Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 306 of 325
Found at i:99378570 original size:20 final size:20
Alignment explanation
Indices: 99378545--99378585 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
99378535 TTATATCAAT
* *
99378545 AAAATTAGCACATTTTTTTA
1 AAAATTAACACAATTTTTTA
99378565 AAAATTAACACAATTTTTTA
1 AAAATTAACACAATTTTTTA
99378585 A
1 A
99378586 GTCAAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.41
Consensus pattern (20 bp):
AAAATTAACACAATTTTTTA
Found at i:99378685 original size:33 final size:32
Alignment explanation
Indices: 99378648--99378709 Score: 97
Period size: 33 Copynumber: 1.9 Consensus size: 32
99378638 CCTATATTTT
*
99378648 ATGCTTAGAGTTCAATTCAATGTGATAATTAAG
1 ATGCTTAGAGTTCAATTCAA-GTAATAATTAAG
*
99378681 ATGCTTAGAGTTCTATTCAAGTAATAATT
1 ATGCTTAGAGTTCAATTCAAGTAATAATT
99378710 CTATTTTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 8 0.30
33 19 0.70
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.39
Consensus pattern (32 bp):
ATGCTTAGAGTTCAATTCAAGTAATAATTAAG
Found at i:99380904 original size:124 final size:125
Alignment explanation
Indices: 99380731--99381009 Score: 447
Period size: 125 Copynumber: 2.2 Consensus size: 125
99380721 CTGTGTACCT
* * *
99380731 CACACGGCTAAGACACACG-CTCGTGCCTCTTCTCGTGTGCTCAATTCTGAGCATTTTGTTTCTC
1 CACACGGCTGAGACACACGCCT-GTGTCTCTTCTCGTGTGCTCAATTCTGAGCATTCTGTTTCTC
99380795 -ATTTTAAGATGCAAGGGACACACAG-TCAGACTACACGCCCATGTACATGACCGTATGTCA
65 AATTTTAAGATGCAAGGGACACACAGCT-AGACTACACGCCCATGTACATGACCGTATGTCA
* *
99380855 CACATGGCTGAGACACACGCCTGTGTCTCTTCTCGTGTGCTCAGTTCTGAGCATTCTGTTTCTCA
1 CACACGGCTGAGACACACGCCTGTGTCTCTTCTCGTGTGCTCAATTCTGAGCATTCTGTTTCTCA
* *
99380920 ATTTTAAGATGCAGGGGACACACAGCTAGACTACACGCCTATGTACATGACCGTATGTCA
66 ATTTTAAGATGCAAGGGACACACAGCTAGACTACACGCCCATGTACATGACCGTATGTCA
*
99380980 CACACGGCTGAGACACACGCCCGTGTCTCT
1 CACACGGCTGAGACACACGCCTGTGTCTCT
99381010 ACCCATGTGG
Statistics
Matches: 143, Mismatches: 9, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
124 56 0.39
125 86 0.60
126 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.27
Consensus pattern (125 bp):
CACACGGCTGAGACACACGCCTGTGTCTCTTCTCGTGTGCTCAATTCTGAGCATTCTGTTTCTCA
ATTTTAAGATGCAAGGGACACACAGCTAGACTACACGCCCATGTACATGACCGTATGTCA
Found at i:99384364 original size:19 final size:19
Alignment explanation
Indices: 99384340--99384376 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
99384330 TCAAAGAACA
*
99384340 ATGCAAATTAAGCTATCAT
1 ATGCAAATCAAGCTATCAT
*
99384359 ATGCAAATCATGCTATCA
1 ATGCAAATCAAGCTATCA
99384377 ATTACTTCAT
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:0.19, G:0.11, T:0.30
Consensus pattern (19 bp):
ATGCAAATCAAGCTATCAT
Found at i:99386281 original size:28 final size:27
Alignment explanation
Indices: 99386239--99386295 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 27
99386229 ATATACTTTA
99386239 TATTAATTAAATAAAATAA-AAATACAC
1 TATTAATTAAATAAAATAATAAATA-AC
* *
99386266 TATTTATTAAATTAAAGTAATAAATAAC
1 TATTAATTAAA-TAAAATAATAAATAAC
99386294 TA
1 TA
99386296 ACACATATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 10 0.38
28 11 0.42
29 5 0.19
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (27 bp):
TATTAATTAAATAAAATAATAAATAAC
Found at i:99386699 original size:22 final size:23
Alignment explanation
Indices: 99386656--99386699 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
99386646 TAGAAATAAT
*
99386656 ATTTAAAATATTACCAATAAAAA
1 ATTTAAAATATTACCAACAAAAA
* *
99386679 ATTTAAACTA-TACCAGCAAAA
1 ATTTAAAATATTACCAACAAAA
99386700 TGAAGAGATT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.57, C:0.14, G:0.02, T:0.27
Consensus pattern (23 bp):
ATTTAAAATATTACCAACAAAAA
Found at i:99395197 original size:28 final size:28
Alignment explanation
Indices: 99395144--99395199 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
99395134 TGAATGAATA
*
99395144 TTTTTAATTAATAAATAGTATGAAATAAT
1 TTTTTAATTAATAAATA-TATAAAATAAT
99395173 TTTTTAATTTAATAAAT-TATAAAATAA
1 TTTTTAA-TTAATAAATATATAAAATAA
99395200 AATATTATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 9 0.36
29 7 0.28
30 9 0.36
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (28 bp):
TTTTTAATTAATAAATATATAAAATAAT
Found at i:99399577 original size:21 final size:21
Alignment explanation
Indices: 99399552--99399595 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
99399542 ATAAAAGGGT
99399552 AAAT-ATAACAAGAAGAT-ATAA
1 AAATAATAA-AAGAA-ATAATAA
99399573 AAATAATAAAAGAAATAATAA
1 AAATAATAAAAGAAATAATAA
99399594 AA
1 AA
99399596 CTACAAACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 2 0.10
21 15 0.71
22 4 0.19
ACGTcount: A:0.73, C:0.02, G:0.07, T:0.18
Consensus pattern (21 bp):
AAATAATAAAAGAAATAATAA
Found at i:99399711 original size:3 final size:3
Alignment explanation
Indices: 99399703--99399735 Score: 57
Period size: 3 Copynumber: 10.7 Consensus size: 3
99399693 AAGATGAAGA
99399703 AAT AAT AAT AAT AAT AAT AAT AAT AAT AGAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AA
99399736 ATACAAGTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:99403111 original size:42 final size:42
Alignment explanation
Indices: 99403052--99403134 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
99403042 ATAAGTTTTT
* * * *
99403052 GTTTAACCCTAATAGGTTTTCGTTTAGCTCTTTTGAGCTTCA
1 GTTTAACCCTAATAGGTTTCCATTCAGCTCTTATGAGCTTCA
* *
99403094 GTTTAACCTTTATAGGTTTCCATTCAGCTCTTATGAGCTTC
1 GTTTAACCCTAATAGGTTTCCATTCAGCTCTTATGAGCTTC
99403135 CGCTCAACTC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.19, C:0.20, G:0.16, T:0.45
Consensus pattern (42 bp):
GTTTAACCCTAATAGGTTTCCATTCAGCTCTTATGAGCTTCA
Found at i:99404856 original size:48 final size:48
Alignment explanation
Indices: 99404785--99404882 Score: 171
Period size: 48 Copynumber: 2.0 Consensus size: 48
99404775 ATTTCTATCT
*
99404785 AAACATCAAGTAAATTTAACATTTCT-TGCCATGAATCAAACTCAAACC
1 AAACATCAAGTAAATTTAACATTT-TGTGCAATGAATCAAACTCAAACC
99404833 AAACATCAAGTAAATTTAACATTTTGTGCAATGAATCAAACTCAAACC
1 AAACATCAAGTAAATTTAACATTTTGTGCAATGAATCAAACTCAAACC
99404881 AA
1 AA
99404883 GTCATTTCAA
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
47 1 0.02
48 47 0.98
ACGTcount: A:0.46, C:0.20, G:0.07, T:0.27
Consensus pattern (48 bp):
AAACATCAAGTAAATTTAACATTTTGTGCAATGAATCAAACTCAAACC
Found at i:99415821 original size:42 final size:44
Alignment explanation
Indices: 99415761--99415972 Score: 195
Period size: 42 Copynumber: 4.7 Consensus size: 44
99415751 CTTCATTTTC
* ** *
99415761 TCGATGCCGTAGTTCAACTATGGTTTTACACATC-T-TCACATAA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATCATATCACAT-A
99415804 T-GATGCCATAGCCCAACTATGGTCTTACACAT-AT-TCACATA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATCATATCACATA
*
99415845 TCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATAA
1 TCGATGCCATAGCCCAACTATGGTCTTACAC---AT--CATATCACAT-A
* * *
99415895 T-GATGCTATAAG-CCAGCTATGGTCTTATACGGATCACATATCACATA
1 TCGATGCCAT-AGCCCAACTATGGTCTTACAC--AT--CATATCACATA
99415942 TCGATGCCATAGCCCAACTATGGTCTTACAC
1 TCGATGCCATAGCCCAACTATGGTCTTACAC
99415973 GAATCAAATA
Statistics
Matches: 144, Mismatches: 12, Indels: 21
0.81 0.07 0.12
Matches are distributed among these distances:
41 2 0.01
42 62 0.43
43 1 0.01
45 2 0.01
47 4 0.03
48 39 0.27
49 30 0.21
50 4 0.03
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (44 bp):
TCGATGCCATAGCCCAACTATGGTCTTACACATCATATCACATA
Found at i:99415948 original size:48 final size:48
Alignment explanation
Indices: 99415831--99416089 Score: 265
Period size: 48 Copynumber: 5.2 Consensus size: 48
99415821 TATGGTCTTA
* *
99415831 CACATATTCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
1 CACATA-TCACATATCGATGCCATAGCCCAGCTATGGTCTTATACG-GAT
*
99415881 CACATATCACATAAT-GATGCTATAAG-CCAGCTATGGTCTTATACGGAT
1 CACATATCACAT-ATCGATGCCAT-AGCCCAGCTATGGTCTTATACGGAT
* * *
99415929 CACATATCACATATCGATGCCATAGCCCAACTATGGTCTTACACGAAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTATACGGAT
* * * * * *
99415977 CAAATATCTCA-CT-GATGCCATATCCCAGATATGGTCTTATACGGAAG
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTATACGG-AT
* *
99416024 CACATAATCACATCTCTCTGATGCCATAGCCCTGCTATGGTCTTATACGGAAAT
1 CACAT-ATCACA--TATC-GATGCCATAGCCCAGCTATGGTCTTATACGG--AT
99416078 CACATATCACAT
1 CACATATCACAT
99416090 GTTGCTATGG
Statistics
Matches: 175, Mismatches: 22, Indels: 23
0.80 0.10 0.10
Matches are distributed among these distances:
46 26 0.15
47 10 0.06
48 54 0.31
49 31 0.18
50 10 0.06
51 3 0.02
53 34 0.19
54 7 0.04
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (48 bp):
CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTATACGGAT
Found at i:99416045 original size:53 final size:53
Alignment explanation
Indices: 99415982--99416089 Score: 155
Period size: 53 Copynumber: 2.0 Consensus size: 53
99415972 CGAATCAAAT
*
99415982 ATCTCACTGATGCCATATCCCAGATATGGTCTTATACGG-AAGCACATAATCAC
1 ATCTCACTGATGCCATAGCCCAGATATGGTCTTATACGGAAAGCACAT-ATCAC
* * * *
99416035 ATCTCTCTGATGCCATAGCCCTGCTATGGTCTTATACGGAAATCACATATCAC
1 ATCTCACTGATGCCATAGCCCAGATATGGTCTTATACGGAAAGCACATATCAC
99416088 AT
1 AT
99416090 GTTGCTATGG
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
53 42 0.86
54 7 0.14
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.29
Consensus pattern (53 bp):
ATCTCACTGATGCCATAGCCCAGATATGGTCTTATACGGAAAGCACATATCAC
Found at i:99419125 original size:23 final size:23
Alignment explanation
Indices: 99419095--99419140 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
99419085 ATCAATTCAT
*
99419095 AAAAAAAATCATTTTTCTCTCTA
1 AAAAAAAATCAATTTTCTCTCTA
99419118 AAAAAAAATCAATTTTCTCTCTA
1 AAAAAAAATCAATTTTCTCTCTA
99419141 TCTTATTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.37
Consensus pattern (23 bp):
AAAAAAAATCAATTTTCTCTCTA
Found at i:99420063 original size:17 final size:17
Alignment explanation
Indices: 99420006--99420064 Score: 55
Period size: 17 Copynumber: 3.5 Consensus size: 17
99419996 GCACTTTTAC
*
99420006 TACAACACGCATGTTAA
1 TACAACTCGCATGTTAA
** * *
99420023 CGCAACTCGCATATTGA
1 TACAACTCGCATGTTAA
* *
99420040 TATAACTCGCATGTCAA
1 TACAACTCGCATGTTAA
99420057 TACAACTC
1 TACAACTC
99420065 ATAGATTTAC
Statistics
Matches: 30, Mismatches: 12, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.12, T:0.25
Consensus pattern (17 bp):
TACAACTCGCATGTTAA
Found at i:99420254 original size:34 final size:34
Alignment explanation
Indices: 99420210--99420395 Score: 194
Period size: 34 Copynumber: 5.5 Consensus size: 34
99420200 TGACAAAGCC
* *
99420210 AGCTCTCATATAAACACAACTCATATATAAACAT
1 AGCTCGCATATAAACACAACTCACATATAAACAT
** ** *
99420244 AGCTAACATATAAACACAACTTGCATATAAACAC
1 AGCTCGCATATAAACACAACTCACATATAAACAT
*
