Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032253.1 Gossypioides kirkii chromosome KI_11
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: 55708359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 103 of 182
Found at i:33561344 original size:80 final size:80
Alignment explanation
Indices: 33561197--33561491 Score: 402
Period size: 80 Copynumber: 3.7 Consensus size: 80
33561187 ATCTTTAACC
* * **
33561197 AATTCTGTCAATTCATGGCACCCAATGCCTAGCAGG-TAAA-CGTGATAAGTGAGCCCAGCTCTA
1 AATTCTGTCAATTCATGGCACCCAGTGCCTAG-TGGATAAACCGCAATAAGTGAG-CCAGCTCTA
33561260 GTTGGATTAACCAACGA
64 GTTGGATTAACCAACGA
* *
33561277 AATTC-GTCAATTTATGGCACCCTGTGCCTAGTGGATAAACCGCAATAAGTGAGCGCAGCTCTAG
1 AATTCTGTCAATTCATGGCACCCAGTGCCTAGTGGATAAACCGCAATAAGTGAGC-CAGCTCTAG
33561341 TTGGATTAACCAACGA
65 TTGGATTAACCAACGA
** * * *
33561357 AA-TCCATCAATTCATGGCACCCAGTGCCTAGCGGATAAACCACGATAAGTGAGCCTAGCTCTAG
1 AATTCTGTCAATTCATGGCACCCAGTGCCTAGTGGATAAACCGCAATAAGTGAGCC-AGCTCTAG
*
33561421 TTGGATTAACTAACGA
65 TTGGATTAACCAACGA
*
33561437 AA-TCTGTCAATTCATGGCACCCAGTGCCTAGTGGATAAACCGCAATGAGTGAGCC
1 AATTCTGTCAATTCATGGCACCCAGTGCCTAGTGGATAAACCGCAATAAGTGAGCC
33561492 CATGATAACG
Statistics
Matches: 191, Mismatches: 19, Indels: 10
0.87 0.09 0.05
Matches are distributed among these distances:
78 2 0.01
79 31 0.16
80 158 0.83
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.23
Consensus pattern (80 bp):
AATTCTGTCAATTCATGGCACCCAGTGCCTAGTGGATAAACCGCAATAAGTGAGCCAGCTCTAGT
TGGATTAACCAACGA
Found at i:33564674 original size:6 final size:6
Alignment explanation
Indices: 33564663--33564714 Score: 68
Period size: 6 Copynumber: 8.7 Consensus size: 6
33564653 AGGCAACCCA
* * * *
33564663 ATTTTT ATTTTT ATTTTT ACTTTT ATTTTT ATTTTC ATTTTT CTATTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
33564711 ATTT
1 ATTT
33564715 ATCTATTAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (6 bp):
ATTTTT
Found at i:33564695 original size:24 final size:24
Alignment explanation
Indices: 33564663--33564714 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
33564653 AGGCAACCCA
*
33564663 ATTTTTATTTTTATTTTTACT-TTT
1 ATTTTTATTTTCATTTTT-CTATTT
33564687 ATTTTTATTTTCATTTTTCTATTT
1 ATTTTTATTTTCATTTTTCTATTT
33564711 ATTT
1 ATTT
33564715 ATCTATTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 2 0.08
24 24 0.92
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (24 bp):
ATTTTTATTTTCATTTTTCTATTT
Found at i:33566330 original size:14 final size:14
Alignment explanation
Indices: 33566293--33566322 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
33566283 TTATATTTAA
*
33566293 TTTATATTTATCTT
1 TTTAGATTTATCTT
33566307 TTTAGATTTATCTT
1 TTTAGATTTATCTT
33566321 TT
1 TT
33566323 AGAGTTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.07, G:0.03, T:0.70
Consensus pattern (14 bp):
TTTAGATTTATCTT
Found at i:33571732 original size:21 final size:22
Alignment explanation
Indices: 33571691--33571743 Score: 90
Period size: 21 Copynumber: 2.5 Consensus size: 22
33571681 AAAATTATTT
33571691 AATAATTTTATTATTTCAAAAA
1 AATAATTTTATTATTTCAAAAA
*
33571713 AATAATTTTA-TATTTTAAAAA
1 AATAATTTTATTATTTCAAAAA
33571734 AATAATTTTA
1 AATAATTTTA
33571744 AAATCATTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 20 0.67
22 10 0.33
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (22 bp):
AATAATTTTATTATTTCAAAAA
Found at i:33572295 original size:27 final size:27
Alignment explanation
Indices: 33572260--33572340 Score: 114
Period size: 27 Copynumber: 3.1 Consensus size: 27
33572250 TATATATGTT
33572260 GGAAGTCCGTCAAGACTATCTATTATA
1 GGAAGTCCGTCAAGACTATCTATTATA
*
33572287 GGAAGTCCGTCAGGACTATCTA-T-T-
1 GGAAGTCCGTCAAGACTATCTATTATA
* *
33572311 GGAAATCCATCAAGACTATCTATTATA
1 GGAAGTCCGTCAAGACTATCTATTATA
33572338 GGA
1 GGA
33572341 GTTCGCAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
24 19 0.40
25 2 0.04
26 2 0.04
27 24 0.51
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (27 bp):
GGAAGTCCGTCAAGACTATCTATTATA
Found at i:33572327 original size:24 final size:24
Alignment explanation
Indices: 33572258--33572334 Score: 100
Period size: 24 Copynumber: 3.1 Consensus size: 24
33572248 ACTATATATG
33572258 TTGGAAGTCCGTCAAGACTATCTA
1 TTGGAAGTCCGTCAAGACTATCTA
*
33572282 TTATAGGAAGTCCGTCAGGACTATCTA
1 -T-T-GGAAGTCCGTCAAGACTATCTA
* *
33572309 TTGGAAATCCATCAAGACTATCTA
1 TTGGAAGTCCGTCAAGACTATCTA
33572333 TT
1 TT
33572335 ATAGGAGTTC
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
24 21 0.46
25 2 0.04
26 2 0.04
27 21 0.46
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.31
Consensus pattern (24 bp):
TTGGAAGTCCGTCAAGACTATCTA
Found at i:33572366 original size:51 final size:51
Alignment explanation
Indices: 33572260--33572366 Score: 119
Period size: 51 Copynumber: 2.1 Consensus size: 51
33572250 TATATATGTT
* * ** *
33572260 GGAAGTCCGTCAAGACTATCTATTATAGGAAGTCCGTCAGGACTATCTATT
1 GGAAATCCATCAAGACTATCTATTATAGGAAGTCCGTCAAAACTATCTATG
* *
33572311 GGAAATCCATCAAGACTATCTATTATAGG-AGTTCG-CAAAAACTATTTAATG
1 GGAAATCCATCAAGACTATCTATTATAGGAAGTCCGTC-AAAACTATCT-ATG
33572362 GGAAA
1 GGAAA
33572367 GTCTGCAAGG
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
49 1 0.02
50 12 0.26
51 34 0.72
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.28
Consensus pattern (51 bp):
GGAAATCCATCAAGACTATCTATTATAGGAAGTCCGTCAAAACTATCTATG
Found at i:33580622 original size:52 final size:52
Alignment explanation
Indices: 33580539--33580725 Score: 241
Period size: 52 Copynumber: 3.6 Consensus size: 52
33580529 TAAATGAAAA
* *
33580539 AGGTTCGATGACTT-TGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
1 AGGTCCGATGA-TTATGTGTCATCATGAGTATATGAATCCTTTACGGATTATG
* *
33580591 AGGTCCGATGATTATGTGTCATCATGAGTATATGAATTCTTTACGGATTATT
1 AGGTCCGATGATTATGTGTCATCATGAGTATATGAATCCTTTACGGATTATG
* * * ** *
33580643 AGGTCCGATGATTATGTGTCATCATGAGTGTATGATTCCTTTAAGGAACAAG
1 AGGTCCGATGATTATGTGTCATCATGAGTATATGAATCCTTTACGGATTATG
* * *
33580695 AGGTCTGATGACTATGTGTCATCGTGAGTAT
1 AGGTCCGATGATTATGTGTCATCATGAGTAT
33580726 TAAAGGAAAT
Statistics
Matches: 118, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
51 2 0.02
52 116 0.98
ACGTcount: A:0.26, C:0.13, G:0.25, T:0.37
Consensus pattern (52 bp):
AGGTCCGATGATTATGTGTCATCATGAGTATATGAATCCTTTACGGATTATG
Found at i:33582908 original size:20 final size:21
Alignment explanation
Indices: 33582883--33582922 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
33582873 TGACCCTTGA
33582883 TCGTTAACCATTGA-TTTTTT
1 TCGTTAACCATTGACTTTTTT
*
33582903 TCGTTAACCGTTGACTTTTT
1 TCGTTAACCATTGACTTTTT
33582923 CCAGAAAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.17, C:0.17, G:0.12, T:0.53
Consensus pattern (21 bp):
TCGTTAACCATTGACTTTTTT
Found at i:33586873 original size:13 final size:13
Alignment explanation
Indices: 33586855--33586879 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33586845 ATTAATTTAG
33586855 TTTAGATTAATAC
1 TTTAGATTAATAC
33586868 TTTAGATTAATA
1 TTTAGATTAATA
33586880 TCCTTCACAA
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:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (13 bp):
TTTAGATTAATAC
Found at i:33592370 original size:92 final size:92
Alignment explanation
Indices: 33592253--33592431 Score: 331
Period size: 92 Copynumber: 1.9 Consensus size: 92
33592243 TCGATTCAAA
*
33592253 AAAATTTCAAATCGAGTTAGTATGATAAAATAGGATTTGTCAACTAGATAAACTCAATTGTTTTT
1 AAAATTTCAAATCGAGTTAGGATGATAAAATAGGATTTGTCAACTAGATAAACTCAATTGTTTTT
33592318 CATTCGATTCGATTCGATCGAATCGAG
66 CATTCGATTCGATTCGATCGAATCGAG
33592345 AAAATTTCAAATCGAGTTAGGATGATAAAATAGGATTTGTCAACTAGATAAACTCAATTGTTTTT
1 AAAATTTCAAATCGAGTTAGGATGATAAAATAGGATTTGTCAACTAGATAAACTCAATTGTTTTT
* *
33592410 TATTCTATTCGATTCGATCGAA
66 CATTCGATTCGATTCGATCGAA
33592432 CGCTCACCCC
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
92 84 1.00
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (92 bp):
AAAATTTCAAATCGAGTTAGGATGATAAAATAGGATTTGTCAACTAGATAAACTCAATTGTTTTT
CATTCGATTCGATTCGATCGAATCGAG
Found at i:33595240 original size:24 final size:24
Alignment explanation
Indices: 33595203--33595250 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
33595193 TTCACGATTA
*
33595203 TATTTTTTTGTTAA-TTTGATTTT
1 TATTTTTTTATTAAGTTTGATTTT
33595226 TATTTTTTTAATTAAGTTTGATTTT
1 TATTTTTTT-ATTAAGTTTGATTTT
33595251 CAACTTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 9 0.41
24 4 0.18
25 9 0.41
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.71
Consensus pattern (24 bp):
TATTTTTTTATTAAGTTTGATTTT
Found at i:33597554 original size:174 final size:174
Alignment explanation
Indices: 33597264--33597609 Score: 674
Period size: 174 Copynumber: 2.0 Consensus size: 174
33597254 ATTAAAAAAA
33597264 TAATTTTTTTGGTGTTGGCAGTTGCAATGGCCGGCACCCATGTATATTTTTTCACCCATATTTTA
1 TAATTTTTTTGGTGTTGGCAGTTGCAATGGCCGGCACCCATGTATATTTTTTCACCCATATTTTA
*
33597329 TACAATACATGTAATATTGGGCATCAAAAAATTATTTTTTTAGGTGCCATGTAGCAGATAGTCGA
66 TACAATACATGTAATATCGGGCATCAAAAAATTATTTTTTTAGGTGCCATGTAGCAGATAGTCGA
33597394 CACCAATTTTTAATTTTTTTTGGTGTCGACATTGTGGTGGCCAG
131 CACCAATTTTTAATTTTTTTTGGTGTCGACATTGTGGTGGCCAG
33597438 TAATTTTTTTGGTGTTGGCAGTTGCAATGGCCGGCACCCATGTATATTTTTTCACCCATATTTTA
1 TAATTTTTTTGGTGTTGGCAGTTGCAATGGCCGGCACCCATGTATATTTTTTCACCCATATTTTA
*
33597503 TACAATACATGTAATATCGGGTATCAAAAAATTATTTTTTTAGGTGCCATGTAGCAGATAGTCGA
66 TACAATACATGTAATATCGGGCATCAAAAAATTATTTTTTTAGGTGCCATGTAGCAGATAGTCGA
33597568 CACCAATTTTTAATTTTTTTTGGTGTCGACATTGTGGTGGCC
131 CACCAATTTTTAATTTTTTTTGGTGTCGACATTGTGGTGGCC
33597610 GACACCCATG
Statistics
Matches: 170, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
174 170 1.00
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.40
Consensus pattern (174 bp):
TAATTTTTTTGGTGTTGGCAGTTGCAATGGCCGGCACCCATGTATATTTTTTCACCCATATTTTA
TACAATACATGTAATATCGGGCATCAAAAAATTATTTTTTTAGGTGCCATGTAGCAGATAGTCGA
CACCAATTTTTAATTTTTTTTGGTGTCGACATTGTGGTGGCCAG
Found at i:33598268 original size:45 final size:44
Alignment explanation
Indices: 33598201--33598321 Score: 179
Period size: 45 Copynumber: 2.7 Consensus size: 44
33598191 AGTCATCGTG
** *
33598201 ATTTGATAGAGGGCAACTGAACCTAATATTAAGCAACACTATTGT
1 ATTTGATAGA-GGCGGCCGAACCTAATATTAAGCAACACTATTGT
33598246 ATTTGATAGATGGCGGCCGAACCTAATATTAAGCAACACTATTGT
1 ATTTGATAGA-GGCGGCCGAACCTAATATTAAGCAACACTATTGT
*
33598291 ATTTGATAGAGGACGGCCGAGCCTAATATTA
1 ATTTGATAGAGG-CGGCCGAACCTAATATTA
33598322 CTAAATGCAA
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
44 2 0.03
45 68 0.97
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.28
Consensus pattern (44 bp):
ATTTGATAGAGGCGGCCGAACCTAATATTAAGCAACACTATTGT
Found at i:33598829 original size:123 final size:124
Alignment explanation
Indices: 33598680--33599189 Score: 647
Period size: 123 Copynumber: 4.1 Consensus size: 124
33598670 ATTTTTTTTT
* *** *
33598680 AAAAAAAATGAATGTTAGTGTCAAAAAATTTAAAAAAATTTATATTAGTGTTAAAGGAAAG-AAA
1 AAAAAAAATGAATGTTAGTGTAAAAAAAAAAAAAAAAATTTATGTTAGTGTTAAAGGAAAGAAAA
* *
33598744 AA-AAGTATTAATTGAATACAAAATTTTTGTTAGTGTTAAATTATTTTATAAAAATTAA
66 AAGAAGTATTAATTGAATACAAAACTTTTGTTAGTGTTAAGTTATTTTATAAAAATTAA
*
33598802 AATAAAAAATGAATTGTTAGTGTAAAAATAACAAAAAAAAAATTAAATGTTAGTGTTAAAGGAAA
1 AA-AAAAAATGAA-TGTTAGTGTAAAAA-AA-AAAAAAAAAATT-TATGTTAGTGTTAAAGGAAA
*
33598867 GAAAAAAGAAATATTAATTGAATACAAAACTTTTGTTAGTGTTAAGTTATTTTATAAAAATTAA
61 GAAAAAAGAAGTATTAATTGAATACAAAACTTTTGTTAGTGTTAAGTTATTTTATAAAAATTAA
* * * ** *
33598931 AATACAAAATGAATGTTAATGT-AAAAAACAAAAAAAAATGGATGTTAGTATTAAAGGAAAGAAA
1 AA-AAAAAATGAATGTTAGTGTAAAAAAAAAAAAAAAAATTTATGTTAGTGTTAAAGGAAAGAAA
**
33598995 AAA-AAGTATTAATCAAATACAAAACTTTTGTTAGTGTTAAGTTATTTTAT-AAAA--AA
65 AAAGAAGTATTAATTGAATACAAAACTTTTGTTAGTGTTAAGTTATTTTATAAAAATTAA
* * * *
33599051 AAAAAAAATGAATGTCAGTGTAAAAAAAGCAAGAAAAAATTTGGATGTTAATGTTAAAGGAAAGA
1 AAAAAAAATGAATGTTAGTGTAAAAAAA-AAAAAAAAAATTT--ATGTTAGTGTTAAAGGAAAGA
* * * *
33599116 AAAAAGAAGTATTAATTTAATACAAATCTTTTGTTAGTGTTATGTTATTTTTAAAAAAATTAA
