Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1963
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: 463875
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
File 2 of 4
Found at i:164989 original size:39 final size:40
Alignment explanation
Indices: 164790--165020 Score: 128
Period size: 40 Copynumber: 5.8 Consensus size: 40
164780 ATATTAGATA
* ** * * * *
164790 CAACTTTTTAATTGGTTGACTTTACCAATTTCACCCTGGT
1 CAACTTTTTAATTAGTTGACTTTATTAGTTTTACCCTAGC
* * * * * * ** *
164830 CAACCCTTCTAACTCGTTGGCTTTATTTGTTTCGCCCTGGC
1 CAA-CTTTTTAATTAGTTGACTTTATTAGTTTTACCCTAGC
* * * * * *
164871 CAACTTTTTAATTGGTTTACTTTATTTGTTTTACCTTGGT
1 CAACTTTTTAATTAGTTGACTTTATTAGTTTTACCCTAGC
* * * **
164911 CACCCTTTTAACTCA-TT-AGCTTTATGGGTTTTACCCTAGC
1 CAACTTTTTAA-TTAGTTGA-CTTTATTAGTTTTACCCTAGC
* *
164951 CGA-TGTTTTAATTAGTTGACTTTATT-GTTTTGCCCTAGC
1 CAACT-TTTTAATTAGTTGACTTTATTAGTTTTACCCTAGC
*
164990 CAACTTTTTAATTTGTTGACTTTATTAGTTT
1 CAACTTTTTAATTAGTTGACTTTATTAGTTT
165021 CGCCTTGGTC
Statistics
Matches: 145, Mismatches: 38, Indels: 16
0.73 0.19 0.08
Matches are distributed among these distances:
39 37 0.26
40 77 0.53
41 31 0.21
ACGTcount: A:0.19, C:0.20, G:0.14, T:0.47
Consensus pattern (40 bp):
CAACTTTTTAATTAGTTGACTTTATTAGTTTTACCCTAGC
Found at i:165081 original size:81 final size:81
Alignment explanation
Indices: 164982--165299 Score: 257
Period size: 81 Copynumber: 3.9 Consensus size: 81
164972 TTATTGTTTT
* * * * *
164982 GCCCTAGCCAACTTTTTAATTTGTTGACTTTATTAGTTTCGCCTTGGTCAACCCTTCTAACCTGT
1 GCCCTAGCCAACCTTTTAATTTGTTAACTTTATCAGTTTCGCCTTAGTCAACCCTTCCAACCTGT
*
165047 TGGTTTTATCGGCTTC
66 TGGCTTTATCGGCTTC
* * * * * * * * * * *
165063 ACCCTAGCTAACCTTTTAACTGGTTAACTTTTTCGGTTTTGCCCTAGTAAACCCTT-CTAGCTAG
1 GCCCTAGCCAACCTTTTAATTTGTTAACTTTATCAGTTTCGCCTTAGTCAACCCTTCCAACCT-G
* * *
165127 TTAGCTTTAT-TGCTTTT
65 TTGGCTTTATCGGC-TTC
* * * * *
165144 GCCTTGGCCAACCTTTTAA-TTGATTAACTTTATCGGTTTTGCCTTGGTCAACCCTTCCAACCTG
1 GCCCTAGCCAACCTTTTAATTTG-TTAACTTTATCAGTTTCGCCTTAGTCAACCCTTCCAACCTG
* * *
165208 TTGGCTTTTTTGGTTTC
65 TTGGCTTTATCGGCTTC
* * * * * * *
165225 GCCTTGGCCAACTTTTTAATTAGTTGACTTTATCAGTTTCACTTTAGTCAACCCTTCCAATCCT-
1 GCCCTAGCCAACCTTTTAATTTGTTAACTTTATCAGTTTCGCCTTAGTCAACCCTTCCAA-CCTG
165289 TTGGCTTTATC
65 TTGGCTTTATC
165300 AATTTGCCCA
Statistics
Matches: 184, Mismatches: 46, Indels: 14
0.75 0.19 0.06
Matches are distributed among these distances:
80 7 0.04
81 167 0.91
82 10 0.05
ACGTcount: A:0.18, C:0.25, G:0.15, T:0.43
Consensus pattern (81 bp):
GCCCTAGCCAACCTTTTAATTTGTTAACTTTATCAGTTTCGCCTTAGTCAACCCTTCCAACCTGT
TGGCTTTATCGGCTTC
Found at i:165108 original size:40 final size:40
Alignment explanation
Indices: 165064--165186 Score: 106
Period size: 40 Copynumber: 3.0 Consensus size: 40
165054 ATCGGCTTCA
165064 CCCTAGCTAACCTTTTAACTGGTTAACTTTTTCGGTTTTG
1 CCCTAGCTAACCTTTTAACTGGTTAACTTTTTCGGTTTTG
* * * * *
165104 CCCTAG-TAAACCCTTCTAGCTAGTTAGCTTTATT-GCTTTTG
1 CCCTAGCT-AA-CCTTTTAACTGGTTAACTTT-TTCGGTTTTG
* * * * * *
165145 CCTTGGCCAACCTTTTAATTGATTAACTTTATCGGTTTTG
1 CCCTAGCTAACCTTTTAACTGGTTAACTTTTTCGGTTTTG
165185 CC
1 CC
165187 TTGGTCAACC
Statistics
Matches: 62, Mismatches: 16, Indels: 10
0.70 0.18 0.11
Matches are distributed among these distances:
39 2 0.03
40 30 0.48
41 28 0.45
42 2 0.03
ACGTcount: A:0.19, C:0.24, G:0.15, T:0.43
Consensus pattern (40 bp):
CCCTAGCTAACCTTTTAACTGGTTAACTTTTTCGGTTTTG
Found at i:165280 original size:162 final size:161
Alignment explanation
Indices: 164970--165281 Score: 358
Period size: 162 Copynumber: 1.9 Consensus size: 161
164960 AATTAGTTGA
* * *
164970 CTTTATTGTTTTGCCCTAGCCAACTTTTTAATTTGTTGACTTTATTAGTTTCGCCTTGGTCAACC
1 CTTTATTGTTTTGCCCTAGCCAACCTTTTAATTTGTTAACTTTATCAGTTTCGCCTTGGTCAACC
* * * * *
165035 CTTCTAACCTGTTGGTTTTATCGGCTTCACCCTAGCTAACCTTTTAACTGGTTAACTTTTTCGGT
66 CTTCCAACCTGTTGGTTTTATCGGCTTCACCCTAGCCAACCTTTTAACTAGTTAACTTTATCAGT
**
165100 TTTGCCCTAGTAAACCCTTCTAGCTAGTTAG
131 TTCACCCTAGTAAACCCTTCTAGCTAGTTAG
* * * *
165131 CTTTATTGCTTTTGCCTTGGCCAACCTTTTAA-TTGATTAACTTTATCGGTTTTGCCTTGGTCAA
1 CTTTATTG-TTTTGCCCTAGCCAACCTTTTAATTTG-TTAACTTTATCAGTTTCGCCTTGGTCAA
* * * * * * * *
165195 CCCTTCCAACCTGTTGGCTTTT-TTGGTTTCGCCTTGGCCAACTTTTTAATTAGTTGACTTTATC
64 CCCTTCCAACCTGTTGG-TTTTATCGGCTTCACCCTAGCCAACCTTTTAACTAGTTAACTTTATC
** *
165259 AGTTTCACTTTAGTCAACCCTTC
128 AGTTTCACCCTAGTAAACCCTTC
165282 CAATCCTTTG
Statistics
Matches: 123, Mismatches: 25, Indels: 5
0.80 0.16 0.03
Matches are distributed among these distances:
161 11 0.09
162 108 0.88
163 4 0.03
ACGTcount: A:0.17, C:0.24, G:0.15, T:0.44
Consensus pattern (161 bp):
CTTTATTGTTTTGCCCTAGCCAACCTTTTAATTTGTTAACTTTATCAGTTTCGCCTTGGTCAACC
CTTCCAACCTGTTGGTTTTATCGGCTTCACCCTAGCCAACCTTTTAACTAGTTAACTTTATCAGT
TTCACCCTAGTAAACCCTTCTAGCTAGTTAG
Found at i:165354 original size:81 final size:81
Alignment explanation
Indices: 165190--165361 Score: 195
Period size: 81 Copynumber: 2.1 Consensus size: 81
165180 TTTTGCCTTG
* *** ** * *
165190 GTCAACCCTTCCAACCTGTTGGCTTTTTTGGTTTCGCCTTGGCCAACTTTTTAATTAGTTGACTT
1 GTCAACCCTTCCAACCTGTTGGCTTTATCAATTTCGCCCAGGCCAACTTTTTAAGTAGTTGACTA
* **
165255 TATCAGTTTCACTTTA
66 TATCAGTTCCACCCTA
165271 GTCAACCCTTCCAATCCT-TTGGCTTTATCAATTT-GCCCAGGCCAACTTTTTAAGTAGTTGACT
1 GTCAACCCTTCCAA-CCTGTTGGCTTTATCAATTTCGCCCAGGCCAACTTTTTAAGTAGTTGACT
*
165334 ATATCGGTTACCACCCTA
65 ATATCAGTT-CCACCCTA
*
165352 GTCAAACCTT
1 GTCAACCCTT
165362 TTTCATTCTC
Statistics
Matches: 76, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
80 33 0.43
81 40 0.53
82 3 0.04
ACGTcount: A:0.21, C:0.26, G:0.14, T:0.39
Consensus pattern (81 bp):
GTCAACCCTTCCAACCTGTTGGCTTTATCAATTTCGCCCAGGCCAACTTTTTAAGTAGTTGACTA
TATCAGTTCCACCCTA
Found at i:165638 original size:42 final size:41
Alignment explanation
Indices: 165586--165727 Score: 135
Period size: 42 Copynumber: 3.4 Consensus size: 41
165576 GTCTTGGGTA
165586 AATCTTTTTATCCTTTGTTAACTTGTTGGTTCAATCTCAATC
1 AATCTTTTTATCCTTTGTTAACTTGTTGGTT-AATCTCAATC
* * * *
165628 AATCTTTTTATCCTTTGTTTACTTGTTAGCTTAGTCT-AGGA-A
1 AATCTTTTTATCCTTTGTTAACTTGTT-GGTTAATCTCA--ATC
* * * * *
165670 AATCTTTTTATCCTTTTTTAGCTTGTCGGTTTAACCTCGATC
1 AATCTTTTTATCCTTTGTTAACTTGTTGG-TTAATCTCAATC
*
165712 AACCTTTTTATCCTTT
1 AATCTTTTTATCCTTT
165728 ATTTACCTAT
Statistics
Matches: 80, Mismatches: 14, Indels: 12
0.75 0.13 0.11
Matches are distributed among these distances:
41 3 0.04
42 73 0.91
43 4 0.05
ACGTcount: A:0.20, C:0.19, G:0.11, T:0.51
Consensus pattern (41 bp):
AATCTTTTTATCCTTTGTTAACTTGTTGGTTAATCTCAATC
Found at i:165643 original size:85 final size:84
Alignment explanation
Indices: 165541--165858 Score: 361
Period size: 85 Copynumber: 3.8 Consensus size: 84
165531 TTAAACCTGC
* *
165541 TCAACTTTTGTATCCTTTGTTTACCTGTCGGCTTAGTCTTGGGTAAATCTTTTTATCCTTTGTTA
1 TCAACTTTTGTATCCTTTGTTTACCTGTCAGCTTAGTC-TAGGTAAATCTTTTTATCCTTTGTTA
*
165606 ACTTGTTGGTTCAATCTCAA
65 ACTTGTCGGTTCAATCTCAA
* * * *
165626 TCAATCTTTT-TATCCTTTGTTTACTTGTTAGCTTAGTCTAGGAAAATCTTTTTATCCTTTTTTA
1 TCAA-CTTTTGTATCCTTTGTTTACCTGTCAGCTTAGTCTAGGTAAATCTTTTTATCCTTTGTTA
* * * *
165690 GCTTGTCGGTTTAACCTCGA
65 ACTTGTCGGTTCAATCTCAA
* * * *
165710 TCAACCTTTT-TATCCTTTATTTACCTATCAGCTTAATCCTAGGTAAATCCTTTTATCCTTTGTT
1 TCAA-CTTTTGTATCCTTTGTTTACCTGTCAGCTTAGT-CTAGGTAAATCTTTTTATCCTTTGTT
* * * *
165774 CACTTGTCAGTTCATTCTCAG
64 AACTTGTCGGTTCAATCTCAA
* * * * *
165795 TCAACTTTTGTCTCATTTGTTTACCTGTCAGCTTAGTCATGGGTAACTATTTTTATCCTTTGTT
1 TCAACTTTTGTATCCTTTGTTTACCTGTCAGCTTAGTC-TAGGTAAATCTTTTTATCCTTTGTT
165859 GACCAGGCTA
Statistics
Matches: 192, Mismatches: 37, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
84 75 0.39
85 112 0.58
86 5 0.03
ACGTcount: A:0.19, C:0.20, G:0.13, T:0.48
Consensus pattern (84 bp):
TCAACTTTTGTATCCTTTGTTTACCTGTCAGCTTAGTCTAGGTAAATCTTTTTATCCTTTGTTAA
CTTGTCGGTTCAATCTCAA
Found at i:165816 original size:169 final size:170
Alignment explanation
Indices: 165495--165858 Score: 448
Period size: 169 Copynumber: 2.1 Consensus size: 170
165485 GTCACGTTAT
* * * *
165495 TAGGAAAATCCTTTTATCCTTTGTTGGCTTGTCAGTTTAAACCTGCTCAACTTTTGTATCCTTTG
1 TAGGAAAATCTTTTTATCCTTTGTTAGCTTGTCAGTTTAAACCTGATCAACTTTTGTATCCTTTA
* * * * * * **
165560 TTTACCTGTCGGCTTAGTCTTGGGTAAATCTTTTTATCCTTTGTTAACTTGTTGGTTCAATCTCA
66 TTTACCTATCAGCTTAATCCTAGGTAAATCCTTTTATCCTTTGTTAACTTGTCAGTTCAATCTCA
* * *
165625 ATCAATCTTTTTATCCTTTGTTTACTTGTTAGCTTAGTC-
131 ATCAATCTTTTTATCATTTGTTTACCTGTCAGCTTAGTCA
* *
165664 TAGGAAAATCTTTTTATCCTTTTTTAGCTTGTCGGTTT-AACCTCGATCAACCTTTT-TATCCTT
1 TAGGAAAATCTTTTTATCCTTTGTTAGCTTGTCAGTTTAAACCT-GATCAA-CTTTTGTATCCTT
* *
165727 TATTTACCTATCAGCTTAATCCTAGGTAAATCCTTTTATCCTTTGTTCACTTGTCAGTTCATTCT
64 TATTTACCTATCAGCTTAATCCTAGGTAAATCCTTTTATCCTTTGTTAACTTGTCAGTTCAATCT
* *
165792 CAGTCAA-CTTTTGTCTCATTTGTTTACCTGTCAGCTTAGTCA
129 CAATCAATCTTTT-TATCATTTGTTTACCTGTCAGCTTAGTCA
* * * *
165834 TGGGTAACTATTTTTATCCTTTGTT
1 TAGGAAAATCTTTTTATCCTTTGTT
165859 GACCAGGCTA
Statistics
Matches: 165, Mismatches: 26, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
168 10 0.06
169 130 0.79
170 25 0.15
ACGTcount: A:0.19, C:0.20, G:0.13, T:0.48
Consensus pattern (170 bp):
TAGGAAAATCTTTTTATCCTTTGTTAGCTTGTCAGTTTAAACCTGATCAACTTTTGTATCCTTTA
TTTACCTATCAGCTTAATCCTAGGTAAATCCTTTTATCCTTTGTTAACTTGTCAGTTCAATCTCA
ATCAATCTTTTTATCATTTGTTTACCTGTCAGCTTAGTCA
Found at i:166840 original size:19 final size:19
Alignment explanation
Indices: 166800--166842 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
166790 GCTCTTTTTA
*
166800 TTTCATGAATTTTTCATTT
1 TTTCATGAAATTTTCATTT
*
166819 TTTCTTGAAATTTTC-TTAT
1 TTTCATGAAATTTTCATT-T
166838 TTTCA
1 TTTCA
166843 AAATACGGAG
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 2 0.10
19 18 0.90
ACGTcount: A:0.21, C:0.12, G:0.05, T:0.63
Consensus pattern (19 bp):
TTTCATGAAATTTTCATTT
Found at i:166949 original size:164 final size:164
Alignment explanation
Indices: 166750--167241 Score: 486
Period size: 163 Copynumber: 3.0 Consensus size: 164
166740 AAAATTATTT
* * **
166750 AAATATCATTATTTAATTC-ACTTTAAATTAGTTTTGAAAAGCTCTTTTTATTTCATGAATTTTT
1 AAATATTATTATTTAATTCTA-ATTAAATTAGTTTTGAAAAATTCTTTTTATTTCATGAATTTTT
* *
166814 CATTTTTTCTTGAAATTTTCTTATTTTC-AAAATACGGAGTTTTCTACTCCGTAAATGTTTTCAA
65 CATTTTTTCTTGAAATTTTCTTATTTTCGAAAATACAGAGTTTTCTACTCCGTAAATGTTTT-AG
166878 AGAGATTTTTTTAGTTTAAAATTTTTAAAATTCATC
129 AGAGATTTTTTTAGTTTAAAATTTTTAAAATTCATC
* * *
166914 AAATATTATCATTTAATTCTAATTAAATTAGTTTTGAAAAATTCCTTTTATTTCATGAAATTTT-
1 AAATATTATTATTTAATTCTAATTAAATTAGTTTTGAAAAATTCTTTTTATTTCATGAATTTTTC
* * * ** * *
166978 ATTTTTT-TTGAAATTTT-TCTA-TTTCTAAAATACAAAGTTTTTTACTTTGTAAATGTTTTGGG
66 ATTTTTTCTTGAAATTTTCT-TATTTTCGAAAATACAGAGTTTTCTACTCCGTAAATGTTTTAGA
* * * *
167040 GCGATTTTTTTTTGGATTATAATTTTTAAAATTCATC
130 GAGA--TTTTTTTAGTTTAAAATTTTTAAAATTCATC
* * * * * *
167077 AAATATTATTATTCAATTCTTAGTAAATCAATTTTAAAAAATTCATTTATT-TTT-AT-AAGTTT
1 AAATATTATTATTTAATTCTAATTAAATTAGTTTTGAAAAATTC-TTT-TTATTTCATGAA-TTT
*** * * * *
167139 TTCA-TTTTTCTTTGGAAAACCTCATATTTTCGAAAA-ACTGAGTTTTCTATTCCATAAATGTTT
63 TTCATTTTTTC-TT-GAAATTTTCTTATTTTCGAAAATACAGAGTTTTCTACTCCGTAAATGTTT
*
167202 TTGAGAGGATTTTTCTTAGTTT-AAATTTTTAAAATTCATC
126 TAGAGA-GATTTTT-TTAGTTTAAAATTTTTAAAATTCATC
167242 TAACATTGCC
Statistics
Matches: 266, Mismatches: 46, Indels: 31
0.78 0.13 0.09
Matches are distributed among these distances:
161 8 0.03
162 42 0.16
163 83 0.31
164 61 0.23
165 27 0.10
166 35 0.13
167 10 0.04
ACGTcount: A:0.32, C:0.10, G:0.08, T:0.50
Consensus pattern (164 bp):
AAATATTATTATTTAATTCTAATTAAATTAGTTTTGAAAAATTCTTTTTATTTCATGAATTTTTC
ATTTTTTCTTGAAATTTTCTTATTTTCGAAAATACAGAGTTTTCTACTCCGTAAATGTTTTAGAG
AGATTTTTTTAGTTTAAAATTTTTAAAATTCATC
Found at i:167782 original size:13 final size:12
Alignment explanation
Indices: 167766--167803 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
167756 AAACTTAGAG
167766 AAAAAGAGAAAGA
1 AAAAAGAGAAA-A
167779 AAAAAGAGAAAA
1 AAAAAGAGAAAA
167791 AATAAAGA-AAAA
1 AA-AAAGAGAAAA
167803 A
1 A
167804 GGAAAATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 8 0.33
13 16 0.67
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.03
Consensus pattern (12 bp):
AAAAAGAGAAAA
Found at i:167797 original size:20 final size:21
