Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 53 of 208
Found at i:15026862 original size:25 final size:25
Alignment explanation
Indices: 15026809--15026866 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
15026799 TTTTCTTTAG
* *
15026809 TTTTC-TTCTCTTCTTCTTCGTTAC
1 TTTTCTTTTTCTTCTTCTTCATTAC
*
15026833 CTTTCTTTTTCTTCTTCTTCATT-C
1 TTTTCTTTTTCTTCTTCTTCATTAC
15026857 TTTTTCTTTT
1 -TTTTCTTTT
15026867 CTTTTTATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
24 5 0.18
25 23 0.82
ACGTcount: A:0.03, C:0.26, G:0.02, T:0.69
Consensus pattern (25 bp):
TTTTCTTTTTCTTCTTCTTCATTAC
Found at i:15040617 original size:22 final size:22
Alignment explanation
Indices: 15040589--15040637 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
15040579 AGAAGCTAAG
15040589 GTTTCTAGGGTAATCGGTGGAT
1 GTTTCTAGGGTAATCGGTGGAT
15040611 GTTTCTAGGGTAATCGGTGGAT
1 GTTTCTAGGGTAATCGGTGGAT
15040633 GTTTC
1 GTTTC
15040638 AACCTCCTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.16, C:0.10, G:0.35, T:0.39
Consensus pattern (22 bp):
GTTTCTAGGGTAATCGGTGGAT
Found at i:15043551 original size:20 final size:20
Alignment explanation
Indices: 15043526--15043565 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
15043516 GATGCATAGT
* *
15043526 AGAGGCATCGAAGTGCAAAC
1 AGAGGCACCAAAGTGCAAAC
15043546 AGAGGCACCAAAGTGCAAAC
1 AGAGGCACCAAAGTGCAAAC
15043566 CTGTACAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.23, G:0.28, T:0.07
Consensus pattern (20 bp):
AGAGGCACCAAAGTGCAAAC
Found at i:15054936 original size:30 final size:29
Alignment explanation
Indices: 15054887--15054952 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 29
15054877 CAGTTGAATA
* *
15054887 TAAATTTTTAAATTCAAAAA-ATAGAGAGAC
1 TAAATTTTTAAAGTCAAAAATATACA-A-AC
15054917 TAAATTTTTAAAAGT-AAAAATATACAAAC
1 TAAATTTTT-AAAGTCAAAAATATACAAAC
15054946 TAAATTT
1 TAAATTT
15054953 CAAATATACA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
29 9 0.28
30 15 0.47
31 8 0.25
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.33
Consensus pattern (29 bp):
TAAATTTTTAAAGTCAAAAATATACAAAC
Found at i:15056332 original size:75 final size:75
Alignment explanation
Indices: 15056252--15056402 Score: 239
Period size: 75 Copynumber: 2.0 Consensus size: 75
15056242 ATTTTAACTC
* * * *
15056252 AATTAATTTTCATGTTTTGGGCTTTATCTTGTCCAAATATCTCCAAAATAGATAGCACAATGCTT
1 AATTAATTTTCATATTTTGGGCTTTAACTTGTCCAAATATCTCAAAAACAGATAGCACAATGCTT
15056317 TTACTTTAAA
66 TTACTTTAAA
* *
15056327 AATTAATTTTCATATTTTGGGTTTTAACTTGTCCAAATATCTCAAAAACAGATAGCCCAATGCTT
1 AATTAATTTTCATATTTTGGGCTTTAACTTGTCCAAATATCTCAAAAACAGATAGCACAATGCTT
*
15056392 TTATTTTAAA
66 TTACTTTAAA
15056402 A
1 A
15056403 TTTGCCAATT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
75 69 1.00
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.41
Consensus pattern (75 bp):
AATTAATTTTCATATTTTGGGCTTTAACTTGTCCAAATATCTCAAAAACAGATAGCACAATGCTT
TTACTTTAAA
Found at i:15058536 original size:186 final size:184
Alignment explanation
Indices: 15058208--15058621 Score: 643
Period size: 186 Copynumber: 2.2 Consensus size: 184
15058198 AAAGTGTATG
* ** * * *
15058208 GTAGATTTGGATTTTTCCAAAGTTATGGCCTGCCATGTGCATACAGATAGCCTTAGGGTTTAGTG
1 GTAGGTTTGGATTTTTGTAAACTTATGGTCTGCCATGTGCATACAGATAGCATTAGGGTTTAGTG
15058273 ACAAATCATTTTTTATTGAATTATTTGAAACTGTGTATGTCATTGAATTATTCAAATATGATTCA
66 ACAAATCATTTTTTATTGAATTATTTGAAACTGTGTATGTCATTGAATTATTCAAATATGATTCA
15058338 AAATATTTTTAAATGTTAATTGAAATATGATTTTATTGTTTGTATCAAACTGAATT
131 AAATATTTTTAAATGTTAATTGAAATATGA--TTATTGTTTGTATCAAACTGAATT
15058394 GTAGGTTTGGATTTTTGTAAACTTATGGTCTGCCATGTGCATACAGATAGCATTAGGGTTTAGTG
1 GTAGGTTTGGATTTTTGTAAACTTATGGTCTGCCATGTGCATACAGATAGCATTAGGGTTTAGTG
* *
15058459 ATAAATCATTTTTTATTGAATTATTTGAAACTGTGTATGTCATTGAATTATTCAAATATGATTTA
66 ACAAATCATTTTTTATTGAATTATTTGAAACTGTGTATGTCATTGAATTATTCAAATATGATTCA
* * *
15058524 TGAGTA-TTTTAAATGTTGATTGAAATATGATTATTGTTTGTATCAAACTGAATT
131 -AAATATTTTTAAATGTTAATTGAAATATGATTATTGTTTGTATCAAACTGAATT
* * * *
15058578 GTAGGTTTGGAATTATGTAAACTTATTGT-TCGCCATTTGCATAC
1 GTAGGTTTGGATTTTTGTAAACTTATGGTCT-GCCATGTGCATAC
15058622 TAATTGCCTT
Statistics
Matches: 211, Mismatches: 15, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
183 1 0.00
184 62 0.29
186 145 0.69
187 3 0.01
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.43
Consensus pattern (184 bp):
GTAGGTTTGGATTTTTGTAAACTTATGGTCTGCCATGTGCATACAGATAGCATTAGGGTTTAGTG
ACAAATCATTTTTTATTGAATTATTTGAAACTGTGTATGTCATTGAATTATTCAAATATGATTCA
AAATATTTTTAAATGTTAATTGAAATATGATTATTGTTTGTATCAAACTGAATT
Found at i:15060460 original size:3 final size:3
Alignment explanation
Indices: 15060452--15060490 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
15060442 ATAAATTTCA
* *
15060452 TAT TAT TAT TAT TAT TGT TGT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
15060491 ATATATATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:15061074 original size:16 final size:16
Alignment explanation
Indices: 15061053--15061084 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
15061043 GAATGATTTG
15061053 TTTTTGCTCACATTAT
1 TTTTTGCTCACATTAT
15061069 TTTTTGCTCACATTAT
1 TTTTTGCTCACATTAT
15061085 CATATTTATT
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:0.19, C:0.19, G:0.06, T:0.56
Consensus pattern (16 bp):
TTTTTGCTCACATTAT
Found at i:15061347 original size:109 final size:109
Alignment explanation
Indices: 15061154--15061459 Score: 476
Period size: 109 Copynumber: 2.8 Consensus size: 109
15061144 CTAATTGAGA
15061154 CAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGT
1 CAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGT
* * *
15061219 TCAACCAAATGGCTTAATATCCTTTTAAAAATTTTAAAATAAGG
66 TCAACCAAATAGCTAAATATCCTTTTAAAAATTTCAAAATAAGG
*
15061263 CAATGTTTTGCGTTTGGAAATTCGTGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGT
1 CAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGT
*
15061328 TCAACCAAATAGCTAAATATCCTTTCAAAAATTTCAAAATAAGG
66 TCAACCAAATAGCTAAATATCCTTTTAAAAATTTCAAAATAAGG
* * * *
15061372 CAATGTTTTGCGTTTTGAAATTCGAG-GAACGTGCCCTAAGGTGCTGGGTTTCGA--TTTCTCGT
1 CAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGT
* *
15061434 TTAACCAAATTG-TCAAATATCCTTTT
66 TCAACCAAATAGCT-AAATATCCTTTT
15061460 GAATTTTAAT
Statistics
Matches: 183, Mismatches: 13, Indels: 5
0.91 0.06 0.02
Matches are distributed among these distances:
105 1 0.01
106 29 0.16
108 25 0.14
109 128 0.70
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.35
Consensus pattern (109 bp):
CAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGT
TCAACCAAATAGCTAAATATCCTTTTAAAAATTTCAAAATAAGG
Found at i:15066339 original size:3 final size:3
Alignment explanation
Indices: 15066331--15066358 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
15066321 TCGCAGCAAG
15066331 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
15066359 CTATAATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:15068252 original size:15 final size:16
Alignment explanation
Indices: 15068232--15068265 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
15068222 GGAATTTACG
15068232 TTTTTGAAAAAT-AAA
1 TTTTTGAAAAATGAAA
*
15068247 TTTTTGGAAAATGAAA
1 TTTTTGAAAAATGAAA
15068263 TTT
1 TTT
15068266 GTACTCCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (16 bp):
TTTTTGAAAAATGAAA
Found at i:15071342 original size:19 final size:19
Alignment explanation
Indices: 15071320--15071358 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
15071310 TTTTCATGTA
*
15071320 ATCATCATACATACTTATG
1 ATCACCATACATACTTATG
* *
15071339 ATCACCATGCATGCTTATG
1 ATCACCATACATACTTATG
15071358 A
1 A
15071359 ATATTCTCCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.33
Consensus pattern (19 bp):
ATCACCATACATACTTATG
Found at i:15073235 original size:45 final size:45
Alignment explanation
Indices: 15073100--15073253 Score: 159
Period size: 45 Copynumber: 3.4 Consensus size: 45
15073090 ATATAGTACT
* * * *
15073100 CGGTGTAATCAGCACATAGCAACCACCTTTATACTCAATGGTA-C
1 CGGTGAAATCAGCACATAGCAATCACCTTTATAATCATTGGTATC
* * * *
15073144 CGGGTGAATTCAGCATATAACAATCA-CTTATATAACCATTGGTATC
1 C-GGTGAAATCAGCACATAGCAATCACCTT-TATAATCATTGGTATC
** **
15073190 CGGTGAAATCAGCACATAGCAATCACCTTTATTTTCATTAATATC
1 CGGTGAAATCAGCACATAGCAATCACCTTTATAATCATTGGTATC
*
15073235 CGGTGGAATCAGCACATAG
1 CGGTGAAATCAGCACATAG
15073254 TATCCACCTA
Statistics
Matches: 89, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
44 4 0.04
45 80 0.90
46 5 0.06
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (45 bp):
CGGTGAAATCAGCACATAGCAATCACCTTTATAATCATTGGTATC
Found at i:15073279 original size:45 final size:45
Alignment explanation
Indices: 15073186--15073281 Score: 113
Period size: 45 Copynumber: 2.1 Consensus size: 45
15073176 TAACCATTGG
* * **
15073186 TATCCGGTGAAATCAGCACATAGCAATCACCTTTATTTTCATTAA
1 TATCCGGTGAAATCAGCACATAGCAATCACCTATATTTCCAACAA
* * *
15073231 TATCCGGTGGAATCAGCACATAG-TATCCACCTATATTTCCAACGA
1 TATCCGGTGAAATCAGCACATAGCAAT-CACCTATATTTCCAACAA
15073276 TATCCG
1 TATCCG
15073282 ATCCATTCCG
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
44 2 0.05
45 41 0.95
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (45 bp):
TATCCGGTGAAATCAGCACATAGCAATCACCTATATTTCCAACAA
Found at i:15073742 original size:50 final size:48
Alignment explanation
Indices: 15073617--15073799 Score: 244
Period size: 50 Copynumber: 3.8 Consensus size: 48
15073607 TCACATATCG
* * *
15073617 GTGCCGATGCCATGTCCCAGACATGGTCTTACAGTGGCACTCATC-TC
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACTCCTCGTC
** *
15073664 GACCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCCTCTGTTC
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACTCCTC-G-TC
*
15073714 GTGCCGATGCCATGTCCCAGACATGGTCTTAGACT-AGCACTCCTCGGTC
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CACTCCTC-GTC
15073763 TGTGCCGATGCCATGTCCCAGACATGGTCTTACACTG
1 -GTGCCGATGCCATGTCCCAGACATGGTCTTACACTG
15073800 GCACACTCAT
Statistics
Matches: 118, Mismatches: 12, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
47 39 0.33
49 3 0.03
50 76 0.64
ACGTcount: A:0.19, C:0.33, G:0.22, T:0.26
Consensus pattern (48 bp):
GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACTCCTCGTC
Found at i:15073754 original size:97 final size:99
Alignment explanation
Indices: 15073617--15073799 Score: 289
Period size: 97 Copynumber: 1.9 Consensus size: 99
15073607 TCACATATCG
* *
15073617 GTGCCGATGCCATGTCCCAGACATGGTCTTACAGTGGCACTCATC-TC-GACCCGATGCCATGTC
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATCGTCTGACCCGATGCCATGTC
15073680 CCAGACATGGTCTTACACTGACTCTCCTCTGTTC
66 CCAGACATGGTCTTACACTGACTCTCCTCTGTTC
* * **
15073714 GTGCCGATGCCATGTCCCAGACATGGTCTTAGACTAGCACTCCTCGGTCTGTGCCGATGCCATGT
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATC-GTCTGACCCGATGCCATGT
15073779 CCCAGACATGGTCTTACACTG
65 CCCAGACATGGTCTTACACTG
15073800 GCACACTCAT
Statistics
Matches: 77, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
97 41 0.53
99 2 0.03
100 34 0.44
ACGTcount: A:0.19, C:0.33, G:0.22, T:0.26
Consensus pattern (99 bp):
GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATCGTCTGACCCGATGCCATGTC
CCAGACATGGTCTTACACTGACTCTCCTCTGTTC
Found at i:15077006 original size:43 final size:42
Alignment explanation
Indices: 15076920--15077017 Score: 142
Period size: 43 Copynumber: 2.3 Consensus size: 42
15076910 CCGAGATTAA
* * *
15076920 GTGTAAGACCATATCTGGGATATGACATCGATATGAGAATTC
1 GTGTAAGACCATGTCTGGGACATGACATCAATATGAGAATTC
