Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007822.1 Hibiscus syriacus cultivar Beakdansim tig00110159_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: 1828853
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 10
Found at i:844384 original size:99 final size:97
Alignment explanation
Indices: 844280--844578 Score: 438
Period size: 99 Copynumber: 3.0 Consensus size: 97
844270 CATTATTATT
* * * * * * * * *
844280 ATAATTTCATTATTATTAATAATTACTAATCATTATTATTATAATTTCATTATTA-TTAATAATT
1 ATAATTTCATTATTACTAATCATTACT-ATCA-AATCATTA-AATTTAATAATAATTTCATTATT
*
844344 ACTAATCATTACTATCAAATAATTAAATATTAATA
63 ACTAATCATTACTATCAAATCATTAAATATTAATA
844379 ATAATTTCATTATTACTAATCATTACTATCAAATCATTAAATATTTAATAATAATTTCATTATTA
1 ATAATTTCATTATTACTAATCATTACTATCAAATCATT-AA-ATTTAATAATAATTTCATTATTA
844444 CTAATCATTACTATCAAATCATTAAATATTAATA
64 CTAATCATTACTATCAAATCATTAAATATTAATA
844478 ATAATTTCATTATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTAC
1 ATAATTTCATTATTACTAATCATTACTATCAAATCATTAAAT-TTAATAATAATTTCATTATTAC
*
844543 TAATCATTATTATCAAATCATTAAATATTAATA
65 TAATCATTACTATCAAATCATTAAATATTAATA
844576 ATA
1 ATA
844579 GATGGGTGCC
Statistics
Matches: 185, Mismatches: 11, Indels: 9
0.90 0.05 0.04
Matches are distributed among these distances:
97 8 0.04
98 73 0.39
99 104 0.56
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (97 bp):
ATAATTTCATTATTACTAATCATTACTATCAAATCATTAAATTTAATAATAATTTCATTATTACT
AATCATTACTATCAAATCATTAAATATTAATA
Found at i:844396 original size:49 final size:49
Alignment explanation
Indices: 844280--844578 Score: 449
Period size: 49 Copynumber: 6.1 Consensus size: 49
844270 CATTATTATT
* * * * * *
844280 ATAATTTCATTATTATTAATAATTACTAATCATTATTATTATAAT-TTCATT
1 ATAATTTCATTATTACTAATCATTACT-ATCA-AATCATTA-AATATTAATA
* * * *
844331 ATTA-TTAATAATTACTAATCATTACTATCAAATAATTAAATATTAATA
1 ATAATTTCATTATTACTAATCATTACTATCAAATCATTAAATATTAATA
844379 ATAATTTCATTATTACTAATCATTACTATCAAATCATTAAATATTTAATA
1 ATAATTTCATTATTACTAATCATTACTATCAAATCATTAAATA-TTAATA
844429 ATAATTTCATTATTACTAATCATTACTATCAAATCATTAAATATTAATA
1 ATAATTTCATTATTACTAATCATTACTATCAAATCATTAAATATTAATA
844478 ATAATTTCATTATTACTAATCATTACTATCAAATCATTAAATATTAATA
1 ATAATTTCATTATTACTAATCATTACTATCAAATCATTAAATATTAATA
*
844527 ATAATTTCATTATTACTAATCATTATTATCAAATCATTAAATATTAATA
1 ATAATTTCATTATTACTAATCATTACTATCAAATCATTAAATATTAATA
844576 ATA
1 ATA
844579 GATGGGTGCC
Statistics
Matches: 231, Mismatches: 14, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
47 3 0.01
48 13 0.06
49 145 0.63
50 67 0.29
51 3 0.01
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (49 bp):
ATAATTTCATTATTACTAATCATTACTATCAAATCATTAAATATTAATA
Found at i:844487 original size:22 final size:22
Alignment explanation
Indices: 844462--844538 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
844452 TACTATCAAA
844462 TCATTAAATATTAATAATAATT
1 TCATTAAATATTAATAATAATT
* *
844484 TCATTATTACTAATCATTACT-ATCAA-A
1 TC---ATTA--AAT-ATTAATAAT-AATT
844511 TCATTAAATATTAATAATAATT
1 TCATTAAATATTAATAATAATT
844533 TCATTA
1 TCATTA
844539 TTACTAATCA
Statistics
Matches: 42, Mismatches: 4, Indels: 18
0.66 0.06 0.28
Matches are distributed among these distances:
21 7 0.17
22 13 0.31
24 4 0.10
25 4 0.10
27 7 0.17
28 7 0.17
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.44
Consensus pattern (22 bp):
TCATTAAATATTAATAATAATT
Found at i:844517 original size:148 final size:148
Alignment explanation
Indices: 844280--844578 Score: 451
Period size: 148 Copynumber: 2.0 Consensus size: 148
844270 CATTATTATT
* * * * * *
844280 ATAATTTCATTATTATTAATAATTACTAATCATTATTATTATAATTTCATTATTATTAATAATTA
1 ATAATTTCATTATTACTAATAATTACTAATCATAATCATTATAATTTAATAATAATTAATAATTA
844345 CTAATCATTACTATCAAATAATTAAATATTAATAATAATTTCATTATTACTAATCATTACTATCA
66 CTAATCATTACTATCAAATAATTAAATATTAATAATAATTTCATTATTACTAATCATTACTATCA
844410 AATCATTAAATATTTAATA
131 AATCATTAAATA-TTAATA
* * *
844429 ATAATTTCATTATTACTAATCATTACT-ATCA-AATCATTA-AATATTAATAATAATTTCATTAT
1 ATAATTTCATTATTACTAATAATTACTAATCATAATCATTATAAT-TTAATAATAA-TTAATAAT
* *
844491 TACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTATTAT
64 TACTAATCATTACTATCAAATAATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAT
844556 CAAATCATTAAATATTAATA
129 CAAATCATTAAATATTAATA
844576 ATA
1 ATA
844579 GATGGGTGCC
Statistics
Matches: 137, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
146 3 0.02
147 22 0.16
148 87 0.64
149 25 0.18
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (148 bp):
ATAATTTCATTATTACTAATAATTACTAATCATAATCATTATAATTTAATAATAATTAATAATTA
CTAATCATTACTATCAAATAATTAAATATTAATAATAATTTCATTATTACTAATCATTACTATCA
AATCATTAAATATTAATA
Found at i:844551 original size:13 final size:14
Alignment explanation
Indices: 844533--844565 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
844523 AATAATAATT
*
844533 TCATTATTA-CTAA
1 TCATTATTATCAAA
844546 TCATTATTATCAAA
1 TCATTATTATCAAA
844560 TCATTA
1 TCATTA
844566 AATATTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.39, C:0.15, G:0.00, T:0.45
Consensus pattern (14 bp):
TCATTATTATCAAA
Found at i:847565 original size:26 final size:24
Alignment explanation
Indices: 847505--847565 Score: 59
Period size: 26 Copynumber: 2.4 Consensus size: 24
847495 TACTAATATT
*
847505 ATTAATAATGATTTAATAATTATT
1 ATTAATAATGATTTAATAATTATG
* *
847529 ATTAATCTAATGATTTGATATTTAATG
1 ATTAA--TAATGATTTAATAATT-ATG
847556 ATTTAATAAT
1 A-TTAATAAT
847566 AATATGATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
24 5 0.17
26 18 0.60
27 3 0.10
28 4 0.13
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.49
Consensus pattern (24 bp):
ATTAATAATGATTTAATAATTATG
Found at i:847945 original size:14 final size:14
Alignment explanation
Indices: 847926--847953 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
847916 CACATACACA
847926 ACAACAAAAAATAG
1 ACAACAAAAAATAG
847940 ACAACAAAAAATAG
1 ACAACAAAAAATAG
847954 TAAATTACTC
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:0.71, C:0.14, G:0.07, T:0.07
Consensus pattern (14 bp):
ACAACAAAAAATAG
Found at i:848327 original size:42 final size:45
Alignment explanation
Indices: 848271--848375 Score: 114
Period size: 42 Copynumber: 2.4 Consensus size: 45
848261 GTTTAAAGAC
* * * *
848271 ACTAACAAATTAATTAATATTT-TTTTATAT-TTA-ATAACTTAA
1 ACTAACAAACTAATTAATATTTATATAATATAATATATAACTTAA
*
848313 ACTAATAAACTAATT--T-TTTATATAATATAATATATAACTTAA
1 ACTAACAAACTAATTAATATTTATATAATATAATATATAACTTAA
848355 ACTAACAAACTAATATAATAT
1 ACTAACAAACTAAT-TAATAT
848376 AACTTAAACT
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
39 3 0.06
40 7 0.14
41 2 0.04
42 35 0.70
43 1 0.02
45 1 0.02
46 1 0.02
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.42
Consensus pattern (45 bp):
ACTAACAAACTAATTAATATTTATATAATATAATATATAACTTAA
Found at i:848376 original size:28 final size:30
Alignment explanation
Indices: 848335--848397 Score: 112
Period size: 28 Copynumber: 2.2 Consensus size: 30
848325 ATTTTTTATA
848335 TAATATAATATATAACTTAAACTAACAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
848365 TAATAT-A-ATATAACTTAAACTAACAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
848393 TAATA
1 TAATA
848398 ATTTATACTA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 26 0.79
29 1 0.03
30 6 0.18
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (30 bp):
TAATATAATATATAACTTAAACTAACAAAC
Found at i:848404 original size:28 final size:28
Alignment explanation
Indices: 848339--848404 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
848329 TTTATATAAT
848339 ATAATATATAACTTAAACTAACAAACTA
1 ATAATATATAACTTAAACTAACAAACTA
848367 AT-ATAATATAACTTAAACTAACAAACTA
1 ATAAT-ATATAACTTAAACTAACAAACTA
*
848395 ATAATTTATA
1 ATAATATATA
848405 CTAACAAACT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
27 2 0.06
28 31 0.89
29 2 0.06
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (28 bp):
ATAATATATAACTTAAACTAACAAACTA
Found at i:848407 original size:21 final size:21
Alignment explanation
Indices: 848374--848422 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
848364 CTAATATAAT
848374 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
* *
848395 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
848416 ATTAACT
1 A-TAACT
848423 AGATTTTAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:848604 original size:24 final size:24
Alignment explanation
Indices: 848570--848628 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
848560 AGTTTATATG
*
848570 TGCTTATGCTTATGCTCCTGGATC
1 TGCTTATGCTTATGCTCCTGAATC
*
848594 TTCTTATGCTTATGCTCCTGAATC
1 TGCTTATGCTTATGCTCCTGAATC
*
848618 TGCTTCTGCTT
1 TGCTTATGCTT
848629 CTACCCTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.12, C:0.25, G:0.17, T:0.46
Consensus pattern (24 bp):
TGCTTATGCTTATGCTCCTGAATC
Found at i:849147 original size:29 final size:29
Alignment explanation
Indices: 849115--849242 Score: 204
Period size: 29 Copynumber: 4.4 Consensus size: 29
849105 CCGAGCTTGT
*
849115 ATGGCGACCTATAAGGACGCTGGGCT-TGC
1 ATGGCGACCTATAAGGACGCCGGG-TGTGC
*
849144 ATGGCGACCTATAAAGACGCCGGGTGTGC
1 ATGGCGACCTATAAGGACGCCGGGTGTGC
*
849173 AGGGCGACCTATAAGGACGCCGGGTGTGC
1 ATGGCGACCTATAAGGACGCCGGGTGTGC
*
849202 ATGGCGACCTATAAGGACGTCGGGTGTGC
1 ATGGCGACCTATAAGGACGCCGGGTGTGC
849231 ATGGCGACCTAT
1 ATGGCGACCTAT
849243 GTTGGTTCGT
Statistics
Matches: 92, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
28 1 0.01
29 91 0.99
ACGTcount: A:0.22, C:0.23, G:0.36, T:0.19
Consensus pattern (29 bp):
ATGGCGACCTATAAGGACGCCGGGTGTGC
Found at i:850792 original size:11 final size:11
Alignment explanation
Indices: 850776--850806 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
850766 ATGAATTAAG
850776 ATTAATTTTAT
1 ATTAATTTTAT
850787 ATTAATTTTAT
1 ATTAATTTTAT
850798 ATTAATTTT
1 ATTAATTTT
850807 CATACTGACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
ATTAATTTTAT
Found at i:851398 original size:20 final size:20
Alignment explanation
Indices: 851369--851413 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
851359 ATTAAAGATG
* *
851369 ATACATAACTTATAGTTTAA
1 ATACAGAACTTATAGTTAAA
851389 ATACAGAACTTATAGTTAAA
1 ATACAGAACTTATAGTTAAA
851409 ATACA
1 ATACA
851414 AAACGCATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.49, C:0.11, G:0.07, T:0.33