Alignment explanation
Indices: 167762--167809 Score: 73
Period size: 20 Copynumber: 2.4 Consensus size: 21
167752 AAAAAAACTT
167762 AGAGAAAAAGAGAAAGAAAAA
1 AGAGAAAAAGAGAAAGAAAAA
*
167783 AGAGAAAAA-ATAAAGAAAAA
1 AGAGAAAAAGAGAAAGAAAAA
167803 AG-GAAAA
1 AGAGAAAA
167810 TATAGCTAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 5 0.19
20 12 0.46
21 9 0.35
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (21 bp):
AGAGAAAAAGAGAAAGAAAAA
Found at i:168020 original size:17 final size:17
Alignment explanation
Indices: 167998--168031 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
167988 AGATGTTTTC
167998 ATTTGTTTTTCATGATT
1 ATTTGTTTTTCATGATT
168015 ATTTGTTTTTCATGATT
1 ATTTGTTTTTCATGATT
168032 TTACACCATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.06, G:0.12, T:0.65
Consensus pattern (17 bp):
ATTTGTTTTTCATGATT
Found at i:168646 original size:16 final size:16
Alignment explanation
Indices: 168619--168659 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
168609 AAAAATTTTT
168619 AAAAAT-AA-AAAATA
1 AAAAATAAATAAAATA
168633 AAAAATAAATAAAATA
1 AAAAATAAATAAAATA
*
168649 ATAAATAAATA
1 AAAAATAAATA
168660 TTATTTTATC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 6 0.25
15 2 0.08
16 16 0.67
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (16 bp):
AAAAATAAATAAAATA
Found at i:168651 original size:8 final size:7
Alignment explanation
Indices: 168619--168657 Score: 51
Period size: 7 Copynumber: 5.3 Consensus size: 7
168609 AAAAATTTTT
168619 AAAAATA
1 AAAAATA
168626 AAAAATA
1 AAAAATA
168633 AAAAATAA
1 AAAAAT-A
168641 ATAAAATA
1 A-AAAATA
*
168649 ATAAATA
1 AAAAATA
168656 AA
1 AA
168658 TATTATTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 19 0.68
8 4 0.14
9 5 0.18
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (7 bp):
AAAAATA
Found at i:168651 original size:12 final size:12
Alignment explanation
Indices: 168620--168657 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
168610 AAAATTTTTA
*
168620 AAAATAAAAAAT
1 AAAATAATAAAT
168632 AAAA-AATAAAT
1 AAAATAATAAAT
168643 AAAATAATAAAT
1 AAAATAATAAAT
168655 AAA
1 AAA
168658 TATTATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 10 0.42
12 14 0.58
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (12 bp):
AAAATAATAAAT
Found at i:168964 original size:141 final size:141
Alignment explanation
Indices: 168672--169080 Score: 497
Period size: 141 Copynumber: 2.9 Consensus size: 141
168662 ATTTTATCAC
*
168672 TAAATAAAAATTATTATCTTAATTTTTCAAGACTTCTAATA-TTCTTATGGTTTTTCAT-AGGGT
1 TAAATAAAAATTATTATCTTAATTTTTCAAGATTTCTAATATTTC-TATGGTTTTTCATAAGGGT
* * * * *
168735 ATAGAAATCTTCAAAACTTTTTGTATATTTTCAGTTT-TTCGTTAAGGTACAAAATGAATTTTCT
65 ATAGAAATCTTCAAAACTTTTTGTATCTTTT-AATTTCTCCATTAAGGTACGAAATGAATTTT-T
*
168799 TAAAAGTTAAAAAT
128 CAAAAGTTAAAAAT
* * ** *
168813 CAAAGAAAAATTATTATCTTAATTTTTCAAGATTTCTAATATTTCTATGGTTTCCCGTAAGGGTA
1 TAAATAAAAATTATTATCTTAATTTTTCAAGATTTCTAATATTTCTATGGTTTTTCATAAGGGTA
168878 TAGAAATCTTCAAAACTTTTTGTATCTTTTAATTTCTCCATTAAGGTACGAAATGAATTTTTCAG
66 TAGAAATCTTCAAAACTTTTTGTATCTTTTAATTTCTCCATTAAGGTACGAAATGAATTTTTCA-
* *
168943 AAA-TTAACAGT
130 AAAGTTAAAAAT
* * * * *
168954 TAAATAAAAATTATTGTCTTAATTTTTCAAGATTT-TTATATTTTTATGGTTTTTCTTAGGGGTA
1 TAAATAAAAATTATTATCTTAATTTTTCAAGATTTCTAATATTTCTATGGTTTTTCATAAGGGTA
* * * * * *
169018 TAAAAATCTTGAAAACTTTTCT-TATCTTTTCAGTTCTCTATTAAGGTACGGAATGAGATTTTT
66 TAGAAATCTTCAAAACTTTT-TGTATCTTTTAATTTCTCCATTAAGGTACGAAATGA-ATTTTT
169081 GAAATTTCTA
Statistics
Matches: 233, Mismatches: 29, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
140 71 0.30
141 99 0.42
142 63 0.27
ACGTcount: A:0.34, C:0.10, G:0.11, T:0.45
Consensus pattern (141 bp):
TAAATAAAAATTATTATCTTAATTTTTCAAGATTTCTAATATTTCTATGGTTTTTCATAAGGGTA
TAGAAATCTTCAAAACTTTTTGTATCTTTTAATTTCTCCATTAAGGTACGAAATGAATTTTTCAA
AAGTTAAAAAT
Found at i:169882 original size:149 final size:149
Alignment explanation
Indices: 169386--169909 Score: 580
Period size: 147 Copynumber: 3.6 Consensus size: 149
169376 TTAAGATCCC
* * * * * ** *
169386 AGTCCTAATTTGTCA-TCGGGTCACTTTTATACCGAGGGTACATATTAGGTGTAGGTTCGTTTTT
1 AGTCCTAATTTATCACT-AGGTCGCTTCTATGCCGAGGGTACATATTAGGCATAGGTTCGCTTTT
* * * * *
169450 CCTTTTTAAATCCTTTAAGGTTTCCGGGATACTTT-ATGTTGAAGGTATACCTATA-GGGCATTT
65 CCTTTTTAAGTCTTTTAGGGTTACCAGGATACTTTCATGTTGAAGGTATACCTATAGGGGCATTT
* *
169513 TC-TTATTTTTCTAAAAT-A
130 TCATAATTTTTCTAGAATCA
* * * * * *
169531 AGTCCTAATTCATCACTAGGTCACTTTTATGCCGAGGGTACGTATTAGGCATAGGTTTGCCTTTC
1 AGTCCTAATTTATCACTAGGTCGCTTCTATGCCGAGGGTACATATTAGGCATAGGTTCGCTTTTC
* * * * *
169596 CTTTTTAAGTCTTTTAGGGTTACTAGGATACTTTCATGTCGATGGAATACCCAT-GGAGG-ATTT
66 CTTTTTAAGTCTTTTAGGGTTACCAGGATACTTTCATGTTGAAGGTATACCTATAGG-GGCATTT
*
169659 TCATAATTTTT-TAGAACCA
130 TCATAATTTTTCTAGAATCA
* * * * *
169678 AGTCCTAATTTATCACTGGGTTGCTTCTATGCCAAGGGTACGTATTAGGCATAGGTTCGGTTTTC
1 AGTCCTAATTTATCACTAGGTCGCTTCTATGCCGAGGGTACATATTAGGCATAGGTTCGCTTTTC
*
169743 CTTTTTAAGTCTTTTAGGGTTACCAAGG-TACTTTCATGTTGAAGTTATACCTATAGGGGCATTT
66 CTTTTTAAGTCTTTTAGGGTTACC-AGGATACTTTCATGTTGAAGGTATACCTATAGGGGCATTT
169807 TCATAATTTTTCTAGAATCA
130 TCATAATTTTTCTAGAATCA
* * * * * * * *
169827 AGTCGTAATTTGTTATTATGCCGCTTCTATGCCGAGGGTACATATTAGGCGTAGGTTCACTTTTC
1 AGTCCTAATTTATCACTAGGTCGCTTCTATGCCGAGGGTACATATTAGGCATAGGTTCGCTTTTC
*
169892 CTTTTTAAGTCATTTAGG
66 CTTTTTAAGTCTTTTAGG
169910 ATCACTAGGC
Statistics
Matches: 316, Mismatches: 53, Indels: 16
0.82 0.14 0.04
Matches are distributed among these distances:
145 81 0.26
146 27 0.09
147 112 0.35
148 20 0.06
149 76 0.24
ACGTcount: A:0.23, C:0.16, G:0.20, T:0.40
Consensus pattern (149 bp):
AGTCCTAATTTATCACTAGGTCGCTTCTATGCCGAGGGTACATATTAGGCATAGGTTCGCTTTTC
CTTTTTAAGTCTTTTAGGGTTACCAGGATACTTTCATGTTGAAGGTATACCTATAGGGGCATTTT
CATAATTTTTCTAGAATCA
Found at i:172502 original size:15 final size:16
Alignment explanation
Indices: 172482--172511 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
172472 ATGACTATTA
172482 AATTTTA-ATTTTTTT
1 AATTTTAGATTTTTTT
172497 AATTTTAGATTTTTT
1 AATTTTAGATTTTTT
172512 ATTTTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (16 bp):
AATTTTAGATTTTTTT
Found at i:175142 original size:33 final size:33
Alignment explanation
Indices: 175105--175171 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
175095 TTCAACGATT
175105 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
175138 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
175171 T
1 T
175172 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:175143 original size:13 final size:13
Alignment explanation
Indices: 175125--175149 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
175115 CATAAAATGT
175125 TGTATCGATACAA
1 TGTATCGATACAA
175138 TGTATCGATACA
1 TGTATCGATACA
175150 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:175230 original size:13 final size:13
Alignment explanation
Indices: 175212--175239 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
175202 ATTACTCAAA
175212 TGTATCGATACAT
1 TGTATCGATACAT
175225 TGTATCGATACAT
1 TGTATCGATACAT
175238 TG
1 TG
175240 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:175374 original size:52 final size:51
Alignment explanation
Indices: 175245--175361 Score: 191
Period size: 52 Copynumber: 2.3 Consensus size: 51
175235 CATTGATCTT
* *
175245 TGTATCGATACATGCAGGCAATTTGCCCAGATGTATCGATACATTTTAAAA
1 TGTATCGATACATGCAGGCAATTTTCCCAGATGTATCGATACATATTAAAA
175296 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATT-AAA
1 TGTATCGATACATGCAGGC-AATTTTCCCAGATGTATCGATACA-TATTAAAA
175348 TGTATCGATACATG
1 TGTATCGATACATG
175362 TAAGCAACTT
Statistics
Matches: 62, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
51 19 0.31
52 40 0.65
53 3 0.05
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (51 bp):
TGTATCGATACATGCAGGCAATTTTCCCAGATGTATCGATACATATTAAAA
Found at i:180312 original size:13 final size:13
Alignment explanation
Indices: 180294--180318 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
180284 ATTTTTTGTG
180294 TATCGATACATTA
1 TATCGATACATTA
180307 TATCGATACATT
1 TATCGATACATT
180319 CTTGCTGTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (13 bp):
TATCGATACATTA
Found at i:180333 original size:32 final size:33
Alignment explanation
Indices: 180274--180335 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
180264 CAAGCCAATG
*
180274 TATCGATACAATTTTTTGTGTATCGATACATTA
1 TATCGATACAATTTCTTGTGTATCGATACATTA
180307 TATCGATAC-A-TTCTTGCTGTATCGATACA
1 TATCGATACAATTTCTTG-TGTATCGATACA
180336 AGTTTGGCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 5 0.19
32 13 0.48
33 9 0.33
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (33 bp):
TATCGATACAATTTCTTGTGTATCGATACATTA
Found at i:182552 original size:13 final size:13
Alignment explanation
Indices: 182534--182566 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
182524 GGTTCTGTTA
182534 TGTAGAATAGTGG
1 TGTAGAATAGTGG
*
182547 TGTAGAATCGTGG
1 TGTAGAATAGTGG
182560 TGTAGAA
1 TGTAGAA
182567 AGGCTATTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.30, C:0.03, G:0.36, T:0.30
Consensus pattern (13 bp):
TGTAGAATAGTGG
Found at i:183166 original size:32 final size:32
Alignment explanation
Indices: 183078--183166 Score: 133
Period size: 32 Copynumber: 2.8 Consensus size: 32
183068 GGATTGAGGC
*
183078 AGGTAAGCATCTTACTTTTTAAGGACTGAGAT
1 AGGTAAGCATCTTACTTTTTGAGGACTGAGAT
* *
183110 AGGTAAGCATCCTACTTTTTGAGGACTGATAT
1 AGGTAAGCATCTTACTTTTTGAGGACTGAGAT
* *
183142 AGGTAGGCATCTTACTTTTCGAGGA
1 AGGTAAGCATCTTACTTTTTGAGGA
183167 TTAAGGTTGG
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 51 1.00
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.34
Consensus pattern (32 bp):
AGGTAAGCATCTTACTTTTTGAGGACTGAGAT
Found at i:183394 original size:70 final size:67
Alignment explanation
Indices: 183276--183484 Score: 176
Period size: 70 Copynumber: 3.0 Consensus size: 67
183266 AGCTAGGCAA
* * * *
183276 GTGTCCTACTTTTTGAGGATTAAAAAGAAAAAGAGACAT-TGTGA-TCTTTGAGGATTAAAAAGG
1 GTGTTCTATTTTTTAAGGACTAAAAAGAAAAAG-G-CATCT-T-ACTCTTTGAGGATTAAAAAGG
183339 AAAGAAG
62 AAA-AAG
* *
183346 GTG-TCT-TGCTTTTT-AGGACTTAAAAAGGAAATTAGGCATCTTACTCTTTAAGGATTAAAAAT
1 GTGTTCTAT--TTTTTAAGGAC-TAAAAA-GAAA-AAGGCATCTTACTCTTTGAGGATTAAAAA-
* *
183408 GAAAAAAT
60 GGAAAAAG
* * *
183416 GTGTTCTATTTTTTAAGGACTAAAAATAAAAAGGCATCTTACCCTTTGAGGACTAAAAATGGAAA
1 GTGTTCTATTTTTTAAGGACTAAAAAGAAAAAGGCATCTTACTCTTTGAGGATTAAAAA-GGAAA
183481 AAG
65 AAG
183484 G
1 G
183485 CATCATGCTC
Statistics
Matches: 114, Mismatches: 14, Indels: 24
0.75 0.09 0.16
Matches are distributed among these distances:
68 33 0.29
69 10 0.09
70 50 0.44
71 18 0.16
72 3 0.03
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.30
Consensus pattern (67 bp):
GTGTTCTATTTTTTAAGGACTAAAAAGAAAAAGGCATCTTACTCTTTGAGGATTAAAAAGGAAAA
AG
Found at i:183498 original size:35 final size:35
Alignment explanation
Indices: 183320--183518 Score: 133
Period size: 35 Copynumber: 5.7 Consensus size: 35
183310 GACATTGTGA
* ** *
183320 TCTTTGAGGATTAAAAA-GGAAAGAAGGTGTCTTGC
1 TCTTTGAGGACTAAAAATGGAAA-AAGGCATCTTAC
* *
183355 T-TTTTAGGACTTAAAAA-GGAAATTAGGCATCTTAC
1 TCTTTGAGGAC-TAAAAATGGAAA-AAGGCATCTTAC
* * * * *
183390 TCTTTAAGGATTAAAAATGAAAAAATGTG-TTC-TAT
1 TCTTTGAGGACTAAAAATGGAAAAA-G-GCATCTTAC
* *
183425 TTTTTAAGGACTAAAAAT--AAAAAGGCATCTTAC
1 TCTTTGAGGACTAAAAATGGAAAAAGGCATCTTAC
* * *
183458 CCTTTGAGGACTAAAAATGGAAAAAGGCATCATGC
1 TCTTTGAGGACTAAAAATGGAAAAAGGCATCTTAC
* * *
183493 TCTTTGAAGACTGAAAAGGGAAAAAG
1 TCTTTGAGGACTAAAAATGGAAAAAG
183519 TATTTTGCTT
Statistics
Matches: 129, Mismatches: 26, Indels: 18
0.75 0.15 0.10
Matches are distributed among these distances:
31 1 0.01
32 3 0.02
33 22 0.17
34 7 0.05
35 81 0.63
36 14 0.11
37 1 0.01
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.29
Consensus pattern (35 bp):
TCTTTGAGGACTAAAAATGGAAAAAGGCATCTTAC
Found at i:184594 original size:20 final size:20
Alignment explanation
Indices: 184564--184610 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
184554 ATATGTATTG
184564 ATACAATAAGTGAATGTATCA
1 ATAC-ATAAGTGAATGTATCA
*
184585 ATACATAAGTGAATGTATCG
1 ATACATAAGTGAATGTATCA
184605 ATACAT
1 ATACAT
