Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 300 of 344
Found at i:99575209 original size:31 final size:31
Alignment explanation
Indices: 99575174--99575319 Score: 249
Period size: 31 Copynumber: 4.7 Consensus size: 31
99575164 CGTTTACAGT
* *
99575174 AAAGGCTTCGGCCAAGTGATATGGTTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
99575205 AAAGGCTTCAGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
99575236 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
99575267 AAAGGCTTCGGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
99575298 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
99575320 TCAAGACTAA
Statistics
Matches: 110, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
30 5 0.05
31 105 0.95
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:99576256 original size:27 final size:27
Alignment explanation
Indices: 99576226--99576381 Score: 91
Period size: 27 Copynumber: 5.8 Consensus size: 27
99576216 GGCAAAACAG
*
99576226 TCATCTTACCATATAAGGGAAAAATAA
1 TCATTTTACCATATAAGGGAAAAATAA
* * *
99576253 TCATTTTACC-TCACAAGGGCAAAACAA
1 TCATTTTACCAT-ATAAGGGAAAAATAA
** *
99576280 TCATTTTACCACGTAAGGGAAAAATAG
1 TCATTTTACCATATAAGGGAAAAATAA
* * * * * * * * *
99576307 TTATTTAATCACACAGGGGTAATACAA
1 TCATTTTACCATATAAGGGAAAAATAA
* * * *
99576334 TCATTTTACCACA-AAGAGGCAAAACAG
1 TCATTTTACCATATAAG-GGAAAAATAA
*
99576361 TCATTTTACCACATAAGGGAA
1 TCATTTTACCATATAAGGGAA
99576382 GTCATTCCAT
Statistics
Matches: 97, Mismatches: 28, Indels: 8
0.73 0.21 0.06
Matches are distributed among these distances:
26 3 0.03
27 91 0.94
28 3 0.03
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (27 bp):
TCATTTTACCATATAAGGGAAAAATAA
Found at i:99576334 original size:54 final size:54
Alignment explanation
Indices: 99576215--99576345 Score: 154
Period size: 54 Copynumber: 2.4 Consensus size: 54
99576205 CATTACATAG
* * ** * *
99576215 GGGCAAAACAGTCATCTTACCATATAAGGGAAAAATAATCATTTTACCTCACAA
1 GGGCAAAACAATCATTTTACCACGTAAGGGAAAAATAATCATTTAACCACACAA
* * * *
99576269 GGGCAAAACAATCATTTTACCACGTAAGGGAAAAATAGTTATTTAATCACACAG
1 GGGCAAAACAATCATTTTACCACGTAAGGGAAAAATAATCATTTAACCACACAA
* *
99576323 GGGTAATACAATCATTTTACCAC
1 GGGCAAAACAATCATTTTACCAC
99576346 AAAGAGGCAA
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 65 1.00
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.25
Consensus pattern (54 bp):
GGGCAAAACAATCATTTTACCACGTAAGGGAAAAATAATCATTTAACCACACAA
Found at i:99579649 original size:34 final size:35
Alignment explanation
Indices: 99579575--99579666 Score: 91
Period size: 34 Copynumber: 2.7 Consensus size: 35
99579565 TTTGTTTGCT
* * *
99579575 TACTG-TACTGAAATGGGCTAAGGCCCAGACTGCC
1 TACTGTTACTAAAATGAGCTAAGGCCCAGACTGCA
* *
99579609 T-TTGTTACTAAAATGAGCTTAGGCCCAGACTG-A
1 TACTGTTACTAAAATGAGCTAAGGCCCAGACTGCA
*
99579642 TACTGTTACTGAAAAAGAGGCTAAG
1 TACTGTTACT-AAAATGA-GCTAAG
99579667 CCCTAACTAG
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
33 3 0.07
34 32 0.70
35 6 0.13
36 5 0.11
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.25
Consensus pattern (35 bp):
TACTGTTACTAAAATGAGCTAAGGCCCAGACTGCA
Found at i:99591901 original size:17 final size:18
Alignment explanation
Indices: 99591888--99592045 Score: 91
Period size: 18 Copynumber: 8.8 Consensus size: 18
99591878 TAATCTTCAA
99591888 TGATATGCAATCTTAGATG
1 TGATATGCAATCTTAGA-G
99591907 TGATATGCAATCTTAGA-
1 TGATATGCAATCTTAGAG
* *
99591924 T-ATGATACAATCTTAGATA
1 TGAT-ATGCAATCTTAGA-G
* *
99591943 TGAT-TGTAATCTTAGATA
1 TGATATGCAATCTTAGA-G
*
99591961 TGAT-TGCAATATTAGA-
1 TGATATGCAATCTTAGAG
* *
99591977 T-ATGATACAATCTTAGATA
1 TGAT-ATGCAATCTTAGA-G
99591996 TGAT-TGCAATCTTAGA-
1 TGATATGCAATCTTAGAG
* *
99592012 T-ATGATACAATCTTAGATA
1 TGAT-ATGCAATCTTAGA-G
*
99592031 TGATATACAATCTTA
1 TGATATGCAATCTTA
99592046 AAAGATATGA
Statistics
Matches: 116, Mismatches: 9, Indels: 28
0.76 0.06 0.18
Matches are distributed among these distances:
15 4 0.03
16 4 0.03
17 34 0.29
18 37 0.32
19 31 0.27
20 6 0.05
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (18 bp):
TGATATGCAATCTTAGAG
Found at i:99591927 original size:14 final size:15
Alignment explanation
Indices: 99591908--99592033 Score: 92
Period size: 18 Copynumber: 7.5 Consensus size: 15
99591898 TCTTAGATGT
99591908 GATATG-CAATCTTA
1 GATATGACAATCTTA
99591922 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
*
99591939 GATATGATTGTAATCTTA
1 GATATGA---CAATCTTA
*
99591957 GATATGATTGCAATATTA
1 GATATGA---CAATCTTA
99591975 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
99591992 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
99592010 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
99592027 GATATGA
1 GATATGA
99592034 TATACAATCT
Statistics
Matches: 95, Mismatches: 4, Indels: 25
0.77 0.03 0.20
Matches are distributed among these distances:
14 6 0.06
15 3 0.03
17 41 0.43
18 43 0.45
20 2 0.02
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:99591960 original size:35 final size:35
Alignment explanation
Indices: 99591895--99592045 Score: 205
Period size: 35 Copynumber: 4.2 Consensus size: 35
99591885 CAATGATATG
*
99591895 CAATCTTAGATGTGATATGCAATCTTAGATATGA-TA
1 CAATCTTAGATATGATA--CAATCTTAGATATGATTA
** *
99591931 CAATCTTAGATATGATTGTAATCTTAGATATGATTG
1 CAATCTTAGATATGA-TACAATCTTAGATATGATTA
* *
99591967 CAATATTAGATATGATACAATCTTAGATATGATTG
1 CAATCTTAGATATGATACAATCTTAGATATGATTA
99592002 CAATCTTAGATATGATACAATCTTAGATATGATATA
1 CAATCTTAGATATGATACAATCTTAGATATGAT-TA
99592038 CAATCTTA
1 CAATCTTA
99592046 AAAGATATGA
Statistics
Matches: 103, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
35 64 0.62
36 38 0.37
37 1 0.01
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.38
Consensus pattern (35 bp):
CAATCTTAGATATGATACAATCTTAGATATGATTA
Found at i:99591969 original size:53 final size:53
Alignment explanation
Indices: 99591887--99592045 Score: 239
Period size: 53 Copynumber: 2.9 Consensus size: 53
99591877 ATAATCTTCA
*
99591887 ATGATATGCAATCTTAGATGTGATATGCAATCTTAGATATGATACAATCTTAGAT
1 ATGAT-TGCAATCTTAGATATGAT-TGCAATCTTAGATATGATACAATCTTAGAT
* *
99591942 ATGATTGTAATCTTAGATATGATTGCAATATTAGATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATTGCAATCTTAGATATGATACAATCTTAGAT
*
99591995 ATGATTGCAATCTTAGATATGA-TACAATCTTAGATATGATATACAATCTTA
1 ATGATTGCAATCTTAGATATGATTGCAATCTTAGATATG--ATACAATCTTA
99592046 AAAGATATGA
Statistics
Matches: 96, Mismatches: 6, Indels: 5
0.90 0.06 0.05
Matches are distributed among these distances:
52 14 0.15
53 50 0.52
54 27 0.28
55 5 0.05
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (53 bp):
ATGATTGCAATCTTAGATATGATTGCAATCTTAGATATGATACAATCTTAGAT
Found at i:99592052 original size:17 final size:19
Alignment explanation
Indices: 99591889--99592053 Score: 109
Period size: 17 Copynumber: 9.3 Consensus size: 19
99591879 AATCTTCAAT
* **
99591889 GATATGCAATCTTAGATGT
1 GATATACAATCTTAGATAA
* *
99591908 GATATGCAATCTTAGATAT
1 GATATACAATCTTAGATAA
*
99591927 G--ATACAATCTTAGATAT
1 GATATACAATCTTAGATAA
** *
99591944 GAT-TGTAATCTTAGATAT
1 GATATACAATCTTAGATAA
* * *
99591962 GAT-TGCAATATTAGATAT
1 GATATACAATCTTAGATAA
*
99591980 G--ATACAATCTTAGATAT
1 GATATACAATCTTAGATAA
* *
99591997 GAT-TGCAATCTTAGATAT
1 GATATACAATCTTAGATAA
*
99592015 G--ATACAATCTTAGATAT
1 GATATACAATCTTAGATAA
99592032 GATATACAATCTTA-A-AA
1 GATATACAATCTTAGATAA
99592049 GATAT
1 GATAT
99592054 GATTTTGTAA
Statistics
Matches: 127, Mismatches: 11, Indels: 18
0.81 0.07 0.12
Matches are distributed among these distances:
17 51 0.40
18 46 0.36
19 30 0.24
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.37
Consensus pattern (19 bp):
GATATACAATCTTAGATAA
Found at i:99595243 original size:12 final size:12
Alignment explanation
Indices: 99595226--99595250 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
99595216 TAAAGTTATT
99595226 AAAAAGAGAAAG
1 AAAAAGAGAAAG
99595238 AAAAAGAGAAAG
1 AAAAAGAGAAAG
99595250 A
1 A
99595251 GAGAAGAGGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
AAAAAGAGAAAG
Found at i:99597804 original size:16 final size:16
Alignment explanation
Indices: 99597778--99597820 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 16
99597768 CTTCTATTTC
*
99597778 AAAAGAAAAAAAA-AG
1 AAAAGAAAAAAAAGAA
*
99597793 AGAAGAAAAAAAAGAA
1 AAAAGAAAAAAAAGAA
99597809 AAAAGAAAAAAA
1 AAAAGAAAAAAA
99597821 TAAAAATGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAAAAAGAA
Found at i:99597817 original size:12 final size:11
Alignment explanation
Indices: 99597778--99597826 Score: 55
Period size: 12 Copynumber: 4.2 Consensus size: 11
99597768 CTTCTATTTC
99597778 AAAAGAAAAAA
1 AAAAGAAAAAA
99597789 AAAGAGAAGAAAA
1 AAA-AGAA-AAAA
99597802 AAAAGAAAAAA
1 AAAAGAAAAAA
99597813 GAAAA-AAATAAA
1 -AAAAGAAA-AAA
99597825 AA
1 AA
99597827 TGGAGAGGCC
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
11 12 0.35
12 15 0.44
13 7 0.21
ACGTcount: A:0.86, C:0.00, G:0.12, T:0.02
Consensus pattern (11 bp):
AAAAGAAAAAA
Found at i:99597825 original size:15 final size:14
Alignment explanation
Indices: 99597778--99597826 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 14
99597768 CTTCTATTTC
99597778 AAAAGAAAAAAAAA
1 AAAAGAAAAAAAAA
*
99597792 GAGAAGAAAAAAAAGAA
1 -AAAAG-AAAAAAA-AA
99597809 AAAAGAAAAAAATAA
1 AAAAGAAAAAAA-AA
99597824 AAA
1 AAA
99597827 TGGAGAGGCC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 16 0.55
16 11 0.38
17 2 0.07
ACGTcount: A:0.86, C:0.00, G:0.12, T:0.02
Consensus pattern (14 bp):
AAAAGAAAAAAAAA
Found at i:99597825 original size:21 final size:21
Alignment explanation
Indices: 99597778--99597826 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
99597768 CTTCTATTTC
* *
99597778 AAAAGAAA-AAAAAAGAGAAG
1 AAAAAAAAGAAAAAAGAGAAA
99597798 AAAAAAAAGAAAAAAGA-AAA
1 AAAAAAAAGAAAAAAGAGAAA
99597818 AAATAAAAA
1 AAA-AAAAA
99597827 TGGAGAGGCC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.86, C:0.00, G:0.12, T:0.02
Consensus pattern (21 bp):
AAAAAAAAGAAAAAAGAGAAA
Found at i:99597825 original size:24 final size:24
Alignment explanation
Indices: 99597778--99597826 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
99597768 CTTCTATTTC
*
99597778 AAAAGAAAAAAAAAGAGAAGAAAA
1 AAAAGAAAAAAAAAGAAAAGAAAA
*
99597802 AAAAGAAAAAAGAAA-AAAATAAAA
1 AAAAGAAAAAA-AAAGAAAAGAAAA
99597826 A
1 A
99597827 TGGAGAGGCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 19 0.86