Consensus pattern (20 bp):
ATACAGAACTTATAGTTAAA
Found at i:870643 original size:3 final size:3
Alignment explanation
Indices: 870635--870667 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
870625 TATTTATATA
*
870635 ATT ATT ATT ATT ATT ATT ATA ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
870668 TAATATTACA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:872865 original size:32 final size:29
Alignment explanation
Indices: 872797--872865 Score: 68
Period size: 30 Copynumber: 2.3 Consensus size: 29
872787 TCTTTTCAAA
872797 ATTTT-TTTTATATATACTTATTATTTTC
1 ATTTTATTTTATATATACTTATTATTTTC
** * *
872825 ATAGTATTTATATATTTTCTTATTAATATTTC
1 ATTTTATTT-TATATATACTTATT-AT-TTTC
872857 ATTTTATTT
1 ATTTTATTT
872866 GCAAATATTT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
28 3 0.10
29 3 0.10
30 12 0.39
31 2 0.06
32 11 0.35
ACGTcount: A:0.28, C:0.06, G:0.01, T:0.65
Consensus pattern (29 bp):
ATTTTATTTTATATATACTTATTATTTTC
Found at i:876155 original size:15 final size:15
Alignment explanation
Indices: 876135--876166 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
876125 TCAATACCTT
876135 TTTTGCATACATGCA
1 TTTTGCATACATGCA
*
876150 TTTTGCATACATTCA
1 TTTTGCATACATGCA
876165 TT
1 TT
876167 ATTCATTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATGCA
Found at i:883519 original size:11 final size:11
Alignment explanation
Indices: 883503--883566 Score: 56
Period size: 11 Copynumber: 5.5 Consensus size: 11
883493 GAAGAAGAAA
883503 AAAAAAGAGAG
1 AAAAAAGAGAG
*
883514 AAAAAAGAAAAGAA
1 AAAAAAG---AGAG
883528 AAAAAAGAGAG
1 AAAAAAGAGAG
*
883539 AAAAAAGAAAAG
1 AAAAAAG-AGAG
* *
883551 AAAAAAAAAAG
1 AAAAAAGAGAG
883562 AAAAA
1 AAAAA
883567 GTCAAGGTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
11 26 0.58
12 9 0.20
14 10 0.22
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (11 bp):
AAAAAAGAGAG
Found at i:883519 original size:16 final size:14
Alignment explanation
Indices: 883514--883560 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 14
883504 AAAAAGAGAG
883514 AAAAAAGAAAAGAAA
1 AAAAAAGAAAA-AAA
*
883529 AAAAAGAGAGAAAAA
1 AAAAA-AGAAAAAAA
*
883544 AGAAAAGAAAAAAA
1 AAAAAAGAAAAAAA
883558 AAA
1 AAA
883561 GAAAAAGTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
14 10 0.37
15 12 0.44
16 5 0.19
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (14 bp):
AAAAAAGAAAAAAA
Found at i:883530 original size:27 final size:26
Alignment explanation
Indices: 883491--883566 Score: 122
Period size: 25 Copynumber: 3.0 Consensus size: 26
883481 ATTATGCTTG
883491 AAGAAGAAGAAAAAAAAAGAGAGAAAA
1 AAGAA-AAGAAAAAAAAAGAGAGAAAA
883518 AAGAAAAG-AAAAAAAAGAGAGAAAA
1 AAGAAAAGAAAAAAAAAGAGAGAAAA
883543 AAGAAAAGAAAAAAAAA-AGA-AAAA
1 AAGAAAAGAAAAAAAAAGAGAGAAAA
883567 GTCAAGGTGA
Statistics
Matches: 48, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
24 4 0.08
25 28 0.58
26 11 0.23
27 5 0.10
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (26 bp):
AAGAAAAGAAAAAAAAAGAGAGAAAA
Found at i:883561 original size:16 final size:16
Alignment explanation
Indices: 883491--883565 Score: 71
Period size: 16 Copynumber: 4.4 Consensus size: 16
883481 ATTATGCTTG
883491 AAGAAGAAGAAAAAAAA
1 AAGAA-AAGAAAAAAAA
883508 AGAGAGAAA-AAAGAAAAGA
1 A-AGA-AAAGAAA-AAAA-A
* * *
883527 AAAAAAAGAGAGAAAA
1 AAGAAAAGAAAAAAAA
883543 AAGAAAAGAAAAAAAA
1 AAGAAAAGAAAAAAAA
883559 AAGAAAA
1 AAGAAAA
883566 AGTCAAGGTG
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
16 21 0.45
17 10 0.21
18 13 0.28
19 3 0.06
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (16 bp):
AAGAAAAGAAAAAAAA
Found at i:883910 original size:16 final size:18
Alignment explanation
Indices: 883891--883936 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
883881 CTATTTCAAG
*
883891 TTCAATTTATTT-G-AGA
1 TTCAATTTATTTCGAAAA
883907 TTCAATTTAATTTCGAAAA
1 TTCAATTT-ATTTCGAAAA
883926 TTCAATTTATT
1 TTCAATTTATT
883937 ATTCTATGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
16 8 0.31
17 4 0.15
18 4 0.15
19 10 0.38
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.50
Consensus pattern (18 bp):
TTCAATTTATTTCGAAAA
Found at i:885060 original size:83 final size:83
Alignment explanation
Indices: 884921--885724 Score: 1419
Period size: 83 Copynumber: 9.7 Consensus size: 83
884911 GAACAAATGC
884921 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
884986 CATTGAATTTGAAAGATG
66 CATTGAATTTGAAAGATG
* *
885004 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTAGTTTGGTAAAACCAGT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
*
885069 TATTGAATTTGAAAGATG
66 CATTGAATTTGAAAGATG
* *
885087 AATGTGCTCATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGTAAAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
*
885152 CATTGAATTTAAAAGATG
66 CATTGAATTTGAAAGATG
* *
885170 AATGTGCTCATAGCATCTTTTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAGT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
* * *
885235 TATTGAATTTGGAAGAGG
66 CATTGAATTTGAAAGATG
885253 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
885318 CATTGAATTTGAAAGATG
66 CATTGAATTTGAAAGATG
*
885336 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAGT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
* *
885401 TATTAAATTTGAAAGATG
66 CATTGAATTTGAAAGATG
*
885419 AATGTGCTCATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
885484 CATTGAATTTGAAAGATG
66 CATTGAATTTGAAAGATG
885502 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
885567 CATTGAATTTGAAAGATG
66 CATTGAATTTGAAAGATG
*
885585 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAGT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
* * *
885650 TATTGAATTTGGAAGAGG
66 CATTGAATTTGAAAGATG
* *
885668 AATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGTA
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTA
885725 TGAAACCACA
Statistics
Matches: 685, Mismatches: 36, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
83 685 1.00
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.38
Consensus pattern (83 bp):
AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
CATTGAATTTGAAAGATG
Found at i:886867 original size:113 final size:112
Alignment explanation
Indices: 886691--887652 Score: 1256
Period size: 113 Copynumber: 8.7 Consensus size: 112
886681 TGTCAGTTCG
886691 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
*
886756 AACCTTTTGCTCAAATCCATCATTCGATGGATCAGCTTTTCCAGAGAA
66 AACCTTTTGCTCAAATTCATCATT-GATGGATCAGCTTTTCCAGAGAA
886804 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
*
886869 AACCTTTTGCTCAAATCCATCATTCGATGGATCAGCTTTTCCAGA-AA
66 AACCTTTTGCTCAAATTCATCATT-GATGGATCAGCTTTTCCAGAGAA
*
886916 GAGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTT
1 -AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTT
* * ****
886981 TAACCTTTTGCTCAAATTCATCACTTGATGGATCAGTTTTTCCAGTTCG
65 CAACCTTTTGCTCAAATTCATCA-TTGATGGATCAGCTTTTCCAGAGAA
*
887030 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAATAAGAAATTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
*
887095 AACCTTTTGCTCAAATCCATCATTCGATGGATCAGCTTTTCCAGA-AA
66 AACCTTTTGCTCAAATTCATCATT-GATGGATCAGCTTTTCCAGAGAA
*
887142 TAGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTT
1 -AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTT
* * * ****
887207 TAACCTTTTGCTCAAATTCATCACTTAATGGATCAGTTTTTCCAGTTCG
65 CAACCTTTTGCTCAAATTCATCA-TTGATGGATCAGCTTTTCCAGAGAA
* * * *
887256 AGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
** * ** *
887321 AA-CTTTTGCTTGAATTCATCATTTGATGGATTAGCTTTTCCAGTTAG
66 AACCTTTTGCTCAAATTCATCA-TTGATGGATCAGCTTTTCCAGAGAA
* * *
887368 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
** * *
887433 AA-CTTTTGCTTGAATTTATCATTTGATGGATTAGCTTTTCC--AGAA
66 AACCTTTTGCTCAAATTCATCA-TTGATGGATCAGCTTTTCCAGAGAA
* * *
887478 AGTTCATAATGAGAAGAACTCGTCT---GAA-GAAGAAG---TTCATAATGAGAAGAACTTGTTT
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
* * * * * * *
887536 AACCCTTTGTTCAAATTCATCACTTAATAGATCAACCTTTACAGAGAA
66 AACCTTTTGCTCAAATTCATCA-TTGATGGATCAGCTTTTCCAGAGAA
* * ** *
887584 AGTTCATAATGAGAAGAACTCATCTGAAGAA-G-AG-A-AAGTTCATAATAAGAAGAGCTTATTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
887645 AACCTTTT
66 AACCTTTT
887653 AAATGACTCT
Statistics
Matches: 772, Mismatches: 61, Indels: 36
0.89 0.07 0.04
Matches are distributed among these distances:
103 23 0.03
104 27 0.03
106 35 0.05
107 4 0.01
108 2 0.00
109 30 0.04
110 25 0.03
112 146 0.19
113 476 0.62
114 4 0.01
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (112 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
AACCTTTTGCTCAAATTCATCATTGATGGATCAGCTTTTCCAGAGAA
Found at i:886971 original size:24 final size:23
Alignment explanation
Indices: 886928--886972 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
886918 GTTCATAATG
*
886928 AGAAGAATTCATCTGAAGAAGGA
1 AGAAGAATTCATATGAAGAAGGA
886951 AGAAGAAATTCATAATG-AGAAG
1 AGAAG-AATTCAT-ATGAAGAAG
886973 AATTTGTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 5 0.26
24 12 0.63
25 2 0.11
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.18
Consensus pattern (23 bp):
AGAAGAATTCATATGAAGAAGGA
Found at i:887197 original size:24 final size:23
Alignment explanation
Indices: 887154--887198 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
887144 GTTCATAATG
*
887154 AGAAGAATTCATCTGAAGAAGGA
1 AGAAGAATTCATATGAAGAAGGA
887177 AGAAGAAATTCATAATG-AGAAG
1 AGAAG-AATTCAT-ATGAAGAAG
887199 AATTTGTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 5 0.26
24 12 0.63
25 2 0.11
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.18
Consensus pattern (23 bp):
AGAAGAATTCATATGAAGAAGGA
Found at i:887289 original size:339 final size:337
Alignment explanation
Indices: 886684--887652 Score: 1419
Period size: 339 Copynumber: 2.9 Consensus size: 337
886674 TCAGCAGTGT
886684 CAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAA
1 CAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAA
886749 TTTGTTCAACCTTTTGCTCAAATCCATCATTCGATGGATCAGCTTTTCCAGAGAAAGTTCATAAT
66 TTTGTTCAACCTTTTGCTCAAATCCATCATTCGATGGATCAGCTTTTCCAGA-AAAGTTCATAAT
*
886814 GAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
