Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 334 of 345
Found at i:99775615 original size:15 final size:15
Alignment explanation
Indices: 99775595--99775628 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
99775585 CTATTGTTCA
*
99775595 AGAATAGCTATGTCC
1 AGAATAACTATGTCC
*
99775610 AGAATAACTATGTTC
1 AGAATAACTATGTCC
99775625 AGAA
1 AGAA
99775629 CAAGACTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (15 bp):
AGAATAACTATGTCC
Found at i:99789416 original size:19 final size:19
Alignment explanation
Indices: 99789392--99789489 Score: 164
Period size: 19 Copynumber: 5.2 Consensus size: 19
99789382 AATCTTTAAG
99789392 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
99789411 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
99789430 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
99789447 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
99789466 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
99789487 GAT
1 GAT
99789490 CTTGTAATCT
Statistics
Matches: 75, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.23
19 49 0.65
21 9 0.12
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:99789422 original size:36 final size:35
Alignment explanation
Indices: 99789382--99789489 Score: 112
Period size: 36 Copynumber: 2.9 Consensus size: 35
99789372 ATGGAAATAT
99789382 AATCTTTAAGGATATGCAATCTTAGATATGATATGC
1 AATCTTTAA-GATATGCAATCTTAGATATGATATGC
99789418 AATC-TT-AGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAAGATATG---CAATCTTAGATATGATATGC
*
99789454 AATCTTAGATATGATATGCAATCTTGAAGATATGAT
1 AATCTT---TAAGATATGCAATCTT--AGATATGAT
99789490 CTTGTAATCT
Statistics
Matches: 61, Mismatches: 1, Indels: 16
0.78 0.01 0.21
Matches are distributed among these distances:
33 6 0.10
34 1 0.02
35 2 0.03
36 28 0.46
37 1 0.02
38 7 0.11
40 10 0.16
41 6 0.10
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (35 bp):
AATCTTTAAGATATGCAATCTTAGATATGATATGC
Found at i:99797229 original size:44 final size:44
Alignment explanation
Indices: 99797178--99797591 Score: 285
Period size: 44 Copynumber: 9.4 Consensus size: 44
99797168 GGGACAATGT
* * *
99797178 AGATCAAAGA-AACAAGATTTGACATCTCTGTGTTTATAGGGAAC
1 AGATCGAAGATAAC-AGATCTGACATCCCTGTGTTTATAGGGAAC
* * * * * *
99797222 AGATCAAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGC
1 AGATCGAAGATAACAGATCTGACATCCCTGTGTTTATAGGGAA-C
** *
99797267 AGATCGAAGATTTCAG--CATGGCATCCCTGTGTTTATAGGGAAC
1 AGATCGAAGATAACAGATC-TGACATCCCTGTGTTTATAGGGAAC
* ** * * *
99797310 A-AGTTGAAGATAGTAGATTTGGCATCCCTGTGTTTATAGGGAAT
1 AGA-TCGAAGATAACAGATCTGACATCCCTGTGTTTATAGGGAAC
* * * *
99797354 AAATCGAAGATAACAGATCTGACA-CTCCTGTGCTTACAGCGAAGC
1 AGATCGAAGATAACAGATCTGACATC-CCTGTGTTTATAGGGAA-C
* ** *
99797399 AGATCGAGGATTTCA-A-CATGGCATCCCTGTGTTTATAGGGAAC
1 AGATCGAAGATAACAGATC-TGACATCCCTGTGTTTATAGGGAAC
* * * *
99797442 A-AGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAAC
1 AGA-TCGAAGATAACAGATCTGACATCCCTGTGTTTATAGGGAAC
* * *
99797486 AGATCGAAGATAACAGATCTGACA-CTCCTGTGCTTACAGCGAAGC
1 AGATCGAAGATAACAGATCTGACATC-CCTGTGTTTATAGGGAA-C
* ** *
99797531 AGATCAAAGATTTCAG--CATGGCATCCCTGTGTTTATAGGGAAC
1 AGATCGAAGATAACAGATC-TGACATCCCTGTGTTTATAGGGAAC
* *
99797574 A-AGTTGAAGATAGCAGAT
1 AGA-TCGAAGATAACAGAT
99797592 TTGGTATCTC
Statistics
Matches: 287, Mismatches: 61, Indels: 43
0.73 0.16 0.11
Matches are distributed among these distances:
42 3 0.01
43 37 0.13
44 202 0.70
45 45 0.16
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.26
Consensus pattern (44 bp):
AGATCGAAGATAACAGATCTGACATCCCTGTGTTTATAGGGAAC
Found at i:99797384 original size:88 final size:88
Alignment explanation
Indices: 99797200--99797648 Score: 306
Period size: 88 Copynumber: 5.1 Consensus size: 88
99797190 CAAGATTTGA
* * * * * * * *
99797200 CATCTCTGTGTTTATAGGGAACAGATCAAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAA
1 CATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAA
* **
99797265 GCAGATCGAAGATTTCAG--CATGG
66 -CAAATCGAAGATAACAGATC-TGG
* *
99797288 CATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGTAGATTTGGCATCCCTGTGTTTATAGGGA
1 CATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGA
* *
99797352 ATAAATCGAAGATAACAGATCTGA
65 ACAAATCGAAGATAACAGATCTGG
* * * * ** **
99797376 CA-CTCCTGTGCTTACAGCGAAGCAGATCGAGGATTTCA-ACATGGCATCCCTGTGTTTATAGGG
1 CATC-CCTGTGTTTATAGGGAA-CAGATCGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGG
* * * *
99797439 AACAAGTTGAAGATAGCAGATTTGG
64 AACAAATCGAAGATAACAGATCTGG
* * * * * *
99797464 CATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTGACA-CTCCTGTGCTTACAGCGA
1 CATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATTTGGCATC-CCTGTGTTTATAGGGA
* * **
99797528 AGCAGATCAAAGATTTCAG--CATGG
65 A-CAAATCGAAGATAACAGATC-TGG
* * * * * *
99797552 CATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGCAGATTTGGTATCTCTGTATTGT-CAGAG
1 CATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGCAGATTTGGCATCCCTGTGTT-TATAGGG
* * * *
99797615 AGCAGATCGAAGATACCAGATTTGG
64 AACAAATCGAAGATAACAGATCTGG
*
99797640 CATCTCTGT
1 CATCCCTGT
99797649 ATTGGCGGAG
Statistics
Matches: 280, Mismatches: 65, Indels: 32
0.74 0.17 0.08
Matches are distributed among these distances:
87 44 0.16
88 211 0.75
89 24 0.09
90 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (88 bp):
CATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAA
CAAATCGAAGATAACAGATCTGG
Found at i:99797429 original size:132 final size:132
Alignment explanation
Indices: 99797192--99797635 Score: 701
Period size: 132 Copynumber: 3.4 Consensus size: 132
99797182 CAAAGAAACA
* * * * *
99797192 AGATTTGACATCTCTGTGTTTATAGGGAACAGATCAAAGATAGCAGATCTGACATTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTGACACTCCTGTGCTT
*
99797257 ACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
*
99797322 GT
131 GC
* *
99797324 AGATTTGGCATCCCTGTGTTTATAGGGAATAAATCGAAGATAACAGATCTGACACTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTGACACTCCTGTGCTT
* *
99797389 ACAGCGAAGCAGATCGAGGATTTCAACATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
99797454 GC
131 GC
99797456 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTGACACTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTGACACTCCTGTGCTT
*
99797521 ACAGCGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
99797586 GC
131 GC
* * * * * * *
99797588 AGATTTGGTATCTCTGTATTGT-CAGAGAGCAGATCGAAGATACCAGAT
1 AGATTTGGCATCCCTGTGTT-TATAGGGAACAGATCGAAGATAACAGAT
99797636 TTGGCATCTC
Statistics
Matches: 288, Mismatches: 23, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
132 287 1.00
133 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.27
Consensus pattern (132 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTGACACTCCTGTGCTT
ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
GC
Found at i:99797645 original size:44 final size:44
Alignment explanation
Indices: 99797579--99797671 Score: 150
Period size: 44 Copynumber: 2.1 Consensus size: 44
99797569 GGAACAAGTT
* * *
99797579 GAAGATAGCAGATTTGGTATCTCTGTATTGTCAGAGAGCAGATC
1 GAAGATACCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATC
*
99797623 GAAGATACCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATC
1 GAAGATACCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATC
99797667 GAAGA
1 GAAGA
99797672 CATAGCTGAT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.26
Consensus pattern (44 bp):
GAAGATACCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATC
Found at i:99799843 original size:6 final size:6
Alignment explanation
Indices: 99799825--99799944 Score: 86
Period size: 6 Copynumber: 19.3 Consensus size: 6
99799815 AAGAAACATT
* *
99799825 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
* * *
99799874 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA ATCAGT ATCAAGTA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATC-AG-A
*
99799925 A-CAGA ATCAAAA ATCAGA AT
1 ATCAGA ATC-AGA ATCAGA AT
99799945 GTGAATGCAA
Statistics
Matches: 90, Mismatches: 12, Indels: 24
0.71 0.10 0.19
Matches are distributed among these distances:
5 7 0.08
6 65 0.72
7 15 0.17
8 3 0.03
ACGTcount: A:0.50, C:0.16, G:0.15, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:99799869 original size:19 final size:19
Alignment explanation
Indices: 99799845--99799902 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
99799835 GAATCAGAAT
99799845 CAGAATCAGTATCAGGTAA
1 CAGAATCAGTATCAGGTAA
*
99799864 CAGAATCA--A--A---AT
1 CAGAATCAGTATCAGGTAA
99799876 CAGAATCAGTATCAGGTAA
1 CAGAATCAGTATCAGGTAA
99799895 CAGAATCA
1 CAGAATCA
99799903 AAATCAGAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 14
0.65 0.04 0.30
Matches are distributed among these distances:
12 9 0.30
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
19 17 0.57
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.19
Consensus pattern (19 bp):
CAGAATCAGTATCAGGTAA
Found at i:99799870 original size:31 final size:31
Alignment explanation
Indices: 99799834--99799944 Score: 195
Period size: 31 Copynumber: 3.5 Consensus size: 31
99799824 TATCAGAACT
*
99799834 AGAATCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
99799865 AGAATCAAAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
*
99799896 AGAATCAAAATCAGAATCAGTATCAAGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
99799927 AGAATCAAAAATCAGAAT
1 AGAATC-AAAATCAGAAT
99799945 GTGAATGCAA
Statistics
Matches: 77, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
31 66 0.86
32 11 0.14
ACGTcount: A:0.50, C:0.15, G:0.15, T:0.19
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGTATCAGGTAAC
Found at i:99800123 original size:27 final size:27
Alignment explanation
Indices: 99800084--99800174 Score: 130
Period size: 27 Copynumber: 3.4 Consensus size: 27
99800074 CAGTTATCAA
**
99800084 ATATTGTAACAGAGTCACCAGATACAG
1 ATATTGTGGCAGAGTCACCAGATACAG
99800111 ATATTGTGGCAGAGTCACCAGATACAG
1 ATATTGTGGCAGAGTCACCAGATACAG
* *
99800138 ATATTGTGGCAGAGCCACCAGA-ACAA
1 ATATTGTGGCAGAGTCACCAGATACAG
*
99800164 ATAATGTGGCA
1 ATATTGTGGCA
99800175 AAGCCACTTA
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
26 13 0.22
27 46 0.78
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.21
Consensus pattern (27 bp):
ATATTGTGGCAGAGTCACCAGATACAG
Found at i:99800368 original size:22 final size:22
Alignment explanation
Indices: 99800340--99800404 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
99800330 GCAAATACGT
99800340 TTGGCACAAAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
99800362 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
