Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 227 of 255
Found at i:75253682 original size:72 final size:72
Alignment explanation
Indices: 75253545--75253682 Score: 170
Period size: 72 Copynumber: 1.9 Consensus size: 72
75253535 GAATTTTATG
* * * * ** **
75253545 ATCGATGGCTTGAGATCTAATATATGTTGCGGATTCTCTAATGCTTGTGTGAGCAACACTGAATA
1 ATCGATGGCTAGAGATCTAACACATGTTGCGGATTCTCTAAAGCTTGAATGAGCAACACCAAATA
75253610 ATTCTTT
66 ATTCTTT
* *
75253617 ATCGATGGCTAGAGAT-TCAACACATGTTGCTGATTCTCTAAAGTTTGAATGAGCAACACCAAAT
1 ATCGATGGCTAGAGATCT-AACACATGTTGCGGATTCTCTAAAGCTTGAATGAGCAACACCAAAT
75253681 AA
65 AA
75253683 AGCTTATATA
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
71 1 0.02
72 54 0.98
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.33
Consensus pattern (72 bp):
ATCGATGGCTAGAGATCTAACACATGTTGCGGATTCTCTAAAGCTTGAATGAGCAACACCAAATA
ATTCTTT
Found at i:75255555 original size:16 final size:17
Alignment explanation
Indices: 75255525--75255560 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
75255515 TTAGAGTTGG
*
75255525 ATTGAGAAAATTATTTA
1 ATTGAGAAAAATATTTA
75255542 ATTGA-AAAAATATTTA
1 ATTGAGAAAAATATTTA
75255558 ATT
1 ATT
75255561 TAAATAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (17 bp):
ATTGAGAAAAATATTTA
Found at i:75255584 original size:14 final size:15
Alignment explanation
Indices: 75255536--75255585 Score: 52
Period size: 14 Copynumber: 3.4 Consensus size: 15
75255526 TTGAGAAAAT
*
75255536 TATTTAATTGAAAAAA
1 TATTTAATT-AAATAA
75255552 TATTTAATTTAAAT-A
1 TATTTAA-TTAAATAA
75255567 -ATTTAA-TAAATAA
1 TATTTAATTAAATAA
75255580 TATTTA
1 TATTTA
75255586 TTTTGGGAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
12 5 0.17
13 1 0.03
14 11 0.37
15 1 0.03
16 10 0.33
17 2 0.07
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (15 bp):
TATTTAATTAAATAA
Found at i:75261354 original size:50 final size:50
Alignment explanation
Indices: 75261234--75261478 Score: 291
Period size: 50 Copynumber: 4.9 Consensus size: 50
75261224 TAGCCGAAGC
* * * * * * *
75261234 TATCTGGTACGCATAGCAGCTTGGACTTAGTACTACACATGCGACC-AAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAT
* *
75261283 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAT
* * * * *
75261333 CATTTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-T
* * *
75261384 TATCAGGTAGCA--TAGTAGCCTGCACTTAGTACTACACATGCGACC-AAT
1 TATCTGGTA-CACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAT
75261432 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCT
75261479 CACAATAGCT
Statistics
Matches: 164, Mismatches: 26, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
47 2 0.01
48 9 0.05
49 71 0.43
50 75 0.46
51 5 0.03
52 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (50 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAT
Found at i:75261449 original size:99 final size:98
Alignment explanation
Indices: 75261233--75261477 Score: 305
Period size: 99 Copynumber: 2.5 Consensus size: 98
75261223 GTAGCCGAAG
* * * * * * * *
75261233 CTATCTGGTACGCATAGCAGCTTGGACTTAGTACTACACATGCGACCAATTATCCGGTACACGTA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACAC-TA
*
75261298 GTAGCCTGCACTTAGTACTACACACGTGACCTAA
65 GTAGCCTGCACTTAGTACTACACACGCGACCTAA
* * * *
75261332 CCATTTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTAGCA-
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCAGGTA-CAC
*
75261396 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AA
63 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAA
*
75261431 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
75261478 TCACAATAGC
Statistics
Matches: 124, Mismatches: 19, Indels: 7
0.83 0.13 0.05
Matches are distributed among these distances:
98 1 0.01
99 78 0.63
100 34 0.27
101 9 0.07
102 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.26
Consensus pattern (98 bp):
CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACTAG
TAGCCTGCACTTAGTACTACACACGCGACCTAA
Found at i:75270519 original size:12 final size:12
Alignment explanation
Indices: 75270499--75270532 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
75270489 CGGCTGTGTA
75270499 CTACCACACGGC
1 CTACCACACGGC
* *
75270511 CTCCCACACGGG
1 CTACCACACGGC
75270523 CTACCACACG
1 CTACCACACG
75270533 CCTGTGTGGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.24, C:0.50, G:0.18, T:0.09
Consensus pattern (12 bp):
CTACCACACGGC
Found at i:75271898 original size:14 final size:15
Alignment explanation
Indices: 75271879--75271911 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
75271869 GTTTAATTCC
*
75271879 TTTTC-AATTTGATT
1 TTTTCAAATTTAATT
75271893 TTTTCAAATTTAATT
1 TTTTCAAATTTAATT
75271908 TTTT
1 TTTT
75271912 TATCAAATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.24, C:0.06, G:0.03, T:0.67
Consensus pattern (15 bp):
TTTTCAAATTTAATT
Found at i:75272044 original size:22 final size:21
Alignment explanation
Indices: 75272007--75272053 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
75271997 AAGTTTCAAT
*
75272007 TAAATAAATTATTAAAAATAA
1 TAAATAAAATATTAAAAATAA
*
75272028 TAAATAAAAATATTAAAAATTA
1 TAAAT-AAAATATTAAAAATAA
75272050 TAAA
1 TAAA
75272054 ACTCGATTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (21 bp):
TAAATAAAATATTAAAAATAA
Found at i:75278630 original size:18 final size:18
Alignment explanation
Indices: 75278607--75278646 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
75278597 AATTTGAAAC
75278607 TTTTCTACAAAGGTTTAA
1 TTTTCTACAAAGGTTTAA
* *
75278625 TTTTCTACTATGGTTTAA
1 TTTTCTACAAAGGTTTAA
75278643 TTTT
1 TTTT
75278647 ATAAATAAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.25, C:0.10, G:0.10, T:0.55
Consensus pattern (18 bp):
TTTTCTACAAAGGTTTAA
Found at i:75281435 original size:21 final size:22
Alignment explanation
Indices: 75281406--75281452 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
75281396 CAGAAGGAGT
*
75281406 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
75281428 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
75281449 GAGT
1 GAGT
75281453 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:75302843 original size:10 final size:10
Alignment explanation
Indices: 75302830--75302854 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
75302820 TCTCCTAAGT
75302830 ATTTTACAAA
1 ATTTTACAAA
75302840 ATTTTACAAA
1 ATTTTACAAA
75302850 ATTTT
1 ATTTT
75302855 TAAAGATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (10 bp):
ATTTTACAAA
Found at i:75332261 original size:103 final size:103
Alignment explanation
Indices: 75332135--75332336 Score: 377
Period size: 103 Copynumber: 2.0 Consensus size: 103
75332125 TTTACATTGA
75332135 CTTGACGCAATTGCCAACCATTGGATACAACAATAGATAAGATGGTTCAGATAGTAACAGGTTTG
1 CTTGACGCAATTGCCAACCATTGGATACAACAATAGATAAGATGGTTCAGATAGTAACAGGTTTG
*
75332200 ATCATTGGGTTAAATGTTTCGTTAAAGTCACACCTCAG
66 ATCACTGGGTTAAATGTTTCGTTAAAGTCACACCTCAG
* *
75332238 CTTGACGCAATTGCCAACCATTGGATACAGCAATAGATAAGATGGTTCAGATAGTAGCAGGTTTG
1 CTTGACGCAATTGCCAACCATTGGATACAACAATAGATAAGATGGTTCAGATAGTAACAGGTTTG
75332303 ATCACTGGGTTAAATGTTTCGTTAAAGTCACACC
66 ATCACTGGGTTAAATGTTTCGTTAAAGTCACACC
75332337 CAAGTACCTG
Statistics
Matches: 96, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 96 1.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (103 bp):
CTTGACGCAATTGCCAACCATTGGATACAACAATAGATAAGATGGTTCAGATAGTAACAGGTTTG
ATCACTGGGTTAAATGTTTCGTTAAAGTCACACCTCAG
Found at i:75334651 original size:24 final size:22
Alignment explanation
Indices: 75334609--75334675 Score: 55
Period size: 24 Copynumber: 2.9 Consensus size: 22
75334599 CATTTCACGT
* *
75334609 CCAAAATCGCGCCCAAAATTGTGC
1 CCAAAATCACACCC-AAATTGT-C
*
75334633 CCAAAA-CTACGACCCAAATCAGTC
1 CCAAAATC-AC-ACCCAAAT-TGTC
75334657 CCAAAATCACACCCAAATT
1 CCAAAATCACACCCAAATT
75334676 ATGGTCTGCT
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
23 9 0.26
24 20 0.57
25 6 0.17
ACGTcount: A:0.40, C:0.36, G:0.09, T:0.15
Consensus pattern (22 bp):
CCAAAATCACACCCAAATTGTC
Found at i:75335890 original size:28 final size:27
Alignment explanation
Indices: 75335859--75335912 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
75335849 AAATTTTTTA
*
75335859 AAAAAAATAAAATATTATAAAAATCATG
1 AAAAAAATAAAAAATT-TAAAAATCATG
* *
75335887 AAAAATATAAAAAATTTAAAATTCAT
1 AAAAAAATAAAAAATTTAAAAATCAT
75335913 TATCAAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 9 0.39
28 14 0.61
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.28
Consensus pattern (27 bp):
AAAAAAATAAAAAATTTAAAAATCATG
Found at i:75336004 original size:20 final size:20
Alignment explanation
Indices: 75335976--75336023 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
75335966 TTAAAATTTT
75335976 AACTAAAAATATTAAAATAAA
1 AACTAAAAAT-TTAAAATAAA
*
75335997 AA-TAAAAATTTATAATAAA
1 AACTAAAAATTTAAAATAAA
75336016 AACTAAAA
1 AACTAAAA
75336024 TAAATAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 11 0.44
20 12 0.48
21 2 0.08
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (20 bp):
AACTAAAAATTTAAAATAAA
Found at i:75336013 original size:19 final size:19
Alignment explanation
Indices: 75335979--75336037 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
75335969 AAATTTTAAC
*
75335979 TAAAAATATTAAAATAAAAA
1 TAAAAAT-TTATAATAAAAA
75335999 TAAAAATTTATAATAAAAA
1 TAAAAATTTATAATAAAAA
**
75336018 CT-AAAATAAATAATAAAAA
1 -TAAAAATTTATAATAAAAA
75336037 T
1 T
75336038 TAGATTAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
18 1 0.03
19 26 0.74
20 8 0.23
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (19 bp):
TAAAAATTTATAATAAAAA
Found at i:75342169 original size:16 final size:16
Alignment explanation
Indices: 75342148--75342178 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
75342138 TTTGGTTCGC
*
75342148 TGTATTGGATTAGAGA
1 TGTATTAGATTAGAGA
75342164 TGTATTAGATTAGAG
1 TGTATTAGATTAGAG
75342179 GTATAATGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.29, T:0.39
Consensus pattern (16 bp):
TGTATTAGATTAGAGA
Found at i:75342247 original size:45 final size:43
Alignment explanation
Indices: 75342182--75342274 Score: 116
Period size: 45 Copynumber: 2.1 Consensus size: 43
75342172 ATTAGAGGTA
*
75342182 TAATGGAATAGAGGTATAATAGCAAATCAACTG-TTTGGTTGAATG
1 TAATGGAATAGAGGCATAATAG-AAA--AACTGATTTGGTTGAATG
* *
