Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 85 of 216
Found at i:26156936 original size:39 final size:40
Alignment explanation
Indices: 26156872--26156972 Score: 145
Period size: 39 Copynumber: 2.6 Consensus size: 40
26156862 TTATTGTATG
26156872 ATTGCACAT-CGTGCCCCTGTTTGTACTTCAGTACCCCTGA
1 ATTGCACATACGTGCCCCTGTTTGTACTTCAGTACCCCT-A
* * *
26156912 A-TGTATATACGTGCCCC-GTTTGTACTTCGGTACCCCTA
1 ATTGCACATACGTGCCCCTGTTTGTACTTCAGTACCCCTA
26156950 ATTGCACATACGTGCCCCTGTTT
1 ATTGCACATACGTGCCCCTGTTT
26156973 ATTCTCTAGT
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
38 2 0.04
39 38 0.72
40 13 0.25
ACGTcount: A:0.18, C:0.31, G:0.18, T:0.34
Consensus pattern (40 bp):
ATTGCACATACGTGCCCCTGTTTGTACTTCAGTACCCCTA
Found at i:26157976 original size:73 final size:73
Alignment explanation
Indices: 26157857--26157999 Score: 277
Period size: 73 Copynumber: 2.0 Consensus size: 73
26157847 ACGATTTGCT
26157857 TTTAAGTTATTTTCAAGGCCTCAAAGGCTCGTTTTAGGGACAATATGCATGTATATGAATGATTT
1 TTTAAGTTATTTTCAAGGCCTCAAAGGCTCGTTTTAGGGACAATATGCATGTATATGAATGATTT
26157922 ATGATATA
66 ATGATATA
*
26157930 TTTAAGTTATTTTCAAGGCCTCAAAGGCTCGTTTTAGGGACAATATGCATGTATATGAATGGTTT
1 TTTAAGTTATTTTCAAGGCCTCAAAGGCTCGTTTTAGGGACAATATGCATGTATATGAATGATTT
26157995 ATGAT
66 ATGAT
26158000 TGTAGGGTGT
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 69 1.00
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.38
Consensus pattern (73 bp):
TTTAAGTTATTTTCAAGGCCTCAAAGGCTCGTTTTAGGGACAATATGCATGTATATGAATGATTT
ATGATATA
Found at i:26162802 original size:16 final size:16
Alignment explanation
Indices: 26162759--26162805 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
26162749 ATGATAATTT
26162759 TTAAATGTTAATTAAG
1 TTAAATGTTAATTAAG
*
26162775 -T-AATTTAATAATTAAG
1 TTAAATGT--TAATTAAG
26162791 TTAAATGTTAATTAA
1 TTAAATGTTAATTAA
26162806 ACAAAAGATG
Statistics
Matches: 25, Mismatches: 2, Indels: 8
0.71 0.06 0.23
Matches are distributed among these distances:
14 4 0.16
15 1 0.04
16 15 0.60
17 1 0.04
18 4 0.16
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.45
Consensus pattern (16 bp):
TTAAATGTTAATTAAG
Found at i:26177360 original size:262 final size:263
Alignment explanation
Indices: 26176877--26177420 Score: 707
Period size: 262 Copynumber: 2.1 Consensus size: 263
26176867 TTTAGAGTTC
* * * * *
26176877 GTATCAAAATGTTTGATTTTTCAACAAGTGAAAGCCGAGCATCAAGTACCTTCTAGACTATTATA
1 GTATCAAAATGTTTGATTTGTCAACAAGTCAAAGCCGAACATCAAGTACCTTCTAGAATATTACA
** * * * * *
26176942 GCCTGTGATGATTCCAGAGTGGAAATGAGAACGGGTTACAATGGATTTTGTATCAGGATTGCCTT
66 AACTATGATGATTCCAAAGTAGAAATGAGAACGGGTTACAATGGATTTTGTATCAAGATTACCTT
* * * * *
26177007 TGTTTCCGTGGAAGAAATATGTTAACTGGGTTATTGTGGATCGTTTGACTAAATCTGCACATTTC
131 TGTTTCCATGAAAGAAAGATGTTAACTGGGTTATTCTGGATCGTTTGACTAAATCTACACATTTC
** ** *
26177072 ATTCCAGTTGGTACAAACTACTCGCTTAAGAGGTTAGCAAAATTATAGGTTTCTGAGATTGTACA
196 ATTCCAGTACGTACAAACTACTCGCTTAAGAAATTAGCAAAATTATAGGTTTCTGAGATTCTACA
26177137 TTT
261 TTT
* ** * * *
26177140 GTATCGAAATGTTTGATTTGTCAGGAAGTCAAAGCCGAACATCAGGTACCTTTTGGAATATTACA
1 GTATCAAAATGTTTGATTTGTCAACAAGTCAAAGCCGAACATCAAGTACCTTCTAGAATATTACA
* *
26177205 AACTATGATGATTCCAAAGTAGAAAT-AGGAATGGGTTACGATGGATTTTGTATCAAGA-TACCT
66 AACTATGATGATTCCAAAGTAGAAATGA-GAACGGGTTACAATGGATTTTGTATCAAGATTACCT
*
26177268 TTGTTTCCATGAAAGAAAGATGTTATCTGGGTTATTCTGGATCGTTTGACTAAAT-TCACACATT
130 TTGTTTCCATGAAAGAAAGATGTTAACTGGGTTATTCTGGATCGTTTGACTAAATCT-ACACATT
* * * * * *
26177332 TCATTCCTGTACGTATAGATTACTCGCTTGAGAAATTAGCAGAATTATAGGTTTCTGAGATTCTA
194 TCATTCCAGTACGTACAAACTACTCGCTTAAGAAATTAGCAAAATTATAGGTTTCTGAGATTCTA
*
26177397 CGTTT
259 CATTT
26177402 GTATCAAAATGTTTGATTT
1 GTATCAAAATGTTTGATTT
26177421 ATCATGTAAC
Statistics
Matches: 240, Mismatches: 39, Indels: 5
0.85 0.14 0.02
Matches are distributed among these distances:
261 1 0.00
262 137 0.57
263 102 0.43
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (263 bp):
GTATCAAAATGTTTGATTTGTCAACAAGTCAAAGCCGAACATCAAGTACCTTCTAGAATATTACA
AACTATGATGATTCCAAAGTAGAAATGAGAACGGGTTACAATGGATTTTGTATCAAGATTACCTT
TGTTTCCATGAAAGAAAGATGTTAACTGGGTTATTCTGGATCGTTTGACTAAATCTACACATTTC
ATTCCAGTACGTACAAACTACTCGCTTAAGAAATTAGCAAAATTATAGGTTTCTGAGATTCTACA
TTT
Found at i:26178207 original size:42 final size:42
Alignment explanation
Indices: 26178158--26178271 Score: 122
Period size: 42 Copynumber: 2.7 Consensus size: 42
26178148 GGTGTGATTT
* **
26178158 CATGTAAGACCATGTCTGGGACATTGGCATCG-TATATGATGT
1 CATGTAAGACCATGTCTGGGATA-TGGCATCGATATATGATAA
* * * * *
26178200 CGTGTAAGACCCTGTTTGGAATAGTGGCATCGATATATTATAA
1 CATGTAAGACCATGTCTGGGATA-TGGCATCGATATATGATAA
*
26178243 CATGTAAGACCATATCTGGGATATGGCAT
1 CATGTAAGACCATGTCTGGGATATGGCAT
26178272 TGTACGAGCT
Statistics
Matches: 57, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
42 32 0.56
43 25 0.44
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.31
Consensus pattern (42 bp):
CATGTAAGACCATGTCTGGGATATGGCATCGATATATGATAA
Found at i:26178917 original size:25 final size:25
Alignment explanation
Indices: 26178889--26178967 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 25
26178879 GCTTAAAGGT
26178889 TGTCCATTTTTTAGCATATTAATGC
1 TGTCCATTTTTTAGCATATTAATGC
* * ** *
26178914 TGTCTAAATTAGT-GC-T-TAAATGC
1 TGTC-CATTTTTTAGCATATTAATGC
*
26178937 TGTCCATTTTTAAGCATATTAATGC
1 TGTCCATTTTTTAGCATATTAATGC
26178962 TGTCCA
1 TGTCCA
26178968 AATTAGTGCT
Statistics
Matches: 39, Mismatches: 11, Indels: 8
0.67 0.19 0.14
Matches are distributed among these distances:
22 3 0.08
23 12 0.31
24 2 0.05
25 18 0.46
26 4 0.10
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (25 bp):
TGTCCATTTTTTAGCATATTAATGC
Found at i:26178926 original size:48 final size:48
Alignment explanation
Indices: 26178817--26179093 Score: 342
Period size: 48 Copynumber: 5.7 Consensus size: 48
26178807 GATAAGATGT
* *
26178817 TGTCCAAATTGGTGCTTAATTGCTGTCCATTTTTTTAGCATATTGAA-GC
1 TGTCCAAATTAGTGCTTAAATGCTGTCCA-TTTTTTAGCATATT-AATGC
* * *
26178866 TGTCCAAGTTAGTGCTTAAAGGTTGTCCATTTTTTAGCATATTAATGC
1 TGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTTAGCATATTAATGC
* *
26178914 TGTCTAAATTAGTGCTTAAATGCTGTCCATTTTTAAGCATATTAATGC
1 TGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTTAGCATATTAATGC
* *
26178962 TGTCCAAATTAGTGCTTAAATGTTGTCCATTTTTTTGAGCATATTAATGT
1 TGTCCAAATTAGTGCTTAAATGCTGTCCA-TTTTTT-AGCATATTAATGC
* * * * *
26179012 TGTCAAAATTAATGCTTAAATGCTATCCATTTTTGT-GTATATTGATGC
1 TGTCCAAATTAGTGCTTAAATGCTGTCCATTTTT-TAGCATATTAATGC
* * *
26179060 TGTCCAAATTGGTGCTTAACTACTGTCCATTTTT
1 TGTCCAAATTAGTGCTTAAATGCTGTCCATTTTT
26179094 GTACAAATCA
Statistics
Matches: 197, Mismatches: 27, Indels: 9
0.85 0.12 0.04
Matches are distributed among these distances:
47 2 0.01
48 123 0.62
49 34 0.17
50 38 0.19
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.43
Consensus pattern (48 bp):
TGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTTAGCATATTAATGC
Found at i:26178983 original size:23 final size:23
Alignment explanation
Indices: 26178909--26178990 Score: 76
Period size: 23 Copynumber: 3.5 Consensus size: 23
26178899 TTAGCATATT
*
26178909 AATGCTGTCTAAATTAGTGCTTA
1 AATGCTGTCCAAATTAGTGCTTA
** * *
26178932 AATGCTGTCCATTTTTA-AGCATATT
1 AATGCTGTCCA-AATTAGTGC-T-TA
26178957 AATGCTGTCCAAATTAGTGCTTA
1 AATGCTGTCCAAATTAGTGCTTA
*
26178980 AATGTTGTCCA
1 AATGCTGTCCA
26178991 TTTTTTTGAG
Statistics
Matches: 45, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
23 23 0.51
24 8 0.18
25 14 0.31
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (23 bp):
AATGCTGTCCAAATTAGTGCTTA
Found at i:26179044 original size:98 final size:97
Alignment explanation
Indices: 26178813--26179110 Score: 359
Period size: 98 Copynumber: 3.1 Consensus size: 97
26178803 TGATGATAAG
* * * * *
26178813 ATGTTGTCCAAATTGGTGCTTAATTGCTGTCCATTTTTTTAGCATATTGAA-GCTGTCCAAGTTA
1 ATGTTGTCAAAATTAGTGCTTAAATGCTGTCCA-TTTTTAAGCATATT-AATGCTGTCCAAATTA
*
26178877 GTGCTTAAAGGTTGTCCA-TTTTTTAGCATATTA
64 GTGCTTAAATGTTGTCCATTTTTTTAGCATATTA
* *
26178910 ATGCTGTCTAAATTAGTGCTTAAATGCTGTCCATTTTTAAGCATATTAATGCTGTCCAAATTAGT
1 ATGTTGTCAAAATTAGTGCTTAAATGCTGTCCATTTTTAAGCATATTAATGCTGTCCAAATTAGT
26178975 GCTTAAATGTTGTCCATTTTTTTGAGCATATTA
66 GCTTAAATGTTGTCCATTTTTTT-AGCATATTA
* * ** * * *
26179008 ATGTTGTCAAAATTAATGCTTAAATGCTATCCATTTTTGTGTATATTGATGCTGTCCAAATTGGT
1 ATGTTGTCAAAATTAGTGCTTAAATGCTGTCCATTTTTAAGCATATTAATGCTGTCCAAATTAGT
* ** * * *
26179073 GCTTAACTACTGTCCATTTTTGTA-CAAATCA
66 GCTTAAATGTTGTCCATTTTTTTAGCATATTA
26179104 ATGTTGT
1 ATGTTGT
26179111 TCGAATATTG
Statistics
Matches: 176, Mismatches: 22, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
95 2 0.01
96 54 0.31
97 36 0.20
98 84 0.48
ACGTcount: A:0.26, C:0.14, G:0.16, T:0.43
Consensus pattern (97 bp):
ATGTTGTCAAAATTAGTGCTTAAATGCTGTCCATTTTTAAGCATATTAATGCTGTCCAAATTAGT
GCTTAAATGTTGTCCATTTTTTTAGCATATTA
Found at i:26179086 original size:146 final size:145
Alignment explanation
Indices: 26178817--26179093 Score: 369
Period size: 146 Copynumber: 1.9 Consensus size: 145
26178807 GATAAGATGT
* * * * *
26178817 TGTCCAAATTGGTGCTTAATTGCTGTCCATTTTTTTAGCATATTGAAGCTGTCCAAGTTAGTGCT
1 TGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTTTAGCATATTGAAGCTGTCAAAATTAATGCT
* * * *
26178882 TAAAGGTTGTCCATTTTTTAGCATATTAATGCTGTCTAAATTAGTGCTTAAATGCTGTCCATTTT
66 TAAAGGCTATCCATTTTTTAGCATATTAATGCTGTCCAAATTAGTGCTTAAATACTGTCCATTTT
26178947 TAAGCATATTAATGC
131 TAAGCATATTAATGC
* *
26178962 TGTCCAAATTAGTGCTTAAATGTTGTCCATTTTTTTGAGCATATT-AATGTTGTCAAAATTAATG
1 TGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTTT-AGCATATTGAA-GCTGTCAAAATTAATG
* * * * *
26179026 CTTAAATGCTATCCATTTTTGT-GTATATTGATGCTGTCCAAATTGGTGCTTAACTACTGTCCAT
64 CTTAAAGGCTATCCATTTTT-TAGCATATTAATGCTGTCCAAATTAGTGCTTAAATACTGTCCAT
26179090 TTTT
128 TTTT
26179094 GTACAAATCA
Statistics
Matches: 113, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
145 35 0.31
146 77 0.68
147 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.43
Consensus pattern (145 bp):
TGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTTTAGCATATTGAAGCTGTCAAAATTAATGCT
TAAAGGCTATCCATTTTTTAGCATATTAATGCTGTCCAAATTAGTGCTTAAATACTGTCCATTTT
TAAGCATATTAATGC
Found at i:26186024 original size:20 final size:20
