Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 58 of 253
Found at i:16221528 original size:79 final size:80
Alignment explanation
Indices: 16221392--16221548 Score: 212
Period size: 79 Copynumber: 2.0 Consensus size: 80
16221382 TCGAATGATG
* * *
16221392 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAAGCATTT
16221457 GTGCGAGTTACTAAT
66 GTGCGAGTTACTAAT
* * **
16221472 TCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAAGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAAGCAT
16221534 TTGTGCGAGTTACTA
64 TTGTGCGAGTTACTA
16221549 TAACCGGGTT
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
78 1 0.01
79 50 0.74
80 17 0.25
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAAGCATTT
GTGCGAGTTACTAAT
Found at i:16221556 original size:40 final size:39
Alignment explanation
Indices: 16221393--16221576 Score: 185
Period size: 40 Copynumber: 4.6 Consensus size: 39
16221383 CGAATGATGT
* * *
16221393 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* *
16221433 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
*
16221473 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
16221511 TCCGGGTTAAGTCCCGAAAGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * **
16221552 CCGGGTTATGTCCTAAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
16221577 AATGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:16229534 original size:40 final size:40
Alignment explanation
Indices: 16229450--16229634 Score: 184
Period size: 40 Copynumber: 4.7 Consensus size: 40
16229440 TCGAATGATG
* *
16229450 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
16229489 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
16229530 TCCGGGCTAAG-CCCGAAAGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
16229569 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGCT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
16229608 AACCGGGCTATG-CCTCGAAGGCATTTG
1 -TCCGGGCTAAGTCC-CGAAGGCATTTG
16229635 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 17, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
39 36 0.30
40 75 0.62
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:16229656 original size:79 final size:78
Alignment explanation
Indices: 16229484--16229657 Score: 183
Period size: 79 Copynumber: 2.2 Consensus size: 78
16229474 GTGCTAAGTG
* *
16229484 ACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAAG
1 ACTATATCCGG-TTAAGATCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAAG
**
16229549 CATTGGTGCGAGTT
65 CATTGGAACGAGTT
* * * *
16229563 ACTAAATCTGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTGCT-ATAACCGGGCTATGCCTCGA
1 ACTATATC-CGGTTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAGCC-CGA
* *
16229626 AGGCATTTGAACGAG-T
62 AAGCATTGGAACGAGTT
16229642 AGCTATATCCGGTTAA
1 A-CTATATCCGGTTAA
16229658 ATTCTGAAGG
Statistics
Matches: 78, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
78 3 0.04
79 53 0.68
80 22 0.28
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (78 bp):
ACTATATCCGGTTAAGATCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAAGC
ATTGGAACGAGTT
Found at i:16235727 original size:15 final size:15
Alignment explanation
Indices: 16235695--16235723 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
16235685 ATTTTCTGTG
16235695 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
16235710 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
16235724 ATTTTCATGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:16236259 original size:15 final size:15
Alignment explanation
Indices: 16236239--16236269 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
16236229 AATTATGAAA
16236239 GATATGTTTTGGATT
1 GATATGTTTTGGATT
*
16236254 GATATGTTTTGTATT
1 GATATGTTTTGGATT
16236269 G
1 G
16236270 GAATTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (15 bp):
GATATGTTTTGGATT
Found at i:16238246 original size:46 final size:48
Alignment explanation
Indices: 16238174--16238276 Score: 147
Period size: 46 Copynumber: 2.2 Consensus size: 48
16238164 GACAGGACAG
* * * *
16238174 GACAGAAATGAGCCATGTAAGTCCATATCA-GT-TATATGGCTTTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
*
16238220 GACAGGAATGAGCCATGTAAGCCCATATTATATATATATGGCATTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
16238268 GACAGGAAT
1 GACAGGAAT
16238277 AATTCATGTA
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
46 27 0.54
47 1 0.02
48 22 0.44
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (48 bp):
GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
Found at i:16238897 original size:13 final size:13
Alignment explanation
Indices: 16238879--16238906 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
16238869 ACATATTATA
16238879 AATATTTTGTGTT
1 AATATTTTGTGTT
16238892 AATATTTTGTGTT
1 AATATTTTGTGTT
16238905 AA
1 AA
16238907 AAATAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (13 bp):
AATATTTTGTGTT
Found at i:16240369 original size:40 final size:40
Alignment explanation
Indices: 16240321--16240566 Score: 361
Period size: 40 Copynumber: 6.2 Consensus size: 40
16240311 GGACTAAGAT
*
16240321 CCGAAGGCATTTGTGCTAGTTACTATATCTGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
16240361 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* * * * *
16240401 CCGAAGGAATTTTTACTAGTTACTATAACCGGACTAAGAT-
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAG-TC
* *
16240441 CTGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAGGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
*
16240481 CTGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* * *
16240521 CCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
16240560 CCGAAGG
1 CCGAAGG
16240567 TACTTGGGTT
Statistics
Matches: 186, Mismatches: 18, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
39 16 0.09
40 169 0.91
41 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
Found at i:16240518 original size:120 final size:120
Alignment explanation
Indices: 16240305--16240566 Score: 411
Period size: 120 Copynumber: 2.2 Consensus size: 120
16240295 TATTCGGATG
*
16240305 ATAACCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTATATCTGGGCTAAGTCCCGAAGGCA
1 ATAACCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
16240370 TTTGTGCTAGTTACTATATCCGGGCTAAGTCCCGAAGGAATTTTTACTAGTTACT
66 TTTGTGCTAGTTACTATATCCGGGCTAAGTCCCGAAGGAATTTTTACTAGTTACT
* * *
16240425 ATAACCGGACTAAGATCTGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAGGTCCTGAAGGCA
1 ATAACCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
* * * * *
16240490 TTTGTGCTAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCT
66 TTTGTGCTAGTTACTATATCCGGGCTAAGTCCCGAAGGAATTTTTACTAGTTACT
*
16240545 ATATCCGG-CTAA-ATCCCGAAGG
1 ATAACCGGACTAAGAT-CCGAAGG
16240567 TACTTGGGTT
Statistics
Matches: 130, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
118 2 0.02
119 10 0.08
120 118 0.91
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (120 bp):
ATAACCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
TTTGTGCTAGTTACTATATCCGGGCTAAGTCCCGAAGGAATTTTTACTAGTTACT
Found at i:16244076 original size:45 final size:45
Alignment explanation
Indices: 16244021--16244118 Score: 189
Period size: 45 Copynumber: 2.2 Consensus size: 45
16244011 TTGTTGAATG
16244021 AAAT-AGATATAAATAATAGTTTATTTCCTTTGATCATTGAATAT
1 AAATGAGATATAAATAATAGTTTATTTCCTTTGATCATTGAATAT
16244065 AAATGAGATATAAATAATAGTTTATTTCCTTTGATCATTGAATAT
1 AAATGAGATATAAATAATAGTTTATTTCCTTTGATCATTGAATAT
16244110 AAATGAGAT
1 AAATGAGAT
16244119 GTTAAGCATA
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
44 4 0.08
45 49 0.92
ACGTcount: A:0.42, C:0.06, G:0.11, T:0.41
Consensus pattern (45 bp):
AAATGAGATATAAATAATAGTTTATTTCCTTTGATCATTGAATAT
Found at i:16248890 original size:25 final size:24
Alignment explanation
Indices: 16248862--16248945 Score: 71
Period size: 25 Copynumber: 3.4 Consensus size: 24
16248852 CTGGAGGCCT
*
16248862 AGCCTCTTTTAAT-AACTGGGGCAAA
1 AGCC-CTTTTAATAAACTGGGAC-AA
*
16248887 AGCCCTTTTTGATAAACTGGGACAA
1 AGCCC-TTTTAATAAACTGGGACAA
** * *
16248912 AGCCCTTTTCGGTAAACTGGGGCAT
1 AGCCCTTTT-AATAAACTGGGACAA
16248937 AGCCCTTTT
1 AGCCCTTTT
16248946 TGCACTTCCT
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
24 5 0.10
25 38 0.75
26 8 0.16
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAAACTGGGACAA
Found at i:16248912 original size:26 final size:25
Alignment explanation
Indices: 16248875--16248947 Score: 101
Period size: 25 Copynumber: 2.9 Consensus size: 25
16248865 CTCTTTTAAT
16248875 AACTGGGGCAAAAGCCCTTTTTGATA
1 AACTGGGGC-AAAGCCCTTTTTGATA
* * *
16248901 AACTGGGACAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTGATA
*
16248926 AACTGGGGCATAGCCCTTTTTG
1 AACTGGGGCAAAGCCCTTTTTG
16248948 CACTTCCTCC
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
25 33 0.80
26 8 0.20
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGATA
Found at i:16249015 original size:9 final size:9
Alignment explanation
Indices: 16249001--16249057 Score: 69
Period size: 9 Copynumber: 5.9 Consensus size: 9
16248991 ACATCATGTG
16249001 CATATCATA
1 CATATCATA
*
16249010 CATATCATGTG
1 CATATCA--TA
16249021 CATATCATA
1 CATATCATA
16249030 CATATCATGA
1 CATATCAT-A
16249040 GCATATCATA
1 -CATATCATA
16249050 CATATCAT
1 CATATCAT
16249058 GTGCATATCA
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
9 24 0.57
10 2 0.05
11 16 0.38
ACGTcount: A:0.39, C:0.21, G:0.07, T:0.33
Consensus pattern (9 bp):
CATATCATA
Found at i:16249016 original size:20 final size:20
Alignment explanation
Indices: 16248993--16249069 Score: 145
Period size: 20 Copynumber: 3.9 Consensus size: 20
16248983 TTATGAATAC
16248993 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
16249013 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
16249033 ATCATGAGCATATCATACAT
1 ATCATGTGCATATCATACAT
16249053 ATCATGTGCATATCATA
1 ATCATGTGCATATCATA
16249070 TCAAAACCCA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 55 1.00
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:16249023 original size:40 final size:40
Alignment explanation
Indices: 16248979--16249063 Score: 120
Period size: 40 Copynumber: 2.1 Consensus size: 40
16248969 CCCAACCCAA
*
16248979 TGCATTATGAATAC-ATCATGTGCATATCATACATATCATG
1 TGCATTAT-AATACAATCATGAGCATATCATACATATCATG
*
