Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 187 of 222
Found at i:59796128 original size:16 final size:16
Alignment explanation
Indices: 59796097--59796133 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
59796087 ATATGACGAA
59796097 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
59796113 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
59796129 TATTA
1 TATTA
59796134 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:59797703 original size:6 final size:6
Alignment explanation
Indices: 59797692--59797755 Score: 128
Period size: 6 Copynumber: 10.7 Consensus size: 6
59797682 GTGACCCAAC
59797692 CCATAA CCATAA CCATAA CCATAA CCATAA CCATAA CCATAA CCATAA
1 CCATAA CCATAA CCATAA CCATAA CCATAA CCATAA CCATAA CCATAA
59797740 CCATAA CCATAA CCAT
1 CCATAA CCATAA CCAT
59797756 TCTCTTTCTC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 58 1.00
ACGTcount: A:0.48, C:0.34, G:0.00, T:0.17
Consensus pattern (6 bp):
CCATAA
Found at i:59801687 original size:23 final size:23
Alignment explanation
Indices: 59801675--59801752 Score: 70
Period size: 24 Copynumber: 3.3 Consensus size: 23
59801665 TTACTATTTA
59801675 ATTATTAATTATTATTATATTAT
1 ATTATTAATTATTATTATATTAT
* * *
59801698 ATTATTACTTGTTTATCATTATTAT
1 ATTATTAATT-ATTATTA-TATTAT
*
59801723 -TTATT-ATTATTATTAATATTGAA
1 ATTATTAATTATTATT-ATATT-AT
59801746 ATTATTA
1 ATTATTA
59801753 TTTTCGTGTA
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
22 8 0.19
23 13 0.31
24 15 0.36
25 6 0.14
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (23 bp):
ATTATTAATTATTATTATATTAT
Found at i:59801700 original size:13 final size:12
Alignment explanation
Indices: 59801669--59801742 Score: 53
Period size: 13 Copynumber: 5.8 Consensus size: 12
59801659 ACTATTTTAC
59801669 TATTTA-ATTAT
1 TATTTATATTAT
*
59801680 TAATTATTATTA-
1 TATTTA-TATTAT
59801692 TATTATATTATTACT
1 TATT-TA-TATTA-T
*
59801707 TGTTTATCATTAT
1 TATTTAT-ATTAT
59801720 TATTTATTATTAT
1 TATTTA-TATTAT
*
59801733 TATTAATATT
1 TATTTATATT
59801743 GAAATTATTA
Statistics
Matches: 51, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
11 5 0.10
12 7 0.14
13 29 0.57
14 7 0.14
15 3 0.06
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (12 bp):
TATTTATATTAT
Found at i:59801754 original size:3 final size:3
Alignment explanation
Indices: 59801675--59801742 Score: 59
Period size: 3 Copynumber: 22.0 Consensus size: 3
59801665 TTACTATTTA
* *
59801675 ATT ATT AATT ATT ATT A-T ATT A-T ATT ATT ACTT GTTT ATC ATT ATT
1 ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT A-TT -ATT ATT ATT ATT
*
59801721 ATTT ATT ATT ATT ATT AAT ATT
1 A-TT ATT ATT ATT ATT ATT ATT
59801743 GAAATTATTA
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
2 4 0.08
3 39 0.74
4 10 0.19
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:59806708 original size:7 final size:7
Alignment explanation
Indices: 59806696--59806737 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
59806686 AAATGACGAG
59806696 ATGAAAA
1 ATGAAAA
59806703 ATGAAAA
1 ATGAAAA
59806710 ATG-AAA
1 ATGAAAA
59806716 ATGAAAA
1 ATGAAAA
* *
59806723 CTAAAAA
1 ATGAAAA
59806730 ATGGAAAA
1 AT-GAAAA
59806738 GTAAAATGGA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
6 6 0.21
7 19 0.66
8 4 0.14
ACGTcount: A:0.69, C:0.02, G:0.14, T:0.14
Consensus pattern (7 bp):
ATGAAAA
Found at i:59806713 original size:14 final size:14
Alignment explanation
Indices: 59806696--59806737 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
59806686 AAATGACGAG
59806696 ATGAAAAATGAAAA
1 ATGAAAAATGAAAA
59806710 ATG-AAAATGAAAA
1 ATGAAAAATGAAAA
* *
59806723 CTAAAAAATGGAAAA
1 ATGAAAAAT-GAAAA
59806738 GTAAAATGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 11 0.46
14 8 0.33
15 5 0.21
ACGTcount: A:0.69, C:0.02, G:0.14, T:0.14
Consensus pattern (14 bp):
ATGAAAAATGAAAA
Found at i:59806881 original size:42 final size:42
Alignment explanation
Indices: 59806820--59806919 Score: 164
Period size: 42 Copynumber: 2.4 Consensus size: 42
59806810 GAAAAGGACG
*
59806820 GCTCAAATATTGATTAGAATGGGGCATGAGATTATCGGAGTA
1 GCTCAAATATTGATCAGAATGGGGCATGAGATTATCGGAGTA
* *
59806862 GCTCAAATATTGATCAGAATGTGGCATGAGATTATTGGAGTA
1 GCTCAAATATTGATCAGAATGGGGCATGAGATTATCGGAGTA
*
59806904 GCTCAAATACTGATCA
1 GCTCAAATATTGATCA
59806920 ACATGAGGCA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (42 bp):
GCTCAAATATTGATCAGAATGGGGCATGAGATTATCGGAGTA
Found at i:59806930 original size:42 final size:42
Alignment explanation
Indices: 59806820--59806931 Score: 163
Period size: 42 Copynumber: 2.7 Consensus size: 42
59806810 GAAAAGGACG
* *
59806820 GCTCAAATATTGATTAGAATGGGGCATGAGATTATCGGAGTA
1 GCTCAAATATTGATCAGAATGAGGCATGAGATTATCGGAGTA
* *
59806862 GCTCAAATATTGATCAGAATGTGGCATGAGATTATTGGAGTA
1 GCTCAAATATTGATCAGAATGAGGCATGAGATTATCGGAGTA
*
59806904 GCTCAAATACTGATCA-ACATGAGGCATG
1 GCTCAAATATTGATCAGA-ATGAGGCATG
59806932 TAGTGGTCTT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
41 1 0.02
42 63 0.98
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.28
Consensus pattern (42 bp):
GCTCAAATATTGATCAGAATGAGGCATGAGATTATCGGAGTA
Found at i:59808127 original size:44 final size:44
Alignment explanation
Indices: 59808064--59808895 Score: 588
Period size: 44 Copynumber: 19.1 Consensus size: 44
59808054 GGCAGGTTGA
*
59808064 AAGAAAGTAGATCTTGTCTTCACGTATTAGCGTGAAGTAGATCG
1 AAGAAAGTAGATCTTGTCTTCACGTATTGGCGTGAAGTAGATCG
* * * * *
59808108 AAGAAAGTAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCG
1 AAGAAAGTAGATCTTGTCTTCACGTATTGG-CGTGAAGTAGATCG
* * * *
59808153 AAGAAAGCAGATCTTGTTTTCATGTACTGGCGTGAAGTAGATCG
1 AAGAAAGTAGATCTTGTCTTCACGTATTGGCGTGAAGTAGATCG
* * * * *
59808197 AAGAAAGTAGATCTTGTTTTCCCATATTGGTGGCGAAGTAGATCG
1 AAGAAAGTAGATCTTGTCTTCACGTATTGG-CGTGAAGTAGATCG
* *
59808242 AAGAAAGTAGATCTTGTCTTCATGTATCGGCGTGAAGTAGATCG
1 AAGAAAGTAGATCTTGTCTTCACGTATTGGCGTGAAGTAGATCG
* * * * *
59808286 AATATAGTAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCA
1 AAGAAAGTAGATCTTGTCTTCACGTATTGGCGTGAAGTAGATCG
* * * * * *
59808330 AAGATAGTAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCG
1 AAGAAAGTAGATCTTGTCTTCACGTATTGG-CGTGAAGTAGATCG
* *
59808375 AAGAAAGTAGATCTTGTCTTCATGTATCGGCGTGAAGTAGATCG
1 AAGAAAGTAGATCTTGTCTTCACGTATTGGCGTGAAGTAGATCG
* ** * * *
59808419 AAAAAAGTAGATCTTGTCTTCATATATAGCCGTGAAGTAGATCA
1 AAGAAAGTAGATCTTGTCTTCACGTATTGGCGTGAAGTAGATCG
* * * * * * * *
59808463 AAGATAGCAAATCTTGTCTTCCCATACTGGTGGCGAAGTAGATC-
1 AAGAAAGTAGATCTTGTCTTCACGTATTGG-CGTGAAGTAGATCG
** ** * * * ** * * *
59808507 ----TTGT-CTTCATGT-ATCGGCG---TGAAGTAGATCGAAGATAG
1 AAGAAAGTAGATCTTGTCTTC-ACGTATTGGCGT-GA-AGTAGATCG
* ** * * *
59808545 CAG-ATCTTG-TCTTCATGTATTAACG---T---G--AAGTAGATCG
1 AAGAAAGTAGATC-T--TGTCTTCACGTATTGGCGTGAAGTAGATCG
* * *
59808582 AAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCA
1 AAGAAAGTAGATCTTGTCTTCACGTATTGGCGTGAAGTAGATCG
* * * * * * *
59808626 AAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCG
1 AAGAAAGTAGATCTTGTCTTCACGTATTGG-CGTGAAGTAGATCG
** * *
59808671 AAGAAAACAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCG
1 AAGAAAGTAGATCTTGTCTTCACGTATTGGCGTGAAGTAGATCG
* * * *
59808715 AAGATAGTAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCA
1 AAGAAAGTAGATCTTGTCTTCACGTATTGGCGTGAAGTAGATCG
* * * * * * * *
59808759 AAGATAGCAGATTTTGTCTTCCCATACTGGTGGCGAAGTAGATCG
1 AAGAAAGTAGATCTTGTCTTCACGTATTGG-CGTGAAGTAGATCG
* *
59808804 AAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCG
1 AAGAAAGTAGATCTTGTCTTCACGTATTGGCGTGAAGTAGATCG
* *
59808848 AAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCG
1 AAGAAAGTAGATCTTGTCTTCACGTATTGGCGTGAAGTAGATCG
59808892 AAGA
1 AAGA
59808896 TACAAGTCTT
Statistics
Matches: 621, Mismatches: 139, Indels: 56
0.76 0.17 0.07
Matches are distributed among these distances:
35 1 0.00
36 11 0.02
37 13 0.02
38 6 0.01
39 9 0.01
40 2 0.00
41 5 0.01
42 1 0.00
44 382 0.62
45 191 0.31
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (44 bp):
AAGAAAGTAGATCTTGTCTTCACGTATTGGCGTGAAGTAGATCG
Found at i:59808219 original size:89 final size:89
Alignment explanation
Indices: 59808064--59808506 Score: 455
Period size: 89 Copynumber: 5.0 Consensus size: 89
59808054 GGCAGGTTGA
* * * *
59808064 AAGAAAGTAGATCTTGTCTTCACGTATTAGCGTGAAGTAGATCGAAGAAAGTAGATCTTGTCTTC
1 AAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCGAAGAAAGTAGATCTTGTCTTC
**
59808129 CCATACTGGTGGCGAAGTAGATCG
66 ATATACTGGTGGCGAAGTAGATCG
* *
59808153 AAGAAAGCAGATCTTGTTTTCATGTACTGGCGTGAAGTAGATCGAAGAAAGTAGATCTTGTTTTC
1 AAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCGAAGAAAGTAGATCTTGTCTTC
** *
59808218 CCATATTGGTGGCGAAGTAGATCG
66 ATATACTGGTGGCGAAGTAGATCG
* * * *
59808242 AAGAAAGTAGATCTTGTCTTCATGTA-TCGGCGTGAAGTAGATCGAATATAGTAGATCTTATCTT
1 AAGAAAGCAGATCTTGTCTTCATGTACT-GGCGTGAAGTAGATCGAAGAAAGTAGATCTTGTCTT
* * * * *
59808306 CATGTATTGG-CGTGAAGTAGATCA
65 CATATACTGGTGGCGAAGTAGATCG
* * *** * *
59808330 AAGATAGTAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGTAGATCTTGTCTT
1 AAGAAAGCAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCGAAGAAAGTAGATCTTGTCTT
* * *
59808395 CATGTA-TCGG-CGTGAAGTAGATCG
65 CATATACT-GGTGGCGAAGTAGATCG
* * * * * * * *
59808419 AAAAAAGTAGATCTTGTCTTCATATA-TAGCCGTGAAGTAGATCAAAGATAGCAAATCTTGTCTT
1 AAGAAAGCAGATCTTGTCTTCATGTACT-GGCGTGAAGTAGATCGAAGAAAGTAGATCTTGTCTT
**
59808483 CCCATACTGGTGGCGAAGTAGATC
65 CATATACTGGTGGCGAAGTAGATC
59808507 TTGTCTTCAT
Statistics
Matches: 302, Mismatches: 45, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
88 71 0.24
89 231 0.76
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (89 bp):
AAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCGAAGAAAGTAGATCTTGTCTTC
ATATACTGGTGGCGAAGTAGATCG
Found at i:59808308 original size:133 final size:133
Alignment explanation
Indices: 59808064--59808895 Score: 901
Period size: 133 Copynumber: 6.4 Consensus size: 133
59808054 GGCAGGTTGA
*
59808064 AAGAAAGTAGATCTTGTCTTCACGTATTAGCGTGAAGTAGATCGAAGAAAGTAGATCTTGTCTTC
1 AAGAAAGTAGATCTTGTCTTCACGTATTGGCGTGAAGTAGATCGAAGAAAGTAGATCTTGTCTTC
* * * *
59808129 CCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTTTTCATGTACTGGCGTGAAGTAGA
66 ACATACTGGTCGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGA
59808194 TCG
131 TCG
* * * * *
59808197 AAGAAAGTAGATCTTGTTTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGTAGATCTTGTCTT
1 AAGAAAGTAGATCTTGTCTTCACGTATTGG-CGTGAAGTAGATCGAAGAAAGTAGATCTTGTCTT
** * * * * *
59808262 CATGTA-TCGG-CGTGAAGTAGATCGAATATAGTAGATCTTATCTTCATGTATTGGCGTGAAGTA
65 CACATACT-GGTCGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTA
*
59808325 GATCA
129 GATCG
* * * * * *
59808330 AAGATAGTAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGTAGATCTTGTCTT
1 AAGAAAGTAGATCTTGTCTTCACGTATTGG-CGTGAAGTAGATCGAAGAAAGTAGATCTTGTCTT
** * * * * * *
59808395 CATGTA-TCGG-CGTGAAGTAGATCGAAAAAAGTAGATCTTGTCTTCATATATAGCCGTGAAGTA
65 CACATACT-GGTCGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTA
*
59808458 GATCA
129 GATCG
* * * * * *
59808463 AAGATAGCAAATCTTGTCTTC-C-CA-T-AC-TG--GT-G---G-CG-AAGTAGATCTTGTCTTC
1 AAGAAAGTAGATCTTGTCTTCACGTATTGGCGTGAAGTAGATCGAAGAAAGTAGATCTTGTCTTC
** * * **
59808515 ATGTA-TCGG-CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTAACGTGAAGTAG
66 ACATACT-GGTCGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAG
59808578 ATCG
130 ATCG
* * * * *
59808582 AAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTC
1 AAGAAAGTAGATCTTGTCTTCACGTATTGGCGTGAAGTAGATCGAAGAAAGTAGATCTTGTCTTC
* * * *
59808647 CCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTATTGGCATGAAGTAGA
66 ACATACTGGTCGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGA
59808712 TCG
131 TCG
* * * * * * *
59808715 AAGATAGTAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATTTTGTCTTC
1 AAGAAAGTAGATCTTGTCTTCACGTATTGGCGTGAAGTAGATCGAAGAAAGTAGATCTTGTCTTC
* *
59808780 CCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGA
66 ACATACTGGTCGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGA
59808845 TCG
131 TCG
* *
59808848 AAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGA
1 AAGAAAGTAGATCTTGTCTTCACGTATTGGCGTGAAGTAGATCGAAGA
59808896 TACAAGTCTT
Statistics
Matches: 611, Mismatches: 71, Indels: 34
0.85 0.10 0.05
Matches are distributed among these distances:
119 95 0.16
120 1 0.00
121 2 0.00
122 1 0.00
123 1 0.00
124 3 0.00
125 2 0.00
126 2 0.00
127 2 0.00
130 1 0.00
131 2 0.00
132 20 0.03
133 442 0.72
134 37 0.06
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (133 bp):
AAGAAAGTAGATCTTGTCTTCACGTATTGGCGTGAAGTAGATCGAAGAAAGTAGATCTTGTCTTC
ACATACTGGTCGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGA
TCG
Found at i:59808524 original size:119 final size:119
Alignment explanation
Indices: 59808379--59808602 Score: 360
Period size: 119 Copynumber: 1.9 Consensus size: 119
59808369 AGATCGAAGA
*
59808379 AAGTAGATCTTGTCTTCATGTATCGGCGTGAAGTAGATCGAAAAAAGTAGATCTTGTCTTCATAT
1 AAGTAGATCTTGTCTTCATGTATCGGCGTGAAGTAGATCGAAAAAAGCAGATCTTGTCTTCATAT
* *
59808444 A-TAGCCGTGAAGTAGATCAAAGATAGCAAATCTTGTCTTCCCATACTGGTGGCG
66 ATTA-ACGTGAAGTAGATCAAAGAAAGCAAATCTTGTCTTCCCATACTGGTGGCG
* * *
59808498 AAGTAGATCTTGTCTTCATGTATCGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGT
1 AAGTAGATCTTGTCTTCATGTATCGGCGTGAAGTAGATCGAAAAAAGCAGATCTTGTCTTCATAT
* *
59808563 ATTAACGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTC
66 ATTAACGTGAAGTAGATCAAAGAAAGCAAATCTTGTCTTC
59808603 ATGTATTGGC
Statistics
Matches: 96, Mismatches: 8, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
119 94 0.98
120 2 0.02
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (119 bp):
AAGTAGATCTTGTCTTCATGTATCGGCGTGAAGTAGATCGAAAAAAGCAGATCTTGTCTTCATAT
ATTAACGTGAAGTAGATCAAAGAAAGCAAATCTTGTCTTCCCATACTGGTGGCG
Found at i:59808534 original size:163 final size:167
Alignment explanation
Indices: 59808161--59808824 Score: 572
Period size: 177 Copynumber: 3.9 Consensus size: 167
59808151 CGAAGAAAGC
* * * * ***
59808161 AGATCTTGTTTTCATGTA-CTGGCGTGAAGTAGATCGAAGAAAGTAGATCTTGTTTTCCCATATT
1 AGATCTTGTCTTCATGTATC-GGCATGAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTATT
* * * * * * * * *
59808225 GGTGGCGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATCGGCGTGAAGTAGATCGAATA
65 GG-CGTGAAGTAGATCGAAAAAAGCAGATCTTGTCTTCATATATAGCCGTGAAGTAGATCAAAGA
* * *** * * *
59808290 TAGTAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCAAAGATA
129 TAGCAGATCTTGTCTTCCCATACT-G-GTG--G-CGA--AGAGATA
* * *
59808336 GTAGATCTTGTCTTCCCATACTGGT-GGC--GAAGTAGATCGAAGAAAGTAGATCTTGTCTTCAT
1 --AGATCTTGTCTT--CAT-GT-ATCGGCATGAAGTAGATCGAAGATAGTAGATCTTGTCTTCAT
* *
59808398 GTATCGGCGTGAAGTAGATCGAAAAAAGTAGATCTTGTCTTCATATATAGCCGTGAAGTAGATCA
60 GTATTGGCGTGAAGTAGATCGAAAAAAGCAGATCTTGTCTTCATATATAGCCGTGAAGTAGATCA
*
59808463 AAGATAGCAAATCTTGTCTTCCCATACTGGTGGCG-A-AG-T-
125 AAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGAGATA
* * *
59808502 AGATCTTGTCTTCATGTATCGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTA
1 AGATCTTGTCTTCATGTATCGGCATGAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTATTG
* * * * *
59808567 ACGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATA
66 GCGTGAAGTAGATCGAAAAAAGCAGATCTTGTCTTCATATATAGCCGTGAAGTAGATCAAAGATA
59808632 GCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAA
131 GCAGATCTTGTCTTCCCATACTGGTGGCGAAG-AGAT--------A
* *
59808678 CAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAGTAAATCTTGTCTTCATGTATT
1 -AGATCTTGTCTTCATGTATCGGCATGAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTATT
* * ** * ** * *
59808743 GGCGTGAAGTAGATC-AAAGATAGCAGATTTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAG
65 GGCGTGAAGTAGATCGAAA-AAAGCAGATCTTGTCTTCATATA-TAGCCGTGAAGTAGATCAAAG
*
59808807 AAAGCAGATCTTGTCTTC
128 ATAGCAGATCTTGTCTTC
59808825 ATGTATTGGC
Statistics
Matches: 408, Mismatches: 55, Indels: 47
0.80 0.11 0.09
Matches are distributed among these distances:
160 1 0.00
161 4 0.01
162 3 0.01
163 123 0.30
164 13 0.03
166 2 0.00
167 2 0.00
168 2 0.00
169 1 0.00
172 1 0.00
173 1 0.00
175 3 0.01
176 3 0.01
177 173 0.42
178 69 0.17
179 3 0.01
180 4 0.01
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (167 bp):
AGATCTTGTCTTCATGTATCGGCATGAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTATTG
GCGTGAAGTAGATCGAAAAAAGCAGATCTTGTCTTCATATATAGCCGTGAAGTAGATCAAAGATA
GCAGATCTTGTCTTCCCATACTGGTGGCGAAGAGATA
Found at i:59808604 original size:296 final size:300
Alignment explanation
Indices: 59808231--59808895 Score: 1005
Period size: 296 Copynumber: 2.2 Consensus size: 300
59808221 TATTGGTGGC
* * * * *
59808231 GAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATCGGCGTGAAGTAGATCGAATATAGTAG
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAGCAG
*
59808296 ATCTTATCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGTAGATCTTGTCTTCCCATACTGGT
66 ATCTTATCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGT
** *
59808361 GGCGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATCGGCGTGAAGTAGATCGAAAAAAG
131 GGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTATCGGCATGAAGTAGATCGAAAAAAG
*
59808426 TAGATCTTGTCTTCATATATAGCCGTGAAGTAGATCAAAGATAGCAAATCTTGTCTTCCCATACT
196 TAAATCTTGTCTTCATATATAGCCGTGAAGTAGATCAAAGATAGCAAATCTTGTCTTCCCATACT
59808491 GGTGGCG-A-AG-T-AGATCTTGTCTTCATGTATCGGCGT
261 GGTGGCGAAGAGATAAGATCTTGTCTTCATGTATCGGCGT
* **
59808527 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTAACGTGAAGTAGATCGAAGAAAGCAG
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAGCAG
*
59808592 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGT
66 ATCTTATCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGT
* * *
59808657 GGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAG
131 GGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTATCGGCATGAAGTAGATCGAAAAAAG
* * * * *
59808722 TAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATTTTGTCTTCCCATACT
196 TAAATCTTGTCTTCATATATAGCCGTGAAGTAGATCAAAGATAGCAAATCTTGTCTTCCCATACT
*
59808787 GGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGT
261 GGTGGCGAAG-AGAT-------A--AGATCTTGTCTTCATGTATCGGCGT
59808837 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGA
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGA
59808896 TACAAGTCTT
Statistics
Matches: 329, Mismatches: 26, Indels: 14
0.89 0.07 0.04
Matches are distributed among these distances:
296 245 0.74
297 1 0.00
299 2 0.01
300 1 0.00
310 80 0.24
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (300 bp):
GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAGCAG
ATCTTATCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGT
GGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTATCGGCATGAAGTAGATCGAAAAAAG
TAAATCTTGTCTTCATATATAGCCGTGAAGTAGATCAAAGATAGCAAATCTTGTCTTCCCATACT
GGTGGCGAAGAGATAAGATCTTGTCTTCATGTATCGGCGT
Found at i:59808869 original size:177 final size:177
Alignment explanation
Indices: 59808502--59808909 Score: 568
Period size: 177 Copynumber: 2.3 Consensus size: 177
59808492 GTGGCGAAGT
* *
59808502 AGATCTTGTCTTCATGTATCGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTA
1 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAAATCTTGTCTTCATGTATTA
* ** * * *
59808567 ACGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATA
66 ACGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCACATACTGGCGCGAAGTAGATCAAAGAAA
* *
59808632 GCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAAC
131 GCAGATCTTGTCTTCACATACTGGTCGCGAAGTAGATCGAAGAAAAC
* * *
59808679 AGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAGTAAATCTTGTCTTCATGTATTG
1 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAAATCTTGTCTTCATGTATTA
* * * * * *
59808744 GCGTGAAGTAGATCAAAGATAGCAGATTTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAA
66 ACGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCACATACTGG-CGCGAAGTAGATCAAAGAA
** * * *
59808809 AGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGAAAGC
130 AGCAGATCTTGTCTTCACATACTGGTCGCGAAGTAGATCGAAGAAAAC
*
59808856 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATA-CAAGTCTTGTCT
1 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAAATCTTGTCT
59808910 CCCTGAAGTT
Statistics
Matches: 203, Mismatches: 27, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
176 10 0.05
177 157 0.77
178 36 0.18
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (177 bp):
AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAAATCTTGTCTTCATGTATTA
ACGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCACATACTGGCGCGAAGTAGATCAAAGAAA
GCAGATCTTGTCTTCACATACTGGTCGCGAAGTAGATCGAAGAAAAC
Found at i:59810399 original size:13 final size:13
Alignment explanation
Indices: 59810374--59810435 Score: 70
Period size: 13 Copynumber: 4.5 Consensus size: 13
59810364 TTACTATTTA
59810374 ATTATTTATTATT
1 ATTATTTATTATT
59810387 ATTATATTATATTATT
1 A-T-TATT-TATTATT
* *
59810403 ACTTGTTTATCATT
1 A-TTATTTATTATT
59810417 ATTATTTATTATT
1 ATTATTTATTATT
59810430 ATTATT
1 ATTATT
59810436 AATATTGAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
13 17 0.41
14 8 0.20
15 7 0.17
16 9 0.22
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.65
Consensus pattern (13 bp):
ATTATTTATTATT
Found at i:59810453 original size:3 final size:3
Alignment explanation
Indices: 59810374--59810441 Score: 59
Period size: 3 Copynumber: 22.0 Consensus size: 3
59810364 TTACTATTTA
* *
59810374 ATT ATTT ATT ATT ATT A-T ATT A-T ATT ATT ACTT GTTT ATC ATT ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT A-TT -ATT ATT ATT ATT
*
59810420 ATTT ATT ATT ATT ATT AAT ATT
1 A-TT ATT ATT ATT ATT ATT ATT
59810442 GAAATTATTA
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
2 4 0.08
3 39 0.74
4 10 0.19
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:59813670 original size:114 final size:114
Alignment explanation
Indices: 59813337--59813671 Score: 471
Period size: 114 Copynumber: 3.0 Consensus size: 114
59813327 CAGGGGAACC
* * *
59813337 AAGTTCAATGATAATTCGACATTTTACATGTTAATAAAAACAAGTTAG-GCCAGCAAAGCAGCAA
1 AAGTTGAATGATGATTCCACATTTTACATGTTAATAAAAACAAGTTAGAG-CAGCAAAGCAGCAA
* ** *
59813401 TAATTTTACATGT--AAGAAATATTTGGTTCATAGTTAGAATATGCGGGC
65 TATTTTTACATGTAAAAGAAATATTTGGTTCATAGTTAGAATATGCAAGA
*
59813449 AAGTTGAATGATGATTCCACATTTTACATGTTACTAAAAACAAGTTAGAGCAGCAAAGCAGCAAT
1 AAGTTGAATGATGATTCCACATTTTACATGTTAATAAAAACAAGTTAGAGCAGCAAAGCAGCAAT
* *
59813514 ATTTTTACATGTAAAAGAAATATTTGGTTTATAATTAGAATATGCAAGA
66 ATTTTTACATGTAAAAGAAATATTTGGTTCATAGTTAGAATATGCAAGA
* * * * *
59813563 AAGTTGAATGATGATTCCACATTTTTCGTGTTAATAGAAACAAATTAGAGCAGCAAAGCAACAAT
1 AAGTTGAATGATGATTCCACATTTTACATGTTAATAAAAACAAGTTAGAGCAGCAAAGCAGCAAT
* *
59813628 ATTTTTACATATAAAAGAAACATTTGGTTCATAGTT-GAAATATG
66 ATTTTTACATGTAAAAGAAATATTTGGTTCATAGTTAG-AATATG
59813672 AGCACACCAG
Statistics
Matches: 199, Mismatches: 20, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
