Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014438.1 Kokia drynarioides strain JFW-HI SEQ_129476, 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: 148607
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Warning! 25 characters in sequence are not A, C, G, or T
Found at i:698 original size:15 final size:16
Alignment explanation
Indices: 675--722 Score: 57
Period size: 14 Copynumber: 3.2 Consensus size: 16
665 TTTTTTTTTA
*
675 CTTCTCCTTC-TCTTT
1 CTTCCCCTTCTTCTTT
690 CTTCCCCTTCTTCTTT
1 CTTCCCCTTCTTCTTT
*
706 CTT--CTTTCTTCTTT
1 CTTCCCCTTCTTCTTT
720 CTT
1 CTT
723 TCTTTCTCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
14 13 0.43
15 9 0.30
16 8 0.27
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (16 bp):
CTTCCCCTTCTTCTTT
Found at i:709 original size:7 final size:7
Alignment explanation
Indices: 697--739 Score: 61
Period size: 7 Copynumber: 6.1 Consensus size: 7
687 TTTCTTCCCC
697 TTCTTCT
1 TTCTTCT
704 TTCTTCT
1 TTCTTCT
711 TTCTTCT
1 TTCTTCT
718 TTCTTTCT
1 TTC-TTCT
726 TTC-TCT
1 TTCTTCT
*
732 TTTTTCT
1 TTCTTCT
739 T
1 T
740 CCTTTTTCCT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
6 5 0.15
7 21 0.64
8 7 0.21
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (7 bp):
TTCTTCT
Found at i:6031 original size:2 final size:2
Alignment explanation
Indices: 6026--6054 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6016 TATGTGTGTG
6026 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
6055 TGAAGGATTG
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:9361 original size:26 final size:26
Alignment explanation
Indices: 9317--9366 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
9307 AAGTTAGTAC
* *
9317 ATGATAAAATTACATTTTACACTTAA
1 ATGATAAAATTACAATTTAAACTTAA
**
9343 ATGATAAAATTTTAATTTAAACTT
1 ATGATAAAATTACAATTTAAACTT
9367 TTAAAAAATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.42
Consensus pattern (26 bp):
ATGATAAAATTACAATTTAAACTTAA
Found at i:10792 original size:14 final size:15
Alignment explanation
Indices: 10773--10809 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
10763 AAGTTATGGA
10773 TTTAATTT-AT-ATAT
1 TTTAATTTGATCA-AT
10787 TTTAATTTGATCAAT
1 TTTAATTTGATCAAT
10802 TTTAATTT
1 TTTAATTT
10810 TTGTATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.38
15 12 0.57
16 1 0.05
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (15 bp):
TTTAATTTGATCAAT
Found at i:14662 original size:2 final size:2
Alignment explanation
Indices: 14655--14682 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
14645 AAATCTTAAA
14655 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
14683 TTTTATGCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17598 original size:23 final size:23
Alignment explanation
Indices: 17572--17618 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
17562 ATTCTGTTAG
*
17572 TTTGATGTAATACATTTTGACAC
1 TTTGATGCAATACATTTTGACAC
* * *
17595 TTTGGTGCAATTCATTTTGGCAC
1 TTTGATGCAATACATTTTGACAC
17618 T
1 T
17619 ATTGTTCATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.23, C:0.15, G:0.17, T:0.45
Consensus pattern (23 bp):
TTTGATGCAATACATTTTGACAC
Found at i:30910 original size:2 final size:2
Alignment explanation
Indices: 30905--30934 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
30895 CACATGCATG
30905 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
30935 TTCACGCACG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:35911 original size:23 final size:23
Alignment explanation
Indices: 35884--35928 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
35874 AAACAGTAAA
* *
35884 AACAACCAAAATAGCAATAAAAT
1 AACAACAAAAATAACAATAAAAT
*
35907 AACAACAAAAATAACAGTAAAA
1 AACAACAAAAATAACAATAAAA
35929 AAAAAAAAGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.69, C:0.16, G:0.04, T:0.11
Consensus pattern (23 bp):
AACAACAAAAATAACAATAAAAT
Found at i:39010 original size:19 final size:19
Alignment explanation
Indices: 38968--39010 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
38958 CTTAAATTTT
* *
38968 TATTTAATTTAAAATATAA
1 TATTAAATTTAAAATAGAA
38987 TATTAAATTTAAAA-AGAA
1 TATTAAATTTAAAATAGAA
39005 TGATTA
1 T-ATTA
39011 TATGAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (19 bp):
TATTAAATTTAAAATAGAA
Found at i:45762 original size:8 final size:8
Alignment explanation
Indices: 45749--45776 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
45739 CCGACATAAA
45749 AATAAATC
1 AATAAATC
45757 AATAAATC
1 AATAAATC
45765 AATAAATC
1 AATAAATC
45773 AATA
1 AATA
45777 GCATTGTTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.64, C:0.11, G:0.00, T:0.25
Consensus pattern (8 bp):
AATAAATC
Found at i:59644 original size:30 final size:28
Alignment explanation
Indices: 59610--59669 Score: 68
Period size: 31 Copynumber: 2.1 Consensus size: 28
59600 CTTCATACTT
*
59610 TTTA-TTAAAAAAACTATATTCATAATATAA
1 TTTATTTAAAAAAAC-ATA-ACATAATA-AA
*
59640 TTTATTTAAAGAAACATAACATAATAAA
1 TTTATTTAAAAAAACATAACATAATAAA
59668 TT
1 TT
59670 CAAGGATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 4 0.15
29 7 0.26
30 7 0.26
31 9 0.33
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.38
Consensus pattern (28 bp):
TTTATTTAAAAAAACATAACATAATAAA
Found at i:65473 original size:21 final size:22
Alignment explanation
Indices: 65425--65473 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
65415 TGGAACCTAC
*
65425 CTAAGATATCACAACTATATCAT
1 CTAA-ATATCACAACTATACCAT
* *
65448 ATAAATAT-ACAACTTTACCAT
1 CTAAATATCACAACTATACCAT
65469 CTAAA
1 CTAAA
65474 GAAGATAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 15 0.68
22 4 0.18
23 3 0.14
ACGTcount: A:0.47, C:0.20, G:0.02, T:0.31
Consensus pattern (22 bp):
CTAAATATCACAACTATACCAT
Found at i:79051 original size:15 final size:16
Alignment explanation
Indices: 79031--79063 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
79021 GAGATTTTTT
*
79031 TTTATATTTTTTA-AA
1 TTTATAATTTTTATAA
79046 TTTATAATTTTTATAA
1 TTTATAATTTTTATAA
79062 TT
1 TT
79064 AAAGCAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTATAATTTTTATAA
Found at i:80945 original size:23 final size:22
Alignment explanation
Indices: 80891--80945 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
80881 ATATTATTTT
*
80891 ATTAAAATTTTAATAAATGAAA
1 ATTAAAAATTTAATAAATGAAA
* * *
80913 ATATATAAATTTATTAAATGTTAA
1 AT-TAAAAATTTAATAAATG-AAA
80937 ATTAAAAAT
1 ATTAAAAAT
80946 AATATAAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
22 2 0.08
23 20 0.77
24 4 0.15
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (22 bp):
ATTAAAAATTTAATAAATGAAA
Found at i:80973 original size:31 final size:31
Alignment explanation
Indices: 80910--80981 Score: 94
Period size: 31 Copynumber: 2.3 Consensus size: 31
80900 TTAATAAATG
80910 AAAAT-ATATAAATTTATTAAATGTTAAATTA
