Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 80 of 373
Found at i:25009206 original size:22 final size:24
Alignment explanation
Indices: 25009181--25009226 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
25009171 ATTCTATGCT
25009181 AATTGATAA-AGAT-TAA-TATATA
1 AATT-ATAATAGATATAATTATATA
25009203 AATTATAATAGATATAATTATATA
1 AATTATAATAGATATAATTATATA
25009227 TTAAAGATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 4 0.19
22 8 0.38
23 3 0.14
24 6 0.29
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (24 bp):
AATTATAATAGATATAATTATATA
Found at i:25009348 original size:92 final size:93
Alignment explanation
Indices: 25009181--25009350 Score: 231
Period size: 92 Copynumber: 1.8 Consensus size: 93
25009171 ATTCTATGCT
25009181 AATTGATAAAGATTAATATATAAATTATAATAGATATAATTATATATTAAAGATTATCTTCTTAT
1 AATTGATAAAGATTAATATAT-AATTATAATAGATATAATTATATATTAAAGATTATCTTCTTAT
** *
25009246 TATCATTAAAAACTTATCAAAAATTCTAA
65 TAAAACTAAAAACTTATCAAAAATTCTAA
*
25009275 AATTGATAATA-ATTAATATAT-ATTATAATGGATATAATTATATATTAATA-ATTATCATT-TT
1 AATTGATAA-AGATTAATATATAATTATAATAGATATAATTATATATTAA-AGATTATC-TTCTT
*
25009336 TTTAAAACTAAAAAC
63 ATTAAAACTAAAAAC
25009351 ATTTATTCTA
Statistics
Matches: 68, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
92 45 0.66
93 3 0.04
94 19 0.28
95 1 0.01
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.42
Consensus pattern (93 bp):
AATTGATAAAGATTAATATATAATTATAATAGATATAATTATATATTAAAGATTATCTTCTTATT
AAAACTAAAAACTTATCAAAAATTCTAA
Found at i:25015759 original size:12 final size:12
Alignment explanation
Indices: 25015742--25015766 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25015732 TCAATTCAAA
25015742 CGATTAATTAAT
1 CGATTAATTAAT
25015754 CGATTAATTAAT
1 CGATTAATTAAT
25015766 C
1 C
25015767 TAATAAGCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (12 bp):
CGATTAATTAAT
Found at i:25015795 original size:32 final size:32
Alignment explanation
Indices: 25015754--25015816 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
25015744 ATTAATTAAT
25015754 CGATTAATTAATCTAATAAGCATATAAAAGAA
1 CGATTAATTAATCTAATAAGCATATAAAAGAA
25015786 CGATTAATTAATCTAATAAGCATATAAAAGA
1 CGATTAATTAATCTAATAAGCATATAAAAGA
25015817 CTATGTGAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.52, C:0.10, G:0.10, T:0.29
Consensus pattern (32 bp):
CGATTAATTAATCTAATAAGCATATAAAAGAA
Found at i:25018753 original size:40 final size:40
Alignment explanation
Indices: 25018709--25018880 Score: 213
Period size: 40 Copynumber: 4.3 Consensus size: 40
25018699 GGACTAAGAT
*
25018709 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACTAAA-TCCGGGTTAAGTC
* *
25018749 CCGAAGGCCTTTGTGCGAAATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
* * * *
25018789 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
* * * * *
25018829 CCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
25018868 CCGAAGGCATTTG
1 CCGAAGGCATTTG
25018881 AACGAGGAGC
Statistics
Matches: 116, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
39 34 0.29
40 79 0.68
41 3 0.03
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
Found at i:25024910 original size:13 final size:13
Alignment explanation
Indices: 25024892--25024916 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25024882 AGTGAAGGAG
25024892 TTGCGAAACAAAA
1 TTGCGAAACAAAA
25024905 TTGCGAAACAAA
1 TTGCGAAACAAA
25024917 TGAGTTCCGC
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:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (13 bp):
TTGCGAAACAAAA
Found at i:25026097 original size:80 final size:78
Alignment explanation
Indices: 25025959--25026183 Score: 227
Period size: 80 Copynumber: 2.8 Consensus size: 78
25025949 TTGCATGCTG
* * * * * *
25025959 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAAAT-ACTAAATCCGGGCTAAG-TCCGAAGGCATTT
25026024 GTGCGAGATA-CAAA
64 GTGCGAGATATCAAA
* *
25026038 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAAATACTAAATCCGGGTTAAGTCTCGAAGGCATT
1 -TCCGGGTTAAGTCCCGAAGG-CTTTGTGCGAAATACTAAATCCGGGCTAAGTC-CGAAGGCATT
* * *
25026103 CGTGCGAGTTATTAAA
63 TGTGCGAGATATCAAA
* * * ** * *
25026119 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAAATACTAAATCCGGGCTAAGT-CCGAAGGCATTTG
25026184 AACGAGGAGC
Statistics
Matches: 120, Mismatches: 21, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
79 37 0.31
80 69 0.57
81 14 0.12
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (78 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAAATACTAAATCCGGGCTAAGTCCGAAGGCATTTGT
GCGAGATATCAAA
Found at i:25026163 original size:39 final size:39
Alignment explanation
Indices: 25025959--25026181 Score: 191
Period size: 40 Copynumber: 5.6 Consensus size: 39
25025949 TTGCATGCTG
* * * * *
25025959 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
25025999 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* * *
25026038 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAAATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* * *
25026079 TCCGGGTTAAGTCTCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
25026119 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
25026158 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
25026182 TGAACGAGGA
Statistics
Matches: 153, Mismatches: 22, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
39 40 0.26
40 99 0.65
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:25028400 original size:41 final size:42
Alignment explanation
Indices: 25028355--25028443 Score: 119
Period size: 42 Copynumber: 2.1 Consensus size: 42
25028345 TTACACGAAA
* * *
25028355 TCTCATGTCGAT-TCCATAT-CCAGATATGGTCTTACATGTGG
1 TCTCATATCGATGT-CATATCCCAGATATGGTCTTACATCTAG
*
25028396 TCTCATATTGATGTCATATCCCAGATATGGTCTTACATCTAG
1 TCTCATATCGATGTCATATCCCAGATATGGTCTTACATCTAG
25028438 TCTCAT
1 TCTCAT
25028444 TAACCCTAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
41 15 0.36
42 27 0.64
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (42 bp):
TCTCATATCGATGTCATATCCCAGATATGGTCTTACATCTAG
Found at i:25030489 original size:21 final size:21
Alignment explanation
Indices: 25030465--25030508 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
25030455 ACCATGAAGT
25030465 AAACCTCGAATCTCTATCAGA
1 AAACCTCGAATCTCTATCAGA
25030486 AAACCTCGAATCTCTATCAGA
1 AAACCTCGAATCTCTATCAGA
25030507 AA
1 AA
25030509 TGATAAAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.41, C:0.27, G:0.09, T:0.23
Consensus pattern (21 bp):
AAACCTCGAATCTCTATCAGA
Found at i:25036314 original size:27 final size:27
Alignment explanation
Indices: 25036276--25036333 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
25036266 ACAATCATAC
*
25036276 ATCACATAGGGGCAAAACAGTCTTTTT
1 ATCACATAGGGGCAAAACAGTCATTTT
* *
25036303 ATCACATAGGGGCATAATAGTCATTTT
1 ATCACATAGGGGCAAAACAGTCATTTT
25036330 ATCA
1 ATCA
25036334 ATTAGAGGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (27 bp):
ATCACATAGGGGCAAAACAGTCATTTT
Found at i:25041357 original size:42 final size:42
Alignment explanation
Indices: 25041195--25041359 Score: 125
Period size: 42 Copynumber: 3.9 Consensus size: 42
25041185 TACCATACTA
* * * * * * *
25041195 ATGCCACATCCCAGATATGGTCTCACATGTAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTATTACACGTAGTCTCATATTG
* * * ** * * * *
25041237 ATGCCAATAGCCCAGCTATGGTCTTACACAAAATATCATGTCG
1 ATGCC-ATATCCCAGATATGGTATTACACGTAGTCTCATATTG
* * *
25041280 ATGCCATATCCTAGATATGGTCTTACACGTGGTCTCATATTG
1 ATGCCATATCCCAGATATGGTATTACACGTAGTCTCATATTG
*
25041322 ATGCCATATCCCATATATGGTATTACATC-TAGTCTCAT
1 ATGCCATATCCCAGATATGGTATTACA-CGTAGTCTCAT
25041360 TAACCCTATT
Statistics
Matches: 97, Mismatches: 24, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
42 64 0.66
43 33 0.34
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTATTACACGTAGTCTCATATTG
Found at i:25060610 original size:30 final size:30
Alignment explanation
Indices: 25060565--25060624 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
25060555 ATTTAATACG
*
25060565 AACTTTGGCAAAATTACATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
25060595 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
25060625 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:25063705 original size:40 final size:40
Alignment explanation
Indices: 25063611--25063755 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
25063601 TACTCGAATG
*
25063611 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
25063652 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
25063692 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
25063732 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
25063756 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:25065478 original size:56 final size:54
Alignment explanation
Indices: 25065411--25065567 Score: 172
Period size: 56 Copynumber: 2.8 Consensus size: 54
25065401 CATGACAAAG
* *
25065411 CACGCCTCTCAATAGGGCTACATATGAGCACCCGGACCTAGCGTGTATCACATTAC
1 CACGCCTCTCAACAGGGCTACATA--AGCACCCGGACCTAGCGTGTACCACATTAC
*
25065467 CACGCCTCTCAACAGGGCTACATAAGCTCCCGGACCTAGCGTGTACCACATAATTA-
1 CACGCCTCTCAACAGGGCTACATAAGCACCCGGACCTAGCGTGTACCAC---ATTAC
* * * * * * *
25065523 CATGCCTCTTAACGGGGCTACACAAGCTCCTGGACCTAGCATGTA
1 CACGCCTCTCAACAGGGCTACATAAGCACCCGGACCTAGCGTGTA
25065568 TCGTGTCATC
Statistics
Matches: 89, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
54 23 0.26
56 62 0.70
57 4 0.04
ACGTcount: A:0.27, C:0.32, G:0.20, T:0.21
Consensus pattern (54 bp):
CACGCCTCTCAACAGGGCTACATAAGCACCCGGACCTAGCGTGTACCACATTAC
Found at i:25068139 original size:5 final size:5
Alignment explanation
Indices: 25068131--25068155 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
