Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004072.1 Hibiscus syriacus cultivar Beakdansim tig00008917_pilon, whole genome shotgun sequence
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: 127479
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:6204 original size:36 final size:36
Alignment explanation
Indices: 6164--6232 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
6154 TGTTACTCAA
*
6164 CGACTCGTTACTTGTTAAGTTCGTTAAAATTTTGTT
1 CGACTCGTTACTTGCTAAGTTCGTTAAAATTTTGTT
* *
6200 CGACTCGTTGCTTGCTAAGTTTGTTAAAATTTT
1 CGACTCGTTACTTGCTAAGTTCGTTAAAATTTT
6233 TCTTGATTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.22, C:0.14, G:0.17, T:0.46
Consensus pattern (36 bp):
CGACTCGTTACTTGCTAAGTTCGTTAAAATTTTGTT
Found at i:10160 original size:3 final size:3
Alignment explanation
Indices: 10152--10177 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
10142 GAGAAATCAA
10152 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
10178 AGAGTTTTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:12566 original size:21 final size:22
Alignment explanation
Indices: 12522--12566 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
12512 TTTAGTCTTA
* *
12522 AATTTATCTATTAATTTATCTT
1 AATTTATCTATTAATTAATATT
*
12544 AATTTAT-TTTTAATTAATATT
1 AATTTATCTATTAATTAATATT
12565 AA
1 AA
12567 AATTTAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (22 bp):
AATTTATCTATTAATTAATATT
Found at i:15928 original size:92 final size:92
Alignment explanation
Indices: 15771--15954 Score: 359
Period size: 92 Copynumber: 2.0 Consensus size: 92
15761 TTCATCCAAC
15771 TATCAATTGATTTGATTTAGTTAGATGAGACGTTAGATCTTTAAACAAGATTACTGATTTAAATC
1 TATCAATTGATTTGATTTAGTTAGATGAGACGTTAGATCTTTAAACAAGATTACTGATTTAAATC
15836 GTGACATTGTGAATAACAAATTAATTG
66 GTGACATTGTGAATAACAAATTAATTG
*
15863 TATCAATTGATTTGATTTAGTTAGATGAGACGTTAGATCTTTAAACAAGGTTACTGATTTAAATC
1 TATCAATTGATTTGATTTAGTTAGATGAGACGTTAGATCTTTAAACAAGATTACTGATTTAAATC
15928 GTGACATTGTGAATAACAAATTAATTG
66 GTGACATTGTGAATAACAAATTAATTG
15955 AAAGGTTTGT
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
92 91 1.00
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (92 bp):
TATCAATTGATTTGATTTAGTTAGATGAGACGTTAGATCTTTAAACAAGATTACTGATTTAAATC
GTGACATTGTGAATAACAAATTAATTG
Found at i:31336 original size:75 final size:75
Alignment explanation
Indices: 31134--31347 Score: 315
Period size: 76 Copynumber: 2.8 Consensus size: 75
31124 TTTAAACATT
* * * *
31134 ATATTTTATCTTTATTTTAGGTATTTTAGTTTAAATAGATTTTAGTATTTTAATTAAGTTTTAGG
1 ATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAG-TTTTAGTATTTTAATTAGGATTTAGA
*
31199 ATATTATTTTT
65 ATATTATTTTA
*
31210 ATATTTTATCTTTGTTTTAGGCATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAGGATTTAGA
1 ATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATA-GTTTTAGTATTTTAATTAGGATTTAGA
31275 ATATTATTTTAA
65 ATATTATTTT-A
*
31287 ATATTTT-T-TTTGTTTTAGGTATTTTAGTTTAAATAGTTTTAAGTGTTTTAATTAGGATTTA
1 ATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGTTTT-AGTATTTTAATTAGGATTTA
31348 AGATGTTTTA
Statistics
Matches: 127, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
74 5 0.04
75 45 0.35
76 69 0.54
77 8 0.06
ACGTcount: A:0.29, C:0.01, G:0.13, T:0.57
Consensus pattern (75 bp):
ATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGTTTTAGTATTTTAATTAGGATTTAGAA
TATTATTTTA
Found at i:31947 original size:17 final size:17
Alignment explanation
Indices: 31922--31955 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
31912 CTTTATCCCA
*
31922 ATTTATTTATTTTATTT
1 ATTTATTTATTTAATTT
*
31939 ATTTGTTTATTTAATTT
1 ATTTATTTATTTAATTT
31956 TTATTTCATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (17 bp):
ATTTATTTATTTAATTT
Found at i:35580 original size:23 final size:23
Alignment explanation
Indices: 35554--35623 Score: 131
Period size: 23 Copynumber: 3.0 Consensus size: 23
35544 AGATTCGGCT
35554 AGTTGGATGACAAATTAAGTAAA
1 AGTTGGATGACAAATTAAGTAAA
*
35577 AGTTGGGTGACAAATTAAGTAAA
1 AGTTGGATGACAAATTAAGTAAA
35600 AGTTGGATGACAAATTAAGTAAA
1 AGTTGGATGACAAATTAAGTAAA
35623 A
1 A
35624 AACAAATCAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.47, C:0.04, G:0.23, T:0.26
Consensus pattern (23 bp):
AGTTGGATGACAAATTAAGTAAA
Found at i:36861 original size:21 final size:21
Alignment explanation
Indices: 36806--36871 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
36796 CTACCAAAAT
36806 TTTACCAAACTTTGAAAAACA
1 TTTACCAAACTTTGAAAAACA
**
36827 TTTTTCAAA----G--AAACA
1 TTTACCAAACTTTGAAAAACA
36842 TTTACCAAACTTTGAAAAACA
1 TTTACCAAACTTTGAAAAACA
*
36863 TTTTCCAAA
1 TTTACCAAA
36872 GTTGGTTGCC
Statistics
Matches: 34, Mismatches: 5, Indels: 12
0.67 0.10 0.24
Matches are distributed among these distances:
15 12 0.35
17 1 0.03
19 1 0.03
21 20 0.59
ACGTcount: A:0.45, C:0.18, G:0.05, T:0.32
Consensus pattern (21 bp):
TTTACCAAACTTTGAAAAACA
Found at i:43224 original size:16 final size:16
Alignment explanation
Indices: 43203--43242 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
43193 CAATGTCAAT
43203 CAGCCTGTCTTCAGAA
1 CAGCCTGTCTTCAGAA
43219 CAGCCTGTCTTCAGAA
1 CAGCCTGTCTTCAGAA
*
43235 CTGCCTGT
1 CAGCCTGT
43243 TGTGGTTGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.20, C:0.33, G:0.20, T:0.28
Consensus pattern (16 bp):
CAGCCTGTCTTCAGAA
Found at i:43449 original size:36 final size:35
Alignment explanation
Indices: 43402--43598 Score: 261
Period size: 36 Copynumber: 5.5 Consensus size: 35
43392 ACGAAAGAAT
*
43402 GCATCGCACTTCCGATTCAAGTCAAACGGAAGGAA
1 GCATCGCACTTCCGATTCAAGTCGAACGGAAGGAA
43437 GCATCGACACTTCCGATTCAAGTCGAACGG-AGGAAA
1 GCATCG-CACTTCCGATTCAAGTCGAACGGAAGG-AA
* * *