* *
15076962 GTGTAAGACCATGTCTGGGACATTGACATCAATATGTGATTTC
1 GTGTAAGACCATGTCTGGGACA-TGACATCAATATGAGAATTC
15077005 GTGTAAGACCATG
1 GTGTAAGACCATG
15077018 GCTAGGCTAT
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
42 20 0.40
43 30 0.60
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCATGTCTGGGACATGACATCAATATGAGAATTC
Found at i:15077053 original size:43 final size:43
Alignment explanation
Indices: 15076911--15077059 Score: 135
Period size: 43 Copynumber: 3.5 Consensus size: 43
15076901 TTAAGGTTAC
* *
15076911 CGAGATTA-AGTGTAAGACCATATCTGGGATA-TGACATCGATA
1 CGAGATTACA-TGTAAGACCATGTCTGGGCTATTGACATCGATA
* * *
15076953 TGAGAATT-CGTGTAAGACCATGTCTGGGAC-ATTGACATCAATA
1 CGAG-ATTACATGTAAGACCATGTCTGGG-CTATTGACATCGATA
* * * * * * *
15076996 TGTGATTTCGTGTAAGACCATGGCTAGGCTATTGGCATCGATA
1 CGAGATTACATGTAAGACCATGTCTGGGCTATTGACATCGATA
15077039 CGAGATTACATGTAAGACCAT
1 CGAGATTACATGTAAGACCAT
15077060 ATCTAGGATA
Statistics
Matches: 87, Mismatches: 14, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
42 25 0.29
43 62 0.71
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (43 bp):
CGAGATTACATGTAAGACCATGTCTGGGCTATTGACATCGATA
Found at i:15085151 original size:24 final size:25
Alignment explanation
Indices: 15085124--15085188 Score: 71
Period size: 23 Copynumber: 2.6 Consensus size: 25
15085114 TAGTTTTTTA
15085124 AATATATAAAAAAAATAAAGAG-AT
1 AATATATAAAAAAAATAAAGAGAAT
* * *
15085148 AATAAAT-AAATAAATAAATAGAAT
1 AATATATAAAAAAAATAAAGAGAAT
15085172 AACGTATATAAAAAAAA
1 AA--TATATAAAAAAAA
15085189 GTCTATAAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
23 12 0.38
24 10 0.31
26 4 0.12
27 6 0.19
ACGTcount: A:0.71, C:0.02, G:0.06, T:0.22
Consensus pattern (25 bp):
AATATATAAAAAAAATAAAGAGAAT
Found at i:15086996 original size:44 final size:44
Alignment explanation
Indices: 15086966--15087325 Score: 247
Period size: 44 Copynumber: 8.1 Consensus size: 44
15086956 AGAGGTATAG
*
15086966 GATTTGTCGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATTA
1 GATTTGTCGCTTCAATCTACTCCACTGCAACTTCAGGGAGATTA
* * * * *
15087010 GATTTGTGGCTTTAATCTACTCCACTACAACTTCAAGGAGATAA
1 GATTTGTCGCTTCAATCTACTCCACTGCAACTTCAGGGAGATTA
* ** * * * * *
15087054 GATTTACTATCTTCAATTTGA-TTCAGTGTAACTTCAGGGAGATAA
1 GATTT-GTCGCTTCAATCT-ACTCCACTGCAACTTCAGGGAGATTA
* * * * * *
15087099 GATTTGTGGCTTTAATGTGCTCCACTGCAACTTCAAGGAGATAA
1 GATTTGTCGCTTCAATCTACTCCACTGCAACTTCAGGGAGATTA
** ** * * *
15087143 GATTCACTATCTTCAATCTGCTCCACTGTAACTTCAGGGAGATAA
1 GATT-TGTCGCTTCAATCTACTCCACTGCAACTTCAGGGAGATTA
* * * * ** *
15087188 GATTTGTGGCTTTAATCTTCTCTACTGCAACTTTTGGGAGATAA
1 GATTTGTCGCTTCAATCTACTCCACTGCAACTTCAGGGAGATTA
** * * * * * * *
15087232 GATTTGTCATTTCAATCTTCTCTACTGTAATTTTAGAGAGATAA
1 GATTTGTCGCTTCAATCTACTCCACTGCAACTTCAGGGAGATTA
* * * *
15087276 GATTTGTTGTTTCAATCTAC-CCTACTGCAACTTCAAGGAGATAA
1 GATTTGTCGCTTCAATCTACTCC-ACTGCAACTTCAGGGAGATTA
15087320 GATTTG
1 GATTTG
15087326 CTATAATGAC
Statistics
Matches: 250, Mismatches: 61, Indels: 10
0.78 0.19 0.03
Matches are distributed among these distances:
43 1 0.00
44 180 0.72
45 68 0.27
46 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.36
Consensus pattern (44 bp):
GATTTGTCGCTTCAATCTACTCCACTGCAACTTCAGGGAGATTA
Found at i:15087293 original size:88 final size:90
Alignment explanation
Indices: 15086975--15087329 Score: 425
Period size: 89 Copynumber: 4.0 Consensus size: 90
15086965 GGATTTGTCG
* * * * *
15086975 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATTAGATTTGTGGCTTTAATCTACTCCACTACAA
1 CTTCAATCTGCTCCACTGTAACTTCAGAGAGATAAGATTTGTGGCTTTAATCTACTCTACTGCAA
15087040 CTTCAAGGAGATAAGATTT-ACTAT
66 CTTCAAGGAGATAAGATTTGACTAT
* * * * * * * *
15087064 CTTCAATTTGATTCAGTGTAACTTCAGGGAGATAAGATTTGTGGCTTTAATGTGCTCCACTGCAA
1 CTTCAATCTGCTCCACTGTAACTTCAGAGAGATAAGATTTGTGGCTTTAATCTACTCTACTGCAA
*
15087129 CTTCAAGGAGATAAGA-TTCACTAT
66 CTTCAAGGAGATAAGATTTGACTAT
* *
15087153 CTTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGTGGCTTTAATCTTCTCTACTGCAA
1 CTTCAATCTGCTCCACTGTAACTTCAGAGAGATAAGATTTGTGGCTTTAATCTACTCTACTGCAA
*** *
15087218 CTTTTGGGAGATAAGATTTGTC-AT
66 CTTCAAGGAGATAAGATTTGACTAT
* * * * * *
15087242 -TTCAATCTTCTCTACTGTAATTTTAGAGAGATAAGATTTGTTG-TTTCAATCTACCCTACTGCA
1 CTTCAATCTGCTCCACTGTAACTTCAGAGAGATAAGATTTGTGGCTTT-AATCTACTCTACTGCA
15087305 ACTTCAAGGAGATAAGATTTG-CTAT
65 ACTTCAAGGAGATAAGATTTGACTAT
15087330 AATGACTTCA
Statistics
Matches: 230, Mismatches: 32, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
87 4 0.02
88 73 0.32
89 150 0.65
90 3 0.01
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.35
Consensus pattern (90 bp):
CTTCAATCTGCTCCACTGTAACTTCAGAGAGATAAGATTTGTGGCTTTAATCTACTCTACTGCAA
CTTCAAGGAGATAAGATTTGACTAT
Found at i:15092213 original size:7 final size:7
Alignment explanation
Indices: 15092169--15092197 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
15092159 AGTCGCGCTC
15092169 TTCTTCT
1 TTCTTCT
15092176 TTCTTCT
1 TTCTTCT
15092183 TTCTTCT
1 TTCTTCT
15092190 TTCTTCT
1 TTCTTCT
15092197 T
1 T
15092198 CAGCTCTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (7 bp):
TTCTTCT
Found at i:15099217 original size:5 final size:5
Alignment explanation
Indices: 15099207--15099234 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
15099197 AGTCGTCACC
15099207 TTTCT TTTCT TTTCT TTTCT TTTCT TTT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTT
15099235 GGTTTAATGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTCT
Found at i:15100524 original size:20 final size:20
Alignment explanation
Indices: 15100499--15100539 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
15100489 TCAAGCTTGA
15100499 AGAGAGGTCTTAGGACCAAG
1 AGAGAGGTCTTAGGACCAAG
15100519 AGAGAGGTCTTAGGACCAAG
1 AGAGAGGTCTTAGGACCAAG
15100539 A
1 A
15100540 TAACTAGTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.15, G:0.34, T:0.15
Consensus pattern (20 bp):
AGAGAGGTCTTAGGACCAAG
Found at i:15100570 original size:29 final size:29
Alignment explanation
Indices: 15100528--15100584 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
15100518 GAGAGAGGTC
15100528 TTAGGACCAAGATAACTAGTACCGCATTT
1 TTAGGACCAAGATAACTAGTACCGCATTT
*
15100557 TTAGTACCAAGATAACTAGTACCGCATT
1 TTAGGACCAAGATAACTAGTACCGCATT
15100585 AGTGAGTGCG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (29 bp):
TTAGGACCAAGATAACTAGTACCGCATTT
Found at i:15100723 original size:23 final size:25
Alignment explanation
Indices: 15100697--15100753 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 25
15100687 ACTTATATTT
15100697 TAATATTTAA-AAATATTAAATA-A
1 TAATATTTAATAAATATTAAATATA
* *
15100720 TAATATTAAATAAATTTTAAATATA
1 TAATATTTAATAAATATTAAATATA
*
15100745 AAATATTTA
1 TAATATTTA
15100754 TCAATTATAC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 9 0.32
24 11 0.39
25 8 0.29
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (25 bp):
TAATATTTAATAAATATTAAATATA
Found at i:15100726 original size:13 final size:13
Alignment explanation
Indices: 15100708--15100732 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15100698 AATATTTAAA
15100708 AATATTAAATAAT
1 AATATTAAATAAT
15100721 AATATTAAATAA
1 AATATTAAATAA
15100733 ATTTTAAATA
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:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AATATTAAATAAT
Found at i:15101052 original size:31 final size:27
Alignment explanation
Indices: 15101014--15101075 Score: 70
Period size: 31 Copynumber: 2.1 Consensus size: 27
15101004 CCCATATTAA
*
15101014 ATATATATTTTTAATATATATAAATATATAT
1 ATATATATATTTAAT-TA-A-AAATA-ATAT
*
15101045 ATATATATATTTGATTAAAAATAATAT
1 ATATATATATTTAATTAAAAATAATAT
15101072 ATAT
1 ATAT
15101076 TTAATATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 8 0.28
28 5 0.17
29 1 0.03
30 2 0.07
31 13 0.45
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (27 bp):
ATATATATATTTAATTAAAAATAATAT
Found at i:15101399 original size:20 final size:20
Alignment explanation
Indices: 15101374--15101412 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
15101364 GAGGGGAATT
*
15101374 TTTTAT-TTATTATAATTTAG
1 TTTTATATT-TTAAAATTTAG
15101394 TTTTATATTTTAAAATTTA
1 TTTTATATTTTAAAATTTA
15101413 AAGTTTGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (20 bp):
TTTTATATTTTAAAATTTAG
Found at i:15103626 original size:16 final size:16
Alignment explanation
Indices: 15103600--15103637 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
15103590 TTACCGATTC
15103600 AAAACAAATAA-ATTATT
1 AAAA-AAATAAGATTA-T
15103617 AAAAAAATAAGATTAT
1 AAAAAAATAAGATTAT
15103633 AAAAA
1 AAAAA
15103638 TTGGTTTTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (16 bp):
AAAAAAATAAGATTAT
Found at i:15103736 original size:77 final size:78
Alignment explanation
Indices: 15103597--15103746 Score: 207
Period size: 77 Copynumber: 1.9 Consensus size: 78
15103587 TGGTTACCGA
* *
15103597 TTCAAAACAAATAAATTATTAAAAAAATAAGATTATAAAAATTGGTTTTACTACCAATTCAAATG
1 TTCAAAACAAATAAATTATTAAAAAAATAAGA-TATAAAAATTGGTTTAACGACCAATTCAAATG
15103662 GTTTTTTAGCTTGG
65 GTTTTTTAGCTTGG
* * *
15103676 TTCAAATCAAATAAATTATTAAAAAATTGAA-A-ATAAAAATT-GTTTCAACGGCCAATTCAAAT
1 TTCAAAACAAATAAATTATTAAAAAAAT-AAGATATAAAAATTGGTTT-AACGACCAATTCAAAT
15103738 GGTTTTTTA
64 GGTTTTTTA
15103747 ACCCTATTCA
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
76 4 0.06
77 31 0.48
79 27 0.42
80 2 0.03
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.36
Consensus pattern (78 bp):
TTCAAAACAAATAAATTATTAAAAAAATAAGATATAAAAATTGGTTTAACGACCAATTCAAATGG
TTTTTTAGCTTGG
Found at i:15113456 original size:9 final size:9
Alignment explanation
Indices: 15113439--15113493 Score: 101
Period size: 9 Copynumber: 6.1 Consensus size: 9
15113429 TGAGTTTTCG
15113439 AATTCGAAT
1 AATTCGAAT
*
15113448 AACTCGAAT
1 AATTCGAAT
15113457 AATTCGAAT
1 AATTCGAAT
15113466 AATTCGAAT
1 AATTCGAAT
15113475 AATTCGAAT
1 AATTCGAAT
15113484 AATTCGAAT
1 AATTCGAAT
15113493 A
1 A
15113494 TCAAACTATA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 44 1.00
ACGTcount: A:0.45, C:0.13, G:0.11, T:0.31
Consensus pattern (9 bp):
AATTCGAAT
Found at i:15114464 original size:5 final size:5
Alignment explanation
Indices: 15114412--15114462 Score: 93
Period size: 5 Copynumber: 10.2 Consensus size: 5
15114402 GAATAAATAT
*
15114412 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG AATCG
1 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG
15114462 A
1 A
15114463 ATTCCATCTC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
5 45 1.00
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.37
Consensus pattern (5 bp):
ATTCG
Found at i:15119167 original size:22 final size:22
Alignment explanation
Indices: 15119140--15119183 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
15119130 TGAAATTTTT
*
15119140 GGCTTTTCAGAAGTGCTTTTCA
1 GGCTTTTCAGAAGTACTTTTCA
15119162 GGCTTTTCAGAAGTACTTTTCA
1 GGCTTTTCAGAAGTACTTTTCA
15119184 AAAGCACTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.41
Consensus pattern (22 bp):
GGCTTTTCAGAAGTACTTTTCA
Found at i:15119680 original size:13 final size:13
Alignment explanation
Indices: 15119664--15119703 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
15119654 TTTAAACCAA
15119664 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* * *
15119677 ACTTCTCCATAGC
1 ACTTTTCAAAAGC
15119690 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
15119703 A
1 A
15119704 TTGCCAAACT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.35, C:0.28, G:0.07, T:0.30