1 AAAATAATATAAATTTATT-AATGTTAAATTA
* *
80941 AAAATAATATAAATTTATT-CTTTTAAATTTA
1 AAAATAATATAAATTTATTAATGTTAAA-TTA
80972 AAAATAATAT
1 AAAATAATAT
80982 GTACAAGTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
30 6 0.16
31 18 0.49
32 13 0.35
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (31 bp):
AAAATAATATAAATTTATTAATGTTAAATTA
Found at i:96886 original size:7 final size:7
Alignment explanation
Indices: 96876--96900 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
96866 AATATTCAAT
96876 AAATTTA
1 AAATTTA
96883 AAATTTA
1 AAATTTA
96890 AAATTTA
1 AAATTTA
96897 AAAT
1 AAAT
96901 CAAGCCCTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
AAATTTA
Found at i:99793 original size:2 final size:2
Alignment explanation
Indices: 99786--99810 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
99776 GTAAAATGTA
99786 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 A
99811 CATAAAATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:100697 original size:15 final size:16
Alignment explanation
Indices: 100677--100706 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
100667 TTTAAGTAAA
100677 AATTTAAATT-AATTT
1 AATTTAAATTCAATTT
100692 AATTTAAATTCAATT
1 AATTTAAATTCAATT
100707 CTAGCCAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (16 bp):
AATTTAAATTCAATTT
Found at i:112517 original size:16 final size:16
Alignment explanation
Indices: 112481--112532 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 16
112471 TAAAATGAAA
*
112481 AGAAAATTGGAAGGAT
1 AGAAAATTGAAAGGAT
* *
112497 GGAAAATTGAAAGGGT
1 AGAAAATTGAAAGGAT
*
112513 AG-AAATTAAAAGGAT
1 AGAAAATTGAAAGGAT
112528 -GAAAA
1 AGAAAA
112533 ACATAATTTC
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
14 1 0.03
15 14 0.48
16 14 0.48
ACGTcount: A:0.54, C:0.00, G:0.29, T:0.17
Consensus pattern (16 bp):
AGAAAATTGAAAGGAT
Found at i:114864 original size:16 final size:16
Alignment explanation
Indices: 114828--114879 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 16
114818 TAAAATGGAA
*
114828 AGAAAATTGGAAGGAT
1 AGAAAATTGAAAGGAT
* *
114844 GGAAAATTGAAAGGGT
1 AGAAAATTGAAAGGAT
*
114860 AG-AAATTAAAAGGAT
1 AGAAAATTGAAAGGAT
114875 -GAAAA
1 AGAAAA
114880 ACATAATTTC
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
14 1 0.03
15 14 0.48
16 14 0.48
ACGTcount: A:0.54, C:0.00, G:0.29, T:0.17
Consensus pattern (16 bp):
AGAAAATTGAAAGGAT
Found at i:115854 original size:30 final size:30
Alignment explanation
Indices: 115813--116073 Score: 185
Period size: 30 Copynumber: 8.7 Consensus size: 30
115803 TTCGGGAGTG
**
115813 AAATGGTAATTTTGGGAAAATTCGAGGTTAA
1 AAATGG-AATTTTGGGAAGTTTCGAGGTTAA
* * * *
115844 AAATGGAATTTTTGGATG-TTCGGGGGTAA
1 AAATGGAATTTTGGGAAGTTTCGAGGTTAA
* *
115873 AAATGGAATTTTGGGAAGTTTTTGGGGGTT-A
1 AAATGGAATTTTGGGAAG--TTTCGAGGTTAA
* * *
115904 AAATGAGATTTTTGGG-AGTTTAG-GGGTAA
1 AAATG-GAATTTTGGGAAGTTTCGAGGTTAA
* ** * *
115933 AAATGAAATTTTTTGAAGTTTTGAGGTCAA
1 AAATGGAATTTTGGGAAGTTTCGAGGTTAA
*
115963 AAATGGGATTTTGGGAAG-TTCGAGGGTTAA
1 AAATGGAATTTTGGGAAGTTTCGA-GGTTAA
* **
115993 AAATGAAATTTTTTGAAGTTTCG-GGATTAA
1 AAATGGAATTTTGGGAAGTTTCGAGG-TTAA
** * *
116023 AAATGGAATTTTTAGAAGTTTAGA-GATAA
1 AAATGGAATTTTGGGAAGTTTCGAGGTTAA
*
116052 AAATGGAATTTTTGGATAGTTT
1 AAATGGAATTTTGGGA-AGTTT
116074 GGGGACCTTC
Statistics
Matches: 184, Mismatches: 34, Indels: 25
0.76 0.14 0.10
Matches are distributed among these distances:
28 9 0.05
29 65 0.35
30 76 0.41
31 18 0.10
32 16 0.09
ACGTcount: A:0.34, C:0.02, G:0.28, T:0.36
Consensus pattern (30 bp):
AAATGGAATTTTGGGAAGTTTCGAGGTTAA
Found at i:115875 original size:29 final size:29
Alignment explanation
Indices: 115841--116077 Score: 206
Period size: 30 Copynumber: 8.0 Consensus size: 29
115831 AATTCGAGGT
* *
115841 TAAAAATGGAATTTTTGGATGTTCGGGGG
1 TAAAAATGGAATTTTTGGAAGTTTGGGGG
*
115870 TAAAAATGGAATTTTGGGAAGTTTTTGGGGG
1 TAAAAATGGAATTTTTGGAAG--TTTGGGGG
* * *
115901 TTAAAAT-GAGATTTTTGGGAGTTTAGGGG
1 TAAAAATGGA-ATTTTTGGAAGTTTGGGGG
* * * *
115930 TAAAAATGAAATTTTTTGAAGTTTTGAGG
1 TAAAAATGGAATTTTTGGAAGTTTGGGGG
* * * *
115959 TCAAAAATGGGATTTTGGGAAGTTCGAGGGT
1 T-AAAAATGGAATTTTTGGAAGTTTG-GGGG
* * **
115990 TAAAAATGAAATTTTTTGAAGTTTCGGGAT
1 TAAAAATGGAATTTTTGGAAGTTT-GGGGG
* * * *
116020 TAAAAATGGAATTTTTAGAAGTTTAGAGA
1 TAAAAATGGAATTTTTGGAAGTTTGGGGG
116049 TAAAAATGGAATTTTTGGATAGTTTGGGG
1 TAAAAATGGAATTTTTGGA-AGTTTGGGG
116078 ACCTTCAGGG
Statistics
Matches: 164, Mismatches: 36, Indels: 15
0.76 0.17 0.07
Matches are distributed among these distances:
29 67 0.41
30 71 0.43
31 26 0.16
ACGTcount: A:0.33, C:0.02, G:0.29, T:0.36
Consensus pattern (29 bp):
TAAAAATGGAATTTTTGGAAGTTTGGGGG
Found at i:115907 original size:60 final size:59
Alignment explanation
Indices: 115838--116077 Score: 234
Period size: 60 Copynumber: 4.0 Consensus size: 59
115828 GAAAATTCGA
* * * *
115838 GGTTAAAAATGGAATTTTTGGATGTTCGGGGGTAAAAATGGAATTTTGGGAAGTTTTTGGG
1 GGTTAAAAATGGAATTTTTGGAAGTTCAGGGGTAAAAATGAAATTTTTGGAAG-TTTT-GG
* * * *
115899 GGTT-AAAAT-GAGATTTTTGGGAGTTTAGGGGTAAAAATGAAATTTTTTGAAGTTTTGA
1 GGTTAAAAATGGA-ATTTTTGGAAGTTCAGGGGTAAAAATGAAATTTTTGGAAGTTTTGG
* * * * * *
115957 GGTCAAAAATGGGATTTTGGGAAGTTCGAGGGTTAAAAATGAAATTTTTTGAAGTTTCGG
1 GGTTAAAAATGGAATTTTTGGAAGTTC-AGGGGTAAAAATGAAATTTTTGGAAGTTTTGG
* * * * * *
116017 GATTAAAAATGGAATTTTTAGAAGTTTAGAGATAAAAATGGAATTTTTGGATAG-TTTGG
1 GGTTAAAAATGGAATTTTTGGAAGTTCAGGGGTAAAAATGAAATTTTTGGA-AGTTTTGG
116076 GG
1 GG
116078 ACCTTCAGGG
Statistics
Matches: 146, Mismatches: 28, Indels: 12
0.78 0.15 0.06
Matches are distributed among these distances:
58 4 0.03
59 47 0.32
60 91 0.62
61 4 0.03
ACGTcount: A:0.33, C:0.02, G:0.30, T:0.36
Consensus pattern (59 bp):
GGTTAAAAATGGAATTTTTGGAAGTTCAGGGGTAAAAATGAAATTTTTGGAAGTTTTGG
Found at i:115974 original size:90 final size:91
Alignment explanation
Indices: 115870--116073 Score: 245
Period size: 90 Copynumber: 2.3 Consensus size: 91
115860 TGTTCGGGGG
* * * *
115870 TAAAAATGGAATTTTGGGAAGTTTTTGGGGGTT-AAAATGAGATTTTTGGGAGTTTAGGG-GTAA
1 TAAAAATGGAATTTTGGGAAGTTTTCGAGGGTTAAAAATGAAATTTTTGGAAGTTTAGGGAGTAA
* * *
115933 AAATGAAATTTTTTGAAGTTTTGAGG
66 AAATGAAATTTTTAGAAGTTTAGAGA
* * * *
115959 TCAAAAATGGGATTTTGGGAAG--TTCGAGGGTTAAAAATGAAATTTTTTGAAGTTTCGGGATTA
1 T-AAAAATGGAATTTTGGGAAGTTTTCGAGGGTTAAAAATGAAATTTTTGGAAGTTTAGGGAGTA
*
116022 AAAATGGAATTTTTAGAAGTTTAGAGA
65 AAAATGAAATTTTTAGAAGTTTAGAGA
*
116049 TAAAAATGGAATTTTTGGATAGTTT
1 TAAAAATGGAATTTTGGGA-AGTTT
116074 GGGGACCTTC
Statistics
Matches: 95, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
88 8 0.08
89 39 0.41
90 47 0.49
92 1 0.01
ACGTcount: A:0.34, C:0.01, G:0.27, T:0.37
Consensus pattern (91 bp):
TAAAAATGGAATTTTGGGAAGTTTTCGAGGGTTAAAAATGAAATTTTTGGAAGTTTAGGGAGTAA
AAATGAAATTTTTAGAAGTTTAGAGA
