Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 51 of 295
Found at i:15192513 original size:16 final size:17
Alignment explanation
Indices: 15192478--15192543 Score: 71
Period size: 17 Copynumber: 3.7 Consensus size: 17
15192468 TACTTAATAT
15192478 TTTTAATATATTTAAAA
1 TTTTAATATATTTAAAA
*
15192495 TTTTAATATATTTAAATTT
1 TTTTAATATATTTAAA--A
*
15192514 TTTTAAGT-TTTTTAAAA
1 TTTTAA-TATATTTAAAA
15192531 TTTTAAATATATT
1 TTTT-AATATATT
15192544 AGAATTTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
17 21 0.52
18 5 0.12
19 13 0.32
20 1 0.03
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (17 bp):
TTTTAATATATTTAAAA
Found at i:15192659 original size:19 final size:21
Alignment explanation
Indices: 15192620--15192659 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
15192610 ACTTTTAAAA
15192620 TTAATTATACTTAACAATTTT
1 TTAATTATACTTAACAATTTT
*
15192641 TTAA-TATATTTAA-AATTTT
1 TTAATTATACTTAACAATTTT
15192660 AGAAAACTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 8 0.44
21 4 0.22
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (21 bp):
TTAATTATACTTAACAATTTT
Found at i:15195560 original size:11 final size:11
Alignment explanation
Indices: 15195539--15195586 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
15195529 CAATAACATC
*
15195539 AAAATAGTAGT
1 AAAATAATAGT
*
15195550 AATATAATAGT
1 AAAATAATAGT
*
15195561 AAAATGATAGT
1 AAAATAATAGT
* *
15195572 AAAACAATAGC
1 AAAATAATAGT
15195583 AAAA
1 AAAA
15195587 CAACAACTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.60, C:0.04, G:0.12, T:0.23
Consensus pattern (11 bp):
AAAATAATAGT
Found at i:15197608 original size:29 final size:30
Alignment explanation
Indices: 15197576--15197645 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 30
15197566 AAATCAAAAT
15197576 TTCATGTATAAAATT-ATACAAAATCATAG
1 TTCATGTATAAAATTAATACAAAATCATAG
* * * **
15197605 TTCATATGTACAATTACATATTAAATCATAG
1 TTCATGTATAAAATTA-ATACAAAATCATAG
15197636 TTCATGTATA
1 TTCATGTATA
15197646 GTTTTGGGAT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
29 12 0.38
31 20 0.62
ACGTcount: A:0.43, C:0.11, G:0.07, T:0.39
Consensus pattern (30 bp):
TTCATGTATAAAATTAATACAAAATCATAG
Found at i:15199509 original size:26 final size:25
Alignment explanation
Indices: 15199463--15199513 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
15199453 AAATTGCGTG
15199463 TACATGACATATATGAAAAATGTATA
1 TACATGACATATATGAAAAAT-TATA
*
15199489 TACATGATATAATATG-AAAATTATA
1 TACATGACAT-ATATGAAAAATTATA
15199514 ATAGAGTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 4 0.17
26 14 0.61
27 5 0.22
ACGTcount: A:0.51, C:0.06, G:0.10, T:0.33
Consensus pattern (25 bp):
TACATGACATATATGAAAAATTATA
Found at i:15199834 original size:26 final size:25
Alignment explanation
Indices: 15199805--15199859 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 25
15199795 AAATATGCAT
*
15199805 ACAATATTACAAA-ATATATATAACTA
1 ACAATATTA-AAATATATACATAAC-A
15199831 ACAATATTAAAATATATACATAACA
1 ACAATATTAAAATATATACATAACA
15199856 ACAA
1 ACAA
15199860 AAGTATGATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 8 0.30
26 19 0.70
ACGTcount: A:0.60, C:0.13, G:0.00, T:0.27
Consensus pattern (25 bp):
ACAATATTAAAATATATACATAACA
Found at i:15201512 original size:3 final size:3
Alignment explanation
Indices: 15201504--15201612 Score: 66
Period size: 3 Copynumber: 37.7 Consensus size: 3
15201494 GAGAAAAATA
* * * * * *
15201504 AAT AAT AAT GAT AAA AAT AAT AAT AAT GAC AAT AGT AA- AGAA AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT
* * * * *
15201549 AAT AGT AAT AAT AAT GAT AAT AAT GAT AAT AA- AA- AAC AAT AGT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
15201594 AA- AAA AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AA
15201613 ATTGATGAAT
Statistics
Matches: 81, Mismatches: 21, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
2 9 0.11
3 71 0.88
4 1 0.01
ACGTcount: A:0.66, C:0.02, G:0.07, T:0.25
Consensus pattern (3 bp):
AAT
Found at i:15203443 original size:11 final size:11
Alignment explanation
Indices: 15203427--15203460 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
15203417 TTGGCTTTTA
15203427 ATTTATAATTT
1 ATTTATAATTT
15203438 ATTTATAATTT
1 ATTTATAATTT
*
15203449 ATTTATATTTT
1 ATTTATAATTT
15203460 A
1 A
15203461 AATCATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
ATTTATAATTT
Found at i:15204833 original size:27 final size:27
Alignment explanation
Indices: 15204803--15204864 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
15204793 GAACTAATAA
* *
15204803 AGGTACCAACTTGAAAAAAAGTAGTTT
1 AGGTACCAACTTGAAAAAAAGAAATTT
**
15204830 AGGTACC-ACTTGTGAAAAAGAAATTT
1 AGGTACCAACTTGAAAAAAAGAAATTT
*
15204856 AGATACCAA
1 AGGTACCAA
15204865 AATAAGAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
26 21 0.72
27 8 0.28
ACGTcount: A:0.45, C:0.13, G:0.18, T:0.24
Consensus pattern (27 bp):
AGGTACCAACTTGAAAAAAAGAAATTT
Found at i:15206724 original size:15 final size:17
Alignment explanation
Indices: 15206704--15206761 Score: 57
Period size: 18 Copynumber: 3.4 Consensus size: 17
15206694 AAGGTTTTCT
15206704 TATTGATGATA-T-CGA
1 TATTGATGATAGTACGA
*
15206719 TATTGATAATAGTGACGA
1 TATTGATGATAGT-ACGA
* *
15206737 TATTGATGGTAGTAACGC
1 TATTGATGATAGT-ACGA
15206755 TATTGAT
1 TATTGAT
15206762 TGTGACCTTG
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
15 10 0.29
16 1 0.03
18 24 0.69
ACGTcount: A:0.33, C:0.07, G:0.22, T:0.38
Consensus pattern (17 bp):
TATTGATGATAGTACGA
Found at i:15210372 original size:12 final size:12
Alignment explanation
Indices: 15210336--15210365 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
15210326 GAAACCCTAG
15210336 TATATAAATATA
1 TATATAAATATA
15210348 TATATAAATATA
1 TATATAAATATA
15210360 TATATA
1 TATATA
15210366 TACATATTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
TATATAAATATA
Found at i:15213752 original size:27 final size:27
Alignment explanation
Indices: 15213708--15213760 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
15213698 GAACTCTATT
* *
15213708 TGTAAAATCACTGAAATACCCTTGTAG
1 TGTAAAATCACCGAAATACCCCTGTAG
* *
15213735 TGTAAAATTACCGTAATACCCCTGTA
1 TGTAAAATCACCGAAATACCCCTGTA
15213761 TGGTAGAATG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.30
Consensus pattern (27 bp):
TGTAAAATCACCGAAATACCCCTGTAG
Found at i:15214825 original size:40 final size:40
Alignment explanation
Indices: 15214753--15214927 Score: 246
Period size: 40 Copynumber: 4.4 Consensus size: 40
15214743 TTCTAACGCA
* * *
15214753 AGCCTACGGGTCTTTAA-CCCGGATACCATTCCAGCACGA-
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCA-TAT
*
15214792 AGCCTGCGGGTCTTTATGCCCGGATACAATTCCAGCATAT
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCATAT
**
15214832 AGCCTGCGGGTCTTTAAGCTTGGATACAATTCCAGCATAT
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCATAT
* * *
15214872 AGCCTGCGGGTCTTTAAGCACGGATACACTACCAGCATAT
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCATAT
15214912 AGCCTGCGGGTCTTTA
1 AGCCTGCGGGTCTTTA
15214928 TACCCAGATA
Statistics
Matches: 123, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 16 0.13
40 107 0.87
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCATAT
Found at i:15222621 original size:40 final size:40
Alignment explanation
Indices: 15222547--15222721 Score: 282
Period size: 40 Copynumber: 4.4 Consensus size: 40
15222537 TTCTAGCGCA
* *
15222547 AGCCTACGGGTCTTTAA-CCCGGATACCATTCCAGCATGA-
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCAT-AT
* *
15222586 AGCCTGCGGGTCTTTATGCTCGGATACAATTCCAGCATAT
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCATAT
15222626 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCATAT
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCATAT
*
15222666 AGCCTGCGGGTCTTTAAGCCCGGATACACTTCCAGCATAT
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCATAT
15222706 AGCCTGCGGGTCTTTA
1 AGCCTGCGGGTCTTTA
15222722 TACCATAATA
Statistics
Matches: 127, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 16 0.13
40 111 0.87
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCATAT
Found at i:15225048 original size:28 final size:28
Alignment explanation
Indices: 15225007--15225063 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
15224997 ACTAATTTTG
* *
15225007 TATTGGGCTTAGGCCCACCTGATTCTGT
1 TATTGGGCTAAGGCCCACCTGATACTGT
*
15225035 TATTGGGCTAAGGCCCATCTGATACTGT
1 TATTGGGCTAAGGCCCACCTGATACTGT
15225063 T
1 T
15225064 TTTGTGATCG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.18, C:0.23, G:0.25, T:0.35
Consensus pattern (28 bp):
TATTGGGCTAAGGCCCACCTGATACTGT
Found at i:15226604 original size:12 final size:13
Alignment explanation
Indices: 15226569--15226598 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
15226559 TTGGTTAATT
15226569 TAGGAATTTACTA
1 TAGGAATTTACTA
15226582 TAGGAATTTACTA
1 TAGGAATTTACTA
15226595 -AGGA
1 TAGGA
15226599 TGTTACACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (13 bp):
TAGGAATTTACTA
Found at i:15232526 original size:28 final size:27
Alignment explanation
Indices: 15232494--15232554 Score: 72
Period size: 28 Copynumber: 2.3 Consensus size: 27
15232484 ACTAATAAAT
15232494 GTACCAACTTG-AAAAAAAAGTAGTTTAG
1 GTACCAACTTGTAAAAAAAA-T-GTTTAG
*
15232522 GTACC-ACTTGTGAAAAAAATGTTTAG
1 GTACCAACTTGTAAAAAAAATGTTTAG
*
15232548 ATACCAA
1 GTACCAA
15232555 AATAAGAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
26 10 0.34
27 7 0.24
28 12 0.41
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.26
Consensus pattern (27 bp):
GTACCAACTTGTAAAAAAAATGTTTAG
Found at i:15234407 original size:18 final size:18
Alignment explanation
Indices: 15234384--15234428 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
15234374 TTGAAGATAT
15234384 CGATATTGATGATAGTGA
1 CGATATTGATGATAGTGA
*
15234402 CGATATTGATGCTAGTGA
1 CGATATTGATGATAGTGA
*
15234420 -GCTATTGAT
1 CGATATTGAT
15234429 TGTGACCTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 8 0.32
18 17 0.68
