Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007820.1 Hibiscus syriacus cultivar Beakdansim tig00110157_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: 196131
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Found at i:3324 original size:109 final size:109
Alignment explanation
Indices: 3182--3448 Score: 344
Period size: 109 Copynumber: 2.4 Consensus size: 109
3172 GATGCACATT
* * * * *
3182 TAATACCAATACGAAAATTTATAAATTCATTATGAATTTCTTAGGTTGCAAACACACAGTGTCAA
1 TAATGCCAATACGGAAATTCATAAATT-ATTATGAATTTCTTAGGTTGCAAACACACAATGCCAA
* * *
3247 TAAGGAAATTCATAAACTTATTATGAATTT-AT-GGTTGTACACA
65 TAAGAAAATTCATAAACTTATTATGAATTTCATAGGTTGCACAAA
*
3290 TAATGCCAATACCGGAAATTCATAAACTTATTATGAATTTCTTAGGTTG--AACACATAATGCCA
1 TAATGCCAATA-CGGAAATTCATAAA-TTATTATGAATTTCTTAGGTTGCAAACACACAATGCCA
* *
3353 ATACGAAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACAAA
64 ATAAGAAAATTCATAAACTTATTATGAATTTCATAGGTTGCACAAA
* * *
3399 TAGTGTCAATACGGAAATTCATAAATTTATTATGAAATTCTTAGGTTGCA
1 TAATGCCAATACGGAAATTCATAAA-TTATTATGAATTTCTTAGGTTGCA
3449 CACATAGTGC
Statistics
Matches: 138, Mismatches: 15, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
107 40 0.29
108 46 0.33
109 50 0.36
110 2 0.01
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.34
Consensus pattern (109 bp):
TAATGCCAATACGGAAATTCATAAATTATTATGAATTTCTTAGGTTGCAAACACACAATGCCAAT
AAGAAAATTCATAAACTTATTATGAATTTCATAGGTTGCACAAA
Found at i:3456 original size:54 final size:54
Alignment explanation
Indices: 3187--3458 Score: 352
Period size: 54 Copynumber: 5.0 Consensus size: 54
3177 ACATTTAATA
* * *
3187 CCAATACGAAAATTTATAAA-TTCATTATGAATTTCTTAGGTTGCAAACACACAGTG
1 CCAATACGGAAATTCATAAACTT-ATTATGAATTTCTTAGGTTGC--ACACATAGTG
* * * * *
3243 TCAATAAGGAAATTCATAAACTTATTATGAATTT-AT-GGTTGTACACATAATG
1 CCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTG
* *
3295 CCAATACCGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGAACACATAATG
1 CCAATA-CGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTG
* *
3350 CCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACAAATAGTG
1 CCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTG
* * *
3404 TCAATACGGAAATTCATAAATTTATTATGAAATTCTTAGGTTGCACACATAGTG
1 CCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTG
3458 C
1 C
3459 TAATTGGGTA
Statistics
Matches: 190, Mismatches: 22, Indels: 10
0.86 0.10 0.05
Matches are distributed among these distances:
52 13 0.07
53 27 0.14
54 99 0.52
55 22 0.12
56 27 0.14
57 2 0.01
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.34
Consensus pattern (54 bp):
CCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTG
Found at i:4026 original size:20 final size:17
Alignment explanation
Indices: 3980--4031 Score: 59
Period size: 20 Copynumber: 2.8 Consensus size: 17
3970 ATACCTTTTT
3980 CTTAGTATCGATACTCA
1 CTTAGTATCGATACTCA
*
3997 CTTCAGTATCGATACTAGTA
1 CTT-AGTATCGATACT--CA
4017 CATTAGTATCGATAC
1 C-TTAGTATCGATAC
4032 CGTTCAACTG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 3 0.10
18 12 0.40
20 13 0.43
21 2 0.07
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (17 bp):
CTTAGTATCGATACTCA
Found at i:5277 original size:2 final size:2
Alignment explanation
Indices: 5270--5298 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
5260 CGATTTTGTT
5270 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5299 GATTCTCCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6214 original size:20 final size:22
Alignment explanation
Indices: 6174--6215 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
6164 GTAAGAGTTG
*
6174 AAATATAAACAATACATTTAAA
1 AAATATAAAAAATACATTTAAA
6196 AAAT-TAAAAAATA-ATTTAAA
1 AAATATAAAAAATACATTTAAA
6216 GTTGCATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
21 8 0.42
22 4 0.21
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.29
Consensus pattern (22 bp):
AAATATAAAAAATACATTTAAA
Found at i:8535 original size:29 final size:29
Alignment explanation
Indices: 8502--8559 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
8492 GAAGGGTTAA
*
8502 GGCCTTGGGACTGATCAGTAGAAAATGGC
1 GGCCTTGGGACTGATCAGTACAAAATGGC
*
8531 GGCCTTGGGACTGATCTGTACAAAATGGC
1 GGCCTTGGGACTGATCAGTACAAAATGGC
8560 TATGGAGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.26, C:0.19, G:0.33, T:0.22
Consensus pattern (29 bp):
GGCCTTGGGACTGATCAGTACAAAATGGC
Found at i:18376 original size:64 final size:63
Alignment explanation
Indices: 18286--18446 Score: 180
Period size: 64 Copynumber: 2.5 Consensus size: 63
18276 TTGTTTAAGG
* * *
18286 TGCATCGATGCACATGCAGTGCATCGATGCAT-TAATTTAAAAAGAAAACATCGAATAGGATTTA
1 TGCATCGATGCATAAGCAGTGCATCGATGCATCCAA-TTAAAAA-AAAACATCGAATAGGATTTA
* * * * *
18350 TGCATCGATGCATAAGGAGTGTATCGATGCATCGCCATTAAATACAAACATCGAATAGGATTTA
1 TGCATCGATGCATAAGCAGTGCATCGATGCATC-CAATTAAAAAAAAACATCGAATAGGATTTA
** *
18414 TGCATCGATGCATGGTGTAGTGCATCGATGCAT
1 TGCATCGATGCAT-AAGCAGTGCATCGATGCAT
18447 ATCTCCATTA
Statistics
Matches: 82, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
64 60 0.73
65 21 0.26
66 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (63 bp):
TGCATCGATGCATAAGCAGTGCATCGATGCATCCAATTAAAAAAAAACATCGAATAGGATTTA
Found at i:19132 original size:103 final size:103
Alignment explanation
Indices: 18907--19124 Score: 393
Period size: 103 Copynumber: 2.1 Consensus size: 103
18897 GTAGAGGATC
18907 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTTCGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTTCGGTGAGACACATAC
* *
18972 TTGATCCTTGGTATATGTATATAATTCTTAAGGAATGA
66 TTGATCCCTAGTATATGTATATAATTCTTAAGGAATGA
19010 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAG-TCTGGTGAGACACATA
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTTC-GGTGAGACACATA
*
19074 CTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
65 CTTGATCCCTAGTATATGTATATAATTCTTAAGGAATGA
19113 TATGTGGTCCTT
1 TATGTGGTCCTT
19125 ATGGACATTA
Statistics
Matches: 111, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
102 2 0.02
103 109 0.98
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTTCGGTGAGACACATAC
TTGATCCCTAGTATATGTATATAATTCTTAAGGAATGA
Found at i:19203 original size:23 final size:23
Alignment explanation
Indices: 19140--19203 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
19130 CATTATTATA
*
19140 TGGCACTACGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
* *
19163 CGGCAC-TCTGGTACAATTCTACG
1 TGGCACTTC-GGTGCAATTCTACG
*
19186 TGGCACTTCGGTGTAATT
1 TGGCACTTCGGTGCAATT
19204 ATATGAGCTG
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
22 1 0.03
23 30 0.91
24 2 0.06
ACGTcount: A:0.20, C:0.25, G:0.25, T:0.30
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:23998 original size:17 final size:16
Alignment explanation
Indices: 23976--24034 Score: 75
Period size: 17 Copynumber: 3.6 Consensus size: 16
23966 TACAGAGCCT
23976 TTGAATCATTCAGACCA
1 TTGAATCATTCA-ACCA
23993 TTGAATCATTCAATCCA
1 TTGAATCATTCAA-CCA
*
24010 TTAAATCATTCAA-CA
1 TTGAATCATTCAACCA
*
24025 TTTAATCATT
1 TTGAATCATT
24035 TTATTTTATC
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
15 11 0.28
16 1 0.03
17 27 0.69
ACGTcount: A:0.37, C:0.20, G:0.05, T:0.37
Consensus pattern (16 bp):
TTGAATCATTCAACCA
Found at i:24035 original size:8 final size:8
Alignment explanation
Indices: 23979--24034 Score: 51
Period size: 8 Copynumber: 6.9 Consensus size: 8
23969 AGAGCCTTTG
23979 AATCATTC
1 AATCATTC
* *
23987 AGACCATTG
1 A-ATCATTC
23996 AATCATTC
1 AATCATTC
*
24004 AATCCATTA
1 AAT-CATTC
24013 AATCATTC
1 AATCATTC
*
24021 AA-CATTT
1 AATCATTC
24028 AATCATT
1 AATCATT
24035 TTATTTTATC
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
7 6 0.16
8 19 0.50
9 13 0.34
ACGTcount: A:0.39, C:0.21, G:0.04, T:0.36
Consensus pattern (8 bp):
AATCATTC
Found at i:30624 original size:15 final size:15
Alignment explanation
Indices: 30606--30655 Score: 91
Period size: 15 Copynumber: 3.3 Consensus size: 15
30596 CGAAGGTTCT
30606 GTAGTCCTTCGGGAC
1 GTAGTCCTTCGGGAC
30621 GTAGTCCTTCGGGAC
1 GTAGTCCTTCGGGAC
*
30636 GTTGTCCTTCGGGAC
1 GTAGTCCTTCGGGAC
30651 GTAGT
1 GTAGT
30656 GGTCCTATGG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.12, C:0.24, G:0.34, T:0.30
Consensus pattern (15 bp):
GTAGTCCTTCGGGAC
Found at i:37459 original size:14 final size:15
Alignment explanation
Indices: 37429--37462 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
37419 CGAGGGTTCT
37429 GTAGTCCTTCGGGAC
1 GTAGTCCTTCGGGAC
37444 GTAGTCCTTC-GGAC
1 GTAGTCCTTCGGGAC
37458 GTAGT
1 GTAGT
37463 GGTCCTATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.15, C:0.24, G:0.32, T:0.29
Consensus pattern (15 bp):
GTAGTCCTTCGGGAC
Found at i:40467 original size:20 final size:20
Alignment explanation
Indices: 40442--40495 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 20
40432 AATGATAAAA
40442 TATTTTACTCTTAATTTATT
1 TATTTTACTCTTAATTTATT
** *
40462 TATTTT--T-TGGA-TAATT
1 TATTTTACTCTTAATTTATT
40478 TATTTTACTCTTAATTTA
1 TATTTTACTCTTAATTTA
40496 ATAAATCACT
Statistics
Matches: 24, Mismatches: 6, Indels: 8
0.63 0.16 0.21
Matches are distributed among these distances:
16 10 0.42
17 2 0.08
18 2 0.08
19 2 0.08
20 8 0.33
ACGTcount: A:0.26, C:0.07, G:0.04, T:0.63
Consensus pattern (20 bp):
TATTTTACTCTTAATTTATT
Found at i:47270 original size:22 final size:22
Alignment explanation
Indices: 47227--47267 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
47217 AAAAAATTAT
47227 TTTTTATTAAATATTTTTAATA
1 TTTTTATTAAATATTTTTAATA
*
47249 TTTTTATTTAAT-TTTTTAA
1 TTTTTATTAAATATTTTTAA
47268 ATAATTATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (22 bp):
TTTTTATTAAATATTTTTAATA
Found at i:47929 original size:28 final size:28
Alignment explanation
Indices: 47889--47946 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
47879 TTTTCGTCCA
47889 TCAGATTTGGTAATGATGGGTAGTGGGT
1 TCAGATTTGGTAATGATGGGTAGTGGGT
47917 TCAGATTTGGTAATGATGGGTAGTGGGT
1 TCAGATTTGGTAATGATGGGTAGTGGGT
47945 TC
1 TC
47947 TTTACTTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.21, C:0.05, G:0.38, T:0.36
Consensus pattern (28 bp):
TCAGATTTGGTAATGATGGGTAGTGGGT
Found at i:50633 original size:26 final size:27
Alignment explanation
Indices: 50580--50635 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
50570 ATCTGTAAGT
* *
50580 TTTTTTAACCTTCGTTTTCTTTTGTTG
1 TTTTTTAACATTCGTTTTATTTTGTTG
50607 TTTTTTAACATTC-TTTTATTTCT-TTG
1 TTTTTTAACATTCGTTTTATTT-TGTTG
