Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 32 of 290
Found at i:10440536 original size:3 final size:3
Alignment explanation
Indices: 10440516--10440555 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
10440506 TCTACCTCTA
* *
10440516 CTT CTT GCTT CCT CTT CTT CTT CTT CTT CTT CTT TTT CTT
1 CTT CTT -CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
10440556 TTTTGAATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.00, C:0.33, G:0.03, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:10445252 original size:70 final size:70
Alignment explanation
Indices: 10445137--10445268 Score: 160
Period size: 70 Copynumber: 1.9 Consensus size: 70
10445127 CCAATTTTTA
*
10445137 AAATCCCCAAATCGTGAAATTCCCTAAATCCTTAACCTCCAAAATCTTTATTG-AATCCCTAACA
1 AAATCCCCAAATCGTGAAATTACCTAAATCCTTAACCTCCAAAATC-TTATTGAAATCCCTAACA
10445201 ATCTCC
65 ATCTCC
* * * * * * *
10445207 AAATCCCTAAATCTTGAAA-TACCTAAATCGTTAGCATTCCGAAATCTTCTTGAAATCCCTAA
1 AAATCCCCAAATCGTGAAATTACCTAAATCCTTAAC-CTCCAAAATCTTATTGAAATCCCTAA
10445269 AATTTTTACG
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
69 18 0.35
70 34 0.65
ACGTcount: A:0.36, C:0.28, G:0.06, T:0.30
Consensus pattern (70 bp):
AAATCCCCAAATCGTGAAATTACCTAAATCCTTAACCTCCAAAATCTTATTGAAATCCCTAACAA
TCTCC
Found at i:10446289 original size:33 final size:33
Alignment explanation
Indices: 10446252--10446331 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 33
10446242 TGATGAAGGA
*
10446252 GTAGAATCTGATGGTGAAGGTGATCTAGAAAAG
1 GTAGAATCTGATGGGGAAGGTGATCTAGAAAAG
* * * * *
10446285 GTAGAATCTGGTGGGGAGGGTGATGTAGGAGAG
1 GTAGAATCTGATGGGGAAGGTGATCTAGAAAAG
* *
10446318 GTACAAGCTGATGG
1 GTAGAATCTGATGG
10446332 AGAGGGTGTG
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.30, C:0.06, G:0.41, T:0.23
Consensus pattern (33 bp):
GTAGAATCTGATGGGGAAGGTGATCTAGAAAAG
Found at i:10446517 original size:51 final size:51
Alignment explanation
Indices: 10446448--10446598 Score: 221
Period size: 51 Copynumber: 3.0 Consensus size: 51
10446438 GTTGCTGCAA
* *
10446448 ATGAATATGCTGGTGATTTTGTAACATCAAATGGGGTGGATAATGTTGCTG
1 ATGAATATGCTGGTGATTTTGCAACATCAAATGGAGTGGATAATGTTGCTG
* *
10446499 ATGAATATGTTGGTGATTTTGCAACATCAGATGGAGTGGATAATGTTGCTG
1 ATGAATATGCTGGTGATTTTGCAACATCAAATGGAGTGGATAATGTTGCTG
* ** * *
10446550 ATGAATATGCTAGTGATTTTGCAACATCTGACGGACTGGATAATGTTGC
1 ATGAATATGCTGGTGATTTTGCAACATCAAATGGAGTGGATAATGTTGC
10446599 CGCTACACAC
Statistics
Matches: 91, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 91 1.00
ACGTcount: A:0.28, C:0.10, G:0.28, T:0.34
Consensus pattern (51 bp):
ATGAATATGCTGGTGATTTTGCAACATCAAATGGAGTGGATAATGTTGCTG
Found at i:10448578 original size:14 final size:14
Alignment explanation
Indices: 10448559--10448588 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
10448549 AAATATTAAG
10448559 TAAATTTTTTATTT
1 TAAATTTTTTATTT
10448573 TAAATTTTTTATTT
1 TAAATTTTTTATTT
10448587 TA
1 TA
10448589 TTTTGTCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TAAATTTTTTATTT
Found at i:10449367 original size:22 final size:22
Alignment explanation
Indices: 10449342--10449386 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
10449332 TCATATGCTT
* *
10449342 TTGTAAAGTACATTTATCGAAA
1 TTGTAAAGTACAGTTATCCAAA
10449364 TTGTAAAGTACAGTTATCCAAA
1 TTGTAAAGTACAGTTATCCAAA
10449386 T
1 T
10449387 CATATGCTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (22 bp):
TTGTAAAGTACAGTTATCCAAA
Found at i:10449789 original size:12 final size:12
Alignment explanation
Indices: 10449774--10449798 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10449764 CCTCAATGTC
10449774 AACAGCTCTACT
1 AACAGCTCTACT
10449786 AACAGCTCTACT
1 AACAGCTCTACT
10449798 A
1 A
10449799 CCACCATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.32, G:0.08, T:0.24
Consensus pattern (12 bp):
AACAGCTCTACT
Found at i:10450382 original size:23 final size:23
Alignment explanation
Indices: 10450352--10450395 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
10450342 CGGAAAGATT
*
10450352 AAGGATTTCACGATTTGGTTCTA
1 AAGGATTTCACGATTTCGTTCTA
*
10450375 AAGGATTTCATGATTTCGTTC
1 AAGGATTTCACGATTTCGTTC
10450396 CTAATAGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.41
Consensus pattern (23 bp):
AAGGATTTCACGATTTCGTTCTA
Found at i:10453161 original size:13 final size:13
Alignment explanation
Indices: 10453143--10453175 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
10453133 TATTTATATC
*
10453143 CATATAAACATTT
1 CATATAAACACTT
10453156 CATATAAACACTT
1 CATATAAACACTT
10453169 CATATAA
1 CATATAA
10453176 CTAGTTCTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.33
Consensus pattern (13 bp):
CATATAAACACTT
Found at i:10454140 original size:27 final size:27
Alignment explanation
Indices: 10454103--10454217 Score: 162
Period size: 27 Copynumber: 4.3 Consensus size: 27
10454093 AGCATGGCTG
* *
10454103 CCAGAACAGATA-ATGTGACAGAGTCA
1 CCAGAACAGATATATGTGGCAGAGCCA
10454129 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGA-ACAGATATAT-GTGGCAGAGCCA
10454157 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
* *
10454184 CCAGATCAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
10454211 CCAGAAC
1 CCAGAAC
10454218 GCTTCCTCCA
Statistics
Matches: 81, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
26 5 0.06
27 59 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.16
Consensus pattern (27 bp):
CCAGAACAGATATATGTGGCAGAGCCA
Found at i:10455871 original size:26 final size:26
Alignment explanation
Indices: 10455835--10455918 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
10455825 CATGAAATTC
*
10455835 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
10455861 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
10455887 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
10455913 TTATCA
1 TTATCA
10455919 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:10456363 original size:40 final size:40
Alignment explanation
Indices: 10456263--10456396 Score: 151
Period size: 40 Copynumber: 3.4 Consensus size: 40
10456253 TATAGCCAAA
* * *
10456263 TCATATAAACATTTCATATATTTATTTCCATACAATCAAT
1 TCATATAACCATTTCATATATATATTTCCATATAATCAAT
* * *
10456303 TCACATAACCATTCCATATATCTATTTCCATATAATCAAT
1 TCATATAACCATTTCATATATATATTTCCATATAATCAAT
** * **
10456343 TCATATAACCATTTTGTATATATGTTTAAATATAATCAAT
1 TCATATAACCATTTCATATATATATTTCCATATAATCAAT
* *
10456383 TCTTATAACAATTT
1 TCATATAACCATTT
10456397 GAAATATTCA
Statistics
Matches: 79, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 79 1.00
ACGTcount: A:0.39, C:0.17, G:0.01, T:0.43
Consensus pattern (40 bp):
TCATATAACCATTTCATATATATATTTCCATATAATCAAT
Found at i:10457639 original size:21 final size:22
Alignment explanation
Indices: 10457614--10457665 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
10457604 TTTAAATTAC
*
10457614 TTATTAATTATTTAATAT-TTT
1 TTATTAATTATTTAACATGTTT
*
10457635 TTATTACA-AATTTAACATGTTT
1 TTATTA-ATTATTTAACATGTTT
10457657 TTA-TAATTA
1 TTATTAATTA
10457666 AAATCAGATG
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
20 1 0.04
21 17 0.68
22 7 0.28
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.58
Consensus pattern (22 bp):
TTATTAATTATTTAACATGTTT
Found at i:10460014 original size:12 final size:12
Alignment explanation
Indices: 10459999--10460028 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
10459989 AATAATTAAA
10459999 TAAATTAGAAAT
1 TAAATTAGAAAT
*
10460011 TAAATTGGAAAT
1 TAAATTAGAAAT
10460023 TAAATT
1 TAAATT
10460029 CAGATTTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.37
Consensus pattern (12 bp):
TAAATTAGAAAT
Found at i:10467814 original size:17 final size:17
Alignment explanation
Indices: 10467792--10467834 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
10467782 AATATTATAA
10467792 AATTTTTATA-CATTTTT
1 AATTTTT-TACCATTTTT
10467809 AATTTTTTACCATTTTT
1 AATTTTTTACCATTTTT
10467826 ATATTTTTT
1 A-ATTTTTT
10467835 TAACAATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.08
17 15 0.62
18 7 0.29
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (17 bp):
AATTTTTTACCATTTTT
Found at i:10467817 original size:18 final size:18
Alignment explanation
Indices: 10467760--10467845 Score: 66
Period size: 20 Copynumber: 4.6 Consensus size: 18
10467750 AAATTTATTA
*
10467760 TAACATTCTTATATTTTT
1 TAACATTTTTATATTTTT
* * * *
10467778 TACAAATATTATAAAATTTT
1 TA-ACAT-TTTTATATTTTT
10467798 TATACATTTTTA-ATTTTT
1 TA-ACATTTTTATATTTTT
*
10467816 TACCATTTTTATATTTTTT
1 TAACATTTTTATA-TTTTT
10467835 TAACAATTTTT
1 TAAC-ATTTTT
10467846 TTTAATTCTT
Statistics
Matches: 52, Mismatches: 11, Indels: 8
0.73 0.15 0.11
Matches are distributed among these distances:
17 8 0.15
18 10 0.19
19 15 0.29
20 19 0.37
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (18 bp):
TAACATTTTTATATTTTT
Found at i:10470802 original size:16 final size:16
Alignment explanation
Indices: 10470783--10470813 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10470773 TACACCCATA
*
10470783 TATATGTACATATTTT
1 TATATATACATATTTT
10470799 TATATATACATATTT
1 TATATATACATATTT
10470814 ATCGTTTCTT
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:0.35, C:0.06, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATATACATATTTT
Found at i:10482121 original size:45 final size:45
Alignment explanation
Indices: 10482057--10482296 Score: 138
Period size: 45 Copynumber: 5.6 Consensus size: 45
10482047 ATAATACAGG
10482057 TCTTATCTCCCTGAGATTACAGTGGAACGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACGACCAAAGAATTTCAGA
* * * *
10482102 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAG-ATAGT-A-A
1 TCTTATCTCCCTGAGATTACAGTGGAAC-GACCAAAGAAT-TTCAGA
* * * * **
10482146 TCCTATCTCCTTGAGATTACAATGG-A-G--C---GGATTAAAGGA
1 TCTTATCTCCCTGAGATTACAGTGGAACGACCAAAGAATTTCA-GA
* * * * *
10482185 TCGTATCTCTCTGA-AGTTACAGTAGAGAA-GATC--A-CA--TCAGG
1 TCTTATCTCCCTGAGA-TTACAGT-G-GAACGACCAAAGAATTTCAGA
*
10482226 TCTTATCT-CCTGAGACTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAAC-GACCAAAGAATTTCAGA
*
10482271 TCTTATCTCCCTGAGGTTACAGTGGA
1 TCTTATCTCCCTGAGATTACAGTGGA
