Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 264 of 276
Found at i:87477875 original size:7 final size:7
Alignment explanation
Indices: 87477863--87477895 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
87477853 TGGAGCCTTA
87477863 ATTTAAT
1 ATTTAAT
87477870 ATTTAAT
1 ATTTAAT
87477877 ATTTAAT
1 ATTTAAT
87477884 ATTTAAT
1 ATTTAAT
87477891 ATTTA
1 ATTTA
87477896 TTTAATAAAA
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:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
ATTTAAT
Found at i:87484800 original size:24 final size:21
Alignment explanation
Indices: 87484772--87484860 Score: 81
Period size: 21 Copynumber: 4.1 Consensus size: 21
87484762 ACAAAAAAGA
*
87484772 TTTGTCTAAGTCACTTCGTTTCTT
1 TTTGTCCAAGTCACTTC---TCTT
*
87484796 TTTGTCCAAGTTACTTCTCTT
1 TTTGTCCAAGTCACTTCTCTT
**
87484817 TTTGTCCAAGTTGCTTCTCTT
1 TTTGTCCAAGTCACTTCTCTT
* **
87484838 TTTGTCTATCTCACTTC-CTT
1 TTTGTCCAAGTCACTTCTCTT
87484858 TTT
1 TTT
87484861 TCTTTGTGAG
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
20 6 0.11
21 36 0.63
24 15 0.26
ACGTcount: A:0.11, C:0.24, G:0.10, T:0.55
Consensus pattern (21 bp):
TTTGTCCAAGTCACTTCTCTT
Found at i:87484818 original size:21 final size:21
Alignment explanation
Indices: 87484792--87484843 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
87484782 TCACTTCGTT
87484792 TCTTTTTGTCCAAGTTACTTC
1 TCTTTTTGTCCAAGTTACTTC
*
87484813 TCTTTTTGTCCAAGTTGCTTC
1 TCTTTTTGTCCAAGTTACTTC
87484834 TCTTTTTGTC
1 TCTTTTTGTC
87484844 TATCTCACTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.10, C:0.23, G:0.12, T:0.56
Consensus pattern (21 bp):
TCTTTTTGTCCAAGTTACTTC
Found at i:87488174 original size:46 final size:46
Alignment explanation
Indices: 87488057--87488368 Score: 199
Period size: 46 Copynumber: 6.8 Consensus size: 46
87488047 TGTAACCCGC
* * *
87488057 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC-G---CAT
* * * *
87488107 -C-TCA-CGAACTCAGACTGAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
87488150 CCATAAATGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* * * * *
87488196 CACATAAGTGCCACATATGTAAC-CAAGCT--ACCA--T-GTAAC-C-CGC--
1 C-CATAAGTG-AAC-T-CG-GACTCAA-CTCAACGAGTTCG-GACGCTCGCAT
* *
87488239 CCATAAGTGAACTCGGACTCAACTCAACGAGCTT-GGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACG-CTCG---CAT
* *
87488289 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
87488332 TCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
87488369 TGCCCAAATA
Statistics
Matches: 204, Mismatches: 30, Indels: 60
0.69 0.10 0.20
Matches are distributed among these distances:
38 4 0.02
39 4 0.02
40 4 0.02
41 2 0.01
42 9 0.04
43 9 0.04
44 3 0.01
45 8 0.04
46 74 0.36
47 66 0.32
48 7 0.03
49 6 0.03
50 4 0.02
51 4 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:87488321 original size:182 final size:182
Alignment explanation
Indices: 87488014--87488368 Score: 624
Period size: 182 Copynumber: 2.0 Consensus size: 182
87488004 GGAAAGTTTG
87488014 CACATAAGTGCCACATATGTAACCAAGCTACCATGTAACCCGCCCATAAGTGAACTCGGACTCAA
1 CACATAAGTGCCACATATGTAACCAAGCTACCATGTAACCCGCCCATAAGTGAACTCGGACTCAA
* *
87488079 CTCAACGAGCTCGGGCGTTCAGTTACATCTCACGAACTCAGACTGAACTCAACGAGTTCGGACGC
66 CTCAACGAGCTCGGGCGCTCAGTTACATCTCACGAACTCAGACTCAACTCAACGAGTTCGGACGC
87488144 TCGCATCCATAAATGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
131 TCGCATCCATAAATGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
87488196 CACATAAGTGCCACATATGTAACCAAGCTACCATGTAACCCGCCCATAAGTGAACTCGGACTCAA
1 CACATAAGTGCCACATATGTAACCAAGCTACCATGTAACCCGCCCATAAGTGAACTCGGACTCAA
* *
87488261 CTCAACGAGCTTGGATGC-CT-AGTTACATCTCACGAACTCGGACTCAACTCAACGAGTTCGGAC
66 CTCAACGAGCTCGG--GCGCTCAGTTACATCTCACGAACTCAGACTCAACTCAACGAGTTCGGAC
* *
87488324 GCTCGCATTCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
129 GCTCGCATCCATAAATGAACTCGGACTCAACTCAACGAGTTCGGA
87488369 TGCCCAAATA
Statistics
Matches: 165, Mismatches: 6, Indels: 4
0.94 0.03 0.02
Matches are distributed among these distances:
182 162 0.98
183 1 0.01
184 2 0.01
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.20
Consensus pattern (182 bp):
CACATAAGTGCCACATATGTAACCAAGCTACCATGTAACCCGCCCATAAGTGAACTCGGACTCAA
CTCAACGAGCTCGGGCGCTCAGTTACATCTCACGAACTCAGACTCAACTCAACGAGTTCGGACGC
TCGCATCCATAAATGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:87488387 original size:46 final size:47
Alignment explanation
Indices: 87488242--87488387 Score: 140
Period size: 46 Copynumber: 3.1 Consensus size: 47
87488232 AACCCGCCCA
* **
87488242 TAAGTGAACTCGGACTCAACTCAACGAGCTT-GGATGCCTAGTTA-CATC
1 TAAGTGAACTCGGACTCAACTCAACGAG-TTCGGATGCCCAAATATC--C
* * * * ** *
87488290 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT-TCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCC
87488335 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCC
87488382 T-AGTGA
1 TAAGTGA
87488388 CATGTCACTT
Statistics
Matches: 78, Mismatches: 16, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
45 2 0.03
46 41 0.53
47 33 0.42
48 2 0.03
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (47 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCC
Found at i:87490319 original size:15 final size:16
Alignment explanation
Indices: 87490293--87490355 Score: 78
Period size: 15 Copynumber: 4.1 Consensus size: 16
87490283 CAAGGAAACC
87490293 GAATAAAGAAATCCAA
1 GAATAAAGAAATCCAA
*
87490309 G-ATAGAGAAATCC-A
1 GAATAAAGAAATCCAA
*
87490323 GAATAAAGAAAT-CTA
1 GAATAAAGAAATCCAA
*
87490338 GAATAAAGAAACCCAA
1 GAATAAAGAAATCCAA
87490354 GA
1 GA
87490356 TACGATACTA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
14 3 0.08
15 32 0.80
16 5 0.12
ACGTcount: A:0.59, C:0.13, G:0.16, T:0.13
Consensus pattern (16 bp):
GAATAAAGAAATCCAA
Found at i:87493193 original size:46 final size:46
Alignment explanation
Indices: 87493076--87493205 Score: 136
Period size: 47 Copynumber: 2.8 Consensus size: 46
87493066 TGTAACCCGC
* * * * *
87493076 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCAGTT
1 CCATAAATGAACTCGGACTCAACTCAACGAGTTCGGACGCTCAGAT
* ** * * *
87493122 ACATCTCACGAACTCAGACTGAACTCAACGAGTTCGGACGCTC-GCAT
1 CCAT-AAATGAACTCGGACTCAACTCAACGAGTTCGGACGCTCAG-AT
87493169 CCATAAATGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAATGAACTCGGACTCAACTCAACGAGTTCGGA
87493206 TGCCCAAATA
Statistics
Matches: 65, Mismatches: 17, Indels: 4
0.76 0.20 0.05
Matches are distributed among these distances:
46 32 0.49
47 33 0.51
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAATGAACTCGGACTCAACTCAACGAGTTCGGACGCTCAGAT
Found at i:87493377 original size:154 final size:154
Alignment explanation
Indices: 87493118--87493403 Score: 572
Period size: 154 Copynumber: 1.9 Consensus size: 154
87493108 TCGGGCGTTC
87493118 AGTTACATCTCACGAACTCAGACTGAACTCAACGAGTTCGGACGCTCGCATCCATAAATGAACTC
1 AGTTACATCTCACGAACTCAGACTGAACTCAACGAGTTCGGACGCTCGCATCCATAAATGAACTC
87493183 GGACTCAACTCAACGAGTTCGGATGCCCAAATATCCTAGTGACATGTCACTTGTATCCTAATCTA
66 GGACTCAACTCAACGAGTTCGGATGCCCAAATATCCTAGTGACATGTCACTTGTATCCTAATCTA
87493248 TTTACTCAACGAGCTTGGATGCCT
131 TTTACTCAACGAGCTTGGATGCCT
87493272 AGTTACATCTCACGAACTCAGACTGAACTCAACGAGTTCGGACGCTCGCATCCATAAATGAACTC
1 AGTTACATCTCACGAACTCAGACTGAACTCAACGAGTTCGGACGCTCGCATCCATAAATGAACTC
87493337 GGACTCAACTCAACGAGTTCGGATGCCCAAATATCCTAGTGACATGTCACTTGTATCCTAATCTA
66 GGACTCAACTCAACGAGTTCGGATGCCCAAATATCCTAGTGACATGTCACTTGTATCCTAATCTA
87493402 TT
131 TT
87493404 CCTAAGGTTC
Statistics
Matches: 132, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
154 132 1.00
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (154 bp):
AGTTACATCTCACGAACTCAGACTGAACTCAACGAGTTCGGACGCTCGCATCCATAAATGAACTC
GGACTCAACTCAACGAGTTCGGATGCCCAAATATCCTAGTGACATGTCACTTGTATCCTAATCTA
TTTACTCAACGAGCTTGGATGCCT
Found at i:87494460 original size:9 final size:9
Alignment explanation
Indices: 87494448--87494528 Score: 54
Period size: 9 Copynumber: 9.0 Consensus size: 9
87494438 TGATGTTATC
87494448 GATATTGAT
1 GATATTGAT
* *
87494457 GATAGTGAC
1 GATATTGAT
*
87494466 AATATTGAT
1 GATATTGAT
* *
87494475 GCTAGTGAT
1 GATATTGAT
87494484 GATATTGAT
1 GATATTGAT
* * *
87494493 GCTAGTGAC
1 GATATTGAT
*
87494502 GCTATTGAT
1 GATATTGAT
* *
87494511 GATAGTGAC
1 GATATTGAT
*
87494520 GCTATTGAT
1 GATATTGAT
87494529 CGTGACCTTG
Statistics
Matches: 51, Mismatches: 21, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
9 51 1.00
ACGTcount: A:0.30, C:0.09, G:0.26, T:0.36
Consensus pattern (9 bp):
GATATTGAT
Found at i:87494470 original size:18 final size:18
Alignment explanation
Indices: 87494447--87494528 Score: 110
Period size: 18 Copynumber: 4.6 Consensus size: 18
87494437 TTGATGTTAT
87494447 CGATATTGATGATAGTGA
1 CGATATTGATGATAGTGA
* *
87494465 CAATATTGATGCTAGTGA
1 CGATATTGATGATAGTGA
* *
87494483 TGATATTGATGCTAGTGA
1 CGATATTGATGATAGTGA
*
87494501 CGCTATTGATGATAGTGA
1 CGATATTGATGATAGTGA
*
87494519 CGCTATTGAT
1 CGATATTGAT
87494529 CGTGACCTTG
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 57 1.00
ACGTcount: A:0.29, C:0.10, G:0.26, T:0.35
Consensus pattern (18 bp):
CGATATTGATGATAGTGA
Found at i:87502755 original size:14 final size:14
Alignment explanation
Indices: 87502736--87502763 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
87502726 TATATTAGTA
87502736 TTTTCTATTCTATT
1 TTTTCTATTCTATT
87502750 TTTTCTATTCTATT
1 TTTTCTATTCTATT
87502764 AGTATTAGAG
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:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTCTATTCTATT
Found at i:87502771 original size:6 final size:6
Alignment explanation
Indices: 87502760--87502838 Score: 66
Period size: 5 Copynumber: 14.2 Consensus size: 6
87502750 TTTTCTATTC
* *
87502760 TATTAG TATTAGAG TATTAG -ATTAG TATT-C TATT-C TATTAG TATTAG
1 TATTAG TATT--AG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG
87502807 -ATTAG TATTAG --TTAG -ATTAG -ATTAG TATTAG T
1 TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG T
87502839 TAGTGATCCC
Statistics
Matches: 64, Mismatches: 2, Indels: 14
0.80 0.03 0.17
Matches are distributed among these distances:
4 4 0.06
5 28 0.44
6 26 0.41
8 6 0.09
ACGTcount: A:0.33, C:0.03, G:0.16, T:0.48
Consensus pattern (6 bp):
TATTAG
Found at i:87502786 original size:11 final size:11
Alignment explanation
Indices: 87502761--87502842 Score: 50
Period size: 11 Copynumber: 7.5 Consensus size: 11
87502751 TTTCTATTCT
87502761 ATTAGTATTAG
1 ATTAGTATTAG
87502772 ---AGTATTAG
1 ATTAGTATTAG
**
87502780 ATTAGTATTCT
1 ATTAGTATTAG
*
87502791 ATT-CTATTAG
1 ATTAGTATTAG
87502801 TATTAG-ATTAG
1 -ATTAGTATTAG
87502812 TATTAGTTAGATTAG
1 -ATTAG-T--ATTAG
87502827 ATTAGTATTAG
1 ATTAGTATTAG
87502838 -TTAGT
1 ATTAGT
87502843 GATCCCGGCT
Statistics
Matches: 56, Mismatches: 6, Indels: 19
0.69 0.07 0.23
Matches are distributed among these distances:
8 8 0.14
10 9 0.16
11 28 0.50
13 1 0.02
