Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005704.1 Hibiscus syriacus cultivar Beakdansim tig00013339_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: 232903
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
File 1 of 2
Found at i:4526 original size:21 final size:21
Alignment explanation
Indices: 4502--4541 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
4492 CCGAAAACTC
4502 TAACAATAAAAATAATTTCTT
1 TAACAATAAAAATAATTTCTT
* * *
4523 TAACTATTAAAATTATTTC
1 TAACAATAAAAATAATTTC
4542 GTTGGTGACA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.42
Consensus pattern (21 bp):
TAACAATAAAAATAATTTCTT
Found at i:7139 original size:23 final size:25
Alignment explanation
Indices: 7112--7157 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
7102 AATTTAATTG
7112 AATTA-AAAAAT-CAATTAATGAGA
1 AATTATAAAAATACAATTAATGAGA
*
7135 AATTATAAAAATACCATTAATGA
1 AATTATAAAAATACAATTAATGA
7158 ATCTTGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 5 0.25
24 6 0.30
25 9 0.45
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.28
Consensus pattern (25 bp):
AATTATAAAAATACAATTAATGAGA
Found at i:24536 original size:20 final size:19
Alignment explanation
Indices: 24495--24543 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
24485 TAGTCTTCTC
* *
24495 TTTCTTTAGTTTTGTTCTG
1 TTTCTTTTGTTTTGTTCAG
24514 TTTTCTTTTGTTGTT-TTCAG
1 -TTTCTTTTGTT-TTGTTCAG
24534 TTTCTTTTGT
1 TTTCTTTTGT
24544 GCCGTCATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 10 0.38
20 14 0.54
21 2 0.08
ACGTcount: A:0.04, C:0.10, G:0.14, T:0.71
Consensus pattern (19 bp):
TTTCTTTTGTTTTGTTCAG
Found at i:30084 original size:34 final size:34
Alignment explanation
Indices: 30046--30113 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
30036 GCCCTACAAC
30046 ATGAAACTATGCTTTAATTTGTTC-TAAATTATCA
1 ATGAAACTATGCTTTAATTTGTTCTTAAA-TATCA
30080 ATGAAACTATGCTTTAATTTGTTCTTAAATATCA
1 ATGAAACTATGCTTTAATTTGTTCTTAAATATCA
30114 GTTTTAGTAG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
34 29 0.88
35 4 0.12
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.44
Consensus pattern (34 bp):
ATGAAACTATGCTTTAATTTGTTCTTAAATATCA
Found at i:39644 original size:16 final size:17
Alignment explanation
Indices: 39623--39655 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
39613 TTACTATTCA
39623 CGTGAATAGT-AAATTT
1 CGTGAATAGTGAAATTT
39639 CGTGAATAGTGAAATTT
1 CGTGAATAGTGAAATTT
39656 TGTCGGTGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.36, C:0.06, G:0.21, T:0.36
Consensus pattern (17 bp):
CGTGAATAGTGAAATTT
Found at i:49338 original size:2 final size:2
Alignment explanation
Indices: 49331--49366 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
49321 TGGGCTTTTG
49331 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
49367 ATAATAATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:49372 original size:3 final size:3
Alignment explanation
Indices: 49364--49425 Score: 72
Period size: 3 Copynumber: 20.3 Consensus size: 3
49354 ATATATATAT
* * *
49364 ATA ATA ATA ATA ATA ATA ATA ATA ATA TTTA GTA ATA ATA A-A TTTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA -ATA
49410 ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA A
49426 AATTTAAATG
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
2 1 0.02
3 47 0.92
4 3 0.06
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:50378 original size:22 final size:22
Alignment explanation
Indices: 50353--50406 Score: 108
Period size: 22 Copynumber: 2.5 Consensus size: 22
50343 AAATATATTT
50353 ATAAAAATATTATTTTTATTCA
1 ATAAAAATATTATTTTTATTCA
50375 ATAAAAATATTATTTTTATTCA
1 ATAAAAATATTATTTTTATTCA
50397 ATAAAAATAT
1 ATAAAAATAT
50407 GAATCTAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (22 bp):
ATAAAAATATTATTTTTATTCA
Found at i:50697 original size:12 final size:12
Alignment explanation
Indices: 50680--50704 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
50670 TACAAGATTA
50680 TTAATTTTGAAT
1 TTAATTTTGAAT
50692 TTAATTTTGAAT
1 TTAATTTTGAAT
50704 T
1 T
50705 AGATAAGTTT
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:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (12 bp):
TTAATTTTGAAT
Found at i:54307 original size:15 final size:15
Alignment explanation
Indices: 54287--54316 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
54277 TCACGATGCT
54287 AACGTGGTAGTCAAC
1 AACGTGGTAGTCAAC
54302 AACGTGGTAGTCAAC
1 AACGTGGTAGTCAAC
54317 GGTATTGATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.20
Consensus pattern (15 bp):
AACGTGGTAGTCAAC
Found at i:60466 original size:34 final size:32
Alignment explanation
Indices: 60416--60513 Score: 88
Period size: 34 Copynumber: 2.9 Consensus size: 32
60406 AAGAAATTTA
* * * *
60416 TTTTTATGTTAGTATTTTTTTAAATAGTTATTAT
1 TTTTTATATTAATATTTATGTAAATA-TTA-TAT
60450 TTTTTATATTAATATTTATGTAAATATTATATT
1 TTTTTATATTAATATTTATGTAAATATTATA-T
* * * *
60483 TTTATTAAAATAATATTTATATAATTATTAT
1 TTT-TTATATTAATATTTATGTAAATATTAT
60514 TTATTTAGAA
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
32 2 0.04
33 7 0.13
34 45 0.83
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (32 bp):
TTTTTATATTAATATTTATGTAAATATTATAT
Found at i:60486 original size:19 final size:18
Alignment explanation
Indices: 60428--60513 Score: 53
Period size: 18 Copynumber: 5.1 Consensus size: 18
60418 TTTATGTTAG
60428 TATTTTT-TTAAATAGTTA
1 TATTTTTATTAAATA-TTA
60446 T-TATTTT-TT--ATATTA
1 TAT-TTTTATTAAATATTA
*
60461 -ATATTTATGTAAATATTA
1 TATTTTTAT-TAAATATTA
*
60479 TATTTTTATTAAA-ATAA
1 TATTTTTATTAAATATTA
* *
60496 TATTTATA-TAATTATTA
1 TATTTTTATTAAATATTA
60513 T
1 T
60514 TTATTTAGAA
Statistics
Matches: 54, Mismatches: 6, Indels: 17
0.70 0.08 0.22
Matches are distributed among these distances:
14 3 0.06
15 5 0.09
16 7 0.13
17 15 0.28
18 17 0.31
19 7 0.13
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.59
Consensus pattern (18 bp):
TATTTTTATTAAATATTA
Found at i:60498 original size:17 final size:19
Alignment explanation
Indices: 60464--60500 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
60454 TATATTAATA
*
60464 TTTATGTAAATATTATATT
1 TTTATGTAAATATAATATT
60483 TTTAT-TAAA-ATAATATT
1 TTTATGTAAATATAATATT
60500 T
1 T
60501 ATATAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 8 0.47
18 4 0.24
19 5 0.29
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (19 bp):
TTTATGTAAATATAATATT
Found at i:62263 original size:21 final size:21
Alignment explanation
Indices: 62233--62280 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
62223 GCAGGGGTAC
* *
62233 ATGCCCAGCCCTCCACTTCAT
1 ATGCCAAGCCCACCACTTCAT
* *
62254 ATGCCAAGCCCACCAGTTTAT
1 ATGCCAAGCCCACCACTTCAT
62275 ATGCCA
1 ATGCCA
62281 TCTCCGTAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.40, G:0.12, T:0.23
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTCAT
Found at i:62314 original size:21 final size:21
Alignment explanation
Indices: 62288--62377 Score: 137
Period size: 21 Copynumber: 4.3 Consensus size: 21
62278 CCATCTCCGT
62288 AGGGTTACATTCCGAGCCCGC
1 AGGGTTACATTCCGAGCCCGC
62309 AGGGTTACATTCCGAGCCCGC
1 AGGGTTACATTCCGAGCCCGC
*
62330 AGGGTTACATTCCTAGCCCGCC
1 AGGGTTACATTCCGAGCCCG-C
* *
62352 A-GGTTACATGCCTAGCCCGC
1 AGGGTTACATTCCGAGCCCGC
62372 AGGGTT
1 AGGGTT
62378 TTATACCATA
Statistics
Matches: 65, Mismatches: 2, Indels: 4
0.92 0.03 0.06
Matches are distributed among these distances:
20 2 0.03
21 61 0.94
22 2 0.03
ACGTcount: A:0.19, C:0.32, G:0.28, T:0.21
Consensus pattern (21 bp):
AGGGTTACATTCCGAGCCCGC
Found at i:62959 original size:33 final size:34
Alignment explanation
Indices: 62900--62996 Score: 133
Period size: 33 Copynumber: 2.9 Consensus size: 34
62890 AAATGTTTTT
*
62900 AAAATACAAATTATATTATTCGAAATTTAAAATA
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* * *
62934 AAAATAAAAATAATATTATTC-AAATTTAAATTT
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* *
62967 AAAATATAAATTATAGTATTCGAAATTTAA
1 AAAATAAAAATTATATTATTCGAAATTTAA
62997 CATTAAATTT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
33 28 0.51
34 27 0.49
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.37
Consensus pattern (34 bp):
AAAATAAAAATTATATTATTCGAAATTTAAAATA
Found at i:63003 original size:34 final size:33
Alignment explanation
Indices: 62898--63003 Score: 133
Period size: 34 Copynumber: 3.2 Consensus size: 33
62888 ATAAATGTTT
*
62898 TTAAAATACAAATTATATTATTCGAAATTTAAAA
1 TTAAAATAAAAATTATATTATTCGAAATTT-AAA
* *
62932 TAAAAATAAAAATAATATTATTC-AAATTTAAA
1 TTAAAATAAAAATTATATTATTCGAAATTTAAA
* *
62964 TTTAAAATATAAATTATAGTATTCGAAATTTAACA
1 -TTAAAATAAAAATTATATTATTCGAAATTTAA-A
62999 TTAAA
1 TTAAA
63004 TTTCAACTTA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
32 3 0.05
33 25 0.40
34 33 0.53
35 1 0.02
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.38
Consensus pattern (33 bp):
TTAAAATAAAAATTATATTATTCGAAATTTAAA
Found at i:63555 original size:128 final size:128
Alignment explanation
Indices: 63396--63896 Score: 930
Period size: 128 Copynumber: 3.9 Consensus size: 128
63386 TTACCTGATT
*
63396 TACTGATATATCTAGTGTCCCCGAGGAACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
63461 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
* *
63524 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATCCTA
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* *