10482297 GCAGATTGAA
Statistics
Matches: 146, Mismatches: 27, Indels: 43
0.68 0.12 0.20
Matches are distributed among these distances:
36 1 0.01
37 3 0.02
38 4 0.03
39 20 0.14
40 14 0.10
41 11 0.08
42 4 0.03
43 1 0.01
44 24 0.16
45 41 0.28
46 23 0.16
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (45 bp):
TCTTATCTCCCTGAGATTACAGTGGAACGACCAAAGAATTTCAGA
Found at i:10482327 original size:44 final size:43
Alignment explanation
Indices: 10482268--10482383 Score: 135
Period size: 44 Copynumber: 2.7 Consensus size: 43
10482258 AAAGAATTTC
* * *
10482268 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA
1 AGATCTCATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGACA
* *
10482311 GAGATCTCATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA
1 -AGATCTCATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGACA
** *
10482355 CTATC-CTATCTCCCTGAAGTTACAGTGGA
1 AGATCTC-ATCTCCCTGAGGTTACAGTGGA
10482384 ATGGATTAAA
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
42 1 0.02
43 22 0.36
44 38 0.62
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.24
Consensus pattern (43 bp):
AGATCTCATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGACA
Found at i:10484589 original size:16 final size:16
Alignment explanation
Indices: 10484570--10484600 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10484560 TACACCCATA
*
10484570 TATATGTACATATTTT
1 TATATATACATATTTT
10484586 TATATATACATATTT
1 TATATATACATATTT
10484601 ATCGTTTCTT
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:0.35, C:0.06, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATATACATATTTT
Found at i:10502049 original size:16 final size:16
Alignment explanation
Indices: 10502028--10502058 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10502018 CTAAAAAAGC
10502028 AATATATTATATAAAA
1 AATATATTATATAAAA
*
10502044 AATATATTTTATAAA
1 AATATATTATATAAA
10502059 GTTAAAATAC
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:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AATATATTATATAAAA
Found at i:10502375 original size:63 final size:63
Alignment explanation
Indices: 10502272--10502412 Score: 194
Period size: 63 Copynumber: 2.3 Consensus size: 63
10502262 TCACAATACG
* * * * * *
10502272 CACACGAAAT-ATTCCCCACATCAACACCTTCAGCTCCAGTTTATTTTACACAAGCATCACAT
1 CACACGCAATCATTCCCCACATCAACACATTCAACACCAGTTTATTTTACACAAGCACCACAA
* * *
10502334 CACACGCAATCATTCTCTACATCAACACATTCAACACCAGTTTATTTTCCACAAGCACCACAA
1 CACACGCAATCATTCCCCACATCAACACATTCAACACCAGTTTATTTTACACAAGCACCACAA
10502397 CACACGCAATCATTCC
1 CACACGCAATCATTCC
10502413 ATGTATCAAC
Statistics
Matches: 68, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
62 9 0.13
63 59 0.87
ACGTcount: A:0.35, C:0.35, G:0.06, T:0.24
Consensus pattern (63 bp):
CACACGCAATCATTCCCCACATCAACACATTCAACACCAGTTTATTTTACACAAGCACCACAA
Found at i:10507544 original size:47 final size:47
Alignment explanation
Indices: 10507493--10507582 Score: 119
Period size: 47 Copynumber: 1.9 Consensus size: 47
10507483 CACAGTTTGT
* *
10507493 CATTTGGCCACAATAT-ATATATACACTTTCACGTTCATCACATTGGC
1 CATTTGGCC-CAATATCATATATACACATTCACATTCATCACATTGGC
** *
10507540 CATTTGGCCTTATCTCATATATACACATTCACATTCATCACAT
1 CATTTGGCCCAATATCATATATACACATTCACATTCATCACAT
10507583 GAAATTCTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
46 3 0.08
47 34 0.92
ACGTcount: A:0.30, C:0.27, G:0.08, T:0.36
Consensus pattern (47 bp):
CATTTGGCCCAATATCATATATACACATTCACATTCATCACATTGGC
Found at i:10515252 original size:26 final size:26
Alignment explanation
Indices: 10515222--10515273 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
10515212 AATACTAAGA
* *
10515222 TAAATATTATTTATCTTAATGATAAT
1 TAAATAATATTTATATTAATGATAAT
*
10515248 TAAATAATATTTATATTTATGATAAT
1 TAAATAATATTTATATTAATGATAAT
10515274 ACTATTTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (26 bp):
TAAATAATATTTATATTAATGATAAT
Found at i:10516384 original size:16 final size:16
Alignment explanation
Indices: 10516363--10516394 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
10516353 TATTTTCTTC
10516363 CATTTACTTTCAAATA
1 CATTTACTTTCAAATA
10516379 CATTTACTTTCAAATA
1 CATTTACTTTCAAATA
10516395 GCACATGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.44
Consensus pattern (16 bp):
CATTTACTTTCAAATA
Found at i:10517250 original size:9 final size:9
Alignment explanation
Indices: 10517236--10517342 Score: 69
Period size: 10 Copynumber: 11.4 Consensus size: 9
10517226 CATGTAATAA
10517236 AAAAATTAT
1 AAAAATTAT
10517245 -AAAA--AT
1 AAAAATTAT
*
10517251 AAAAATCAAT
1 AAAAAT-TAT
*
10517261 AAAAGTTAT
1 AAAAATTAT
10517270 AAAAATTATT
1 AAAAATTA-T
*
10517280 AAAATTTAAT
1 AAAAATT-AT
10517290 AAAAA-TATT
1 AAAAATTA-T
10517299 AAAAATTATT
1 AAAAATTA-T
*
10517309 AAAAATTTGT
1 AAAAA-TTAT
*
10517319 AAAAATCATAA
1 AAAAAT--TAT
10517330 AAAAATTAT
1 AAAAATTAT
10517339 AAAA
1 AAAA
10517343 TGCATCAAAA
Statistics
Matches: 78, Mismatches: 9, Indels: 22
0.72 0.08 0.20
Matches are distributed among these distances:
6 2 0.03
7 4 0.05
8 5 0.06
9 23 0.29
10 34 0.44
11 10 0.13
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:10517261 original size:10 final size:10
Alignment explanation
Indices: 10517248--10517342 Score: 72
Period size: 10 Copynumber: 9.7 Consensus size: 10
10517238 AAATTATAAA
*
10517248 AATAAAAATC
1 AATAAAAATT
*
10517258 AATAAAAGTT
1 AATAAAAATT
10517268 -ATAAAAATT
1 AATAAAAATT
* *
10517277 ATTAAAATTT
1 AATAAAAATT
10517287 AATAAAAA-T
1 AATAAAAATT
*
10517296 ATTAAAAATT
1 AATAAAAATT
*
10517306 ATTAAAAATT
1 AATAAAAATT
**
10517316 TGTAAAAATCAT
1 AATAAAAAT--T
10517328 AA-AAAAATT
1 AATAAAAATT
10517337 -ATAAAA
1 AATAAAA
10517343 TGCATCAAAA
Statistics
Matches: 68, Mismatches: 12, Indels: 11
0.75 0.13 0.12
Matches are distributed among these distances:
8 1 0.01
9 21 0.31
10 39 0.57
11 6 0.09
12 1 0.01
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (10 bp):
AATAAAAATT
Found at i:10517273 original size:19 final size:18
Alignment explanation
Indices: 10517232--10517343 Score: 84
Period size: 19 Copynumber: 5.9 Consensus size: 18
10517222 GTCACATGTA
*
10517232 ATAAAAAAATTATAAAA--
1 ATAAAAATATTA-AAAATT
* *
10517249 ATAAAAATCAATAAAAGTT
1 ATAAAAAT-ATTAAAAATT
*
10517268 ATAAAAATTATTAAAATTT
1 ATAAAAA-TATTAAAAATT
10517287 AATAAAAATATTAAAAATT
1 -ATAAAAATATTAAAAATT
* *
10517306 ATTAAAAATTTGTAAAAATC
1 A-TAAAAATAT-TAAAAATT
*
10517326 ATAAAAAAATTATAAAAT
1 ATAAAAATATTA-AAAAT
10517344 GCATCAAAAA
Statistics
Matches: 77, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
17 10 0.13
18 6 0.08
19 45 0.58
20 16 0.21
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (18 bp):
ATAAAAATATTAAAAATT
Found at i:10517321 original size:29 final size:32
Alignment explanation
Indices: 10517267--10517342 Score: 99
Period size: 29 Copynumber: 2.5 Consensus size: 32
10517257 CAATAAAAGT
10517267 TATAAAAATTATT-AAAATTTAATAAAAAT-A
1 TATAAAAATTATTAAAAATTTAATAAAAATCA
*
10517297 T-TAAAAATTATTAAAAATTT-GTAAAAATCA
1 TATAAAAATTATTAAAAATTTAATAAAAATCA
*
10517327 TAAAAAAATTA-TAAAA
1 TATAAAAATTATTAAAA
10517343 TGCATCAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
29 18 0.44
30 15 0.37
31 8 0.20
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (32 bp):
TATAAAAATTATTAAAAATTTAATAAAAATCA
Found at i:10517582 original size:20 final size:19
Alignment explanation
Indices: 10517528--10517582 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 19
10517518 TGGTATGATA
*
10517528 ATTTTTATAATTAT-TTTAC
1 ATTTTTAT-ATTTTCTTTAC
*
10517547 GTATTTTATA-TTTCTTTAC
1 AT-TTTTATATTTTCTTTAC
10517566 ATTTTTATCATTTTCTT
1 ATTTTTAT-ATTTTCTT
10517583 ACAACTTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
18 8 0.28
19 9 0.31
20 12 0.41
ACGTcount: A:0.24, C:0.09, G:0.02, T:0.65
Consensus pattern (19 bp):
ATTTTTATATTTTCTTTAC
Found at i:10517649 original size:19 final size:19
Alignment explanation
Indices: 10517527--10517660 Score: 71
Period size: 19 Copynumber: 6.9 Consensus size: 19
10517517 TTGGTATGAT
10517527 AATTTTTATAATTATTTTAC
1 AATTTTTATAATT-TTTTAC
*
10517547 -GTATTTTAT-ATTTCTTTAC
1 AAT-TTTTATAATTT-TTTAC
*
10517566 -ATTTTTATCATTTTCTTAC
1 AATTTTTATAATTTT-TTAC
* * * *
10517585 AACTTTATAAAAGTTTATAC
1 AA-TTTTTATAATTTTTTAC
* *
10517605 AATTTTTCT-ATATTTCTA-
1 AATTTTTATAAT-TTTTTAC
*
10517623 TATATTTTATAATTTTTTAC
1 AAT-TTTTATAATTTTTTAC
*
10517643 GATTTTTATAATCTTTTT
1 AATTTTTATAAT-TTTTT
10517661 CTAACTTTTA
Statistics
Matches: 87, Mismatches: 16, Indels: 22
0.70 0.13 0.18
Matches are distributed among these distances:
18 11 0.13
19 46 0.53
20 21 0.24
21 9 0.10
ACGTcount: A:0.29, C:0.09, G:0.02, T:0.60
Consensus pattern (19 bp):
AATTTTTATAATTTTTTAC
Found at i:10518825 original size:21 final size:23
Alignment explanation
Indices: 10518800--10518851 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 23
10518790 ATAAATGATG
*
10518800 AAATTATAG-TTTGACCCTC-TA
1 AAATTATAGATTTAACCCTCTTA
*
10518821 AAATT-T-GATTTAATCCTCTTA
1 AAATTATAGATTTAACCCTCTTA
10518842 AAATTATAGA
1 AAATTATAGA
10518852 GATACATGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
19 1 0.04
20 9 0.36
21 12 0.48
22 1 0.04
23 2 0.08
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.40
Consensus pattern (23 bp):
AAATTATAGATTTAACCCTCTTA
Found at i:10527104 original size:8 final size:8
Alignment explanation
Indices: 10527083--10527140 Score: 89
Period size: 8 Copynumber: 7.1 Consensus size: 8
10527073 CATTCTTTAA
10527083 TTTAATTT
1 TTTAATTT
**
10527091 GGTAATTT
1 TTTAATTT
10527099 TTTAATTT
1 TTTAATTT
10527107 TTTAATTT
1 TTTAATTT
10527115 TTTAATTT
1 TTTAATTT
10527123 TTTAATTT
1 TTTAATTT
10527131 TTTAAATTT
1 TTT-AATTT
10527140 T
1 T
10527141 AGTCCTCACA
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
8 39 0.87
9 6 0.13
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (8 bp):
TTTAATTT
Found at i:10531832 original size:42 final size:42
Alignment explanation
Indices: 10531785--10531869 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
10531775 TTTAGTAGAG
10531785 AATTTGAAATTCCTAAGAAATTTATAAATTTGACAAATTCAT
1 AATTTGAAATTCCTAAGAAATTTATAAATTTGACAAATTCAT