16249019 TGCA-TATCATACATATCATGAGCATATCATACATATCATG
1 TGCATTATAATACA-ATCATGAGCATATCATACATATCATG
16249059 TGCAT
1 TGCAT
16249064 ATCATATCAA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
38 4 0.10
39 3 0.08
40 33 0.82
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.34
Consensus pattern (40 bp):
TGCATTATAATACAATCATGAGCATATCATACATATCATG
Found at i:16249024 original size:11 final size:11
Alignment explanation
Indices: 16248993--16249068 Score: 74
Period size: 11 Copynumber: 7.5 Consensus size: 11
16248983 TTATGAATAC
16248993 ATCATGTGCAT
1 ATCATGTGCAT
*
16249004 ATCA--TACAT
1 ATCATGTGCAT
16249013 ATCATGTGCAT
1 ATCATGTGCAT
*
16249024 ATCA--TACAT
1 ATCATGTGCAT
*
16249033 ATCATGAGCAT
1 ATCATGTGCAT
*
16249044 ATCA--TACAT
1 ATCATGTGCAT
16249053 ATCATGTGCAT
1 ATCATGTGCAT
16249064 ATCAT
1 ATCAT
16249069 ATCAAAACCC
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
9 23 0.45
11 28 0.55
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.34
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:16254038 original size:41 final size:45
Alignment explanation
Indices: 16253934--16254054 Score: 124
Period size: 41 Copynumber: 2.8 Consensus size: 45
16253924 TATGTGTCAT
* ** * * *
16253934 CGTGTAAGATCACATCTAGGACGTTGGCATCGATATATGTGGTTA
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGATATATGTGATTA
*
16253979 CGTGTAAGACCATTTCTGGGACATTGGCATCG-TAT-T-TGATT-
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGATATATGTGATTA
* * *
16254020 CGTGTAAGACCCTGTCTGGGACAGTGGCACCGATA
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGATA
16254055 CGAGATAGCA
Statistics
Matches: 65, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
41 28 0.43
42 6 0.09
43 1 0.02
44 3 0.05
45 27 0.42
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (45 bp):
CGTGTAAGACCATGTCTGGGACATTGGCATCGATATATGTGATTA
Found at i:16265622 original size:33 final size:32
Alignment explanation
Indices: 16265585--16265690 Score: 125
Period size: 32 Copynumber: 3.4 Consensus size: 32
16265575 CAATATTAAT
16265585 CTGGGCCATAGCCCCTTACAGTAACAGAGTATA
1 CTGGGCC-TAGCCCCTTACAGTAACAGAGTATA
* *
16265618 CTGGGCCTAG-CCCATATCAGTATC--A--AT-
1 CTGGGCCTAGCCCCTTA-CAGTAACAGAGTATA
16265645 CTGGGCCATAGCCCCTTACAGTAACAGAGTATA
1 CTGGGCC-TAGCCCCTTACAGTAACAGAGTATA
16265678 CTGGGCCTAGCCC
1 CTGGGCCTAGCCC
16265691 ATATCAGTAT
Statistics
Matches: 61, Mismatches: 4, Indels: 17
0.74 0.05 0.21
Matches are distributed among these distances:
27 7 0.11
28 11 0.18
29 5 0.08
30 2 0.03
31 5 0.08
32 17 0.28
33 14 0.23
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.22
Consensus pattern (32 bp):
CTGGGCCTAGCCCCTTACAGTAACAGAGTATA
Found at i:16265636 original size:60 final size:60
Alignment explanation
Indices: 16265556--16265756 Score: 284
Period size: 60 Copynumber: 3.4 Consensus size: 60
16265546 TTTAGTGTTA
*
16265556 ACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTAACAGAGTAT
1 ACTGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCCTTACAGTAACAGAGTAT
*
16265617 ACTGGGCCTAGCCCATATCAGTATCAATCTGGGCCATAGCCCCTTACAGTAACAGAGTAT
1 ACTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCCTTACAGTAACAGAGTAT
* *
16265677 ACTGGGCCTAGCCCATATCAGTATCAATCTGGGCCCTAG-CCCTATACAAGT--C-GAGATAT
1 ACTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCCT-TAC-AGTAACAGAG-TAT
* *
16265736 ATTGGGCCTTGCCCATATCAA
1 ACTGGGCCTAGCCCATATCAA
16265757 CACAGTTGGG
Statistics
Matches: 131, Mismatches: 6, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
58 3 0.02
59 26 0.20
60 91 0.69
61 11 0.08
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (60 bp):
ACTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCCTTACAGTAACAGAGTAT
Found at i:16265789 original size:19 final size:20
Alignment explanation
Indices: 16265746--16265791 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
16265736 ATTGGGCCTT
16265746 GCCCATATCAACACAGTTGG
1 GCCCATATCAACACAGTTGG
* *
16265766 GCCCATTTCAATACAGTT-G
1 GCCCATATCAACACAGTTGG
16265785 GCCCATA
1 GCCCATA
16265792 ACAGAACAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.24
Consensus pattern (20 bp):
GCCCATATCAACACAGTTGG
Found at i:16268355 original size:56 final size:56
Alignment explanation
Indices: 16268224--16268430 Score: 308
Period size: 56 Copynumber: 3.7 Consensus size: 56
16268214 CAGACAGGGT
* * * * * * * *
16268224 CTTACTCGTACACATATATCGGATTCATATATCAATGCCAACATATTAAA-GTGGT
1 CTTACTCGCACATATATATCAGAGTCACATATCGATGCCAACGTATTAAACGTGGA
*
16268279 CTTACTCGCACAAATATATCAGAGTCACATATCGATGCCAACGTATTAAACGTGGA
1 CTTACTCGCACATATATATCAGAGTCACATATCGATGCCAACGTATTAAACGTGGA
* *
16268335 CTTACTCGCACATATATATCAGAGTCAAATATAGATGCCAACGTATTAAACGTGGA
1 CTTACTCGCACATATATATCAGAGTCACATATCGATGCCAACGTATTAAACGTGGA
16268391 CTTACTCGCACATATATATCAGAGTCACATATCGATGCCA
1 CTTACTCGCACATATATATCAGAGTCACATATCGATGCCA
16268431 CATATACTTC
Statistics
Matches: 138, Mismatches: 13, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
55 43 0.31
56 95 0.69
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.28
Consensus pattern (56 bp):
CTTACTCGCACATATATATCAGAGTCACATATCGATGCCAACGTATTAAACGTGGA
Found at i:16270048 original size:29 final size:29
Alignment explanation
Indices: 16270006--16270073 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
16269996 ATGATCAACC
** * **
16270006 ATCCCTTTTCATAGTTGATGGTCGTCACT
1 ATCCCTTTTCATAGTCAATAGTCGAAACT
16270035 ATCCCTTTTCATAGTCAATAGTCGAAACT
1 ATCCCTTTTCATAGTCAATAGTCGAAACT
16270064 ATCCCTTTTC
1 ATCCCTTTTC
16270074 TTTAATCGAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.22, C:0.26, G:0.12, T:0.40
Consensus pattern (29 bp):
ATCCCTTTTCATAGTCAATAGTCGAAACT
Found at i:16276797 original size:29 final size:29
Alignment explanation
Indices: 16276764--16276852 Score: 80
Period size: 29 Copynumber: 3.2 Consensus size: 29
16276754 ATCAATGCCA
16276764 TGCCTTGACATGGTCTTACATGATTTCCT
1 TGCCTTGACATGGTCTTACATGATTTCCT
* ** * *
16276793 TGCCTT-ATA-GAACTTATCA--A-TGCCA
1 TGCCTTGACATGGTCTTA-CATGATTTCCT
*
16276818 TGCCTTGGCATGGTCTTACATGATTTCCT
1 TGCCTTGACATGGTCTTACATGATTTCCT
16276847 TGCCTT
1 TGCCTT
16276853 ATAGAACTTA
Statistics
Matches: 43, Mismatches: 11, Indels: 12
0.65 0.17 0.18
Matches are distributed among these distances:
25 9 0.21
26 4 0.09
27 10 0.23
28 5 0.12
29 15 0.35
ACGTcount: A:0.19, C:0.25, G:0.17, T:0.39
Consensus pattern (29 bp):
TGCCTTGACATGGTCTTACATGATTTCCT
Found at i:16276830 original size:54 final size:54
Alignment explanation
Indices: 16276640--16276901 Score: 348
Period size: 54 Copynumber: 4.9 Consensus size: 54
16276630 TTTCCTTTTT
* * * * * * *
16276640 GAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCTTTGCCTTATA
1 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATA
* * **
16276694 -AACTCAACAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATA
1 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCC-TTGCCTTATA
* * *
16276747 TTAACTTATCAATGCCATGCCTTGACATGGTCTTACATGATTTCCTTGCCTTATA
1 -GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATA
*
16276802 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATTTCCTTGCCTTATA
1 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATA
*
16276856 GAACTTATCAATGTCATGCCTTGGCATGGTCTTACATGATATCCTT
1 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTT
16276902 ATCTTACCAA
Statistics
Matches: 186, Mismatches: 18, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
52 1 0.01
53 43 0.23
54 96 0.52
55 44 0.24
56 2 0.01
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.37
Consensus pattern (54 bp):
GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATA
Found at i:16277033 original size:47 final size:46
Alignment explanation
Indices: 16276958--16277089 Score: 126
Period size: 45 Copynumber: 2.9 Consensus size: 46
16276948 TGTCTTAGTG
** * *
16276958 CCAATGCCACATCTTGATGTGGTCTTACATGGAGTCCTTAGTCAATG
1 CCAATGCCATGTCTTGACGTGGTCTTACATGGAGTCCTTAG-CAATA
* * * **
16277005 CCGATGCCATGTCTTGACGTGGTTTTACACGG-GATCCTT-GCCTTA
1 CCAATGCCATGTCTTGACGTGGTCTTACATGGAG-TCCTTAGCAATA
*
16277050 CCAATGCCATGTCTTGACATGGTCTTACATGGTA-TCCTTA
1 CCAATGCCATGTCTTGACGTGGTCTTACATGG-AGTCCTTA
16277090 ACCGTCAATT
Statistics
Matches: 68, Mismatches: 13, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
45 35 0.51
46 2 0.03
47 31 0.46
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.33
Consensus pattern (46 bp):
CCAATGCCATGTCTTGACGTGGTCTTACATGGAGTCCTTAGCAATA
Found at i:16277759 original size:30 final size:30
Alignment explanation
Indices: 16277714--16277770 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
16277704 TCCCTAACTC
* *
16277714 AAACTTTTTCAAAATTACAATTTTGCCCCT
1 AAACCTTTGCAAAATTACAATTTTGCCCCT
*
16277744 AAACCTTTGCAAAATTACGATTTTGCC
1 AAACCTTTGCAAAATTACAATTTTGCC
16277771 TCTAGGCTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.37
Consensus pattern (30 bp):
AAACCTTTGCAAAATTACAATTTTGCCCCT
Found at i:16280698 original size:27 final size:27
Alignment explanation
Indices: 16280494--16280706 Score: 223
Period size: 27 Copynumber: 7.9 Consensus size: 27
16280484 TTAGTTTACC
*
16280494 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGATTTGTA
* *
16280521 AAATTACCAAAATACCTCTGGTTTGTA
1 AAATTACCAAAATACCCCTGATTTGTA
* *
16280548 AAATTATCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGATTTGTA
*
16280575 AAATTATCAAAATACCCCT-AGTTTGTA
1 AAATTACCAAAATACCCCTGA-TTTGTA
* *
16280602 AAATTACCAAAATACCCCTAATTTGTG
1 AAATTACCAAAATACCCCTGATTTGTA
** * **
16280629 AAATTACTGAAATA-CCCTCAACCTGTA
1 AAATTACCAAAATACCCCT-GATTTGTA
*** * *
16280656 AAATTATTGAAATACCCTTGACTTGTA
1 AAATTACCAAAATACCCCTGATTTGTA
*
16280683 AAATTACCAAAGTACCCCTGATTT
1 AAATTACCAAAATACCCCTGATTT
16280707 ACATAATTAC
Statistics
Matches: 161, Mismatches: 21, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
26 4 0.02
27 153 0.95
28 4 0.02
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGATTTGTA
Found at i:16280771 original size:27 final size:27
Alignment explanation
Indices: 16280741--16280972 Score: 191
Period size: 27 Copynumber: 9.0 Consensus size: 27
16280731 TTTACAAAAT
*
16280741 TACCAAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
16280768 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
**** **
16280795 TACCGAAATACCGAAATA--CCA-AAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
*
16280819 TACC-------CC-TGTAGGGTAGAAT
