Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 221 of 250
Found at i:68013771 original size:29 final size:30
Alignment explanation
Indices: 68013698--68013796 Score: 80
Period size: 29 Copynumber: 3.3 Consensus size: 30
68013688 TTAGAATTAG
*
68013698 TATTATTTTTACTTAAT-GCTTA-TATATAT
1 TATTATTTTT-CTTAATAGTTTATTATATAT
* * *
68013727 TATATAGTATTATTAATAGTTTATTAT-TAT
1 TAT-TATTTTTCTTAATAGTTTATTATATAT
*
68013757 TATTATTTTTCTTAATA-TTATATTATGTAT
1 TATTATTTTTCTTAATAGTT-TATTATATAT
*
68013787 ATATTCTTTT
1 -TATTATTTT
68013797 AATATATTAG
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
28 2 0.04
29 25 0.45
30 18 0.32
31 11 0.20
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (30 bp):
TATTATTTTTCTTAATAGTTTATTATATAT
Found at i:68013805 original size:53 final size:57
Alignment explanation
Indices: 68013693--68013805 Score: 128
Period size: 57 Copynumber: 2.0 Consensus size: 57
68013683 ATTTATTAGA
*
68013693 ATTAGTATTATTTTTACTTAATGCTTATATATATTATATAGTATTATTAATAGTTTATT
1 ATTAGTATTATTTTTACTTAATGATTATATATATTATATAGTATTATTAATA--TTATT
* * *
68013752 ATTATTATTATTTTT-CTTAAT-ATTATAT-TATGTATATATTCTT-TTAATA-TATT
1 ATTAGTATTATTTTTACTTAATGATTATATATAT-TATATAGTATTATTAATATTATT
68013805 A
1 A
68013806 GGTATATTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
53 5 0.10
56 9 0.18
57 15 0.31
58 6 0.12
59 14 0.29
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.58
Consensus pattern (57 bp):
ATTAGTATTATTTTTACTTAATGATTATATATATTATATAGTATTATTAATATTATT
Found at i:68014177 original size:27 final size:29
Alignment explanation
Indices: 68014133--68014187 Score: 80
Period size: 27 Copynumber: 2.0 Consensus size: 29
68014123 TATACGTTCT
68014133 TATTATTACTATATCTATTATT-TATTAG
1 TATTATTACTATATCTATTATTGTATTAG
68014161 TATT-TTACTAT-TACTATTATTGTATTA
1 TATTATTACTATAT-CTATTATTGTATTA
68014188 TTTTTTAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 1 0.04
27 15 0.60
28 9 0.36
ACGTcount: A:0.31, C:0.07, G:0.04, T:0.58
Consensus pattern (29 bp):
TATTATTACTATATCTATTATTGTATTAG
Found at i:68014281 original size:25 final size:26
Alignment explanation
Indices: 68014232--68014296 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
68014222 TTTTTAATAC
68014232 TATATTTTAATACCATATATATTGTG
1 TATATTTTAATACCATATATATTGTG
68014258 TATATTCTTAATA-C-TATATATTGTATG
1 TATATT-TTAATACCATATATATTG--TG
*
68014285 TATTTTTTAATA
1 TATATTTTAATA
68014297 ATTGTATTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
25 9 0.26
26 13 0.37
27 13 0.37
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.54
Consensus pattern (26 bp):
TATATTTTAATACCATATATATTGTG
Found at i:68014340 original size:20 final size:21
Alignment explanation
Indices: 68014315--68014406 Score: 66
Period size: 22 Copynumber: 4.3 Consensus size: 21
68014305 ATATGTATAT
*
68014315 ATATTATGTACGTA-TTTTTA
1 ATATTATGTACATATTTTTTA
*
68014335 ATATTAT-TATATATTTTTTA
1 ATATTATGTACATATTTTTTA
** *
68014355 ATATATATGTGTATATTTATGTA
1 ATAT-TATGTACATATTT-TTTA
68014378 ATATTAT-TA-ATAGTTGTTTTTA
1 ATATTATGTACATA--T-TTTTTA
68014400 ATATTAT
1 ATATTAT
68014407 TATTTCTAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 12
0.77 0.08 0.16
Matches are distributed among these distances:
19 4 0.07
20 20 0.34
21 4 0.07
22 22 0.37
23 9 0.15
ACGTcount: A:0.34, C:0.01, G:0.08, T:0.58
Consensus pattern (21 bp):
ATATTATGTACATATTTTTTA
Found at i:68014453 original size:20 final size:21
Alignment explanation
Indices: 68014428--68014470 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
68014418 TGTATATATC
68014428 ATGTATATA-TTTTTAATACT
1 ATGTATATACTTTTTAATACT
68014448 ATGTATATACTTTTTAATACT
1 ATGTATATACTTTTTAATACT
68014469 AT
1 AT
68014471 TATTATGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.53
Consensus pattern (21 bp):
ATGTATATACTTTTTAATACT
Found at i:68016855 original size:22 final size:23
Alignment explanation
Indices: 68016829--68016882 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
68016819 TAAAATAAAA
*
68016829 TTAAAAAAT-TGAT-AAATA-TT
1 TTAAAAAATATAATAAAATATTT
68016849 TTATAAAAATATAATAAAATATTT
1 TTA-AAAAATATAATAAAATATTT
68016873 TTAAAAAATA
1 TTAAAAAATA
68016883 CGTGATAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
20 3 0.10
21 6 0.21
22 3 0.10
23 12 0.41
24 5 0.17
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (23 bp):
TTAAAAAATATAATAAAATATTT
Found at i:68017651 original size:29 final size:28
Alignment explanation
Indices: 68017612--68017683 Score: 76
Period size: 29 Copynumber: 2.6 Consensus size: 28
68017602 ATATTAAAAG
* *
68017612 ATAA-ATA-AAATATATTAATTTATTTTT
1 ATAATATATAAATATATT-ATTTATATAT
*
68017639 ATATTATATAAATATAATTATTTATATAT
1 ATAATATATAAATAT-ATTATTTATATAT
*
68017668 GTAATATATAAATATA
1 ATAATATATAAATATA
68017684 AAATAATATT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
27 3 0.08
28 4 0.11
29 27 0.73
30 3 0.08
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (28 bp):
ATAATATATAAATATATTATTTATATAT
Found at i:68017692 original size:18 final size:18
Alignment explanation
Indices: 68017669--68017708 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
68017659 TTTATATATG
68017669 TAATATATAAATATA-AAA
1 TAATAT-TAAATATATAAA
*
68017687 TAATATTACATATATAAA
1 TAATATTAAATATATAAA
68017705 TAAT
1 TAAT
68017709 TATGTTAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (18 bp):
TAATATTAAATATATAAA
Found at i:68018293 original size:6 final size:6
Alignment explanation
Indices: 68018282--68018314 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
68018272 TTGCCTCTTA
68018282 CCACTG CCACTG CCACTG CCACTG CCACTG CCA
1 CCACTG CCACTG CCACTG CCACTG CCACTG CCA
68018315 GAGATATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.18, C:0.52, G:0.15, T:0.15
Consensus pattern (6 bp):
CCACTG
Found at i:68020556 original size:15 final size:16
Alignment explanation
Indices: 68020536--68020578 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
68020526 GATAATTTTC
68020536 AATTAAATTAT-ATTA
1 AATTAAATTATAATTA
* *
68020551 AATTAAATTTTAATTC
1 AATTAAATTATAATTA
68020567 AATTCAAATTAT
1 AATT-AAATTAT
68020579 TATGATTCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 10 0.43
16 7 0.30
17 6 0.26
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.47
Consensus pattern (16 bp):
AATTAAATTATAATTA
Found at i:68022163 original size:14 final size:15
Alignment explanation
Indices: 68022144--68022172 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
68022134 TTATATACAT
68022144 AATTTAAA-ATTTAA
1 AATTTAAATATTTAA
68022158 AATTTAAATATTTAA
1 AATTTAAATATTTAA
68022173 CATGCATTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AATTTAAATATTTAA
Found at i:68024720 original size:13 final size:13
Alignment explanation
Indices: 68024702--68024726 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
68024692 AAATTAGGAC
68024702 TAAATATATTTTT
1 TAAATATATTTTT
68024715 TAAATATATTTT
1 TAAATATATTTT
68024727 AGAATTTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TAAATATATTTTT
Found at i:68030273 original size:32 final size:32
Alignment explanation
Indices: 68030232--68030295 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
68030222 CCTATGGAGA
68030232 GAGTTTAACAATGTCATTTTTAGCAACAAATC
1 GAGTTTAACAATGTCATTTTTAGCAACAAATC
68030264 GAGTTTAACAATGTCATTTTTAGCAACAAATC
1 GAGTTTAACAATGTCATTTTTAGCAACAAATC
68030296 AAATTATAGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (32 bp):
GAGTTTAACAATGTCATTTTTAGCAACAAATC
Found at i:68040406 original size:90 final size:90
Alignment explanation
Indices: 68040239--68040531 Score: 383
Period size: 90 Copynumber: 3.2 Consensus size: 90
68040229 AAGCTTTCAA
** ** * * *
68040239 TTTTTTAAAAAAA-AATATTAAATCCCTACTTAATTTTT-CACTTATTTGGGTATTTGAACTTTC
1 TTTTTTAAAAAAAGAA-ATTAAGCCCCTACTTTTTTTTTGCACTCAATTGGGTACTTGAACTTTC
* * * *
68040302 AAAATATATTAAAAATACTCTCAAAC
65 AAAATACATCAAAAAGACCCTCAAAC
*
68040328 TTTTTTAAAAAAAGAAATTAAGCCCCTACTTTTTTTTTGCACTCAATTGAGTACTTGAACTTTCA
1 TTTTTTAAAAAAAGAAATTAAGCCCCTACTTTTTTTTTGCACTCAATTGGGTACTTGAACTTTCA
* *
68040393 AAATGCATCAAAAAGGCCCTCAAAC
66 AAATACATCAAAAAGACCCTCAAAC
* *
68040418 TTTTTTAGAAAAAGCAATTAAGCCCCTACTTTTTTTTTTGCACTCAATTGGGTACTTGAACTTTC
1 TTTTTTAAAAAAAGAAATTAAGCCCCTAC-TTTTTTTTTGCACTCAATTGGGTACTTGAACTTTC
68040483 AAAATACATCAAAAAGACCCTCAAAC
65 AAAATACATCAAAAAGACCCTCAAAC
* *
68040509 TTTTTCAAAAAAAAACAATTAAG
1 TTTTTTAAAAAAAGA-AATTAAG
68040532 TACCTGCTTT
Statistics
Matches: 177, Mismatches: 23, Indels: 5
0.86 0.11 0.02
Matches are distributed among these distances:
89 31 0.18
90 70 0.40
91 69 0.39
92 7 0.04
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (90 bp):
TTTTTTAAAAAAAGAAATTAAGCCCCTACTTTTTTTTTGCACTCAATTGGGTACTTGAACTTTCA
AAATACATCAAAAAGACCCTCAAAC
Found at i:68040971 original size:29 final size:29
Alignment explanation
Indices: 68040924--68040985 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
68040914 GAGTCATTAA
*
68040924 TTTTTTTATGATTTTTAAAAAATTTATAAT
1 TTTTTTTAT-ATTTTTAAAAAAATTATAAT
*
68040954 TTTTTTTAT-TTTTATAAAAAAATTCTAAT
1 TTTTTTTATATTTT-TAAAAAAATTATAAT
68040983 TTT
1 TTT
68040986 AATAAATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 4 0.14
29 16 0.55
30 9 0.31
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (29 bp):
TTTTTTTATATTTTTAAAAAAATTATAAT
Found at i:68044048 original size:27 final size:27
Alignment explanation
Indices: 68044012--68044065 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
68044002 ACATTCTAAT
*
68044012 AAAAAATTAAATTATTTTATATTTTTA
1 AAAAAATTAAATTATTTTAAATTTTTA
* *
68044039 AAAAAATTAATTTTTTTTAAATTTTTA
1 AAAAAATTAAATTATTTTAAATTTTTA
68044066 TTGAGTGACA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (27 bp):
AAAAAATTAAATTATTTTAAATTTTTA
Found at i:68053238 original size:42 final size:42
