Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 337 of 427
Found at i:98272572 original size:21 final size:21
Alignment explanation
Indices: 98272546--98272587 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
98272536 CAGTGTAAGA
98272546 CCATCTCTGGGACATGGCATC
1 CCATCTCTGGGACATGGCATC
98272567 CCATCTCTGGGACATGGCATC
1 CCATCTCTGGGACATGGCATC
98272588 GACATTGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.33, G:0.24, T:0.24
Consensus pattern (21 bp):
CCATCTCTGGGACATGGCATC
Found at i:98274012 original size:48 final size:48
Alignment explanation
Indices: 98273948--98274275 Score: 457
Period size: 48 Copynumber: 6.8 Consensus size: 48
98273938 ATGATTTCAC
** *
98273948 ATATCATCGCTAATGCCATGTCCTAGACATGGTCTTACA-ATGGCACAT
1 ATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACA-GGCACAT
* * *
98273996 ATATCATTGCCGATGCCATGTCCTAGACATGGTCTTACACAGGCACGT
1 ATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
*
98274044 ATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACATAGGCACAT
1 ATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
*
98274092 ATATCATCGCCGATGTCATGTCCCAGACATGGTCTTACACAGGCACAT
1 ATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
*
98274140 ATATCATCACCGATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
1 ATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
** *
98274188 ATATCATCATCGATGCCATGTCCCAGACATGGTATTACACAGGCACACT
1 ATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCACA-T
* * *
98274237 -TCTCGGAT-G-CGATGCCATGTCCTAGACATGGACTTACAC
1 ATATC--ATCGCCGATGCCATGTCCCAGACATGGTCTTACAC
98274276 GGAATCTCAT
Statistics
Matches: 257, Mismatches: 19, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
48 253 0.98
49 2 0.01
50 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (48 bp):
ATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
Found at i:98276315 original size:19 final size:19
Alignment explanation
Indices: 98276279--98276315 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
98276269 TAATTGGGAC
*
98276279 ATTAATTTAATTTATTTAA
1 ATTAATTTAATATATTTAA
*
98276298 ATTAATTTAATATGTTTA
1 ATTAATTTAATATATTTA
98276316 TTTTTTGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (19 bp):
ATTAATTTAATATATTTAA
Found at i:98279046 original size:16 final size:14
Alignment explanation
Indices: 98279025--98279064 Score: 55
Period size: 13 Copynumber: 2.8 Consensus size: 14
98279015 TGTGGGTGAA
98279025 TATAAATATTATATAT
1 TATAAA-ATTATAT-T
98279041 TATAAAA-TATATT
1 TATAAAATTATATT
98279054 TATAAAATTAT
1 TATAAAATTAT
98279065 TTCAATTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 8 0.35
14 8 0.35
15 1 0.04
16 6 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
TATAAAATTATATT
Found at i:98279179 original size:19 final size:19
Alignment explanation
Indices: 98279148--98279185 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
98279138 TCAATTATTT
*
98279148 TATTTGAAAATTATTTAAA
1 TATTTGAAAATTAATTAAA
98279167 TATTT-AAAGATTAATTAAA
1 TATTTGAAA-ATTAATTAAA
98279186 AGTATAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (19 bp):
TATTTGAAAATTAATTAAA
Found at i:98290880 original size:45 final size:45
Alignment explanation
Indices: 98290783--98290944 Score: 240
Period size: 45 Copynumber: 3.6 Consensus size: 45
98290773 CCAGCATTTT
* * *
98290783 GCCTGCTAGGCTCGAA-GCCC-AATA-TCATTTCACCGGCATTATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGT-ATCTCATCGGCATTATA
*
98290826 GCCTGCTAGGCTCGAAGGCCCGAATAGTATCTCATCGGCATTATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCATCGGCATTATA
* *
98290871 GCCTACTAGGCTCAAAGGCCCGAATAGTATCTCATCGGCATCATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCATCGGCATTATA
98290916 GCCTGCTAGGCTCAAAGGCCCGAATAGTA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTA
98290945 CGGTACAATA
Statistics
Matches: 110, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
43 16 0.15
44 4 0.04
45 89 0.81
46 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (45 bp):
GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCATCGGCATTATA
Found at i:98293826 original size:42 final size:42
Alignment explanation
Indices: 98293767--98293851 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
98293757 ATGAGTGTAA
98293767 GTCCAAGCCTCAACTGCTTCTCTTTATGGATGATTAGGACTC
1 GTCCAAGCCTCAACTGCTTCTCTTTATGGATGATTAGGACTC
*
98293809 GTCCAAGCCTCAACTGCTTTTCTTTATGGATGATTAGGACTC
1 GTCCAAGCCTCAACTGCTTCTCTTTATGGATGATTAGGACTC
98293851 G
1 G
98293852 CTTCGTTCAC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.34
Consensus pattern (42 bp):
GTCCAAGCCTCAACTGCTTCTCTTTATGGATGATTAGGACTC
Found at i:98296070 original size:25 final size:26
Alignment explanation
Indices: 98296049--98296097 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
98296039 AGAAAAATTG
*
98296049 TCAAAACTTTA-TCGGGGTAAAATCA
1 TCAAAACTTTACTAGGGGTAAAATCA
*
98296074 TCAAAATTTTACTAGGGGTAAAAT
1 TCAAAACTTTACTAGGGGTAAAAT
98296098 AGGGATGAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (26 bp):
TCAAAACTTTACTAGGGGTAAAATCA
Found at i:98299865 original size:27 final size:27
Alignment explanation
Indices: 98299826--98299921 Score: 104
Period size: 27 Copynumber: 3.6 Consensus size: 27
98299816 GGCAAAACAT
* * * *
98299826 TCATTTAACCCTATAGGGGAATTACAA
1 TCATTTTACCCTATAGGGGTATTTCGA
* *
98299853 TCATTTTATCCTACT-GGGGTATTTCGG
1 TCATTTTACCCTA-TAGGGGTATTTCGA
*
98299880 TCATTTTACCCTATGGGGGTATTTCGA
1 TCATTTTACCCTATAGGGGTATTTCGA
*
98299907 TCATTTTATCCTATA
1 TCATTTTACCCTATA
98299922 AGGGCAAAAT
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
26 1 0.02
27 55 0.96
28 1 0.02
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.41
Consensus pattern (27 bp):
TCATTTTACCCTATAGGGGTATTTCGA
Found at i:98302630 original size:40 final size:40
Alignment explanation
Indices: 98302548--98302714 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
98302538 AAATTGAATG
* * ** ***
98302548 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGGTT
* *
98302587 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGGTT
* * **
98302627 ATATCTGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTGGTT
* *
98302667 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACA-TGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCA-AGTGGTT
98302707 ATATCCGG
1 ATATCCGG
98302715 TTATATTCCG
Statistics
Matches: 102, Mismatches: 22, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
39 16 0.16
40 83 0.81
41 3 0.03
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGGTT
Found at i:98310622 original size:40 final size:39
Alignment explanation
Indices: 98310556--98310706 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 39
98310546 AAATTGAATG
* * *
98310556 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GGTAATT
* * ***
98310595 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GGTAATT
*
98310635 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCG-GTAATT
* *
98310675 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
98310707 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
39 16 0.17
40 74 0.80
41 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGGTAATT
Found at i:98310720 original size:40 final size:39
Alignment explanation
Indices: 98310593--98310722 Score: 161
Period size: 40 Copynumber: 3.3 Consensus size: 39
98310583 ATGCTGGAAA
* *
98310593 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-TGG
* * * **
98310633 CTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATGG
*
98310673 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA-ATGG
98310713 TTATATCCGG
1 TTATATCCGG
98310723 TTATATTCCG
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
39 1 0.01
40 72 0.97
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATGG
Found at i:98312280 original size:75 final size:79
Alignment explanation
Indices: 98312159--98312491 Score: 332
Period size: 76 Copynumber: 4.2 Consensus size: 79
98312149 AAAATTGAAA
* *
98312159 AACAGAAATTGAAAATTAACTCTCAGCGTGTGAGCTGAGACTCAACTCACCTCTCGCAATATGAG
1 AACAGAAATTGAAAATTAACTCTCAACGTGT-ACCTGAGACTCAACTCACCTCTCGCAATATGAG
98312224 TTGATTTTTTGAATG
65 TTGATTTTTTGAATG
* *
98312239 AACAGAAATT-AAAATT-AC-CTCAACGTGT-CCTGAGGCTCAACTTACCTCTCGCAATATGAGT
1 AACAGAAATTGAAAATTAACTCTCAACGTGTACCTGAGACTCAACTCACCTCTCGCAATATGAGT
*
98312300 TGA---TTTG-ACG
66 TGATTTTTTGAATG
* * * *
98312310 AACAGAAATTGAAAAACATAAATTGGAAATACCTCAGCGCGTAGCTGAGACTCAACTCACCTCTC
1 AACAGAAATTG------A-AAATT--AACT--CTCAACGTGTACCTGAGACTCAACTCACCTCTC
98312375 GCAATATGAGTTGATTTTTTTG-ATG
55 GCAATATGAGTTGA-TTTTTTGAATG
*
98312400 AACAGAAAATT-AAAATT-AC-CTCAACGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 AACAG-AAATTGAAAATTAACTCTCAACGTGTACCTGAGACTCAACTCACCTCTCGCAATATGAG
**
98312461 TTGATTTTTTTTTATG
65 TTGA-TTTTTTGAATG
98312477 AACAGAAATTGAAAA
1 AACAGAAATTGAAAA
98312492 ACAGAAATTG
Statistics
Matches: 213, Mismatches: 18, Indels: 47
0.77 0.06 0.17
Matches are distributed among these distances:
71 12 0.06
72 4 0.02
75 33 0.15
76 46 0.22
77 29 0.14
78 3 0.01
79 11 0.05
80 11 0.05
82 1 0.00
83 5 0.02
84 1 0.00
85 8 0.04
86 33 0.15
90 11 0.05
91 5 0.02
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.29
Consensus pattern (79 bp):
AACAGAAATTGAAAATTAACTCTCAACGTGTACCTGAGACTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTGAATG
Found at i:98312450 original size:162 final size:164
Alignment explanation
Indices: 98312071--98312562 Score: 737
Period size: 162 Copynumber: 3.0 Consensus size: 164
98312061 TCGGGTTCAN
*
98312071 AGAAATTGAAATTACCTCAACTGTTGT-CTGAGTGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AGAAATTAAAATTACCTCAAC-G-TGTCCTGAG-GCTCAACTCACCTCTCGCAATATGAGTTGA-
* *
98312135 TTTTGACGAACAGAAAAATTGAAAAACAGAAATTGAAAATTAACTCTCAGCGTGTGAGCTGAGAC
62 TTTTGACGAACAG--AAATTGAAAAACAGAAATTGGAAA-T-AC-CTCAGCGCGTGAGCTGAGAC
98312200 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAATGAAC
122 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAATGAAC
*
98312242 AGAAATTAAAATTACCTCAACGTGTCCTGAGGCTCAACTTACCTCTCGCAATATGAGTTGA-TTT
1 AGAAATTAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
*
98312306 GACGAACAGAAATTGAAAAACATAAATTGGAAATACCTCAGCGCGT-AGCTGAGACTCAACTCAC
66 GACGAACAGAAATTGAAAAACAGAAATTGGAAATACCTCAGCGCGTGAGCTGAGACTCAACTCAC
98312370 CTCTCGCAATATGAGTTGATTTTTTTG-ATGAAC
131 CTCTCGCAATATGAGTTGATTTTTTTGAATGAAC
98312403 AGAAAATTAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 AG-AAATTAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---
* * *
98312468 TTTTTTATGAACAGAAATTGAAAAACAGAAATT-GAAA-ACCTCAGCGCGTGAGCTGAGGCTCAA
62 -TTTTGACGAACAGAAATTGAAAAACAGAAATTGGAAATACCTCAGCGCGTGAGCTGAGACTCAA
98312531 CTCACCTCTCGCAATATGAGTTGATTTTTTTG
126 CTCACCTCTCGCAATATGAGTTGATTTTTTTG
98312563 GTAGAATTTG
Statistics
Matches: 302, Mismatches: 10, Indels: 23
0.90 0.03 0.07
Matches are distributed among these distances:
161 45 0.15
162 74 0.25
163 2 0.01
164 1 0.00
165 34 0.11
166 48 0.16
167 40 0.13
169 32 0.11
170 6 0.02
171 20 0.07
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (164 bp):
AGAAATTAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
GACGAACAGAAATTGAAAAACAGAAATTGGAAATACCTCAGCGCGTGAGCTGAGACTCAACTCAC
CTCTCGCAATATGAGTTGATTTTTTTGAATGAAC
Found at i:98312496 original size:14 final size:14
Alignment explanation
Indices: 98312477--98312505 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
98312467 TTTTTTTATG
98312477 AACAGAAATTGAAA
1 AACAGAAATTGAAA
98312491 AACAGAAATTGAAA
1 AACAGAAATTGAAA
98312505 A
1 A
98312506 CCTCAGCGCG
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:0.66, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
AACAGAAATTGAAA
Found at i:98325002 original size:33 final size:29
Alignment explanation
Indices: 98324943--98325011 Score: 84
Period size: 32 Copynumber: 2.2 Consensus size: 29
98324933 AAGAAAATAT
*
98324943 ATATATATATATATAATAATAGTATTAGAA
1 ATATATATATATATAATAATAATATTA-AA
*
98324973 ATCATATAGTATATATAACTGATAATATTAAA
1 AT-ATATA-TATATATAA-TAATAATATTAAA
98325005 ATATATA
1 ATATATA
98325012 CATAATATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
30 2 0.06
31 10 0.29
32 13 0.38
33 9 0.26
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (29 bp):
ATATATATATATATAATAATAATATTAAA
Found at i:98325235 original size:3 final size:3
Alignment explanation
Indices: 98325227--98325268 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
98325217 ACAAGGATAT
98325227 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
98325269 TTGAAACACA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:98325378 original size:3 final size:3
Alignment explanation
Indices: 98325370--98325418 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
98325360 AATGTATTTC
98325370 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
98325418 A
1 A
98325419 TTGAAATGCA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:98325924 original size:21 final size:20
Alignment explanation
Indices: 98325898--98325940 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
98325888 AAAAAAAAGA
98325898 AGAGAGAGG-GAAGAGAGAGGG
1 AGAGAGAGGAG-AGAGA-AGGG
98325919 AGAGAGAGGAGAGAGAAGGG
1 AGAGAGAGGAGAGAGAAGGG
98325939 AG
1 AG
98325941 GGGAATCCGC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 6 0.29
21 14 0.67
22 1 0.05
ACGTcount: A:0.44, C:0.00, G:0.56, T:0.00
Consensus pattern (20 bp):
AGAGAGAGGAGAGAGAAGGG
Found at i:98325940 original size:11 final size:10
Alignment explanation
Indices: 98325898--98325940 Score: 61
Period size: 11 Copynumber: 4.2 Consensus size: 10
98325888 AAAAAAAAGA
98325898 AGAGAGAGGG
1 AGAGAGAGGG
98325908 AAGAGAGAGGG
1 -AGAGAGAGGG
98325919 AGAGAGA-GG
1 AGAGAGAGGG
98325928 AGAGAGAAGGG
1 AGAGAG-AGGG
98325939 AG
1 AG
98325941 GGGAATCCGC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
9 8 0.27
10 8 0.27
11 14 0.47
ACGTcount: A:0.44, C:0.00, G:0.56, T:0.00
Consensus pattern (10 bp):
AGAGAGAGGG
Found at i:98326078 original size:11 final size:12
Alignment explanation
Indices: 98326043--98326070 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
98326033 AAAAAAAAAA
98326043 TTTTGTATATTT
1 TTTTGTATATTT
98326055 TTTTGTATATTT
1 TTTTGTATATTT
98326067 TTTT
1 TTTT
98326071 TATGTTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.79
Consensus pattern (12 bp):
TTTTGTATATTT
Found at i:98326493 original size:35 final size:35
Alignment explanation
Indices: 98326453--98326523 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
98326443 GGAGTGTGTG
* *
98326453 ATGGTGTTGGTGGCAGACAGCATGGGAGAATGGGA
1 ATGGTGCTGATGGCAGACAGCATGGGAGAATGGGA
*
98326488 ATGGTGCTGATGGCAGACAGCATGGGAGAGTGGGA
1 ATGGTGCTGATGGCAGACAGCATGGGAGAATGGGA
98326523 A
1 A
98326524 GAGGCAAGTG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.27, C:0.10, G:0.45, T:0.18
Consensus pattern (35 bp):
ATGGTGCTGATGGCAGACAGCATGGGAGAATGGGA
Found at i:98333111 original size:14 final size:16
Alignment explanation
Indices: 98333092--98333124 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
98333082 AAAGAATAGA
98333092 AATAGTG-AT-TTCTG
1 AATAGTGTATATTCTG
98333106 AATAGTGTATATTCTG
1 AATAGTGTATATTCTG
98333122 AAT
1 AAT
98333125 GAAGTCCAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 2 0.12
16 8 0.47
ACGTcount: A:0.33, C:0.06, G:0.18, T:0.42
Consensus pattern (16 bp):
AATAGTGTATATTCTG
Found at i:98334807 original size:20 final size:21
Alignment explanation
Indices: 98334747--98334809 Score: 56
Period size: 27 Copynumber: 2.8 Consensus size: 21
98334737 AAGAAAAACT
*
98334747 ATAAATAAAATAGATGATGAA
1 ATAAATAAAATAAATGATGAA
98334768 ATAATAATAATGAGAGTAAATGAT-AA
1 AT-A-AATAA--A-A-TAAATGATGAA
98334794 ATAAATAAAATAAATG
1 ATAAATAAAATAAATG
98334810 TGCTAAAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 13
0.71 0.02 0.27
Matches are distributed among these distances:
20 6 0.17
21 3 0.09
22 2 0.06
23 5 0.14
24 5 0.14
25 2 0.06
26 5 0.14
27 7 0.20
ACGTcount: A:0.62, C:0.00, G:0.13, T:0.25
Consensus pattern (21 bp):
ATAAATAAAATAAATGATGAA
Found at i:98334888 original size:3 final size:3
Alignment explanation
Indices: 98334880--98334997 Score: 107
Period size: 3 Copynumber: 39.7 Consensus size: 3
98334870 AAAGGGAAAT
*
98334880 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- ACA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
98334927 GTA ATA ATA ATA AAA AGGT- ATC GTA AT- ATA ATA ATA ATA ATA ATG
1 ATA ATA ATA ATA ATA A--TA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
98334972 ATA GTA GTG ATA TTA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
98334998 GGAAAATACT
Statistics
Matches: 93, Mismatches: 17, Indels: 10
0.77 0.14 0.08
Matches are distributed among these distances:
2 4 0.04
3 88 0.95
4 1 0.01
ACGTcount: A:0.58, C:0.02, G:0.07, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:98341189 original size:16 final size:16
Alignment explanation
Indices: 98341168--98341201 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
98341158 CTAACATCCA
* *
98341168 ATTATCATATTTGCAC
1 ATTATCACATTTACAC
98341184 ATTATCACATTTACAC
1 ATTATCACATTTACAC
98341200 AT
1 AT
98341202 ATGTTTATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.21, G:0.03, T:0.41
Consensus pattern (16 bp):
ATTATCACATTTACAC
Found at i:98343545 original size:26 final size:26
Alignment explanation
Indices: 98343503--98343573 Score: 76
Period size: 26 Copynumber: 2.7 Consensus size: 26
98343493 TTTATCTTTC
* *
98343503 AATTCAACCTAATTTAATTATAAGAAA-
1 AATTCAACCAAAATTAATT-T-AGAAAT
98343530 AATT-AA-CAAAGATTAATTTAGAAAT
1 AATTCAACCAAA-ATTAATTTAGAAAT
98343555 AATTCAACCAAAATTAATT
1 AATTCAACCAAAATTAATT
98343574 CAAAATCAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
24 5 0.13
25 8 0.21
26 17 0.45
27 8 0.21
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.32
Consensus pattern (26 bp):
AATTCAACCAAAATTAATTTAGAAAT
Found at i:98352668 original size:2 final size:2
Alignment explanation
Indices: 98352661--98352688 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
98352651 TGTTATTTTG
98352661 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
98352689 GTTATTGTGC
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:98361074 original size:47 final size:47
Alignment explanation
Indices: 98360976--98361088 Score: 122
Period size: 47 Copynumber: 2.4 Consensus size: 47
98360966 TTTTAAAACT
* * * *
98360976 ATTTCCTTTTTTTTCTTTCTTTTTCCTGGTGATGTTTTTCCTTCTCT
1 ATTTCCTTTTTTTTCTTTCTTTTTCCTGGTGATGTTCTTCCTCCCCA
* *
98361023 ATTTCCTTTTTTTTTTTTCCTTTTT-TTGGTGATGTTCCTT-CTCCCCA
1 ATTTCCTTTTTTTTCTTT-CTTTTTCCTGGTGATGTT-CTTCCTCCCCA