14 5 0.09
15 5 0.09
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (11 bp):
ATTAGTATTAG
Found at i:87502827 original size:20 final size:21
Alignment explanation
Indices: 87502797--87502842 Score: 85
Period size: 20 Copynumber: 2.2 Consensus size: 21
87502787 TTCTATTCTA
87502797 TTAGTATTAGATTAGTATTAG
1 TTAGTATTAGATTAGTATTAG
87502818 TTAG-ATTAGATTAGTATTAG
1 TTAGTATTAGATTAGTATTAG
87502838 TTAGT
1 TTAGT
87502843 GATCCCGGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.48
Consensus pattern (21 bp):
TTAGTATTAGATTAGTATTAG
Found at i:87515922 original size:46 final size:45
Alignment explanation
Indices: 87515866--87516038 Score: 172
Period size: 46 Copynumber: 3.8 Consensus size: 45
87515856 TGGTTGAGCA
*
87515866 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATTCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATT-AAACG
* * * *
87515912 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGAT-TAA--A--CG
* * *
87515959 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGAGAACA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATTA-AACG
* *
87516005 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
87516039 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
43 5 0.05
44 1 0.01
45 3 0.03
46 61 0.58
47 28 0.26
48 3 0.03
49 1 0.01
50 4 0.04
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATTAAACG
Found at i:87516022 original size:93 final size:93
Alignment explanation
Indices: 87515863--87516033 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
87515853 GGATGGTTGA
***
87515863 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATTCAAATGTCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATTCAAACACCCGAGCTCGTTGAGT
87515928 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
87515956 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGA-TGAGAACACCCGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATTCA-AACACCCGAGCTCGTTGAG
87516020 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
87516034 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATTCAAACACCCGAGCTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:87523316 original size:46 final size:46
Alignment explanation
Indices: 87523260--87523432 Score: 156
Period size: 46 Copynumber: 3.7 Consensus size: 46
87523250 AGGTTGAGCA
*
87523260 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * * *
87523306 TCCGAGCTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
87523353 TCCGAACTCGTTAAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* **
87523399 -CTCGAGCTCGTTGAGTTGAGTCTAAGTTCACTTA
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
87523433 GGGGCGGGTT
Statistics
Matches: 99, Mismatches: 20, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 55 0.56
47 26 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:87523411 original size:93 final size:93
Alignment explanation
Indices: 87523257--87523427 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
87523247 ACTAGGTTGA
* *
87523257 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAGCTCGTTGAGT
*
87523322 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCTAAGTTCGTGAGATGTAACTAG
* *
87523350 GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCATTTATGGATGCGAACG-CTCGAGCTCGTTGAG
1 GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTC-CGAGCTCGTTGAG
87523414 TTGAGTCTAAGTTC
65 TTGAGTCTAAGTTC
87523428 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 1 0.01
93 71 0.99
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAGCTCGTTGAGT
TGAGTCTAAGTTCGTGAGATGTAACTAG
Found at i:87531085 original size:40 final size:40
Alignment explanation
Indices: 87530997--87531374 Score: 467
Period size: 40 Copynumber: 9.5 Consensus size: 40
87530987 AAGCCAAGTA
* * *
87530997 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * * * *
87531035 CTTTCCGGACATAGCCCGGATATAGTAACTCGCGCCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
87531075 CCTTCGGGACATAGCCCGGATATAGTAACTCGCGCCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
87531115 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
87531155 CCTTCGGGACTTAGCCCGGATGTAATTACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
87531195 GCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
87531235 CCTTCGGGACTTAGCCCGGATGTAATTACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
87531275 GCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
87531315 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCTCAAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCAC-AAATG
87531356 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
87531375 TTATCTTCCA
Statistics
Matches: 309, Mismatches: 26, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
38 10 0.03
39 17 0.06
40 258 0.83
41 24 0.08
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:87545327 original size:64 final size:64
Alignment explanation
Indices: 87545246--87545429 Score: 187
Period size: 67 Copynumber: 2.8 Consensus size: 64
87545236 AGACATTATG
* *
87545246 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
87545310 ATGTAGCTAGGTCGCATGCGTGGCT-CCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 ATGTAGCTAGGTCGCATGGGT-GATACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
87545374 TAA
62 TAA
* * * *
87545377 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGATACT-ATGTGTACACCATGTAG-ACAAGAGAGC
87545430 CGAACTCTAT
Statistics
Matches: 98, Mismatches: 15, Indels: 15
0.77 0.12 0.12
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 23 0.23
65 4 0.04
66 18 0.18
67 33 0.34
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:87558594 original size:6 final size:6
Alignment explanation
Indices: 87558583--87558616 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
87558573 ATGATTTTGT
87558583 GAAATG GAAAT- GAAATG GAAAT- GAAATG GAAATG
1 GAAATG GAAATG GAAATG GAAATG GAAATG GAAATG
87558617 ATAGATTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 10 0.38
6 16 0.62
ACGTcount: A:0.53, C:0.00, G:0.29, T:0.18
Consensus pattern (6 bp):
GAAATG
Found at i:87558598 original size:11 final size:11
Alignment explanation
Indices: 87558582--87558617 Score: 72
Period size: 11 Copynumber: 3.3 Consensus size: 11
87558572 GATGATTTTG
87558582 TGAAATGGAAA
1 TGAAATGGAAA
87558593 TGAAATGGAAA
1 TGAAATGGAAA
87558604 TGAAATGGAAA
1 TGAAATGGAAA
87558615 TGA
1 TGA
87558618 TAGATTAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.53, C:0.00, G:0.28, T:0.19
Consensus pattern (11 bp):
TGAAATGGAAA
Found at i:87559812 original size:29 final size:29
Alignment explanation
Indices: 87559770--87559843 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
87559760 GTTGTGAGAT
* *
87559770 TGGCACTAGGTGTGCGAACTTGAAA-TGCA
1 TGGCACTAAGTGTGCG-ACTTGAAAGTACA
* *
87559799 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGACTTGAAAGTACA
87559828 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
87559844 CGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 6 0.15
29 34 0.85
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGACTTGAAAGTACA
Found at i:87562399 original size:18 final size:17
Alignment explanation
Indices: 87562366--87562399 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
87562356 TGAGTGAATC
*
87562366 TCGTAGGCTTTTTTCTT
1 TCGTAGGCTATTTTCTT
87562383 TCGTAGGCCTATTTTCT
1 TCGTAGG-CTATTTTCT
87562400 ATAAGTGGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.09, C:0.21, G:0.18, T:0.53
Consensus pattern (17 bp):
TCGTAGGCTATTTTCTT
Found at i:87575834 original size:57 final size:57
Alignment explanation
Indices: 87575746--87575859 Score: 228
Period size: 57 Copynumber: 2.0 Consensus size: 57
87575736 TTTTCATTCC
87575746 TGCTGAGACCTCTCATTGGCACATCAAATATAGGTGTCAGATCGGGTGCGAACTCAA
1 TGCTGAGACCTCTCATTGGCACATCAAATATAGGTGTCAGATCGGGTGCGAACTCAA
87575803 TGCTGAGACCTCTCATTGGCACATCAAATATAGGTGTCAGATCGGGTGCGAACTCAA
1 TGCTGAGACCTCTCATTGGCACATCAAATATAGGTGTCAGATCGGGTGCGAACTCAA
87575860 GAATGCAGCT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.25
Consensus pattern (57 bp):
TGCTGAGACCTCTCATTGGCACATCAAATATAGGTGTCAGATCGGGTGCGAACTCAA
Found at i:87593678 original size:46 final size:45
Alignment explanation
Indices: 87593628--87593800 Score: 190
Period size: 46 Copynumber: 3.8 Consensus size: 45
87593618 TGGTTGAGCA
87593628 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
87593674 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
87593721 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
87593767 -CCTGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
87593801 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 3 0.03
46 63 0.59
47 32 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:87593784 original size:93 final size:93
Alignment explanation
Indices: 87593625--87593795 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
87593615 GGATGGTTGA
*
87593625 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
87593690 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* *
87593718 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
*
87593782 TTGAGTCTGAGTTC
65 TTGAGTCCGAGTTC
87593796 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:87599624 original size:135 final size:135
Alignment explanation
Indices: 87599382--87599652 Score: 542
Period size: 135 Copynumber: 2.0 Consensus size: 135
87599372 ACATTAGTGA
87599382 TATGTCACTTGTATCCTAATCCATTCCTAAGGTTCAACGGGACCTTTTTCCCAATCATGTGTCTC
1 TATGTCACTTGTATCCTAATCCATTCCTAAGGTTCAACGGGACCTTTTTCCCAATCATGTGTCTC
87599447 AACCATGTTCTACGGAATGCCGTTACCGATACTCGGTAGTATTTCACATTTTCCAAGTATATCAC
66 AACCATGTTCTACGGAATGCCGTTACCGATACTCGGTAGTATTTCACATTTTCCAAGTATATCAC
87599512 ATAAT
131 ATAAT
87599517 TATGTCACTTGTATCCTAATCCATTCCTAAGGTTCAACGGGACCTTTTTCCCAATCATGTGTCTC
1 TATGTCACTTGTATCCTAATCCATTCCTAAGGTTCAACGGGACCTTTTTCCCAATCATGTGTCTC
87599582 AACCATGTTCTACGGAATGCCGTTACCGATACTCGGTAGTATTTCACATTTTCCAAGTATATCAC
66 AACCATGTTCTACGGAATGCCGTTACCGATACTCGGTAGTATTTCACATTTTCCAAGTATATCAC
87599647 ATAAT
131 ATAAT
87599652 T
1 T
87599653 TGACATATTA
Statistics
Matches: 136, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
135 136 1.00
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.35
Consensus pattern (135 bp):
TATGTCACTTGTATCCTAATCCATTCCTAAGGTTCAACGGGACCTTTTTCCCAATCATGTGTCTC
AACCATGTTCTACGGAATGCCGTTACCGATACTCGGTAGTATTTCACATTTTCCAAGTATATCAC
ATAAT
Found at i:87601916 original size:15 final size:15
Alignment explanation
Indices: 87601892--87601939 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
87601882 AGGAAACCGA
87601892 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
87601907 ATAGAGAAATCC-AG
1 ATAAAGAAATCCAAG
*
87601921 AATAAAGAAACCCAAG
1 -ATAAAGAAATCCAAG
87601937 ATA
1 ATA
87601940 CGATACTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
14 2 0.07