Alignment explanation
Indices: 26185999--26186037 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
26185989 TACTTTCTTC
26185999 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
26186019 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
26186038 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:26188525 original size:42 final size:42
Alignment explanation
Indices: 26188479--26188588 Score: 105
Period size: 42 Copynumber: 2.6 Consensus size: 42
26188469 TTCTAAGGTG
*
26188479 TGATTTCATGTAAGACCATGTCTAGAACATTGGCATC-ATATA
1 TGATTT-ATGTAAGACCATGTCTAGAACAGTGGCATCGATATA
* * * * *
26188521 TGATTTTGTGTAAAACCCTGTCTGGGACAGTGGCATCGATATA
1 TGA-TTTATGTAAGACCATGTCTAGAACAGTGGCATCGATATA
* * *
26188564 TTATAATATGTAAGACCATATCTAG
1 TGAT-TTATGTAAGACCATGTCTAG
26188589 GATATGACAT
Statistics
Matches: 52, Mismatches: 13, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
42 28 0.54
43 24 0.46
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (42 bp):
TGATTTATGTAAGACCATGTCTAGAACAGTGGCATCGATATA
Found at i:26189192 original size:25 final size:25
Alignment explanation
Indices: 26189158--26189292 Score: 98
Period size: 25 Copynumber: 5.5 Consensus size: 25
26189148 AAATTGGTGT
26189158 TTAATTGCTGTCCATTTTTGAGCATA
1 TTAA-TGCTGTCCATTTTTGAGCATA
** * *
26189184 TTAATGCTGTCCAAATTAGTGC-T-
1 TTAATGCTGTCCATTTTTGAGCATA
* * * *
26189207 TAAATGTTGTCCATTTTTTAGCAAA
1 TTAATGCTGTCCATTTTTGAGCATA
** * *
26189232 TTAATGCTGTCCAAATTAGTGC-T-
1 TTAATGCTGTCCATTTTTGAGCATA
* *
26189255 TAAATGCTGTCCATTTTTAAGCATA
1 TTAATGCTGTCCATTTTTGAGCATA
*
26189280 TTAATGTTGTCCA
1 TTAATGCTGTCCA
26189293 AATTAGTGCT
Statistics
Matches: 77, Mismatches: 28, Indels: 9
0.68 0.25 0.08
Matches are distributed among these distances:
23 31 0.40
24 2 0.03
25 40 0.52
26 4 0.05
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.42
Consensus pattern (25 bp):
TTAATGCTGTCCATTTTTGAGCATA
Found at i:26189197 original size:48 final size:48
Alignment explanation
Indices: 26189139--26189420 Score: 359
Period size: 48 Copynumber: 5.8 Consensus size: 48
26189129 TGATGATAAG
* * * * *
26189139 ATGCTATCCAAATTGGTGTTTAATTGCTGTCCATTTTTGAGCATATTA
1 ATGCTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTAAGCATATTA
* * *
26189187 ATGCTGTCCAAATTAGTGCTTAAATGTTGTCCATTTTTTAGCAAATTA
1 ATGCTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTAAGCATATTA
26189235 ATGCTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTAAGCATATTA
1 ATGCTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTAAGCATATTA
* ** *
26189283 ATGTTGTCCAAATTAGTGCTTAAATGCTGTCTGTTTTTTTTTTAGCATATTA
1 ATGCTGTCCAAATTAGTGCTTAAATGCTGTC----CATTTTTAAGCATATTA
* * * *
26189335 ATGTTGTCTAAATT-GATGCTTAATTGCTGTCCATTTTTAAGTATATTA
1 ATGCTGTCCAAATTAG-TGCTTAAATGCTGTCCATTTTTAAGCATATTA
*
26189383 ATGGTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTT
1 ATGCTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTT
26189421 GTACAAATCA
Statistics
Matches: 205, Mismatches: 23, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
48 162 0.79
49 1 0.00
51 1 0.00
52 41 0.20
ACGTcount: A:0.26, C:0.14, G:0.16, T:0.44
Consensus pattern (48 bp):
ATGCTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTAAGCATATTA
Found at i:26189217 original size:23 final size:23
Alignment explanation
Indices: 26189186--26189313 Score: 91
Period size: 23 Copynumber: 5.4 Consensus size: 23
26189176 TGAGCATATT
26189186 AATGCTGTCCAAATTAGTGCTTA
1 AATGCTGTCCAAATTAGTGCTTA
* * **
26189209 AATGTTGTCC-ATTTTTTAGCAAATT-
1 AATGCTGTCCAAATTAGT-GC---TTA
26189234 AATGCTGTCCAAATTAGTGCTTA
1 AATGCTGTCCAAATTAGTGCTTA
** * *
26189257 AATGCTGTCCATTTTTA-AGCATATT
1 AATGCTGTCCA-AATTAGTGC-T-TA
*
26189282 AATGTTGTCCAAATTAGTGCTTA
1 AATGCTGTCCAAATTAGTGCTTA
26189305 AATGCTGTC
1 AATGCTGTC
26189314 TGTTTTTTTT
Statistics
Matches: 77, Mismatches: 18, Indels: 20
0.67 0.16 0.17
Matches are distributed among these distances:
22 6 0.08
23 33 0.43
24 8 0.10
25 24 0.31
26 6 0.08
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.40
Consensus pattern (23 bp):
AATGCTGTCCAAATTAGTGCTTA
Found at i:26189420 original size:100 final size:100
Alignment explanation
Indices: 26189139--26189420 Score: 394
Period size: 100 Copynumber: 2.9 Consensus size: 100
26189129 TGATGATAAG
* * * *
26189139 ATGCTATCCAAATTGGTGTTTAATTGCTGTCCATTTTTGAGCATATTAATGCTGTCCAAATTAGT
1 ATGCTGTCCAAATTGATGCTTAATTGCTGTCCATTTTTAAGCATATTAATGCTGTCCAAATTAGT
*
26189204 GCTTAAATGTTGTCCA----TTTTTTAGCAAATTA
66 GCTTAAATGCTGTCCATTTTTTTTTTAGCAAATTA
* *
26189235 ATGCTGTCCAAATT-AGTGCTTAAATGCTGTCCATTTTTAAGCATATTAATGTTGTCCAAATTAG
1 ATGCTGTCCAAATTGA-TGCTTAATTGCTGTCCATTTTTAAGCATATTAATGCTGTCCAAATTAG
** *
26189299 TGCTTAAATGCTGTCTGTTTTTTTTTTAGCATATTA
65 TGCTTAAATGCTGTCCATTTTTTTTTTAGCAAATTA
* * * *
26189335 ATGTTGTCTAAATTGATGCTTAATTGCTGTCCATTTTTAAGTATATTAATGGTGTCCAAATTAGT
1 ATGCTGTCCAAATTGATGCTTAATTGCTGTCCATTTTTAAGCATATTAATGCTGTCCAAATTAGT
26189400 GCTTAAATGCTGTCCATTTTT
66 GCTTAAATGCTGTCCATTTTT
26189421 GTACAAATCA
Statistics
Matches: 163, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
96 71 0.44
100 91 0.56
101 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.16, T:0.44
Consensus pattern (100 bp):
ATGCTGTCCAAATTGATGCTTAATTGCTGTCCATTTTTAAGCATATTAATGCTGTCCAAATTAGT
GCTTAAATGCTGTCCATTTTTTTTTTAGCAAATTA
Found at i:26189443 original size:148 final size:148
Alignment explanation
Indices: 26189172--26189443 Score: 395
Period size: 148 Copynumber: 1.8 Consensus size: 148
26189162 TTGCTGTCCA
* *
26189172 TTTTTGAGCATATTAATGCTGTCCAAATTAGTGCTTAAATGTTGTCCATTTTTTAGCAAATTAAT
1 TTTTTGAGCATATTAATGCTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTAAGCAAATTAAT
* *
26189237 GCTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTAAGCATATTAATGTTGTCCAAATTAGTGC
66 GCTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTAAGCAAATCAATGTTGTCCAAATTAGTGC
26189302 TTAAATGCTGTCTGTTTT
131 TTAAATGCTGTCTGTTTT
* * * * * *
26189320 TTTTTTAGCATATTAATGTTGTCTAAATT-GATGCTTAATTGCTGTCCATTTTTAAGTATATTAA
1 TTTTTGAGCATATTAATGCTGTCCAAATTAG-TGCTTAAATGCTGTCCATTTTTAAGCAAATTAA
* * *
26189384 TGGTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTGTA-CAAATCAATGTTGTTCAAAT
65 TGCTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTT-AAGCAAATCAATGTTGTCCAAAT
26189444 GTTGTTACTA
Statistics
Matches: 109, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
147 1 0.01
148 107 0.98
149 1 0.01
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.44
Consensus pattern (148 bp):
TTTTTGAGCATATTAATGCTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTAAGCAAATTAAT
GCTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTAAGCAAATCAATGTTGTCCAAATTAGTGC
TTAAATGCTGTCTGTTTT
Found at i:26202850 original size:31 final size:31
Alignment explanation
Indices: 26202812--26202876 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
26202802 TCTAAGGCCA
*
26202812 TGTGGACATTCGAAATAGGGATACAC-AGCCG
1 TGTGGACATTCGAAATAGGCATACACGA-CCG
26202843 TGTGGACATTCGAAATAGGCATACACGACCG
1 TGTGGACATTCGAAATAGGCATACACGACCG
26202874 TGT
1 TGT
26202877 CCAAACATGT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 31 0.97
32 1 0.03
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.22
Consensus pattern (31 bp):
TGTGGACATTCGAAATAGGCATACACGACCG
Found at i:26204908 original size:25 final size:25
Alignment explanation
Indices: 26204875--26205012 Score: 81
Period size: 24 Copynumber: 5.7 Consensus size: 25
26204865 TATACAATCA
*
26204875 CATA-AACGGGAAGCTCTTTCGAGC
1 CATATAACGGGAAGCTCTTACGAGC
* * *
26204899 CATATAACGGGAAGCT-TATTCGGGT
1 CATATAACGGGAAGCTCT-TACGAGC
** * *
26204924 TGTATAACGAGAAGCT-TATAAGAGC
1 CATATAACGGGAAGCTCT-TACGAGC
* * * *
26204949 CATA-ATCGGGAAGCTCATGCTAGC
1 CATATAACGGGAAGCTCTTACGAGC
* * *
26204973 CA-ATAACGGGTAGCTCTGAAGAGC
1 CATATAACGGGAAGCTCTTACGAGC
26204997 CAT-TAACGGGAAGCTC
1 CATATAACGGGAAGCTC
26205013 CGGATAGCCA
Statistics
Matches: 84, Mismatches: 25, Indels: 10
0.71 0.21 0.08
Matches are distributed among these distances:
23 1 0.01
24 47 0.56
25 36 0.43
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (25 bp):
CATATAACGGGAAGCTCTTACGAGC
Found at i:26205021 original size:24 final size:24
Alignment explanation
Indices: 26204946--26205023 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 24
26204936 AGCTTATAAG
* *
26204946 AGCCA-TAATCGGGAAGCTCATGCT
1 AGCCATTAA-CGGGAAGCTCAGGAT
* * * * *
26204970 AGCCAATAACGGGTAGCTCTGAAG
1 AGCCATTAACGGGAAGCTCAGGAT
*
26204994 AGCCATTAACGGGAAGCTCCGGAT
1 AGCCATTAACGGGAAGCTCAGGAT
26205018 AGCCAT
1 AGCCAT
26205024 ATATTGGGAT
Statistics
Matches: 42, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
24 39 0.93
25 3 0.07
ACGTcount: A:0.31, C:0.24, G:0.27, T:0.18
Consensus pattern (24 bp):
AGCCATTAACGGGAAGCTCAGGAT
Found at i:26205100 original size:26 final size:26
Alignment explanation
Indices: 26205064--26205123 Score: 102
Period size: 26 Copynumber: 2.3 Consensus size: 26
26205054 GAAGCTCTGG
26205064 AGAGCCATTAATCAGGAAGCTCACAA
1 AGAGCCATTAATCAGGAAGCTCACAA
* *
26205090 AGAGCCTTTAATCAGGAAGCTCACGA
1 AGAGCCATTAATCAGGAAGCTCACAA
26205116 AGAGCCAT
1 AGAGCCAT
26205124 ATATCGAGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.17
Consensus pattern (26 bp):
AGAGCCATTAATCAGGAAGCTCACAA
Found at i:26208221 original size:34 final size:34
Alignment explanation
Indices: 26208178--26208245 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
26208168 TTTCACACTT
26208178 GTGAACTTAATCAATATAAATCTTATGAATTCCA
1 GTGAACTTAATCAATATAAATCTTATGAATTCCA
*
26208212 GTGAACTTAATCAATATAGATCTTATGAATTCCA
1 GTGAACTTAATCAATATAAATCTTATGAATTCCA
26208246 TTGTATAAGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (34 bp):
GTGAACTTAATCAATATAAATCTTATGAATTCCA
Found at i:26214876 original size:17 final size:18
Alignment explanation
Indices: 26214854--26214891 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
26214844 AAATTTCAAT
* *
26214854 TTTATTTAATTTTTAA-A
1 TTTATTAAATTATTAATA
26214871 TTTATTAAATTATTAATA
1 TTTATTAAATTATTAATA
26214889 TTT
1 TTT
26214892 TATAATAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTATTAAATTATTAATA
Found at i:26217090 original size:14 final size:13
Alignment explanation