75342227 TAATGGAATAGAGGCGTAATAGTAAAACTGTATTTGGTTGAATG
1 TAATGGAATAGAGGCATAATAGAAAAACTG-ATTTGGTTGAATG
75342271 TAAT
1 TAAT
75342275 AGAGGTGTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
42 5 0.12
44 18 0.42
45 20 0.47
ACGTcount: A:0.38, C:0.05, G:0.25, T:0.32
Consensus pattern (43 bp):
TAATGGAATAGAGGCATAATAGAAAAACTGATTTGGTTGAATG
Found at i:75342444 original size:25 final size:25
Alignment explanation
Indices: 75342412--75342466 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
75342402 TAATTTAATC
*
75342412 ATAT-TTAAACATAATTATTATT-AA
1 ATATATTAAACAT-ATTATAATTAAA
*
75342436 ATATATTAAATATATTATAATTAAA
1 ATATATTAAACATATTATAATTAAA
75342461 ATATAT
1 ATATAT
75342467 AATTTAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 12 0.44
25 15 0.56
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
ATATATTAAACATATTATAATTAAA
Found at i:75342648 original size:47 final size:46
Alignment explanation
Indices: 75342597--75342745 Score: 132
Period size: 47 Copynumber: 3.3 Consensus size: 46
75342587 GATTTAATAA
75342597 AATTTAAAATAATTATAACTAATAAATTATCTTATATGAATTTGTAT
1 AATTTAAAATAATTATAA-TAATAAATTATCTTATATGAATTTGTAT
* * * * *
75342644 AATTTAAAATAATTATTATTACATATAAT-TTA-AT-AA---GATAT
1 AATTTAAAATAATTATAATAATAAATTATCTTATATGAATTTG-TAT
* * * *
75342685 AATTTCATAA-AATTATTGATAATAAATTTTCTTATATGAATTTATAT
1 AATTT-AAAATAATTA-TAATAATAAATTATCTTATATGAATTTGTAT
75342732 AATTTAAAATAATT
1 AATTTAAAATAATT
75342746 TAGGAAATGG
Statistics
Matches: 78, Mismatches: 14, Indels: 20
0.70 0.12 0.18
Matches are distributed among these distances:
40 1 0.01
41 13 0.17
42 11 0.14
43 5 0.06
44 4 0.05
45 5 0.06
46 10 0.13
47 29 0.37
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (46 bp):
AATTTAAAATAATTATAATAATAAATTATCTTATATGAATTTGTAT
Found at i:75345847 original size:8 final size:7
Alignment explanation
Indices: 75345836--75345898 Score: 90
Period size: 7 Copynumber: 8.6 Consensus size: 7
75345826 AATATTAAAA
75345836 TTTTAAGT
1 TTTTAA-T
75345844 TTTTAAGT
1 TTTTAA-T
75345852 TTTTAAT
1 TTTTAAT
75345859 TTTTAATT
1 TTTTAA-T
75345867 TTTTAAT
1 TTTTAAT
75345874 TTTTAAT
1 TTTTAAT
75345881 TTTTAAT
1 TTTTAAT
*
75345888 TTTCAAT
1 TTTTAAT
75345895 TTTT
1 TTTT
75345899 TTTGAAGATT
Statistics
Matches: 52, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
7 31 0.60
8 21 0.40
ACGTcount: A:0.25, C:0.02, G:0.03, T:0.70
Consensus pattern (7 bp):
TTTTAAT
Found at i:75345899 original size:15 final size:15
Alignment explanation
Indices: 75345836--75345899 Score: 94
Period size: 15 Copynumber: 4.3 Consensus size: 15
75345826 AATATTAAAA
*
75345836 TTTTAAGTTTTTAAGT
1 TTTTAA-TTTTTAATT
75345852 TTTTAATTTTTAATT
1 TTTTAATTTTTAATT
75345867 TTTTAATTTTTAA-T
1 TTTTAATTTTTAATT
*
75345881 TTTTAATTTTCAATT
1 TTTTAATTTTTAATT
75345896 TTTT
1 TTTT
75345900 TTGAAGATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
14 13 0.29
15 26 0.58
16 6 0.13
ACGTcount: A:0.25, C:0.02, G:0.03, T:0.70
Consensus pattern (15 bp):
TTTTAATTTTTAATT
Found at i:75346797 original size:20 final size:20
Alignment explanation
Indices: 75346774--75346816 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
75346764 TTATATTTCA
75346774 TTTTTATTTA-TTATCAATG
1 TTTTTATTTATTTATCAATG
75346793 TTTTTATTTATTTATCAAT-
1 TTTTTATTTATTTATCAATG
75346812 TTTTT
1 TTTTT
75346817 TTAAATCTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (20 bp):
TTTTTATTTATTTATCAATG
Found at i:75347475 original size:8 final size:8
Alignment explanation
Indices: 75347462--75347491 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
75347452 AAGGTTTTTT
75347462 GGGGTTTA
1 GGGGTTTA
75347470 GGGGTTTA
1 GGGGTTTA
*
75347478 GGGTTTTA
1 GGGGTTTA
75347486 GGGGTT
1 GGGGTT
75347492 ATATAGACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.10, C:0.00, G:0.50, T:0.40
Consensus pattern (8 bp):
GGGGTTTA
Found at i:75354085 original size:41 final size:40
Alignment explanation
Indices: 75354035--75354127 Score: 105
Period size: 40 Copynumber: 2.3 Consensus size: 40
75354025 AGTAGCTCAT
* * * *
75354035 AAACGCCGCAAAAGGTCAAGCAGTAGCGGCGTTTATGAGAA
1 AAACACCGCAAAAGGT-AAACAATAGAGGCGTTTATGAGAA
** *
75354076 AAACACCGCAAAAGGTAAACAATAGAGGTTTTTTTGAGAA
1 AAACACCGCAAAAGGTAAACAATAGAGGCGTTTATGAGAA
*
75354116 AAACACTGCAAA
1 AAACACCGCAAA
75354128 GTATCATTTT
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 29 0.66
41 15 0.34
ACGTcount: A:0.43, C:0.17, G:0.23, T:0.17
Consensus pattern (40 bp):
AAACACCGCAAAAGGTAAACAATAGAGGCGTTTATGAGAA
Found at i:75358769 original size:11 final size:11
Alignment explanation
Indices: 75358753--75358782 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
75358743 AATTTGTGAA
75358753 AAAAATAAAAT
1 AAAAATAAAAT
75358764 AAAAATAAAAT
1 AAAAATAAAAT
75358775 -AAAATAAA
1 AAAAATAAA
75358783 GAACACACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.42
11 11 0.58
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:75359260 original size:23 final size:22
Alignment explanation
Indices: 75359213--75359261 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
75359203 TTCGTCTATT
* *
75359213 TTTTTCTTTCAATAATTGCTTA
1 TTTTTCTTTCAATAATTGATCA
75359235 TTTTTCTTTCAA-ATATTGGATCA
1 TTTTTCTTTCAATA-ATT-GATCA
75359258 TTTT
1 TTTT
75359262 ACTTACTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 1 0.04
22 15 0.65
23 7 0.30
ACGTcount: A:0.22, C:0.12, G:0.06, T:0.59
Consensus pattern (22 bp):
TTTTTCTTTCAATAATTGATCA
Found at i:75362605 original size:17 final size:17
Alignment explanation
Indices: 75362583--75362616 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
75362573 TGATTAATCC
75362583 AGTGTACTTGATGAAGA
1 AGTGTACTTGATGAAGA
75362600 AGTGTACTTGATGAAGA
1 AGTGTACTTGATGAAGA
75362617 GCCAAATGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.06, G:0.29, T:0.29
Consensus pattern (17 bp):
AGTGTACTTGATGAAGA
Found at i:75365780 original size:30 final size:31
Alignment explanation
Indices: 75365720--75365780 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
75365710 ACCAAAACAC
75365720 ATCACTTAATTGTTTTAAACATGAAACATAT
1 ATCACTTAATTGTTTTAAACATGAAACATAT
*
75365751 ATCACTTAGTTGTTTTAAACATG-AACATAT
1 ATCACTTAATTGTTTTAAACATGAAACATAT
75365781 GTTCACATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 7 0.24
31 22 0.76
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.39
Consensus pattern (31 bp):
ATCACTTAATTGTTTTAAACATGAAACATAT
Found at i:75366504 original size:41 final size:38
Alignment explanation
Indices: 75366397--75366507 Score: 100
Period size: 37 Copynumber: 2.8 Consensus size: 38
75366387 CGGATAATTT
** *
75366397 GAAGTAATAAGTTGACACCCAGTGTCTCATCGGCCTTTTC
1 GAAGTAAT-AGTTGACACCCAGTGTCTCATC-GAATTTCC
** **
75366437 GAAGT-A-AGTTGGTACCCAGTACCTCATCGAATTTACCC
1 GAAGTAATAGTTGACACCCAGTGTCTCATCGAATTT--CC
75366475 GAAGTAATAGTTTGACACCCAGTGTCTCATCGA
1 GAAGTAATAG-TTGACACCCAGTGTCTCATCGA
75366508 CTCGTGGTCA
Statistics
Matches: 55, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
36 4 0.07
37 18 0.33
38 6 0.11
39 2 0.04
40 7 0.13
41 18 0.33
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (38 bp):
GAAGTAATAGTTGACACCCAGTGTCTCATCGAATTTCC
Found at i:75368037 original size:13 final size:13
Alignment explanation
Indices: 75368021--75368045 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
75368011 TTAAATTAGT
75368021 TAATTAGTTTAAA
1 TAATTAGTTTAAA
75368034 TAATTAGTTTAA
1 TAATTAGTTTAA
75368046 TAAACAAACC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TAATTAGTTTAAA
Found at i:75369053 original size:18 final size:18
Alignment explanation
Indices: 75369008--75369054 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
75368998 CTGTTTCATT
*
75369008 TTCAATTCTATTTCTTTTC
1 TTCAATT-TATTTCTTTTA
*
75369027 TATC-TTTTATTTCTTTTA
1 T-TCAATTTATTTCTTTTA
75369045 TTCAATTTAT
1 TTCAATTTAT
75369055 ATAATATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
17 2 0.09
18 16 0.70
19 3 0.13
20 2 0.09
ACGTcount: A:0.19, C:0.15, G:0.00, T:0.66
Consensus pattern (18 bp):
TTCAATTTATTTCTTTTA
Found at i:75369064 original size:7 final size:7
Alignment explanation
Indices: 75369052--75369081 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
75369042 TTATTCAATT
75369052 TATATAA
1 TATATAA
75369059 TATATAA
1 TATATAA
75369066 TATATAA
1 TATATAA
75369073 TAATATAA
1 T-ATATAA
75369081 T
1 T
75369082 TTATTTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 15 0.68
8 7 0.32
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
TATATAA
Found at i:75373353 original size:17 final size:21
Alignment explanation
Indices: 75373331--75373373 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
75373321 TCTTAAAAAT
75373331 TTTCAA-CC-AAACAA-T-TA
1 TTTCAAGCCAAAACAAGTATA
75373348 TTTCAAGCCAAAACAAGTATA
1 TTTCAAGCCAAAACAAGTATA
75373369 TTTCA
1 TTTCA
75373374 TTTTCCAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 6 0.27
18 2 0.09
19 6 0.27
20 1 0.05
21 7 0.32
ACGTcount: A:0.44, C:0.21, G:0.05, T:0.30
Consensus pattern (21 bp):
TTTCAAGCCAAAACAAGTATA
Found at i:75378666 original size:9 final size:9
Alignment explanation
Indices: 75378652--75378699 Score: 55
Period size: 9 Copynumber: 5.2 Consensus size: 9
75378642 TTATTATTCA
75378652 TTTCTTTAT
1 TTTCTTTAT
75378661 TTTCTTTA-
1 TTTCTTTAT
75378669 TTTCTTTGAT
1 TTTCTTT-AT
75378679 TAGTT-TTTAT
1 T--TTCTTTAT
75378689 TTTCTTTAT
1 TTTCTTTAT
75378698 TT
1 TT
75378700 ATTATTTGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
8 9 0.26
9 16 0.47
10 4 0.12
11 3 0.09
12 2 0.06
ACGTcount: A:0.12, C:0.08, G:0.04, T:0.75
Consensus pattern (9 bp):
TTTCTTTAT
Found at i:75380376 original size:18 final size:18
Alignment explanation
Indices: 75380338--75380379 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
75380328 TTACTATTAC
*
75380338 TTTATTTTTATATTTATT
1 TTTATTTTTATATTTAAT
75380356 TTTATTTTT-TATTTAAAT
1 TTTATTTTTATATTT-AAT
75380374 TTTATT
1 TTTATT
75380380 GTGTCTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTATTTTTATATTTAAT
Found at i:75380667 original size:78 final size:76
Alignment explanation
Indices: 75380538--75380688 Score: 232
Period size: 78 Copynumber: 2.0 Consensus size: 76
75380528 TCTACAATTC
* * *
75380538 TTGCTCTAGCTACTCCAAGGATCATCCAAATATTCAGGGCAGTTTCTCTTCTCTTCCTCTCTTCT
1 TTGCTCTAGCTACTCCAAGGATCATCCAAATATTCAGGGCAATTTCTCTTCTCTCCCTCTATTCT