112 70 0.35
113 2 0.01
114 127 0.64
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.31
Consensus pattern (114 bp):
AAGTTGAATGATGATTCCACATTTTACATGTTAATAAAAACAAGTTAGAGCAGCAAAGCAGCAAT
ATTTTTACATGTAAAAGAAATATTTGGTTCATAGTTAGAATATGCAAGA
Found at i:59814139 original size:108 final size:109
Alignment explanation
Indices: 59814037--59814658 Score: 780
Period size: 108 Copynumber: 5.8 Consensus size: 109
59814027 AAAAAATTTT
*
59814037 TTTTGGGTGCTGGCCTGTCAATGGCCAGCACCCAGTAAACAGT-AAATTTTTTTTC-TTTTTTTT
1 TTTTGGGTGCTGGCCTGTCAATGGCCAGCACCCAGTACACAGTAAAATTTTTTTTCTTTTTTTTT
* * *
59814100 -GTGTCAGAATCAGATATAAATATACTAAAAAAATAAAAAAATAATAA
66 CGTGTCAGAATCAGATATAAAAATACGAGAAAAAT--AAAAA-AAT-A
** * *
59814147 TTTTTTGGGTGCTTCCCTGTCAATGGCCGGCACCCAGTACATAGTAAAATTTTTTTTCTTTTTTT
1 --TTTTGGGTGCTGGCCTGTCAATGGCCAGCACCCAGTACACAGTAAAATTTTTTTTCTTTTTTT
* * * *
59814212 TT-TTGTCAGAATCAGATATAAATATAC--GAAAAA-AAAATAATT
64 TTCGTGTCAGAATCAGATATAAAAATACGAGAAAAATAAAAAAATA
**
59814254 TTTTGGGTGCTGGCCTGTCAATGGCTGGCACCCAGTACACAGTAAAATTTTTTTTCTTTTTTTTT
1 TTTTGGGTGCTGGCCTGTCAATGGCCAGCACCCAGTACACAGTAAAATTTTTTTTCTTTTTTTTT
*
59814319 CGTGTCAGAATCAGATATAAAAATACGAGAAAAATAAAAAAAAA
66 CGTGTCAGAATCAGATATAAAAATACGAGAAAAATAAAAAAATA
* *
59814363 ATTTGGGTGCTGGCCTGTCAATGGCCAACACCCAGTACACAGTAAAA-TTTTTTTCTTTTTTTTT
1 TTTTGGGTGCTGGCCTGTCAATGGCCAGCACCCAGTACACAGTAAAATTTTTTTTCTTTTTTTTT
*
59814427 CGTGTCAGAATCAAATATAAAAATACGAGAAAAATAAAAAAA-A
66 CGTGTCAGAATCAGATATAAAAATACGAGAAAAATAAAAAAATA
*
59814470 TTTTGGGTGCTAGCCTGTCAATGGCCAGCACCCAGTACACAGT-AAA----------TTTTTTTT
1 TTTTGGGTGCTGGCCTGTCAATGGCCAGCACCCAGTACACAGTAAAATTTTTTTTCTTTTTTTTT
* * *
59814524 CGTGTCAAAATCATATATAAAAATACGAGAAAAATAAAAAAAAAA
66 CGTGTCAGAATCAGATATAAAAATACGAGAAAAAT-AAAAAAATA
* **
59814569 TTTCGGGTGCTGGCCTGTCAATGGCTGGCACCCAGTACACAGTAAAAATGTTTTTTTTCTTTTTT
1 TTTTGGGTGCTGGCCTGTCAATGGCCAGCACCCAGTACACAGT-AAAA--TTTTTTTTC-TTTTT
59814634 TTTTCGTGTCAGAATCAGATATAAA
62 TTTTCGTGTCAGAATCAGATATAAA
59814659 TTTTTTTTTC
Statistics
Matches: 453, Mismatches: 34, Indels: 44
0.85 0.06 0.08
Matches are distributed among these distances:
97 41 0.09
98 7 0.02
99 40 0.09
101 3 0.01
105 61 0.13
106 26 0.06
107 41 0.09
108 67 0.15
109 53 0.12
112 43 0.09
113 12 0.03
114 59 0.13
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (109 bp):
TTTTGGGTGCTGGCCTGTCAATGGCCAGCACCCAGTACACAGTAAAATTTTTTTTCTTTTTTTTT
CGTGTCAGAATCAGATATAAAAATACGAGAAAAATAAAAAAATA
Found at i:59814593 original size:99 final size:99
Alignment explanation
Indices: 59814310--59814614 Score: 434
Period size: 107 Copynumber: 3.0 Consensus size: 99
59814300 ATTTTTTTTC
*
59814310 TTTTTTTTTCGTGTCAGAATCAGATATAAAAATACGAGAAAAATAAAAAAAAAATTTGGGTGCTG
1 TTTTTTTTTCGTGTCAGAATCAAATATAAAAATACGAGAAAAATAAAAAAAAAATTTGGGTGCTG
*
59814375 GCCTGTCAATGGCCAACACCCAGTACACAGTAAAA
66 GCCTGTCAATGGCCAGCACCCAGTACACAGT-AAA
*
59814410 TTTTTTTCTTTTTTTTTCGTGTCAGAATCAAATATAAAAATACGAGAAAAAT-AAAAAAAATTTT
1 --------TTTTTTTTTCGTGTCAGAATCAAATATAAAAATACGAGAAAAATAAAAAAAAAATTT
*
59814474 GGGTGCTAGCCTGTCAATGGCCAGCACCCAGTACACAGTAAA
58 GGGTGCTGGCCTGTCAATGGCCAGCACCCAGTACACAGTAAA
* *
59814516 -TTTTTTTTCGTGTCAAAATCATATATAAAAATACGAGAAAAATAAAAAAAAAATTTCGGGTGCT
1 TTTTTTTTTCGTGTCAGAATCAAATATAAAAATACGAGAAAAATAAAAAAAAAATTT-GGGTGCT
**
59814580 GGCCTGTCAATGGCTGGCACCCAGTACACAGTAAA
65 GGCCTGTCAATGGCCAGCACCCAGTACACAGTAAA
59814615 AATGTTTTTT
Statistics
Matches: 185, Mismatches: 10, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
97 41 0.22
98 11 0.06
99 39 0.21
106 3 0.02
107 48 0.26
108 43 0.23
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (99 bp):
TTTTTTTTTCGTGTCAGAATCAAATATAAAAATACGAGAAAAATAAAAAAAAAATTTGGGTGCTG
GCCTGTCAATGGCCAGCACCCAGTACACAGTAAA
Found at i:59814693 original size:30 final size:30
Alignment explanation
Indices: 59814628--59814693 Score: 100
Period size: 30 Copynumber: 2.3 Consensus size: 30
59814618 GTTTTTTTTC
59814628 TTTTTTTTTTCGTGTCAGAATCAGATATAA
1 TTTTTTTTTTCGTGTCAGAATCAGATATAA
* *
59814658 ATTTTTTTTTCGTGTCAGAATCAGGTAT--
1 TTTTTTTTTTCGTGTCAGAATCAGATATAA
59814686 TTTTTTTT
1 TTTTTTTT
59814694 CATATTTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
28 7 0.21
30 26 0.79
ACGTcount: A:0.21, C:0.09, G:0.14, T:0.56
Consensus pattern (30 bp):
TTTTTTTTTTCGTGTCAGAATCAGATATAA
Found at i:59820817 original size:114 final size:111
Alignment explanation
Indices: 59820603--59820828 Score: 382
Period size: 114 Copynumber: 2.0 Consensus size: 111
59820593 AGCCATGGAA
59820603 TTTTGAGTTTTAGCAAACTTATTTTACTCATTTAGGTAAGTATTCTTGTCCCATTTTTATGATTT
1 TTTTGAGTTTTAGCAAACTTATTTTACTCATTTAGGTAAGTATTCTTGTCCCATTTTTATGATTT
*
59820668 CTATGTTTCCGAGATCGTAATAGCTTAATCTAGCTAGCTCGGGGAT
66 CTATGTTTCCGAGATCGTAATAGCTTAATCAAGCTAGCTCGGGGAT
*
59820714 TTTTGAGTTTTAGCAAACTTATTTTACTCATTTAGGTCA-TATTCTTGTCCCATTTTTTTTTATG
1 TTTTGAGTTTTAGCAAACTTATTTTACTCATTTAGGTAAGTATTCTTGTCCCA----TTTTTATG
*
59820778 ATTTTTATGTTTCCGAGATCGTAATAGCTTAATCAAGCTAGCTCGGGGAT
62 ATTTCTATGTTTCCGAGATCGTAATAGCTTAATCAAGCTAGCTCGGGGAT
59820828 T
1 T
59820829 AATTTACCAA
Statistics
Matches: 108, Mismatches: 3, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
110 13 0.12
111 38 0.35
114 57 0.53
ACGTcount: A:0.23, C:0.15, G:0.16, T:0.46
Consensus pattern (111 bp):
TTTTGAGTTTTAGCAAACTTATTTTACTCATTTAGGTAAGTATTCTTGTCCCATTTTTATGATTT
CTATGTTTCCGAGATCGTAATAGCTTAATCAAGCTAGCTCGGGGAT
Found at i:59821567 original size:25 final size:25
Alignment explanation
Indices: 59821539--59821604 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
59821529 TCTGATATAC
* *
59821539 AGCTCTCATGAGCTTCCCATTATTT
1 AGCTCACATGAGCTTCCCATTACTT
* * * *
59821564 AGCTCGCTTAAGCTTCCCGTTACTT
1 AGCTCACATGAGCTTCCCATTACTT
59821589 AGCTCACATGAGCTTC
1 AGCTCACATGAGCTTC
59821605 TTTTTATTCA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.20, C:0.30, G:0.15, T:0.35
Consensus pattern (25 bp):
AGCTCACATGAGCTTCCCATTACTT
Found at i:59825280 original size:46 final size:46
Alignment explanation
Indices: 59825169--59825441 Score: 412
Period size: 46 Copynumber: 6.0 Consensus size: 46
59825159 ACATTGCTAT
* * *
59825169 AACTCAGTATGGTTTTTCTTCACGGAAATATCATACCTA-TTTT---
1 AACTCAGTATGG-TTTTCTTTACCGAAATACCATACCTACTTTTCAC
* * *
59825212 -TCTCAGTATGGTTTTCTTTACCGAAATACAATACCTACTTTTCAT
1 AACTCAGTATGGTTTTCTTTACCGAAATACCATACCTACTTTTCAC
59825257 AACTCAGTATGGTTTTCTTTACCGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTTACCGAAATACCATACCTACTTTTCAC
59825303 AACTCAGTATGGTTTTCTTTACCGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTTACCGAAATACCATACCTACTTTTCAC
*
59825349 AACTCAGTATGGTTTTCTTTACCGAAATACCATAGCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTTACCGAAATACCATACCTACTTTTCAC
* * *
59825395 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACGTTTCAC
1 AACTCAGTATGGTTTTCTTTACCGAAATACCATACCTACTTTTCAC
59825441 A
1 A
59825442 CTTTGCCATG
Statistics
Matches: 212, Mismatches: 13, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
41 22 0.10
42 14 0.07
46 176 0.83
ACGTcount: A:0.28, C:0.24, G:0.10, T:0.38
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTTACCGAAATACCATACCTACTTTTCAC
Found at i:59830795 original size:25 final size:25
Alignment explanation
Indices: 59830767--59830817 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
59830757 ATGTTGGTAG
59830767 TGCCAAACACTTTGGCTCAACCAAA
1 TGCCAAACACTTTGGCTCAACCAAA
*
59830792 TGCCAAACACTTTGGCTCCACCAAA
1 TGCCAAACACTTTGGCTCAACCAAA
59830817 T
1 T
59830818 TTTATTGTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.33, C:0.33, G:0.12, T:0.22
Consensus pattern (25 bp):
TGCCAAACACTTTGGCTCAACCAAA
Found at i:59834418 original size:18 final size:17
Alignment explanation
Indices: 59834371--59834418 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
59834361 TGTCGTTCGT
*
59834371 TTTCAAAACATTATTCA
1 TTTCAAAACGTTATTCA
* *
59834388 TTTACATATCGTTATTCAA
1 TTT-CAAAACGTTATTC-A
59834407 TTTCAAAACGTT
1 TTTCAAAACGTT
59834419 TATTTTTATT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
17 3 0.12
18 17 0.71
19 4 0.17
ACGTcount: A:0.35, C:0.17, G:0.04, T:0.44
Consensus pattern (17 bp):
TTTCAAAACGTTATTCA
Found at i:59837473 original size:39 final size:39
Alignment explanation
Indices: 59837413--59837559 Score: 186
Period size: 39 Copynumber: 3.8 Consensus size: 39
59837403 ACTTCCAATA
* * **
59837413 CACCGGCACACAGCCTGCTAGGCACAAAGCCCGAATAAT
1 CACCGGCACAAAGCCTACTAGGCACTTAGCCCGAATAAT
* *
59837452 GACCGGCACAAAGCCTACTAGGAACTTAGCCCGAATAAT
1 CACCGGCACAAAGCCTACTAGGCACTTAGCCCGAATAAT
* * * *
59837491 TACCGGCACAAATCCTGCTAGGCACTTAGCCTGAATAAT
1 CACCGGCACAAAGCCTACTAGGCACTTAGCCCGAATAAT
* *
59837530 CATCGGCACAAAGCCTACTGGGCACTTAGC
1 CACCGGCACAAAGCCTACTAGGCACTTAGC
59837560 TTGAATTTAG
Statistics
Matches: 92, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 92 1.00
ACGTcount: A:0.32, C:0.31, G:0.20, T:0.16
Consensus pattern (39 bp):
CACCGGCACAAAGCCTACTAGGCACTTAGCCCGAATAAT
Found at i:59837543 original size:78 final size:78
Alignment explanation
Indices: 59837414--59837559 Score: 211
Period size: 78 Copynumber: 1.9 Consensus size: 78
59837404 CTTCCAATAC
* *
59837414 ACCGGCACACAGCCTGCTAGGCACAAAGCCCGAATAATGACCGGCACAAAGCCTACTAGGAACTT
1 ACCGGCACAAAGCCTGCTAGGCACAAAGCCCGAATAATCACCGGCACAAAGCCTACTAGGAACTT
59837479 AGCCCGAATAATT
66 AGCCCGAATAATT
* ** * * * *
59837492 ACCGGCACAAATCCTGCTAGGCACTTAGCCTGAATAATCATCGGCACAAAGCCTACTGGGCACTT
1 ACCGGCACAAAGCCTGCTAGGCACAAAGCCCGAATAATCACCGGCACAAAGCCTACTAGGAACTT
59837557 AGC
66 AGC
59837560 TTGAATTTAG
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
78 59 1.00
ACGTcount: A:0.32, C:0.31, G:0.21, T:0.16
Consensus pattern (78 bp):
ACCGGCACAAAGCCTGCTAGGCACAAAGCCCGAATAATCACCGGCACAAAGCCTACTAGGAACTT
AGCCCGAATAATT
Found at i:59837982 original size:17 final size:18
Alignment explanation
Indices: 59837952--59837993 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
59837942 TCGAAATTCA
*
59837952 TCAAATTAACTAATTT-TC
1 TCAAA-TAAATAATTTATC
59837970 TCAAATAAATAATTTATC
1 TCAAATAAATAATTTATC
59837988 -CAAATA
1 TCAAATA
59837994 TTCTAAGCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (18 bp):
TCAAATAAATAATTTATC
Found at i:59841394 original size:20 final size:20
Alignment explanation
Indices: 59841371--59841410 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
59841361 CTATTCAAAC
*
59841371 AATATTA-ATTGAATAGTTAT
1 AATATTAGA-TGAATAATTAT
59841391 AATATTAGATGAATAATTAT
1 AATATTAGATGAATAATTAT
59841411 GTCTCTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.42
Consensus pattern (20 bp):
AATATTAGATGAATAATTAT
Found at i:59841479 original size:13 final size:15
Alignment explanation
Indices: 59841447--59841481 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
59841437 GAAAAGACAC
59841447 CTATAAAAAATGTCT
1 CTATAAAAAATGTCT
59841462 CTATAAAAAAT-TCT
1 CTATAAAAAATGTCT
59841476 -TATAAA
1 CTATAAA
59841482 TAGTAATGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 6 0.30
14 3 0.15
15 11 0.55
ACGTcount: A:0.51, C:0.11, G:0.03, T:0.34
Consensus pattern (15 bp):
CTATAAAAAATGTCT
Found at i:59844068 original size:30 final size:30
Alignment explanation
Indices: 59844034--59844094 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
59844024 ATGTCAAAGC
* *
59844034 ACATGAGTTGCATATACATGGTCAGTGACT
1 ACATGAGTTGCATACACATGATCAGTGACT
*
59844064 ACATGAGTTGCATACGCATGATCAGTGACT
1 ACATGAGTTGCATACACATGATCAGTGACT
59844094 A
1 A
59844095 AATCATGTTA
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:0.18, G:0.23, T:0.28
