Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001249.1 Hibiscus syriacus cultivar Beakdansim tig00002451_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: 172098
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Found at i:601 original size:13 final size:14
Alignment explanation
Indices: 583--617 Score: 54
Period size: 13 Copynumber: 2.5 Consensus size: 14
573 CATATCTCTC
583 TCTTCATTTA-TCT
1 TCTTCATTTATTCT
596 TCTTCATTTATTCT
1 TCTTCATTTATTCT
610 TCCTTCAT
1 T-CTTCAT
618 CTTCTCTAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 10 0.50
14 4 0.20
15 6 0.30
ACGTcount: A:0.14, C:0.26, G:0.00, T:0.60
Consensus pattern (14 bp):
TCTTCATTTATTCT
Found at i:3266 original size:22 final size:22
Alignment explanation
Indices: 3231--3286 Score: 80
Period size: 22 Copynumber: 2.5 Consensus size: 22
3221 TCAAGAACTA
3231 CTCCTTTCTT-GAAAATATTTTT
1 CTCCTTTCTTAGAAAATA-TTTT
3253 CTCC-TTCTTAGAAAATATTTT
1 CTCCTTTCTTAGAAAATATTTT
3274 CGTCCTTTCTTAG
1 C-TCCTTTCTTAG
3287 TTTTTCGGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
21 10 0.32
22 14 0.45
23 7 0.23
ACGTcount: A:0.21, C:0.21, G:0.07, T:0.50
Consensus pattern (22 bp):
CTCCTTTCTTAGAAAATATTTT
Found at i:6626 original size:34 final size:34
Alignment explanation
Indices: 6588--6655 Score: 84
Period size: 36 Copynumber: 2.0 Consensus size: 34
6578 ATATAGAGTT
*
6588 TTTTAT-AATATTTTAAAAAAATATATATATAATA
1 TTTTATAAACATTTTAAAAAAATA-ATATATAATA
* *
6622 TTTTATGAAACATTTTGAAAATATAATATATAAT
1 TTTTAT-AAACATTTTAAAAAAATAATATATAAT
6656 TTTAAAACAC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
34 6 0.21
35 9 0.31
36 14 0.48
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.46
Consensus pattern (34 bp):
TTTTATAAACATTTTAAAAAAATAATATATAATA
Found at i:19698 original size:2 final size:2
Alignment explanation
Indices: 19693--19733 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
19683 GTTTTTTTTG
19693 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A 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
19734 GTTTTTTATA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:19770 original size:37 final size:39
Alignment explanation
Indices: 19714--19824 Score: 158
Period size: 39 Copynumber: 2.9 Consensus size: 39
19704 ATATATATAT
* * *
19714 ATATATATATATAATATATAGTTTTTTATAATATTTTGA
1 ATATATATATATAATATATAGTTTTTGAAAACATTTTGA
19753 ATATATATATATAATATATAGTTTTTGAAAACATTTTGA
1 ATATATATATATAATATATAGTTTTTGAAAACATTTTGA
*
19792 A-A-ATATATATAATATATA-ATTTT-AAAACATTTT
1 ATATATATATATAATATATAGTTTTTGAAAACATTTT
19825 AATGTATTAT
Statistics
Matches: 68, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
35 10 0.15
36 4 0.06
37 16 0.24
38 1 0.01
39 37 0.54
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.49
Consensus pattern (39 bp):
ATATATATATATAATATATAGTTTTTGAAAACATTTTGA
Found at i:21042 original size:12 final size:12
Alignment explanation
Indices: 20997--21050 Score: 56
Period size: 12 Copynumber: 4.3 Consensus size: 12
20987 TATCCAACAT
20997 TTTTATTTATTTA
1 TTTTATTTA-TTA
* *
21010 TTTGATTTCCTT-
1 TTTTATTT-ATTA
21022 TTATTATTTATTA
1 TT-TTATTTATTA
21035 TTTTATTTATTA
1 TTTTATTTATTA
21047 TTTT
1 TTTT
21051 TATTCACTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
12 18 0.53
13 16 0.47
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.74
Consensus pattern (12 bp):
TTTTATTTATTA
Found at i:21922 original size:23 final size:24
Alignment explanation
Indices: 21889--21943 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
21879 AATAAGTTGT
*
21889 ATATGTGAAAACTAC-AACATTGG
1 ATATGTTAAAACTACAAACATTGG
21912 ATATGTTAAAACTACAAACATTGG
1 ATATGTTAAAACTACAAACATTGG
21936 ATATGTTA
1 ATATGTTA
21944 TTCTATGTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
23 14 0.47
24 16 0.53
ACGTcount: A:0.44, C:0.11, G:0.15, T:0.31
Consensus pattern (24 bp):
ATATGTTAAAACTACAAACATTGG
Found at i:25582 original size:21 final size:21
Alignment explanation
Indices: 25558--25612 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
25548 TTTACACTTG
*
25558 ATGCAGCGATGCACCTTGTGT
1 ATGCATCGATGCACCTTGTGT
25579 ATGCATCGATGCACCTTGTGT
1 ATGCATCGATGCACCTTGTGT
25600 ATGCATCGATGCA
1 ATGCATCGATGCA
25613 TTGACGCTCC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.22, C:0.24, G:0.25, T:0.29
Consensus pattern (21 bp):
ATGCATCGATGCACCTTGTGT
Found at i:30697 original size:21 final size:21
Alignment explanation
Indices: 30655--30698 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
30645 ACTCTGGGAG
* *
30655 CTAGTTCTTCACGAGCTGCTC
1 CTAGCTCTTCACGAGCTCCTC
* *
30676 CTAGCTCTTCTCGTGCTCCTC
1 CTAGCTCTTCACGAGCTCCTC
30697 CT
1 CT
30699 CCTCCGAAAC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.09, C:0.39, G:0.16, T:0.36
Consensus pattern (21 bp):
CTAGCTCTTCACGAGCTCCTC
Found at i:31081 original size:28 final size:28
Alignment explanation
Indices: 31049--31105 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
31039 GGATGATTAA
*
31049 ATTTGATGGTTGT-TGGATGTTTGAACTT
1 ATTTGATGCTT-TATGGATGTTTGAACTT
* *
31077 ATTTGTTGCTTTATGGATTTTTGAACTT
1 ATTTGATGCTTTATGGATGTTTGAACTT
31105 A
1 A
31106 ATATATATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 1 0.04
28 24 0.96
ACGTcount: A:0.19, C:0.05, G:0.23, T:0.53
Consensus pattern (28 bp):
ATTTGATGCTTTATGGATGTTTGAACTT
Found at i:31113 original size:2 final size:2
Alignment explanation
Indices: 31106--31157 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
31096 TTTGAACTTA
31106 AT AT AT 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
31148 AT AT AT AT AT
1 AT AT AT AT AT
31158 CAGTTTGGTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:37709 original size:20 final size:20
Alignment explanation
Indices: 37686--37729 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
37676 TTTTTTTAAA
*
37686 TTTTGGCTTTTGTTTT-TTTT
1 TTTTGCCTTTT-TTTTGTTTT
*
37706 TTTTTCCTTTTTTTTGTTTT
1 TTTTGCCTTTTTTTTGTTTT
37726 TTTT
1 TTTT
37730 AAATAGCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.00, C:0.07, G:0.09, T:0.84
Consensus pattern (20 bp):
TTTTGCCTTTTTTTTGTTTT
Found at i:37710 original size:21 final size:19
Alignment explanation
Indices: 37692--37729 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
37682 TAAATTTTGG
*
37692 CTTTTGTTTTTTTTTTTTTC
1 CTTTT-TTTTGTTTTTTTTC
37712 CTTTTTTTTGTTTTTTTT
1 CTTTTTTTTGTTTTTTTT
37730 AAATAGCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.00, C:0.08, G:0.05, T:0.87
Consensus pattern (19 bp):
CTTTTTTTTGTTTTTTTTC
Found at i:41225 original size:35 final size:35
Alignment explanation
Indices: 41178--41249 Score: 108
Period size: 35 Copynumber: 2.1 Consensus size: 35
41168 TATACGAAAC
* *
41178 ATAAAAGGTCATCACTTTGAGTATAAATAACAACA
1 ATAAAAGATCATCACTTTGAGCATAAATAACAACA
* *
41213 ATAAAAGATCATCACTTTTAGCGTAAATAACAACA
1 ATAAAAGATCATCACTTTGAGCATAAATAACAACA
41248 AT
1 AT
41250 CCTGTTTTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.49, C:0.15, G:0.10, T:0.26
Consensus pattern (35 bp):
ATAAAAGATCATCACTTTGAGCATAAATAACAACA
Found at i:45647 original size:45 final size:45
Alignment explanation
Indices: 45588--45704 Score: 207
Period size: 45 Copynumber: 2.6 Consensus size: 45
45578 TTCGTTTATA
45588 CATCCTTTCATGCCTTTTATACACCATAATACATTTCATTTATGG
1 CATCCTTTCATGCCTTTTATACACCATAATACATTTCATTTATGG
* *
45633 CATCCTTTCGTGCCTTTTATACACCATGATACATTTCATTTATGG
1 CATCCTTTCATGCCTTTTATACACCATAATACATTTCATTTATGG
*
45678 CTTCCTTTCATGCCTTTTATACACCAT
1 CATCCTTTCATGCCTTTTATACACCAT
45705 TATGCATTGC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 68 1.00
ACGTcount: A:0.23, C:0.26, G:0.08, T:0.43
