Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 39 of 425
Found at i:10109611 original size:21 final size:21
Alignment explanation
Indices: 10109421--10109608 Score: 182
Period size: 21 Copynumber: 9.0 Consensus size: 21
10109411 TTCTATTTAG
*
10109421 CTCTTATGAGCTTT-TGTTTAA
1 CTCTTATGAG-TTTCTGTTCAA
* * * *
10109442 CTCATACGAATTTTTGTTCAA
1 CTCTTATGAGTTTCTGTTCAA
* * *
10109463 CACTTACGAGCTTCTGTTCAA
1 CTCTTATGAGTTTCTGTTCAA
* *
10109484 CTCTTATGAGTTTCTGTTTAG
1 CTCTTATGAGTTTCTGTTCAA
* * *
10109505 CTCTTACGAGCTTCTATTCAA
1 CTCTTATGAGTTTCTGTTCAA
*
10109526 CTCTTATGAGTTTCTGTT-AGG
1 CTCTTATGAGTTTCTGTTCA-A
* *
10109547 CTCTTACGAGCTTCTGTTCAA
1 CTCTTATGAGTTTCTGTTCAA
* *
10109568 CTCTTATGAGTTTCTGTTTAG
1 CTCTTATGAGTTTCTGTTCAA
10109589 CTCTTATGAGTTTCTGTTCA
1 CTCTTATGAGTTTCTGTTCA
10109609 GCTTTCGAGT
Statistics
Matches: 133, Mismatches: 31, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
20 4 0.03
21 128 0.96
22 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.15, T:0.45
Consensus pattern (21 bp):
CTCTTATGAGTTTCTGTTCAA
Found at i:10132373 original size:224 final size:224
Alignment explanation
Indices: 10131983--10132425 Score: 735
Period size: 224 Copynumber: 2.0 Consensus size: 224
10131973 ACCTACTAAC
* *
10131983 TCAATATTCCTACAACACGAAACATCCTTAACTAGCTGGATTGTCAACAATACATTGATTCCACC
1 TCAATATTCCTACAACACAAAACATCCTTAACTAGCTGGATTGCCAACAATACATTGATTCCACC
* *
10132048 CCTTATGTCTCGACTCACCAATACAACACATTATTGTTGTCAGGTATCCGAGATACATATACAAT
66 CCTTATGTCTCGACTCACCAATACAACACATTATTGTTGTCAGGAATCCAAGATACATATACAAT
* * * *
10132113 CAACAAAAAGAACTAATAAAACATTAATATTATCAAGGACATTTAAGCCAAGAACGAAGTTGAAA
131 CAACAAAAAGAACTAATAAAACATTAATATTATCAAGGAAATTCAAGCCAAGAACAAAGTCGAAA
*
10132178 TCATCCAAGTGAATGACCTCAAAAGCTTG
196 TCATCCAAGTGAACGACCTCAAAAGCTTG
*
10132207 TCAATATTCCTACAACACAAAACATCTTTAACTAGCTGGATTGCCAACAATACATTGATTCCACC
1 TCAATATTCCTACAACACAAAACATCCTTAACTAGCTGGATTGCCAACAATACATTGATTCCACC
* * *
10132272 CCTTATGTCTTGACTCACCAATACAACACATTATTGTTTTCGGGAATCCAAGATACATATACAAT
66 CCTTATGTCTCGACTCACCAATACAACACATTATTGTTGTCAGGAATCCAAGATACATATACAAT
* *
10132337 CGAA-AAAAAGAACTAATAAAGCATTAATATTATCAAGGAAATTCAAGCTAAGAACAAAGTCGAA
131 C-AACAAAAAGAACTAATAAAACATTAATATTATCAAGGAAATTCAAGCCAAGAACAAAGTCGAA
10132401 ATCATCCAAGTGAACGACCTCAAAA
195 ATCATCCAAGTGAACGACCTCAAAA
10132426 CCTTTATTAT
Statistics
Matches: 203, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
224 201 0.99
225 2 0.01
ACGTcount: A:0.41, C:0.22, G:0.12, T:0.26
Consensus pattern (224 bp):
TCAATATTCCTACAACACAAAACATCCTTAACTAGCTGGATTGCCAACAATACATTGATTCCACC
CCTTATGTCTCGACTCACCAATACAACACATTATTGTTGTCAGGAATCCAAGATACATATACAAT
CAACAAAAAGAACTAATAAAACATTAATATTATCAAGGAAATTCAAGCCAAGAACAAAGTCGAAA
TCATCCAAGTGAACGACCTCAAAAGCTTG
Found at i:10138288 original size:2 final size:2
Alignment explanation
Indices: 10138281--10138306 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10138271 GACTTCTTTA
10138281 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
10138307 GTGCATACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10143526 original size:26 final size:26
Alignment explanation
Indices: 10143490--10143625 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
10143480 CATGAAATTC
*
10143490 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
10143516 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
10143542 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
10143568 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
10143594 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
10143620 TTATCA
1 TTATCA
10143626 ATTTGTATCA
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 107 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:10145058 original size:18 final size:18
Alignment explanation
Indices: 10145035--10145072 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
10145025 ACACAATAAA
10145035 ATATGTCAATAACAAAAT
1 ATATGTCAATAACAAAAT
*
10145053 ATATGTCAATAACATAAT
1 ATATGTCAATAACAAAAT
10145071 AT
1 AT
10145073 TTTCACAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.53, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATATGTCAATAACAAAAT
Found at i:10157433 original size:2 final size:2
Alignment explanation
Indices: 10157426--10157463 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
10157416 ATGACTGCAT
*
10157426 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10157464 ATTACGTCCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:10164877 original size:62 final size:63
Alignment explanation
Indices: 10164740--10164878 Score: 201
Period size: 62 Copynumber: 2.2 Consensus size: 63
10164730 TGGCCTTCTA
* * *
10164740 ATAGCCAACACCAGGGATTTTTTTCATGTCCCAATGCAATTTTTTTTTTTACTTTTCTACACTG
1 ATAGCCGACACCAGAGATTTTTTTCATGTCCCAATACAA-TTTTTTTTTTACTTTTCTACACTG
*
10164804 ATAGCCGACACCAGAGACTTTTTTT-GTGTCCCAATACAA-TTTTTTTTTACTTTTCTACACTG
1 ATAGCCGACACCAGAGA-TTTTTTTCATGTCCCAATACAATTTTTTTTTTACTTTTCTACACTG
*
10164866 ATGGCCGACACCA
1 ATAGCCGACACCA
10164879 AACCAGTAAT
Statistics
Matches: 69, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
62 35 0.51
64 27 0.39
65 7 0.10
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.40
Consensus pattern (63 bp):
ATAGCCGACACCAGAGATTTTTTTCATGTCCCAATACAATTTTTTTTTTACTTTTCTACACTG
Found at i:10165055 original size:48 final size:46
Alignment explanation
Indices: 10164892--10165183 Score: 217
Period size: 48 Copynumber: 6.1 Consensus size: 46
10164882 CAGTAATTTT
* *
10164892 TTTTTGTTCTAGCCTTCTAATGGCCGGCACCACACTAAT-AAAAAAA
1 TTTTTGTT-TTGCCTTCTAATGGCCGGCACCACACTAGTAAAAAAAA
* * *
10164938 TTTTTGGTTCTAGCCTTCTAATGGCTGGCACTACACTAGTAAAAAAAAA
1 TTTTT-GTT-TTGCCTTCTAATGGCCGGCACCACACTAGT-AAAAAAAA
*** * *
10164987 AAATTGTTTCTCGCATTCTAATGGCCAGCACCACACTAGTAAAAAAAA
1 TTTTTGTTT-T-GCCTTCTAATGGCCGGCACCACACTAGTAAAAAAAA
* *****
10165035 TTTTTGATTTTGTCCTTCTAATAGCCGGCACCACACTAGTAAATTTTTT
1 TTTTTG-TTTTG-CCTTCTAATGGCCGGCACCACACTAGTAAA-AAAAA
* * **
10165084 TTTTTGTTCTGGCTTTCTAATGGTTGGCACCACACTAGTAAAAACAAA
1 TTTTTGTT-TTGCCTTCTAATGGCCGGCACCACACTAGTAAAAA-AAA
* * * ** * * *
10165132 ATTTGGTTCTAGCCTTCTAATGGTTGGTACTACACTAGTAAAAAAAT
1 TTTTTGTT-TTGCCTTCTAATGGCCGGCACCACACTAGTAAAAAAAA
10165179 TTTTT
1 TTTTT
10165184 TAAAAATTAC
Statistics
Matches: 195, Mismatches: 41, Indels: 19
0.76 0.16 0.07
Matches are distributed among these distances:
46 5 0.03
47 38 0.19
48 108 0.55
49 44 0.23
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (46 bp):
TTTTTGTTTTGCCTTCTAATGGCCGGCACCACACTAGTAAAAAAAA
Found at i:10165064 original size:144 final size:144
Alignment explanation
Indices: 10164904--10165183 Score: 346
Period size: 144 Copynumber: 1.9 Consensus size: 144
10164894 TTTGTTCTAG
*
10164904 CCTTCTAATGGCCGGCACCACACTAATAAA-AAAATTTTTGGTTCTAGCCTTCTAATGGCTGGCA
1 CCTTCTAATAGCCGGCACCACACTAATAAATAAAATTTTTGGTTCTAGCCTTCTAATGGCTGGCA
* * *
10164968 CTACACTAGTAAAAAAAAAAAATTGTTTCTCGCATTCTAATGGCCAGCACCACACTAGTAAAAAA
66 CCACACTAGT-AAAAAAAAAAATTGGTTCTAGCATTCTAATGGCCAGCACCACACTAGTAAAAAA
10165033 AATTTTTGATTTTGT
130 AATTTTTGATTTTGT
* **** * * * *
10165048 CCTTCTAATAGCCGGCACCACACTAGTAAATTTTTTTTTTTGTTCTGGCTTTCTAATGGTTGGCA
1 CCTTCTAATAGCCGGCACCACACTAATAAATAAAATTTTTGGTTCTAGCCTTCTAATGGCTGGCA
* * * *** * *
10165113 CCACACTAGTAAAAACAAAATTTGGTTCTAGCCTTCTAATGGTTGGTACTACACTAGTAAAAAAA
66 CCACACTAGTAAAAAAAAAAATTGGTTCTAGCATTCTAATGGCCAGCACCACACTAGTAAAAAAA
*
10165178 TTTTTT
131 ATTTTT
10165184 TAAAAATTAC
Statistics
Matches: 113, Mismatches: 22, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
144 78 0.69
145 35 0.31
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (144 bp):
CCTTCTAATAGCCGGCACCACACTAATAAATAAAATTTTTGGTTCTAGCCTTCTAATGGCTGGCA
CCACACTAGTAAAAAAAAAAATTGGTTCTAGCATTCTAATGGCCAGCACCACACTAGTAAAAAAA
ATTTTTGATTTTGT
Found at i:10165182 original size:96 final size:95
Alignment explanation
Indices: 10164890--10165184 Score: 313
Period size: 96 Copynumber: 3.1 Consensus size: 95
10164880 ACCAGTAATT
* * *
10164890 TTTTTTTGTTCTAGCCTTCTAATGGCCGGCACCACACTAATAAAAAAATTTTTGGTTCTAGCCTT
1 TTTTTTTGTTCTAGCATTCTAATGGCCGGCACCACACTAGTAAAAAAAATTTTGGTTCTAGCCTT
10164955 CTAATGGCTGGCACTACACTAGTAAAAAAA
66 CTAATGGCTGGCACTACACTAGTAAAAAAA
***** * * * *
10164985 AAAAATTGTTTCTCGCATTCTAATGGCCAGCACCACACTAGTAAAAAAAATTTTTGATT-TTGTC
1 TTTTTTTG-TTCTAGCATTCTAATGGCCGGCACCACACTAGTAAAAAAAA-TTTTGGTTCTAG-C
* * * ****
10165049 CTTCTAATAGCCGGCACCACACTAGTAAATTTT
63 CTTCTAATGGCTGGCACTACACTAGTAAAAAAA
* * ** *
10165082 TTTTTTTGTTCTGGCTTTCTAATGGTTGGCACCACACTAGTAAAAACAAAATTTGGTTCTAGCCT
1 TTTTTTTGTTCTAGCATTCTAATGGCCGGCACCACACTAGTAAAAA-AAATTTTGGTTCTAGCCT
* *
10165147 TCTAATGGTTGGTACTACACTAGTAAAAAAA
65 TCTAATGGCTGGCACTACACTAGTAAAAAAA
10165178 TTTTTTT
1 TTTTTTT
10165185 AAAAATTACT
Statistics
Matches: 154, Mismatches: 41, Indels: 9
0.75 0.20 0.04
Matches are distributed among these distances:
95 3 0.02
96 109 0.71
97 42 0.27
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (95 bp):
TTTTTTTGTTCTAGCATTCTAATGGCCGGCACCACACTAGTAAAAAAAATTTTGGTTCTAGCCTT
CTAATGGCTGGCACTACACTAGTAAAAAAA
Found at i:10165674 original size:142 final size:135
Alignment explanation
Indices: 10165389--10165653 Score: 326
Period size: 137 Copynumber: 1.9 Consensus size: 135
10165379 GGCCAGAACC
* *
10165389 AAAAAAAAAATTTACTAGTGTGGTGCCGGCCATTACAAGACCAGAACCAATTTTTTTTAAATATT
1 AAAAAAAAAAATTACTAGTGTGGTGCCGGCCATTACAAGACCAGAACCAATTTTTTTTAAATACT
* *
10165454 GGTATTTTTGTATACCAGTATGATACGATTTAAAAAAAATACCATAGTCCCTGCTGCTGGCCATT
66 AGTATTTTTGTATACCAGTATGATACGATTT-AAAAAAATA-CATAGTCCCTGATGCTGGCCATT
* *
10165519 AGAAGGC
129 AAAAGGA
* * * *
10165526 CAAAAAAAAAATTACTAGTGTGGTGTCGGCCATTACAAGGCCAGATCCAAATTTATTTTTTTTAA
1 AAAAAAAAAAATTACTAGTGTGGTGCCGGCCATTACAAGACCAGAACC--A---ATTTTTTTTAA
10165591 ATACTAGTATTTTTGTATACTC-GTATGATACGATTT-AAAAAA-A-ATA-T-CCTGATGCTGGC
61 ATACTAGTATTTTTGTATAC-CAGTATGATACGATTTAAAAAAATACATAGTCCCTGATGCTGGC
10165650 CATT
125 CATT
10165654 GGATTCCCAA
Statistics
Matches: 114, Mismatches: 8, Indels: 14
0.84 0.06 0.10
Matches are distributed among these distances:
135 15 0.13
136 1 0.01
137 46 0.40
139 2 0.02
140 6 0.05
142 43 0.38
143 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (135 bp):
AAAAAAAAAAATTACTAGTGTGGTGCCGGCCATTACAAGACCAGAACCAATTTTTTTTAAATACT
AGTATTTTTGTATACCAGTATGATACGATTTAAAAAAATACATAGTCCCTGATGCTGGCCATTAA
AAGGA
Found at i:10168873 original size:20 final size:20
Alignment explanation
Indices: 10168845--10168882 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
10168835 AAAAATAATT
