46845451 CTCTACTTCCCTCGCTGTAGC
1 CTCTGCTTCCCTCGCTGCAGC
* *
46845472 CTCTGCTTCTCTCGCTGCTGC
1 CTCTGCTTCCCTCGCTGCAGC
*
46845493 ATCTGCTT
1 CTCTGCTT
46845501 TAAACTACAG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.06, C:0.42, G:0.17, T:0.35
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:46845551 original size:64 final size:66
Alignment explanation
Indices: 46845471--46845622 Score: 202
Period size: 64 Copynumber: 2.3 Consensus size: 66
46845461 CTCGCTGTAG
*
46845471 CCTCTGCTTCTCTCGCTGCTGCATCTGCTTTAAACTACAGCTGGAGTTCTTCATA-CTTTCGTTG
1 CCTCTGCTTCTCTCGCTGCTGCATCTGCTTTAAACTACAGCTGAAGTTCTTCATATCTTT-GTTG
46845535 AA
65 AA
* ** ** *
46845537 -C-CTGCTTCTCTCGCTGCTGCATCTTCTTTAAGTTTTAGCTGAAGTTCTTCATATCTTTTTTGA
1 CCTCTGCTTCTCTCGCTGCTGCATCTGCTTTAAACTACAGCTGAAGTTCTTCATATCTTTGTTGA
46845600 A
66 A
*
46845601 CCTCTGCTTCTCTCGATGCTGC
1 CCTCTGCTTCTCTCGCTGCTGC
46845623 CTCCGTTTTA
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
64 51 0.68
65 6 0.08
66 18 0.24
ACGTcount: A:0.14, C:0.28, G:0.16, T:0.41
Consensus pattern (66 bp):
CCTCTGCTTCTCTCGCTGCTGCATCTGCTTTAAACTACAGCTGAAGTTCTTCATATCTTTGTTGA
A
Found at i:46856487 original size:19 final size:19
Alignment explanation
Indices: 46856463--46856509 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
46856453 AACGTCTCTT
*
46856463 TTTGCATT-CATTTCATGCA
1 TTTGCATTACATTGCAT-CA
46856482 TTTGCATTACATTGCATCA
1 TTTGCATTACATTGCATCA
*
46856501 TATGCATTA
1 TTTGCATTA
46856510 GATTTTCACG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.26, C:0.19, G:0.11, T:0.45
Consensus pattern (19 bp):
TTTGCATTACATTGCATCA
Found at i:46859411 original size:7 final size:7
Alignment explanation
Indices: 46859410--46859486 Score: 77
Period size: 7 Copynumber: 10.6 Consensus size: 7
46859400 AATAAAAAAT
46859410 AAAAA-A
1 AAAAAGA
*
46859416 AAGAAGA
1 AAAAAGA
46859423 AAAAAGA
1 AAAAAGA
46859430 AAAAAGAA
1 AAAAAG-A
46859438 AAAAAGGAA
1 AAAAA-G-A
46859447 AAAGAAGA
1 AAA-AAGA
46859455 AAAAAG-
1 AAAAAGA
46859461 AAAAAGA
1 AAAAAGA
*
46859468 GAAAAGAA
1 AAAAAG-A
46859476 AAAAAGA
1 AAAAAGA
46859483 AAAA
1 AAAA
46859487 GGAGAGGCCA
Statistics
Matches: 61, Mismatches: 4, Indels: 11
0.80 0.05 0.14
Matches are distributed among these distances:
6 10 0.16
7 26 0.43
8 16 0.26
9 7 0.11
10 2 0.03
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:46859440 original size:15 final size:15
Alignment explanation
Indices: 46859397--46859486 Score: 82
Period size: 15 Copynumber: 6.0 Consensus size: 15
46859387 GTTCAGATTT
46859397 AGAAATAAAA-AATAAA
1 AGAAA-AAAAGAA-AAA
*
46859413 A-AAAAGAAGAAAAA
1 AGAAAAAAAGAAAAA
46859427 AG-AAAAAAGAAAAAA
1 AGAAAAAAAG-AAAAA
46859442 AGGAAAAAGAAGAAAAA
1 A-GAAAAA-AAGAAAAA
*
46859459 AG--AAAAAGAGAAA
1 AGAAAAAAAGAAAAA
46859472 AGAAAAAAAGAAAAA
1 AGAAAAAAAGAAAAA
46859487 GGAGAGGCCA
Statistics
Matches: 62, Mismatches: 4, Indels: 17
0.75 0.05 0.20
Matches are distributed among these distances:
13 9 0.15
14 16 0.26
15 21 0.34
16 3 0.05
17 10 0.16
18 3 0.05
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (15 bp):
AGAAAAAAAGAAAAA
Found at i:46859440 original size:32 final size:30
Alignment explanation
Indices: 46859405--46859483 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 30
46859395 TTAGAAATAA
*
46859405 AAAATAAAAAAAAGAAGAAAAAAGAAAAAAG
1 AAAAAAAAAAAAAGAAGAAAAAAG-AAAAAG
*
46859436 AAAAAAAGGAAAAAGAAGAAAAAAGAAAAAG
1 AAAAAAA-AAAAAAGAAGAAAAAAGAAAAAG
*
46859467 AGAAAAGAAAAAAAGAA
1 A-AAAAAAAAAAAAGAA
46859484 AAAGGAGAGG
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
31 21 0.50
32 21 0.50
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.01
Consensus pattern (30 bp):
AAAAAAAAAAAAAGAAGAAAAAAGAAAAAG
Found at i:46859442 original size:8 final size:8
Alignment explanation
Indices: 46859411--46859486 Score: 72
