Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 310 of 328
Found at i:92115201 original size:19 final size:19
Alignment explanation
Indices: 92115135--92115204 Score: 110
Period size: 18 Copynumber: 3.8 Consensus size: 19
92115125 ATAATCTTCA
*
92115135 ATGATATGCAATATTAGAT
1 ATGATATGCAATCTTAGAT
92115154 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
92115171 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
92115189 ATGATATGCAATCTTA
1 ATGATATGCAATCTTA
92115205 AAAGATATGA
Statistics
Matches: 47, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
17 15 0.32
18 16 0.34
19 16 0.34
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:92115232 original size:22 final size:22
Alignment explanation
Indices: 92115167--92115215 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 22
92115157 ATACAATCTT
92115167 AGATATGAT-TGCAATCTT---
1 AGATATGATATGCAATCTTAAA
92115185 AGATATGATATGCAATCTTAAA
1 AGATATGATATGCAATCTTAAA
92115207 AGATATGAT
1 AGATATGAT
92115216 TTTGTAATCT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 9 0.33
19 9 0.33
22 9 0.33
ACGTcount: A:0.41, C:0.08, G:0.16, T:0.35
Consensus pattern (22 bp):
AGATATGATATGCAATCTTAAA
Found at i:92117780 original size:29 final size:29
Alignment explanation
Indices: 92117747--92117805 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
92117737 TTACTTATTC
92117747 TTTCGAACCTATATTAATTACGTAATGAT
1 TTTCGAACCTATATTAATTACGTAATGAT
92117776 TTTCGAACCTATATTAATTACGTAATGAT
1 TTTCGAACCTATATTAATTACGTAATGAT
92117805 T
1 T
92117806 CGTAAAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.42
Consensus pattern (29 bp):
TTTCGAACCTATATTAATTACGTAATGAT
Found at i:92135930 original size:17 final size:17
Alignment explanation
Indices: 92135905--92135944 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
92135895 GTTATTGGAT
* *
92135905 TAATGATTTAATATATA
1 TAATTATTTAACATATA
92135922 TAATTATTTAACATATA
1 TAATTATTTAACATATA
92135939 TAATTA
1 TAATTA
92135945 ATATAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (17 bp):
TAATTATTTAACATATA
Found at i:92135946 original size:30 final size:31
Alignment explanation
Indices: 92135912--92135971 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
92135902 GATTAATGAT
92135912 TTAATATATATAATTATT-TAACAT-ATATAA
1 TTAATATA-ATAATTATTATAACATAATATAA
* *
92135942 TTAATATAATATTTTTTATAACATAATATA
1 TTAATATAATAATTATTATAACATAATATA
92135972 TTTGGGCTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 7 0.27
30 14 0.54
31 5 0.19
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (31 bp):
TTAATATAATAATTATTATAACATAATATAA
Found at i:92146185 original size:15 final size:15
Alignment explanation
Indices: 92146141--92146187 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
92146131 CACGTTAACT
92146141 TAAGTAACTAAAATA
1 TAAGTAACTAAAATA
* ** *
92146156 TAA-CATTTCAAATA
1 TAAGTAACTAAAATA
92146170 TAAGTAACTAAAATA
1 TAAGTAACTAAAATA
92146185 TAA
1 TAA
92146188 TCTGAGAGAG
Statistics
Matches: 23, Mismatches: 8, Indels: 2
0.70 0.24 0.06
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.57, C:0.09, G:0.04, T:0.30
Consensus pattern (15 bp):
TAAGTAACTAAAATA
Found at i:92146280 original size:7 final size:7
Alignment explanation
Indices: 92146268--92146300 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
92146258 AATCAACCAC
92146268 AAATTAG
1 AAATTAG
92146275 AAATTAG
1 AAATTAG
92146282 AAATTAG
1 AAATTAG
92146289 AAATTAG
1 AAATTAG
92146296 AAATT
1 AAATT
92146301 TTAAATAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.58, C:0.00, G:0.12, T:0.30
Consensus pattern (7 bp):
AAATTAG
Found at i:92146313 original size:21 final size:21
Alignment explanation
Indices: 92146268--92146313 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
92146258 AATCAACCAC
* *
92146268 AAATTAGAAATTAGAAATTAG
1 AAATTAGAAATTAGAAATAAA
**
92146289 AAATTAGAAATTTTAAATAAA
1 AAATTAGAAATTAGAAATAAA
92146310 AAAT
1 AAAT
92146314 AAGATTTAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (21 bp):
AAATTAGAAATTAGAAATAAA
Found at i:92153950 original size:22 final size:21
Alignment explanation
Indices: 92153924--92153969 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
92153914 ATTATTGAAA
*
92153924 TAAAACAT-TATTATCAAAGAAT
1 TAAAACATCCATTAT-AAA-AAT
92153946 TAAAACATCCATTATAAAAAT
1 TAAAACATCCATTATAAAAAT
92153967 TAA
1 TAA
92153970 TTACTAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 6 0.27
22 11 0.50
23 5 0.23
ACGTcount: A:0.57, C:0.11, G:0.02, T:0.30
Consensus pattern (21 bp):
TAAAACATCCATTATAAAAAT
Found at i:92154347 original size:28 final size:27
Alignment explanation
Indices: 92154294--92154353 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
92154284 GCAATGTTGA
* * *
92154294 TTTTTGTAGATTCACGTTGGAGTTTTT
1 TTTTTGTAAATTCACGGTGGAATTTTT
* *
92154321 TTTTTTTAAATTCACGGTGGAAATTTT
1 TTTTTGTAAATTCACGGTGGAATTTTT
92154348 TTTTTG
1 TTTTTG
92154354 AGATTTACTT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.18, C:0.07, G:0.18, T:0.57
Consensus pattern (27 bp):
TTTTTGTAAATTCACGGTGGAATTTTT
Found at i:92155182 original size:16 final size:16
Alignment explanation
Indices: 92155147--92155185 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
92155137 TGTGTTTGTT
* *
92155147 TATTTAAATTTATGTG
1 TATTTATATTTATGTA
*
92155163 TATTTATATTTATTTA
1 TATTTATATTTATGTA
92155179 TATTTAT
1 TATTTAT
92155186 TTGTTTAAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (16 bp):
TATTTATATTTATGTA
Found at i:92166681 original size:46 final size:45
Alignment explanation
Indices: 92166629--92166832 Score: 188
Period size: 46 Copynumber: 4.5 Consensus size: 45
92166619 GTCGATGCCG
* * *
92166629 TGTCCCAGACAGGTCTTACACTGA-CACATGTAACCGT-GCTGACGCA
1 TGTCCCAGACATGTCTTACACTGAGCACATCT---CGTAGCCGACGCA
*
92166675 TGTCCCATACATGTCTTACACT-AGCACATCTCGTAGCCGACGCA
1 TGTCCCAGACATGTCTTACACTGAGCACATCTCGTAGCCGACGCA
* *
92166719 TGTCCCAGACATGTCTGACACTG-GCTATCATCTCG-AGGCCGATGCA
1 TGTCCCAGACATGTCTTACACTGAGC-A-CATCTCGTA-GCCGACGCA
* * * *
92166765 TGTCCCAGACATGTCTTACACTG-GCTC-TCATACTGTGGCTGATGCA
1 TGTCCCAGACATGTCTTACACTGAGCACATC-T-C-GTAGCCGACGCA
92166811 TGTCCCAGACATGTCTTACACT
1 TGTCCCAGACATGTCTTACACT
92166833 AGCCCTCGTC
Statistics
Matches: 137, Mismatches: 11, Indels: 20
0.82 0.07 0.12
Matches are distributed among these distances:
43 5 0.04
44 32 0.23
45 4 0.03
46 96 0.70
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (45 bp):
TGTCCCAGACATGTCTTACACTGAGCACATCTCGTAGCCGACGCA
Found at i:92166832 original size:92 final size:91
Alignment explanation
Indices: 92166672--92166888 Score: 249
Period size: 92 Copynumber: 2.4 Consensus size: 91
92166662 CCGTGCTGAC
*
92166672 GCATGTCCCATACATGTCTTACACTAG-CACATCTCGTAGCCGACGCATGTCCCAGACATGTCTG
1 GCATGTCCCATACATGTCTTACACTGGCCACATCTCGTAGCCGACGCATGTCCCAGACATGTCTG
* * *
92166736 ACACTGGCTATCATCTCGAGGCCGAT
66 ACACTAGCCATCATCTCAAGGCCGAT
* * * * *
92166762 GCATGTCCCAGACATGTCTTACACTGGCTCTCATACT-GTGGCTGATGCATGTCCCAGACATGTC
1 GCATGTCCCATACATGTCTTACACTGGC-CACAT-CTCGTAGCCGACGCATGTCCCAGACATGTC
* * * *
92166826 TTACACTAGCCCTCGTCTCAATGCCGAT
64 TGACACTAGCCATCATCTCAAGGCCGAT
*
92166854 GCCATGTCTCATACATGGTCTTACACTGGCACACA
1 G-CATGTCCCATACAT-GTCTTACACTGGC-CACA
92166889 AATCTCATGT
Statistics
Matches: 105, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
90 25 0.24
92 50 0.48
93 14 0.13
94 16 0.15
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.26
Consensus pattern (91 bp):
GCATGTCCCATACATGTCTTACACTGGCCACATCTCGTAGCCGACGCATGTCCCAGACATGTCTG
ACACTAGCCATCATCTCAAGGCCGAT
Found at i:92166855 original size:46 final size:44
Alignment explanation
Indices: 92166672--92166880 Score: 181
Period size: 46 Copynumber: 4.6 Consensus size: 44
92166662 CCGTGCTGAC
* *
92166672 GCATGTCCCATACATGTCTTACACTAGCACATC-TCGTA-GCCGAC
1 GCATGTCCCAGACATGTCTTACACTAGC-CATCATC-TATGCCGAT
* * * *
92166716 GCATGTCCCAGACATGTCTGACACTGGCTATCATCTCGAGGCCGAT
1 GCATGTCCCAGACATGTCTTACACTAGCCATCATCT--ATGCCGAT
* * *
92166762 GCATGTCCCAGACATGTCTTACACTGGCTC-TCATACTGTGGCTGAT
1 GCATGTCCCAGACATGTCTTACACTAGC-CATCAT-CTAT-GCCGAT
* *
92166808 GCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTCAATGCCGAT
1 GCATGTCCCAGACATGTCTTACACTAGCCATCATCT--ATGCCGAT
* *
92166854 GCCATGTCTCATACATGGTCTTACACT
1 G-CATGTCCCAGACAT-GTCTTACACT
92166881 GGCACACAAA
Statistics
Matches: 137, Mismatches: 16, Indels: 20
0.79 0.09 0.12
Matches are distributed among these distances:
43 4 0.03
44 27 0.20
45 4 0.03
46 77 0.56
47 15 0.11
48 10 0.07
ACGTcount: A:0.22, C:0.32, G:0.19, T:0.27
Consensus pattern (44 bp):
GCATGTCCCAGACATGTCTTACACTAGCCATCATCTATGCCGAT
Found at i:92173200 original size:11 final size:11
Alignment explanation
Indices: 92173159--92173208 Score: 52
Period size: 11 Copynumber: 4.6 Consensus size: 11
92173149 AATTGACCAA
92173159 AACAAAACAAG
1 AACAAAACAAG
*
92173170 AAC-TAACATAG
1 AACAAAACA-AG
92173181 -ACAAAAACAAG
1 AAC-AAAACAAG
92173192 AACAAAACAA-
1 AACAAAACAAG
92173202 AACAAAA
1 AACAAAA
92173209 AATCACTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
10 13 0.39
11 14 0.42
12 6 0.18
ACGTcount: A:0.72, C:0.18, G:0.06, T:0.04
Consensus pattern (11 bp):
AACAAAACAAG
Found at i:92173206 original size:22 final size:21
Alignment explanation
Indices: 92173156--92173209 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
92173146 TTCAATTGAC
*
92173156 CAAAAC-AAAACAAGAACTAA
1 CAAAACAAAAACAAGAACAAA
*
92173176 CATAGACAAAAACAAGAACAAAA
1 CA-AAACAAAAACAAGAAC-AAA
92173199 CAAAACAAAAA
1 CAAAACAAAAA
92173210 ATCACTTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 2 0.07
21 3 0.11
22 19 0.68
23 4 0.14
ACGTcount: A:0.72, C:0.19, G:0.06, T:0.04
Consensus pattern (21 bp):
CAAAACAAAAACAAGAACAAA
Found at i:92183101 original size:10 final size:11
Alignment explanation
Indices: 92183078--92183102 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
92183068 TTAATATATA
92183078 TTTTTAGAATT
1 TTTTTAGAATT
92183089 TTTTTAGAATT
1 TTTTTAGAATT
92183100 TTT
1 TTT
92183103 GGATATTGTA
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:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (11 bp):
TTTTTAGAATT
Found at i:92185286 original size:29 final size:29
Alignment explanation
Indices: 92185237--92185299 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
92185227 TGATGCGGCG
* *
92185237 AATTTTCGACAAAAATAGTCTAAATTCCT
1 AATTTTCAACAAAAATAGTCTAAATCCCT
* *
92185266 AATTTTCAACAAACATTGTCTAAATCCCT
1 AATTTTCAACAAAAATAGTCTAAATCCCT
92185295 -ATTTT
1 AATTTT
92185300 GTTTTAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 5 0.17
29 25 0.83
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (29 bp):
AATTTTCAACAAAAATAGTCTAAATCCCT
Found at i:92190046 original size:27 final size:27
Alignment explanation
Indices: 92190012--92190065 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
92190002 AATATCCAAG
92190012 TTAGATTTTATTATATTTGATTTGTTA
1 TTAGATTTTATTATATTTGATTTGTTA
92190039 TTAGATTTTATTATATTTGATTTGTTA
1 TTAGATTTTATTATATTTGATTTGTTA
92190066 CTATCTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.63
Consensus pattern (27 bp):
TTAGATTTTATTATATTTGATTTGTTA
Found at i:92190854 original size:20 final size:20
Alignment explanation
Indices: 92190829--92190867 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
92190819 TAGAGCAGGA
*
92190829 ATATCGATACCTTAGGAAAT
1 ATATCGATACCTTAAGAAAT
92190849 ATATCGATACCTTAAGAAA
1 ATATCGATACCTTAAGAAA
92190868 AGGATTGATA
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:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (20 bp):
ATATCGATACCTTAAGAAAT
Found at i:92193506 original size:27 final size:27
Alignment explanation
Indices: 92193456--92193511 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
92193446 GAAGTAACGA
* *
92193456 TATTCTGAATTATTATTAAATTATGAT
1 TATTCTGAATTATGATTAAATTATAAT
*
92193483 TATTCTGAATTCTGA-TAAATTTATAAT
1 TATTCTGAATTATGATTAAA-TTATAAT
92193510 TA
1 TA
92193512 AGTATTTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 4 0.16
27 21 0.84
ACGTcount: A:0.38, C:0.05, G:0.07, T:0.50
Consensus pattern (27 bp):
TATTCTGAATTATGATTAAATTATAAT
Found at i:92193875 original size:44 final size:44
Alignment explanation
Indices: 92193812--92193947 Score: 254
Period size: 44 Copynumber: 3.1 Consensus size: 44
92193802 GGCATGGAAC
*
92193812 TTAGTTTACAGTATTTACTTAGGCATGCATGACATTTAAATTAT
1 TTAGTTTACGGTATTTACTTAGGCATGCATGACATTTAAATTAT
92193856 TTAGTTTACGGTATTTACTTAGGCATGCATGACATTTAAATTAT
1 TTAGTTTACGGTATTTACTTAGGCATGCATGACATTTAAATTAT
*
92193900 TTAGTTTACGGTATTTACTTAGGTATGCATGACATTTAAATTAT
1 TTAGTTTACGGTATTTACTTAGGCATGCATGACATTTAAATTAT
92193944 TTAG
1 TTAG
92193948 GATATAAGAA
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 90 1.00
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.44
Consensus pattern (44 bp):
TTAGTTTACGGTATTTACTTAGGCATGCATGACATTTAAATTAT
Found at i:92195318 original size:20 final size:20
Alignment explanation
Indices: 92195281--92195318 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
92195271 TGATGGGGAG
*
92195281 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
92195301 CAAGAA-ATCGAAGCTGGA
1 CAAGAATATC-AAGCTGGA
92195319 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:92197212 original size:46 final size:46
Alignment explanation
Indices: 92197160--92197437 Score: 450
Period size: 46 Copynumber: 6.0 Consensus size: 46
92197150 GTGTGCTCTC
*
92197160 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCA
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
*
92197206 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
*
92197252 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
*
92197298 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
92197344 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * * * * *
92197390 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCA
1 TGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
92197436 TG
1 TG
92197438 TCAAAAATAA
Statistics
Matches: 222, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
45 1 0.00
46 221 1.00
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.23
Consensus pattern (46 bp):
TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:92197674 original size:16 final size:16
Alignment explanation
Indices: 92197653--92197684 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
92197643 ATGATGGAGC
*
92197653 ATGAAATATTGATATA
1 ATGAAATAATGATATA
92197669 ATGAAATAATGATATA
1 ATGAAATAATGATATA
92197685 TGCTTATGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.12, T:0.34
Consensus pattern (16 bp):
ATGAAATAATGATATA
Found at i:92199855 original size:47 final size:47
Alignment explanation
Indices: 92199787--92200050 Score: 202
Period size: 47 Copynumber: 5.6 Consensus size: 47
92199777 GGTAAGGTGT
* *
92199787 CGATGCCATGTCCCAGGCATGGTCTTACACTGGCTCAT-ATCTCAAGT
1 CGATG-CATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAAGC
* ** * *
92199834 CGATGCCATGTCCCAGACATGGTCTTACATTAACT-ATCATCTCGTAGT
1 CGATG-CATGTCCCAGACATGGTCTTACACTGGCTCATCATCTC-AAGC
* * * * *
92199882 CGATGCATGTCCTAGGCAT-GTCTTACACTGGCTTA-CGTCTCGAGGC
1 CGATGCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTC-AAGC
* * * * *
92199928 CGATGCATGTTCCAGAC-TTGTCTTACAGTAGCTC-TCGTCTCAATGC
1 CGATGCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAA-GC
* * * ***
92199974 CGATGCCATGTCCCAGAAATGGTCTTACATTGGCTC-TCATAATGTGGC
1 CGATG-CATGTCCCAGACATGGTCTTACACTGGCTCATCAT-CTCAAGC
92200022 CGATGCATGTCCCAGACAT-GTCTTACACT
1 CGATGCATGTCCCAGACATGGTCTTACACT
92200051 AGCCCACAAA
Statistics
Matches: 175, Mismatches: 33, Indels: 19
0.77 0.15 0.08
Matches are distributed among these distances:
45 2 0.01
46 68 0.39
47 72 0.41
48 32 0.18
49 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.30
Consensus pattern (47 bp):
CGATGCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAAGC
Found at i:92200008 original size:94 final size:94
Alignment explanation
Indices: 92199787--92200053 Score: 258
Period size: 94 Copynumber: 2.9 Consensus size: 94
92199777 GGTAAGGTGT
* * * *
92199787 CGATGCCATGTCCCAGGCATGGTCTTACACTGGCTCATATCTC-AAGTCGATGCCATGTCCCAGA
1 CGATGCCATGTCCCAGGCATGGTCTTACACTGGCTTACATCTCGAGGCCGATG-CATGTCCCAGA
* * * * *
92199851 CATGGTCTTACATTAACTATCATCTCGTAGT
65 C-TTGTCTTACACTAGCTATCATCTCATAGC
* * *
92199882 CGATG-CATGTCCTAGGCAT-GTCTTACACTGGCTTACGTCTCGAGGCCGATGCATGTTCCAGAC
1 CGATGCCATGTCCCAGGCATGGTCTTACACTGGCTTACATCTCGAGGCCGATGCATGTCCCAGAC
* * *
92199945 TTGTCTTACAGTAGCTCTCGTCTCA-ATGC
66 TTGTCTTACACTAGCTATCATCTCATA-GC
** * * *
92199974 CGATGCCATGTCCCAGAAATGGTCTTACATTGGCTCT-CATAAT-GTGGCCGATGCATGTCCCAG
1 CGATGCCATGTCCCAGGCATGGTCTTACACTGGCT-TACAT-CTCGAGGCCGATGCATGTCCCAG
*
92200037 ACATGTCTTACACTAGC
64 ACTTGTCTTACACTAGC
92200054 CCACAAACAA
Statistics
Matches: 142, Mismatches: 24, Indels: 13
0.79 0.13 0.07