1 TACCGAAATACCCTTGTAGGGTAGAAA
** * *
16280838 TACTAAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCTTGTAGGGTAGAAA
*
16280865 TACCGAAATACCTTTGTAGGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
* * *
16280892 TACCGAAATACCCCTCTAGGGTAGAAT
1 TACCGAAATACCCTTGTAGGGTAGAAA
* * *
16280919 TACTGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCTTGTAGGGTAGAAA
* *
16280946 TACCGAGATACCCTTGTGGGGTA-AAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
16280972 T
1 T
16280973 TACCATTTTA
Statistics
Matches: 164, Mismatches: 30, Indels: 23
0.76 0.14 0.11
Matches are distributed among these distances:
16 2 0.01
17 1 0.01
18 1 0.01
19 5 0.03
24 7 0.04
25 1 0.01
26 5 0.03
27 142 0.87
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.23
Consensus pattern (27 bp):
TACCGAAATACCCTTGTAGGGTAGAAA
Found at i:16280804 original size:8 final size:8
Alignment explanation
Indices: 16280791--16280822 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
16280781 TTGTAGGGTA
16280791 GAAATACC
1 GAAATACC
16280799 GAAATACC
1 GAAATACC
16280807 GAAATACC
1 GAAATACC
*
16280815 AAAATACC
1 GAAATACC
16280823 CCTGTAGGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.53, C:0.25, G:0.09, T:0.12
Consensus pattern (8 bp):
GAAATACC
Found at i:16280804 original size:54 final size:54
Alignment explanation
Indices: 16280741--16280972 Score: 227
Period size: 54 Copynumber: 4.5 Consensus size: 54
16280731 TTTACAAAAT
* * *
16280741 TACCAAAATACCCTTGTAGGGTAGAAATACCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAAA
* *
16280795 TACCGAAATA--CC---------GAAATACCAAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAAA
** * **
16280838 TACTAAAATACCCCTGTAGGGTAGAATTACCGAAATACCTTTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAAA
* * * *
16280892 TACCGAAATACCCCTCTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAAA
* * *
16280946 TACCGAGATACCCTTGTGGGGTA-AAAT
1 TACCGAAATACCCCTGTAGGGTAGAAAT
16280973 TACCATTTTA
Statistics
Matches: 143, Mismatches: 24, Indels: 23
0.75 0.13 0.12
Matches are distributed among these distances:
43 36 0.25
45 2 0.01
52 1 0.01
53 3 0.02
54 101 0.71
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.23
Consensus pattern (54 bp):
TACCGAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAAA
Found at i:16280847 original size:43 final size:43
Alignment explanation
Indices: 16280764--16280849 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
16280754 TTGTAGGGTA
* * *
16280764 GAAATACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACC
1 GAAATACCAAAATACCCCTGTAGGGTAGAAATACCAAAATACC
* *
16280807 GAAATACCAAAATACCCCTGTAGGGTAGAATTACTAAAATACC
1 GAAATACCAAAATACCCCTGTAGGGTAGAAATACCAAAATACC
16280850 CCTGTAGGGT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.43, C:0.21, G:0.16, T:0.20
Consensus pattern (43 bp):
GAAATACCAAAATACCCCTGTAGGGTAGAAATACCAAAATACC
Found at i:16280903 original size:81 final size:81
Alignment explanation
Indices: 16280807--16280977 Score: 272
Period size: 81 Copynumber: 2.1 Consensus size: 81
16280797 CCGAAATACC
*
16280807 GAAATACCAAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACCGAA
1 GAAATACCAAAATACCCCTCTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACCGAA
*
16280872 ATACCTTTGTAGGGTA
66 ATACCCTTGTAGGGTA
* * *
16280888 GAAATACCGAAATACCCCTCTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCGAG
1 GAAATACCAAAATACCCCTCTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACCGAA
*
16280953 ATACCCTTGTGGGGTA
66 ATACCCTTGTAGGGTA
16280969 -AAATTACCA
1 GAAA-TACCA
16280978 TTTTACCCCT
Statistics
Matches: 82, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
80 3 0.04
81 79 0.96
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (81 bp):
GAAATACCAAAATACCCCTCTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACCGAA
ATACCCTTGTAGGGTA
Found at i:16280973 original size:27 final size:27
Alignment explanation
Indices: 16280811--16280976 Score: 224
Period size: 27 Copynumber: 6.1 Consensus size: 27
16280801 AATACCGAAA
*
16280811 TACCAAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
**
16280838 TACTAAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
** *
16280865 TACCGAAATACCTTTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAT
*
16280892 TACCGAAATACCCCTCTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
*
16280919 TACTGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* * * *
16280946 TACCGAGATACCCTTGTGGGGTAAAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
16280973 TACC
1 TACC
16280977 ATTTTACCCC
Statistics
Matches: 122, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 122 1.00
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.25
Consensus pattern (27 bp):
TACCGAAATACCCCTGTAGGGTAGAAT
Found at i:16283193 original size:40 final size:40
Alignment explanation
Indices: 16283086--16283266 Score: 231
Period size: 40 Copynumber: 4.5 Consensus size: 40
16283076 CGGATGATAA
*
16283086 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATGAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-AT
* *
16283127 AACCGAGCTATGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 --CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
16283169 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* **
16283209 CCGGGCTAAGTCCCGAAGGCAGTTAAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
16283249 CC-GGCTAAATCCCAAAGG
1 CCGGGCTAAGTCCCGAAGG
16283267 TACTTGGTTT
Statistics
Matches: 125, Mismatches: 12, Indels: 6
0.87 0.08 0.04
Matches are distributed among these distances:
39 16 0.13
40 72 0.58
42 2 0.02
43 35 0.28
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:16291000 original size:43 final size:43
Alignment explanation
Indices: 16290939--16291143 Score: 305
Period size: 43 Copynumber: 4.9 Consensus size: 43
16290929 GAATATTCGG
*
16290939 ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACT
1 ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
16290982 ATGATAACCGGGCCAAGTCTCGAAGGCATTTGTGTGAGTTACT
1 ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
16291025 ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
16291068 AT-AT--CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACT
1 ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
16291108 AT-AT--CCGGGCTAAGTCCCGAAGGCAGTTGAGCGAGT
1 ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
16291144 AGCTATATTC
Statistics
Matches: 153, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
40 68 0.44
42 2 0.01
43 83 0.54
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (43 bp):
ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:16291089 original size:40 final size:40
Alignment explanation
Indices: 16290946--16291169 Score: 281
Period size: 43 Copynumber: 5.5 Consensus size: 40
16290936 CGGATGATAA
*
16290946 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATGAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-AT
* * *
16290987 AACCGGGCCAAGTCTCGAAGGCATTTGTGTGAGTTACTATGAT
1 --CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-AT
16291030 AACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 --CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
16291072 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
16291112 CCGGGCTAAGTCCCGAAGGCAGTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* * *
16291152 TC-GGCTAAATCCCAAAGG
1 CCGGGCTAAGTCCCGAAGG
16291170 TACTTGGTTT
Statistics
Matches: 168, Mismatches: 12, Indels: 6
0.90 0.06 0.03
Matches are distributed among these distances:
39 16 0.10
40 74 0.44
42 2 0.01
43 76 0.45
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:16292561 original size:6 final size:6
Alignment explanation
Indices: 16292552--16292744 Score: 119
Period size: 6 Copynumber: 31.3 Consensus size: 6
16292542 TTGCATTCAC
* * * *
16292552 ATTCTT ATTCTG ATTCT- ATTACCTG ATACTG ATTCTG ATT-TT ATTACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG
* *
16292602 ATTCTG ATTCTG GTTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG
* * * * *
16292651 ATTCTG -TTACCTA ATTTTG ATTCTG ATTTTG ATTTTG ATTCTG -TCACCTG
1 ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG
* * *
16292701 ATTCTG ATTCTA ATTCTG ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
16292745 AATGTTTCTT
Statistics
Matches: 146, Mismatches: 24, Indels: 34
0.72 0.12 0.17
Matches are distributed among these distances:
5 13 0.09
6 112 0.77
7 11 0.08
8 10 0.07
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:16292596 original size:25 final size:25
Alignment explanation
Indices: 16292558--16292618 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
16292548 TCACATTCTT
*
16292558 ATTCTGATTCTATTACCTGATACTG
1 ATTCTGATTCTATTACCTAATACTG
* *
16292583 ATTCTGATTTTATTACCTAATTCTG
1 ATTCTGATTCTATTACCTAATACTG
*
16292608 ATTCTGGTTCT
1 ATTCTGATTCT
16292619 GATTCTGATT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.21, C:0.18, G:0.11, T:0.49
Consensus pattern (25 bp):
ATTCTGATTCTATTACCTAATACTG
Found at i:16292621 original size:37 final size:37
Alignment explanation
Indices: 16292574--16292656 Score: 112
Period size: 37 Copynumber: 2.2 Consensus size: 37
16292564 ATTCTATTAC
* * *
16292574 CTGATACTGATTCTGATTTTATTACCTAATTCTGATT
1 CTGATTCTGATTCTGATTCTATTACCTAATACTGATT
* * *
16292611 CTGGTTCTGATTCTGATTCTGTTACCTGATACTGATT
1 CTGATTCTGATTCTGATTCTATTACCTAATACTGATT
16292648 CTGATTCTG
1 CTGATTCTG
16292657 TTACCTAATT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.19, C:0.18, G:0.16, T:0.47
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTATTACCTAATACTGATT
Found at i:16292647 original size:25 final size:25
Alignment explanation
Indices: 16292617--16292678 Score: 97
Period size: 25 Copynumber: 2.5 Consensus size: 25
16292607 GATTCTGGTT
*
16292617 CTGATTCTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTTACCTAATA
*
16292642 CTGATTCTGATTCTGTTACCTAATT
1 CTGATTCTGATTCTGTTACCTAATA
*
16292667 TTGATTCTGATT
1 CTGATTCTGATT
16292679 TTGATTTTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.19, C:0.18, G:0.15, T:0.48
Consensus pattern (25 bp):
CTGATTCTGATTCTGTTACCTAATA
Found at i:16292661 original size:62 final size:62
Alignment explanation
Indices: 16292553--16292744 Score: 244
Period size: 62 Copynumber: 3.1 Consensus size: 62
