Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 203 of 295
Found at i:69493408 original size:37 final size:37
Alignment explanation
Indices: 69493366--69493442 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
69493356 AAGCAGTTTC
69493366 ACAATCTAAAGTTTGAGTATACGTAGTTTCATAATCT
1 ACAATCTAAAGTTTGAGTATACGTAGTTTCATAATCT
69493403 ACAATCTAAAGTTTGAGTATACGTAGTTTCATAATCT
1 ACAATCTAAAGTTTGAGTATACGTAGTTTCATAATCT
69493440 ACA
1 ACA
69493443 TTCTTAGTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.36
Consensus pattern (37 bp):
ACAATCTAAAGTTTGAGTATACGTAGTTTCATAATCT
Found at i:69496269 original size:22 final size:23
Alignment explanation
Indices: 69496239--69496283 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
69496229 GAGTTACACA
*
69496239 TGATTTATAAAATGTG-AAATAT
1 TGATATATAAAATGTGTAAATAT
* *
69496261 TGATATATATATTGTGTAAATAT
1 TGATATATAAAATGTGTAAATAT
69496284 GTTATTAGCA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.44
Consensus pattern (23 bp):
TGATATATAAAATGTGTAAATAT
Found at i:69499680 original size:23 final size:23
Alignment explanation
Indices: 69499646--69499696 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
69499636 GCAAATTAAG
* *
69499646 AGAAAAACAAGAACGAAAAG-AA
1 AGAAAAAAAAGAAAGAAAAGAAA
69499668 AGAAAAATAAAGAAAGAAAAGAAA
1 AGAAAAA-AAAGAAAGAAAAGAAA
69499692 AGAAA
1 AGAAA
69499697 GATGCACAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 7 0.28
23 11 0.44
24 7 0.28
ACGTcount: A:0.76, C:0.04, G:0.18, T:0.02
Consensus pattern (23 bp):
AGAAAAAAAAGAAAGAAAAGAAA
Found at i:69499681 original size:14 final size:14
Alignment explanation
Indices: 69499660--69499698 Score: 62
Period size: 14 Copynumber: 2.8 Consensus size: 14
69499650 AAACAAGAAC
69499660 GAAAAGAAAGAAAA
1 GAAAAGAAAGAAAA
69499674 -ATAAAGAAAGAAAA
1 GA-AAAGAAAGAAAA
69499688 GAAAAGAAAGA
1 GAAAAGAAAGA
69499699 TGCACAACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 1 0.04
14 21 0.91
15 1 0.04
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.03
Consensus pattern (14 bp):
GAAAAGAAAGAAAA
Found at i:69501830 original size:67 final size:67
Alignment explanation
Indices: 69501732--69501907 Score: 273
Period size: 67 Copynumber: 2.6 Consensus size: 67
69501722 GAACAAAAAT
* *
69501732 ATATATATGGCGAA-GCCACCAGATTGCAGCGAGGCTACCAGATATTGTGACGAAGTCACCAGAA
1 ATATATGTGGC-AAGGCCACCAGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAA
69501796 CAG
65 CAG
* * *
69501799 ATATATGTGGCAAGGCCACCAGATTGTAGCGAGGCTGCCAGATATTGTGACGAAGTTAGCAGAAC
1 ATATATGTGGCAAGGCCACCAGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAAC
69501864 AG
66 AG
* *
69501866 ATATATGTGGCGAGGCCACCAAATTGCAGCGAGGCTGCCAGA
1 ATATATGTGGCAAGGCCACCAGATTGCAGCGAGGCTGCCAGA
69501908 ACGCTTCCTC
Statistics
Matches: 100, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
66 2 0.02
67 98 0.98
ACGTcount: A:0.32, C:0.21, G:0.28, T:0.19
Consensus pattern (67 bp):
ATATATGTGGCAAGGCCACCAGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAAC
AG
Found at i:69509159 original size:27 final size:26
Alignment explanation
Indices: 69509111--69509170 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
69509101 GCGAGGCTGC
*
69509111 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
69509138 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
69509164 CAGATAT
1 CAGATAT
69509171 ATATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:69509301 original size:66 final size:66
Alignment explanation
Indices: 69509175--69509301 Score: 195
Period size: 66 Copynumber: 1.9 Consensus size: 66
69509165 AGATATATAT
* *
69509175 ATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAAACA
1 ATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCTGCCAGATATTGCGACGAAGCCACCAAACA
69509240 G
66 G
*
69509241 ATATATGTGGCGAGGCCA-CAGATTGCAGCGAGGCTGCCAGATATGTGCGACAGAA-CCACCA
1 ATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCTGCCAGATAT-TGCGAC-GAAGCCACCA
69509302 TTGCAGCGAG
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
65 26 0.46
66 27 0.48
67 3 0.05
ACGTcount: A:0.31, C:0.24, G:0.28, T:0.17
Consensus pattern (66 bp):
ATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCTGCCAGATATTGCGACGAAGCCACCAAACA
G
Found at i:69513625 original size:29 final size:29
Alignment explanation
Indices: 69513562--69513629 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
69513552 TAATCAACCA
69513562 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
69513591 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
69513620 CGCACACTTA
1 CGCACACTTA
69513630 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:69524027 original size:46 final size:45
Alignment explanation
Indices: 69523960--69524131 Score: 179
Period size: 46 Copynumber: 3.7 Consensus size: 45
69523950 AACCCGCCCC
* * *
69523960 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGGTGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGG-ATTCGCATCCA
*
69524006 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GGATTC-CTAGTTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGATTCGC-A--TCCA
* * * *
69524052 TCTTA-CGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCGG-GATTCGCATCCA
*
69524099 TAGGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
69524132 ATGCTCAACC
Statistics
Matches: 104, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 3 0.03
46 59 0.57
47 28 0.27
48 3 0.03
49 5 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGATTCGCATCCA
Found at i:69524075 original size:93 final size:93
Alignment explanation
Indices: 69523965--69524133 Score: 277
Period size: 93 Copynumber: 1.8 Consensus size: 93
69523955 GCCCCTAAGT
***
69523965 GAACTCAGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
69524030 CGAGTTCGGATTCCTAGTTACATCTTAC
66 CGAGTTCGGATTCCTAGTTACATCTTAC
* *
69524058 GAACTC-GAACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCA
1 GAACTCAG-ACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
69524122 ACGAGTTCGGAT
65 ACGAGTTCGGAT
69524134 GCTCAACCAT
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 1 0.01
93 69 0.99
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATTCCTAGTTACATCTTAC
Found at i:69524587 original size:30 final size:30
Alignment explanation
Indices: 69524553--69524613 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
69524543 CATTTAATAC
69524553 AAACTTTGGAAAAATTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
* * *
69524583 AAACTTTTGCATAATTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
69524613 A
1 A
69524614 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.31, C:0.25, G:0.08, T:0.36
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACACTTTTGCCCCT
Found at i:69536623 original size:39 final size:39
Alignment explanation
Indices: 69536564--69536813 Score: 210
Period size: 39 Copynumber: 6.5 Consensus size: 39
69536554 TGTAATTATT
* ** * *
69536564 CCTTGATTGCACATATGTGCCATTGTTGTACTGCGGTAC
1 CCTTGATTGCACATACGTGCCCCTGTTGTACTTCAGTAC
* * *
69536603 CCTTAATTGCACATATGTGCCCCCTGTTGTACTTTAGTAC
1 CCTTGATTGCACATACGTG-CCCCTGTTGTACTTCAGTAC
* *
69536643 CCTTAATTGTACATACGTGCCCCTGTTGTA-TTCCAGTAC
1 CCTTGATTGCACATACGTGCCCCTGTTGTACTT-CAGTAC
* * * ** *
69536682 CCCTGATCGCACATACATG-CTTTGTTGTACTTCAATAC
1 CCTTGATTGCACATACGTGCCCCTGTTGTACTTCAGTAC
*
69536720 CCTTGATTGCACATACATGCCCCTGTTG----T-A-TAC
1 CCTTGATTGCACATACGTGCCCCTGTTGTACTTCAGTAC
* * *
69536753 CCCTGATTGCACATTCGTGCCCTTGTTGTACTTCAGTAC
1 CCTTGATTGCACATACGTGCCCCTGTTGTACTTCAGTAC
* * *
69536792 CCCTAATTTGCACTTACGTGCC
1 CCTTGA-TTGCACATACGTGCC
69536814 TTGATTACAT
Statistics
Matches: 172, Mismatches: 28, Indels: 21
0.78 0.13 0.10
Matches are distributed among these distances:
33 27 0.16
34 1 0.01
35 1 0.01
37 1 0.01
38 33 0.19
39 64 0.37
40 45 0.26
ACGTcount: A:0.20, C:0.29, G:0.16, T:0.35
Consensus pattern (39 bp):
CCTTGATTGCACATACGTGCCCCTGTTGTACTTCAGTAC
Found at i:69536721 original size:38 final size:38
Alignment explanation
Indices: 69536666--69536739 Score: 105
Period size: 38 Copynumber: 1.9 Consensus size: 38
69536656 TACGTGCCCC
*
69536666 TGTTGTATTCCAGTACCCCTGATCGCACATACATGCTT
1 TGTTGTATTCCAATACCCCTGATCGCACATACATGCTT
* *
69536704 TGTTGTACTT-CAATACCCTTGATTGCACATACATGC
1 TGTTGTA-TTCCAATACCCCTGATCGCACATACATGC
69536740 CCCTGTTGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
38 30 0.94
39 2 0.06
ACGTcount: A:0.23, C:0.27, G:0.15, T:0.35
Consensus pattern (38 bp):
TGTTGTATTCCAATACCCCTGATCGCACATACATGCTT
Found at i:69536760 original size:33 final size:33
Alignment explanation
Indices: 69536716--69536782 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
69536706 TTGTACTTCA
*
69536716 ATACCCTTGATTGCACATACATGCCCCTGTTGT
1 ATACCCCTGATTGCACATACATGCCCCTGTTGT
* * *
69536749 ATACCCCTGATTGCACATTCGTGCCCTTGTTGT
1 ATACCCCTGATTGCACATACATGCCCCTGTTGT
69536782 A
1 A
69536783 CTTCAGTACC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.19, C:0.30, G:0.16, T:0.34
Consensus pattern (33 bp):
ATACCCCTGATTGCACATACATGCCCCTGTTGT
Found at i:69543903 original size:18 final size:16
Alignment explanation
Indices: 69543870--69543911 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
69543860 ATCGAAGAAG
*
69543870 TATAGAAAAAAGAAAA
1 TATAAAAAAAAGAAAA
69543886 TATAAAAAAAAGAAAA
1 TATAAAAAAAAGAAAA
*
69543902 AATAAAAAAA
1 TATAAAAAAA
69543912 TATTCTCTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.81, C:0.00, G:0.07, T:0.12
Consensus pattern (16 bp):
TATAAAAAAAAGAAAA
Found at i:69544416 original size:283 final size:283
Alignment explanation
Indices: 69543909--69544469 Score: 933
Period size: 283 Copynumber: 2.0 Consensus size: 283
69543899 AAAAATAAAA
* *
69543909 AAATATTCTCTAGATTAAATTTTGTGCCAAAACATTCCATATCAGATTTACTTTATTTAAAGAGG
1 AAATATTCTCTAGATTAAATTTTGTGCCAAAACATTCCATATCAGATCTACTTTATTTAAAGAAG
* ** *
69543974 ATCCAATTTGGATTTCGTGATTTTTAGAAATTGGGAACACCTTAAACAAATTTTGTCAAATTACT
66 ATCCAATTTGGATTTCATGATTTTTAGAAATCAGGAACACCTTAAACAAAGTTTGTCAAATTACT
* * *
69544039 TCGCAATTTTTTGGGTTTTCGGGTTTTAGAAATTTTCATTGACTCTTAGCCTTAGGTTTTCATTA
131 TCGCAATTTTTTAGGTTTTCGGGTTTCAGAAATTTTCATTGACTATTAGCCTTAGGTTTTCATTA
* * * *
69544104 ATTTTTACTTTTATTATTCCTATAGGCATTCTAACACTTTATTGTTTCTTGTGTTAGTAGGTTAA
196 ATTTTTACTTTTATTATTCCTATAGGCATTCTAAAAATTTATTGTTTCTTATGTTAGTACGTTAA
69544169 AGCATGTTGCACATTCCTGGATT
261 AGCATGTTGCACATTCCTGGATT
* * *
69544192 AAATATTCTCTAGATTAAATTTTGTGCCAAAACTTTCCATATCAGATCTACTTTATTTAAGGAAT
1 AAATATTCTCTAGATTAAATTTTGTGCCAAAACATTCCATATCAGATCTACTTTATTTAAAGAAG
* ** *
69544257 ATCTAATTTGGATTTCATGATTTTTAGAAATCAGGAACACCTTAAATGAAGTTTGTCAAATTGCT
66 ATCCAATTTGGATTTCATGATTTTTAGAAATCAGGAACACCTTAAACAAAGTTTGTCAAATTACT
*
69544322 TCGCAATTTTTTAGGTTTTCGGGTTTCAGCAATTTTCATTGACTATTAGCCTTAGGTTTTCATTA
131 TCGCAATTTTTTAGGTTTTCGGGTTTCAGAAATTTTCATTGACTATTAGCCTTAGGTTTTCATTA
69544387 ATTTTTACTTTTATTATTCCTATAGGCATTCTAAAAATTTATTGTTTCTTATGTTAGTACGTTAA
196 ATTTTTACTTTTATTATTCCTATAGGCATTCTAAAAATTTATTGTTTCTTATGTTAGTACGTTAA
69544452 AGCATGTTGCACATTCCT
261 AGCATGTTGCACATTCCT
69544470 TCCTCCGTGC
Statistics
Matches: 257, Mismatches: 21, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
283 257 1.00
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.44
Consensus pattern (283 bp):
AAATATTCTCTAGATTAAATTTTGTGCCAAAACATTCCATATCAGATCTACTTTATTTAAAGAAG
ATCCAATTTGGATTTCATGATTTTTAGAAATCAGGAACACCTTAAACAAAGTTTGTCAAATTACT
TCGCAATTTTTTAGGTTTTCGGGTTTCAGAAATTTTCATTGACTATTAGCCTTAGGTTTTCATTA
ATTTTTACTTTTATTATTCCTATAGGCATTCTAAAAATTTATTGTTTCTTATGTTAGTACGTTAA
AGCATGTTGCACATTCCTGGATT
Found at i:69551340 original size:24 final size:23
Alignment explanation
Indices: 69551277--69551347 Score: 76
Period size: 24 Copynumber: 3.1 Consensus size: 23
69551267 TTAAAGGATA
*
69551277 TATAATGCTCTCCTTTAAATGATG