Matches are distributed among these distances:
91 1 0.01
92 25 0.18
93 41 0.29
94 68 0.48
95 7 0.05
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (94 bp):
CGATGCCATGTCCCAGGCATGGTCTTACACTGGCTTACATCTCGAGGCCGATGCATGTCCCAGAC
TTGTCTTACACTAGCTATCATCTCATAGC
Found at i:92202570 original size:2 final size:2
Alignment explanation
Indices: 92202563--92202587 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
92202553 ATATGTTTTA
92202563 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
92202588 AAATTCATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:92202811 original size:24 final size:24
Alignment explanation
Indices: 92202767--92202812 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
92202757 TTAATCTTAA
*
92202767 AATTTAATAAAATAATAAAAATAT
1 AATTTAATAAAAAAATAAAAATAT
*
92202791 AATTT-ATAGAAAAAATTAAAAT
1 AATTTAATA-AAAAAATAAAAAT
92202813 GTGAACATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 3 0.16
24 16 0.84
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (24 bp):
AATTTAATAAAAAAATAAAAATAT
Found at i:92203420 original size:12 final size:13
Alignment explanation
Indices: 92203396--92203424 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
92203386 CTTTGGGCCT
92203396 AAAAATCAGTAGA
1 AAAAATCAGTAGA
92203409 AAAAATCA-TAGA
1 AAAAATCAGTAGA
92203421 AAAA
1 AAAA
92203425 TAGAATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.69, C:0.07, G:0.10, T:0.14
Consensus pattern (13 bp):
AAAAATCAGTAGA
Found at i:92203755 original size:2 final size:2
Alignment explanation
Indices: 92203748--92203795 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
92203738 TTTAAGGTTT
92203748 TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA
92203790 TA TA TA
1 TA TA TA
92203796 GTGTATTGAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:92204281 original size:11 final size:11
Alignment explanation
Indices: 92204265--92204304 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
92204255 TATTTACCTG
92204265 AAAAATAAGAT
1 AAAAATAAGAT
*
92204276 AAAAATAACA-
1 AAAAATAAGAT
*
92204286 AAAGATAAGAT
1 AAAAATAAGAT
92204297 AAAAATAA
1 AAAAATAA
92204305 CCAAAATATA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
10 8 0.33
11 16 0.67
ACGTcount: A:0.75, C:0.03, G:0.07, T:0.15
Consensus pattern (11 bp):
AAAAATAAGAT
Found at i:92204322 original size:22 final size:21
Alignment explanation
Indices: 92204265--92204315 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 21
92204255 TATTTACCTG
92204265 AAAA-ATAAGATAAAAATAAC
1 AAAAGATAAGATAAAAATAAC
92204285 AAAAGATAAGATAAAAATAACC
1 AAAAGATAAGATAAAAATAA-C
*
92204307 AAAATATAA
1 AAAAGATAA
92204316 CTCAAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
20 4 0.14
21 15 0.54
22 9 0.32
ACGTcount: A:0.73, C:0.06, G:0.06, T:0.16
Consensus pattern (21 bp):
AAAAGATAAGATAAAAATAAC
Found at i:92204602 original size:12 final size:13
Alignment explanation
Indices: 92204570--92204600 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
92204560 AGTGTTTATA
92204570 TAAAAAAT-ATTT
1 TAAAAAATAATTT
92204582 TAAAAAATAATTT
1 TAAAAAATAATTT
92204595 TAAAAA
1 TAAAAA
92204601 TACTGTAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 8 0.44
13 10 0.56
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
TAAAAAATAATTT
Found at i:92209208 original size:3 final size:3
Alignment explanation
Indices: 92209200--92209232 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
92209190 ATATTTAATT
92209200 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
92209233 ATGCTTCTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:92211410 original size:15 final size:15
Alignment explanation
Indices: 92211390--92211420 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
92211380 TGAATTAATT
92211390 GTTTACAATAAAGAG
1 GTTTACAATAAAGAG
92211405 GTTTACAATAAAGAG
1 GTTTACAATAAAGAG
92211420 G
1 G
92211421 CCTTTATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.06, G:0.23, T:0.26
Consensus pattern (15 bp):
GTTTACAATAAAGAG
Found at i:92214279 original size:71 final size:71
Alignment explanation
Indices: 92214191--92214354 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
92214181 GAGATGTATC
92214191 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
92214256 AGGACA
66 AGGACA
*
92214262 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
92214327 CGGACA
66 AGGACA
92214333 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
92214355 AGACAAATCG
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:92221827 original size:71 final size:71
Alignment explanation
Indices: 92221739--92221902 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
92221729 GAGATGTATC
92221739 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
92221804 AGGACA
66 AGGACA
*
92221810 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
92221875 CGGACA
66 AGGACA
92221881 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
92221903 AGACAAATCG
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:92223508 original size:37 final size:38
Alignment explanation
Indices: 92223464--92223539 Score: 120
Period size: 38 Copynumber: 2.0 Consensus size: 38
92223454 TGAATCAAAG
92223464 TTAATTGGT-TCATGTAA-CAAAAAAAAAAAAGAGTTAA
1 TTAATTGGTCT-ATGTAACCAAAAAAAAAAAAGAGTTAA
*
92223501 TTAATTGGTCTATGTAACCAAAAAGAAAAAAGAGTTAA
1 TTAATTGGTCTATGTAACCAAAAAAAAAAAAGAGTTAA
92223539 T
1 T
92223540 GGTTTCAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
37 15 0.42
38 21 0.58
ACGTcount: A:0.51, C:0.07, G:0.14, T:0.28
Consensus pattern (38 bp):
TTAATTGGTCTATGTAACCAAAAAAAAAAAAGAGTTAA
Found at i:92226034 original size:39 final size:41
Alignment explanation
Indices: 92225944--92226034 Score: 96
Period size: 39 Copynumber: 2.2 Consensus size: 41
92225934 TCACACATTA
** *
92225944 AAAATATATATATTAAAAAAACACTACCATAAATATGATAAAT
1 AAAATAT-TATATTAAAAAAACAC-AAAATAAATATAATAAAT
** *
92225987 AATTTATTATATT-AAAAAACA-AAAATAAATATAATAGAT
1 AAAATATTATATTAAAAAAACACAAAATAAATATAATAAAT
92226026 AAAATATTA
1 AAAATATTA
92226035 AAAAAATTAA
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
39 21 0.52
41 8 0.20
42 6 0.15
43 5 0.12
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.31
Consensus pattern (41 bp):
AAAATATTATATTAAAAAAACACAAAATAAATATAATAAAT
Found at i:92226195 original size:16 final size:17
Alignment explanation
Indices: 92226176--92226207 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
92226166 CATATATAAT
92226176 TAATATAATAT-TTTTA
1 TAATATAATATATTTTA
92226192 TAATATAATATATTTT
1 TAATATAATATATTTT
92226208 GGGCAGGGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TAATATAATATATTTTA
Found at i:92226779 original size:21 final size:20
Alignment explanation
Indices: 92226750--92226788 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
92226740 TTATATATTC
92226750 TTTACAATTTTTTTAAAAAAT
1 TTTACAA-TTTTTTAAAAAAT
*
92226771 TTTATAATTTTTTAAAAA
1 TTTACAATTTTTTAAAAA
92226789 TATAAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTACAATTTTTTAAAAAAT
Found at i:92227041 original size:14 final size:14
Alignment explanation
Indices: 92227022--92227049 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
92227012 CTGACTTGAA
92227022 TAATTCGATTAACT
1 TAATTCGATTAACT
92227036 TAATTCGATTAACT
1 TAATTCGATTAACT
92227050 CGAAATTCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (14 bp):
TAATTCGATTAACT
Found at i:92229305 original size:25 final size:26
Alignment explanation
Indices: 92229265--92229319 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 26
92229255 TACGGTAAAC
92229265 ACATAGAAAAAAAAATATCAACGAGA
1 ACATAGAAAAAAAAATATCAACGAGA
92229291 ACATA-AAAAAAAAATATCAACGAGA
1 ACATAGAAAAAAAAATATCAACGAGA
92229316 ACAT
1 ACAT
92229320 CATTTTAGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 24 0.83
26 5 0.17
ACGTcount: A:0.65, C:0.13, G:0.09, T:0.13
Consensus pattern (26 bp):
ACATAGAAAAAAAAATATCAACGAGA
Found at i:92232935 original size:16 final size:18
Alignment explanation
Indices: 92232901--92232937 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
92232891 CGATTTAATT
92232901 TAAAATATAAAATTATTA
1 TAAAATATAAAATTATTA
*
92232919 TAAAATA-ATAATT-TTA
1 TAAAATATAAAATTATTA
92232935 TAA
1 TAA
92232938 TATTAACCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 6 0.33
17 5 0.28
18 7 0.39
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
TAAAATATAAAATTATTA