Consensus pattern (45 bp):
CATCCTTTCATGCCTTTTATACACCATAATACATTTCATTTATGG
Found at i:46092 original size:55 final size:55
Alignment explanation
Indices: 45969--46625 Score: 820
Period size: 55 Copynumber: 12.0 Consensus size: 55
45959 GTAGCACCTA
* * * * *
45969 TACGG-TAGTTCATCAACTCATGATGAATTCCGTGG-GTTACACACATTGTACATG
1 TACGGTTA-TTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCCTG
* * ***
46023 CACGGTTATTCATCAACTCATGATGAATTCCATGGATTTGCACACATAGTTAATG
1 TACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCCTG
* * * * *
46078 TACGGTTATTCATCAACTCATGATGAATTCTGTGGATTAGCACACATCGTACATG
1 TACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCCTG
* * *
46133 TATGGTTATTCAACAACTCATGATGAATTTCGTGGATTTGCACACATAGTGCCTG
1 TACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCCTG
* * *
46188 TACGGTTATTCATCAACTCATGTTGAATTTCGTGGATTTGCACACATAGTGCTTG
1 TACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCCTG
* * * *
46243 TACAGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCGCACATAGTTCCTT
1 TACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCCTG
* *
46298 TACGGTTATTCATCAACTCATGATGAATTCCTTGGATTTGCACACATAGTGCCGG
1 TACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCCTG
* *
46353 TACAGTTATTCATCAACTCATGATGAATTTCGTGGATTTGCACACATAGTGCCTG
1 TACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCCTG
* * *
46408 TATGGTTATTCATCAACTCATGATGAATTTCGTGGATTTTCACACATAGTGCCTG
1 TACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCCTG
* *
46463 TACGGTTATTCATCAACTCATGATGAATTCCGTGAATTTTCACACATAGTGCC-G
1 TACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCCTG
* * * * *
46517 AAACGATTATTCATCAACTCATGATGAATTCCGTGAATTTTCACTCATAGTGCC-G
1 -TACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCCTG
* * * * * * * * *
46572 AAATGATTATTCATCCACACAGGATGAATTCCGTGGA-ATGCATACTTAGTGCCT
1 -TACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCCT
46626 ATTTGGTAAT
Statistics
Matches: 537, Mismatches: 62, Indels: 7
0.89 0.10 0.01
Matches are distributed among these distances:
54 42 0.08
55 495 0.92
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (55 bp):
TACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCCTG
Found at i:47066 original size:20 final size:20
Alignment explanation
Indices: 47041--47093 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
47031 CTGTTTTGAA
*
47041 TGGTATCGATGCCTTCC-CTT
1 TGGTATCGAT-ACTTCCTCTT
47061 TGGTATCGATACTTCCTCTT
1 TGGTATCGATACTTCCTCTT
*
47081 CGGTATCGATACT
1 TGGTATCGATACT
47094 GATTGAATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 5 0.17
20 25 0.83
ACGTcount: A:0.15, C:0.26, G:0.19, T:0.40
Consensus pattern (20 bp):
TGGTATCGATACTTCCTCTT
Found at i:48643 original size:30 final size:30
Alignment explanation
Indices: 48607--48664 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
48597 AAAAATAAAA
* *
48607 AAAAATATGACGATAGGCACCTAAAAGTTT
1 AAAAATATAACGATAGACACCTAAAAGTTT
* *
48637 AAAAATATAACGGTAGATACCTAAAAGT
1 AAAAATATAACGATAGACACCTAAAAGT
48665 GTAACGGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.50, C:0.12, G:0.16, T:0.22
Consensus pattern (30 bp):
AAAAATATAACGATAGACACCTAAAAGTTT
Found at i:50467 original size:21 final size:19
Alignment explanation
Indices: 50419--50469 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
50409 AGTTTTTGTT
*
50419 GTTATATATATAAATATTA
1 GTTAAATATATAAATATTA
*
50438 GTTATATATATAAATATATAA
1 GTTAAATATATAAATAT-T-A
*
50459 TTTAAATATAT
1 GTTAAATATAT
50470 TTAGTGAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.61
20 1 0.04
21 10 0.36
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (19 bp):
GTTAAATATATAAATATTA
Found at i:50568 original size:14 final size:14
Alignment explanation
Indices: 50546--50617 Score: 62
Period size: 14 Copynumber: 5.2 Consensus size: 14
50536 TCACGAAATA
50546 TAATTAAATATATT
1 TAATTAAATATATT
*
50560 TAATGAAATATA--
1 TAATTAAATATATT
50572 TAATTTAAATTATATT
1 TAA-TTAAA-TATATT
* *
50588 TCA-T-GATATATT
1 TAATTAAATATATT
50600 TAAATTAAATATATT
1 T-AATTAAATATATT
50615 TAA
1 TAA
50618 CTACATTTTA
Statistics
Matches: 45, Mismatches: 6, Indels: 14
0.69 0.09 0.22
Matches are distributed among these distances:
12 10 0.22
13 6 0.13
14 19 0.42
15 8 0.18
16 2 0.04
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (14 bp):
TAATTAAATATATT
Found at i:50593 original size:28 final size:26
Alignment explanation
Indices: 50543--50617 Score: 96
Period size: 28 Copynumber: 2.8 Consensus size: 26
50533 TTCTCACGAA
50543 ATATAATTAAATATATTTAATGAAAT
1 ATATAATTAAATATATTTAATGAAAT
* *
50569 ATATAATTTAAATTATATTTCATGATAT
1 ATATAA-TTAAA-TATATTTAATGAAAT
*
50597 ATTTAAATTAAATATATTTAA
1 ATAT-AATTAAATATATTTAA
50618 CTACATTTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
26 6 0.14
27 13 0.31
28 21 0.50
29 2 0.05
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (26 bp):
ATATAATTAAATATATTTAATGAAAT
Found at i:65275 original size:17 final size:17
Alignment explanation
Indices: 65253--65291 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
65243 AATCGTTGTA
65253 TATCCTACTCAAGCGTC
1 TATCCTACTCAAGCGTC
65270 TATCCTACTCAAGCGTC
1 TATCCTACTCAAGCGTC
65287 TATCC
1 TATCC
65292 CTTATAGTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.23, C:0.36, G:0.10, T:0.31
Consensus pattern (17 bp):
TATCCTACTCAAGCGTC
Found at i:66612 original size:60 final size:60
Alignment explanation
Indices: 66526--66640 Score: 212
Period size: 60 Copynumber: 1.9 Consensus size: 60
66516 ATCCAAACGG
*
66526 CATTACTAACAACTTGTAATAATCGTACCTCATCCTGAAAGTTGTCTTTGCCACAAACAA
1 CATTACTAACAACTTGTAATAATCGTACCTCATCCTCAAAGTTGTCTTTGCCACAAACAA
*
66586 CATTACTAACAACTTGTAATAATCGTACCTCATCCTCAAAGTTGTCTTTTCCACA
1 CATTACTAACAACTTGTAATAATCGTACCTCATCCTCAAAGTTGTCTTTGCCACA
66641 TTCACATCTT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
60 53 1.00
ACGTcount: A:0.33, C:0.26, G:0.09, T:0.32
Consensus pattern (60 bp):
CATTACTAACAACTTGTAATAATCGTACCTCATCCTCAAAGTTGTCTTTGCCACAAACAA
Found at i:74260 original size:21 final size:20
Alignment explanation
Indices: 74232--74270 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
74222 CATTGCAGGA
*
74232 ATTTATGGCGTCGACAAAAG
1 ATTTATGGCGTCAACAAAAG
*
74252 ATTTCATGGCTTCAACAAA
1 ATTT-ATGGCGTCAACAAA
74271 GACCTTTATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (20 bp):
ATTTATGGCGTCAACAAAAG
Found at i:79645 original size:11 final size:11
Alignment explanation
Indices: 79613--79648 Score: 63
Period size: 11 Copynumber: 3.3 Consensus size: 11
79603 GTATGCACAA
*
79613 CATTTTAGTTG
1 CATTTTAGTTT
79624 CATTTTAGTTT
1 CATTTTAGTTT
79635 CATTTTAGTTT
1 CATTTTAGTTT
79646 CAT
1 CAT
79649 GTAGGTTGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.19, C:0.11, G:0.11, T:0.58
Consensus pattern (11 bp):
CATTTTAGTTT
Found at i:90241 original size:19 final size:18
Alignment explanation
Indices: 90204--90238 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
90194 GTTAAATTAA
*
90204 AATAAAAATGAAAGAAAT
1 AATAAAAATGAAAAAAAT
90222 AATAAAAATGAAAAAAA
1 AATAAAAATGAAAAAAA
90239 ATATATCGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.14
Consensus pattern (18 bp):
AATAAAAATGAAAAAAAT
Found at i:91738 original size:88 final size:85
Alignment explanation
Indices: 91640--91798 Score: 223
Period size: 86 Copynumber: 1.8 Consensus size: 85
91630 AAATTATACT
* * * *
91640 ATATATGTTTTGAAATA-TGTTTTCAAAACTATATATATTATATATATTTTCAAAAATGA-TTTC
1 ATATATGTTTTCAAA-AGAGTTTTCAAAAC--TATATATTATACATATTTTCAAAAA-CATTTTC
91703 AAAAACTATATGTACATTATATATC
62 -AAAACTATATGTACATTATATATC