75380603 GATATTCTGCT
66 GATATTCTGCT
*
75380614 TTGCTCTCGCTACTCCAAGGATCTCATCCAAATATTCAGGGCAATTT-TGCTTCTCTCCCTCTAT
1 TTGCTCTAGCTACTCCAAGGA--TCATCCAAATATTCAGGGCAATTTCT-CTTCTCTCCCTCTAT
75380678 TCTGATATTCT
63 TCTGATATTCT
75380689 TCTTATATTG
Statistics
Matches: 68, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
76 20 0.29
77 1 0.01
78 47 0.69
ACGTcount: A:0.19, C:0.29, G:0.13, T:0.39
Consensus pattern (76 bp):
TTGCTCTAGCTACTCCAAGGATCATCCAAATATTCAGGGCAATTTCTCTTCTCTCCCTCTATTCT
GATATTCTGCT
Found at i:75384349 original size:22 final size:22
Alignment explanation
Indices: 75384324--75384367 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
75384314 AACCTGCAGA
75384324 AATTCACA-GAAATGTTAACTTT
1 AATTCACATG-AATGTTAACTTT
* *
75384346 AATTTACATGCATGTTAACTTT
1 AATTCACATGAATGTTAACTTT
75384368 TATTATTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (22 bp):
AATTCACATGAATGTTAACTTT
Found at i:75387375 original size:16 final size:17
Alignment explanation
Indices: 75387348--75387385 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
75387338 AGAAAAACCA
75387348 TTTTATATTTTTAATTT
1 TTTTATATTTTTAATTT
75387365 TTTTATATTTTT-ATTT
1 TTTTATATTTTTAATTT
75387381 TTTTA
1 TTTTA
75387386 GAATTAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTATATTTTTAATTT
Found at i:75387441 original size:21 final size:20
Alignment explanation
Indices: 75387412--75387451 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
75387402 TTAGTAGGAG
75387412 GGGAAAACTTAAGTTTTATA
1 GGGAAAACTTAAGTTTTATA
*
75387432 GGGAATAACTTGAGTTTTAT
1 GGGAA-AACTTAAGTTTTAT
75387452 CTTGTTTAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.35, C:0.05, G:0.23, T:0.38
Consensus pattern (20 bp):
GGGAAAACTTAAGTTTTATA
Found at i:75387495 original size:75 final size:75
Alignment explanation
Indices: 75387373--75387529 Score: 192
Period size: 76 Copynumber: 2.1 Consensus size: 75
75387363 TTTTTTATAT
* * ** * *
75387373 TTTTAT-TTTTTTAGAATTAATTTTAATTTTTAGTAGGAGGGGAAAACTTAAG-TTTTATAGGGA
1 TTTTATCTTGTTTAGAACTAATTTTAATTTTTAGTACAAGGGGAAAACTTAAGTTTTTACAAGGA
*
75387436 ATAACTTGAG
66 AAAACTTGAG
* * *
75387446 TTTTATCTTGTTTAGAACTAATTTTAGCTTTTTAGTACAAGGGGGAAACTTGAGTTTTTACAAGG
1 TTTTATCTTGTTTAGAACTAATTTTA-ATTTTTAGTACAAGGGGAAAACTTAAGTTTTTACAAGG
75387511 AAAAACTTGAG
65 AAAAACTTGAG
*
75387522 TTTCATCT
1 TTTTATCT
75387530 CCTAGTTGAA
Statistics
Matches: 70, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
73 6 0.09
74 17 0.24
75 22 0.31
76 25 0.36
ACGTcount: A:0.31, C:0.07, G:0.18, T:0.43
Consensus pattern (75 bp):
TTTTATCTTGTTTAGAACTAATTTTAATTTTTAGTACAAGGGGAAAACTTAAGTTTTTACAAGGA
AAAACTTGAG
Found at i:75391448 original size:43 final size:43
Alignment explanation
Indices: 75391325--75391711 Score: 177
Period size: 44 Copynumber: 8.7 Consensus size: 43
75391315 CATCGTGGCG
* * * *
75391325 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAAATTAAAGCACA
1 AATCTCATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGTACA
* * * *
75391368 AACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTA-A
1 AATCTCATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAG-TACA
* *
75391411 AATCTCATCTCCCTAAAGTTGCAGTGGAGTAGATTGAAGATAGCG
1 AATCTCATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAG-TA-CA
* * * * * *
75391456 AATCTCATTTCCCTAGAGTTGCAGTGAAACAAATTAAAGCTACA
1 AATCTCATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAG-TACA
* ** ** ** * * * *
75391500 AGTCAAAAAT-CCTATACCTCTTGTAGTAGG-GCGGATTAAATCTACCA
1 AATCTCATCTCCCTA-A--AGTTGCAGT-GGAGCAGATTGAA-GTA-CA
* * * * *
75391547 TGCTGAATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAGCCACA
1 -----AATCTCATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAG-TACA
* ** * * *
75391596 AATCTTATCTCTATCAAGTTGCAGTAGAGCAGATTGAAGCCACA
1 AATCTCATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAG-TACA
* * * *
75391640 AATCTTATCTCCCTAAAGTTGCTGTGGAGCAGATTGAAGATGCG
1 AATCTCATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAG-TACA
* * * *
75391684 AATTTTATTTCCCTGAAGTTGCAGTGGA
1 AATCTCATCTCCCTAAAGTTGCAGTGGA
75391712 AAAGATTAAA
Statistics
Matches: 257, Mismatches: 70, Indels: 33
0.71 0.19 0.09
Matches are distributed among these distances:
43 75 0.29
44 104 0.40
45 34 0.13
46 15 0.06
47 3 0.01
49 4 0.02
50 13 0.05
52 6 0.02
53 3 0.01
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.28
Consensus pattern (43 bp):
AATCTCATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGTACA
Found at i:75391476 original size:45 final size:43
Alignment explanation
Indices: 75391325--75391481 Score: 163
Period size: 43 Copynumber: 3.6 Consensus size: 43
75391315 CATCGTGGCG
* * * *
75391325 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAAATTAAAGCA-CA
1 AATCTCATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAG-ATAA
* * * * *
75391368 AACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTAA
1 AATCTCATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAA
* *
75391411 AATCTCATCTCCCTAAAGTTGCAGTGGAGTAGATTGAAGATAGCG
1 AATCTCATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATA--A
* *
75391456 AATCTCATTTCCCTAGAGTTGCAGTG
1 AATCTCATCTCCCTAAAGTTGCAGTG
75391482 AAACAAATTA
Statistics
Matches: 95, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
43 71 0.75
45 24 0.25
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (43 bp):
AATCTCATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAA
Found at i:75391615 original size:44 final size:44
Alignment explanation
Indices: 75391552--75391770 Score: 186
Period size: 44 Copynumber: 4.8 Consensus size: 44
75391542 TACCATGCTG
* * *
75391552 AATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAGCCACA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACA
** * *
75391596 AATCTTATCTCTATCAAGTTGCAGTAGAGCAGATTGAAGCCACA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACA
* *** *
75391640 AATCTTATCTCCCTAAAGTTGCTGTGGAGCAGATTGAAGATGCG
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACA
* * * ** *
75391684 AATTTTATTTCCCTGAAGTTGCAGTGGAAAAGATTAAAGCTACGAGTTACA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGC--C-----ACA
* * *
75391735 AATCTTATCACCCTGAAGTTACAGTGGAGCAGATTG
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTG
75391771 TAGATGCGAG
Statistics
Matches: 135, Mismatches: 33, Indels: 7
0.77 0.19 0.04
Matches are distributed among these distances:
44 105 0.78
51 30 0.22
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACA
Found at i:75391718 original size:88 final size:90
Alignment explanation
Indices: 75391552--75391806 Score: 244
Period size: 88 Copynumber: 2.8 Consensus size: 90
75391542 TACCATGCTG
* *** * * *
75391552 AATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAGCCACAAATCTTATCTCTATCAAGTTG
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATGCGAATCTTATCTCCATGAAGTTG
* ** *
75391617 CAGTAGAGCAGATTGAAGC-C-ACA
66 CAGTGGAAAAGATTAAAGCACGACA
* * * * * *
75391640 AATCTTATCTCCCTAAAGTTGCTGTGGAGCAGATTGAAGATGCGAATTTTATTTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATGCGAATCTTATCTCCATGAAGTTG
75391705 CAGTGGAAAAGATTAAAGCTACGAGTTACA
66 CAGTGGAAAAGATTAAAGC-AC--G--ACA
* * * * * *
75391735 AATCTTATCACCCTGAAGTTACAGTGGAGCAGATTGTAGATGCGAGTCTAATCTCCTTGAAGTTA
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATGCGAATCTTATCTCCATGAAGTTG
75391800 CAGTGGA
66 CAGTGGA
75391807 GTAGATCGAA
Statistics
Matches: 132, Mismatches: 28, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
88 67 0.51
90 1 0.01
95 64 0.48
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (90 bp):
AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATGCGAATCTTATCTCCATGAAGTTG
CAGTGGAAAAGATTAAAGCACGACA
Found at i:75393593 original size:20 final size:20
Alignment explanation
Indices: 75393549--75393587 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
75393539 TTTATAAACT
75393549 ATTTATTTATTCATTCATTC
1 ATTTATTTATTCATTCATTC
75393569 ATTTATTTA-TCACTTCATT
1 ATTTATTTATTCA-TTCATT
75393588 TTTTTACACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.26, C:0.15, G:0.00, T:0.59
Consensus pattern (20 bp):
ATTTATTTATTCATTCATTC
Found at i:75405602 original size:44 final size:45
Alignment explanation
Indices: 75405539--75405713 Score: 167
Period size: 44 Copynumber: 3.8 Consensus size: 45
75405529 TACCATGCAG
*
75405539 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCCT-CA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCTACA
* * * * *
75405583 AATCTTATCTCCCTCAAGTTGTAGTGGAGCAGATTGAAG-ATGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCTACA
** *
75405627 AATCTTAT-TCCCCTGAAGTTGCAGTGGAATAGATTAAAGCTACGAGTTACA
1 AATCTTATCT-CCCTGAAGTTGCAGTGGAGCAGATTGAAGC--C----TACA
* *
75405678 AATCTTATCCCCCTGAAGTTGCAGTGGAGCAAATTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG
75405714 TAGATGCGAG
Statistics
Matches: 103, Mismatches: 18, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
43 2 0.02
44 69 0.67
51 32 0.31
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.29
Consensus pattern (45 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCTACA
Found at i:75405825 original size:18 final size:18
Alignment explanation
Indices: 75405804--75405841 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
75405794 ATGGAATGAT
75405804 GCTACTTAAAAAAGAGAA
1 GCTACTTAAAAAAGAGAA
*
75405822 GCTACTTAAAGAAGAGAA
1 GCTACTTAAAAAAGAGAA
75405840 GC
1 GC
75405842 ACCAAAGAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.50, C:0.13, G:0.21, T:0.16
Consensus pattern (18 bp):
GCTACTTAAAAAAGAGAA
Found at i:75405850 original size:16 final size:18
Alignment explanation
Indices: 75405804--75405851 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
75405794 ATGGAATGAT
* *
75405804 GCTACTTAAAAAAGAGAA
1 GCTACTCAAAGAAGAGAA
*
75405822 GCTACTTAAAGAAGAGAA
1 GCTACTCAAAGAAGAGAA
75405840 GC-AC-CAAAGAAG
1 GCTACTCAAAGAAG
75405852 TCAAGATTCG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.25
17 2 0.07
18 19 0.68
ACGTcount: A:0.52, C:0.15, G:0.21, T:0.12
Consensus pattern (18 bp):
GCTACTCAAAGAAGAGAA
Found at i:75408970 original size:24 final size:24
Alignment explanation
Indices: 75408943--75408999 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
75408933 GATTTTGTGG
*
75408943 TGAAAA-AATATTGTATAAAAATAA
1 TGAAAATAAT-TTCTATAAAAATAA