63 AAAAAGAAGTATTAATTGAATACAAAACTTTTGTTAGTGTTAAGTTA-TTTTATAAAAATTAA
33599179 AAAAATAAATG
1 AAAAA-AAATG
33599190 TTATTGTAAA
Statistics
Matches: 340, Mismatches: 31, Indels: 27
0.85 0.08 0.07
Matches are distributed among these distances:
119 16 0.05
120 10 0.03
121 10 0.03
122 6 0.02
123 78 0.23
124 75 0.22
125 17 0.05
126 15 0.04
127 23 0.07
128 20 0.06
129 70 0.21
ACGTcount: A:0.53, C:0.03, G:0.13, T:0.32
Consensus pattern (124 bp):
AAAAAAAATGAATGTTAGTGTAAAAAAAAAAAAAAAAATTTATGTTAGTGTTAAAGGAAAGAAAA
AAGAAGTATTAATTGAATACAAAACTTTTGTTAGTGTTAAGTTATTTTATAAAAATTAA
Found at i:33598873 original size:34 final size:33
Alignment explanation
Indices: 33598792--33598857 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
33598782 AATTATTTTA
* * * *
33598792 TAAAAATTA-AAATAAAAAATGAATTGTTAGTG
1 TAAAAATAACAAAAAAAAAATTAAATGTTAGTG
33598824 TAAAAATAACAAAAAAAAAATTAAATGTTAGTG
1 TAAAAATAACAAAAAAAAAATTAAATGTTAGTG
33598857 T
1 T
33598858 TAAAGGAAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 8 0.28
33 21 0.72
ACGTcount: A:0.59, C:0.02, G:0.11, T:0.29
Consensus pattern (33 bp):
TAAAAATAACAAAAAAAAAATTAAATGTTAGTG
Found at i:33599165 original size:247 final size:252
Alignment explanation
Indices: 33598684--33599180 Score: 711
Period size: 247 Copynumber: 2.0 Consensus size: 252
33598674 TTTTTTAAAA
* *** ** *
33598684 AAAATGAATGTTAGTGTCAAAAAATTTAAAAAAATTTATATTAGTGTTAAAGGAAAGAAAAAAAG
1 AAAATGAATGTTAATGTCAAAAAACAAAAAAAAATGGATATTAGTATTAAAGGAAAGAAAAAAAG
** *
33598749 TATTAATTGAATACAAAATTTTTGTTAGTGTTAAATTATTTTATAAAAATTAAAATAAAAAATGA
66 TATTAATCAAATACAAAACTTTTGTTAGTGTTAAATTATTTTATAAAAA-TAAAATAAAAAATGA
* *
33598814 ATTGTTAGTGTAAAAATAACAAAAAAAAAATTAAATGTTAGTGTTAAAGGAAAGAAAAAAGAAAT
130 ATTGTCAGTGTAAAAATAACAAAAAAAAAATTAAATGTTAATGTTAAAGGAAAGAAAAAAGAAAT
*
33598879 ATTAATTGAATACAAAACTTTTGTTAGTGTTAAGTTA-TTTTATAAAAATTAAAATAC
195 ATTAATTGAATACAAAACTTTTGTTAGTGTTAAGTTATTTTTAAAAAAATTAAAATAC
*
33598936 AAAATGAATGTTAATGT-AAAAAACAAAAAAAAATGGATGTTAGTATTAAAGGAAAGAAAAAAAA
1 AAAATGAATGTTAATGTCAAAAAACAAAAAAAAATGGATATTAGTATTAAAGGAAAG-AAAAAAA
*
33599000 GTATTAATCAAATACAAAACTTTTGTTAGTGTTAAGTTATTTTAT-AAAA-AAAA-AAAAAATGA
65 GTATTAATCAAATACAAAACTTTTGTTAGTGTTAAATTATTTTATAAAAATAAAATAAAAAATGA
* * ** *
33599062 A-TGTCAGTGTAAAAA-AAGCAAGAAAAAATTTGGATGTTAATGTTAAAGGAAAGAAAAAAGAAG
130 ATTGTCAGTGTAAAAATAA-CAAAAAAAAAATTAAATGTTAATGTTAAAGGAAAGAAAAAAGAAA
* * *
33599125 TATTAATTTAATACAAATCTTTTGTTAGTGTTATGTTATTTTTAAAAAAATTAAAA
194 TATTAATTGAATACAAAACTTTTGTTAGTGTTAAGTTATTTTTAAAAAAATTAAAA
33599181 AAATAAATGT
Statistics
Matches: 219, Mismatches: 23, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
246 2 0.01
247 87 0.40
248 26 0.12
249 4 0.02
251 36 0.16
252 64 0.29
ACGTcount: A:0.52, C:0.03, G:0.13, T:0.32
Consensus pattern (252 bp):
AAAATGAATGTTAATGTCAAAAAACAAAAAAAAATGGATATTAGTATTAAAGGAAAGAAAAAAAG
TATTAATCAAATACAAAACTTTTGTTAGTGTTAAATTATTTTATAAAAATAAAATAAAAAATGAA
TTGTCAGTGTAAAAATAACAAAAAAAAAATTAAATGTTAATGTTAAAGGAAAGAAAAAAGAAATA
TTAATTGAATACAAAACTTTTGTTAGTGTTAAGTTATTTTTAAAAAAATTAAAATAC
Found at i:33600179 original size:35 final size:35
Alignment explanation
Indices: 33600130--33600251 Score: 138
Period size: 35 Copynumber: 3.4 Consensus size: 35
33600120 AATGCGAAGT
*
33600130 GATAAATTTCGAAAAAAGATTAAAAAAATCAAACA
1 GATAAATTTTGAAAAAAGATTAAAAAAATCAAACA
* ** *
33600165 AATAAATTTTGAAAATTGATTAAAAAAA-CAAACT
1 GATAAATTTTGAAAAAAGATTAAAAAAATCAAACA
* *
33600199 GATAAATTTTGAAACAAGATTCAAAATAAAATACGAACA
1 GATAAATTTTGAAAAAAGATT--AAA-AAAAT-CAAACA
33600238 GATAAATTTTGAAA
1 GATAAATTTTGAAA
33600252 TAGTATTTTT
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
34 22 0.31
35 24 0.34
36 3 0.04
37 4 0.06
39 18 0.25
ACGTcount: A:0.58, C:0.07, G:0.09, T:0.25
Consensus pattern (35 bp):
GATAAATTTTGAAAAAAGATTAAAAAAATCAAACA
Found at i:33604051 original size:15 final size:15
Alignment explanation
Indices: 33604009--33604061 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
33603999 AAGTAACTAA
*
33604009 TTATATAGATTAATTT
1 TTATAT-GAATAATTT
* *
33604025 TTTTAATAAATAATTT
1 TTAT-ATGAATAATTT
*
33604041 TTATATGAATACTTT
1 TTATATGAATAATTT
33604056 TTATAT
1 TTATAT
33604062 TTAATTAATA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
15 15 0.50
16 13 0.43
17 2 0.07
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.57
Consensus pattern (15 bp):
TTATATGAATAATTT
Found at i:33605102 original size:29 final size:29
Alignment explanation
Indices: 33605069--33605127 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
33605059 TCCACCTTGA
* * *
33605069 CACGAATTCTCAATGAACAAGTTCTTCAC
1 CACGAACTCTCAACGAACAAGTTCTCCAC
33605098 CACGAACTCTCAACGAACAAGTTCTCCAC
1 CACGAACTCTCAACGAACAAGTTCTCCAC
33605127 C
1 C
33605128 TTTTCCACAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.34, C:0.34, G:0.10, T:0.22
Consensus pattern (29 bp):
CACGAACTCTCAACGAACAAGTTCTCCAC
Found at i:33611233 original size:36 final size:36
Alignment explanation
Indices: 33611182--33611368 Score: 239
Period size: 36 Copynumber: 5.2 Consensus size: 36
33611172 TGATGACTAT
* * *
33611182 TGTGAAAGTAAATATGTGGGTATCTTATTCATGCCA
1 TGTGACAGCAAATATGTGGGTATGTTATTCATGCCA
* * * ** *
33611218 TCTGACAGTAAATATGTGAGTATGCAATTCATGCTA
1 TGTGACAGCAAATATGTGGGTATGTTATTCATGCCA
* * * *
33611254 TGAGACAGAAAATATGTGAGTATGTTATTCATGTCA
1 TGTGACAGCAAATATGTGGGTATGTTATTCATGCCA
33611290 TGTGACAGCAAATATGTGGGTATGTTATTCATGCCA
1 TGTGACAGCAAATATGTGGGTATGTTATTCATGCCA
* *
33611326 TGAGACAGCAAATATATGGGTATGTTATTCATGCCA
1 TGTGACAGCAAATATGTGGGTATGTTATTCATGCCA
33611362 TGTGACA
1 TGTGACA
33611369 CTGAATATAT
Statistics
Matches: 130, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 130 1.00
ACGTcount: A:0.32, C:0.12, G:0.22, T:0.33
Consensus pattern (36 bp):
TGTGACAGCAAATATGTGGGTATGTTATTCATGCCA
Found at i:33611736 original size:66 final size:66
Alignment explanation
Indices: 33611630--33611759 Score: 206
Period size: 66 Copynumber: 2.0 Consensus size: 66
33611620 ATAAGGAGAG
* * * *
33611630 TGTTAGCTTTATGCTTCACTTTTGGGACATGTTTGACTCTATGAGTCTTTTGGTGTGTTTGGAGG
1 TGTTAGCTATATGCTTCACTTATGGGACATGTTCGACTCTATGAGTCATTTGGTGTGTTTGGAGG
33611695 T
66 T
* *
33611696 TGTTAGCTATATGCTTTACTTATGGGACGTGTTCGACTCTATGAGTCATTTGGTGTGTTTGGAG
1 TGTTAGCTATATGCTTCACTTATGGGACATGTTCGACTCTATGAGTCATTTGGTGTGTTTGGAG
33611760 ATCCATGTAT
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
66 58 1.00
ACGTcount: A:0.15, C:0.12, G:0.28, T:0.45
Consensus pattern (66 bp):
TGTTAGCTATATGCTTCACTTATGGGACATGTTCGACTCTATGAGTCATTTGGTGTGTTTGGAGG
T
Found at i:33611869 original size:23 final size:23
Alignment explanation
Indices: 33611836--33612093 Score: 356
Period size: 23 Copynumber: 11.3 Consensus size: 23
33611826 ATTAAATGTG
*
33611836 TTAAATATTAATGTGATTTGTGC
1 TTAAATATTAATGTGATTTATGC
*
33611859 TTAAATGTTAATGTGATTTATGC
1 TTAAATATTAATGTGATTTATGC
* *
33611882 TTAAATATTAATATAATTTATGC
1 TTAAATATTAATGTGATTTATGC
* *
33611905 TTAAATACTAATGTGATTTACGC
1 TTAAATATTAATGTGATTTATGC
* *
33611928 TTAAATGTTAATATGATTTATGC
1 TTAAATATTAATGTGATTTATGC
* *
33611951 TTAAATGTTGATGTGATTTATGC
1 TTAAATATTAATGTGATTTATGC
* *
33611974 TTAAATGTTAATG-CATTTATGC
1 TTAAATATTAATGTGATTTATGC
*
33611996 TTAAATGTTAATGTGATTTATGC
1 TTAAATATTAATGTGATTTATGC
33612019 TTAAATATTAATGTGATTTATGC
1 TTAAATATTAATGTGATTTATGC
* *
33612042 TTAAATATTAATATGATTTATGT
1 TTAAATATTAATGTGATTTATGC
*
33612065 TTGAATATTAATGTGATTTATGC
1 TTAAATATTAATGTGATTTATGC
*
33612088 GTAAAT
1 TTAAAT
33612094 GAACCCATGA
Statistics
Matches: 208, Mismatches: 26, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
22 21 0.10
23 187 0.90
ACGTcount: A:0.34, C:0.05, G:0.14, T:0.47
Consensus pattern (23 bp):
TTAAATATTAATGTGATTTATGC
Found at i:33612114 original size:114 final size:114
Alignment explanation
Indices: 33611836--33612094 Score: 311
Period size: 114 Copynumber: 2.3 Consensus size: 114
33611826 ATTAAATGTG
* * * * ***
33611836 TTAAATATTAATGTGATTTGTGCTTAAATGTTAATGTGATTTATGCTTAAATATTAATATAATTT
1 TTAAATATTAATGTGATTTATGCGTAAATGTAAATG-CAAAGATGCTTAAATATTAATATAATTT
*
33611901 ATGCTTAAATACTAATGTGATTTACGCTTAAATGTTAATATGATTTATGC
65 ATGCTTAAATACTAATGTGATTTACGCTTAAATATTAATATGATTTATGC
* * * * *** * * *
33611951 TTAAATGTTGATGTGATTTATGCTTAAATGTTAATGCATTTATGCTTAAATGTTAATGTGATTTA
1 TTAAATATTAATGTGATTTATGCGTAAATGTAAATGCAAAGATGCTTAAATATTAATATAATTTA
* * *
33612016 TGCTTAAATATTAATGTGATTTATGCTTAAATATTAATATGATTTATGT
66 TGCTTAAATACTAATGTGATTTACGCTTAAATATTAATATGATTTATGC
*
33612065 TTGAATATTAATGTGATTTATGCGTAAATG
1 TTAAATATTAATGTGATTTATGCGTAAATG
33612095 AACCCATGAA
Statistics
Matches: 129, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
114 96 0.74
115 33 0.26
ACGTcount: A:0.34, C:0.05, G:0.15, T:0.47
Consensus pattern (114 bp):
TTAAATATTAATGTGATTTATGCGTAAATGTAAATGCAAAGATGCTTAAATATTAATATAATTTA
TGCTTAAATACTAATGTGATTTACGCTTAAATATTAATATGATTTATGC
Found at i:33619269 original size:19 final size:19
Alignment explanation
Indices: 33619245--33619296 Score: 72
Period size: 18 Copynumber: 2.8 Consensus size: 19
33619235 CTTAAGGAAT
*
33619245 AGCATACTAGGCTCGTTTG
1 AGCATACTAGGCTCGTTAG
*
33619264 AGCATACTA-ACTCGTTAG
1 AGCATACTAGGCTCGTTAG
33619282 AGCATACT-GGCTCGT
1 AGCATACTAGGCTCGT
33619297 AAGATCATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 20 0.69
19 9 0.31
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (19 bp):
AGCATACTAGGCTCGTTAG
Found at i:33624817 original size:19 final size:18
Alignment explanation
Indices: 33624789--33624827 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
33624779 CGGGAGGAAT
*
33624789 AGCATACTGGCTCGTAAG
1 AGCATACTGGATCGTAAG
33624807 AGCATTACTGGATCGTAAG
1 AGCA-TACTGGATCGTAAG
33624826 AG
1 AG
33624828 TTATTTCACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.23
Consensus pattern (18 bp):
AGCATACTGGATCGTAAG
Found at i:33637103 original size:18 final size:18
Alignment explanation
Indices: 33637073--33637110 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
33637063 TAACCGATCA
33637073 AATTGAATTAATTCGATT
1 AATTGAATTAATTCGATT
*
33637091 AATTGAATTAATTCGGTT
1 AATTGAATTAATTCGATT
33637109 AA
1 AA
33637111 GATGAGTTAA
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:0.39, C:0.05, G:0.13, T:0.42
Consensus pattern (18 bp):
AATTGAATTAATTCGATT
Found at i:33637219 original size:9 final size:9
Alignment explanation
Indices: 33637207--33637248 Score: 57
Period size: 9 Copynumber: 4.7 Consensus size: 9
33637197 TTGAATTTGA
33637207 TTAATTCGG
1 TTAATTCGG
* *
33637216 TTAATTTGA
1 TTAATTCGG
*
33637225 TTAATTTGG
1 TTAATTCGG
33637234 TTAATTCGG
1 TTAATTCGG
33637243 TTAATT
1 TTAATT
33637249 TTTTTATATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.26, C:0.05, G:0.17, T:0.52
Consensus pattern (9 bp):
TTAATTCGG
Found at i:33637249 original size:18 final size:18
Alignment explanation
Indices: 33637200--33637239 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
33637190 ACATATATTG
33637200 AATTTGATTAATTCGGTT
1 AATTTGATTAATTCGGTT
*
33637218 AATTTGATTAATTTGGTT
1 AATTTGATTAATTCGGTT
33637236 AATT
1 AATT
33637240 CGGTTAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.30, C:0.03, G:0.15, T:0.53
Consensus pattern (18 bp):
AATTTGATTAATTCGGTT
Found at i:33639419 original size:16 final size:16
Alignment explanation
Indices: 33639395--33639425 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
33639385 TAATTTTTTT
33639395 ATTAACTTAAATTATG
1 ATTAACTTAAATTATG
*
33639411 ATTATCTTAAATTAT
1 ATTAACTTAAATTAT
33639426 ACTCAAATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.06, G:0.03, T:0.48
Consensus pattern (16 bp):
ATTAACTTAAATTATG
Found at i:33641222 original size:29 final size:29
Alignment explanation
Indices: 33641130--33641228 Score: 74
Period size: 31 Copynumber: 3.2 Consensus size: 29
33641120 TTTAGTCCGT
** *
33641130 TTATTTATTTATTTCAATCGCTTTATTTTTTG
1 TTATTTA--TATTTCAATC-CTTTAAATTTTA
* * * *
33641162 TT-TTTTTATTTCCATCATTTCCAATTTATA
1 TTATTTATATTTCAATCCTTT-AAATTT-TA
33641192 TTATTTATATTTCAATCCTTTAAATTTTA