15 24 0.86
16 2 0.07
ACGTcount: A:0.58, C:0.15, G:0.15, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:87604340 original size:43 final size:43
Alignment explanation
Indices: 87604279--87604371 Score: 168
Period size: 43 Copynumber: 2.2 Consensus size: 43
87604269 GTTTTCCATG
* *
87604279 GATTAACTAGTAATTTAGCGTACATAACACCAAATATGATCAT
1 GATTAGCTAGTAATTTAGCATACATAACACCAAATATGATCAT
87604322 GATTAGCTAGTAATTTAGCATACATAACACCAAATATGATCAT
1 GATTAGCTAGTAATTTAGCATACATAACACCAAATATGATCAT
87604365 GATTAGC
1 GATTAGC
87604372 CATTCCAATG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.41, C:0.16, G:0.13, T:0.30
Consensus pattern (43 bp):
GATTAGCTAGTAATTTAGCATACATAACACCAAATATGATCAT
Found at i:87605034 original size:93 final size:93
Alignment explanation
Indices: 87604926--87605096 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
87604916 GCCCATAAGT
* * *
87604926 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
87604991 CGAGCTCAGATGCCTAGTTACATCTCTC
66 CGAGCTCAGATGCCTAGTTACATCTCTC
*
87605019 GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
87605084 CGAGTTCGGATGC
66 CGAGCTCAGATGC
87605097 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCAGATGCCTAGTTACATCTCTC
Found at i:87605093 original size:46 final size:46
Alignment explanation
Indices: 87604918--87605093 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
87604908 TGTAACCCGC
* *
87604918 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
87604964 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC--AGATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** * *
87605010 ACATCTCTCGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
87605057 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
87605094 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 67 0.63
47 29 0.27
49 5 0.05
50 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:87607524 original size:30 final size:30
Alignment explanation
Indices: 87607480--87607568 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
87607470 CAAAGATAAT
87607480 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
87607509 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
87607539 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
87607569 CGATATTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:87607528 original size:15 final size:15
Alignment explanation
Indices: 87607480--87607559 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
87607470 CAAAGATAAT
*
87607480 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
87607494 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
87607509 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
87607524 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
87607539 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
87607554 AAGAAA
1 AAGAAA
87607560 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:87607568 original size:15 final size:15
Alignment explanation
Indices: 87607491--87607568 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
87607481 AGAAAACCGA
87607491 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
87607506 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
87607520 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
87607535 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
87607551 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
87607566 ATA
1 ATA
87607569 CGATATTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:87609812 original size:30 final size:30
Alignment explanation
Indices: 87609768--87609827 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
87609758 CAAAAATCAT
* *
87609768 ACTTTTACAAATTTGCATTTTGACCCCTAA
1 ACTTTCACAAATTTGCACTTTGACCCCTAA
* *
87609798 ACTTTCACATATTTGCACTTTGGCCCCTAA
1 ACTTTCACAAATTTGCACTTTGACCCCTAA
87609828 GCTCGTAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.27, C:0.27, G:0.08, T:0.38
Consensus pattern (30 bp):
ACTTTCACAAATTTGCACTTTGACCCCTAA
Found at i:87612413 original size:29 final size:29
Alignment explanation
Indices: 87612344--87612452 Score: 116
Period size: 29 Copynumber: 3.8 Consensus size: 29
87612334 AATCCCTAAT
* *
87612344 ACATGCATATGGCCCA-CTAGGCCCAA-TC
1 ACATTCATATGGCCTATC-AGGCCCAATTC
* * *
87612372 TCATTTATATGGCCTATCCGGCCCAATTC
1 ACATTCATATGGCCTATCAGGCCCAATTC
*
87612401 ACATTGATATGGCCTATCAGGCCCAATTC
1 ACATTCATATGGCCTATCAGGCCCAATTC
*
87612430 AC-TTCCATATGGCCTATTAGGCC
1 ACATT-CATATGGCCTATCAGGCC
87612453 TGATCTCATT
Statistics
Matches: 68, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
28 21 0.31
29 47 0.69
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.28
Consensus pattern (29 bp):
ACATTCATATGGCCTATCAGGCCCAATTC
Found at i:87616985 original size:29 final size:28
Alignment explanation
Indices: 87616916--87617067 Score: 130
Period size: 29 Copynumber: 5.4 Consensus size: 28
87616906 ACCCCTACAT
* *
87616916 ACATGCATATGGCCCA-CTAGGCCCAATC
1 ACATTCATATGGCCCATC-AGACCCAATC
* * * *
87616944 TCATTTATATGGCCTATCCGACCCAATTC
1 ACATTCATATGGCCCATCAGACCCAA-TC
*
87616973 ACATTCATATGGCCCATCAGGCCCAATTC
1 ACATTCATATGGCCCATCAGACCCAA-TC
* * *
87617002 ACTTTCATATGGCCCATTAGGCCCAATC
1 ACATTCATATGGCCCATCAGACCCAATC
* *
87617030 TCATTTATATGGCCCATCCAG-CCCAAATC
1 ACATTCATATGGCCCAT-CAGACCC-AATC
87617059 ACATT-ATAT
1 ACATTCATAT
87617068 TCATACTCAC
Statistics
Matches: 102, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
28 41 0.40
29 61 0.60
ACGTcount: A:0.28, C:0.32, G:0.12, T:0.28
Consensus pattern (28 bp):
ACATTCATATGGCCCATCAGACCCAATC
Found at i:87617040 original size:57 final size:57
Alignment explanation
Indices: 87616916--87617067 Score: 159
Period size: 57 Copynumber: 2.7 Consensus size: 57
87616906 ACCCCTACAT
* * *
87616916 ACATGCATATGGCCCA-CTAGGCCCAATCTCA-TTTATATGGCCTATCCGACCCAATTC
1 ACATTCATATGGCCCATC-AGGCCCAAT-TCACTTTATATGGCCCATCAGACCCAATTC
* *
87616973 ACATTCATATGGCCCATCAGGCCCAATTCACTTTCATATGGCCCATTAGGCCCAA-TC
1 ACATTCATATGGCCCATCAGGCCCAATTCACTTT-ATATGGCCCATCAGACCCAATTC
* * * *
87617030 TCATTTATATGGCCCATCCA-GCCCAAATCACATTATAT
1 ACATTCATATGGCCCAT-CAGGCCCAATTCACTTTATAT
87617068 TCATACTCAC
Statistics
Matches: 82, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
56 7 0.09
57 56 0.68
58 19 0.23
ACGTcount: A:0.28, C:0.32, G:0.12, T:0.28
Consensus pattern (57 bp):
ACATTCATATGGCCCATCAGGCCCAATTCACTTTATATGGCCCATCAGACCCAATTC
Found at i:87617169 original size:19 final size:18
Alignment explanation
Indices: 87617136--87617171 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
87617126 TGGGCCCAAC
87617136 AGCCCTTCAGGCCCATTT
1 AGCCCTTCAGGCCCATTT
*
87617154 AGCCCATTCTGGCCCATT
1 AGCCC-TTCAGGCCCATT
87617172 CACAACCCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.17, C:0.39, G:0.17, T:0.28
Consensus pattern (18 bp):
AGCCCTTCAGGCCCATTT
Found at i:87622388 original size:40 final size:39
Alignment explanation
Indices: 87622344--87622568 Score: 272
Period size: 40 Copynumber: 5.7 Consensus size: 39
87622334 GCCACTAGCT
* *
87622344 CAAATGCCTTCGAGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
*
87622384 CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
* *
87622423 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* *
87622463 CAAACGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* * * ** * *
87622503 CGAATGCCTTCAGGACTTAGCCCGGAATTAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCA
87622543 CAAATG-CTCTCGGGACTTAGCCCGGT
1 CAAATGCCT-TCGGGACTTAGCCCGGT
87622569 TATCATCCGA
Statistics
Matches: 164, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
39 40 0.24
40 124 0.76
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
Found at i:87622442 original size:79 final size:78
Alignment explanation
Indices: 87622344--87622568 Score: 272
Period size: 79 Copynumber: 2.8 Consensus size: 78
87622334 GCCACTAGCT
* *
87622344 CAAATGCCTTCGAGACTTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
87622409 TATAATAACTCGCA
65 TATAATAACTCGCA
* * * *
87622423 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCACAAACGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
* *
87622488 ATATAGTAGCTCGCA
65 -TATAATAACTCGCA
* * * ** *
87622503 CGAATGCCTTCAGGACTTAGCCCGGAATTAGCCACTAGCTCAAATG-CTCTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTAGCACAAATGCCT-TCGGGACTTAGCCCG
87622567 GT
64 GT
87622569 TATCATCCGA
Statistics
Matches: 125, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
79 63 0.50
80 62 0.50
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (78 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGT
ATAATAACTCGCA
Found at i:87627858 original size:27 final size:27
Alignment explanation
Indices: 87627828--87627958 Score: 158
Period size: 27 Copynumber: 4.9 Consensus size: 27
87627818 CCTTAATCGA
*
87627828 TAAAATGACTGTTTTGCCCTGATGAGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* *
87627855 TAAAATGATTGTTTTGCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
*
87627882 TAAAATGATTGTTTTGCCCTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* *
87627909 TAAAATAACTATTTTGCCCTT-T-ATGG
1 TAAAATGACTGTTTTGCCCTTATGA-GG
* * *
87627935 TAAGATGACTGTTTTACCCCTATG
1 TAAAATGACTGTTTTGCCCTTATG
87627959 TGATGTATGT
Statistics
Matches: 89, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
25 1 0.01
26 19 0.21
27 69 0.78
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.40
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCTTATGAGG
Found at i:87629455 original size:27 final size:26
Alignment explanation
Indices: 87629425--87629491 Score: 64
Period size: 27 Copynumber: 2.5 Consensus size: 26
87629415 GATCTCCATG
87629425 AAGGCTTCTTTATCATAAATC-GCCAAA
1 AAGGCTTCTTT-TCATAAATCAG-CAAA
* * *
87629452 AAGGTTTCCTTTTCATATATCAGCACA
1 AAGGCTT-CTTTTCATAAATCAGCAAA
87629479 AAGGCTTCCTTTT
1 AAGGCTT-CTTTT
87629492 TCAGAGATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
27 29 0.85
28 5 0.15
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.36
Consensus pattern (26 bp):
AAGGCTTCTTTTCATAAATCAGCAAA
Found at i:87634728 original size:24 final size:24
Alignment explanation
Indices: 87634697--87634745 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
87634687 ATCACAAAAG
87634697 ATAATAACATACATGCATAAGAAT
1 ATAATAACATACATGCATAAGAAT
87634721 ATAATAACATACATGCATAAGAAT
1 ATAATAACATACATGCATAAGAAT
87634745 A
1 A
87634746 ATCATATAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.55, C:0.12, G:0.08, T:0.24
Consensus pattern (24 bp):
ATAATAACATACATGCATAAGAAT
Found at i:87639321 original size:47 final size:45
Alignment explanation
Indices: 87639184--87639356 Score: 224
Period size: 46 Copynumber: 3.8 Consensus size: 45
87639174 TAACCGTGCT
* * *
87639184 GATGCATATCCCAGACATGTCTTACACTAGC-ACATCTCGTAGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTACATCTCGTGGCC
* * *