10168845 ATAACTATTATATATATTAA
1 ATAACTATTATATATATTAA
* *
10168865 ATAATTATTATTTATATT
1 ATAACTATTATATATATT
10168883 TATATTAACT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (20 bp):
ATAACTATTATATATATTAA
Found at i:10169161 original size:19 final size:20
Alignment explanation
Indices: 10169135--10169180 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
10169125 AAATATATAA
10169135 ATAAAAATACATA-AATTTTT
1 ATAAAAAT-CATAGAATTTTT
*
10169155 A-AAAAATTATAGAATTTTT
1 ATAAAAATCATAGAATTTTT
10169174 ATAAAAA
1 ATAAAAA
10169181 ATATATTTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 3 0.13
19 14 0.61
20 6 0.26
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (20 bp):
ATAAAAATCATAGAATTTTT
Found at i:10170594 original size:6 final size:6
Alignment explanation
Indices: 10170583--10170612 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
10170573 TTTTGTGGAG
10170583 GGGGTT GGGGTT GGGGTT GGGGTT GGGGTT
1 GGGGTT GGGGTT GGGGTT GGGGTT GGGGTT
10170613 AATTATTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.67, T:0.33
Consensus pattern (6 bp):
GGGGTT
Found at i:10174882 original size:28 final size:28
Alignment explanation
Indices: 10174842--10174895 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
10174832 AGGGGTTCCA
* *
10174842 CATTGTGATGTCACTTACTGTCTTATAT
1 CATTGTCACGTCACTTACTGTCTTATAT
10174870 CATTGTCACGTCACTTACTGTCTTAT
1 CATTGTCACGTCACTTACTGTCTTAT
10174896 GCCGTCGCGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.20, C:0.22, G:0.13, T:0.44
Consensus pattern (28 bp):
CATTGTCACGTCACTTACTGTCTTATAT
Found at i:10175568 original size:24 final size:23
Alignment explanation
Indices: 10175541--10175585 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
10175531 AATCATAGTA
*
10175541 TTGCATCGAAGTGTCACATTTCGG
1 TTGCACCGAAGTGTCAC-TTTCGG
10175565 TTGCACCGAAGTGTCACTTTC
1 TTGCACCGAAGTGTCACTTTC
10175586 ATTTTCACAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.33
Consensus pattern (23 bp):
TTGCACCGAAGTGTCACTTTCGG
Found at i:10188455 original size:31 final size:31
Alignment explanation
Indices: 10188387--10188456 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
10188377 ATTTAATGAC
10188387 TTAGTGACTTAAATAAAGACTTTCAAATAGT
1 TTAGTGACTTAAATAAAGACTTTCAAATAGT
* * *
10188418 TCAGTGACTTAAATGAAA-ATTTTTCAATTA-T
1 TTAGTGACTTAAAT-AAAGA-CTTTCAAATAGT
10188449 TTAGTGAC
1 TTAGTGAC
10188457 CATTTTTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
31 22 0.67
32 11 0.33
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.39
Consensus pattern (31 bp):
TTAGTGACTTAAATAAAGACTTTCAAATAGT
Found at i:10200676 original size:20 final size:19
Alignment explanation
Indices: 10200637--10200686 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
10200627 CCGTTATTAG
*
10200637 TTTGATTGTAATGATCGAA
1 TTTGATTATAATGATCGAA
*
10200656 TTTGATTATAATTATTCGAA
1 TTTGATTATAATGA-TCGAA
10200676 TATTGTATTAT
1 T-TTG-ATTAT
10200687 TTGTGAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 12 0.46
20 6 0.23
21 3 0.12
22 5 0.19
ACGTcount: A:0.32, C:0.04, G:0.14, T:0.50
Consensus pattern (19 bp):
TTTGATTATAATGATCGAA
Found at i:10202541 original size:12 final size:12
Alignment explanation
Indices: 10202524--10202549 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
10202514 TTGTGGATAA
10202524 AAAAATATTTTT
1 AAAAATATTTTT
10202536 AAAAATATTTTT
1 AAAAATATTTTT
10202548 AA
1 AA
10202550 TAAAAATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
AAAAATATTTTT
Found at i:10202803 original size:15 final size:16
Alignment explanation
Indices: 10202773--10202806 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
10202763 ACCTTTCTTT
10202773 TTTTACTTTTTATATC
1 TTTTACTTTTTATATC
*
10202789 TTTTA-TTTTTTTATC
1 TTTTACTTTTTATATC
10202804 TTT
1 TTT
10202807 CATCGATTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTACTTTTTATATC
Found at i:10215419 original size:46 final size:46
Alignment explanation
Indices: 10215101--10215420 Score: 410
Period size: 46 Copynumber: 7.0 Consensus size: 46
10215091 TTTGACATGA
* * * * ** *
10215101 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGCCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** **
10215147 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAATT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
**
10215193 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCAT-TCCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT-CAGGT
* * *
10215239 TGCCATGATATCTTTCAACCATAGTCTTACACATTTCGTATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
** *
10215285 TGAAATGGTATCTTTCAACCATGGTCTTACACATTTCGTATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
10215331 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCGTATCAAGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
10215377 TGCCATGGCATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
10215421 AGAGCACACT
Statistics
Matches: 246, Mismatches: 25, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
45 5 0.02
46 240 0.98
47 1 0.00
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:10217249 original size:11 final size:11
Alignment explanation
Indices: 10217233--10217291 Score: 73
Period size: 11 Copynumber: 5.2 Consensus size: 11
10217223 CTTTATATAC
10217233 TAATAAAATAA
1 TAATAAAATAA
10217244 TAATAAAATAA
1 TAATAAAATAA
*
10217255 TAATAAAATATCT
1 TAATAAAATA--A
* *
10217268 TATTAAAATAT
1 TAATAAAATAA
10217279 TAATAAAATAA
1 TAATAAAATAA
10217290 TA
1 TA
10217292 TTTATCTAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
11 33 0.79
13 9 0.21
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:10219917 original size:30 final size:30
Alignment explanation
Indices: 10219883--10219970 Score: 88
Period size: 30 Copynumber: 2.9 Consensus size: 30
10219873 CTAGCTTATA
* *
10219883 TTCAGCTCACGAGCTAAACCTTAGCTCAAC
1 TTCAGCTTAAGAGCTAAACCTTAGCTCAAC
* * *
10219913 TTCAGCTTAGGAG-TATAATCTCAGCTCAAC
1 TTCAGCTTAAGAGCTA-AACCTTAGCTCAAC
* * *
10219943 TTTAGCTTAAGGGCTAAAGCTTAGCTCA
1 TTCAGCTTAAGAGCTAAACCTTAGCTCA
10219971 TTTTAGCTCA
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
29 2 0.04
30 43 0.91
31 2 0.04
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (30 bp):
TTCAGCTTAAGAGCTAAACCTTAGCTCAAC
Found at i:10220799 original size:22 final size:20
Alignment explanation
Indices: 10220767--10220815 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 20
10220757 ACCGAATTTA
10220767 TGAACTATTTTAATACATTAGTG
1 TGAAC-ATTTTAAT-CATT-GTG
* *
10220790 TGAACATTTTTATTATTGTG
1 TGAACATTTTAATCATTGTG
10220810 TGAACA
1 TGAACA
10220816 CCTAGATGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 9 0.38
21 3 0.12
22 7 0.29
23 5 0.21
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.45
Consensus pattern (20 bp):
TGAACATTTTAATCATTGTG
Found at i:10221887 original size:11 final size:11
Alignment explanation
Indices: 10221871--10221929 Score: 73
Period size: 11 Copynumber: 5.2 Consensus size: 11
10221861 CTTTATATAC
10221871 TAATAAAATAA
1 TAATAAAATAA
10221882 TAATAAAATAA
1 TAATAAAATAA
*
10221893 TAATAAAATATCT
1 TAATAAAATA--A
* *
10221906 TATTAAAATAT
1 TAATAAAATAA
10221917 TAATAAAATAA
1 TAATAAAATAA
10221928 TA
1 TA
10221930 TTTATCTAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
11 33 0.79
13 9 0.21
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:10232949 original size:34 final size:35
Alignment explanation
Indices: 10232810--10232968 Score: 205
Period size: 35 Copynumber: 4.6 Consensus size: 35
10232800 ATTGAAATGT
* * * **
10232810 CATACTTACATTTCACAACTCGGTATGGGA-AATGT
1 CATACCTACGTTTCACAACTCAGTAT-GGATAATAC
** *
10232845 CATACCTACGTTTCTTAACTCAATATGGATAATAC
1 CATACCTACGTTTCACAACTCAGTATGGATAATAC
*
10232880 CATACCTACGTTTCACAACTCAGTATGGTTAATAC
1 CATACCTACGTTTCACAACTCAGTATGGATAATAC
*
10232915 CATACCTACGTTTCACAACT-AGTATGGATGATAC
1 CATACCTACGTTTCACAACTCAGTATGGATAATAC
10232949 CATACCTACGTTTCACAACT
1 CATACCTACGTTTCACAACT
10232969 TTGCCATGGA
Statistics
Matches: 109, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
34 35 0.32
35 74 0.68
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.31
Consensus pattern (35 bp):
CATACCTACGTTTCACAACTCAGTATGGATAATAC
Found at i:10233261 original size:16 final size:16
Alignment explanation
Indices: 10233240--10233270 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
10233230 CTTTTCCTCA
10233240 TTCGTCTTTTGATTCG
1 TTCGTCTTTTGATTCG
10233256 TTCGTCTTTTGATTC
1 TTCGTCTTTTGATTC
10233271 TTGATCTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.19, G:0.16, T:0.58
Consensus pattern (16 bp):
TTCGTCTTTTGATTCG
Found at i:10237746 original size:2 final size:2
Alignment explanation
Indices: 10237689--10237726 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
10237679 TTCGTATTTC
*
10237689 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10237727 CTAAATTGTC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:10237881 original size:14 final size:14
Alignment explanation
Indices: 10237862--10237894 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
10237852 TGCAAAATTC
*
10237862 TCTTTTTTTTTTTT
1 TCTTTTTTTTCTTT
10237876 TCTTTTTTTTCTTT
1 TCTTTTTTTTCTTT
10237890 TCTTT
1 TCTTT
10237895 ATATGTTGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (14 bp):
TCTTTTTTTTCTTT
Found at i:10238370 original size:6 final size:7
Alignment explanation
Indices: 10238352--10238379 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
10238342 GTAACTTCTG
10238352 GAAAAAA
1 GAAAAAA
10238359 GAAAAAA
1 GAAAAAA
10238366 GAAAAAA
1 GAAAAAA
10238373 GAAAAAA
1 GAAAAAA
10238380 TGCTTTTGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (7 bp):
GAAAAAA
Found at i:10245979 original size:24 final size:24
Alignment explanation
Indices: 10245952--10246011 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
10245942 TAGAGGTGAG
10245952 GAGAAAAGAAAAAAGAGGAGAAA-A
1 GAGAAAAGAAAAAAGA-GAGAAATA
**
10245976 GAGAAATA-AAAGTAGAGAGAAATA
1 GAGAAA-AGAAAAAAGAGAGAAATA
*
10246000 AAGAAAAGAAAA
1 GAGAAAAGAAAA
10246012 GAGAAAGAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
23 7 0.24
24 21 0.72
25 1 0.03
ACGTcount: A:0.70, C:0.00, G:0.25, T:0.05
Consensus pattern (24 bp):
GAGAAAAGAAAAAAGAGAGAAATA
Found at i:10246027 original size:31 final size:31
Alignment explanation
Indices: 10245970--10246028 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
10245960 AAAAAAGAGG
*
10245970 AGAAAAGAGAAATAAAAGTAGAGAGAAATAA
1 AGAAAAGAGAAAGAAAAGTAGAGAGAAATAA
10246001 AGAAAAGA-AAAGAGAAAG-AGAGGAGAAA