63589 TGACAAAATAATGGAAGGCGCCCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
63652 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
63717 TGACGAAATAATGGAAGGCACGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
63780 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* *
63845 TGACGAAATAATGGAAGGTGCGCCCTCGGGAACGCGCCTTCATGTGAATAGT
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGT
63897 ACTCCGATTA
Statistics
Matches: 360, Mismatches: 13, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
128 360 1.00
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (128 bp):
TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
Found at i:63980 original size:8 final size:8
Alignment explanation
Indices: 63967--64007 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
63957 TCATAATCTT
63967 TCAAATTC
1 TCAAATTC
63975 TCAAATTC
1 TCAAATTC
* *
63983 CCAAACTC
1 TCAAATTC
63991 T-AAATTC
1 TCAAATTC
63998 TCAAATTC
1 TCAAATTC
64006 TC
1 TC
64008 TGAAAATGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:67047 original size:22 final size:21
Alignment explanation
Indices: 67010--67050 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
67000 ATAAATATAT
67010 TTAATATATTTATTATAATAA
1 TTAATATATTTATTATAATAA
67031 TTAATAT-TATTAGTTATAAT
1 TTAATATAT-TTA-TTATAAT
67051 TTTTTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 1 0.06
21 10 0.56
22 7 0.39
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (21 bp):
TTAATATATTTATTATAATAA
Found at i:72669 original size:28 final size:29
Alignment explanation
Indices: 72638--72697 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
72628 AAAAAGTTTG
* *
72638 GGTACCTATTTTTAC-ATAAAATACTTTA
1 GGTACCTATTTTGACAAAAAAATACTTTA
72666 GGTACCTATTTTGACAAAAAAATACTTTA
1 GGTACCTATTTTGACAAAAAAATACTTTA
72695 GGT
1 GGT
72698 GCTTAAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 14 0.48
29 15 0.52
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38
Consensus pattern (29 bp):
GGTACCTATTTTGACAAAAAAATACTTTA
Found at i:80342 original size:3 final size:3
Alignment explanation
Indices: 80334--80410 Score: 129
Period size: 3 Copynumber: 26.0 Consensus size: 3
80324 TTAATATATT
80334 TAA TAA TAA TAA TAA TAA TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
80381 AAA TAA TAA TAA TAA AAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
80411 ATCAATATGG
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
2 2 0.03
3 67 0.97
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:80881 original size:113 final size:113
Alignment explanation
Indices: 80741--81176 Score: 791
Period size: 113 Copynumber: 3.9 Consensus size: 113
80731 AGAATTATAC
* * * *
80741 AAAAAGTTGAACAAGTTCTTATTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
80806 TATGAACTTTCTCTGGAAAAGATAATCCATCAATTGATGAATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATAATCCATCAATTGATGAATTCAGGT
80854 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
80919 TATGAACTTTCTCTGGAAAAGATAATCCATCAATTGATGAATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATAATCCATCAATTGATGAATTCAGGT
80967 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
81032 TATGAACTTTCTCTGGAAAAGATAATCCATCAATTGATGAATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATAATCCATCAATTGATGAATTCAGGT
* * *
81080 AAAAGGTTGAACAAATTCTTCTCATTATAAACTTCTTATTCCTTCTTCAGATGAGTTCTTCTTAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* *
81145 TATGAACTTTCTCTGGAAAAGCTGATCCATCA
66 TATGAACTTTCTCTGGAAAAGATAATCCATCA
81177 TTATGGATTC
Statistics
Matches: 314, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
113 314 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (113 bp):
AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTTTCTCTGGAAAAGATAATCCATCAATTGATGAATTCAGGT
Found at i:82053 original size:83 final size:83
Alignment explanation
Indices: 81914--82306 Score: 718
Period size: 83 Copynumber: 4.7 Consensus size: 83
81904 GTAGTTCTTA
*
81914 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTTAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAA
81979 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
* *
81997 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTTCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAA
82062 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
82080 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAA
82145 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
82163 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-GCACATTCATCTTTCA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAGCACATTCATCTTTCA
82227 AATTCAATGATTGGTTCTG
65 AATTCAATGATTGGTTCTG
*
82246 TCC-AACCAAATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTT
1 -CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTT
82307 CCAGTTAATG
Statistics
Matches: 301, Mismatches: 6, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
82 2 0.01
83 295 0.98
84 4 0.01
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.27
Consensus pattern (83 bp):
CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAA
ATTCAATGATTGGTTCTG
Found at i:83462 original size:5 final size:5
Alignment explanation
Indices: 83454--83507 Score: 51
Period size: 5 Copynumber: 11.0 Consensus size: 5
83444 TTTTTTTCTT
* *
83454 TTTTC TTTTT TTTTC TCTCTTT TTTTC TTTTC -TTT- TTTTC TTTTC -TTTC
1 TTTTC TTTTC TTTTC T-T-TTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC
83503 TTTTC
1 TTTTC
83508 AAGCATAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
4 10 0.25
5 25 0.62
6 2 0.05
7 3 0.08
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTC
Found at i:83464 original size:17 final size:16
Alignment explanation
Indices: 83444--83506 Score: 72
Period size: 17 Copynumber: 3.8 Consensus size: 16
83434 CTTGACCCCC
83444 TTTTTTTCTTTTTTCTT
1 TTTTTTTCTTTTTT-TT
*
83461 TTTTTTTCTCTCTTTTT
1 TTTTTTTCT-TTTTTTT
*
83478 TTCTTTTCTTTTTTTCT
1 TTTTTTTCTTTTTTT-T
*
83495 TTTCTTTCTTTT
1 TTTTTTTCTTTT
83507 CAAGCATAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
16 5 0.13
17 30 0.77
18 4 0.10
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTTTTTCTTTTTTTT
Found at i:83480 original size:22 final size:21
Alignment explanation
Indices: 83443--83507 Score: 89
Period size: 22 Copynumber: 3.0 Consensus size: 21
83433 CCTTGACCCC
83443 CTTTTTTTC-TTTTTTCTTTT
1 CTTTTTTTCTTTTTTTCTTTT
83463 -TTTTTCTCTCTTTTTTTCTTTT
1 CTTTTT-T-TCTTTTTTTCTTTT
83485 CTTTTTTTCTTTTCTTTCTTTT
1 CTTTTTTTCTTTT-TTTCTTTT
83507 C
1 C
83508 AAGCATAATA
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
19 5 0.12
20 1 0.03
21 8 0.20
22 21 0.52
23 5 0.12
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (21 bp):
CTTTTTTTCTTTTTTTCTTTT
Found at i:83493 original size:13 final size:13
Alignment explanation
Indices: 83443--83507 Score: 78
Period size: 13 Copynumber: 4.7 Consensus size: 13
83433 CCTTGACCCC
83443 CTTTTTTTCTTTTTT
1 CTTTTTTTC--TTTT
83458 CTTTTTTT-TTCTCT
1 CTTTTTTTCTT-T-T
83472 CTTTTTTTCTTTT
1 CTTTTTTTCTTTT
83485 CTTTTTTTCTTTT
1 CTTTTTTTCTTTT
83498 CTTTCTTTTC
1 CTTT-TTTTC
83508 AAGCATAATA
Statistics
Matches: 46, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
12 2 0.04
13 19 0.41
14 15 0.33
15 10 0.22
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (13 bp):
CTTTTTTTCTTTT
Found at i:83498 original size:30 final size:29
Alignment explanation
Indices: 83443--83506 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
83433 CCTTGACCCC
83443 CTTTTTTTCTTTTTTCTTTTTTTTTCTCT
1 CTTTTTTTCTTTTTTCTTTTTTTTTCTCT
*
83472 CTTTTTTTCTTTTCTT-TTTTTCTTTTCTTT
1 CTTTTTTTCTTTT-TTCTTTTT-TTTTCTCT
83502 CTTTT
1 CTTTT
83507 CAAGCATAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
29 18 0.56
30 14 0.44
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (29 bp):
CTTTTTTTCTTTTTTCTTTTTTTTTCTCT
Found at i:95821 original size:3 final size:3
Alignment explanation
Indices: 95813--95889 Score: 113
Period size: 3 Copynumber: 26.0 Consensus size: 3
95803 ATAATATATT
*
95813 TAA TAA TAA TAA TAA TAA TAA TAAA TGA T-A TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA
*
95858 TAA -AA TAA TAA TAA TAA TAA AAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
95890 ATCAAGGGTA
Statistics
Matches: 68, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
2 4 0.06
3 61 0.90
4 3 0.04
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:95823 original size:15 final size:15
Alignment explanation
Indices: 95803--95885 Score: 73
Period size: 15 Copynumber: 5.4 Consensus size: 15
95793 TGTATATTGT
*
95803 ATAATATATTTAATA
1 ATAATATATATAATA
95818 ATAATA-ATAATAATA
1 ATAATATAT-ATAATA
95833 ATAA-ATGATATAATA
1 ATAATAT-ATATAATA
*
95848 ATAATAATAATAAAATA
1 ATAAT-AT-ATATAATA
*
95865 ATAATA-ATAATAAAA
1 ATAATATAT-ATAATA
95880 ATAATA
1 ATAATA
95886 ATAAATCAAG
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
14 5 0.09
15 35 0.61
16 3 0.05
17 14 0.25
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (15 bp):
ATAATATATATAATA
Found at i:96162 original size:3 final size:3
Alignment explanation
Indices: 96154--96235 Score: 116
Period size: 3 Copynumber: 28.0 Consensus size: 3
96144 TTAATATATT
*
96154 TAA TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA -ATA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA
*