1 TATAATGCTCT-CTTTAAGTGATG
69551301 TAATAA--CTC-CTTTAAGTGATG
1 T-ATAATGCTCTCTTTAAGTGATG
*
69551322 TATAATGCTCTTCTTTAAGTAATG
1 TATAATGCTC-TCTTTAAGTGATG
69551346 TA
1 TA
69551348 ATAGCCACAT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
20 4 0.10
21 12 0.30
22 3 0.08
23 3 0.08
24 14 0.35
25 4 0.10
ACGTcount: A:0.31, C:0.14, G:0.13, T:0.42
Consensus pattern (23 bp):
TATAATGCTCTCTTTAAGTGATG
Found at i:69551535 original size:19 final size:19
Alignment explanation
Indices: 69551508--69551600 Score: 70
Period size: 19 Copynumber: 5.1 Consensus size: 19
69551498 TTATTCCAGC
*
69551508 AACTAAATTAACTAAGATG
1 AACTCAATTAACTAAGATG
*
69551527 AACTCAATTAACTATGATG
1 AACTCAATTAACTAAGATG
** * *
69551546 -TGT-AATTTATTCT-AG--C
1 AACTCAA-TTA-ACTAAGATG
*
69551562 AACTTAATTAACTAAGATG
1 AACTCAATTAACTAAGATG
69551581 AACTCAATTAACTAAGATG
1 AACTCAATTAACTAAGATG
69551600 A
1 A
69551601 GTTATTTATT
Statistics
Matches: 55, Mismatches: 12, Indels: 14
0.68 0.15 0.17
Matches are distributed among these distances:
16 2 0.04
17 8 0.15
18 7 0.13
19 38 0.69
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.32
Consensus pattern (19 bp):
AACTCAATTAACTAAGATG
Found at i:69551563 original size:54 final size:54
Alignment explanation
Indices: 69551498--69551626 Score: 188
Period size: 54 Copynumber: 2.4 Consensus size: 54
69551488 CAACAATAAA
* *
69551498 TTATTCCAGCAACTAAATTAACTAAGATGAACTCAATTAACTATGATGTGTAAT
1 TTATTCCAGCAACTAAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAAT
* * *
69551552 TTATTCTAGCAACTTAATTAACTAAGATGAACTCAATTAACTAAGATGAGTTAT
1 TTATTCCAGCAACTAAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAAT
*
69551606 TTATTCC-GACAACTTAATTAA
1 TTATTCCAG-CAACTAAATTAA
69551627 TTAAACCAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
53 1 0.01
54 67 0.99
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (54 bp):
TTATTCCAGCAACTAAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAAT
Found at i:69555623 original size:19 final size:19
Alignment explanation
Indices: 69555596--69555688 Score: 81
Period size: 19 Copynumber: 5.1 Consensus size: 19
69555586 TTATTCCAGC
*
69555596 AACTAAATTAACTAAGATG
1 AACTTAATTAACTAAGATG
69555615 AACTTAATTAACTAAGATGAG
1 AACTTAATTAACTAAGAT--G
* *
69555636 TAACTT-ATT--C-CA-A-C
1 -AACTTAATTAACTAAGATG
69555650 AACTTAATTAACTAAGATG
1 AACTTAATTAACTAAGATG
*
69555669 AACTCAATTAACTAAGATG
1 AACTTAATTAACTAAGATG
69555688 A
1 A
69555689 GTTTTTTATT
Statistics
Matches: 59, Mismatches: 6, Indels: 18
0.71 0.07 0.22
Matches are distributed among these distances:
13 5 0.08
14 3 0.05
16 1 0.02
17 2 0.03
18 2 0.03
19 37 0.63
21 4 0.07
22 5 0.08
ACGTcount: A:0.47, C:0.14, G:0.10, T:0.29
Consensus pattern (19 bp):
AACTTAATTAACTAAGATG
Found at i:69555698 original size:54 final size:54
Alignment explanation
Indices: 69555586--69555714 Score: 195
Period size: 54 Copynumber: 2.4 Consensus size: 54
69555576 CAACAATAAA
* *
69555586 TTATTCCAGCAACTAAATTAACTAAGATGAACTTAATTAACTAAGATGAGTAAC
1 TTATTCCAGCAACTTAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAAC
* ***
69555640 TTATTCCAACAACTTAATTAACTAAGATGAACTCAATTAACTAAGATGAGTTTT
1 TTATTCCAGCAACTTAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAAC
*
69555694 TTATTCCAGCAATTTAATTAA
1 TTATTCCAGCAACTTAATTAA
69555715 TTAAACTAAA
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 67 1.00
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.34
Consensus pattern (54 bp):
TTATTCCAGCAACTTAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAAC
Found at i:69557392 original size:56 final size:56
Alignment explanation
Indices: 69557324--69557517 Score: 203
Period size: 56 Copynumber: 3.4 Consensus size: 56
69557314 TGGGAAGTAG
* * * * *
69557324 TTGGGCCCGATGGGCCATATGAATGT-AGTTGAGCATGCTGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATATGA-TTGAGCATGATGGACCATATGAAAGTGA
* *
69557380 TTGGGCCTGATGGGCCATATGAATATGATTGGGCCTGATGGACCATATGAAAGTGA
1 TTGGGCCTGATGGGCCATATGAATATGATTGAGCATGATGGACCATATGAAAGTGA
* * * * * *
69557436 TTGGGCCTGATGGGCCATAAGAATATGATTGGGCCTGATAGG-CCATGTGAACGAGA
1 TTGGGCCTGATGGGCCATATGAATATGATTGAGCATGAT-GGACCATATGAAAGTGA
* * *
69557492 TTGGGCCTAAAGGGGCCAAATGAATA
1 TTGGGCCT-GATGGGCCATATGAATA
69557518 AGTGTGGATA
Statistics
Matches: 120, Mismatches: 15, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
56 104 0.87
57 16 0.13
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.25
Consensus pattern (56 bp):
TTGGGCCTGATGGGCCATATGAATATGATTGAGCATGATGGACCATATGAAAGTGA
Found at i:69557465 original size:84 final size:84
Alignment explanation
Indices: 69557324--69557499 Score: 221
Period size: 84 Copynumber: 2.1 Consensus size: 84
69557314 TGGGAAGTAG
* * * * * *
69557324 TTGGGCCCGATGGGCCATATGAATGTAGTTGAGCATGCTGGGCCATATGAATGTGATTGGGCCTG
1 TTGGGCCTGATGGACCATATGAAAGTAGTTGAGCATGATGGGCCATAAGAATATGATTGGGCCTG
* *
69557389 ATGGGCCATATGAA-TATGA
66 ATAGGCCATATGAACGA-GA
* *
69557408 TTGGGCCTGATGGACCATATGAAAGT-GATTGGGCCTGATGGGCCATAAGAATATGATTGGGCCT
1 TTGGGCCTGATGGACCATATGAAAGTAG-TTGAGCATGATGGGCCATAAGAATATGATTGGGCCT
*
69557472 GATAGGCCATGTGAACGAGA
65 GATAGGCCATATGAACGAGA
69557492 TTGGGCCT
1 TTGGGCCT
69557500 AAAGGGGCCA
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
83 1 0.01
84 77 0.97
85 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.34, T:0.26
Consensus pattern (84 bp):
TTGGGCCTGATGGACCATATGAAAGTAGTTGAGCATGATGGGCCATAAGAATATGATTGGGCCTG
ATAGGCCATATGAACGAGA
Found at i:69557493 original size:28 final size:27
Alignment explanation
Indices: 69557324--69557499 Score: 174
Period size: 28 Copynumber: 6.3 Consensus size: 27
69557314 TGGGAAGTAG
*
69557324 TTGGGCCCGATGGGCCATATGAATGTAG-
1 TTGGGCCTGATGGGCCATATGAA-G-AGA
* * * *
69557352 TTGAGCATGCTGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAA-GAGA
*
69557380 TTGGGCCTGATGGGCCATATGAATATGA
1 TTGGGCCTGATGGGCCATATGAAGA-GA
* *
69557408 TTGGGCCTGATGGACCATATGAAAGTGA
1 TTGGGCCTGATGGGCCATATG-AAGAGA
* *
69557436 TTGGGCCTGATGGGCCATAAGAATATGA
1 TTGGGCCTGATGGGCCATATGAAGA-GA
* *
69557464 TTGGGCCTGATAGGCCATGTGAACGAGA
1 TTGGGCCTGATGGGCCATATGAA-GAGA
69557492 TTGGGCCT
1 TTGGGCCT
69557500 AAAGGGGCCA
Statistics
Matches: 122, Mismatches: 21, Indels: 10
0.80 0.14 0.07
Matches are distributed among these distances:
27 3 0.02
28 116 0.95
29 3 0.02
ACGTcount: A:0.24, C:0.16, G:0.34, T:0.26
Consensus pattern (27 bp):
TTGGGCCTGATGGGCCATATGAAGAGA
Found at i:69557865 original size:27 final size:27
Alignment explanation
Indices: 69557816--69557875 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
69557806 TAATAAAGAG
* * * *
69557816 AAATTATCGAAATATCCTTGATTTGTA
1 AAATTATCAAAACACCCTCGATTTGTA
69557843 AAATTATCAAAACACCCTCGATTTGTA
1 AAATTATCAAAACACCCTCGATTTGTA
69557870 AAATTA
1 AAATTA
69557876 CCGAAATACC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (27 bp):
AAATTATCAAAACACCCTCGATTTGTA
Found at i:69557896 original size:27 final size:27
Alignment explanation
Indices: 69557866--69557927 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
69557856 ACCCTCGATT
*
69557866 TGTAAAATTACCGAAATACCTTTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
69557893 TGTAAAATTACCGAAATACCCTTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
69557920 TGTAAAAT
1 TGTAAAAT
69557928 GGCCAACATA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.32
Consensus pattern (27 bp):
TGTAAAATTACCGAAATACCCTTGTAG
Found at i:69557938 original size:27 final size:27
Alignment explanation
Indices: 69557866--69557954 Score: 101
Period size: 27 Copynumber: 3.3 Consensus size: 27
69557856 ACCCTCGATT
* *
69557866 TGTAAAATTACCGAAATACCTTTGTAG
1 TGTAAAATGACCGAAATACCCTTGTAG
*
69557893 TGTAAAATTACCGAAATACCCTTGTAG
1 TGTAAAATGACCGAAATACCCTTGTAG
* *
69557920 TGTAAAATGGCC-AACATACCCCTGTAAG
1 TGTAAAATGACCGAA-ATACCCTTGT-AG
69557948 -GTAAAAT
1 TGTAAAAT
69557955 CACTGTTTTT
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
26 2 0.04
27 52 0.93
28 2 0.04
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (27 bp):
TGTAAAATGACCGAAATACCCTTGTAG
Found at i:69560825 original size:28 final size:28
Alignment explanation
Indices: 69560777--69560959 Score: 180
Period size: 28 Copynumber: 6.6 Consensus size: 28
69560767 TGTTGGGTGG
69560777 GAAT-TAGTTGGGCCTGATGGGCCATAT
1 GAATGTAGTTGGGCCTGATGGGCCATAT
* * *
69560804 GAATGTAGTTGAGCATGCTGGGCCATAT
1 GAATGTAGTTGGGCCTGATGGGCCATAT
69560832 GAATGT-GATTGGGCCTGATGGGCCATAT
1 GAATGTAG-TTGGGCCTGATGGGCCATAT
* *
69560860 GAATAT-GATTGGGCCTGATGGACCATAT
1 GAATGTAG-TTGGGCCTGATGGGCCATAT
* *
69560888 GAAAGT-GATTGGGCCTGATGGGCCATAA
1 GAATGTAG-TTGGGCCTGATGGGCCATAT
* * *
69560916 GAATAT-GATTGGGCCTGATAGGCCATGT
1 GAATGTAG-TTGGGCCTGATGGGCCATAT
*
69560944 GAACG-AGATTGGGCCT
1 GAATGTAG-TTGGGCCT
69560960 AAAGGGGCCA
Statistics
Matches: 134, Mismatches: 19, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
27 5 0.04
28 129 0.96
ACGTcount: A:0.25, C:0.15, G:0.33, T:0.27
Consensus pattern (28 bp):
GAATGTAGTTGGGCCTGATGGGCCATAT
Found at i:69560852 original size:56 final size:56
Alignment explanation
Indices: 69560784--69560977 Score: 212
Period size: 56 Copynumber: 3.4 Consensus size: 56
69560774 TGGGAATTAG
* * * *
69560784 TTGGGCCTGATGGGCCATATGAATGT-AGTTGAGCATGCTGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATATGA-TTGAGCATGATGGACCATATGAAAGTGA
* *
69560840 TTGGGCCTGATGGGCCATATGAATATGATTGGGCCTGATGGACCATATGAAAGTGA
1 TTGGGCCTGATGGGCCATATGAATATGATTGAGCATGATGGACCATATGAAAGTGA
* * * * * *
69560896 TTGGGCCTGATGGGCCATAAGAATATGATTGGGCCTGATAGG-CCATGTGAACGAGA
1 TTGGGCCTGATGGGCCATATGAATATGATTGAGCATGAT-GGACCATATGAAAGTGA
* * *
69560952 TTGGGCCTAAAGGGGCCAAATGAATA
1 TTGGGCCT-GATGGGCCATATGAATA
69560978 AGTGTGGATA
Statistics
Matches: 121, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
56 105 0.87
57 16 0.13
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.25
Consensus pattern (56 bp):
TTGGGCCTGATGGGCCATATGAATATGATTGAGCATGATGGACCATATGAAAGTGA
Found at i:69560925 original size:84 final size:84
Alignment explanation
Indices: 69560784--69560959 Score: 230
Period size: 84 Copynumber: 2.1 Consensus size: 84
69560774 TGGGAATTAG
* * * * *
69560784 TTGGGCCTGATGGGCCATATGAATGTAGTTGAGCATGCTGGGCCATATGAATGTGATTGGGCCTG
1 TTGGGCCTGATGGACCATATGAAAGTAGTTGAGCATGATGGGCCATAAGAATATGATTGGGCCTG
* *
69560849 ATGGGCCATATGAA-TATGA
66 ATAGGCCATATGAACGA-GA
* *
69560868 TTGGGCCTGATGGACCATATGAAAGT-GATTGGGCCTGATGGGCCATAAGAATATGATTGGGCCT
1 TTGGGCCTGATGGACCATATGAAAGTAG-TTGAGCATGATGGGCCATAAGAATATGATTGGGCCT
*
69560932 GATAGGCCATGTGAACGAGA
65 GATAGGCCATATGAACGAGA
69560952 TTGGGCCT
1 TTGGGCCT
69560960 AAAGGGGCCA
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
83 1 0.01
84 78 0.98
85 1 0.01
ACGTcount: A:0.24, C:0.15, G:0.34, T:0.27
Consensus pattern (84 bp):
TTGGGCCTGATGGACCATATGAAAGTAGTTGAGCATGATGGGCCATAAGAATATGATTGGGCCTG
ATAGGCCATATGAACGAGA
Found at i:69561305 original size:26 final size:27
Alignment explanation
Indices: 69561276--69561370 Score: 99
Period size: 26 Copynumber: 3.6 Consensus size: 27
69561266 TAATAAAGAG
69561276 AAATTACC-AAATATCC-TTGATTTGTA
1 AAATTACCGAAATA-CCATTGATTTGTA
* * *
69561302 AAATTATC-AAAAACCATCGATTTGTA
1 AAATTACCGAAATACCATTGATTTGTA
* *
69561328 AAATTACCGAAATACCTTTG-TAGTGTA
1 AAATTACCGAAATACCATTGAT-TTGTA
69561355 AAATTACCGAAATACC
1 AAATTACCGAAATACC
69561371 CTTGTAGTGT
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
25 2 0.03
26 28 0.48
27 28 0.48
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACCGAAATACCATTGATTTGTA
Found at i:69561362 original size:27 final size:27
Alignment explanation
Indices: 69561324--69561385 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
69561314 ACCATCGATT
*
69561324 TGTAAAATTACCGAAATACCTTTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