Period size: 8 Copynumber: 9.6 Consensus size: 8
46859401 ATAAAAAATA
46859411 AAAAAAAG
1 AAAAAAAG
46859419 AAGAAAAA-
1 AA-AAAAAG
46859427 AGAAAAAAG
1 A-AAAAAAG
46859436 AAAAAAAGG
1 AAAAAAA-G
46859445 AAAAAGAAG
1 AAAAA-AAG
46859454 -AAAAAAG
1 AAAAAAAG
46859461 --AAAAAG
1 AAAAAAAG
*
46859467 -AGAAAAG
1 AAAAAAAG
46859474 AAAAAAAG
1 AAAAAAAG
46859482 AAAAA
1 AAAAA
46859487 GGAGAGGCCA
Statistics
Matches: 59, Mismatches: 2, Indels: 14
0.79 0.03 0.19
Matches are distributed among these distances:
6 6 0.10
7 8 0.14
8 29 0.49
9 14 0.24
10 2 0.03
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:46860331 original size:23 final size:21
Alignment explanation
Indices: 46860301--46860344 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
46860291 AATATATATA
46860301 AAAAATGAATGAAAGAAAAAATG
1 AAAAATGAA--AAAGAAAAAATG
*
46860324 AAAAATGAAAAAGTAAAAATG
1 AAAAATGAAAAAGAAAAAATG
46860345 GAGAGGCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 11 0.55
23 9 0.45
ACGTcount: A:0.70, C:0.00, G:0.16, T:0.14
Consensus pattern (21 bp):
AAAAATGAAAAAGAAAAAATG
Found at i:46861727 original size:46 final size:46
Alignment explanation
Indices: 46861659--46862584 Score: 1433
Period size: 46 Copynumber: 20.2 Consensus size: 46
46861649 AACAGATCAA
*
46861659 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGAT
1 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGAT
* * * *
46861705 CGAATATAGCAGATCTTATCTTCTTGTATTTGGCAGCAGAGGGGAT
1 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGAT
* * *
46861751 CGAAGATAGCAGATCTTATCTTCATGTATTTGGCAGCGGAGGAGAT
1 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGAT
** *
46861797 ATAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGCAT
1 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGAT
*
46861843 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAAGGGAT
1 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGAT
*
46861889 CGAAGATA--ATATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGAT
1 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGAT
* * * *
46861933 CGAAGATAGCAGATCTTGTCTTCTTGTAATTGGCAGCAGAAGGGAT
1 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGAT
*
46861979 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCAGAGGGGAT
1 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGAT
*
46862025 CGAAGATAGCAGATCTTGGCTTCCTGTATTTGGCAGCGGAGGGGAT
1 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGAT
46862071 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGAT
1 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGAT
* *
46862117 CGAAGATAGCAGATCTCGTCTTCCTATATTTGGCAGCGGAGGGGAT
1 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGAT
**
46862163 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGTTGAGGGGAT
1 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGAT
*
46862209 CGAAGATAGCAGATCTTGTCTTCTTGTATTTGGCAGCGGAGGGGAT
1 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGAT
* * * * *
46862255 CGAATATAGTAGATATTGTCTTCTTGTAATTGGCAGCGGAGGGGAT
1 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGAT
* *
46862301 CGAAGATAGCAGATCTTGTCTTCCTGTAATTGGCAGCGGAAGGGAT
1 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGAT
*
46862347 CGAAGATAGCAGATCTTGTCTTCCTGTAATTGGCAGCGGAGGGGAT
1 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGAT
* * *
46862393 CGAAGATAGCAGATTTTGTCTTCCTGTATTTTGGTAGCGGAGGAGAT
1 CGAAGATAGCAGATCTTGTCTTCCTGTA-TTTGGCAGCGGAGGGGAT
* *
46862440 CGAATATAGCAGATCTTGTCTTCCTGTATTTGGCAGCAGAGGGGAT
1 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGAT
* * *
46862486 CGAAGATATCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGGAGAT
1 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGAT
* * **
46862532 CGAAGATAGCAGATCGTGTTTTCCTGTATTTGGCAGCGGAGTAGAT
1 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGAT
46862578 CGAAGAT
1 CGAAGAT
46862585 GATGAATCTT
Statistics
Matches: 807, Mismatches: 70, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
44 42 0.05
46 724 0.90
47 41 0.05
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.29
Consensus pattern (46 bp):
CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGAT
Found at i:46862847 original size:44 final size:44
Alignment explanation
Indices: 46862637--46862973 Score: 181
Period size: 44 Copynumber: 7.7 Consensus size: 44
46862627 GCCATTAGTC
* *
46862637 CTATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTACAGATT
1 CTATCACCCTAAGCAGTAGTGGAGCAGATTGAAGATTGCAGATT
* * * ** *
46862681 CTGTCACCCTAAGCAGTGGTGGAGCAGATCGAAGA-TGGTGAAT
1 CTATCACCCTAAGCAGTAGTGGAGCAGATTGAAGATTGCAGATT
* * * * * * *
46862724 CTTATCTTCCC-AATACAGTGGAGAAGCAGATTTAAGCCATT--AG-TC
1 C-TATC-ACCCTAA-GCAGTAGTGGAGCAGATTGAAG--ATTGCAGATT
** *
46862769 CTATCACCCTAAGCAGTAGTGGAATAGGTTGAAGATTGCAGATT
1 CTATCACCCTAAGCAGTAGTGGAGCAGATTGAAGATTGCAGATT
* * ** *
46862813 CTATCACCCTAAGCAGTAGTGGGGCAGATCGAAGA-TGGTGAAT
1 CTATCACCCTAAGCAGTAGTGGAGCAGATTGAAGATTGCAGATT
** * * * * * *
46862856 CTTATC-TTCTCAATACAGTGGAGAAGCAGATTTAAGCCATT--AG-TC
1 C-TATCACCCT-AA-GCAGTAGTGGAGCAGATTGAAG--ATTGCAGATT
* * *
46862901 CTATCACCCTAAGCAGTAGTAGAGTAGGTTGAAGATTGCAGATT
1 CTATCACCCTAAGCAGTAGTGGAGCAGATTGAAGATTGCAGATT
* * *
46862945 CTGTCCCCCTAAACAGTAGTGGAGCAGAT
1 CTATCACCCTAAGCAGTAGTGGAGCAGAT
46862974 CAACAATAAC
Statistics
Matches: 208, Mismatches: 65, Indels: 40
0.66 0.21 0.13
Matches are distributed among these distances:
41 6 0.03
43 48 0.23
44 109 0.52
45 39 0.19
46 2 0.01
47 2 0.01
48 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (44 bp):
CTATCACCCTAAGCAGTAGTGGAGCAGATTGAAGATTGCAGATT
Found at i:46862991 original size:132 final size:132
Alignment explanation
Indices: 46862569--46862974 Score: 704
Period size: 132 Copynumber: 3.1 Consensus size: 132
46862559 ATTTGGCAGC
* *
46862569 GGAGTAGATCGAAGATGATGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTA
1 GGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTA
* * *
46862634 GTCCTATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTACAGATTCTGTCACCCTAAGCAGTG
66 GTCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTA
46862699 GT
131 GT
46862701 GGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTA
1 GGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTA
* *
46862766 GTCCTATCACCCTAAGCAGTAGTGGAATAGGTTGAAGATTGCAGATTCTATCACCCTAAGCAGTA
66 GTCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTA
46862831 GT
131 GT
* *
46862833 GGGGCAGATCGAAGATGGTGAATCTTATCTTCTCAATACAGTGGAGAAGCAGATTTAAGCCATTA
1 GGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTA
* * *
46862898 GTCCTATCACCCTAAGCAGTAGTAGAGTAGGTTGAAGATTGCAGATTCTGTCCCCCTAAACAGTA
66 GTCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTA
46862963 GT
131 GT
46862965 GGAGCAGATC
1 GGAGCAGATC
46862975 AACAATAACG
Statistics
Matches: 259, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 259 1.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (132 bp):
GGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTA
GTCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTA
GT
Found at i:46865291 original size:45 final size:45
Alignment explanation
Indices: 46865204--46865310 Score: 164
Period size: 46 Copynumber: 2.4 Consensus size: 45
46865194 GCGGAACGCC
* *
46865204 GTGATAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAA
1 GTGACAAAGTGATAAGTGGTAGCACTAGCTACACTTATCTGATC-A
46865250 GTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTATCTGATCA
1 GTGACAAAGTGATAAGTGGTAGCACTAGCTACACTTATCTGATCA
*
46865294 GGGAC-AAGTGATAAGTG
1 GTGACAAAGTGATAAGTG
46865311 ATCATATGTA
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