ACGTcount: A:0.29, C:0.09, G:0.27, T:0.36
Consensus pattern (18 bp):
CGATATTGATGATAGTGA
Found at i:15238330 original size:35 final size:35
Alignment explanation
Indices: 15238225--15238330 Score: 122
Period size: 35 Copynumber: 3.0 Consensus size: 35
15238215 AGAATCAATT
* * * *
15238225 AGATACAAATTTGGGCCTGAGCCCATCACATATAC
1 AGATACATATTTGGGCCTAAGCCCATCTCAAATAC
* * * * * *
15238260 AGATGCATATTCGGGCCTAAGCCTATTTTAGATAC
1 AGATACATATTTGGGCCTAAGCCCATCTCAAATAC
15238295 AGATACATATTTGGGCCTAAGCCCATCTCAAATAC
1 AGATACATATTTGGGCCTAAGCCCATCTCAAATAC
15238330 A
1 A
15238331 TATATAGATA
Statistics
Matches: 56, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
35 56 1.00
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (35 bp):
AGATACATATTTGGGCCTAAGCCCATCTCAAATAC
Found at i:15240077 original size:87 final size:87
Alignment explanation
Indices: 15239931--15240105 Score: 341
Period size: 87 Copynumber: 2.0 Consensus size: 87
15239921 CAAATATTTA
*
15239931 TCATACAATTCAGATAATAATAACAAGATCTGTCTTAGGTTTTATTCCCCTTAGGTATTTAGGGG
1 TCATAAAATTCAGATAATAATAACAAGATCTGTCTTAGGTTTTATTCCCCTTAGGTATTTAGGGG
15239996 TTTTATTTCATAACTGCAAAGG
66 TTTTATTTCATAACTGCAAAGG
15240018 TCATAAAATTCAGATAATAATAACAAGATCTGTCTTAGGTTTTATTCCCCTTAGGTATTTAGGGG
1 TCATAAAATTCAGATAATAATAACAAGATCTGTCTTAGGTTTTATTCCCCTTAGGTATTTAGGGG
15240083 TTTTATTTCATAACTGCAAAGG
66 TTTTATTTCATAACTGCAAAGG
15240105 T
1 T
15240106 AAACATCTCA
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
87 87 1.00
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.38
Consensus pattern (87 bp):
TCATAAAATTCAGATAATAATAACAAGATCTGTCTTAGGTTTTATTCCCCTTAGGTATTTAGGGG
TTTTATTTCATAACTGCAAAGG
Found at i:15249588 original size:16 final size:17
Alignment explanation
Indices: 15249550--15249588 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
15249540 TAAGTAAATA
15249550 ATATT-ATATTATAATT
1 ATATTAATATTATAATT
15249566 ATATTAATATTATAA-T
1 ATATTAATATTATAATT
15249582 ATATTAA
1 ATATTAA
15249589 GTGAATAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATATTAATATTATAATT
Found at i:15250877 original size:19 final size:19
Alignment explanation
Indices: 15250850--15250888 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
15250840 TGGGTGTATA
15250850 CTCAACGTACGGTTTGTTT
1 CTCAACGTACGGTTTGTTT
*
15250869 CTCAGCGTACGGTTTGTTT
1 CTCAACGTACGGTTTGTTT
15250888 C
1 C
15250889 CATGCGCAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.13, C:0.23, G:0.23, T:0.41
Consensus pattern (19 bp):
CTCAACGTACGGTTTGTTT
Found at i:15256330 original size:23 final size:21
Alignment explanation
Indices: 15256304--15256368 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 21
15256294 ATTCGCATAC
15256304 CTACTGGAAGTTCATCTACAAAT
1 CTACTGG-AGTT-ATCTACAAAT
* *
15256327 CTACTGGAGATTATCTGCATAT
1 CTACTGGAG-TTATCTACAAAT
15256349 CTACTGGTAGTATATCTACA
1 CTACTGG-AGT-TATCTACA
15256369 CTAGCTTATG
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
22 18 0.50
23 18 0.50
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (21 bp):
CTACTGGAGTTATCTACAAAT
Found at i:15256350 original size:22 final size:23
Alignment explanation
Indices: 15256298--15256355 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 23
15256288 CGGTTTATTC
*
15256298 GCATACCTACTGGAAGTTCATCT
1 GCATATCTACTGGAAGTTCATCT
* *
15256321 ACAAATCTACTGG-AGATT-ATCT
1 GCATATCTACTGGAAG-TTCATCT
15256343 GCATATCTACTGG
1 GCATATCTACTGG
15256356 TAGTATATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
22 17 0.59
23 12 0.41
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.31
Consensus pattern (23 bp):
GCATATCTACTGGAAGTTCATCT
Found at i:15257432 original size:100 final size:95
Alignment explanation
Indices: 15257328--15257609 Score: 293
Period size: 100 Copynumber: 2.9 Consensus size: 95
15257318 AAAATATTTC
*
15257328 TTTTAACATAACGATATATAAAAATATATATTTCCATTATATAATTACATATTTATTATTTTATT
1 TTTTAACATAATGATATATAAAAATATATATTT-CATTATATAATTACATATTTATTATTTT-TT
**
15257393 TATACAAATAATGGAAG-TATTAATTAAAAAAATAT
64 TATA-AAATAAAAG-AGTTATTAATT--AAAAATAT
* *
15257428 TTTTAACATAATGATATATATAAAATGTATATTTTATTATATAATTACATATTTATTA--TTTTT
1 TTTTAACATAATGATATATA-AAAATATATATTTCATTATATAATTACATATTTATTATTTTTTT
*
15257491 AT-AAATAAAAGAGTTATTAATTTAAAATAT
65 ATAAAATAAAAGAGTTATTAATTAAAAATAT
* * * * * *
15257521 ATTTAACATAATGATTTATGTAAAAAATATATATTTTGATTAAATAAGTACATGTTTATTATTTT
1 TTTTAACATAATGA--TATAT-AAAAATATATA-TTTCATTATATAATTACATATTTATTATTTT
* *
15257586 GTTTATATAAATAAATGATTTATT
62 -TTTATA-AAATAAAAGAGTTATT
15257610 GTAACACCCT
Statistics
Matches: 156, Mismatches: 15, Indels: 21
0.81 0.08 0.11
Matches are distributed among these distances:
93 20 0.13
94 2 0.01
95 28 0.18
96 24 0.15
97 5 0.03
98 4 0.03
99 5 0.03
100 42 0.27
101 26 0.17
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (95 bp):
TTTTAACATAATGATATATAAAAATATATATTTCATTATATAATTACATATTTATTATTTTTTTA
TAAAATAAAAGAGTTATTAATTAAAAATAT
Found at i:15257595 original size:28 final size:29
Alignment explanation
Indices: 15257552--15257609 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
15257542 AAAAAATATA
* *
15257552 TATTTTGATTAAATAAGTACATG-TTTAT
1 TATTTTGATTAAATAAATAAATGATTTAT
* *
15257580 TATTTTGTTTATATAAATAAATGATTTAT
1 TATTTTGATTAAATAAATAAATGATTTAT
15257609 T
1 T
15257610 GTAACACCCT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
28 19 0.76
29 6 0.24
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.53
Consensus pattern (29 bp):
TATTTTGATTAAATAAATAAATGATTTAT
Found at i:15263174 original size:32 final size:33
Alignment explanation
Indices: 15263122--15263289 Score: 159
Period size: 32 Copynumber: 5.1 Consensus size: 33
15263112 GGCACAGCTT
* *
15263122 GAAAAGGTTATGTACACTTTGTGTGTACACTTG
1 GAAAAGGTTAGGTATACTTTGTGTGTACACTTG
*
15263155 GAAAA-GTTAGGTATACTTTGTGTATAC-CATAT-
1 GAAAAGGTTAGGTATACTTTGTGTGTACAC-T-TG
**
15263187 GAAAAGGAAAGGTATACTTTGTGTGTACACTTG
1 GAAAAGGTTAGGTATACTTTGTGTGTACACTTG
*
15263220 G-AAAGGTTAGGTATACTTTGTGTATAC-CATAT-
1 GAAAAGGTTAGGTATACTTTGTGTGTACAC-T-TG
** * *
15263252 GAAAAGGAAATGTATACTTTGTGCGTACCACTTG
1 GAAAAGGTTAGGTATACTTTGTGTGTA-CACTTG
15263286 GAAA
1 GAAA
15263290 GGAATGTACA
Statistics
Matches: 110, Mismatches: 14, Indels: 21
0.76 0.10 0.14
Matches are distributed among these distances:
31 2 0.02
32 51 0.46
33 49 0.45
34 7 0.06
35 1 0.01
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (33 bp):
GAAAAGGTTAGGTATACTTTGTGTGTACACTTG
Found at i:15263190 original size:65 final size:65
Alignment explanation
Indices: 15263121--15263289 Score: 275
Period size: 65 Copynumber: 2.6 Consensus size: 65
15263111 TGGCACAGCT
** *
15263121 TGAAAAGGTTATGTACACTTTGTGTGTACACTTGGAAAAGTTAGGTATACTTTGTGTATACCATA
1 TGAAAAGGAAATGTATACTTTGTGTGTACACTTGGAAAAGTTAGGTATACTTTGTGTATACCATA
* *
15263186 TGAAAAGGAAAGGTATACTTTGTGTGTACACTTGGAAAGGTTAGGTATACTTTGTGTATACCATA
1 TGAAAAGGAAATGTATACTTTGTGTGTACACTTGGAAAAGTTAGGTATACTTTGTGTATACCATA
*
15263251 TGAAAAGGAAATGTATACTTTGTGCGTACCACTTGGAAA
1 TGAAAAGGAAATGTATACTTTGTGTGTA-CACTTGGAAA
15263290 GGAATGTACA
Statistics
Matches: 96, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
65 86 0.90
66 10 0.10
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.34
Consensus pattern (65 bp):
TGAAAAGGAAATGTATACTTTGTGTGTACACTTGGAAAAGTTAGGTATACTTTGTGTATACCATA
Found at i:15263291 original size:33 final size:33
Alignment explanation
Indices: 15263137--15263293 Score: 169
Period size: 33 Copynumber: 4.8 Consensus size: 33
15263127 GGTTATGTAC
* **
15263137 ACTTTGTGTGTA-CACTTGGAAAAGTTAGGTAT
1 ACTTTGTGTGTACCACTTGGAAAGGAAAGGTAT
* *
15263169 ACTTTGTGTATACCA-TATGAAAAGGAAAGGTAT
1 ACTTTGTGTGTACCACT-TGGAAAGGAAAGGTAT
**
15263202 ACTTTGTGTGTA-CACTTGGAAAGGTTAGGTAT
1 ACTTTGTGTGTACCACTTGGAAAGGAAAGGTAT
* * *
15263234 ACTTTGTGTATACCA-TATGAAAAGGAAATGTAT
1 ACTTTGTGTGTACCACT-TGGAAAGGAAAGGTAT
*
15263267 ACTTTGTGCGTACCACTTGGAAAGGAA
1 ACTTTGTGTGTACCACTTGGAAAGGAA
15263294 TGTACACCTC
Statistics
Matches: 102, Mismatches: 17, Indels: 11
0.78 0.13 0.08
Matches are distributed among these distances:
32 39 0.38
33 62 0.61
34 1 0.01
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (33 bp):
ACTTTGTGTGTACCACTTGGAAAGGAAAGGTAT
Found at i:15263321 original size:65 final size:65
Alignment explanation
Indices: 15263137--15263329 Score: 176
Period size: 65 Copynumber: 3.0 Consensus size: 65
15263127 GGTTATGTAC
* * * * ** * *
15263137 ACTTTGTGTGTACACTTGGAAAAGTTAGGTATACTTTGTGTATACCATATGAAAAGGAAAGGTAT
1 ACTTTGTGCGTACACTTGGAAAGGTAAGGTACACTGAGTGTATAACATAGGAAAAGGAAAGGTAT
* * * ** * * *
15263202 ACTTTGTGTGTACACTTGGAAAGGTTAGGTATACTTTGTGTATACCATATGAAAAGGAAATGTAT
1 ACTTTGTGCGTACACTTGGAAAGGTAAGGTACACTGAGTGTATAACATAGGAAAAGGAAAGGTAT
* *
15263267 ACTTTGTGCGTACCACTTGGAAAGG-AATGTACACCTCGAGTGTATAAC-T-GGAAAATGAAAGG
1 ACTTTGTGCGTA-CACTTGGAAAGGTAAGGTACA-CT-GAGTGTATAACATAGGAAAAGGAAAGG
15263329 T
63 T
15263330 CCGTCGGGAA
Statistics
Matches: 113, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
65 90 0.80
66 15 0.13
67 8 0.07
ACGTcount: A:0.33, C:0.11, G:0.24, T:0.32
Consensus pattern (65 bp):
ACTTTGTGCGTACACTTGGAAAGGTAAGGTACACTGAGTGTATAACATAGGAAAAGGAAAGGTAT
Found at i:15270221 original size:33 final size:33
Alignment explanation
Indices: 15270179--15270245 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
15270169 TTCCGAAAGG
15270179 ATAATCTTTTGATCTCATTATGAAAAGGAATGT
1 ATAATCTTTTGATCTCATTATGAAAAGGAATGT
15270212 ATAATCTTTTGATCTCATTATGAAAAGGAATGT
1 ATAATCTTTTGATCTCATTATGAAAAGGAATGT
15270245 A
1 A
15270246 AACCGAAAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (33 bp):
ATAATCTTTTGATCTCATTATGAAAAGGAATGT
Found at i:15270326 original size:33 final size:33
Alignment explanation
Indices: 15270289--15270467 Score: 152
Period size: 33 Copynumber: 5.5 Consensus size: 33
15270279 TACCCAAATA
* * * *
15270289 GTACAACTTGAAAAGGTTATGTACACTTTGTGT
1 GTACCACTTGAAAAGGTAAGGTATACTTTGTGT
* *
15270322 GTA-CATTTCG-AAAGGTTAGGTATACTTTGTGT
1 GTACCACTT-GAAAAGGTAAGGTATACTTTGTGT
* *
15270354 ATACCA-TATGAAAAGGAAAGGTATACTTTGTGT