25068121 AAGATGATAG
25068131 CTTTT CTTTT CTTTT CTTTT CTTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT
25068156 TAACTTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
CTTTT
Found at i:25068316 original size:67 final size:67
Alignment explanation
Indices: 25068208--25068348 Score: 273
Period size: 67 Copynumber: 2.1 Consensus size: 67
25068198 TATTAATTTC
*
25068208 ATTAAAACCATGTTCATAAATATCCAATATCACTTTAGTTGGTCTAATTACCATCGAAGTCCTTT
1 ATTAAAACCATGTTCATAAATATCCAATATCACTTTAGTTGGTCTAATTACCATCGAAGTCCCTT
25068273 AG
66 AG
25068275 ATTAAAACCATGTTCATAAATATCCAATATCACTTTAGTTGGTCTAATTACCATCGAAGTCCCTT
1 ATTAAAACCATGTTCATAAATATCCAATATCACTTTAGTTGGTCTAATTACCATCGAAGTCCCTT
25068340 AG
66 AG
25068342 ATTAAAA
1 ATTAAAA
25068349 TTTCATAGCT
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 73 1.00
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.35
Consensus pattern (67 bp):
ATTAAAACCATGTTCATAAATATCCAATATCACTTTAGTTGGTCTAATTACCATCGAAGTCCCTT
AG
Found at i:25071378 original size:55 final size:54
Alignment explanation
Indices: 25071249--25071445 Score: 227
Period size: 54 Copynumber: 3.6 Consensus size: 54
25071239 TTGGTAAGAT
* * * *
25071249 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTGTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* * *
25071303 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGC
* * *
25071358 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* ** * *
25071411 GAGGATACCACATAAAACCATGTCAAGACATGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCA
25071446 ATGGTAAGTT
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
52 3 0.02
53 31 0.25
54 42 0.34
55 42 0.34
56 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
Found at i:25073698 original size:19 final size:19
Alignment explanation
Indices: 25073674--25073712 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
25073664 TATCTCTATG
25073674 CCAATTCAAACAATTAATT
1 CCAATTCAAACAATTAATT
25073693 CCAATTCAAACAATTAATT
1 CCAATTCAAACAATTAATT
25073712 C
1 C
25073713 AATCTCATAA
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:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (19 bp):
CCAATTCAAACAATTAATT
Found at i:25075384 original size:46 final size:46
Alignment explanation
Indices: 25075327--25075502 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 46
25075317 TATTTGGGCA
*
25075327 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
** * * * *
25075373 TCTAAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
25075420 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * **
25075466 CCCGAGCTCGTTGAGTTGAGTCCGAGTTTGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
25075503 GCGGGTTACA
Statistics
Matches: 102, Mismatches: 21, Indels: 14
0.74 0.15 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 59 0.58
47 26 0.25
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:25075482 original size:93 final size:93
Alignment explanation
Indices: 25075323--25075493 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
25075313 AGGATATTTG
* * * *
25075323 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCTAAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCAAACTCGTTGAG
25075388 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * * *
25075416 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCAAACTCGTTGAG
25075481 TTGAGTCCGAGTT
66 TTGAGTCCGAGTT
25075494 TGCTTATGGG
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCAAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:25081504 original size:43 final size:43
Alignment explanation
Indices: 25081443--25081530 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
25081433 TAGGCACTGC
*
25081443 CAAAGTTTAGTAATATCATCATCTGACAAGGAAGAGGAAGTGA
1 CAAAGTTTAGTAATATCATCATCTGACAAGGAAGAGGAAGCGA
25081486 CAAAGTTTAGTAATATCATCATCTGACAAGGAAGAGGAAGCGA
1 CAAAGTTTAGTAATATCATCATCTGACAAGGAAGAGGAAGCGA
25081529 CA
1 CA
25081531 GCTACATCAC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.22
Consensus pattern (43 bp):
CAAAGTTTAGTAATATCATCATCTGACAAGGAAGAGGAAGCGA
Found at i:25082849 original size:11 final size:11
Alignment explanation
Indices: 25082835--25082860 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
25082825 AATTTGTTAA
25082835 AAAATAAAAAT
1 AAAATAAAAAT
25082846 AAAATAAAAAT
1 AAAATAAAAAT
25082857 AAAA
1 AAAA
25082861 AACACACAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:25086526 original size:46 final size:44
Alignment explanation
Indices: 25086437--25086703 Score: 193
Period size: 46 Copynumber: 5.8 Consensus size: 44
25086427 CTCTCGTCCA
* * * *
25086437 TCTGTGTCGATGCCGTGTCCCAGACAGGTCTTACACT-GACACATG
1 TCTGTGCCGATG-CATGTCCCAGACATGTCTTACACTAG-CACATC
25086482 TAACTGTGCCGATGCATGTCCCAGACATGTCTTACACTAGCACATC
1 T--CTGTGCCGATGCATGTCCCAGACATGTCTTACACTAGCACATC
* * * *
25086528 T-TGTAGCAGACGCATGTCCCAGACATGTCTGACACTGGCTAACATC
1 TCTGT-GCCGATGCATGTCCCAGACATGTCTTACACTAGC--ACATC
* *
25086574 TC-GAGGCTGATGCATGTCCCAGACATGTCTTACACTAGCAC-TC
1 TCTG-TGCCGATGCATGTCCCAGACATGTCTTACACTAGCACATC
* * * * *
25086617 GTCTCAATACCGATGCCACGTCCCAGACATGGTCTTACACTGGCTC-TC
1 -TCT--GTGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCACATC
* * *
25086665 ATTATGTGGCCGATGCATGTCCCAAACATGTCTAACACT
1 --TCTGT-GCCGATGCATGTCCCAGACATGTCTTACACT
25086704 GGTGCACATA
Statistics
Matches: 179, Mismatches: 27, Indels: 31
0.76 0.11 0.13
Matches are distributed among these distances:
43 5 0.03
44 34 0.19
45 1 0.01
46 79 0.44
47 37 0.21
48 21 0.12
49 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (44 bp):
TCTGTGCCGATGCATGTCCCAGACATGTCTTACACTAGCACATC
Found at i:25086703 original size:94 final size:90
Alignment explanation
Indices: 25086489--25086703 Score: 238
Period size: 94 Copynumber: 2.3 Consensus size: 90
25086479 ATGTAACTGT
* *
25086489 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACATCTTGTAGCAGACGCATGTCCCAGACAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACATCTTATAGCAGACGCACGTCCCAGACAT
25086554 GTCTGACACTGGCTAACATCTCGAG
66 GTCTGACACTGGCTAACATCTCGAG
* * *
25086579 GCTGATGCATGTCCCAGACATGTCTTACACTAGCAC-TCGTCTCAATA-CCGATGCCACGTCCCA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACATC-T-T--ATAGCAGACG-CACGTCCCA
* ** * *
25086642 GACATGGTCTTACACTGGCTCTCAT-TATGTG
61 GACAT-GTCTGACACTGGCTAACATCT-CGAG
* *
25086673 GCCGATGCATGTCCCAAACATGTCTAACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
25086704 GGTGCACATA
Statistics
Matches: 105, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
89 2 0.02
90 36 0.34
91 1 0.01
92 4 0.04
93 16 0.15
94 46 0.44
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.25
Consensus pattern (90 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCACATCTTATAGCAGACGCACGTCCCAGACAT
GTCTGACACTGGCTAACATCTCGAG
Found at i:25095852 original size:4 final size:5
Alignment explanation
Indices: 25095820--25095857 Score: 53
Period size: 5 Copynumber: 7.8 Consensus size: 5
25095810 GGGTAGGGAC
25095820 TAAAT TGAAAT TAAAT TAAAT TAAAT T-AAT T-AAT TAAA
1 TAAAT T-AAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAA
25095858 AGGATGATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 8 0.26
5 18 0.58
6 5 0.16
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (5 bp):
TAAAT
Found at i:25102058 original size:42 final size:42
Alignment explanation
Indices: 25101940--25102058 Score: 121
Period size: 42 Copynumber: 2.8 Consensus size: 42
25101930 AGTTATCATG
* * * * *
25101940 TAAGACCATATCCGGGATATGGTGTTGATACGAGATTTCGTG
1 TAAGACCATATCTGGGATATGGCGTTGATATGAGAATTCGTA
* * * * *
25101982 TAAGACTATATCTAGGACATGGCGTCGAAATGAGAATTCGTA
1 TAAGACCATATCTGGGATATGGCGTTGATATGAGAATTCGTA
* * *
25102024 TAAGACCATATTTGGGATATGGCATTGATGTGAGA
1 TAAGACCATATCTGGGATATGGCGTTGATATGAGA
25102059 TCCCATGTAA
Statistics
Matches: 59, Mismatches: 18, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
42 59 1.00
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (42 bp):
TAAGACCATATCTGGGATATGGCGTTGATATGAGAATTCGTA
Found at i:25105222 original size:40 final size:40
Alignment explanation
Indices: 25105021--25105214 Score: 291
Period size: 40 Copynumber: 4.9 Consensus size: 40
25105011 ATTCGGATTG
***
25105021 ATAACCGGGCTAAG-CTTAAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
25105060 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
25105100 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
25105140 ATAACCGGGCTAAGTCCCGAAGGCAATTGAGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
25105180 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
25105215 AAGCTATATC
Statistics
Matches: 142, Mismatches: 12, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
39 13 0.09
40 129 0.91
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:25105241 original size:39 final size:40
Alignment explanation
Indices: 25105039--25105241 Score: 176
Period size: 40 Copynumber: 5.1 Consensus size: 40
25105029 GCTAAGCTTA
* * * * **
25105039 AAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCG
1 AAGGCAATTGAGCGAGTAACTATAACCGGGCTAAACCCCG
* * * * * **
25105079 AAGGCATTTGTGCGAGTTATTATAACCGGGCCAAGTCCCG
1 AAGGCAATTGAGCGAGTAACTATAACCGGGCTAAACCCCG
* * **
25105119 AAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCG
1 AAGGCAATTGAGCGAGTAACTATAACCGGGCTAAACCCCG
* **
25105159 AAGGCAATTGAGCGAGTTACTATAACCGGGCTAAGTCCCG
1 AAGGCAATTGAGCGAGTAACTATAACCGGGCTAAACCCCG
* * *
25105199 AAGGCATTTGAGCGAG-AAGCTAT-ATCTGGCTAAACCCCG
1 AAGGCAATTGAGCGAGTAA-CTATAACCGGGCTAAACCCCG
25105238 AAGG
1 AAGG
25105242 TACTTGGTTT
Statistics
Matches: 149, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 17 0.11
