Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 215 of 322
Found at i:71030915 original size:40 final size:40
Alignment explanation
Indices: 71030852--71030943 Score: 116
Period size: 40 Copynumber: 2.3 Consensus size: 40
71030842 CTATGTTCGA
71030852 CACTAAGTGTGCGATTCAAAATAGCTTCGGCTATA-AATAG
1 CACTAAGTGTGCGATTCAAAATAGCTTCGGCTATACAA-AG
** * *
71030892 CACTAAGTGTGCGAATT-GGAATAGCTTTGGCTATACAAGG
1 CACTAAGTGTGCG-ATTCAAAATAGCTTCGGCTATACAAAG
71030932 CACTAAGTGTGC
1 CACTAAGTGTGC
71030944 AATACTGAGA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
40 41 0.89
41 5 0.11
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (40 bp):
CACTAAGTGTGCGATTCAAAATAGCTTCGGCTATACAAAG
Found at i:71032717 original size:3 final size:3
Alignment explanation
Indices: 71032709--71032763 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
71032699 TTCTTAACCA
71032709 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
71032757 AAT AAT A
1 AAT AAT A
71032764 CAGGAGCATG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:71042638 original size:16 final size:16
Alignment explanation
Indices: 71042617--71042648 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
71042607 AGAGAAAAAC
*
71042617 CAAAAATAAAAATAAA
1 CAAAAACAAAAATAAA
71042633 CAAAAACAAAAATAAA
1 CAAAAACAAAAATAAA
71042649 TTAAGATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.81, C:0.09, G:0.00, T:0.09
Consensus pattern (16 bp):
CAAAAACAAAAATAAA
Found at i:71044735 original size:17 final size:18
Alignment explanation
Indices: 71044699--71044736 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
71044689 ATGCATTTCG
71044699 TACATATATTTTTTTGTA
1 TACATATATTTTTTTGTA
71044717 TACATA-ATTATTTTT-TA
1 TACATATATT-TTTTTGTA
71044734 TAC
1 TAC
71044737 GATTTATAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.58
Consensus pattern (18 bp):
TACATATATTTTTTTGTA
Found at i:71057299 original size:13 final size:13
Alignment explanation
Indices: 71057281--71057305 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71057271 TAATGGTATA
71057281 TTGAATCCATGAC
1 TTGAATCCATGAC
71057294 TTGAATCCATGA
1 TTGAATCCATGA
71057306 AAATTTAGTA
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:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:71057889 original size:27 final size:27
Alignment explanation
Indices: 71057854--71058032 Score: 184
Period size: 27 Copynumber: 6.6 Consensus size: 27
71057844 TTAAATTGTA
71057854 TAGCACTAAGTGTGCGATATGACTATG
1 TAGCACTAAGTGTGCGATATGACTATG
* * *
71057881 TTGCACTAAGTGTGCGAAATGAATATG
1 TAGCACTAAGTGTGCGATATGACTATG
*
71057908 -ATGCACTAAGTGTGCGA-ATTGACCATG
1 TA-GCACTAAGTGTGCGATA-TGACTATG
** *
71057935 CGGCACTAAGTGTGCGAGTTTGACTATG
1 TAGCACTAAGTGTGCGA-TATGACTATG
* * *
71057963 TAGCACTAAGTGTGCGATTTGATTACG
1 TAGCACTAAGTGTGCGATATGACTATG
* *
71057990 TAGCACTAAGTGTGCGAGT-TGATTATA
1 TAGCACTAAGTGTGCGA-TATGACTATG
*
71058017 TAGCACTGAGTGTGCG
1 TAGCACTAAGTGTGCG
71058033 GGCTCAATAT
Statistics
Matches: 130, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
26 1 0.01
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
TAGCACTAAGTGTGCGATATGACTATG
Found at i:71057970 original size:82 final size:81
Alignment explanation
Indices: 71057856--71058011 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
71057846 AAATTGTATA
* *
71057856 GCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
71057920 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
71057937 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
71058002 TGCGAGTTGA
65 TGCGAATTGA
71058012 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:71058023 original size:82 final size:81
Alignment explanation
Indices: 71057852--71058032 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
71057842 GATTAAATTG
* *