1 GTACCACT-TGAAAAGGTAAGGTATACTTTGTGT
* * *
15270387 GGA-CACTTGGAAAGGTTAGGTATACTTTGTGT
1 GTACCACTTGAAAAGGTAAGGTATACTTTGTGT
* * * *
15270419 ATACCA-TATGAAAAGGAAATGTATATTTTGTGT
1 GTACCACT-TGAAAAGGTAAGGTATACTTTGTGT
*
15270452 GTACCACTTGGAAAGG
1 GTACCACTTGAAAAGG
15270468 AATGTACACC
Statistics
Matches: 117, Mismatches: 21, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
32 53 0.45
33 63 0.54
34 1 0.01
ACGTcount: A:0.32, C:0.10, G:0.24, T:0.34
Consensus pattern (33 bp):
GTACCACTTGAAAAGGTAAGGTATACTTTGTGT
Found at i:15270339 original size:32 final size:31
Alignment explanation
Indices: 15270300--15270455 Score: 132
Period size: 32 Copynumber: 4.8 Consensus size: 31
15270290 TACAACTTGA
* *
15270300 AAAGGTTATGTACACTTTGTGTGTACATTTCG
1 AAAGGTTAGGTATACTTTGTGTGTACATTT-G
* *
15270332 AAAGGTTAGGTATACTTTGTGTATACCATATG
1 AAAGGTTAGGTATACTTTGTGTGTA-CATTTG
** * *
15270364 AAAAGGAAAGGTATACTTTGTGTGGACACTTGG
1 -AAAGGTTAGGTATACTTTGTGTGTACA-TTTG
* *
15270397 AAAGGTTAGGTATACTTTGTGTATACCATATG
1 AAAGGTTAGGTATACTTTGTGTGTA-CATTTG
** * *
15270429 AAAAGGAAATGTATATTTTGTGTGTAC
1 -AAAGGTTAGGTATACTTTGTGTGTAC
15270456 CACTTGGAAA
Statistics
Matches: 98, Mismatches: 21, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
32 49 0.50
33 49 0.50
ACGTcount: A:0.31, C:0.09, G:0.24, T:0.36
Consensus pattern (31 bp):
AAAGGTTAGGTATACTTTGTGTGTACATTTG
Found at i:15270366 original size:65 final size:65
Alignment explanation
Indices: 15270297--15270467 Score: 252
Period size: 65 Copynumber: 2.6 Consensus size: 65
15270287 TAGTACAACT
** * *
15270297 TGAAAAGGTTATGTACACTTTGTGTGTACATTTCGAAAGGTTAGGTATACTTTGTGTATACCATA
1 TGAAAAGGAAATGTATACTTTGTGTGTACACTTCGAAAGGTTAGGTATACTTTGTGTATACCATA
* * *
15270362 TGAAAAGGAAAGGTATACTTTGTGTGGACACTTGGAAAGGTTAGGTATACTTTGTGTATACCATA
1 TGAAAAGGAAATGTATACTTTGTGTGTACACTTCGAAAGGTTAGGTATACTTTGTGTATACCATA
* *
15270427 TGAAAAGGAAATGTATATTTTGTGTGTACCACTTGGAAAGG
1 TGAAAAGGAAATGTATACTTTGTGTGTA-CACTTCGAAAGG
15270468 AATGTACACC
Statistics
Matches: 95, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
65 83 0.87
66 12 0.13
ACGTcount: A:0.32, C:0.09, G:0.25, T:0.35
Consensus pattern (65 bp):
TGAAAAGGAAATGTATACTTTGTGTGTACACTTCGAAAGGTTAGGTATACTTTGTGTATACCATA
Found at i:15271828 original size:35 final size:34
Alignment explanation
Indices: 15271760--15271852 Score: 114
Period size: 35 Copynumber: 2.6 Consensus size: 34
15271750 AAAACATTGA
15271760 TAATCCAATCGAAACACACCAGATGCTCATAAGAGC
1 TAATCC-ATCGAAACACACCA-ATGCTCATAAGAGC
* * *
15271796 TAATCCATCCGAAACAGACCAATGCTTATAAGAGT
1 TAATCCAT-CGAAACACACCAATGCTCATAAGAGC
*
15271831 TAATCCATTCAAAACACACCAA
1 TAATCCA-TCGAAACACACCAA
15271853 AACATAGAGT
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
35 32 0.64
36 18 0.36
ACGTcount: A:0.43, C:0.27, G:0.11, T:0.19
Consensus pattern (34 bp):
TAATCCATCGAAACACACCAATGCTCATAAGAGC
Found at i:15273246 original size:53 final size:53
Alignment explanation
Indices: 15273156--15273276 Score: 131
Period size: 53 Copynumber: 2.2 Consensus size: 53
15273146 TTTATTTGTA
* * *
15273156 TAAATAAAAGAGTTATTAATTAAAAACATGAATTAAAA-AGAAAATAAAATAAAT
1 TAAATAAAA-ATTTATTAATTAAAAACATAAAATAAAATA-AAAATAAAATAAAT
* *
15273210 TGAAA-AAAAATTTATTAATTAAAAAC-TAAAAATAAAATAAAATTAAATTAAAT
1 T-AAATAAAAATTTATTAATTAAAAACAT-AAAATAAAATAAAAATAAAATAAAT
15273263 TAAATTAAAAATTT
1 TAAA-TAAAAATTT
15273277 TATCACATAT
Statistics
Matches: 57, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
52 4 0.07
53 36 0.63
54 14 0.25
55 3 0.05
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (53 bp):
TAAATAAAAATTTATTAATTAAAAACATAAAATAAAATAAAAATAAAATAAAT
Found at i:15276926 original size:19 final size:19
Alignment explanation
Indices: 15276902--15276940 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
15276892 CTAAATTTTA
15276902 TATGCATACTACTAACCAT
1 TATGCATACTACTAACCAT
15276921 TATGCATACTACTAACCAT
1 TATGCATACTACTAACCAT
15276940 T
1 T
15276941 CAAACATCAT
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:0.36, C:0.26, G:0.05, T:0.33
Consensus pattern (19 bp):
TATGCATACTACTAACCAT
Found at i:15278456 original size:45 final size:44
Alignment explanation
Indices: 15278317--15278470 Score: 133
Period size: 41 Copynumber: 3.6 Consensus size: 44
15278307 TTATACAATC
* *
15278317 CCAACATCCCAGACATGGTCGTACATGCT-ATCACATAT-T-GATG
1 CCAACATCCCAGACATGGTCTTACACG-TAATCA-ATATATCGATG
* *
15278360 CC-ACTGTCCCAGACAGGGTCTTACACG-AATCAA-ATA-CGATG
1 CCAAC-ATCCCAGACATGGTCTTACACGTAATCAATATATCGATG
* ** *
15278401 CCGATGTCCCAGACATGGTCTTACACGTAACCATATATATCGATG
1 CCAACATCCCAGACATGGTCTTACACGTAATCA-ATATATCGATG
**
15278446 CCAACATCCCAGATGTGGTCTTACA
1 CCAACATCCCAGACATGGTCTTACA
15278471 TGAGAACACA
Statistics
Matches: 90, Mismatches: 12, Indels: 16
0.76 0.10 0.14
Matches are distributed among these distances:
40 2 0.02
41 28 0.31
42 11 0.12
43 21 0.23
44 3 0.03
45 25 0.28
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.24
Consensus pattern (44 bp):
CCAACATCCCAGACATGGTCTTACACGTAATCAATATATCGATG
Found at i:15280664 original size:11 final size:11
Alignment explanation
Indices: 15280648--15280678 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
15280638 AAGTATGGGT
15280648 AGGTATGGGAA
1 AGGTATGGGAA
*
15280659 AGGTATGGGCA
1 AGGTATGGGAA
15280670 AGGTATGGG
1 AGGTATGGG
15280679 GTATGGGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.29, C:0.03, G:0.48, T:0.19
Consensus pattern (11 bp):
AGGTATGGGAA
Found at i:15284784 original size:36 final size:36
Alignment explanation
Indices: 15284732--15284818 Score: 156
Period size: 36 Copynumber: 2.4 Consensus size: 36
15284722 CCCAACTACT
* *
15284732 GTATACGTGAACAGTACTGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACTATATACGTGAATAGTGCC
15284768 GTATACGTGAATAGTACTATATACGTGAATAGTGCC
1 GTATACGTGAATAGTACTATATACGTGAATAGTGCC
15284804 GTATACGTGAATAGT
1 GTATACGTGAATAGT
15284819 GCCGTAAACG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 49 1.00
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (36 bp):
GTATACGTGAATAGTACTATATACGTGAATAGTGCC
Found at i:15284819 original size:18 final size:18
Alignment explanation
Indices: 15284732--15284824 Score: 132
Period size: 18 Copynumber: 5.2 Consensus size: 18
15284722 CCCAACTACT
* * *
15284732 GTATACGTGAACAGTACT
1 GTATACGTGAATAGTGCC
15284750 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTGCC
* *
15284768 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTGCC
*
15284786 ATATACGTGAATAGTGCC
1 GTATACGTGAATAGTGCC
15284804 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTGCC
15284822 GTA
1 GTA
15284825 AACGGTCGTA
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 66 1.00
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (18 bp):
GTATACGTGAATAGTGCC
Found at i:15285387 original size:11 final size:11
Alignment explanation
Indices: 15285371--15285401 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
15285361 AAGTATGGGT
15285371 AGGTATGGGAA
1 AGGTATGGGAA
*
15285382 AGGTATGGGCA
1 AGGTATGGGAA
15285393 AGGTATGGG
1 AGGTATGGG
15285402 GTATGGGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.29, C:0.03, G:0.48, T:0.19
Consensus pattern (11 bp):
AGGTATGGGAA
Found at i:15285915 original size:16 final size:16
Alignment explanation
Indices: 15285894--15285924 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15285884 ATAAAATCTT
*
15285894 TAAAATTTTTTAAAGG
1 TAAAATATTTTAAAGG
15285910 TAAAATATTTTAAAG
1 TAAAATATTTTAAAG
15285925 AATAATACTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (16 bp):
TAAAATATTTTAAAGG
Found at i:15302859 original size:3 final size:3
Alignment explanation
Indices: 15302851--15303002 Score: 77
Period size: 3 Copynumber: 52.3 Consensus size: 3
15302841 GTTAATAAAG
* * *
15302851 ATA ATA ATA ATA TTA ATA GA-A GTA AAA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
15302896 A-A TATA ATA ATA GTA AGGA AT- ATA ATA ATA ATA GTA ATA A-A ATA
1 ATA -ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * * **
15302940 A-A A-A ATG ATG GTA GTA ATA A-A AAA ATA ACA ATA ATA ATA ATG AGG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
15302985 ATA TTA ATA AT- ATA ATA A
1 ATA ATA ATA ATA ATA ATA A
15303003 AATCTAAAGT
Statistics
Matches: 114, Mismatches: 25, Indels: 20
0.72 0.16 0.13
Matches are distributed among these distances:
2 13 0.11
3 97 0.85
4 4 0.04
ACGTcount: A:0.62, C:0.01, G:0.09, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:15302993 original size:35 final size:32
Alignment explanation
Indices: 15302931--15303005 Score: 80
Period size: 35 Copynumber: 2.2 Consensus size: 32
15302921 TAATAATAGT
15302931 AATAAAATAAAAAATGATGGTAGTAATAAAAA
1 AATAAAATAAAAAATGATGGTAGTAATAAAAA
* * *
15302963 AATAACAATAATAATAATGA-GGATATTAATAATAT
1 AATAA-AATAA-AA-AATGATGG-TAGTAATAAAAA
15302998 AATAAAAT
1 AATAAAAT
15303006 CTAAAGTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
32 5 0.14
33 5 0.14
34 7 0.19
35 19 0.53
ACGTcount: A:0.63, C:0.01, G:0.09, T:0.27
Consensus pattern (32 bp):
AATAAAATAAAAAATGATGGTAGTAATAAAAA
Found at i:15303071 original size:24 final size:23
Alignment explanation
Indices: 15303023--15303072 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
15303013 TTTTCTTTTA
* *
15303023 AAATAAAATATGTAAAAGGATAT
1 AAATAAAATATGTAAAAAGAGAT
15303046 AAATAAAATAATG-AAAATAGAGAT
1 AAATAAAAT-ATGTAAAA-AGAGAT
15303070 AAA
1 AAA
15303073 GCACGCATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.66, C:0.00, G:0.12, T:0.22
Consensus pattern (23 bp):
AAATAAAATATGTAAAAAGAGAT
Found at i:15303319 original size:3 final size:3
Alignment explanation
Indices: 15303313--15303442 Score: 69
Period size: 3 Copynumber: 44.7 Consensus size: 3
15303303 TAATAAGGGA
* * * *
15303313 AAT AAT AAC AAT AAT -AT AAT AAT AAT AAT AA- AGT AGT AAT AAA AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
15303359 AGA- AAT AAC AAT AAT AGT AAA AAT -AT AAT AAT GAT AAT AAAT AAT
1 A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
* * *