25 3 0.14
ACGTcount: A:0.86, C:0.00, G:0.12, T:0.02
Consensus pattern (24 bp):
AAAAGAAAAAAAAAGAAAAGAAAA
Found at i:99598833 original size:44 final size:44
Alignment explanation
Indices: 99598783--99598924 Score: 139
Period size: 44 Copynumber: 3.3 Consensus size: 44
99598773 CGCCTTAATC
99598783 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATTCT
1 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATTCT
* * * ** *** * * *
99598827 CCCTAAGCAATAGTGG-AGCAGATCGAA-GACCCG-CCTTAATC-
1 CCCTAAGCAGTAG-GGTAACAGGTTAAATTTGCAGATCTTATTCT
99598868 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATTCT
1 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATTCT
*
99598912 CCCTAAGAAGTAG
1 CCCTAAGCAGTAG
99598925 TGGAGCAGAT
Statistics
Matches: 70, Mismatches: 23, Indels: 10
0.68 0.22 0.10
Matches are distributed among these distances:
40 2 0.03
41 19 0.27
42 8 0.11
43 8 0.11
44 31 0.44
45 2 0.03
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (44 bp):
CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATTCT
Found at i:99598877 original size:85 final size:84
Alignment explanation
Indices: 99598773--99599145 Score: 465
Period size: 85 Copynumber: 4.4 Consensus size: 84
99598763 CAAAATTCAG
99598773 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATTCTCCCTAAGCAAT
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTA-TCTCCCTAAGCAAT
*
99598838 AGTGGAGCAGATCGAAGACC
65 AGTGGAGCAGATCGAAGACT
99598858 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATTCTCCCTAAG-AAG
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTA-TCTCCCTAAGCAA-
*
99598922 TAGTGGAGCAGATTGAAGACT
64 TAGTGGAGCAGATCGAAGACT
* * * * * *
99598943 CGCCTTAATCTCTTAAGCAGTAGGGTAAC-----AAGTTCGCAGATATTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAATA
*
99599003 GCGGAGCAGATCGATGACGACT
66 GTGGAGCAGATCGA--A-GACT
* * * *
99599025 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTCAAAATTGCGGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAATA
* **
99599090 GTGGAGTAGATTAAAGA-T
66 GTGGAGCAGATCGAAGACT
*
99599108 GCGCCTTAA-CCCCTTAAGCAGTAGGGTAATAGGTTAAA
1 -CGCCTTAATCCCC-TAAGCAGTAGGGTAACAGGTTAAA
99599146 GTATAGCATA
Statistics
Matches: 253, Mismatches: 23, Indels: 25
0.84 0.08 0.08
Matches are distributed among these distances:
79 24 0.09
80 14 0.06
81 1 0.00
82 31 0.12
83 5 0.02
84 34 0.13
85 108 0.43
87 36 0.14
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.25
Consensus pattern (84 bp):
CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAATA
GTGGAGCAGATCGAAGACT
Found at i:99599145 original size:41 final size:41
Alignment explanation
Indices: 99599025--99599146 Score: 115
Period size: 43 Copynumber: 2.9 Consensus size: 41
99599015 GATGACGACT
* *
99599025 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTCAAA-ATTG
1 CGCCTTAA-CCCCTAAGCAGTAGGGTAATAGGTTAAAGATTG
* * * *
99599066 CGGATCTTATCTCCCTAAGCAGTAGTGG-AGTAGATTAAAGA-TG
1 C-G-CCTTAAC-CCCTAAGCAGTAG-GGTAATAGGTTAAAGATTG
99599109 CGCCTTAACCCCTTAAGCAGTAGGGTAATAGGTTAAAG
1 CGCCTTAACCCC-TAAGCAGTAGGGTAATAGGTTAAAG
99599147 TATAGCATAT
Statistics
Matches: 64, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
40 5 0.08
41 26 0.41
42 3 0.05
43 27 0.42
44 3 0.05
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (41 bp):
CGCCTTAACCCCTAAGCAGTAGGGTAATAGGTTAAAGATTG
Found at i:99599766 original size:206 final size:207
Alignment explanation
Indices: 99599270--99600189 Score: 1511
Period size: 207 Copynumber: 4.5 Consensus size: 207
99599260 TGGAAAGCAG
* * * * *
99599270 ATCGAAGACATAGCTAATTTAGCTTTCACGTGCTTATGATGAAGCAAATCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
99599335 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACAT
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACAT
* *
99599400 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGTAAAATCCAAGATGGTTTGGCATCCTTGTGCT
131 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
99599465 TACAAGGAACAA
196 TACAAGGAACAA
*
99599477 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
99599542 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACAT
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACAT
*
99599607 AGTAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGA-CCAAGATGGTTTGGCATCCTTGTGCT
131 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
99599671 TACAAGGAACAA
196 TACAAGGAACAA
* * *
99599683 ATTGAAGACATAGCTGATTTGGCTTTCATGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
* * * * *
99599748 TCTCTGTATTGCCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCAATGGAGGGTAGGCACAT
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACAT
99599813 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
131 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
99599878 TACAAGGAACAA
196 TACAAGGAACAA
* *
99599890 ATCGAAGACATAGCTGATTTGGATTTCACGTGCTTACGTTGAAGCAAGTATAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
* * * **
99599955 TCTCTGTATTTTCAGAGAGCAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGACAGACTTAT
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACAT
** * *
99600020 AGCAGATCTAACCTTCAGATGTTTAGACTGAAGC-AGATCCAAGATGGTTTGGTATCCTTGTGCT
131 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
*
99600084 TACAAGGAGCAA
196 TACAAGGAACAA
* * *
99600096 ATCGAAGACATAGCTGATTTGGCTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
* * *
99600161 TTTCTGTATTGTCAGGGAACAAATTGAAG
66 TCTCTGTATTGTCAGAGAACAAATCGAAG
99600190 AAGCAGATTT
Statistics
Matches: 665, Mismatches: 47, Indels: 3
0.93 0.07 0.00
Matches are distributed among these distances:
206 322 0.48
207 343 0.52
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (207 bp):
ATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACAT
AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
TACAAGGAACAA
Found at i:99600040 original size:413 final size:413
Alignment explanation
Indices: 99599270--99600189 Score: 1518
Period size: 413 Copynumber: 2.2 Consensus size: 413
99599260 TGGAAAGCAG
* * *
99599270 ATCGAAGACATAGCTAATTTAGCTTTCACGTGCTTATGATGAAGCAAATCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCA
*
99599335 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACAT
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCAACGGAGGGCAGACACAT
*
99599400 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGTAAAATCCAAGATGGTTTGGCATCCTTGTGCT
131 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAAATCCAAGATGGTTTGGCATCCTTGTGCT
* * *
99599465 TACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAA
196 TACAAGGAACAAATCGAAGACATAGCTGATTTGGATTTCACGTGCTTACGTTGAAGCAAGTATAA
99599530 GATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGA
261 GATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGA
* * ** *
99599595 GGGCAGACACATAGTAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGA-CCAAGATGGTTTGG
326 GGACAGACACATAGCAGATCTAACCTTCAGATGTTTAGACTGAAGC-AGATCCAAGATGGTTTGG
99599659 CATCCTTGTGCTTACAAGGAACAA
390 CATCCTTGTGCTTACAAGGAACAA
* * * * *
99599683 ATTGAAGACATAGCTGATTTGGCTTTCATGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCA
* * * *
99599748 TCTCTGTATTGCCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCAATGGAGGGTAGGCACAT
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCAACGGAGGGCAGACACAT
*
99599813 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
131 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAAATCCAAGATGGTTTGGCATCCTTGTGCT
99599878 TACAAGGAACAAATCGAAGACATAGCTGATTTGGATTTCACGTGCTTACGTTGAAGCAAGTATAA
196 TACAAGGAACAAATCGAAGACATAGCTGATTTGGATTTCACGTGCTTACGTTGAAGCAAGTATAA
* *
99599943 GATGATTTGGCATCTCTGTATTTTCAGAGAGCAAATCGAAGTTTGGCGTCTCCATATTCGACGGA
261 GATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGA
** *
99600008 GGACAGACTTATAGCAGATCTAACCTTCAGATGTTTAGACTGAAGCAGATCCAAGATGGTTTGGT
326 GGACAGACACATAGCAGATCTAACCTTCAGATGTTTAGACTGAAGCAGATCCAAGATGGTTTGGC
*
99600073 ATCCTTGTGCTTACAAGGAGCAA
391 ATCCTTGTGCTTACAAGGAACAA
* *
99600096 ATCGAAGACATAGCTGATTTGGCTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCA
* * *
99600161 TTTCTGTATTGTCAGGGAACAAATTGAAG
66 TCTCTGTATTGTCAGAGAACAAATCGAAG
99600190 AAGCAGATTT
Statistics
Matches: 467, Mismatches: 39, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
412 3 0.01
413 464 0.99
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (413 bp):
ATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCA
TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCAACGGAGGGCAGACACAT
AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAAATCCAAGATGGTTTGGCATCCTTGTGCT
TACAAGGAACAAATCGAAGACATAGCTGATTTGGATTTCACGTGCTTACGTTGAAGCAAGTATAA
GATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGA
GGACAGACACATAGCAGATCTAACCTTCAGATGTTTAGACTGAAGCAGATCCAAGATGGTTTGGC
ATCCTTGTGCTTACAAGGAACAA
Found at i:99600621 original size:18 final size:18
Alignment explanation
Indices: 99600554--99600695 Score: 198
Period size: 18 Copynumber: 7.8 Consensus size: 18
99600544 ATAATCTTCA
99600554 ATGATATGCAATCTTAGAT
1 ATGAT-TGCAATCTTAGAT
*
99600573 GTGATATGCAATCTTAGAT
1 ATGAT-TGCAATCTTAGAT
*
99600592 ATGA-TACAATCTTAGAT
1 ATGATTGCAATCTTAGAT
99600609 ATGATTGCAATCTTAGAT
1 ATGATTGCAATCTTAGAT
*
99600627 GTGATTGCAATCTTAGAT
1 ATGATTGCAATCTTAGAT
*
99600645 ATGA-TACAATCTTAGAT
1 ATGATTGCAATCTTAGAT
99600662 ATGATTGCAATCTTAGAT
1 ATGATTGCAATCTTAGAT
*
99600680 ATGATATACAATCTTA
1 ATGAT-TGCAATCTTA
99600696 AAAGATAGGA
Statistics
Matches: 111, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
17 32 0.29
18 49 0.44
19 30 0.27
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.37
Consensus pattern (18 bp):
ATGATTGCAATCTTAGAT
Found at i:99600624 original size:35 final size:37
Alignment explanation
Indices: 99600554--99600695 Score: 202
Period size: 35 Copynumber: 3.9 Consensus size: 37
99600544 ATAATCTTCA
* *
99600554 ATGATATGCAATCTTAGATGTGATATGCAATCTTAGAT
1 ATGAT-TGCAATCTTAGATATGATATACAATCTTAGAT
* *
99600592 ATGA-TACAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATATACAATCTTAGAT
*
99600627 GTGATTGCAATCTTAGATATG--ATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATATACAATCTTAGAT
99600662 ATGATTGCAATCTTAGATATGATATACAATCTTA
1 ATGATTGCAATCTTAGATATGATATACAATCTTA
99600696 AAAGATAGGA
Statistics
Matches: 94, Mismatches: 6, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