43 12 0.21
44 5 0.09
45 19 0.33
46 22 0.38
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (45 bp):
GTGACAAAGTGATAAGTGGTAGCACTAGCTACACTTATCTGATCA
Found at i:46867168 original size:3 final size:3
Alignment explanation
Indices: 46867148--46867241 Score: 102
Period size: 3 Copynumber: 30.7 Consensus size: 3
46867138 CTTAGCAATT
* *
46867148 TTA TTA TTTA GTTG TTA TTA TTA TTA TTA TTA TTA TCT- TTA CTA TTA
1 TTA TTA -TTA -TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
* *
46867195 TTA TTT TTA -TA TTCA TTA ATA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
46867240 TT
1 TT
46867242 TTAATTACTT
Statistics
Matches: 77, Mismatches: 9, Indels: 10
0.80 0.09 0.10
Matches are distributed among these distances:
2 3 0.04
3 65 0.84
4 9 0.12
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:46868789 original size:21 final size:21
Alignment explanation
Indices: 46868756--46868813 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
46868746 TATTATGTTA
*
46868756 TTATATATAAGTTATGGAAG-
1 TTATATATAAGTTATGCAAGC
* *
46868776 TTATTATGTAAGTTATACAAGC
1 TTA-TATATAAGTTATGCAAGC
46868798 TTATATATAAGTTATG
1 TTATATATAAGTTATG
46868814 TATTATATTA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 3 0.10
21 25 0.81
22 3 0.10
ACGTcount: A:0.38, C:0.03, G:0.16, T:0.43
Consensus pattern (21 bp):
TTATATATAAGTTATGCAAGC
Found at i:46869100 original size:15 final size:15
Alignment explanation
Indices: 46869060--46869100 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
46869050 TAGAAAACTT
*
46869060 ATAAATTTAATACTA
1 ATAAATTTAGTACTA
*
46869075 TTAAATTTTAGTACTA
1 ATAAA-TTTAGTACTA
46869091 ATAAATTTAG
1 ATAAATTTAG
46869101 AAAAATTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (15 bp):
ATAAATTTAGTACTA
Found at i:46869126 original size:61 final size:61
Alignment explanation
Indices: 46868982--46869129 Score: 208
Period size: 61 Copynumber: 2.4 Consensus size: 61
46868972 AAAAATATAT
* * * *
46868982 AATTATTTAGAAAACTTATAAAATTGATAATTATAAATTTTATTAATAATAAATTTAGAAC
1 AATTATTTAGAAAACTTATAAATTTAATAATTATAAATTTTAGTAATAATAAATTTAGAAA
* * * *
46869043 ACTTTTTTAGAAAACTTATAAATTTAAT-ACTATTAAATTTTAGTACTAATAAATTTAGAAA
1 AATTATTTAGAAAACTTATAAATTTAATAATTA-TAAATTTTAGTAATAATAAATTTAGAAA
46869104 AATTATTTAGAAAACTTATAAATTTA
1 AATTATTTAGAAAACTTATAAATTTA
46869130 GAAAACGTAT
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
60 3 0.04
61 73 0.96
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.42
Consensus pattern (61 bp):
AATTATTTAGAAAACTTATAAATTTAATAATTATAAATTTTAGTAATAATAAATTTAGAAA
Found at i:46869133 original size:30 final size:30
Alignment explanation
Indices: 46869030--46869134 Score: 90
Period size: 30 Copynumber: 3.5 Consensus size: 30
46869020 TTTATTAATA
* * *
46869030 ATAAATTTAGAACACTTTTTTAGAAAACTT
1 ATAAATTTAGAAAAATTATTTAGAAAACTT
** * *
46869060 ATAAATTTA-ATACTATTAAATTTTAG--TACTA
1 ATAAATTTAGA-AAAATT--A-TTTAGAAAACTT
46869091 ATAAATTTAGAAAAATTATTTAGAAAACTT
1 ATAAATTTAGAAAAATTATTTAGAAAACTT
46869121 ATAAATTTAGAAAA
1 ATAAATTTAGAAAA
46869135 CGTATATAGA
Statistics
Matches: 59, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
28 5 0.08
29 2 0.03
30 30 0.51
31 16 0.27
32 1 0.02
33 5 0.08
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.39
Consensus pattern (30 bp):
ATAAATTTAGAAAAATTATTTAGAAAACTT
Found at i:46869145 original size:30 final size:30
Alignment explanation
Indices: 46869091--46869147 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
46869081 TTTAGTACTA
* *
46869091 ATAAATTTAGAAAAATTATTTAGAAAACTT
1 ATAAATTTAGAAAAAGTATATAGAAAACTT
*
46869121 ATAAATTTAGAAAACGTATATAGAAAA
1 ATAAATTTAGAAAAAGTATATAGAAAA
46869148 TAAAACAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.56, C:0.04, G:0.09, T:0.32
Consensus pattern (30 bp):
ATAAATTTAGAAAAAGTATATAGAAAACTT