15303404 AGT AA- AAG AA- AAT AAT AA- AATT AACT AAT -TT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AA-T AA-T AAT AAT AAT AAT AA
15303443 AGTAGCTAAA
Statistics
Matches: 97, Mismatches: 19, Indels: 22
0.70 0.14 0.16
Matches are distributed among these distances:
2 13 0.13
3 75 0.77
4 9 0.09
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:15307159 original size:23 final size:23
Alignment explanation
Indices: 15307133--15307177 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
15307123 TGGGTATGTG
*
15307133 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
15307156 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
15307178 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:15307490 original size:16 final size:16
Alignment explanation
Indices: 15307469--15307503 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
15307459 TGGGTTGATT
15307469 TGGTTTGTAAAAGGAA
1 TGGTTTGTAAAAGGAA
15307485 TGGTTTGTAAAAGGAA
1 TGGTTTGTAAAAGGAA
15307501 TGG
1 TGG
15307504 ACTTTGGACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.31
Consensus pattern (16 bp):
TGGTTTGTAAAAGGAA
Found at i:15307881 original size:44 final size:46
Alignment explanation
Indices: 15307816--15307932 Score: 109
Period size: 45 Copynumber: 2.6 Consensus size: 46
15307806 AATCTGACCT
* * *
15307816 ACTGCAACTTCAGAGG-TATAGGACTTGTC-GCCTT-AATCCGCTCC
1 ACTGCAACTTTAG-GGAGATAGGACTTGTCTACCTTCAATCCGCTCC
* * *
15307860 ACTGCAACTTTAGGGAGATAGGA-TTAG-CTATCTTCAGTCTGCTCC
1 ACTGCAACTTTAGGGAGATAGGACTT-GTCTACCTTCAATCCGCTCC
* *
15307905 GCTGCAACTTTAGGGAGATAAGACTTGT
1 ACTGCAACTTTAGGGAGATAGGACTTGT
15307933 GGTTTCAATC
Statistics
Matches: 59, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
43 5 0.08
44 22 0.37
45 30 0.51
46 2 0.03
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (46 bp):
ACTGCAACTTTAGGGAGATAGGACTTGTCTACCTTCAATCCGCTCC
Found at i:15307930 original size:89 final size:88
Alignment explanation
Indices: 15307837--15308563 Score: 305
Period size: 89 Copynumber: 8.1 Consensus size: 88
15307827 AGAGGTATAG
** *
15307837 GACTTGTCGCCTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGATTAGCTATCTTCAGTCTGC
1 GACTTGTCGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAG-TATCTTCAGTCTGC
15307902 TCCGCTGCAACTTTAGGGAGATAA
65 TCCGCTGCAACTTTAGGGAGATAA
* * * *** * * * * ** *
15307926 GACTTGTGGTTTCAATCTGCTCTGTTGCAACTTTAGGAAGATAAGATTTGTCATGGT-AGACTTG
1 GACTTGTCGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGT-ATCTTCAGTC-TG
* * * * *
15307990 ATCCGACCTACTACAACTTCAGAGG-TATAG
64 CTCCG-----CTGCAACTTTAG-GGAGATAA
* * *
15308020 GACTCGTCGTTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTTGTCTTCAGTTTG
1 GACTTGTCG-TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAG-TATCTTCAGTCTG
* *
15308085 CTCCGCTGTAACTTTAGGAAGATAA
64 CTCCGCTGCAACTTTAGGGAGATAA
** * * *
15308110 GACTTGTAATTTTAA-CCTGCTCCACTGCAACTTCAGAGAGATAAGG-TTTGT-T-TTGA-TCTG
1 GACTTGTCGTTTTAATCC-GCTCCACTGCAACTTCAGGGAGAT-AGGATTAGTATCTTCAGTCTG
** * *
15308170 CTCTACTGCAACTTCAGAGAGATAA
64 CTCCGCTGCAACTTTAGGGAGATAA
** * * ** * * * *
15308195 GA-TATGTAATTATAGCTTCAATCTGTTCCACTGCAACTTCACAGAAATAAGATTCGCTATCTTT
1 GACT-TGT-CGT-T---TT-AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAG-TATCTTC
* * *
15308259 AGTCTACTCCACTGCAACTTCAGGGAGATAA
58 AGTCTGCTCCGCTGCAACTTTAGGGAGATAA
* ** * * * * ** * *
15308290 GATTTGTAATTTCAA-CTTGCTCTACTGTAACTTCAGATAGATAAGG-TTTGCTATCTTC-GATT
1 GACTTGTCGTTTTAATC-CGCTCCACTGCAACTTCAGGGAGAT-AGGATTAG-TATCTTCAG-TC
* * *
15308352 TACTCCGCTGTAACTTCAGGGAGATAA
62 TGCTCCGCTGCAACTTTAGGGAGATAA
* * * * **
15308379 GA-TATG-C-TATATTCAATCTGCTCCACTACAACTTCAGGGAGATAAGACTT-GTAACTTCAAC
1 GACT-TGTCGT-T-TT-AATCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTAGTATCTTCAGT
** * *
15308440 CTGCTCCATTGCAACTTCAGAGAGATAA
61 CTGCTCCGCTGCAACTTTAGGGAGATAA
** * * * * * * ** *
15308468 GGTTTATAGCTTTAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTCACCATCTTTAGTCTGC
1 GACTTGTCGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATT-AGTATCTTCAGTCTGC
* *
15308533 TCCACTGCAACTTTAAGGAGATAA
65 TCCGCTGCAACTTTAGGGAGATAA
15308557 GACTTGT
1 GACTTGT
15308564 GAATTTACTG
Statistics
Matches: 478, Mismatches: 116, Indels: 88
0.70 0.17 0.13
Matches are distributed among these distances:
84 1 0.00
85 27 0.06
86 5 0.01
87 5 0.01
88 42 0.09
89 210 0.44
90 53 0.11
91 29 0.06
92 2 0.00
93 2 0.00
94 25 0.05
95 73 0.15
96 4 0.01
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (88 bp):
GACTTGTCGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTATCTTCAGTCTGCT
CCGCTGCAACTTTAGGGAGATAA
Found at i:15307960 original size:44 final size:43
Alignment explanation
Indices: 15307850--15308563 Score: 217
Period size: 45 Copynumber: 15.9 Consensus size: 43
15307840 TTGTCGCCTT
* * *
15307850 AATCCGCTCCACTGCAACTTTAGGGAGATAGGATTAGCTATCTTC
1 AATCTGCTCCGCTGCAACTTTAGGGAGATAAGATT-G-TATCTTC
* *
15307895 AGTCTGCTCCGCTGCAACTTTAGGGAGATAAGACTTGTGGT-TTC
1 AATCTGCTCCGCTGCAACTTTAGGGAGATAAGA-TTGT-ATCTTC
* * * **
15307939 AATCTGCTCTGTTGCAACTTTAGGAAGATAAGATTTGTCATGGT-
1 AATCTGCTCCGCTGCAACTTTAGGGAGATAAGA-TTGT-ATCTTC
* * * * * * * * *
15307983 AGA-CTTGATCCGACCTACTACAACTTCAGAGG-TATAGGACTCGTCGTTTTT
1 A-ATC-TGCTCCG-----CTGCAACTTTAG-GGAGATAAGA-TTGT-ATCTTC
* * * * *
15308034 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTTGTCTTC
1 AATCTGCTCCGCTGCAACTTTAGGGAGATAAGATT-G-TATCTTC
* * * * *
15308079 AGTTTGCTCCGCTGTAACTTTAGGAAGATAAGACTTGTAAT-TTT
1 AATCTGCTCCGCTGCAACTTTAGGGAGATAAGA-TTGT-ATCTTC
* * * * *
15308123 AACCTGCTCCACTGCAACTTCAGAGAGATAAGGTTTGT-T-TT-
1 AATCTGCTCCGCTGCAACTTTAGGGAGATAA-GATTGTATCTTC
* ** * *
15308164 GATCTGCTCTACTGCAACTTCAGAGAGATAAGATATGTAATTATAGCTTC
1 AATCTGCTCCGCTGCAACTTTAGGGAGATAAGAT-TG----TAT--CTTC
* * * ** * *
15308214 AATCTGTTCCACTGCAACTTCACAGAAATAAGATTCGCTATCTTT
1 AATCTGCTCCGCTGCAACTTTAGGGAGATAAGATT-G-TATCTTC
* * * *
15308259 AGTCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTAAT-TTC
1 AATCTGCTCCGCTGCAACTTTAGGGAGATAAGA-TTGT-ATCTTC
** * * ** *
15308303 AA-CTTGCTCTACTGTAACTTCAGATAGATAAGGTTTGCTATCTTC
1 AATC-TGCTCCGCTGCAACTTTAGGGAGATAA-GATTG-TATCTTC
* * * * * *
15308348 GATTTACTCCGCTGTAACTTCAGGGAGATAAGATATGCTATATTC
1 AATCTGCTCCGCTGCAACTTTAGGGAGATAAGAT-TG-TATCTTC
* * * *
15308393 AATCTGCTCCACTACAACTTCAGGGAGATAAGACTTGTAACTTC
1 AATCTGCTCCGCTGCAACTTTAGGGAGATAAGA-TTGTATCTTC
* ** * * * *
15308437 AACCTGCTCCATTGCAACTTCAGAGAGATAAGGTT-TATAGCTTT
1 AATCTGCTCCGCTGCAACTTTAGGGAGATAAGATTGTAT--CTTC
* * * ** *
15308481 AATCTGCTCCACTGCAACTTCAAGGAGATAAGATTCACCATCTTT
1 AATCTGCTCCGCTGCAACTTTAGGGAGATAAGATT--GTATCTTC
* * *
15308526 AGTCTGCTCCACTGCAACTTTAAGGAGATAAGACTTGT
1 AATCTGCTCCGCTGCAACTTTAGGGAGATAAGA-TTGT
15308564 GAATTTACTG
Statistics
Matches: 512, Mismatches: 112, Indels: 91
0.72 0.16 0.13
Matches are distributed among these distances:
40 2 0.00
41 30 0.06
42 5 0.01
43 3 0.01
44 172 0.34
45 223 0.44
46 11 0.02
47 5 0.01
49 3 0.01
50 55 0.11
51 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (43 bp):
AATCTGCTCCGCTGCAACTTTAGGGAGATAAGATTGTATCTTC
Found at i:15308141 original size:184 final size:183
Alignment explanation
Indices: 15307811--15308160 Score: 504
Period size: 184 Copynumber: 1.9 Consensus size: 183
15307801 GGTTTAATCT
* * *
15307811 GACCTACTGCAACTTCAGAGGTATAGGACTTGTCGCCTTAATCCGCTCCACTGCAACTTTAGGGA
1 GACCTACTACAACTTCAGAGGTATAGGACTCGTCGCCTTAATCCGCTCCACTGCAACTTCAGGGA
* **
15307876 GATAGGATTAGCTATCTTCAGTCTGCTCCGCTGCAACTTTAGGGAGATAAGACTTGTGGTTTCAA
66 GATAGGATTAGCTATCTTCAGTCTGCTCCGCTGCAACTTTAGGAAGATAAGACTTGTAATTTCAA
* *** *
15307941 TCTGCTCTGTTGCAACTTTAG-GAAGATAAGATTTGTCATGGTAGACTTGATCC
131 CCTGCTCCACTGCAACTTCAGAG-AGATAAGATTTGTCATGGTAGACTTGATCC
**
15307994 GACCTACTACAACTTCAGAGGTATAGGACTCGTCGTTTTTAATCCGCTCCACTGCAACTTCAGGG
1 GACCTACTACAACTTCAGAGGTATAGGACTCGTCG-CCTTAATCCGCTCCACTGCAACTTCAGGG
* * * * *
15308059 AGATAGGATTAGTTGTCTTCAGTTTGCTCCGCTGTAACTTTAGGAAGATAAGACTTGTAATTTTA
65 AGATAGGATTAGCTATCTTCAGTCTGCTCCGCTGCAACTTTAGGAAGATAAGACTTGTAATTTCA
*
15308124 ACCTGCTCCACTGCAACTTCAGAGAGATAAGGTTTGT
130 ACCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGT
15308161 TTTGATCTGC
Statistics
Matches: 146, Mismatches: 19, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
183 33 0.23
184 112 0.77
185 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.31
Consensus pattern (183 bp):
GACCTACTACAACTTCAGAGGTATAGGACTCGTCGCCTTAATCCGCTCCACTGCAACTTCAGGGA
GATAGGATTAGCTATCTTCAGTCTGCTCCGCTGCAACTTTAGGAAGATAAGACTTGTAATTTCAA
CCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTCATGGTAGACTTGATCC
Found at i:15308290 original size:45 final size:43
Alignment explanation
Indices: 15308034--15308563 Score: 336
Period size: 45 Copynumber: 11.9 Consensus size: 43
15308024 CGTCGTTTTT
* * *
15308034 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTTGTCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-G-TATCTTC
* * * * * * *
15308079 AGTTTGCTCCGCTGTAACTTTAGGAAGATAAGACTTGTAAT-TTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGT-ATCTTC
* * *
15308123 AACCTGCTCCACTGCAACTTCAGAGAGATAAGGTTTGT-T-TT-
1 AATCTGCTCCACTGCAACTTCAGGGAGATAA-GATTGTATCTTC
* * *
15308164 GATCTGCTCTACTGCAACTTCAGAGAGATAAGATATGTAATTATAGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TG----TAT--CTTC
* ** * *
15308214 AATCTGTTCCACTGCAACTTCACAGAAATAAGATTCGCTATCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-G-TATCTTC
* *
15308259 AGTCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTAAT-TTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGT-ATCTTC
* * ** *
15308303 AA-CTTGCTCTACTGTAACTTCAGATAGATAAGGTTTGCTATCTTC
1 AATC-TGCTCCACTGCAACTTCAGGGAGATAA-GATTG-TATCTTC
* * * * * *
15308348 GATTTACTCCGCTGTAACTTCAGGGAGATAAGATATGCTATATTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TG-TATCTTC
* *
15308393 AATCTGCTCCACTACAACTTCAGGGAGATAAGACTTGTAACTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGTATCTTC
* * * * *
15308437 AACCTGCTCCATTGCAACTTCAGAGAGATAAGGTT-TATAGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTAT--CTTC