130 GAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGC
* *
886879 TCAAATCCATCA-TTCGATGGATCAGCTTTTCCAGAAAGAGTTCATAATGAGAAGAATTCATCTG
195 TCAAATTCATCACTT-AATGGATCAGCTTTTCCAGAAAGAGTTCATAATGAGAAGAATTCATCTG
* * *
886943 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGCTCAAATTCATCACTTG
259 AAGAAGGAAGAAGAAATTCATAATAAGAAGAACTTGTTCAA-CTTTTGCTCAAATTCATCACTTG
*
887008 ATGGATCAGTTTTTC
323 ATGGATCAGCTTTTC
*
887023 CAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAATAAGAAATTCATAATGAGAAGAA
1 CAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAA
887088 TTTGTTCAACCTTTTGCTCAAATCCATCATTCGATGGATCAGCTTTTCCAGAAATAGTTCATAAT
66 TTTGTTCAACCTTTTGCTCAAATCCATCATTCGATGGATCAGCTTTTCCAGAAA-AGTTCATAAT
*
887153 GAGAAGAATTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGC
130 GAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGC
* ***
887218 TCAAATTCATCACTTAATGGATCAGTTTTTCCAGTTCGAGTTCATAATGAGAAGAATTCATCTGA
195 TCAAATTCATCACTTAATGGATCAGCTTTTCCAGAAAGAGTTCATAATGAGAAGAATTCATCTGA
* ** *
887283 AGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACTTTTGCTTGAATTCATCATTTGAT
260 AGAAGGAAGAAGAAATTCATAATAAGAAGAACTTGTTCAACTTTTGCTCAAATTCATCACTTGAT
*
887348 GGATTAGCTTTTC
325 GGATCAGCTTTTC
* * *
887361 CAGTTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAA
1 CAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAA
* ** ** * *
887426 CTTGTTCAA-CTTTTGCTTGAATTTATCATTTGATGGATTAGCTTTTCCAG-AAAGTTCATAATG
66 TTTGTTCAACCTTTTGCTCAAATCCATCATTCGATGGATCAGCTTTTCCAGAAAAGTTCATAATG
* * * *
887489 AGAAGAACTCGTCT---GAA-GAAGAAG---TTCATAATGAGAAGAACTTGTTTAACCCTTTGTT
131 AGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGCT
* * * * *
887547 CAAATTCATCACTTAATAGATCAACCTTTACAGAGAA-AGTTCATAATGAGAAGAACTCATCTGA
196 CAAATTCATCACTTAATGGATCAGCTTTTCCAGA-AAGAGTTCATAATGAGAAGAATTCATCTGA
* * *
887611 AGAA-G-AG-A-AAGTTCATAATAAGAAGAGCTTATTCAACCTTTT
260 AGAAGGAAGAAGAAATTCATAATAAGAAGAACTTGTTCAA-CTTTT
887653 AAATGACTCT
Statistics
Matches: 581, Mismatches: 45, Indels: 22
0.90 0.07 0.03
Matches are distributed among these distances:
324 26 0.04
325 6 0.01
326 2 0.00
327 1 0.00
328 89 0.15
331 7 0.01
332 3 0.01
335 23 0.04
336 2 0.00
337 35 0.06
338 104 0.18
339 281 0.48
340 2 0.00
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.30
Consensus pattern (337 bp):
CAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAA
TTTGTTCAACCTTTTGCTCAAATCCATCATTCGATGGATCAGCTTTTCCAGAAAAGTTCATAATG
AGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGCT
CAAATTCATCACTTAATGGATCAGCTTTTCCAGAAAGAGTTCATAATGAGAAGAATTCATCTGAA
GAAGGAAGAAGAAATTCATAATAAGAAGAACTTGTTCAACTTTTGCTCAAATTCATCACTTGATG
GATCAGCTTTTC
Found at i:887527 original size:17 final size:17
Alignment explanation
Indices: 887477--887528 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
887467 CTTTTCCAGA
887477 AAGTTCATAATGAGAAG
1 AAGTTCATAATGAGAAG
* * *
887494 AA-CTCGT-CTGAAGAAG
1 AAGTTCATAATG-AGAAG
887510 AAGTTCATAATGAGAAG
1 AAGTTCATAATGAGAAG
887527 AA
1 AA
887529 CTTGTTTAAC
Statistics
Matches: 26, Mismatches: 6, Indels: 6
0.68 0.16 0.16
Matches are distributed among these distances:
15 2 0.08
16 10 0.38
17 12 0.46
18 2 0.08
ACGTcount: A:0.46, C:0.10, G:0.23, T:0.21
Consensus pattern (17 bp):
AAGTTCATAATGAGAAG
Found at i:895676 original size:22 final size:22
Alignment explanation
Indices: 895646--895707 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 22
895636 ATTATTTTTT
* *
895646 AAAAGATTAAAATTTTTTATCG
1 AAAATATTAATATTTTTTATCG
* **
895668 AAAATATTATTA-TTTTTATTT
1 AAAATATTAATATTTTTTATCG
895689 AAAATATTAATATTTTTTA
1 AAAATATTAATATTTTTTA
895708 ATATTTTTGA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 18 0.55
22 15 0.45
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.52
Consensus pattern (22 bp):
AAAATATTAATATTTTTTATCG
Found at i:896895 original size:24 final size:24
Alignment explanation
Indices: 896843--896895 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
896833 CAATTTATAT
* *
896843 TTTTTATTTATAGAAAATCATTAA
1 TTTTTATTTATAGAAAATAACTAA
*
896867 ATTTTATTTTATAG-AAATAACTAA
1 TTTTTA-TTTATAGAAAATAACTAA
896891 TTTTT
1 TTTTT
896896 TCGATAAGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.53
Consensus pattern (24 bp):
TTTTTATTTATAGAAAATAACTAA
Found at i:900840 original size:20 final size:22
Alignment explanation
Indices: 900803--900842 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
900793 TTTTAAAGGG
900803 TAAAAAAATCAATCAAATTATT
1 TAAAAAAATCAATCAAATTATT
900825 TAAAAAAA-CAAT-AAATTA
1 TAAAAAAATCAATCAAATTA
900843 GTTTTTACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
21 4 0.22
22 8 0.44
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (22 bp):
TAAAAAAATCAATCAAATTATT
Found at i:902896 original size:17 final size:17
Alignment explanation
Indices: 902856--902900 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
902846 ACTTTGGATG
902856 AAATAG-AGAAGAAGAA
1 AAATAGAAGAAGAAGAA
*
902872 AAA-GGAAGAA-AAGATA
1 AAATAGAAGAAGAAGA-A
902888 AAATAGAAGAAGA
1 AAATAGAAGAAGA
902901 TAAAGAGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
15 5 0.22
16 11 0.48
17 6 0.26
18 1 0.04
ACGTcount: A:0.69, C:0.00, G:0.24, T:0.07
Consensus pattern (17 bp):
AAATAGAAGAAGAAGAA
Found at i:904898 original size:20 final size:20
Alignment explanation
Indices: 904873--904912 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
904863 ACATCTGATC
904873 AACATTAATTGCAATGCTAT
1 AACATTAATTGCAATGCTAT
904893 AACATTAATTGCAATGCTAT
1 AACATTAATTGCAATGCTAT
904913 GGCATCAGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (20 bp):
AACATTAATTGCAATGCTAT
Found at i:905460 original size:44 final size:44
Alignment explanation
Indices: 905406--905544 Score: 208
Period size: 44 Copynumber: 3.1 Consensus size: 44
905396 TTGGAATTCT
* *
905406 AACTTTTTTTTCTCACTATGTTGGAGATATTACCAACATTACCC
1 AACTTATTTTTCTCACTATGTTGGAGCTATTACCAACATTACCC
905450 AACTTATTTTTCTCACTATGTTGGAGCTATTACCAACATTACCC
1 AACTTATTTTTCTCACTATGTTGGAGCTATTACCAACATTACCC
* * *
905494 AACTTA-TTTCCTAATTCTATGTTGGAGCTATTACCAGCATTACCC
1 AACTTATTTTTCTCA--CTATGTTGGAGCTATTACCAACATTACCC
905539 AACTTA
1 AACTTA
905545 CTTTCTAAGT
Statistics
Matches: 88, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
43 6 0.07
44 48 0.55
45 34 0.39
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.39
Consensus pattern (44 bp):
AACTTATTTTTCTCACTATGTTGGAGCTATTACCAACATTACCC
Found at i:910227 original size:20 final size:22
Alignment explanation
Indices: 910202--910241 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
910192 AGTCGTATAT
910202 AGCCG-TTGGGGATG-TTTTGG
1 AGCCGTTTGGGGATGATTTTGG
910222 AGCCGTTTGGGGATGATTTT
1 AGCCGTTTGGGGATGATTTT
910242 TCTGCTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.12, C:0.10, G:0.40, T:0.38
Consensus pattern (22 bp):
AGCCGTTTGGGGATGATTTTGG
Found at i:910402 original size:20 final size:20
Alignment explanation
Indices: 910377--910467 Score: 127
Period size: 20 Copynumber: 4.8 Consensus size: 20
910367 CGATGTTTGA
*
910377 GTGCATGGATGCACTACATG
1 GTGCATGGATGCACTACAGG
910397 GTGCATGGATGCACT--A--
1 GTGCATGGATGCACTACAGG
*
910413 GTGCATGGATGCATTACAGG
1 GTGCATGGATGCACTACAGG
910433 GTGCATGGATGCACTACAGG
1 GTGCATGGATGCACTACAGG
*
910453 GTGCATGGATACACT
1 GTGCATGGATGCACT
910468 TTGACACCCT
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
16 14 0.22
18 2 0.03
20 48 0.75
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.24
Consensus pattern (20 bp):
GTGCATGGATGCACTACAGG
Found at i:910420 original size:36 final size:36
Alignment explanation
Indices: 910376--910448 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
910366 TCGATGTTTG
*
910376 AGTGCATGGATGCACTACATGGTGCATGGATGCACT
1 AGTGCATGGATGCACTACAGGGTGCATGGATGCACT
*
910412 AGTGCATGGATGCATTACAGGGTGCATGGATGCACT
1 AGTGCATGGATGCACTACAGGGTGCATGGATGCACT
910448 A
1 A
910449 CAGGGTGCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.26, C:0.18, G:0.32, T:0.25
Consensus pattern (36 bp):
AGTGCATGGATGCACTACAGGGTGCATGGATGCACT
Found at i:910742 original size:18 final size:19
Alignment explanation
Indices: 910690--910746 Score: 62
Period size: 18 Copynumber: 2.9 Consensus size: 19
910680 ATGTTTAATG
*
910690 AAAAAGCTACCAATTGTTA
1 AAAAAGATACCAATTGTTA
*
910709 ACAAAAGGATATCAATTGTT-
1 A-AAAA-GATACCAATTGTTA
*
910729 AAAAAGTTACCAATTGTT
1 AAAAAGATACCAATTGTT
910747 GGAAAATATA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
18 11 0.34
19 5 0.16
20 5 0.16
21 11 0.34
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.30
Consensus pattern (19 bp):
AAAAAGATACCAATTGTTA
Found at i:912184 original size:33 final size:33
Alignment explanation
Indices: 912147--912217 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
912137 CCTTTACAAC
* *
912147 TCCCTAG-TTTTTCACGGGATAAACTAGAACCTT
1 TCCCTAGCTTTTACACGGGAT-AACTAGAACATT
* *
912180 TCCCTAGCTTTTACACGGGCTAAGTAGAACATT
1 TCCCTAGCTTTTACACGGGATAACTAGAACATT
912213 TCCCT
1 TCCCT
912218 TTTACAAAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 22 0.67
34 11 0.33
ACGTcount: A:0.25, C:0.27, G:0.15, T:0.32
Consensus pattern (33 bp):
TCCCTAGCTTTTACACGGGATAACTAGAACATT
Found at i:912649 original size:20 final size:20
Alignment explanation
Indices: 912624--912678 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
912614 CAGTGTTTGA
* * *
912624 GTGCATGTATGCACTATATG
1 GTGCATGGATGCACTACAGG
*
912644 GTGCATGGATGCACTGCAGG
1 GTGCATGGATGCACTACAGG
912664 GTGCATGGATGCACT
1 GTGCATGGATGCACT
912679 TTGACACCCT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.27
Consensus pattern (20 bp):
GTGCATGGATGCACTACAGG
Found at i:917244 original size:23 final size:23
Alignment explanation
Indices: 917214--917281 Score: 127
Period size: 23 Copynumber: 3.0 Consensus size: 23
917204 GTGTCACATA
917214 TTTGTCCCGAATGACCACATAGG
1 TTTGTCCCGAATGACCACATAGG
917237 TTTGTCCCGAATGACCACATAGG
1 TTTGTCCCGAATGACCACATAGG
*
917260 TTTGTCCCGAAGGACCACATAG
1 TTTGTCCCGAATGACCACATAG
917282 AACCCTCGAC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (23 bp):
TTTGTCCCGAATGACCACATAGG
Found at i:917504 original size:22 final size:21
Alignment explanation
Indices: 917463--917504 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
917453 AGAACATTTT
* *
917463 CATATAAAACGAAATCATATA
1 CATATAAAACAAAATAATATA