69561351 TGTAAAATTACCGAAATACCCTTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
69561378 TGTAAAAT
1 TGTAAAAT
69561386 GGCCAACATA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.32
Consensus pattern (27 bp):
TGTAAAATTACCGAAATACCCTTGTAG
Found at i:69561396 original size:27 final size:27
Alignment explanation
Indices: 69561324--69561412 Score: 101
Period size: 27 Copynumber: 3.3 Consensus size: 27
69561314 ACCATCGATT
* *
69561324 TGTAAAATTACCGAAATACCTTTGTAG
1 TGTAAAATGACCGAAATACCCTTGTAG
*
69561351 TGTAAAATTACCGAAATACCCTTGTAG
1 TGTAAAATGACCGAAATACCCTTGTAG
* *
69561378 TGTAAAATGGCC-AACATACCCCTGTAAG
1 TGTAAAATGACCGAA-ATACCCTTGT-AG
69561406 -GTAAAAT
1 TGTAAAAT
69561413 CACTGTTTTG
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
26 2 0.04
27 52 0.93
28 2 0.04
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (27 bp):
TGTAAAATGACCGAAATACCCTTGTAG
Found at i:69564280 original size:28 final size:28
Alignment explanation
Indices: 69564232--69564414 Score: 180
Period size: 28 Copynumber: 6.6 Consensus size: 28
69564222 TGTTGGGTGG
69564232 GAAT-TAGTTGGGCCTGATGGGCCATAT
1 GAATGTAGTTGGGCCTGATGGGCCATAT
* * *
69564259 GAATGTAGTTGAGCATGCTGGGCCATAT
1 GAATGTAGTTGGGCCTGATGGGCCATAT
69564287 GAATGT-GATTGGGCCTGATGGGCCATAT
1 GAATGTAG-TTGGGCCTGATGGGCCATAT
* *
69564315 GAATAT-GATTGGGCCTGATGGACCATAT
1 GAATGTAG-TTGGGCCTGATGGGCCATAT
* *
69564343 GAAAGT-GATTGGGCCTGATGGGCCATAA
1 GAATGTAG-TTGGGCCTGATGGGCCATAT
* * *
69564371 GAATAT-GATTGGGCCTGATAGGCCATGT
1 GAATGTAG-TTGGGCCTGATGGGCCATAT
*
69564399 GAACG-AGATTGGGCCT
1 GAATGTAG-TTGGGCCT
69564415 AAAGGGGCCA
Statistics
Matches: 134, Mismatches: 19, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
27 5 0.04
28 129 0.96
ACGTcount: A:0.25, C:0.15, G:0.33, T:0.27
Consensus pattern (28 bp):
GAATGTAGTTGGGCCTGATGGGCCATAT
Found at i:69564307 original size:56 final size:56
Alignment explanation
Indices: 69564239--69564432 Score: 212
Period size: 56 Copynumber: 3.4 Consensus size: 56
69564229 TGGGAATTAG
* * * *
69564239 TTGGGCCTGATGGGCCATATGAATGT-AGTTGAGCATGCTGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATATGA-TTGAGCATGATGGACCATATGAAAGTGA
* *
69564295 TTGGGCCTGATGGGCCATATGAATATGATTGGGCCTGATGGACCATATGAAAGTGA
1 TTGGGCCTGATGGGCCATATGAATATGATTGAGCATGATGGACCATATGAAAGTGA
* * * * * *
69564351 TTGGGCCTGATGGGCCATAAGAATATGATTGGGCCTGATAGG-CCATGTGAACGAGA
1 TTGGGCCTGATGGGCCATATGAATATGATTGAGCATGAT-GGACCATATGAAAGTGA
* * *
69564407 TTGGGCCTAAAGGGGCCAAATGAATA
1 TTGGGCCT-GATGGGCCATATGAATA
69564433 AGTGTGGATA
Statistics
Matches: 121, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
56 105 0.87
57 16 0.13
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.25
Consensus pattern (56 bp):
TTGGGCCTGATGGGCCATATGAATATGATTGAGCATGATGGACCATATGAAAGTGA
Found at i:69564380 original size:84 final size:84
Alignment explanation
Indices: 69564239--69564414 Score: 230
Period size: 84 Copynumber: 2.1 Consensus size: 84
69564229 TGGGAATTAG
* * * * *
69564239 TTGGGCCTGATGGGCCATATGAATGTAGTTGAGCATGCTGGGCCATATGAATGTGATTGGGCCTG
1 TTGGGCCTGATGGACCATATGAAAGTAGTTGAGCATGATGGGCCATAAGAATATGATTGGGCCTG
* *
69564304 ATGGGCCATATGAA-TATGA
66 ATAGGCCATATGAACGA-GA
* *
69564323 TTGGGCCTGATGGACCATATGAAAGT-GATTGGGCCTGATGGGCCATAAGAATATGATTGGGCCT
1 TTGGGCCTGATGGACCATATGAAAGTAG-TTGAGCATGATGGGCCATAAGAATATGATTGGGCCT
*
69564387 GATAGGCCATGTGAACGAGA
65 GATAGGCCATATGAACGAGA
69564407 TTGGGCCT
1 TTGGGCCT
69564415 AAAGGGGCCA
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
83 1 0.01
84 78 0.98
85 1 0.01
ACGTcount: A:0.24, C:0.15, G:0.34, T:0.27
Consensus pattern (84 bp):
TTGGGCCTGATGGACCATATGAAAGTAGTTGAGCATGATGGGCCATAAGAATATGATTGGGCCTG
ATAGGCCATATGAACGAGA
Found at i:69564769 original size:27 final size:27
Alignment explanation
Indices: 69564731--69564792 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
69564721 TAATAAAGAG
* *
69564731 AAATTACCAAAATATCC-TTGATTTGTA
1 AAATTACCAAAA-AACCATCGATTTGTA
*
69564758 AAATTATCAAAAAACCATCGATTTGTA
1 AAATTACCAAAAAACCATCGATTTGTA
69564785 AAATTACC
1 AAATTACC
69564793 GAAATACCTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 3 0.10
27 27 0.90
ACGTcount: A:0.45, C:0.16, G:0.06, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAAAACCATCGATTTGTA
Found at i:69564811 original size:27 final size:27
Alignment explanation
Indices: 69564781--69564842 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
69564771 ACCATCGATT
*
69564781 TGTAAAATTACCGAAATACCTTTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
69564808 TGTAAAATTACCGAAATACCCTTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
69564835 TGTAAAAT
1 TGTAAAAT
69564843 GGCCAACATA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.32
Consensus pattern (27 bp):
TGTAAAATTACCGAAATACCCTTGTAG
Found at i:69564853 original size:27 final size:27
Alignment explanation
Indices: 69564781--69564869 Score: 101
Period size: 27 Copynumber: 3.3 Consensus size: 27
69564771 ACCATCGATT
* *
69564781 TGTAAAATTACCGAAATACCTTTGTAG
1 TGTAAAATGACCGAAATACCCTTGTAG
*
69564808 TGTAAAATTACCGAAATACCCTTGTAG
1 TGTAAAATGACCGAAATACCCTTGTAG
* *
69564835 TGTAAAATGGCC-AACATACCCCTGTAAG
1 TGTAAAATGACCGAA-ATACCCTTGT-AG
69564863 -GTAAAAT
1 TGTAAAAT
69564870 CACTGTTTTG
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
26 2 0.04
27 52 0.93
28 2 0.04
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (27 bp):
TGTAAAATGACCGAAATACCCTTGTAG
Found at i:69567740 original size:28 final size:28
Alignment explanation
Indices: 69567692--69567874 Score: 180
Period size: 28 Copynumber: 6.6 Consensus size: 28
69567682 TGTTGGGTGG
69567692 GAAT-TAGTTGGGCCTGATGGGCCATAT
1 GAATGTAGTTGGGCCTGATGGGCCATAT
* * *
69567719 GAATGTAGTTGAGCATGCTGGGCCATAT
1 GAATGTAGTTGGGCCTGATGGGCCATAT
69567747 GAATGT-GATTGGGCCTGATGGGCCATAT
1 GAATGTAG-TTGGGCCTGATGGGCCATAT
* *
69567775 GAATAT-GATTGGGCCTGATGGACCATAT
1 GAATGTAG-TTGGGCCTGATGGGCCATAT
* *
69567803 GAAAGT-GATTGGGCCTGATGGGCCATAA
1 GAATGTAG-TTGGGCCTGATGGGCCATAT
* * *
69567831 GAATAT-GATTGGGCCTGATAGGCCATGT
1 GAATGTAG-TTGGGCCTGATGGGCCATAT
*
69567859 GAACG-AGATTGGGCCT
1 GAATGTAG-TTGGGCCT
69567875 AAAGGGGCCA
Statistics
Matches: 134, Mismatches: 19, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
27 5 0.04
28 129 0.96
ACGTcount: A:0.25, C:0.15, G:0.33, T:0.27
Consensus pattern (28 bp):
GAATGTAGTTGGGCCTGATGGGCCATAT
Found at i:69567767 original size:56 final size:56
Alignment explanation
Indices: 69567699--69567892 Score: 212
Period size: 56 Copynumber: 3.4 Consensus size: 56
69567689 TGGGAATTAG
* * * *
69567699 TTGGGCCTGATGGGCCATATGAATGT-AGTTGAGCATGCTGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATATGA-TTGAGCATGATGGACCATATGAAAGTGA
* *
69567755 TTGGGCCTGATGGGCCATATGAATATGATTGGGCCTGATGGACCATATGAAAGTGA
1 TTGGGCCTGATGGGCCATATGAATATGATTGAGCATGATGGACCATATGAAAGTGA
* * * * * *
69567811 TTGGGCCTGATGGGCCATAAGAATATGATTGGGCCTGATAGG-CCATGTGAACGAGA
1 TTGGGCCTGATGGGCCATATGAATATGATTGAGCATGAT-GGACCATATGAAAGTGA
* * *
69567867 TTGGGCCTAAAGGGGCCAAATGAATA
1 TTGGGCCT-GATGGGCCATATGAATA
69567893 AGTGTGGATA
Statistics
Matches: 121, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
56 105 0.87
57 16 0.13
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.25
Consensus pattern (56 bp):
TTGGGCCTGATGGGCCATATGAATATGATTGAGCATGATGGACCATATGAAAGTGA
Found at i:69567840 original size:84 final size:84
Alignment explanation
Indices: 69567699--69567874 Score: 230
Period size: 84 Copynumber: 2.1 Consensus size: 84
69567689 TGGGAATTAG
* * * * *
69567699 TTGGGCCTGATGGGCCATATGAATGTAGTTGAGCATGCTGGGCCATATGAATGTGATTGGGCCTG
1 TTGGGCCTGATGGACCATATGAAAGTAGTTGAGCATGATGGGCCATAAGAATATGATTGGGCCTG
* *
69567764 ATGGGCCATATGAA-TATGA
66 ATAGGCCATATGAACGA-GA
* *
69567783 TTGGGCCTGATGGACCATATGAAAGT-GATTGGGCCTGATGGGCCATAAGAATATGATTGGGCCT
1 TTGGGCCTGATGGACCATATGAAAGTAG-TTGAGCATGATGGGCCATAAGAATATGATTGGGCCT
*
69567847 GATAGGCCATGTGAACGAGA
65 GATAGGCCATATGAACGAGA
69567867 TTGGGCCT
1 TTGGGCCT
69567875 AAAGGGGCCA
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
83 1 0.01
84 78 0.98
85 1 0.01
ACGTcount: A:0.24, C:0.15, G:0.34, T:0.27
Consensus pattern (84 bp):
TTGGGCCTGATGGACCATATGAAAGTAGTTGAGCATGATGGGCCATAAGAATATGATTGGGCCTG
ATAGGCCATATGAACGAGA
Found at i:69568229 original size:27 final size:27
Alignment explanation
Indices: 69568191--69568252 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
69568181 TAATAAAGAG
* *
69568191 AAATTACCAAAATATCC-TTGATTTGTA
1 AAATTACCAAAA-AACCATCGATTTGTA
*
69568218 AAATTATCAAAAAACCATCGATTTGTA
1 AAATTACCAAAAAACCATCGATTTGTA
69568245 AAATTACC
1 AAATTACC
69568253 GAAATACCTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 3 0.10
27 27 0.90
ACGTcount: A:0.45, C:0.16, G:0.06, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAAAACCATCGATTTGTA
Found at i:69568271 original size:27 final size:27
Alignment explanation
Indices: 69568241--69568302 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
69568231 ACCATCGATT
*
69568241 TGTAAAATTACCGAAATACCTTTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
69568268 TGTAAAATTACCGAAATACCCTTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
69568295 TGTAAAAT
1 TGTAAAAT
69568303 GGCCAACATA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.32
Consensus pattern (27 bp):
TGTAAAATTACCGAAATACCCTTGTAG
Found at i:69568313 original size:27 final size:27
Alignment explanation
Indices: 69568241--69568329 Score: 101
Period size: 27 Copynumber: 3.3 Consensus size: 27
69568231 ACCATCGATT
* *
69568241 TGTAAAATTACCGAAATACCTTTGTAG
1 TGTAAAATGACCGAAATACCCTTGTAG
*
69568268 TGTAAAATTACCGAAATACCCTTGTAG
1 TGTAAAATGACCGAAATACCCTTGTAG
* *
69568295 TGTAAAATGGCC-AACATACCCCTGTAAG
1 TGTAAAATGACCGAA-ATACCCTTGT-AG
69568323 -GTAAAAT
1 TGTAAAAT
69568330 CACTGTTTTG
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
26 2 0.04
27 52 0.93
28 2 0.04
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (27 bp):
TGTAAAATGACCGAAATACCCTTGTAG
Found at i:69571183 original size:28 final size:28
Alignment explanation
Indices: 69571140--69571203 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 28
69571130 TGAGAAGTGG
* * * *
69571140 TTGGTCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATAGGCCATATGAACGAGA
*
69571168 TTGGGCCTGATAGGCCATGTGAACGAGA
1 TTGGGCCTGATAGGCCATATGAACGAGA
69571196 TTGGGCCT
1 TTGGGCCT
69571204 AAAGGGGCCA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.20, C:0.17, G:0.34, T:0.28
Consensus pattern (28 bp):
TTGGGCCTGATAGGCCATATGAACGAGA
Found at i:69571659 original size:81 final size:81
Alignment explanation
Indices: 69571519--69571713 Score: 257
Period size: 81 Copynumber: 2.4 Consensus size: 81
69571509 TAATAAAGAG
* * * *
69571519 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTATATAATTATCAAA
1 AAATTACCGAAATACCCTCTATTTGTAAAATTACCGAAACACCCTCGATTTATAAAATTATCAAA
*
69571584 ACACCCTCAGTTTGTA
66 ACACCCTCAATTTGTA
* * *
69571600 AAATTACCGAAACACCCTCTATTTGTAAAATTACCGAAACACCCTTGATTTGTAAAATTATCAAA
1 AAATTACCGAAATACCCTCTATTTGTAAAATTACCGAAACACCCTCGATTTATAAAATTATCAAA
* *
69571665 ATATCCTCAATTTGTA
66 ACACCCTCAATTTGTA
* * *
69571681 AAATTATCAAAATACCCT-TATAGTGTAAAATTA
1 AAATTACCGAAATACCCTCTAT-TTGTAAAATTA
69571714 TCAAAATACC
Statistics
Matches: 99, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
80 3 0.03
81 96 0.97
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (81 bp):
AAATTACCGAAATACCCTCTATTTGTAAAATTACCGAAACACCCTCGATTTATAAAATTATCAAA
ACACCCTCAATTTGTA
Found at i:69571687 original size:27 final size:27
Alignment explanation
Indices: 69571528--69571723 Score: 207
Period size: 27 Copynumber: 7.3 Consensus size: 27
69571518 GAAATTACTG
* *
69571528 AAATACCCTCGATTTGTAAAATTACCG