*
75408967 TGAAAATACTTTCTATAAAAATAA
1 TGAAAATAATTTCTATAAAAATAA
75408991 T-ATAAATAA
1 TGA-AAATAA
75409000 ATAAGAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
23 1 0.04
24 25 0.89
25 2 0.07
ACGTcount: A:0.60, C:0.04, G:0.05, T:0.32
Consensus pattern (24 bp):
TGAAAATAATTTCTATAAAAATAA
Found at i:75411788 original size:3 final size:3
Alignment explanation
Indices: 75411780--75411840 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
75411770 AAATGTAGGG
75411780 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
75411828 ATA ATA ATA ATA A
1 ATA ATA ATA ATA A
75411841 ACACATAAAC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:75412940 original size:12 final size:12
Alignment explanation
Indices: 75412923--75412952 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
75412913 TGTATTGCTA
75412923 ACCATTTATATC
1 ACCATTTATATC
75412935 ACCATTTATATC
1 ACCATTTATATC
*
75412947 GCCATT
1 ACCATT
75412953 CTTTTAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.27, G:0.03, T:0.40
Consensus pattern (12 bp):
ACCATTTATATC
Found at i:75425045 original size:132 final size:131
Alignment explanation
Indices: 75424890--75425270 Score: 417
Period size: 132 Copynumber: 2.9 Consensus size: 131
75424880 ATTATTCATT
* * * *
75424890 TAAAAATTCTTTAAAACGAAGGCGAGGTTTGATATTTGGCAATTTGAGAAATCGTGCCCTAACGT
1 TAAAAATCCTTTAAAACGAAGGCGATGTTCGATATTTGGCAATTCGAG-AATCGTGCCCTAACGT
** * * *
75424955 GTTGGGTTGCAATTTCCCGTTTGCTCAAAATGATTGAATATCCCTTCATAATTTCGTTCATGTCT
65 GTTGGGTTGCAATTTCCCGTTTGCTCAAAACAATCGAATATCCCTTCAGAATTTCGTTCATATCT
75425020 TC
130 TC
* * *
75425022 TAAAAATCCTTTAAAATGAAGGCGATGTTCGATATTTGACAATTCGCAGAATCGTGCCCTAATGT
1 TAAAAATCCTTTAAAACGAAGGCGATGTTCGATATTTGGCAATTCG-AGAATCGTGCCCTAACGT
* * * * * **
75425087 GCTGGGTTGCAATTTCTCGTTTTCTCAAAACAATCGAATGTCCCTTTAGAATTTCGTTTGTATCT
65 GTTGGGTTGCAATTTCCCGTTTGCTCAAAACAATCGAATATCCCTTCAGAATTTCGTTCATATCT
*
75425152 TT
130 TC
** ** * * *
75425154 TAAAAA-CTCTTTAAAACGAAGGTAATACTCGATGTTTGGCAATTCGAGAATCATGCCCTATCGT
1 TAAAAATC-CTTTAAAACGAAGGCGATGTTCGATATTTGGCAATTCGAGAATCGTGCCCTAACGT
* * * * * *
75425218 GTTGGGTTGCGATTTCCCGTTCGCTC--AATAATCGAAGATTCCTTTAGAATTTC
65 GTTGGGTTGCAATTTCCCGTTTGCTCAAAACAATCGAATATCCCTTCAGAATTTC
75425271 ACTCCTACTC
Statistics
Matches: 208, Mismatches: 39, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
129 23 0.11
131 37 0.18
132 146 0.70
133 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (131 bp):
TAAAAATCCTTTAAAACGAAGGCGATGTTCGATATTTGGCAATTCGAGAATCGTGCCCTAACGTG
TTGGGTTGCAATTTCCCGTTTGCTCAAAACAATCGAATATCCCTTCAGAATTTCGTTCATATCTT
C
Found at i:75450084 original size:133 final size:133
Alignment explanation
Indices: 75449840--75450244 Score: 508
Period size: 133 Copynumber: 3.0 Consensus size: 133
75449830 CGAATCCTAC
**
75449840 AGATCTTGTTTCCCTGAAGTTGCAGTGGAGCAGATCGAACTCGGCGAATCTTGGCTTCCTGAAGT
1 AGATCTTGTTTCCCTGAAGTTGCAGTGGAGCAGATCGAAAACGGCGAATCTTGGCTTCCTGAAGT
* * * * *
75449905 TGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTTCTTAAAGTTGTAGCGGAGTAGGCTGAA-TT
66 TGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAATTGTAGTGGAGTAGGCTGAAGAT
*
75449969 CTGT
131 -GGT
* * ** *
75449973 AGATCTTGTTTCCTTGAAGTTGCAGTGGAGCAGATTGAAAACGATGAATCTTGGCTTCTTGAAGT
1 AGATCTTGTTTCCCTGAAGTTGCAGTGGAGCAGATCGAAAACGGCGAATCTTGGCTTCCTGAAGT
* * * * *
75450038 TGTAGTGAAGCAGATTTGAGCCATCATCCTAGCTCCCTAAAATTGTAGTGGAGTAGCCTGAAGAT
66 TGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAATTGTAGTGGAGTAGGCTGAAGAT
75450103 GGT
131 GGT
* * * * * * *
75450106 AGATCTTGTCTCCCTGAAATTGCAGTGGAGCAGATCGAAGACGGCGAAACTAGTCTTCCTGAGGT
1 AGATCTTGTTTCCCTGAAGTTGCAGTGGAGCAGATCGAAAACGGCGAATCTTGGCTTCCTGAAGT
* * *
75450171 TGCAGTGAAGCAGATTTCAGCCACCACCCTAGCTCCCTAAAGA-TGTAGTGGAGTAGGCTGGAGA
66 TGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAA-ATTGTAGTGGAGTAGGCTGAAGA
* *
75450235 TTGC
130 TGGT
75450239 AGATCT
1 AGATCT
75450245 CGTCTCCAGT
Statistics
Matches: 232, Mismatches: 38, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
133 230 0.99
134 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.28
Consensus pattern (133 bp):
AGATCTTGTTTCCCTGAAGTTGCAGTGGAGCAGATCGAAAACGGCGAATCTTGGCTTCCTGAAGT
TGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAATTGTAGTGGAGTAGGCTGAAGAT
GGT
Found at i:75453248 original size:132 final size:132
Alignment explanation
Indices: 75452998--75453353 Score: 432
Period size: 132 Copynumber: 2.7 Consensus size: 132
75452988 ATTATTCATT
* * *
75452998 TAAAAATTCTTTAAAACGAAGGCGAGGTTTGATATTTGGCAATTCGCGGAATCGTGCCCTAATGT
1 TAAAAATCCTTTAAAACGAAGGCGATGTTCGATATTTGGCAATTCGCGGAATCGTGCCCTAATGT
* ** * *
75453063 GTTGGGTTGTAATTTCCCGTTTGCTCAAAATGATCGAATATCCTTTCATAATTTCGTTCATGTCT
66 GTTGGGTTGCAATTTCCCGTTTGCTCAAAAAAATCGAATATCCTTTCAGAATTTCGTTCATATCT
75453128 TC
131 TC
*
75453130 TAAAAATCCTTTAAAACGAAGGCGATGTTCGATATTTGACAATTCGCGGAATCGTGCCCTAATGT
1 TAAAAATCCTTTAAAACGAAGGCGATGTTCGATATTTGGCAATTCGCGGAATCGTGCCCTAATGT
* * * * * **
75453195 GCTGGGTTGCAATTTCTCGTTTTCTCAAAAAAATTGAATGTCCCTTT-AGAATTTCGTTTGTATC
66 GTTGGGTTGCAATTTCCCGTTTGCTCAAAAAAATCGAATAT-CCTTTCAGAATTTCGTTCATATC
75453259 TTC
130 TTC
** ** * * *
75453262 TAAAAA-CTCTTTAAAACGAAGGTAATACTCGATGTTTGGCAATTCG-AGAATCATGCCCT-ATC
1 TAAAAATC-CTTTAAAACGAAGGCGATGTTCGATATTTGGCAATTCGCGGAATCGTGCCCTAAT-
* *
75453324 GTGTTGGGTTGCGATTTCCCGTTCGCTCAA
64 GTGTTGGGTTGCAATTTCCCGTTTGCTCAA
75453354 TAATCGAAGA
Statistics
Matches: 192, Mismatches: 29, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
130 2 0.01
131 37 0.19
132 148 0.77
133 5 0.03
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (132 bp):
TAAAAATCCTTTAAAACGAAGGCGATGTTCGATATTTGGCAATTCGCGGAATCGTGCCCTAATGT
GTTGGGTTGCAATTTCCCGTTTGCTCAAAAAAATCGAATATCCTTTCAGAATTTCGTTCATATCT
TC
Found at i:75457042 original size:29 final size:28
Alignment explanation
Indices: 75457010--75457067 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
75457000 TTAATTATAA
75457010 TTATAATTGAATATAAATATAAATATATT
1 TTATAATTGAATATAAATATAAAT-TATT
* * * *
75457039 TTATATTTTAATTTAAATATATATTATT
1 TTATAATTGAATATAAATATAAATTATT
75457067 T
1 T
75457068 AAAATTATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
28 5 0.20
29 20 0.80
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (28 bp):
TTATAATTGAATATAAATATAAATTATT
Found at i:75457530 original size:20 final size:20
Alignment explanation
Indices: 75457505--75457542 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
75457495 ATCATATTTT
75457505 TATTAAATAAAATTAAAAAG
1 TATTAAATAAAATTAAAAAG
* *
75457525 TATTAATTAAATTTAAAA
1 TATTAAATAAAATTAAAA
75457543 TTATATAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (20 bp):
TATTAAATAAAATTAAAAAG
Found at i:75458473 original size:49 final size:49
Alignment explanation
Indices: 75458396--75458492 Score: 167
Period size: 49 Copynumber: 2.0 Consensus size: 49
75458386 TTATGCTATG
* * *
75458396 CATTTCTAAACTTGGTCTTCCACTGTCTATACTCTTATCACTATTTATA
1 CATTGCTAAACTTAGTCTTCCACTGTCTACACTCTTATCACTATTTATA
75458445 CATTGCTAAACTTAGTCTTCCACTGTCTACACTCTTATCACTATTTAT
1 CATTGCTAAACTTAGTCTTCCACTGTCTACACTCTTATCACTATTTAT
75458493 CCCTTCTAGA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.25, C:0.26, G:0.06, T:0.43
Consensus pattern (49 bp):
CATTGCTAAACTTAGTCTTCCACTGTCTACACTCTTATCACTATTTATA
Found at i:75458869 original size:17 final size:17
Alignment explanation
Indices: 75458847--75458885 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
75458837 TGTATTACTA
*
75458847 GTGTGTGACACATGCTC
1 GTGTGTGACACATGCCC
75458864 GTGTGTGACACATGCCC
1 GTGTGTGACACATGCCC
75458881 GTGTG
1 GTGTG
75458886 GCCAGGCCGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.15, C:0.23, G:0.33, T:0.28
Consensus pattern (17 bp):
GTGTGTGACACATGCCC
Found at i:75459828 original size:43 final size:42
Alignment explanation
Indices: 75459764--75459848 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 42
75459754 TTTCACATTT
*
75459764 CATTTTTCATTTCATAATCATTTCTCATCTTTGCCATTTCAA
1 CATTTTTCATCTCATAATCATTTCTCATCTTTGCCATTTCAA
* **
75459806 CATTTTCTCATCTCATATTCATTTCTCATCTTTGTTATTTCAA
1 CATTTT-TCATCTCATAATCATTTCTCATCTTTGCCATTTCAA
75459849 TATCAATCAC
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
42 6 0.16
43 32 0.84
ACGTcount: A:0.22, C:0.24, G:0.02, T:0.52
Consensus pattern (42 bp):
CATTTTTCATCTCATAATCATTTCTCATCTTTGCCATTTCAA
Found at i:75473178 original size:21 final size:21
Alignment explanation
Indices: 75473136--75473180 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
75473126 AATAGTAGCA
* *
75473136 AAACAACATCAAAATGGCAAT
1 AAACAACAGCAAAATAGCAAT
* *
75473157 AAACAACAGCAAGATAGTAAT
1 AAACAACAGCAAAATAGCAAT
75473178 AAA
1 AAA
75473181 TGGTGGTGAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.60, C:0.16, G:0.11, T:0.13
Consensus pattern (21 bp):
AAACAACAGCAAAATAGCAAT
Found at i:75475878 original size:17 final size:17
Alignment explanation
Indices: 75475853--75475886 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
75475843 TTACACATAG
*
75475853 TTTTTTAAATTATAAAA
1 TTTTATAAATTATAAAA
*
75475870 TTTTATAAATTTTAAAA
1 TTTTATAAATTATAAAA
75475887 ATATAAAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTTATAAATTATAAAA
Found at i:75475903 original size:17 final size:18
Alignment explanation
Indices: 75475861--75475930 Score: 74
Period size: 17 Copynumber: 3.9 Consensus size: 18
75475851 AGTTTTTTAA
* *
75475861 ATTATAAAATTTTATAAAT
1 ATTATAAAAATATA-AAAT
75475880 -TT-TAAAAATATAAAAT
1 ATTATAAAAATATAAAAT
*
75475896 ATTA-AAAATTATAAAAT
1 ATTATAAAAATATAAAAT
75475913 ATTATAAAAATTATAAAA
1 ATTATAAAAA-TATAAAA
75475931 AAATAGAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
16 4 0.09
17 26 0.60
18 6 0.14
19 7 0.16
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
ATTATAAAAATATAAAAT
Found at i:75475931 original size:9 final size:9
Alignment explanation
Indices: 75475859--75475931 Score: 73
Period size: 9 Copynumber: 8.3 Consensus size: 9
75475849 ATAGTTTTTT
75475859 AAATTAT-A
1 AAATTATAA
* *
75475867 AAATTTTAT
1 AAATTATAA
*
75475876 AAATTTTAA
1 AAATTATAA
75475885 AAA-TAT-A
1 AAATTATAA
75475892 AAA-TATTAA
1 AAATTA-TAA
75475901 AAATTATAA
1 AAATTATAA
75475910 AATATTATAA
1 AA-ATTATAA
75475920 AAATTATAA
1 AAATTATAA
75475929 AAA
1 AAA
75475932 AATAGAAATT
Statistics
Matches: 56, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