917484 CATATAAAATCAAAATAATAT
1 CATATAAAA-CAAAATAATAT
917505 TTTGAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.60, C:0.12, G:0.02, T:0.26
Consensus pattern (21 bp):
CATATAAAACAAAATAATATA
Found at i:921872 original size:12 final size:11
Alignment explanation
Indices: 921852--921888 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
921842 GGTCTCATTT
921852 TATAGTATATAA
1 TATA-TATATAA
921864 TATAT-TATAA
1 TATATATATAA
921874 TATATATAT-A
1 TATATATATAA
921884 TATAT
1 TATAT
921889 TGTTTTGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 16 0.67
11 4 0.17
12 4 0.17
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (11 bp):
TATATATATAA
Found at i:921916 original size:21 final size:21
Alignment explanation
Indices: 921879--921931 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
921869 TATAATATAT
*
921879 ATATATA-TATTGTTTTGAAA
1 ATATATAGTATAGTTTTGAAA
921899 ATATATAGTATAGTTTTGAAA
1 ATATATAGTATAGTTTTGAAA
921920 ACT-TATAGTATA
1 A-TATATAGTATA
921932 TATTATATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 7 0.23
21 22 0.73
22 1 0.03
ACGTcount: A:0.42, C:0.02, G:0.11, T:0.45
Consensus pattern (21 bp):
ATATATAGTATAGTTTTGAAA
Found at i:921988 original size:2 final size:2
Alignment explanation
Indices: 921923--921968 Score: 62
Period size: 2 Copynumber: 24.0 Consensus size: 2
921913 TTTGAAAACT
921923 TA TA GTA TA TA T- TA TA TA TA -A T- TA TA TA TA TA TA TA TA TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
921963 TA TA TA
1 TA TA TA
921969 GTTTTTTAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
1 3 0.08
2 35 0.88
3 2 0.05
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:926141 original size:20 final size:23
Alignment explanation
Indices: 926096--926154 Score: 79
Period size: 20 Copynumber: 2.7 Consensus size: 23
926086 TTCCCCTGTG
926096 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTTCCCCTTCAAA
*
926119 GGGGGAATCGGTT-CTC-T-AAA
1 GGGGGAATCGGTTCCCCTTCAAA
*
926139 GGGGGAATCGATTCCC
1 GGGGGAATCGGTTCCC
926155 TCTGCAACAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 15 0.47
21 2 0.06
22 2 0.06
23 13 0.41
ACGTcount: A:0.22, C:0.22, G:0.34, T:0.22
Consensus pattern (23 bp):
GGGGGAATCGGTTCCCCTTCAAA
Found at i:934958 original size:20 final size:20
Alignment explanation
Indices: 934879--934969 Score: 85
Period size: 20 Copynumber: 4.5 Consensus size: 20
934869 GCGATTCTGT
934879 CGTTGCGATTTTCA-TTTCG
1 CGTTGCGATTTTCATTTTCG
* ** **
934898 CATTGCGATAGTCAAATTCG
1 CGTTGCGATTTTCATTTTCG
**
934918 CGTTGCGATAGTCATTTTTCG
1 CGTTGCGATTTTCA-TTTTCG
*
934939 TGTTGCGATTTTCATTTTCG
1 CGTTGCGATTTTCATTTTCG
*
934959 TGTTGCGATTT
1 CGTTGCGATTT
934970 AAAGTTTTGC
Statistics
Matches: 60, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
19 11 0.18
20 34 0.57
21 15 0.25
ACGTcount: A:0.15, C:0.18, G:0.22, T:0.45
Consensus pattern (20 bp):
CGTTGCGATTTTCATTTTCG
Found at i:936883 original size:20 final size:20
Alignment explanation
Indices: 936858--936961 Score: 96
Period size: 20 Copynumber: 5.5 Consensus size: 20
936848 AGAATAGTTT
936858 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
936878 ACTATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
* *
936898 ACTATTGCAA--CG-AGA-G
1 ACTATCGCAATGCGAAAATG
* *
936914 A--ATCGCAATACAAAAATG
1 ACTATCGCAATGCGAAAATG
*
936932 ACTATCGCAATGC-AAATTTG
1 ACTATCGCAATGCGAAA-ATG
936952 ACTATCGCAA
1 ACTATCGCAA
936962 CGAAAGAATC
Statistics
Matches: 69, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
14 6 0.09
16 3 0.04
17 4 0.06
18 4 0.06
19 3 0.04
20 49 0.71
ACGTcount: A:0.41, C:0.21, G:0.17, T:0.20
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:936954 original size:54 final size:54
Alignment explanation
Indices: 936861--936972 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
936851 ATAGTTTACT
* * * *
936861 ATCGCAATGCGAAAATGACTATCGCAACGCGAAAATGACTATTGCAACGAGAGA
1 ATCGCAATACAAAAATGACTATCGCAACGCGAAAATGACTATCGCAACGAAAGA
* *
936915 ATCGCAATACAAAAATGACTATCGCAATGC-AAATTTGACTATCGCAACGAAAGA
1 ATCGCAATACAAAAATGACTATCGCAACGCGAAA-ATGACTATCGCAACGAAAGA
936969 ATCG
1 ATCG
936973 TAATGCGAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
53 3 0.06
54 48 0.94
ACGTcount: A:0.42, C:0.21, G:0.19, T:0.19
Consensus pattern (54 bp):
ATCGCAATACAAAAATGACTATCGCAACGCGAAAATGACTATCGCAACGAAAGA
Found at i:937060 original size:20 final size:20
Alignment explanation
Indices: 937008--937074 Score: 89
Period size: 20 Copynumber: 3.4 Consensus size: 20
936998 GATTCTCTCG
** *
937008 TTGCGATAGTCAAATTCGTA
1 TTGCGATAGTCATTTTCGCA
*
937028 TTGCGATAGTCATTTTCACA
1 TTGCGATAGTCATTTTCGCA
*
937048 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
937068 TTGCGAT
1 TTGCGAT
937075 TTTGTTGTTG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.39
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:937105 original size:33 final size:34
Alignment explanation
Indices: 936989--937144 Score: 143
Period size: 34 Copynumber: 4.4 Consensus size: 34
936979 GAAATGAAAA
* **
936989 TCGCATTGCGATTCTCTCGTTGCGATAGTCAAAT
1 TCGCATTGCGATTTTCTCGTTGCGATAGTCATTT
* * *
937023 TCGTATTGCGATAGTCATTTTCACATTGCGATAGTCATTT
1 TCGCATTGC----G--ATTTTCTCGTTGCGATAGTCATTT
* * * **
937063 TCGCGTTGCGATTTTGTTGTTGCGATTTTCA-TT
1 TCGCATTGCGATTTTCTCGTTGCGATAGTCATTT
*
937096 TCGCATTGCGATTCTCTCGTTGCGATAGTCATTT
1 TCGCATTGCGATTTTCTCGTTGCGATAGTCATTT
937130 TCGCATTGCGATTTT
1 TCGCATTGCGATTTT
937145 AAGTTTCAGA
Statistics
Matches: 94, Mismatches: 21, Indels: 14
0.73 0.16 0.11
Matches are distributed among these distances:
33 27 0.29
34 39 0.41
36 1 0.01
38 1 0.01
40 26 0.28
ACGTcount: A:0.17, C:0.20, G:0.21, T:0.43
Consensus pattern (34 bp):
TCGCATTGCGATTTTCTCGTTGCGATAGTCATTT
Found at i:937716 original size:21 final size:21
Alignment explanation
Indices: 937625--937729 Score: 95
Period size: 21 Copynumber: 5.0 Consensus size: 21
937615 GACTCACCTG
*
937625 TCATCGTTCAAGAGGCCTCCCC
1 TCATCGTTCAAGAGGCC-CCTC
*
937647 T-ATCGTTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTC
** *
937667 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAGGCCCCTC
* * * *
937688 CCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCCCCTC
* *
937709 TCATCGTTGAAGAGGTCCCTC
1 TCATCGTTCAAGAGGCCCCTC
937730 CCAACATTCT
Statistics
Matches: 63, Mismatches: 19, Indels: 3
0.74 0.22 0.04
Matches are distributed among these distances:
20 3 0.05
21 59 0.94
22 1 0.02
ACGTcount: A:0.21, C:0.37, G:0.19, T:0.23
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:937722 original size:42 final size:42
Alignment explanation
Indices: 937622--937732 Score: 118
Period size: 42 Copynumber: 2.6 Consensus size: 42
937612 CCCGACTCAC
* * * *
937622 CTGTCATCGTTCAAGAGGCCTCC-CCTATCGTTCAAGAGGCCC
1 CTGTCATCGTTCAAGAGTCC-CCTCCCACCGTTCAAGAGGCCA
* **
937664 CTATCATCCCTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCA
1 CTGTCATCGTTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCA
*
937706 CTGTCATCGTTGAAGAGGT-CCCTCCCA
1 CTGTCATCGTTCAAGA-GTCCCCTCCCA
937733 ACATTCTAGA
Statistics
Matches: 56, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
41 2 0.04
42 52 0.93
43 2 0.04
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.23
Consensus pattern (42 bp):
CTGTCATCGTTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCA
Found at i:939106 original size:14 final size:14
Alignment explanation
Indices: 939087--939122 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
939077 ATTGTTTAAT
939087 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
939101 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
939115 TGATTTGT
1 TGATTTGT
939123 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:939306 original size:33 final size:34
Alignment explanation
Indices: 939249--939344 Score: 149
Period size: 33 Copynumber: 2.9 Consensus size: 34
939239 TTTAGTTTCG
939249 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
* *
939283 CGTTGCGCTTTTCA-TTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
**
939316 CGTTGCGATAGTCATTTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTTCGCATTGCGAT
939345 AGTCAATTCC
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
33 29 0.52
34 27 0.48
ACGTcount: A:0.14, C:0.24, G:0.20, T:0.43
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
Found at i:939379 original size:19 final size:20
Alignment explanation
Indices: 939316--939422 Score: 113
Period size: 20 Copynumber: 5.7 Consensus size: 20
939306 GCGATTCTCT
*
939316 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTCCG
* *
939336 CATTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
939356 CGTTGCGATAGTC-TTTCCG
1 CGTTGCGATAGTCATTTCCG
*
939375 TGTTGCGATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
939395 CGTT--G-T-G--ATTTCCG
1 CGTTGCGATAGTCATTTCCG
939409 CGTTGCGATAGTCA
1 CGTTGCGATAGTCA
939423 AATGAATGTC
Statistics
Matches: 71, Mismatches: 7, Indels: 18
0.74 0.07 0.19
Matches are distributed among these distances:
13 2 0.03
14 8 0.11
16 2 0.03
17 2 0.03
18 2 0.03
19 17 0.24
20 36 0.51
21 2 0.03
ACGTcount: A:0.17, C:0.21, G:0.25, T:0.36
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:939397 original size:39 final size:40
Alignment explanation
Indices: 939316--939399 Score: 118
Period size: 39 Copynumber: 2.1 Consensus size: 40
939306 GCGATTCTCT
*
939316 CGTTGCGATAGTCATTTTCGCATTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCGCATTGCGATAGTCAATTCCG
**
939356 CGTTGCGATAGTC-TTTCCGTGTTGCGATAGTCATATT-CG
1 CGTTGCGATAGTCATTTCCGCATTGCGATAGTCA-ATTCCG
939395 CGTTG
1 CGTTG
939400 TGATTTCCGC
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
39 24 0.60
40 16 0.40
ACGTcount: A:0.17, C:0.21, G:0.25, T:0.37
Consensus pattern (40 bp):
CGTTGCGATAGTCATTTCCGCATTGCGATAGTCAATTCCG
Found at i:942767 original size:20 final size:20
Alignment explanation
Indices: 942751--942816 Score: 105
Period size: 20 Copynumber: 3.3 Consensus size: 20
942741 CAGAATCTCG
942751 TTGCGATTTACGTAATCGCA
1 TTGCGATTTACGTAATCGCA
*
942771 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTAATCGCA
* *
942791 TTGCGATTTAAGTATTCGCA
1 TTGCGATTTACGTAATCGCA
942811 TTGCGA
1 TTGCGA
942817 ATTAGGAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (20 bp):