50633 TTT
1 TTT
50636 ATTATGGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 13 0.50
27 13 0.50
ACGTcount: A:0.11, C:0.12, G:0.07, T:0.70
Consensus pattern (27 bp):
TTTTTTAACATTCGTTTTATTTTGTTG
Found at i:50704 original size:24 final size:24
Alignment explanation
Indices: 50642--50709 Score: 57
Period size: 24 Copynumber: 2.8 Consensus size: 24
50632 GTTTATTATG
**
50642 GATTTATGA-ATTGTTTAATTCGGT
1 GATTTATGAGATT-TTTAATTCAAT
** *
50666 GATTTCCGAGGTTTTTAATTCAAT
1 GATTTATGAGATTTTTAATTCAAT
*
50690 GATTTGTGAGATTTTCTAAT
1 GATTTATGAGATTTT-TAAT
50710 ATTCATTGTA
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
24 28 0.82
25 6 0.18
ACGTcount: A:0.25, C:0.07, G:0.19, T:0.49
Consensus pattern (24 bp):
GATTTATGAGATTTTTAATTCAAT
Found at i:56705 original size:6 final size:6
Alignment explanation
Indices: 56694--56994 Score: 538
Period size: 6 Copynumber: 50.3 Consensus size: 6
56684 TTTTTACATA
56694 TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT
1 TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT
56742 TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT
1 TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT
56790 TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT
1 TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT
*
56838 TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT TATTTAT
1 TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT T-TATAT
56887 ATTATAT TTATAT TTATA- TT-TAT TTATAT TTATAT TTATAT TTATAT
1 -TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT
56934 TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT TTATA-
1 TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT
56981 TTA-AT TATATAT TT
1 TTATAT T-TATAT TT
56995 TAAATAATTT
Statistics
Matches: 286, Mismatches: 2, Indels: 14
0.95 0.01 0.05
Matches are distributed among these distances:
4 3 0.01
5 8 0.03
6 263 0.92
7 11 0.04
8 1 0.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
TTATAT
Found at i:57717 original size:24 final size:25
Alignment explanation
Indices: 57671--57718 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
57661 ATTCGACTTG
* * *
57671 ACTCGAATTATATAAACTCAATTTA
1 ACTCGAATTAAATAAAATAAATTTA
57696 ACTCGAA-TAAATAAAATAAATTT
1 ACTCGAATTAAATAAAATAAATTT
57719 GAATTATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.50, C:0.12, G:0.04, T:0.33
Consensus pattern (25 bp):
ACTCGAATTAAATAAAATAAATTTA
Found at i:59888 original size:29 final size:29
Alignment explanation
Indices: 59846--59923 Score: 138
Period size: 29 Copynumber: 2.7 Consensus size: 29
59836 CTAACTATAT
59846 TGATGTAAGCAATGACATCATTAATTAAA
1 TGATGTAAGCAATGACATCATTAATTAAA
*
59875 TGATGTAAGCAATGACATCTTTAATTAAA
1 TGATGTAAGCAATGACATCATTAATTAAA
*
59904 TGATGTAAGTAATGACATCA
1 TGATGTAAGCAATGACATCA
59924 ATTTAGTTTG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.32
Consensus pattern (29 bp):
TGATGTAAGCAATGACATCATTAATTAAA
Found at i:63303 original size:15 final size:15
Alignment explanation
Indices: 63283--63312 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
63273 ATTTCTCATA
63283 GTTATTGTTGGAATT
1 GTTATTGTTGGAATT
*
63298 GTTATTGTTGTAATT
1 GTTATTGTTGGAATT
63313 CCAGCCTCGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.00, G:0.23, T:0.57
Consensus pattern (15 bp):
GTTATTGTTGGAATT
Found at i:64638 original size:29 final size:29
Alignment explanation
Indices: 64596--64673 Score: 129
Period size: 29 Copynumber: 2.7 Consensus size: 29
64586 CTAACTATAT
64596 TGATGTAAGCAATGACATCATTAATTAAA
1 TGATGTAAGCAATGACATCATTAATTAAA
*
64625 TGATGTAAGCAATGACATCTTTAATTAAA
1 TGATGTAAGCAATGACATCATTAATTAAA
**
64654 TGATGTAAATAATGACATCA
1 TGATGTAAGCAATGACATCA
64674 ATTTAGTTTG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.44, C:0.10, G:0.14, T:0.32
Consensus pattern (29 bp):
TGATGTAAGCAATGACATCATTAATTAAA
Found at i:69861 original size:5 final size:5
Alignment explanation
Indices: 69851--69890 Score: 59
Period size: 5 Copynumber: 8.6 Consensus size: 5
69841 TTTAAATGTT
69851 TTTAA TTTAA TTTAA TTTAA TTTAA -TT-A TTT-A TTTAA TTT
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTT
69891 TGTTTTCAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 1 0.03
4 8 0.24
5 24 0.73
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (5 bp):
TTTAA
Found at i:88025 original size:3 final size:3
Alignment explanation
Indices: 88019--88086 Score: 54
Period size: 3 Copynumber: 22.3 Consensus size: 3
88009 ATTACTTTTT
*
88019 TTA TTA -TA TTA TTA TTA CTTA TTA TTT TTA TATA TATA TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA T-TA T-TA TTA TTA TTA
88065 TT- TTA TT- TTA TTTA TTTA TTA T
1 TTA TTA TTA TTA -TTA -TTA TTA T
88087 ATTCAAGAAT
Statistics
Matches: 57, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
2 8 0.14
3 32 0.56
4 17 0.30
ACGTcount: A:0.29, C:0.01, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:88041 original size:30 final size:27
Alignment explanation
Indices: 88005--88086 Score: 96
Period size: 30 Copynumber: 2.9 Consensus size: 27
87995 CTTTCAAATT
88005 TTTTATTACTTTTTTTATTATATTATTA
1 TTTTATTA-TTTTTTTATTATATTATTA
*
88033 TTACTTATTATTTTTATATATATATTATTA
1 TT--TTATTATTTTTTTAT-TATATTATTA
88063 TTTT-TTATTTTATTTATT-TATTAT
1 TTTTATTATTTT-TTTATTATATTAT
88087 ATTCAAGAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
26 6 0.12
27 8 0.17
28 8 0.17
29 8 0.17
30 18 0.38
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (27 bp):
TTTTATTATTTTTTTATTATATTATTA
Found at i:88042 original size:10 final size:9
Alignment explanation
Indices: 88019--88086 Score: 54
Period size: 10 Copynumber: 7.4 Consensus size: 9
88009 ATTACTTTTT
88019 TTATTA-TA
1 TTATTATTA
88027 TTATTATTA
1 TTATTATTA
*
88036 CTTATTATTT
1 -TTATTATTA
88046 TTATATATATA
1 TTAT-TAT-TA
88057 TTATTATT-
1 TTATTATTA
88065 TT-TTATT-
1 TTATTATTA
88072 TTATTTATTTA
1 TTA-TTA-TTA
88083 TTAT
1 TTAT
88087 ATTCAAGAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
7 7 0.14
8 8 0.16
9 10 0.20
10 17 0.34
11 8 0.16
ACGTcount: A:0.29, C:0.01, G:0.00, T:0.69
Consensus pattern (9 bp):
TTATTATTA
Found at i:88053 original size:26 final size:26
Alignment explanation
Indices: 88016--88086 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 26
88006 TTTATTACTT
88016 TTTTTATTATATTATTATTACTTATTA
1 TTTTTA-TATATTATTATTACTTATTA
* *
88043 TTTTTATATATATATTATTATTTTTTA
1 TTTTTATATAT-TATTATTACTTATTA
*
88070 -TTTTATTTATTTATTAT
1 TTTTTATATA-TTATTAT
88087 ATTCAAGAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
26 19 0.49
27 20 0.51
ACGTcount: A:0.28, C:0.01, G:0.00, T:0.70
Consensus pattern (26 bp):
TTTTTATATATTATTATTACTTATTA
Found at i:95194 original size:83 final size:83
Alignment explanation
Indices: 95046--95227 Score: 303
Period size: 83 Copynumber: 2.2 Consensus size: 83
95036 AATGGAACAA
* *
95046 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
1 ATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTTGGCAAAACC
95111 AATCATTGAATTTAGAAG
66 AATCATTGAATTTAGAAG
* *
95129 ATGAATTTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGG-TTGGACAGAAC
1 ATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTTGG-CAAAAC
*
95193 CAATCATTGAATTTGGAAG
65 CAATCATTGAATTTAGAAG
95212 ATGAATTTGCTCATAG
1 ATGAATTTGCTCATAG
95228 TATAAATAAA
Statistics
Matches: 92, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
82 4 0.04
83 88 0.96
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (83 bp):
ATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTTGGCAAAACC
AATCATTGAATTTAGAAG
Found at i:96975 original size:113 final size:113
Alignment explanation
Indices: 96778--97099 Score: 438
Period size: 113 Copynumber: 2.9 Consensus size: 113
96768 AGCAAAGATA
* ****
96778 TGAATTCATCATTCGATGATTCAG-ATTACCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAA
1 TGAATTCATCATTCGATGATTCAGTATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAA
**
96842 GAAAAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTCGCT
66 GAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTT-GCT
96890 TGAATTCATCATTCGATGATTCAGTATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAA
1 TGAATTCATCATTCGATGATTCAGTATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAA
* * *
96955 GAAGGAAGAAGAAATTCATAATGAGAAGAATTTTTTCAACCTTTTGCT
66 GAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCT
** * * *
97003 CAAATCCATC-TCTTGATGGA-TCAGCT-TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCT
1 TGAATTCATCAT-TCGAT-GATTCAG-TATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCT
97065 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACT
63 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACT
97100 CATCTGAAGA
Statistics
Matches: 188, Mismatches: 17, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
112 25 0.13
113 155 0.82
114 8 0.04
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (113 bp):
TGAATTCATCATTCGATGATTCAGTATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAA
GAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCT
Found at i:97094 original size:40 final size:40
Alignment explanation
Indices: 97039--97139 Score: 184
Period size: 40 Copynumber: 2.5 Consensus size: 40
97029 TTTCCAGAGA
**
97039 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAAAAAGAAG
97079 AAGTTCATAATGAGAAGAACTCATCTGAAGAAAAAAGAAG
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAAAAAGAAG
97119 AAGTTCATAATGAGAAGAACT
1 AAGTTCATAATGAGAAGAACT
97140 TGTTCAACTT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.50, C:0.10, G:0.22, T:0.19
Consensus pattern (40 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAGAAAAAAGAAG
Found at i:97117 original size:153 final size:153
Alignment explanation
Indices: 96921--97250 Score: 488
Period size: 153 Copynumber: 2.2 Consensus size: 153
96911 CAGTATTTCC
* ** *
96921 AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAAT
1 AGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAAAAAGAAGAAATTCATAATGAGAAGAAC
* * *
96986 TTTTTCAACCTTTT-GCTCAAATCCATC-TCTTGATGGA-TCAGCT-TTTCCAGAGAAAGTTCAT
66 TTGTTCAA-CTTTTCGCTCAAATCCATCAT-TCGAT-GATTCAG-TATTTCCAGAAAAAGTTCAT
97047 AATGAGAAGAACTCATCTGAAGAAGGA
127 AATGAGAAGAACTCATCTGAAGAAGGA
*
97074 AGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAAAAAGAAGAAGTTCATAATGAGAAGAAC
1 AGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAAAAAGAAGAAATTCATAATGAGAAGAAC