Indices: 26217073--26217111 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
26217063 AATGCTCGTG
*
26217073 AGAAAAAAAATACA
1 AGAAAAAAAAGA-A
*
26217087 AGAAAAAAAAGAG
1 AGAAAAAAAAGAA
26217100 AGAAAAAAAAGA
1 AGAAAAAAAAGA
26217112 GAGCATATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.79, C:0.03, G:0.15, T:0.03
Consensus pattern (13 bp):
AGAAAAAAAAGAA
Found at i:26218681 original size:20 final size:18
Alignment explanation
Indices: 26218648--26218684 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
26218638 TGTGATGTTG
26218648 ATATGCTTAATTTAATTA
1 ATATGCTTAATTTAATTA
26218666 ATATGGCTTAAATTTAATT
1 ATAT-GCTT-AATTTAATT
26218685 CGTGTTAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 4 0.24
20 9 0.53
ACGTcount: A:0.38, C:0.05, G:0.08, T:0.49
Consensus pattern (18 bp):
ATATGCTTAATTTAATTA
Found at i:26220423 original size:3 final size:3
Alignment explanation
Indices: 26220415--26220469 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
26220405 TGTTATTAAG
26220415 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
26220463 TTA TTA T
1 TTA TTA T
26220470 ATATACATAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:26221260 original size:2 final size:2
Alignment explanation
Indices: 26221253--26221281 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
26221243 TAGATTATTT
26221253 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
26221282 TCATTTCGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:26223536 original size:49 final size:50
Alignment explanation
Indices: 26223461--26223562 Score: 161
Period size: 49 Copynumber: 2.1 Consensus size: 50
26223451 AAACATGGTA
* *
26223461 GTTATAATTCTTTTTTGGAAATAATATAACATTTTTAATACTTTCCATAT
1 GTTATAATTCTTTTTTGGAAAGAATATAACATGTTTAATACTTTCCATAT
* *
26223511 GTTATAGTTC-TTTTTGGAAAGAATATAACATGTTTAATGCTTTCCATAT
1 GTTATAATTCTTTTTTGGAAAGAATATAACATGTTTAATACTTTCCATAT
26223560 GTT
1 GTT
26223563 CTCTATAGGA
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
49 39 0.81
50 9 0.19
ACGTcount: A:0.31, C:0.10, G:0.11, T:0.48
Consensus pattern (50 bp):
GTTATAATTCTTTTTTGGAAAGAATATAACATGTTTAATACTTTCCATAT
Found at i:26225800 original size:28 final size:27
Alignment explanation
Indices: 26225755--26225828 Score: 105
Period size: 28 Copynumber: 2.7 Consensus size: 27
26225745 AATGGAGAAA
*
26225755 TAGGTTTTCAAAAA-TGAAAATGAATG
1 TAGGTTTCCAAAAATTGAAAATGAATG
26225781 TAGGTTTCCAAAAATTTGAAAATGAATG
1 TAGGTTTCCAAAAA-TTGAAAATGAATG
* *
26225809 TAGGTTTCTAAAAATGGAAA
1 TAGGTTTCCAAAAATTGAAA
26225829 TGGAAATGGA
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
26 13 0.30
27 5 0.12
28 25 0.58
ACGTcount: A:0.45, C:0.05, G:0.19, T:0.31
Consensus pattern (27 bp):
TAGGTTTCCAAAAATTGAAAATGAATG
Found at i:26225831 original size:6 final size:6
Alignment explanation
Indices: 26225820--26225852 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
26225810 AGGTTTCTAA
26225820 AAATGG AAATGG AAATGG AAATGG AAATGG AAA
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAA
26225853 CTTGAAATCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.30, T:0.15
Consensus pattern (6 bp):
AAATGG
Found at i:26230454 original size:62 final size:62
Alignment explanation
Indices: 26230324--26230443 Score: 152
Period size: 62 Copynumber: 1.9 Consensus size: 62
26230314 GGTACACACC
* * * * * *
26230324 CGTGTCCCTGACCGTGTGGTTTTATACCACAAATAGTGAGTTACACAGCCAAGGCACATGCC
1 CGTGTCCCTGACCGTGTGGTCTCATACCACAAACAGTGAGTTACACAGACAAGACACATGCA
* *
26230386 CGTGTCCCTGGCTGTGTGGTCTCATACCACAAACAGTGAGTTACAC-GACATAGACACA
1 CGTGTCCCTGACCGTGTGGTCTCATACCACAAACAGTGAGTTACACAGACA-AGACACA
26230444 CTCATGTGTC
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
61 3 0.06
62 47 0.94
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.23
Consensus pattern (62 bp):
CGTGTCCCTGACCGTGTGGTCTCATACCACAAACAGTGAGTTACACAGACAAGACACATGCA
Found at i:26235606 original size:27 final size:27
Alignment explanation
Indices: 26235550--26235608 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
26235540 TTCTCAAAAT
**
26235550 TAAT-AAATATTAATTTATCGATAATT
1 TAATAAAATATTAATTTATCGATAAAG
*
26235576 TAATAAAATA-TACATTTATCGGTAAAG
1 TAATAAAATATTA-ATTTATCGATAAAG
26235603 TAATAA
1 TAATAA
26235609 CCTCGATAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 6 0.21
27 22 0.79
ACGTcount: A:0.49, C:0.05, G:0.07, T:0.39
Consensus pattern (27 bp):
TAATAAAATATTAATTTATCGATAAAG
Found at i:26236247 original size:19 final size:19
Alignment explanation
Indices: 26236184--26236257 Score: 69
Period size: 19 Copynumber: 3.8 Consensus size: 19
26236174 CAGTATCAGG
* *
26236184 GAGCACCGATGTGCTAAGCA
1 GAGCACCAAAGTGC-AAGCA
* *
26236204 GGGCA-CAAATGTGCATAGAA
1 GAGCACCAAA-GTGCA-AGCA
26236224 GAGCACCAAAGTGCAAGCA
1 GAGCACCAAAGTGCAAGCA
*
26236243 GAGCACCAGAGTGCA
1 GAGCACCAAAGTGCA
26236258 TAACAAGGAA
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
19 20 0.45
20 20 0.45
21 4 0.09
ACGTcount: A:0.36, C:0.23, G:0.30, T:0.11
Consensus pattern (19 bp):
GAGCACCAAAGTGCAAGCA
Found at i:26236296 original size:20 final size:19
Alignment explanation
Indices: 26236261--26236321 Score: 70
Period size: 19 Copynumber: 3.2 Consensus size: 19
26236251 GAGTGCATAA
* *
26236261 CAAGGAACACATGTGCAAT
1 CAAGGCACATATGTGCAAT
*
26236280 CAGAGGCATCATA-GTGCAAA
1 CA-AGGCA-CATATGTGCAAT
26236300 CAAGGCACATATGTGCAAT
1 CAAGGCACATATGTGCAAT
26236319 CAA
1 CAA
26236322 AAGTAATGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
18 4 0.11
19 16 0.46
20 12 0.34
21 3 0.09
ACGTcount: A:0.41, C:0.21, G:0.21, T:0.16
Consensus pattern (19 bp):
CAAGGCACATATGTGCAAT
Found at i:26236315 original size:19 final size:19
Alignment explanation
Indices: 26236253--26236317 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 19
26236243 GAGCACCAGA
* *
26236253 GTGCATAACAAGGAACACAT
1 GTGCA-AACAAGGCACATAT
*
26236273 GTGCAATCAGAGGCATCATA-
1 GTGCAAACA-AGGCA-CATAT
26236293 GTGCAAACAAGGCACATAT
1 GTGCAAACAAGGCACATAT
26236312 GTGCAA
1 GTGCAA
26236318 TCAAAAGTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
18 4 0.11
19 14 0.37
20 17 0.45
21 3 0.08
ACGTcount: A:0.40, C:0.20, G:0.23, T:0.17
Consensus pattern (19 bp):
GTGCAAACAAGGCACATAT
Found at i:26236318 original size:39 final size:39
Alignment explanation
Indices: 26236234--26236320 Score: 113
Period size: 39 Copynumber: 2.2 Consensus size: 39
26236224 GAGCACCAAA
*
26236234 GTGCAAGCAGAGCACCAGAGTGCATAACAAGGAACACAT
1 GTGCAATCAGAGCACCAGAGTGCATAACAAGGAACACAT
* * * *
26236273 GTGCAATCAGAGGCATCATAGTGCA-AACAAGGCACATAT
1 GTGCAATCAGA-GCACCAGAGTGCATAACAAGGAACACAT
26236312 GTGCAATCA
1 GTGCAATCA
26236321 AAAGTAATGT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
39 31 0.74
40 11 0.26
ACGTcount: A:0.39, C:0.22, G:0.24, T:0.15
Consensus pattern (39 bp):
GTGCAATCAGAGCACCAGAGTGCATAACAAGGAACACAT
Found at i:26240157 original size:15 final size:16
Alignment explanation
Indices: 26240112--26240167 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
26240102 AATAAGATTT
* *
26240112 AATATTAAATTTAATCT
1 AATATTATA-TTAATCA
*
26240129 AATATTTATCTTAA-CA
1 AATA-TTATATTAATCA
*
26240145 AATATTATATTAATTA
1 AATATTATATTAATCA
26240161 AATATTA
1 AATATTA
26240168 AAGTGATTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
15 8 0.25
16 13 0.41
17 8 0.25
18 3 0.09
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.46
Consensus pattern (16 bp):
AATATTATATTAATCA
Found at i:26250524 original size:19 final size:20
Alignment explanation
Indices: 26250500--26250541 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
26250490 GTATTAAGGA
*
26250500 GCACCAACGTGCA-AACAGG
1 GCACCAAAGTGCATAACAGG
26250519 GCACCAAAGTGCATAACAGG
1 GCACCAAAGTGCATAACAGG
26250539 GCA
1 GCA
26250542 TAGATTAGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.38, C:0.29, G:0.26, T:0.07
Consensus pattern (20 bp):
GCACCAAAGTGCATAACAGG
Found at i:26252541 original size:10 final size:10
Alignment explanation
Indices: 26252528--26252578 Score: 54
Period size: 10 Copynumber: 5.4 Consensus size: 10
26252518 TTTATACATA
*
26252528 TTTAATTAAT
1 TTTAATTATT
26252538 TTT-A-TATT
1 TTTAATTATT
**
26252546 TTTAACAATT
1 TTTAATTATT
26252556 TTT-ATTATT
1 TTTAATTATT
26252565 TTTAATTATT
1 TTTAATTATT
26252575 TTTA
1 TTTA
26252579 TAAATTTCCT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
8 6 0.18
9 9 0.26
10 19 0.56
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (10 bp):
TTTAATTATT
Found at i:26252566 original size:19 final size:19
Alignment explanation
Indices: 26252537--26252579 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
26252527 ATTTAATTAA
26252537 TTTTA-TATTTTTAACAAT
1 TTTTATTATTTTTAACAAT
**
26252555 TTTTATTATTTTTAATTAT
1 TTTTATTATTTTTAACAAT
26252574 TTTTAT
1 TTTTAT
26252580 AAATTTCCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTTATTATTTTTAACAAT
Found at i:26257649 original size:16 final size:17
Alignment explanation
Indices: 26257640--26257671 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
26257630 TTCAAGACAA
26257640 ATGTTGTTCAAGAATAG
1 ATGTTGTTCAAGAATAG
26257657 ATGTTGTTC-AGAATA
1 ATGTTGTTCAAGAATA
26257672 ACCTCTACCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.34, C:0.06, G:0.22, T:0.38
Consensus pattern (17 bp):
ATGTTGTTCAAGAATAG
Found at i:26261386 original size:67 final size:65
Alignment explanation
Indices: 26261271--26261402 Score: 210
Period size: 67 Copynumber: 2.0 Consensus size: 65
26261261 TTCGAAACTC
* *
26261271 AATCAAGAAAAATACTAAACTGTAATTATGACAAAAAGTCATATAAATCTTACACTCACATTTTC
1 AATCAAGAAAAATACTAAACTGTAATTATGACAAAAAGCCATACAAATCTTACA--CACATTTTC
26261336 TT
64 TT
* *
26261338 AATCAAGAAAAATACTAAACTGTAATTTTGGCAAAAAGCCATACAAATCTTACACACATTTTCTT
1 AATCAAGAAAAATACTAAACTGTAATTATGACAAAAAGCCATACAAATCTTACACACATTTTCTT
26261403 TCTGCAAGCA
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
65 11 0.18
67 50 0.82
ACGTcount: A:0.45, C:0.17, G:0.07, T:0.30
Consensus pattern (65 bp):
AATCAAGAAAAATACTAAACTGTAATTATGACAAAAAGCCATACAAATCTTACACACATTTTCTT
Found at i:26264281 original size:22 final size:22
Alignment explanation
Indices: 26264237--26264283 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
26264227 ATGTTTCCTA
*
26264237 TCTCGAGACAATCAACCTCATG