1 TTATTTATATTTCAATCCTTTAAATTTTA
33641221 TTTATTTA
1 -TTATTTA
33641229 ACTTTTAGTA
Statistics
Matches: 52, Mismatches: 11, Indels: 10
0.71 0.15 0.14
Matches are distributed among these distances:
28 3 0.06
29 14 0.27
30 15 0.29
31 18 0.35
32 2 0.04
ACGTcount: A:0.24, C:0.11, G:0.02, T:0.63
Consensus pattern (29 bp):
TTATTTATATTTCAATCCTTTAAATTTTA
Found at i:33647896 original size:50 final size:50
Alignment explanation
Indices: 33647842--33649666 Score: 584
Period size: 50 Copynumber: 36.7 Consensus size: 50
33647832 TTATAGTAGA
* * *
33647842 AAATCTTATCTCCTTGAAGATGCAATAGAGCAAGATGAAGCTACAATATC
1 AAATCTTATCTCCTTGAAGATGCAGTGGAGCAAGATGAAGCTACAATAGC
* * * * * * * *
33647892 AAATCCTATATCCATGAAGATGTAGTGGATTG-AA-TTGAAACCACAGTAGC
1 AAATCTTATCTCCTTGAAGATGCAGTGGA--GCAAGATGAAGCTACAATAGC
* * * * * * * * *
33647942 AAATCTTATCTCCCTAAAAATACAGTGTAGCAAAATGACGCTACAACACC
1 AAATCTTATCTCCTTGAAGATGCAGTGGAGCAAGATGAAGCTACAATAGC
* * * * * * *
33647992 AAATCCTATATCCTTGAAGTTGCAGTGGATC-AGATTAAAGCTATAGTAGC
1 AAATCTTATCTCCTTGAAGATGCAGTGGAGCAAGA-TGAAGCTACAATAGC
* * *
33648042 AAATCTTATCTCCTTGAGGATGCAGT-GAGCAAGATGAAGCTACAACATC
1 AAATCTTATCTCCTTGAAGATGCAGTGGAGCAAGATGAAGCTACAATAGC
* * * * * * * * * *
33648091 AAATCTTATATCCCTAAAGTTACAGTGGATCATA-TTAAAACTACAGTAGC
1 AAATCTTATCTCCTTGAAGATGCAGTGGAGCA-AGATGAAGCTACAATAGC
* * * * *
33648141 AAATCTTATCT-ATCTGAAGATGCAGTGGAGCATGCTAAAGCTACAA-ACAC
1 AAATCTTATCTCCT-TGAAGATGCAGTGGAGCAAGATGAAGCTACAATA-GC
* * * * * * * * * *
33648191 AAATCATATATCAC-TGAAGTTACAGTGGATC-GGATTAAAACTACATTAGA
1 AAATCTTATCTC-CTTGAAGATGCAGTGGAGCAAGA-TGAAGCTACAATAGC
* ** * *
33648241 AAAGCTTATCTCCTTGAAGATG-ATGTGGATAAAGATGAAGCTACAACACC
1 AAATCTTATCTCCTTGAAGATGCA-GTGGAGCAAGATGAAGCTACAATAGC
* * * * * ** * * *
33648291 AATTCCTATATCCCTGAAGTTGCAGTGGA-TTAGATTAAAGCTATAGTAGC
1 AAATCTTATCTCCTTGAAGATGCAGTGGAGCAAGA-TGAAGCTACAATAGC
* * * *
33648341 AAATCTCATCTCCTTGAAGATGTAGTAGAGC--GATGAAGCTACAA-CGTC
1 AAATCTTATCTCCTTGAAGATGCAGTGGAGCAAGATGAAGCTACAATAG-C
** * * * * * *
33648389 AAAT-TCTATAACCTTGAAGTTGTAGTGGATC-GGATCGAAACTACGATAGC
1 AAATCT-TATCTCCTTGAAGATGCAGTGGAGCAAGAT-GAAGCTACAATAGC
* * * * ** * * * *
33648439 AAATCTTATGTCTTTAAAGTTTTAGTAGAGCAAGTTGAA-ATACAATATC
1 AAATCTTATCTCCTTGAAGATGCAGTGGAGCAAGATGAAGCTACAATAGC
* * * * * * * * *
33648488 AAGTCTTATATCCCT-AAAATTGTAGTGGATC-AGATTAAAACTACAGTAGC
1 AAATCTTATCTCCTTGAAGA-TGCAGTGGAGCAAGA-TGAAGCTACAATAGC
* * * * * * *
33648538 AAATCGTATCTCCCTAAAGAT-CAATGAAGCAAGATGAAGCTACAACACC
1 AAATCTTATCTCCTTGAAGATGCAGTGGAGCAAGATGAAGCTACAATAGC
* * * * * * * * *
33648587 AAATCCTATATCCTTGAAGTTGTAGTGGATCGA-ATTATATCTACAGTAGC
1 AAATCTTATCTCCTTGAAGATGCAGTGGAGCAAGATGA-AGCTACAATAGC
* * *
33648637 AAATCTCATCTTCC-TGAAGATGTAGTGGAGCAAGATGAAGCTACAATACC
1 AAATCTTATC-TCCTTGAAGATGCAGTGGAGCAAGATGAAGCTACAATAGC
* * * * * * * *
33648687 AAATCCTAT-TTCTCTAAAGTTGTAGTGGATCAAG-TTAATGCTACAGTAGC
1 AAATCTTATCTCCT-TGAAGATGCAGTGGAGCAAGATGAA-GCTACAATAGC
* * * * * * **
33648737 AAATCTCATCTCCCTGAAGATGCAGTAGAGAAAGATGAAGCTATAACATT
1 AAATCTTATCTCCTTGAAGATGCAGTGGAGCAAGATGAAGCTACAATAGC
* * * * * * * * * * * *
33648787 AAGTCCTATATCCCTGAAGTTACAATGTACCGA-ATTAAGTCTACAGTAGC
1 AAATCTTATCTCCTTGAAGATGCAGTGGAGCAAGATGAAG-CTACAATAGC
* * * *
33648837 AAATCTTATCTCCTTGAAAATGCAGTGGAGCAAGATGAAGTTACAACACC
1 AAATCTTATCTCCTTGAAGATGCAGTGGAGCAAGATGAAGCTACAATAGC
* * * * * * * * * *
33648887 AAATCTTATATCCCTGAAGTTGTAATGGATC-AGATTAAAACTACAGTAGA
1 AAATCTTATCTCCTTGAAGATGCAGTGGAGCAAGA-TGAAGCTACAATAGC
* * * * *
33648937 AAATCTTATCTCCTTAAAGATGTAGTTGA-CTAAGATGAAGCTATAATACC
1 AAATCTTATCTCCTTGAAGATGCAGTGGAGC-AAGATGAAGCTACAATAGC
* * * * * * * * *
33648987 AAATCATAT-TTCTCTAAAGTTGTAGTGGATCGAA-TTAAAGCTACAGTAGC
1 AAATCTTATCTCCT-TGAAGATGCAGTGGAGC-AAGATGAAGCTACAATAGC
* * ** * * * *
33649037 AAATCTCATCTCCCTGAAGATAAAGTGGAGAAAGTTGAAGCTACAACATC
1 AAATCTTATCTCCTTGAAGATGCAGTGGAGCAAGATGAAGCTACAATAGC
* * * * * * * * * ** ** *
33649087 AAATCTTATATCCCTAAAGTTACAGTAGATC-GGATCAAAATGATTATAAC
1 AAATCTTATCTCCTTGAAGATGCAGTGGAGCAAGATGAAGCT-ACAATAGC
* * * * * * *
33649137 AAATCTTATCT-ATCTGAAGTTGCAGTAGAGGAAGATGAGGCTACAACATC
1 AAATCTTATCTCCT-TGAAGATGCAGTGGAGCAAGATGAAGCTACAATAGC
* * * * * * * * * * * *
33649187 AAATCCTATATCCCTGAAGTTGCAATGGATCAAGTTAAAACTATAGTATC
1 AAATCTTATCTCCTTGAAGATGCAGTGGAGCAAGATGAAGCTACAATAGC
* * * * *
33649237 AAATCTTATCTCCCTAAAGATGTAGTGGAGCAAGATGAAGCTACAACACC
1 AAATCTTATCTCCTTGAAGATGCAGTGGAGCAAGATGAAGCTACAATAGC
* * * ** * * * * * *
33649287 AAATCCTATATCCCTGAA-ATTATAGTGGATCGAA-TTAAAACTATAGT-GC
1 AAATCTTATCTCCTTGAAGA-TGCAGTGGAGC-AAGATGAAGCTACAATAGC
* * * * * * *
33649336 AAATCTTATCTCC-TGAAGATGTAGTAGAGTAAGATGAAGTTACGACATC
1 AAATCTTATCTCCTTGAAGATGCAGTGGAGCAAGATGAAGCTACAATAGC
* * * * * * *
33649385 AAATCCTATATCCCTGAAGTTGAAGTGGATC-AGATTGAAGCTACAAAAGC
1 AAATCTTATCTCCTTGAAGATGCAGTGGAGCAAGA-TGAAGCTACAATAGC
* * * * *
33649435 AAATCTTATCACCTTGATGATGTAGCGGAGCAAGATGAAGCAAC-AT--C
1 AAATCTTATCTCCTTGAAGATGCAGTGGAGCAAGATGAAGCTACAATAGC
* * * *
33649482 AAATCTTATATCCTTGAAGATGTAGTGGATC-AGATTGAAGCTACAATAAC
1 AAATCTTATCTCCTTGAAGATGCAGTGGAGCAAGA-TGAAGCTACAATAGC
* * * * * *
33649532 AAATCTTATCTCCCTAAAGATGCAATGGAGTAAGATGAAGCTACAACATC
1 AAATCTTATCTCCTTGAAGATGCAGTGGAGCAAGATGAAGCTACAATAGC
* * * * * * * * * *
33649582 GAATCCTATATCCCTCAAG-TCGCAGTCGATCGAA-TTGAAACTACATTAGC
1 AAATCTTATCTCCTTGAAGAT-GCAGTGGAGC-AAGATGAAGCTACAATAGC
* * * *
33649632 AAGTCCTATCTCCCTGAAGATGCAGTGGAGTAAGA
1 AAATCTTATCTCCTTGAAGATGCAGTGGAGCAAGA
33649667 AAAATCCTGA
Statistics
Matches: 1246, Mismatches: 457, Indels: 144
0.67 0.25 0.08
Matches are distributed among these distances:
46 3 0.00
47 39 0.03
48 57 0.05
49 167 0.13
50 925 0.74
51 54 0.04
52 1 0.00
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (50 bp):
AAATCTTATCTCCTTGAAGATGCAGTGGAGCAAGATGAAGCTACAATAGC
Found at i:33647985 original size:100 final size:100
Alignment explanation
Indices: 33647836--33649666 Score: 1516
Period size: 100 Copynumber: 18.4 Consensus size: 100
33647826 GTGAAGTTAT
* * * * *
33647836 AGTAGAAAATCTTATCTCCTTGAAGATGCAATAGAGCAAGATGAAGCTACAATATCAAATCCTAT
1 AGTAGCAAATCTTATCTCCCTGAAGATGCAGTGGAGCAAGATGAAGCTACAACATCAAATCCTAT
* * * *
33647901 ATCCATGAAGATGTAGTGGATTGAATTGAAACCAC
66 ATCCCTGAAGTTGTAGTGGATTGAATTAAAACTAC
* * * * * * *
33647936 AGTAGCAAATCTTATCTCCCTAAAAATACAGTGTAGCAAAATGACGCTACAACACCAAATCCTAT
1 AGTAGCAAATCTTATCTCCCTGAAGATGCAGTGGAGCAAGATGAAGCTACAACATCAAATCCTAT
* * * * *
33648001 ATCCTTGAAGTTGCAGTGGA-TCAGATTAAAGCTAT
66 ATCCCTGAAGTTGTAGTGGATTGA-ATTAAAACTAC
* * *
33648036 AGTAGCAAATCTTATCTCCTTGAGGATGCAGT-GAGCAAGATGAAGCTACAACATCAAATCTTAT
1 AGTAGCAAATCTTATCTCCCTGAAGATGCAGTGGAGCAAGATGAAGCTACAACATCAAATCCTAT
* ** *
33648100 ATCCCTAAAGTTACAGTGGA-TCATATTAAAACTAC
66 ATCCCTGAAGTTGTAGTGGATTGA-ATTAAAACTAC
** * * * *
33648135 AGTAGCAAATCTTATCTATCTGAAGATGCAGTGGAGCATGCTAAAGCTACAAACA-CAAATCATA
1 AGTAGCAAATCTTATCTCCCTGAAGATGCAGTGGAGCAAGATGAAGCTAC-AACATCAAATCCTA
* ** * *
33648199 TATCACTGAAGTTACAGTGGATCGGATTAAAACTAC
65 TATCCCTGAAGTTGTAGTGGATTGAATTAAAACTAC
* * * * ** * *
33648235 ATTAGAAAAGCTTATCTCCTTGAAGATG-ATGTGGATAAAGATGAAGCTACAACACCAATTCCTA
1 AGTAGCAAATCTTATCTCCCTGAAGATGCA-GTGGAGCAAGATGAAGCTACAACATCAAATCCTA
* * *
33648299 TATCCCTGAAGTTGCAGTGGATT-AGATTAAAGCTAT
65 TATCCCTGAAGTTGTAGTGGATTGA-ATTAAAACTAC
* * * * * *
33648335 AGTAGCAAATCTCATCTCCTTGAAGATGTAGTAGAGC--GATGAAGCTACAACGTCAAATTCTAT
1 AGTAGCAAATCTTATCTCCCTGAAGATGCAGTGGAGCAAGATGAAGCTACAACATCAAATCCTAT
* * * * **
33648398 AACCTTGAAGTTGTAGTGGATCGGATCGAAACTAC
66 ATCCCTGAAGTTGTAGTGGATTGAATTAAAACTAC
* ** * * ** * * * * * *
33648433 -GATAGCAAATCTTATGTCTTTAAAGTTTTAGTAGAGCAAGTTGAA-ATACAATATCAAGTCTTA
1 AG-TAGCAAATCTTATCTCCCTGAAGATGCAGTGGAGCAAGATGAAGCTACAACATCAAATCCTA
* * *
33648496 TATCCCTAAAATTGTAGTGGA-TCAGATTAAAACTAC
65 TATCCCTGAAGTTGTAGTGGATTGA-ATTAAAACTAC
* * * * *
33648532 AGTAGCAAATCGTATCTCCCTAAAGAT-CAATGAAGCAAGATGAAGCTACAACACCAAATCCTAT
1 AGTAGCAAATCTTATCTCCCTGAAGATGCAGTGGAGCAAGATGAAGCTACAACATCAAATCCTAT
* * * *
33648596 ATCCTTGAAGTTGTAGTGGATCGAATTATATCTAC
66 ATCCCTGAAGTTGTAGTGGATTGAATTAAAACTAC
* * * * *
33648631 AGTAGCAAATCTCATCTTCCTGAAGATGTAGTGGAGCAAGATGAAGCTACAATACCAAATCCTAT
1 AGTAGCAAATCTTATCTCCCTGAAGATGCAGTGGAGCAAGATGAAGCTACAACATCAAATCCTAT
* * * * **
33648696 TTCTCTAAAGTTGTAGTGGA-TCAAGTTAATGCTAC
66 ATCCCTGAAGTTGTAGTGGATTGAA-TTAAAACTAC
* * * * * *
33648731 AGTAGCAAATCTCATCTCCCTGAAGATGCAGTAGAGAAAGATGAAGCTATAACATTAAGTCCTAT
1 AGTAGCAAATCTTATCTCCCTGAAGATGCAGTGGAGCAAGATGAAGCTACAACATCAAATCCTAT
** * * ** **
33648796 ATCCCTGAAGTTACAATGTACCGAATTAAGTCTAC
66 ATCCCTGAAGTTGTAGTGGATTGAATTAAAACTAC
* * * * *
33648831 AGTAGCAAATCTTATCTCCTTGAAAATGCAGTGGAGCAAGATGAAGTTACAACACCAAATCTTAT
1 AGTAGCAAATCTTATCTCCCTGAAGATGCAGTGGAGCAAGATGAAGCTACAACATCAAATCCTAT
* *
33648896 ATCCCTGAAGTTGTAATGGA-TCAGATTAAAACTAC
66 ATCCCTGAAGTTGTAGTGGATTGA-ATTAAAACTAC
* * * * * * * * *
33648931 AGTAGAAAATCTTATCTCCTTAAAGATGTAGTTGA-CTAAGATGAAGCTATAATACCAAATCATA
1 AGTAGCAAATCTTATCTCCCTGAAGATGCAGTGGAGC-AAGATGAAGCTACAACATCAAATCCTA
* * * * *
33648995 TTTCTCTAAAGTTGTAGTGGATCGAATTAAAGCTAC
65 TATCCCTGAAGTTGTAGTGGATTGAATTAAAACTAC
* ** * * *
33649031 AGTAGCAAATCTCATCTCCCTGAAGATAAAGTGGAGAAAGTTGAAGCTACAACATCAAATCTTAT
1 AGTAGCAAATCTTATCTCCCTGAAGATGCAGTGGAGCAAGATGAAGCTACAACATCAAATCCTAT
* ** * * * * *
33649096 ATCCCTAAAGTTACAGTAGATCGGATCAAAA-TGATT
66 ATCCCTGAAGTTGTAGTGGATTGAATTAAAACT-A-C
* ** * * * *
33649132 A-TAACAAATCTTATCTATCTGAAGTTGCAGTAGAGGAAGATGAGGCTACAACATCAAATCCTAT
1 AGTAGCAAATCTTATCTCCCTGAAGATGCAGTGGAGCAAGATGAAGCTACAACATCAAATCCTAT
* * * *
33649196 ATCCCTGAAGTTGCAATGGA-TCAAGTTAAAACTAT
66 ATCCCTGAAGTTGTAGTGGATTGAA-TTAAAACTAC
* * * *
33649231 AGTATCAAATCTTATCTCCCTAAAGATGTAGTGGAGCAAGATGAAGCTACAACACCAAATCCTAT
1 AGTAGCAAATCTTATCTCCCTGAAGATGCAGTGGAGCAAGATGAAGCTACAACATCAAATCCTAT
* * * *
33649296 ATCCCTGAAATTATAGTGGATCGAATTAAAACTAT
66 ATCCCTGAAGTTGTAGTGGATTGAATTAAAACTAC
* * * * *
33649331 AGT-GCAAATCTTATCT-CCTGAAGATGTAGTAGAGTAAGATGAAGTTACGACATCAAATCCTAT
1 AGTAGCAAATCTTATCTCCCTGAAGATGCAGTGGAGCAAGATGAAGCTACAACATCAAATCCTAT
* * * *
33649394 ATCCCTGAAGTTGAAGTGGA-TCAGATTGAAGCTAC
66 ATCCCTGAAGTTGTAGTGGATTGA-ATTAAAACTAC
** * * * * * *
33649429 AAAAGCAAATCTTATCACCTTGATGATGTAGCGGAGCAAGATGAAG---CAACATCAAATCTTAT
1 AGTAGCAAATCTTATCTCCCTGAAGATGCAGTGGAGCAAGATGAAGCTACAACATCAAATCCTAT
* * * * *
33649491 ATCCTTGAAGATGTAGTGGA-TCAGATTGAAGCTAC
66 ATCCCTGAAGTTGTAGTGGATTGA-ATTAAAACTAC
* * * * * *
33649526 AATAACAAATCTTATCTCCCTAAAGATGCAATGGAGTAAGATGAAGCTACAACATCGAATCCTAT
1 AGTAGCAAATCTTATCTCCCTGAAGATGCAGTGGAGCAAGATGAAGCTACAACATCAAATCCTAT
* * * * * *
33649591 ATCCCTCAAGTCGCAGTCGATCGAATTGAAACTAC
66 ATCCCTGAAGTTGTAGTGGATTGAATTAAAACTAC
* * * *
33649626 ATTAGCAAGTCCTATCTCCCTGAAGATGCAGTGGAGTAAGA
1 AGTAGCAAATCTTATCTCCCTGAAGATGCAGTGGAGCAAGA
33649667 AAAATCCTGA
Statistics
Matches: 1379, Mismatches: 316, Indels: 72
0.78 0.18 0.04
Matches are distributed among these distances:
97 84 0.06
98 155 0.11
99 244 0.18
100 883 0.64
101 13 0.01
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (100 bp):
AGTAGCAAATCTTATCTCCCTGAAGATGCAGTGGAGCAAGATGAAGCTACAACATCAAATCCTAT
ATCCCTGAAGTTGTAGTGGATTGAATTAAAACTAC
Found at i:33651367 original size:22 final size:21
Alignment explanation
Indices: 33651327--33651367 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
33651317 TATTTTAGTC
33651327 CTTTTATTTTTATTTATTTAG
1 CTTTTATTTTTATTTATTTAG
33651348 CTTTTAGTATTTT-TTTATTT
1 CTTTTA-T-TTTTATTTATTT
33651368 CATGTCATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.33
22 8 0.44
23 4 0.22
ACGTcount: A:0.17, C:0.05, G:0.05, T:0.73
Consensus pattern (21 bp):
CTTTTATTTTTATTTATTTAG
Found at i:33655065 original size:41 final size:41
Alignment explanation
Indices: 33655009--33655150 Score: 221
Period size: 41 Copynumber: 3.4 Consensus size: 41
33654999 AACTATATAT
* *
33655009 TTAAATGGAAGACTCACGTCTCGGGATGAGAATGAGATCATA
1 TTAAA-GGAAGACTCATGTCTCAGGATGAGAATGAGATCATA
*
33655051 TTAAAGGAAAACTCATGTCTCAGGATGAGAATGAGATCATA
1 TTAAAGGAAGACTCATGTCTCAGGATGAGAATGAGATCATA
