Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007858.1 Hibiscus syriacus cultivar Beakdansim tig00110220_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: 969818
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
File 1 of 4
Found at i:18728 original size:61 final size:61
Alignment explanation
Indices: 18633--18755 Score: 246
Period size: 61 Copynumber: 2.0 Consensus size: 61
18623 ATCTGAATTC
18633 GGATATAAATTTCTCGGTGTCCGATCGAATGATCGATTACCTTGTCATGTAGGGAAAGGGT
1 GGATATAAATTTCTCGGTGTCCGATCGAATGATCGATTACCTTGTCATGTAGGGAAAGGGT
18694 GGATATAAATTTCTCGGTGTCCGATCGAATGATCGATTACCTTGTCATGTAGGGAAAGGGT
1 GGATATAAATTTCTCGGTGTCCGATCGAATGATCGATTACCTTGTCATGTAGGGAAAGGGT
18755 G
1 G
18756 TTTACCAGTT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (61 bp):
GGATATAAATTTCTCGGTGTCCGATCGAATGATCGATTACCTTGTCATGTAGGGAAAGGGT
Found at i:22777 original size:40 final size:40
Alignment explanation
Indices: 22713--22803 Score: 148
Period size: 40 Copynumber: 2.3 Consensus size: 40
22703 AAGCAGTATC
* *
22713 GATATTGTTCTTACAGTATTGATATCGCATGAACAATACT
1 GATATTGTTCTTACAGTATCGATATCACATGAACAATACT
*
22753 GATAATGTTCTTACAGTATCGATATCACATGAACAATACT
1 GATATTGTTCTTACAGTATCGATATCACATGAACAATACT
22793 -ATATTGTTCTT
1 GATATTGTTCTT
22804 GTAGAATCGA
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
39 10 0.21
40 37 0.79
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.38
Consensus pattern (40 bp):
GATATTGTTCTTACAGTATCGATATCACATGAACAATACT
Found at i:30393 original size:81 final size:81
Alignment explanation
Indices: 30253--30410 Score: 280
Period size: 81 Copynumber: 2.0 Consensus size: 81
30243 AGTCTCTTGC
*
30253 ACAACCGGCTCAGTAGCTTCCTGCTCTACACCTCTGTGAGAGCTTGTCGATCCGCCATTTCGTGT
1 ACAACCGGCTCAGTAACTTCCTGCTCTACACCTCTGTGAGAGCTTGTCGATCCGCCATTTCGTGT
30318 GCGAACCATTCTTGGT
66 GCGAACCATTCTTGGT
* * *
30334 ACAACCGGCTCAGTAACTTCCTGCTCTACACCTCTGTGAGAGCTTGTTGCTCCGTCATTTCGTGT
1 ACAACCGGCTCAGTAACTTCCTGCTCTACACCTCTGTGAGAGCTTGTCGATCCGCCATTTCGTGT
30399 GCGAACCATTCT
66 GCGAACCATTCT
30411 CTGTAACTCT
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
81 73 1.00
ACGTcount: A:0.18, C:0.31, G:0.21, T:0.30
Consensus pattern (81 bp):
ACAACCGGCTCAGTAACTTCCTGCTCTACACCTCTGTGAGAGCTTGTCGATCCGCCATTTCGTGT
GCGAACCATTCTTGGT
Found at i:30569 original size:27 final size:27
Alignment explanation
Indices: 30533--30737 Score: 86
Period size: 27 Copynumber: 7.4 Consensus size: 27
30523 AATGATTGAG
*
30533 CACCTATGTGCTTCAATCGAGAGCTGA
1 CACCTCTGTGCTTCAATCGAGAGCTGA
* ** * *
30560 CACCTCTGTG-TAGCCAAAAGTGA-TTGA
1 CACCTCTGTGCT--TCAATCGAGAGCTGA
*
30587 GCACCTCTGTGCTTCAATCGAGAACTGA
1 -CACCTCTGTGCTTCAATCGAGAGCTGA
*** *
30615 CACCTCTGTGCAGTT-AAAAAAAATGACTGA
1 CACCTCTGTGC--TTCAATCGAGA-G-CTGA
**
30645 GCACCTCTGTGCTTCAGCCG-GAAGCTGA
1 -CACCTCTGTGCTTCAATCGAG-AGCTGA
* *
30673 CACCTCTGTG-TAGCTAA--GA-AGATTGA
1 CACCTCTGTGCT-TC-AATCGAGAG-CTGA
30699 GCACCTCTGTGCTTCAATCGAG-GACTGA
1 -CACCTCTGTGCTTCAATCGAGAG-CTGA
30727 CACCTCTGTGC
1 CACCTCTGTGC
30738 AGCCAAAATG
Statistics
Matches: 131, Mismatches: 26, Indels: 42
0.66 0.13 0.21
Matches are distributed among these distances:
25 2 0.02
26 8 0.06
27 62 0.47
28 36 0.27
29 6 0.05
30 6 0.05
31 11 0.08
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (27 bp):
CACCTCTGTGCTTCAATCGAGAGCTGA
Found at i:30727 original size:54 final size:55
Alignment explanation
Indices: 30523--30825 Score: 330
Period size: 54 Copynumber: 5.5 Consensus size: 55
30513 TGCTAGAATT
* * *
30523 AATGATTGAGCACCTATGTGCTTCAATCGAG-AGCTGACACCTCTGTGTAGCCAA
1 AATGATTGAGCACCTCTGTGCTTCAATCGAGAAGCTGACACCTCTGTGCAGCTAA
*
30577 AAGTGATTGAGCACCTCTGTGCTTCAATCGAGAA-CTGACACCTCTGTGCAGTTAAAAAA
1 AA-TGATTGAGCACCTCTGTGCTTCAATCGAGAAGCTGACACCTCTGTGCAGCT----AA
* ** *
30636 AATGACTGAGCACCTCTGTGCTTCAGCCG-GAAGCTGACACCTCTGTGTAGCTAA
1 AATGATTGAGCACCTCTGTGCTTCAATCGAGAAGCTGACACCTCTGTGCAGCTAA
* *
30690 GAA-GATTGAGCACCTCTGTGCTTCAATCGAGGA-CTGACACCTCTGTGCAGCCAA
1 -AATGATTGAGCACCTCTGTGCTTCAATCGAGAAGCTGACACCTCTGTGCAGCTAA
* * * * * * * * *
30744 AATGACTGAGCACCTTTGTGCTTCAGTCTAAAATCTGGCACCTCTGTGCA-TTAG
1 AATGATTGAGCACCTCTGTGCTTCAATCGAGAAGCTGACACCTCTGTGCAGCTAA
*
30798 AATGATTGAGCACCTCTGTGCTACAATC
1 AATGATTGAGCACCTCTGTGCTTCAATC
30826 TAAAATCAAG
Statistics
Matches: 209, Mismatches: 29, Indels: 22
0.80 0.11 0.08
Matches are distributed among these distances:
53 2 0.01
54 95 0.45
55 63 0.30
56 1 0.00
57 3 0.01
58 41 0.20
59 4 0.02
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.26
Consensus pattern (55 bp):
AATGATTGAGCACCTCTGTGCTTCAATCGAGAAGCTGACACCTCTGTGCAGCTAA
Found at i:30757 original size:27 final size:26
Alignment explanation
Indices: 30634--30764 Score: 72
Period size: 27 Copynumber: 4.8 Consensus size: 26
30624 GCAGTTAAAA
30634 AAAATGACTGAGCACCTCTGTGCTTCAGCC
1 AAAA-GACTGAGCACCTCTGTG---CAGCC
** * *
30664 GGAAG-CTGA-CACCTCTGTGTAGCT
1 AAAAGACTGAGCACCTCTGTGCAGCC
* **
30688 AAGAAGATTGAGCACCTCTGTGC-TTC
1 AA-AAGACTGAGCACCTCTGTGCAGCC
*
30714 AATCGAGGACTGA-CACCTCTGTGCAGCC
1 AA---AAGACTGAGCACCTCTGTGCAGCC
*
30742 AAAATGACTGAGCACCTTTGTGC
1 AAAA-GACTGAGCACCTCTGTGC
30765 TTCAGTCTAA
Statistics
Matches: 76, Mismatches: 17, Indels: 19
0.68 0.15 0.17
Matches are distributed among these distances:
24 3 0.04
25 4 0.05
26 11 0.14
27 41 0.54
28 14 0.18
29 1 0.01
30 2 0.03
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.24
Consensus pattern (26 bp):
AAAAGACTGAGCACCTCTGTGCAGCC
Found at i:30839 original size:54 final size:54
Alignment explanation
Indices: 30744--30875 Score: 147
Period size: 54 Copynumber: 2.4 Consensus size: 54
30734 GTGCAGCCAA
* * * ** *
30744 AATGACTGAGCACCTTTGTGCTTCAGTCTAAAATCTGGCACCTCTGTGCATTAG
1 AATGACTGAGCACCTCTGTGCTACAATCTAAAATCAAGCACCTCCGTGCATTAG
* * *
30798 AATGATTGAGCACCTCTGTGCTACAATCTAAAATCAAGCACCTCCGTGCTTTTACA
1 AATGACTGAGCACCTCTGTGCTACAATCTAAAATCAAGCACCTCCGTGC-ATTA-G
* *
30854 AATGACCGAGCACCTCCGTGCT
1 AATGACTGAGCACCTCTGTGCT
30876 GCGATCCGCG
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
54 42 0.66
55 3 0.05
56 19 0.30
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (54 bp):
AATGACTGAGCACCTCTGTGCTACAATCTAAAATCAAGCACCTCCGTGCATTAG
Found at i:31721 original size:23 final size:23
Alignment explanation
Indices: 31691--31758 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
31681 CTGATGCCAT
31691 CCGAGCGAGCTATGCAAGGGTAG
1 CCGAGCGAGCTATGCAAGGGTAG
* * * *
31714 CCGAGCGAGCTATACGAGGGCAT
1 CCGAGCGAGCTATGCAAGGGTAG
*
31737 CCGAGCGAGCGA-GCAAGGGTAG
1 CCGAGCGAGCTATGCAAGGGTAG
31759 GTTGCCCGGA
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
22 6 0.17
23 30 0.83
ACGTcount: A:0.26, C:0.24, G:0.40, T:0.10
Consensus pattern (23 bp):
CCGAGCGAGCTATGCAAGGGTAG
Found at i:31946 original size:29 final size:29
Alignment explanation
Indices: 31870--31954 Score: 118
Period size: 29 Copynumber: 2.9 Consensus size: 29
31860 GAGCAAGGGT
*
31870 AGGTCGCCCGGAGTGCATGACGACCTATA
1 AGGTCGCCCGGAGTGCATGGCGACCTATA
* *
31899 AGGTCGCCTGGAGTGCATGGCAACCTATA
1 AGGTCGCCCGGAGTGCATGGCGACCTATA
*
31928 AGGTCGCCCGGAAG-ACATGGCGACCTA
1 AGGTCGCCCGG-AGTGCATGGCGACCTA
31955 CGGTCAACAC
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
29 47 0.96
30 2 0.04
ACGTcount: A:0.25, C:0.27, G:0.32, T:0.16
Consensus pattern (29 bp):
AGGTCGCCCGGAGTGCATGGCGACCTATA
Found at i:41408 original size:27 final size:26
Alignment explanation
Indices: 41370--41433 Score: 110
Period size: 27 Copynumber: 2.4 Consensus size: 26
41360 AAAATTTCAG
41370 TTCGGTTAACGGTTAAGAGGAAAAAAA
1 TTCGGTTAACGGTTAAGAGG-AAAAAA
41397 TTCGGTTAACGGTTAAGAGGAAAAAA
1 TTCGGTTAACGGTTAAGAGGAAAAAA
*
41423 TTAGGTTAACG
1 TTCGGTTAACG
41434 ATTTTTTGGT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
26 16 0.44
27 20 0.56
ACGTcount: A:0.41, C:0.08, G:0.27, T:0.25
Consensus pattern (26 bp):
TTCGGTTAACGGTTAAGAGGAAAAAA
Found at i:45154 original size:3 final size:3
Alignment explanation
Indices: 45146--45170 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
45136 GGTGTTGTAC
45146 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
45171 AGACATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:45880 original size:17 final size:17
Alignment explanation
Indices: 45848--45881 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
45838 ATAGATAATA
* *
45848 GGTTTTTTTAATGAATT
1 GGTTTTTTGAAAGAATT
45865 GGTTTTTTGAAAGAATT
1 GGTTTTTTGAAAGAATT
45882 TGACCCATTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.21, T:0.53
Consensus pattern (17 bp):
GGTTTTTTGAAAGAATT
Found at i:46386 original size:27 final size:25
Alignment explanation
Indices: 46355--46421 Score: 66
Period size: 24 Copynumber: 2.7 Consensus size: 25
46345 TCCAAGAAGG
*
46355 TCTCCCATCAATCGTAGACGTAGCCCT
1 TCTCCCA--AATCGTAGACGGAGCCCT
* *
46382 TCT-CCAATTCGTAGACGGAGCCGT
1 TCTCCCAAATCGTAGACGGAGCCCT
*
46406 TCT-CCAATTCGTAGAC
1 TCTCCCAAATCGTAGAC
46422 CTCTGCGTTC
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
24 31 0.84
26 3 0.08
27 3 0.08
ACGTcount: A:0.22, C:0.33, G:0.18, T:0.27
Consensus pattern (25 bp):
TCTCCCAAATCGTAGACGGAGCCCT
Found at i:46394 original size:24 final size:24
Alignment explanation
Indices: 46366--46421 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
46356 CTCCCATCAA
*
46366 TCGTAGACGTAGCCCTTCTCCAAT
1 TCGTAGACGGAGCCCTTCTCCAAT
*
46390 TCGTAGACGGAGCCGTTCTCCAAT
1 TCGTAGACGGAGCCCTTCTCCAAT
46414 TCGTAGAC
1 TCGTAGAC
46422 CTCTGCGTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.21, C:0.30, G:0.21, T:0.27
Consensus pattern (24 bp):
TCGTAGACGGAGCCCTTCTCCAAT
Found at i:48122 original size:32 final size:33
Alignment explanation
Indices: 48077--48144 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
48067 AATTTTTTTG
48077 AAAAAAATACGCTTACCG-ATAAAATCTTCGGGT
1 AAAAAAATACGCTTACCGTATAAAATCTTC-GGT
48110 AAAAAAAT-CGCTTACCGTATAAAATCTTCGGT
1 AAAAAAATACGCTTACCGTATAAAATCTTCGGT
48142 AAA
1 AAA
48145 TTATGCGTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
32 15 0.44
33 19 0.56
ACGTcount: A:0.44, C:0.18, G:0.13, T:0.25
Consensus pattern (33 bp):
AAAAAAATACGCTTACCGTATAAAATCTTCGGT
Found at i:53688 original size:54 final size:54