35 48 0.51
36 31 0.33
37 11 0.12
38 4 0.04
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.37
Consensus pattern (37 bp):
ATGATTGCAATCTTAGATATGATATACAATCTTAGAT
Found at i:99600641 original size:53 final size:54
Alignment explanation
Indices: 99600554--99600695 Score: 250
Period size: 53 Copynumber: 2.6 Consensus size: 54
99600544 ATAATCTTCA
99600554 ATGATATGCAATCTTAGATGTGATATGCAATCTTAGATATGATACAATCTTAGAT
1 ATGAT-TGCAATCTTAGATGTGATATGCAATCTTAGATATGATACAATCTTAGAT
99600609 ATGATTGCAATCTTAGATGTGAT-TGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATGTGATATGCAATCTTAGATATGATACAATCTTAGAT
* *
99600662 ATGATTGCAATCTTAGATATGATATACAATCTTA
1 ATGATTGCAATCTTAGATGTGATATGCAATCTTA
99600696 AAAGATAGGA
Statistics
Matches: 84, Mismatches: 2, Indels: 3
0.94 0.02 0.03
Matches are distributed among these distances:
53 52 0.62
54 27 0.32
55 5 0.06
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.37
Consensus pattern (54 bp):
ATGATTGCAATCTTAGATGTGATATGCAATCTTAGATATGATACAATCTTAGAT
Found at i:99609834 original size:48 final size:46
Alignment explanation
Indices: 99609782--99609894 Score: 124
Period size: 48 Copynumber: 2.4 Consensus size: 46
99609772 AATCCACTTA
**
99609782 AAAAAATTTTAACATTTCATATTTAAAATATATATTTTTAA-ACAGAAT
1 AAAAAATTTTAA-ATTAAATATTT-AAA-ATATATTTTTAATACAGAAT
*
99609830 AAAAAATTAAATTAAATTAAATATTTAAAATATATTTTTAATATAGAAT
1 AAAAAATT---TTAAATTAAATATTTAAAATATATTTTTAATACAGAAT
99609879 AAAAAA-TTT-AATTAAA
1 AAAAAATTTTAAATTAAA
99609895 GACAAATAAA
Statistics
Matches: 58, Mismatches: 3, Indels: 12
0.79 0.04 0.16
Matches are distributed among these distances:
44 7 0.12
45 2 0.03
48 21 0.36
49 15 0.26
50 9 0.16
51 4 0.07
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.40
Consensus pattern (46 bp):
AAAAAATTTTAAATTAAATATTTAAAATATATTTTTAATACAGAAT
Found at i:99609880 original size:49 final size:50
Alignment explanation
Indices: 99609800--99609894 Score: 149
Period size: 49 Copynumber: 1.9 Consensus size: 50
99609790 TTAACATTTC
99609800 ATATTTAAAATATATATTTTTAAACAGAATAAAAAATTAAATTAAATTAA
1 ATATTTAAAATATATATTTTTAAACAGAATAAAAAATTAAATTAAATTAA
* *
99609850 ATATTT-AAA-ATATATTTTTAATATAGAATAAAAAATTTAATTAAA
1 ATATTTAAAATATATATTTTTAA-ACAGAATAAAAAATTAAATTAAA
99609895 GACAAATAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
48 12 0.29
49 24 0.57
50 6 0.14
ACGTcount: A:0.57, C:0.01, G:0.02, T:0.40
Consensus pattern (50 bp):
ATATTTAAAATATATATTTTTAAACAGAATAAAAAATTAAATTAAATTAA
Found at i:99612351 original size:19 final size:22
Alignment explanation
Indices: 99612312--99612351 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
99612302 AGAAACCCAA
99612312 CCATATCCAACCGTATACACCC
1 CCATATCCAACCGTATACACCC
99612334 CCATA-CCAACC-T-TACACC
1 CCATATCCAACCGTATACACC
99612352 GTGTGGGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.33, C:0.47, G:0.03, T:0.17
Consensus pattern (22 bp):
CCATATCCAACCGTATACACCC
Found at i:99612475 original size:27 final size:26
Alignment explanation
Indices: 99612413--99612550 Score: 159
Period size: 27 Copynumber: 5.1 Consensus size: 26
99612403 AGCATGGCTG
* *
99612413 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
99612439 CCAAATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
99612467 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
99612494 CCAGATCAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
99612521 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
99612548 CCA
1 CCA
99612551 AAACGCTTCC
Statistics
Matches: 102, Mismatches: 7, Indels: 5
0.89 0.06 0.04
Matches are distributed among these distances:
26 4 0.04
27 82 0.80
28 16 0.16
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:99612477 original size:54 final size:54
Alignment explanation
Indices: 99612413--99612552 Score: 183
Period size: 54 Copynumber: 2.6 Consensus size: 54
99612403 AGCATGGCTG
*
99612413 CCAGAACAGATA-ATGTGACAGAGTCACCAAATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAAAT-CAGATAATCGTGGCAGAGCCA
* * * *
99612467 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAAATCAGATAATCGTGGCAGAGCCA
* * * *
99612521 CCAGATCAGATATTTGTGGCATAGCCACCAAA
1 CCAGAACAGATATATGTGACAGAGCCACCAAA
99612553 ACGCTTCCTC
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
54 59 0.78
55 17 0.22
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAAATCAGATAATCGTGGCAGAGCCA
Found at i:99614194 original size:26 final size:26
Alignment explanation
Indices: 99614168--99614269 Score: 159
Period size: 26 Copynumber: 3.9 Consensus size: 26
99614158 TTCTTATATT
*
99614168 AAACATTTACCTAACCCATTATCATT
1 AAACATTTACCTAACCCATTATCATG
99614194 AAACATTTACCTAACCCATTATCATG
1 AAACATTTACCTAACCCATTATCATG
* *
99614220 GAACATTTACCTAACCTATTATCATG
1 AAACATTTACCTAACCCATTATCATG
* *
99614246 GAACATTTACCTAACCTATTATCA
1 AAACATTTACCTAACCCATTATCA
99614270 ATTTGTATCA
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.37, C:0.25, G:0.04, T:0.33
Consensus pattern (26 bp):
AAACATTTACCTAACCCATTATCATG
Found at i:99618261 original size:27 final size:27
Alignment explanation
Indices: 99618224--99618360 Score: 156
Period size: 27 Copynumber: 5.1 Consensus size: 27
99618214 AGCATGGCTG
* *
99618224 CCAGA-ACAGATATTGTGACAGAGTCA
1 CCAGATACAGATATTGTGGCAGAGCCA
** *
99618250 CCAGATACAGATAATCATCGCAGAGCCA
1 CCAGATACAGAT-ATTGTGGCAGAGCCA
99618278 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATAT-TGTGGCAGAGCCA
99618305 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATA-TTGTGGCAGAGCCA
*
99618332 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATA-TTGTGGCAGAGCCA
99618359 CC
1 CC
99618361 CGAACGGTTC
Statistics
Matches: 97, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
26 7 0.07
27 74 0.76
28 16 0.16
ACGTcount: A:0.34, C:0.24, G:0.23, T:0.19
Consensus pattern (27 bp):
CCAGATACAGATATTGTGGCAGAGCCA
Found at i:99632392 original size:13 final size:13
Alignment explanation
Indices: 99632374--99632407 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
99632364 TATGTTTCAT
* *
99632374 TATAATATTATAC
1 TATAATAATATAA
99632387 TATAATAATATAA
1 TATAATAATATAA
99632400 TATAATAA
1 TATAATAA
99632408 CATTTACTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (13 bp):
TATAATAATATAA
Found at i:99632459 original size:17 final size:17
Alignment explanation
Indices: 99632427--99632460 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
99632417 AAATAAAAAG
*
99632427 TAAATATATATTTATTA
1 TAAATATATATATATTA
*
99632444 TAAATATATGTATATTA
1 TAAATATATATATATTA
99632461 ACATTACACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
TAAATATATATATATTA
Found at i:99633877 original size:38 final size:39
Alignment explanation
Indices: 99633835--99633928 Score: 118
Period size: 40 Copynumber: 2.4 Consensus size: 39
99633825 CCATCTTCGA
* * * * *
99633835 CCAACCCAACACACCA-TGTGGGGATAAAATCGACTCAT
1 CCAACCCTACACACCAGTATAGGGATAAAATCAACCCAT
*
99633873 CCAACCCTACACACCAAGTATAGGGATATAATCAACCCAT
1 CCAACCCTACACACC-AGTATAGGGATAAAATCAACCCAT
99633913 CCAACCCTACACACCA
1 CCAACCCTACACACCA
99633929 AAAGCTACCG
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
38 14 0.29
39 2 0.04
40 32 0.67
ACGTcount: A:0.38, C:0.36, G:0.11, T:0.15
Consensus pattern (39 bp):
CCAACCCTACACACCAGTATAGGGATAAAATCAACCCAT
Found at i:99655424 original size:257 final size:256
Alignment explanation
Indices: 99654941--99655434 Score: 778
Period size: 257 Copynumber: 1.9 Consensus size: 256
99654931 TCATTTTATC
* * *
99654941 ATTTCAAAAAGAGATAAAAACAAATAAAGGAAGACTTGGTTAAGCTCTATCATTAATATGCCCTA
1 ATTTCAAAAAGAGATAAAAACAAACAAAGAAAGACTTGGTCAAGCTCTATCATTAATATGCCCTA
* * *
99655006 AGTTTGAGGGTTGTGGAACAACACCTAACCTGGAAAGTTGATGAACAAAGGCAAGTTTAGGTAAG
66 AGTTTGAGGGTTGTGGAACAACACCTAAACTGGAAAGTTAATGAACAAAGGCAAATTTAGGTAAG
** * *
99655071 GTTGATTGACATTGAAAGTTTTCCTGTCAACATGATCTTGGATAAAGTGAAGATTGATTACGAGG
131 GTTGATTGACATTGAAAGTTTTCCAATCAACACGATCTCGGATAAAGTGAAGATTGATTACGAGG
*
99655136 TGCTTCATATTTGTATGCATAACAAGCTGTTGACAACAATATTTTAAAAAAATAAATCCAA
196 TGCTTCATATTTCTATGCATAACAAGCTGTTGACAACAATATTTTAAAAAAATAAATCCAA
* *
99655197 ATTTTAAAAAGAGAT-AAAA-GAACAAAGAAAGACTTGGTCAAGCTCTATCATTAATATGCCTCC
1 ATTTCAAAAAGAGATAAAAACAAACAAAGAAAGACTTGGTCAAGCTCTATCATTAATATG---CC
* *
99655260 CTAAGTTT-AGGGGTTGTGGAACAACACCTAAATTGGAAAGTTAATGAACAAAGGCAAATTTGGG
63 CTAAGTTTGA-GGGTTGTGGAACAACACCTAAACTGGAAAGTTAATGAACAAAGGCAAATTTAGG
**
99655324 TAAGGTTGATTGACATTGAAAGTTTTCCAATCAATGCGATCTCGGATAAAGTGAAGATTGATTAC
127 TAAGGTTGATTGACATTGAAAGTTTTCCAATCAACACGATCTCGGATAAAGTGAAGATTGATTAC
99655389 GAGGTGCTTCATATTTCTATGCATAACAAGCTGTTGACAACAATAT
192 GAGGTGCTTCATATTTCTATGCATAACAAGCTGTTGACAACAATAT
99655435 GTGGCCCCAA
Statistics
Matches: 217, Mismatches: 17, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
254 35 0.16
255 4 0.02
256 15 0.07
257 163 0.75
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (256 bp):
ATTTCAAAAAGAGATAAAAACAAACAAAGAAAGACTTGGTCAAGCTCTATCATTAATATGCCCTA
AGTTTGAGGGTTGTGGAACAACACCTAAACTGGAAAGTTAATGAACAAAGGCAAATTTAGGTAAG
GTTGATTGACATTGAAAGTTTTCCAATCAACACGATCTCGGATAAAGTGAAGATTGATTACGAGG
TGCTTCATATTTCTATGCATAACAAGCTGTTGACAACAATATTTTAAAAAAATAAATCCAA
Found at i:99655925 original size:26 final size:26
Alignment explanation
Indices: 99655889--99656024 Score: 245
Period size: 26 Copynumber: 5.2 Consensus size: 26
99655879 TGATACAAAT
99655889 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
99655915 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
99655941 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
99655967 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
99655993 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
99656019 TGATAA
1 TGATAA
99656025 GAATTTCATG
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 107 1.00
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:99657532 original size:26 final size:26
Alignment explanation
Indices: 99657466--99657541 Score: 89
Period size: 26 Copynumber: 2.8 Consensus size: 26
99657456 GAAAGTAGCT
* * *
99657466 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTATTATACCCCTA-G-GTGCA
99657494 AAATTACTATTATACCCCTAGGTGCA
1 AAATTACTATTATACCCCTAGGTGCA
* *
99657520 AAATTACTGTTATACCCGTAGG
1 AAATTACTATTATACCCCTAGG
99657542 GTTAATTTTG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
26 23 0.53
27 1 0.02
28 19 0.44
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.32