1 AGAAAAGAGAAAGA-AAAGTAGA-GAGAAA
10246029 GGGGAAAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 7 0.28
31 18 0.72
ACGTcount: A:0.68, C:0.00, G:0.27, T:0.05
Consensus pattern (31 bp):
AGAAAAGAGAAAGAAAAGTAGAGAGAAATAA
Found at i:10246064 original size:34 final size:34
Alignment explanation
Indices: 10245999--10246065 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
10245989 AGAGAGAAAT
* *
10245999 AAAGAAAAGAAAAGAGAAAGAGAGGAGAAAGGGG
1 AAAGAAAAGAAAAGAAAAAGAGAAGAGAAAGGGG
10246033 AAAGAAAAG-AAAGAAAAATGGAGAAGA-AAAGGG
1 AAAGAAAAGAAAAGAAAAA--GAGAAGAGAAAGGG
10246066 TGGCTGGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 8 0.28
34 15 0.52
35 6 0.21
ACGTcount: A:0.64, C:0.00, G:0.34, T:0.01
Consensus pattern (34 bp):
AAAGAAAAGAAAAGAAAAAGAGAAGAGAAAGGGG
Found at i:10259622 original size:2 final size:2
Alignment explanation
Indices: 10259617--10259649 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
10259607 AAAATTTGTT
10259617 TA TA 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 TA TA T
10259650 GGTAGAAGCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10265439 original size:19 final size:21
Alignment explanation
Indices: 10265395--10265441 Score: 55
Period size: 19 Copynumber: 2.3 Consensus size: 21
10265385 ATTGAGTGGT
10265395 TAATTAGACTTTAATTAAGTA
1 TAATTAGACTTTAATTAAGTA
*
10265416 AAATTAG-C-TTAATTAAG-A
1 TAATTAGACTTTAATTAAGTA
10265434 GTAATTAG
1 -TAATTAG
10265442 TGGAAAGGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 1 0.04
19 15 0.65
20 1 0.04
21 6 0.26
ACGTcount: A:0.45, C:0.04, G:0.13, T:0.38
Consensus pattern (21 bp):
TAATTAGACTTTAATTAAGTA
Found at i:10265774 original size:5 final size:5
Alignment explanation
Indices: 10265750--10265793 Score: 61
Period size: 5 Copynumber: 8.6 Consensus size: 5
10265740 AAGAAATTGT
* *
10265750 TATTA TATGA TATTA TTATTA TATTA TAGTA TATTA TATTA TAT
1 TATTA TATTA TATTA -TATTA TATTA TATTA TATTA TATTA TAT
10265794 AAATAAGTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
5 29 0.85
6 5 0.15
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (5 bp):
TATTA
Found at i:10265866 original size:29 final size:30
Alignment explanation
Indices: 10265824--10265886 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 30
10265814 GAAACAGAAT
*
10265824 GAAAGCAAACGAAACAGAG-AAGAACAGGGA
1 GAAAGCAAACGAAACAAAGAAAGAA-AGGGA
* *
10265854 GAAAG-AAAGGAAAGAAAGAAAGAAAGGGA
1 GAAAGCAAACGAAACAAAGAAAGAAAGGGA
10265883 GAAA
1 GAAA
10265887 AGGGAAAATC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
29 19 0.66
30 10 0.34
ACGTcount: A:0.62, C:0.06, G:0.32, T:0.00
Consensus pattern (30 bp):
GAAAGCAAACGAAACAAAGAAAGAAAGGGA
Found at i:10266910 original size:15 final size:15
Alignment explanation
Indices: 10266890--10266946 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
10266880 CGATGAATTT
10266890 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
10266905 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
10266920 ATTGAATTTATATTG
1 ATTGAATTTATATTG
10266935 ATTGAA-TTATAT
1 ATTGAATTTATAT
10266947 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:10267366 original size:21 final size:21
Alignment explanation
Indices: 10267331--10267426 Score: 129
Period size: 21 Copynumber: 4.5 Consensus size: 21
10267321 AGGCACTTTA
10267331 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA--TCAGGCACCTCG
10267354 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
10267375 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
* * * **
10267396 TGTGTCGTTTTAGGCACTTTA
1 TGTGTCGTATCAGGCACCTCG
10267417 TGTGTCGTAT
1 TGTGTCGTAT
10267427 ACTGATCAGG
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
21 58 0.87
23 9 0.13
ACGTcount: A:0.14, C:0.23, G:0.27, T:0.36
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:10267401 original size:42 final size:42
Alignment explanation
Indices: 10267318--10267426 Score: 137
Period size: 42 Copynumber: 2.5 Consensus size: 42
10267308 GGCTTTATCG
* *
10267318 ATCAGGCACTTTATGTGTCGTATTTCAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTCATGTGTCGTA--TCAGGCACCTCGTGTGTCGT
*
10267362 ATCAGGCACCTCGTGTGTCGTATCAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTCATGTGTCGTATCAGGCACCTCGTGTGTCGT
* * * *
10267404 TTTAGGCACTTTATGTGTCGTAT
1 ATCAGGCACCTCATGTGTCGTAT
10267427 ACTGATCAGG
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 38 0.67
44 19 0.33
ACGTcount: A:0.16, C:0.23, G:0.26, T:0.36
Consensus pattern (42 bp):
ATCAGGCACCTCATGTGTCGTATCAGGCACCTCGTGTGTCGT
Found at i:10270315 original size:103 final size:103
Alignment explanation
Indices: 10270132--10270322 Score: 242
Period size: 103 Copynumber: 1.9 Consensus size: 103
10270122 CTACGGAGAC
* * *
10270132 TTTGGTGTGGTGAAGGGATGATATAATACATGACATGTAATAGTGCCTACGAGCTTTACATTACG
1 TTTGGTGTGGTGAAGGGATGATACAATACATGACACGTAATAGTGCCTACGAGCTTTACACTACG
*
10270197 GTGCATTGATATGGTGTAGTTATCACTCTGTTGAGCTA
66 GTGCATCGATATGGTGTAGTTATCACTCTGTTGAGCTA
* * * * *
10270235 TTTGGTGTGGTGGAGGGATGATACATTACATGATACG-ATATTGTGCCTAC-AGGCTTTGCACTA
1 TTTGGTGTGGTGAAGGGATGATACAATACATGACACGTA-ATAGTGCCTACGA-GCTTTACACTA
* * *
10270298 TGGTGCCTCGATGTGGTGTAGTTAT
64 CGGTGCATCGATATGGTGTAGTTAT
10270323 TGAGCTACCT
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
102 2 0.03
103 72 0.97
ACGTcount: A:0.24, C:0.13, G:0.28, T:0.35
Consensus pattern (103 bp):
TTTGGTGTGGTGAAGGGATGATACAATACATGACACGTAATAGTGCCTACGAGCTTTACACTACG
GTGCATCGATATGGTGTAGTTATCACTCTGTTGAGCTA
Found at i:10274477 original size:20 final size:20
Alignment explanation
Indices: 10274450--10274503 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
10274440 GTATTGGTTA
10274450 GCACTTTGGTGCCTCTATTT
1 GCACTTTGGTGCCTCTATTT
* *
10274470 GTACTTTGGTGTCC-CTGTTT
1 GCACTTTGGTG-CCTCTATTT
*
10274490 GCACTTCGGTGCCT
1 GCACTTTGGTGCCT
10274504 TTGTATAGCA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 2 0.07
20 24 0.86
21 2 0.07
ACGTcount: A:0.07, C:0.26, G:0.24, T:0.43
Consensus pattern (20 bp):
GCACTTTGGTGCCTCTATTT
Found at i:10287994 original size:1 final size:1
Alignment explanation
Indices: 10287988--10288012 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
10287978 CTTGTTGTGC
10287988 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
10288013 CTCTTATCAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:10292807 original size:21 final size:19
Alignment explanation
Indices: 10292782--10292826 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
10292772 TCAATATAAA
10292782 TTTTAAAATTATTATTAT-TAT
1 TTTTAAAA-TA-T-TTATGTAT
10292803 TTTTAAAATATTTATGTAT
1 TTTTAAAATATTTATGTAT
10292822 TTTTA
1 TTTTA
10292827 TACATTTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.17
19 9 0.39
20 2 0.09
21 8 0.35
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (19 bp):
TTTTAAAATATTTATGTAT
Found at i:10296462 original size:16 final size:15
Alignment explanation
Indices: 10296436--10296465 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
10296426 CTACATACAC
10296436 AAAGTTGTTCTTTGA
1 AAAGTTGTTCTTTGA
10296451 AAAGTATGTTCTTTG
1 AAAGT-TGTTCTTTG
10296466 CTTGCGAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.27, C:0.07, G:0.20, T:0.47
Consensus pattern (15 bp):
AAAGTTGTTCTTTGA
Found at i:10298271 original size:2 final size:2
Alignment explanation
Indices: 10298264--10298296 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
10298254 TCCAACGGTA
*
10298264 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10298297 AAAGGCCCCC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10298372 original size:21 final size:22
Alignment explanation
Indices: 10298330--10298387 Score: 73
Period size: 21 Copynumber: 2.7 Consensus size: 22
10298320 CACAAAAGTC
*
10298330 CTCTCATAGTTCTCTCCAAATT
1 CTCTCAAAGTTCTCTCCAAATT
*
10298352 CTCTCAAATTTCTCT-CAAATT
1 CTCTCAAAGTTCTCTCCAAATT
* *
10298373 TTCTCAAAGCTCTCT
1 CTCTCAAAGTTCTCT
10298388 TTAATTTTTG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
21 18 0.58
22 13 0.42
ACGTcount: A:0.24, C:0.31, G:0.03, T:0.41
Consensus pattern (22 bp):
CTCTCAAAGTTCTCTCCAAATT
Found at i:10298377 original size:12 final size:11
Alignment explanation
Indices: 10298339--10298380 Score: 61
Period size: 11 Copynumber: 3.9 Consensus size: 11
10298329 CCTCTCATAG
10298339 TTCTCTCCAAA-
1 TTCTCT-CAAAT
10298350 TTCTCTCAAAT
1 TTCTCTCAAAT
10298361 TTCTCTCAAAT
1 TTCTCTCAAAT
10298372 TT-TCTCAAA
1 TTCTCTCAAA
10298381 GCTCTCTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
10 11 0.37
11 19 0.63
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.43
Consensus pattern (11 bp):
TTCTCTCAAAT
Found at i:10300191 original size:18 final size:18
Alignment explanation
Indices: 10300168--10300210 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
10300158 TGCCAGGTGC
*
10300168 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
10300186 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
10300204 GTTTCCT
1 GTATCCT
10300211 TTTCCGAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.28, G:0.09, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:10300390 original size:22 final size:23
Alignment explanation
Indices: 10300365--10300409 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
10300355 CTATTGCCTT
10300365 ATGGG-ATACAAACACCTCTGCC
1 ATGGGAATACAAACACCTCTGCC
*
10300387 ATGGGTAATGCAAACACCTCTGC
1 ATGGG-AATACAAACACCTCTGC
10300410 ATTCATTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 5 0.25
24 15 0.75
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.20
Consensus pattern (23 bp):
ATGGGAATACAAACACCTCTGCC
Found at i:10300506 original size:21 final size:21
Alignment explanation
Indices: 10300468--10300507 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
10300458 ATCCCTTGCC
* * *
10300468 GGAGGAACCACGATCCCTATT
1 GGAGCAACCACAACCCCTATT
10300489 GGAGCAACCACAACCCCTA
1 GGAGCAACCACAACCCCTA
10300508 CTGAAAGCTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.35, G:0.20, T:0.12
Consensus pattern (21 bp):
GGAGCAACCACAACCCCTATT
Found at i:10310233 original size:24 final size:24
Alignment explanation
Indices: 10310187--10310234 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
10310177 TAATAGTTAT
**
10310187 AAACCATAATAATAATTTTATATA
1 AAACCATAATAATAATTAAATATA
*
10310211 AAACCATGATAATAATTAAATATA
1 AAACCATAATAATAATTAAATATA
10310235 TATAATACAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.33
Consensus pattern (24 bp):
AAACCATAATAATAATTAAATATA
Found at i:10312266 original size:41 final size:41