71057852 TATAGCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TATAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
71057917 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
*** * ** *
71057933 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TATAGCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
71057997 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
*
71058015 TATAGCACTGAGTGTGCG
1 TATAGCACTAAGTGTGCG
71058033 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 17 0.21
82 65 0.79
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TATAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:71060542 original size:132 final size:133
Alignment explanation
Indices: 71060343--71060600 Score: 378
Period size: 133 Copynumber: 1.9 Consensus size: 133
71060333 GCGACATTGG
* * *
71060343 TGAAGATTAAAGATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATCGAAAATGGTGAATCTTATC
1 TGAAGATTAAAGATCTTATCTCCCTAAAGTAGCAG-GAAGCAGATCGAAAATGGCGAATCTTATC
*
71060408 TCCATGTATTGGCAATGGAGCAAATTTTA-CCACCAGCCTTATCTCTCTAAGGTAGCAAGAAAGT
65 TCCATGTATCGGCAATGGAGCAAATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCAAGAAAGT
71060472 AGAC
130 AGAC
* *
71060476 TGAAGATTGAAGATCTTATCTCCCTAAATAGTAGCA-G-AGCAGATCGAATATGGCGAATCTTAT
1 TGAAGATTAAAGATCTTATCTCCCT-AA-AGTAGCAGGAAGCAGATCGAAAATGGCGAATCTTAT
** * *
71060539 CTCCATGTATCGGCAATGGAGCGGATTTTAGCCACTAGCCTTATCTCTCTGAGGTAGCAAGA
64 CTCCATGTATCGGCAATGGAGCAAATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCAAGA
71060601 GAGCAGGTTG
Statistics
Matches: 112, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
132 51 0.46
133 54 0.48
134 1 0.01
135 6 0.05
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.28
Consensus pattern (133 bp):
TGAAGATTAAAGATCTTATCTCCCTAAAGTAGCAGGAAGCAGATCGAAAATGGCGAATCTTATCT
CCATGTATCGGCAATGGAGCAAATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCAAGAAAGTA
GAC
Found at i:71060650 original size:132 final size:132
Alignment explanation
Indices: 71060379--71060631 Score: 332
Period size: 132 Copynumber: 1.9 Consensus size: 132
71060369 AAGTTGCAGT
* *
71060379 GAAGCAGATCGAAAATGGTGAATCTTATCTCCATGTATTGGCAATGGAGCAAATTTTACCACCAG
1 GAAGCAGATCGAAAATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAAATTTTACCACCAG
* * *
71060444 CCTTATCTCTCTAAGGTAGCAAGAAAGTAGACTGAAGATTGAAGATCTTATCTCCCTAAATAGTA
66 CCTTATCTCTCTAAGGTAGCAAGAAAGCAGACTGAAGA-TAAAGATCTTATCTACCTAAATAGTA
*
71060509 GCA
130 ACA
* ** *
71060512 G-AGCAGATCGAATATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCGGATTTTAGCCACTA
1 GAAGCAGATCGAAAATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAAATTTTA-CCACCA
* * **
71060576 GCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAA-A-AAAGAGTCTTATCTACCT
65 GCCTTATCTCTCTAAGGTAGCAAGAAAGCAGACTGAAGATAAAGA-TCTTATCTACCT
71060632 GAGGTAACAA
Statistics
Matches: 105, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
130 4 0.04
131 11 0.10
132 52 0.50
133 38 0.36
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (132 bp):
GAAGCAGATCGAAAATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAAATTTTACCACCAG
CCTTATCTCTCTAAGGTAGCAAGAAAGCAGACTGAAGATAAAGATCTTATCTACCTAAATAGTAA
CA
Found at i:71060663 original size:176 final size:177
Alignment explanation
Indices: 71060457--71061159 Score: 832
Period size: 180 Copynumber: 3.9 Consensus size: 177
71060447 TATCTCTCTA
* * * *
71060457 AGGTAGCAAGAAAGTAGACTGAAGATTGAAGATCTT-ATCTCC-CTAAATAGTAGCAGAGCAGAT
1 AGGTAACAAGAAAGCAGACTGAAGATTGAAGAT-TTCATCTCCTCGAAATAGTAGCGGAGCAGAT
* * * *
71060520 CGAATATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCGGATTTTAGCCA-CTAGCCTTATC
65 CGAAGATGGCTAATCTTATCTCCATGTATCGGCAATGGAGCAGATCTTAGCCATC-AGCCTTATC
*
71060584 TCTCTGAGGTAGCAAGAGAGCAGGTTGAAAAAAGAGTCTTATCTACCTG
129 TCTCTGAGGTAGCAAGAGAGCAGGTTGAAAAATGAGTCTTATCTACCTG