99420278 AGCTCGCATATAAACACAAGTCACATATAAACAT
1 AGCTCGCATATAAACACAACTCACATATAAACAT
* *
99420312 AGCTCGCATTTAAACAAAACT-AGCATATAAACAT
1 AGCTCGCATATAAACACAACTCA-CATATAAACAT
* * * * ** *
99420346 AGCTCGTATATAAATATAGCTTGCTTATAAACAT
1 AGCTCGCATATAAACACAACTCACATATAAACAT
*
99420380 AGCTCACATATAAACA
1 AGCTCGCATATAAACA
99420396 TATATATAAG
Statistics
Matches: 125, Mismatches: 25, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
33 1 0.01
34 124 0.99
ACGTcount: A:0.46, C:0.22, G:0.08, T:0.25
Consensus pattern (34 bp):
AGCTCGCATATAAACACAACTCACATATAAACAT
Found at i:99420288 original size:68 final size:68
Alignment explanation
Indices: 99420209--99420395 Score: 225
Period size: 68 Copynumber: 2.8 Consensus size: 68
99420199 TTGACAAAGC
* * * *
99420209 CAGCTCTCATATAAACACAACTCATATATAAACATAGCTAACATATAAACACAACTTGCATATAA
1 CAGCTCGCATATAAACACAACTCATATATAAACATAGCTCACATATAAACAAAACTAGCATATAA
99420274 ACA
66 ACA
* * * *
99420277 CAGCTCGCATATAAACACAAGTCACATATAAACATAGCTCGCATTTAAACAAAACTAGCATATAA
1 CAGCTCGCATATAAACACAACTCATATATAAACATAGCTCACATATAAACAAAACTAGCATATAA
99420342 ACA
66 ACA
* * * * *
99420345 TAGCTCGTATATAAATATAGCTTGC-T-TATAAACATAGCTCACATATAAACA
1 CAGCTCGCATATAAACACAAC-T-CATATATAAACATAGCTCACATATAAACA
99420396 TATATATAAG
Statistics
Matches: 100, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
68 98 0.98
69 1 0.01
70 1 0.01
ACGTcount: A:0.46, C:0.22, G:0.07, T:0.25
Consensus pattern (68 bp):
CAGCTCGCATATAAACACAACTCATATATAAACATAGCTCACATATAAACAAAACTAGCATATAA
ACA
Found at i:99420292 original size:51 final size:51
Alignment explanation
Indices: 99420216--99420397 Score: 188
Period size: 51 Copynumber: 3.6 Consensus size: 51
99420206 AGCCAGCTCT
* * * *
99420216 CATATAAACACAACTCATATATAAACATAGCTAACATATAAACACAACTTG
1 CATATAAACACAACTCACATATAAACATAGCTCACATATAAACATAGCTTG
* * * *
99420267 CATATAAACACAGCTCGCATATAAACACAAG-TCACATATAAACATAGCTCG
1 CATATAAACACAACTCACATATAAACA-TAGCTCACATATAAACATAGCTTG
* * ** *
99420318 CATTTAAACAAAACT-AGCATATAAACATAGCTCGTATATAAATATAGCTTG
1 CATATAAACACAACTCA-CATATAAACATAGCTCACATATAAACATAGCTTG
* * *
99420369 CTTATAAACATAGCTCACATATAAACATA
1 CATATAAACACAACTCACATATAAACATA
99420398 TATATAAGTA
Statistics
Matches: 106, Mismatches: 21, Indels: 8
0.79 0.16 0.06
Matches are distributed among these distances:
50 2 0.02
51 101 0.95
52 3 0.03
ACGTcount: A:0.47, C:0.21, G:0.07, T:0.25
Consensus pattern (51 bp):
CATATAAACACAACTCACATATAAACATAGCTCACATATAAACATAGCTTG
Found at i:99420356 original size:17 final size:17
Alignment explanation
Indices: 99420210--99420397 Score: 162
Period size: 17 Copynumber: 11.1 Consensus size: 17
99420200 TGACAAAGCC
* *
99420210 AGCTCTCATATAAACAC
1 AGCTCGCATATAAACAT
* **
99420227 AACTCATATATAAACAT
1 AGCTCGCATATAAACAT
** *
99420244 AGCTAACATATAAACAC
1 AGCTCGCATATAAACAT
* * *
99420261 AACTTGCATATAAACAC
1 AGCTCGCATATAAACAT
*
99420278 AGCTCGCATATAAACACA
1 AGCTCGCATATAAACA-T
*
99420296 AG-TCACATATAAACAT
1 AGCTCGCATATAAACAT
* *
99420312 AGCTCGCATTTAAACAA
1 AGCTCGCATATAAACAT
* *
99420329 AACTAGCATATAAACAT
1 AGCTCGCATATAAACAT
* *
99420346 AGCTCGTATATAAATAT
1 AGCTCGCATATAAACAT
* *
99420363 AGCTTGCTTATAAACAT
1 AGCTCGCATATAAACAT
*
99420380 AGCTCACATATAAACAT
1 AGCTCGCATATAAACAT
99420397 A
1 A
99420398 TATATAAGTA
Statistics
Matches: 135, Mismatches: 34, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
16 2 0.01
17 131 0.97
18 2 0.01
ACGTcount: A:0.46, C:0.21, G:0.07, T:0.25
Consensus pattern (17 bp):
AGCTCGCATATAAACAT
Found at i:99434894 original size:17 final size:18
Alignment explanation
Indices: 99434862--99434899 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
99434852 TTAATTTAGA
99434862 TAAATTAATTTTTC-AAT
1 TAAATTAATTTTTCAAAT
99434879 TAAA-TAATTTTCTCAAAT
1 TAAATTAATTTT-TCAAAT
99434897 TAA
1 TAA
99434900 TTCTAATTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.37
17 6 0.32
18 6 0.32
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (18 bp):
TAAATTAATTTTTCAAAT
Found at i:99438409 original size:11 final size:11
Alignment explanation
Indices: 99438393--99438417 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
99438383 ACATCTGACC
99438393 TTCCCTGCAAT
1 TTCCCTGCAAT
99438404 TTCCCTGCAAT
1 TTCCCTGCAAT
99438415 TTC
1 TTC
99438418 AAATTTGCAA
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:0.16, C:0.36, G:0.08, T:0.40
Consensus pattern (11 bp):
TTCCCTGCAAT
Found at i:99441602 original size:19 final size:19
Alignment explanation
Indices: 99441553--99441603 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
99441543 TGAATTTATT
*
99441553 TATATATAAATT-CAAAAA
1 TATATATAAATTAAAAAAA
*
99441571 TATTTA-AATATTAAAAAAA
1 TATATATAA-ATTAAAAAAA
99441590 TATATATAAATTAA
1 TATATATAAATTAA
99441604 TTATATGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
17 2 0.07
18 8 0.30
19 15 0.56
20 2 0.07
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (19 bp):
TATATATAAATTAAAAAAA
Found at i:99443103 original size:31 final size:32
Alignment explanation
Indices: 99443068--99443130 Score: 94
Period size: 31 Copynumber: 2.0 Consensus size: 32
99443058 AGTTTATATG
99443068 TTTATAATTTTTAAAATATTAAA-T-TAATTTT
1 TTTATAATTTTTAAAA-ATTAAAGTGTAATTTT
*
99443099 TTTATTATTTTTAAAAATTAAAGTGTAATTTT
1 TTTATAATTTTTAAAAATTAAAGTGTAATTTT
99443131 ACCAGTACTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 6 0.21
31 16 0.55
32 7 0.24
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (32 bp):
TTTATAATTTTTAAAAATTAAAGTGTAATTTT
Found at i:99443741 original size:19 final size:20
Alignment explanation
Indices: 99443717--99443757 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
99443707 TATGTTTACT
*
99443717 AAAATTTCTAAC-TTATACC
1 AAAATTTCTAACACTATACC
99443736 AAAATTTCTAACACTATACC
1 AAAATTTCTAACACTATACC
99443756 AA
1 AA
99443758 TACTTTTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (20 bp):
AAAATTTCTAACACTATACC
Found at i:99451087 original size:3 final size:3
Alignment explanation
Indices: 99451081--99451129 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
99451071 TATTAGACTT
*
99451081 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TCA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
99451129 T
1 T
99451130 GAAATGATCA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:99453941 original size:31 final size:31
Alignment explanation
Indices: 99453906--99453970 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
99453896 ATATAGTAGA
99453906 ATGAGGGGTTTTGGAGGTCACTCTTAGAAGT
1 ATGAGGGGTTTTGGAGGTCACTCTTAGAAGT
99453937 ATGAGGGGTTTTGGAGGTCACTCTTAGAAGT
1 ATGAGGGGTTTTGGAGGTCACTCTTAGAAGT
99453968 ATG
1 ATG
99453971 TGGTTTGATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.23, C:0.09, G:0.35, T:0.32
Consensus pattern (31 bp):
ATGAGGGGTTTTGGAGGTCACTCTTAGAAGT
Found at i:99454231 original size:31 final size:31
Alignment explanation
Indices: 99454196--99454260 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
99454186 ATATAGTAGA
99454196 ATGAGAGGTTTTGGAGGTCACTCTTAGAAGT
1 ATGAGAGGTTTTGGAGGTCACTCTTAGAAGT
*
99454227 ATGAGGGGTTTTGGAGGTCACTCTTAGAAGT
1 ATGAGAGGTTTTGGAGGTCACTCTTAGAAGT
99454258 ATG
1 ATG
99454261 TGGTTTGATC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.25, C:0.09, G:0.34, T:0.32
Consensus pattern (31 bp):
ATGAGAGGTTTTGGAGGTCACTCTTAGAAGT
Found at i:99454270 original size:290 final size:290
Alignment explanation
Indices: 99453750--99454335 Score: 1109
Period size: 290 Copynumber: 2.0 Consensus size: 290
99453740 TCTCTAAGAT
99453750 AATGGTGAACAAAATAAAGGGTTTCTTTGGGGATATCATTACTAAACAACAGAGTGCCTTTGTGC
1 AATGGTGAACAAAATAAAGGGTTTCTTTGGGGATATCATTACTAAACAACAGAGTGCCTTTGTGC
99453815 CTAAAAGAAAAATCCTCAAATTGAAGAAAAAAGGGAAAATATCTGAAGTTGTTTTGAAGCTAAAC
66 CTAAAAGAAAAATCCTCAAATTGAAGAAAAAAGGGAAAATATCTGAAGTTGTTTTGAAGCTAAAC
* *
99453880 ATGAATAAAGAAAATGATATAGTAGAATGAGGGGTTTTGGAGGTCACTCTTAGAAGTATGAGGGG
131 ATGAATAAAGAAAACGATATAGTAGAATGAGAGGTTTTGGAGGTCACTCTTAGAAGTATGAGGGG
99453945 TTTTGGAGGTCACTCTTAGAAGTATGTGGTTTGATCAGATTTGGGTGGGGTGAATAATGGAATGT
196 TTTTGGAGGTCACTCTTAGAAGTATGTGGTTTGATCAGATTTGGGTGGGGTGAATAATGGAATGT
* *
99454010 GTAAATACAGTTTCCTACACTTTTATCATC
261 ATAAATACAGTTTCCTACACTTTTATCATA
*
99454040 AATGGTGAACAAAATAAAGGGTTTCTTTGGGGATATCATTACTAAACAACATAGTGCCTTTGTGC
1 AATGGTGAACAAAATAAAGGGTTTCTTTGGGGATATCATTACTAAACAACAGAGTGCCTTTGTGC
*
99454105 CTAAAAGAAAAATCCTCAAATTGAAGAAAAAAGGGAAAATATCTGAAGTTGTTTTGAAGTTAAAC
66 CTAAAAGAAAAATCCTCAAATTGAAGAAAAAAGGGAAAATATCTGAAGTTGTTTTGAAGCTAAAC
99454170 ATGAATAAAGAAAACGATATAGTAGAATGAGAGGTTTTGGAGGTCACTCTTAGAAGTATGAGGGG
131 ATGAATAAAGAAAACGATATAGTAGAATGAGAGGTTTTGGAGGTCACTCTTAGAAGTATGAGGGG
99454235 TTTTGGAGGTCACTCTTAGAAGTATGTGGTTTGATCAGATTTGGGTGGGGTGAATAATGGAATGT
196 TTTTGGAGGTCACTCTTAGAAGTATGTGGTTTGATCAGATTTGGGTGGGGTGAATAATGGAATGT
*
99454300 ATAAATACATTTTCCTACACTTTTATCATA
261 ATAAATACAGTTTCCTACACTTTTATCATA
99454330 AATGGT
1 AATGGT
99454336 AAGCCAAGTA
Statistics
Matches: 289, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
290 289 1.00
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.30
Consensus pattern (290 bp):
AATGGTGAACAAAATAAAGGGTTTCTTTGGGGATATCATTACTAAACAACAGAGTGCCTTTGTGC
CTAAAAGAAAAATCCTCAAATTGAAGAAAAAAGGGAAAATATCTGAAGTTGTTTTGAAGCTAAAC
ATGAATAAAGAAAACGATATAGTAGAATGAGAGGTTTTGGAGGTCACTCTTAGAAGTATGAGGGG
TTTTGGAGGTCACTCTTAGAAGTATGTGGTTTGATCAGATTTGGGTGGGGTGAATAATGGAATGT
ATAAATACAGTTTCCTACACTTTTATCATA
Found at i:99459648 original size:23 final size:24
Alignment explanation
Indices: 99459604--99459657 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
99459594 ATATTATAAG
* * *
99459604 ATTTTTTTTTGGGTTTTGGTGTCT
1 ATTTTTTTTTGAGCTTTAGTGTCT
99459628 ATTTTTTTTT-AGCTTTAGTGTCT
1 ATTTTTTTTTGAGCTTTAGTGTCT
*
99459651 ACTTTTT
1 ATTTTTT
99459658 CCTAGGTTGG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 16 0.62
24 10 0.38
ACGTcount: A:0.09, C:0.07, G:0.17, T:0.67
Consensus pattern (24 bp):
ATTTTTTTTTGAGCTTTAGTGTCT
Found at i:99463087 original size:19 final size:19
Alignment explanation
Indices: 99463056--99463098 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
99463046 GCGTAAACAG
99463056 TTAA-TTAAATTAT-TTAAT
1 TTAATTTAAATTATATT-AT
*
99463074 TTAATTTAATTTATATTAT
1 TTAATTTAAATTATATTAT
99463093 TTAATT
1 TTAATT
99463099 ATATTGTACA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 4 0.18
19 16 0.73
20 2 0.09
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TTAATTTAAATTATATTAT
Found at i:99463094 original size:14 final size:13
Alignment explanation
Indices: 99463056--99463103 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
99463046 GCGTAAACAG
*
99463056 TTAATTAAATTAT
1 TTAATTATATTAT
99463069 TTAATT-TA--AT
1 TTAATTATATTAT
99463079 TTAATTTATATTAT
1 TTAA-TTATATTAT