1 TCTCGAGACAAGCAACCTCATG
*
26264259 TCTCGAGACCAAGCAATCT-ATG
1 TCTCGAGA-CAAGCAACCTCATG
26264281 TCT
1 TCT
26264284 TAAGACATGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.26
Consensus pattern (22 bp):
TCTCGAGACAAGCAACCTCATG
Found at i:26267637 original size:25 final size:24
Alignment explanation
Indices: 26267606--26267680 Score: 86
Period size: 25 Copynumber: 3.2 Consensus size: 24
26267596 TGTATATATA
26267606 TATTCGAATTTATGTATTAGCTATG
1 TATTCGAA-TTATGTATTAGCTATG
*
26267631 TATTCGAA-TATGTA-TA--TATA
1 TATTCGAATTATGTATTAGCTATG
*
26267651 TATTCGAATGTAGGTATTAGCTATG
1 TATTCGAAT-TATGTATTAGCTATG
26267676 TATTC
1 TATTC
26267681 AGGTATAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
20 11 0.26
22 7 0.17
23 8 0.19
25 16 0.38
ACGTcount: A:0.31, C:0.08, G:0.16, T:0.45
Consensus pattern (24 bp):
TATTCGAATTATGTATTAGCTATG
Found at i:26267640 original size:45 final size:45
Alignment explanation
Indices: 26267591--26267680 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
26267581 TGTATATGAT
* *
26267591 GAATATGTATATATATATTCGAATTTATGTATTAGCTATGTATTC
1 GAATATGTATATATATATTCGAATGTAGGTATTAGCTATGTATTC
26267636 GAATATGTATATATATATTCGAATGTAGGTATTAGCTATGTATTC
1 GAATATGTATATATATATTCGAATGTAGGTATTAGCTATGTATTC
26267681 AGGTATAAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.33, C:0.07, G:0.16, T:0.44
Consensus pattern (45 bp):
GAATATGTATATATATATTCGAATGTAGGTATTAGCTATGTATTC
Found at i:26268886 original size:20 final size:19
Alignment explanation
Indices: 26268863--26268901 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
26268853 GAAGAAATGA
*
26268863 AAATGAGAGATGAGATGATG
1 AAATGAGAGAAGAGA-GATG
26268883 AAATGAGAGAAGAGAGATG
1 AAATGAGAGAAGAGAGATG
26268902 CTTGAATGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.49, C:0.00, G:0.36, T:0.15
Consensus pattern (19 bp):
AAATGAGAGAAGAGAGATG
Found at i:26270326 original size:51 final size:50
Alignment explanation
Indices: 26270143--26270487 Score: 318
Period size: 51 Copynumber: 6.8 Consensus size: 50
26270133 ACTTTTATCA
* * * *
26270143 TTCGATACACGTAGTAGGCTTCACATAGTACTACACACGTGATC-AAGTT
1 TTCGGTACACATAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTT
* * * * *
26270192 TTACAGTTCGCGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAGTT
1 TT-CGGTACACATAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTT
* * *
26270242 TTACAGTTCACATAGTAGCCTTCACATAGTACTACATACGTGACCAAAGCTT
1 TT-CGGTACACATAGTAGCCTTCACATAGTACTACACACGTGACCAAAG-TT
* * **
26270294 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCGTT
1 TTCGGTACACATAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTT
* * * * * *
26270344 TATCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACTAAAACTT
1 T-TCGGTACACATAGTAGCCTTCACATAGTACTACACACGTGAC-CAAAGTT
* * * * *
26270396 CTCGGTACACATTGTAGCCTTCACTTAGTACTACACATGTGACCATTA-TT
1 TTCGGTACACATAGTAGCCTTCACATAGTACTACACACGTGACCA-AAGTT
* * * * *
26270446 TATCGATACACGTAGTAGCCTTCATACATTACTACACACGTG
1 T-TCGGTACACATAGTAGCCTTCACATAGTACTACACACGTG
26270488 TTCATCGATA
Statistics
Matches: 244, Mismatches: 45, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
49 2 0.01
50 89 0.36
51 146 0.60
52 7 0.03
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (50 bp):
TTCGGTACACATAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTT
Found at i:26270376 original size:102 final size:102
Alignment explanation
Indices: 26270144--26270487 Score: 412
Period size: 102 Copynumber: 3.4 Consensus size: 102
26270134 CTTTTATCAT
* * * * * * *
26270144 TCGATACACGTAGTAGGCTTCACATAGTACTACACACGTGATC-AAG-TTTTACAGTTCGCGTAG
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTT-CGGTACACATAG
* * *
26270207 TAGCCTTCACATAGTACTACACACGTGATCA-AGTTT-
65 TAGCCTTCACTTAGTACTACACATGTGACCATAGTTTA
* * * *
26270243 TAC-AGTTCACATAGTAGCCTTCACATAGTACTACATACGTGACCAAAGCTTTTCGGTACACATA
1 T-CGA-TACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTCGGTACACATA
*
26270307 GTAGCCTTCACTTAGTACTACACATGTGACCATCGTTTA
64 GTAGCCTTCACTTAGTACTACACATGTGACCATAGTTTA
* * * * *
26270346 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACTAAAACTTCTCGGTACACATTGT
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGT
26270411 AGCCTTCACTTAGTACTACACATGTGACCATTA-TTTA
66 AGCCTTCACTTAGTACTACACATGTGACCA-TAGTTTA
* *
26270448 TCGATACACGTAGTAGCCTTCATACATTACTACACACGTG
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTG
26270488 TTCATCGATA
Statistics
Matches: 213, Mismatches: 24, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
99 2 0.01
100 35 0.16
101 39 0.18
102 134 0.63
103 3 0.01
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (102 bp):
TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGT
AGCCTTCACTTAGTACTACACATGTGACCATAGTTTA
Found at i:26270506 original size:153 final size:151
Alignment explanation
Indices: 26270143--26270487 Score: 351
Period size: 153 Copynumber: 2.3 Consensus size: 151
26270133 ACTTTTATCA
* * * * * * *
26270143 TTCGATACACGTAGTAGGCTTCACAT-AGTACTACACACGTGATCA-AGTTTTACAG-TTCGCGT
1 TTCGATACACATAGTAGCCTTCAC-TCAGTACTACACACGTGACCATCG-TATACCGATTCACGT
* * * * *
26270205 AGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACAGTTCACATAGTAGCCTTCACATA
64 AGTAGCCTTCACACAGTACTACACACGTGATAAACTTCTACAGTACACATAGTAGCCTTCACATA
*
26270270 GTACTACATACGTGACCAAAGCTT
129 GTACTACACACGTGACCAAA-CTT
* * * * *
26270294 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCGTTTATCGATTCACGTAG
1 TTCGATACACATAGTAGCCTTCACTCAGTACTACACACGTGACCATCGTATACCGATTCACGTAG
* * *
26270359 TAGCCTTCACACAGTACTACACACGTGACTAAAACTTCT-CGGTACACATTGTAGCCTTCACTTA
66 TAGCCTTCACACAGTACTACACACGTGA-T-AAACTTCTACAGTACACATAGTAGCCTTCACATA
* *
26270423 GTACTACACATGTGACCATTA-TT
129 GTACTACACACGTGACCA-AACTT
* *
26270446 TATCGATACACGTAGTAGCCTTCA-TACATTACTACACACGTG
1 T-TCGATACACATAGTAGCCTTCACT-CAGTACTACACACGTG
26270488 TTCATCGATA
Statistics
Matches: 161, Mismatches: 25, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
150 1 0.01
151 43 0.27
152 40 0.25
153 71 0.44
154 6 0.04
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (151 bp):
TTCGATACACATAGTAGCCTTCACTCAGTACTACACACGTGACCATCGTATACCGATTCACGTAG
TAGCCTTCACACAGTACTACACACGTGATAAACTTCTACAGTACACATAGTAGCCTTCACATAGT
ACTACACACGTGACCAAACTT
Found at i:26271007 original size:29 final size:31
Alignment explanation
Indices: 26270957--26271014 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
26270947 CCTCGACTCT
* *
26270957 AACTTTTTCAAAATTATGA-TTTTGCCCCTA
1 AACTTTTACAAAATTATCATTTTTGCCCCTA
*
26270987 AACTTTTACATAATTA-CATTTTTGCCCC
1 AACTTTTACAAAATTATCATTTTTGCCCC
26271015 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.29, C:0.22, G:0.05, T:0.43
Consensus pattern (31 bp):
AACTTTTACAAAATTATCATTTTTGCCCCTA
Found at i:26273438 original size:22 final size:22
Alignment explanation
Indices: 26273413--26273461 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
26273403 AGGCAAAAAC
26273413 CATGTAGAAAGAGACACACAGT
1 CATGTAGAAAGAGACACACAGT
* * *
26273435 CATGTTGGAGGAGACACACAGT
1 CATGTAGAAAGAGACACACAGT
26273457 CATGT
1 CATGT
26273462 TCTAAGACCG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.37, C:0.18, G:0.27, T:0.18
Consensus pattern (22 bp):
CATGTAGAAAGAGACACACAGT
Found at i:26277478 original size:18 final size:18
Alignment explanation
Indices: 26277455--26277557 Score: 54
Period size: 17 Copynumber: 5.9 Consensus size: 18
26277445 ATAGCTCACT
26277455 AGAACTGCGAGCTCACCA
1 AGAACTGCGAGCTCACCA
***
26277473 AGAACTATAAGCTCACCA
1 AGAACTGCGAGCTCACCA
*
26277491 A-AA-TGTACGAGCTCACAA
1 AGAACTG--CGAGCTCACCA
* *
26277509 AG-ATTGTGAGCTCACCA
1 AGAACTGCGAGCTCACCA
* * *
26277526 A-CACTGCAAACTCACCA
1 AGAACTGCGAGCTCACCA
* *
26277543 AGCA-TGAGAGCTCAC
1 AGAACTGCGAGCTCAC
26277558 TTGCGAGCTC
Statistics
Matches: 63, Mismatches: 16, Indels: 13
0.68 0.17 0.14
Matches are distributed among these distances:
16 1 0.02
17 32 0.51
18 28 0.44
19 2 0.03
ACGTcount: A:0.38, C:0.29, G:0.17, T:0.16
Consensus pattern (18 bp):
AGAACTGCGAGCTCACCA
Found at i:26285308 original size:17 final size:17
Alignment explanation
Indices: 26285286--26285379 Score: 68
Period size: 17 Copynumber: 5.5 Consensus size: 17
26285276 AACTGCGAGC
26285286 TGCGAGCTCACCAAATG
1 TGCGAGCTCACCAAATG
* * **
26285303 TGCGAGTTCACCTAACC
1 TGCGAGCTCACCAAATG
* * *
26285320 TGCAAGTTCACCAAATA
1 TGCGAGCTCACCAAATG
*
26285337 TGCGAGCTCTACAAAATAG
1 TGCGAGCTC-ACCAAAT-G
26285356 T--GAGCTCACCAAGAT-
1 TGCGAGCTCACCAA-ATG
26285371 TGCGAGCTC
1 TGCGAGCTC
26285380 GCCTGCGAAG
Statistics
Matches: 59, Mismatches: 13, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
15 1 0.02
16 4 0.07
17 47 0.80
18 6 0.10
19 1 0.02
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (17 bp):
TGCGAGCTCACCAAATG
Found at i:26285466 original size:34 final size:35
Alignment explanation
Indices: 26285393--26285470 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 35
26285383 TGCGAAGAGC
* * *
26285393 GAGCTCACCAAAATGTACGAGCTCACTAAGATAAT
1 GAGCTCACCAAAATCTACAAGCTCACCAAGATAAT
* *
26285428 GAGCTCACCAACA-CTACAAGCTCACCAAGCATGA-
1 GAGCTCACCAAAATCTACAAGCTCACCAAG-ATAAT
26285462 GAGCTCACC
1 GAGCTCACC
26285471 TGCAAGCTCT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
34 22 0.59
35 15 0.41
ACGTcount: A:0.37, C:0.31, G:0.17, T:0.15
Consensus pattern (35 bp):
GAGCTCACCAAAATCTACAAGCTCACCAAGATAAT
Found at i:26285629 original size:3 final size:3
Alignment explanation
Indices: 26285621--26285683 Score: 117
Period size: 3 Copynumber: 20.7 Consensus size: 3
26285611 AGCCAAGTTG
26285621 TAT TAT TAT TAT TAT TAT TAT TATT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
26285667 TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TA
26285684 GCTTATTTAA
Statistics
Matches: 59, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 56 0.95
4 3 0.05
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:26285784 original size:9 final size:10
Alignment explanation
Indices: 26285765--26285789 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
26285755 AAATTCTCCA
26285765 TTTTTCTTTT
1 TTTTTCTTTT
26285775 TTTTTCTTTT
1 TTTTTCTTTT
26285785 TTTTT
1 TTTTT
26285790 TGCTTTTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:26295154 original size:13 final size:13