* ** *
15308481 AATCTGCTCCACTGCAACTTCAAGGAGATAAGATTCACCATCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT--GTATCTTC
* * *
15308526 AGTCTGCTCCACTGCAACTTTAAGGAGATAAGACTTGT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGT
15308564 GAATTTACTG
Statistics
Matches: 378, Mismatches: 78, Indels: 59
0.73 0.15 0.11
Matches are distributed among these distances:
40 2 0.01
41 30 0.08
42 5 0.01
43 3 0.01
44 129 0.34
45 163 0.43
46 8 0.02
47 5 0.01
49 3 0.01
50 30 0.08
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (43 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTATCTTC
Found at i:15308404 original size:134 final size:132
Alignment explanation
Indices: 15308039--15308569 Score: 455
Period size: 134 Copynumber: 4.0 Consensus size: 132
15308029 TTTTTAATCC
* * * * * * * * *
15308039 GCTCCACTGCAACTTCAGGGAGAT-AGGATTAGTTGTCTTCAGTTTGCTCCGCTGTAACTTTAGG
1 GCTCTACTGCAACTTCAGAGAGATAAGGTTTA--TATCTTCAATCTGCTCCACTGCAACTTCAGG
* * * **
15308103 AAGATAAGACTT-G-TA-ATTTTAACCTGCTCCACTGCAACTTCAGAGAGATAAGGTTTGT--TT
64 GAGATAAGA-TTCGCTATA-TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAATT
* *
15308163 TGATCT
127 TCAACT
* *
15308169 GCTCTACTGCAACTTCAGAGAGATAAGATATGTAATTATAGCTTCAATCTGTTCCACTGCAACTT
1 GCTCTACTGCAACTTCAGAGAGATAAG----GT--TTATATCTTCAATCTGCTCCACTGCAACTT
** * * * * *
15308234 CACAGAAATAAGATTCGCTATCTTTAGTCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTAA
60 CAGGGAGATAAGATTCGCTATATTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAA
15308299 TTTCAACTT
125 TTTCAAC-T
* * * * * * * *
15308308 GCTCTACTGTAACTTCAGATAGATAAGGTTTGCTATCTTCGATTTACTCCGCTGTAACTTCAGGG
1 GCTCTACTGCAACTTCAGAGAGATAAGGTTT-ATATCTTCAATCTGCTCCACTGCAACTTCAGGG
* * *
15308373 AGATAAGATAT-GCTATATTCAATCTGCTCCACTACAACTTCAGGGAGATAAGACTTGTAACTTC
65 AGATAAGAT-TCGCTATATTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAATTTC
15308437 AACCT
129 AA-CT
* * * * *
15308442 GCTCCATTGCAACTTCAGAGAGATAAGGTTTATAGCTTTAATCTGCTCCACTGCAACTTCAAGGA
1 GCTCTACTGCAACTTCAGAGAGATAAGGTTTATATCTTCAATCTGCTCCACTGCAACTTCAGGGA
* * * * * *
15308507 GATAAGATTCACCATCTTTAGTCTGCTCCACTGCAACTTTAAGGAGATAAGACTTGTGAATTT
66 GATAAGATTCGCTATATTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGT-AATTT
15308570 ACTGATCTTG
Statistics
Matches: 318, Mismatches: 65, Indels: 32
0.77 0.16 0.08
Matches are distributed among these distances:
130 22 0.07
131 2 0.01
132 1 0.00
133 74 0.23
134 113 0.36
135 34 0.11
136 38 0.12
137 3 0.01
138 5 0.02
139 26 0.08
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (132 bp):
GCTCTACTGCAACTTCAGAGAGATAAGGTTTATATCTTCAATCTGCTCCACTGCAACTTCAGGGA
GATAAGATTCGCTATATTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAATTTCAA
CT
Found at i:15312950 original size:39 final size:39
Alignment explanation
Indices: 15312896--15312971 Score: 134
Period size: 39 Copynumber: 1.9 Consensus size: 39
15312886 AATTTTGTAT
*
15312896 TCCTTCGTCGGACTATCACCCTTCTATCATCGTGTTTAC
1 TCCTTCGTCGAACTATCACCCTTCTATCATCGTGTTTAC
*
15312935 TCCTTCGTTGAACTATCACCCTTCTATCATCGTGTTT
1 TCCTTCGTCGAACTATCACCCTTCTATCATCGTGTTT
15312972 TCTCAGACCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.16, C:0.32, G:0.12, T:0.41
Consensus pattern (39 bp):
TCCTTCGTCGAACTATCACCCTTCTATCATCGTGTTTAC
Found at i:15314791 original size:3 final size:3
Alignment explanation
Indices: 15314783--15315012 Score: 68
Period size: 3 Copynumber: 77.7 Consensus size: 3
15314773 AAAAATAGAA
* * * * *
15314783 AAT AAT AAT -AT ATT AAT AAG AAT TAT AAT GAT ATAT ATT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT
* * ** *
15314828 AACA AAT AAT AA- AA- AAT AAC AAT GGGTT AAT AA- AGAT AAT AAA AAT
1 AA-T AAT AAT AAT AAT AAT AAT AAT --AAT AAT AAT A-AT AAT AAT AAT
* * * *
15314874 AAT AGA- AGT AAA AAT AAT AAT AAT CAAT -AT AAT AAT AGT AAGG AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AA-T AAT
* * * ** *
15314920 -AT AAT AAT AAT AGT AAT AA- AAT AA- AAA AAT GAT GGT AGT AAT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * *
15314964 AAA AAT AAA AAT AAC AAT AAT AAT AAT GAG GAT ATT AAT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
15315011 AA
1 AA
15315013 AATCTAATAT
Statistics
Matches: 163, Mismatches: 46, Indels: 36
0.67 0.19 0.15
Matches are distributed among these distances:
2 19 0.12
3 131 0.80
4 12 0.07
5 1 0.01
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:15315081 original size:24 final size:23
Alignment explanation
Indices: 15315033--15315082 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
15315023 TTTTCTTTTA
* *
15315033 AAATAAAATATGTAAAAGGATAT
1 AAATAAAATATGTAAAAAGAGAT
15315056 AAATAAAATAATG-AAAATAGAGAT
1 AAATAAAAT-ATGTAAAA-AGAGAT
15315080 AAA
1 AAA
15315083 GCACGCACAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.66, C:0.00, G:0.12, T:0.22
Consensus pattern (23 bp):
AAATAAAATATGTAAAAAGAGAT
Found at i:15315399 original size:20 final size:19
Alignment explanation
Indices: 15315350--15315404 Score: 58
Period size: 20 Copynumber: 2.9 Consensus size: 19
15315340 ATAAAGTAGT
*
15315350 AATAAAAATAAA-AATAAC
1 AATAATAATAAATAATAAC
* *
15315368 AATAATAGTAAAATAATAAT
1 AATAATAAT-AAATAATAAC
*
15315388 AATGATAATAAATAATA
1 AATAATAATAAATAATA
15315405 GTAAAAGACA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
18 7 0.23
19 11 0.37
20 12 0.40
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.25
Consensus pattern (19 bp):
AATAATAATAAATAATAAC
Found at i:15315421 original size:3 final size:3
Alignment explanation
Indices: 15315316--15315404 Score: 58
Period size: 3 Copynumber: 30.3 Consensus size: 3
15315306 TAATAAGGGA
* * * * * * *
15315316 AAT AAT AAC AAT AAT -AC AAT AAT GAT AA- AGT AGT AAT AAA AAT AAA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
15315362 AAT AAC AAT AAT AGT AA- AAT AAT AAT AAT GAT AAT AAAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT A
15315405 GTAAAAGACA
Statistics
Matches: 64, Mismatches: 18, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
2 4 0.06
3 57 0.89
4 3 0.05
ACGTcount: A:0.65, C:0.03, G:0.06, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:15317765 original size:20 final size:20
Alignment explanation
Indices: 15317728--15317765 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
15317718 ACCGAGGCAT
*
15317728 AAATTTTCATCGAAATTTAA
1 AAATTTTCATCAAAATTTAA
15317748 AAATTTTCA-CAAACATTT
1 AAATTTTCATCAAA-ATTT
15317766 GTAATGTCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.45, C:0.13, G:0.03, T:0.39
Consensus pattern (20 bp):
AAATTTTCATCAAAATTTAA
Found at i:15317976 original size:13 final size:13
Alignment explanation
Indices: 15317958--15317982 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15317948 TAATATATTT
15317958 ATTAATTAAAAAC
1 ATTAATTAAAAAC
15317971 ATTAATTAAAAA
1 ATTAATTAAAAA
15317983 AACTTCAAAT
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:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (13 bp):
ATTAATTAAAAAC
Found at i:15322066 original size:19 final size:20
Alignment explanation
Indices: 15322042--15322081 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
15322032 CACATCATTA
15322042 TTTAAATAATTTTTA-AATT
1 TTTAAATAATTTTTAGAATT
**
15322061 TTTAAATTTTTTTTAGAATT
1 TTTAAATAATTTTTAGAATT
15322081 T
1 T
15322082 ATATAATCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (20 bp):
TTTAAATAATTTTTAGAATT
Found at i:15323859 original size:16 final size:17
Alignment explanation
Indices: 15323825--15323861 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
15323815 GCGCGACCAT
15323825 TTTTTTAATAATATATA
1 TTTTTTAATAATATATA
*
15323842 TTTTTTAATATTAT-TA
1 TTTTTTAATAATATATA
15323858 TTTT
1 TTTT
15323862 ATTATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTTTAATAATATATA
Found at i:15324092 original size:25 final size:25
Alignment explanation
Indices: 15324051--15324114 Score: 78
Period size: 25 Copynumber: 2.5 Consensus size: 25
15324041 AAAAGAAAAA
*
15324051 AATTTATTAAGTTTAATAA--TTATTT
1 AATTTATT-ATTTTAATAATGTTA-TT
15324076 AATATTATTATTTTAATAATGTTATT
1 AAT-TTATTATTTTAATAATGTTATT
15324102 AATTTATTATTTT
1 AATTTATTATTTT
15324115 TATACTTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
25 22 0.63
26 10 0.29
27 3 0.09
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (25 bp):
AATTTATTATTTTAATAATGTTATT
Found at i:15324224 original size:25 final size:25
Alignment explanation
Indices: 15324153--15324247 Score: 101
Period size: 25 Copynumber: 4.0 Consensus size: 25
15324143 ATTAAGTTTC
*
15324153 ATAATTTTTTAATATTATTATTTGA
1 ATAATTTTTTAATATTATTATTTTA
* * *
15324178 ATAA-TTCTGAA-ATTA-T-GTTTA
1 ATAATTTTTTAATATTATTATTTTA
15324199 ATAATTTTTTAATATTATTATTTTA
1 ATAATTTTTTAATATTATTATTTTA
*
15324224 ATAATGTTATTAAT-TTATTATTTT
1 ATAAT-TTTTTAATATTATTATTTT
15324248 TTATGCTTAA
Statistics
Matches: 57, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
21 7 0.12
22 6 0.11
23 8 0.14
24 6 0.11
25 23 0.40
26 7 0.12
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.59
Consensus pattern (25 bp):
ATAATTTTTTAATATTATTATTTTA
Found at i:15324277 original size:88 final size:88
Alignment explanation
Indices: 15324177--15324404 Score: 336
Period size: 87 Copynumber: 2.6 Consensus size: 88
15324167 TTATTATTTG
* *
15324177 AATAATTCTGAAATTATGTTTAATAATTTTTTAATATTATTATTTTAATAATGT-T-ATTAATTT
1 AATAATTTTGAAATTAAGTTTAATAATTTTTTAATATTATTATTTTAATAAT-TCTGA-TAATTT
15324240 ATTATTTTTTATGCTTAAATTTTTT
64 ATTATTTTTTATGCTTAAATTTTTT
*
15324265 AATAATTTTGAAATTAAGTTTAATAA-TTTTTAATATTATTATTTTAATAATTCTGATAATTTTT
1 AATAATTTTGAAATTAAGTTTAATAATTTTTTAATATTATTATTTTAATAATTCTGATAATTTAT
*
15324329 TATTTTTTATGCTTAGATTTTTT
66 TATTTTTTATGCTTAAATTTTTT
* * * * *
15324352 AATATTTTTAAAATTAAGTCTAATAATTTTTTAGTATTATTAATTTAATAATT
1 AATAATTTTGAAATTAAGTTTAATAATTTTTTAATATTATTATTTTAATAATT
15324405 TTTTATTGGA
Statistics
Matches: 128, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
86 1 0.01
87 78 0.61
88 49 0.38
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (88 bp):