96199 TAA TAA TAA T-A TAA TAA TAA TAA -AA AAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
96236 ATCAACTGCA
Statistics
Matches: 72, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
2 5 0.07
3 66 0.92
4 1 0.01
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:101492 original size:2 final size:2
Alignment explanation
Indices: 101487--101513 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
101477 GAGAGAATGG
101487 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 A
101514 GGCCGAAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:101914 original size:2 final size:2
Alignment explanation
Indices: 101903--101939 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
101893 TATAACAAAA
*
101903 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AA AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
101940 AATTTTAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:102006 original size:2 final size:2
Alignment explanation
Indices: 101999--102027 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
101989 TACTAAACCT
101999 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
102028 GAGGGGTAAA
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:103534 original size:7 final size:7
Alignment explanation
Indices: 103522--103553 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
103512 CCTATAAATG
103522 ACTCCCC
1 ACTCCCC
103529 ACTCCCC
1 ACTCCCC
103536 ACTCCCC
1 ACTCCCC
103543 ACTCCCC
1 ACTCCCC
103550 ACTC
1 ACTC
103554 TTTTCCAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.16, C:0.69, G:0.00, T:0.16
Consensus pattern (7 bp):
ACTCCCC
Found at i:105042 original size:17 final size:18
Alignment explanation
Indices: 105022--105066 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
105012 AAAATCATTG
105022 TATATTTTTT-TAAAAAA
1 TATATTTTTTATAAAAAA
*
105039 TATACTTTTTTATTAAAAA
1 TATA-TTTTTTATAAAAAA
*
105058 TATGTTTTT
1 TATATTTTT
105067 ATCATCCTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 4 0.17
18 11 0.46
19 9 0.38
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (18 bp):
TATATTTTTTATAAAAAA
Found at i:107983 original size:2 final size:2
Alignment explanation
Indices: 107976--108037 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
107966 ACAAACTATC
107976 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
108018 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
108038 TTGGACAACA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:108871 original size:29 final size:30
Alignment explanation
Indices: 108803--108881 Score: 72
Period size: 29 Copynumber: 2.6 Consensus size: 30
108793 TCAAAGGTTC
* *
108803 AATGGTATAATTGAAATAAAAATCAAAATT
1 AATGATATAATTGAAATAAAAATAAAAATT
* *
108833 AAGTGCTATAATTG-AA-AAAATTAAAAATCT
1 AA-TGATATAATTGAAATAAAAATAAAAAT-T
* *
108863 AATGATATAAATGACATAA
1 AATGATATAATTGAAATAA
108882 TATTTAAAGT
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
29 19 0.49
30 8 0.21
31 12 0.31
ACGTcount: A:0.56, C:0.05, G:0.10, T:0.29
Consensus pattern (30 bp):
AATGATATAATTGAAATAAAAATAAAAATT
Found at i:116019 original size:14 final size:15
Alignment explanation
Indices: 116000--116032 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
115990 GTACTAAATG
*
116000 TATAA-TTTATCTTA
1 TATAATTTTATCATA
116014 TATAATTTTATCATA
1 TATAATTTTATCATA
116029 TATA
1 TATA
116033 TATATGTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (15 bp):
TATAATTTTATCATA
Found at i:122691 original size:2 final size:2
Alignment explanation
Indices: 122684--122710 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
122674 TTTAATACAT
122684 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 T
122711 GTGTGTGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:122772 original size:14 final size:14
Alignment explanation
Indices: 122749--122779 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
122739 TTTATGTATG
122749 TATGTATGTATATA
1 TATGTATGTATATA
*
122763 TATGTGTGTATATA
1 TATGTATGTATATA
122777 TAT
1 TAT
122780 ATACATGTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (14 bp):
TATGTATGTATATA
Found at i:122834 original size:64 final size:68
Alignment explanation
Indices: 122716--122846 Score: 216
Period size: 64 Copynumber: 2.0 Consensus size: 68
122706 TATATGTGTG
122716 TGTGTGTGTATGTGTTTTTTTTATTTATGTATGTATGTATGTATATATATGTGTGTATATATATA
1 TGTGTGTGTATGTGTTTTTTTTA-TTATGTATGTATGTATGTATATATATGTGTGTATATATATA
122781 TACA
65 TACA
*
122785 TGTGTGTGTATGTG-TTTTTTTA-T-T-TATGTATGTATGTATATATGTGTGTGTATATATATAT
1 TGTGTGTGTATGTGTTTTTTTTATTATGTATGTATGTATGTATATATATGTGTGTATATATATAT
122846 A
66 A
122847 TATATATATA
Statistics
Matches: 61, Mismatches: 1, Indels: 5
0.91 0.01 0.07
Matches are distributed among these distances:
64 37 0.61
65 1 0.02
66 1 0.02
68 8 0.13
69 14 0.23
ACGTcount: A:0.24, C:0.01, G:0.20, T:0.56
Consensus pattern (68 bp):
TGTGTGTGTATGTGTTTTTTTTATTATGTATGTATGTATGTATATATATGTGTGTATATATATAT
ACA
Found at i:122840 original size:2 final size:2
Alignment explanation
Indices: 122835--122871 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
122825 TATGTGTGTG
122835 TA TA TA TA 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 TA TA TA TA T
122872 TATGAAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:123010 original size:37 final size:36
Alignment explanation
Indices: 122937--123018 Score: 130
Period size: 36 Copynumber: 2.2 Consensus size: 36
122927 TGAAGATGTT
*
122937 TTATGAAACCTTTAATAAGAAAAATATCCAATTTTC
1 TTATGAAACCTTTAATAAGAAAAATATCCAAATTTC
122973 TTATGAAACCTTTAATAAGAAAAA-ATGCCCAAATTTC
1 TTATGAAACCTTTAATAAGAAAAATAT--CCAAATTTC
123010 TTATGAAAC
1 TTATGAAAC
123019 ATAAATTGGT
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
35 2 0.05
36 24 0.56
37 17 0.40
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.33
Consensus pattern (36 bp):
TTATGAAACCTTTAATAAGAAAAATATCCAAATTTC
Found at i:124054 original size:17 final size:17
Alignment explanation
Indices: 124032--124070 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
124022 TGAATCAAAT
124032 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
124049 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
124066 -AATTA
1 TAATTA
124071 ATAGTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (17 bp):
TAATTAGATATTATTTA
Found at i:124351 original size:11 final size:10
Alignment explanation
Indices: 124335--124425 Score: 64
Period size: 11 Copynumber: 8.9 Consensus size: 10
124325 TTTATAAATA
124335 TAATAATAGTT
1 TAATAATA-TT
124346 TAATAATATT
1 TAATAATATT
124356 GTAATTAAT-TT
1 -TAA-TAATATT
124367 TAATATATATT
1 TAATA-ATATT
**
124378 TTGTAATATTT
1 TAATAATA-TT
124389 TAATAA-ATT
1 TAATAATATT
*
124398 TAATATTTATT
1 TAATA-ATATT
*
124409 TTATAAT-TT
1 TAATAATATT
124418 TAA-AATAT
1 TAATAATAT
124426 AAAATTATTA
Statistics
Matches: 64, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
8 3 0.05
9 14 0.22
10 12 0.19
11 31 0.48
12 4 0.06
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (10 bp):
TAATAATATT
Found at i:124403 original size:31 final size:31
Alignment explanation
Indices: 124323--124415 Score: 98
Period size: 31 Copynumber: 3.0 Consensus size: 31
124313 TTAATAAATT
* * *
124323 TTTTTATAAATATAATA-ATAGTTTAATAATA
1 TTTTAATAAATTTAATATATA-TTTTATAATA
* * *
124354 TTGTAATTAATTTTAATATATATTTTGTAATA
1 TTTTAA-TAAATTTAATATATATTTTATAATA
*
124386 TTTTAATAAATTTAATATTTATTTTATAAT
1 TTTTAATAAATTTAATATATATTTTATAAT
124416 TTTAAAATAT
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
31 25 0.50
32 22 0.44
33 3 0.06
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (31 bp):
TTTTAATAAATTTAATATATATTTTATAATA
Found at i:128538 original size:38 final size:39
Alignment explanation
Indices: 128472--128545 Score: 107
Period size: 38 Copynumber: 1.9 Consensus size: 39
128462 AATTCTTTAA
* *
128472 TTTTATATAGATTTAAGACTATTGGATAAGT-AAAAGAG
1 TTTTATATAGATTTAAAACTATTCGATAAGTGAAAAGAG
128510 TTTTATATAGATTTAAAA-TCATTCGATAAGTGAAAA
1 TTTTATATAGATTTAAAACT-ATTCGATAAGTGAAAA
128546 TAGATTGTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
37 1 0.03
38 27 0.84
39 4 0.12
ACGTcount: A:0.43, C:0.04, G:0.15, T:0.38
Consensus pattern (39 bp):
TTTTATATAGATTTAAAACTATTCGATAAGTGAAAAGAG
Found at i:134051 original size:90 final size:90
Alignment explanation
Indices: 133898--134063 Score: 269
Period size: 90 Copynumber: 1.8 Consensus size: 90
133888 GTTTCCAGAT
* * *
133898 TCGCAACGCGAATTTCGACTATCGCATTGCGATTTACATATTCACATTGTGATAGTTCAAGTTCG
1 TCGCAACGCGAACTTCGACTATCGCATTGCGATTTACATATTCACATTGCGATAGTCCAAGTTCG
133963 CGTTACGATTTTCCAAATTCGACTA
66 CGTTACGATTTTCCAAATTCGACTA
* **
133988 TCGCAACGCGAACTTCGACTATCGCATTGCGATTTATATATTTGCATTGCGATAGTCCAAGTTCG
1 TCGCAACGCGAACTTCGACTATCGCATTGCGATTTACATATTCACATTGCGATAGTCCAAGTTCG
*
134053 CGTTGCGATTT
66 CGTTACGATTT
134064 ATTCTAAATT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
90 69 1.00
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (90 bp):
TCGCAACGCGAACTTCGACTATCGCATTGCGATTTACATATTCACATTGCGATAGTCCAAGTTCG
CGTTACGATTTTCCAAATTCGACTA
Found at i:134077 original size:21 final size:21
Alignment explanation
Indices: 134053--134103 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
134043 TCCAAGTTCG
*
134053 CGTTGCGATTTATTCTAAATT
1 CGTTGCGATTTATTCCAAATT
134074 CGTTGCGATTTATTCCAAATT
1 CGTTGCGATTTATTCCAAATT
134095 CGTTGCGAT
1 CGTTGCGAT