10531827 AATTTGAAATTCCTAAGAAATTTATAAATTTGACAAATTCAT
1 AATTTGAAATTCCTAAGAAATTTATAAATTTGACAAATTCAT
10531869 A
1 A
10531870 CTTTTTATGC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.46, C:0.09, G:0.07, T:0.38
Consensus pattern (42 bp):
AATTTGAAATTCCTAAGAAATTTATAAATTTGACAAATTCAT
Found at i:10533760 original size:10 final size:10
Alignment explanation
Indices: 10533726--10533766 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
10533716 ATATGATAAT
10533726 ATAATATTAAA
1 ATAA-ATTAAA
10533737 ATAAA-TAAA
1 ATAAATTAAA
10533746 ATAAATTAAA
1 ATAAATTAAA
*
10533756 TTAAATTAAA
1 ATAAATTAAA
10533766 A
1 A
10533767 ATATTCTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
9 9 0.33
10 14 0.52
11 4 0.15
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (10 bp):
ATAAATTAAA
Found at i:10537066 original size:46 final size:48
Alignment explanation
Indices: 10537014--10537199 Score: 137
Period size: 53 Copynumber: 3.7 Consensus size: 48
10537004 CGCATCACAC
** * *
10537014 ACCGAAGCCATAGCCTTGCCATGGTCTTACACGG-TTCACA-TATCAT
1 ACCGAAGCCATAGCCCAGACATGGTCTTACACGGAATCACATTATCAT
* *
10537060 ACCGAAGCCATATCCCAGACATGGTCTTATACGGAATCACATTATCATATTAT
1 ACCGAAGCCATAGCCCAGACATGGTCTTACACGGAATCACATTATC-----AT
* * *
10537113 ACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAGTCACATTATCACATT
1 ACCGAAGCCATAGCCCAGAC-ATGGTCTTACACGGAATCACATTAT--CA-T
* *
10537164 GCACCGATGCCATAGCCCAG-CTATGGTCTTAAACGG
1 --ACCGAAGCCATAGCCCAGAC-ATGGTCTTACACGG
10537200 GCACACTTAT
Statistics
Matches: 117, Mismatches: 10, Indels: 19
0.80 0.07 0.13
Matches are distributed among these distances:
46 29 0.25
47 5 0.04
48 4 0.03
50 1 0.01
51 1 0.01
52 1 0.01
53 75 0.64
55 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (48 bp):
ACCGAAGCCATAGCCCAGACATGGTCTTACACGGAATCACATTATCAT
Found at i:10537130 original size:53 final size:53
Alignment explanation
Indices: 10537052--10537199 Score: 208
Period size: 53 Copynumber: 2.8 Consensus size: 53
10537042 ACACGGTTCA
* * *
10537052 CATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTAT
1 CATATTATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTAT
*
10537105 CATATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTAT
1 CATATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTAT
* ** *
10537158 CACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 CATATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
10537200 GCACACTTAT
Statistics
Matches: 86, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
52 1 0.01
53 85 0.99
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (53 bp):
CATATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTAT
Found at i:10542457 original size:48 final size:48
Alignment explanation
Indices: 10542386--10542479 Score: 179
Period size: 48 Copynumber: 2.0 Consensus size: 48
10542376 TAAATATTTA
10542386 TAAAAATATTCATGGTTCATTTTATAACACCGAGATATCGATACTTTT
1 TAAAAATATTCATGGTTCATTTTATAACACCGAGATATCGATACTTTT
*
10542434 TAAAAATATTTATGGTTCATTTTATAACACCGAGATATCGATACTT
1 TAAAAATATTCATGGTTCATTTTATAACACCGAGATATCGATACTT
10542480 GTTTTCTTAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (48 bp):
TAAAAATATTCATGGTTCATTTTATAACACCGAGATATCGATACTTTT
Found at i:10544056 original size:32 final size:32
Alignment explanation
Indices: 10544020--10544088 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 32
10544010 CCTTACAAAT
* *
10544020 TTGTAGCAAACG-GTCTATTTCGGTATTTAATA
1 TTGTAGCAAACGATTC-ATTTCGGTAATTAATA
*
10544052 TTGTAACAAACGATTCATTTCGGTAATTAATA
1 TTGTAGCAAACGATTCATTTCGGTAATTAATA
10544084 -TGTAG
1 TTGTAG
10544089 GGTGACCCAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
31 4 0.12
32 26 0.81
33 2 0.06
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.39
Consensus pattern (32 bp):
TTGTAGCAAACGATTCATTTCGGTAATTAATA
Found at i:10545934 original size:22 final size:21
Alignment explanation
Indices: 10545909--10545951 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
10545899 TAGTCACATA
10545909 ATAAATTATTAATATAATAAAT
1 ATAAATTATT-ATATAATAAAT
* *
10545931 ATAATTTATTATTTAATAAAT
1 ATAAATTATTATATAATAAAT
10545952 TATTTAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
ATAAATTATTATATAATAAAT
Found at i:10546563 original size:14 final size:14
Alignment explanation
Indices: 10546544--10546582 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
10546534 CCAGAAAAGT
10546544 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
10546558 AAATCATTTTCCGG
1 AAATCATTTTCCAG
*
10546572 AAGTCATTTTC
1 AAATCATTTTC
10546583 AGTGAAACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:10547085 original size:11 final size:11
Alignment explanation
Indices: 10547056--10547086 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
10547046 TATATATATT
*
10547056 TAAAAATGATA
1 TAAAAATTATA
10547067 TAAAAATTATA
1 TAAAAATTATA
10547078 TAAAAATTA
1 TAAAAATTA
10547087 ATACAGGCAG
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:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:10547344 original size:17 final size:19
Alignment explanation
Indices: 10547322--10547360 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
10547312 CATAATGATA
*
10547322 TATATAA-TATAT-TTTAT
1 TATATAATTACATATTTAT
10547339 TATATAATTACATATTTAT
1 TATATAATTACATATTTAT
10547358 TAT
1 TAT
10547361 TTTATTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 4 0.21
19 8 0.42
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (19 bp):
TATATAATTACATATTTAT
Found at i:10547396 original size:16 final size:17
Alignment explanation
Indices: 10547364--10547397 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
10547354 TTATTATTTT
10547364 ATTTATATAAATAAAAA
1 ATTTATATAAATAAAAA
*
10547381 ATTTAT-TAATTAAAAA
1 ATTTATATAAATAAAAA
10547397 A
1 A
10547398 AGGAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
ATTTATATAAATAAAAA
Found at i:10547871 original size:25 final size:25
Alignment explanation
Indices: 10547820--10547892 Score: 87
Period size: 25 Copynumber: 3.0 Consensus size: 25
10547810 TGAAATAAAT
* *
10547820 AATAAAAAGAGTAAAACATAA-GA-A
1 AATAAAAA-AGTAAAAGATAACAATA
10547844 AATAAAAAAGTAAAAGATAACAATA
1 AATAAAAAAGTAAAAGATAACAATA
* *
10547869 AATAGAAAAGAAAAAGATAACAAT
1 AATAAAAAAGTAAAAGATAACAAT
10547893 TTTTTATTGA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
23 11 0.26
24 9 0.21
25 23 0.53
ACGTcount: A:0.71, C:0.04, G:0.11, T:0.14
Consensus pattern (25 bp):
AATAAAAAAGTAAAAGATAACAATA
Found at i:10551006 original size:20 final size:22
Alignment explanation
Indices: 10550981--10551023 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
10550971 TGCTGTAAAT
*
10550981 TGAAAGTTTA-TAATAG-GAAA
1 TGAAAGGTTATTAATAGAGAAA
10551001 TGAAAGGTTATTAATAGAGAAA
1 TGAAAGGTTATTAATAGAGAAA
10551023 T
1 T
10551024 CACTTTTACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 9 0.45
21 6 0.30
22 5 0.25
ACGTcount: A:0.49, C:0.00, G:0.21, T:0.30
Consensus pattern (22 bp):
TGAAAGGTTATTAATAGAGAAA
Found at i:10551755 original size:33 final size:33
Alignment explanation
Indices: 10551718--10551811 Score: 120
Period size: 33 Copynumber: 2.9 Consensus size: 33
10551708 TGAAAATGTT
10551718 AGGTATACTTTGTGTATACCA-TATGAAAAGGAA
1 AGGTATACTTTGTGTATACCACT-TGAAAAGGAA
10551751 AGGTATACTTTGTGTATACCACTTGAAAAGGAA
1 AGGTATACTTTGTGTATACCACTTGAAAAGGAA
* * * * *
10551784 ATGTACACTATATGTGTA-CACTTGAAAA
1 AGGTATACTTTGTGTATACCACTTGAAAA
10551812 TGTTATGTGC
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
32 10 0.18
33 44 0.80
34 1 0.02
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (33 bp):
AGGTATACTTTGTGTATACCACTTGAAAAGGAA
Found at i:10551852 original size:33 final size:33
Alignment explanation
Indices: 10551757--10551912 Score: 127
Period size: 33 Copynumber: 4.8 Consensus size: 33
10551747 GGAAAGGTAT
* * **
10551757 ACTTTGTGTATACCACTTGAAAAGGAAATGTAC
1 ACTTTGTGTGTACAACTTGAAAAGGGTATGTAC
* * * * *
10551790 ACTATATGTGTAC-ACTTGAAAATGTTATGTGC
1 ACTTTGTGTGTACAACTTGAAAAGGGTATGTAC
*
10551822 ACTTTGTGTGTACAAATTGAAAAGGGTATGTAC
1 ACTTTGTGTGTACAACTTGAAAAGGGTATGTAC
* * * *
10551855 ACTTCGTGTGTACCAGTTGAAAAGGG-AGTGTGC
1 ACTTTGTGTGTACAACTTGAAAAGGGTA-TGTAC
* * * *
10551888 ACCTCGGGTGTACAACTAGAAAAGG
1 ACTTTGTGTGTACAACTTGAAAAGG
10551913 AAAGGTCAAT
Statistics
Matches: 99, Mismatches: 22, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
32 27 0.27
33 72 0.73
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.29
Consensus pattern (33 bp):
ACTTTGTGTGTACAACTTGAAAAGGGTATGTAC
Found at i:10552542 original size:30 final size:30
Alignment explanation
Indices: 10552506--10552620 Score: 135
Period size: 30 Copynumber: 3.8 Consensus size: 30
10552496 ACTTTTCTCA
*
10552506 ACTAGCCACACCTT-TTCCACCACCAACTCC
1 ACTAGCCACA-CTTGCTCCACCACCAACTCC
* *
10552536 ACTAGCCACACCTT-TTCCACCACCAAATCC
1 ACTAGCCACA-CTTGCTCCACCACCAACTCC
** *
10552566 ACTAGCCACACTTGCTCCATTACCTACTCC
1 ACTAGCCACACTTGCTCCACCACCAACTCC
*
10552596 ACTAACCACACTTGCTCCACCACCA
1 ACTAGCCACACTTGCTCCACCACCA
10552621 CTTGTACCTA
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
29 3 0.04
30 71 0.96
ACGTcount: A:0.28, C:0.47, G:0.04, T:0.21
Consensus pattern (30 bp):
ACTAGCCACACTTGCTCCACCACCAACTCC
Found at i:10553202 original size:25 final size:25
Alignment explanation
Indices: 10553174--10553333 Score: 74
Period size: 25 Copynumber: 6.1 Consensus size: 25
10553164 ATATTACGTA
* *
10553174 TATATATATTTTATACTATTTTATT
1 TATATATATTTAATACTATATTATT
* *
10553199 TATATATCTTTAATATTATATTATTTTT
1 TATATATATTTAATACTATATTA---TT
** *
10553227 ATATATATATTTTCTAC-ATGTTATCT
1 -TATATATATTTAATACTATATTAT-T
*
10553253 TATGTATATATCTT-A-ACTATATTATG
1 TA--TATATAT-TTAATACTATATTATT
* * * *
10553279 TATGTATTTTTAACACTATATTATG
1 TATATATATTTAATACTATATTATT
* * *
10553304 TACATATTTTTAATATTATCATGTATT
1 TATATATATTTAATACTAT-AT-TATT
10553331 TAT
1 TAT
10553334 TTTTTATATA
Statistics
Matches: 102, Mismatches: 20, Indels: 24
0.70 0.14 0.16
Matches are distributed among these distances:
23 2 0.02
24 6 0.06
25 48 0.47
26 7 0.07
27 18 0.18
28 9 0.09
29 12 0.12
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.57