** *
97139 TTGTTCAACTTTTCGCTTGAATTCATCATTCGATGATTCAGTATTTCCAGAAAAAGTTCATAATG
66 TTGTTCAACTTTTCGCTCAAATCCATCATTCGATGATTCAGTATTTCCAGAAAAAGTTCATAATG
97204 AGAAGAACTCATCTGAAGAAGGA
131 AGAAGAACTCATCTGAAGAAGGA
*
97227 AGAAGAAATTCATAATGAGAAGAA
1 AGAAGAAGTTCATAATGAGAAGAA
97251 TTTGTTCAAC
Statistics
Matches: 161, Mismatches: 12, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
152 8 0.05
153 152 0.94
154 1 0.01
ACGTcount: A:0.42, C:0.13, G:0.19, T:0.25
Consensus pattern (153 bp):
AGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAAAAAGAAGAAATTCATAATGAGAAGAAC
TTGTTCAACTTTTCGCTCAAATCCATCATTCGATGATTCAGTATTTCCAGAAAAAGTTCATAATG
AGAAGAACTCATCTGAAGAAGGA
Found at i:97196 original size:113 final size:113
Alignment explanation
Indices: 97074--97490 Score: 626
Period size: 113 Copynumber: 3.7 Consensus size: 113
97064 TGAAGAAGGA
* ** *
97074 AGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAAAAAGAAGAAGTTCATAATGAGAAGAAC
1 AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAAC
97139 TTGTTCAA-CTTTTCGCTTGAATTCATCA-TTCGAT-GATTCAGTATTTCC
66 TTGTTCAACCTTTT-GCTTGAATTCATCACTT-GATGGATTCAGT-TTTCC
*
97187 AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAAT
1 AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAAC
** *
97252 TTGTTCAACCTTTTGCTCAAATACATCACTTGATGGA-TCAGCTTTTCC
66 TTGTTCAACCTTTTGCTTGAATTCATCACTTGATGGATTCAG-TTTTCC
* *
97300 AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAT
1 AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAAC
* * *
97365 TTGTTCAACCTTTTGCCTGAATTCATCACTTGATGGATTAACTTTTCC
66 TTGTTCAACCTTTTGCTTGAATTCATCACTTGATGGATTCAGTTTTCC
* * *
97413 AGAGAAAGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAATTCATAATGAGAAGAGC
1 AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAAC
97478 TTGTTCAACCTTT
66 TTGTTCAACCTTT
97491 GTTTGATGCT
Statistics
Matches: 279, Mismatches: 20, Indels: 10
0.90 0.06 0.03
Matches are distributed among these distances:
113 267 0.96
114 12 0.04
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.28
Consensus pattern (113 bp):
AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAAC
TTGTTCAACCTTTTGCTTGAATTCATCACTTGATGGATTCAGTTTTCC
Found at i:97288 original size:266 final size:266
Alignment explanation
Indices: 96814--97363 Score: 1064
Period size: 266 Copynumber: 2.1 Consensus size: 266
96804 TACCAGTTCG
96814 AGTTCATAATGAGAAGAACTCATCTGAAGAAAAAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAAAAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
96879 AACTTTTCGCTTGAATTCATCATTCGATGATTCAGTATTTCCAGAAAAAGTTCATAATGAGAAGA
66 AACTTTTCGCTTGAATTCATCATTCGATGATTCAGTATTTCCAGAAAAAGTTCATAATGAGAAGA
* *
96944 ACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTTTTCAACCTTTTGCTCAAATC
131 ACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATA
* *
97009 CATCTCTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
196 CATCACTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
97074 AGAAGA
261 AGAAGA
97080 AGTTCATAATGAGAAGAACTCATCTGAAGAAAAAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAAAAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
97145 AACTTTTCGCTTGAATTCATCATTCGATGATTCAGTATTTCCAGAAAAAGTTCATAATGAGAAGA
66 AACTTTTCGCTTGAATTCATCATTCGATGATTCAGTATTTCCAGAAAAAGTTCATAATGAGAAGA
97210 ACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATA
131 ACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATA
97275 CATCACTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
196 CATCACTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
97340 AGAAGA
261 AGAAGA
97346 AGTTCATAATGAGAAGAA
1 AGTTCATAATGAGAAGAA
97364 TTTGTTCAAC
Statistics
Matches: 280, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
266 280 1.00
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.27
Consensus pattern (266 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAAAAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
AACTTTTCGCTTGAATTCATCATTCGATGATTCAGTATTTCCAGAAAAAGTTCATAATGAGAAGA
ACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATA
CATCACTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
AGAAGA
Found at i:97599 original size:309 final size:309
Alignment explanation
Indices: 97227--97795 Score: 973
Period size: 309 Copynumber: 1.8 Consensus size: 309
97217 TGAAGAAGGA
*
97227 AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATACATCACTTGATGGATCA
1 AGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATACATCACTTGATGGATCA
*
97292 GCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
66 GCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
* * * *
97357 AGAAGAATTTGTTCAACCTTTTGC-CTGAATTCATCACTT-GATGGATTAACTTTTCCAGAGAAA
131 AGAAGAATTTGTTCAACCTTTTGCTC-AAATCCATCA-TTCGATGGATCAACATTTCCAGAGAAA
*
97420 GTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAATTCATAATGAGAAGAGCTTGTTCA
194 GTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCA
97485 ACCTTTGTTTGATGCTATCACAGAAGGAAATAGATCAGTATCAGCATTTCC
259 ACCTTTGTTTGATGCTATCACAGAAGGAAATAGATCAGTATCAGCATTTCC
* * *
97536 AGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCA-TCTGATGGATC
1 AGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATACATCACT-TGATGGATC
97600 AGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAAT
65 AGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAAT
*
97665 GAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTCGATGGATCAGCATTTCCAGAGAAAG
130 GAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTCGATGGATCAACATTTCCAGAGAAAG
* *
97730 TTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA
195 TTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAA
97795 C
260 C
97796 TTTTTGCTTA
Statistics
Matches: 244, Mismatches: 13, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
308 3 0.01
309 240 0.98
310 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.27
Consensus pattern (309 bp):
AGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATACATCACTTGATGGATCA
GCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
AGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTCGATGGATCAACATTTCCAGAGAAAGT
TCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAAC
CTTTGTTTGATGCTATCACAGAAGGAAATAGATCAGTATCAGCATTTCC
Found at i:97651 original size:422 final size:421
Alignment explanation
Indices: 97114--97907 Score: 1292
Period size: 422 Copynumber: 1.9 Consensus size: 421
97104 TGAAGAAAAA
** *
97114 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGATTCA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTCAAATCCATCATTCGATGATTCA
97179 GTATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
66 GTATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
*
97244 AGAAGAATTTGTTCAACCTTTTGCTCAAATACATCACTT-GATGGATCAGCTTTTCCAGAAAAAG
131 AGAAGAATTTGTTCAACCTTTTGCTCAAATACATCA-TTCGATGGATCAGCATTTCCAGAAAAAG
*
97308 TTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAA
195 TTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA
* * * *
97373 CCTTTTGCCTGAATTCATCACTTGATGGATTAACTTTTCCAGAGAAAGTTCATAATGAGAAGAAC
260 CCTTTTGCCTAAATTCATCACTTGATGGATCAACATTACCAGAGAAAGTTCATAATGAGAAGAAC
*
97438 TCATATGAAGAAGGAAGAAGAAATTCATAATGAGAAGAGCTTGTTCAACCTTTGTTTGATGCTAT
325 TCATATGAAGAA-GAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTGTTTGATGCTAT
97503 CACAGAAGGAAATAGATCAGTATCAGCATTTCC
389 CACAGAAGGAAATAGATCAGTATCAGCATTTCC
*
97536 AGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTT-GCTCAAATCCATCA-TCTGATGGA-
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTCGCTCAAATCCATCATTC-GAT-GAT
97598 TCAGCT-TTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCAT
63 TCAG-TATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCAT
* *
97662 AATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTCGATGGATCAGCATTTCCAGAGA
127 AATGAGAAGAATTTGTTCAACCTTTTGCTCAAATACATCATTCGATGGATCAGCATTTCCAGAAA
97727 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
192 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * * * ** *
97792 CAACTTTTTGCTTAAATTCATCATTTGATGGATCATCATTACCAGTTAGAGTTCATAATGAGAAG
257 CAACCTTTTGCCTAAATTCATCACTTGATGGATCAACATTACCAGAGAAAGTTCATAATGAGAAG
* * *
97857 AACTCATTTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAAC
322 AACTCATATGAAGAAGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAAC
97908 TTTTCACTTG
Statistics
Matches: 344, Mismatches: 23, Indels: 11
0.91 0.06 0.03
Matches are distributed among these distances:
421 37 0.11
422 299 0.87
423 8 0.02
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.28
Consensus pattern (421 bp):
AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTCAAATCCATCATTCGATGATTCA
GTATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
AGAAGAATTTGTTCAACCTTTTGCTCAAATACATCATTCGATGGATCAGCATTTCCAGAAAAAGT
TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC
CTTTTGCCTAAATTCATCACTTGATGGATCAACATTACCAGAGAAAGTTCATAATGAGAAGAACT
CATATGAAGAAGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTGTTTGATGCTATCA
CAGAAGGAAATAGATCAGTATCAGCATTTCC
Found at i:97734 original size:113 final size:113
Alignment explanation
Indices: 97536--98712 Score: 1467
Period size: 113 Copynumber: 10.3 Consensus size: 113
97526 CAGCATTTCC
* * *
97536 AGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCA-TCTGATGGATC
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTAAATTCATCATTC-GATGGATC
* * *
97600 AGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
65 AACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* * * *
97649 AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTCGATGGATCA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTAAATTCATCATTCGATGGATCA
*
97714 GCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
66 ACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* *
97762 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCATTTGATGGATCA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTAAATTCATCATTCGATGGATCA
* * ** * *
97827 TCATTACCAGTTAGAGTTCATAATGAGAAGAACTCATTTGAAGAA-GA
66 ACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* * *
97874 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAA-CTTTTCACTTGAATTCATCATTCGATGGATC
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTT-GCTTAAATTCATCATTCGATGGATC
* * ** * **
97938 AGCATTGCCAG-GTCGAGTTCATAATGAGAAGAACTTATCTGAAGAATAA
65 AACATTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* *