Consensus pattern (30 bp):
ACATGAGTTGCATACACATGATCAGTGACT
Found at i:59853376 original size:19 final size:20
Alignment explanation
Indices: 59853340--59853377 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
59853330 AGATGACATA
59853340 TAAATATTTAATTAATATTT
1 TAAATATTTAATTAATATTT
*
59853360 TAAATTTTTAA-TAATATT
1 TAAATATTTAATTAATATT
59853378 AAAAAATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TAAATATTTAATTAATATTT
Found at i:59854023 original size:41 final size:41
Alignment explanation
Indices: 59853963--59854056 Score: 125
Period size: 41 Copynumber: 2.2 Consensus size: 41
59853953 CCGAATATAA
*
59853963 TAAATATATTTTTTATTTTTATTTTTTAAATTTAAAATACTTT
1 TAAA-ATA-TTTTTATTTTTATTTTTTAAATTTAAAATAATTT
**
59854006 TAAAATATTTTTATTTTTATTTTTTATTTTTAAAATAATTT
1 TAAAATATTTTTATTTTTATTTTTTAAATTTAAAATAATTT
**
59854047 TTTAATATTT
1 TAAAATATTT
59854057 ATTAAAAAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
41 39 0.85
42 3 0.07
43 4 0.09
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (41 bp):
TAAAATATTTTTATTTTTATTTTTTAAATTTAAAATAATTT
Found at i:59854031 original size:13 final size:13
Alignment explanation
Indices: 59854013--59854037 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59854003 TTTTAAAATA
59854013 TTTTTATTTTTAT
1 TTTTTATTTTTAT
59854026 TTTTTATTTTTA
1 TTTTTATTTTTA
59854038 AAATAATTTT
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTATTTTTAT
Found at i:59854159 original size:16 final size:16
Alignment explanation
Indices: 59854138--59854174 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
59854128 CCTAGTAGTT
59854138 GGCCCGAACCCGGCCC
1 GGCCCGAACCCGGCCC
*
59854154 GGCCCGAACCCGGCCT
1 GGCCCGAACCCGGCCC
59854170 GGCCC
1 GGCCC
59854175 ATGGACAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.11, C:0.54, G:0.32, T:0.03
Consensus pattern (16 bp):
GGCCCGAACCCGGCCC
Found at i:59858302 original size:25 final size:25
Alignment explanation
Indices: 59858274--59858323 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
59858264 AAAGAAAACT
59858274 AAGATATTATAAAATTGAAAAATGA
1 AAGATATTATAAAATTGAAAAATGA
59858299 AAGATATTATAAAATTGAAAAATGA
1 AAGATATTATAAAATTGAAAAATGA
59858324 GTATGCGTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.60, C:0.00, G:0.12, T:0.28
Consensus pattern (25 bp):
AAGATATTATAAAATTGAAAAATGA
Found at i:59871133 original size:42 final size:42
Alignment explanation
Indices: 59871042--59871153 Score: 165
Period size: 42 Copynumber: 2.7 Consensus size: 42
59871032 CGAAAAGGGC
59871042 GACTCAAATATTGATTAGAATGGGGCATGAGGTGATCTGAGT
1 GACTCAAATATTGATTAGAATGGGGCATGAGGTGATCTGAGT
*
59871084 GACTCAAATATTGATCAGAATGGGGCATGAGGTGATCTGAGT
1 GACTCAAATATTGATTAGAATGGGGCATGAGGTGATCTGAGT
* *
59871126 -AGTTCAAAT-TTGGATTAGATTGGGGCAT
1 GA-CTCAAATATT-GATTAGAATGGGGCAT
59871154 ATGACAAGAT
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
41 3 0.05
42 61 0.95
ACGTcount: A:0.30, C:0.10, G:0.30, T:0.29
Consensus pattern (42 bp):
GACTCAAATATTGATTAGAATGGGGCATGAGGTGATCTGAGT
Found at i:59871758 original size:43 final size:45
Alignment explanation
Indices: 59871710--59872021 Score: 176
Period size: 43 Copynumber: 7.0 Consensus size: 45
59871700 CTCTCTGAGC
59871710 AGCAGTGGAGTAGGTTGAAATAAATACAGATCTTATCTCCCTAAG
1 AGCAGTGGAGTAGGTTGAAATAAATACAGATCTTATCTCCCTAAG
* * ** * * **
59871755 CAGTAGTGGAGCAAATTG--A-AGA-CCCCATCCTTATCTCCCTAAG
1 -AGCAGTGGAGTAGGTTGAAATAAATACAGAT-CTTATCTCCCTAAG
59871798 TAGCAGTGGAGTAGGTTGAAATAAATACAGATCTTATCTCCCTAAG
1 -AGCAGTGGAGTAGGTTGAAATAAATACAGATCTTATCTCCCTAAG
* * * * *** * * * * *
59871844 TAGTAGTGGAGCAGATTG-AA-GACCCCAG-CCTTGTCTTCATGAG
1 -AGCAGTGGAGTAGGTTGAAATAAATACAGATCTTATCTCCCTAAG
*
59871887 CAGTAGTGGAGTAGGTTGAAATAAATACAGATCTTATCTCCCTAAG
1 -AGCAGTGGAGTAGGTTGAAATAAATACAGATCTTATCTCCCTAAG
* * * * *** * * *
59871933 CAGTAGTGGAGCAGG-TCAAA-GACCCCAG-CCTTGTCTCCCTGAG
1 -AGCAGTGGAGTAGGTTGAAATAAATACAGATCTTATCTCCCTAAG
* * *
59871976 CAGTAGTGGAGTAGGTTGAAAAAAAATACAGATCTTATCTCTCTAA
1 -AGCAGTGGAGTAGGTTG-AAATAAATACAGATCTTATCTCCCTAA
59872022 ACAGTAGTGG
Statistics
Matches: 194, Mismatches: 60, Indels: 23
0.70 0.22 0.08
Matches are distributed among these distances:
42 3 0.02
43 80 0.41
44 12 0.06
45 14 0.07
46 72 0.37
47 13 0.07
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.26
Consensus pattern (45 bp):
AGCAGTGGAGTAGGTTGAAATAAATACAGATCTTATCTCCCTAAG
Found at i:59871862 original size:89 final size:89
Alignment explanation
Indices: 59871692--59872346 Score: 945
Period size: 89 Copynumber: 7.3 Consensus size: 89
59871682 GAAACCACAA
*
59871692 AGCCTTGTCTCTCTGAGCAGCAGTGGAGTAGGTTGAAATAAATACAGATCTTATCTCCCTAAGCA
1 AGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAATAAATACAGATCTTATCTCCCTAAGCA
* *
59871757 GTAGTGGAGCAAATTGAAGACCCC
66 GTAGTGGAGCAGATCGAAGACCCC
* * * * *
59871781 ATCCTTATCTCCCTAAGTAGCAGTGGAGTAGGTTGAAATAAATACAGATCTTATCTCCCTAAGTA
1 AGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAATAAATACAGATCTTATCTCCCTAAGCA
*
59871846 GTAGTGGAGCAGATTGAAGACCCC
66 GTAGTGGAGCAGATCGAAGACCCC
* * *
59871870 AGCCTTGTCTTCATGAGCAGTAGTGGAGTAGGTTGAAATAAATACAGATCTTATCTCCCTAAGCA
1 AGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAATAAATACAGATCTTATCTCCCTAAGCA
* *
59871935 GTAGTGGAGCAGGTCAAAGACCCC
66 GTAGTGGAGCAGATCGAAGACCCC
* * * *
59871959 AGCCTTGTCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAAAAAATACAGATCTTATCTCTCTAAAC
1 AGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTG-AAATAAATACAGATCTTATCTCCCTAAGC
*
59872024 AGTAGTGGAGCAGATTGAAGACCCC
65 AGTAGTGGAGCAGATCGAAGACCCC
* * *
59872049 AGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAAAATATATATAGATCTTATCTCCTTA
1 AGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTG----AAATAAATACAGATCTTATCTCCCTA
*
59872114 AGCAGTAGTGGAGCAGATCGAAGACCCT
62 AGCAGTAGTGGAGCAGATCGAAGACCCC
* * *
59872142 AGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAAAAATACAGATATTATCTCCCTAAGA
1 AGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTG-AAATAAATACAGATCTTATCTCCCTAAGC
59872207 AGTAGTGGAGCAGATCGAAGACCCC
65 AGTAGTGGAGCAGATCGAAGACCCC
* * * * *
59872232 AGCCTTCTCTCCCTCAGCAACAATGGA-TGAGGTTGAAA-AATTACAGATCTTATCTCCCTAAGC
1 AGCCTTGTCTCCCTGAGCAGCAGTGGAGT-AGGTTGAAATAAATACAGATCTTATCTCCCTAAGC
59872295 AGTAGTGGAGCAGATCGAAGACCCC
65 AGTAGTGGAGCAGATCGAAGACCCC
*
59872320 AGCCTTGCCTCCCTGAGCAGCAGTGGA
1 AGCCTTGTCTCCCTGAGCAGCAGTGGA
59872347 CGGAGCGGAT
Statistics
Matches: 507, Mismatches: 54, Indels: 11
0.89 0.09 0.02
Matches are distributed among these distances:
88 69 0.14
89 197 0.39
90 159 0.31
93 82 0.16
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (89 bp):
AGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAATAAATACAGATCTTATCTCCCTAAGCA
GTAGTGGAGCAGATCGAAGACCCC
Found at i:59872442 original size:41 final size:41
Alignment explanation
Indices: 59872365--59872442 Score: 93
Period size: 41 Copynumber: 1.9 Consensus size: 41
59872355 ATTAAAATAA
* * * *
59872365 CAGATCTTATCTCTCTGAACTTACAGTAGAGGAGATCATAT
1 CAGATCTTATCTCCCTAAACTTACAGCAGAGCAGATCATAT
* * *
59872406 CAGATCTTATCTCCCTAAAGTTGCAGCGGAGCAGATC
1 CAGATCTTATCTCCCTAAACTTACAGCAGAGCAGATC
59872443 GAAGAAGCAA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 30 1.00
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.28
Consensus pattern (41 bp):
CAGATCTTATCTCCCTAAACTTACAGCAGAGCAGATCATAT
Found at i:59876520 original size:62 final size:62
Alignment explanation
Indices: 59876440--59876591 Score: 159
Period size: 62 Copynumber: 2.5 Consensus size: 62
59876430 GGTTATGTAT
* * * * *
59876440 ATATGTGTTTTAAATTCTATAAGTT-AAA-AAAATGTATGAATTGTATATATATGTCTTAGCC-A
1 ATATATGTTTTGAGTTCTATAAGTTGAAACAAAATGTAT-AAAT-TATATATATAT-TTAGCCAA
* * *
59876502 ATGTATGTTTTGAGTTCTATAAATTGAAACAAATTGTATAAATTATATATATATTTAGCCAA
1 ATATATGTTTTGAGTTCTATAAGTTGAAACAAAATGTATAAATTATATATATATTTAGCCAA
*
59876564 ATATATGTGTTGAGATTC-ATAAGTTGAA
1 ATATATGTTTTGAG-TTCTATAAGTTGAA
59876592 TGTAATTATA
Statistics
Matches: 75, Mismatches: 11, Indels: 8
0.80 0.12 0.09
Matches are distributed among these distances:
61 6 0.08
62 52 0.69
63 9 0.12
64 8 0.11
ACGTcount: A:0.39, C:0.06, G:0.14, T:0.41
Consensus pattern (62 bp):
ATATATGTTTTGAGTTCTATAAGTTGAAACAAAATGTATAAATTATATATATATTTAGCCAA
Found at i:59876608 original size:62 final size:62
Alignment explanation
Indices: 59876474--59876615 Score: 153
Period size: 62 Copynumber: 2.3 Consensus size: 62
59876464 TAAAAAAATG
* * * *
59876474 TATGAATTGTATATATATGTCTTAGCCAATGTATGTTTTGAGTTCTATAAATTGAAACAAATTG
1 TATGAA-T-TATATATATATCTTAGCCAATATATGTGTTGAGTTCTATAAATTGAAACAAATTA
* * ***
59876538 TATAAATTATATATATAT-TTAGCCAAATATATGTGTTGAGATTC-ATAAGTTGAATGTAATTA
1 TATGAATTATATATATATCTTAGCC-AATATATGTGTTGAG-TTCTATAAATTGAAACAAATTA
59876600 TATGAATTATATATAT
1 TATGAATTATATATAT
59876616 GTTAGTCGAA
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
61 6 0.09
62 51 0.77
63 4 0.06
64 5 0.08
ACGTcount: A:0.38, C:0.06, G:0.13, T:0.43
Consensus pattern (62 bp):
TATGAATTATATATATATCTTAGCCAATATATGTGTTGAGTTCTATAAATTGAAACAAATTA
Found at i:59884595 original size:62 final size:62
Alignment explanation
Indices: 59884490--59884633 Score: 159
Period size: 62 Copynumber: 2.3 Consensus size: 62
59884480 AAAATGTATG
* * * *
59884490 AATTGTATATA-TATATATATCTATTAGCCAATGTATGTTTTGAG-TTCTATAAATTGAAACA
1 AATTGTATAAATTATATATATATATTAGCCAATATATGTGTTGAGATTC-ATAAATTGAAACA
* ***
59884551 AATTGTATAAATTATATATATAT-TTAGCCAAATATATGTGTTGAGATTCATAAGTTGAATGT
1 AATTGTATAAATTATATATATATATTAGCC-AATATATGTGTTGAGATTCATAAATTGAAACA
* *
59884613 AATTATATGAATTATATATAT
1 AATTGTATAAATTATATATAT
59884634 GTTAGTCGAA
Statistics
Matches: 70, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
61 16 0.23
62 51 0.73
63 3 0.04
ACGTcount: A:0.40, C:0.06, G:0.12, T:0.43
Consensus pattern (62 bp):
AATTGTATAAATTATATATATATATTAGCCAATATATGTGTTGAGATTCATAAATTGAAACA
Found at i:59886783 original size:15 final size:14
Alignment explanation
Indices: 59886745--59886783 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
59886735 GAAACCCTAC
59886745 TTTTCCTTTTTCTT
1 TTTTCCTTTTTCTT
*
59886759 TTCTTTCTTTTTCCTT
1 TT-TTCCTTTTT-CTT
59886775 TTTTCCTTT
1 TTTTCCTTT
59886784 CTCTATTCGT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
14 2 0.10
15 14 0.67
16 5 0.24
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTCCTTTTTCTT
Found at i:59890375 original size:3 final size:3
Alignment explanation
Indices: 59890367--59890404 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
59890357 AATATATAGG
59890367 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
59890405 AATTTAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:59898212 original size:25 final size:24
Alignment explanation
Indices: 59898179--59898225 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
59898169 TGGGAGGATT
*
59898179 TTATTTTATTTAATATTAATATCA
1 TTATTTTATTCAATATTAATATCA
59898203 TTATATTTATTCAATATTAATAT
1 TTAT-TTTATTCAATATTAATAT
59898226 GAAATTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.57
Consensus pattern (24 bp):
TTATTTTATTCAATATTAATATCA
Found at i:59905863 original size:18 final size:18
Alignment explanation
Indices: 59905840--59905892 Score: 70
Period size: 19 Copynumber: 2.9 Consensus size: 18
59905830 AATATATATG
*
59905840 AAAATCTCTGAAGGATTT
1 AAAATCCCTGAAGGATTT
**
59905858 AAAATCCCAAAATGGATTT
1 AAAATCCCTGAA-GGATTT
59905877 AAAATCCCTGAAGGAT
1 AAAATCCCTGAAGGAT
59905893 ATAGAGTTTC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
