Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 108 of 345
Found at i:29016837 original size:7 final size:7
Alignment explanation
Indices: 29016827--29016876 Score: 82
Period size: 7 Copynumber: 7.0 Consensus size: 7
29016817 TTATATACGT
29016827 AATACTA
1 AATACTA
29016834 AATACTA
1 AATACTA
29016841 AATACTA
1 AATACTA
29016848 AATACTA
1 AATACTA
29016855 AATACTA
1 AATACTA
*
29016862 AATACGA
1 AATACTA
29016869 AATGACTA
1 AAT-ACTA
29016877 TTTTATTATG
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
7 37 0.93
8 3 0.08
ACGTcount: A:0.56, C:0.14, G:0.04, T:0.26
Consensus pattern (7 bp):
AATACTA
Found at i:29016845 original size:21 final size:21
Alignment explanation
Indices: 29016821--29016876 Score: 78
Period size: 21 Copynumber: 2.6 Consensus size: 21
29016811 TATTAGTTAT
29016821 ATACGTAATACTAAATACTAA
1 ATACGTAATACTAAATACTAA
29016842 ATAC-TAAATACTAAATACTAA
1 ATACGT-AATACTAAATACTAA
*
29016863 ATACGAAATGACTA
1 ATACGTAAT-ACTA
29016877 TTTTATTATG
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
20 1 0.03
21 26 0.84
22 4 0.13
ACGTcount: A:0.54, C:0.14, G:0.05, T:0.27
Consensus pattern (21 bp):
ATACGTAATACTAAATACTAA
Found at i:29018040 original size:22 final size:23
Alignment explanation
Indices: 29017992--29018050 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 23
29017982 ATAAAACTAA
*
29017992 TTGAAAAAAATTTAAACAGAGCTTTT
1 TTGACAAAAA-TTAAACAGAGC--TT
*
29018018 TTG-CAAAAATTAAAGAGAG-TT
1 TTGACAAAAATTAAACAGAGCTT
29018039 TTGACAAAAATT
1 TTGACAAAAATT
29018051 GAGAGAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
21 5 0.17
22 8 0.27
24 9 0.30
25 5 0.17
26 3 0.10
ACGTcount: A:0.47, C:0.07, G:0.14, T:0.32
Consensus pattern (23 bp):
TTGACAAAAATTAAACAGAGCTT
Found at i:29018076 original size:9 final size:10
Alignment explanation
Indices: 29018049--29018092 Score: 61
Period size: 11 Copynumber: 4.1 Consensus size: 10
29018039 TTGACAAAAA
29018049 TTGAGAGAAAT
1 TTGAGAG-AAT
29018060 TTGAGAGAAT
1 TTGAGAGAAT
29018070 TTGGAGAGAAT
1 TT-GAGAGAAT
29018081 TTAGAGAGAAT
1 TT-GAGAGAAT
29018092 T
1 T
29018093 GTGCGAGGAC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
10 5 0.16
11 26 0.84
ACGTcount: A:0.41, C:0.00, G:0.30, T:0.30
Consensus pattern (10 bp):
TTGAGAGAAT
Found at i:29018079 original size:22 final size:22
Alignment explanation
Indices: 29018051--29018092 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
29018041 GACAAAAATT
29018051 GAGAGAAATTT-GAGAGAATTTG
1 GAGAG-AATTTAGAGAGAATTTG
29018073 GAGAGAATTTAGAGAGAATT
1 GAGAGAATTTAGAGAGAATT
29018093 GTGCGAGGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.43, C:0.00, G:0.31, T:0.26
Consensus pattern (22 bp):
GAGAGAATTTAGAGAGAATTTG
Found at i:29024025 original size:27 final size:27
Alignment explanation
Indices: 29023993--29024051 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
29023983 TATTTAGGGG
29023993 GATTTACATATAAATAATTAATAGAAGA
1 GATTTACATATAAATAATTAATA-AAGA
* *
29024021 -ATTTATATATAAATAATTCATAAAGA
1 GATTTACATATAAATAATTAATAAAGA
29024047 GATTT
1 GATTT
29024052 TTCATATCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 4 0.14
27 24 0.86
ACGTcount: A:0.51, C:0.03, G:0.08, T:0.37
Consensus pattern (27 bp):
GATTTACATATAAATAATTAATAAAGA
Found at i:29028085 original size:16 final size:16
Alignment explanation
Indices: 29028061--29028091 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
29028051 AATGATGATT
29028061 ACCAACAACAACCATC
1 ACCAACAACAACCATC
*
29028077 ACCAGCAACAACCAT
1 ACCAACAACAACCAT
29028092 ATAATTGCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.42, G:0.03, T:0.06
Consensus pattern (16 bp):
ACCAACAACAACCATC
Found at i:29054721 original size:36 final size:34
Alignment explanation
Indices: 29054676--29054757 Score: 101
Period size: 36 Copynumber: 2.3 Consensus size: 34
29054666 TTATAATGTT
* * *
29054676 TTAAGTATTTTAAAACTAATTTTTAATATTTTTATC
1 TTAATTATTTTAAAA-TAATATTTAATA-TTTCATC
*
29054712 TTAATTATTTTTTAAATAATATTTAATATTTCATC
1 TTAATTA-TTTTAAAATAATATTTAATATTTCATC
29054747 TTAATTATTTT
1 TTAATTATTTT
29054758 TTATATAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
34 4 0.10
35 13 0.32
36 17 0.41
37 7 0.17
ACGTcount: A:0.35, C:0.05, G:0.01, T:0.59
Consensus pattern (34 bp):
TTAATTATTTTAAAATAATATTTAATATTTCATC
Found at i:29054755 original size:35 final size:36
Alignment explanation
Indices: 29054683--29054766 Score: 116
Period size: 35 Copynumber: 2.3 Consensus size: 36
29054673 GTTTTAAGTA
* * *
29054683 TTTTAAAACTAATTTTTAATATTTTTATCTTAATTAT
1 TTTTTAAA-TAATATTTAATATTTTCATCTTAATTAT
29054720 TTTTTAAATAATATTTAATA-TTTCATCTTAATTAT
1 TTTTTAAATAATATTTAATATTTTCATCTTAATTAT
*
29054755 TTTTTATATAAT
1 TTTTTAAATAAT
29054767 TACATTTGAT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
35 25 0.58
36 11 0.26
37 7 0.16
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.60
Consensus pattern (36 bp):
TTTTTAAATAATATTTAATATTTTCATCTTAATTAT
Found at i:29054909 original size:2 final size:2
Alignment explanation
Indices: 29054904--29054932 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
29054894 ACACACACAC
29054904 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
29054933 TTAAAAATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:29056805 original size:32 final size:32
Alignment explanation
Indices: 29056764--29056827 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
29056754 ATAGCAACAT
29056764 AATCATTGTCGAAACCATTCTTTTGAAAACGG
1 AATCATTGTCGAAACCATTCTTTTGAAAACGG
29056796 AATCATTGTCGAAACCATTCTTTTGAAAACGG
1 AATCATTGTCGAAACCATTCTTTTGAAAACGG
29056828 GGATCGACTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (32 bp):
AATCATTGTCGAAACCATTCTTTTGAAAACGG
Found at i:29057752 original size:17 final size:19
Alignment explanation
Indices: 29057711--29057752 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
29057701 CTAGTAATGT
29057711 TAAA-ATATATATAATATA
1 TAAATATATATATAATATA
*
29057729 TACATATATATATAA-A-A
1 TAAATATATATATAATATA
29057746 TAAATAT
1 TAAATAT
29057753 TGAAAAATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 7 0.33
18 4 0.19
19 10 0.48
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
TAAATATATATATAATATA
Found at i:29058114 original size:3 final size:3
Alignment explanation
Indices: 29058063--29058105 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
29058053 TATAAATATA
*
29058063 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAC AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
29058106 GCAATAATAG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:29058300 original size:3 final size:3
Alignment explanation
Indices: 29058294--29058642 Score: 125
Period size: 3 Copynumber: 116.3 Consensus size: 3
29058284 ATAGTAAATG
* * * *
29058294 TAA TAA TAA TAG TAA TAA TAT TAA GT-A TAG T-A TAAA TAA TATG TACA
1 TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA T-AA TAA TA-A TA-A
* * *
29058341 TAA CAG TAA TAA TAA TAA GTAA CAA TAA TAA TAA TAA TAA TAA T-A
1 TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
29058386 TAGA -AA TTCAA -AA -AA GTAA -ACA TAA T-A TAA TGA TAT TAA -AA
1 TA-A TAA -T-AA TAA TAA -TAA TA-A TAA TAA TAA TAA TAA TAA TAA
* * *
29058427 TAA -AA T-A TACA CTAA TAT TTA TAAA TAA TAA TAG TAA -ATA TAA TAA
1 TAA TAA TAA TA-A -TAA TAA TAA T-AA TAA TAA TAA TAA TA-A TAA TAA
* * *
29058473 TAA TAA TAA TAA TGA TAA TAA TAA TAA TAT TAA GT-A TAG T-A TAAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA T-AA
* * * *
29058518 TAA TATG TACA TAA CAG TAA TAA TAA TAA GTAA CAA TAA TAA TAA TAA
1 TAA TA-A TA-A TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA
29058566 TAA TAA T-A TAGA -AA TTCAA -AA -AA CTAA -ACA TAA T-A TAA TAA
1 TAA TAA TAA TA-A TAA -T-AA TAA TAA -TAA TA-A TAA TAA TAA TAA
* *
29058607 TAT TAA -AA TAA T-A TAA TAA TAT TAA -AA TAA T-A TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
29058643 TTAAGAAATA
Statistics
Matches: 258, Mismatches: 44, Indels: 88
0.66 0.11 0.23
Matches are distributed among these distances:
2 39 0.15
3 180 0.70
4 33 0.13
5 6 0.02
ACGTcount: A:0.59, C:0.04, G:0.05, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:29058311 original size:9 final size:9
Alignment explanation
Indices: 29058279--29058382 Score: 51
Period size: 9 Copynumber: 11.9 Consensus size: 9
29058269 TATTTATAAA
29058279 TAATAATAG
1 TAATAATAG
* *
29058288 TAA-ATGTAA
1 TAATA-ATAG
29058297 TAATAATAG
1 TAATAATAG
*
29058306 TAATAATAT
1 TAATAATAG
29058315 TAAGT-ATAG
1 TAA-TAATAG
29058324 T-ATAA-A-
1 TAATAATAG
29058330 TAAT-AT-G
1 TAATAATAG
*
29058337 TACATAACAG
1 TA-ATAATAG
*
29058347 TAATAATAA
1 TAATAATAG
* *
29058356 TAAGTAACAA
1 TAA-TAATAG
*
29058366 TAATAATAA
1 TAATAATAG
29058375 TAATAATA
1 TAATAATA
29058383 ATATAGAAAT
Statistics
Matches: 73, Mismatches: 11, Indels: 22
0.69 0.10 0.21
Matches are distributed among these distances:
6 2 0.03
7 6 0.08
8 5 0.07
9 47 0.64
10 13 0.18
ACGTcount: A:0.57, C:0.03, G:0.08, T:0.33
Consensus pattern (9 bp):
TAATAATAG
Found at i:29058369 original size:19 final size:19
Alignment explanation
Indices: 29058341--29058377 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