Found at i:116640 original size:16 final size:16
Alignment explanation
Indices: 116604--116655 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 16
116594 NNNNNNNNAA
*
116604 AGAAAATTGGAAGGAT
1 AGAAAATTGAAAGGAT
* *
116620 GGAAAATTGAAAGGGT
1 AGAAAATTGAAAGGAT
*
116636 AG-AAATTAAAAGGAT
1 AGAAAATTGAAAGGAT
116651 -GAAAA
1 AGAAAA
116656 ACATAATTTC
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
14 1 0.03
15 14 0.48
16 14 0.48
ACGTcount: A:0.54, C:0.00, G:0.29, T:0.17
Consensus pattern (16 bp):
AGAAAATTGAAAGGAT
Found at i:117630 original size:30 final size:30
Alignment explanation
Indices: 117589--117849 Score: 185
Period size: 30 Copynumber: 8.7 Consensus size: 30
117579 TTCGGGAGTG
**
117589 AAATGGTAATTTTGGGAAAATTCGAGGTTAA
1 AAATGG-AATTTTGGGAAGTTTCGAGGTTAA
* * * *
117620 AAATGGAATTTTTGGATG-TTCGGGGGTAA
1 AAATGGAATTTTGGGAAGTTTCGAGGTTAA
* *
117649 AAATGGAATTTTGGGAAGTTTTTGGGGGTT-A
1 AAATGGAATTTTGGGAAG--TTTCGAGGTTAA
* * *
117680 AAATGAGATTTTTGGG-AGTTTAG-GGGTAA
1 AAATG-GAATTTTGGGAAGTTTCGAGGTTAA
* ** * *
117709 AAATGAAATTTTTTGAAGTTTTGAGGTCAA
1 AAATGGAATTTTGGGAAGTTTCGAGGTTAA
*
117739 AAATGGGATTTTGGGAAG-TTCGAGGGTTAA
1 AAATGGAATTTTGGGAAGTTTCGA-GGTTAA
* **
117769 AAATGAAATTTTTTGAAGTTTCG-GGATTAA
1 AAATGGAATTTTGGGAAGTTTCGAGG-TTAA
** * *
117799 AAATGGAATTTTTAGAAGTTTAGA-GATAA
1 AAATGGAATTTTGGGAAGTTTCGAGGTTAA
*
117828 AAATGGAATTTTTGGATAGTTT
1 AAATGGAATTTTGGGA-AGTTT
117850 GGGGACCTTC
Statistics
Matches: 184, Mismatches: 34, Indels: 25
0.76 0.14 0.10
Matches are distributed among these distances:
28 9 0.05
29 65 0.35
30 76 0.41
31 18 0.10
32 16 0.09
ACGTcount: A:0.34, C:0.02, G:0.28, T:0.36
Consensus pattern (30 bp):
AAATGGAATTTTGGGAAGTTTCGAGGTTAA
Found at i:117651 original size:29 final size:29
Alignment explanation
Indices: 117617--117853 Score: 206
Period size: 30 Copynumber: 8.0 Consensus size: 29
117607 AATTCGAGGT
* *
117617 TAAAAATGGAATTTTTGGATGTTCGGGGG
1 TAAAAATGGAATTTTTGGAAGTTTGGGGG
*
117646 TAAAAATGGAATTTTGGGAAGTTTTTGGGGG
1 TAAAAATGGAATTTTTGGAAG--TTTGGGGG
* * *
117677 TTAAAAT-GAGATTTTTGGGAGTTTAGGGG
1 TAAAAATGGA-ATTTTTGGAAGTTTGGGGG
* * * *
117706 TAAAAATGAAATTTTTTGAAGTTTTGAGG
1 TAAAAATGGAATTTTTGGAAGTTTGGGGG
* * * *
117735 TCAAAAATGGGATTTTGGGAAGTTCGAGGGT
1 T-AAAAATGGAATTTTTGGAAGTTTG-GGGG
* * **
117766 TAAAAATGAAATTTTTTGAAGTTTCGGGAT
1 TAAAAATGGAATTTTTGGAAGTTT-GGGGG
* * * *
117796 TAAAAATGGAATTTTTAGAAGTTTAGAGA
1 TAAAAATGGAATTTTTGGAAGTTTGGGGG
117825 TAAAAATGGAATTTTTGGATAGTTTGGGG
1 TAAAAATGGAATTTTTGGA-AGTTTGGGG
117854 ACCTTCAGGG
Statistics
Matches: 164, Mismatches: 36, Indels: 15
0.76 0.17 0.07
Matches are distributed among these distances:
29 67 0.41
30 71 0.43
31 26 0.16
ACGTcount: A:0.33, C:0.02, G:0.29, T:0.36
Consensus pattern (29 bp):
TAAAAATGGAATTTTTGGAAGTTTGGGGG
Found at i:117683 original size:60 final size:59
Alignment explanation
Indices: 117614--117853 Score: 234
Period size: 60 Copynumber: 4.0 Consensus size: 59
117604 GAAAATTCGA
* * * *
117614 GGTTAAAAATGGAATTTTTGGATGTTCGGGGGTAAAAATGGAATTTTGGGAAGTTTTTGGG
1 GGTTAAAAATGGAATTTTTGGAAGTTCAGGGGTAAAAATGAAATTTTTGGAAG-TTTT-GG
* * * *
117675 GGTT-AAAAT-GAGATTTTTGGGAGTTTAGGGGTAAAAATGAAATTTTTTGAAGTTTTGA
1 GGTTAAAAATGGA-ATTTTTGGAAGTTCAGGGGTAAAAATGAAATTTTTGGAAGTTTTGG
* * * * * *
117733 GGTCAAAAATGGGATTTTGGGAAGTTCGAGGGTTAAAAATGAAATTTTTTGAAGTTTCGG
1 GGTTAAAAATGGAATTTTTGGAAGTTC-AGGGGTAAAAATGAAATTTTTGGAAGTTTTGG
* * * * * *
117793 GATTAAAAATGGAATTTTTAGAAGTTTAGAGATAAAAATGGAATTTTTGGATAG-TTTGG
1 GGTTAAAAATGGAATTTTTGGAAGTTCAGGGGTAAAAATGAAATTTTTGGA-AGTTTTGG
117852 GG
1 GG
117854 ACCTTCAGGG
Statistics
Matches: 146, Mismatches: 28, Indels: 12
0.78 0.15 0.06
Matches are distributed among these distances:
58 4 0.03
59 47 0.32
60 91 0.62
61 4 0.03
ACGTcount: A:0.33, C:0.02, G:0.30, T:0.36
Consensus pattern (59 bp):
GGTTAAAAATGGAATTTTTGGAAGTTCAGGGGTAAAAATGAAATTTTTGGAAGTTTTGG
Found at i:117750 original size:90 final size:91
Alignment explanation
Indices: 117646--117849 Score: 245
Period size: 90 Copynumber: 2.3 Consensus size: 91
117636 TGTTCGGGGG
* * * *
117646 TAAAAATGGAATTTTGGGAAGTTTTTGGGGGTT-AAAATGAGATTTTTGGGAGTTTAGGG-GTAA
1 TAAAAATGGAATTTTGGGAAGTTTTCGAGGGTTAAAAATGAAATTTTTGGAAGTTTAGGGAGTAA
* * *
117709 AAATGAAATTTTTTGAAGTTTTGAGG
66 AAATGAAATTTTTAGAAGTTTAGAGA
* * * *
117735 TCAAAAATGGGATTTTGGGAAG--TTCGAGGGTTAAAAATGAAATTTTTTGAAGTTTCGGGATTA
1 T-AAAAATGGAATTTTGGGAAGTTTTCGAGGGTTAAAAATGAAATTTTTGGAAGTTTAGGGAGTA
*
117798 AAAATGGAATTTTTAGAAGTTTAGAGA
65 AAAATGAAATTTTTAGAAGTTTAGAGA
*
117825 TAAAAATGGAATTTTTGGATAGTTT
1 TAAAAATGGAATTTTGGGA-AGTTT
117850 GGGGACCTTC
Statistics
Matches: 95, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
88 8 0.08
89 39 0.41
90 47 0.49
92 1 0.01
ACGTcount: A:0.34, C:0.01, G:0.27, T:0.37
Consensus pattern (91 bp):
TAAAAATGGAATTTTGGGAAGTTTTCGAGGGTTAAAAATGAAATTTTTGGAAGTTTAGGGAGTAA
AAATGAAATTTTTAGAAGTTTAGAGA
Found at i:118806 original size:3 final size:3
Alignment explanation
Indices: 118798--118825 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
118788 CAGTTGTCAC
118798 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
118826 ACTTATGAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:119468 original size:6 final size:6
Alignment explanation
Indices: 119457--119522 Score: 52
Period size: 6 Copynumber: 11.5 Consensus size: 6
119447 TTAAATGAAT
* *
119457 TTTAAA TTTAAA TTTATAA --TAAA TTTAAA TTTAGAA --TAAA CTTAAT
1 TTTAAA TTTAAA TTTA-AA TTTAAA TTTAAA TTTA-AA TTTAAA TTTAAA
*
119503 TTTAAA -ATAAA TTTAAA TTT
1 TTTAAA TTTAAA TTTAAA TTT
119523 GTTGGGCCCA
Statistics
Matches: 48, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
4 4 0.08
5 8 0.17
6 32 0.67
7 4 0.08
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (6 bp):
TTTAAA
Found at i:119479 original size:17 final size:17
Alignment explanation
Indices: 119459--119522 Score: 92
Period size: 17 Copynumber: 3.8 Consensus size: 17
119449 AAATGAATTT
*
119459 TAAATTTAAATTTATAA
1 TAAATTTAAATTTAAAA
*
119476 TAAATTTAAATTTAGAA
1 TAAATTTAAATTTAAAA
* *
119493 TAAACTTAATTTTAAAA
1 TAAATTTAAATTTAAAA
119510 TAAATTTAAATTT
1 TAAATTTAAATTT
119523 GTTGGGCCCA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 41 1.00
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:120209 original size:205 final size:205
Alignment explanation
Indices: 119847--120237 Score: 586
Period size: 205 Copynumber: 1.9 Consensus size: 205
119837 ACTTGGCCTT
* * *
119847 CTTCTCAGTATTTCATTAGGAAACTAACCGTTTATTGCTTCGACCTACTTCTCGGTGTCTCATCA
1 CTTCTCAGTATTTCATCAGGAAACTAACCGCTTATTGCTTCGACCTACTTCTCAGTGTCTCATCA
* * * *
119912 GGAAGCTGGGATTCGAAGATTTGCTTACGTCGAGCGTGGGTTTGATTTGGTTTTCTTCTTAGTAT
66 GGAAGCTGGGATTCGAAGATTTGCTCACGTCGAGCATGGGTTTGATTTGGTCTTCTTCTCAGTAT
* * * *
119977 CTCATCAGGAAGATGACCGCATCGTTTGTTTTAATCCGCTTTTCTGTATCTCATCAGGAAGACGA