Found at i:46871844 original size:15 final size:16
Alignment explanation
Indices: 46871824--46871858 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
46871814 TTCAAATTTA
46871824 TAAATACTATCAAT-T
1 TAAATACTATCAATAT
46871839 TAAATACTATCAATAT
1 TAAATACTATCAATAT
46871855 TAAA
1 TAAA
46871859 ATTTATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.37
Consensus pattern (16 bp):
TAAATACTATCAATAT
Found at i:46873010 original size:225 final size:224
Alignment explanation
Indices: 46872655--46873103 Score: 580
Period size: 225 Copynumber: 2.0 Consensus size: 224
46872645 TCGTAACCCT
* * * * *
46872655 TAAATCATTAACGCTAAACCGTAAACCATAACATCAAGGCCTAAAATAGTAAATTTCATTATCTT
1 TAAAACATTAACGCTAAACCATAAAACATAACATCAAGCCCTAAAACAGTAAATTTCATTATCTT
* * * * * *
46872720 ATAAGCCGTAAATTCCCTAACCTGATATTAACACTGAAATGTAAACTCTAAATCTTGAACCCCAA
66 ATAAGCCATAAA-TCACTAACCCGATAATAACACTGAAATGTAAACTCTAAACCTTAAACCCCAA
* * * * * *
46872785 TCCCCGAGCCCTAAACCTAAACTCTAAACCCATG-TCGTCAAAATTGTAATCCTAAAATAATAAA
130 TCCCCAACCCCTAAACCTAAACTCTAAACCCA-GAAC-ACAAAACTGTAATCCCAAAATAATAAA
* *
46872849 CATTGTG-TAACGAACCCTAAAACCCCAAACCA
193 CATTGTGCCAA-AAACCCTAAAACCCCAAACCA
* * *
46872881 TAAAACATTAACGCTAAACCATAAAACATAAACATCAATCCCTAACACAGTAAATTTCTTTATCT
1 TAAAACATTAACGCTAAACCATAAAACAT-AACATCAAGCCCTAAAACAGTAAATTTCATTATCT
*
46872946 TATAAGCCATAAA-CACTAACCCGATAATAACACTGAAATGTTAACTCTAAACCTTAAACCCCAA
65 TATAAGCCATAAATCACTAACCCGATAATAACACTGAAATGTAAACTCTAAACCTTAAACCCCAA
* * * *
46873010 TCTCCAACCCCTAAGCCTAAACTCTAAGCCCAGAACACAAAACTGTAATCCCAAAATAATAAATA
130 TCCCCAACCCCTAAACCTAAACTCTAAACCCAGAACACAAAACTGTAATCCCAAAATAATAAACA
*
46873075 TTGTGCCAAAAACCCTAAATCCCCAAACC
195 TTGTGCCAAAAACCCTAAAACCCCAAACC
46873104 GTATACGATA
Statistics
Matches: 192, Mismatches: 28, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
224 49 0.26
225 75 0.39
226 26 0.14
227 42 0.22
ACGTcount: A:0.43, C:0.27, G:0.07, T:0.23
Consensus pattern (224 bp):
TAAAACATTAACGCTAAACCATAAAACATAACATCAAGCCCTAAAACAGTAAATTTCATTATCTT
ATAAGCCATAAATCACTAACCCGATAATAACACTGAAATGTAAACTCTAAACCTTAAACCCCAAT
CCCCAACCCCTAAACCTAAACTCTAAACCCAGAACACAAAACTGTAATCCCAAAATAATAAACAT
TGTGCCAAAAACCCTAAAACCCCAAACCA
Found at i:46873739 original size:40 final size:40
Alignment explanation
Indices: 46873694--46873776 Score: 105
Period size: 40 Copynumber: 2.1 Consensus size: 40
46873684 AAATCACCGG
*
46873694 TAATGCAGGTCTATTGATGCGTTTGTTTT-TCGAGCGCCGC
1 TAATGCAGGTCTATTGAGGCGTTT-TTTTGTCGAGCGCCGC
* * **
46873734 TAATGCAGGTTTATTGCGGCGTTTTTTTGTTTAGCGCCGC
1 TAATGCAGGTCTATTGAGGCGTTTTTTTGTCGAGCGCCGC
46873774 TAA
1 TAA
46873777 AACTCTATCT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 4 0.11
40 33 0.89
ACGTcount: A:0.16, C:0.18, G:0.27, T:0.40
Consensus pattern (40 bp):
TAATGCAGGTCTATTGAGGCGTTTTTTTGTCGAGCGCCGC
Found at i:46876925 original size:41 final size:41
Alignment explanation
Indices: 46876797--46876912 Score: 196
Period size: 41 Copynumber: 2.8 Consensus size: 41
46876787 TGCCAATCAT
* *
46876797 ATAGGCGAAGCTATTATAATTCCGCACACTAAGTGTCTTAC
1 ATAGCCGAAGCTATTATAATTCCGCACACTAAGTGCCTTAC
*
46876838 ATAGCCGAAACTATTATAATTCCGCACACTAAGTGCCTTAC
1 ATAGCCGAAGCTATTATAATTCCGCACACTAAGTGCCTTAC
*
46876879 ATAGCCGAAGCTATTATAATTCTGCACACTAAGT
1 ATAGCCGAAGCTATTATAATTCCGCACACTAAGT
46876913 ACCATATATA
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 70 1.00
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (41 bp):
ATAGCCGAAGCTATTATAATTCCGCACACTAAGTGCCTTAC
Found at i:46878747 original size:10 final size:11
Alignment explanation
Indices: 46878719--46878751 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
46878709 GATATTAATT
46878719 ATATTTTTTGA
1 ATATTTTTTGA
46878730 ATATTTTTTGA
1 ATATTTTTTGA
46878741 ATATTTTTTGA
1 ATATTTTTTGA
46878752 CTCATACTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.09, T:0.64