40 132 0.89
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.23
Consensus pattern (40 bp):
AAGGCAATTGAGCGAGTAACTATAACCGGGCTAAACCCCG
Found at i:25110905 original size:79 final size:82
Alignment explanation
Indices: 25110794--25110978 Score: 247
Period size: 79 Copynumber: 2.3 Consensus size: 82
25110784 GCTACTCGTT
* *
25110794 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
25110857 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
**
25110874 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
25110937 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
25110954 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
25110979 CATCATTCAA
Statistics
Matches: 93, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 3 0.03
79 56 0.60
80 34 0.37
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:25110978 original size:40 final size:40
Alignment explanation
Indices: 25110775--25110978 Score: 247
Period size: 40 Copynumber: 5.1 Consensus size: 40
25110765 CGGAATTTAA
** *
25110775 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
25110815 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
25110855 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
25110894 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
25110934 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
25110974 CCGGA
1 CCGGA
25110979 CATCATTCAA
Statistics
Matches: 143, Mismatches: 14, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
38 2 0.01
39 34 0.24
40 95 0.66
41 12 0.08
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:25116255 original size:40 final size:40
Alignment explanation
Indices: 25116014--25116247 Score: 362
Period size: 40 Copynumber: 5.9 Consensus size: 40
25116004 ATTCGGATTG
* *
25116014 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTATT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* * *
25116053 ATATCCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* *
25116093 ATAACCGGGCCAAGTCTCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* *
25116133 ATAATCGGGCTAAGTCCTGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
25116173 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* *
25116213 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAG
25116248 AAGCTATATC
Statistics
Matches: 178, Mismatches: 16, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 13 0.07
40 165 0.93
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
Found at i:25116255 original size:120 final size:119
Alignment explanation
Indices: 25116014--25116274 Score: 355
Period size: 120 Copynumber: 2.2 Consensus size: 119
25116004 ATTCGGATTG
* * * * * *
25116014 ATAACCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTATTATATCCGGGCTAAGTCCTGAAGGCAT
1 ATAATCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCAA
* * *
25116079 TTGTGCGAGTTACTATAACCGGGCCAAGTCTCGAAGGCAATTGTGCGAGTTACT
66 TTGTGCGAGTTACTATAACCGGGCCAAGTCCCGAAGGCAATTGAGCGAGTAACT
*
25116133 ATAATCGGGCTAAGTCCTGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCA
1 ATAATCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCA
* *
25116198 ATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-AAGCT
65 ATTGTGCGAGTTACTATAACCGGGCCAAGTCCCGAAGGCAATTGAGCGAGTAA-CT
* *
25116253 AT-ATCCGGCTAAACCCCGAAGG
1 ATAATCGGGCT-AAGCCCGAAGG
25116275 TACTTGGTTT
Statistics
Matches: 124, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
119 28 0.23
120 96 0.77
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (119 bp):
ATAATCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCAA
TTGTGCGAGTTACTATAACCGGGCCAAGTCCCGAAGGCAATTGAGCGAGTAACT
Found at i:25116274 original size:39 final size:40
Alignment explanation
Indices: 25116014--25116274 Score: 204
Period size: 40 Copynumber: 6.6 Consensus size: 40
25116004 ATTCGGATTG
* * * * *
25116014 ATAACCGGGCT-AAGCCCGAAGGCATTTGTGCGAGTTATT
1 ATAACCGGGCTAAACCCCGAAGGCAATTGAGCGAGTAACT
* ** * * * *
25116053 ATATCCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAACCCCGAAGGCAATTGAGCGAGTAACT
* ** * * *
25116093 ATAACCGGGCCAAGTCTCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAACCCCGAAGGCAATTGAGCGAGTAACT
* ** * * *
25116133 ATAATCGGGCTAAGTCCTGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAACCCCGAAGGCAATTGAGCGAGTAACT
** * *
25116173 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAACCCCGAAGGCAATTGAGCGAGTAACT
** *
25116213 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-AAGCT
1 ATAACCGGGCTAAACCCCGAAGGCAATTGAGCGAGTAA-CT
*
25116253 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAACCCCGAAGG
25116275 TACTTGGTTT
Statistics
Matches: 198, Mismatches: 22, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 25 0.13
40 173 0.87
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAACCCCGAAGGCAATTGAGCGAGTAACT
Found at i:25118214 original size:61 final size:58
Alignment explanation
Indices: 25118111--25118226 Score: 160
Period size: 61 Copynumber: 1.9 Consensus size: 58
25118101 ACCACTTTAA
* * *
25118111 TATTAAATTAATATAATACTTATTAAGATAAATATTAGATTAAATTTAATATTAAATC
1 TATTAAATTAATAGAATACTTATTAAGATAAATATTAAATTAAATTAAATATTAAATC
* *
25118169 TATTAAATTAATAGAATATTTGTCTATCAGATAAATATTAAATTAAATTAAATATTAA
1 TATTAAATTAATAGAATACTTAT-TA--AGATAAATATTAAATTAAATTAAATATTAA
25118227 GATAATTACT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
58 20 0.40
59 2 0.04
61 28 0.56
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.42
Consensus pattern (58 bp):
TATTAAATTAATAGAATACTTATTAAGATAAATATTAAATTAAATTAAATATTAAATC
Found at i:25118252 original size:20 final size:18
Alignment explanation
Indices: 25118200--25118253 Score: 58
Period size: 17 Copynumber: 2.9 Consensus size: 18
25118190 GTCTATCAGA
25118200 TAAATATTAAATTAA-AT
1 TAAATATTAAATTAATAT
25118217 TAAATATTAAGA-TAATTACT
1 TAAATATTAA-ATTAA-TA-T
*
25118237 TTAATATTAAATTAATA
1 TAAATATTAAATTAATA
25118254 AAATACTATC
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
17 13 0.42
18 1 0.03
19 4 0.13
20 13 0.42
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (18 bp):
TAAATATTAAATTAATAT
Found at i:25129953 original size:49 final size:49
Alignment explanation
Indices: 25129881--25130055 Score: 185
Period size: 49 Copynumber: 3.5 Consensus size: 49
25129871 TGAGGTCACG
* *
25129881 TGTGTAATACTAAGTGCAAGCTACTACGTGTACCGAATAATTGGTATCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATTGGTATCA
* * * *
25129930 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGTA-AACT-GTGATCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACC-GAATAATTGGT-ATCA
* * * **
25129979 CGTGTGTAGTAATAAGTGCAGGCTACTACGTGTA-CTAGATTATTGGTCCCA
1 --TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGA-ATAATTGGTATCA
25130030 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
25130056 AGGGTACCAG
Statistics
Matches: 103, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
48 2 0.02
49 62 0.60
50 4 0.04
51 33 0.32
52 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATTGGTATCA
Found at i:25130049 original size:100 final size:100
Alignment explanation
Indices: 25129876--25130055 Score: 281
Period size: 100 Copynumber: 1.8 Consensus size: 100
25129866 TATTGTGAGG
* * *
25129876 TCACGTGTGTAATACTAAGTGCAAGCTACTACGTGTACCGAATAATTGGTATCATGTGTAGTACT
1 TCACGTGTGTAATAATAAGTGCAAGCTACTACGTGTACAGAATAATTGGTACCATGTGTAGTACT
25129941 AAGTGCAGGCTACTATGCGTACCTGTAAACTGTGA
66 AAGTGCAGGCTACTATGCGTACCTGTAAACTGTGA
* * * *
25129976 TCACGTGTGTAGTAATAAGTGCAGGCTACTACGTGTACTAG-ATTATTGGTCCCATGTGTAGTAC
1 TCACGTGTGTAATAATAAGTGCAAGCTACTACGTGTAC-AGAATAATTGGTACCATGTGTAGTAC
25130040 TAAGTGCAGGCTACTA
65 TAAGTGCAGGCTACTA
25130056 AGGGTACCAG
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
100 71 0.99
101 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.31
Consensus pattern (100 bp):
TCACGTGTGTAATAATAAGTGCAAGCTACTACGTGTACAGAATAATTGGTACCATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCTGTAAACTGTGA
Found at i:25132902 original size:15 final size:15
Alignment explanation
Indices: 25132882--25132950 Score: 81
Period size: 15 Copynumber: 4.7 Consensus size: 15
25132872 TATCGTATCT
25132882 TGGATTTCTTTATTC
1 TGGATTTCTTTATTC
25132897 TGGATTTCTTTATTC
1 TGGATTTCTTTATTC
*
25132912 TGGGTTT-TTCTA-TC
1 TGGATTTCTT-TATTC
25132926 TTGGATTTCTTTATTC
1 -TGGATTTCTTTATTC
*
25132942 -GGTTTTCTT
1 TGGATTTCTT
25132951 GTTATCTTTA
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
14 12 0.26
15 31 0.66
16 4 0.09
ACGTcount: A:0.10, C:0.13, G:0.16, T:0.61
Consensus pattern (15 bp):
TGGATTTCTTTATTC
Found at i:25135486 original size:49 final size:49
Alignment explanation
Indices: 25135405--25135586 Score: 202
Period size: 49 Copynumber: 3.7 Consensus size: 49
25135395 ACTATTGTGA
* *
25135405 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
** * * * * *
25135454 GGTCGTATGTGTAGTACTAAGTGCAGGTTACTATGCGTACCCGAAAACTGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-T
* * * * * *
25135505 GATCACCTGTGTAGTACTAAGTGTAGGTTACTACATGTACCAGATTATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
*
25135554 GGTCCCATGTGTAGTACTAAGTGCAGGCTACTA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTA
25135587 TGCATACCAG
Statistics
Matches: 107, Mismatches: 24, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
49 68 0.64
50 2 0.02
51 37 0.35
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:25135586 original size:100 final size:100
Alignment explanation
Indices: 25135407--25135594 Score: 286
Period size: 100 Copynumber: 1.9 Consensus size: 100
25135397 TATTGTGAGG
* * * **
25135407 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGTATGTGTAGTACT
1 TCACCTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTGGTCCCATGTGTAGTACT
* *
25135472 AAGTGCAGGTTACTATGCGTACCCGAAAACTGTGA
66 AAGTGCAGGCTACTATGCATACCCGAAAACTGTGA
* * *
25135507 TCACCTGTGTAGTACTAAGTGTAGGTTACTACATGTACCAGATTATTGGTCCCATGTGTAGTACT
1 TCACCTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTGGTCCCATGTGTAGTACT
25135572 AAGTGCAGGCTACTATGCATACC
66 AAGTGCAGGCTACTATGCATACC
25135595 AGATAGCTTC
Statistics
Matches: 78, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
100 78 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.30
Consensus pattern (100 bp):
TCACCTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTGGTCCCATGTGTAGTACT
AAGTGCAGGCTACTATGCATACCCGAAAACTGTGA
Found at i:25143500 original size:45 final size:45
Alignment explanation
Indices: 25143436--25143526 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
25143426 CCAAAACATG
*
25143436 TGTCACATACATCATGAACTTAAACCACAACTCAATGAGTTCAGA
1 TGTCACATACATCATGAACTGAAACCACAACTCAATGAGTTCAGA
* * *
25143481 TGTCACATATATCATGAACTGAGACCACAACTTAATGAGTTCAGA
1 TGTCACATACATCATGAACTGAAACCACAACTCAATGAGTTCAGA
25143526 T
1 T
25143527 CACATAGTTC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.26
Consensus pattern (45 bp):
TGTCACATACATCATGAACTGAAACCACAACTCAATGAGTTCAGA
Found at i:25148650 original size:31 final size:27
Alignment explanation
Indices: 25148594--25148646 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
25148584 ATTAGGTAAA
25148594 TTTGTATATTGATTGAAATAATTTCTC
1 TTTGTATATTGATTGAAATAATTTCTC
25148621 TTTGTATATTGATTGAAATAATTTCT
1 TTTGTATATTGATTGAAATAATTTCT
25148647 TTCTGTTCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.30, C:0.06, G:0.11, T:0.53
Consensus pattern (27 bp):
TTTGTATATTGATTGAAATAATTTCTC
Found at i:25149075 original size:25 final size:25
Alignment explanation
Indices: 25149009--25149077 Score: 75
Period size: 25 Copynumber: 2.8 Consensus size: 25
25148999 CATCCCGACC
25149009 CACAGCTTGTGTGAGCATTTACCAT
1 CACAGCTTGTGTGAGCATTTACCAT
* * * ** * *
25149034 TACAACTCGCCTTAGCATTTACCGT
1 CACAGCTTGTGTGAGCATTTACCAT
25149059 CACAGCTTGTGTGAGCATT
1 CACAGCTTGTGTGAGCATT
25149078 GTTCCTACAT
Statistics
Matches: 31, Mismatches: 13, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (25 bp):
CACAGCTTGTGTGAGCATTTACCAT
Found at i:25149179 original size:12 final size:13
Alignment explanation
Indices: 25149122--25149190 Score: 72
Period size: 13 Copynumber: 5.4 Consensus size: 13
25149112 TATCGGGTGA
*
25149122 AAATAGATATATG
1 AAATGGATATATG
*
25149135 AAAT-GATTATACG
1 AAATGGA-TATATG
25149148 AAATGGATATATG
1 AAATGGATATATG
25149161 AAATGGATAT-TG
1 AAATGGATATATG
*
25149173 GAATGGATACT-TG
1 AAATGGATA-TATG
25149186 AAATG
1 AAATG
25149191 AAAATGTCAA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
12 12 0.24
13 35 0.71
14 2 0.04
ACGTcount: A:0.45, C:0.03, G:0.22, T:0.30
Consensus pattern (13 bp):
AAATGGATATATG
Found at i:25150142 original size:66 final size:64
Alignment explanation
Indices: 25150064--25150199 Score: 168
Period size: 66 Copynumber: 2.1 Consensus size: 64
25150054 AAGACATGTC
25150064 CGTGTGCTAGGCCGTGTGAAAACT-GGAGAGTATACTGACTTATACAACAC-GACCAAGTCACAC
1 CGTGTGCTAGGCCGTGTGAAAACTAGG-G-GTATACTGACTTATACAACACAG-CC-AGTCACAC
25150127 GCT
62 GCT
* ** * * *
25150130 TGTGTGCTAGGCCGTGTGCCAATTAGGGGTATACTGACTTGTACCACACAGCCAGTCACACGCT
1 CGTGTGCTAGGCCGTGTGAAAACTAGGGGTATACTGACTTATACAACACAGCCAGTCACACGCT
25150194 CGTGTG
1 CGTGTG
25150200 TGTGACCATG
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
64 16 0.26
65 21 0.34
66 22 0.36
67 2 0.03
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.24
Consensus pattern (64 bp):
CGTGTGCTAGGCCGTGTGAAAACTAGGGGTATACTGACTTATACAACACAGCCAGTCACACGCT
Found at i:25150201 original size:66 final size:66
Alignment explanation
Indices: 25150065--25150199 Score: 170
Period size: 65 Copynumber: 2.1 Consensus size: 66
25150055 AGACATGTCC
25150065 GTGTGCTAGGCCGTGTGAAAACTGGAGAGTATACTGACTTATACAACACGACCAAGTCACACGCT
1 GTGTGCTAGGCCGTGTGAAAACTGGAGAGTATACTGACTTATACAACACGACCAAGTCACACGCT
25150130 T
66 T
** * * *
25150131 GTGTGCTAGGCCGTGTGCCAATTAGG-G-GTATACTGACTTGTACCACAC-AGCC-AGTCACACG
1 GTGTGCTAGGCCGTGTGAAAACT-GGAGAGTATACTGACTTATACAACACGA-CCAAGTCACACG
*
25150192 CTC
64 CTT
25150195 GTGTG
1 GTGTG
25150200 TGTGACCATG
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
64 17 0.28
65 21 0.34
66 21 0.34
67 2 0.03
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (66 bp):
GTGTGCTAGGCCGTGTGAAAACTGGAGAGTATACTGACTTATACAACACGACCAAGTCACACGCT
T
Found at i:25154865 original size:29 final size:29
Alignment explanation
Indices: 25154830--25154929 Score: 94
Period size: 29 Copynumber: 3.5 Consensus size: 29
25154820 AATGTGACTA
* * * *
25154830 GGCCTAACGGGCCGTATAAATGTGATTTG
1 GGCCTAATGGGCCATATAAAGGTGAATTG
* *
25154859 GGCCTAATAGGCCATATACAGGTGAATTG
1 GGCCTAATGGGCCATATAAAGGTGAATTG
** **
25154888 GGCCTAATGGGCCATACGAATATG-ATTG
1 GGCCTAATGGGCCATATAAAGGTGAATTG
*
25154916 GGCTTAATGGGCCA
1 GGCCTAATGGGCCA
25154930 GATGCATGTA
Statistics
Matches: 58, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
28 17 0.29
29 41 0.71
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (29 bp):
GGCCTAATGGGCCATATAAAGGTGAATTG
Found at i:25157887 original size:8 final size:8
Alignment explanation
Indices: 25157874--25157919 Score: 56
Period size: 8 Copynumber: 5.8 Consensus size: 8
25157864 TCGACAAAAA
25157874 CCGAAATG
1 CCGAAATG
25157882 CCGAAATG
1 CCGAAATG
* *
25157890 CCAAAAAG
1 CCGAAATG
*
25157898 CCAAAATG
1 CCGAAATG
*
25157906 CCGAAAAG
1 CCGAAATG
25157914 CCGAAA
1 CCGAAA
25157920 GTTTGGCTAC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
8 33 1.00
ACGTcount: A:0.48, C:0.26, G:0.20, T:0.07
Consensus pattern (8 bp):
CCGAAATG
Found at i:25158201 original size:29 final size:29
Alignment explanation
Indices: 25158144--25158217 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
25158134 AGTATGACTA
* *
25158144 GGCCTAATGAGCCATATAAATGTGATTTG
1 GGCCTAATGGGCCATATAAAGGTGATTTG
* *
25158173 GGCCTAATGGGCCATATACAGGTGGTTTG
1 GGCCTAATGGGCCATATAAAGGTGATTTG
* *
25158202 AG-CGAATGGGCCATAT
1 GGCCTAATGGGCCATAT
25158218 GGATATAATT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
28 13 0.33
29 26 0.67
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (29 bp):
GGCCTAATGGGCCATATAAAGGTGATTTG
Found at i:25158418 original size:54 final size:54
Alignment explanation
Indices: 25158336--25158443 Score: 207
Period size: 54 Copynumber: 2.0 Consensus size: 54
25158326 TTATGACCTT
25158336 TGATAAGTCAAAGGGTTAAGGTGTGGCAACGGGTATATGCATGTCTAGAATTGG
1 TGATAAGTCAAAGGGTTAAGGTGTGGCAACGGGTATATGCATGTCTAGAATTGG
*
25158390 TGATAAGTCAAAGGGTTAAGGTGTGGCAACGGGTATATGCATGTCTAGGATTGG
1 TGATAAGTCAAAGGGTTAAGGTGTGGCAACGGGTATATGCATGTCTAGAATTGG
25158444 ATCTAGGGAG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.29, C:0.09, G:0.34, T:0.28
Consensus pattern (54 bp):
TGATAAGTCAAAGGGTTAAGGTGTGGCAACGGGTATATGCATGTCTAGAATTGG
Found at i:25161589 original size:40 final size:40
Alignment explanation
Indices: 25161545--25161620 Score: 98
Period size: 40 Copynumber: 1.9 Consensus size: 40
25161535 TAGGGCCTCA
**
25161545 TATAGCCAAAGCTATTCCAATTCGCACACTTAGTGCTATT
1 TATAGCCAAAGCTATTCCAAAACGCACACTTAGTGCTATT
** **
25161585 TATAGCTGAAGCTATTTTAAAACGCACACTTAGTGC
1 TATAGCCAAAGCTATTCCAAAACGCACACTTAGTGC
25161621 CAAACATAGT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (40 bp):
TATAGCCAAAGCTATTCCAAAACGCACACTTAGTGCTATT
Found at i:25167512 original size:43 final size:43
Alignment explanation
Indices: 25167424--25167587 Score: 183
Period size: 43 Copynumber: 3.9 Consensus size: 43
25167414 AATGTGATAT
* * * *
25167424 TCGGGCTTC-GGCCTAGCAAGCTTTAA-GCTGGTGAATAATATTA
1 TCGGGCTTCAGGCCTAGCAGGCTATAATGCCGGTG-A-AATAATA
* *
25167467 TCGGGCTTCAGGCCTAGTAGGCTATAATGCCGGTGAGATAATA
1 TCGGGCTTCAGGCCTAGCAGGCTATAATGCCGGTGAAATAATA
* *
25167510 TCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAATGAT-
1 TCGGGCTTCAGGCCTAGCAGGCTATAATGCCGGTGAAATAATA
* * *
25167552 GCGGGCTTCAAGCCTAGCAGGCGA-AATGCCGGTGAA
1 TCGGGCTTCAGGCCTAGCAGGCTATAATGCCGGTGAA
25167588 TGAGTTTAGA
Statistics
Matches: 105, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
41 12 0.11
42 20 0.19
43 52 0.50
44 15 0.14
45 6 0.06
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (43 bp):
TCGGGCTTCAGGCCTAGCAGGCTATAATGCCGGTGAAATAATA
Found at i:25168071 original size:17 final size:19
Alignment explanation
Indices: 25168029--25168072 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
25168019 ATGAAATTTT
*
25168029 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
25168048 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
25168066 AA-TATTA
1 AATTATTA
25168073 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:25173362 original size:15 final size:15
Alignment explanation
Indices: 25173342--25173374 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
25173332 GTCAAAAAAA
25173342 TTTATTCCGATTAAG
1 TTTATTCCGATTAAG
*
25173357 TTTATTCTGATTAAG
1 TTTATTCCGATTAAG
25173372 TTT
1 TTT
25173375 TAAGGTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.09, G:0.12, T:0.55
Consensus pattern (15 bp):
TTTATTCCGATTAAG
Found at i:25174888 original size:47 final size:47
Alignment explanation
Indices: 25174829--25174950 Score: 217
Period size: 47 Copynumber: 2.6 Consensus size: 47
25174819 GCATTGGAAC
*
25174829 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATATCATGTAAGACCATGTTTGGAACATGGCATTTGG
25174876 TAAGACAAGGATATCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATATCATGTAAGACCATGTTTGGAACATGGCATTTGG
* *
25174923 TAAGATAAGGATATCATGGAAGACCATG