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:15121423 original size:16 final size:16
Alignment explanation
Indices: 15121402--15121435 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
15121392 TTTGGTTCGC
15121402 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
15121418 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
15121434 TG
1 TG
15121436 ATGCGGTCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:15132983 original size:23 final size:23
Alignment explanation
Indices: 15132956--15133028 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 23
15132946 TTATATTAAT
15132956 ATTATATAATCAAAATGATTTTA
1 ATTATATAATCAAAATGATTTTA
* * * ***
15132979 ATTATAT-TTC-AATTAAAAAT-
1 ATTATATAATCAAAATGATTTTA
15132999 ATTATATAATCAAAATGATTTTA
1 ATTATATAATCAAAATGATTTTA
15133022 ATTATAT
1 ATTATAT
15133029 TTTAATATAC
Statistics
Matches: 35, Mismatches: 12, Indels: 6
0.66 0.23 0.11
Matches are distributed among these distances:
20 7 0.20
21 7 0.20
22 7 0.20
23 14 0.40
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (23 bp):
ATTATATAATCAAAATGATTTTA
Found at i:15138517 original size:16 final size:17
Alignment explanation
Indices: 15138481--15138518 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
15138471 ATTTTTAAAT
*
15138481 TTAAAAAATATAATACA
1 TTAAAAAAAATAATACA
*
15138498 TTAAAAAAAATTATAC-
1 TTAAAAAAAATAATACA
15138514 TTAAA
1 TTAAA
15138519 TAGCACTAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (17 bp):
TTAAAAAAAATAATACA
Found at i:15148934 original size:702 final size:703
Alignment explanation
Indices: 15147580--15149094 Score: 2141
Period size: 702 Copynumber: 2.2 Consensus size: 703
15147570 ATATAATAAG
* * * * * *
15147580 CAACCGTTGAGAGATTTGTCGTTGTGCACGGTCAGAT-A-A-TACAACTCTTTGCAAAGTATCCT
1 CAACTGTTGAGAGATATGTCGTTGTGCATGGTAAGATAATACTACAACTCTTTGTAGAGTATCCT
* *
15147642 GATGAGGAGATTAAGAAGTGCACATTTGTTGTAGGCCTTGCACATAAAATGGAGGAGAGACACCA
66 GATGAGAAGATTAAGAAGTGCACATTTGTTGTAGGCCTTGCAAATAAAATGGAGGAGAGACACCA
*
15147707 TACAAAATGGTTATTTAAAAAGGACTAATTATGACTATTTCAATTTTAAGGACTAAATTGAATAA
131 TACAAAA--GTTAGTTAAAAAGGACTAATTATGACTATTTCAATTTTAAGGACTAAATTGAATAA
** * *
15147772 AATGTAAAACTTTAAGGGGAAAACGAATAATGAAATTGAATTGATAGATACATATAATAGATTTT
194 AATGTAAAACTTTAAGGGGAAAACGAATAATGAAATCAAACTGATACATACATATAATAGATTTT
* **
15147837 TATAAGATGTTTGGAATTGATAAATTGAACTGAATTGTTATATAGATCGGGAATTGAACCAAGAT
259 TATAAGATGTTTGGAATTAATAAATCAAACTGAATTGTTATATAGATCGGGAATTGAACCAAGAT
* * * *
15147902 GATTATGCTTTTATATCTACTAATCCAGCAGTTGTTGAGAGATGTGTCGTTGTGCATTGCTAGAT
324 GATCATGCTTTTATATCTACTAATCCAACAGTTGTTGAGAGATATGTCGTTGTGCATGGCTAGAT
* * * * *
15147967 AATATTACAACTTTTTGTAGAGTATCCTGATGAGAAGATAAGAAGTGCACATTTTTCGTAGGCCT
389 AATACTACAACTCTTTGTAGAGTATCCTAATGAGAAGATAAGAAGTACACATTTTTCGTAGGCCA
* *
15148032 TACAAATAAAATGGAGTAGAGACACCATGCAAAATGATTAGTTAAAAAGAACTAGTTATGACTAT
454 TACAAATAAAATGGAGTAGAAACACCATACAAAATGATTAGTTAAAAAGAACTAGTTATGACTAT
* **
15148097 TTTGATTTTAGAGACTAAATTGAATAAAATGTAAAACTTTAAGGGGCATATGAATAATAAAATTG
519 TTCGATTTTAGAGACTAAATTGAATAAAATGTAAAACTTTAAGGGGCATACAAATAATAAAATTG
* * *
15148162 AACTGATACATACATATAATGGATTGTTATAAGATGTTTGGAATTGATAAATTGAACTGAATTGT
584 AACTGATACATACATATAATAGATTGTTATAAGATGTTTGAAATTGATAAATCGAACTGAATTGT
* * ** * *
15148227 TATATAAATCGGGAACTGAACCAAGATGATCATGTTTTTATATCTATTAA-TCCAA
649 TATATAAATCGAGAACTGAACCAAGATGATCATGCTTTTATAAATACTAACT-AAA
** * *
15148282 CAGTTGTTGAGAGATATGTTGTTGTGCATGGTAAGATAATACTACAACTCTTTGTAGAGTATCTT
1 CAACTGTTGAGAGATATGTCGTTGTGCATGGTAAGATAATACTACAACTCTTTGTAGAGTATCCT
* * * *
15148347 AATGAGAAGATTAAGAAATGCACAATTGTCGTAGGCCTTGCAAATAAAATGGAGGAGAGACACCA
66 GATGAGAAGATTAAGAAGTGCACATTTGTTGTAGGCCTTGCAAATAAAATGGAGGAGAGACACCA
* * * * *
15148412 TGC-AAA-TTAGTTAAAAAGGACTAGTTATGACTATTTCGATTTTAAGTATTAAATTGAATAAAA
131 TACAAAAGTTAGTTAAAAAGGACTAATTATGACTATTTCAATTTTAAGGACTAAATTGAATAAAA
* * * * *
15148475 TGTAAAACTTTAAGGGGCATATGAATAATGAAATCAAACTGATACATACCTATAATAGATTTTTC
196 TGTAAAACTTTAAGGGGAAAACGAATAATGAAATCAAACTGATACATACATATAATAGATTTTTA
** * *
15148540 TAAGATGTTTTTAATTAATAAATCAAACTGAATTGTTATATAGATCGGGAATTTAACCAAGATTA
261 TAAGATGTTTGGAATTAATAAATCAAACTGAATTGTTATATAGATCGGGAATTGAACCAAGATGA
* * *
15148605 TCATGTTTTTATATCTACTAATTCAACAGTTGTTGAGATATATGTCGTTGTGCATGG-TCAGATA
326 TCATGCTTTTATATCTACTAATCCAACAGTTGTTGAGAGATATGTCGTTGTGCATGGCT-AGATA
15148669 ATACTACAACTCTTTGTAGAGTATCCTAATGAGAAGATTAAGAA-TAACACATTTTTCGTAGGCC
390 ATACTACAACTCTTTGTAGAGTATCCTAATGAGAAGA-TAAGAAGT-ACACATTTTTCGTAGGCC
* *
15148733 ATACAAATAAAATGGAAG-AGAAACACCATACAAAATGGTTAGTTAAAAAGGACTAGTTATGACT
453 ATACAAATAAAATGG-AGTAGAAACACCATACAAAATGATTAGTTAAAAAGAACTAGTTATGACT
* * *
15148797 ATTTCGATTTTAGGGACTAAATTGAATAAAATGTGAAACTTTAAGGGGCATACAAATAATGAAAT
517 ATTTCGATTTTAGAGACTAAATTGAATAAAATGTAAAACTTTAAGGGGCATACAAATAATAAAAT
* *
15148862 TGAATTGATACATATATATAATAGATTGTTATAAGATGTTTGAAATTGATAAATCGAACTGAATT
582 TGAACTGATACATACATATAATAGATTGTTATAAGATGTTTGAAATTGATAAATCGAACTGAATT
* * * *
15148927 GTTATATAGATCGAGAATTGAACCAAGATGATTATGCTTTTATAAATACTGACTAAA
647 GTTATATAAATCGAGAACTGAACCAAGATGATCATGCTTTTATAAATACTAACTAAA
* * * * *
15148984 CAACTATTGAAAGATATATCATTGTGTATGGTCAA-ATAATACTACAACTCTTTGTAGAGTATCC
1 CAACTGTTGAGAGATATGTCGTTGTGCATGGT-AAGATAATACTACAACTCTTTGTAGAGTATCC
* * *
15149048 TGATGAGAAGATTAATAAGTGCACATTTGTTGTAGACCTTACAAATA
65 TGATGAGAAGATTAAGAAGTGCACATTTGTTGTAGGCCTTGCAAATA
15149095 TCGTTCCAAC
Statistics
Matches: 713, Mismatches: 91, Indels: 18
0.87 0.11 0.02
Matches are distributed among these distances:
700 1 0.00
701 256 0.36
702 365 0.51
703 6 0.01
704 4 0.01
705 81 0.11
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.33
Consensus pattern (703 bp):
CAACTGTTGAGAGATATGTCGTTGTGCATGGTAAGATAATACTACAACTCTTTGTAGAGTATCCT
GATGAGAAGATTAAGAAGTGCACATTTGTTGTAGGCCTTGCAAATAAAATGGAGGAGAGACACCA
TACAAAAGTTAGTTAAAAAGGACTAATTATGACTATTTCAATTTTAAGGACTAAATTGAATAAAA
TGTAAAACTTTAAGGGGAAAACGAATAATGAAATCAAACTGATACATACATATAATAGATTTTTA
TAAGATGTTTGGAATTAATAAATCAAACTGAATTGTTATATAGATCGGGAATTGAACCAAGATGA
TCATGCTTTTATATCTACTAATCCAACAGTTGTTGAGAGATATGTCGTTGTGCATGGCTAGATAA
TACTACAACTCTTTGTAGAGTATCCTAATGAGAAGATAAGAAGTACACATTTTTCGTAGGCCATA
CAAATAAAATGGAGTAGAAACACCATACAAAATGATTAGTTAAAAAGAACTAGTTATGACTATTT
CGATTTTAGAGACTAAATTGAATAAAATGTAAAACTTTAAGGGGCATACAAATAATAAAATTGAA
CTGATACATACATATAATAGATTGTTATAAGATGTTTGAAATTGATAAATCGAACTGAATTGTTA
TATAAATCGAGAACTGAACCAAGATGATCATGCTTTTATAAATACTAACTAAA
Found at i:15148936 original size:353 final size:353
Alignment explanation
Indices: 15147585--15149094 Score: 2060
Period size: 353 Copynumber: 4.3 Consensus size: 353
15147575 ATAAGCAACC
* * * *
15147585 GTTGAGAGATTTGTCGTTGTGCACGGTCAGAT-A-A-TACAACTCTTTGCAAAGTATCCTGATGA
1 GTTGAGAGATATGTCGTTGTGCATGGTCAGATAATACTACAACTCTTTGTAGAGTATCCTGATGA
* * * *
15147647 GGAGATTAAGAAGTGCACATTTGTT-GTAGGCCTTGCACATAAAATGGAGGAGAGACACCATACA
66 GAAGATTAAGAAGTGCACATTT-TTCGTAGGCCTTACAAATAAAATGGAAGAGAGACACCATACA
* * *
15147711 AAATGGTTATTTAAAAAGGACTAATTATGACTATTTCAATTTTAAGGACTAAATTGAATAAAATG
130 AAATGGTTAGTTAAAAAGGACTAGTTATGACTATTTCGATTTTAAGGACTAAATTGAATAAAATG
* * * * *
15147776 TAAAACTTTAAGGGGAAAACGAATAATGAAATTGAATTGATAGATACATATAATAGATTTTTATA
195 TAAAACTTTAAGGGGCATACGAATAATGAAATTGAACTGATACATACATATAATAGATTGTTATA
* *
15147841 AGATGTTTGGAATTGATAAATTGAACTGAATTGTTATATAGATCGGGAATTGAACCAAGATGATT
260 AGATGTTTGGAATTGATAAATCGAACTGAATTGTTATATAGATCGGGAATTGAACCAAGATGATC
*
15147906 ATGCTTTTATATCTACTAATCCAGCAGTT
325 ATGCTTTTATATCTACTAATCCAACAGTT
* * * *
15147935 GTTGAGAGATGTGTCGTTGTGCATTG-CTAGATAATATTACAACTTTTTGTAGAGTATCCTGATG
1 GTTGAGAGATATGTCGTTGTGCATGGTC-AGATAATACTACAACTCTTTGTAGAGTATCCTGATG
*
15147999 AGAAGA-TAAGAAGTGCACATTTTTCGTAGGCCTTACAAATAAAATGG-AGTAGAGACACCATGC
65 AGAAGATTAAGAAGTGCACATTTTTCGTAGGCCTTACAAATAAAATGGAAG-AGAGACACCATAC
* * *
15148062 AAAATGATTAGTTAAAAAGAACTAGTTATGACTATTTTGATTTT-AGAGACTAAATTGAATAAAA
129 AAAATGGTTAGTTAAAAAGGACTAGTTATGACTATTTCGATTTTAAG-GACTAAATTGAATAAAA
* * *
15148126 TGTAAAACTTTAAGGGGCATATGAATAATAAAATTGAACTGATACATACATATAATGGATTGTTA
193 TGTAAAACTTTAAGGGGCATACGAATAATGAAATTGAACTGATACATACATATAATAGATTGTTA
* * *
15148191 TAAGATGTTTGGAATTGATAAATTGAACTGAATTGTTATATAAATCGGGAACTGAACCAAGATGA
258 TAAGATGTTTGGAATTGATAAATCGAACTGAATTGTTATATAGATCGGGAATTGAACCAAGATGA
* *
15148256 TCATGTTTTTATATCTATTAATCCAACAGTT
323 TCATGCTTTTATATCTACTAATCCAACAGTT
* * * *
15148287 GTTGAGAGATATGTTGTTGTGCATGGTAAGATAATACTACAACTCTTTGTAGAGTATCTTAATGA
1 GTTGAGAGATATGTCGTTGTGCATGGTCAGATAATACTACAACTCTTTGTAGAGTATCCTGATGA
* * * * * *
15148352 GAAGATTAAGAAATGCACAATTGTCGTAGGCCTTGCAAATAAAATGGAGGAGAGACACCATGC-A
66 GAAGATTAAGAAGTGCACATTTTTCGTAGGCCTTACAAATAAAATGGAAGAGAGACACCATACAA
* *
15148416 AA---TTAGTTAAAAAGGACTAGTTATGACTATTTCGATTTTAAGTATTAAATTGAATAAAATGT
131 AATGGTTAGTTAAAAAGGACTAGTTATGACTATTTCGATTTTAAGGACTAAATTGAATAAAATGT
* ** * * *
15148478 AAAACTTTAAGGGGCATATGAATAATGAAATCAAACTGATACATACCTATAATAGATTTTTCTAA
196 AAAACTTTAAGGGGCATACGAATAATGAAATTGAACTGATACATACATATAATAGATTGTTATAA
** * * * *
15148543 GATGTTTTTAATTAATAAATCAAACTGAATTGTTATATAGATCGGGAATTTAACCAAGATTATCA
261 GATGTTTGGAATTGATAAATCGAACTGAATTGTTATATAGATCGGGAATTGAACCAAGATGATCA
* *
15148608 TGTTTTTATATCTACTAATTCAACAGTT
326 TGCTTTTATATCTACTAATCCAACAGTT
* *
15148636 GTTGAGATATATGTCGTTGTGCATGGTCAGATAATACTACAACTCTTTGTAGAGTATCCTAATGA
1 GTTGAGAGATATGTCGTTGTGCATGGTCAGATAATACTACAACTCTTTGTAGAGTATCCTGATGA
* * *
15148701 GAAGATTAAGAA-TAACACATTTTTCGTAGGCCATACAAATAAAATGGAAGAGAAACACCATACA
66 GAAGATTAAGAAGT-GCACATTTTTCGTAGGCCTTACAAATAAAATGGAAGAGAGACACCATACA
*
15148765 AAATGGTTAGTTAAAAAGGACTAGTTATGACTATTTCGATTTTAGGGACTAAATTGAATAAAATG
130 AAATGGTTAGTTAAAAAGGACTAGTTATGACTATTTCGATTTTAAGGACTAAATTGAATAAAATG
* * * *
15148830 TGAAACTTTAAGGGGCATACAAATAATGAAATTGAATTGATACATATATATAATAGATTGTTATA
195 TAAAACTTTAAGGGGCATACGAATAATGAAATTGAACTGATACATACATATAATAGATTGTTATA
* * *
15148895 AGATGTTTGAAATTGATAAATCGAACTGAATTGTTATATAGATCGAGAATTGAACCAAGATGATT
260 AGATGTTTGGAATTGATAAATCGAACTGAATTGTTATATAGATCGGGAATTGAACCAAGATGATC
** * * **
15148960 ATGCTTTTATAAATACTGA-CTAAACAACT
325 ATGCTTTTATATCTACTAATC-CAACAGTT
* * * * * *
15148989 ATTGAAAGATATATCATTGTGTATGGTCAAATAATACTACAACTCTTTGTAGAGTATCCTGATGA
1 GTTGAGAGATATGTCGTTGTGCATGGTCAGATAATACTACAACTCTTTGTAGAGTATCCTGATGA
* *
15149054 GAAGATTAATAAGTGCACATTTGTT-GTAGACCTTACAAATA
66 GAAGATTAAGAAGTGCACATTT-TTCGTAGGCCTTACAAATA
15149095 TCGTTCCAAC
Statistics
Matches: 1022, Mismatches: 119, Indels: 35
0.87 0.10 0.03
Matches are distributed among these distances:
348 1 0.00
349 308 0.30
350 32 0.03
351 6 0.01
352 315 0.31
353 356 0.35
354 4 0.00
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.33
Consensus pattern (353 bp):
GTTGAGAGATATGTCGTTGTGCATGGTCAGATAATACTACAACTCTTTGTAGAGTATCCTGATGA
GAAGATTAAGAAGTGCACATTTTTCGTAGGCCTTACAAATAAAATGGAAGAGAGACACCATACAA
AATGGTTAGTTAAAAAGGACTAGTTATGACTATTTCGATTTTAAGGACTAAATTGAATAAAATGT
AAAACTTTAAGGGGCATACGAATAATGAAATTGAACTGATACATACATATAATAGATTGTTATAA
GATGTTTGGAATTGATAAATCGAACTGAATTGTTATATAGATCGGGAATTGAACCAAGATGATCA
TGCTTTTATATCTACTAATCCAACAGTT
Found at i:15150931 original size:25 final size:25
Alignment explanation
Indices: 15150877--15150931 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
15150867 AATAGTTGAT
*
15150877 TTGAAATGAATTGATTTTGTATATA
1 TTGAAATGAATTGATTATGTATATA
* **
15150902 ATGAAATGTGTTGATTATGTGA-ATA
1 TTGAAATGAATTGATTATGT-ATATA
15150927 TTGAA
1 TTGAA
15150932 TTGACTATAT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
25 23 0.96
26 1 0.04