29058331 AATATGTACA
*
29058341 TAACAGTAATAATAATAAG
1 TAACAATAATAATAATAAG
29058360 TAACAATAATAATAATAA
1 TAACAATAATAATAATAA
29058378 TAATAATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.27
Consensus pattern (19 bp):
TAACAATAATAATAATAAG
Found at i:29058596 original size:188 final size:182
Alignment explanation
Indices: 29058294--29058638 Score: 600
Period size: 188 Copynumber: 1.9 Consensus size: 182
29058284 ATAGTAAATG
*
29058294 TAATAATAATAGTAATAATATTAAGTATAGTATAAATAATATGTACATAACAGTAATAATAATAA
1 TAATAATAATAATAATAATATTAAGTATAGTATAAATAATATGTACATAACAGTAATAATAATAA
* *
29058359 GTAACAATAATAATAATAATAATAATATAGAAATTCAAAAAAGTAAACATAATATAATGATATTA
66 GTAACAATAATAATAATAATAATAATATAGAAATTCAAAAAACTAAACATAATATAATAATATTA
29058424 AAATAAAATATACACTAATATTTATAAATAATAATAGTAAATATAATAATAATAATAA
131 AAAT--AATATA-A-TAATA-TTA-AAATAATAATAGTAAATATAATAATAATAATAA
*
29058482 TAATGATAATAATAATAATATTAAGTATAGTATAAATAATATGTACATAACAGTAATAATAATAA
1 TAATAATAATAATAATAATATTAAGTATAGTATAAATAATATGTACATAACAGTAATAATAATAA
29058547 GTAACAATAATAATAATAATAATAATATAGAAATTCAAAAAACTAAACATAATATAATAATATTA
66 GTAACAATAATAATAATAATAATAATATAGAAATTCAAAAAACTAAACATAATATAATAATATTA
29058612 AAATAATATAATAATATTAAAATAATA
131 AAATAATATAATAATATTAAAATAATA
29058639 TAATTTAAGA
Statistics
Matches: 153, Mismatches: 4, Indels: 6
0.94 0.02 0.04
Matches are distributed among these distances:
182 8 0.05
183 3 0.02
184 5 0.03
185 1 0.01
186 6 0.04
188 130 0.85
ACGTcount: A:0.59, C:0.04, G:0.05, T:0.32
Consensus pattern (182 bp):
TAATAATAATAATAATAATATTAAGTATAGTATAAATAATATGTACATAACAGTAATAATAATAA
GTAACAATAATAATAATAATAATAATATAGAAATTCAAAAAACTAAACATAATATAATAATATTA
AAATAATATAATAATATTAAAATAATAATAGTAAATATAATAATAATAATAA
Found at i:29058618 original size:11 final size:11
Alignment explanation
Indices: 29058602--29058639 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
29058592 AACATAATAT
29058602 AATAATATTAA
1 AATAATATTAA
29058613 AATAATA-T--
1 AATAATATTAA
29058621 AATAATATTAA
1 AATAATATTAA
29058632 AATAATAT
1 AATAATAT
29058640 AATTTAAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
8 7 0.29
9 1 0.04
10 1 0.04
11 15 0.62
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
AATAATATTAA
Found at i:29059904 original size:24 final size:23
Alignment explanation
Indices: 29059877--29059928 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
29059867 TTTATCTTAT
* *
29059877 TGGGCTCCGGTATTGTAATGTAAA
1 TGGGCTACGGGATT-TAATGTAAA
* *
29059901 TGGGCTATGGGGTTTAATGTAAA
1 TGGGCTACGGGATTTAATGTAAA
29059924 TGGGC
1 TGGGC
29059929 CCAAAATTGC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 14 0.58
24 10 0.42
ACGTcount: A:0.23, C:0.10, G:0.35, T:0.33
Consensus pattern (23 bp):
TGGGCTACGGGATTTAATGTAAA
Found at i:29060843 original size:73 final size:71
Alignment explanation
Indices: 29060597--29061425 Score: 631
Period size: 72 Copynumber: 11.2 Consensus size: 71
29060587 TTTCTTTCTT
* * * * **
29060597 TTTTTGAAAGGCAGAAATTGAAAATACCTCAGCGTGCCCTGACGCTCAACTCACCTCTCGCAATA
1 TTTTTGAAA-ACAGAAATTGAAAATACCTCA-CGTGTCTTGAGGCTCAACTCATTTCTCGCAATA
29060662 TGAGTTGA
64 TGAGTTGA
* * **
29060670 -TTTTGAAAAACAGAAATTGAAATTACCTCAGCG-GTCCTGAGGCTCAACTCACCTCTCGC-A-A
1 TTTTTG-AAAACAGAAATTGAAAATACCTCA-CGTGTCTTGAGGCTCAACTCATTTCTCGCAATA
29060731 TGAGTTGA
64 TGAGTTGA
* * * * *
29060739 TTTTTTTTAAAGACAAAAATTGAAAATACCTCACATGTCTTGAGGCTCAACTCATTTATCACAAT
1 --TTTTTGAAA-ACAGAAATTGAAAATACCTCACGTGTCTTGAGGCTCAACTCATTTCTCGCAAT
29060804 ATGAGTTGA
63 ATGAGTTGA
*
29060813 TTTTTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACT-ATTTCTCGCAAT
1 --TTTTTGAAAACAGAAATTGAAAATACCTC-ACGTGTCTTGAGGCTCAACTCATTTCTCGCAAT
29060877 ATGAGTTGA
63 ATGAGTTGA
* * * ** * ** ** *
29060886 ATTTTG-AAACATAAATTAAGAAACAAAAATTGC-CAATACCTCAACGTGCCCCGAGACTCAACT
1 TTTTTGAAAACAGAAATT--G-AA-AATACCT-CAC-GTGTCTTGA-G-G-CTC-A-ACTCA--T
* * *
29060949 ACCTCTCACATTATGAGTTGA
53 --TTCTCGCAATATGAGTTGA
* * * * * *
29060970 TTTTTTTAAAGATAGAAATTG-AAATACCTCAGCATGTGAAC-CGAAGCTCAACTCA-CTCTCGC
1 -TTTTTGAAA-ACAGAAATTGAAAATACCTCA-C--GTG-TCTTGAGGCTCAACTCATTTCTCGC
29061032 AATATGAGTTGA
60 AATATGAGTTGA
* * *
29061044 TTTTTGAAAACATAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCATTACTCGCAATAT
1 TTTTTGAAAACAGAAATTGAAAATACCTC-ACGTGTCTTGAGGCTCAACTCATTTCTCGCAATAT
29061109 GAGTTGA
65 GAGTTGA
* * * * **
29061116 ATTTTGAAAACAGAAATTGAAATTACTTCAGCGTGTCCTGAGGCTCAACTCACCTCT-GCAATAT
1 TTTTTGAAAACAGAAATTGAAAATACCTCA-CGTGTCTTGAGGCTCAACTCATTTCTCGCAATAT
*
29061180 GAGTCGA
65 GAGTTGA
* *
29061187 TTTTTTTTTGAAAAATAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGC
1 ----TTTTTG-AAAACAGAAATTGAAAATACCTCA-CGTGTCTTGAGGCTCAACTCATTTCTCGC
*
29061252 AATCTGAGTTGAA
60 AATATGAGTTG-A
* *
29061265 TTTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGTAATAT
1 TTTTTGAAAACAGAAATTGAAAATACCTC-ACGTGTCTTGAGGCTCAACTCATTTCTCGCAATAT
*
29061330 TAGTTGA
65 GAGTTGA
* * * *
29061337 ATTTTGAAAATAGAAA-TAAAAATTACCTCAACGTGTCTTGAGGCTTCAACTCATTTCTCGTAAT
1 TTTTTGAAAACAGAAATTGAAAA-TACCTC-ACGTGTCTTGAGGC-TCAACTCATTTCTCGCAAT
*
29061401 ATAAGTT-A
63 ATGAGTTGA
** *
29061409 AATTTGAAAATAGAAAT
1 TTTTTGAAAACAGAAAT
29061426 AAAAATATCA
Statistics
Matches: 617, Mismatches: 91, Indels: 96
0.77 0.11 0.12
Matches are distributed among these distances:
69 9 0.01
70 12 0.02
71 65 0.11
72 195 0.32
73 144 0.23
74 70 0.11
75 7 0.01
76 45 0.07
77 13 0.02
78 2 0.00
79 8 0.01
80 2 0.00
81 3 0.00
82 6 0.01
83 2 0.00
84 19 0.03
85 6 0.01
86 2 0.00
87 7 0.01
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.31
Consensus pattern (71 bp):
TTTTTGAAAACAGAAATTGAAAATACCTCACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
AGTTGA
Found at i:29061127 original size:301 final size:299
Alignment explanation
Indices: 29060619--29061183 Score: 754
Period size: 301 Copynumber: 1.9 Consensus size: 299
29060609 AGAAATTGAA
* * *
29060619 AATACCTCAGCGTGCCCTGACGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAGA
1 AATACCTCAACGTGCCCCGACGCTCAACTCACCTCTCACAATATGAGTTGATTTTGAAAAACAGA
* * *
29060684 AATTGAAATTACCTCAGCGGTCCTGAGGCTCAACTCACCTCTCGCAATGAGTTGATTTTTTTTAA
66 AATTGAAATTACCTCAGCGGACCTGAAGCTCAACTCACCTCTCGCAATGAGTTGA-TTTTTTGAA
29060749 AGACAAAAATTGAAAATACCTCACATGTCTTGAGGCTCAACTCATTTATCACAATATGAGTTGAT
130 AGACAAAAATTGAAAATACCTCACATGTCTTGAGGCTCAACTCATTTATCACAATATGAGTTGA-
* * **
29060814 TTTTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACT-ATTTCTCGCAATA
194 TATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCT-GCAATA
29060878 TGAGTTGAATTTTGAAACATAAATTAAGAAACAAAAATTGCC
258 TGAGTTGAATTTTGAAACATAAATTAAGAAACAAAAATTGCC
* * * *
29060920 AATACCTCAACGTGCCCCGA-GACTCAACT-ACCTCTCACATTATGAGTTGATTTTTTTAAAGAT
1 AATACCTCAACGTGCCCCGACG-CTCAACTCACCTCTCACAATATGAGTTGA--TTTTGAAAAAC
29060983 AGAAATTGAAA-TACCTCAGCATGTGAACC-GAAGCTCAACTCA-CTCTCGCAATATGAGTTGA-
63 AGAAATTGAAATTACCTCAGC--G-G-ACCTGAAGCTCAACTCACCTCTCGC-A-ATGAGTTGAT
* * * *
29061044 TTTTTGAAA-ACATAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCA-TTACTCGCAAT
122 TTTTTGAAAGACAAAAATTGAAAATACCTC-ACATGTCTTGAGGCTCAACTCATTTA-TCACAAT
* *
29061107 ATGAGTTGA-ATTTTGAAAACAGAAATTGAAATTACTTCAGCGTGTCCTGAGGCTCAACTCACCT
185 ATGAGTTGATATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCT
29061171 CTGCAATATGAGT
250 CTGCAATATGAGT
29061184 CGATTTTTTT
Statistics
Matches: 232, Mismatches: 20, Indels: 24
0.84 0.07 0.09
Matches are distributed among these distances:
300 20 0.09
301 91 0.39
302 45 0.19
303 51 0.22
304 14 0.06
305 11 0.05
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.30
Consensus pattern (299 bp):
AATACCTCAACGTGCCCCGACGCTCAACTCACCTCTCACAATATGAGTTGATTTTGAAAAACAGA
AATTGAAATTACCTCAGCGGACCTGAAGCTCAACTCACCTCTCGCAATGAGTTGATTTTTTGAAA
GACAAAAATTGAAAATACCTCACATGTCTTGAGGCTCAACTCATTTATCACAATATGAGTTGATA
TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTGCAATATGA
GTTGAATTTTGAAACATAAATTAAGAAACAAAAATTGCC
Found at i:29061284 original size:221 final size:216
Alignment explanation
Indices: 29060922--29061389 Score: 620
Period size: 221 Copynumber: 2.1 Consensus size: 216
29060912 AAATTGCCAA
* * * * *
29060922 TACCTCAACGTGCCCCGAGACTCAACT-ACCTCTCACATTATGAGTTGATTTTTTTAAAGATAGA
1 TACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCACATTATGAGTCGATTTTTTTAAAAATAGA
29060986 AATTGAAATACCTCAGCATGTGAACCGAAGCTCAACTCACTCTCGCAATATGAGTTGATTTTTGA
66 AATTGAAATACCTCAGCATGT--ACCGAAGCTCAACTCACTCTCGCAATATGAGTTGATTTTTGA
* *
29061051 AAACATAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCATTACTCGCAATATGAGTTGA
129 AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTACTCGCAATATGAGTTGA
**
29061116 ATTTTGAAAACAGAAATTGAAAT
194 ATTTTGAAAACAGAAATAAAAAT
* *
29061139 TACTTCAGCGTGTCCTGAGGCTCAACTCACCTCTGCA-A-TATGAGTCGATTTTTTTTTGAAAAA
1 TACCTCAACGTGTCCTGAGGCTCAACTCACCTCT-CACATTATGAGTCGA--TTTTTTT-AAAAA
* * * *
29061202 TAGAAATTGAAAATACCTCAGCATGT-CTTGAGGCTCAACTCATTTCTCGCAATCTGAGTTGAAT
62 TAGAAATTG-AAATACCTCAGCATGTAC-CGAAGCTCAACTCA-CTCTCGCAATATGAGTTG-AT
* * * *
29061266 TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGTAATATT
123 TTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTACTCGCAATATG
*