131 CTCATCAAGAAGATGACCGCATCGTTTGTTTCAATCCGCTTCTCTGCATCTCATCAGGAAGACGA
120042 ATTTGGTCCA
196 ATTTGGTCCA
* * *
120052 CTTCTCAGTATCTT-ATCAGGAAGCTAACCGCTTATTGCTTCGACCTGCTTCTCAGTGTCTTATC
1 CTTCTCAGTAT-TTCATCAGGAAACTAACCGCTTATTGCTTCGACCTACTTCTCAGTGTCTCATC
* *
120116 AGGAAGCTGGGGTTCGAAGATTTGCTCATGTCGAGCATGGGTTTGATTTGGTCTTCTTCTCAGTA
65 AGGAAGCTGGGATTCGAAGATTTGCTCACGTCGAGCATGGGTTTGATTTGGTCTTCTTCTCAGTA
* * * *
120181 TCTTATTAAGAAGATGACTGCGTCGTTTGTTTCAATCCGCTTCTCTGCATCTCATCA
130 TCTCATCAAGAAGATGACCGCATCGTTTGTTTCAATCCGCTTCTCTGCATCTCATCA
120238 AGAAATTAAC
Statistics
Matches: 165, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
205 163 0.99
206 2 0.01
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.37
Consensus pattern (205 bp):
CTTCTCAGTATTTCATCAGGAAACTAACCGCTTATTGCTTCGACCTACTTCTCAGTGTCTCATCA
GGAAGCTGGGATTCGAAGATTTGCTCACGTCGAGCATGGGTTTGATTTGGTCTTCTTCTCAGTAT
CTCATCAAGAAGATGACCGCATCGTTTGTTTCAATCCGCTTCTCTGCATCTCATCAGGAAGACGA
ATTTGGTCCA
Found at i:120832 original size:3 final size:3
Alignment explanation
Indices: 120824--120851 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
120814 CAGTTGTCAC
120824 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
120852 ACTTATGAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:121494 original size:6 final size:6
Alignment explanation
Indices: 121483--121548 Score: 52
Period size: 6 Copynumber: 11.5 Consensus size: 6
121473 TTAAATGAAT
* *
121483 TTTAAA TTTAAA TTTATAA --TAAA TTTAAA TTTAGAA --TAAA CTTAAT
1 TTTAAA TTTAAA TTTA-AA TTTAAA TTTAAA TTTA-AA TTTAAA TTTAAA
*
121529 TTTAAA -ATAAA TTTAAA TTT
1 TTTAAA TTTAAA TTTAAA TTT
121549 GTTGGGCCCA
Statistics
Matches: 48, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
4 4 0.08
5 8 0.17
6 32 0.67
7 4 0.08
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (6 bp):
TTTAAA
Found at i:121505 original size:17 final size:17
Alignment explanation
Indices: 121485--121548 Score: 92
Period size: 17 Copynumber: 3.8 Consensus size: 17
121475 AAATGAATTT
*
121485 TAAATTTAAATTTATAA
1 TAAATTTAAATTTAAAA
*
121502 TAAATTTAAATTTAGAA
1 TAAATTTAAATTTAAAA
* *
121519 TAAACTTAATTTTAAAA
1 TAAATTTAAATTTAAAA
121536 TAAATTTAAATTT
1 TAAATTTAAATTT
121549 GTTGGGCCCA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 41 1.00
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:122235 original size:205 final size:205
Alignment explanation
Indices: 121873--122263 Score: 586
Period size: 205 Copynumber: 1.9 Consensus size: 205
121863 ACTTGGCCTT
* * *
121873 CTTCTCAGTATTTCATTAGGAAACTAACCGTTTATTGCTTCGACCTACTTCTCGGTGTCTCATCA
1 CTTCTCAGTATTTCATCAGGAAACTAACCGCTTATTGCTTCGACCTACTTCTCAGTGTCTCATCA
* * * *
121938 GGAAGCTGGGATTCGAAGATTTGCTTACGTCGAGCGTGGGTTTGATTTGGTTTTCTTCTTAGTAT
66 GGAAGCTGGGATTCGAAGATTTGCTCACGTCGAGCATGGGTTTGATTTGGTCTTCTTCTCAGTAT
* * * *
122003 CTCATCAGGAAGATGACCGCATCGTTTGTTTTAATCCGCTTTTCTGTATCTCATCAGGAAGACGA
131 CTCATCAAGAAGATGACCGCATCGTTTGTTTCAATCCGCTTCTCTGCATCTCATCAGGAAGACGA
122068 ATTTGGTCCA
196 ATTTGGTCCA
* * *
122078 CTTCTCAGTATCTT-ATCAGGAAGCTAACCGCTTATTGCTTCGACCTGCTTCTCAGTGTCTTATC
1 CTTCTCAGTAT-TTCATCAGGAAACTAACCGCTTATTGCTTCGACCTACTTCTCAGTGTCTCATC
* *
122142 AGGAAGCTGGGGTTCGAAGATTTGCTCATGTCGAGCATGGGTTTGATTTGGTCTTCTTCTCAGTA
65 AGGAAGCTGGGATTCGAAGATTTGCTCACGTCGAGCATGGGTTTGATTTGGTCTTCTTCTCAGTA
* * * *
122207 TCTTATTAAGAAGATGACTGCGTCGTTTGTTTCAATCCGCTTCTCTGCATCTCATCA
130 TCTCATCAAGAAGATGACCGCATCGTTTGTTTCAATCCGCTTCTCTGCATCTCATCA
122264 AGAAATTAAC
Statistics
Matches: 165, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
205 163 0.99
206 2 0.01
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.37
Consensus pattern (205 bp):
CTTCTCAGTATTTCATCAGGAAACTAACCGCTTATTGCTTCGACCTACTTCTCAGTGTCTCATCA
GGAAGCTGGGATTCGAAGATTTGCTCACGTCGAGCATGGGTTTGATTTGGTCTTCTTCTCAGTAT
CTCATCAAGAAGATGACCGCATCGTTTGTTTCAATCCGCTTCTCTGCATCTCATCAGGAAGACGA
ATTTGGTCCA
Found at i:122390 original size:168 final size:168
Alignment explanation
Indices: 122102--122431 Score: 500
Period size: 168 Copynumber: 2.0 Consensus size: 168
122092 ATCAGGAAGC
* *
122102 TAACCGCTTATTGCTTCGACCTGCTTCTCAGTGTCTTATCAGGAAGCTGGGGTTCGAAGATTTGC
1 TAACCGCTTATTGCTTCGACCTACTTCTCAGTGTCTTATCAGGAAGCTGGGATTCGAAGATTTGC
* * * * * *
122167 TCATGTCGAGCATGGGTTTGATTTGGTCTTCTTCTCAGTATCTTATTAAGAAGATGACTGCGTCG
66 TCACGTCGAGCATGGGTTTGATTTGGTCTTCTTCTCAATATCTCATCAAGAAGATGACCGCGTCA
*
122232 TTTGTTTCAATCCGCTTCTCTGCATCTCATCAAGAAAT
131 TTTATTTCAATCCGCTTCTCTGCATCTCATCAAGAAAT
* * *
122270 TAACCGTTTATTGCTTTGACCTACTTCTCGGTGT-TTCATCAGGAAGCTGGGATTCGAAGATTTG
1 TAACCGCTTATTGCTTCGACCTACTTCTCAGTGTCTT-ATCAGGAAGCTGGGATTCGAAGATTTG
* *
122334 CTCACGTCGAGCGTGGGTTTGATTTGGTCTTCTTCTCAATATCTCATCAGGAAGATGACCGCGTC
65 CTCACGTCGAGCATGGGTTTGATTTGGTCTTCTTCTCAATATCTCATCAAGAAGATGACCGCGTC
* *
122399 ATTTATTTCAATCCGTTTCTCTGTATCTCATCA
130 ATTTATTTCAATCCGCTTCTCTGCATCTCATCA
122432 GGAAGACGAA
Statistics
Matches: 145, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
167 2 0.01
168 143 0.99
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.37
Consensus pattern (168 bp):
TAACCGCTTATTGCTTCGACCTACTTCTCAGTGTCTTATCAGGAAGCTGGGATTCGAAGATTTGC
TCACGTCGAGCATGGGTTTGATTTGGTCTTCTTCTCAATATCTCATCAAGAAGATGACCGCGTCA
TTTATTTCAATCCGCTTCTCTGCATCTCATCAAGAAAT
Found at i:122582 original size:373 final size:373
Alignment explanation
Indices: 121892--122634 Score: 1184
Period size: 373 Copynumber: 2.0 Consensus size: 373
121882 ATTTCATTAG
121892 GAAACTAACCGTTTATTGCTTCGACCTACTTCTCGGTGTCTCATCAGGAAGCTGGGATTCGAAGA
1 GAAACTAACCGTTTATTGCTTCGACCTACTTCTCGGTGTCTCATCAGGAAGCTGGGATTCGAAGA
* * * *
121957 TTTGCTTACGTCGAGCGTGGGTTTGATTTGGTTTTCTTCTTAGTATCTCATCAGGAAGATGACCG
66 TTTGCTCACGTCGAGCGTGGGTTTGATTTGGTCTTCTTCTCAATATCTCATCAGGAAGATGACCG
* * *
122022 CATCGTTTGTTTTAATCCGCTTTTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGT
131 CATCATTTATTTCAATCCGCTTTTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGT
* * * *
122087 ATCTTATCAGGAAGCTAACCGCTTATTGCTTCGACCTGCTTCTCAGTGTCTTATCAGGAAGCTGG
196 ATCTCATCAGGAAGCTAACAGCTTATTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCCGG
** * * *
122152 GGTTCGAAGATTTGCTCATGTCGAGCATGGGTTTGATTTGGTCTTCTTCTCAGTATCTTATTAAG
261 GGTTCGAAGATTTGCTCACATCGAGCATGGATTTGATTTGGTCTTCTTCTCAGTATCTCATCAAG
*
122217 AAGATGACTGCGTCGTTTGTTTCAATCCGCTTCTCTGCATCTCATCAA
326 AAGATGACCGCGTCGTTTGTTTCAATCCGCTTCTCTGCATCTCATCAA
* * *
122265 GAAATTAACCGTTTATTGCTTTGACCTACTTCTCGGTGTTTCATCAGGAAGCTGGGATTCGAAGA
1 GAAACTAACCGTTTATTGCTTCGACCTACTTCTCGGTGTCTCATCAGGAAGCTGGGATTCGAAGA
122330 TTTGCTCACGTCGAGCGTGGGTTTGATTTGGTCTTCTTCTCAATATCTCATCAGGAAGATGACCG
66 TTTGCTCACGTCGAGCGTGGGTTTGATTTGGTCTTCTTCTCAATATCTCATCAGGAAGATGACCG
*
122395 CGTCATTTATTTCAATCCG-TTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAG
131 CATCATTTATTTCAATCCGCTTT-TCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAG
** *
122459 TATCTCATCAGGAAGCTAACATTTTATTGTTTCGACCTG-TCTCTCAGTGTCTCATCAGGAAGCC
195 TATCTCATCAGGAAGCTAACAGCTTATTGCTTCGACCTGCT-TCTCAGTGTCTCATCAGGAAGCC
* * *
122523 GTGGTTCGAAGATTTGTTCACATCGAGCATGGATTTGATTTGGTCTTCTTTTCAGTATCTCATCA
259 GGGGTTCGAAGATTTGCTCACATCGAGCATGGATTTGATTTGGTCTTCTTCTCAGTATCTCATCA
* * *
122588 GGAAGATGACCGCGTCGTTTGTTTCAATTCGCTTCTCTGTATCTCAT
324 AGAAGATGACCGCGTCGTTTGTTTCAATCCGCTTCTCTGCATCTCAT
122635 TAGGAAAACG
Statistics
Matches: 338, Mismatches: 30, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
372 4 0.01
373 334 0.99
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.37
Consensus pattern (373 bp):
GAAACTAACCGTTTATTGCTTCGACCTACTTCTCGGTGTCTCATCAGGAAGCTGGGATTCGAAGA
TTTGCTCACGTCGAGCGTGGGTTTGATTTGGTCTTCTTCTCAATATCTCATCAGGAAGATGACCG
CATCATTTATTTCAATCCGCTTTTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGT
ATCTCATCAGGAAGCTAACAGCTTATTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCCGG
GGTTCGAAGATTTGCTCACATCGAGCATGGATTTGATTTGGTCTTCTTCTCAGTATCTCATCAAG
AAGATGACCGCGTCGTTTGTTTCAATCCGCTTCTCTGCATCTCATCAA
Found at i:122827 original size:204 final size:203
Alignment explanation
Indices: 122246--122845 Score: 831
Period size: 205 Copynumber: 2.9 Consensus size: 203
122236 TTTCAATCCG
* * * ** * ** *
122246 CTTCTCTGCATCTCATCAAGAAATTAACCGTTTATTGCTTTGACCTACTTCTCGGTGTTTCATCA
1 CTTCTCAGTATCTCATCAGGAAGCTAACCGTTTATTGCTTCGACCTGTTTCTCGGTGTCTCATCA
* *
122311 GGAAGCTGGGATTCGAAGATTTGCTCACGTCGAGCGTGGGTTTGATTTGGTCTTCTTCTCAATAT
66 GGAAGCTGGG-TTCGAAGATTTGCTCACGTCGAGCAT-GGTTTGATTTGGTCTTCTTCTCAGTAT
* * *
122376 CTCATCAGGAAGATGACCGCGTCATTTATTTCAATCCGTTTCTCTGTATCTCATCAGGAAGACGA
129 CTCATCAGGAAGATGACCGCGTCGTTTATTTCAATCCGCTTCTCTGTATCTCATCAGGAAAACGA
*
122441 ATTTGGTCCA
194 ATTTGGCCCA
** * * *
122451 CTTCTCAGTATCTCATCAGGAAGCTAACATTTTATTGTTTCGACCTGTCTCTCAGTGTCTCATCA
1 CTTCTCAGTATCTCATCAGGAAGCTAACCGTTTATTGCTTCGACCTGTTTCTCGGTGTCTCATCA
* * * *
122516 GGAAGCCGTGGTTCGAAGATTTGTTCACATCGAGCATGGATTTGATTTGGTCTTCTTTTCAGTAT
66 GGAAGCTG-GGTTCGAAGATTTGCTCACGTCGAGCATGG-TTTGATTTGGTCTTCTTCTCAGTAT
* * *
122581 CTCATCAGGAAGATGACCGCGTCGTTTGTTTCAATTCGCTTCTCTGTATCTCATTAGGAAAACGA
129 CTCATCAGGAAGATGACCGCGTCGTTTATTTCAATCCGCTTCTCTGTATCTCATCAGGAAAACGA
122646 ATTTGGCCCA
194 ATTTGGCCCA
*
122656 CTTCTCAGTATCTCATCAGGAAGCTAACCGCTTATTGCTTCGACCTGTTTCTCGGTGTCTCATCA
1 CTTCTCAGTATCTCATCAGGAAGCTAACCGTTTATTGCTTCGACCTGTTTCTCGGTGTCTCATCA
* *
122721 AGAAGCTGGGTTCGAAGATTTGCTCATGTCGAGCATGTGTTTGATTTGGTCTTCTTCTCAGTATC
66 GGAAGCTGGGTTCGAAGATTTGCTCACGTCGAGCATG-GTTTGATTTGGTCTTCTTCTCAGTATC
* * * * * *
122786 TTATCAGGAAAATAACTGCGTCGTTTATTTCAATCCGCTTCTCTGCATCTCATCAAGAAA
130 TCATCAGGAAGATGACCGCGTCGTTTATTTCAATCCGCTTCTCTGTATCTCATCAGGAAA
122846 CTAACCGTTT
Statistics
Matches: 344, Mismatches: 48, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
204 104 0.30
205 238 0.69
206 2 0.01
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.36
Consensus pattern (203 bp):
CTTCTCAGTATCTCATCAGGAAGCTAACCGTTTATTGCTTCGACCTGTTTCTCGGTGTCTCATCA
GGAAGCTGGGTTCGAAGATTTGCTCACGTCGAGCATGGTTTGATTTGGTCTTCTTCTCAGTATCT
CATCAGGAAGATGACCGCGTCGTTTATTTCAATCCGCTTCTCTGTATCTCATCAGGAAAACGAAT
TTGGCCCA
Found at i:122943 original size:168 final size:167
Alignment explanation
Indices: 122656--123008 Score: 535
Period size: 168 Copynumber: 2.1 Consensus size: 167
122646 ATTTGGCCCA
* * * * * *
122656 CTTCTCAGTATCTCATCAGGAAGCTAACCGCTTATTGCTTCGACCTGTTTCTCGGTGTCTCATCA
1 CTTCTCTGTATCTCATCAAGAAACTAACCGCTTATTCCTTCGACCTGCTTCTAGGTGTCTCATCA
* * *
122721 AGAAGCTGGGTTCGAAGATTTGCTCATGTCGAGCATGTGTTTGATTTGGTCTTCTTCTCAGTATC
66 AGAAGCTGGATTCGAAGATTTGCTCACGTCGAGCATGGGTTTGATTTGGTCTTCTTCTCAGTATC
* *
122786 TTATCAGGAAAATAACTGCGTCGTTTATTTCAATCCG
131 TCATCAGGAAAATAACCGCGTCGTTTATTTCAATCCG
* * *
122823 CTTCTCTGCATCTCATCAAGAAACTAACCGTTTATTCCTTCGACCTGCTTCTAGGTGTTTCATCA
1 CTTCTCTGTATCTCATCAAGAAACTAACCGCTTATTCCTTCGACCTGCTTCTAGGTGTCTCATCA
*
122888 AGAAGCTGAGATTCGAAGATTTGCTCACGTCGAGCGTGGGTTTGATTTGGTCTTCTTCTCAGTAT
66 AGAAGCTG-GATTCGAAGATTTGCTCACGTCGAGCATGGGTTTGATTTGGTCTTCTTCTCAGTAT
* * *
122953 CTCATCAGGAAGATGACCGCGTCGTTTGTTTCAATCCG
130 CTCATCAGGAAAATAACCGCGTCGTTTATTTCAATCCG
122991 CTTCTCTGTATCTCATCA
1 CTTCTCTGTATCTCATCA
123009 GGAAGACGAA
Statistics
Matches: 166, Mismatches: 19, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
167 64 0.39
168 102 0.61
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.36
Consensus pattern (167 bp):
CTTCTCTGTATCTCATCAAGAAACTAACCGCTTATTCCTTCGACCTGCTTCTAGGTGTCTCATCA
AGAAGCTGGATTCGAAGATTTGCTCACGTCGAGCATGGGTTTGATTTGGTCTTCTTCTCAGTATC
TCATCAGGAAAATAACCGCGTCGTTTATTTCAATCCG
Found at i:122952 original size:372 final size:373
Alignment explanation
Indices: 122451--123211 Score: 1060
Period size: 372 Copynumber: 2.0 Consensus size: 373
122441 ATTTGGTCCA
* * * * **
122451 CTTCTCAGTATCTCATCAGGAAGCTAACATTTTATTGTTTCGACCTGTCTCTCAGTGTCTCATCA
1 CTTCTCTGTATCTCATCAAGAAACTAACAGTTTATTCCTTCGACCTGTCTCTCAGTGTCTCATCA
* * * * *
122516 GGAAGCCGTGGTTCGAAGATTTGTTCACATCGAGCATGGATTTGATTTGGTCTTCTTTTCAGTAT
66 AGAAGCCGAGATTCGAAGATTTGCTCACATCGAGCATGGATTTGATTTGGTCTTCTTCTCAGTAT
* *
122581 CTCATCAGGAAGATGACCGCGTCGTTTGTTTCAATTCGCTTCTCTGTATCTCATTAGGAAAACGA
131 CTCATCAGGAAGATGACCGCGTCGTTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAAACGA
* * * *
122646 ATTTGGCCCACTTCTCAGTATCTCATCAGGAAGCTAACCGCTTATTGCTTCGACCTGTTTCTCGG
196 ATTTGACCCACTTCTCAGTATCTCATCAGGAAGCTAACCGCTTATTGCTTCAACCTGTCTCTCAG
** **
122711 TGTCTCATCAAGAAGCTG-GGTTCGAAGATTTGCTCATGTCGAGCATGTGTTTGATTTGGTCTTC
261 TGTCTCATCAAGAAGCTGTGGTTCGAAGATTTGCTCACATCGAGCATGAATTTGATTTGGTCTTC
* *
122775 TTCTCAGTATCTTATCAGGAAAATAACTGCGTCGTTTATTTCAATCCG
326 TTCTCAGTATCTCATCAGGAAAATAACTGCATCGTTTATTTCAATCCG
* * *
122823 CTTCTCTGCATCTCATCAAGAAACTAACCGTTTATTCCTTCGACCTG-CT-TCTAGGTGTTTCAT
1 CTTCTCTGTATCTCATCAAGAAACTAACAGTTTATTCCTTCGACCTGTCTCTC-A-GTGTCTCAT
* * * *
122886 CAAGAAGCTGAGATTCGAAGATTTGCTCACGTCGAGCGTGGGTTTGATTTGGTCTTCTTCTCAGT
64 CAAGAAGCCGAGATTCGAAGATTTGCTCACATCGAGCATGGATTTGATTTGGTCTTCTTCTCAGT
*
122951 ATCTCATCAGGAAGATGACCGCGTCGTTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAGAC
129 ATCTCATCAGGAAGATGACCGCGTCGTTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAAAC
* ** ** *
123016 GAATTTGATCCACTTCTCAGTATCTTTTCAGGAAGCTAACCTTTTATTTCTTCAACCTGTCTCTC
194 GAATTTGACCCACTTCTCAGTATCTCATCAGGAAGCTAACCGCTTATTGCTTCAACCTGTCTCTC
* * * *
123081 AGTGTCTTATCAGGAAGCTGTGGTTCGAAGATTTGTTCACATCGAGCGTGAATTTGATTTGGTCT
259 AGTGTCTCATCAAGAAGCTGTGGTTCGAAGATTTGCTCACATCGAGCATGAATTTGATTTGGTCT
* * * * *
123146 TCTTTTCAGTATCTCATCAGGAAGATGACTGCATCGTTTGTTTCAATTCG
324 TCTTCTCAGTATCTCATCAGGAAAATAACTGCATCGTTTATTTCAATCCG
*
123196 CTTCTCTATATCTCAT
1 CTTCTCTGTATCTCAT
123212 AAGGAAGACG
Statistics
Matches: 338, Mismatches: 48, Indels: 5