1 TAAGACAAGGATATCATGTAAGACCATG
25174951 CCAAGGCATG
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.36, C:0.13, G:0.25, T:0.25
Consensus pattern (47 bp):
TAAGACAAGGATATCATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:25175056 original size:55 final size:53
Alignment explanation
Indices: 25174929--25175125 Score: 207
Period size: 55 Copynumber: 3.7 Consensus size: 53
25174919 TTGGTAAGAT
* * * * * * *
25174929 AAGGATATCATGGAAGACCATGCCAAGGCATGGCATTGATAAGTTCTGTAAGGA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTC-ATAAGGC
* * * *
25174983 AAGAAAATCATGTAAGACCAGGTCAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTT-C-ATAAGGC
* * * *
25175038 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCATAAGGC
*
25175091 AAGGATACCACGTAAGACCATGTCAAGACATGGCA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCA
25175126 ATGGTAAGTT
Statistics
Matches: 119, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
52 4 0.03
53 33 0.28
54 39 0.33
55 40 0.34
56 3 0.03
ACGTcount: A:0.36, C:0.18, G:0.26, T:0.20
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCATAAGGC
Found at i:25175137 original size:53 final size:54
Alignment explanation
Indices: 25174929--25175136 Score: 213
Period size: 53 Copynumber: 3.9 Consensus size: 54
25174919 TTGGTAAGAT
* * * * *
25174929 AAGGATATCATGGAAGACCATGCCAAGGCATGGCATTGATAAGTTCTGTAAGGA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
* * * * * *
25174983 AAGAAAATCATGTAAGACCAGGTCAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-CTATAAGGC
* * * *
25175038 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
* * * *
25175091 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTC
25175137 AAAAAGGAAA
Statistics
Matches: 128, Mismatches: 23, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
52 4 0.03
53 42 0.33
54 39 0.30
55 40 0.31
56 3 0.02
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
Found at i:25179983 original size:15 final size:15
Alignment explanation
Indices: 25179963--25179995 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
25179953 GTCAAAAAAA
*
25179963 TTTATTCTGATTAAG
1 TTTATTATGATTAAG
25179978 TTTATTATGATTAAG
1 TTTATTATGATTAAG
25179993 TTT
1 TTT
25179996 TAAGGTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.27, C:0.03, G:0.12, T:0.58
Consensus pattern (15 bp):
TTTATTATGATTAAG
Found at i:25188421 original size:15 final size:16
Alignment explanation
Indices: 25188395--25188430 Score: 65
Period size: 15 Copynumber: 2.3 Consensus size: 16
25188385 CTTGGTGAAT
25188395 TTTTGCGTATTTGTGA
1 TTTTGCGTATTTGTGA
25188411 TTTTG-GTATTTGTGA
1 TTTTGCGTATTTGTGA
25188426 TTTTG
1 TTTTG
25188431 TGGAAGATGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 15 0.75
16 5 0.25
ACGTcount: A:0.11, C:0.03, G:0.25, T:0.61
Consensus pattern (16 bp):
TTTTGCGTATTTGTGA
Found at i:25195784 original size:41 final size:44
Alignment explanation
Indices: 25195739--25195874 Score: 140
Period size: 45 Copynumber: 3.2 Consensus size: 44
25195729 AGGTTTTAAA
* *
25195739 CCCGAATTCA-TTCATCGGCATT-TCA-CTTCCTAGGCTCGAA-G
1 CCCGAATTCATTTCACCGGCATTAT-AGCCTCCTAGGCTCGAAGG
*
25195780 CCCGAA-TCATTTCACCGGCATTATAGCCTGCTAGGCTCGAAGG
1 CCCGAATTCATTTCACCGGCATTATAGCCTCCTAGGCTCGAAGG
* * * *
25195823 CCCGAATAGT-ATATCACCAGCATTATAGCCTGCTAGGCTCAAAGG
1 CCCGAAT--TCATTTCACCGGCATTATAGCCTCCTAGGCTCGAAGG
25195868 CCCGAAT
1 CCCGAAT
25195875 AGTATATCTT
Statistics
Matches: 82, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
40 3 0.04
41 18 0.22
42 14 0.17
43 7 0.09
45 39 0.48
46 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (44 bp):
CCCGAATTCATTTCACCGGCATTATAGCCTCCTAGGCTCGAAGG
Found at i:25195848 original size:45 final size:45
Alignment explanation
Indices: 25195768--25195882 Score: 175
Period size: 45 Copynumber: 2.6 Consensus size: 45
25195758 ATTTCACTTC
*
25195768 CTAGGCTCGAA-GCCCGAATCA-T-T-TCACCGGCATTATAGCCTG
1 CTAGGCTCGAAGGCCCGAAT-AGTATATCACCAGCATTATAGCCTG
25195810 CTAGGCTCGAAGGCCCGAATAGTATATCACCAGCATTATAGCCTG
1 CTAGGCTCGAAGGCCCGAATAGTATATCACCAGCATTATAGCCTG
*
25195855 CTAGGCTCAAAGGCCCGAATAGTATATC
1 CTAGGCTCGAAGGCCCGAATAGTATATC
25195883 TTTGACAGCC
Statistics
Matches: 67, Mismatches: 2, Indels: 5
0.91 0.03 0.07
Matches are distributed among these distances:
42 12 0.18
43 9 0.13
44 1 0.01
45 45 0.67
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.23
Consensus pattern (45 bp):
CTAGGCTCGAAGGCCCGAATAGTATATCACCAGCATTATAGCCTG
Found at i:25197700 original size:40 final size:40
Alignment explanation
Indices: 25197606--25197810 Score: 333
Period size: 40 Copynumber: 5.2 Consensus size: 40
25197596 GGACTAAGAT
* *
25197606 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGT-
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
25197645 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
*
25197685 CCGAAAGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
* *
25197725 CCGAAGGCATTTGTGCAAGTTACAATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
* *
25197765 CCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
25197804 CCGAAGG
1 CCGAAGG
25197811 TACTTGGGTT
Statistics
Matches: 155, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
39 52 0.34
40 103 0.66
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
Found at i:25209912 original size:14 final size:14
Alignment explanation
Indices: 25209893--25209921 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
25209883 TAATGTATTT
25209893 AATTTATATTACAA
1 AATTTATATTACAA
25209907 AATTTATATTACAA
1 AATTTATATTACAA
25209921 A
1 A
25209922 GTTTGCTCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (14 bp):
AATTTATATTACAA
Found at i:25209913 original size:64 final size:64
Alignment explanation
Indices: 25209821--25209972 Score: 268
Period size: 64 Copynumber: 2.4 Consensus size: 64
25209811 TGTTTTAATT
*
25209821 ATGTATTTAATTTATATTACAAATTTTATATAACAAAGTTTGCTCCAATTAAATTAATGTTATA
1 ATGTATTTAATTTATATTACAAAATTTATATAACAAAGTTTGCTCCAATTAAATTAATGTTATA
* *
25209885 ATGTATTTAATTTATATTACAAAATTTATATTACAAAGTTTGCTCCAATTAGATTAATGTTATA
1 ATGTATTTAATTTATATTACAAAATTTATATAACAAAGTTTGCTCCAATTAAATTAATGTTATA
*
25209949 ATTTATTTAATTTATATTACAAAA
1 ATGTATTTAATTTATATTACAAAA
25209973 CTAAGTTTGT
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 84 1.00
ACGTcount: A:0.41, C:0.07, G:0.06, T:0.46
Consensus pattern (64 bp):
ATGTATTTAATTTATATTACAAAATTTATATAACAAAGTTTGCTCCAATTAAATTAATGTTATA
Found at i:25210376 original size:33 final size:33
Alignment explanation
Indices: 25210330--25210426 Score: 95
Period size: 33 Copynumber: 2.9 Consensus size: 33
25210320 CTTGAGTCGG
* * * *
25210330 AAGGACTGTCATACTGCGGTGGATACAAGCCGA
1 AAGGAGTGCCATACTACGGTGGATACAGGCCGA
* * * * *
25210363 AAGGAGTGCCATACTACAGTGAATTCGGGCTGA
1 AAGGAGTGCCATACTACGGTGGATACAGGCCGA
* *
25210396 GAGGAGTGCCATACTATGGTGGATACAGGCC
1 AAGGAGTGCCATACTACGGTGGATACAGGCC
25210427 AAGAGGAATG
Statistics
Matches: 48, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
33 48 1.00
ACGTcount: A:0.29, C:0.20, G:0.32, T:0.20
Consensus pattern (33 bp):
AAGGAGTGCCATACTACGGTGGATACAGGCCGA
Found at i:25211306 original size:14 final size:14
Alignment explanation
Indices: 25211287--25211320 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
25211277 AAATTACATG
25211287 TTAGAATAGTATCA
1 TTAGAATAGTATCA
25211301 TTAGAATAGTATCA
1 TTAGAATAGTATCA
25211315 TTAGAA
1 TTAGAA
25211321 AAAAAATGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.44, C:0.06, G:0.15, T:0.35
Consensus pattern (14 bp):
TTAGAATAGTATCA
Found at i:25216036 original size:30 final size:30
Alignment explanation
Indices: 25216002--25216062 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
25215992 TCCTCAACTC
25216002 AAACTTTGGAAAATTTACAATTTTGCCCCT
1 AAACTTTGGAAAATTTACAATTTTGCCCCT
* * * *
25216032 AAACTTTTGTATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAATTTACAATTTTGCCCCT
25216062 A
1 A
25216063 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.21, G:0.08, T:0.41
Consensus pattern (30 bp):
AAACTTTGGAAAATTTACAATTTTGCCCCT
Found at i:25216945 original size:5 final size:5
Alignment explanation
Indices: 25216935--25216961 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
25216925 TCCTCCACCA
25216935 TTATT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TT
25216962 TAACTGTGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:25232245 original size:21 final size:22
Alignment explanation
Indices: 25232219--25232277 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
25232209 GTTTTAAGAA
*
25232219 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
25232240 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
25232262 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
25232278 GATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:25232290 original size:14 final size:14
Alignment explanation
Indices: 25232271--25232298 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
25232261 TGTTTTTAAA
25232271 TATATTTGATTTAT
1 TATATTTGATTTAT
25232285 TATATTTGATTTAT
1 TATATTTGATTTAT
25232299 GTTTTTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (14 bp):
TATATTTGATTTAT
Found at i:25233277 original size:13 final size:13
Alignment explanation
Indices: 25233259--25233285 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
25233249 TAATCTACTT
25233259 AGTATCGAAATTG
1 AGTATCGAAATTG
25233272 AGTATCGAAATTG
1 AGTATCGAAATTG
25233285 A
1 A
25233286 AATCACTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.30
Consensus pattern (13 bp):
AGTATCGAAATTG
Found at i:25240801 original size:26 final size:26
Alignment explanation
Indices: 25240761--25240821 Score: 108