Consensus pattern (25 bp):
TATATATATTTAATACTATATTATT
Found at i:10553202 original size:27 final size:27
Alignment explanation
Indices: 10553172--10553277 Score: 78
Period size: 27 Copynumber: 4.0 Consensus size: 27
10553162 TTATATTACG
10553172 TATATATATATTTTATACTATTTTATT
1 TATATATATATTTTATACTATTTTATT
* *
10553199 TATATATCT-TTAATATTA-TATTATT-TT
1 TATATATATATT-TTA-TACTATT-TTATT
* *
10553226 TATATATATATTTTCTAC-ATGTTATCT
1 TATATATATATTTTATACTATTTTAT-T
* * *
10553253 TATGTATATATCTTA-ACTATATTAT
1 TATATATATATTTTATACTATTTTAT
10553278 GTATGTATTT
Statistics
Matches: 61, Mismatches: 10, Indels: 16
0.70 0.11 0.18
Matches are distributed among these distances:
25 2 0.03
26 9 0.15
27 44 0.72
28 6 0.10
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.58
Consensus pattern (27 bp):
TATATATATATTTTATACTATTTTATT
Found at i:10553217 original size:16 final size:15
Alignment explanation
Indices: 10553184--10553239 Score: 55
Period size: 14 Copynumber: 3.7 Consensus size: 15
10553174 TATATATATT
10553184 TTATACTATTTT-AT-
1 TTATA-TATTTTAATA
10553198 TTATATATCTTTAATA
1 TTATATAT-TTTAATA
*
10553214 TTATATTATTTTTATA
1 TTATA-TATTTTAATA
10553230 -TATATATTTT
1 TTATATATTTT
10553240 CTACATGTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
13 3 0.08
14 14 0.38
15 6 0.16
16 11 0.30
17 3 0.08
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (15 bp):
TTATATATTTTAATA
Found at i:10553227 original size:17 final size:16
Alignment explanation
Indices: 10553184--10553237 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 16
10553174 TATATATATT
*
10553184 TTATACTAT-TTTAT-
1 TTATATTATCTTTATA
10553198 TTATA-TATCTTTAATA
1 TTATATTATCTTT-ATA
*
10553214 TTATATTATTTTTATA
1 TTATATTATCTTTATA
10553230 TATATATT
1 T-TATATT
10553238 TTCTACATGT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
13 3 0.09
14 8 0.24
15 2 0.06
16 9 0.26
17 12 0.35
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (16 bp):
TTATATTATCTTTATA
Found at i:10553334 original size:23 final size:24
Alignment explanation
Indices: 10553254--10553344 Score: 73
Period size: 23 Copynumber: 3.9 Consensus size: 24
10553244 ATGTTATCTT
*
10553254 ATGTATATA-TCTTAACTATAT-T-
1 ATGTATATATTTTTAA-TATATATC
* * *
10553276 ATGTATGTATTTTTAACACTATATT
1 ATGTATATATTTTTAATA-TATATC
*
10553301 ATGTACATATTTTTAATAT-TATC
1 ATGTATATATTTTTAATATATATC
* *
10553324 ATGTATTTATTTTTTATATAT
1 ATGTATATATTTTTAATATAT
10553345 GTACATATTG
Statistics
Matches: 54, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
22 9 0.17
23 27 0.50
24 3 0.06
25 15 0.28
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (24 bp):
ATGTATATATTTTTAATATATATC
Found at i:10553502 original size:17 final size:17
Alignment explanation
Indices: 10553461--10553509 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 17
10553451 ATATTAATTA
*
10553461 TTAT-TATTCTAATATT
1 TTATATATTTTAATATT
*
10553477 TT-GATATTTTAATATT
1 TTATATATTTTAATATT
*
10553493 TTATATATTTTATTATT
1 TTATATATTTTAATATT
10553510 CCCATCATTG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 15 0.56
17 12 0.44
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (17 bp):
TTATATATTTTAATATT
Found at i:10557349 original size:10 final size:10
Alignment explanation
Indices: 10557320--10557385 Score: 55
Period size: 10 Copynumber: 6.4 Consensus size: 10
10557310 GACAGTCATG
10557320 AAAAGAAA-A
1 AAAAGAAACA
10557329 AGAAA-AAACA
1 A-AAAGAAACA
10557339 AAAAGAAACA
1 AAAAGAAACA
*
10557349 AAAAGAAAAA
1 AAAAGAAACA
*
10557359 AAATAAAAGACA
1 AAA-AGAA-ACA
*
10557371 ATAAAAAAACA
1 A-AAAGAAACA
10557382 AAAA
1 AAAA
10557386 AGAGAGATCA
Statistics
Matches: 48, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
9 7 0.15
10 25 0.52
11 7 0.15
12 7 0.15
13 2 0.04
ACGTcount: A:0.83, C:0.06, G:0.08, T:0.03
Consensus pattern (10 bp):
AAAAGAAACA
Found at i:10557386 original size:10 final size:10
Alignment explanation
Indices: 10557331--10557386 Score: 60
Period size: 10 Copynumber: 5.3 Consensus size: 10
10557321 AAAGAAAAAG
10557331 AAAAAACAAA
1 AAAAAACAAA
*
10557341 AAGAAACAAA
1 AAAAAACAAA
10557351 AAGAAAA-AAA
1 AA-AAAACAAA
10557361 ATAAAAGACAATA
1 A-AAAA-ACAA-A
10557374 AAAAAACAAA
1 AAAAAACAAA
10557384 AAA
1 AAA
10557387 GAGAGATCAA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
10 22 0.56
11 9 0.23
12 6 0.15
13 2 0.05
ACGTcount: A:0.84, C:0.07, G:0.05, T:0.04
Consensus pattern (10 bp):
AAAAAACAAA
Found at i:10559583 original size:76 final size:76
Alignment explanation
Indices: 10559503--10559785 Score: 410
Period size: 75 Copynumber: 3.7 Consensus size: 76
10559493 TCCGTTTCAT
*
10559503 AATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTG
1 AATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTCTG
10559568 TCTTTCAAAAA
66 TCTTTCAAAAA
* * *
10559579 AATTCAACTCATAC-GACAATAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCGATTTCT
1 AATTCAACTCATACTG-CAAGAAGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTCT
*
10559643 GTCTTT-TAAAA
65 GTCTTTCAAAAA
* *
10559654 AATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATTTCTT
1 AATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTCTG
*
10559719 TCTTTCAAAAT
66 TCTTTCAAAAA
* * * * *
10559730 AA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTAATTTT
1 AATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACATTGAGGT-ATTTT
10559786 GATCTCCGTT
Statistics
Matches: 187, Mismatches: 16, Indels: 8
0.89 0.08 0.04
Matches are distributed among these distances:
75 111 0.59
76 76 0.41
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (76 bp):
AATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTCTG
TCTTTCAAAAA
Found at i:10559785 original size:151 final size:151
Alignment explanation
Indices: 10559503--10559785 Score: 435
Period size: 151 Copynumber: 1.9 Consensus size: 151
10559493 TCCGTTTCAT
* *
10559503 AATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTG
1 AATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATTTCTG
* **
10559568 TCTTTCAAAAAAATTCAACTCATACGACAATAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATT
66 TCTTTCAAAAAAATTCAACTCATACGACAAGAAGTGAGTTGAGCCTCAAGACACACTGAGGTATT
10559633 TTCGATTTCTGTCTTTTAAAA
131 TTCGATTTCTGTCTTTTAAAA
*
10559654 AATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATTTCTT
1 AATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATTTCTG
* * * * *
10559719 TCTTTCAAAATAA-TCAACTCATATTG-CGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTAA
66 TCTTTCAAAAAAATTCAACTCATA-CGACAAGAAGTGAGTTGAGCCTCAAGACACACTGAGGT-A
10559782 TTTT
129 TTTT
10559786 GATCTCCGTT
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
150 39 0.33
151 80 0.67
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (151 bp):
AATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATTTCTG
TCTTTCAAAAAAATTCAACTCATACGACAAGAAGTGAGTTGAGCCTCAAGACACACTGAGGTATT
TTCGATTTCTGTCTTTTAAAA
Found at i:10559944 original size:19 final size:19
Alignment explanation
Indices: 10559916--10559957 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
10559906 AGAAGTGAGT
10559916 TGAGCCTTAGCTCACGTGC
1 TGAGCCTTAGCTCACGTGC
*
10559935 TGAGCTTTAGCTCACGTGC
1 TGAGCCTTAGCTCACGTGC
10559954 TGAG
1 TGAG
10559958 TTATTTTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.17, C:0.26, G:0.29, T:0.29
Consensus pattern (19 bp):
TGAGCCTTAGCTCACGTGC
Found at i:10560219 original size:14 final size:14
Alignment explanation
Indices: 10560200--10560234 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
10560190 TGCTGAGGTC
*
10560200 TTTTCATTTTCTGT
1 TTTTCAATTTCTGT
10560214 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
*
10560228 CTTTCAA
1 TTTTCAA
10560235 AAAATTCAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.14, C:0.17, G:0.06, T:0.63
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:10560338 original size:89 final size:87
Alignment explanation
Indices: 10560125--10561075 Score: 630
Period size: 89 Copynumber: 10.7 Consensus size: 87
10560115 GCTAAGGTAA
* * * *
10560125 TTTCAATTTCTGCTTGTCAAAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCATC-GGCTCAC
1 TTTCAATTTCTG-TTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---AC
* *
10560189 ATGCTGAGGTCTTTTCATTTTCTGTT
62 ATGCTGAGGTATTTTCAATTTCTGTT
*
10560215 TTTCAATTTCTGTCTTTCAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAT
1 TTTCAATTTCTGT-TTTTAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAT
10560280 GCTGAGGTAATTTT-AATTTCTGTTT
64 GCTGAGGT-ATTTTCAATTTCTG-TT
* *
10560305 TCTTCAATTTATGTTTTTAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGG-CAT
1 T-TTCAATTTCTGTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGACAT
* *
10560369 GCTGAGGTAATTTCAATTTATGTT
64 GCTGAGGTATTTTCAATTTCTGTT
* * ** * * * *** ** * * * *
10560393 TTTCAATTTCTGCTTTT---CAAT-TTCT-GTTTTTC-A-A-AAAAAATCA-ACTCA-TA-TTGC
1 TTTCAATTTCTGTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGC
* *** *
10560447 GAGAGGTGAGTTGAGTCTCAGGACACACTGAGGTAA
66 -TGAGGT-A-TT---T-TCA--A-TTTCT---GT-T
* * *
10560483 TTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCAT
1 TTTCAATTTCTGTTT-T-TAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAT
* *
10560548 GCTGAGGTATTTTCGATTTCTGCT
64 GCTGAGGTATTTTCAATTTCTGTT
* * ** * *
10560572 TTCCAATTTCTACTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCAC
1 TTTCAATTTCT-GT-TTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAT
* *
10560637 GCTGAGGTATTTTCGATTTCTGCT
64 GCTGAGGTATTTTCAATTTCTGTT
* **
10560661 TTCCAATTTCTGCTCTTCAAAAAATATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTC
1 TTTCAATTTCTG-T-TTTTAAAAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---
* *
10560725 ACATGCTGAGGTCTTTTCAATTTTTGTT
60 ACATGCTGAGGTATTTTCAATTTCTGTT
** * *
10560753 TTTCAATTTCTGTTCGT-CAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGG-CACG
1 TTTCAATTTCTGTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGACATG
* **
10560816 TTGAGGTATTTTCAATTAATGTTT
65 CTGAGGTATTTTCAATTTCTG-TT
* * * * ** *
10560840 TTTCAATTTATGCTTTTCAAGAATCAACTCATATTATGAGAGGTGAGTTGAGCCTCGGGTCACAT