18 13 0.45
19 16 0.55
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.26
Consensus pattern (18 bp):
AAAATCCCTGAAGGATTT
Found at i:59907891 original size:12 final size:12
Alignment explanation
Indices: 59907861--59907893 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
59907851 CTCTCAATAA
*
59907861 AAATTACAAAAT
1 AAATTTCAAAAT
59907873 AAA-TTCAAAAT
1 AAATTTCAAAAT
59907884 AAATTTCAAA
1 AAATTTCAAA
59907894 TTTCAAAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.27
Consensus pattern (12 bp):
AAATTTCAAAAT
Found at i:59908575 original size:15 final size:14
Alignment explanation
Indices: 59908537--59908575 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
59908527 ATTTCATCTG
59908537 TGTATATTATTTCT
1 TGTATATTATTTCT
*
59908551 TGTAACATTATTTCTT
1 TGT-ATATTATTTC-T
59908567 TGTATATTA
1 TGTATATTA
59908576 AATCACATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
14 3 0.14
15 14 0.67
16 4 0.19
ACGTcount: A:0.26, C:0.08, G:0.08, T:0.59
Consensus pattern (14 bp):
TGTATATTATTTCT
Found at i:59910819 original size:11 final size:11
Alignment explanation
Indices: 59910800--59910841 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
59910790 CCGGAGTAGG
*
59910800 TTCATAAAAAA
1 TTCAAAAAAAA
59910811 TTCAAAAAAAA
1 TTCAAAAAAAA
* *
59910822 -TCGAAAAAAT
1 TTCAAAAAAAA
59910832 TTCAAAAAAA
1 TTCAAAAAAA
59910842 TCGAAAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
10 8 0.31
11 18 0.69
ACGTcount: A:0.67, C:0.10, G:0.02, T:0.21
Consensus pattern (11 bp):
TTCAAAAAAAA
Found at i:59910830 original size:20 final size:20
Alignment explanation
Indices: 59910805--59910850 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
59910795 GTAGGTTCAT
59910805 AAAAAA-TTCAAAAAAAATCG
1 AAAAAATTTC-AAAAAAATCG
59910825 AAAAAATTTCAAAAAAATCG
1 AAAAAATTTCAAAAAAATCG
59910845 AAAAAA
1 AAAAAA
59910851 AGGAGACATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 22 0.88
21 3 0.12
ACGTcount: A:0.72, C:0.09, G:0.04, T:0.15
Consensus pattern (20 bp):
AAAAAATTTCAAAAAAATCG
Found at i:59910842 original size:11 final size:10
Alignment explanation
Indices: 59910800--59910851 Score: 52
Period size: 10 Copynumber: 5.0 Consensus size: 10
59910790 CCGGAGTAGG
59910800 TTCATAAAAAA
1 TTCA-AAAAAA
59910811 TTCAAAAAAA
1 TTCAAAAAAA
* *
59910821 ATCGAAAAAAT
1 TTC-AAAAAAA
59910832 TTCAAAAAAA
1 TTCAAAAAAA
59910842 -TCGAAAAAAA
1 TTC-AAAAAAA
59910852 GGAGACATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
9 2 0.06
10 21 0.60
11 12 0.34
ACGTcount: A:0.67, C:0.10, G:0.04, T:0.19
Consensus pattern (10 bp):
TTCAAAAAAA
Found at i:59912287 original size:19 final size:19
Alignment explanation
Indices: 59912245--59912287 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
59912235 AGTTTTCAAC
59912245 AAAAAAAAAAGAGATTATG
1 AAAAAAAAAAGAGATTATG
* *
59912264 GAAAAAGAAAGAGAATT-TG
1 AAAAAAAAAAGAG-ATTATG
59912283 AAAAA
1 AAAAA
59912288 GCAACGAGTG
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
19 17 0.85
20 3 0.15
ACGTcount: A:0.67, C:0.00, G:0.19, T:0.14
Consensus pattern (19 bp):
AAAAAAAAAAGAGATTATG
Found at i:59934982 original size:338 final size:337
Alignment explanation
Indices: 59934360--59935035 Score: 1165
Period size: 338 Copynumber: 2.0 Consensus size: 337
59934350 GGGCACAAAA
* *
59934360 TCCTAACAAGCATATGTTTGAAGACAGTAGTTTACATTCAATTTTGGAAAGATTATTGATTTCAT
1 TCCTAACAAGCATATGTTTGAAGACACTAGTTTACATTCAATTTTGAAAAGATTATTGATTTCAT
59934425 GAATCACTAGTGCATTGATAATGATGAGTTTGGTGAATCCTGTATGAGATTACCAAGTAGCTCAC
66 GAATCACTAGTGCATTGATAATGATGAGTTTGGTGAATCCTGTATGAGATTACCAAGTAGCTCAC
*
59934490 TACTAGAATTCAAGCAACATGTACAAATGGGAAAGATTTCAAAACTTTAAATCCATCACTAACTT
131 TACTAGAATTCAAGCAACATGTACAAATGGGAAAGATTTCAAAACTTTAAATCCACCACTAACTT
*
59934555 ATGCTACTTTACATGCAATTGCTACTGGAAATTGGTTTCCTAATAACCAAAGAAATGTGATAACC
196 ATGCTACTTTACATGAAATTGCTACTGGAAATTGGTTTCCTAATAACCAAAGAAATGTGATAACC
59934620 AAGAAAACGGGATAGATGATATTCAATAAGATTGTGAAGCACACTAAGATAAACAATCTAAGCTT
261 AAGAAAACGGGATAGATGATATTCAATAAGATTGTGAAGCACACTAAGATAAACAATCTAAGCTT
*
59934685 GTCCTTGCCATT
326 GCCCTTGCCATT
* *
59934697 TCCTAACAAGCATATGTTTGAAGACACTAGTTTACATTTAGTTTTGAAAAGATTATTGATTTCAT
1 TCCTAACAAGCATATGTTTGAAGACACTAGTTTACATTCAATTTTGAAAAGATTATTGATTTCAT
59934762 GAATCACTAGTGCATTGATAATGATGAGTTTGGTGAATCCTGTGATGAGATTACCAAGTAGCTCA
66 GAATCACTAGTGCATTGATAATGATGAGTTTGGTGAATCCTGT-ATGAGATTACCAAGTAGCTCA
* * * ** * * *
59934827 CTACT-GAAATTCCAGCAGCATGTACAAATGGGCAAGATTTCAAGGCTTTATATCTACCACTAGC
130 CTACTAG-AATTCAAGCAACATGTACAAATGGGAAAGATTTCAAAACTTTAAATCCACCACTAAC
*
59934891 TTATGCTACTTTACATGAAATTTCTACTGGAAATTGGTTTCCTAATAACCAAAGAAATGTGATAA
194 TTATGCTACTTTACATGAAATTGCTACTGGAAATTGGTTTCCTAATAACCAAAGAAATGTGATAA
* *
59934956 CTAAGAAAACGGGATAGATTATATTCAATAAGATTGTGAAGCACACTAAGATAAACAATCTAAGC
259 CCAAGAAAACGGGATAGATGATATTCAATAAGATTGTGAAGCACACTAAGATAAACAATCTAAGC
59935021 TTGCCCTTGCCATT
324 TTGCCCTTGCCATT
59935035 T
1 T
59935036 ACATCCTTAA
Statistics
Matches: 319, Mismatches: 18, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
337 105 0.33
338 214 0.67
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (337 bp):
TCCTAACAAGCATATGTTTGAAGACACTAGTTTACATTCAATTTTGAAAAGATTATTGATTTCAT
GAATCACTAGTGCATTGATAATGATGAGTTTGGTGAATCCTGTATGAGATTACCAAGTAGCTCAC
TACTAGAATTCAAGCAACATGTACAAATGGGAAAGATTTCAAAACTTTAAATCCACCACTAACTT
ATGCTACTTTACATGAAATTGCTACTGGAAATTGGTTTCCTAATAACCAAAGAAATGTGATAACC
AAGAAAACGGGATAGATGATATTCAATAAGATTGTGAAGCACACTAAGATAAACAATCTAAGCTT
GCCCTTGCCATT
Found at i:59935521 original size:37 final size:37
Alignment explanation
Indices: 59935480--59935551 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
59935470 GATGTTTTTA
**
59935480 TTGATGAATCTTAGTTGAGCTTCTTATGTTGTTCTAT
1 TTGATGAATCTTAAATGAGCTTCTTATGTTGTTCTAT
59935517 TTGATGAATCTTAAATGAGCTTCTTATGTTGTTCT
1 TTGATGAATCTTAAATGAGCTTCTTATGTTGTTCT
59935552 GTTTTTTAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.21, C:0.11, G:0.18, T:0.50
Consensus pattern (37 bp):
TTGATGAATCTTAAATGAGCTTCTTATGTTGTTCTAT
Found at i:59940775 original size:3 final size:3
Alignment explanation
Indices: 59940767--59940806 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
59940757 AAATCTATTG
59940767 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
59940807 TAGTATGTTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:59944032 original size:30 final size:31
Alignment explanation
Indices: 59943988--59944050 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 31
59943978 TTGAAATTTG
* * *
59943988 AAAAGTATAGAAACTAAAATTAA-CCAATTA
1 AAAAATATAAAAACTAAAATTAATCAAATTA
59944018 AAAAATATAAAAACTAAAATTAATCAAATTA
1 AAAAATATAAAAACTAAAATTAATCAAATTA
59944049 AA
1 AA
59944051 GTATAAGGAC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 21 0.72
31 8 0.28
ACGTcount: A:0.65, C:0.08, G:0.03, T:0.24
Consensus pattern (31 bp):
AAAAATATAAAAACTAAAATTAATCAAATTA
Found at i:59957180 original size:20 final size:20
Alignment explanation
Indices: 59957156--59957201 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 20
59957146 AATAAAATAA
*
59957156 AAAAAATATTTACAATTTTAT
1 AAAAAAT-TTTAAAATTTTAT
59957177 AAAAAATTTTAAAATTTTAT
1 AAAAAATTTTAAAATTTTAT
59957197 AAAAA
1 AAAAA
59957202 CCATAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 17 0.71
21 7 0.29
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (20 bp):
AAAAAATTTTAAAATTTTAT
Found at i:59957216 original size:9 final size:9
Alignment explanation
Indices: 59957173--59957258 Score: 55
Period size: 9 Copynumber: 9.0 Consensus size: 9
59957163 ATTTACAATT
59957173 TTATAAAAAA
1 TTAT-AAAAA
* *
59957183 TTTTAAAATT
1 TTATAAAA-A
59957193 TTATAAAAA
1 TTATAAAAA
**
59957202 CCATAAAAA
1 TTATAAAAA
59957211 TTATAAAAAA
1 TTAT-AAAAA
* * *
59957221 ATATTAAGA
1 TTATAAAAA
*
59957230 TTAATATAAAC
1 TT-ATA-AAAA
59957241 TTATAAAAA
1 TTATAAAAA
59957250 TTATAAAAA
1 TTATAAAAA
59957259 AATCATAAAA
Statistics
Matches: 56, Mismatches: 16, Indels: 9
0.69 0.20 0.11
Matches are distributed among these distances:
9 29 0.52
10 23 0.41
11 4 0.07
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (9 bp):
TTATAAAAA
Found at i:59957220 original size:20 final size:20
Alignment explanation
Indices: 59957187--59957269 Score: 62
Period size: 20 Copynumber: 4.2 Consensus size: 20
59957177 AAAAAATTTT
* *
59957187 AAAATTTTATAAAAACCATA
1 AAAATTATAAAAAAACCATA
* *
59957207 AAAATTATAAAAAAA-TATT
1 AAAATTATAAAAAAACCATA
* * * *
59957226 AAGATTA-ATATAAACTTATA
1 AAAATTATAAAAAAAC-CATA
*
59957246 AAAATTATAAAAAAATCATA
1 AAAATTATAAAAAAACCATA
59957266 AAAA
1 AAAA
59957270 CTTAAACTAG
Statistics
Matches: 47, Mismatches: 13, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
18 5 0.11
19 8 0.17
20 29 0.62
21 5 0.11
ACGTcount: A:0.65, C:0.05, G:0.01, T:0.29
Consensus pattern (20 bp):
AAAATTATAAAAAAACCATA
Found at i:59962809 original size:42 final size:42
Alignment explanation
Indices: 59962716--59962870 Score: 179
Period size: 42 Copynumber: 3.7 Consensus size: 42
59962706 TCGTATTTAC
* * * **
59962716 TTTCTGTTTAGCTCTCACGAGCTTCTGTTTAACTCATATTAG
1 TTTCTGTTCAGCTCTCACGAGCTTCTGTTTAACCCTTATGGG
*
59962758 TTT-TCGTTCAGCTCT-ATTGAGCTTCTGTTTAACCCTTATGGG
1 TTTCT-GTTCAGCTCTCA-CGAGCTTCTGTTTAACCCTTATGGG
* * *
59962800 TTTCTGTTCAGCTCTTACAAGCTTCTGTTCAACCCTTATGGG
1 TTTCTGTTCAGCTCTCACGAGCTTCTGTTTAACCCTTATGGG
* *
59962842 TTTCTGTTTAGCTCTCATGAGCTTCTGTT
1 TTTCTGTTCAGCTCTCACGAGCTTCTGTT
59962871 CAGCCTTCGG
Statistics
Matches: 96, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
41 2 0.02
42 92 0.96
43 2 0.02
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.45
Consensus pattern (42 bp):
TTTCTGTTCAGCTCTCACGAGCTTCTGTTTAACCCTTATGGG
Found at i:59962863 original size:84 final size:84
Alignment explanation
Indices: 59962716--59962870 Score: 197
Period size: 84 Copynumber: 1.8 Consensus size: 84
59962706 TCGTATTTAC
* * * * *
59962716 TTTCTGTTTAGCTCTCACGAGCTTCTGTTTAACTCATATTAGTTTTCGTTCAGCTCTATTGAGCT
1 TTTCTGTTCAGCTCTCACAAGCTTCTGTTCAACCCATATGAGTTTTCGTTCAGCTCTATTGAGCT
59962781 TCTGTTTAACCCTTATGGG
66 TCTGTTTAACCCTTATGGG
* * * *
59962800 TTTCTGTTCAGCTCTTACAAGCTTCTGTTCAACCCTTATG-GGTTTCTGTTTAGCTCTCA-TGAG
1 TTTCTGTTCAGCTCTCACAAGCTTCTGTTCAACCCATATGAGTTTTC-GTTCAGCTCT-ATTGAG
59962863 CTTCTGTT
64 CTTCTGTT
59962871 CAGCCTTCGG
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
83 5 0.08
84 54 0.90
85 1 0.02
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.45
Consensus pattern (84 bp):
TTTCTGTTCAGCTCTCACAAGCTTCTGTTCAACCCATATGAGTTTTCGTTCAGCTCTATTGAGCT
TCTGTTTAACCCTTATGGG
Found at i:59962867 original size:21 final size:21
Alignment explanation
Indices: 59962717--59962870 Score: 96
Period size: 21 Copynumber: 7.3 Consensus size: 21
59962707 CGTATTTACT
* *
59962717 TTCTGTTTAGCTCTCACGAGC
1 TTCTGTTTAGCTCTTATGAGC
* * *
59962738 TTCTGTTTAACTCATATTAG-
1 TTCTGTTTAGCTCTTATGAGC
* *
59962758 TTTTCGTTCAGCTC-TATTGAGC
1 TTCT-GTTTAGCTCTTA-TGAGC
* * * *
59962780 TTCTGTTTAACCCTTATGGGT
1 TTCTGTTTAGCTCTTATGAGC
* **
59962801 TTCTGTTCAGCTCTTACAAGC
1 TTCTGTTTAGCTCTTATGAGC
* * * * *
59962822 TTCTGTTCAACCCTTATGGGT
1 TTCTGTTTAGCTCTTATGAGC
*
59962843 TTCTGTTTAGCTCTCATGAGC
1 TTCTGTTTAGCTCTTATGAGC
59962864 TTCTGTT
1 TTCTGTT
59962871 CAGCCTTCGG
Statistics
Matches: 95, Mismatches: 34, Indels: 8
0.69 0.25 0.06
Matches are distributed among these distances:
20 5 0.05
21 85 0.89
22 5 0.05
ACGTcount: A:0.16, C:0.23, G:0.17, T:0.45
Consensus pattern (21 bp):