TTGCGATTTACGTAATCGCA
Found at i:942837 original size:21 final size:21
Alignment explanation
Indices: 942813--942858 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
942803 TATTCGCATT
942813 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* * *
942834 GCGAATTTGGGAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
942855 GCGA
1 GCGA
942859 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:943083 original size:85 final size:85
Alignment explanation
Indices: 942940--943116 Score: 354
Period size: 85 Copynumber: 2.1 Consensus size: 85
942930 CATTGCGATT
942940 TAGTTGATCATTTTGGCAAATCCAAAAAAAGTTGGTTAAAATCGTATATTATAAGGCATTTTTGG
1 TAGTTGATCATTTTGGCAAATCCAAAAAAAGTTGGTTAAAATCGTATATTATAAGGCATTTTTGG
943005 TCACTGAGGTTATTTTCTCG
66 TCACTGAGGTTATTTTCTCG
943025 TAGTTGATCATTTTGGCAAATCCAAAAAAAGTTGGTTAAAATCGTATATTATAAGGCATTTTTGG
1 TAGTTGATCATTTTGGCAAATCCAAAAAAAGTTGGTTAAAATCGTATATTATAAGGCATTTTTGG
943090 TCACTGAGGTTATTTTCTCG
66 TCACTGAGGTTATTTTCTCG
943110 TAGTTGA
1 TAGTTGA
943117 ATTCTGTCAT
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 92 1.00
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (85 bp):
TAGTTGATCATTTTGGCAAATCCAAAAAAAGTTGGTTAAAATCGTATATTATAAGGCATTTTTGG
TCACTGAGGTTATTTTCTCG
Found at i:948467 original size:28 final size:29
Alignment explanation
Indices: 948413--948468 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 29
948403 TAATTACAAA
*
948413 TATTGAAAAAATTAGACCCCTCGTAATAGG
1 TATTGAAAAAATTAGA-CCCTCATAATAGG
* *
948443 TATTTAAAAAATTAG-GCCTCATAATA
1 TATTGAAAAAATTAGACCCTCATAATA
948469 AAACCGAAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 9 0.39
30 14 0.61
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.30
Consensus pattern (29 bp):
TATTGAAAAAATTAGACCCTCATAATAGG
Found at i:950040 original size:23 final size:21
Alignment explanation
Indices: 950014--950070 Score: 53
Period size: 23 Copynumber: 2.7 Consensus size: 21
950004 AAAGACAAAA
950014 AAACATGTCACAAAAATATAGAT
1 AAACATGTCACAAAAATA-A-AT
* * * *
950037 AAACGTATCATAAAAGTAAAT
1 AAACATGTCACAAAAATAAAT
950058 -AACATGTCACAAA
1 AAACATGTCACAAA
950071 GAGATAATTA
Statistics
Matches: 27, Mismatches: 7, Indels: 3
0.73 0.19 0.08
Matches are distributed among these distances:
20 10 0.37
21 2 0.07
22 1 0.04
23 14 0.52
ACGTcount: A:0.56, C:0.14, G:0.09, T:0.21
Consensus pattern (21 bp):
AAACATGTCACAAAAATAAAT
Found at i:951150 original size:16 final size:16
Alignment explanation
Indices: 951129--951165 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
951119 AAATTTATAT
951129 ATTTAATA-TAATTTTG
1 ATTTAATAGT-ATTTTG
951145 ATTTAATAGTATTTTG
1 ATTTAATAGTATTTTG
951161 ATTTA
1 ATTTA
951166 TGTAAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 19 0.95
17 1 0.05
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (16 bp):
ATTTAATAGTATTTTG
Found at i:951918 original size:6 final size:6
Alignment explanation
Indices: 951907--951939 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
951897 TAATACAAGA
951907 GCAAAG GCAAA- GCAAAG GCAAAG GCAAAG GCAA
1 GCAAAG GCAAAG GCAAAG GCAAAG GCAAAG GCAA
951940 TCAGAATGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.52, C:0.18, G:0.30, T:0.00
Consensus pattern (6 bp):
GCAAAG
Found at i:951922 original size:11 final size:11
Alignment explanation
Indices: 951906--951939 Score: 59
Period size: 11 Copynumber: 3.0 Consensus size: 11
951896 GTAATACAAG
951906 AGCAAAGGCAA
1 AGCAAAGGCAA
951917 AGCAAAGGCAA
1 AGCAAAGGCAA
951928 AGGCAAAGGCAA
1 A-GCAAAGGCAA
951940 TCAGAATGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.53, C:0.18, G:0.29, T:0.00
Consensus pattern (11 bp):
AGCAAAGGCAA
Found at i:964090 original size:14 final size:14
Alignment explanation
Indices: 964051--964088 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
964041 TCGCATAACC
964051 GGGTTAAGGGTTTA
1 GGGTTAAGGGTTTA
*
964065 GGGATAAGGGTTTA
1 GGGTTAAGGGTTTA
964079 GGGTTTAAGG
1 GGG-TTAAGG
964089 TTCATTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 16 0.76
15 5 0.24
ACGTcount: A:0.24, C:0.00, G:0.45, T:0.32
Consensus pattern (14 bp):
GGGTTAAGGGTTTA
Found at i:967015 original size:43 final size:43
Alignment explanation
Indices: 966912--967093 Score: 150
Period size: 43 Copynumber: 4.2 Consensus size: 43
966902 ACATATAGCA
* *
966912 GCGTTTGTTCA-ACAAACGCCGCAATAGGTTTTGTTATTTAACG
1 GCGTTT-TTCATACAAACGCCGCAATAGGTGTTGATATTTAACG
* * * * *
966955 GCATTTGTCAGAAAAACGCTGCAATAGGTGTTGATATTTAACG
1 GCGTTTTTCATACAAACGCCGCAATAGGTGTTGATATTTAACG
* * * * * *
966998 GCGTTTTTCCTACAAACGCCGTAGTAGGTGTTAAGATTTAGCG
1 GCGTTTTTCATACAAACGCCGCAATAGGTGTTGATATTTAACG
* * * * * * * **
967041 ACGTTTTACTTACGACCACCGCAGTAGGTGTTGATATTTTGCG
1 GCGTTTTTCATACAAACGCCGCAATAGGTGTTGATATTTAACG
967084 GCGTTTTTCA
1 GCGTTTTTCA
967094 CAAACATCGC
Statistics
Matches: 108, Mismatches: 30, Indels: 2
0.77 0.21 0.01
Matches are distributed among these distances:
42 3 0.03
43 105 0.97
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (43 bp):
GCGTTTTTCATACAAACGCCGCAATAGGTGTTGATATTTAACG
Found at i:967585 original size:21 final size:21
Alignment explanation
Indices: 967561--967633 Score: 83
Period size: 21 Copynumber: 3.5 Consensus size: 21
967551 ATGTTGTTTT
*
967561 TCTCTGTGTTGCCGCTGCTTC
1 TCTCTGTGCTGCCGCTGCTTC
967582 TCTCTGTGCTGCCGCTGCTTC
1 TCTCTGTGCTGCCGCTGCTTC
* * * * *
967603 TTTCTCTGCTTCCGTTGCTGC
1 TCTCTGTGCTGCCGCTGCTTC
*
967624 TCTCTCTGCT
1 TCTCTGTGCT
967634 TCCCTTGCTT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 45 1.00
ACGTcount: A:0.00, C:0.36, G:0.21, T:0.44
Consensus pattern (21 bp):
TCTCTGTGCTGCCGCTGCTTC
Found at i:967634 original size:21 final size:21
Alignment explanation
Indices: 967576--967644 Score: 84
Period size: 21 Copynumber: 3.3 Consensus size: 21
967566 GTGTTGCCGC
* * *
967576 TGCTTCTCTCTGTGCTGCCGC
1 TGCTTCTCTCTCTGCTTCCGT
*
967597 TGCTTCTTTCTCTGCTTCCGT
1 TGCTTCTCTCTCTGCTTCCGT
* *
967618 TGCTGCTCTCTCTGCTTCCCT
1 TGCTTCTCTCTCTGCTTCCGT
967639 TGCTTC
1 TGCTTC
967645 ATTTTCCGCT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.00, C:0.38, G:0.17, T:0.45
Consensus pattern (21 bp):
TGCTTCTCTCTCTGCTTCCGT
Found at i:970773 original size:41 final size:40
Alignment explanation
Indices: 970728--970832 Score: 115
Period size: 43 Copynumber: 2.5 Consensus size: 40
970718 CAGTACACTT
970728 TATTGCGGCGTTTGTTACTAAAACGCCACTA-TGAATG-AACC
1 TATTGCGGCGTTT-TTA-TAAAACGCCACTATTG-ATGAAACC
*
970769 TATTGCGGCATTTTTAGATACAAACGCCACTATTGATGAAACC
1 TATTGCGGCGTTTTT--ATA-AAACGCCACTATTGATGAAACC
* *
970812 TACTGTGGCGTTTTTATAAAA
1 TATTGCGGCGTTTTTATAAAA
970833 ATGCCTCTAA
Statistics
Matches: 55, Mismatches: 4, Indels: 11
0.79 0.06 0.16
Matches are distributed among these distances:
40 5 0.09
41 17 0.31
42 15 0.27
43 18 0.33
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.32
Consensus pattern (40 bp):
TATTGCGGCGTTTTTATAAAACGCCACTATTGATGAAACC
Found at i:971509 original size:54 final size:51
Alignment explanation
Indices: 971417--971516 Score: 130
Period size: 54 Copynumber: 1.9 Consensus size: 51
971407 ACAAACTAAA
* * *
971417 TTAACAACAACCATACATTTTAATTAATACATAAGTTATGCATAAAACTAC
1 TTAACAACAACAATACATTATAATTAAAACATAAGTTATGCATAAAACTAC
971468 TTAACAACAA-AATACATTATAATTTAGAAACATTAAAGTTATGCATAAA
1 TTAACAACAACAATACATTATAA-TTA-AAACA-T-AAGTTATGCATAAA
971517 CAGTCTTCAC
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
50 10 0.24
51 13 0.31
52 4 0.10
53 1 0.02
54 14 0.33
ACGTcount: A:0.50, C:0.14, G:0.05, T:0.31
Consensus pattern (51 bp):
TTAACAACAACAATACATTATAATTAAAACATAAGTTATGCATAAAACTAC
Found at i:972603 original size:42 final size:42
Alignment explanation
Indices: 972551--972657 Score: 128
Period size: 42 Copynumber: 2.5 Consensus size: 42
972541 AAGTATTATT
* * *
972551 TATTGCGGCGTTT-TAGATTTAAATGCCGCTAATTTATC-ACTC
1 TATTGCGGCGTTTGT-GATATAAATGCCACTAATTTA-CAAATC
*
972593 TATTGCGGCGTTTGTGGTATAAATGCCACTAATTTACAAATC
1 TATTGCGGCGTTTGTGATATAAATGCCACTAATTTACAAATC
* *
972635 TACTGCGGCGTTTGTGGTATAAA
1 TATTGCGGCGTTTGTGATATAAA
972658 CACCGCTAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
41 1 0.02
42 56 0.97
43 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (42 bp):
TATTGCGGCGTTTGTGATATAAATGCCACTAATTTACAAATC
Found at i:972688 original size:42 final size:42
Alignment explanation
Indices: 972576--972689 Score: 122
Period size: 42 Copynumber: 2.7 Consensus size: 42
972566 GATTTAAATG
* * **
972576 CCGCTAATTTATCACTCTATTGCGGCGTTTGTGGTATAAATG
1 CCGCTAAATTAACACTCTATTGCGGCGTTTGTGGTATAAACA
* * * *
972618 CCACT-AATTTACAAATCTACTGCGGCGTTTGTGGTATAAACA
1 CCGCTAAATTAAC-ACTCTATTGCGGCGTTTGTGGTATAAACA
* *
972660 CCGCTAAATTAACACTATATTGCAGCGTTT
1 CCGCTAAATTAACACTCTATTGCGGCGTTT
972690 TGGCTGAAAC
Statistics
Matches: 56, Mismatches: 14, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
41 4 0.07
42 46 0.82
43 6 0.11
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (42 bp):
CCGCTAAATTAACACTCTATTGCGGCGTTTGTGGTATAAACA
Found at i:976254 original size:24 final size:24
Alignment explanation
Indices: 976227--976273 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
976217 TGTAAAAGTT
* *
976227 ATATATAAAATATGAGATTTGACG
1 ATATATAAAAGATGAGACTTGACG
976251 ATATATAAAAGATGAGACTTGAC
1 ATATATAAAAGATGAGACTTGAC
976274 ATGATTCAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.47, C:0.06, G:0.17, T:0.30
Consensus pattern (24 bp):
ATATATAAAAGATGAGACTTGACG
Found at i:976865 original size:37 final size:37
Alignment explanation
Indices: 976819--976894 Score: 134
Period size: 37 Copynumber: 2.1 Consensus size: 37
976809 AAAGGAGGTG
976819 AACAATCCATCTTCTCAAAAATATTCAAAGAAGCCTA
1 AACAATCCATCTTCTCAAAAATATTCAAAGAAGCCTA
* *
976856 AACAGTCCATCTTCTCAAAAATCTTCAAAGAAGCCTA
1 AACAATCCATCTTCTCAAAAATATTCAAAGAAGCCTA
976893 AA
1 AA
976895 TAGCCCCAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.45, C:0.25, G:0.07, T:0.24
Consensus pattern (37 bp):
AACAATCCATCTTCTCAAAAATATTCAAAGAAGCCTA
Found at i:981114 original size:23 final size:23
Alignment explanation
Indices: 981084--981129 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
981074 TCATTTTGTC
981084 ATCTCTGTCGCCGATGTGAGGAG
1 ATCTCTGTCGCCGATGTGAGGAG
981107 ATCTCTGTCGCCGATGTGAGGAG
1 ATCTCTGTCGCCGATGTGAGGAG