Alignment explanation
Indices: 53624--53733 Score: 220
Period size: 54 Copynumber: 2.0 Consensus size: 54
53614 ATTTTTTAGA
53624 TCATAATACAAAGCCATCTGATTTCGATCGATCCTGCACCGTGGTAGCCGAGGT
1 TCATAATACAAAGCCATCTGATTTCGATCGATCCTGCACCGTGGTAGCCGAGGT
53678 TCATAATACAAAGCCATCTGATTTCGATCGATCCTGCACCGTGGTAGCCGAGGT
1 TCATAATACAAAGCCATCTGATTTCGATCGATCCTGCACCGTGGTAGCCGAGGT
53732 TC
1 TC
53734 CGATCAAGGG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (54 bp):
TCATAATACAAAGCCATCTGATTTCGATCGATCCTGCACCGTGGTAGCCGAGGT
Found at i:66003 original size:26 final size:27
Alignment explanation
Indices: 65974--66031 Score: 68
Period size: 25 Copynumber: 2.2 Consensus size: 27
65964 CCGTTTAATT
65974 TAAAATTTATAA-AATTTTAGAG-AAAA
1 TAAAATTTA-AAGAATTTTAGAGGAAAA
* *
66000 T-AAACTTAAAGAATTTTATAGGAAAA
1 TAAAATTTAAAGAATTTTAGAGGAAAA
66026 TAAAAT
1 TAAAAT
66032 AAATTACCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
24 2 0.08
25 15 0.58
26 6 0.23
27 3 0.12
ACGTcount: A:0.57, C:0.02, G:0.09, T:0.33
Consensus pattern (27 bp):
TAAAATTTAAAGAATTTTAGAGGAAAA
Found at i:68669 original size:3 final size:3
Alignment explanation
Indices: 68663--68783 Score: 188
Period size: 3 Copynumber: 39.7 Consensus size: 3
68653 TTTATCCATT
* **
68663 TTA TTA TTA TTA TTA TTA TTA TTA TTA GTA TTA TTA TTA TTA GCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
68711 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA GTA TTTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
68757 TTA TATA TTA TTA TTA TTA TTA TTA TT
1 TTA T-TA TTA TTA TTA TTA TTA TTA TT
68784 TAATAAATTT
Statistics
Matches: 108, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
3 103 0.95
4 5 0.05
ACGTcount: A:0.33, C:0.01, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:69209 original size:42 final size:39
Alignment explanation
Indices: 69145--69245 Score: 112
Period size: 42 Copynumber: 2.5 Consensus size: 39
69135 ACCCACCTGC
*
69145 AAAAAAAAAAAAAAAAAGGAGAGACAGAACGAGACACAG
1 AAAAAAAAAAAAAAAAAAGAGAGACAGAACGAGACACAG
* * * *
69184 AAAAAAAAAAAAAAAGAGACAGAGAGACCGCAGGAGAGACAG
1 AAAAAAAAAAAAAAA-A-A-AGAGAGACAGAACGAGACACAG
69226 AAACCAAAAAAAAAAAAAAA
1 AAA--AAAAAAAAAAAAAAA
69246 AAAAAAAAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
39 15 0.29
40 1 0.02
41 2 0.04
42 21 0.40
43 1 0.02
44 12 0.23
ACGTcount: A:0.70, C:0.11, G:0.19, T:0.00
Consensus pattern (39 bp):
AAAAAAAAAAAAAAAAAAGAGAGACAGAACGAGACACAG
Found at i:69270 original size:1 final size:1
Alignment explanation
Indices: 69231--69257 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
69221 GACAGAAACC
69231 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
69258 GAGAAAGGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:69547 original size:13 final size:13
Alignment explanation
Indices: 69529--69564 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
69519 ACCACCGTTA
69529 CGGTGGCCGGCGG
1 CGGTGGCCGGCGG
69542 CGGTGGCCGGCGG
1 CGGTGGCCGGCGG
69555 CGGTGGCCGG
1 CGGTGGCCGG
69565 TGGCCTATGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.61, T:0.08
Consensus pattern (13 bp):
CGGTGGCCGGCGG
Found at i:69567 original size:7 final size:7
Alignment explanation
Indices: 69529--69569 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
69519 ACCACCGTTA
69529 CGGTGGC
1 CGGTGGC
*
69536 CGGCGG-
1 CGGTGGC
69542 CGGTGGC
1 CGGTGGC
*
69549 CGGCGG-
1 CGGTGGC
69555 CGGTGGC
1 CGGTGGC
69562 CGGTGGC
1 CGGTGGC
69569 C
1 C
69570 TATGGCTGCC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
6 10 0.36
7 18 0.64
ACGTcount: A:0.00, C:0.32, G:0.59, T:0.10
Consensus pattern (7 bp):
CGGTGGC
Found at i:70864 original size:22 final size:22
Alignment explanation
Indices: 70823--70864 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
70813 TTATATATTT
* *
70823 AATTTTTAATTCTTTCTTTTCA
1 AATTTTTAATTATTTATTTTCA
*
70845 AATTTTTTATTATTTATTTT
1 AATTTTTAATTATTTATTTT
70865 TTATAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (22 bp):
AATTTTTAATTATTTATTTTCA
Found at i:79287 original size:5 final size:5
Alignment explanation
Indices: 79277--79329 Score: 58
Period size: 5 Copynumber: 10.8 Consensus size: 5
79267 GCTTGAAGAA
*
79277 AAAAG AAAAG AAAAAG AAAAG -AAAG AAGA- AAAAG AAAAAG AAAAG AAAA-
1 AAAAG AAAAG -AAAAG AAAAG AAAAG AAAAG AAAAG -AAAAG AAAAG AAAAG
79326 AAAA
1 AAAA
79330 AATAAATATA
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
4 11 0.26
5 21 0.50
6 10 0.24
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:79291 original size:6 final size:6
Alignment explanation
Indices: 79276--79359 Score: 86
Period size: 6 Copynumber: 14.0 Consensus size: 6
79266 TGCTTGAAGA
79276 AAAAAG -AAAAG AAAAAG -AAAAG AAAGAAG AAAAAG AAAAAG -AAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAA-AAG AAAAAG AAAAAG AAAAAG
* *
79322 AAAAA- AAAAAT AAATATAG AAAAGG AAAAAAG AAAAAG
1 AAAAAG AAAAAG AAA-A-AG AAAAAG -AAAAAG AAAAAG
79360 GAGGGTCAAG
Statistics
Matches: 67, Mismatches: 3, Indels: 16
0.78 0.03 0.19
Matches are distributed among these distances:
5 20 0.30
6 30 0.45
7 13 0.19
8 4 0.06
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.04
Consensus pattern (6 bp):
AAAAAG
Found at i:79306 original size:30 final size:29
Alignment explanation
Indices: 79271--79358 Score: 90
Period size: 29 Copynumber: 2.9 Consensus size: 29
79261 TATTATGCTT
79271 GAAGAAAAAAGAAAAGAAAAAGAAAAGAAA
1 GAAGAAAAAAGAAAAGAAAAAGAAAA-AAA
79301 GAAG-AAAAAGAAAA-AGAAAAGAAAAAAA
1 GAAGAAAAAAGAAAAGA-AAAAGAAAAAAA
* * *
79329 AAATAAATATAGAAAAGGAAAAAAGAAAAA
1 GAAGAAA-AAAGAAAA-G-AAAAAGAAAAA
79359 GGAGGGTCAA
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
28 6 0.12
29 21 0.43
30 11 0.22
32 10 0.20
33 1 0.02
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (29 bp):
GAAGAAAAAAGAAAAGAAAAAGAAAAAAA
Found at i:79314 original size:24 final size:24
Alignment explanation
Indices: 79272--79359 Score: 110
Period size: 24 Copynumber: 3.7 Consensus size: 24
79262 ATTATGCTTG
79272 AAGAAAAAAG-AAAAGAAAAAGAA
1 AAGAAAAAAGAAAAAGAAAAAGAA
*
79295 AAGAAAGAAGAAAAAGAAAAAGAA
1 AAGAAAAAAGAAAAAGAAAAAGAA
*
79319 AAGAAAAAA-AAAATA-AATATAGAA
1 AAGAAAAAAGAAAA-AGAA-AAAGAA
79343 AAGGAAAAAAGAAAAAG
1 AA-GAAAAAAGAAAAAG
79360 GAGGGTCAAG
Statistics
Matches: 56, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
23 15 0.27
24 29 0.52
25 8 0.14
26 4 0.07
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (24 bp):
AAGAAAAAAGAAAAAGAAAAAGAA
Found at i:79315 original size:35 final size:37
Alignment explanation
Indices: 79278--79357 Score: 110
Period size: 35 Copynumber: 2.2 Consensus size: 37
79268 CTTGAAGAAA
*
79278 AAAGAAAAGAAAAAGAAAAGAAAGA-AGAAAAAG-AA
1 AAAGAAAAGAAAAAAAAAAGAAAGATAGAAAAAGAAA
* * *
79313 AAAGAAAAGAAAAAAAAAATAAATATAGAAAAGGAAA
1 AAAGAAAAGAAAAAAAAAAGAAAGATAGAAAAAGAAA
79350 AAAGAAAA
1 AAAGAAAA
79358 AGGAGGGTCA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
35 22 0.56
36 7 0.18
37 10 0.26
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (37 bp):
AAAGAAAAGAAAAAAAAAAGAAAGATAGAAAAAGAAA
Found at i:80378 original size:52 final size:52
Alignment explanation
Indices: 80300--80597 Score: 508
Period size: 52 Copynumber: 5.8 Consensus size: 52
80290 TTAATATCTG
80300 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
*
80352 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTGGACAGAA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
* *
80404 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGA-AAAA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
* *
80455 CATAGCATATTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGAA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
* * *
80507 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAAAAAAA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
*
80559 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATC
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
80598 CGAAGAAGTG
Statistics
Matches: 233, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
51 47 0.20
52 186 0.80
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.38
Consensus pattern (52 bp):
CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
Found at i:80498 original size:103 final size:103
Alignment explanation
Indices: 80300--80597 Score: 515
Period size: 103 Copynumber: 2.9 Consensus size: 103
80290 TTAATATCTG
* *
80300 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCT
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGA-AAAACATAGCATCTTCT
* *
80365 GGAAGTGTTCTTTGAGTTATCTAATCTGGTTGGACAGAA
65 GGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGAA
*
80404 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAAAACATAGCATATTCTG
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAAAACATAGCATCTTCTG
80469 GAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGAA
66 GAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGAA
*
80507 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAAAAAAACATAGCATCTTCT
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT-AGAAAAACATAGCATCTTCT
*
80572 GGAAGTGTTCTTTGAGTTATTTGATC
65 GGAAGTGTTCTTTGAGTTATCTGATC
80598 CGAAGAAGTG
Statistics
Matches: 185, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
103 96 0.52
104 89 0.48
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.38
Consensus pattern (103 bp):
CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAAAACATAGCATCTTCTG
GAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGAA
Found at i:80582 original size:155 final size:155
Alignment explanation
Indices: 80300--80597 Score: 533
Period size: 155 Copynumber: 1.9 Consensus size: 155
80290 TTAATATCTG
* *
80300 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCT
1 CATAGCATATTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGAACATAGCATCTTCT
* * *
80365 GGAAGTGTTCTTTGAGTTATCTAATCTGGTTGGACAGAACATAGCATCTTCTGGAAGTGTTCTTT
66 GGAAGTGTTCTTTGAGTTATCTAATCTGGTTGAAAAAAACATAGCATCTTCTGGAAGTGTTCTTT
80430 GAGTTATCTGATCTGGTTAGAAAAA
131 GAGTTATCTGATCTGGTTAGAAAAA