29061331 AGTTGAATTTTGAAAATAGAAATAAAAAT
188 AGTTGAATTTTGAAAACAGAAATAAAAAT
*
29061360 TACCTCAACGTGTCTTGAGGCTTCAACTCA
1 TACCTCAACGTGTCCTGAGGC-TCAACTCA
29061390 TTTCTCGTAA
Statistics
Matches: 218, Mismatches: 23, Indels: 15
0.85 0.09 0.06
Matches are distributed among these distances:
217 31 0.14
218 8 0.04
219 21 0.10
220 29 0.13
221 121 0.56
222 8 0.04
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (216 bp):
TACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCACATTATGAGTCGATTTTTTTAAAAATAGA
AATTGAAATACCTCAGCATGTACCGAAGCTCAACTCACTCTCGCAATATGAGTTGATTTTTGAAA
ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTACTCGCAATATGAGTTGAAT
TTTGAAAACAGAAATAAAAAT
Found at i:29067562 original size:13 final size:13
Alignment explanation
Indices: 29067544--29067569 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
29067534 ATCGGCGCTA
29067544 TAAGGGAGACCTG
1 TAAGGGAGACCTG
29067557 TAAGGGAGACCTG
1 TAAGGGAGACCTG
29067570 ATGAATGGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.38, T:0.15
Consensus pattern (13 bp):
TAAGGGAGACCTG
Found at i:29073259 original size:2 final size:2
Alignment explanation
Indices: 29073252--29073278 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
29073242 TATGTACGTA
29073252 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
29073279 GTAATAGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:29073398 original size:17 final size:19
Alignment explanation
Indices: 29073357--29073398 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
29073347 CTAGTAATGT
29073357 TAAA-ATATATATAATATA
1 TAAATATATATATAATATA
*
29073375 TACATATATATATAA-A-A
1 TAAATATATATATAATATA
29073392 TAAATAT
1 TAAATAT
29073399 TGAAAAATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 7 0.33
18 4 0.19
19 10 0.48
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
TAAATATATATATAATATA
Found at i:29073760 original size:3 final size:3
Alignment explanation
Indices: 29073709--29073751 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
29073699 TATAAATATA
*
29073709 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAC AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
29073752 GCAATAATAG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:29073946 original size:3 final size:3
Alignment explanation
Indices: 29073940--29074218 Score: 120
Period size: 3 Copynumber: 91.7 Consensus size: 3
29073930 ATAGTAAATG
* * *
29073940 TAA TAA TAA T-A TAA TAA TAT TAA GT-A TAG T-A TAAA TAA TATG TACA
1 TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA T-AA TAA TA-A TA-A
* * *
29073986 TAA CAG TAA TAA TAA TAA GTAA CAA TAA TAA TAA TAA TAA TAA T-A
1 TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
29074031 TAGA -AA TTCAA -AA -AA GTAA -ACA TAA T-A TAA TGA TAT TAA -AA
1 TA-A TAA -T-AA TAA TAA -TAA TA-A TAA TAA TAA TAA TAA TAA TAA
* * *
29074072 TAA -AA T-A TACA CTAA TAT TTA TAAA TAA TAA TAG TAA -ATA TAA TAA
1 TAA TAA TAA TA-A -TAA TAA TAA T-AA TAA TAA TAA TAA TA-A TAA TAA
* * *
29074118 TAA TAA TAA TAA TGA TAA TAA TAA TAA TAT TAA GT-A TAG T-A TAAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA T-AA
* * * *
29074163 TAA TATG TACA TAA CAG TAA TAA TAA TAA GTAA CAA TAA TAA TAA TAA
1 TAA TA-A TA-A TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA
29074211 TAA TAA TA
1 TAA TAA TA
29074219 TAGAAATTCA
Statistics
Matches: 207, Mismatches: 38, Indels: 62
0.67 0.12 0.20
Matches are distributed among these distances:
2 23 0.11
3 151 0.73
4 29 0.14
5 4 0.02
ACGTcount: A:0.59, C:0.04, G:0.05, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:29074014 original size:19 final size:19
Alignment explanation
Indices: 29073986--29074022 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
29073976 AATATGTACA
*
29073986 TAACAGTAATAATAATAAG
1 TAACAATAATAATAATAAG
29074005 TAACAATAATAATAATAA
1 TAACAATAATAATAATAA
29074023 TAATAATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.27
Consensus pattern (19 bp):
TAACAATAATAATAATAAG
Found at i:29074276 original size:16 final size:16
Alignment explanation
Indices: 29074243--29074275 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
29074233 AACTAAACAT
*
29074243 AATATAATAATATTAA
1 AATAAAATAATATTAA
29074259 AATAAAATAAT-TTAA
1 AATAAAATAATATTAA
29074274 AA
1 AA
29074276 AATACTATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AATAAAATAATATTAA
Found at i:29077575 original size:19 final size:19
Alignment explanation
Indices: 29077553--29077605 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
29077543 ATTTTAATGA
29077553 TTTTTAATTTTTAAATA-T
1 TTTTTAATTTTTAAATAGT
**
29077571 TTTTTATATTTTT-GTTAGT
1 TTTTTA-ATTTTTAAATAGT
29077590 TTTTTAAATTTTTAAA
1 TTTTT-AATTTTTAAA
29077606 AATTAATTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
18 8 0.30
19 18 0.67
20 1 0.04
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (19 bp):
TTTTTAATTTTTAAATAGT
Found at i:29080148 original size:47 final size:47
Alignment explanation
Indices: 29080084--29080194 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
29080074 GACATTGAGT
*
29080084 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
29080131 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
29080178 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
29080195 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:29081496 original size:14 final size:14
Alignment explanation
Indices: 29081479--29081509 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
29081469 ATTCAAACAA
29081479 TAACAACAAAATAG
1 TAACAACAAAATAG
*
29081493 TAACAACATAATAG
1 TAACAACAAAATAG
29081507 TAA
1 TAA
29081510 AATCACAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.13, G:0.06, T:0.19
Consensus pattern (14 bp):
TAACAACAAAATAG
Found at i:29081861 original size:2 final size:2
Alignment explanation
Indices: 29081854--29081885 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
29081844 TTATCTTTTA
29081854 AT AT AT AT A- AT -T AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
29081886 TTAAATTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 26 0.93
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:29100110 original size:18 final size:18
Alignment explanation
Indices: 29100077--29100116 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
29100067 TTAAAAAATC
*
29100077 ATATTTTTTACATTTAAT
1 ATATTTTTTACATTTAAA
29100095 ATATTTTTTA-ATTTTAAA
1 ATATTTTTTACA-TTTAAA
29100113 ATAT
1 ATAT
29100117 ACAGTGACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 1 0.05
18 19 0.95
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (18 bp):
ATATTTTTTACATTTAAA
Found at i:29102601 original size:29 final size:31
Alignment explanation
Indices: 29102535--29102605 Score: 78
Period size: 29 Copynumber: 2.4 Consensus size: 31
29102525 AATATCAAAA
*
29102535 TTATACATGAACTATAGTTTAATGTGTAATTG
1 TTATACATGAACTATAGTTT-ATGTGCAATTG
*
29102567 TT-TACATGAACT-TTGATTT-TGTGCAATT-
1 TTATACATGAACTATAG-TTTATGTGCAATTG
29102595 TTATACATGAA
1 TTATACATGAA
29102606 AATCTGATGT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
28 2 0.06
29 16 0.46
30 2 0.06
31 13 0.37
32 2 0.06
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.45
Consensus pattern (31 bp):
TTATACATGAACTATAGTTTATGTGCAATTG
Found at i:29103473 original size:29 final size:29
Alignment explanation
Indices: 29103428--29103509 Score: 130
Period size: 29 Copynumber: 2.8 Consensus size: 29
29103418 TCTAGTGTTA
*
29103428 TTTGACTTTAGATTTTTTATTTTTTGAAG
1 TTTGACTTTAGAGTTTTTATTTTTTGAAG
*
29103457 TTTGACTTTAGTA-TTTTTATTTTTTGAGG
1 TTTGACTTTAG-AGTTTTTATTTTTTGAAG
29103486 TTTGACTTTAGAGTTTTTATTTTT
1 TTTGACTTTAGAGTTTTTATTTTT
29103510 GGAGTTTATT
Statistics
Matches: 50, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
28 1 0.02
29 48 0.96
30 1 0.02
ACGTcount: A:0.18, C:0.04, G:0.15, T:0.63
Consensus pattern (29 bp):
TTTGACTTTAGAGTTTTTATTTTTTGAAG
Found at i:29108851 original size:15 final size:17
Alignment explanation
Indices: 29108831--29108866 Score: 58
Period size: 15 Copynumber: 2.2 Consensus size: 17
29108821 TACATTTCGG
29108831 ATAATTCAA-TTAA-TA
1 ATAATTCAATTTAATTA
29108846 ATAATTCAATTTAATTA
1 ATAATTCAATTTAATTA
29108863 ATAA
1 ATAA
29108867 CTGAACTGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 9 0.47
16 4 0.21
17 6 0.32
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (17 bp):
ATAATTCAATTTAATTA
Found at i:29111610 original size:32 final size:33
Alignment explanation
Indices: 29111567--29111636 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
29111557 AAAGGCAGAA
29111567 TTTTTGCTGAAGGAGCCG-AATTAAATTAAATT
1 TTTTTGCTGAAGGAGCCGAAATTAAATTAAATT
* *
29111599 TTTTTGTTGAAGGAGCCGAAATTAAATTAATTT
1 TTTTTGCTGAAGGAGCCGAAATTAAATTAAATT
29111632 TTTTT
1 TTTTT
29111637 ATCAAAGCCA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 17 0.49
33 18 0.51
ACGTcount: A:0.31, C:0.07, G:0.17, T:0.44
Consensus pattern (33 bp):
TTTTTGCTGAAGGAGCCGAAATTAAATTAAATT
Found at i:29115046 original size:14 final size:14
Alignment explanation
Indices: 29115027--29115057 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
29115017 AATTTGAATT