43473 GCGTCGGCACTCCCGATTCAAGTCGAACGGAGGGAA
1 GCATC-GCACTTCCGATTCAAGTCGAACGGAAGGAA
*
43509 GCATTGGCACTTCCGATTCAAGTCGAACGGAAGGAA
1 GCA-TCGCACTTCCGATTCAAGTCGAACGGAAGGAA
* *
43545 GCATCAGCACTTCCGATTCAAGTTGAACGGAAGGAT
1 GCATC-GCACTTCCGATTCAAGTCGAACGGAAGGAA
* *
43581 GTATCGCACTTTCGATTC
1 GCATCGCACTTCCGATTC
43599 GAGTGTTCAT
Statistics
Matches: 143, Mismatches: 13, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
35 22 0.15
36 117 0.82
37 4 0.03
ACGTcount: A:0.29, C:0.25, G:0.26, T:0.20
Consensus pattern (35 bp):
GCATCGCACTTCCGATTCAAGTCGAACGGAAGGAA
Found at i:47339 original size:87 final size:87
Alignment explanation
Indices: 47194--47362 Score: 261
Period size: 87 Copynumber: 1.9 Consensus size: 87
47184 TGGTTTTATT
47194 TTTGAATAAATGGATTGTTAAAAGAATGGCCTTGATTGGATATCCAATATAGCTAAGTATCCTCA
1 TTTGAATAAATGGATTGTTAAAAGAATGGCCTTGATTGGATATCCAATATAGCTAAGTATCCTCA
47259 AAAAATGCATCAATTTTTCTCG
66 AAAAATGCATCAATTTTTCTCG
* * * *
47281 TTTGAATAAATGGATTGTTAAAAGAATGGTC-TGATTGTAT-TCTTAATATGGCTCAAGTATCCT
1 TTTGAATAAATGGATTGTTAAAAGAATGGCCTTGATTGGATATC-CAATATAGCT-AAGTATCCT
*
47344 CAAAGAATGCATCAATTTT
64 CAAAAAATGCATCAATTTT
47363 GCATTGCATT
Statistics
Matches: 75, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
85 2 0.03
86 16 0.21
87 57 0.76
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (87 bp):
TTTGAATAAATGGATTGTTAAAAGAATGGCCTTGATTGGATATCCAATATAGCTAAGTATCCTCA
AAAAATGCATCAATTTTTCTCG
Found at i:51240 original size:14 final size:14
Alignment explanation
Indices: 51223--51266 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 14
51213 AATAAAATTA
51223 AATAATTAAATAAT
1 AATAATTAAATAAT
51237 AATAA-TAAATAAAT
1 AATAATTAAAT-AAT
51251 AATAATATAATATAAT
1 AATAAT-TAA-ATAAT
51267 GTTTTTGTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 5 0.19
14 13 0.50
16 6 0.23
17 2 0.08
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
AATAATTAAATAAT
Found at i:51265 original size:17 final size:18
Alignment explanation
Indices: 51223--51265 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
51213 AATAAAATTA
51223 AATAAT-TAAATAATAAT
1 AATAATATAAATAATAAT
51240 AATAA-ATAAATAATAAT
1 AATAATATAAATAATAAT
51257 -ATAATATAA
1 AATAATATAA
51266 TGTTTTTGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 4 0.17
17 20 0.83
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AATAATATAAATAATAAT
Found at i:51680 original size:84 final size:84
Alignment explanation
Indices: 51582--52301 Score: 779
Period size: 84 Copynumber: 8.7 Consensus size: 84
51572 GAGTGTAATT
* * * *
51582 GAACTCGAAGGTCTTCGGTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTTCAAATGATGTGC
1 GAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGC
51647 CTTGGAGCTGAGCGTAGTC
66 CTTGGAGCTGAGCGTAGTC
** * * * * * *
51666 GAACTCGAAGGTCTTTGG-TCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATAC
1 GAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT-G
* * * *
51730 CCTCGAAGCTGAGTGTAATC
65 CCTTGGAGCTGAGCGTAGTC
** * *
51750 GAACTCGGGGGTC--T--TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGC
1 GAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGC
51811 CATT-GAGCTGAGCGTAGTC
66 C-TTGGAGCTGAGCGTAGTC
* *
51830 GAACTCAAAGGTCTTTTGGTTGGCAGATAACCATTCTCGACTTAAGTTATGCTGCAAATGATGTG
1 GAACTCGAAGGTC-TTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG
*** * *
51895 CCCTCAAAGCTGAGTGTAATC
65 -CCTTGGAGCTGAGCGTAGTC
** * *
51916 GAACTCGGGGGTC--T--TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGC
1 GAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGC
51977 CGTT-GAGCTGAGCGTAGTC
66 C-TTGGAGCTGAGCGTAGTC
* * * * * * * *
51996 GAACTCAAAGGTCTTTTGTTAGCAGACAACCCTTCTAGACTTAAATTGTGCTGCAAATGATATGC
1 GAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGC
52061 CTT-GAGCTGAGCGTAGTC
66 CTTGGAGCTGAGCGTAGTC
* * * * * * *
52079 GAACTCAAAAGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGC
1 GAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGC
52144 CTTGGAGCTGAGCGTAGTC
66 CTTGGAGCTGAGCGTAGTC
52163 GAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGC
1 GAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-
* * * *
52228 CCTCGAAGCTGAGTGTAATC
65 CCTTGGAGCTGAGCGTAGTC
** * * *
52248 GAACTCGGGGGTC--T--TTGGCAGATAGCCCTTCTTGACTTAAGCTATGCTGCAAAT
1 GAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAAT
52302 AGTTTGTTTG
Statistics
Matches: 537, Mismatches: 82, Indels: 37
0.82 0.12 0.06
Matches are distributed among these distances:
80 48 0.09
81 117 0.22
82 2 0.00
83 119 0.22
84 156 0.29
85 71 0.13
86 24 0.04
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.29
Consensus pattern (84 bp):
GAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGC
CTTGGAGCTGAGCGTAGTC
Found at i:51951 original size:166 final size:165
Alignment explanation
Indices: 51600--52301 Score: 1000
Period size: 166 Copynumber: 4.2 Consensus size: 165
51590 AGGTCTTCGG
*
51600 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTTCAAATGATGTGCCTTGGAGCTGAGCGTAGT
1 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
* ** * * * *
51665 CGAACTCGAAGGTCTTTGG-TCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATA
66 CGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATG
51729 CCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCT
131 CCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCT
51764 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCATT-GAGCTGAGCGTAG
1 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCC-TTGGAGCTGAGCGTAG
* * *
51828 TCGAACTCAAAGGTCTTTTGGTTGGCAGATAACCATTCTCGACTTAAGTTATGCTGCAAATGATG
65 TCGAACTCAAAGGTC-TTTGGTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATA
*