97987 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTCACTTGAATTCATCATTCGATGGATC
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTT-GCTTAAATTCATCATTCGATGGATC
* *
98051 AACTTTTCCAGAGAAAGTTCATAATGAGAATAACTCATCTGAAGAAGGA
65 AACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* *
98100 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCATTTGATGGATCA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTAAATTCATCATTCGATGGATCA
* * ** * *
98165 TCATTACCAGTTAGAGTTCATAATGAGAAGAACTCATTTGAAGAA-GA
66 ACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* * *
98212 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAA-CTTTTCACTTGAATTCATCATTCGATGGATC
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTT-GCTTAAATTCATCATTCGATGGATC
* * ** * **
98276 AGCATTGCCAG-GTCGAGTTCATAATGAGAAGAACTTATCTGAAGAATAA
65 AACATTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* *
98325 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTCACTTGAATTCATCATTCGATGGATC
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTT-GCTTAAATTCATCATTCGATGGATC
* *
98389 AACTTTTCCAGAGAAAGTTCATAATGAGAATAACTCATCTGAAGAAGGA
65 AACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
98438 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCATTCGATGGATCA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTAAATTCATCATTCGATGGATCA
* * *
98503 ACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGA
66 ACATTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* * ** * *
98551 AGAAGAAGTTCATAATAAGAAGAACTTGTTAAACCTTTTGC-TCGACTCTATCCCAGAAGGAGAT
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTAAATTC-AT--C------A-TT
** * *
98615 AAATCAGCATCAACATTTTCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
56 CGAT--GGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
98675 AGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTT
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTT
98713 GTTTGATTCT
Statistics
Matches: 944, Mismatches: 95, Indels: 39
0.88 0.09 0.04
Matches are distributed among these distances:
111 8 0.01
112 195 0.21
113 640 0.68
114 13 0.01
115 1 0.00
121 1 0.00
122 3 0.00
124 82 0.09
125 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.29
Consensus pattern (113 bp):
AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTAAATTCATCATTCGATGGATCA
ACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
Found at i:97969 original size:338 final size:339
Alignment explanation
Indices: 97536--98589 Score: 1740
Period size: 338 Copynumber: 3.1 Consensus size: 339
97526 CAGCATTTCC
* * ** *
97536 AGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTT-GCTCAAATCCATCA-TCTGATGGAT
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTCACTTGAATTCATCATTC-GATGGAT
* * **** * ** *
97599 CAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAA
65 CAGCATTGCCAGGTCGAGTTCATAATGAGAAGAACTTATCTGAAGAATAAAGAAGAAGTTCATAA
* * ** * * *
97664 TGAGAAGAATTTGTTCAACCTTTT-GCTCAAATCCATCATTCGATGGATCAGCATTTCCAGAGAA
130 TGAGAAGAACTTGTTCAA-CTTTTCACTTGAATTCATCATTCGATGGATCAACTTTTCCAGAGAA
*
97728 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
194 AGTTCATAATGAGAATAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
97793 AACTTTTTGCTTAAATTCATCATTTGATGGATCATCATTACCAGTTAGAGTTCATAATGAGAAGA
259 AACTTTTTGCTTAAATTCATCATTTGATGGATCATCATTACCAGTTAGAGTTCATAATGAGAAGA
97858 ACTCATTTGAAGAAGA
324 ACTCATTTGAAGAAGA
*
97874 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAA-CTTTTCACTTGAATTCATCATTCGATGGATC
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTCACTTGAATTCATCATTCGATGGATC
97938 AGCATTGCCAGGTCGAGTTCATAATGAGAAGAACTTATCTGAAGAATAAAGAAGAAGTTCATAAT
66 AGCATTGCCAGGTCGAGTTCATAATGAGAAGAACTTATCTGAAGAATAAAGAAGAAGTTCATAAT
98003 GAGAAGAACTTGTTCAACTTTTCACTTGAATTCATCATTCGATGGATCAACTTTTCCAGAGAAAG
131 GAGAAGAACTTGTTCAACTTTTCACTTGAATTCATCATTCGATGGATCAACTTTTCCAGAGAAAG
98068 TTCATAATGAGAATAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA
196 TTCATAATGAGAATAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA
98133 CTTTTTGCTTAAATTCATCATTTGATGGATCATCATTACCAGTTAGAGTTCATAATGAGAAGAAC
261 CTTTTTGCTTAAATTCATCATTTGATGGATCATCATTACCAGTTAGAGTTCATAATGAGAAGAAC
98198 TCATTTGAAGAAGA
326 TCATTTGAAGAAGA
*
98212 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAA-CTTTTCACTTGAATTCATCATTCGATGGATC
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTCACTTGAATTCATCATTCGATGGATC
98276 AGCATTGCCAGGTCGAGTTCATAATGAGAAGAACTTATCTGAAGAATAAAGAAGAAGTTCATAAT
66 AGCATTGCCAGGTCGAGTTCATAATGAGAAGAACTTATCTGAAGAATAAAGAAGAAGTTCATAAT
98341 GAGAAGAACTTGTTCAACTTTTCACTTGAATTCATCATTCGATGGATCAACTTTTCCAGAGAAAG
131 GAGAAGAACTTGTTCAACTTTTCACTTGAATTCATCATTCGATGGATCAACTTTTCCAGAGAAAG
98406 TTCATAATGAGAATAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA
196 TTCATAATGAGAATAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA
* * * * * *
98471 CCTTTTGCTTGAATTCATCATTCGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAAC
261 CTTTTTGCTTAAATTCATCATTTGATGGATCATCATTACCAGTTAGAGTTCATAATGAGAAGAAC
*
98536 TCATCTGAAGAAAGA
326 TCATTTGAAG-AAGA
* *
98551 AGAAGAAGTTCATAATAAGAAGAACTTGTTAAACCTTTT
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTT
98590 GCTCGACTCT
Statistics
Matches: 677, Mismatches: 34, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
337 10 0.01
338 626 0.92
339 36 0.05
340 5 0.01
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (339 bp):
AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTCACTTGAATTCATCATTCGATGGATC
AGCATTGCCAGGTCGAGTTCATAATGAGAAGAACTTATCTGAAGAATAAAGAAGAAGTTCATAAT
GAGAAGAACTTGTTCAACTTTTCACTTGAATTCATCATTCGATGGATCAACTTTTCCAGAGAAAG
TTCATAATGAGAATAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA
CTTTTTGCTTAAATTCATCATTTGATGGATCATCATTACCAGTTAGAGTTCATAATGAGAAGAAC
TCATTTGAAGAAGA
Found at i:98105 original size:451 final size:452
Alignment explanation
Indices: 97536--98708 Score: 1647
Period size: 451 Copynumber: 2.6 Consensus size: 452
97526 CAGCATTTCC
* ** *
97536 AGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCA-TCTGATGGATC
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCATTC-GATGGATC
* * *
97600 AGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAAT
65 AACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
* * *
97665 GAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTCGATGGATCAGCATTTCCAGAGAAAG
130 GAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCATTAGATGGATCAACATTTCCAGAGAAAG
97730 TTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA
195 TTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA
** * * *
97795 CTTTTTGCTTAAATTCATCATTTGATGGATCATCATTACCAGTTAGAGTTCATAATGAGAAGAAC
260 CTTTTCACTTAAATTCATCATTCGATGGATCAGCATTACCAGGTAGAGTTCATAATGAGAAGAAC
* * *
97860 TCATTTGAAGAA-GAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTCACTTGAATTCA
325 TCATCTGAAGAATAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCACTTGAATTCA
* ** * *
97924 TCATTCGATGGATCAGCATTGCCAG-GTCGAGTTCATAATGAGAAGAACTTATCTGAAGAATAA
390 TCATTCGATGGATCAACATTGCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAA
*
97987 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTCACTTGAATTCATCATTCGATGGATC
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTT-GCTTGAATTCATCATTCGATGGATC
*
98051 AACTTTTCCAGAGAAAGTTCATAATGAGAATAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
65 AACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
* * * * * * ** *
98116 GAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCATTTGATGGATCATCATTACCAGTTAGAG
130 GAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCATTAGATGGATCAACATTTCCAGAGAAAG
* *
98181 TTCATAATGAGAAGAACTCATTTGAAGAA-GAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAA
195 TTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA
* * *
98245 CTTTTCACTTGAATTCATCATTCGATGGATCAGCATTGCCAGGTCGAGTTCATAATGAGAAGAAC
260 CTTTTCACTTAAATTCATCATTCGATGGATCAGCATTACCAGGTAGAGTTCATAATGAGAAGAAC
*
98310 TTATCTGAAGAATAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCACTTGAATTCA
325 TCATCTGAAGAATAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCACTTGAATTCA
* * * *
98375 TCATTCGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAATAACTCATCTGAAGAAGGA
390 TCATTCGATGGATCAACATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAA
98438 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCATTCGATGGATCA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCATTCGATGGATCA
* * * *
98503 ACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAAT
66 ACTTTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
* * * ** * * *
98567 AAGAAGAACTTGTTAAACCTTTTGCTCGACTCTATCCCAGAAGGAGATAAATCAGCATCAACATT
130 GAGAAGAACTTGTTCAACCTTTTGCTC-A---AAT-CC---ATCA-TTAGAT--GGATCAACATT
*
98632 TTCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAG
184 TCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAG
*
98697 AGCTTGTTCAAC
249 AACTTGTTCAAC
98709 CTTTGTTTGA
Statistics
Matches: 635, Mismatches: 69, Indels: 24
0.87 0.09 0.03
Matches are distributed among these distances:
450 107 0.17
451 434 0.68
452 9 0.01
455 2 0.00
456 1 0.00
459 2 0.00
460 3 0.00
462 43 0.07
463 34 0.05
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.29
Consensus pattern (452 bp):
AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCATTCGATGGATCA
ACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
AGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCATTAGATGGATCAACATTTCCAGAGAAAGT
TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC
TTTTCACTTAAATTCATCATTCGATGGATCAGCATTACCAGGTAGAGTTCATAATGAGAAGAACT
CATCTGAAGAATAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCACTTGAATTCAT
CATTCGATGGATCAACATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAA
Found at i:98795 original size:123 final size:124
Alignment explanation
Indices: 98499--98800 Score: 417
Period size: 123 Copynumber: 2.4 Consensus size: 124
98489 CATTCGATGG
* ** * *
98499 ATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCAT
1 ATCAACATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
*
98564 AATAAGAAGAACTTGTTAAACCTTTTGCTCGACTCTATCCCAGAAGGAGATAAATCAGC
66 AATAAGAAGAACTTGTTAAACCTTTTGCTCGACTCTATCACAGAAGGAGATAAATCAGC
* *
98623 ATCAACATTTTCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
1 ATCAACATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
* * * * * * * * *
98688 AATGAGAAGAGCTTGTTCAACC-TTTGTTTGATTCTATCACAGAATGAGATAGATCAGT