Consensus pattern (26 bp):
AAATTACTATTATACCCCTAGGTGCA
Found at i:99657685 original size:27 final size:27
Alignment explanation
Indices: 99657646--99657783 Score: 143
Period size: 27 Copynumber: 5.1 Consensus size: 27
99657636 GGAAGCGTTT
*
99657646 TGGTGGCTATGCCACAAATATCTGATC
1 TGGTGGCTCTGCCACAAATATCTGATC
99657673 TGGTGGCTCTGCCACAAATATCTGATC
1 TGGTGGCTCTGCCACAAATATCTGATC
* *
99657700 TGGTGGCTCTGCCACATATATCTGTTC
1 TGGTGGCTCTGCCACAAATATCTGATC
* * * * * *
99657727 CGGTGGTTCTGTCACGATTATCTGTATT
1 TGGTGGCTCTGCCACAAATATCTG-ATC
* * * *
99657755 TGGTGACTCTGTCAC-ATTATCTGTTC
1 TGGTGGCTCTGCCACAAATATCTGATC
99657781 TGG
1 TGG
99657784 CAGCCATGCT
Statistics
Matches: 94, Mismatches: 16, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
26 4 0.04
27 77 0.82
28 13 0.14
ACGTcount: A:0.18, C:0.22, G:0.23, T:0.36
Consensus pattern (27 bp):
TGGTGGCTCTGCCACAAATATCTGATC
Found at i:99661793 original size:26 final size:26
Alignment explanation
Indices: 99661757--99661866 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
99661747 TGATACAAAT
99661757 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
99661783 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
99661809 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
99661835 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
99661861 TGATAA
1 TGATAA
99661867 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:99663526 original size:27 final size:27
Alignment explanation
Indices: 99663487--99663623 Score: 170
Period size: 27 Copynumber: 5.1 Consensus size: 27
99663477 GGAAGCGTTT
*
99663487 TGGTGGCTATGCCACAAATATCTGATC
1 TGGTGGCTCTGCCACAAATATCTGATC
99663514 TGGTGGCTCTGCCACAAATATCTGATC
1 TGGTGGCTCTGCCACAAATATCTGATC
* *
99663541 TGGTGGCTCTGCCACATATATCTGTTC
1 TGGTGGCTCTGCCACAAATATCTGATC
* *
99663568 TGGTGGCTCTGCCACGATTATCTGTAT-
1 TGGTGGCTCTGCCACAAATATCTG-ATC
* * * *
99663595 TGGTGACTCTGTCAC-ATTATCTGTTC
1 TGGTGGCTCTGCCACAAATATCTGATC
99663621 TGG
1 TGG
99663624 CAGCCATGCT
Statistics
Matches: 98, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
25 1 0.01
26 11 0.11
27 85 0.87
28 1 0.01
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (27 bp):
TGGTGGCTCTGCCACAAATATCTGATC
Found at i:99663570 original size:54 final size:54
Alignment explanation
Indices: 99663486--99663623 Score: 190
Period size: 54 Copynumber: 2.6 Consensus size: 54
99663476 AGGAAGCGTT
* * *
99663486 TTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTG-A
1 TTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
99663539 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCTGTA
1 T-TGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
99663594 TTGGTGACTCTGTCACAT-TATCTGTTCTGG
1 TTGGTGGCTCTGCCACATATATCTGTTCTGG
99663624 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
53 13 0.17
54 61 0.80
55 2 0.03
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (54 bp):
TTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:99663709 original size:19 final size:22
Alignment explanation
Indices: 99663685--99663724 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
99663675 CTCCCCACAC
99663685 GGTGTA-A-GGTTGG-TATGGG
1 GGTGTATACGGTTGGATATGGG
99663704 GGTGTATACGGTTGGATATGG
1 GGTGTATACGGTTGGATATGG
99663725 TTGGGTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.17, C:0.03, G:0.47, T:0.33
Consensus pattern (22 bp):
GGTGTATACGGTTGGATATGGG
Found at i:99666203 original size:48 final size:49
Alignment explanation
Indices: 99666139--99666232 Score: 138
Period size: 48 Copynumber: 1.9 Consensus size: 49
99666129 TTTATTTGTC
99666139 TTTAATTAAATTTTTTATTCTATATT-AAA-ATATATTTTAAATATTTAA
1 TTTAATTAAATTTTTTATTCTAT-TTAAAATATATATTTTAAATATTTAA
* *
99666187 TTTAATTTAATTTTTTATTCTGTTTAAAAATATATATTTTAAATAT
1 TTTAATTAAATTTTTTATTCTATTT-AAAATATATATTTTAAATAT
99666233 GAAATGTTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
47 2 0.05
48 21 0.51
49 3 0.07
50 15 0.37
ACGTcount: A:0.39, C:0.02, G:0.01, T:0.57
Consensus pattern (49 bp):
TTTAATTAAATTTTTTATTCTATTTAAAATATATATTTTAAATATTTAA
Found at i:99666247 original size:48 final size:45
Alignment explanation
Indices: 99666146--99666250 Score: 113
Period size: 48 Copynumber: 2.2 Consensus size: 45
99666136 GTCTTTAATT
**
99666146 AAATTTTTTATTCTATATTAAAATATATTTTAAATATTTAATTTA
1 AAATTTTTTATTCTATATTAAAATATATTTTAAATATGAAATTTA
*
99666191 ATTTAATTTTTTATTCTGT-TTAAAAATATATATTTTAAATATGAAATGTTA
1 A---AATTTTTTATTCTATATT--AAA-ATATATTTTAAATATGAAAT-TTA
99666242 AAATTTTTT
1 AAATTTTTT
99666251 TAAGTGGATT
Statistics
Matches: 50, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
45 1 0.02
47 2 0.04
48 22 0.44
49 3 0.06
50 18 0.36
51 4 0.08
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (45 bp):
AAATTTTTTATTCTATATTAAAATATATTTTAAATATGAAATTTA
Found at i:99667320 original size:13 final size:14
Alignment explanation
Indices: 99667299--99667332 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
99667289 ATGTCTTCTC
*
99667299 TTTTCTTTT-CTTT
1 TTTTTTTTTCCTTT
99667312 TTTTTTTTTCCTTT
1 TTTTTTTTTCCTTT
99667326 TTTTTTT
1 TTTTTTT
99667333 CTTAGATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.42
14 11 0.58
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (14 bp):
TTTTTTTTTCCTTT
Found at i:99673011 original size:20 final size:21
Alignment explanation
Indices: 99672957--99673012 Score: 55
Period size: 21 Copynumber: 2.6 Consensus size: 21
99672947 GTGGTTATTC
99672957 AAAATGGAAAAAAATAGATGAG
1 AAAAT-GAAAAAAATAGATGAG
99672979 AAAA-GAAATAAAA-ATGA-GAG
1 AAAATGAAA-AAAATA-GATGAG
99672999 AAAATGAAGAAAAA
1 AAAATGAA-AAAAA
99673013 GGAGGTAGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
20 12 0.40
21 13 0.43
22 5 0.17
ACGTcount: A:0.70, C:0.00, G:0.20, T:0.11
Consensus pattern (21 bp):
AAAATGAAAAAAATAGATGAG
Found at i:99684261 original size:27 final size:27
Alignment explanation
Indices: 99683973--99684311 Score: 260
Period size: 27 Copynumber: 12.6 Consensus size: 27
99683963 ATTCTATAAG
* **
99683973 GGGTATTTCAATAATTTTGTAAATCGA
1 GGGTATTTCAGTAATTTTACAAATCGA
* *** * ** *
99684000 TGGTAAAACGGTAATTTTGTAAATCGG
1 GGGTATTTCAGTAATTTTACAAATCGA
* * *
99684027 GGGTACTTT-GGTAATTTTACAAGTCAA
1 GGGTA-TTTCAGTAATTTTACAAATCGA
* *
99684054 AGGTATTTCAATAATTTTACAAATCGA
1 GGGTATTTCAGTAATTTTACAAATCGA
* *
99684081 GGGTATTTTAGTAATTTTGCAAA-CTGA
1 GGGTATTTCAGTAATTTTACAAATC-GA
*
99684108 GGGTATTTCAGTAATTTTACAAATTGA
1 GGGTATTTCAGTAATTTTACAAATCGA
* *
99684135 GGGTATTTTAGTAATTTTGCAAAGT-GA
1 GGGTATTTCAGTAATTTTACAAA-TCGA
*
99684162 GGGTATTTCTA-TAATTTTACAAATTGA
1 GGGTATTTC-AGTAATTTTACAAATCGA
*
99684189 GGGTATTTCAGTAATTTTAC-AATCAA
1 GGGTATTTCAGTAATTTTACAAATCGA
* * *
99684215 CGGTATTTCGGTAATTTTATAAATCGA
1 GGGTATTTCAGTAATTTTACAAATCGA
** * * *
99684242 GGGTATTTGGGTAATTTTATAAACCGG
1 GGGTATTTCAGTAATTTTACAAATCGA
* ** *
99684269 GGGTACTTT-GGTAATTTTACAGCT-GG
1 GGGTA-TTTCAGTAATTTTACAAATCGA
*
99684295 GGGTATTTTAGTAATTT
1 GGGTATTTCAGTAATTT
99684312 GGTAAACTAA
Statistics
Matches: 254, Mismatches: 47, Indels: 23
0.78 0.15 0.07
Matches are distributed among these distances:
25 3 0.01
26 41 0.16
27 205 0.81
28 5 0.02
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTACAAATCGA
Found at i:99695187 original size:193 final size:193
Alignment explanation
Indices: 99694840--99695216 Score: 585
Period size: 193 Copynumber: 2.0 Consensus size: 193
99694830 TTTGCTCCCA
*
99694840 ACAATCTCGGATGGCAAAATCTTAACGAAATTTCATTTTCCTTTTTCCCTATTTCTCCACCCATT
1 ACAATCTCGGATGGCAAAATCTTAACGAAATTCCATTTTCCTTTTTCCCTATTTCTCCACCCATT
* * * *
99694905 CCTCCATTCGTCATCCTAACATTGATGCTTGAACACCACAATGTCCCCTTTATAAGGCCTAGAGC
66 CCTCCATTCATCATCCTAAAATTGATGCTCGAACACCACAATGTCCCCTTTATAAAGCCTAGAGC
** * *
99694970 TTCGTACATCATGGGTGTACTCAGTAACATCGTATGGCGGTATCTAACAGAATCACCCCTTAT
131 TTCACACATCACGGGTGCACTCAGTAACATCGTATGGCGGTATCTAACAGAATCACCCCTTAT
* * * *
99695033 ACAATCTTGGATGGTAGAATTTTAACGAAATTCCATTTTCCTTTTTCCCTATTTCTCCACCCATT
1 ACAATCTCGGATGGCAAAATCTTAACGAAATTCCATTTTCCTTTTTCCCTATTTCTCCACCCATT
*
99695098 CCTCCATTCATTATCCTAAAATTGATGCTCGAACACCACAATGT-CCCTTTCATAAAGCCTAGAG
66 CCTCCATTCATCATCCTAAAATTGATGCTCGAACACCACAATGTCCCCTTT-ATAAAGCCTAGAG
* * *
99695162 TTTCACACATCACGGGTGCACTCAGTAATATCGTATGGCGGTTTCTAACAGAATC
130 CTTCACACATCACGGGTGCACTCAGTAACATCGTATGGCGGTATCTAACAGAATC
99695217 TCTATTTATT
Statistics
Matches: 166, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
192 6 0.04
193 160 0.96
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.33
Consensus pattern (193 bp):
ACAATCTCGGATGGCAAAATCTTAACGAAATTCCATTTTCCTTTTTCCCTATTTCTCCACCCATT
CCTCCATTCATCATCCTAAAATTGATGCTCGAACACCACAATGTCCCCTTTATAAAGCCTAGAGC
TTCACACATCACGGGTGCACTCAGTAACATCGTATGGCGGTATCTAACAGAATCACCCCTTAT
Found at i:99698102 original size:28 final size:27
Alignment explanation
Indices: 99698062--99698158 Score: 86
Period size: 28 Copynumber: 3.5 Consensus size: 27
99698052 AAGCGTCCTG
* *
99698062 GTGGCTATGCCACAAATTATTTGATCTA
1 GTGGCTCTGCCACAAA-TATCTGATCTA
* * *
99698090 GTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTCTGCCACAAATATCTGATCTA
* * *
99698117 GTGGCTCTGCCACGATTATCTGTATCTG
1 GTGGCTCTGCCACAAATATCTG-ATCTA
* *
99698145 GTGACTCTGTCACA
1 GTGGCTCTGCCACA
99698159 TTATCTGTTC
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
27 27 0.48
28 29 0.52
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.35
Consensus pattern (27 bp):
GTGGCTCTGCCACAAATATCTGATCTA
Found at i:99698123 original size:27 final size:26
Alignment explanation
Indices: 99698059--99698171 Score: 127
Period size: 27 Copynumber: 4.2 Consensus size: 26
99698049 AGGAAGCGTC
* * *
99698059 CTGGTGGCTATGCCACAAATTATTTGAT
1 CTGGTGGCTCTGCCAC--ATTATCTGTT
*
99698087 CTAGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
99698114 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
99698142 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
99698168 CTGG
1 CTGG
99698172 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
26 7 0.09
27 37 0.49
28 31 0.41
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:99698153 original size:55 final size:54
Alignment explanation
Indices: 99698059--99698171 Score: 147
Period size: 55 Copynumber: 2.1 Consensus size: 54
99698049 AGGAAGCGTC
* *
99698059 CTGGTGGCTATGCCACAAATTATTTGATCTAGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATTATCTGATCTAGTGACTCTGCCACAT-TATCTGTT