Alignment explanation
Indices: 10312221--10312305 Score: 125
Period size: 41 Copynumber: 2.1 Consensus size: 41
10312211 CTTTCTATCA
* * * *
10312221 GTGATTTATATTAGGATCTGCGCCTAGTAGGCTTCGTGTTG
1 GTGATTTATATCAGGATCTACGCCTAGCAGGCTTCGTGTCG
*
10312262 GTGATTTATATCAGGCTCTACGCCTAGCAGGCTTCGTGTCG
1 GTGATTTATATCAGGATCTACGCCTAGCAGGCTTCGTGTCG
10312303 GTG
1 GTG
10312306 CAATTGTATC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.16, C:0.19, G:0.29, T:0.35
Consensus pattern (41 bp):
GTGATTTATATCAGGATCTACGCCTAGCAGGCTTCGTGTCG
Found at i:10312329 original size:42 final size:41
Alignment explanation
Indices: 10312242--10312337 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 41
10312232 TAGGATCTGC
* * * *
10312242 GCCTAGTAGGCTTCGTGTTGGTGATTTATATCAGGCTCTAC
1 GCCTAGCAGGCTTCGTGTCGGTGAATTATATCAGGCTCTAA
*
10312283 GCCTAGCAGGCTTCGTGTCGGTGCAATTGTATCAGGC-CTCAA
1 GCCTAGCAGGCTTCGTGTCGGTG-AATTATATCAGGCTCT-AA
*
10312325 GCCTAGCAAGCTT
1 GCCTAGCAGGCTT
10312338 TGTTTCAGTG
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
41 23 0.49
42 24 0.51
ACGTcount: A:0.19, C:0.24, G:0.27, T:0.30
Consensus pattern (41 bp):
GCCTAGCAGGCTTCGTGTCGGTGAATTATATCAGGCTCTAA
Found at i:10314442 original size:26 final size:26
Alignment explanation
Indices: 10314413--10314467 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
10314403 TTTAATTCTT
* *
10314413 TTATTTATCT-ATTTACTTTACATTCA
1 TTATTCATCTCATTT-CATTACATTCA
*
10314439 TTATTCATTTCATTTCATTACATTCA
1 TTATTCATCTCATTTCATTACATTCA
10314465 TTA
1 TTA
10314468 CTTGAAAAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 21 0.84
27 4 0.16
ACGTcount: A:0.27, C:0.16, G:0.00, T:0.56
Consensus pattern (26 bp):
TTATTCATCTCATTTCATTACATTCA
Found at i:10314539 original size:17 final size:18
Alignment explanation
Indices: 10314526--10314685 Score: 104
Period size: 18 Copynumber: 8.9 Consensus size: 18
10314516 TAATCTTCAA
10314526 TGATATGCAATCTTAGATG
1 TGATATGCAATCTTAGA-G
10314545 TGATATGCAATCTTAGA-
1 TGATATGCAATCTTAGAG
* *
10314562 T-ATGATACAATCTTAGATA
1 TGAT-ATGCAATCTTAGA-G
*
10314581 TGAT-TGCAATCTTAGATA
1 TGATATGCAATCTTAGA-G
10314599 TGAT-TGCAATCTTAGA-
1 TGATATGCAATCTTAGAG
*
10314615 T-ATGATACAATCTTAGA-
1 TGAT-ATGCAATCTTAGAG
* * *
10314632 T-ATGATACAATATTAGATA
1 TGAT-ATGCAATCTTAGA-G
*
10314651 TGAT-TGCAATCTTAGATA
1 TGATATGCAATCTTAGA-G
*
10314669 TGATATACAATCTTAGA
1 TGATATGCAATCTTAGA
10314686 AGATATGATT
Statistics
Matches: 124, Mismatches: 7, Indels: 20
0.82 0.05 0.13
Matches are distributed among these distances:
15 2 0.02
16 3 0.02
17 40 0.32
18 45 0.36
19 30 0.24
20 4 0.03
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.37
Consensus pattern (18 bp):
TGATATGCAATCTTAGAG
Found at i:10314595 original size:35 final size:35
Alignment explanation
Indices: 10314533--10314685 Score: 227
Period size: 35 Copynumber: 4.3 Consensus size: 35
10314523 CAATGATATG
*
10314533 CAATCTTAGATGTGATATGCAATCTTAGATATGATA
1 CAATCTTAGATATGAT-TGCAATCTTAGATATGATA
*
10314569 CAATCTTAGATATGATTGCAATCTTAGATATGATTG
1 CAATCTTAGATATGATTGCAATCTTAGATATGA-TA
*
10314605 CAATCTTAGATATGA-TACAATCTTAGATATGATA
1 CAATCTTAGATATGATTGCAATCTTAGATATGATA
*
10314639 CAATATTAGATATGATTGCAATCTTAGATATGATATA
1 CAATCTTAGATATGATTGCAATCTTAGATATG--ATA
10314676 CAATCTTAGA
1 CAATCTTAGA
10314686 AGATATGATT
Statistics
Matches: 106, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
34 15 0.14
35 48 0.45
36 31 0.29
37 12 0.11
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (35 bp):
CAATCTTAGATATGATTGCAATCTTAGATATGATA
Found at i:10314639 original size:70 final size:72
Alignment explanation
Indices: 10314525--10314685 Score: 272
Period size: 70 Copynumber: 2.2 Consensus size: 72
10314515 ATAATCTTCA
* *
10314525 ATGATATGCAATCTTAGATGTGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAA
1 ATGATATGCAATCTTAGATATGATA-GCAATCTTAGATATGATACAATATTAGATATGATTGCAA
10314590 TCTTAGAT
65 TCTTAGAT
10314598 ATGAT-TGCAATCTTAGATATGATA-CAATCTTAGATATGATACAATATTAGATATGATTGCAAT
1 ATGATATGCAATCTTAGATATGATAGCAATCTTAGATATGATACAATATTAGATATGATTGCAAT
10314661 CTTAGAT
66 CTTAGAT
*
10314668 ATGATATACAATCTTAGA
1 ATGATATGCAATCTTAGA
10314686 AGATATGATT
Statistics
Matches: 84, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
70 50 0.60
71 11 0.13
72 18 0.21
73 5 0.06
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.37
Consensus pattern (72 bp):
ATGATATGCAATCTTAGATATGATAGCAATCTTAGATATGATACAATATTAGATATGATTGCAAT
CTTAGAT
Found at i:10320586 original size:28 final size:27
Alignment explanation
Indices: 10320527--10320586 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 27
10320517 TATATTTGGA
*
10320527 AAAATTTATAAATATTTTTAATGAAAT
1 AAAATTTATAAATATTTATAATGAAAT
*
10320554 AAAATTT-TAAATATATATATAATTAAAT
1 AAAATTTATAAATAT-T-TATAATGAAAT
10320582 AAAAT
1 AAAAT
10320587 AATATTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 7 0.24
27 8 0.28
28 14 0.48
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (27 bp):
AAAATTTATAAATATTTATAATGAAAT
Found at i:10334083 original size:33 final size:33
Alignment explanation
Indices: 10334022--10334085 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
10334012 CGTAATCACT
* **
10334022 GTTTCTGACATTACTGAAAATTGAGTTGTTACA
1 GTTTCTGACATCACTGAAAACCGAGTTGTTACA
*
10334055 GTTTCTGACATCACTGAAAACCGGGTTGTTA
1 GTTTCTGACATCACTGAAAACCGAGTTGTTA
10334086 TATACACTGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (33 bp):
GTTTCTGACATCACTGAAAACCGAGTTGTTACA
Found at i:10338229 original size:13 final size:13
Alignment explanation
Indices: 10338211--10338237 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10338201 GTTTTATTCA
10338211 TTTTTTCTTTATT
1 TTTTTTCTTTATT
10338224 TTTTTTCTTTATT
1 TTTTTTCTTTATT
10338237 T
1 T
10338238 GATTGGTATA
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:0.07, C:0.07, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTTCTTTATT
Found at i:10340034 original size:15 final size:15
Alignment explanation
Indices: 10340014--10340043 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10340004 CCACTCGCCC
10340014 AAACTTAAGTAACAA
1 AAACTTAAGTAACAA
*
10340029 AAACTTAATTAACAA
1 AAACTTAAGTAACAA
10340044 CACTATCTTT
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:0.60, C:0.13, G:0.03, T:0.23
Consensus pattern (15 bp):
AAACTTAAGTAACAA
Found at i:10344088 original size:12 final size:12
Alignment explanation
Indices: 10344071--10344096 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
10344061 GAGTAACAAT
10344071 ATAACAAATACA
1 ATAACAAATACA
10344083 ATAACAAATACA
1 ATAACAAATACA
10344095 AT
1 AT
10344097 GCGTAGCATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.65, C:0.15, G:0.00, T:0.19
Consensus pattern (12 bp):
ATAACAAATACA
Found at i:10344636 original size:19 final size:19
Alignment explanation
Indices: 10344599--10344636 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
10344589 TTAATTAGGT
*
10344599 TTTAATTAGATGAATTTAG
1 TTTAATTAGATGAAATTAG
10344618 TTTAATTAAGA-GAAATTAG
1 TTTAATT-AGATGAAATTAG
10344637 AAAAAAAGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (19 bp):
TTTAATTAGATGAAATTAG
Found at i:10344966 original size:30 final size:32
Alignment explanation
Indices: 10344900--10344971 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 32
10344890 AAATGAGTAC
10344900 ATTTGTATTATTTATATATAATTAGTAAAAAGAT
1 ATTT-TATTATTTATATATAATTAGT-AAAAGAT
*
10344934 ATTTTATTATTTAT-TATTAATTAGTAAAATAT
1 ATTTTATTATTTATATA-TAATTAGTAAAAGAT
10344966 -TTTTAT
1 ATTTTAT
10344972 ATGATAAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
31 6 0.17
32 8 0.22
33 18 0.50
34 4 0.11
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (32 bp):
ATTTTATTATTTATATATAATTAGTAAAAGAT
Found at i:10345050 original size:23 final size:23
Alignment explanation
Indices: 10345024--10345067 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
10345014 AAAATACAAA
10345024 TGTAAAATATATATGTGTACATT
1 TGTAAAATATATATGTGTACATT
* * *
10345047 TGTAATATTTATATTTGTACA
1 TGTAAAATATATATGTGTACA
10345068 AAAGACCACA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.36, C:0.05, G:0.11, T:0.48
Consensus pattern (23 bp):
TGTAAAATATATATGTGTACATT
Found at i:10353805 original size:19 final size:20
Alignment explanation
Indices: 10353760--10353805 Score: 51
Period size: 19 Copynumber: 2.3 Consensus size: 20
10353750 AGATGTGTTT
10353760 AATTAGGTTGTAATTAGATGA
1 AATTA-GTTGTAATTAGATGA
*
10353781 ATTTAGTT-TAATTAAGA-GA
1 AATTAGTTGTAATT-AGATGA
10353800 AATTAG
1 AATTAG
10353806 AAAAAAAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 12 0.55
20 6 0.27
21 4 0.18
ACGTcount: A:0.41, C:0.00, G:0.20, T:0.39
Consensus pattern (20 bp):
AATTAGTTGTAATTAGATGA
Found at i:10354112 original size:33 final size:32
Alignment explanation
Indices: 10354066--10354137 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 32
10354056 AAATGAGTAC
10354066 ATTTGTATTATTTA-TATATAATTAGTAAAAAGAT
1 ATTT-TATTATTTATTAT-TAATTAGT-AAAAGAT
10354100 ATTTTATTATTTATTATTAATTAGTAAAAGAT
1 ATTTTATTATTTATTATTAATTAGTAAAAGAT
10354132 -TTTTAT
1 ATTTTAT
10354138 ATGATAAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
31 6 0.16
32 7 0.19
33 17 0.46
34 7 0.19
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (32 bp):
ATTTTATTATTTATTATTAATTAGTAAAAGAT
Found at i:10360118 original size:27 final size:27
Alignment explanation
Indices: 10360062--10360161 Score: 114
Period size: 28 Copynumber: 3.6 Consensus size: 27
10360052 CACGAAAACT
* *
10360062 AAGAATAGCCCTTATGGCT-AACTCTAGA
1 AAGAATAGCCTTTGTGG-TGAACTCT-GA
10360090 AAGAATAGCCTTTGTGGTGAACTCTGAA
1 AAGAATAGCCTTTGTGGTGAACTCTG-A
* *
10360118 AAGAATAGCCTTTGTGGGGAACTTTGA
1 AAGAATAGCCTTTGTGGTGAACTCTGA
10360145 AAGGAAT-GCCTTTGTGG
1 AA-GAATAGCCTTTGTGG
10360162 CAAATTCTGA
Statistics
Matches: 65, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
27 15 0.23
28 50 0.77
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (27 bp):
AAGAATAGCCTTTGTGGTGAACTCTGA
Found at i:10362468 original size:2 final size:2
Alignment explanation
Indices: 10362461--10362515 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
10362451 TGTTTTTCAA
10362461 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10362503 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
10362516 AGAAGATAAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10370102 original size:19 final size:19
Alignment explanation
Indices: 10370054--10370108 Score: 94
Period size: 18 Copynumber: 2.9 Consensus size: 19