66 AATAAGAAGAACTTGTTAAACCTTTTGCTCGACTCTATCACAGAAGGAGATAAATCAGC
* * *
98746 ATCAGCATTTCCATAAAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGA
1 ATCAACATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
98801 GAATTTGTTC
Statistics
Matches: 157, Mismatches: 21, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
123 79 0.50
124 78 0.50
ACGTcount: A:0.41, C:0.15, G:0.19, T:0.25
Consensus pattern (124 bp):
ATCAACATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
AATAAGAAGAACTTGTTAAACCTTTTGCTCGACTCTATCACAGAAGGAGATAAATCAGC
Found at i:100438 original size:24 final size:22
Alignment explanation
Indices: 100390--100438 Score: 53
Period size: 24 Copynumber: 2.1 Consensus size: 22
100380 GTTTTAATAG
* *
100390 TATTTTTATTTTTATGAATAAA
1 TATTTTTATTTTCATAAATAAA
*
100412 TATTTTTATATATTCATAAATATA
1 TATTTTTAT-T-TTCATAAATAAA
100436 TAT
1 TAT
100439 AATAGTAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 9 0.41
23 1 0.05
24 12 0.55
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (22 bp):
TATTTTTATTTTCATAAATAAA
Found at i:105017 original size:16 final size:16
Alignment explanation
Indices: 104996--105037 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
104986 TAAAGTTATG
*
104996 GGATCATTTTGAGTTT
1 GGATCATTTTGAGTCT
*
105012 GGATCATTGTGAGTCT
1 GGATCATTTTGAGTCT
105028 GGATCATTTT
1 GGATCATTTT
105038 TGGGTTCTGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.19, C:0.10, G:0.26, T:0.45
Consensus pattern (16 bp):
GGATCATTTTGAGTCT
Found at i:112977 original size:15 final size:15
Alignment explanation
Indices: 112959--113013 Score: 65
Period size: 15 Copynumber: 3.6 Consensus size: 15
112949 TAACCGGTTT
112959 CGGTTTTAAAAAAAC
1 CGGTTTTAAAAAAAC
* *
112974 CGGTTTTTTAAAAAAT
1 CGG-TTTTAAAAAAAC
*
112990 CGGTTATAAAAAAAC
1 CGGTTTTAAAAAAAC
*
113005 CGATTTTAA
1 CGGTTTTAA
113014 TATTCCAGAT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
15 19 0.59
16 13 0.41
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.33
Consensus pattern (15 bp):
CGGTTTTAAAAAAAC
Found at i:112986 original size:16 final size:16
Alignment explanation
Indices: 112962--113011 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
112952 CCGGTTTCGG
112962 TTTTAAAAAAACCGGT
1 TTTTAAAAAAACCGGT
* *
112978 TTTTTAAAAAATCGG-
1 TTTTAAAAAAACCGGT
* *
112993 TTATAAAAAAACCGAT
1 TTTTAAAAAAACCGGT
113009 TTT
1 TTT
113012 AATATTCCAG
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
15 11 0.42
16 15 0.58
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.36
Consensus pattern (16 bp):
TTTTAAAAAAACCGGT
Found at i:113430 original size:13 final size:13
Alignment explanation
Indices: 113409--113463 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
113399 AAGTTCGATA
*
113409 AATTTAAATACTT
1 AATTGAAATACTT
113422 AATTGAAATACTT
1 AATTGAAATACTT
* *
113435 AATT-AACTCAACAT
1 AATTGAAAT--ACTT
113449 AATTGAAATACTT
1 AATTGAAATACTT
113462 AA
1 AA
113464 ATACTTCCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.49, C:0.11, G:0.04, T:0.36
Consensus pattern (13 bp):
AATTGAAATACTT
Found at i:113540 original size:32 final size:33
Alignment explanation
Indices: 113449--113547 Score: 155
Period size: 33 Copynumber: 3.0 Consensus size: 33
113439 AACTCAACAT
* * *
113449 AATTGAAATACTTAAATACTTCCAAGTTTGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
113482 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
*
113515 AATTCAAATACTAAAAAACTT-CAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
113547 A
1 A
113548 TTGAAACAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
32 12 0.19
33 50 0.81
ACGTcount: A:0.46, C:0.15, G:0.07, T:0.31
Consensus pattern (33 bp):
AATTCAAATACTTAAAAACTTCCAAGTTCGATA
Found at i:113566 original size:21 final size:21
Alignment explanation
Indices: 113542--113581 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
113532 ACTTCAAGTT
113542 CGATAATTGAAACAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
*
113563 CGATAATTGAAATAAAGTT
1 CGATAATTGAAACAAAGTT
113582 ATAAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.07, G:0.15, T:0.30
Consensus pattern (21 bp):
CGATAATTGAAACAAAGTTTA
Found at i:115904 original size:11 final size:12
Alignment explanation
Indices: 115883--115928 Score: 56
Period size: 12 Copynumber: 3.6 Consensus size: 12
115873 TCCGGATAAA
115883 AACCGGTTTTTT
1 AACCGGTTTTTT
115895 AACCGGTTTTTTT
1 AACCGG-TTTTTT
115908 CAAACCGGTTTTTT
1 --AACCGGTTTTTT
*
115922 ATCCGGT
1 AACCGGT
115929 AAAAAAACCG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
12 12 0.40
13 6 0.20
14 6 0.20
15 6 0.20
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.46
Consensus pattern (12 bp):
AACCGGTTTTTT
Found at i:115913 original size:15 final size:14
Alignment explanation
Indices: 115882--115921 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
115872 TTCCGGATAA
115882 AAACCGG-TTTTTT
1 AAACCGGTTTTTTT
115895 -AACCGGTTTTTTT
1 AAACCGGTTTTTTT
115908 CAAACCGGTTTTTT
1 -AAACCGGTTTTTT
115922 ATCCGGTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 6 0.25
13 6 0.25
15 12 0.50
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.47
Consensus pattern (14 bp):
AAACCGGTTTTTTT
Found at i:115997 original size:20 final size:20
Alignment explanation
Indices: 115972--116011 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
115962 GTTAAAATAA
* *
115972 CCGGTTTAAAAAAATCCGAT
1 CCGGTTAAAAAAAAACCGAT
115992 CCGGTTAAAAAAAAACCGAT
1 CCGGTTAAAAAAAAACCGAT
116012 TTTTCCCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.20, G:0.15, T:0.20
Consensus pattern (20 bp):
CCGGTTAAAAAAAAACCGAT
Found at i:116187 original size:24 final size:23
Alignment explanation
Indices: 116155--116230 Score: 77
Period size: 24 Copynumber: 3.3 Consensus size: 23
116145 TTGCTCATAT
116155 TTAAAAAATATATATATTAAAAAA
1 TTAAAAAATATA-ATATTAAAAAA
*
116179 TTAAAAAATA-GAT-TTAAAAAA
1 TTAAAAAATATAATATTAAAAAA
* *
116200 TTATTATAATATAA-ATTAAAAAA
1 TTA-AAAAATATAATATTAAAAAA
116223 CTTAAAAA
1 -TTAAAAA
116231 TTGGATTTGC
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
21 11 0.26
22 7 0.17
23 11 0.26
24 13 0.31
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (23 bp):
TTAAAAAATATAATATTAAAAAA
Found at i:116216 original size:36 final size:37
Alignment explanation
Indices: 116153--116222 Score: 101
Period size: 36 Copynumber: 1.9 Consensus size: 37
116143 AATTGCTCAT
116153 ATTTAAAAAATATATATATTAAAAAATTAAAAAATAG
1 ATTTAAAAAATATATATATTAAAAAATTAAAAAATAG
116190 ATTTAAAAAAT-TAT-TA-TAATATAAATTAAAAAA
1 ATTTAAAAAATATATATATTAA-A-AAATTAAAAAA
116223 CTTAAAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
34 3 0.10
35 3 0.10
36 14 0.45
37 11 0.35
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.34
Consensus pattern (37 bp):
ATTTAAAAAATATATATATTAAAAAATTAAAAAATAG
Found at i:127144 original size:26 final size:26
Alignment explanation
Indices: 127094--127151 Score: 66
Period size: 25 Copynumber: 2.2 Consensus size: 26
127084 TAAGAATTTT
* *
127094 TTTTTGTAATATCTTATAATAAT-AA
1 TTTTTATAACATCTTATAATAATAAA
127119 TTTTTATAACATCTTAT-ATGAGATAAA
1 TTTTTATAACATCTTATAAT-A-ATAAA
127146 TTTTTA
1 TTTTTA
127152 AAGCAATGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 2 0.07
25 16 0.57
26 2 0.07
27 8 0.29
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.52
Consensus pattern (26 bp):
TTTTTATAACATCTTATAATAATAAA
Found at i:130655 original size:31 final size:31
Alignment explanation
Indices: 130620--130696 Score: 102
Period size: 31 Copynumber: 2.5 Consensus size: 31
130610 TAGGTCCCTA
*
130620 AGAACCTAGGTAAACTATCCATATATCCCGT
1 AGAACATAGGTAAACTATCCATATATCCCGT
* *
130651 AGAACATAGGTAAACTGTCCATATGTCCCG-
1 AGAACATAGGTAAACTATCCATATATCCCGT
*
130681 AAAGACATAGGTAAAC
1 AGA-ACATAGGTAAAC
130697 CCTCGACTCT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 2 0.05
31 39 0.95
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.22
Consensus pattern (31 bp):
AGAACATAGGTAAACTATCCATATATCCCGT
Found at i:133623 original size:21 final size:21
Alignment explanation
Indices: 133597--133640 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
133587 ATTTATGGGA
* *
133597 AAGGGGAATCGGTACCCATTC
1 AAGGGGAACCGATACCCATTC
*
133618 AAGGGGAACCGATACCCCTTC
1 AAGGGGAACCGATACCCATTC
133639 AA
1 AA
133641 ACGAACAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.32, C:0.27, G:0.25, T:0.16
Consensus pattern (21 bp):
AAGGGGAACCGATACCCATTC
Found at i:135086 original size:23 final size:23
Alignment explanation
Indices: 135060--135127 Score: 100
Period size: 23 Copynumber: 3.0 Consensus size: 23
135050 ATTATTATAT
135060 GGCACTTCGGTGCATTTCTACGC
1 GGCACTTCGGTGCATTTCTACGC
* * *
135083 GGCACTACGGTGCAATTCTACGT
1 GGCACTTCGGTGCATTTCTACGC
*
135106 GGCACTTCGGTGCATTTGTACG
1 GGCACTTCGGTGCATTTCTACG
135128 AGCTGTGGTA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.29
Consensus pattern (23 bp):
GGCACTTCGGTGCATTTCTACGC
Found at i:138731 original size:21 final size:21
Alignment explanation
Indices: 138705--138749 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
138695 GATTTCTGGG
* *
138705 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
138726 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
138747 CAA
1 CAA
138750 ACGAACAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:140200 original size:23 final size:23
Alignment explanation
Indices: 140174--140234 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
140164 TATTATATGA
*
140174 CACTTCGGTGCATTTCTACGCGG
1 CACTTCGATGCATTTCTACGCGG
* * * *
140197 CACTACGATGTAATTCTACGTGG
1 CACTTCGATGCATTTCTACGCGG
140220 CACTTCGATGCATTT
1 CACTTCGATGCATTT
140235 ATACAAGCTG
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.20, C:0.26, G:0.21, T:0.33
Consensus pattern (23 bp):
CACTTCGATGCATTTCTACGCGG
Found at i:148165 original size:22 final size:22
Alignment explanation
Indices: 148133--148175 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
148123 AAAATAAATC
*
148133 TGCACAGCCTATACAAAATCAG
1 TGCACAACCTATACAAAATCAG
148155 TGCACAACCTATACAAAATCA
1 TGCACAACCTATACAAAATCA
148176 ATGATTGGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.09, T:0.19
Consensus pattern (22 bp):
TGCACAACCTATACAAAATCAG
Found at i:148650 original size:5 final size:5
Alignment explanation
Indices: 148636--148684 Score: 62
Period size: 5 Copynumber: 9.8 Consensus size: 5
148626 GTCCGTCCGT
* * * *