AATAATTTTGAAATTAAGTTTAATAATTTTTTAATATTATTATTTTAATAATTCTGATAATTTAT
TATTTTTTATGCTTAAATTTTTT
Found at i:15324299 original size:133 final size:134
Alignment explanation
Indices: 15324056--15324325 Score: 472
Period size: 133 Copynumber: 2.0 Consensus size: 134
15324046 AAAAAAATTT
15324056 ATTAAGTTTAATAATTATTTAATATTATTATTTTAATAATGTTATTAATTTATTATTTTTATACT
1 ATTAAGTTTAATAATTATTTAATATTATTATTTTAATAATGTTATTAATTTATTATTTTTATACT
*
15324121 TAAATTTTTTAATAATTTTGAAATTAAGTTTCATAATTTTTTAATATTATTATTTGAATAATTCT
66 TAAATTTTTTAATAATTTTGAAATTAAGTTTAATAATTTTTTAATATTATTATTTGAATAATTCT
15324186 GA-A
131 GATA
* * *
15324189 ATTATGTTTAATAATTTTTTAATATTATTATTTTAATAATGTTATTAATTTATTATTTTTTATGC
1 ATTAAGTTTAATAATTATTTAATATTATTATTTTAATAATGTTATTAATTTATTA-TTTTTATAC
*
15324254 TTAAATTTTTTAATAATTTTGAAATTAAGTTTAATAA-TTTTTAATATTATTATTTTAATAATTC
65 TTAAATTTTTTAATAATTTTGAAATTAAGTTTAATAATTTTTTAATATTATTATTTGAATAATTC
15324318 TGATA
130 TGATA
15324323 ATT
1 ATT
15324326 TTTTATTTTT
Statistics
Matches: 130, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
133 82 0.63
134 48 0.37
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (134 bp):
ATTAAGTTTAATAATTATTTAATATTATTATTTTAATAATGTTATTAATTTATTATTTTTATACT
TAAATTTTTTAATAATTTTGAAATTAAGTTTAATAATTTTTTAATATTATTATTTGAATAATTCT
GATA
Found at i:15324310 original size:24 final size:21
Alignment explanation
Indices: 15324127--15324325 Score: 77
Period size: 21 Copynumber: 8.9 Consensus size: 21
15324117 TACTTAAATT
15324127 TTTTAATAATTTTGAAATTAA
1 TTTTAATAATTTTGAAATTAA
* * *
15324148 GTTTCATAATTTTTTAATATTATTA
1 TTTTAATAA-TTTTGAA-ATTA--A
* *
15324173 TTTGAATAATTCTGAAATT-A
1 TTTTAATAATTTTGAAATTAA
*
15324193 TGTTTAATAATTTTTTAATATTATTA
1 T-TTTAATAA-TTTTGAA-ATTA--A
*
15324219 TTTTAATAATGTT---ATTAA
1 TTTTAATAATTTTGAAATTAA
* **
15324237 TTTATTATTTTTTATGCTTAAATT--
1 TTT-TAATAATTT-TG---AAATTAA
15324261 TTTTAATAATTTTGAAATTAA
1 TTTTAATAATTTTGAAATTAA
* *
15324282 GTTTAATAATTTTTAATATTATTA
1 TTTTAATAATTTTGAA-ATTA--A
*
15324306 TTTTAATAATTCTGATAATT
1 TTTTAATAATTTTGA-AATT
15324326 TTTTATTTTT
Statistics
Matches: 130, Mismatches: 24, Indels: 45
0.65 0.12 0.23
Matches are distributed among these distances:
18 4 0.03
19 10 0.08
20 7 0.05
21 28 0.22
22 17 0.13
23 16 0.12
24 27 0.21
25 16 0.12
26 5 0.04
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (21 bp):
TTTTAATAATTTTGAAATTAA
Found at i:15324794 original size:33 final size:34
Alignment explanation
Indices: 15324757--15324822 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 34
15324747 AGAACGGCGC
* *
15324757 TGGATATGGGCCGGGAGGAGTAGAGTAC-GATGG
1 TGGATATGAGCCGGAAGGAGTAGAGTACAGATGG
15324790 TGGATATGAGCCGGAAGGAGTAGAGTACAGATG
1 TGGATATGAGCCGGAAGGAGTAGAGTACAGATG
15324823 TGCAGTGGGC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 26 0.87
34 4 0.13
ACGTcount: A:0.29, C:0.09, G:0.44, T:0.18
Consensus pattern (34 bp):
TGGATATGAGCCGGAAGGAGTAGAGTACAGATGG
Found at i:15329194 original size:21 final size:20
Alignment explanation
Indices: 15329152--15329211 Score: 59
Period size: 21 Copynumber: 3.0 Consensus size: 20
15329142 AACTTATTTA
* **
15329152 TATTTTAATTAATCATGTTT
1 TATTTTAATTAATCTTAATT
15329172 TAGTTTTAATTAATCTTAATT
1 TA-TTTTAATTAATCTTAATT
* *
15329193 TA-CTTAATTAAGCTTAATT
1 TATTTTAATTAATCTTAATT
15329212 ATTAATTTCG
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
19 15 0.44
20 2 0.06
21 17 0.50
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (20 bp):
TATTTTAATTAATCTTAATT
Found at i:15332210 original size:27 final size:27
Alignment explanation
Indices: 15332172--15332226 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
15332162 GAACAAGCTG
15332172 CGAGTCATGGTTATCTTCCTCCGCTTT
1 CGAGTCATGGTTATCTTCCTCCGCTTT
15332199 CGAGTCATGGTTATCTTCCTCCGCTTT
1 CGAGTCATGGTTATCTTCCTCCGCTTT
15332226 C
1 C
15332227 TTTACAAGAA
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:0.11, C:0.31, G:0.18, T:0.40
Consensus pattern (27 bp):
CGAGTCATGGTTATCTTCCTCCGCTTT
Found at i:15332979 original size:74 final size:77
Alignment explanation
Indices: 15332873--15333019 Score: 185
Period size: 77 Copynumber: 1.9 Consensus size: 77
15332863 AGAAGATTCT
* * * * *
15332873 ACAAGTGCTAAAGAGATGGGTAAGACTATGGA-GA-T-GAACATTGAATTGTTACCAAAGCTTAT
1 ACAAGTCCTAAAGAGATGGGTAAGAATATGGAGGAGTGGAACATCGAATTGATACCAAAGCGTAT
15332935 AGAAGATGTAGA
66 AGAAGATGTAGA
* * *
15332947 ACAAGTCCTAAAGAGATGGGT-CGTAATATGGAGGAGTGGAGCATCGAATTGATATCAAAGCGTA
1 ACAAGTCCTAAAGAGATGGGTAAG-AATATGGAGGAGTGGAACATCGAATTGATACCAAAGCGTA
15333011 TAGAAGATG
65 TAGAAGATG
15333020 CTCCGAGTGC
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
73 1 0.02
74 27 0.44
75 2 0.03
76 1 0.02
77 30 0.49
ACGTcount: A:0.39, C:0.10, G:0.28, T:0.23
Consensus pattern (77 bp):
ACAAGTCCTAAAGAGATGGGTAAGAATATGGAGGAGTGGAACATCGAATTGATACCAAAGCGTAT
AGAAGATGTAGA
Found at i:15335085 original size:6 final size:6
Alignment explanation
Indices: 15335074--15335106 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
15335064 ACTATTATTA
*
15335074 TATATG TATATG TATATG TATATA TATATG TAT
1 TATATG TATATG TATATG TATATG TATATG TAT
15335107 TATTATTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (6 bp):
TATATG
Found at i:15335112 original size:3 final size:3
Alignment explanation
Indices: 15335104--15335136 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
15335094 TATATATATG
15335104 TAT TAT TAT T-T GTAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT
15335137 CACCCCTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 1 0.04
3 26 0.93
4 1 0.04
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:15335117 original size:12 final size:12
Alignment explanation
Indices: 15335066--15335136 Score: 58
Period size: 12 Copynumber: 5.8 Consensus size: 12
15335056 TTCTGACTAC
15335066 TATTATTATATATG
1 TATTATTAT-T-TG
*
15335080 TA-TATGTATATG
1 TATTAT-TATTTG
*
15335092 TA-TATATATATG
1 TATTAT-TATTTG
15335104 TATTATTATTTG
1 TATTATTATTTG
15335116 TATTATTATTAT-
1 TATTATTATT-TG
15335128 TATTATTAT
1 TATTATTAT
15335137 CACCCCTATT
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
12 39 0.76
13 7 0.14
14 5 0.10
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (12 bp):
TATTATTATTTG
Found at i:15335135 original size:24 final size:26
Alignment explanation
Indices: 15335066--15335136 Score: 89
Period size: 24 Copynumber: 2.9 Consensus size: 26
15335056 TTCTGACTAC
15335066 TATTATTATATATGTA-TATGTATATG
1 TATTATTATATATGTATTAT-TATATG
*
15335092 TA-TA-TATATATGTATTATTATTTG
1 TATTATTATATATGTATTATTATATG
15335116 TATTATTAT-TAT-TATTATTAT
1 TATTATTATATATGTATTATTAT
15335137 CACCCCTATT
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
24 26 0.63
25 10 0.24
26 5 0.12
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (26 bp):
TATTATTATATATGTATTATTATATG
Found at i:15335336 original size:3 final size:3
Alignment explanation
Indices: 15335328--15335354 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
15335318 TTTGTATTTC
15335328 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
15335355 ATAATAGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:15336426 original size:21 final size:22
Alignment explanation
Indices: 15336400--15336453 Score: 76
Period size: 21 Copynumber: 2.5 Consensus size: 22
15336390 AACAGCGGTG
15336400 GCGGTGAGATTAAG-TACTGTA
1 GCGGTGAGATTAAGATACTGTA
*
15336421 GCGGTGAGATT-GGATACTGTA
1 GCGGTGAGATTAAGATACTGTA
*
15336442 GCAGTGAGATTA
1 GCGGTGAGATTA
15336454 GAAACAGCGG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 1 0.03
21 28 0.97
ACGTcount: A:0.28, C:0.09, G:0.35, T:0.28
Consensus pattern (22 bp):
GCGGTGAGATTAAGATACTGTA
Found at i:15336591 original size:19 final size:18
Alignment explanation
Indices: 15336567--15336613 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
15336557 CGAAGTTTTT
*
15336567 AAAATTATTTAACAATTA
1 AAAATTATTAAACAATTA
* *
15336585 CAAAATTAATAAAGAATTA
1 -AAAATTATTAAACAATTA
15336604 AAAATTATTA
1 AAAATTATTA
15336614 CAATTATATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 9 0.38
19 15 0.62
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (18 bp):
AAAATTATTAAACAATTA
Found at i:15336662 original size:30 final size:30
Alignment explanation
Indices: 15336622--15336678 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
15336612 TACAATTATA
* *
15336622 TTTATTTGTATTGCTCTTACAAAAATACCT
1 TTTATGTGTATTGCGCTTACAAAAATACCT
15336652 TTTATGTGTATTGCGCTTACAAAAATA
1 TTTATGTGTATTGCGCTTACAAAAATA
15336679 TTGAATATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.44
Consensus pattern (30 bp):
TTTATGTGTATTGCGCTTACAAAAATACCT
Found at i:15339666 original size:6 final size:6
Alignment explanation
Indices: 15339655--15339680 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
15339645 TTTGCAACCA
15339655 AAGGGG AAGGGG AAGGGG AAGGGG AA
1 AAGGGG AAGGGG AAGGGG AAGGGG AA
15339681 AGGAGAGAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.62, T:0.00
Consensus pattern (6 bp):
AAGGGG
Found at i:15345643 original size:16 final size:17
Alignment explanation
Indices: 15345617--15345655 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
15345607 AATTTAAATC
15345617 TTTTAAGATTT-AGATAA
1 TTTTAAGATTTGAG-TAA
15345634 TTTTAA-ATTTGAGTAA
1 TTTTAAGATTTGAGTAA
15345650 TTTTAA
1 TTTTAA
15345656 CTTCAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.51
Consensus pattern (17 bp):
TTTTAAGATTTGAGTAA
Found at i:15346437 original size:21 final size:21
Alignment explanation
Indices: 15346411--15346456 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
15346401 AAAGTATATT
*
15346411 TTAAATATTTA-AATATAACTA
1 TTAAATATTTATAAT-TAAATA
15346432 TTAAATATTTATAATTAAATA
1 TTAAATATTTATAATTAAATA
15346453 TTAA
1 TTAA
15346457 CACATTTGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
TTAAATATTTATAATTAAATA
Found at i:15351672 original size:21 final size:21
Alignment explanation
Indices: 15351646--15351686 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