* * * *
71060633 AGGTAACAAGGAAGCAGACTGAGGATTGAAGATTTCATCTCCTCGAAGTTGTAGCGGAGCAGATC
1 AGGTAACAAGAAAGCAGACTGAAGATTGAAGATTTCATCTCCTCGAAATAGTAGCGGAGCAGATC
* * *
71060698 TTTGAAGATGGCTAATCTTATCTCCATGTATTGGCAATGGGGCAGATCTAAGCCATCAGCCTTAT
66 ---GAAGATGGCTAATCTTATCTCCATGTATCGGCAATGGAGCAGATCTTAGCCATCAGCCTTAT
* *
71060763 CTCTCTGAGGTAGCAAGAGAACAGGTTGAAGAATGAGTCTTATCCTTA--TG
128 CTCTCTGAGGTAGCAAGAGAGCAGGTTGAAAAATGAGTCTTAT-C-TACCTG
* * * * *
71060813 AGGTAGCAAGAAAGTAGACTGAAGATTGAAGATTTTATCTCC-CTAAACAGTAGCGGAGCAGATC
1 AGGTAACAAGAAAGCAGACTGAAGATTGAAGATTTCATCTCCTCGAAATAGTAGCGGAGCAGATC
* * * *
71060877 GAAGATGGCAAATCTTATCTCCATGTATCGAG-AATGGAGCGGATTTTAGCCA-CTGGCCTTATC
66 GAAGATGGCTAATCTTATCTCCATGTATCG-GCAATGGAGCAGATCTTAGCCATC-AGCCTTATC
* * * *
71060940 TCTCTGAGGTAACAGGAAAGCAGGTTGAAAAATGAGTCTTATCTTCCTG
129 TCTCTGAGGTAGCAAGAGAGCAGGTTGAAAAATGAGTCTTATCTACCTG
* * * * *
71060989 AGGTAACAAGGAAGCAGACTCAGGATTGAAGATTTCATCTCCTCGAAGTTA-CAGCGGAGCAGAT
1 AGGTAACAAGAAAGCAGACTGAAGATTGAAGATTTCATCTCCTCGAA-ATAGTAGCGGAGCAGA-
* * * *
71061053 CTTCGAAGGTGGCTAATCTTATCTCCATATATTGGCAATGG-GACAGATCTGAGCCATCAGCCTT
64 --TCGAAGATGGCTAATCTTATCTCCATGTATCGGCAATGGAG-CAGATCTTAGCCATCAGCCTT
* *
71061117 ATCTCTTTGAGGTAGCAAGAGAGCAGGTTGAAGAATGAGTCTT
126 ATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAAAATGAGTCTT
71061160 GTCTTTCTAA
Statistics
Matches: 444, Mismatches: 63, Indels: 36
0.82 0.12 0.07
Matches are distributed among these distances:
174 1 0.00
175 4 0.01
176 162 0.36
177 33 0.07
178 1 0.00
179 20 0.05
180 218 0.49
181 3 0.01
182 2 0.00
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (177 bp):
AGGTAACAAGAAAGCAGACTGAAGATTGAAGATTTCATCTCCTCGAAATAGTAGCGGAGCAGATC
GAAGATGGCTAATCTTATCTCCATGTATCGGCAATGGAGCAGATCTTAGCCATCAGCCTTATCTC
TCTGAGGTAGCAAGAGAGCAGGTTGAAAAATGAGTCTTATCTACCTG
Found at i:71061055 original size:356 final size:356
Alignment explanation
Indices: 71060455--71061203 Score: 1212
Period size: 356 Copynumber: 2.1 Consensus size: 356
71060445 CTTATCTCTC
* *
71060455 TAAGGTAGCAAGAAAGTAGACTGAAGATTGAAGATCTTATCTCCCTAAATAGTAGCAGAGCAGAT
1 TAAGGTAGCAAGAAAGTAGACTGAAGATTGAAGATTTTATCTCCCTAAACAGTAGCAGAGCAGAT
* *
71060520 CGAATATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCGGATTTTAGCCACTAGCCTTATCT
66 CGAAGATGGCAAATCTTATCTCCATGTATCGGCAATGGAGCGGATTTTAGCCACTAGCCTTATCT
* *
71060585 CTCTGAGGTAGCAAGAGAGCAGGTTGAAAAAAGAGTCTTATCTACCTGAGGTAACAAGGAAGCAG
131 CTCTGAGGTAACAAGAAAGCAGGTTGAAAAAAGAGTCTTATCTACCTGAGGTAACAAGGAAGCAG
* ** *
71060650 ACTGAGGATTGAAGATTTCATCTCCTCGAAGTTGTAGCGGAGCAGATCTTTGAAGATGGCTAATC
196 ACTCAGGATTGAAGATTTCATCTCCTCGAAGTTACAGCGGAGCAGATCTTCGAAGATGGCTAATC
* *
71060715 TTATCTCCATGTATTGGCAATGGGGCAGATCTAAGCCATCAGCCTTATCTCTCTGAGGTAGCAAG
261 TTATCTCCATATATTGGCAATGGGACAGATCTAAGCCATCAGCCTTATCTCTCTGAGGTAGCAAG
71060780 AGAACAGGTTGAAGAATGAGTCTTATCCTTA
326 AGAACAGGTTGAAGAATGAGTCTTATCCTTA
* *
71060811 TGAGGTAGCAAGAAAGTAGACTGAAGATTGAAGATTTTATCTCCCTAAACAGTAGCGGAGCAGAT
1 TAAGGTAGCAAGAAAGTAGACTGAAGATTGAAGATTTTATCTCCCTAAACAGTAGCAGAGCAGAT
*
71060876 CGAAGATGGCAAATCTTATCTCCATGTATCGAG-AATGGAGCGGATTTTAGCCACTGGCCTTATC
66 CGAAGATGGCAAATCTTATCTCCATGTATCG-GCAATGGAGCGGATTTTAGCCACTAGCCTTATC
* * *
71060940 TCTCTGAGGTAACAGGAAAGCAGGTTGAAAAATGAGTCTTATCTTCCTGAGGTAACAAGGAAGCA
130 TCTCTGAGGTAACAAGAAAGCAGGTTGAAAAAAGAGTCTTATCTACCTGAGGTAACAAGGAAGCA
*
71061005 GACTCAGGATTGAAGATTTCATCTCCTCGAAGTTACAGCGGAGCAGATCTTCGAAGGTGGCTAAT
195 GACTCAGGATTGAAGATTTCATCTCCTCGAAGTTACAGCGGAGCAGATCTTCGAAGATGGCTAAT
* *
71061070 CTTATCTCCATATATTGGCAATGGGACAGATCTGAGCCATCAGCCTTATCTCTTTGAGGTAGCAA
260 CTTATCTCCATATATTGGCAATGGGACAGATCTAAGCCATCAGCCTTATCTCTCTGAGGTAGCAA
* * * *
71061135 GAGAGCAGGTTGAAGAATGAGTCTTGTCTTTC
325 GAGAACAGGTTGAAGAATGAGTCTTATCCTTA
* * * * *
71061167 TAAGGTAGAAAGGAGGTAGACTAAAGATTGTAGATTT