184611 GTTAGAAACA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 21 0.84
21 4 0.16
ACGTcount: A:0.45, C:0.11, G:0.15, T:0.30
Consensus pattern (20 bp):
ATACATAAGTGAATGTATCA
Found at i:187010 original size:20 final size:20
Alignment explanation
Indices: 186987--187043 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
186977 AAGTGCCCAG
*
186987 ATGTATTGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
* *
187007 ATGTATCGATACATGT-ATGA
1 ATGTATCGATACAT-TCTTCA
187027 ATGTATCGATACATTCT
1 ATGTATCGATACATTCT
187044 GCCTTTTTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
19 1 0.03
20 29 0.94
21 1 0.03
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTCTTCA
Found at i:191322 original size:23 final size:23
Alignment explanation
Indices: 191292--191337 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
191282 TGGGCCACTC
* *
191292 TTTTTTTTATTGGTGTTCATTCT
1 TTTTTTTTATTGCTATTCATTCT
*
191315 TTTTTTTTCTTGCTATTCATTCT
1 TTTTTTTTATTGCTATTCATTCT
191338 CATATTTTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.09, C:0.13, G:0.09, T:0.70
Consensus pattern (23 bp):
TTTTTTTTATTGCTATTCATTCT
Found at i:195096 original size:21 final size:21
Alignment explanation
Indices: 195051--195097 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
195041 TCAATTTCAA
* *
195051 CAGGAAACAAGAGCCAACATT
1 CAGGAAACAAGAGACAACATC
195072 CAGGAAACAAG-GACAAGCATC
1 CAGGAAACAAGAGACAA-CATC
195093 CAGGA
1 CAGGA
195098 TTTAGGCAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.47, C:0.23, G:0.23, T:0.06
Consensus pattern (21 bp):
CAGGAAACAAGAGACAACATC
Found at i:200313 original size:14 final size:15
Alignment explanation
Indices: 200294--200322 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
200284 CATGGCAATT
200294 GTAAAAAAAA-AAAA
1 GTAAAAAAAAGAAAA
200308 GTAAAAAAAAGAAAA
1 GTAAAAAAAAGAAAA
200323 AACAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (15 bp):
GTAAAAAAAAGAAAA
Found at i:200317 original size:16 final size:15
Alignment explanation
Indices: 200296--200340 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
200286 TGGCAATTGT
**
200296 AAAAAAAAAAAAGTA
1 AAAAAAAAAAAAACA
200311 AAAAAAAGAAAAAACA
1 AAAAAAA-AAAAAACA
200327 AAAAAACAAAAAAA
1 AAAAAA-AAAAAAA
200341 AAGTGAAGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 7 0.27
16 18 0.69
17 1 0.04
ACGTcount: A:0.89, C:0.04, G:0.04, T:0.02
Consensus pattern (15 bp):
AAAAAAAAAAAAACA
Found at i:200324 original size:25 final size:25
Alignment explanation
Indices: 200296--200343 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
200286 TGGCAATTGT
**
200296 AAAAAAAAAAAAGTAAAAAAAAGAA
1 AAAAAAAAAAAACAAAAAAAAAGAA
*
200321 AAAACAAAAAAACAAAAAAAAAG
1 AAAAAAAAAAAACAAAAAAAAAG
200344 TGAAGATTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.88, C:0.04, G:0.06, T:0.02
Consensus pattern (25 bp):
AAAAAAAAAAAACAAAAAAAAAGAA
Found at i:211362 original size:28 final size:28
Alignment explanation
Indices: 211331--211408 Score: 93
Period size: 28 Copynumber: 2.7 Consensus size: 28
211321 GTCCTTCATA
*
211331 CCAAAAAAAAATAAAAAAAAGAAAAAAC
1 CCAAAAAAAAATAAAAAAAACAAAAAAC
* * *
211359 CCAAAAAAAAACAAAAAGAACAAAAAAG
1 CCAAAAAAAAATAAAAAAAACAAAAAAC
*
211387 CCAAGGAAAAAATAACAAAAAA
1 CCAA-AAAAAAATAA-AAAAAA
211409 ACAGAAAGGG
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
28 28 0.68
29 8 0.20
30 5 0.12
ACGTcount: A:0.78, C:0.13, G:0.06, T:0.03
Consensus pattern (28 bp):
CCAAAAAAAAATAAAAAAAACAAAAAAC
Found at i:211374 original size:9 final size:9
Alignment explanation
Indices: 211334--211385 Score: 50
Period size: 9 Copynumber: 5.7 Consensus size: 9
211324 CTTCATACCA
*
211334 AAAAAAAAT
1 AAAAAAAAC
*
211343 AAAAAAAAG
1 AAAAAAAAC
**
211352 AAAAAACCC
1 AAAAAAAAC
211361 AAAAAAAAAC
1 -AAAAAAAAC
*
211371 AAAAAGAAC
1 AAAAAAAAC
211380 AAAAAA
1 AAAAAA
211386 GCCAAGGAAA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
9 27 0.79
10 7 0.21
ACGTcount: A:0.85, C:0.10, G:0.04, T:0.02
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:212749 original size:32 final size:29
Alignment explanation
Indices: 212629--213335 Score: 603
Period size: 28 Copynumber: 23.9 Consensus size: 29
212619 TGTTCATCTC
* ** *
212629 TTCAAAGCCCGCAAGTCAATGGCA-TCCT
1 TTCAAAGCCCACAAGTCGGTGGCACTCAT
*
212657 TTCAAAGCCCACAAGTCGGTGGCAC-CCT
1 TTCAAAGCCCACAAGTCGGTGGCACTCAT
* * *
212685 TTCAAAGCCCATAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCGGTGGCACTCAT
* *
212714 TTCAAAGCCCACACGAGTCGGTAGCAACTCTT
1 TTCAAAGCCCACA--AGTCGGTGGC-ACTCAT
* *
212746 TTCAAAGCCCAAAAGTCAGTGGCA-TCAT
1 TTCAAAGCCCACAAGTCGGTGGCACTCAT
212774 TTCAAAGCCCACAAGTCGGTGGCAACTCAT
1 TTCAAAGCCCACAAGTCGGTGGC-ACTCAT
* *
212804 TTCAAAGCCCACACAAGTTGGTGGTAAC-CTAT
1 TTCAAAG-CC-CACAAGTCGGTGG-CACTC-AT
* * * *
212836 TTCAAAACCCACACAAGTTGGTCGCAACCCAT
1 TTC-AAAGCC-CACAAGTCGGTGGC-ACTCAT
*
212868 TTCAAAGCCCGCACAAGTCGGTGGCAACCCAT
1 TTCAAAG-CC-CACAAGTCGGTGGC-ACTCAT
* **
212900 TTCAAAGCCCATAAGTCAATGGCA-TCAT
1 TTCAAAGCCCACAAGTCGGTGGCACTCAT
*
212928 TTCAAAGCCCACAAGTCAGTGGCA-TCAT
1 TTCAAAGCCCACAAGTCGGTGGCACTCAT
* * *
212956 TTCAAACCCACACAAGTCGGCGTCAACTCAT
1 TTCAAAGCC-CACAAGTCGGTGGC-ACTCAT
* *
212987 TTGAAAGCCCACACAAGTTGGTGGCAACTCAT
1 TTCAAAG-CC-CACAAGTCGGTGGC-ACTCAT
* *
213019 TTCGAAGCCCACACAAGTCGGTGGCAACCCAT
1 TTCAAAG-CC-CACAAGTCGGTGGC-ACTCAT
* *
213051 TTCAAAGCCCACAAGTCGGAGGCA-TCTT
1 TTCAAAGCCCACAAGTCGGTGGCACTCAT
* *
213079 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
1 TTCAAAGCCCACAAGTCGGTGGCACTCAT
** *
213107 TTCAAAGCCCACAAGTCAATGGCA-TCCT
1 TTCAAAGCCCACAAGTCGGTGGCACTCAT
* * *
213135 TTCAAAGTCCACAAGTCAGTGGCA-TCTT
1 TTCAAAGCCCACAAGTCGGTGGCACTCAT
* *
213163 TTCAAAGCCCAAAAGTCGGTGGCA-TCTT
1 TTCAAAGCCCACAAGTCGGTGGCACTCAT
* * *
213191 TTCAAAGTCCACAAGTCAGTGGCAC-CCT
1 TTCAAAGCCCACAAGTCGGTGGCACTCAT
* * *
213219 TTCAAAGCCCACAAGTCAGTGGCATTCTT
1 TTCAAAGCCCACAAGTCGGTGGCACTCAT
* *
213248 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCGGTGGCACTCAT
213277 TTCAAAGCCCACATGAGTCGGTGGCAACT-ATT
1 TTCAAAGCCCACA--AGTCGGTGGC-ACTCA-T
**
213309 TTCAAAGCACACACAAGTTAGTGGCAC
1 TTCAAAGC-C-CACAAGTCGGTGGCAC
213336 CGTTTTTAAG
Statistics
Matches: 581, Mismatches: 69, Indels: 55
0.82 0.10 0.08
Matches are distributed among these distances:
28 256 0.44
29 72 0.12
30 44 0.08
31 38 0.07
32 162 0.28
33 5 0.01
34 4 0.01
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (29 bp):
TTCAAAGCCCACAAGTCGGTGGCACTCAT
Found at i:214192 original size:20 final size:20
Alignment explanation
Indices: 214169--214245 Score: 118
Period size: 20 Copynumber: 3.9 Consensus size: 20
214159 AAGTACCTAG
214169 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
214189 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
*
214209 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
214229 ATGTATCGATACATTTT
1 ATGTATCGATACATTTT
214246 GTCTTTTTAC
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.31, C:0.14, G:0.13, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:218041 original size:95 final size:95
Alignment explanation
Indices: 217878--218200 Score: 385
Period size: 95 Copynumber: 3.4 Consensus size: 95
217868 TATTTATCGG
*
217878 GGATACTCCAACCCAATCTTCCGAAGGGATACTCCAACCCTATTTTTAAACTTGTCAAGATTTAA
1 GGATACTCCAACCCAATCTTCCGAAGGGATACTCCAACCTTATTTTTAAACTTGTCAAGATTTAA
* *
217943 ATCTTATTTTCACCTAAATTGTCATTGTCA
66 ATCTTATTTTTACCTAAATTATCATTGTCA
* * ** * *
217973 GGATACTCTAACCCTATCTTTTGAAGGGATACTCTAACCTTGTTTTTAAACTTGTCAAGATTTAA
1 GGATACTCCAACCCAATCTTCCGAAGGGATACTCCAACCTTATTTTTAAACTTGTCAAGATTTAA
* * * *
218038 ATCTTATTTTTGCCTAAATTTTCATCGTCG
66 ATCTTATTTTTACCTAAATTATCATTGTCA
* * * * ** *
218068 GGATACTCCACCCCCATCTTCCGATGGAATACTCCAACCTCCTTTTTAAACTTGTCGAGATTTAA
1 GGATACTCCAACCCAATCTTCCGAAGGGATACTCCAACCTTATTTTTAAACTTGTCAAGATTTAA
* *
218133 ATCTTATTTTTACCTAAATTATTATTGTCGT
66 ATCTTATTTTTACCTAAATTATCATTGTC-A
* * * * *
218164 GGACACTCCAACCTCATTCCTCCAAAAGGATACTCCA
1 GGATACTCCAACC-CAATCTTCCGAAGGGATACTCCA
218201 GCCCCATTTT
Statistics
Matches: 189, Mismatches: 37, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
95 162 0.86
96 11 0.06
97 16 0.08
ACGTcount: A:0.28, C:0.24, G:0.11, T:0.36
Consensus pattern (95 bp):
GGATACTCCAACCCAATCTTCCGAAGGGATACTCCAACCTTATTTTTAAACTTGTCAAGATTTAA
ATCTTATTTTTACCTAAATTATCATTGTCA
Found at i:223242 original size:200 final size:200
Alignment explanation
Indices: 222899--223272 Score: 624
Period size: 200 Copynumber: 1.9 Consensus size: 200
222889 AAGGGTTCCC
* *
222899 AGCCCACTAGAAAGTCTTGAAATGATTTTCAAATAATATTGAGGGCTATTATTTCGAAGAATTAG
1 AGCCCACTAGAAAGACTTGAAATGATTTTCAAATAATATTGAGGGCTATTATTTCGAAAAATTAG
* *
222964 GGGAAGGCCAATAAAGATTTAATTTCTCATCATTATTGGTTTCAAAACATGAAAAACTAAGTTAT
66 GGGAAGGCCAATAAAGATTTAATATCTCATCATCATTGGTTTCAAAACATGAAAAACTAAGTTAT
* *
223029 ACTTTTTCCATACTAGGTTGTTGATAATGGAATTTATGTTAACTGTATTGTGAGGCATGCTAGGG
131 ACTTTTTCCATACTAGGTTATTGATAATGGAATTTATGCTAACTGTATTGTGAGGCATGCTAGGG
223094 GTCTT
196 GTCTT
* * *
223099 AGCCCACTAGAAAGACTTGAAGTGATTTTCGAATAATATTGAGGGCTATTATTTTGAAAAATTAG
1 AGCCCACTAGAAAGACTTGAAATGATTTTCAAATAATATTGAGGGCTATTATTTCGAAAAATTAG
* * *
223164 TGGAAGGCCAATAAAGATTTAATATCTCATCATCATTGGTTTCACAACATGAAAAAGTAA-TTGA
66 GGGAAGGCCAATAAAGATTTAATATCTCATCATCATTGGTTTCAAAACATGAAAAACTAAGTT-A
223228 TACTTTTTCCATACTAGGTTATTGATAATGGAATTTATGCTAACT
130 TACTTTTTCCATACTAGGTTATTGATAATGGAATTTATGCTAACT
223273 ACATTTCAAG
Statistics
Matches: 161, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
199 2 0.01
200 159 0.99
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.35
Consensus pattern (200 bp):
AGCCCACTAGAAAGACTTGAAATGATTTTCAAATAATATTGAGGGCTATTATTTCGAAAAATTAG
GGGAAGGCCAATAAAGATTTAATATCTCATCATCATTGGTTTCAAAACATGAAAAACTAAGTTAT
ACTTTTTCCATACTAGGTTATTGATAATGGAATTTATGCTAACTGTATTGTGAGGCATGCTAGGG
GTCTT
Found at i:224814 original size:97 final size:96
Alignment explanation
Indices: 224641--224876 Score: 314
Period size: 97 Copynumber: 2.4 Consensus size: 96
224631 ATAATTTAGG
* * * * *
224641 AAAATGAGATTTAAATCTT-AATAAGTTCAAAAACGGGTTGGAATATCCCCTCGGAAGAATGGGG
1 AAAATAAGATTTAAATCTTGAA-AAGTTTAAAAACGGGTTGGAACATCCCCTCAGAAGAATGGGA
* *
224705 TTGGAGTATCCCCGATGAAGACAATTTAAGTA
65 TTAGAGTATCCCCGATGAAGACAATTTAAGCA
**
224737 AAAATAAGATTTAAATCTTGAAAAGTTTAAAAACGAGGTTGGGGCATCCCCT-AGAAGGAATGGG
1 AAAATAAGATTTAAATCTTGAAAAGTTTAAAAACG-GGTTGGAACATCCCCTCAGAA-GAATGGG
*
224801 ATTAGAGTATCCCCGATGATGACAATTTAAGCA
64 ATTAGAGTATCCCCGATGAAGACAATTTAAGCA
* *
224834 AAAATAAGATTTAAATCTTGACAAGTTTAAAAATGGAGTTGGA
1 AAAATAAGATTTAAATCTTGAAAAGTTTAAAAACGG-GTTGGA
224877 GTACCTCTCA
Statistics
Matches: 123, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
96 34 0.28
97 89 0.72
ACGTcount: A:0.40, C:0.12, G:0.22, T:0.26
Consensus pattern (96 bp):
AAAATAAGATTTAAATCTTGAAAAGTTTAAAAACGGGTTGGAACATCCCCTCAGAAGAATGGGAT
TAGAGTATCCCCGATGAAGACAATTTAAGCA
Found at i:227159 original size:20 final size:19
Alignment explanation
Indices: 227134--227188 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 19
227124 AAAAACCTAG
227134 AATGTATCGATACAATGAA
1 AATGTATCGATACAATGAA
* *
227153 CAATGTATGGATACATTGAA
1 -AATGTATCGATACAATGAA
227173 AGCATGTATCGATACA
1 A--ATGTATCGATACA
227189 TTTACTTATG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 1 0.03
20 17 0.57
21 12 0.40
ACGTcount: A:0.42, C:0.13, G:0.18, T:0.27
Consensus pattern (19 bp):
AATGTATCGATACAATGAA
Found at i:227290 original size:20 final size:20
Alignment explanation
Indices: 227267--227319 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
227257 CATTTCAGAC
*
227267 ATGTATCGATACATTCA-TAT
1 ATGTATCGATACATTAACT-T
227287 ATGTATCGATACATTAACTT
1 ATGTATCGATACATTAACTT
*
227307 ATTTATCGATACA
1 ATGTATCGATACA
227320 AATTGTAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTAACTT
Found at i:231387 original size:13 final size:13
Alignment explanation
Indices: 231369--231394 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
231359 CAATTTTTTG
231369 TGTATCGATACAT
1 TGTATCGATACAT
231382 TGTATCGATACAT
1 TGTATCGATACAT
231395 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:233933 original size:13 final size:13
Alignment explanation
Indices: 233915--233953 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