87639228 GACGCATGTCCCAGACATGTCTGACACTGGCTAACATCTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCT-ACATCTCGTGGCC
*
87639274 GATGCATGTCCCAGACATGGTCTTACACTGGCTATCATAAT-GTGGCC
1 GATGCATGTCCCAGACAT-GTCTTACACTGGCTA-CAT-CTCGTGGCC
87639321 GATGCATGTCCCAGACATGTCTTACACTGGCATACA
1 GATGCATGTCCCAGACATGTCTTACACTGGC-TACA
87639357 AATCTCATGT
Statistics
Matches: 113, Mismatches: 10, Indels: 10
0.85 0.08 0.08
Matches are distributed among these distances:
44 27 0.24
46 44 0.39
47 41 0.36
48 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.24
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTACATCTCGTGGCC
Found at i:87639342 original size:93 final size:90
Alignment explanation
Indices: 87639184--87639351 Score: 239
Period size: 93 Copynumber: 1.8 Consensus size: 90
87639174 TAACCGTGCT
*
87639184 GATGCATATCCCAGACATGTCTTACACTAGCACATCTCGTAGCCGACGCATGTCCCAGACATGTC
1 GATGCATATCCCAGACATGTCTTACACTAGCACATATCGTAGCCGACGCATGTCCCAGACATGTC
87639249 TGACACTGGCTAACATCTCGAGGCC
66 TGACACTGGCTAACATCTCGAGGCC
* * * *
87639274 GATGCATGTCCCAGACATGGTCTTACACTGGCTATCATAAT-GTGGCCGATGCATGTCCCAGACA
1 GATGCATATCCCAGACAT-GTCTTACACTAGC-A-CAT-ATCGTAGCCGACGCATGTCCCAGACA
*
87639338 TGTCTTACACTGGC
62 TGTCTGACACTGGC
87639352 ATACAAATCT
Statistics
Matches: 68, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
90 17 0.25
91 12 0.18
92 1 0.01
93 37 0.54
94 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.24
Consensus pattern (90 bp):
GATGCATATCCCAGACATGTCTTACACTAGCACATATCGTAGCCGACGCATGTCCCAGACATGTC
TGACACTGGCTAACATCTCGAGGCC
Found at i:87645336 original size:26 final size:26
Alignment explanation
Indices: 87645306--87645416 Score: 150
Period size: 27 Copynumber: 4.2 Consensus size: 26
87645296 AGCATTGCTG
* *
87645306 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
87645332 CCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
*
87645359 CCAGAACAGATATATGTGGTAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
87645386 CCAGATCAGATAAATGTGGCATAGCCA
1 CCAGAACAGAT-AATGTGGCAGAGCCA
87645413 CCAG
1 CCAG
87645417 GATGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
26 13 0.17
27 61 0.80
28 2 0.03
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:87645857 original size:8 final size:8
Alignment explanation
Indices: 87645831--87645860 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
87645821 TAAAATGCTG
87645831 GCTTTTCA
1 GCTTTTCA
*
87645839 GCATTTCA
1 GCTTTTCA
87645847 GCTTTTCA
1 GCTTTTCA
87645855 GCTTTT
1 GCTTTT
87645861 GCCGATCTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.13, C:0.23, G:0.13, T:0.50
Consensus pattern (8 bp):
GCTTTTCA
Found at i:87646850 original size:24 final size:24
Alignment explanation
Indices: 87646824--87646918 Score: 136
Period size: 24 Copynumber: 4.0 Consensus size: 24
87646814 AACACTGTTC
* * * *
87646824 TCCCTAATCAGCTCCTAAATCGTC
1 TCCCTTATCAACTCCTAAATCCTA
*
87646848 TCCCTTATCAACTCCTAAATCTTA
1 TCCCTTATCAACTCCTAAATCCTA
*
87646872 TCCCTTGTCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
87646896 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
87646919 CTTCTGACAG
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 64 1.00
ACGTcount: A:0.26, C:0.37, G:0.03, T:0.34
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:87654116 original size:29 final size:27
Alignment explanation
Indices: 87654019--87654116 Score: 117
Period size: 28 Copynumber: 3.5 Consensus size: 27
87654009 TAATAAGCCT
87654019 GCACACTTAGTGCT-TAATAGTCGAACTC
1 GCACACTTAGTGCTATAA-A-TCGAACTC
*
87654047 GCACACTTAGTGCTATATAATCAAACTC
1 GCACACTTAGTGCTATA-AATCGAACTC
* *
87654075 GCACACTTAGTGCTATACAATTTGAACCC
1 GCACACTTAGTGCTATA-AA-TCGAACTC
87654104 GCACACTTAGTGC
1 GCACACTTAGTGC
87654117 CAATCTCATG
Statistics
Matches: 62, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
28 40 0.65
29 21 0.34
30 1 0.02
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.28
Consensus pattern (27 bp):
GCACACTTAGTGCTATAAATCGAACTC
Found at i:87660607 original size:43 final size:44
Alignment explanation
Indices: 87660539--87660624 Score: 138
Period size: 43 Copynumber: 2.0 Consensus size: 44
87660529 ATCAAAATAT
*
87660539 GATATTCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAAC
1 GATATTCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAAC
* *
87660583 GATA-TCGGGCTTTGAGCCTTGCAGGCTATAATGCCGGTGAAA
1 GATATTCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
87660625 TGAAATGTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
43 35 0.90
44 4 0.10
ACGTcount: A:0.23, C:0.21, G:0.31, T:0.24
Consensus pattern (44 bp):
GATATTCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAAC
Found at i:87660964 original size:38 final size:38
Alignment explanation
Indices: 87660903--87661287 Score: 644
Period size: 38 Copynumber: 10.1 Consensus size: 38
87660893 ATTTGATGTG
*
87660903 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTATTA
87660943 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
*
87660981 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
87661019 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
87661057 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
*
87661095 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
* *
87661133 TATCCGGGTTAAATCCTGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
*
87661171 TATCCGGGTTAAATCTCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
*
87661209 TATCTGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
* * * * *
87661247 TATCCGAGTTAAATCCCGCAGGCCTAGTACTAGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
87661285 TAT
1 TAT
87661288 TCAGGCCTTG
Statistics
Matches: 329, Mismatches: 16, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
38 316 0.96
39 5 0.02
40 8 0.02
ACGTcount: A:0.21, C:0.23, G:0.25, T:0.31
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
Found at i:87661357 original size:45 final size:44
Alignment explanation
Indices: 87661284--87661414 Score: 144
Period size: 45 Copynumber: 3.0 Consensus size: 44
87661274 TACTAGTATT
* * * *
87661284 ATATTCAGGCCTTGAGCCTAACAAGCTATTATACCGGTGAGAT-
1 ATATTCAGGCCTTGAGCCTAGCAGGCTATAATACCGGTGACATG
87661327 ACTATTCAGGCCTTTGAGCCTAGCAGGCTATAATACCGGTGACATG
1 A-TATTCAGGCC-TTGAGCCTAGCAGGCTATAATACCGGTGACATG
* * * *
87661373 ATATTGA-GCCTCGAGCCTAGCAGGC-AAAATGCCGGTGA-ATG
1 ATATTCAGGCCTTGAGCCTAGCAGGCTATAATACCGGTGACATG
87661414 A
1 A
87661415 ATAAAAGTCT
Statistics
Matches: 77, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
41 4 0.05
42 11 0.14
43 15 0.19
44 13 0.17
45 33 0.43
46 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.24
Consensus pattern (44 bp):
ATATTCAGGCCTTGAGCCTAGCAGGCTATAATACCGGTGACATG
Found at i:87666655 original size:8 final size:8
Alignment explanation
Indices: 87666642--87666685 Score: 54
Period size: 8 Copynumber: 5.4 Consensus size: 8
87666632 AATTTTAATT
87666642 TTATTTAA
1 TTATTTAA
87666650 TTATTTAA
1 TTATTTAA
87666658 TTATTTAA
1 TTATTTAA
87666666 TT-TTTCAA
1 TTATTT-AA
*
87666674 TTTATTAAA
1 -TTATTTAA
87666683 TTA
1 TTA
87666686 ATATTTTATA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
7 3 0.09
8 23 0.72
9 4 0.12
10 2 0.06
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (8 bp):
TTATTTAA
Found at i:87666661 original size:16 final size:18
Alignment explanation
Indices: 87666641--87666685 Score: 60
Period size: 16 Copynumber: 2.7 Consensus size: 18
87666631 AAATTTTAAT
87666641 TTTATTTAATTATTT-AA
1 TTTATTTAATTATTTCAA
87666658 -TTATTTAATT-TTTCAA
1 TTTATTTAATTATTTCAA
*
87666674 TTTATTAAATTA
1 TTTATTTAATTA
87666686 ATATTTTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
15 3 0.12
16 12 0.50
17 9 0.38
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTATTTAATTATTTCAA
Found at i:87674521 original size:42 final size:43
Alignment explanation
Indices: 87674474--87674591 Score: 123
Period size: 42 Copynumber: 2.8 Consensus size: 43
87674464 GGACTACTAA
* * *
87674474 GATTTCGTATAAGACCATATCTGGGATATGGCATCGGTAT-AT
1 GATTTCATATAAGACCATATCAGGGATATGGCATCGATATGAT
* * * **
87674516 GATTTCATATAAGACAATGTCAGGGACATGGTGTCGATATGAT
1 GATTTCATATAAGACCATATCAGGGATATGGCATCGATATGAT
* * *
87674559 -ATTTCATGTAAGACCATATCCGAGATATGGCAT
1 GATTTCATATAAGACCATATCAGGGATATGGCAT
87674592 TGACACGGTA
Statistics
Matches: 59, Mismatches: 16, Indels: 2
0.77 0.21 0.03
Matches are distributed among these distances:
42 57 0.97
43 2 0.03
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.31
Consensus pattern (43 bp):
GATTTCATATAAGACCATATCAGGGATATGGCATCGATATGAT
Found at i:87677482 original size:37 final size:37
Alignment explanation
Indices: 87677433--87677516 Score: 134
Period size: 37 Copynumber: 2.3 Consensus size: 37
87677423 TGAGTACGTA
* *
87677433 TAAGACCATAGCTGGGCTATGGCATCGTAAT-ACCGTG
1 TAAGACCATAGCTGGGCTATGGCATCGCAATGA-CATG
87677470 TAAGACCATAGCTGGGCTATGGCATCGCAATGACATG
1 TAAGACCATAGCTGGGCTATGGCATCGCAATGACATG
87677507 TAAGACCATA
1 TAAGACCATA
87677517 CCGTGTAAGA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
37 43 0.98
38 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.23
Consensus pattern (37 bp):
TAAGACCATAGCTGGGCTATGGCATCGCAATGACATG
Found at i:87683717 original size:37 final size:36
Alignment explanation
Indices: 87683676--87683792 Score: 146
Period size: 37 Copynumber: 3.2 Consensus size: 36
87683666 TGAGTACGTA
*
87683676 TAAGACTATAGCTGGGCTATGGCATCGTAATACCGTG
1 TAAGAC-ATAGCTGGGCTATGGCATCGTAATACCATG
87683713 TAAGACCATAGCTGGGCTATGGCATCGTAATGA-CATG
1 TAAGA-CATAGCTGGGCTATGGCATCGTAAT-ACCATG
* * * *
87683750 TAAGAACATAACTGGGCTATGGCATTGTGATCCCATG
1 TAAG-ACATAGCTGGGCTATGGCATCGTAATACCATG
87683787 TAAGAC
1 TAAGAC
87683793 CATGTCAGGG
Statistics
Matches: 71, Mismatches: 5, Indels: 9
0.84 0.06 0.11
Matches are distributed among these distances:
36 2 0.03
37 66 0.93
38 3 0.04
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.26
Consensus pattern (36 bp):
TAAGACATAGCTGGGCTATGGCATCGTAATACCATG
Found at i:87683833 original size:48 final size:48
Alignment explanation
Indices: 87683779--87683906 Score: 177
Period size: 48 Copynumber: 2.7 Consensus size: 48
87683769 TGGCATTGTG
* *
87683779 ATCCCATGTAAGACCATGTC-AGGGACATGGCATTGGCATTAATATGTA
1 ATCCCATGTAAGAGCATGTCTA-GGACATGGCATTGGCATCAATATGTA
* *
87683827 ATCCCATGTAAGAGCATGTCTAGGACATGGCATTGGCATCGATATGTG
1 ATCCCATGTAAGAGCATGTCTAGGACATGGCATTGGCATCAATATGTA
** *
87683875 ATTTCGTGTAAGAGCATGTCTAGGACATGGCA
1 ATCCCATGTAAGAGCATGTCTAGGACATGGCA
87683907 CCGATATGAG
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
48 71 0.99
49 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (48 bp):
ATCCCATGTAAGAGCATGTCTAGGACATGGCATTGGCATCAATATGTA
Found at i:87683926 original size:42 final size:44
Alignment explanation
Indices: 87683833--87683929 Score: 119
Period size: 48 Copynumber: 2.2 Consensus size: 44
87683823 TGTAATCCCA
*