*
98361070 ATTTCCTTTTCTCTTCTTT
1 ATTTCCTTTT-TTTTCTTT
98361089 TTCCCTATGA
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
47 41 0.75
48 14 0.25
ACGTcount: A:0.05, C:0.23, G:0.07, T:0.65
Consensus pattern (47 bp):
ATTTCCTTTTTTTTCTTTCTTTTTCCTGGTGATGTTCTTCCTCCCCA
Found at i:98361710 original size:50 final size:49
Alignment explanation
Indices: 98361644--98361771 Score: 150
Period size: 50 Copynumber: 2.6 Consensus size: 49
98361634 AAAAGAAGAT
* * * *
98361644 AAAATGAAATTGGGAAGAAGAAATATCACTAGGAAAAAGAAAGAAAAAA
1 AAAAAGAAATAGGGAAGAAGAAATATCACAAGAAAAAAGAAAGAAAAAA
* *
98361693 AAGAACA-AAATAGGGAAGAAGAAACATTACAAGAAAAAAGAAAGAAAAAA
1 AA-AA-AGAAATAGGGAAGAAGAAATATCACAAGAAAAAAGAAAGAAAAAA
* * *
98361743 AAAAAGAAATATGGAAGAGGAAATGTCAC
1 AAAAAGAAATAGGGAAGAAGAAATATCAC
98361772 CCTTTAAAAA
Statistics
Matches: 65, Mismatches: 11, Indels: 6
0.79 0.13 0.07
Matches are distributed among these distances:
48 1 0.02
49 22 0.34
50 42 0.65
ACGTcount: A:0.64, C:0.05, G:0.20, T:0.10
Consensus pattern (49 bp):
AAAAAGAAATAGGGAAGAAGAAATATCACAAGAAAAAAGAAAGAAAAAA
Found at i:98362934 original size:31 final size:31
Alignment explanation
Indices: 98362899--98362962 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
98362889 ATAAGACAAA
98362899 AAAGTTGAAATGACCAGAATACCCTTAGTAG
1 AAAGTTGAAATGACCAGAATACCCTTAGTAG
98362930 AAAGTTGAAATGACCAGAATACCCTTAGTAG
1 AAAGTTGAAATGACCAGAATACCCTTAGTAG
98362961 AA
1 AA
98362963 TTTTTTATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.44, C:0.16, G:0.19, T:0.22
Consensus pattern (31 bp):
AAAGTTGAAATGACCAGAATACCCTTAGTAG
Found at i:98370333 original size:17 final size:17
Alignment explanation
Indices: 98370295--98370332 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
98370285 AAAATTTAAA
98370295 ATTTTAATTAAAATATT
1 ATTTTAATTAAAATATT
98370312 ATTTTAATTAAAAT-TT
1 ATTTTAATTAAAATATT
98370328 ATTTT
1 ATTTT
98370333 TCTTATTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
ATTTTAATTAAAATATT
Found at i:98374320 original size:14 final size:13
Alignment explanation
Indices: 98374296--98374338 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 13
98374286 TAAATTATAA
98374296 ATAATTTAAATTTT
1 ATAA-TTAAATTTT
98374310 ATCAATTAAATTTT
1 AT-AATTAAATTTT
*
98374324 ATTATTAAATATTT
1 ATAATTAAAT-TTT
98374338 A
1 A
98374339 ATTCAAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
13 7 0.27
14 17 0.65
15 2 0.08
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (13 bp):
ATAATTAAATTTT
Found at i:98374332 original size:13 final size:14
Alignment explanation
Indices: 98374301--98374338 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
98374291 TATAAATAAT
98374301 TTAAATTTTATCAA
1 TTAAATTTTATCAA
*
98374315 TTAAATTTTAT-TA
1 TTAAATTTTATCAA
98374328 TTAAATATTTA
1 TTAAAT-TTTA
98374339 ATTCAAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 7 0.32
14 15 0.68
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (14 bp):
TTAAATTTTATCAA
Found at i:98378091 original size:2 final size:2
Alignment explanation
Indices: 98378084--98378111 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
98378074 ACCTTAGGTC
98378084 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
98378112 CATGTCATTA
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):
TA
Found at i:98381314 original size:39 final size:39
Alignment explanation
Indices: 98381258--98381453 Score: 254
Period size: 39 Copynumber: 5.0 Consensus size: 39
98381248 CGATGAGGAC
* * *
98381258 CTGCCCCTAGCAAAACTTGAATCTCTGCCCAGGAAGTCA
1 CTGCCCCTAGCAGAACTTGAATCTCTGCCCAGAAAATCA
*
98381297 CTGCCCCTCA-CAGAACTTGAATCTCTGCCCTGAAAATCA
1 CTGCCCCT-AGCAGAACTTGAATCTCTGCCCAGAAAATCA
* * *
98381336 CTGCCCCTAGCTGAACTTGAATCTTTGCCCTGAAAATCA
1 CTGCCCCTAGCAGAACTTGAATCTCTGCCCAGAAAATCA
98381375 CTGCCCCTAGCAGAACTTGAATCTCTG-CCATGAAAATCA
1 CTGCCCCTAGCAGAACTTGAATCTCTGCCCA-GAAAATCA
* * *
98381414 CTGCCCCCCA-CAGAACTTGAATCTCTTCCCTGAAAATCA
1 CTG-CCCCTAGCAGAACTTGAATCTCTGCCCAGAAAATCA
98381453 C
1 C
98381454 GGTGCCTAGG
Statistics
Matches: 140, Mismatches: 12, Indels: 10
0.86 0.07 0.06
Matches are distributed among these distances:
38 3 0.02
39 129 0.92
40 8 0.06
ACGTcount: A:0.28, C:0.34, G:0.14, T:0.23
Consensus pattern (39 bp):
CTGCCCCTAGCAGAACTTGAATCTCTGCCCAGAAAATCA
Found at i:98388876 original size:22 final size:21
Alignment explanation
Indices: 98388828--98388870 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
98388818 AAAAAGTACA
98388828 AAAT-ATATTATTATTTATAT
1 AAATAATATTATTATTTATAT
*
98388848 AAATAATATTATATATTTTTAT
1 AAATAATATTAT-TATTTATAT
98388870 A
1 A
98388871 TTTAATTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 4 0.20
21 7 0.35
22 9 0.45
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
AAATAATATTATTATTTATAT
Found at i:98391053 original size:11 final size:11
Alignment explanation
Indices: 98391037--98391066 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
98391027 TATTTTCTAA
98391037 AAAAATTATAT
1 AAAAATTATAT
*
98391048 AAAAATAATAT
1 AAAAATTATAT
98391059 AAAAATTA
1 AAAAATTA
98391067 ATACGCGTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
AAAAATTATAT
Found at i:98395668 original size:31 final size:31
Alignment explanation
Indices: 98395610--98395668 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 31
98395600 ATTTAATGGA
*
98395610 GAGTGACCAAAATAGAAACAATTTAAAACGT
1 GAGTGACCAAAATAGAAACAATCTAAAACGT
* * **
98395641 GAGTGACTACAATAGAAATGATCTAAAA
1 GAGTGACCAAAATAGAAACAATCTAAAA
98395669 TGTTAGTAAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 23 1.00
ACGTcount: A:0.51, C:0.12, G:0.17, T:0.20
Consensus pattern (31 bp):
GAGTGACCAAAATAGAAACAATCTAAAACGT
Found at i:98395832 original size:15 final size:16
Alignment explanation
Indices: 98395803--98395851 Score: 59
Period size: 15 Copynumber: 3.2 Consensus size: 16
98395793 ATAGAATTCG
*
98395803 TTAAAATT-AACTATA
1 TTAAAATTAAAATATA
*
98395818 TTTAAA-TAAAATATA
1 TTAAAATTAAAATATA
98395833 TTAAAATTAAAATA-A
1 TTAAAATTAAAATATA
98395848 TTAA
1 TTAA
98395852 TTAACTAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 1 0.03
15 21 0.72
16 7 0.24
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (16 bp):
TTAAAATTAAAATATA
Found at i:98399206 original size:27 final size:28
Alignment explanation
Indices: 98399152--98399268 Score: 87
Period size: 28 Copynumber: 4.1 Consensus size: 28
98399142 TTTTTATATT
* *
98399152 TTTTTTTTAAGTCTAATTTGATAATT-AA
1 TTTTTTTT-AGTCCAATTTGATACTTAAA
*
98399180 TTTTTTTTAGTCCAATTTGGTACTTAAA
1 TTTTTTTTAGTCCAATTTGATACTTAAA
* * * *
98399208 CTTGATTTTTT-TTCTAATTTGGTGCTTAATA
1 -TT--TTTTTTAGTCCAATTTGATACTTAA-A
* *
98399239 TTTTTTTTA-TTCAATTTGATACTTGAA
1 TTTTTTTTAGTCCAATTTGATACTTAAA
98399266 TTT
1 TTT
98399269 GACTCCAATC
Statistics
Matches: 72, Mismatches: 11, Indels: 13
0.75 0.11 0.14
Matches are distributed among these distances:
27 18 0.25
28 28 0.39
29 2 0.03
30 17 0.24
31 7 0.10
ACGTcount: A:0.25, C:0.08, G:0.09, T:0.58
Consensus pattern (28 bp):
TTTTTTTTAGTCCAATTTGATACTTAAA
Found at i:98404478 original size:16 final size:16
Alignment explanation
Indices: 98404459--98404510 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
98404449 AATACGATTG
98404459 TAATGGAATAGAGCTA
1 TAATGGAATAGAGCTA
* * *
98404475 TAATGAAATAGGGCTC
1 TAATGGAATAGAGCTA
*
98404491 TAATAGAATATGA-CTA
1 TAATGGAATA-GAGCTA
98404507 TAAT
1 TAAT
98404511 AAGTAATTCA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
16 27 0.96
17 1 0.04
ACGTcount: A:0.44, C:0.08, G:0.19, T:0.29
Consensus pattern (16 bp):
TAATGGAATAGAGCTA
Found at i:98410518 original size:21 final size:21
Alignment explanation
Indices: 98410492--98410532 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
98410482 AGACAAGCGA
* *
98410492 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
98410513 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
98410533 TTGAGCACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:98417193 original size:38 final size:38
Alignment explanation
Indices: 98417142--98417297 Score: 240
Period size: 38 Copynumber: 4.1 Consensus size: 38
98417132 TCGAAATATG
* * *
98417142 ATATCCGGCTTAAATTCCGCAAGCTTCGTGCTGGTAAT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
98417180 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
*
98417218 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
* * * *
98417256 ATATCCGGGTTAAATCCCGCAGGCCTAGTGTTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
98417294 ATAT
1 ATAT
98417298 TCGAGCCTTT
Statistics
Matches: 111, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 111 1.00
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.31
Consensus pattern (38 bp):
ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
Found at i:98417393 original size:45 final size:45
Alignment explanation
Indices: 98417296--98417395 Score: 114
Period size: 46 Copynumber: 2.2 Consensus size: 45
98417286 TTGGTATTAT
* * * *
98417296 ATTCGAGCCTTTGAGCCTAGCAGACTATTATGCCGGTGAGACATT
1 ATTCGGGCCTTTGAACCTAGCAGACTATAATGCCGGTGAGACATG
* *
98417341 ATTCGGGCCTTTCGAACCTAGTAGGCTATAATGCCGGTGA-A-ATG
1 ATTCGGGCCTTT-GAACCTAGCAGACTATAATGCCGGTGAGACATG
98417385 ATATCGGGCCT
1 AT-TCGGGCCT
98417396 CGAGCCTAGC
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
44 4 0.09