80455 CATAGCATATTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGAACATAGCATCTTCT
1 CATAGCATATTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGAACATAGCATCTTCT
*
80520 GGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAAAAAAACATAGCATCTTCTGGAAGTGTTCTTT
66 GGAAGTGTTCTTTGAGTTATCTAATCTGGTTGAAAAAAACATAGCATCTTCTGGAAGTGTTCTTT
*
80585 GAGTTATTTGATC
131 GAGTTATCTGATC
80598 CGAAGAAGTG
Statistics
Matches: 136, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
155 136 1.00
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.38
Consensus pattern (155 bp):
CATAGCATATTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGAACATAGCATCTTCT
GGAAGTGTTCTTTGAGTTATCTAATCTGGTTGAAAAAAACATAGCATCTTCTGGAAGTGTTCTTT
GAGTTATCTGATCTGGTTAGAAAAA
Found at i:81347 original size:118 final size:114
Alignment explanation
Indices: 81150--81950 Score: 1223
Period size: 118 Copynumber: 6.9 Consensus size: 114
81140 CAAAGATTCA
* * * *
81150 AATTCATCACTTGATGGATCATCATTACCAGAGAAG-GTCCATAATGAGAAGAACTCATCTGAAG
1 AATTCATCATTTGATGGATCAACATTTCCAGAGAAGAGTTCATAATGAGAAGAACTCATCTGAAG
81214 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
66 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
81263 AATTCATCATTTGATGGATCAACATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCT
1 AATTCATCATTTGATGGATCAACATTTCCAGA-GAAGAGTTCATAATGAGAAGAA--C-TCATCT
81328 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
62 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
81381 AATTCATCATTTGATGGATCAACATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCT
1 AATTCATCATTTGATGGATCAACATTTCCAGA-GAAGAGTTCATAATGAGAAGAA--C-TCATCT
81446 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
62 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
* *
81499 AATTCATCACTTGATGGATCAACATTTCCAGAGGAAGAGTTCATAATGAGAGGAACTCGTCATCT
1 AATTCATCATTTGATGGATCAACATTTCCAGA-GAAGAGTTCATAATGAGAAGAA--C-TCATCT
*
81564 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCCTG
62 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
* * * *
81617 AATCCATCATTTGGTGGATCATCTTTTCCAGAGAA-AGTTCATAATGAGAAGAACTCATCTGAAG
1 AATTCATCATTTGATGGATCAACATTTCCAGAGAAGAGTTCATAATGAGAAGAACTCATCTGAAG
* * *
81681 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
66 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
* * * *
81730 AATCCATCATTTGGTGGATCATCTTTTCCAGAGAA-AGTTCATAATGAGAAGAACTCATCTGAAG
1 AATTCATCATTTGATGGATCAACATTTCCAGAGAAGAGTTCATAATGAGAAGAACTCATCTGAAG
* * *
81794 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTA
66 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
* ** *
81843 AATTCATCATTTGATGAATCAACATGGCCAAAGAA-AGTTCATGAATGAGAAGAACTCATCTGAA
1 AATTCATCATTTGATGGATCAACATTTCCAGAGAAGAGTTCAT-AATGAGAAGAACTCATCTGAA
*
81907 GAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTT
65 GAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTT
81951 GTTTGATATC
Statistics
Matches: 651, Mismatches: 31, Indels: 11
0.94 0.04 0.02
Matches are distributed among these distances:
113 227 0.35
114 68 0.10
115 16 0.02
116 17 0.03
117 4 0.01
118 319 0.49
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.28
Consensus pattern (114 bp):
AATTCATCATTTGATGGATCAACATTTCCAGAGAAGAGTTCATAATGAGAAGAACTCATCTGAAG
AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
Found at i:82254 original size:3 final size:3
Alignment explanation
Indices: 82248--82371 Score: 185
Period size: 3 Copynumber: 40.7 Consensus size: 3
82238 TTTATCCATT
* **
82248 TTA TTA TTA TTA TTA TTA TTA TTA TTA GTA TTA TTA TTA TTA GCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
82296 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA GTA TTTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
*
82342 TTA ATA TTA TATA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA TT
82372 TAATAAATAA
Statistics
Matches: 109, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
3 104 0.95
4 5 0.05
ACGTcount: A:0.34, C:0.01, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:82796 original size:42 final size:38
Alignment explanation
Indices: 82735--82830 Score: 102
Period size: 42 Copynumber: 2.4 Consensus size: 38
82725 ACCCACCTGC
82735 AAAAAAAAAAAAAAGGAGAGACAGAACGAGACACAGAA
1 AAAAAAAAAAAAAAGGAGAGACAGAACGAGACACAGAA
* * * *
82773 AAAAAAAAAAAAAGAGACAGAGAGACCGCAGGAGAGACAGAA
1 AAAAAAAAAAAAA-AG---GAGAGACAGAACGAGACACAGAA
82815 ACCAAAAAAAAAAAAA
1 A--AAAAAAAAAAAAA
82831 AAAAAAAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
38 13 0.27
39 2 0.04
42 20 0.42
43 1 0.02
44 12 0.25
ACGTcount: A:0.69, C:0.11, G:0.20, T:0.00
Consensus pattern (38 bp):
AAAAAAAAAAAAAAGGAGAGACAGAACGAGACACAGAA
Found at i:82859 original size:1 final size:1
Alignment explanation
Indices: 82818--82845 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
82808 GACAGAAACC
82818 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
82846 GAGAAAGGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:83134 original size:13 final size:13
Alignment explanation
Indices: 83116--83144 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
83106 ACCACCGTTA
83116 CGGTGGCCGGCGG
1 CGGTGGCCGGCGG
83129 CGGTGGCCGGCGG
1 CGGTGGCCGGCGG
83142 CGG
1 CGG
83145 AATACGGTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.31, G:0.62, T:0.07
Consensus pattern (13 bp):
CGGTGGCCGGCGG
Found at i:84666 original size:2 final size:2
Alignment explanation
Indices: 84610--84648 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
84600 TTAATAATTA
84610 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
84649 AGTAGAATCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:90738 original size:10 final size:10
Alignment explanation
Indices: 90723--90750 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
90713 ATAATGAGGT
90723 TATATATACA
1 TATATATACA
90733 TATATATACA
1 TATATATACA
90743 TATATATA
1 TATATATA
90751 ATGAGCTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (10 bp):
TATATATACA
Found at i:95429 original size:2 final size:2
Alignment explanation
Indices: 95422--95451 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
95412 TCATCAACTA
95422 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
95452 TCGTCAACTA
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:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:107955 original size:21 final size:21
Alignment explanation
Indices: 107930--107970 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
107920 GTAAAAAAAT
*
107930 TACCTAAAACATTATTATTTA
1 TACCTAAAACATTAATATTTA
107951 TACCTAAAACATTAATATTT
1 TACCTAAAACATTAATATTT
107971 TTAACATTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (21 bp):
TACCTAAAACATTAATATTTA
Found at i:110130 original size:20 final size:20
Alignment explanation
Indices: 110093--110131 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
110083 TATATATTGA
*
110093 ATAATATTTAAAATATATAT
1 ATAATATTTAAAACATATAT
* *
110113 ATAATTTTTAAACCATATA
1 ATAATATTTAAAACATATA
110132 AATTATGTGC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (20 bp):
ATAATATTTAAAACATATAT
Found at i:110514 original size:60 final size:58
Alignment explanation
Indices: 110417--110576 Score: 180
Period size: 60 Copynumber: 2.7 Consensus size: 58
110407 ATTAGTATAT
* * * * *
110417 ATGT-ATAGTTTGGGATAAAAATGGAATGTTCAGAAAGTTTGGGGACTAATTTAGAATG
1 ATGTCATAGTTTGGGATGAAATTGAAATATTCA-AAAGTTTGAGGACTAATTTAGAATG
110475 AATGTCATAGTTTGGGGATGAAATTGAAATATTCAAAAGTTTGAGGACTAATTTAGAATG
1 -ATGTCATAGTTT-GGGATGAAATTGAAATATTCAAAAGTTTGAGGACTAATTTAGAATG
* * *
110535 ATAATCATAGTTTAAGGATGAAATTGAGAA-ATTTAAAAGTTT
1 AT-GTCATAGTTT-GGGATGAAATTGA-AATATTCAAAAGTTT
110577 AGATACTGAT
Statistics
Matches: 88, Mismatches: 9, Indels: 7
0.85 0.09 0.07
Matches are distributed among these distances:
59 6 0.07
60 63 0.72
61 19 0.22
ACGTcount: A:0.39, C:0.04, G:0.23, T:0.34
Consensus pattern (58 bp):
ATGTCATAGTTTGGGATGAAATTGAAATATTCAAAAGTTTGAGGACTAATTTAGAATG
Found at i:110547 original size:31 final size:31
Alignment explanation
Indices: 110452--110552 Score: 77
Period size: 31 Copynumber: 3.3 Consensus size: 31
110442 ATGTTCAGAA
* *
110452 AGTTTGGGGACTAATTTAGAATGA-ATGTCAT
1 AGTTTGAGGACTAATTTAGAATGATA-ATCAT
* * * *
110483 AGTTTGGGGA-TGAAATT-GAA--ATATTCAAA
1 AGTTTGAGGACT-AATTTAGAATGATAATC-AT
110512 AGTTTGAGGACTAATTTAGAATGATAATCAT
1 AGTTTGAGGACTAATTTAGAATGATAATCAT
*
110543 AGTTTAAGGA
1 AGTTTGAGGA
110553 TGAAATTGAG
Statistics
Matches: 55, Mismatches: 8, Indels: 14
0.71 0.10 0.18
Matches are distributed among these distances:
28 3 0.05
29 15 0.27
30 8 0.15
31 24 0.44
32 5 0.09
ACGTcount: A:0.38, C:0.05, G:0.24, T:0.34
Consensus pattern (31 bp):
AGTTTGAGGACTAATTTAGAATGATAATCAT
Found at i:110595 original size:60 final size:60
Alignment explanation
Indices: 110445--110595 Score: 164
Period size: 60 Copynumber: 2.5 Consensus size: 60
110435 AAATGGAATG
* * * **
110445 TTCAGAAAGTTTGGGGACTAATTTAGAATGA-ATGTCATAGTTTGGGGATGAAATTGAAATA
1 TTCA-AAAGTTTGAGGACTAATTTAAAATGATA-ATCATAGTTTAAGGATGAAATTGAAATA
*
110506 TTCAAAAGTTTGAGGACTAATTTAGAATGATAATCATAGTTTAAGGATGAAATTGAGAA-A
1 TTCAAAAGTTTGAGGACTAATTTAAAATGATAATCATAGTTTAAGGATGAAATTGA-AATA
* * *
110566 TTTAAAAGTTT-AGATACTGATTTAAAATGA
1 TTCAAAAGTTTGAG-GACTAATTTAAAATGA
110596 GGGTCATACT
Statistics
Matches: 79, Mismatches: 8, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
59 2 0.03
60 70 0.89
61 7 0.09
ACGTcount: A:0.40, C:0.05, G:0.21, T:0.34
Consensus pattern (60 bp):
TTCAAAAGTTTGAGGACTAATTTAAAATGATAATCATAGTTTAAGGATGAAATTGAAATA
Found at i:112531 original size:127 final size:127
Alignment explanation
Indices: 112305--112548 Score: 382
Period size: 127 Copynumber: 1.9 Consensus size: 127
112295 TTACGAGTGA
112305 TAAAGACTATCAACCATTTAACAATGACCGCTCAAATAACCTGCAGTCTTTGGTGCTCAAAGCCT
1 TAAAGACTATCAACCATTTAACAATGACCGCTCAAATAACCTGCAGTCTTTGGTGCTCAAAGCCT
* *
112370 CGAACCTATGACTTCTAATAATAATATACATTCATTTAACCGCTGAGATAGTATATATGTTT
66 CGAACCTATGACCTCTAAAAATAATATACATTCATTTAACCGCTGAGATAGTATATATGTTT
* * * * * * *
112432 TAAAGACTCTCAACCATTTGACAATGACCGCTCAAATATCCTGCAGTCTTTGTTGGTCGAAGCTT
1 TAAAGACTATCAACCATTTAACAATGACCGCTCAAATAACCTGCAGTCTTTGGTGCTCAAAGCCT