91728 ATATATGTTTTCAAAAGAGTTTTCAAAACTATATATTATACATATTTTCAAAAACATTTTCAAAA
1 ATATATGTTTTCAAAAGAGTTTTCAAAACTATATATTATACATATTTTCAAAAACATTTTCAAAA
91793 CTATAT
66 CTATAT
91799 ATTATACATA
Statistics
Matches: 65, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
85 11 0.17
86 28 0.43
87 1 0.02
88 25 0.38
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.43
Consensus pattern (85 bp):
ATATATGTTTTCAAAAGAGTTTTCAAAACTATATATTATACATATTTTCAAAAACATTTTCAAAA
CTATATGTACATTATATATC
Found at i:91761 original size:37 final size:37
Alignment explanation
Indices: 91720--91918 Score: 206
Period size: 37 Copynumber: 5.7 Consensus size: 37
91710 ATATGTACAT
* * * *
91720 TATATATCATATATGTTTTCAAAAGA-GTTTTCAAAAC
1 TATATATTATACATATTTTCAAAA-ACATTTTCAAAAC
91757 TATATATTATACATATTTTCAAAAACATTTTCAAAAC
1 TATATATTATACATATTTTCAAAAACATTTTCAAAAC
91794 TATATATTATACATATTTTCAAAAACATTTTCAAAAC
1 TATATATTATACATATTTTCAAAAACATTTTCAAAAC
* * * *
91831 TGTATATAATGCATACTTT------CA-----AAAAC
1 TATATATTATACATATTTTCAAAAACATTTTCAAAAC
* * *
91857 TATGTATTATTCATATTTTCAAAAATATTTTCAAAAC
1 TATATATTATACATATTTTCAAAAACATTTTCAAAAC
91894 TATATATTATACATATTTTCAAAAA
1 TATATATTATACATATTTTCAAAAA
91919 TACTTTAAAA
Statistics
Matches: 134, Mismatches: 16, Indels: 24
0.77 0.09 0.14
Matches are distributed among these distances:
26 19 0.14
31 2 0.01
32 1 0.01
36 1 0.01
37 111 0.83
ACGTcount: A:0.44, C:0.12, G:0.03, T:0.41
Consensus pattern (37 bp):
TATATATTATACATATTTTCAAAAACATTTTCAAAAC
Found at i:91788 original size:12 final size:12
Alignment explanation
Indices: 91771--91829 Score: 50
Period size: 12 Copynumber: 4.8 Consensus size: 12
91761 TATTATACAT
91771 ATTTTCAAAAAC
1 ATTTTCAAAAAC
91783 ATTTTC-AAAAC
1 ATTTTCAAAAAC
* * *
91794 TATATATT-ATACAT
1 -AT-T-TTCAAAAAC
91808 ATTTTCAAAAAC
1 ATTTTCAAAAAC
91820 ATTTTCAAAA
1 ATTTTCAAAA
91830 CTGTATATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
11 7 0.19
12 22 0.61
13 3 0.08
14 4 0.11
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.39
Consensus pattern (12 bp):
ATTTTCAAAAAC
Found at i:91865 original size:63 final size:63
Alignment explanation
Indices: 91785--91918 Score: 198
Period size: 63 Copynumber: 2.1 Consensus size: 63
91775 TCAAAAACAT
* *
91785 TTTC-AAAACTATATATTATACATATTTTCAAAAACATTTTCAAAACTGTATATAATGCATAC
1 TTTCAAAAACTATATATTATACATATTTTCAAAAACATTTTCAAAACTATATATAATACATAC
* * * * *
91847 TTTCAAAAACTATGTATTATTCATATTTTCAAAAATATTTTCAAAACTATATATTATACATAT
1 TTTCAAAAACTATATATTATACATATTTTCAAAAACATTTTCAAAACTATATATAATACATAC
91910 TTTCAAAAA
1 TTTCAAAAA
91919 TACTTTAAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
62 4 0.06
63 60 0.94
ACGTcount: A:0.44, C:0.13, G:0.02, T:0.41
Consensus pattern (63 bp):
TTTCAAAAACTATATATTATACATATTTTCAAAAACATTTTCAAAACTATATATAATACATAC
Found at i:91886 original size:12 final size:12
Alignment explanation
Indices: 91869--91931 Score: 56
Period size: 12 Copynumber: 5.2 Consensus size: 12
91859 TGTATTATTC
91869 ATATTTTCAAAA
1 ATATTTTCAAAA
91881 ATATTTTCAAAA
1 ATATTTTCAAAA
* * *
91893 CTATATATT-ATAC
1 --ATATTTTCAAAA
91906 ATATTTTCAAAA
1 ATATTTTCAAAA
* *
91918 ATACTTTAAAAA
1 ATATTTTCAAAA
91930 AT
1 AT
91932 TATATGTTAT
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
11 6 0.15
12 26 0.65
13 2 0.05
14 6 0.15
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATTTTCAAAA
Found at i:91919 original size:37 final size:37
Alignment explanation
Indices: 91843--91929 Score: 129
Period size: 37 Copynumber: 2.3 Consensus size: 37
91833 TATATAATGC
* *
91843 ATACTTTCAAAAACTATGTATTATTCATATTTTCAAAA
1 ATACTTTC-AAAACTATATATTATACATATTTTCAAAA
*
91881 ATATTTTCAAAACTATATATTATACATATTTTCAAAA
1 ATACTTTCAAAACTATATATTATACATATTTTCAAAA
*
91918 ATACTTTAAAAA
1 ATACTTTCAAAA
91930 ATTATATGTT
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
37 37 0.84
38 7 0.16
ACGTcount: A:0.46, C:0.11, G:0.01, T:0.41
Consensus pattern (37 bp):
ATACTTTCAAAACTATATATTATACATATTTTCAAAA
Found at i:93457 original size:22 final size:22
Alignment explanation
Indices: 93432--93473 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
93422 TTGGACCCAC
*
93432 CTTTTTTTTTAATTTAGGGCAT
1 CTTTTTTTTCAATTTAGGGCAT
93454 CTTTTTTTTCAATTTAGGGC
1 CTTTTTTTTCAATTTAGGGC
93474 GCCCTTTCGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.17, C:0.12, G:0.14, T:0.57
Consensus pattern (22 bp):
CTTTTTTTTCAATTTAGGGCAT
Found at i:105503 original size:13 final size:12
Alignment explanation
Indices: 105464--105528 Score: 57
Period size: 12 Copynumber: 5.6 Consensus size: 12
105454 ATAATAAACC
105464 ATAATATAATAT
1 ATAATATAATAT
* *
105476 AT-A-A-CATAG
1 ATAATATAATAT
105485 ATAATATAATACT
1 ATAATATAATA-T
105498 ATAATATAATAT
1 ATAATATAATAT
*
105510 GTAATATACATAT
1 ATAATATA-ATAT
105523 A-AATAT
1 ATAATAT
105529 TTTCAAAAAC
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
9 5 0.12
10 2 0.05
11 2 0.05
12 18 0.43
13 15 0.36
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (12 bp):
ATAATATAATAT
Found at i:105581 original size:2 final size:2
Alignment explanation
Indices: 105574--105676 Score: 206
Period size: 2 Copynumber: 51.5 Consensus size: 2
105564 TTTTAGAAAC
105574 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
105616 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
105658 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
105677 GTTTTCAAAA
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 101 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:105708 original size:38 final size:37
Alignment explanation
Indices: 105662--106025 Score: 308
Period size: 38 Copynumber: 9.4 Consensus size: 37
105652 TATATATATA
* **
105662 TATATATATATATATGTTTTC-AAAAGGTTTTCAAAAC
1 TATATAT-TATATATATTTTCAAAAACATTTTCAAAAC
* *
105699 --TATACTATATAT-GTTTCAAAAA-ATGTTTTCAAAAC
1 TATATATTATATATATTTTCAAAAACA--TTTTCAAAAC
105734 TATATATATTATATATATTTTCAAAAACGA-TTTCAAAAAC
1 --TATATATTATATATATTTTCAAAAAC-ATTTTC-AAAAC
** *
105774 TACATGTACATTATTTATCATATATGTTTTCAAAAGAGTTTTCAAAAC
1 T--A--T--A-TA-TTAT-ATATAT-TTTCAAAAACA-TTTTCAAAAC
*
105822 TATATATTATACATATTTTCAAAAACATTTTCAAAAC
1 TATATATTATATATATTTTCAAAAACATTTTCAAAAC
* * * *
105859 TATATGTTATACATATTTTCAAAAATACTTTCAAAAAC
1 TATATATTATATATATTTTCAAAAACATTTTC-AAAAC
*
105897 TATGTATTATATATATTTTCAAAAACATTTTCAAAAC
1 TATATATTATATATATTTTCAAAAACATTTTCAAAAC
* *
105934 TATATATTATACATATTTTCAAAAAATATTTTCAAAAC
1 TATATATTATATATATTTTC-AAAAACATTTTCAAAAC
* * *
105972 TATATATTATACATATTTTCAAAAATACTTTCAAAAAC
1 TATATATTATATATATTTTCAAAAACATTTTC-AAAAC
* *
106010 TATGTGTTATATATAT
1 TATATATTATATATAT
106026 AGTATAAACC
Statistics
Matches: 274, Mismatches: 27, Indels: 51
0.78 0.08 0.14
Matches are distributed among these distances:
33 4 0.01
34 11 0.04
35 14 0.05
37 73 0.27
38 95 0.35
39 20 0.07
40 19 0.07
41 2 0.01
42 3 0.01
44 2 0.01
45 2 0.01
46 5 0.02
47 7 0.03
48 13 0.05
49 4 0.01
ACGTcount: A:0.43, C:0.11, G:0.04, T:0.42
Consensus pattern (37 bp):
TATATATTATATATATTTTCAAAAACATTTTCAAAAC
Found at i:105733 original size:35 final size:33
Alignment explanation
Indices: 105666--105742 Score: 111
Period size: 35 Copynumber: 2.3 Consensus size: 33
105656 TATATATATA
105666 TATATATATATGTTTTCAAAAGGTTTTCAAAAC
1 TATATATATATGTTTTCAAAAGGTTTTCAAAAC
*
105699 TATACTATATATG-TTTCAAAAAATGTTTTCAAAAC
1 TATA-TATATATGTTTTC--AAAAGGTTTTCAAAAC
105734 TATATATAT
1 TATATATAT
105743 TATATATATT
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
33 8 0.20
34 13 0.32
35 19 0.47
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.43
Consensus pattern (33 bp):
TATATATATATGTTTTCAAAAGGTTTTCAAAAC
Found at i:105797 original size:88 final size:85
Alignment explanation