45 20 0.43
46 23 0.49
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (45 bp):
ATTCGGGCCTTTGAACCTAGCAGACTATAATGCCGGTGAGACATG
Found at i:98419796 original size:93 final size:93
Alignment explanation
Indices: 98419681--98419851 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
98419671 GCCCATAAGT
*
98419681 GAACTCGGACTCAACTCAACGAGCTT-GGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
98419745 ACGAGCTCGGATGCCTAGTTACATCTCTC
65 ACGAGCTCGGATGCCTAGTTACATCTCTC
*
98419774 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
98419839 CGAGTTCGGATGC
66 CGAGCTCGGATGC
98419852 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:98419843 original size:46 final size:46
Alignment explanation
Indices: 98419673--98419848 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
98419663 TGTAACCCGC
* *
98419673 CCATAAGTGAACTCGGACTCAACTCAACGAGCTT-GGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACATTTGCAT
* * *
98419719 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
*
98419769 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
98419812 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
98419849 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 10, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
42 1 0.01
43 8 0.07
44 1 0.01
45 1 0.01
46 62 0.56
47 28 0.25
49 1 0.01
50 7 0.06
51 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:98422321 original size:15 final size:15
Alignment explanation
Indices: 98422244--98422321 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
98422234 AGAAAACCGA
*
98422244 ATAAAGAAATCTAAG
1 ATAAAGAAATCCAAG
* **
98422259 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
98422273 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
98422288 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
98422304 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
98422319 ATA
1 ATA
98422322 CGATACTATG
Statistics
Matches: 49, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
14 2 0.04
15 44 0.90
16 3 0.06
ACGTcount: A:0.55, C:0.14, G:0.18, T:0.13
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:98425876 original size:23 final size:22
Alignment explanation
Indices: 98425824--98425898 Score: 91
Period size: 21 Copynumber: 3.5 Consensus size: 22
98425814 CATGATTAGT
** *
98425824 ATACGACACATAAAGTGCCT-A
1 ATACGACACACGAGGTGCCTGA
*
98425845 AAACGACACACGAGGTGCCTG-
1 ATACGACACACGAGGTGCCTGA
98425866 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACGAGGTGCCTG-A
98425889 ATACGACACA
1 ATACGACACA
98425899 AAGTGCCTGA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
21 36 0.78
23 10 0.22
ACGTcount: A:0.39, C:0.27, G:0.21, T:0.13
Consensus pattern (22 bp):
ATACGACACACGAGGTGCCTGA
Found at i:98425905 original size:42 final size:41
Alignment explanation
Indices: 98425824--98425909 Score: 102
Period size: 42 Copynumber: 2.0 Consensus size: 41
98425814 CATGATTAGT
* *
98425824 ATACGACACATAAAGTGCCTAAAACGACACACGAGGTGCCTG
1 ATACGACACACAAAGTGCCTAAAACGACACAC-AAGTGCCTG
* *
98425866 ATACGACACACGAGGTGCCTGAAATACGACACA-AAGTGCCTG
1 ATACGACACACAAAGTGCCT-AAA-ACGACACACAAGTGCCTG
98425908 AT
1 AT
98425910 CAGTAAAGTC
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
42 27 0.71
43 3 0.08
44 8 0.21
ACGTcount: A:0.37, C:0.26, G:0.22, T:0.15
Consensus pattern (41 bp):
ATACGACACACAAAGTGCCTAAAACGACACACAAGTGCCTG
Found at i:98425907 original size:21 final size:22
Alignment explanation
Indices: 98425824--98425908 Score: 81
Period size: 21 Copynumber: 4.0 Consensus size: 22
98425814 CATGATTAGT
*
98425824 ATACGACACATAAAGTGCCT-AA
1 ATACGACACA-CAAGTGCCTGAA
*
98425846 A-ACGACACACGAGGTGCCTG--
1 ATACGACACAC-AAGTGCCTGAA
*
98425866 ATACGACACACGAGGTGCCTGAA
1 ATACGACACAC-AAGTGCCTGAA
98425889 ATACGACACA-AAGTGCCTGA
1 ATACGACACACAAGTGCCTGA
98425909 TCAGTAAAGT
Statistics
Matches: 55, Mismatches: 3, Indels: 11
0.80 0.04 0.16
Matches are distributed among these distances:
20 1 0.02
21 43 0.78
22 1 0.02
23 10 0.18
ACGTcount: A:0.38, C:0.26, G:0.22, T:0.14
Consensus pattern (22 bp):
ATACGACACACAAGTGCCTGAA
Found at i:98427510 original size:19 final size:19
Alignment explanation
Indices: 98427486--98427524 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
98427476 AATACTTATT
*
98427486 TATTATTTATACATGTGTA
1 TATTATTAATACATGTGTA
98427505 TATTATTAATACATGTGTA
1 TATTATTAATACATGTGTA
98427524 T
1 T
98427525 CTATTTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.51
Consensus pattern (19 bp):
TATTATTAATACATGTGTA
Found at i:98427532 original size:19 final size:19
Alignment explanation
Indices: 98427489--98427532 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
98427479 ACTTATTTAT
98427489 TATTT-ATACATGTGTATA
1 TATTTAATACATGTGTATA
*
98427507 T-TATTAATACATGTGTATC
1 TAT-TTAATACATGTGTATA
98427526 TATTTAA
1 TATTTAA
98427533 AACCATACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
17 1 0.05
18 3 0.14
19 17 0.77
20 1 0.05
ACGTcount: A:0.34, C:0.07, G:0.09, T:0.50
Consensus pattern (19 bp):
TATTTAATACATGTGTATA
Found at i:98429452 original size:18 final size:18
Alignment explanation
Indices: 98429425--98429459 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
98429415 TGTTAATATA
*
98429425 GGAGTGAATCCCTGATTG
1 GGAGTAAATCCCTGATTG
*
98429443 GGAGTAAATCCTTGATT
1 GGAGTAAATCCCTGATT
98429460 AGGATTTATC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (18 bp):
GGAGTAAATCCCTGATTG
Found at i:98431314 original size:18 final size:18
Alignment explanation
Indices: 98431291--98431332 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
98431281 TATCAGATGA
98431291 AGAAGAAGAAACTTCTTC
1 AGAAGAAGAAACTTCTTC
98431309 AGAAGAAGAAACTTCTTC
1 AGAAGAAGAAACTTCTTC
*
98431327 AAAAGA
1 AGAAGA
98431333 GTCATCTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.19
Consensus pattern (18 bp):
AGAAGAAGAAACTTCTTC
Found at i:98434742 original size:35 final size:35
Alignment explanation
Indices: 98434675--98434842 Score: 185
Period size: 35 Copynumber: 4.6 Consensus size: 35
98434665 TCCTCATTGA
*** *
98434675 AATACCATACCTACATTTTTTTAACTCGGTATGGGA-
1 AATACCATACCTACA-TTTCACAACTCAGTAT-GGAT
* **
98434711 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
98434751 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
98434786 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
98434821 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
98434843 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 9, Indels: 11
0.86 0.07 0.08
Matches are distributed among these distances:
35 74 0.63
36 14 0.12
39 3 0.03
40 27 0.23
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:98434801 original size:75 final size:73
Alignment explanation
Indices: 98434670--98434842 Score: 210
Period size: 75 Copynumber: 2.4 Consensus size: 73
98434660 GGTTTTCCTC
*** * * **
98434670 ATTGAAATACCATACCTACATTTTTTTAACTCGGTATGGGAAATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACA-TTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAAC
98434735 TCAGTATGG
65 TCAGTATGG
*
98434744 ATTTGATAATACCATACCTACATTTCACAGCTCAGTAT-GGATAATACCATACCTACATTTCACA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGGA-AATACCATACCTACATTTCACA
98434808 ACTCAGTATGG
63 ACTCAGTATGG
98434819 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
98434843 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 2 0.02
74 4 0.05
75 46 0.52
76 15 0.17
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:98442073 original size:53 final size:53
Alignment explanation
Indices: 98441917--98442082 Score: 212
Period size: 53 Copynumber: 3.1 Consensus size: 53
98441907 GACGAAAAAT
* * **
98441917 ATGTGATAA-GTGCAC-CCGTTTAAGACCATAGCTGGGTTATGGCATCGGTGCA
1 ATGTGATAATGTG-ACTCCGTATAAGACCATAGCTGGGATATGGCATCGGTATA
*
98441969 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGATATGGCATCGGTATA
* *
98442022 ATGTGATAATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGA
1 ATGTGATAATGTGACTCCGTATAAGACCATAG-CTGGGATATGGCATCGGTAT-A
98442076 TATGTGA
1 -ATGTGA
98442083 ACCGTGTAAG
Statistics
Matches: 102, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
52 12 0.12
53 83 0.81
54 1 0.01
55 6 0.06
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.30
Consensus pattern (53 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGATATGGCATCGGTATA
Found at i:98445551 original size:30 final size:30
Alignment explanation
Indices: 98445506--98445594 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
98445496 CAAAGATAAC
*
98445506 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCGGAATAAAGAAATCCAAGATA
*
98445535 GAGAAACCCGGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGGAATAAAGAAATCCAAG-ATA
* * *
98445565 AAGAGATCCAGG-ATAAAGAAACCCAAGATA
1 AAGA-AACCCGGAATAAAGAAATCCAAGATA
98445595 CGATACTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 9 0.18
30 34 0.68
31 7 0.14
ACGTcount: A:0.56, C:0.16, G:0.18, T:0.10
Consensus pattern (30 bp):
AAGAAACCCGGAATAAAGAAATCCAAGATA
Found at i:98445554 original size:15 final size:14
Alignment explanation
Indices: 98445506--98445588 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
98445496 CAAAGATAAC
*
98445506 AAGAAAACCGAATA
1 AAGAAACCCGAATA
* *
98445520 AAGAAATCCAAGATA
1 AAGAAACCCGA-ATA
*