1 AAATACCCTCGATTTGTAAAATTATCA
* *
69571555 AAATACCCTCGATTTATATAATTATCA
1 AAATACCCTCGATTTGTAAAATTATCA
* * *
69571582 AAACACCCTC-AGTTTGTAAAATTACCG
1 AAATACCCTCGA-TTTGTAAAATTATCA
* * * *
69571609 AAACACCCTCTATTTGTAAAATTACCG
1 AAATACCCTCGATTTGTAAAATTATCA
* *
69571636 AAACACCCTTGATTTGTAAAATTATCA
1 AAATACCCTCGATTTGTAAAATTATCA
* *
69571663 AAATATCCTCAATTTGTAAAATTATCA
1 AAATACCCTCGATTTGTAAAATTATCA
* *
69571690 AAATACCCT-TATAGTGTAAAATTATCA
1 AAATACCCTCGAT-TTGTAAAATTATCA
69571717 AAATACC
1 AAATACC
69571724 TTTGTAGTGT
Statistics
Matches: 146, Mismatches: 20, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
26 3 0.02
27 142 0.97
28 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.32
Consensus pattern (27 bp):
AAATACCCTCGATTTGTAAAATTATCA
Found at i:69571731 original size:27 final size:27
Alignment explanation
Indices: 69571650--69571738 Score: 117
Period size: 27 Copynumber: 3.3 Consensus size: 27
69571640 ACCCTTGATT
** *
69571650 TGTAAAATTATCAAAATATCCTCAAT-T
1 TGTAAAATTATCAAAATA-CCTTTATAG
*
69571677 TGTAAAATTATCAAAATACCCTTATAG
1 TGTAAAATTATCAAAATACCTTTATAG
*
69571704 TGTAAAATTATCAAAATACCTTTGTAG
1 TGTAAAATTATCAAAATACCTTTATAG
69571731 TGTAAAAT
1 TGTAAAAT
69571739 AACCGACATA
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
26 4 0.07
27 51 0.93
ACGTcount: A:0.44, C:0.12, G:0.08, T:0.36
Consensus pattern (27 bp):
TGTAAAATTATCAAAATACCTTTATAG
Found at i:69577594 original size:103 final size:104
Alignment explanation
Indices: 69577350--69577615 Score: 419
Period size: 103 Copynumber: 2.6 Consensus size: 104
69577340 GTTGTACATA
** *
69577350 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
69577415 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
*
69577454 GAGGGGTTGCTAAGTGCTGATTCCCC-AGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
69577518 TCTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
65 TCTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
69577557 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
69577616 AATAACGGTT
Statistics
Matches: 149, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
103 83 0.56
104 66 0.44
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:69582781 original size:12 final size:12
Alignment explanation
Indices: 69582764--69582788 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
69582754 AAGTTGCGGA
69582764 AGCCTTGGGTAC
1 AGCCTTGGGTAC
69582776 AGCCTTGGGTAC
1 AGCCTTGGGTAC
69582788 A
1 A
69582789 AAATTGAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.20, C:0.24, G:0.32, T:0.24
Consensus pattern (12 bp):
AGCCTTGGGTAC
Found at i:69749011 original size:27 final size:26
Alignment explanation
Indices: 69748967--69749018 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
69748957 CTCACTGCAA
*
69748967 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
69748994 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
69749019 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:69751624 original size:45 final size:43
Alignment explanation
Indices: 69751571--69751732 Score: 122
Period size: 45 Copynumber: 3.8 Consensus size: 43
69751561 ATATGTGTTC
* *
69751571 TCGTGTAAGACCACT-TCTGGGACGTTGGCTTCGATATATGTGGT
1 TCGTGTAAGACCACTATCTGGGACGTTGGCATCGATAT-T-TGAT
* * * *
69751615 TACGTGTAAGACCA-TGTCTGAGACATCGGCATC-ATATTTGAT
1 T-CGTGTAAGACCACTATCTGGGACGTTGGCATCGATATTTGAT
**
69751657 TCGTGTAAGACC-CTATCTGGGACAG-TGGCATCGATATGAGAT
1 TCGTGTAAGACCACTATCTGGGAC-GTTGGCATCGATATTTGAT
* * *
69751699 AGCATGTAAGACCACGT-T-TGGGACGTTTGCATCG
1 -TCGTGTAAGACCAC-TATCTGGGACGTTGGCATCG
69751733 TACGATATGT
Statistics
Matches: 95, Mismatches: 14, Indels: 19
0.74 0.11 0.15
Matches are distributed among these distances:
41 25 0.26
42 12 0.13
43 24 0.25
44 8 0.08
45 26 0.27
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (43 bp):
TCGTGTAAGACCACTATCTGGGACGTTGGCATCGATATTTGAT
Found at i:69751687 original size:41 final size:43
Alignment explanation
Indices: 69751560--69751693 Score: 125
Period size: 45 Copynumber: 3.1 Consensus size: 43
69751550 TAGGATTTCC
* *
69751560 TATATGTGTTCTCGTGTAAGACCACTTCTGGGAC-GTTGGCTTCGA
1 TATATGTGAT-TCGTGTAAGACC-CTTCTGGGACAG-TGGCATCGA
* * *
69751605 TATATGTGGTTACGTGTAAGACCATGTCTGAGACA-TCGGCATC-A
1 TATATGTGATT-CGTGTAAGACCCT-TCTGGGACAGT-GGCATCGA
69751649 TAT-T-TGATTCGTGTAAGACCCTATCTGGGACAGTGGCATCGA
1 TATATGTGATTCGTGTAAGACCCT-TCTGGGACAGTGGCATCGA
69751691 TAT
1 TAT
69751694 GAGATAGCAT
Statistics
Matches: 75, Mismatches: 8, Indels: 15
0.77 0.08 0.15
Matches are distributed among these distances:
41 26 0.35
42 9 0.12
43 1 0.01
44 7 0.09
45 32 0.43
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (43 bp):
TATATGTGATTCGTGTAAGACCCTTCTGGGACAGTGGCATCGA
Found at i:69754439 original size:46 final size:46
Alignment explanation
Indices: 69754372--69754547 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 46
69754362 TGTAACCCGC
* *
69754372 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGTAT
* * * *
69754418 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCAGACGCCTAGT-T
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-TTCGTAT
* * * * *
69754464 ACATTTCA-CGAACTTGGACTCAACTCAACGAGTTCGGACGTTCGCAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGTAT
*
69754511 CCATAAGTGAACTCGGACTCAATTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
69754548 TGCCCAAATA
Statistics
Matches: 105, Mismatches: 20, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
45 2 0.02
46 67 0.64
47 34 0.32
48 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGTAT
Found at i:69757967 original size:49 final size:49
Alignment explanation
Indices: 69757897--69758118 Score: 356
Period size: 49 Copynumber: 4.5 Consensus size: 49
69757887 TATCACAGTT
* * * *
69757897 ATACACTTCCAC-TTCCATCACATTGGCCATTCGTCCTTATCATATATAT
1 ATACACTTTCACATT-CATCACATTGGCCATTCGGCCTTATCACATATAC
* **
69757946 ATATACTTTCACATTCATCACATTGGCCATTCGTTCTTATCACATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
69757995 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
*
69758044 ATACACTTTCACATTCATCACATTGGCCATTTGGCCTTATCACATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
69758093 ATACACTTTCACATTCATCACATTGG
1 ATACACTTTCACATTCATCACATTGG
69758119 ATCCTAAATC
Statistics
Matches: 163, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
49 161 0.99
50 2 0.01
ACGTcount: A:0.28, C:0.29, G:0.07, T:0.36
Consensus pattern (49 bp):
ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
Found at i:69761584 original size:28 final size:28
Alignment explanation
Indices: 69761544--69761644 Score: 96
Period size: 28 Copynumber: 3.6 Consensus size: 28
69761534 ACTGACCGAT
69761544 CTCGCACACATAGTGCTCGGTTGAAGAA
1 CTCGCACACATAGTGCTCGGTTGAAGAA
*** **
69761572 CTCGCACACATAGTGCCTCAACT-ACTAA
1 CTCGCACACATAGTG-CTCGGTTGAAGAA
* *
69761600 TCTGGCACACATAGTGCTCGGTTGAAGAG
1 -CTCGCACACATAGTGCTCGGTTGAAGAA
* *
69761629 CTTGCACACACAGTGC
1 CTCGCACACATAGTGC
69761645 CTTATAATTC
Statistics
Matches: 56, Mismatches: 14, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
28 36 0.64
29 20 0.36
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (28 bp):
CTCGCACACATAGTGCTCGGTTGAAGAA
Found at i:69761889 original size:40 final size:40
Alignment explanation
Indices: 69761654--69761885 Score: 306
Period size: 40 Copynumber: 5.8 Consensus size: 40
69761644 CCTTATAATT
* * * ***
69761654 CCAGTACGAATGC-CTTCGAGG-TTTAGCCCGGATATATTG
1 CCAGCACGAATGCTCTTCG-GGACTTAGCCCGGACATAACA
69761693 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAACA
* *
69761733 CCAGCATGAATGCTCTTCGGGACTTAGCCCGAACATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAACA
* *
69761773 CCAGCACGAATGCTCTTCGAGACTTAGCCCAGACATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAACA
* * *
69761813 TCAGCACGAATGCTCTTCGGGACTTAGCCCGAATATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAACA
* *
69761853 TCAGCACGAATGCTCTTCGGGACCTAGCCCGGA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGA
69761886 TATATAACTC
Statistics
Matches: 172, Mismatches: 19, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
39 14 0.08
40 158 0.92
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (40 bp):
CCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAACA
Found at i:69763580 original size:49 final size:49
Alignment explanation
Indices: 69763468--69763638 Score: 285
Period size: 49 Copynumber: 3.5 Consensus size: 49
69763458 TATCACAGTT
* *
69763468 ATACACTTCCAC-TTCCATCACATTGGCCATTCGGCCTTAT--CATATAT
1 ATACACTTTCACATT-CATCACATTGGCCATTCGGCCTTATCACATATAC
*
69763515 ATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
69763564 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
69763613 ATACACTTTCACATTCATCACATTGG
1 ATACACTTTCACATTCATCACATTGG
69763639 ATCCTAAATC
Statistics
Matches: 117, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
47 35 0.30
48 2 0.02
49 80 0.68
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.34
Consensus pattern (49 bp):
ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
Found at i:69763583 original size:27 final size:27
Alignment explanation
Indices: 69763553--69763635 Score: 72
Period size: 27 Copynumber: 3.3 Consensus size: 27
69763543 ATTCGGCCTT
69763553 ATCACATATACATACACTTTCACATTC
1 ATCACATATACATACACTTTCACATTC
* * *
69763580 ATCACAT-TGGC---CA--TTCGGCCTT-
1 ATCACATAT-ACATACACTTTC-ACATTC
69763602 ATCACATATACATACACTTTCACATTC
1 ATCACATATACATACACTTTCACATTC
69763629 ATCACAT
1 ATCACAT
69763636 TGGATCCTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 18
0.63 0.09 0.28
Matches are distributed among these distances:
22 11 0.27
23 4 0.10
24 2 0.05
25 2 0.05
26 4 0.10
27 18 0.44
ACGTcount: A:0.33, C:0.30, G:0.05, T:0.33
Consensus pattern (27 bp):
ATCACATATACATACACTTTCACATTC
Found at i:69766779 original size:28 final size:29
Alignment explanation
Indices: 69766722--69766801 Score: 126
Period size: 29 Copynumber: 2.8 Consensus size: 29
69766712 TAAAGATAAC
69766722 GAGAAAACCGAATAAAGAAATCCAAGATT
1 GAGAAAACCGAATAAAGAAATCCAAGATT
69766751 GAGAAAACCGAATAAA-AAATCCAAGATT
1 GAGAAAACCGAATAAAGAAATCCAAGATT
* *
69766779 GAGAAACCCAAAATAAAGAAATC
1 GAGAAAACC-GAATAAAGAAATC
69766802 TAGAATAAAG
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
28 20 0.43
29 22 0.47
30 5 0.11
ACGTcount: A:0.57, C:0.15, G:0.15, T:0.12
Consensus pattern (29 bp):
GAGAAAACCGAATAAAGAAATCCAAGATT
Found at i:69766798 original size:15 final size:15
Alignment explanation
Indices: 69766780--69766819 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
69766770 TCCAAGATTG
69766780 AGAAACCCAAAATAA
1 AGAAACCCAAAATAA
* * *
69766795 AGAAATCTAGAATAA
1 AGAAACCCAAAATAA
69766810 AGAAACCCAA
1 AGAAACCCAA
69766820 GATGCGATAC
Statistics
Matches: 19, Mismatches: 6, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.62, C:0.17, G:0.10, T:0.10
Consensus pattern (15 bp):
AGAAACCCAAAATAA
Found at i:69769962 original size:46 final size:46
Alignment explanation
Indices: 69769796--69769964 Score: 153
Period size: 46 Copynumber: 3.7 Consensus size: 46
69769786 TGTAACCCGC
* * *
69769796 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
* * * * * *
69769842 CCATAAGTGAACTCGGAATCAACTCAACAAGTTCAGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG-TTCGCAT
* * * ** *
69769888 ACATTTCA-CGAACTTAGACTCAACTCAACGAGTTCGGACGTTCGCAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
*
69769935 CCATAAGTGAACTCGGACTCAAATCAACGA
1 CCATAAGTGAACTCGGACTCAACTCAACGA
69769965 TTGGATACCC
Statistics
Matches: 91, Mismatches: 27, Indels: 10
0.71 0.21 0.08
Matches are distributed among these distances:
45 2 0.02
46 57 0.63
47 30 0.33
48 2 0.02
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
Found at i:69776474 original size:66 final size:68