7 6 0.11
8 9 0.16
9 30 0.54
10 11 0.20
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (9 bp):
AAATTATAA
Found at i:75475931 original size:10 final size:10
Alignment explanation
Indices: 75475899--75475932 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
75475889 ATAAAATATT
75475899 AAAAATTATA
1 AAAAATTATA
*
75475909 AAATATTAT-
1 AAAAATTATA
75475918 AAAAATTATA
1 AAAAATTATA
75475928 AAAAA
1 AAAAA
75475933 ATAGAAATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (10 bp):
AAAAATTATA
Found at i:75476538 original size:10 final size:10
Alignment explanation
Indices: 75476525--75476601 Score: 50
Period size: 10 Copynumber: 7.6 Consensus size: 10
75476515 AAACTAGTAA
75476525 AAAAATATTT
1 AAAAATATTT
*
75476535 AAAAAAATTT
1 AAAAATATTT
* * *
75476545 TAAAATCTAAT
1 AAAAATAT-TT
*
75476556 AAAAATATAT
1 AAAAATATTT
*
75476566 AAAAACAATTT
1 AAAAA-TATTT
*
75476577 -AAAATATTG
1 AAAAATATTT
75476586 AAAAAT-TTGT
1 AAAAATATT-T
75476596 AAAAAT
1 AAAAAT
75476602 TCTTAAACGT
Statistics
Matches: 51, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
9 5 0.10
10 36 0.71
11 10 0.20
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (10 bp):
AAAAATATTT
Found at i:75476549 original size:32 final size:31
Alignment explanation
Indices: 75476506--75476581 Score: 84
Period size: 31 Copynumber: 2.4 Consensus size: 31
75476496 AAAATTATTC
* *
75476506 AAAATTATAAAA-CTAGTAAAAAAATATTTAAA
1 AAAATTTTAAAATCTA--AAAAAAATATATAAA
*
75476538 AAAATTTTAAAATCTAATAAAAATATATAAA
1 AAAATTTTAAAATCTAAAAAAAATATATAAA
75476569 AACAA-TTTAAAAT
1 AA-AATTTTAAAAT
75476582 ATTGAAAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
31 23 0.59
32 13 0.33
33 3 0.08
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.30
Consensus pattern (31 bp):
AAAATTTTAAAATCTAAAAAAAATATATAAA
Found at i:75476558 original size:42 final size:42
Alignment explanation
Indices: 75476448--75476580 Score: 103
Period size: 42 Copynumber: 3.1 Consensus size: 42
75476438 AAAAGTCATT
* * * * * *
75476448 AAAAAATTATTTAAAATTTATAAAAAAATTAAAAATAAAAAACTTG
1 AAAAAATTATTCAAAA-TTATAAAAATA-T-ATAA-AAACAATTTA
*
75476494 AAAAAATTATTCAAAATTATAAAACTAGTA-AAAAA-ATATTTA
1 AAAAAATTATTCAAAATTATAAAAATA-TATAAAAACA-ATTTA
75476536 AAAAAATT-TT-AAAATCTAATAAAAATATATAAAAACAATTTA
1 AAAAAATTATTCAAAAT-T-ATAAAAATATATAAAAACAATTTA
75476578 AAA
1 AAA
75476581 TATTGAAAAA
Statistics
Matches: 75, Mismatches: 7, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
40 5 0.07
41 6 0.08
42 35 0.47
43 3 0.04
44 1 0.01
45 10 0.13
46 15 0.20
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.30
Consensus pattern (42 bp):
AAAAAATTATTCAAAATTATAAAAATATATAAAAACAATTTA
Found at i:75476731 original size:10 final size:10
Alignment explanation
Indices: 75476716--75476740 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
75476706 GTAAAAATAA
75476716 AAAAATTTAT
1 AAAAATTTAT
75476726 AAAAATTTAT
1 AAAAATTTAT
75476736 AAAAA
1 AAAAA
75476741 CTTTGAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (10 bp):
AAAAATTTAT
Found at i:75490555 original size:97 final size:97
Alignment explanation
Indices: 75490389--75490584 Score: 365
Period size: 97 Copynumber: 2.0 Consensus size: 97
75490379 TTTCTATTCA
75490389 ATCAGCTTCCAATGATCATGTATGACTAGTATTCGGAGGATTGGAGAACGTTTAATGAATTTAAA
1 ATCAGCTTCCAATGATCATGTATGACTAGTATTCGGAGGATTGGAGAACGTTTAATGAATTTAAA
*
75490454 ACAGTTCTCCCTCCTAAGAGAGTGTCATATGT
66 ACAGTTCTCCCTCCTAAGAGAGTATCATATGT
*
75490486 ATCAGCTTCCAATGATCATGTATGACTAGTATTCGTAGGATTGGAGAACGTTTAATGAATTTAAA
1 ATCAGCTTCCAATGATCATGTATGACTAGTATTCGGAGGATTGGAGAACGTTTAATGAATTTAAA
*
75490551 ACAGTTCTTCCTCCTAAGAGAGTATCATATGT
66 ACAGTTCTCCCTCCTAAGAGAGTATCATATGT
75490583 AT
1 AT
75490585 GTATATATAG
Statistics
Matches: 96, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
97 96 1.00
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (97 bp):
ATCAGCTTCCAATGATCATGTATGACTAGTATTCGGAGGATTGGAGAACGTTTAATGAATTTAAA
ACAGTTCTCCCTCCTAAGAGAGTATCATATGT
Found at i:75492430 original size:67 final size:66
Alignment explanation
Indices: 75492340--75492478 Score: 242
Period size: 67 Copynumber: 2.1 Consensus size: 66
75492330 TTTCAGTCAT
*
75492340 TACTGTACCCAAGTAACTACTTACTCGTTAAGTTAGTTTTTCCTTTTATTTTTTTTATAATTAAT
1 TACT-TACCCAAGTAACTACTTACTCGTTAAGTTAGTTTTTCCTTTTA-GTTTTTTATAATTAAT
75492405 AAA
64 AAA
*
75492408 TACTTACCCAAGTAACTTCTTACTCGTTAAGTTAGTTTTTCCTTTTAGTTTTTTATAATTAATAA
1 TACTTACCCAAGTAACTACTTACTCGTTAAGTTAGTTTTTCCTTTTAGTTTTTTATAATTAATAA
75492473 A
66 A
75492474 TACTT
1 TACTT
75492479 TTATTCCTTG
Statistics
Matches: 69, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
66 23 0.33
67 42 0.61
68 4 0.06
ACGTcount: A:0.29, C:0.15, G:0.07, T:0.49
Consensus pattern (66 bp):
TACTTACCCAAGTAACTACTTACTCGTTAAGTTAGTTTTTCCTTTTAGTTTTTTATAATTAATAA
A
Found at i:75495408 original size:3 final size:3
Alignment explanation
Indices: 75495402--75495429 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
75495392 CCTTCTTCTT
75495402 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
75495430 AAGTTTTACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:75496755 original size:22 final size:21
Alignment explanation
Indices: 75496730--75496771 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
75496720 GAACAAATAA
75496730 AAATAAAA-ATAATTATATATAC
1 AAATAAAACA-AATTA-ATATAC
75496752 AAATAAAACAAATTAATATA
1 AAATAAAACAAATTAATATA
75496772 AGTAAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.26
22 13 0.68
23 1 0.05
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.29
Consensus pattern (21 bp):
AAATAAAACAAATTAATATAC
Found at i:75497640 original size:30 final size:30
Alignment explanation
Indices: 75497606--75497668 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
75497596 ATTTAACAAG
75497606 CAAATG-CTTCTAAAATAATAAAAAAATTAA
1 CAAATGCCTT-TAAAATAATAAAAAAATTAA
*
75497636 CAAATGCCTTTAAAATAATAAGAAAATTAA
1 CAAATGCCTTTAAAATAATAAAAAAATTAA
75497666 CAA
1 CAA
75497669 TAAAATAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 28 0.90
31 3 0.10
ACGTcount: A:0.59, C:0.11, G:0.05, T:0.25
Consensus pattern (30 bp):
CAAATGCCTTTAAAATAATAAAAAAATTAA
Found at i:75520735 original size:6 final size:6
Alignment explanation
Indices: 75520724--75520780 Score: 77
Period size: 6 Copynumber: 10.2 Consensus size: 6
75520714 CTTCGGAAAT
*
75520724 AAATAA AAATAA ATA-AA AAAT-A AAAT-A AAATAA AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
75520769 AAAT-A AAATAA A
1 AAATAA AAATAA A
75520781 TAAATGGACT
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
5 19 0.41
6 27 0.59
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (6 bp):
AAATAA
Found at i:75520746 original size:17 final size:16
Alignment explanation
Indices: 75520724--75520780 Score: 80
Period size: 17 Copynumber: 3.4 Consensus size: 16
75520714 CTTCGGAAAT
75520724 AAATAAAAATAAATAAA
1 AAATAAAAATAAA-AAA
75520741 AAAT-AAAATAAAATAA
1 AAATAAAAATAAAA-AA
75520757 AAATAAAAATAAAAATA
1 AAATAAAAATAAAAA-A
75520774 AAATAAA
1 AAATAAA
75520781 TAAATGGACT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
15 1 0.03
16 15 0.41
17 21 0.57
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (16 bp):
AAATAAAAATAAAAAA
Found at i:75520750 original size:5 final size:5
Alignment explanation
Indices: 75520720--75520784 Score: 62
Period size: 6 Copynumber: 12.4 Consensus size: 5
75520710 AAGTCTTCGG
*
75520720 AAAT- AAATAA AAATA AATAAA AAATA AAATA AAATAA AAATAA AAATAA
1 AAATA AAAT-A AAATA AA-ATA AAATA AAATA AAAT-A AAAT-A AAAT-A
75520769 AAATA AAAT- AAATA AA
1 AAATA AAATA AAATA AA
75520785 TGGACTCAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
4 8 0.15
5 21 0.39
6 25 0.46
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAATA
Found at i:75526043 original size:19 final size:18
Alignment explanation
Indices: 75526019--75526054 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
75526009 ACCTATCAGA
75526019 AGTAAAGAAAAGAAAATTT
1 AGTAAAGAAAA-AAAATTT
*
75526038 AGTAAATAAAAAAAATT
1 AGTAAAGAAAAAAAATT
75526055 AAATTGCAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.67, C:0.00, G:0.11, T:0.22
Consensus pattern (18 bp):
AGTAAAGAAAAAAAATTT
Found at i:75527658 original size:33 final size:33
Alignment explanation
Indices: 75527612--75527680 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
75527602 CATAGTCCCT
* *
75527612 CAACTTAGACTCGTCGAAGTTGAATTGTTTTAC
1 CAACTTAGACTCGTCGAAGTTCAATCGTTTTAC
*
75527645 CAACTTAGGCTCGTCGAAGTTCAATCGTTTTAC
1 CAACTTAGACTCGTCGAAGTTCAATCGTTTTAC
75527678 CAA
1 CAA
75527681 AAGGTCTTTC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (33 bp):
CAACTTAGACTCGTCGAAGTTCAATCGTTTTAC
Found at i:75530417 original size:24 final size:24
Alignment explanation
Indices: 75530385--75530432 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
75530375 GAGTTTAAAA
75530385 AATTATTTTAATTCTATTAACGGT
1 AATTATTTTAATTCTATTAACGGT
*
75530409 AATTTTTTTAATTCTATTAACGGT
1 AATTATTTTAATTCTATTAACGGT
75530433 TAAGAAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.52
Consensus pattern (24 bp):
AATTATTTTAATTCTATTAACGGT
Found at i:75537689 original size:6 final size:6
Alignment explanation
Indices: 75537665--75537717 Score: 74
Period size: 6 Copynumber: 9.2 Consensus size: 6
75537655 CTTTAGAAAT
* *
75537665 AAAT-A AAAGAA AGATAA AAATAA AAATAA AAATAA AAATAA AAAT-A
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
75537711 AAATAA A
1 AAATAA A
75537718 TAAATGGACT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
5 8 0.19
6 34 0.81
ACGTcount: A:0.81, C:0.00, G:0.04, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:75539325 original size:18 final size:18
Alignment explanation
Indices: 75539299--75539345 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
75539289 AATAATAATT
*
75539299 AAAAGTAAAAAGAGTAA-A
1 AAAAATAAAAAGAG-AATA
*
75539317 AAAAATAAAAATAGAATA
1 AAAAATAAAAAGAGAATA
75539335 AAAAATGAAAA
1 AAAAAT-AAAA
75539346 CAAAACTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 2 0.08
18 19 0.76
19 4 0.16
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.13
Consensus pattern (18 bp):
AAAAATAAAAAGAGAATA
Found at i:75540027 original size:12 final size:12
Alignment explanation
Indices: 75540006--75540038 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