0.86 0.12 0.01
Matches are distributed among these distances:
370 2 0.01
371 3 0.01
372 238 0.70
373 95 0.28
ACGTcount: A:0.21, C:0.22, G:0.19, T:0.37
Consensus pattern (373 bp):
CTTCTCTGTATCTCATCAAGAAACTAACAGTTTATTCCTTCGACCTGTCTCTCAGTGTCTCATCA
AGAAGCCGAGATTCGAAGATTTGCTCACATCGAGCATGGATTTGATTTGGTCTTCTTCTCAGTAT
CTCATCAGGAAGATGACCGCGTCGTTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAAACGA
ATTTGACCCACTTCTCAGTATCTCATCAGGAAGCTAACCGCTTATTGCTTCAACCTGTCTCTCAG
TGTCTCATCAAGAAGCTGTGGTTCGAAGATTTGCTCACATCGAGCATGAATTTGATTTGGTCTTC
TTCTCAGTATCTCATCAGGAAAATAACTGCATCGTTTATTTCAATCCG
Found at i:122967 original size:577 final size:577
Alignment explanation
Indices: 121873--123365 Score: 2357
Period size: 577 Copynumber: 2.6 Consensus size: 577
121863 ACTTGGCCTT
* * * * * * *
121873 CTTCTCAGTATTTCATTAGGAAACTAACCGTTTATTGCTTCGACCT-ACTTCTCGGTGTCTCATC
1 CTTCTCAGTATCTCATCAGGAAGCTAACCTTTTATTGTTTCGACCTGTC-TCTCAGTGTCTCATC
* * *
121937 AGGAAGCTG-GGATTCGAAGATTTGCTT-ACGTCGAGCGTGGGTTTGATTTGGTTTTCTTCTT-A
65 AGGAAGCTGTGG-TTCGAAGATTTG-TTCACATCGAGCGTGGATTTGATTTGGTCTTCTT-TTCA
* * * *
121999 GTATCTCATCAGGAAGATGACCGCATCGTTTGTTTTAATCCGCTTTTCTGTATCTCATCAGGAAG
127 GTATCTCATCAGGAAGATGACCGCATCGTTTGTTTCAATTCGCTTCTCTGTATCTCATAAGGAAG
*
122064 ACGAATTTGGTCCACTTCTCAGTATCTTATCAGGAAGCTAACCGCTTATTGCTTCGACCTGCTTC
192 ACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCGCTTATTGCTTCGACCTGCTTC
* *
122129 TCAGTGTCTTATCAGGAAGCTGGGGTTCGAAGATTTGCTCATGTCGAGCATGGGTTTGATTTGGT
257 TCGGTGTCTCATCAGGAAGCT-GGGTTCGAAGATTTGCTCATGTCGAGCATGGGTTTGATTTGGT
* * * *
122194 CTTCTTCTCAGTATCTTATTAAGAAGATGACTGCGTCGTTTGTTTCAATCCGCTTCTCTGCATCT
321 CTTCTTCTCAGTATCTTATCAAGAAAATAACTGCGTCGTTTATTTCAATCCGCTTCTCTGCATCT
* * * * * *
122259 CATCAAGAAATTAACCGTTTATTGCTTTGACCTACTTCTCGGTGTTTCATCAGGAAGCTGGGATT
386 CATCAAGAAACTAACCGTTTATTCCTTCGACCTACTTCTAGGTGTTTCATCAAGAAGCTGAGATT
122324 CGAAGATTTGCTCACGTCGAGCGTGGGTTTGATTTGGTCTTCTTCTCAATATCTCATCAGGAAGA
451 CGAAGATTTGCTCACGTCGAGCGTGGGTTTGATTTGGTCTTCTTCTCAATATCTCATCAGGAAGA
* *
122389 TGACCGCGTCATTTATTTCAATCCGTTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCA
516 TGACCGCGTCATTTATTTCAATCCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGATCCA
*
122451 CTTCTCAGTATCTCATCAGGAAGCTAACATTTTATTGTTTCGACCTGTCTCTCAGTGTCTCATCA
1 CTTCTCAGTATCTCATCAGGAAGCTAACCTTTTATTGTTTCGACCTGTCTCTCAGTGTCTCATCA
* *
122516 GGAAGCCGTGGTTCGAAGATTTGTTCACATCGAGCATGGATTTGATTTGGTCTTCTTTTCAGTAT
66 GGAAGCTGTGGTTCGAAGATTTGTTCACATCGAGCGTGGATTTGATTTGGTCTTCTTTTCAGTAT
* * *
122581 CTCATCAGGAAGATGACCGCGTCGTTTGTTTCAATTCGCTTCTCTGTATCTCATTAGGAAAACGA
131 CTCATCAGGAAGATGACCGCATCGTTTGTTTCAATTCGCTTCTCTGTATCTCATAAGGAAGACGA
* *
122646 ATTTGGCCCACTTCTCAGTATCTCATCAGGAAGCTAACCGCTTATTGCTTCGACCTGTTTCTCGG
196 ATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCGCTTATTGCTTCGACCTGCTTCTCGG
* *
122711 TGTCTCATCAAGAAGCTGGGTTCGAAGATTTGCTCATGTCGAGCATGTGTTTGATTTGGTCTTCT
261 TGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCATGTCGAGCATGGGTTTGATTTGGTCTTCT
*
122776 TCTCAGTATCTTATCAGGAAAATAACTGCGTCGTTTATTTCAATCCGCTTCTCTGCATCTCATCA
326 TCTCAGTATCTTATCAAGAAAATAACTGCGTCGTTTATTTCAATCCGCTTCTCTGCATCTCATCA
*
122841 AGAAACTAACCGTTTATTCCTTCGACCTGCTTCTAGGTGTTTCATCAAGAAGCTGAGATTCGAAG
391 AGAAACTAACCGTTTATTCCTTCGACCTACTTCTAGGTGTTTCATCAAGAAGCTGAGATTCGAAG
*
122906 ATTTGCTCACGTCGAGCGTGGGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACC
456 ATTTGCTCACGTCGAGCGTGGGTTTGATTTGGTCTTCTTCTCAATATCTCATCAGGAAGATGACC
* *
122971 GCGTCGTTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGATCCA
521 GCGTCATTTATTTCAATCCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGATCCA
** * *
123028 CTTCTCAGTATCTTTTCAGGAAGCTAACCTTTTATT-TCTTCAACCTGTCTCTCAGTGTCTTATC
1 CTTCTCAGTATCTCATCAGGAAGCTAACCTTTTATTGT-TTCGACCTGTCTCTCAGTGTCTCATC
*
123092 AGGAAGCTGTGGTTCGAAGATTTGTTCACATCGAGCGTGAATTTGATTTGGTCTTCTTTTCAGTA
65 AGGAAGCTGTGGTTCGAAGATTTGTTCACATCGAGCGTGGATTTGATTTGGTCTTCTTTTCAGTA
* *
123157 TCTCATCAGGAAGATGACTGCATCGTTTGTTTCAATTCGCTTCTCTATATCTCATAAGGAAGACG
130 TCTCATCAGGAAGATGACCGCATCGTTTGTTTCAATTCGCTTCTCTGTATCTCATAAGGAAGACG
* * *
123222 AATTTGGTTCACTTCTCAGTATCTCATCAGGAAGCAAACCGTTTTATTGCTTCGACCTGCTTCTC
195 AATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCG-CTTATTGCTTCGACCTGCTTCTC
* * * *
123287 GGTGTCTCATTAGGAAGCTGGAGTTCGAAGATTTGCTCATATCGAGCGTGGGTTTAATTTGGTCT
259 GGTGTCTCATCAGGAAGCTGG-GTTCGAAGATTTGCTCATGTCGAGCATGGGTTTGATTTGGTCT
123352 TCTTCTCAGTATCT
323 TCTTCTCAGTATCT
123366 CATCTGGCAG
Statistics
Matches: 841, Mismatches: 67, Indels: 13
0.91 0.07 0.01
Matches are distributed among these distances:
576 1 0.00
577 503 0.60
578 281 0.33
579 56 0.07
ACGTcount: A:0.21, C:0.22, G:0.20, T:0.37
Consensus pattern (577 bp):
CTTCTCAGTATCTCATCAGGAAGCTAACCTTTTATTGTTTCGACCTGTCTCTCAGTGTCTCATCA
GGAAGCTGTGGTTCGAAGATTTGTTCACATCGAGCGTGGATTTGATTTGGTCTTCTTTTCAGTAT
CTCATCAGGAAGATGACCGCATCGTTTGTTTCAATTCGCTTCTCTGTATCTCATAAGGAAGACGA
ATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCGCTTATTGCTTCGACCTGCTTCTCGG
TGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCATGTCGAGCATGGGTTTGATTTGGTCTTCT
TCTCAGTATCTTATCAAGAAAATAACTGCGTCGTTTATTTCAATCCGCTTCTCTGCATCTCATCA
AGAAACTAACCGTTTATTCCTTCGACCTACTTCTAGGTGTTTCATCAAGAAGCTGAGATTCGAAG
ATTTGCTCACGTCGAGCGTGGGTTTGATTTGGTCTTCTTCTCAATATCTCATCAGGAAGATGACC
GCGTCATTTATTTCAATCCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGATCCA
Found at i:123380 original size:206 final size:206
Alignment explanation
Indices: 122818--123383 Score: 773
Period size: 205 Copynumber: 2.8 Consensus size: 206
122808 GTTTATTTCA
* * * * * * *
122818 ATCCGCTTCTCTGCATCTCATCAAGAAACTAACCG-TTTATTCCTTCGACCTGCTTCTAGGTGTT
1 ATCCACTTCTCAGTATCTCATCAGGAAGCTAACCGTTTTATTCCTTCGACCTGCTTCTCGGTGTC
* *
122882 TCATCAAGAAGCT-GAGATTCGAAGATTTGCTCACGTCGAGCGTGGGTTTGATTTGGTCTTCTTC
66 TCATCAGGAAGCTGGAG-TTCGAAGATTTGCTCACATCGAGCGTGGGTTTGATTTGGTCTTCTTC
* * * *
122946 TCAGTATCTCATCAGGAAGATGACCGCGTCGTTTGTTTCAATCCGCTTCTCTGTATCTCATCAGG
130 TCAGTATCTCATCAGGAAGATGACTGCATCGTTTGTTTCAATCCGCTTCTCTATATCTCATAAGG
123011 AAGACGAATTTG
195 AAGACGAATTTG
** * * *
123023 ATCCACTTCTCAGTATCTTTTCAGGAAGCTAACC-TTTTATTTCTTCAACCTG-TCTCTCAGTGT
1 ATCCACTTCTCAGTATCTCATCAGGAAGCTAACCGTTTTATTCCTTCGACCTGCT-TCTCGGTGT
* * **
123086 CTTATCAGGAAGCTGTG-GTTCGAAGATTTGTTCACATCGAGCGTGAATTTGATTTGGTCTTCTT
65 CTCATCAGGAAGCTG-GAGTTCGAAGATTTGCTCACATCGAGCGTGGGTTTGATTTGGTCTTCTT
* *
123150 TTCAGTATCTCATCAGGAAGATGACTGCATCGTTTGTTTCAATTCGCTTCTCTATATCTCATAAG
129 CTCAGTATCTCATCAGGAAGATGACTGCATCGTTTGTTTCAATCCGCTTCTCTATATCTCATAAG
123215 GAAGACGAATTTG
194 GAAGACGAATTTG
* * * *
123228 GTTCACTTCTCAGTATCTCATCAGGAAGCAAACCGTTTTATTGCTTCGACCTGCTTCTCGGTGTC
1 ATCCACTTCTCAGTATCTCATCAGGAAGCTAACCGTTTTATTCCTTCGACCTGCTTCTCGGTGTC
* * *
123293 TCATTAGGAAGCTGGAGTTCGAAGATTTGCTCATATCGAGCGTGGGTTTAATTTGGTCTTCTTCT