1 TTTCAATTTCTGTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACAT
* **
10560905 GCCGAGGTATTTTCAAAATCTGTT
64 GCTGAGGTATTTTCAATTTCTGTT
*** * * * ** * *
10560929 TGGAAAATTCTG-TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTTGCTCACGT
1 TTTCAATTTCTGTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACAT
*
10560993 GCTGAGCTATTTTTCAATTTCTGTT
64 GCTGAGGTA-TTTTCAATTTCTGTT
* * * **
10561018 TTT-AATATCTAGTTTTT-AAAAGTCAATTCATATTGCGAGAAATGAGTTGAG-CTCAGGA
1 TTTCAATTTCT-GTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
10561076 TCACACACTG
Statistics
Matches: 681, Mismatches: 125, Indels: 114
0.74 0.14 0.12
Matches are distributed among these distances:
76 3 0.00
77 6 0.01
78 4 0.01
79 4 0.01
80 1 0.00
81 1 0.00
82 5 0.01
83 5 0.01
84 3 0.00
85 1 0.00
86 22 0.03
87 31 0.05
88 132 0.19
89 233 0.34
90 114 0.17
91 46 0.07
92 35 0.05
93 2 0.00
94 1 0.00
95 3 0.00
96 4 0.01
97 5 0.01
98 1 0.00
99 1 0.00
100 5 0.01
101 5 0.01
102 5 0.01
103 3 0.00
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (87 bp):
TTTCAATTTCTGTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGC
TGAGGTATTTTCAATTTCTGTT
Found at i:10560386 original size:254 final size:251
Alignment explanation
Indices: 10560072--10560895 Score: 644
Period size: 268 Copynumber: 3.1 Consensus size: 251
10560062 TCTATTTTTT
* * * *
10560072 AAATCAACTCATATTGCGGGAGGTGAGTTAAGCCTCGGGGCACGCTAAGGTAATTTCAATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTAATTTCAATTTCTG
10560137 CTTGTCAAAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCATCGGCTCACATGCTGAGGTCTT
66 CTT-TCAAAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCATCGGCTCACATGCTGAGGTCTT
10560202 TTC-ATTTTCTGTTTTTCAATTTCTGTCTTTCAAAAAATTCAACTCATATTGCGAGAGGTGAGTT
130 TTCAATTTTCTGTTTTTCAATTTCTGT-TTTCAAAAAA-TCAACTCATATTGCGAGAGGTGAGTT
10560266 GAGCCTCAGGACATGCTGAGGTAATTTT-AATTTCTGTTTTCTTCAATTTATGTTTTTAAA
193 GAGCCTCAGG-CATGCTGAGGT-ATTTTCAATTTCTGTTTTCTTCAATTTATGTTTTTAAA
* * * *
10560326 AAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCATGCTGAGGTAATTTCAATTTATG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTAATTTCAATTTCTG
* **** *** * * **** * *** ** ** * *
10560391 TTTTTCAATTTCTGCTTTTCAATTTC-TG-TTTTTCA-AAAAAAATCAACTCATATTGCGAGAGG
66 -CTTTCAAAAAAT-CAACTC-ATATCGCGAGAGGTGAGTTGAGCATCGGCTCACA-TGC-TGAGG
* **** * *
10560453 TGAGTTGAGTCTCAGGACACACTGAGGTAATTTCAATTTATGTTTGTCAAAAAAATCAACTCATA
126 T--CTT---T-TCA--ATTTTCT---GT-TTTTCAATTTCTGTTT-TC-AAAAAATCAACTCATA
* *
10560518 TTGCGAGAGGTGAGTTGAGCCTCAGGGCATGCTGAGGTATTTTCGATTTCTGCTTTC--CAATTT
177 TTGCGAGAGGTGAGTTGAGCCTCA-GGCATGCTGAGGTATTTTCAATTTCTGTTTTCTTCAATTT
* * **
10560581 CTACTCTTCAAAA
241 AT-GT-TTTTAAA
10560594 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCGATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTA------A------
* *
10560659 CTTTCCAATTTCTGCTCTTCAAAAAATATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCT
54 -TTT-CAATTTCTGCT-TTC-AAAAA-ATCAACTCATATCGCGAGAGGTGAGTTGAGCATCGGCT
*
10560724 CACATGCTGAGGTCTTTTCAATTTT-TGTTTTTCAATTTCTGTTCGTC--AAAATCAACTCATAT
114 CACATGCTGAGGTCTTTTCAATTTTCTGTTTTTCAATTTCTGTT-TTCAAAAAATCAACTCATAT
* * **
10560786 TGCGAGAGGTGAGTTGAGCCTCGAGGCACGTTGAGGTATTTTCAATTAATGTTTT-TTCAATTTA
178 TGCGAGAGGTGAGTTGAGCCTC-AGGCATGCTGAGGTATTTTCAATTTCTGTTTTCTTCAATTTA
* *
10560850 TGCTTTTCAA
242 TGTTTTTAAA
* **
10560860 GAATCAACTCATATTATGAGAGGTGAGTTGAGCCTC
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
10560896 GGGTCACATG
Statistics
Matches: 424, Mismatches: 98, Indels: 84
0.70 0.16 0.14
Matches are distributed among these distances:
253 9 0.02
254 67 0.16
255 11 0.03
256 4 0.01
257 2 0.00
260 1 0.00
261 2 0.00
264 3 0.01
266 44 0.10
267 72 0.17
268 132 0.31
269 8 0.02
270 15 0.04
271 2 0.00
274 2 0.00
275 1 0.00
277 3 0.01
278 1 0.00
281 6 0.01
282 14 0.03
283 11 0.03
284 6 0.01
285 8 0.02
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (251 bp):
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTAATTTCAATTTCTG
CTTTCAAAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCATCGGCTCACATGCTGAGGTCTTT
TCAATTTTCTGTTTTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
CCTCAGGCATGCTGAGGTATTTTCAATTTCTGTTTTCTTCAATTTATGTTTTTAAA
Found at i:10560398 original size:14 final size:14
Alignment explanation
Indices: 10560379--10560426 Score: 78
Period size: 14 Copynumber: 3.4 Consensus size: 14
10560369 GCTGAGGTAA
*
10560379 TTTCAATTTATGTT
1 TTTCAATTTCTGTT
*
10560393 TTTCAATTTCTGCT
1 TTTCAATTTCTGTT
10560407 TTTCAATTTCTGTT
1 TTTCAATTTCTGTT
10560421 TTTCAA
1 TTTCAA
10560427 AAAAAATCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.19, C:0.15, G:0.06, T:0.60
Consensus pattern (14 bp):
TTTCAATTTCTGTT
Found at i:10560478 original size:104 final size:103
Alignment explanation
Indices: 10560290--10560502 Score: 299
Period size: 104 Copynumber: 2.1 Consensus size: 103
10560280 GCTGAGGTAA
* *
10560290 TTTT-AATTTCTGTTTTCTTCAATTTATGTTTTTAAAAAATCAGCTCATATTGCGAGAGGTGAGT
1 TTTTCAATTTCTGTCTTCTTCAATTTATGTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGT
**
10560354 TGAGCCTCAAGGCATGCTGAGGTAATTTCAATTTATGT
66 TGAGCCTCAAGGCACACTGAGGTAATTTCAATTTATGT
*
10560392 TTTTCAATTTCTG-CTT-TTCAATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTG
1 TTTTCAATTTCTGTCTTCTTCAATTTATGTTTTT---AAAAAATCAACTCATATTGCGAGAGGTG
*
10560455 AGTTGAGTCTC-AGGACACACTGAGGTAATTTCAATTTATGT
63 AGTTGAGCCTCAAGG-CACACTGAGGTAATTTCAATTTATGT
*
10560496 TTGTCAA
1 TTTTCAA
10560503 AAAAATCAAC
Statistics
Matches: 99, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
101 15 0.15
102 6 0.06
103 11 0.11
104 67 0.68
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (103 bp):
TTTTCAATTTCTGTCTTCTTCAATTTATGTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGT
TGAGCCTCAAGGCACACTGAGGTAATTTCAATTTATGT
Found at i:10560523 original size:75 final size:76
Alignment explanation
Indices: 10560407--10560566 Score: 241
Period size: 75 Copynumber: 2.1 Consensus size: 76
10560397 AATTTCTGCT
* * *
10560407 TTTCAATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGGACA
1 TTTCAATTTATGTTTGTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
10560472 CACTGAGGTAA
66 CACTGAGGTAA
*
10560483 TTTCAATTTATGTTTGTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
1 TTTCAATTTATGTTTGTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
** *
10560547 TGCTGAGGTAT
66 CACTGAGGTAA
*
10560558 TTTCGATTT
1 TTTCAATTT
10560567 CTGCTTTCCA
Statistics
Matches: 76, Mismatches: 8, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
75 60 0.79
76 16 0.21
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (76 bp):
TTTCAATTTATGTTTGTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
CACTGAGGTAA
Found at i:10560920 original size:176 final size:177
Alignment explanation
Indices: 10560125--10560982 Score: 775
Period size: 176 Copynumber: 4.8 Consensus size: 177
10560115 GCTAAGGTAA
* * * * *
10560125 TTTCAATTTCTGCTTGTCAAAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCATCGGCTCACA
1 TTTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA
* * *
10560190 TGCTGAGGTCTTTTCATTTTCTGTTTTTCAATTTCTG-TCTTTCAAAAAATTCAACTCATATTGC
66 TGCTGAGGTATTTTCAATTTCTGTTTTCCAATTTCTGTTC-TTC-AAAAA-TCAACTCATATTGC
* * ** *
10560254 GAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATTTT-AATTTCTGTTT
128 GAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGT-ATTTTCAATTAATG-CT
* * *
10560305 TCTTCAATTTATG-TTTTTAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGG---
1 T-TTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGTCA
*
10560366 CATGCTGAGGTAATTTCAATTTATGTTTTTCAATTTCTGCTTTT-CAATTTCTGTTTTTCAAAAA
64 CATGCTGAGG-----------TA---TTTTCAATTTCTG-TTTTCCAATTTCTGTTCTTC---AA
* * *
10560430 AAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGGACACACTGAGG----------TAA--
111 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTAATG
10560483 --
176 CT
10560483 TTTCAATTTATG-TTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGG--
1 TTTCAATTTATGCTTT-TC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGTC
* * **
10560545 -CATGCTGAGGTATTTTCGATTTCTGCTTTCCAATTTCTACTCTTCAAAAAAATCAACTCATATT
63 ACATGCTGAGGTATTTTCAATTTCTGTTTTCCAATTTCTGTTCTTC--AAAAATCAACTCATATT
* **
10560609 GCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCGATTTCTGCT
126 GCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTAATGCT
* * * *
10560661 TTCCAATTTCTGCTCTTCAAAAAATATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCA
1 TTTCAATTTATGCTTTTC-AAAAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA
* * * *
10560726 CATGCTGAGGTCTTTTCAATTTTTGTTTTTCAATTTCTGTTCGTC-AAAATCAACTCATATTGCG
64 CATGCTGAGGTATTTTCAATTTCTGTTTTCCAATTTCTGTTCTTCAAAAATCAACTCATATTGCG
* *
10560790 AGAGGTGAGTTGAGCCTC-GAGGCACGTTGAGGTATTTTCAATTAATGTTT
129 AGAGGTGAGTTGAGCCTCAG-GGCACGCTGAGGTATTTTCAATTAATG-CT
* **
10560840 TTTCAATTTATGCTTTTC-AAGAATCAACTCATATTATGAGAGGTGAGTTGAGCCTCGGGTCACA
1 TTTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA
* ** *** *
10560904 TGCCGAGGTATTTTCAAAATCTGTTTGGAAAATTCTGTT-TTCAAAAATCAACTCATATTGCGAG
66 TGCTGAGGTATTTTCAATTTCTGTTTTCCAATTTCTGTTCTTCAAAAATCAACTCATATTGCGAG
*
10560968 AAGTGAGTTGAGCCT
131 AGGTGAGTTGAGCCT
10560983 TTGCTCACGT
Statistics
Matches: 569, Mismatches: 64, Indels: 94
0.78 0.09 0.13
Matches are distributed among these distances:
164 54 0.09
165 24 0.04
168 2 0.00
174 1 0.00
175 2 0.00
176 104 0.18
177 18 0.03
178 92 0.16
179 103 0.18
180 40 0.07
181 48 0.08
183 1 0.00
189 1 0.00
192 24 0.04
193 49 0.09
194 6 0.01
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (177 bp):
TTTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA
TGCTGAGGTATTTTCAATTTCTGTTTTCCAATTTCTGTTCTTCAAAAATCAACTCATATTGCGAG
AGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTAATGCT
Found at i:10561239 original size:37 final size:37
Alignment explanation
Indices: 10561189--10561270 Score: 137
Period size: 37 Copynumber: 2.2 Consensus size: 37
10561179 TCTAAAGTGG
10561189 CAGAAGAGAAGACCAAAACCTTATCTCACGGAAGCAA
1 CAGAAGAGAAGACCAAAACCTTATCTCACGGAAGCAA
* *
10561226 CAGAAGAGAAGACCAAAACCTTATCTCACTGAAGCGA