* * * *
99698114 CTGGTGGCTCTGCCAC-GATTATCTGTATCTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTATGCCACAAATTATCTG-ATCTAGTGACTCTGCCACATTATCTGTT
99698168 CTGG
1 CTGG
99698172 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
54 19 0.37
55 32 0.63
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATTATCTGATCTAGTGACTCTGCCACATTATCTGTT
Found at i:99700034 original size:71 final size:71
Alignment explanation
Indices: 99699937--99700079 Score: 232
Period size: 71 Copynumber: 2.0 Consensus size: 71
99699927 AAAGTGTTGA
* * *
99699937 TATTTTTCTCAAATCAGGATGTTTACATACATGAAGTTCATAATGCTTCAACTCATATGGAAGAC
1 TATTTTTCTCAAATCAAGATGCTTACATACATCAAGTTCATAATGCTTCAACTCATATGGAAGAC
99700002 GTTCTT
66 GTTCTT
* * *
99700008 TATTTTTCTCAAATTAAGATGCTTACATACATCAAGTTCATAATGCTTCAACTCATATGGGAGAG
1 TATTTTTCTCAAATCAAGATGCTTACATACATCAAGTTCATAATGCTTCAACTCATATGGAAGAC
99700073 GTTCTT
66 GTTCTT
99700079 T
1 T
99700080 CTCTTGTTGA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
71 66 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (71 bp):
TATTTTTCTCAAATCAAGATGCTTACATACATCAAGTTCATAATGCTTCAACTCATATGGAAGAC
GTTCTT
Found at i:99702198 original size:18 final size:17
Alignment explanation
Indices: 99702176--99702216 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 17
99702166 TTAAAAGATA
99702176 AAAAAAAATTAATAACTAT
1 AAAAAAAATT-A-AACTAT
99702195 AAAATAAAATTAAACTAT
1 AAAA-AAAATTAAACTAT
99702213 AAAA
1 AAAA
99702217 TTTAAAACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 10 0.48
19 5 0.24
20 6 0.29
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAAAAAATTAAACTAT
Found at i:99702217 original size:18 final size:20
Alignment explanation
Indices: 99702173--99702217 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
99702163 ATCTTAAAAG
*
99702173 ATAAAAAAAAATTAATAACT
1 ATAAAATAAAATTAATAACT
99702193 ATAAAATAAAATT-A-AACT
1 ATAAAATAAAATTAATAACT
99702211 ATAAAAT
1 ATAAAAT
99702218 TTAAAACATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 11 0.46
19 1 0.04
20 12 0.50
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (20 bp):
ATAAAATAAAATTAATAACT
Found at i:99704069 original size:20 final size:20
Alignment explanation
Indices: 99704046--99704084 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
99704036 CTCAATTTAC
99704046 TTTTAATTGACAAATAATTT
1 TTTTAATTGACAAATAATTT
*
99704066 TTTTAATTGACATATAATT
1 TTTTAATTGACAAATAATT
99704085 GCAGCACTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.51
Consensus pattern (20 bp):
TTTTAATTGACAAATAATTT
Found at i:99704454 original size:41 final size:41
Alignment explanation
Indices: 99704397--99704478 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
99704387 GAGGTTCAAG
*
99704397 CCCTCTTTCTAGCGTTTCTCACATGTTTTTTATGGTTTAAT
1 CCCTCTTTCTAGCGTTTCTCACATATTTTTTATGGTTTAAT
99704438 CCCTCTTTCTAGCGTTTCTCACATATTTTTTATGGTTTAAT
1 CCCTCTTTCTAGCGTTTCTCACATATTTTTTATGGTTTAAT
99704479 TTGAAACTCA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.16, C:0.22, G:0.11, T:0.51
Consensus pattern (41 bp):
CCCTCTTTCTAGCGTTTCTCACATATTTTTTATGGTTTAAT
Found at i:99707844 original size:86 final size:86
Alignment explanation
Indices: 99707694--99707870 Score: 309
Period size: 86 Copynumber: 2.1 Consensus size: 86
99707684 GTACGTATGG
*
99707694 TATACGTAACAAAAGGTGTTGGAATGTGTTAATAATTGAAAATTGCATTTTCAGGTATAAGTATT
1 TATACGTAACAAAAGGTGTTAGAATGTGTTAATAATTGAAAATTGCATTTTCAGGTATAAGTATT
99707759 GGAACCTCAAGCTTAGGAATC
66 GGAACCTCAAGCTTAGGAATC
* * *
99707780 TATAGGTAACAAAAGGTGTTAGAATGTGTTAATAATTGAAAATTGCATTTTTAGGTGTAAGTATT
1 TATACGTAACAAAAGGTGTTAGAATGTGTTAATAATTGAAAATTGCATTTTCAGGTATAAGTATT
99707845 GGAACCTCAAGCTTAGGAATC
66 GGAACCTCAAGCTTAGGAATC
*
99707866 AATAC
1 TATAC
99707871 CTCTTAGGTT
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
86 85 1.00
ACGTcount: A:0.37, C:0.10, G:0.21, T:0.33
Consensus pattern (86 bp):
TATACGTAACAAAAGGTGTTAGAATGTGTTAATAATTGAAAATTGCATTTTCAGGTATAAGTATT
GGAACCTCAAGCTTAGGAATC
Found at i:99709159 original size:17 final size:17
Alignment explanation
Indices: 99709137--99709171 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
99709127 CCAAAAAAAA
99709137 GACTTACCTATAGGAGG
1 GACTTACCTATAGGAGG
*
99709154 GACTTACCTATAGTAGG
1 GACTTACCTATAGGAGG
99709171 G
1 G
99709172 TGCCAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.26
Consensus pattern (17 bp):
GACTTACCTATAGGAGG
Found at i:99722671 original size:22 final size:22
Alignment explanation
Indices: 99722628--99722671 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
99722618 AAATGAGATG
* *
99722628 GGGAAAAATTTCGGCAGGGAAA
1 GGGAAAAATTTCGGAAGAGAAA
99722650 GGGAAAAA-TTCGGAAGAAGAAA
1 GGGAAAAATTTCGGAAG-AGAAA
99722672 AAAAGAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.48, C:0.07, G:0.34, T:0.11
Consensus pattern (22 bp):
GGGAAAAATTTCGGAAGAGAAA
Found at i:99725527 original size:18 final size:18
Alignment explanation
Indices: 99725490--99725551 Score: 58
Period size: 18 Copynumber: 3.4 Consensus size: 18
99725480 TCTTTCTAGT
*
99725490 TTATATTTATTT-ATTAAA
1 TTATTTTTATTTAATT-AA
99725508 TTATTTTTATTTAATTAA
1 TTATTTTTATTTAATTAA
*
99725526 TT-TTTATT-TTTAAATTTA
1 TTATTT-TTATTT-AATTAA
99725544 TTATTTTT
1 TTATTTTT
99725552 CATTATCTCG
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
17 6 0.16
18 26 0.68
19 6 0.16
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TTATTTTTATTTAATTAA
Found at i:99725528 original size:15 final size:14
Alignment explanation
Indices: 99725499--99725534 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
99725489 TTTATATTTA
*
99725499 TTTATTAAATTATT
1 TTTATTTAATTATT
99725513 TTTATTTAATTAATT
1 TTTATTTAATT-ATT
99725528 TTTATTT
1 TTTATTT
99725535 TTAAATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTATTTAATTATT
Found at i:99725547 original size:15 final size:14
Alignment explanation
Indices: 99725510--99725551 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
99725500 TTATTAAATT
99725510 ATTTTTATTTAATT-A
1 ATTTTTATTT--TTAA
99725525 ATTTTTATTTTTAA
1 ATTTTTATTTTTAA
99725539 ATTTATTATTTTT
1 ATTT-TTATTTTT
99725552 CATTATCTCG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 2 0.08
14 5 0.20
15 18 0.72
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
ATTTTTATTTTTAA
Found at i:99727443 original size:49 final size:50
Alignment explanation
Indices: 99727388--99727482 Score: 158
Period size: 50 Copynumber: 1.9 Consensus size: 50
99727378 TTTATTTGTT
99727388 TTTAATTAAATTTT-TTATTCTATATT-AAAAATATATTTTAAATATTTAA
1 TTTAATT-AATTTTGTTATTCTATATTAAAAAATATATTTTAAATATTTAA
*
99727437 TTTAATTAATTTTGTTATTCTGTATTAAAAAATATATTTTAAATAT
1 TTTAATTAATTTTGTTATTCTATATTAAAAAATATATTTTAAATAT
99727483 GAAATGTTAA
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
48 6 0.14
49 18 0.42
50 19 0.44
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (50 bp):
TTTAATTAATTTTGTTATTCTATATTAAAAAATATATTTTAAATATTTAA
Found at i:99728014 original size:27 final size:27
Alignment explanation
Indices: 99727967--99728027 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
99727957 TATATTGAAA
99727967 CTAAATAA-TTTTTTTAAAAGAACAGT
1 CTAAATAATTTTTTTTAAAAGAACAGT
*
99727993 CTAAATAATTTTTTTTATAAGAACAGT
1 CTAAATAATTTTTTTTAAAAGAACAGT
99728020 CT-AATAAT
1 CTAAATAAT
99728028 CTAGTTTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
26 14 0.42
27 19 0.58
ACGTcount: A:0.44, C:0.08, G:0.07, T:0.41
Consensus pattern (27 bp):
CTAAATAATTTTTTTTAAAAGAACAGT
Found at i:99728035 original size:27 final size:27
Alignment explanation
Indices: 99727967--99728035 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
99727957 TATATTGAAA
*
99727967 CTAAATAATT-TTTTTAAAAGAACAGT
1 CTAAATAATTAGTTTTAAAAGAACAGT
** *
99727993 CTAAATAATTTTTTTTATAAGAACAGT
1 CTAAATAATTAGTTTTAAAAGAACAGT
99728020 CT-AATAATCTAGTTTT
1 CTAAATAAT-TAGTTTT
99728036 TATTATAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
26 16 0.42
27 22 0.58
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.43
Consensus pattern (27 bp):
CTAAATAATTAGTTTTAAAAGAACAGT
Found at i:99728099 original size:14 final size:14
Alignment explanation
Indices: 99728077--99728110 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
99728067 TTATTAATTA
99728077 GTTTCAAAAAATAT
1 GTTTCAAAAAATAT
* *
99728091 GTTTTAAAACATAT
1 GTTTCAAAAAATAT
99728105 GTTTCA
1 GTTTCA
99728111 TTATTTGTTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (14 bp):
GTTTCAAAAAATAT
Found at i:99730031 original size:2 final size:2
Alignment explanation
Indices: 99730024--99730049 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
99730014 TGCACTTGTT
99730024 CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA
99730050 TATATATACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:99730890 original size:41 final size:41
Alignment explanation
Indices: 99730833--99730915 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
99730823 ACGGCCATGT
*
99730833 GACATAGCCCAGCTTGTGTGGCTTAGGGACATGGTCGTGTA
1 GACATAGCCCAGCTTGTGTAGCTTAGGGACATGGTCGTGTA
99730874 GACATAGCCCAGCTTGTGTAGCTTAGGGACATGGTCGTGTA
1 GACATAGCCCAGCTTGTGTAGCTTAGGGACATGGTCGTGTA
99730915 G
1 G
99730916 CCAAACCATG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.20, C:0.19, G:0.34, T:0.27
Consensus pattern (41 bp):
GACATAGCCCAGCTTGTGTAGCTTAGGGACATGGTCGTGTA
Found at i:99730915 original size:21 final size:21
Alignment explanation
Indices: 99730848--99730916 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
99730838 AGCCCAGCTT
*
99730848 GTGTGGCTTAGGGACATGGTC
1 GTGTAGCTTAGGGACATGGTC
* ** * *
99730869 GTGTAGACATA-GCCCA-GCTT
1 GTGTAG-CTTAGGGACATGGTC
99730889 GTGTAGCTTAGGGACATGGTC
1 GTGTAGCTTAGGGACATGGTC
99730910 GTGTAGC
1 GTGTAGC
99730917 CAAACCATGC
Statistics
Matches: 34, Mismatches: 11, Indels: 6
0.67 0.22 0.12
Matches are distributed among these distances:
19 3 0.09
20 11 0.32
21 17 0.50
22 3 0.09
ACGTcount: A:0.19, C:0.17, G:0.36, T:0.28
Consensus pattern (21 bp):
GTGTAGCTTAGGGACATGGTC
Found at i:99742729 original size:11 final size:11
Alignment explanation
Indices: 99742713--99742737 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
99742703 TTATATATAC
99742713 TAATAAAATAA
1 TAATAAAATAA
99742724 TAATAAAATAA
1 TAATAAAATAA
99742735 TAA
1 TAA
99742738 AATATCATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:99745282 original size:18 final size:18