Alignment explanation
Indices: 68053179--68053263 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
68053169 TGGTTGAAGA
68053179 ATCCAGCTCTACCTTTTATTTATTATAGAATTTATTTTGGCT
1 ATCCAGCTCTACCTTTTATTTATTATAGAATTTATTTTGGCT
68053221 ATCCAGCTCTACCTTTTATTTATTATAGAATTTATTTTGGCT
1 ATCCAGCTCTACCTTTTATTTATTATAGAATTTATTTTGGCT
68053263 A
1 A
68053264 AGTTATTACT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.25, C:0.16, G:0.09, T:0.49
Consensus pattern (42 bp):
ATCCAGCTCTACCTTTTATTTATTATAGAATTTATTTTGGCT
Found at i:68071835 original size:19 final size:20
Alignment explanation
Indices: 68071811--68071848 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
68071801 GACTCGTAAA
68071811 AAATT-ACTTTTTTAATTTC
1 AAATTAACTTTTTTAATTTC
*
68071830 AAATTAAGTTTTTTAATTT
1 AAATTAACTTTTTTAATTT
68071849 TTTTAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (20 bp):
AAATTAACTTTTTTAATTTC
Found at i:68072033 original size:18 final size:19
Alignment explanation
Indices: 68072000--68072042 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
68071990 CAAAAAAAAT
*
68072000 AAAATCAAAATAATTTTTA
1 AAAATCAAAATAATTTATA
*
68072019 AAAATTAAAAT-ATTTATA
1 AAAATCAAAATAATTTATA
68072037 AAAATC
1 AAAATC
68072043 CCAAATTTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAATCAAAATAATTTATA
Found at i:68081905 original size:15 final size:15
Alignment explanation
Indices: 68081885--68081918 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
68081875 ACCAAGGAAC
* *
68081885 GGAAAGAGAGGAGGA
1 GGAAAGAAAGGAAGA
68081900 GGAAAGAAAGGAAGA
1 GGAAAGAAAGGAAGA
68081915 GGAA
1 GGAA
68081919 TGTGAAAGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (15 bp):
GGAAAGAAAGGAAGA
Found at i:68091184 original size:18 final size:17
Alignment explanation
Indices: 68091154--68091222 Score: 61
Period size: 18 Copynumber: 4.1 Consensus size: 17
68091144 ATAATTTTGA
*
68091154 TTTT-AATTTTAATTAT
1 TTTTAAATTATAATTAT
68091170 TTTTAAATGTATAATTA-
1 TTTTAAAT-TATAATTAT
** * *
68091187 ACTCAGATTATAATTAT
1 TTTTAAATTATAATTAT
68091204 TTTTAAATATATAATTAT
1 TTTTAAAT-TATAATTAT
68091222 T
1 T
68091223 CTTGCTTTTA
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
16 12 0.30
17 11 0.28
18 17 0.43
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (17 bp):
TTTTAAATTATAATTAT
Found at i:68091440 original size:14 final size:14
Alignment explanation
Indices: 68091421--68091451 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
68091411 TTTTTTTTTC
*
68091421 TTAGTATTTATATT
1 TTAGTATTAATATT
68091435 TTAGTATTAATATT
1 TTAGTATTAATATT
68091449 TTA
1 TTA
68091452 ATATATGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.61
Consensus pattern (14 bp):
TTAGTATTAATATT
Found at i:68095929 original size:21 final size:21
Alignment explanation
Indices: 68095861--68095930 Score: 52
Period size: 21 Copynumber: 3.1 Consensus size: 21
68095851 ACAGGATATA
68095861 AAATGTGTAAGACCATGGTTG
1 AAATGTGTAAGACCATGGTTG
** * *
68095882 AAA-GATACAATGGCAACATGATATG
1 AAATG-TGTAA--G-ACCATGGT-TG
68095907 AAATGTGTAAGACCATGGTTG
1 AAATGTGTAAGACCATGGTTG
68095928 AAA
1 AAA
68095931 GATACCATGG
Statistics
Matches: 35, Mismatches: 8, Indels: 12
0.64 0.15 0.22
Matches are distributed among these distances:
20 1 0.03
21 11 0.31
22 6 0.17
23 2 0.06
24 6 0.17
25 8 0.23
26 1 0.03
ACGTcount: A:0.41, C:0.10, G:0.24, T:0.24
Consensus pattern (21 bp):
AAATGTGTAAGACCATGGTTG
Found at i:68096133 original size:46 final size:46
Alignment explanation
Indices: 68095723--68096131 Score: 502
Period size: 46 Copynumber: 8.9 Consensus size: 46
68095713 TTCTAAAATG
68095723 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATTAG-
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGA-TAGA
* *
68095769 AAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGATATA
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAGA
* * *
68095815 AAATGTGTAGGACCATGGTTGAAAGATACCATGGCAACAGGATATA
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAGA
*
68095861 AAATGTGTAAGACCATGGTTGAAAGATACAATGGCAACATGATATG-
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATA-GA
* *
68095907 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGATATA
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAGA
* * *
68095953 AAATGTGTAAAACCATGGTTGAAAGATACCATGGCAACATGA-CGG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAGA
* ** ** * *
68095998 GAATGAATAAGACCATGGTTGAAAGATACCATGGCAATGTAACATG-
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATA-GA
*** * *
68096044 AAATGAACAAGACCATGGTTGAAAGATACCATGGCAACCTGACAGA
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAGA
* * * * * *
68096090 AAATGAGTAAGACCATAGTTGAAAAACACTATGGCATCATGA
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGA
68096132 CAAAGATAAA
Statistics
Matches: 319, Mismatches: 38, Indels: 12
0.86 0.10 0.03
Matches are distributed among these distances:
45 38 0.12
46 280 0.88
47 1 0.00
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.21
Consensus pattern (46 bp):
AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAGA
Found at i:68097855 original size:19 final size:19
Alignment explanation
Indices: 68097831--68097868 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
68097821 TCAAATTTTG
*
68097831 AAAATAATTTTTA-AAATTC
1 AAAAT-ATTTATAGAAATTC
68097850 AAAATATTTATAGAAATTC
1 AAAATATTTATAGAAATTC
68097869 CTAAAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (19 bp):
AAAATATTTATAGAAATTC
Found at i:68098822 original size:11 final size:10
Alignment explanation
Indices: 68098782--68098838 Score: 55
Period size: 10 Copynumber: 5.8 Consensus size: 10
68098772 CTAATATATT
*
68098782 TTAAAAATCA
1 TTAAAAATTA
68098792 -TAAAAATT-
1 TTAAAAATTA
* *
68098800 CTAAAAAATA
1 TTAAAAATTA
*
68098810 TTAAAGGATTA
1 TTAAA-AATTA
68098821 TTAAAAATTA
1 TTAAAAATTA
68098831 TTAAAAAT
1 TTAAAAAT
68098839 GTCAAAATAG
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 14 0.37
10 16 0.42
11 8 0.21
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.33
Consensus pattern (10 bp):
TTAAAAATTA
Found at i:68108563 original size:14 final size:15
Alignment explanation
Indices: 68108538--68108570 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
68108528 TAATTGAAAT
*
68108538 AAATAATAATTTTTA
1 AAATAATAATTTTAA
68108553 AAATAAT-ATTTTAA
1 AAATAATAATTTTAA
68108567 AAAT
1 AAAT
68108571 GATGTAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AAATAATAATTTTAA
Found at i:68110203 original size:42 final size:48
Alignment explanation
Indices: 68110137--68110231 Score: 130
Period size: 42 Copynumber: 2.1 Consensus size: 48
68110127 AAAGTGTATT
*
68110137 TTAATATTTCCTTAAATTTATCTATTTAGA-T-T-ATATAATAT-ATA
1 TTAAAATTTCCTTAAATTTATCTATTTAGATTATAATATAATATAATA
*
68110181 TTAAAATTT-CTT-AATTTCTCTATTTAGATTATAATATAATATAATA
1 TTAAAATTTCCTTAAATTTATCTATTTAGATTATAATATAATATAATA
68110227 TTAAA
1 TTAAA
68110232 TTTATTTTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
42 15 0.33
43 4 0.09
44 9 0.20
45 9 0.20
46 8 0.18
ACGTcount: A:0.41, C:0.06, G:0.02, T:0.51
Consensus pattern (48 bp):
TTAAAATTTCCTTAAATTTATCTATTTAGATTATAATATAATATAATA
Found at i:68111238 original size:21 final size:21
Alignment explanation
Indices: 68111199--68111239 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
68111189 ATATTAAAAT
*
68111199 ATATTTTATATTAATATTTAC
1 ATATTTTAAATTAATATTTAC
68111220 ATATTTTACAATTAA-ATTTA
1 ATATTTTA-AATTAATATTTA
68111240 TATTCATCGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (21 bp):
ATATTTTAAATTAATATTTAC
Found at i:68112256 original size:21 final size:20
Alignment explanation
Indices: 68112231--68112280 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
68112221 TAAATAATTT
* *
68112231 AAAATTAAAAGAAGAGATAAA
1 AAAATGAAAAGAA-AGAAAAA
*
68112252 AAAATGAAAATAAAGAAAAA
1 AAAATGAAAAGAAAGAAAAA
68112272 AAAATGAAA
1 AAAATGAAA
68112281 CCAACAATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 15 0.58
21 11 0.42
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (20 bp):
AAAATGAAAAGAAAGAAAAA
Found at i:68113251 original size:26 final size:27
Alignment explanation
Indices: 68113164--68113272 Score: 105
Period size: 26 Copynumber: 3.9 Consensus size: 27
68113154 CATTTGACAA
* *
68113164 GTACCAAATT-GAACAAAAAAAATATTAA
1 GTACCAAATTAGAA-AAAATAAAT-TTAG
* *
68113192 ATACCAAATTAGGAAAAAATGTCAAATTTGG
1 GTACCAAATTA-GAAAAAA--T-AAATTTAG
*
68113223 GTACCAAATTAGACAAAA-AAATTTAG
1 GTACCAAATTAGAAAAAATAAATTTAG
68113249 GTACCAAATTAGAAAAAATAAATT
1 GTACCAAATTAGAAAAAATAAATT
68113273 CAGGCACTAA
Statistics
Matches: 67, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
26 24 0.36
27 5 0.07
28 9 0.13
29 4 0.06
30 9 0.13
31 12 0.18
32 4 0.06
ACGTcount: A:0.55, C:0.10, G:0.11, T:0.24
Consensus pattern (27 bp):
GTACCAAATTAGAAAAAATAAATTTAG
Found at i:68113284 original size:27 final size:26
Alignment explanation
Indices: 68113225--68113284 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
68113215 AAATTTGGGT
* * *
68113225 ACCAAATTAGACAAAAAAATTTAGGT
1 ACCAAATTAGAAAAAAAAATTCAGGC
68113251 ACCAAATTAGAAAAAATAAATTCAGGC
1 ACCAAATTAGAAAAAA-AAATTCAGGC
*
68113278 ACTAAAT
1 ACCAAAT
68113285 ATTATATTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 15 0.52
27 14 0.48
ACGTcount: A:0.55, C:0.13, G:0.10, T:0.22
Consensus pattern (26 bp):
ACCAAATTAGAAAAAAAAATTCAGGC
Found at i:68123049 original size:2 final size:2
Alignment explanation
Indices: 68123037--68123066 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
68123027 GCTTAGTTTT
*
68123037 GA GA GA CA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
68123067 AAGCTTGATC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.47, T:0.00
Consensus pattern (2 bp):
GA