99463093 TTAATTATATT
1 TTAATTATATT
99463104 GTACATTTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
10 6 0.20
11 2 0.07
12 3 0.10
13 13 0.43
14 6 0.20
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTAATTATATTAT
Found at i:99465180 original size:35 final size:35
Alignment explanation
Indices: 99465134--99465206 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
99465124 TCCTTGGTCG
*
99465134 AATATTCACAAGGTTAAGTCATCAAATCTTTGTTC
1 AATATCCACAAGGTTAAGTCATCAAATCTTTGTTC
99465169 AATATCCACAAGGTTAAGTCATCAAATCTTTGTTC
1 AATATCCACAAGGTTAAGTCATCAAATCTTTGTTC
99465204 AAT
1 AAT
99465207 TTTCAAAAGC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.36
Consensus pattern (35 bp):
AATATCCACAAGGTTAAGTCATCAAATCTTTGTTC
Found at i:99477997 original size:2 final size:2
Alignment explanation
Indices: 99477990--99478015 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
99477980 GAAAAGTTCA
99477990 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
99478016 CTTAAGAGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:99479674 original size:15 final size:16
Alignment explanation
Indices: 99479654--99479691 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
99479644 GTAACTTCAG
99479654 ACAATTATGTAC-CAT
1 ACAATTATGTACACAT
*
99479669 ACAATTATTTACACAT
1 ACAATTATGTACACAT
*
99479685 TCAATTA
1 ACAATTA
99479692 AGTGAAGTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.42, C:0.18, G:0.03, T:0.37
Consensus pattern (16 bp):
ACAATTATGTACACAT
Found at i:99482704 original size:27 final size:27
Alignment explanation
Indices: 99482662--99482716 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
99482652 CGAAATTATG
*
99482662 GTGCAAAGCAATTAGCTTACTATTCAT
1 GTGCAAAGCAACTAGCTTACTATTCAT
*
99482689 GTGCAAAGCAACTAGCTTATTATTCAT
1 GTGCAAAGCAACTAGCTTACTATTCAT
99482716 G
1 G
99482717 GTAGATTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (27 bp):
GTGCAAAGCAACTAGCTTACTATTCAT
Found at i:99487559 original size:12 final size:12
Alignment explanation
Indices: 99487542--99487566 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
99487532 AGGATATGAC
99487542 TAAAGCTAAAGA
1 TAAAGCTAAAGA
99487554 TAAAGCTAAAGA
1 TAAAGCTAAAGA
99487566 T
1 T
99487567 GAAGACTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.08, G:0.16, T:0.20
Consensus pattern (12 bp):
TAAAGCTAAAGA
Found at i:99488517 original size:20 final size:20
Alignment explanation
Indices: 99488447--99488522 Score: 62
Period size: 20 Copynumber: 3.8 Consensus size: 20
99488437 TGATTGACTC
* *
99488447 AATTCTTTTGTTGTTTGAATC
1 AATTC-TTTATTGTTTGAATA
* * * * *
99488468 CATTGTTTATTATTTGACTT
1 AATTCTTTATTGTTTGAATA
* *
99488488 AATCCATTATTGTTTGAATA
1 AATTCTTTATTGTTTGAATA
99488508 AATTCTTTATTGTTT
1 AATTCTTTATTGTTT
99488523 AGCTCAATTT
Statistics
Matches: 40, Mismatches: 15, Indels: 1
0.71 0.27 0.02
Matches are distributed among these distances:
20 37 0.93
21 3 0.08
ACGTcount: A:0.24, C:0.09, G:0.11, T:0.57
Consensus pattern (20 bp):
AATTCTTTATTGTTTGAATA
Found at i:99492471 original size:13 final size:13
Alignment explanation
Indices: 99492455--99492481 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
99492445 ACGACTGTGA
99492455 CACACGGACGTGT
1 CACACGGACGTGT
99492468 CACACGGACGTGT
1 CACACGGACGTGT
99492481 C
1 C
99492482 CCTACTGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.33, G:0.30, T:0.15
Consensus pattern (13 bp):
CACACGGACGTGT
Found at i:99497640 original size:46 final size:46
Alignment explanation
Indices: 99497588--99497701 Score: 183
Period size: 46 Copynumber: 2.5 Consensus size: 46
99497578 AGAATAGAAA
*
99497588 TGAGCCATGTAAGTCCATATTAGAAATATGGCTTCAGAGACAGGAT
1 TGAGCCATGTAAGTCCATATTAGAAATATGACTTCAGAGACAGGAT
* **
99497634 TGAGCCATGTAAGTCCTTATTAGAAATATGACTTTGGAGACAGGAT
1 TGAGCCATGTAAGTCCATATTAGAAATATGACTTCAGAGACAGGAT
*
99497680 TGAGCCATGGAAGTCCATATTA
1 TGAGCCATGTAAGTCCATATTA
99497702 TATATGGCAT
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 62 1.00
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (46 bp):
TGAGCCATGTAAGTCCATATTAGAAATATGACTTCAGAGACAGGAT
Found at i:99506845 original size:46 final size:46
Alignment explanation
Indices: 99506738--99506867 Score: 172
Period size: 46 Copynumber: 2.8 Consensus size: 46
99506728 GCCACATTAT
* * *
99506738 GAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGAC
1 GAGAGCCAGTGTAAGA-CATGTCTAGGACAT-GCATCGACATCGAGAC
* * *
99506786 GAGAGCTAGTGTAAGACATGTCTAGGACATGCATCGACCTCGAGAT
1 GAGAGCCAGTGTAAGACATGTCTAGGACATGCATCGACATCGAGAC
99506832 GTA-AGCCAGTGTAAGACATGTCTAGGACATGCATCG
1 G-AGAGCCAGTGTAAGACATGTCTAGGACATGCATCG
99506868 GCTACAAAAT
Statistics
Matches: 76, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
46 45 0.59
47 15 0.20
48 16 0.21
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.22
Consensus pattern (46 bp):
GAGAGCCAGTGTAAGACATGTCTAGGACATGCATCGACATCGAGAC
Found at i:99520764 original size:10 final size:10
Alignment explanation
Indices: 99520744--99520788 Score: 56
Period size: 10 Copynumber: 4.4 Consensus size: 10
99520734 TCTCAACAAA
99520744 AATTACAAAAT
1 AATT-CAAAAT
99520755 AATTCAAAAT
1 AATTCAAAAT
*
99520765 AATT-ATAAAA
1 AATTCA-AAAT
99520775 AATTCAAAAT
1 AATTCAAAAT
99520785 AATT
1 AATT
99520789 TTTAAATTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
9 1 0.03
10 24 0.80
11 5 0.17
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (10 bp):
AATTCAAAAT
Found at i:99520780 original size:20 final size:20
Alignment explanation
Indices: 99520744--99520846 Score: 77
Period size: 20 Copynumber: 5.2 Consensus size: 20
99520734 TCTCAACAAA
*
99520744 AATTACAAAATAATTCAAAAT
1 AATTATAAAA-AATTCAAAAT
99520765 AATTATAAAAAATTCAAAAT
1 AATTATAAAAAATTCAAAAT
** * *
99520785 AATT-TTTAAATTTCAAAAA
1 AATTATAAAAAATTCAAAAT
*
99520804 AATATATAAAAAGTT-AAAAT
1 AAT-TATAAAAAATTCAAAAT
* * *
99520824 -TTTAAAAAAAAATCTAAAAT
1 AATTATAAAAAATTC-AAAAT
99520844 AAT
1 AAT
99520847 AATTTTGGAA
Statistics
Matches: 63, Mismatches: 14, Indels: 10
0.72 0.16 0.11
Matches are distributed among these distances:
18 8 0.13
19 15 0.24
20 24 0.38
21 16 0.25
ACGTcount: A:0.62, C:0.05, G:0.01, T:0.32
Consensus pattern (20 bp):
AATTATAAAAAATTCAAAAT
Found at i:99520813 original size:19 final size:19
Alignment explanation
Indices: 99520755--99520814 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
99520745 ATTACAAAAT
* *
99520755 AATTCAAAATAATTATAAAA
1 AATTCAAAA-AAATATATAA
* * *
99520775 AATTCAAAATAATTTTTAA
1 AATTCAAAAAAATATATAA
*
99520794 ATTTCAAAAAAATATATAA
1 AATTCAAAAAAATATATAA
99520813 AA
1 AA
99520815 AGTTAAAATT
Statistics
Matches: 30, Mismatches: 10, Indels: 1
0.73 0.24 0.02
Matches are distributed among these distances:
19 21 0.70
20 9 0.30
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (19 bp):
AATTCAAAAAAATATATAA
Found at i:99524506 original size:11 final size:12
Alignment explanation
Indices: 99524482--99524518 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
99524472 CAGCAACTCA
99524482 ATTTT-ATAACT
1 ATTTTGATAACT
99524493 ATTTTGATAA-T
1 ATTTTGATAACT
*
99524504 ATTTTGATTACT
1 ATTTTGATAACT
99524516 ATT
1 ATT
99524519 ATTCCACACA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 15 0.65
12 8 0.35
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.57
Consensus pattern (12 bp):
ATTTTGATAACT
Found at i:99527668 original size:17 final size:19
Alignment explanation
Indices: 99527648--99527688 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
99527638 ATATAATTTT
*
99527648 AAAATATA-T-AATACATC
1 AAAATATACTAAAAACATC
99527665 AAAA-ATACTAAAAACATC
1 AAAATATACTAAAAACATC
99527683 AAAATA
1 AAAATA
99527689 AATATTTCCC
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 3 0.15
17 5 0.25
18 11 0.55
19 1 0.05
ACGTcount: A:0.66, C:0.12, G:0.00, T:0.22
Consensus pattern (19 bp):
AAAATATACTAAAAACATC
Found at i:99528096 original size:54 final size:54
Alignment explanation
Indices: 99528014--99528520 Score: 227
Period size: 54 Copynumber: 9.4 Consensus size: 54
99528004 ACGGGCTTGT
** * *
99528014 CGATTTAAGATCGCAGCCTTATACTTACAAGATTTTTCGAATTTTGCAACTCGC
1 CGATTTAAGATTACAGCCTTATACTTACAAGATTTTTCGAATCTTGCAACTCAC
* * *
99528068 CGATTTAAGATTACAGTCTTATACTTACAAGATTTTTCGAATCTTGTAGCTCAC
1 CGATTTAAGATTACAGCCTTATACTTACAAGATTTTTCGAATCTTGCAACTCAC
* * ** * * ***
99528122 CGATTTAATATTTA-AGCCTTATATTTACAAGATTTTTTTAATCTTTCAGCTTGT
1 CGATTTAAGA-TTACAGCCTTATACTTACAAGATTTTTCGAATCTTGCAACTCAC
* ** * * * * ** ***
99528176 TGATTTAAGATCGCACCCTTATATTTACAGGATTTTTCAAATCTTG-AGGTTTGT
1 CGATTTAAGATTACAGCCTTATACTTACAAGATTTTTCGAATCTTGCA-ACTCAC
* * * * * * *
99528230 CAATTTAAGATTGCAACCTTATACTTACAAGACTTTTT-AAATCTTCCAGCTCGC
1 CGATTTAAGATTACAGCCTTATACTTACAAGA-TTTTTCGAATCTTGCAACTCAC
** * * ** * *
99528284 AAATTTAAGATCACAGCCTTATACTTATAAGA-TTTTCTGAATCTTGC-GGTTAGA
1 CGATTTAAGATTACAGCCTTATACTTACAAGATTTTTC-GAATCTTGCAACTCA-C
* * ** * * * * ** *
99528338 TGATTTAATATCGCAACCTTATACTTACAATA-TTTTCTAAGTATTGCGGCTCGC
1 CGATTTAAGATTACAGCCTTATACTTACAAGATTTTTCGAA-TCTTGCAACTCAC
* * *** * * * * * ***
99528392 CAATTTAATATCGTAGCCTTATACCTACAGGATTTTTCAAATCTTGCGATTTGT
1 CGATTTAAGATTACAGCCTTATACTTACAAGATTTTTCGAATCTTGCAACTCAC
* * * * * **
99528446 AGATTTAAGATCACAACCTTATACTTACAAAATTTTTTGAATCTTGCTGCTCAC
1 CGATTTAAGATTACAGCCTTATACTTACAAGATTTTTCGAATCTTGCAACTCAC
*
99528500 CGATTTAAAATCT-CAGCCTTA
1 CGATTTAAGAT-TACAGCCTTA
99528521 GGGTCGTTTG
Statistics
Matches: 346, Mismatches: 95, Indels: 24
0.74 0.20 0.05
Matches are distributed among these distances:
52 4 0.01
53 6 0.02
54 318 0.92
55 18 0.05
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.39
Consensus pattern (54 bp):
CGATTTAAGATTACAGCCTTATACTTACAAGATTTTTCGAATCTTGCAACTCAC
Found at i:99528290 original size:108 final size:107
Alignment explanation
Indices: 99528010--99528520 Score: 418
Period size: 108 Copynumber: 4.7 Consensus size: 107
99528000 AGGAACGGGC
* * * * *
99528010 TTGTCGATTTAAGATCGCAGCCTTATACTTACAAGATTTTTCGAATTTTGCAACTCGCCGATTTA
1 TTGTCGATTTAAGATCGCAACCTTATACTTACAAGATTTTT-AAATCTTGCAGCTCGCCAATTTA
* * * *
99528075 AGATTACAGTCTTATACTTACAAGATTTTTCGAATCTTGTA-GC
65 AGATCACAGCCTTATACTTACAAGATTTTTCAAATCTTG-AGGT
*** * ** * * * * ***
99528118 TCACCGATTTAATAT-TTAAGCCTTATATTTACAAGATTTTTTTAATCTTTCAGCTTGTTGATTT
1 TTGTCGATTTAAGATCGCAA-CCTTATACTTACAAGA-TTTTTAAATCTTGCAGCTCGCCAATTT
* * * *
99528182 AAGATCGCACCCTTATATTTACAGGATTTTTCAAATCTTGAGGT
64 AAGATCACAGCCTTATACTTACAAGATTTTTCAAATCTTGAGGT
* * * *
99528226 TTGTCAATTTAAGATTGCAACCTTATACTTACAAGACTTTTTAAATCTTCCAGCTCGCAAATTTA
1 TTGTCGATTTAAGATCGCAACCTTATACTTACAAGA-TTTTTAAATCTTGCAGCTCGCCAATTTA
* * *
99528291 AGATCACAGCCTTATACTTATAAGA-TTTTCTGAATCTTGCGGT
65 AGATCACAGCCTTATACTTACAAGATTTTTC-AAATCTTGAGGT
* * * * * *