10370044 ATAATCTTCA
10370054 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
10370073 ATGAT-TGCAATCTTAGGT
1 ATGATATGCAATCTTAGAT
10370091 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
10370109 AGATATGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
18 17 0.52
19 16 0.48
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:10370421 original size:18 final size:19
Alignment explanation
Indices: 10370398--10370434 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
10370388 TGTTTCCCTG
*
10370398 ATTTTTTTATAT-ATTTTA
1 ATTTTTTTAAATAATTTTA
10370416 ATTTTTTTAAATAATTTTA
1 ATTTTTTTAAATAATTTTA
10370435 GTATCATATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
ATTTTTTTAAATAATTTTA
Found at i:10373943 original size:26 final size:26
Alignment explanation
Indices: 10373912--10374123 Score: 334
Period size: 26 Copynumber: 8.2 Consensus size: 26
10373902 TGAAATGCCC
*
10373912 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
10373938 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
10373964 ATCATGAAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
10373990 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
10374016 ATCATGAAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
10374042 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
10374068 ATCATGAAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
10374094 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
10374120 ATCA
1 ATCA
10374124 ATTTGTACCA
Statistics
Matches: 167, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 167 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:10373989 original size:52 final size:52
Alignment explanation
Indices: 10373912--10374123 Score: 397
Period size: 52 Copynumber: 4.1 Consensus size: 52
10373902 TGAAATGCCC
* * *
10373912 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGAAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
10373964 ATCATGAAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGAAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
10374016 ATCATGAAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGAAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
10374068 ATCATGAAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGAAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
10374120 ATCA
1 ATCA
10374124 ATTTGTACCA
Statistics
Matches: 157, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 157 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.33
Consensus pattern (52 bp):
ATCATGAAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
Found at i:10381606 original size:26 final size:26
Alignment explanation
Indices: 10381570--10381679 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
10381560 TGATACAAAT
10381570 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
*
10381596 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
10381622 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
10381648 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
10381674 TGATAA
1 TGATAA
10381680 GAATTTCATG
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
26 78 0.98
27 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:10383163 original size:28 final size:26
Alignment explanation
Indices: 10383121--10383195 Score: 78
Period size: 26 Copynumber: 2.8 Consensus size: 26
10383111 AAAAGTAGCT
* * *
10383121 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTGTTATACCCCTA-G-ATGCA
* *
10383149 AAATTACTGTTATACACCTAGGTGCA
1 AAATTACTGTTATACCCCTAGATGCA
*
10383175 AAATTACCGTTATACCCCTAG
1 AAATTACTGTTATACCCCTAG
10383196 GGTTAATTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 22 0.55
27 1 0.03
28 17 0.43
ACGTcount: A:0.36, C:0.21, G:0.12, T:0.31
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTAGATGCA
Found at i:10383340 original size:27 final size:27
Alignment explanation
Indices: 10383299--10383411 Score: 120
Period size: 27 Copynumber: 4.2 Consensus size: 27
10383289 GAGAAAGCGT
*
10383299 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
10383326 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
10383353 TCTGGTGGCTCTACCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
10383381 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
10383407 TCTGG
1 TCTGG
10383412 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
26 5 0.07
27 54 0.74
28 14 0.19
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:10383404 original size:54 final size:54
Alignment explanation
Indices: 10383297--10383411 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
10383287 TGGAGAAAGC
* *
10383297 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATACCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * * *
10383351 GTTCTGGTGGCTCTACCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATACCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
10383405 GTTCTGG
1 GTTCTGG
10383412 CAGCCATGCT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 36 0.67
55 18 0.33
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATACCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:10385542 original size:16 final size:16
Alignment explanation
Indices: 10385520--10385573 Score: 58
Period size: 15 Copynumber: 3.4 Consensus size: 16
10385510 TAAATTAGAA
*
10385520 GAAAATTTA-AAAGAT
1 GAAAAATTAGAAAGAT
* *
10385535 GAAAAATTATAAGGAT
1 GAAAAATTAGAAAGAT
10385551 AGAAAAA-TAGAAAGAT
1 -GAAAAATTAGAAAGAT
10385567 GAAAAAT
1 GAAAAAT
10385574 ATAATTTTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
15 14 0.44
16 12 0.38
17 6 0.19
ACGTcount: A:0.63, C:0.00, G:0.17, T:0.20
Consensus pattern (16 bp):
GAAAAATTAGAAAGAT
Found at i:10391796 original size:3 final size:3
Alignment explanation
Indices: 10391788--10391818 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
10391778 TTACTAAACA
10391788 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
10391819 CATGTAACGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:10393472 original size:32 final size:34
Alignment explanation
Indices: 10393391--10393473 Score: 98
Period size: 34 Copynumber: 2.5 Consensus size: 34
10393381 GATTTTGTGC
* * *
10393391 TGCATATCTGTTACTGAGATGGGCTAAGGCCCTAA
1 TGCATA-CTGATACTGAAATGGGCTAAGGCCCAAA
* *
10393426 TGCTTACTGTTACTGAAATGGGCTAAGG-CCAAA
1 TGCATACTGATACTGAAATGGGCTAAGGCCCAAA
10393459 TG-ATACTGATACTGA
1 TGCATACTGATACTGA
10393474 TATTAAAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
32 11 0.26
33 6 0.14
34 21 0.49
35 5 0.12
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (34 bp):
TGCATACTGATACTGAAATGGGCTAAGGCCCAAA
Found at i:10395580 original size:33 final size:33
Alignment explanation
Indices: 10395529--10395591 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
10395519 TTGTCAATTT
* *
10395529 AAAGGTGGTAACGGGTTTGGCTGTGGTCAGGTC
1 AAAGGTGGTAACGAGTTTGGCCGTGGTCAGGTC
* *
10395562 AAAGGTGGTGATGAGTTTGGCCGTGGTCAG
1 AAAGGTGGTAACGAGTTTGGCCGTGGTCAG
10395592 AGAGCACCAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.19, C:0.11, G:0.43, T:0.27
Consensus pattern (33 bp):
AAAGGTGGTAACGAGTTTGGCCGTGGTCAGGTC
Found at i:10399917 original size:19 final size:19
Alignment explanation
Indices: 10399889--10399934 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
10399879 ACAGGTGAAA
*
10399889 CACACAGGGTGTCCCTAAG
1 CACACGGGGTGTCCCTAAG
10399908 CACACGGGGTGTCCCTAAG
1 CACACGGGGTGTCCCTAAG
10399927 CACACGGG
1 CACACGGG
10399935 TATGTGAGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.24, C:0.33, G:0.30, T:0.13
Consensus pattern (19 bp):
CACACGGGGTGTCCCTAAG
Found at i:10403963 original size:20 final size:20
Alignment explanation
Indices: 10403940--10403985 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
10403930 ATTAAAAGTA
*
10403940 TTAAAATTTAATAATAATAT
1 TTAAAATTTAATAAAAATAT
* *
10403960 TTAAAATTTATTAAAAATTT
1 TTAAAATTTAATAAAAATAT
10403980 TTAAAA
1 TTAAAA
10403986 AAATTAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
TTAAAATTTAATAAAAATAT
Found at i:10403975 original size:10 final size:10
Alignment explanation
Indices: 10403923--10403985 Score: 51
Period size: 9 Copynumber: 6.4 Consensus size: 10
10403913 CATGCGGCAA
*
10403923 AAAAATTATT
1 AAAATTTATT
*
10403933 AAAA-GTATT
1 AAAATTTATT
*
10403942 AAAATTTAAT
1 AAAATTTATT
*
10403952 AATAATAT-TT
1 AA-AATTTATT
10403962 AAAATTTATT
1 AAAATTTATT
10403972 AAAAATTT-TT
1 -AAAATTTATT
10403982 AAAA
1 AAAA
10403986 AAATTAAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 9
0.74 0.10 0.16
Matches are distributed among these distances:
9 16 0.37
10 16 0.37
11 11 0.26
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (10 bp):
AAAATTTATT
Found at i:10404003 original size:19 final size:19
Alignment explanation
Indices: 10403981--10404066 Score: 57
Period size: 19 Copynumber: 4.3 Consensus size: 19
10403971 TAAAAATTTT
10403981 TAAAAAAATTAAAAAATCA
1 TAAAAAAATTAAAAAATCA
* * **
10404000 TAAAAAAATATATAAGATTT
1 TAAAAAAAT-TAAAAAATCA
**
10404020 TATAAAATTTTATAAAAATCA
1 TA-AAAAAATTA-AAAAATCA
*
10404041 T-AAAAAATTATAAAATGCA
1 TAAAAAAATTAAAAAAT-CA
10404060 TCAAAAA
1 T-AAAAA
10404067 TGTGCTTTAA
Statistics
Matches: 48, Mismatches: 13, Indels: 10
0.68 0.18 0.14
Matches are distributed among these distances:
18 5 0.10
19 19 0.40
20 10 0.21
21 14 0.29
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.29
Consensus pattern (19 bp):
TAAAAAAATTAAAAAATCA
Found at i:10404010 original size:51 final size:50
Alignment explanation
Indices: 10403955--10404055 Score: 116
Period size: 51 Copynumber: 2.0 Consensus size: 50
10403945 ATTTAATAAT
*
10403955 AATATTTAAAA-TTTATTAAAAATTTTTAAAAAAAT-TAAAAAATCATAAAAA
1 AATATATAAAATTTTA-T-AAAA-TTTTAAAAAAATATAAAAAATCATAAAAA
* * *
10404006 AATATATAAGATTTTATAAAATTTTATAAAAATCATAAAAAATTATAAAA
1 AATATATAAAATTTTATAAAATTTTAAAAAAAT-ATAAAAAATCATAAAA
10404056 TGCATCAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
49 11 0.26
50 4 0.09
51 24 0.56
52 4 0.09
ACGTcount: A:0.61, C:0.02, G:0.01, T:0.36
Consensus pattern (50 bp):
AATATATAAAATTTTATAAAATTTTAAAAAAATATAAAAAATCATAAAAA
Found at i:10404067 original size:19 final size:19
Alignment explanation
Indices: 10403983--10404055 Score: 67
Period size: 19 Copynumber: 3.7 Consensus size: 19
10403973 AAAATTTTTA
10403983 AAAAAATTA-AAAAATCAT
1 AAAAAATTATAAAAATCAT
** *
10404001 AAAAAAATATATAAGATTTTAT
1 -AAAAAAT-TATAA-AAATCAT
**
10404023 AAAATTTTATAAAAATCAT
1 AAAAAATTATAAAAATCAT
10404042 AAAAAATTATAAAA
1 AAAAAATTATAAAA