981130 TAAGCGATAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.17, C:0.22, G:0.35, T:0.26
Consensus pattern (23 bp):
ATCTCTGTCGCCGATGTGAGGAG
Found at i:985976 original size:15 final size:15
Alignment explanation
Indices: 985956--985984 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
985946 TTAATATAAG
985956 ATTAAAAAAATTATA
1 ATTAAAAAAATTATA
985971 ATTAAAAAAATTAT
1 ATTAAAAAAATTAT
985985 CAAGAATGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
ATTAAAAAAATTATA
Found at i:987208 original size:175 final size:175
Alignment explanation
Indices: 986917--987269 Score: 697
Period size: 175 Copynumber: 2.0 Consensus size: 175
986907 AGCTGCCAGC
*
986917 TCCAAGTCCTGCAAACATGGTCCTCAGTGCCTCCAAACCCGTGTTGTTGACAGTTCCTGAAAATA
1 TCCAAGTCCTGAAAACATGGTCCTCAGTGCCTCCAAACCCGTGTTGTTGACAGTTCCTGAAAATA
986982 TATTACGATTATAAAAAATACTCTCGTTTACCAAATCGTTTCTAACAAAATAAAAATTGCTACTT
66 TATTACGATTATAAAAAATACTCTCGTTTACCAAATCGTTTCTAACAAAATAAAAATTGCTACTT
987047 GTATACCCCCTCGTATTGTTGATGAAGGAATGAGATGACATTGAT
131 GTATACCCCCTCGTATTGTTGATGAAGGAATGAGATGACATTGAT
987092 TCCAAGTCCTGAAAACATGGTCCTCAGTGCCTCCAAACCCGTGTTGTTGACAGTTCCTGAAAATA
1 TCCAAGTCCTGAAAACATGGTCCTCAGTGCCTCCAAACCCGTGTTGTTGACAGTTCCTGAAAATA
987157 TATTACGATTATAAAAAATACTCTCGTTTACCAAATCGTTTCTAACAAAATAAAAATTGCTACTT
66 TATTACGATTATAAAAAATACTCTCGTTTACCAAATCGTTTCTAACAAAATAAAAATTGCTACTT
987222 GTATACCCCCTCGTATTGTTGATGAAGGAATGAGATGACATTGAT
131 GTATACCCCCTCGTATTGTTGATGAAGGAATGAGATGACATTGAT
987267 TCC
1 TCC
987270 GCAAAATCAT
Statistics
Matches: 177, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
175 177 1.00
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (175 bp):
TCCAAGTCCTGAAAACATGGTCCTCAGTGCCTCCAAACCCGTGTTGTTGACAGTTCCTGAAAATA
TATTACGATTATAAAAAATACTCTCGTTTACCAAATCGTTTCTAACAAAATAAAAATTGCTACTT
GTATACCCCCTCGTATTGTTGATGAAGGAATGAGATGACATTGAT
Found at i:997534 original size:13 final size:13
Alignment explanation
Indices: 997516--997556 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
997506 CCCGATTACT
997516 CGATTACCCGGCC
1 CGATTACCCGGCC
997529 CGATTACCCGG-C
1 CGATTACCCGGCC
*
997541 CGA-TACCCGACC
1 CGATTACCCGGCC
997553 CGAT
1 CGAT
997557 AAATATTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
11 6 0.24
12 8 0.32
13 11 0.44
ACGTcount: A:0.20, C:0.44, G:0.22, T:0.15
Consensus pattern (13 bp):
CGATTACCCGGCC
Found at i:1000893 original size:18 final size:17
Alignment explanation
Indices: 1000870--1000915 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 17
1000860 TGTTTATGAG
*
1000870 GGAATTGGAATTTGTGAA
1 GGAATTGGAATCTGT-AA
*
1000888 GGAATTGAAATCTGTAA
1 GGAATTGGAATCTGTAA
1000905 -GAATTGGAATC
1 GGAATTGGAATC
1000916 CAATTCCATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 10 0.40
17 2 0.08
18 13 0.52
ACGTcount: A:0.37, C:0.04, G:0.28, T:0.30
Consensus pattern (17 bp):
GGAATTGGAATCTGTAA
Found at i:1001598 original size:32 final size:33
Alignment explanation
Indices: 1001530--1001602 Score: 121
Period size: 33 Copynumber: 2.2 Consensus size: 33
1001520 AACCACACCT
* *
1001530 GACCCGAATATCACACTTAAAAAGCCCCGACTC
1 GACCCGAATATCACACTTAAAAAGACCCGACCC
1001563 GACCCGAATATCACACTTAAAAA-ACCCGACCC
1 GACCCGAATATCACACTTAAAAAGACCCGACCC
1001595 GACCCGAA
1 GACCCGAA
1001603 CAAAATAAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
32 15 0.39
33 23 0.61
ACGTcount: A:0.38, C:0.37, G:0.12, T:0.12
Consensus pattern (33 bp):
GACCCGAATATCACACTTAAAAAGACCCGACCC
Found at i:1001819 original size:38 final size:37
Alignment explanation
Indices: 1001761--1001846 Score: 136
Period size: 38 Copynumber: 2.3 Consensus size: 37
1001751 TTTTCACCCT
*
1001761 AAACCCGAACCCGACCCGACCCGAATATCACGCTTAAAA
1 AAACCCG-ACCCGACCCGACCCGAATATCACACTT-AAA
*
1001800 AAACCCGACCCGACTCGACCCGAATATCACACTTAAA
1 AAACCCGACCCGACCCGACCCGAATATCACACTTAAA
1001837 AAACCCGACC
1 AAACCCGACC
1001847 GAACAAAATA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
37 13 0.29
38 25 0.56
39 7 0.16
ACGTcount: A:0.38, C:0.40, G:0.12, T:0.10
Consensus pattern (37 bp):
AAACCCGACCCGACCCGACCCGAATATCACACTTAAA
Found at i:1001978 original size:252 final size:252
Alignment explanation
Indices: 1001466--1002071 Score: 863
Period size: 252 Copynumber: 2.4 Consensus size: 252
1001456 TATAAGATAA
* * *
1001466 AATTATATATTTTTTTCGGGTCGATCCGGTTTTTTTCACCCTAAACCCGAACCCAACCACACCTG
1 AATTATATATATTTTT-GGGTCGGTCCGGTTTTTTTCACCCTAAACCCGAACCC--CGAC-CC-G
*
1001531 ACCCGAATATCACACTT--AAAAA---GCCCCGACTCGACCCGAATATCACACTTAAAAAACCCG
61 ACCCGAATATCACACTTAAAAAAACCCGACCCGACTCGACCCGAATATCACACTTAAAAAA--C-
*
1001591 ACCCGACCCGAACAAAATAAAGTTTCATCCTACCCGACCCGAATATATGAATTAGAAATCCGACC
123 ACCCGACCCGAACAAAATAAAGTTTCATCCGACCCGACCCGAATATATGAATTAGAAATCCGACC
1001656 CGACCCGAAATAATAAAAAAATATTTTTATTTAATAAAAACAATGACTTAATCCGACCCGACCCG
188 CGACCCGAAATAATAAAAAAATATTTTTATTTAATAAAAACAATGACTTAATCCGACCCGACCCG
* *
1001721 AATTATATATATTTTTGGGTCGGTTC-GATTTTTTCACCCTAAACCCGAA-CCCGACCCGACCCG
1 AATTATATATATTTTTGGGTCGGTCCGGTTTTTTTCACCCTAAACCCGAACCCCGACCCGACCCG
*
1001784 AATATCACGCTTAAAAAAACCCGACCCGACTCGACCCGAATATCACACTT-AAAAA-ACCCGA-C
66 AATATCACACTTAAAAAAACCCGACCCGACTCGACCCGAATATCACACTTAAAAAACACCCGACC
1001846 CGAACAAAATAAAGTTTCATCCGACCCGACCCGAATATATGAATTAGAAATCCAACCCGACCCGA
131 CGAACAAAATAAAGTTTCATCCGACCCGACCCGAATATATGAATTAGAAAT-----CCGACCCGA
* * *
1001911 CCCGAAATAATAAAAAATTATTTTTATTTAATAAAAACAGTGACTTAATCCGACCCGACCTG
191 CCCGAAATAATAAAAAAATATTTTTATTTAATAAAAACAATGACTTAATCCGACCCGACCCG
* * *
1001973 AATTATATATATTTTCGGGTCAGTCCGGTTTTTTTCACCCTAAACCCAAACTCGACCTGACCCGA
1 AATTATATATATTTTTGGGTCGGTCCGGTTTTTTTCACCCTAAACCCGAAC-C--CC-GACCCGA
1002038 CCCGAATATCACACTTAAAAAAACCCGACCCGAC
62 CCCGAATATCACACTTAAAAAAACCCGACCCGAC
1002072 CCGAATATAT
Statistics
Matches: 318, Mismatches: 17, Indels: 29
0.87 0.05 0.08
Matches are distributed among these distances:
247 51 0.16
248 23 0.07
249 2 0.01
250 8 0.03
252 98 0.31
253 70 0.22
254 8 0.03
255 16 0.05
257 2 0.01
258 40 0.13
ACGTcount: A:0.36, C:0.29, G:0.12, T:0.23
Consensus pattern (252 bp):
AATTATATATATTTTTGGGTCGGTCCGGTTTTTTTCACCCTAAACCCGAACCCCGACCCGACCCG
AATATCACACTTAAAAAAACCCGACCCGACTCGACCCGAATATCACACTTAAAAAACACCCGACC
CGAACAAAATAAAGTTTCATCCGACCCGACCCGAATATATGAATTAGAAATCCGACCCGACCCGA
AATAATAAAAAAATATTTTTATTTAATAAAAACAATGACTTAATCCGACCCGACCCG
Found at i:1002267 original size:195 final size:193
Alignment explanation
Indices: 1001866--1002249 Score: 666
Period size: 195 Copynumber: 2.0 Consensus size: 193
1001856 AAAGTTTCAT
*
1001866 CCGACCCGACCCGAATATATGAATTAGAAATCCAACCCGACCCGACCCGAAATAATAAAAAATTA
1 CCGACCCGACCCGAATATATGAATTAGAAATCCAACCCGACCCGACCCAAAATAATAAAAAATTA
1001931 TTTTTATTTAATAAAAACAGTGACTTAATCCGACCCGACCTGAATTATATATATTTTCGGGTCAG
66 TTTTTATTTAATAAAAACAGTGACTTAATCCGACCCGACCTGAATTATATATATTTTCGGGTCAG
*
1001996 TCCGGTTTTTTTCACCCTAAACCCAAACTCGACCTGACCCGACCCGAATATCACACTTAAAAAAA
131 TCCGGTTGTTTTCACCCTAAACCCAAACT---CCTGACCCGACCCGAATATCACACTTAAAAAAA
1002061 C
193 C
1002062 CCGACCCGACCCGAATATATGAATTAGAAATCCAACCCGACCCGACCCAAAATAATAAAAAA-TA
1 CCGACCCGACCCGAATATATGAATTAGAAATCCAACCCGACCCGACCCAAAATAATAAAAAATTA
* *
1002126 TTTTTATTTAATAAAAACAGTGACTTAATCCGACCTGACCTGAATTATATATATTTTCGGGTCGG
66 TTTTTATTTAATAAAAACAGTGACTTAATCCGACCCGACCTGAATTATATATATTTTCGGGTCAG
* *
1002191 TCCGGTTGTTTTCACCCTAAACCCGAA-T-TTGACCCGACCCGAATATCACACTTAAAAAA
131 TCCGGTTGTTTTCACCCTAAACCCAAACTCCTGACCCGACCCGAATATCACACTTAAAAAA
1002250 CCCCAATCTG
Statistics
Matches: 182, Mismatches: 6, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
190 30 0.16
194 1 0.01
195 90 0.49
196 61 0.34
ACGTcount: A:0.36, C:0.26, G:0.12, T:0.26
Consensus pattern (193 bp):
CCGACCCGACCCGAATATATGAATTAGAAATCCAACCCGACCCGACCCAAAATAATAAAAAATTA
TTTTTATTTAATAAAAACAGTGACTTAATCCGACCCGACCTGAATTATATATATTTTCGGGTCAG
TCCGGTTGTTTTCACCCTAAACCCAAACTCCTGACCCGACCCGAATATCACACTTAAAAAAAC
Found at i:1002301 original size:195 final size:193
Alignment explanation
Indices: 1001869--1002299 Score: 586
Period size: 195 Copynumber: 2.2 Consensus size: 193
1001859 GTTTCATCCG
* * * * *
1001869 ACCCGACCCGAATATATGAATTAGAAATCCAACCCGACCCGACCCGAAATAATAAAAAATTATTT
1 ACCCGACCCGAAAATATAAATTACAAACCCAACCCGACCCGACCCAAAATAATAAAAAATTATTT
1001934 TTATTTAATAAAAACAGTGACTTAATCCGACCCGACCTGAATTATATATATTTTCGGGTCAGTCC
66 TTATTTAATAAAAACAGTGACTTAATCCGACCCGACCTGAATTATATATATTTTCGGGTCAGTCC
*
1001999 GGTTTTTTTCACCCTAAACCCAAACTCGACCTGACCCGACCCGAATATCACACTTAAAAAAACCC
131 GGTTGTTTTCACCCTAAACCCAAACT---CCTGACCCGACCCGAATATCACACTTAAAAAAACCC
*
1002064 G
193 A
* * * *
1002065 ACCCGACCCGAATATATGAATTAGAAATCCAACCCGACCCGACCCAAAATAATAAAAAA-TATTT
1 ACCCGACCCGAAAATATAAATTACAAACCCAACCCGACCCGACCCAAAATAATAAAAAATTATTT
* *
1002129 TTATTTAATAAAAACAGTGACTTAATCCGACCTGACCTGAATTATATATATTTTCGGGTCGGTCC
66 TTATTTAATAAAAACAGTGACTTAATCCGACCCGACCTGAATTATATATATTTTCGGGTCAGTCC
* * *
1002194 GGTTGTTTTCACCCTAAACCCGAA-T-TTGACCCGACCCGAATATCACACTTAAAAAACCCCA
131 GGTTGTTTTCACCCTAAACCCAAACTCCTGACCCGACCCGAATATCACACTTAAAAAAACCCA
* * * *
1002255 ATCTGACCCGACCAAA-ATAAAATTTC--ACCCGACCCGACCCGACCC
1 ACCCGACCCGA--AAATAT-AAATTACAAACCCAACCCGACCCGACCC
1002300 GAATATATGA
Statistics
Matches: 216, Mismatches: 16, Indels: 12
0.89 0.07 0.05
Matches are distributed among these distances:
190 59 0.27
191 2 0.01
192 6 0.03
194 1 0.00
195 90 0.42
196 58 0.27
ACGTcount: A:0.36, C:0.28, G:0.12, T:0.24
Consensus pattern (193 bp):
ACCCGACCCGAAAATATAAATTACAAACCCAACCCGACCCGACCCAAAATAATAAAAAATTATTT
TTATTTAATAAAAACAGTGACTTAATCCGACCCGACCTGAATTATATATATTTTCGGGTCAGTCC
GGTTGTTTTCACCCTAAACCCAAACTCCTGACCCGACCCGAATATCACACTTAAAAAAACCCA
Found at i:1003180 original size:42 final size:42
Alignment explanation
Indices: 1003128--1003220 Score: 159
Period size: 42 Copynumber: 2.2 Consensus size: 42
1003118 GTCACCTACC
* *
1003128 CACTACCCACGTCGGATATGACTTTTTACATCCATACCCGCT
1 CACTATCCACGGCGGATATGACTTTTTACATCCATACCCGCT
*
1003170 CACTATCCACGGCGGATATGACTTTTTACATCTATACCCGCT
1 CACTATCCACGGCGGATATGACTTTTTACATCCATACCCGCT
1003212 CACTATCCA
1 CACTATCCA
1003221 TCAAACTTAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.25, C:0.34, G:0.12, T:0.29
Consensus pattern (42 bp):
CACTATCCACGGCGGATATGACTTTTTACATCCATACCCGCT
Found at i:1009375 original size:26 final size:27
Alignment explanation
Indices: 1009337--1009414 Score: 77
Period size: 30 Copynumber: 2.8 Consensus size: 27