Indices: 105705--106007 Score: 247
Period size: 75 Copynumber: 3.8 Consensus size: 85
105695 AAACTATACT
*
105705 ATATATG-TTTCAAAAAATGTTTTCAAAACTATATATATTATATATATTTTCAAAAACGA-TTTC
1 ATATATGTTTTCAAAAAA-GTTTTCAAAAC--TATATATTATACATATTTTCAAAAAC-ATTTTC
105768 AAAAACTACATGTACATTATTTATC
62 -AAAACTACATGTACATTATTTATC
*
105793 ATATATGTTTTCAAAAGAGTTTTCAAAACTATATATTATACATATTTTCAAAAACATTTTCAAAA
1 ATATATGTTTTCAAAAAAGTTTTCAAAACTATATATTATACATATTTTCAAAAACATTTTCAAAA
*
105858 CTATATG----TTA--TA-C
66 CTACATGTACATTATTTATC
** * * ** * *
105871 --ATAT-TTTCAAAAATACTTTCAAAAACTATGTATTATATATATTTTCAAAAACATTTTCAAAA
1 ATATATGTTTTCAAAAAAGTTTTCAAAACTATATATTATACATATTTTCAAAAACATTTTCAAAA
105933 CT--A--T--A-TA-TTAT-
66 CTACATGTACATTATTTATC
* ** * *
105944 ACATAT-TTTCAAAAAATA-TTTTCAAAACTATATATTATACATATTTTCAAAAATACTTTCAAA
1 ATATATGTTTTCAAAAA-AGTTTTCAAAACTATATATTATACATATTTTCAAAAACATTTTCAAA
106007 A
65 A
106008 ACTATGTGTT
Statistics
Matches: 188, Mismatches: 18, Indels: 31
0.79 0.08 0.13
Matches are distributed among these distances:
72 2 0.01
73 3 0.02
75 105 0.56
76 5 0.03
78 1 0.01
79 2 0.01
81 3 0.02
85 11 0.06
86 29 0.15
88 18 0.10
89 9 0.05
ACGTcount: A:0.45, C:0.12, G:0.03, T:0.41
Consensus pattern (85 bp):
ATATATGTTTTCAAAAAAGTTTTCAAAACTATATATTATACATATTTTCAAAAACATTTTCAAAA
CTACATGTACATTATTTATC
Found at i:105920 original size:75 final size:75
Alignment explanation
Indices: 105813--106025 Score: 329
Period size: 75 Copynumber: 2.8 Consensus size: 75
105803 TCAAAAGAGT
105813 TTTCAAAACTATATATTATACATATTTTCAAAAACATTTTCAAAACTATATGTTATACATATTTT
1 TTTCAAAACTATATATTATACATATTTTCAAAAACATTTTCAAAACTATATGTTATACATATTTT
105878 C-AAAAATAC
66 CAAAAAATAC
* * *
105887 TTTCAAAAACTATGTATTATATATATTTTCAAAAACATTTTCAAAACTATATATTATACATATTT
1 TTTC-AAAACTATATATTATACATATTTTCAAAAACATTTTCAAAACTATATGTTATACATATTT
*
105952 TCAAAAAATAT
65 TCAAAAAATAC
* * * *
105963 TTTCAAAACTATATATTATACATATTTTCAAAAATACTTTCAAAAACTATGTGTTATATATAT
1 TTTCAAAACTATATATTATACATATTTTCAAAAACATTTTC-AAAACTATATGTTATACATAT
106026 AGTATAAACC
Statistics
Matches: 125, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
74 4 0.03
75 92 0.74
76 29 0.23
ACGTcount: A:0.45, C:0.12, G:0.02, T:0.42
Consensus pattern (75 bp):
TTTCAAAACTATATATTATACATATTTTCAAAAACATTTTCAAAACTATATGTTATACATATTTT
CAAAAAATAC
Found at i:105964 original size:13 final size:13
Alignment explanation
Indices: 105946--106008 Score: 51
Period size: 13 Copynumber: 5.0 Consensus size: 13
105936 TATATTATAC
105946 ATATTTTCAAAAA
1 ATATTTTCAAAAA
*
105959 ATATTTTCAAAACT
1 ATATTTTCAAAA-A
* * *
105973 ATATATT--ATAC
1 ATATTTTCAAAAA
105984 ATATTTTC-AAAA
1 ATATTTTCAAAAA
*
105996 ATACTTTCAAAAA
1 ATATTTTCAAAAA
106009 CTATGTGTTA
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
11 6 0.15
12 11 0.28
13 16 0.41
14 6 0.15
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (13 bp):
ATATTTTCAAAAA
Found at i:117764 original size:216 final size:216
Alignment explanation
Indices: 117501--118114 Score: 1039
Period size: 216 Copynumber: 2.9 Consensus size: 216
117491 AATTAAGAAT
* *
117501 TAAATTGAACAAATATGGAATTGCAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
117566 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
66 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
*
117631 CCATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAATAAGTATGGGTAAATTTTAGA
131 CCATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAATAAGTATGGGTAAATTTCAGA
*
117696 TGCAAATAAAATTTGGAGGAC
196 TGCAAATAAAATTTAGAGGAC
117717 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
*
117782 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAACTAATACAAAAAAGTACTAAATTATAC
66 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
* * *
117847 CCATTTAAAAAGTTATGAGCCAATTAAAAAATAGAAATAAGT-AT--G-A---GTTAATTTCATA
131 CCATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAATAAGTATGGGTAAATTTCAGA
*
117905 TGCAAATAAAATTTAGAGGAT
196 TGCAAATAAAATTTAGAGGAC
*
117926 TAAATTGAACAAATATGAAATTACAAA-AAAAATTTAAATGAATTAAACAACACACATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
117990 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGGTACTAAATTATA
66 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAA-GTACTAAATTATA
* * *
118055 CCCATTTAAAAAGTTATGGGCCTATT-AAAAATAAAAATAAGTAATAAGTATGGGTCAATT
130 CCCATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAATAAGTATGGGTAAATT
118115 CTTATTCTTC
Statistics
Matches: 375, Mismatches: 15, Indels: 17
0.92 0.04 0.04
Matches are distributed among these distances:
208 101 0.27
209 94 0.25
211 1 0.00
212 2 0.01
213 1 0.00
215 8 0.02
216 168 0.45
ACGTcount: A:0.50, C:0.08, G:0.13, T:0.29
Consensus pattern (216 bp):
TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
CCATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAATAAGTATGGGTAAATTTCAGA
TGCAAATAAAATTTAGAGGAC
Found at i:118307 original size:6 final size:6
Alignment explanation
Indices: 118296--118331 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
118286 ATTTTGTTCG
118296 ATTTGT ATTTGT ATTTGT ATTTGT ATTTGT ATTTGT
1 ATTTGT ATTTGT ATTTGT ATTTGT ATTTGT ATTTGT
118332 TCCTTACATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.67
Consensus pattern (6 bp):
ATTTGT
Found at i:122395 original size:22 final size:22
Alignment explanation
Indices: 122316--122421 Score: 82
Period size: 22 Copynumber: 5.0 Consensus size: 22
122306 ATATAAACAA
122316 TATAAACTA-AGTTATACTATATG
1 TATAAACTATA-TTA-ACTATATG
122339 --TAAACTATA-TATACTATATAG
1 TATAAACTATATTA-ACTATAT-G
* *
122360 T-T-TAC-ATATGAACTATATG
1 TATAAACTATATTAACTATATG
*
122379 TATAAACTATATTAACTATATA
1 TATAAACTATATTAACTATATG
* *
122401 TATAAACTATGTAAACTATAT
1 TATAAACTATATTAACTATAT
122422 AGTTTACATA
Statistics
Matches: 69, Mismatches: 7, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
19 2 0.03
20 21 0.30
21 13 0.19
22 33 0.48
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.40
Consensus pattern (22 bp):
TATAAACTATATTAACTATATG
Found at i:122422 original size:22 final size:22
Alignment explanation
Indices: 122333--122422 Score: 87
Period size: 22 Copynumber: 4.2 Consensus size: 22
122323 TAAGTTATAC
* *
122333 TATATGTAAACTATATATACTA
1 TATATATAAACTATATAAACTA
* *
122355 TATAGT-T-TAC-ATATGAACTA
1 TATA-TATAAACTATATAAACTA
* *
122375 TATGTATAAACTATATTAACTA
1 TATATATAAACTATATAAACTA
*
122397 TATATATAAACTATGTAAACTA
1 TATATATAAACTATATAAACTA
122419 TATA
1 TATA
122423 GTTTACATAT
Statistics
Matches: 55, Mismatches: 9, Indels: 8
0.76 0.12 0.11
Matches are distributed among these distances:
19 1 0.02
20 12 0.22
21 4 0.07
22 37 0.67
23 1 0.02
ACGTcount: A:0.46, C:0.09, G:0.06, T:0.40
Consensus pattern (22 bp):
TATATATAAACTATATAAACTA
Found at i:122463 original size:24 final size:24
Alignment explanation
Indices: 122417--122466 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
122407 CTATGTAAAC
*
122417 TATATAGTTTACATATGATCTATA
1 TATATAGTTTACATATGAACTATA
*
122441 TATATAGTTTA-TTAGTGAACTATA
1 TATATAGTTTACATA-TGAACTATA
122465 TA
1 TA
122467 AACTATTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 2 0.09
24 21 0.91
ACGTcount: A:0.38, C:0.06, G:0.10, T:0.46
Consensus pattern (24 bp):
TATATAGTTTACATATGAACTATA
Found at i:122479 original size:2 final size:2
Alignment explanation
Indices: 122474--122633 Score: 60
Period size: 2 Copynumber: 77.5 Consensus size: 2
122464 ATAAACTATT
* * *
122474 TA TA TA GTA TA TA CTA TA TA -A AA TA TA TA AA T- TA TA GTT TA
1 TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
* * * * *
122515 TA TT TA TA TA CTA CA TA CTA TA GTT TA TA TT TA TA TA CTA TT TA