99528334 TAGAT-GATTTAATATCGCAACCTTATACTTACAATATTTTCTAAGTATTGCGGCTCGCCAATTT
1 TTG-TCGATTTAAGATCGCAACCTTATACTTACAAGATTTT-TAAATCTTGCAGCTCGCCAATTT
* ** * * * *
99528398 AATATCGTAGCCTTATACCTACAGGATTTTTCAAATCTTGCGAT
64 AAGATCACAGCCTTATACTTACAAGATTTTTCAAATCTTGAGGT
* * * * * * *
99528442 TTGTAGATTTAAGATCACAACCTTATACTTACAAAATTTTTTGAATCTTGCTGCTCACCGATTTA
1 TTGTCGATTTAAGATCGCAACCTTATACTTACAAGA-TTTTTAAATCTTGCAGCTCGCCAATTTA
* *
99528507 AAATCTCAGCCTTA
65 AGATCACAGCCTTA
99528521 GGGTCGTTTG
Statistics
Matches: 317, Mismatches: 76, Indels: 20
0.77 0.18 0.05
Matches are distributed among these distances:
107 12 0.04
108 288 0.91
109 17 0.05
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.40
Consensus pattern (107 bp):
TTGTCGATTTAAGATCGCAACCTTATACTTACAAGATTTTTAAATCTTGCAGCTCGCCAATTTAA
GATCACAGCCTTATACTTACAAGATTTTTCAAATCTTGAGGT
Found at i:99528304 original size:162 final size:161
Alignment explanation
Indices: 99528008--99528436 Score: 389
Period size: 162 Copynumber: 2.7 Consensus size: 161
99527998 TGAGGAACGG
* * * * *
99528008 GCTTGTCGATTTAAGATCGCAGCCTTATACTTACAAGATTTTTCGAATTTTGCAACTCGCCGATT
1 GCTTGTTGATTTAAGATCGCAACCTTATACTTACAAGATTTTTCAAATCTTGCAACTCGCCAATT
** * ** ** * *
99528073 TAAGATTACAGTCTTATACTTACAAGATTTTTCGAATCTTGTAGCTCACCGATTTAATATTTAAG
66 TAAGATTACAACCTTATACTTACAAGATTTTTCAAATCTTCCAGCTCACAAATTTAAGATTCAAG
* * * *
99528138 CCTTATATTTACAAGATTTTTTTAATCTTTC
131 CCTTATACTTACAAGATTTTCTGAATCTTGC
* * * ** * *
99528169 AGCTTGTTGATTTAAGATCGCACCCTTATATTTACAGGATTTTTCAAATCTTG-AGGTTTGTCAA
1 -GCTTGTTGATTTAAGATCGCAACCTTATACTTACAAGATTTTTCAAATCTTGCA-ACTCGCCAA
* *
99528233 TTTAAGATTGCAACCTTATACTTACAAGACTTTTT-AAATCTTCCAGCTCGCAAATTTAAGA-TC
64 TTTAAGATTACAACCTTATACTTACAAGA-TTTTTCAAATCTTCCAGCTCACAAATTTAAGATTC
*
99528296 ACAGCCTTATACTTATAAGATTTTCTGAATCTTGC
128 A-AGCCTTATACTTACAAGATTTTCTGAATCTTGC
* * * * * * **
99528331 GGTTAGATGATTTAATATCGCAACCTTATACTTACAATA-TTTTCTAAGTATTGCGGCTCGCCAA
1 GCTT-GTTGATTTAAGATCGCAACCTTATACTTACAAGATTTTTC-AAATCTTGCAACTCGCCAA
* *** * * *
99528395 TTTAATATCGTAGCCTTATACCTACAGGATTTTTCAAATCTT
64 TTTAAGATTACAACCTTATACTTACAAGATTTTTCAAATCTT
99528437 GCGATTTGTA
Statistics
Matches: 214, Mismatches: 46, Indels: 14
0.78 0.17 0.05
Matches are distributed among these distances:
161 16 0.07
162 193 0.90
163 5 0.02
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (161 bp):
GCTTGTTGATTTAAGATCGCAACCTTATACTTACAAGATTTTTCAAATCTTGCAACTCGCCAATT
TAAGATTACAACCTTATACTTACAAGATTTTTCAAATCTTCCAGCTCACAAATTTAAGATTCAAG
CCTTATACTTACAAGATTTTCTGAATCTTGC
Found at i:99529538 original size:31 final size:31
Alignment explanation
Indices: 99529500--99529563 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
99529490 CCTTGAAAGT
99529500 CAGAGATAAACTACATCGTGATATTGATGTA
1 CAGAGATAAACTACATCGTGATATTGATGTA
99529531 CAGAGATAAACTACATCGTGATATTGATGTA
1 CAGAGATAAACTACATCGTGATATTGATGTA
99529562 CA
1 CA
99529564 TGTTACTTCT
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:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (31 bp):
CAGAGATAAACTACATCGTGATATTGATGTA
Found at i:99531235 original size:10 final size:10
Alignment explanation
Indices: 99531203--99531248 Score: 58
Period size: 10 Copynumber: 4.6 Consensus size: 10
99531193 TTAAATTCTA
99531203 AAAGATAAAT
1 AAAGATAAAT
99531213 ACAA-ATAAAT
1 A-AAGATAAAT
* *
99531223 AAAGATGATT
1 AAAGATAAAT
99531233 AAAGATAAAT
1 AAAGATAAAT
99531243 AAAGAT
1 AAAGAT
99531249 CAAAGCTAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
9 2 0.07
10 26 0.87
11 2 0.07
ACGTcount: A:0.65, C:0.02, G:0.11, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:99531855 original size:23 final size:23
Alignment explanation
Indices: 99531829--99531878 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
99531819 TTGATCGCAT
* *
99531829 TTTTTACAATACAGTTTGAAGTA
1 TTTTCACAATACAGCTTGAAGTA
*
99531852 TTTTCACAATACAGCTTGTAGTA
1 TTTTCACAATACAGCTTGAAGTA
99531875 TTTT
1 TTTT
99531879 GTAGTACCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.46
Consensus pattern (23 bp):
TTTTCACAATACAGCTTGAAGTA
Found at i:99532917 original size:5 final size:5
Alignment explanation
Indices: 99532907--99532934 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
99532897 TTGTGTGTTC
99532907 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
99532935 TCACAAATTG
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:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:99532966 original size:28 final size:28
Alignment explanation
Indices: 99532926--99532981 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
99532916 TTTTATTTTA
99532926 TTTTATTTTTCACAAATTGGTATCCGAG
1 TTTTATTTTTCACAAATTGGTATCCGAG
99532954 TTTTATTTTTCACAAATTGGTATCCGAG
1 TTTTATTTTTCACAAATTGGTATCCGAG
99532982 CTTCCGGGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.46
Consensus pattern (28 bp):
TTTTATTTTTCACAAATTGGTATCCGAG
Found at i:99543006 original size:11 final size:11
Alignment explanation
Indices: 99542992--99543030 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
99542982 ATTTTGATGT
*
99542992 TATTTTATTAC
1 TATTTTACTAC
*
99543003 TATTTTACTAT
1 TATTTTACTAC
*
99543014 TATATTACTAC
1 TATTTTACTAC
99543025 TATTTT
1 TATTTT
99543031 GTTGTTATTG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.28, C:0.10, G:0.00, T:0.62
Consensus pattern (11 bp):
TATTTTACTAC
Found at i:99543038 original size:22 final size:21
Alignment explanation
Indices: 99542952--99543039 Score: 68
Period size: 22 Copynumber: 4.1 Consensus size: 21
99542942 TTCACTGATG
*
99542952 TTTACTACTGTTTTGTTGTTA
1 TTTACTACTATTTTGTTGTTA
** * * *
99542973 TTTGTTGCCATTTTGATGTTA
1 TTTACTACTATTTTGTTGTTA
* ** *
99542994 TTTTATTACTATTTTACTATTA
1 -TTTACTACTATTTTGTTGTTA
99543016 TATTACTACTATTTTGTTGTTA
1 T-TTACTACTATTTTGTTGTTA
99543038 TT
1 TT
99543040 GTTTGAATAT
Statistics
Matches: 49, Mismatches: 16, Indels: 4
0.71 0.23 0.06
Matches are distributed among these distances:
21 17 0.35
22 32 0.65
ACGTcount: A:0.19, C:0.09, G:0.10, T:0.61
Consensus pattern (21 bp):
TTTACTACTATTTTGTTGTTA
Found at i:99544175 original size:24 final size:24
Alignment explanation
Indices: 99544130--99544176 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
99544120 ATACTCGTTT
*
99544130 TTTCACTTTGATATTATTTTTTTG
1 TTTCACTTTGATATTATATTTTTG
*
99544154 TTTCATTTTGATATT-TGATTTTT
1 TTTCACTTTGATATTAT-ATTTTT
99544177 ACATTGTTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.17, C:0.06, G:0.09, T:0.68
Consensus pattern (24 bp):
TTTCACTTTGATATTATATTTTTG
Found at i:99544324 original size:9 final size:9
Alignment explanation
Indices: 99544307--99544382 Score: 50
Period size: 9 Copynumber: 8.3 Consensus size: 9
99544297 TTGACCAGTC
*
99544307 AAAATTATT
1 AAAAATATT
99544316 AAAAATATT
1 AAAAATATT
99544325 AAAAAT-TGT
1 AAAAATAT-T
*
99544334 -AAAAT-GT
1 AAAAATATT
*
99544341 AAAAATTTGT
1 AAAAATAT-T
*
99544351 GAAAATCATT
1 AAAAAT-ATT
*
99544361 AAAAAATTTT
1 -AAAAATATT
99544371 AAAAATATT
1 AAAAATATT
99544380 AAA
1 AAA
99544383 GATTGCAAAT
Statistics
Matches: 53, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
7 1 0.02
8 11 0.21
9 26 0.49
10 9 0.17
11 6 0.11
ACGTcount: A:0.59, C:0.01, G:0.05, T:0.34
Consensus pattern (9 bp):
AAAAATATT
Found at i:99544374 original size:55 final size:56
Alignment explanation
Indices: 99544307--99544441 Score: 154
Period size: 55 Copynumber: 2.4 Consensus size: 56
99544297 TTGACCAGTC
* * *
99544307 AAAATTATTAAAAATATTAAAAATTGTAAA-A-TGTA-AAAATTTGTGAAAATCATTAA
1 AAAATT-TTAAAAATATTAAAAATTGCAAATATTATATAAAAGTTGTGAAAATCA-T-A
*
99544363 AAAATTTTAAAAATATTAAAGATTGCAAATATTATATAAAAGTTGTGAAAATCATA
1 AAAATTTTAAAAATATTAAAAATTGCAAATATTATATAAAAGTTGTGAAAATCATA
*
99544419 AGAA-TTTAAAAA-ATGTAAAAATT
1 AAAATTTTAAAAATAT-TAAAAATT
99544442 TTTATAATTT
Statistics
Matches: 69, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
54 2 0.03
55 36 0.52
56 11 0.16
57 4 0.06
58 16 0.23
ACGTcount: A:0.56, C:0.02, G:0.08, T:0.33
Consensus pattern (56 bp):
AAAATTTTAAAAATATTAAAAATTGCAAATATTATATAAAAGTTGTGAAAATCATA
Found at i:99544452 original size:8 final size:9
Alignment explanation
Indices: 99544438--99544462 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
99544428 AAAATGTAAA
99544438 AATTTTTAT
1 AATTTTTAT
99544447 AATTTTTAT
1 AATTTTTAT
99544456 AATTTTT
1 AATTTTT
99544463 TCTTAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
AATTTTTAT
Found at i:99544735 original size:18 final size:18
Alignment explanation
Indices: 99544682--99544745 Score: 60
Period size: 19 Copynumber: 3.5 Consensus size: 18
99544672 AGTTTTACAA
99544682 TTTTAATATT-TTTAA-AT
1 TTTTAA-ATTATTTAATAT
* * *
99544699 TTTTTAATGATTTCCATAT
1 TTTTAAATTATTT-AATAT
99544718 TTTTAAATTATTTAATAT
1 TTTTAAATTATTTAATAT
99544736 TTTCTAAATT
1 TTT-TAAATT
99544746 TAAAAATTAC
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
16 2 0.05
17 8 0.22
18 8 0.22
19 19 0.51
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.61
Consensus pattern (18 bp):
TTTTAAATTATTTAATAT
Found at i:99544739 original size:27 final size:27
Alignment explanation
Indices: 99544687--99544737 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
99544677 TACAATTTTA
*
99544687 ATATTTTTAAATTTTTTAATGATTTCC
1 ATATTTTTAAATTATTTAATGATTTCC
99544714 ATATTTTTAAATTATTTAAT-ATTT
1 ATATTTTTAAATTATTTAATGATTT
99544738 TCTAAATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (27 bp):
ATATTTTTAAATTATTTAATGATTTCC
Found at i:99544746 original size:27 final size:27
Alignment explanation
Indices: 99544689--99544746 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
99544679 CAATTTTAAT
* *
99544689 ATTTTTAAATTTTTTAATGATTTCCAT
1 ATTTTTAAATTATTTAATGATTTCCAA
*
99544716 ATTTTTAAATTATTTAAT-ATTTTCTAA
1 ATTTTTAAATTATTTAATGA-TTTCCAA
99544743 ATTT
1 ATTT
99544747 AAAAATTACA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (27 bp):
ATTTTTAAATTATTTAATGATTTCCAA
Found at i:99560486 original size:19 final size:19
Alignment explanation
Indices: 99560462--99560508 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
99560452 GCAGATATAT
99560462 ATATATTTTTGAA-AAATAA
1 ATATATTTTTGAATAAA-AA
*
99560481 ATATATTTTTTAATAAAAA
1 ATATATTTTTGAATAAAAA
*
99560500 ATAAATTTT
1 ATATATTTT
99560509 AAAATTATAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 22 0.88
20 3 0.12
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (19 bp):
ATATATTTTTGAATAAAAA
Found at i:99566285 original size:15 final size:15
Alignment explanation
Indices: 99566265--99566294 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
99566255 AAAGTTTCCT
*
99566265 TTGCCTGCTATTACA
1 TTGCCTGCAATTACA
99566280 TTGCCTGCAATTACA
1 TTGCCTGCAATTACA
99566295 AACAGTTTCC