Found at i:92237906 original size:14 final size:14
Alignment explanation
Indices: 92237887--92237914 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
92237877 GTGCATGGAA
92237887 AATGATTCATCTAC
1 AATGATTCATCTAC
92237901 AATGATTCATCTAC
1 AATGATTCATCTAC
92237915 TAAGGTAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.21, G:0.07, T:0.36
Consensus pattern (14 bp):
AATGATTCATCTAC
Found at i:92240627 original size:3 final size:3
Alignment explanation
Indices: 92240619--92240667 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
92240609 TTTTGTTGCA
92240619 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
92240667 A
1 A
92240668 GAGTTTCAGT
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:92243692 original size:24 final size:24
Alignment explanation
Indices: 92243664--92243711 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
92243654 TAAAAGATTG
* *
92243664 AGTATTTATTAGTATAATATATTT
1 AGTATTCATTAGCATAATATATTT
*
92243688 AGTATTCATTAGCATAATTTATTT
1 AGTATTCATTAGCATAATATATTT
92243712 GACCTACGGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.52
Consensus pattern (24 bp):
AGTATTCATTAGCATAATATATTT
Found at i:92251884 original size:2 final size:2
Alignment explanation
Indices: 92251877--92251905 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
92251867 AGTTTCATGG
92251877 AT 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 AT A
92251906 ATAATAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:92252352 original size:20 final size:21
Alignment explanation
Indices: 92252327--92252372 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
92252317 AAAGAGCAGC
92252327 CCACC-GGAGAAG-CCCATTGA
1 CCACCGGGA-AAGCCCCATTGA
*
92252347 CCACCGGGAAAGCCCCTTTGA
1 CCACCGGGAAAGCCCCATTGA
92252368 CCACC
1 CCACC
92252373 ACTTTAACGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.26, C:0.41, G:0.22, T:0.11
Consensus pattern (21 bp):
CCACCGGGAAAGCCCCATTGA
Found at i:92260116 original size:6 final size:6
Alignment explanation
Indices: 92260105--92260131 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
92260095 TTTTACATCA
92260105 ATAAAT ATAAAT ATAAAT ATAAAT ATA
1 ATAAAT ATAAAT ATAAAT ATAAAT ATA
92260132 TATTATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
ATAAAT
Found at i:92265692 original size:3 final size:3
Alignment explanation
Indices: 92265684--92265712 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
92265674 TTTTCAATCT
92265684 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
92265713 CAAGCAGCAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:92270671 original size:20 final size:19
Alignment explanation
Indices: 92270622--92270671 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
92270612 AAAAAATTAT
92270622 AAAA-ATAAAAA-TCAATA
1 AAAATATAAAAATTCAATA
* *
92270639 AAAATTATTAAATTTCAATA
1 AAAA-TATAAAAATTCAATA
92270659 AAAATATAAAAAT
1 AAAATATAAAAAT
92270672 ATTTAAAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 4 0.15
19 12 0.46
20 10 0.38
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (19 bp):
AAAATATAAAAATTCAATA
Found at i:92270680 original size:29 final size:28
Alignment explanation
Indices: 92270625--92270703 Score: 81
Period size: 29 Copynumber: 2.7 Consensus size: 28
92270615 AAATTATAAA
92270625 AATAAAAATCAATAAAAAT-TATTAAATTT
1 AATAAAAAT--ATAAAAATATATTAAATTT
92270654 CAATAAAAATATAAAAATAT-TTAAAATTT
1 -AATAAAAATATAAAAATATATT-AAATTT
* *
92270683 ACTAAAAAATAGAAAAATATA
1 AAT-AAAAATATAAAAATATA
92270704 AAAATCATAA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
28 12 0.28
29 22 0.51
30 9 0.21
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.30
Consensus pattern (28 bp):
AATAAAAATATAAAAATATATTAAATTT
Found at i:92274477 original size:22 final size:22
Alignment explanation
Indices: 92274452--92274494 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
92274442 ACAAATTGAT
*
92274452 ATTAGTGAGTCAAAAGTAAAAC
1 ATTAGTGAGTCAAAAATAAAAC
*
92274474 ATTAGTGATTCAAAAATAAAA
1 ATTAGTGAGTCAAAAATAAAA
92274495 AATCAGTAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.53, C:0.07, G:0.14, T:0.26
Consensus pattern (22 bp):
ATTAGTGAGTCAAAAATAAAAC
Found at i:92274897 original size:7 final size:7
Alignment explanation
Indices: 92274887--92274920 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
92274877 CTTAAAACAT
92274887 AAAAATA
1 AAAAATA
92274894 AAAAATA
1 AAAAATA
*
92274901 GAAAATA
1 AAAAATA
92274908 AAAAATA
1 AAAAATA
92274915 AAAAAT
1 AAAAAT
92274921 CTGAGTTGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (7 bp):
AAAAATA
Found at i:92274905 original size:14 final size:13
Alignment explanation
Indices: 92274879--92274918 Score: 62
Period size: 14 Copynumber: 3.0 Consensus size: 13
92274869 ATTTCATGCT
*
92274879 TAAAACATAAAAA
1 TAAAAAATAAAAA
92274892 TAAAAAATAGAAAA
1 TAAAAAATA-AAAA
92274906 TAAAAAATAAAAA
1 TAAAAAATAAAAA
92274919 ATCTGAGTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 12 0.48
14 13 0.52
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.15
Consensus pattern (13 bp):
TAAAAAATAAAAA
Found at i:92275097 original size:19 final size:20
Alignment explanation
Indices: 92275062--92275105 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
92275052 TGGAAAATGA
92275062 TTTCTAGAAAATAATTTACT
1 TTTCTAGAAAATAATTTACT
*
92275082 TTTCTAG-AAATGATTTACT
1 TTTCTAGAAAATAATTTACT
92275101 TTTCT
1 TTTCT
92275106 GGTGTTTAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.32, C:0.11, G:0.07, T:0.50
Consensus pattern (20 bp):
TTTCTAGAAAATAATTTACT
Found at i:92281388 original size:30 final size:30
Alignment explanation
Indices: 92281307--92281392 Score: 100
Period size: 36 Copynumber: 2.7 Consensus size: 30
92281297 TAAAATATCA
92281307 ATAATATCGATAGGTTGATATTTATGGTTG
1 ATAATATCGATAGGTTGATATTTATGGTTG
* *
92281337 ATAAAAAAATGAACTATAGGTTGATATTTATGGTTG
1 AT-----AAT-ATCGATAGGTTGATATTTATGGTTG
92281373 ATAATATCGATAGGTTGATA
1 ATAATATCGATAGGTTGATA
92281393 AAATGAACGA
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
30 15 0.33
31 3 0.07
35 3 0.07
36 25 0.54
ACGTcount: A:0.37, C:0.03, G:0.21, T:0.38
Consensus pattern (30 bp):
ATAATATCGATAGGTTGATATTTATGGTTG
Found at i:92285951 original size:23 final size:23
Alignment explanation
Indices: 92285924--92285982 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
92285914 ACTTAATAGT
*
92285924 AATCATATAACCAGAATGACACA
1 AATCATATAACCAGAACGACACA
* *
92285947 GATCACATAACCAGAACGACACA
1 AATCATATAACCAGAACGACACA
*
92285970 AATCGTATAACCA
1 AATCATATAACCA
92285983 AAAGAGAACA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.49, C:0.25, G:0.10, T:0.15
Consensus pattern (23 bp):
AATCATATAACCAGAACGACACA
Found at i:92287964 original size:12 final size:12
Alignment explanation
Indices: 92287941--92287975 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
92287931 ACAGACCTAT
92287941 AAAAAAGAAAAAG
1 AAAAAAG-AAAAG
92287954 AAAAAAGAAAAG
1 AAAAAAGAAAAG
*
92287966 AAAAAGGAAA
1 AAAAAAGAAA
92287976 GAGGAGGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 14 0.67
13 7 0.33
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (12 bp):
AAAAAAGAAAAG
Found at i:92289044 original size:6 final size:6
Alignment explanation
Indices: 92289033--92289078 Score: 65
Period size: 6 Copynumber: 7.7 Consensus size: 6
92289023 AAAATTCAAT
* * *
92289033 AAAATA AAAATA AAAATA AAAATA AAAATA TAAATA TAAACA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAA
92289079 ATTCAAAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:92290554 original size:26 final size:26
Alignment explanation
Indices: 92290517--92290600 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
92290507 TGATACAAAT
* *
92290517 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
92290543 TGATAATGGGTTAGGTAAATATTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
92290569 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
92290595 TGATAA
1 TGATAA
92290601 GAATTTCATG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:92297250 original size:2 final size:2
Alignment explanation
Indices: 92297243--92297277 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
92297233 TTTAGTTGAG
92297243 AT AT AT AT 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 AT AT AT AT A
92297278 GGTAATGAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:92299155 original size:26 final size:27