51893 TGCCCTCAAAGCTGAGTGTAATCGAACTCGGGGGTCT
129 TGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCT
51930 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTT-GAGCTGAGCGTAG
1 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCC-TTGGAGCTGAGCGTAG
* * * * *
51994 TCGAACTCAAAGGTCTTTTGTTAGCAGACAACCCTTCTAGACTTAAATTGTGCTGCAAATGATAT
65 TCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATAT
* * * ****
52059 G-CCTTG-AGCTGAGCGTAGTCGAACTCAAAAGTCTTTT
130 GCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTC---T
* * * * * *
52096 GTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAG
1 -TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
* * *
52161 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
65 TCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATAT
52226 GCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCT
130 GCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCT
*
52262 TTGGCAGATAGCCCTTCTTGACTTAAGCTATGCTGCAAAT
1 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAAT
52302 AGTTTGTTTG
Statistics
Matches: 473, Mismatches: 55, Indels: 19
0.86 0.10 0.03
Matches are distributed among these distances:
163 21 0.04
164 77 0.16
165 85 0.18
166 152 0.32
167 113 0.24
168 4 0.01
169 21 0.04
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (165 bp):
TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
CGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATG
CCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCT
Found at i:55735 original size:18 final size:19
Alignment explanation
Indices: 55694--55738 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
55684 AGTTAATGTG
55694 AATGCAAAGAAAATAACAA
1 AATGCAAAGAAAATAACAA
*
55713 AATGCAAAGAAAATAA-GA
1 AATGCAAAGAAAATAACAA
55731 AATGCAAA
1 AATGCAAA
55739 ATGTCTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.67, C:0.09, G:0.13, T:0.11
Consensus pattern (19 bp):
AATGCAAAGAAAATAACAA
Found at i:59893 original size:13 final size:13
Alignment explanation
Indices: 59871--59915 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
59861 GCAAAAGAAA
59871 TAAA-AATTAAAT
1 TAAATAATTAAAT
59883 TAAATAATTAAAT
1 TAAATAATTAAAT
*
59896 AATAATAA-TAAA-
1 TA-AATAATTAAAT
59908 TAAATAAT
1 TAAATAAT
59916 AATATAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
11 5 0.18
12 5 0.18
13 13 0.46
14 5 0.18
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
TAAATAATTAAAT
Found at i:59927 original size:17 final size:18
Alignment explanation
Indices: 59885--59927 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
59875 AATTAAATTA
59885 AATAAT-TAAATAATAAT
1 AATAATATAAATAATAAT
59902 AATAA-ATAAATAATAAT
1 AATAATATAAATAATAAT
59919 -ATAATATAA
1 AATAATATAA
59928 TGTTTTTGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 4 0.17
17 20 0.83
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AATAATATAAATAATAAT
Found at i:61190 original size:19 final size:18
Alignment explanation
Indices: 61147--61190 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
61137 CCAGTAATCT
*
61147 TATTCCCTGGTAATCTTA
1 TATTCCCTGGTAATATTA
*
61165 CATTTCCACTGGTAATATTA
1 TA-TTCC-CTGGTAATATTA
61185 TATTCC
1 TATTCC
61191 GTTAACCAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
18 1 0.05
19 8 0.38
20 12 0.57
ACGTcount: A:0.25, C:0.23, G:0.09, T:0.43
Consensus pattern (18 bp):
TATTCCCTGGTAATATTA
Found at i:62933 original size:3 final size:3
Alignment explanation
Indices: 62925--62976 Score: 97
Period size: 3 Copynumber: 17.7 Consensus size: 3
62915 TCTTAAAAAC
62925 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
62972 ATA AT
1 ATA AT
62977 CAAACTAAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 46 0.96
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:67862 original size:18 final size:19
Alignment explanation
Indices: 67827--67864 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
67817 CACGGAATGT
67827 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
67847 AAGATTACCA-GGGAATAA
1 AAGATTACCAGGGGAATAA
67865 GATTACTGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.44
20 10 0.56
ACGTcount: A:0.47, C:0.11, G:0.24, T:0.18
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:67877 original size:15 final size:16
Alignment explanation
Indices: 67826--67870 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 16
67816 TCACGGAATG
67826 TAAGATTACCAGTGGGAA
1 TAAGATTACCA--GGGAA
67844 TAAAAGATTACCAGGGAA
1 T--AAGATTACCAGGGAA
67862 TAAGATTAC
1 TAAGATTAC
67871 TGGGAATGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
16 8 0.32
18 7 0.28
20 10 0.40
ACGTcount: A:0.44, C:0.11, G:0.22, T:0.22
Consensus pattern (16 bp):
TAAGATTACCAGGGAA
Found at i:68752 original size:41 final size:38
Alignment explanation
Indices: 68707--68781 Score: 89
Period size: 40 Copynumber: 1.9 Consensus size: 38
68697 AGAAAATATT
* * *
68707 TATATATT-TTCTTTAAAAAATTTAAATTCATAAAAATTA
1 TATATATTCTTTTTTAAAAAATTGAAAAT-ATAAAAA-TA
*
68746 TATATATTCTTTTTTACAAAATTGAAAATATAAAAA
1 TATATATTCTTTTTTAAAAAATTGAAAATATAAAAA
68782 AGTTTAATGA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 15 0.48
40 16 0.52
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.44
Consensus pattern (38 bp):
TATATATTCTTTTTTAAAAAATTGAAAATATAAAAATA
Found at i:68779 original size:39 final size:38
Alignment explanation
Indices: 68699--68781 Score: 96
Period size: 39 Copynumber: 2.1 Consensus size: 38
68689 AACAAGTTAG
* *
68699 AAAATATTTATATATTTTCTTTAAAAAATTTAAATTCAT
1 AAAA-ATTTATATATTTTCTTTAAAAAATTGAAAATCAT
* *
68738 AAAAATTATATATATTCTTTTTTACAAAATTGAAAAT-AT
1 AAAAATT-TATATATT-TTCTTTAAAAAATTGAAAATCAT
68777 AAAAA
1 AAAAA