*
112497 CGAACCTATGACCTCTAAAAATAATATTA-ATTCATTTAACCGCTGAGGTAGT
66 CGAACCTATGACCTCTAAAAATAATA-TACATTCATTTAACCGCTGAGATAGT
112549 TTGATTTATG
Statistics
Matches: 106, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
127 104 0.98
128 2 0.02
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (127 bp):
TAAAGACTATCAACCATTTAACAATGACCGCTCAAATAACCTGCAGTCTTTGGTGCTCAAAGCCT
CGAACCTATGACCTCTAAAAATAATATACATTCATTTAACCGCTGAGATAGTATATATGTTT
Found at i:129511 original size:18 final size:17
Alignment explanation
Indices: 129485--129523 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
129475 AAGGCAGATG
129485 AAAATAAAAAACAAAAT
1 AAAATAAAAAACAAAAT
*
129502 AAAATAAAAATACAATAT
1 AAAATAAAAA-ACAAAAT
129520 AAAA
1 AAAA
129524 AACAAAGGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.15
Consensus pattern (17 bp):
AAAATAAAAAACAAAAT
Found at i:130581 original size:13 final size:13
Alignment explanation
Indices: 130563--130588 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
130553 GTCATAATTT
130563 AATTAATTAAAAA
1 AATTAATTAAAAA
130576 AATTAATTAAAAA
1 AATTAATTAAAAA
130589 TATTGATGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AATTAATTAAAAA
Found at i:131331 original size:21 final size:21
Alignment explanation
Indices: 131301--131340 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
131291 TAAAATTCCT
131301 AACCCAAAATTCCCAAAAAGA
1 AACCCAAAATTCCCAAAAAGA
* *
131322 AACCCTAAATTCTCAAAAA
1 AACCCAAAATTCCCAAAAA
131341 TCCAAAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.28, G:0.03, T:0.15
Consensus pattern (21 bp):
AACCCAAAATTCCCAAAAAGA
Found at i:140216 original size:15 final size:15
Alignment explanation
Indices: 140193--140271 Score: 74
Period size: 15 Copynumber: 5.4 Consensus size: 15
140183 CTCGGTAAGC
*
140193 TTCTCTTCTTTCTTT
1 TTCTTTTCTTTCTTT
140208 TTCTTTTCTTTCTTT
1 TTCTTTTCTTTCTTT
140223 TT-TTTT-TTT-TTT
1 TTCTTTTCTTTCTTT
* *
140235 TTTTTTTTTTTCTTT
1 TTCTTTTCTTTCTTT
* * *
140250 TTTTTCTTTTTTCTGT
1 TTCTT-TTCTTTCTTT
140266 TTCTTT
1 TTCTTT
140272 GCTCTGGCGT
Statistics
Matches: 57, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
12 5 0.09
13 7 0.12
14 7 0.12
15 25 0.44
16 13 0.23
ACGTcount: A:0.00, C:0.14, G:0.01, T:0.85
Consensus pattern (15 bp):
TTCTTTTCTTTCTTT
Found at i:140219 original size:9 final size:9
Alignment explanation
Indices: 140198--140261 Score: 92
Period size: 9 Copynumber: 7.0 Consensus size: 9
140188 TAAGCTTCTC
140198 TTCTTTCTTT
1 TTCTTT-TTT
*
140208 TTCTTTTCT
1 TTCTTTTTT
140217 TTCTTTTTT
1 TTCTTTTTT
*
140226 TTTTTTTTT
1 TTCTTTTTT
*
140235 TTTTTTTTT
1 TTCTTTTTT
140244 TTCTTTTTT
1 TTCTTTTTT
140253 TTCTTTTTT
1 TTCTTTTTT
140262 CTGTTTCTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
9 44 0.88
10 6 0.12
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (9 bp):
TTCTTTTTT
Found at i:140224 original size:1 final size:1
Alignment explanation
Indices: 140205--140261 Score: 69
Period size: 1 Copynumber: 57.0 Consensus size: 1
140195 CTCTTCTTTC
* * * * *
140205 TTTTTCTTTTCTTTCTTTTTTTTTTTTTTTTTTTTTTTTTTCTTTTTTTTCTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
140262 CTGTTTCTTT
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 46 1.00
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (1 bp):
T
Found at i:140609 original size:3 final size:3
Alignment explanation
Indices: 140601--140670 Score: 56
Period size: 3 Copynumber: 24.3 Consensus size: 3
140591 AAATATATAT
* * * * * * *
140601 TAA TAA TAA TAA TTA TTA TTA TTA TTA TAA TTA TAA TAA TAA T-A TTA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
140648 TAA TAA TAA TAA TAA -AA -AA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
140671 TAAAATGAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
2 6 0.10
3 54 0.90
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (3 bp):
TAA
Found at i:142123 original size:24 final size:24
Alignment explanation
Indices: 142075--142121 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
142065 ATATGGCATG
*
142075 TGATATGAAAGTGTATATGTGAAA
1 TGATATGAAAGTATATATGTGAAA
142099 TGATATGAAA-TATATATGTGAAA
1 TGATATGAAAGTATATATGTGAAA
142122 ATAAGTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.45, C:0.00, G:0.21, T:0.34
Consensus pattern (24 bp):
TGATATGAAAGTATATATGTGAAA
Found at i:142332 original size:31 final size:31
Alignment explanation
Indices: 142294--142448 Score: 242
Period size: 31 Copynumber: 5.0 Consensus size: 31
142284 AGGGTCGAGG
142294 GTTTACCTATGTTCTTCGGAACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
*
142325 GTTTACCTATGTT-TTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
142355 GTTTACCTATGTTCTTCGGAACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
* *
142386 GTTTACCTATGTCCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
* *
142417 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGAA-CATATGGACT
142448 G
1 G
142449 GTCCTTCGGG
Statistics
Matches: 114, Mismatches: 8, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
30 29 0.25
31 84 0.74
32 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.37
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGAACATATGGACT
Found at i:143355 original size:17 final size:17
Alignment explanation
Indices: 143333--143388 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
143323 TTGAATAAGC
143333 TCTTCTCATTATGAACT
1 TCTTCTCATTATGAACT
*
143350 TCTTCTTC-TCCTGATG-AGT
1 TCTTC-TCAT--T-ATGAACT
143369 TCTTCTCATTATGAACT
1 TCTTCTCATTATGAACT
143386 TCT
1 TCT
143389 CTGGAAAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 12
0.69 0.04 0.27
Matches are distributed among these distances:
16 3 0.10
17 12 0.39
18 4 0.13
19 9 0.29
20 3 0.10
ACGTcount: A:0.18, C:0.25, G:0.09, T:0.48
Consensus pattern (17 bp):
TCTTCTCATTATGAACT
Found at i:143535 original size:113 final size:113
Alignment explanation
Indices: 143316--144098 Score: 1258
Period size: 113 Copynumber: 7.0 Consensus size: 113
143306 TAGAGTCATT
* ** *
143316 CAAAAGGTTGAATAAGCTCTTCTCATTATGAACTTCTTCTT-C-TC--CTGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* *
143377 TTATGAACTTC--TCTGGAAAA-ACTGA-CTCATCAAGTGATGGATTTGAG
66 TTATGAAC-TCGAACTGGAAAAGA-TAATC-CATCAAGTGATGGATTTGAG
* *
143424 CAAAAAGCTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
**** * * *
143489 TTATGAACTTTCTCTAGAAAAGTTGATCCATCAAGTGATGGATTTGAG
66 TTATGAACTCGAACTGGAAAAGATAATCCATCAAGTGATGGATTTGAG
* * * *
143537 CAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCATTCTTTAAATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
*
143602 TTATGAACTCGAACTGGAAAAGTTAATCCATCAAGTGATGGATTTGAG
66 TTATGAACTCGAACTGGAAAAGATAATCCATCAAGTGATGGATTTGAG
143650 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
143715 TTATGAACTCGAACTGGAAAAGATAATCCATCAAGTGATGGATTTGAG
66 TTATGAACTCGAACTGGAAAAGATAATCCATCAAGTGATGGATTTGAG
143763 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
*
143828 TTATGAACTCAAACTGGAAAAGATAATCCATCAAGTGATGGATTTGAG
66 TTATGAACTCGAACTGGAAAAGATAATCCATCAAGTGATGGATTTGAG
143876 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
*
143941 TTATGAACTCGAACTGGAAAAGATAATCCATCAAGTGATGAATTTGAG
66 TTATGAACTCGAACTGGAAAAGATAATCCATCAAGTGATGGATTTGAG
*
143989 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* *
144054 TTATGAACTCGAACTGGAAAAGCTGATCCATCAAGTGATGGATTT
66 TTATGAACTCGAACTGGAAAAGATAATCCATCAAGTGATGGATTT
144099 AAATCTTTGC
Statistics
Matches: 636, Mismatches: 31, Indels: 11
0.94 0.05 0.02
Matches are distributed among these distances:
108 36 0.06
109 1 0.00
110 2 0.00
111 1 0.00
112 24 0.04
113 571 0.90
114 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.36
Consensus pattern (113 bp):
CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTCGAACTGGAAAAGATAATCCATCAAGTGATGGATTTGAG
Found at i:145226 original size:167 final size:166
Alignment explanation
Indices: 144829--145554 Score: 1213
Period size: 167 Copynumber: 4.3 Consensus size: 166
144819 AAACCAAATT
* * * * *
144829 AGATCAGATCACTCAAAGAACACTTCCAGAAGATGCTATTGGGTCTCCTT-ATTTCTTTCAAATT
1 AGATCAGATAACTCAAAGGACACTTCCAGAAGATGCTA-TGAG-CACATTCA--TCTTTCAAATT
144893 CAATGATTGGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGC
62 CAATGATTGGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGC
* * *
144958 ACATTCCTCTTCCAAATTCAATGATTAGTTTTACCAAACC
127 ACATTCATCTTTCAAATTCAATGATTGGTTTTACCAAACC
* *
144998 AGATCAGATAACTCAAAGGACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAATTCAAT
1 AGATCAGATAACTCAAAGGACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAATTCAAT
*
145063 GATTAGTTTTACCAAACCAGATCAGATAACTCAAATG-ACACTTCCAGAAGATGCTATGAGCACA
66 GATTGGTTTTACCAAACCAGATCAGATAACTCAAA-GAACACTTCCAGAAGATGCTATGAGCACA
* *
145127 TTCATCTTTCCAAATTCAATAACTGGTTTTACCAAACC
130 TTCATCTTT-CAAATTCAATGATTGGTTTTACCAAACC
* *
145165 AGATCAGATAACTCAAAGAACACTTCCATAAGATGCTATGAGCACATTCATCTTTCAAATTCAAT
1 AGATCAGATAACTCAAAGGACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAATTCAAT
145230 GATTGGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACAT
66 GATTGGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACAT
145295 TCATCTTTCAAATTCAATGATTGGTTTTACCAAACC
131 TCATCTTTCAAATTCAATGATTGGTTTTACCAAACC
145331 AGATCAGATAACTCAAAGGACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCCAAATTCAA
1 AGATCAGATAACTCAAAGGACACTTCCAGAAGATGCTATGAGCACATTCATCTTT-CAAATTCAA
* *
145396 TAACTGGTTTTACCAAACCAGATCAGATAACTCAAAAGAACACTTCCAGAAGATGCTATGAGCAC
65 TGATTGGTTTTACCAAACCAGATCAGATAACTC-AAAGAACACTTCCAGAAGATGCTATGAGCAC
145461 ATTCATCTTTCAAATTCAATGATTGGTTTTACCAAACC
129 ATTCATCTTTCAAATTCAATGATTGGTTTTACCAAACC
145499 AGATCAGATAACTCAAAGGACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
1 AGATCAGATAACTCAAAGGACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
145555 CAGCTAATGT
Statistics
Matches: 527, Mismatches: 24, Indels: 14
0.93 0.04 0.02
Matches are distributed among these distances:
166 162 0.31
167 202 0.38
168 127 0.24
169 36 0.07
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (166 bp):
AGATCAGATAACTCAAAGGACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAATTCAAT
GATTGGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACAT
TCATCTTTCAAATTCAATGATTGGTTTTACCAAACC
Found at i:145273 original size:250 final size:249
Alignment explanation
Indices: 144829--145552 Score: 1236
Period size: 250 Copynumber: 2.9 Consensus size: 249
144819 AAACCAAATT
* * * *
144829 AGATCAGATCACTCAAAGAACACTTCCAGAAGATGCTATTGGGTCTCCTT-ATTTCTTT-CAAAT
1 AGATCAGATAACTCAAAG-ACACTTCCAGAAGATGCTA-TGAG-CACATTCA--TCTTTCCAAAT
* *
144892 TCAATGATTGGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAG
61 TCAATAACTGGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAG
* * *
144957 CACATTCCTCTTCCAAATTCAATGATTAGTTTTACCAAACCAGATCAGATAACTCAAAGGACACT
126 CACATTCATCTTTCAAATTCAATGATTGGTTTTACCAAACCAGATCAGATAACTCAAAGGACACT
*
145022 TCCAGAAGATGCTATGAGCACATTCCTCTTCCAAATTCAATGATTAGTTTTACCAAACC
191 TCCAGAAGATGCTATGAGCACATTCATCTTCCAAATTCAATGATTAGTTTTACCAAACC
145081 AGATCAGATAACTCAAATGACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCCAAATTCAA
1 AGATCAGATAACTCAAA-GACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCCAAATTCAA
*
145146 TAACTGGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCATAAGATGCTATGAGCACA
65 TAACTGGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACA
*
145211 TTCATCTTTCAAATTCAATGATTGGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCA
130 TTCATCTTTCAAATTCAATGATTGGTTTTACCAAACCAGATCAGATAACTCAAAGGACACTTCCA
* *
145276 GAAGATGCTATGAGCACATTCATCTTTCAAATTCAATGATTGGTTTTACCAAACC
195 GAAGATGCTATGAGCACATTCATCTTCCAAATTCAATGATTAGTTTTACCAAACC
145331 AGATCAGATAACTCAAAGGACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCCAAATTCAA
1 AGATCAGATAACTCAAA-GACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCCAAATTCAA
145396 TAACTGGTTTTACCAAACCAGATCAGATAACTCAAAAGAACACTTCCAGAAGATGCTATGAGCAC
65 TAACTGGTTTTACCAAACCAGATCAGATAACTC-AAAGAACACTTCCAGAAGATGCTATGAGCAC
145461 ATTCATCTTTCAAATTCAATGATTGGTTTTACCAAACCAGATCAGATAACTCAAAGGACACTTCC
129 ATTCATCTTTCAAATTCAATGATTGGTTTTACCAAACCAGATCAGATAACTCAAAGGACACTTCC
145526 AGAAGATGCTATGAGCACATTCATCTT
194 AGAAGATGCTATGAGCACATTCATCTT
145553 TCCAGCTAAT
Statistics
Matches: 451, Mismatches: 17, Indels: 9
0.95 0.04 0.02
Matches are distributed among these distances:
249 5 0.01
250 285 0.63
251 125 0.28
252 35 0.08
253 1 0.00
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (249 bp):
AGATCAGATAACTCAAAGACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCCAAATTCAAT
AACTGGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACAT
TCATCTTTCAAATTCAATGATTGGTTTTACCAAACCAGATCAGATAACTCAAAGGACACTTCCAG
AAGATGCTATGAGCACATTCATCTTCCAAATTCAATGATTAGTTTTACCAAACC
Found at i:145554 original size:83 final size:83
Alignment explanation
Indices: 144829--145554 Score: 1204
Period size: 83 Copynumber: 8.7 Consensus size: 83
144819 AAACCAAATT
* * * *
144829 AGATCAGATCACTCAAAGAACACTTCCAGAAGATGCTATTGGGTCTCCTT-ATTTCTTTCAAATT
1 AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAG-CACATTCA--TCTTTCAAATT
144893 CAATGATTGGTTTTACCAAACC
62 CAATGATTGGTTTTACCAAACC
* *
144915 AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAATTCAAT
1 AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAATTCAAT
*
144980 GATTAGTTTTACCAAACC
66 GATTGGTTTTACCAAACC
* * *
144998 AGATCAGATAACTCAAAGGACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAATTCAAT
1 AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAATTCAAT
*
145063 GATTAGTTTTACCAAACC
66 GATTGGTTTTACCAAACC
145081 AGATCAGATAACTCAAATG-ACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCCAAATTCA
1 AGATCAGATAACTCAAA-GAACACTTCCAGAAGATGCTATGAGCACATTCATCTTT-CAAATTCA
* *
145145 ATAACTGGTTTTACCAAACC
64 ATGATTGGTTTTACCAAACC
*
145165 AGATCAGATAACTCAAAGAACACTTCCATAAGATGCTATGAGCACATTCATCTTTCAAATTCAAT
1 AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAATTCAAT
145230 GATTGGTTTTACCAAACC
66 GATTGGTTTTACCAAACC
145248 AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAATTCAAT
1 AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAATTCAAT
145313 GATTGGTTTTACCAAACC
66 GATTGGTTTTACCAAACC
*
145331 AGATCAGATAACTCAAAGGACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCCAAATTCAA
1 AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTT-CAAATTCAA
* *
145396 TAACTGGTTTTACCAAACC
65 TGATTGGTTTTACCAAACC
145415 AGATCAGATAACTCAAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAATTCAA
1 AGATCAGATAACTC-AAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAATTCAA
145480 TGATTGGTTTTACCAAACC
65 TGATTGGTTTTACCAAACC
*
145499 AGATCAGATAACTCAAAGGACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
1 AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
145555 CAGCTAATGT
Statistics
Matches: 610, Mismatches: 24, Indels: 15
0.94 0.04 0.02
Matches are distributed among these distances:
83 368 0.60
84 162 0.27
85 43 0.07
86 37 0.06
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (83 bp):
AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAATTCAAT
GATTGGTTTTACCAAACC
Found at i:146702 original size:1 final size:1
Alignment explanation
Indices: 146692--146758 Score: 71
Period size: 1 Copynumber: 67.0 Consensus size: 1
146682 TTGACCCCTC
* * * * * * *
146692 TTTTTCTTTTTCTTTTTTTTTCTTTTTTTTTTTTTTTTTCTTTTTTCTTTTTTTTATTATTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
146757 TT
1 TT
146759 CATTAAGCAT
Statistics
Matches: 52, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:0.03, C:0.07, G:0.00, T:0.90
Consensus pattern (1 bp):
T
Found at i:146713 original size:16 final size:17
Alignment explanation
Indices: 146692--146746 Score: 85
Period size: 18 Copynumber: 3.2 Consensus size: 17
146682 TTGACCCCTC
146692 TTTTTC-TTTTTCTTTT
1 TTTTTCTTTTTTCTTTT
*
146708 TTTTTCTTTTTTTTTTTT
1 TTTTTC-TTTTTTCTTTT
146726 TTTTTCTTTTTTCTTTT
1 TTTTTCTTTTTTCTTTT
146743 TTTT
1 TTTT
146747 ATTATTTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
16 6 0.17
17 14 0.40
18 15 0.43
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (17 bp):
TTTTTCTTTTTTCTTTT
Found at i:146725 original size:18 final size:18
Alignment explanation
Indices: 146698--146758 Score: 86
Period size: 18 Copynumber: 3.3 Consensus size: 18
146688 CCTCTTTTTC
*
146698 TTTTTCTTTTTTTTTCTT
1 TTTTTTTTTTTTTTTCTT
146716 TTTTTTTTTTTTTTTCTT
1 TTTTTTTTTTTTTTTCTT
* *
146734 TTTTCTTTTTTTTATTATT
1 TTTT-TTTTTTTTTTTCTT
146753 TTTTTT
1 TTTTTT
146759 CATTAAGCAT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
18 23 0.59
19 16 0.41
ACGTcount: A:0.03, C:0.07, G:0.00, T:0.90
Consensus pattern (18 bp):
TTTTTTTTTTTTTTTCTT
Found at i:146730 original size:28 final size:28
Alignment explanation
Indices: 146692--146759 Score: 93
Period size: 28 Copynumber: 2.4 Consensus size: 28
146682 TTGACCCCTC
* *
146692 TTTTTCTTTTTCTTTTTT-TTTCTTTTTT
1 TTTTTTTTTTTCTTTTTTCTTT-TTTTTA
146720 TTTTTTTTTTTCTTTTTTCTTTTTTTTA
1 TTTTTTTTTTTCTTTTTTCTTTTTTTTA
*
146748 TTATTTTTTTTC
1 TTTTTTTTTTTC
146760 ATTAAGCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 33 0.92
29 3 0.08
ACGTcount: A:0.03, C:0.09, G:0.00, T:0.88
Consensus pattern (28 bp):
TTTTTTTTTTTCTTTTTTCTTTTTTTTA
Found at i:146754 original size:25 final size:25
Alignment explanation
Indices: 146707--146755 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
146697 CTTTTTCTTT
* *
146707 TTTTTTCTTTTTTTTTTTTTTTTTC
1 TTTTTTCTTTTTTTTATTATTTTTC
146732 TTTTTTCTTTTTTTTATTATTTTT
1 TTTTTTCTTTTTTTTATTATTTTT
146756 TTTCATTAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.04, C:0.06, G:0.00, T:0.90
Consensus pattern (25 bp):
TTTTTTCTTTTTTTTATTATTTTTC
Found at i:146755 original size:34 final size:34
Alignment explanation
Indices: 146692--146758 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
146682 TTGACCCCTC
* *
146692 TTTTTCTTTTTCTTTTTTTTTCTTTTTTTTTTTT
1 TTTTTCTTTTTCTTTTTTTTTATTATTTTTTTTT
146726 TTTTTCTTTTT-TCTTTTTTTTATTATTTTTTTT
1 TTTTTCTTTTTCT-TTTTTTTTATTATTTTTTTT
146759 CATTAAGCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 1 0.03
34 29 0.97
ACGTcount: A:0.03, C:0.07, G:0.00, T:0.90
Consensus pattern (34 bp):
TTTTTCTTTTTCTTTTTTTTTATTATTTTTTTTT
Found at i:158132 original size:5 final size:5
Alignment explanation
Indices: 158119--158160 Score: 52
Period size: 5 Copynumber: 8.4 Consensus size: 5
158109 GCTTCTCTTC
158119 TTTCTT TTTCT TTTC- TTTCT TTT-T TTTCT TTTCT GTTTCT TT
1 TTTC-T TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT -TTTCT TT
158161 GCTGCGTTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
4 8 0.24
5 16 0.48
6 9 0.27
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (5 bp):
TTTCT
Found at i:158134 original size:15 final size:15
Alignment explanation
Indices: 158111--158160 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
158101 CTCGGTAAGC
*
158111 TTCTCTTCTTTCTTT
1 TTCTTTTCTTTCTTT
158126 TTCTTTTCTTTC-TT
1 TTCTTTTCTTTCTTT
*
158140 TT-TTTTCTTTTCTGT
1 TTCTTTTC-TTTCTTT
158155 TTCTTT
1 TTCTTT
158161 GCTGCGTTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
13 5 0.17
14 8 0.27
15 14 0.47
16 3 0.10
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (15 bp):
TTCTTTTCTTTCTTT
Found at i:158135 original size:18 final size:17
Alignment explanation
Indices: 158114--158152 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
158104 GGTAAGCTTC
158114 TCTTCTTTCTTTTTCTTT
1 TCTTCTTT-TTTTTCTTT
158132 TCTTTCTTTTTTTTCTTT
1 TC-TTCTTTTTTTTCTTT
158150 TCT
1 TCT
158153 GTTTCTTTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 1 0.05
18 13 0.65
19 6 0.30
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (17 bp):
TCTTCTTTTTTTTCTTT
Found at i:158644 original size:3 final size:3
Alignment explanation
Indices: 158628--158691 Score: 76
Period size: 3 Copynumber: 21.3 Consensus size: 3
158618 TGTAATATTA
* * * *
158628 AAT AAT -AT ATAT AAT AAT AAT AAT AAT AAT AAT TAT TAT TAT TAT
1 AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
158673 AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT A
158692 TAAATAACAT
Statistics
Matches: 57, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
2 2 0.04
3 52 0.91
4 3 0.05