15351636 AGACGAGCAA
* *
15351646 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
15351667 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
15351687 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:15359167 original size:43 final size:42
Alignment explanation
Indices: 15359072--15359185 Score: 126
Period size: 43 Copynumber: 2.7 Consensus size: 42
15359062 ACCGAGATGT
* *
15359072 GATTACATGTAAGACCCTGTGTGGGACAATGACATTGTATTGC
1 GATTACGTGTAAGACCCTGTGTGGGAC-ATGACATTGTAATGC
*
15359115 GATTACGTGTAAGACCATGTGTGGGACATCGACATCAT-TAAT-C
1 GATTACGTGTAAGACCCTGTGTGGGACAT-GACAT--TGTAATGC
*
15359158 GACTT-CGTGTAAGACCCTGTATGGGACA
1 GA-TTACGTGTAAGACCCTGTGTGGGACA
15359186 GTGGTATTGA
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
42 2 0.03
43 54 0.87
44 5 0.08
45 1 0.02
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.28
Consensus pattern (42 bp):
GATTACGTGTAAGACCCTGTGTGGGACATGACATTGTAATGC
Found at i:15363813 original size:15 final size:16
Alignment explanation
Indices: 15363787--15363816 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
15363777 TCATAACAAT
15363787 TTTATCATTTTTATAG
1 TTTATCATTTTTATAG
15363803 TTTAT-ATTTTTATA
1 TTTATCATTTTTATA
15363817 ACTTTTAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.67
Consensus pattern (16 bp):
TTTATCATTTTTATAG
Found at i:15373008 original size:31 final size:31
Alignment explanation
Indices: 15372973--15373041 Score: 120
Period size: 31 Copynumber: 2.2 Consensus size: 31
15372963 GTTAACAAAC
15372973 CAATGACTTAAATAAAAACTTTTGAATAATT
1 CAATGACTTAAATAAAAACTTTTGAATAATT
* *
15373004 CAATGACTTAAATGAAAACTTTTGAATAGTT
1 CAATGACTTAAATAAAAACTTTTGAATAATT
15373035 CAATGAC
1 CAATGAC
15373042 CAAATTGTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (31 bp):
CAATGACTTAAATAAAAACTTTTGAATAATT
Found at i:15378145 original size:29 final size:29
Alignment explanation
Indices: 15378111--15378192 Score: 96
Period size: 29 Copynumber: 2.8 Consensus size: 29
15378101 AACCTAGTGA
15378111 AATTTTAGCTCGGACGAGCAACCTTGTAT
1 AATTTTAGCTCGGACGAGCAACCTTGTAT
* *
15378140 ACTTTTAGC-CTGGACTGA-CAACCTTGTGT
1 AATTTTAGCTC-GGAC-GAGCAACCTTGTAT
* *
15378169 AATTTTAGCTTGGACAAGCAACCT
1 AATTTTAGCTCGGACGAGCAACCT
15378193 AGTGTGGTGT
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
28 2 0.05
29 40 0.91
30 2 0.05
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.32
Consensus pattern (29 bp):
AATTTTAGCTCGGACGAGCAACCTTGTAT
Found at i:15378197 original size:29 final size:28
Alignment explanation
Indices: 15378101--15378197 Score: 95
Period size: 29 Copynumber: 3.4 Consensus size: 28
15378091 CTAGTAACCT
* *
15378101 AACCTAGTGAAATTTTAGCTCGGACGAGC
1 AACCTAGTGTAATTTTAGCTTGGAC-AGC
* * * * *
15378130 AACCTTGTATACTTTTAGCCTGGACTGAC
1 AACCTAGTGTAATTTTAGCTTGGACAG-C
*
15378159 AACCTTGTGTAATTTTAGCTTGGACAAGC
1 AACCTAGTGTAATTTTAGCTTGGAC-AGC
15378188 AACCTAGTGT
1 AACCTAGTGT
15378198 GGTGTAGTTT
Statistics
Matches: 54, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
28 1 0.02
29 52 0.96
30 1 0.02
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (28 bp):
AACCTAGTGTAATTTTAGCTTGGACAGC
Found at i:15379556 original size:23 final size:23
Alignment explanation
Indices: 15379523--15379587 Score: 121
Period size: 23 Copynumber: 2.8 Consensus size: 23
15379513 ATGCAGCAAA
*
15379523 AATCCAACCAAACACACCAAAAT
1 AATCCACCCAAACACACCAAAAT
15379546 AATCCACCCAAACACACCAAAAT
1 AATCCACCCAAACACACCAAAAT
15379569 AATCCACCCAAACACACCA
1 AATCCACCCAAACACACCA
15379588 GAACGGCACT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.52, C:0.40, G:0.00, T:0.08
Consensus pattern (23 bp):
AATCCACCCAAACACACCAAAAT
Found at i:15379788 original size:24 final size:24
Alignment explanation
Indices: 15379740--15379794 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
15379730 TATTCAATTT
15379740 TCATA-TTTCAATTCAATCACTTTC
1 TCATATTTTCAATTCAATCAC-TTC
*
15379764 TCATATTTTCCATTCAAATCA-TTC
1 TCATATTTTCAATTC-AATCACTTC
15379788 TCA-ATTT
1 TCATATTT
15379795 AATCACAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 4 0.14
24 11 0.39
25 8 0.29
26 5 0.18
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.47
Consensus pattern (24 bp):
TCATATTTTCAATTCAATCACTTC
Found at i:15380593 original size:16 final size:16
Alignment explanation
Indices: 15380574--15380604 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15380564 TTAGTCTCTA
*
15380574 TTTCTTTTCTTCTTTG
1 TTTCTTTTATTCTTTG
15380590 TTTCTTTTATTCTTT
1 TTTCTTTTATTCTTT
15380605 TATTTATTTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.03, C:0.16, G:0.03, T:0.77
Consensus pattern (16 bp):
TTTCTTTTATTCTTTG
Found at i:15386107 original size:28 final size:27
Alignment explanation
Indices: 15386071--15386127 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 27
15386061 CATAACCATT
15386071 TTTTTCTTTCTTCTTC-CATTTTCTTTTC
1 TTTTTCTTTCTTCTTCACA--TTCTTTTC
*
15386099 TTTTTCTTTTTTCTTCACATTCTTTTC
1 TTTTTCTTTCTTCTTCACATTCTTTTC
15386126 TT
1 TT
15386128 GTGTCTGGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 10 0.37
28 15 0.56
29 2 0.07
ACGTcount: A:0.05, C:0.23, G:0.00, T:0.72
Consensus pattern (27 bp):
TTTTTCTTTCTTCTTCACATTCTTTTC
Found at i:15386110 original size:18 final size:18
Alignment explanation
Indices: 15386070--15386113 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
15386060 GCATAACCAT
15386070 TTTTTTC-TTTCTTCTTC
1 TTTTTTCTTTTCTTCTTC
** *
15386087 CATTTTCTTTTCTTTTTC
1 TTTTTTCTTTTCTTCTTC
15386105 TTTTTTCTT
1 TTTTTTCTT
15386114 CACATTCTTT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTTTTCTTTTCTTCTTC
Found at i:15391032 original size:26 final size:26
Alignment explanation
Indices: 15391002--15391078 Score: 101
Period size: 26 Copynumber: 3.2 Consensus size: 26
15390992 TGAAATTCCC
15391002 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
15391028 ATCATGGAACATTTACCT-A---A-T
1 ATCATGGAACATTTACCTAACCCATT
**
15391049 ATCATAAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
15391075 ATCA
1 ATCA
15391079 ATTTGTATTA
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
21 17 0.39
22 2 0.05
25 2 0.05
26 23 0.52
ACGTcount: A:0.39, C:0.25, G:0.05, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:15391053 original size:21 final size:22
Alignment explanation
Indices: 15391002--15391068 Score: 73
Period size: 21 Copynumber: 2.9 Consensus size: 22
15390992 TGAAATTCCC
15391002 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCT-A---ATT
15391028 ATCATGGAACATTTACCTAA-T
1 ATCATGGAACATTTACCTAATT
**
15391049 ATCATAAAACATTTACCTAA
1 ATCATGGAACATTTACCTAA
15391069 CCCATTATCA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
21 19 0.49
22 1 0.03
25 1 0.03
26 18 0.46
ACGTcount: A:0.40, C:0.22, G:0.06, T:0.31
Consensus pattern (22 bp):
ATCATGGAACATTTACCTAATT
Found at i:15396059 original size:18 final size:20
Alignment explanation
Indices: 15396024--15396064 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
15396014 CTAAATTGAA
*
15396024 TTTAATGTTAAAATTATA-T
1 TTTAACGTTAAAATTATAGT
15396043 TTTAACGTTAAAA-TATAGT
1 TTTAACGTTAAAATTATAGT
15396062 TTT
1 TTT
15396065 GAACTCCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.51
Consensus pattern (20 bp):
TTTAACGTTAAAATTATAGT
Found at i:15405858 original size:15 final size:16
Alignment explanation
Indices: 15405828--15405865 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
15405818 TTAAAGTTAA
15405828 AAATAATAATTAATTAT
1 AAAT-ATAATTAATTAT
15405845 AAATATAA-TAATTAT
1 AAATATAATTAATTAT
15405860 AAATAT
1 AAATAT
15405866 GTTCAATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 13 0.62
16 4 0.19
17 4 0.19
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AAATATAATTAATTAT
Found at i:15407205 original size:7 final size:7
Alignment explanation
Indices: 15407195--15407224 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
15407185 ATTATTTTTA
15407195 ATTTAAT
1 ATTTAAT
15407202 ATTTAAT
1 ATTTAAT
15407209 ATTTAAT
1 ATTTAAT
15407216 ATTTAAT
1 ATTTAAT
15407223 AT
1 AT
15407225 AGTTGTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
ATTTAAT
Found at i:15411825 original size:13 final size:13
Alignment explanation
Indices: 15411807--15411833 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
15411797 CATTCGTGAT
15411807 AAAAAAGAAAAAA
1 AAAAAAGAAAAAA
15411820 AAAAAAGAAAAAA
1 AAAAAAGAAAAAA
15411833 A
1 A
15411834 GCATAAGCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAAAAA
Found at i:15417408 original size:20 final size:21
Alignment explanation
Indices: 15417378--15417418 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
15417368 TTTAATCATG
*
15417378 TAAATATATATAATTTAATTA
1 TAAATATATATAATTAAATTA
*
15417399 TAAA-ATATATTATTAAATTA
1 TAAATATATATAATTAAATTA
15417419 ATTAATTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TAAATATATATAATTAAATTA
Found at i:15417446 original size:25 final size:27
Alignment explanation
Indices: 15417392--15417448 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
15417382 TATATATAAT
*
15417392 TTAATTATAAAATATATTATTAAATTAA
1 TTAATTATAAAATATATTATT-AATGAA
15417420 TTAATTAT-AAATATCA-TATT-ATGAA
1 TTAATTATAAAATAT-ATTATTAATGAA
15417445 TTAA
1 TTAA
15417449 ATTAAATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 8 0.30
27 10 0.37
28 9 0.33
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (27 bp):
TTAATTATAAAATATATTATTAATGAA
Found at i:15417610 original size:20 final size:20
Alignment explanation
Indices: 15417573--15417629 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
15417563 ATTTATCATT
*
15417573 ATTATTATTCTATCAAATTATA
1 ATTATTA-T-TATTAAATTATA
*
15417595 ATT-TATATTATTAAATTATG
1 ATTAT-TATTATTAAATTATA
15417615 ATTATTATTATTAAA
1 ATTATTATTATTAAA
15417630 AATAAATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
20 23 0.74
21 3 0.10
22 5 0.16
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.53
Consensus pattern (20 bp):
ATTATTATTATTAAATTATA
Found at i:15425234 original size:43 final size:42