ACGTcount: A:0.36, C:0.00, G:0.20, T:0.44
Consensus pattern (25 bp):
TTGAAATGAATTGATTATGTATATA
Found at i:15151332 original size:18 final size:18
Alignment explanation
Indices: 15151309--15151363 Score: 76
Period size: 18 Copynumber: 3.0 Consensus size: 18
15151299 GAGATGACAA
15151309 AGATGAGAAATGAATATG
1 AGATGAGAAATGAATATG
15151327 AGATGAGAAATGAAATATG
1 AGATGAGAAATG-AATATG
*
15151346 AAATGATGAAATG-ATATG
1 AGATGA-GAAATGAATATG
15151364 TGAATTGTGA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
18 17 0.50
19 11 0.32
20 6 0.18
ACGTcount: A:0.51, C:0.00, G:0.25, T:0.24
Consensus pattern (18 bp):
AGATGAGAAATGAATATG
Found at i:15151345 original size:19 final size:19
Alignment explanation
Indices: 15151309--15151382 Score: 80
Period size: 19 Copynumber: 3.9 Consensus size: 19
15151299 GAGATGACAA
15151309 AGATGAGAAATG-AATATG
1 AGATGAGAAATGAAATATG
15151327 AGATGAGAAATGAAATATG
1 AGATGAGAAATGAAATATG
* * *
15151346 AAATGATGAAATGATATGTG
1 AGATGA-GAAATGAAATATG
*
15151366 A-ATTGTGAAATGAAATA
1 AGA-TGAGAAATGAAATA
15151383 AGTATTGATC
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
18 12 0.26
19 21 0.45
20 14 0.30
ACGTcount: A:0.50, C:0.00, G:0.24, T:0.26
Consensus pattern (19 bp):
AGATGAGAAATGAAATATG
Found at i:15152829 original size:19 final size:19
Alignment explanation
Indices: 15152805--15152843 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
15152795 CTAATGTATG
15152805 TAATTTCATATGCTATCAT
1 TAATTTCATATGCTATCAT
15152824 TAATTTCATATGCTATCAT
1 TAATTTCATATGCTATCAT
15152843 T
1 T
15152844 TGTCATGTAA
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:0.31, C:0.15, G:0.05, T:0.49
Consensus pattern (19 bp):
TAATTTCATATGCTATCAT
Found at i:15154398 original size:25 final size:25
Alignment explanation
Indices: 15154364--15154433 Score: 131
Period size: 25 Copynumber: 2.8 Consensus size: 25
15154354 CAGGCCCATT
*
15154364 TTCACAGCTCATGTGAGCATTTTGA
1 TTCACAGCTCGTGTGAGCATTTTGA
15154389 TTCACAGCTCGTGTGAGCATTTTGA
1 TTCACAGCTCGTGTGAGCATTTTGA
15154414 TTCACAGCTCGTGTGAGCAT
1 TTCACAGCTCGTGTGAGCAT
15154434 ACATGTACAG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.34
Consensus pattern (25 bp):
TTCACAGCTCGTGTGAGCATTTTGA
Found at i:15156614 original size:69 final size:68
Alignment explanation
Indices: 15156478--15156688 Score: 314
Period size: 69 Copynumber: 3.0 Consensus size: 68
15156468 CAACATTTAT
* * * *
15156478 ATACGAAATTAAACAGCATTTATACACCAAAATTTGGATAGCTTATATACAACAAATGGGCAGCA
1 ATACCAAATTAAACAGCATTT-TACACCAAAATTT-AACAGCATATATACAACAAATGGGCAGCA
15156543 TATAC
64 TATAC
*
15156548 ATACCAAATTTAACAGCACTTTTACACCAAAATTTAACAGCATATATACAACAAATGGGCAGCAT
1 ATACCAAATTAAACAGCA-TTTTACACCAAAATTTAACAGCATATATACAACAAATGGGCAGCAT
15156613 ATAC
65 ATAC
* * *
15156617 ATACCAAATTGAGCAGCATTTTTACACCAAAATTTAACAGCATATATACAACAAATGGGTAGCAT
1 ATACCAAATTAAACAGCA-TTTTACACCAAAATTTAACAGCATATATACAACAAATGGGCAGCAT
15156682 ATAC
65 ATAC
15156686 ATA
1 ATA
15156689 ATACATAATA
Statistics
Matches: 131, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
69 99 0.76
70 29 0.22
71 3 0.02
ACGTcount: A:0.45, C:0.19, G:0.11, T:0.26
Consensus pattern (68 bp):
ATACCAAATTAAACAGCATTTTACACCAAAATTTAACAGCATATATACAACAAATGGGCAGCATA
TAC
Found at i:15156645 original size:23 final size:23
Alignment explanation
Indices: 15156483--15156672 Score: 107
Period size: 24 Copynumber: 8.2 Consensus size: 23
15156473 TTTATATACG
* *
15156483 AAATTAAACAGCATTTATACACC
1 AAATTGAACAGCATATATACACC
* * * *
15156506 AAAATTTGGATAGCTTATATACAAC
1 -AAA-TTGAACAGCATATATACACC
** * *
15156531 AAA-TGGGCAGCATATACATACC
1 AAATTGAACAGCATATATACACC
* *
15156553 AAATTTAACAGCACT-TTTACACC
1 AAATTGAACAGCA-TATATACACC
* *
15156576 AAAATTTAACAGCATATATACAAC
1 -AAATTGAACAGCATATATACACC
** * *
15156600 AAA-TGGGCAGCATATACATACC
1 AAATTGAACAGCATATATACACC
* * *
15156622 AAATTGAGCAGCATTTTTACACC
1 AAATTGAACAGCATATATACACC
* *
15156645 AAAATTTAACAGCATATATACAAC
1 -AAATTGAACAGCATATATACACC
15156669 AAAT
1 AAAT
15156673 GGGTAGCATA
Statistics
Matches: 123, Mismatches: 36, Indels: 15
0.71 0.21 0.09
Matches are distributed among these distances:
22 32 0.26
23 33 0.27
24 44 0.36
25 14 0.11
ACGTcount: A:0.45, C:0.19, G:0.09, T:0.26
Consensus pattern (23 bp):
AAATTGAACAGCATATATACACC
Found at i:15156694 original size:7 final size:8
Alignment explanation
Indices: 15156680--15156722 Score: 54
Period size: 7 Copynumber: 5.5 Consensus size: 8
15156670 AATGGGTAGC
15156680 ATATACAT
1 ATATACAT
15156688 A-ATACAT
1 ATATACAT
15156695 A-ATACAT
1 ATATACAT
15156702 CATATACAT
1 -ATATACAT
*
15156711 ATATACAC
1 ATATACAT
15156719 ATAT
1 ATAT
15156723 TACTTTCAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
7 13 0.41
8 13 0.41
9 6 0.19
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.33
Consensus pattern (8 bp):
ATATACAT
Found at i:15156701 original size:14 final size:17
Alignment explanation
Indices: 15156680--15156722 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
15156670 AATGGGTAGC
15156680 ATATACAT-A-ATACAT
1 ATATACATCATATACAT
15156695 A-ATACATCATATACAT
1 ATATACATCATATACAT
15156711 ATATACA-CATAT
1 ATATACATCATAT
15156723 TACTTTCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 6 0.24
15 2 0.08
16 12 0.48
17 5 0.20
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.33
Consensus pattern (17 bp):
ATATACATCATATACAT
Found at i:15157585 original size:41 final size:41
Alignment explanation
Indices: 15157510--15157657 Score: 188
Period size: 41 Copynumber: 3.6 Consensus size: 41
15157500 ACACTGGTAT
* * * *
15157510 AAAGCCTGCTAGGCACAAAGCCCGATACATTTCACCGGCAC
1 AAAGCCTGCTAGGCATAAAGCCTGATATAATTCACCGGCAC
* * *
15157551 AAAGCCTGCTAGACATAAAGTCTGATATAATTCACCGGCAT
1 AAAGCCTGCTAGGCATAAAGCCTGATATAATTCACCGGCAC
* *
15157592 AGAGCCTGCTAGGCATAAAGCTTGATATAATTCACCGGCAC
1 AAAGCCTGCTAGGCATAAAGCCTGATATAATTCACCGGCAC
** *
15157633 TGAGCTTGCTAGGCATAAAGCCTGA
1 AAAGCCTGCTAGGCATAAAGCCTGA
15157658 ACTTACGAAA
Statistics
Matches: 92, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 92 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (41 bp):
AAAGCCTGCTAGGCATAAAGCCTGATATAATTCACCGGCAC
Found at i:15166402 original size:43 final size:41
Alignment explanation
Indices: 15166329--15166456 Score: 132
Period size: 41 Copynumber: 3.0 Consensus size: 41
15166319 TTAGAAGGCT
* * *
15166329 CATACAATGCCATCGTCCCAGACGTGGTCTTACATGTAATCA
1 CATACAATGCCATTGTCCCAGAC-AGGTCTTACACGTAATCA
* *
15166371 CATATCAATGCCATTGTCCTAGACAGAGTCTTACACG-AATTA
1 CATA-CAATGCCATTGTCCCAGACAG-GTCTTACACGTAATCA
* * * *
15166413 AATACGATGCCAATGTCCCAGACATGGTCTTACACGTAAACA
1 CATACAATGCCATTGTCCCAGACA-GGTCTTACACGTAATCA
15166455 CA
1 CA
15166457 AATCGAAGGT
Statistics
Matches: 70, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
41 27 0.39
42 17 0.24
43 26 0.37
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.25
Consensus pattern (41 bp):
CATACAATGCCATTGTCCCAGACAGGTCTTACACGTAATCA
Found at i:15167359 original size:26 final size:26
Alignment explanation
Indices: 15167330--15167383 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
15167320 GTTTGTCTTT
*
15167330 TATTATAATAA-GTTTATAATATAATA
1 TATTATAATAACCTTTATAA-ATAATA
*
15167356 TATTATTATAACCTTTATAAATAATA
1 TATTATAATAACCTTTATAAATAATA
15167382 TA
1 TA
15167384 AAACTATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 18 0.72
27 7 0.28
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (26 bp):
TATTATAATAACCTTTATAAATAATA
Found at i:15173251 original size:17 final size:19
Alignment explanation
Indices: 15173204--15173246 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
15173194 TAAAATATAA
15173204 ATTTTAGAAATTTTATAAAT
1 ATTTTA-AAATTTTATAAAT
*
15173224 ATTTTAAAATTTTA-AATT
1 ATTTTAAAATTTTATAAAT
15173242 ATTTT
1 ATTTT
15173247 GAATTATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.36
19 8 0.36
20 6 0.27
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (19 bp):
ATTTTAAAATTTTATAAAT
Found at i:15173346 original size:9 final size:9
Alignment explanation
Indices: 15173332--15173365 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
15173322 ATACCAATAT
15173332 GTTATTTGA
1 GTTATTTGA
15173341 GTTATTTGA
1 GTTATTTGA
* *
15173350 ATTATTCGA
1 GTTATTTGA
15173359 GTTATTT
1 GTTATTT
15173366 AAATTGTAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.24, C:0.03, G:0.18, T:0.56
Consensus pattern (9 bp):
GTTATTTGA
Found at i:15173360 original size:18 final size:18
Alignment explanation
Indices: 15173333--15173370 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
15173323 TACCAATATG
* *
15173333 TTATTTGAGTTATTTGAA
1 TTATTCGAGTTATTTAAA
15173351 TTATTCGAGTTATTTAAA
1 TTATTCGAGTTATTTAAA
15173369 TT
1 TT
15173371 GTAAAATTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.29, C:0.03, G:0.13, T:0.55
Consensus pattern (18 bp):
TTATTCGAGTTATTTAAA
Found at i:15174727 original size:2 final size:2
Alignment explanation
Indices: 15174722--15174758 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
15174712 AGATATATAT
15174722 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
15174759 TGCTTCTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:15176569 original size:17 final size:18
Alignment explanation
Indices: 15176547--15176587 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
15176537 ATGTATAAGT
15176547 ATGTATAT-TAATTA-AAA
1 ATGTATATGT-ATTATAAA
*
15176564 ATGTATGTGTATTATAAA
1 ATGTATATGTATTATAAA
15176582 ATGTAT
1 ATGTAT
15176588 GCATGTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (18 bp):
ATGTATATGTATTATAAA
Found at i:15176569 original size:21 final size:18
Alignment explanation
Indices: 15176545--15176588 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
15176535 ACATGTATAA
15176545 GTATGTATATTAATTAAAAAT
1 GTATGTATATT-A-T-AAAAT
*
15176566 GTATGTGTATTATAAAAT
1 GTATGTATATTATAAAAT
15176584 GTATG
1 GTATG
15176589 CATGTATATG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 10 0.45
19 1 0.05
20 1 0.05
21 10 0.45
ACGTcount: A:0.41, C:0.00, G:0.16, T:0.43
Consensus pattern (18 bp):
GTATGTATATTATAAAAT
Found at i:15176691 original size:2 final size:2
Alignment explanation
Indices: 15176684--15176718 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
15176674 TAATTTTTAA
*
15176684 AT AT AT AT AT AT TT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15176719 AAATAAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:15177461 original size:17 final size:17
Alignment explanation
Indices: 15177441--15177477 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
15177431 AAAATAAAAG
15177441 AAATAAAAATATAATGA
1 AAATAAAAATATAATGA
15177458 AAATAAAAATATAATGA
1 AAATAAAAATATAATGA
15177475 AAA
1 AAA
15177478 CAAGAACTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (17 bp):
AAATAAAAATATAATGA
Found at i:15177652 original size:19 final size:19
Alignment explanation
Indices: 15177614--15177652 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
15177604 CGACTCTCTA
* *
15177614 TTCTATTGTTTTTTTTTGT
1 TTCTATTGTTTTCTTCTGT
*
15177633 TTCTGTTGTTTTCTTCTGT
1 TTCTATTGTTTTCTTCTGT
15177652 T
1 T
15177653 GTCTTTTAGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.03, C:0.10, G:0.13, T:0.74
Consensus pattern (19 bp):
TTCTATTGTTTTCTTCTGT
Found at i:15178570 original size:130 final size:128
Alignment explanation
Indices: 15178339--15178646 Score: 501
Period size: 130 Copynumber: 2.4 Consensus size: 128
15178329 ATATGATTCA
* * *
15178339 TGGTTTTAATCCGCTCCACTGCAACTTCAAGGAGATAGGATTGG-TTTCTTTTGTCTGCTGCACT