1 CAGAAGAGAAGACCAAAACCTTATCTCACGGAAGCAA
*
10561263 TAGAAGAG
1 CAGAAGAG
10561271 CAGATTGAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.45, C:0.22, G:0.21, T:0.12
Consensus pattern (37 bp):
CAGAAGAGAAGACCAAAACCTTATCTCACGGAAGCAA
Found at i:10561775 original size:30 final size:30
Alignment explanation
Indices: 10561739--10561911 Score: 213
Period size: 30 Copynumber: 5.8 Consensus size: 30
10561729 ACTTTTCTCA
*
10561739 ACTAGCCACACTTTTTCCACCACCAACTCC
1 ACTAGCCACACTTTCTCCACCACCAACTCC
10561769 ACTAGCCACACCTTT-TCCACCACCAACTCC
1 ACTAGCCACA-CTTTCTCCACCACCAACTCC
* * * *
10561799 ACTAGCCACTCTTTTTTCACCACCAACTCT
1 ACTAGCCACACTTTCTCCACCACCAACTCC
* *
10561829 ACTAGCCACACCTTCTCCACCACCAAATCC
1 ACTAGCCACACTTTCTCCACCACCAACTCC
* ** *
10561859 ACTAGCCACACTTGCTCCATTACCTACTCC
1 ACTAGCCACACTTTCTCCACCACCAACTCC
* *
10561889 ACTAACCACACTTGCTCCACCAC
1 ACTAGCCACACTTTCTCCACCAC
10561912 TACTTTACCT
Statistics
Matches: 123, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
29 4 0.03
30 115 0.93
31 4 0.03
ACGTcount: A:0.27, C:0.46, G:0.04, T:0.23
Consensus pattern (30 bp):
ACTAGCCACACTTTCTCCACCACCAACTCC
Found at i:10562414 original size:23 final size:22
Alignment explanation
Indices: 10562388--10562515 Score: 82
Period size: 23 Copynumber: 5.5 Consensus size: 22
10562378 TTTTTTTTGT
10562388 TATTATTATATTTCTTAATATTA
1 TATTATTATATTT-TTAATATTA
10562411 TATTATATATATTCTTTTAATA-TA
1 TATTAT-TATA-T-TTTTAATATTA
* * * *
10562435 T-TAAGTATATTTTAAATTTTA
1 TATTATTATATTTTTAATATTA
*
10562456 TATTACGTATATATATTTT-ATACTA
1 TATTA--T-TATAT-TTTTAATATTA
* *
10562481 TTTTATTTATATCTTTAATATTA
1 TATTA-TTATATTTTTAATATTA
10562504 TATTATTTATAT
1 TATTA-TTATAT
10562516 ATATATATTT
Statistics
Matches: 81, Mismatches: 14, Indels: 20
0.70 0.12 0.17
Matches are distributed among these distances:
20 6 0.07
21 4 0.05
22 9 0.11
23 29 0.36
24 8 0.10
25 20 0.25
26 5 0.06
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (22 bp):
TATTATTATATTTTTAATATTA
Found at i:10562515 original size:48 final size:45
Alignment explanation
Indices: 10562388--10562519 Score: 124
Period size: 48 Copynumber: 2.8 Consensus size: 45
10562378 TTTTTTTTGT
*
10562388 TATT-ATTATATTTCTTAATATTATATTATATATAT-TCTTTTAATA
1 TATTAATTATA-TT-TTAATATTATATTATATATATATATTTTAATA
* * **
10562433 TATTAAGTATATTTTAAATTTTATATTACGTATATATATTTTATACTA
1 TATTAATTATATTTT-AATATTATATTATATATATATATTTTA-A-TA
* * *
10562481 TTTTATTTATATCTTTAATATTATATTATTTATATATAT
1 TATTAATTATAT-TTTAATATTATATTATATATATATAT
10562520 ATATTTTTTT
Statistics
Matches: 70, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
44 2 0.03
45 22 0.31
46 11 0.16
47 1 0.01
48 31 0.44
49 3 0.04
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.59
Consensus pattern (45 bp):
TATTAATTATATTTTAATATTATATTATATATATATATTTTAATA
Found at i:10562591 original size:25 final size:25
Alignment explanation
Indices: 10562538--10562629 Score: 86
Period size: 25 Copynumber: 3.9 Consensus size: 25
10562528 TTTCTACATG
* *
10562538 CTATCTTATGTATATA-TCTT-A-A
1 CTATATTATGTATATATTTTTAACA
*
10562560 CTATATTATGTATGTATTTTTAACA
1 CTATATTATGTATATATTTTTAACA
* *
10562585 CTATATTATGTACATATTTTTAATA
1 CTATATTATGTATATATTTTTAACA
* *
10562610 -T-TATCATGTATTTATTTTTA
1 CTATATTATGTATATATTTTTA
10562630 TATATGTACA
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
22 14 0.24
23 19 0.33
24 2 0.03
25 23 0.40
ACGTcount: A:0.32, C:0.09, G:0.05, T:0.54
Consensus pattern (25 bp):
CTATATTATGTATATATTTTTAACA
Found at i:10562625 original size:23 final size:24
Alignment explanation
Indices: 10562545--10562634 Score: 73
Period size: 23 Copynumber: 3.9 Consensus size: 24
10562535 ATGCTATCTT
*
10562545 ATGTATATA-TCTTAACTATAT-T-
1 ATGTATATATTTTTAA-TATATATC
* * *
10562567 ATGTATGTATTTTTAACACTATATT
1 ATGTATATATTTTTAATA-TATATC
*
10562592 ATGTACATATTTTTAATAT-TATC
1 ATGTATATATTTTTAATATATATC
*
10562615 ATGTATTTATTTTT-ATATAT
1 ATGTATATATTTTTAATATAT
10562635 GTACATATTG
Statistics
Matches: 54, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
22 13 0.24
23 24 0.44
24 2 0.04
25 15 0.28
ACGTcount: A:0.33, C:0.07, G:0.06, T:0.54
Consensus pattern (24 bp):
ATGTATATATTTTTAATATATATC
Found at i:10562780 original size:16 final size:15
Alignment explanation
Indices: 10562756--10562803 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
10562746 TAATTATTAT
*
10562756 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
10562772 TATTTTAATATTTTA
1 TATTTTAATATTTTA
10562787 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
10562803 T
1 T
10562804 TATTCCCATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:10562791 original size:7 final size:8
Alignment explanation
Indices: 10562756--10562807 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
10562746 TAATTATTAT
*
10562756 TATTCTAA
1 TATTTTAA
*
10562764 TATTTTGA
1 TATTTTAA
10562772 TATTTTAA
1 TATTTTAA
10562780 TATTTT-A
1 TATTTTAA
10562787 TATTTTATA
1 TATTTTA-A
*
10562796 TATTTTAT
1 TATTTTAA
10562804 TATT
1 TATT
10562808 CCCATCATTG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:10588546 original size:42 final size:42
Alignment explanation
Indices: 10588486--10588594 Score: 148
Period size: 42 Copynumber: 2.6 Consensus size: 42
10588476 CATGTTTTAC
* * *
10588486 TTTTTGTTTATCTTTTTCGAGCTTCTGTTCTACTCTTATGAG
1 TTTTTGTTTAGCTCTTTCGAGCTTCTGTTCAACTCTTATGAG
* *
10588528 TTTTTATTTAGCTCTTTCGAGCTTCTGTTCAATTCTTATGAG
1 TTTTTGTTTAGCTCTTTCGAGCTTCTGTTCAACTCTTATGAG
* *
10588570 TTTCTGTTTAGC-CCTTCGAGCTTCT
1 TTTTTGTTTAGCTCTTTCGAGCTTCT
10588595 ATTTAACTTT
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
41 12 0.20
42 47 0.80
ACGTcount: A:0.13, C:0.19, G:0.15, T:0.53
Consensus pattern (42 bp):
TTTTTGTTTAGCTCTTTCGAGCTTCTGTTCAACTCTTATGAG
Found at i:10593031 original size:102 final size:102
Alignment explanation
Indices: 10592911--10593118 Score: 389
Period size: 102 Copynumber: 2.0 Consensus size: 102
10592901 TTAAATGTAA
* *
10592911 ATTTTATATGTTAGATATGTCACGATTACACAATATAAATATAACATGAAAAAAACATACACGCA
1 ATTTTATATGTTAAATATGTCACGATTACACAATATAAACATAACATGAAAAAAACATACACGCA
10592976 ACACGAATACATTATTCATATTTAAGTTGGAAGCATG
66 ACACGAATACATTATTCATATTTAAGTTGGAAGCATG
10593013 ATTTTATATGTTAAATATGTCACGATTACACAATATAAACATAACATGAAAAAAACATACACGCA
1 ATTTTATATGTTAAATATGTCACGATTACACAATATAAACATAACATGAAAAAAACATACACGCA
*
10593078 ACACGAATACATTATTCATATTTAAGTTGGAAGTATG
66 ACACGAATACATTATTCATATTTAAGTTGGAAGCATG
10593115 ATTT
1 ATTT
10593119 AATTATTAGT
Statistics
Matches: 103, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
102 103 1.00
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.31
Consensus pattern (102 bp):
ATTTTATATGTTAAATATGTCACGATTACACAATATAAACATAACATGAAAAAAACATACACGCA
ACACGAATACATTATTCATATTTAAGTTGGAAGCATG
Found at i:10596254 original size:22 final size:22
Alignment explanation
Indices: 10596229--10596316 Score: 128
Period size: 22 Copynumber: 4.0 Consensus size: 22
10596219 ACAAAAGGTG
*
10596229 ACTTAGAAATTAATTTAATTTT
1 ACTTAGAAATTAAATTAATTTT
10596251 ACTTAGAAATTAAATTAATTTT
1 ACTTAGAAATTAAATTAATTTT
10596273 ACTTAGAAATTAAATTAATTTT
1 ACTTAGAAATTAAATTAATTTT
10596295 A-TT-G-AATTATTAATTAATTTT
1 ACTTAGAAATTA--AATTAATTTT
10596316 A
1 A
10596317 ATTATAGAAG
Statistics
Matches: 63, Mismatches: 1, Indels: 5
0.91 0.01 0.07
Matches are distributed among these distances:
19 5 0.08
20 1 0.02
21 13 0.21
22 44 0.70
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (22 bp):
ACTTAGAAATTAAATTAATTTT
Found at i:10600383 original size:58 final size:58
Alignment explanation
Indices: 10600293--10600407 Score: 212
Period size: 58 Copynumber: 2.0 Consensus size: 58
10600283 TTTGAAGGTA
10600293 AAAAGGATCTAGCCCAGATGAGTGATCCTGATATAAGCCCTCCCGAAGAATATGTGTT
1 AAAAGGATCTAGCCCAGATGAGTGATCCTGATATAAGCCCTCCCGAAGAATATGTGTT
* *
10600351 AAAAGGATCTAGCCCAGATGGGTGATCTTGATATAAGCCCTCCCGAAGAATATGTGT
1 AAAAGGATCTAGCCCAGATGAGTGATCCTGATATAAGCCCTCCCGAAGAATATGTGT
10600408 GAAATAGATT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.24
Consensus pattern (58 bp):
AAAAGGATCTAGCCCAGATGAGTGATCCTGATATAAGCCCTCCCGAAGAATATGTGTT
Found at i:10606340 original size:10 final size:10
Alignment explanation
Indices: 10606325--10606361 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
10606315 ATTTTGATTA
10606325 TTTATCTTAT
1 TTTATCTTAT
10606335 TTTATCTTAT
1 TTTATCTTAT
*
10606345 TTTATTTTAT
1 TTTATCTTAT
10606355 TTT-TCTT
1 TTTATCTT
10606362 TTATTAAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 3 0.12
10 22 0.88
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTATCTTAT
Found at i:10606349 original size:15 final size:14
Alignment explanation
Indices: 10606322--10606361 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
10606312 AAAATTTTGA
10606322 TTATTTATCTTATT
1 TTATTTATCTTATT
*
10606336 TTATCTTATTTTATT
1 TTAT-TTATCTTATT
*
10606351 TTATTTTTCTT
1 TTATTTATCTT
10606362 TTATTAAGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.75
Consensus pattern (14 bp):
TTATTTATCTTATT
Found at i:10610136 original size:37 final size:37
Alignment explanation
Indices: 10610086--10610159 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
10610076 TACAAATCGT
10610086 AATTCTCAGATTACTCTCCGTCAACCTTCTTTTTTCC
1 AATTCTCAGATTACTCTCCGTCAACCTTCTTTTTTCC
* *
10610123 AATTCTCGGATTACTCTTCGTCAACCTTCTTTTTTCC
1 AATTCTCAGATTACTCTCCGTCAACCTTCTTTTTTCC
10610160 TTTCTTTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.18, C:0.31, G:0.07, T:0.45
Consensus pattern (37 bp):
AATTCTCAGATTACTCTCCGTCAACCTTCTTTTTTCC
Found at i:10610803 original size:23 final size:24
Alignment explanation
Indices: 10610751--10610804 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 24
10610741 TTTCTTTTAC
* * *
10610751 TTATT-TTATGTTTTATTATATTA
1 TTATTATTATATTTTAGTATATAA
10610774 TTA-TATTATATTTTAGTA-ATAA
1 TTATTATTATATTTTAGTATATAA
10610796 TTATTATTA
1 TTATTATTA
10610805 ACTTAAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 7 0.27
23 19 0.73
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (24 bp):
TTATTATTATATTTTAGTATATAA
Found at i:10615620 original size:16 final size:16