** *
33655092 TTAAAGGAAGACTCATGTCTTTGGATGAGAATGAGATTATA
1 TTAAAGGAAGACTCATGTCTCAGGATGAGAATGAGATCATA
33655133 TTAAAGGAAGACTCATGT
1 TTAAAGGAAGACTCATGT
33655151 TTCAAAATGA
Statistics
Matches: 93, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
41 88 0.95
42 5 0.05
ACGTcount: A:0.38, C:0.11, G:0.24, T:0.27
Consensus pattern (41 bp):
TTAAAGGAAGACTCATGTCTCAGGATGAGAATGAGATCATA
Found at i:33663247 original size:21 final size:20
Alignment explanation
Indices: 33663217--33663257 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
33663207 GAAAAATTCT
*
33663217 CAAATCAAAATCCAAAGTCC
1 CAAATCAAAAACCAAAGTCC
33663237 CAAATGCAAAAACCAAAGTCC
1 CAAAT-CAAAAACCAAAGTCC
33663258 AAAAATAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.51, C:0.29, G:0.07, T:0.12
Consensus pattern (20 bp):
CAAATCAAAAACCAAAGTCC
Found at i:33665841 original size:5 final size:5
Alignment explanation
Indices: 33665831--33665855 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
33665821 AGAGAAAATG
33665831 AGAGA AGAGA AGAGA AGAGA AGAGA
1 AGAGA AGAGA AGAGA AGAGA AGAGA
33665856 GGTGTTGATG
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:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (5 bp):
AGAGA
Found at i:33670073 original size:54 final size:54
Alignment explanation
Indices: 33669991--33670100 Score: 193
Period size: 54 Copynumber: 2.0 Consensus size: 54
33669981 CATGGAAATT
*
33669991 AATATTCTTTTGGAAATGATATAATGTTTTAATAACTTTCCATATAATTCTCTA
1 AATATCCTTTTGGAAATGATATAATGTTTTAATAACTTTCCATATAATTCTCTA
* *
33670045 AATATCCTTTTGGAAATGATATAATGTTTTAATAGCTTTCCATATATTTCTCTA
1 AATATCCTTTTGGAAATGATATAATGTTTTAATAACTTTCCATATAATTCTCTA
33670099 AA
1 AA
33670101 GGTATAATTC
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.45
Consensus pattern (54 bp):
AATATCCTTTTGGAAATGATATAATGTTTTAATAACTTTCCATATAATTCTCTA
Found at i:33670168 original size:175 final size:175
Alignment explanation
Indices: 33669870--33670221 Score: 625
Period size: 175 Copynumber: 2.0 Consensus size: 175
33669860 AATGGATATT
33669870 AATATCATTTTGGAAAGGATATAATGTTTTAATAGCTTTCCATATATTTCTCTAAAGGAATATTC
1 AATATCATTTTGGAAAGGATATAATGTTTTAATAGCTTTCCATATATTTCTCTAAAGGAATATTC
* *
33669935 CATTTTAATATAAAATATTAAATAAAATGAAATTTAGTATTAAAAACATGGAAATTAATATTCTT
66 CATTTTAATATAAAATATTAAATAAAAGGAAATTTAATATTAAAAACATGGAAATTAATATTCTT
33670000 TTGGAAATGATATAATGTTTTAATAACTTTCCATATAATTCTCTA
131 TTGGAAATGATATAATGTTTTAATAACTTTCCATATAATTCTCTA
* * *
33670045 AATATCCTTTTGGAAATGATATAATGTTTTAATAGCTTTCCATATATTTCTCTAAAGGTATAATT
1 AATATCATTTTGGAAAGGATATAATGTTTTAATAGCTTTCCATATATTTCTCTAAAGGAAT-ATT
33670110 CCATTTTAATA-AAAATATTAAATAAAAGGAAATTTAATATTAAAAACATGGAAATTAATATTCT
65 CCATTTTAATATAAAATATTAAATAAAAGGAAATTTAATATTAAAAACATGGAAATTAATATTCT
* *
33670174 TTTGGAAATGATATAATGTTTTAATAACTTTCCATATATTTTTCTA
130 TTTGGAAATGATATAATGTTTTAATAACTTTCCATATAATTCTCTA
33670220 AA
1 AA
33670222 GGAATAATTC
Statistics
Matches: 169, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
175 155 0.92
176 14 0.08
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (175 bp):
AATATCATTTTGGAAAGGATATAATGTTTTAATAGCTTTCCATATATTTCTCTAAAGGAATATTC
CATTTTAATATAAAATATTAAATAAAAGGAAATTTAATATTAAAAACATGGAAATTAATATTCTT
TTGGAAATGATATAATGTTTTAATAACTTTCCATATAATTCTCTA
Found at i:33670169 original size:21 final size:22
Alignment explanation
Indices: 33670123--33670171 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
33670113 TTTTAATAAA
33670123 AATATTAAATAAAAGGAAATTT
1 AATATTAAATAAAAGGAAATTT
*
33670145 AATATTAAA-AACATGGAAA-TT
1 AATATTAAATAA-AAGGAAATTT
33670166 AATATT
1 AATATT
33670172 CTTTTGGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 10 0.40
22 15 0.60
ACGTcount: A:0.57, C:0.02, G:0.08, T:0.33
Consensus pattern (22 bp):
AATATTAAATAAAAGGAAATTT
Found at i:33670284 original size:21 final size:22
Alignment explanation
Indices: 33670245--33670292 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
33670235 TTTAATATGA
33670245 AATATTAAATAAAATGAAA-TT
1 AATATTAAATAAAATGAAAGTT
*
33670266 GAATATTAAA-AACATGAAAGTT
1 -AATATTAAATAAAATGAAAGTT
33670288 AATAT
1 AATAT
33670293 CCTTTTAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 13 0.54
22 11 0.46
ACGTcount: A:0.58, C:0.02, G:0.08, T:0.31
Consensus pattern (22 bp):
AATATTAAATAAAATGAAAGTT
Found at i:33670320 original size:122 final size:122
Alignment explanation
Indices: 33670045--33670624 Score: 828
Period size: 122 Copynumber: 4.8 Consensus size: 122
33670035 TAATTCTCTA
* *
33670045 AATATCCTTTTGGAAATGATATAATGTTTTAATAGCTTTCCATATATTTCTCTAAAGGTATAATT
1 AATATCCTTTTGGAAATGATATAATGTTTTAATAACTTTCCATATATTTCTCTAAAGGAATAATT
* * * * *
33670110 CCATTTTAATA-AAAATATTAAATAAAAGGAAATTTAATATTAAAAACATGGAAATT
66 CCATTTTAATATGAAATATTAAATAAAATGAAATTGAATATTAAAAACATAGAAGTT
* *
33670166 AATATTCTTTTGGAAATGATATAATGTTTTAATAACTTTCCATATATTTTTCTAAAGGAATAATT
1 AATATCCTTTTGGAAATGATATAATGTTTTAATAACTTTCCATATATTTCTCTAAAGGAATAATT
33670231 CCATTTTAATATGAAATATTAAATAAAATGAAATTGAATATTAAAAACAT-GAAAGTT
66 CCATTTTAATATGAAATATTAAATAAAATGAAATTGAATATTAAAAACATAG-AAGTT
* * * *
33670288 AATATCCTTTTAGAAAGGATATAATGTTTTAATAACTTTCCATAAATTTCTCTAAAGAAATAATT
1 AATATCCTTTTGGAAATGATATAATGTTTTAATAACTTTCCATATATTTCTCTAAAGGAATAATT
*
33670353 CCATTTTAATATGAAATATTAAATAAAATGAAATTAAATATTAAAAACATAGAAGTT
66 CCATTTTAATATGAAATATTAAATAAAATGAAATTGAATATTAAAAACATAGAAGTT
* * * * *
33670410 AATATCCTTTTGGAAAGGATAT-ATGTTTTAATAAACCTTGCATATATTTCTCTAAAGAAATATT
1 AATATCCTTTTGGAAATGATATAATGTTTTAAT-AACTTTCCATATATTTCTCTAAAGGAATAAT
* *
33670474 TCTATTTTAATATGAGATATTAAATAAAA-GAAAATTGAATATTAAAAACATAGAAGTT
65 TCCATTTTAATATGAAATATTAAATAAAATG-AAATTGAATATTAAAAACATAGAAGTT
* * * *
33670532 AATATCTTTTTGGAAATGATATAATGCTTTAATAAACCTTCCATATATTTTTCTAAAGGAAT-AT
1 AATATCCTTTTGGAAATGATATAATGTTTTAAT-AACTTTCCATATATTTCTCTAAAGGAATAAT
*** *
33670596 TTTGTTTTAATATGAGATATTAAATAAAA
65 TCCATTTTAATATGAAATATTAAATAAAA
33670625 GGAATGATAG
Statistics
Matches: 421, Mismatches: 32, Indels: 11
0.91 0.07 0.02
Matches are distributed among these distances:
121 84 0.20
122 301 0.71
123 36 0.09
ACGTcount: A:0.44, C:0.08, G:0.09, T:0.39
Consensus pattern (122 bp):
AATATCCTTTTGGAAATGATATAATGTTTTAATAACTTTCCATATATTTCTCTAAAGGAATAATT
CCATTTTAATATGAAATATTAAATAAAATGAAATTGAATATTAAAAACATAGAAGTT
Found at i:33677881 original size:21 final size:21
Alignment explanation
Indices: 33677828--33677908 Score: 76
Period size: 21 Copynumber: 3.9 Consensus size: 21
33677818 CAAGAATAGT
33677828 GTAA-ACTTCTACCGATACAA
1 GTAATACTTCTACCGATACAA
* *
33677848 GTAATAGTCCTACCGATACAA
1 GTAATACTTCTACCGATACAA
* *
33677869 GTGACT-CTTCTACCAATACAA
1 GT-AATACTTCTACCGATACAA
** *
33677890 GTCTTACTTCTATCGATAC
1 GTAATACTTCTACCGATAC
33677909 TAAAAACTCC
Statistics
Matches: 48, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
20 5 0.10
21 41 0.85
22 2 0.04
ACGTcount: A:0.33, C:0.26, G:0.11, T:0.30
Consensus pattern (21 bp):
GTAATACTTCTACCGATACAA
Found at i:33720193 original size:107 final size:108
Alignment explanation
Indices: 33720057--33720263 Score: 317
Period size: 107 Copynumber: 1.9 Consensus size: 108
33720047 TAAACAAATG
* * *
33720057 ACATTTATCGATTTTAAATAGCGTGTTCAATTATTTAGGTTCAAAGAAAAATCATACTCAGTAAG
1 ACATTTATCGATTTTAAATAGCGTGTTCAACTATTTAGGTTCAAAGAAAAATCATACCCAATAAG
* *
33720122 TTTGGGCACAATTTCTCGAGTTCCCT-AAATAAAAAAAATCAA
66 TTAGGGCACAATTTCTCGAATTCCCTAAAATAAAAAAAATCAA
* * *
33720164 ACATTTATTGATTTTAAATAGGGTGTTCAACTATTTAGGTTCAAAGAAAAATCATACCCAATACG
1 ACATTTATCGATTTTAAATAGCGTGTTCAACTATTTAGGTTCAAAGAAAAATCATACCCAATAAG
* *
33720229 TTAGGGTACAATTTCTTGAATTCCCTAAAATAAAA
66 TTAGGGCACAATTTCTCGAATTCCCTAAAATAAAA
33720264 GAACATTGCC
Statistics
Matches: 89, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
107 81 0.91
108 8 0.09
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.33
Consensus pattern (108 bp):
ACATTTATCGATTTTAAATAGCGTGTTCAACTATTTAGGTTCAAAGAAAAATCATACCCAATAAG
TTAGGGCACAATTTCTCGAATTCCCTAAAATAAAAAAAATCAA
Found at i:33722511 original size:18 final size:18
Alignment explanation
Indices: 33722487--33722536 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
33722477 TGATTCAAGT
*
33722487 GAAGATCCTAAGGAAG-A
1 GAAGATCCTAAAGAAGAA
*
33722504 GAAAGATCCAAAAGAAGAA
1 G-AAGATCCTAAAGAAGAA
*
33722523 GAAGATCCTGAAGA
1 GAAGATCCTAAAGA
33722537 GACAGAACAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 1 0.04
18 24 0.89
19 2 0.07
ACGTcount: A:0.52, C:0.12, G:0.26, T:0.10
Consensus pattern (18 bp):
GAAGATCCTAAAGAAGAA
Found at i:33737406 original size:28 final size:28
Alignment explanation
Indices: 33737375--33737431 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
33737365 AGTCGTTTTG
* * *
33737375 TAGGAAACCAGAAGGTGGGGATTTTCTT
1 TAGGAAACAAAAAGGTGGGGACTTTCTT
33737403 TAGGAAACAAAAAGGTGGGGACTTTCTT
1 TAGGAAACAAAAAGGTGGGGACTTTCTT
33737431 T
1 T
33737432 CCTCACCTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.28
Consensus pattern (28 bp):
TAGGAAACAAAAAGGTGGGGACTTTCTT
Found at i:33744088 original size:9 final size:9
Alignment explanation
Indices: 33744074--33744099 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
33744064 AACAAGTGAC
33744074 TAATGCCTT
1 TAATGCCTT
33744083 TAATGCCTT
1 TAATGCCTT
33744092 TAATGCCT
1 TAATGCCT
33744100 GCAATGATCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.23, G:0.12, T:0.42
Consensus pattern (9 bp):
TAATGCCTT
Found at i:33747058 original size:18 final size:17
Alignment explanation
Indices: 33747035--33747088 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
33747025 AAAGAAAGTT
33747035 AAACAGATTAGTAAACA
1 AAACAGATTAGTAAACA
*
33747052 CAAACAG-TTAAGT-AAGA
1 -AAACAGATT-AGTAAACA
*
33747069 AAATAGATTAGTAAACA
1 AAACAGATTAGTAAACA
33747086 AAA
1 AAA
33747089 ACAGTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
16 8 0.27
17 13 0.43
18 9 0.30
ACGTcount: A:0.59, C:0.09, G:0.13, T:0.19
Consensus pattern (17 bp):
AAACAGATTAGTAAACA
Found at i:33747082 original size:34 final size:34
Alignment explanation
Indices: 33747039--33747104 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
33747029 AAAGTTAAAC
*
33747039 AGATTAGTAAACACAAACAGTTAAGTAAGAAAAT
1 AGATTAGTAAACAAAAACAGTTAAGTAAGAAAAT
33747073 AGATTAGTAAACAAAAACAGTTAAGTAAGAAA
1 AGATTAGTAAACAAAAACAGTTAAGTAAGAAA
33747105 GAATAATTGC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.58, C:0.08, G:0.15, T:0.20
Consensus pattern (34 bp):
AGATTAGTAAACAAAAACAGTTAAGTAAGAAAAT
Found at i:33747100 original size:18 final size:18
Alignment explanation
Indices: 33747035--33747092 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
33747025 AAAGAAAGTT
*
33747035 AAACAGATTAGTAAACAC
1 AAACAGATTAGTAAACAA
*
33747053 AAACAG-TTAAGT-AA-GA
1 AAACAGATT-AGTAAACAA
*
33747069 AAATAGATTAGTAAACAA
1 AAACAGATTAGTAAACAA
33747087 AAACAG
1 AAACAG
33747093 TTAAGTAAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 8
0.70 0.11 0.18
Matches are distributed among these distances:
16 8 0.26
17 8 0.26
18 15 0.48
ACGTcount: A:0.59, C:0.10, G:0.14, T:0.17
Consensus pattern (18 bp):
AAACAGATTAGTAAACAA
Found at i:33756016 original size:31 final size:31
Alignment explanation
Indices: 33755970--33756048 Score: 101
Period size: 31 Copynumber: 2.6 Consensus size: 31
33755960 CCAATGGCTA
33755970 ATATATTT-TTTAAATAAGTTCTTAAATGATT
1 ATAT-TTTATTTAAATAAGTTCTTAAATGATT
*
33756001 ATATTTTATTTAAATAAGTTCTTAAATTATT
1 ATATTTTATTTAAATAAGTTCTTAAATGATT
* *
33756032 -T-TTGTAGTTAAATAAGT
1 ATATTTTATTTAAATAAGT
33756049 ACCTATGTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
29 14 0.32
30 4 0.09
31 26 0.59
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.52
Consensus pattern (31 bp):
ATATTTTATTTAAATAAGTTCTTAAATGATT
Found at i:33759274 original size:26 final size:26
Alignment explanation
Indices: 33759196--33759337 Score: 88
Period size: 26 Copynumber: 5.0 Consensus size: 26
33759186 TAATTCATAT
*
33759196 TTTAATAATAATTATATTAAAAATATTA
1 TTTAATAATAATTATATT--AAATTTTA
* *
33759224 TTAAATTATATATTATTTTATTAAATTTTA