99800384 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
99800405 AAGGCTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:99800887 original size:27 final size:27
Alignment explanation
Indices: 99800831--99801131 Score: 410
Period size: 27 Copynumber: 11.3 Consensus size: 27
99800821 GGGGCAAAAT
* * *
99800831 GGTAATTTTACCCTACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
99800857 GGTAATTCCACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
99800884 GGTAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
99800911 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
99800938 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
99800965 GGTAATTCTACCCTACAGGGGTA-TTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
99800991 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
99801018 AGTAATTCTGCCCTACA-GGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
99801044 GCTAATTCTATCCTACAGAGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
99801071 GGTAATTCTACCCTACAAGGGTATATC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
99801098 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
99801125 AGTAATT
1 GGTAATT
99801132 TTGTAAATCA
Statistics
Matches: 241, Mismatches: 31, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
26 61 0.25
27 180 0.75
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:99801143 original size:27 final size:27
Alignment explanation
Indices: 99801113--99801536 Score: 347
Period size: 27 Copynumber: 15.7 Consensus size: 27
99801103 TTCTACCCTA
** **
99801113 CAAGGGTATTTCAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
**** * **
99801140 CAAGGGTAAAACGGTAATTCTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *
99801167 CAAGGGTACTTTGGTAATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *** **
99801194 CGAGGGT-TTTCAATAATTTTACAGGT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* ** *
99801220 CGAGGGTATTTCAGTAATTTCACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *
99801247 CAGGGGTATTTTGGTAATTTCACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
*
99801274 CAGGGGTATTTTGGTAATTTTACAAA-
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * *
99801300 CTAGGGGTATTTTGATAATTTTACAAAC
1 C-AAGGGTATTTTGGTAATTTTACAAAT
*
99801328 CAGGGGTATTTTGGTAATTTTACAAA-
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *
99801354 CTAGGAGTATTTTGGTAATTTTATAAA-
1 CAAGG-GTATTTTGGTAATTTTACAAAT
*
99801381 CAAAGGGTATTTTAGG-AATTTTACAAAC
1 C-AAGGGTATTTT-GGTAATTTTACAAAT
* ** *
99801409 CATGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *
99801436 CAAAGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * * *
99801463 CAGGGGTATTTTTGTGATTTTATAAA-
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *
99801489 CTAAGGGTATTTTAGTAATTTTACAAAC
1 C-AAGGGTATTTTGGTAATTTTACAAAT
*
99801517 CAGGGGTATTTTGGTAATTT
1 CAAGGGTATTTTGGTAATTT
99801537 GGTAAACTAA
Statistics
Matches: 334, Mismatches: 53, Indels: 20
0.82 0.13 0.05
Matches are distributed among these distances:
26 28 0.08
27 298 0.89
28 8 0.02
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAT
Found at i:99801543 original size:27 final size:27
Alignment explanation
Indices: 99801223--99801536 Score: 396
Period size: 27 Copynumber: 11.6 Consensus size: 27
99801213 TACAGGTCGA
** * *
99801223 GGGTATTTCAGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
99801250 GGGTATTTTGGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
99801277 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
99801304 GGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
99801331 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * * *
99801358 GAGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
99801385 GGGTATTTTAGG-AATTTTACAAACCAT
1 GGGTATTTT-GGTAATTTTACAAACCAG
** *
99801412 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
99801439 AGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * * * *
99801466 GGGTATTTTTGTGATTTTATAAACTAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
99801493 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
99801520 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
99801537 GGTAAACTAA
Statistics
Matches: 249, Mismatches: 36, Indels: 4
0.86 0.12 0.01
Matches are distributed among these distances:
26 2 0.01
27 245 0.98
28 2 0.01
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:99802741 original size:206 final size:206
Alignment explanation
Indices: 99802380--99802847 Score: 785
Period size: 206 Copynumber: 2.3 Consensus size: 206
99802370 GGGTGTTACA
99802380 TGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAAT
1 TGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAAT
*
99802445 CTAAGATGATTTGGCATCTCTGTATTGTCAGAAAACAAATCGAAGTTTGGCGTCTCCATATTCGA
66 CTAAGATGATTTGGCATCTCTGTATTGTCAGAAAACAAATCGAAGTTTGGCATCTCCATATTCGA
* * * *
99802510 TGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTATATTGAAGCAAATCCAAGATGATT
131 CGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCAAATCCAAGATGATT
*
99802575 TGGCATTCTTG
196 TGGCATCCTTG
99802586 TGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAAT
1 TGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAAT
*
99802651 CTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCATCTCCATATTCGA
66 CTAAGATGATTTGGCATCTCTGTATTGTCAGAAAACAAATCGAAGTTTGGCATCTCCATATTCGA
* * *
99802716 CGGA-AGGCAGACACATAGTAGATCTAACCTTCAGATGATTAGACTGAAGCAGATCCAAGATGGT
131 CGGAGA-GCAGACACATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCAAATCCAAGATGAT
*
99802780 TTGGTATCCTTG
195 TTGGCATCCTTG
* * * *
99802792 TGCTTACAAGGAGCAAATCGAAGACATAGTTGATTTGGTTTTCGCGTGCTTACGAT
1 TGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGAT
99802848 AGTTGATTTG
Statistics
Matches: 246, Mismatches: 15, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
205 1 0.00
206 245 1.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (206 bp):
TGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAAT
CTAAGATGATTTGGCATCTCTGTATTGTCAGAAAACAAATCGAAGTTTGGCATCTCCATATTCGA
CGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCAAATCCAAGATGATT
TGGCATCCTTG
Found at i:99802859 original size:29 final size:29
Alignment explanation
Indices: 99802817--99802876 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
99802807 AATCGAAGAC
99802817 ATAGTTGATTTGGTTTTCGCGTGCTTACG
1 ATAGTTGATTTGGTTTTCGCGTGCTTACG
99802846 ATAGTTGATTTGGTTTTCGCGTGCTTACG
1 ATAGTTGATTTGGTTTTCGCGTGCTTACG
99802875 AT
1 AT
99802877 GAAGCAAATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.15, C:0.13, G:0.27, T:0.45
Consensus pattern (29 bp):
ATAGTTGATTTGGTTTTCGCGTGCTTACG
Found at i:99803342 original size:19 final size:19
Alignment explanation
Indices: 99803318--99803396 Score: 126
Period size: 19 Copynumber: 4.2 Consensus size: 19
99803308 AATCTTTAAG
99803318 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
99803337 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
99803356 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
99803373 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
99803394 GAT
1 GAT
99803397 CTTGTAATCT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.30
19 30 0.54
21 9 0.16
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:99803348 original size:36 final size:36
Alignment explanation
Indices: 99803308--99803395 Score: 119
Period size: 36 Copynumber: 2.4 Consensus size: 36
99803298 ATGGAAATAT
99803308 AATCTTTAAGGATATG-CAATCTTAGATATGATATGC
1 AATCTTTAA-GATATGACAATCTTAGATATGATATGC
99803344 AATC-TT-AGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAAGATATG--ACAATCTTAGATATGATATGC
*
99803380 AATCTTGAAGATATGA
1 AATCTTTAAGATATGA
99803396 TCTTGTAATC
Statistics
Matches: 46, Mismatches: 1, Indels: 10
0.81 0.02 0.18
Matches are distributed among these distances:
33 6 0.13
34 1 0.02
35 2 0.04
36 29 0.63
37 1 0.02
38 7 0.15
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (36 bp):
AATCTTTAAGATATGACAATCTTAGATATGATATGC
Found at i:99805068 original size:27 final size:27
Alignment explanation
Indices: 99805020--99805175 Score: 173
Period size: 27 Copynumber: 5.9 Consensus size: 27
99805010 GCGAGGTTGC
* *
99805020 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
99805047 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
99805073 CAGATATACGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
99805100 CAG--ATTGTGGCATAGCCACCAG-GA
1 CAGATATTGTGGCAGAGCCACCAGATA
99805124 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
99805151 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
99805176 GACGCTTCCT
Statistics
Matches: 111, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
24 18 0.16
25 2 0.02
26 10 0.09
27 78 0.70
28 3 0.03
ACGTcount: A:0.33, C:0.23, G:0.26, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:99805117 original size:51 final size:52
Alignment explanation
Indices: 99805038--99805175 Score: 206
Period size: 51 Copynumber: 2.6 Consensus size: 52
99805028 GTGACGAAGT
*
99805038 CACCAGATACAGATATTGTGGCAGAGCCACCAGAACAGATATACGTGGCAGAGC
1 CACCAGAT-CAGA-ATTGTGGCATAGCCACCAGAACAGATATACGTGGCAGAGC
* *
99805092 CACCAGATCAG-ATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGAATTGTGGCATAGCCACCAGAACAGATATACGTGGCAGAGC
99805143 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAG--AATTGTGGCATAGCCACCAG
99805176 GACGCTTCCT
Statistics
Matches: 78, Mismatches: 3, Indels: 6
0.90 0.03 0.07
Matches are distributed among these distances:
51 48 0.62
53 3 0.04
54 27 0.35
ACGTcount: A:0.33, C:0.25, G:0.25, T:0.17
Consensus pattern (52 bp):
CACCAGATCAGAATTGTGGCATAGCCACCAGAACAGATATACGTGGCAGAGC
Found at i:99805893 original size:26 final size:26
Alignment explanation
Indices: 99805857--99805938 Score: 137
Period size: 26 Copynumber: 3.2 Consensus size: 26
99805847 TGAAATGCCC
*
99805857 ATCATGGAACATTTACCTAACCCGTT
1 ATCATGGAACATTTACCTAACCCATT
99805883 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
99805909 ATCATGGAATATTTACCTAACCAATT
1 ATCATGGAACATTTACCTAACCCATT
99805935 ATCA
1 ATCA
99805939 ATTTTTATCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.35, C:0.24, G:0.09, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:99810425 original size:27 final size:28
Alignment explanation
Indices: 99810369--99810437 Score: 113
Period size: 27 Copynumber: 2.5 Consensus size: 28
99810359 AAACTTGTAC
*
99810369 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCAAGTTTGATCATAT
*
99810397 AGCACTAAGTGTGCAAG-TTGATTATAT
1 AGCACTAAGTGTGCAAGTTTGATCATAT
99810424 AGCACTAAGTGTGC
1 AGCACTAAGTGTGC