233905 ATAATCACCC
*
233915 TGTATCGATACAG
1 TGTATCGATACAA
233928 TGTATCGATACAA
1 TGTATCGATACAA
233941 TGTATCGATACAA
1 TGTATCGATACAA
233954 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:233964 original size:20 final size:20
Alignment explanation
Indices: 233939--234017 Score: 68
Period size: 20 Copynumber: 3.7 Consensus size: 20
233929 GTATCGATAC
233939 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
* *
233959 AATGTATCGACACATAGAATTTTCA
1 AATGTATCGATACAAAGAA-----A
* *
233984 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
234004 CATGTATCGATACA
1 AATGTATCGATACA
234018 TTTTGGACAT
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
20 31 0.65
25 17 0.35
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:236051 original size:15 final size:15
Alignment explanation
Indices: 236031--236061 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
236021 ATTTCGTTTG
*
236031 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
236046 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
236061 G
1 G
236062 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:237894 original size:21 final size:21
Alignment explanation
Indices: 237865--237909 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
237855 AAGTTTTCAT
*
237865 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
237885 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
237907 TTT
1 TTT
237910 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:240141 original size:13 final size:13
Alignment explanation
Indices: 240123--240148 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
240113 CAATTTTTTG
240123 TGTATCGATACAT
1 TGTATCGATACAT
240136 TGTATCGATACAT
1 TGTATCGATACAT
240149 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:241717 original size:28 final size:28
Alignment explanation
Indices: 241682--241737 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
241672 ATTATTTTGT
*
241682 TAAGACAAACTTATCTATATTGTCTTAA
1 TAAGACAAACTTATCCATATTGTCTTAA
*
241710 TAAGACAAGCTTATCCATATTGTCTTAA
1 TAAGACAAACTTATCCATATTGTCTTAA
241738 CACATGTCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (28 bp):
TAAGACAAACTTATCCATATTGTCTTAA
Found at i:244141 original size:18 final size:19
Alignment explanation
Indices: 244109--244148 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
244099 CAATGAAAAC
244109 AAAAGCTCTTGGAAATGTG
1 AAAAGCTCTTGGAAATGTG
* *
244128 AAAA-CTCTTTGAAATTTG
1 AAAAGCTCTTGGAAATGTG
244146 AAA
1 AAA
244149 GCTTTGATCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.30
Consensus pattern (19 bp):
AAAAGCTCTTGGAAATGTG
Found at i:244411 original size:13 final size:13
Alignment explanation
Indices: 244393--244423 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
244383 ACATTTCTTC
244393 ATGTATCGATACA
1 ATGTATCGATACA
244406 ATGTATCGATACA
1 ATGTATCGATACA
*
244419 TTGTA
1 ATGTA
244424 CCATGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:244494 original size:21 final size:21
Alignment explanation
Indices: 244468--244523 Score: 80
Period size: 19 Copynumber: 2.8 Consensus size: 21
244458 CTGCCAGTTT
**
244468 CATGTATCGATACAATTTGTC
1 CATGTATCGATACAATTTGAA
244489 CATGTATCGATAC-A-TTGAA
1 CATGTATCGATACAATTTGAA
244508 CATGTATCGATACAAT
1 CATGTATCGATACAAT
244524 GTATCGATAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 16 0.52
20 2 0.06
21 13 0.42
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (21 bp):
CATGTATCGATACAATTTGAA
Found at i:244527 original size:13 final size:13
Alignment explanation
Indices: 244509--244535 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
244499 TACATTGAAC
244509 ATGTATCGATACA
1 ATGTATCGATACA
244522 ATGTATCGATACA
1 ATGTATCGATACA
244535 A
1 A
244536 GGCAGCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:247008 original size:13 final size:13
Alignment explanation
Indices: 246990--247050 Score: 62
Period size: 13 Copynumber: 5.2 Consensus size: 13
246980 AATAGTACCT
246990 AATGTATCGATAC
1 AATGTATCGATAC
247003 AATGTATCGATAC
1 AATGTATCGATAC
* *
247016 AAGGAAT-G-T--
1 AATGTATCGATAC
247025 --TGTATCGATAC
1 AATGTATCGATAC
247036 AATGTATCGATAC
1 AATGTATCGATAC
247049 AA
1 AA
247051 GGAATGTTGT
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
7 3 0.08
8 1 0.03
9 1 0.03
11 1 0.03
12 1 0.03
13 31 0.82
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:247029 original size:33 final size:33
Alignment explanation
Indices: 246992--247069 Score: 156
Period size: 33 Copynumber: 2.4 Consensus size: 33
246982 TAGTACCTAA
246992 TGTATCGATACAATGTATCGATACAAGGAATGT
1 TGTATCGATACAATGTATCGATACAAGGAATGT
247025 TGTATCGATACAATGTATCGATACAAGGAATGT
1 TGTATCGATACAATGTATCGATACAAGGAATGT
247058 TGTATCGATACA
1 TGTATCGATACA
247070 TCTAGGTTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.31
Consensus pattern (33 bp):
TGTATCGATACAATGTATCGATACAAGGAATGT
Found at i:247030 original size:20 final size:20
Alignment explanation
Indices: 247005--247069 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 20
246995 ATCGATACAA
247005 TGTATCGATACAAGGAATGT
1 TGTATCGATACAAGGAATGT
247025 TGTATCGATAC----AA---
1 TGTATCGATACAAGGAATGT
247038 TGTATCGATACAAGGAATGT
1 TGTATCGATACAAGGAATGT
247058 TGTATCGATACA
1 TGTATCGATACA
247070 TCTAGGTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 11 0.29
16 2 0.05
17 2 0.05
20 23 0.61
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (20 bp):
TGTATCGATACAAGGAATGT
Found at i:253248 original size:32 final size:33
Alignment explanation
Indices: 253192--253261 Score: 92
Period size: 32 Copynumber: 2.2 Consensus size: 33
253182 GTTACAAGCT
253192 ATGTATCGATACATTTCTTCATGTATC-ATACA
1 ATGTATCGATACATTTCTTCATGTATCGATACA
253224 ATGTATCGATACATTGTAC-T-ATGTATCGATACA
1 ATGTATCGATACATT-T-CTTCATGTATCGATACA
*
253257 TTGTA
1 ATGTA
253262 CTATGTATCG
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
32 22 0.65
33 11 0.32
34 1 0.03
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.40
Consensus pattern (33 bp):
ATGTATCGATACATTTCTTCATGTATCGATACA
Found at i:253249 original size:20 final size:20
Alignment explanation
Indices: 253224--253276 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
253214 GTATCATACA
253224 ATGTATCGATACATTGTACT
1 ATGTATCGATACATTGTACT
253244 ATGTATCGATACATTGTACT
1 ATGTATCGATACATTGTACT
253264 ATGTATCGATACA
1 ATGTATCGATACA
253277 AATAATGATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTGTACT
Found at i:253344 original size:13 final size:13
Alignment explanation
Indices: 253326--253352 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
253316 TACATTAAAC
253326 ATGTATCGATACA
1 ATGTATCGATACA
253339 ATGTATCGATACA
1 ATGTATCGATACA
253352 A
1 A
253353 GGCAGCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:254578 original size:20 final size:18
Alignment explanation
Indices: 254540--254578 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
254530 AATCAAATCA
*
254540 AATATAAAAATATTTAAT
1 AATATAAAAATATTAAAT
254558 AATATAATAAATTATTAAAT
1 AATATAA-AAA-TATTAAAT
254578 A
1 A
254579 GGTCTTGCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 3 0.17
20 8 0.44
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AATATAAAAATATTAAAT
Found at i:254722 original size:127 final size:129
Alignment explanation
Indices: 254561--254793 Score: 355
Period size: 127 Copynumber: 1.8 Consensus size: 129
254551 ATTTAATAAT
* * *
254561 ATAATAAATTATTAAATAGGTCTTGCAAGTTAATTTAATAAACATATTTTATTTTTAAATATAAT
1 ATAATAAATTATTAAATAGGTCTTACAACTTAATTTAATAAACATATTTTATTTTCAAATATAAT
254626 AATAA-AAAATAAAAATGACTAAAAT-AAAAAATTAAAATCCAGTACCAATCGACTTTGGATCA
66 AATAAGAAAATAAAAATGACTAAAATAAAAAAATTAAAATCCAGTACCAATCGACTTTGGATCA
* * *
254688 ATAATAAATTATTAATTAGGT-TTAATAACTTAATTTAATAAATATATTTTATTTTCAAATATAA
1 ATAATAAATTATTAAATAGGTCTT-ACAACTTAATTTAATAAACATATTTTATTTTCAAATATAA
* * *
254752 TTATAAGTAAATAAAAATGATTAAAATAAAAAAATTAAAATC
65 TAATAAGAAAATAAAAATGACTAAAATAAAAAAATTAAAATC
254794 TTGTACCAGT
Statistics
Matches: 94, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
126 2 0.02
127 60 0.64
128 18 0.19
129 14 0.15
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.36
Consensus pattern (129 bp):
ATAATAAATTATTAAATAGGTCTTACAACTTAATTTAATAAACATATTTTATTTTCAAATATAAT
AATAAGAAAATAAAAATGACTAAAATAAAAAAATTAAAATCCAGTACCAATCGACTTTGGATCA
Found at i:254788 original size:14 final size:15
Alignment explanation
Indices: 254760--254792 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
254750 AATTATAAGT
*
254760 AAATAAAAATGATTA
1 AAATAAAAATAATTA
254775 AAATAAAAA-AATTA
1 AAATAAAAATAATTA
254789 AAAT
1 AAAT
254793 CTTGTACCAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (15 bp):
AAATAAAAATAATTA
Found at i:255177 original size:3 final size:3
Alignment explanation
Indices: 255169--255196 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
255159 CATATTTTAT
255169 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
255197 GATTTATCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:258033 original size:157 final size:156
Alignment explanation
Indices: 257831--258118 Score: 407
Period size: 157 Copynumber: 1.8 Consensus size: 156
257821 AGGGTAGAAA
* * ** * *
257831 CTTGAAACGTTTGTTCTGGCTTTGAAATGCTATGATTATGCTTTTTCTATTTTTTAAAC-GAGTT
1 CTTGAAACGGTTGTTCTGGCTTTGAAATGCAACCATTATGCTTTTTCCATTATTTAAACAG-GTT
* * * *
257895 GTTAAATGCCTACTGAGTGGTGATTACTTTTTAATCTTCCTCTTAAATTTATTGATGCAGGAGAA
65 GTTAAATGCCTACTGAGTGGCGATTACTTTTTAATATTACTCGT-AATTTATTGATGCAGGAGAA
257960 TATAAAAAGAAAAAGTTGTTATAATATT
129 TATAAAAAGAAAAAGTTGTTATAATATT
* *
257988 CTTGAAACGGTTGTTCTGGCTTTGAAATGCAACCATTTTGCTTTTTCCATTATTTAAACAGGTTT
1 CTTGAAACGGTTGTTCTGGCTTTGAAATGCAACCATTATGCTTTTTCCATTATTTAAACAGGTTG
* * * *
258053 TTAAATGGCTACTGAGTGGCGTTTACTTTTTAATATTACTCGTATTTTGTTGATGCAGGAGAATA
66 TTAAATGCCTACTGAGTGGCGATTACTTTTTAATATTACTCGTAATTTATTGATGCAGGAGAATA
258118 T
131 T
258119 GTAAAAACAG
Statistics
Matches: 114, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
156 21 0.18
157 92 0.81
158 1 0.01
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.43
Consensus pattern (156 bp):
CTTGAAACGGTTGTTCTGGCTTTGAAATGCAACCATTATGCTTTTTCCATTATTTAAACAGGTTG
TTAAATGCCTACTGAGTGGCGATTACTTTTTAATATTACTCGTAATTTATTGATGCAGGAGAATA
TAAAAAGAAAAAGTTGTTATAATATT
Found at i:258228 original size:89 final size:89
Alignment explanation
Indices: 258072--258255 Score: 262
Period size: 89 Copynumber: 2.1 Consensus size: 89
258062 TACTGAGTGG
* * * *
258072 CGTTTACTTTTTAATATTACTCGTATTTTGTTGATGCAGGAGAATATGTAAAAACAGAGTTCAAA
1 CGTTTACTTTTTAATATTACTCATATTTTATTGATGCAGAAGAATATGTAAAAAAAGAGTTCAAA
**
258137 TGAAATGGTGCTTTGACTTTTTTT
66 TGAAATGGCCCTTTGACTTTTTTT
* **
258161 CGTTTACTTTTTACA-CTTACTCATATTTTATTGATGCAGAAGAATATGTAAAAAAAGAGTTTGA
1 CGTTTACTTTTTA-ATATTACTCATATTTTATTGATGCAGAAGAATATGTAAAAAAAGAGTTCAA
258225 ATGAAATGGCCCTTTGACTTTTTTT
65 ATGAAATGGCCCTTTGACTTTTTTT
*
258250 CTTTTA
1 CGTTTA
258256 TTATCTATAT
Statistics
Matches: 84, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
89 83 0.99
90 1 0.01
ACGTcount: A:0.30, C:0.11, G:0.16, T:0.43
Consensus pattern (89 bp):
CGTTTACTTTTTAATATTACTCATATTTTATTGATGCAGAAGAATATGTAAAAAAAGAGTTCAAA
TGAAATGGCCCTTTGACTTTTTTT
Found at i:269853 original size:22 final size:20
Alignment explanation
Indices: 269808--269879 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
269798 GCCAAGGAAA
* * *
269808 TGTATCGATACATTAATAAA
1 TGTATTGATACATTTATAAT
269828 TGTATTGATACATACTTATAAT
1 TGTATTGATACAT--TTATAAT
* * *
269850 TGTATTGATTCATTTCTCAT
1 TGTATTGATACATTTATAAT
269870 TGTATTGATA
1 TGTATTGATA
269880 TATTCTGGGT
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
20 26 0.60
22 17 0.40
ACGTcount: A:0.33, C:0.10, G:0.11, T:0.46
Consensus pattern (20 bp):
TGTATTGATACATTTATAAT
Found at i:274769 original size:19 final size:20
Alignment explanation
Indices: 274732--274769 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
274722 ACACGCTCCT
*
274732 ATGTATCGATGCAATTCATA
1 ATGTATCGATACAATTCATA
274752 ATGTATCGATAC-ATTCAT
1 ATGTATCGATACAATTCAT
274770 TTGAATTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACAATTCATA
Found at i:274841 original size:13 final size:13