TTCTGTTTAGCTCTTATGAGC
Found at i:59965008 original size:21 final size:22
Alignment explanation
Indices: 59964976--59965016 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
59964966 CTAGCCTTAT
59964976 CTTTCTTCTTTC-TTTCTTTCC
1 CTTTCTTCTTTCTTTTCTTTCC
59964997 CTTT-TTCTTTTCTTTTCTTT
1 CTTTCTTC-TTTCTTTTCTTT
59965017 TTGTTTCGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 3 0.17
21 8 0.44
22 7 0.39
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (22 bp):
CTTTCTTCTTTCTTTTCTTTCC
Found at i:59965016 original size:16 final size:15
Alignment explanation
Indices: 59964977--59965052 Score: 55
Period size: 16 Copynumber: 4.8 Consensus size: 15
59964967 TAGCCTTATC
59964977 TTTCTTCTTTCTTTCT
1 TTTCTT-TTTCTTTCT
*
59964993 TTCCCTTTTTCTTTTCT
1 TT-TCTTTTTC-TTTCT
*
59965010 TTTCTTTTTGTTTCGT
1 TTTCTTTTTCTTTC-T
***
59965026 TTTAGCTTT-TTTCT
1 TTTCTTTTTCTTTCT
59965040 TTCTCTTTTTCTT
1 TT-TCTTTTTCTT
59965053 ATTTTGTTTT
Statistics
Matches: 46, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
14 3 0.07
15 12 0.26
16 21 0.46
17 10 0.22
ACGTcount: A:0.01, C:0.21, G:0.04, T:0.74
Consensus pattern (15 bp):
TTTCTTTTTCTTTCT
Found at i:59965062 original size:34 final size:35
Alignment explanation
Indices: 59964998--59965063 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
59964988 TTTCTTTCCC
*
59964998 TTTTTCTTTTCTTTTCTTTTTGTTTCGTTTTAGCT
1 TTTTTCTTTTCTTTTCTTTATGTTTCGTTTTAGCT
59965033 TTTTTCTTTCTCTTTT-TCTTAT-TTT-GTTTTA
1 TTTTTCTTT-TCTTTTCT-TTATGTTTCGTTTTA
59965064 TTATAATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
34 6 0.21
35 13 0.46
36 9 0.32
ACGTcount: A:0.05, C:0.14, G:0.06, T:0.76
Consensus pattern (35 bp):
TTTTTCTTTTCTTTTCTTTATGTTTCGTTTTAGCT
Found at i:59967165 original size:12 final size:12
Alignment explanation
Indices: 59967148--59967186 Score: 78
Period size: 12 Copynumber: 3.2 Consensus size: 12
59967138 AGATCAATTT
59967148 TGACGGTGCATA
1 TGACGGTGCATA
59967160 TGACGGTGCATA
1 TGACGGTGCATA
59967172 TGACGGTGCATA
1 TGACGGTGCATA
59967184 TGA
1 TGA
59967187 GATAGCATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.26, C:0.15, G:0.33, T:0.26
Consensus pattern (12 bp):
TGACGGTGCATA
Found at i:59967194 original size:24 final size:24
Alignment explanation
Indices: 59967148--59967194 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
59967138 AGATCAATTT
*
59967148 TGACGGTGCATATGACGGTGCATA
1 TGACGGTGCATATGACGATGCATA
59967172 TGACGGTGCATATGA-GATAGCAT
1 TGACGGTGCATATGACGAT-GCAT
59967195 TATATTAGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 2 0.10
24 19 0.90
ACGTcount: A:0.28, C:0.15, G:0.32, T:0.26
Consensus pattern (24 bp):
TGACGGTGCATATGACGATGCATA
Found at i:59967651 original size:2 final size:2
Alignment explanation
Indices: 59967644--59967674 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
59967634 TGAGTAACCA
59967644 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
59967675 GTTTGAAACC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:59973075 original size:82 final size:82
Alignment explanation
Indices: 59972930--59973090 Score: 220
Period size: 82 Copynumber: 2.0 Consensus size: 82
59972920 AAAAAAAAAA
* * *
59972930 TTGTTCATAGAAAATTTAGATGGTGGTGAAACTGAGAGCTGACTGATTTTGATTCTTGATATCTA
1 TTGTTCATACAAAATTTAGATGGTGGTGAAACTGAGAGCTGACTGATTTTAATTCTCGATATCTA
*
59972995 A-AATTATAAAATTTATT
66 AGAA-AATAAAATTTATT
* *
59973012 TTGTTCATACAAAATTTAGATGGTGGTGAAATTGAGAGTTGA-TCGATTTTAATTCTCCG-TATC
1 TTGTTCATACAAAATTTAGATGGTGGTGAAACTGAGAGCTGACT-GATTTTAATTCT-CGATATC
59973075 TAAGAAAATAAAATTT
64 TAAGAAAATAAAATTT
59973091 TGTTATTCTA
Statistics
Matches: 70, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
81 1 0.01
82 66 0.94
83 3 0.04
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.39
Consensus pattern (82 bp):
TTGTTCATACAAAATTTAGATGGTGGTGAAACTGAGAGCTGACTGATTTTAATTCTCGATATCTA
AGAAAATAAAATTTATT
Found at i:59973973 original size:50 final size:50
Alignment explanation
Indices: 59973910--59974005 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
59973900 ACAAATTTAG
** * * *
59973910 CCCTCAACTTTTACATATTATATCAATTT-AGTCATAATTTTAAAAATTAA
1 CCCTCAAAATTTACAAATGATATCAATTTGA-TCATAATTCTAAAAATTAA
* *
59973960 CCCTCAAAATTTACAAATGATTTCAATTTGATCCTAATTCTAAAAA
1 CCCTCAAAATTTACAAATGATATCAATTTGATCATAATTCTAAAAA
59974006 ATTCAAAGAA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
50 37 0.97
51 1 0.03
ACGTcount: A:0.41, C:0.18, G:0.03, T:0.39
Consensus pattern (50 bp):
CCCTCAAAATTTACAAATGATATCAATTTGATCATAATTCTAAAAATTAA
Found at i:59974201 original size:25 final size:24
Alignment explanation
Indices: 59974168--59974215 Score: 78
Period size: 25 Copynumber: 2.0 Consensus size: 24
59974158 ATTTAAATTA
59974168 ATATTAATATTAAATAAAGATAAAT
1 ATATTAATATTAAATAAA-ATAAAT
*
59974193 ATATTAATATTAGATAAAATAAA
1 ATATTAATATTAAATAAAATAAA
59974216 AATCCCCCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.35
Consensus pattern (24 bp):
ATATTAATATTAAATAAAATAAAT
Found at i:59977532 original size:41 final size:41
Alignment explanation
Indices: 59977475--59977618 Score: 168
Period size: 41 Copynumber: 3.5 Consensus size: 41
59977465 TTAACATATC
59977475 CACCGGCACTTAGCCTGCTAGGCTTATATCCTGATTCAGAT
1 CACCGGCACTTAGCCTGCTAGGCTTATATCCTGATTCAGAT
* *
59977516 CACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGAT
1 CACCGGCACTTAGCCTGCTAGGCTTATATCCTGATTCAGAT
* * * * **
59977557 TACCGGCAGTTAGCCTGCT-GGACTTAAAGT-CTGAATCATTT
1 CACCGGCACTTAGCCTGCTAGG-CTTATA-TCCTGATTCAGAT
59977598 CACCGGC-CTTAAGCCTGCTAG
1 CACCGGCACTT-AGCCTGCTAG
59977619 ACATAAAGTC
Statistics
Matches: 87, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
40 4 0.05
41 82 0.94
42 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (41 bp):
CACCGGCACTTAGCCTGCTAGGCTTATATCCTGATTCAGAT
Found at i:59977613 original size:82 final size:82
Alignment explanation
Indices: 59977475--59977797 Score: 272
Period size: 82 Copynumber: 3.9 Consensus size: 82
59977465 TTAACATATC
* *
59977475 CACCGGCACTTAGCCTGCTAGG-CTTATA-TCCTGATTCAGA-TCACCGGCACTT-AGCCTGCTA
1 CACCGGCACTTAGCCTGCT-GGACTTAAAGT-CTGAATCA-ATTCACCGGC-CTTAAGCCTGCTA
*** *
59977536 GGTTTATAA-CCTGATTCAGATT
62 GACATA-AAGCCTGAATCA-ATT
* *
59977558 -ACCGGCAGTTAGCCTGCTGGACTTAAAGTCTGAATCATTTCACCGGCCTTAAGCCTGCTAGACA
1 CACCGGCACTTAGCCTGCTGGACTTAAAGTCTGAATCAATTCACCGGCCTTAAGCCTGCTAGACA
* *
59977622 TAAAGTCTGAATCATTT
66 TAAAGCCTGAATCAATT
* * *
59977639 CACCGGC-CTTAAGCCTGCTAGACATAAAGTCTGAAAT-AATTCACCGGCATTAAGCCTGCTAGA
1 CACCGGCACTT-AGCCTGCTGGACTTAAAGTCTG-AATCAATTCACCGGCCTTAAGCCTGCTAGA
*
59977702 CATAAAGTCTGAAAT-AATT
64 CATAAAGCCTG-AATCAATT
* * ** * *
59977721 CACCGGCA-TTAAGCCTGCTAGACATAAAGTCTGAAAT-AATTCACCGGTATTAAACCTGCTAGG
1 CACCGGCACTT-AGCCTGCTGGACTTAAAGTCTG-AATCAATTCACCGGCCTTAAGCCTGCTAGA
**
59977784 CATCGAGCCTGAAT
64 CATAAAGCCTGAAT
59977798 ACCACGGATA
Statistics
Matches: 208, Mismatches: 22, Indels: 22
0.83 0.09 0.09
Matches are distributed among these distances:
81 14 0.07
82 187 0.90
83 7 0.03
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (82 bp):
CACCGGCACTTAGCCTGCTGGACTTAAAGTCTGAATCAATTCACCGGCCTTAAGCCTGCTAGACA
TAAAGCCTGAATCAATT
Found at i:59977796 original size:41 final size:41
Alignment explanation
Indices: 59977558--59977782 Score: 330
Period size: 41 Copynumber: 5.5 Consensus size: 41
59977548 GATTCAGATT
* * *
59977558 ACCGGCAGTT-AGCCTGCTGGACTTAAAGTCTG-AATCATTTC
1 ACCGGCA-TTAAGCCTGCTAGACATAAAGTCTGAAAT-AATTC
* *
59977599 ACCGGCCTTAAGCCTGCTAGACATAAAGTCTG-AATCATTTC
1 ACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAAT-AATTC
*
59977640 ACCGGCCTTAAGCCTGCTAGACATAAAGTCTGAAATAATTC
1 ACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAATAATTC
59977681 ACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAATAATTC
1 ACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAATAATTC
59977722 ACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAATAATTC
1 ACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAATAATTC
* *
59977763 ACCGGTATTAAACCTGCTAG
1 ACCGGCATTAAGCCTGCTAG
59977783 GCATCGAGCC
Statistics
Matches: 175, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
40 2 0.01
41 170 0.97
42 3 0.02
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (41 bp):
ACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAATAATTC
Found at i:59978579 original size:196 final size:198
Alignment explanation
Indices: 59978115--59978545 Score: 636
Period size: 203 Copynumber: 2.2 Consensus size: 198
59978105 AATTCAATAC
* ** *
59978115 ATACATTCGGCTAACATATATGTAATTCATTAAATTTCATTCAACTTACAAAACTCAGCATATAT
1 ATACATTCAGCTAACATATATACAATTCATTAAATTTCATTCAACTTACAAAAC-CAACATATAT
*
59978180 ATATTCGGCTAAATATATATAGAATTTATGCAATTTATTTTATCTTATAAACTCAAATATACATT
65 ATATTCGGCTAAATATATATAGAATTTATGCAATTTATTTTAACTTATAAACTCAAATATACATT
*
59978245 GACTAACACACGCACATATATATATATACAATTCATACATTTTATTTTAACTTATAAAATTCAAA
130 GACT-A-ACAC-CACA-ATATATATATACAATTCATACATTTTATTTGAACTTATAAAATTCAAA
59978310 ACATATAT
191 ACATATAT
**
59978318 ATACATTCAGCTAACATATATGTAATTCATTAAATTTCATTCAACTTACAAAACCCAACATATAT
1 ATACATTCAGCTAACATATATACAATTCATTAAATTTCATTCAACTTACAAAA-CCAACATATAT
* *
59978383 ATATTCGGCTAAATATATATAGAATTTCTGTAATTTATTTTAACTTATAAAACTCAAATATACAT
65 ATATTCGGCTAAATATATATAGAATTTATGCAATTTATTTTAACTTAT-AAACTCAAATATACAT
59978448 TGACT-A-A-CAC-ATATATATATACAATTCATACATTTTATTTGAACTTATAAAATTCAAAACA
129 TGACTAACACCACAATATATATATACAATTCATACATTTTATTTGAACTTATAAAATTCAAAACA
*
59978509 TTTAT
194 TATAT
* *
59978514 ATACATTCGGCTAACATTTTTATACAATTCAT
1 ATACATTCAGCTAACA--TATATACAATTCAT
59978546 ACCATTATAT
Statistics
Matches: 213, Mismatches: 11, Indels: 13
0.90 0.05 0.05
Matches are distributed among these distances:
196 69 0.32
198 14 0.07
200 1 0.00
201 1 0.00
203 106 0.50
204 22 0.10
ACGTcount: A:0.42, C:0.15, G:0.05, T:0.38
Consensus pattern (198 bp):
ATACATTCAGCTAACATATATACAATTCATTAAATTTCATTCAACTTACAAAACCAACATATATA
TATTCGGCTAAATATATATAGAATTTATGCAATTTATTTTAACTTATAAACTCAAATATACATTG
ACTAACACCACAATATATATATACAATTCATACATTTTATTTGAACTTATAAAATTCAAAACATA
TAT
Found at i:59979523 original size:13 final size:13
Alignment explanation
Indices: 59979505--59979529 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59979495 ACAAACGATA
59979505 AAATTTTCACACG
1 AAATTTTCACACG
59979518 AAATTTTCACAC
1 AAATTTTCACAC
59979530 AAGTAAATTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:60006354 original size:51 final size:51
Alignment explanation
Indices: 60006237--60006423 Score: 200
Period size: 51 Copynumber: 3.7 Consensus size: 51
60006227 GATGGTCATG
* *
60006237 TGTGTAGTACTATGTGAAGGCTACTACT-TGTACCGGA-A-TGATAGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTA-TGTGTACCGGATAGT-ATCGGTCACA
* * * *
60006287 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTTTCGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAGTATCGGTCACA
* * * * * *
60006338 TGTGTAGTACTATGTGCAGACTACTACGTGTATCGAATGGTAACGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAGTATCGGTCACA
* * *
60006389 TGTGTAATACTATGTGTAGGCTACTATGTGAACCG
1 TGTGTAGTACTATGTGCAGGCTACTATGTGTACCG
60006424 AACATCATTG
Statistics
Matches: 112, Mismatches: 22, Indels: 5
0.81 0.16 0.04
Matches are distributed among these distances:
49 1 0.01
50 33 0.29
51 77 0.69
52 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (51 bp):
TGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAGTATCGGTCACA
Found at i:60006490 original size:45 final size:45
Alignment explanation