134104 AGTCCAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.43
Consensus pattern (21 bp):
CGTTGCGATTTATTCCAAATT
Found at i:134730 original size:6 final size:6
Alignment explanation
Indices: 134719--134748 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
134709 CCGTCCCGTC
*
134719 TCGTGG TCGTGG TCGTGG TCTTGG TCGTGG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
134749 CTTTCACACT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.17, G:0.47, T:0.37
Consensus pattern (6 bp):
TCGTGG
Found at i:134802 original size:21 final size:21
Alignment explanation
Indices: 134777--134909 Score: 112
Period size: 21 Copynumber: 6.3 Consensus size: 21
134767 CTTCGACTAC
*
134777 CGCAACAAACTTGGAATAAAT
1 CGCAACGAACTTGGAATAAAT
*
134798 CGCAACGCGAACTTGGACT--AT
1 CGCAA--CGAACTTGGAATAAAT
*
134819 CGCAACGAATTTGGAATAAAT
1 CGCAACGAACTTGGAATAAAT
* * *
134840 CGCAACGCGAACATAGACT--AT
1 CGCAA--CGAACTTGGAATAAAT
* *
134861 CGCAACGAATTTGAAATAAAT
1 CGCAACGAACTTGGAATAAAT
* *
134882 CGCAACGAATTTAGAATAAAT
1 CGCAACGAACTTGGAATAAAT
134903 CGCAACG
1 CGCAACG
134910 CGAACTTCGA
Statistics
Matches: 89, Mismatches: 15, Indels: 16
0.74 0.12 0.13
Matches are distributed among these distances:
19 17 0.19
21 54 0.61
23 18 0.20
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.20
Consensus pattern (21 bp):
CGCAACGAACTTGGAATAAAT
Found at i:134823 original size:42 final size:42
Alignment explanation
Indices: 134762--134888 Score: 191
Period size: 42 Copynumber: 3.0 Consensus size: 42
134752 TCACACTATT
* * * *
134762 GCGAACTTCGACTACCGCAACAAACTTGGAATAAATCGCAAC
1 GCGAACTTAGACTATCGCAACGAATTTGGAATAAATCGCAAC
*
134804 GCGAACTTGGACTATCGCAACGAATTTGGAATAAATCGCAAC
1 GCGAACTTAGACTATCGCAACGAATTTGGAATAAATCGCAAC
* *
134846 GCGAACATAGACTATCGCAACGAATTTGAAATAAATCGCAAC
1 GCGAACTTAGACTATCGCAACGAATTTGGAATAAATCGCAAC
134888 G
1 G
134889 AATTTAGAAT
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 78 1.00
ACGTcount: A:0.39, C:0.24, G:0.19, T:0.19
Consensus pattern (42 bp):
GCGAACTTAGACTATCGCAACGAATTTGGAATAAATCGCAAC
Found at i:134905 original size:42 final size:41
Alignment explanation
Indices: 134777--134909 Score: 133
Period size: 42 Copynumber: 3.2 Consensus size: 41
134767 CTTCGACTAC
* * * * * *
134777 CGCAACAAACTTGGAATAAATCGCAACGCGAACTTGGACTAT
1 CGCAACGAATTTGAAATAAATCGCAAC-CGAACATAGAATAT
* *
134819 CGCAACGAATTTGGAATAAATCGCAACGCGAACATAGACTAT
1 CGCAACGAATTTGAAATAAATCGCAAC-CGAACATAGAATAT
**
134861 CGCAACGAATTTGAAATAAATCGCAA-CGAATTTAGAATAAAT
1 CGCAACGAATTTGAAATAAATCGCAACCGAACATAGAAT--AT
134903 CGCAACG
1 CGCAACG
134910 CGAACTTCGA
Statistics
Matches: 81, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
40 9 0.11
42 72 0.89
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.20
Consensus pattern (41 bp):
CGCAACGAATTTGAAATAAATCGCAACCGAACATAGAATAT
Found at i:135339 original size:20 final size:19
Alignment explanation
Indices: 135264--135378 Score: 61
Period size: 20 Copynumber: 5.7 Consensus size: 19
135254 ATCAGTTTCC
* *
135264 AAATCGCAACGCGATTCTTGA
1 AAATCGCAACGCGA-T-ATAA
* *
135285 AAATCGCGATGCGATAGTACA
1 AAATCGCAACGCGATA-TA-A
* ** *
135306 AATTCGCATTGCGATTTAA
1 AAATCGCAACGCGATATAA
*
135325 ATAATCGCAACGCGAATATGA
1 A-AATCGCAACGCG-ATATAA
*
135346 AAATCGCAACGCGA-ACACA
1 AAATCGCAACGCGATATA-A
135365 TAAATCGCAACGCG
1 -AAATCGCAACGCG
135379 TATCCGTAAA
Statistics
Matches: 73, Mismatches: 15, Indels: 13
0.72 0.15 0.13
Matches are distributed among these distances:
18 1 0.01
19 4 0.05
20 38 0.52
21 30 0.41
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.20
Consensus pattern (19 bp):
AAATCGCAACGCGATATAA
Found at i:135388 original size:20 final size:20
Alignment explanation
Indices: 135327--135519 Score: 219
Period size: 20 Copynumber: 9.6 Consensus size: 20
135317 CGATTTAAAT
* ** *
135327 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
135347 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
135367 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
135387 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
135407 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
135427 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
135447 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* * *
135467 AATCGCAACG-ATAATACATAA
1 AATCGCAACGCGT-ATCCGT-A
135488 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
135508 AATCGCAACGCG
1 AATCGCAACGCG
135520 ATATTTAAAG
Statistics
Matches: 145, Mismatches: 23, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 125 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:135394 original size:60 final size:60
Alignment explanation
Indices: 135327--135520 Score: 244
Period size: 60 Copynumber: 3.2 Consensus size: 60
135317 CGATTTAAAT
** * *
135327 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* * * *** *
135387 AATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGAATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* * **
135447 TATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGTA
135508 AATCGCAACGCGA
1 AATCGCAACGCGA
135521 TATTTAAAGC
Statistics
Matches: 111, Mismatches: 22, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 80 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AATCGCAACGCGAATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
Found at i:135941 original size:33 final size:33
Alignment explanation
Indices: 135899--135969 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
135889 TTCACTTAGA
135899 TTTCATTTCGCGTTAAGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTAAGATTCTCTCGTTGCGAT
***
135932 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTAAGATTCTCTCGTTGCGAT
135965 TTTCA
1 TTTCA
135970 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.13, C:0.23, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTAAGATTCTCTCGTTGCGAT
Found at i:136109 original size:14 final size:14
Alignment explanation
Indices: 136090--136144 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
136080 AGAATGACTG
136090 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
*
136104 TCGCAACGCGAAATGAAAA
1 TCGCAA--CG--A-GAGAA
136123 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
136137 TCGCAACG
1 TCGCAACG
136145 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.42, C:0.24, G:0.25, T:0.09
Consensus pattern (14 bp):
TCGCAACGAGAGAA
Found at i:136198 original size:14 final size:14
Alignment explanation
Indices: 136179--136265 Score: 75
Period size: 14 Copynumber: 5.5 Consensus size: 14
136169 TCATTTCGCG
136179 TGCGATTCTCTCGT
1 TGCGATTCTCTCGT
*
136193 TGCGATTTTCATTTCGCGT
1 TGCGA--TTC---TCTCGT
136212 TGCGATTCTCTCGT
1 TGCGATTCTCTCGT
136226 TGCGATTGTCATCTCGCGT
1 TGCGA-T-TC-TCT--CGT
136245 TGCGATTCTCTCGT
1 TGCGATTCTCTCGT
136259 TGCGATT
1 TGCGATT
136266 TTCATTTCAA
Statistics
Matches: 61, Mismatches: 2, Indels: 20
0.73 0.02 0.24
Matches are distributed among these distances:
14 25 0.41
15 1 0.02
16 8 0.13
17 8 0.13
18 1 0.02
19 18 0.30
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.43
Consensus pattern (14 bp):
TGCGATTCTCTCGT
Found at i:136214 original size:19 final size:18
Alignment explanation
Indices: 136155--136271 Score: 71
Period size: 14 Copynumber: 7.1 Consensus size: 18
136145 CGAAACCAAA
*
136155 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCA-T
136174 TCGCG-TGCGA--TTC--
1 TCGCGTTGCGATTTTCAT
*
136187 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCA-T
136206 TCGCGTTGCGA--TTC--
1 TCGCGTTGCGATTTTCAT
* *
136220 TCTCGTTGCGATTGTCAT
1 TCGCGTTGCGATTTTCAT
136238 CTCGCGTTGCGA--TTC--
1 -TCGCGTTGCGATTTTCAT
*
136253 TCTCGTTGCGATTTTCAT
1 TCGCGTTGCGATTTTCAT
136271 T
1 T
136272 TCAACCAAAA
Statistics
Matches: 75, Mismatches: 8, Indels: 31
0.66 0.07 0.27
Matches are distributed among these distances:
13 4 0.05
14 25 0.33
16 11 0.15
17 5 0.07
18 6 0.08
19 24 0.32
ACGTcount: A:0.10, C:0.25, G:0.21, T:0.44
Consensus pattern (18 bp):
TCGCGTTGCGATTTTCAT
Found at i:136221 original size:33 final size:33
Alignment explanation
Indices: 136160--136273 Score: 203
Period size: 33 Copynumber: 3.5 Consensus size: 33
136150 CCAAATCGCA
136160 TTGCGATTTTCATTTCGCG-TGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
136192 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
136225 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
136258 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
136274 AACCAAAAGA
Statistics
Matches: 77, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
32 19 0.25
33 58 0.75
ACGTcount: A:0.10, C:0.25, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:138140 original size:92 final size:93
Alignment explanation
Indices: 137962--138339 Score: 717
Period size: 92 Copynumber: 4.1 Consensus size: 93
137952 TAGATTGCTT
*
137962 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
138027 TTTGTCTTTGTTTTGTC-TTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
138054 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
138118 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
138146 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAATTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
138210 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
138238 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
138303 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
138331 AGTAAATTT