Alignment explanation
Indices: 69776336--69776586 Score: 193
Period size: 68 Copynumber: 3.8 Consensus size: 68
69776326 CATATAGTTC
* * * * *
69776336 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGC--CAGT--TTAT--C
1 GCTCTCTTGT-CTACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACA-TCATAATGCC
69776394 TCGTA
64 TCGTA
* * * *
69776399 GCTCTCTTGTCTACATGGTGTCCTTCACTGGAACCACGCATGCGACCTAGCTACAT-AT-AT-CC
1 GCTCTCTTGTCTACATGGTGTAC-ACA-TAGAACCACCCATGCGACCTAGCTACATCATAATGCC
69776461 T-GTA
64 TCGTA
* * *
69776465 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGTCTC
1 GCTCTCTTGTCTACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACATCATAATGCCTC
69776530 GTA
66 GTA
* * * * ** * *
69776533 GCTCTCTTGTAC-ACATGATGTGCACTTAGCACCATACATGTGACCTAACTACAT
1 GCTCTCTTGT-CTACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACAT
69776587 ACCATCTGTA
Statistics
Matches: 152, Mismatches: 24, Indels: 19
0.78 0.12 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.12
64 25 0.16
65 23 0.15
66 30 0.20
67 7 0.05
68 46 0.30
69 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.30
Consensus pattern (68 bp):
GCTCTCTTGTCTACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACATCATAATGCCTC
GTA
Found at i:69777281 original size:30 final size:30
Alignment explanation
Indices: 69777247--69777307 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
69777237 TCCTTAACTC
69777247 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
69777277 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
69777307 A
1 A
69777308 GGCTGGAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:69799959 original size:28 final size:29
Alignment explanation
Indices: 69799919--69800032 Score: 126
Period size: 29 Copynumber: 4.0 Consensus size: 29
69799909 CGTGAGCATG
* * *
69799919 AATATGAATGTGA-CTGGGCCTAACGGGC
1 AATATAAATGTGATTTGGGCCTAATGGGC
69799947 AATATAAATGTGATTTGGGCCTAATGGGC
1 AATATAAATGTGATTTGGGCCTAATGGGC
*
69799976 CATATACAA-GTGATTTGGGCCTAATGGGC
1 AATATA-AATGTGATTTGGGCCTAATGGGC
* * * *
69800005 CATATGAATATGA-TTGGGCTTAATGGGC
1 AATATAAATGTGATTTGGGCCTAATGGGC
69800033 CAGATACAGG
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
28 28 0.37
29 46 0.61
30 2 0.03
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.28
Consensus pattern (29 bp):
AATATAAATGTGATTTGGGCCTAATGGGC
Found at i:69804713 original size:22 final size:22
Alignment explanation
Indices: 69804680--69804757 Score: 75
Period size: 22 Copynumber: 3.5 Consensus size: 22
69804670 GCACTAAGTC
*
69804680 AACAGGACGGCTCAATACCGTA
1 AACAAGACGGCTCAATACCGTA
* *
69804702 AACAAGATGGCTCAATGCCGTA
1 AACAAGACGGCTCAATACCGTA
* * * *
69804724 GACAGGACGGCTCAACATCGTA
1 AACAAGACGGCTCAATACCGTA
* *
69804746 AATAGGACGGCT
1 AACAAGACGGCT
69804758 AAAGGCCAGA
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.35, C:0.24, G:0.26, T:0.15
Consensus pattern (22 bp):
AACAAGACGGCTCAATACCGTA
Found at i:69805690 original size:13 final size:13
Alignment explanation
Indices: 69805672--69805702 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
69805662 GTGTAATTGA
69805672 GGTTATAACATTC
1 GGTTATAACATTC
69805685 GGTTATAACATTC
1 GGTTATAACATTC
69805698 GGTTA
1 GGTTA
69805703 AGTAATATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.39
Consensus pattern (13 bp):
GGTTATAACATTC
Found at i:69808495 original size:27 final size:27
Alignment explanation
Indices: 69808448--69808521 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 27
69808438 CGAAACATAA
* *
69808448 GGGCATTATC-GTCATTCTACCATACAG
1 GGGCATTA-CAGTAATTTTACCATACAG
* * * *
69808475 GGGTATTACGGTAATTTTACCCTATAG
1 GGGCATTACAGTAATTTTACCATACAG
69808502 GGGCATTACAGTAATTTTAC
1 GGGCATTACAGTAATTTTAC
69808522 AAACTGAGGT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
26 1 0.03
27 38 0.97
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (27 bp):
GGGCATTACAGTAATTTTACCATACAG
Found at i:69817234 original size:67 final size:67
Alignment explanation
Indices: 69817124--69817266 Score: 216
Period size: 67 Copynumber: 2.1 Consensus size: 67
69817114 TTGCAGCAAA
* * * *
69817124 GCTGCCAGATATTTTGACGAAGTCAGCAGATACAGATATTGTGGCTAGGCCACCAGATTGCAACG
1 GCTGCCAGATATTGTGACGAAGTCACCAGAAACAGATATTGTGGCGAGGCCACCAGATTGCAACG
*
69817189 GG
66 AG
*
69817191 GCTGCCAGATATTGTGACGAAGTCACCA-AAACAGATATATGTGGCGAGGCCACCAGATTGCAGC
1 GCTGCCAGATATTGTGACGAAGTCACCAGAAACAGATAT-TGTGGCGAGGCCACCAGATTGCAAC
69817255 GAG
65 GAG
69817258 GCTGCCAGA
1 GCTGCCAGA
69817267 ATGCTTCCTC
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
66 9 0.13
67 60 0.87
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (67 bp):
GCTGCCAGATATTGTGACGAAGTCACCAGAAACAGATATTGTGGCGAGGCCACCAGATTGCAACG
AG
Found at i:69817742 original size:27 final size:27
Alignment explanation
Indices: 69817712--69817771 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
69817702 TGTCGTTTCG
69817712 GTAATTCTACCCTATAGGGGTGCTTCA
1 GTAATTCTACCCTATAGGGGTGCTTCA
*
69817739 GTAATTCTACCCTATAGGGGTGTTTCA
1 GTAATTCTACCCTATAGGGGTGCTTCA
69817766 GTAATT
1 GTAATT
69817772 TTGTAAATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.37
Consensus pattern (27 bp):
GTAATTCTACCCTATAGGGGTGCTTCA
Found at i:69817894 original size:53 final size:54
Alignment explanation
Indices: 69817791--69818066 Score: 262
Period size: 53 Copynumber: 5.2 Consensus size: 54
69817781 AAGGGCAAAA
* * * *
69817791 TGGTAATTCTGCAAATCGGGGGTACTTT-GGTAATTTTACAAGTCGAAGGTATTT
1 TGGTAATTTTACAAATCAGGGGTA-TTTCGGTAATTTTACAAATCGAAGGTATTT
* * * *
69817845 TAGTAATTTTACAAATCA-GGGTATTTCAGTAATTTTGCAAATCGGAGGTATTT
1 TGGTAATTTTACAAATCAGGGGTATTTCGGTAATTTTACAAATCGAAGGTATTT
* * *
69817898 TGGTAATTTTGCAAATCAGGGGTATTTCGATAATTTT-TAAATC-AAGGGTATTT
1 TGGTAATTTTACAAATCAGGGGTATTTCGGTAATTTTACAAATCGAA-GGTATTT
* * *
69817951 TGCTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAA-C-AAGGGTATTT
1 TGGTAATTTTACAAATCAGGGGTATTTCGGTAATTTTACAAATCGAA-GGTATTT
* * ** * * *
69818004 TGGAAATTTTA-AAAACTAATGGTATTTTGGTAATTTTACAAA-CCAGGGGTATTT
1 TGGTAATTTTACAAATC-AGGGGTATTTCGGTAATTTTACAAATCGA-AGGTATTT
69818058 TGGTAATTT
1 TGGTAATTT
69818067 GGTAAACTAA
Statistics
Matches: 188, Mismatches: 27, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
52 8 0.04
53 131 0.70
54 49 0.26
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (54 bp):
TGGTAATTTTACAAATCAGGGGTATTTCGGTAATTTTACAAATCGAAGGTATTT
Found at i:69817900 original size:80 final size:77
Alignment explanation
Indices: 69817809--69818066 Score: 252
Period size: 80 Copynumber: 3.2 Consensus size: 77
69817799 CTGCAAATCG
* *
69817809 GGGGTACTTTGGTAATTTTACAAGTCGAAGGTATTTTAGTAATTTTACAAATCAGGGTATTTCAG
1 GGGGTATTTTGGTAATTTTACAA-TC-AAGGTATTTTAGTAATTTTAAAAATCAGGGTATTT-AG
* *
69817874 TAATTTTGCAAATC-
63 TAATTTTACAAACCA
* * * *
69817888 GGAGGTATTTTGGTAATTTTGCAAATCAGGGGTA-TTTCGATAATTTT-TAAATCAAGGGTATTT
1 GG-GGTATTTTGGTAATTTTAC-AATCA-AGGTATTTTAG-TAATTTTAAAAATC-AGGGTATTT
*
69817951 TGCTAATTTTACAAACCA
61 AG-TAATTTTACAAACCA
* * * * * *
69817969 GGGGTATTTTGGTAATTTTACAAACAAGGGTATTTTGGAAATTTTAAAAACTAATGGTATTTTGG
1 GGGGTATTTTGGTAATTTTACAATCAA-GGTATTTTAGTAATTTTAAAAA-TCAGGGTA-TTTAG
69818034 TAATTTTACAAACCA
63 TAATTTTACAAACCA
69818049 GGGGTATTTTGGTAATTT
1 GGGGTATTTTGGTAATTT
69818067 GGTAAACTAA
Statistics
Matches: 150, Mismatches: 17, Indels: 23
0.79 0.09 0.12
Matches are distributed among these distances:
79 27 0.18
80 114 0.76
81 9 0.06
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (77 bp):
GGGGTATTTTGGTAATTTTACAATCAAGGTATTTTAGTAATTTTAAAAATCAGGGTATTTAGTAA
TTTTACAAACCA
Found at i:69818073 original size:27 final size:27
Alignment explanation
Indices: 69817810--69818066 Score: 245
Period size: 27 Copynumber: 9.6 Consensus size: 27
69817800 TGCAAATCGG
* * *
69817810 GGGTACTTTGGTAATTTTACAAGTCGAA
1 GGGTATTTTGGTAATTTTACAA-ACCAA
* *
69817838 -GGTATTTTAGTAATTTTACAAATC-A
1 GGGTATTTTGGTAATTTTACAAACCAA
** * * *
69817863 GGGTATTTCAGTAATTTTGCAAATC-G
1 GGGTATTTTGGTAATTTTACAAACCAA
* * *
69817889 GAGGTATTTTGGTAATTTTGCAAATCAG
1 G-GGTATTTTGGTAATTTTACAAACCAA
* * * *
69817917 GGGTATTTCGATAATTTT-TAAATCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
* *
69817943 GGGTATTTTGCTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAA
69817970 GGGTATTTTGGTAATTTTACAAA-CAA
1 GGGTATTTTGGTAATTTTACAAACCAA
* * *
69817996 GGGTATTTTGGAAATTTTAAAAACTAA
1 GGGTATTTTGGTAATTTTACAAACCAA
* *
69818023 TGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAA
69818050 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
69818067 GGTAAACTAA
Statistics
Matches: 194, Mismatches: 30, Indels: 11
0.83 0.13 0.05
Matches are distributed among these distances:
25 1 0.01
26 68 0.35
27 123 0.63
28 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAA
Found at i:69820266 original size:27 final size:26
Alignment explanation
Indices: 69820218--69820269 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
69820208 ACGAGGTTGC
*
69820218 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
69820244 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
69820270 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:69820943 original size:27 final size:27
Alignment explanation
Indices: 69820895--69821090 Score: 223
Period size: 27 Copynumber: 7.3 Consensus size: 27
69820885 GGGGCAAAAT
* * *
69820895 GGTAATTTTACCCCAC-GAGGGTATCTC
1 GGTAATTCTACCCTACAG-GGGTATTTC
* *
69820922 GGCAATTCTACCCTGCAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
69820949 AGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
69820976 GGTAATTCTACCTTACGGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** *
69821003 AATAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
69821030 GGTAATTTTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
69821057 GGTAATTCTACCCTATAAGGGTGTTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
69821084 GGTAATT
1 GGTAATT
69821091 TTTTAAATTA
Statistics
Matches: 142, Mismatches: 26, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
27 141 0.99
28 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:69821092 original size:54 final size:54
Alignment explanation
Indices: 69820896--69821090 Score: 246
Period size: 54 Copynumber: 3.6 Consensus size: 54
69820886 GGGCAAAATG
* * * * * *
69820896 GTAATTTTACCCCACGAGGGTATCTCGGCAATTCTACCCTGCAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
* * *
69820950 GTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCTTACGGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
* * * * *
69821004 ATAATTCTACCTTACAGGGGTATTTCGGTAATTTTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
* *
69821058 GTAATTCTACCCTATAAGGGTGTTTCGGTAATT
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATT
69821091 TTTTAAATTA
Statistics
Matches: 119, Mismatches: 22, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 119 1.00
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (54 bp):
GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
Found at i:69821160 original size:27 final size:28
Alignment explanation
Indices: 69821130--69821415 Score: 267
Period size: 27 Copynumber: 10.6 Consensus size: 28
69821120 GTAAATCGGG
* * *
69821130 GGTACTTTGGTAATTTTACAAGTCGA-A
1 GGTATTTTGGTAATTTTACAAATCCAGA
*
69821157 GGTATTTTAGTAATTTTACAAAT-C-G-
1 GGTATTTTGGTAATTTTACAAATCCAGA
** *
69821182 GGATATTTCAGTAATTTTGCAAAT-CAGA
1 GG-TATTTTGGTAATTTTACAAATCCAGA
* * * *
69821210 GGTATTTCGATAATTTTACAAATCGAGG
1 GGTATTTTGGTAATTTTACAAATCCAGA
* * *
69821238 GGTATTTCGGTAATTTTACAAAT-TAGG
1 GGTATTTTGGTAATTTTACAAATCCAGA
*
69821265 GGTATTTTGCTAATTTTACAAA-CCAGA
1 GGTATTTTGGTAATTTTACAAATCCAGA
*
69821292 GGTATTTTGGTAATTTTATAAA-CCA-A
1 GGTATTTTGGTAATTTTACAAATCCAGA
69821318 GGGTATTTTGGTAATTTTACAAA-CCA-A