Alignment explanation
Indices: 99745255--99745300 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
99745245 TGTGGCCGTG
99745255 TGGG-CCACACAGGGGTA
1 TGGGCCCACACAGGGGTA
*
99745272 TGGGCCCACACAGGGGTG
1 TGGGCCCACACAGGGGTA
*
99745290 TGAGCCCACAC
1 TGGGCCCACAC
99745301 GGGCACTTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 4 0.15
18 22 0.85
ACGTcount: A:0.22, C:0.30, G:0.37, T:0.11
Consensus pattern (18 bp):
TGGGCCCACACAGGGGTA
Found at i:99759319 original size:25 final size:25
Alignment explanation
Indices: 99759291--99759348 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
99759281 TATGGATTAT
99759291 GGTTTAAGAGTGGTTTAAGG-GTT-GG
1 GGTTTAAG-GTGGTTT-AGGTGTTAGG
*
99759316 GGTTTAAGGTTGTTTAGGTGTTAGG
1 GGTTTAAGGTGGTTTAGGTGTTAGG
99759341 GG-TTAAGG
1 GGTTTAAGG
99759349 GTTAAGGGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 3 0.10
24 15 0.50
25 12 0.40
ACGTcount: A:0.19, C:0.00, G:0.43, T:0.38
Consensus pattern (25 bp):
GGTTTAAGGTGGTTTAGGTGTTAGG
Found at i:99759326 original size:21 final size:22
Alignment explanation
Indices: 99759302--99759372 Score: 65
Period size: 22 Copynumber: 3.2 Consensus size: 22
99759292 GTTTAAGAGT
99759302 GGTTTAAGGGTT-GGGGTTTAA
1 GGTTTAAGGGTTAGGGGTTTAA
*
99759323 GGTTGTTTAGGTGTTAGGGG-TTAA
1 GG-T-TTAAGG-GTTAGGGGTTTAA
* * *
99759347 GGGTTAAGGGTTAGTGGTTCAA
1 GGTTTAAGGGTTAGGGGTTTAA
99759369 GGTT
1 GGTT
99759373 CAGGGTTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
21 9 0.23
22 12 0.31
23 5 0.13
24 9 0.23
25 4 0.10
ACGTcount: A:0.18, C:0.01, G:0.42, T:0.38
Consensus pattern (22 bp):
GGTTTAAGGGTTAGGGGTTTAA
Found at i:99759377 original size:21 final size:21
Alignment explanation
Indices: 99759305--99759379 Score: 64
Period size: 21 Copynumber: 3.4 Consensus size: 21
99759295 TAAGAGTGGT
99759305 TTAAGGGTT-GGGGTTTAAGGTTG
1 TTAAGGGTTAGGGG-TTAAGG--G
*
99759328 TTTAGGTGTTAGGGGTTAAGGG
1 TTAAGG-GTTAGGGGTTAAGGG
*
99759350 TTAAGGGTTAGTGGTTCAA-GG
1 TTAAGGGTTAGGGGTT-AAGGG
*
99759371 TTCAGGGTT
1 TTAAGGGTT
99759380 TATGTTTTAG
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
21 19 0.42
22 8 0.18
23 5 0.11
24 9 0.20
25 4 0.09
ACGTcount: A:0.19, C:0.03, G:0.41, T:0.37
Consensus pattern (21 bp):
TTAAGGGTTAGGGGTTAAGGG
Found at i:99759540 original size:7 final size:7
Alignment explanation
Indices: 99759525--99759569 Score: 54
Period size: 7 Copynumber: 6.4 Consensus size: 7
99759515 TTAATTATCA
*
99759525 TTATAGT
1 TTATGGT
99759532 TTATGGT
1 TTATGGT
99759539 TTATGGT
1 TTATGGT
*
99759546 TTAAGGT
1 TTATGGT
*
99759553 ATATGGT
1 TTATGGT
*
99759560 TTAAGGT
1 TTATGGT
99759567 TTA
1 TTA
99759570 AAGTGTATGA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.51
Consensus pattern (7 bp):
TTATGGT
Found at i:99759547 original size:14 final size:14
Alignment explanation
Indices: 99759525--99759569 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
99759515 TTAATTATCA
* *
99759525 TTATAGTTTATGGT
1 TTATGGTTTAAGGT
99759539 TTATGGTTTAAGGT
1 TTATGGTTTAAGGT
*
99759553 ATATGGTTTAAGGT
1 TTATGGTTTAAGGT
99759567 TTA
1 TTA
99759570 AAGTGTATGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.51
Consensus pattern (14 bp):
TTATGGTTTAAGGT
Found at i:99759578 original size:21 final size:21
Alignment explanation
Indices: 99759533--99759578 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
99759523 CATTATAGTT
* *
99759533 TATGGTTTATGGTTTAAGGTA
1 TATGGTTTAAGGTTTAAAGTA
*
99759554 TATGGTTTAAGGTTTAAAGTG
1 TATGGTTTAAGGTTTAAAGTA
99759575 TATG
1 TATG
99759579 AGTTACTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (21 bp):
TATGGTTTAAGGTTTAAAGTA
Found at i:99759971 original size:13 final size:13
Alignment explanation
Indices: 99759948--99759987 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
99759938 AAAATCTTCA
99759948 AAAAAATATAAAATT
1 AAAAAATA-AAAA-T
*
99759963 TAAAAATAAAAAT
1 AAAAAATAAAAAT
99759976 AAAAAATAAAAA
1 AAAAAATAAAAA
99759988 ACTTAAAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 4 0.17
15 7 0.30
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:99766985 original size:19 final size:17
Alignment explanation
Indices: 99766963--99767011 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
99766953 TTTCTGTCAC
99766963 TTTATATATTTTTGAATTT
1 TTTATATATTTTT--ATTT
*
99766982 TTTATATACTTTTATTT
1 TTTATATATTTTTATTT
*
99766999 TTTTTATAATTTT
1 TTTATAT-ATTTT
99767012 CTAAAATCGT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 10 0.38
18 4 0.15
19 12 0.46
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (17 bp):
TTTATATATTTTTATTT
Found at i:99766998 original size:17 final size:18
Alignment explanation
Indices: 99766963--99767011 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
99766953 TTTCTGTCAC
*
99766963 TTTATATATTTTTGAATTT
1 TTTATATAATTTT-AATTT
*
99766982 TTTATATACTTTT-ATTT
1 TTTATATAATTTTAATTT
*
99766999 TTTTTATAATTTT
1 TTTATATAATTTT
99767012 CTAAAATCGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 15 0.56
19 12 0.44
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (18 bp):
TTTATATAATTTTAATTT
Found at i:99767877 original size:41 final size:41
Alignment explanation
Indices: 99767829--99767912 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
99767819 AAGAATAAAA
99767829 AATTCATTGATAATAGGCCCTATTCATGCAAGTAAAAAACT
1 AATTCATTGATAATAGGCCCTATTCATGCAAGTAAAAAACT
99767870 AATTCATTGATAATAGGCCCTATTCATGCAAGTAAAAAACT
1 AATTCATTGATAATAGGCCCTATTCATGCAAGTAAAAAACT
99767911 AA
1 AA
99767913 CTAAAGATAA
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:0.43, C:0.17, G:0.12, T:0.29
Consensus pattern (41 bp):
AATTCATTGATAATAGGCCCTATTCATGCAAGTAAAAAACT
Found at i:99770273 original size:7 final size:6
Alignment explanation
Indices: 99770243--99770272 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
99770233 ATGTTTCTAC
99770243 TTTAAA TTTAAA TTTAAA TTTAATA TTTAA
1 TTTAAA TTTAAA TTTAAA TTTAA-A TTTAA
99770273 TTTGATAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (6 bp):
TTTAAA
Found at i:99774419 original size:15 final size:15
Alignment explanation
Indices: 99774383--99774411 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
99774373 CCACCACCGG
99774383 CCACCACCACCACTT
1 CCACCACCACCACTT
99774398 CCACCACCACCACT
1 CCACCACCACCACT
99774412 ATCACCACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.62, G:0.00, T:0.10
Consensus pattern (15 bp):
CCACCACCACCACTT
Found at i:99778188 original size:20 final size:20
Alignment explanation
Indices: 99778163--99778212 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
99778153 AGATGACGTG
99778163 TCAAAGATGCTCGACTAATT
1 TCAAAGATGCTCGACTAATT
99778183 TCAAAGATGCTCGACTAATT
1 TCAAAGATGCTCGACTAATT
99778203 TCAAAGATGC
1 TCAAAGATGC
99778213 CAACCCCTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (20 bp):
TCAAAGATGCTCGACTAATT
Found at i:99780456 original size:23 final size:23
Alignment explanation
Indices: 99780430--99780483 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
99780420 ATACAAGTTT
*
99780430 GAAAAAAAAACCGAAAAAAATTC
1 GAAAAAAAAACAGAAAAAAATTC
**
99780453 GAAAAAAAATTAGAAAAAAATTC
1 GAAAAAAAAACAGAAAAAAATTC
99780476 -AAAAAAAA
1 GAAAAAAAA
99780484 TTGAAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 8 0.29
23 20 0.71
ACGTcount: A:0.74, C:0.07, G:0.07, T:0.11
Consensus pattern (23 bp):
GAAAAAAAAACAGAAAAAAATTC
Found at i:99780458 original size:12 final size:12
Alignment explanation
Indices: 99780430--99780494 Score: 75
Period size: 11 Copynumber: 5.8 Consensus size: 12
99780420 ATACAAGTTT
**
99780430 GAAAAAAAAACC
1 GAAAAAAAATTC
99780442 G-AAAAAAATTC
1 GAAAAAAAATTC
*
99780453 GAAAAAAAATTA
1 GAAAAAAAATTC
99780465 G-AAAAAAATTC
1 GAAAAAAAATTC
99780476 -AAAAAAAATT-
1 GAAAAAAAATTC
99780486 GAAAAAAAA
1 GAAAAAAAA
99780495 GTGATTTATG
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
11 35 0.76
12 11 0.24
ACGTcount: A:0.74, C:0.06, G:0.08, T:0.12
Consensus pattern (12 bp):
GAAAAAAAATTC
Found at i:99781424 original size:21 final size:21
Alignment explanation
Indices: 99781398--99781447 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
99781388 ACATTCTTGT
99781398 AAAGAAAAAACAAAGAAAAG-A
1 AAAGAAAAAACAAA-AAAAGAA
* *
99781419 AAAGAAAAAGCAAAAGAAGAA
1 AAAGAAAAAACAAAAAAAGAA
99781440 AAAGAAAA
1 AAAGAAAA
99781448 TGAAATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 4 0.15
21 22 0.85
ACGTcount: A:0.80, C:0.04, G:0.16, T:0.00
Consensus pattern (21 bp):
AAAGAAAAAACAAAAAAAGAA
Found at i:99781433 original size:6 final size:5
Alignment explanation
Indices: 99781398--99781465 Score: 59
Period size: 5 Copynumber: 13.0 Consensus size: 5
99781388 ACATTCTTGT
* *
99781398 AAAGA AAAAA CAAAGA AAAGA AAAGAA AAAGCA AAAGA AGA-A AAAGA
1 AAAGA AAAGA -AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA
99781445 AAATGA AATA-A AAAGA AAAGA
1 AAA-GA AA-AGA AAAGA AAAGA
99781466 GAGGCAAGAG
Statistics
Matches: 52, Mismatches: 5, Indels: 12
0.75 0.07 0.17
Matches are distributed among these distances:
4 4 0.08
5 29 0.56
6 18 0.35
7 1 0.02
ACGTcount: A:0.78, C:0.03, G:0.16, T:0.03
Consensus pattern (5 bp):
AAAGA
Found at i:99781438 original size:15 final size:14
Alignment explanation
Indices: 99781409--99781465 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
99781399 AAGAAAAAAC
99781409 AAAGAAAAGAAAAGAA
1 AAAGAAAAG--AAGAA
99781425 AAAGCAAAAGAAGAA
1 AAAG-AAAAGAAGAA
*
99781440 AAAGAAAATGAAATAA
1 AAAGAAAA-G-AAGAA
99781456 AAAGAAAAGA
1 AAAGAAAAGA
99781466 GAGGCAAGAG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
14 5 0.14
15 11 0.30
16 16 0.43
17 5 0.14
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (14 bp):
AAAGAAAAGAAGAA
Found at i:99781545 original size:11 final size:12
Alignment explanation
Indices: 99781513--99781543 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
99781503 TTGAGAGAAC
99781513 TTGAAAAAGCCT
1 TTGAAAAAGCCT
99781525 TTGAAAAAGCCT
1 TTGAAAAAGCCT
99781537 TTGAAAA
1 TTGAAAA
99781544 GCAAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:99785167 original size:6 final size:6
Alignment explanation
Indices: 99785128--99785159 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
99785118 CCCAAAACCT
99785128 TCTCCA TCTCCA TCTCCA TCTCCA TCTCCA TC
1 TCTCCA TCTCCA TCTCCA TCTCCA TCTCCA TC
99785160 CTTCTCCTCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.16, C:0.50, G:0.00, T:0.34