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:0.23, C:0.27, G:0.13, T:0.37
Consensus pattern (15 bp):
TTGCCTGCAATTACA
Found at i:99567068 original size:21 final size:21
Alignment explanation
Indices: 99567044--99567084 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
99567034 TCTTTTAAAA
*
99567044 AGATATAACTATTAAAGTAAG
1 AGATACAACTATTAAAGTAAG
*
99567065 AGATACAACTATTCAAGTAA
1 AGATACAACTATTAAAGTAA
99567085 AGTATCTTAA
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:0.51, C:0.10, G:0.12, T:0.27
Consensus pattern (21 bp):
AGATACAACTATTAAAGTAAG
Found at i:99574046 original size:19 final size:20
Alignment explanation
Indices: 99573982--99574033 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
99573972 CGGACAAGGG
99573982 ACACGGGCGTGTCCCAAGCC
1 ACACGGGCGTGTCCCAAGCC
99574002 ACACGGGCGTGTCCCAAGCC
1 ACACGGGCGTGTCCCAAGCC
99574022 ACACGGGCGTGT
1 ACACGGGCGTGT
99574034 GGAATCCACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.19, C:0.37, G:0.33, T:0.12
Consensus pattern (20 bp):
ACACGGGCGTGTCCCAAGCC
Found at i:99578248 original size:46 final size:46
Alignment explanation
Indices: 99578200--99578376 Score: 291
Period size: 46 Copynumber: 3.8 Consensus size: 46
99578190 GCTCTCTGAT
** *
99578200 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
*
99578246 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
** *
99578292 GGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
99578338 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCA
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCA
99578377 TCACGTCAAA
Statistics
Matches: 121, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 121 1.00
ACGTcount: A:0.40, C:0.14, G:0.25, T:0.20
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
Found at i:99578682 original size:23 final size:25
Alignment explanation
Indices: 99578638--99578683 Score: 60
Period size: 23 Copynumber: 1.9 Consensus size: 25
99578628 ATAAATATTC
*
99578638 ATAAAATATATGGAAATGATGAAGT
1 ATAAAATATATGGAAATAATGAAGT
*
99578663 ATAAAATAT-T-GATATAATGAA
1 ATAAAATATATGGAAATAATGAA
99578684 ATGAATGATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 9 0.47
24 1 0.05
25 9 0.47
ACGTcount: A:0.54, C:0.00, G:0.15, T:0.30
Consensus pattern (25 bp):
ATAAAATATATGGAAATAATGAAGT
Found at i:99579156 original size:5 final size:5
Alignment explanation
Indices: 99579146--99579173 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
99579136 TTGTGTGTTC
99579146 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
99579174 CACACCTTTT
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:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:99580601 original size:15 final size:15
Alignment explanation
Indices: 99580581--99580611 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
99580571 TATTCAGTGT
*
99580581 GCAAATAAATTTCAA
1 GCAAATAAACTTCAA
99580596 GCAAATAAACTTCAA
1 GCAAATAAACTTCAA
99580611 G
1 G
99580612 GATACAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.16, G:0.10, T:0.23
Consensus pattern (15 bp):
GCAAATAAACTTCAA
Found at i:99582214 original size:46 final size:46
Alignment explanation
Indices: 99582149--99582422 Score: 361
Period size: 46 Copynumber: 6.0 Consensus size: 46
99582139 TTATCTTTGA
* * * * *
99582149 CATGATGCCATAGTGTCTTTCAACTATAGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGT
*
99582195 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * * **
99582241 CACGCTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* *
99582287 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * * *
99582333 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATATCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* *
99582379 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT
99582423 ATCAGAGAGC
Statistics
Matches: 206, Mismatches: 21, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 4 0.02
46 202 0.98
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
Found at i:99582311 original size:92 final size:92
Alignment explanation
Indices: 99582154--99582426 Score: 402
Period size: 92 Copynumber: 3.0 Consensus size: 92
99582144 TTTGACATGA
* * * * *
99582154 TGCCATAGTGTCTTTCAACTATAGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAAC
*
99582219 CATGGTCTTATTCATTTCATGTCACGC
66 CATGGTCTTATTCATTTCATATCACGC
* *
99582246 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAAC
*
99582311 CATGGTCTTATTCATTTCATATCACGT
66 CATGGTCTTATTCATTTCATATCACGC
* * * * *
99582338 TGCCATGGTATCTTTCAACCATGGTCTTACACATATCATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAAC
**
99582403 CATGGTCTTACACATTTCATATCA
66 CATGGTCTTATTCATTTCATATCA
99582427 GAGAGCACAC
Statistics
Matches: 163, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
92 163 1.00
ACGTcount: A:0.22, C:0.25, G:0.14, T:0.40
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAAC
CATGGTCTTATTCATTTCATATCACGC
Found at i:99592144 original size:24 final size:25
Alignment explanation
Indices: 99592095--99592145 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
99592085 AAGTCTCCAT
* *
99592095 AACTTTAAAGGGTTCCATTATGGGG
1 AACTTCAAAGGGTTCCATTATAGGG
99592120 AACTTCAAAGGGTT-CATTATAGGG
1 AACTTCAAAGGGTTCCATTATAGGG
99592144 AA
1 AA
99592146 ATTACTCCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 11 0.46
25 13 0.54
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.29
Consensus pattern (25 bp):
AACTTCAAAGGGTTCCATTATAGGG
Found at i:99592497 original size:20 final size:21
Alignment explanation
Indices: 99592458--99592530 Score: 73
Period size: 20 Copynumber: 3.6 Consensus size: 21
99592448 CAATATTACA
* *
99592458 AAAAATTATGATAGAA-TACC
1 AAAACTTATGAGAGAAGTACC
99592478 AAGAA-TTATGAGA-AAGTACC
1 AA-AACTTATGAGAGAAGTACC
* *
99592498 AAAAGTTAT-AAAGAAGTACC
1 AAAACTTATGAGAGAAGTACC
99592518 AAAACTTATGAGA
1 AAAACTTATGAGA
99592531 ATGAATCAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
19 6 0.14
20 34 0.77
21 4 0.09
ACGTcount: A:0.53, C:0.10, G:0.15, T:0.22
Consensus pattern (21 bp):
AAAACTTATGAGAGAAGTACC
Found at i:99592867 original size:5 final size:5
Alignment explanation
Indices: 99592857--99592888 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
99592847 TTGTGTGTTC
99592857 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
99592889 TCACAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:99592871 original size:9 final size:9
Alignment explanation
Indices: 99592857--99592887 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
99592847 TTGTGTGTTC
99592857 TTTATTTTA
1 TTTATTTTA
99592866 TTTATTTTA
1 TTTATTTTA
99592875 TTTTATTTTA
1 -TTTATTTTA
99592885 TTT
1 TTT
99592888 TTCACAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:99597306 original size:5 final size:5
Alignment explanation
Indices: 99597296--99597323 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
99597286 TTGTGTGTTC
99597296 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
99597324 TCACAAAAAT
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:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:99597537 original size:74 final size:76
Alignment explanation
Indices: 99597410--99597611 Score: 173
Period size: 74 Copynumber: 2.6 Consensus size: 76
99597400 AAAAGTTACG
* * *
99597410 AGGAAATACAAAAAAAATGAGTAAGTACCAAAAATTATGAGTGAAGAC-TAAAAATTATGAGGG-
1 AGGAAATACAAAAAAAATGAGTAAGCACCAAAAATTATGAGAGAAGACAAAAAAATTATGAGGGA
99597473 ATACAAAAAAA
66 ATACAAAAAAA
* * * *
99597484 AGGAATTACCAAAAAAATGAAG-ATGCACCAAAAATTATGA-AGATATACAAAAAAAAATTATGA
1 AGGAAATACAAAAAAAATG-AGTAAGCACCAAAAATTATGAGAGA-AGAC--AAAAAAATTATGA
99597547 GGGAATACCAAAAAATATGA
62 GGGAATA-C-AAAAA-A--A
* * *
99597567 AGG-AATACTAAAAAAATATGAGGAAGTACC-AAAATTATGAAAGAA
1 AGGAAATAC-AAAAAAA-ATGAGTAAGCACCAAAAATTATGAGAGAA
99597612 TACCATAAAA
Statistics
Matches: 102, Mismatches: 11, Indels: 21
0.76 0.08 0.16
Matches are distributed among these distances:
73 2 0.02
74 36 0.35
75 2 0.02
77 14 0.14
78 3 0.03
79 1 0.01
80 5 0.05
81 1 0.01
82 4 0.04
83 23 0.23
84 11 0.11
ACGTcount: A:0.58, C:0.08, G:0.16, T:0.18
Consensus pattern (76 bp):
AGGAAATACAAAAAAAATGAGTAAGCACCAAAAATTATGAGAGAAGACAAAAAAATTATGAGGGA
ATACAAAAAAA
Found at i:99597554 original size:23 final size:20
Alignment explanation
Indices: 99597534--99597589 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 20
99597524 AGATATACAA
99597534 AAAAAAATTATGAGGGAATAC
1 AAAAAAA-TATGAGGGAATAC
* *
99597555 CAAAAAATATGAAGGAATAC
1 AAAAAAATATGAGGGAATAC
99597575 TAAAAAAATATGAGG
1 -AAAAAAATATGAGG
99597590 AAGTACCAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 12 0.40
21 18 0.60
ACGTcount: A:0.59, C:0.05, G:0.18, T:0.18
Consensus pattern (20 bp):
AAAAAAATATGAGGGAATAC
Found at i:99597560 original size:43 final size:41
Alignment explanation
Indices: 99597414--99597614 Score: 135
Period size: 40 Copynumber: 5.1 Consensus size: 41
99597404 GTTACGAGGA
*
99597414 AATAC-AAAAAAA-ATGAGTAAGTACCAAAAATTATG-AGTG
1 AATACAAAAAAAATATGAGGAAGTACCAAAAATTATGAAG-G
* * * *
99597453 AAGAC-TAAAAATTATGAGGGA-TA-CAAAAA--A--AAGG
1 AATACAAAAAAAATATGAGGAAGTACCAAAAATTATGAAGG
* * * *
99597487 AATTAC-CAAAAAA-ATGAAGATGCACCAAAAATTATGAA-G
1 AA-TACAAAAAAAATATGAGGAAGTACCAAAAATTATGAAGG
*
99597526 ATATACAAAAAAAAATTATGAGGGAA-TACCAAAAAATATGAAGG
1 A-ATAC-AAAAAAAA-TATGA-GGAAGTACCAAAAATTATGAAGG
* *
99597570 AATACTAAAAAAATATGAGGAAGTACC-AAAATTATGAAAG
1 AATACAAAAAAAATATGAGGAAGTACCAAAAATTATGAAGG
99597610 AATAC
1 AATAC
99597615 CATAAAACTA
Statistics
Matches: 125, Mismatches: 20, Indels: 33
0.70 0.11 0.19
Matches are distributed among these distances:
34 8 0.06
35 10 0.08
36 7 0.06
38 7 0.06
39 16 0.13
40 29 0.23
41 15 0.12
42 7 0.06
43 22 0.18
44 4 0.03
ACGTcount: A:0.58, C:0.08, G:0.15, T:0.18
Consensus pattern (41 bp):
AATACAAAAAAAATATGAGGAAGTACCAAAAATTATGAAGG
Found at i:99597561 original size:21 final size:21
Alignment explanation
Indices: 99597513--99597621 Score: 93
Period size: 20 Copynumber: 5.2 Consensus size: 21
99597503 AAGATGCACC
*
99597513 AAAAATTATGAA-GATATACAAAA
1 AAAAATTATGAAGGA-ATAC--CA
*
99597536 AAAAATTATGAGGGAATACCA
1 AAAAATTATGAAGGAATACCA
*
99597557 AAAAA-TATGAAGGAATACTA
1 AAAAATTATGAAGGAATACCA
*
99597577 AAAAAATATG-AGGAAGTACC-
1 AAAAATTATGAAGGAA-TACCA
*
99597597 -AAAATTATGAAAGAATACCA
1 AAAAATTATGAAGGAATACCA
*
99597617 TAAAA
1 AAAAA
99597622 CTAGGGAAAT
Statistics
Matches: 73, Mismatches: 7, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
19 12 0.16
20 27 0.37
21 17 0.23
23 15 0.21
24 2 0.03
ACGTcount: A:0.60, C:0.07, G:0.14, T:0.19
Consensus pattern (21 bp):
AAAAATTATGAAGGAATACCA
Found at i:99597565 original size:20 final size:19
Alignment explanation
Indices: 99597409--99597600 Score: 101