Consensus pattern (11 bp):
ATATTTTTTGA
Found at i:46879159 original size:27 final size:27
Alignment explanation
Indices: 46879116--46879215 Score: 139
Period size: 27 Copynumber: 3.7 Consensus size: 27
46879106 TGGAGGAGGG
* * *
46879116 TTTCCCATTGGCGGCACCAATAGTGCC
1 TTTCCCATAGGCAGCACCAATGGTGCC
46879143 TTTCCCATAGGCAGCACCAATGGTGCC
1 TTTCCCATAGGCAGCACCAATGGTGCC
* *
46879170 TTTACCATAGGCGGCACCCAA-GGTGCC
1 TTTCCCATAGGCAGCA-CCAATGGTGCC
46879197 TTTCCCATAGGCAGCACCA
1 TTTCCCATAGGCAGCACCA
46879216 CTTGTGTTAT
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
26 3 0.05
27 58 0.89
28 4 0.06
ACGTcount: A:0.22, C:0.34, G:0.22, T:0.22
Consensus pattern (27 bp):
TTTCCCATAGGCAGCACCAATGGTGCC
Found at i:46879596 original size:3 final size:3
Alignment explanation
Indices: 46879588--46879612 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
46879578 AGTATAAAAC
46879588 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
46879613 GTGTTAGTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:46885292 original size:157 final size:155
Alignment explanation
Indices: 46884735--46885485 Score: 626
Period size: 158 Copynumber: 4.8 Consensus size: 155
46884725 AAAAAAGTTA
* *
46884735 GTAAAAAACTCTTACTTCGGCCATTTGTTCGTATTTTTTTCTCC-ACATTTTATTACTTT-AAAA
1 GTAAAAAACTCTTACTTCGGCCATTTGCTCGTATTATTTTC-CCGA-ATTTTATTACTTTAAAAA
* *
46884798 AATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTTGAAATTTATTAA
64 AATATCATAATTTCTAATTTTATAATTTTA-TTTATTTCAGTACATTATGTTTGAAATTTATTAA
* *
46884863 TTTAGTGAGTTTTTTAAATCAATTTAGT
128 TTTAGTGTGTTTTTTAAATAAATTTAGT
* * * * * *
46884891 GTAAAAAAAACCCTTA-TTCTTGCCCTTTGCTCGTATTATTTTCCCAAATTTTTTTTTCTTTCAA
1 GT--AAAAAACTCTTACTTC-GGCCATTTGCTCGTATTATTTTCCCGAA-TTTTATTACTTT-AA
* * *
46884955 TAAAA-AT-AT-A--T-T-ATTTTCGT-ATTTTATATTATTTCAGTACATTTTGTTTGAAATATT
61 AAAAATATCATAATTTCTAATTTT-ATAATTTTAT-TTATTTCAGTACATTATGTTTG-AA-A-T
* *
46885012 TGTATTAA-TTA-TTTCTAAATTTTTAAA-AAATTTA--
121 T-TATTAATTTAGTGTGT---TTTTTAAATAAATTTAGT
* * * * *
46885046 GT-AAACACTCTTACTTCGGCCATTTGTTCGTATT-TTTCCCCGTATTTTATTA-TTTTAAAAAA
1 GTAAAAAACTCTTACTTCGGCCATTTGCTCGTATTATTTTCCCGAATTTTATTACTTTAAAAAAA
*
46885108 TATCATAATTTCTAATTTTATAATTTTACTTTATCTT-AGTGCATTATGTTTGAAATTTATTAAT
66 TATCATAATTTCTAATTTTATAATTTTA-TTTAT-TTCAGTACATTATGTTTGAAATTTATTAAT
*
46885172 TTAGTGTGTTTTTTAAATTAATTTAGT
129 TTAGTGTGTTTTTTAAATAAATTTAGT
* *
46885199 GTAAAAAAC-CTTA-TTCCTGCCCTTTGCTCGTATTATTTTCCCGAATTTTATTACTTTGAATAA
1 GTAAAAAACTCTTACTT-CGGCCATTTGCTCGTATTATTTTCCCGAATTTTATTACTTT-AA-AA
* * *
46885262 AAATAT-ATTATTTTCGT-ATTTTATTATTTTATATTATTTCAGTACATTTTGTTTGAAATATTT
63 AAATATCA-TAATTTC-TAATTTTATAATTTTAT-TTATTTCAGTACATTATGTTTG-AA-A-TT
* * *
46885325 GTATTAA-TTATTTCTGAATTTTTAAA-AAATTTA--
122 -TATTAATTTA-GTGTG-TTTTTTAAATAAATTTAGT
* * * * * *
46885358 GTAAAACACTCTTACTTCGGTCATTTGTTCGTAATT-TTTTCTCAACATTTTATTA-TTTTAAAA
1 GTAAAAAACTCTTACTTCGGCCATTTGCTCGT-ATTATTTTCCCGA-ATTTTATTACTTTAAAAA
* *
46885421 AATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTATATTATGTTTGAAATTTATTAA
64 AATATCATAATTTCTAATTTTATAATTTTA-TTTATTTCAGTACATTATGTTTGAAATTTATTAA
46885486 ATATACCATT
Statistics
Matches: 478, Mismatches: 62, Indels: 112
0.73 0.10 0.17
Matches are distributed among these distances:
148 5 0.01
149 5 0.01
150 16 0.03
151 20 0.04
152 30 0.06
153 60 0.13
154 35 0.07
155 39 0.08
156 16 0.03
157 66 0.14
158 101 0.21
159 13 0.03
160 35 0.07
161 29 0.06
162 8 0.02
ACGTcount: A:0.31, C:0.11, G:0.07, T:0.51
Consensus pattern (155 bp):
GTAAAAAACTCTTACTTCGGCCATTTGCTCGTATTATTTTCCCGAATTTTATTACTTTAAAAAAA
TATCATAATTTCTAATTTTATAATTTTATTTATTTCAGTACATTATGTTTGAAATTTATTAATTT
AGTGTGTTTTTTAAATAAATTTAGT
Found at i:46886419 original size:148 final size:146
Alignment explanation
Indices: 46886267--46886727 Score: 329