Alignment explanation
Indices: 92299107--92299161 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
92299097 CTTAATATTT
* *
92299107 AAGTAAATATATATAATATAATAA-TA
1 AAGTAAATATATATAAAAAAATAAGTA
92299133 AAGTAAATATA-ATAAAACAAATAAGTA
1 AAGTAAATATATATAAAA-AAATAAGTA
92299160 AA
1 AA
92299162 TGAAATAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 5 0.20
26 16 0.64
27 4 0.16
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.27
Consensus pattern (27 bp):
AAGTAAATATATATAAAAAAATAAGTA
Found at i:92299908 original size:5 final size:5
Alignment explanation
Indices: 92299880--92299931 Score: 70
Period size: 5 Copynumber: 10.4 Consensus size: 5
92299870 CACTTTGATT
* *
92299880 ATTGA ATTGA TTTAA AGTTG- ATTGA ATTGA ATTGA ATTGA ATTGA ATTGA
1 ATTGA ATTGA ATTGA A-TTGA ATTGA ATTGA ATTGA ATTGA ATTGA ATTGA
92299930 AT
1 AT
92299932 ATATGTGTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
4 3 0.07
5 36 0.88
6 2 0.05
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.42
Consensus pattern (5 bp):
ATTGA
Found at i:92302192 original size:2 final size:2
Alignment explanation
Indices: 92302185--92302211 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
92302175 GTGCTTAAAA
92302185 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
92302212 AGTTGGATCT
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:92303806 original size:18 final size:18
Alignment explanation
Indices: 92303773--92303807 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
92303763 AAAAATGGAT
92303773 TTTTATTTTTTCTTTTCC
1 TTTTATTTTTTCTTTTCC
92303791 TTTT-TTTTTTCATTTTC
1 TTTTATTTTTTC-TTTTC
92303808 GGATATAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTATTTTTTCTTTTCC
Found at i:92308755 original size:93 final size:93
Alignment explanation
Indices: 92308648--92308819 Score: 326
Period size: 93 Copynumber: 1.8 Consensus size: 93
92308638 GCCCATAAGT
* *
92308648 GAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
92308713 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
92308741 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
92308806 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
92308820 CAAATATCCC
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 77 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:92308815 original size:46 final size:46
Alignment explanation
Indices: 92308640--92308815 Score: 241
Period size: 46 Copynumber: 3.8 Consensus size: 46
92308630 TGTAACCCGC
* *
92308640 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
92308686 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
92308736 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
92308779 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
92308816 TGCCCAAATA
Statistics
Matches: 113, Mismatches: 10, Indels: 14
0.82 0.07 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 69 0.61
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:92312358 original size:20 final size:21
Alignment explanation
Indices: 92312333--92312375 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
92312323 TGATGTCTCC
92312333 TTTGCATTCATA-CATT-TGCA
1 TTTGCA-TCATATCATTATGCA
92312353 TTTGCATCATATCATTATGCA
1 TTTGCATCATATCATTATGCA
92312374 TT
1 TT
92312376 AAAGGCCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.24
20 10 0.48
21 6 0.29
ACGTcount: A:0.26, C:0.19, G:0.09, T:0.47
Consensus pattern (21 bp):
TTTGCATCATATCATTATGCA
Found at i:92319741 original size:6 final size:6
Alignment explanation
Indices: 92319734--92319799 Score: 105
Period size: 6 Copynumber: 11.0 Consensus size: 6
92319724 ATAATAATAA
* * *
92319734 AAGAAA AAGAAA AAGAAG AAAAAG AAGAAG AAGAAG AAGAAG AAGAAG
1 AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG
92319782 AAGAAG AAGAAG AAGAAG
1 AAGAAG AAGAAG AAGAAG
92319800 GAGAGGCCAA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 57 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (6 bp):
AAGAAG
Found at i:92319754 original size:9 final size:9
Alignment explanation
Indices: 92319734--92319799 Score: 105
Period size: 9 Copynumber: 7.3 Consensus size: 9
92319724 ATAATAATAA
*
92319734 AAGAAAAAG
1 AAGAAGAAG
*
92319743 AAAAAGAAG
1 AAGAAGAAG
*
92319752 AAAAAGAAG
1 AAGAAGAAG
92319761 AAGAAGAAG
1 AAGAAGAAG
92319770 AAGAAGAAG
1 AAGAAGAAG
92319779 AAGAAGAAG
1 AAGAAGAAG
92319788 AAGAAGAAG
1 AAGAAGAAG
92319797 AAG
1 AAG
92319800 GAGAGGCCAA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 54 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (9 bp):
AAGAAGAAG
Found at i:92319799 original size:15 final size:15
Alignment explanation
Indices: 92319734--92319799 Score: 105
Period size: 15 Copynumber: 4.4 Consensus size: 15
92319724 ATAATAATAA
* *
92319734 AAGAAAAAGAAAAAG
1 AAGAAGAAGAAGAAG
*
92319749 AAGAAAAAGAAGAAG
1 AAGAAGAAGAAGAAG
92319764 AAGAAGAAGAAGAAG
1 AAGAAGAAGAAGAAG
92319779 AAGAAGAAGAAGAAG
1 AAGAAGAAGAAGAAG
92319794 AAGAAG
1 AAGAAG
92319800 GAGAGGCCAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 49 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (15 bp):
AAGAAGAAGAAGAAG
Found at i:92320671 original size:44 final size:44
Alignment explanation
Indices: 92320607--92320748 Score: 239
Period size: 44 Copynumber: 3.2 Consensus size: 44
92320597 GCTAAATCTT
* *
92320607 ACAGATTTGGCGTCTCTGTATTGGTGGAGAGCAGATCAAAGATA
1 ACAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATA
*
92320651 ACAGATTTGGCGTCTTTGTATTGGCGGAGAGCAGATCGAAGATA
1 ACAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATA
*
92320695 GCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATA
1 ACAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATA
*
92320739 GCAGATTTGG
1 ACAGATTTGG
92320749 TGTTCCTGAG
Statistics
Matches: 93, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 93 1.00
ACGTcount: A:0.27, C:0.14, G:0.32, T:0.27
Consensus pattern (44 bp):
ACAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATA
Found at i:92321469 original size:18 final size:18
Alignment explanation
Indices: 92321436--92321470 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
92321426 AAAAATGGAT
92321436 TTTTATTTTTTCTTTTCC
1 TTTTATTTTTTCTTTTCC
92321454 TTTT-TTTTTTCATTTTC
1 TTTTATTTTTTC-TTTTC
92321471 GGATATAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTATTTTTTCTTTTCC
Found at i:92323801 original size:131 final size:132
Alignment explanation
Indices: 92323590--92323835 Score: 282
Period size: 131 Copynumber: 1.9 Consensus size: 132
92323580 GATACTTGGT
* * ** ** *
92323590 AATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTCGTTTGCTCAAAGTAATCGAAGG
1 AATTCGCGGAATCATGCCCTAACGAGCCGGGTTGCAATTTCTCGTTTGCTCAAAACAATCGAAGA
*
92323655 TCCCTTTAGAATTTCACCCGTGTCTT-CTAAAAATCCTTT-AAAACGAAGGCAATATTCGGTGTT
66 TCCCTTTAGAATTTCACCCATGT-TTACTAAAAA-CCTTTCAAAACGAAGGCAATATTCGGTGTT
92323718 TAAC
129 TAAC
* ** * *
92323722 AATTCG-GGAATCATGCCCTATCGAGCCGGGTTGTGATTTCTCGTTTGCTCAAAACAATCTAATA
1 AATTCGCGGAATCATGCCCTAACGAGCCGGGTTGCAATTTCTCGTTTGCTCAAAACAATCGAAGA
* ** ** *
92323786 TTCCTTTAGGTTTTCATTCATGTTTATTAAAAACCTTTCAAAACGAAGGC
66 TCCCTTTAGAATTTCACCCATGTTTACTAAAAACCTTTCAAAACGAAGGC
92323836 GATGTCCGAT
Statistics
Matches: 93, Mismatches: 19, Indels: 5
0.79 0.16 0.04
Matches are distributed among these distances:
130 7 0.08
131 80 0.86
132 6 0.06
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (132 bp):
AATTCGCGGAATCATGCCCTAACGAGCCGGGTTGCAATTTCTCGTTTGCTCAAAACAATCGAAGA
TCCCTTTAGAATTTCACCCATGTTTACTAAAAACCTTTCAAAACGAAGGCAATATTCGGTGTTTA
AC
Found at i:92329732 original size:2 final size:2
Alignment explanation
Indices: 92329725--92329761 Score: 56
Period size: 2 Copynumber: 18.0 Consensus size: 2
92329715 TAGATATCAC
*
92329725 TA TA TA TA TA TA TA TA TA TA TA TA TC TA CTA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
92329762 ACATGTTCTA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 30 0.94
3 2 0.06
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:92337479 original size:3 final size:3
Alignment explanation
Indices: 92337471--92337505 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
92337461 ACCTGCCTAT
92337471 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
92337506 GATGATCCCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:92339734 original size:21 final size:22
Alignment explanation
Indices: 92339708--92339748 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