1 TTTAA-TA-ATA--ATTATATTAAATTTTA
33759254 TTTAATAATAATTATATTAAAATATAATTAA
1 TTTAATAATAATTATATT-AAAT-T--TT-A
* * * *
33759285 ATTAATTAATATTTTTATTAAATTATA
1 TTTAA-TAATAATTATATTAAATTTTA
*
33759312 TTTAATAATAATCT-TATTAAAATTTA
1 TTTAATAATAAT-TATATTAAATTTTA
33759338 ATAAGAATAA
Statistics
Matches: 90, Mismatches: 13, Indels: 24
0.71 0.10 0.19
Matches are distributed among these distances:
26 23 0.26
27 10 0.11
28 9 0.10
29 4 0.04
30 17 0.19
31 9 0.10
32 18 0.20
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (26 bp):
TTTAATAATAATTATATTAAATTTTA
Found at i:33759304 original size:32 final size:31
Alignment explanation
Indices: 33759197--33759323 Score: 99
Period size: 32 Copynumber: 4.3 Consensus size: 31
33759187 AATTCATATT
*
33759197 TTAATAATAATTATATTAAAAATATTATTAAA
1 TTAATAATAATTATATT-AAAATATAATTAAA
* * *
33759229 TT-ATATATTATTTTATT-AAAT-T--TT-AT
1 TTAATA-ATAATTATATTAAAATATAATTAAA
33759255 TTAATAATAATTATATTAAAATATAATTAAA
1 TTAATAATAATTATATTAAAATATAATTAAA
* * * *
33759286 TTAATTAATATTTTTATTAAATTAT-ATTTAA
1 TTAA-TAATAATTATATTAAAATATAATTAAA
33759317 -TAATAAT
1 TTAATAAT
33759324 CTTATTAAAA
Statistics
Matches: 77, Mismatches: 10, Indels: 19
0.73 0.09 0.18
Matches are distributed among these distances:
26 12 0.16
27 9 0.12
28 1 0.01
29 5 0.06
30 9 0.12
31 13 0.17
32 28 0.36
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (31 bp):
TTAATAATAATTATATTAAAATATAATTAAA
Found at i:33759334 original size:58 final size:58
Alignment explanation
Indices: 33759169--33759339 Score: 206
Period size: 58 Copynumber: 2.9 Consensus size: 58
33759159 TCTAATATTA
* * *
33759169 TATATTATAATTTTTACT-AATTCATATTTTAATAATAATTATATTAAAAATATTATTAAAT
1 TATATAAT-ATTTTTATTAAATT-ATA-TTTAATAATAATTATATT-AAAATATAATTAAAT
* *
33759230 TATATATTA-TTTTATTAAATTTTATTTAATAATAATTATATTAAAATATAATTAAAT
1 TATATAATATTTTTATTAAATTATATTTAATAATAATTATATTAAAATATAATTAAAT
*
33759287 TA-ATTAATATTTTTATTAAATTATATTTAATAATAATCT-TATTAAAATTTAAT
1 TATA-TAATATTTTTATTAAATTATATTTAATAATAAT-TATATTAAAATATAAT
33759340 AAGAATAATC
Statistics
Matches: 98, Mismatches: 8, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
56 1 0.01
57 20 0.20
58 57 0.58
59 9 0.09
60 5 0.05
61 6 0.06
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (58 bp):
TATATAATATTTTTATTAAATTATATTTAATAATAATTATATTAAAATATAATTAAAT
Found at i:33759464 original size:39 final size:44
Alignment explanation
Indices: 33759409--33759513 Score: 114
Period size: 46 Copynumber: 2.5 Consensus size: 44
33759399 TTTCTTATGC
*
33759409 TATTACAGCATC-ATTCCATT-CAACCAA-ACACAA-GAA-TA-T
1 TATTACAGC-TCTATTCCATTCCAACCAACAAACAATGAATTACT
*
33759448 TATTACAGCTCTATTCCATTCCAATCAACCAAACAATTGAATTACT
1 TATTACAGCTCTATTCCATTCCAACCAA-CAAACAA-TGAATTACT
*
33759494 GATTACAGCTCTATTCCATT
1 TATTACAGCTCTATTCCATT
33759514 ACAGCGAACC
Statistics
Matches: 55, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
38 2 0.04
39 17 0.31
40 6 0.11
42 5 0.09
44 3 0.05
45 2 0.04
46 20 0.36
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (44 bp):
TATTACAGCTCTATTCCATTCCAACCAACAAACAATGAATTACT
Found at i:33759512 original size:46 final size:44
Alignment explanation
Indices: 33759420--33759513 Score: 127
Period size: 44 Copynumber: 2.1 Consensus size: 44
33759410 ATTACAGCAT
* *
33759420 CATTCCATTCAACCAAACACAAGAATATTATTACAGCTCTATTC
1 CATTCCAATCAACCAAACACAAGAATATGATTACAGCTCTATTC
*
33759464 CATTCCAATCAACCAAACA-ATTGAATTACTGATTACAGCTCTATTC
1 CATTCCAATCAACCAAACACA-AGAA-TA-TGATTACAGCTCTATTC
33759510 CATT
1 CATT
33759514 ACAGCGAACC
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
43 1 0.02
44 21 0.48
45 2 0.05
46 20 0.45
ACGTcount: A:0.37, C:0.27, G:0.05, T:0.31
Consensus pattern (44 bp):
CATTCCAATCAACCAAACACAAGAATATGATTACAGCTCTATTC
Found at i:33770900 original size:26 final size:26
Alignment explanation
Indices: 33770834--33770914 Score: 99
Period size: 26 Copynumber: 3.1 Consensus size: 26
33770824 AATTTTGGAC
* * * *
33770834 ACAATTCTGGACGTACTCATGTAACG
1 ACAATTCTGGACATGCTTATGTAGCG
*
33770860 ACAATTCTGGACATGTTTATGTAGCG
1 ACAATTCTGGACATGCTTATGTAGCG
**
33770886 ACAATTCTGGACATGCTTATACAGCG
1 ACAATTCTGGACATGCTTATGTAGCG
33770912 ACA
1 ACA
33770915 TTAGTAGTAA
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 47 1.00
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (26 bp):
ACAATTCTGGACATGCTTATGTAGCG
Found at i:33771672 original size:23 final size:23
Alignment explanation
Indices: 33771646--33771690 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
33771636 TCTCACACTT
*
33771646 TTTCTTACTC-TTTTCTTTTTGTA
1 TTTC-TACTCATTTTCGTTTTGTA
33771669 TTTCTACTCATTTTCGTTTTGT
1 TTTCTACTCATTTTCGTTTTGT
33771691 TCTTTTCACT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.09, C:0.18, G:0.07, T:0.67
Consensus pattern (23 bp):
TTTCTACTCATTTTCGTTTTGTA
Found at i:33798982 original size:21 final size:21
Alignment explanation
Indices: 33798950--33798994 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
33798940 GGTTGGTATG
* *
33798950 AAGGAAAGAAAGAGGAAGCAC
1 AAGGAAAGAAAGAAGAAACAC
33798971 AAGGACAA-AAAGAAGAAACAC
1 AAGGA-AAGAAAGAAGAAACAC
33798992 AAG
1 AAG
33798995 TAGGAAGGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.62, C:0.11, G:0.27, T:0.00
Consensus pattern (21 bp):
AAGGAAAGAAAGAAGAAACAC
Found at i:33804170 original size:29 final size:29
Alignment explanation
Indices: 33804138--33804227 Score: 87
Period size: 28 Copynumber: 3.2 Consensus size: 29
33804128 GTATAGTTCC
*
33804138 TTCGAGCCCAGAATCGAAAGTAA-TGCTCT
1 TTCGAGCCCAGAATCCAAAGTAACT-CTCT
* *
33804167 TTCGAG-CCAGAGTCCAAATTAACTCTCT
1 TTCGAGCCCAGAATCCAAAGTAACTCTCT
* * * *
33804195 TTCGAG-CTAGAGTACAAAGTAACACTCT
1 TTCGAGCCCAGAATCCAAAGTAACTCTCT
33804223 TTCGA
1 TTCGA
33804228 CCTACAATAC
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
28 46 0.87
29 7 0.13
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (29 bp):
TTCGAGCCCAGAATCCAAAGTAACTCTCT
Found at i:33804194 original size:28 final size:28
Alignment explanation
Indices: 33804154--33804227 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 28
33804144 CCCAGAATCG
** *
33804154 AAAGTAATGCTCTTTCGAGCCAGAGTCC
1 AAAGTAACACTCTTTCGAGCCAGAGTAC
* * *
33804182 AAATTAACTCTCTTTCGAGCTAGAGTAC
1 AAAGTAACACTCTTTCGAGCCAGAGTAC
33804210 AAAGTAACACTCTTTCGA
1 AAAGTAACACTCTTTCGA
33804228 CCTACAATAC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.28
Consensus pattern (28 bp):
AAAGTAACACTCTTTCGAGCCAGAGTAC
Found at i:33804238 original size:28 final size:28
Alignment explanation
Indices: 33804181--33804238 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 28
33804171 AGCCAGAGTC
* * * * *
33804181 CAAATTAACTCTCTTTCGAGCTAGAGTA
1 CAAAGTAACACTCTTTCGACCTACAATA
33804209 CAAAGTAACACTCTTTCGACCTACAATA
1 CAAAGTAACACTCTTTCGACCTACAATA
33804237 CA
1 CA
33804239 GACTAACGCT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.36, C:0.26, G:0.10, T:0.28
Consensus pattern (28 bp):
CAAAGTAACACTCTTTCGACCTACAATA
Found at i:33804245 original size:28 final size:28
Alignment explanation
Indices: 33804181--33804251 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 28
33804171 AGCCAGAGTC
* * * * *
33804181 CAAATTAACTCTCTTTCGAGCTAGAGTA
1 CAAACTAACACTCTTTCGACCTACAATA
*
33804209 CAAAGTAACACTCTTTCGACCTACAATA
1 CAAACTAACACTCTTTCGACCTACAATA
* *
33804237 CAGACTAACGCTCTT
1 CAAACTAACACTCTT
33804252 ACGAGCCATA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.27, G:0.11, T:0.28
Consensus pattern (28 bp):
CAAACTAACACTCTTTCGACCTACAATA
Found at i:33804358 original size:55 final size:55
Alignment explanation
Indices: 33804245--33804361 Score: 128
Period size: 55 Copynumber: 2.1 Consensus size: 55
33804235 TACAGACTAA
* * * * * *
33804245 CGCTCTTACGAGCCATAGTCCTGAATAACGCTCTTTCGAGCTAGAAAAAGAGTGT
1 CGCTCTTACGAGCAAGAGTCCTGAATAACGCTCTTTCAAGCCAGAAAAAGAATAT
** **
33804300 CGCTCTTACGAGCAAGAGTCCAT-AATATTGCTCTTTCAAGCCAGAATCAGAATAT
1 CGCTCTTACGAGCAAGAGTCC-TGAATAACGCTCTTTCAAGCCAGAAAAAGAATAT
33804355 CGCTCTT
1 CGCTCTT
33804362 TCCAAGCCAG
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
55 50 0.98
56 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (55 bp):
CGCTCTTACGAGCAAGAGTCCTGAATAACGCTCTTTCAAGCCAGAAAAAGAATAT
Found at i:33804376 original size:28 final size:28
Alignment explanation
Indices: 33804323--33804600 Score: 306
Period size: 28 Copynumber: 10.0 Consensus size: 28
33804313 AAGAGTCCAT
* *
33804323 AATATTGCTCTTT-CAAGCCAGAATCAG
1 AATATCGCTCTTTCCGAGCCAGAATCAG
*
33804350 AATATCGCTCTTTCCAAGCCAGAATCAG
1 AATATCGCTCTTTCCGAGCCAGAATCAG
* ** *
33804378 ATTATCGCTCTTTTTGAGCCAGAATAAG
1 AATATCGCTCTTTCCGAGCCAGAATCAG
* * *
33804406 ATTATCGCTCTTTCTGAGCTAGAATCAG
1 AATATCGCTCTTTCCGAGCCAGAATCAG
* *
33804434 AATATCTCTCTTTCCGAGCTAGAATCAG
1 AATATCGCTCTTTCCGAGCCAGAATCAG
* **
33804462 AATATTGCTCTTTCCGAGCTTGAATCAG
1 AATATCGCTCTTTCCGAGCCAGAATCAG
* ** *
33804490 AATATCACTCTTTTTGAGCCAGAATTAG
1 AATATCGCTCTTTCCGAGCCAGAATCAG
* * * *
33804518 AATATTGCTCTTTCCGAGCTAAAATCAA
1 AATATCGCTCTTTCCGAGCCAGAATCAG
* *
33804546 AATATCGCTCTTTTCGAGCCAGAATTAG
1 AATATCGCTCTTTCCGAGCCAGAATCAG
* *
33804574 AATATTGCTCTTTCCCAGCCAGAATCA
1 AATATCGCTCTTTCCGAGCCAGAATCA
33804601 AAGTAGTTAT
Statistics
Matches: 210, Mismatches: 40, Indels: 1
0.84 0.16 0.00
Matches are distributed among these distances:
27 12 0.06
28 198 0.94
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (28 bp):
AATATCGCTCTTTCCGAGCCAGAATCAG
Found at i:33804602 original size:56 final size:56
Alignment explanation
Indices: 33804323--33804600 Score: 342
Period size: 56 Copynumber: 5.0 Consensus size: 56
33804313 AAGAGTCCAT
* * * * *
33804323 AATATTGCTC-TTTCAAGCCAGAATCAGAATATCGCTCTTTCCAAGCCAGAATCAG
1 AATATCGCTCTTTTCGAGCCAGAATCAGAATATTGCTCTTTCCGAGCTAGAATCAG
* * * * * *
33804378 ATTATCGCTCTTTTTGAGCCAGAATAAGATTATCGCTCTTTCTGAGCTAGAATCAG
1 AATATCGCTCTTTTCGAGCCAGAATCAGAATATTGCTCTTTCCGAGCTAGAATCAG
* * * *
33804434 AATATCTCTCTTTCCGAGCTAGAATCAGAATATTGCTCTTTCCGAGCTTGAATCAG
1 AATATCGCTCTTTTCGAGCCAGAATCAGAATATTGCTCTTTCCGAGCTAGAATCAG
* * * * *
33804490 AATATCACTCTTTTTGAGCCAGAATTAGAATATTGCTCTTTCCGAGCTAAAATCAA
1 AATATCGCTCTTTTCGAGCCAGAATCAGAATATTGCTCTTTCCGAGCTAGAATCAG
* * *
33804546 AATATCGCTCTTTTCGAGCCAGAATTAGAATATTGCTCTTTCCCAGCCAGAATCA
1 AATATCGCTCTTTTCGAGCCAGAATCAGAATATTGCTCTTTCCGAGCTAGAATCA
33804601 AAGTAGTTAT
Statistics
Matches: 190, Mismatches: 32, Indels: 1
0.85 0.14 0.00
Matches are distributed among these distances:
55 8 0.04
56 182 0.96
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (56 bp):
AATATCGCTCTTTTCGAGCCAGAATCAGAATATTGCTCTTTCCGAGCTAGAATCAG
Found at i:33805544 original size:34 final size:34
Alignment explanation
Indices: 33805503--33805567 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
33805493 TAACCATGGT
33805503 TTAATTACCATTTTGGTCCCTTTACTATTTTTAA
1 TTAATTACCATTTTGGTCCCTTTACTATTTTTAA
* *
33805537 TTAATTACCCTTTTGGTCTCTTTACTATTTT
1 TTAATTACCATTTTGGTCCCTTTACTATTTT
33805568 AATCAATAGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.20, C:0.18, G:0.06, T:0.55
Consensus pattern (34 bp):
TTAATTACCATTTTGGTCCCTTTACTATTTTTAA
Found at i:33809339 original size:23 final size:23
Alignment explanation
Indices: 33809297--33809340 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
33809287 TTTAGGTCTG
*
33809297 TAGGATTTTATTTCTTTCATAGT
1 TAGGATTTTATTTCTCTCATAGT
33809320 TAGGATTTTTATTT-TCTCATA
1 TAGGA-TTTTATTTCTCTCATA
33809341 ATAAAACACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.23, C:0.09, G:0.11, T:0.57
Consensus pattern (23 bp):
TAGGATTTTATTTCTCTCATAGT
Found at i:33812681 original size:11 final size:11
Alignment explanation
Indices: 33812665--33812692 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
33812655 AATATGACAT
33812665 ACAAATAAATA
1 ACAAATAAATA
33812676 ACAAATAAATA
1 ACAAATAAATA
33812687 ACAAAT
1 ACAAAT
33812693 CAATGAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.71, C:0.11, G:0.00, T:0.18
Consensus pattern (11 bp):
ACAAATAAATA
Found at i:33812855 original size:3 final size:3