Indices: 60006420--60006514 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 45
60006410 TACTATGTGA
* * * *
60006420 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGTGTTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGCTTGCTATGTGCTGAATCC
* *
60006465 ACCGGACATCATTGATTAATGAGGTGCTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGCTTGCTATGTGCTGAATCC
60006510 ACCGA
1 ACCGA
60006515 GTATCTGTTA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGCTTGCTATGTGCTGAATCC
Found at i:60007762 original size:41 final size:41
Alignment explanation
Indices: 60007705--60007788 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
60007695 AAAAGTATGT
60007705 ATTGAGATGGTAAATGTCTAGATGAAAATATGCTTGTGATC
1 ATTGAGATGGTAAATGTCTAGATGAAAATATGCTTGTGATC
60007746 ATTGAGATGGTAAATGTCTAGATGAAAATATGCTTGTGATC
1 ATTGAGATGGTAAATGTCTAGATGAAAATATGCTTGTGATC
60007787 AT
1 AT
60007789 AAAAGGGTGG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.35, C:0.07, G:0.24, T:0.35
Consensus pattern (41 bp):
ATTGAGATGGTAAATGTCTAGATGAAAATATGCTTGTGATC
Found at i:60009589 original size:21 final size:21
Alignment explanation
Indices: 60009572--60009611 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
60009562 ATGCACACGA
*
60009572 GCGTGTGGAGTAGTCACACAG
1 GCGTGTGGAGTAGCCACACAG
60009593 GCGTGTGGAGTAGCCACAC
1 GCGTGTGGAGTAGCCACAC
60009612 TGCCATTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.23, G:0.38, T:0.17
Consensus pattern (21 bp):
GCGTGTGGAGTAGCCACACAG
Found at i:60010897 original size:60 final size:61
Alignment explanation
Indices: 60010766--60010906 Score: 151
Period size: 60 Copynumber: 2.3 Consensus size: 61
60010756 AGGGTGTTGG
** *
60010766 CCATCAGTGTCCCAACACCCCCAAAAAATATTTTTTAAAAAAATTTGGTATTGAGGTGCCAG
1 CCATCAGTGTCCCAACA-CCCCAAAAAATATTTTTTAAAAAAATTTGGTATAAAGGTGCCAA
* * * * ***
60010828 TCATTAGTGTCCCAGCACCCTAAAAAA-ATTGTTTT-TTTAAATTTGGTATAAAGGTGCCAA
1 CCATCAGTGTCCCAACACCCCAAAAAATATT-TTTTAAAAAAATTTGGTATAAAGGTGCCAA
*
60010888 CCATCAGTGTTCCAACACC
1 CCATCAGTGTCCCAACACC
60010907 TAATTTTTTT
Statistics
Matches: 64, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
60 37 0.58
61 13 0.20
62 14 0.22
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (61 bp):
CCATCAGTGTCCCAACACCCCAAAAAATATTTTTTAAAAAAATTTGGTATAAAGGTGCCAA
Found at i:60011078 original size:103 final size:103
Alignment explanation
Indices: 60010906--60011108 Score: 277
Period size: 103 Copynumber: 2.0 Consensus size: 103
60010896 GTTCCAACAC
* * * *
60010906 CTAATTTTTTTTAATCTGGTACTGGGGTGCCAGCCATCAGTGTCCCAGCATCCAATTTATTTTTA
1 CTAATTTTTTTTAACCTGGTACTGGGGTGCCAGACATCAGTGTCCCAACACCCAATTTATTTTTA
*
60010971 AATCTGGTACAAGAGTGTC-GGCCATCAATGTCCTAGCA
66 AATCTGGTACAAGAGTG-CAGACCATCAATGTCCTAGCA
*
60011009 CTAATTTTTTTTAAACCTGGTACTGGGGTGTC-GACATCAGTGTCCCAACACCCAATTT-TTCTT
1 CTAATTTTTTTT-AACCTGGTACTGGGGTGCCAGACATCAGTGTCCCAACACCCAATTTATT-TT
* * *
60011072 TTAATCTGGTATAAGGGTGCAGACCATCAATGTCCTA
64 TAAATCTGGTACAAGAGTGCAGACCATCAATGTCCTA
60011109 ACACCCAAAA
Statistics
Matches: 88, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
102 3 0.03
103 68 0.77
104 17 0.19
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (103 bp):
CTAATTTTTTTTAACCTGGTACTGGGGTGCCAGACATCAGTGTCCCAACACCCAATTTATTTTTA
AATCTGGTACAAGAGTGCAGACCATCAATGTCCTAGCA
Found at i:60011100 original size:53 final size:53
Alignment explanation
Indices: 60010854--60011116 Score: 204
Period size: 51 Copynumber: 5.0 Consensus size: 53
60010844 ACCCTAAAAA
* * * *
60010854 AATTGTTTTTTTAAATTTGGTATAAAGGTGCCA-ACCATCAGTGTTCCAACACCT
1 AATT-TTTTTTT-AATCTGGTATAAGGGTGCCAGACCATCAGTGTCCCAACACCC
* * *
60010908 AA-TTTTTTTTAATCTGGTACT-GGGGTGCCAG-CCATCAGTGTCCCAGCATCC
1 AATTTTTTTTTAATCTGGTA-TAAGGGTGCCAGACCATCAGTGTCCCAACACCC
* * * * * * * * *
60010959 AATTTATTTTTAAATCTGGTACAAGAGTGTC-GGCCATCAATGTCCTAGCA-CT
1 AATTT-TTTTTTAATCTGGTATAAGGGTGCCAGACCATCAGTGTCCCAACACCC
* * * *
60011011 AATTTTTTTTAAACCTGGTACT-GGGGTGTC-GA-CATCAGTGTCCCAACACCC
1 AATTTTTTTTTAATCTGGTA-TAAGGGTGCCAGACCATCAGTGTCCCAACACCC
* *
60011062 AATTTTTCTTTTAATCTGGTATAAGGGTG-CAGACCATCAATGTCCTAACACCC
1 AATTTTT-TTTTAATCTGGTATAAGGGTGCCAGACCATCAGTGTCCCAACACCC
60011115 AA
1 AA
60011117 AAAAGATATT
Statistics
Matches: 168, Mismatches: 29, Indels: 25
0.76 0.13 0.11
Matches are distributed among these distances:
50 13 0.08
51 64 0.38
52 35 0.21
53 54 0.32
54 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (53 bp):
AATTTTTTTTTAATCTGGTATAAGGGTGCCAGACCATCAGTGTCCCAACACCC
Found at i:60013730 original size:3 final size:3
Alignment explanation
Indices: 60013722--60013748 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
60013712 GATCTAAAAC
60013722 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
60013749 CAGCAACATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:60021113 original size:18 final size:16
Alignment explanation
Indices: 60021090--60021124 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
60021080 AATTTAACTT
60021090 TAATTAAATTATTTAAAA
1 TAATT-AATT-TTTAAAA
60021108 TAATTAATTTTTAAAA
1 TAATTAATTTTTAAAA
60021124 T
1 T
60021125 TATAAACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 4 0.24
18 5 0.29
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TAATTAATTTTTAAAA
Found at i:60021415 original size:15 final size:15
Alignment explanation
Indices: 60021395--60021431 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
60021385 TTAAGTTCAG
60021395 TGTTTAAGGATTTGA
1 TGTTTAAGGATTTGA
*
60021410 TGTTT-AGGGTTTGA
1 TGTTTAAGGATTTGA
60021424 -GTTTAAGG
1 TGTTTAAGG
60021432 TTTAAAGGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 4 0.20
14 11 0.55
15 5 0.25
ACGTcount: A:0.22, C:0.00, G:0.32, T:0.46
Consensus pattern (15 bp):
TGTTTAAGGATTTGA
Found at i:60021896 original size:7 final size:7
Alignment explanation
Indices: 60021886--60021912 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
60021876 GATTTTGATT
60021886 TTTGTTG
1 TTTGTTG
60021893 TTTGTTG
1 TTTGTTG
60021900 TTTGTTG
1 TTTGTTG
60021907 TTTGTT
1 TTTGTT
60021913 TAGAAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.26, T:0.74
Consensus pattern (7 bp):
TTTGTTG
Found at i:60024680 original size:24 final size:24
Alignment explanation
Indices: 60024653--60024704 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
60024643 TTAGTAAGTC
*
60024653 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
***
60024677 AAATATGTTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
60024701 AAAT
1 AAAT
60024705 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:60027308 original size:23 final size:23
Alignment explanation
Indices: 60027282--60027357 Score: 116
Period size: 23 Copynumber: 3.3 Consensus size: 23
60027272 ATAAGTGCAA
60027282 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
60027305 CACTGTTATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
60027328 CACTGAAACGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
60027351 TACTGAT
1 CACTGAT
60027358 CAATAACACT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.22
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:60029266 original size:24 final size:24
Alignment explanation
Indices: 60029239--60029290 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
60029229 TTAGTAAGTC
*
60029239 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
60029263 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
60029287 AAAT
1 AAAT
60029291 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:60029442 original size:22 final size:22
Alignment explanation
Indices: 60029394--60029444 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
60029384 TATTTTCTTG
*
60029394 CTATTTTTTTGTTGTTTTACTA
1 CTATTTTCTTGTTGTTTTACTA
*
60029416 TTATTTTCTTGTTGTTTT-CTCA
1 CTATTTTCTTGTTGTTTTACT-A
60029438 CTATTTT
1 CTATTTT
60029445 GCTACCTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 2 0.08
22 23 0.92
ACGTcount: A:0.12, C:0.12, G:0.08, T:0.69
Consensus pattern (22 bp):
CTATTTTCTTGTTGTTTTACTA
Found at i:60029666 original size:17 final size:17
Alignment explanation
Indices: 60029616--60029669 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
60029606 AGAAAATATT
60029616 TATTTTAATATTTTTAGTA
1 TATTTTAA-ATTTTTA-TA
* *
60029635 -ATTTTAAAGTATTATA
1 TATTTTAAATTTTTATA
*
60029651 TTTTTTAAATTTTTATA
1 TATTTTAAATTTTTATA
60029668 TA
1 TA
60029670 AAAAATAATT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
16 2 0.07
17 19 0.68
18 7 0.25
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (17 bp):
TATTTTAAATTTTTATA
Found at i:60030076 original size:18 final size:19
Alignment explanation
Indices: 60030043--60030079 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
60030033 TCCTCTTCCT
*
60030043 TCTTCCATATAAAAATAAA
1 TCTTCCATACAAAAATAAA
60030062 TCTTCCA-ACAAAAATAAA
1 TCTTCCATACAAAAATAAA
60030080 AATAATTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (19 bp):
TCTTCCATACAAAAATAAA
Found at i:60031181 original size:25 final size:24
Alignment explanation
Indices: 60031128--60031181 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
60031118 ACAATCATCT
* * *
60031128 TAAATTTTTATAATAATATTTAAG
1 TAAAATTTTATAATAATAATTAAA
*
60031152 GAAAATTTTATAATAATTAATTAAA
1 TAAAATTTTATAATAA-TAATTAAA
60031177 TAAAA
1 TAAAA
60031182 AATAACCTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
24 14 0.58
25 10 0.42
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.43
Consensus pattern (24 bp):
TAAAATTTTATAATAATAATTAAA
Found at i:60031256 original size:20 final size:21
Alignment explanation
Indices: 60031233--60031279 Score: 62
Period size: 19 Copynumber: 2.3 Consensus size: 21
60031223 ACAAGAGTAA
*
60031233 AGATTTTAAGGTTTA-AGGTT
1 AGATTTTAAGATTTAGAGGTT
60031253 AGA-TTTAAGATTTAGAGGTT
1 AGATTTTAAGATTTAGAGGTT
60031273 AGGATTT
1 A-GATTT
60031280 GGATTTTAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 10 0.43
20 9 0.39
21 2 0.09
22 2 0.09
ACGTcount: A:0.32, C:0.00, G:0.26, T:0.43
Consensus pattern (21 bp):
AGATTTTAAGATTTAGAGGTT
Found at i:60031284 original size:20 final size:21
Alignment explanation
Indices: 60031244--60031299 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
60031234 GATTTTAAGG
60031244 TTTAAGGTTA-GATTTAAGA-
1 TTTAAGGTTAGGATTTAAGAT
*
60031263 TTTAGAGGTTAGGATTT-GGAT
1 TTTA-AGGTTAGGATTTAAGAT
60031284 TTTAAGGTTTAGGATT
1 TTTAAGG-TTAGGATT
60031300 AAGTTCTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 4 0.12
20 11 0.34
21 17 0.53
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.45
Consensus pattern (21 bp):
TTTAAGGTTAGGATTTAAGAT
Found at i:60031316 original size:18 final size:19
Alignment explanation
Indices: 60031293--60031330 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
60031283 TTTTAAGGTT
60031293 TAGGA-TTAA-GTTCTAAAA
1 TAGGATTTAAGGTT-TAAAA
60031311 TAGGATTTAAGGTTTAAAA
1 TAGGATTTAAGGTTTAAAA
60031330 T
1 T
60031331 TGGCTTTTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.28
19 10 0.56
20 3 0.17
ACGTcount: A:0.42, C:0.03, G:0.18, T:0.37
Consensus pattern (19 bp):
TAGGATTTAAGGTTTAAAA
Found at i:60033160 original size:29 final size:29
Alignment explanation
Indices: 60033128--60033197 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 29
60033118 GCCCAGTAAC
*
60033128 AAATTTTAAAAATA-AAAGAAAACTCTTTA
1 AAATTTTAAAAATATAAA-AAAACTCATTA
* * *
60033157 AAATTTAAAAAATATTTAAAAAAGTCATTA
1 AAATTTTAAAAATA-TAAAAAAACTCATTA
60033187 AAATTTTAAAA
1 AAATTTTAAAA