92339698 TAAGTGGACA
*
92339708 GATTTTATAAT-TTTTATTTTT
1 GATTTTATAATAATTTATTTTT
*
92339729 GATTTTTTAATAATTTATTT
1 GATTTTATAATAATTTATTT
92339749 GCTTTGAACC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (22 bp):
GATTTTATAATAATTTATTTTT
Found at i:92339959 original size:6 final size:7
Alignment explanation
Indices: 92339944--92339968 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
92339934 TTTAACATCA
92339944 TTTTATT
1 TTTTATT
92339951 TTTTATT
1 TTTTATT
92339958 TTTTATT
1 TTTTATT
92339965 TTTT
1 TTTT
92339969 TGAATTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTATT
Found at i:92342654 original size:18 final size:17
Alignment explanation
Indices: 92342631--92342664 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
92342621 ATAACTTTTA
92342631 AAAGTAAAAACTAAAAAC
1 AAAGT-AAAACTAAAAAC
*
92342649 AAAGTAATACTAAAAA
1 AAAGTAAAACTAAAAA
92342665 AATCAACAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.71, C:0.09, G:0.06, T:0.15
Consensus pattern (17 bp):
AAAGTAAAACTAAAAAC
Found at i:92352142 original size:72 final size:72
Alignment explanation
Indices: 92352025--92352172 Score: 278
Period size: 72 Copynumber: 2.1 Consensus size: 72
92352015 AAAACAAAAG
92352025 AAATCACTTCAGTAACATTTAACTTGTTGAAACATGATCTAAGAGCAAGCACCATAAATATGAGA
1 AAATCACTTCAGTAACATTTAACTTGTTGAAACATGATCTAAGAGCAAGCACCATAAATATGAGA
92352090 AACATGA
66 AACATGA
*
92352097 AAATCACTTCAGTAACATTTAACTTGTTGAAACATGATCTAAGAGCAAGCACCATATATATGAGA
1 AAATCACTTCAGTAACATTTAACTTGTTGAAACATGATCTAAGAGCAAGCACCATAAATATGAGA
*
92352162 AATATGA
66 AACATGA
92352169 AAAT
1 AAAT
92352173 ATATAGCCTA
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 74 1.00
ACGTcount: A:0.45, C:0.16, G:0.14, T:0.26
Consensus pattern (72 bp):
AAATCACTTCAGTAACATTTAACTTGTTGAAACATGATCTAAGAGCAAGCACCATAAATATGAGA
AACATGA
Found at i:92355105 original size:10 final size:10
Alignment explanation
Indices: 92355090--92355119 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
92355080 GTCTTTTATA
92355090 ATTTTTATTT
1 ATTTTTATTT
92355100 ATTTTTATTT
1 ATTTTTATTT
*
92355110 ATTATTATTT
1 ATTTTTATTT
92355120 TTTACCACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (10 bp):
ATTTTTATTT
Found at i:92355252 original size:10 final size:10
Alignment explanation
Indices: 92355239--92355376 Score: 57
Period size: 9 Copynumber: 14.7 Consensus size: 10
92355229 TTTTTGATGC
92355239 ATTTTATAAT
1 ATTTTATAAT
92355249 A-TTTATAAT
1 ATTTTATAAT
* * *
92355258 TTTTTACATT
1 ATTTTATAAT
*
92355268 TTTTTAT-AT
1 ATTTTATAAT
* *
92355277 TTTTGTATGAT
1 ATTT-TATAAT
*
92355288 TTTTTAT-AT
1 ATTTTATAAT
92355297 -TTTTATAAT
1 ATTTTATAAT
92355306 -TTTTAGTAA-
1 ATTTTA-TAAT
92355315 ATTTTA-AAT
1 ATTTTATAAT
*
92355324 ATTTT-TTAT
1 ATTTTATAAT
*
92355333 ATTTT-TTAT
1 ATTTTATAAT
*
92355342 ATTTT-TATT
1 ATTTTATAAT
**
92355351 GAAGTT-TAAT
1 -ATTTTATAAT
92355361 ATTTTATAA-
1 ATTTTATAAT
92355370 ATTTTAT
1 ATTTTAT
92355377 TTTTTTATTT
Statistics
Matches: 105, Mismatches: 13, Indels: 21
0.76 0.09 0.15
Matches are distributed among these distances:
8 8 0.08
9 55 0.52
10 36 0.34
11 6 0.06
ACGTcount: A:0.30, C:0.01, G:0.04, T:0.65
Consensus pattern (10 bp):
ATTTTATAAT
Found at i:92355268 original size:9 final size:9
Alignment explanation
Indices: 92355240--92355347 Score: 92
Period size: 9 Copynumber: 11.3 Consensus size: 9
92355230 TTTTGATGCA
*
92355240 TTTTATAAT
1 TTTTATATT
*
92355249 ATTTATAATT
1 TTTTAT-ATT
*
92355259 TTTTACATTT
1 TTTTATA-TT
92355269 TTTTATATT
1 TTTTATATT
92355278 TTTGTATGATT
1 TTT-TAT-ATT
92355289 TTTTATA-T
1 TTTTATATT
92355297 TTTTATAATT
1 TTTTAT-ATT
*
92355307 TTTAGTAAATT
1 TTT--TATATT
**
92355318 TTAAATATT
1 TTTTATATT
92355327 TTTTATATT
1 TTTTATATT
92355336 TTTTATATT
1 TTTTATATT
92355345 TTT
1 TTT
92355348 ATTGAAGTTT
Statistics
Matches: 80, Mismatches: 11, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
8 7 0.09
9 36 0.45
10 24 0.30
11 11 0.14
12 2 0.03
ACGTcount: A:0.28, C:0.01, G:0.03, T:0.69
Consensus pattern (9 bp):
TTTTATATT
Found at i:92355275 original size:20 final size:18
Alignment explanation
Indices: 92355250--92355400 Score: 75
Period size: 19 Copynumber: 8.2 Consensus size: 18
92355240 TTTTATAATA
92355250 TTTATAATTTTTTACATTTT
1 TTTAT-ATTTTTTA-ATTTT
92355270 TTTATATTTTTGT-ATGATTT
1 TTTATATTTTT-TAAT--TTT
92355290 TTTATATTTTTATAATTTT
1 TTTATATTTTT-TAATTTT
* * *
92355309 TAGTA-AATTTTAAATATTT
1 T-TTATATTTTTTAAT-TTT
92355328 TTTATATTTTTTATATTTT
1 TTTATATTTTTTA-ATTTT
* *
92355347 TATTGA-A--GTTTAA-TAT
1 T-TT-ATATTTTTTAATTTT
**
92355363 TTTATAAATTTT-ATTTT
1 TTTATATTTTTTAATTTT
92355380 TTTAT-TTTTTATAATTTT
1 TTTATATTTTT-TAATTTT
92355398 TTT
1 TTT
92355401 GTCACAAGTG
Statistics
Matches: 102, Mismatches: 13, Indels: 34
0.68 0.09 0.23
Matches are distributed among these distances:
14 1 0.01
15 3 0.03
16 7 0.07
17 12 0.12
18 19 0.19
19 29 0.28
20 28 0.27
21 3 0.03
ACGTcount: A:0.27, C:0.01, G:0.03, T:0.69
Consensus pattern (18 bp):
TTTATATTTTTTAATTTT
Found at i:92355279 original size:8 final size:8
Alignment explanation
Indices: 92355268--92355398 Score: 59
Period size: 9 Copynumber: 14.6 Consensus size: 8
92355258 TTTTTACATT
92355268 TTTTTATA
1 TTTTTATA
92355276 TTTTTGTATGA
1 -TTTT-TAT-A
92355287 TTTTTTATA
1 -TTTTTATA
92355296 TTTTTATAA
1 TTTTTAT-A
92355305 TTTTTAGTAAA
1 TTTTTA-T--A
*
92355316 TTTTAAATA
1 TTTT-TATA
92355325 TTTTTTATA
1 -TTTTTATA
92355334 TTTTTTATA
1 -TTTTTATA
92355343 TTTTTATTGA
1 TTTTTA-T-A
**
92355353 AGTTTA-A
1 TTTTTATA
92355360 TATTTTATAA
1 T-TTTTAT-A
* *
92355370 ATTTTATT
1 TTTTTATA
92355378 TTTTTAT-
1 TTTTTATA
92355385 TTTTTATAA
1 TTTTTAT-A
92355394 TTTTT
1 TTTTT
92355399 TTGTCACAAG
Statistics
Matches: 99, Mismatches: 9, Indels: 28
0.73 0.07 0.21
Matches are distributed among these distances:
7 8 0.08
8 23 0.23
9 37 0.37
10 17 0.17
11 13 0.13
12 1 0.01
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (8 bp):
TTTTTATA
Found at i:92355343 original size:18 final size:18
Alignment explanation
Indices: 92355240--92355347 Score: 92
Period size: 20 Copynumber: 5.7 Consensus size: 18
92355230 TTTTGATGCA
* *
92355240 TTTTATAATATTTATAATT
1 TTTTATATTTTTTAT-ATT
*
92355259 TTTTACATTTTTTTATATT
1 TTTTATA-TTTTTTATATT
92355278 TTTGTATGATTTTTTATA-T
1 TTT-TAT-ATTTTTTATATT
*
92355297 TTTTATAATTTTTAGTAAATT
1 TTTTAT-ATTTTT--TATATT
**
92355318 TTAAATATTTTTTATATT
1 TTTTATATTTTTTATATT
92355336 TTTTATATTTTT
1 TTTTATATTTTT
92355348 ATTGAAGTTT
Statistics
Matches: 72, Mismatches: 11, Indels: 13
0.75 0.11 0.14
Matches are distributed among these distances:
18 24 0.33
19 16 0.22
20 26 0.36
21 6 0.08
ACGTcount: A:0.28, C:0.01, G:0.03, T:0.69
Consensus pattern (18 bp):
TTTTATATTTTTTATATT
Found at i:92355348 original size:38 final size:38
Alignment explanation
Indices: 92355286--92355374 Score: 110
Period size: 38 Copynumber: 2.4 Consensus size: 38
92355276 TTTTTGTATG
*
92355286 ATTTTTTATA-TTTTTATAATTTTTAGTAAATTTTAAAT
1 ATTTTTTATATTTTTTATAATTTTTAGTAAAGTTT-AAT
* *
92355324 ATTTTTTATATTTTTTAT-ATTTTTATTGAAGTTTAAT
1 ATTTTTTATATTTTTTATAATTTTTAGTAAAGTTTAAT
* *
92355361 ATTTTATAAATTTT
1 ATTTTTTATATTTT
92355375 ATTTTTTTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
37 15 0.33
38 23 0.51
39 7 0.16
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.65
Consensus pattern (38 bp):
ATTTTTTATATTTTTTATAATTTTTAGTAAAGTTTAAT
Found at i:92358710 original size:24 final size:24
Alignment explanation
Indices: 92358674--92358728 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
92358664 GACACACCAC
* * *
92358674 AGCTCGCAAGAGCGTCCCGTTATT
1 AGCTCTCAAGAGCATCCCGATATT
*
92358698 AGCTCTCATGAGCATCCCGATATT
1 AGCTCTCAAGAGCATCCCGATATT
*
92358722 GGCTCTC
1 AGCTCTC
92358729 TTAAGTTACT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.20, C:0.31, G:0.22, T:0.27
Consensus pattern (24 bp):
AGCTCTCAAGAGCATCCCGATATT
Found at i:92358915 original size:25 final size:24
Alignment explanation
Indices: 92358830--92358983 Score: 96
Period size: 25 Copynumber: 6.2 Consensus size: 24
92358820 ACACACCGTA
* *
92358830 GCTCT-TATGAGCGTCCCGATATATG
1 GCTCTCTA-GAGCTTCCCAATA-ATG
* ** *
92358855 GCTCTCTGGAGCTTCCCGTTTATG
1 GCTCTCTAGAGCTTCCCAATAATG
*
92358879 GCT-TGTATGAGCTTCCCAATAATTG
1 GCTCTCTA-GAGCTTCCCAATAA-TG
* * *
92358904 GCTCTCTAGAGCTTCTCGATAAAAG
1 GCTCTCTAGAGCTTCCCAAT-AATG
*
92358929 GCCCTCTCATGAGCTTCCCAATTAATG
1 GCTCTCT-A-GAGCTTCCCAA-TAATG
* * *