148636 CTCGT CTCGG CTCGG CACGG CACGG CACGG CTCGG CTCGG CTCGG CTCG
1 CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCG
148685 TGGTCGTGGT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 41 1.00
ACGTcount: A:0.06, C:0.41, G:0.37, T:0.16
Consensus pattern (5 bp):
CTCGG
Found at i:148693 original size:6 final size:6
Alignment explanation
Indices: 148682--148742 Score: 95
Period size: 6 Copynumber: 10.2 Consensus size: 6
148672 TCGGCTCGGC
* * *
148682 TCGTGG TCGTGG TCGTGG TCGTGG TCGAGG TCGAGG TCGAGG TCGTGG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
148730 TCGTGG TCGTGG T
1 TCGTGG TCGTGG T
148743 AATACGTGTC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 53 1.00
ACGTcount: A:0.05, C:0.16, G:0.49, T:0.30
Consensus pattern (6 bp):
TCGTGG
Found at i:149042 original size:22 final size:22
Alignment explanation
Indices: 149017--149071 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
149007 TCAGGAGTTA
* *
149017 CAGGAGTTATTTGATTTAATTC
1 CAGGAGTTATATGATATAATTC
* * *
149039 CAGGGGTTACATGATATAATTT
1 CAGGAGTTATATGATATAATTC
*
149061 CGGGAGTTATA
1 CAGGAGTTATA
149072 ACAGCTGAAT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (22 bp):
CAGGAGTTATATGATATAATTC
Found at i:154609 original size:5 final size:5
Alignment explanation
Indices: 154595--154642 Score: 53
Period size: 5 Copynumber: 9.8 Consensus size: 5
154585 GTCCGTCCGT
* * * *
154595 CTCGT CTCGG CTCGG CACGG CACGG CACGG CTC-G CTCGG CTCGG CTCG
1 CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCG
154643 TGGTCGTGGT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
4 4 0.10
5 35 0.90
ACGTcount: A:0.06, C:0.42, G:0.35, T:0.17
Consensus pattern (5 bp):
CTCGG
Found at i:154651 original size:6 final size:6
Alignment explanation
Indices: 154640--154700 Score: 95
Period size: 6 Copynumber: 10.2 Consensus size: 6
154630 TCGGCTCGGC
* * *
154640 TCGTGG TCGTGG TCGTGG TCGTGG TCGAGG TCGAGG TCGAGG TCGTGG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
154688 TCGTGG TCGTGG T
1 TCGTGG TCGTGG T
154701 AATACGTGTC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 53 1.00
ACGTcount: A:0.05, C:0.16, G:0.49, T:0.30
Consensus pattern (6 bp):
TCGTGG
Found at i:154998 original size:22 final size:22
Alignment explanation
Indices: 154973--155027 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
154963 TCAGGAGTTA
* *
154973 CAGGAGTTATTTGATTTAATTC
1 CAGGAGTTATATGATATAATTC
* * *
154995 CAGGGGTTACATGATATAATTT
1 CAGGAGTTATATGATATAATTC
*
155017 CGGGAGTTATA
1 CAGGAGTTATA
155028 ACAGCTGAAT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (22 bp):
CAGGAGTTATATGATATAATTC
Found at i:157635 original size:18 final size:17
Alignment explanation
Indices: 157594--157636 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
157584 TATAACTTAT
*
157594 TATTTAATATAATATAA
1 TATTTTATATAATATAA
*
157611 AATTTTTATATAATATATA
1 TA-TTTTATATAATATA-A
157630 TATTTTA
1 TATTTTA
157637 ATCGTAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
17 1 0.05
18 18 0.86
19 2 0.10
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TATTTTATATAATATAA
Found at i:159784 original size:3 final size:3
Alignment explanation
Indices: 159776--159823 Score: 62
Period size: 3 Copynumber: 16.0 Consensus size: 3
159766 TTTACCCATT
* *
159776 TTA TTA TTA TTA TAA TTA TTA TAA TTA TTA -TA TATA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
159821 TTA
1 TTA
159824 AAAAAAGTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
2 2 0.05
3 34 0.87
4 3 0.08
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:159802 original size:18 final size:18
Alignment explanation
Indices: 159776--159823 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
159766 TTTACCCATT
159776 TTATTATTATTATA-ATTA
1 TTATTATTATTATATA-TA
*
159794 TTATAATTATTATATATA
1 TTATTATTATTATATATA
159812 TTATTATTATTA
1 TTATTATTATTA
159824 AAAAAAGTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 26 0.96
19 1 0.04
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TTATTATTATTATATATA
Found at i:161162 original size:21 final size:20
Alignment explanation
Indices: 161135--161233 Score: 72
Period size: 21 Copynumber: 4.8 Consensus size: 20
161125 AATCAGTTTC
161135 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * * *
161156 GAAAATCGCGATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
161177 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
161197 CAATAATCGCAACGCGAATAT
1 CAA-AATCGCAACGCGATTTT
*
161218 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
161234 ACACATAAAT
Statistics
Matches: 59, Mismatches: 17, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
20 17 0.29
21 42 0.71
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.22
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:161226 original size:20 final size:20
Alignment explanation
Indices: 161201--161394 Score: 76
Period size: 20 Copynumber: 9.7 Consensus size: 20
161191 GATTTTCAAT
* *
161201 AATCGCAACGCGAATATGA-A
1 AATCGCAACGCGAACA-CATA
161221 AATCGCAACGCGAACACATA
1 AATCGCAACGCGAACACATA
* *
161241 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
161261 AATCGCAACGTGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* ****
161281 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGAACACATA
* * *
161301 AATCGCAATGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
161321 TATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
** *
161341 AATCGCAACGATAATACATAA
1 AATCGCAACGCGAACACAT-A
* *
161362 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
161382 AATCGCAACGCGA
1 AATCGCAACGCGA
161395 TATTTAAAGC
Statistics
Matches: 139, Mismatches: 28, Indels: 15
0.76 0.15 0.08
Matches are distributed among these distances:
19 3 0.02
20 120 0.86
21 15 0.11
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAACACATA
Found at i:161246 original size:40 final size:39
Alignment explanation
Indices: 161201--161394 Score: 199
Period size: 40 Copynumber: 4.8 Consensus size: 39
161191 GATTTTCAAT
* ** *
161201 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAAC-CATA
* * *
161241 AATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCATA
** * * *
161281 AATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCATA
* ** *
161321 TATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAA-CCAT-A
161362 AATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGA
161395 TATTTAAAGC
Statistics
Matches: 128, Mismatches: 23, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 94 0.73
41 33 0.26
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (39 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAACCATA
Found at i:161284 original size:60 final size:60
Alignment explanation
Indices: 161201--161393 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
161191 GATTTTCAAT
* ** * *
161201 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* * *** *
161261 AATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* **
161321 TATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGTA
161382 AATCGCAACGCG
1 AATCGCAACGCG
161394 ATATTTAAAG
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 80 0.72
61 31 0.28
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
Found at i:161814 original size:33 final size:33
Alignment explanation
Indices: 161775--161845 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
161765 TTCACTTAGA
*
161775 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
161808 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
161841 TTTCA
1 TTTCA
161846 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:161985 original size:14 final size:14
Alignment explanation
Indices: 161966--162020 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
161956 AGAATGACTG
161966 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
*
161980 TCGCAACGCGAAATGAAAA
1 TCGCAA--CG--A-GAGAA
161999 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
162013 TCGCAACG
1 TCGCAACG
162021 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.42, C:0.24, G:0.25, T:0.09
Consensus pattern (14 bp):
TCGCAACGAGAGAA
Found at i:162003 original size:33 final size:33
Alignment explanation
Indices: 161966--162036 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
161956 AGAATGACTG
**
161966 TCGCAACGAGAGAATCGCAACGCGAAATGAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
161999 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
162032 TCGCA
1 TCGCA
162037 TTGCGATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.44, C:0.25, G:0.23, T:0.08
Consensus pattern (33 bp):
TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
Found at i:162054 original size:19 final size:19
Alignment explanation
Indices: 162032--162129 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
162022 GAAACCAAAA
*
162032 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
162051 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
162065 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
162084 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
162098 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
162117 TCGCGTTGCGATT
1 TCGCGTTGCGATT
162130 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:162073 original size:14 final size:14
Alignment explanation
Indices: 162054--162143 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
162044 TTTCATTTCG
162054 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
162068 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
162087 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
162101 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
162118 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
162134 CGTTGCGATT
1 CGTTGCGATT
162144 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:162079 original size:33 final size:33
Alignment explanation
Indices: 162037--162151 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
162027 CAAAATCGCA
162037 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
162070 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
162103 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
162136 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
162152 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:164029 original size:19 final size:19
Alignment explanation
Indices: 163989--164117 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