60033198 TTTCTATAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
29 13 0.38
30 19 0.56
31 2 0.06
ACGTcount: A:0.60, C:0.04, G:0.03, T:0.33
Consensus pattern (29 bp):
AAATTTTAAAAATATAAAAAAACTCATTA
Found at i:60033620 original size:16 final size:17
Alignment explanation
Indices: 60033599--60033632 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
60033589 ATTGAATTGA
*
60033599 ATTTTTA-ATAATTTTT
1 ATTTTTATAAAATTTTT
60033615 ATTTTTATAAAATTTTT
1 ATTTTTATAAAATTTTT
60033632 A
1 A
60033633 ATAATTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
ATTTTTATAAAATTTTT
Found at i:60035808 original size:28 final size:27
Alignment explanation
Indices: 60035772--60035827 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 27
60035762 TTAAAATATT
*
60035772 AATAATTTA-ATGATTTTTAGTTTTTAAA
1 AATAATTTATAT-A-TTTTAATTTTTAAA
*
60035800 AATAGTTTATATATTTTAATTTTTAAA
1 AATAATTTATATATTTTAATTTTTAAA
60035827 A
1 A
60035828 TTAAAAAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 14 0.56
28 9 0.36
29 2 0.08
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (27 bp):
AATAATTTATATATTTTAATTTTTAAA
Found at i:60039705 original size:41 final size:41
Alignment explanation
Indices: 60039648--60039742 Score: 181
Period size: 41 Copynumber: 2.3 Consensus size: 41
60039638 ATTGAAATTT
60039648 GTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCG
1 GTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCG
*
60039689 GTGATCTGAATCAGGCTATAAGCTTAGCAGGCTAAGTGCCG
1 GTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCG
60039730 GTGATCTGAATCA
1 GTGATCTGAATCA
60039743 AAGGAACGAA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.24
Consensus pattern (41 bp):
GTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCG
Found at i:60039976 original size:41 final size:41
Alignment explanation
Indices: 60039919--60040095 Score: 309
Period size: 41 Copynumber: 4.3 Consensus size: 41
60039909 AGTTTGGAAT
60039919 CGGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGC
1 CGGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGC
60039960 CGGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGC
1 CGGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGC
* *
60040001 CGGTGATCTGAATCAGGCTATAAGCCTAGTAGGCTAAATGC
1 CGGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGC
* * *
60040042 CGGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGC
1 CGGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGC
60040083 CGGTGATCTGAAT
1 CGGTGATCTGAAT
60040096 ATGTTAAATT
Statistics
Matches: 128, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 128 1.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (41 bp):
CGGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGC
Found at i:60047430 original size:18 final size:20
Alignment explanation
Indices: 60047394--60047432 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
60047384 AGTAATAATA
*
60047394 TATAAATATATATATGTGTT
1 TATAAATATATATAAGTGTT
60047414 TATAAAT-T-TATAAGTGTT
1 TATAAATATATATAAGTGTT
60047432 T
1 T
60047433 GAATTGAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 10 0.56
19 1 0.06
20 7 0.39
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.51
Consensus pattern (20 bp):
TATAAATATATATAAGTGTT
Found at i:60047833 original size:41 final size:41
Alignment explanation
Indices: 60047776--60047951 Score: 307
Period size: 41 Copynumber: 4.3 Consensus size: 41
60047766 GTTTGGAATT
60047776 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
60047817 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
* *
60047858 GGTGATCTGAATCAGGCTATAAGCCTAGTAGGCTAAATGCC
1 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
* * *
60047899 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
60047940 GGTGATCTGAAT
1 GGTGATCTGAAT
60047952 ATGTTAAATT
Statistics
Matches: 127, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 127 1.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (41 bp):
GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
Found at i:60049900 original size:71 final size:71
Alignment explanation
Indices: 60049824--60049977 Score: 184
Period size: 71 Copynumber: 2.2 Consensus size: 71
60049814 TGACTAACAT
* * * *
60049824 TGGGTGCAAAACATCGTCGGTTTATCCTACCAGTACAGGGCACAACTATTGTTGGTTTA-TCCAA
1 TGGGTGCAAAACATCGTCGGTTTAACCAACCAGTACAGGGCACAACTATTGTCGGTATACT-CAA
60049888 CCAGCGC
65 CCAGCGC
* ** * * **
60049895 TGGGTGCAAAACATTGTCTTTTTAACCAACCAGTGCAGGGCACAATTATTGTCGGTATACTTGAC
1 TGGGTGCAAAACATCGTCGGTTTAACCAACCAGTACAGGGCACAACTATTGTCGGTATACTCAAC
*
60049960 TAGCGC
66 CAGCGC
60049966 TGGGTGCAAAAC
1 TGGGTGCAAAAC
60049978 TTTAGTACGG
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
71 69 0.99
72 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (71 bp):
TGGGTGCAAAACATCGTCGGTTTAACCAACCAGTACAGGGCACAACTATTGTCGGTATACTCAAC
CAGCGC
Found at i:60054386 original size:20 final size:20
Alignment explanation
Indices: 60054348--60054386 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
60054338 CTGCCTACTC
*
60054348 TAAAATGCATGGATTTCAAA
1 TAAAATGCATGGATCTCAAA
* *
60054368 TAAAATGCCTTGATCTCAA
1 TAAAATGCATGGATCTCAA
60054387 TAATGGGCTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.31
Consensus pattern (20 bp):
TAAAATGCATGGATCTCAAA
Found at i:60070185 original size:24 final size:25
Alignment explanation
Indices: 60070158--60070210 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
60070148 AAGCTCATAC
*
60070158 GAGCCA-TAAACGGGAAGCTCAAGA
1 GAGCCATTAAACGAGAAGCTCAAGA
* * *
60070182 GAGCTATTAATCGAGAAGCTCATGA
1 GAGCCATTAAACGAGAAGCTCAAGA
60070207 GAGC
1 GAGC
60070211 TAAATAATGG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.38, C:0.19, G:0.28, T:0.15
Consensus pattern (25 bp):
GAGCCATTAAACGAGAAGCTCAAGA
Found at i:60072136 original size:46 final size:46
Alignment explanation
Indices: 60072068--60072197 Score: 224
Period size: 46 Copynumber: 2.8 Consensus size: 46
60072058 GTATCTATAA
*
60072068 ACTTAACTTTTTTTTCTAATTATCTTCATAATAATCATGCATTAATT
1 ACTTAAC-TTTTTTTCTAATTATCTTCCTAATAATCATGCATTAATT
60072115 ACTTAACTTTTTTTCTAATTATCTTCCTAATAATCATGCATTAATT
1 ACTTAACTTTTTTTCTAATTATCTTCCTAATAATCATGCATTAATT
* *
60072161 GCTTAACTTTTTTTCTAATTATCTTCCCAATAATCAT
1 ACTTAACTTTTTTTCTAATTATCTTCCTAATAATCAT
60072198 TCAATCATAG
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
46 73 0.91
47 7 0.09
ACGTcount: A:0.30, C:0.18, G:0.02, T:0.50
Consensus pattern (46 bp):
ACTTAACTTTTTTTCTAATTATCTTCCTAATAATCATGCATTAATT
Found at i:60074584 original size:14 final size:15
Alignment explanation
Indices: 60074556--60074584 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
60074546 ATTACTTTAA
60074556 TAAAATAATATTATT
1 TAAAATAATATTATT
60074571 TAAAATAA-ATTATT
1 TAAAATAATATTATT
60074585 AATTAATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TAAAATAATATTATT
Found at i:60075091 original size:83 final size:83
Alignment explanation
Indices: 60074952--60075124 Score: 346
Period size: 83 Copynumber: 2.1 Consensus size: 83
60074942 CAACTTTCAT
60074952 TTGAAATCACATAGATATGGCTGATATGCACAAAACAAATGCAACACCATTATAGTAGTAAGAAC
1 TTGAAATCACATAGATATGGCTGATATGCACAAAACAAATGCAACACCATTATAGTAGTAAGAAC
60075017 AACAATATATGCCAGAGC
66 AACAATATATGCCAGAGC
60075035 TTGAAATCACATAGATATGGCTGATATGCACAAAACAAATGCAACACCATTATAGTAGTAAGAAC
1 TTGAAATCACATAGATATGGCTGATATGCACAAAACAAATGCAACACCATTATAGTAGTAAGAAC
60075100 AACAATATATGCCAGAGC
66 AACAATATATGCCAGAGC
60075118 TTGAAAT
1 TTGAAAT
60075125 GATATCTGAA
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 90 1.00
ACGTcount: A:0.45, C:0.17, G:0.16, T:0.23
Consensus pattern (83 bp):
TTGAAATCACATAGATATGGCTGATATGCACAAAACAAATGCAACACCATTATAGTAGTAAGAAC
AACAATATATGCCAGAGC
Found at i:60079727 original size:51 final size:51
Alignment explanation
Indices: 60079660--60079762 Score: 197
Period size: 52 Copynumber: 2.0 Consensus size: 51
60079650 TGCTTCGATT
60079660 CCAAAGAGGGCTTTTTTCTTAAATCTGGTTTTTTTTTCCTTTCTGATTTTCG
1 CCAAAGAGGGCTTTTTTCTTAAATCTGG-TTTTTTTTCCTTTCTGATTTTCG
60079712 CCAAAGAGGGCTTTTTTCTTAAATCTGGTTTTTTTTCCTTTCTGATTTTCG
1 CCAAAGAGGGCTTTTTTCTTAAATCTGGTTTTTTTTCCTTTCTGATTTTCG
60079763 ATGTATGTTT
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
51 23 0.45
52 28 0.55
ACGTcount: A:0.16, C:0.17, G:0.16, T:0.51
Consensus pattern (51 bp):
CCAAAGAGGGCTTTTTTCTTAAATCTGGTTTTTTTTCCTTTCTGATTTTCG
Found at i:60086071 original size:18 final size:17
Alignment explanation
Indices: 60086050--60086110 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
60086040 GAAATAACTA
60086050 AAAATGCATCTGTAACAT
1 AAAA-GCATCTGTAACAT
*
60086068 AAAAGCAT-T-TAAAACT
1 AAAAGCATCTGTAACA-T
60086084 AAAAATGCATCTGTAACAT
1 -AAAA-GCATCTGTAACAT
60086103 AAAAGCAT
1 AAAAGCAT
60086111 TTAAAACTAC
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
15 4 0.11
16 2 0.06
17 12 0.33
18 12 0.33
19 2 0.06
20 4 0.11
ACGTcount: A:0.51, C:0.15, G:0.10, T:0.25
Consensus pattern (17 bp):
AAAAGCATCTGTAACAT
Found at i:60086084 original size:35 final size:35
Alignment explanation
Indices: 60086045--60086119 Score: 150
Period size: 35 Copynumber: 2.1 Consensus size: 35
60086035 AAACTGAAAT
60086045 AACTAAAAATGCATCTGTAACATAAAAGCATTTAA
1 AACTAAAAATGCATCTGTAACATAAAAGCATTTAA
60086080 AACTAAAAATGCATCTGTAACATAAAAGCATTTAA
1 AACTAAAAATGCATCTGTAACATAAAAGCATTTAA
60086115 AACTA
1 AACTA
60086120 CAAACTCCCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.52, C:0.15, G:0.08, T:0.25
Consensus pattern (35 bp):
AACTAAAAATGCATCTGTAACATAAAAGCATTTAA
Found at i:60088411 original size:29 final size:28
Alignment explanation
Indices: 60088365--60088425 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
60088355 TAGTTGACGG
*
60088365 AAAAAAAAATTTAAGTACCAAACTAGGA
1 AAAAAAAAATATAAGTACCAAACTAGGA
* * * *
60088393 CAAAAAAAACTATAGGTACTAATCTAGGA
1 -AAAAAAAAATATAAGTACCAAACTAGGA
60088422 AAAA
1 AAAA
60088426 TGAATAAGTT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 4 0.15
29 23 0.85
ACGTcount: A:0.59, C:0.11, G:0.11, T:0.18
Consensus pattern (28 bp):
AAAAAAAAATATAAGTACCAAACTAGGA
Found at i:60089310 original size:25 final size:23
Alignment explanation
Indices: 60089264--60089311 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
60089254 TGACCCCATA
60089264 ATCCTAATATATCTCTTTTATAT
1 ATCCTAATATATCTCTTTTATAT
* * *
60089287 ATCCTAATATCTATCTTTTGTAT
1 ATCCTAATATATCTCTTTTATAT
60089310 AT
1 AT
60089312 GCACGATTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.29, C:0.17, G:0.02, T:0.52
Consensus pattern (23 bp):
ATCCTAATATATCTCTTTTATAT
Found at i:60094223 original size:16 final size:17
Alignment explanation
Indices: 60094188--60094225 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
60094178 AAATACGCTC
60094188 TCTCTTTGCTCTTCTAT
1 TCTCTTTGCTCTTCTAT
*
60094205 TCTCTTTGTTCTT-TAT
1 TCTCTTTGCTCTTCTAT
60094221 TCTCT
1 TCTCT
60094226 GTCTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.05, C:0.26, G:0.05, T:0.63
Consensus pattern (17 bp):
TCTCTTTGCTCTTCTAT
Found at i:60094818 original size:26 final size:26
Alignment explanation
Indices: 60094768--60094818 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
60094758 AAGGAGCTTC
* *
60094768 ATTTTTTTGTTTTTTGAGGTATGATT
1 ATTTTTTTATTTTTTGAAGTATGATT
* *
60094794 ATTTTTTTATTTTTTTAAGTCTGAT
1 ATTTTTTTATTTTTTGAAGTATGAT
60094819 CAAATTATTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.18, C:0.02, G:0.14, T:0.67
Consensus pattern (26 bp):
ATTTTTTTATTTTTTGAAGTATGATT
Done.