1 -GGTATTTTGGTAATTTTACAAATCCAGA
*
69821345 GGGTATTTTGGTAATTTTACAAA-CCAGG
1 -GGTATTTTGGTAATTTTACAAATCCAGA
* *
69821373 GGTATTTTGGTAATTTTGCTAAT-C-GA
1 GGTATTTTGGTAATTTTACAAATCCAGA
69821399 GCGTATTTTGGTAATTT
1 G-GTATTTTGGTAATTT
69821416 GGTAAACTAA
Statistics
Matches: 225, Mismatches: 24, Indels: 20
0.84 0.09 0.07
Matches are distributed among these distances:
25 2 0.01
26 23 0.10
27 174 0.77
28 26 0.12
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (28 bp):
GGTATTTTGGTAATTTTACAAATCCAGA
Found at i:69821253 original size:81 final size:78
Alignment explanation
Indices: 69821130--69821415 Score: 311
Period size: 81 Copynumber: 3.6 Consensus size: 78
69821120 GTAAATCGGG
* * * *
69821130 GGTACTTTGGTAATTTTACAAGTCGAAGGTATTTTAGTAATTTTACAAATCGGGATATTTCAGTA
1 GGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAATCGGG-TATTT-AGTA
* *
69821195 ATTTTGCAAATCAGA
64 ATTTTACAAACCAGA
* * * * *
69821210 GGTATTTCGATAATTTTACAAATCGAGGGGTATTTCGGTAATTTTACAAATTAGGGGTATTTTGC
1 GGTATTTTGGTAATTTTACAAATCGA-GGGTATTTTGGTAATTTTACAAA-T-CGGGTATTTAG-
69821275 TAATTTTACAAACCAGA
62 TAATTTTACAAACCAGA
* * * * *
69821292 GGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGT
1 GGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAATC--GGGTA-TTTAGT
*
69821357 AATTTTACAAACCAGG
63 AATTTTACAAACCAGA
* * *
69821373 GGTATTTTGGTAATTTTGCTAATCGAGCGTATTTTGGTAATTT
1 GGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTT
69821416 GGTAAACTAA
Statistics
Matches: 172, Mismatches: 27, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
80 22 0.13
81 101 0.59
82 46 0.27
83 3 0.02
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (78 bp):
GGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAATCGGGTATTTAGTAAT
TTTACAAACCAGA
Found at i:69824919 original size:37 final size:37
Alignment explanation
Indices: 69824869--69824979 Score: 179
Period size: 37 Copynumber: 3.0 Consensus size: 37
69824859 TTATTACGAA
69824869 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
69824906 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
* * *
69824943 GTCTTACCCGGACAAAAT-TCCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCT-CCACACGAAGTTATCGG
69824980 CCCTTTAGAG
Statistics
Matches: 70, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
36 1 0.01
37 69 0.99
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
Found at i:69825177 original size:49 final size:48
Alignment explanation
Indices: 69825103--69825588 Score: 766
Period size: 49 Copynumber: 10.1 Consensus size: 48
69825093 CCCTTCGGGA
* * * * * *
69825103 CTTATCACATTTA-TACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATTACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
69825150 CCTGTCACATATATGTACACTTCCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATAT-TACACTTTCACATTCATCACATCGGCCATTAGGC
69825199 CTTATCACATATA-TACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATTACACTTTCACATTCATCACATCGGCCATTAGGC
*
69825246 CCTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATAT-TACACTTTCACATTCATCACATCGGCCATTAGGC
69825297 CTTATCACATATA-TACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATTACACTTTCACATTCATCACATCGGCCATTAGGC
* *
69825344 CCTATCACATATATATACACTTTCACATTCATCACATAGGCCATTAGGC
1 CTTATCACATATAT-TACACTTTCACATTCATCACATCGGCCATTAGGC
69825393 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATAT-TACACTTTCACATTCATCACATCGGCCATTAGGC
69825442 CTTATCACATATA-TACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATTACACTTTCACATTCATCACATCGGCCATTAGGC
69825489 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATAT-TACACTTTCACATTCATCACATCGGCCATTAGGC
69825538 CTTATCACATATA-TACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATTACACTTTCACATTCATCACATCGGCCATTAGGC
69825585 CTTA
1 CTTA
69825589 CTATCATTTC
Statistics
Matches: 411, Mismatches: 18, Indels: 20
0.92 0.04 0.04
Matches are distributed among these distances:
47 181 0.44
49 189 0.46
51 41 0.10
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (48 bp):
CTTATCACATATATTACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:69825233 original size:47 final size:47
Alignment explanation
Indices: 69825103--69825588 Score: 756
Period size: 47 Copynumber: 10.1 Consensus size: 47
69825093 CCCTTCGGGA
* * * * * *
69825103 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
69825150 CCTGTCACATATATGTACACTTCCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATA--TACACTTTCACATTCATCACATCGGCCATTAGGC
69825199 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
69825246 CCTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
69825297 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
69825344 CCTATCACATATATATACACTTTCACATTCATCACATAGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
69825393 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
69825442 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
69825489 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
69825538 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
69825585 CTTA
1 CTTA
69825589 CTATCATTTC
Statistics
Matches: 411, Mismatches: 18, Indels: 20
0.92 0.04 0.04
Matches are distributed among these distances:
47 186 0.45
49 179 0.44
51 46 0.11
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:69825309 original size:96 final size:95
Alignment explanation
Indices: 69825103--69825588 Score: 737
Period size: 96 Copynumber: 5.0 Consensus size: 95
69825093 CCCTTCGGGA
* * * * * * * *
69825103 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATGTAC
1 CTTATCACA-ATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
*
69825168 ACTTCCACATTCATCACATCGGCCATTAGGC
65 ACTTTCACATTCATCACATCGGCCATTAGGC
69825199 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAT
1 CTTATCACA-ATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCAC--ATATATAT
69825264 ACACTTTCACATTCATCACATCGGCCATTAGGC
63 ACACTTTCACATTCATCACATCGGCCATTAGGC
69825297 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 CTTATCACA-ATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
*
69825362 ACTTTCACATTCATCACATAGGCCATTAGGC
65 ACTTTCACATTCATCACATCGGCCATTAGGC
*
69825393 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
1 CTTATCAC--A-ATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAT
69825456 ACACTTTCACATTCATCACATCGGCCATTAGGC
63 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
69825489 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
1 CTTATCAC--A-ATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAT
69825552 ACACTTTCACATTCATCACATCGGCCATTAGGC
63 ACACTTTCACATTCATCACATCGGCCATTAGGC
69825585 CTTA
1 CTTA
69825589 CTATCATTTC
Statistics
Matches: 374, Mismatches: 12, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
96 234 0.63
98 140 0.37
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (95 bp):
CTTATCACAATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACA
CTTTCACATTCATCACATCGGCCATTAGGC
Found at i:69825428 original size:145 final size:145
Alignment explanation
Indices: 69825103--69825588 Score: 795
Period size: 145 Copynumber: 3.4 Consensus size: 145
69825093 CCCTTCGGGA
* * * * * * *
69825103 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATGT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA--T
*
69825166 ACACTTCCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCAT
64 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCAT
69825229 CACATCGGCCATTAGGC
129 CACATCGGCCATTAGGC
*
69825246 CCTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
1 CTTATCAC--ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
*
69825311 ACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCAT
64 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCAT
*
69825376 CACATAGGCCATTAGGC
129 CACATCGGCCATTAGGC
69825393 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
69825458 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
69825523 CATCGGCCATTAGGC
131 CATCGGCCATTAGGC
69825538 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
69825589 CTATCATTTC
Statistics
Matches: 323, Mismatches: 14, Indels: 12
0.93 0.04 0.03
Matches are distributed among these distances:
143 50 0.15
145 185 0.57
146 1 0.00
147 87 0.27
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (145 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
CATCGGCCATTAGGC
Found at i:69829446 original size:55 final size:56
Alignment explanation
Indices: 69829346--69829451 Score: 162
Period size: 55 Copynumber: 1.9 Consensus size: 56
69829336 ACATGTAATA
* *
69829346 ACATATCGATGCCACTGTCTCAAACAGGGTCTTACTCACACACATATATCGGAGTC
1 ACATATCGATGCCAATGTATCAAACAGGGTCTTACTCACACACATATATCGGAGTC
*
69829402 ACATATCGATGCCAATGTAT-AAAC-GTGGTCTTACTCACAGACATATATCG
1 ACATATCGATGCCAATGTATCAAACAG-GGTCTTACTCACACACATATATCG
69829452 ATGCCATGGT
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
54 1 0.02
55 27 0.59
56 18 0.39
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.26
Consensus pattern (56 bp):
ACATATCGATGCCAATGTATCAAACAGGGTCTTACTCACACACATATATCGGAGTC
Found at i:69831748 original size:41 final size:42
Alignment explanation
Indices: 69831703--69831817 Score: 135
Period size: 43 Copynumber: 2.7 Consensus size: 42
69831693 ATATGAGTTA
69831703 TCGTGTAAGACCACGTCTGGGACATTGGCATC-TATTTGATT
1 TCGTGTAAGACCACGTCTGGGACATTGGCATCATATTTGATT
* * *
69831744 TCGTGTAAGACC-CTATCTGGGATAGTGGCATCGATATTTGATT
1 TCGTGTAAGACCAC-GTCTGGGACATTGGCATC-ATATTTGATT
* * * *
69831787 ACATATAAGACCACGTCTGGGACGTTGGCAT
1 TCGTGTAAGACCACGTCTGGGACATTGGCAT
69831818 TGTACGAGCT
Statistics
Matches: 60, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
40 1 0.02
41 27 0.45
43 31 0.52
44 1 0.02
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (42 bp):
TCGTGTAAGACCACGTCTGGGACATTGGCATCATATTTGATT
Found at i:69834141 original size:28 final size:28
Alignment explanation
Indices: 69834101--69834190 Score: 139
Period size: 28 Copynumber: 3.3 Consensus size: 28
69834091 GGAGGAAGCG
*
69834101 TTCTGGTGGCTATGCCACAAATATATGT
1 TTCTGGTGGCTATGCCACAAATATCTGT
69834129 TTCTGGTGGCTATGCCACAAATATCTG-
1 TTCTGGTGGCTATGCCACAAATATCTGT
*
69834156 TTCTGGTGGCTCTGCCAC-AATATCTGT
1 TTCTGGTGGCTATGCCACAAATATCTGT
*
69834183 ATCTGGTG
1 TTCTGGTG
69834191 ACTCTATCAC
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
26 8 0.14
27 24 0.41
28 26 0.45
ACGTcount: A:0.20, C:0.21, G:0.23, T:0.36
Consensus pattern (28 bp):
TTCTGGTGGCTATGCCACAAATATCTGT
Found at i:69834171 original size:27 final size:26
Alignment explanation
Indices: 69834100--69834214 Score: 140
Period size: 27 Copynumber: 4.3 Consensus size: 26
69834090 TGGAGGAAGC
*
69834100 GTTCTGGTGGCTATGCCACAAATATAT
1 GTTCTGGTGGCTATGCCAC-AATATCT
69834127 GTTTCTGGTGGCTATGCCACAAATATCT
1 G-TTCTGGTGGCTATGCCAC-AATATCT
*
69834155 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * **
69834181 GTATCTGGTGACTCTATCACAATATCT
1 GT-TCTGGTGGCTATGCCACAATATCT
69834208 GTTCTGG
1 GTTCTGG
69834215 CAGCCATGCT
Statistics
Matches: 81, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
26 14 0.17
27 41 0.51
28 26 0.32
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:69844593 original size:93 final size:93
Alignment explanation
Indices: 69844485--69844654 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
69844475 GCCCACAAGA
* *
69844485 GAACTTGGACTCAACTCAACGAGCTC-GAGCGTTCGCATCCATAAGTGAACTCAGACTCAACCCA
1 GAACTCGGACTCAACTCAACGAGCTCGGA-CATTCGCATCCATAAGTGAACTCAGACTCAACCCA
69844549 ACGAGTTCGGATGCCTAGTTACATTTCAC
65 ACGAGTTCGGATGCCTAGTTACATTTCAC
* * *
69844578 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACCCAA
69844643 CGAGTTCGGATG
66 CGAGTTCGGATG
69844655 TTCGCATCCA
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