75539996 TCCAATTTTC
*
75540006 ACACGGCCTGGG
1 ACACGCCCTGGG
75540018 ACACGCCCTGGG
1 ACACGCCCTGGG
75540030 ACACGCCCT
1 ACACGCCCT
75540039 TGTGTCCAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.18, C:0.42, G:0.30, T:0.09
Consensus pattern (12 bp):
ACACGCCCTGGG
Found at i:75543051 original size:20 final size:18
Alignment explanation
Indices: 75543023--75543061 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
75543013 ACCTGCCAGA
*
75543023 AGTAAATAAAAGAAAATTT
1 AGTAAAT-AAACAAAATTT
75543042 AGTAATATAAACAAAATTT
1 AGTAA-ATAAACAAAATTT
75543061 A
1 A
75543062 AATTGCAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 16 0.89
20 2 0.11
ACGTcount: A:0.62, C:0.03, G:0.08, T:0.28
Consensus pattern (18 bp):
AGTAAATAAACAAAATTT
Found at i:75544189 original size:30 final size:30
Alignment explanation
Indices: 75544133--75544189 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
75544123 ACGGCTATGA
* *
75544133 CACACGGGCGTGTGGTCTTCCTGTGTGCCT
1 CACACGGGCGTGTGGTCTGCCCGTGTGCCT
75544163 CACACGGGCGTGTGGAT-TGCCCGTGTG
1 CACACGGGCGTGTGG-TCTGCCCGTGTG
75544190 GAAGTGCCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.96
31 1 0.04
ACGTcount: A:0.09, C:0.28, G:0.37, T:0.26
Consensus pattern (30 bp):
CACACGGGCGTGTGGTCTGCCCGTGTGCCT
Found at i:75552465 original size:3 final size:3
Alignment explanation
Indices: 75552452--75552552 Score: 95
Period size: 3 Copynumber: 35.0 Consensus size: 3
75552442 TTCTATTTTC
* * * *
75552452 TCT TAT TCT TCT TCT CCT CCT T-T TCT TCT TCT TCT TTT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
* *
75552499 TCT TCT TCT TCT TC- TCT GT-T TCT TC- TCT TAT TCT TCT TTT TC-
1 TCT TCT TCT TCT TCT TCT -TCT TCT TCT TCT TCT TCT TCT TCT TCT
*
75552541 ACT TCT TCT TCT
1 TCT TCT TCT TCT
75552553 ATTGCCCAGG
Statistics
Matches: 80, Mismatches: 12, Indels: 12
0.77 0.12 0.12
Matches are distributed among these distances:
2 8 0.10
3 71 0.89
4 1 0.01
ACGTcount: A:0.03, C:0.31, G:0.01, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:75553090 original size:34 final size:32
Alignment explanation
Indices: 75553031--75553095 Score: 87
Period size: 34 Copynumber: 2.0 Consensus size: 32
75553021 GGTCCCAAAA
75553031 TTATTATTTTAGAAAATTTTTAAAATTTTAAC
1 TTATTATTTTAGAAAATTTTTAAAATTTTAAC
*
75553063 TTATATATATTTAG-AATTTTTTAAAAATTTTAA
1 TTAT-TAT-TTTAGAAAATTTTT-AAAATTTTAA
75553096 ATTTTTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 4 0.14
33 10 0.34
34 15 0.52
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.54
Consensus pattern (32 bp):
TTATTATTTTAGAAAATTTTTAAAATTTTAAC
Found at i:75553117 original size:20 final size:20
Alignment explanation
Indices: 75553079--75553119 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
75553069 ATATTTAGAA
* *
75553079 TTTTTTAAAAATTTTAAATT
1 TTTTTTAAAAATATAAAATT
*
75553099 TTTTTTTAAAATATAAAATT
1 TTTTTTAAAAATATAAAATT
75553119 T
1 T
75553120 GAAATTTTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTTTAAAAATATAAAATT
Found at i:75553166 original size:19 final size:18
Alignment explanation
Indices: 75553117--75553167 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 18
75553107 AAATATAAAA
*
75553117 TTTGAAATTTTATAAATAT
1 TTTG-AATTTTTTAAATAT
*
75553136 TTTGAATGTTTTAAA-AT
1 TTTGAATTTTTTAAATAT
75553153 TATTGTAATTTTTTA
1 T-TTG-AATTTTTTA
75553168 TTGTAATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 3 0.11
18 12 0.44
19 12 0.44
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (18 bp):
TTTGAATTTTTTAAATAT
Found at i:75553183 original size:12 final size:13
Alignment explanation
Indices: 75553152--75553178 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
75553142 TGTTTTAAAA
75553152 TTATTGTAATTTT
1 TTATTGTAATTTT
75553165 TTATTGTAATTTT
1 TTATTGTAATTTT
75553178 T
1 T
75553179 GTTGTGAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.70
Consensus pattern (13 bp):
TTATTGTAATTTT
Found at i:75564338 original size:131 final size:130
Alignment explanation
Indices: 75564157--75564412 Score: 350
Period size: 131 Copynumber: 2.0 Consensus size: 130
75564147 AATTTAGAGA
* * *
75564157 ACATGAGTGAAATTCTAAAGGAACATTTGATTATTTTGAACAAACAGGAAAACACAACCTAGCAC
1 ACATGAGTGAAATTCCAAAGGAACATTCGATTATTTTGAACAAACAGGAAAACACAACCCAGCAC
* * * * * * *
75564222 GATAGGGCACGATTCCTTGAATTTCTAAACATCGAGTATTACCTTTGTTTTGAAGAGTTTTTAAA
66 GATAGGGCACGATT-ATCGAATTGCCAAACATCGAGTATTACCTTCGTTTTAAAGAATTTTTAAA
75564287 G
130 G
* * * * * *
75564288 ACATGAGTGAAATTCCAAAGGAATATTCGATTGTTTTGAACAAGCGGGAAATCGCAACCCAGCAC
1 ACATGAGTGAAATTCCAAAGGAACATTCGATTATTTTGAACAAACAGGAAAACACAACCCAGCAC
*
75564353 GATAGGGCACGATTATCGAATTGCCAAACATCGAGTATTGCCTTCGTTTTAAAGAATTTT
66 GATAGGGCACGATTATCGAATTGCCAAACATCGAGTATTACCTTCGTTTTAAAGAATTTT
75564413 CAAATGAATA
Statistics
Matches: 108, Mismatches: 17, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
130 38 0.35
131 70 0.65
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (130 bp):
ACATGAGTGAAATTCCAAAGGAACATTCGATTATTTTGAACAAACAGGAAAACACAACCCAGCAC
GATAGGGCACGATTATCGAATTGCCAAACATCGAGTATTACCTTCGTTTTAAAGAATTTTTAAAG
Found at i:75565050 original size:18 final size:17
Alignment explanation
Indices: 75565029--75565063 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
75565019 TATGTGTAAA
75565029 GTATAAAAAAATAATAAT
1 GTATAAAAAAAT-ATAAT
*
75565047 GTATAATAAAATATAAT
1 GTATAAAAAAATATAAT
75565064 CTTTAAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (17 bp):
GTATAAAAAAATATAAT
Found at i:75567068 original size:45 final size:45
Alignment explanation
Indices: 75567004--75567600 Score: 214
Period size: 45 Copynumber: 13.5 Consensus size: 45
75566994 CTTCGATATG
* * * *
75567004 CTCCACTGCAACTTCAGGGAGACAAGATCTGCAATGTTCGGCCTA
1 CTCCACTACAACTTTAGGGAGACAAGATCTGCAATCTTCAGCCTA
* * * * * * **
75567049 CTCCACTACAACTTTAGGGAGATAGGGTGGTG---GCTTAAATCTA
1 CTCCACTACAACTTTAGGGAGACAAGAT-CTGCAATCTTCAGCCTA
* * * * * ** * *
75567092 CTTCATTGCAACTTAAGGAAGACAAGAT-TCGCTGTCTTC-GATCTG
1 CTCCACTACAACTTTAGGGAGACAAGATCT-GCAATCTTCAG-CCTA
* *
75567137 CTCCACTGCAACTTCAGGGAGACAAGATCTGCAATCTTCAGCCTA
1 CTCCACTACAACTTTAGGGAGACAAGATCTGCAATCTTCAGCCTA
* * * * * ** *
75567182 CTCCACTACAACTTTAGGGAGATAGGATGGTG---GCTTAAATCTG
1 CTCCACTACAACTTTAGGGAGACAAGAT-CTGCAATCTTCAGCCTA
* * * * * *
75567225 CTTCACTGCAACTTTAGGAAGACAAGAT-TCGTC-GTCTTC-GATCTG
1 CTCCACTACAACTTTAGGGAGACAAGATCT-G-CAATCTTCAG-CCTA
* *
75567270 CTCCACTACAACTTCAGGGAG-CAATATCTGCAATCTTCAGCCTA
1 CTCCACTACAACTTTAGGGAGACAAGATCTGCAATCTTCAGCCTA
* * * * * **
75567314 CTCCACTACAACTTTAGGGAGATAGGATGGTG---GCTTAAATCTA
1 CTCCACTACAACTTTAGGGAGACAAGAT-CTGCAATCTTCAGCCTA
* * ** * * ** * *
75567357 CTTCATTGTAACTTCAGGAAGACAAGAT-TCGCTGTCTTC-GATCTG
1 CTCCACTACAACTTTAGGGAGACAAGATCT-GCAATCTTCAG-CCTA
* * * *
75567402 CTCCACTGCAACTTCAAGGAGACAAGATCTACAATCTTCAGCCTA
1 CTCCACTACAACTTTAGGGAGACAAGATCTGCAATCTTCAGCCTA
* * * * * ** *
75567447 CTCCACTACAACTTTAGGGAGATAGGATGGTG---GCTTAAATCTG
1 CTCCACTACAACTTTAGGGAGACAAGAT-CTGCAATCTTCAGCCTA
* * * * *** * *
75567490 CTTCACTGCAGCTTTAGGAAGACAAGAT-TCGTTGTCTTC-GATCTG
1 CTCCACTACAACTTTAGGGAGACAAGATCT-GCAATCTTCAG-CCTA
*
75567535 CTCCACTACAACTTCAGGGAG-CAAGATCTGCAATCTTCAGCCTA
1 CTCCACTACAACTTTAGGGAGACAAGATCTGCAATCTTCAGCCTA
75567579 CTCCACTACAACTTTAGGGAGA
1 CTCCACTACAACTTTAGGGAGA
75567601 TAGGATGGTG
Statistics
Matches: 396, Mismatches: 121, Indels: 70
0.67 0.21 0.12
Matches are distributed among these distances:
41 4 0.01
42 4 0.01
43 110 0.28
44 67 0.17
45 200 0.51
46 11 0.03
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (45 bp):
CTCCACTACAACTTTAGGGAGACAAGATCTGCAATCTTCAGCCTA
Found at i:75567235 original size:133 final size:133
Alignment explanation
Indices: 75566963--75567827 Score: 1362
Period size: 133 Copynumber: 6.5 Consensus size: 133
75566953 GCAACTGTTC
* * * * *
75566963 CACTGCAACTTCAGGGAGATAAGATTTG-TGACTTCGATATGCTCCACTGCAACTTCAGGGAGAC
1 CACTGCAACTTCAGGAAGACAAGATTCGCTGTCTTCGATCTGCTCCACTGCAACTTCAGGGAGAC
* * *
75567027 AAGATCTGCAATGTTCGGCCTACTCCACTACAACTTTAGGGAGATAGGGTGGTGGCTTAAATCTA
66 AAGATCTGCAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATCTA
75567092 CTT
131 CTT
* *
75567095 CATTGCAACTTAAGGAAGACAAGATTCGCTGTCTTCGATCTGCTCCACTGCAACTTCAGGGAGAC
1 CACTGCAACTTCAGGAAGACAAGATTCGCTGTCTTCGATCTGCTCCACTGCAACTTCAGGGAGAC
*
75567160 AAGATCTGCAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATCTG
66 AAGATCTGCAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATCTA
75567225 CTT
131 CTT
* *
75567228 CACTGCAACTTTAGGAAGACAAGATTCG-TCGTCTTCGATCTGCTCCACTACAACTTCAGGGAG-
1 CACTGCAACTTCAGGAAGACAAGATTCGCT-GTCTTCGATCTGCTCCACTGCAACTTCAGGGAGA
*
75567291 CAATATCTGCAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATCT
65 CAAGATCTGCAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATCT
75567356 ACTT
130 ACTT
* * *
75567360 CATTGTAACTTCAGGAAGACAAGATTCGCTGTCTTCGATCTGCTCCACTGCAACTTCAAGGAGAC
1 CACTGCAACTTCAGGAAGACAAGATTCGCTGTCTTCGATCTGCTCCACTGCAACTTCAGGGAGAC
* *
75567425 AAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATCTG
66 AAGATCTGCAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATCTA
75567490 CTT
131 CTT
* * * *
75567493 CACTGCAGCTTTAGGAAGACAAGATTCGTTGTCTTCGATCTGCTCCACTACAACTTCAGGGAG-C
1 CACTGCAACTTCAGGAAGACAAGATTCGCTGTCTTCGATCTGCTCCACTGCAACTTCAGGGAGAC
*
75567557 AAGATCTGCAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATCTG
66 AAGATCTGCAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATCTA
75567622 CTT
131 CTT
* * *
75567625 TACTGCAACTTCAGGAAGACAAGATTCACCGTCTTCGATCTG-TCCCACTGCAACTTCAGGGAGA
1 CACTGCAACTTCAGGAAGACAAGATTCGCTGTCTTCGATCTGCT-CCACTGCAACTTCAGGGAGA
* * *
75567689 CGAGATCTGTAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATAGTGGCTTAAATCT
65 CAAGATCTGCAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATCT
75567754 ACTT
130 ACTT
* * **
75567758 CACTGCAACTTCAGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTGCAACTTCAGGGAGAC
1 CACTGCAACTTCAGGAAGACAAGATTCGCTGTCTTCGATCTGCTCCACTGCAACTTCAGGGAGAC
*
75567823 GAGAT
66 AAGAT
75567828 TTGTGAATTC
Statistics
Matches: 680, Mismatches: 46, Indels: 13
0.92 0.06 0.02
Matches are distributed among these distances:
131 1 0.00
132 269 0.40
133 409 0.60
134 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (133 bp):
CACTGCAACTTCAGGAAGACAAGATTCGCTGTCTTCGATCTGCTCCACTGCAACTTCAGGGAGAC
AAGATCTGCAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATCTA
CTT
Found at i:75567439 original size:265 final size:265
Alignment explanation
Indices: 75566963--75567820 Score: 1396
Period size: 265 Copynumber: 3.2 Consensus size: 265
75566953 GCAACTGTTC
* * * * * *
75566963 CACTGCAACTTCAGGGAGATAAGATTTGT-GACTTCGATATGCTCCACTGCAACTTCAGGGAGAC
1 CACTGCAACTTCAGGAAGACAAGATTCGTCGTCTTCGATCTGCTCCACTACAACTTCAGGGAG-C
* * *
75567027 AAGATCTGCAATGTTCGGCCTACTCCACTACAACTTTAGGGAGATAGGGTGGTGGCTTAAATCTA
65 AAGATCTGCAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATCTA
*
75567092 CTTCATTGCAACTTAAGGAAGACAAGATTCGCTGTCTTCGATCTGCTCCACTGCAACTTCAGGGA
130 CTTCATTGCAACTTCAGGAAGACAAGATTCGCTGTCTTCGATCTGCTCCACTGCAACTTCAGGGA
75567157 GACAAGATCTGCAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAAT
195 GACAAGATCTGCAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAAT
75567222 CTGCTT
260 CTGCTT
*
75567228 CACTGCAACTTTAGGAAGACAAGATTCGTCGTCTTCGATCTGCTCCACTACAACTTCAGGGAGCA
1 CACTGCAACTTCAGGAAGACAAGATTCGTCGTCTTCGATCTGCTCCACTACAACTTCAGGGAGCA
*
75567293 ATATCTGCAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATCTAC
66 AGATCTGCAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATCTAC
* *
75567358 TTCATTGTAACTTCAGGAAGACAAGATTCGCTGTCTTCGATCTGCTCCACTGCAACTTCAAGGAG
131 TTCATTGCAACTTCAGGAAGACAAGATTCGCTGTCTTCGATCTGCTCCACTGCAACTTCAGGGAG
*
75567423 ACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATC
196 ACAAGATCTGCAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATC
75567488 TGCTT
261 TGCTT
* * *
75567493 CACTGCAGCTTTAGGAAGACAAGATTCGTTGTCTTCGATCTGCTCCACTACAACTTCAGGGAGCA
1 CACTGCAACTTCAGGAAGACAAGATTCGTCGTCTTCGATCTGCTCCACTACAACTTCAGGGAGCA
*
75567558 AGATCTGCAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATCTGC
66 AGATCTGCAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATCTAC
* * * *
75567623 TTTACTGCAACTTCAGGAAGACAAGATTCACCGTCTTCGATCTG-TCCCACTGCAACTTCAGGGA
131 TTCATTGCAACTTCAGGAAGACAAGATTCGCTGTCTTCGATCTGCT-CCACTGCAACTTCAGGGA
* * *
75567687 GACGAGATCTGTAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATAGTGGCTTAAAT
195 GACAAGATCTGCAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAAT
*
75567752 CTACTT
260 CTGCTT
* ** * *
75567758 CACTGCAACTTCAGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTGCAACTTCAGGGAG
1 CACTGCAACTTCAGGAAGACAAGATTCGTCGTCTTCGATCTGCTCCACTACAACTTCAGGGAG
75567821 ACGAGATTTG
Statistics
Matches: 553, Mismatches: 38, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
264 1 0.00
265 522 0.94
266 30 0.05
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (265 bp):
CACTGCAACTTCAGGAAGACAAGATTCGTCGTCTTCGATCTGCTCCACTACAACTTCAGGGAGCA
AGATCTGCAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATCTAC
TTCATTGCAACTTCAGGAAGACAAGATTCGCTGTCTTCGATCTGCTCCACTGCAACTTCAGGGAG
ACAAGATCTGCAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATC
TGCTT
Found at i:75567705 original size:398 final size:398
Alignment explanation
Indices: 75566963--75567827 Score: 1412
Period size: 398 Copynumber: 2.2 Consensus size: 398
75566953 GCAACTGTTC
* * * *
75566963 CACTGCAACTTCAGGGAGATAAGATTTG-TGACTTCGATATGCTCCACTGCAACTTCAGGGAGAC
1 CACTGCAACTTCAGGAAGATAAGATTCGCTGTCTTCGATCTGCTCCACTGCAACTTCAGGGAGAC
* * * *
75567027 AAGATCTGCAATGTTCGGCCTACTCCACTACAACTTTAGGGAGATAGGGTGGTGGCTTAAATCTA
66 AAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATCTA
* *
75567092 CTTCATTGCAACTTAAGGAAGACAAGATTCGCTGTCTTCGATCTGCTCCACTGCAACTTCAGGGA
131 CTTCACTGCAACTTAAGGAAGACAAGATTCGCTGTCTTCGATCTGCTCCACTACAACTTCAGGGA
75567157 GACAAGATCTGCAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAAT
196 GACAAGATCTGCAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAAT
* **
75567222 CTGCTTCACTGCAACTTTAGGAAGACAAGATTCGTCGTCTTCGATCTGCTCCACTACAACTTCAG
261 CTGCTTCACTGCAACTTCAGGAAGACAAGATTCACCGTCTTCGATCTGCTCCACTACAACTTCAG
* *
75567287 GGAGCAATATCTGCAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAA
326 GGAGCAAGATCTGCAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATAGTGGCTTAA
75567352 ATCTACTT
391 ATCTACTT
* * * *
75567360 CATTGTAACTTCAGGAAGACAAGATTCGCTGTCTTCGATCTGCTCCACTGCAACTTCAAGGAGAC
1 CACTGCAACTTCAGGAAGATAAGATTCGCTGTCTTCGATCTGCTCCACTGCAACTTCAGGGAGAC
*
75567425 AAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATCTG
66 AAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATCTA
* * *
75567490 CTTCACTGCAGCTTTAGGAAGACAAGATTCGTTGTCTTCGATCTGCTCCACTACAACTTCAGGGA
131 CTTCACTGCAACTTAAGGAAGACAAGATTCGCTGTCTTCGATCTGCTCCACTACAACTTCAGGGA
75567555 G-CAAGATCTGCAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAAT
196 GACAAGATCTGCAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAAT
* *
75567619 CTGCTTTACTGCAACTTCAGGAAGACAAGATTCACCGTCTTCGATCTG-TCCCACTGCAACTTCA
261 CTGCTTCACTGCAACTTCAGGAAGACAAGATTCACCGTCTTCGATCTGCT-CCACTACAACTTCA
* *
75567683 GGGAGACGAGATCTGTAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATAGTGGCTT
325 GGGAG-CAAGATCTGCAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATAGTGGCTT
75567748 AAATCTACTT
389 AAATCTACTT
* **
75567758 CACTGCAACTTCAGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTGCAACTTCAGGGAGAC
1 CACTGCAACTTCAGGAAGATAAGATTCGCTGTCTTCGATCTGCTCCACTGCAACTTCAGGGAGAC
*
75567823 GAGAT
66 AAGAT
75567828 TTGTGAATTC
Statistics
Matches: 430, Mismatches: 35, Indels: 5
0.91 0.07 0.01
Matches are distributed among these distances:
396 1 0.00
397 148 0.34
398 281 0.65
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (398 bp):
CACTGCAACTTCAGGAAGATAAGATTCGCTGTCTTCGATCTGCTCCACTGCAACTTCAGGGAGAC
AAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATCTA
CTTCACTGCAACTTAAGGAAGACAAGATTCGCTGTCTTCGATCTGCTCCACTACAACTTCAGGGA
GACAAGATCTGCAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAAT
CTGCTTCACTGCAACTTCAGGAAGACAAGATTCACCGTCTTCGATCTGCTCCACTACAACTTCAG
GGAGCAAGATCTGCAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATAGTGGCTTAA
ATCTACTT
Found at i:75567811 original size:45 final size:45
Alignment explanation
Indices: 75567098--75567828 Score: 132
Period size: 45 Copynumber: 16.5 Consensus size: 45
75567088 TCTACTTCAT
* * **
75567098 TGCAACTTAAGGAAGACAAGATTCGCTGTCTTCGATCTGCTCCAC
1 TGCAACTTCAGGAAGACAAGATTCACCATCTTCGATCTGCTCCAC
* * *
75567143 TGCAACTTCAGGGAGACAAGATCTGCA--ATCTTC-AGCCTACTCCAC
1 TGCAACTTCAGGAAGACAAGAT-T-CACCATCTTCGA-TCTGCTCCAC
* * * * * ***** ** *
75567188 TACAACTTTAGGGAGATAGGA-T-GGTGGCTTAAATCTGCTTCAC
1 TGCAACTTCAGGAAGACAAGATTCACCATCTTCGATCTGCTCCAC
* ** *
75567231 TGCAACTTTAGGAAGACAAGATTCGTCGTCTTCGATCTGCTCCAC
1 TGCAACTTCAGGAAGACAAGATTCACCATCTTCGATCTGCTCCAC
* * * * *
75567276 TACAACTTCAGGGAG-CAATATCTGCA--ATCTTC-AGCCTACTCCAC
1 TGCAACTTCAGGAAGACAAGAT-T-CACCATCTTCGA-TCTGCTCCAC
* * * * * ***** ** * * *
75567320 TACAACTTTAGGGAGATAGGA-T-GGTGGCTTAAATCTACTTCAT
1 TGCAACTTCAGGAAGACAAGATTCACCATCTTCGATCTGCTCCAC
* * **
75567363 TGTAACTTCAGGAAGACAAGATTCGCTGTCTTCGATCTGCTCCAC
1 TGCAACTTCAGGAAGACAAGATTCACCATCTTCGATCTGCTCCAC
* * *
75567408 TGCAACTTCAAGG-AGACAAGA-TCTACAATCTTC-AGCCTACTCCAC
1 TGCAACTTC-AGGAAGACAAGATTC-ACCATCTTCGA-TCTGCTCCAC
* * * * * ***** ** *
75567453 TACAACTTTAGGGAGATAGGA-T-GGTGGCTTAAATCTGCTTCAC
1 TGCAACTTCAGGAAGACAAGATTCACCATCTTCGATCTGCTCCAC
* * ****
75567496 TGCAGCTTTAGGAAGACAAGATTCGTTGTCTTCGATCTGCTCCAC
1 TGCAACTTCAGGAAGACAAGATTCACCATCTTCGATCTGCTCCAC
* * * *
75567541 TACAACTTCAGGGAG-CAAGATCTGCA--ATCTTC-AGCCTACTCCAC
1 TGCAACTTCAGGAAGACAAGAT-T-CACCATCTTCGA-TCTGCTCCAC
* * * * * ***** ** **
75567585 TACAACTTTAGGGAGATAGGA-T-GGTGGCTTAAATCTGCTTTAC
1 TGCAACTTCAGGAAGACAAGATTCACCATCTTCGATCTGCTCCAC
*
75567628 TGCAACTTCAGGAAGACAAGATTCACCGTCTTCGATCTG-TCCCAC
1 TGCAACTTCAGGAAGACAAGATTCACCATCTTCGATCTGCT-CCAC
* * * * *
75567673 TGCAACTTCAGGGAGACGAGATCTGTA--ATCTTC-AGCCTACTCCAC
1 TGCAACTTCAGGAAGACAAGAT-T-CACCATCTTCGA-TCTGCTCCAC
* * * * * **** ** * *
75567718 TACAACTTTAGGGAGATAGGA-T-AGTGGCTTAAATCTACTTCAC
1 TGCAACTTCAGGAAGACAAGATTCACCATCTTCGATCTGCTCCAC
*
75567761 TGCAACTTCAGGAAGATAAGATTCACCATCTTCGATCTGCTCCAC
1 TGCAACTTCAGGAAGACAAGATTCACCATCTTCGATCTGCTCCAC
* *
75567806 TGCAACTTCAGGGAGACGAGATT
1 TGCAACTTCAGGAAGACAAGATT
75567829 TGTGAATTCA
Statistics
Matches: 492, Mismatches: 151, Indels: 86
0.67 0.21 0.12
Matches are distributed among these distances:
41 1 0.00
43 137 0.28
44 84 0.17
45 260 0.53
46 8 0.02
47 2 0.00
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (45 bp):
TGCAACTTCAGGAAGACAAGATTCACCATCTTCGATCTGCTCCAC
Found at i:75579584 original size:131 final size:130
Alignment explanation
Indices: 75579402--75579657 Score: 395
Period size: 131 Copynumber: 2.0 Consensus size: 130
75579392 AATTTAGAGA
* * *
75579402 ACATGAGTGAAATTCTAAAGGAACATTCGATTATTTTGAACAAACAGGAAATCGCAACCCAGCAC
1 ACATAAGTGAAATTCCAAAGGAACATTCGATTATTTTGAACAAACAGGAAATCGCAACCCAACAC
* *
75579467 GATAGGGCACGATTCCTCAAATTGCCAAACATCGAGTATTACCTTCGTTTTGAAGAGTTTTTAAA
66 GATAGGGCACGATT-CTCAAATTGCCAAACATCGAGTATTACCTTCGTTTTAAAGAATTTTTAAA
75579532 G
130 G
* * * * *
75579533 ACATAAGTGAAATTCCAAATGAATATTCGATTGTTTTGAACAAGCGGGAAATCGCAACCCAACAC
1 ACATAAGTGAAATTCCAAAGGAACATTCGATTATTTTGAACAAACAGGAAATCGCAACCCAACAC
* *
75579598 GATAGGGCACGATTCTCGAATTGCCAAACATCGAGTATTGCCTTCGTTTTAAAGAATTTT
66 GATAGGGCACGATTCTCAAATTGCCAAACATCGAGTATTACCTTCGTTTTAAAGAATTTT
75579658 CTAATGAATA
Statistics
Matches: 113, Mismatches: 12, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
130 42 0.37
131 71 0.63
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.27
Consensus pattern (130 bp):
ACATAAGTGAAATTCCAAAGGAACATTCGATTATTTTGAACAAACAGGAAATCGCAACCCAACAC
GATAGGGCACGATTCTCAAATTGCCAAACATCGAGTATTACCTTCGTTTTAAAGAATTTTTAAAG
Found at i:75580299 original size:18 final size:17
Alignment explanation
Indices: 75580278--75580312 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
75580268 TATGTGTAAA
75580278 GTATAAAAAAATAATAAT
1 GTATAAAAAAAT-ATAAT
*
75580296 GTATAATAAAATATAAT
1 GTATAAAAAAATATAAT
75580313 CTTTAAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (17 bp):
GTATAAAAAAATATAAT
Found at i:75582474 original size:21 final size:20
Alignment explanation
Indices: 75582444--75582487 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 20
75582434 ATTAGAATGT
*
75582444 AAAAATTAAATTAAAAATAA
1 AAAAATTAAAATAAAAATAA
75582464 AAAATATTAAAATAAAAATAA
1 AAAA-ATTAAAATAAAAATAA
75582485 AAA