Alignment explanation
Indices: 33812847--33812881 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
33812837 ATGCAAATTA
33812847 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
33812882 AAGAAATAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:33812889 original size:15 final size:14
Alignment explanation
Indices: 33812856--33812898 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
33812846 AAATAATAAT
*
33812856 AATAATAATAATAAT
1 AATAATAATAA-AAA
33812871 AATAATAATAAAAGA
1 AATAATAATAAAA-A
*
33812886 AATAACAATAAAA
1 AATAATAATAAAA
33812899 TGACATGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 2 0.08
15 23 0.92
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.23
Consensus pattern (14 bp):
AATAATAATAAAAA
Found at i:33820261 original size:24 final size:24
Alignment explanation
Indices: 33820232--33820279 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
33820222 GTCATTGTAA
*
33820232 ATTTTTCTATTAATTT-TTGTCTTTT
1 ATTTTACT-TTAATTTGTT-TCTTTT
33820257 ATTTTACTTTAATTTGTTTCTTT
1 ATTTTACTTTAATTTGTTTCTTT
33820280 AGTTTCCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.17, C:0.08, G:0.04, T:0.71
Consensus pattern (24 bp):
ATTTTACTTTAATTTGTTTCTTTT
Found at i:33822527 original size:17 final size:17
Alignment explanation
Indices: 33822505--33822552 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
33822495 TTTTATCTAG
33822505 TTGTCATTACATTTTAA
1 TTGTCATTACATTTTAA
* * *
33822522 TTGTCACTGCATTTTAC
1 TTGTCATTACATTTTAA
* *
33822539 TTGTTATCACATTT
1 TTGTCATTACATTT
33822553 GCATTGTAGT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.23, C:0.17, G:0.08, T:0.52
Consensus pattern (17 bp):
TTGTCATTACATTTTAA
Found at i:33825441 original size:44 final size:45
Alignment explanation
Indices: 33825240--33825530 Score: 295
Period size: 45 Copynumber: 6.5 Consensus size: 45
33825230 GGTGTTGTAA
*
33825240 CTTCAATCTGCCCCT-TAGATTTAGGGATAAAAGATTGGATTTGG-TG
1 CTTCAATCTGCCCCTCTAGA-TTAGGGGTAAAAGATTGGA--TGGTTG
* * * * *
33825286 ACTTCAATCTACCTCTCTGGATTAGGGGTAAAAGAATGTATGGTTG
1 -CTTCAATCTGCCCCTCTAGATTAGGGGTAAAAGATTGGATGGTTG
* * * * * *
33825332 CTTCAATCTGACCCTTTGGATTAAGGGTAAAAGACTGGATGGTGG
1 CTTCAATCTGCCCCTCTAGATTAGGGGTAAAAGATTGGATGGTTG
*
33825377 TTTCAATCTGCCCCTCTAGATTAGGGGTAAAAGATTGGAT-GTTG
1 CTTCAATCTGCCCCTCTAGATTAGGGGTAAAAGATTGGATGGTTG
* * * *
33825421 CTTCAATCTCCCCCTCTAGATTAGGGGTAAAAGACTGAATGGTGG
1 CTTCAATCTGCCCCTCTAGATTAGGGGTAAAAGATTGGATGGTTG
* * * * *
33825466 TTTCAATC-GTCCCTCTTGATTAGGGGT-AAAGATTAGATGGTTA
1 CTTCAATCTGCCCCTCTAGATTAGGGGTAAAAGATTGGATGGTTG
* *
33825509 CTTCAATCTACCCGTCTAGATT
1 CTTCAATCTGCCCCTCTAGATT
33825531 GGATGGTTGC
Statistics
Matches: 200, Mismatches: 40, Indels: 11
0.80 0.16 0.04
Matches are distributed among these distances:
43 18 0.09
44 64 0.32
45 84 0.42
46 2 0.01
47 29 0.14
48 3 0.01
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.33
Consensus pattern (45 bp):
CTTCAATCTGCCCCTCTAGATTAGGGGTAAAAGATTGGATGGTTG
Found at i:33825455 original size:89 final size:90
Alignment explanation
Indices: 33825240--33825530 Score: 338
Period size: 89 Copynumber: 3.2 Consensus size: 90
33825230 GGTGTTGTAA
* * ** * *
33825240 CTTCAATCTGCCCCT-TAGATTTAGGGATAAAAGATTGGATTTGGTGACTTCAATCTACCTCTCT
1 CTTCAATCTGCCCCTCTAGA-TTAGGGGTAAAAGACTGGA--TGGTGGTTTCAATCTGCCCCTCT
* * *
33825304 GGATTAGGGGTAAAAGAATGTATGGTTG
63 AGATTAGGGGTAAAAGATTGGATGGTTG
* * * *
33825332 CTTCAATCTGACCCTTTGGATTAAGGGTAAAAGACTGGATGGTGGTTTCAATCTGCCCCTCTAGA
1 CTTCAATCTGCCCCTCTAGATTAGGGGTAAAAGACTGGATGGTGGTTTCAATCTGCCCCTCTAGA
33825397 TTAGGGGTAAAAGATTGGAT-GTTG
66 TTAGGGGTAAAAGATTGGATGGTTG
* * * *
33825421 CTTCAATCTCCCCCTCTAGATTAGGGGTAAAAGACTGAATGGTGGTTTCAATC-GTCCCTCTTGA
1 CTTCAATCTGCCCCTCTAGATTAGGGGTAAAAGACTGGATGGTGGTTTCAATCTGCCCCTCTAGA
* *
33825485 TTAGGGGT-AAAGATTAGATGGTTA
66 TTAGGGGTAAAAGATTGGATGGTTG
* *
33825509 CTTCAATCTACCCGTCTAGATT
1 CTTCAATCTGCCCCTCTAGATT
33825531 GGATGGTTGC
Statistics
Matches: 173, Mismatches: 24, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
87 10 0.06
88 40 0.23
89 51 0.29
90 39 0.23
92 30 0.17
93 3 0.02
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.33
Consensus pattern (90 bp):
CTTCAATCTGCCCCTCTAGATTAGGGGTAAAAGACTGGATGGTGGTTTCAATCTGCCCCTCTAGA
TTAGGGGTAAAAGATTGGATGGTTG
Found at i:33825536 original size:31 final size:31
Alignment explanation
Indices: 33825495--33825584 Score: 119
Period size: 31 Copynumber: 2.9 Consensus size: 31
33825485 TTAGGGGTAA
* * *
33825495 AGATTAGATGGTTACTTCAATCTACCCGTCT
1 AGATTGGATGGTTGCTTCAATCTACCCCTCT
*
33825526 AGATTGGATGGTTGCTTCAATCTGCCCCTCT
1 AGATTGGATGGTTGCTTCAATCTACCCCTCT
* *
33825557 GGATTGGA-GGTGGCTTCAATCTACCCCT
1 AGATTGGATGGTTGCTTCAATCTACCCCT
33825585 AATCCGTGGC
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
30 18 0.35
31 34 0.65
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.33
Consensus pattern (31 bp):
AGATTGGATGGTTGCTTCAATCTACCCCTCT
Found at i:33825662 original size:45 final size:45
Alignment explanation
Indices: 33825598--33825739 Score: 160
Period size: 45 Copynumber: 3.1 Consensus size: 45
33825588 CCGTGGCTTT
*
33825598 AATCTGCCCTTCTGGATTAGGGGTAAAAGATTGGATGGTTG-CTTC
1 AATCTGCCCCTCTGGATTAGGGGTAAAAGATTGGATGG-TGACTTC
** * *
33825643 AATCTGCCCCTCTATATTAGGGGTAAAGGATTAGATGGTGACTTC
1 AATCTGCCCCTCTGGATTAGGGGTAAAAGATTGGATGGTGACTTC
* * * * *
33825688 AATATGCTCCTCTGGATTAGAGGTAAAACACTGGATGTGGTGACTTC
1 AATCTGCCCCTCTGGATTAGGGGTAAAAGATTGGA--TGGTGACTTC
33825735 AATCT
1 AATCT
33825740 ATTCAATTGT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
44 2 0.03
45 63 0.80
47 14 0.18
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (45 bp):
AATCTGCCCCTCTGGATTAGGGGTAAAAGATTGGATGGTGACTTC
Found at i:33825931 original size:97 final size:97
Alignment explanation
Indices: 33825829--33826012 Score: 237
Period size: 97 Copynumber: 1.9 Consensus size: 97
33825819 CGTCATTGTG
* * ** * * *
33825829 ACTTCAATCTATCTCTCTTTGATTTT-AGGTGTTAGATCCGTCGTTGCGGCTTT-AACCTATCCC
1 ACTTCAACCTATCCCTCTTCAATTTTAAGGTGTAAGATCCGCCGTTGC-GATTTCAACCT-TCCC
*
33825892 TCTTCGATTTTAGGGTGTTAGGTCCACCTTTACA
64 TCTTCAATTTTAGGGTGTTAGGTCCACCTTTACA
* * *
33825926 ACTTCAACCTATCCCTCTTCAATTTTAAGGTGTAAGATCTGCCGTTGCGATTTCAATCTTCTCTC
1 ACTTCAACCTATCCCTCTTCAATTTTAAGGTGTAAGATCCGCCGTTGCGATTTCAACCTTCCCTC
33825991 TTCAATTTTAGGGTGTTAGGTC
66 TTCAATTTTAGGGTGTTAGGTC
33826013 TGTCGTTGCA
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
97 52 0.70
98 22 0.30
ACGTcount: A:0.19, C:0.23, G:0.17, T:0.41
Consensus pattern (97 bp):
ACTTCAACCTATCCCTCTTCAATTTTAAGGTGTAAGATCCGCCGTTGCGATTTCAACCTTCCCTC
TTCAATTTTAGGGTGTTAGGTCCACCTTTACA
Found at i:33825936 original size:49 final size:49
Alignment explanation
Indices: 33825828--33826044 Score: 188
Period size: 49 Copynumber: 4.5 Consensus size: 49
33825818 TCGTCATTGT
* * ** *
33825828 GACTTCAATCTATCTCTCTTTGATTTTA-GGTGTTAGATCCGTCGTTGC
1 GACTTCAACCTATCCCTCTTCAATTTTAGGGTGTTAGATCCGCCGTTGC
* * * * * * *
33825876 GGCTTTAACCTATCCCTCTTCGATTTTAGGGTGTTAGGTCCACCTTTAC
1 GACTTCAACCTATCCCTCTTCAATTTTAGGGTGTTAGATCCGCCGTTGC
* * * *
33825925 AACTTCAACCTATCCCTCTTCAATTTTAAGGTGTAAGATCTGCCGTTGC
1 GACTTCAACCTATCCCTCTTCAATTTTAGGGTGTTAGATCCGCCGTTGC
* * * * * *
33825974 GATTTCAATCT-TCTCTCTTCAATTTTAGGGTGTTAGGTCTGTCGTTGC
1 GACTTCAACCTATCCCTCTTCAATTTTAGGGTGTTAGATCCGCCGTTGC
* *
33826022 -AGCTTCAACCTCTCCCTATTCAA
1 GA-CTTCAACCTATCCCTCTTCAA
33826045 CTCTAGGATT
Statistics
Matches: 133, Mismatches: 33, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
47 1 0.01
48 62 0.47
49 70 0.53
ACGTcount: A:0.19, C:0.25, G:0.17, T:0.40
Consensus pattern (49 bp):
GACTTCAACCTATCCCTCTTCAATTTTAGGGTGTTAGATCCGCCGTTGC
Found at i:33826028 original size:97 final size:97
Alignment explanation
Indices: 33825829--33826044 Score: 229
Period size: 97 Copynumber: 2.2 Consensus size: 97
33825819 CGTCATTGTG
* * ** * * *
33825829 ACTTCAATCTATCTCTCTTTGATTTTAGGTGTTAGATCCGTCGTTGCGGCTTTAACCTATCCCTC
1 ACTTCAACCTATCCCTCTTCAATTTTAGGTGTAAGATCCGCCGTTGCGGATTTAACCTATCCCTC
* *
33825894 TTCGATTTTAGGGTGTTAGGTCCACCTTTACA
66 TTCAATTTTAGGGTGTTAGGTCCACCGTTACA
* * *
33825926 ACTTCAACCTATCCCTCTTCAATTTTAAGGTGTAAGATCTGCCGTTGC-GATTTCAATCT-TCTC
1 ACTTCAACCTATCCCTCTTCAATTTT-AGGTGTAAGATCCGCCGTTGCGGATTT-AACCTATCCC
*** *
33825989 TCTTCAATTTTAGGGTGTTAGGTCTGTCGTTGCA
64 TCTTCAATTTTAGGGTGTTAGGTCCACCGTTACA
* * *
33826023 GCTTCAACCTCTCCCTATTCAA
1 ACTTCAACCTATCCCTCTTCAA
33826045 CTCTAGGATT
Statistics
Matches: 98, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
97 76 0.78
98 22 0.22
ACGTcount: A:0.19, C:0.25, G:0.16, T:0.40
Consensus pattern (97 bp):
ACTTCAACCTATCCCTCTTCAATTTTAGGTGTAAGATCCGCCGTTGCGGATTTAACCTATCCCTC
TTCAATTTTAGGGTGTTAGGTCCACCGTTACA
Found at i:33836024 original size:11 final size:11
Alignment explanation
Indices: 33835997--33836026 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
33835987 AACTCGTGCA
33835997 TCCAAAAACAC
1 TCCAAAAACAC
33836008 TCCCAAAAACAC
1 T-CCAAAAACAC
33836020 TCCAAAA
1 TCCAAAA
33836027 CCTTCATCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.53, C:0.37, G:0.00, T:0.10
Consensus pattern (11 bp):
TCCAAAAACAC
Found at i:33837485 original size:21 final size:22
Alignment explanation
Indices: 33837459--33837502 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
33837449 CAAGCGACGG
33837459 AGGAAGAAAAAGAGACTG-AGA
1 AGGAAGAAAAAGAGACTGTAGA
* *
33837480 AGGAAGAAACAGAGCCTGTAGA
1 AGGAAGAAAAAGAGACTGTAGA
33837502 A
1 A
33837503 ATGTAGGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.52, C:0.09, G:0.32, T:0.07
Consensus pattern (22 bp):
AGGAAGAAAAAGAGACTGTAGA
Found at i:33843311 original size:12 final size:12
Alignment explanation
Indices: 33843294--33843319 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
33843284 CAAGTCCTAC
33843294 TCTTGTAATCTT
1 TCTTGTAATCTT
33843306 TCTTGTAATCTT
1 TCTTGTAATCTT
33843318 TC
1 TC
33843320 CTTTCCTCAA
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:0.15, C:0.19, G:0.08, T:0.58
Consensus pattern (12 bp):
TCTTGTAATCTT
Found at i:33850420 original size:200 final size:200
Alignment explanation
Indices: 33850077--33850436 Score: 524
Period size: 200 Copynumber: 1.8 Consensus size: 200
33850067 CTTTTTTGCC
* *
33850077 GAATCAAGTTGTCTCTGGTCATACAAGTTGGTTGTACCAAACTGGAAAACTAACACATTTTTGTT
1 GAATCAAGTTGTCTCTGGTCATACAAGTTGGTTATACCAAACTGGAAAACTAACACATTTCTGTT
* * * * * *
33850142 CTTATCCGGACAGTTGTTAGATGCTGCGACAATCCTGGACGCAATCTGAAATTACTTATGCAACG
66 CTTATCCGAACAGCTATCAGATGCAGCGACAATCCTGGACGCAATCTGAAATTACTTATACAACG
*
33850207 ACATCAATACCAAAACATGACAAAATTAAGGGAAAGTATAAGTTGTCCTTGTGCAAGTGTCCTTT
131 ACATCAATACCAAAACAAGACAAAATTAAGGGAAAGTATAAGTTGTCCTTGTGCAAGTGTCCTTT
33850272 CATCA
196 CATCA
* * * * *
33850277 GAATCAAGCTT-TTTCTGGTCATACAAGTTGGTTATACCAGACTGGACAGCTCACACATTTCTGT
1 GAATCAAG-TTGTCTCTGGTCATACAAGTTGGTTATACCAAACTGGAAAACTAACACATTTCTGT
* * * *
33850341 TCTTATTCGAATAGCTATCAGATGCAGTGACAATCCTGGACGCAATCTGAAATTACTTATACAGC
65 TCTTATCCGAACAGCTATCAGATGCAGCGACAATCCTGGACGCAATCTGAAATTACTTATACAAC
* *
33850406 GACATCAGTACCAAAACAAGACAAATTTAAG
130 GACATCAATACCAAAACAAGACAAAATTAAG
33850437 AGTAAATAGG
Statistics
Matches: 139, Mismatches: 20, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
200 137 0.99
201 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (200 bp):
GAATCAAGTTGTCTCTGGTCATACAAGTTGGTTATACCAAACTGGAAAACTAACACATTTCTGTT
CTTATCCGAACAGCTATCAGATGCAGCGACAATCCTGGACGCAATCTGAAATTACTTATACAACG
ACATCAATACCAAAACAAGACAAAATTAAGGGAAAGTATAAGTTGTCCTTGTGCAAGTGTCCTTT
CATCA
Found at i:33851322 original size:28 final size:28
Alignment explanation
Indices: 33851290--33851346 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
33851280 TCCTTCGAGT
*
33851290 CCAGAACCCAGAGTAATGCTCTTTTGAG
1 CCAGAACCCAGAGTAACGCTCTTTTGAG
** *
33851318 CCAGAGTCTAGAGTAACGCTCTTTTGAG
1 CCAGAACCCAGAGTAACGCTCTTTTGAG
33851346 C
1 C
33851347 TAGAGTACAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (28 bp):
CCAGAACCCAGAGTAACGCTCTTTTGAG