87683833 TGTAAGAGCATGTCTAGGACATGGCATTGGCATCGATATGTGATTTCG
1 TGTAAGAGCATGTCTAGGACATGGCA---GCA-CGATATGAGATTTCG
87683881 TGTAAGAGCATGTCTAGGACATGGCA-C-CGATATGAGACTTT-G
1 TGTAAGAGCATGTCTAGGACATGGCAGCACGATATGAGA-TTTCG
87683923 TGTAAGA
1 TGTAAGA
87683930 CCATAGTTGG
Statistics
Matches: 47, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
42 17 0.36
43 3 0.06
44 1 0.02
48 26 0.55
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.29
Consensus pattern (44 bp):
TGTAAGAGCATGTCTAGGACATGGCAGCACGATATGAGATTTCG
Found at i:87689609 original size:47 final size:47
Alignment explanation
Indices: 87689555--87689980 Score: 717
Period size: 47 Copynumber: 9.1 Consensus size: 47
87689545 GATTTTATGA
** * * * *
87689555 GATGAATGTGAATGTGTATATATGAGATAAGGCCTAATGGCCAATGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
87689602 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
87689649 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
* * *
87689696 GATGAATGTGAACATGCATATATGAGATAAGGCCTAATGGCCAATGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
*
87689743 GATGAATGTGAACATGCATATGTGTTATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
* *
87689790 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGACCAATGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
87689837 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
87689884 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
** *
87689931 GATGAATGTGAACATGCATATGTGTGATAAGGTAGAATGGCTAATGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
87689978 GAT
1 GAT
87689981 AAACGTGGAA
Statistics
Matches: 358, Mismatches: 21, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 358 1.00
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.27
Consensus pattern (47 bp):
GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
Found at i:87689651 original size:22 final size:22
Alignment explanation
Indices: 87689624--87689698 Score: 57
Period size: 22 Copynumber: 3.3 Consensus size: 22
87689614 CATGCATATG
87689624 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* *
87689646 TGTGATGAATG-TGAACAT-G-CATA
1 TGTGAT-AAGGCCG-A-ATGGCCA-A
87689669 TGTGTGATAAGGCCGAATGGCCAA
1 --TGTGATAAGGCCGAATGGCCAA
87689693 TGTGAT
1 TGTGAT
87689699 GAATGTGAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 15 0.38
23 8 0.20
24 8 0.20
25 9 0.22
ACGTcount: A:0.31, C:0.13, G:0.31, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:87689886 original size:22 final size:22
Alignment explanation
Indices: 87689859--87689933 Score: 57
Period size: 22 Copynumber: 3.3 Consensus size: 22
87689849 CATGCATATG
87689859 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* *
87689881 TGTGATGAATG-TGAACAT-G-CATA
1 TGTGAT-AAGGCCG-A-ATGGCCA-A
87689904 TGTGTGATAAGGCCGAATGGCCAA
1 --TGTGATAAGGCCGAATGGCCAA
87689928 TGTGAT
1 TGTGAT
87689934 GAATGTGAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 15 0.38
23 8 0.20
24 8 0.20
25 9 0.22
ACGTcount: A:0.31, C:0.13, G:0.31, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:87693772 original size:35 final size:35
Alignment explanation
Indices: 87693702--87693829 Score: 166
Period size: 35 Copynumber: 3.6 Consensus size: 35
87693692 AGTACATCGT
*
87693702 CAATCCAACCAAAACACACCAGATGCTCATTAGAGC
1 CAATCCAACCAAAACACACCA-ATGCTCATAAGAGC
*
87693738 CAATCCAACCGAAACACACCAATGCTCATAAGAGC
1 CAATCCAACCAAAACACACCAATGCTCATAAGAGC
* * **
87693773 TAGTCCCTCCAAAACACACCAATGCTCATAAGAGC
1 CAATCCAACCAAAACACACCAATGCTCATAAGAGC
* * *
87693808 TAGTCCAACCGAAACACACCAA
1 CAATCCAACCAAAACACACCAA
87693830 ATAGAGAGTA
Statistics
Matches: 82, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
35 62 0.76
36 20 0.24
ACGTcount: A:0.41, C:0.34, G:0.11, T:0.13
Consensus pattern (35 bp):
CAATCCAACCAAAACACACCAATGCTCATAAGAGC
Found at i:87714034 original size:48 final size:48
Alignment explanation
Indices: 87713982--87714073 Score: 139
Period size: 48 Copynumber: 1.9 Consensus size: 48
87713972 TGTCAGTGCC
* * * *
87713982 GATGCCATGTCCCAGACATGGTCTGATACTGGCACACATATCATCACT
1 GATGCCATGTCCCAAACATGGTCTGACACAGGCACAAATATCATCACT
*
87714030 GATGCCATGTCCCAAACATGGTCTTACACAGGCACAAATATCAT
1 GATGCCATGTCCCAAACATGGTCTGACACAGGCACAAATATCAT
87714074 TAATCACAGT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.24
Consensus pattern (48 bp):
GATGCCATGTCCCAAACATGGTCTGACACAGGCACAAATATCATCACT
Found at i:87724116 original size:25 final size:25
Alignment explanation
Indices: 87724082--87724132 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
87724072 ATGAACTGCA
87724082 TTACAAATCCCGAGCTTAAAAATGT
1 TTACAAATCCCGAGCTTAAAAATGT
87724107 TTACAAATCCCGAGCTTAAAAATGT
1 TTACAAATCCCGAGCTTAAAAATGT
87724132 T
1 T
87724133 AACTTTTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (25 bp):
TTACAAATCCCGAGCTTAAAAATGT
Found at i:87727595 original size:86 final size:85
Alignment explanation
Indices: 87727445--87727607 Score: 204
Period size: 86 Copynumber: 1.9 Consensus size: 85
87727435 CTCGTACAAC
* * ** *
87727445 GCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCAATGCCACTGTCCTAAATAGGGTCT
1 GCCAACGTACCAGACATGGTCTTACACATAATCACAAATCAATGCCACTGTCCTAAATAGGGTCT
*
87727510 TACATGAAATCATATACGAT
66 TACACGAAATCATATACGAT
* * *
87727530 GCCAATGTACCAGACATGGTCTTACACATAAATCACAAATCGATGCCAAC-GTCCTAGAT-GTGG
1 GCCAACGTACCAGACATGGTCTTACACAT-AATCACAAATCAATGCC-ACTGTCCTAAATAG-GG
87727593 TCTTACACGAAATCA
63 TCTTACACGAAATCA
87727608 CATATCGGAA
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
85 25 0.38
86 39 0.59
87 2 0.03
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (85 bp):
GCCAACGTACCAGACATGGTCTTACACATAATCACAAATCAATGCCACTGTCCTAAATAGGGTCT
TACACGAAATCATATACGAT
Found at i:87727606 original size:43 final size:43
Alignment explanation
Indices: 87727445--87727614 Score: 159
Period size: 43 Copynumber: 4.0 Consensus size: 43
87727435 CTCGTACAAC
* * * *
87727445 GCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCAAT
1 GCCAACGTCCTAGACGTGGTCTTACACGAAATCACATATCGAT
* * * *
87727488 GCC-ACTGTCCTAAATAG-GGTCTTACATGAAATCATATA-CGAT
1 GCCAAC-GTCCTAGA-CGTGGTCTTACACGAAATCACATATCGAT
* * * *
87727530 GCCAATGTACC-AGACATGGTCTTACACATAAATCACAAATCGAT
1 GCCAACGT-CCTAGACGTGGTCTTACAC-GAAATCACATATCGAT
*
87727574 GCCAACGTCCTAGATGTGGTCTTACACGAAATCACATATCG
1 GCCAACGTCCTAGACGTGGTCTTACACGAAATCACATATCG
87727615 GAATACTATA
Statistics
Matches: 100, Mismatches: 19, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
42 21 0.21
43 53 0.53
44 26 0.26
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.25
Consensus pattern (43 bp):
GCCAACGTCCTAGACGTGGTCTTACACGAAATCACATATCGAT
Found at i:87729328 original size:26 final size:26
Alignment explanation
Indices: 87729299--87729353 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
87729289 ATACTATAAC
87729299 TAATTTAAAAGTATTAATTATATTTT
1 TAATTTAAAAGTATTAATTATATTTT
87729325 TAATTTAAAAGTATTAATTATATTTT
1 TAATTTAAAAGTATTAATTATATTTT
87729351 TAA
1 TAA
87729354 GTGTTCATGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (26 bp):
TAATTTAAAAGTATTAATTATATTTT
Found at i:87733989 original size:25 final size:25
Alignment explanation
Indices: 87733940--87733990 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
87733930 CATTTACTTA
* * *
87733940 AGTCGCATAGGGCTTTTTGATTTGT
1 AGTCGCATAAGGCTTTTCGACTTGT
*
87733965 AGTCGCATAAGGCTTTTCGGCTTGT
1 AGTCGCATAAGGCTTTTCGACTTGT
87733990 A
1 A
87733991 ACATTTTGAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.18, C:0.16, G:0.27, T:0.39
Consensus pattern (25 bp):
AGTCGCATAAGGCTTTTCGACTTGT
Found at i:87742981 original size:54 final size:54
Alignment explanation
Indices: 87742923--87743034 Score: 143
Period size: 54 Copynumber: 2.1 Consensus size: 54
87742913 TACTGAAATG
*
87742923 CCCTCAAATTGTAAAATTACCAAAGTACCCTCGATTTATAAAATTACCGTTTTA
1 CCCTCAAATTATAAAATTACCAAAGTACCCTCGATTTATAAAATTACCGTTTTA
* * *** * * *
87742977 CCCTCAATTTATAGAATTACCATTTTACCCTTGATTTATAGAATTACTGTTTTA
1 CCCTCAAATTATAAAATTACCAAAGTACCCTCGATTTATAAAATTACCGTTTTA
87743031 CCCT
1 CCCT
87743035 TGATTTATAG
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.32, C:0.22, G:0.07, T:0.38
Consensus pattern (54 bp):
CCCTCAAATTATAAAATTACCAAAGTACCCTCGATTTATAAAATTACCGTTTTA
Found at i:87743078 original size:27 final size:27
Alignment explanation
Indices: 87742948--87743078 Score: 181
Period size: 27 Copynumber: 4.9 Consensus size: 27
87742938 ATTACCAAAG
* *
87742948 TACCCTCGATTTATAAAATTACCGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
* **
87742975 TACCCTCAATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACTGTTT
*
87743002 TACCCTTGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
*
87743029 TACCCTTGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
* *
87743056 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTATAGAATTACT
87743079 AAAATACCCT
Statistics
Matches: 94, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 94 1.00
ACGTcount: A:0.30, C:0.20, G:0.08, T:0.43
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACTGTTT
Found at i:87743086 original size:27 final size:27
Alignment explanation
Indices: 87743056--87743303 Score: 216
Period size: 27 Copynumber: 9.2 Consensus size: 27
87743046 ATTACTGTTT
** *
87743056 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* * **
87743083 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
*
87743110 TACCCTCGATTAGTAAAATTACCAAAAA
1 TACCCTCGATTTGTAAAATTACC-AAAA
* * * *
87743138 TACCCTAG-TCTGTAAAATTGCTAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* * *
87743164 TACCC-CTGGTTTGTAAAATTATCGAAA
1 TACCCTC-GATTTGTAAAATTACCAAAA
* *
87743191 TACTCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
*
87743218 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTGTAAAATTACCAAAA
* * **
87743245 TACCACTAG-TTTGTGAAATTACTGAAA
1 TACC-CTCGATTTGTAAAATTACCAAAA
* *
87743272 TACTCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
87743299 TACCC
1 TACCC
87743304 CTGATTTAGA
Statistics
Matches: 175, Mismatches: 38, Indels: 16
0.76 0.17 0.07
Matches are distributed among these distances:
26 14 0.08
27 148 0.85
28 13 0.07
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
TACCCTCGATTTGTAAAATTACCAAAA
Found at i:87743087 original size:54 final size:54
Alignment explanation
Indices: 87742983--87743143 Score: 144
Period size: 54 Copynumber: 3.0 Consensus size: 54
87742973 TTTACCCTCA
* * * ****
87742983 ATTTATAGAATTACCATTTTACCCTTGATTTATAGAATTACTGTTTTACCCTTG
1 ATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACTAAAATACCCTTG
**
87743037 ATTTATAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTG
1 ATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACTAAAATACCCTTG
* * * *** * *
87743091 GTTTACAAAATTACCAAAATACCCTCGA-TTAGTAAAATTACCAAAAATACCCT
1 ATTTATAGAATTACCATTTTACCCTCGATTTA-CAAAATTA-CTAAAATACCCT
87743144 AGTCTGTAAA
Statistics