29115027 TTAAGTTAATCGAA
1 TTAAGTTAATCGAA
*
29115041 TTAAGTTATTCGAA
1 TTAAGTTAATCGAA
29115055 TTA
1 TTA
29115058 CTTGAGTAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.13, T:0.42
Consensus pattern (14 bp):
TTAAGTTAATCGAA
Found at i:29115243 original size:19 final size:20
Alignment explanation
Indices: 29115219--29115258 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
29115209 TAAAATTTAT
29115219 ATTTTTAAA-AAATTATAAA
1 ATTTTTAAATAAATTATAAA
*
29115238 ATTTTTAAATAAATTCTAAA
1 ATTTTTAAATAAATTATAAA
29115258 A
1 A
29115259 AATATATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (20 bp):
ATTTTTAAATAAATTATAAA
Found at i:29116144 original size:31 final size:31
Alignment explanation
Indices: 29116123--29116183 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
29116113 TGAACTTTTT
29116123 GAAAGTATTCATTTAAGTCATTAGACTATTC
1 GAAAGTATTCATTTAAGTCATTAGACTATTC
* * *
29116154 GAAAGTTTTTATTTAAGTCACTAGACTATT
1 GAAAGTATTCATTTAAGTCATTAGACTATT
29116184 AAGTTGTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.41
Consensus pattern (31 bp):
GAAAGTATTCATTTAAGTCATTAGACTATTC
Found at i:29117144 original size:14 final size:15
Alignment explanation
Indices: 29117121--29117162 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
29117111 AAAAAATAAA
* *
29117121 TATTAAAAAATTAAG
1 TATTGAAAATTTAAG
29117136 TATTGAAAATTTAAG
1 TATTGAAAATTTAAG
29117151 TATT--AAATTTAA
1 TATTGAAAATTTAA
29117163 ATTATAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 8 0.32
15 17 0.68
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.40
Consensus pattern (15 bp):
TATTGAAAATTTAAG
Found at i:29118122 original size:49 final size:49
Alignment explanation
Indices: 29118061--29118159 Score: 155
Period size: 49 Copynumber: 2.0 Consensus size: 49
29118051 AAAATTGTCC
*
29118061 CCTTATTCCCGTAAAATATCTTATTAAATTTCTTTTT-GTAAAACATTTT
1 CCTTATTCCCGTAAAATATCTTATCAAATTT-TTTTTCGTAAAACATTTT
* *
29118110 CCTTTTTCCCGTAAAATGTCTTATCAAATTTTTTTTCGTAAAACATTTT
1 CCTTATTCCCGTAAAATATCTTATCAAATTTTTTTTCGTAAAACATTTT
29118159 C
1 C
29118160 TAAAGTGATA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
48 5 0.11
49 41 0.89
ACGTcount: A:0.28, C:0.18, G:0.05, T:0.48
Consensus pattern (49 bp):
CCTTATTCCCGTAAAATATCTTATCAAATTTTTTTTCGTAAAACATTTT
Found at i:29121051 original size:15 final size:17
Alignment explanation
Indices: 29121033--29121066 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
29121023 AAATTTTAAT
29121033 AAAT-AAAAAT-ATATA
1 AAATAAAAAATAATATA
29121048 AAATAAAAAATAATATA
1 AAATAAAAAATAATATA
29121065 AA
1 AA
29121067 TTATAATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 6 0.35
17 7 0.41
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
AAATAAAAAATAATATA
Found at i:29123360 original size:17 final size:17
Alignment explanation
Indices: 29123338--29123372 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
29123328 AATAAAGTAA
29123338 CAAAACATGCTAGGTTC
1 CAAAACATGCTAGGTTC
29123355 CAAAACATGCTAGGTTC
1 CAAAACATGCTAGGTTC
29123372 C
1 C
29123373 TGAAATAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (17 bp):
CAAAACATGCTAGGTTC
Found at i:29126959 original size:14 final size:14
Alignment explanation
Indices: 29126942--29126970 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
29126932 TTCCTACTTA
29126942 TAAATTCCAAATTC
1 TAAATTCCAAATTC
29126956 TAAATTCCAAATTC
1 TAAATTCCAAATTC
29126970 T
1 T
29126971 CAAACACTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.21, G:0.00, T:0.38
Consensus pattern (14 bp):
TAAATTCCAAATTC
Found at i:29132984 original size:31 final size:31
Alignment explanation
Indices: 29132927--29132985 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
29132917 TTTTATTATT
*
29132927 AATTTTGTTATTATTTTAAAGACATTTGTTA
1 AATTTTGTTATTATTTCAAAGACATTTGTTA
* *
29132958 AATTTTGTTATTATTTCAGAGGCATTTG
1 AATTTTGTTATTATTTCAAAGACATTTG
29132986 CTTGTTAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.29, C:0.05, G:0.14, T:0.53
Consensus pattern (31 bp):
AATTTTGTTATTATTTCAAAGACATTTGTTA
Found at i:29133129 original size:12 final size:12
Alignment explanation
Indices: 29133108--29133141 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
29133098 TATATATTTT
*
29133108 AAAATTATATAA
1 AAAATAATATAA
29133120 AAAATAATATAA
1 AAAATAATATAA
*
29133132 AAATTAATAT
1 AAAATAATAT
29133142 GGGTGGGCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:29140442 original size:11 final size:11
Alignment explanation
Indices: 29140414--29140447 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
29140404 CAATTGGCGT
*
29140414 ATGTATGTATTT
1 ATGTATGTA-TA
29140426 ATGTATGTATA
1 ATGTATGTATA
29140437 ATGTATGTATA
1 ATGTATGTATA
29140448 CCAACATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 12 0.57
12 9 0.43
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (11 bp):
ATGTATGTATA
Found at i:29144311 original size:40 final size:40
Alignment explanation
Indices: 29144264--29144341 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 40
29144254 ACACACCATG
*
29144264 TGGGGATAAAATCGACCCACCCATCCCTGCACACCATATA
1 TGGGGATAAAATCGACCCACCCATCCCTACACACCATATA
**
29144304 TGGGGATAAAATCGACCCGTCCATCCCTACACACCATA
1 TGGGGATAAAATCGACCCACCCATCCCTACACACCATA
29144342 AGGTACTGCA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.32, C:0.35, G:0.15, T:0.18
Consensus pattern (40 bp):
TGGGGATAAAATCGACCCACCCATCCCTACACACCATATA
Found at i:29149412 original size:21 final size:21
Alignment explanation
Indices: 29149379--29149418 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
29149369 TTTTGATGTA
**
29149379 TTATTTTTTATTTCTTTTATT
1 TTATTTTAGATTTCTTTTATT
*
29149400 TTATTTTAGATTTGTTTTA
1 TTATTTTAGATTTCTTTTA
29149419 AGTATTAAGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.17, C:0.03, G:0.05, T:0.75
Consensus pattern (21 bp):
TTATTTTAGATTTCTTTTATT
Found at i:29152622 original size:91 final size:91
Alignment explanation
Indices: 29152467--29152647 Score: 344
Period size: 91 Copynumber: 2.0 Consensus size: 91
29152457 CGATCATGTT
*
29152467 ACATGGCCGTGTGTCCTCTGGTGTTGAAATTAAAATGAAGTCAGTATGCTCTACACAGGCTTACA
1 ACATGGCCGTGTGTCCTCTGGTGTTGAAATTAAAATGAAGTCAGTATACTCTACACAGGCTTACA
29152532 TACGGGCGTGTGACCGGCTGTGTGTA
66 TACGGGCGTGTGACCGGCTGTGTGTA
*
29152558 ACATGGCCGTGTGTCCTCTGGTGTTGAAATTAAAATGAAGTCAGTATACTCTACACGGGCTTACA
1 ACATGGCCGTGTGTCCTCTGGTGTTGAAATTAAAATGAAGTCAGTATACTCTACACAGGCTTACA
29152623 TACGGGCGTGTGACCGGCTGTGTGT
66 TACGGGCGTGTGACCGGCTGTGTGT
29152648 TACAAGTCAG
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
91 88 1.00
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.29
Consensus pattern (91 bp):
ACATGGCCGTGTGTCCTCTGGTGTTGAAATTAAAATGAAGTCAGTATACTCTACACAGGCTTACA
TACGGGCGTGTGACCGGCTGTGTGTA
Found at i:29154448 original size:47 final size:47
Alignment explanation
Indices: 29154409--29154541 Score: 248
Period size: 47 Copynumber: 2.8 Consensus size: 47
29154399 TGTCGACTAC
29154409 TGTTAAAGTTCCGGATTTGTTCCGATGAAGTACTTTGTGTACTATAA
1 TGTTAAAGTTCCGGATTTGTTCCGATGAAGTACTTTGTGTACTATAA
29154456 TGTTAAAGTTCCGGATTTGTTCCGATGAAGTACTTTGTGTACTATAA
1 TGTTAAAGTTCCGGATTTGTTCCGATGAAGTACTTTGTGTACTATAA
* *
29154503 TGTTAAAGTTCCGGATTTGTTCCGATGAAGCACTATGTG
1 TGTTAAAGTTCCGGATTTGTTCCGATGAAGTACTTTGTG
29154542 CTTATCCCGG
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 84 1.00
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.39
Consensus pattern (47 bp):
TGTTAAAGTTCCGGATTTGTTCCGATGAAGTACTTTGTGTACTATAA
Found at i:29161752 original size:47 final size:47
Alignment explanation
Indices: 29161713--29161845 Score: 248
Period size: 47 Copynumber: 2.8 Consensus size: 47
29161703 TGTCGACTAC
29161713 TGTTAAAGTTCCGGATTTGTTCCGATGAAGTACTTTGTGTACTATAA
1 TGTTAAAGTTCCGGATTTGTTCCGATGAAGTACTTTGTGTACTATAA
29161760 TGTTAAAGTTCCGGATTTGTTCCGATGAAGTACTTTGTGTACTATAA
1 TGTTAAAGTTCCGGATTTGTTCCGATGAAGTACTTTGTGTACTATAA
* *
29161807 TGTTAAAGTTCCGGATTTGTTCCGATGAAGCACTATGTG
1 TGTTAAAGTTCCGGATTTGTTCCGATGAAGTACTTTGTG
29161846 CTTATCCCGG
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 84 1.00
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.39
Consensus pattern (47 bp):
TGTTAAAGTTCCGGATTTGTTCCGATGAAGTACTTTGTGTACTATAA
Found at i:29164848 original size:19 final size:19
Alignment explanation
Indices: 29164824--29164863 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
29164814 ACCAAAGCAA
29164824 TTTCAAGTCACATAATAAG
1 TTTCAAGTCACATAATAAG
29164843 TTTCAAGTCACATAATAAG
1 TTTCAAGTCACATAATAAG
29164862 TT
1 TT
29164864 AAAAGCAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (19 bp):
TTTCAAGTCACATAATAAG
Found at i:29165082 original size:38 final size:39
Alignment explanation
Indices: 29165008--29165093 Score: 104
Period size: 38 Copynumber: 2.2 Consensus size: 39
29164998 CTACAACGAT
* * * *
29165008 GCTAGATCACGTTAAATAACCCGAGAACTTGCAAC-AAG
1 GCTAGATCTCATTAAATAACCCAAGAACTTGAAACAAAG
*
29165046 GCTAGATCTCATTAAATAACCCAAGAA-TCTGAAACAAAT
1 GCTAGATCTCATTAAATAACCCAAGAACT-TGAAACAAAG
29165085 GCTAGATCT
1 GCTAGATCT
29165094 TGTTATAACA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
37 1 0.02
38 29 0.71
39 11 0.27