Found at i:68124941 original size:34 final size:36
Alignment explanation
Indices: 68124881--68124948 Score: 88
Period size: 34 Copynumber: 1.9 Consensus size: 36
68124871 TGTTGTTTAA
* *
68124881 ATTATAAATATATTATTAATGTTATTATTTTATTAT
1 ATTATAAATATATAATTAATGTTATTATTATATTAT
68124917 ATTATAAAT-TA-AATTAAT-TATATTATTATATT
1 ATTATAAATATATAATTAATGT-TATTATTATATT
68124949 TTGAAATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 1 0.03
34 17 0.59
35 2 0.07
36 9 0.31
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (36 bp):
ATTATAAATATATAATTAATGTTATTATTATATTAT
Found at i:68124958 original size:29 final size:29
Alignment explanation
Indices: 68124904--68124962 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
68124894 TATTAATGTT
*
68124904 ATTATTTTATTATATTATAAATTAAATTA
1 ATTATATTATTATATTATAAATTAAATTA
*
68124933 ATTATATTATTATATTTTGAAA-TAAATTA
1 ATTATATTATTATATTAT-AAATTAAATTA
68124962 A
1 A
68124963 GAAAAGACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 24 0.89
30 3 0.11
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (29 bp):
ATTATATTATTATATTATAAATTAAATTA
Found at i:68128602 original size:22 final size:23
Alignment explanation
Indices: 68128575--68128828 Score: 226
Period size: 22 Copynumber: 11.0 Consensus size: 23
68128565 CACTAATGAA
*
68128575 CAGAGAGCACTGAA-GTGCT-AT
1 CAGAGAGCACTAAATGTGCTAAT
68128596 ACAGAGAGCAC-AAATGTGCTAAT
1 -CAGAGAGCACTAAATGTGCTAAT
* *
68128619 CAGAGAGCACT-GACGTGCTAAATAT
1 CAGAGAGCACTAAATGTGCT--A-AT
68128644 CAGAGAGCAC-AAATGTGCTAAT
1 CAGAGAGCACTAAATGTGCTAAT
*
68128666 CAGAGAGCACT-GATGTGCTAATATT
1 CAGAGAGCACTAAATGTGCT-A-A-T
68128691 CAGAGAGCAC-AAATGTGCTAAT
1 CAGAGAGCACTAAATGTGCTAAT
* *
68128713 CAGAGAGCACT-GACGTGCTAAATAT
1 CAGAGAGCACTAAATGTGCT--A-AT
68128738 CAGAGAGCAC-AAATGTGCTAAT
1 CAGAGAGCACTAAATGTGCTAAT
* *
68128760 CAGAGAGCACT-GACGTGCTAAATAT
1 CAGAGAGCACTAAATGTGCT--A-AT
68128785 CAGAGAGCAC-AAATGTGCTAAT
1 CAGAGAGCACTAAATGTGCTAAT
*
68128807 CAGAGAGCACT-AATGTACTAAT
1 CAGAGAGCACTAAATGTGCTAAT
68128829 ATTCAGAGAG
Statistics
Matches: 193, Mismatches: 16, Indels: 46
0.76 0.06 0.18
Matches are distributed among these distances:
21 2 0.01
22 107 0.55
23 7 0.04
24 5 0.03
25 72 0.37
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.20
Consensus pattern (23 bp):
CAGAGAGCACTAAATGTGCTAAT
Found at i:68128651 original size:47 final size:46
Alignment explanation
Indices: 68128575--68128840 Score: 428
Period size: 47 Copynumber: 5.7 Consensus size: 46
68128565 CACTAATGAA
*
68128575 CAGAGAGCACTGAAGTGCT-ATA-CAGAGAGCACAAATGTGCTAAT
1 CAGAGAGCACTGACGTGCTAATATCAGAGAGCACAAATGTGCTAAT
68128619 CAGAGAGCACTGACGTGCTAAATATCAGAGAGCACAAATGTGCTAAT
1 CAGAGAGCACTGACGTGCT-AATATCAGAGAGCACAAATGTGCTAAT
*
68128666 CAGAGAGCACTGATGTGCTAATATTCAGAGAGCACAAATGTGCTAAT
1 CAGAGAGCACTGACGTGCTAATA-TCAGAGAGCACAAATGTGCTAAT
68128713 CAGAGAGCACTGACGTGCTAAATATCAGAGAGCACAAATGTGCTAAT
1 CAGAGAGCACTGACGTGCT-AATATCAGAGAGCACAAATGTGCTAAT
68128760 CAGAGAGCACTGACGTGCTAAATATCAGAGAGCACAAATGTGCTAAT
1 CAGAGAGCACTGACGTGCT-AATATCAGAGAGCACAAATGTGCTAAT
* * *
68128807 CAGAGAGCACTAATGTACTAATATTCAGAGAGCA
1 CAGAGAGCACTGACGTGCTAATA-TCAGAGAGCA
68128841 TGCTGAGGTC
Statistics
Matches: 210, Mismatches: 6, Indels: 9
0.93 0.03 0.04
Matches are distributed among these distances:
44 18 0.09
46 11 0.05
47 177 0.84
48 4 0.02
ACGTcount: A:0.38, C:0.18, G:0.23, T:0.20
Consensus pattern (46 bp):
CAGAGAGCACTGACGTGCTAATATCAGAGAGCACAAATGTGCTAAT
Found at i:68128828 original size:141 final size:138
Alignment explanation
Indices: 68128575--68128840 Score: 478
Period size: 141 Copynumber: 1.9 Consensus size: 138
68128565 CACTAATGAA
68128575 CAGAGAGCACTGAAGTGCTATACAGAGAGCACAAATGTGCTAATCAGAGAGCACTGACGTGCTAA
1 CAGAGAGCACTGAAGTGCTATACAGAGAGCACAAATGTGCTAATCAGAGAGCACTGACGTGCTAA
* *
68128640 ATATCAGAGAGCACAAATGTGCTAATCAGAGAGCACTGATGTGCTAATATTCAGAGAGCACAAAT
66 ATATCAGAGAGCACAAATGTGCTAATCAGAGAGCACTAATGTACTAATATTCAGAGAGCACAAAT
68128705 GTGCTAAT
131 GTGCTAAT
*
68128713 CAGAGAGCACTGACGTGCTAAATATCAGAGAGCACAAATGTGCTAATCAGAGAGCACTGACGTGC
1 CAGAGAGCACTGAAGTGCT--ATA-CAGAGAGCACAAATGTGCTAATCAGAGAGCACTGACGTGC
68128778 TAAATATCAGAGAGCACAAATGTGCTAATCAGAGAGCACTAATGTACTAATATTCAGAGAGCA
63 TAAATATCAGAGAGCACAAATGTGCTAATCAGAGAGCACTAATGTACTAATATTCAGAGAGCA
68128841 TGCTGAGGTC
Statistics
Matches: 122, Mismatches: 3, Indels: 3
0.95 0.02 0.02
Matches are distributed among these distances:
138 18 0.15
140 3 0.02
141 101 0.83
ACGTcount: A:0.38, C:0.18, G:0.23, T:0.20
Consensus pattern (138 bp):
CAGAGAGCACTGAAGTGCTATACAGAGAGCACAAATGTGCTAATCAGAGAGCACTGACGTGCTAA
ATATCAGAGAGCACAAATGTGCTAATCAGAGAGCACTAATGTACTAATATTCAGAGAGCACAAAT
GTGCTAAT
Found at i:68133226 original size:24 final size:24
Alignment explanation
Indices: 68133199--68133252 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
68133189 TTTCTCCTAG
*
68133199 GGGAGCAAGAGGTGGTCCTTCAAT
1 GGGAGCAAGAGGTGGTCCTCCAAT
* *
68133223 GGGAGCAAGGGGTGGTCCTCCTAT
1 GGGAGCAAGAGGTGGTCCTCCAAT
68133247 GGGAGC
1 GGGAGC
68133253 TTCAAATCGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.20, C:0.19, G:0.43, T:0.19
Consensus pattern (24 bp):
GGGAGCAAGAGGTGGTCCTCCAAT
Found at i:68135576 original size:22 final size:21
Alignment explanation
Indices: 68135518--68135577 Score: 61
Period size: 22 Copynumber: 2.9 Consensus size: 21
68135508 AAAATTAGAA
*
68135518 AAATAATAAATA-ATAAATTTT
1 AAATAA-AAATATAAAAATTTT
* *
68135539 AAA-AAAATTATTAAAATTATT
1 AAATAAAAATATAAAAATT-TT
68135560 AAATAAAAATATAAAAAT
1 AAATAAAAATATAAAAAT
68135578 ATAAAATTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
19 4 0.13
20 7 0.23
21 8 0.26
22 12 0.39
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
AAATAAAAATATAAAAATTTT
Found at i:68135584 original size:21 final size:23
Alignment explanation
Indices: 68135541--68135584 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 23
68135531 TAAATTTTAA
* *
68135541 AAAAATTATTAAAATTATTAAAT
1 AAAAATTATTAAAAATATAAAAT
68135564 AAAAA-TA-TAAAAATATAAAAT
1 AAAAATTATTAAAAATATAAAAT
68135585 TAATTAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 12 0.63
22 2 0.11
23 5 0.26
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (23 bp):
AAAAATTATTAAAAATATAAAAT
Found at i:68135865 original size:9 final size:9
Alignment explanation
Indices: 68135793--68136028 Score: 74
Period size: 9 Copynumber: 25.2 Consensus size: 9
68135783 TTTGGTACTA
68135793 AATTTTTAT
1 AATTTTTAT
*
68135802 AATATTTAT
1 AATTTTTAT
68135811 -ATTTCTT-T
1 AATTT-TTAT
*
68135819 ACATTTTGCAT
1 A-ATTTT-TAT
68135830 AATTTGCTTAT
1 AATTT--TTAT
* * *
68135841 GACTTTATAA
1 -AATTTTTAT
68135851 AATTTTTAT
1 AATTTTTAT
68135860 AATTTTT-T
1 AATTTTTAT
*
68135868 ATATTTCTAT
1 A-ATTTTTAT
68135878 -ATATTTTAT
1 AAT-TTTTAT
* *
68135887 AAAATTTTAC
1 -AATTTTTAT
68135897 AATTTTTTAT
1 AA-TTTTTAT
*
68135907 ATTTTTTAT
1 AATTTTTAT
*
68135916 GATTTTTAT
1 AATTTTTAT
* *
68135925 ATTTTTTCT
1 AATTTTTAT
68135934 AATTTTTAAT
1 AATTTTT-AT
*
68135944 AAATATTTAGT
1 -AATTTTTA-T
*
68135955 -A-TTTGA-
1 AATTTTTAT
68135961 AATTTTTTATT
1 AA-TTTTTA-T
*
68135972 AAATTTTAAT
1 -AATTTTTAT
*
68135982 AATATTTAT
1 AATTTTTAT
*
68135991 AAATTTTATT
1 AATTTTTA-T
* *
68136001 GATTTTAAT
1 AATTTTTAT
*
68136010 -TTTTTTAT
1 AATTTTTAT
*
68136018 AATTTTAAT
1 AATTTTTAT
68136027 AA
1 AA
68136029 GAGCAGTAAC
Statistics
Matches: 162, Mismatches: 40, Indels: 50
0.64 0.16 0.20
Matches are distributed among these distances:
7 1 0.01
8 17 0.10
9 89 0.55
10 31 0.19
11 17 0.10
12 7 0.04
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.60
Consensus pattern (9 bp):
AATTTTTAT
Found at i:68135868 original size:10 final size:10
Alignment explanation
Indices: 68135853--68135945 Score: 72
Period size: 10 Copynumber: 9.9 Consensus size: 10
68135843 CTTTATAAAA
68135853 TTTTTATAAT
1 TTTTTATAAT
68135863 TTTTTAT-A-
1 TTTTTATAAT
*
68135871 TTTCTAT-AT
1 TTTTTATAAT
* *
68135880 ATTTTATAAA
1 TTTTTATAAT
* *
68135890 ATTTTACAAT
1 TTTTTATAAT
68135900 TTTTTAT-AT
1 TTTTTATAAT
*
68135909 TTTTTATGA-
1 TTTTTATAAT
68135918 TTTTTAT-AT
1 TTTTTATAAT
*
68135927 TTTTTCTAAT
1 TTTTTATAAT
*
68135937 TTTTAATAA
1 TTTTTATAA
68135946 ATATTTAGTA
Statistics
Matches: 67, Mismatches: 11, Indels: 10
0.76 0.12 0.11
Matches are distributed among these distances:
8 8 0.12
9 28 0.42
10 31 0.46
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:68135921 original size:37 final size:39
Alignment explanation
Indices: 68135837--68135921 Score: 122
Period size: 37 Copynumber: 2.3 Consensus size: 39
68135827 CATAATTTGC
* *
68135837 TTATGACTTTATAAAATTTTTATAATTTTTTATATTTCT
1 TTATGATTTTATAAAATTTTTACAATTTTTTATATTTCT
*
68135876 ATAT-ATTTTATAAAA-TTTTACAATTTTTTATATTT-T
1 TTATGATTTTATAAAATTTTTACAATTTTTTATATTTCT
68135912 TTATGATTTT
1 TTATGATTTT
68135922 TATATTTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
36 4 0.10
37 24 0.59
38 10 0.24
39 3 0.07
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (39 bp):
TTATGATTTTATAAAATTTTTACAATTTTTTATATTTCT
Found at i:68135928 original size:27 final size:27
Alignment explanation
Indices: 68135795--68135941 Score: 89
Period size: 27 Copynumber: 5.2 Consensus size: 27
68135785 TGGTACTAAA
* *
68135795 TTTTTATAATATTTATATTTCTTTACAT
1 TTTTTATAATTTTTATATTT-TTTATAT
** * * * *
68135823 TTTGCATAATTTGCTTATGACTTTATAAAA
1 TTTTTATAATTT--TTAT-ATTTTTTATAT
*
68135853 TTTTTATAATTTTT-TATATTTCTATAT
1 TTTTTATAATTTTTATAT-TTTTTATAT
* * *
68135880 ATTTTATAAAATTTTACAATTTTTTATAT
1 TTTTTAT-AATTTTTA-TATTTTTTATAT
* * *
68135909 TTTTTATGATTTTTATATTTTTTCTAA
1 TTTTTATAATTTTTATATTTTTTATAT
68135936 TTTTTA
1 TTTTTA
68135942 ATAAATATTT
Statistics
Matches: 89, Mismatches: 23, Indels: 15
0.70 0.18 0.12
Matches are distributed among these distances:
26 1 0.01
27 28 0.31
28 23 0.26
29 14 0.16