98445535 GAGAAACCCGGAATA
1 AAGAAACCC-GAATA
*
98445550 AAGAAATCCAGAATA
1 AAGAAA-CCCGAATA
* * *
98445565 AAGAGATCCAGGATA
1 AAGA-AACCCGAATA
98445580 AAGAAACCC
1 AAGAAACCC
98445589 AAGATACGAT
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
14 12 0.22
15 38 0.70
16 4 0.07
ACGTcount: A:0.55, C:0.17, G:0.18, T:0.10
Consensus pattern (14 bp):
AAGAAACCCGAATA
Found at i:98445594 original size:15 final size:15
Alignment explanation
Indices: 98445517--98445594 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
98445507 AGAAAACCGA
98445517 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
98445532 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
98445546 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
98445561 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
98445577 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
98445592 ATA
1 ATA
98445595 CGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:98448622 original size:92 final size:92
Alignment explanation
Indices: 98448511--98448679 Score: 286
Period size: 92 Copynumber: 1.8 Consensus size: 92
98448501 GCCCATAAGT
*
98448511 GAACTCGGACTCAACTCAACGAGCTAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTAGGACATT-GCATCCATAAGTGAACTCGGACTCAACTCAA
98448575 CGAGCTCGGATGCCTAGTTACATCTCTC
65 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
98448603 GAACTCGGACTCAACTCAACGAGTTCGGACATTGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTAGGACATTGCATCCATAAGTGAACTCGGACTCAACTCAAC
*
98448668 GAGTTCGGATGC
66 GAGCTCGGATGC
98448680 TCAACCATCC
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 69 0.96
93 3 0.04
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTAGGACATTGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCTC
Found at i:98448676 original size:45 final size:45
Alignment explanation
Indices: 98448503--98448676 Score: 199
Period size: 45 Copynumber: 3.8 Consensus size: 45
98448493 TGTAACCCGC
* *
98448503 CCATAAGTGAACTCGGACTCAACTCAACGAGCTAGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATT-GCAT
* * *
98448548 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA--CATTGCAT
* *** *
98448594 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTGCAT
*
98448640 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
98448677 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
45 67 0.62
46 10 0.09
47 29 0.27
48 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTGCAT
Found at i:98450351 original size:2 final size:2
Alignment explanation
Indices: 98450344--98450370 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
98450334 AACATATAAA
98450344 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
98450371 AAAACTCCTA
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:98451806 original size:45 final size:46
Alignment explanation
Indices: 98451580--98451979 Score: 540
Period size: 45 Copynumber: 8.8 Consensus size: 46
98451570 TGATGTCATA
* * * * * *
98451580 TATCTTTCAACTATGGTTTTACTCGTTTTC-TGTCATGTTGCCATGG
1 TATCTTTCAACCATGGTCTTACAC-ATTTCATATCACGTTGCCATGG
** *** * *
98451626 TATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTGCCGTGG
1 TATCTTTCAACCATGGTCTTACACA-TTTCATATCACGTTGCCATGG
* * * * *
98451673 TATCTTTCAACCATTGTCTTACTCATTTCATGTTAGGTTGCCATGG
1 TATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGG
**
98451719 TATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGG
1 TATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGG
*
98451765 TATCTTTCAACCATGGT-TTACACATTTCATATCACATTGCCATGG
1 TATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGG
*
98451810 TATCTTTCAACCATGGTCTTACACA-TTCATATCAGGTTGCCATGG
1 TATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGG
98451855 TATCTTTCAACCATGGTCTTACACA-TTCATATCACGTTGCCATGG
1 TATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGG
98451900 TATCTTTCAACCATGGTCTTACACATTTCATATCAC-TTGCCATGG
1 TATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGG
*
98451945 TATCTTTCAACCATGGTCTTACACATTCCATATCA
1 TATCTTTCAACCATGGTCTTACACATTTCATATCA
98451980 GAGAGCACAC
Statistics
Matches: 325, Mismatches: 25, Indels: 9
0.91 0.07 0.03
Matches are distributed among these distances:
45 172 0.53
46 116 0.36
47 37 0.11
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (46 bp):
TATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGG
Found at i:98459856 original size:19 final size:19
Alignment explanation
Indices: 98459832--98459869 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
98459822 GGTTTTTGGC
98459832 GGTAATGTTTCCAATCATT
1 GGTAATGTTTCCAATCATT
*
98459851 GGTAATGTTTTCAATCATT
1 GGTAATGTTTCCAATCATT
98459870 CTCTAGGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.13, G:0.16, T:0.45
Consensus pattern (19 bp):
GGTAATGTTTCCAATCATT
Found at i:98460813 original size:15 final size:15
Alignment explanation
Indices: 98460795--98460824 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
98460785 CCCTAACATT
98460795 TAATTAACTAATCGA
1 TAATTAACTAATCGA
98460810 TAATTAACTAATCGA
1 TAATTAACTAATCGA
98460825 ATGGTTGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.13, G:0.07, T:0.33
Consensus pattern (15 bp):
TAATTAACTAATCGA
Found at i:98468301 original size:19 final size:19
Alignment explanation
Indices: 98468277--98468315 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
98468267 CTCCACCAAA
98468277 AAAGAAAGATTTTTAAATT
1 AAAGAAAGATTTTTAAATT
98468296 AAAGAAAGATTTTTAAATT
1 AAAGAAAGATTTTTAAATT
98468315 A
1 A
98468316 TTTTTTAGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.36
Consensus pattern (19 bp):
AAAGAAAGATTTTTAAATT
Found at i:98469622 original size:29 final size:31
Alignment explanation
Indices: 98469546--98469622 Score: 79
Period size: 29 Copynumber: 2.5 Consensus size: 31
98469536 TTAACAGCTC
* *
98469546 AGTGACTAAAATGTTACAATACGATAACGTA
1 AGTGACTAAAATGTAACAATACGATAACATA
* * *
98469577 AGTGACT-AAATCATAACATTTC-A-AACATA
1 AGTGACTAAAAT-GTAACAATACGATAACATA
98469606 AGTGACTAAAATGTAAC
1 AGTGACTAAAATGTAAC
98469623 CTGAGGCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
29 16 0.42
30 9 0.24
31 13 0.34
ACGTcount: A:0.47, C:0.14, G:0.13, T:0.26
Consensus pattern (31 bp):
AGTGACTAAAATGTAACAATACGATAACATA
Found at i:98472786 original size:5 final size:5
Alignment explanation
Indices: 98472776--98472800 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
98472766 CAAAAATAAA
98472776 TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT
98472801 GGTTGACATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:98477899 original size:46 final size:47
Alignment explanation
Indices: 98477805--98477902 Score: 117
Period size: 46 Copynumber: 2.1 Consensus size: 47
98477795 CTGGGCAATC
* * * * *
98477805 GGCATCGATATGTGATCCCATGTAAGACCATGTCTGGAACATGGCATT
1 GGCATCGA-ATGTAATCCCATGTAAAACCATATCCGGAACATGACATT
* *
98477853 GGCATCG-ATGTAATCCCATGTAAAACCATATCCGGGATATGACATT
1 GGCATCGAATGTAATCCCATGTAAAACCATATCCGGAACATGACATT
98477899 GGCA
1 GGCA
98477903 CCCTACCATG
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
46 36 0.84
48 7 0.16
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (47 bp):
GGCATCGAATGTAATCCCATGTAAAACCATATCCGGAACATGACATT
Found at i:98478571 original size:68 final size:68
Alignment explanation
Indices: 98478462--98478600 Score: 251
Period size: 68 Copynumber: 2.0 Consensus size: 68
98478452 TCATTTTGTA
* *
98478462 TATGGCCATGAGATATGGCCCATATTAATTATGGGGATGTAATCCTATTCATACATGCATATATG
1 TATGGCCATGAGATATGGCCCATATTAATTATGGGGATGTAATCCTATTCATACATACATACATG
98478527 TGC
66 TGC
*
98478530 TATGGCTATGAGATATGGCCCATATTAATTATGGGGATGTAATCCTATTCATACATACATACATG
1 TATGGCCATGAGATATGGCCCATATTAATTATGGGGATGTAATCCTATTCATACATACATACATG
98478595 TGC
66 TGC
98478598 TAT
1 TAT
98478601 AGTCACTCAT
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (68 bp):
TATGGCCATGAGATATGGCCCATATTAATTATGGGGATGTAATCCTATTCATACATACATACATG
TGC
Found at i:98491597 original size:18 final size:18
Alignment explanation
Indices: 98491570--98491625 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
98491560 TAATTTTCAT
*
98491570 TATTTATTTTTATTTTTA
1 TATTTGTTTTTATTTTTA
*
98491588 TATTTGTTTTTTTTTGTTA
1 TATTTGTTTTTATTT-TTA
* *
98491607 TCA-TTGTTATTATTATTA
1 T-ATTTGTTTTTATTTTTA
98491625 T
1 T
98491626 TAGAAGTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
18 17 0.55
19 13 0.42
20 1 0.03
ACGTcount: A:0.20, C:0.02, G:0.05, T:0.73
Consensus pattern (18 bp):
TATTTGTTTTTATTTTTA
Found at i:98493158 original size:18 final size:18
Alignment explanation
Indices: 98493131--98493172 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
98493121 TTTAAGTCCC
98493131 TTTA-TTTTACTATTATT
1 TTTATTTTTACTATTATT
*
98493148 TTTATTTTTACTTTTATT
1 TTTATTTTTACTATTATT
98493166 TTTATTT
1 TTTATTT
98493173 AAACTTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTATTTTTACTATTATT
Found at i:98493162 original size:7 final size:6
Alignment explanation
Indices: 98493143--98493172 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
98493133 TATTTTACTA
*
98493143 TTATTT TTATTT TTACTT TTATTT TTATTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT
98493173 AAACTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (6 bp):
TTATTT
Found at i:98493178 original size:18 final size:18
Alignment explanation