Alignment explanation
Indices: 10615562--10615622 Score: 59
Period size: 17 Copynumber: 3.7 Consensus size: 16
10615552 GTTTGCAATA
* *
10615562 ACATGAGTTCGCATTT
1 ACATGGGTTCGCATAT
*
10615578 ATCATGGGTTCACATAT
1 A-CATGGGTTCGCATAT
*
10615595 AACATGGGTTCGCATGT
1 -ACATGGGTTCGCATAT
*
10615612 ACATTGGTTCG
1 ACATGGGTTCG
10615623 TACAATATAT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
16 11 0.30
17 25 0.68
18 1 0.03
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (16 bp):
ACATGGGTTCGCATAT
Found at i:10616300 original size:26 final size:26
Alignment explanation
Indices: 10616271--10616333 Score: 126
Period size: 26 Copynumber: 2.4 Consensus size: 26
10616261 GATTTGTATA
10616271 ATTTTCTCTTTAGATTTAATCTTTAG
1 ATTTTCTCTTTAGATTTAATCTTTAG
10616297 ATTTTCTCTTTAGATTTAATCTTTAG
1 ATTTTCTCTTTAGATTTAATCTTTAG
10616323 ATTTTCTCTTT
1 ATTTTCTCTTT
10616334 CTTAGGTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.21, C:0.13, G:0.06, T:0.60
Consensus pattern (26 bp):
ATTTTCTCTTTAGATTTAATCTTTAG
Found at i:10616332 original size:13 final size:13
Alignment explanation
Indices: 10616271--10616333 Score: 90
Period size: 13 Copynumber: 4.8 Consensus size: 13
10616261 GATTTGTATA
10616271 ATTTTCTCTTTAG
1 ATTTTCTCTTTAG
**
10616284 ATTTAATCTTTAG
1 ATTTTCTCTTTAG
10616297 ATTTTCTCTTTAG
1 ATTTTCTCTTTAG
**
10616310 ATTTAATCTTTAG
1 ATTTTCTCTTTAG
10616323 ATTTTCTCTTT
1 ATTTTCTCTTT
10616334 CTTAGGTTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 42 1.00
ACGTcount: A:0.21, C:0.13, G:0.06, T:0.60
Consensus pattern (13 bp):
ATTTTCTCTTTAG
Found at i:10618163 original size:18 final size:19
Alignment explanation
Indices: 10618137--10618172 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
10618127 GTTTAATGAA
10618137 AATAAAAGAAA-GAAACAT
1 AATAAAAGAAACGAAACAT
*
10618155 AATAGAAGAAACGAAACA
1 AATAAAAGAAACGAAACA
10618173 AAGAAGGAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.69, C:0.08, G:0.14, T:0.08
Consensus pattern (19 bp):
AATAAAAGAAACGAAACAT
Found at i:10618202 original size:17 final size:16
Alignment explanation
Indices: 10618158--10618203 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
10618148 GAAACATAAT
* *
10618158 AGAAGAAACGAAACAA
1 AGAAGAAAGGAAAAAA
*
10618174 AGAAGGAAGGAAAAAA
1 AGAAGAAAGGAAAAAA
10618190 AGATAGAAAGGAAA
1 AGA-AGAAAGGAAA
10618204 GAAGAAAAGG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
16 16 0.64
17 9 0.36
ACGTcount: A:0.67, C:0.04, G:0.26, T:0.02
Consensus pattern (16 bp):
AGAAGAAAGGAAAAAA
Found at i:10618468 original size:15 final size:17
Alignment explanation
Indices: 10618448--10618486 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
10618438 AATTCGATTT
10618448 AATTCAATCA-ATA-TA
1 AATTCAATCACATACTA
10618463 AATTC-ATCACATACTA
1 AATTCAATCACATACTA
10618479 AATT-AATC
1 AATTCAATC
10618487 CATTTCCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 4 0.19
15 8 0.38
16 9 0.43
ACGTcount: A:0.49, C:0.18, G:0.00, T:0.33
Consensus pattern (17 bp):
AATTCAATCACATACTA
Found at i:10619219 original size:18 final size:16
Alignment explanation
Indices: 10619136--10619220 Score: 50
Period size: 16 Copynumber: 5.2 Consensus size: 16
10619126 AATTTTCCCT
*
10619136 TTTCTTCTTTCCTTTC
1 TTTCTTCTTTTCTTTC
* *
10619152 TATCTT-TTTT-TTCC
1 TTTCTTCTTTTCTTTC
* *
10619166 TTCCTTC-TTTGTTTC
1 TTTCTTCTTTTCTTTC
*
10619181 GTTTCTTCTATTCTGTATC
1 -TTTCTTCTTTTCT-T-TC
10619200 TTTCCTTCTTTTTCTTTC
1 TTT-CTTC-TTTTCTTTC
10619218 TTT
1 TTT
10619221 TATTTTCATT
Statistics
Matches: 51, Mismatches: 10, Indels: 14
0.68 0.13 0.19
Matches are distributed among these distances:
14 10 0.20
15 6 0.12
16 11 0.22
17 3 0.06
18 9 0.18
19 7 0.14
20 5 0.10
ACGTcount: A:0.04, C:0.25, G:0.04, T:0.68
Consensus pattern (16 bp):
TTTCTTCTTTTCTTTC
Found at i:10626223 original size:13 final size:13
Alignment explanation
Indices: 10626205--10626230 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10626195 CTACAACCCT
10626205 TGAATTGAGTCTC
1 TGAATTGAGTCTC
10626218 TGAATTGAGTCTC
1 TGAATTGAGTCTC
10626231 ACAATATTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.38
Consensus pattern (13 bp):
TGAATTGAGTCTC
Found at i:10629722 original size:24 final size:23
Alignment explanation
Indices: 10629679--10629723 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
10629669 TCACTTTGGA
10629679 ATTCAACATTTTAAATATTAACT
1 ATTCAACATTTTAAATATTAACT
10629702 ATTCAA-ATTTTAACAATATTAA
1 ATTCAACATTTT-A-AATATTAA
10629724 TATAAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 5 0.25
23 7 0.35
24 8 0.40
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (23 bp):
ATTCAACATTTTAAATATTAACT
Found at i:10640544 original size:25 final size:25
Alignment explanation
Indices: 10640498--10640545 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
10640488 AGTAATGGAT
*
10640498 CAAGAGAAAGAGGTGGCTGGGACAG
1 CAAGAGAAAGAGGTGGCAGGGACAG
*
10640523 CAAGGGAAAGAGG-GGACAGGGAC
1 CAAGAGAAAGAGGTGG-CAGGGAC
10640546 CATCAATGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 18 0.90
ACGTcount: A:0.38, C:0.12, G:0.46, T:0.04
Consensus pattern (25 bp):
CAAGAGAAAGAGGTGGCAGGGACAG
Found at i:10644339 original size:24 final size:26
Alignment explanation
Indices: 10644307--10644355 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 26
10644297 ATATTTACTG
*
10644307 ATTTTATATTT-CTTAT-TTATTATA
1 ATTTTATATTTAATTATCTTATTATA
10644331 ATTTTATATTTAATTATCTTATTAT
1 ATTTTATATTTAATTATCTTATTAT
10644356 TTTTTAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 11 0.50
25 4 0.18
26 7 0.32
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (26 bp):
ATTTTATATTTAATTATCTTATTATA
Found at i:10644359 original size:24 final size:23
Alignment explanation
Indices: 10644307--10644367 Score: 68
Period size: 26 Copynumber: 2.5 Consensus size: 23
10644297 ATATTTACTG
*
10644307 ATTTTATATTTCTTATTTATTAT
1 ATTTTATATTTATTATTTATTAT
10644330 AATTTTATATTTAATTATCTTATTAT
1 -ATTTTATATTT-ATTAT-TTATTAT
*
10644356 TTTTTAATATTT
1 ATTTT-ATATTT
10644368 GCTTTATAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 11 0.34
25 8 0.25
26 13 0.41
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (23 bp):
ATTTTATATTTATTATTTATTAT
Found at i:10648037 original size:20 final size:20
Alignment explanation
Indices: 10648000--10648037 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
10647990 TGATGGGGAG
*
10648000 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
10648020 CAAGAA-ATCGAAGCTGGA
1 CAAGAATATC-AAGCTGGA
10648038 GGAGAGAGAA
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:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:10649953 original size:46 final size:46
Alignment explanation
Indices: 10649886--10650071 Score: 239
Period size: 46 Copynumber: 4.0 Consensus size: 46
10649876 GTGTGCTCTC
* * * *
10649886 TGATATGAAATGTGTAAGACCATGGTTGAAAGATTCCATGGCAGCT
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* *
10649932 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
**
10649978 TGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * * * *
10650024 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCA
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
10650070 TG
1 TG
10650072 TCAAAGATAA
Statistics
Matches: 125, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 1 0.01
46 124 0.99
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.23
Consensus pattern (46 bp):
TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:10656016 original size:20 final size:20
Alignment explanation
Indices: 10655993--10656034 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
10655983 CAGTGCATTA
10655993 AACATAAAAGTGGGAGAAGC
1 AACATAAAAGTGGGAGAAGC
10656013 AACATAAAAGTGGGAGAAGC
1 AACATAAAAGTGGGAGAAGC
10656033 AA
1 AA
10656035 TCATGAATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.52, C:0.10, G:0.29, T:0.10
Consensus pattern (20 bp):
AACATAAAAGTGGGAGAAGC
Found at i:10657356 original size:14 final size:14
Alignment explanation
Indices: 10657337--10657373 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
10657327 CATAGCTCAT
10657337 TGGAGAAAATAGAG
1 TGGAGAAAATAGAG
10657351 TGGAGAAAATAGAG
1 TGGAGAAAATAGAG
*
10657365 AGGAGAAAA
1 TGGAGAAAA
10657374 GAAACAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.35, T:0.11
Consensus pattern (14 bp):
TGGAGAAAATAGAG
Found at i:10664930 original size:15 final size:15
Alignment explanation
Indices: 10664910--10664941 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
10664900 AATTTATTTT
10664910 TATATAAAAAATTAA
1 TATATAAAAAATTAA
*
10664925 TATATAAAAAGTTAA
1 TATATAAAAAATTAA
10664940 TA
1 TA
10664942 CGGGCTGGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (15 bp):
TATATAAAAAATTAA
Found at i:10667282 original size:23 final size:22
Alignment explanation
Indices: 10667231--10667282 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
10667221 CCTCGTCTTT
*
10667231 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
10667253 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
10667276 TTCTTTT
1 TTCTTTT
10667283 TCAATTTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:10667291 original size:12 final size:12
Alignment explanation
Indices: 10667240--10667294 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
10667230 TTTCTTTTGT
10667240 TTCTTTTTCTAAC
1 TTCTTTTTC-AAC
* *
10667253 -TCATTTTC-TC
1 TTCTTTTTCAAC
10667263 TTCTTTCTTCAAC
1 TTCTTT-TTCAAC
*
10667276 TTCTTTTTCAAT
1 TTCTTTTTCAAC
10667288 TTCTTTT
1 TTCTTTT
10667295 CTGTTTCACA
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
10 1 0.03
11 4 0.12
12 22 0.65
13 7 0.21
ACGTcount: A:0.13, C:0.24, G:0.00, T:0.64
Consensus pattern (12 bp):
TTCTTTTTCAAC
Found at i:10667301 original size:17 final size:18
Alignment explanation
Indices: 10667276--10667313 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
10667266 TTTCTTCAAC
* *
10667276 TTCTTTTTCA-ATTTCTT
1 TTCTGTTTCACATTCCTT
10667293 TTCTGTTTCACATTCCTT
1 TTCTGTTTCACATTCCTT
10667311 TTC
1 TTC
10667314 ACTCTCAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.11, C:0.24, G:0.03, T:0.63