1 TAAGGTAGCAAGAAAGTAGACTGAAGATTGAAGATTT
71061204 ATTTCCCAAA
Statistics
Matches: 361, Mismatches: 31, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
356 360 1.00
357 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (356 bp):
TAAGGTAGCAAGAAAGTAGACTGAAGATTGAAGATTTTATCTCCCTAAACAGTAGCAGAGCAGAT
CGAAGATGGCAAATCTTATCTCCATGTATCGGCAATGGAGCGGATTTTAGCCACTAGCCTTATCT
CTCTGAGGTAACAAGAAAGCAGGTTGAAAAAAGAGTCTTATCTACCTGAGGTAACAAGGAAGCAG
ACTCAGGATTGAAGATTTCATCTCCTCGAAGTTACAGCGGAGCAGATCTTCGAAGATGGCTAATC
TTATCTCCATATATTGGCAATGGGACAGATCTAAGCCATCAGCCTTATCTCTCTGAGGTAGCAAG
AGAACAGGTTGAAGAATGAGTCTTATCCTTA
Found at i:71061457 original size:16 final size:16
Alignment explanation
Indices: 71061436--71061467 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
71061426 AGAGAAAAAC
*
71061436 CAAAAATAAAAATAAA
1 CAAAAACAAAAATAAA
71061452 CAAAAACAAAAATAAA
1 CAAAAACAAAAATAAA
71061468 TTAAGATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.81, C:0.09, G:0.00, T:0.09
Consensus pattern (16 bp):
CAAAAACAAAAATAAA
Found at i:71063886 original size:12 final size:12
Alignment explanation
Indices: 71063869--71063899 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
71063859 GTACATTGTC
71063869 AATTTGTAAATG
1 AATTTGTAAATG
71063881 AATTTGTAAATG
1 AATTTGTAAATG
71063893 AATTTGT
1 AATTTGT
71063900 GTTTAAACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (12 bp):
AATTTGTAAATG
Found at i:71065267 original size:54 final size:55
Alignment explanation
Indices: 71065169--71065329 Score: 182
Period size: 59 Copynumber: 2.9 Consensus size: 55
71065159 GAGGGGAAGA
* ** *
71065169 AGCCAAAGTGAAAACCCACAAAGGGCGCTTTGAGACTTTCTAAAAAAAAG-GGGG
1 AGCCAAAGTGAAAACCCACAAAGGGCGCTTTGAGACCTAATAAAAAAAAGAAGGG
* * * *
71065223 GGCCAAAGTGAAAACTCGCAAAGGGCGCTTTGAGACCTAATAAAAATGACAAGATATGG
1 AGCCAAAGTGAAAACCCACAAAGGGCGCTTTGAGACCTAATAAAAA--A-AAGA-AGGG
*
71065282 AGCCAAAGTGAAAACCCACAAAGAGCGCTTTGAGA-CTCAATAAAAAAA
1 AGCCAAAGTGAAAACCCACAAAGGGCGCTTTGAGACCT-AATAAAAAAA
71065330 TAAAGTCAAA
Statistics
Matches: 89, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
54 40 0.45
56 2 0.02
57 4 0.04
58 2 0.02
59 41 0.46
ACGTcount: A:0.43, C:0.19, G:0.23, T:0.15
Consensus pattern (55 bp):
AGCCAAAGTGAAAACCCACAAAGGGCGCTTTGAGACCTAATAAAAAAAAGAAGGG
Found at i:71066605 original size:33 final size:33
Alignment explanation
Indices: 71066526--71066591 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
71066516 CTTCCTGAGG
71066526 TAGCAAAGAAGCAGACTGAAGATTAAAGATCTT
1 TAGCAAAGAAGCAGACTGAAGATTAAAGATCTT
71066559 TAGCAAAGAAGCAGACTGAAGATTAAAGATCTT
1 TAGCAAAGAAGCAGACTGAAGATTAAAGATCTT
71066592 ATCTCCCTAA
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:0.45, C:0.12, G:0.21, T:0.21
Consensus pattern (33 bp):
TAGCAAAGAAGCAGACTGAAGATTAAAGATCTT
Found at i:71066739 original size:210 final size:210
Alignment explanation
Indices: 71066375--71066765 Score: 604
Period size: 210 Copynumber: 1.9 Consensus size: 210
71066365 TGGTGAAGTC
* * *
71066375 AGATCTTATCTCCCTAATCAGTGGCCGAGCAGATCGAAGATGCCGAATCTTATCTCCATATATAG
1 AGATCTTATCTCCCTAAGCAGTAGCCGAGCAGATCGAAGATGCCGAATCTTATATCCATATATAG
* * * * *
71066440 GCAATGGAGTAGATCTAAGCCACCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGTAGGTTGAATA
66 ACAATGGAGCAGATCTAAGCCACCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGAAGGTTAAAGA
*
71066505 TTGAGTCTTATCTTCCTGAGGTAGCAAAGAAGCAGACTGAAGATTAAAGATCTTTAGCAAAGAAG
131 TTGAGTCTTATCTTCCTAAGGTAGCAAAGAAGCAGACTGAAGATTAAAGATCTTTAGCAAAGAAG
71066570 CAGACTGAAGATTAA
196 CAGACTGAAGATTAA
** * * *
71066585 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAGA-GGCGAATCTTATATCCATGTATC
1 AGATCTTATCTCCCTAAGCAGTAGCCGAGCAGATCG-AAGATGCCGAATCTTATATCCATATATA
* *
71066649 GACAATGGAGCAGTTTTAAGCCACCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGAAGGTTAAAG
65 GACAATGGAGCAGATCTAAGCCACCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGAAGGTTAAAG
* *
71066714 ATTGAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAAGATTGAAGAT
130 ATTGAGTCTTATCTTCCTAAGGTAGCAAAGAAGCAGACTGAAGATTAAAGAT
71066766 ATTATCTCCC
Statistics
Matches: 162, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
210 158 0.98
211 4 0.02
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (210 bp):
AGATCTTATCTCCCTAAGCAGTAGCCGAGCAGATCGAAGATGCCGAATCTTATATCCATATATAG
ACAATGGAGCAGATCTAAGCCACCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGAAGGTTAAAGA
TTGAGTCTTATCTTCCTAAGGTAGCAAAGAAGCAGACTGAAGATTAAAGATCTTTAGCAAAGAAG
CAGACTGAAGATTAA
Found at i:71066892 original size:90 final size:87
Alignment explanation
Indices: 71066629--71066892 Score: 203
Period size: 90 Copynumber: 3.0 Consensus size: 87
71066619 CGAAAGAGGC
* * * *
71066629 GAATCTTATATCCATGTATCGACAATGGAGCAGTTTTAAGCCACCAAGCCTTATCTCTCTGAGGT
1 GAATCTTATTTCCATGTAT-GGCAATGGAGCAGATTTAAGCTACCAAGCCTTATCTCTCTGAGGT
* * *
71066694 AGCAAGAGAGAAGGTTAAAGATT
65 AGCAAAAGAGCAGGTTGAAGATT
* * * * * ** ** *
71066717 GAGTCTTATCTTCCTAAGGTA--GCAA-GGAAGCAGACTGAAGAT-TGAAGATATTATCTCCCTG
1 GAATCTTAT-TTCC--ATGTATGGCAATGG-AGCAGATTTAAGCTACCAAG-CCTTATCTCTCTG
* * *** * *
71066778 AAGTTGCAGCGGAGCAGATCGAAGATGGT
61 AGGTAGCAAAAGAGCAGGTTGAAGAT--T
71066807 GAATCTTATTTCCATGTATTGGCAATGGAGCAGATTTAAGCTACCAAGCCTTATCTCTCTGAGGT
1 GAATCTTATTTCCATGTA-TGGCAATGGAGCAGATTTAAGCTACCAAGCCTTATCTCTCTGAGGT
71066872 AGCAAAAGAGCAGGTTGAAGA
65 AGCAAAAGAGCAGGTTGAAGA
71066893 AATTGGTCTT
Statistics
Matches: 124, Mismatches: 40, Indels: 22
0.67 0.22 0.12
Matches are distributed among these distances:
87 9 0.07
88 47 0.38
89 7 0.06
90 52 0.42
91 9 0.07
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (87 bp):
GAATCTTATTTCCATGTATGGCAATGGAGCAGATTTAAGCTACCAAGCCTTATCTCTCTGAGGTA
GCAAAAGAGCAGGTTGAAGATT
Found at i:71066972 original size:178 final size:177
Alignment explanation
Indices: 71066559--71067035 Score: 579
Period size: 178 Copynumber: 2.7 Consensus size: 177
71066549 TAAAGATCTT
* * * *
71066559 TAGCAAAGAAGCAGACTGAAGATTAAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAA
1 TAGCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAACAGTTGTGGAGCAGATCG-AA
* *
71066624 GA-GGCGAATCTTATATCCATGTATCGACAATGGAGCAGTTTTAAGCCACCAAGCCTTATCTCTC
65 GATGGCGAATCTTATATCCATGTATCGGCAATGGAGCAGATTTAAGCCACCAAGCCTTATCTCTC
* *
71066688 TGAGGTAGCAAGAGAGAAGGTTAAAGATTGAGTCTTATCTTCCTAAGG
130 TGAGGTAGCAAAAGAGAAGGTTAAAAATTGAGTCTTATCTTCCTAAGG
* * *
71066736 TAGCAAGGAAGCAGACTGAAGATTGAAGATATTATCTCCCT-GA-AGTTGCAGCGGAGCAGATCG
1 TAGCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAACAGTT---GTGGAGCAGATCG
* * * *
71066799 AAGATGGTGAATCTTATTTCCATGTATTGGCAATGGAGCAGATTTAAGCTACCAAGCCTTATCTC
63 AAGATGGCGAATCTTATATCCATGTATCGGCAATGGAGCAGATTTAAGCCACCAAGCCTTATCTC
*
71066864 TCTGAGGTAGCAAAAGAGCAGGTTGAAGAAATTG-GTCTTATCTTCCTGAA-G
128 TCTGAGGTAGCAAAAGAGAAGGTT-AA-AAATTGAGTCTTATCTTCCT-AAGG
* * * * * *
71066915 TAGCAAGGAAGCAGACTGAAGATTGAGGATCTTGTCTCCTTAAACAGTTTTGGAGCAGGTCAAAG
1 TAGCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAACAGTTGTGGAGCAGATCGAAG
* * * * * * * *
71066980 ATAGCAAATTTTATCTCCACGTATCAGCAATGGAGCAAATTTAAGTCACC-AGCCTT
66 ATGGCGAATCTTATATCCATGTATCGGCAATGGAGCAGATTTAAGCCACCAAGCCTT
71067036 GTCTACCTGA
Statistics
Matches: 255, Mismatches: 36, Indels: 18
0.83 0.12 0.06
Matches are distributed among these distances:
175 3 0.01
177 48 0.19
178 139 0.55
179 53 0.21
180 8 0.03
181 4 0.02
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (177 bp):
TAGCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAACAGTTGTGGAGCAGATCGAAG
ATGGCGAATCTTATATCCATGTATCGGCAATGGAGCAGATTTAAGCCACCAAGCCTTATCTCTCT
GAGGTAGCAAAAGAGAAGGTTAAAAATTGAGTCTTATCTTCCTAAGG