30 20 0.22
31 3 0.03
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.63
Consensus pattern (27 bp):
TTTTTATAATTTTTATATTTTTTATAT
Found at i:68136199 original size:90 final size:88
Alignment explanation
Indices: 68136038--68136231 Score: 241
Period size: 90 Copynumber: 2.2 Consensus size: 88
68136028 AGAGCAGTAA
* * * * *
68136038 CTTAATTGC-TTTTGTTGAAAAAGTTTTAGGGTCTTTTTGATGCATTTTGAAAGTTTAAGTATTC
1 CTTAATTGCTTTTTTTTGAAAAAGTTTGAGGGTCTTTTTGATGCATTTTAAAAGTTCAAGTACTC
* *
68136102 AATTGAGTGCAAAAAAAAGTAGGTG
66 AAATGAGTG-AAAAAAAA-TAGGGG
*
68136127 CTTAATTGCTTTTTTTTGAAAAGGTTTGAGGG-CTTTTTTGATGCATTTTAAAAGTTCAAGTAC-
1 CTTAATTGCTTTTTTTTGAAAAAGTTTGAGGGTC-TTTTTGATGCATTTTAAAAGTTCAAGTACT
*
68136190 CTAAATGAGTGTAAAAAAATAGGGG
65 C-AAATGAGTGAAAAAAAATAGGGG
*
68136215 CTTAATTACTTTTTTTT
1 CTTAATTGCTTTTTTTT
68136232 TTAATGAAGA
Statistics
Matches: 92, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
88 21 0.23
89 18 0.20
90 53 0.58
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (88 bp):
CTTAATTGCTTTTTTTTGAAAAAGTTTGAGGGTCTTTTTGATGCATTTTAAAAGTTCAAGTACTC
AAATGAGTGAAAAAAAATAGGGG
Found at i:68139646 original size:2 final size:2
Alignment explanation
Indices: 68139639--68139669 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
68139629 TTTGTGTAGA
68139639 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
68139670 AAAACCGTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:68147453 original size:13 final size:13
Alignment explanation
Indices: 68147435--68147459 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
68147425 TTCTCTTCCC
68147435 TTTTTTATTTTTA
1 TTTTTTATTTTTA
68147448 TTTTTTATTTTT
1 TTTTTTATTTTT
68147460 CACTATTTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTATTTTTA
Found at i:68150314 original size:16 final size:18
Alignment explanation
Indices: 68150285--68150320 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
68150275 TTAATCAATT
68150285 AATTAAATTAA-TTTCTC
1 AATTAAATTAATTTTCTC
68150302 AATTAAA-TAATTTTCTC
1 AATTAAATTAATTTTCTC
68150319 AA
1 AA
68150321 CTCAATATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 3 0.17
17 15 0.83
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (18 bp):
AATTAAATTAATTTTCTC
Found at i:68153661 original size:50 final size:50
Alignment explanation
Indices: 68153586--68153685 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
68153576 GCTTGAAGTT
68153586 TATCTCAAGTTTACCTATATTTAAAACTAACTAATTCAAGCCTATTTTTG
1 TATCTCAAGTTTACCTATATTTAAAACTAACTAATTCAAGCCTATTTTTG
68153636 TATCTCAAGTTTACCTATATTTAAAACTAACTAATTCAAGCCTATTTTTG
1 TATCTCAAGTTTACCTATATTTAAAACTAACTAATTCAAGCCTATTTTTG
68153686 GTTCAGGCAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.34, C:0.18, G:0.06, T:0.42
Consensus pattern (50 bp):
TATCTCAAGTTTACCTATATTTAAAACTAACTAATTCAAGCCTATTTTTG
Found at i:68153680 original size:27 final size:27
Alignment explanation
Indices: 68153599--68153680 Score: 75
Period size: 27 Copynumber: 3.2 Consensus size: 27
68153589 CTCAAGTTTA
68153599 CCTATATTTAAAACTAACTAATTCAAG
1 CCTATATTTAAAACTAACTAATTCAAG
* ** * *
68153626 CCTATTTTTGTATCT--C-AAGTT-TA-
1 CCTATATTTAAAACTAACTAA-TTCAAG
68153649 CCTATATTTAAAACTAACTAATTCAAG
1 CCTATATTTAAAACTAACTAATTCAAG
68153676 CCTAT
1 CCTAT
68153681 TTTTGGTTCA
Statistics
Matches: 39, Mismatches: 10, Indels: 12
0.64 0.16 0.20
Matches are distributed among these distances:
23 11 0.28
24 3 0.08
25 6 0.15
26 3 0.08
27 16 0.41
ACGTcount: A:0.37, C:0.20, G:0.05, T:0.39
Consensus pattern (27 bp):
CCTATATTTAAAACTAACTAATTCAAG
Found at i:68166163 original size:25 final size:25
Alignment explanation
Indices: 68166129--68166181 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
68166119 AAAGGAAAAT
*
68166129 TATATTTTTGGTCTGTCTATTTTTC
1 TATATTTTTGGTCTGCCTATTTTTC
68166154 TATATTTTTGGTCTGCCTATTTTTC
1 TATATTTTTGGTCTGCCTATTTTTC
68166179 TAT
1 TAT
68166182 CCCTTCAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.13, C:0.13, G:0.11, T:0.62
Consensus pattern (25 bp):
TATATTTTTGGTCTGCCTATTTTTC
Found at i:68174052 original size:4 final size:4
Alignment explanation
Indices: 68174037--68174067 Score: 53
Period size: 4 Copynumber: 7.5 Consensus size: 4
68174027 GAATAATAAT
68174037 AATA ATATA AATA AATA AATA AATA AATA AA
1 AATA A-ATA AATA AATA AATA AATA AATA AA
68174068 AGAGGAAGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 22 0.85
5 4 0.15
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
AATA
Found at i:68178363 original size:22 final size:22
Alignment explanation
Indices: 68178337--68178389 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
68178327 CAATGGTAGA
68178337 TGGGTAAACTTCATATTAAATG
1 TGGGTAAACTTCATATTAAATG
68178359 TGGGTAAACTTCATATTAAATG
1 TGGGTAAACTTCATATTAAATG
*
68178381 TTGGTAAAC
1 TGGGTAAAC
68178390 CACATCGGAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.36
Consensus pattern (22 bp):
TGGGTAAACTTCATATTAAATG
Found at i:68180635 original size:57 final size:57
Alignment explanation
Indices: 68180543--68180657 Score: 212
Period size: 57 Copynumber: 2.0 Consensus size: 57
68180533 TAATAGAAGC
* *
68180543 CCAGCAGCATTCCTTAATAGCAATAGCATTGTCTGCATGTATACAAATCCTAAACAT
1 CCAGCAACATTCCTTAATAGCAATAGCATTATCTGCATGTATACAAATCCTAAACAT
68180600 CCAGCAACATTCCTTAATAGCAATAGCATTATCTGCATGTATACAAATCCTAAACAT
1 CCAGCAACATTCCTTAATAGCAATAGCATTATCTGCATGTATACAAATCCTAAACAT
68180657 C
1 C
68180658 TTTTTGCTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.28
Consensus pattern (57 bp):
CCAGCAACATTCCTTAATAGCAATAGCATTATCTGCATGTATACAAATCCTAAACAT
Found at i:68180864 original size:15 final size:15
Alignment explanation
Indices: 68180844--68180873 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
68180834 AGGATTCTTA
*
68180844 GTATCTACATCATTT
1 GTATCTACATAATTT
68180859 GTATCTACATAATTT
1 GTATCTACATAATTT
68180874 TGATAAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.17, G:0.07, T:0.47
Consensus pattern (15 bp):
GTATCTACATAATTT
Found at i:68184628 original size:55 final size:55
Alignment explanation
Indices: 68184560--68184682 Score: 160
Period size: 55 Copynumber: 2.2 Consensus size: 55
68184550 ATTTCTCAAA
* * * * *
68184560 AATATTGCCTCTTTTGGATTGATTGTTTTTATGTTTAAATCGA-T-TTATATGTTCG
1 AATATTGCTTCTTTTGAATCGATTATTTATATGTTTAAATCGATTGTTAT-TG-TCG
*
68184615 AATATTGCTTCTTTTGAATCGATTATTTATATGTTTAAATCGATTGTTATTGTGG
1 AATATTGCTTCTTTTGAATCGATTATTTATATGTTTAAATCGATTGTTATTGTCG
68184670 AATATTGCTTCTT
1 AATATTGCTTCTT
68184683 CTTATTTTCA
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
55 53 0.88
56 3 0.05
57 4 0.07
ACGTcount: A:0.24, C:0.09, G:0.15, T:0.52
Consensus pattern (55 bp):
AATATTGCTTCTTTTGAATCGATTATTTATATGTTTAAATCGATTGTTATTGTCG
Found at i:68192713 original size:2 final size:2
Alignment explanation
Indices: 68192706--68192736 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
68192696 TGTAAAAGAA
68192706 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
68192737 AAAAGTGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:68195372 original size:68 final size:68
Alignment explanation
Indices: 68195299--68195450 Score: 177
Period size: 67 Copynumber: 2.2 Consensus size: 68
68195289 CATCATGTGT
* * * * *
68195299 ACAAGAGAGCTACGAGACATTATGATGTAGCTAGGTTGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTACGAGACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
68195362 TGTAG
64 TGTAG
* * *
68195367 ACAAGAGAGCTACG-G-GATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCAT
1 ACAAGAGAGCTACGAGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCAT
68195430 GTAG
65 GTAG
68195434 ACAAGAGAGCTACGAGA
1 ACAAGAGAGCTACGAGA
68195451 TAAACTGGCT
Statistics
Matches: 71, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
64 23 0.32
65 3 0.04
66 3 0.04
67 27 0.38
68 15 0.21
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.22
Consensus pattern (68 bp):
ACAAGAGAGCTACGAGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATG
TAG
Found at i:68196403 original size:22 final size:22
Alignment explanation
Indices: 68196378--68196423 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
68196368 TTATGAACCT
68196378 GTTTATGATTGTAATAGTGAAA
1 GTTTATGATTGTAATAGTGAAA
68196400 GTTTATGATTGTAATAGTGAAA
1 GTTTATGATTGTAATAGTGAAA
68196422 GT
1 GT
68196424 ATGTGTGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.35, C:0.00, G:0.24, T:0.41
Consensus pattern (22 bp):
GTTTATGATTGTAATAGTGAAA
Found at i:68197565 original size:10 final size:10
Alignment explanation
Indices: 68197490--68197605 Score: 67
Period size: 10 Copynumber: 11.4 Consensus size: 10
68197480 TCACTTTAGA
68197490 TTTTTATAAT
1 TTTTTATAAT
* *
68197500 ATTTAATAAT
1 TTTTTATAAT
*
68197510 TTTATATACCAAT
1 TTT-T-TA-TAAT
68197523 TTTTTAATAA-
1 TTTTT-ATAAT
*
68197533 TTTATATAAT
1 TTTTTATAAT
* *
68197543 TTTTTAGATT
1 TTTTTATAAT
68197553 TTTTTATAA-
1 TTTTTATAAT
*
68197562 -TTTTACAAT
1 TTTTTATAAT
*
68197571 ATTTTAATAAT
1 -TTTTTATAAT
* *
68197582 TTCTAATAAT
1 TTTTTATAAT
*
68197592 TTTTTAAAAT
1 TTTTTATAAT
68197602 TTTT
1 TTTT
68197606 AATGAAAAAT
Statistics
Matches: 79, Mismatches: 19, Indels: 16
0.69 0.17 0.14
Matches are distributed among these distances:
8 7 0.09
9 4 0.05
10 48 0.61
11 11 0.14
12 3 0.04
13 6 0.08
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.59
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:68198107 original size:10 final size:10
Alignment explanation
Indices: 68198059--68198142 Score: 55
Period size: 10 Copynumber: 8.1 Consensus size: 10
68198049 ATAACAAAAT
*
68198059 TTTTCTATAAT
1 TTTT-TATAAA
*
68198070 TTTCTTATATA
1 TTT-TTATAAA
*
68198081 TATTTATAAA
1 TTTTTATAAA
68198091 TTCTTTTATAAA
1 -T-TTTTATAAA
68198103 TTTTTA-AAA
1 TTTTTATAAA
* *
68198112 CTTTTAATAAG
1 -TTTTTATAAA