66 TCATCAGGAAGCTGGAGTTCGAAGATTTGCTCACATCGAGCGTGGGTTTGATTTGGTCTTCTTCT
* *
123358 CAGTATCTCATCTGGCAGATGACTGC
131 CAGTATCTCATCAGGAAGATGACTGC
123384 TTTGTTGTTT
Statistics
Matches: 312, Mismatches: 42, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
204 1 0.00
205 204 0.65
206 105 0.34
207 2 0.01
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (206 bp):
ATCCACTTCTCAGTATCTCATCAGGAAGCTAACCGTTTTATTCCTTCGACCTGCTTCTCGGTGTC
TCATCAGGAAGCTGGAGTTCGAAGATTTGCTCACATCGAGCGTGGGTTTGATTTGGTCTTCTTCT
CAGTATCTCATCAGGAAGATGACTGCATCGTTTGTTTCAATCCGCTTCTCTATATCTCATAAGGA
AGACGAATTTG
Found at i:131262 original size:57 final size:58
Alignment explanation
Indices: 131198--131313 Score: 216
Period size: 57 Copynumber: 2.0 Consensus size: 58
131188 TGAGTCTATA
131198 CCTTCTCTTTATATGATGATGAAATGCAATGCAAAAAGAG-CAAAATAAACAAGTTAG
1 CCTTCTCTTTATATGATGATGAAATGCAATGCAAAAAGAGACAAAATAAACAAGTTAG
*
131255 CCTTCTCTTTATATGATGATGAAATGCAATGCAAAAAGAGACAAAATAAAGAAGTTAG
1 CCTTCTCTTTATATGATGATGAAATGCAATGCAAAAAGAGACAAAATAAACAAGTTAG
131313 C
1 C
131314 GAAACATAAC
Statistics
Matches: 57, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
57 40 0.70
58 17 0.30
ACGTcount: A:0.44, C:0.14, G:0.16, T:0.26
Consensus pattern (58 bp):
CCTTCTCTTTATATGATGATGAAATGCAATGCAAAAAGAGACAAAATAAACAAGTTAG
Found at i:132517 original size:18 final size:17
Alignment explanation
Indices: 132494--132574 Score: 72
Period size: 17 Copynumber: 4.6 Consensus size: 17
132484 TGGGTTTAAA
*
132494 TTAATTCAAATTTATTTT
1 TTAATTTAAATTTA-TTT
132512 TTAATTTAAATTTATTT
1 TTAATTTAAATTTATTT
* **
132529 TAAATTTAAATTTAAAT
1 TTAATTTAAATTTATTT
** *
132546 TTGCTTTAAATTTAAATT
1 TTAATTTAAATTT-ATTT
*
132564 TAAATTTAAAT
1 TTAATTTAAAT
132575 GGATTTAAAA
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
17 27 0.53
18 24 0.47
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.56
Consensus pattern (17 bp):
TTAATTTAAATTTATTT
Found at i:132523 original size:6 final size:6
Alignment explanation
Indices: 132488--132574 Score: 83
Period size: 6 Copynumber: 15.2 Consensus size: 6
132478 TTTTATTGGG
* ** * *
132488 TTTAAA -TT-AA TTCAAA TTTATT TTTTAA TTTAAA TTT-AT TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
**
132533 TTTAAA TTTAAA TTT-GC TTTAAA TTTAAA TTTAAA TTTAAA T
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T
132575 GGATTTAAAA
Statistics
Matches: 63, Mismatches: 14, Indels: 8
0.74 0.16 0.09
Matches are distributed among these distances:
4 2 0.03
5 10 0.16
6 51 0.81
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.55
Consensus pattern (6 bp):
TTTAAA
Found at i:132530 original size:23 final size:23
Alignment explanation
Indices: 132514--132571 Score: 98
Period size: 23 Copynumber: 2.5 Consensus size: 23
132504 TTTATTTTTT
*
132514 AATTTAAATTTATTTTAAATTTA
1 AATTTAAATTTACTTTAAATTTA
*
132537 AATTTAAATTTGCTTTAAATTTA
1 AATTTAAATTTACTTTAAATTTA
132560 AATTTAAATTTA
1 AATTTAAATTTA
132572 AATGGATTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (23 bp):
AATTTAAATTTACTTTAAATTTA
Found at i:132546 original size:29 final size:29
Alignment explanation
Indices: 132488--132574 Score: 88
Period size: 29 Copynumber: 3.0 Consensus size: 29
132478 TTTTATTGGG
* ** *
132488 TTTAAA-TTAATTCAAATTTATTTTTTAA
1 TTTAAATTTAATTTAAATTTAAATTTAAA
*
132516 TTTAAATTTATTTTAAATTTAAATTTAAA
1 TTTAAATTTAATTTAAATTTAAATTTAAA
**
132545 TTT-GCTTTAAATTTAAATTTAAATTTAAA
1 TTTAAATTT-AATTTAAATTTAAATTTAAA
132574 T
1 T
132575 GGATTTAAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
28 9 0.18
29 40 0.82
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.55
Consensus pattern (29 bp):
TTTAAATTTAATTTAAATTTAAATTTAAA
Found at i:132589 original size:29 final size:29
Alignment explanation
Indices: 132528--132589 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
132518 TAAATTTATT
* * *
132528 TTAAATTTAAATTTAAATTTGCTTTAAAT
1 TTAAATTTAAATTTAAATTGGATTTAAAC
132557 TTAAATTTAAATTTAAA-TGGATTTAAAAC
1 TTAAATTTAAATTTAAATTGGATTT-AAAC
132586 TTAA
1 TTAA
132590 TTAAAAAGTC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 5 0.17
29 24 0.83
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (29 bp):
TTAAATTTAAATTTAAATTGGATTTAAAC
Found at i:134404 original size:29 final size:29
Alignment explanation
Indices: 134367--134613 Score: 175
Period size: 29 Copynumber: 8.4 Consensus size: 29
134357 GAGGTCCCTA
*
134367 AACTATCCAAAAATTACCATTTTACCCTCG
1 AACT-TCCAAAAATTCCCATTTTACCCTCG
* *
134397 AACTTCCAAAAAATCTCATTTTCAACCC-CG
1 AACTTCCAAAAATTCCCATTTT--ACCCTCG
* * * **
134427 AAAATTGC-AAAATTTCCATTTTTACCCTTT
1 -AACTTCCAAAAATTCCCA-TTTTACCCTCG
* *
134457 AACTTCCAAAAATTCCCATTTTTAACCTTG
1 AACTTCCAAAAATTCCCA-TTTTACCCTCG
* **
134487 AAACTTCCAAAAA-TCCCGTTTTGACCCTAA
1 -AACTTCCAAAAATTCCCATTTT-ACCCTCG
* * *
134517 AACTT-CTAAAATTACCATTTTACCCCCG
1 AACTTCCAAAAATTCCCATTTTACCCTCG
* * *
134545 AACTTTCAAAAA-TCCCATTTGACCC-CAA
1 AACTTCCAAAAATTCCCATTTTACCCTC-G
*
134573 AACTTCCAAAAATT-TCATTTTTACCCTCG
1 AACTTCCAAAAATTCCCA-TTTTACCCTCG
134602 AACTTCCAAAAA
1 AACTTCCAAAAA
134614 CGCCATTTTT
Statistics
Matches: 170, Mismatches: 33, Indels: 29
0.73 0.14 0.12
Matches are distributed among these distances:
27 1 0.01
28 38 0.22
29 65 0.38
30 41 0.24
31 25 0.15
ACGTcount: A:0.36, C:0.29, G:0.04, T:0.32
Consensus pattern (29 bp):
AACTTCCAAAAATTCCCATTTTACCCTCG
Found at i:134498 original size:60 final size:59
Alignment explanation
Indices: 134366--134584 Score: 149
Period size: 60 Copynumber: 3.7 Consensus size: 59
134356 GGAGGTCCCT
*
134366 AAACTATCCAAAAATTACCATTTTACCCTCGAACTTCCAAAAAATCTCATTTTCAACCCCG
1 AAACT-TCC-AAAATTACCATTTTACCCTCGAACTTCCAAAAAATCCCATTTTCAACCCCG
* * * ** * * **
134427 AAAATTGCAAAATTTCCATTTTTACCCTTTAACTTCCAAAAATTCCCATTTTTAACCTTG
1 AAACTTCCAAAATTACCA-TTTTACCCTCGAACTTCCAAAAAATCCCATTTTCAACCCCG
* * * ** * * * *
134487 AAACTTCCAAAAATCCCGTTTTGACCCTAAAACTT-CTAAAATTACCATTTT-ACCCCCG
1 AAACTTCCAAAATTACCATTTT-ACCCTCGAACTTCCAAAAAATCCCATTTTCAACCCCG
* * * * *
134545 -AACTTTCAAAAATCCCATTTGACCC-CAAAACTTCCAAAAA
1 AAACTTCCAAAATTACCATTTTACCCTC-GAACTTCCAAAAA
134585 TTTCATTTTT
Statistics
Matches: 127, Mismatches: 27, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
56 10 0.08
57 23 0.18
58 4 0.03
59 27 0.21
60 59 0.46
61 4 0.03
ACGTcount: A:0.37, C:0.29, G:0.04, T:0.31
Consensus pattern (59 bp):
AAACTTCCAAAATTACCATTTTACCCTCGAACTTCCAAAAAATCCCATTTTCAACCCCG
Found at i:134548 original size:28 final size:27
Alignment explanation
Indices: 134517--134612 Score: 75
Period size: 28 Copynumber: 3.4 Consensus size: 27
134507 TTGACCCTAA
134517 AACTTCTAAAATTACCATTTTACCCCCG
1 AACTTCTAAAATT-CCATTTTACCCCCG
* * * **
134545 AACTTTCAAAAATCCCATTTGACCCCAA
1 AAC-TTCTAAAATTCCATTTTACCCCCG
* * *
134573 AACTTCCAAAAATTTCATTTTTACCCTCG
1 AACTT-CTAAAATTCCA-TTTTACCCCCG