1 TGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTTTTTTTGTCTGCTCCACT
* *
15178403 ACTGCTTAGAGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGAGAGATAAGATCTG
66 ACTGCTTAGAGAGATAAGAATTGATGCGATCTACTCCACTACTGCTTAGAGAGATAAGATCTG
15178466 TGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGCTTTTTTTTCTGTCTGCTCCA
1 TGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGG-TTTTTTTT-TGTCTGCTCCA
* * *
15178531 CTACTGCTTAGGGAGATAAGAATTGATGCGATCTACTCCACTACTGCTTAGGGATATAAGATCTG
64 CTACTGCTTAGAGAGATAAGAATTGATGCGATCTACTCCACTACTGCTTAGAGAGATAAGATCTG
* *
15178596 TGGTTTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGATTGATTTTTTT
1 TGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTTTTT
15178647 CAAATTGACT
Statistics
Matches: 168, Mismatches: 10, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
127 43 0.26
129 13 0.08
130 112 0.67
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.34
Consensus pattern (128 bp):
TGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTTTTTTTGTCTGCTCCACT
ACTGCTTAGAGAGATAAGAATTGATGCGATCTACTCCACTACTGCTTAGAGAGATAAGATCTG
Found at i:15178858 original size:99 final size:99
Alignment explanation
Indices: 15178654--15178877 Score: 265
Period size: 99 Copynumber: 2.3 Consensus size: 99
15178644 TTTCAAATTG
* * * *
15178654 ACTGTAATGTCAGGGAA-CAAGATTCACCGTTGTAGCTTTAATATGTTCCACTGCACCGCCAGGG
1 ACTGCAATGTC-GGGAAGCAAGATTCACCGTCGTAGCTTCAATATGCTCCACTGCACCGCCAGGG
*
15178718 AAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTTA
65 AAGTAAGATTCGCCGTTGCAGCTTCAATCTTTTTA
* * * * * *
15178753 ATTGCAATGTTGAGGAAGCAAGATTTACCGTCGTAGCTTCAATCTGCTCCACTGCACTGCC-TGG
1 ACTGCAATGTCG-GGAAGCAAGATTCACCGTCGTAGCTTCAATATGCTCCACTGCACCGCCAGGG
* * *
15178817 -AGATAAGATTCGCTGTTGTAGCTTTAATCTTTTTA
65 AAG-TAAGATTCGCCGTTGCAGCTTCAATCTTTTTA
15178852 ACTGCAATGTCGGGAAAGCAAGATTC
1 ACTGCAATGTCGGG-AAGCAAGATTC
15178878 GTTGTTATGG
Statistics
Matches: 104, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
98 5 0.05
99 62 0.60
100 37 0.36
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (99 bp):
ACTGCAATGTCGGGAAGCAAGATTCACCGTCGTAGCTTCAATATGCTCCACTGCACCGCCAGGGA
AGTAAGATTCGCCGTTGCAGCTTCAATCTTTTTA
Found at i:15178896 original size:99 final size:98
Alignment explanation
Indices: 15178654--15178933 Score: 259
Period size: 99 Copynumber: 2.8 Consensus size: 98
15178644 TTTCAAATTG
* * * * * *
15178654 ACTGTAATGTC-AGGGAA-CAAGATTCACCGTTGTAGCTTTAATATGTTCCACTGCACCGCCAGG
1 ACTGCAATGTCGA-GGAAGCAAGATTTA-CGTCGTAGCTTTAATCTGTTCCACTGCACTGCCTGG
* *
15178717 -GAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTTA
64 AG-A-TAAGATTCGCTGTTGCAGCTTCAATCTTTTTA
* * * *
15178753 ATTGCAATGTTGAGGAAGCAAGATTTACCGTCGTAGCTTCAATCTGCTCCACTGCACTGCCTGGA
1 ACTGCAATGTCGAGGAAGCAAGATTTA-CGTCGTAGCTTTAATCTGTTCCACTGCACTGCCTGGA
* *
15178818 GATAAGATTCGCTGTTGTAGCTTTAATCTTTTTA
65 GATAAGATTCGCTGTTGCAGCTTCAATCTTTTTA
* *
15178852 ACTGCAATGTCG-GGAAAGCAAGA-TT-CGTTGTTATGGCTTTAATCTGTTCCACTACA-TCGCC
1 ACTGCAATGTCGAGG-AAGCAAGATTTACGTCG-TA--GCTTTAATCTGTTCCACTGCACT-GCC
*
15178913 TGGGAGATAAGATTCGATGTT
61 T-GGAGATAAGATTCGCTGTT
15178934 CTTAGTCTGC
Statistics
Matches: 151, Mismatches: 21, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
96 4 0.03
97 2 0.01
98 5 0.03
99 80 0.53
100 59 0.39
101 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (98 bp):
ACTGCAATGTCGAGGAAGCAAGATTTACGTCGTAGCTTTAATCTGTTCCACTGCACTGCCTGGAG
ATAAGATTCGCTGTTGCAGCTTCAATCTTTTTA
Found at i:15178969 original size:45 final size:44
Alignment explanation
Indices: 15178914--15179014 Score: 114
Period size: 44 Copynumber: 2.3 Consensus size: 44
15178904 TACATCGCCT
* *
15178914 GGGAGATAAGA-TTCGATGTTCTTAGTCTGCCCCACTGCAACTTCA
1 GGGAGATAAGACTT-G-TGTTCTCAGTCTGCCCCACTGCAACCTCA
* * * * *
15178959 GGGGGATAAGACTTGTTTTCTCGGTCTGCTCCGCTGCAACCTCA
1 GGGAGATAAGACTTGTGTTCTCAGTCTGCCCCACTGCAACCTCA
15179003 GGGAGATAAGAC
1 GGGAGATAAGAC
15179015 CTGATGTGAT
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
44 34 0.72
45 11 0.23
46 2 0.04
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.27
Consensus pattern (44 bp):
GGGAGATAAGACTTGTGTTCTCAGTCTGCCCCACTGCAACCTCA
Found at i:15179094 original size:44 final size:44
Alignment explanation
Indices: 15179036--15179287 Score: 183
Period size: 44 Copynumber: 5.8 Consensus size: 44
15179026 TACTCTGCTG
* *
15179036 CAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTA
1 CAACTTCAGGGAGATAAGATCTATTACTTCAATCCGCTCCACTA
* ** *
15179080 CAATTTCAGGGAGATAAGAT-TATCGGCTTCAATCTGCTCCACTA
1 CAACTTCAGGGAGATAAGATCTAT-TACTTCAATCCGCTCCACTA
* * * ** * * *
15179124 CAACCTCAGGGGGATAAGATTTACCATCTTCGATCTGCCCCACTA
1 CAACTTCAGGGAGATAAGATCTATTA-CTTCAATCCGCTCCACTA
* * * * * * * *
15179169 CAACTTCAGGGGGATAAAACCTA--A-TGCGATCCACTCTACTG
1 CAACTTCAGGGAGATAAGATCTATTACTTCAATCCGCTCCACTA
* * *
15179210 CAACTTCAGAGAGATAAGATCTATTACTTTAATTCGCTCCAAC-A
1 CAACTTCAGGGAGATAAGATCTATTACTTCAATCCGCTCC-ACTA
* *
15179254 CAACTTCAGGGAGATAGGAT-TATCAGCTTCAATC
1 CAACTTCAGGGAGATAAGATCTATTA-CTTCAATC
15179288 TGCTTCATTA
Statistics
Matches: 160, Mismatches: 40, Indels: 16
0.74 0.19 0.07
Matches are distributed among these distances:
41 30 0.19
43 9 0.06
44 82 0.51
45 39 0.24
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (44 bp):
CAACTTCAGGGAGATAAGATCTATTACTTCAATCCGCTCCACTA
Found at i:15179171 original size:45 final size:44
Alignment explanation
Indices: 15179074--15179185 Score: 143
Period size: 45 Copynumber: 2.5 Consensus size: 44
15179064 TTAATCCGCT
* * * * *
15179074 CCACTACAATTTCAGGGAGATAAGATTATCGGCTTCAATCTGCT
1 CCACTACAACTTCAGGGGGATAAGATTACCAGCTTCAATCTGCC
* * *
15179118 CCACTACAACCTCAGGGGGATAAGATTTACCATCTTCGATCTGCC
1 CCACTACAACTTCAGGGGGATAAGA-TTACCAGCTTCAATCTGCC
15179163 CCACTACAACTTCAGGGGGATAA
1 CCACTACAACTTCAGGGGGATAA
15179186 AACCTAATGC
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
44 22 0.38
45 36 0.62
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (44 bp):
CCACTACAACTTCAGGGGGATAAGATTACCAGCTTCAATCTGCC
Found at i:15179563 original size:129 final size:129
Alignment explanation
Indices: 15179279--15179872 Score: 974
Period size: 129 Copynumber: 4.6 Consensus size: 129
15179269 AGGATTATCA
* * *
15179279 GCTTCAATCTGCTTCATTACACTTGAAGATAAGATTCGCCGTCTTCGATCTACTCCGCTACTGCT
1 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCT
* ** * *
15179344 TAGAGAGACAAGATCTGTAATTT-CCAACCTATTCCACTACTGACCAAGGATATAGGACTTGTG
66 TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGTTGACCAGGGATATAGGGCTTGTG
* * *
15179407 TCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCAATCTGCTCTGCTACTGCT
1 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCT
15179472 TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGTTGACCAGGGATATAGGGCTTGTG
66 TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGTTGACCAGGGATATAGGGCTTGTG
* *
15179536 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGAGTCACCGTCTTCGATCTGCTCCGCTACTGCT
1 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCT
**
15179601 TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGTTGGTCAGGGATATAGGGCTTGTG
66 TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGTTGACCAGGGATATAGGGCTTGTG
* *
15179665 GCTTAAATCTGCTTCCTTACACTTGAAGATAATATTTGCCGTCTTCGATCTGCTCCGCTACTGCT
1 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCT
* * ** *
15179730 TAGGAAGACAAGATCTATAATTTCCCAACCTATTCCACTGTTGGTCAGAGATATAGGGCTTGTG
66 TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGTTGACCAGGGATATAGGGCTTGTG
*
15179794 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGTTCCGCTACTGCT
1 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCT
15179859 TAGGGAGACAAGAT
66 TAGGGAGACAAGAT
15179873 ATGCTATCTT
Statistics
Matches: 436, Mismatches: 29, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
128 81 0.19
129 355 0.81
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (129 bp):
GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCT
TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGTTGACCAGGGATATAGGGCTTGTG
Found at i:15182066 original size:6 final size:6
Alignment explanation
Indices: 15182050--15182133 Score: 86
Period size: 6 Copynumber: 14.7 Consensus size: 6
15182040 CCTTCTCTCT
* * ** *
15182050 TTTTCA TTTTGA CTTTGA TTTTGA TTTTGA TTTTTC TTTT-- TTTTTA
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA
*
15182096 TTTTTA TTTTGA TTTTGA TTTTGA TTTT-- TTTTGA TTTT
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTT
15182134 TTTGTTTTTT
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
4 8 0.12
6 60 0.88
ACGTcount: A:0.13, C:0.04, G:0.10, T:0.74
Consensus pattern (6 bp):
TTTTGA
Found at i:15182098 original size:16 final size:16
Alignment explanation
Indices: 15182074--15182147 Score: 80
Period size: 16 Copynumber: 4.6 Consensus size: 16
15182064 TTGATTTTGA
*
15182074 TTTTGATTTTTCTTTT
1 TTTTGATTTTTATTTT
*
15182090 TTTTTATTTTTATTTT
1 TTTTGATTTTTATTTT
*
15182106 GATTTTGATTTTGATTTT
1 --TTTTGATTTTTATTTT
15182124 TTTTGATTTTT-TTGTT
1 TTTTGATTTTTATT-TT
15182140 TTTT-ATTT
1 TTTTGATTT
15182148 GAAAGGATCT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
15 6 0.12
16 30 0.60
18 14 0.28
ACGTcount: A:0.11, C:0.01, G:0.08, T:0.80
Consensus pattern (16 bp):
TTTTGATTTTTATTTT
Found at i:15182099 original size:40 final size:40
Alignment explanation
Indices: 15182049--15182124 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
15182039 TCCTTCTCTC
15182049 TTTTTCATTTTGACTTTGATTTTGATTTTGATTTTTCTTT
1 TTTTTCATTTTGACTTTGATTTTGATTTTGATTTTTCTTT
* * *
15182089 TTTTTTATTTTTATTTTGATTTTGATTTTGATTTTT
1 TTTTTCATTTTGACTTTGATTTTGATTTTGATTTTT
15182125 TTTGATTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.13, C:0.04, G:0.09, T:0.74
Consensus pattern (40 bp):
TTTTTCATTTTGACTTTGATTTTGATTTTGATTTTTCTTT
Found at i:15182107 original size:34 final size:34
Alignment explanation
Indices: 15182056--15182134 Score: 113
Period size: 34 Copynumber: 2.3 Consensus size: 34
15182046 CTCTTTTTCA
* * **
15182056 TTTTGACTTTGATTTTGATTTTGATTTTTCTTTT
1 TTTTGATTTTTATTTTGATTTTGATTTTGATTTT
*
15182090 TTTTTATTTTTATTTTGATTTTGATTTTGATTTT
1 TTTTGATTTTTATTTTGATTTTGATTTTGATTTT
15182124 TTTTGATTTTT
1 TTTTGATTTTT
15182135 TTGTTTTTTA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.13, C:0.03, G:0.10, T:0.75
Consensus pattern (34 bp):
TTTTGATTTTTATTTTGATTTTGATTTTGATTTT
Found at i:15182127 original size:28 final size:29
Alignment explanation
Indices: 15182050--15182133 Score: 91
Period size: 28 Copynumber: 2.9 Consensus size: 29
15182040 CCTTCTCTCT
* *
15182050 TTTTCATTTTGACTTTGATTTTGATTTTGA
1 TTTTGATTTTGA-TTTTATTTTGATTTTGA
** * *
15182080 TTTTTCTTTT-TTTTTATTTTTATTTTGA
1 TTTTGATTTTGATTTTATTTTGATTTTGA
15182108 TTTTGATTTTGATTTT-TTTTGATTTT
1 TTTTGATTTTGATTTTATTTTGATTTT
15182134 TTTGTTTTTT
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
28 32 0.73
29 4 0.09
30 8 0.18
ACGTcount: A:0.13, C:0.04, G:0.10, T:0.74
Consensus pattern (29 bp):
TTTTGATTTTGATTTTATTTTGATTTTGA
Found at i:15182134 original size:40 final size:41
Alignment explanation
Indices: 15182049--15182134 Score: 122
Period size: 40 Copynumber: 2.1 Consensus size: 41
15182039 TCCTTCTCTC
15182049 TTTTTCATTTTGACTTTGATTTTGATTTTGATTTTTCTTT-
1 TTTTTCATTTTGACTTTGATTTTGATTTTGATTTTTCTTTA
* * *
15182089 TTTTTTATTTTTATTTTGATTTTGATTTTGATTTTT-TTTGA
1 TTTTTCATTTTGACTTTGATTTTGATTTTGATTTTTCTTT-A
15182130 TTTTT
1 TTTTT
15182135 TTGTTTTTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