93 69 0.97
94 2 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACCCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:69844699 original size:46 final size:46
Alignment explanation
Indices: 69844492--69844700 Score: 244
Period size: 46 Copynumber: 4.5 Consensus size: 46
69844482 AGAGAACTTG
* *
69844492 GACTCAACTCAACGAGCTC-GAGCGTTCGCATCCATAAGTGAACTCA
1 GACTCAACTCAACGAGTTCGGA-TGTTCGCATCCATAAGTGAACTCA
* * * * * * * *
69844538 GACTCAACCCAACGAGTTCGGATGCCTAG-TTACATTTCA-CGAACTCG
1 GACTCAACTCAACGAGTTCGGATG-TTCGCATCCA--TAAGTGAACTCA
** *
69844585 GACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCG
1 GACTCAACTCAACGAGTTCGGATGTTCGCATCCATAAGTGAACTCA
69844631 GACTCAACTCAACGAGTTCGGATGTTCGCATCCATAAGTGAACTCA
1 GACTCAACTCAACGAGTTCGGATGTTCGCATCCATAAGTGAACTCA
69844677 GACTCAACTCAACGAGTTCGGATG
1 GACTCAACTCAACGAGTTCGGATG
69844701 CCCAAATATC
Statistics
Matches: 135, Mismatches: 22, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
45 2 0.01
46 97 0.72
47 34 0.25
48 2 0.01
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
GACTCAACTCAACGAGTTCGGATGTTCGCATCCATAAGTGAACTCA
Found at i:69847586 original size:30 final size:30
Alignment explanation
Indices: 69847521--69847782 Score: 183
Period size: 30 Copynumber: 8.7 Consensus size: 30
69847511 AGCTTCTGCT
* * **
69847521 ATCGAATTATGAAAAAGGTATAGCTTC-AGTT
1 ATCGAATTATG-AAAAGGGATAGCTACGA-CC
*
69847552 ATCGAATTATGAAAAGGGAT-GGTGACGACC
1 ATCGAATTATGAAAAGGGATAGCT-ACGACC
* * *
69847582 ATCGAAATATGAAAAGGGATAGCTTCGACT
1 ATCGAATTATGAAAAGGGATAGCTACGACC
* * * ***
69847612 ATCAAAATATGAAAAGGGTTAGCTTA-GGTT
1 ATCGAATTATGAAAAGGGATAGC-TACGACC
* * *
69847642 ATCTAATTATGAAAAGTGAT-GGTGACGACC
1 ATCGAATTATGAAAAGGGATAGCT-ACGACC
* * *
69847672 ATCGAATTATGAAAAGGGATAGCTTCGGCT
1 ATCGAATTATGAAAAGGGATAGCTACGACC
* * *
69847702 ATCGAATAATGAAAAGGGAT-GGTAACAACC
1 ATCGAATTATGAAAAGGGATAGCT-ACGACC
* * *
69847732 ATTGAATTAATGAAAAGGGATAGCTTCGACT
1 ATCGAATT-ATGAAAAGGGATAGCTACGACC
*
69847763 ATCGAACTATGAAAAGGGAT
1 ATCGAATTATGAAAAGGGAT
69847783 GGTGACAACC
Statistics
Matches: 179, Mismatches: 42, Indels: 21
0.74 0.17 0.09
Matches are distributed among these distances:
28 1 0.01
29 6 0.03
30 132 0.74
31 38 0.21
32 2 0.01
ACGTcount: A:0.39, C:0.11, G:0.24, T:0.25
Consensus pattern (30 bp):
ATCGAATTATGAAAAGGGATAGCTACGACC
Found at i:69847654 original size:90 final size:89
Alignment explanation
Indices: 69847508--69847719 Score: 293
Period size: 90 Copynumber: 2.3 Consensus size: 89
69847498 GACGATAAAT
* *
69847508 GATAGCTTCTGCTATCGAATTATGAAAAAGGTATAGCTTCAGTTATCGAATTATGAAAAGGGATG
1 GATAGCTTC-GCTATC-AAATATGAAAAGGGTATAGCTTCAGTTATCGAATTATGAAAAGGGATG
69847573 GTGACGACCATCGAAATATGAAAAGG
64 GTGACGACCATCGAAATATGAAAAGG
* *
69847599 GATAGCTTCGACTATCAAAATATGAAAAGGGT-TAGCTT-AGGTTATCTAATTATGAAAAGTGAT
1 GATAGCTTCG-CTATC-AAATATGAAAAGGGTATAGCTTCA-GTTATCGAATTATGAAAAGGGAT
*
69847662 GGTGACGACCATCGAATTATGAAAAGG
63 GGTGACGACCATCGAAATATGAAAAGG
*
69847689 GATAGCTTCGGCTATCGAATAATGAAAAGGG
1 GATAGCTTC-GCTATCAAAT-ATGAAAAGGG
69847720 ATGGTAACAA
Statistics
Matches: 110, Mismatches: 7, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
89 4 0.04
90 78 0.71
91 28 0.25
ACGTcount: A:0.37, C:0.12, G:0.25, T:0.26
Consensus pattern (89 bp):
GATAGCTTCGCTATCAAATATGAAAAGGGTATAGCTTCAGTTATCGAATTATGAAAAGGGATGGT
GACGACCATCGAAATATGAAAAGG
Found at i:69847740 original size:90 final size:91
Alignment explanation
Indices: 69847555--69847782 Score: 250
Period size: 90 Copynumber: 2.5 Consensus size: 91
69847545 TTCAGTTATC
69847555 GAATTATGAAAAGGGATGGTGACGACCATCGAAATATGAAAAGGGATAGCTTCGACTATCAAAAT
1 GAATTATGAAAAGGGATGGTGACGACCATCGAAATATGAAAAGGGATAGCTTCGACTATCAAAAT
* * ****
69847620 ATGAAAAGGGTTAGCTTAGGTTATCT
66 ATGAAAAGGGATAGCTAAAACCATCT
* * * *
69847646 -AATTATGAAAAGTGATGGTGACGACCATCGAATTATGAAAAGGGATAGCTTCGGCTATC-GAAT
1 GAATTATGAAAAGGGATGGTGACGACCATCGAAATATGAAAAGGGATAGCTTCGACTATCAAAAT
*
69847709 AATGAAAAGGGAT-GGTAACAACCAT-T
66 -ATGAAAAGGGATAGCTAA-AACCATCT
* * * *
69847735 GAATTAATGAAAAGGGATAGCT-TCGACTATCGAACTATGAAAAGGGAT
1 GAATT-ATGAAAAGGGAT-GGTGACGACCATCGAAATATGAAAAGGGAT
69847783 GGTGACAACC
Statistics
Matches: 116, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
89 7 0.06
90 73 0.63
91 34 0.29
92 2 0.02
ACGTcount: A:0.39, C:0.11, G:0.25, T:0.24
Consensus pattern (91 bp):
GAATTATGAAAAGGGATGGTGACGACCATCGAAATATGAAAAGGGATAGCTTCGACTATCAAAAT
ATGAAAAGGGATAGCTAAAACCATCT
Found at i:69847766 original size:61 final size:59
Alignment explanation
Indices: 69847552--69847795 Score: 240
Period size: 60 Copynumber: 4.1 Consensus size: 59
69847542 AGCTTCAGTT
* * * * * * * *
69847552 ATCGAATTATGAAAAGGGAT-GGTGACGACCATCGAAATATGAAAAGGGATAGCT-TCGACT
1 ATCGAATTATGAAAAGGGATAGCT-TCGGCTATCG-AATATGAAAAGGGAT-GGTGACAACC
* * * * * * * *
69847612 ATCAAAATATGAAAAGGGTTAGCTTAGGTTATCTAATTATGAAAAGTGATGGTGACGACC
1 ATCGAATTATGAAAAGGGATAGCTTCGGCTATCGAA-TATGAAAAGGGATGGTGACAACC
*
69847672 ATCGAATTATGAAAAGGGATAGCTTCGGCTATCGAATAATGAAAAGGGATGGTAACAACC
1 ATCGAATTATGAAAAGGGATAGCTTCGGCTATCGAAT-ATGAAAAGGGATGGTGACAACC
* *
69847732 ATTGAATTAATGAAAAGGGATAGCTTCGACTATCGAACTATGAAAAGGGATGGTGACAACC
1 ATCGAATT-ATGAAAAGGGATAGCTTCGGCTATCGAA-TATGAAAAGGGATGGTGACAACC
69847793 ATC
1 ATC
69847796 TTGATTCCAC
Statistics
Matches: 151, Mismatches: 27, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
59 5 0.03
60 93 0.62
61 52 0.34
62 1 0.01
ACGTcount: A:0.39, C:0.13, G:0.25, T:0.24
Consensus pattern (59 bp):
ATCGAATTATGAAAAGGGATAGCTTCGGCTATCGAATATGAAAAGGGATGGTGACAACC
Found at i:69853833 original size:27 final size:26
Alignment explanation
Indices: 69853785--69853844 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
69853775 GCGAAGCTGC
*
69853785 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
69853812 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
69853838 CAGATAT
1 CAGATAT
69853845 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:69854934 original size:17 final size:17
Alignment explanation
Indices: 69854912--69854951 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
69854902 ACCATGTGGA
*
69854912 CCCAATGGGCCTACGGG
1 CCCAATGGGCCTACGGC
69854929 CCCAATGGGCCTACGGC
1 CCCAATGGGCCTACGGC
69854946 CCCAAT
1 CCCAAT
69854952 TGGATAAGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.20, C:0.40, G:0.28, T:0.12
Consensus pattern (17 bp):
CCCAATGGGCCTACGGC
Found at i:69855153 original size:27 final size:27
Alignment explanation
Indices: 69855123--69855408 Score: 322
Period size: 27 Copynumber: 10.6 Consensus size: 27
69855113 TTAGTTTACC
69855123 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
* *
69855150 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTTGGTTTGTA
* * * *
69855177 AAATCACCAAAATACCCCTAGTTTATA
1 AAATTACCAAAATACCCTTGGTTTGTA
**
69855204 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTTGGTTTGTA
69855231 AAATTACCAAAATACCC-TGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
*
69855257 AAATTACTAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
* * *
69855284 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
* * *
69855311 AAATTACCAAAATACCCATGATTTGTG
1 AAATTACCAAAATACCCTTGGTTTGTA
* * ***
69855338 AAATTACTAAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
** * **
69855365 AAATTATTAAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
* *
69855392 AAATTTCCAAAGTACCC
1 AAATTACCAAAATACCC
69855409 CTAATTTATA
Statistics
Matches: 224, Mismatches: 34, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
26 23 0.10
27 201 0.90
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTGGTTTGTA
Found at i:69855696 original size:27 final size:27
Alignment explanation
Indices: 69855447--69855692 Score: 280
Period size: 27 Copynumber: 9.1 Consensus size: 27
69855437 CGATTTACAA
* *
69855447 AATTACCGAAATACCCTTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * ** *
69855474 AAATACCAAAATACCATTGTAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
69855501 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
69855528 TAA-TACCAAAATACCCCTATAGGGTAG
1 -AATTACCGAAATACCCCTGTAGGGTAG
** *
69855555 AATTACTAAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
69855582 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
69855609 AAATACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
**
69855636 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
69855663 AATTACCGAGATACCCTTGTGGGGTA-
1 AATTACCGAAATACCCCTGTAGGGTAG
69855689 AATT
1 AATT
69855693 TACCATTTTA
Statistics
Matches: 187, Mismatches: 30, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
26 6 0.03
27 179 0.96
28 2 0.01
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:69855708 original size:81 final size:81
Alignment explanation
Indices: 69855450--69855688 Score: 318
Period size: 81 Copynumber: 3.0 Consensus size: 81
69855440 TTTACAAAAT
* * * * * ** *
69855450 TACCGAAATACCCTTGTAAGGTAGAAATACCAAAATACCATTGT-AGGATAGAAATACCGAAATA
1 TACCGAAATACCCCTATAGGGTAGAATTACTAAAATACCCCTGTAAGG-TAGAATTACCGAAATA
* *
69855514 CCCCTGTAGGGTAGTAA
65 CCCTTGTAGGGTAGAAA
*
69855531 TACCAAAATACCCCTATAGGGTAGAATTACTAAAATACCCCTGTAAGGTAGAATTACCGAAATAC
1 TACCGAAATACCCCTATAGGGTAGAATTACTAAAATACCCCTGTAAGGTAGAATTACCGAAATAC
69855596 CCTTGTAGGGTAGAAA
66 CCTTGTAGGGTAGAAA
* * * *
69855612 TACCGAAATACCCCTATAGGGTAGAATTATTGAAATACCCCTGTAGGGTAGAATTACCGAGATAC
1 TACCGAAATACCCCTATAGGGTAGAATTACTAAAATACCCCTGTAAGGTAGAATTACCGAAATAC
*
69855677 CCTTGTGGGGTA
66 CCTTGTAGGGTA
69855689 AATTTACCAT
Statistics
Matches: 140, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
81 137 0.98
82 3 0.02
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (81 bp):
TACCGAAATACCCCTATAGGGTAGAATTACTAAAATACCCCTGTAAGGTAGAATTACCGAAATAC
CCTTGTAGGGTAGAAA
Found at i:69855985 original size:27 final size:26
Alignment explanation
Indices: 69855941--69855992 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
69855931 CTCGCTGCAA
*
69855941 TCTGGTGGCGTCGCCACATATATCTGT
1 TCTGGTGACGTCGCCACA-ATATCTGT
* *
69855968 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACGTCGCCACAATATCTG
69855993 GCAGCCTTGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.35
Consensus pattern (26 bp):
TCTGGTGACGTCGCCACAATATCTGT
Found at i:69856267 original size:18 final size:18
Alignment explanation
Indices: 69856240--69856277 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
69856230 CCTGATACTT
*
69856240 ATTCTGATTCTAATTCTG
1 ATTCTAATTCTAATTCTG
*
69856258 ATTCTAATTCTAGTTCTG
1 ATTCTAATTCTAATTCTG
69856276 AT
1 AT
69856278 AATGTTTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.16, G:0.11, T:0.50
Consensus pattern (18 bp):
ATTCTAATTCTAATTCTG
Found at i:69856274 original size:12 final size:12
Alignment explanation
Indices: 69856240--69856268 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
69856230 CCTGATACTT
69856240 ATTCTGATTCTA
1 ATTCTGATTCTA
69856252 ATTCTGATTCTA
1 ATTCTGATTCTA
69856264 ATTCT
1 ATTCT
69856269 AGTTCTGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.24, C:0.17, G:0.07, T:0.52
Consensus pattern (12 bp):
ATTCTGATTCTA
Found at i:69878320 original size:50 final size:49
Alignment explanation
Indices: 69878204--69878435 Score: 275
Period size: 49 Copynumber: 4.7 Consensus size: 49
69878194 CTGGTACGCA
* *
69878204 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGATACACG
** *
69878253 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGATACACG
* * * * *
69878303 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGATACACG
* * * * * *
69878354 TAGTAGCTTGCACTTATTACTACATATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGATACACG
* *
69878403 TAGTAACCTGCACTTAGCACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
69878436 CCACAATAGA
Statistics