Matches: 86, Mismatches: 19, Indels: 3
0.80 0.18 0.03
Matches are distributed among these distances:
53 3 0.03
54 72 0.84
55 11 0.13
ACGTcount: A:0.36, C:0.19, G:0.07, T:0.37
Consensus pattern (54 bp):
ATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACTAAAATACCCTTG
Found at i:87743114 original size:81 final size:81
Alignment explanation
Indices: 87742935--87743132 Score: 209
Period size: 81 Copynumber: 2.4 Consensus size: 81
87742925 CTCAAATTGT
* * * *
87742935 AAAATTACCAAAGTACCCTCGATTTATAAAATTACCGTTTTACCCTCAATTTATAGAATTACCAT
1 AAAATTACCAAAATACCCTCGATTTATAAAATTACCGTTTTACCCTCAATTTACAAAATTACCAA
** *
87743000 TTTACCCTTGATTTAT
66 AATACCCTTGATTTAC
* ***** * * * * *
87743016 AGAATTACTGTTTTACCCTTGATTTATAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAA
1 AAAATTACCAAAATACCCTCGATTTATAAAATTACCGTTTTACCCTCAATTTACAAAATTACCAA
*
87743081 AATACCCTTGGTTTAC
66 AATACCCTTGATTTAC
87743097 AAAATTACCAAAATACCCTCGA-TTAGTAAAATTACC
1 AAAATTACCAAAATACCCTCGATTTA-TAAAATTACC
87743133 AAAAATACCC
Statistics
Matches: 89, Mismatches: 27, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
80 3 0.03
81 86 0.97
ACGTcount: A:0.35, C:0.20, G:0.08, T:0.37
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTCGATTTATAAAATTACCGTTTTACCCTCAATTTACAAAATTACCAA
AATACCCTTGATTTAC
Found at i:87743155 original size:81 final size:79
Alignment explanation
Indices: 87743070--87743303 Score: 306
Period size: 81 Copynumber: 2.9 Consensus size: 79
87743060 CTCGATTTAC
** * * * *
87743070 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATTAGTAAAATTACCAA
1 AAAATTACTAAAATACCC-TGGTTTGTAAAATTACCGAAATACTCTCAATTTGTAAAATTACC-A
87743135 AAATACCCTAGTCTGT
64 AAATACCCTAGTCTGT
* *
87743151 AAAATTGCTAAAATACCCCTGGTTTGTAAAATTATCGAAATACTCTCAATTTGTAAAATTACCAA
1 AAAATTACTAAAATA-CCCTGGTTTGTAAAATTACCGAAATACTCTCAATTTGTAAAATTACCAA
*
87743216 AATACCCCTAGTTTGT
65 AATA-CCCTAGTCTGT
* * * *
87743232 AAAATTACCAAAATACCACTAGTTTGTGAAATTACTGAAATACTCTCAATTTGTAAAATTACCAA
1 AAAATTACTAAAATACC-CTGGTTTGTAAAATTACCGAAATACTCTCAATTTGTAAAATTACCAA
87743297 AATACCC
65 AATACCC
87743304 CTGATTTAGA
Statistics
Matches: 135, Mismatches: 15, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
80 11 0.08
81 121 0.90
82 3 0.02
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (79 bp):
AAAATTACTAAAATACCCTGGTTTGTAAAATTACCGAAATACTCTCAATTTGTAAAATTACCAAA
ATACCCTAGTCTGT
Found at i:87745268 original size:80 final size:80
Alignment explanation
Indices: 87745135--87745316 Score: 244
Period size: 80 Copynumber: 2.3 Consensus size: 80
87745125 TATTCGGATA
* * *
87745135 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGTCCCGAAGGCA
*
87745200 ATTGTGCGAGTTA-CT
66 ATTGAGCGAG-TAGCT
*
87745215 ATAACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAGTCCCGAAGGC
*
87745279 ATTTGAGCGAGTAGCT
65 AATTGAGCGAGTAGCT
* * *
87745295 ATATCC-GGTTAAATTCCGAAGG
1 ATAACCGGGTTAAGTCCCGAAGG
87745317 TACGTGATTC
Statistics
Matches: 91, Mismatches: 9, Indels: 5
0.87 0.09 0.05
Matches are distributed among these distances:
79 18 0.20
80 73 0.80
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (80 bp):
ATAACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGTCCCGAAGGCA
ATTGAGCGAGTAGCT
Found at i:87745297 original size:40 final size:40
Alignment explanation
Indices: 87745135--87745290 Score: 242
Period size: 40 Copynumber: 3.9 Consensus size: 40
87745125 TATTCGGATA
* *
87745135 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
87745175 A-ATTCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
87745215 ATAACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
87745255 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
87745291 AGCTATATCC
Statistics
Matches: 105, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 1 0.01
40 103 0.98
41 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:87753345 original size:79 final size:81
Alignment explanation
Indices: 87753209--87753393 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
87753199 TTGAATGATG
*
87753209 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
87753273 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
87753288 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
87753350 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
87753368 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
87753394 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:87753407 original size:40 final size:40
Alignment explanation
Indices: 87753210--87753393 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
87753200 TGAATGATGT
* * * *
87753210 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
87753250 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
87753290 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
87753328 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
87753369 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
87753394 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:87753415 original size:79 final size:79
Alignment explanation
Indices: 87753262--87753426 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
87753252 GGACTAAGAT
* **
87753262 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
87753327 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
87753341 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
87753404 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
87753420 CCGAAGG
1 CCGAAGG
87753427 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:87754839 original size:27 final size:27
Alignment explanation
Indices: 87754807--87754858 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
87754797 TGACTTTCTA
*
87754807 AAAATTA-TGGAAATACTATTGGTTTAC
1 AAAATTACT-GAAATACCATTGGTTTAC
*
87754834 AAAATTACTGAAATACCCTTGGTTT
1 AAAATTACTGAAATACCATTGGTTT
87754859 GTAGATTTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.37
Consensus pattern (27 bp):
AAAATTACTGAAATACCATTGGTTTAC
Found at i:87754972 original size:27 final size:27
Alignment explanation
Indices: 87754912--87754998 Score: 95
Period size: 27 Copynumber: 3.2 Consensus size: 27
87754902 ACCCCTATTA
* *
87754912 GGTAAAAAGTCCGTAAAGCCCCTGTAG
1 GGTAAAGAGACCGTAAAGCCCCTGTAG
*
87754939 GGTAAAGAGACCGTAAAGCTCCTGTAG
1 GGTAAAGAGACCGTAAAGCCCCTGTAG
* * * *
87754966 GGTAAAGTGACTGTAATA-CCCATGTAT
1 GGTAAAGAGACCGTAA-AGCCCCTGTAG
87754993 GGTAAA
1 GGTAAA
87754999 ATGGCGAATA
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
27 50 0.98
28 1 0.02
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.22
Consensus pattern (27 bp):
GGTAAAGAGACCGTAAAGCCCCTGTAG
Found at i:87772163 original size:43 final size:42
Alignment explanation
Indices: 87772092--87772199 Score: 119
Period size: 43 Copynumber: 2.5 Consensus size: 42
87772082 GGTAAGATGC
* * *
87772092 GGTCTTACATGTAATCACCTATCGATGCC-ACTGTCCCAGACAG
1 GGTCTTACATG-AAACACATATCAATGCCAACT-TCCCAGACAG
* *
87772135 GGTCTTACATGAGAACACATATCAATGCCAACTTCCTAGACAT
1 GGTCTTACATGA-AACACATATCAATGCCAACTTCCCAGACAG
*
87772178 GGTCTTACACGAAAACACATAT
1 GGTCTTACATG-AAACACATAT
87772200 TAGAAATCCT
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
42 1 0.02
43 51 0.91
44 4 0.07
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (42 bp):
GGTCTTACATGAAACACATATCAATGCCAACTTCCCAGACAG
Found at i:87776063 original size:20 final size:20
Alignment explanation
Indices: 87776020--87776064 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
87776010 TCTCCCTTTC
*
87776020 TTCTCCTCTTCTTGATCCTT
1 TTCTCCTCTTCTTGATCCTA
* * *
87776040 TTCTTCTCTTCTTGTTTCTA
1 TTCTCCTCTTCTTGATCCTA
87776060 TTCTC
1 TTCTC
87776065 AAACTCTAGT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.04, C:0.31, G:0.04, T:0.60
Consensus pattern (20 bp):
TTCTCCTCTTCTTGATCCTA
Found at i:87777447 original size:27 final size:27
Alignment explanation
Indices: 87777280--87777439 Score: 162
Period size: 27 Copynumber: 5.9 Consensus size: 27
87777270 ACCCTATTTA
* *
87777280 TAAAATTACCGAAATACCCTCAGT-TTG
1 TAAAATTACCGAAATACCCTTA-TAGTG
* ** * *
87777307 TAAAATTATCGAAATACTCCCAAT-TTA
1 TAAAATTACCGAAATAC-CCTTATAGTG
*
87777334 TAAAATTACCCAAATACCCTTATAGTG
1 TAAAATTACCGAAATACCCTTATAGTG
* *
87777361 TACAATTACTGAAATACCCTTATAGTG
1 TAAAATTACCGAAATACCCTTATAGTG
* * *
87777388 TACAATTATCAAAATACCCTTATAGTG
1 TAAAATTACCGAAATACCCTTATAGTG
*
87777415 TAAAATTACCGAAATACCCCTATAG
1 TAAAATTACCGAAATACCCTTATAG
87777440 GGAAAAATGA
Statistics
Matches: 111, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
26 4 0.04
27 104 0.94
28 3 0.03
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
TAAAATTACCGAAATACCCTTATAGTG
Found at i:87777891 original size:27 final size:27
Alignment explanation
Indices: 87777846--87777897 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
87777836 CCATCTTGAT
* *
87777846 TATGGCTTTGTGCCAATCATATTTACC
1 TATGGCTATGTACCAATCATATTTACC
*
87777873 TATGGCTATGTACCTATCATATTTA
1 TATGGCTATGTACCAATCATATTTA
87777898 TTGATGACTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.25, C:0.19, G:0.13, T:0.42
Consensus pattern (27 bp):
TATGGCTATGTACCAATCATATTTACC
Found at i:87778133 original size:27 final size:27
Alignment explanation
Indices: 87778095--87778196 Score: 107
Period size: 27 Copynumber: 3.8 Consensus size: 27
87778085 ATCTTGATTA
* *
87778095 TGGCTTTGTGCCAATCATATTTACCTG
1 TGGCTATGTGCCGATCATATTTACCTG
* *
87778122 TGGCTATGTGCCTATCATATTTA-TTG
1 TGGCTATGTGCCGATCATATTTACCTG
* * * *
87778148 ATGACTTTGTGTCGATCATATTTACCCG
1 -TGGCTATGTGCCGATCATATTTACCTG
*
87778176 TGGCTATGTGCCGATTATATT
1 TGGCTATGTGCCGATCATATT
87778197 ATCGTCGCTG
Statistics
Matches: 60, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
26 2 0.03
27 57 0.95
28 1 0.02
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.42
Consensus pattern (27 bp):
TGGCTATGTGCCGATCATATTTACCTG
Found at i:87778246 original size:247 final size:247
Alignment explanation
Indices: 87777810--87778284 Score: 887
Period size: 247 Copynumber: 1.9 Consensus size: 247
87777800 ATTATAGCTC
87777810 TATGCCAACCTAAAAATGGCTCTGTGCCATCTTGATTATGGCTTTGTGCCAATCATATTTACCTA
1 TATGCCAACCTAAAAATGGCTCTGTGCCATCTTGATTATGGCTTTGTGCCAATCATATTTACCTA
87777875 TGGCTATGTACCTATCATATTTATTGATGACTTTGTGTCGATCATATTTACCCGTGGCTATGTGC
66 TGGCTATGTACCTATCATATTTATTGATGACTTTGTGTCGATCATATTTACCCGTGGCTATGTGC
* *
87777940 TGATTATATTATCGTCGCTGATGGCTATGTGTCAAACTTATTACAGTTACCGATAGCCTTGTGCC
131 CGATTATATTATCGTCGCTGATGGCTATGTGCCAAACTTATTACAGTTACCGATAGCCTTGTGCC
87778005 ATCCTGATTATGACTCTGTGCCATCCTGATTATGGTTTATAACCATTCTGTT
196 ATCCTGATTATGACTCTGTGCCATCCTGATTATGGTTTATAACCATTCTGTT
*
87778057 TATGCCAACCTAAAAATGGCTCTGTGCCATCTTGATTATGGCTTTGTGCCAATCATATTTACCTG
1 TATGCCAACCTAAAAATGGCTCTGTGCCATCTTGATTATGGCTTTGTGCCAATCATATTTACCTA
*
87778122 TGGCTATGTGCCTATCATATTTATTGATGACTTTGTGTCGATCATATTTACCCGTGGCTATGTGC
66 TGGCTATGTACCTATCATATTTATTGATGACTTTGTGTCGATCATATTTACCCGTGGCTATGTGC