16292543 TGCATTCACA
* * * * *
16292553 TTCTTATTCTGATTCTATTACCTGATACTGATTCTGATTTTATTACCTAATTCTGATTCTGG
1 TTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTTTGATTCTGG
*
16292615 TTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTTTGATTCTGA
1 TTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTTTGATTCTGG
* * * * * * *
16292677 TTTTGATTTTGATTCTGTCACCTGATTCTGATTCTAATTCTGATT--CTCATTTTGATTCTAG
1 TTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTG-TTACCTAATTTTGATTCTGG
16292738 TTCTGAT
1 TTCTGAT
16292745 AATGTTTCTT
Statistics
Matches: 114, Mismatches: 15, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
61 19 0.17
62 93 0.82
63 2 0.02
ACGTcount: A:0.19, C:0.17, G:0.13, T:0.51
Consensus pattern (62 bp):
TTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTTTGATTCTGG
Found at i:16292677 original size:37 final size:37
Alignment explanation
Indices: 16292636--16292723 Score: 113
Period size: 37 Copynumber: 2.4 Consensus size: 37
16292626 ATTCTGTTAC
* * *
16292636 CTGATACTGATTCTGATTCTGTTACCTAATTTTGATT
1 CTGATTCTGATTCTGATTCTGTCACCTAATTCTGATT
* * *
16292673 CTGATTTTGATTTTGATTCTGTCACCTGATTCTGATT
1 CTGATTCTGATTCTGATTCTGTCACCTAATTCTGATT
*
16292710 CTAATTCTGATTCT
1 CTGATTCTGATTCT
16292724 CATTTTGATT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.19, C:0.17, G:0.14, T:0.50
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTGTCACCTAATTCTGATT
Found at i:16300062 original size:49 final size:49
Alignment explanation
Indices: 16299998--16300222 Score: 263
Period size: 49 Copynumber: 4.5 Consensus size: 49
16299988 CTGGTACACA
* *
16299998 TAGTAGTCTGCACTTAGTGCTACACATGCGACCAATTATCCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATG
* * ** * *
16300047 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACATG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCCGGTACATG
* * * * * **
16300097 TAGTAGCTTGCACTTAGTACTACACA-CCTGATCAAAGTTATCGGGTATACA
1 TAGTAGCCTGCACTTAGTACTACACATGC-GA-CCAA-TTATCCGGTACATG
*
16300148 TAGTAGCCTGCACTTCGTACTACACATGCGACCAATTATCCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATG
16300197 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
16300223 CGTGACCTCA
Statistics
Matches: 143, Mismatches: 28, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
49 64 0.45
50 44 0.31
51 34 0.24
52 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.28
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATG
Found at i:16300486 original size:27 final size:27
Alignment explanation
Indices: 16300456--16300509 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
16300446 AGGTACAACC
* *
16300456 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
*
16300483 CATGTAACAATAATTTACCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
16300510 TCACATGACA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.41, C:0.15, G:0.06, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:16306179 original size:14 final size:12
Alignment explanation
Indices: 16306147--16306176 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
16306137 GTTTGAGCTC
16306147 TATAGTTTTATGA
1 TATA-TTTTATGA
16306160 TATATTTTATGA
1 TATATTTTATGA
16306172 TATAT
1 TATAT
16306177 ATTAACTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (12 bp):
TATATTTTATGA
Found at i:16306633 original size:25 final size:28
Alignment explanation
Indices: 16306581--16306634 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 28
16306571 TTATCGCTCT
* *
16306581 TATGTGTTGAATGATCGATTTTGCATAA
1 TATGTGTTGAATGATCGATTATGAATAA
16306609 TATG-GTTGAAT-AT-GATTATGAATAA
1 TATGTGTTGAATGATCGATTATGAATAA
16306634 T
1 T
16306635 GCATGATGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 11 0.46
26 2 0.08
27 7 0.29
28 4 0.17
ACGTcount: A:0.33, C:0.04, G:0.20, T:0.43
Consensus pattern (28 bp):
TATGTGTTGAATGATCGATTATGAATAA
Found at i:16309662 original size:17 final size:19
Alignment explanation
Indices: 16309633--16309670 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
16309623 TTAGCATTCT
16309633 TACCAAGAGTTCAT-CTCA
1 TACCAAGAGTTCATACTCA
16309651 TACCAA-AGTTCATACTCA
1 TACCAAGAGTTCATACTCA
16309669 TA
1 TA
16309671 GGTTTTATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.37, C:0.26, G:0.08, T:0.29
Consensus pattern (19 bp):
TACCAAGAGTTCATACTCA
Found at i:16314307 original size:45 final size:45
Alignment explanation
Indices: 16314243--16314333 Score: 164
Period size: 45 Copynumber: 2.0 Consensus size: 45
16314233 CAAAAAAATG
16314243 TGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGA
1 TGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGA
**
16314288 TGTCACATATGTCATGAACTCAGACCACAACTCAATGAGTTCAGA
1 TGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGA
16314333 T
1 T
16314334 CACATAATTC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.24
Consensus pattern (45 bp):
TGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGA
Found at i:16314331 original size:21 final size:21
Alignment explanation
Indices: 16314262--16314337 Score: 64
Period size: 21 Copynumber: 3.5 Consensus size: 21
16314252 CATCATGAAC
16314262 TCAGACCACAACTCAATGAGT
1 TCAGACCACAACTCAATGAGT
* * **
16314283 TCAGATGTCACATATGTC-ATGAAC
1 TCAGA--CCACA-A-CTCAATGAGT
16314307 TCAGACCACAACTCAATGAGT
1 TCAGACCACAACTCAATGAGT
*
16314328 TCAGATCACA
1 TCAGACCACA
16314338 TAATTCCTAG
Statistics
Matches: 41, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
20 2 0.05
21 19 0.46
22 4 0.10
23 4 0.10
24 10 0.24
25 2 0.05
ACGTcount: A:0.37, C:0.26, G:0.14, T:0.22
Consensus pattern (21 bp):
TCAGACCACAACTCAATGAGT
Found at i:16323658 original size:29 final size:29
Alignment explanation
Indices: 16323597--16323659 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 29
16323587 AGAAAGATGT
***
16323597 AATTTGGGATGTTGTTGATCGACAAATGC
1 AATTTGGGATGTTGTTGATCGACAAACAA
* *
16323626 AATTTGGGTTGTTGTTGATCGACTAACAA
1 AATTTGGGATGTTGTTGATCGACAAACAA
16323655 AATTT
1 AATTT
16323660 ACCCATTTCA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.38
Consensus pattern (29 bp):
AATTTGGGATGTTGTTGATCGACAAACAA
Found at i:16326175 original size:34 final size:33
Alignment explanation
Indices: 16326129--16326217 Score: 92
Period size: 33 Copynumber: 2.7 Consensus size: 33
16326119 TTTCAGTTAA
*
16326129 GGCCTTAG-CCATTTCAGAATCAGAAACAGTGTG
1 GGCCTAAGCCCATTTCAGAATCAGAAACAGTG-G
* * * *
16326162 GGCCTGAGCCCATTTCAATAAT-AGTATCAGTGG
1 GGCCTAAGCCCATTTC-AGAATCAGAAACAGTGG
*
16326195 GGCCTAAGCCCATTACAGAATCA
1 GGCCTAAGCCCATTTCAGAATCA
16326218 ATACAGTATG
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
32 4 0.09
33 23 0.50
34 15 0.33
35 4 0.09
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (33 bp):
GGCCTAAGCCCATTTCAGAATCAGAAACAGTGG
Found at i:16328618 original size:29 final size:28
Alignment explanation
Indices: 16328581--16328636 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 28
16328571 TGCGAGTTAT
*
16328581 ACTGATTTGGCTTCGGGCCATGCATATCG
1 ACTGATTTGGCTTCGAGCCATG-ATATCG
*
16328610 ACTGGTTTGGCTTCGAGCCATGATATC
1 ACTGATTTGGCTTCGAGCCATGATATC
16328637 AGTATTTTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.20
29 20 0.80
ACGTcount: A:0.18, C:0.23, G:0.27, T:0.32
Consensus pattern (28 bp):
ACTGATTTGGCTTCGAGCCATGATATCG
Found at i:16333610 original size:28 final size:27
Alignment explanation
Indices: 16333555--16333666 Score: 138
Period size: 27 Copynumber: 4.1 Consensus size: 27
16333545 AGCATGGCTG
* *
16333555 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
*
16333581 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAATTGTGGCAGAGCCA
16333609 CCAGAACAGA-AATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* * *
16333636 CTAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
16333663 CCAG
1 CCAG
16333667 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 8 0.11
27 48 0.65
28 18 0.24
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:16333646 original size:54 final size:54
Alignment explanation
Indices: 16333555--16333666 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
16333545 AGCATGGCTG
* *
16333555 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * * *
16333609 CCAGAACAGAAATATGTGGCAGAGCCACTAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
16333663 CCAG
1 CCAG
16333667 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 34 0.67
55 17 0.33
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:16335111 original size:24 final size:24
Alignment explanation
Indices: 16335084--16335154 Score: 115
Period size: 24 Copynumber: 3.0 Consensus size: 24
16335074 CTAGATTTCC
** *
16335084 TCCCTTATCTGCTCCTAAATCGTA
1 TCCCTTATCAACTCCTAAATCCTA
16335108 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
16335132 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
16335155 CTCCTGACAG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.25, C:0.37, G:0.03, T:0.35
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:16341464 original size:28 final size:26
Alignment explanation
Indices: 16341409--16341487 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 26
16341399 AGCATGGCTG
* *
16341409 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
16341435 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
* *
16341463 CCAAAACAGAAATATGTGGCAGAGC
1 CCAGAACAGATA-ATGTGGCAGAGC
16341488 TGTAATATCC
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 5 0.11
27 25 0.54
28 16 0.35
ACGTcount: A:0.41, C:0.22, G:0.24, T:0.14
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:16342809 original size:46 final size:46
Alignment explanation
Indices: 16342754--16342925 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
16342744 ACAAGTGACA
16342754 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * * *
16342800 TCCGAACTCGTTCAGTTGAGTCTGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
16342845 CATCCGAACTCGTTGAGTTGAGTCC-AGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
16342892 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
16342926 GGGGCGGGTT
Statistics
Matches: 100, Mismatches: 16, Indels: 20
0.74 0.12 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 23 0.23
46 42 0.42
47 24 0.24
49 3 0.03
50 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:16342910 original size:92 final size:93
Alignment explanation