39 3 0.07
40 33 0.80
41 5 0.12
ACGTcount: A:0.13, C:0.03, G:0.09, T:0.74
Consensus pattern (41 bp):
TTTTTCATTTTGACTTTGATTTTGATTTTGATTTTTCTTTA
Found at i:15186445 original size:17 final size:18
Alignment explanation
Indices: 15186423--15186463 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
15186413 ATGTATAAGT
15186423 ATGTATAT-TAATTA-AAA
1 ATGTATATGT-ATTATAAA
*
15186440 ATGTATGTGTATTATAAA
1 ATGTATATGTATTATAAA
15186458 ATGTAT
1 ATGTAT
15186464 GCATGTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (18 bp):
ATGTATATGTATTATAAA
Found at i:15186445 original size:21 final size:18
Alignment explanation
Indices: 15186421--15186464 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
15186411 ACATGTATAA
15186421 GTATGTATATTAATTAAAAAT
1 GTATGTATATT-A-T-AAAAT
*
15186442 GTATGTGTATTATAAAAT
1 GTATGTATATTATAAAAT
15186460 GTATG
1 GTATG
15186465 CATGTATATG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 10 0.45
19 1 0.05
20 1 0.05
21 10 0.45
ACGTcount: A:0.41, C:0.00, G:0.16, T:0.43
Consensus pattern (18 bp):
GTATGTATATTATAAAAT
Found at i:15186477 original size:6 final size:6
Alignment explanation
Indices: 15186466--15186492 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
15186456 AAATGTATGC
15186466 ATGTAT ATGTAT ATGTAT ATGTAT ATG
1 ATGTAT ATGTAT ATGTAT ATGTAT ATG
15186493 ACAAAATCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (6 bp):
ATGTAT
Found at i:15188512 original size:39 final size:40
Alignment explanation
Indices: 15188469--15188556 Score: 101
Period size: 39 Copynumber: 2.2 Consensus size: 40
15188459 GTAAAACTAT
* * * *
15188469 TACTCAAATTCC-TCTTGTAAAATCAA-TTATGTATCTAAA
1 TACTCAAATTCCGTATTGAAAAATCAACTT-TGTAACCAAA
*
15188508 TACTC-AACTCCGTATTGAAAAATCAACTTTGTAACCAAA
1 TACTCAAATTCCGTATTGAAAAATCAACTTTGTAACCAAA
15188547 TACTCAAATT
1 TACTCAAATT
15188557 TCACTTGAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
38 5 0.12
39 30 0.75
40 5 0.12
ACGTcount: A:0.40, C:0.20, G:0.06, T:0.34
Consensus pattern (40 bp):
TACTCAAATTCCGTATTGAAAAATCAACTTTGTAACCAAA
Found at i:15189041 original size:39 final size:39
Alignment explanation
Indices: 15188971--15189092 Score: 136
Period size: 39 Copynumber: 3.1 Consensus size: 39
15188961 CTAGAACTAT
* * * *
15188971 TACTCAAATTCATATTGGAAACCCAATTTTGTATCCAAA
1 TACTTAAATTCATATTGGAAACTCAACTTTGTAACCAAA
* *
15189010 TACTTAACTTCATATTGGAAACTCAACTTTGTAACAAAA
1 TACTTAAATTCATATTGGAAACTCAACTTTGTAACCAAA
* * ** * *
15189049 TACTCAAATTCCTCCTGAAAACTCAACTTTATAACCAAA
1 TACTTAAATTCATATTGGAAACTCAACTTTGTAACCAAA
15189088 TACTT
1 TACTT
15189093 TGTAAAAATT
Statistics
Matches: 68, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 68 1.00
ACGTcount: A:0.39, C:0.22, G:0.06, T:0.33
Consensus pattern (39 bp):
TACTTAAATTCATATTGGAAACTCAACTTTGTAACCAAA
Found at i:15191481 original size:18 final size:18
Alignment explanation
Indices: 15191441--15191480 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
15191431 TGACCAAATG
15191441 TAAAATAAATATTGTTAT
1 TAAAATAAATATTGTTAT
15191459 TAAAATAAATATT-TTAT
1 TAAAATAAATATTGTTAT
15191476 TAAAA
1 TAAAA
15191481 AGAAACAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (18 bp):
TAAAATAAATATTGTTAT
Found at i:15192655 original size:37 final size:39
Alignment explanation
Indices: 15192605--15192696 Score: 109
Period size: 39 Copynumber: 2.4 Consensus size: 39
15192595 CGGATAGATT
* * *
15192605 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTACCAACTATTGCTTCGAACTAT-C
**
15192642 CGATGAGGCACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTACCAACTATTGCTTCGAACTATC
15192681 CGATGAGGCACTGGGT
1 CGATGAGGCACTGGGT
15192697 GCCATACTGG
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
37 20 0.43
38 2 0.04
39 22 0.47
40 3 0.06
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.28
Consensus pattern (39 bp):
CGATGAGGCACTGGGTACCAACTATTGCTTCGAACTATC
Found at i:15197938 original size:17 final size:18
Alignment explanation
Indices: 15197918--15197951 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
15197908 AAAGAAGAGA
15197918 TAAAAGAAA-AAAAATTT
1 TAAAAGAAATAAAAATTT
*
15197935 TAAAATAAATAAAAATT
1 TAAAAGAAATAAAAATT
15197952 GAAACAATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (18 bp):
TAAAAGAAATAAAAATTT
Found at i:15198340 original size:22 final size:22
Alignment explanation
Indices: 15198315--15198357 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
15198305 ACACCAAAAC
* *
15198315 AGGCTTTTAGCGGTGCTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
15198337 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
15198358 AGCGCCGCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.09, C:0.19, G:0.28, T:0.44
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:15198529 original size:43 final size:42
Alignment explanation
Indices: 15198482--15198626 Score: 166
Period size: 43 Copynumber: 3.4 Consensus size: 42
15198472 AGACTAAGAG
* *
15198482 CTTTAGCGGCGTTTTTAATAGAACCGCCGCTATAGAT-TGGTGT
1 CTTTAGCGGCGTTTTT-ATAGAAGCGCCGCTATAGATCAGG-GT
* *
15198525 CTTTAGCGGCGTTTTTGTTGAAAGCGCCGCTATAGATCAGGGT
1 CTTTAGCGGCGTTTTTATAG-AAGCGCCGCTATAGATCAGGGT
* * * *
15198568 CTGTAGCGGCGTTTTTTATATAAGCGCCACTATAGATCAGGGC
1 CTTTAGCGGCG-TTTTTATAGAAGCGCCGCTATAGATCAGGGT
*
15198611 CTTTAGCGGCGCTTTT
1 CTTTAGCGGCGTTTTT
15198627 CCCAAAAACG
Statistics
Matches: 87, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
42 6 0.07
43 73 0.84
44 8 0.09
ACGTcount: A:0.19, C:0.20, G:0.27, T:0.34
Consensus pattern (42 bp):
CTTTAGCGGCGTTTTTATAGAAGCGCCGCTATAGATCAGGGT
Found at i:15198639 original size:86 final size:86
Alignment explanation
Indices: 15198485--15198646 Score: 191
Period size: 86 Copynumber: 1.9 Consensus size: 86
15198475 CTAAGAGCTT
* * * * **** *
15198485 TAGCGGCGTTTTTAATAGAACCGCCGCTATAGATTGGTGTCTTTAGCGGCGTTTTTGTTGAAAGC
1 TAGCGGCGTTTTTAATAGAACCGCCACTATAGATAGGTGCCTTTAGCGGCGCTTTTCCCAAAAAC
*
15198550 GCCGCTATAGATCAGGGTCTG
66 GCCGCAATAGATCAGGGTCTG
* * *
15198571 TAGCGGCGTTTTTTATATAAGCGCCACTATAGATCAGG-GCCTTTAGCGGCGCTTTTCCCAAAAA
1 TAGCGGCGTTTTTAATAGAACCGCCACTATAGAT-AGGTGCCTTTAGCGGCGCTTTTCCCAAAAA
15198635 CGCCGCAATAGA
65 CGCCGCAATAGA
15198647 CCCTGATCTA
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
86 60 0.97
87 2 0.03
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.30
Consensus pattern (86 bp):
TAGCGGCGTTTTTAATAGAACCGCCACTATAGATAGGTGCCTTTAGCGGCGCTTTTCCCAAAAAC
GCCGCAATAGATCAGGGTCTG
Found at i:15198646 original size:43 final size:43
Alignment explanation
Indices: 15198549--15198689 Score: 120
Period size: 43 Copynumber: 3.3 Consensus size: 43
15198539 TTGTTGAAAG
* * *** * *
15198549 CGCCGCTATAGATCAGGGTCTGTAGCGGCGTTTTTTATATAAG
1 CGCCGCAATAGATCAGGGTCTATAGCGGCGTTTTTCCCAAAAA
* * * * *
15198592 CGCCACTATAGATCAGGGCCTTTAGCGGCGCTTTTCCCAAAAA
1 CGCCGCAATAGATCAGGGTCTATAGCGGCGTTTTTCCCAAAAA
* ** * * *
15198635 CGCCGCAATAGACCCTGATCTATAGCGGCATTTTTCCCACAAA
1 CGCCGCAATAGATCAGGGTCTATAGCGGCGTTTTTCCCAAAAA
15198678 CGCCGCAATAGA
1 CGCCGCAATAGA
15198690 CCCTGATCTC
Statistics
Matches: 78, Mismatches: 20, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
43 78 1.00
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (43 bp):
CGCCGCAATAGATCAGGGTCTATAGCGGCGTTTTTCCCAAAAA
Found at i:15198858 original size:43 final size:43
Alignment explanation
Indices: 15198614--15198861 Score: 234
Period size: 43 Copynumber: 5.7 Consensus size: 43
15198604 TCAGGGCCTT
15198614 TAGCGGCGCTTTTCCCAAAAACGCCGC-AATAGACCCTGATCTA
1 TAGCGGCGCTTTTCCCAAAAACGCCGCTAA-AGACCCTGATCTA
** * *
15198657 TAGCGGCATTTTTCCCACAAACGCCGC-AATAGACCCTGATCTC
1 TAGCGGCGCTTTTCCCAAAAACGCCGCTAA-AGACCCTGATCTA
* * ** * * *
15198700 TAGCGGCGCTTCTGCCGCAAGCGCCACTAAAGACCCGGATCTA
1 TAGCGGCGCTTTTCCCAAAAACGCCGCTAAAGACCCTGATCTA
* *
15198743 TAGCGGCGCTTAT-CCAGAAAACGCCGCTAAATACCCTTG-TCTATA
1 TAGCGGCGCTTTTCCCA-AAAACGCCGCTAAAGACCC-TGATC--TA
* ** ** *
15198788 TAGCGACGCTTCGCGTAAAAACGCCGCTAAAGACCCTAATCTA
1 TAGCGGCGCTTTTCCCAAAAACGCCGCTAAAGACCCTGATCTA
*
15198831 TAGCGGCGCTTTTACCAAAAACGCCGCTAAA
1 TAGCGGCGCTTTTCCCAAAAACGCCGCTAAA
15198862 TTTGGCAGAT
Statistics
Matches: 165, Mismatches: 33, Indels: 14
0.78 0.16 0.07
Matches are distributed among these distances:
42 2 0.01
43 126 0.76
44 4 0.02
45 32 0.19
46 1 0.01
ACGTcount: A:0.28, C:0.32, G:0.19, T:0.21
Consensus pattern (43 bp):
TAGCGGCGCTTTTCCCAAAAACGCCGCTAAAGACCCTGATCTA
Found at i:15199194 original size:21 final size:21
Alignment explanation
Indices: 15199168--15199221 Score: 108
Period size: 21 Copynumber: 2.6 Consensus size: 21
15199158 TTTGATGCTG
15199168 CTCTGCTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTTTAGC
15199189 CTCTGCTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTTTAGC
15199210 CTCTGCTTCCCT
1 CTCTGCTTCCCT
15199222 TGCTGCAGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.04, C:0.44, G:0.13, T:0.39
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTTTAGC
Found at i:15199231 original size:21 final size:21
Alignment explanation
Indices: 15199168--15199279 Score: 107
Period size: 21 Copynumber: 5.3 Consensus size: 21
15199158 TTTGATGCTG
**
15199168 CTCTGCTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGCAGC
**
15199189 CTCTGCTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGCAGC
*
15199210 CTCTGCTTCCCTTGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* * * *
15199231 CTGTTCTTCTCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
* * *
15199252 CTCTGCTTCTCTTGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
*
15199273 ATCTGCT
1 CTCTGCT
15199280 CTAAGTTGTT
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 79 1.00
ACGTcount: A:0.04, C:0.42, G:0.17, T:0.38
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:15199335 original size:66 final size:66
Alignment explanation
Indices: 15199251--15199397 Score: 215
Period size: 66 Copynumber: 2.2 Consensus size: 66
15199241 CTCGCTGCCG
* * *
15199251 CCTCTGCTTCTCTTGCTGCCGCATCTGCTCTAAGTTGTTGCTGGAGTTCTTCATA-CTTTCGTTG
1 CCTCAGCTTCTCTCGCTGCCGCATCTGCTCTAAGTTGTAGCTGGAGTTCTTCATATCTTT-GTTG
15199315 AA
65 AA
* * *
15199317 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGA
1 CCTCAGCTTCTCTCGCTGCCGCATCTGCTCTAAGTTGTAGCTGGAGTTCTTCATATCTTTGTTGA
15199382 A
66 A
*
15199383 CATCAGCTTCTCTCG
1 CCTCAGCTTCTCTCG
15199398 ATGTTGCTTC
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
66 69 0.95
67 4 0.05
ACGTcount: A:0.14, C:0.27, G:0.18, T:0.41
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGCTGCCGCATCTGCTCTAAGTTGTAGCTGGAGTTCTTCATATCTTTGTTGA
A
Found at i:15199413 original size:66 final size:66
Alignment explanation
Indices: 15199256--15199420 Score: 206
Period size: 66 Copynumber: 2.5 Consensus size: 66
15199246 TGCCGCCTCT
* * * * * * *
15199256 GCTTCTCTTGCTGCCGCATCTGCTCTAAGTTGTTGCTGGAGTTCTTCATACTTTCGTTGAACCTC
1 GCTTCTCTCGATGCTGCATCCGCTTTAAGTTGTAGCTGGAGTTCTTCATACTTTCGTTGAACATC
15199321 A
66 A
* * *
15199322 GCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTT-TTTGAACAT
1 GCTTCTCTCGATGCTGCATCCGCTTTAAGTTGTAGCTGGAGTTCTTCATA-CTTTCGTTGAACAT
15199386 CA
65 CA
* *
15199388 GCTTCTCTCGATGTTGCTTCCGCTTTAAGTTGT
1 GCTTCTCTCGATGCTGCATCCGCTTTAAGTTGT
15199421 GTAATTTGCT
Statistics
Matches: 88, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
66 84 0.95
67 4 0.05
ACGTcount: A:0.14, C:0.25, G:0.19, T:0.42
Consensus pattern (66 bp):
GCTTCTCTCGATGCTGCATCCGCTTTAAGTTGTAGCTGGAGTTCTTCATACTTTCGTTGAACATC
A
Found at i:15204859 original size:16 final size:16