163979 TAGTTTACTT
* *
163989 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
164009 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
164028 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
164047 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
164061 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
164080 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
164094 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
164113 TCGCA
1 TCGCA
164118 TTGCGATTTC
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:164068 original size:33 final size:32
Alignment explanation
Indices: 164025--164117 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
164015 CGCGAAACCA
**
164025 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
164057 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
164090 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
164118 TTGCGATTTC
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:164115 original size:52 final size:52
Alignment explanation
Indices: 163989--164117 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
163979 TAGTTTACTT
**
163989 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
164041 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
164094 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
164118 TTGCGATTTC
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:164153 original size:14 final size:14
Alignment explanation
Indices: 164134--164190 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
164124 TTTCATTTCG
164134 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
164148 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
164165 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
164181 CGTTGCGATT
1 CGTTGCGATT
164191 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:164165 original size:33 final size:33
Alignment explanation
Indices: 164118--164209 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
164108 CAAAATCGCA
*
164118 TTGCGA-TTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
164150 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
164183 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
164210 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
32 6 0.11
33 50 0.89
ACGTcount: A:0.11, C:0.21, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:164174 original size:19 final size:19
Alignment explanation
Indices: 164113--164246 Score: 119
Period size: 19 Copynumber: 7.6 Consensus size: 19
164103 GAAACCAAAA
*
164113 TCGCATTGCGA-TTTCATT
1 TCGCGTTGCGATTTTCATT
164131 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
164147 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
164164 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
164180 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
164197 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
164216 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
164236 TCGTGTTGCGA
1 TCGCGTTGCGA
164247 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 20
0.76 0.08 0.16
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
18 10 0.11
19 36 0.38
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:166158 original size:14 final size:14
Alignment explanation
Indices: 166139--166174 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
166129 ATTGTTTAAT
166139 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
166153 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
166167 TGATTTGT
1 TGATTTGT
166175 GTAATTGATG
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:166348 original size:20 final size:19
Alignment explanation
Indices: 166280--166362 Score: 113
Period size: 19 Copynumber: 4.6 Consensus size: 19
166270 AAAAATGACT
166280 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
166299 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
166313 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
166332 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
166352 ATCGCAATGCG
1 ATCGCAATGCG
166363 TTATAATTTC
Statistics
Matches: 56, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
14 10 0.18
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 21 0.38
20 19 0.34
ACGTcount: A:0.43, C:0.18, G:0.24, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:166420 original size:19 final size:19
Alignment explanation
Indices: 166390--166661 Score: 336
Period size: 19 Copynumber: 15.4 Consensus size: 19
166380 GATTATCTCG
166390 TTGCGA-TTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
166408 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
166427 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
166441 TTGCGA-TTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
166459 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
166478 TTGCGATTTCCATTTCGCA
1 TTGCGATTTTCATTTCGCA
166497 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
166516 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
166535 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
166549 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
166568 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
166587 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
166601 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
166621 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
166635 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
166654 TTGCGATT
1 TTGCGATT
166662 GTATTTTCCG
Statistics
Matches: 224, Mismatches: 8, Indels: 43
0.81 0.03 0.16
Matches are distributed among these distances:
14 29 0.13
15 3 0.01
16 26 0.12
17 16 0.07
18 15 0.07
19 123 0.55
20 12 0.05
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:166575 original size:52 final size:52
Alignment explanation
Indices: 166368--166633 Score: 437
Period size: 52 Copynumber: 5.0 Consensus size: 52
166358 ATGCGTTATA
*
166368 ATTTCGCATTGCGATTATCTCGTTGCGA-TTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
166419 ATTTCGCATTGCGATTCTTTCGTTGCGA-TTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
166470 ATTTCGCATTGCGATTTCCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGA-TT-C-TCTCG--TTGCGATTTTCATTTCGCATTGCGATTTTC
166527 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
166579 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTC
166632 AT
1 AT
166634 GTTGGGATTT
Statistics
Matches: 205, Mismatches: 3, Indels: 12
0.93 0.01 0.05
Matches are distributed among these distances:
51 63 0.31
52 69 0.34
53 18 0.09
54 9 0.04
55 1 0.00
56 8 0.04
57 37 0.18
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.46
Consensus pattern (52 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:169156 original size:24 final size:24
Alignment explanation
Indices: 169122--169168 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
169112 CTGAAACATC
169122 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
169146 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
169169 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:169870 original size:20 final size:20
Alignment explanation
Indices: 169842--170231 Score: 457
Period size: 20 Copynumber: 19.4 Consensus size: 20
169832 AAATTTCAGT
* * * *
169842 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
169862 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
169882 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
169902 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
169922 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
169942 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
169962 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
169982 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
170002 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
170022 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
170042 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* * *
170062 GTTGCGATTTTATGTATTA-TC
1 GTTGCGA-TTTACGGA-TACGC
170083 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
170103 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
170123 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
170143 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
170163 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
170183 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
170203 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
170223 GTTGCGATT
1 GTTGCGATT
170232 ATTGAAAATC
Statistics
Matches: 323, Mismatches: 36, Indels: 22
0.85 0.09 0.06
Matches are distributed among these distances:
19 7 0.02
20 295 0.91
21 19 0.06
22 2 0.01
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.36
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:174850 original size:15 final size:15
Alignment explanation
Indices: 174830--174861 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
174820 ATCAATATCT
174830 TTTTGCATACATGCA
1 TTTTGCATACATGCA
*
174845 TTTTGCATACATTCA
1 TTTTGCATACATGCA
174860 TT
1 TT
174862 ATTCATTGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATGCA
Found at i:183300 original size:29 final size:29
Alignment explanation
Indices: 183267--183332 Score: 114
Period size: 29 Copynumber: 2.3 Consensus size: 29
183257 AATCATTAAA
*
183267 TTTGGAAGATGAATGTGCTCATAGCATCT
1 TTTGGAAGATGAATATGCTCATAGCATCT
183296 TTTGGAAGATGAATATGCTCATAGCATCT
1 TTTGGAAGATGAATATGCTCATAGCATCT
*
183325 TCTGGAAG
1 TTTGGAAG
183333 TGTTCTTTGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (29 bp):
TTTGGAAGATGAATATGCTCATAGCATCT
Found at i:183419 original size:123 final size:119
Alignment explanation
Indices: 183192--183426 Score: 398
Period size: 123 Copynumber: 1.9 Consensus size: 119
183182 AAGTGCCGTG
183192 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTAGGGTATGAACCCCAAAAACC
1 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTAGGGTATGAACCCCAAAAACC
* *
183257 AATCATTAAATTTGGAAGATGAATGTGCTCATAGCATCTTTTGGAAGATGAATA
66 AATCATTAAATTTGAAAGATGAATATGCTCATAGCATCTTTTGGAAGATGAATA
*
183311 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAAAA
1 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTAG---GGTATGAACCCC-AAA
*
183376 AACCAATCATTTAATTTGAAAGATGAATATGCTCATAGCATCTTTTGGAAG
62 AACCAATCATTAAATTTGAAAGATGAATATGCTCATAGCATCTTTTGGAAG
183427 TGTTCTTTGA
Statistics