Period size: 26 Copynumber: 2.4 Consensus size: 26
25240751 GTGAGCATTG
25240761 ATGT-AAAG-AAAAGTTTATGGTTAT
1 ATGTAAAAGCAAAAGTTTATGGTTAT
25240785 ATGTAAAAGCAAAAGTTTATGGTTAT
1 ATGTAAAAGCAAAAGTTTATGGTTAT
25240811 ATGTAAAAGCA
1 ATGTAAAAGCA
25240822 CATTATGTGT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
24 4 0.11
25 4 0.11
26 27 0.77
ACGTcount: A:0.44, C:0.03, G:0.20, T:0.33
Consensus pattern (26 bp):
ATGTAAAAGCAAAAGTTTATGGTTAT
Found at i:25242400 original size:22 final size:21
Alignment explanation
Indices: 25242341--25242400 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 21
25242331 CACTAGGAAT
* *
25242341 TATGTGATCTGAGCTCATGAG
1 TATGTGATCTGAGCTCATAAA
* *
25242362 T-TGTGGTCTGAGTTCATAATA
1 TATGTGATCTGAGCTCATAA-A
*
25242383 TATGTGATCTGAACTCAT
1 TATGTGATCTGAGCTCAT
25242401 TAAGTTGTGG
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
20 15 0.50
21 2 0.07
22 13 0.43
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.38
Consensus pattern (21 bp):
TATGTGATCTGAGCTCATAAA
Found at i:25242400 original size:42 final size:43
Alignment explanation
Indices: 25242341--25242432 Score: 141
Period size: 43 Copynumber: 2.2 Consensus size: 43
25242331 CACTAGGAAT
* * *
25242341 TATGTGATCTGAGCTCA-TGAGTTGTGGTCTGAGTTCATAATA
1 TATGTGATCTGAACTCATTAAGTTGTGGTCTAAGTTCATAATA
*
25242383 TATGTGATCTGAACTCATTAAGTTGTGGTCTAAGTTCATGATA
1 TATGTGATCTGAACTCATTAAGTTGTGGTCTAAGTTCATAATA
25242426 TATGTGA
1 TATGTGA
25242433 CACATGTTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
42 16 0.36
43 29 0.64
ACGTcount: A:0.26, C:0.11, G:0.24, T:0.39
Consensus pattern (43 bp):
TATGTGATCTGAACTCATTAAGTTGTGGTCTAAGTTCATAATA
Found at i:25242431 original size:22 final size:22
Alignment explanation
Indices: 25242363--25242431 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
25242353 GCTCATGAGT
*
25242363 TGTGGTCTGAGTTCATAATATA
1 TGTGGTCTAAGTTCATAATATA
* * *
25242385 TGTGATCTGAA-CTCATTAA-GT-
1 TGTGGTCT-AAGTTCA-TAATATA
*
25242406 TGTGGTCTAAGTTCATGATATA
1 TGTGGTCTAAGTTCATAATATA
25242428 TGTG
1 TGTG
25242432 ACACATGTTT
Statistics
Matches: 34, Mismatches: 8, Indels: 10
0.65 0.15 0.19
Matches are distributed among these distances:
20 4 0.12
21 11 0.32
22 15 0.44
23 4 0.12
ACGTcount: A:0.26, C:0.10, G:0.23, T:0.41
Consensus pattern (22 bp):
TGTGGTCTAAGTTCATAATATA
Found at i:25243670 original size:42 final size:42
Alignment explanation
Indices: 25243611--25243745 Score: 252
Period size: 42 Copynumber: 3.2 Consensus size: 42
25243601 AGAAATTGTC
*
25243611 CACACGGTTGGACACATGGGCATGTATCTAGGCTGTGTGTGA
1 CACACGGTTGGACACATGGGCATGTGTCTAGGCTGTGTGTGA
*
25243653 CACACGGTTTGACACATGGGCATGTGTCTAGGCTGTGTGTGA
1 CACACGGTTGGACACATGGGCATGTGTCTAGGCTGTGTGTGA
25243695 CACACGGTTGGACACATGGGCATGTGTCTAGGCTGTGTGTGA
1 CACACGGTTGGACACATGGGCATGTGTCTAGGCTGTGTGTGA
25243737 CACACGGTT
1 CACACGGTT
25243746 TGCCCTATGG
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 90 1.00
ACGTcount: A:0.20, C:0.20, G:0.33, T:0.27
Consensus pattern (42 bp):
CACACGGTTGGACACATGGGCATGTGTCTAGGCTGTGTGTGA
Found at i:25260309 original size:40 final size:40
Alignment explanation
Indices: 25260253--25260580 Score: 459
Period size: 40 Copynumber: 8.2 Consensus size: 40
25260243 CGGATGGTAA
* *
25260253 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* * *
25260293 TCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* * * *
25260333 TCGGTCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
25260373 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
25260413 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATCT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
25260453 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATCT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
25260493 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
25260533 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
25260573 CC-GGCTAA
1 CCGGGCTAA
25260581 ATTTCGAAGG
Statistics
Matches: 274, Mismatches: 12, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
39 8 0.03
40 265 0.97
41 1 0.00
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:25260322 original size:22 final size:22
Alignment explanation
Indices: 25260257--25260322 Score: 52
Period size: 22 Copynumber: 3.2 Consensus size: 22
25260247 TGGTAACCGG
25260257 GCTAAGTCCCGAAGGCATTTGT
1 GCTAAGTCCCGAAGGCATTTGT
*** *
25260279 GCT-AGT---G-ACTAATTTCGG
1 GCTAAGTCCCGAAGGCATTT-GT
25260297 GCTAAGTCCCGAAGGCATTTGT
1 GCTAAGTCCCGAAGGCATTTGT
25260319 GCTA
1 GCTA
25260323 GTGACTAATT
Statistics
Matches: 30, Mismatches: 8, Indels: 12
0.60 0.16 0.24
Matches are distributed among these distances:
17 5 0.17
18 5 0.17
19 3 0.10
21 3 0.10
22 9 0.30
23 5 0.17
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (22 bp):
GCTAAGTCCCGAAGGCATTTGT
Found at i:25262749 original size:45 final size:45
Alignment explanation
Indices: 25262637--25262738 Score: 132
Period size: 45 Copynumber: 2.3 Consensus size: 45
25262627 TAATCAGTAA
* * * *
25262637 CGGTAGCAGTAACAATAGCAGTATTCAACACACAAAGTGTTAAAT
1 CGGTAACAGTAACTATAACAGTATTCAACACACAAAGTGTCAAAT
** * *
25262682 TTGTAACAGTAACTATAACAGTATTCGACACACAAAGTGTCGAAT
1 CGGTAACAGTAACTATAACAGTATTCAACACACAAAGTGTCAAAT
25262727 CGGTAACAGTAA
1 CGGTAACAGTAA
25262739 TGGTAACAGT
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.24
Consensus pattern (45 bp):
CGGTAACAGTAACTATAACAGTATTCAACACACAAAGTGTCAAAT
Found at i:25264167 original size:25 final size:23
Alignment explanation
Indices: 25264123--25264183 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 23
25264113 ATTTTGATTT
*
25264123 ATTTAATAATATAATATCATTATA
1 ATTTAATTATATAATATCA-TATA
25264147 ATTTAATTATCATAA-ATTCATATA
1 ATTTAATTAT-ATAATA-TCATATA
*
25264171 ATATAAATTATAT
1 AT-TTAATTATAT
25264184 TTAAATATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 18 0.56
25 14 0.44
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (23 bp):
ATTTAATTATATAATATCATATA
Found at i:25264186 original size:35 final size:35
Alignment explanation
Indices: 25264131--25264210 Score: 103
Period size: 35 Copynumber: 2.3 Consensus size: 35
25264121 TTATTTAATA
* *
25264131 ATATAATAT-CATTATAATTTAATTATCATAAATT
1 ATATAATATAAATTATAATTTAAATATCATAAATT
*
25264165 CATATAATATAAATTAT-ATTTAAATATCATTAATT
1 -ATATAATATAAATTATAATTTAAATATCATAAATT
25264200 ATATAAT-TAAA
1 ATATAATATAAA
25264211 ACAAATAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
33 4 0.10
34 7 0.17
35 25 0.61
36 5 0.12
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (35 bp):
ATATAATATAAATTATAATTTAAATATCATAAATT
Found at i:25266083 original size:49 final size:47
Alignment explanation
Indices: 25265969--25266137 Score: 164
Period size: 49 Copynumber: 3.6 Consensus size: 47
25265959 AATGACAACA
* * * *
25265969 CCATGTTCCAAACATGGTCTTACACTGGCTCTCACATCTAAGTCGATG
1 CCATGTCCCAGACA-GGTCTTACACTAGCTCTCACATCTAAGTCAATG
* * *
25266017 CCATGTCCCAGATAGGTCTTACACTAGCTCTCATTTATCTATGTCAATG
1 CCATGTCCCAGACAGGTCTTACACTAGCTCTCA--CATCTAAGTCAATG
* * * * * *
25266066 TCATGTCCTAGACAGGTCTTACACTA-AT-ACACCTC-AAGTCGATG
1 CCATGTCCCAGACAGGTCTTACACTAGCTCTCACATCTAAGTCAATG
*
25266110 CCATGTTCCAGACAGGTCTTACACTAGC
1 CCATGTCCCAGACAGGTCTTACACTAGC
25266138 ACACACGTCA
Statistics
Matches: 98, Mismatches: 20, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
44 30 0.31
45 2 0.02
47 20 0.20
48 12 0.12
49 34 0.35
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (47 bp):
CCATGTCCCAGACAGGTCTTACACTAGCTCTCACATCTAAGTCAATG
Found at i:25266319 original size:16 final size:16
Alignment explanation
Indices: 25266298--25266329 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
25266288 AAGTTATATT
25266298 ATTTACGTACAACTTA
1 ATTTACGTACAACTTA
*
25266314 ATTTACGTATAACTTA
1 ATTTACGTACAACTTA
25266330 CCTCGGTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.16, G:0.06, T:0.41
Consensus pattern (16 bp):
ATTTACGTACAACTTA
Found at i:25268298 original size:18 final size:19
Alignment explanation
Indices: 25268276--25268328 Score: 74
Period size: 18 Copynumber: 2.9 Consensus size: 19
25268266 CTTCCTCGAC
25268276 CACATCTTCTTCCTCATGT
1 CACATCTTCTTCCTCATGT
*
25268295 -ACATCTTCTTCCTC-GGT
1 CACATCTTCTTCCTCATGT
*
25268312 CGCATCTTCTTCCTCAT
1 CACATCTTCTTCCTCAT
25268329 CTGTACCTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 2 0.07
18 27 0.93
ACGTcount: A:0.13, C:0.38, G:0.08, T:0.42
Consensus pattern (19 bp):
CACATCTTCTTCCTCATGT
Found at i:25268300 original size:36 final size:36
Alignment explanation
Indices: 25268260--25268328 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 36
25268250 TCCTTAACTG
25268260 CATCTCCTTCCTCGACCACATCTTCTTCCTCATGTA
1 CATCTCCTTCCTCGACCACATCTTCTTCCTCATGTA
* ** *
25268296 CATCTTCTTCCTCGGTCGCATCTTCTTCCTCAT
1 CATCTCCTTCCTCGACCACATCTTCTTCCTCAT
25268329 CTGTACCTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.13, C:0.41, G:0.07, T:0.39
Consensus pattern (36 bp):
CATCTCCTTCCTCGACCACATCTTCTTCCTCATGTA
Found at i:25270540 original size:58 final size:58
Alignment explanation
Indices: 25270476--25270594 Score: 161
Period size: 57 Copynumber: 2.1 Consensus size: 58
25270466 AGATATGGTG
* *
25270476 AAATGGAGAAGTAGGAAA-CATTTGGAAATGATTATGGTTTTCTCCAAAATG-AAAATGA
1 AAATGGAGAAATA--AAACCATTTGGAAATGAATATGGTTTTCTCCAAAATGAAAAATGA
* * *
25270534 AAATGGAGAAATAAAACCCTTTGGAAATGAATGTGGTTTTCTCCAAAGTGAAAAATGA
1 AAATGGAGAAATAAAACCATTTGGAAATGAATATGGTTTTCTCCAAAATGAAAAATGA
25270592 AAA
1 AAA
25270595 AGACTCAAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
56 3 0.06
57 29 0.54
58 22 0.41
ACGTcount: A:0.45, C:0.08, G:0.21, T:0.26
Consensus pattern (58 bp):