1 TA TA TA TA TA -TA TA TA -TA TA -TA TA TA TA TA TA TA -TA TA TA
* * * *
122559 TA TA AA CTA TA TA -A TT TA TA TA CTA TA TA TA TT TA TA TT TA TA
1 TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
* * *
122602 TA T- TA CA GTT TA TA TT TA TA TA T- TA TA TA TA T
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA T
122634 GAACTATAGT
Statistics
Matches: 114, Mismatches: 29, Indels: 30
0.66 0.17 0.17
Matches are distributed among these distances:
1 5 0.04
2 94 0.82
3 15 0.13
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:122489 original size:18 final size:16
Alignment explanation
Indices: 122470--122633 Score: 74
Period size: 18 Copynumber: 9.8 Consensus size: 16
122460 CTATATAAAC
122470 TATTTATATAGTATATA
1 TATTTATATA-TATATA
* *
122487 CTATATA-AAATATATA
1 -TATTTATATATATATA
*
122503 -AATTATAGT-T-TATA
1 TATTTATA-TATATATA
*
122517 T-TTATATACTACATACTA
1 TATT-TATA-TATATA-TA
*
122535 TAGTTTATATTTATATA
1 TA-TTTATATATATATA
*
122552 CTATTTATATAAACTATA
1 -TATTTATATATA-TATA
122570 TAATTTATATACTATATA
1 T-ATTTATATA-TATATA
122588 TATTTATATTTATATATTA
1 TATTTATA--TATATA-TA
*
122607 CAGTTTATAT-T-TATA
1 TA-TTTATATATATATA
122622 TA-TTATATATAT
1 TATTTATATATAT
122634 GAACTATAGT
Statistics
Matches: 112, Mismatches: 15, Indels: 41
0.67 0.09 0.24
Matches are distributed among these distances:
13 6 0.05
14 9 0.08
15 11 0.10
16 8 0.07
17 23 0.21
18 37 0.33
19 10 0.09
20 8 0.07
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.51
Consensus pattern (16 bp):
TATTTATATATATATA
Found at i:122630 original size:7 final size:7
Alignment explanation
Indices: 122473--122631 Score: 61
Period size: 7 Copynumber: 23.1 Consensus size: 7
122463 TATAAACTAT
122473 TTATATA
1 TTATATA
*
122480 GTATATA
1 TTATATA
*
122487 CTATATA
1 TTATATA
*
122494 --AAATA
1 TTATATA
*
122499 -TATAAA
1 TTATATA
122505 TTATAGT-
1 TTATA-TA
122512 TTATAT-
1 TTATATA
122518 TTATATA
1 TTATATA
* *
122525 CTACATA
1 TTATATA
*
122532 CTATAGT-
1 TTATA-TA
122539 TTATAT-
1 TTATATA
122545 TTATATA
1 TTATATA
* *
122552 CTATTTA
1 TTATATA
*
122559 -TATAAA
1 TTATATA
*
122565 CTATATAA
1 TTATAT-A
122573 TTTATATA
1 -TTATATA
122581 CTATATATA
1 -T-TATATA
122590 TT-TATA
1 TTATATA
122596 TTTATATA
1 -TTATATA
*
122604 TTACAGT-
1 TTATA-TA
122611 TTATAT-
1 TTATATA
122617 TTATATA
1 TTATATA
122624 TTATATA
1 TTATATA
122631 T
1 T
122632 ATGAACTATA
Statistics
Matches: 119, Mismatches: 19, Indels: 28
0.72 0.11 0.17
Matches are distributed among these distances:
5 4 0.03
6 32 0.27
7 62 0.52
8 10 0.08
9 11 0.09
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.51
Consensus pattern (7 bp):
TTATATA
Found at i:122722 original size:55 final size:55
Alignment explanation
Indices: 122621--122768 Score: 255
Period size: 55 Copynumber: 2.7 Consensus size: 55
122611 TTATATTTAT
*
122621 ATATTATATATATGAACTATAGTTTACATATGAAC--TACATATATACTATAGTTG
1 ATATT-TATATATGAACTATAGTTTACATATGAACTATATATATATACTATAGTTG
122675 ATATTTATATATGAACTATAGTTTACATATGAACTATATATATATACTATAGTTG
1 ATATTTATATATGAACTATAGTTTACATATGAACTATATATATATACTATAGTTG
*
122730 ATATTTATATATGAACTATAGTTTACATATAAACTATAT
1 ATATTTATATATGAACTATAGTTTACATATGAACTATAT
122769 TTGATATTTA
Statistics
Matches: 90, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
53 29 0.32
54 5 0.06
55 56 0.62
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.43
Consensus pattern (55 bp):
ATATTTATATATGAACTATAGTTTACATATGAACTATATATATATACTATAGTTG
Found at i:122773 original size:42 final size:42
Alignment explanation
Indices: 122696--122809 Score: 157
Period size: 42 Copynumber: 2.8 Consensus size: 42
122686 TGAACTATAG
*
122696 TTTACATATGAACTATA---T--ATATATACTATAGTTGATA
1 TTTACATATGAACTATAGTTTACATATAAACTATAGTTGATA
* *
122733 TTTATATATGAACTATAGTTTACATATAAACTATATTTGATA
1 TTTACATATGAACTATAGTTTACATATAAACTATAGTTGATA
*
122775 TTTACATATGAACTATAGTTTACATATGAACTATA
1 TTTACATATGAACTATAGTTTACATATAAACTATA
122810 AATATAAATT
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
37 16 0.24
40 1 0.01
42 50 0.75
ACGTcount: A:0.40, C:0.09, G:0.08, T:0.43
Consensus pattern (42 bp):
TTTACATATGAACTATAGTTTACATATAAACTATAGTTGATA
Found at i:122847 original size:97 final size:96
Alignment explanation
Indices: 122656--122851 Score: 261
Period size: 97 Copynumber: 2.0 Consensus size: 96
122646 ACATATGAAC
* * * *
122656 TACATATATACTATAGTTGATATTTATATATGAACTATAGTTTACATATGAACTATATATATATA
1 TACATATAAACTATAGTTGATATTTACATATGAACTATAGTTTACATATGAACTATAAATATAAA
* *
122721 CTATAGTTGATATTTATATATGAACTATAGTT
66 CTATAGTTGACATTGATATAT-AACTATAGTT
*
122753 TACATATAAACTATATTTGATATTTACATATGAACTATAGTTTACATATGAACTATAAATATAAA
1 TACATATAAACTATAGTTGATATTTACATATGAACTATAGTTTACATATGAACTATAAATATAAA
* *
122818 TTATGTAGTTTACATATGATATAT-A-TATAGTT
66 CTA--TAGTTGACAT-TGATATATAACTATAGTT
122850 TA
1 TA
122852 TTAGCGAACT
Statistics
Matches: 87, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
97 71 0.82
98 1 0.01
99 8 0.09
100 7 0.08
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (96 bp):
TACATATAAACTATAGTTGATATTTACATATGAACTATAGTTTACATATGAACTATAAATATAAA
CTATAGTTGACATTGATATATAACTATAGTT
Found at i:122874 original size:97 final size:96
Alignment explanation
Indices: 122675--122905 Score: 222
Period size: 97 Copynumber: 2.4 Consensus size: 96
122665 ACTATAGTTG
* * * *
122675 ATATTTATATATGAACTATAGTTTACATATGAACTATATATATATACTATAGTTGATATTTATAT
1 ATATTTATATATGAACTATAGTTTACATATGAACTATAAATATAAACTATAGTTGACATTGATAT
* **
122740 ATGAACTATAGTTTACATATAAACTATATTTG
66 AT-AACTATAGTTTACATACAAACTATATTAA
* * *
122772 ATATTTACATATGAACTATAGTTTACATATGAACTATAAATATAAATTATGTAGTTTACATATGA
1 ATATTTATATATGAACTATAGTTTACATATGAACTATAAATATAAACTA--TAGTTGACAT-TGA
* *
122837 TATAT-A-TATAGTTTA-TTAGCGAACTATA-TAA
63 TATATAACTATAGTTTACATA-CAAACTATATTAA
* * * *
122868 ACTATTTATATA-GAA-TATACTATATATATAAACTATAA
1 A-TATTTATATATGAACTATAGTTTACATATGAACTATAA
122906 TTTATATTTA
Statistics
Matches: 112, Mismatches: 17, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
95 19 0.17
96 7 0.06
97 70 0.62
98 1 0.01
99 8 0.07
100 7 0.06
ACGTcount: A:0.43, C:0.07, G:0.08, T:0.42
Consensus pattern (96 bp):
ATATTTATATATGAACTATAGTTTACATATGAACTATAAATATAAACTATAGTTGACATTGATAT
ATAACTATAGTTTACATACAAACTATATTAA
Found at i:122892 original size:7 final size:7
Alignment explanation
Indices: 122882--122986 Score: 53
Period size: 7 Copynumber: 15.4 Consensus size: 7
122872 TTTATATAGA
122882 ATATACT
1 ATATACT
122889 ATATA-T
1 ATATACT
*
122895 ATAAACT
1 ATATACT
122902 ATA-A-T
1 ATATACT
* *
122907 TTATATTT
1 ATATA-CT
122915 ATATACT
1 ATATACT
*
122922 ACATACT
1 ATATACT
*
122929 ATAGT-TT
1 ATA-TACT
*
122936 ATAT-TT
1 ATATACT
122942 ATATACT
1 ATATACT
122949 ATATA-T
1 ATATACT
122955 ATATA-T
1 ATATACT
*
122961 ATAAACTAT
1 ATATAC--T
122970 ATATACT
1 ATATACT
*
122977 ATATAGT
1 ATATACT
122984 ATA
1 ATA
122987 ATTTACATAT
Statistics
Matches: 78, Mismatches: 11, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
5 3 0.04
6 25 0.32
7 38 0.49
8 6 0.08
9 6 0.08
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.46
Consensus pattern (7 bp):
ATATACT
Found at i:122893 original size:2 final size:2
Alignment explanation
Indices: 122882--123109 Score: 67
Period size: 2 Copynumber: 108.5 Consensus size: 2
122872 TTTATATAGA
* * * *
122882 AT AT ACT AT AT AT AT AA ACT AT A- AT TT AT AT TT AT AT ACT AC
1 AT AT A-T AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT A-T AT
* * *
122924 AT ACT AT AGT TT AT AT TT AT AT ACT AT AT AT AT AT AT AT AA ACT
1 AT A-T AT A-T AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT A-T
* * *