Alignment explanation
Indices: 26295119--26295156 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
26295109 AGTTCTTCAT
*
26295119 TGCTTTTGAAAAG
1 TGCTTTTGAGAAG
26295132 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
26295145 TGCTTTTGAGAA
1 TGCTTTTGAGAA
26295157 ATTTGAATGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.39
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:26295409 original size:19 final size:19
Alignment explanation
Indices: 26295385--26295442 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 19
26295375 AATTATTTAT
26295385 TAAATT-TAATTAGAATATA
1 TAAATTATAATTA-AATATA
* *
26295404 TAAATTATATTTAAATATT
1 TAAATTATAATTAAATATA
*
26295423 TAAATATAAAAGTTAAATAT
1 TAAAT-TATAA-TTAAATAT
26295443 TTGTAATTAG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 16 0.50
20 8 0.25
21 8 0.25
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (19 bp):
TAAATTATAATTAAATATA
Found at i:26295681 original size:8 final size:8
Alignment explanation
Indices: 26295668--26295694 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
26295658 TATATAAACT
26295668 ATATTTAA
1 ATATTTAA
26295676 ATATTTAA
1 ATATTTAA
26295684 ATATTTAA
1 ATATTTAA
26295692 ATA
1 ATA
26295695 CAAAAATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
ATATTTAA
Found at i:26295971 original size:30 final size:30
Alignment explanation
Indices: 26295960--26296084 Score: 135
Period size: 30 Copynumber: 4.2 Consensus size: 30
26295950 ACTTTTTTTG
26295960 AAATTATATTTTAACCCCTAAACTTTCTTA
1 AAATTATATTTTAACCCCTAAACTTTCTTA
* *
26295990 AAATTATATTTCAACCCCTAAACTTTCTCA
1 AAATTATATTTTAACCCCTAAACTTTCTTA
* * * * *
26296020 AAATTATGTTTTGACCCTTAAAATTTCTTG
1 AAATTATATTTTAACCCCTAAACTTTCTTA
* * * * *
26296050 AAATTAAATTTTGA-TCCTAAATTTTCTCA
1 AAATTATATTTTAACCCCTAAACTTTCTTA
26296079 AAATTA
1 AAATTA
26296085 CACTTTGGCC
Statistics
Matches: 79, Mismatches: 16, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
29 16 0.20
30 63 0.80
ACGTcount: A:0.37, C:0.18, G:0.03, T:0.42
Consensus pattern (30 bp):
AAATTATATTTTAACCCCTAAACTTTCTTA
Found at i:26295984 original size:31 final size:31
Alignment explanation
Indices: 26295949--26296026 Score: 106
Period size: 30 Copynumber: 2.6 Consensus size: 31
26295939 TTTGACCCCC
* * *
26295949 AACTTTTTTTGAAATTATATTTTAACCCCTA
1 AACTTTTCTTAAAATTATATTTCAACCCCTA
26295980 AAC-TTTCTTAAAATTATATTTCAACCCCTA
1 AACTTTTCTTAAAATTATATTTCAACCCCTA
*
26296010 AAC-TTTCTCAAAATTAT
1 AACTTTTCTTAAAATTAT
26296027 GTTTTGACCC
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
30 40 0.93
31 3 0.07
ACGTcount: A:0.36, C:0.19, G:0.01, T:0.44
Consensus pattern (31 bp):
AACTTTTCTTAAAATTATATTTCAACCCCTA
Found at i:26296084 original size:59 final size:60
Alignment explanation
Indices: 26295960--26296084 Score: 153
Period size: 60 Copynumber: 2.1 Consensus size: 60
26295950 ACTTTTTTTG
* *
26295960 AAATTATATTTTAACCCCTAAACTTTCTTAAAATTATATTTCAACCCCTAAACTTTCTCA
1 AAATTATATTTTAACCCCTAAAATTTCTTAAAATTAAATTTCAACCCCTAAACTTTCTCA
* * * * ** * *
26296020 AAATTATGTTTTGACCCTTAAAATTTCTTGAAATTAAATTTTGA-TCCTAAATTTTCTCA
1 AAATTATATTTTAACCCCTAAAATTTCTTAAAATTAAATTTCAACCCCTAAACTTTCTCA
26296079 AAATTA
1 AAATTA
26296085 CACTTTGGCC
Statistics
Matches: 55, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
59 19 0.35
60 36 0.65
ACGTcount: A:0.37, C:0.18, G:0.03, T:0.42
Consensus pattern (60 bp):
AAATTATATTTTAACCCCTAAAATTTCTTAAAATTAAATTTCAACCCCTAAACTTTCTCA
Found at i:26296825 original size:15 final size:15
Alignment explanation
Indices: 26296781--26296825 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
26296771 GCAGGCCAGA
* *
26296781 AAAAAAAAGAAGAGG
1 AAAAAAAAGAAAAAG
26296796 AAAAAAAAGATAAAAG
1 AAAAAAAAGA-AAAAG
*
26296812 AAAAAAAGGAAAAA
1 AAAAAAAAGAAAAA
26296826 AAACCCAAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
15 14 0.54
16 12 0.46
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (15 bp):
AAAAAAAAGAAAAAG
Found at i:26298257 original size:11 final size:11
Alignment explanation
Indices: 26298241--26298344 Score: 51
Period size: 11 Copynumber: 9.7 Consensus size: 11
26298231 TATTTTTTAA
26298241 TTTTAAAATAT
1 TTTTAAAATAT
26298252 TTTTAAAATACT
1 TTTTAAAATA-T
*
26298264 TTTT---TTAT
1 TTTTAAAATAT
**
26298272 TTTT-TTA-AT
1 TTTTAAAATAT
26298281 -TTTAAAATAT
1 TTTTAAAATAT
*
26298291 TTCTAAAATACT
1 TTTTAAAATA-T
*** *
26298303 TTTT-CTTTAA
1 TTTTAAAATAT
26298313 TTTTAAAATAT
1 TTTTAAAATAT
26298324 TTTTAAAATACTT
1 TTTTAAAATA--T
26298337 TTTTAAAA
1 TTTTAAAA
26298345 AAAAATTTAA
Statistics
Matches: 69, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
8 8 0.12
9 5 0.07
10 6 0.09
11 32 0.46
12 9 0.13
13 9 0.13
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.58
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:26298284 original size:39 final size:38
Alignment explanation
Indices: 26298233--26298340 Score: 154
Period size: 33 Copynumber: 2.9 Consensus size: 38
26298223 TAAATATATA
26298233 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAT
1 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTT-T
*
26298272 TTTTTTAATTTTAAAATATTTCTAAAATAC-----TTT
1 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTT
*
26298305 TTCTTTAATTTTAAAATATTTTTAAAATACTTTTTT
1 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTT
26298341 AAAAAAAAAT
Statistics
Matches: 61, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
33 29 0.48
34 2 0.03
38 1 0.02
39 29 0.48
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (38 bp):
TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTT
Found at i:26299734 original size:50 final size:49
Alignment explanation
Indices: 26299548--26299742 Score: 167
Period size: 50 Copynumber: 3.9 Consensus size: 49
26299538 GATAATAACA
* ** * * * *
26299548 TGCCAAAGCCATGTCCCAAACATGGTCTTACATGGGATGTTTCTTGTAC
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATATAG
* * * * * ** *
26299597 TGCCAATGCCATATTCCAGATATGGTTTTACATGGGAGTTCTCATATTGG
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATA-TAG
** *
26299647 TGCTC-ATGCCATGTCCCAAACATGGTCTTACGGGGGACCTCTCATCTCAG
1 TGC-CAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATAT-AG
* * *
26299697 TGCCAACGCCATGCCCCAGACATGGTCTTACATGGGACCTCTCATA
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATA
26299743 ATCTCAATGA
Statistics
Matches: 112, Mismatches: 30, Indels: 7
0.75 0.20 0.05
Matches are distributed among these distances:
49 37 0.33
50 74 0.66
51 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (49 bp):
TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATATAG
Found at i:26301022 original size:50 final size:50
Alignment explanation
Indices: 26300947--26301188 Score: 240
Period size: 50 Copynumber: 4.9 Consensus size: 50
26300937 CATTTGGGTA
* * *
26300947 AAGAGGTCTCATGTAAGACCATGTCTTGGACATGGCGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
*
26300997 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* ** * * * *
26301047 GAGAGGTCCCCCGTAAGACCATGTCTAGGACATGGCATGGGCACCAATAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* ** * * * *
26301097 GAGAACTCTCATGTAAGACCATATCTGGGATATGGCATTGGCAGTAC-AGGA-
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA--CCGA-GAT
* * *
26301148 AACA--TCCCATGTAAGACCATGTTTGGGACATGGCTTTGGCA
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
26301189 TGTTATTATT
Statistics
Matches: 161, Mismatches: 28, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
49 32 0.20
50 124 0.77
51 3 0.02
52 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
Found at i:26305877 original size:18 final size:18
Alignment explanation
Indices: 26305856--26305903 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
26305846 TCCATTAATT
*
26305856 TGAACATCATTTGAAATG
1 TGAACATCATTTAAAATG
26305874 TGAACATCATTTAAAATG
1 TGAACATCATTTAAAATG
26305892 TGAACATCATTT
1 TGAACATCATTT
26305904 CTCATATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (18 bp):
TGAACATCATTTAAAATG
Found at i:26309431 original size:16 final size:15
Alignment explanation
Indices: 26309406--26309439 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
26309396 ATGATTTCAG
26309406 TTTTAGAGATGTGAT
1 TTTTAGAGATGTGAT
26309421 TTTTCAGAGATGTGAT
1 TTTT-AGAGATGTGAT
26309437 TTT
1 TTT
26309440 GAATAAGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.24, C:0.03, G:0.24, T:0.50
Consensus pattern (15 bp):
TTTTAGAGATGTGAT
Found at i:26311322 original size:19 final size:19
Alignment explanation
Indices: 26311275--26311316 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
26311265 ATGGCAAAGT
* *
26311275 TGAGAAATG-ATTATGAGA
1 TGAGAAATGAAATATGAAA
26311293 TGAGAAATGAAATATGAAA
1 TGAGAAATGAAATATGAAA
26311312 TGAGA
1 TGAGA
26311317 TGTGAACTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.50, C:0.00, G:0.26, T:0.24
Consensus pattern (19 bp):
TGAGAAATGAAATATGAAA
Found at i:26322343 original size:14 final size:15
Alignment explanation
Indices: 26322326--26322354 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
26322316 GAGATGAGAG
26322326 ATGAAAT-ATGAAAT
1 ATGAAATAATGAAAT
26322340 ATGAAATAATGAAAT
1 ATGAAATAATGAAAT
26322355 GAGATGTGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.59, C:0.00, G:0.14, T:0.28
Consensus pattern (15 bp):
ATGAAATAATGAAAT
Found at i:26332608 original size:23 final size:23
Alignment explanation
Indices: 26332582--26332722 Score: 185
Period size: 23 Copynumber: 6.2 Consensus size: 23
26332572 AGTGTTATTG
26332582 ATCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
* *
26332605 ATCAGTGGTAGCTTCGGCTACTT
1 ATCAGTGGTAGCTACGGCTACAT
* * *
26332628 TTTAGTGGTAGCTACGACTACAT
1 ATCAGTGGTAGCTACGGCTACAT
*
26332651 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
*
26332674 TTCAGTGGTAGCTACGGCTAC-T
1 ATCAGTGGTAGCTACGGCTACAT
* * *
26332696 ATCAGTGGCAGCTTCAGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
26332719 ATCA
1 ATCA
26332723 ATGTGGCACT
Statistics
Matches: 100, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
22 18 0.18
23 82 0.82
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTACGGCTACAT
Found at i:26332652 original size:46 final size:46
Alignment explanation
Indices: 26332583--26332718 Score: 220