Period size: 148 Copynumber: 3.0 Consensus size: 146
46886257 TTTTACTAAA
*
46886267 TTTTTTAAAAATTCAGAAATAATTAATACAAATATTTCAAACAAAATGTACTGAAATAATATAAA
1 TTTTTTAAAAATTAAGAAATAATTAATACAAATATTTCAAACAAAATGTACTGAAATAATATAAA
46886332 ATAATAAAATACGAAAATAATGCATTTTCATTCAAAGTAATAAAATTCGAGAAAATAATACGAGA
66 ATAATAAAATACGAAAATAATG-ATTTT-ATT-AAAGTAATAAAATTCGAGAAAATAATACGAGA
*
46886397 AAGGGCAGGAATAAGGGTT
128 AAGGGCAAGAATAAGGGTT
* ** * * *
46886416 TTTTTTACACTAAATTAATTTAAA-AAACACACTAAATTAATAAATTTCAAACATAATGCACTGA
1 TTTTTTA-A--AAATTAA--GAAATAATTA-A-TACA--AAT--ATTTCAAACAAAATGTACTGA
* * * *
46886480 GATAA-AGT--AA-AAT----TA-G-AAATTATGATATTT-TTAAAATAATAAAATACAGAGAAA
55 AATAATA-TAAAATAATAAAATACGAAAATAATGAT-TTTATTAAAGTAATAAAATTC-GAGAAA
* * *
46886534 A-AATACGAATAAATGGC-CGAAGTAAGAGTGTTTTACT
117 ATAATACG-AGAAAGGGCAAGAA-TAAG-G-G---T--T
*
46886571 AAATTTTTTAAAAATTTAGAAATAATTAATACAAATATTTCAAACAAAATGTACTGAAATAATAT
1 ---TTTTTTAAAAATTAAGAAATAATTAATACAAATATTTCAAACAAAATGTACTGAAATAATAT
* * * * *
46886636 AAAATAATAAAATACGAAAATAATATATTTTTATTAAAAGTAAAAAAATTCGGGAAAGTAATATG
63 AAAATAATAAAATACGAAAATAAT-GA-TTTTATT-AAAGTAATAAAATTCGAGAAAATAATACG
*
46886701 AGCAAAGGGCAAGAATAAGGATT
125 AG-AAAGGGCAAGAATAAGGGTT
46886724 TTTT
1 TTTT
46886728 ACACTAAATT
Statistics
Matches: 234, Mismatches: 34, Indels: 87
0.66 0.10 0.25
Matches are distributed among these distances:
147 22 0.09
148 44 0.19
149 11 0.05
150 21 0.09
151 4 0.02
152 11 0.05
153 9 0.04
154 7 0.03
155 13 0.06
156 4 0.02
157 12 0.05
158 12 0.05
159 34 0.15
160 27 0.12
161 3 0.01
ACGTcount: A:0.51, C:0.07, G:0.11, T:0.30
Consensus pattern (146 bp):
TTTTTTAAAAATTAAGAAATAATTAATACAAATATTTCAAACAAAATGTACTGAAATAATATAAA
ATAATAAAATACGAAAATAATGATTTTATTAAAGTAATAAAATTCGAGAAAATAATACGAGAAAG
GGCAAGAATAAGGGTT
Found at i:46886580 original size:307 final size:310
Alignment explanation
Indices: 46886135--46886894 Score: 1136
Period size: 307 Copynumber: 2.4 Consensus size: 310
46886125 AATGATATAT
* *
46886135 TTAATAAATTTCAAACATAATACACTGAAATAATGTAAAATTATAAAATTAAAAATTATGATGTT
1 TTAATAAATTTCAAACATAATGCACTG-AATAA-GTAAAA-TATAAAATTAAAAATTATGAT-AT
* *
46886200 TTTTAAAATAATAAAATGCAGAGAAAAAATTACGAACAAATGACTGAAGTAAGAGTGTTTTACTA
62 TTTTAAAATAATAAAATGCAGAGAAAAAA-TACGAACAAATGGCCGAAGTAAGAGTGTTTTACTA
46886265 AATTTTTTAAAAATTCAGAAATAATTAATACAAATATTTCAAACAAAATGTACTGAAATAATATA
126 AATTTTTTAAAAATTCAGAAATAATTAATACAAATATTTCAAACAAAATGTACTGAAATAATATA
* * *
46886330 AAATAATAAAATACGAAAATAATGCATTTTCATTCAAAGTAATAAAATTCGAGAAAATAATACGA
191 AAATAATAAAATACGAAAATAATACATTTTCATTAAAAGTAAAAAAATTCGAGAAAATAATACGA
* *
46886395 G-AAAGGGCAGGAATAAGGGTTTTTTTTACACTAAATTAATTTAAAAAACACACTAAA
256 GCAAAGGGCAAGAATAA-GG-ATTTTTTACACTAAATTAATTTAAAAAA-ACACTAAA
* * *
46886452 TTAATAAATTTCAAACATAATGCACTG-A-GA-T-AAA-GTAAAATTAGAAATTATGATATTTTT
1 TTAATAAATTTCAAACATAATGCACTGAATAAGTAAAATATAAAATTAAAAATTATGATATTTTT
* *
46886512 AAAATAATAAAATACAGAGAAAAAATACGAATAAATGGCCGAAGTAAGAGTGTTTTACTAAATTT
66 AAAATAATAAAATGCAGAGAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTTTTACTAAATTT
*
46886577 TTTAAAAATTTAGAAATAATTAATACAAATATTTCAAACAAAATGTACTGAAATAATATAAAATA
131 TTTAAAAATTCAGAAATAATTAATACAAATATTTCAAACAAAATGTACTGAAATAATATAAAATA
* * * * *
46886642 ATAAAATACGAAAATAATATATTTTTATTAAAAGTAAAAAAATTCGGGAAAGTAATATGAGCAAA
196 ATAAAATACGAAAATAATACATTTTCATTAAAAGTAAAAAAATTCGAGAAAATAATACGAGCAAA
46886707 GGGCAAGAATAAGGATTTTTTACACTAAATTAATTTAAAAAAACACTAAA
261 GGGCAAGAATAAGGATTTTTTACACTAAATTAATTTAAAAAAACACTAAA
* *
46886757 TTAATAAATTTCAAACATAATTCACTGAAATAATGTAAAATTATAAAATTAAAAATTATAATATT
1 TTAATAAATTTCAAACATAATGCACTG-AATAA-GTAAAA-TATAAAATTAAAAATTATGATATT
* *
46886822 TTGTAAAGTAATAAAATGCAGAGAAAAAAATACGAACAAATGGCCGAAGTAAGAGTTTTTTACTA
63 TT-TAAAATAATAAAATGCAGAG-AAAAAATACGAACAAATGGCCGAAGTAAGAGTGTTTTACTA
*
46886887 ACTTTTTT
126 AATTTTTT
46886895 TTCAACTTGC