Consensus pattern (18 bp):
TTCTGTTTCACATTCCTT
Found at i:10674667 original size:24 final size:22
Alignment explanation
Indices: 10674640--10674693 Score: 72
Period size: 24 Copynumber: 2.3 Consensus size: 22
10674630 AATATGATTT
10674640 TTTTATATTTATATATTTAATTA
1 TTTTAT-TTTATATATTTAATTA
*
10674663 CTTTTAGTTTTATTTATTTAATTA
1 -TTTTA-TTTTATATATTTAATTA
10674687 TTTTATT
1 TTTTATT
10674694 AATTAAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 2 0.07
23 5 0.18
24 20 0.71
25 1 0.04
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (22 bp):
TTTTATTTTATATATTTAATTA
Found at i:10674920 original size:29 final size:29
Alignment explanation
Indices: 10674888--10674985 Score: 85
Period size: 29 Copynumber: 3.4 Consensus size: 29
10674878 ATAAATTTAT
*
10674888 GTACCAAATTGAACATAAAAA-AAGCTT-AG
1 GTACCAAATTGAA-AAAAAAACAAG-TTCAG
*
10674917 GTACCAAATTAGAAAAAAAAACAAGTTCAT
1 GTACCAAATT-GAAAAAAAAACAAGTTCAG
**** *
10674947 GTACCAAATTGGGCCATAAA-AAGTTCAG
1 GTACCAAATTGAAAAAAAAACAAGTTCAG
10674975 GTACCAAATTG
1 GTACCAAATTG
10674986 GGCCAAAAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
28 18 0.31
29 23 0.40
30 17 0.29
ACGTcount: A:0.48, C:0.15, G:0.15, T:0.21
Consensus pattern (29 bp):
GTACCAAATTGAAAAAAAAACAAGTTCAG
Found at i:10674953 original size:30 final size:29
Alignment explanation
Indices: 10674884--10674957 Score: 89
Period size: 29 Copynumber: 2.5 Consensus size: 29
10674874 TTTAATAAAT
*
10674884 TTATGTACCAAATTGAACATAAAAAAAGC
1 TTATGTACCAAATTGAACAAAAAAAAAGC
*
10674913 TTAGGTACCAAATTAGAA-AAAAAAACAAG-
1 TTATGTACCAAATT-GAACAAAAAAA-AAGC
10674942 TTCATGTACCAAATTG
1 TT-ATGTACCAAATTG
10674958 GGCCATAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
29 22 0.56
30 17 0.44
ACGTcount: A:0.50, C:0.14, G:0.12, T:0.24
Consensus pattern (29 bp):
TTATGTACCAAATTGAACAAAAAAAAAGC
Found at i:10674978 original size:28 final size:28
Alignment explanation
Indices: 10674933--10674999 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
10674923 AATTAGAAAA
*
10674933 AAAAACAAGTTCATGTACCAAATTGGGCC
1 AAAAA-AAGTTCAGGTACCAAATTGGGCC
*
10674962 ATAAAAAGTTCAGGTACCAAATTGGGCC
1 AAAAAAAGTTCAGGTACCAAATTGGGCC
10674990 AAAAAAAGTT
1 AAAAAAAGTT
10675000 TAGATTCCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
28 31 0.89
29 4 0.11
ACGTcount: A:0.45, C:0.16, G:0.18, T:0.21
Consensus pattern (28 bp):
AAAAAAAGTTCAGGTACCAAATTGGGCC
Found at i:10675009 original size:28 final size:28
Alignment explanation
Indices: 10674933--10675012 Score: 99
Period size: 28 Copynumber: 2.8 Consensus size: 28
10674923 AATTAGAAAA
10674933 AAAAACAAGTTCATG-TACCAAATTGGGCC
1 AAAAA-AAGTTCA-GATACCAAATTGGGCC
* *
10674962 ATAAAAAGTTCAGGTACCAAATTGGGCC
1 AAAAAAAGTTCAGATACCAAATTGGGCC
* *
10674990 AAAAAAAGTTTAGATTCCAAATT
1 AAAAAAAGTTCAGATACCAAATT
10675013 AGAAAAAAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
27 1 0.02
28 40 0.89
29 4 0.09
ACGTcount: A:0.44, C:0.16, G:0.16, T:0.24
Consensus pattern (28 bp):
AAAAAAAGTTCAGATACCAAATTGGGCC
Found at i:10676293 original size:28 final size:30
Alignment explanation
Indices: 10676250--10676307 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
10676240 TAATAGCTCA
* *
10676250 GTGATTTAAATAAAAAAC-TTTGAATAGTT
1 GTGACTTAAATAAAAAACTTTTGAACAGTT
10676279 GTGACTTAAAT-AAAAACTTTTGAACAGTT
1 GTGACTTAAATAAAAAACTTTTGAACAGTT
10676308 CAATGACCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 6 0.23
29 20 0.77
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.36
Consensus pattern (30 bp):
GTGACTTAAATAAAAAACTTTTGAACAGTT
Found at i:10677074 original size:22 final size:22
Alignment explanation
Indices: 10677049--10677094 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
10677039 AAGTTTGTAA
10677049 TATTATTTCTATCTATTTGATT
1 TATTATTTCTATCTATTTGATT
10677071 TATTATTTCTATCTATTTGATT
1 TATTATTTCTATCTATTTGATT
10677093 TA
1 TA
10677095 CTGTTCTTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.24, C:0.09, G:0.04, T:0.63
Consensus pattern (22 bp):
TATTATTTCTATCTATTTGATT
Found at i:10684367 original size:3 final size:3
Alignment explanation
Indices: 10684359--10684388 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
10684349 AATATCTTAA
*
10684359 AAT AAT AAT AGT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10684389 TCTAGTGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:10694679 original size:2 final size:2
Alignment explanation
Indices: 10694672--10694698 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
10694662 GAAATTAGCA
10694672 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 T
10694699 AATTTCAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:10700572 original size:14 final size:14
Alignment explanation
Indices: 10700547--10700582 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
10700537 GGTTATTAAA
10700547 TTATTT-AAAAAAT
1 TTATTTAAAAAAAT
10700560 TTATTTAAAAAAAT
1 TTATTTAAAAAAAT
10700574 TTATTTAAA
1 TTATTTAAA
10700583 TCATTAAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 6 0.27
14 16 0.73
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
TTATTTAAAAAAAT
Found at i:10702888 original size:60 final size:61
Alignment explanation
Indices: 10702795--10702909 Score: 164
Period size: 60 Copynumber: 1.9 Consensus size: 61
10702785 TATATGGTTT
* *
10702795 TTTCTTTTTTTGGTCACCTATCTATAAACAGTTACAAAATGGTCATC-CAACTATTAGTAAA
1 TTTCTTTTTTTGGTCACCTAACTATAAACAGTTACAAAATGGACA-CACAACTATTAGTAAA
*
10702856 TTTC-TTTTTTGGTCACCTAACTATGAAA-AGTTATAAAATGGACACACAACTATT
1 TTTCTTTTTTTGGTCACCTAACTAT-AAACAGTTACAAAATGGACACACAACTATT
10702910 CAATTTTGTC
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
59 1 0.02
60 41 0.84
61 7 0.14
ACGTcount: A:0.34, C:0.17, G:0.10, T:0.38
Consensus pattern (61 bp):
TTTCTTTTTTTGGTCACCTAACTATAAACAGTTACAAAATGGACACACAACTATTAGTAAA
Found at i:10703066 original size:60 final size:59
Alignment explanation
Indices: 10702972--10703118 Score: 197
Period size: 60 Copynumber: 2.4 Consensus size: 59
10702962 AAAATTTAAG
* *
10702972 ATAGTTGGGTGACCGAAAAAGACAAAATTGAATAGTTGAGTGACCATTTTGTAACTTTTC
1 ATAGTTGGGTGACCAAAAAAGA-AAAACTGAATAGTTGAGTGACCATTTTGTAACTTTTC
*
10703032 ATAGTTGGGTGACCAAAAAAGAAAATCACT-AATAGTTGGGTGACCATTTTGTAACTTTTC
1 ATAGTTGGGTGACCAAAAAAGAAAA--ACTGAATAGTTGAGTGACCATTTTGTAACTTTTC
* * *
10703092 ATAGCTAGGTGATCAAAAAAGGAAAAA
1 ATAGTTGGGTGACCAAAAAA-GAAAAA
10703119 AATCATAGTT
Statistics
Matches: 78, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
59 4 0.05
60 67 0.86
61 7 0.09
ACGTcount: A:0.39, C:0.12, G:0.21, T:0.29
Consensus pattern (59 bp):
ATAGTTGGGTGACCAAAAAAGAAAAACTGAATAGTTGAGTGACCATTTTGTAACTTTTC
Found at i:10706316 original size:30 final size:29
Alignment explanation
Indices: 10706282--10706350 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 29
10706272 TATTAATTAT
*
10706282 TTTTTAAAATTT-AAAATATGTTTTTAATAC
1 TTTTTAAAATTTAAAAATAT-TTTTTAA-AA
**
10706312 TTTTTAATTTTTCAAAAATATTTTTTAAAA
1 TTTTTAAAATTT-AAAAATATTTTTTAAAA
10706342 TTTTTAAAA
1 TTTTTAAAA
10706351 ATCAATTAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
30 18 0.56
31 7 0.22
32 7 0.22
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (29 bp):
TTTTTAAAATTTAAAAATATTTTTTAAAA
Found at i:10706336 original size:21 final size:21
Alignment explanation
Indices: 10706307--10706352 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
10706297 ATATGTTTTT
10706307 AATACTTTTT-AATTTTTCAAA
1 AATACTTTTTAAATTTTT-AAA
*
10706328 AATATTTTTTAAAATTTTTAAA
1 AATACTTTTT-AAATTTTTAAA
10706350 AAT
1 AAT
10706353 CAATTAATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 9 0.41
22 6 0.27
23 7 0.32
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.52
Consensus pattern (21 bp):
AATACTTTTTAAATTTTTAAA
Found at i:10708192 original size:29 final size:30
Alignment explanation
Indices: 10708149--10708210 Score: 108
Period size: 29 Copynumber: 2.1 Consensus size: 30
10708139 TTTTTTTATA
*
10708149 AAAATAATATTAAAAATAAATTAATTAC-G
1 AAAATAATATGAAAAATAAATTAATTACAG
10708178 AAAATAATATGAAAAATAAATTAATTACAG
1 AAAATAATATGAAAAATAAATTAATTACAG
10708208 AAA
1 AAA
10708211 TGAGATGTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 27 0.87
30 4 0.13
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.27
Consensus pattern (30 bp):
AAAATAATATGAAAAATAAATTAATTACAG
Found at i:10712382 original size:59 final size:60
Alignment explanation
Indices: 10712296--10712434 Score: 154
Period size: 59 Copynumber: 2.3 Consensus size: 60
10712286 GTCAAATGTT
* * * * * * *
10712296 ACTAAACTATTAATAGGTTTATGTTTTGGTCAATAAATTTTAAAAAGTTAC-AAATGGTC
1 ACTAAATTATTAGTAAGTTTATATTTTGATCAATAAACTTCAAAAAGTTACAAAATGGTC
* * *
10712355 ACTAATTTATTAGTAAGTTTATATTTTGATCACTTAACTTCAAAAAGTTACAAAATGGTC
1 ACTAAATTATTAGTAAGTTTATATTTTGATCAATAAACTTCAAAAAGTTACAAAATGGTC
* * *
10712415 ATTAAATTATTTGAAAGTTT
1 ACTAAATTATTAGTAAGTTT
10712435 TCATTTAAGT
Statistics
Matches: 65, Mismatches: 14, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
59 41 0.63
60 24 0.37
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.41
Consensus pattern (60 bp):
ACTAAATTATTAGTAAGTTTATATTTTGATCAATAAACTTCAAAAAGTTACAAAATGGTC
Found at i:10724871 original size:46 final size:46
Alignment explanation
Indices: 10724767--10725085 Score: 424
Period size: 46 Copynumber: 7.0 Consensus size: 46
10724757 TTTGACATGA
* * * * * * * *
10724767 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTT-TTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
* ** * *
10724812 TGCCATGGTATCTTTCAATCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*** *** * *
10724858 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
10724904 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
10724950 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
10724996 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
10725042 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
10725086 AGAGCACACT
Statistics
Matches: 248, Mismatches: 25, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
45 31 0.12
46 217 0.88
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
Done.