Found at i:71070700 original size:24 final size:24
Alignment explanation
Indices: 71070670--71070727 Score: 98
Period size: 24 Copynumber: 2.4 Consensus size: 24
71070660 ACATATTTTT
71070670 ATACATTTGTACAATATCAATACC
1 ATACATTTGTACAATATCAATACC
*
71070694 ATACATTTGTACAATATGAATACC
1 ATACATTTGTACAATATCAATACC
*
71070718 ATACAATTGT
1 ATACATTTGT
71070728 CATGCTTTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.34
Consensus pattern (24 bp):
ATACATTTGTACAATATCAATACC
Found at i:71076497 original size:35 final size:35
Alignment explanation
Indices: 71076452--71076522 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
71076442 AAATACAATA
*
71076452 AAATCGATTATCTATGTTAAATTTTATAAATTAAT
1 AAATCGATTATCCATGTTAAATTTTATAAATTAAT
*
71076487 AAATTGATTATCCATGTTAAATTTTATAAATTAAT
1 AAATCGATTATCCATGTTAAATTTTATAAATTAAT
71076522 A
1 A
71076523 TCTATTTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.45
Consensus pattern (35 bp):
AAATCGATTATCCATGTTAAATTTTATAAATTAAT
Found at i:71082904 original size:57 final size:57
Alignment explanation
Indices: 71082829--71082945 Score: 207
Period size: 57 Copynumber: 2.1 Consensus size: 57
71082819 ATAATATCTT
71082829 ATAGAAAGAACTAGGAAATGAGTATGTTGAAGAGACCTACTGTTGAGTTTGATGATA
1 ATAGAAAGAACTAGGAAATGAGTATGTTGAAGAGACCTACTGTTGAGTTTGATGATA
* * *
71082886 ATAGATAGAAGTAGGAAATGAGTATGTTGAAGAGACCTACTGTTGAGTTTGGTGATA
1 ATAGAAAGAACTAGGAAATGAGTATGTTGAAGAGACCTACTGTTGAGTTTGATGATA
71082943 ATA
1 ATA
71082946 TATTCTTTAG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.38, C:0.06, G:0.27, T:0.29
Consensus pattern (57 bp):
ATAGAAAGAACTAGGAAATGAGTATGTTGAAGAGACCTACTGTTGAGTTTGATGATA
Found at i:71088639 original size:87 final size:87
Alignment explanation
Indices: 71088522--71088689 Score: 198
Period size: 87 Copynumber: 1.9 Consensus size: 87
71088512 TTAAGTTCTT
* * *
71088522 TTTTTTTACACTTATTTGGATACTTAAACTTTCAAAAT-ATAATAAAAAAGCCCTCAAA-TATTT
1 TTTTTTTACACTCAATTAGATACTTAAACTTTCAAAATCATAA-AAAAAA-CCCTCAAACT-TTT
*
71088585 TT-AAAAAAAGTAATTAAACCCCTA
63 TTAAAAAAAAGCAATTAAACCCCTA
* * * * *
71088609 TTTTTTTACGCTCAATTAGATACTTGAACTTTTAAAATGCATCAAAAACACCCTCAAACTTTTTT
1 TTTTTTTACACTCAATTAGATACTTAAACTTTCAAAAT-CATAAAAAAAACCCTCAAACTTTTTT
71088674 AAAAAAAAGCAATTAA
65 AAAAAAAAGCAATTAA
71088690 GCCCATAATT
Statistics
Matches: 68, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
87 45 0.66
88 20 0.29
89 3 0.04
ACGTcount: A:0.43, C:0.16, G:0.05, T:0.36
Consensus pattern (87 bp):
TTTTTTTACACTCAATTAGATACTTAAACTTTCAAAATCATAAAAAAAACCCTCAAACTTTTTTA
AAAAAAAGCAATTAAACCCCTA
Found at i:71088783 original size:29 final size:27
Alignment explanation
Indices: 71088716--71088805 Score: 80
Period size: 26 Copynumber: 3.3 Consensus size: 27
71088706 AAAATTAGAA
*
71088716 AAAAATTATAAAAAATTAAA-A-TTAAT
1 AAAAATTAT-AAATATTAAATATTTAAT
*
71088742 AAAAACTATAAATTTTATTAAAT-TTTAAT
1 AAAAATTATAAA---TATTAAATATTTAAT
*
71088771 AAAAATTCA-AAATATTAAATATTTATT
1 AAAAATT-ATAAATATTAAATATTTAAT
71088798 AAAAATTA
1 AAAAATTA
71088806 GAAAAAATAT
Statistics
Matches: 53, Mismatches: 4, Indels: 14
0.75 0.06 0.20
Matches are distributed among these distances:
25 3 0.06
26 17 0.32
27 12 0.23
28 6 0.11
29 14 0.26
30 1 0.02
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (27 bp):
AAAAATTATAAATATTAAATATTTAAT
Found at i:71088864 original size:28 final size:28
Alignment explanation
Indices: 71088833--71088887 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
71088823 TGTAATTTTT
71088833 TATAAAAATCAT-AAAAAGTTATAAAATA
1 TATAAAAA-CATAAAAAAGTTATAAAATA
* *
71088861 TATAGAAACATAAAAAATTTATAAAAT
1 TATAAAAACATAAAAAAGTTATAAAAT
71088888 TTTATAAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.12
28 21 0.88
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.29
Consensus pattern (28 bp):
TATAAAAACATAAAAAAGTTATAAAATA