99810438 GGACTCACTA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCAAGTTTGATCATAT
Found at i:99813159 original size:29 final size:32
Alignment explanation
Indices: 99813126--99813185 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 32
99813116 TCTAGTTACA
*
99813126 GTTTCAG-TC-TCTTATC-AGATTTTCCTATG
1 GTTTCAGATCATCTTATCTAGATTATCCTATG
99813155 GTTTCAGTATCATCTTATCTAGATTATCCTA
1 GTTTCAG-ATCATCTTATCTAGATTATCCTA
99813186 ATAGGGTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 7 0.27
31 2 0.08
32 7 0.27
33 10 0.38
ACGTcount: A:0.22, C:0.20, G:0.12, T:0.47
Consensus pattern (32 bp):
GTTTCAGATCATCTTATCTAGATTATCCTATG
Found at i:99814364 original size:27 final size:27
Alignment explanation
Indices: 99814316--99814479 Score: 185
Period size: 27 Copynumber: 6.0 Consensus size: 27
99814306 GCAAGGCTGC
* *
99814316 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
99814343 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
99814369 CAGATATATGTGGCAGAGCCACCATAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
99814396 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
99814423 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
99814450 CAGATAATTGTGGCATAGCCACCAGGATA
1 CAGAT-ATTGTGGCAGAGCCACCA-GATA
99814479 C
1 C
99814480 TTCCTCCATA
Statistics
Matches: 118, Mismatches: 9, Indels: 18
0.81 0.06 0.12
Matches are distributed among these distances:
26 10 0.08
27 99 0.84
28 8 0.07
29 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:99814475 original size:54 final size:54
Alignment explanation
Indices: 99814334--99814476 Score: 243
Period size: 54 Copynumber: 2.6 Consensus size: 54
99814324 GTGACGAAGT
* *
99814334 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
*
99814388 CACCATATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
99814442 CACCAGATCAGATAATTGTGGCATAGCCACCAGGA
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGA
99814477 TACTTCCTCC
Statistics
Matches: 84, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
53 5 0.06
54 79 0.94
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:99815187 original size:26 final size:26
Alignment explanation
Indices: 99815156--99815237 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
99815146 TGAAATACCC
99815156 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
99815182 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
99815208 ATCATAGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
99815234 ATCA
1 ATCA
99815238 ATTTTATCAA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:99816311 original size:19 final size:19
Alignment explanation
Indices: 99816287--99816325 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
99816277 TTGTTTTTCC
99816287 ACTGAAAGTAAAATAATTA
1 ACTGAAAGTAAAATAATTA
99816306 ACTGAAAGTAAAATAATTA
1 ACTGAAAGTAAAATAATTA
99816325 A
1 A
99816326 TTTATGGTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.59, C:0.05, G:0.10, T:0.26
Consensus pattern (19 bp):
ACTGAAAGTAAAATAATTA
Found at i:99817057 original size:28 final size:28
Alignment explanation
Indices: 99817026--99817079 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
99817016 TGGTTTTCTT
*
99817026 CCAAAGATTTTTCATGAATGAGAAAGGC
1 CCAAAGATTTTTCATGAATAAGAAAGGC
99817054 CCAAAGATTTTTCATGAATAAGAAAG
1 CCAAAGATTTTTCATGAATAAGAAAG
99817080 ATTTGTTTCG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.43, C:0.13, G:0.19, T:0.26
Consensus pattern (28 bp):
CCAAAGATTTTTCATGAATAAGAAAGGC
Found at i:99819950 original size:18 final size:18
Alignment explanation
Indices: 99819927--99819962 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
99819917 AAAAAGATTG
99819927 AATAGATCTCCTAAACAT
1 AATAGATCTCCTAAACAT
99819945 AATAGATCTCCTAAACAT
1 AATAGATCTCCTAAACAT
99819963 TAGGTCAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.22, G:0.06, T:0.28
Consensus pattern (18 bp):
AATAGATCTCCTAAACAT
Found at i:99820442 original size:23 final size:24
Alignment explanation
Indices: 99820401--99820446 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
99820391 TTTTTTTAAG
99820401 GAAACACTATTACATGTTGTTCCA
1 GAAACACTATTACATGTTGTTCCA
99820425 GAAACACT-TTAC-TGGTTGTTCC
1 GAAACACTATTACAT-GTTGTTCC
99820447 CATTGTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 1 0.05
23 12 0.57
24 8 0.38
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (24 bp):
GAAACACTATTACATGTTGTTCCA
Found at i:99822620 original size:28 final size:28
Alignment explanation
Indices: 99822589--99822644 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
99822579 TTTCTAATTA
* * *
99822589 AATTCAATTTTAATCCTTTTTATATTTT
1 AATTCAATTTAAATACTTTATATATTTT
* *
99822617 AATTTACTTTAAATACTTTATATATTTT
1 AATTCAATTTAAATACTTTATATATTTT
99822645 TATAAATATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.59
Consensus pattern (28 bp):
AATTCAATTTAAATACTTTATATATTTT
Found at i:99823112 original size:20 final size:21
Alignment explanation
Indices: 99823079--99823118 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
99823069 TTTCTTATAT
*
99823079 TTTTATATATTATTTATTTTG
1 TTTTATATACTATTTATTTTG
99823100 TTTT-TATACTATTTATTTT
1 TTTTATATACTATTTATTTT
99823119 ACTATATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.72
Consensus pattern (21 bp):
TTTTATATACTATTTATTTTG
Found at i:99823199 original size:26 final size:25
Alignment explanation
Indices: 99823140--99823200 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 25
99823130 TGCAAACTAC
*
99823140 TTATTATGT-TTTTATTATATTATA
1 TTATTATATATTTTATTATATTATA
99823164 TT-TCCT-TATATTTTATTCATATTATA
1 TTAT--TATATATTTTATT-ATATTATA
99823190 TTATTATATAT
1 TTATTATATAT
99823201 AACTTATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 10
0.73 0.02 0.24
Matches are distributed among these distances:
23 1 0.03
24 4 0.13
25 9 0.30
26 15 0.50
27 1 0.03
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.64
Consensus pattern (25 bp):
TTATTATATATTTTATTATATTATA
Found at i:99827464 original size:21 final size:22
Alignment explanation
Indices: 99827415--99827465 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
99827405 TATTTTTATC
** *
99827415 AAAAAATTTATAAAATTAATAT
1 AAAAAATAAATAAAATTAAAAT
*
99827437 TAAAAATAAATAAAA-TAAAAT
1 AAAAAATAAATAAAATTAAAAT
99827458 AAAAAATA
1 AAAAAATA
99827466 TTATTTAATT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (22 bp):
AAAAAATAAATAAAATTAAAAT
Found at i:99837135 original size:46 final size:46
Alignment explanation
Indices: 99837083--99837337 Score: 314
Period size: 46 Copynumber: 5.6 Consensus size: 46
99837073 TTCTGAAATG
* *
99837083 AAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGATATA
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATA
* *
99837129 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGATATA
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATA
* **
99837175 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT-GG
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATA
* * ** * * *
99837220 GAATGAATAAGACCATGGTTGAAAGATACCATGGCAATGTAACATG
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATA
** * * *
99837266 AAATGAACAAGACCATGGTTGAAAGATACCATGGCAACCTGACAGA
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATA
* *
99837312 AAATGAGTAAGACCATAGTCGAAAGA
1 AAATGAGTAAGACCATGGTTGAAAGA
99837338 CATTATGGCA
Statistics
Matches: 184, Mismatches: 24, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
45 36 0.20
46 148 0.80
ACGTcount: A:0.42, C:0.15, G:0.24, T:0.20
Consensus pattern (46 bp):
AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATA
Found at i:99837280 original size:91 final size:92
Alignment explanation
Indices: 99837091--99837337 Score: 309
Period size: 91 Copynumber: 2.7 Consensus size: 92
99837081 TGAAATGTGT
* * **
99837091 AAGACCATGGTTGAAAGACACCATGGCAACATGATATAAAATGTGTAAGACCATGGTTGAAAGAT
1 AAGACCATGGTTGAAAGATACCATGGCAACATGATAGAAAATGAATAAGACCATGGTTGAAAGAT
* * ***
99837156 ACCATGGCAACAGGATATAAAATGTGT
66 ACCATGGCAACAGAACATAAAATGAAC
**
99837183 AAGACCATGGTTGAAAGATACCATGGCAACATGAT-GGGAATGAATAAGACCATGGTTGAAAGAT
1 AAGACCATGGTTGAAAGATACCATGGCAACATGATAGAAAATGAATAAGACCATGGTTGAAAGAT
* *
99837247 ACCATGGCAA-TGTAACATGAAATGAAC
66 ACCATGGCAACAG-AACATAAAATGAAC
* * * * *
99837274 AAGACCATGGTTGAAAGATACCATGGCAACCTGACAGAAAATGAGTAAGACCATAGTCGAAAGA
1 AAGACCATGGTTGAAAGATACCATGGCAACATGATAGAAAATGAATAAGACCATGGTTGAAAGA
99837338 CATTATGGCA
Statistics
Matches: 133, Mismatches: 20, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
90 1 0.01
91 75 0.56
92 57 0.43
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.19
Consensus pattern (92 bp):
AAGACCATGGTTGAAAGATACCATGGCAACATGATAGAAAATGAATAAGACCATGGTTGAAAGAT
ACCATGGCAACAGAACATAAAATGAAC
Found at i:99837336 original size:137 final size:137
Alignment explanation
Indices: 99837090--99837337 Score: 352
Period size: 137 Copynumber: 1.8 Consensus size: 137
99837080 ATGAAATGTG
* * ***
99837090 TAAGACCATGGTTGAAAGACACCATGGCAACATGATATAAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGACACCATGGCAACATAACATAAAATGAACAAGACCATGGTTGAAAGA
* * * * *
99837155 TACCATGGCAACAGGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATGG
66 TACCATGGCAACAGGACAGAAAATGAGTAAGACCATAGTCGAAAGATACCATGGCAACATGATGG
99837220 GAATGAA
131 GAATGAA
* ** *
99837227 TAAGACCATGGTTGAAAGATACCATGGCAATGTAACATGAAATGAACAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGACACCATGGCAACATAACATAAAATGAACAAGACCATGGTTGAAAGA
**
99837292 TACCATGGCAACCTGACAGAAAATGAGTAAGACCATAGTCGAAAGA
66 TACCATGGCAACAGGACAGAAAATGAGTAAGACCATAGTCGAAAGA
99837338 CATTATGGCA
Statistics
Matches: 95, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
137 95 1.00
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (137 bp):
TAAGACCATGGTTGAAAGACACCATGGCAACATAACATAAAATGAACAAGACCATGGTTGAAAGA
TACCATGGCAACAGGACAGAAAATGAGTAAGACCATAGTCGAAAGATACCATGGCAACATGATGG
GAATGAA
Found at i:99837366 original size:137 final size:137
Alignment explanation
Indices: 99837090--99837370 Score: 330
Period size: 137 Copynumber: 2.1 Consensus size: 137
99837080 ATGAAATGTG
* * ***
99837090 TAAGACCATGGTTGAAAGACACCATGGCAACATGATATAAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGACACCATGGCAACATAACATAAAATGAACAAGACCATGGTTGAAAGA
* * * * * * **
99837155 TACCATGGCAACAGGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATGG
66 TACCATGGCAACAGGACAGAAAATGAGTAAGACCATAGTCGAAAGACACCATGGCAACATGATCA
* *
99837220 GAATGAA
131 AAATAAA
* ** *
99837227 TAAGACCATGGTTGAAAGATACCATGGCAATGTAACATGAAATGAACAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGACACCATGGCAACATAACATAAAATGAACAAGACCATGGTTGAAAGA