Alignment explanation
Indices: 15204838--15204871 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
15204828 ATAGTTAAGC
15204838 TATGTAAGTTATGTAT
1 TATGTAAGTTATGTAT
*
15204854 TATGTAAGTTATTTAT
1 TATGTAAGTTATGTAT
15204870 TA
1 TA
15204872 CCCAAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (16 bp):
TATGTAAGTTATGTAT
Found at i:15204903 original size:25 final size:25
Alignment explanation
Indices: 15204852--15204907 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
15204842 TAAGTTATGT
* *
15204852 ATTATGTAAGTTATTTATTACCCAA
1 ATTATGTAAGTTATGTATTACCAAA
* **
15204877 ATTATGTAAGTTGTGTATTATGAAA
1 ATTATGTAAGTTATGTATTACCAAA
15204902 ATTATG
1 ATTATG
15204908 CTATGTAAGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.45
Consensus pattern (25 bp):
ATTATGTAAGTTATGTATTACCAAA
Found at i:15204921 original size:9 final size:9
Alignment explanation
Indices: 15204909--15205305 Score: 73
Period size: 9 Copynumber: 45.7 Consensus size: 9
15204899 AAAATTATGC
15204909 TATGTAAGT
1 TATGTAAGT
15204918 TATGTAAGT
1 TATGTAAGT
* **
15204927 CACATAAGT
1 TATGTAAGT
15204936 TATGTAAG-
1 TATGTAAGT
* * *
15204944 -AAGTTATT
1 TATGTAAGT
15204952 TATGTAAGT
1 TATGTAAGT
*
15204961 TAT-TTA-T
1 TATGTAAGT
* *
15204968 TATGAAAAT
1 TATGTAAGT
*
15204977 TAAGTAAGT
1 TATGTAAGT
*
15204986 TATGTAATT
1 TATGTAAGT
*
15204995 TACG-AA-T
1 TATGTAAGT
* **
15205002 AAT-TAAAAA
1 TATGT-AAGT
15205011 TATGTAAGT
1 TATGTAAGT
15205020 TATGTAAG-
1 TATGTAAGT
15205028 T-TGTAAGT
1 TATGTAAGT
*
15205036 TATGTATA-A
1 TATGTA-AGT
15205045 TAT-TAA-T
1 TATGTAAGT
**
15205052 TAACTAAGT
1 TATGTAAGT
* *
15205061 TATGTCATT
1 TATGTAAGT
*
15205070 TATGTATCATAT
1 TATGTA--A-GT
15205082 TAATGTAAGT
1 T-ATGTAAGT
*
15205092 TATGTAATT
1 TATGTAAGT
15205101 TATGT-A--
1 TATGTAAGT
*
15205107 TAT-TAACT
1 TATGTAAGT
* *
15205115 AAT-TAATT
1 TATGTAAGT
15205123 TATGTAAGT
1 TATGTAAGT
*
15205132 TATGTATA-A
1 TATGTA-AGT
15205141 TAT-TAA-T
1 TATGTAAGT
**
15205148 TAACTAAGT
1 TATGTAAGT
* *
15205157 TATGTCATT
1 TATGTAAGT
*
15205166 TATGTATCATAT
1 TATGTA--A-GT
15205178 TAATGTAAGT
1 T-ATGTAAGT
*
15205188 TATGTAATT
1 TATGTAAGT
15205197 TATGT-A--
1 TATGTAAGT
*
15205203 TAT-TAACT
1 TATGTAAGT
* *
15205211 AAT-TAATT
1 TATGTAAGT
15205219 TATGTAAGT
1 TATGTAAGT
*
15205228 TATGTATA-A
1 TATGTA-AGT
15205237 TAT-TAA-T
1 TATGTAAGT
15205244 TAAT-TAAGT
1 T-ATGTAAGT
* *
15205253 TATGTCATT
1 TATGTAAGT
*
15205262 TATGTATCATAT
1 TATGTA--A-GT
15205274 TAATGTAAGT
1 T-ATGTAAGT
15205284 TATGTAAG-
1 TATGTAAGT
15205292 T-TGTAAGT
1 TATGTAAGT
15205300 TATGTA
1 TATGTA
15205306 TAATATTAAT
Statistics
Matches: 282, Mismatches: 64, Indels: 84
0.66 0.15 0.20
Matches are distributed among these distances:
5 2 0.01
6 8 0.03
7 30 0.11
8 48 0.17
9 157 0.56
10 10 0.04
11 6 0.02
12 6 0.02
13 15 0.05
ACGTcount: A:0.38, C:0.03, G:0.13, T:0.46
Consensus pattern (9 bp):
TATGTAAGT
Found at i:15204989 original size:34 final size:34
Alignment explanation
Indices: 15204951--15205029 Score: 86
Period size: 34 Copynumber: 2.3 Consensus size: 34
15204941 AAGAAGTTAT
*** * *
15204951 TTATGTAAGTTATTTATTATGAAAATTAAGTAAG
1 TTATGTAAGTTACGAATAATGAAAAATAAGTAAG
* * *
15204985 TTATGTAATTTACGAATAATTAAAAATATGTAAG
1 TTATGTAAGTTACGAATAATGAAAAATAAGTAAG
15205019 TTATGTAAGTT
1 TTATGTAAGTT
15205030 GTAAGTTATG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.42, C:0.01, G:0.14, T:0.43
Consensus pattern (34 bp):
TTATGTAAGTTACGAATAATGAAAAATAAGTAAG
Found at i:15205094 original size:31 final size:31
Alignment explanation
Indices: 15205021--15205569 Score: 459
Period size: 31 Copynumber: 17.5 Consensus size: 31
15205011 TATGTAAGTT
*
15205021 ATGTAAG-T-TGTAAGTTATGTATAATATTA
1 ATGTAAGTTATGTAATTTATGTATAATATTA
* * *
15205050 ATTAACTAAGTTATGTCATTTATGTATCATATTA
1 A-T--GTAAGTTATGTAATTTATGTATAATATTA
* *
15205084 ATGTAAGTTATGTAATTTATGTATATTAACTA
1 ATGTAAGTTATGTAATTTATGTATAAT-ATTA
* *
15205116 AT-TAATTTATGTAAGTTATGTATAATATTA
1 ATGTAAGTTATGTAATTTATGTATAATATTA
* * *
15205146 ATTAACTAAGTTATGTCATTTATGTATCATATTA
1 A-T--GTAAGTTATGTAATTTATGTATAATATTA
* *
15205180 ATGTAAGTTATGTAATTTATGTATATTAACTA
1 ATGTAAGTTATGTAATTTATGTATAAT-ATTA
* *
15205212 AT-TAATTTATGTAAGTTATGTATAATATTA
1 ATGTAAGTTATGTAATTTATGTATAATATTA
* * *
15205242 ATTAATTAAGTTATGTCATTTATGTATCATATTA
1 A-T--GTAAGTTATGTAATTTATGTATAATATTA
15205276 ATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTA
1 ATGTAAGTTATGTAA----T---TTATGTATAATATTA
* *
15205314 ATTAACTAAGTTATGT-CTATTATGTATAATATTA
1 A-T--GTAAGTTATGTAAT-TTATGTATAATATTA
* *
15205348 ATGTAAGTTATGT-A--TA-ATATTA-ATTA
1 ATGTAAGTTATGTAATTTATGTATAATATTA
*
15205374 AT-TAAGTTATGTCATTTATGTATAATATTA
1 ATGTAAGTTATGTAATTTATGTATAATATTA
* *
15205404 ATGTAAGTTATGT-A--TA-ATATTA-ATTA
1 ATGTAAGTTATGTAATTTATGTATAATATTA
*
15205430 AT-TAAGTTATGTCATTTATGTATAATATTA
1 ATGTAAGTTATGTAATTTATGTATAATATTA
* *
15205460 ATTAACTAAGTCATGTAATTTATGTATAATATTA
1 A-T--GTAAGTTATGTAATTTATGTATAATATTA
* * *
15205494 ATGTAAGTAATGTAATTTATGTATATTAACTA
1 ATGTAAGTTATGTAATTTATGTATAAT-ATTA
15205526 AT-TAAGTTATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTAATTTATGTATAATATTA
15205556 ATGTAAGTTATGTA
1 ATGTAAGTTATGTA
15205570 TAATATTTAA
Statistics
Matches: 423, Mismatches: 55, Indels: 82
0.76 0.10 0.15
Matches are distributed among these distances:
25 20 0.05
26 14 0.03
27 8 0.02
28 8 0.02
29 9 0.02
30 26 0.06
31 173 0.41
32 19 0.04
33 6 0.01
34 112 0.26
35 1 0.00
36 1 0.00
38 15 0.04
39 1 0.00
41 10 0.02
ACGTcount: A:0.38, C:0.03, G:0.11, T:0.47
Consensus pattern (31 bp):
ATGTAAGTTATGTAATTTATGTATAATATTA
Found at i:15205141 original size:96 final size:95
Alignment explanation
Indices: 15205029--15205569 Score: 598
Period size: 96 Copynumber: 5.7 Consensus size: 95
15205019 TTATGTAAGT
* *
15205029 TGTAAGTTATGTATAATATTAATTAACTAAGTTATGTCATTTATGTATCATATTAATGTAAGTTA
1 TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATAATATTAATGTAAGTTA
15205094 TGTAATTTATGTATATTAACTAATTAATTTA
66 TGTAATTTATGTATATTAACTAATTAA-TTA
* *
15205125 TGTAAGTTATGTATAATATTAATTAACTAAGTTATGTCATTTATGTATCATATTAATGTAAGTTA
1 TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATAATATTAATGTAAGTTA
15205190 TGTAATTTATGTATATTAACTAATTAATTTA
66 TGTAATTTATGTATATTAACTAATTAA-TTA
*
15205221 TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATCATATTAATGTAAGTTA
1 TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATAATATTAATGTAAGTTA
* *
15205286 TGTAAGTTGTAAGT-TATGTATAAT-ATTAATTA
66 TGTAA-TT-TATGTATAT-TA-ACTAATTAATTA
** * * * * *
15205318 ACTAAGTTATGTCTATTATGT-A-TAA-T-A-TTAATGTAAGTTATGTATAATATTAATTAATTA
1 TGTAAGTTATGTATAATAT-TAATTAATTAAGTT-ATGTCATTTATGTATAATATTAA-T--GTA
*
15205378 AGTTATGTCATTTATG--TA-TAA-T-ATT-A--A
61 AGTTATGTAATTTATGTATATTAACTAATTAATTA
*
15205405 TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATAATATTAATTAACTAAG
1 TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATAATATTAA-T--GTAAG
* * * *
15205470 TCATGTAATTTATGTATAAT-ATTAATGTAAGTAA
63 TTATGTAATTTATGTATATTAACTAAT-TAA-TTA
* * *
15205504 TGTAATTTATG--T-ATATTAACTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTA
1 TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATAATATTAATGTAAGTTA
15205566 TGTA
66 TGTA
15205570 TAATATTTAA
Statistics
Matches: 394, Mismatches: 27, Indels: 51
0.83 0.06 0.11
Matches are distributed among these distances:
86 1 0.00
87 17 0.04
88 3 0.01
89 2 0.01
90 46 0.12
91 3 0.01
92 5 0.01
93 14 0.04
94 25 0.06
95 7 0.02
96 210 0.53
97 36 0.09
98 12 0.03
99 13 0.03
ACGTcount: A:0.38, C:0.03, G:0.11, T:0.47
Consensus pattern (95 bp):
TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATAATATTAATGTAAGTTA
TGTAATTTATGTATATTAACTAATTAATTA
Found at i:15205361 original size:56 final size:56
Alignment explanation
Indices: 15205293--15205461 Score: 313
Period size: 56 Copynumber: 3.0 Consensus size: 56
15205283 TTATGTAAGT
*
15205293 TGTAAGTTATGTATAATATTAATTAACTAAGTTATGTC-TATTATGTATAATATTAA
1 TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCAT-TTATGTATAATATTAA
15205349 TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATAATATTAA
1 TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATAATATTAA
15205405 TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATAATATTAA
1 TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATAATATTAA
15205461 T
1 T
15205462 TAACTAAGTC
Statistics
Matches: 111, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
56 110 0.99
57 1 0.01
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.48
Consensus pattern (56 bp):
TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATAATATTAA
Found at i:15205407 original size:22 final size:22
Alignment explanation
Indices: 15205389--15205576 Score: 92
Period size: 22 Copynumber: 8.6 Consensus size: 22
15205379 GTTATGTCAT
15205389 TTATGTATAATATTAATGTAAG
1 TTATGTATAATATTAATGTAAG
15205411 TTATGTATAATATTAAT-TAA-
1 TTATGTATAATATTAATGTAAG
* * *
15205431 TTAAGT-TATGTCATTTATGTATA-
1 TTATGTATA-AT-ATTAATGTA-AG
* ** * * *
15205454 ATATTAATTAACTAAGTCATGTAAT
1 TTATGTA-TAA-T-ATTAATGTAAG
15205479 TTATGTATAATATTAATGTAAG
1 TTATGTATAATATTAATGTAAG
*
15205501 TAATG--TAAT-TT-ATGTATA-
1 TTATGTATAATATTAATGTA-AG
** * *
15205519 TTAACTAATTAA-GTT-ATGTAAT
1 TTATGT-A-TAATATTAATGTAAG
15205541 TTATGTATAATATTAATGTAAG
1 TTATGTATAATATTAATGTAAG
15205563 TTATGTATAATATT
1 TTATGTATAATATT
15205577 TAAATCGATC
Statistics
Matches: 124, Mismatches: 25, Indels: 34
0.68 0.14 0.19
Matches are distributed among these distances:
18 7 0.06
19 5 0.04
20 13 0.10
21 12 0.10
22 65 0.52
23 4 0.03
24 4 0.03
25 14 0.11
ACGTcount: A:0.40, C:0.02, G:0.11, T:0.47
Consensus pattern (22 bp):
TTATGTATAATATTAATGTAAG
Found at i:15206856 original size:33 final size:33
Alignment explanation
Indices: 15206809--15206876 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
15206799 ATATACATAT
*
15206809 ATTCATACCTAACACTAATCTCATTTAACTCGA
1 ATTCATACCCAACACTAATCTCATTTAACTCGA
*
15206842 ATTCATACCCAACACTCATCTCATTTAACTCGA
1 ATTCATACCCAACACTAATCTCATTTAACTCGA
15206875 AT
1 AT
15206877 AACATAAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.35, C:0.29, G:0.03, T:0.32
Consensus pattern (33 bp):
ATTCATACCCAACACTAATCTCATTTAACTCGA
Found at i:15207167 original size:17 final size:17
Alignment explanation
Indices: 15207147--15207184 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
15207137 TTAAAGTTCA
15207147 CAAGGAAGTAAAGGCTG
1 CAAGGAAGTAAAGGCTG
*
15207164 CAAGGAAGTAGAGGCTG
1 CAAGGAAGTAAAGGCTG
15207181 CAAG
1 CAAG
15207185 TTCCTGGGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.39, C:0.13, G:0.37, T:0.11
Consensus pattern (17 bp):
CAAGGAAGTAAAGGCTG
Found at i:15207472 original size:33 final size:33
Alignment explanation
Indices: 15207425--15207492 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
15207415 ATATACATAT
*
15207425 ATTCATACCTAACACTAATCTCATTTAACTCGA
1 ATTCATACCCAACACTAATCTCATTTAACTCGA
*
15207458 ATTCATACCCAACACTCATCTCATTTAACTCGA
1 ATTCATACCCAACACTAATCTCATTTAACTCGA
15207491 AT
1 AT
15207493 AACATAGATG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.35, C:0.29, G:0.03, T:0.32
Consensus pattern (33 bp):
ATTCATACCCAACACTAATCTCATTTAACTCGA
Found at i:15207745 original size:15 final size:14
Alignment explanation
Indices: 15207713--15207752 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
15207703 AATTGGGAAA
*
15207713 TTGGGGAAAATAAT
1 TTGGGGAAAATAAC
15207727 TTGGGGAAGAATAAC
1 TTGGGGAA-AATAAC
*
15207742 TTGGGGGAAAT