Found at i:71091676 original size:17 final size:18
Alignment explanation
Indices: 71091643--71091676 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
71091633 AGAATATGAG
*
71091643 TTGAGCTGAATTTGATAA
1 TTGAGCTGAAATTGATAA
71091661 TTGAGCT-AAATTGATA
1 TTGAGCTGAAATTGATA
71091677 TGAATTCAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.38
Consensus pattern (18 bp):
TTGAGCTGAAATTGATAA
Found at i:71094181 original size:20 final size:20
Alignment explanation
Indices: 71094158--71094197 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
71094148 TAAAGTGTAT
*
71094158 ACAGAGGCACCAAAGTGCAA
1 ACAGAGCCACCAAAGTGCAA
*
71094178 ACAGAGCCACCGAAGTGCAA
1 ACAGAGCCACCAAAGTGCAA
71094198 TTCCCGTACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.28, G:0.25, T:0.05
Consensus pattern (20 bp):
ACAGAGCCACCAAAGTGCAA
Found at i:71097751 original size:12 final size:12
Alignment explanation
Indices: 71097734--71097760 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
71097724 TATGAGTGGG
71097734 ATGGCATATATT
1 ATGGCATATATT
71097746 ATGGCATATATT
1 ATGGCATATATT
71097758 ATG
1 ATG
71097761 TATATGTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.19, T:0.41
Consensus pattern (12 bp):
ATGGCATATATT
Found at i:71099179 original size:23 final size:23
Alignment explanation
Indices: 71099153--71099196 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
71099143 CTAGCTATCA
71099153 TAGCATTTTTCATCAATGGTCCG
1 TAGCATTTTTCATCAATGGTCCG
*
71099176 TAGCATTTTTCATCTATGGTC
1 TAGCATTTTTCATCAATGGTC
71099197 TTACATCGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.16, T:0.43
Consensus pattern (23 bp):
TAGCATTTTTCATCAATGGTCCG
Found at i:71112613 original size:46 final size:45
Alignment explanation
Indices: 71112469--71112684 Score: 163
Period size: 46 Copynumber: 4.7 Consensus size: 45
71112459 CATATCTGTG
* * *
71112469 CCGATGCCATGTCCCAGGCATGGTCTTACACT-GACACATCTC-GTA
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGACTCATCTCAATA
* * * ** **
71112514 GCCGATGCATGTCCCAAACACGTCTTACACTGG-CTTACGTCTTGAGG
1 -CCGATGCATGTCCCAGACATGTCTTACACTGGAC-T-CATCTCAATA
71112561 CCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCAATA
1 CCGATGCATGTCCCAGACATGTCTTACACTGG-ACTCATCTCAATA
* * * *
71112607 CGGATGCCATGTCCCAGACATGGTCTTACATTGGA-TC-TCACAATGTGG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGACTCATCTCAA--T-A
*
71112655 CCGATTCATGTCCCAGACATGTCTTACACT
1 CCGATGCATGTCCCAGACATGTCTTACACT
71112685 AGCTCACATA
Statistics
Matches: 136, Mismatches: 23, Indels: 22
0.75 0.13 0.12
Matches are distributed among these distances:
44 11 0.08
45 17 0.12
46 61 0.45
47 31 0.23
48 16 0.12
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (45 bp):
CCGATGCATGTCCCAGACATGTCTTACACTGGACTCATCTCAATA
Found at i:71115809 original size:185 final size:185
Alignment explanation
Indices: 71115483--71115857 Score: 678
Period size: 185 Copynumber: 2.0 Consensus size: 185
71115473 AAACCCTGAT
*
71115483 CTCACATTCTGTCTGGCTTGGTCTCTCCTCTGAGTCCTCGAACAATCTCTCAAATCTTGCGAACA
1 CTCACATTCTGTCTGGCTTGGTCTCTCCTCTGAGTCCTCGAACAATCTCTCAAATCTTGCAAACA
* *
71115548 TCAGACAAACTGCTATAAATTCAAATGAGCTTAATGAGTTTCTCCACTAGGTCATACATAAAAAA
66 TCAGACAAACTGCTATAAATTCAAATGAACTTAATGAGTTTCTCCACTAGGTCACACATAAAAAA
71115613 ACCCAAACTCACGAGGGTAAGAAATGTAAAATAAAATAAATATAAATATTCCTTG
131 ACCCAAACTCACGAGGGTAAGAAATGTAAAATAAAATAAATATAAATATTCCTTG
71115668 CTCACATTCTGTCTGGCTTGGTCTCTCCTCTGAGTCCTCGAACAATCTCTCAAATCTTGCAAACA
1 CTCACATTCTGTCTGGCTTGGTCTCTCCTCTGAGTCCTCGAACAATCTCTCAAATCTTGCAAACA
* * *
71115733 TCAGACAAACTGCTATAAGTTCAAATGAACTTAATGAGTTTCTCCATTAGGTCACACATAAATAA
66 TCAGACAAACTGCTATAAATTCAAATGAACTTAATGAGTTTCTCCACTAGGTCACACATAAAAAA
* *
71115798 ACCCGAACTCACGAGGGTAAGAAATGTAAAATAAAATAAATATAAATATTGCTTG
131 ACCCAAACTCACGAGGGTAAGAAATGTAAAATAAAATAAATATAAATATTCCTTG