Found at i:33851351 original size:28 final size:28
Alignment explanation
Indices: 33851298--33851393 Score: 108
Period size: 28 Copynumber: 3.4 Consensus size: 28
33851288 GTCCAGAACC
*
33851298 CAGAGTAATGCTCTTTTGAGCCAGAGT-
1 CAGAGTAACGCTCTTTTGAGCCAGAGTA
*
33851325 CTAGAGTAACGCTCTTTTGAGCTAGAGTA
1 C-AGAGTAACGCTCTTTTGAGCCAGAGTA
* *
33851354 CAGAGTAACACT-TTTTCGA-CAAAGAGTA
1 CAGAGTAACGCTCTTTT-GAGC-CAGAGTA
33851382 CAGAGTAACGCT
1 CAGAGTAACGCT
33851394 ATTACAAATT
Statistics
Matches: 60, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
27 6 0.10
28 53 0.88
29 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (28 bp):
CAGAGTAACGCTCTTTTGAGCCAGAGTA
Found at i:33851434 original size:28 final size:28
Alignment explanation
Indices: 33851327--33851443 Score: 96
Period size: 28 Copynumber: 4.2 Consensus size: 28
33851317 GCCAGAGTCT
*
33851327 AGAGTAACGCTCTTTT-GAGCTAGAGTAC
1 AGAGTAACGCT-TTTTCAAGCTAGAGTAC
* * *
33851355 AGAGTAACACTTTTTCGA-CAAAGAGTAC
1 AGAGTAACGCTTTTTCAAGC-TAGAGTAC
* * ** *
33851383 AGAGTAACGCTATTACAAATTAGAGTCC
1 AGAGTAACGCTTTTTCAAGCTAGAGTAC
* *
33851411 AGAATAACGCTTTTTCAAGCTAGA-AAC
1 AGAGTAACGCTTTTTCAAGCTAGAGTAC
33851438 AGAGTA
1 AGAGTA
33851444 TTGCTCTTAC
Statistics
Matches: 69, Mismatches: 17, Indels: 7
0.74 0.18 0.08
Matches are distributed among these distances:
27 11 0.16
28 58 0.84
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.26
Consensus pattern (28 bp):
AGAGTAACGCTTTTTCAAGCTAGAGTAC
Found at i:33851514 original size:28 final size:28
Alignment explanation
Indices: 33851468--33851719 Score: 267
Period size: 28 Copynumber: 9.0 Consensus size: 28
33851458 CAGGGTTCAT
*
33851468 AATATTGCTCTTT-TGAGCCAGAATCAG
1 AATATCGCTCTTTCTGAGCCAGAATCAG
* * *
33851495 AATATCGCTCTTTCTAAGCCATAATTAG
1 AATATCGCTCTTTCTGAGCCAGAATCAG
* *
33851523 ATTATCACTCTTT-TCGAGCCACAGAATCAG
1 AATATCGCTCTTTCT-GAG-C-CAGAATCAG
* * *
33851553 AATATCACTCTTTCCGAGCCAAAATCAG
1 AATATCGCTCTTTCTGAGCCAGAATCAG
* * **
33851581 AATATTGCTCTTTTTGAGCTTGAATCAG
1 AATATCGCTCTTTCTGAGCCAGAATCAG
* *
33851609 AATATCGCTCTTTTTGAGCCAAAATCAG
1 AATATCGCTCTTTCTGAGCCAGAATCAG
*
33851637 AATATTGCTCTTT-TCGAGCCAGAATCAG
1 AATATCGCTCTTTCT-GAGCCAGAATCAG
* *
33851665 AATATCGCTCTTTCCGAGCCAAAATCAG
1 AATATCGCTCTTTCTGAGCCAGAATCAG
**
33851693 AATATCGCTCTTTCCCAGCCAGAATCA
1 AATATCGCTCTTTCTGAGCCAGAATCA
33851720 AAGTAGTTAT
Statistics
Matches: 188, Mismatches: 30, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
27 14 0.07
28 150 0.80
29 2 0.01
30 22 0.12
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (28 bp):
AATATCGCTCTTTCTGAGCCAGAATCAG
Found at i:33851621 original size:56 final size:56
Alignment explanation
Indices: 33851468--33851719 Score: 335
Period size: 56 Copynumber: 4.5 Consensus size: 56
33851458 CAGGGTTCAT
** * *
33851468 AATATTGCTCTTTT-GAGCCAGAATCAGAATATCGCTCTTTCTAAGCCATAATTAG
1 AATATTGCTCTTTTCGAGCCAGAATCAGAATATCGCTCTTTCCGAGCCAAAATCAG
* ** *
33851523 ATTATCACTCTTTTCGAGCCACAGAATCAGAATATCACTCTTTCCGAGCCAAAATCAG
1 AATATTGCTCTTTTCGAG-C-CAGAATCAGAATATCGCTCTTTCCGAGCCAAAATCAG
* ** **
33851581 AATATTGCTCTTTTTGAGCTTGAATCAGAATATCGCTCTTTTTGAGCCAAAATCAG
1 AATATTGCTCTTTTCGAGCCAGAATCAGAATATCGCTCTTTCCGAGCCAAAATCAG
33851637 AATATTGCTCTTTTCGAGCCAGAATCAGAATATCGCTCTTTCCGAGCCAAAATCAG
1 AATATTGCTCTTTTCGAGCCAGAATCAGAATATCGCTCTTTCCGAGCCAAAATCAG
* * *
33851693 AATATCGCTCTTTCCCAGCCAGAATCA
1 AATATTGCTCTTTTCGAGCCAGAATCA
33851720 AAGTAGTTAT
Statistics
Matches: 169, Mismatches: 25, Indels: 5
0.85 0.13 0.03
Matches are distributed among these distances:
55 11 0.07
56 110 0.65
57 2 0.01
58 46 0.27
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (56 bp):
AATATTGCTCTTTTCGAGCCAGAATCAGAATATCGCTCTTTCCGAGCCAAAATCAG
Found at i:33851713 original size:84 final size:84
Alignment explanation
Indices: 33851468--33851719 Score: 308
Period size: 84 Copynumber: 3.0 Consensus size: 84
33851458 CAGGGTTCAT
* * * * *
33851468 AATATTGCTCTTTT-GAGCCAGAATCAGAATATCGCTCTTTCTAAGCCATAATTAGATTATCACT
1 AATATTGCTCTTTTCGAGCCAGAATCAGAATATCGCTCTTTCTGAGCCAAAATCAGAATATCGCT
33851532 CTTTTCGAGCCACAGAATCAG
66 CTTTTCGAGCCA-A-AATCAG
** * * * * ***
33851553 AATATCACTCTTTCCGAGCCAAAATCAGAATATTGCTCTTTTTGAGCTTGAATCAGAATATCGCT
1 AATATTGCTCTTTTCGAGCCAGAATCAGAATATCGCTCTTTCTGAGCCAAAATCAGAATATCGCT
*
33851618 CTTTTTGAGCCAAAATCAG
66 CTTTTCGAGCCAAAATCAG
*
33851637 AATATTGCTCTTTTCGAGCCAGAATCAGAATATCGCTCTTTCCGAGCCAAAATCAGAATATCGCT
1 AATATTGCTCTTTTCGAGCCAGAATCAGAATATCGCTCTTTCTGAGCCAAAATCAGAATATCGCT
* * *
33851702 CTTTCCCAGCCAGAATCA
66 CTTTTCGAGCCAAAATCA
33851720 AAGTAGTTAT
Statistics
Matches: 138, Mismatches: 28, Indels: 3
0.82 0.17 0.02
Matches are distributed among these distances:
84 75 0.54
85 12 0.09
86 51 0.37
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (84 bp):
AATATTGCTCTTTTCGAGCCAGAATCAGAATATCGCTCTTTCTGAGCCAAAATCAGAATATCGCT
CTTTTCGAGCCAAAATCAG
Found at i:33854490 original size:6 final size:6
Alignment explanation
Indices: 33854479--33854530 Score: 59
Period size: 6 Copynumber: 8.3 Consensus size: 6
33854469 AGGTTTTGAA
* * *
33854479 ATTTTT ATTTTTT ATTTTT ATTTTT GTTTTT AATTTT AATTTT ATTTGTT
1 ATTTTT A-TTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTT-TT
33854529 AT
1 AT
33854531 GTTTGATAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
6 30 0.75
7 10 0.25
ACGTcount: A:0.19, C:0.00, G:0.04, T:0.77
Consensus pattern (6 bp):
ATTTTT
Found at i:33865413 original size:16 final size:16
Alignment explanation
Indices: 33865389--33865424 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
33865379 TAAAATAATG
33865389 TTTACATTATAATAAA
1 TTTACATTATAATAAA
* *
33865405 TTTATATTATTATAAA
1 TTTACATTATAATAAA
33865421 TTTA
1 TTTA
33865425 ATTTTCATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTACATTATAATAAA
Found at i:33865451 original size:25 final size:25
Alignment explanation
Indices: 33865394--33865451 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 25
33865384 TAATGTTTAC
*
33865394 ATTATAATAAATTTATATTATTATAA
1 ATTAT-ATAATTTTATATTATTATAA
33865420 A-T-T-TAATTTTCATA-TATTATAA
1 ATTATATAATTTT-ATATTATTATAA
33865442 ATTATATAAT
1 ATTATATAAT
33865452 ATATAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 9
0.73 0.03 0.24
Matches are distributed among these distances:
22 15 0.56
23 4 0.15
24 2 0.07
25 5 0.19
26 1 0.04
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (25 bp):
ATTATATAATTTTATATTATTATAA
Found at i:33872239 original size:33 final size:33
Alignment explanation
Indices: 33872197--33872262 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
33872187 AATTTCAGGG
33872197 ATCAAAATAAATAATATCTCAATTGTAAACATT
1 ATCAAAATAAATAATATCTCAATTGTAAACATT
33872230 ATCAAAATAAATAATATCTCAATTGTAAACATT
1 ATCAAAATAAATAATATCTCAATTGTAAACATT
33872263 CAATCATTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.52, C:0.12, G:0.03, T:0.33
Consensus pattern (33 bp):
ATCAAAATAAATAATATCTCAATTGTAAACATT
Found at i:33873128 original size:47 final size:47
Alignment explanation
Indices: 33873071--33873173 Score: 152
Period size: 47 Copynumber: 2.2 Consensus size: 47
33873061 AATAACGCAA
* *
33873071 ATAAACTGCCACTTAATAGCATTGTGGACAAGCCACCACTTTTGTAG
1 ATAAACTGCCACTTAATAACATTGTGGACAAGCCACCACTTTTGCAG
* ** *
33873118 ATAAATTGCCACTTTGTAATATTGTGGACAAGCCACCACTTTTGCAG
1 ATAAACTGCCACTTAATAACATTGTGGACAAGCCACCACTTTTGCAG
33873165 ATAAACTGC
1 ATAAACTGC
33873174 TAGTTCTTCC
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (47 bp):
ATAAACTGCCACTTAATAACATTGTGGACAAGCCACCACTTTTGCAG
Found at i:33873260 original size:19 final size:19
Alignment explanation
Indices: 33873224--33873261 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
33873214 ATTTGGCCAC
*
33873224 AAAATCACTTATTTACTTT
1 AAAATCAATTATTTACTTT
33873243 AAAATCAATT-TTTCACTTT
1 AAAATCAATTATTT-ACTTT
33873262 GGCATGTGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.37, C:0.16, G:0.00, T:0.47
Consensus pattern (19 bp):
AAAATCAATTATTTACTTT
Found at i:33882524 original size:16 final size:17
Alignment explanation
Indices: 33882487--33882524 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
33882477 TATGTTCTAG
33882487 AATT-ATTAAAAATATT
1 AATTAATTAAAAATATT
33882503 AA-TAATTAAAAATA-T
1 AATTAATTAAAAATATT
33882518 AATTAAT
1 AATTAAT
33882525 ACTTTTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AATTAATTAAAAATATT
Found at i:33885171 original size:193 final size:194
Alignment explanation
Indices: 33884831--33885274 Score: 590
Period size: 193 Copynumber: 2.3 Consensus size: 194
33884821 TACCAGTACC
* * **
33884831 CGATGCTACTTACACGAGCTGTCGAGGACTCGCAACGTATGCGGTACC-CTAGCCATCGATATGG
1 CGATGCTACTCACACGAGCTGTCGAGGACTCGCAACATATGCGGTACCTC-AGCCATCGATACAG
* * * * * *
33884895 TGTCTGTCTGTAAACTGTCCCCTAACAATGTTGCTCACATGAGCTGTTGAGGATATGCATTTAAG
65 TATCTGTCTATAAACTGTCCCCTAACAATGCTGCTCACATGAGCTGTCGAGAATATGCACTTAAG
* * **
33884960 GATAAATCTTAGCCATCGTAGGGCCTATAATCCATT-TCGGATTCATATCTC-TTTTTCGACTCA
130 CATAAATCTCAGCCATCGTAGGGCCTATAATCCATTCTCGGATTCATATCTCATTTCCCGACTCA
* *
33885023 CGATGTTTCTCACACGAGCTGTCGAGGACTCGCAACATATGCGGTACCTCAGCCATCGATACAGT
1 CGATGCTACTCACACGAGCTGTCGAGGACTCGCAACATATGCGGTACCTCAGCCATCGATACAGT
* * *
33885088 ATCTGTGC-ATATAACTGTTCCCTAACGATGCTGCTCACATGAGCTGTCGAGAATATGCACTTAT
66 ATCTGT-CTATA-AACTGTCCCCTAACAATGCTGCTCACATGAGCTGTCGAGAATATGCACTTAA
* * * * *
33885152 GCATAAATCTCAGCCATCGTAGGGCCTCTAATCCATTCTTGGATTCTTTTCTCATTTCCCTACTC
129 GCATAAATCTCAGCCATCGTAGGGCCTATAATCCATTCTCGGATTCATATCTCATTTCCCGACTC
33885217 A
194 A
* * *
33885218 TGATGCTACTCATACGAGCTGTCGAGGACTCGCAACATATGCGGTACCTTAGCCATC
1 CGATGCTACTCACACGAGCTGTCGAGGACTCGCAACATATGCGGTACCTCAGCCATC
33885275 ACGTCGGTTT
Statistics
Matches: 218, Mismatches: 29, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
192 64 0.29
193 81 0.37
194 12 0.06
195 61 0.28
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (194 bp):
CGATGCTACTCACACGAGCTGTCGAGGACTCGCAACATATGCGGTACCTCAGCCATCGATACAGT
ATCTGTCTATAAACTGTCCCCTAACAATGCTGCTCACATGAGCTGTCGAGAATATGCACTTAAGC
ATAAATCTCAGCCATCGTAGGGCCTATAATCCATTCTCGGATTCATATCTCATTTCCCGACTCA
Found at i:33890293 original size:193 final size:195
Alignment explanation
Indices: 33889949--33890388 Score: 529
Period size: 193 Copynumber: 2.3 Consensus size: 195
33889939 GTAGCCGATA
** * * * * * *
33889949 CTGCTCACACAAGCTGTCGAGGACTCATAACATATG-CGATACCCCAGCCATCAGTACGGTGTCT
1 CTGCTCACACAAGCTGTCGAGGACTCGCAACACATGTAG-TACCTCAGCCATCAATACAGTATCT
* *
33890013 GT-C-TGTAAATTGTCTCCTAACGATGCTGCTCACAAGAGCTATCGAGAATATGCATTTAAGCAT
65 GTGCATAT-AATTGTCTCCTAACGATGCTGCTCACAAGAGCTATCGAGAATATGCATCTAAGCAT
* * *
33890076 AAATCTCAGCCATCGTAAGGCCTATAATCCATT-TAGGATTCATATCTC-TTTTTTGACTCACAA
129 AAATCTCAGCCATCATAAGGCCTATAATCCATTCTAGGATTCATATCTCATTTCTCGACTCACAA
33890139 TG
194 TG
* *
33890141 CTGCTCACACAAGCT-TACGAGGATTCGCAACGCATGCT-GTACCTCAGCCATCAATACAGTATC
1 CTGCTCACACAAGCTGT-CGAGGACTCGCAACACATG-TAGTACCTCAGCCATCAATACAGTATC
* *
33890204 TGTGCATATAATTGT-TCCCTAACGATGCTGCTCACATGAGCTGTCGAGAATATGCA-CTAATGC
64 TGTGCATATAATTGTCT-CCTAACGATGCTGCTCACAAGAGCTATCGAGAATATGCATCTAA-GC
* ** * * *
33890267 ATAAATCTCTGCCATCATTGGGCCTATAATCCATTCTTGGATTCTTTTCTCATTTCTCGACTCAC
127 ATAAATCTCAGCCATCATAAGGCCTATAATCCATTCTAGGATTCATATCTCATTTCTCGACTCAC
*
33890332 GATG
192 AATG
* *
33890336 CTGCTCACACGAGCTGTCGAGGACTCGCAACATATGTAGTACCTCAGCCATCA
1 CTGCTCACACAAGCTGTCGAGGACTCGCAACACATGTAGTACCTCAGCCATCA
33890389 CGTCAAGTTC
Statistics
Matches: 210, Mismatches: 27, Indels: 19
0.82 0.11 0.07
Matches are distributed among these distances:
191 1 0.00
192 56 0.27
193 78 0.37
194 15 0.07
195 59 0.28
196 1 0.00
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (195 bp):
CTGCTCACACAAGCTGTCGAGGACTCGCAACACATGTAGTACCTCAGCCATCAATACAGTATCTG
TGCATATAATTGTCTCCTAACGATGCTGCTCACAAGAGCTATCGAGAATATGCATCTAAGCATAA
ATCTCAGCCATCATAAGGCCTATAATCCATTCTAGGATTCATATCTCATTTCTCGACTCACAATG
Found at i:33901363 original size:30 final size:30
Alignment explanation
Indices: 33901303--33901376 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 30