ACGTcount: A:0.41, C:0.22, G:0.15, T:0.22
Consensus pattern (39 bp):
GCTAGATCTCATTAAATAACCCAAGAACTTGAAACAAAG
Found at i:29166598 original size:39 final size:39
Alignment explanation
Indices: 29166544--29166621 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
29166534 AGGAGAAATT
29166544 AGGTTTTAGTCTTTTTAGGTGTTATTTAGGTTTGGGTTG
1 AGGTTTTAGTCTTTTTAGGTGTTATTTAGGTTTGGGTTG
29166583 AGGTTTTAGTCTTTTTAGGTGTTATTTAGGTTTGGGTTG
1 AGGTTTTAGTCTTTTTAGGTGTTATTTAGGTTTGGGTTG
29166622 GGCCTTGGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.13, C:0.03, G:0.31, T:0.54
Consensus pattern (39 bp):
AGGTTTTAGTCTTTTTAGGTGTTATTTAGGTTTGGGTTG
Found at i:29169273 original size:12 final size:11
Alignment explanation
Indices: 29169253--29169279 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
29169243 TTCTTTTAAC
29169253 TTTTCTTTTTT
1 TTTTCTTTTTT
29169264 TTTTCTTTTTT
1 TTTTCTTTTTT
29169275 TTTTC
1 TTTTC
29169280 ATTCTCTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (11 bp):
TTTTCTTTTTT
Found at i:29176149 original size:144 final size:144
Alignment explanation
Indices: 29175889--29176182 Score: 482
Period size: 144 Copynumber: 2.0 Consensus size: 144
29175879 GAAAAAGTAA
* * **
29175889 ACAAAATAAAGATTCTAAACATTTACTATCACCTTTCTGCCTGCCGATAACAGTCTTTTCAACTT
1 ACAAAATAAAGATTCTAAACATTTAATATCACCTTTCTGCCTGCCAATAACAGTCCCTTCAACTT
29175954 ACTTTCTACAGATTTAAGTTCAATATTTCAAAAGTTCTTAGCATGTGACTCTCTTAATCAGATAA
66 ACTTTCTACAGATTTAAGTTCAATATTTCAAAAGTTCTTAGCATGTGACTCTCTTAATCAGATAA
**
29176019 GTTCTTAATAAGTG
131 GTTCCCAATAAGTG
* * *
29176033 ACAAAATAAAGATTCTACACGTTTAATTTCACCTTTCTGCCTGCCAATAACAGTCCCTTCAACTT
1 ACAAAATAAAGATTCTAAACATTTAATATCACCTTTCTGCCTGCCAATAACAGTCCCTTCAACTT
*
29176098 ACTTTCTACTGATTTAAGTTCAATATTTCAATAA-TTCTTAGCATGTGACTCTCTTAATCAGATA
66 ACTTTCTACAGATTTAAGTTCAATATTTCAA-AAGTTCTTAGCATGTGACTCTCTTAATCAGATA
29176162 AGTTCCCAATAAGTG
130 AGTTCCCAATAAGTG
29176177 ACAAAA
1 ACAAAA
29176183 CCGTGCAGAA
Statistics
Matches: 139, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
144 137 0.99
145 2 0.01
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.36
Consensus pattern (144 bp):
ACAAAATAAAGATTCTAAACATTTAATATCACCTTTCTGCCTGCCAATAACAGTCCCTTCAACTT
ACTTTCTACAGATTTAAGTTCAATATTTCAAAAGTTCTTAGCATGTGACTCTCTTAATCAGATAA
GTTCCCAATAAGTG
Found at i:29177964 original size:142 final size:142
Alignment explanation
Indices: 29177725--29178061 Score: 500
Period size: 142 Copynumber: 2.4 Consensus size: 142
29177715 CTTTTGATAC
* * * * *
29177725 AAGTTACATTCAAGCCTCCACTCATCGAGCCAAACATTAAATGTAAATAATGT--TTTTTAGTCC
1 AAGTTACATTCATGCCTCCACTCATAGACCCAAACATTAAATGTAAATAATGTAACTTGTAGTCC
* *
29177788 TTTAAGTGATCAGCATTTATCCATGCCTTAACATTTTAAACCAAATATAGAATAGAAAAAATAAA
66 TTCAAGTGATCACCATTTATCCATGCCTTAACATTTTAAACCAAATATAGAATAG-AAAAATAAA
* *
29177853 CAGCATATATTAT
130 CAGCATACACTAT
* * *
29177866 AAGTTACATACATGCCTTCACCCAT-GACCCAAACATTAAATGTAAATAATGTAACTTGTAGTCC
1 AAGTTACATTCATGCCTCCACTCATAGACCCAAACATTAAATGTAAATAATGTAACTTGTAGTCC
* * *
29177930 TTCATGTGATCACCATTTATCCATGCCTTAACATTTTAAACCAAATATAGACTAGAAACATAAAC
66 TTCAAGTGATCACCATTTATCCATGCCTTAACATTTTAAACCAAATATAGAATAGAAAAATAAAC
29177995 AGCATACACTAT
131 AGCATACACTAT
*
29178007 AAGTTACATTCATGCCTCCACTCATAGACCCAATCATTAAATGTAAATAATGTAA
1 AAGTTACATTCATGCCTCCACTCATAGACCCAAACATTAAATGTAAATAATGTAA
29178062 ATAATGTAAA
Statistics
Matches: 175, Mismatches: 18, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
140 26 0.15
141 62 0.35
142 87 0.50
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.30
Consensus pattern (142 bp):
AAGTTACATTCATGCCTCCACTCATAGACCCAAACATTAAATGTAAATAATGTAACTTGTAGTCC
TTCAAGTGATCACCATTTATCCATGCCTTAACATTTTAAACCAAATATAGAATAGAAAAATAAAC
AGCATACACTAT
Found at i:29178060 original size:9 final size:9
Alignment explanation
Indices: 29178046--29178072 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
29178036 CCAATCATTA
29178046 AATGTAAAT
1 AATGTAAAT
29178055 AATGTAAAT
1 AATGTAAAT
29178064 AATGTAAAT
1 AATGTAAAT
29178073 TTTTAGTCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.11, T:0.33
Consensus pattern (9 bp):
AATGTAAAT
Found at i:29181815 original size:11 final size:11
Alignment explanation
Indices: 29181801--29181844 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
29181791 AAATAGGGAG
*
29181801 AAAACAATAAT
1 AAAACAACAAT
* *
29181812 AAAATAACATT
1 AAAACAACAAT
29181823 AAAACAACAAT
1 AAAACAACAAT
*
29181834 AAAATAACAAT
1 AAAACAACAAT
29181845 TTTTTTGTCC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.70, C:0.11, G:0.00, T:0.18
Consensus pattern (11 bp):
AAAACAACAAT
Found at i:29181826 original size:22 final size:22
Alignment explanation
Indices: 29181801--29181842 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
29181791 AAATAGGGAG
*
29181801 AAAACAATAATAAAATAACATT
1 AAAACAACAATAAAATAACATT
29181823 AAAACAACAATAAAATAACA
1 AAAACAACAATAAAATAACA
29181843 ATTTTTTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.71, C:0.12, G:0.00, T:0.17
Consensus pattern (22 bp):
AAAACAACAATAAAATAACATT
Found at i:29185523 original size:33 final size:32
Alignment explanation
Indices: 29185477--29185540 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 32
29185467 CATAATAGTG
*
29185477 AAATAATAGAAAACAACGAGA-AAACAACAATA
1 AAATAATAGAAAACAAC-AAACAAACAACAATA
*
29185509 AAATAGTAGTAAAACAACAAACAAACAACAAT
1 AAATAATAG-AAAACAACAAACAAACAACAAT
29185541 TTTTTTTTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 10 0.36
33 18 0.64
ACGTcount: A:0.67, C:0.14, G:0.08, T:0.11
Consensus pattern (32 bp):
AAATAATAGAAAACAACAAACAAACAACAATA
Found at i:29189207 original size:42 final size:43
Alignment explanation
Indices: 29189146--29189255 Score: 143
Period size: 42 Copynumber: 2.6 Consensus size: 43
29189136 GACTTCTATT
29189146 TTACATGTAAGACCATGTCTGGGACA-TCAGCATCG-TATCTGA
1 TTACATGTAAGACCATGTCTGGGACAGT-AGCATCGATATCTGA
* * * * * *
29189188 TTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGATGTTTGA
1 TTACATGTAAGACCATGTCTGGGACAGTAGCATCGATATCTGA
29189231 TTACATGTAAGACCATGTCTGGGAC
1 TTACATGTAAGACCATGTCTGGGAC
29189256 GTTGGCATTG
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
42 29 0.51
43 28 0.49
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (43 bp):
TTACATGTAAGACCATGTCTGGGACAGTAGCATCGATATCTGA
Found at i:29189250 original size:43 final size:42
Alignment explanation
Indices: 29189146--29189268 Score: 142
Period size: 43 Copynumber: 2.9 Consensus size: 42
29189136 GACTTCTATT
*
29189146 TTACATGTAAGACCATGTCTGGGACA-TCAGCATCGTATCTGA
1 TTACATGTAAGACCATGTCTGGGACAGT-GGCATCGTATCTGA
* * * * *
29189188 TTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGATGTTTGA
1 TTACATGTAAGACCATGTCTGGGACAGTGGCATCG-TATCTGA
*
29189231 TTACATGTAAGACCATGTCTGGGAC-GTTGGCATTGTAT
1 TTACATGTAAGACCATGTCTGGGACAG-TGGCATCGTAT
29189269 ATGTTTTCCG
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
42 32 0.48
43 35 0.52
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.32
Consensus pattern (42 bp):
TTACATGTAAGACCATGTCTGGGACAGTGGCATCGTATCTGA
Found at i:29190643 original size:13 final size:13
Alignment explanation
Indices: 29190625--29190651 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
29190615 AAGACTCGAA
29190625 ATGTAACACCCTT
1 ATGTAACACCCTT
29190638 ATGTAACACCCTT
1 ATGTAACACCCTT
29190651 A
1 A
29190652 ACCCATACCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.30, G:0.07, T:0.30
Consensus pattern (13 bp):
ATGTAACACCCTT
Found at i:29192226 original size:39 final size:39
Alignment explanation
Indices: 29192141--29192264 Score: 176
Period size: 39 Copynumber: 3.2 Consensus size: 39
29192131 CCGAGTCCAA
* * * * * *
29192141 TTTCTAGCACAAAGCCTGCGGGACTTTAAGCCCGGATATA
1 TTTCCAGCACATAGCCTGC-GGACCTCAAGTCCGGATATG
29192181 TTTCCAGCACATAGCCTGCGGACCTCAAGTCCGGATATG
1 TTTCCAGCACATAGCCTGCGGACCTCAAGTCCGGATATG
*
29192220 TTTCCAGCACGTAGCCTGCGGACCTCAAGTCCGGATATG
1 TTTCCAGCACATAGCCTGCGGACCTCAAGTCCGGATATG
29192259 TTTCCA
1 TTTCCA
29192265 AGTATCATGC
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 60 0.78
40 17 0.22
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.25
Consensus pattern (39 bp):
TTTCCAGCACATAGCCTGCGGACCTCAAGTCCGGATATG
Found at i:29192935 original size:2 final size:2
Alignment explanation
Indices: 29192928--29192952 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
29192918 TAAGGCATAA
29192928 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
29192953 GTGCATGCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:29200142 original size:39 final size:39
Alignment explanation
Indices: 29200057--29200180 Score: 167
Period size: 39 Copynumber: 3.2 Consensus size: 39
29200047 CCGAGTCCAA
* * * * * *
29200057 TTTCTAGCACAAAGCCTGCGGGACTTTAAGCCCGGATATA
1 TTTCCAGCACATAGCCTGC-GGACCTCAAGTCCGGATATG
29200097 TTTCCAGCACATAGCCTGCGGACCTCAAGTCCGGATATG
1 TTTCCAGCACATAGCCTGCGGACCTCAAGTCCGGATATG
**
29200136 TTTCCAGCATGTAGCCTGCGGACCTCAAGTCCGGATATG
1 TTTCCAGCACATAGCCTGCGGACCTCAAGTCCGGATATG
29200175 TTTCCA
1 TTTCCA
29200181 AGTATCATGC
Statistics
Matches: 76, Mismatches: 8, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
39 59 0.78
40 17 0.22