1009327 ATTTACAAAA
*
1009337 TATATTATAATTATTTTTATAAAATA-
1 TATATTTTAATTATTTTTATAAAATAT
* * *
1009363 TCTATTTTAATTACTATATTTATATATTAT
1 TATATTTTAATTA-T-T-TTTATAAAATAT
1009393 TATATTTTAATTATTTATTATA
1 TATATTTTAATTATTT-TTATA
1009415 TTTAATAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
26 11 0.26
27 2 0.05
28 7 0.17
29 10 0.24
30 12 0.29
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (27 bp):
TATATTTTAATTATTTTTATAAAATAT
Found at i:1009396 original size:16 final size:16
Alignment explanation
Indices: 1009372--1009461 Score: 58
Period size: 16 Copynumber: 5.3 Consensus size: 16
1009362 ATCTATTTTA
*
1009372 ATTACTATATTTATAT
1 ATTATTATATTTATAT
1009388 ATTATTATATTT-TAATT
1 ATTATTATATTTAT-A-T
1009405 ATTTATTATATTTA-AT
1 A-TTATTATATTTATAT
* * *
1009421 AATTAATATTAATAATAATT
1 -ATTATTA-TATTTAT-A-T
*
1009441 ATTATTATATTTATTT
1 ATTATTATATTTATAT
1009457 ATTAT
1 ATTAT
1009462 ATTCATTTAA
Statistics
Matches: 57, Mismatches: 8, Indels: 18
0.69 0.10 0.22
Matches are distributed among these distances:
15 1 0.02
16 24 0.42
17 8 0.14
18 16 0.28
19 7 0.12
20 1 0.02
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (16 bp):
ATTATTATATTTATAT
Found at i:1009417 original size:48 final size:47
Alignment explanation
Indices: 1009365--1009464 Score: 114
Period size: 48 Copynumber: 2.1 Consensus size: 47
1009355 ATAAAATATC
* * *
1009365 TATTT-TAATTACTATATTTATATATTATTA-TATTTTAATTATTTATTA
1 TATTTATAATTA--ATATTAATA-ATAATTATTATTATAATTATTTATTA
*
1009413 TATTTAATAATTAATATTAATAATAATTATTATTATATTTATTTATTA
1 TATTT-ATAATTAATATTAATAATAATTATTATTATAATTATTTATTA
1009461 TATT
1 TATT
1009465 CATTTAATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
47 6 0.13
48 33 0.73
50 6 0.13
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (47 bp):
TATTTATAATTAATATTAATAATAATTATTATTATAATTATTTATTA
Found at i:1009463 original size:13 final size:13
Alignment explanation
Indices: 1009379--1009470 Score: 61
Period size: 13 Copynumber: 7.5 Consensus size: 13
1009369 TTAATTACTA
1009379 TATTTA-TATA-T
1 TATTTATTATATT
* *
1009390 TATTATATTTTAAT
1 TATT-TATTATATT
1009404 TATTTATTATATT
1 TATTTATTATATT
* *
1009417 TAATAATTA-A--
1 TATTTATTATATT
* * *
1009427 TATTAATAATAAT
1 TATTTATTATATT
1009440 TA-TTATTATATT
1 TATTTATTATATT
1009452 TATTTATTATATT
1 TATTTATTATATT
*
1009465 CATTTA
1 TATTTA
1009471 ATTTCTACGT
Statistics
Matches: 63, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
10 7 0.11
11 5 0.08
12 12 0.19
13 34 0.54
14 5 0.08
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (13 bp):
TATTTATTATATT
Found at i:1010139 original size:17 final size:17
Alignment explanation
Indices: 1010117--1010156 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
1010107 AATATTGAAA
**
1010117 TTAAAAATATAACTTTT
1 TTAAAAATATAAAATTT
*
1010134 TTAAAAATCTAAAATTT
1 TTAAAAATATAAAATTT
1010151 TTAAAA
1 TTAAAA
1010157 TCTTAATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (17 bp):
TTAAAAATATAAAATTT
Found at i:1010762 original size:22 final size:22
Alignment explanation
Indices: 1010733--1010776 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
1010723 ATAGTTTACC
1010733 CTTTAA-TTTTAAATAATTTAT
1 CTTTAATTTTTAAATAATTTAT
*
1010754 CTTTAAATTTTTAACTAATTTAT
1 CTTT-AATTTTTAAATAATTTAT
1010777 AATTATAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 4 0.20
22 2 0.10
23 14 0.70
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (22 bp):
CTTTAATTTTTAAATAATTTAT
Found at i:1012819 original size:14 final size:15
Alignment explanation
Indices: 1012788--1012821 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
1012778 ACTTATAATT
1012788 ATAAATTAGTTAAAA
1 ATAAATTAGTTAAAA
*
1012803 ATAAATTA-TTTAAA
1 ATAAATTAGTTAAAA
1012817 ATAAA
1 ATAAA
1012822 GGGTAAACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (15 bp):
ATAAATTAGTTAAAA
Found at i:1014365 original size:56 final size:55
Alignment explanation
Indices: 1014253--1014414 Score: 254
Period size: 56 Copynumber: 2.9 Consensus size: 55
1014243 TAATTTGTTT
*
1014253 ATGAATTT-TCGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGG
1 ATGAATTTCT-GTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAATGG
* * *
1014308 ATGAATTTCTGTATGGGCACTCTATGTGAAAAACTTAAGAAAATCATACTAAATGG
1 ATGAATTTCTGTATGGGCACTTTATGTG-TAAACTTAAGAAATTCATACTAAATGG
*
1014364 ATGAATTTCCGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAA
1 ATGAATTTCTGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAA
1014415 GTGTATAAAT
Statistics
Matches: 97, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
55 46 0.47
56 51 0.53
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (55 bp):
ATGAATTTCTGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAATGG
Found at i:1014427 original size:55 final size:55
Alignment explanation
Indices: 1014253--1014428 Score: 271
Period size: 55 Copynumber: 3.2 Consensus size: 55
1014243 TAATTTGTTT
*
1014253 ATGAATTTTCGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGG
1 ATGAATTTCCGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGG
* * * * *
1014308 ATGAATTTCTGTATGGGCACTCTATGTGAAAAACTTAAGAAAATCATACTAAATGG
1 ATGAATTTCCGTATGGGCACTTTATGTG-TAAACTTAAGAAATTCATACTAAGTGG
*
1014364 ATGAATTTCCGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGT
1 ATGAATTTCCGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGG
*
1014419 ATAAATTTCC
1 ATGAATTTCC
1014429 ATATTGATAG
Statistics
Matches: 107, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
55 57 0.53
56 50 0.47
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (55 bp):
ATGAATTTCCGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGG
Found at i:1014831 original size:45 final size:46
Alignment explanation
Indices: 1014776--1014865 Score: 130
Period size: 45 Copynumber: 2.0 Consensus size: 46
1014766 ATGTATAAAA
* *
1014776 GGAATAAAAGGATGGCATAATTG-AAATGCAT-ATGGATGCATTATC
1 GGAATAAAAGGATGACATAAATGAAAATGCATAATGG-TGCATTATC
*
1014821 GGAATGAAAGGATGACATAAATGAAAATGCATAATGGTGCATTAT
1 GGAATAAAAGGATGACATAAATGAAAATGCATAATGGTGCATTAT
1014866 AAGCATGAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
45 20 0.50
46 16 0.40
47 4 0.10
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.26
Consensus pattern (46 bp):
GGAATAAAAGGATGACATAAATGAAAATGCATAATGGTGCATTATC
Found at i:1014874 original size:46 final size:45
Alignment explanation
Indices: 1014777--1014874 Score: 117
Period size: 46 Copynumber: 2.2 Consensus size: 45
1014767 TGTATAAAAG
* * * **
1014777 GAATAAAAGGATGGCATAATTGAAATGCATATGGATGCATTATCG
1 GAATGAAAGGATGACATAAATGAAATGCATATGGATGCATTATAA
1014822 GAATGAAAGGATGACATAAATGAAAATGCATAATGG-TGCATTATAA
1 GAATGAAAGGATGACATAAATG-AAATGCAT-ATGGATGCATTATAA
*
1014868 GCATGAA
1 GAATGAA
1014875 TGAATGTTGT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
45 19 0.42
46 22 0.49
47 4 0.09
ACGTcount: A:0.44, C:0.08, G:0.23, T:0.24
Consensus pattern (45 bp):
GAATGAAAGGATGACATAAATGAAATGCATATGGATGCATTATAA
Found at i:1018828 original size:23 final size:23
Alignment explanation
Indices: 1018802--1018846 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1018792 GAATTACTAT
1018802 GTAGAATTACACCGAAGTGCCAC
1 GTAGAATTACACCGAAGTGCCAC
* * *
1018825 GTAGAATTGCACTGTAGTGCCA
1 GTAGAATTACACCGAAGTGCCA
1018847 TATAAAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.22
Consensus pattern (23 bp):
GTAGAATTACACCGAAGTGCCAC
Found at i:1021350 original size:12 final size:12
Alignment explanation
Indices: 1021333--1021375 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
1021323 TTAAATAGTG
1021333 GTGAACAGTACC
1 GTGAACAGTACC
*
1021345 GTGAACATTA--
1 GTGAACAGTACC
*
1021355 ATGAACAGTACC
1 GTGAACAGTACC
1021367 GTGAACAGT
1 GTGAACAGT
1021376 GAACAATGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
10 8 0.32
12 17 0.68
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.21
Consensus pattern (12 bp):
GTGAACAGTACC
Found at i:1024584 original size:22 final size:22
Alignment explanation
Indices: 1024559--1024612 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
1024549 AAATATTTTT
* *
1024559 TAAATAGTGGTGAACAGTACCG
1 TAAACAGTGATGAACAGTACCG
* *
1024581 TAAACAGTGATGAATAGTACCA
1 TAAACAGTGATGAACAGTACCG
*
1024603 TGAACAGTGA
1 TAAACAGTGA
1024613 ACAATATACC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.22
Consensus pattern (22 bp):
TAAACAGTGATGAACAGTACCG
Found at i:1024618 original size:22 final size:22
Alignment explanation
Indices: 1024574--1024622 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
1024564 AGTGGTGAAC
* **
1024574 AGTACCGTAAACAGTGATGAAT
1 AGTACCATAAACAGTGAACAAT
*
1024596 AGTACCATGAACAGTGAACAAT
1 AGTACCATAAACAGTGAACAAT
1024618 A-TACC
1 AGTACC
1024623 GATGCACTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.43, C:0.18, G:0.18, T:0.20
Consensus pattern (22 bp):
AGTACCATAAACAGTGAACAAT
Found at i:1025343 original size:61 final size:61
Alignment explanation
Indices: 1025236--1025350 Score: 178
Period size: 61 Copynumber: 1.9 Consensus size: 61
1025226 GTAGTGCTAA
*
1025236 ACCTGCACTAAGCTTACGCCATAGTGCTAATCCGGATAATACACATAAGGTCGTGCCCACC
1 ACCTACACTAAGCTTACGCCATAGTGCTAATCCGGATAATACACATAAGGTCGTGCCCACC
* * *
1025297 ACCTACACTAAGCTTACGCTATAGTGCTAATCCGGA-CATGATACATAAGGTCGT
1 ACCTACACTAAGCTTACGCCATAGTGCTAATCCGGATAAT-ACACATAAGGTCGT
1025351 ATCCACCTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
60 2 0.04
61 47 0.96
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.23
Consensus pattern (61 bp):
ACCTACACTAAGCTTACGCCATAGTGCTAATCCGGATAATACACATAAGGTCGTGCCCACC
Found at i:1033839 original size:20 final size:20
Alignment explanation
Indices: 1033811--1033866 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
1033801 TTATGAATAG
*
1033811 TACTATATGAATAGTACCAA
1 TACTGTATGAATAGTACCAA
*
1033831 TACTGTATGAATAGTACTAA
1 TACTGTATGAATAGTACCAA
* *
1033851 TACTGTGTGAACAGTA
1 TACTGTATGAATAGTA
1033867 TCGATGCTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.32
Consensus pattern (20 bp):
TACTGTATGAATAGTACCAA
Found at i:1034460 original size:23 final size:23
Alignment explanation
Indices: 1034414--1034483 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
1034404 CTCGTATAAA
* * *
1034414 TGCATCGAAGTACTACATATAAT
1 TGCATCGAAGTGCCACATAGAAT
*