Period size: 20 Copynumber: 9.7 Consensus size: 19
99597399 AAAAAGTTAC
*
99597409 GAGGAAATA-CAAAAAAAAT
1 GAGG-AATACCAAAAAATAT
* *
99597428 GAGTAAGTACCAAAAATTAT
1 GAGGAA-TACCAAAAAATAT
* * *
99597448 GAGTGAAGACTAAAAATTAT
1 GAG-GAATACCAAAAAATAT
*
99597468 GAGGGATA-CAAAAAA-A-
1 GAGGAATACCAAAAAATAT
99597484 -AGGAATTACCAAAAAA-AT
1 GAGGAA-TACCAAAAAATAT
* *
99597502 GAAG-ATGCACCAAAAATTAT
1 GAGGAAT--ACCAAAAAATAT
* *
99597522 GAAGATATACAAAAAAAAATTAT
1 GAGGA-ATAC--CAAAAAA-TAT
99597545 GAGGGAATACCAAAAAATAT
1 GA-GGAATACCAAAAAATAT
*
99597565 GAAGGAATACTAAAAAAATAT
1 G-AGGAATAC-CAAAAAATAT
99597586 GAGGAAGTACCAAAA
1 GAGGAA-TACCAAAA
99597601 TTATGAAAGA
Statistics
Matches: 135, Mismatches: 19, Indels: 37
0.71 0.10 0.19
Matches are distributed among these distances:
15 4 0.03
16 2 0.01
17 10 0.07
18 8 0.06
19 18 0.13
20 53 0.39
21 22 0.16
22 7 0.05
23 9 0.07
24 2 0.01
ACGTcount: A:0.58, C:0.08, G:0.17, T:0.17
Consensus pattern (19 bp):
GAGGAATACCAAAAAATAT
Found at i:99597613 original size:60 final size:58
Alignment explanation
Indices: 99597537--99597703 Score: 146
Period size: 60 Copynumber: 2.8 Consensus size: 58
99597527 TATACAAAAA
** *
99597537 AAAATTATGAGGGAATACCAAAAAATATGAAGGAATACTAAAAAAATATGAGGAAGT-ACC
1 AAAATTATGAAAGAATACCAAAAAATATG-AGGAATA-TAAAAAAA-ATGACGAAGTAACC
* *
99597597 AAAATTATGAAAGAATACCATAAAACTA-G-GGAAATATTAAAAAAAATGACGATGTAACC
1 AAAATTATGAAAGAATACCA-AAAAATATGAGG-AATA-TAAAAAAAATGACGAAGTAACC
* *
99597656 AAAATATATGAGGAAGTATA--AAAAATTATGAGGGAATATAAAAAAAAT
1 AAAAT-TATGA--AAGAATACCAAAAAATATGA-GGAATATAAAAAAAAT
99597704 CTAAGAAAGT
Statistics
Matches: 90, Mismatches: 8, Indels: 18
0.78 0.07 0.16
Matches are distributed among these distances:
58 10 0.11
59 26 0.29
60 36 0.40
61 10 0.11
62 8 0.09
ACGTcount: A:0.57, C:0.07, G:0.16, T:0.20
Consensus pattern (58 bp):
AAAATTATGAAAGAATACCAAAAAATATGAGGAATATAAAAAAAATGACGAAGTAACC
Found at i:99597685 original size:20 final size:21
Alignment explanation
Indices: 99597656--99597700 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
99597646 CGATGTAACC
99597656 AAAATATATGA-GGAAGTATAA
1 AAAATATATGAGGGAA-TATAA
99597677 AAAAT-TATGAGGGAATATAA
1 AAAATATATGAGGGAATATAA
99597697 AAAA
1 AAAA
99597701 AATCTAAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.60, C:0.00, G:0.18, T:0.22
Consensus pattern (21 bp):
AAAATATATGAGGGAATATAA
Found at i:99597802 original size:18 final size:20
Alignment explanation
Indices: 99597767--99597804 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
99597757 TATAAAGATG
*
99597767 TATAAAAAATTATGGAGGAA
1 TATAAAAAATAATGGAGGAA
99597787 TATAAAAAA-AAT-GAGGAA
1 TATAAAAAATAATGGAGGAA
99597805 GTATCAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 2 0.12
20 9 0.53
ACGTcount: A:0.61, C:0.00, G:0.18, T:0.21
Consensus pattern (20 bp):
TATAAAAAATAATGGAGGAA
Found at i:99598129 original size:21 final size:21
Alignment explanation
Indices: 99598105--99598144 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
99598095 AAAAGTTCTT
*
99598105 AGAAAGTACCAAAAAAATATG
1 AGAAAGTACAAAAAAAATATG
* *
99598126 AGAATGTATAAAAAAAATA
1 AGAAAGTACAAAAAAAATA
99598145 CTAGAGAATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.65, C:0.05, G:0.12, T:0.17
Consensus pattern (21 bp):
AGAAAGTACAAAAAAAATATG
Found at i:99601772 original size:3 final size:3
Alignment explanation
Indices: 99601756--99602010 Score: 89
Period size: 3 Copynumber: 85.3 Consensus size: 3
99601746 TTAATTAATT
* * * *
99601756 TAA TAA T-A TGA TAA TAA TAA TAA TAA TAA -AA TAA TAC TAG CAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * ** * * * *
99601802 TCA TAA -ATA TAA TAG TAA CGA TAA AAA TAA TAA TAA CAA AAA AAA
1 TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * **
99601847 TAGA -AGA TAA TAA TAA TAA T-A TAT TAA TAA -ACT TAA TAA T-A TGC
1 TA-A TA-A TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA
* * * * *
99601891 TAA TAA AAA TAA TAA TAA TAA TAA GTTAA TAA TGA TAG TAC TGA T-A
1 TAA TAA TAA TAA TAA TAA TAA TAA --TAA TAA TAA TAA TAA TAA TAA
* * * * * * * *
99601937 TAG GAA AAA TAG TAA TCA TAA T-A TAT TAA TAA TAA TAG TAGA AAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA
*
99601982 TAA AAA TAAA TATA TAA -AA TAA TAA TAA T
1 TAA TAA T-AA TA-A TAA TAA TAA TAA TAA T
99602011 GACGACAGTT
Statistics
Matches: 183, Mismatches: 51, Indels: 36
0.68 0.19 0.13
Matches are distributed among these distances:
2 16 0.09
3 153 0.84
4 11 0.06
5 3 0.02
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:99601789 original size:20 final size:20
Alignment explanation
Indices: 99601756--99602010 Score: 77
Period size: 20 Copynumber: 13.1 Consensus size: 20
99601746 TTAATTAATT
**
99601756 TAATAATATGATAATAATAA
1 TAATAATAAAATAATAATAA
* *
99601776 TAATAATAAAATAATACTAG
1 TAATAATAAAATAATAATAA
* *
99601796 CAATAATCATAAAT-ATAATAG
1 TAATAAT-A-AAATAATAATAA
**
99601817 TAACGAT-AAA-AATAATAA
1 TAATAATAAAATAATAATAA
* *
99601835 TAACAA-AAAA-AAT-AGAA
1 TAATAATAAAATAATAATAA
*
99601852 -GATAAT--AATAATAAT-A
1 TAATAATAAAATAATAATAA
* *
99601868 TATTAATAAACTTAATAAT-A
1 TAATAATAAA-ATAATAATAA
**
99601888 TGCTAATAAAAATAATAATAA
1 TAATAAT-AAAATAATAATAA
* * *
99601909 TAATAAGT-TAATAATGATAG
1 TAATAA-TAAAATAATAATAA
* * * ** * *
99601929 TACTGATATAGGAAAAATAG
1 TAATAATAAAATAATAATAA
* * *
99601949 TAATCATAATATATTAATAA
1 TAATAATAAAATAATAATAA
* * *
99601969 TAATAGTAGAA-AATAAAAA
1 TAATAATAAAATAATAATAA
99601988 TAAATATATAAAATAATAATAA
1 T-AATA-ATAAAATAATAATAA
99602010 T
1 T
99602011 GACGACAGTT
Statistics
Matches: 167, Mismatches: 50, Indels: 34
0.67 0.20 0.14
Matches are distributed among these distances:
15 2 0.01
16 7 0.04
17 8 0.05
18 20 0.12
19 9 0.05
20 85 0.51
21 23 0.14
22 13 0.08
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.30
Consensus pattern (20 bp):
TAATAATAAAATAATAATAA
Found at i:99603644 original size:134 final size:132
Alignment explanation
Indices: 99603477--99604192 Score: 647
Period size: 133 Copynumber: 5.4 Consensus size: 132
99603467 AGAATCATTG
* * * * * * *
99603477 TCTTCAGTCTGCTTCACTGCTACGCCAGAGAGATAAGGCTGGTGGCCTCAATCTGCTCCATTGCT
1 TCTTCAGTCTGCTCCACTGCTAC-TCAGGGAGATAAGGCTAGTGGCTTAAATCTACTCCATTGCT
* * * * * *
99603542 GCTTCATGGAGATAAGATTTGCTGTATTCGATCTACTTCACTGTTATTTCAGGAAAATAAGATCT
65 GCTTCATGGAGATAAGATTCGCCGTCTTCGATCTGCTCCACTGCTATTTCAGG-AAATAAGATCT
*
99603607 ACAA
129 ATAA
* * * * *
99603611 CCTTCAGTCTACTCCACTGCTACTTC-GGAGAGATAAGGCTGGTGGCTTAAATCTACTTCATTCC
1 TCTTCAGTCTGCTCCACTGCTAC-TCAGG-GAGATAAGGCTAGTGGCTTAAATCTACTCCATTGC
* * * * * *
99603675 TGCTTCATGGAGAAAAGATTCGCCATCTTCGATCCGCTCCACTGCTACTTTAAGGATATAAAATC
64 TGCTTCATGGAGATAAGATTCGCCGTCTTCGATCTGCTCCACTGCTA-TTTCAGGAAATAAGATC
99603740 TATAA
128 TATAA
* * * *
99603745 TCTTTAGTCTGCTCCAATGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTACTCTATTGCTG
1 TCTTCAGTCTGCTCCACTGCTACTCAGGGAGATAAGGCTAGTGGCTTAAATCTACTCCATTGCTG
* *
99603810 CTTCATGGAGATAAGATTCGCCGTCTTCGATCTGCTCCACTGCTACTTCAGGGAGATAAGATCTA
66 CTTCATGGAGATAAGATTCGCCGTCTTCGATCTGCTCCACTGCTATTTCA-GGAAATAAGATCTA
99603875 TAA
130 TAA
* * * *
99603878 TCTTTAGTCTGCTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCC-TTACT
1 TCTTCAGTCTGCTCCACTGCTACTCAGGGAGATAAGGCTAGTGGCTTAAATCTAC-TCCATTGCT
* * * * ** ** * *
99603942 -ATCTC-GGGAAGATAAGATTCGCTGTCTTTGATCTGCTCCACTATTGCTT-AGAGAGATAAAAT
65 GCT-TCATGG-AGATAAGATTCGCCGTCTTCGATCTGCTCCACTGCTATTTCAG-GAAATAAGAT
*
99604004 CTGTAA
127 CTATAA
* * * * * * *
99604010 TCTTCAGCCTTCTCCACTGCTGCTTAGTGAGATAAGGCTAGTGGCTTAAATCTGCTTCC-TTACT
1 TCTTCAGTCTGCTCCACTGCTACTCAGGGAGATAAGGCTAGTGGCTTAAATCTAC-TCCATTGCT
* * * ** * ** ** *
99604074 ACCTC-GGGAAGATAAGATTCGTTGTCTTCAATCTGCTCCACTATTGCTT-AGGGAGATAAGATC
65 GCTTCATGG-AGATAAGATTCGCCGTCTTCGATCTGCTCCACTGCTATTTCA-GGAAATAAGATC
*
99604137 TGTAA
128 TATAA
* * *
99604142 TCTTCAGCCTGCTCCACTGCTACTCAGGGAGATAAGGTTAGTGGATTAAAT
1 TCTTCAGTCTGCTCCACTGCTACTCAGGGAGATAAGGCTAGTGGCTTAAAT
99604193 TTGCTTCCCT
Statistics
Matches: 502, Mismatches: 70, Indels: 22
0.85 0.12 0.04
Matches are distributed among these distances:
131 1 0.00
132 184 0.37
133 188 0.37
134 123 0.25
135 6 0.01
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (132 bp):
TCTTCAGTCTGCTCCACTGCTACTCAGGGAGATAAGGCTAGTGGCTTAAATCTACTCCATTGCTG
CTTCATGGAGATAAGATTCGCCGTCTTCGATCTGCTCCACTGCTATTTCAGGAAATAAGATCTAT
AA
Found at i:99603826 original size:133 final size:133
Alignment explanation
Indices: 99603443--99604269 Score: 737
Period size: 132 Copynumber: 6.2 Consensus size: 133
99603433 TTTTGATTTA
* ** ** * *
99603443 CTCCACTGGTACTGCAAGGAGATAAGAATC-ATTGTCTTCAGTCTGCTTCACTGCTACGC-CAGA
1 CTCCACTGTTACTTTAAGGAGATAAG-ATCTATAATCTTCAGTCTGCTCCACTGCT--GCTCAGG
* * * * * * *
99603506 GAGATAAGGCTGGTGGCCTCAATCTGCTCCATTGCTGCTTCATGGAGATAAGATTTGCTGTATTC
63 GAGATAAGGCTAGTGGCTTAAATCTGCTTCATTACTGCTTCATGGAGATAAGATTCGCTGTCTTC
*
99603571 GATCTA
128 GATCTG
* * * * * * *
99603577 CTTCACTGTTA-TTTCAGGAAAATAAGATCTACAACCTTCAGTCTACTCCACTGCTACTTC-GGA
1 CTCCACTGTTACTTTAAGG-AGATAAGATCTATAATCTTCAGTCTGCTCCACTGCTGC-TCAGG-
* * * * **
99603640 GAGATAAGGCTGGTGGCTTAAATCTACTTCATTCCTGCTTCATGGAGAAAAGATTCGCCATCTTC
63 GAGATAAGGCTAGTGGCTTAAATCTGCTTCATTACTGCTTCATGGAGATAAGATTCGCTGTCTTC
*
99603705 GATCCG
128 GATCTG
* * * * *
99603711 CTCCACTGCTACTTTAAGGATATAAAATCTATAATCTTTAGTCTGCTCCAATGCTGCTCAGGGAG
1 CTCCACTGTTACTTTAAGGAGATAAGATCTATAATCTTCAGTCTGCTCCACTGCTGCTCAGGGAG
* * *
99603776 ATAAGGCTAGTGGCTTAAATCTAC-TCTATTGCTGCTTCATGGAGATAAGATTCGCCGTCTTCGA
66 ATAAGGCTAGTGGCTTAAATCTGCTTC-ATTACTGCTTCATGGAGATAAGATTCGCTGTCTTCGA
99603840 TCTG
130 TCTG
* * * *
99603844 CTCCACTGCTACTTCAGGGAGATAAGATCTATAATCTTTAGTCTGCTCCACTGCTGCTCAGGGAG
1 CTCCACTGTTACTTTAAGGAGATAAGATCTATAATCTTCAGTCTGCTCCACTGCTGCTCAGGGAG
* * * *
99603909 ATAAGGCTAGTGGCTTAAATCTGCTTCCTTACT-ATCTC-GGGAAGATAAGATTCGCTGTCTTTG
66 ATAAGGCTAGTGGCTTAAATCTGCTTCATTACTGCT-TCATGG-AGATAAGATTCGCTGTCTTCG
99603972 ATCTG
129 ATCTG
* * * * * * * *
99603977 CTCCACTATTGC-TT-AGAGAGATAAAATCTGTAATCTTCAGCCTTCTCCACTGCTGCTTAGTGA
1 CTCCACTGTTACTTTAAG-GAGATAAGATCTATAATCTTCAGTCTGCTCCACTGCTGCTCAGGGA
* * * * * *
99604040 GATAAGGCTAGTGGCTTAAATCTGCTTCCTTACTACCTC-GGGAAGATAAGATTCGTTGTCTTCA
65 GATAAGGCTAGTGGCTTAAATCTGCTTCATTACTGCTTCATGG-AGATAAGATTCGCTGTCTTCG
99604104 ATCTG
129 ATCTG
* * * * * *
99604109 CTCCACTATTGC-TTAGGGAGATAAGATCTGTAATCTTCAGCCTGCTCCACTGCTACTCAGGGAG
1 CTCCACTGTTACTTTAAGGAGATAAGATCTATAATCTTCAGTCTGCTCCACTGCTGCTCAGGGAG
* * * ** * * * *
99604173 ATAAGGTTAGTGGATTAAATTTGCTTCCCTACTACCTC--GGAAAGATAAGATTCGCCGCCTTCG
66 ATAAGGCTAGTGGCTTAAATCTGCTTCATTACTGCTTCATGG--AGATAAGATTCGCTGTCTTCG
99604236 ATCTG
129 ATCTG
** * *
99604241 CTCCACTACTGC-TTAGGGAGATAAGATCT
1 CTCCACTGTTACTTTAAGGAGATAAGATCT
99604270 GTGAATTCAT
Statistics
Matches: 592, Mismatches: 86, Indels: 32