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
TTTCCAGCACATAGCCTGCGGACCTCAAGTCCGGATATG
Found at i:29208244 original size:30 final size:30
Alignment explanation
Indices: 29208210--29208269 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
29208200 TATTTTATTA
* *
29208210 TTAATTTTGTTCTTATTTTAAAGGCATTTG
1 TTAATTTGGTTATTATTTTAAAGGCATTTG
* *
29208240 TTAATTTGGTTATTATTTTAGAGGTATTTG
1 TTAATTTGGTTATTATTTTAAAGGCATTTG
29208270 CTTGTTAAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.23, C:0.03, G:0.17, T:0.57
Consensus pattern (30 bp):
TTAATTTGGTTATTATTTTAAAGGCATTTG
Found at i:29209155 original size:16 final size:16
Alignment explanation
Indices: 29209136--29209166 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
29209126 TTTCTAGAAA
29209136 TTTAATAAATTTATTT
1 TTTAATAAATTTATTT
*
29209152 TTTAGTAAATTTATT
1 TTTAATAAATTTATT
29209167 CTATATTCTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.61
Consensus pattern (16 bp):
TTTAATAAATTTATTT
Found at i:29210312 original size:18 final size:19
Alignment explanation
Indices: 29210291--29210331 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
29210281 TTATATTTTT
29210291 AAATAAATTT-AAAT-TTAA
1 AAAT-AATTTAAAATCTTAA
*
29210309 AAATATTTTAAAATCTTAA
1 AAATAATTTAAAATCTTAA
29210328 AAAT
1 AAAT
29210332 CTACTAACCC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 4 0.20
18 8 0.40
19 8 0.40
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (19 bp):
AAATAATTTAAAATCTTAA
Found at i:29212816 original size:2 final size:2
Alignment explanation
Indices: 29212809--29212836 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
29212799 ACATATTTAC
29212809 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
29212837 GAATACCAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:29216947 original size:47 final size:47
Alignment explanation
Indices: 29216853--29216947 Score: 109
Period size: 47 Copynumber: 2.0 Consensus size: 47
29216843 TTTAATTTAC
* * **
29216853 AAATAAATTAATAAAATAAAAAGACATACACTTAGATATATTTTTAA
1 AAATAAATTAAAAAAATAAAAAGACACACACTTAGATATATACTTAA
* * ** *
29216900 AAATAAATTAAAAAAATAAAAAGATACATACTTTTATGTATACTTAA
1 AAATAAATTAAAAAAATAAAAAGACACACACTTAGATATATACTTAA
29216947 A
1 A
29216948 GAAATTAAAA
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
47 39 1.00
ACGTcount: A:0.58, C:0.06, G:0.04, T:0.32
Consensus pattern (47 bp):
AAATAAATTAAAAAAATAAAAAGACACACACTTAGATATATACTTAA
Found at i:29217711 original size:15 final size:16
Alignment explanation
Indices: 29217691--29217724 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
29217681 AACTTTGTTA
*
29217691 ATAATTTTTTATA-AT
1 ATAATTTTTAATATAT
29217706 ATAATTTTTAATATAT
1 ATAATTTTTAATATAT
29217722 ATA
1 ATA
29217725 TATATATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
ATAATTTTTAATATAT
Found at i:29218149 original size:21 final size:21
Alignment explanation
Indices: 29218119--29218175 Score: 73
Period size: 21 Copynumber: 2.7 Consensus size: 21
29218109 TATTTAAATT
*
29218119 TTATTGAAAATTAG-AAAAAGAA
1 TTATTAAAAATT-GTAAAAA-AA
29218141 TTA-TAAAAATTGTAAAAAAA
1 TTATTAAAAATTGTAAAAAAA
29218161 TTATTAAAAATTGTA
1 TTATTAAAAATTGTA
29218176 CGGTGGTATC
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
20 6 0.19
21 23 0.72
22 3 0.09
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (21 bp):
TTATTAAAAATTGTAAAAAAA
Found at i:29219312 original size:31 final size:30
Alignment explanation
Indices: 29219274--29219365 Score: 114
Period size: 31 Copynumber: 3.0 Consensus size: 30
29219264 TTTAATTTAT
29219274 TTTTTTAAAATTTAAAAATATATAAAAATTA
1 TTTTTTAAAATTTAAAAAT-TATAAAAATTA
* *
29219305 TTTTTTAAGAA-TTAAGAATTATTAAAATTA
1 TTTTTTAA-AATTTAAAAATTATAAAAATTA
* *
29219335 TTTTTTAAATATTTTAAAATTTTAAAAATTA
1 TTTTTTAAA-ATTTAAAAATTATAAAAATTA
29219366 ATTAAATGCT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
29 1 0.02
30 19 0.37
31 30 0.58
32 2 0.04
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (30 bp):
TTTTTTAAAATTTAAAAATTATAAAAATTA
Found at i:29221682 original size:18 final size:20
Alignment explanation
Indices: 29221659--29221703 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 20
29221649 TAAAATTGAC
* *
29221659 AATATGTT-ATATATTTA-A
1 AATATGTTGATAAAATTATA
29221677 AATATGTTGATAAAATTATA
1 AATATGTTGATAAAATTATA
29221697 AATATGT
1 AATATGT
29221704 AAGATAAGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 8 0.35
19 7 0.30
20 8 0.35
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (20 bp):
AATATGTTGATAAAATTATA
Found at i:29221701 original size:20 final size:18
Alignment explanation
Indices: 29221649--29221703 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
29221639 TTAAAAAGAC
*
29221649 TAAAATTGACAATATGTTA
1 TAAAATT-AAAATATGTTA
* *
29221668 TATATTTAAAATATGTTGA
1 TAAAATTAAAATATGTT-A
29221687 TAAAATTATAAATATGT
1 TAAAATTA-AAATATGT
29221704 AAGATAAGAC
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
18 9 0.31
19 12 0.41
20 8 0.28
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.42
Consensus pattern (18 bp):
TAAAATTAAAATATGTTA
Found at i:29229495 original size:13 final size:13
Alignment explanation
Indices: 29229476--29229537 Score: 54
Period size: 13 Copynumber: 4.8 Consensus size: 13
29229466 TTTGGCAATG
29229476 CTTTTGAAAAGTA
1 CTTTTGAAAAGTA
* *
29229489 TTTTTGAGAAGTA
1 CTTTTGAAAAGTA
* * *
29229502 CTGTGGAAAAATA
1 CTTTTGAAAAGTA
*
29229515 CTTTTGAGAAGTGA
1 CTTTTGAAAAGT-A
29229529 -TTTTGAAAA
1 CTTTTGAAAA
29229538 ATTTGGTTTA
Statistics
Matches: 36, Mismatches: 12, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
13 35 0.97
14 1 0.03
ACGTcount: A:0.37, C:0.05, G:0.21, T:0.37
Consensus pattern (13 bp):
CTTTTGAAAAGTA
Found at i:29229536 original size:26 final size:26
Alignment explanation
Indices: 29229476--29229539 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
29229466 TTTGGCAATG
* *
29229476 CTTTTGAAAAGTATTTTTGAGAAGTA
1 CTTTTGAAAAATACTTTTGAGAAGTA
* *
29229502 CTGTGGAAAAATACTTTTGAGAAGTGA
1 CTTTTGAAAAATACTTTTGAGAAGT-A
29229529 -TTTTGAAAAAT
1 CTTTTGAAAAAT
29229540 TTGGTTTAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
26 30 0.97
27 1 0.03
ACGTcount: A:0.38, C:0.05, G:0.20, T:0.38
Consensus pattern (26 bp):
CTTTTGAAAAATACTTTTGAGAAGTA
Found at i:29230427 original size:10 final size:10
Alignment explanation
Indices: 29230395--29230428 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
29230385 AAATTTCGTA
29230395 TTTTTAAAAT
1 TTTTTAAAAT
*
29230405 TTTATATAAAT
1 TTTTTA-AAAT
29230416 TTTTTAAAAT
1 TTTTTAAAAT
29230426 TTT
1 TTT
29230429 CAAGACATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
TTTTTAAAAT
Found at i:29232015 original size:3 final size:3
Alignment explanation
Indices: 29232007--29232039 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
29231997 AAAAATTTCC
29232007 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
29232040 TTGCTTCACC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:29236070 original size:22 final size:23
Alignment explanation
Indices: 29236045--29236087 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
29236035 AAAAAGTTAT
29236045 AAAATAATCATTTAA-TTATTTG
1 AAAATAATCATTTAAGTTATTTG
**
29236067 AAAATTTTCATTTAAGTTATT
1 AAAATAATCATTTAAGTTATT
29236088 ATTGTCGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.49
Consensus pattern (23 bp):
AAAATAATCATTTAAGTTATTTG
Found at i:29239214 original size:23 final size:23
Alignment explanation
Indices: 29239186--29239229 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
29239176 AGTAAAAAAC
*
29239186 ATAATAGAAA-AATATAATAAATA
1 ATAATA-AAAGAAAATAATAAATA
29239209 ATAATAAAAGAAAATAATAAA
1 ATAATAAAAGAAAATAATAAA
29239230 ATTAACTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.23
Consensus pattern (23 bp):
ATAATAAAAGAAAATAATAAATA
Found at i:29243534 original size:7 final size:7
Alignment explanation
Indices: 29243522--29243546 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
29243512 TTTTCATATT
29243522 TTCTTTA
1 TTCTTTA
29243529 TTCTTTA
1 TTCTTTA
29243536 TTCTTTA
1 TTCTTTA
29243543 TTCT
1 TTCT
29243547 CCCCATCTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.16, G:0.00, T:0.72
Consensus pattern (7 bp):
TTCTTTA
Found at i:29248031 original size:40 final size:40
Alignment explanation
Indices: 29247987--29248096 Score: 136
Period size: 40 Copynumber: 2.7 Consensus size: 40
29247977 TATGTTTGGT
29247987 ACTTAGTGTGCG-TTTCGAGATAGCTTCGACTATATATAGC
1 ACTTAGTGTGCGATTT-GAGATAGCTTCGACTATATATAGC
* * *
29248027 ACTTAGTGTGCGAATTG-GAATAGCTTCGACTATATGTGGC
1 ACTTAGTGTGCGATTTGAG-ATAGCTTCGACTATATATAGC
29248067 AC-TAGGTGTGCGATATTGAGATAGCTTCGA
1 ACTTA-GTGTGCGAT-TTGAGATAGCTTCGA
29248097 TTTAATGTGA
Statistics
Matches: 61, Mismatches: 4, Indels: 9
0.82 0.05 0.12
Matches are distributed among these distances:
39 3 0.05
40 42 0.69
41 15 0.25
42 1 0.02
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.33
Consensus pattern (40 bp):
ACTTAGTGTGCGATTTGAGATAGCTTCGACTATATATAGC
Found at i:29251842 original size:20 final size:20
Alignment explanation
Indices: 29251804--29251851 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