Indices: 16342752--16342920 Score: 295
Period size: 92 Copynumber: 1.8 Consensus size: 93
16342742 ATACAAGTGA
* *
16342752 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTCAGTT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTCAGTT
16342817 GAGTCTGAGTTCGTGAAATGTAACTAGG
66 GAGTCTGAGTTCGTGAAATGTAACTAGG
* *
16342845 CATCCGAACTCGTTGAGTTGAGTCC-AGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTCAGTT
16342909 GAGTCTGAGTTC
66 GAGTCTGAGTTC
16342921 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 47 0.65
93 25 0.35
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (93 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTCAGTT
GAGTCTGAGTTCGTGAAATGTAACTAGG
Found at i:16348332 original size:46 final size:46
Alignment explanation
Indices: 16348282--16348454 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
16348272 TGGTTGTGCA
16348282 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
16348328 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
16348373 CATCTGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
16348421 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
16348455 AGGGCGGGTT
Statistics
Matches: 103, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 59 0.57
47 27 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:16348438 original size:93 final size:93
Alignment explanation
Indices: 16348279--16348449 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
16348269 GGATGGTTGT
* * *
16348279 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
16348344 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
16348372 GCATCTGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
16348437 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
16348450 ACTTAAGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:16348747 original size:40 final size:39
Alignment explanation
Indices: 16348675--16348782 Score: 153
Period size: 40 Copynumber: 2.7 Consensus size: 39
16348665 CTTTTAGTGG
* * *
16348675 CTTTAGCGGCGCTTCTTAAAAACGCCGCTATAGGTACAC
1 CTTTAGCGGCGTTTTTTAAAAGCGCCGCTATAGGTACAC
16348714 CTTTAGCGGCGTTTTTTAAGAAGCGCCGCTATAGGTACAC
1 CTTTAGCGGCGTTTTTTAA-AAGCGCCGCTATAGGTACAC
* *
16348754 CTATAGCGGCGTTTTTCAAAAAGCGCCGC
1 CTTTAGCGGCGTTTTT-TAAAAGCGCCGC
16348783 AAAAAGAGTT
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
39 17 0.27
40 43 0.69
41 2 0.03
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (39 bp):
CTTTAGCGGCGTTTTTTAAAAGCGCCGCTATAGGTACAC
Found at i:16348924 original size:40 final size:41
Alignment explanation
Indices: 16348841--16348932 Score: 125
Period size: 41 Copynumber: 2.3 Consensus size: 41
16348831 TTAGCAGTGC
* *
16348841 TTTTTAAAAA-CACCACTATAGGTACACCTTTAGCGGCATT
1 TTTTTAAAAAGCACCACTATAGGTACACCTATAGCGGCAGT
* *
16348881 TTTTTAAAAAGCACCGCTATAGGTACACCTATAGTGGC-GT
1 TTTTTAAAAAGCACCACTATAGGTACACCTATAGCGGCAGT
*
16348921 TTTTCAAAAAGC
1 TTTTTAAAAAGC
16348933 GGCGCAAAAG
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
40 22 0.48
41 24 0.52
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.32
Consensus pattern (41 bp):
TTTTTAAAAAGCACCACTATAGGTACACCTATAGCGGCAGT
Found at i:16348952 original size:154 final size:155
Alignment explanation
Indices: 16348561--16349021 Score: 755
Period size: 155 Copynumber: 3.0 Consensus size: 155
16348551 AGAACGAGCA
*
16348561 TTAGTGGCGTTTTTTAAAAAGCGCCGCTATAGGTACACCTATAGCGGCGTTTTTCAAAAAGCGCC
1 TTAGCGGCGTTTTTTAAAAAGCGCCGCTATAGGTACACCTATAGCGGCGTTTTTCAAAAAGCGCC
* *
16348626 GCAAAGGAGTTTTACAAAACAACGTCGTTTTGTATTGACCTTTTAGTGGCTTTAGCGGCGCTTCT
66 GCAAAAGAGTTTTACAAAACAACGTCGTTTTGTATTGACCTTTTAGTGGCTTTAGCGGCGCTTTT
*
16348691 TAAAAACGCCGCTATAGGTACACCT
131 TAAAAACACCGCTATAGGTACACCT
*
16348716 TTAGCGGCGTTTTTTAAGAAGCGCCGCTATAGGTACACCTATAGCGGCGTTTTTCAAAAAGCGCC
1 TTAGCGGCGTTTTTTAAAAAGCGCCGCTATAGGTACACCTATAGCGGCGTTTTTCAAAAAGCGCC
* *
16348781 GCAAAAAGAGTTTTACAAAACAACGTCG-TTTGTATTGACC-TTTAGTGGCTTTAGCAGTGCTTT
66 GC-AAAAGAGTTTTACAAAACAACGTCGTTTTGTATTGACCTTTTAGTGGCTTTAGCGGCGCTTT
*
16348844 TTAAAAACACCACTATAGGTACACCT
130 TTAAAAACACCGCTATAGGTACACCT
* * * *
16348870 TTAGCGGCATTTTTTTAAAAAGCACCGCTATAGGTACACCTATAGTGGCGTTTTTCAAAAAGCGG
1 TTAGCGGC-GTTTTTTAAAAAGCGCCGCTATAGGTACACCTATAGCGGCGTTTTTCAAAAAGCGC
* * *
16348935 CGCAAAAGAGTTTTACAAAACGACATCGTTTTATATTGACCTTTTAGTGGCTTTAGCGGCGCTTT
65 CGCAAAAGAGTTTTACAAAACAACGTCGTTTTGTATTGACCTTTTAGTGGCTTTAGCGGCGCTTT
16349000 TTAAAAACACCGCTATAGGTAC
130 TTAAAAACACCGCTATAGGTAC
16349022 TGTAACCCCA
Statistics
Matches: 283, Mismatches: 19, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
154 75 0.27
155 142 0.50
156 66 0.23
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (155 bp):
TTAGCGGCGTTTTTTAAAAAGCGCCGCTATAGGTACACCTATAGCGGCGTTTTTCAAAAAGCGCC
GCAAAAGAGTTTTACAAAACAACGTCGTTTTGTATTGACCTTTTAGTGGCTTTAGCGGCGCTTTT
TAAAAACACCGCTATAGGTACACCT
Found at i:16349549 original size:27 final size:27
Alignment explanation
Indices: 16349511--16349565 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
16349501 CAATCGGTCT
16349511 TAGTCCATTACAACAGACAGTACCAGA
1 TAGTCCATTACAACAGACAGTACCAGA
16349538 TAGTCCATTACAACAGACAGTACCAGA
1 TAGTCCATTACAACAGACAGTACCAGA
16349565 T
1 T
16349566 GGGCCTTAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.40, C:0.25, G:0.15, T:0.20
Consensus pattern (27 bp):
TAGTCCATTACAACAGACAGTACCAGA
Found at i:16349647 original size:11 final size:11
Alignment explanation
Indices: 16349619--16349747 Score: 66
Period size: 11 Copynumber: 11.0 Consensus size: 11
16349609 AAACAAAATG
16349619 AGAATCAGAAT
1 AGAATCAGAAT
*
16349630 CAGAATCAGTAT
1 -AGAATCAGAAT
*
16349642 AGAATCAAAAT
1 AGAATCAGAAT
16349653 AGAATCA-ATATT
1 AGAATCAGA-A-T
*
16349665 A-AGTACAGAAT
1 AGAAT-CAGAAT
16349676 CAGAA-CAGAAT
1 -AGAATCAGAAT
* * *
16349687 CAGAATTAGGTGAC
1 -AGAATCA-G-AAT
16349701 AGAATCAGAAT
1 AGAATCAGAAT
16349712 ACAGAATCAGTAAT
1 --AGAATCAG-AAT
**
16349726 AGAATCAGACC
1 AGAATCAGAAT
16349737 AGAATCAGAAT
1 AGAATCAGAAT
16349748 TTCGTGACAG
Statistics
Matches: 90, Mismatches: 15, Indels: 25
0.69 0.12 0.19
Matches are distributed among these distances:
10 1 0.01
11 42 0.47
12 26 0.29
13 17 0.19
14 4 0.04
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.19
Consensus pattern (11 bp):
AGAATCAGAAT
Found at i:16349674 original size:29 final size:29
Alignment explanation
Indices: 16349619--16349766 Score: 105
Period size: 29 Copynumber: 5.2 Consensus size: 29
16349609 AAACAAAATG
* *
16349619 AGAATCAGAATCAGAA-TCAGTATAGAATC
1 AGAAT-AGAATCAGAATTAAGTACAGAATC
*
16349648 AAAATAGAATCA-ATATTAAGTACAGAATC
1 AGAATAGAATCAGA-ATTAAGTACAGAATC
* *
16349677 AGAACAGAATCAGAATTAGGTGACAGAATC
1 AGAATAGAATCAGAATTAAGT-ACAGAATC
16349707 AGAATACAGAATCAG---TAA-T--AGAATC
1 AGAAT--AGAATCAGAATTAAGTACAGAATC
** **
16349732 AGACCAGAATCAGAATTTCGTGACAGAATC
1 AGAATAGAATCAGAATTAAGT-ACAGAATC
16349762 AGAAT
1 AGAAT
16349767 CGACTTGAAT
Statistics
Matches: 92, Mismatches: 14, Indels: 25
0.70 0.11 0.19
Matches are distributed among these distances:
23 8 0.09
25 9 0.10
26 1 0.01
27 2 0.02
28 9 0.10
29 33 0.36
30 22 0.24
32 8 0.09
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.20
Consensus pattern (29 bp):
AGAATAGAATCAGAATTAAGTACAGAATC
Found at i:16349767 original size:6 final size:6
Alignment explanation
Indices: 16349619--16349747 Score: 85
Period size: 6 Copynumber: 21.8 Consensus size: 6
16349609 AAACAAAATG
* * *
16349619 AGAATC AGAATC AGAATC AGTAT- AGAATC AAAAT- AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGA-ATC
* * *
16349665 A-AGTAC AGAATC AGAA-C AGAATC AGAATT AG-GTGAC AGAATC AGAATAC
1 AGAAT-C AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAAT-C
*
16349714 AGAATC AGTAAT- AGAATC AG-ACC AGAATC AGAAT
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAAT
16349748 TTCGTGACAG
Statistics
Matches: 96, Mismatches: 14, Indels: 26
0.71 0.10 0.19
Matches are distributed among these distances:
5 23 0.24
6 59 0.61
7 13 0.14
8 1 0.01
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:16349935 original size:27 final size:26
Alignment explanation
Indices: 16349887--16349960 Score: 85
Period size: 27 Copynumber: 2.8 Consensus size: 26
16349877 AGCATGGCTG
* * * *
16349887 CCAGAACAGTTATCGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
16349913 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
*
16349940 CCAGAATCAGATAATGTGGCA
1 CCAGAA-CAGATATTGTGGCA
16349961 AACCCACCTA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
26 6 0.15
27 35 0.85
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:16349967 original size:27 final size:27
Alignment explanation
Indices: 16349911--16349968 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
16349901 GTGACAGAGT
* * *
16349911 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
16349938 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
16349965 CACC
1 CACC
16349969 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:16350546 original size:27 final size:27
Alignment explanation
Indices: 16350516--16350710 Score: 211
Period size: 27 Copynumber: 7.2 Consensus size: 27
16350506 GGGCAAAATG
* * *
16350516 GTAATTTTACCCCACAAGGGTATCTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
16350543 GTAATTCTACCCTAC-AGGAGTATTTC-
1 GTAATTCTACCCTACAAGG-GTATTTCA
*
16350569 GATATTTCTACCCTACAAGGGTATTTC-
1 G-TAATTCTACCCTACAAGGGTATTTCA
* **
16350596 GATAATTCTACCCTACAGGGGTATTTTG
1 G-TAATTCTACCCTACAAGGGTATTTCA
* *
16350624 GTAATTCTATCCTATAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
16350651 GTAATTCTACCCTA-TAGGGTTATTTCA
1 GTAATTCTACCCTACAAGGG-TATTTCA
*
16350678 GAAATTCTACCCTAC-AGAGGTATTTCA
1 GTAATTCTACCCTACAAG-GGTATTTCA
16350705 GTAATT
1 GTAATT
16350711 TCACAATCAA
Statistics
Matches: 145, Mismatches: 16, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
26 8 0.06
27 131 0.90
28 6 0.04
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:16350751 original size:27 final size:27
Alignment explanation
Indices: 16350715--16351309 Score: 645
Period size: 27 Copynumber: 22.1 Consensus size: 27
16350705 GTAATTTCAC
* * *
16350715 AATCAAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
16350742 AATCGAGGGT-AAACGATAAATT-T-TGA
1 AATCGAGGGTAAAACGGT-AATTCTAT-A
* *
16350768 AA-CTGAGGGTAAACCAGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* * * *
16350795 AATCAAGGGTAAAACAGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
16350822 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *** *
16350849 AATCGATGGTAAAATAATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
16350876 AA-CTGAGGGTAAAACGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
** *
16350903 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * *
16350930 AA-CTAAGGGTAAAACAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
** * *
16350957 AATCGAGGGTAAAATAGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
16350984 AATCGAGGGTAAAACGGTAATTCTAT-
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
16351010 AATCGAGGGTAAAATCAGTAATTCTGTA
1 AATCGAGGGTAAAA-CGGTAATTCTATA
*
16351038 AA-CTGAGGGTAAAAC-GTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* *
16351064 AATCGAGGGTAAAACGGTAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
16351091 AATCGAGGGTAAAACGGTAATTTTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
16351118 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
16351145 AA-CTGAGGGTAAAACGATAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* * *
16351172 AATTGAGGGTAAAACAGTAATT-TAAA
1 AATCGAGGGTAAAACGGTAATTCTATA
16351198 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
16351225 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
16351252 AATCGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
16351279 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
16351306 AATC
1 AATC
16351310 AGGAGTACTT
Statistics
Matches: 488, Mismatches: 61, Indels: 38
0.83 0.10 0.06
Matches are distributed among these distances:
25 2 0.00
26 83 0.17
27 387 0.79
28 16 0.03
ACGTcount: A:0.42, C:0.10, G:0.21, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTATA
Found at i:16351292 original size:107 final size:106
Alignment explanation
Indices: 16350720--16351300 Score: 703
Period size: 107 Copynumber: 5.4 Consensus size: 106
16350710 TTCACAATCA
* ** *
16350720 AGGGTAAAATGGTAATTCTGTAAATCGAGGGT-AAAC-GATAAATTTTGAAA-CTGAGGGTAAAC
1 AGGGTAAAA-CGTAATTCTGTAAATCGAGGGTAAAACAG-T-AATTTAAAAATC-GAGGGTAAAA
* *
16350782 CAGTAATTCTATAAATCAAGGGTAAAACAGTAATT-T-TACAAATCG
62 CGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTA-AAAT-G
* * * **
16350827 AGGGTAAAACGGTAATTCTGTAAATCGATGGTAAAATAATAATTCTGTAAA-CTGAGGGTAAAAC
1 AGGGTAAAAC-GTAATTCTGTAAATCGAGGGTAAAACAGTAATT-TAAAAATC-GAGGGTAAAAC
* * * * *
16350891 GGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTA
63 GGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAAATG
* *
16350935 AGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTACAAATCGAGGGTAAAACG
1 AGGGTAAAAC-GTAATTCTGTAAATCGAGGGTAAAACAGTAA-TTTAAAAATCGAGGGTAAAACG
*
16351000 GTAATTCTAT-AATCGAGGGTAAAATCAGTAATTCTGTAAACTG
64 GTAATTCTATAAATCGAGGGTAAAA-CAGTAATTCTGTAAAATG
*
16351043 AGGGTAAAACGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTAAAAATCGAGGGTAAAACGG
1 AGGGTAAAACGTAATTCTGTAAATCGAGGGTAAAACAGTAA-TTTAAAAATCGAGGGTAAAACGG
* * *
16351108 TAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAACTG
65 TAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAAATG
* *
16351150 AGGGTAAAACGATAATTCTATAAATTGAGGGTAAAACAGTAATTTAAAAATCGAGGGTAAAACGG
1 AGGGTAAAACG-TAATTCTGTAAATCGAGGGTAAAACAGTAATTTAAAAATCGAGGGTAAAACGG
*
16351215 TAATTCTATAAATCGAGGGTAAAACGGTAATT-T-TACAAATCG
65 TAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTA-AAAT-G
*
16351257 AGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACAGTAATT
1 AGGGTAAAAC-GTAATTCTGTAAATCGAGGGTAAAACAGTAATT
16351301 CTGTAAATCA
Statistics
Matches: 426, Mismatches: 34, Indels: 28
0.87 0.07 0.06
Matches are distributed among these distances:
105 2 0.00
106 4 0.01
107 231 0.54
108 180 0.42
109 7 0.02
110 2 0.00
ACGTcount: A:0.42, C:0.09, G:0.21, T:0.27
Consensus pattern (106 bp):
AGGGTAAAACGTAATTCTGTAAATCGAGGGTAAAACAGTAATTTAAAAATCGAGGGTAAAACGGT
AATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAAATG
Found at i:16352509 original size:26 final size:28
Alignment explanation
Indices: 16352470--16352522 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
16352460 AAATTTGAAA
*
16352470 GAAAACATAGAAAAA-TATTTGTTAAAT
1 GAAAAAATAGAAAAACTATTTGTTAAAT
*
16352497 GAAAAAAT-GAAAAACTATTTTTTAAA
1 GAAAAAATAGAAAAACTATTTGTTAAA
16352523 ATAATTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.57, C:0.04, G:0.09, T:0.30
Consensus pattern (28 bp):
GAAAAAATAGAAAAACTATTTGTTAAAT
Found at i:16352750 original size:11 final size:11
Alignment explanation
Indices: 16352734--16352776 Score: 77
Period size: 11 Copynumber: 3.9 Consensus size: 11
16352724 TTTAGGATCA
16352734 TGGTTTAAGGG
1 TGGTTTAAGGG
16352745 TGGTTTAAGGG
1 TGGTTTAAGGG
16352756 TGGTTTAAGGG
1 TGGTTTAAGGG
*
16352767 TAGTTTAAGG
1 TGGTTTAAGG
16352777 TTGGGGTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
11 31 1.00
ACGTcount: A:0.21, C:0.00, G:0.42, T:0.37
Consensus pattern (11 bp):
TGGTTTAAGGG
Found at i:16352827 original size:14 final size:14
Alignment explanation
Indices: 16352780--16352820 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
16352770 TTTAAGGTTG
* *
16352780 GGGTTAAGGTTTAA
1 GGGTTAGGGGTTAA
16352794 GGTGTTAGGGGTTAA
1 GG-GTTAGGGGTTAA
16352809 GGGTTAGGGGTT
1 GGGTTAGGGGTT
16352821 CATGGTTTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.20, C:0.00, G:0.46, T:0.34
Consensus pattern (14 bp):
GGGTTAGGGGTTAA
Found at i:16353804 original size:18 final size:18
Alignment explanation
Indices: 16353783--16353821 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
16353773 AAATTGAAAG
*
16353783 AAAAAT-AAAAAAATATT
1 AAAAATGAAAAAAAAATT
16353800 AAAAATGAAAAAAAAATT
1 AAAAATGAAAAAAAAATT
16353818 AAAA
1 AAAA
16353822 TTAAGCAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (18 bp):
AAAAATGAAAAAAAAATT
Found at i:16356061 original size:24 final size:23
Alignment explanation
Indices: 16356034--16356098 Score: 85
Period size: 23 Copynumber: 2.8 Consensus size: 23
16356024 CTAGAATTCC
**
16356034 TCCCTTATCTGCTCCTAAATCGTA
1 TCCCTTATCAACTCCTAAATC-TA
*
16356058 TCCCGTATCAACTCCTAAATCTA
1 TCCCTTATCAACTCCTAAATCTA
*
16356081 TCGCTTATCAACTCCTAA
1 TCCCTTATCAACTCCTAA
16356099 TCCTCTCCTG
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
23 18 0.50
24 18 0.50
ACGTcount: A:0.26, C:0.34, G:0.06, T:0.34
Consensus pattern (23 bp):
TCCCTTATCAACTCCTAAATCTA
Found at i:16365555 original size:1 final size:1
Alignment explanation
Indices: 16365551--16365620 Score: 77
Period size: 1 Copynumber: 70.0 Consensus size: 1
16365541 GACCACAAAG
* * * * * * *
16365551 AAAAAAAATAAAAAAAACAAAAAAAAAAATAGAAAAATAAAAATAAAAAAAAAAAAAAAAAGAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
16365616 AAAAA
1 AAAAA
16365621 CAGTGGAGAT
Statistics
Matches: 55, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 55 1.00
ACGTcount: A:0.90, C:0.01, G:0.03, T:0.06
Consensus pattern (1 bp):
A
Found at i:16365603 original size:30 final size:29
Alignment explanation
Indices: 16365554--16365617 Score: 101
Period size: 30 Copynumber: 2.2 Consensus size: 29
16365544 CACAAAGAAA
* *
16365554 AAAAATAAAAAAAACAAAAAAAAAAATAG
1 AAAAATAAAAAAAAAAAAAAAAAAAAAAG
16365583 AAAAATAAAAATAAAAAAAAAAAAAAAAAG
1 AAAAATAAAAA-AAAAAAAAAAAAAAAAAG
16365613 AAAAA
1 AAAAA
16365618 AAACAGTGGA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 11 0.34
30 21 0.66
ACGTcount: A:0.89, C:0.02, G:0.03, T:0.06
Consensus pattern (29 bp):
AAAAATAAAAAAAAAAAAAAAAAAAAAAG
Found at i:16371723 original size:28 final size:28
Alignment explanation
Indices: 16371691--16371755 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
16371681 ATTTACTAGA
*
16371691 ATACCCCTATGTATGAAAAATTACCATT
1 ATACCCCTATGTATGAAAAATGACCATT
* * *
16371719 ATA-CCCTAATGTGTGCAAAATGACCTTT
1 ATACCCCT-ATGTATGAAAAATGACCATT
16371747 ATACCCCTA
1 ATACCCCTA
16371756 GGGTTAATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
27 4 0.13
28 23 0.74
29 4 0.13
ACGTcount: A:0.35, C:0.25, G:0.09, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGAAAAATGACCATT
Found at i:16378247 original size:12 final size:13
Alignment explanation
Indices: 16378219--16378251 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
16378209 TTATTTCTTT
16378219 TTCTCCATCTACC
1 TTCTCCATCTACC
*
16378232 TTCTCC-TCTTCC
1 TTCTCCATCTACC
16378244 TTCTCCAT
1 TTCTCCAT
16378252 AGCCGAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.09, C:0.45, G:0.00, T:0.45
Consensus pattern (13 bp):
TTCTCCATCTACC
Found at i:16379341 original size:28 final size:28
Alignment explanation
Indices: 16379309--16379373 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
16379299 ATTTACTAGA
*
16379309 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
16379337 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
16379365 ATACCCCTA
1 ATACCCCTA
16379374 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:16379520 original size:28 final size:27
Alignment explanation
Indices: 16379479--16379566 Score: 110
Period size: 25 Copynumber: 3.2 Consensus size: 27
16379469 AGGAAGCGTC
16379479 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
*
16379507 CTGGTGGCCCTGCCAC--ATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
16379532 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
16379561 CTGGTG
1 CTGGTG
16379567 ACTCTGTCAC
Statistics
Matches: 53, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
25 23 0.43
26 1 0.02
28 22 0.42
29 7 0.13
ACGTcount: A:0.19, C:0.25, G:0.24, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:16379577 original size:29 final size:28
Alignment explanation
Indices: 16379489--16379577 Score: 94
Period size: 25 Copynumber: 3.2 Consensus size: 28
16379479 CTGGTGGCTA
* * *
16379489 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
16379517 TGCCAC---ATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
16379542 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
16379571 TGTCACA
1 TGCCACA
16379578 TTTTCTGTAT
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
25 23 0.44
28 14 0.27
29 15 0.29
ACGTcount: A:0.21, C:0.27, G:0.20, T:0.31
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:16380592 original size:11 final size:10
Alignment explanation
Indices: 16380564--16380597 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
16380554 AGCCTGTAAG
16380564 TATTCTGAAT
1 TATTCTGAAT
*
16380574 TTTTCTGAAT