Indices: 98493143--98493179 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
98493133 TATTTTACTA
**
98493143 TTATTTTTATTTTTACTT
1 TTATTTTTATTTAAACTT
98493161 TTATTTTTATTTAAACTT
1 TTATTTTTATTTAAACTT
98493179 T
1 T
98493180 ATTGTGTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (18 bp):
TTATTTTTATTTAAACTT
Found at i:98494192 original size:4 final size:4
Alignment explanation
Indices: 98494185--98494211 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
98494175 TAAAAAAAAT
98494185 ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATA
98494212 TTGGTAGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.22, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:98499301 original size:2 final size:2
Alignment explanation
Indices: 98499294--98499345 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
98499284 CAGTCCATAA
*
98499294 AT AT AT AT AT AT AT GT 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 AT AT AT AT AT AT AT
98499336 AT AT AT AT AT
1 AT AT AT AT AT
98499346 TTTTATAAAC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:98501960 original size:130 final size:130
Alignment explanation
Indices: 98501725--98502096 Score: 476
Period size: 130 Copynumber: 2.9 Consensus size: 130
98501715 AAAATTCTTC
* *
98501725 AAAACGAAGACGAAATTTGATGTTCGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
1 AAAACGAAGATGAAATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
* * * *
98501790 TTTCGCATTTGCTCAAAGTAATCAAATTTCCCTTCGAAATTTCATTCATATCTTTTAAAATCCCT
66 TTTCGCATTTGCTCAAAATAATCAAATATCCCTTCAAAATTTCACTCATATCTTTTAAAATCCCT
* * * * *
98501855 TAAACGAAGATGAGATTTGATGTTTGGCAATTCACAGAATCGTGCCCTAACGTGTTGGGTTGTAA
1 AAAACGAAGATGAAATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
* * ** * *
98501920 TTTCGCATTTGCTCAAAATAATCAAATATCACTTTAAAATTTTGCTCGTGTCTTTTAAAATCCCT
66 TTTCGCATTTGCTCAAAATAATCAAATATCCCTTCAAAATTTCACTCATATCTTTTAAAATCCCT
* * * * * * **
98501985 AAAACGAAGGTGATATGTGATATTTGGCAATTCGCGGGATCGTGCCTTAACGTGTTGGGTAACAA
1 AAAACGAAGATGAAATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
* * *
98502050 TTTCTCGATTT-TTTAAAATAATCAAATATCCCTTCAAAATTTCACTC
66 TTTCGC-ATTTGCTCAAAATAATCAAATATCCCTTCAAAATTTCACTC
98502097 GGCTCTTCTA
Statistics
Matches: 205, Mismatches: 36, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
130 201 0.98
131 4 0.02
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.34
Consensus pattern (130 bp):
AAAACGAAGATGAAATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
TTTCGCATTTGCTCAAAATAATCAAATATCCCTTCAAAATTTCACTCATATCTTTTAAAATCCCT
Found at i:98514131 original size:132 final size:132
Alignment explanation
Indices: 98513894--98514242 Score: 567
Period size: 132 Copynumber: 2.7 Consensus size: 132
98513884 TTTAGAAGAC
*
98513894 CGAAGACGACGAATTTTGGCTTCTTGAAGTTGCAGTGAAGCAGATTTAAGTCACTAACCTAGCTC
1 CGAAGACGACGAATCTTGGCTTCTTGAAGTTGCAGTGAAGCAGATTTAAGTCACTAACCTAGCTC
98513959 CCTAAAGTTGTAGTGGAGTAGGTTGAAATTTTAGATCTCATTTCCCTGAAGTTGCAGTGGAACAG
66 CCTAAAGTTGTAGTGGAGTAGGTTGAAATTTTAGATCTCATTTCCCTGAAGTTGCAGTGGAACAG
98514024 AT
131 AT
* * * *
98514026 CGAAGACGATGAATCTTGGCTTCCTGAAGTTGCAGCGAAGCAGATTTAAGTCACTAGCCTAGCTC
1 CGAAGACGACGAATCTTGGCTTCTTGAAGTTGCAGTGAAGCAGATTTAAGTCACTAACCTAGCTC
* *
98514091 CCTCAAGTTGTAGTGGAGTAGGTTGAAATTTTAGATCTCATTTTCCTGAAGTTGCAGTGGAACAG
66 CCTAAAGTTGTAGTGGAGTAGGTTGAAATTTTAGATCTCATTTCCCTGAAGTTGCAGTGGAACAG
98514156 AT
131 AT
* * * * *
98514158 CGAAGACGACGAATCTTTGCTTCTTGATGTTGCAGTGAAGTAGATTTAAGCCA-TCACCCTAGCT
1 CGAAGACGACGAATCTTGGCTTCTTGAAGTTGCAGTGAAGCAGATTTAAGTCACT-AACCTAGCT
98514222 -CCTAAAGTTGTAGTGGAGTAG
65 CCCTAAAGTTGTAGTGGAGTAG
98514243 AATGACGATT
Statistics
Matches: 200, Mismatches: 16, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
131 21 0.10
132 179 0.89
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.30
Consensus pattern (132 bp):
CGAAGACGACGAATCTTGGCTTCTTGAAGTTGCAGTGAAGCAGATTTAAGTCACTAACCTAGCTC
CCTAAAGTTGTAGTGGAGTAGGTTGAAATTTTAGATCTCATTTCCCTGAAGTTGCAGTGGAACAG
AT
Found at i:98514450 original size:46 final size:45
Alignment explanation
Indices: 98514341--98514457 Score: 130
Period size: 46 Copynumber: 2.6 Consensus size: 45
98514331 TGCAAGATTT
* *
98514341 TGTCTCCCTGAAGTTGCAGTGGAGCAAAATCAAAGTCACAATCCT
1 TGTCTCCCTGAAGTTGCAGTGGAGCAAAATAAAAGTCACAATCCA
* * * **
98514386 TATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAAACGT-ACGAA-CCA
1 TGTCTCCCTGAAGTTGCAGTGGAGCAAAAT-AAAA-GTCAC-AATCCA
98514432 TGTCTCCCTGAAGTTGCAGTGGAGCA
1 TGTCTCCCTGAAGTTGCAGTGGAGCA
98514458 TATTGAAGCT
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
45 25 0.42
46 30 0.51
47 4 0.07
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (45 bp):
TGTCTCCCTGAAGTTGCAGTGGAGCAAAATAAAAGTCACAATCCA
Found at i:98514628 original size:14 final size:14
Alignment explanation
Indices: 98514609--98514635 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
98514599 CCCGGCCCGG
98514609 ATAAACATAAAACC
1 ATAAACATAAAACC
98514623 ATAAACATAAAAC
1 ATAAACATAAAAC
98514636 AAATAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.19, G:0.00, T:0.15
Consensus pattern (14 bp):
ATAAACATAAAACC
Found at i:98517298 original size:130 final size:130
Alignment explanation
Indices: 98517063--98517434 Score: 521
Period size: 130 Copynumber: 2.9 Consensus size: 130
98517053 AAAATTCTTC
*
98517063 AAAACGAAGATGAAATTTGATGTTCGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
1 AAAACGAAGATGAAATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
* * * *
98517128 TTTCGCATTTGCTCAAAATAATCGAATTTCCCTTCGAAATTTCATTCATATCTTTTAAAATCCCT
66 TTTCGCATTTGCTCAAAATAATCAAATATCCCTTCAAAATTTCACTCATATCTTTTAAAATCCCT
* *
98517193 TAAACGAAGATGAGATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
1 AAAACGAAGATGAAATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
* * * * *
98517258 TTTCGCATTTGCTCAAAATAATCAAATATCACTTTAAAATTTCGCTCGTGTCTTTTAAAATCCCT
66 TTTCGCATTTGCTCAAAATAATCAAATATCCCTTCAAAATTTCACTCATATCTTTTAAAATCCCT
** * * * * * *
98517323 AAAACGAAGGCGATATGTGATATTTGGCAATTCGCGGGATTGTGCCCTAACGTGTTGGGTAGCAA
1 AAAACGAAGATGAAATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
* * *
98517388 TTTCTCGA-TTGTTTAAAATAATCAAATATCCCTTCAAAATTTCACTC
66 TTTCGC-ATTTGCTCAAAATAATCAAATATCCCTTCAAAATTTCACTC
98517435 GGCTCTTCTA
Statistics
Matches: 214, Mismatches: 27, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
130 213 1.00
131 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (130 bp):
AAAACGAAGATGAAATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
TTTCGCATTTGCTCAAAATAATCAAATATCCCTTCAAAATTTCACTCATATCTTTTAAAATCCCT
Found at i:98517491 original size:130 final size:128
Alignment explanation
Indices: 98517090--98517491 Score: 362
Period size: 130 Copynumber: 3.1 Consensus size: 128
98517080 TGATGTTCGG
* *
98517090 CAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCATTTGCTCAAAATAATCGAAT
1 CAATTCG-GG-ATCGTGCCCTAACGTGTTGGGTAGCAATTTCGCATTTGCTCAAAATAATCAAAT
* * * * * * * * *** * * * **
98517155 TTCCCTTCGAAATTTCATTCATATCTTTTAAAATCCCTTAAACGAAGATGAGATTTGATGTTTGG
64 ATCACTTCAAAATTTCACTCGTGTCTTTAAAAATCCCTAAAACGAAGGCAATATGTGATATTTCA
*
98517220 CAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCATTTGCTCAAAATAATCAAAT
1 CAATTCG-GG-ATCGTGCCCTAACGTGTTGGGTAGCAATTTCGCATTTGCTCAAAATAATCAAAT
* * * * **
98517285 ATCACTTTAAAATTTCGCTCGTGTCTTTTAAAATCCCTAAAACGAAGGCGATATGTGATATTTGG
64 ATCACTTCAAAATTTCACTCGTGTCTTTAAAAATCCCTAAAACGAAGGCAATATGTGATATTTCA
* * * *
98517350 CAATTCGCGGGATTGTGCCCTAACGTGTTGGGTAGCAATTTCTCGA-TTGTTTAAAATAATCAAA
1 CAATT--CGGGATCGTGCCCTAACGTGTTGGGTAGCAATTTCGC-ATTTGCTCAAAATAATCAAA
* * * *
98517414 TATCCCTTCAAAATTTCACTCG-GCTCTTCTAAAAATCCTTTAAAATGAGGGCAATACTCG-G-T
63 TATCACTTCAAAATTTCACTCGTG-TCTT-TAAAAATCC-CTAAAACGAAGGCAATA-T-GTGAT
*
98517476 GTTTCA
123 ATTTCA
98517482 CAATTCGGGA
1 CAATTCGGGA
98517492 ATCATGCCTT
Statistics
Matches: 233, Mismatches: 31, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
129 1 0.00
130 194 0.83
131 11 0.05
132 24 0.10
133 2 0.01
134 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.34
Consensus pattern (128 bp):
CAATTCGGGATCGTGCCCTAACGTGTTGGGTAGCAATTTCGCATTTGCTCAAAATAATCAAATAT
CACTTCAAAATTTCACTCGTGTCTTTAAAAATCCCTAAAACGAAGGCAATATGTGATATTTCA
Found at i:98532086 original size:21 final size:23
Alignment explanation
Indices: 98532050--98532096 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
98532040 TCTTTATTCC
*
98532050 TTTTAAATAAAAG-AAAAGATAT
1 TTTTAAATAAAAGAAAAAGAGAT
*
98532072 TTTTAAAT-AAGGAAAAAGAGAT
1 TTTTAAATAAAAGAAAAAGAGAT
98532094 TTT
1 TTT
98532097 ATTCTCATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 3 0.14
22 19 0.86
ACGTcount: A:0.53, C:0.00, G:0.13, T:0.34
Consensus pattern (23 bp):
TTTTAAATAAAAGAAAAAGAGAT
Found at i:98538924 original size:7 final size:7
Alignment explanation
Indices: 98538912--98538937 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
98538902 TATTGAACTC
98538912 ATAAATA
1 ATAAATA
98538919 ATAAATA
1 ATAAATA
98538926 ATAAATA
1 ATAAATA
98538933 ATAAA
1 ATAAA
98538938 ATTTTTAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
ATAAATA
Found at i:98540029 original size:6 final size:6
Alignment explanation
Indices: 98540018--98540049 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