0.83 0.12 0.05
Matches are distributed among these distances:
131 3 0.01
132 250 0.42
133 196 0.33
134 137 0.23
135 6 0.01
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.31
Consensus pattern (133 bp):
CTCCACTGTTACTTTAAGGAGATAAGATCTATAATCTTCAGTCTGCTCCACTGCTGCTCAGGGAG
ATAAGGCTAGTGGCTTAAATCTGCTTCATTACTGCTTCATGGAGATAAGATTCGCTGTCTTCGAT
CTG
Found at i:99603889 original size:45 final size:45
Alignment explanation
Indices: 99603710--99603913 Score: 150
Period size: 45 Copynumber: 4.6 Consensus size: 45
99603700 TCTTCGATCC
* * * * *
99603710 GCTCCACTGCTACTTTAAGGATATAAAATCTATAATCTTTAGTCT
1 GCTCCACTGCTGCTTCAGGGAGATAAGATCTATAATCTTTAGTCT
* * ** * *
99603755 GCTCCAATGCTGC-TCAGGGAGATAAG-GCTAGT-GGCTTAAATCT
1 GCTCCACTGCTGCTTCAGGGAGATAAGATCTA-TAATCTTTAGTCT
* * * * **** *
99603798 ACTCTATTGCTGCTTCATGGAGATAAGAT-TCGCCGTC-TTCGATCT
1 GCTCCACTGCTGCTTCAGGGAGATAAGATCT-ATAATCTTTAG-TCT
*
99603843 GCTCCACTGCTACTTCAGGGAGATAAGATCTATAATCTTTAGTCT
1 GCTCCACTGCTGCTTCAGGGAGATAAGATCTATAATCTTTAGTCT
99603888 GCTCCACTGCTGC-TCAGGGAGATAAG
1 GCTCCACTGCTGCTTCAGGGAGATAAG
99603914 GCTAGTGGCT
Statistics
Matches: 118, Mismatches: 33, Indels: 17
0.70 0.20 0.10
Matches are distributed among these distances:
43 20 0.17
44 37 0.31
45 57 0.48
46 4 0.03
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (45 bp):
GCTCCACTGCTGCTTCAGGGAGATAAGATCTATAATCTTTAGTCT
Found at i:99604063 original size:132 final size:132
Alignment explanation
Indices: 99603598--99604271 Score: 753
Period size: 132 Copynumber: 5.1 Consensus size: 132
99603588 TTTCAGGAAA
** * * * * *
99603598 ATAAGATCTACAACCTTCAGTCTACTCCACTGCTACTTC-GGAGAGATAAGGCTGGTGGCTTAAA
1 ATAAGATCTGTAATCTTCAGCCTGCTCCACTGCTGC-TCAGG-GAGATAAGGCTAGTGGCTTAAA
* * * * * * * * * * *
99603662 TCTACTTCATTCCTGCTTCATGG-AGAAAAGATTCGCCATCTTCGATCCGCTCCACTGCTACTTT
64 TCTGCTTCCTTACTACCTC-GGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGC-TT
* *
99603726 AAGGAT
127 AGGGAG
* * * * *
99603732 ATAAAATCTATAATCTTTAGTCTGCTCCAATGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATC
1 ATAAGATCTGTAATCTTCAGCCTGCTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATC
* * * * * * * *
99603797 TAC-TCTATTGCTGCTTCATGG-AGATAAGATTCGCCGTCTTCGATCTGCTCCACTGCTACTTCA
66 TGCTTC-CTTACTACCTC-GGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTT-A
99603860 GGGAG
128 GGGAG
* * *
99603865 ATAAGATCTATAATCTTTAGTCTGCTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATC
1 ATAAGATCTGTAATCTTCAGCCTGCTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATC
* * * * *
99603930 TGCTTCCTTACTATCTCGGGAAGATAAGATTCGCTGTCTTTGATCTGCTCCACTATTGCTTAGAG
66 TGCTTCCTTACTACCTCGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
99603995 AG
131 AG
* * * *
99603997 ATAAAATCTGTAATCTTCAGCCTTCTCCACTGCTGCTTAGTGAGATAAGGCTAGTGGCTTAAATC
1 ATAAGATCTGTAATCTTCAGCCTGCTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATC
** * *
99604062 TGCTTCCTTACTACCTCGGGAAGATAAGATTCGTTGTCTTCAATCTGCTCCACTATTGCTTAGGG
66 TGCTTCCTTACTACCTCGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
99604127 AG
131 AG
* * * *
99604129 ATAAGATCTGTAATCTTCAGCCTGCTCCACTGCTACTCAGGGAGATAAGGTTAGTGGATTAAATT
1 ATAAGATCTGTAATCTTCAGCCTGCTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATC
* * *
99604194 TGCTTCCCTACTACCTCGGAAAGATAAGATTCGCCGCCTTCGATCTGCTCCACTACTGCTTAGGG
66 TGCTTCCTTACTACCTCGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
99604259 AG
131 AG
99604261 ATAAGATCTGT
1 ATAAGATCTGT
99604272 GAATTCATCG
Statistics
Matches: 479, Mismatches: 56, Indels: 12
0.88 0.10 0.02
Matches are distributed among these distances:
132 259 0.54
133 187 0.39
134 33 0.07
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.31
Consensus pattern (132 bp):
ATAAGATCTGTAATCTTCAGCCTGCTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATC
TGCTTCCTTACTACCTCGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
AG
Found at i:99606666 original size:14 final size:14
Alignment explanation
Indices: 99606644--99606681 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
99606634 AATGATGCAT
*
99606644 ATAAGAAAATAAAA
1 ATAAAAAAATAAAA
99606658 ATAAAAAAATAAAA
1 ATAAAAAAATAAAA
*
99606672 A-AAAATAATA
1 ATAAAAAAATA
99606682 CATATACAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 8 0.36
14 14 0.64
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.16
Consensus pattern (14 bp):
ATAAAAAAATAAAA
Found at i:99606785 original size:27 final size:28
Alignment explanation
Indices: 99606755--99606823 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
99606745 AAAGAAAGCC
*
99606755 AAAT-TATACATAAATAAATTTTAAAGA
1 AAATATATACATAAATAAATTTAAAAGA
*
99606782 AAATATATACGT-AATAAATTTAAAAGA
1 AAATATATACATAAATAAATTTAAAAGA
*
99606809 AAATATTTACATAAA
1 AAATATATACATAAA
99606824 ATATTATGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 28 0.78
28 8 0.22
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.32
Consensus pattern (28 bp):
AAATATATACATAAATAAATTTAAAAGA
Found at i:99606992 original size:23 final size:23
Alignment explanation
Indices: 99606962--99607010 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
99606952 AAATGATACT
99606962 ACATAAAATAGAATTTTAAAATA
1 ACATAAAATAGAATTTTAAAATA
99606985 ACATAAAATAGAATTTTAAAATA
1 ACATAAAATAGAATTTTAAAATA
99607008 ACA
1 ACA
99607011 CTATACAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.61, C:0.06, G:0.04, T:0.29
Consensus pattern (23 bp):
ACATAAAATAGAATTTTAAAATA
Found at i:99609303 original size:18 final size:18
Alignment explanation
Indices: 99609280--99609345 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 18
99609270 ACATCGTGAT
99609280 CTGAAGCTCGAAGTCTAA
1 CTGAAGCTCGAAGTCTAA
* *
99609298 CTGAAGCACATAAGTGCTAAA
1 CTGAAGCTC-GAAGT-CT-AA
* * *
99609319 CGGAAGCCCGAAGGCTAA
1 CTGAAGCTCGAAGTCTAA
99609337 CTGAAGCTC
1 CTGAAGCTC
99609346 ACTAGAGCTA
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
18 17 0.46
19 6 0.16
20 5 0.14
21 9 0.24
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (18 bp):
CTGAAGCTCGAAGTCTAA
Found at i:99609356 original size:39 final size:39
Alignment explanation
Indices: 99609282--99609358 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 39
99609272 ATCGTGATCT
* * *
99609282 GAAGCTCGAAGTCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGAGCTAAACG
*
99609321 GAAGCCCGAAGGCTAACTGAAGCTCACT-AGAGCTAAAC
1 GAAGCCCGAAGGCTAACTGAAGCACA-TAAGAGCTAAAC
99609359 TGAAACCCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 32 0.97
40 1 0.03
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACATAAGAGCTAAACG
Found at i:99617182 original size:18 final size:18
Alignment explanation
Indices: 99617078--99617180 Score: 73
Period size: 18 Copynumber: 5.4 Consensus size: 18
99617068 ACATCGTGAT
* *
99617078 CTGAAGCCCGAAGTCTAA
1 CTGAAGCACGAAGGCTAA
*
99617096 CTGAAGCACATAAGTGCTAAA
1 CTGAAGCAC-GAAG-GCT-AA
*
99617117 C-GAAAGCCCGAAGGCTAA
1 CTG-AAGCACGAAGGCTAA
*
99617135 CTGAAGCACATAAGTGCTAAA
1 CTGAAGCAC-GAAG-GCT-AA
* *
99617156 CGGAAGCTCGAAGGCTAA
1 CTGAAGCACGAAGGCTAA
99617174 CTGAAGC
1 CTGAAGC
99617181 TCACTAGAGC
Statistics
Matches: 66, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
18 24 0.36
19 13 0.20
20 12 0.18
21 17 0.26
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (18 bp):
CTGAAGCACGAAGGCTAA
Found at i:99617195 original size:39 final size:39
Alignment explanation
Indices: 99617080--99617180 Score: 175
Period size: 39 Copynumber: 2.6 Consensus size: 39
99617070 ATCGTGATCT
*
99617080 GAAGCCCGAAGTCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
*
99617119 AAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
*
99617158 GAAGCTCGAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
99617181 TCACTAGAGC
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 58 1.00
ACGTcount: A:0.39, C:0.23, G:0.25, T:0.14
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
Found at i:99619509 original size:43 final size:43
Alignment explanation
Indices: 99619459--99619651 Score: 112
Period size: 43 Copynumber: 4.4 Consensus size: 43
99619449 GTCCGCTTCC
99619459 TGCAACTTCAGGAAGATAAGACTTGTATCTTCAACCTGCTCTT
1 TGCAACTTCAGGAAGATAAGACTTGTATCTTCAACCTGCTCTT
* ** ** ** *
99619502 TGCAACTTCA-GAGAGATAAG-GTTAGTGGCTAAAATTTGCTACAT
1 TGCAACTTCAGGA-AGATAAGACTT-GTATCTTCAACCTGCT-CTT
* * * * * **
99619546 AGCCGA-TACATGG-AGATAAGATCTAT-AATTTTCAGTCTGCT-TCT
1 TG-CAACTTCA-GGAAGATAAGA-CT-TGTATCTTCAACCTGCTCT-T
*
99619590 TGCAACTTCAGGAAGATAAGACTTGTATCTTCAACCTGCTCTC
1 TGCAACTTCAGGAAGATAAGACTTGTATCTTCAACCTGCTCTT
99619633 TGCAACTTCAGAGAA-ATAA
1 TGCAACTTCAG-GAAGATAA
99619652 TGTTGGTAGC
Statistics
Matches: 106, Mismatches: 29, Indels: 30
0.64 0.18 0.18
Matches are distributed among these distances:
42 5 0.05
43 59 0.56
44 30 0.28
45 9 0.08
46 2 0.02
47 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.31
Consensus pattern (43 bp):
TGCAACTTCAGGAAGATAAGACTTGTATCTTCAACCTGCTCTT
Found at i:99619646 original size:131 final size:131
Alignment explanation
Indices: 99619404--99619697 Score: 480
Period size: 131 Copynumber: 2.2 Consensus size: 131
99619394 ATCATCTTCG
*
99619404 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTATAGTTTTCAGTCCGCTTCCTGCAACTTCA
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTATAATTTTCAGTCCGCTTCCTGCAACTTCA
* * *
99619469 GGAAGATAAGACTTGTATCTTCAACCTGCTCTTTGCAACTTCAGAGAGATAAGGTTAGTGGCTAA
66 GGAAGATAAGACTTGTATCTTCAACCTGCTCTCTGCAACTTCAGAGAAATAAGGTTAGTAGCTAA
99619534 A
131 A
* * * *
99619535 ATTTGCTACATAGCCGATACATGGAGATAAGATCTATAATTTTCAGTCTGCTTCTTGCAACTTCA
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTATAATTTTCAGTCCGCTTCCTGCAACTTCA
* *
99619600 GGAAGATAAGACTTGTATCTTCAACCTGCTCTCTGCAACTTCAGAGAAATAATGTTGGTAGCTAA
66 GGAAGATAAGACTTGTATCTTCAACCTGCTCTCTGCAACTTCAGAGAAATAAGGTTAGTAGCTAA
99619665 A
131 A
* *
99619666 ATCTACTCCATAGCCGATACTTGGAGATAAGA
1 ATCTGCTCCATAGCCGATACATGGAGATAAGA
99619698 CTCACCATCT
Statistics
Matches: 149, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
131 149 1.00
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (131 bp):
ATCTGCTCCATAGCCGATACATGGAGATAAGATCTATAATTTTCAGTCCGCTTCCTGCAACTTCA
GGAAGATAAGACTTGTATCTTCAACCTGCTCTCTGCAACTTCAGAGAAATAAGGTTAGTAGCTAA
A
Found at i:99619856 original size:44 final size:45
Alignment explanation
Indices: 99619765--99619918 Score: 152
Period size: 44 Copynumber: 3.5 Consensus size: 45
99619755 AATCTGCTTC
* * * * * *
99619765 CTGCAACTTCA-AGAAGATAAGACTTG-CATATTGAGCCTGCTCCA
1 CTGCAACTTCAGAG-AGATAAGGCTTGTCATCTTCAACCTACTCTA
99619809 CTGCAACTTCAGAGAGATAAGGCTTGTCA-CTTCAACCTACTCTA
1 CTGCAACTTCAGAGAGATAAGGCTTGTCATCTTCAACCTACTCTA
* * * * * * *
99619853 CTGCAACTTCAGGGAGATAAGGTTTGTAATCTTCGATCTATTCTG