Period size: 46 Copynumber: 3.0 Consensus size: 46
26332573 GTGTTATTGA
*
26332583 TCAGTGGTAGCTACGGCTACATATCAGTGGTAGCTTCGGCTACTTT
1 TCAGTGGTAGCTACGGCTACATATCAGTGGTAGCTTCGGCTACATT
* *
26332629 TTAGTGGTAGCTACGACTACATATCAGTGGTAGCTTCGGCTACATT
1 TCAGTGGTAGCTACGGCTACATATCAGTGGTAGCTTCGGCTACATT
* *
26332675 TCAGTGGTAGCTACGGCTAC-TATCAGTGGCAGCTTCAGCTACAT
1 TCAGTGGTAGCTACGGCTACATATCAGTGGTAGCTTCGGCTACAT
26332719 ATCAATGTGG
Statistics
Matches: 83, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
45 22 0.27
46 61 0.73
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (46 bp):
TCAGTGGTAGCTACGGCTACATATCAGTGGTAGCTTCGGCTACATT
Found at i:26336721 original size:144 final size:136
Alignment explanation
Indices: 26336458--26336724 Score: 345
Period size: 136 Copynumber: 1.9 Consensus size: 136
26336448 ACTCACTTAG
* * * *
26336458 TAACTTATTACTTATCCTCTAGCAACCAAAACACATATTTGTGAAAAAGGAACAAAGAAAAAAAA
1 TAACTTATTACTTATCCTCAAGCAACAAAAAAAAATATTTGTGAAAAAGGAACAAAGAAAAAAAA
* * * * *
26336523 TTAAGATGAAAATGAGTTGATTTGTTTCTTTAAACAAGCTAGAGTTAGTGAAGATGGAAACCCCC
66 TAAAAATGAAAATGAATTGATTTCTTTCTTTAAACAAGCTAGAGTTAGTAAAGATGGAAACCCCC
26336588 CACACT
131 CACACT
* * * *
26336594 TAACTTATTGCTTATCCTCAAGCAAGAAAAAAAAATATTTGTGCAAAAGGAGCAAAGAAAAAAAA
1 TAACTTATTACTTATCCTCAAGCAACAAAAAAAAATATTTGTGAAAAAGGAACAAAGAAAAAAAA
26336659 TAAAAAATTTAGGACAAAAATGAATTGATTTCTTTCTTTAAACAAGCTAGAGTTAGTAAAGATGG
66 T-AAAAA--T--G---AAAATGAATTGATTTCTTTCTTTAAACAAGCTAGAGTTAGTAAAGATGG
26336724 A
123 A
26336725 TGTAAATAAG
Statistics
Matches: 110, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
136 58 0.53
137 3 0.03
139 1 0.01
141 1 0.01
144 47 0.43
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.27
Consensus pattern (136 bp):
TAACTTATTACTTATCCTCAAGCAACAAAAAAAAATATTTGTGAAAAAGGAACAAAGAAAAAAAA
TAAAAATGAAAATGAATTGATTTCTTTCTTTAAACAAGCTAGAGTTAGTAAAGATGGAAACCCCC
CACACT
Found at i:26338894 original size:35 final size:35
Alignment explanation
Indices: 26338851--26338923 Score: 128
Period size: 35 Copynumber: 2.1 Consensus size: 35
26338841 CATAACATCC
*
26338851 TCAGTTTATCTGACCAGTGTAGGGCACAACTATTG
1 TCAGTTTATCCGACCAGTGTAGGGCACAACTATTG
*
26338886 TCAGTTTATCCGACCAGTGTAGGGCACAATTATTG
1 TCAGTTTATCCGACCAGTGTAGGGCACAACTATTG
26338921 TCA
1 TCA
26338924 ATATATTTGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.32
Consensus pattern (35 bp):
TCAGTTTATCCGACCAGTGTAGGGCACAACTATTG
Found at i:26345783 original size:4 final size:4
Alignment explanation
Indices: 26345774--26345837 Score: 58
Period size: 4 Copynumber: 16.2 Consensus size: 4
26345764 CATTATCACA
* * * * * *
26345774 TCTC TCTC TCTC TCTC -CTC TCAC TCAC TCAC TCAC TCAC TCAC TCTC
1 TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC
*
26345821 TCTC TCTA TCTC TCTC T
1 TCTC TCTC TCTC TCTC T
26345838 GTTTCACTCA
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
3 3 0.05
4 52 0.95
ACGTcount: A:0.11, C:0.48, G:0.00, T:0.41
Consensus pattern (4 bp):
TCTC
Found at i:26350380 original size:37 final size:36
Alignment explanation
Indices: 26350322--26350436 Score: 158
Period size: 37 Copynumber: 3.1 Consensus size: 36
26350312 TTCCAACTAA
*
26350322 AACATGTCAATCGCTCGTAAGAGCTAATCCACCCGAT
1 AACATGTCAAT-GCTCATAAGAGCTAATCCACCCGAT
*
26350359 AACATGTCATATGCTCATAAGAGCTAATCCACCTGAT
1 AACATGTCA-ATGCTCATAAGAGCTAATCCACCCGAT
* * *
26350396 AATATGCCAGATGCTTATAAGAGCTAATCCACCCGAT
1 AACATGTCA-ATGCTCATAAGAGCTAATCCACCCGAT
26350433 AACA
1 AACA
26350437 CGCCAGAACA
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
37 67 0.97
38 2 0.03
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.23
Consensus pattern (36 bp):
AACATGTCAATGCTCATAAGAGCTAATCCACCCGAT
Found at i:26351720 original size:25 final size:26
Alignment explanation
Indices: 26351692--26351751 Score: 104
Period size: 25 Copynumber: 2.3 Consensus size: 26
26351682 TTTTACTCCA
*
26351692 GTAAAATTTTTATGATTTTA-CCTTG
1 GTAAAATTTTGATGATTTTACCCTTG
26351717 GTAAAATTTTGATGATTTTACCCTTG
1 GTAAAATTTTGATGATTTTACCCTTG
26351743 GTAAAATTT
1 GTAAAATTT
26351752 CGAAAAAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 19 0.58
26 14 0.42
ACGTcount: A:0.30, C:0.08, G:0.13, T:0.48
Consensus pattern (26 bp):
GTAAAATTTTGATGATTTTACCCTTG
Found at i:26353342 original size:8 final size:8
Alignment explanation
Indices: 26353329--26353357 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
26353319 TGATTATGTT
26353329 ATTTTGTA
1 ATTTTGTA
26353337 ATTTTGTA
1 ATTTTGTA
26353345 ATTTTGTA
1 ATTTTGTA
26353353 ATTTT
1 ATTTT
26353358 TTGTATACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.10, T:0.66
Consensus pattern (8 bp):
ATTTTGTA
Found at i:26360366 original size:45 final size:45
Alignment explanation
Indices: 26360296--26360381 Score: 111
Period size: 45 Copynumber: 1.9 Consensus size: 45
26360286 AAACCTTATT
* * *
26360296 CTATTAACCCTCTAGTAGGGTATTTATCCTAAAAGTCTTACAGTC
1 CTATTAACCCTCTAGTAGGGCATTTATACTAAAACTCTTACAGTC
* *
26360341 CTATTAACCTTCTAGT-GGAGCATTTATACTAGAACTCTTAC
1 CTATTAACCCTCTAGTAGG-GCATTTATACTAAAACTCTTAC
26360382 TATTAACAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 2 0.06
45 33 0.94
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36
Consensus pattern (45 bp):
CTATTAACCCTCTAGTAGGGCATTTATACTAAAACTCTTACAGTC
Found at i:26361251 original size:15 final size:15
Alignment explanation
Indices: 26361233--26361263 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
26361223 AAAATATTAA
26361233 ATTATAAAAATTTTC
1 ATTATAAAAATTTTC
*
26361248 ATTATGAAAATTTTC
1 ATTATAAAAATTTTC
26361263 A
1 A
26361264 ATGGGTTGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (15 bp):
ATTATAAAAATTTTC
Found at i:26368038 original size:35 final size:36
Alignment explanation
Indices: 26367992--26368060 Score: 122
Period size: 35 Copynumber: 1.9 Consensus size: 36
26367982 TGTCAATCAT
26367992 TTCAATATCCAACAAGCTTAAAACATAAT-AATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATCAATAAA
*
26368027 TTCAATATCCAACAAGGTTAAAACATAATCAATA
1 TTCAATATCCAACAAGCTTAAAACATAATCAATA
26368061 TCTAACAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 28 0.88
36 4 0.12
ACGTcount: A:0.52, C:0.17, G:0.04, T:0.26
Consensus pattern (36 bp):
TTCAATATCCAACAAGCTTAAAACATAATCAATAAA
Found at i:26371238 original size:33 final size:33
Alignment explanation
Indices: 26371201--26371266 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
26371191 CAATCGTTAG
*
26371201 GGTGAGGAGAGTGAAAAGAGGAGCTGTGGAAAA
1 GGTGAAGAGAGTGAAAAGAGGAGCTGTGGAAAA
* *
26371234 GGTGAAGAGAGTGAAGAGATGAGCTGTGGAAAA
1 GGTGAAGAGAGTGAAAAGAGGAGCTGTGGAAAA
26371267 TGTCTTACCC
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:0.39, C:0.03, G:0.44, T:0.14
Consensus pattern (33 bp):
GGTGAAGAGAGTGAAAAGAGGAGCTGTGGAAAA
Found at i:26372412 original size:13 final size:13
Alignment explanation
Indices: 26372396--26372435 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
26372386 TTTAAACCAA
26372396 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* * *
26372409 ACTTTTCCACAGT
1 ACTTTTCAAAAGC
26372422 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
26372435 A
1 A
26372436 ATGAAGAACT
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:0.25, G:0.07, T:0.33
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:26372603 original size:18 final size:18
Alignment explanation
Indices: 26372580--26372617 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
26372570 ACCCTTGGAG
26372580 TAAAAAATTTATTTCAAA
1 TAAAAAATTTATTTCAAA
26372598 TAAAAAATTTATTTCAAA
1 TAAAAAATTTATTTCAAA
26372616 TA
1 TA
26372618 CATTCTACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAAAATTTATTTCAAA
Found at i:26373722 original size:36 final size:36
Alignment explanation
Indices: 26373671--26373743 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 36
26373661 ACATCTCTCT
* *
26373671 AAAACACACAAGAAAGCACATAAGTGCTAACCCTAA
1 AAAACACACAAGAAAGAACAGAAGTGCTAACCCTAA
* * * *
26373707 AAAATACACCAGAAAGAACCGAAGTGCTAAGCCTAA
1 AAAACACACAAGAAAGAACAGAAGTGCTAACCCTAA
26373743 A
1 A
26373744 GGCATCAGAG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.52, C:0.23, G:0.14, T:0.11
Consensus pattern (36 bp):
AAAACACACAAGAAAGAACAGAAGTGCTAACCCTAA
Found at i:26385415 original size:16 final size:15
Alignment explanation
Indices: 26385374--26385420 Score: 76
Period size: 15 Copynumber: 3.1 Consensus size: 15
26385364 TAATAAAATG
26385374 GATGAAAAGGTTATC
1 GATGAAAAGGTTATC
26385389 GATGAAAAGGTTATC
1 GATGAAAAGGTTATC
*
26385404 GATTAGAAAGGTTATC
1 GATGA-AAAGGTTATC
26385420 G
1 G
26385421 GTTAAAAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
15 19 0.63
16 11 0.37
ACGTcount: A:0.38, C:0.06, G:0.28, T:0.28
Consensus pattern (15 bp):
GATGAAAAGGTTATC
Found at i:26389695 original size:17 final size:17
Alignment explanation
Indices: 26389666--26389698 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
26389656 TATAAAATTT
26389666 ATTAAGATAAATATTAG
1 ATTAAGATAAATATTAG
26389683 ATTAA-ATATAATATTA
1 ATTAAGATA-AATATTA
26389699 AATCTTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (17 bp):
ATTAAGATAAATATTAG
Found at i:26391101 original size:21 final size:21
Alignment explanation
Indices: 26391075--26391118 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
26391065 CCAATGTATC
26391075 ATTCTACCAATGAATACATCT
1 ATTCTACCAATGAATACATCT
*
26391096 ATTCTATCAATGAATACATCT
1 ATTCTACCAATGAATACATCT
26391117 AT
1 AT
26391119 GTCTCTTCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.39, C:0.20, G:0.05, T:0.36
Consensus pattern (21 bp):
ATTCTACCAATGAATACATCT
Found at i:26392609 original size:21 final size:20
Alignment explanation
Indices: 26392583--26392622 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
26392573 CAAACCCGAC
26392583 GAGTATCGATACTTTGTAAAT
1 GAGTATCGATA-TTTGTAAAT
*
26392604 GAGTATCGATATTTTTAAA
1 GAGTATCGATATTTGTAAA
26392623 AAAGTATCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.35, C:0.07, G:0.17, T:0.40
Consensus pattern (20 bp):
GAGTATCGATATTTGTAAAT
Found at i:26392628 original size:20 final size:20
Alignment explanation
Indices: 26392584--26392635 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
26392574 AAACCCGACG