29251794 TTAAATTCTA
* **
29251804 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
29251824 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
29251844 AAA-ATAAA
1 AAAGATAAA
29251852 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:29258395 original size:27 final size:27
Alignment explanation
Indices: 29258354--29258407 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
29258344 CTCAATCGAA
*
29258354 AATAAATAAGGAAAGAGAGATTTAAGG
1 AATAAATAAGAAAAGAGAGATTTAAGG
29258381 AATAAATAAGAAAAGAGAGATTTAAGG
1 AATAAATAAGAAAAGAGAGATTTAAGG
29258408 CATTCTAGGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.57, C:0.00, G:0.24, T:0.19
Consensus pattern (27 bp):
AATAAATAAGAAAAGAGAGATTTAAGG
Found at i:29259252 original size:44 final size:42
Alignment explanation
Indices: 29259105--29259256 Score: 147
Period size: 40 Copynumber: 3.7 Consensus size: 42
29259095 CGATAAATTA
* *
29259105 ACTATAT-TTGGCACTTAGTGTGCG-T-TTCAAGATAGCTTCG
1 ACTATATGATGGCACTAAGTGTGCGATATT-AAGATAGCTTCG
* * *
29259145 ACTATAT-ATAGCACTTAGTGTGCGA-ATT-GGAATAGCTTCG
1 ACTATATGATGGCACTAAGTGTGCGATATTAAG-ATAGCTTCG
*
29259185 ACTATATG-TGGCACTAGGTGTGCGATATTAAGATAGCTTCG
1 ACTATATGATGGCACTAAGTGTGCGATATTAAGATAGCTTCG
* *
29259226 ATTTAATGTGATGGCACTAAGTGTGCGATAT
1 A-CT-ATATGATGGCACTAAGTGTGCGATAT
29259257 CGTTATAGCT
Statistics
Matches: 93, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
39 1 0.01
40 52 0.56
41 15 0.16
42 2 0.02
43 4 0.04
44 19 0.20
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.34
Consensus pattern (42 bp):
ACTATATGATGGCACTAAGTGTGCGATATTAAGATAGCTTCG
Found at i:29259416 original size:18 final size:19
Alignment explanation
Indices: 29259380--29259416 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
29259370 ATATGGGAGA
29259380 CTATAGGTACGTATGATAC
1 CTATAGGTACGTATGATAC
29259399 CTATATGGTA-GT-TGATAC
1 CTATA-GGTACGTATGATAC
29259417 TAAGTGTATG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 6 0.35
19 7 0.41
20 4 0.24
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.35
Consensus pattern (19 bp):
CTATAGGTACGTATGATAC
Found at i:29261107 original size:46 final size:46
Alignment explanation
Indices: 29261057--29261232 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
29261047 TGGTTGAGCA
29261057 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
29261103 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
29261148 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
29261196 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
29261233 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:29261213 original size:93 final size:93
Alignment explanation
Indices: 29261054--29261225 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
29261044 GGATGGTTGA
* *
29261054 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
29261119 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
29261147 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
29261212 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
29261226 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:29268673 original size:46 final size:46
Alignment explanation
Indices: 29268623--29268798 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
29268613 TGGTTGAGCA
29268623 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
29268669 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
29268714 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
29268762 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
29268799 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:29268779 original size:93 final size:93
Alignment explanation
Indices: 29268620--29268791 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
29268610 GGATGGTTGA
* *
29268620 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
29268685 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
29268713 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
29268778 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
29268792 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:29271005 original size:40 final size:40
Alignment explanation
Indices: 29270961--29271055 Score: 111
Period size: 40 Copynumber: 2.4 Consensus size: 40
29270951 ACTATGTTTG
* * *
29270961 GCACTTAGTGTGTG-TTTCGAGATAGCTTTGGCTATATATA
1 GCACTTAGTGTGCGAGTTCGA-ATAACTTTGGCTATATATA
* * *
29271001 GCACTTAGTGTGCGAGTTGGAATAACTTTGGCTATATGTG
1 GCACTTAGTGTGCGAGTTCGAATAACTTTGGCTATATATA
*
29271041 GCACTAAGTGTGCGA
1 GCACTTAGTGTGCGA
29271056 TATTGAGATA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
40 43 0.91
41 4 0.09
ACGTcount: A:0.23, C:0.14, G:0.28, T:0.35
Consensus pattern (40 bp):
GCACTTAGTGTGCGAGTTCGAATAACTTTGGCTATATATA
Found at i:29273638 original size:34 final size:34
Alignment explanation
Indices: 29273595--29273838 Score: 208
Period size: 34 Copynumber: 7.0 Consensus size: 34
29273585 CTTTAGACAT
* * ** *
29273595 GACATGCTTATAGCAGATCAATATGGTAGTAATA
1 GACATGCTTATAACAAATCAATACAGTAGCAATA
29273629 GACATGCTTATAACAAATCAATACAGTAGCAATA
1 GACATGCTTATAACAAATCAATACAGTAGCAATA
* * *
29273663 GACATGCTTATAACAAGTCAGTATAGTAGCAAAGTCA
1 GACATGCTTATAACAAATCAATACAGTAGC-AA-T-A
*
29273700 TGTTTACGTGCTTATAACAAATCAATAC-GATAGCAATA
1 -G---ACATGCTTATAACAAATCAATACAG-TAGCAATA
29273738 GACATGCTTATAACAAATCAATA-AGATAGCAATA
1 GACATGCTTATAACAAATCAATACAG-TAGCAATA
** * *
29273772 G-CATGCTTATAACAAATTGATATAGTAACAATTA
1 GACATGCTTATAACAAATCAATACAGTAGCAA-TA
* * * * *
29273806 -TCATGCTTATAACATATCATTACAATAACAATA
1 GACATGCTTATAACAAATCAATACAGTAGCAATA
29273839 AACTTACTTA
Statistics
Matches: 176, Mismatches: 22, Indels: 25
0.79 0.10 0.11
Matches are distributed among these distances:
33 26 0.15
34 116 0.66
35 2 0.01
36 1 0.01
37 2 0.01
38 2 0.01
39 1 0.01
40 3 0.02
41 23 0.13
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.28
Consensus pattern (34 bp):
GACATGCTTATAACAAATCAATACAGTAGCAATA
Found at i:29274794 original size:22 final size:22
Alignment explanation
Indices: 29274757--29274823 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 22
29274747 ACTTAATATT
*
29274757 TAAGTAAATAT-ATAATATAATAA
1 TAAGTAAATATAATAAAAT-A-AA
29274780 TAAAGTAAATATAATAAAATAAA
1 T-AAGTAAATATAATAAAATAAA
29274803 TAAGTAAATGA-AAT-AAATAAA
1 TAAGTAAAT-ATAATAAAATAAA
29274824 GAAAAGAAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
21 7 0.17
22 11 0.28
23 5 0.12
24 11 0.28
25 6 0.15
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (22 bp):
TAAGTAAATATAATAAAATAAA
Found at i:29274795 original size:14 final size:13
Alignment explanation
Indices: 29274758--29274824 Score: 52
Period size: 13 Copynumber: 5.2 Consensus size: 13
29274748 CTTAATATTT
*
29274758 AAGTAAATATAT-
1 AAGTAAATAAATA
29274770 AA-TATAAT-AATA
1 AAGTA-AATAAATA
29274782 AAGTAAATATAATA
1 AAGTAAATA-AATA
* *
29274796 AAATAAATAAGTA
1 AAGTAAATAAATA
29274809 AA-TGAAATAAATA
1 AAGT-AAATAAATA
29274822 AAG
1 AAG
29274825 AAAAGAAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
11 4 0.09
12 11 0.25
13 17 0.39
14 12 0.27
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.27
Consensus pattern (13 bp):
AAGTAAATAAATA
Found at i:29274882 original size:9 final size:9
Alignment explanation
Indices: 29274868--29274904 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
29274858 ACGGAACATG
29274868 AAGAAAAGA
1 AAGAAAAGA
29274877 AAGAAAAGA
1 AAGAAAAGA
29274886 AAGAAAAGA
1 AAGAAAAGA
*
29274895 GAG-AAAGA
1 AAGAAAAGA
29274903 AA
1 AA
29274905 TGAGAAACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
8 6 0.23
9 20 0.77
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (9 bp):
AAGAAAAGA
Found at i:29276435 original size:13 final size:13
Alignment explanation
Indices: 29276417--29276446 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
29276407 AATATATACA
29276417 TATGAGTATATGT
1 TATGAGTATATGT
29276430 TATGAGTATATGT
1 TATGAGTATATGT
29276443 TATG
1 TATG
29276447 TTAAGGCTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (13 bp):
TATGAGTATATGT
Found at i:29280282 original size:9 final size:9
Alignment explanation
Indices: 29280270--29280324 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
29280260 CTGGTTTTTT
29280270 TTTTTTTAC
1 TTTTTTTAC
29280279 TTTTTTTAAC
1 TTTTTTT-AC
29280289 TTTTGTCCTT-C
1 TTTT-T--TTAC
*
29280300 TTTCTTT-C
1 TTTTTTTAC
29280308 TTTTTTTAC
1 TTTTTTTAC
29280317 TTTTTTTA
1 TTTTTTTA
29280325 AGTTTTGTCT
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
8 9 0.23
9 16 0.41
10 7 0.18
11 5 0.13
13 2 0.05
ACGTcount: A:0.09, C:0.15, G:0.02, T:0.75
Consensus pattern (9 bp):
TTTTTTTAC
Found at i:29280352 original size:37 final size:38
Alignment explanation
Indices: 29280270--29280355 Score: 113
Period size: 38 Copynumber: 2.3 Consensus size: 38
29280260 CTGGTTTTTT
* * *
29280270 TTTTTTTACTTTTTTTAACTTTTGTCCTTCTTTCTTTC
1 TTTTTTTACTTTTTTTAACTTTTGTCCTTCTATCCTTA
*
29280308 TTTTTTTACTTTTTTTAAGTTTTGT-CTT-TATCCTTA
1 TTTTTTTACTTTTTTTAACTTTTGTCCTTCTATCCTTA
29280344 TTTATTTTACTT
1 TTT-TTTTACTT
29280356 ATTATTAATG
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
36 8 0.19
37 11 0.26
38 24 0.56
ACGTcount: A:0.12, C:0.14, G:0.03, T:0.71