** ** *
99837292 TACCATGGCAACCTGACAGAAAATGAGTAAGACCATAGTCGAAAGACATTATGGCATCATG-TCA
66 TACCATGGCAACAGGACAGAAAATGAGTAAGACCATAGTCGAAAGACACCATGGCAACATGATCA
99837356 AAGATAAA
131 AA-ATAAA
99837364 TAAGACC
1 TAAGACC
99837371 GTGGATGGGA
Statistics
Matches: 119, Mismatches: 24, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
136 2 0.02
137 117 0.98
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.20
Consensus pattern (137 bp):
TAAGACCATGGTTGAAAGACACCATGGCAACATAACATAAAATGAACAAGACCATGGTTGAAAGA
TACCATGGCAACAGGACAGAAAATGAGTAAGACCATAGTCGAAAGACACCATGGCAACATGATCA
AAATAAA
Found at i:99837369 original size:91 final size:88
Alignment explanation
Indices: 99837090--99837370 Score: 285
Period size: 91 Copynumber: 3.1 Consensus size: 88
99837080 ATGAAATGTG
* * *
99837090 TAAGACCATGGTTGAAAGACACCATGGCAACATGATATAAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGA-AGAAAATGAGTAAGACCATGGTTGAAAGA
* * **
99837155 TACCATGGCAACAGGATATAAAATGTG
65 TACCATGGC-ACATG-TA-AAGATGAA
* ** *
99837182 TAAGACCATGGTTGAAAGATACCATGGCAACATGATGGGAATGAATAAGACCATGGTTGAAAGAT
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGAAGAAAATGAGTAAGACCATGGTTGAAAGAT
99837247 ACCATGGCA-ATGTAACATGAAATGAA
66 ACCATGGCACATGTAA-A-G--ATGAA
* * * *
99837273 CAAGACCATGGTTGAAAGATACCATGGCAACCTGACAGAAAATGAGTAAGACCATAGTCGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGA-AGAAAATGAGTAAGACCATGGTTGAAAGA
* ** *
99837338 CATTATGGCATCATGTCAAAGATAAA
65 TACCATGGCA-CATGT-AAAGATGAA
99837364 TAAGACC
1 TAAGACC
99837371 GTGGATGGGA
Statistics
Matches: 157, Mismatches: 24, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
87 1 0.01
88 3 0.02
89 2 0.01
90 1 0.01
91 78 0.50
92 64 0.41
93 1 0.01
94 5 0.03
95 2 0.01
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.20
Consensus pattern (88 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGAAGAAAATGAGTAAGACCATGGTTGAAAGAT
ACCATGGCACATGTAAAGATGAA
Found at i:99843466 original size:15 final size:17
Alignment explanation
Indices: 99843441--99843475 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
99843431 ACTTGATAGG
99843441 GAAATATAATAG-TGAA
1 GAAATATAATAGATGAA
99843457 GAAA-ATAATAGATGAA
1 GAAATATAATAGATGAA
99843473 GAA
1 GAA
99843476 CAAGTGGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.60, C:0.00, G:0.20, T:0.20
Consensus pattern (17 bp):
GAAATATAATAGATGAA
Found at i:99846336 original size:34 final size:34
Alignment explanation
Indices: 99846253--99846338 Score: 118
Period size: 34 Copynumber: 2.5 Consensus size: 34
99846243 TCTTTTTTAA
** ** *
99846253 AAATTAATTAAATTAAAGTTTATGGTTTTTAAAT
1 AAATTAATTAAATTAGGGTTTAAAGATTTTAAAT
*
99846287 AAATTAAGTAAATTAGGGTTTAAAGATTTTAAAT
1 AAATTAATTAAATTAGGGTTTAAAGATTTTAAAT
99846321 AAATTAATTAAATTAGGG
1 AAATTAATTAAATTAGGG
99846339 ATTAGGGTTT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 45 1.00
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.41
Consensus pattern (34 bp):
AAATTAATTAAATTAGGGTTTAAAGATTTTAAAT
Found at i:99846394 original size:25 final size:25
Alignment explanation
Indices: 99846366--99846419 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
99846356 AAAATTAATT
*
99846366 AAATTAG-GATTTATTTTTTTTAAAA
1 AAATTAGTG-TTTAGTTTTTTTAAAA
*
99846391 AAA-TAGTGTTTAGTTTTTTTAACA
1 AAATTAGTGTTTAGTTTTTTTAAAA
99846415 AAATT
1 AAATT
99846420 GACTATTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
24 20 0.80
25 5 0.20
ACGTcount: A:0.39, C:0.02, G:0.09, T:0.50
Consensus pattern (25 bp):
AAATTAGTGTTTAGTTTTTTTAAAA
Found at i:99846578 original size:127 final size:126
Alignment explanation
Indices: 99846432--99846685 Score: 375
Period size: 127 Copynumber: 2.0 Consensus size: 126
99846422 CTATTTTTAC
* * * * *
99846432 CTTGAAAAAATAATTTTGAGAAGACGTTTTTGAACAAATAGTGTCAAAAATGCTTTAAGCAGGAT
1 CTTGAAAAAATAATTTTGAGAAGACGTTTATGAACAAATAATGTAAAAAATGCTTCAAGCAAGAT
*
99846497 GCACTGTAAGCAAAATTACTGAAAAAAGCTCCTACGTGGACGCTCTTTTTT-GACAGTAGTT
66 GCACTGTAAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCT-TTTTTTCGACAGTAGTT
* *
99846558 CTTGAAAAAAATATTTTTGAGAAGACGTTTATGAATAAATAATGTAAAAAATGCTTCAAGCAAGA
1 CTTG-AAAAAATAATTTTGAGAAGACGTTTATGAACAAATAATGTAAAAAATGCTTCAAGCAAGA
* * * *
99846623 TGCACTGTCAGCAAAATTATTGAAAAAGGCTCCCACGTGGACGCTTTTTTTCTACAGTAGTT
65 TGCACTGTAAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTTTTTTTCGACAGTAGTT
99846685 C
1 C
99846686 ATGTTTGGCC
Statistics
Matches: 114, Mismatches: 12, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
126 10 0.09
127 104 0.91
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (126 bp):
CTTGAAAAAATAATTTTGAGAAGACGTTTATGAACAAATAATGTAAAAAATGCTTCAAGCAAGAT
GCACTGTAAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTTTTTTTCGACAGTAGTT
Found at i:99849731 original size:24 final size:23
Alignment explanation
Indices: 99849675--99849731 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 23
99849665 AAGAACTTCT
*
99849675 ATTTTATTAAAAATATAAAAATA
1 ATTTTATTAAAAATATAAAAACA
99849698 ATTTACTATT-AAAATATTAAAAACA
1 ATTT--TATTAAAAATA-TAAAAACA
99849723 ACTTTTATT
1 A-TTTTATT
99849732 TTATTAAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 4 0.14
24 10 0.34
25 12 0.41
26 3 0.10
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (23 bp):
ATTTTATTAAAAATATAAAAACA
Found at i:99850170 original size:18 final size:18
Alignment explanation
Indices: 99850129--99850171 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
99850119 GATTGGGAAA
* * *
99850129 AGGAAACATCTAAGGGTT
1 AGGATACATATAAGGGCT
*
99850147 ATGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
99850165 AGGATAC
1 AGGATAC
99850172 GTACCTGGCA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.40, C:0.12, G:0.26, T:0.23
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:99851949 original size:21 final size:21
Alignment explanation
Indices: 99851925--99851965 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
99851915 CTTTAAGAAA
* *
99851925 TTTAATGAGAAATTTGAGAGC
1 TTTAAGGAAAAATTTGAGAGC
*
99851946 TTTAGGGAAAAATTTGAGAG
1 TTTAAGGAAAAATTTGAGAG
99851966 TTTTTTTGCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.39, C:0.02, G:0.27, T:0.32
Consensus pattern (21 bp):
TTTAAGGAAAAATTTGAGAGC
Found at i:99856300 original size:23 final size:21
Alignment explanation
Indices: 99856261--99856307 Score: 51
Period size: 23 Copynumber: 2.1 Consensus size: 21
99856251 GTTAGATGAA
99856261 TTAGGATGTTTTAAATGGCATGT
1 TTAGGATGTTTTAAAT-G-ATGT
*
99856284 TTAGG-TGTGTTTGAATGATGT
1 TTAGGATGT-TTTAAATGATGT
99856305 TTA
1 TTA
99856308 AATCCCTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 7 0.32
22 4 0.18
23 11 0.50
ACGTcount: A:0.23, C:0.02, G:0.28, T:0.47
Consensus pattern (21 bp):
TTAGGATGTTTTAAATGATGT
Found at i:99857346 original size:13 final size:14
Alignment explanation
Indices: 99857328--99857360 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
99857318 GTTCCAATGC
99857328 ATGATTTTAA-AAG
1 ATGATTTTAACAAG
99857341 ATGATTTTAATCAAG
1 ATGATTTTAA-CAAG
99857356 ATGAT
1 ATGAT
99857361 ATAATTGTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.56
15 8 0.44
ACGTcount: A:0.42, C:0.03, G:0.15, T:0.39
Consensus pattern (14 bp):
ATGATTTTAACAAG
Found at i:99861931 original size:21 final size:20
Alignment explanation
Indices: 99861903--99861947 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
99861893 GTATCTTGAT
99861903 GGTG-TGGTGCGA-TAGGCAA
1 GGTGTTGGTGCGAGTA-GCAA
99861922 GAGTGTTGGTGCGAGTAGCAA
1 G-GTGTTGGTGCGAGTAGCAA
99861943 GGTGT
1 GGTGT
99861948 GGTTTGAGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
19 1 0.04
20 7 0.30
21 13 0.57
22 2 0.09
ACGTcount: A:0.20, C:0.09, G:0.47, T:0.24
Consensus pattern (20 bp):
GGTGTTGGTGCGAGTAGCAA
Found at i:99863855 original size:6 final size:6
Alignment explanation
Indices: 99863825--99864010 Score: 166
Period size: 6 Copynumber: 30.3 Consensus size: 6
99863815 AAGAAACATT
* *
99863825 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * *
99863873 ATCAGA ATCAG- GTGACAGA ATCAAA ATTAGA ATCAGA ATCAGA ATCAGT
1 ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * *
99863922 ATCAGGTA A-CAGA ATCAGA ATCAGA ACCAGA ATCAAA ATTAGGTA A-CAGA
1 ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
*
99863972 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAGA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
99864011 GTCAATGCAA
Statistics
Matches: 146, Mismatches: 20, Indels: 28
0.75 0.10 0.14
Matches are distributed among these distances:
5 8 0.05
6 122 0.84
7 11 0.08
8 5 0.03
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:99863907 original size:43 final size:43
Alignment explanation
Indices: 99863846--99864007 Score: 194
Period size: 43 Copynumber: 3.9 Consensus size: 43
99863836 AATCAAAATG
*
99863846 AGAATCAGAATCAGAATCAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGAATCAGAATCAGGTAAC
* * *
99863889 AGAATCAAAATTAGAATCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGAATCAGAATCAGGTAAC
* *
99863932 AGAATCAGAATCAGAA-C-----CAGAATCAAAATTAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGAATCAGAATCAGGTAAC
*
99863969 AGAATCAGAATCAGTATCAGGTAA-CAGAATCAGAATCAG
1 AGAATCAGAATCAGAATCA-G-AATCAGAATCAGAATCAG
99864008 AATGTCAATG
Statistics
Matches: 100, Mismatches: 12, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
37 32 0.32
38 1 0.01
42 1 0.01
43 53 0.53
44 13 0.13
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.18
Consensus pattern (43 bp):
AGAATCAGAATCAGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:99863936 original size:31 final size:31
Alignment explanation
Indices: 99863901--99864010 Score: 136
Period size: 31 Copynumber: 3.5 Consensus size: 31
99863891 AATCAAAATT
99863901 AGAATCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGTATCAGGTAAC
* * * *
99863932 AGAATCAGAATCAGAACCAGAATCA--AAATT
1 AGAATCAGAATCAGAATCAGTATCAGGTAA-C
99863962 AGGTAA-CAGAATCAGAATCAGTATCAGGTAAC
1 A-G-AATCAGAATCAGAATCAGTATCAGGTAAC
99863994 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
99864011 GTCAATGCAA
Statistics
Matches: 65, Mismatches: 8, Indels: 12
0.76 0.09 0.14
Matches are distributed among these distances:
29 2 0.03
30 3 0.05
31 55 0.85
32 3 0.05
33 2 0.03
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.18
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGTATCAGGTAAC
Found at i:99863977 original size:25 final size:25
Alignment explanation
Indices: 99863943--99864006 Score: 92
Period size: 25 Copynumber: 2.6 Consensus size: 25
99863933 GAATCAGAAT
* *
99863943 CAGAACCAGAATCAAAATTAGGTAA
1 CAGAATCAGAATCAAAATCAGGTAA
**
99863968 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAAAATCAGGTAA
99863993 CAGAATCAGAATCA
1 CAGAATCAGAATCA
99864007 GAATGTCAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.48, C:0.17, G:0.17, T:0.17
Consensus pattern (25 bp):
CAGAATCAGAATCAAAATCAGGTAA
Found at i:99864007 original size:25 final size:25
Alignment explanation
Indices: 99863846--99863947 Score: 96
Period size: 25 Copynumber: 4.4 Consensus size: 25
99863836 AATCAAAATG
99863846 AGAATCAGAATCA-G-AATCAGAATC
1 AGAATCAGAATCAGGTAA-CAGAATC
*
99863870 AGAATCAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAGGTAACAGAATC
* *
99863895 AAAATTAG-A--A--T--CAGAATC
1 AGAATCAGAATCAGGTAACAGAATC
*
99863913 AGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGGTAACAGAATC
99863938 AGAATCAGAA
1 AGAATCAGAA
99863948 CCAGAATCAA
Statistics
Matches: 63, Mismatches: 6, Indels: 17
0.73 0.07 0.20
Matches are distributed among these distances:
18 13 0.21
19 1 0.02
20 1 0.02
21 1 0.02
22 1 0.02
23 1 0.02
24 14 0.22
25 30 0.48
26 1 0.02
ACGTcount: A:0.49, C:0.15, G:0.19, T:0.18
Consensus pattern (25 bp):
AGAATCAGAATCAGGTAACAGAATC
Found at i:99864010 original size:37 final size:37
Alignment explanation
Indices: 99863851--99864001 Score: 169
Period size: 37 Copynumber: 3.9 Consensus size: 37
99863841 AAATGAGAAT
*
99863851 CAGAATCAGAATCAGAATCAGAATCAGAATCAGGTGA
1 CAGAATCAGAATCAGAATCAGAATCAGAATCAGGTAA
*
99863888 CAGAATCAAAATTAGAATCAGAATCAGAATCAGTATCAGGTAA
1 CAGAATC------AGAATCAGAATCAGAATCAGAATCAGGTAA
* * *
99863931 CAGAATCAGAATCAGAACCAGAATCAAAATTAGGTAA
1 CAGAATCAGAATCAGAATCAGAATCAGAATCAGGTAA
*
99863968 CAGAATCAGAATCAGTATCAGGTAA-CAGAATCAG
1 CAGAATCAGAATCAGAATCA-G-AATCAGAATCAG
99864002 AATCAGAATG
Statistics
Matches: 96, Mismatches: 10, Indels: 15
0.79 0.08 0.12
Matches are distributed among these distances:
37 51 0.53
38 8 0.08
39 2 0.02
43 35 0.36
ACGTcount: A:0.48, C:0.16, G:0.19, T:0.18
Consensus pattern (37 bp):
CAGAATCAGAATCAGAATCAGAATCAGAATCAGGTAA
Found at i:99864177 original size:27 final size:26
Alignment explanation
Indices: 99864129--99864188 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
99864119 GCGAGGCTGC
*
99864129 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
99864156 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
99864182 CAGATAT
1 CAGATAT
99864189 ATATATATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:99864277 original size:27 final size:26
Alignment explanation
Indices: 99864230--99864280 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
99864220 CGAGGCTGCT
*
99864230 AGATATTGTGACGAAGTCACCAGAAC
1 AGATATTGTGACGAAGCCACCAGAAC
* *
99864256 AGATATATGTGGCGAGGCCACCAGA
1 AGATAT-TGTGACGAAGCCACCAGA
99864281 TTGCAGCGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.35, C:0.20, G:0.27, T:0.18
Consensus pattern (26 bp):
AGATATTGTGACGAAGCCACCAGAAC
Found at i:99864581 original size:27 final size:27
Alignment explanation
Indices: 99864526--99864719 Score: 246
Period size: 27 Copynumber: 7.2 Consensus size: 27
99864516 GGGTAAAATG
* * * *
99864526 GTAATTTTACCCCACA-AGGTATCTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
99864552 GTAATTCTACCTTACAGGAGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
99864579 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
99864606 GTATTTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
99864633 GTAATTATACCCTACAGGGGTATTTAA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
99864660 GTAATTTTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
99864687 GTATTTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
99864714 GTAATT
1 GTAATT
99864720 TTGTAAATCG
Statistics
Matches: 144, Mismatches: 23, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
26 13 0.09
27 131 0.91
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:99864649 original size:81 final size:81
Alignment explanation
Indices: 99864529--99864719 Score: 287
Period size: 81 Copynumber: 2.4 Consensus size: 81
99864519 TAAAATGGTA
* * * * *
99864529 ATTT-TACCCCACAA-GGTATCTCAGTAATTCTACCTTACAGGAGTATTTCAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCAGTAATTATACCCTACAGGAGTATTTAAGTAATTCTACCCT
99864592 ACAGGGGTATTTCGGT
66 ACAGGGGTATTTCGGT
* * *
99864608 ATTTCTACCCTACAAGGGTATTTCGGTAATTATACCCTACAGGGGTATTTAAGTAATTTTACCCT
1 ATTTCTACCCTACAAGGGTATTTCAGTAATTATACCCTACAGGAGTATTTAAGTAATTCTACCCT
99864673 ACAGGGGTATTTCGGT
66 ACAGGGGTATTTCGGT
*
99864689 ATTTCTACCCTACAGGGGTATTTCAGTAATT
1 ATTTCTACCCTACAAGGGTATTTCAGTAATT
99864720 TTGTAAATCG
Statistics
Matches: 100, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
79 4 0.04
80 9 0.09
81 87 0.87
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (81 bp):
ATTTCTACCCTACAAGGGTATTTCAGTAATTATACCCTACAGGAGTATTTAAGTAATTCTACCCT
ACAGGGGTATTTCGGT
Found at i:99864787 original size:27 final size:26
Alignment explanation
Indices: 99864755--99865205 Score: 420
Period size: 27 Copynumber: 16.7 Consensus size: 26
99864745 TTCTGTAAAT
* *
99864755 CAAGGGTACTTTGGTAATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTTACAA-A
* *** **
99864782 CGAGGGTATTTCAATAATTTTACATGT
1 CAAGGGTATTTTGGTAATTTTACA-AA
** ** *
99864809 TGAGGGTATTTCAGTAATTTCACAAA
1 CAAGGGTATTTTGGTAATTTTACAAA
*
99864835 TCAGGGGTATTTTGGTAATTTT-CGAAA
1 -CAAGGGTATTTTGGTAATTTTAC-AAA
* *
99864862 CTAGTGGTATTTTGATAATTTTACAAA
1 CAAG-GGTATTTTGGTAATTTTACAAA
*
99864889 CCAGAGGTATTTTGGTAATTTTACAAA
1 CAAG-GGTATTTTGGTAATTTTACAAA
* * *
99864916 CTAGGGGTGTTTTGGTAATTTTATAAA
1 C-AAGGGTATTTTGGTAATTTTACAAA
*
99864943 CCAAGGGTATTTTAGTAATTTTACAAA
1 -CAAGGGTATTTTGGTAATTTTACAAA
* *
99864970 CTAGGGGTATTTTGGTAATTTGGTA-AAC
1 C-AAGGGTATTTTGGTAATTT--TACAAA
99864998 CAAGGGTATTTTGGTAATTTTACAAA
1 CAAGGGTATTTTGGTAATTTTACAAA
* *
99865024 CCAAGGGTATTTTGGTGATTTTATAAA
1 -CAAGGGTATTTTGGTAATTTTACAAA
*
99865051 CCAAGGGTATTTTAGTAATTTTACAAA
1 -CAAGGGTATTTTGGTAATTTTACAAA
* **
99865078 CTAGAGGTATTTTGGTAATTTTGTAAA
1 CAAG-GGTATTTTGGTAATTTTACAAA
99865105 CCAAGGGTATTTTGGTAATTTTACAAA
1 -CAAGGGTATTTTGGTAATTTTACAAA
* * *
99865132 CTAGGGGTATTTTGGTGATTTTATAAA
1 C-AAGGGTATTTTGGTAATTTTACAAA
*
99865159 CCAAGGGTATTTTAGTAATTTTACAAA
1 -CAAGGGTATTTTGGTAATTTTACAAA
*
99865186 CCAGGGGTATTTTGGTAATT
1 -CAAGGGTATTTTGGTAATT
99865206 CAGTAAACTA
Statistics
Matches: 351, Mismatches: 57, Indels: 32
0.80 0.13 0.07
Matches are distributed among these distances:
25 2 0.01
26 10 0.03
27 327 0.93
28 10 0.03
29 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (26 bp):
CAAGGGTATTTTGGTAATTTTACAAA
Found at i:99865198 original size:54 final size:54
Alignment explanation
Indices: 99864812--99865205 Score: 558
Period size: 54 Copynumber: 7.3 Consensus size: 54
99864802 TACATGTTGA
** * * * *
99864812 GGGTATTTCAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTT-CGAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTAC-AAACTAG
* * *
99864866 TGGTATTTTGATAATTTTACAAACC-AGAGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAAG-GGTATTTTGGTAATTTTACAAACTAG
* *
99864920 GGGTGTTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACTAG
** * *
99864974 GGGTATTTTGGTAATTTGGTAAACCAAGGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACTAG
* *
99865028 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACTAG
* *
99865082 AGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACTAG
* * *
99865136 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACTAG
99865190 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
99865206 CAGTAAACTA
Statistics
Matches: 303, Mismatches: 34, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
53 1 0.00
54 299 0.99
55 3 0.01
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACTAG
Found at i:99865213 original size:27 final size:27
Alignment explanation
Indices: 99864812--99865205 Score: 475
Period size: 27 Copynumber: 14.6 Consensus size: 27
99864802 TACATGTTGA
** * *
99864812 GGGTATTTCAGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
99864839 GGGTATTTTGGTAATTTT-CGAAACTAG
1 GGGTATTTTGGTAATTTTAC-AAACCAG
* *
99864866 TGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
99864893 AGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
99864920 GGGTGTTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
99864947 GGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*** *
99864974 GGGTATTTTGGTAATTTGGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
99865001 GGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
99865028 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
99865055 GGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* ** *
99865082 AGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
99865109 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
99865136 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
99865163 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
99865190 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
99865206 CAGTAAACTA
Statistics
Matches: 308, Mismatches: 57, Indels: 4
0.83 0.15 0.01
Matches are distributed among these distances:
26 1 0.00
27 306 0.99
28 1 0.00
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:99870828 original size:34 final size:34
Alignment explanation
Indices: 99870789--99870857 Score: 122
Period size: 34 Copynumber: 2.0 Consensus size: 34
99870779 GTTGATGTTG
99870789 TTACTAATAAATT-CACGGCAACTCAGTAATTTGC
1 TTACTAATAAATTCCA-GGCAACTCAGTAATTTGC
99870823 TTACTAATAAATTCCAGGCAACTCAGTAATTTGC
1 TTACTAATAAATTCCAGGCAACTCAGTAATTTGC
99870857 T
1 T
99870858 AACTTATGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
34 32 0.94
35 2 0.06
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (34 bp):
TTACTAATAAATTCCAGGCAACTCAGTAATTTGC
Found at i:99880020 original size:45 final size:43
Alignment explanation
Indices: 99879947--99880031 Score: 100
Period size: 43 Copynumber: 1.9 Consensus size: 43
99879937 ATGAAATATG
* * * *
99879947 TATAATAATAATAATAATGTAACAAATATTTTACATATAAAAA
1 TATAATAATAATAATAATATAAAAAATATATAACATATAAAAA
99879990 TATAATAA-AATAAGTAATATAATAAGAATATATAACATATAA
1 TATAATAATAATAA-TAATATAA-AA-AATATATAACATATAA
99880032 TAAAACTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
42 5 0.14
43 15 0.43
44 1 0.03
45 14 0.40
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.33
Consensus pattern (43 bp):
TATAATAATAATAATAATATAAAAAATATATAACATATAAAAA
Found at i:99882112 original size:134 final size:134
Alignment explanation
Indices: 99881950--99882202 Score: 389
Period size: 134 Copynumber: 1.9 Consensus size: 134
99881940 TGAATATGGA
* * *
99881950 GATGCTGAATCTACTATCTTCAACTTGTTCCCTATAAACATACGGATGCCATACTGAAATCTTCG
1 GATGCTAAATCTACTATCTTCAACTTGTTCCCTATAAACACACGGATGCCATACTAAAATCTTCG