1 TATTCTGAAT
16380584 ATATTCTGAAT
1 -TATTCTGAAT
16380595 TAT
1 TAT
16380598 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:16385970 original size:12 final size:13
Alignment explanation
Indices: 16385942--16385974 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
16385932 TTATTTCTTT
16385942 TTCTCCATCTACC
1 TTCTCCATCTACC
*
16385955 TTCTCC-TCTTCC
1 TTCTCCATCTACC
16385967 TTCTCCAT
1 TTCTCCAT
16385975 AGCCGAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.09, C:0.45, G:0.00, T:0.45
Consensus pattern (13 bp):
TTCTCCATCTACC
Found at i:16387068 original size:28 final size:28
Alignment explanation
Indices: 16387036--16387100 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
16387026 ATTTACTAGA
*
16387036 ATACCCCTATGTATGAAAAATTACCATT
1 ATACCCCTATGTATGAAAAATGACCATT
* * *
16387064 ATACCCCTATGTGTGCAAAATGACCTTT
1 ATACCCCTATGTATGAAAAATGACCATT
16387092 ATACCCCTA
1 ATACCCCTA
16387101 GGGTTAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.34, C:0.26, G:0.09, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGAAAAATGACCATT
Found at i:16387264 original size:27 final size:27
Alignment explanation
Indices: 16387206--16387295 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
16387196 AGGAAGCGTC
16387206 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
16387234 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
16387261 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
16387290 CTGGTG
1 CTGGTG
16387296 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:16387314 original size:55 final size:56
Alignment explanation
Indices: 16387206--16387320 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
16387196 AGGAAGCGTC
* *
16387206 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
16387261 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
16387317 CTGG
1 CTGG
16387321 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.58
56 21 0.40
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:16394726 original size:28 final size:28
Alignment explanation
Indices: 16394694--16394750 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
16394684 TCTTATGTGT
16394694 AGAAATAAGGAAGGTGAGAGAATGAGAC
1 AGAAATAAGGAAGGTGAGAGAATGAGAC
16394722 AGAAATAAGGAAGGTGAGAGAATGAGAC
1 AGAAATAAGGAAGGTGAGAGAATGAGAC
16394750 A
1 A
16394751 TAAGGTAGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.51, C:0.04, G:0.35, T:0.11
Consensus pattern (28 bp):
AGAAATAAGGAAGGTGAGAGAATGAGAC
Found at i:16395817 original size:15 final size:15
Alignment explanation
Indices: 16395793--16395828 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
16395783 AGACACACCT
*
16395793 TTTTCCTTTGTATAA
1 TTTTCTTTTGTATAA
16395808 TTTTCTTTTGTATAA
1 TTTTCTTTTGTATAA
16395823 TTTTCT
1 TTTTCT
16395829 CTTTAGTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.17, C:0.11, G:0.06, T:0.67
Consensus pattern (15 bp):
TTTTCTTTTGTATAA
Found at i:16402045 original size:40 final size:39
Alignment explanation
Indices: 16401910--16402051 Score: 149
Period size: 40 Copynumber: 3.6 Consensus size: 39
16401900 AATTATTGTG
**
16401910 TGAATGCACATACGCGCCCCTGTTTGTACTTCGGTACCCC
1 TGAATGCACATACATGCCCCTGTTTGTACTTC-GTACCCC
* ** ** * *
16401950 TGAATGTACATATGTAACCATGTTTGTACTTCGATACCAC
1 TGAATGCACATACATGCCCCTGTTTGTACTTCG-TACCCC
*
16401990 TAAATGCACATACATGCCCCTGTTTGTACTTCAGTACCCC
1 TGAATGCACATACATGCCCCTGTTTGTACTTC-GTACCCC
* *
16402030 TGAATGCATATACATGCTCCTG
1 TGAATGCACATACATGCCCCTG
16402052 ATTTTATTAT
Statistics
Matches: 82, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
39 1 0.01
40 80 0.98
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (39 bp):
TGAATGCACATACATGCCCCTGTTTGTACTTCGTACCCC
Found at i:16412360 original size:12 final size:11
Alignment explanation
Indices: 16412328--16412361 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
16412318 GACCCGCCCG
16412328 TGTTAATTTTTA
1 TGTT-ATTTTTA
*
16412340 TATTATTTTTA
1 TGTTATTTTTA
16412351 TGTTATTTTTA
1 TGTTATTTTTA
16412362 AATATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 17 0.85
12 3 0.15
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (11 bp):
TGTTATTTTTA
Found at i:16412538 original size:30 final size:31
Alignment explanation
Indices: 16412483--16412546 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
16412473 ACTTAACAAG
*
16412483 CAAATGCCTCTAAAATAATTAAAAAAATTAA
1 CAAACGCCTCTAAAATAATTAAAAAAATTAA
* *
16412514 CAAACGCCTTTAAAATAA-TAAAAAATTTAA
1 CAAACGCCTCTAAAATAATTAAAAAAATTAA
16412544 CAA
1 CAA
16412547 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 14 0.47
31 16 0.53
ACGTcount: A:0.58, C:0.14, G:0.03, T:0.25
Consensus pattern (31 bp):
CAAACGCCTCTAAAATAATTAAAAAAATTAA
Found at i:16428850 original size:19 final size:17
Alignment explanation
Indices: 16428826--16428871 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 17
16428816 TAGTGTAAAT
16428826 GGCCCAAGGCCCATTAGTC
1 GGCCCAAGGCCCATTA--C
16428845 GGCCCAAGTGGCCCATTAC
1 GGCCCAA--GGCCCATTAC
16428864 GGCCCAAG
1 GGCCCAAG
16428872 CCCCCGAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 1 0.04
19 15 0.60
21 9 0.36
ACGTcount: A:0.22, C:0.37, G:0.28, T:0.13
Consensus pattern (17 bp):
GGCCCAAGGCCCATTAC
Found at i:16434368 original size:6 final size:6
Alignment explanation
Indices: 16434357--16434397 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
16434347 TATAGATACG
* *
16434357 GTTTTA GTTTTA TTTTTA GTTTTA GTTTTA GTTCTA GTTTT
1 GTTTTA GTTTTA GTTTTA GTTTTA GTTTTA GTTTTA GTTTT
16434398 TTTTTCTCTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.15, C:0.02, G:0.15, T:0.68
Consensus pattern (6 bp):
GTTTTA
Found at i:16441107 original size:35 final size:35
Alignment explanation
Indices: 16441061--16441133 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
16441051 GCTTCTTGCA
*
16441061 AAATTTTCCAAATAATTTCATTTTTTTGGGTACAC
1 AAATTTTCCAAATAAGTTCATTTTTTTGGGTACAC
16441096 AAATTTTCCAAATAAGTTCATTTTTTTGGGTACAC
1 AAATTTTCCAAATAAGTTCATTTTTTTGGGTACAC
16441131 AAA
1 AAA
16441134 CCCTATATCT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.42
Consensus pattern (35 bp):
AAATTTTCCAAATAAGTTCATTTTTTTGGGTACAC
Found at i:16450131 original size:46 final size:44
Alignment explanation
Indices: 16449991--16450131 Score: 101
Period size: 46 Copynumber: 3.0 Consensus size: 44
16449981 GCCCATAAGC
* * *
16449991 GAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT--C
1 GAACTCAGACTCAACTCAACGAGTTCGGATGCCCA---A-ATC-CTAGT
* * *
16450038 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGC--ATCCATAAGT
1 GAACTCAGACTCAACTCAACGAGTTCGG--ATGCCCAAATCC-T-AGT
16450084 GAACTCAGACTCAACTCAACGAGTTCGGATGCCCAAATATCCTAGT
1 GAACTCAGACTCAACTCAACGAGTTCGGATGCCC-AA-ATCCTAGT
16450130 GA
1 GA
16450132 CATGTCACTT
Statistics
Matches: 75, Mismatches: 9, Indels: 21
0.71 0.09 0.20
Matches are distributed among these distances:
42 1 0.01
43 4 0.05
44 4 0.05
46 32 0.43
47 27 0.36
48 4 0.05
49 3 0.04
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.22
Consensus pattern (44 bp):
GAACTCAGACTCAACTCAACGAGTTCGGATGCCCAAATCCTAGT
Found at i:16455168 original size:14 final size:14
Alignment explanation
Indices: 16455146--16455175 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
16455136 TAATTATTAA
16455146 TAATGAAATAAAGT
1 TAATGAAATAAAGT
*
16455160 TAATTAAATAAAGT
1 TAATGAAATAAAGT
16455174 TA
1 TA
16455176 CACAAGCACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.10, T:0.33
Consensus pattern (14 bp):
TAATGAAATAAAGT
Found at i:16456868 original size:18 final size:15
Alignment explanation
Indices: 16456824--16456877 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 15
16456814 AAACCCTAGC
16456824 CCCAAAACCCAACAA
1 CCCAAAACCCAACAA
16456839 CCCACTAAACCCAACAGAA
1 CCCA--AAACCCAAC--AA
16456858 GCCCAAAACCCAACTAA
1 -CCCAAAACCCAAC-AA
16456875 CCC
1 CCC
16456878 TTAACCCTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
15 4 0.12
16 3 0.09
17 11 0.33
18 9 0.27
19 2 0.06
20 4 0.12
ACGTcount: A:0.46, C:0.46, G:0.04, T:0.04
Consensus pattern (15 bp):
CCCAAAACCCAACAA
Found at i:16458768 original size:3 final size:3
Alignment explanation
Indices: 16458720--16458784 Score: 53
Period size: 3 Copynumber: 22.0 Consensus size: 3
16458710 TAATAATATA
* * * * * *
16458720 TAT TA- TAT TCT TAC TAT TAT CAT TAC TA- TATT TAT TAT CAT CAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT
16458764 TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT
16458785 CTTTACTTAT
Statistics
Matches: 50, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
2 4 0.08
3 44 0.88
4 2 0.04
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:16464234 original size:21 final size:19
Alignment explanation
Indices: 16464206--16464263 Score: 71
Period size: 23 Copynumber: 2.8 Consensus size: 19
16464196 ATAAAGAAGT
16464206 ATAAAAATTAAAAAATAAA
1 ATAAAAATTAAAAAATAAA
16464225 ATGGAAAAATTCAAAAAAATAAA
1 AT--AAAAATT--AAAAAATAAA
16464248 ATAAAACATTAAAAAA
1 ATAAAA-ATTAAAAAA
16464264 AATGCAACAC
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
19 2 0.06
20 6 0.18
21 11 0.32
22 3 0.09
23 12 0.35
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.19
Consensus pattern (19 bp):
ATAAAAATTAAAAAATAAA
Found at i:16464264 original size:21 final size:20
Alignment explanation
Indices: 16464206--16464264 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 20
16464196 ATAAAGAAGT
16464206 ATAAAAATT-AAAAAATAAA
1 ATAAAAATTAAAAAAATAAA
16464225 ATGGAAAAATTCAAAAAAATAAA
1 AT--AAAAATT-AAAAAAATAAA
16464248 ATAAAACATTAAAAAAA
1 ATAAAA-ATTAAAAAAA
16464265 ATGCAACACG
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
19 2 0.06
21 18 0.51
22 3 0.09
23 12 0.34
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.19
Consensus pattern (20 bp):
ATAAAAATTAAAAAAATAAA
Found at i:16466161 original size:11 final size:12
Alignment explanation
Indices: 16466141--16466229 Score: 54
Period size: 12 Copynumber: 7.0 Consensus size: 12
16466131 TTCGTTTTGT
*
16466141 ATTATTTTTTAAA
1 ATTATTTTAT-AA
*
16466154 ATTATTTTATAT
1 ATTATTTTATAA
*
16466166 ATTATTTACTTTAA
1 ATTATTT--TATAA
*
16466180 ATTGTTTTATAA
1 ATTATTTTATAA
*
16466192 ATTATTTATTTCAA
1 ATTATTT-TAT-AA
*
16466206 ATTGA-TTTATAC
1 ATT-ATTTTATAA
*
16466218 TTTATTTTATAA
1 ATTATTTTATAA
16466230 TGTATATATT
Statistics