1 TTGGGGAAAAT
15207753 TGGGGGAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.38, C:0.03, G:0.35, T:0.25
Consensus pattern (14 bp):
TTGGGGAAAATAAC
Found at i:15207756 original size:25 final size:22
Alignment explanation
Indices: 15207727--15207783 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 22
15207717 GGAAAATAAT
*
15207727 TTGGGGAAGAATAACTTGGGGGAAA
1 TTGGGGAA-AAGAACTT--GGGAAA
*
15207752 TTGGGGGAAAAGAAGTTGGGAAA
1 TT-GGGGAAAAGAACTTGGGAAA
15207775 TTGGGGAAA
1 TTGGGGAAA
15207784 TGAAATCGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
22 7 0.24
23 8 0.28
25 8 0.28
26 6 0.21
ACGTcount: A:0.37, C:0.02, G:0.42, T:0.19
Consensus pattern (22 bp):
TTGGGGAAAAGAACTTGGGAAA
Found at i:15207796 original size:23 final size:23
Alignment explanation
Indices: 15207746--15207799 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
15207736 AATAACTTGG
* *
15207746 GGGAAATTGGGGGAAAAGAAGTT
1 GGGAAATTGGGGGAAAAGAAATC
*
15207769 GGGAAATT-GGGGAAATGAAATC
1 GGGAAATTGGGGGAAAAGAAATC
15207791 GTGGAAATT
1 G-GGAAATT
15207800 TGACTTGGGG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 12 0.44
23 15 0.56
ACGTcount: A:0.39, C:0.02, G:0.39, T:0.20
Consensus pattern (23 bp):
GGGAAATTGGGGGAAAAGAAATC
Found at i:15210014 original size:42 final size:41
Alignment explanation
Indices: 15209869--15210190 Score: 387
Period size: 42 Copynumber: 7.8 Consensus size: 41
15209859 AAGGTTAATA
* * * **
15209869 CATTCGCGGCGCTTAGA-TACAAACGCCGCTGAAGACAGGAG
1 CATTAGCGGCGCTTAGACGA-AAACGCCGCTAAAGACCCGAG
* * * ** *
15209910 AATTAGCGGCGCATATATAAAAACGCCGCTAAAAACCCGAG
1 CATTAGCGGCGCTTAGACGAAAACGCCGCTAAAGACCCGAG
* * * *
15209951 CATTAGCGGTGCATAGGCGAAAACGCCGCTATAGACCCGTAG
1 CATTAGCGGCGCTTAGACGAAAACGCCGCTAAAGACCCG-AG
* *
15209993 CATTAGCGGCGCTTAGACGAAAACGCTGCTAAAGACTCGGAG
1 CATTAGCGGCGCTTAGACGAAAACGCCGCTAAAGAC-CCGAG
*
15210035 CATTAGCGGCGCTTAGACGAAAACGCCGCTAAAGACTCGGAG
1 CATTAGCGGCGCTTAGACGAAAACGCCGCTAAAGAC-CCGAG
*
15210077 CATTAGCGGCGCTTAGACGAAAACGCCGCTATAGA-CCGAG
1 CATTAGCGGCGCTTAGACGAAAACGCCGCTAAAGACCCGAG
* *
15210117 CATTAGCGGCGCTTAGACAAAAACGCCGCTATAGACCCGAG
1 CATTAGCGGCGCTTAGACGAAAACGCCGCTAAAGACCCGAG
* *
15210158 CATTAGCGGCACTTAGACAAAAACGCCGCTAAA
1 CATTAGCGGCGCTTAGACGAAAACGCCGCTAAA
15210191 TGTTTAAAAA
Statistics
Matches: 248, Mismatches: 29, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
40 38 0.15
41 97 0.39
42 111 0.45
43 2 0.01
ACGTcount: A:0.33, C:0.26, G:0.26, T:0.15
Consensus pattern (41 bp):
CATTAGCGGCGCTTAGACGAAAACGCCGCTAAAGACCCGAG
Found at i:15210063 original size:84 final size:82
Alignment explanation
Indices: 15209829--15210190 Score: 399
Period size: 82 Copynumber: 4.4 Consensus size: 82
15209819 TTTTGTTACT
* * **** * * *
15209829 ATTAGCGGCGCTTCGGCAAAAACGCCGCTAAAGGTTAATACATTCGCGGCGCTTAGA-TACAAAC
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGACCGA-GCATTAGCGGCGCTTAGACGA-AAAC
* *
15209893 GCCGCTGA-AGA-CAGGAGA
64 GCCGCT-ATAGACCCGGAGC
* * * * * * *
15209911 ATTAGCGGCGCATATATAAAAACGCCGCTAAAAACCCGAGCATTAGCGGTGCATAGGCGAAAACG
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGA-CCGAGCATTAGCGGCGCTTAGACGAAAACG
*
15209976 CCGCTATAGACCCGTAGC
65 CCGCTATAGACCCGGAGC
* *
15209994 ATTAGCGGCGCTTAGACGAAAACGCTGCTAAAGACTCGGAGCATTAGCGGCGCTTAGACGAAAAC
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGAC-C-GAGCATTAGCGGCGCTTAGACGAAAAC
* *
15210059 GCCGCTAAAGACTCGGAGC
64 GCCGCTATAGACCCGGAGC
* * *
15210078 ATTAGCGGCGCTTAGACGAAAACGCCGCTATAGACCGAGCATTAGCGGCGCTTAGACAAAAACGC
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGACCGAGCATTAGCGGCGCTTAGACGAAAACGC
15210143 CGCTATAGACCC-GAGC
66 CGCTATAGACCCGGAGC
*
15210159 ATTAGCGGCACTTAGACAAAAACGCCGCTAAA
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAA
15210191 TGTTTAAAAA
Statistics
Matches: 235, Mismatches: 39, Indels: 13
0.82 0.14 0.05
Matches are distributed among these distances:
81 34 0.14
82 92 0.39
83 36 0.15
84 73 0.31
ACGTcount: A:0.33, C:0.26, G:0.26, T:0.16
Consensus pattern (82 bp):
ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGACCGAGCATTAGCGGCGCTTAGACGAAAACGC
CGCTATAGACCCGGAGC
Found at i:15211258 original size:30 final size:29
Alignment explanation
Indices: 15211204--15211267 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
15211194 TTATTTCCTA
* *
15211204 AAATATATTATAAATATTATATATAATAAT
1 AAATATATTATAAATATCACATATAA-AAT
*
15211234 AAATATATTTATAAA-ATCACATATAAATT
1 AAATATA-TTATAAATATCACATATAAAAT
15211263 AAATA
1 AAATA
15211268 AGTACTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 7 0.23
30 16 0.53
31 7 0.23
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (29 bp):
AAATATATTATAAATATCACATATAAAAT
Found at i:15213165 original size:27 final size:26
Alignment explanation
Indices: 15213099--15213165 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 26
15213089 GAGAGTATTT
*
15213099 TAAATTTTATA-TAAGATATAAAACA
1 TAAAATTTATACTAAGATATAAAACA
* * *
15213124 TAAAATTTCAAACTAATATATAAACCA
1 TAAAATTT-ATACTAAGATATAAAACA
15213151 TAAAATATTATACTA
1 TAAAAT-TTATACTA
15213166 TTATTTAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
25 7 0.21
26 2 0.06
27 23 0.68
28 2 0.06
ACGTcount: A:0.55, C:0.09, G:0.01, T:0.34
Consensus pattern (26 bp):
TAAAATTTATACTAAGATATAAAACA
Found at i:15225318 original size:30 final size:32
Alignment explanation
Indices: 15225270--15225355 Score: 140
Period size: 30 Copynumber: 2.8 Consensus size: 32
15225260 AAATGCATGG
*
15225270 TTGTGAAATGATAACAAATATCAACTTTAATT
1 TTGTGAAATGATAACAAATACCAACTTTAATT
15225302 TTGTGAAAT-A-AACAAATACCAACTTTAATT
1 TTGTGAAATGATAACAAATACCAACTTTAATT
*
15225332 ATGTGAAATGATAACAAATACCAA
1 TTGTGAAATGATAACAAATACCAA
15225356 GTTGGATGAA
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
30 27 0.54
31 2 0.04
32 21 0.42
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
TTGTGAAATGATAACAAATACCAACTTTAATT
Found at i:15228420 original size:20 final size:19
Alignment explanation
Indices: 15228378--15228422 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
15228368 AAAGAATCAT
*
15228378 TAAAAACCCCAAAAAAATC
1 TAAAAACCCCAAAAAAATA
* *
15228397 TAAAAACCCTCATAAAATTA
1 TAAAAACCC-CAAAAAAATA
15228417 TAAAAA
1 TAAAAA
15228423 AACCTAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.62, C:0.20, G:0.00, T:0.18
Consensus pattern (19 bp):
TAAAAACCCCAAAAAAATA
Found at i:15228572 original size:19 final size:20
Alignment explanation
Indices: 15228544--15228586 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
15228534 TAGTTTCTTT
*
15228544 TTTTAAGAAA-ATCTTAGAA
1 TTTTAAGAAATATCTAAGAA
* *
15228563 TTTTATGAAATTTCTAAGAA
1 TTTTAAGAAATATCTAAGAA
15228583 TTTT
1 TTTT
15228587 TTGGTTGTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.47
Consensus pattern (20 bp):
TTTTAAGAAATATCTAAGAA
Found at i:15229323 original size:31 final size:30
Alignment explanation
Indices: 15229287--15229345 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
15229277 TATATATTAT
*
15229287 TTTTTAA-ATCAATACTTTTTACTTATTATCA
1 TTTTTAATAT-AATAC-TTTTAATTATTATCA
*
15229318 TTTTTAATATATTACTTTTAATTATTAT
1 TTTTTAATATAATACTTTTAATTATTAT
15229346 TTCATGTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 12 0.48
31 11 0.44
32 2 0.08
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.59
Consensus pattern (30 bp):
TTTTTAATATAATACTTTTAATTATTATCA
Found at i:15229336 original size:15 final size:15
Alignment explanation
Indices: 15229278--15229344 Score: 52
Period size: 14 Copynumber: 4.5 Consensus size: 15
15229268 GCTTATTATT
*
15229278 ATATATTATTTTTTA
1 ATATATTACTTTTTA
*
15229293 A-ATCAATACTTTTTA
1 ATAT-ATTACTTTTTA
*
15229308 CT-TATTATCATTTTTA
1 ATATATTA-C-TTTTTA
15229324 ATATATTAC-TTTTA
1 ATATATTACTTTTTA
15229338 AT-TATTA
1 ATATATTA
15229345 TTTCATGTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 12
0.71 0.08 0.20
Matches are distributed among these distances:
13 5 0.12
14 12 0.29
15 12 0.29
16 8 0.19
17 5 0.12
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.58
Consensus pattern (15 bp):
ATATATTACTTTTTA
Found at i:15243340 original size:27 final size:27
Alignment explanation
Indices: 15243090--15243354 Score: 212
Period size: 27 Copynumber: 9.8 Consensus size: 27
15243080 CCCTTTGTAA
* *
15243090 TTCGCCATAAAGGCTTTCCTTTCATACT
1 TTCGCCACAAAGGCTTTTCTTTCATA-T
* *
15243118 TT-GCCACAAAGACTTTTCTTTCACGA-
1 TTCGCCACAAAGGCTTTTCTTTCA-TAT
* * * *
15243144 TTCACTATAAAGACTTTTCTTTCATAT
1 TTCGCCACAAAGGCTTTTCTTTCATAT
*** * *
15243171 TTCATTACAAATGCTTTTTTTTCATAT
1 TTCGCCACAAAGGCTTTTCTTTCATAT
* *
15243198 TTCACCACAAAGGCTTTCCTTTCATGA-
1 TTCGCCACAAAGGCTTTTCTTTCAT-AT
* * *
15243225 TTCGCCACAAATGCTTTTCTCTCATAG
1 TTCGCCACAAAGGCTTTTCTTTCATAT
* * *
15243252 TTCGTCACAAATGCTTTTCTCTCATAT
1 TTCGCCACAAAGGCTTTTCTTTCATAT
*** **
15243279 TTCGCCACAAAATTTTTTCTCCCATAT
1 TTCGCCACAAAGGCTTTTCTTTCATAT
* *
15243306 TTCTCCACAAAGGCTTTCCTTTCATAT
1 TTCGCCACAAAGGCTTTTCTTTCATAT
* *
15243333 TTTGCCACAAAGGCTTTACTTT
1 TTCGCCACAAAGGCTTTTCTTT
15243355 TTTGACGTGT
Statistics
Matches: 193, Mismatches: 39, Indels: 11
0.79 0.16 0.05
Matches are distributed among these distances:
26 4 0.02
27 185 0.96
28 4 0.02
ACGTcount: A:0.25, C:0.26, G:0.08, T:0.42
Consensus pattern (27 bp):
TTCGCCACAAAGGCTTTTCTTTCATAT
Found at i:15247396 original size:27 final size:25
Alignment explanation
Indices: 15247366--15247421 Score: 67
Period size: 27 Copynumber: 2.2 Consensus size: 25
15247356 TTTTGTTCAA
*
15247366 TCTCAATCTCAATCTCGTTTTTCTTTT
1 TCTCAATCTCAATCTC-TTTTT-TTCT
* *
15247393 TCTCACTCTCACTCTCTTTTTTTCT
1 TCTCAATCTCAATCTCTTTTTTTCT
15247418 TCTC
1 TCTC
15247422 TTTAGTTCGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 7 0.27
26 5 0.19
27 14 0.54
ACGTcount: A:0.11, C:0.32, G:0.02, T:0.55
Consensus pattern (25 bp):
TCTCAATCTCAATCTCTTTTTTTCT
Found at i:15250030 original size:9 final size:9
Alignment explanation
Indices: 15250013--15250042 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
15250003 AATTAAAAAC
15250013 AAAAACTAA
1 AAAAACTAA
*
15250022 AATAACTAA
1 AAAAACTAA
15250031 AAAAACTAA
1 AAAAACTAA
15250040 AAA
1 AAA
15250043 TTAATGAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.77, C:0.10, G:0.00, T:0.13
Consensus pattern (9 bp):
AAAAACTAA
Found at i:15253081 original size:15 final size:15
Alignment explanation
Indices: 15253061--15253090 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
15253051 CTAGGGAAGG
*
15253061 GAATGATCCTGGTCT
1 GAATGATCATGGTCT
15253076 GAATGATCATGGTCT
1 GAATGATCATGGTCT
15253091 CAGTGATGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (15 bp):
GAATGATCATGGTCT
Found at i:15253665 original size:33 final size:33
Alignment explanation
Indices: 15253623--15253688 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
15253613 TTGAATGCAC
* *
15253623 ATACGAGGATAGTAGTTGATGCTTTTGCCAATG
1 ATACGAGGATAATAGTTGATGCTTCTGCCAATG
*
15253656 ATACGAGGATAATAGTTGATGCTTCTGCTAATG
1 ATACGAGGATAATAGTTGATGCTTCTGCCAATG
15253689 GTACCCTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (33 bp):
ATACGAGGATAATAGTTGATGCTTCTGCCAATG
Found at i:15258465 original size:11 final size:11
Alignment explanation
Indices: 15258449--15258482 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
15258439 ATTAAAATAA
15258449 TAAAAGAAAAG
1 TAAAAGAAAAG
15258460 TAAAAGAAAAG
1 TAAAAGAAAAG
*
15258471 AAAAAGAAAAG
1 TAAAAGAAAAG
15258482 T
1 T
15258483 TTCATCTTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.09
Consensus pattern (11 bp):
TAAAAGAAAAG
Done.