1 AGTAAATTT
138340 ATCCATTCAA
Statistics
Matches: 281, Mismatches: 3, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
91 19 0.07
92 223 0.79
93 39 0.14
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.47
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:138423 original size:19 final size:19
Alignment explanation
Indices: 138383--138511 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
138373 TAGTTTACTT
* *
138383 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
138403 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
138422 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
138441 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
138455 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
138474 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
138488 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
138507 TCGCA
1 TCGCA
138512 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:138462 original size:33 final size:32
Alignment explanation
Indices: 138419--138511 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
138409 CGCGAAACCA
**
138419 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
138451 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
138484 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
138512 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:138509 original size:52 final size:52
Alignment explanation
Indices: 138383--138511 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
138373 TAGTTTACTT
**
138383 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
138435 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
138488 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
138512 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:138529 original size:19 final size:19
Alignment explanation
Indices: 138507--138641 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
138497 GAAACCAAAA
*
138507 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
138526 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
138542 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
138559 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
138575 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
138592 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
138611 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
138631 TCGTGTTGCGA
1 TCGCGTTGCGA
138642 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:138548 original size:14 final size:14
Alignment explanation
Indices: 138529--138585 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
138519 TTTCATTTCG
138529 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
138543 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
138560 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
138576 CGTTGCGATT
1 CGTTGCGATT
138586 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:138554 original size:33 final size:33
Alignment explanation
Indices: 138512--138604 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
138502 CAAAATCGCA
*
138512 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
138545 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
138578 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
138605 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:140546 original size:14 final size:14
Alignment explanation
Indices: 140527--140562 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
140517 ATTGTTTAAT
140527 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
140541 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
140555 TGATTTGT
1 TGATTTGT
140563 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:140737 original size:20 final size:19
Alignment explanation
Indices: 140669--140751 Score: 113
Period size: 19 Copynumber: 4.6 Consensus size: 19
140659 AAAAATGACT
140669 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
140688 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
140702 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
140721 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
140741 ATCGCAATGCG
1 ATCGCAATGCG
140752 TTTATAATTT
Statistics
Matches: 56, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
14 10 0.18
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 21 0.38
20 19 0.34
ACGTcount: A:0.43, C:0.18, G:0.24, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:140804 original size:19 final size:19
Alignment explanation
Indices: 140780--141052 Score: 345
Period size: 19 Copynumber: 15.4 Consensus size: 19
140770 GATTATCTCG
140780 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
140799 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
140818 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
140832 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
140851 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
140870 TTGCGATTTCCATTTCGCA
1 TTGCGATTTTCATTTCGCA
140889 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
140908 TTGCGATTTTCA-TTCGCA
1 TTGCGATTTTCATTTCGCA
*
140926 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
140940 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
140959 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
140978 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
140992 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
141012 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
141026 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
141045 TTGCGATT
1 TTGCGATT
141053 GTATTTTCCG
Statistics
Matches: 224, Mismatches: 8, Indels: 44
0.81 0.03 0.16
Matches are distributed among these distances:
14 29 0.13
16 26 0.12
17 18 0.08
18 15 0.07
19 124 0.55
20 12 0.05
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:140820 original size:52 final size:52
Alignment explanation
Indices: 140758--141024 Score: 446
Period size: 52 Copynumber: 5.0 Consensus size: 52
140748 TGCGTTTATA
*
140758 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
140810 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
140862 ATTTCGCATTGCGATTTCCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGA-TT-C-TCTCG--TTGCGATTTTCATTTCGCATTGCGATTTTC
140919 A-TTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
140970 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTC
141023 AT
1 AT
141025 GTTGGGATTT
Statistics
Matches: 205, Mismatches: 3, Indels: 13
0.93 0.01 0.06
Matches are distributed among these distances:
51 31 0.15
52 99 0.48
53 23 0.11
54 2 0.01
55 7 0.03
56 12 0.06
57 31 0.15
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.46
Consensus pattern (52 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:143326 original size:12 final size:12
Alignment explanation
Indices: 143309--143333 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
143299 TCTTCGGGGA
143309 CTTTTTCTTCTT
1 CTTTTTCTTCTT
143321 CTTTTTCTTCTT
1 CTTTTTCTTCTT
143333 C
1 C
143334 AGGATTATAT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:143542 original size:24 final size:24
Alignment explanation
Indices: 143508--143554 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
143498 CTGAAACATC
143508 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
143532 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
143555 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:144246 original size:20 final size:20
Alignment explanation
Indices: 144218--144608 Score: 425
Period size: 20 Copynumber: 19.4 Consensus size: 20
144208 AAATTTCAGT
* * * *
144218 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
144238 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
144258 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
144278 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
144298 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
144318 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
144338 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
144358 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
144378 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
144398 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
144418 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* * *
144438 GTTGCGATTTTATGTATTA-TC
1 GTTGCGA-TTTACGGA-TACGC
144459 GTTGCGATTTTACGGATAC-C
1 GTTGCGA-TTTACGGATACGC
*
144479 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
144499 ATTGCGATTTACCCCATACGC
1 GTTGCGATTTA-CGGATACGC
*
144520 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
*
144540 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
144560 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
144580 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
144600 GTTGCGATT
1 GTTGCGATT
144609 ATTGAAAATC
Statistics
Matches: 321, Mismatches: 37, Indels: 26
0.84 0.10 0.07
Matches are distributed among these distances:
19 15 0.05
20 261 0.81
21 43 0.13
22 2 0.01
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.36
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:146448 original size:31 final size:31
Alignment explanation
Indices: 146413--146486 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
146403 ACACAAATGA
*
146413 TCCCTTAACTATAGCGTAATGTTTTATTAAG
1 TCCCTCAACTATAGCGTAATGTTTTATTAAG