10404056 TGCATCAAAA
Statistics
Matches: 41, Mismatches: 10, Indels: 6
0.72 0.18 0.11
Matches are distributed among these distances:
19 23 0.56
20 7 0.17
21 7 0.17
22 4 0.10
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (19 bp):
AAAAAATTATAAAAATCAT
Found at i:10404375 original size:11 final size:12
Alignment explanation
Indices: 10404351--10404386 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
10404341 CTTTCTACGA
10404351 TTTTTATAATTT
1 TTTTTATAATTT
*
10404363 TTTTTCTAATTT
1 TTTTTATAATTT
*
10404375 TTTTTAAAATTT
1 TTTTTATAATTT
10404387 AAGTATTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (12 bp):
TTTTTATAATTT
Found at i:10421069 original size:3 final size:3
Alignment explanation
Indices: 10421056--10421138 Score: 59
Period size: 3 Copynumber: 27.3 Consensus size: 3
10421046 GAGGGCATAT
10421056 ATA AT- ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA ATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA ATA
* *
10421100 ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA ATA A
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
10421139 AACAAACTCT
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
2 9 0.14
3 45 0.69
4 9 0.14
5 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:10421078 original size:12 final size:12
Alignment explanation
Indices: 10421054--10421135 Score: 69
Period size: 12 Copynumber: 6.5 Consensus size: 12
10421044 GAGAGGGCAT
10421054 ATATAATATAATA
1 ATATAA-ATAATA
10421067 ATATAAATAATA
1 ATATAAATAATA
10421079 ATATATACATGAGA-A
1 ATATA-A-AT-A-ATA
10421094 ATA-ATAATAATA
1 ATATA-AATAATA
10421106 ATATAAATAATA
1 ATATAAATAATA
* *
10421118 GTAAAAATAATA
1 ATATAAATAATA
*
10421130 AAATAA
1 ATATAA
10421136 TAAAACAAAC
Statistics
Matches: 58, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
11 1 0.02
12 36 0.62
13 10 0.17
14 5 0.09
15 5 0.09
16 1 0.02
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (12 bp):
ATATAAATAATA
Found at i:10421097 original size:21 final size:18
Alignment explanation
Indices: 10421056--10421138 Score: 73
Period size: 18 Copynumber: 4.6 Consensus size: 18
10421046 GAGGGCATAT
*
10421056 ATAAT-ATAATAATATAA
1 ATAATAATAATAATAGAA
10421073 ATAATAATATATACATGAGAA
1 ATAATAATA-ATA-AT-AGAA
*
10421094 ATAATAATAATAATATAA
1 ATAATAATAATAATAGAA
* *
10421112 ATAATAGTAAAAATA-ATA
1 ATAATAATAATAATAGA-A
10421130 A-AATAATAA
1 ATAATAATAA
10421139 AACAAACTCT
Statistics
Matches: 56, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
17 13 0.23
18 21 0.38
19 5 0.09
20 5 0.09
21 12 0.21
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (18 bp):
ATAATAATAATAATAGAA
Found at i:10421126 original size:27 final size:27
Alignment explanation
Indices: 10421054--10421139 Score: 74
Period size: 27 Copynumber: 3.3 Consensus size: 27
10421044 GAGAGGGCAT
* *
10421054 ATATAATATAATAATATAAATAATAAT-
1 ATATAA-ATAATAGTAAAAATAATAATA
* *
10421081 ATATACAT--GAG-AAATAATAATAATA
1 ATATAAATAATAGTAAA-AATAATAATA
10421106 ATATAAATAATAGTAAAAATAATAA-A
1 ATATAAATAATAGTAAAAATAATAATA
10421132 ATAATAAA
1 AT-ATAAA
10421140 ACAAACTCTC
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
23 2 0.04
24 10 0.21
25 7 0.15
26 5 0.11
27 20 0.43
28 3 0.06
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.30
Consensus pattern (27 bp):
ATATAAATAATAGTAAAAATAATAATA
Found at i:10421491 original size:22 final size:23
Alignment explanation
Indices: 10421463--10421513 Score: 79
Period size: 21 Copynumber: 2.3 Consensus size: 23
10421453 TAACCTTCTT
10421463 TCCAAAAAAACAAAAAAA-CACC
1 TCCAAAAAAACAAAAAAACCACC
*
10421485 TCC-AAAAAACAAAAAAACCTCC
1 TCCAAAAAAACAAAAAAACCACC
10421507 TCCAAAA
1 TCCAAAA
10421514 CAAAGAACAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 14 0.54
22 9 0.35
23 3 0.12
ACGTcount: A:0.63, C:0.29, G:0.00, T:0.08
Consensus pattern (23 bp):
TCCAAAAAAACAAAAAAACCACC
Found at i:10421536 original size:23 final size:20
Alignment explanation
Indices: 10421469--10421536 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 20
10421459 TCTTTCCAAA
*
10421469 AAAACAAAAAAA-CACCTCC
1 AAAACAAAAAAACCTCCTCC
10421488 AAAAAACAAAAAAACCTCCTCC
1 --AAAACAAAAAAACCTCCTCC
*
10421510 AAAACAAAGAACAATCCTTCTCC
1 AAAACAAA-AA-AA-CCTCCTCC
10421533 AAAA
1 AAAA
10421537 AACCAAAAAC
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
20 8 0.20
21 14 0.34
22 8 0.20
23 11 0.27
ACGTcount: A:0.59, C:0.29, G:0.01, T:0.10
Consensus pattern (20 bp):
AAAACAAAAAAACCTCCTCC
Found at i:10422103 original size:44 final size:44
Alignment explanation
Indices: 10422055--10422783 Score: 560
Period size: 44 Copynumber: 16.6 Consensus size: 44
10422045 TCTTCGATCC
*
10422055 GTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTT
1 GTTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAACTT
* * *
10422099 GTTCCCTATAAGCACAGGGATGCC--ATGCTGAAATCTTTGATC-T
1 GTTCCCTATAAGCACAGGGATGCCAAAT-CTGATAT-TTTCAACTT
* * * ** * * * *
10422142 GCTTCACTGTAAGCACAGGAATGTTAGATCTGTTATCTTT-GATTT
1 G-TTCCCTATAAGCACAGGGATGCCAAATCTGATAT-TTTCAACTT
*
10422187 GTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTT
1 GTTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAACTT
* * *
10422231 GTTCCCTATAAGCACAGGGATGCC--ATGCTGAAATCTTTGATC-T
1 GTTCCCTATAAGCACAGGGATGCCAAAT-CTGATAT-TTTCAACTT
* * * * * * * * *
10422274 GCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTT
1 G-TTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAACTT
*
10422319 GTTCCCTATAAGCACAGGGATGCCAAATCT-ACTGTTTTCAACTT
1 GTTCCCTATAAGCACAGGGATGCCAAATCTGA-TATTTTCAACTT
* * *
10422363 GTTCCCTATAAGCACAGGGATGCC--ATGCTGAAATCTTTGATC-T
1 GTTCCCTATAAGCACAGGGATGCCAAAT-CTGATAT-TTTCAACTT
* * * * * * * * *
10422406 GCTTCACTGTAAGCACAGGAATGTCAGATCTGTTATCTTCGATTT
1 G-TTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAACTT
* *
10422451 GTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTT
1 GTTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAACTT
* * *
10422495 GTTCCCTATAAGCACAGGGATGCC--ATGCTGAAATCTTCGA-TCT
1 GTTCCCTATAAGCACAGGGATGCCAAAT-CTGATATTTTCAACT-T
* * * * * * * *
10422538 GCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA-TCT
1 G-TTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAACT-T
* *
10422583 GTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTT
1 GTTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAACTT
* * *
10422627 GTTCCCTATAAGCACAGGGATGCC--ATGCTGAAATCTTTGATC-T
1 GTTCCCTATAAGCACAGGGATGCCAAAT-CTGATAT-TTTCAACTT
* * * * * * *
10422670 GCTTCACC-GTAAGCACAGGGATGTCAGATCTGCTATCTTCGATTT
1 G-TTC-CCTATAAGCACAGGGATGCCAAATCTGATATTTTCAACTT
* *
10422715 GTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTT
1 GTTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAACTT
10422759 GTTCCCTATAAGCACAGGGATGCCA
1 GTTCCCTATAAGCACAGGGATGCCA
10422784 TGCTGAAATC
Statistics
Matches: 536, Mismatches: 114, Indels: 70
0.74 0.16 0.10
Matches are distributed among these distances:
42 11 0.02
43 40 0.07
44 425 0.79
45 50 0.09
46 10 0.02
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (44 bp):
GTTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAACTT
Found at i:10422236 original size:132 final size:132
Alignment explanation
Indices: 10421999--10422842 Score: 1519
Period size: 132 Copynumber: 6.4 Consensus size: 132
10421989 GATATCCGCT
* * * **
10421999 ATCTTTGATCTGTTTCACTGTAAGCACAGGAATGTCAGATTTACTATCTTCGATCCGTTCCCTAT
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
10422064 AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
66 AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
10422129 AA
131 AA
* * *
10422131 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTTAGATCTGTTATCTTTGATTTGTTCCCTAT
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
10422196 AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
66 AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
10422261 AA
131 AA
10422263 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
10422328 AAGCACAGGGATGCCAAATCT-ACTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCT
66 AAGCACAGGGATGCCAAATCTGA-TGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCT
10422392 GAA
130 GAA
*
10422395 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGTTATCTTCGATTTGTTCCCTAT
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
*
10422460 AAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
66 AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
10422525 AA
131 AA
* *
10422527 ATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTAT
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
*
10422592 AAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
66 AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
10422657 AA
131 AA
* *
10422659 ATCTTTGATCTGCTTCACCGTAAGCACAGGGATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
*
10422724 AAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
66 AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
10422789 AA
131 AA
*
10422791 ATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
10422843 GTCTGCTCCT
Statistics
Matches: 687, Mismatches: 23, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
131 1 0.00
132 686 1.00
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (132 bp):
ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
AA
Found at i:10422977 original size:68 final size:68
Alignment explanation
Indices: 10422895--10423093 Score: 294
Period size: 68 Copynumber: 2.9 Consensus size: 68
10422885 TCTTCTTCCA
* * * * *
10422895 CTGAAACTTCAAGGAGGTCTGCTGTGGCTTTTAGCCTCTCCAATGCCATTTCTGGAAGAAGAGGT
1 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAGAT
*
10422960 -TT
66 CCT
* *
10422962 GCTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGAAGAAAAGA
1 -CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAGA
10423027 TCCT
65 TCCT
*
10423031 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGGA-AAAAGA
1 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAGA
10423094 AATTTGTAAT
Statistics
Matches: 119, Mismatches: 11, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
67 6 0.05
68 112 0.94
69 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (68 bp):
CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAGAT
CCT
Found at i:10423260 original size:88 final size:88
Alignment explanation
Indices: 10423165--10424057 Score: 433
Period size: 87 Copynumber: 10.2 Consensus size: 88
10423155 CTATTTCCCA
* ** * * *
10423165 ACTGCTTAAGGGGTTAAGATCTGTAAATTCAACCTGTTACCCTATTGGTTAGGGGGTTAAGATTT