**
26392584 AGTATCGATACTTTGTAAATG
1 AGTATCGATA-TTTGTAAAAA
*
26392605 AGTATCGATATTTTTAAAAA
1 AGTATCGATATTTGTAAAAA
*
26392625 AGTATCAATAT
1 AGTATCGATAT
26392636 AATATTATTG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 17 0.63
21 10 0.37
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.38
Consensus pattern (20 bp):
AGTATCGATATTTGTAAAAA
Found at i:26394343 original size:38 final size:37
Alignment explanation
Indices: 26394292--26394365 Score: 103
Period size: 38 Copynumber: 2.0 Consensus size: 37
26394282 CAATACACCT
* *
26394292 GCACAAGCTTGCTAGGCACAAAGCCTGAATAACATCG
1 GCACAAGCCTGCTAGGCACAAAGCCCGAATAACATCG
* *
26394329 GCACAGAGCCTGCTAGGCACATAGCCCGAATAGCATC
1 GCACA-AGCCTGCTAGGCACAAAGCCCGAATAACATC
26394366 ATGTTTCTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 5 0.16
38 27 0.84
ACGTcount: A:0.32, C:0.30, G:0.23, T:0.15
Consensus pattern (37 bp):
GCACAAGCCTGCTAGGCACAAAGCCCGAATAACATCG
Found at i:26404147 original size:27 final size:27
Alignment explanation
Indices: 26404108--26404195 Score: 88
Period size: 27 Copynumber: 3.3 Consensus size: 27
26404098 TGTCCATATG
* * *
26404108 GACTATTCAATGTTTAATGTCCCGTCGG
1 GACTATCCCATGTTTAATGTCCCGTC-A
*
26404136 GA-TATCCCATGTTTAATGTCCTGTCA
1 GACTATCCCATGTTTAATGTCCCGTCA
* * *
26404162 GACTATCTCATGTTTTATATCCCGTCA
1 GACTATCCCATGTTTAATGTCCCGTCA
*
26404189 AACTATC
1 GACTATC
26404196 AAAGGATGCA
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
26 2 0.04
27 46 0.92
28 2 0.04
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.38
Consensus pattern (27 bp):
GACTATCCCATGTTTAATGTCCCGTCA
Found at i:26407443 original size:38 final size:38
Alignment explanation
Indices: 26407401--26407614 Score: 218
Period size: 38 Copynumber: 5.6 Consensus size: 38
26407391 TCGGGCTCTA
*
26407401 TGCCTAGCAGGCTTTGTGCTGGTGATATTCAGGCTATG
1 TGCCTAGCAGGCTTTGTGCTGGTGATATTCAGGCTTTG
* ** **
26407439 TGCCTAGTAGGCTTTGTG-TCAATGATATTTGGGCTTTG
1 TGCCTAGCAGGCTTTGTGCT-GGTGATATTCAGGCTTTG
* * * *
26407477 TTCCTAGCAGACTTTGTGCCGGTGATATTCAGGTTTTG
1 TGCCTAGCAGGCTTTGTGCTGGTGATATTCAGGCTTTG
* * *
26407515 TACCTAGCAGGCTTTGTGCCGGTGATATTCGGGCTCTT-
1 TGCCTAGCAGGCTTTGTGCTGGTGATATTCAGGCT-TTG
* * *
26407553 TGCCTAGTAGGCTTTATGCTGGTGATATTC-GAGTTTTG
1 TGCCTAGCAGGCTTTGTGCTGGTGATATTCAG-GCTTTG
* *
26407591 TGCCTAGTAGGCTTTATGCTGGTG
1 TGCCTAGCAGGCTTTGTGCTGGTG
26407615 TGTTATATCA
Statistics
Matches: 147, Mismatches: 24, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
37 4 0.03
38 141 0.96
39 2 0.01
ACGTcount: A:0.15, C:0.17, G:0.29, T:0.38
Consensus pattern (38 bp):
TGCCTAGCAGGCTTTGTGCTGGTGATATTCAGGCTTTG
Found at i:26407521 original size:76 final size:76
Alignment explanation
Indices: 26407383--26407605 Score: 279
Period size: 76 Copynumber: 2.9 Consensus size: 76
26407373 ATAGAAACGT
* * * *
26407383 AATGTTATTCGGGCTCTATGCCTAGCAGGCTTTGTGCTGGTGATATTCAGGCTATGTGCCTAGTA
1 AATGATATTCGGGCTCTTTGCCTAGCAGGCTTTGTGCTGGTGATATTCAGGTTTTGTGCCTAGTA
*
26407448 GGCTTTGTGTC
66 GGCTTTGTGCC
* * * * * *
26407459 AATGATATTTGGGCT-TTGTTCCTAGCAGACTTTGTGCCGGTGATATTCAGGTTTTGTACCTAGC
1 AATGATATTCGGGCTCTT-TGCCTAGCAGGCTTTGTGCTGGTGATATTCAGGTTTTGTGCCTAGT
26407523 AGGCTTTGTGCC
65 AGGCTTTGTGCC
** * *
26407535 GGTGATATTCGGGCTCTTTGCCTAGTAGGCTTTATGCTGGTGATATTC-GAGTTTTGTGCCTAGT
1 AATGATATTCGGGCTCTTTGCCTAGCAGGCTTTGTGCTGGTGATATTCAG-GTTTTGTGCCTAGT
26407599 AGGCTTT
65 AGGCTTT
26407606 ATGCTGGTGT
Statistics
Matches: 123, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
75 2 0.02
76 119 0.97
77 2 0.02
ACGTcount: A:0.16, C:0.17, G:0.28, T:0.39
Consensus pattern (76 bp):
AATGATATTCGGGCTCTTTGCCTAGCAGGCTTTGTGCTGGTGATATTCAGGTTTTGTGCCTAGTA
GGCTTTGTGCC
Found at i:26410975 original size:8 final size:9
Alignment explanation
Indices: 26410953--26410989 Score: 67
Period size: 9 Copynumber: 4.2 Consensus size: 9
26410943 AGACATTGAC
26410953 ATTTTTAAA
1 ATTTTTAAA
26410962 ATTTTTAAA
1 ATTTTTAAA
26410971 A-TTTTAAA
1 ATTTTTAAA
26410979 ATTTTTAAA
1 ATTTTTAAA
26410988 AT
1 AT
26410990 CATGAAAATC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 8 0.30
9 19 0.70
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (9 bp):
ATTTTTAAA
Found at i:26410977 original size:17 final size:17
Alignment explanation
Indices: 26410955--26410989 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
26410945 ACATTGACAT
26410955 TTTTAAAATTTTTAAAA
1 TTTTAAAATTTTTAAAA
26410972 TTTTAAAATTTTTAAAA
1 TTTTAAAATTTTTAAAA
26410989 T
1 T
26410990 CATGAAAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TTTTAAAATTTTTAAAA
Found at i:26414289 original size:2 final size:2
Alignment explanation
Indices: 26414282--26414308 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
26414272 ACAAAATGAA
26414282 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
26414309 AATGTGAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:26420379 original size:24 final size:24
Alignment explanation
Indices: 26420324--26420439 Score: 119
Period size: 24 Copynumber: 4.8 Consensus size: 24
26420314 ATCTTCTTCA
*
26420324 TCTTCATCTTCACCTCCATCCAT-G
1 TCTTCATCTTCATCTCCA-CCATCG
* * *
26420348 TAC-CCATCTTCATCCCCACCATCA
1 T-CTTCATCTTCATCTCCACCATCG
* *
26420372 TCTTCATCTTGATCTCCACCGTCG
1 TCTTCATCTTCATCTCCACCATCG
* *
26420396 TCTTCATCTTGATCTCCACTATCG
1 TCTTCATCTTCATCTCCACCATCG
*
26420420 TCTCCATCTTCATCTCCACC
1 TCTTCATCTTCATCTCCACC
26420440 TTCAATTTTG
Statistics
Matches: 75, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
23 5 0.07
24 69 0.92
25 1 0.01
ACGTcount: A:0.17, C:0.42, G:0.05, T:0.35
Consensus pattern (24 bp):
TCTTCATCTTCATCTCCACCATCG
Found at i:26427343 original size:23 final size:21
Alignment explanation
Indices: 26427317--26427357 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
26427307 AATTAAATTA
26427317 TATATATTATGATTTTAGTAT
1 TATATATTATGATTTTAGTAT
26427338 TATATATTATGATTTTAGTA
1 TATATATTATGATTTTAGTA
26427358 AATTCATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56
Consensus pattern (21 bp):
TATATATTATGATTTTAGTAT
Found at i:26427456 original size:61 final size:59
Alignment explanation
Indices: 26427391--26427582 Score: 165
Period size: 61 Copynumber: 3.3 Consensus size: 59
26427381 TTAAAAATTT
26427391 TATTAAATTATATATTTTTATCT-AATTATATTTAATAATAATTTTAAATTATATTTTGTA
1 TATTAAATTATATATTTTTAT-TAAATTATATTTAATAATAATTTTAAATTATATTTT-TA
* * **
26427451 GTATTATA-TAT-TATGATTTTATTAAATTCATA--TAAGAAT-A-TTTAATATTA-AGAATTT-
1 -TATTAAATTATATAT--TTTTATTAAATT-ATATTTAATAATAATTTTAA-ATTATA-TTTTTA
26427508 TATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATA-TTTTA
1 TATTAAATTATATATTTTTATTAAATTATATTTAATAAT-A--ATTTTAAATTATATTTTTA
26427569 TATT--ATTATATATT
1 TATTAAATTATATATT
26427583 ATGATTTTAG
Statistics
Matches: 107, Mismatches: 7, Indels: 36
0.71 0.05 0.24
Matches are distributed among these distances:
55 3 0.03
56 18 0.17
57 9 0.08
58 10 0.09
59 20 0.19
60 13 0.12
61 25 0.23
62 9 0.08
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (59 bp):
TATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTTTAAATTATATTTTTA
Found at i:26427467 original size:117 final size:119
Alignment explanation
Indices: 26427332--26427640 Score: 543
Period size: 117 Copynumber: 2.6 Consensus size: 119
26427322 ATTATGATTT
*
26427332 TAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAAAATTTTATTAA
1 TAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
*
26427397 ATTATATATTTTTATCT-AATTATATTTAATAAT-A-ATTTTAAATTATATTTTG
66 ATTATATATTTTTAT-TAAATTATATTTAATAATAATATTTTAAATTATATTTTA
*
26427449 TAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
1 TAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
26427514 ATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTA
66 ATTATATATTTTTATTAAATTATATTTAATAATAA-TATTTTAAATTATATTTTA
*
26427569 TATTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
1 TAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
26427634 ATTATAT
66 ATTATAT
26427641 TTAATAATAA
Statistics
Matches: 183, Mismatches: 5, Indels: 5
0.95 0.03 0.03
Matches are distributed among these distances:
116 1 0.01
117 94 0.51
118 1 0.01
120 87 0.48
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.52
Consensus pattern (119 bp):
TAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
ATTATATATTTTTATTAAATTATATTTAATAATAATATTTTAAATTATATTTTA
Found at i:26427630 original size:102 final size:102
Alignment explanation
Indices: 26427523--26427742 Score: 404
Period size: 102 Copynumber: 2.2 Consensus size: 102
26427513 AATTATATAT
* * *
26427523 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATATTATTATATATTATGAT
1 TTTTATTAAATTATATTTAATAATAATAACTTTAAATTATATTTTATAGTATTATATATTATGAT
*
26427588 TTTAGTAAATTCATATAAGAATATTTAATATTAAGAA
66 TTTAATAAATTCATATAAGAATATTTAATATTAAGAA
26427625 TTTTATTAAATTATATTTAATAATAATAACTTTAAATTATATTTTATAGTATTATATATTATGAT
1 TTTTATTAAATTATATTTAATAATAATAACTTTAAATTATATTTTATAGTATTATATATTATGAT
26427690 TTTAATAAATTCATATAAGAATATTTAATATTAAGAA
66 TTTAATAAATTCATATAAGAATATTTAATATTAAGAA
26427727 TTTTATTAAATTATAT
1 TTTTATTAAATTATAT
26427743 ATTTTAATTA
Statistics
Matches: 114, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
102 114 1.00
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (102 bp):
TTTTATTAAATTATATTTAATAATAATAACTTTAAATTATATTTTATAGTATTATATATTATGAT
TTTAATAAATTCATATAAGAATATTTAATATTAAGAA
Found at i:26427756 original size:14 final size:15
Alignment explanation
Indices: 26427730--26427769 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
26427720 TTAAGAATTT
*
26427730 TATTAAATT-ATATA
1 TATTTAATTAATATA
26427744 T-TTTAATTAATATA
1 TATTTAATTAATATA
26427758 TATTTAA-TAATA
1 TATTTAATTAATA
26427770 ATTATGTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 6 0.26
14 12 0.52
15 5 0.22
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TATTTAATTAATATA
Found at i:26427980 original size:44 final size:45
Alignment explanation
Indices: 26427917--26428013 Score: 135
Period size: 44 Copynumber: 2.2 Consensus size: 45
26427907 CTATTACACC
*
26427917 TCCATTCCATTCAACCAAACACA-AGAA-TACTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACA-ATAGAATTACTATTACGCCTCTAT
* * *
26427961 TCCATTACATTCAACCAAACAATTGAATTGCTATTACGTCTCTAT
1 TCCATTACATTCAACCAAACAATAGAATTACTATTACGCCTCTAT