68782 AGTTTAATGA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
38 3 0.08
39 19 0.50
40 16 0.42
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.43
Consensus pattern (38 bp):
AAAAATTTATATATTTTCTTTAAAAAATTGAAAATCAT
Found at i:69766 original size:7 final size:7
Alignment explanation
Indices: 69754--69779 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
69744 TCATGTGGCT
69754 TGCCAAA
1 TGCCAAA
69761 TGCCAAA
1 TGCCAAA
69768 TGCCAAA
1 TGCCAAA
69775 TGCCA
1 TGCCA
69780 TCGGAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.38, C:0.31, G:0.15, T:0.15
Consensus pattern (7 bp):
TGCCAAA
Found at i:70591 original size:20 final size:19
Alignment explanation
Indices: 70509--70632 Score: 81
Period size: 20 Copynumber: 6.3 Consensus size: 19
70499 AAATGACCAA
* **
70509 CAAATTCGCAATGCGATCT
1 CAAATTCGCAACGCGAAGT
* *
70528 CAAATTCGCAACACGAATT
1 CAAATTCGCAACGCGAAGT
* *
70547 CCAATTTCGCAACTC--AGTTT
1 -CAAATTCGCAACGCGAAG--T
70567 CCAAATTCGCAACGCGATAGT
1 -CAAATTCGCAACGCGA-AGT
***
70588 CAAATTCGCAATATAGAAGT
1 CAAATTCGCAA-CGCGAAGT
70608 CAAATTCGCAACGCGAAAGT
1 CAAATTCGCAACGCG-AAGT
70628 CAAAT
1 CAAAT
70633 GTTTTTACGC
Statistics
Matches: 82, Mismatches: 15, Indels: 15
0.73 0.13 0.13
Matches are distributed among these distances:
18 1 0.01
19 16 0.20
20 60 0.73
21 3 0.04
23 2 0.02
ACGTcount: A:0.37, C:0.25, G:0.15, T:0.23
Consensus pattern (19 bp):
CAAATTCGCAACGCGAAGT
Found at i:71106 original size:19 final size:20
Alignment explanation
Indices: 71066--71108 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
71056 AATACCAAAT
71066 TCGCAACGCGAAAATGAAAA
1 TCGCAACGCGAAAATGAAAA
*
71086 TCGCAACGCGAAACT-AAAA
1 TCGCAACGCGAAAATGAAAA
71105 TCGC
1 TCGC
71109 GTTGCGAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.44, C:0.26, G:0.19, T:0.12
Consensus pattern (20 bp):
TCGCAACGCGAAAATGAAAA
Found at i:72842 original size:21 final size:21
Alignment explanation
Indices: 72818--72863 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
72808 GTTAGGGGAA
*
72818 TTACCACATGAGGTCGGTGCT
1 TTACCACATGAGGTCGGTACT
**
72839 TTACGTCATGAGGTCGGTACT
1 TTACCACATGAGGTCGGTACT
72860 TTAC
1 TTAC
72864 GTGAAGATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.20, C:0.22, G:0.26, T:0.33
Consensus pattern (21 bp):
TTACCACATGAGGTCGGTACT
Found at i:72864 original size:21 final size:21
Alignment explanation
Indices: 72824--72865 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
72814 GGAATTACCA
*
72824 CATGAGGTCGGTGCTTTACGT
1 CATGAGGTCGGTACTTTACGT
72845 CATGAGGTCGGTACTTTACGT
1 CATGAGGTCGGTACTTTACGT
72866 GAAGATAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.17, C:0.19, G:0.31, T:0.33
Consensus pattern (21 bp):
CATGAGGTCGGTACTTTACGT
Found at i:74754 original size:14 final size:14
Alignment explanation
Indices: 74735--74770 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
74725 TTTGATTAAT
74735 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
74749 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
74763 TGATTTGT
1 TGATTTGT
74771 TTAATTTGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:75203 original size:39 final size:39
Alignment explanation
Indices: 75160--75245 Score: 163
Period size: 39 Copynumber: 2.2 Consensus size: 39
75150 AATGTTGTAA
75160 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGG
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGG
*
75199 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTGG
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGG
75238 ATTTTGAT
1 ATTTTGAT
75246 GAGCATCGGA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.17, C:0.15, G:0.20, T:0.48
Consensus pattern (39 bp):
ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGG
Found at i:75581 original size:18 final size:18
Alignment explanation
Indices: 75558--75594 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
75548 CGAAATTTAT
75558 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
75576 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
75594 A
1 A
75595 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:76038 original size:25 final size:25
Alignment explanation
Indices: 75981--76030 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
75971 ATTATTTTTC
* *
75981 CAAATAATGTACCTATAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
76006 CAAATAATGTACCCACAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
76031 TAATTAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.44, C:0.20, G:0.08, T:0.28
Consensus pattern (25 bp):
CAAATAATGTACCCACAACAATGTT
Found at i:76119 original size:20 final size:20
Alignment explanation
Indices: 76094--76160 Score: 91
Period size: 20 Copynumber: 3.4 Consensus size: 20
76084 TGTTGAAGGT
*
76094 AAATTCGCAATGCGAATGTC
1 AAATTCGCAACGCGAATGTC
*
76114 AAATTCGCTACGCG-ATAGTC
1 AAATTCGCAACGCGAAT-GTC
*
76134 AAATTCGCAACGCGAAAGTC
1 AAATTCGCAACGCGAATGTC
76154 AAATTCG
1 AAATTCG
76161 GTTTGCGATT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
19 2 0.05
20 38 0.93
21 1 0.02
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.22
Consensus pattern (20 bp):
AAATTCGCAACGCGAATGTC
Found at i:76233 original size:20 final size:20
Alignment explanation
Indices: 76210--76247 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
76200 TTATTTCGTG
*
76210 TTGCGAATTTGACTTTCGCA
1 TTGCAAATTTGACTTTCGCA
76230 TTGCAAATTTGACTTTCG
1 TTGCAAATTTGACTTTCG
76248 TGTTGATCGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.18, G:0.18, T:0.42
Consensus pattern (20 bp):
TTGCAAATTTGACTTTCGCA
Found at i:76553 original size:12 final size:12
Alignment explanation
Indices: 76538--76578 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