Alignment explanation
Indices: 274822--274860 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
274812 AACTATTCAT
*
274822 ATGTATCGATACC
1 ATGTATCGATACA
*
274835 CTGTATCGATACA
1 ATGTATCGATACA
274848 ATGTATCGATACA
1 ATGTATCGATACA
274861 TAAACAGTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:274893 original size:14 final size:14
Alignment explanation
Indices: 274870--274920 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
274860 ATAAACAGTG
*
274870 ATGAACAGTGATAC
1 ATGAATAGTGATAC
274884 ATGAATAGTGAT--
1 ATGAATAGTGATAC
274896 A--AATAGTGATAC
1 ATGAATAGTGATAC
*
274908 ATAAATAGTGATA
1 ATGAATAGTGATA
274921 AATAGTAATG
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
10 9 0.28
12 2 0.06
14 21 0.66
ACGTcount: A:0.47, C:0.06, G:0.20, T:0.27
Consensus pattern (14 bp):
ATGAATAGTGATAC
Found at i:274923 original size:24 final size:24
Alignment explanation
Indices: 274855--274926 Score: 108
Period size: 24 Copynumber: 3.0 Consensus size: 24
274845 ACAATGTATC
* * *
274855 GATACATAAACAGTGATGAACAGT
1 GATACATAAATAGTGATAAATAGT
*
274879 GATACATGAATAGTGATAAATAGT
1 GATACATAAATAGTGATAAATAGT
274903 GATACATAAATAGTGATAAATAGT
1 GATACATAAATAGTGATAAATAGT
274927 AATGTATCAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.47, C:0.07, G:0.19, T:0.26
Consensus pattern (24 bp):
GATACATAAATAGTGATAAATAGT
Found at i:277959 original size:21 final size:21
Alignment explanation
Indices: 277896--277952 Score: 73
Period size: 21 Copynumber: 2.7 Consensus size: 21
277886 TTTATTAGTT
*
277896 AACTCA-TCATTTTCATTTTGC
1 AACTCATTCATTTTCA-TTTCC
277917 AACTCATTTC-TTTTCATTTCC
1 AACTCA-TTCATTTTCATTTCC
277938 AACTCATTCATTTTC
1 AACTCATTCATTTTC
277953 TTCTCCAGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 3 0.09
21 21 0.66
22 6 0.19
23 2 0.06
ACGTcount: A:0.23, C:0.26, G:0.02, T:0.49
Consensus pattern (21 bp):
AACTCATTCATTTTCATTTCC
Found at i:280113 original size:24 final size:24
Alignment explanation
Indices: 280107--280163 Score: 114
Period size: 24 Copynumber: 2.4 Consensus size: 24
280097 ACAGTGATAT
280107 ATGAATAGTGATACATGAATAGTG
1 ATGAATAGTGATACATGAATAGTG
280131 ATGAATAGTGATACATGAATAGTG
1 ATGAATAGTGATACATGAATAGTG
280155 ATGAATAGT
1 ATGAATAGT
280164 AATGTATCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.42, C:0.04, G:0.25, T:0.30
Consensus pattern (24 bp):
ATGAATAGTGATACATGAATAGTG
Found at i:280116 original size:14 final size:14
Alignment explanation
Indices: 280093--280156 Score: 82
Period size: 14 Copynumber: 4.9 Consensus size: 14
280083 ATAAATAGTG
* *
280093 ATGAACAGTGATAT
1 ATGAATAGTGATAC
280107 ATGAATAGTGATAC
1 ATGAATAGTGATAC
280121 ATGAATAGTG----
1 ATGAATAGTGATAC
280131 ATGAATAGTGATAC
1 ATGAATAGTGATAC
280145 ATGAATAGTGAT
1 ATGAATAGTGAT
280157 GAATAGTAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
10 10 0.23
14 34 0.77
ACGTcount: A:0.42, C:0.05, G:0.23, T:0.30
Consensus pattern (14 bp):
ATGAATAGTGATAC
Found at i:280120 original size:38 final size:38
Alignment explanation
Indices: 280078--280156 Score: 131
Period size: 38 Copynumber: 2.1 Consensus size: 38
280068 ACAATATATC
*
280078 GATACATAAATAGTGATGAACAGTGATATATGAATAGT
1 GATACATAAATAGTGATGAACAGTGATACATGAATAGT
* *
280116 GATACATGAATAGTGATGAATAGTGATACATGAATAGT
1 GATACATAAATAGTGATGAACAGTGATACATGAATAGT
280154 GAT
1 GAT
280157 GAATAGTAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.43, C:0.05, G:0.23, T:0.29
Consensus pattern (38 bp):
GATACATAAATAGTGATGAACAGTGATACATGAATAGT
Found at i:280136 original size:10 final size:10
Alignment explanation
Indices: 280121--280163 Score: 50
Period size: 10 Copynumber: 3.9 Consensus size: 10
280111 ATAGTGATAC
280121 ATGAATAGTG
1 ATGAATAGTG
280131 ATGAATAGTG
1 ATGAATAGTG
280141 ATACATGAATAGTG
1 ----ATGAATAGTG
280155 ATGAATAGT
1 ATGAATAGT
280164 AATGTATCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
10 19 0.66
14 10 0.34
ACGTcount: A:0.42, C:0.02, G:0.26, T:0.30
Consensus pattern (10 bp):
ATGAATAGTG
Found at i:283717 original size:8 final size:8
Alignment explanation
Indices: 283704--283728 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
283694 GACGAACAAA
283704 AAAAAAAG
1 AAAAAAAG
283712 AAAAAAAG
1 AAAAAAAG
283720 AAAAAAAG
1 AAAAAAAG
283728 A
1 A
283729 GTGCAAAGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:284992 original size:32 final size:31
Alignment explanation
Indices: 284943--285605 Score: 519
Period size: 32 Copynumber: 20.9 Consensus size: 31
284933 CCACGATTTA
* *
284943 GTGGCAACCCTTCTCAAAGCCCGCACAAGCTG
1 GTGGCAA-CCTTTTCAAAGCCCACACAAGCTG
* *
284975 GTGGCAACGCTTTTCAAAGCCCACATATGCTG
1 GTGGCAAC-CTTTTCAAAGCCCACACAAGCTG
* * *
285007 GTGGCAACCCATCTCAAAGCCCACACAAGCCG
1 GTGGCAA-CCTTTTCAAAGCCCACACAAGCTG
* * *
285039 GTGGTAACCCTTTCAAAAGCCCACACAAGCTA
1 GTGGCAACCTTTTC-AAAGCCCACACAAGCTG
*
285071 GTGGCAACCTCTTCTAAAGCCCACACAAG-TCG
1 GTGGCAACCTTTTC-AAAGCCCACACAAGCT-G
* **
285103 GTGGCAACC-CTTCTAAAGCCCACACAAGCCA
1 GTGGCAACCTTTTC-AAAGCCCACACAAGCTG
* * * * *
285134 ATGGCAACCTTTCTCAAATCTCGCACAAGCCG
1 GTGGCAACCTTT-TCAAAGCCCACACAAGCTG
* *
285166 GTGGCAACCTTCTCAAAAGCTCACACAAGCTG
1 GTGGCAACCTTTTC-AAAGCCCACACAAGCTG
* * **
285198 GTGGCAACC-CTTCTAAAGCCTACACAAGCCA
1 GTGGCAACCTTTTC-AAAGCCCACACAAGCTG
* *
285229 GTGGCAACCTCTTCTAAAGCCCACACAA-ATCG
1 GTGGCAACCTTTTC-AAAGCCCACACAAGCT-G
*
285261 GTGGCAACCCTTCTT-AAAGGCCACACAAG-TCG
1 GTGGCAA-CCTT-TTCAAAGCCCACACAAGCT-G
*
285293 GTGGCAACCCTTCTCAAAGCCCACACAAGCTG
1 GTGGCAA-CCTTTTCAAAGCCCACACAAGCTG
* *
285325 GTGGCAACCCTTCTCAAAGCCCACACAAGCCG
1 GTGGCAA-CCTTTTCAAAGCCCACACAAGCTG
* * *
285357 ATGGCAACCCTCTCAAAAGCCCACACAAGCTG
1 GTGGCAACCTTTTC-AAAGCCCACACAAGCTG
* *
285389 GTGGCAACCTCTTCTAAAGCCCACACAAG-TCA
1 GTGGCAACCTTTTC-AAAGCCCACACAAGCT-G
* * * *
285421 ATAGCAACCCTTCTCAAAGCCTACACAAG-TCG
1 GTGGCAA-CCTTTTCAAAGCCCACACAAGCT-G
*
285453 GTGGCAACCTTTTCCAAAGCCCACACAAGCTA
1 GTGGCAACCTTTT-CAAAGCCCACACAAGCTG
* * *
285485 GTAGCAACC-CTTCTAAAGCCCACACAAG-TCA
1 GTGGCAACCTTTTC-AAAGCCCACACAAGCT-G
* *
285516 GTGGCAACCCTTTT-AAAGTCTACACAAG-TCG
1 GTGGCAA-CCTTTTCAAAGCCCACACAAGCT-G
*
285547 GTGGCAATCCTTTT-AAAGTCCACACAAG-TCG
1 GTGGCAA-CCTTTTCAAAGCCCACACAAGCT-G
*
285578 GTGGCAATCCTTTT-AAAGTCCACACAAG
1 GTGGCAA-CCTTTTCAAAGCCCACACAAG
285606 TGGCAACCCT
Statistics
Matches: 530, Mismatches: 77, Indels: 49
0.81 0.12 0.07
Matches are distributed among these distances:
30 2 0.00
31 167 0.32
32 344 0.65
33 15 0.03
34 2 0.00
ACGTcount: A:0.30, C:0.34, G:0.17, T:0.18
Consensus pattern (31 bp):
GTGGCAACCTTTTCAAAGCCCACACAAGCTG
Found at i:285022 original size:64 final size:64
Alignment explanation
Indices: 284943--285605 Score: 639
Period size: 64 Copynumber: 10.5 Consensus size: 64
284933 CCACGATTTA
* * * * *
284943 GTGGCAACCCTTCTCAAAGCCCGCACAAGCTGGTGGCAACGCTTTTC-AAAGCCCACATATGCTG
1 GTGGCAACCCTTCTCAAAGCCCACACAAGCCGGTGGCAAC-CTTCTCAAAAGCCCACACAAGCTG
* * *
285007 GTGGCAACCCATCTCAAAGCCCACACAAGCCGGTGGTAACCCTT-TCAAAAGCCCACACAAGCTA
1 GTGGCAACCCTTCTCAAAGCCCACACAAGCCGGTGGCAA-CCTTCTCAAAAGCCCACACAAGCTG
* *
285071 GTGGCAACCTCTTCT-AAAGCCCACACAAGTCGGTGGCAACCCTTCT--AAAGCCCACACAAGCC
1 GTGGCAACC-CTTCTCAAAGCCCACACAAGCCGGTGGCAA-CCTTCTCAAAAGCCCACACAAGCT
*
285133 A
64 G
* * * * * *
285134 ATGGCAACCTTTCTCAAATCTCGCACAAGCCGGTGGCAACCTTCTCAAAAGCTCACACAAGCTG
1 GTGGCAACCCTTCTCAAAGCCCACACAAGCCGGTGGCAACCTTCTCAAAAGCCCACACAAGCTG
* * * *
285198 GTGGCAACCCTTCT-AAAGCCTACACAAGCCAGTGGCAACC-TCTTCTAAAGCCCACACAA-ATC
1 GTGGCAACCCTTCTCAAAGCCCACACAAGCCGGTGGCAACCTTC-TCAAAAGCCCACACAAGCT-
285260 G
64 G
* * *
285261 GTGGCAACCCTTCTTAAAGGCCACACAAGTCGGTGGCAACCCTTCTC-AAAGCCCACACAAGCTG
1 GTGGCAACCCTTCTCAAAGCCCACACAAGCCGGTGGCAA-CCTTCTCAAAAGCCCACACAAGCTG
* *
285325 GTGGCAACCCTTCTCAAAGCCCACACAAGCCGATGGCAACCCTCTCAAAAGCCCACACAAGCTG
1 GTGGCAACCCTTCTCAAAGCCCACACAAGCCGGTGGCAACCTTCTCAAAAGCCCACACAAGCTG
* ** * *
285389 GTGGCAACCTCTTCT-AAAGCCCACACAAGTCAATAGCAACCCTTCTC-AAAGCCTACACAAG-T
1 GTGGCAACC-CTTCTCAAAGCCCACACAAGCCGGTGGCAA-CCTTCTCAAAAGCCCACACAAGCT
285451 CG
64 -G
* ** *
285453 GTGGCAA-CCTTTTCCAAAGCCCACACAAGCTAGTAGCAACCCTTCT--AAAGCCCACACAAG-T
1 GTGGCAACCCTTCT-CAAAGCCCACACAAGCCGGTGGCAA-CCTTCTCAAAAGCCCACACAAGCT
*
285514 CA
64 -G
* * * * * *
285516 GTGGCAACCCTT-TTAAAGTCTACACAAGTCGGTGGCAATCCTT-T-TAAAGTCCACACAAG-TC
1 GTGGCAACCCTTCTCAAAGCCCACACAAGCCGGTGGCAA-CCTTCTCAAAAGCCCACACAAGCT-
285577 G
64 G
* * *
285578 GTGGCAATCCTT-TTAAAGTCCACACAAG
1 GTGGCAACCCTTCTCAAAGCCCACACAAG
285606 TGGCAACCCT
Statistics
Matches: 515, Mismatches: 63, Indels: 44
0.83 0.10 0.07
Matches are distributed among these distances:
61 1 0.00
62 80 0.16
63 127 0.25
64 283 0.55
65 22 0.04
66 2 0.00
ACGTcount: A:0.30, C:0.34, G:0.17, T:0.18
Consensus pattern (64 bp):
GTGGCAACCCTTCTCAAAGCCCACACAAGCCGGTGGCAACCTTCTCAAAAGCCCACACAAGCTG
Found at i:285058 original size:96 final size:94
Alignment explanation
Indices: 284942--285605 Score: 695
Period size: 96 Copynumber: 7.0 Consensus size: 94
284932 CCCACGATTT
* * *
284942 AGTGGCAACCCTTCTCAAAGCCCGCACAAGCTGGTGGCAACGCTTTTC-AAAGCCCACATATGCT
1 AGTGGCAACCCTT-TCAAAGCCCACACAAGCTGGTGGCAAC-CTTTTCAAAAGCCCACACAAGCT
*
285006 GGTGGCAACCCATCTCAAAGCCCACACAAGCC
64 GGTGGCAACCCTTCT-AAAGCCCACACAAGCC
* * * * *
285038 GGTGGTAACCCTTTCAAAAGCCCACACAAGCTAGTGGCAACCTCTTCTAAAGCCCACACAAG-TC
1 AGTGGCAACCCTTTC-AAAGCCCACACAAGCTGGTGGCAACCTTTTCAAAAGCCCACACAAGCT-
285102 GGTGGCAACCCTTCTAAAGCCCACACAAGCC
64 GGTGGCAACCCTTCTAAAGCCCACACAAGCC
* * * * * * * *
285133 AATGGCAACCTTTCTCAAATCTCGCACAAGCCGGTGGCAACCTTCTCAAAAGCTCACACAAGCTG
1 AGTGGCAACCCTT-TCAAAGCCCACACAAGCTGGTGGCAACCTTTTCAAAAGCCCACACAAGCTG
*
285198 GTGGCAACCCTTCTAAAGCCTACACAAGCC
65 GTGGCAACCCTTCTAAAGCCCACACAAGCC
* *
285228 AGTGGCAA-CCTCTTCTAAAGCCCACACAA-ATCGGTGGCAACCCTTCTT--AAAGGCCACACAA
1 AGTGGCAACCCT-TTC-AAAGCCCACACAAGCT-GGTGGCAA-CCTT-TTCAAAAGCCCACACAA
*
285289 G-TCGGTGGCAACCCTTCTCAAAGCCCACACAAGCT
61 GCT-GGTGGCAACCCTTCT-AAAGCCCACACAAGCC
* * * * *
285324 GGTGGCAACCCTTCTCAAAGCCCACACAAGCCGATGGCAACCCTCTCAAAAGCCCACACAAGCTG
1 AGTGGCAACCCTT-TCAAAGCCCACACAAGCTGGTGGCAACCTTTTCAAAAGCCCACACAAGCTG
*
285389 GTGGCAACCTCTTCTAAAGCCCACACAAGTC
65 GTGGCAACC-CTTCTAAAGCCCACACAAGCC
* * * *
285420 AATAGCAACCCTTCTCAAAGCCTACACAAG-TCGGTGGCAACCTTTTCCAAAGCCCACACAAGCT
1 AGTGGCAACCCTT-TCAAAGCCCACACAAGCT-GGTGGCAACCTTTTCAAAAGCCCACACAAGCT
* * *
285484 AGTAGCAACCCTTCTAAAGCCCACACAAGTC
64 GGTGGCAACCCTTCTAAAGCCCACACAAGCC
* * * *
285515 AGTGGCAACCCTTTTAAAGTCTACACAAG-TCGGTGGCAATCCTTTT--AAAGTCCACACAAG-T
1 AGTGGCAACCCTTTCAAAGCCCACACAAGCT-GGTGGCAA-CCTTTTCAAAAGCCCACACAAGCT
* * *
285576 CGGTGGCAATCCTTTTAAAGTCCACACAAG
64 -GGTGGCAACCCTTCTAAAGCCCACACAAG
285606 TGGCAACCCT
Statistics
Matches: 482, Mismatches: 64, Indels: 47
0.81 0.11 0.08
Matches are distributed among these distances:
92 1 0.00
93 37 0.08
94 30 0.06
95 194 0.40
96 208 0.43
97 12 0.02
ACGTcount: A:0.31, C:0.34, G:0.17, T:0.18
Consensus pattern (94 bp):
AGTGGCAACCCTTTCAAAGCCCACACAAGCTGGTGGCAACCTTTTCAAAAGCCCACACAAGCTGG
TGGCAACCCTTCTAAAGCCCACACAAGCC
Found at i:285522 original size:318 final size:317
Alignment explanation
Indices: 284943--285606 Score: 901
Period size: 318 Copynumber: 2.1 Consensus size: 317
284933 CCACGATTTA
* * * * * *
284943 GTGGCAACCCTTCTCAAAGCCCGCACAAG-CTGGTGGCAACGCTTTTCAAAGCCCACATATGCTG
1 GTGGCAACCCTTCTTAAAGCCCACACAAGTCTGGTGGCAACCCTTCTCAAAGCCCACACAAGCTG
* * *
285007 GTGGCAACCCATCTCAAAGCCCACACAAGCCGGTGGTAACCCTTTCAAAAGCCCACACAAGCTAG
66 GTGGCAACCCATCTCAAAGCCCACACAAGCCGATGGCAACCCTCTCAAAAGCCCACACAAGCTAG
** *
285072 TGGCAACCTCTTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTAAAGCCCACACAAGCCAATG
131 TGGCAACCTCTTCTAAAGCCCACACAAGTCAATAGCAACCCTTCTAAAGCCCACACAAGCCAATG
* * * * * * *
285137 GCAACCTTTCTCAAATCTCGCACAAGCCGGTGGCAACCTTCTCAAAAGCTCACACAAGCTGGTGG
196 GCAACCTTTCTCAAAGCCCACACAAGCCAGTAGCAACCTTCT-AAAAGCCCACACAAGCTAGTGG
285202 CAACCCTTCTAAAGCCTACACAAGCCAGTGGCAA-CCTCTTCTAAAGCCCACACAAATCG
260 CAACCCTTCTAAAGCCTACACAAGCCAGTGGCAATCCT-TT-TAAAGCCCACACAAATCG
*
285261 GTGGCAACCCTTCTTAAAGGCCACACAAGTC-GGTGGCAACCCTTCTCAAAGCCCACACAAGCTG
1 GTGGCAACCCTTCTTAAAGCCCACACAAGTCTGGTGGCAACCCTTCTCAAAGCCCACACAAGCTG
* *
285325 GTGGCAACCCTTCTCAAAGCCCACACAAGCCGATGGCAACCCTCTCAAAAGCCCACACAAGCTGG
66 GTGGCAACCCATCTCAAAGCCCACACAAGCCGATGGCAACCCTCTCAAAAGCCCACACAAGCTAG