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
AAT
Found at i:168713 original size:2 final size:2
Alignment explanation
Indices: 168697--168748 Score: 81
Period size: 2 Copynumber: 27.0 Consensus size: 2
168687 AAACACTCTA
*
168697 AT AT AT AA AT A- 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
168738 AT AT AT A- AT AT
1 AT AT AT AT AT AT
168749 TTAATAATTT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
1 2 0.04
2 44 0.96
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:168753 original size:7 final size:7
Alignment explanation
Indices: 168695--168754 Score: 57
Period size: 8 Copynumber: 7.7 Consensus size: 7
168685 TTAAACACTC
168695 TAATATA
1 TAATATA
168702 TAAATAATA
1 T-AAT-ATA
168711 TATATATA
1 TA-ATATA
168719 TATATATA
1 TA-ATATA
168727 TATATATA
1 TA-ATATA
168735 TATATATA
1 TA-ATATA
*
168743 TAATATT
1 TAATATA
168750 TAATA
1 TAATA
168755 ATTTTGGTTA
Statistics
Matches: 49, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
7 10 0.20
8 33 0.67
9 6 0.12
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
TAATATA
Found at i:170994 original size:2 final size:2
Alignment explanation
Indices: 170983--171012 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
170973 ACATTAAAGC
170983 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
171013 AGGATATACC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:172616 original size:53 final size:54
Alignment explanation
Indices: 172523--172625 Score: 122
Period size: 53 Copynumber: 1.9 Consensus size: 54
172513 TACACTCATT
* * * *
172523 TATGAATCATGTCAATTTAAACTATAACAAATTTTAAAAAA-ATTATTATTATA
1 TATGAATCATATCAATTTAAACTATAACAAAATATAAAAAATATAATTATTATA
*
172576 TATGAATTATATCAATTTAAACTATGATA-AAAATAT-AAAAATATAATTAT
1 TATGAATCATATCAATTTAAACTAT-A-ACAAAATATAAAAAATATAATTAT
172626 ATTAAAAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
53 28 0.67
54 13 0.31
55 1 0.02
ACGTcount: A:0.51, C:0.06, G:0.04, T:0.39
Consensus pattern (54 bp):
TATGAATCATATCAATTTAAACTATAACAAAATATAAAAAATATAATTATTATA
Found at i:173275 original size:22 final size:22
Alignment explanation
Indices: 173245--173292 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
173235 GTTCATTATC
173245 AAATGATTAAGATT-ATTTAAAA
1 AAATGATT-AGATTAATTTAAAA
*
173267 TAAAT-ATTAGGTTAATTTAAAA
1 -AAATGATTAGATTAATTTAAAA
173289 AAAT
1 AAAT
173293 CCAACTCCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 8 0.35
22 11 0.48
23 4 0.17
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (22 bp):
AAATGATTAGATTAATTTAAAA
Found at i:176739 original size:29 final size:29
Alignment explanation
Indices: 176701--176799 Score: 81
Period size: 29 Copynumber: 3.3 Consensus size: 29
176691 TAATAGTCGA
*
176701 AGAATTCAATAAAGCAACACTCAATAGTT
1 AGAATACAATAAAGCAACACTCAATAGTT
*** * ** *
176730 AGAATACAATTTTGTAACTTTTAATAGTT
1 AGAATACAATAAAGCAACACTCAATAGTT
* * *
176759 AAGGGACATAATAAAGCAACACTCAATAGTT
1 -A-GAATACAATAAAGCAACACTCAATAGTT
176790 AGAATACAAT
1 AGAATACAAT
176800 TTTGATCAGG
Statistics
Matches: 47, Mismatches: 21, Indels: 4
0.65 0.29 0.06
Matches are distributed among these distances:
29 27 0.57
30 2 0.04
31 18 0.38
ACGTcount: A:0.46, C:0.13, G:0.12, T:0.28
Consensus pattern (29 bp):
AGAATACAATAAAGCAACACTCAATAGTT
Found at i:176748 original size:60 final size:59
Alignment explanation
Indices: 176678--176803 Score: 184
Period size: 60 Copynumber: 2.1 Consensus size: 59
176668 TCGGGCGACC
*
176678 ATTTTATAACTTTTAATAGTCGAA-GA-ATTCAATAAAGCAACACTCAATAGTTAGAATACA
1 ATTTTGTAACTTTTAATAGT-GAAGGACA-T-AATAAAGCAACACTCAATAGTTAGAATACA
*
176738 ATTTTGTAACTTTTAATAGTTAAGGGACATAATAAAGCAACACTCAATAGTTAGAATACA
1 ATTTTGTAACTTTTAATAGTGAA-GGACATAATAAAGCAACACTCAATAGTTAGAATACA
176798 ATTTTG
1 ATTTTG
176804 ATCAGGTTTT
Statistics
Matches: 61, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
59 2 0.03
60 55 0.90
61 3 0.05
62 1 0.02
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (59 bp):
ATTTTGTAACTTTTAATAGTGAAGGACATAATAAAGCAACACTCAATAGTTAGAATACA
Found at i:179496 original size:16 final size:18
Alignment explanation
Indices: 179475--179507 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
179465 GGGGTTTTTT
179475 ATAA-TTATTT-TTAGTC
1 ATAATTTATTTGTTAGTC
179491 ATAATTTATTTGTTAGT
1 ATAATTTATTTGTTAGT
179508 TATATGATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 6 0.40
18 5 0.33
ACGTcount: A:0.30, C:0.03, G:0.09, T:0.58
Consensus pattern (18 bp):
ATAATTTATTTGTTAGTC
Found at i:180930 original size:7 final size:7
Alignment explanation
Indices: 180918--180942 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
180908 TACCTGAATA
180918 AACTGCC
1 AACTGCC
180925 AACTGCC
1 AACTGCC
180932 AACTGCC
1 AACTGCC
180939 AACT
1 AACT
180943 AACATTTCAC
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:0.32, C:0.40, G:0.12, T:0.16
Consensus pattern (7 bp):
AACTGCC
Found at i:181962 original size:18 final size:18
Alignment explanation
Indices: 181939--181990 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
181929 GATATGGACC
*
181939 CATATACACATACATAAA
1 CATATACATATACATAAA
* *
181957 CATATACATATGCATGAA
1 CATATACATATACATAAA
*
181975 CATAAACATATACATA
1 CATATACATATACATA
181991 TAATGCATTG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.52, C:0.19, G:0.04, T:0.25
Consensus pattern (18 bp):
CATATACATATACATAAA
Found at i:181991 original size:6 final size:6
Alignment explanation
Indices: 181939--181992 Score: 56
Period size: 6 Copynumber: 9.0 Consensus size: 6
181929 GATATGGACC
* * * *
181939 CATATA CACATA CATAAA CATATA CATATG CATGA-A CATAAA CATATA
1 CATATA CATATA CATATA CATATA CATATA CAT-ATA CATATA CATATA
181987 CATATA
1 CATATA
181993 ATGCATTGAA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
5 1 0.03
6 37 0.95
7 1 0.03
ACGTcount: A:0.52, C:0.19, G:0.04, T:0.26
Consensus pattern (6 bp):
CATATA
Found at i:182998 original size:60 final size:60
Alignment explanation
Indices: 182875--182999 Score: 135
Period size: 60 Copynumber: 2.1 Consensus size: 60
182865 AACATAATAA
* * * * **
182875 ATAGTCGGGTGGCCATTTTGTAACTTTTAATTGTCAAGGGACATAACAAAGTAACATTGT
1 ATAGTCGGATGACCATTTTGTAACTTTTAATAGTCAAGGGACATAACAAAATAACATCCT
* * * * *
182935 ATAGTCGGATGACTATTTTGTAAGTTTTAATAGTCGAA-GGACTTAATAAAATAATATCCT
1 ATAGTCGGATGACCATTTTGTAACTTTTAATAGTC-AAGGGACATAACAAAATAACATCCT
182995 ATAGT
1 ATAGT
183000 TAGAGATCGT
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
60 51 0.96
61 2 0.04
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.35
Consensus pattern (60 bp):
ATAGTCGGATGACCATTTTGTAACTTTTAATAGTCAAGGGACATAACAAAATAACATCCT
Found at i:183271 original size:31 final size:31
Alignment explanation
Indices: 183233--183303 Score: 108
Period size: 31 Copynumber: 2.3 Consensus size: 31
183223 CGTGAAGAAT
* *
183233 AACATGACA-GATGGGCTAAATTTGTAATTCA
1 AACATGACATG-TGGGCTAAATTGGTAACTCA
183264 AACATGACATGTGGGCTAAATTGGTAACTCA
1 AACATGACATGTGGGCTAAATTGGTAACTCA
183295 AACATGACA
1 AACATGACA
183304 AACTGTGGAC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
31 36 0.97
32 1 0.03
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.25
Consensus pattern (31 bp):
AACATGACATGTGGGCTAAATTGGTAACTCA
Found at i:184520 original size:38 final size:37
Alignment explanation
Indices: 184468--184578 Score: 113
Period size: 33 Copynumber: 3.0 Consensus size: 37
184458 CGGGTCGAGA
*
184468 TTTTTATGTATGATATTCGGGTCGAGTAGGGTTGGGTT
1 TTTTTATGTGTGATATTCGGGTCG-GTAGGGTTGGGTT
* *
184506 TTTTTATGTGTGATATTC-GG-C--TTGGGTCGGGTT
1 TTTTTATGTGTGATATTCGGGTCGGTAGGGTTGGGTT
* * *
184539 TTTTTAAGTGTGATATTTGGGTCGGGTCGGGTTCGGGTT
1 TTTTTATGTGTGATATTCGGGTC-GGTAGGGTT-GGGTT
184578 T
1 T
184579 AGGGTGAAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
33 26 0.43
34 2 0.03
35 1 0.02
36 1 0.02
37 2 0.03
38 22 0.37
39 6 0.10
ACGTcount: A:0.12, C:0.07, G:0.35, T:0.46
Consensus pattern (37 bp):
TTTTTATGTGTGATATTCGGGTCGGTAGGGTTGGGTT
Found at i:188991 original size:26 final size:26
Alignment explanation
Indices: 188951--189000 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
188941 ACTCGACTCT
*
188951 ATTCAAATTTCATAAATCTGATTCCG
1 ATTCAAATTTCATAAATCCGATTCCG
*
188977 ATTCAAATTTTATAAATCCGATTC
1 ATTCAAATTTCATAAATCCGATTC
189001 AACTTAATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.36, C:0.18, G:0.06, T:0.40
Consensus pattern (26 bp):
ATTCAAATTTCATAAATCCGATTCCG
Found at i:190726 original size:18 final size:17
Alignment explanation
Indices: 190686--190726 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
190676 TTTAAATCAT
190686 AATATTTTTAATTAAAA
1 AATATTTTTAATTAAAA
* *
190703 ATTATTTTTTATTAATAA
1 AATATTTTTAATTAA-AA
190721 AATATT
1 AATATT
190727 GACACGTCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
AATATTTTTAATTAAAA
Found at i:192896 original size:2 final size:2
Alignment explanation
Indices: 192891--192918 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
192881 AATTCAAACA
192891 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
192919 TAATAGATCT
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:193160 original size:14 final size:14
Alignment explanation
Indices: 193141--193168 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
193131 ATCCTAAAAG
193141 AAAAAAAAATCAAA
1 AAAAAAAAATCAAA
193155 AAAAAAAAATCAAA
1 AAAAAAAAATCAAA
193169 GGACCAACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.86, C:0.07, G:0.00, T:0.07
Consensus pattern (14 bp):
AAAAAAAAATCAAA
Found at i:194779 original size:22 final size:22
Alignment explanation
Indices: 194733--194786 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
194723 AAGCGAATGA
*
194733 TAAACAAATACTAAACGAATAT
1 TAAACAAATACTAAACGAACAT
* * *
194755 TAAACAAATGCTAAATGAACGT
1 TAAACAAATACTAAACGAACAT
*
194777 TAAATAAATA
1 TAAACAAATA
194787 TGTTCGTGAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.57, C:0.11, G:0.07, T:0.24
Consensus pattern (22 bp):
TAAACAAATACTAAACGAACAT
Found at i:195917 original size:2 final size:2
Alignment explanation
Indices: 195863--195909 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
195853 ATTTTTTACC
*