76528 AAGCCGGTTG
*
76538 TGATTGGGATTT
1 TGATTGCGATTT
**
76550 TGATTTTGATTT
1 TGATTGCGATTT
76562 TGATTGCGATTT
1 TGATTGCGATTT
76574 TGATT
1 TGATT
76579 TCCTTTTGCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.17, C:0.02, G:0.24, T:0.56
Consensus pattern (12 bp):
TGATTGCGATTT
Found at i:76554 original size:6 final size:6
Alignment explanation
Indices: 76545--76579 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
76535 TTGTGATTGG
**
76545 GATTTT GATTTT GATTTT GATTGC GATTTT GATTT
1 GATTTT GATTTT GATTTT GATTTT GATTTT GATTT
76580 CCTTTTGCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.17, C:0.03, G:0.20, T:0.60
Consensus pattern (6 bp):
GATTTT
Found at i:78848 original size:24 final size:24
Alignment explanation
Indices: 78814--78867 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
78804 CCATCACATC
78814 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
78838 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
78862 ATCAAA
1 ATCAAA
78868 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:78881 original size:24 final size:24
Alignment explanation
Indices: 78814--78881 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
78804 CCATCACATC
* * *
78814 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
78838 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
78862 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
78882 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:79816 original size:19 final size:19
Alignment explanation
Indices: 79792--79860 Score: 93
Period size: 19 Copynumber: 3.6 Consensus size: 19
79782 TAAATTCACG
79792 TTGCGAATTTGAAATTCAA
1 TTGCGAATTTGAAATTCAA
*
79811 TTGCGAATTTGAAATTCAT
1 TTGCGAATTTGAAATTCAA
** *
79830 TTGCGAATTTGACTTTCGCA
1 TTGCGAATTTGAAATTC-AA
79850 TTGCGAATTTG
1 TTGCGAATTTG
79861 GAAAATCGCA
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
19 33 0.75
20 11 0.25
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.41
Consensus pattern (19 bp):
TTGCGAATTTGAAATTCAA
Found at i:79853 original size:39 final size:39
Alignment explanation
Indices: 79783--79860 Score: 104
Period size: 39 Copynumber: 2.0 Consensus size: 39
79773 TTGTGAAATT
79783 AAATTCACGTTGCGAATTTGAAATTCAATTGCGAATTTG
1 AAATTCACGTTGCGAATTTGAAATTCAATTGCGAATTTG
* ** *
79822 AAATTCA-TTTGCGAATTTGACTTTCGCATTGCGAATTTG
1 AAATTCACGTTGCGAATTTGAAATTC-AATTGCGAATTTG
79861 GAAAATCGCA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 15 0.44
39 19 0.56
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.38
Consensus pattern (39 bp):
AAATTCACGTTGCGAATTTGAAATTCAATTGCGAATTTG
Found at i:79933 original size:20 final size:20
Alignment explanation
Indices: 79884--79937 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
79874 CGATTTACAT
79884 ATTCGCGTTGCGAAATTGGA
1 ATTCGCGTTGCGAAATTGGA
* *
79904 A-ACTGGGTTGCGAAATTGGA
1 ATTC-GCGTTGCGAAATTGGA
*
79924 ATTCGTGTTGCGAA
1 ATTCGCGTTGCGAA
79938 TTTGTTGGTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 1 0.04
20 26 0.93
21 1 0.04
ACGTcount: A:0.26, C:0.13, G:0.31, T:0.30
Consensus pattern (20 bp):
ATTCGCGTTGCGAAATTGGA
Found at i:80345 original size:21 final size:21
Alignment explanation
Indices: 80321--80361 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
80311 TCATAACCAC
*
80321 AAGCATTAAACACTAAACCTT
1 AAGCATCAAACACTAAACCTT
* *
80342 AAGCCTCAAACATTAAACCT
1 AAGCATCAAACACTAAACCT
80362 AACCCCTAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.46, C:0.27, G:0.05, T:0.22
Consensus pattern (21 bp):
AAGCATCAAACACTAAACCTT
Found at i:80375 original size:27 final size:28
Alignment explanation
Indices: 80299--80379 Score: 85
Period size: 27 Copynumber: 3.0 Consensus size: 28
80289 GCATTACACC
* * * *
80299 TTAAACACTAAATCAT-AACCACAAGCA
1 TTAAACACTAAACCCTAAACCTCAAACA
* *
80326 TTAAACACTAAACCTTAAGCCTCAAACA
1 TTAAACACTAAACCCTAAACCTCAAACA
*
80354 TTAAAC-CTAACCCCTAAACCTCAAAC
1 TTAAACACTAAACCCTAAACCTCAAAC
80380 CATAACCTCT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
27 31 0.69
28 14 0.31
ACGTcount: A:0.47, C:0.31, G:0.02, T:0.20
Consensus pattern (28 bp):
TTAAACACTAAACCCTAAACCTCAAACA
Found at i:80709 original size:21 final size:20
Alignment explanation
Indices: 80685--80733 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
80675 TAAACTAAAC
*
80685 CTTAAACCATAAATCATATAT
1 CTTAAACCATAAAGCATA-AT
*
80706 CTTAAACCCTAAAGCATAAT
1 CTTAAACCATAAAGCATAAT
*
80726 CCTAAACC
1 CTTAAACC
80734 TTTTAAACCT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 9 0.36
21 16 0.64
ACGTcount: A:0.45, C:0.27, G:0.02, T:0.27
Consensus pattern (20 bp):
CTTAAACCATAAAGCATAAT
Found at i:80873 original size:7 final size:7
Alignment explanation
Indices: 80863--80902 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
80853 ACTCAAATCG
80863 ATAAACT
1 ATAAACT
80870 ATAAACT
1 ATAAACT
*
80877 ATAAAAT
1 ATAAACT
*
80884 CTAAACT
1 ATAAACT
*
80891 ATAAACC
1 ATAAACT
80898 ATAAA
1 ATAAA
80903 TCCATAAACC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.60, C:0.15, G:0.00, T:0.25
Consensus pattern (7 bp):
ATAAACT
Found at i:80958 original size:19 final size:19
Alignment explanation
Indices: 80943--81024 Score: 83
Period size: 20 Copynumber: 4.2 Consensus size: 19
80933 CCCTAAATCC
*
80943 TAAATCAAACTTTAAAACA
1 TAAATCAAACCTTAAAACA
* * *
80962 TAAATCATAACCCTAAATCT
1 TAAATCA-AACCTTAAAACA
*
80982 TAAATCATACCTTAAAACA
1 TAAATCAAACCTTAAAACA
* *
81001 TAAATCATAACCCTAAACCA
1 TAAATCA-AACCTTAAAACA
81021 TAAA
1 TAAA
81025 ACCTAAATCT
Statistics
Matches: 50, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
19 22 0.44
20 28 0.56
ACGTcount: A:0.52, C:0.22, G:0.00, T:0.26