92358956 GCTCTCCAGAGCTACCCAATATTG
1 GCTCTCTAGAGCTTCCCAATAATG
92358980 GCTC
1 GCTC
92358984 ACATGAGCTT
Statistics
Matches: 100, Mismatches: 21, Indels: 17
0.72 0.15 0.12
Matches are distributed among these distances:
23 2 0.02
24 25 0.25
25 47 0.47
26 8 0.08
27 17 0.17
28 1 0.01
ACGTcount: A:0.21, C:0.28, G:0.20, T:0.31
Consensus pattern (24 bp):
GCTCTCTAGAGCTTCCCAATAATG
Found at i:92358991 original size:24 final size:26
Alignment explanation
Indices: 92358932--92358992 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 26
92358922 ATAAAAGGCC
*
92358932 CTCT-CATGAGCTTCCCAATTAATGG
1 CTCTACATGAGCTACCCAATTAATGG
* *
92358957 CTCTCCA-GAGCTACCCAA-TATTGG
1 CTCTACATGAGCTACCCAATTAATGG
92358981 CTC-ACATGAGCT
1 CTCTACATGAGCT
92358993 TCTTGTTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 2 0.06
24 13 0.42
25 14 0.45
26 2 0.06
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.28
Consensus pattern (26 bp):
CTCTACATGAGCTACCCAATTAATGG
Found at i:92359007 original size:25 final size:25
Alignment explanation
Indices: 92358978--92359033 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
92358968 TACCCAATAT
*
92358978 TGGCTCACATGAGCTTCTTGTTATA
1 TGGCTCACATGAGCTTCTTATTATA
92359003 TGGCTCACATGAGCTTCTTATTATA
1 TGGCTCACATGAGCTTCTTATTATA
92359028 TGGCTC
1 TGGCTC
92359034 GAAAGGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.39
Consensus pattern (25 bp):
TGGCTCACATGAGCTTCTTATTATA
Found at i:92368408 original size:39 final size:38
Alignment explanation
Indices: 92368249--92368435 Score: 212
Period size: 38 Copynumber: 4.9 Consensus size: 38
92368239 ACAAGTAACT
* *
92368249 CGAGAATCTACAACAAGGCTAGATCTCATTATATTACC
1 CGAGAATCTACAATAAGGCTAGATCTCGTTATATTACC
* * * *
92368287 TGAGAATTTGCAATAAGGCTAGACCTCGTTATATTACC
1 CGAGAATCTACAATAAGGCTAGATCTCGTTATATTACC
* * * **
92368325 CGAGAATCTAAAATAAGGCTAGACCTCATTATATTATA
1 CGAGAATCTACAATAAGGCTAGATCTCGTTATATTACC
* * *
92368363 GGAGAATCTACAATATATGCTAGATCTCGTTACATTACC
1 CGAGAATCTACAATA-AGGCTAGATCTCGTTATATTACC
* *
92368402 CAAGAATCTACAATAAATGCTAGATCTCGTTATA
1 CGAGAATCTACAAT-AAGGCTAGATCTCGTTATA
92368436 ATCTATACAA
Statistics
Matches: 123, Mismatches: 24, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
38 76 0.62
39 46 0.37
40 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.29
Consensus pattern (38 bp):
CGAGAATCTACAATAAGGCTAGATCTCGTTATATTACC
Found at i:92378390 original size:18 final size:19
Alignment explanation
Indices: 92378344--92378391 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
92378334 TTAAATAAAT
*
92378344 TATTAAAAATCACAAAAAA
1 TATTAAAAATAACAAAAAA
*
92378363 -ATTAAGAAAAAACAAAAAA
1 TATTAA-AAATAACAAAAAA
92378382 TATTAAAAAT
1 TATTAAAAAT
92378392 TATAAAATTC
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 5 0.21
19 14 0.58
20 5 0.21
ACGTcount: A:0.71, C:0.06, G:0.02, T:0.21
Consensus pattern (19 bp):
TATTAAAAATAACAAAAAA
Found at i:92379134 original size:13 final size:13
Alignment explanation
Indices: 92379116--92379154 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
92379106 GGCTCCAAAC
92379116 AAAAAAAGGAAAA
1 AAAAAAAGGAAAA
*
92379129 AAAAAAAAGAAAA
1 AAAAAAAGGAAAA
*
92379142 AGAAAAAGGAAAA
1 AAAAAAAGGAAAA
92379155 GCTTTTACCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (13 bp):
AAAAAAAGGAAAA
Found at i:92380788 original size:15 final size:15
Alignment explanation
Indices: 92380768--92380797 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
92380758 AAATTCAAAC
*
92380768 TTTAAAAGTAATATT
1 TTTAAAAATAATATT
92380783 TTTAAAAATAATATT
1 TTTAAAAATAATATT
92380798 ATTTGGAGAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (15 bp):
TTTAAAAATAATATT
Found at i:92382018 original size:15 final size:15
Alignment explanation
Indices: 92381998--92382033 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
92381988 AAATTTAAGA
92381998 AAAAATGAATGTTGT
1 AAAAATGAATGTTGT
* *
92382013 AAAAATGGATGTTTT
1 AAAAATGAATGTTGT
92382028 AAAAAT
1 AAAAAT
92382034 ATTAGTTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (15 bp):
AAAAATGAATGTTGT
Found at i:92382501 original size:4 final size:4
Alignment explanation
Indices: 92382494--92382523 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
92382484 ACTACTATAT
92382494 ATAG ATAG ATAG ATAG ATAG ATAG AT-G ATA
1 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATA
92382524 TACTAATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.50, C:0.00, G:0.23, T:0.27
Consensus pattern (4 bp):
ATAG
Found at i:92384809 original size:14 final size:14
Alignment explanation
Indices: 92384792--92384818 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
92384782 TATAATTACA
92384792 TAAATAAATAATTC
1 TAAATAAATAATTC
92384806 TAAATAAATAATT
1 TAAATAAATAATT
92384819 TTGTGAATTT
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:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (14 bp):
TAAATAAATAATTC
Found at i:92388364 original size:49 final size:49
Alignment explanation
Indices: 92388307--92388405 Score: 162
Period size: 49 Copynumber: 2.0 Consensus size: 49
92388297 ACAGTGATAG
* *
92388307 GCGGAATTATGTGAATAATTGTGAGATCAATTCACTCCGCAAAAGAAAA
1 GCGGAATTACGTGAATAATTGTGAGATCAATTCACTCCACAAAAGAAAA
* *
92388356 GCGGAATTACGTGAATGATTGTGAGGTCAATTCACTCCACAAAAGAAAA
1 GCGGAATTACGTGAATAATTGTGAGATCAATTCACTCCACAAAAGAAAA
92388405 G
1 G
92388406 GAAAAATAGA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.23
Consensus pattern (49 bp):
GCGGAATTACGTGAATAATTGTGAGATCAATTCACTCCACAAAAGAAAA
Found at i:92388748 original size:94 final size:91
Alignment explanation
Indices: 92388553--92388812 Score: 339
Period size: 94 Copynumber: 2.8 Consensus size: 91
92388543 TTGTATTAAT
* * * ** *
92388553 TTGGGTATTTGAACTTTTAAAATATATCAAAAAAG-CCCTC-AAACCTTTAAAAAAAACAATTAA
1 TTGGGTAATTGAATTTTTAAAATACATCAAAAAAGACCCTCAAAATTTTTAAAAAAAGCAATTAA
92388616 GCCCCTACTTTTTTTTTTGCACTCAA
66 GCCCCTACTTTTTTTTTTGCACTCAA
*
92388642 TTGGGTAATTGAATTTTTAAAATGCAT-AAAAAAGACCCTCAAAATTTTTTAAAAAAAGCAATTA
1 TTGGGTAATTGAATTTTTAAAATACATCAAAAAAGACCCTCAAAA-TTTTTAAAAAAAGCAATTA
*
92388706 AGCCCCTGCTTACTTTTTTTTTGCACTCAA
65 AGCCCCTAC-T--TTTTTTTTTGCACTCAA
* * * *
92388736 TTGGGTACTTGAATTTTTAAAATACATCAAAAAA-ACCCTCAAACATTTTCAAAAAAAGTAATAA
1 TTGGGTAATTGAATTTTTAAAATACATCAAAAAAGACCCTCAAA-ATTTTTAAAAAAAGCAATTA
92388800 AGCCCCTACTTTT
65 AGCCCCTACTTTT
92388813 ATTAAAAACT
Statistics
Matches: 149, Mismatches: 14, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
88 7 0.05
89 28 0.19
90 3 0.02
91 27 0.18
92 1 0.01
93 1 0.01
94 75 0.50
95 7 0.05
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.34
Consensus pattern (91 bp):
TTGGGTAATTGAATTTTTAAAATACATCAAAAAAGACCCTCAAAATTTTTAAAAAAAGCAATTAA
GCCCCTACTTTTTTTTTTGCACTCAA
Found at i:92388901 original size:10 final size:10
Alignment explanation
Indices: 92388886--92388986 Score: 57
Period size: 10 Copynumber: 10.3 Consensus size: 10
92388876 TTAAAATATT
92388886 AAAAATTATA
1 AAAAATTATA
92388896 AAAAATTAT-
1 AAAAATTATA
**
92388905 AAAAATCGTA
1 AAAAATTATA
*
92388915 AAAGAAATATA
1 AAA-AATTATA
* *
92388926 TAAAAATTGTC
1 -AAAAATTATA
*
92388937 AATAATTATA
1 AAAAATTATA
*
92388947 AAATA-TAT-
1 AAAAATTATA
*
92388955 AGAAA-TATA
1 AAAAATTATA
*
92388964 AAAATTTATA
1 AAAAATTATA
**
92388974 AAATTTTATA
1 AAAAATTATA
92388984 AAA
1 AAA
92388987 TCGTAAGAAA
Statistics
Matches: 68, Mismatches: 18, Indels: 10
0.71 0.19 0.10
Matches are distributed among these distances:
8 6 0.09
9 13 0.19
10 38 0.56
11 8 0.12
12 3 0.04
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (10 bp):
AAAAATTATA
Found at i:92388925 original size:20 final size:19
Alignment explanation
Indices: 92388878--92388930 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 19
92388868 AATAAAAATT
*
92388878 AAAATATTAAAAATTATAAA
1 AAAATA-TAAAAATCATAAA
* *
92388898 AAATTATAAAAATCGTAAA
1 AAAATATAAAAATCATAAA
92388917 AGAAATATATAAAA
1 A-AAATATA-AAAA
92388931 ATTGTCAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 12 0.44
20 11 0.41
21 4 0.15
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (19 bp):
AAAATATAAAAATCATAAA
Found at i:92388999 original size:21 final size:21
Alignment explanation
Indices: 92388973--92389017 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
92388963 AAAAATTTAT
* *
92388973 AAAATTTTATAAAATCGT-AAG
1 AAAATTATACAAAAT-GTAAAG
92388994 AAAATTATACAAAATGTAAAG
1 AAAATTATACAAAATGTAAAG
92389015 AAA
1 AAA