122968 AT AT AT ACT AT AT AGT AT A- AT TT AC AT AT GA- ACT AT AT AT AA
1 AT AT AT A-T AT AT A-T AT AT AT AT AT AT AT -AT A-T AT AT AT AT
* * * *
123010 AA ACC AT AT AA ACT AT AT ACT AT AGT -T GAT AT TT AT AT ACT AT
1 AT A-T AT AT AT A-T AT AT A-T AT A-T AT -AT AT AT AT AT A-T AT
* * *
123053 AT A- AT AT A- AT TT AT AC AT AT AT AA ACT AT AT A- AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT
*
123093 AA ACT AT AT AT -T AT AT A
1 AT A-T AT AT AT AT AT AT A
123110 GTTCATTAGT
Statistics
Matches: 166, Mismatches: 33, Indels: 54
0.66 0.13 0.21
Matches are distributed among these distances:
1 8 0.05
2 131 0.79
3 27 0.16
ACGTcount: A:0.47, C:0.08, G:0.02, T:0.43
Consensus pattern (2 bp):
AT
Found at i:123047 original size:29 final size:29
Alignment explanation
Indices: 123015--123089 Score: 91
Period size: 27 Copynumber: 2.7 Consensus size: 29
123005 TATAAAAACC
* *
123015 ATATAAACTATATACTATAGTTGAT--AT
1 ATATAAACTATATAATATAATTGATACAT
* * *
123042 TTATATACTATATAATATAATTTATACAT
1 ATATAAACTATATAATATAATTGATACAT
123071 ATATAAACTATATAATATA
1 ATATAAACTATATAATATA
123090 TATAAACTAT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
27 20 0.51
29 19 0.49
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.43
Consensus pattern (29 bp):
ATATAAACTATATAATATAATTGATACAT
Found at i:123049 original size:129 final size:127
Alignment explanation
Indices: 122894--123134 Score: 324
Period size: 129 Copynumber: 1.9 Consensus size: 127
122884 ATACTATATA
* * * * *
122894 TATAAACTATAATTTATATTTATATACTACATACTATAGTTTAT-ATTTATATACTATATATATA
1 TATAAACTATAATTGATATTTATATACTACATAATATAATTTATAATATATAAACTATATA-ATA
*
122958 TATATAAACTATATATACTATATAGTATAATT-TACATATGAACTATATATAAAAACCATATAAA
65 TATATAAACTATATAT--TATATAGT-TAATTATACATATAAACTATATATAAAAACCATATAAA
123022 C
127 C
* * *
123023 TATATACTATAGTTGATATTTATATACTATATAATATAATTTATACATATATAAACTATATAATA
1 TATAAACTATAATTGATATTTATATACTACATAATATAATTTATA-ATATATAAACTATATAATA
*
123088 TATATAAACTATATATTATATAGTTCATTAGTACATATAAACTATAT
65 TATATAAACTATATATTATATAGTTAATTA-TACATATAAACTATAT
123135 GGTATATATA
Statistics
Matches: 98, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
127 4 0.04
128 8 0.08
129 53 0.54
130 19 0.19
131 14 0.14
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.43
Consensus pattern (127 bp):
TATAAACTATAATTGATATTTATATACTACATAATATAATTTATAATATATAAACTATATAATAT
ATATAAACTATATATTATATAGTTAATTATACATATAAACTATATATAAAAACCATATAAAC
Found at i:123101 original size:29 final size:29
Alignment explanation
Indices: 123043--123103 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
123033 AGTTGATATT
* * *
123043 TATATACTATATAATATAATTTATACATA
1 TATAAACTATATAATATAATATAAACATA
123072 TATAAACTATATAATAT-ATATAAACTATA
1 TATAAACTATATAATATAATATAAAC-ATA
123101 TAT
1 TAT
123104 TATATAGTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 6 0.21
29 22 0.79
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.43
Consensus pattern (29 bp):
TATAAACTATATAATATAATATAAACATA
Found at i:123141 original size:51 final size:53
Alignment explanation
Indices: 123071--123195 Score: 182
Period size: 53 Copynumber: 2.4 Consensus size: 53
123061 ATTTATACAT
*
123071 ATATAAACTATATAATATATATAAACTATATA-T-TATATAGTTCATTAGTAC
1 ATATAAACTATATAATATATATAAACTATACATTATATATAGTTCATTAGTAC
** * *
123122 ATATAAACTATATGGTATATATAAACTATACATTATATATATTTCATTAGTAT
1 ATATAAACTATATAATATATATAAACTATACATTATATATAGTTCATTAGTAC
*
123175 ATATAAACTATATATTATATA
1 ATATAAACTATATAATATATA
123196 GTTCATTAGT
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
51 29 0.45
52 1 0.02
53 35 0.54
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.42
Consensus pattern (53 bp):
ATATAAACTATATAATATATATAAACTATACATTATATATAGTTCATTAGTAC
Found at i:123161 original size:53 final size:51
Alignment explanation
Indices: 123071--123439 Score: 178
Period size: 51 Copynumber: 7.3 Consensus size: 51
123061 ATTTATACAT
*
123071 ATATAAACTATATAATATATATAAACTATATATTATATAGTTCATTAGTAC
1 ATATAAACTATATAATATATATAAACTATACATTATATAGTTCATTAGTAC
** * *
123122 ATATAAACTATATGGTATATATAAACTATACATTATATATATTTCATTAGTAT
1 ATATAAACTATATAATATATATAAACTATACA-T-TATATAGTTCATTAGTAC
* ** * * ** *
123175 ATATAAACTATATATTATATAGTTCATTAGTATA-TATA-AACT-ATATAGTAT
1 ATATAAACTATATAATATATA-TAAACTA-TACATTATATAGTTCAT-TAGTAC
* *
123226 ATGTAAACTATAT-AT-TATAT--AGT-T-CATTAGTATA--T-A-TA--AC
1 ATATAAACTATATAATATATATAAACTATACATTA-TATAGTTCATTAGTAC
* * * ** * * * *
123266 CTATATAGTATATGGTATATACAAACTATATATTATATAGTGCATTAGTAT
1 ATATAAACTATATAATATATATAAACTATACATTATATAGTTCATTAGTAC
* * *
123317 ATAT-AACTTATATAGTATATGGTATATACAAACTATATATTATATAGTTCATTATTAT
1 ATATAAAC-TATATA--ATA---TATAT--AAACTATACATTATATAGTTCATTAGTAC
* * ** * *
123375 ATATAAACTATATAGTATATATAAACCATGTATTGA-AAAGTTCATTAGTAT
1 ATATAAACTATATAATATATATAAACTATACATT-ATATAGTTCATTAGTAC
*
123426 ATATAATCTATATA
1 ATATAAACTATATA
123440 TTAATTTATT
Statistics
Matches: 246, Mismatches: 42, Indels: 60
0.71 0.12 0.17
Matches are distributed among these distances:
40 10 0.04
41 1 0.00
42 6 0.02
43 1 0.00
44 7 0.03
45 7 0.03
46 7 0.03
48 2 0.01
49 6 0.02
50 4 0.02
51 94 0.38
52 6 0.02
53 42 0.17
54 4 0.02
55 3 0.01
56 6 0.02
58 37 0.15
59 3 0.01
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (51 bp):
ATATAAACTATATAATATATATAAACTATACATTATATAGTTCATTAGTAC
Found at i:123194 original size:33 final size:33
Alignment explanation
Indices: 123136--123396 Score: 151
Period size: 33 Copynumber: 7.8 Consensus size: 33
123126 AAACTATATG
*
123136 GTATATATAAACTATACATTATATATATTTCATTA
1 GTATATATAAACTATATA-T-TATATATTTCATTA
*
123171 GTATATATAAACTATATATTATATAGTTCATTA
1 GTATATATAAACTATATATTATATATTTCATTA
* * **
123204 GTATATATAAACTATATAGTATATGTAAACTATATA
1 GTATATATAAACTATATATTATATAT-TTC-AT-TA
* * * * *** *
123240 TTATATAGTTCATTAGTATATATAACCTATATAGTATATG
1 GTATATA--T-A-AACTATATATTA--TATATTTCAT-TA
* * *
123280 GTATATACAAACTATATATTATATAGTGCATTA
1 GTATATATAAACTATATATTATATATTTCATTA
* *
123313 GTATATAT-AACT-TATA-TA-GTA--T-A-TG
1 GTATATATAAACTATATATTATATATTTCATTA
* *
123338 GTATATACAAACTATATATTATATAGTTCATTA
1 GTATATATAAACTATATATTATATATTTCATTA
* *
123371 TTATATATAAACTATATAGTATATAT
1 GTATATATAAACTATATATTATATAT
123397 AAACCATGTA
Statistics
Matches: 173, Mismatches: 36, Indels: 36
0.71 0.15 0.15
Matches are distributed among these distances:
25 8 0.05
26 5 0.03
27 4 0.02
28 2 0.01
29 4 0.02
30 2 0.01
31 5 0.03
32 5 0.03
33 67 0.39
34 9 0.05
35 19 0.11
36 17 0.10
37 1 0.01
38 1 0.01
39 1 0.01
40 18 0.10
41 1 0.01
42 4 0.02
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (33 bp):
GTATATATAAACTATATATTATATATTTCATTA
Found at i:123224 original size:51 final size:51
Alignment explanation
Indices: 123169--123439 Score: 312
Period size: 58 Copynumber: 5.0 Consensus size: 51
123159 TATATTTCAT
123169 TAGTATATATAAACTATATATTATATAGTTCATTAGTATATATAAACTATA
1 TAGTATATATAAACTATATATTATATAGTTCATTAGTATATATAAACTATA
* *
123220 TAGTATATGTAAACTATATATTATATAGTTCATTAGTATATATAACCTATA
1 TAGTATATATAAACTATATATTATATAGTTCATTAGTATATATAAACTATA
*
123271 TAGTATATGGTATATACAAACTATATATTATATAGTGCATTAGTATATAT-AACTTATA
1 TAG--TA---TATAT--AAACTATATATTATATAGTTCATTAGTATATATAAAC-TATA
*
123329 TAGTATATGGTATATACAAACTATATATTATATAGTTCATTATTATATATAAACTATA
1 TAG--TA---TATAT--AAACTATATATTATATAGTTCATTAGTATATATAAACTATA
* * * *
123387 TAGTATATATAAACCATGTATTGA-AAAGTTCATTAGTATATATAATCTATA
1 TAGTATATATAAACTATATATT-ATATAGTTCATTAGTATATATAAACTATA
123438 TA
1 TA
123440 TTAATTTATT
Statistics
Matches: 198, Mismatches: 12, Indels: 20
0.86 0.05 0.09
Matches are distributed among these distances:
51 88 0.44
52 1 0.01
53 7 0.04
56 6 0.03
57 2 0.01