Consensus pattern (19 bp):
TAAATCAAACCTTAAAACA
Found at i:80976 original size:39 final size:39
Alignment explanation
Indices: 80931--81017 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
80921 ATATACCATA
*
80931 AACCCTAAATCCTAAATCAAACTTTAAAACATAAATCAT
1 AACCCTAAATCCTAAATCAAACCTTAAAACATAAATCAT
* *
80970 AACCCTAAATCTTAAATCATACCTTAAAACATAAATCAT
1 AACCCTAAATCCTAAATCAAACCTTAAAACATAAATCAT
81009 AACCCTAAA
1 AACCCTAAA
81018 CCATAAAACC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.25
Consensus pattern (39 bp):
AACCCTAAATCCTAAATCAAACCTTAAAACATAAATCAT
Found at i:81330 original size:16 final size:16
Alignment explanation
Indices: 81301--81348 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
81291 GTTTTAAAAG
* *
81301 TATTGATAATATATTT
1 TATTTATAAAATATTT
81317 T-TTTAATAAAATATTT
1 TATTT-ATAAAATATTT
81333 TATTTATAAAAATATT
1 TATTTAT-AAAATATT
81349 ATTAATGAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 2 0.07
16 14 0.52
17 11 0.41
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (16 bp):
TATTTATAAAATATTT
Found at i:81617 original size:25 final size:25
Alignment explanation
Indices: 81547--81609 Score: 126
Period size: 25 Copynumber: 2.5 Consensus size: 25
81537 AATTTTAAAG
81547 TACACTTTTAAAAATTCTTTTCTAT
1 TACACTTTTAAAAATTCTTTTCTAT
81572 TACACTTTTAAAAATTCTTTTCTAT
1 TACACTTTTAAAAATTCTTTTCTAT
81597 TACACTTTTAAAA
1 TACACTTTTAAAA
81610 GTTATTTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.35, C:0.16, G:0.00, T:0.49
Consensus pattern (25 bp):
TACACTTTTAAAAATTCTTTTCTAT
Found at i:84965 original size:19 final size:20
Alignment explanation
Indices: 84924--84967 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
84914 CTTTTTCTTT
84924 AAAACATTTGATTTCCTTAA
1 AAAACATTTGATTTCCTTAA
84944 AAAACATTTGATTTCCTTAA
1 AAAACATTTGATTTCCTTAA
84964 AAAA
1 AAAA
84968 GTGGCATCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.36
Consensus pattern (20 bp):
AAAACATTTGATTTCCTTAA
Found at i:86374 original size:24 final size:24
Alignment explanation
Indices: 86339--86390 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
86329 AGGAGTTGTT
*
86339 TTTGTTTCCTTCTAGTAGGAA-GTG
1 TTTGTTTCCTTC-AGAAGGAAGGTG
86363 TTTGTTGT-CTTCAGAAGGAAGGTG
1 TTTGTT-TCCTTCAGAAGGAAGGTG
86387 TTTG
1 TTTG
86391 AAAGCAAGCC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 7 0.28
24 17 0.68
25 1 0.04
ACGTcount: A:0.17, C:0.10, G:0.29, T:0.44
Consensus pattern (24 bp):
TTTGTTTCCTTCAGAAGGAAGGTG
Found at i:86751 original size:59 final size:60
Alignment explanation
Indices: 86669--86781 Score: 142
Period size: 59 Copynumber: 1.9 Consensus size: 60
86659 ACCAATGATT
*
86669 ATCATTCCAAATTAGTAATCAAAC-TTTCAAACA-TTTAATTTCAT-TCCCAAACTGTAACA
1 ATCATTCCAAATTAGTAACCAAACTTTTCAAACATTTTAA-TT-ATGTCCCAAACTGTAACA
* ** *
86728 ATCATTCTAAATTAGTCCCCAAACTTTTTAAACATTTTAATTATGTCCCAAACT
1 ATCATTCCAAATTAGTAACCAAACTTTTCAAACATTTTAATTATGTCCCAAACT
86782 ATACATATAT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
59 22 0.48
60 19 0.41
61 5 0.11
ACGTcount: A:0.38, C:0.22, G:0.04, T:0.36
Consensus pattern (60 bp):
ATCATTCCAAATTAGTAACCAAACTTTTCAAACATTTTAATTATGTCCCAAACTGTAACA
Found at i:87053 original size:60 final size:60
Alignment explanation
Indices: 86914--87060 Score: 145
Period size: 60 Copynumber: 2.5 Consensus size: 60
86904 TGGATTTGGG
* * * *
86914 GATGAAATTGGAATATGT-AAAAGTTTATGGACCGATTTAGAAAAAGAGTCATAGTTTATG
1 GATGAAATTGGAATAT-TCAAAAGTTTAAGAACCAATTTAGAAAAAGAGTCATAGTTTATA
* * * * ** * *
86974 GATAAAATT-AAAAATTTCAAAAGTTTAAGAACTAATTTAGAATGAGATTCATAGTTTGTA
1 GATGAAATTGGAATA-TTCAAAAGTTTAAGAACCAATTTAGAAAAAGAGTCATAGTTTATA
*
87034 GATGAAATTGGAATATTCAAAGGTTTA
1 GATGAAATTGGAATATTCAAAAGTTTA
87061 TATATCAATT
Statistics
Matches: 68, Mismatches: 16, Indels: 6
0.76 0.18 0.07
Matches are distributed among these distances:
59 4 0.06
60 61 0.90
61 3 0.04
ACGTcount: A:0.43, C:0.05, G:0.19, T:0.33
Consensus pattern (60 bp):
GATGAAATTGGAATATTCAAAAGTTTAAGAACCAATTTAGAAAAAGAGTCATAGTTTATA
Found at i:88906 original size:20 final size:20
Alignment explanation
Indices: 88876--88950 Score: 69
Period size: 20 Copynumber: 3.7 Consensus size: 20
88866 AATAAGTCAT
* *
88876 AGTATCGATACCTAGATGTC
1 AGTATCGATACCCAGAGGTC
* *
88896 TGTATCAATACCCAGAGGTC
1 AGTATCGATACCCAGAGGTC
* * *
88916 AGTATCGATACCGAGGGGCTT
1 AGTATCGATACCCAGAGG-TC
*
88937 AGTATCGGTACCCA
1 AGTATCGATACCCA
88951 TGAACGGTTT
Statistics
Matches: 43, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
20 30 0.70
21 13 0.30
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (20 bp):
AGTATCGATACCCAGAGGTC
Found at i:91311 original size:20 final size:21
Alignment explanation
Indices: 91285--91344 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 21
91275 ACAATCATGA
91285 TGGTATCGATACT-CCT-CTT
1 TGGTATCGATACTCCCTCCTT
91304 TGGGTATCGATACTCCCCTCCTT
1 T-GGTATCGATACT-CCCTCCTT
91327 TGGTATCGATACTTCCCT
1 TGGTATCGATAC-TCCCT
91345 AAGTATCGGT
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
19 1 0.03
20 12 0.33
22 18 0.50
23 5 0.14
ACGTcount: A:0.15, C:0.30, G:0.17, T:0.38
Consensus pattern (21 bp):
TGGTATCGATACTCCCTCCTT
Found at i:91419 original size:20 final size:20
Alignment explanation
Indices: 91394--91443 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
91384 TATCTAAGAT
* *
91394 TCGATATTCCCTTTCGAGAA
1 TCGATACTCCCCTTCGAGAA
91414 TCGATACTCCCCTTCGAGAA
1 TCGATACTCCCCTTCGAGAA
91434 TCGATACTCC
1 TCGATACTCC
91444 TCCTCTTAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.32, G:0.14, T:0.30
Consensus pattern (20 bp):
TCGATACTCCCCTTCGAGAA
Found at i:94548 original size:7 final size:7
Alignment explanation
Indices: 94536--94642 Score: 99