*
68198123 TTTTTATAAC
1 TTTTTATAAA
68198133 TTTTT-TAAA
1 TTTTTATAAA
68198142 T
1 T
68198143 AACTTTTTTT
Statistics
Matches: 58, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
9 7 0.12
10 29 0.50
11 13 0.22
12 9 0.16
ACGTcount: A:0.35, C:0.06, G:0.01, T:0.58
Consensus pattern (10 bp):
TTTTTATAAA
Found at i:68198121 original size:20 final size:19
Alignment explanation
Indices: 68198093--68198142 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 19
68198083 TTTATAAATT
68198093 CTTTTATAAATTTTTAAAA
1 CTTTTATAAATTTTTAAAA
* *
68198112 CTTTTAATAAGTTTTTATAA
1 CTTTT-ATAAATTTTTAAAA
*
68198132 CTTTTTTAAAT
1 CTTTTATAAAT
68198143 AACTTTTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 9 0.35
20 17 0.65
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.56
Consensus pattern (19 bp):
CTTTTATAAATTTTTAAAA
Found at i:68202809 original size:5 final size:5
Alignment explanation
Indices: 68202799--68202824 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
68202789 CTGTCTTAAA
68202799 AATAG AATAG AATAG AATAG AATAG A
1 AATAG AATAG AATAG AATAG AATAG A
68202825 TTTTCAGGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.19, T:0.19
Consensus pattern (5 bp):
AATAG
Found at i:68208075 original size:30 final size:31
Alignment explanation
Indices: 68208038--68208123 Score: 93
Period size: 30 Copynumber: 2.8 Consensus size: 31
68208028 TTGTTTAAAA
68208038 AAAAAATTAATAGGGATATTTTAGATAATAT
1 AAAAAATTAATAGGGATATTTTAGATAATAT
*** * *
68208069 -AAAAATTAATATAAATATTTTAGGTAGTAT
1 AAAAAATTAATAGGGATATTTTAGATAATAT
* * *
68208099 AAAAAATCAATAGGGGTAATTTAGA
1 AAAAAATTAATAGGGATATTTTAGA
68208124 CATTAACCAA
Statistics
Matches: 42, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
30 25 0.60
31 17 0.40
ACGTcount: A:0.51, C:0.01, G:0.14, T:0.34
Consensus pattern (31 bp):
AAAAAATTAATAGGGATATTTTAGATAATAT
Found at i:68215138 original size:14 final size:13
Alignment explanation
Indices: 68215116--68215157 Score: 57
Period size: 14 Copynumber: 3.1 Consensus size: 13
68215106 AATTCCAGTA
68215116 TTCTTTCTTGTTTC
1 TTCTTTCTT-TTTC
*
68215130 TTCTCTCTTTTCTC
1 TTCTTTCTTTT-TC
68215144 TTCTTTCTTTTTC
1 TTCTTTCTTTTTC
68215157 T
1 T
68215158 ATAAATTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 5 0.20
14 20 0.80
ACGTcount: A:0.00, C:0.26, G:0.02, T:0.71
Consensus pattern (13 bp):
TTCTTTCTTTTTC
Found at i:68216271 original size:15 final size:16
Alignment explanation
Indices: 68216251--68216285 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
68216241 ATAAAATTAC
68216251 ATATATTA-ATTTAAA
1 ATATATTATATTTAAA
*
68216266 ATATATTATATTTAAC
1 ATATATTATATTTAAA
68216282 ATAT
1 ATAT
68216286 GATTCTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (16 bp):
ATATATTATATTTAAA
Found at i:68217042 original size:24 final size:24
Alignment explanation
Indices: 68216982--68217042 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 24
68216972 TTATATATTC
*
68216982 AAATTAA-ATTTTATAAATAATTA
1 AAATTAATATTTTAAAAATAATTA
* *
68217005 ATATTAAT-TGTTTAAAAATATTTA
1 AAATTAATAT-TTTAAAAATAATTA
*
68217029 AAATTTATATTTTA
1 AAATTAATATTTTA
68217043 TATATTAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
23 7 0.23
24 22 0.73
25 1 0.03
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (24 bp):
AAATTAATATTTTAAAAATAATTA
Found at i:68218441 original size:14 final size:14
Alignment explanation
Indices: 68218415--68218483 Score: 72
Period size: 14 Copynumber: 5.1 Consensus size: 14
68218405 TTTTATACTA
*
68218415 TAAT-TATTCTTAT
1 TAATATATTATTAT
68218428 TAATATATTATTAT
1 TAATATATTATTAT
* *
68218442 T-TTCTATTATTAT
1 TAATATATTATTAT
68218455 T-ATATTATTATTAT
1 TAATA-TATTATTAT
*
68218469 TAATGTATTATTAT
1 TAATATATTATTAT
68218483 T
1 T
68218484 GTATTATCAC
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
13 16 0.34
14 29 0.62
15 2 0.04
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.62
Consensus pattern (14 bp):
TAATATATTATTAT
Found at i:68218470 original size:41 final size:41
Alignment explanation
Indices: 68218269--68218483 Score: 128
Period size: 41 Copynumber: 4.9 Consensus size: 41
68218259 ATTGTTAACA
** * *
68218269 TATTATTATTATTATTATTATTATCTTCTATATTTTTATTAT-
1 TATTATTATTA-TATTATTATTAT-TAATATATTATTATTTTC
* * ** *
68218311 TAGTGTTATT-TCATTATTATTATATGTTACTATTACATTCATTTTT
1 TATTATTATTAT-ATTATTATTAT-TAATA-TATT--ATT-ATTTTC
* * * * *
68218357 TATTATTCTTTTTATTAATATTATTATTACTATTATTTTTTTAC
1 TATTATT-ATTATATTATTATTATTAATA-TATTATTATTTT-C
* *
68218401 TATTTTTTATACTATAATTATTCTTATTAATATATTATTATTTTC
1 TA-TTATTAT--TAT-ATTATTATTATTAATATATTATTATTTTC
*
68218446 TATTATTATTATATTATTATTATTAATGTATTATTATT
1 TATTATTATTATATTATTATTATTAATATATTATTATT
68218484 GTATTATCAC
Statistics
Matches: 136, Mismatches: 24, Indels: 27
0.73 0.13 0.14
Matches are distributed among these distances:
40 1 0.01
41 38 0.28
42 15 0.11
43 4 0.03
44 14 0.10
45 11 0.08
46 27 0.20
47 25 0.18
48 1 0.01
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (41 bp):
TATTATTATTATATTATTATTATTAATATATTATTATTTTC
Found at i:68218504 original size:3 final size:3
Alignment explanation
Indices: 68218126--68218483 Score: 129
Period size: 3 Copynumber: 121.3 Consensus size: 3
68218116 TTAACTTTAA
* * * * * * * * *
68218126 TAT TAT TAT TGT TAT TAC TAG TAT TCT TAT AAA TGT TAT TCT TAT TTT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * **
68218174 TAT TAT TAC TAT TTT CTAT T-T T-T TAC TAT TGT TAT TAT T-T GCGT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
** * * * *
68218218 TAT TAT TCAT ATAT TAT TAT TGC TAT T-T TTT TAT TGT CAT TAT TGT
1 TAT TAT T-AT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
68218264 TAA CA- TAT TAT TAT TAT TAT TAT TAT TAT CT-T CTA- TAT TTT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT -TAT TAT TAT TAT
* * * * * *
68218308 TAT TAG TGT TAT T-T CAT TAT TAT TAT ATGT TAC TAT TA- CAT TCAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT T-AT
* * * * *
68218353 T-T T-T TAT TAT TCT TTT TAT TAA TAT TAT TAT TAC TAT TAT T-T TTT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
68218398 TAC TAT T-T T-T TA- TAC TAT AAT TAT TCT TAT TAA TA- TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
68218442 TTT CTAT TAT TAT TA- TAT TAT TAT TAT TAAT GTAT TAT TAT T
1 TAT -TAT TAT TAT TAT TAT TAT TAT TAT T-AT -TAT TAT TAT T
68218484 GTATTATCAC
Statistics
Matches: 257, Mismatches: 74, Indels: 48
0.68 0.20 0.13
Matches are distributed among these distances:
2 28 0.11
3 208 0.81
4 19 0.07
5 2 0.01
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:68221144 original size:3 final size:3
Alignment explanation
Indices: 68221138--68221276 Score: 67
Period size: 3 Copynumber: 47.0 Consensus size: 3
68221128 CTTGTTGTTT
* * *
68221138 TTA TTA TTA TT- TATA TTA TTG TTA TTA TTA TTA TTG TTA TTCC TTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA
* * * * *
68221184 GT- TTA TTA TTA TTA -TC TTA TCA TTA TT- TTCCA TTA TTG TTA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT--A TTA TTA TTA TTA
* * * * *
68221228 TCA ATA -TA CTA TTA TTA TTA TT- TTC TACA TTA TTA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
68221271 TTA TTA
1 TTA TTA
68221277 CCGTTGCTAT
Statistics
Matches: 103, Mismatches: 21, Indels: 24
0.70 0.14 0.16
Matches are distributed among these distances:
2 11 0.11
3 86 0.83
4 4 0.04
5 2 0.02
ACGTcount: A:0.29, C:0.08, G:0.03, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:68221148 original size:24 final size:24
Alignment explanation
Indices: 68221132--68221210 Score: 79
Period size: 24 Copynumber: 3.1 Consensus size: 24
68221122 ATTTCTCTTG
*
68221132 TTGTTTTTATTATTATTTATATTA
1 TTGTTATTATTATTATTTATATTA
*
68221156 TTGTTATTATTATTATTGT-TATTCC
1 TTGTTATTATTATTATT-TATATT-A
68221181 TTAGTTTATTATTATTATCTTATCATTA
1 TT-G-TTATTATTATTAT-TTAT-ATTA
68221209 TT
1 TT
68221211 TTCCATTATT
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
24 20 0.44
25 3 0.07
26 1 0.02
27 14 0.31
28 4 0.09
29 3 0.07
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.66
Consensus pattern (24 bp):
TTGTTATTATTATTATTTATATTA
Found at i:68221661 original size:90 final size:90
Alignment explanation
Indices: 68221567--68221851 Score: 244
Period size: 88 Copynumber: 3.1 Consensus size: 90
68221557 TGTATCGTTT
68221567 TATATGATAACTGTATTAAATTCTTTTTATTATTACTATTAATTTTAAAATTTTACATGTTATTT
1 TATATGATAACTGTATTAAATTCTTTTTATTATTACTATTAATTTTAAAATTTTACATGTTATTT
68221632 ATATTAAACTTTTGTACATATCTTC
66 ATATTAAACTTTTGTACATATCTTC
* * * *
68221657 TATAT-ATTAA-T-TATTCTAAATTATTATTATTATTATTATTATTATTATTATTTTTATTATTT
1 TATATGA-TAACTGTA-T-T-AA--ATT-CT-TT-TTATTATTACTATTA--A-TTTTA-AAATT
* * * *
68221719 TTATGATATTATTTAT-TCTAAACCTTTATACGCA-AT-TT-
53 TTA-CATGTTATTTATAT-TAAACTTTTGTA--CATATCTTC
* * * * *
68221757 TAAATTAT-TCTGTGTTAAATTCTTTTTATTATTACTATTAATTTTAAAATTTCACATGTTATTT
1 TATATGATAACTGTATTAAATTCTTTTTATTATTACTATTAATTTTAAAATTTTACATGTTATTT
68221821 ATATTAAACTTTTGTACATATCTTC
66 ATATTAAACTTTTGTACATATCTTC
68221846 TATATG
1 TATATG
68221852 TTAATTATTT
Statistics
Matches: 149, Mismatches: 22, Indels: 49
0.68 0.10 0.22
Matches are distributed among these distances:
86 2 0.01
87 2 0.01
88 24 0.16
89 13 0.09
90 14 0.09
91 3 0.02
93 17 0.11
94 3 0.02
95 3 0.02
96 17 0.11
98 3 0.02
99 6 0.04
100 14 0.09
101 24 0.16
102 2 0.01
103 2 0.01
ACGTcount: A:0.33, C:0.08, G:0.04, T:0.55
Consensus pattern (90 bp):
TATATGATAACTGTATTAAATTCTTTTTATTATTACTATTAATTTTAAAATTTTACATGTTATTT
ATATTAAACTTTTGTACATATCTTC
Found at i:68221684 original size:3 final size:3
Alignment explanation
Indices: 68221676--68221731 Score: 78
Period size: 3 Copynumber: 19.0 Consensus size: 3
68221666 ATTATTCTAA
* * *
68221676 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT TTT ATT ATT TTT ATG