*
87778187 CGATTATATTATCGTCGCTGATGGCTATGTGCCACACTTATTACAGTTACCGATAGCCTTGTGCC
131 CGATTATATTATCGTCGCTGATGGCTATGTGCCAAACTTATTACAGTTACCGATAGCCTTGTGCC
* *
87778252 GTCCTGATTATGGCTCTGTGCCATCCTGATTAT
196 ATCCTGATTATGACTCTGTGCCATCCTGATTAT
87778285 AGCTCTGTGC
Statistics
Matches: 221, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
247 221 1.00
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.38
Consensus pattern (247 bp):
TATGCCAACCTAAAAATGGCTCTGTGCCATCTTGATTATGGCTTTGTGCCAATCATATTTACCTA
TGGCTATGTACCTATCATATTTATTGATGACTTTGTGTCGATCATATTTACCCGTGGCTATGTGC
CGATTATATTATCGTCGCTGATGGCTATGTGCCAAACTTATTACAGTTACCGATAGCCTTGTGCC
ATCCTGATTATGACTCTGTGCCATCCTGATTATGGTTTATAACCATTCTGTT
Found at i:87778278 original size:22 final size:22
Alignment explanation
Indices: 87778246--87778308 Score: 99
Period size: 22 Copynumber: 2.9 Consensus size: 22
87778236 CCGATAGCCT
*
87778246 TGTGCCGTCCTGATTATGGCTC
1 TGTGCCATCCTGATTATGGCTC
*
87778268 TGTGCCATCCTGATTATAGCTC
1 TGTGCCATCCTGATTATGGCTC
*
87778290 TGTGCCATCTTGATTATGG
1 TGTGCCATCCTGATTATGG
87778309 TTTATAACCA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.14, C:0.24, G:0.24, T:0.38
Consensus pattern (22 bp):
TGTGCCATCCTGATTATGGCTC
Found at i:87780756 original size:20 final size:18
Alignment explanation
Indices: 87780722--87780758 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
87780712 GCAACTCATA
87780722 ATTTCAACTATTTTACAC
1 ATTTCAACTATTTTACAC
87780740 ATTTACAACTCATTTTACA
1 ATTT-CAACT-ATTTTACA
87780759 ACTTAGCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTTCAACTATTTTACAC
Found at i:87783233 original size:47 final size:47
Alignment explanation
Indices: 87783178--87783308 Score: 174
Period size: 47 Copynumber: 2.8 Consensus size: 47
87783168 CACAATCAAT
* *
87783178 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATTC-CG
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAAC-TACTCTCA
* * *
87783225 GAGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCCTCTCA
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTACTCTCA
* * *
87783272 AAATACCTATATCATGTCCCGTAGCCAAATCAAGGTA
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTA
87783309 TTATTTGCAC
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
46 3 0.04
47 70 0.96
ACGTcount: A:0.34, C:0.28, G:0.15, T:0.23
Consensus pattern (47 bp):
AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTACTCTCA
Found at i:87792165 original size:15 final size:15
Alignment explanation
Indices: 87792145--87792179 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
87792135 TGTCTTTCTC
87792145 CTCTTTTCTTTCTTT
1 CTCTTTTCTTTCTTT
87792160 CTCTTTTCTTTCTTT
1 CTCTTTTCTTTCTTT
87792175 -TCTTT
1 CTCTTT
87792180 CCTATTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.25
15 15 0.75
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (15 bp):
CTCTTTTCTTTCTTT
Found at i:87794560 original size:48 final size:48
Alignment explanation
Indices: 87794038--87794552 Score: 464
Period size: 48 Copynumber: 10.7 Consensus size: 48
87794028 GGGTGAATTA
* ** * * *
87794038 TCGATGTCATGTTTCAAACATGGTCTTACACTGACTCACATGTCGA-GG
1 TCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATC-ATGG
* * * ** * **
87794086 TCGATGCCATGTCCCAGATATGGTCTTACACTAGCTCTTGTCTCATTA
1 TCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCATGG
* * * * * *
87794134 CCAATACCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACGTGG
1 TCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCATGG
* * * *** *
87794182 TTGATGCCATGTTCCAAACATGGTCTTACACTAGCAAACATATCAAT-A
1 TCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATC-ATGG
* * * * * * *
87794230 CCGATGTCATGTCCTAAACATGGTCTTACGCTGGCTCTCACAACATCG
1 TCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCATGG
* * * *
87794278 TCGATGTCATGTTCCAAACATGGTCTTCCACTGGGTCTCATATCATGG
1 TCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCATGG
* * * * *
87794326 TTGATGCCATGTTCCAAACATGGTCTTACACTAGCGCACATATCAAT-G
1 TCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATC-ATGG
* * *
87794374 TCGATGCCATGTCCCAAACATGGTCTTTCACTGGCTCTCACATCGTGG
1 TCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCATGG
* * * *
87794422 -CTGATGCCATGTTCCAAACATGGTCTTACACTAGCGCACATATCAAT-G
1 TC-GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATC-ATGG
* *
87794470 TCGATGCCATGTCCCAGACATGCTCTTACACTGGCTCTCATATCATGG
1 TCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCATGG
* *
87794518 TCGATGCCATGTCCCAGACATGGTCTTATACTGGC
1 TCGATGCCATGTCCCAAACATGGTCTTACACTGGC
87794553 ACACATATTA
Statistics
Matches: 368, Mismatches: 90, Indels: 18
0.77 0.19 0.04
Matches are distributed among these distances:
47 7 0.02
48 356 0.97
49 5 0.01
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (48 bp):
TCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCATGG
Found at i:87799362 original size:21 final size:21
Alignment explanation
Indices: 87799325--87799371 Score: 53
Period size: 20 Copynumber: 2.2 Consensus size: 21
87799315 CATACTATTA
*
87799325 AAAAATTAAATTAAAATCATCC
1 AAAAATTAAATTAAAATC-TAC
87799347 AAAAATT-AA-TACAAATCTAC
1 AAAAATTAAATTA-AAATCTAC
87799367 AAAAA
1 AAAAA
87799372 ATCAGTCATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 9 0.39
21 7 0.30
22 7 0.30
ACGTcount: A:0.64, C:0.13, G:0.00, T:0.23
Consensus pattern (21 bp):
AAAAATTAAATTAAAATCTAC
Found at i:87800734 original size:32 final size:31
Alignment explanation
Indices: 87800698--87800763 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
87800688 ATAAATCAAA
*
87800698 AAGAGA-AAGAGAAAAATGATTTTTTAGGGTTT
1 AAGAGATAAGA-AAAAATGA-ATTTTAGGGTTT
**
87800730 AAGAGATTTGAAAAAATGAATTTTAGGGTTT
1 AAGAGATAAGAAAAAATGAATTTTAGGGTTT
87800761 AAG
1 AAG
87800764 GGATTTGAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
31 14 0.47
32 14 0.47
33 2 0.07
ACGTcount: A:0.44, C:0.00, G:0.24, T:0.32
Consensus pattern (31 bp):
AAGAGATAAGAAAAAATGAATTTTAGGGTTT
Found at i:87800744 original size:31 final size:30
Alignment explanation
Indices: 87800708--87800771 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 30
87800698 AAGAGAAAGA
*
87800708 GAAAAATGATTTTTTAGGGTTTAAGAGATTT
1 GAAAAATGA-ATTTTAGGGTTTAAGAGATTT
*
87800739 GAAAAAATGAATTTTAGGGTTTAAGGGATTT
1 G-AAAAATGAATTTTAGGGTTTAAGAGATTT
87800770 GA
1 GA
87800772 GAGGTTTTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 1 0.03
31 21 0.70
32 8 0.27
ACGTcount: A:0.38, C:0.00, G:0.25, T:0.38
Consensus pattern (30 bp):
GAAAAATGAATTTTAGGGTTTAAGAGATTT
Found at i:87805392 original size:56 final size:56
Alignment explanation
Indices: 87805325--87805556 Score: 371
Period size: 56 Copynumber: 4.1 Consensus size: 56
87805315 TATTAGTTTA
* *
87805325 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTGATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
87805381 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
* * *
87805437 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACA-ATTTC-TTA-TTAGTTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACAT-G-TT
87805492 ATTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 -TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
87805549 TTGCCCAT
1 TTGCCCAT
87805557 CATCCCTTGT
Statistics
Matches: 162, Mismatches: 8, Indels: 12
0.89 0.04 0.07
Matches are distributed among these distances:
53 1 0.01
54 3 0.02
55 6 0.04
56 142 0.88
57 6 0.04
58 3 0.02
59 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.09, T:0.47
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:87807204 original size:31 final size:30
Alignment explanation
Indices: 87807162--87807220 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 30
87807152 AACAATAATG
*
87807162 GAAATAAAGTTTAAACCCTAAA-AGAAAAGA
1 GAAATAAAGTTTAAA-ACTAAAGAGAAAAGA
87807192 GAAACTAAAGTTTAAAACTAAAGAGAAAA
1 GAAA-TAAAGTTTAAAACTAAAGAGAAAA
87807221 TTATAGAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 9 0.35
31 17 0.65
ACGTcount: A:0.61, C:0.08, G:0.14, T:0.17
Consensus pattern (30 bp):
GAAATAAAGTTTAAAACTAAAGAGAAAAGA
Found at i:87811089 original size:3 final size:3
Alignment explanation
Indices: 87811083--87811107 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
87811073 ACAACAACAA
87811083 CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT C
87811108 TGCAAACAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:87813819 original size:101 final size:99
Alignment explanation
Indices: 87813713--87814011 Score: 304
Period size: 91 Copynumber: 3.1 Consensus size: 99
87813703 ATTTAATATT
87813713 AATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATAT
1 AATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATAT
87813778 ATCATTATTAAAT-TA--T-AT-TTAA-TA--TT-
66 AT-ATTATTAAATATATTTAATATTAATTATTTTA
87813804 AATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATAT
1 AATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATAT
*
87813869 ATTATTATTAAATTATATTTAATAATAATTATTTTA
66 A-TATTATTAAA-TATATTTAATATTAATTATTTTA
** * * * *
87813905 AATTA-TACAAATTCATATAAGAAAATTTAT-TAGGTATAA-TTATTAT--A-AATTTTATTAAA
1 AATTATTTTAAATT-ATAT----AAATTCATATAAG-AAAATTTATTATCAAGAATTTTATGAAA
* * *
87813964 TCATATATTTTAATTAAAATATATTTAATATTAATTATTTCA
60 TTATATATATT-ATT-AAATATATTTAATATTAATTATTTTA
87814006 AATTAT
1 AATTAT
87814012 ATTTTATAGT
Statistics
Matches: 177, Mismatches: 11, Indels: 29
0.82 0.05 0.13
Matches are distributed among these distances:
91 75 0.42
92 2 0.01
93 2 0.01
95 1 0.01
96 2 0.01
97 3 0.02
98 2 0.01
100 11 0.06
101 55 0.31
102 4 0.02
104 10 0.06
105 10 0.06
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (99 bp):
AATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATAT
ATATTATTAAATATATTTAATATTAATTATTTTA
Found at i:87813955 original size:91 final size:91
Alignment explanation
Indices: 87813678--87813936 Score: 491
Period size: 91 Copynumber: 2.8 Consensus size: 91
87813668 TTAAATGTAT
87813678 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
1 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
87813743 GAAAATTTATTATCAAGAATTTTATG
66 GAAAATTTATTATCAAGAATTTTATG
87813769 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
1 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
87813834 GAAAATTTATTATCAAGAATTTTATG
66 GAAAATTTATTATCAAGAATTTTATG
* * *
87813860 AAATTATATATTATTATTAAATTATATTTAATAATAATTATTTTAAATTATACAAATTCATATAA
1 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
87813925 GAAAATTTATTA
66 GAAAATTTATTA
87813937 GGTATAATTA
Statistics
Matches: 165, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
91 165 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (91 bp):
AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
GAAAATTTATTATCAAGAATTTTATG
Found at i:87814107 original size:16 final size:16
Alignment explanation