58 91 0.46
59 3 0.02
ACGTcount: A:0.43, C:0.07, G:0.08, T:0.42
Consensus pattern (51 bp):
TAGTATATATAAACTATATATTATATAGTTCATTAGTATATATAAACTATA
Found at i:123306 original size:109 final size:112
Alignment explanation
Indices: 123171--123394 Score: 339
Period size: 109 Copynumber: 2.0 Consensus size: 112
123161 TATTTCATTA
* *
123171 GTATATATAAACTATATATTATATAGTTCATTAGTATATATAAAC-TATATAGTATAT-G-T-AA
1 GTATATACAAACTATATATTATATAGTGCATTAGTATATAT-AACTTATATAGTATATGGATAAA
*
123232 ACTATATATTATATAGTTCATTAGTATATATAACCTATATAGTATATG
65 ACTATATATTATATAGTTCATTAGTATATATAAACTATATAGTATATG
123280 GTATATACAAACTATATATTATATAGTGCATTAGTATATATAACTTATATAGTATATGGTATATA
1 GTATATACAAACTATATATTATATAGTGCATTAGTATATATAACTTATATAGTATATGG---ATA
*
123345 CAAACTATATATTATATAGTTCATTATTATATATAAACTATATAGTATAT
63 -AAACTATATATTATATAGTTCATTAGTATATATAAACTATATAGTATAT
123395 ATAAACCATG
Statistics
Matches: 103, Mismatches: 4, Indels: 9
0.89 0.03 0.08
Matches are distributed among these distances:
108 3 0.03
109 51 0.50
110 1 0.01
114 1 0.01
116 47 0.46
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.43
Consensus pattern (112 bp):
GTATATACAAACTATATATTATATAGTGCATTAGTATATATAACTTATATAGTATATGGATAAAA
CTATATATTATATAGTTCATTAGTATATATAAACTATATAGTATATG
Found at i:123568 original size:61 final size:61
Alignment explanation
Indices: 123499--123636 Score: 188
Period size: 62 Copynumber: 2.2 Consensus size: 61
123489 TATAAGGATC
*
123499 AAATTGAACAAATTTTAAATATGAAGCTTAAATTAATAAACTGTAAT-ATTAAATTTGGACT
1 AAATTGAACAAATTTGAAATATGAAGCTTAAATTAATAAA-TGTAATCATTAAATTTGGACT
* * * * *
123560 AAATTGAACAAAAATTGAAATATTAAGCTTAAATTAATATATTTCATCATTAAATTTGGACT
1 AAATTGAAC-AAATTTGAAATATGAAGCTTAAATTAATAAATGTAATCATTAAATTTGGACT
*
123622 AAATTGACCAAATTT
1 AAATTGAACAAATTT
123637 AAAACTAGGA
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
61 18 0.27
62 49 0.73
ACGTcount: A:0.47, C:0.08, G:0.09, T:0.36
Consensus pattern (61 bp):
AAATTGAACAAATTTGAAATATGAAGCTTAAATTAATAAATGTAATCATTAAATTTGGACT
Found at i:124096 original size:112 final size:112
Alignment explanation
Indices: 123859--124171 Score: 391
Period size: 112 Copynumber: 2.8 Consensus size: 112
123849 TTGTTCATCC
* *
123859 CAGTTCTTCCCCAAAACCCTCCTTTGATCTTCAAAAACACAAAAACCCAAACAATTTCGTGTATT
1 CAGTTCTTCCCCAAAACCCTCATTTGATCTTCAAAAACACAAAAACCCAAACCATTTCGTGT-TT
* * * *
123924 TTTATCAAACACCCGAATATTCAT-TCGTGTTCATCCGTGTTCTTTAT
65 TTTATCAAACACCCAAATATTCATCTCGTGTCCATCCGTGCTCTTTAG
** * * * * *
123971 TTGTTCATCCCCAAAACCCTCATTTGATCTTTAAAAACACTAAAACACAAACCATTTTGTGTTTT
1 CAGTTCTTCCCCAAAACCCTCATTTGATCTTCAAAAACACAAAAACCCAAACCATTTCGTGTTTT
* * *
124036 TTCGATTAAACACCCAAATATTCATCT-GTGTCCATCCTTGCTC-TTCG
66 TT--ATCAAACACCCAAATATTCATCTCGTGTCCATCCGTGCTCTTTAG
* * *
124083 CAGTTCTTGCCCAAAACCCTCATTTGATCTTCAAAAACACCAAAACCCAAACCATTTCATGTTTT
1 CAGTTCTTCCCCAAAACCCTCATTTGATCTTCAAAAACACAAAAACCCAAACCATTTCGTGTTTT
124148 TTATCAAACACCCACAA-ATTCATC
66 TTATCAAACACCCA-AATATTCATC
124172 CATTGTTCAT
Statistics
Matches: 171, Mismatches: 26, Indels: 10
0.83 0.13 0.05
Matches are distributed among these distances:
110 18 0.11
111 7 0.04
112 113 0.66
113 32 0.19
114 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.07, T:0.33
Consensus pattern (112 bp):
CAGTTCTTCCCCAAAACCCTCATTTGATCTTCAAAAACACAAAAACCCAAACCATTTCGTGTTTT
TTATCAAACACCCAAATATTCATCTCGTGTCCATCCGTGCTCTTTAG
Found at i:124338 original size:6 final size:6
Alignment explanation
Indices: 124321--124373 Score: 56
Period size: 6 Copynumber: 9.0 Consensus size: 6
124311 TAACCTGAAT
* * *
124321 CCAAAC CTAAAC CCAAAC CCAAA- -CAGAAC CCAAAC CCAAAC TCGAAC
1 CCAAAC CCAAAC CCAAAC CCAAAC CCA-AAC CCAAAC CCAAAC CCAAAC
124368 CCAAAC
1 CCAAAC
124374 TATTCAAAAC
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
4 2 0.05
5 2 0.05
6 32 0.84
7 2 0.05
ACGTcount: A:0.49, C:0.43, G:0.04, T:0.04
Consensus pattern (6 bp):
CCAAAC
Found at i:124352 original size:17 final size:18
Alignment explanation
Indices: 124321--124373 Score: 74
Period size: 17 Copynumber: 3.0 Consensus size: 18
124311 TAACCTGAAT
124321 CCAAACCTA-AACCCAAAC
1 CCAAA-CTAGAACCCAAAC
124339 CCAAAC-AGAACCCAAAC
1 CCAAACTAGAACCCAAAC
*
124356 CCAAACTCGAACCCAAAC
1 CCAAACTAGAACCCAAAC
124374 TATTCAAAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 1 0.03
17 16 0.50
18 15 0.47
ACGTcount: A:0.49, C:0.43, G:0.04, T:0.04
Consensus pattern (18 bp):
CCAAACTAGAACCCAAAC
Found at i:124713 original size:63 final size:63
Alignment explanation
Indices: 124614--124839 Score: 312
Period size: 63 Copynumber: 3.6 Consensus size: 63
124604 TATATATTGG
* * *
124614 TTTATTGTTATTGATGTACATGATATACTGTCAGAAGCATTTAATGTAAACTAACCCTGGTTT
1 TTTATTGATGTTGATGTAAATGATATACTGTCAGAAGCATTTAATGTAAACTAACCCTGGTTT
* * * *
124677 TTTATTGTTGTTGATGTAAATGATATACTGTCAGAAGCATTTCATTTAAACTAACCCTAGTTT
1 TTTATTGATGTTGATGTAAATGATATACTGTCAGAAGCATTTAATGTAAACTAACCCTGGTTT
* *
124740 TTTATTGATGTTTATGTAAATGATATACTGTCAGAAGCATTTAATGTAAACTAACCATGGTTT
1 TTTATTGATGTTGATGTAAATGATATACTGTCAGAAGCATTTAATGTAAACTAACCCTGGTTT
* * *
124803 TTT-TTGCAAG-GGAATGTAAATGATATACTGTCCGAAG
1 TTTATTG-ATGTTG-ATGTAAATGATATACTGTCAGAAG
124840 TAATTGATTT
Statistics
Matches: 146, Mismatches: 15, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
62 3 0.02
63 143 0.98
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.40
Consensus pattern (63 bp):
TTTATTGATGTTGATGTAAATGATATACTGTCAGAAGCATTTAATGTAAACTAACCCTGGTTT
Found at i:127155 original size:20 final size:19
Alignment explanation
Indices: 127125--127162 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
127115 TGCTTTATTC
*
127125 TGTTTATATTGTTTGCTTA
1 TGTTTATATTGCTTGCTTA
127144 TGTTTAATATTGCTTGCTT
1 TGTTT-ATATTGCTTGCTT
127163 CTACTTGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.61
Consensus pattern (19 bp):
TGTTTATATTGCTTGCTTA
Found at i:128924 original size:39 final size:38
Alignment explanation
Indices: 128881--128979 Score: 144
Period size: 39 Copynumber: 2.6 Consensus size: 38
128871 AACGGATCAT
**
128881 TAAAATGAAACAAAAACTAAAGTTTCTAACGACATGTAC
1 TAAAATGAAACAAAAACTAAAAATT-TAACGACATGTAC
*
128920 TAAAATAAAACAAAAACTAAAAAATTTAACGACATGTAC
1 TAAAATGAAACAAAAACT-AAAAATTTAACGACATGTAC
*
128959 TAAAATGAAACAAAGACTAAA
1 TAAAATGAAACAAAAACTAAA
128980 CTTTAGGTAT
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
38 3 0.06
39 46 0.85
40 5 0.09
ACGTcount: A:0.59, C:0.13, G:0.08, T:0.20
Consensus pattern (38 bp):
TAAAATGAAACAAAAACTAAAAATTTAACGACATGTAC
Found at i:131271 original size:26 final size:26
Alignment explanation
Indices: 131235--131307 Score: 110
Period size: 26 Copynumber: 2.8 Consensus size: 26
131225 TGACTAAAAT
*
131235 TTTCGGTGGATTTGATTAATTCCACC
1 TTTCGGTGGATTTGTTTAATTCCACC
*
131261 TTTCGGTGGATTTTTTTAATTCCACC
1 TTTCGGTGGATTTGTTTAATTCCACC
**
131287 TTTCTATGGATTTGTTTAATT
1 TTTCGGTGGATTTGTTTAATT
131308 TTCAACAATC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.18, C:0.15, G:0.16, T:0.51
Consensus pattern (26 bp):
TTTCGGTGGATTTGTTTAATTCCACC
Found at i:138253 original size:29 final size:29
Alignment explanation
Indices: 138192--138253 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
138182 ATTCGACTTG
* *
138192 TTATTGACATGATCTAATATTTATCTTTA
1 TTATTGACATGATCTAATATTTATCCTGA
* *
138221 TTATTGACATGATTTGATATTTA-CCTGA
1 TTATTGACATGATCTAATATTTATCCTGA
138249 CTTAT
1 -TTAT
138254 AAGTTTTAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 3 0.11
29 25 0.89
ACGTcount: A:0.29, C:0.11, G:0.10, T:0.50
Consensus pattern (29 bp):
TTATTGACATGATCTAATATTTATCCTGA
Found at i:138609 original size:2 final size:2
Alignment explanation