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
68221724 A-T ATT ATT
1 ATT ATT ATT
68221732 TATTCTAAAC
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
2 1 0.02
3 45 0.98
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:68221934 original size:12 final size:13
Alignment explanation
Indices: 68221913--68221950 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
68221903 TTATACGCAA
68221913 ATTTTAAATTATT
1 ATTTTAAATTATT
*
68221926 -TTTTGAATTATT
1 ATTTTAAATTATT
*
68221938 ATTTTAAGTTATT
1 ATTTTAAATTATT
68221951 CTATTTATAG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (13 bp):
ATTTTAAATTATT
Found at i:68222642 original size:127 final size:127
Alignment explanation
Indices: 68222372--68222634 Score: 463
Period size: 127 Copynumber: 2.1 Consensus size: 127
68222362 GCCAACTTTA
* *
68222372 TAAAACAAAGGCGAAGTTTGATGTTTAGATATTCGAGGGATCGTGCCCTAATGTGTTGGGTTTCG
1 TAAAACAAAGGCGATGTTTGATGTTTAGAAATTCGAGGGATCGTGCCCTAATGTGTTGGGTTTCG
* *
68222437 ATCTTTTGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTCCGCATTTTTTAAACCT
66 ATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTCCGCATTTTCTAAACCT
68222499 TAAAACAAAGGCGATGTTTGATGTTTAGAAATTCGAGGGATCGTGCCCTAATGTGTTGGGTTTCG
1 TAAAACAAAGGCGATGTTTGATGTTTAGAAATTCGAGGGATCGTGCCCTAATGTGTTGGGTTTCG
* * *
68222564 ATCTTTCGTTTGTTTAAATAATCAAATTTCCTTTTAAAATTTCGTCTGCGTTTTCTAAACCT
66 ATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTCCGCATTTTCTAAACCT
68222626 TAAAACAAA
1 TAAAACAAA
68222635 TGAGATGTCC
Statistics
Matches: 129, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
127 129 1.00
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (127 bp):
TAAAACAAAGGCGATGTTTGATGTTTAGAAATTCGAGGGATCGTGCCCTAATGTGTTGGGTTTCG
ATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTCCGCATTTTCTAAACCT
Found at i:68222714 original size:98 final size:98
Alignment explanation
Indices: 68222545--68222732 Score: 358
Period size: 98 Copynumber: 1.9 Consensus size: 98
68222535 GGGATCGTGC
*
68222545 CCTAATGTGTTGGGTTTCGATCTTTCGTTTGTTTAAATAATCAAATTTCCTTTTAAAATTTCGTC
1 CCTAATGTGTTGGGTTTCGATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTC
*
68222610 TGCGTTTTCTAAACCTTAAAACAAATGAGATGT
66 CGCGTTTTCTAAACCTTAAAACAAATGAGATGT
68222643 CCTAATGTGTTGGGTTTCGATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTC
1 CCTAATGTGTTGGGTTTCGATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTC
68222708 CGCGTTTTCTAAACCTTAAAACAAA
66 CGCGTTTTCTAAACCTTAAAACAAA
68222733 GGCGATGTTT
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
98 88 1.00
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.42
Consensus pattern (98 bp):
CCTAATGTGTTGGGTTTCGATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTC
CGCGTTTTCTAAACCTTAAAACAAATGAGATGT
Found at i:68222809 original size:225 final size:225
Alignment explanation
Indices: 68222418--68222859 Score: 794
Period size: 225 Copynumber: 2.0 Consensus size: 225
68222408 GGGATCGTGC
*
68222418 CCTAATGTGTTGGGTTTCGATCTTTTGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTC
1 CCTAATGTGTTGGGTTTCGATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTC
* * *
68222483 CGCATTTTTTAAACCTTAAAACAAAGGCGATGTTTGATGTTTAGAAATTCGAGGGATCGTGCCCT
66 CGCATTTTCTAAACCTTAAAACAAAGGCGATGTTTGATGTTCAAAAATTCGAGGGATCGTGCCCT
* * * *
68222548 AATGTGTTGGGTTTCGATCTTTCGTTTGTTTAAATAATCAAATTTCCTTTTAAAATTTCGTCTGC
131 AATGTGTTAGGTTGCGATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTCCGC
68222613 GTTTTCTAAACCTTAAAACAAATGAGATGT
196 GTTTTCTAAACCTTAAAACAAATGAGATGT
68222643 CCTAATGTGTTGGGTTTCGATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTC
1 CCTAATGTGTTGGGTTTCGATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTC
* *
68222708 CGCGTTTTCTAAACCTTAAAACAAAGGCGATGTTTGGTGTTCAAAAATTCGAGGGATCGTGCCCT
66 CGCATTTTCTAAACCTTAAAACAAAGGCGATGTTTGATGTTCAAAAATTCGAGGGATCGTGCCCT
68222773 AATGTGTTAGGTTGCGATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTCCGC
131 AATGTGTTAGGTTGCGATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTCCGC
68222838 GTTTTCTAAACCTTAAAACAAA
196 GTTTTCTAAACCTTAAAACAAA
68222860 GGTGATGTTT
Statistics
Matches: 207, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
225 207 1.00
ACGTcount: A:0.27, C:0.17, G:0.16, T:0.40
Consensus pattern (225 bp):
CCTAATGTGTTGGGTTTCGATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTC
CGCATTTTCTAAACCTTAAAACAAAGGCGATGTTTGATGTTCAAAAATTCGAGGGATCGTGCCCT
AATGTGTTAGGTTGCGATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTCCGC
GTTTTCTAAACCTTAAAACAAATGAGATGT
Found at i:68222869 original size:127 final size:127
Alignment explanation
Indices: 68222643--68222962 Score: 498
Period size: 127 Copynumber: 2.5 Consensus size: 127
68222633 AATGAGATGT
68222643 CCTAATGTGTTGGGTTTCGATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTC
1 CCTAATGTGTTGGGTTTCGATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTC
* *
68222708 CGCGTTTTCTAAACCTTAAAACAAAGGCGATGTTTGGTGTTCAAAAATTCGAGGGATCGTGC
66 CGCGTTTTCTAAACCTTAAAACAAAGGCGATGTTTGATGTTCAAAAATTCGAGGAATCGTGC
* *
68222770 CCTAATGTGTTAGGTTGCGATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTC
1 CCTAATGTGTTGGGTTTCGATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTC
* * * *
68222835 CGCGTTTTCTAAACCTTAAAACAAAGGTGATGTTTGATGTTTAGAAATTTGAGGAATCGTGC
66 CGCGTTTTCTAAACCTTAAAACAAAGGCGATGTTTGATGTTCAAAAATTCGAGGAATCGTGC
* * ** **
68222897 CCTAATGTG-CGGAGTTTCGATCTTTCGTTTATCCAAATAATCAAACATCCCTTTAAAATTTCGT
1 CCTAATGTGTTGG-GTTTCGATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGT
68222961 CC
65 CC
68222963 ATATTTTTCT
Statistics
Matches: 176, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
126 1 0.01
127 175 0.99
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.38
Consensus pattern (127 bp):
CCTAATGTGTTGGGTTTCGATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTC
CGCGTTTTCTAAACCTTAAAACAAAGGCGATGTTTGATGTTCAAAAATTCGAGGAATCGTGC
Found at i:68224015 original size:2 final size:2
Alignment explanation
Indices: 68224008--68224033 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
68223998 GCCAACTTGT
68224008 CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA
68224034 TATATGTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:68229934 original size:13 final size:14
Alignment explanation
Indices: 68229918--68229953 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
68229908 CAATCTCATA
68229918 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
68229931 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
68229944 TCTC-ATTTCA
1 TCTCAATTTCA
68229954 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:68229943 original size:18 final size:19
Alignment explanation
Indices: 68229905--68229945 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
68229895 TGGTTCATGT
68229905 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
68229924 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
68229942 TTTC
1 TTTC
68229946 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:68230135 original size:39 final size:38
Alignment explanation
Indices: 68230068--68230202 Score: 101
Period size: 39 Copynumber: 3.4 Consensus size: 38
68230058 ACCAATATGG
* * *
68230068 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATATTTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAGAAATATTTGA
* * * *
68230107 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAAATATTTGA
* * * * *
68230145 TACCCAGTACCTCATCGAATCTATCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAGAAATAT-TTGA
*
68230186 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
68230203 ACTCGAGGTC
Statistics
Matches: 73, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAAATATTTGA
Found at i:68230468 original size:18 final size:19
Alignment explanation
Indices: 68230442--68230480 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
68230432 TTTCAATTCA
68230442 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
68230461 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
68230479 AT
1 AT
68230481 ATATATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:68231804 original size:5 final size:5
Alignment explanation
Indices: 68231794--68231850 Score: 62
Period size: 5 Copynumber: 11.0 Consensus size: 5
68231784 TTACTTATTT
* *
68231794 ATATA ATATAA TATATA ATATA ATATA CTATA ATATA ATAATA ATTTA
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
68231842 ATAT- ATATA
1 ATATA ATATA
68231851 TTTTAACACA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 7 0.16
7 4 0.09
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:68231810 original size:12 final size:12
Alignment explanation
Indices: 68231793--68231848 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
68231783 TTTACTTATT
68231793 TATATAATATAA
1 TATATAATATAA
68231805 TATATAATATAATA
1 TATATAATAT-A-A
68231819 TACTATAATATAA
1 TA-TATAATATAA
*
68231832 TA-ATAATTTAA
1 TATATAATATAA
68231843 TATATA
1 TATATA
68231849 TATTTTAACA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 10 0.26
12 13 0.33
13 4 0.10
14 4 0.10
15 8 0.21
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (12 bp):
TATATAATATAA
Found at i:68231863 original size:26 final size:26
Alignment explanation
Indices: 68231795--68231850 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
68231785 TACTTATTTA
*
68231795 TATAATATAATATATAATATAATATAC
1 TATAATATAACA-ATAATATAATATAC
* *
68231822 TATAATATAATAATAATTTAATATA-
1 TATAATATAACAATAATATAATATAC
68231847 TATA
1 TATA
68231851 TTTTAACACA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
25 4 0.14
26 12 0.43
27 12 0.43
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (26 bp):
TATAATATAACAATAATATAATATAC