Consensus pattern (38 bp):
TTTTTTTACTTTTTTTAACTTTTGTCCTTCTATCCTTA
Found at i:29280435 original size:21 final size:20
Alignment explanation
Indices: 29280411--29280471 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 20
29280401 TAATATATAT
*
29280411 TTTTGAAATTATTTTTTTAAA
1 TTTT-AAATTATTTTTTAAAA
29280432 TTTTAAA-TATTAGTTTTAAAA
1 TTTTAAATTATT--TTTTAAAA
*
29280453 TATTAAATATATTTTTTAA
1 TTTTAAAT-TATTTTTTAA
29280472 TAATATAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
19 4 0.12
20 3 0.09
21 23 0.68
23 4 0.12
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.57
Consensus pattern (20 bp):
TTTTAAATTATTTTTTAAAA
Found at i:29280468 original size:20 final size:20
Alignment explanation
Indices: 29280423--29280487 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 20
29280413 TTGAAATTAT
* *
29280423 TTTTTTAAATTTTAAATATTA
1 TTTTTAAAATATTAAATA-TA
*
29280444 GTTTTAAAATATTAAATATA
1 TTTTTAAAATATTAAATATA
29280464 TTTTTTAATAATA-TAAA-ATA
1 -TTTTTAA-AATATTAAATATA
29280484 TTTT
1 TTTT
29280488 AATATTTTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
19 4 0.11
20 5 0.13
21 25 0.66
22 4 0.11
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (20 bp):
TTTTTAAAATATTAAATATA
Found at i:29280565 original size:29 final size:30
Alignment explanation
Indices: 29280526--29280593 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 30
29280516 TTATTATTAG
29280526 TTTTATAATATTTTAAATGTATATTT-TAA-A
1 TTTTA-AATATTTTAAATGTAT-TTTATAATA
* *
29280556 TTTTAAATATTTTTAATTTATTTTATAATA
1 TTTTAAATATTTTAAATGTATTTTATAATA
29280586 TTTTAAAT
1 TTTTAAAT
29280594 TATAATTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
28 3 0.09
29 17 0.50
30 14 0.41
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (30 bp):
TTTTAAATATTTTAAATGTATTTTATAATA
Found at i:29280578 original size:20 final size:21
Alignment explanation
Indices: 29280555--29280594 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
29280545 TATATTTTAA
*
29280555 ATTTTA-AATATTTTTAATTT
1 ATTTTATAATATTTTAAATTT
29280575 ATTTTATAATATTTTAAATT
1 ATTTTATAATATTTTAAATT
29280595 ATAATTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTTTATAATATTTTAAATTT
Found at i:29280596 original size:20 final size:20
Alignment explanation
Indices: 29280555--29280596 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
29280545 TATATTTTAA
*
29280555 ATTTTAAATATTTTTAATTT
1 ATTTTAAATATTTTTAAATT
29280575 ATTTTATAATA-TTTTAAATT
1 ATTTTA-AATATTTTTAAATT
29280595 AT
1 AT
29280597 AATTTTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
ATTTTAAATATTTTTAAATT
Found at i:29280603 original size:14 final size:15
Alignment explanation
Indices: 29280528--29280610 Score: 64
Period size: 14 Copynumber: 5.3 Consensus size: 15
29280518 ATTATTAGTT
29280528 TTATAATATTTTAAA
1 TTATAATATTTTAAA
*
29280543 -TGT-ATATTTTAAA
1 TTATAATATTTTAAA
*
29280556 TTTTAAATATTTTTAATTTA
1 TTAT-AATA-TTTTAA---A
29280576 TTTTATAATATTTTAAA
1 --TTATAATATTTTAAA
29280593 TTATAAT-TTTTAAA
1 TTATAATATTTTAAA
29280607 TTAT
1 TTAT
29280611 TTAACATATA
Statistics
Matches: 56, Mismatches: 3, Indels: 19
0.72 0.04 0.24
Matches are distributed among these distances:
13 10 0.18
14 15 0.27
15 7 0.12
16 3 0.05
17 7 0.12
20 7 0.12
21 4 0.07
22 3 0.05
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (15 bp):
TTATAATATTTTAAA
Found at i:29280778 original size:15 final size:15
Alignment explanation
Indices: 29280758--29280787 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
29280748 TTTTTAAATT
29280758 AAAATTAAAATTTTA
1 AAAATTAAAATTTTA
*
29280773 AAAATTAATATTTTA
1 AAAATTAAAATTTTA
29280788 TTTGGTGGAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
AAAATTAAAATTTTA
Found at i:29280882 original size:20 final size:20
Alignment explanation
Indices: 29280857--29280914 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
29280847 TAATATAAAA
29280857 TTTTAATATATATTTTTAAT
1 TTTTAATATATATTTTTAAT
* * *
29280877 TTTTAATTTAGATTTTTACT
1 TTTTAATATATATTTTTAAT
29280897 TTTTAATATATATATTTT
1 TTTTAATATATAT-TTTT
29280915 TAAATAAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 28 0.88
21 4 0.12
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (20 bp):
TTTTAATATATATTTTTAAT
Found at i:29280949 original size:17 final size:17
Alignment explanation
Indices: 29280895--29280950 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 17
29280885 TAGATTTTTA
*
29280895 CTTTTTAATATATATAT
1 CTTTTTAATAAATATAT
* *
29280912 -TTTTAAATAAATTTAT
1 CTTTTTAATAAATATAT
* *
29280928 TTTTTTAATAAATAAAT
1 CTTTTTAATAAATATAT
29280945 CTTTTT
1 CTTTTT
29280951 TTAACAATTT
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
16 13 0.42
17 18 0.58
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.59
Consensus pattern (17 bp):
CTTTTTAATAAATATAT
Found at i:29281095 original size:30 final size:32
Alignment explanation
Indices: 29281049--29281107 Score: 95
Period size: 30 Copynumber: 1.9 Consensus size: 32
29281039 TTTGAATATC
29281049 TTTAAATATAATTTAAAATATCATAAAACAAA
1 TTTAAATATAATTTAAAATATCATAAAACAAA
*
29281081 TTTAAA-AT-ATTTAAAATATTATAAAAC
1 TTTAAATATAATTTAAAATATCATAAAAC
29281108 TAATAATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 18 0.69
31 2 0.08
32 6 0.23
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (32 bp):
TTTAAATATAATTTAAAATATCATAAAACAAA
Found at i:29281180 original size:22 final size:21
Alignment explanation
Indices: 29281155--29281216 Score: 83
Period size: 20 Copynumber: 3.0 Consensus size: 21
29281145 TAAATGTTTT
29281155 ATATTATTAAAAAATATATTTA
1 ATATT-TTAAAAAATATATTTA
29281177 ATA-TTTAAAAAATAATATTTA
1 ATATTTTAAAAAAT-ATATTTA
*
29281198 AAATTTTAAAAAATA-ATTT
1 ATATTTTAAAAAATATATTT
29281217 TAAAACTAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
20 13 0.35
21 11 0.30
22 13 0.35
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
ATATTTTAAAAAATATATTTA
Found at i:29281184 original size:20 final size:21
Alignment explanation
Indices: 29281161--29281221 Score: 81
Period size: 21 Copynumber: 2.9 Consensus size: 21
29281151 TTTTATATTA
*
29281161 TTAAAAAATATATTTAATA-T
1 TTAAAAAATATATTTAAAATT
29281181 TTAAAAAATAATATTTAAAATT
1 TTAAAAAAT-ATATTTAAAATT
29281203 TTAAAAAATA-ATTTTAAAA
1 TTAAAAAATATA-TTTAAAA
29281222 CTAATATTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
20 10 0.27
21 17 0.46
22 10 0.27
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
TTAAAAAATATATTTAAAATT
Found at i:29281194 original size:14 final size:14
Alignment explanation
Indices: 29281175--29281234 Score: 55
Period size: 14 Copynumber: 4.9 Consensus size: 14
29281165 AAAATATATT
29281175 TAATATTTAAAAAA
1 TAATATTTAAAAAA
29281189 TAATATTT----AA
1 TAATATTTAAAAAA
29281199 -AAT-TTTAAAAAA
1 TAATATTTAAAAAA
*
29281211 TAAT-TTT-AAAAC
1 TAATATTTAAAAAA
29281223 TAATATTTAAAA
1 TAATATTTAAAA
29281235 TTTCAAAAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 14
0.72 0.02 0.26
Matches are distributed among these distances:
8 3 0.08
9 3 0.08
10 2 0.05
12 10 0.26
13 9 0.24
14 11 0.29
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (14 bp):
TAATATTTAAAAAA
Found at i:29281218 original size:21 final size:21
Alignment explanation
Indices: 29281161--29281292 Score: 90
Period size: 22 Copynumber: 6.0 Consensus size: 21
29281151 TTTTATATTA
*
29281161 TTAAAAAAT-ATATTTAATAT
1 TTAAAAAATAATATTTAAAAT
29281181 TTAAAAAATAATATTTAAAATT
1 TTAAAAAATAATATTTAAAA-T
29281203 TTAAAAAATAAT-TTTAAAA-
1 TTAAAAAATAATATTTAAAAT
* * ** *
29281222 CTAATATTTAAAATTTCAAAAAT
1 TTAAAAAATAATATTT--AAAAT
*
29281245 AATTGCAAAAATATATATTTAAAAT
1 --TT-AAAAAATA-ATATTTAAAAT
29281270 TTAGAAAAATATATATTATAAAA
1 TTA-AAAAATA-ATATT-TAAAA
29281293 CATTTCAAAT
Statistics
Matches: 87, Mismatches: 13, Indels: 20
0.73 0.11 0.17
Matches are distributed among these distances:
19 7 0.08
20 12 0.14
21 16 0.18
22 17 0.20
23 15 0.17
24 5 0.06
25 6 0.07
26 4 0.05
27 5 0.06
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (21 bp):
TTAAAAAATAATATTTAAAAT
Found at i:29281227 original size:34 final size:33
Alignment explanation
Indices: 29281179--29281280 Score: 132
Period size: 34 Copynumber: 3.0 Consensus size: 33
29281169 TATATTTAAT
29281179 ATTTAAAAAATAATATTTAAAATTTTAAAAAATA
1 ATTTAAAAAATAATATTTAAAA-TTTAAAAAATA
* * *
29281213 ATTTTAAAACTAATATTTAAAATTTCAAAAATA
1 ATTTAAAAAATAATATTTAAAATTTAAAAAATA
**
29281246 ATTGCAAAAATATATATTTAAAATTTAGAAAAATA
1 ATTTAAAAAATA-ATATTTAAAATTTA-AAAAATA
29281281 TATATTATAA
Statistics
Matches: 59, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
33 19 0.32
34 33 0.56
35 7 0.12
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (33 bp):
ATTTAAAAAATAATATTTAAAATTTAAAAAATA
Found at i:29282264 original size:19 final size:19
Alignment explanation
Indices: 29282242--29282284 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
29282232 TATCTATACT
*
29282242 ATATTTTTTTTTATTCTTC
1 ATATTTTATTTTATTCTTC
*
29282261 ATA-TTTATTTTATTGTTC
1 ATATTTTATTTTATTCTTC
29282279 ATATTT
1 ATATTT
29282285 GAGGCTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.21, C:0.07, G:0.02, T:0.70
Consensus pattern (19 bp):
ATATTTTATTTTATTCTTC
Done.