92389018 TATAAATTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.60, C:0.04, G:0.09, T:0.27
Consensus pattern (21 bp):
AAAATTATACAAAATGTAAAG
Found at i:92389018 original size:20 final size:19
Alignment explanation
Indices: 92388869--92389023 Score: 78
Period size: 18 Copynumber: 8.3 Consensus size: 19
92388859 TTAAATTTTA
*
92388869 ATAAAAAT-TAAA-ATATT
1 ATAAAAATGTAAAGAAATT
* *
92388886 A-AAAATTATAAA-AAATT
1 ATAAAAATGTAAAGAAATT
92388903 ATAAAAATCGTAAAAGAAATAT
1 ATAAAAAT-GT-AAAGAAAT-T
* *
92388925 ATAAAAATTGTCAA-TAATT
1 ATAAAAA-TGTAAAGAAATT
* *
92388944 AT-AAAATATATAGAAA-T
1 ATAAAAATGTAAAGAAATT
* *
92388961 ATAAAAATTTATA-AAATT
1 ATAAAAATGTAAAGAAATT
*
92388979 TTATAAAATCGT-AAGAAAATT
1 ATA-AAAAT-GTAAAG-AAATT
92389000 ATACAAAATGTAAAGAAA-T
1 ATA-AAAATGTAAAGAAATT
92389019 ATAAA
1 ATAAA
92389024 TTTCGTAAAA
Statistics
Matches: 107, Mismatches: 16, Indels: 29
0.70 0.11 0.19
Matches are distributed among these distances:
16 5 0.05
17 19 0.18
18 25 0.23
19 14 0.13
20 12 0.11
21 21 0.20
22 10 0.09
23 1 0.01
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (19 bp):
ATAAAAATGTAAAGAAATT
Found at i:92389210 original size:21 final size:20
Alignment explanation
Indices: 92389188--92389226 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
92389178 GTCATTAATT
*
92389188 TTTTATGATTTTTA-AAAAA
1 TTTTACGATTTTTATAAAAA
92389207 TTTTACGATTTTTATAAAAA
1 TTTTACGATTTTTATAAAAA
92389227 ATTCTAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (20 bp):
TTTTACGATTTTTATAAAAA
Found at i:92389227 original size:21 final size:19
Alignment explanation
Indices: 92389188--92389248 Score: 63
Period size: 21 Copynumber: 3.2 Consensus size: 19
92389178 GTCATTAATT
*
92389188 TTTTATGATTTTTAAAAAA
1 TTTTACGATTTTTAAAAAA
92389207 TTTTACGATTTTTATAAAAAA
1 TTTTACGA-TTTT-TAAAAAA
*
92389228 TTCTA--ATTTTTAACAAAA
1 TTTTACGATTTTTAA-AAAA
92389246 TTT
1 TTT
92389249 AAATCTTTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
17 3 0.08
18 10 0.28
19 8 0.22
20 4 0.11
21 11 0.31
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (19 bp):
TTTTACGATTTTTAAAAAA
Found at i:92390241 original size:6 final size:6
Alignment explanation
Indices: 92390230--92390257 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
92390220 TTAATATATA
92390230 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
92390258 TATGATAGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTAT
Found at i:92391100 original size:2 final size:2
Alignment explanation
Indices: 92391093--92391119 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
92391083 CACTTTAACC
92391093 TA 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 TA T
92391120 GAATGAAAGG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:92392498 original size:21 final size:21
Alignment explanation
Indices: 92392474--92392520 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
92392464 AAATTAGACT
*
92392474 TAAAATTTTAAATCTAAAAA-A
1 TAAAATTTTAAA-ATAAAAATA
92392495 TAAAATTTTAAAATAAAAATA
1 TAAAATTTTAAAATAAAAATA
92392516 TAAAA
1 TAAAA
92392521 ACTAAATTCC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (21 bp):
TAAAATTTTAAAATAAAAATA
Found at i:92395497 original size:21 final size:19
Alignment explanation
Indices: 92395464--92395534 Score: 81
Period size: 19 Copynumber: 3.6 Consensus size: 19
92395454 ATTATAAGAA
*
92395464 TATTAAAAATATAAAAAAT
1 TATTAAAATTATAAAAAAT
*
92395483 TATTCAAGAATTATAAGAAAT
1 TATT-AA-AATTATAAAAAAT
92395504 TATTAAAATTA-ATAAAAAT
1 TATTAAAATTATA-AAAAAT
92395523 TATTTAAAATTA
1 TA-TTAAAATTA
92395535 CAATAAGTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
18 1 0.02
19 16 0.36
20 13 0.29
21 15 0.33
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (19 bp):
TATTAAAATTATAAAAAAT
Found at i:92395529 original size:20 final size:20
Alignment explanation
Indices: 92395477--92395534 Score: 75
Period size: 20 Copynumber: 2.9 Consensus size: 20
92395467 TAAAAATATA
*
92395477 AAAAATTATTCAAGAATT-AT
1 AAAAATTATTTAA-AATTAAT
92395497 AAGAAATTA-TTAAAATTAAT
1 AA-AAATTATTTAAAATTAAT
92395517 AAAAATTATTTAAAATTA
1 AAAAATTATTTAAAATTA
92395535 CAATAAGTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
19 10 0.29
20 18 0.53
21 6 0.18
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (20 bp):
AAAAATTATTTAAAATTAAT
Found at i:92396115 original size:95 final size:95
Alignment explanation
Indices: 92396004--92396247 Score: 293
Period size: 91 Copynumber: 2.6 Consensus size: 95
92395994 CTTAACGGTG
* *
92396004 TAAAAA-GCCCTCAAACTTTTTTAATAAAAGCAATTAAGCTCTTGCTTTTTTTTTTTTTTGCACT
1 TAAAAAGGCCCTCAAACTTTTTTAAAAAAAGCAATTAAGCTCTTGCTTTTTTTTTTTTTGGCACT
* * * *
92396068 CAATTGGGTACTTAAACTTTCAATATGCAT
66 CAATTGAGTACTTAAACTGTCAAAATGCAA
*
92396098 TAAAAAGGCCCTCAAACTTTTTTAAAAAAAGCAATTAGGCTAC-TGC----TTTTTTTTTGGCAC
1 TAAAAAGGCCCTCAAACTTTTTTAAAAAAAGCAATTAAGCT-CTTGCTTTTTTTTTTTTTGGCAC
*
92396158 TCAATTGAGTACTTGAACTGTCAAAATGCAA
65 TCAATTGAGTACTTAAACTGTCAAAATGCAA
* *
92396189 CAAAAAGGCCCTCAAACTTTATTTTTAAAAAAAAGCAATTAAGTCTCTGTTCTTTTTTT
1 TAAAAAGGCCCTCAAAC--T-TTTTT-AAAAAAAGCAATTAAG-CTCT-TGCTTTTTTT
92396248 GCACAAATTA
Statistics
Matches: 126, Mismatches: 11, Indels: 19
0.81 0.07 0.12
Matches are distributed among these distances:
91 55 0.44
93 1 0.01
94 11 0.09
95 51 0.40
96 3 0.02
97 2 0.02
101 3 0.02
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.38
Consensus pattern (95 bp):
TAAAAAGGCCCTCAAACTTTTTTAAAAAAAGCAATTAAGCTCTTGCTTTTTTTTTTTTTGGCACT
CAATTGAGTACTTAAACTGTCAAAATGCAA
Found at i:92396289 original size:95 final size:91
Alignment explanation
Indices: 92396005--92396268 Score: 236
Period size: 95 Copynumber: 2.8 Consensus size: 91
92395995 TTAACGGTGT
* * *
92396005 AAAAA-GCCCTCAAACTTTTTTAATAAAAGCAATTAAGCT-CTTGCTTTTTTTTTTTTTTGCACT
1 AAAAAGGCCCTCAAACTTTTTTAAAAAAAGCAATTAGGCTAC-TGC----TTTTTTTTTGGCACT
* * * * * * **
92396068 CAATTGGGTACTTAAACTTTCAATATGCATT
61 AAATTGAGTACTTGAACTCTAAAAATGCAAC
*
92396099 AAAAAGGCCCTCAAACTTTTTTAAAAAAAGCAATTAGGCTACTGCTTTTTTTTTGGCACTCAATT
1 AAAAAGGCCCTCAAACTTTTTTAAAAAAAGCAATTAGGCTACTGCTTTTTTTTTGGCACTAAATT
* *
92396164 GAGTACTTGAACTGTCAAAATGCAAC
66 GAGTACTTGAACTCTAAAAATGCAAC
*
92396190 AAAAAGGCCCTCAAACTTTATTTTTAAAAAAAAGCAATTAAGTCT-CTG-TTCTTTTTTT-GCAC
1 AAAAAGGCCCTCAAAC--T-TTTTT-AAAAAAAGCAATT-AGGCTACTGCTT-TTTTTTTGGCAC
92396252 -AAATT-ATGTACTTGAAC
60 TAAATTGA-GTACTTGAAC
92396269 ATCCTAAATA
Statistics
Matches: 150, Mismatches: 11, Indels: 19
0.83 0.06 0.11
Matches are distributed among these distances:
91 55 0.37
92 1 0.01
93 15 0.10
94 16 0.11
95 58 0.39
96 5 0.03
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.37
Consensus pattern (91 bp):
AAAAAGGCCCTCAAACTTTTTTAAAAAAAGCAATTAGGCTACTGCTTTTTTTTTGGCACTAAATT
GAGTACTTGAACTCTAAAAATGCAAC
Found at i:92401770 original size:5 final size:5
Alignment explanation
Indices: 92401760--92401787 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
92401750 ACGTCGAATT
92401760 GAAGG GAAGG GAAGG GAAGG GAAGG GAA
1 GAAGG GAAGG GAAGG GAAGG GAAGG GAA
92401788 AAAACGAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (5 bp):
GAAGG
Found at i:92402893 original size:20 final size:22
Alignment explanation
Indices: 92402868--92402909 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
92402858 ATTCATTGGA
92402868 AAATG-AGAAAA-AAAATTATC
1 AAATGAAGAAAATAAAATTATC
*
92402888 AAATGAAGAAAATAATATTATC
1 AAATGAAGAAAATAAAATTATC
92402910 CTAAATCAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 6 0.32
22 8 0.42
ACGTcount: A:0.62, C:0.05, G:0.10, T:0.24
Consensus pattern (22 bp):
AAATGAAGAAAATAAAATTATC
Found at i:92403140 original size:3 final size:3
Alignment explanation
Indices: 92403134--92403163 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
92403124 AGGAGAGATC
92403134 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
92403164 CGCCAGAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:92404162 original size:18 final size:20
Alignment explanation
Indices: 92404136--92404183 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 20
92404126 TTAGTAAAAA
*
92404136 TATAAAAAAATTTA-AATTT
1 TATATAAAAATTTAGAATTT
92404155 TAT-TAAAAA-TTAGAATTT
1 TATATAAAAATTTAGAATTT
*
92404173 TTTATAAAAAT
1 TATATAAAAAT
92404184 CATAAAAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
17 3 0.12
18 12 0.50
19 9 0.38
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (20 bp):
TATATAAAAATTTAGAATTT
Done.