Found at i:68233172 original size:29 final size:30
Alignment explanation
Indices: 68233140--68233198 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 30
68233130 TTATGTGTAT
*
68233140 AATTG-CATCAAATTAAAATTCATGTATAC
1 AATTGACATCAAATCAAAATTCATGTATAC
* *
68233169 AATTGCACATTAAATCAAAGTTCATGTATA
1 AATTG-ACATCAAATCAAAATTCATGTATA
68233199 ATTTTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 5 0.20
31 20 0.80
ACGTcount: A:0.44, C:0.14, G:0.08, T:0.34
Consensus pattern (30 bp):
AATTGACATCAAATCAAAATTCATGTATAC
Found at i:68233201 original size:29 final size:27
Alignment explanation
Indices: 68233135--68233201 Score: 71
Period size: 31 Copynumber: 2.3 Consensus size: 27
68233125 GAGTTTTATG
*
68233135 TGTATAATTGCATCAAATTAAAATTCA
1 TGTATAATTGCATCAAATCAAAATTCA
* *
68233162 TGTATACAATTGCACATTAAATCAAAGTTCA
1 TGTAT--AATTG--CATCAAATCAAAATTCA
68233193 TGTATAATT
1 TGTATAATT
68233202 TTAAAATTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
27 5 0.15
29 9 0.27
31 19 0.58
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.37
Consensus pattern (27 bp):
TGTATAATTGCATCAAATCAAAATTCA
Found at i:68234028 original size:20 final size:19
Alignment explanation
Indices: 68233977--68234029 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
68233967 ATTAATTTTG
*
68233977 TAATATTTTTTTATAATAT
1 TAATATTTTTTTAAAATAT
**
68233996 TAACT-TTCCTTTAAAATCAT
1 TAA-TATTTTTTTAAAAT-AT
68234016 TAATATTTTTTTAA
1 TAATATTTTTTTAA
68234030 TGAGTTAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 5
0.72 0.14 0.14
Matches are distributed among these distances:
19 13 0.50
20 13 0.50
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.57
Consensus pattern (19 bp):
TAATATTTTTTTAAAATAT
Found at i:68251937 original size:32 final size:32
Alignment explanation
Indices: 68251900--68252006 Score: 117
Period size: 32 Copynumber: 3.4 Consensus size: 32
68251890 TAAAGGAATA
68251900 TTGTTATCATTTAACAAAATTAAAGTTGAAAT
1 TTGTTATCATTTAACAAAATTAAAGTTGAAAT
* * *
68251932 TTGTTATCATTTTACAAAATTGAAGTTGTAAT
1 TTGTTATCATTTAACAAAATTAAAGTTGAAAT
* * * * **
68251964 TTGTTACCGTTTCA-AAAATAAAAGTTGATGT
1 TTGTTATCATTTAACAAAATTAAAGTTGAAAT
*
68251995 TTATTATCATTT
1 TTGTTATCATTT
68252007 CACAGAACTG
Statistics
Matches: 61, Mismatches: 14, Indels: 1
0.80 0.18 0.01
Matches are distributed among these distances:
31 21 0.34
32 40 0.66
ACGTcount: A:0.36, C:0.07, G:0.11, T:0.45
Consensus pattern (32 bp):
TTGTTATCATTTAACAAAATTAAAGTTGAAAT
Found at i:68252326 original size:21 final size:21
Alignment explanation
Indices: 68252279--68252326 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
68252269 TTAATCAATT
*
68252279 TAAATTTTAAAACCCTAAACC
1 TAAACTTTAAAACCCTAAACC
*
68252300 TTAACTTTAAAACCCT-AACC
1 TAAACTTTAAAACCCTAAACC
68252320 ATAAACT
1 -TAAACT
68252327 CTAACACAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.46, C:0.25, G:0.00, T:0.29
Consensus pattern (21 bp):
TAAACTTTAAAACCCTAAACC
Found at i:68252857 original size:12 final size:13
Alignment explanation
Indices: 68252835--68252864 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
68252825 GTTAAATAAT
68252835 TATTATATATTTA
1 TATTATATATTTA
68252848 TATT-TATATTTA
1 TATTATATATTTA
68252860 TATTA
1 TATTA
68252865 AATCACAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TATTATATATTTA
Found at i:68261579 original size:14 final size:15
Alignment explanation
Indices: 68261555--68261589 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
68261545 ACAAGACTAA
*
68261555 ATTCTTTCTTCTTTC
1 ATTCCTTCTTCTTTC
68261570 -TTCCTTCTTCTTTC
1 ATTCCTTCTTCTTTC
68261584 ATTCCT
1 ATTCCT
68261590 GTACCATGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.06, C:0.31, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTCCTTCTTCTTTC
Found at i:68269626 original size:6 final size:6
Alignment explanation
Indices: 68269612--68269645 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
68269602 GAAGTTTATC
68269612 AAAAA- AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
68269646 AGGTTAGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 5 0.18
6 23 0.82
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:68270509 original size:24 final size:25
Alignment explanation
Indices: 68270465--68270514 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 25
68270455 TCCCTAAACT
*
68270465 AAAAGTCTATCTTGTTGTGGCCAAA
1 AAAAGTCTATCGTGTTGTGGCCAAA
68270490 AAAAGTTCTATCGTG-T-TGGCCAAA
1 AAAAG-TCTATCGTGTTGTGGCCAAA
68270514 A
1 A
68270515 TGAAAAGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 9 0.39
25 6 0.26
26 8 0.35
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (25 bp):
AAAAGTCTATCGTGTTGTGGCCAAA
Found at i:68275915 original size:2 final size:2
Alignment explanation
Indices: 68275910--68275942 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
68275900 AAAATACTGC
68275910 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
68275943 AGTTTCTGCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:68284939 original size:23 final size:22
Alignment explanation
Indices: 68284913--68284958 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 22
68284903 TGTGATGACG
68284913 TTATCTT-ATAAATATGTATGAAT
1 TTATCTTGA-AAATATGT-TGAAT
68284936 TTATCTTGAAAATATGTTGAAT
1 TTATCTTGAAAATATGTTGAAT
68284958 T
1 T
68284959 GGTTTGGTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.27
23 15 0.68
24 1 0.05
ACGTcount: A:0.37, C:0.04, G:0.11, T:0.48
Consensus pattern (22 bp):
TTATCTTGAAAATATGTTGAAT
Found at i:68289997 original size:30 final size:30
Alignment explanation
Indices: 68289963--68290022 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
68289953 TATTCTATTA
68289963 TTAATTTTGTTATTATTTTAAAGACATTTG
1 TTAATTTTGTTATTATTTTAAAGACATTTG
*
68289993 TTAATTTTGTTATTATTTTAGAGACATTTG
1 TTAATTTTGTTATTATTTTAAAGACATTTG
68290023 CTTGTTAAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.28, C:0.03, G:0.12, T:0.57
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAAAGACATTTG
Found at i:68294735 original size:13 final size:13
Alignment explanation
Indices: 68294704--68294736 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
68294694 TAATCTCGTT
68294704 ATTTTTTATTAAA
1 ATTTTTTATTAAA
*
68294717 ACTTTTTATT-AA
1 ATTTTTTATTAAA
68294729 ATTTTTTA
1 ATTTTTTA
68294737 GTGTAAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 9 0.50
13 9 0.50
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (13 bp):
ATTTTTTATTAAA
Found at i:68296984 original size:51 final size:51
Alignment explanation
Indices: 68296908--68297009 Score: 195
Period size: 51 Copynumber: 2.0 Consensus size: 51
68296898 TTATTAGGTT
*
68296908 CATATGCACTCATTTTGGACTGTTTATGTCAGCTGTTATACCCGGAGAACA
1 CATATGCACTCATTTTGGACTGTTTATGTCAGCTGTTATACACGGAGAACA
68296959 CATATGCACTCATTTTGGACTGTTTATGTCAGCTGTTATACACGGAGAACA
1 CATATGCACTCATTTTGGACTGTTTATGTCAGCTGTTATACACGGAGAACA
68297010 AGTAAATGGT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (51 bp):
CATATGCACTCATTTTGGACTGTTTATGTCAGCTGTTATACACGGAGAACA
Found at i:68303189 original size:9 final size:9
Alignment explanation
Indices: 68303175--68303199 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
68303165 GAAAAAAGTG
68303175 TCCTTGGAT
1 TCCTTGGAT
68303184 TCCTTGGAT
1 TCCTTGGAT
68303193 TCCTTGG
1 TCCTTGG
68303200 CTTAAATTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.24, G:0.24, T:0.44
Consensus pattern (9 bp):
TCCTTGGAT
Found at i:68304498 original size:18 final size:18
Alignment explanation
Indices: 68304477--68304524 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
68304467 TAATAAGAAT
*
68304477 TATTAAAATATTATTTCA
1 TATTAAAATATTATATCA
68304495 TATTTAAAATAAATTATATCA
1 TA-TTAAAAT--ATTATATCA
68304516 T-TTAAAATA
1 TATTAAAATA
68304525 AACCACAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
17 1 0.04
18 2 0.08
19 14 0.54
21 9 0.35
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (18 bp):
TATTAAAATATTATATCA
Found at i:68305209 original size:228 final size:227
Alignment explanation
Indices: 68304805--68305467 Score: 785
Period size: 228 Copynumber: 2.9 Consensus size: 227
68304795 CTTTGAAGAA
* *
68304805 GATGCAGATCTTTGTCAAAACCCTTACCGGCAAGACCATAACACTCGAGGTCGAAAGCTCCGACA
1 GATGCAGATCTTTGTCAAAA-CCTTACCGGCAAGACCATCACCCTCGAGGTCGAAAGCTCCGACA
* * * *
68304870 CCATCGACAACGTCAAGGCCAAGATCCAAGACAAGGAAGGGATCCCACCCGACCAGCAGCGTCTC
65 CCATCGACAACGTTAAGGCCAAGATTCAAGACAAGGAAGGAATCCCACCTGACCAGCAGCGTCTC
* ** * * **
68304935 ATTTTCGCTGGCAAACAGCTCGAAGACGGTCGGACCCTT-GCTGATTATAACATCCAGAAAGAAT
130 ATCTTCGCTGGCAAACAATTGGAAGATGGGAGGA-CCTTGGCTGATTATAACATCCAGAAAGAAT
*
68304999 CCACCCTCCACCTCGTCTT-ACGCCTTCGTGG-GG
194 CCACCCTTCACCTCGTCTTGA-GCCTTCGTGGAGG
* * * *
68305032 GCATGCAAATCTTTGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGTTCCGAC
1 G-ATGCAGATCTTTGTCAAAACCTT-ACCGGCAAGACCATCACCCTCGAGGTCGAAAGCTCCGAC
* *
68305097 ACCATCGACAACGTTAAGGCCAAGATTCAAGACAAGGAAGGAATCCCACCTGACCAACAGCGTTT
64 ACCATCGACAACGTTAAGGCCAAGATTCAAGACAAGGAAGGAATCCCACCTGACCAGCAGCGTCT
* *
68305162 GATCTTCGCTGGCAAACAATTGGAAGATGGGAGGACCTTGGCTGATTATAATATCCA-AAAGGAA
129 CATCTTCGCTGGCAAACAATTGGAAGATGGGAGGACCTTGGCTGATTATAACATCCAGAAA-GAA
* * *
68305226 TCCACCCTTCACCTTGTTTTGAGGCTTCGTGGAGG
193 TCCACCCTTCACCTCGTCTTGAGCCTTCGTGGAGG
* * * * * * * * * *
68305261 GATGCAGATTTTTGTCAAGACTTTGACAGGCAAAACAATCACCTTGGAGGTTGAAAGCTCCGATA
1 GATGCAGATCTTTGTCAAAACCTT-ACCGGCAAGACCATCACCCTCGAGGTCGAAAGCTCCGACA
* * * * * * ** *
68305326 CCATTGACAATGTTAAGGCAAAGATTCAGGATAAGGAAGGAATCCCACCTGATCAGCAAAGGCTC
65 CCATCGACAACGTTAAGGCCAAGATTCAAGACAAGGAAGGAATCCCACCTGACCAGCAGCGTCTC
* * * * *
68305391 ATCTTTGCCGGCAAACAATTGGAAGATGGGAGGACTTTGGCTGATTATAACATTCAGAAAGAGTC
130 ATCTTCGCTGGCAAACAATTGGAAGATGGGAGGACCTTGGCTGATTATAACATCCAGAAAGAATC