Period size: 7 Copynumber: 15.3 Consensus size: 7
94526 GTTGTTGTTA
94536 AAACCCT
1 AAACCCT
94543 AAACCCT
1 AAACCCT
94550 AAACCCT
1 AAACCCT
**
94557 AAACATT
1 AAACCCT
**
94564 AAACTAT
1 AAACCCT
**
94571 AAACTAT
1 AAACCCT
*
94578 AAACTCT
1 AAACCCT
94585 AAACCCT
1 AAACCCT
**
94592 AAACATT
1 AAACCCT
*
94599 AAACTCT
1 AAACCCT
94606 AAACCCT
1 AAACCCT
*
94613 AAACACT
1 AAACCCT
94620 AAACCCT
1 AAACCCT
94627 -AACCACT
1 AAACC-CT
94634 AAACCCT
1 AAACCCT
94641 AA
1 AA
94643 CCATTCTCCC
Statistics
Matches: 85, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
6 4 0.05
7 77 0.91
8 4 0.05
ACGTcount: A:0.49, C:0.32, G:0.00, T:0.20
Consensus pattern (7 bp):
AAACCCT
Found at i:95014 original size:21 final size:22
Alignment explanation
Indices: 94972--95014 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
94962 AATTCGATTC
* * *
94972 GATATAATCGATTAACATATTA
1 GATAAAATCGATTAAAAAATTA
94994 GATAAAAT-GATTAAAAAATTA
1 GATAAAATCGATTAAAAAATTA
95015 CCTATAATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.53, C:0.05, G:0.09, T:0.33
Consensus pattern (22 bp):
GATAAAATCGATTAAAAAATTA
Found at i:95689 original size:30 final size:30
Alignment explanation
Indices: 95653--95718 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
95643 GATTGCTTGG
95653 CGACCTTTCTTGATCGCTTGGACAACCTGA
1 CGACCTTTCTTGATCGCTTGGACAACCTGA
* *
95683 CGACCTTTCTTGGTCGCTTGGACAACCTGG
1 CGACCTTTCTTGATCGCTTGGACAACCTGA
95713 CGACCT
1 CGACCT
95719 GCAGAGGTCG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.17, C:0.32, G:0.23, T:0.29
Consensus pattern (30 bp):
CGACCTTTCTTGATCGCTTGGACAACCTGA
Found at i:95728 original size:30 final size:30
Alignment explanation
Indices: 95666--95747 Score: 87
Period size: 30 Copynumber: 2.7 Consensus size: 30
95656 CCTTTCTTGA
* * **
95666 TCGCTTGGACAACCTGACGACCTTTCTTGG
1 TCGCTTGGACAACCTGGCGACCTTGCGAGG
95696 TCGCTTGGACAACCTGGCGACC-TGCAGAGG
1 TCGCTTGGACAACCTGGCGACCTTGC-GAGG
*
95726 TCG-TTCGGACCACCTGGCGACC
1 TCGCTT-GGACAACCTGGCGACC
95748 AAGGATACAG
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
29 4 0.09
30 41 0.91
ACGTcount: A:0.17, C:0.33, G:0.28, T:0.22
Consensus pattern (30 bp):
TCGCTTGGACAACCTGGCGACCTTGCGAGG
Found at i:95956 original size:2 final size:2
Alignment explanation
Indices: 95951--95997 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
95941 ATTTAAAAAT
95951 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
95993 TA TA T
1 TA TA T
95998 TTGAATGTGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:109408 original size:3 final size:3
Alignment explanation
Indices: 109400--109425 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
109390 TTTATGAACC
109400 CCA CCA CCA CCA CCA CCA CCA CCA CC
1 CCA CCA CCA CCA CCA CCA CCA CCA CC
109426 TTTCTTAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.69, G:0.00, T:0.00
Consensus pattern (3 bp):
CCA
Found at i:117905 original size:27 final size:27
Alignment explanation
Indices: 117874--117940 Score: 134
Period size: 27 Copynumber: 2.5 Consensus size: 27
117864 TGTTTTGAAA
117874 TGCAGCAATTCATACAAATGGGGTTGC
1 TGCAGCAATTCATACAAATGGGGTTGC
117901 TGCAGCAATTCATACAAATGGGGTTGC
1 TGCAGCAATTCATACAAATGGGGTTGC
117928 TGCAGCAATTCAT
1 TGCAGCAATTCAT
117941 GGACTTTGTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (27 bp):
TGCAGCAATTCATACAAATGGGGTTGC
Found at i:120664 original size:21 final size:21
Alignment explanation
Indices: 120606--120667 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 21
120596 TAATAATTTG
120606 ATATTTAATGATTTAGTAATAA
1 ATATTTAATGATTTA-TAATAA
* * * *
120628 TTAATAATAATAATTTATTATAA
1 AT-AT-TTAATGATTTATAATAA
120651 ATATTTAATGATTTATA
1 ATATTTAATGATTTATA
120668 TTTGATACTA
Statistics
Matches: 30, Mismatches: 8, Indels: 5
0.70 0.19 0.12
Matches are distributed among these distances:
21 10 0.33
22 3 0.10
23 8 0.27
24 9 0.30
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (21 bp):
ATATTTAATGATTTATAATAA
Found at i:120738 original size:14 final size:13
Alignment explanation
Indices: 120719--120773 Score: 51
Period size: 14 Copynumber: 4.2 Consensus size: 13
120709 ATAAGATTTG
120719 ATAATGATTTGATA
1 ATAATGATTT-ATA
*
120733 ATAATGATGTTTTA
1 ATAATGAT-TTATA
*
120747 ATAATGATTTCTA
1 ATAATGATTTATA
*
120760 CTAAT--TTTATA
1 ATAATGATTTATA
120771 ATA
1 ATA
120774 TTTTTGATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
11 7 0.20
13 8 0.23
14 18 0.51
15 2 0.06
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (13 bp):
ATAATGATTTATA
Found at i:120985 original size:21 final size:21
Alignment explanation
Indices: 120959--121048 Score: 84
Period size: 21 Copynumber: 4.4 Consensus size: 21
120949 CCGATACTAC
120959 TAATGATTTATTATTAATATT
1 TAATGATTTATTATTAATATT
120980 TAATGATTT-TATATTTAATGATT
1 TAATGATTTAT-TA-TTAAT-ATT
* *
121003 T-A-G--TAATTATTAATA-A
1 TAATGATTTATTATTAATATT
121019 TAATGATTTATTATTAATATT
1 TAATGATTTATTATTAATATT
*
121040 TAATTATTT
1 TAATGATTT
121049 GATACTAATG
Statistics
Matches: 55, Mismatches: 5, Indels: 18
0.71 0.06 0.23
Matches are distributed among these distances:
16 1 0.02
17 2 0.04
18 6 0.11
19 3 0.05
20 13 0.24
21 20 0.36
22 6 0.11
23 4 0.07
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.56
Consensus pattern (21 bp):
TAATGATTTATTATTAATATT
Found at i:120995 original size:15 final size:15
Alignment explanation
Indices: 120975--121003 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
120965 TTTATTATTA
120975 ATATTTAATGATTTT
1 ATATTTAATGATTTT
120990 ATATTTAATGATTT
1 ATATTTAATGATTT
121004 AGTAATTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (15 bp):
ATATTTAATGATTTT
Found at i:121031 original size:60 final size:59