* * **
285390 TGGCAACCTCTTCTAAAGCCCACACAAGTCAATAGCAACCCTTCTCAAAGCCTACACAAGTCGGT
131 TGGCAACCTCTTCTAAAGCCCACACAAGTCAATAGCAACCCTTCT-AAAGCCCACACAAGCCAAT
*
285455 GGCAACCTTT-TCCAAAGCCCACACAAGCTAGTAGCAACCCTTCT-AAAGCCCACACAAG-TCAG
195 GGCAACCTTTCT-CAAAGCCCACACAAGCCAGTAGCAA-CCTTCTAAAAGCCCACACAAGCT-AG
* * * * * *
285517 TGGCAACCCTTTTAAAGTCTACACAAGTCGGTGGCAATCCTTTTAAAGTCCACACAAGTCG
257 TGGCAACCCTTCTAAAGCCTACACAAGCCAGTGGCAATCCTTTTAAAGCCCACACAAATCG
* *
285578 GTGGCAATCCTT-TTAAAGTCCACACAAGT
1 GTGGCAACCCTTCTTAAAGCCCACACAAGT
285607 GGCAACCCTT
Statistics
Matches: 305, Mismatches: 35, Indels: 14
0.86 0.10 0.04
Matches are distributed among these distances:
316 16 0.05
317 28 0.09
318 207 0.68
319 48 0.16
320 6 0.02
ACGTcount: A:0.30, C:0.34, G:0.17, T:0.18
Consensus pattern (317 bp):
GTGGCAACCCTTCTTAAAGCCCACACAAGTCTGGTGGCAACCCTTCTCAAAGCCCACACAAGCTG
GTGGCAACCCATCTCAAAGCCCACACAAGCCGATGGCAACCCTCTCAAAAGCCCACACAAGCTAG
TGGCAACCTCTTCTAAAGCCCACACAAGTCAATAGCAACCCTTCTAAAGCCCACACAAGCCAATG
GCAACCTTTCTCAAAGCCCACACAAGCCAGTAGCAACCTTCTAAAAGCCCACACAAGCTAGTGGC
AACCCTTCTAAAGCCTACACAAGCCAGTGGCAATCCTTTTAAAGCCCACACAAATCG
Found at i:285990 original size:112 final size:110
Alignment explanation
Indices: 285741--286219 Score: 279
Period size: 113 Copynumber: 4.3 Consensus size: 110
285731 AAACCCGATG
* * * * * * *
285741 TCACTAGCCTTGAATCAGCACGTTGGAATCCTTGT-CA-TCTGTAAGTCCATTGTCGCTGGCCTT
1 TCACTGGCCTTGAATCAGCACATTGGCA-CCTTTTGCATTCT-TAAGCCCAATATCGCTGGCCTT
* * ** *
285804 GAATCAACACATTGGCACTTGTCAAATCTTTTTTCTTTAAGTCCGATA
64 GAATCAGCACATTGGCACTTATC-AATCTTTCATCTTTAAGTCCAATA
* * * * *
285852 TCGCTGGCCTTGAATTAGCATATTGGCACC-TTTGCGATT-TTAAGCCCAATGTTGCTGGCCTTG
1 TCACTGGCCTTGAATCAGCACATTGGCACCTTTTGC-ATTCTTAAGCCCAATATCGCTGGCCTTG
*
285915 AATCAGCACATTGGCATTCTTATC-ATCCTTATCATCTTTAAGTCCAATG
65 AATCAGCACATTGGCA--CTTATCAAT-CTT-TCATCTTTAAGTCCAATA
* * * * * *
285964 TCATTGGCCTTGAATCAGCGCATTGGCACCTTTTTCTTTCTTAAGTCCAATATCGCTAGCCTTGA
1 TCACTGGCCTTGAATCAGCACATTGGCACCTTTTGCATTCTTAAGCCCAATATCGCTGGCCTTGA
* * *
286029 ATCAGCATATTGGCGC-T-T---T-TGTCATCTTTAAG-CCTAATA
66 ATCAGCACATTGGCACTTATCAATCTTTCATCTTTAAGTCC-AATA
* * ***
286068 TCGCTAGCCTTGAATCAGTGTATTGGCACCTTTAT-CATTCTTCTCATCTTTAAGCCCAATATCG
1 TCACTGGCCTTGAATCAGCACATTGGCACCTTT-TGCA------T--TC-TTAAGCCCAATATCG
* * * * * *
286132 CTGG-CTGTGAGTCAGCATATTGGCACCT-TCATTCTTTGCATCCTTAAGTCCAACA
56 CTGGCCT-TGAATCAGCACATTGGCACTTATCAATCTTT-CATCTTTAAGTCCAATA
* ** *
286187 TCAATAACCTTGAATCAGCAGATTGGCA-CTTTT
1 TCACTGGCCTTGAATCAGCACATTGGCACCTTTT
286220 CCCATCTTCA
Statistics
Matches: 290, Mismatches: 50, Indels: 50
0.74 0.13 0.13
Matches are distributed among these distances:
103 2 0.01
104 43 0.15
105 2 0.01
107 1 0.00
109 3 0.01
110 42 0.14
111 28 0.10
112 51 0.18
113 72 0.25
114 2 0.01
117 2 0.01
118 6 0.02
119 34 0.12
120 2 0.01
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.36
Consensus pattern (110 bp):
TCACTGGCCTTGAATCAGCACATTGGCACCTTTTGCATTCTTAAGCCCAATATCGCTGGCCTTGA
ATCAGCACATTGGCACTTATCAATCTTTCATCTTTAAGTCCAATA
Found at i:286041 original size:52 final size:51
Alignment explanation
Indices: 285952--286109 Score: 167
Period size: 52 Copynumber: 3.0 Consensus size: 51
285942 CTTATCATCT
* ** * *
285952 TTAAGTCCAATGTCATTGGCCTTGAATCAGCGCATTGGCACCTTTTTCTTTC
1 TTAAGTCCAATATCGCTAGCCTTGAATCAGCGTATTGGCACCTTTTTC-TTC
* * *
286004 TTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGC-GCTTTTGTCATC
1 TTAAGTCCAATATCGCTAGCCTTGAATCAGCGTATTGGCACCTTTT-TCTTC
* *
286055 TTTAAG-CCTAATATCGCTAGCCTTGAATCAGTGTATTGGCACCTTTATCATTC
1 -TTAAGTCC-AATATCGCTAGCCTTGAATCAGCGTATTGGCACCTTTTTC-TTC
286108 TT
1 TT
286110 CTCATCTTTA
Statistics
Matches: 88, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
51 9 0.10
52 73 0.83
53 6 0.07
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.38
Consensus pattern (51 bp):
TTAAGTCCAATATCGCTAGCCTTGAATCAGCGTATTGGCACCTTTTTCTTC
Found at i:286156 original size:165 final size:166
Alignment explanation
Indices: 285768--286219 Score: 419
Period size: 165 Copynumber: 2.7 Consensus size: 166
285758 GCACGTTGGA
* * * * * * * *
285768 ATCCTTGTCATCTGTAAGTCCATTGTCGCTGGCCTTGAATCAACACATTGGCACTTGTCAAATCT
1 ATCCTTATCATCTTTAAGCCCAATATCACTGGCCTTGAATCAGCACATTGGCACCT-TC--AT-T
* * * * *
285833 TTTTTCTTTAAGTCCGATATCGCTGGCCTTGAATTAGCATATTGGCACCTTTGCGATTTTAAGCC
62 CTTTTC-TTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACTTTTGCGATTTTAAGCC
* * * *
285898 CAATGTTGCTGGCCTTGAATCAGCACATTGGCATTCTTATC
126 CAATATCGCTAGCCTTGAATCAGCACATTGGCACTCTTATC
* * * * *
285939 ATCCTTATCATCTTTAAGTCCAATGTCATTGGCCTTGAATCAGCGCATTGGCACCTT-TTTC-TT
1 ATCCTTATCATCTTTAAGCCCAATATCACTGGCCTTGAATCAGCACATTGGCACCTTCATTCTTT
* *
286002 TCTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCGCTTTTGTC-ATCTTTAAGCCTAA
66 TCTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACTTTTG-CGAT-TTTAAGCCCAA
***
286066 TATCGCTAGCCTTGAATCAGTGTATTGGCAC-CTTTATC
129 TATCGCTAGCCTTGAATCAGCACATTGGCACTC-TTATC
* * * * *
286104 ATTCTTCTCATCTTTAAGCCCAATATCGCTGG-CTGTGAGTCAGCATATTGGCACCTTCATTCTT
1 ATCCTTATCATCTTTAAGCCCAATATCACTGGCCT-TGAATCAGCACATTGGCACCTTCATTCTT
* ** * *
286168 TGCATCCTTAAGTCCAACATCAATAACCTTGAATCAGCAGATTGGCACTTTT
65 T---T-CTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACTTTT
286220 CCCATCTTCA
Statistics
Matches: 232, Mismatches: 39, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
164 46 0.20
165 89 0.38
166 4 0.02
167 3 0.01
170 2 0.01
171 88 0.38
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (166 bp):
ATCCTTATCATCTTTAAGCCCAATATCACTGGCCTTGAATCAGCACATTGGCACCTTCATTCTTT
TCTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACTTTTGCGATTTTAAGCCCAATA
TCGCTAGCCTTGAATCAGCACATTGGCACTCTTATC
Found at i:286909 original size:20 final size:21
Alignment explanation
Indices: 286869--286941 Score: 89
Period size: 20 Copynumber: 3.6 Consensus size: 21
286859 TTTTACAATT
*
286869 TGTATCGATACAAATAGTAAA
1 TGTATCGATACATATAGTAAA
*
286890 TGTATCAATACATA-AGTAAA
1 TGTATCGATACATATAGTAAA
*
286910 TGTATCGATACATAT-CTGAAA
1 TGTATCGATACATATAGT-AAA
286931 TGTA-CGATACA
1 TGTATCGATACA
286942 AAACCACCCT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
20 27 0.59
21 19 0.41
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.30
Consensus pattern (21 bp):
TGTATCGATACATATAGTAAA
Found at i:286991 original size:20 final size:20
Alignment explanation
Indices: 286966--287024 Score: 73
Period size: 22 Copynumber: 2.9 Consensus size: 20
286956 ATTGCAAAGG
286966 AAATGTATTGATACATTAAT
1 AAATGTATTGATACATTAAT
* *
286986 AAATGTATCGATACATACTTAT
1 AAATGTATTGATACAT--TAAT
*
287008 AATTGTATTGATACATT
1 AAATGTATTGATACATT
287025 TCTTATTCTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 16 0.48
22 17 0.52
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (20 bp):
AAATGTATTGATACATTAAT
Found at i:291123 original size:77 final size:76
Alignment explanation
Indices: 291010--291162 Score: 261
Period size: 77 Copynumber: 2.0 Consensus size: 76
291000 CTTAAGATTT
** *
291010 GAGGCTATTGTAATACAAAAAATTGATTCTAGAACTTCTAGAAGAGTTTGAGAAAGTGGAATTTA
1 GAGGCTATTACAATACAAAAAATTAATTCTAGAACTTCTAGAAGAGTTTGAGAAAGTGGAATTTA
291075 TCCATTTACCC
66 TCCATTTACCC
*
291086 GAGGCTATTACAATACAAAAAAATTAATTCTAGAACTTCTAGAAGAGTTTGAGAAGGTGGAATTT
1 GAGGCTATTACAATAC-AAAAAATTAATTCTAGAACTTCTAGAAGAGTTTGAGAAAGTGGAATTT
291151 ATCCATTTACCC
65 ATCCATTTACCC
291163 CAGGATAATA
Statistics
Matches: 72, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
76 14 0.19
77 58 0.81
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.31
Consensus pattern (76 bp):
GAGGCTATTACAATACAAAAAATTAATTCTAGAACTTCTAGAAGAGTTTGAGAAAGTGGAATTTA
TCCATTTACCC
Found at i:293538 original size:21 final size:19
Alignment explanation
Indices: 293496--293538 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
293486 TTAACTTTTC
* *
293496 AATTTTAATTTGTTTAGAT
1 AATTTTAATTAGATTAGAT
293515 AATTCTTAATTAGATTATGAT
1 AATT-TTAATTAGATTA-GAT
293536 AAT
1 AAT
293539 GAATAGACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 4 0.20
20 10 0.50
21 6 0.30
ACGTcount: A:0.37, C:0.02, G:0.09, T:0.51
Consensus pattern (19 bp):
AATTTTAATTAGATTAGAT
Found at i:294400 original size:13 final size:13
Alignment explanation
Indices: 294382--294406 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
294372 TACTATGAAC
294382 ATGTATTGATACA
1 ATGTATTGATACA
294395 ATGTATTGATAC
1 ATGTATTGATAC
294407 TAAGCAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (13 bp):
ATGTATTGATACA
Found at i:300099 original size:28 final size:27
Alignment explanation
Indices: 300066--300137 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 27
300056 AATAAAATTG
300066 GGGTTGGAGTATCCCCTAAAAAATAAC
1 GGGTTGGAGTATCCCCTAAAAAATAAC
* ***
300093 AGGGTTGGAGTATCACCTCGGAAATAAC
1 -GGGTTGGAGTATCCCCTAAAAAATAAC
*
300121 GGGATTAGAGTATCCCC
1 GGG-TTGGAGTATCCCC
300138 AATAGTGGAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
27 3 0.08
28 34 0.92
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.22
Consensus pattern (27 bp):
GGGTTGGAGTATCCCCTAAAAAATAAC
Found at i:300099 original size:107 final size:108
Alignment explanation
Indices: 299987--300215 Score: 320
Period size: 108 Copynumber: 2.1 Consensus size: 108
299977 GATAAAAACG
* * * **
299987 GGGTTGGAGCATCCCCTCGAAAATAACGGGGTTCGAGTATCCCTGAT-GAT-GAAAAATCGATGT
1 GGGTTGGAGTATCCCCTCGAAAATAACGGGATTAGAGTATCCCCAATAG-TGGAAAAATCGATGT
**
300050 TTT-GGAAATAAAATTGGGGTTGGAGTATCCCCTAAAAAATAACA
65 TTTAGG-AATAAAATCAGGGTTGGAGTATCCCCTAAAAAATAACA
* *
300094 GGGTTGGAGTATCACCTCGGAAATAACGGGATTAGAGTATCCCCAATAGTGGAAAAATCGATGTT
1 GGGTTGGAGTATCCCCTCGAAAATAACGGGATTAGAGTATCCCCAATAGTGGAAAAATCGATGTT
* *
300159 TTAGGAATAAAATCAGGGTTGGAGTATCCCCTCAAAAATAACG
66 TTAGGAATAAAATCAGGGTTGGAGTATCCCCTAAAAAATAACA
300202 GGGTTGGAGTATCC
1 GGGTTGGAGTATCC
300216 TCGATGGTAA
Statistics
Matches: 107, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
107 41 0.38
108 64 0.60
109 2 0.02
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.25
Consensus pattern (108 bp):
GGGTTGGAGTATCCCCTCGAAAATAACGGGATTAGAGTATCCCCAATAGTGGAAAAATCGATGTT
TTAGGAATAAAATCAGGGTTGGAGTATCCCCTAAAAAATAACA
Found at i:300232 original size:80 final size:80
Alignment explanation
Indices: 300092--300250 Score: 194
Period size: 80 Copynumber: 2.0 Consensus size: 80
300082 TAAAAAATAA
** * *
300092 CAGGGTTGGAGTATCACCTCGGAAATAACGGGATTAGAGTATCCCCAATAGTGGAAAAATCGATG
1 CAGGGTTGGAGTATCACCTCAAAAATAACGGGATTAGAGTATCCCCAATAGTGAAAAAATCGATA
**
300157 TTTTAGGAATAAAAT
66 TTTTAAAAATAAAAT
* * * * * *
300172 CAGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCTCGATGGT-AAATAAATCGAT
1 CAGGGTTGGAGTATCACCTCAAAAATAACGGGATTAGAGTATCCCCAATAGTGAAA-AAATCGAT
300236 ATTTTAAAAATAAAA
65 ATTTTAAAAATAAAA
300251 ACATCAATGA
Statistics
Matches: 66, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
79 2 0.03
80 64 0.97
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.26
Consensus pattern (80 bp):
CAGGGTTGGAGTATCACCTCAAAAATAACGGGATTAGAGTATCCCCAATAGTGAAAAAATCGATA
TTTTAAAAATAAAAT
Found at i:302558 original size:21 final size:20
Alignment explanation
Indices: 302506--302560 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 20
302496 TAAAACCCAG
*
302506 AATGTATCGATAC-AATGAA
1 AATGTATCGATACAAAAGAA
* *
302525 AACTGTATTGATACAAACAGTA
1 AA-TGTATCGATACAAA-AGAA
302547 AATGTATCGATACA
1 AATGTATCGATACA
302561 TTTACTTATG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 2 0.07
20 10 0.34
21 13 0.45
22 4 0.14
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.27
Consensus pattern (20 bp):
AATGTATCGATACAAAAGAA
Found at i:303618 original size:51 final size:51
Alignment explanation
Indices: 303541--303654 Score: 158
Period size: 51 Copynumber: 2.3 Consensus size: 51
303531 CTAAATACGA
* * * * *
303541 GGTTGGAGTAT-CTCGAGATGAAAAATTTAGCATTTTGGAAATAAGAATGG
1 GGTTGGAGTATCCCCAAGATGAAAAATTTAACATTTTGAAAATAAAAATGG
* *
303591 GGTTGGAGTATCCCCAAGATGAAAAATTTAATATTTTGAAAATAAAAATTG
1 GGTTGGAGTATCCCCAAGATGAAAAATTTAACATTTTGAAAATAAAAATGG
303642 GGTTGGAGTATCC
1 GGTTGGAGTATCC
303655 TTTCAGAAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
50 11 0.20
51 45 0.80
ACGTcount: A:0.37, C:0.08, G:0.25, T:0.31