* * *
146444 TCCCTCAACTCTAGGGTAATGTTTTATTATG
1 TCCCTCAACTATAGCGTAATGTTTTATTAAG
*
146475 TCCATCAACTAT
1 TCCCTCAACTAT
146487 TAAAAGCTAT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.27, C:0.20, G:0.12, T:0.41
Consensus pattern (31 bp):
TCCCTCAACTATAGCGTAATGTTTTATTAAG
Found at i:146932 original size:16 final size:16
Alignment explanation
Indices: 146908--146942 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
146898 TGGCATACTA
146908 ATTGATAACATATAAT
1 ATTGATAACATATAAT
* *
146924 ATTGGTAACGTATAAT
1 ATTGATAACATATAAT
146940 ATT
1 ATT
146943 AAACTTGAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.43, C:0.06, G:0.11, T:0.40
Consensus pattern (16 bp):
ATTGATAACATATAAT
Found at i:149937 original size:23 final size:23
Alignment explanation
Indices: 149911--149960 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
149901 AACGAACGCC
*
149911 AAATGAACATGTTCGTGAACATT
1 AAATGAACATGTTCGTGAACAAT
* *
149934 AAATGAATATGTTTGTGAACAAT
1 AAATGAACATGTTCGTGAACAAT
149957 AAAT
1 AAAT
149961 AAACGAACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.44, C:0.08, G:0.16, T:0.32
Consensus pattern (23 bp):
AAATGAACATGTTCGTGAACAAT
Found at i:154731 original size:187 final size:187
Alignment explanation
Indices: 154395--154969 Score: 1010
Period size: 187 Copynumber: 3.1 Consensus size: 187
154385 TCCACACGAA
*
154395 TTTGAAGCTATTGAGTGAAAATTGACGGCTTAGATTAACTCTTTGTTTTCTCGTGAATATCTTTT
1 TTTGAAGCTATTGAGTGAAAATTGACGGCTTAGATTAACTCTTTGTTTTCTCGTGAATATCTTCT
* * * * *
154460 CATTT-C-AATCCCTAGGGTTAATCTCCATTTATTTACACTCATCCCACAATCCTAAATCTATAC
66 CATTTCCTAATCCCTAGGGTTAATCTCAATATATTTACATTCATCCCACAATCTTAAATCTGTAC
154523 ATTGTGTAATTGGATTCTATTCCCCGTATATATGTACATATATAAACAAAACTCGAC
131 ATTGTGTAATTGGATTCTATTCCCCGTATATATGTACATATATAAACAAAACTCGAC
*
154580 TTTGAAGCTATTGAGTGAAAATTGACGGCTTAGATTAACTCTTTGTTTTCTCATGAATATCTTCT
1 TTTGAAGCTATTGAGTGAAAATTGACGGCTTAGATTAACTCTTTGTTTTCTCGTGAATATCTTCT
*
154645 CATTTCCTAATCCCTAGGGTTAATCTCAATATATTTACATTCATCCCACAATCTTAAATCTGTAT
66 CATTTCCTAATCCCTAGGGTTAATCTCAATATATTTACATTCATCCCACAATCTTAAATCTGTAC
* *
154710 ATTGTGTAATTGGATTCTATTCCCCATGTATATGTACATATATAAACAAAACTCGAC
131 ATTGTGTAATTGGATTCTATTCCCCGTATATATGTACATATATAAACAAAACTCGAC
*
154767 TTTGAAGCTATTGAGTGAAAATTGACGGCTTAGATTAACTCTTTGTTTTCTCGTAAATATCTTCT
1 TTTGAAGCTATTGAGTGAAAATTGACGGCTTAGATTAACTCTTTGTTTTCTCGTGAATATCTTCT
* * *
154832 CATTTCCTAATCTCTAGGGTTAATCTCAATCTATTTATATTCATCCCACAATCTTAAATCTGTAC
66 CATTTCCTAATCCCTAGGGTTAATCTCAATATATTTACATTCATCCCACAATCTTAAATCTGTAC
154897 ATTGTGTAATTGGATTCTATTCCCCGTATATATGTACATATATAAACAAAACTCGAC
131 ATTGTGTAATTGGATTCTATTCCCCGTATATATGTACATATATAAACAAAACTCGAC
154954 TTTGAAGCTATTGAGT
1 TTTGAAGCTATTGAGT
154970 ACTTGCCCAT
Statistics
Matches: 370, Mismatches: 18, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
185 68 0.18
186 1 0.00
187 301 0.81
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.39
Consensus pattern (187 bp):
TTTGAAGCTATTGAGTGAAAATTGACGGCTTAGATTAACTCTTTGTTTTCTCGTGAATATCTTCT
CATTTCCTAATCCCTAGGGTTAATCTCAATATATTTACATTCATCCCACAATCTTAAATCTGTAC
ATTGTGTAATTGGATTCTATTCCCCGTATATATGTACATATATAAACAAAACTCGAC
Found at i:159932 original size:23 final size:23
Alignment explanation
Indices: 159899--159945 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
159889 GAGGTTTTTT
*
159899 TCTCCTCCAAAAGCTTATGTTGC
1 TCTCCTCCAAAAGCTAATGTTGC
*
159922 TCTCCTTCAAAAGCTAATGTTGC
1 TCTCCTCCAAAAGCTAATGTTGC
159945 T
1 T
159946 GCATGTTGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.23, C:0.28, G:0.13, T:0.36
Consensus pattern (23 bp):
TCTCCTCCAAAAGCTAATGTTGC
Found at i:163482 original size:31 final size:31
Alignment explanation
Indices: 163437--163514 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 31
163427 TTGTAAAATT
* *
163437 TTTGATAAAATTTAATGATTATTTTGTAA-CA
1 TTTGAT-AAATTTAATGATCAATTTGTAATCA
163468 GTTTGATAAATTTAATGATCAATTTGTAATCA
1 -TTTGATAAATTTAATGATCAATTTGTAATCA
*
163500 TTTGATAACTTTAAT
1 TTTGATAAATTTAAT
163515 CATTTTGTAA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
31 34 0.81
32 8 0.19
ACGTcount: A:0.37, C:0.05, G:0.10, T:0.47
Consensus pattern (31 bp):
TTTGATAAATTTAATGATCAATTTGTAATCA
Found at i:163531 original size:18 final size:17
Alignment explanation
Indices: 163494--163528 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
163484 GATCAATTTG
163494 TAATCATTTGATAACTT
1 TAATCATTTGATAACTT
163511 TAATCATTTTG-TAACTT
1 TAATCA-TTTGATAACTT
163528 T
1 T
163529 TAAAAGTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.31, C:0.11, G:0.06, T:0.51
Consensus pattern (17 bp):
TAATCATTTGATAACTT
Found at i:165519 original size:18 final size:19
Alignment explanation
Indices: 165488--165532 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
165478 ATACGAAAGT
165488 TTTA-AAAAATTTAA-AAA
1 TTTATAAAAATTTAATAAA
*
165505 TTTATTAAAAA-TTAATACA
1 TTTA-TAAAAATTTAATAAA
165524 TTTATAAAA
1 TTTATAAAA
165533 TTGTCACTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
17 4 0.17
18 9 0.38
19 11 0.46
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (19 bp):
TTTATAAAAATTTAATAAA
Found at i:166671 original size:3 final size:3
Alignment explanation
Indices: 166658--166693 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
166648 ATGGTAAGTG
*
166658 AAT AA- AAT AAT AAT AAT AAT ACT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
166694 TATTATTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:167089 original size:20 final size:20
Alignment explanation
Indices: 166995--167363 Score: 449
Period size: 20 Copynumber: 18.4 Consensus size: 20
166985 GATTTTCCAT
* ** *
166995 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
167015 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
167035 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
167055 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
167075 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
167095 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
167115 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
167135 AATCGCAACGCGTATCCTTA
1 AATCGCAACGCGTATCCGTA
* *
167155 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
167175 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
167195 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
167215 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
167235 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
167255 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
167275 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
167295 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
167315 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
167335 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
167355 AATCACAAC
1 AATCGCAAC
167364 ACTGAAATTT
Statistics
Matches: 303, Mismatches: 38, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
19 3 0.01
20 297 0.98
21 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:168076 original size:24 final size:24
Alignment explanation
Indices: 168037--168083 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
168027 AAATTTGGTC
168037 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
168061 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
168084 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:168275 original size:12 final size:12
Alignment explanation
Indices: 168258--168282 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
168248 ATATAATCCT
168258 GAAGAAGAAAAA
1 GAAGAAGAAAAA
168270 GAAGAAGAAAAA
1 GAAGAAGAAAAA
168282 G
1 G
168283 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:170609 original size:19 final size:19
Alignment explanation
Indices: 170587--170911 Score: 396
Period size: 19 Copynumber: 18.4 Consensus size: 19
170577 CGGAAAATAC
*
170587 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
170606 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
170620 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
170640 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
170654 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
170673 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
170692 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
170706 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
170725 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
170744 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
170758 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
170777 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
170796 AATCGCAATACGAAATGAA
1 AATCGCAATGCGAAATGAA
170815 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
170834 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
170853 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
170867 AATCGCAATGCGAAATG-A
1 AATCGCAATGCGAAATGAA
170885 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
170904 AATCGCAA
1 AATCGCAA
170912 CGAGATAATC
Statistics
Matches: 268, Mismatches: 12, Indels: 52
0.81 0.04 0.16
Matches are distributed among these distances:
14 50 0.19
15 3 0.01
16 13 0.05
17 12 0.04
18 21 0.08
19 156 0.58
20 13 0.05
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:170674 original size:33 final size:34
Alignment explanation
Indices: 170587--170911 Score: 312
Period size: 33 Copynumber: 9.2 Consensus size: 34
170577 CGGAAAATAC