*
68305456 TACCCTTCACCT
195 CACCCTTCACCT
68305468 TGTTCTTCGT
Statistics
Matches: 370, Mismatches: 59, Indels: 13
0.84 0.13 0.03
Matches are distributed among these distances:
227 12 0.03
228 351 0.95
229 7 0.02
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (227 bp):
GATGCAGATCTTTGTCAAAACCTTACCGGCAAGACCATCACCCTCGAGGTCGAAAGCTCCGACAC
CATCGACAACGTTAAGGCCAAGATTCAAGACAAGGAAGGAATCCCACCTGACCAGCAGCGTCTCA
TCTTCGCTGGCAAACAATTGGAAGATGGGAGGACCTTGGCTGATTATAACATCCAGAAAGAATCC
ACCCTTCACCTCGTCTTGAGCCTTCGTGGAGG
Found at i:68311306 original size:12 final size:12
Alignment explanation
Indices: 68311274--68311308 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
68311264 TTTTAGATTT
68311274 AAAAAATTAATA
1 AAAAAATTAATA
**
68311286 AAATTATTAATA
1 AAAAAATTAATA
68311298 AAAAAATTAAT
1 AAAAAATTAAT
68311309 TTATTCTTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AAAAAATTAATA
Found at i:68314067 original size:3 final size:3
Alignment explanation
Indices: 68314059--68314085 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
68314049 AGTATCTAAA
68314059 GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT
68314086 ATTGAACAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:68315685 original size:34 final size:34
Alignment explanation
Indices: 68315642--68315710 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
68315632 AACTGGAAAG
68315642 TACGAGTTTGTCATGTTTCGATGACCCAAAATGT
1 TACGAGTTTGTCATGTTTCGATGACCCAAAATGT
68315676 TACGAGTTTGTCATGTTTCGATGACCCAAAATGT
1 TACGAGTTTGTCATGTTTCGATGACCCAAAATGT
68315710 T
1 T
68315711 GGAATCGACT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.36
Consensus pattern (34 bp):
TACGAGTTTGTCATGTTTCGATGACCCAAAATGT
Found at i:68326364 original size:44 final size:44
Alignment explanation
Indices: 68326314--68326399 Score: 145
Period size: 44 Copynumber: 2.0 Consensus size: 44
68326304 AGATCCAACA
*
68326314 CAAATATTTTACGTGGAAAAACCCCTCTGAAAAGGATAAAAATC
1 CAAATATTTTACGTAGAAAAACCCCTCTGAAAAGGATAAAAATC
* *
68326358 CAAATATTTTATGTAGAAAAACCCCTCTGAAGAGGATAAAAA
1 CAAATATTTTACGTAGAAAAACCCCTCTGAAAAGGATAAAAA
68326400 ACCACATGCA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.47, C:0.16, G:0.14, T:0.23
Consensus pattern (44 bp):
CAAATATTTTACGTAGAAAAACCCCTCTGAAAAGGATAAAAATC
Found at i:68330527 original size:13 final size:13
Alignment explanation
Indices: 68330509--68330552 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
68330499 ATCAAACAAC
68330509 ATAATTATATTAA
1 ATAATTATATTAA
*
68330522 ATAATTATATTTA
1 ATAATTATATTAA
* *
68330535 CTAATT-TACTAA
1 ATAATTATATTAA
68330547 ATAATT
1 ATAATT
68330553 TTCTTCATAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
12 9 0.35
13 17 0.65
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (13 bp):
ATAATTATATTAA
Found at i:68334185 original size:9 final size:10
Alignment explanation
Indices: 68334176--68334231 Score: 70
Period size: 9 Copynumber: 6.2 Consensus size: 10
68334166 TTCTTAACTT
68334176 TTCTTTC-T-
1 TTCTTTCTTC
68334184 TTCTTTCTTC
1 TTCTTTCTTC
68334194 TTC-TTCTTC
1 TTCTTTCTTC
68334203 TTC-TTCTTC
1 TTCTTTCTTC
68334212 TTC-TTCTTC
1 TTCTTTCTTC
68334221 TTC-TTCTTC
1 TTCTTTCTTC
68334230 TT
1 TT
68334232 TTTTGCGATG
Statistics
Matches: 46, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
8 7 0.15
9 36 0.78
10 3 0.07
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (10 bp):
TTCTTTCTTC
Found at i:68334196 original size:3 final size:3
Alignment explanation
Indices: 68334188--68334231 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
68334178 CTTTCTTTCT
68334188 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
68334232 TTTTGCGATG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:68335631 original size:16 final size:16
Alignment explanation
Indices: 68335610--68335643 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
68335600 CCCATTAGGA
68335610 CACAAAATCGAATTAT
1 CACAAAATCGAATTAT
68335626 CACAAAATCGAATTAT
1 CACAAAATCGAATTAT
68335642 CA
1 CA
68335644 TCGCACATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.50, C:0.21, G:0.06, T:0.24
Consensus pattern (16 bp):
CACAAAATCGAATTAT
Found at i:68342628 original size:58 final size:58
Alignment explanation
Indices: 68342534--68342659 Score: 155
Period size: 58 Copynumber: 2.2 Consensus size: 58
68342524 GGGCCCCTCT
* * * * * *
68342534 GTGAACCTTTTGGGCTCTCAACGGAGATAAGGCATATCTTCAATATCTCGA-CTCTTTC
1 GTGAACCCTTTGGGATCTCAACGAAGATAAGACATATCTTCAATATCTAGACCTC-TCC
* * *
68342592 GTGAACCCTTTGGGATCTCAGCGAAGATGAGACATATCTTCAATATTTAGACCTCTCC
1 GTGAACCCTTTGGGATCTCAACGAAGATAAGACATATCTTCAATATCTAGACCTCTCC
68342650 GTGAACCCTT
1 GTGAACCCTT
68342660 CGAGCACTAT
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
58 55 0.95
59 3 0.05
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (58 bp):
GTGAACCCTTTGGGATCTCAACGAAGATAAGACATATCTTCAATATCTAGACCTCTCC
Found at i:68342903 original size:291 final size:294
Alignment explanation
Indices: 68342224--68343109 Score: 1483
Period size: 291 Copynumber: 3.0 Consensus size: 294
68342214 TTTCGTAACA
*
68342224 TTTGGGCCCCTTTGTGAACCTTTTGGGCTCTCAACGGAGGTAAGGCATATCTTCAATATCTCGAC
1 TTTGGGCCCCTCTGTGAACCTTTTGGGCTCTCAACGGAGGTAAGGCATATCTTCAATATCTCGAC
* * *
68342289 CCTTTCGTGAACCCTTTGGGATCTCAGCGAAGGTGAGACATATCTTCATTATTTAGACATCTCCG
66 CCTTTCGTGAACCCTTTGGGATCTCAGCGAAGATGAGACATATCTTCAATATTTAGACCTCTCCG
68342354 TGAACCCTTCGAGCACTATGAATTTCTAGTGACTAACATATATTACACATTTCTTATGTTTCAAT
131 TGAACCCTTCGAGCACTATGAATTTCTAGTGACTAACATATATTACACATTTCTTATGTTTCAAT
* *
68342419 GAATAGGTCGTAT-TCCTACATTTTATTACCAACAGTCAGCTTAAATCTTTTTTATTTTACATTT
196 GAATAGGTCGTATCTCTTACATTTTATTA-C-ACA--CAGCTTAAATCTTTTCTATTTTACATTT
*
68342483 CTAATAATCTAAAAAAGTTTATATCAAGCAAATGACCT
257 CTAATAATCTAAAAAAGTTTATATCAAGCAAACGACCT
*
68342521 TTTGGGCCCCTCTGTGAACCTTTTGGGCTCTCAACGGAGATAAGGCATATCTTCAATATCTCGAC
1 TTTGGGCCCCTCTGTGAACCTTTTGGGCTCTCAACGGAGGTAAGGCATATCTTCAATATCTCGAC
*
68342586 TCTTTCGTGAACCCTTTGGGATCTCAGCGAAGATGAGACATATCTTCAATATTTAGACCTCTCCG
66 CCTTTCGTGAACCCTTTGGGATCTCAGCGAAGATGAGACATATCTTCAATATTTAGACCTCTCCG
* *
68342651 TGAACCCTTCGAGCACTATGAATTTCTAGTGACTAACATATATTACATATTTCTTATATTTCAAT
131 TGAACCCTTCGAGCACTATGAATTTCTAGTGACTAACATATATTACACATTTCTTATGTTTCAAT
* *
68342716 GAATAGGTCGTATCTCTTATATTTTATT-C-C-CAGCTTAAATATTTTCTATTTTACATTTCTAA
196 GAATAGGTCGTATCTCTTACATTTTATTACACACAGCTTAAATCTTTTCTATTTTACATTTCTAA
68342778 TAATCTAAAAAAGTTTATATCAAGCAAACGACCT
261 TAATCTAAAAAAGTTTATATCAAGCAAACGACCT
* * *
68342812 TTTGGGCCCCTCTATGAACCTTTTGGGCTCTCAACTGAGGTAAGGCATATCTTCAATATCTTGAC
1 TTTGGGCCCCTCTGTGAACCTTTTGGGCTCTCAACGGAGGTAAGGCATATCTTCAATATCTCGAC
* * *
68342877 CCTTTCGTGAACCCTTTGGAATCTCAGCGAAGATGAGACATATCTTTAATATTTAGACCTCTCCA
66 CCTTTCGTGAACCCTTTGGGATCTCAGCGAAGATGAGACATATCTTCAATATTTAGACCTCTCCG
68342942 TGAACCCTTCGAGCACTATGAATTTCTAGTGACTAACATATATTACACATTTCTTATGTTTCAAT
131 TGAACCCTTCGAGCACTATGAATTTCTAGTGACTAACATATATTACACATTTCTTATGTTTCAAT
*
68343007 GAATAGGTCGTGTCTCTTACATTTTATTACCAACAGTCAGCTTAAATCTTTTCTATTTTACATTT
196 GAATAGGTCGTATCTCTTACATTTTATTA-C-ACA--CAGCTTAAATCTTTTCTATTTTACATTT
*
68343072 CTAATAATCTAAAAAGGTTTATATCAAGCAAACGACCT
257 CTAATAATCTAAAAAAGTTTATATCAAGCAAACGACCT
68343110 ACCAAAGTGC
Statistics
Matches: 554, Mismatches: 27, Indels: 15
0.93 0.05 0.03
Matches are distributed among these distances:
291 274 0.49
293 1 0.00
294 1 0.00
295 1 0.00
296 1 0.00
297 200 0.36
298 76 0.14
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (294 bp):
TTTGGGCCCCTCTGTGAACCTTTTGGGCTCTCAACGGAGGTAAGGCATATCTTCAATATCTCGAC
CCTTTCGTGAACCCTTTGGGATCTCAGCGAAGATGAGACATATCTTCAATATTTAGACCTCTCCG
TGAACCCTTCGAGCACTATGAATTTCTAGTGACTAACATATATTACACATTTCTTATGTTTCAAT
GAATAGGTCGTATCTCTTACATTTTATTACACACAGCTTAAATCTTTTCTATTTTACATTTCTAA
TAATCTAAAAAAGTTTATATCAAGCAAACGACCT
Found at i:68347263 original size:33 final size:33
Alignment explanation
Indices: 68347221--68347286 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
68347211 AAAAAAGCAA
68347221 GTGCAGAAGCAACCACCACTGCACTATGAATTT
1 GTGCAGAAGCAACCACCACTGCACTATGAATTT
68347254 GTGCAGAAGCAACCACCACTGCACTATGAATTT
1 GTGCAGAAGCAACCACCACTGCACTATGAATTT
68347287 ACTCTACAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.21
Consensus pattern (33 bp):
GTGCAGAAGCAACCACCACTGCACTATGAATTT
Found at i:68350971 original size:19 final size:19
Alignment explanation
Indices: 68350924--68350963 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
68350914 TTGACACAAG
*
68350924 TTAATACTAACATAACAAATA
1 TTAATA-TAA-ATAAAAAATA
68350945 TTAATATAAATAAAAAATA
1 TTAATATAAATAAAAAATA
68350964 CTTATATACG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 3 0.17
21 6 0.33
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.30
Consensus pattern (19 bp):
TTAATATAAATAAAAAATA
Found at i:68351775 original size:23 final size:22
Alignment explanation
Indices: 68351749--68351792 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
68351739 GTAAATTTAA
68351749 CTTTATACT-TTTTAATTCTTTGT
1 CTTTATA-TATTTTAATT-TTTGT
68351772 CTTTATATATTTTAATTTTTG
1 CTTTATATATTTTAATTTTTG
68351793 AAATTTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.20, C:0.09, G:0.05, T:0.66
Consensus pattern (22 bp):
CTTTATATATTTTAATTTTTGT
Found at i:68352664 original size:21 final size:23
Alignment explanation
Indices: 68352617--68352665 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 23
68352607 AGTCATAATA
*
68352617 ATTAAATTAAATTAACAATTTAC
1 ATTAAATTAAATTAACAATTAAC
* *
68352640 ATTAAA-T-AATTAATAATTAAG
1 ATTAAATTAAATTAACAATTAAC
68352661 ATTAA
1 ATTAA
68352666 GTTAGAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 16 0.70
22 1 0.04
23 6 0.26
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (23 bp):
ATTAAATTAAATTAACAATTAAC
Done.