Consensus pattern (51 bp):
GGTTGGAGTATCCCCAAGATGAAAAATTTAACATTTTGAAAATAAAAATGG
Found at i:303680 original size:79 final size:79
Alignment explanation
Indices: 303590--304261 Score: 592
Period size: 79 Copynumber: 8.4 Consensus size: 79
303580 AATAAGAATG
* **
303590 GGGTTGGAGTATCCCCAAGATGAAAAATTTAATATTTTGAAAATAAAAATTGGGTTGGAGTATCC
1 GGGTTGGAGTATCCCCGAGATGAAAAATTTAATATTTTGAAAATAAAAACAGGGTTGGAGTATCC
303655 TTTCAGAAATAACA
66 TTTCAGAAATAACA
* * * *
303669 GGGTTAGAGTATCCCCGAGATGAAAAATTTAATAGTTTGGAAATAAAAGCAGGGTTGGAGTATCC
1 GGGTTGGAGTATCCCCGAGATGAAAAATTTAATATTTTGAAAATAAAAACAGGGTTGGAGTAT-C
* * **
303734 CCTTCA-AAATTGATG
65 CTTTCAGAAA-TAACA
* * * ** *
303749 GGGTTGGAGTATCCCCAATATGAAAAATTTAATATTTTTAAAATAAAAATGGGGTTAGA-TATCC
1 GGGTTGGAGTATCCCCGAGATGAAAAATTTAATATTTTGAAAATAAAAACAGGGTTGGAGTATCC
*
303813 ATTC-GAAAATAACA
66 TTTCAG-AAATAACA
* * * * *
303827 GGGTTAGACTATCCCCGAGATGAAAATTTTAATATTTTTG-AATTAAAAACGGGGTTGGAGTATC
1 GGGTTGGAGTATCCCCGAGATGAAAAATTTAATA-TTTTGAAAATAAAAACAGGGTTGGAGTAT-
303891 CCCTCAGATATCCCCTAGGAAATAACA
64 -CCT----T-T---C-A-GAAATAACA
* * *
303918 GGGTTGGAATATCCCCGAGATGAAAATTTTAATATTTTTG-AAATAAAAA-TGAGGTTGGAGTAT
1 GGGTTGGAGTATCCCCGAGATGAAAAATTTAATA-TTTTGAAAATAAAAACAG-GGTTGGAGTAT
* * * *
303981 CCCTTCGGAAGTAACG
64 CCTTTCAGAAATAACA
* * *
303997 GGGTTGGAATATCCCCGAGATGAAAAA-TTGATATTTTTAGAAATAAAAAC-GAGGTTGGAGTAT
1 GGGTTGGAGTATCCCCGAGATGAAAAATTTAATATTTTGA-AAATAAAAACAG-GGTTGGAGTAT
* * * **
304060 CCCTTT-GGAATTGATG
64 -CCTTTCAGAAATAACA
** * *
304076 GGGTTGGAGTATCCCAAAGATGAAAAATTTAATATTTTGGAAATAAAAACAGGATTGGAGTATCC
1 GGGTTGGAGTATCCCCGAGATGAAAAATTTAATATTTTGAAAATAAAAACAGGGTTGGAGTATCC
* *
304141 CTTCAAAAATAACA
66 TTTCAGAAATAACA
* * * *
304155 GGGTTGGAGTATCCCCAAGATAAAAAATTTAATATTTTGGAAATAAAAACAAGGTTGGAGTAT-C
1 GGGTTGGAGTATCCCCGAGATGAAAAATTTAATATTTTGAAAATAAAAACAGGGTTGGAGTATCC
*
304219 TCCTC-GAAAATAACA
66 T-TTCAG-AAATAACA
* * *
304234 AGGTTGGAATATCCCCGAGATAAAAAAT
1 GGGTTGGAGTATCCCCGAGATGAAAAAT
304262 CGATATTTGT
Statistics
Matches: 490, Mismatches: 74, Indels: 58
0.79 0.12 0.09
Matches are distributed among these distances:
77 4 0.01
78 62 0.13
79 276 0.56
80 71 0.14
81 3 0.01
84 1 0.00
85 2 0.00
86 1 0.00
89 3 0.01
90 1 0.00
91 65 0.13
92 1 0.00
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (79 bp):
GGGTTGGAGTATCCCCGAGATGAAAAATTTAATATTTTGAAAATAAAAACAGGGTTGGAGTATCC
TTTCAGAAATAACA
Found at i:303883 original size:158 final size:159
Alignment explanation
Indices: 303587--304218 Score: 718
Period size: 158 Copynumber: 3.9 Consensus size: 159
303577 GGAAATAAGA
*
303587 ATGGGGTTGGAGTATCCCCAAGATGAAAAATTTAATATTTTGAAAATAAAAATTGGGTTGGAGTA
1 ATGGGGTTGGAGTATCCCCAAGATGAAAAATTTAATATTTTGAAAATAAAAATGGGGTTGGAGTA
* *
303652 TCCTTTC-AGAAATAACAGGGTTAGAGTATCCCCGAGATGAAAAATTTAATAGTTTGGAAATAAA
66 TCCCTTCGA-AAATAACAGGGTTAGAGTATCCCCGAGATGAAAAATTTAATATTTTGGAAATAAA
* *
303716 AGCAGGGTTGGAGTATCCCCTTCAAAATTG
130 AACAAGGTTGGAGTATCCCCTTCAAAATTG
* * *
303746 ATGGGGTTGGAGTATCCCCAATATGAAAAATTTAATATTTTTAAAATAAAAATGGGGTTAGA-TA
1 ATGGGGTTGGAGTATCCCCAAGATGAAAAATTTAATATTTTGAAAATAAAAATGGGGTTGGAGTA
* * * * *
303810 TCCATTCGAAAATAACAGGGTTAGACTATCCCCGAGATGAAAATTTTAATATTTTTGAATTAAAA
66 TCCCTTCGAAAATAACAGGGTTAGAGTATCCCCGAGATGAAAAATTTAATATTTTGGAAATAAAA
** *
303875 ACGGGGTTGGAGTATCCCC-TCAGATATCCCCTAGG
131 ACAAGGTTGGAGTATCCCCTTCA-AAAT----T--G
* * * * *
303910 AAATAACAGGGTTGGAATATCCCCGAGATGAAAATTTTAATATTTTTG-AAATAAAAATGAGGTT
1 --AT---GGGGTTGGAGTATCCCCAAGATGAAAAATTTAATA-TTTTGAAAATAAAAATGGGGTT
* * * * * * *
303974 GGAGTATCCCTTCGGAAGTAACGGGGTTGGAATATCCCCGAGATGAAAAA-TTGATATTTTTAGA
60 GGAGTATCCCTTCGAAAATAACAGGGTTAGAGTATCCCCGAGATGAAAAATTTAATA-TTTTGGA
* ***
304038 AATAAAAACGAGGTTGGAGTAT-CCCTTTGGAATTG
124 AATAAAAACAAGGTTGGAGTATCCCCTTCAAAATTG
* * ** *
304073 ATGGGGTTGGAGTATCCCAAAGATGAAAAATTTAATATTTTGGAAATAAAAACAGGATTGGAGTA
1 ATGGGGTTGGAGTATCCCCAAGATGAAAAATTTAATATTTTGAAAATAAAAATGGGGTTGGAGTA
* * * *
304138 TCCCTTCAAAAATAACAGGGTTGGAGTATCCCCAAGATAAAAAATTTAATATTTTGGAAATAAAA
66 TCCCTTCGAAAATAACAGGGTTAGAGTATCCCCGAGATGAAAAATTTAATATTTTGGAAATAAAA
304203 ACAAGGTTGGAGTATC
131 ACAAGGTTGGAGTATC
304219 TCCTCGAAAA
Statistics
Matches: 398, Mismatches: 55, Indels: 40
0.81 0.11 0.08
Matches are distributed among these distances:
157 8 0.02
158 191 0.48
159 64 0.16
161 2 0.01
162 1 0.00
163 1 0.00
164 1 0.00
165 1 0.00
166 2 0.01
169 57 0.14
170 70 0.18
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.29
Consensus pattern (159 bp):
ATGGGGTTGGAGTATCCCCAAGATGAAAAATTTAATATTTTGAAAATAAAAATGGGGTTGGAGTA
TCCCTTCGAAAATAACAGGGTTAGAGTATCCCCGAGATGAAAAATTTAATATTTTGGAAATAAAA
ACAAGGTTGGAGTATCCCCTTCAAAATTG
Found at i:304188 original size:328 final size:328
Alignment explanation
Indices: 303590--304223 Score: 864
Period size: 328 Copynumber: 1.9 Consensus size: 328
303580 AATAAGAATG
*
303590 GGGTTGGAGTATCCCCAAGATGAAAAATTTAATATTTTGAAAATAAAAATTGGGTTGGAGTATCC
1 GGGTTGGAATATCCCCAAGATGAAAAATTTAATATTTTGAAAATAAAAATTGGGTTGGAGTATCC
* * * * *
303655 TTTCAGAAATAACAGGGTTAGAGTATCCCCGAGATGAAAAATTTAATAGTTTGGAAATAAAAGCA
66 CTTCAGAAATAACAGGGTTAGAATATCCCCGAGATGAAAAATTGAATAGTTTAGAAATAAAAACA
* *
303720 GGGTTGGAGTATCCCCTTCAAAATTGATGGGGTTGGAGTATCCCCAATATGAAAAATTTAATATT
131 GGGTTGGAGTATCCCCTTCAAAATTGATGGGGTTGGAGTATCCCAAAGATGAAAAATTTAATATT
* ** * * * *
303785 TTTAAAATAAAAATGGGGTTAGATATCCATTCGAAAATAACAGGGTTAGACTATCCCCGAGATGA
196 TTGAAAATAAAAACAGGATTAGATATCCATTCAAAAATAACAGGGTTAGACTATCCCCAAGATAA
* * * **
303850 AAATTTTAATATTTTTGAATTAAAAACGGGGTTGGAGTATCCCCTCAGATATCCCCTAGGAAATA
261 AAAATTTAATATTTTGGAAATAAAAACAAGGTTGGAGTATCCCCTCAGATATCCCCTAGGAAATA
303915 ACA
326 ACA
* *
303918 GGGTTGGAATATCCCCGAGATGAAAATTTTAATATTTTTG-AAATAAAAA-TGAGGTTGGAGTAT
1 GGGTTGGAATATCCCCAAGATGAAAAATTTAATA-TTTTGAAAATAAAAATTG-GGTTGGAGTAT
* * * * *
303981 CCCTTCGGAAGTAACGGGGTTGGAATATCCCCGAGATGAAAAATTG-ATATTTTTAGAAATAAAA
64 CCCTTCAGAAATAACAGGGTTAGAATATCCCCGAGATGAAAAATTGAATA-GTTTAGAAATAAAA
***
304045 AC-GAGGTTGGAGTAT-CCCTTTGGAATTGATGGGGTTGGAGTATCCCAAAGATGAAAAATTTAA
128 ACAG-GGTTGGAGTATCCCCTTCAAAATTGATGGGGTTGGAGTATCCCAAAGATGAAAAATTTAA
* * * * *
304108 TATTTTGGAAATAAAAACAGGATTGGAGTATCCCTTCAAAAATAACAGGGTTGGAGTATCCCCAA
192 TATTTTGAAAATAAAAACAGGATTAGA-TATCCATTCAAAAATAACAGGGTTAGACTATCCCCAA
*
304173 GATAAAAAATTTAATATTTTGGAAATAAAAACAAGGTTGGAGTATCTCCTC
256 GATAAAAAATTTAATATTTTGGAAATAAAAACAAGGTTGGAGTATCCCCTC
304224 GAAAATAACA
Statistics
Matches: 265, Mismatches: 36, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
327 70 0.26
328 190 0.72
329 5 0.02
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.29
Consensus pattern (328 bp):
GGGTTGGAATATCCCCAAGATGAAAAATTTAATATTTTGAAAATAAAAATTGGGTTGGAGTATCC
CTTCAGAAATAACAGGGTTAGAATATCCCCGAGATGAAAAATTGAATAGTTTAGAAATAAAAACA
GGGTTGGAGTATCCCCTTCAAAATTGATGGGGTTGGAGTATCCCAAAGATGAAAAATTTAATATT
TTGAAAATAAAAACAGGATTAGATATCCATTCAAAAATAACAGGGTTAGACTATCCCCAAGATAA
AAAATTTAATATTTTGGAAATAAAAACAAGGTTGGAGTATCCCCTCAGATATCCCCTAGGAAATA
ACA
Found at i:304940 original size:33 final size:33
Alignment explanation
Indices: 304903--304969 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
304893 TTCAACGATT
304903 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
304936 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
304969 T
1 T
304970 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:304941 original size:13 final size:13
Alignment explanation
Indices: 304923--304947 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
304913 CATAAAATGT
304923 TGTATCGATACAA
1 TGTATCGATACAA
304936 TGTATCGATACA
1 TGTATCGATACA
304948 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:305028 original size:13 final size:13
Alignment explanation
Indices: 305010--305034 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
305000 ATTACTCAAA
305010 TGTATCGATACAT
1 TGTATCGATACAT
305023 TGTATCGATACA
1 TGTATCGATACA
305035 CCGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:305099 original size:52 final size:52
Alignment explanation
Indices: 305043--305162 Score: 204
Period size: 52 Copynumber: 2.3 Consensus size: 52
305033 CACCGATCTT
* *
305043 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATCTGCCCAGATGTATCGATACACTATAAAA
* *
305095 TGTATCGATACATGCAGGCCAATCTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATCTGCCCAGATGTATCGATACACTATAAAA
305147 TGTATCGATACATGCA
1 TGTATCGATACATGCA
305163 AGTAACTTTT
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 64 1.00
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATCTGCCCAGATGTATCGATACACTATAAAA
Found at i:313368 original size:30 final size:31
Alignment explanation
Indices: 313331--313415 Score: 109
Period size: 30 Copynumber: 2.8 Consensus size: 31
313321 CAAATACCTT
313331 TTCAAAGTCCACGACTCAGTGGCATTTTGTC
1 TTCAAAGTCCACGACTCAGTGGCATTTTGTC
* *
313362 -TCAAAGTCCACGACTTAGTGGCATTTTTTC
1 TTCAAAGTCCACGACTCAGTGGCATTTTGTC
* * * *
313392 TTTAAAGCCCACAACTCTGTGGCA
1 TTCAAAGTCCACGACTCAGTGGCA
313416 CACTTTTTCT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
30 28 0.61
31 18 0.39
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.32
Consensus pattern (31 bp):
TTCAAAGTCCACGACTCAGTGGCATTTTGTC
Found at i:313424 original size:33 final size:33
Alignment explanation
Indices: 313379--313824 Score: 402
Period size: 33 Copynumber: 13.4 Consensus size: 33
313369 CCACGACTTA
*
313379 GTGGCA-T-TTTTTCTTTAAAGCCCACAACTCT
1 GTGGCACTCTTTTTCTTTAAAGCCCACAACTCC
* **
313410 GTGGCACACTTTTTCTTTTTAAAGCCCACAACTTT
1 GTGGCACTCTTTTTC--TTTAAAGCCCACAACTCC
**
313445 GTGGCACTCTTTTTTCTTTTCAAAGCCCACAACTGA
1 GTGGCACTC-TTTTTC-TTT-AAAGCCCACAACTCC
*
313481 GTGGCAC-CTTTTTCTTTTTACAGCCCACAACTCC
1 GTGGCACTCTTTTTC--TTTAAAGCCCACAACTCC
313515 GTGGCACTCTTTTTCCCTTGTTAAAGCCCACAACTCC
1 GTGGCACTCTTTTT--C-T-TTAAAGCCCACAACTCC
* *
313552 GTGGCAC-CTTCTT-TTCAAAGCCCACAACTCC
1 GTGGCACTCTTTTTCTTTAAAGCCCACAACTCC
* * * *
313583 GTGGCAC-C-----CTTTTAAGTCCACGACTAC
1 GTGGCACTCTTTTTCTTTAAAGCCCACAACTCC
* *
313610 GTGGCACTCTTTTCCTTTAAAGCCCACAACTAC
1 GTGGCACTCTTTTTCTTTAAAGCCCACAACTCC
*
313643 GTGGCACTCTTTTCCTTCT-AAGCCCACAACTCC
1 GTGGCACTCTTTTTCTT-TAAAGCCCACAACTCC
*
313676 GTGGCACACTTTTTCCTTCT-AAGCCCACAACTCC
1 GTGGCACTCTTTTT-CTT-TAAAGCCCACAACTCC
313710 GTGGCACTCTTTTTCCTTCT-AAGCCCACAACTCC
1 GTGGCACTCTTTTT-CTT-TAAAGCCCACAACTCC
313744 GTGGCACTCTTTTTTCCCTTTTAAAGCCCACAACTCC
1 GTGGCACTC-TTTTT--C-TTTAAAGCCCACAACTCC
* * * *
313781 GTGGCAC-CTTGTTCTTTTTAAGTCCACAACTTC
1 GTGGCACTCTTTTTC-TTTAAAGCCCACAACTCC
313814 GTGGCA-TCTTT
1 GTGGCACTCTTT
313825 CACCCTTTCT
Statistics
Matches: 362, Mismatches: 28, Indels: 48
0.83 0.06 0.11
Matches are distributed among these distances:
27 20 0.06
28 1 0.00
31 30 0.08
32 1 0.00
33 90 0.25
34 87 0.24
35 49 0.14
36 37 0.10
37 47 0.13
ACGTcount: A:0.20, C:0.33, G:0.13, T:0.34
Consensus pattern (33 bp):
GTGGCACTCTTTTTCTTTAAAGCCCACAACTCC
Found at i:313498 original size:34 final size:33
Alignment explanation
Indices: 313386--313824 Score: 411
Period size: 34 Copynumber: 13.1 Consensus size: 33
313376 TTAGTGGCAT
*
313386 TTTTTC-TTTAAAGCCCACAACTCTGTGGCACAC
1 TTTTTCTTTTAAAGCCCACAACTCCGTGGCAC-C
**
313419 TTTTTCTTTTTAAAGCCCACAACTTTGTGGCACTC
1 TTTTTC-TTTTAAAGCCCACAACTCCGTGGCAC-C
**
313454 TTTTTTCTTTTCAAAGCCCACAACTGAGTGGCACC
1 -TTTTTCTTTT-AAAGCCCACAACTCCGTGGCACC
*
313489 TTTTTCTTTTTACAGCCCACAACTCCGTGGCACTC
1 TTTTTC-TTTTAAAGCCCACAACTCCGTGGCAC-C
313524 TTTTTCCCTTGTTAAAGCCCACAACTCCGTGGCACC
1 TTTTT--CTT-TTAAAGCCCACAACTCCGTGGCACC
313560 ---TTCTTTTCAAAGCCCACAACTCCGTGGCACC
1 TTTTTCTTTT-AAAGCCCACAACTCCGTGGCACC
* * *
313591 -----CTTTT-AAGTCCACGACTACGTGGCA-C
1 TTTTTCTTTTAAAGCCCACAACTCCGTGGCACC
* *
313617 TCTTTTCCTTTAAAGCCCACAACTACGTGGCACTC
1 T-TTTTCTTTTAAAGCCCACAACTCCGTGGCAC-C
* *
313652 TTTTCCTTCT-AAGCCCACAACTCCGTGGCACAC
1 TTTTTCTTTTAAAGCCCACAACTCCGTGGCAC-C
*
313685 TTTTTCCTTCT-AAGCCCACAACTCCGTGGCACTC
1 TTTTT-CTTTTAAAGCCCACAACTCCGTGGCAC-C
*
313719 TTTTTCCTTCT-AAGCCCACAACTCCGTGGCACTC
1 TTTTT-CTTTTAAAGCCCACAACTCCGTGGCAC-C
313753 TTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCACC
1 -TTTTT--CTTTTAAAGCCCACAACTCCGTGGCACC
* * * * *
313789 TTGTTCTTTTTAAGTCCACAACTTCGTGGCATC
1 TTTTTCTTTTAAAGCCCACAACTCCGTGGCACC
313822 TTT
1 TTT