33901293 TTTAGTAGTC
* * *
33901303 TAAATCTTTATAATTTTTAAAAAATTAAAT
1 TAAATTTTTATTATTTTTAAAAAATAAAAT
*
33901333 TAAATTTTTATTATTTTT-AAAACTCAAAAT
1 TAAATTTTTATTATTTTTAAAAAAT-AAAAT
33901363 TAAA-TTTTATTATT
1 TAAATTTTTATTATT
33901377 ACTAATTTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
29 15 0.38
30 24 0.62
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (30 bp):
TAAATTTTTATTATTTTTAAAAAATAAAAT
Found at i:33902264 original size:90 final size:88
Alignment explanation
Indices: 33902149--33902344 Score: 277
Period size: 90 Copynumber: 2.2 Consensus size: 88
33902139 TCAACTTAAA
* * *
33902149 AAAAAAACAATTAAGCTCTTGCTTTTATTTTGTACTCACTTAGATATTTAAACTTTTAAAATGTA
1 AAAAAAACAATTAAGCTCTTACTTTTATTTTGTACTCAATTAGATATTTAAAC-TTTAAAATGCA
*
33902214 TCAAAAAGGCCCTC-AACTTTTTC
65 TCAAAAAGACCCTCAAACTTTTTC
* * * *
33902237 AGAAAAAGCAATTAAGTCTCTTACTTTTATTTTGTACTCAATTGGGTATTTAAACTTTCAAATGC
1 A-AAAAAACAATTAAG-CTCTTACTTTTATTTTGTACTCAATTAGATATTTAAACTTTAAAATGC
33902302 ATCAAAAAGACCCTCAAACTTTTTC
64 ATCAAAAAGACCCTCAAACTTTTTC
33902327 AAAAGAAACAATTAAGCT
1 AAAA-AAACAATTAAGCT
33902345 TCTGATTTTT
Statistics
Matches: 95, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
88 1 0.01
89 40 0.42
90 54 0.57
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.36
Consensus pattern (88 bp):
AAAAAAACAATTAAGCTCTTACTTTTATTTTGTACTCAATTAGATATTTAAACTTTAAAATGCAT
CAAAAAGACCCTCAAACTTTTTC
Found at i:33907894 original size:24 final size:24
Alignment explanation
Indices: 33907867--33907916 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
33907857 TTTAATTAAG
**
33907867 GGGTTTCAGTCTCTTCGACTAAAT
1 GGGTTTCAACCTCTTCGACTAAAT
33907891 GGGTTTCAACCTCTTCGACTAAAT
1 GGGTTTCAACCTCTTCGACTAAAT
33907915 GG
1 GG
33907917 AGATTTAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.34
Consensus pattern (24 bp):
GGGTTTCAACCTCTTCGACTAAAT
Found at i:33907993 original size:42 final size:41
Alignment explanation
Indices: 33907920--33908008 Score: 101
Period size: 42 Copynumber: 2.1 Consensus size: 41
33907910 TAAATGGAGA
*
33907920 TTTAATTTAGGGTTTTTTTAAGATGAAAAAATTGAT-TTTGAG
1 TTTAATTTAGGGTTTTTATAAGA-GAAAAAATT-ATATTTGAG
* *
33907962 TTTAATTTATGGGTGTTTTATAAGA-ATAAAATTATATTTGGG
1 TTTAATTTA-GGGT-TTTTATAAGAGAAAAAATTATATTTGAG
33908004 TTTAA
1 TTTAA
33908009 AAATAATTGG
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
41 2 0.05
42 26 0.63
43 4 0.10
44 9 0.22
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.48
Consensus pattern (41 bp):
TTTAATTTAGGGTTTTTATAAGAGAAAAAATTATATTTGAG
Found at i:33909681 original size:20 final size:18
Alignment explanation
Indices: 33909634--33909682 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
33909624 CAAGATAAAA
33909634 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
33909651 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
33909671 ATTAAATTAATA
1 ATTAAATTAATA
33909683 AAATACTGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:33913843 original size:17 final size:17
Alignment explanation
Indices: 33913821--33913853 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
33913811 ACCCACGTTT
33913821 AGAGAAGATGATGAAGA
1 AGAGAAGATGATGAAGA
33913838 AGAGAAGATGATGAAG
1 AGAGAAGATGATGAAG
33913854 GTGATGAAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.36, T:0.12
Consensus pattern (17 bp):
AGAGAAGATGATGAAGA
Found at i:33913853 original size:9 final size:9
Alignment explanation
Indices: 33913824--33913862 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
33913814 CACGTTTAGA
33913824 GAAGATGAT
1 GAAGATGAT
*
33913833 GAAGAAGA-
1 GAAGATGAT
33913841 GAAGATGAT
1 GAAGATGAT
*
33913850 GAAGGTGAT
1 GAAGATGAT
33913859 GAAG
1 GAAG
33913863 GTTTTTGGGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
8 7 0.27
9 19 0.73
ACGTcount: A:0.46, C:0.00, G:0.38, T:0.15
Consensus pattern (9 bp):
GAAGATGAT
Found at i:33919349 original size:2 final size:2
Alignment explanation
Indices: 33919342--33919371 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
33919332 ATCCATCATC
33919342 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
33919372 TATATCCATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:33923751 original size:48 final size:47
Alignment explanation
Indices: 33923639--33923763 Score: 155
Period size: 48 Copynumber: 2.6 Consensus size: 47
33923629 ACAAAGGCAA
* *
33923639 CATACAGAATGCACCACAAAGGCCAGATC-AAATTTTCTCGGAAGTGC
1 CATACAGAATG-ACCACAAAGGCCAAATCAAAATTTTCTCAGAAGTGC
* *
33923686 TATACAAAAT-ACTCCACAAAGGCCAAATCAAAATTTTCTCAGAAGTGC
1 CATACAGAATGA--CCACAAAGGCCAAATCAAAATTTTCTCAGAAGTGC
*
33923734 CATACTGAATGAGCCACAAAGGCCAAATCA
1 CATACAGAATGA-CCACAAAGGCCAAATCA
33923764 GAATACACCA
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
45 1 0.02
47 23 0.35
48 41 0.62
49 1 0.02
ACGTcount: A:0.41, C:0.25, G:0.15, T:0.19
Consensus pattern (47 bp):
CATACAGAATGACCACAAAGGCCAAATCAAAATTTTCTCAGAAGTGC
Found at i:33924555 original size:204 final size:205
Alignment explanation
Indices: 33924190--33924593 Score: 623
Period size: 204 Copynumber: 2.0 Consensus size: 205
33924180 CTTAAGCAAC
*
33924190 CTTTCAAGTACTACATCATTACTTCCAGAACATGGATCATAGAAGACTTATTTAGAATATTTACA
1 CTTTCAAGTACTACATCATTACTTCCAGAACATGGATCATAGAAGACTTATTTAGAAGATTTACA
* * * * *
33924255 GGAGTTTATTAAAGAAACTCACTTGTCACTAACCTAAAGAAGCTTGAACTTTATATCTAAACATC
66 AGAGTTTATTAAAGAAACTCACCTGTCACTAACCTAAAGAAGCTTGAAATCTAGATCTAAACATC
* * * *
33924320 CTTCATGAAACAATAACAACCACTGCTTACAAAACATAGAAACACTATTAACACTTATTTGCATA
131 CTTCATGAAACAACAACAACCACTACTTACAAAACATAGAAACACCATTAACACTTATTCGCATA
33924385 CAATTAACAT
196 CAATTAACAT
*
33924395 CTTTCAAGTACTACATCATTACTTCCAGAACATGGATCATA-AAGACTTATTTAGAAGATTTGCA
1 CTTTCAAGTACTACATCATTACTTCCAGAACATGGATCATAGAAGACTTATTTAGAAGATTTACA
* *
33924459 AGAGTTTA-TATAAGAAACTCACCTGTCACTCACCTAAAGCAGCTTGAAATCTAGATCTAAACAT
66 AGAGTTTATTA-AAGAAACTCACCTGTCACTAACCTAAAGAAGCTTGAAATCTAGATCTAAACAT
* ** * *
33924523 CCTTCATGAAACAACAGCTGCCACTACTTACAAAACATAGAAACACCATTCACATTTATTCGCAT
130 CCTTCATGAAACAACAACAACCACTACTTACAAAACATAGAAACACCATTAACACTTATTCGCAT
33924588 ACAATT
195 ACAATT
33924594 TACCCTTATC
Statistics
Matches: 180, Mismatches: 18, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
203 2 0.01
204 137 0.76
205 41 0.23
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.29
Consensus pattern (205 bp):
CTTTCAAGTACTACATCATTACTTCCAGAACATGGATCATAGAAGACTTATTTAGAAGATTTACA
AGAGTTTATTAAAGAAACTCACCTGTCACTAACCTAAAGAAGCTTGAAATCTAGATCTAAACATC
CTTCATGAAACAACAACAACCACTACTTACAAAACATAGAAACACCATTAACACTTATTCGCATA
CAATTAACAT
Found at i:33926093 original size:22 final size:22
Alignment explanation
Indices: 33926062--33926103 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
33926052 CAGTAGTTTG
33926062 ACAGAAAGAAA-AAAGAAGAATT
1 ACAGAAAGAAAGAAA-AAGAATT
*
33926084 ACAGACAGAAAGAAAAAGAA
1 ACAGAAAGAAAGAAAAAGAA
33926104 AAATAACAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.69, C:0.07, G:0.19, T:0.05
Consensus pattern (22 bp):
ACAGAAAGAAAGAAAAAGAATT
Found at i:33930257 original size:29 final size:29
Alignment explanation
Indices: 33930202--33930258 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
33930192 ATACATTTGA
*
33930202 AATTTAATCTCTCTATTTTTATTTTTAAG
1 AATTTAATCTCTCTATTTTTATATTTAAG
*
33930231 AATTTAATCTCTACTTTTTTTA-ATTTAA
1 AATTTAATCTCT-CTATTTTTATATTTAA
33930259 AATATATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 17 0.68
30 8 0.32
ACGTcount: A:0.30, C:0.11, G:0.02, T:0.58
Consensus pattern (29 bp):
AATTTAATCTCTCTATTTTTATATTTAAG
Found at i:33934527 original size:30 final size:31
Alignment explanation
Indices: 33934491--33934556 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 31
33934481 TTTCATATAA
* * *
33934491 AATTTGATATCTGAATTTGAT-TTTTTTTTT
1 AATTTGATATCTGAACTTGATATATTTTCTT
33934521 AATTTGATATCTGAACTTGATATATTTTCTT
1 AATTTGATATCTGAACTTGATATATTTTCTT
33934552 AATTT
1 AATTT
33934557 AGAATTTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 20 0.62
31 12 0.38
ACGTcount: A:0.27, C:0.06, G:0.09, T:0.58
Consensus pattern (31 bp):
AATTTGATATCTGAACTTGATATATTTTCTT
Found at i:33935088 original size:60 final size:60
Alignment explanation
Indices: 33934963--33935097 Score: 191
Period size: 60 Copynumber: 2.2 Consensus size: 60
33934953 CAAATTAGGA
* * * * *
33934963 AAAAAAAGTCAAGTTCAGGTACCGAATTGAACCCCTCAAAAGTTGACGTATCAACTTAAG
1 AAAAAGAGTCAAGTTCAGGTACCAAATTGAACCCCCCAAAAGTTGAAGTACCAACTTAAG
* *
33935023 AAAAAGAGTCAAGTTCAGGTACCAAATTGGACCCCCCAAAAGTTTAAGTACCAACTTAAG
1 AAAAAGAGTCAAGTTCAGGTACCAAATTGAACCCCCCAAAAGTTGAAGTACCAACTTAAG
33935083 AAAAAGTA-TCAAGTT
1 AAAAAG-AGTCAAGTT
33935098 TAAGTACTAA
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
60 66 0.99
61 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.16, T:0.21
Consensus pattern (60 bp):
AAAAAGAGTCAAGTTCAGGTACCAAATTGAACCCCCCAAAAGTTGAAGTACCAACTTAAG
Found at i:33935099 original size:31 final size:31
Alignment explanation
Indices: 33935062--33935141 Score: 99
Period size: 31 Copynumber: 2.6 Consensus size: 31
33935052 GACCCCCCAA
* *
33935062 AAGTTTAAGTACCAACTTAAG-AAAAAGTATC
1 AAGTTTAAGTACCAA-ATAAGTAAAAAATATC
* *
33935093 AAGTTTAAGTACTAAATGAGTAAAAAATATC
1 AAGTTTAAGTACCAAATAAGTAAAAAATATC
*
33935124 AAGTTTAGGTACCAAATA
1 AAGTTTAAGTACCAAATA
33935142 TTATATTAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
30 3 0.07
31 38 0.93
ACGTcount: A:0.49, C:0.10, G:0.14, T:0.28
Consensus pattern (31 bp):
AAGTTTAAGTACCAAATAAGTAAAAAATATC
Found at i:33935241 original size:3 final size:3
Alignment explanation
Indices: 33935235--33935266 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
33935225 CCTCTTCCTC
33935235 CTT CTT CTT CTT CTT CTCT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CT-T CTT CTT CTT CTT C
33935267 AGCCAACCCT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (3 bp):
CTT
Found at i:33937117 original size:4 final size:4
Alignment explanation
Indices: 33937110--33937178 Score: 79
Period size: 4 Copynumber: 17.2 Consensus size: 4
33937100 AAATAAATGG
* *
33937110 GAAA GAAA GAAA GAAAA GAAA GAAA GAAA GAAA G-AA GAAT GAGAG GAAA
1 GAAA GAAA GAAA G-AAA GAAA GAAA GAAA GAAA GAAA GAAA GA-AA GAAA
*
33937159 GAAA G-AA GAAG GAAA GAAA G
1 GAAA GAAA GAAA GAAA GAAA G
33937179 GTAATGTGTT
Statistics
Matches: 56, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
3 6 0.11
4 43 0.77
5 7 0.12
ACGTcount: A:0.68, C:0.00, G:0.30, T:0.01
Consensus pattern (4 bp):
GAAA
Found at i:33940455 original size:21 final size:21
Alignment explanation
Indices: 33940430--33940476 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
33940420 TTAAGGTCTA
*
33940430 ATTGCCCCGGAGGAGTAGAGT
1 ATTGCCCCGGAGGAGTAAAGT
*
33940451 ATTGCCCGGGAGGAGTAAAGT
1 ATTGCCCCGGAGGAGTAAAGT
33940472 ATTGC
1 ATTGC
33940477 AGTGGCTCGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.26, C:0.17, G:0.36, T:0.21
Consensus pattern (21 bp):
ATTGCCCCGGAGGAGTAAAGT
Found at i:33942494 original size:13 final size:15
Alignment explanation
Indices: 33942462--33942505 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
33942452 ATGGGGATAT
33942462 TATTTTGATAATTAA
1 TATTTTGATAATTAA
*
33942477 TATTTTTAT-ATT-A
1 TATTTTGATAATTAA
*
33942490 TATTTTGGTAATTAA
1 TATTTTGATAATTAA
33942505 T
1 T
33942506 TAGCTAGGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
13 8 0.33
14 6 0.25
15 10 0.42
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (15 bp):
TATTTTGATAATTAA
Found at i:33943229 original size:7 final size:7
Alignment explanation
Indices: 33943213--33943252 Score: 64
Period size: 7 Copynumber: 5.9 Consensus size: 7
33943203 TGGTCCCCTT
33943213 CTTC-TC
1 CTTCTTC
33943219 CTTCTTC
1 CTTCTTC
33943226 CTTCTTC
1 CTTCTTC
33943233 CTTCTTC
1 CTTCTTC
33943240 CTTCTTC
1 CTTCTTC
*
33943247 TTTCTT
1 CTTCTT
33943253 TCTTTCTTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
6 4 0.12
7 28 0.88
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (7 bp):
CTTCTTC
Done.