98540008 CTTACAGGTT
98540018 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TA
98540050 CTATTAAATT
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:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:98544420 original size:16 final size:15
Alignment explanation
Indices: 98544395--98544424 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
98544385 CGGATGAAAT
98544395 TTTAATTTTTTATAG
1 TTTAATTTTTTATAG
98544410 TTTATATTTTTTATA
1 TTTA-ATTTTTTATA
98544425 ATTTTTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (15 bp):
TTTAATTTTTTATAG
Found at i:98546820 original size:31 final size:31
Alignment explanation
Indices: 98546770--98546849 Score: 83
Period size: 31 Copynumber: 2.6 Consensus size: 31
98546760 TTGATACATG
* *
98546770 AACTTTAATT-TGGTGCAAATATATACAAGA
1 AACTTTAATTATGATTCAAATATATACAAGA
* * *
98546800 AA-TGTTGATTATGATTCAAATGTATACATGA
1 AACT-TTAATTATGATTCAAATATATACAAGA
*
98546831 AACTTTAATTTTGATTCAA
1 AACTTTAATTATGATTCAA
98546850 TCATACACAT
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
29 1 0.03
30 7 0.17
31 31 0.77
32 1 0.03
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.39
Consensus pattern (31 bp):
AACTTTAATTATGATTCAAATATATACAAGA
Found at i:98555688 original size:17 final size:17
Alignment explanation
Indices: 98555662--98555700 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
98555652 CATATAATAT
*
98555662 AGGGCTTGCACAAAGTA
1 AGGGCATGCACAAAGTA
*
98555679 AGGGCATGCACTAAGTA
1 AGGGCATGCACAAAGTA
98555696 AGGGC
1 AGGGC
98555701 TTACACACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.33, C:0.18, G:0.33, T:0.15
Consensus pattern (17 bp):
AGGGCATGCACAAAGTA
Found at i:98555820 original size:26 final size:25
Alignment explanation
Indices: 98555733--98555822 Score: 90
Period size: 26 Copynumber: 3.5 Consensus size: 25
98555723 GTTCGCCAGG
* *
98555733 CATAGGGTTTGTTAGAGTGAGTTCAC
1 CATAGGGTTTGCTAGAGTGTGTT-AC
* * ** *
98555759 TATAAGGTTCACTAGAGTGTGTTTGC
1 CATAGGGTTTGCTAGAGTGTG-TTAC
98555785 CATAGGGTTTGCTAGAGTGTGTCTAC
1 CATAGGGTTTGCTAGAGTGTGT-TAC
98555811 CATAGGGTTTGC
1 CATAGGGTTTGC
98555823 CAGTAATACA
Statistics
Matches: 50, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
25 1 0.02
26 47 0.94
27 2 0.04
ACGTcount: A:0.21, C:0.13, G:0.30, T:0.36
Consensus pattern (25 bp):
CATAGGGTTTGCTAGAGTGTGTTAC
Found at i:98560548 original size:27 final size:27
Alignment explanation
Indices: 98560499--98560550 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
98560489 CATAATTATC
* * *
98560499 GTGTTTACTGTGCCGGTGAACTACCCT
1 GTGTTTACTATCCCAGTGAACTACCCT
*
98560526 GTGTTTACTATCCCAGTGGACTACC
1 GTGTTTACTATCCCAGTGAACTACC
98560551 TTGGTTGCTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.17, C:0.27, G:0.23, T:0.33
Consensus pattern (27 bp):
GTGTTTACTATCCCAGTGAACTACCCT
Found at i:98565618 original size:14 final size:15
Alignment explanation
Indices: 98565599--98565654 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 15
98565589 AATCTTCAAT
98565599 GATATG-CAATCTTA
1 GATATGACAATCTTA
98565613 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
98565630 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
98565648 GATATGA
1 GATATGA
98565655 TATGTAATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.17
15 1 0.03
17 14 0.39
18 15 0.42
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:98565625 original size:17 final size:17
Alignment explanation
Indices: 98565605--98565656 Score: 86
Period size: 17 Copynumber: 3.0 Consensus size: 17
98565595 CAATGATATG
98565605 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
*
98565622 CAATCTTAGATATGATTG
1 CAATCTTAGATATGA-TA
98565640 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
98565657 TGTAATCTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
17 16 0.50
18 16 0.50
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.37
Consensus pattern (17 bp):
CAATCTTAGATATGATA
Found at i:98565675 original size:22 final size:23
Alignment explanation
Indices: 98565647--98565691 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
98565637 TTGCAATCTT
98565647 AGATATGA-TATGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
*
98565669 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
98565692 GATTTAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.40
Consensus pattern (23 bp):
AGATATGATTATGTAATCTTAGA
Found at i:98565701 original size:22 final size:23
Alignment explanation
Indices: 98565657--98565701 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
98565647 AGATATGATA
*
98565657 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
98565680 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
98565702 GTAGATACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:98565981 original size:17 final size:17
Alignment explanation
Indices: 98565955--98565991 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
98565945 CATGTTTCCC
*
98565955 TAATTTTTTTATATATTT
1 TAATTTTTTAATA-ATTT
98565973 TAATTTTTTAATAATTT
1 TAATTTTTTAATAATTT
98565990 TA
1 TA
98565992 GTATCATATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TAATTTTTTAATAATTT
Found at i:98576068 original size:44 final size:45
Alignment explanation
Indices: 98575869--98576142 Score: 286
Period size: 45 Copynumber: 6.1 Consensus size: 45
98575859 CATCCAAGAT
*
98575869 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAG--ATAACA
* * * * * * * *
98575916 GATCTGACCT-TCATGTGTTTACATC--GAAGCAGATCCAAGATGACA
1 GATTTGGCATCTC-TGT-ATTAGA-CGGGGAGCAGATCGAAGATAACA
* *
98575961 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGGAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* * **
98576006 GATTTGGCAACTCTGTATTAGACGGGGAGCAGATTGAAGA-AGTA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* *
98576050 GATTTGGCGTCTCTGTATTAGACTGGGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* * * *
98576095 GATTTGGCGTCTCTATATTAGACGGGGAGCAGATCAAAGATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
98576140 GAT
1 GAT
98576143 AGCGCCTTCC
Statistics
Matches: 185, Mismatches: 35, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
43 1 0.01
44 42 0.23
45 111 0.60
46 4 0.02
47 22 0.12
48 4 0.02
49 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.25
Consensus pattern (45 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
Found at i:98576091 original size:89 final size:89
Alignment explanation
Indices: 98575960--98576128 Score: 275
Period size: 89 Copynumber: 1.9 Consensus size: 89
98575950 CCAAGATGAC
* *
98575960 AGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGGAGATAACAGATTTGGCAACTCTGTATT
1 AGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAGATTTGGCAACTCTATATT
98576025 AGACGGGGAGCAGATTGAAGAAGT
66 AGACGGGGAGCAGATTGAAGAAGT
* * * **
98576049 AGATTTGGCGTCTCTGTATTAGACTGGGAGCAGATCGAAGATAACAGATTTGGCGTCTCTATATT
1 AGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAGATTTGGCAACTCTATATT
98576114 AGACGGGGAGCAGAT
66 AGACGGGGAGCAGAT
98576129 CAAAGATAGC
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
89 73 1.00
ACGTcount: A:0.30, C:0.14, G:0.30, T:0.26
Consensus pattern (89 bp):
AGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAGATTTGGCAACTCTATATT
AGACGGGGAGCAGATTGAAGAAGT
Found at i:98576507 original size:17 final size:19
Alignment explanation
Indices: 98576485--98576544 Score: 74
Period size: 19 Copynumber: 3.4 Consensus size: 19
98576475 ATGGAAATAT
98576485 AATCTT-CA-ATGATATGC
1 AATCTTACATATGATATGC
*
98576502 AATCTTAGATATGATATGC
1 AATCTTACATATGATATGC
*
98576521 AATCTTAGATATGATA--C
1 AATCTTACATATGATATGC
98576538 AATCTTA
1 AATCTTA
98576545 GATCTGTGTA
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
17 14 0.35
18 1 0.03
19 25 0.62
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.37
Consensus pattern (19 bp):
AATCTTACATATGATATGC
Found at i:98576517 original size:19 final size:19
Alignment explanation
Indices: 98576493--98576547 Score: 96
Period size: 19 Copynumber: 3.0 Consensus size: 19
98576483 ATAATCTTCA
98576493 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
98576512 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
98576531 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
98576548 CTGTGTAACA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
17 11 0.31
19 25 0.69
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:98578628 original size:39 final size:39
Alignment explanation
Indices: 98578579--98578733 Score: 136
Period size: 39 Copynumber: 4.0 Consensus size: 39
98578569 TAAACCCAGT
* * *
98578579 ATAATACCAGCTCGAAGCCTGCGGGA-CTTTAGCCCGGAC
1 ATAATTCCAGCACGAAGCCTGC-GGACCTTAAGCCCGGAC
* * * *
98578618 ATATTTCCAGCACGTAGCCTGCGGACCTTAAGTCCGGTC
1 ATAATTCCAGCACGAAGCCTGCGGACCTTAAGCCCGGAC
* * ** *
98578657 ATAATTCCAGCAC-ATAGCCTGTGGACCCTAAGTTCGGAT
1 ATAATTCCAGCACGA-AGCCTGCGGACCTTAAGCCCGGAC
* *
98578696 ATAATTCCAGCAC-ATAGCCTGCGGACCCTAAGTCCGGA
1 ATAATTCCAGCACGA-AGCCTGCGGACCTTAAGCCCGGA
98578734 TATACATCAC
Statistics
Matches: 98, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
38 3 0.03
39 95 0.97
ACGTcount: A:0.26, C:0.30, G:0.23, T:0.22
Consensus pattern (39 bp):
ATAATTCCAGCACGAAGCCTGCGGACCTTAAGCCCGGAC
Found at i:98578667 original size:78 final size:78
Alignment explanation
Indices: 98578579--98578732 Score: 177