195863 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
195905 TA TA T
1 TA TA T
195910 CCATATATGT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:196850 original size:31 final size:31
Alignment explanation
Indices: 196806--196873 Score: 109
Period size: 31 Copynumber: 2.2 Consensus size: 31
196796 TCAAAAAACA
** *
196806 TAAGATATGGTCACTTTGGTTTTTATTTAAT
1 TAAGATACAGTCACTTTCGTTTTTATTTAAT
196837 TAAGATACAGTCACTTTCGTTTTTATTTAAT
1 TAAGATACAGTCACTTTCGTTTTTATTTAAT
196868 TAAGAT
1 TAAGAT
196874 GTGGTCATCA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.29, C:0.09, G:0.13, T:0.49
Consensus pattern (31 bp):
TAAGATACAGTCACTTTCGTTTTTATTTAAT
Found at i:197050 original size:27 final size:27
Alignment explanation
Indices: 197015--197075 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
197005 AAATATATAT
*
197015 TTTTTAAATAAAAATAAAAATAAAATA
1 TTTTAAAATAAAAATAAAAATAAAATA
* ** *
197042 TTTTAAAATTAAGTTAATAATAAAATA
1 TTTTAAAATAAAAATAAAAATAAAATA
197069 TATTTAA
1 T-TTTAA
197076 TAAGTTAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 23 0.82
28 5 0.18
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (27 bp):
TTTTAAAATAAAAATAAAAATAAAATA
Found at i:197085 original size:25 final size:26
Alignment explanation
Indices: 197033--197085 Score: 74
Period size: 25 Copynumber: 2.0 Consensus size: 26
197023 TAAAAATAAA
197033 AATAAAATATTTTAAAATTAAGTTAAT
1 AATAAAATATTTT-AAATTAAGTTAAT
197060 AATAAAATATATTT-AA-TAAGTTAAT
1 AATAAAATAT-TTTAAATTAAGTTAAT
197085 A
1 A
197086 TAATTTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
25 10 0.40
26 2 0.08
27 10 0.40
28 3 0.12
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.40
Consensus pattern (26 bp):
AATAAAATATTTTAAATTAAGTTAAT
Found at i:198669 original size:2 final size:2
Alignment explanation
Indices: 198664--198719 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
198654 AAATGAAAAA
198664 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
198706 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
198720 GATGGACCAC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:199761 original size:17 final size:18
Alignment explanation
Indices: 199728--199761 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
199718 CCGCTACTAG
199728 TGAACCGGTCAGAACCGC
1 TGAACCGGTCAGAACCGC
*
199746 TGAACCGTTC-GAACCG
1 TGAACCGGTCAGAACCG
199762 GACCGGCTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.26, C:0.32, G:0.26, T:0.15
Consensus pattern (18 bp):
TGAACCGGTCAGAACCGC
Found at i:200545 original size:21 final size:21
Alignment explanation
Indices: 200428--200565 Score: 77
Period size: 21 Copynumber: 6.7 Consensus size: 21
200418 ACGCGAAATA
**
200428 AAAATCGCAACGCGA-TCCCC
1 AAAATCGCAACGCGATTTTCC
* ** *
200448 AGAATCGCAAATC-AGTTTCC
1 AAAATCGCAACGCGATTTTCC
* *
200468 AAAATCGCAACGTGATTCTT-A
1 AAAATCGCAACGCGATT-TTCC
* ** *
200489 AAAATCGCAATGCGATAGTAC
1 AAAATCGCAACGCGATTTTCC
* **
200510 AAATTCGCATTGCGATTTTCC
1 AAAATCGCAACGCGATTTTCC
* * *
200531 AAAATCGCAACGCGAATAT-G
1 AAAATCGCAACGCGATTTTCC
200551 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
200566 ACACATAAAT
Statistics
Matches: 87, Mismatches: 27, Indels: 8
0.71 0.22 0.07
Matches are distributed among these distances:
19 1 0.01
20 38 0.44
21 46 0.53
22 2 0.02
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.21
Consensus pattern (21 bp):
AAAATCGCAACGCGATTTTCC
Found at i:200748 original size:20 final size:20
Alignment explanation
Indices: 200532--200754 Score: 232
Period size: 20 Copynumber: 11.2 Consensus size: 20
200522 CGATTTTCCA
** *
200532 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGAATCCGT
*
200552 AAATCGCAACGCGAA-CACAT
1 AAATCGCAACGCGAATC-CGT
*
200572 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGAATCCGT
* *
200592 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGAATCCGT
* **
200612 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGAATCCGT
* *
200632 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGAATCCGT
* *
200652 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGAATCCGT
**
200672 AAATCGCAACGATAATCCGT
1 AAATCGCAACGCGAATCCGT
* *
200692 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGAATCCGT
**
200712 AAATCGCAACGATAATCCGT
1 AAATCGCAACGCGAATCCGT
* *
200732 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGAATCCGT
200752 AAA
1 AAA
200755 ACACAACACT
Statistics
Matches: 176, Mismatches: 25, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
20 175 0.99
21 1 0.01
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGAATCCGT
Found at i:201483 original size:24 final size:24
Alignment explanation
Indices: 201444--201490 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
201434 AAATTTGGTC
201444 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
201468 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
201491 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:201681 original size:12 final size:12
Alignment explanation
Indices: 201664--201688 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
201654 ATATAATCCT
201664 GAAGAAGAAAAA
1 GAAGAAGAAAAA
201676 GAAGAAGAAAAA
1 GAAGAAGAAAAA
201688 G
1 G
201689 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:204022 original size:33 final size:34
Alignment explanation
Indices: 203971--204181 Score: 206
Period size: 33 Copynumber: 6.2 Consensus size: 34
203961 CGGAAATTAC
*
203971 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
*
204004 AATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGC-GAAATGAA
*
204038 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
*
204071 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAG
1 AATCGCAA--CG--ATGAAAATCGCAATGCGAAATGAA
*
204104 AATCGCAATGCGAAATGAAAATCGCAATGCAAAATGAA
1 AATCGCAA--CG--ATGAAAATCGCAATGCGAAATGAA
* * *
204142 AATCGCAACGA-GAGAATCGCAAAGCGAAATTAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
204175 AATCGCA
1 AATCGCA
204182 TTGCGATTCT
Statistics
Matches: 153, Mismatches: 12, Indels: 26
0.80 0.06 0.14
Matches are distributed among these distances:
32 1 0.01
33 91 0.59
34 31 0.20
35 4 0.03
36 4 0.03
37 2 0.01
38 20 0.13
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.13
Consensus pattern (34 bp):
AATCGCAACGATGAAAATCGCAATGCGAAATGAA
Found at i:204076 original size:19 final size:19
Alignment explanation
Indices: 203985--204187 Score: 185
Period size: 19 Copynumber: 11.7 Consensus size: 19
203975 GCAACGAGAG
203985 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
204004 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
204018 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
204038 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
204052 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
204071 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
204090 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
204104 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
204123 AATCGCAATGCAAAATGAA
1 AATCGCAATGCGAAATGAA
*
204142 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
* *
204156 AATCGCAAAGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
204175 AATCGCATTGCGA
1 AATCGCAATGCGA
204188 TTCTCTCGTT
Statistics
Matches: 150, Mismatches: 13, Indels: 42
0.73 0.06 0.20
Matches are distributed among these distances:
14 42 0.28
15 3 0.02
16 7 0.05
17 5 0.03
18 4 0.03
19 76 0.51
20 13 0.09
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:204098 original size:52 final size:52
Alignment explanation
Indices: 204013--204187 Score: 305
Period size: 52 Copynumber: 3.3 Consensus size: 52
204003 AAATCCCAAC
204013 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
204066 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
* *
204118 ATGAAAATCGCAATGCAAAATGAAAATCGCAACGAGAGAATCGCAAAGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
* *
204170 ATTAAAATCGCATTGCGA
1 ATGAAAATCGCAATGCGA
204188 TTCTCTCGTT
Statistics
Matches: 117, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
52 101 0.86
53 16 0.14
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:204257 original size:53 final size:52
Alignment explanation
Indices: 204177--204293 Score: 216
Period size: 53 Copynumber: 2.2 Consensus size: 52
204167 GAAATTAAAA
204177 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCACATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CACATTGCGATTTTCATT
*
204230 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCACATTGCGATTTTCATT
204282 TCGCATTGCGAT
1 TCGCATTGCGAT
204294 AGTCATTTTT
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
52 29 0.46
53 34 0.54
ACGTcount: A:0.15, C:0.24, G:0.17, T:0.44
Consensus pattern (52 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCACATTGCGATTTTCATT
Found at i:204301 original size:19 final size:19
Alignment explanation
Indices: 204196--204293 Score: 134
Period size: 19 Copynumber: 5.4 Consensus size: 19
204186 GATTCTCTCG
*
204196 TTGCGATTTTCATTTCCACA
1 TTGCGATTTTCATTT-CGCA
204216 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
204235 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
204249 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
204268 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
204287 TTGCGAT
1 TTGCGAT
204294 AGTCATTTTT
Statistics
Matches: 70, Mismatches: 3, Indels: 11
0.83 0.04 0.13
Matches are distributed among these distances:
14 6 0.09
16 7 0.10
17 7 0.10
19 35 0.50
20 15 0.21
ACGTcount: A:0.15, C:0.22, G:0.16, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:204419 original size:14 final size:14
Alignment explanation
Indices: 204400--204436 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
204390 CATCAATTAC
204400 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
204414 ACAAATCATCTTTT
1 ACAAATCAACTTTT
204428 ACAAATCAA
1 ACAAATCAA
204437 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:206402 original size:19 final size:19
Alignment explanation
Indices: 206360--206532 Score: 177
Period size: 19 Copynumber: 9.6 Consensus size: 19
206350 TAGTTTACTT