313825 CACCCTTTCT
Statistics
Matches: 355, Mismatches: 28, Indels: 46
0.83 0.07 0.11
Matches are distributed among these distances:
26 1 0.00
27 17 0.05
29 5 0.01
30 2 0.01
31 26 0.07
32 4 0.01
33 77 0.22
34 92 0.26
35 51 0.14
36 35 0.10
37 45 0.13
ACGTcount: A:0.20, C:0.33, G:0.13, T:0.34
Consensus pattern (33 bp):
TTTTTCTTTTAAAGCCCACAACTCCGTGGCACC
Found at i:313742 original size:229 final size:231
Alignment explanation
Indices: 313365--313790 Score: 625
Period size: 229 Copynumber: 1.9 Consensus size: 231
313355 TTTTGTCTCA
* * *
313365 AAGTCCACGACTTAGTGGCATTTTTTCTTTAAAGCCCACAACTCTGTGGCACACTTTTTCTTTTT
1 AAGTCCACGACTTAGTGGCATTTTTCCTTTAAAGCCCACAACTCTGTGGCACACTTTTTCCTTCT
** * * *
313430 AAAGCCCACAACTTTGTGGCACTCTTTTTTCTTTTCAAAGCCCACAACTGAGTGGCACCTTTTTC
66 AAAGCCCACAACTCCGTGGCACACTTTTTTCTCTTCAAAGCCCACAACTCAGTGGCACCTTTTTC
* *
313495 TTTTTACAGCCCACAACTCCGTGGCACTC-TTTTTCCCTTGTTAAAGCCCACAACTCCGTGGCAC
131 CTTCTACAGCCCACAACTCCGTGGCACTCTTTTTTCCCTT-TTAAAGCCCACAACTCCGTGGCAC
313559 CTTCTTTTCAAAGCCCACAACTCCGTGGCACCCTTTT
195 CTTCTTTTCAAAGCCCACAACTCCGTGGCACCCTTTT
*
313596 AAGTCCACGAC-TACGTGGCACTCTTTTCCTTTAAAGCCCACAACTAC-GTGGCACTC-TTTTCC
1 AAGTCCACGACTTA-GTGGCA-T-TTTTCCTTTAAAGCCCACAACT-CTGTGGCACACTTTTTCC
* *
313658 TTCT-AAGCCCACAACTCCGTGGCACAC-TTTTTC-CTTCTAAGCCCACAACTCCGTGGCACTCT
62 TTCTAAAGCCCACAACTCCGTGGCACACTTTTTTCTCTTCAAAGCCCACAACTCAGTGGCAC-CT
313720 TTTTCCTTCTA-AGCCCACAACTCCGTGGCACTCTTTTTTCCCTTTTAAAGCCCACAACTCCGTG
126 TTTTCCTTCTACAGCCCACAACTCCGTGGCACTCTTTTTTCCCTTTTAAAGCCCACAACTCCGTG
313784 GCACCTT
191 GCACCTT
313791 GTTCTTTTTA
Statistics
Matches: 176, Mismatches: 13, Indels: 14
0.87 0.06 0.07
Matches are distributed among these distances:
229 71 0.40
230 29 0.16
231 37 0.21
232 9 0.05
233 29 0.16
234 1 0.01
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.32
Consensus pattern (231 bp):
AAGTCCACGACTTAGTGGCATTTTTCCTTTAAAGCCCACAACTCTGTGGCACACTTTTTCCTTCT
AAAGCCCACAACTCCGTGGCACACTTTTTTCTCTTCAAAGCCCACAACTCAGTGGCACCTTTTTC
CTTCTACAGCCCACAACTCCGTGGCACTCTTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCACC
TTCTTTTCAAAGCCCACAACTCCGTGGCACCCTTTT
Found at i:313869 original size:33 final size:33
Alignment explanation
Indices: 313828--314063 Score: 320
Period size: 33 Copynumber: 7.2 Consensus size: 33
313818 CATCTTTCAC
313828 CCTT-TCTAAAGCCCACACAAGTCGGTGGCAAA
1 CCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
313860 CCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
1 CCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
*
313893 CCCTTCTCTAAAACCCACACAAGTCGGTGGC-AA
1 -CCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
* * *
313926 CCTTCCTCTAAAGCCCACACAAGTTGGTGGTAATC
1 CCTT-CTCTAAAGCCCACACAAGTCGGTGGCAA-A
* *
313961 CCTTC-CCAAAGCCCACACAAGTCGGTGGCAAC
1 CCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
* *
313993 CCTTC-CCAAAGCCCACACAAGTTGGTGGC-AA
1 CCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
*
314024 CCATTCTCTAAAGCCCACACAAGTCGGTGGCAAC
1 CC-TTCTCTAAAGCCCACACAAGTCGGTGGCAAA
314058 CCTTCT
1 CCTTCT
314064 AAGCCCAATA
Statistics
Matches: 183, Mismatches: 13, Indels: 15
0.87 0.06 0.07
Matches are distributed among these distances:
31 3 0.02
32 40 0.22
33 102 0.56
34 34 0.19
35 4 0.02
ACGTcount: A:0.28, C:0.35, G:0.17, T:0.19
Consensus pattern (33 bp):
CCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
Found at i:313918 original size:67 final size:67
Alignment explanation
Indices: 313826--314063 Score: 351
Period size: 67 Copynumber: 3.6 Consensus size: 67
313816 GGCATCTTTC
*
313826 ACCCTT-TCTAAAGCCCACACAAGTCGGTGGCAAACCTTCTCTAAAGCCCACACAAGTCGGTGGC
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAACCTTCTCTAAAGCCCACACAAGTTGGTGGC
313890 AA
66 AA
*
313892 ACCCTTCTCTAAAACCCACACAAGTCGGTGGC-AACCTTCCTCTAAAGCCCACACAAGTTGGTGG
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAACCTT-CTCTAAAGCCCACACAAGTTGGTGG
*
313956 TAA
65 CAA
* * * *
313959 TCCCTTC-CCAAAGCCCACACAAGTCGGTGGCAACCCTTC-CCAAAGCCCACACAAGTTGGTGGC
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAACCTTCTCTAAAGCCCACACAAGTTGGTGGC
314022 -A
66 AA
* *
314023 ACCATTCTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCT
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAACCTTCT
314064 AAGCCCAATA
Statistics
Matches: 155, Mismatches: 12, Indels: 10
0.88 0.07 0.06
Matches are distributed among these distances:
64 6 0.04
65 53 0.34
66 35 0.23
67 61 0.39
ACGTcount: A:0.29, C:0.35, G:0.17, T:0.19
Consensus pattern (67 bp):
ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAACCTTCTCTAAAGCCCACACAAGTTGGTGGC
AA
Found at i:314121 original size:49 final size:49
Alignment explanation
Indices: 314063--314782 Score: 945
Period size: 49 Copynumber: 14.7 Consensus size: 49
314053 GCAACCCTTC
* *
314063 TAAGCCCAATATAGCTGGCCCTGAATCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
314112 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
314160 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
314203 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* * * * * *
314255 TAAGTCCAATGTAGCTGGCCTTGACTCAGCATATTGGCACATTCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
314304 TAAGTCCAATATAGCTGGCCTTGAATCAACATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
314353 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
314402 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
314451 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
314500 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
314549 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-CTTGCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTT-CATCTT
* *
314598 TAAGTCC-ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
314646 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
314695 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* *
314747 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTG
314783 ACATCCTTTT
Statistics
Matches: 583, Mismatches: 73, Indels: 27
0.85 0.11 0.04
Matches are distributed among these distances:
43 40 0.07
45 1 0.00
48 84 0.14
49 374 0.64
50 3 0.01
51 2 0.00
52 79 0.14
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.30
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:314392 original size:98 final size:98
Alignment explanation
Indices: 314063--314782 Score: 1125
Period size: 98 Copynumber: 7.4 Consensus size: 98
314053 GCAACCCTTC
* * * * * *
314063 TAAGCCCAATATAGCTGGCCCTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCT
* * *
314128 GGCCTTGAATCAGCACATTGGCACC-TCACCTT
66 GGCCTTGAATCAGCATATTGGCACCTTTATCTT
*
314160 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-T-----TTAAGTCCAATATAGCT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCT
314219 GGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
66 GGCCTTGAATCAGCATATTGGCACC-TTT--ATCTT
* *
314255 TAAGTCCAATGTAGCTGGCCTTGACTCAGCATATTGGCACATTCACCATTAAGTCCAATATAGCT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCT
*
314320 GGCCTTGAATCAACATATTGGCACCTTTATCTT
66 GGCCTTGAATCAGCATATTGGCACCTTTATCTT
*
314353 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGCCCAATATAGCT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCT
314418 GGCCTTGAATCAGCATATTGGCACCTTTATCTT
66 GGCCTTGAATCAGCATATTGGCACCTTTATCTT
314451 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCT
* *
314516 GGCCTTGAATCAGCATATTGGCACTTTTATCTA
66 GGCCTTGAATCAGCATATTGGCACCTTTATCTT
314549 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-CTTGCACCATTAAGTCC-ATATAGC
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTT-CACCATTAAGTCCAATATAGC
314612 TGGCCTTGAATCAGCATATTGGCACCTTTATCTT
65 TGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* *
314646 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCT
*
314711 GGCCTTGAATCAGCATATCGGCACCTTTTCCATCTT
66 GGCCTTGAATCAGCATATTGGCACC-TTT--ATCTT
* *
314747 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTG
314783 ACATCCTTTT
Statistics
Matches: 583, Mismatches: 24, Indels: 28
0.92 0.04 0.04
Matches are distributed among these distances:
91 41 0.07
93 1 0.00
95 42 0.07
96 2 0.00
97 130 0.22
98 281 0.48
99 3 0.01
100 3 0.01
101 80 0.14
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.30
Consensus pattern (98 bp):
TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCT
GGCCTTGAATCAGCATATTGGCACCTTTATCTT
Found at i:315732 original size:33 final size:33
Alignment explanation
Indices: 315695--315761 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
315685 TTCAACGATT
315695 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
315728 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
315761 T
1 T
315762 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:315733 original size:13 final size:13
Alignment explanation
Indices: 315715--315739 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
315705 CATAAAATGT
315715 TGTATCGATACAA
1 TGTATCGATACAA
315728 TGTATCGATACA
1 TGTATCGATACA
315740 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:315820 original size:13 final size:13
Alignment explanation
Indices: 315802--315826 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
315792 ATTACTCAAA
315802 TGTATCGATACAT
1 TGTATCGATACAT
315815 TGTATCGATACA
1 TGTATCGATACA
315827 CCGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:315891 original size:52 final size:52
Alignment explanation
Indices: 315835--315954 Score: 195
Period size: 52 Copynumber: 2.3 Consensus size: 52
315825 CACCGATCTT
* *
315835 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATCTGCCCAGATGTATCGATACACTATAAAA
* *
315887 TGTATCGATACATGCAGGCCAATCTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATCTGCCCAGATGTATCGATACACTATAAAA
*
315939 TATATCGATACATGCA
1 TGTATCGATACATGCA
315955 AGTAACTTTT
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 63 1.00
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATCTGCCCAGATGTATCGATACACTATAAAA
Found at i:316836 original size:13 final size:13
Alignment explanation
Indices: 316818--316843 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
316808 CAATTTTTTG
316818 TGTATCGATACAT
1 TGTATCGATACAT
316831 TGTATCGATACAT
1 TGTATCGATACAT
316844 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:316929 original size:20 final size:20
Alignment explanation
Indices: 316904--316976 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
316894 ATCTTTTTTT
316904 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
316924 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
316945 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
316965 ATGTATCGATAC
1 ATGTATCGATAC
316977 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:316955 original size:41 final size:42
Alignment explanation
Indices: 316882--316976 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
316872 CTGCCAAGAA
*
316882 ATGTATCGATACATCTTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
316924 ATGTATCGATACATC-TTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
316965 ATGTATCGATAC
1 ATGTATCGATAC
316977 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 37 0.71
42 15 0.29
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (42 bp):
ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
Found at i:319433 original size:13 final size:13
Alignment explanation
Indices: 319415--319453 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
319405 ATAATCACCC
*
319415 TGTATCGATACAG
1 TGTATCGATACAA
319428 TGTATCGATACAA
1 TGTATCGATACAA
319441 TGTATCGATACAA
1 TGTATCGATACAA
319454 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:319464 original size:20 final size:20
Alignment explanation
Indices: 319439--319517 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
319429 GTATCGATAC
319439 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
319459 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
*
319484 GATGTATCGATACACAA-AAA
1 AATGTATCGATACA-AAGAAA
*
319504 CATGTATCGATACA
1 AATGTATCGATACA
319518 TTTTGGACAT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
20 32 0.65
25 16 0.33
26 1 0.02
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Done.