1 ACTGCTTAGGGGGTTAAGATCTGTAAATTCGGCCTGTTACCCTACTGCTTAGGGGGTTAAGACTT
*
10423230 GTAAATTTTCAGCCTATTACCCT
66 GTAAATTTTCAGCCTGTTACCCT
* * * * *
10423253 ACTGCTTAGGGGTTTAAGGTTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCC
1 ACTGCTTAGGGGGTTAAGATCTGTAAATTCGGCCTGTTACCCTACTGCTTAGGGGGTT-AAG-AC
* * ** * * *
10423318 AT-CATTTTTTTA-TCTGTTTCCCT
64 TTGTAAATTTTCAGCCTGTTACCCT
* * * * *
10423341 ATTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCAGTTACCCTACTGCTTAGGGGTTTAAGGC
1 ACTGCTTAGGGGGTTAAGATCTGTAAA--TTCGGCCTGTTACCCTACTGCTTAGGGGGTTAAGAC
* *
10423406 TTGTAAA--TTCGGCTTGTTACCCT
64 TTGTAAATTTTCAGCCTGTTACCCT
** * ** * ** *
10423429 ACTGCTTAGGGGGTTAAAGCCCAT-CATCTTTGATCTGTTTCCCTACTGCTTAGGGGGTTAAGA-
1 ACTGCTTAGGGGGTT-AAGATC-TGTAAATTCGGCCTGTTACCCTACTGCTTAGGGGGTTAAGAC
*
10423492 TCTGTAAATCTTCAGCCTGTTACCCT
64 T-TGTAAATTTTCAGCCTGTTACCCT
* * *
10423518 ACTGCTTAGGGGGTTAAG-GCTTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGGTTAA-AGC
1 ACTGCTTAGGGGGTTAAGATC-TGTAAATTCGGCCTGTTACCCTACTGCTTAGGGGGTTAAGA-C
*** * * * **
10423581 CCAT-CATCTTC-GATCTGTTTTCCT
64 TTGTAAATTTTCAG-CCTGTTACCCT
** ** * * *
10423605 ACTGCTTAGGGGGTTAAGATCT-TCATCTTCGATCTGTTTCCCTACTGCTTAGGGAGATAAGA-T
1 ACTGCTTAGGGGGTTAAGATCTGT-AAATTCGGCCTGTTACCCTACTGCTTAGGGGGTTAAGACT
* * *
10423668 CTG-CAA--TTCGGTCTGTTACCCT
65 -TGTAAATTTTCAGCCTGTTACCCT
* * * * * ** * * *
10423690 ACCGATTAGGGGTTTAAGACCCTTCGT--CTTCGATCTGTTTCCCTACTACTTAAGGGGTTAAGA
1 ACTGCTTAGGGGGTTAAGA-TC-T-GTAAATTCGGCCTGTTACCCTACTGCTTAGGGGGTTAAGA
*
10423753 -TCTGTAAATCTTCAGCCTGTTACCCT
63 CT-TGTAAATTTTCAGCCTGTTACCCT
* * *
10423779 ACTGCTTAGGGGGTTAAG-GCTTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGGTTAA-AGC
1 ACTGCTTAGGGGGTTAAGATC-TGTAAATTCGGCCTGTTACCCTACTGCTTAGGGGGTTAAGA-C
*** * * * *
10423842 CCAT-CATCTTC-GATCTGTTTCCCT
64 TTGTAAATTTTCAG-CCTGTTACCCT
** ** * * * *
10423866 ACTGCTTAGGGGGTTAAGATCT-TCATCTTCGATCTGTTTCCCTACTGCTTAGGGAGATGAGA-T
1 ACTGCTTAGGGGGTTAAGATCTGT-AAATTCGGCCTGTTACCCTACTGCTTAGGGGGTTAAGACT
* * *
10423929 CTG-CAA--TTCGGTCTGTTACCCT
65 -TGTAAATTTTCAGCCTGTTACCCT
* * * * * ** *
10423951 ACCGATTAGGGGTTTAAGACCCTTCGT--CTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGA
1 ACTGCTTAGGGGGTTAAGA-TC-T-GTAAATTCGGCCTGTTACCCTACTGCTTAGGGGGTTAAGA
* * *
10424014 -TCTGTAAATCTTCAGCATTTTACCCT
63 CT-TGTAAATTTTCAGCCTGTTACCCT
* *
10424040 ATTGCTTAGGGGCTTAAG
1 ACTGCTTAGGGGGTTAAG
10424058 GCTTGTGAAT
Statistics
Matches: 613, Mismatches: 146, Indels: 91
0.72 0.17 0.11
Matches are distributed among these distances:
85 57 0.09
86 84 0.14
87 170 0.28
88 169 0.28
89 104 0.17
90 29 0.05
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.36
Consensus pattern (88 bp):
ACTGCTTAGGGGGTTAAGATCTGTAAATTCGGCCTGTTACCCTACTGCTTAGGGGGTTAAGACTT
GTAAATTTTCAGCCTGTTACCCT
Found at i:10423537 original size:132 final size:132
Alignment explanation
Indices: 10423198--10424069 Score: 1115
Period size: 132 Copynumber: 6.6 Consensus size: 132
10423188 TAAATTCAAC
* * * * * *
10423198 CTGTTACCCTATTGGTTAGGGGGTTAAGATTTGTAAATTTTCAGCCTATTACCCTACTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
* * * *
10423263 GGTTTAAGGTTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATTTTTT
66 GGGTTAAGGCTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCA-TCTTC
*
10423328 TAT
130 GAT
* *
10423331 CTGTTTCCCTATTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCAGTTACCCTACTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
* *
10423396 GGTTTAAGGCTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTTG
66 GGGTTAAGGCTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCG
10423461 AT
131 AT
10423463 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
*
10423528 GGGTTAAGGCTTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCG
66 GGGTTAAGGCTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCG
10423593 AT
131 AT
* * * *
10423595 CTGTTTTCCTACTGCTTAGGGGGTTAAGATCT-T-CATCTTC-GATCTGTTTCCCTACTGCTTAG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAG-CCTGTTACCCTACTGCTTAG
* * * * * * * * *
10423657 GGAGATAA-GATCTG-CAATTCGG-TCTGTTACCCTACCGATTA-GGGGTTTAAGACCCTTCGTC
65 GGGGTTAAGGCT-TGTAAATTCGGCT-TGTTACCCTACTGCTTAGGGGGTTAAAG-CCCATCATC
10423718 TTCGAT
127 TTCGAT
* *
10423724 CTGTTTCCCTACTACTTAAGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
*
10423789 GGGTTAAGGCTTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCG
66 GGGTTAAGGCTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCG
10423854 AT
131 AT
* * *
10423856 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCT-T-CATCTTC-GATCTGTTTCCCTACTGCTTAG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAG-CCTGTTACCCTACTGCTTAG
* * * * * * * * * *
10423918 GGAGATGA-GATCTG-CAATTCGG-TCTGTTACCCTACCGATTA-GGGGTTTAAGACCCTTCGTC
65 GGGGTTAAGGCT-TGTAAATTCGGCT-TGTTACCCTACTGCTTAGGGGGTTAAAG-CCCATCATC
10423979 TTCGAT
127 TTCGAT
* * *
10423985 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCATTTTACCCTATTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
* *
10424050 GGCTTAAGGCTTGTGAATTC
66 GGGTTAAGGCTTGTAAATTC
10424070 ACTGATTCTA
Statistics
Matches: 647, Mismatches: 72, Indels: 41
0.85 0.09 0.05
Matches are distributed among these distances:
128 20 0.03
129 135 0.21
130 65 0.10
131 61 0.09
132 239 0.37
133 127 0.20
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.36
Consensus pattern (132 bp):
CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
GGGTTAAGGCTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCG
AT
Found at i:10423774 original size:261 final size:261
Alignment explanation
Indices: 10423198--10424068 Score: 1311
Period size: 261 Copynumber: 3.3 Consensus size: 261
10423188 TAAATTCAAC
* * * * * *
10423198 CTGTTACCCTATTGGTTAGGGGGTTAAGATTTGTAAATTTTCAGCCTATTACCCTACTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
* * * * *
10423263 GGTTTAAGGTTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATTTTTT
66 GGGTTAAGGCTTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCA-TCTTC
* * * * * *
10423328 TATCTGTTTCCCTATTGCTTAGGGGGTTAAGATCTGTAAATCTTC-AGCCAGTTACCCTACTGCT
130 GATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCT-T-CATCTTCGA-TCTGTTTCCCTACTGCT
* * * * * * *
10423392 TAGGG-GTTTAAG-GCTTGTAAATTCGG-CTTGTTACCCTACTGCTTAGGGGGTTAA-AGCCCAT
192 TAGGGAG-ATAAGATC-TG-CAATTCGGTC-TGTTACCCTACCGATTAGGGGTTTAAGA-CCCTT
* *
10423453 CATCTTTGAT
252 CGTCTTCGAT
10423463 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
10423528 GGGTTAAGGCTTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCG
66 GGGTTAAGGCTTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCG
*
10423593 ATCTGTTTTCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGATCTGTTTCCCTACTGCTTAGG
131 ATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGATCTGTTTCCCTACTGCTTAGG
10423658 GAGATAAGATCTGCAATTCGGTCTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGA
196 GAGATAAGATCTGCAATTCGGTCTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGA
10423723 T
261 T
* *
10423724 CTGTTTCCCTACTACTTAAGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
10423789 GGGTTAAGGCTTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCG
66 GGGTTAAGGCTTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCG
10423854 ATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGATCTGTTTCCCTACTGCTTAGG
131 ATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGATCTGTTTCCCTACTGCTTAGG
*
10423919 GAGATGAGATCTGCAATTCGGTCTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGA
196 GAGATAAGATCTGCAATTCGGTCTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGA
10423984 T
261 T
* * *
10423985 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCATTTTACCCTATTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
* *
10424050 GGCTTAAGGCTTGTGAATT
66 GGGTTAAGGCTTGTAAATT
10424069 CACTGATTCT
Statistics
Matches: 563, Mismatches: 38, Indels: 14
0.92 0.06 0.02
Matches are distributed among these distances:
261 376 0.67
262 33 0.06
263 4 0.01
264 35 0.06
265 115 0.20
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.36
Consensus pattern (261 bp):
CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
GGGTTAAGGCTTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCG
ATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGATCTGTTTCCCTACTGCTTAGG
GAGATAAGATCTGCAATTCGGTCTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGA
T
Found at i:10424012 original size:44 final size:43
Alignment explanation
Indices: 10423111--10424057 Score: 546
Period size: 43 Copynumber: 21.7 Consensus size: 43
10423101 AATTTCCAGC
** * ** *
10423111 CTGTTACCCTACAACTTAGGGGTTTAAGGCCCATCATCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAA-GATCTTCATCTTCGAT
* * * * ** * *
10423155 CTATTTCCCAACTGCTTAAGGGGTTAAGATCTGT-AAATTCAAC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCT-TCATCTTCGAT
* * * * * *
10423198 CTGTTACCCTATTGGTTAGGGGGTTAAGATTTGTAAATTTTC-AGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCT-T-CATCTTCGA-T
* * * * ** *
10423243 CTATTACCCTACTGCTTAGGGGTTTAAGGT-TTGTAAATTCG-G
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTT-CATCTTCGAT
** * * **
10423285 CTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATTTTTTTAT
1 C-TGTTACCCTACTGCTTAGGGGGTT-AAGATCTTCA-TCTTCGAT
* * * *
10423331 CTGTTTCCCTATTGCTTAGGGGGTTAAGATCTGTAAATCTTC-AGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCT-T-CATCTTCGA-T
* * * * ** *
10423376 CAGTTACCCTACTGCTTAGGGGTTTAAG-GCTTGTAAATTCG-G
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTT-CATCTTCGAT
** * *
10423418 CTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTTGAT
1 C-TGTTACCCTACTGCTTAGGGGGTT-AAGATCTTCATCTTCGAT
* * *
10423463 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTC-AGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCT-T-CATCTTCGA-T
* * * *
10423508 CTGTTACCCTACTGCTTAGGGGGTTAAG-GCTTGTAAAT-TTGGCT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATC-T-T-CATCTTCGAT
** *
10423552 -TGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTT-AAGATCTTCATCTTCGAT
**
10423595 CTGTTTTCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGAT
* * * * * *
10423638 CTGTTTCCCTACTGCTTAGGGAGATAAGATCTGCA-ATTCGGT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGAT
* * * * *
10423680 CTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGA-TCTTCATCTTCGAT
* * * * *
10423724 CTGTTTCCCTACTACTTAAGGGGTTAAGATCTGTAAATCTTC-AGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCT-T-CATCTTCGA-T