Indices: 87814086--87814127 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
87814076 TTATTAAATT
*
87814086 ATATATTTTAATTATA
1 ATATATTTTAATAATA
87814102 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
87814117 AT-TATGTTTAA
1 ATATAT-TTTAA
87814128 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:87814112 original size:15 final size:15
Alignment explanation
Indices: 87814077--87814118 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
87814067 TTAAGAATTT
*
87814077 TATTAAATTAT-ATA
1 TATTTAATTATAATA
87814091 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
87814105 TATTTAATAATAAT
1 TATTTAATTATAAT
87814119 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:87829606 original size:61 final size:61
Alignment explanation
Indices: 87829534--87829655 Score: 244
Period size: 61 Copynumber: 2.0 Consensus size: 61
87829524 TTAGATATAA
87829534 AGATTGTTTTTATATTGCAACTATTGCATTAAGACATTGCATATATCAGCTCTCTTAGTAC
1 AGATTGTTTTTATATTGCAACTATTGCATTAAGACATTGCATATATCAGCTCTCTTAGTAC
87829595 AGATTGTTTTTATATTGCAACTATTGCATTAAGACATTGCATATATCAGCTCTCTTAGTAC
1 AGATTGTTTTTATATTGCAACTATTGCATTAAGACATTGCATATATCAGCTCTCTTAGTAC
87829656 TTGGTGCTCA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (61 bp):
AGATTGTTTTTATATTGCAACTATTGCATTAAGACATTGCATATATCAGCTCTCTTAGTAC
Found at i:87831416 original size:2 final size:2
Alignment explanation
Indices: 87831409--87831607 Score: 99
Period size: 2 Copynumber: 103.5 Consensus size: 2
87831399 CACTAGCAGA
* * * *
87831409 CT CT CT CT CT CT -T C- CT CT CT CC CC CT CT CT CC CT CC CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
* * * * * * * * * *
87831449 CC CC CT CT CT CT TT CC CC CA CT CT CC CA CT CT CC CC CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
* * * *
87831491 -T C- CT CT CT CC CT CT TT CT CC CT CT CT CT TT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
* * * * * *
87831531 CT CT CC CC CT CT CT CC CT CC CT CT C- CT -T CT CT CT CT CC CC
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
* * *
87831571 CT CT CT -T C- CC CC CT CT CT CT CT TT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
87831608 AAGGTTCTGA
Statistics
Matches: 152, Mismatches: 37, Indels: 16
0.74 0.18 0.08
Matches are distributed among these distances:
1 8 0.05
2 144 0.95
ACGTcount: A:0.01, C:0.59, G:0.00, T:0.40
Consensus pattern (2 bp):
CT
Found at i:87831438 original size:18 final size:18
Alignment explanation
Indices: 87831415--87831579 Score: 125
Period size: 18 Copynumber: 9.5 Consensus size: 18
87831405 CAGACTCTCT
87831415 CTCTCTTCCTCTCTCCCC
1 CTCTCTTCCTCTCTCCCC
*
87831433 CTCTCTCCCTCCCTCTCCCC
1 CTCTCTTCCT--CTCTCCCC
87831453 CTCTC-T-CT-T-TCCCC
1 CTCTCTTCCTCTCTCCCC
* * *
87831467 CACTCTCCCACTCTCCCC
1 CTCTCTTCCTCTCTCCCC
*
87831485 CTCTCTTCCTCTCTCCCT
1 CTCTCTTCCTCTCTCCCC
* * ***
87831503 CTTTCTCCCTCTCTCTTT
1 CTCTCTTCCTCTCTCCCC
87831521 CTCTC-TCTCTCTCTCCCC
1 CTCTCTTC-CTCTCTCCCC
*
87831539 CTCTC-T-C-C-CTCCCT
1 CTCTCTTCCTCTCTCCCC
87831553 CTC-CTTCTCTCTCTCCCC
1 CTCTCTTC-CTCTCTCCCC
87831571 CTCTCTTCC
1 CTCTCTTCC
87831580 CCCCTCTCTC
Statistics
Matches: 114, Mismatches: 20, Indels: 26
0.71 0.12 0.16
Matches are distributed among these distances:
13 1 0.01
14 18 0.16
15 2 0.02
16 3 0.03
17 3 0.03
18 70 0.61
19 4 0.04
20 13 0.11
ACGTcount: A:0.01, C:0.60, G:0.00, T:0.39
Consensus pattern (18 bp):
CTCTCTTCCTCTCTCCCC
Found at i:87831459 original size:32 final size:32
Alignment explanation
Indices: 87831423--87831607 Score: 123
Period size: 32 Copynumber: 6.2 Consensus size: 32
87831413 CTCTCTCTTC
*
87831423 CTCTCTCCCCCTCTCTCCCTCCCTCTCCCCCT
1 CTCTCTCCCCCTCTCTCCCTCTCTCTCCCCCT
* *
87831455 CTCTCTTTCCCCCACTCT-CC-CACTCTCCCCCT
1 CTCTC--TCCCCCTCTCTCCCTCTCTCTCCCCCT
*
87831487 CTCT-T---CCTCTCTCCCTCT-T-TCTCCCT
1 CTCTCTCCCCCTCTCTCCCTCTCTCTCCCCCT
* *
87831513 CTCTCT----TTCTCTCTCTCTCTCTCCCCCT
1 CTCTCTCCCCCTCTCTCCCTCTCTCTCCCCCT
*
87831541 CTCTC-CCTCCCTCTC-CTTCTCTCTCTCCCCCT
1 CTCTCTCC-CCCTCTCTC-CCTCTCTCTCCCCCT
* * * *
87831573 CTCT-TCCCCC-CTCTCTCTCTTTCTCTCTCT
1 CTCTCTCCCCCTCTCTCCCTCTCTCTCCCCCT
87831603 CTCTC
1 CTCTC
87831608 AAGGTTCTGA
Statistics
Matches: 125, Mismatches: 12, Indels: 33
0.74 0.07 0.19
Matches are distributed among these distances:
26 26 0.21
27 5 0.04
28 12 0.10
29 1 0.01
30 19 0.15
31 5 0.04
32 45 0.36
33 2 0.02
34 10 0.08
ACGTcount: A:0.01, C:0.59, G:0.00, T:0.39
Consensus pattern (32 bp):
CTCTCTCCCCCTCTCTCCCTCTCTCTCCCCCT
Found at i:87833763 original size:22 final size:22
Alignment explanation
Indices: 87833733--87833776 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
87833723 AAAAATAATA
*
87833733 AAAAATAATTAAAATTTATTAT
1 AAAAATAATTAAAATTAATTAT
*
87833755 AAAATTAATTAAAATTAATTAT
1 AAAAATAATTAAAATTAATTAT
87833777 GTTAATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
AAAAATAATTAAAATTAATTAT
Found at i:87833769 original size:10 final size:10
Alignment explanation
Indices: 87833723--87833775 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
87833713 TAATTCTGTC
* *
87833723 AAAAATAATA
1 AAAATTAATT
*
87833733 AAAAATAATT
1 AAAATTAATT
*
87833743 AAAATTTATTAT
1 AAAA-TTAAT-T
87833755 AAAATTAATT
1 AAAATTAATT
87833765 AAAATTAATT
1 AAAATTAATT
87833775 A
1 A
87833776 TGTTAATAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
10 25 0.68
11 7 0.19
12 5 0.14
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (10 bp):
AAAATTAATT
Found at i:87839114 original size:43 final size:44
Alignment explanation
Indices: 87839036--87839161 Score: 113
Period size: 43 Copynumber: 3.0 Consensus size: 44
87839026 ATCTCGTACA
* * * * *
87839036 ATGCCAACATTCCAGATGTGGTCTTACATG-TAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAAATCACATATCG
* *
87839079 ATGCC-ACTGTTCTAGACAG-GGTCTTACAC-AAAATCA-AGTA-CG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGAAAATCACA-TATCG
87839121 ATGCCAACGTCCCAGACGTGGTCTTACACGAAAA-CACATAT
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAAATCACATAT
87839162 TGGATCCTAT
Statistics
Matches: 67, Mismatches: 7, Indels: 18
0.73 0.08 0.20
Matches are distributed among these distances:
41 1 0.01
42 31 0.46
43 34 0.51
44 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (44 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGAAAATCACATATCG
Found at i:87845769 original size:10 final size:10
Alignment explanation
Indices: 87845745--87845797 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
87845735 CAATTCTGTC
* *
87845745 AAAAATAATC
1 AAAATTAATT
87845755 AAAATTAATT
1 AAAATTAATT
*
87845765 AAAATTTATTAT
1 AAAA-TTAAT-T
87845777 AAAATTAATT
1 AAAATTAATT
*
87845787 AAAATTCATT
1 AAAATTAATT
87845797 A
1 A
87845798 TGTTAATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
10 23 0.64
11 8 0.22
12 5 0.14
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (10 bp):
AAAATTAATT
Found at i:87845781 original size:22 final size:22
Alignment explanation
Indices: 87845755--87845798 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
87845745 AAAAATAATC
*
87845755 AAAATTAATTAAAATTTATTAT
1 AAAATTAATTAAAATTCATTAT
87845777 AAAATTAATTAAAATTCATTAT
1 AAAATTAATTAAAATTCATTAT
87845799 GTTAATATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
AAAATTAATTAAAATTCATTAT
Found at i:87846985 original size:23 final size:23
Alignment explanation
Indices: 87846954--87847013 Score: 66
Period size: 27 Copynumber: 2.4 Consensus size: 23
87846944 TAAACATGAC
* *
87846954 AACTATGAATAGCCTTTGTGGTG
1 AACTTTGAATAACCTTTGTGGTG
87846977 AACTTTGAAAGAATAACCTTTGTGGTG
1 AACTTT----GAATAACCTTTGTGGTG
87847004 AACTTTGAAT
1 AACTTTGAAT
87847014 GGGATGCCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
23 9 0.29
27 22 0.71
ACGTcount: A:0.32, C:0.12, G:0.22, T:0.35
Consensus pattern (23 bp):
AACTTTGAATAACCTTTGTGGTG
Found at i:87846991 original size:27 final size:27
Alignment explanation
Indices: 87846960--87847012 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
87846950 TGACAACTAT
*
87846960 GAATAGCCTTTGTGGTGAACTTTGAAA
1 GAATAACCTTTGTGGTGAACTTTGAAA
87846987 GAATAACCTTTGTGGTGAACTTTGAA
1 GAATAACCTTTGTGGTGAACTTTGAA
87847013 TGGGATGCCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.34
Consensus pattern (27 bp):
GAATAACCTTTGTGGTGAACTTTGAAA
Found at i:87847023 original size:27 final size:26
Alignment explanation
Indices: 87846965--87847055 Score: 92
Period size: 27 Copynumber: 3.4 Consensus size: 26
87846955 ACTATGAATA
* *
87846965 GCCTTTGTGGTGAACTTTGAAAGAAT
1 GCCTTTGTGGTGAACTTTGAATGGAT
*
87846991 AACCTTTGTGGTGAACTTTGAATGGGAT
1 -GCCTTTGTGGTGAACTTTGAAT-GGAT
** *
87847019 GCCTTTGTGGCAAATTTTGAATGGATT
1 GCCTTTGTGGTGAACTTTGAATGGA-T
*
87847046 GCCTTAGTGG
1 GCCTTTGTGG
87847056 CGTGCTTTAT
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
26 3 0.06
27 48 0.89
28 3 0.06
ACGTcount: A:0.23, C:0.12, G:0.29, T:0.36
Consensus pattern (26 bp):
GCCTTTGTGGTGAACTTTGAATGGAT
Found at i:87848996 original size:40 final size:40
Alignment explanation
Indices: 87848936--87849119 Score: 180
Period size: 40 Copynumber: 4.6 Consensus size: 40
87848926 TATTCGAATG
*
87848936 ATATCC-GAGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACC
1 ATATCCGGA-CTAAGAT-CCGAAGGCATTTATGCTAGTGACC
* * *
87848976 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGACTAAGATCCGAAGGCATTTATGCTAG-TGACC
* * * **
87849016 ATATCCAGG-CTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCC-GGACTAAGATCCGAAGGCATTTATGCTAGTGACC
*
87849056 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGACTAAGAT-CCGAAGGCATTTATGCTAGTGACC
* *
87849096 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGACTAAGATCCGAAGGC
87849120 CTTGTGCGAG
Statistics
Matches: 122, Mismatches: 14, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
39 3 0.02
40 112 0.92
41 7 0.06
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGACTAAGATCCGAAGGCATTTATGCTAGTGACC
Found at i:87849069 original size:80 final size:79
Alignment explanation
Indices: 87848936--87849155 Score: 243
Period size: 80 Copynumber: 2.8 Consensus size: 79
87848926 TATTCGAATG
* * ** *
87848936 ATATCCGAGCTAAGTCCCGAAGGCTTTTATGCTAGTGACCATATCCGGACTAAGAT-CCGAAGGC
1 ATATCCG-GCTAAGACCCGAAGGC-TTTGTGCTAGTGATTATATCCGGGCTAAGATCCCGAAGGC
* *
87849000 ATTTGTGCGAGTTG-CT
64 ATTTATGCGAG-TGACC
*
87849016 ATATCCAGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAG-TCCCGAAGGC
1 ATATCC-GGCTAAGACCCGAAGGC-TTTGTGCTAGTGATTATATCCGGGCTAAGATCCCGAAGGC
*
87849080 ATTTATGCTAGTGACC
64 ATTTATGCGAGTGACC
* * *
87849096 ATATCCGGGCTAAGACCCGAAGGCCTTGTGCGAGTGGTTATATCC-GGCTAA-ATCCCGAAG
1 ATATCC-GGCTAAGACCCGAAGGCTTTGTGCTAGTGATTATATCCGGGCTAAGATCCCGAAG
87849156 ATACTTGGGT
Statistics
Matches: 121, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
78 14 0.12
79 20 0.17
80 86 0.71
81 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (79 bp):
ATATCCGGCTAAGACCCGAAGGCTTTGTGCTAGTGATTATATCCGGGCTAAGATCCCGAAGGCAT
TTATGCGAGTGACC
Done.