AAATGGAGAAATAAAACCATTTGGAAATGAATATGGTTTTCTCCAAAATGAAAAATGA
Found at i:25270706 original size:45 final size:45
Alignment explanation
Indices: 25270657--25270747 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
25270647 AAATAAATCA
25270657 TTTGATCATAATGAACCGTTGAATGCAAAAATATTAAATATATTT
1 TTTGATCATAATGAACCGTTGAATGCAAAAATATTAAATATATTT
*
25270702 TTTGATCATAATGAACCGTTGAATGCAGAAATATTAAATATATTT
1 TTTGATCATAATGAACCGTTGAATGCAAAAATATTAAATATATTT
25270747 T
1 T
25270748 CTCATAGATT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (45 bp):
TTTGATCATAATGAACCGTTGAATGCAAAAATATTAAATATATTT
Found at i:25284710 original size:21 final size:21
Alignment explanation
Indices: 25284684--25284736 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
25284674 AAAATCACTT
*
25284684 AACAAAACTT-GTATATATATC
1 AACAAAACTTCATA-ATATATC
25284705 AAC-AAACATTCATAATATATC
1 AACAAAAC-TTCATAATATATC
25284726 AA-AAAACTTCA
1 AACAAAACTTCA
25284737 AAAATTATGC
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
20 8 0.29
21 18 0.64
22 2 0.07
ACGTcount: A:0.53, C:0.17, G:0.02, T:0.28
Consensus pattern (21 bp):
AACAAAACTTCATAATATATC
Found at i:25291149 original size:15 final size:15
Alignment explanation
Indices: 25291129--25291160 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
25291119 AGAGCAGGGG
25291129 AAAGAAAGAAGGAAA
1 AAAGAAAGAAGGAAA
25291144 AAAGAAAGAAGGAAA
1 AAAGAAAGAAGGAAA
25291159 AA
1 AA
25291161 GGGAAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (15 bp):
AAAGAAAGAAGGAAA
Found at i:25291285 original size:28 final size:28
Alignment explanation
Indices: 25291245--25291300 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
25291235 TTTCTAAATA
25291245 TTGTTCATGTTGAATAAAAAGATGAATT
1 TTGTTCATGTTGAATAAAAAGATGAATT
25291273 TTGTTCATGTTGAATAAAAAGATGAATT
1 TTGTTCATGTTGAATAAAAAGATGAATT
25291301 AGGGGTTAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.04, G:0.18, T:0.39
Consensus pattern (28 bp):
TTGTTCATGTTGAATAAAAAGATGAATT
Found at i:25292315 original size:47 final size:46
Alignment explanation
Indices: 25292211--25292373 Score: 238
Period size: 47 Copynumber: 3.5 Consensus size: 46
25292201 GATATTGTTA
*
25292211 CTGT-TACCGTTACTGTTACTGTTTCGGATTTGTTCGATGAGGTACT
1 CTGTGTACCG-TACTGTTACTGTTTCGGATTTGTCCGATGAGGTACT
* * *
25292257 CTGTGTGCCGTACTGTTCCTGTTCCGGATTTGTCCTGATGAGGTACT
1 CTGTGTACCGTACTGTTACTGTTTCGGATTTGTCC-GATGAGGTACT
*
25292304 CTGTGTACCGTACTGTTACTGTTTTGGATTTGTTCCGATGAGGTACT
1 CTGTGTACCGTACTGTTACTGTTTCGGATTTG-TCCGATGAGGTACT
*
25292351 CTGTGTATCGTACTGTTACTGTT
1 CTGTGTACCGTACTGTTACTGTT
25292374 GCTGTTACTG
Statistics
Matches: 105, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
46 26 0.25
47 76 0.72
48 3 0.03
ACGTcount: A:0.13, C:0.19, G:0.25, T:0.42
Consensus pattern (46 bp):
CTGTGTACCGTACTGTTACTGTTTCGGATTTGTCCGATGAGGTACT
Found at i:25292372 original size:6 final size:6
Alignment explanation
Indices: 25292361--25292391 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
25292351 CTGTGTATCG
*
25292361 TACTGT TACTGT TGCTGT TACTGT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT TACTGT T
25292392 CTGACTTCGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.13, C:0.16, G:0.19, T:0.52
Consensus pattern (6 bp):
TACTGT
Found at i:25292549 original size:18 final size:19
Alignment explanation
Indices: 25292504--25292558 Score: 76
Period size: 18 Copynumber: 2.9 Consensus size: 19
25292494 TGGAAAGATC
25292504 GATTGTTACTGAATAATTT
1 GATTGTTACTGAATAATTT
* *
25292523 AATTGTTACTGTAT-ATTT
1 GATTGTTACTGAATAATTT
*
25292541 GATTTTTACTGAATAATT
1 GATTGTTACTGAATAATT
25292559 GACTGATACT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
18 15 0.50
19 15 0.50
ACGTcount: A:0.31, C:0.05, G:0.13, T:0.51
Consensus pattern (19 bp):
GATTGTTACTGAATAATTT
Found at i:25292560 original size:18 final size:18
Alignment explanation
Indices: 25292504--25292574 Score: 70
Period size: 18 Copynumber: 3.9 Consensus size: 18
25292494 TGGAAAGATC
25292504 GATTGTTACTGAATAATTT
1 GATTGTTACTGAATAA-TT
* * *
25292523 AATTGTTACTGTATATTT
1 GATTGTTACTGAATAATT
*
25292541 GATTTTTACTGAATAATT
1 GATTGTTACTGAATAATT
* * *
25292559 GACTGATACTGGATAA
1 GATTGTTACTGAATAA
25292575 CCGATCAATT
Statistics
Matches: 41, Mismatches: 11, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
18 28 0.68
19 13 0.32
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.45
Consensus pattern (18 bp):
GATTGTTACTGAATAATT
Found at i:25294006 original size:39 final size:40
Alignment explanation
Indices: 25293961--25294071 Score: 98
Period size: 40 Copynumber: 2.8 Consensus size: 40
25293951 CGGGGTTTAG
* * *
25293961 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
25294000 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * *
25294040 CCGGATATAGTCGCTAGCACAAATGCCTTCGG
1 CCGGATATAACCACTAGCATAAAGGCCTTCGG
25294072 ATCTTAGTCC
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
39 15 0.25
40 45 0.75
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:25294031 original size:40 final size:40
Alignment explanation
Indices: 25293984--25294120 Score: 177
Period size: 40 Copynumber: 3.4 Consensus size: 40
25293974 CTCGCACAAG
* * * * *
25293984 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
25294024 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
25294064 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
25294105 GCCTTCGGGACTTAGC
1 GCCTTCGGGACTTAGC
25294121 TTGGATATCA
Statistics
Matches: 85, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.04
40 59 0.69
41 20 0.24
42 3 0.04
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:25298999 original size:46 final size:46
Alignment explanation
Indices: 25298928--25299100 Score: 156
Period size: 46 Copynumber: 3.7 Consensus size: 46
25298918 TGTAACCCAC
* * *
25298928 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCACAT
* * * *
25298974 CCATAAGTGAACTCGGACTCGACTCAACGAGTTCAGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTC-G--GAC--GTTCACAT
* * *
25299024 -C-TCA-CGAACTCGGACTCAACTCAACGAGCTCGGACATTCTCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCACAT
* * *
25299067 CCATAAGTGAACTCGGACTCGACTCAATGAGCTC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTC
25299101 AGATGCCCAA
Statistics
Matches: 101, Mismatches: 17, Indels: 18
0.74 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 3 0.03
45 2 0.02
46 55 0.54
47 25 0.25
48 2 0.02
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCACAT
Found at i:25299043 original size:93 final size:93
Alignment explanation
Indices: 25298935--25299107 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
25298925 CACCCATAAG
* * *
25298935 CGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCGACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCGACTCA
*
25299000 ACGAGTTCAGATGCCTAGTTACATCTCA
66 ACGAGCTCAGATGCCTAGTTACATCTCA
*
25299028 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCTCATCCATAAGTGAACTCGGACTCGACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCGACTCA
*
25299093 ATGAGCTCAGATGCC
66 ACGAGCTCAGATGCC
25299108 CAAATATCGT
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCGACTCA
ACGAGCTCAGATGCCTAGTTACATCTCA
Found at i:25308859 original size:15 final size:15
Alignment explanation
Indices: 25308841--25308873 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
25308831 GAAGCCCAGA
25308841 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
25308856 ATAAAGAAATCCATG
1 ATAAAGAAATCCAAG
25308871 ATA
1 ATA
25308874 CGAGAATCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.18
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:25312160 original size:49 final size:49
Alignment explanation
Indices: 25311994--25312168 Score: 156
Period size: 49 Copynumber: 3.5 Consensus size: 49
25311984 TATTACGCAT
* * ** * * *
25311994 AGTAACCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACGT
1 AGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCCGGTACACGC
* * ** * *
25312044 AGTAGCCTGCACTCAGTACTACACGCATGATCGA--AGTTATTGGGTACGCAC
1 AGTAGCCTGCACTTAGTACTACA--CATG--CGACCAATTATCCGGTACACGC
* *
25312095 AGTAGCTTGCATTTAGTACTACACATGCGACCAATTATCCGGTACACGC
1 AGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGC
25312144 AGTAGCCTGCACTTAGTACTACACA
1 AGTAGCCTGCACTTAGTACTACACA
25312169 CATGACCTCA
Statistics
Matches: 97, Mismatches: 22, Indels: 13
0.73 0.17 0.10
Matches are distributed among these distances:
47 3 0.03
49 39 0.40
50 21 0.22
51 28 0.29
52 4 0.04
54 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
AGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGC
Found at i:25312162 original size:100 final size:101
Alignment explanation
Indices: 25311987--25312173 Score: 259
Period size: 100 Copynumber: 1.9 Consensus size: 101
25311977 GACTATCTAT
* * * *
25311987 TACGCATAGTAACCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACGTAGTAGCCT
1 TACGCACAGTAACCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACGCAGTAGCCT
*
25312052 GCACTCAGTACTACACGCATGATCGAAGTTATTGGG
66 GCACTCAGTACTACACACATGATCGAAGTTATTGGG
* * * ** *
25312088 TACGCACAGTAGCTTGCATTTAGTACTACACATGCGACC-AATTATCCGGTACACGCAGTAGCCT
1 TACGCACAGTAACCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACGCAGTAGCCT
*
25312152 GCACTTAGTACTACACACATGA
66 GCACTCAGTACTACACACATGA
25312174 CCTCACAATA
Statistics
Matches: 74, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
100 40 0.54
101 34 0.46
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (101 bp):
TACGCACAGTAACCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACGCAGTAGCCT
GCACTCAGTACTACACACATGATCGAAGTTATTGGG
Found at i:25313818 original size:6 final size:6