*
99882015 ATCTGCTTCGCTGTAAGCACAAGAATGTCAGATCTACTATGTCTTCGATCTGTTTCCTGTAAACA
66 ATCTGCTTCGCTGTAAGCACAAGAATGTCAAATCTACTATGTCTTCGATCTGTTTCCTGTAAACA
99882080 CAAC
131 CAAC
* * * ** *
99882084 GATGCTAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGTCATGTTAAAATCTTTG
1 GATGCTAAATCTACTATCTTCAACTTGTTCCCTATAAACACACGGATGCCATACTAAAATCTTCG
* * *
99882149 ATCTGCTTCGCTGTAAGTACAGGAATGTCAAATCTGCTATGTCTTCGATCTGTT
66 ATCTGCTTCGCTGTAAGCACAAGAATGTCAAATCTACTATGTCTTCGATCTGTT
99882203 CTCCGTCGAA
Statistics
Matches: 106, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
134 106 1.00
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (134 bp):
GATGCTAAATCTACTATCTTCAACTTGTTCCCTATAAACACACGGATGCCATACTAAAATCTTCG
ATCTGCTTCGCTGTAAGCACAAGAATGTCAAATCTACTATGTCTTCGATCTGTTTCCTGTAAACA
CAAC
Found at i:99882332 original size:87 final size:87
Alignment explanation
Indices: 99882235--99882409 Score: 266
Period size: 87 Copynumber: 2.0 Consensus size: 87
99882225 AAATCTGTTA
99882235 TCTTCGATTTG-TCCTCTAACAATACA-GA-GATGCCAAATCATCTTGGATCTGCTTCAGCATAA
1 TCTTCGATTTGCTCCT-T-ACAA-ACACGAGGATGCCAAATCATCTTGGATCTGCTTCAGCATAA
99882297 ACATCTGAAGGTCAGATCTGCTATG
63 ACATCTGAAGGTCAGATCTGCTATG
** *
99882322 TCTTCGATTTGCTCCTTGTAAACACGAGGATGCCAAATCATCTTGGATCTGCTTCAGTATAAACA
1 TCTTCGATTTGCTCCTTACAAACACGAGGATGCCAAATCATCTTGGATCTGCTTCAGCATAAACA
*
99882387 TCTGAAGGTTAGATCTGCTATG
66 TCTGAAGGTCAGATCTGCTATG
99882409 T
1 T
99882410 GTCTACTCTC
Statistics
Matches: 81, Mismatches: 4, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
85 3 0.04
86 4 0.05
87 70 0.86
88 4 0.05
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (87 bp):
TCTTCGATTTGCTCCTTACAAACACGAGGATGCCAAATCATCTTGGATCTGCTTCAGCATAAACA
TCTGAAGGTCAGATCTGCTATG
Found at i:99882452 original size:87 final size:87
Alignment explanation
Indices: 99882361--99882761 Score: 287
Period size: 87 Copynumber: 4.6 Consensus size: 87
99882351 ATGCCAAATC
* *
99882361 ATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTACTCTCTGTCGA
1 ATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTACCCTCCGTCGA
*
99882426 ATATGGAGACGCCAAATCTGTT
66 ATATGGAGACGCTAAATCTGTT
* * * * *
99882448 ATCTTGGATCTGCTTTAGTA-AAATCATCTAAAGGTTAGATCTGTTATGTATCTGCCCTCCGTCG
1 ATCTTGGATCTGCTTCAGTATAAA-CATCTGAAGGTTAGATCTGCTATGTGTCTACCCTCCGTCG
* *
99882512 AA-ATGGAGATGCTAGATCTGTT
65 AATATGGAGACGCTAAATCTGTT
* ** * * * * * * *
99882534 ATCTTGGATCTACTTTGGTATGAGAACATCCGAAAGTCAAATCTGCTATGTCTTCTA--GT-TGT
1 ATCTTGGATCTGCTTCAGTAT-A-AACATCTGAAGGTTAGATCTGCTATGT-GTCTACCCTCCG-
* * * * * ***
99882596 TC--CT-TGTAAACACAAGAATGCAAAAAT
62 TCGAATATGGAGACGCTA-AAT-C--TGTT
* * * * *
99882623 ATCTTAGATATGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCATCAA
1 ATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTACCCTCCGTCGA
*
99882688 ATATGGAGACGCTAGATCTGTT
66 ATATGGAGACGCTAAATCTGTT
* * * * *
99882710 ATCTTGGATCTGCTTTGATGTGAAAAACATCTGAAAGTCAAATCTGCTATGT
1 ATCTTGGATCTGC-TTCA-GT-ATAAACATCTGAAGGTTAGATCTGCTATGT
99882762 CTTCGATTTG
Statistics
Matches: 232, Mismatches: 62, Indels: 37
0.70 0.19 0.11
Matches are distributed among these distances:
85 6 0.03
86 44 0.19
87 94 0.41
88 27 0.12
89 25 0.11
90 29 0.12
91 7 0.03
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.34
Consensus pattern (87 bp):
ATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTACCCTCCGTCGA
ATATGGAGACGCTAAATCTGTT
Found at i:99882775 original size:177 final size:175
Alignment explanation
Indices: 99882447--99882793 Score: 507
Period size: 177 Copynumber: 2.0 Consensus size: 175
99882437 CCAAATCTGT
* * * * * *
99882447 TATCTTGGATCTGCTTTAGTAAAATCATCTAAAGGTTAGATCTGTTATGTATCTGCCCTCCGTCG
1 TATCTTAGATATGCTTCAGTAAAATCATCTAAAGGTTAGATCTGCTATGTATCTGCCCTCCATCA
* * *
99882512 AAATGGAGATGCTAGATCTGTTATCTTGGATCTACTTTGGTATGAGAACATCCGAAAGTCAAATC
66 AAATGGAGACGCTAGATCTGTTATCTTGGATCTACTTTGATATGAAAACATCCGAAAGTCAAATC
*
99882577 TGCTATGTCTTCTAGTTGTTCCTTGTAAACACAAGAATGCAAAAA
131 TGCTATGTCTTCGAGTTGTTCCTTGTAAACACAAGAATGCAAAAA
* *
99882622 TATCTTAGATATGCTTCAGTATAAA-CATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCATC
1 TATCTTAGATATGCTTCAGTA-AAATCATCTAAAGGTTAGATCTGCTATGTATCTGCCCTCCATC
* * *
99882686 AAATATGGAGACGCTAGATCTGTTATCTTGGATCTGCTTTGATGTGAAAAACATCTGAAAGTCAA
65 AAA-ATGGAGACGCTAGATCTGTTATCTTGGATCTACTTTGATATG-AAAACATCCGAAAGTCAA
* *
99882751 ATCTGCTATGTCTTCGATTTGTTCCTTGTAAAGACAAGAATGC
128 ATCTGCTATGTCTTCGAGTTGTTCCTTGTAAACACAAGAATGC
99882794 CAAATCTTGT
Statistics
Matches: 152, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
175 55 0.36
176 41 0.27
177 56 0.37
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (175 bp):
TATCTTAGATATGCTTCAGTAAAATCATCTAAAGGTTAGATCTGCTATGTATCTGCCCTCCATCA
AAATGGAGACGCTAGATCTGTTATCTTGGATCTACTTTGATATGAAAACATCCGAAAGTCAAATC
TGCTATGTCTTCGAGTTGTTCCTTGTAAACACAAGAATGCAAAAA
Found at i:99893673 original size:30 final size:30
Alignment explanation
Indices: 99893639--99893698 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
99893629 ATTTAATACG
99893639 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
99893669 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
99893699 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:99897684 original size:19 final size:19
Alignment explanation
Indices: 99897638--99897685 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
99897628 GTATATATTT
99897638 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
* *
99897656 TAAATCTTATTT-GGATATA
1 TAAATTTTATTTAGG-TAGA
99897675 TAAATTTTATT
1 TAAATTTTATT
99897686 CATATTCTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.38, C:0.02, G:0.10, T:0.50
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:99897747 original size:43 final size:43
Alignment explanation
Indices: 99897702--99897791 Score: 137
Period size: 43 Copynumber: 2.1 Consensus size: 43
99897692 CTAGAAATAT
* *
99897702 TTTTATTT-TATCTTTTAGTAGTTTACTAGAATAAGGGAACTA
1 TTTTCTTTATATCTTTTAGTAGTTTACTAGAATAAGAGAACTA
* *
99897744 TTTTCTTTATATGTTTTAGTAGTTTATTAGAATAAGAGAACTA
1 TTTTCTTTATATCTTTTAGTAGTTTACTAGAATAAGAGAACTA
99897787 TTTTC
1 TTTTC
99897792 CCAATTAGGA
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
42 7 0.16
43 36 0.84
ACGTcount: A:0.30, C:0.07, G:0.13, T:0.50
Consensus pattern (43 bp):
TTTTCTTTATATCTTTTAGTAGTTTACTAGAATAAGAGAACTA
Found at i:99898212 original size:17 final size:15
Alignment explanation
Indices: 99898182--99898215 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
99898172 AATCGAGCAA
99898182 AAAGAAAAGAAGAAG
1 AAAGAAAAGAAGAAG
99898197 AAAGAAAACGGAAGAAG
1 AAAGAAAA--GAAGAAG
99898214 AA
1 AA
99898216 GCAATGGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
17 9 0.53
ACGTcount: A:0.71, C:0.03, G:0.26, T:0.00
Consensus pattern (15 bp):
AAAGAAAAGAAGAAG
Found at i:99901681 original size:29 final size:28
Alignment explanation
Indices: 99901646--99901700 Score: 92
Period size: 29 Copynumber: 1.9 Consensus size: 28
99901636 AGTTATACCA
99901646 ATTTGGCTTCGGGCCATGCATATCAGTTG
1 ATTTGGCTTCGGGCCATG-ATATCAGTTG
*
99901675 ATTTGGCTTTGGGCCATGATATCAGT
1 ATTTGGCTTCGGGCCATGATATCAGT
99901701 GCTTCGGAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 8 0.32
29 17 0.68
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.36
Consensus pattern (28 bp):
ATTTGGCTTCGGGCCATGATATCAGTTG
Found at i:99913557 original size:40 final size:36
Alignment explanation
Indices: 99913477--99913605 Score: 122
Period size: 35 Copynumber: 3.5 Consensus size: 36
99913467 TCATTGAAAT
* *
99913477 ACCATACCTACATTTTACAACTCGGTATGGGAA--AT-
1 ACCATACCTACATTTCACAACTCAGTAT--GAATGATA
* **
99913512 GCCATACCTACATTTCTTAACTCAGTATGAATTTGATAA
1 ACCATACCTACATTTCACAACTCAGTATGAA--TGAT-A
*
99913551 TACCATACCTACATTTCACAACTCAGTATGGATGATA
1 -ACCATACCTACATTTCACAACTCAGTATGAATGATA
99913588 A-CATACCTACATTTCACA
1 ACCATACCTACATTTCACA
99913606 CTTTTCCATG
Statistics
Matches: 78, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
33 3 0.04
35 40 0.51
36 1 0.01
37 3 0.04
38 4 0.05
40 27 0.35
ACGTcount: A:0.35, C:0.24, G:0.10, T:0.31
Consensus pattern (36 bp):
ACCATACCTACATTTCACAACTCAGTATGAATGATA
Found at i:99927335 original size:21 final size:22
Alignment explanation
Indices: 99927297--99927344 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
99927287 TAATTTTTAG
* *
99927297 TTTTT-TTTCATGTTCAAGTTT
1 TTTTTATTTCATGTACAAGATT
99927318 TTTTTATTTCAT-TACAAGATT
1 TTTTTATTTCATGTACAAGATT
*
99927339 TCTTTA
1 TTTTTA
99927345 CTCCCCATCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.21, C:0.10, G:0.06, T:0.62
Consensus pattern (22 bp):
TTTTTATTTCATGTACAAGATT
Found at i:99927956 original size:34 final size:34
Alignment explanation
Indices: 99927913--99927979 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
99927903 GCATGCTTAA
*
99927913 CATGAGGATGATCAAAAAGTACCGAGAAACCTAT
1 CATGAGGATGATCAAAAAGCACCGAGAAACCTAT
* *
99927947 CATGAGGATGATCGAAAAGCGCCGAGAAACCTA
1 CATGAGGATGATCAAAAAGCACCGAGAAACCTA
99927980 CCCTACTCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.42, C:0.19, G:0.24, T:0.15
Consensus pattern (34 bp):
CATGAGGATGATCAAAAAGCACCGAGAAACCTAT
Found at i:99928624 original size:15 final size:15
Alignment explanation
Indices: 99928604--99928640 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
99928594 TATCCTCCTC
99928604 CACTCTCACACCGAT
1 CACTCTCACACCGAT
*
99928619 CACTCTCGCACCGAT
1 CACTCTCACACCGAT
*
99928634 TACTCTC
1 CACTCTC
99928641 CAAAACTCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.22, C:0.46, G:0.08, T:0.24
Consensus pattern (15 bp):
CACTCTCACACCGAT
Found at i:99936503 original size:16 final size:17
Alignment explanation
Indices: 99936482--99936522 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
99936472 GCTGAAATTC
99936482 TTTTCTT-TTCTTTCTT
1 TTTTCTTCTTCTTTCTT
*
99936498 TTTTCTTCTTCTTT-GT
1 TTTTCTTCTTCTTTCTT
99936514 TTTTCTTCT
1 TTTTCTTCT
99936523 CCTTCAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 17 0.74
17 6 0.26
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (17 bp):
TTTTCTTCTTCTTTCTT
Found at i:99936511 original size:13 final size:12
Alignment explanation
Indices: 99936479--99936522 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 12
99936469 ACTGCTGAAA
99936479 TTCTTTTCTTTTC
1 TTCTTTT-TTTTC
99936492 TTTCTTTTTTCTTC
1 -TTCTTTTTT-TTC
99936506 TTCTTTGTTTTTC
1 TTCTTT-TTTTTC
99936519 TTCT
1 TTCT
99936523 CCTTCAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
13 15 0.54
14 13 0.46
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.77
Consensus pattern (12 bp):
TTCTTTTTTTTC