Consensus pattern (6 bp):
TCTCCA
Found at i:99787828 original size:23 final size:24
Alignment explanation
Indices: 99787799--99787843 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
99787789 TGTTAGCATC
*
99787799 ATTATTAAT-TTTTTTATTTTTTT
1 ATTATTAATATTTTCTATTTTTTT
*
99787822 ATTATTACTATTTTCTATTTTT
1 ATTATTAATATTTTCTATTTTT
99787844 GCTATTGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.73
Consensus pattern (24 bp):
ATTATTAATATTTTCTATTTTTTT
Found at i:99787849 original size:25 final size:24
Alignment explanation
Indices: 99787799--99787858 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
99787789 TGTTAGCATC
* *
99787799 ATTATTAAT-TTTTTTATTTTTTT
1 ATTATTAATATTTTCTATTTTTCT
*
99787822 ATTATTACTATTTTCTATTTTTGCT
1 ATTATTAATATTTTCTATTTTT-CT
* *
99787847 ATTGTTATTATT
1 ATTATTAATATT
99787859 AGTATATTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
23 8 0.27
24 11 0.37
25 11 0.37
ACGTcount: A:0.22, C:0.05, G:0.03, T:0.70
Consensus pattern (24 bp):
ATTATTAATATTTTCTATTTTTCT
Found at i:99787916 original size:3 final size:3
Alignment explanation
Indices: 99787908--99788170 Score: 115
Period size: 3 Copynumber: 90.3 Consensus size: 3
99787898 TTAACCTATC
* *
99787908 ATT ATT ATT ATT -TT -TT ATT ATCT -TCT A-T ATT TTT ATT ATT AGT
1 ATT ATT ATT ATT ATT ATT ATT AT-T AT-T ATT ATT ATT ATT ATT ATT
* * * * * *
99787951 GTT ATT -TC ATT ATT ATT ATAT GTT ACT ATT A-C ATT CATT ATT TTT
1 ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT -ATT ATT ATT
* * * * * * *
99787996 ATT TTT ATT ATT CTT TTT ATT AAT ATT ATT TTT ACT ATT ATT -TT TTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * *
99788043 A-T ACT ATA ATT ATT CTT ATT AAT A-T ATT ATT ATT -TT CTT -TT TTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
99788087 A-T ATT ATT ATT A-T ATT ATT ATT ATT AATGT ATT ATT ATT GTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT -AT-T ATT ATT ATT ATT ATT
* * * * *
99788132 TTCT ACT -TT ATT ATT ATT -GT ATT ATC ACT ATT ATT ATT A
1 AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
99788171 CCATATCATT
Statistics
Matches: 193, Mismatches: 47, Indels: 40
0.69 0.17 0.14
Matches are distributed among these distances:
2 24 0.12
3 157 0.81
4 11 0.06
5 1 0.01
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:99788065 original size:46 final size:44
Alignment explanation
Indices: 99788012--99788121 Score: 114
Period size: 44 Copynumber: 2.4 Consensus size: 44
99788002 ATTATTCTTT
* *
99788012 TTATTAATATTATTTTTACTATTATTTTTTTATACTATAATTATTC
1 TTATTAATATTATTATTA-TATTATTTTTTTATACTATAATTA-TA
* * * *
99788058 TTATTAATA-TATTATTATTTTCTTTTTTTATATTATTATTATA
1 TTATTAATATTATTATTATATTATTTTTTTATACTATAATTATA
*
99788101 TTATTATTATTAATGTATTAT
1 TTATTAATATT-AT-TATTAT
99788122 TATTGTTATT
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
43 9 0.17
44 21 0.39
45 9 0.17
46 15 0.28
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.65
Consensus pattern (44 bp):
TTATTAATATTATTATTATATTATTTTTTTATACTATAATTATA
Found at i:99788104 original size:49 final size:48
Alignment explanation
Indices: 99787994--99788156 Score: 138
Period size: 49 Copynumber: 3.3 Consensus size: 48
99787984 TTCATTATTT
* * *
99787994 TTATT-TT-TATTATTCTTTTTATTAATATTATT-TTTACTATTATTTTT-
1 TTATTATTATATTATTCTTATTAAT-ATATTATTATTTTCT-TT-TTTTTA
*
99788041 TTA-TACTATAATTATTCTTATTAATATATTATTATTTTCTTTTTTTATA
1 TTATTATTAT-ATTATTCTTATTAATATATTATTATTTTCTTTTTTT-TA
* * *
99788090 TTATTATTATATTATTATTATTAATGTATTATTATTGTTATTTTCTACTTTA
1 TTATTATTATATTATTCTTATTAATATATTATTATT-TTCTTTT-T--TTTA
*
99788142 TTATTATTGTATTAT
1 TTATTATTATATTAT
99788157 CACTATTATT
Statistics
Matches: 96, Mismatches: 9, Indels: 17
0.79 0.07 0.14
Matches are distributed among these distances:
46 1 0.01
47 8 0.08
48 12 0.12
49 45 0.47
50 11 0.11
51 1 0.01
52 16 0.17
53 2 0.02
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (48 bp):
TTATTATTATATTATTCTTATTAATATATTATTATTTTCTTTTTTTTA
Found at i:99790692 original size:99 final size:99
Alignment explanation
Indices: 99790517--99790720 Score: 383
Period size: 99 Copynumber: 2.1 Consensus size: 99
99790507 ATAAAAGAGA
99790517 GTTTGTATTGTATTTTGTATTGTGTTTATTTGTGTGTAATAAAATTAAACTTTGAGTTATTTTTA
1 GTTTGTATTGTATTTTGTATTGTGTTTATTTGTGTGTAATAAAATTAAACTTTGAGTTATTTTTA
*
99790582 TTACTATGATTCCAACAAGTGGTATCCGAGCTAG
66 TTACTACGATTCCAACAAGTGGTATCCGAGCTAG
99790616 GTTTGTATTGTATTTTGTATTGTGTTTATTTGTGTGTAATAAAATTAGAA-TTTGAGTTATTTTT
1 GTTTGTATTGTATTTTGTATTGTGTTTATTTGTGTGTAATAAAATTA-AACTTTGAGTTATTTTT
99790680 ATTACTACGATTCCAACAAGTGGTATCCGAGCTAG
65 ATTACTACGATTCCAACAAGTGGTATCCGAGCTAG
99790715 GTTTGT
1 GTTTGT
99790721 GTTGACGTCA
Statistics
Matches: 103, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
99 101 0.98
100 2 0.02
ACGTcount: A:0.25, C:0.08, G:0.19, T:0.48
Consensus pattern (99 bp):
GTTTGTATTGTATTTTGTATTGTGTTTATTTGTGTGTAATAAAATTAAACTTTGAGTTATTTTTA
TTACTACGATTCCAACAAGTGGTATCCGAGCTAG
Found at i:99797876 original size:22 final size:24
Alignment explanation
Indices: 99797851--99797894 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
99797841 TAATTTCTAA
*
99797851 AAACAAA-TTTT-GTTTTTATTTC
1 AAACAAACTTTTAATTTTTATTTC
99797873 AAACAAACTTTTAATTTTTATT
1 AAACAAACTTTTAATTTTTATT
99797895 ATGATTTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 4 0.21
24 8 0.42
ACGTcount: A:0.36, C:0.09, G:0.02, T:0.52
Consensus pattern (24 bp):
AAACAAACTTTTAATTTTTATTTC
Found at i:99800941 original size:2 final size:2
Alignment explanation
Indices: 99800934--99800958 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
99800924 GCTCTTATTT
99800934 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
99800959 TTTCGAACCG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:99801796 original size:14 final size:14
Alignment explanation
Indices: 99801774--99801807 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
99801764 GACCCATTTT
*
99801774 TTTCCAAAAAATAG
1 TTTCGAAAAAATAG
*
99801788 TTTCGAAAAAATGG
1 TTTCGAAAAAATAG
99801802 TTTCGA
1 TTTCGA
99801808 TAGCATTTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (14 bp):
TTTCGAAAAAATAG
Found at i:99802323 original size:18 final size:18
Alignment explanation
Indices: 99802297--99802337 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
99802287 TACTAAAAAC
99802297 AAAAAATAA-AATACAACT
1 AAAAAATAATAA-ACAACT
*
99802315 AAAATATAATAAACAACT
1 AAAAAATAATAAACAACT
99802333 AAAAA
1 AAAAA
99802338 CCAAAAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.73, C:0.10, G:0.00, T:0.17
Consensus pattern (18 bp):
AAAAAATAATAAACAACT
Found at i:99802372 original size:23 final size:23
Alignment explanation
Indices: 99802340--99802409 Score: 74
Period size: 23 Copynumber: 3.1 Consensus size: 23
99802330 ACTAAAAACC
* *
99802340 AAAAATATACAATTAAATGATAA
1 AAAAAGATACAACTAAATGATAA
99802363 AAAAAGATACAACTAAA--A-AGA
1 AAAAAGATACAACTAAATGATA-A
* *
99802384 AAAAAGTTACAACTAAATGATTA
1 AAAAAGATACAACTAAATGATAA
99802407 AAA
1 AAA
99802410 GTACAAGTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
20 1 0.03
21 18 0.46
23 20 0.51
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.20
Consensus pattern (23 bp):
AAAAAGATACAACTAAATGATAA
Found at i:99802380 original size:44 final size:41
Alignment explanation
Indices: 99802327--99802491 Score: 152
Period size: 44 Copynumber: 3.8 Consensus size: 41
99802317 AATATAATAA
* *
99802327 ACAACTAAAAACCAAAAA-TATACAATTAAATGATAAAAAAAGAT
1 ACAACTAAAAACAAAAAAGT-TACAACTAAATGAT--AAAAAG-T
* *
99802371 ACAACTAAAAAGAAAAAAGTTACAACTAAATGATTAAAAGT
1 ACAACTAAAAACAAAAAAGTTACAACTAAATGATAAAAAGT
* *
99802412 ACAAGTAAAAACAAAAAAAAGAAGTTACAACGAAATGACTAAAACAGT
1 ACAACTAAAAAC----AAAA-AAGTTACAACTAAATGA-TAAAA-AGT
* *
99802460 ACAAATAAAAACAAAAAAGTTATAACTAAATG
1 ACAACTAAAAACAAAAAAGTTACAACTAAATG
99802492 TTGAAAAAAA
Statistics
Matches: 102, Mismatches: 11, Indels: 17
0.78 0.08 0.13
Matches are distributed among these distances:
41 11 0.11
42 5 0.05
43 14 0.14
44 33 0.32
45 5 0.05
46 16 0.16
47 4 0.04
48 14 0.14
ACGTcount: A:0.64, C:0.11, G:0.08, T:0.17
Consensus pattern (41 bp):
ACAACTAAAAACAAAAAAGTTACAACTAAATGATAAAAAGT
Found at i:99802388 original size:21 final size:20
Alignment explanation
Indices: 99802297--99802400 Score: 70
Period size: 21 Copynumber: 5.1 Consensus size: 20
99802287 TACTAAAAAC
*
99802297 AAAAAATAAA-ATACAACTA
1 AAAAAAAAAAGATACAACTA
* * *
99802316 AAATATAATA-A-ACAACTA
1 AAAAAAAAAAGATACAACTA
* * *
99802334 AAAACCAAAAATATACAATTA
1 AAAA-AAAAAAGATACAACTA
99802355 AATGATAAAAAAAGATACAACTA
1 AA--A-AAAAAAAGATACAACTA
*
99802378 AAAAGAAAAAAGTTACAACTA
1 AAAA-AAAAAAGATACAACTA
99802399 AA
1 AA
99802401 TGATTAAAAG
Statistics
Matches: 65, Mismatches: 13, Indels: 12
0.72 0.14 0.13
Matches are distributed among these distances:
18 10 0.15
19 10 0.15
20 2 0.03
21 26 0.40
23 16 0.25
24 1 0.02
ACGTcount: A:0.68, C:0.11, G:0.04, T:0.17
Consensus pattern (20 bp):
AAAAAAAAAAGATACAACTA
Found at i:99802448 original size:46 final size:48
Alignment explanation
Indices: 99802377--99802477 Score: 143
Period size: 48 Copynumber: 2.1 Consensus size: 48
99802367 AGATACAACT
* * *
99802377 AAAAAGAAAAAAGTTACAACTAAATGA-TTAAA-AGTACAAGTAAAAAC
1 AAAAA-AAAAAAGTTACAACGAAATGACTAAAACAGTACAAATAAAAAC
*
99802424 AAAAAAAAGAAGTTACAACGAAATGACTAAAACAGTACAAATAAAAAC
1 AAAAAAAAAAAGTTACAACGAAATGACTAAAACAGTACAAATAAAAAC
99802472 AAAAAA
1 AAAAAA
99802478 GTTATAACTA
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
46 19 0.40
47 9 0.19
48 20 0.42
ACGTcount: A:0.66, C:0.10, G:0.10, T:0.14
Consensus pattern (48 bp):
AAAAAAAAAAAGTTACAACGAAATGACTAAAACAGTACAAATAAAAAC
Found at i:99802478 original size:46 final size:45
Alignment explanation
Indices: 99802383--99802477 Score: 129
Period size: 46 Copynumber: 2.1 Consensus size: 45
99802373 AACTAAAAAG
* * *
99802383 AAAA-AAGTTACAACTAAATGATTAAAAGTACAAGTAAAAACAAAA
1 AAAAGAAGTTACAACGAAATGATAAAAAGTACAAATAAAAAC-AAA
99802428 AAAAGAAGTTACAACGAAATGACTAAAACAGTACAAATAAAAACAAA
1 AAAAGAAGTTACAACGAAATGA-TAAAA-AGTACAAATAAAAACAAA
99802475 AAA
1 AAA
99802478 GTTATAACTA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
45 4 0.09
46 16 0.36
47 10 0.23
48 14 0.32
ACGTcount: A:0.65, C:0.11, G:0.09, T:0.15
Consensus pattern (45 bp):
AAAAGAAGTTACAACGAAATGATAAAAAGTACAAATAAAAACAAA