Matches: 58, Mismatches: 12, Indels: 13
0.70 0.14 0.16
Matches are distributed among these distances:
11 1 0.02
12 27 0.47
13 13 0.22
14 16 0.28
15 1 0.02
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (12 bp):
ATTATTTTATAA
Found at i:16466187 original size:26 final size:25
Alignment explanation
Indices: 16466056--16466224 Score: 116
Period size: 26 Copynumber: 6.6 Consensus size: 25
16466046 ATTTTGAACA
*
16466056 GTTTTAT-TATTATTTATTTTAAGTT
1 GTTTTATATATTATTTA-TTTAAATT
* ** *
16466081 -TTTTCCTATGGTATTTGTTCTAAATT
1 GTTTT-ATATATTATTTATT-TAAATT
* *
16466107 GTTTTACCATATTATTTATTTTAATT
1 GTTTTA-TATATTATTTATTTAAATT
*
16466133 CG-TTT-TGTATTATTT-TTTAAAATT
1 -GTTTTATATATTATTTATTT-AAATT
*
16466157 ATTTTATATATTATTTACTTTAAATT
1 GTTTTATATATTATTTA-TTTAAATT
*
16466183 GTTTTATAAATTATTTATTTCAAATT
1 GTTTTATATATTATTTATTT-AAATT
*
16466209 GATTTATACT-TTATTT
1 GTTTTATA-TATTATTT
16466225 TATAATGTAT
Statistics
Matches: 111, Mismatches: 20, Indels: 25
0.71 0.13 0.16
Matches are distributed among these distances:
23 3 0.03
24 19 0.17
25 15 0.14
26 57 0.51
27 17 0.15
ACGTcount: A:0.27, C:0.05, G:0.06, T:0.62
Consensus pattern (25 bp):
GTTTTATATATTATTTATTTAAATT
Found at i:16468464 original size:19 final size:19
Alignment explanation
Indices: 16468442--16468487 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
16468432 CTTCCTTTCT
16468442 TTTGCATT-CATTCCATACA
1 TTTGCATTGCATTCCAT-CA
* *
16468461 TTTGCATTGCATTGCGTCA
1 TTTGCATTGCATTCCATCA
16468480 TTTGCATT
1 TTTGCATT
16468488 AAACTTTCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.20, C:0.22, G:0.13, T:0.46
Consensus pattern (19 bp):
TTTGCATTGCATTCCATCA
Found at i:16480886 original size:21 final size:22
Alignment explanation
Indices: 16480851--16480891 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
16480841 GTTTATTTTG
16480851 ATGTTTGATGATAGA-AAATGT
1 ATGTTTGATGATAGATAAATGT
* *
16480872 ATGTTTGTTGTTAGATAAAT
1 ATGTTTGATGATAGATAAAT
16480892 AAAATTTGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.34, C:0.00, G:0.22, T:0.44
Consensus pattern (22 bp):
ATGTTTGATGATAGATAAATGT
Found at i:16482188 original size:2 final size:2
Alignment explanation
Indices: 16482183--16482221 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
16482173 TGTATATATA
16482183 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
16482222 AAATGGCCTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:16482907 original size:26 final size:26
Alignment explanation
Indices: 16482870--16482919 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
16482860 TCATGGGCCG
*
16482870 GGCTACTCGGCCCGGCCCGAAGGCTC
1 GGCTACTCGGCCCAGCCCGAAGGCTC
* *
16482896 GGCTACTTGGCCCAGCTCGAAGGC
1 GGCTACTCGGCCCAGCCCGAAGGC
16482920 CCGTCCAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.14, C:0.38, G:0.34, T:0.14
Consensus pattern (26 bp):
GGCTACTCGGCCCAGCCCGAAGGCTC
Found at i:16483221 original size:30 final size:31
Alignment explanation
Indices: 16483187--16483246 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
16483177 ACTTATTTTC
16483187 TTGTTAA-TTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTTGTTATTATTTTAAAGGCAT
* *
16483217 TTGTTAATTTTTTTTATTATTTTAGAGGCA
1 TTGTTAATTTTTGTTATTATTTTAAAGGCA
16483247 CTTACTTGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 7 0.26
31 20 0.74
ACGTcount: A:0.25, C:0.03, G:0.13, T:0.58
Consensus pattern (31 bp):
TTGTTAATTTTTGTTATTATTTTAAAGGCAT
Found at i:16484095 original size:23 final size:23
Alignment explanation
Indices: 16484065--16484145 Score: 65
Period size: 23 Copynumber: 3.3 Consensus size: 23
16484055 CTTTCTTAAA
16484065 AATTGTTAATGATAGGAAGATTG
1 AATTGTTAATGATAGGAAGATTG
* * * * *
16484088 AATTGTTAGAATTAATTCA-TAAAAATA
1 AATTGTT--AA-TGA-T-AGGAAGATTG
16484115 AATTGTTAATGATAGGAAGATTG
1 AATTGTTAATGATAGGAAGATTG
16484138 AATTGTTA
1 AATTGTTA
16484146 GAATTAATTC
Statistics
Matches: 42, Mismatches: 10, Indels: 12
0.66 0.16 0.19
Matches are distributed among these distances:
22 1 0.02
23 20 0.48
24 2 0.05
25 4 0.10
26 2 0.05
27 12 0.29
28 1 0.02
ACGTcount: A:0.43, C:0.01, G:0.19, T:0.37
Consensus pattern (23 bp):
AATTGTTAATGATAGGAAGATTG
Found at i:16484120 original size:50 final size:50
Alignment explanation
Indices: 16484064--16484159 Score: 192
Period size: 50 Copynumber: 1.9 Consensus size: 50
16484054 CCTTTCTTAA
16484064 AAATTGTTAATGATAGGAAGATTGAATTGTTAGAATTAATTCATAAAAAT
1 AAATTGTTAATGATAGGAAGATTGAATTGTTAGAATTAATTCATAAAAAT
16484114 AAATTGTTAATGATAGGAAGATTGAATTGTTAGAATTAATTCATAA
1 AAATTGTTAATGATAGGAAGATTGAATTGTTAGAATTAATTCATAA
16484160 TGATTTAGAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.45, C:0.02, G:0.17, T:0.36
Consensus pattern (50 bp):
AAATTGTTAATGATAGGAAGATTGAATTGTTAGAATTAATTCATAAAAAT
Found at i:16484284 original size:41 final size:41
Alignment explanation
Indices: 16484237--16484322 Score: 163
Period size: 41 Copynumber: 2.1 Consensus size: 41
16484227 GATTACTCTA
*
16484237 GATACACAAAGGTTTATCTCCTAAGATCAAAAGATGAAACT
1 GATACACAAAGGATTATCTCCTAAGATCAAAAGATGAAACT
16484278 GATACACAAAGGATTATCTCCTAAGATCAAAAGATGAAACT
1 GATACACAAAGGATTATCTCCTAAGATCAAAAGATGAAACT
16484319 GATA
1 GATA
16484323 AAACTTTTCT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.45, C:0.16, G:0.15, T:0.23
Consensus pattern (41 bp):
GATACACAAAGGATTATCTCCTAAGATCAAAAGATGAAACT
Found at i:16486171 original size:68 final size:68
Alignment explanation
Indices: 16486062--16486355 Score: 356
Period size: 68 Copynumber: 4.3 Consensus size: 68
16486052 GAGAGAGGTT
* ** * * * * *
16486062 TAATATGTAAGACCATTGCTAAACTATGGCAACATAAAGAGTTCGCCAAGATAGTAAACATGGGT
1 TAATATGTAAGACCATAGCTAGGCTATGGCAACATATAGAGTCCTCCAGGACAGTAAACATGGGT
16486127 TTA
66 TTA
* * * *
16486130 TAATATGTAAAACCATAGCTAGGCTATGGAAACATATAGAGTCTTCCAGGACAGTAAACATAGGT
1 TAATATGTAAGACCATAGCTAGGCTATGGCAACATATAGAGTCCTCCAGGACAGTAAACATGGGT
16486195 TTA
66 TTA
* * *
16486198 TAATGTGTGAGACCATAGCTAGGCTATGGCAACATATAGAGTCCAT-CAGGATAGTAAACATGGG
1 TAATATGTAAGACCATAGCTAGGCTATGGCAACATATAGAGTCC-TCCAGGACAGTAAACATGGG
16486262 TTTA
65 TTTA
* * * *
16486266 TAATGTGTAAGACCATAACTAGGCTATGGCAATATATAGAGTCCTCCAGGACATTAAACATGGGT
1 TAATATGTAAGACCATAGCTAGGCTATGGCAACATATAGAGTCCTCCAGGACAGTAAACATGGGT
*
16486331 TCA
66 TTA
* * * *
16486334 TACTGTGTAAGACTATGGCTAG
1 TAATATGTAAGACCATAGCTAG
16486356 ACTACGGCCA
Statistics
Matches: 195, Mismatches: 29, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
67 1 0.01
68 193 0.99
69 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.27
Consensus pattern (68 bp):
TAATATGTAAGACCATAGCTAGGCTATGGCAACATATAGAGTCCTCCAGGACAGTAAACATGGGT
TTA
Found at i:16486315 original size:136 final size:136
Alignment explanation
Indices: 16486062--16486359 Score: 398
Period size: 136 Copynumber: 2.2 Consensus size: 136
16486052 GAGAGAGGTT
* * * * *
16486062 TAATATGTAAGACCATTGCTAAACTATGGCAACATAAAGAGTTCGCCAAGATAGTAAACATGGGT
1 TAATGTGTAAGACCATAGCTAGACTATGGCAACATAAAGAGTCCACCAAGATAGTAAACATGGGT
* *
16486127 TTATAATATGTAAAACCATAGCTAGGCTATGGAAACATATAGAGTCTTCCAGGACAGTAAACATA
66 TTATAATATGTAAAACCATAACTAGGCTATGGAAACATATAGAGTCCTCCAGGACAGTAAACATA
*
16486192 GGTTTA
131 GGTTCA
* * * * *
16486198 TAATGTGTGAGACCATAGCTAGGCTATGGCAACATATAGAGTCCATCAGGATAGTAAACATGGGT
1 TAATGTGTAAGACCATAGCTAGACTATGGCAACATAAAGAGTCCACCAAGATAGTAAACATGGGT
* * * * * *
16486263 TTATAATGTGTAAGACCATAACTAGGCTATGGCAATATATAGAGTCCTCCAGGACATTAAACATG
66 TTATAATATGTAAAACCATAACTAGGCTATGGAAACATATAGAGTCCTCCAGGACAGTAAACATA
16486328 GGTTCA
131 GGTTCA
* * *
16486334 TACTGTGTAAGACTATGGCTAGACTA
1 TAATGTGTAAGACCATAGCTAGACTA
16486360 CGGCCAGATA
Statistics
Matches: 138, Mismatches: 24, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
136 138 1.00
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.27
Consensus pattern (136 bp):
TAATGTGTAAGACCATAGCTAGACTATGGCAACATAAAGAGTCCACCAAGATAGTAAACATGGGT
TTATAATATGTAAAACCATAACTAGGCTATGGAAACATATAGAGTCCTCCAGGACAGTAAACATA
GGTTCA
Found at i:16488860 original size:45 final size:45
Alignment explanation
Indices: 16488811--16488978 Score: 246
Period size: 45 Copynumber: 3.7 Consensus size: 45
16488801 CGATGTCGAT
* * * *
16488811 GTCCCAGACATGCTCTTACACGTAACCACATATATCGATGCCAAC
1 GTCCCAGACGTGGTCTTACACGAAATCACATATATCGATGCCAAC
* * * *
16488856 GTCCCAGACGTGGTCTTACACGAAATCACATTTATTGATGCAAAT
1 GTCCCAGACGTGGTCTTACACGAAATCACATATATCGATGCCAAC
*
16488901 GTCCCAGACGTGGTCTTACATGAAATCACATATATCGATGCCAAC
1 GTCCCAGACGTGGTCTTACACGAAATCACATATATCGATGCCAAC
*
16488946 GTCCCAGACGTGGTCTTACACAAAATCACATAT
1 GTCCCAGACGTGGTCTTACACGAAATCACATAT
16488979 CAGAATCCTA
Statistics
Matches: 108, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 108 1.00
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (45 bp):
GTCCCAGACGTGGTCTTACACGAAATCACATATATCGATGCCAAC
Found at i:16488918 original size:90 final size:90
Alignment explanation
Indices: 16488809--16488976 Score: 282
Period size: 90 Copynumber: 1.9 Consensus size: 90
16488799 TACGATGTCG
*
16488809 ATGTCCCAGACATGCTCTTACACGTAACCACATATATCGATGCCAACGTCCCAGACGTGGTCTTA
1 ATGTCCCAGACATGCTCTTACACGAAACCACATATATCGATGCCAACGTCCCAGACGTGGTCTTA
*
16488874 CACGAAATCACATTTATTGATGCAA
66 CACAAAATCACATTTATTGATGCAA
* * * *
16488899 ATGTCCCAGACGTGGTCTTACATGAAATCACATATATCGATGCCAACGTCCCAGACGTGGTCTTA
1 ATGTCCCAGACATGCTCTTACACGAAACCACATATATCGATGCCAACGTCCCAGACGTGGTCTTA
16488964 CACAAAATCACAT
66 CACAAAATCACAT
16488977 ATCAGAATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
90 72 1.00
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (90 bp):
ATGTCCCAGACATGCTCTTACACGAAACCACATATATCGATGCCAACGTCCCAGACGTGGTCTTA
CACAAAATCACATTTATTGATGCAA
Found at i:16490083 original size:14 final size:15
Alignment explanation
Indices: 16490066--16490094 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
16490056 GCACGAAAAT
16490066 TTCACACAT-ATAAA
1 TTCACACATAATAAA
16490080 TTCACACATAATAAA
1 TTCACACATAATAAA
16490095 CACAAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:16494515 original size:17 final size:19
Alignment explanation
Indices: 16494473--16494516 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
16494463 ATGAAATTTT
*
16494473 AATTAGTATTATAAGATAA
1 AATTATTATTATAAGATAA
*
16494492 AATTATTATTATTAGA-AA
1 AATTATTATTATAAGATAA
16494510 AA-TATTA
1 AATTATTA
16494517 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (19 bp):
AATTATTATTATAAGATAA
Done.