*
134602 AACTTCCAAAA
1 AACTTCTAAAA
134613 ACGCCATTTT
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
27 2 0.04
28 31 0.58
29 20 0.38
ACGTcount: A:0.36, C:0.30, G:0.03, T:0.30
Consensus pattern (27 bp):
AACTTCTAAAATTCCATTTTACCCCCG
Found at i:134558 original size:57 final size:57
Alignment explanation
Indices: 134457--134621 Score: 183
Period size: 57 Copynumber: 2.9 Consensus size: 57
134447 TTTACCCTTT
* ** * *
134457 AACTTCCAAAAATTCCCATTTTTAACCTTGAAACTTCCAAAAATCCCGTTTTGACCCTAA
1 AACTTCCAAAAATT-CCATTTTTACCCCCG-AACTTCCAAAAATCCC-ATTTGACCCCAA
* *
134517 AACTT-CTAAAATTACCA-TTTTACCCCCGAACTTTCAAAAATCCCATTTGACCCCAA
1 AACTTCCAAAAATT-CCATTTTTACCCCCGAACTTCCAAAAATCCCATTTGACCCCAA
* *
134573 AACTTCCAAAAATTTCATTTTTACCCTCGAACTTCCAAAAA-CGCCATTT
1 AACTTCCAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATC-CCATTT
134622 TTTATCTCGA
Statistics
Matches: 90, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
56 18 0.20
57 49 0.54
58 8 0.09
59 10 0.11
60 5 0.06
ACGTcount: A:0.35, C:0.30, G:0.04, T:0.31
Consensus pattern (57 bp):
AACTTCCAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATCCCATTTGACCCCAA
Found at i:145596 original size:26 final size:28
Alignment explanation
Indices: 145559--145613 Score: 87
Period size: 27 Copynumber: 2.0 Consensus size: 28
145549 TCAACAAATG
*
145559 ATTGTTTTC-TTTGATCCTCTTTTTAAT
1 ATTGTTTTCTTTTGATCCTATTTTTAAT
145586 ATTG-TTTCTTTTGATCCTATTTTTAAT
1 ATTGTTTTCTTTTGATCCTATTTTTAAT
145613 A
1 A
145614 GAATTTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 4 0.15
27 22 0.85
ACGTcount: A:0.18, C:0.13, G:0.07, T:0.62
Consensus pattern (28 bp):
ATTGTTTTCTTTTGATCCTATTTTTAAT
Found at i:146461 original size:206 final size:206
Alignment explanation
Indices: 146100--146975 Score: 1094
Period size: 206 Copynumber: 4.3 Consensus size: 206
146090 TGCGATATCC
* * * *
146100 ACAAACGACGCGGTCATCTTCCTGATCAGATACTGAGAATAAGACCAAATCAAACTCACGCACAA
1 ACAAGCGACGCGGTCATCTTCCTGATCAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCAA
*
146165 AACGAGCAAAATCTTCGAATCCCCAGCTTCCTGATGAGACACCGAGAAGCAGGTCGAAGCAATAA
66 AACAAGCAAAATCTTCGAA-CCCCAGCTTCCTGATGAGACACCGAGAAGCAGGTCGAAGCAATAA
* *
146230 ACGGTTAGCTTCCTGATGAGATACTGAGAAGTGAACCAAATTTATCTTCTTGATAAGATACAGAG
130 ACGGTTAGCTTCCTGATGAGATACTGAGAAGTGAACCAAATTCATCTTCCTGATAAGATACAGAG
146295 AAGCAGATTGAA
195 AAGCAGATTGAA
* * * *
146307 ACAAGTGACGCGGTCATCTTCCTGATGAGATGCTGAGAAGAAGACCAAAACAAACCCACGCTCAA
1 ACAAGCGACGCGGTCATCTTCCTGATCAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCAA
*
146372 AACAAGCAAAATCTTCGAACCCCAGCCTCCTGATGAGACACCGAGAAGCAGGTCGAAGCAATAAA
66 AACAAGCAAAATCTTCGAACCCCAGCTTCCTGATGAGACACCGAGAAGCAGGTCGAAGCAATAAA
* *** * *
146437 CAGTTAGCTTCCTGATGAGATACTGAGAAGTGAACCAAATTTGCCTTCCTGATGAGATATAGAGA
131 CGGTTAGCTTCCTGATGAGATACTGAGAAGTGAACCAAATTCATCTTCCTGATAAGATACAGAGA
*
146502 AGCGGATTGAA
196 AGCAGATTGAA
* * *
146513 ACAAGCGACGCGGTCATCTTCTTGATCAGATACTGAGAAGAAGACCAAATCAAACCCATGCTCCA
1 ACAAGCGACGCGGTCATCTTCCTGATCAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCAA
* * * * * *
146578 AGCGAGCAAAATCTTCGAACCCTAACTTCTTGATGAGACATCGAGAAGCAGGTCGAAGCAATAAA
66 AACAAGCAAAATCTTCGAACCCCAGCTTCCTGATGAGACACCGAGAAGCAGGTCGAAGCAATAAA
* ** * * **
146643 CGGCTAGCTTCCAAATGAGATACTGAAAAGTGAACCAAATTCATTTTCCTGACGAGATACAGAGA
131 CGGTTAGCTTCCTGATGAGATACTGAGAAGTGAACCAAATTCATCTTCCTGATAAGATACAGAGA
146708 AGCAGATTGAA
196 AGCAGATTGAA
* * * *
146719 ACAAACGACGCGGTCATCTTCATGATAAGATACTGAGAAGAAGACCAAATCAAACCCACGCTC-G
1 ACAAGCGACGCGGTCATCTTCCTGATCAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCAA
** * * * * *
146783 ATGAA-C-AAATCTTCTAACCCCAGCTTCCCGATGAGATACTGAGAAGCAGGTCGAAGTAATAAA
66 AACAAGCAAAATCTTCGAACCCCAGCTTCCTGATGAGACACCGAGAAGCAGGTCGAAGCAAT-AA
* * * * * * * *
146846 ACGGATAGCTTCCTGATGAAATACAGGGAAGTAAACCAAAATCATCTTCCTAATGAA-ACACAGA
130 ACGGTTAGCTTCCTGATGAGATACTGAGAAGTGAACCAAATTCATCTTCCTGAT-AAGATACAGA
** **
146910 GAAGTGGATCAAA
194 GAAGCAGATTGAA
* *** * * * * *
146923 ACAAGTGATATGGTCTTCTTCCAGATGAGATACTGAGAAGAAGGCCAAGTCAA
1 ACAAGCGACGCGGTCATCTTCCTGATCAGATACTGAGAAGAAGACCAAATCAA
146976 TGAAACCAGA
Statistics
Matches: 578, Mismatches: 89, Indels: 7
0.86 0.13 0.01
Matches are distributed among these distances:
203 45 0.08
204 102 0.18
205 3 0.01
206 353 0.61
207 75 0.13
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.20
Consensus pattern (206 bp):
ACAAGCGACGCGGTCATCTTCCTGATCAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCAA
AACAAGCAAAATCTTCGAACCCCAGCTTCCTGATGAGACACCGAGAAGCAGGTCGAAGCAATAAA
CGGTTAGCTTCCTGATGAGATACTGAGAAGTGAACCAAATTCATCTTCCTGATAAGATACAGAGA
AGCAGATTGAA
Found at i:147333 original size:6 final size:6
Alignment explanation
Indices: 147302--147377 Score: 86
Period size: 6 Copynumber: 13.2 Consensus size: 6
147292 TTTTATTGGG
* **
147302 TTTAAA -TT-AA TTCAAA TTTATT TTTAAA TTTAAA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
**
147348 TTT-GC TTTAAA TTTAAA TTTAAA TTTAAA T
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T
147378 GGATTTAAAA
Statistics
Matches: 57, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
4 2 0.04
5 6 0.11
6 49 0.86
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (6 bp):
TTTAAA
Found at i:147356 original size:23 final size:23
Alignment explanation
Indices: 147330--147373 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
147320 TATTTTTAAA
147330 TTTAAATTTAAATTTAAATTTGC
1 TTTAAATTTAAATTTAAATTTGC
147353 TTTAAATTTAAATTTAAATTT
1 TTTAAATTTAAATTTAAATTT
147374 AAATGGATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (23 bp):
TTTAAATTTAAATTTAAATTTGC
Found at i:147392 original size:29 final size:29
Alignment explanation
Indices: 147324--147392 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 29
147314 CAAATTTATT
* * *
147324 TTTAAATTTAAATTTAAATTTAAATTTGC
1 TTTAAACTTAAATTTAAATTTAAATTGGA
*
147353 TTTAAATTTAAATTTAAATTTAAA-TGGA
1 TTTAAACTTAAATTTAAATTTAAATTGGA
147381 TTTAAAACTTAA
1 TTT-AAACTTAA
147393 TTAAAAAGTC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 5 0.14
29 31 0.86
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (29 bp):
TTTAAACTTAAATTTAAATTTAAATTGGA
Found at i:148060 original size:3 final size:3
Alignment explanation
Indices: 148054--148135 Score: 85
Period size: 3 Copynumber: 27.0 Consensus size: 3
148044 ATAAATGCTT
*
148054 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAT TAA TAA TAA -ATA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA
* * * * *
148099 TAC TTA TGA CAT TAA TTAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA
148136 GTAAAAAAAG
Statistics
Matches: 65, Mismatches: 11, Indels: 6
0.79 0.13 0.07
Matches are distributed among these distances:
2 1 0.02
3 60 0.92
4 4 0.06
ACGTcount: A:0.60, C:0.02, G:0.01, T:0.37
Consensus pattern (3 bp):
TAA
Done.