Matches: 108, Mismatches: 4, Indels: 4
0.93 0.03 0.03
Matches are distributed among these distances:
119 45 0.42
122 12 0.11
123 51 0.47
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (119 bp):
TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTAGGGTATGAACCCCAAAAACC
AATCATTAAATTTGAAAGATGAATATGCTCATAGCATCTTTTGGAAGATGAATA
Found at i:183462 original size:94 final size:93
Alignment explanation
Indices: 183296--183600 Score: 520
Period size: 94 Copynumber: 3.3 Consensus size: 93
183286 CATAGCATCT
*
183296 TTTGGAAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTG
1 TTTGAAAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTG
*
183361 GTATGAACCCCAAAAAACCAATCATTTAA
66 GTATGAACCAC-AAAAACCAATCATTTAA
*
183390 TTTGAAAGATGAATATGCTCATAGCATCTTTTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTG
1 TTTGAAAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTG
* *
183455 GTATGAACCTCGAAAAGCCAATCATTTAA
66 GTATGAACCAC-AAAAACCAATCATTTAA
*
183484 TTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTG
1 TTTGAAAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTG
*
183549 GTATGAACCACAAAAACCAATCATTGAA
66 GTATGAACCACAAAAACCAATCATTTAA
*
183577 TTTGAAAGATGAATGTGCTCATAG
1 TTTGAAAGATGAATATGCTCATAG
183601 TAGAAATAAA
Statistics
Matches: 201, Mismatches: 10, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
93 39 0.19
94 162 0.81
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.35
Consensus pattern (93 bp):
TTTGAAAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTG
GTATGAACCACAAAAACCAATCATTTAA
Found at i:184899 original size:229 final size:227
Alignment explanation
Indices: 184386--185184 Score: 1033
Period size: 229 Copynumber: 3.5 Consensus size: 227
184376 TAGCAAAGAT
*
184386 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAATTCATCTGA
1 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
*
184451 AGAAGGAAGAAGAAGTTCAAAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCATTTGA
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCATTTGA
* *
184516 TGGATTAACATTG-AAGAAAGTTCATAATGAGAAGAACTCATCATTCTGAAGAAGGAAGAAGAAA
131 TGGATTAACATTGCCAGAGAGTTCATAATGAGAAGAACTCATCA-TCTGAAGAAGGAAGAAGAAA
*
184580 TTCATAATGAGAAGAATTTATTCAACCTTTCGC
195 TTCATAATGAGAAGAATTTATTCAACCTTTTGC
*
184613 TCAAATCCATCATTTGA-AGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
184677 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCATTTGA
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCATTTGA
184742 TGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCATCTGAAGAAGGAAGAAGAA
131 TGGATTAACATTGCCA-G-AGAGTTCATAATGAGAAGAACTCATCATCTGAAGAAGGAAGAAGAA
*
184807 ATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
194 ATTCATAATGAGAAGAATTTATTCAACCTTTTGC
* ****
184841 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGTTTGAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
* * * * * *
184906 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTTAACTTTTTGCTCAAATCCATCACTTGA
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCATTTGA
* *** * *
184971 TGGATCAGTTTTTCCAGAGAAGTTCATAATGAGAAGAA--C-TCATCTGAAGAA-G-A-AA-AAG
131 TGGATTAACATTGCCAGAG-AGTTCATAATGAGAAGAACTCATCATCTGAAGAAGGAAGAAGAAA
* **
185029 TTCACAATGAGAAGAGCTTATTCAACCTTTTGC
195 TTCATAATGAGAAGAATTTATTCAACCTTTTGC
* * * * * * *
185062 AT-AATTCTATCACAGAAGCAGATAGATTAGCATCAACCTTTCCAGAGAAAGTTCATAATGAGAA
1 -TCAA----ATC-C---ATCA-TTTGA-T-GGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAA
* * ** *
185126 GAACTCATCTGAAGGAGAAAGAAGAAGTTCATAATGAGAAGAGCTTATTCAACCTTTTG
54 GAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTG
185185 AATGACTCTA
Statistics
Matches: 509, Mismatches: 46, Indels: 29
0.87 0.08 0.05
Matches are distributed among these distances:
221 33 0.06
222 3 0.01
223 1 0.00
224 1 0.00
225 15 0.03
226 124 0.24
227 20 0.04
228 87 0.17
229 141 0.28
230 3 0.01
231 1 0.00
232 80 0.16
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (227 bp):
TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCATTTGA
TGGATTAACATTGCCAGAGAGTTCATAATGAGAAGAACTCATCATCTGAAGAAGGAAGAAGAAAT
TCATAATGAGAAGAATTTATTCAACCTTTTGC
Found at i:184955 original size:113 final size:111
Alignment explanation
Indices: 184386--185184 Score: 874
Period size: 113 Copynumber: 7.0 Consensus size: 111
184376 TAGCAAAGAT
*
184386 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAATTCATCTGA
1 TCAAATCCATCATTTGATGGATCAGCTTTTCCAG--AAAGTTCATAATGAGAAGAACTCATCTGA
* *
184451 AGAAGGAAGAAGAAGTTCAAAATGAGAAGAATTTGTTCAACCTTTTGT
64 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* * * * * **
184499 TTAAATTCATCATTTGATGGATTAAC-ATTGAAGAAAGTTCATAATGAGAAGAACTCATCATTCT
1 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAGTTCATAATGAGAAGAA--C-TCA-TCT
* * *
184563 GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTATTCAACCTTTCGC
62 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
*
184613 TCAAATCCATCATTTGA-AGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATTTGATGGATCAGCTTTTCCAG--AAAGTTCATAATGAGAAGAACTCATCTGA
*
184677 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGT
64 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* * * * * * *
184725 TTAAATTCATCATTTGATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCATC
1 TCAAATCCATCATTTGATGGATCAGCTTTTCCA-G-AAAGTTCATAATGAGAAGAA--C-TCATC
*
184790 TGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
61 TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* **
184841 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGTTTGAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATTTGATGGATCAGCTTTTCCAG--AAAGTTCATAATGAGAAGAACTCATCTGA
* *
184906 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTTAACTTTTTGC
64 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* *
184954 TCAAATCCATCACTTGATGGATCAGTTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAA
1 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGA-AAGTTCATAATGAGAAGAACTCATCTGAA
* ** *
185019 GAA-G-A-AA-AAGTTCACAATGAGAAGAGCTTATTCAACCTTTTGC
65 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* * * * * *
185062 AT-AATTCTATCACAGAAGCAGATAGATTAGCATCAACCTTTCCAGAGAAAGTTCATAATGAGAA
1 -TCAA----ATC-C---ATCA-TTTGA-T-GGATCAGCTTTTCC--AGAAAGTTCATAATGAGAA
* * ** *
185126 GAACTCATCTGAAGGAGAAAGAAGAAGTTCATAATGAGAAGAGCTTATTCAACCTTTTG
52 GAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTG
185185 AATGACTCTA
Statistics
Matches: 588, Mismatches: 66, Indels: 53
0.83 0.09 0.07
Matches are distributed among these distances:
108 32 0.05
109 3 0.01
110 21 0.04
111 1 0.00
112 102 0.17
113 149 0.25
114 70 0.12
115 2 0.00
116 123 0.21
117 3 0.01
118 1 0.00
119 10 0.02
120 31 0.05
121 3 0.01
122 1 0.00
123 2 0.00
124 34 0.06
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (111 bp):
TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
Found at i:185220 original size:124 final size:122
Alignment explanation
Indices: 184981--185266 Score: 379
Period size: 124 Copynumber: 2.4 Consensus size: 122
184971 TGGATCAGTT
184981 TTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTG-A-AGAAGAAAAAGTTCACAATGAGAAG
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGAAGAAAAAGTTCACAATGAGAAG
* * * * *
185043 AGCTTATTCAACCTTTTGCATAATTCTATCACAGAAGCAGATAGATTAGCATCAACC
66 AGCTTATTCAACCTTTTGAATAACTCTATCACAGAAGCAAATAGATCAACATCAACC
* *
185100 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGGAGAAAGAAGAAGTTCATAATGAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA-GAG-AAGAAAAAGTTCACAATGAGA
* * * *
185165 AGAGCTTATTCAACCTTTTGAATGACTCTATCACAGAAGGAAATAGGTCAACATCATCC
64 AGAGCTTATTCAACCTTTTGAATAACTCTATCACAGAAGCAAATAGATCAACATCAACC
* *
185224 ---CCAGCGAAAAGTTCATAATGAGAAGAACTCATCCGAAGA-AAGA
1 TTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAGAGAAGA
185267 GAAGAATTTA
Statistics
Matches: 148, Mismatches: 13, Indels: 12
0.86 0.08 0.07
Matches are distributed among these distances:
119 13 0.09
120 27 0.18
121 8 0.05
122 29 0.20
123 2 0.01
124 69 0.47
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.23
Consensus pattern (122 bp):
TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGAAGAAAAAGTTCACAATGAGAAG
AGCTTATTCAACCTTTTGAATAACTCTATCACAGAAGCAAATAGATCAACATCAACC
Found at i:185418 original size:3 final size:3
Alignment explanation
Indices: 185410--185448 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
185400 TTTACCCATT
*
185410 TTA TTA TTA TTA TAA TTA TTA -TA TATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
185449 AATAATAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.84
4 3 0.09
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:190820 original size:2 final size:2
Alignment explanation
Indices: 190808--190890 Score: 150
Period size: 2 Copynumber: 41.5 Consensus size: 2
190798 GTACAATTGA
190808 AT AT CAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
190851 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
190891 ATTAAATTTT
Statistics
Matches: 79, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.01
2 76 0.96
3 2 0.03
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:191448 original size:64 final size:62
Alignment explanation
Indices: 191309--191461 Score: 184
Period size: 64 Copynumber: 2.4 Consensus size: 62
191299 ACACCCCATT
* * *
191309 TCGAATGCATTTTATGCATTGATGCACATCATGCATCGATGCACTCAGGATTTTTTTAAAACA
1 TCGAATGCAATTTATGCATTGATGCACATCATGCATCGATGCACTCAGGA-CTATTTAAAACA
* * *
191372 TCGAATTC-ATTTATGCATTGATGCACATACCATGCATCGATGCACTCCATG-CTATTTGAAACA
1 TCGAATGCAATTTATGCATTGATGCACAT--CATGCATCGATGCACT-CAGGACTATTTAAAACA
* *
191435 TCGAAAGCAATTTATGCATCGATGCAC
1 TCGAATGCAATTTATGCATTGATGCAC
191462 CCTTAGTGCA
Statistics
Matches: 77, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
62 19 0.25
63 22 0.29
64 33 0.43
65 3 0.04
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.32
Consensus pattern (62 bp):
TCGAATGCAATTTATGCATTGATGCACATCATGCATCGATGCACTCAGGACTATTTAAAACA
Found at i:191545 original size:21 final size:21
Alignment explanation
Indices: 191521--191577 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
191511 TTTACACTTG
*
191521 ATGCATCGATGCACTTTGACT
1 ATGCATCGATGCACCTTGACT
*
191542 ATGCATCGATTCACCTTGACT
1 ATGCATCGATGCACCTTGACT
*
191563 ATGCATCAATGCACC
1 ATGCATCGATGCACC
191578 CACACTCCCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (21 bp):
ATGCATCGATGCACCTTGACT
Done.