Statistics
Matches: 402, Mismatches: 30, Indels: 24
0.88 0.07 0.05
Matches are distributed among these distances:
305 34 0.08
306 27 0.07
307 157 0.39
308 44 0.11
309 18 0.04
310 1 0.00
311 6 0.01
312 1 0.00
313 22 0.05
314 19 0.05
315 47 0.12
317 26 0.06
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.31
Consensus pattern (310 bp):
TTAATAAATTTCAAACATAATGCACTGAATAAGTAAAATATAAAATTAAAAATTATGATATTTTT
AAAATAATAAAATGCAGAGAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTTTTACTAAATTT
TTTAAAAATTCAGAAATAATTAATACAAATATTTCAAACAAAATGTACTGAAATAATATAAAATA
ATAAAATACGAAAATAATACATTTTCATTAAAAGTAAAAAAATTCGAGAAAATAATACGAGCAAA
GGGCAAGAATAAGGATTTTTTACACTAAATTAATTTAAAAAAACACTAAA
Found at i:46887726 original size:14 final size:14
Alignment explanation
Indices: 46887707--46887733 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
46887697 GGCGGATGCC
46887707 TCACATTGCTGCAA
1 TCACATTGCTGCAA
46887721 TCACATTGCTGCA
1 TCACATTGCTGCA
46887734 GTCTTGGGCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.30
Consensus pattern (14 bp):
TCACATTGCTGCAA
Found at i:46888158 original size:25 final size:28
Alignment explanation
Indices: 46888129--46888180 Score: 83
Period size: 25 Copynumber: 2.0 Consensus size: 28
46888119 TATATTAGTA
46888129 AAGGTTAATATA-GTA-AAT-TAACAAT
1 AAGGTTAATATATGTATAATATAACAAT
46888154 AAGGTTAATATATGTATAATATAACAA
1 AAGGTTAATATATGTATAATATAACAA
46888181 ATTAAAATGC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 12 0.50
26 3 0.12
27 3 0.12
28 6 0.25
ACGTcount: A:0.52, C:0.04, G:0.12, T:0.33
Consensus pattern (28 bp):
AAGGTTAATATATGTATAATATAACAAT
Found at i:46895341 original size:35 final size:36
Alignment explanation
Indices: 46895301--46895370 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 36
46895291 ACTAATACAA
* *
46895301 TAACAATAATAA-TA-GTTTTATACTCAAAATAATAT
1 TAACAATAATAATTAGGGTTT-TACTAAAAATAATAT
46895336 TAACAATAATAATTAGGGTTTTACTAAAAATAATA
1 TAACAATAATAATTAGGGTTTTACTAAAAATAATA
46895371 ACTAACCATA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
35 12 0.39
36 15 0.48
37 4 0.13
ACGTcount: A:0.51, C:0.07, G:0.06, T:0.36
Consensus pattern (36 bp):
TAACAATAATAATTAGGGTTTTACTAAAAATAATAT
Found at i:46895601 original size:10 final size:10
Alignment explanation
Indices: 46895575--46895611 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
46895565 AAAATACTTT
*
46895575 TTTTTCTCTT
1 TTTTTCTCTC
46895585 TTCTTTCTCTC
1 TT-TTTCTCTC
46895596 TTTTTCTCTC
1 TTTTTCTCTC
46895606 TTTTTC
1 TTTTTC
46895612 CGGCACCATC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (10 bp):
TTTTTCTCTC
Found at i:46895751 original size:27 final size:27
Alignment explanation
Indices: 46895694--46895790 Score: 99
Period size: 27 Copynumber: 3.6 Consensus size: 27
46895684 TAACACAAGT
** * *
46895694 GGTGCCGCCTATGATAAA-AGCACCTTG
1 GGTGCCGCCTATGGGAAAGA-CACATTC
46895721 GGTGCCGCCTATGGGAAAGACAC-TATC
1 GGTGCCGCCTATGGGAAAGACACAT-TC
* *
46895748 GGTGCCGCCTATGGGAAAGGCACATTT
1 GGTGCCGCCTATGGGAAAGACACATTC
*
46895775 GGTGCCGCCCATGGGA
1 GGTGCCGCCTATGGGA
46895791 TACCCTCCTC
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
26 1 0.02
27 58 0.95
28 2 0.03
ACGTcount: A:0.23, C:0.26, G:0.32, T:0.20
Consensus pattern (27 bp):
GGTGCCGCCTATGGGAAAGACACATTC
Found at i:46896405 original size:29 final size:30
Alignment explanation
Indices: 46896362--46896420 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
46896352 GAATTGGATC
* *
46896362 AAATCAAAATTTCATGTACAAAATTGCACA
1 AAATCAAAAGTTCATGTACAAAATTACACA
*
46896392 AAATC-AAAGTTCATGTATAAAATTACACA
1 AAATCAAAAGTTCATGTACAAAATTACACA
46896421 TTAAACCATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 21 0.81
30 5 0.19
ACGTcount: A:0.51, C:0.15, G:0.07, T:0.27
Consensus pattern (30 bp):
AAATCAAAAGTTCATGTACAAAATTACACA
Done.