* *
170587 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
*
170620 AATCGCAATGCGGAAATGAAAATCGCAACGA-GAG
1 AATCGCAATGC-GAAATGAAAATCGCAACGATGAA
170654 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
*
170692 AATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
*
170725 AATCGCAATGCGAAATGAAAATCGCAACGA-GAG
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
*
170758 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
*
170796 AATCGCAATACGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
170834 AATCGCAATGCGAAATGAAAATCGCAACGA--AA
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
170866 GAATCGCAATGCGAAATG-AAATCGCAATGCGAAATGAA
1 -AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
170904 AATCGCAA
1 AATCGCAA
170912 CGAGATAATC
Statistics
Matches: 256, Mismatches: 12, Indels: 44
0.82 0.04 0.14
Matches are distributed among these distances:
32 11 0.04
33 101 0.39
34 34 0.13
35 7 0.03
36 7 0.03
37 11 0.04
38 85 0.33
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (34 bp):
AATCGCAATGCGAAATGAAAATCGCAACGATGAA
Found at i:170702 original size:52 final size:52
Alignment explanation
Indices: 170615--170933 Score: 541
Period size: 52 Copynumber: 6.0 Consensus size: 52
170605 AAATCCCAAC
170615 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
170668 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
170720 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
* *
170772 ATGAAAATCGCAATGCGAAATTAAAATCGCAATACGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGC-A-ACG--A-GAGAATCGCAATGCGAA
*
170829 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
170881 ATG-AAATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
170932 AT
1 AT
170934 TATAAACGCA
Statistics
Matches: 254, Mismatches: 7, Indels: 12
0.93 0.03 0.04
Matches are distributed among these distances:
51 48 0.19
52 135 0.53
53 18 0.07
54 3 0.01
55 3 0.01
56 2 0.01
57 45 0.18
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.15
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:170738 original size:71 final size:70
Alignment explanation
Indices: 170654--170933 Score: 345
Period size: 71 Copynumber: 4.0 Consensus size: 70
170644 GCAACGAGAG
170654 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGA-AATCGCAATGCGA
170719 AATGAA
65 AATGAA
* * * * *
170725 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCG-CAATGCGAAATGA-AAATCGCAATGC
1 AATCGCAATGCGAAATGAAAATCGCAATGCGA-AAT-GAAAAT-CGCAACGAGAAATCGCAATGC
*
170788 GAAATTAA
63 GAAATGAA
* * * * *
170796 AATCGCAATACGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAAT-GAAAAT-CGC
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAAATCG-CAATGCGA
*
170859 AACGAAA
65 AATG-AA
170866 GAATCGCAATGCGAAATG-AAATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCG
1 -AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGA-AATCGCAATGCG
170930 AAAT
64 AAAT
170934 TATAAACGCA
Statistics
Matches: 176, Mismatches: 22, Indels: 21
0.80 0.10 0.10
Matches are distributed among these distances:
69 12 0.07
70 46 0.26
71 99 0.56
72 12 0.07
73 7 0.04
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (70 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAAATCGCAATGCGAA
ATGAA
Found at i:171049 original size:19 final size:19
Alignment explanation
Indices: 170940--171041 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
170930 AAATTATAAA
170940 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
170959 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
170979 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
170995 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
171012 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
171031 CGCATTGCGAT
1 CGCATTGCGAT
171042 AGTCATTTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 36 0.48
20 19 0.25
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:171167 original size:14 final size:14
Alignment explanation
Indices: 171148--171184 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
171138 CATCAATTAC
171148 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
171162 ACAAATCATCTTTT
1 ACAAATCAACTTTT
171176 ACAAATCAA
1 ACAAATCAA
171185 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:171196 original size:12 final size:12
Alignment explanation
Indices: 171179--171251 Score: 53
Period size: 12 Copynumber: 6.0 Consensus size: 12
171169 ATCTTTTACA
171179 AATCAATTAAAC
1 AATCAATTAAAC
*
171191 AATCAA--AAATTG
1 AATCAATTAAA--C
**
171203 AATCAACTTTTAC
1 AATCAA-TTAAAC
171216 AAATCAATTAAAC
1 A-ATCAATTAAAC
*
171229 AATCAA-AAAAC
1 AATCAATTAAAC
171240 AATCAATTAAAC
1 AATCAATTAAAC
171252 TATTGAATCA
Statistics
Matches: 46, Mismatches: 8, Indels: 14
0.68 0.12 0.21
Matches are distributed among these distances:
10 3 0.07
11 10 0.22
12 21 0.46
13 6 0.13
14 5 0.11
15 1 0.02
ACGTcount: A:0.58, C:0.16, G:0.01, T:0.25
Consensus pattern (12 bp):
AATCAATTAAAC
Found at i:171213 original size:38 final size:38
Alignment explanation
Indices: 171165--171237 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
171155 AACTTTTACA
*
171165 AATCATCTTTTACAAATCAATTAAACAATCAAAAATTG
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAATTG
171203 AATCAACTTTTACAAATCAATTAAACAATCAAAAA
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAA
171238 ACAATCAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.53, C:0.16, G:0.01, T:0.29
Consensus pattern (38 bp):
AATCAACTTTTACAAATCAATTAAACAATCAAAAATTG
Found at i:173128 original size:14 final size:14
Alignment explanation
Indices: 173109--173165 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
173099 GCGAAATGAA
*
173109 AATCGCAACGACAG
1 AATCGCAACGAAAG
173123 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
173140 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
173156 AATCGCAACG
1 AATCGCAACG
173166 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:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:173136 original size:33 final size:33
Alignment explanation
Indices: 173090--173182 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
173080 GAGAAACCAA
*
173090 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
173123 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
173156 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
173183 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:173147 original size:19 final size:19
Alignment explanation
Indices: 173053--173187 Score: 119
Period size: 19 Copynumber: 7.6 Consensus size: 19
173043 TAGTTTACTT
* *
173053 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
* **
173073 TCGCAACGAGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
173092 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
173111 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
173125 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
173144 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
173158 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
173177 TCGCAATGCGA
1 TCGCAACGCGA
173188 TTTTGGTTTC
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 16 0.17
16 11 0.12
17 11 0.12
19 46 0.48
20 11 0.12
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:173205 original size:19 final size:19
Alignment explanation
Indices: 173183--173311 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
173173 AAAATCGCAA
173183 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
173202 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
173216 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
173235 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
173249 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
173268 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
173287 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
173307 TGCGA
1 TGCGA
173312 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:173225 original size:33 final size:33
Alignment explanation
Indices: 173183--173274 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
173173 AAAATCGCAA
173183 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
173216 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
173249 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
173275 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:173514 original size:93 final size:93
Alignment explanation
Indices: 173355--173733 Score: 744
Period size: 93 Copynumber: 4.1 Consensus size: 93
173345 TTGAATGGAT
173355 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
173420 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
173448 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
173513 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
173541 AAATTTACTTTCAACC-AAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
173604 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
173632 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
173697 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
173725 AAATTTACT
1 AAATTTACT
173734 AAGCAATCTA
Statistics
Matches: 284, Mismatches: 0, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
91 69 0.24
92 44 0.15
93 171 0.60
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:173666 original size:184 final size:186
Alignment explanation