Found at i:99937203 original size:17 final size:19
Alignment explanation
Indices: 99937176--99937210 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
99937166 AGCCAAGTTG
99937176 GGCTGTGTGGGCC-ACACA
1 GGCTGTGTGGGCCTACACA
99937194 GGCT-TGTGGGCCTACAC
1 GGCTGTGTGGGCCTACAC
99937211 TGGCAGGGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.14, C:0.29, G:0.37, T:0.20
Consensus pattern (19 bp):
GGCTGTGTGGGCCTACACA
Found at i:99937675 original size:38 final size:39
Alignment explanation
Indices: 99937584--99937677 Score: 109
Period size: 40 Copynumber: 2.4 Consensus size: 39
99937574 CGGTACCTTT
* * * * *
99937584 TGGTGTGCAGGGTTAGATGGGTTGATTATATCCCCATACT
1 TGGTGTGTAGGGTTGGGTGGGTCGATTATATCCCCA-ACA
*
99937624 TGGTGTGTAGGGTTGGGTGGGTCGATTCTATCCCC-ACA
1 TGGTGTGTAGGGTTGGGTGGGTCGATTATATCCCCAACA
*
99937662 TGGTGTGTTGGGTTGG
1 TGGTGTGTAGGGTTGG
99937678 TCAAAGATGG
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
38 17 0.36
40 30 0.64
ACGTcount: A:0.14, C:0.14, G:0.37, T:0.35
Consensus pattern (39 bp):
TGGTGTGTAGGGTTGGGTGGGTCGATTATATCCCCAACA
Found at i:99941799 original size:49 final size:48
Alignment explanation
Indices: 99941744--99941860 Score: 135
Period size: 49 Copynumber: 2.4 Consensus size: 48
99941734 TGGATGACCC
* * * *
99941744 AACAATGATGACTTTTACTGTTTGCATATTCTACCATCCCGAGTGGCCT
1 AACAATGATG-CTTTGAATATTTGCATATTCTACCATCCCGAGCGGCCT
* **
99941793 AACAATGATCGCTTTGAATATTTGCATATTCTATCATCTTGAGCGGCCT
1 AACAATGAT-GCTTTGAATATTTGCATATTCTACCATCCCGAGCGGCCT
*
99941842 AACAATGATGGTTTTGAAT
1 AACAATGAT-GCTTTGAAT
99941861 TATTATATCG
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
49 57 0.98
50 1 0.02
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (48 bp):
AACAATGATGCTTTGAATATTTGCATATTCTACCATCCCGAGCGGCCT
Found at i:99948213 original size:21 final size:22
Alignment explanation
Indices: 99948175--99948215 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
99948165 CTCAATTAAA
99948175 ATTTATATGAAATCTAATTTAT
1 ATTTATATGAAATCTAATTTAT
* *
99948197 ATTTAT-TTAAATTTAATTT
1 ATTTATATGAAATCTAATTT
99948216 TCTATGTGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.56
Consensus pattern (22 bp):
ATTTATATGAAATCTAATTTAT
Found at i:99954967 original size:13 final size:13
Alignment explanation
Indices: 99954949--99954978 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
99954939 AATACTTTCA
*
99954949 AAAAAAATTTAAT
1 AAAAAAATTAAAT
99954962 AAAAAAATTAAAT
1 AAAAAAATTAAAT
99954975 AAAA
1 AAAA
99954979 TATTGTCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
AAAAAAATTAAAT
Found at i:99956842 original size:27 final size:28
Alignment explanation
Indices: 99956780--99956842 Score: 65
Period size: 28 Copynumber: 2.3 Consensus size: 28
99956770 AAAATGTCAT
* * *
99956780 TTTATTAAAATATTACAAAAATAGATTA
1 TTTATAAAAAAATTACAAAAATAGAGTA
* * *
99956808 TTTTTAAAAAAATTACGAAAATA-AGTC
1 TTTATAAAAAAATTACAAAAATAGAGTA
99956835 TTTATAAA
1 TTTATAAA
99956843 GATCCAAAGT
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
27 9 0.32
28 19 0.68
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (28 bp):
TTTATAAAAAAATTACAAAAATAGAGTA
Found at i:99961484 original size:13 final size:13
Alignment explanation
Indices: 99961466--99961490 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
99961456 ATTAATTTTG
99961466 ATATCTGAATTTA
1 ATATCTGAATTTA
99961479 ATATCTGAATTT
1 ATATCTGAATTT
99961491 TGATTTGGTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.48
Consensus pattern (13 bp):
ATATCTGAATTTA
Found at i:99965662 original size:11 final size:11
Alignment explanation
Indices: 99965646--99965693 Score: 62
Period size: 11 Copynumber: 4.5 Consensus size: 11
99965636 TATACCTATC
99965646 CCTTGCCCATA
1 CCTTGCCCATA
*
99965657 CCTTGCCCACA
1 CCTTGCCCATA
*
99965668 CCTTTCCCATA
1 CCTTGCCCATA
*
99965679 CC-TACCCATA
1 CCTTGCCCATA
99965689 CCTTG
1 CCTTG
99965694 GAAAGGTCAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
10 9 0.29
11 22 0.71
ACGTcount: A:0.19, C:0.48, G:0.06, T:0.27
Consensus pattern (11 bp):
CCTTGCCCATA
Found at i:99966257 original size:18 final size:18
Alignment explanation
Indices: 99966234--99966304 Score: 88
Period size: 18 Copynumber: 3.9 Consensus size: 18
99966224 TTTACGGTAT
*
99966234 TATTCACGTATATAGTAC
1 TATTCACGTATACAGTAC
** *
99966252 TATTCACGTATATGGCAC
1 TATTCACGTATACAGTAC
* *
99966270 TATTCACATATACGGTAC
1 TATTCACGTATACAGTAC
99966288 TATTCACGTATACAGTA
1 TATTCACGTATACAGTA
99966305 GTTGGGATTG
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 46 1.00
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.35
Consensus pattern (18 bp):
TATTCACGTATACAGTAC
Found at i:99970375 original size:21 final size:21
Alignment explanation
Indices: 99970343--99970397 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
99970333 TATTAGAATA
* *
99970343 TACCCATCCCTTGCCCATACT
1 TACCCATACCTTGCCCATACC
* *
99970364 TGCCCATACCTTTCCCATACC
1 TACCCATACCTTGCCCATACC
99970385 TACCCATACCTTG
1 TACCCATACCTTG
99970398 GAAAGGTCAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.20, C:0.45, G:0.05, T:0.29
Consensus pattern (21 bp):
TACCCATACCTTGCCCATACC
Found at i:99970382 original size:11 final size:11
Alignment explanation
Indices: 99970345--99970397 Score: 65
Period size: 10 Copynumber: 5.0 Consensus size: 11
99970335 TTAGAATATA
*
99970345 CCCATCCCTTG
1 CCCATACCTTG
99970356 CCCATA-CTTG
1 CCCATACCTTG
*
99970366 CCCATACCTTT
1 CCCATACCTTG
*
99970377 CCCATACC-TA
1 CCCATACCTTG
99970387 CCCATACCTTG
1 CCCATACCTTG
99970398 GAAAGGTCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
10 19 0.53
11 17 0.47
ACGTcount: A:0.19, C:0.47, G:0.06, T:0.28
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:99977092 original size:19 final size:20
Alignment explanation
Indices: 99977064--99977113 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
99977054 ATACATAGGT
*
99977064 TTAA-CTTTAATAAAT-TTA
1 TTAATCTTTAATAAATCTAA
*
99977082 TTAATCTTTAATTAATCTAA
1 TTAATCTTTAATAAATCTAA
*
99977102 TCAATCTTTAAT
1 TTAATCTTTAAT
99977114 TCACTTATCT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 4 0.15
19 10 0.37
20 13 0.48
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (20 bp):
TTAATCTTTAATAAATCTAA
Found at i:99980175 original size:22 final size:22
Alignment explanation
Indices: 99980150--99980194 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
99980140 ATAATATCTA
*
99980150 TTAATTCATAATTTAA-TTAATT
1 TTAATT-ATAATCTAATTTAATT
*
99980172 TTAATTTTAATCTAATTTAATT
1 TTAATTATAATCTAATTTAATT
99980194 T
1 T
99980195 AGGTTAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (22 bp):
TTAATTATAATCTAATTTAATT
Found at i:99980180 original size:16 final size:16
Alignment explanation
Indices: 99980161--99980194 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
99980151 TAATTCATAA
99980161 TTTAAT-TAATTTTAAT
1 TTTAATCTAA-TTTAAT
99980177 TTTAATCTAATTTAAT
1 TTTAATCTAATTTAAT
99980193 TT
1 TT
99980195 AGGTTAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.82
17 3 0.18
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (16 bp):
TTTAATCTAATTTAAT
Found at i:99982467 original size:2 final size:2
Alignment explanation
Indices: 99982456--99982485 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
99982446 ATAAAGTAGG
99982456 TA TA -A 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 T
99982486 TTAAAAAAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:99990862 original size:19 final size:19
Alignment explanation
Indices: 99990838--99990874 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
99990828 AATTATATTT
*
99990838 TCTAAGATTGTATATTATA
1 TCTAAGATTGCATATTATA
99990857 TCTAAGATTGCATATTAT
1 TCTAAGATTGCATATTAT
99990875 TGAAGATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.08, G:0.11, T:0.46
Consensus pattern (19 bp):
TCTAAGATTGCATATTATA
Found at i:99990882 original size:17 final size:19
Alignment explanation
Indices: 99990841--99990882 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
99990831 TATATTTTCT
* *
99990841 AAGATTGTATATTATATCT
1 AAGATTGCATATTATATCG
99990860 AAGATTGCATATTAT-T-G
1 AAGATTGCATATTATATCG
99990877 AAGATT
1 AAGATT
99990883 ATATTTTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 6 0.29
18 1 0.05
19 14 0.67
ACGTcount: A:0.38, C:0.05, G:0.14, T:0.43
Consensus pattern (19 bp):
AAGATTGCATATTATATCG
Found at i:99998611 original size:10 final size:10
Alignment explanation
Indices: 99998598--99998645 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 10
99998588 TTATTTTCAT
99998598 TTATCTTTAA
1 TTATCTTTAA
*
99998608 TTATCTTAAA
1 TTATCTTTAA
*
99998618 TTATCTTTAT
1 TTATCTTTAA
* * *
99998628 TTATATGTAT
1 TTATCTTTAA
99998638 TTATCTTT
1 TTATCTTT
99998646 TAGAATTTAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
10 31 1.00
ACGTcount: A:0.27, C:0.08, G:0.02, T:0.62
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:99998641 original size:20 final size:20
Alignment explanation
Indices: 99998596--99998645 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
99998586 ATTTATTTTC
*
99998596 ATTTATCTTTAATTATCTTA
1 ATTTATCTTTAATTATATTA
* *
99998616 AATTATCTTTATTTATATGT-
1 ATTTATCTTTAATTATAT-TA
99998636 ATTTATCTTT
1 ATTTATCTTT
99998646 TAGAATTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 24 0.96
21 1 0.04
ACGTcount: A:0.28, C:0.08, G:0.02, T:0.62
Consensus pattern (20 bp):
ATTTATCTTTAATTATATTA
Found at i:99999976 original size:49 final size:49
Alignment explanation
Indices: 99999904--100000002 Score: 189
Period size: 49 Copynumber: 2.0 Consensus size: 49
99999894 TAACGCTAGG
*
99999904 GTTAACGAAAGCCCAAATCTAGCATATCAACAAATGGCTCAAACAATTC
1 GTTAACGAAAACCCAAATCTAGCATATCAACAAATGGCTCAAACAATTC
99999953 GTTAACGAAAACCCAAATCTAGCATATCAACAAATGGCTCAAACAATTC
1 GTTAACGAAAACCCAAATCTAGCATATCAACAAATGGCTCAAACAATTC
100000002 G
1 G
100000003 GCAACTGCTC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.43, C:0.24, G:0.12, T:0.20
Consensus pattern (49 bp):
GTTAACGAAAACCCAAATCTAGCATATCAACAAATGGCTCAAACAATTC
Found at i:100017534 original size:15 final size:14
Alignment explanation
Indices: 100017466--100017539 Score: 69
Period size: 15 Copynumber: 5.1 Consensus size: 14
100017456 GGCAACCCAA
100017466 TTATTA-TTTATTT
1 TTATTATTTTATTT
* *
100017479 TTCTTAATTTTAATT
1 TTATT-ATTTTATTT
*
100017494 TTAATATTTTATTT
1 TTATTATTTTATTT
* *
100017508 TATTTTACTTTATTAT
1 T-TATTATTTTATT-T
100017524 TTATTATTTTATTT
1 TTATTATTTTATTT
100017538 TT
1 TT
100017540 GGATGTTAAT
Statistics
Matches: 47, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
13 4 0.09
14 13 0.28
15 28 0.60
16 2 0.04
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (14 bp):