* * * *
10423769 CTGTTACCCTACTGCTTAGGGGGTTAAG-GCTTGTAAAT-TTGGCT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATC-T-T-CATCTTCGAT
** *
10423813 -TGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTT-AAGATCTTCATCTTCGAT
*
10423856 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGAT
* * * * * * *
10423899 CTGTTTCCCTACTGCTTAGGGAGATGAGATCTGCA-ATTCGGT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGAT
* * * * *
10423941 CTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGA-TCTTCATCTTCGAT
* *
10423985 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCT-T-CATCTTC-G-AT
* *
10424032 -T-TTACCCTATTGCTTAGGGGCTTAAG
1 CTGTTACCCTACTGCTTAGGGGGTTAAG
10424058 GCTTGTGAAT
Statistics
Matches: 694, Mismatches: 165, Indels: 87
0.73 0.17 0.09
Matches are distributed among these distances:
42 61 0.09
43 252 0.36
44 184 0.27
45 191 0.28
46 4 0.01
47 2 0.00
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (43 bp):
CTGTTACCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGAT
Found at i:10424229 original size:67 final size:66
Alignment explanation
Indices: 10424121--10424248 Score: 229
Period size: 67 Copynumber: 1.9 Consensus size: 66
10424111 TCTATGCTTA
*
10424121 TGTCAAATGATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTATACTAGATGTGTTATGAA
1 TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTA-ACTAGATGTGTTATGAA
10424186 TG
65 TG
*
10424188 TGTCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAGATGTGTTAT
1 TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTAT
10424249 TATATGAATG
Statistics
Matches: 59, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
66 14 0.24
67 45 0.76
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.34
Consensus pattern (66 bp):
TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATGAAT
G
Found at i:10425447 original size:6 final size:6
Alignment explanation
Indices: 10425438--10425478 Score: 75
Period size: 6 Copynumber: 7.0 Consensus size: 6
10425428 TTTTTTTTTT
10425438 TTTGCC TTTGCC TTTGCC TTT-CC TTTGCC TTTGCC TTTGCC
1 TTTGCC TTTGCC TTTGCC TTTGCC TTTGCC TTTGCC TTTGCC
10425479 ATATAACTCC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 5 0.15
6 29 0.85
ACGTcount: A:0.00, C:0.34, G:0.15, T:0.51
Consensus pattern (6 bp):
TTTGCC
Found at i:10425464 original size:17 final size:17
Alignment explanation
Indices: 10425442--10425475 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
10425432 TTTTTTTTTG
10425442 CCTTTGCCTTTGCCTTT
1 CCTTTGCCTTTGCCTTT
10425459 CCTTTGCCTTTGCCTTT
1 CCTTTGCCTTTGCCTTT
10425476 GCCATATAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.00, C:0.35, G:0.12, T:0.53
Consensus pattern (17 bp):
CCTTTGCCTTTGCCTTT
Found at i:10429414 original size:12 final size:12
Alignment explanation
Indices: 10429392--10429434 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
10429382 AATAAAAAAC
10429392 AATACTATATATA
1 AATA-TATATATA
10429405 AATATATATATA
1 AATATATATATA
* * *
10429417 TATATACATAAA
1 AATATATATATA
10429429 AATATA
1 AATATA
10429435 CACTAATATA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
12 22 0.85
13 4 0.15
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (12 bp):
AATATATATATA
Found at i:10429675 original size:3 final size:3
Alignment explanation
Indices: 10429667--10429747 Score: 62
Period size: 3 Copynumber: 26.3 Consensus size: 3
10429657 CATATATAGT
10429667 ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA ATA ATA
1 ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA ATA ATA
* *
10429712 ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA ATA A
1 ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
10429748 AACAAAGCTC
Statistics
Matches: 64, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
2 7 0.11
3 46 0.72
4 9 0.14
5 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:10429706 original size:21 final size:18
Alignment explanation
Indices: 10429667--10429747 Score: 76
Period size: 18 Copynumber: 4.4 Consensus size: 18
10429657 CATATATAGT
*
10429667 ATAATAATAATATAAATA
1 ATAATAATAATAGAAATA
10429685 ATAATATATACATGAGAAATA
1 ATAATA-ATA-AT-AGAAATA
*
10429706 ATAATAATAATATAAATA
1 ATAATAATAATAGAAATA
* *
10429724 ATAGTAAAAATA-ATAA-A
1 ATAATAATAATAGA-AATA
10429741 ATAATAA
1 ATAATAA
10429748 AACAAAGCTC
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
17 8 0.15
18 24 0.44
19 5 0.09
20 5 0.09
21 12 0.22
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (18 bp):
ATAATAATAATAGAAATA
Found at i:10429735 original size:27 final size:29
Alignment explanation
Indices: 10429681--10429746 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 29
10429671 TAATAATATA
10429681 AATAATAATAT--ATACATGAGAAATAAT
1 AATAATAATATAAATACATGAGAAATAAT
*
10429708 AATAATAATATAAATA-ATAGTAAAAATAAT
1 AATAATAATATAAATACAT-G-AGAAATAAT
10429738 AA-AATAATA
1 AATAATAATA
10429747 AAACAAAGCT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
27 11 0.32
28 2 0.06
29 11 0.32
30 10 0.29
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.29
Consensus pattern (29 bp):
AATAATAATATAAATACATGAGAAATAAT
Found at i:10430102 original size:22 final size:23
Alignment explanation
Indices: 10430074--10430124 Score: 79
Period size: 21 Copynumber: 2.3 Consensus size: 23
10430064 TAACCTTCTT
10430074 TCCAAAAAAACAAAAAAA-CACC
1 TCCAAAAAAACAAAAAAACCACC
*
10430096 TCC-AAAAAACAAAAAAACCTCC
1 TCCAAAAAAACAAAAAAACCACC
10430118 TCCAAAA
1 TCCAAAA
10430125 CAAAGAACAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 14 0.54
22 9 0.35
23 3 0.12
ACGTcount: A:0.63, C:0.29, G:0.00, T:0.08
Consensus pattern (23 bp):
TCCAAAAAAACAAAAAAACCACC
Found at i:10430147 original size:23 final size:20
Alignment explanation
Indices: 10430080--10430147 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 20
10430070 TCTTTCCAAA
*
10430080 AAAACAAAAAAA-CACCTCC
1 AAAACAAAAAAACCTCCTCC
10430099 AAAAAACAAAAAAACCTCCTCC
1 --AAAACAAAAAAACCTCCTCC
*
10430121 AAAACAAAGAACAATCCTTCTCC
1 AAAACAAA-AA-AA-CCTCCTCC
10430144 AAAA
1 AAAA
10430148 AACCAAAAAC
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
20 8 0.20
21 14 0.34
22 8 0.20
23 11 0.27
ACGTcount: A:0.59, C:0.29, G:0.01, T:0.10
Consensus pattern (20 bp):
AAAACAAAAAAACCTCCTCC
Found at i:10433438 original size:2 final size:2
Alignment explanation
Indices: 10433431--10433467 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
10433421 GATTATGCAT
*
10433431 TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10433468 GATCATGTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10448057 original size:16 final size:15
Alignment explanation
Indices: 10448036--10448081 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
10448026 CGTTTGGTTC
10448036 ATTGTAATGGAATAGG
1 ATTGTAATGGAATA-G
* *
10448052 ATTGTATTTGAATAG
1 ATTGTAATGGAATAG
10448067 AGTTGTAATGGAATA
1 A-TTGTAATGGAATA
10448082 AAGCTGTAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
15 2 0.08
16 23 0.92
ACGTcount: A:0.37, C:0.00, G:0.26, T:0.37
Consensus pattern (15 bp):
ATTGTAATGGAATAG
Found at i:10458323 original size:19 final size:19
Alignment explanation
Indices: 10458282--10458323 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
10458272 TTAAAGTTTA
* *
10458282 AAAAATAAAAATGATTTTG
1 AAAAATAAAAATAATTCTG
10458301 AAAAATATAAAATAATTCT-
1 AAAAATA-AAAATAATTCTG
10458320 AAAA
1 AAAA
10458324 TTCAATGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (19 bp):
AAAAATAAAAATAATTCTG
Found at i:10458515 original size:17 final size:18
Alignment explanation
Indices: 10458483--10458523 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
10458473 TTCAAAGTAA
* *
10458483 ATAAATTATTACAAAATT
1 ATAAAATATTAAAAAATT
10458501 A-AAAATATTAAAAAATT
1 ATAAAATATTAAAAAATT
10458518 ATAAAA
1 ATAAAA
10458524 ATCAATTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (18 bp):
ATAAAATATTAAAAAATT
Found at i:10458809 original size:11 final size:12
Alignment explanation
Indices: 10458783--10458815 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
10458773 TTCAAAAATA
10458783 AAAATAATTATTT
1 AAAATAA-TATTT
10458796 AAAATAAT-TTT
1 AAAATAATATTT
10458807 AAAATAATA
1 AAAATAATA
10458816 AAATTCTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 11 0.58
12 1 0.05
13 7 0.37
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
AAAATAATATTT
Found at i:10475605 original size:29 final size:29
Alignment explanation
Indices: 10475566--10475624 Score: 102
Period size: 29 Copynumber: 2.0 Consensus size: 29
10475556 AATTTAGCTC
10475566 TTTTTTAAAGATT-AATGGTTAAATTTAAT
1 TTTTTTAAAGATTGAA-GGTTAAATTTAAT
10475595 TTTTTTAAAGATTGAAGGTTAAATTTAAT
1 TTTTTTAAAGATTGAAGGTTAAATTTAAT
10475624 T
1 T
10475625 AAAAAAAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 27 0.93
30 2 0.07
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (29 bp):
TTTTTTAAAGATTGAAGGTTAAATTTAAT
Found at i:10476134 original size:21 final size:21
Alignment explanation
Indices: 10476081--10476127 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
10476071 TATGATTGTA
10476081 TGATATAATTCAAATGAAAAG
1 TGATATAATTCAAATGAAAAG
10476102 TGATATAATTCAAATGAAAAG
1 TGATATAATTCAAATGAAAAG
10476123 T-ATAT
1 TGATAT
10476128 GCATTCAGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 4 0.15
21 22 0.85
ACGTcount: A:0.51, C:0.04, G:0.13, T:0.32
Consensus pattern (21 bp):
TGATATAATTCAAATGAAAAG
Found at i:10478312 original size:2 final size:2
Alignment explanation
Indices: 10478305--10478331 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
10478295 TAAGTATAAG
10478305 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 T
10478332 TTGTTTTGAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10480583 original size:81 final size:81
Alignment explanation
Indices: 10480441--10480590 Score: 187
Period size: 81 Copynumber: 1.9 Consensus size: 81
10480431 GTAATTTTAA
* * *
10480441 TTTATATTTTACTTTTAAAATACACTTTATATTTTATTTATTTTCCTAATAAACAAGATTTTTAC
1 TTTATATTTTACTTTTAAAATACACATTATATTTTACTTATTTTCATAATAAACAAGATTTTTAC
10480506 CAATAAAGAATATTTT
66 CAATAAAGAATATTTT
* * * * * *
10480522 TTTATATTTTA-TTTTCAAAATACACATTCTGTTTTACTTA-TTTCATGACTACATAATATTTTT
1 TTTATATTTTACTTTT-AAAATACACATTATATTTTACTTATTTTCAT-AATAAACAAGATTTTT
10480585 ACCAAT
64 ACCAAT
10480591 TTCCTAGCGA
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
80 9 0.16
81 49 0.84
ACGTcount: A:0.35, C:0.12, G:0.03, T:0.51
Consensus pattern (81 bp):
TTTATATTTTACTTTTAAAATACACATTATATTTTACTTATTTTCATAATAAACAAGATTTTTAC
CAATAAAGAATATTTT
Done.