* *
206360 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
*
206380 TCGCAACGCGAAATGATAA
1 TCGCAACGCGAAATGAAAA
* **
206399 TCGCAACGAGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
**
206418 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
206437 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
206456 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
206470 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
206489 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
206503 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
206522 TCGCAATGCGA
1 TCGCAACGCGA
206533 TTTTGGTTTC
Statistics
Matches: 130, Mismatches: 13, Indels: 21
0.79 0.08 0.13
Matches are distributed among these distances:
14 16 0.12
16 11 0.08
17 11 0.08
19 80 0.62
20 12 0.09
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.10
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:206473 original size:14 final size:14
Alignment explanation
Indices: 206454--206510 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
206444 GCGAAATGAA
*
206454 AATCGCAACGACAG
1 AATCGCAACGAAAG
206468 AATCGCAACGCGAAATG
1 AATCGCAA--CGAAA-G
206485 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
206501 AATCGCAACG
1 AATCGCAACG
206511 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.25, G:0.21, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:206477 original size:33 final size:33
Alignment explanation
Indices: 206435--206527 Score: 177
Period size: 33 Copynumber: 2.8 Consensus size: 33
206425 GCGAAACCAA
*
206435 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
206468 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
206501 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
206528 TGCGATTTTG
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.47, C:0.23, G:0.20, T:0.10
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:206550 original size:19 final size:19
Alignment explanation
Indices: 206528--206637 Score: 105
Period size: 19 Copynumber: 6.3 Consensus size: 19
206518 AAAATCGCAA
206528 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
206547 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
206561 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
206580 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
206594 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
206613 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
206633 TGCGA
1 TGCGA
206638 AAGTAAACTA
Statistics
Matches: 74, Mismatches: 6, Indels: 21
0.73 0.06 0.21
Matches are distributed among these distances:
14 22 0.30
15 2 0.03
16 2 0.03
17 2 0.03
18 2 0.03
19 31 0.42
20 13 0.18
ACGTcount: A:0.08, C:0.16, G:0.30, T:0.45
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:206570 original size:33 final size:33
Alignment explanation
Indices: 206528--206619 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
206518 AAAATCGCAA
206528 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
206561 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
206594 TGCGATTTTGGTTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
206620 TTAAGTTTCG
Statistics
Matches: 58, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
33 56 0.97
34 2 0.03
ACGTcount: A:0.07, C:0.17, G:0.30, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:206801 original size:93 final size:93
Alignment explanation
Indices: 206685--207246 Score: 1108
Period size: 93 Copynumber: 6.1 Consensus size: 93
206675 ATGGATTGCA
206685 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
206749 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
206777 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
206842 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
206870 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
206935 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
206963 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
207028 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
207056 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
207121 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
207149 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
207214 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
207242 TTACT
1 TTACT
207247 AAGCAATCTA
Statistics
Matches: 468, Mismatches: 1, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
92 4 0.01
93 464 0.99
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:208977 original size:20 final size:20
Alignment explanation
Indices: 208946--209009 Score: 92
Period size: 20 Copynumber: 3.1 Consensus size: 20
208936 TTTTGGTTGA
208946 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
***
208966 AATGACTGTCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
208986 AAATGAAAATCGCAACGAGAG
1 -AATGAAAATCGCAACGAGAG
209007 AAT
1 AAT
209010 CGCAACGCGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 20 0.54
21 17 0.46
ACGTcount: A:0.47, C:0.16, G:0.25, T:0.12
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:208998 original size:21 final size:21
Alignment explanation
Indices: 208944--209008 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
208934 TCTTTTGGTT
208944 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
***
208965 G-AATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
208985 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
209006 GAA
1 GAA
209009 TCGCAACGCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.48, C:0.15, G:0.26, T:0.11
Consensus pattern (21 bp):
GAAATGAAAATCGCAACGAGA
Found at i:209032 original size:20 final size:20
Alignment explanation
Indices: 208945--209039 Score: 67
Period size: 20 Copynumber: 5.0 Consensus size: 20
208935 CTTTTGGTTG
*
208945 AAATGAAAATCGCAACGAGA
1 AAATGAAAATCGCAACGCGA
* *** *
208965 GAATGACTGTCGCAACGAGA
1 AAATGAAAATCGCAACGCGA
208985 GAAATGAAAATCGCAA--CG-
1 -AAATGAAAATCGCAACGCGA
*
209003 --A-GAGAATCGCAACGCGA
1 AAATGAAAATCGCAACGCGA
*
209020 AAATGAAAATCGCAATGCGA
1 AAATGAAAATCGCAACGCGA
209040 TTTTGGTTTC
Statistics
Matches: 56, Mismatches: 12, Indels: 14
0.68 0.15 0.17
Matches are distributed among these distances:
14 10 0.18
15 1 0.02
16 2 0.04
19 2 0.04
20 30 0.54
21 11 0.20
ACGTcount: A:0.46, C:0.18, G:0.24, T:0.12
Consensus pattern (20 bp):
AAATGAAAATCGCAACGCGA
Found at i:209070 original size:14 final size:14
Alignment explanation
Indices: 209051--209107 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
209041 TTTGGTTTCG
209051 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
209065 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
209084 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
209098 CGTTGCGATT
1 CGTTGCGATT
209108 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:209083 original size:33 final size:33
Alignment explanation
Indices: 209035--209115 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
209025 AAAATCGCAA
**
209035 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
209068 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
209101 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
209116 TCTCGTTGCG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.09, C:0.22, G:0.22, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:209118 original size:21 final size:21
Alignment explanation
Indices: 209092--209167 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
209082 CGCGTTGCGA
209092 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
209113 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
*
209133 TTCTCTCATTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
209154 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
209168 CTCTTCTGCA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 16 0.36
21 29 0.64
ACGTcount: A:0.13, C:0.25, G:0.16, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:209148 original size:41 final size:41
Alignment explanation
Indices: 209091--209168 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
209081 TCGCGTTGCG
* *
209091 ATTCTCTCGTTGCGATTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCATTGCGATTTTCATTTATCTCGTTGCGACAGTC
209132 ATTCTCTCATTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCATTGCGATTTTCATTTATCTCGTTGCGAC
209169 TCTTCTGCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.14, C:0.26, G:0.15, T:0.45
Consensus pattern (41 bp):
ATTCTCTCATTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:209153 original size:20 final size:20
Alignment explanation
Indices: 209058--209167 Score: 99
Period size: 21 Copynumber: 5.8 Consensus size: 20
209048 TCGCGTTGCG
209058 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
209078 ATT-TCGCGTTGCG------
1 ATTCTCTCGTTGCGATTTTC
209091 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
***
209111 ATTTCTCTCGTTGCGACAGTC
1 A-TTCTCTCGTTGCGATTTTC
*
209132 ATTCTCTCATTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
209152 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
209168 CTCTTCTGCA
Statistics
Matches: 70, Mismatches: 11, Indels: 17
0.71 0.11 0.17
Matches are distributed among these distances:
13 3 0.04
14 9 0.13
19 9 0.13
20 20 0.29
21 29 0.41
ACGTcount: A:0.13, C:0.25, G:0.17, T:0.45
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:209289 original size:33 final size:33
Alignment explanation
Indices: 209247--209317 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
209237 AATACTAACT
*
209247 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
209280 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
209313 TGAAA
1 TGAAA
209318 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:209551 original size:22 final size:22
Alignment explanation
Indices: 209499--209553 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
209489 TGGTTGTGAG
**
209499 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
209521 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
209543 GGATTTCTTCG
1 GGATTTCTTCG
209554 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Done.