Found at i:99805744 original size:15 final size:15
Alignment explanation
Indices: 99805724--99805752 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
99805714 TAAAATTTTG
99805724 AATTTAATATAATTA
1 AATTTAATATAATTA
99805739 AATTTAATATAATT
1 AATTTAATATAATT
99805753 CTAATTTAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
AATTTAATATAATTA
Found at i:99811687 original size:30 final size:30
Alignment explanation
Indices: 99811651--99811713 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
99811641 ATTTAACAAG
*
99811651 CAAATGTCTCTAAAATAATAATAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
*
99811681 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
99811711 CAA
1 CAA
99811714 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.57, C:0.11, G:0.03, T:0.29
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAACAAAATTAA
Found at i:99811768 original size:22 final size:22
Alignment explanation
Indices: 99811743--99811785 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
99811733 TATCCAAACA
99811743 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
* **
99811765 ATAATAGTAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
99811786 ATAGAGAGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:99815442 original size:36 final size:36
Alignment explanation
Indices: 99815395--99815466 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
99815385 GAAAGCTAAA
*
99815395 GCCGACCATCTAGTACCCCCAACCTTAAATTTTTTT
1 GCCGACCATCTAGTACCCCCAACCCTAAATTTTTTT
99815431 GCCGACCATCTAGTACCCCCAACCCTAAATTTTTTT
1 GCCGACCATCTAGTACCCCCAACCCTAAATTTTTTT
99815467 TCTAAAAAAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.25, C:0.35, G:0.08, T:0.32
Consensus pattern (36 bp):
GCCGACCATCTAGTACCCCCAACCCTAAATTTTTTT
Found at i:99816238 original size:26 final size:26
Alignment explanation
Indices: 99816209--99816259 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
99816199 GCTACATGTT
* *
99816209 TAGATACATTGATCAATATATCTACA
1 TAGAGACATTGATAAATATATCTACA
99816235 TAGAGACATTGATAAATATATCTAC
1 TAGAGACATTGATAAATATATCTAC
99816260 GGACATTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (26 bp):
TAGAGACATTGATAAATATATCTACA
Found at i:99816264 original size:22 final size:24
Alignment explanation
Indices: 99816214--99816266 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 24
99816204 ATGTTTAGAT
*
99816214 ACATTGATCAATATATCTACATAGAG
1 ACATTGATAAATATATCTAC--AGAG
99816240 ACATTGATAAATATATCTAC-G-G
1 ACATTGATAAATATATCTACAGAG
99816262 ACATT
1 ACATT
99816267 TGAATGCAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 6 0.23
23 1 0.04
26 19 0.73
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.32
Consensus pattern (24 bp):
ACATTGATAAATATATCTACAGAG
Found at i:99817749 original size:5 final size:5
Alignment explanation
Indices: 99817739--99817767 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
99817729 GCCCAATGAG
99817739 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
99817768 AACACACAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:99818523 original size:20 final size:20
Alignment explanation
Indices: 99818479--99818526 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
99818469 CCTAAAGCAT
*
99818479 ATTTA-AAATATATTGATCA
1 ATTTATAAATACATTGATCA
*
99818498 AATTATAAATACATT-ATCTA
1 ATTTATAAATACATTGATC-A
99818518 ATTTATAAA
1 ATTTATAAA
99818527 CAGTTTGGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (20 bp):
ATTTATAAATACATTGATCA
Found at i:99820071 original size:11 final size:11
Alignment explanation
Indices: 99820040--99820084 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
99820030 TATTTATATA
99820040 TTTATAAAAAT
1 TTTATAAAAAT
99820051 TTTA-AAAAAT
1 TTTATAAAAAT
*
99820061 TTTATATAAAT
1 TTTATAAAAAT
* *
99820072 ATTATGAAAAT
1 TTTATAAAAAT
99820083 TT
1 TT
99820085 GAAGATTATT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
10 10 0.36
11 18 0.64
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (11 bp):
TTTATAAAAAT
Found at i:99825990 original size:22 final size:23
Alignment explanation
Indices: 99825961--99826013 Score: 74
Period size: 22 Copynumber: 2.3 Consensus size: 23
99825951 TATTCTCATG
99825961 ATAATATTTATA-TAAATTAAA-A
1 ATAATATTTATATTAAA-TAAATA
*
99825983 GTAATATTTATATTAAATAAATA
1 ATAATATTTATATTAAATAAATA
99826006 ATAATATT
1 ATAATATT
99826014 AAGTGGAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 15 0.56
23 12 0.44
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (23 bp):
ATAATATTTATATTAAATAAATA
Found at i:99826475 original size:18 final size:19
Alignment explanation
Indices: 99826452--99826492 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
99826442 AAAAATTATA
* *
99826452 AAAATAATTTTTA-TATTT
1 AAAATAAATTATATTATTT
99826470 AAAATAAATTATATTATTT
1 AAAATAAATTATATTATTT
99826489 AAAA
1 AAAA
99826493 GTATTTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
AAAATAAATTATATTATTT
Found at i:99828258 original size:5 final size:5
Alignment explanation
Indices: 99828248--99828287 Score: 71
Period size: 5 Copynumber: 7.8 Consensus size: 5
99828238 ATAAAAAGAC
99828248 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAAA
99828288 CATGTTGATA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 29 0.85
6 5 0.15
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:99830372 original size:138 final size:138
Alignment explanation
Indices: 99830115--99830571 Score: 614
Period size: 138 Copynumber: 3.3 Consensus size: 138
99830105 AGGCAAGATG
* * ** * *
99830115 GCTTC-ATCTTGCTCTATTGCAACTTCAAAGAGATAATATTTGTTGTTGTAGCCTCATTCTAACC
1 GCTTCAATC-TGCTCCACTGCAACTTCAGGGAGATAAGATTTGTTGTTGTAGCTTCATTCTAACC
* ** *
99830179 TACTGCAACTTCAGGGGTATAGGAATTGTAGTTTTAATCTACTCCATTGTAACTTCAGGGAGATG
65 TACTGCAACTTCAGGGGTATAGGAATTGTAGTTTCAATCTACTCCGCTGCAACTTCAGGGAGATG
99830244 AGATTCGTA
130 AGATTCGTA
* * * *
99830253 GCTTTAATCTGCTCCATTGCAACTTCAGGGAGATAGGATTTGTTGTTGTAGCTTCATTCTAA-TT
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTTGTTGTAGCTTCATTCTAACCT
*
99830317 CACTGCAACTTCAGGGGTATAGGAATTATAGTTTCAATCTACTCCGCTGCAACTTCAAGGG-GAT
66 -ACTGCAACTTCAGGGGTATAGGAATTGTAGTTTCAATCTACTCCGCTGCAACTTC-AGGGAGAT
99830381 GAGATTCGTA
129 GAGATTCGTA
* ** * *
99830391 GCTTCAATCTACTCCACTATAACTTCAGGAAGATAAGATTTGTTGTTGTAACTTCATTCTAACCT
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTTGTTGTAGCTTCATTCTAACCT
* * * ** *
99830456 ATTGCAACTTTAAGGGTATAGGAATTGTAACTTCAATCTACTTCGCTGCAACTTCAGGGAGATGA
66 ACTGCAACTTCAGGGGTATAGGAATTGTAGTTTCAATCTACTCCGCTGCAACTTCAGGGAGATGA
99830521 GATTCGTA
131 GATTCGTA
**
99830529 GCTTCAATCTGCTTTACTGCAACTTCAGGGAGATAAGATTTGT
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGT
99830572 AGCTTTAATC
Statistics
Matches: 279, Mismatches: 35, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
137 5 0.02
138 266 0.95
139 8 0.03
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (138 bp):
GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTTGTTGTAGCTTCATTCTAACCT
ACTGCAACTTCAGGGGTATAGGAATTGTAGTTTCAATCTACTCCGCTGCAACTTCAGGGAGATGA
GATTCGTA
Found at i:99830608 original size:44 final size:44
Alignment explanation
Indices: 99830180--99830750 Score: 237
Period size: 44 Copynumber: 12.6 Consensus size: 44
99830170 ATTCTAACCT
* * * *
99830180 ACTGCAACTTCAGGG-GTATAGGAATTGTAGTTTTAATCTACTCC
1 ACTGCAACTTCAGGGAG-ATAAGATTTGTAGCTTTAATCTATTCC
* * * * **
99830224 ATTGTAACTTCAGGGAGATGAGATTCGTAGCTTTAATCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTATTCC
* * * *
99830268 ATTGCAACTTCAGGGAGATAGGATTTGTTGTTGTAGCTTCATTCTAATT-C
1 ACTGCAACTTCAGGGAGATA--A---GAT-TTGTAGCTTTAATCT-ATTCC
* * * *
99830318 ACTGCAACTTCAGGG-GTATAGGAATTATAG-TTTCAATCTACTCC
1 ACTGCAACTTCAGGGAG-ATAAGATTTGTAGCTTT-AATCTATTCC
* * * * *
99830362 GCTGCAACTTCAAGGG-GATGAGATTCGTAGCTTCAATCTACTCC
1 ACTGCAACTTC-AGGGAGATAAGATTTGTAGCTTTAATCTATTCC
** * *
99830406 ACTATAACTTCAGGAAGATAAGATTTGTTG-TTGTAA-CTTCATTCTAACC
1 ACTGCAACTTCAGGGAGATAAGATTTGTAGCTT-TAATC-T-A-T-T--CC
* * * * * * *
99830455 TATTGCAACTTTAAGGG-TATAGGAATTGTAACTTCAATCTACTT-C
1 -ACTGCAAC-TTCAGGGAGATAAGATTTGTAGCTTTAATCTA-TTCC
* * * * * *
99830500 GCTGCAACTTCAGGGAGATGAGATTCGTAGCTTCAATCTGCTT-T
1 ACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCT-ATTCC
99830544 ACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTATTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTATTCC
* * * * ** *
99830588 ACTGTAACTTTAGGGAGATAAGATTCGCTATGGTAGATTCAATCCGTCCC
1 ACTGCAACTTCAGGGAGATAAGA-T---T-T-GTAGCTTTAATCTATTCC
* * * * * * **
99830638 ACTACAAATTCAAAGGTG-TAAGATTTGTAGCTTAAATTTGCTCC
1 ACTGCAACTTC-AGGGAGATAAGATTTGTAGCTTTAATCTATTCC
* * * * * **
99830682 AGTGCAACTTTAGAGAGATAAGATTTGTAGTTTTAATATGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTATTCC
*
99830726 ACTGCAACTTTAGGGAGATAAGATT
1 ACTGCAACTTCAGGGAGATAAGATT
99830751 CGTTATGGTA
Statistics
Matches: 391, Mismatches: 100, Indels: 72
0.69 0.18 0.13
Matches are distributed among these distances:
43 21 0.05
44 258 0.66
45 13 0.03
46 2 0.01
47 1 0.00
48 2 0.01
49 9 0.02
50 72 0.18
51 13 0.03
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.34
Consensus pattern (44 bp):
ACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTATTCC
Found at i:99830793 original size:138 final size:138
Alignment explanation
Indices: 99830546--99830801 Score: 386
Period size: 138 Copynumber: 1.9 Consensus size: 138
99830536 TCTGCTTTAC
* * * *
99830546 TGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTATTCCACTGTAACTTTAGGGAGATAAGA
1 TGCAACTTCAGAGAGATAAGATTTGTAGCTTTAATATACTCCACTGCAACTTTAGGGAGATAAGA
99830611 TTCGCTATGGTAGATTCAATCCGTCCCACTACAAATTCAAAGGTGTAAGATTTGTAGCTTAAATT
66 TTCGCTATGGTAGATTCAATCCGTCCCACTACAAATTCAAAGGTGTAAGATTTGTAGCTTAAATT
99830676 TGCTCCAG
131 TGCTCCAG
* * *
99830684 TGCAACTTTAGAGAGATAAGATTTGTAGTTTTAATATGCTCCACTGCAACTTTAGGGAGATAAGA
1 TGCAACTTCAGAGAGATAAGATTTGTAGCTTTAATATACTCCACTGCAACTTTAGGGAGATAAGA
* ** * * * *
99830749 TTCGTTATGGTAGATTCAATCTTTCCCACTGCAATTTCAGAGGTGTAGGATTT
66 TTCGCTATGGTAGATTCAATCCGTCCCACTACAAATTCAAAGGTGTAAGATTT
99830802 ATGGTTTCAT
Statistics
Matches: 104, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
138 104 1.00
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (138 bp):
TGCAACTTCAGAGAGATAAGATTTGTAGCTTTAATATACTCCACTGCAACTTTAGGGAGATAAGA
TTCGCTATGGTAGATTCAATCCGTCCCACTACAAATTCAAAGGTGTAAGATTTGTAGCTTAAATT
TGCTCCAG
Done.