1 CTGCAACTTCAGAGAGATAAGGCTTGTCATCTTCAACCTACTCTA
*
99619898 CTGCAACTTCAGGGAGATAAG
1 CTGCAACTTCAGAGAGATAAG
99619919 ATCTGACTTC
Statistics
Matches: 94, Mismatches: 13, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
44 58 0.62
45 36 0.38
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (45 bp):
CTGCAACTTCAGAGAGATAAGGCTTGTCATCTTCAACCTACTCTA
Found at i:99619908 original size:45 final size:44
Alignment explanation
Indices: 99619808--99619918 Score: 150
Period size: 45 Copynumber: 2.5 Consensus size: 44
99619798 AGCCTGCTCC
* *
99619808 ACTGCAACTTCAGAGAGATAAGGCTTGTCACTTCAACCTACTCT
1 ACTGCAACTTCAGGGAGATAAGGCTTGTAACTTCAACCTACTCT
* * * *
99619852 ACTGCAACTTCAGGGAGATAAGGTTTGTAATCTTCGATCTATTCT
1 ACTGCAACTTCAGGGAGATAAGGCTTGTAA-CTTCAACCTACTCT
*
99619897 GCTGCAACTTCAGGGAGATAAG
1 ACTGCAACTTCAGGGAGATAAG
99619919 ATCTGACTTC
Statistics
Matches: 59, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
44 27 0.46
45 32 0.54
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.29
Consensus pattern (44 bp):
ACTGCAACTTCAGGGAGATAAGGCTTGTAACTTCAACCTACTCT
Found at i:99620094 original size:64 final size:64
Alignment explanation
Indices: 99619990--99620111 Score: 217
Period size: 64 Copynumber: 1.9 Consensus size: 64
99619980 TATATCTATC
*
99619990 CTTATGCCAAATTATTAGGATGCTATGATCGAAATAAATCAAATGCTCCTAACTAGATATGATG
1 CTTATGCCAAATAATTAGGATGCTATGATCGAAATAAATCAAATGCTCCTAACTAGATATGATG
* *
99620054 CTTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGAT
1 CTTATGCCAAATAATTAGGATGCTATGATCGAAATAAATCAAATGCTCCTAACTAGAT
99620112 GTGTTATGAA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 55 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.31
Consensus pattern (64 bp):
CTTATGCCAAATAATTAGGATGCTATGATCGAAATAAATCAAATGCTCCTAACTAGATATGATG
Found at i:99632091 original size:27 final size:27
Alignment explanation
Indices: 99632061--99632129 Score: 86
Period size: 27 Copynumber: 2.5 Consensus size: 27
99632051 AAAGAAAGCC
*
99632061 AAATTATACATAAATAAATTTTAAAGA
1 AAATTATACATAAATAAATTTAAAAGA
*
99632088 AAA-TATATATATAATAAATTTAAAAGA
1 AAATTATACATA-AATAAATTTAAAAGA
*
99632115 AAATATTTACATAAA
1 AAAT-TATACATAAA
99632130 ATATTATGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
26 7 0.20
27 20 0.57
28 2 0.06
29 6 0.17
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (27 bp):
AAATTATACATAAATAAATTTAAAAGA
Found at i:99637152 original size:23 final size:23
Alignment explanation
Indices: 99637123--99637169 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
99637113 AATTAAAGAG
99637123 ATTTGGTTCCTTAGAAGATTATT
1 ATTTGGTTCCTTAGAAGATTATT
99637146 ATTTGGTTCCTTAGAAGATTATT
1 ATTTGGTTCCTTAGAAGATTATT
99637169 A
1 A
99637170 CTAGAAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.28, C:0.09, G:0.17, T:0.47
Consensus pattern (23 bp):
ATTTGGTTCCTTAGAAGATTATT
Found at i:99640321 original size:14 final size:14
Alignment explanation
Indices: 99640302--99640343 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 14
99640292 AATATGTGAC
*
99640302 ATATAAAAAATTAT
1 ATATAAAAAAATAT
99640316 ATATAAAGAGAAATAT
1 ATATAAA-A-AAATAT
99640332 ATATAAAAAAAT
1 ATATAAAAAAAT
99640344 TGGTTGATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 11 0.44
15 2 0.08
16 12 0.48
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.29
Consensus pattern (14 bp):
ATATAAAAAAATAT
Found at i:99646038 original size:18 final size:18
Alignment explanation
Indices: 99646017--99646103 Score: 111
Period size: 18 Copynumber: 4.8 Consensus size: 18
99646007 CGTTTATGTT
*
99646017 ACTATTCACGTATATGAC
1 ACTATTCACGTATACGAC
* **
99646035 ACTATTCACATATACGGT
1 ACTATTCACGTATACGAC
99646053 ACTATTCACGTATACGAC
1 ACTATTCACGTATACGAC
**
99646071 ACTATTCACGTATACGGT
1 ACTATTCACGTATACGAC
*
99646089 ACTGTTCACGTATAC
1 ACTATTCACGTATAC
99646104 AGTAGTTGGG
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 59 1.00
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (18 bp):
ACTATTCACGTATACGAC
Found at i:99646063 original size:36 final size:36
Alignment explanation
Indices: 99646016--99646103 Score: 149
Period size: 36 Copynumber: 2.4 Consensus size: 36
99646006 CCGTTTATGT
*
99646016 TACTATTCACGTATATGACACTATTCACATATACGG
1 TACTATTCACGTATACGACACTATTCACATATACGG
*
99646052 TACTATTCACGTATACGACACTATTCACGTATACGG
1 TACTATTCACGTATACGACACTATTCACATATACGG
*
99646088 TACTGTTCACGTATAC
1 TACTATTCACGTATAC
99646104 AGTAGTTGGG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 49 1.00
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (36 bp):
TACTATTCACGTATACGACACTATTCACATATACGG
Found at i:99652397 original size:18 final size:20
Alignment explanation
Indices: 99652355--99652391 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
99652345 ATATTTTATG
*
99652355 ATTA-TTTAATTAGATATAT
1 ATTATTTTAATGAGATATAT
99652374 ATTATTTTAATGAGATAT
1 ATTATTTTAATGAGATAT
99652392 TTTATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
ATTATTTTAATGAGATATAT
Found at i:99654603 original size:46 final size:46
Alignment explanation
Indices: 99654551--99654686 Score: 202
Period size: 46 Copynumber: 3.0 Consensus size: 46
99654541 AGTGTGCTCT
99654551 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
99654597 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
99654643 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
99654687 TCATGTCAAA
Statistics
Matches: 83, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
45 1 0.01
46 82 0.99
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:99656942 original size:42 final size:43
Alignment explanation
Indices: 99656876--99657036 Score: 166
Period size: 42 Copynumber: 3.7 Consensus size: 43
99656866 TGCCATGGTT
*
99656876 CAACTATGGTCTTACACATCTTCACATAAT-GATACCATAGCC
1 CAACTATGGTCTTACACATATTCACATAATCGATACCATAGCC
* * *
99656918 CAATTATGGTCTCACACATATTCACAT-ATCGATGCCATAGCC
1 CAACTATGGTCTTACACATATTCACATAATCGATACCATAGCC
*
99656960 CAACTATGGTCTTACACGTAATCACATATCACAT-ATTGATACCATAGCC
1 CAACTATGGTCTTACAC---AT---AT-TCACATAATCGATACCATAGCC
* * *
99657009 CAACTATGGTTTTACACGTAATCACATA
1 CAACTATGGTCTTACACATATTCACATA
99657037 TCTCACTGAT
Statistics
Matches: 99, Mismatches: 11, Indels: 17
0.78 0.09 0.13
Matches are distributed among these distances:
41 2 0.02
42 56 0.57
43 1 0.01
45 2 0.02
46 1 0.01
48 2 0.02
49 35 0.35
ACGTcount: A:0.34, C:0.27, G:0.11, T:0.29
Consensus pattern (43 bp):
CAACTATGGTCTTACACATATTCACATAATCGATACCATAGCC
Found at i:99657005 original size:49 final size:49
Alignment explanation
Indices: 99656932--99657038 Score: 178
Period size: 49 Copynumber: 2.2 Consensus size: 49
99656922 TATGGTCTCA
*
99656932 CACATATTCACATATCGATGCCATAGCCCAACTATGGTCTTACACGTAAT
1 CACATA-TCACATATCGATACCATAGCCCAACTATGGTCTTACACGTAAT
* *
99656982 CACATATCACATATTGATACCATAGCCCAACTATGGTTTTACACGTAAT
1 CACATATCACATATCGATACCATAGCCCAACTATGGTCTTACACGTAAT
99657031 CACATATC
1 CACATATC
99657039 TCACTGATGT
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
49 48 0.89
50 6 0.11
ACGTcount: A:0.34, C:0.27, G:0.10, T:0.29
Consensus pattern (49 bp):
CACATATCACATATCGATACCATAGCCCAACTATGGTCTTACACGTAAT
Found at i:99657118 original size:46 final size:48
Alignment explanation
Indices: 99657044--99657137 Score: 138
Period size: 47 Copynumber: 2.0 Consensus size: 48
99657034 ATATCTCACT
* * *
99657044 GATGTCATATCCCAGATATGGTCTTATACAGTAGCATAT-ATCACATC
1 GATGCCATATCCCAGATATGGTCTTATACAGAAGCACATAATCACATC
*
99657091 GATGCCATATCCTAGA-ATGGTCTTATACAGAAGCACATAATCACATC
1 GATGCCATATCCCAGATATGGTCTTATACAGAAGCACATAATCACATC
99657138 TCTCTGATGC
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
46 20 0.48
47 22 0.52
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (48 bp):
GATGCCATATCCCAGATATGGTCTTATACAGAAGCACATAATCACATC
Found at i:99671277 original size:21 final size:21
Alignment explanation
Indices: 99671253--99671293 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
99671243 GAAAGAAAGA
**
99671253 AAAGAAGAGGGAAAATTTTTC
1 AAAGAAGAAAGAAAATTTTTC
*
99671274 AAAGAGGAAAGAAAATTTTT
1 AAAGAAGAAAGAAAATTTTT
99671294 TTTCCTTAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.51, C:0.02, G:0.22, T:0.24
Consensus pattern (21 bp):
AAAGAAGAAAGAAAATTTTTC
Found at i:99672567 original size:18 final size:17
Alignment explanation
Indices: 99672546--99672579 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
99672536 AATGTATAGA
*
99672546 TTATAATTTATAAATATT
1 TTATAATATA-AAATATT
99672564 TTATAATATAAAATAT
1 TTATAATATAAAATAT
99672580 GAATAATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTATAATATAAAATATT
Found at i:99681596 original size:59 final size:59
Alignment explanation
Indices: 99681504--99681642 Score: 224
Period size: 59 Copynumber: 2.4 Consensus size: 59
99681494 TGTTGTTGTT
* *
99681504 TACAAATTGCTTAACACTTGGTATACATGGCTGCTGGTTAGAAAAGATAACAATTGATA
1 TACAAATTGCTTAACACTTGGTATACATGGCTGCTAGTTAGAAAAAATAACAATTGATA
* *
99681563 TACAAATTGCTTAACACTTGGTATACATGGCTGCTAGTTAGAAAAAATAACAGTTGGTA
1 TACAAATTGCTTAACACTTGGTATACATGGCTGCTAGTTAGAAAAAATAACAATTGATA
* *
99681622 TATAAATTGCTTAACAGTTGG
1 TACAAATTGCTTAACACTTGG
99681643 ATAACAAATA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
59 74 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (59 bp):
TACAAATTGCTTAACACTTGGTATACATGGCTGCTAGTTAGAAAAAATAACAATTGATA
Found at i:99682063 original size:21 final size:21
Alignment explanation
Indices: 99682039--99682092 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
99682029 AGCTTCTTGA
*
99682039 TGAGTTGGGGCAATAGGTATC
1 TGAGTTGGGGCAATAGGTAAC
*
99682060 TGAGTTGGGGCAGTAGGTAAC
1 TGAGTTGGGGCAATAGGTAAC
99682081 TGAGTTGGGGCA
1 TGAGTTGGGGCA
99682093 CCTTGTTGAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.22, C:0.09, G:0.43, T:0.26
Consensus pattern (21 bp):
TGAGTTGGGGCAATAGGTAAC
Found at i:99682896 original size:83 final size:84
Alignment explanation
Indices: 99682809--99682986 Score: 261
Period size: 83 Copynumber: 2.1 Consensus size: 84
99682799 AAAAAAAAAC
*
99682809 TCATTGCATGCATATTAAAAAATAGGCAAC-AC-ACCAACAATCATTGCATGCATATTAAAAAAT
1 TCATTGCATGCATATTAAAAAATAGGCAACAACTACCAACAATCATTGCATACATATTAAAAAA-
*
99682872 AGTCAACAGCTTTCCAACAA
65 AGTCAACAACTTTCCAACAA
* * *
99682892 TCATTGCATGCATATTAAAAAATAGTCAACAACTTTCCAATAATCATTGCATACATATTAAAAAA
1 TCATTGCATGCATATTAAAAAATAGGCAACAAC-TACCAACAATCATTGCATACATATTAAAAAA
*
99682957 AGTCAATAACTTTCCAACAA
65 AGTCAACAACTTTCCAACAA
*
99682977 TCACTGCATG
1 TCATTGCATG
99682987 TGATCAGCAA
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
83 29 0.34
84 2 0.02
85 27 0.32
86 27 0.32
ACGTcount: A:0.44, C:0.21, G:0.08, T:0.27
Consensus pattern (84 bp):
TCATTGCATGCATATTAAAAAATAGGCAACAACTACCAACAATCATTGCATACATATTAAAAAAA
GTCAACAACTTTCCAACAA
Done.