TTATTATTTTATTT
Found at i:100017535 original size:25 final size:25
Alignment explanation
Indices: 100017466--100017538 Score: 78
Period size: 25 Copynumber: 2.9 Consensus size: 25
100017456 GGCAACCCAA
*
100017466 TTATTATTTATTTTTCTTAATTTTAAT
1 TTATTATTTATTATT-TT-ATTTTAAT
* *
100017493 TT-TAATATT-TTATTTTATTTTACT
1 TTATTAT-TTATTATTTTATTTTAAT
100017517 TTATTATTTATTATTTTATTTT
1 TTATTATTTATTATTTTATTTT
100017539 TGGATGTTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
24 11 0.28
25 17 0.44
26 7 0.18
27 4 0.10
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.73
Consensus pattern (25 bp):
TTATTATTTATTATTTTATTTTAAT
Found at i:100020226 original size:97 final size:94
Alignment explanation
Indices: 100020106--100020287 Score: 274
Period size: 97 Copynumber: 1.9 Consensus size: 94
100020096 TTTTTAAGAA
* *
100020106 TATGTTGGGCTGAGTAACTGGGGTGAGGTGCTTGGCTGTCATCTCTCTTTGCGTCAAAAAGTTCG
1 TATGTTGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTGTCA--TCTCTTCGCGTCAAAAAGTTCG
* *
100020171 ATATGTTCTTAAAGAAAAATAAAAATTAGGAG
64 ATATATTCCT-AAGAAAAATAAAAATTAGGAG
* * *
100020203 TATGTTGGGCTGAGTAACCGGGGTGGGGTGCTTGGCTGTCATCTCTTCGTGTCAAAAGGTTCGAT
1 TATGTTGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTTCGCGTCAAAAAGTTCGAT
100020268 ATATTCCTAAGAAAAATAAA
66 ATATTCCTAAGAAAAATAAA
100020288 TAATAATAAT
Statistics
Matches: 78, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
94 12 0.15
95 27 0.35
97 39 0.50
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.31
Consensus pattern (94 bp):
TATGTTGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTTCGCGTCAAAAAGTTCGAT
ATATTCCTAAGAAAAATAAAAATTAGGAG
Found at i:100020325 original size:14 final size:15
Alignment explanation
Indices: 100020281--100020325 Score: 60
Period size: 14 Copynumber: 3.2 Consensus size: 15
100020271 TTCCTAAGAA
100020281 AAAT-AAATAATAAT
1 AAATAAAATAATAAT
*
100020295 -AATTAAATAATAAT
1 AAATAAAATAATAAT
100020309 AAATAAAATAA-AAT
1 AAATAAAATAATAAT
100020323 AAA
1 AAA
100020326 AAGATAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 3 0.11
14 16 0.57
15 9 0.32
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
AAATAAAATAATAAT
Found at i:100020334 original size:13 final size:14
Alignment explanation
Indices: 100020281--100020335 Score: 53
Period size: 14 Copynumber: 4.0 Consensus size: 14
100020271 TTCCTAAGAA
100020281 AAAT-AAATAATAAT
1 AAATAAAATAA-AAT
*
100020295 -AATTAAATAATAAT
1 AAATAAAATAA-AAT
100020309 AAATAAAATAAAAT
1 AAATAAAATAAAAT
*
100020323 AAA-AAGATAAAAT
1 AAATAAAATAAAAT
100020336 TTAGGGACTA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
13 12 0.32
14 16 0.43
15 9 0.24
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (14 bp):
AAATAAAATAAAAT
Found at i:100023516 original size:25 final size:24
Alignment explanation
Indices: 100023433--100023512 Score: 83
Period size: 24 Copynumber: 3.3 Consensus size: 24
100023423 TATATAACGA
100023433 GAAGCTCATAAGAGCCA-TAATCGG
1 GAAGCTCATAAGAGCCATTAATC-G
* * *
100023457 GAAGCTCATGAGAGCCAATAACCG
1 GAAGCTCATAAGAGCCATTAATCG
*
100023481 GTAGCTCCA-AAGAGCCATTAATCG
1 GAAGCT-CATAAGAGCCATTAATCG
100023505 GAAAGCTC
1 G-AAGCTC
100023513 CAAATAGCCA
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
24 36 0.78
25 10 0.22
ACGTcount: A:0.36, C:0.24, G:0.24, T:0.16
Consensus pattern (24 bp):
GAAGCTCATAAGAGCCATTAATCG
Found at i:100023529 original size:25 final size:26
Alignment explanation
Indices: 100023483--100023534 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 26
100023473 AATAACCGGT
100023483 AGCTCCAAAGAGCCATTAATCG-GAA
1 AGCTCCAAAGAGCCATTAATCGAGAA
*
100023508 AGCTCCAAATAGCCATGT-ATCGAGAA
1 AGCTCCAAAGAGCCAT-TAATCGAGAA
100023534 A
1 A
100023535 TTCAAGCGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 19 0.79
26 5 0.21
ACGTcount: A:0.40, C:0.23, G:0.19, T:0.17
Consensus pattern (26 bp):
AGCTCCAAAGAGCCATTAATCGAGAA
Found at i:100023606 original size:25 final size:27
Alignment explanation
Indices: 100023571--100023621 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
100023561 CTGAGATTCA
*
100023571 TTAATTAGG-AAGCTCACAAAAAGCCT
1 TTAATTAGGAAAACTCACAAAAAGCCT
*
100023597 TTAATT-GGAAAACTCACGAAAAGCC
1 TTAATTAGGAAAACTCACAAAAAGCC
100023622 ATATAACGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 2 0.09
26 20 0.91
ACGTcount: A:0.43, C:0.20, G:0.16, T:0.22
Consensus pattern (27 bp):
TTAATTAGGAAAACTCACAAAAAGCCT
Found at i:100026832 original size:14 final size:13
Alignment explanation
Indices: 100026813--100026842 Score: 51
Period size: 13 Copynumber: 2.2 Consensus size: 13
100026803 TAAGCTATGA
100026813 TTTTTTAATTGATT
1 TTTTTTAA-TGATT
100026827 TTTTTTAATGATT
1 TTTTTTAATGATT
100026840 TTT
1 TTT
100026843 ACGTTTTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (13 bp):
TTTTTTAATGATT
Found at i:100027662 original size:43 final size:41
Alignment explanation
Indices: 100027565--100027664 Score: 96
Period size: 42 Copynumber: 2.4 Consensus size: 41
100027555 TGTGATTACA
100027565 TGTAAGACCATGTCTGGGACATTGACATTGTATTGTAATATG
1 TGTAAGACCATGTCTGGGACATTGACATTGTATTG-AATATG
* * * * *
100027607 TGTAAAATCATGTTTGGGACATTGGCATCAT-TATTCG-ATTTCG
1 TGTAAGACCATGTCTGGGACATTGACAT--TGTATT-GAATAT-G
100027650 TGTAAGACCATGTCT
1 TGTAAGACCATGTCT
100027665 AAGACAGAGG
Statistics
Matches: 46, Mismatches: 8, Indels: 7
0.75 0.13 0.11
Matches are distributed among these distances:
42 27 0.59
43 17 0.37
44 2 0.04
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (41 bp):
TGTAAGACCATGTCTGGGACATTGACATTGTATTGAATATG
Found at i:100033363 original size:15 final size:15
Alignment explanation
Indices: 100033319--100033364 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
100033309 TATTTACTTA
*
100033319 TATATATTTTATTCT
1 TATATATTTTATTTT
* *
100033334 T-TATATTATAATTT
1 TATATATTTTATTTT
100033348 TATATATTTTATTTT
1 TATATATTTTATTTT
100033363 TA
1 TA
100033365 AATTTTAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
14 11 0.44
15 14 0.56
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (15 bp):
TATATATTTTATTTT
Found at i:100033369 original size:13 final size:13
Alignment explanation
Indices: 100033321--100033371 Score: 57
Period size: 14 Copynumber: 3.7 Consensus size: 13
100033311 TTTACTTATA
100033321 TATATTTTATTCTT
1 TATATTTTATT-TT
*
100033335 TATATTATAATTTT
1 TATATT-TTATTTT
100033349 ATATATTTTATTTT
1 -TATATTTTATTTT
*
100033363 TAAATTTTA
1 TATATTTTA
100033372 AATATTTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 14 0.44
15 10 0.31
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (13 bp):
TATATTTTATTTT
Found at i:100034816 original size:26 final size:23
Alignment explanation
Indices: 100034758--100034817 Score: 66
Period size: 26 Copynumber: 2.4 Consensus size: 23
100034748 TATTCTAAAT
100034758 ATTAAAAAAATTTATAATTATAA
1 ATTAAAAAAATTTATAATTATAA
* *
100034781 AATATTAAAAATTTATAAAATTATGAA
1 ATTA-AAAAAATTTAT--AATTAT-AA
100034808 ATTAAAAAAA
1 ATTAAAAAAA
100034818 CTTAACTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
23 3 0.10
24 10 0.34
26 11 0.38
27 5 0.17
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (23 bp):
ATTAAAAAAATTTATAATTATAA
Found at i:100034884 original size:22 final size:21
Alignment explanation
Indices: 100034841--100034899 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 21
100034831 TTATTAAATT
100034841 AAAT-TAAATTATAAAAACAATA
1 AAATATAAA-TAT-AAAACAATA
100034863 AAATATAAATATAAAACTAATA
1 AAATATAAATATAAAAC-AATA
*
100034885 ATATATAAA-ATAAAA
1 AAATATAAATATAAAA
100034900 AAAGTAAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
21 11 0.32
22 19 0.56
23 4 0.12
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.27
Consensus pattern (21 bp):
AAATATAAATATAAAACAATA
Found at i:100034909 original size:22 final size:22
Alignment explanation
Indices: 100034845--100034909 Score: 64
Period size: 22 Copynumber: 2.9 Consensus size: 22
100034835 TAAATTAAAT
100034845 TAAATTATAAAAACAATAAA-ATA
1 TAAA-TATAAAAA-AATAAATATA
*
100034868 TAAATATAAAACTAAT-AATATA
1 TAAATATAAAA-AAATAAATATA
100034890 TAAA-ATAAAAAAAGTAAATA
1 TAAATATAAAAAAA-TAAATA
100034910 GTAGTTGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
20 2 0.06
21 9 0.25
22 21 0.58
23 4 0.11
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.26
Consensus pattern (22 bp):
TAAATATAAAAAAATAAATATA
Found at i:100036060 original size:56 final size:56
Alignment explanation
Indices: 100035993--100036104 Score: 197
Period size: 56 Copynumber: 2.0 Consensus size: 56
100035983 AGTAAATATG
* *
100035993 TCTGCAACTTGTTTATCGGTTCGTACTTTTTGCAGCTCAATATCTTGAGATAACAC
1 TCTGCAACTTGTTCATCGGTTCGTACTTTTTGCAACTCAATATCTTGAGATAACAC
*
100036049 TCTGTAACTTGTTCATCGGTTCGTACTTTTTGCAACTCAATATCTTGAGATAACAC
1 TCTGCAACTTGTTCATCGGTTCGTACTTTTTGCAACTCAATATCTTGAGATAACAC
100036105 ATTCTCTTGA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.39
Consensus pattern (56 bp):
TCTGCAACTTGTTCATCGGTTCGTACTTTTTGCAACTCAATATCTTGAGATAACAC
Found at i:100042754 original size:10 final size:10
Alignment explanation
Indices: 100042739--100042764 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
100042729 GCGTGATAGA
100042739 ATTAAAATAT
1 ATTAAAATAT
100042749 ATTAAAATAT
1 ATTAAAATAT
100042759 ATTAAA
1 ATTAAA
100042765 TTAAAACTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
ATTAAAATAT
Found at i:100042999 original size:2 final size:2
Alignment explanation
Indices: 100042994--100043028 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
100042984 TTTGATGTCA
100042994 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
100043029 GTAGTGGTTT
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:100043796 original size:18 final size:20
Alignment explanation
Indices: 100043760--100043802 Score: 63
Period size: 18 Copynumber: 2.2 Consensus size: 20
100043750 CAAATAATGT
100043760 AAAAATTATAAGAACATTCA
1 AAAAATTATAAGAACATTCA
*
100043780 AAAAATTTTAA-AA-ATTCA
1 AAAAATTATAAGAACATTCA
100043798 AAAAA
1 AAAAA
100043803 AGTAATAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.45
19 2 0.09
20 10 0.45
ACGTcount: A:0.65, C:0.07, G:0.02, T:0.26
Consensus pattern (20 bp):
AAAAATTATAAGAACATTCA
Found at i:100055483 original size:14 final size:14
Alignment explanation
Indices: 100055464--100055491 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
100055454 AGATATGTTC
100055464 GGTGATGGAAATAA
1 GGTGATGGAAATAA
100055478 GGTGATGGAAATAA
1 GGTGATGGAAATAA
100055492 AAGCTTGGGA
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:0.43, C:0.00, G:0.36, T:0.21
Consensus pattern (14 bp):
GGTGATGGAAATAA
Done.