1034437 TGCATCGAAGTGCCACGTAGAAT
1 TGCATCGAAGTGCCACATAGAAT
* * * *
1034460 TGCACCGTAGTGCCATATAAAAT
1 TGCATCGAAGTGCCACATAGAAT
1034483 T
1 T
1034484 TTCCATAAAG
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (23 bp):
TGCATCGAAGTGCCACATAGAAT
Found at i:1037747 original size:19 final size:20
Alignment explanation
Indices: 1037725--1037769 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
1037715 ATGGTATCAG
1037725 TACCATAATAGAG-TATCGA
1 TACCATAATAGAGATATCGA
** *
1037744 TACCATGGTAGGGATATCGA
1 TACCATAATAGAGATATCGA
1037764 TACCAT
1 TACCAT
1037770 CGAGCCAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.27
Consensus pattern (20 bp):
TACCATAATAGAGATATCGA
Found at i:1037964 original size:36 final size:36
Alignment explanation
Indices: 1037917--1038003 Score: 138
Period size: 36 Copynumber: 2.4 Consensus size: 36
1037907 AGATCAAAAT
* * * *
1037917 CAAGTTCCCGAGTCAAACAAAATGAAAGGCAAAGGC
1 CAAGTACCCGAGTAAAAAAAAACGAAAGGCAAAGGC
1037953 CAAGTACCCGAGTAAAAAAAAACGAAAGGCAAAGGC
1 CAAGTACCCGAGTAAAAAAAAACGAAAGGCAAAGGC
1037989 CAAGTACCCGAGTAA
1 CAAGTACCCGAGTAA
1038004 TCAACTTTGT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 47 1.00
ACGTcount: A:0.47, C:0.22, G:0.22, T:0.09
Consensus pattern (36 bp):
CAAGTACCCGAGTAAAAAAAAACGAAAGGCAAAGGC
Found at i:1038226 original size:55 final size:55
Alignment explanation
Indices: 1038167--1038395 Score: 293
Period size: 55 Copynumber: 4.2 Consensus size: 55
1038157 TAATTTGTTT
* *
1038167 ATGAATTTCCGTATGGGCACTTTAT-TGGTAAACTTAAGAAATTTATACTAAGTGG
1 ATGAATTTCCGTATGGGCACTTTATGT-GTAAACTTAAAAAATTCATACTAAGTGG
* *
1038222 ATGAATTTCCGTATAGGCACTTTATGTGTAAACTTAAAAAATTGATACTAAGTGG
1 ATGAATTTCCGTATGGGCACTTTATGTGTAAACTTAAAAAATTCATACTAAGTGG
* * *
1038277 ATGAATTTTCGTAT-GTCACTTTATGTGTAAACTTAAAAAATTCATACTAAGTTG
1 ATGAATTTCCGTATGGGCACTTTATGTGTAAACTTAAAAAATTCATACTAAGTGG
* ** ** *
1038331 ATGAATTTCTGTATGGGCACTTTATGTACAAAAC-TAGGAAATTCATACTAAGTGT
1 ATGAATTTCCGTATGGGCACTTTATGT-GTAAACTTAAAAAATTCATACTAAGTGG
*
1038386 ATAAATTTCC
1 ATGAATTTCC
1038396 ATATTAATAG
Statistics
Matches: 153, Mismatches: 18, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
54 49 0.32
55 99 0.65
56 5 0.03
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.37
Consensus pattern (55 bp):
ATGAATTTCCGTATGGGCACTTTATGTGTAAACTTAAAAAATTCATACTAAGTGG
Found at i:1038373 original size:109 final size:110
Alignment explanation
Indices: 1038167--1038395 Score: 293
Period size: 109 Copynumber: 2.1 Consensus size: 110
1038157 TAATTTGTTT
* *
1038167 ATGAATTTCCGTATGGGCACTTTATTGGTAAACTTAAGAAATTTATACTAAGTGGATGAATTTCC
1 ATGAATTTCCGTATGGGCACTTTATTGGTAAACTTAAAAAATTCATACTAAGTGGATGAATTTCC
** *
1038232 GTATAGGCACTTTATGTGTAAACTTAAAAAATTGATACTAAGTGG
66 GTATAGGCACTTTATGTCAAAACTTAAAAAATTCATACTAAGTGG
* * *
1038277 ATGAATTTTCGTAT-GTCACTTTA-TGTGTAAACTTAAAAAATTCATACTAAGTTGATGAATTTC
1 ATGAATTTCCGTATGGGCACTTTATTG-GTAAACTTAAAAAATTCATACTAAGTGGATGAATTTC
* * ** *
1038340 TGTATGGGCACTTTATGTACAAAAC-TAGGAAATTCATACTAAGTGT
65 CGTATAGGCACTTTATGT-CAAAACTTAAAAAATTCATACTAAGTGG
*
1038386 ATAAATTTCC
1 ATGAATTTCC
1038396 ATATTAATAG
Statistics
Matches: 102, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
108 2 0.02
109 83 0.81
110 17 0.17
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.37
Consensus pattern (110 bp):
ATGAATTTCCGTATGGGCACTTTATTGGTAAACTTAAAAAATTCATACTAAGTGGATGAATTTCC
GTATAGGCACTTTATGTCAAAACTTAAAAAATTCATACTAAGTGG
Found at i:1038801 original size:46 final size:46
Alignment explanation
Indices: 1038721--1038832 Score: 140
Period size: 46 Copynumber: 2.5 Consensus size: 46
1038711 AAAGGCATAC
* * *
1038721 AAGGATGCCATAATTG-AAATGCATATGGGTGCATTATCAGCATGA
1 AAGGATGTCATAAATGAAAATGCATATGGGTGCATTATAAGCATGA
1038766 AAGGATGTCATAAATGAAAATGCATAAT-GGTGCATTATAAGCATGA
1 AAGGATGTCATAAATGAAAATGCAT-ATGGGTGCATTATAAGCATGA
* *
1038812 ATGGATGCTC-TCAATGAAAAT
1 AAGGATG-TCATAAATGAAAAT
1038833 AAAAAATAAT
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
45 14 0.24
46 41 0.69
47 4 0.07
ACGTcount: A:0.39, C:0.12, G:0.22, T:0.27
Consensus pattern (46 bp):
AAGGATGTCATAAATGAAAATGCATATGGGTGCATTATAAGCATGA
Found at i:1040328 original size:22 final size:21
Alignment explanation
Indices: 1040288--1040330 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
1040278 TTAGAAAATT
1040288 TATTTTTTAAAAAAGTAAAAA
1 TATTTTTTAAAAAAGTAAAAA
* *
1040309 TATTATTTTAAAATATTAAAAA
1 TATT-TTTTAAAAAAGTAAAAA
1040331 AAACAATTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (21 bp):
TATTTTTTAAAAAAGTAAAAA
Found at i:1041923 original size:23 final size:22
Alignment explanation
Indices: 1041895--1041943 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
1041885 GGGACAAGTT
1041895 TTATTTTTTT-TTTAAAAATAATA
1 TTATTTTTTTATTT-AAAATAA-A
*
1041918 TTATTTTTTTATTTTAAATAAA
1 TTATTTTTTTATTTAAAATAAA
1041940 TTAT
1 TTAT
1041944 ATAAATATAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 5 0.21
23 16 0.67
24 3 0.12
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
TTATTTTTTTATTTAAAATAAA
Found at i:1042397 original size:37 final size:37
Alignment explanation
Indices: 1042347--1042423 Score: 127
Period size: 37 Copynumber: 2.1 Consensus size: 37
1042337 GTTGACCCAA
1042347 CTCCTTATGTGATGGACGAGCCAAAGTTAAACAAATT
1 CTCCTTATGTGATGGACGAGCCAAAGTTAAACAAATT
* * *
1042384 CTCCTTATGTGATGGACGGGCCAAGGTTAAACAAGTT
1 CTCCTTATGTGATGGACGAGCCAAAGTTAAACAAATT
1042421 CTC
1 CTC
1042424 ATTTTGATCT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (37 bp):
CTCCTTATGTGATGGACGAGCCAAAGTTAAACAAATT
Found at i:1044509 original size:12 final size:13
Alignment explanation
Indices: 1044492--1044521 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1044482 TCATTTCTTT
1044492 TTTTTCCT-CCTC
1 TTTTTCCTCCCTC
1044504 TTTTTCCTCCCTC
1 TTTTTCCTCCCTC
1044517 TTTTT
1 TTTTT
1044522 TCTTTCTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.47
13 9 0.53
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (13 bp):
TTTTTCCTCCCTC
Found at i:1044546 original size:22 final size:22
Alignment explanation
Indices: 1044518--1044603 Score: 86
Period size: 24 Copynumber: 3.7 Consensus size: 22
1044508 TCCTCCCTCT
1044518 TTTTTCTTTCTTTTATT-TTTTA
1 TTTTTCTTTCTTTT-TTCTTTTA
*
1044540 TTTTTCTTTCTTTCTTTCATTTTC
1 TTTTTCTTTCTTT-TTTC-TTTTA
*
1044564 TTTTT-TTTCTTCTTCTTCTTACTA
1 TTTTTCTTTCTT-TT-TTCTT-TTA
1044588 TTTTTCTTTCTTTTTT
1 TTTTTCTTTCTTTTTT
1044604 TTTGTTCAAG
Statistics
Matches: 54, Mismatches: 3, Indels: 13
0.77 0.04 0.19
Matches are distributed among these distances:
22 15 0.28
23 12 0.22
24 21 0.39
25 6 0.11
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.78
Consensus pattern (22 bp):
TTTTTCTTTCTTTTTTCTTTTA
Found at i:1044554 original size:30 final size:29
Alignment explanation
Indices: 1044515--1044577 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 29
1044505 TTTTCCTCCC
*
1044515 TCTTTTTTCTTTC-TTTTATTTTTTATTTT
1 TCTTTTTTCTTTCATTTTATTTTTT-TTCT
*
1044544 TCTTTCTTTCTTTCATTTTCTTTTTTTTCT
1 TCTTT-TTTCTTTCATTTTATTTTTTTTCT
1044574 TCTT
1 TCTT
1044578 CTTCTTACTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
29 5 0.17
30 15 0.50
31 10 0.33
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (29 bp):
TCTTTTTTCTTTCATTTTATTTTTTTTCT
Found at i:1044555 original size:26 final size:27
Alignment explanation
Indices: 1044520--1044600 Score: 86
Period size: 26 Copynumber: 3.3 Consensus size: 27
1044510 CTCCCTCTTT
*
1044520 TTTCTTTCTTTTATTTT-TTATTTTTC
1 TTTCTTTCTTTCATTTTCTTATTTTTC
*
1044546 TTTCTTTCTTTCATTTTCTTTTTTTTC
1 TTTCTTTCTTTCATTTTCTTATTTTTC
*
1044573 -TTC-TTC-TTC--TTAC-TATTTTTC
1 TTTCTTTCTTTCATTTTCTTATTTTTC
1044594 TTTCTTT
1 TTTCTTT
1044601 TTTTTTGTTC
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
21 7 0.15
22 6 0.12
23 2 0.04
24 3 0.06
25 3 0.06
26 19 0.40
27 8 0.17
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.77
Consensus pattern (27 bp):
TTTCTTTCTTTCATTTTCTTATTTTTC
Found at i:1044583 original size:36 final size:33
Alignment explanation
Indices: 1044518--1044606 Score: 99
Period size: 36 Copynumber: 2.6 Consensus size: 33
1044508 TCCTCCCTCT
* *
1044518 TTTTTCTTTCTTTTATTTTTTATTTTTCTTTCT-
1 TTTTTCTTTCTTTT-TTTTTTATTCTTCTTACTA
*
1044551 TTCTTTCATTTTCTTTTTTTTCTTCTTCTTCTTACTA
1 TT-TTTC--TTTCTTTTTTTT-TTATTCTTCTTACTA
1044588 TTTTTCTTTCTTTTTTTTT
1 TTTTTCTTTCTTTTTTTTT
1044607 GTTCAAGTGT
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
33 3 0.06
34 16 0.33
35 4 0.08
36 23 0.48
37 2 0.04
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.79
Consensus pattern (33 bp):
TTTTTCTTTCTTTTTTTTTTATTCTTCTTACTA
Found at i:1045519 original size:50 final size:50
Alignment explanation
Indices: 1045460--1045587 Score: 141
Period size: 50 Copynumber: 2.6 Consensus size: 50
1045450 TTAGCAGAAA
* * * * *
1045460 AGCGCGCCCCTTGCACCGCGTTATATGCTGATTTGGTGCCACGTGAGTAT
1 AGCGCGCCCCCTGCACCGCGATATACGCTGATCTGGCGCCACGTGAGTAT
* * * *
1045510 AGCGCGCCCCCTGCCCCGTGATATACGGTGATCTGGCGCCACGTGGGTAT
1 AGCGCGCCCCCTGCACCGCGATATACGCTGATCTGGCGCCACGTGAGTAT
* *
1045560 AGCGTGCCCCCTG-ATCCGCGCTATACGC
1 AGCGCGCCCCCTGCA-CCGCGATATACGC
1045588 CATGTAGGGG
Statistics
Matches: 63, Mismatches: 14, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
50 63 1.00
ACGTcount: A:0.15, C:0.34, G:0.29, T:0.23
Consensus pattern (50 bp):
AGCGCGCCCCCTGCACCGCGATATACGCTGATCTGGCGCCACGTGAGTAT
Found at i:1051395 original size:111 final size:111
Alignment explanation
Indices: 1051247--1051468 Score: 392
Period size: 111 Copynumber: 2.0 Consensus size: 111
1051237 ATTACAAAAA
* *
1051247 TTAATTCTTAATCTAATAATCATGCATTAAATGAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
*
1051312 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
*
1051358 TTAATTCTTAATCTAATAATTATGCA-TATAATAAATCAACTAAATATTACTAATAATTTAAATT
1 TTAATTCTTAATCTAATAATCATGCATTA-AATAAATCAACTAAATATTACTAATAATTTAAATT
1051422 AAATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
65 AAATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
1051469 ATGATTTCCA
Statistics
Matches: 106, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
110 2 0.02
111 104 0.98
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.36
Consensus pattern (111 bp):
TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
Done.