26428006 TCCATTAC
1 TCCATTAC
26428014 GCCTCTATTC
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
43 1 0.02
44 23 0.49
45 23 0.49
ACGTcount: A:0.34, C:0.29, G:0.05, T:0.32
Consensus pattern (45 bp):
TCCATTACATTCAACCAAACAATAGAATTACTATTACGCCTCTAT
Found at i:26428014 original size:16 final size:16
Alignment explanation
Indices: 26427993--26428057 Score: 112
Period size: 16 Copynumber: 4.1 Consensus size: 16
26427983 TTGAATTGCT
*
26427993 ATTACGTCTCTATTCC
1 ATTACGCCTCTATTCC
26428009 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
26428025 ATTACACCTCTATTCC
1 ATTACGCCTCTATTCC
26428041 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
26428057 A
1 A
26428058 ATACAACGAA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 46 1.00
ACGTcount: A:0.22, C:0.35, G:0.05, T:0.38
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:26428188 original size:15 final size:15
Alignment explanation
Indices: 26428168--26428197 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
26428158 CTTTTTCGGC
26428168 CGATTTGCTCTCTGT
1 CGATTTGCTCTCTGT
26428183 CGATTTGCTCTCTGT
1 CGATTTGCTCTCTGT
26428198 TTTACCCTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.07, C:0.27, G:0.20, T:0.47
Consensus pattern (15 bp):
CGATTTGCTCTCTGT
Found at i:26431070 original size:59 final size:55
Alignment explanation
Indices: 26430993--26431293 Score: 173
Period size: 59 Copynumber: 5.1 Consensus size: 55
26430983 TTATTAGTTA
*
26430993 TAATTATTTTA-AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAT
1 TAATTATTTAAGAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAT
* * * * **
26431047 TAATTATTTCAAATGATCTTTTA-TAGTATCATATATTATGATTTGAGTAAATTCATATAAGAAT
1 TAATTATTT--AA-GA-ATTTTATTA-AATCATATATT-TTAATT-A--AAA-T-ATAT-TTAAT
26431111 AT
54 AT
* * *
26431113 TAATTA-TTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAA
1 TAATTATTTAAGAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAT
* * * **
26431167 TAATTATGTTAATTTATATTTTA-TAGTATCATATATTATTATTTGAGTAAATTCATATAAGAAT
1 TAATTAT-TTAA--GA-ATTTTATTA-AATCATATATT-TTAATT-A--AAA-T-ATAT-TTAAT
26431231 AT
54 AT
* * *
26431233 TGATTA-TTAAGAATTTTATTAAATTC-TATATTTTAATTATAATATATTTAATAA
1 TAATTATTTAAGAATTTTATTAAA-TCATATATTTTAATTAAAATATATTTAATAT
26431287 TAATTAT
1 TAATTAT
26431294 GTTTAAATAT
Statistics
Matches: 184, Mismatches: 33, Indels: 59
0.67 0.12 0.21
Matches are distributed among these distances:
54 28 0.15
55 8 0.04
56 7 0.04
57 4 0.02
58 6 0.03
59 32 0.17
60 18 0.10
61 29 0.16
62 9 0.05
63 7 0.04
64 6 0.03
65 10 0.05
66 20 0.11
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (55 bp):
TAATTATTTAAGAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAT
Found at i:26431112 original size:66 final size:65
Alignment explanation
Indices: 26431042--26431240 Score: 188
Period size: 66 Copynumber: 3.2 Consensus size: 65
26431032 AAATATATTT
* *
26431042 AATATTAATTATTTCAAATGATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATGATATTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAA
26431107 G
65 G
* * * *
26431108 AATATTAATTA-TT-AA-GA-ATTTTATTA-AATTATATATT-TTAATT-A-T-AA-T-ATAT-T
1 AATATTAATTATTTAAATGATATTTTA-TAGTATCATATATTATTATTTGAGTAAATTCATATAA
*
26431161 T
65 G
* * *
26431162 AATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAA
1 AATATTAATTAT-TTAAATGATATTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAA
26431227 G
65 G
*
26431228 AATATTGATTATT
1 AATATTAATTATT
26431241 AAGAATTTTA
Statistics
Matches: 102, Mismatches: 17, Indels: 29
0.69 0.11 0.20
Matches are distributed among these distances:
54 10 0.10
55 4 0.04
56 3 0.03
57 3 0.03
58 4 0.04
59 16 0.16
60 9 0.09
61 15 0.15
62 5 0.05
63 4 0.04
64 1 0.01
65 7 0.07
66 21 0.21
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.49
Consensus pattern (65 bp):
AATATTAATTATTTAAATGATATTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAAG
Found at i:26431134 original size:120 final size:120
Alignment explanation
Indices: 26431004--26431301 Score: 483
Period size: 120 Copynumber: 2.5 Consensus size: 120
26430994 AATTATTTTA
* * *
26431004 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATGATCTTT
1 AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTT-AAATGATATTT
26431068 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* * *
26431124 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATGATATTTT
* *
26431189 ATAGTATCATATATTATTATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
26431244 AATTTTATTAAATTC-TATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAA-TCATATATTTTAATTATAATATATTTAATAATAATTATG-TTAAAT
26431302 ATGATTAAAT
Statistics
Matches: 165, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
120 157 0.95
121 8 0.05
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATGATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:26431144 original size:61 final size:61
Alignment explanation
Indices: 26431077--26431264 Score: 183
Period size: 61 Copynumber: 3.1 Consensus size: 61
26431067 TTATAGTATC
*
26431077 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATTATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * * * * * *
26431138 ATATATT-TTAATT-A-T-AATAT-ATTTAATAATAATTATGTTAATTTA-TATTTTA-TAGTAT
1 ATATATTATTATTTGAGTAAAT-TCATATAAGAAT-ATTA-ATT-ATTAAGAATTTTATTA-AAT
*
26431196 C
61 T
*
26431197 ATATATTATTATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATTATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
*
26431258 CTATATT
1 ATATATT
26431265 TTAATTATAA
Statistics
Matches: 96, Mismatches: 19, Indels: 24
0.69 0.14 0.17
Matches are distributed among these distances:
57 11 0.11
58 8 0.08
59 18 0.19
60 17 0.18
61 24 0.25
62 7 0.07
63 11 0.11
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.49
Consensus pattern (61 bp):
ATATATTATTATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
Found at i:26431164 original size:15 final size:15
Alignment explanation
Indices: 26431129--26431180 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
26431119 TTAAGAATTT
*
26431129 TATTAAATTAT-ATA
1 TATTTAATTATAATA
26431143 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
26431157 TATTTAATAATAAT-
1 TATTTAATTATAATA
26431171 TATGTTAATT
1 TAT-TTAATT
26431181 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:26431284 original size:15 final size:16
Alignment explanation
Indices: 26431259--26431299 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
26431249 TATTAAATTC
*
26431259 TATATTTTAATTATAA
1 TATATTTTAATAATAA
26431275 TATA-TTTAATAATAA
1 TATATTTTAATAATAA
26431290 T-TATGTTTAA
1 TATAT-TTTAA
26431300 ATATGATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 2 0.09
15 11 0.50
16 9 0.41
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (16 bp):
TATATTTTAATAATAA
Found at i:26431497 original size:16 final size:16
Alignment explanation
Indices: 26431476--26431527 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
26431466 GATTTGCTAT
26431476 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
26431492 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
* *
26431508 TAAAACTCTAATCCAA
1 TACACCTCTAATCCAA
26431524 TACA
1 TACA
26431528 GCGAACCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.42, C:0.33, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:26431948 original size:16 final size:15
Alignment explanation
Indices: 26431916--26431950 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
26431906 TAATATTTAC
*
26431916 TTTTTTCAATTATAA
1 TTTTTTCAATTAAAA
26431931 TTTTTTCAATTACAAA
1 TTTTTTCAATTA-AAA
26431947 TTTT
1 TTTT
26431951 ACAACTCCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.60
Consensus pattern (15 bp):
TTTTTTCAATTAAAA
Found at i:26436350 original size:16 final size:16
Alignment explanation
Indices: 26436329--26436362 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
26436319 CCAATATCTA
* *
26436329 ATTATCATATTTGCAC
1 ATTATCACATTTACAC
26436345 ATTATCACATTTACAC
1 ATTATCACATTTACAC
26436361 AT
1 AT
26436363 ATATATTCCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.21, G:0.03, T:0.41
Consensus pattern (16 bp):
ATTATCACATTTACAC
Found at i:26444066 original size:15 final size:15
Alignment explanation
Indices: 26444046--26444074 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
26444036 ATGCTTCACA
26444046 CACCGTGTTATCAAT
1 CACCGTGTTATCAAT
26444061 CACCGTGTTATCAA
1 CACCGTGTTATCAA
26444075 GCAATAATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (15 bp):
CACCGTGTTATCAAT
Found at i:26453087 original size:14 final size:14
Alignment explanation
Indices: 26453068--26453130 Score: 62
Period size: 14 Copynumber: 4.7 Consensus size: 14
26453058 GGATTCAATC
26453068 AATAAAAAAATCGA
1 AATAAAAAAATCGA
26453082 AATAAAAAAATC--
1 AATAAAAAAATCGA
* **
26453094 AATCAAAAAATAAA
1 AATAAAAAAATCGA
26453108 AATCAAAAAAAT-GA
1 AAT-AAAAAAATCGA
26453122 AA-AAAAAAA
1 AATAAAAAAA
26453131 ACAAAAAAAG
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
12 17 0.40
14 18 0.43
15 7 0.17
ACGTcount: A:0.78, C:0.06, G:0.03, T:0.13
Consensus pattern (14 bp):
AATAAAAAAATCGA
Found at i:26453101 original size:12 final size:12
Alignment explanation
Indices: 26453064--26453104 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 12
26453054 CTTCGGATTC
26453064 AATCAATAAAAA
1 AATCAATAAAAA
26453076 AATCGAAATAAAAA
1 AATC--AATAAAAA
*
26453090 AATCAATCAAAA
1 AATCAATAAAAA
26453102 AAT
1 AAT
26453105 AAAAATCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 14 0.54
14 12 0.46
ACGTcount: A:0.71, C:0.10, G:0.02, T:0.17
Consensus pattern (12 bp):
AATCAATAAAAA
Found at i:26453101 original size:26 final size:27
Alignment explanation
Indices: 26453064--26453130 Score: 82
Period size: 26 Copynumber: 2.5 Consensus size: 27
26453054 CTTCGGATTC
**
26453064 AATCAATAAAAAAATCGAAAT-AAAAA
1 AATCAATAAAAAAATAAAAATCAAAAA
*
26453090 AATCAATCAAAAAATAAAAATCAAAAA
1 AATCAATAAAAAAATAAAAATCAAAAA
* *
26453117 AATGAAAAAAAAAA
1 AATCAATAAAAAAA
26453131 ACAAAAAAAG
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
26 18 0.53
27 16 0.47
ACGTcount: A:0.76, C:0.07, G:0.03, T:0.13
Consensus pattern (27 bp):
AATCAATAAAAAAATAAAAATCAAAAA
Done.