Alignment explanation
Indices: 25313798--25313837 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
25313788 GAAAATAACA
* *
25313798 AAAAAT ATAAAT AAAACT AAAAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
25313838 TAGAATAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:25315519 original size:29 final size:29
Alignment explanation
Indices: 25315486--25315545 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
25315476 AAAGTAAAGT
* * *
25315486 AAAAACAAATAACAGGAATAAGAAGCAAA
1 AAAAACAAATAAAAAGAATAAGAAACAAA
* *
25315515 AAAAACAAGTAAAAAGAATTAGAAACAAA
1 AAAAACAAATAAAAAGAATAAGAAACAAA
25315544 AA
1 AA
25315546 TAATAATAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.72, C:0.08, G:0.12, T:0.08
Consensus pattern (29 bp):
AAAAACAAATAAAAAGAATAAGAAACAAA
Found at i:25323050 original size:23 final size:23
Alignment explanation
Indices: 25323022--25323068 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
25323012 TATAAAATAG
25323022 ATGGAGTTTAATAAGGTTTAAAA
1 ATGGAGTTTAATAAGGTTTAAAA
25323045 ATGGAGTTTAATAAGGTTTAAAA
1 ATGGAGTTTAATAAGGTTTAAAA
25323068 A
1 A
25323069 ACCTTAGTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.45, C:0.00, G:0.21, T:0.34
Consensus pattern (23 bp):
ATGGAGTTTAATAAGGTTTAAAA
Found at i:25323782 original size:15 final size:15
Alignment explanation
Indices: 25323764--25323793 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
25323754 TTTTAATCAT
*
25323764 GTAAAATTTATTTTA
1 GTAAAAATTATTTTA
25323779 GTAAAAATTATTTTA
1 GTAAAAATTATTTTA
25323794 ACTAGTCAAA
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:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (15 bp):
GTAAAAATTATTTTA
Found at i:25323888 original size:18 final size:20
Alignment explanation
Indices: 25323865--25323904 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
25323855 TTTGGCTAAG
25323865 TATCGATA-AT-TTTTAAAA
1 TATCGATACATCTTTTAAAA
*
25323883 TATCGATACCTCTTTTAAAA
1 TATCGATACATCTTTTAAAA
25323903 TA
1 TA
25323905 ATACCAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 1 0.05
20 10 0.53
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.42
Consensus pattern (20 bp):
TATCGATACATCTTTTAAAA
Found at i:25325115 original size:9 final size:9
Alignment explanation
Indices: 25325090--25325134 Score: 62
Period size: 9 Copynumber: 5.4 Consensus size: 9
25325080 TTAAGAATTC
25325090 AAAATTTT-
1 AAAATTTTA
25325098 -AAA-TTTA
1 AAAATTTTA
25325105 AAAATTTTA
1 AAAATTTTA
25325114 AAAATTTT-
1 AAAATTTTA
25325122 AAAATTTTA
1 AAAATTTTA
25325131 AAAA
1 AAAA
25325135 ATTATTTTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
6 3 0.09
7 3 0.09
8 11 0.33
9 16 0.48
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
AAAATTTTA
Found at i:25325120 original size:17 final size:17
Alignment explanation
Indices: 25325090--25325134 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 17
25325080 TTAAGAATTC
25325090 AAAATTTT--AAATTTA
1 AAAATTTTAAAAATTTA
*
25325105 AAAATTTTAAAAATTTT
1 AAAATTTTAAAAATTTA
25325122 AAAATTTTAAAAA
1 AAAATTTTAAAAA
25325135 ATTATTTTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 8 0.30
17 19 0.70
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AAAATTTTAAAAATTTA
Found at i:25325271 original size:20 final size:20
Alignment explanation
Indices: 25325230--25325273 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
25325220 ATTTATTTAT
* * *
25325230 TAAAATAATAATTTTCTCAA
1 TAAAATAATAATCTTATAAA
25325250 TAAAATAATAATCTTATAAA
1 TAAAATAATAATCTTATAAA
25325270 TAAA
1 TAAA
25325274 TCAATTTAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (20 bp):
TAAAATAATAATCTTATAAA
Found at i:25326196 original size:16 final size:16
Alignment explanation
Indices: 25326171--25326204 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
25326161 CCAGCCCCAC
25326171 TTGTCCCAATAAAAAA
1 TTGTCCCAATAAAAAA
*
25326187 TTGTCTCAATAAAAAA
1 TTGTCCCAATAAAAAA
25326203 TT
1 TT
25326205 ACTTTAAAGA
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:0.47, C:0.15, G:0.06, T:0.32
Consensus pattern (16 bp):
TTGTCCCAATAAAAAA
Found at i:25326526 original size:31 final size:30
Alignment explanation
Indices: 25326461--25326531 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 30
25326451 AAGTATAATA
* * *
25326461 TTTGGACAAGTTTAGGTACAACTAGGTGTTT
1 TTTGGACAAGTTCAAGTACAACTA-GTGTCT
25326492 TTTGGACAAGTTCAAGTACCAACTA-TGTACT
1 TTTGGACAAGTTCAAGTA-CAACTAGTGT-CT
25326523 TTTGGACAA
1 TTTGGACAA
25326532 AGCTTAGGGT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 3 0.09
31 26 0.74
32 6 0.17
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (30 bp):
TTTGGACAAGTTCAAGTACAACTAGTGTCT
Found at i:25327895 original size:57 final size:58
Alignment explanation
Indices: 25327794--25327908 Score: 187
Period size: 57 Copynumber: 2.0 Consensus size: 58
25327784 CTTGCAGTTT
* *
25327794 CTGTGGCAGCTGATATTCATTTCTTCAGTGTCAGCTCCCTTCTTAATAAGGTACTCTTA
1 CTGTAGCACCTGATATTCATTTCTTCA-TGTCAGCTCCCTTCTTAATAAGGTACTCTTA
*
25327853 CTGTAGCACCTGATATTCATTTCTTC-TGTCAGCTCCCTTCTTAATAAGTTACTCTT
1 CTGTAGCACCTGATATTCATTTCTTCATGTCAGCTCCCTTCTTAATAAGGTACTCTT
25327909 TCATTAAGAG
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
57 29 0.55
59 24 0.45
ACGTcount: A:0.20, C:0.25, G:0.14, T:0.41
Consensus pattern (58 bp):
CTGTAGCACCTGATATTCATTTCTTCATGTCAGCTCCCTTCTTAATAAGGTACTCTTA
Found at i:25331975 original size:74 final size:74
Alignment explanation
Indices: 25331852--25332002 Score: 205
Period size: 74 Copynumber: 2.0 Consensus size: 74
25331842 TGGTAGACAT
* * * *
25331852 AATTACTGTGGCATTTTTGACAATATAGTGTTATCTTATACTTTATGCTGAAAGATTTTTATAAT
1 AATTACTGTGGCATTTTTGACAAGATAGTGTCATCTTATACTTTATGCTGAAAGATTCTTAGAAT
25331917 TTGTTTTCA
66 TTGTTTTCA
* * ** *
25331926 AATTAGTGTGGCATTTTCT-ACAAGATAGTGTCATCTTGTGTTTTGTGCTGAAAGATTCTTAGAA
1 AATTACTGTGGCATTTT-TGACAAGATAGTGTCATCTTATACTTTATGCTGAAAGATTCTTAGAA
25331990 TTTGTTTTCA
65 TTTGTTTTCA
25332000 AAT
1 AAT
25332003 GTTTTTACCA
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
74 66 0.99
75 1 0.01
ACGTcount: A:0.27, C:0.10, G:0.17, T:0.46
Consensus pattern (74 bp):
AATTACTGTGGCATTTTTGACAAGATAGTGTCATCTTATACTTTATGCTGAAAGATTCTTAGAAT
TTGTTTTCA
Found at i:25339346 original size:30 final size:30
Alignment explanation
Indices: 25339310--25339371 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
25339300 TGCGACAGGA
*
25339310 GGTGGGTTTGCT-GGTTTGGCTTCAGGTGGT
1 GGTGGGTTTGCTGGGGTT-GCTTCAGGTGGT
*
25339340 GGTGGGTTTTCTGGGGTTGCTTCAGGTGGT
1 GGTGGGTTTGCTGGGGTTGCTTCAGGTGGT
25339370 GG
1 GG
25339372 ATTTGGTGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 25 0.86
31 4 0.14
ACGTcount: A:0.03, C:0.10, G:0.48, T:0.39
Consensus pattern (30 bp):
GGTGGGTTTGCTGGGGTTGCTTCAGGTGGT
Found at i:25341485 original size:16 final size:17
Alignment explanation
Indices: 25341464--25341496 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
25341454 TAGTATAATA
25341464 AATAAAAAAAT-GTCAC
1 AATAAAAAAATAGTCAC
*
25341480 AATAAATAAATAGTCAC
1 AATAAAAAAATAGTCAC
25341497 TTACATGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.61, C:0.12, G:0.06, T:0.21
Consensus pattern (17 bp):
AATAAAAAAATAGTCAC
Found at i:25341828 original size:12 final size:12
Alignment explanation
Indices: 25341811--25341863 Score: 54
Period size: 12 Copynumber: 4.4 Consensus size: 12
25341801 CATGGGAGGT
25341811 TGGAGTGATTTA
1 TGGAGTGATTTA
*
25341823 TGGAGTG-TATCA
1 TGGAGTGAT-TTA
*
25341835 AGGAGTGATTTA
1 TGGAGTGATTTA
*
25341847 TGGAGAGATTTA
1 TGGAGTGATTTA
*
25341859 AGGAG
1 TGGAG
25341864 GAAAATATAA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
11 1 0.03
12 31 0.94
13 1 0.03
ACGTcount: A:0.30, C:0.02, G:0.36, T:0.32
Consensus pattern (12 bp):
TGGAGTGATTTA
Found at i:25343718 original size:27 final size:27
Alignment explanation
Indices: 25343661--25343729 Score: 75
Period size: 27 Copynumber: 2.6 Consensus size: 27
25343651 CCAGTGGCTA
* * *
25343661 TGTGCCTATCATATTTATTGATGACTC
1 TGTGCCGATCATATTTAATCATGACTC
* * *
25343688 TGTGTCGATCATATTTAATCATGGCTG
1 TGTGCCGATCATATTTAATCATGACTC
*
25343715 TGTGCCGATTATATT
1 TGTGCCGATCATATT
25343730 ATCGTCGCTG
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.43
Consensus pattern (27 bp):
TGTGCCGATCATATTTAATCATGACTC
Found at i:25344067 original size:27 final size:27
Alignment explanation
Indices: 25344000--25344067 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 27
25343990 TGATACTGAG
* * *
25344000 ATGGGC-TAGGCCCAATTGATTCTGTT
1 ATGGGCTTTGGCCCAAATGATTCTGTA
* *
25344026 ATGGGCTGTGACCCAAATGATAT-TGTA
1 ATGGGCTTTGGCCCAAATGAT-TCTGTA
25344053 ATGGGCTTTGGCCCA
1 ATGGGCTTTGGCCCA
25344068 CTTATGCTCT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
26 6 0.18
27 26 0.79
28 1 0.03
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (27 bp):
ATGGGCTTTGGCCCAAATGATTCTGTA
Found at i:25348927 original size:23 final size:24
Alignment explanation
Indices: 25348823--25348928 Score: 101
Period size: 23 Copynumber: 4.4 Consensus size: 24
25348813 CAGCTCGTAT
* *
25348823 GAGCTTACTGATATATCAGCTCGTAA
1 GAGCTTACTGAT-T-TCAGCTCATTA
* * *
25348849 GAGCTTACTGTTTTCCGCTCATTG
1 GAGCTTACTGATTTCAGCTCATTA
* *
25348873 GAGCTTACCG-TTTCAACTCGA-TA
1 GAGCTTACTGATTTCAGCTC-ATTA
25348896 GAGCTTACT-ATTTCAGCTCATTA
1 GAGCTTACTGATTTCAGCTCATTA
25348919 GAGCTTACTG
1 GAGCTTACTG
25348929 TTATCAGTTA
Statistics
Matches: 65, Mismatches: 11, Indels: 10
0.76 0.13 0.12
Matches are distributed among these distances:
22 1 0.02
23 35 0.54
24 17 0.26
25 1 0.02
26 11 0.17
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.35
Consensus pattern (24 bp):
GAGCTTACTGATTTCAGCTCATTA
Done.