Indices: 173355--173733 Score: 744
Period size: 184 Copynumber: 2.0 Consensus size: 186
173345 TTGAATGGAT
173355 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
173420 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
173485 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
173541 AAATTTACTTTCAACC-AAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
173604 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
173669 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
173725 AAATTTACT
1 AAATTTACT
173734 AAGCAATCTA
Statistics
Matches: 193, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
184 155 0.80
185 22 0.11
186 16 0.08
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (186 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:177616 original size:2 final size:2
Alignment explanation
Indices: 177611--177660 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
177601 TAATTTAATC
177611 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
177653 AT AT AT AT
1 AT AT AT AT
177661 GTGTGTGTGT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:178181 original size:14 final size:14
Alignment explanation
Indices: 178162--178188 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
178152 AAGTGAAAGA
178162 ATAGTTATATAATC
1 ATAGTTATATAATC
178176 ATAGTTATATAAT
1 ATAGTTATATAAT
178189 TTTGTTATGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.44
Consensus pattern (14 bp):
ATAGTTATATAATC
Found at i:185136 original size:2 final size:2
Alignment explanation
Indices: 185129--185163 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
185119 GTTAATACAT
185129 TA TA TA 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 TA TA TA T
185164 TGTGTGTGTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:185169 original size:2 final size:2
Alignment explanation
Indices: 185164--185200 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
185154 ATATATATAT
*
185164 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TA TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
185201 TTTTTTTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.03, C:0.00, G:0.46, T:0.51
Consensus pattern (2 bp):
TG
Found at i:185258 original size:45 final size:45
Alignment explanation
Indices: 185190--185286 Score: 151
Period size: 45 Copynumber: 2.2 Consensus size: 45
185180 TGTGTGTGTG
* * *
185190 TGTGTATGTGTTTTTTTTATTTATTTATTTATGTATGTATATATA
1 TGTGTGTGTGTTGTTTTTATTTATTTATGTATGTATGTATATATA
185235 TGTGTGTGTGTATGTTTTT-TTTATTTATGTATGTATGTATATATA
1 TGTGTGTGTGT-TGTTTTTATTTATTTATGTATGTATGTATATATA
185280 TGTGTGT
1 TGTGTGT
185287 ATATATATTA
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
45 42 0.88
46 6 0.12
ACGTcount: A:0.20, C:0.00, G:0.19, T:0.62
Consensus pattern (45 bp):
TGTGTGTGTGTTGTTTTTATTTATTTATGTATGTATGTATATATA
Found at i:185287 original size:14 final size:14
Alignment explanation
Indices: 185264--185298 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
185254 TTTATTTATG
185264 TATGTATGTATATA
1 TATGTATGTATATA
*
185278 TATGTGTGTATATA
1 TATGTATGTATATA
185292 TAT-TATG
1 TATGTATG
185299 AAAAAAAGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 3 0.16
14 16 0.84
ACGTcount: A:0.31, C:0.00, G:0.17, T:0.51
Consensus pattern (14 bp):
TATGTATGTATATA
Found at i:185434 original size:37 final size:36
Alignment explanation
Indices: 185361--185442 Score: 130
Period size: 36 Copynumber: 2.2 Consensus size: 36
185351 TGAAGATGTT
*
185361 TTATGAAACCTTTAATAAGAAAAATATCCAATTTTC
1 TTATGAAACCTTTAATAAGAAAAATATCCAAATTTC
185397 TTATGAAACCTTTAATAAGAAAAA-ATGCCCAAATTTC
1 TTATGAAACCTTTAATAAGAAAAATAT--CCAAATTTC
185434 TTATGAAAC
1 TTATGAAAC
185443 ATAAATTGGT
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
35 2 0.05
36 24 0.56
37 17 0.40
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.33
Consensus pattern (36 bp):
TTATGAAACCTTTAATAAGAAAAATATCCAAATTTC
Found at i:186610 original size:3 final size:3
Alignment explanation
Indices: 186604--186635 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
186594 AAGTAAAATC
186604 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
186636 TTTATTATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:187215 original size:17 final size:17
Alignment explanation
Indices: 187193--187231 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
187183 TGAATCAAAT
187193 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
187210 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
187227 -AATTA
1 TAATTA
187232 ATAGTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (17 bp):
TAATTAGATATTATTTA
Found at i:187471 original size:11 final size:10
Alignment explanation
Indices: 187455--187545 Score: 64
Period size: 11 Copynumber: 8.9 Consensus size: 10
187445 TTTATAAATA
187455 TAATAATAGTT
1 TAATAATA-TT
187466 TAATAATATT
1 TAATAATATT
187476 GTAATTAAT-TT
1 -TAA-TAATATT
187487 TAATATATATT
1 TAATA-ATATT
**
187498 TTGTAATATTT
1 TAATAATA-TT
187509 TAATAA-ATT
1 TAATAATATT
*
187518 TAATATTTATT
1 TAATA-ATATT
*
187529 TTATAAT-TT
1 TAATAATATT
187538 TAA-AATAT
1 TAATAATAT
187546 AAAATTATTA
Statistics
Matches: 64, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
8 3 0.05
9 14 0.22
10 12 0.19
11 31 0.48
12 4 0.06
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (10 bp):
TAATAATATT
Found at i:187523 original size:31 final size:31
Alignment explanation
Indices: 187443--187535 Score: 98
Period size: 31 Copynumber: 3.0 Consensus size: 31
187433 TAATCAATTT
* * *
187443 TTTTTATAAATATAATA-ATAGTTTAATAATA
1 TTTTAATAAATTTAATATATA-TTTTATAATA
* * *
187474 TTGTAATTAATTTTAATATATATTTTGTAATA
1 TTTTAA-TAAATTTAATATATATTTTATAATA
*
187506 TTTTAATAAATTTAATATTTATTTTATAAT
1 TTTTAATAAATTTAATATATATTTTATAAT
187536 TTTAAAATAT
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
31 25 0.50
32 22 0.44
33 3 0.06
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (31 bp):
TTTTAATAAATTTAATATATATTTTATAATA
Found at i:191650 original size:38 final size:39
Alignment explanation
Indices: 191607--191680 Score: 114
Period size: 38 Copynumber: 1.9 Consensus size: 39
191597 AATTCTTTAA
* *
191607 TTTTATATAGATTTAAGACCATTGGATAAGT-AAAAGAG
1 TTTTATATAGATTTAAAACCATTCGATAAGTGAAAAGAG
*
191645 TTTTATATAGATTTAAAATCATTCGATAAGTGAAAA
1 TTTTATATAGATTTAAAACCATTCGATAAGTGAAAA
191681 TAGGTTGTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
38 28 0.88
39 4 0.12
ACGTcount: A:0.43, C:0.05, G:0.15, T:0.36
Consensus pattern (39 bp):
TTTTATATAGATTTAAAACCATTCGATAAGTGAAAAGAG
Found at i:197551 original size:90 final size:90
Alignment explanation
Indices: 197398--197563 Score: 287
Period size: 90 Copynumber: 1.8 Consensus size: 90
197388 GTTTCCAGAT
* *
197398 TCGCAACGCGAATTTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTTCAAGTTCG
1 TCGCAACGCGAACTTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCG
197463 CGTTACGATTTTCCAAATTCGACTA
66 CGTTACGATTTTCCAAATTCGACTA
* *
197488 TCGCAACGCGAACTTCGACTATCGCATTGCGATTTATATATTTGCATTGCGATAGTCCAAGTTCG
1 TCGCAACGCGAACTTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCG
*
197553 CGTTGCGATTT
66 CGTTACGATTT
197564 ATTCTAAATT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
90 71 1.00
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (90 bp):
TCGCAACGCGAACTTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCG
CGTTACGATTTTCCAAATTCGACTA
Found at i:197577 original size:21 final size:21
Alignment explanation
Indices: 197553--197603 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
197543 TCCAAGTTCG
*
197553 CGTTGCGATTTATTCTAAATT
1 CGTTGCGATTTATTCCAAATT
197574 CGTTGCGATTTATTCCAAATT
1 CGTTGCGATTTATTCCAAATT
197595 CGTTGCGAT
1 CGTTGCGAT
197604 AGTCCAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.43
Consensus pattern (21 bp):
CGTTGCGATTTATTCCAAATT
Found at i:198305 original size:21 final size:21
Alignment explanation
Indices: 198279--198411 Score: 121
Period size: 21 Copynumber: 6.3 Consensus size: 21
198269 CTTCGACTAC
198279 CGCAACGAACTTGGAATAAAT
1 CGCAACGAACTTGGAATAAAT
* *
198300 CGCAACGCGAACTTTGACT--AT
1 CGCAA--CGAACTTGGAATAAAT
*
198321 CGCAACGAATTTGGAATAAAT
1 CGCAACGAACTTGGAATAAAT
* *
198342 CGCAACGCGAACATGGACT--AT
1 CGCAA--CGAACTTGGAATAAAT
* *
198363 CGCAACGAATTTGAAATAAAT
1 CGCAACGAACTTGGAATAAAT
* *
198384 CGCAACGAATTTAGAATAAAT
1 CGCAACGAACTTGGAATAAAT
198405 CGCAACG
1 CGCAACG
198412 CGAACTTCGA
Statistics
Matches: 90, Mismatches: 14, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
19 17 0.19
21 54 0.60
23 19 0.21
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.20
Consensus pattern (21 bp):
CGCAACGAACTTGGAATAAAT
Found at i:198325 original size:42 final size:42
Alignment explanation
Indices: 198264--198390 Score: 200
Period size: 42 Copynumber: 3.0 Consensus size: 42
198254 TCACACTATT
* *
198264 GCGAACTTCGACTACCGCAACGAACTTGGAATAAATCGCAAC
1 GCGAACTTCGACTATCGCAACGAATTTGGAATAAATCGCAAC
*
198306 GCGAACTTTGACTATCGCAACGAATTTGGAATAAATCGCAAC
1 GCGAACTTCGACTATCGCAACGAATTTGGAATAAATCGCAAC
* * *
198348 GCGAACATGGACTATCGCAACGAATTTGAAATAAATCGCAAC
1 GCGAACTTCGACTATCGCAACGAATTTGGAATAAATCGCAAC
198390 G
1 G
198391 AATTTAGAAT
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 79 1.00
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.20
Consensus pattern (42 bp):
GCGAACTTCGACTATCGCAACGAATTTGGAATAAATCGCAAC
Done.