1 AAA
75582488 TGACTAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (20 bp):
AAAAATTAAAATAAAAATAA
Found at i:75582495 original size:21 final size:21
Alignment explanation
Indices: 75582450--75582495 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
75582440 ATGTAAAAAT
* *
75582450 TAAATTAAAAATAAAAAATAT
1 TAAAATAAAAATAAAAAATAC
75582471 TAAAATAAAAAT-AAAAATGAC
1 TAAAATAAAAATAAAAAAT-AC
75582492 TAAA
1 TAAA
75582496 TTAATAGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.24
Consensus pattern (21 bp):
TAAAATAAAAATAAAAAATAC
Found at i:75584759 original size:10 final size:9
Alignment explanation
Indices: 75584743--75584837 Score: 59
Period size: 9 Copynumber: 9.9 Consensus size: 9
75584733 GATAATTTTC
75584743 AAAAATTTA
1 AAAAATTTA
*
75584752 AAATAATTTT
1 AAA-AATTTA
* *
75584762 TAACA-TTA
1 AAAAATTTA
75584770 AAAATATTTA
1 AAAA-ATTTA
75584780 TAAAAATTTTAA
1 -AAAAA-TTT-A
*
75584792 AAAAATCTA
1 AAAAATTTA
75584801 AAAATATATATA
1 AAAA-AT-T-TA
75584813 AAAAATTT-
1 AAAAATTTA
*
75584821 AAAATTTTA
1 AAAAATTTA
75584830 AAAAATTT
1 AAAAATTT
75584838 CTAAACCAAT
Statistics
Matches: 66, Mismatches: 10, Indels: 20
0.69 0.10 0.21
Matches are distributed among these distances:
8 11 0.17
9 18 0.27
10 16 0.24
11 14 0.21
12 7 0.11
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (9 bp):
AAAAATTTA
Found at i:75594528 original size:21 final size:20
Alignment explanation
Indices: 75594489--75594528 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
75594479 ATTACTTAAA
* *
75594489 ATATTTAAAATTAATAATAT
1 ATATTAAAAATTAACAATAT
75594509 ATATTAAAATATTAACAATA
1 ATATTAAAA-ATTAACAATA
75594529 AGTTATAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (20 bp):
ATATTAAAAATTAACAATAT
Found at i:75594706 original size:13 final size:13
Alignment explanation
Indices: 75594688--75594762 Score: 89
Period size: 13 Copynumber: 5.8 Consensus size: 13
75594678 AACATTGAAA
75594688 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
*
75594701 TTTTCAAAAGTAC
1 TTTTCAAAAGCAC
* *
75594714 TTCTCAAAAGTAC
1 TTTTCAAAAGCAC
*
75594727 TTTTTC-ACAGCAC
1 -TTTTCAAAAGCAC
*
75594740 TTTTCAAAAGCAT
1 TTTTCAAAAGCAC
75594753 TTTTCAAAAG
1 TTTTCAAAAG
75594763 TATTGCCAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
12 5 0.09
13 44 0.83
14 4 0.08
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.36
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:75597450 original size:14 final size:15
Alignment explanation
Indices: 75597420--75597452 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
75597410 TATATTTAAA
75597420 TTAAAATTTACATATT
1 TTAAAATTTA-ATATT
75597436 TTAAAATTT-ATATT
1 TTAAAATTTAATATT
75597450 TTA
1 TTA
75597453 TATATTATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
16 9 0.53
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (15 bp):
TTAAAATTTAATATT
Found at i:75599295 original size:40 final size:40
Alignment explanation
Indices: 75599251--75599330 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
75599241 AATTCATCAA
75599251 CATCAGCATTTGGGACCTCCTCATCTTTCTCTTCTTCTGC
1 CATCAGCATTTGGGACCTCCTCATCTTTCTCTTCTTCTGC
75599291 CATCAGCATTTGGGACCTCCTCATCTTTCTCTTCTTCTGC
1 CATCAGCATTTGGGACCTCCTCATCTTTCTCTTCTTCTGC
75599331 TATATCATCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.12, C:0.35, G:0.12, T:0.40
Consensus pattern (40 bp):
CATCAGCATTTGGGACCTCCTCATCTTTCTCTTCTTCTGC
Found at i:75612024 original size:30 final size:30
Alignment explanation
Indices: 75611989--75612046 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
75611979 TAGGCACTTC
*
75611989 CACACGGGTGAT-CCACACGCTCGTGTGTGA
1 CACACGGGT-ATACCACACGCCCGTGTGTGA
*
75612019 CACACGGGTTTACCACACGCCCGTGTGT
1 CACACGGGTATACCACACGCCCGTGTGT
75612047 CATGGCCTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.19, C:0.33, G:0.28, T:0.21
Consensus pattern (30 bp):
CACACGGGTATACCACACGCCCGTGTGTGA
Found at i:75619723 original size:23 final size:24
Alignment explanation
Indices: 75619669--75619724 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
75619659 TTGTTTTTCT
*
75619669 TTTCATTTTATCTTTATTTTAGCA
1 TTTCTTTTTATCTTTATTTTAGCA
* *
75619693 TTTCTTTTTGTCTTTA-TTTATCA
1 TTTCTTTTTATCTTTATTTTAGCA
75619716 TTT-TTTTTA
1 TTTCTTTTTA
75619725 AATACTTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 5 0.18
23 9 0.32
24 14 0.50
ACGTcount: A:0.16, C:0.11, G:0.04, T:0.70
Consensus pattern (24 bp):
TTTCTTTTTATCTTTATTTTAGCA
Found at i:75622975 original size:14 final size:15
Alignment explanation
Indices: 75622956--75622992 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
75622946 ATAATTTAAA
75622956 ATATAATAATAAT-G
1 ATATAATAATAATAG
75622970 ATATAAT-ATAATAG
1 ATATAATAATAATAG
*
75622984 TTATAATAA
1 ATATAATAA
75622993 ATAAAAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 5 0.25
14 14 0.70
15 1 0.05
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (15 bp):
ATATAATAATAATAG
Found at i:75630038 original size:14 final size:15
Alignment explanation
Indices: 75630019--75630055 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
75630009 ATAATTTAAA
75630019 ATATAATAATAAT-G
1 ATATAATAATAATAG
75630033 ATATAAT-ATAATAG
1 ATATAATAATAATAG
*
75630047 TTATAATAA
1 ATATAATAA
75630056 ATGAAAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 5 0.25
14 14 0.70
15 1 0.05
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (15 bp):
ATATAATAATAATAG
Found at i:75635311 original size:16 final size:16
Alignment explanation
Indices: 75635292--75635339 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
75635282 TAAGTATAAG
75635292 ATATTTAATATATATA
1 ATATTTAATATATATA
*
75635308 ATA--TATTAT-TATA
1 ATATTTAATATATATA
75635321 ATAATTTAATA-ATATA
1 AT-ATTTAATATATATA
75635337 ATA
1 ATA
75635340 AGATATAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 9
0.70 0.05 0.24
Matches are distributed among these distances:
13 6 0.23
14 6 0.23
15 1 0.04
16 13 0.50
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATTTAATATATATA
Found at i:75635330 original size:8 final size:8
Alignment explanation
Indices: 75635297--75635368 Score: 67
Period size: 8 Copynumber: 9.0 Consensus size: 8
75635287 ATAAGATATT
75635297 TAATATATA
1 TAATATA-A
*
75635306 TAATATAT
1 TAATATAA
*
75635314 TATTATAA
1 TAATATAA
*
75635322 TAATTTAA
1 TAATATAA
75635330 TAATATAA
1 TAATATAA
*
75635338 TAAGAT-A
1 TAATATAA
75635345 TAATATAA
1 TAATATAA
*
75635353 TAAGTAAAA
1 TAA-TATAA
75635362 TAA-ATAA
1 TAATATAA
75635369 GAGAAAATAA
Statistics
Matches: 51, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
7 9 0.18
8 28 0.55
9 14 0.27
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (8 bp):
TAATATAA
Found at i:75637296 original size:22 final size:22
Alignment explanation
Indices: 75637268--75637323 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
75637258 CGGGTTGATG
* *
75637268 ACACGGGCGTGTCATATCAGCC
1 ACACGGGCGTGTCACATAAGCC
75637290 ACACGGGCGTGTCACATAAGCC
1 ACACGGGCGTGTCACATAAGCC
75637312 ACACGGGCGTGT
1 ACACGGGCGTGT
75637324 GGTGCTATTC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.23, C:0.30, G:0.30, T:0.16
Consensus pattern (22 bp):
ACACGGGCGTGTCACATAAGCC
Found at i:75640655 original size:19 final size:21
Alignment explanation
Indices: 75640633--75640672 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
75640623 TCTCCCTCTC
75640633 TTATGA-TAT-TCTGTTTATA
1 TTATGATTATATCTGTTTATA
*
75640652 TTATGATTATATTTGTTTATA
1 TTATGATTATATCTGTTTATA
75640673 CATTGAGGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 3 0.17
21 9 0.50
ACGTcount: A:0.28, C:0.03, G:0.10, T:0.60
Consensus pattern (21 bp):
TTATGATTATATCTGTTTATA
Found at i:75646171 original size:12 final size:12
Alignment explanation
Indices: 75646151--75646185 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
75646141 ATGTTCCTCA
75646151 TCCACCTCTATT
1 TCCACCTCTATT
* *
75646163 TCCATCTCTAGT
1 TCCACCTCTATT
75646175 TCCACCTCTAT
1 TCCACCTCTAT
75646186 ATCCTCCATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.17, C:0.40, G:0.03, T:0.40
Consensus pattern (12 bp):
TCCACCTCTATT
Found at i:75647067 original size:17 final size:18
Alignment explanation
Indices: 75647041--75647079 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
75647031 ATTTGTGTGG
75647041 AAAA-TGTTCTC-AATAT
1 AAAATTGTTCTCTAATAT
*
75647057 AAAATTGTTCTCTCATAT
1 AAAATTGTTCTCTAATAT
75647075 AAAAT
1 AAAAT
75647080 CAAAAGCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 7 0.35
18 9 0.45
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (18 bp):
AAAATTGTTCTCTAATAT
Found at i:75647257 original size:15 final size:15
Alignment explanation
Indices: 75647237--75647267 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
75647227 AAAACAATAT
75647237 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
75647252 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
75647267 A
1 A
75647268 CTTACATGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:75650639 original size:15 final size:15
Alignment explanation
Indices: 75650629--75650658 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
75650619 TCCCTTCTTG
75650629 ACCACGACCTTTTCC
1 ACCACGACCTTTTCC
*
75650644 ACCACGACCATTTCC
1 ACCACGACCTTTTCC
75650659 TCGATCTCCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.47, G:0.07, T:0.23
Consensus pattern (15 bp):
ACCACGACCTTTTCC
Found at i:75651426 original size:17 final size:18
Alignment explanation
Indices: 75651400--75651438 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
75651390 CAAATTGTGG
75651400 AAAA-TGTTCTC-AATAT
1 AAAATTGTTCTCTAATAT
*
75651416 AAAATTGTTCTCTCATAT
1 AAAATTGTTCTCTAATAT
75651434 AAAAT
1 AAAAT
75651439 CAAAAGCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 7 0.35
18 9 0.45
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (18 bp):
AAAATTGTTCTCTAATAT
Found at i:75651625 original size:14 final size:15
Alignment explanation
Indices: 75651596--75651625 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
75651586 AAAACAATAT
75651596 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
75651611 AACTCTTGA-CTTTC
1 AACTCTTGACCTTTC
75651625 A
1 A
75651626 CTTACATGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.23, C:0.30, G:0.07, T:0.40
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Done.