Matches: 152, Mismatches: 28, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
49 68 0.45
50 49 0.32
51 35 0.23
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGATACACG
Found at i:69878712 original size:27 final size:27
Alignment explanation
Indices: 69878682--69878735 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
69878672 TCATACAACC
* *
69878682 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
69878709 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
69878736 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:69881229 original size:29 final size:29
Alignment explanation
Indices: 69881193--69881273 Score: 126
Period size: 29 Copynumber: 2.8 Consensus size: 29
69881183 TAAAGATAAC
69881193 GAGAAAACCGAATAAAGAAATCCAAGATT
1 GAGAAAACCGAATAAAGAAATCCAAGATT
* *
69881222 GAGAAAACCAAATAAAAAAATCCAAGATT
1 GAGAAAACCGAATAAAGAAATCCAAGATT
*
69881251 GAGAAACCCAGAATAAAGAAATC
1 GAGAAAACC-GAATAAAGAAATC
69881274 TAGAATAAAG
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
29 35 0.76
30 11 0.24
ACGTcount: A:0.58, C:0.15, G:0.15, T:0.12
Consensus pattern (29 bp):
GAGAAAACCGAATAAAGAAATCCAAGATT
Found at i:69895212 original size:25 final size:24
Alignment explanation
Indices: 69895170--69895217 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
69895160 GCTTTATCAT
*
69895170 ATAACTGGAGGCCTAGCCTCTTTTA
1 ATAACTGGAGGCATAGCC-CTTTTA
69895195 ATAACTGG-GGCATAAGCCCTTTT
1 ATAACTGGAGGCAT-AGCCCTTTT
69895218 GCACTTCCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (24 bp):
ATAACTGGAGGCATAGCCCTTTTA
Found at i:69895292 original size:20 final size:20
Alignment explanation
Indices: 69895267--69895333 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
69895257 TTATGAATAC
69895267 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
69895287 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
69895307 GTCATGTCCATATCATACAT
1 ATCATGTGCATATCATACAT
*
69895327 ACCATGT
1 ATCATGT
69895334 TAATCAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.33, C:0.22, G:0.10, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:69895415 original size:24 final size:25
Alignment explanation
Indices: 69895368--69895415 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
69895358 TCATATTTAA
* *
69895368 ACCTAGGGGTATAATGGTCATTTTT
1 ACCTAGGGGTAAAACGGTCATTTTT
69895393 ACCTAGGGG-AAAACGGTCATTTT
1 ACCTAGGGGTAAAACGGTCATTTT
69895416 CATATTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (25 bp):
ACCTAGGGGTAAAACGGTCATTTTT
Found at i:69899015 original size:16 final size:16
Alignment explanation
Indices: 69898990--69899022 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
69898980 ACGGTATTCT
*
69898990 ATATTTTATAGTAGCA
1 ATATTCTATAGTAGCA
69899006 ATATTCTATAGTAGCA
1 ATATTCTATAGTAGCA
69899022 A
1 A
69899023 AGGAATAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.39
Consensus pattern (16 bp):
ATATTCTATAGTAGCA
Found at i:69900790 original size:48 final size:47
Alignment explanation
Indices: 69900720--69900936 Score: 233
Period size: 48 Copynumber: 4.5 Consensus size: 47
69900710 CAAAGTGCTA
* * * *
69900720 ATATCATGGCCC-ATAACCAAATC-AGTGAATCTCGCACCCTAGGTTCCG
1 ATATCATGGCCCGA-ATCCAAATCAAGT-AA-CTCGCACCCGAAGTGCCG
* * *
69900768 ATATCATGGCCCGAATCAAAATCAAAGTAACTCACACCCGAAGTACCG
1 ATATCATGGCCCGAATCCAAATC-AAGTAACTCGCACCCGAAGTGCCG
*
69900816 ATATCATGGCCCGAAGT-CAAATCAAAGTAACTCGCACCTGAAGTGCCG
1 ATATCATGGCCCGAA-TCCAAATC-AAGTAACTCGCACCCGAAGTGCCG
* *
69900864 ATATCATGGCCCGAAGCCAAATCAAAGTAACTCGCACCCGAAGTGCGG
1 ATATCATGGCCCGAATCCAAATC-AAGTAACTCGCACCCGAAGTGCCG
* **
69900912 ATATCATGGCCTGAAGGCAAATCAA
1 ATATCATGGCCCGAATCCAAATCAA
69900937 TATATCACCT
Statistics
Matches: 149, Mismatches: 15, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
47 2 0.01
48 140 0.94
49 4 0.03
50 3 0.02
ACGTcount: A:0.35, C:0.28, G:0.19, T:0.18
Consensus pattern (47 bp):
ATATCATGGCCCGAATCCAAATCAAGTAACTCGCACCCGAAGTGCCG
Found at i:69907708 original size:48 final size:49
Alignment explanation
Indices: 69907656--69907928 Score: 294
Period size: 48 Copynumber: 5.7 Consensus size: 49
69907646 CTTGCGCACT
* * * * *
69907656 AAGTGCTC-ACATCATGACCCGAAGCCAACTCAATA-TATCTCGCACCCA
1 AAGTGCTCGATATCATGGCCCGAAGCCAAATCAA-AGTAACTCGCACCCG
* * * *
69907704 AAGTGCT-AATATCATTGCCCGTAGCCAAATC--AGTGAAGCTTGCACCCG
1 AAGTGCTCGATATCATGGCCCGAAGCCAAATCAAAGT-AA-CTCGCACCCG
* *
69907752 AGGTGC-CGATATCATGGCCTGAAGCCAAATCAAAGTAACTCGCACCCG
1 AAGTGCTCGATATCATGGCCCGAAGCCAAATCAAAGTAACTCGCACCCG
* *
69907800 AAGTGAT-GATATCATGGCCCGAAGCCAAATCAAAGTAACTCGCACCCA
1 AAGTGCTCGATATCATGGCCCGAAGCCAAATCAAAGTAACTCGCACCCG
* * *
69907848 AAGTGC-CGATATCATGGCCCAAAGCCAAATCAAAGTAACTCGCAGCTG
1 AAGTGCTCGATATCATGGCCCGAAGCCAAATCAAAGTAACTCGCACCCG
* *
69907896 AAGTG-TCAATATCATGGCCCAAAGCCAAATCAA
1 AAGTGCTCGATATCATGGCCCGAAGCCAAATCAA
69907929 TATATCTCCT
Statistics
Matches: 191, Mismatches: 24, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
45 1 0.01
46 1 0.01
47 1 0.01
48 183 0.96
49 2 0.01
50 3 0.02
ACGTcount: A:0.34, C:0.29, G:0.19, T:0.18
Consensus pattern (49 bp):
AAGTGCTCGATATCATGGCCCGAAGCCAAATCAAAGTAACTCGCACCCG
Found at i:69907921 original size:144 final size:144
Alignment explanation
Indices: 69907666--69907928 Score: 334
Period size: 144 Copynumber: 1.8 Consensus size: 144
69907656 AAGTGCTCAC
* * * * **
69907666 ATCATGACCCGAAGCCAACTCAATATATCTCGCACCCAAAGTGCTAATATCATTGCCCGTAGCCA
1 ATCATGACCCGAAGCCAAATCAATATAACTCGCACCCAAAGTGCCAATATCATGGCCCAAAGCCA
* * * **
69907731 AATCAGTGAAGCTTGCACCCGAGGTGCCGATATCATGGCCTGAAGCCAAATCAAAGTAACTCGCA
66 AATCAGTGAAGCTCGCACCCGAAGTGCCAATATCATGGCCCAAAGCCAAATCAAAGTAACTCGCA
69907796 CCCGAAGTGATGAT
131 CCCGAAGTGATGAT
* *
69907810 ATCATGGCCCGAAGCCAAATCAA-AGTAACTCGCACCCAAAGTGCCGATATCATGGCCCAAAGCC
1 ATCATGACCCGAAGCCAAATCAATA-TAACTCGCACCCAAAGTGCCAATATCATGGCCCAAAGCC
* * *
69907874 AAATCAAAGT-AA-CTCGCAGCTGAAGTGTCAATATCATGGCCCAAAGCCAAATCAA
65 AAATC--AGTGAAGCTCGCACCCGAAGTGCCAATATCATGGCCCAAAGCCAAATCAA
69907929 TATATCTCCT
Statistics
Matches: 100, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
143 1 0.01
144 94 0.94
145 2 0.02
146 3 0.03
ACGTcount: A:0.35, C:0.29, G:0.19, T:0.18
Consensus pattern (144 bp):
ATCATGACCCGAAGCCAAATCAATATAACTCGCACCCAAAGTGCCAATATCATGGCCCAAAGCCA
AATCAGTGAAGCTCGCACCCGAAGTGCCAATATCATGGCCCAAAGCCAAATCAAAGTAACTCGCA
CCCGAAGTGATGAT
Found at i:69910871 original size:25 final size:23
Alignment explanation
Indices: 69910839--69910910 Score: 78
Period size: 25 Copynumber: 3.1 Consensus size: 23
69910829 AATTCTTTTT
69910839 AAAAATTTAAATTTGTTTGTTTAAG
1 AAAAATTTAAATTT-TTT-TTTAAG
*
69910864 AATAATTT-AA--TTTTTTTAAG
1 AAAAATTTAAATTTTTTTTTAAG
69910884 AAAAATTTAAATTTTACTTTTTAAG
1 AAAAATTTAAATTTT--TTTTTAAG
69910909 AA
1 AA
69910911 TACCAATAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
20 13 0.32
21 5 0.12
22 1 0.03
23 2 0.05
24 2 0.05
25 17 0.43
ACGTcount: A:0.43, C:0.01, G:0.07, T:0.49
Consensus pattern (23 bp):
AAAAATTTAAATTTTTTTTTAAG
Found at i:69910883 original size:20 final size:21
Alignment explanation
Indices: 69910839--69910898 Score: 68
Period size: 20 Copynumber: 2.7 Consensus size: 21
69910829 AATTCTTTTT
69910839 AAAAATTTAAATTTGTTTGTTTAAG
1 AAAAATTTAAA--T-TTT-TTTAAG
*
69910864 AATAATTT-AATTTTTTTAAG
1 AAAAATTTAAATTTTTTTAAG
69910884 AAAAATTTAAATTTT
1 AAAAATTTAAATTTT
69910899 ACTTTTTAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 13 0.41
21 9 0.28
22 1 0.03
24 2 0.06
25 7 0.22
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (21 bp):
AAAAATTTAAATTTTTTTAAG
Found at i:69911566 original size:86 final size:85
Alignment explanation
Indices: 69911350--69911566 Score: 204
Period size: 86 Copynumber: 2.4 Consensus size: 85
69911340 TGAAAAAAAG
* ** *
69911350 TCAAACTTTTTAAAAAATAATAATTAAGCTCCTACTTTTTTACTTTACACTCGTTTGGGTAGTTC
1 TCAAAC-TTTTCAAAAATAATAATTAAG--CC--CTTTTTT--TTTACACTCAATTGGGTACTTC
*
69911415 AACTTTCAAAATATATCAAAAAAGTCC
59 AACTTTCAAAATATATCAAAAAAGCCC
* * * *
69911442 TCAAATCTTTTCAAAGAAAAACAATTAAGCCCCTTTTTTTT-CACTCAATTGGGTACTTGAACTT
1 TCAAA-CTTTTCAAA-AATAATAATTAAGCCCTTTTTTTTTACACTCAATTGGGTACTTCAACTT
* *
69911506 TTAAAATGTATC-AAAAAGACCC
64 TCAAAATATATCAAAAAAG-CCC
* *
69911528 TCAAACATTTTCAAAAATAGTAATTAAGCCCTTGTTTTT
1 TCAAAC-TTTTCAAAAATAATAATTAAGCCCTTTTTTTT
69911567 ATTTAAAATT
Statistics
Matches: 105, Mismatches: 16, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
85 26 0.25
86 44 0.42
87 3 0.03
89 6 0.06
91 2 0.02
92 12 0.11
93 12 0.11
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (85 bp):
TCAAACTTTTCAAAAATAATAATTAAGCCCTTTTTTTTTACACTCAATTGGGTACTTCAACTTTC
AAAATATATCAAAAAAGCCC
Found at i:69911946 original size:46 final size:48
Alignment explanation
Indices: 69911839--69911958 Score: 122
Period size: 46 Copynumber: 2.5 Consensus size: 48
69911829 TTTTTTTATG
*
69911839 ATTTTTATAAAATTTTTCAATTTTTTTATTTTTTAAAAAAATTTATAAA
1 ATTTTTCTAAAATTTTT-AATTTTTTTATTTTTTAAAAAAATTTATAAA
*** ** *
69911888 AAAATTCT-AAA-TTTTAA-TTTTTTATATTTTTATTAAAATTTA-ATA
1 ATTTTTCTAAAATTTTTAATTTTTTTAT-TTTTTAAAAAAATTTATAAA
*
69911933 ATTTTTCTAAAATTTTTTATTTTTTT
1 ATTTTTCTAAAATTTTTAATTTTTTT
69911959 CTAATTTTTA
Statistics
Matches: 56, Mismatches: 11, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
45 15 0.27
46 19 0.34
47 9 0.16
48 9 0.16
49 4 0.07
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (48 bp):
ATTTTTCTAAAATTTTTAATTTTTTTATTTTTTAAAAAAATTTATAAA
Found at i:69911956 original size:19 final size:19
Alignment explanation
Indices: 69911903--69911962 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 19
69911893 TCTAAATTTT
*
69911903 AATTTTTTATATTTTTATTAA
1 AATTTTTTAT-TTTTT-CTAA
** *
69911924 AATTTAATAATTTTTCTAA
1 AATTTTTTATTTTTTCTAA
69911943 AATTTTTTATTTTTTTCTAA
1 AATTTTTTA-TTTTTTCTAA
69911963 TTTTTAATAA
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
19 10 0.32
20 14 0.45
21 7 0.23
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (19 bp):
AATTTTTTATTTTTTCTAA
Found at i:69911957 original size:20 final size:20
Alignment explanation
Indices: 69911903--69911962 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 20
69911893 TCTAAATTTT
69911903 AATTTTTTATATTTTTAT-TAA
1 AATTTTTTAT-TTTTT-TCTAA
** *
69911924 AATTTAATA-ATTTTTCTAA
1 AATTTTTTATTTTTTTCTAA
69911943 AATTTTTTATTTTTTTCTAA
1 AATTTTTTATTTTTTTCTAA
69911963 TTTTTAATAA
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
18 1 0.03
19 14 0.45
20 9 0.29
21 7 0.23
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (20 bp):
AATTTTTTATTTTTTTCTAA
Found at i:69913648 original size:58 final size:58
Alignment explanation
Indices: 69913566--69913683 Score: 227
Period size: 58 Copynumber: 2.0 Consensus size: 58
69913556 TCCAAGAATC
*
69913566 TCACTCTTGCACTTAACCAAGCTATAGCATTCTTTGATGCACAAAAGTGTAAGAATTT
1 TCACTCTTGCACTTAACCAAGCTATAACATTCTTTGATGCACAAAAGTGTAAGAATTT
69913624 TCACTCTTGCACTTAACCAAGCTATAACATTCTTTGATGCACAAAAGTGTAAGAATTT
1 TCACTCTTGCACTTAACCAAGCTATAACATTCTTTGATGCACAAAAGTGTAAGAATTT
69913682 TC
1 TC
69913684 CTTTGTGAAT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (58 bp):
TCACTCTTGCACTTAACCAAGCTATAACATTCTTTGATGCACAAAAGTGTAAGAATTT
Found at i:69915965 original size:48 final size:48
Alignment explanation
Indices: 69915894--69915991 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
69915884 TTTTCAACGC
69915894 AAGAATGAGGTAAAAGACAAGGCAAACAGCACATTCTTTGAAACTCCT
1 AAGAATGAGGTAAAAGACAAGGCAAACAGCACATTCTTTGAAACTCCT
69915942 AAGAATGAGGTAAAAGACAAGGCAAACAGCACATTCTTTGAAACTCCT
1 AAGAATGAGGTAAAAGACAAGGCAAACAGCACATTCTTTGAAACTCCT
69915990 AA
1 AA
69915992 TTTCTGATGA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.45, C:0.18, G:0.18, T:0.18
Consensus pattern (48 bp):
AAGAATGAGGTAAAAGACAAGGCAAACAGCACATTCTTTGAAACTCCT
Done.