Alignment explanation
Indices: 15425077--15425235 Score: 144
Period size: 43 Copynumber: 3.7 Consensus size: 42
15425067 TATGTGTTAT
* * * *
15425077 CGTGTAAGACCACGTCTGGGACGTTAGCATCGACTTATGATTTA
1 CGTGTAAGACCACGTCTGGGACATTGGCATC-AATTTTGA-TTA
* * * * *
15425121 CGTGTAAGACCATGTTTGGGATATTGGCATC-GTATTTGATTT
1 CGTGTAAGACCACGTCTGGGACATTGGCATCAAT-TTTGATTA
*
15425163 CGTGTAAGACC-CTGTCTGGGACAATGGCATCAATGTTTGATTA
1 CGTGTAAGACCAC-GTCTGGGACATTGGCATCAAT-TTTGATTA
*
15425206 CATGTAAGACCACGTCTGGGA-AGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACA-TTGGCAT
15425236 TGTATGTGCT
Statistics
Matches: 93, Mismatches: 17, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
42 30 0.32
43 36 0.39
44 27 0.29
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (42 bp):
CGTGTAAGACCACGTCTGGGACATTGGCATCAATTTTGATTA
Found at i:15427784 original size:61 final size:61
Alignment explanation
Indices: 15427689--15427811 Score: 169
Period size: 61 Copynumber: 2.0 Consensus size: 61
15427679 AAATTGACAT
* *
15427689 GGCCTGGACTTCCGTACACGGGTAGACTACACGCCCATGTACT-TTCAGCAGACTCTAACAC
1 GGCCTGGACTTCCGTACACGGGTAGACCACACGCCCATG-ACTATTCAACAGACTCTAACAC
* * *
15427750 GGCCTGGACCTT-CTTACACGGGTAGACCACACGCCCGTGGCTATTCAACAGACTCTAACAC
1 GGCCTGGA-CTTCCGTACACGGGTAGACCACACGCCCATGACTATTCAACAGACTCTAACAC
15427811 G
1 G
15427812 ATTTGAAGCA
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
60 2 0.04
61 50 0.91
62 3 0.05
ACGTcount: A:0.24, C:0.33, G:0.22, T:0.20
Consensus pattern (61 bp):
GGCCTGGACTTCCGTACACGGGTAGACCACACGCCCATGACTATTCAACAGACTCTAACAC
Found at i:15437344 original size:61 final size:60
Alignment explanation
Indices: 15437217--15437344 Score: 163
Period size: 61 Copynumber: 2.1 Consensus size: 60
15437207 ATGAGAAATC
*
15437217 GACACGGCCTGGACTTCTGTACACGGGTAGACCACACACTCGTGTAGTTTCGACAGACTCT
1 GACACGGCCTGGACTTCTGTACACGGGTAGACCACACACCCGTGTAG-TTCGACAGACTCT
* *
15437278 AACACGGCCTGGACCTTCT-TACACGGGTAGACCACACGCCCGTGGCTA-TTC-ATCAGACTCT
1 GACACGGCCTGGA-CTTCTGTACACGGGTAGACCACACACCCGT-G-TAGTTCGA-CAGACTCT
15437339 GACACG
1 GACACG
15437345 ATTTGAAGCA
Statistics
Matches: 59, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
60 1 0.02
61 50 0.85
62 6 0.10
63 2 0.03
ACGTcount: A:0.23, C:0.32, G:0.23, T:0.21
Consensus pattern (60 bp):
GACACGGCCTGGACTTCTGTACACGGGTAGACCACACACCCGTGTAGTTCGACAGACTCT
Found at i:15442286 original size:26 final size:26
Alignment explanation
Indices: 15442257--15442311 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
15442247 TAATGGTTCA
15442257 ATAAAAGGGCAAATTTGGTATTTAGC
1 ATAAAAGGGCAAATTTGGTATTTAGC
*
15442283 ATAAAAGGGCGAATTTGGTATTTAGC
1 ATAAAAGGGCAAATTTGGTATTTAGC
15442309 ATA
1 ATA
15442312 TTATATTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.31
Consensus pattern (26 bp):
ATAAAAGGGCAAATTTGGTATTTAGC
Found at i:15442870 original size:43 final size:42
Alignment explanation
Indices: 15442769--15442872 Score: 120
Period size: 42 Copynumber: 2.5 Consensus size: 42
15442759 ATGATTTATG
* * * *
15442769 TGTAAGACCATGTCTGGGATATTGGCATCGTATTTGATTTCG
1 TGTAAGACCACGTCTGGGATAGTGGCATCGTATTTGATTACA
* * *
15442811 TGTAAAACC-CTATCTGGGATAGTGGCATCGATGTTTGATTACA
1 TGTAAGACCAC-GTCTGGGATAGTGGCATCG-TATTTGATTACA
15442854 TGTAAGACCACGTCTGGGA
1 TGTAAGACCACGTCTGGGA
15442873 CGTTAGCTAT
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
42 25 0.50
43 24 0.48
44 1 0.02
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGATAGTGGCATCGTATTTGATTACA
Found at i:15448805 original size:47 final size:47
Alignment explanation
Indices: 15448744--15448997 Score: 472
Period size: 47 Copynumber: 5.4 Consensus size: 47
15448734 CAGCCAAGAC
15448744 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
15448791 AGTGTATATGTGTGATAAAGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
15448838 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
15448885 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
15448932 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
15448979 AGTGTATATATGTGATAAG
1 AGTGTATATATGTGATAAG
15448998 TCCCGAAGGG
Statistics
Matches: 203, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 203 1.00
ACGTcount: A:0.31, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:15449172 original size:37 final size:37
Alignment explanation
Indices: 15449116--15449194 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
15449106 CCAAGCTCTA
* *
15449116 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
15449153 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
15449190 AAGAC
1 AAGAC
15449195 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:15450720 original size:18 final size:18
Alignment explanation
Indices: 15450699--15450758 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
15450689 AATTGGTTAA
*
15450699 TCAGTAATATTCATTTAT
1 TCAGTAATAATCATTTAT
*
15450717 TCAGT-ATCAGTCATTTAT
1 TCAGTAAT-AATCATTTAT
* * *
15450735 TCTGTAACAATCAATTAT
1 TCAGTAATAATCATTTAT
15450753 TCAGTA
1 TCAGTA
15450759 GCATACAATC
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
17 2 0.06
18 31 0.91
19 1 0.03
ACGTcount: A:0.33, C:0.15, G:0.08, T:0.43
Consensus pattern (18 bp):
TCAGTAATAATCATTTAT
Found at i:15460616 original size:47 final size:47
Alignment explanation
Indices: 15460545--15460902 Score: 599
Period size: 47 Copynumber: 7.6 Consensus size: 47
15460535 CCCTTCGGGA
* * * * * *
15460545 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
15460592 CCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
15460639 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
15460686 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
15460733 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
15460780 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
15460829 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
15460876 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
15460903 TATTCAAATA
Statistics
Matches: 294, Mismatches: 15, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 249 0.85
49 45 0.15
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:15460857 original size:143 final size:141
Alignment explanation
Indices: 15460545--15460902 Score: 599
Period size: 143 Copynumber: 2.5 Consensus size: 141
15460535 CCCTTCGGGA
* * * * * * *
15460545 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
15460610 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
15460675 GGCCATTAGGC
131 GGCCATTAGGC
*
15460686 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
15460751 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
* *
15460816 TTGGCCATTCGGC
129 TCGGCCATTAGGC
*
15460829 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGTCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
15460894 TTTCACATT
66 TTTCACATT
15460903 TATTCAAATA
Statistics
Matches: 203, Mismatches: 12, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
141 94 0.46
143 109 0.54
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:15473748 original size:59 final size:59
Alignment explanation
Indices: 15473657--15473776 Score: 222
Period size: 60 Copynumber: 2.0 Consensus size: 59
15473647 AAGTTATGTA
15473657 ATACTAAAGAAGGTATTAATTGGGTGTAAAAAACTGAAGAAAAATACATAAAGAAGTCT
1 ATACTAAAGAAGGTATTAATTGGGTGTAAAAAACTGAAGAAAAATACATAAAGAAGTCT
*
15473716 ATACTAAAGAAGGTATTAAATTGGGTGTAAAAAATTGAAGAAAAATACATAAAGAAGTCT
1 ATACTAAAGAAGGTATT-AATTGGGTGTAAAAAACTGAAGAAAAATACATAAAGAAGTCT
15473776 A
1 A
15473777 GTTCTTTCGG
Statistics
Matches: 59, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
59 17 0.29
60 42 0.71
ACGTcount: A:0.52, C:0.06, G:0.18, T:0.24
Consensus pattern (59 bp):
ATACTAAAGAAGGTATTAATTGGGTGTAAAAAACTGAAGAAAAATACATAAAGAAGTCT
Found at i:15474660 original size:28 final size:28
Alignment explanation
Indices: 15474620--15474675 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
15474610 TTTGTTTACA
15474620 TGTAAATAAGTCATTTTTCCTGTAAAAT
1 TGTAAATAAGTCATTTTTCCTGTAAAAT
15474648 TGTAAATAAGTCATTTTTCCTGTAAAAT
1 TGTAAATAAGTCATTTTTCCTGTAAAAT
15474676 GACTTACCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.43
Consensus pattern (28 bp):
TGTAAATAAGTCATTTTTCCTGTAAAAT
Found at i:15474909 original size:22 final size:22
Alignment explanation
Indices: 15474884--15474925 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
15474874 TAGTCATATA
15474884 ATAAATTATTAATATAATAACT
1 ATAAATTATTAATATAATAACT
* * *
15474906 ATAATTTATTATTTTAATAA
1 ATAAATTATTAATATAATAA
15474926 ATTATTTAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAACT
Found at i:15476249 original size:30 final size:31
Alignment explanation
Indices: 15476213--15476279 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
15476203 GTTTGAATTT
15476213 AGTCACTCAAC-TT-TCAAAAAATAACAAATC
1 AGTCACT-AACGTTCTCAAAAAATAACAAATC
* *
15476243 AGTCACTAACGTTCTCAAAAAGTGACAAATC
1 AGTCACTAACGTTCTCAAAAAATAACAAATC
15476274 AGTCAC
1 AGTCAC
15476280 CCATTAACAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
29 3 0.09
30 9 0.27
31 21 0.64
ACGTcount: A:0.45, C:0.24, G:0.09, T:0.22
Consensus pattern (31 bp):
AGTCACTAACGTTCTCAAAAAATAACAAATC
Found at i:15477062 original size:18 final size:19
Alignment explanation
Indices: 15477035--15477072 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
15477025 AAATCTTACA
15477035 ACAAAGTGAAATG-TAAAAT
1 ACAAAGTGAAA-GCTAAAAT
15477054 ACAAA-TGAAAGCTAAAAT
1 ACAAAGTGAAAGCTAAAAT
15477072 A
1 A
15477073 GGAATCACGG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 1 0.06
18 12 0.67
19 5 0.28
ACGTcount: A:0.61, C:0.08, G:0.13, T:0.18
Consensus pattern (19 bp):
ACAAAGTGAAAGCTAAAAT
Found at i:15477111 original size:3 final size:3
Alignment explanation
Indices: 15477103--15477141 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
15477093 CATTTTTTCT
*
15477103 TTC TTC TTC TTC TTC TTC TTC TT- TTT TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
15477142 ATTGCCTGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (3 bp):
TTC
Done.