Period size: 78 Copynumber: 2.0 Consensus size: 78
98578569 TAAACCCAGT
* * * * *
98578579 ATAATACCAGCTCGA-AGCCTGCGGGA-CTTTAGCCCGGACATATTTCCAGCACGTAGCCTGCGG
1 ATAATACCAGCAC-ATAGCCTG-GGGACCCTAAGCCCGGACATAATTCCAGCACATAGCCTGCGG
*
98578642 ACCTTAAGTCCGGTC
64 ACCCTAAGTCCGGTC
* * ** *
98578657 ATAATTCCAGCACATAGCCTGTGGACCCTAAGTTCGGATATAATTCCAGCACATAGCCTGCGGAC
1 ATAATACCAGCACATAGCCTGGGGACCCTAAGCCCGGACATAATTCCAGCACATAGCCTGCGGAC
98578722 CCTAAGTCCGG
66 CCTAAGTCCGG
98578733 ATATACATCA
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
77 4 0.06
78 59 0.94
ACGTcount: A:0.25, C:0.30, G:0.23, T:0.22
Consensus pattern (78 bp):
ATAATACCAGCACATAGCCTGGGGACCCTAAGCCCGGACATAATTCCAGCACATAGCCTGCGGAC
CCTAAGTCCGGTC
Found at i:98578734 original size:39 final size:39
Alignment explanation
Indices: 98578612--98578737 Score: 182
Period size: 39 Copynumber: 3.2 Consensus size: 39
98578602 GGACTTTAGC
* * * *
98578612 CCGGACATATTTCCAGCACGTAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
*
98578651 CCGG-TCATAATTCCAGCACATAGCCTGTGGACCCTAAGT
1 CCGGAT-ATAATTCCAGCACATAGCCTGCGGACCCTAAGT
*
98578690 TCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
98578729 CCGGATATA
1 CCGGATATA
98578738 CATCACTAAA
Statistics
Matches: 77, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
39 76 0.99
40 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.23
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
Found at i:98580970 original size:18 final size:19
Alignment explanation
Indices: 98580947--98580984 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
98580937 GGCTGTCACA
98580947 ATATGAT-TGCAATCTTAG
1 ATATGATATGCAATCTTAG
98580965 ATATGATATGCAATCTTAG
1 ATATGATATGCAATCTTAG
98580984 A
1 A
98580985 AGATATGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.37
Consensus pattern (19 bp):
ATATGATATGCAATCTTAG
Found at i:98581010 original size:22 final size:22
Alignment explanation
Indices: 98580947--98580993 Score: 66
Period size: 19 Copynumber: 2.3 Consensus size: 22
98580937 GGCTGTCACA
98580947 ATATGAT-TGCAATCTT---AG
1 ATATGATATGCAATCTTAGAAG
98580965 ATATGATATGCAATCTTAGAAG
1 ATATGATATGCAATCTTAGAAG
98580987 ATATGAT
1 ATATGAT
98580994 TTTGTAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.28
19 9 0.36
22 9 0.36
ACGTcount: A:0.38, C:0.09, G:0.17, T:0.36
Consensus pattern (22 bp):
ATATGATATGCAATCTTAGAAG
Found at i:98581278 original size:17 final size:17
Alignment explanation
Indices: 98581254--98581288 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
98581244 TGTTTCCCTG
*
98581254 ATTTTTTTATATATTTTA
1 ATTTTTTAATA-ATTTTA
98581272 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
98581289 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:98584618 original size:17 final size:18
Alignment explanation
Indices: 98584598--98584637 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
98584588 CACTTGCTAT
*
98584598 TTCAATAGCATTT-CCAA
1 TTCAATAACATTTACCAA
*
98584615 TTCAATAACATTTACCAT
1 TTCAATAACATTTACCAA
98584633 TTCAA
1 TTCAA
98584638 AATCGATAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.38, C:0.23, G:0.03, T:0.38
Consensus pattern (18 bp):
TTCAATAACATTTACCAA
Found at i:98586029 original size:22 final size:22
Alignment explanation
Indices: 98586002--98586047 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
98585992 GATTGCATGA
98586002 TTGATGATGTGAAATGATGATT
1 TTGATGATGTGAAATGATGATT
98586024 TTGATGATGTGAAATGATGATT
1 TTGATGATGTGAAATGATGATT
98586046 TT
1 TT
98586048 ACTATAAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.30, C:0.00, G:0.26, T:0.43
Consensus pattern (22 bp):
TTGATGATGTGAAATGATGATT
Found at i:98589372 original size:20 final size:22
Alignment explanation
Indices: 98589349--98589389 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
98589339 CTTTCCTCTG
98589349 TTCAAT-GATTGTTTC-TTGTT
1 TTCAATCGATTGTTTCGTTGTT
98589369 TTCAATCGATTGTTTCGTTGT
1 TTCAATCGATTGTTTCGTTGT
98589390 CAACTGCTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.32
21 9 0.47
22 4 0.21
ACGTcount: A:0.15, C:0.12, G:0.17, T:0.56
Consensus pattern (22 bp):
TTCAATCGATTGTTTCGTTGTT
Found at i:98591321 original size:28 final size:28
Alignment explanation
Indices: 98591284--98591340 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
98591274 TGGTCATATG
98591284 TATTTTTTTAACCATTTTAGATGATTAT
1 TATTTTTTTAACCATTTTAGATGATTAT
98591312 TATTTTTTTAACCATTTTAGATGATTAT
1 TATTTTTTTAACCATTTTAGATGATTAT
98591340 T
1 T
98591341 CTCTAAAGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.28, C:0.07, G:0.07, T:0.58
Consensus pattern (28 bp):
TATTTTTTTAACCATTTTAGATGATTAT
Found at i:98594332 original size:14 final size:15
Alignment explanation
Indices: 98594297--98594326 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
98594287 GAATCAAAAC
98594297 ATCTTAATCTTTATT
1 ATCTTAATCTTTATT
98594312 ATCTTAA-CTTTATT
1 ATCTTAATCTTTATT
98594326 A
1 A
98594327 ATTTAATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.30, C:0.13, G:0.00, T:0.57
Consensus pattern (15 bp):
ATCTTAATCTTTATT
Found at i:98597389 original size:21 final size:22
Alignment explanation
Indices: 98597332--98597389 Score: 52
Period size: 21 Copynumber: 2.7 Consensus size: 22
98597322 CATTCATATC
*
98597332 TCTCTTCTCTTTTGTCTTTCTA
1 TCTCTTCTTTTTTGTCTTTCTA
*
98597354 T-TCTT-TATTTCTGTCTCTT-T-
1 TCTCTTCT-TTTTTGTCT-TTCTA
98597374 TCTCTTCTTTTTTGTC
1 TCTCTTCTTTTTTGTC
98597390 ACCTTCTTCT
Statistics
Matches: 29, Mismatches: 3, Indels: 9
0.71 0.07 0.22
Matches are distributed among these distances:
20 2 0.07
21 23 0.79
22 4 0.14
ACGTcount: A:0.03, C:0.24, G:0.05, T:0.67
Consensus pattern (22 bp):
TCTCTTCTTTTTTGTCTTTCTA
Found at i:98599637 original size:5 final size:5
Alignment explanation
Indices: 98599627--98599664 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
98599617 AAGCACATAA
98599627 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TAT
98599665 TCCTTCATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:98604837 original size:25 final size:25
Alignment explanation
Indices: 98604803--98604853 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
98604793 CCCAGGAAAG
98604803 GCTAATGTAGTTGCAGATGCACTTA
1 GCTAATGTAGTTGCAGATGCACTTA
*
98604828 GCTAATGTAGTTGCGGATGCACTTA
1 GCTAATGTAGTTGCAGATGCACTTA
98604853 G
1 G
98604854 TCGAAAGTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.31
Consensus pattern (25 bp):
GCTAATGTAGTTGCAGATGCACTTA
Found at i:98606863 original size:5 final size:5
Alignment explanation
Indices: 98606853--98606879 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
98606843 ACATAAGTAG
98606853 AAAAT AAAAT AAAAT AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AA
98606880 TTAAATTAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:98607931 original size:21 final size:21
Alignment explanation
Indices: 98607865--98607976 Score: 98
Period size: 21 Copynumber: 5.3 Consensus size: 21
98607855 TCTCACGAGC
* *
98607865 TTCTGTTTAACTCATATGAGT
1 TTCTGTTCAACTCTTATGAGT
* * * *
98607886 TTCCGTTCAGCTCTTTTGAGC
1 TTCTGTTCAACTCTTATGAGT
* *
98607907 TTCTGTTTAACCCTTATGAGT
1 TTCTGTTCAACTCTTATGAGT
** * *
98607928 TTCTACTCAGCTCTTATGAGC
1 TTCTGTTCAACTCTTATGAGT
* *
98607949 TTCTGTTCAACCCTTATGGGT
1 TTCTGTTCAACTCTTATGAGT
98607970 TTCTGTT
1 TTCTGTT
98607977 TAGTTTTCAT
Statistics
Matches: 67, Mismatches: 24, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 67 1.00
ACGTcount: A:0.16, C:0.22, G:0.16, T:0.46
Consensus pattern (21 bp):
TTCTGTTCAACTCTTATGAGT
Found at i:98607973 original size:42 final size:42
Alignment explanation
Indices: 98607852--98607999 Score: 145
Period size: 42 Copynumber: 3.5 Consensus size: 42
98607842 CTTTCCATTT
* * * * * ***
98607852 AGCTCTCACGAGCTTCTGTTTAACTCATATGAGTTTCCGTTC
1 AGCTCTTATGAGCTTCTGTTCAACCCTTATGAGTTTCTACTC
* *
98607894 AGCTCTTTTGAGCTTCTGTTTAACCCTTATGAGTTTCTACTC
1 AGCTCTTATGAGCTTCTGTTCAACCCTTATGAGTTTCTACTC
* ** *
98607936 AGCTCTTATGAGCTTCTGTTCAACCCTTATGGGTTTCTGTTT
1 AGCTCTTATGAGCTTCTGTTCAACCCTTATGAGTTTCTACTC
*
98607978 AG-TTTTCATGAGCTTCTGTTCA
1 AGCTCTT-ATGAGCTTCTGTTCA
98608000 GCCTTCGGGC
Statistics
Matches: 90, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
41 3 0.03
42 87 0.97
ACGTcount: A:0.17, C:0.23, G:0.17, T:0.43
Consensus pattern (42 bp):
AGCTCTTATGAGCTTCTGTTCAACCCTTATGAGTTTCTACTC
Found at i:98618005 original size:16 final size:15
Alignment explanation
Indices: 98617979--98618013 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
98617969 TGATGTGAAT
98617979 AATATAAAATATTAA
1 AATATAAAATATTAA
*
98617994 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
98618010 AATA
1 AATA
98618014 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:98618189 original size:20 final size:20
Alignment explanation
Indices: 98618132--98618191 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 20
98618122 AATACTACAT
98618132 AAATATGTACAT-ATATAAA
1 AAATATGTACATAATATAAA
** *
98618151 AAATAAATACGTGATAATATTAA
1 AAATATGTAC---ATAATATAAA
98618174 AAATATGTACATAATATA
1 AAATATGTACATAATATA
98618192 GTGTAAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 2 0.06
23 14 0.45
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.32
Consensus pattern (20 bp):
AAATATGTACATAATATAAA
Done.