Indices: 138604--138637 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
138594 ATAAAAAATT
138604 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
138638 GGGTAATATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:139611 original size:46 final size:47
Alignment explanation
Indices: 139551--139644 Score: 172
Period size: 46 Copynumber: 2.0 Consensus size: 47
139541 AATTTAAAGG
139551 TTGAGAAATTTTGGGAAGTTGGAAAATTGGGAATTTAGAAGGAAATT
1 TTGAGAAATTTTGGGAAGTTGGAAAATTGGGAATTTAGAAGGAAATT
*
139598 TTGAGAAA-TTTGGGAAGTTGGCAAATTGGGAATTTAGAAGGAAATT
1 TTGAGAAATTTTGGGAAGTTGGAAAATTGGGAATTTAGAAGGAAATT
139644 T
1 T
139645 AAGCGTTCAA
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
46 38 0.83
47 8 0.17
ACGTcount: A:0.37, C:0.01, G:0.30, T:0.32
Consensus pattern (47 bp):
TTGAGAAATTTTGGGAAGTTGGAAAATTGGGAATTTAGAAGGAAATT
Found at i:139920 original size:4 final size:4
Alignment explanation
Indices: 139911--140304 Score: 765
Period size: 4 Copynumber: 99.0 Consensus size: 4
139901 GTTTAATTAT
139911 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
139959 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
140007 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
140055 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
140103 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAT ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
140151 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
140199 ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT-- ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
140245 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
140293 ATAC ATAC ATAC
1 ATAC ATAC ATAC
140305 TTATATATTA
Statistics
Matches: 386, Mismatches: 2, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
2 2 0.01
4 384 0.99
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:140321 original size:15 final size:16
Alignment explanation
Indices: 140301--140334 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
140291 ACATACATAC
140301 ATACTTATATAT-TAT
1 ATACTTATATATATAT
*
140316 ATACTTTTATATATAT
1 ATACTTATATATATAT
140332 ATA
1 ATA
140335 TAAGTATACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (16 bp):
ATACTTATATATATAT
Found at i:147440 original size:55 final size:55
Alignment explanation
Indices: 147373--147821 Score: 564
Period size: 55 Copynumber: 8.2 Consensus size: 55
147363 ATGCACAATT
* * *
147373 AGTGCCTATACGG-GAATTCATCAACTCATGATGAATTTCGTGGATTTGCACAC-A
1 AGTGCCTGTACGGTG-ATTCATCAACTCATGATGAATTTCGTGAATATGCACACGA
* * *
147427 AGGAGCCTGTACGGCGATTCATCAACTTATGATGAA-TTCTGTGAATATGCA-ACGA
1 A-GTGCCTGTACGGTGATTCATCAACTCATGATGAATTTC-GTGAATATGCACACGA
* * *
147482 AGTGCCTGTACGGTGATTCATCAACTTATGATGAATTCCGTTAATATGCACACGA
1 AGTGCCTGTACGGTGATTCATCAACTCATGATGAATTTCGTGAATATGCACACGA
* *
147537 AGTGCCTGTACAGTGATTCATCAACTTATGATGAATTTCGTGAATATGCACACGA
1 AGTGCCTGTACGGTGATTCATCAACTCATGATGAATTTCGTGAATATGCACACGA
* *
147592 AGTGCATGTACGGTGATTCTTCAACTCATGATGAATTTCGTGAATATGCACACGA
1 AGTGCCTGTACGGTGATTCATCAACTCATGATGAATTTCGTGAATATGCACACGA
* * * * *
147647 AGTGCTTGTACGGTGATTCATAAACTCATGATGAATTCCGTAAATATGCATACGA
1 AGTGCCTGTACGGTGATTCATCAACTCATGATGAATTTCGTGAATATGCACACGA
* ** * * * *
147702 AGTGCCCGTAAAGTGATTCATCAACTTAAGATGAATTTCGTGAATATGTACATGA
1 AGTGCCTGTACGGTGATTCATCAACTCATGATGAATTTCGTGAATATGCACACGA
* * * * *
147757 AGTGCCTGTATGGTGATTCATCAACTCATGACGAACTCCGTAAATATGCACACGA
1 AGTGCCTGTACGGTGATTCATCAACTCATGATGAATTTCGTGAATATGCACACGA
*
147812 GGTGCCTGTA
1 AGTGCCTGTA
147822 GTACACATAG
Statistics
Matches: 343, Mismatches: 46, Indels: 11
0.86 0.12 0.03
Matches are distributed among these distances:
54 48 0.14
55 294 0.86
56 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.30
Consensus pattern (55 bp):
AGTGCCTGTACGGTGATTCATCAACTCATGATGAATTTCGTGAATATGCACACGA
Found at i:166140 original size:55 final size:55
Alignment explanation
Indices: 166074--166219 Score: 256
Period size: 55 Copynumber: 2.7 Consensus size: 55
166064 ATGCTCATAA
* *
166074 GGTGATTCATCAACTTATGATGAATTTCGTGAATATACACATGAAGTGCCTGTAC
1 GGTGATTCATCAACTTATGATGAATTCCGTGAATATACACACGAAGTGCCTGTAC
*
166129 GGTGATTCATCAACTTATGATGAATTCCGTGGATATACACACGAAGTGCCTGTAC
1 GGTGATTCATCAACTTATGATGAATTCCGTGAATATACACACGAAGTGCCTGTAC
*
166184 GGTGATTCATCAACTGATGATGAATTCCGTGAATAT
1 GGTGATTCATCAACTTATGATGAATTCCGTGAATAT
166220 TATAGCTGGG
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 86 1.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (55 bp):
GGTGATTCATCAACTTATGATGAATTCCGTGAATATACACACGAAGTGCCTGTAC
Found at i:166588 original size:42 final size:42
Alignment explanation
Indices: 166526--166643 Score: 184
Period size: 42 Copynumber: 2.8 Consensus size: 42
166516 AAGTAAATAA
* * *
166526 ATAACACCATTAAGTCTCAATAAGTCTAAAATAAATAACACC
1 ATAACACTAATAAATCTCAATAAGTCTAAAATAAATAACACC
*
166568 ATCACACTAATAAATCTCAATAAGTCTAAAATAAATAACACC
1 ATAACACTAATAAATCTCAATAAGTCTAAAATAAATAACACC
*
166610 ATAACACTAATAAGTCTCAATAAGTCT-AAATAAA
1 ATAACACTAATAAATCTCAATAAGTCTAAAATAAA
166644 ATCAACATCA
Statistics
Matches: 70, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
41 7 0.10
42 63 0.90
ACGTcount: A:0.52, C:0.19, G:0.04, T:0.25
Consensus pattern (42 bp):
ATAACACTAATAAATCTCAATAAGTCTAAAATAAATAACACC
Found at i:166621 original size:21 final size:21
Alignment explanation
Indices: 166555--166622 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
166545 ATAAGTCTAA
*
166555 AATAAATAACACCATCACACT
1 AATAAATAACACCATAACACT
* * **
166576 AATAAAT--CTCAATAAGTCT
1 AATAAATAACACCATAACACT
166595 AAAATAAATAACACCATAACACT
1 --AATAAATAACACCATAACACT
166618 AATAA
1 AATAA
166623 GTCTCAATAA
Statistics
Matches: 34, Mismatches: 9, Indels: 8
0.67 0.18 0.16
Matches are distributed among these distances:
19 7 0.21
21 19 0.56
23 8 0.24
ACGTcount: A:0.56, C:0.21, G:0.01, T:0.22
Consensus pattern (21 bp):
AATAAATAACACCATAACACT
Found at i:169125 original size:55 final size:52
Alignment explanation
Indices: 169059--169175 Score: 146
Period size: 55 Copynumber: 2.2 Consensus size: 52
169049 AAATCAATAT
*
169059 AAAAAAA-TCAAGAATAAACACAAGCACTATAAGCATAACAATTAACAAAAAAG
1 AAAAAAACTCAAGAACAAACACAAGCACTATAAGCATAACAATT-A-AAAAAAG
* * * * *
169112 AACAAAAACTCAAGAACACACACAAGTATTATAAGCATAATAATTAAACAAAG
1 AA-AAAAACTCAAGAACAAACACAAGCACTATAAGCATAACAATTAAAAAAAG
169165 AAAAAAACTCA
1 AAAAAAACTCA
169176 CTATGTGGGT
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
52 9 0.16
53 10 0.18
54 6 0.11
55 31 0.55
ACGTcount: A:0.62, C:0.16, G:0.07, T:0.15
Consensus pattern (52 bp):
AAAAAAACTCAAGAACAAACACAAGCACTATAAGCATAACAATTAAAAAAAG
Found at i:170048 original size:55 final size:55
Alignment explanation
Indices: 169964--170205 Score: 340
Period size: 55 Copynumber: 4.4 Consensus size: 55
169954 CCTCTAGTGT
* *
169964 ATATGCAAACGAAGTGCATGTACGGTGATTCATCAACTCATGATGAATTCTGTGA
1 ATATGCACACGAAGTGCATGTACGGTGATTCATCAACTCATGATGAATTCCGTGA
* * *
170019 ATATGCACACGAAGTGCTTGTACGGTGATTCATCAACTCATGATGAATTCCATAA
1 ATATGCACACGAAGTGCATGTACGGTGATTCATCAACTCATGATGAATTCCGTGA
* * * *
170074 ATATGCACACAAAGTGCATGCATGGTGATTCATCAACTTATGATGAATTCCGTGA
1 ATATGCACACGAAGTGCATGTACGGTGATTCATCAACTCATGATGAATTCCGTGA
* * * * * *
170129 ATATGTACACAAAGTGCATGTACTGTGATTCATGAACTCGTGATGAATTTCGTGA
1 ATATGCACACGAAGTGCATGTACGGTGATTCATCAACTCATGATGAATTCCGTGA
*
170184 ATATGCACACGAAGTGCCTGTA
1 ATATGCACACGAAGTGCATGTA
170206 GTACACATAG
Statistics
Matches: 164, Mismatches: 23, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 164 1.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (55 bp):
ATATGCACACGAAGTGCATGTACGGTGATTCATCAACTCATGATGAATTCCGTGA
Done.