Alignment explanation
Indices: 120959--121083 Score: 196
Period size: 60 Copynumber: 2.1 Consensus size: 59
120949 CCGATACTAC
* * *
120959 TAATGATTTATTATTAATATTTAATGATTTTATATTTAATGATTTAGTAATTATTAATAA
1 TAATGATTTATTATTAATATTTAATGATTTGATA-CTAATGATTTAGTAATGATTAATAA
* *
121019 TAATGATTTATTATTAATATTTAATTATTTGATACTAATGATTTAGTAATGATTACTAA
1 TAATGATTTATTATTAATATTTAATGATTTGATACTAATGATTTAGTAATGATTAATAA
121078 TAATGA
1 TAATGA
121084 AATTATAATA
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
59 28 0.47
60 32 0.53
ACGTcount: A:0.40, C:0.02, G:0.08, T:0.50
Consensus pattern (59 bp):
TAATGATTTATTATTAATATTTAATGATTTGATACTAATGATTTAGTAATGATTAATAA
Found at i:122786 original size:13 final size:13
Alignment explanation
Indices: 122770--122827 Score: 75
Period size: 13 Copynumber: 4.6 Consensus size: 13
122760 ATTAATAATA
122770 AATCATTATTAGT
1 AATCATTATTAGT
122783 AATCATTATTAGT
1 AATCATTATTAGT
* *
122796 AATTATTA-TAAT
1 AATCATTATTAGT
*
122808 -TTCATTATTAGT
1 AATCATTATTAGT
122820 AATCATTA
1 AATCATTA
122828 CTAAATCATT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
11 5 0.14
12 6 0.16
13 26 0.70
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.48
Consensus pattern (13 bp):
AATCATTATTAGT
Found at i:122868 original size:21 final size:22
Alignment explanation
Indices: 122829--122873 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
122819 TAATCATTAC
*
122829 TAAATCATTAATATCAAATCAT
1 TAAATCATTAATATCAAATAAT
122851 TAAAT-ATTAATAAT-AAATAAT
1 TAAATCATTAAT-ATCAAATAAT
122872 TA
1 TA
122874 TTAGTAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.38
Consensus pattern (22 bp):
TAAATCATTAATATCAAATAAT
Found at i:122929 original size:96 final size:95
Alignment explanation
Indices: 122739--122934 Score: 229
Period size: 96 Copynumber: 2.0 Consensus size: 95
122729 AAAAATTTAA
* * * * **
122739 ATTAGTATCAAATCATTAAATATTAATAATAAATCATTATTAGTAATCATTATTAGTAATTATTA
1 ATTAATATCAAATCATTAAATATTAATAATAAATAATTATTAGTAATCATTATAAATAACCATTA
* *
122804 TAATTTCATTATTAGTAATCATTACTAAATC
66 TAATATCATTAATAGTAATCA-TACTAAATC
122835 ATTAATATCAAATCATTAAATATTAATAATAAATAATTATTAGTAATCATTACTAAATCATACCA
1 ATTAATATCAAATCATTAAATATTAATAATAAATAATTATTAGTAATCATTA-TAAAT-A-ACCA
*
122900 TTACTAA-ATCATTAAATATTAAT-A-A-TAAATC
63 TTA-TAATATCATT-AATAGTAATCATACTAAATC
122931 ATTA
1 ATTA
122935 TTAGTAATCG
Statistics
Matches: 86, Mismatches: 9, Indels: 10
0.82 0.09 0.10
Matches are distributed among these distances:
96 60 0.70
97 4 0.05
98 1 0.01
99 11 0.13
100 10 0.12
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.41
Consensus pattern (95 bp):
ATTAATATCAAATCATTAAATATTAATAATAAATAATTATTAGTAATCATTATAAATAACCATTA
TAATATCATTAATAGTAATCATACTAAATC
Found at i:122935 original size:61 final size:59
Alignment explanation
Indices: 122809--123000 Score: 289
Period size: 61 Copynumber: 3.2 Consensus size: 59
122799 TATTATAATT
122809 TCATTATTAGTAATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAAA
1 TCATTATTAGTAATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAAA
*
122868 TAATTATTAGTAATCATTACTAAATCA-TACCAT-TACTAAATCATTAAATATTAATAATAAA
1 TCATTATTAGTAATCATTACTAAATCATTA--ATAT-C-AAATCATTAAATATTAATAATAAA
* * *
122929 TCATTATTAGTAATCGTTATTAAATCATTAAATATCAAATAATTAAATATTAATAATAAA
1 TCATTATTAGTAATCATTACTAAATCATT-AATATCAAATCATTAAATATTAATAATAAA
122989 TCATTATTAGTA
1 TCATTATTAGTA
123001 TTGGTACTAT
Statistics
Matches: 121, Mismatches: 5, Indels: 13
0.87 0.04 0.09
Matches are distributed among these distances:
58 2 0.02
59 27 0.22
60 38 0.31
61 51 0.42
62 2 0.02
63 1 0.01
ACGTcount: A:0.48, C:0.09, G:0.03, T:0.40
Consensus pattern (59 bp):
TCATTATTAGTAATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAAA
Found at i:122997 original size:24 final size:25
Alignment explanation
Indices: 122753--122997 Score: 107
Period size: 24 Copynumber: 10.2 Consensus size: 25
122743 GTATCAAATC
122753 ATTAAAT-ATTAATAATAAATCATT
1 ATTAAATCATTAATAATAAATCATT
* * *
122777 ATTAGTAATCATTATTAGT-AATTATT
1 ATTA--AATCATTAATAATAAATCATT
* * *
122803 A-TAATTTCATTATTAGT-AATCATT
1 ATTAA-ATCATTAATAATAAATCATT
*
122827 ACTAAATCATTAAT-ATCAAATC---
1 ATTAAATCATTAATAAT-AAATCATT
*
122849 ATTAAAT-ATTAATAATAAATAATT
1 ATTAAATCATTAATAATAAATCATT
* * *
122873 ATTAGTAATCATTACTAAATCATACCATT
1 ATTA--AATCATTAAT-AAT-AAATCATT
* *
122902 ACTAAATCATTAA-ATATTAAT-A--
1 ATTAAATCATTAATA-ATAAATCATT
* * *
122924 A-TAAATCATTATTAGT-AATCGTT
1 ATTAAATCATTAATAATAAATCATT
122947 ATTAAATCATTAA-ATATCAAAT-A--
1 ATTAAATCATTAATA-AT-AAATCATT
122970 ATTAAAT-ATTAATAATAAATCATT
1 ATTAAATCATTAATAATAAATCATT
122994 ATTA
1 ATTA
122998 GTATTGGTAC
Statistics
Matches: 167, Mismatches: 25, Indels: 58
0.67 0.10 0.23
Matches are distributed among these distances:
20 3 0.02
21 25 0.15
22 18 0.11
23 12 0.07
24 49 0.29
25 11 0.07
26 18 0.11
27 20 0.12
28 3 0.02
29 8 0.05
ACGTcount: A:0.48, C:0.08, G:0.02, T:0.41
Consensus pattern (25 bp):
ATTAAATCATTAATAATAAATCATT
Found at i:125068 original size:33 final size:33
Alignment explanation
Indices: 124977--125081 Score: 124
Period size: 33 Copynumber: 3.1 Consensus size: 33
124967 CATTATTATT
* *
124977 TTTC-AAAAAACATCTAACAAACTTTGAAAAACTA
1 TTTCAAAAAAACATTTACCAAACTTTG-AAAAC-A
*
125011 TTTTTAAAAGAAACA-TTACCAAACTTTGAAAACA
1 -TTTCAAAA-AAACATTTACCAAACTTTGAAAACA
125045 TTTCAAAAAAACATTTACCAAACTTTGAAAATCA
1 TTTCAAAAAAACATTTACCAAACTTTGAAAA-CA
125079 TTT
1 TTT
125082 TTTCAAAGTT
Statistics
Matches: 62, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
32 5 0.08
33 24 0.39
34 6 0.10
35 8 0.13
36 14 0.23
37 5 0.08
ACGTcount: A:0.50, C:0.16, G:0.04, T:0.30
Consensus pattern (33 bp):
TTTCAAAAAAACATTTACCAAACTTTGAAAACA
Done.