71115853 CTCAC
1 CTCAC
71115858 TTAAGGTGAG
Statistics
Matches: 182, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
185 182 1.00
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (185 bp):
CTCACATTCTGTCTGGCTTGGTCTCTCCTCTGAGTCCTCGAACAATCTCTCAAATCTTGCAAACA
TCAGACAAACTGCTATAAATTCAAATGAACTTAATGAGTTTCTCCACTAGGTCACACATAAAAAA
ACCCAAACTCACGAGGGTAAGAAATGTAAAATAAAATAAATATAAATATTCCTTG
Found at i:71137449 original size:39 final size:39
Alignment explanation
Indices: 71137392--71137624 Score: 439
Period size: 39 Copynumber: 6.0 Consensus size: 39
71137382 NNNNNNNNNT
* * *
71137392 AGCCTGCGGACCTAAAGTCCGGATATAATTCTCGCATAT
1 AGCCTGCGGACATGAAGTCCGGATATAATTCTCGCATAG
71137431 AGCCTGCGGACATGAAGTCCGGATATAATTCTCGCATAG
1 AGCCTGCGGACATGAAGTCCGGATATAATTCTCGCATAG
71137470 AGCCTGCGGACATGAAGTCCGGATATAATTCTCGCATAG
1 AGCCTGCGGACATGAAGTCCGGATATAATTCTCGCATAG
71137509 AGCCTGCGGACATGAAGTCCGGATATAATTCTCGCATAG
1 AGCCTGCGGACATGAAGTCCGGATATAATTCTCGCATAG
71137548 AGCCTGCGGACATGAAGTCCGGATATAATTCTCGCATAG
1 AGCCTGCGGACATGAAGTCCGGATATAATTCTCGCATAG
71137587 AGCCTGCGGACATGAAGTCCGGATATAATTCTCGCATA
1 AGCCTGCGGACATGAAGTCCGGATATAATTCTCGCATA
71137625 TATATATTCA
Statistics
Matches: 191, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 191 1.00
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (39 bp):
AGCCTGCGGACATGAAGTCCGGATATAATTCTCGCATAG
Found at i:71145903 original size:29 final size:29
Alignment explanation
Indices: 71145851--71145910 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
71145841 CACAAAAACT
*
71145851 TTCCTTATAATAGAGATCACCACAGAGGC
1 TTCCTTATAATAGAGATCACCACAAAGGC
**
71145880 TTCCTTATAATAGAGATCGTCACAAAGGC
1 TTCCTTATAATAGAGATCACCACAAAGGC
71145909 TT
1 TT
71145911 TCGTAAGGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (29 bp):
TTCCTTATAATAGAGATCACCACAAAGGC
Found at i:71147572 original size:7 final size:7
Alignment explanation
Indices: 71147560--71147601 Score: 57
Period size: 7 Copynumber: 6.0 Consensus size: 7
71147550 TTTAAAAAAC
71147560 AATTGAG
1 AATTGAG
71147567 AATTGAG
1 AATTGAG
71147574 AATTGAG
1 AATTGAG
*
71147581 AACTGAG
1 AATTGAG
*
71147588 AACTGAG
1 AATTGAG
*
71147595 GATTGAG
1 AATTGAG
71147602 TTGAAAAGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.40, C:0.05, G:0.31, T:0.24
Consensus pattern (7 bp):
AATTGAG
Found at i:71148560 original size:9 final size:9
Alignment explanation
Indices: 71148548--71148578 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
71148538 CTTTCCTAAC
*
71148548 TTTTAAGAA
1 TTTTATGAA
71148557 TTTTATGAA
1 TTTTATGAA
71148566 TTTTATGAA
1 TTTTATGAA
71148575 TTTT
1 TTTT
71148579 TTTAGCTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.32, C:0.00, G:0.10, T:0.58
Consensus pattern (9 bp):
TTTTATGAA
Found at i:71149394 original size:49 final size:50
Alignment explanation
Indices: 71149304--71149410 Score: 171
Period size: 49 Copynumber: 2.1 Consensus size: 50
71149294 AACATATTTT
* *
71149304 TAATTAATATGTAAGTTATTTTTTTTTTGCTATTACAATTACGATCACATTG
1 TAATTAATATGTAAG-T-TTTTTTTTTTGCTATTACAATTACAATCACATTC
71149356 TAATTAATATGTAAG-TTTTTTTTTTGCTATTACAATTACAATCACATTC
1 TAATTAATATGTAAGTTTTTTTTTTTGCTATTACAATTACAATCACATTC
71149405 TAATTA
1 TAATTA
71149411 CAAAAAGTAT
Statistics
Matches: 53, Mismatches: 2, Indels: 3
0.91 0.03 0.05
Matches are distributed among these distances:
49 38 0.72
52 15 0.28
ACGTcount: A:0.33, C:0.10, G:0.07, T:0.50
Consensus pattern (50 bp):
TAATTAATATGTAAGTTTTTTTTTTTGCTATTACAATTACAATCACATTC
Found at i:71157102 original size:767 final size:764
Alignment explanation
Indices: 71155364--71157279 Score: 3683
Period size: 765 Copynumber: 2.5 Consensus size: 764
71155354 CCTTCGATTG
71155364 AAAGATGAGGAAAAGTTCGTACACTTGGTTATCCCTTGCAACTCCCCCACTCTTCGAAAGACTAG
1 AAAGATGAGGAAAAGTTCGTACACTTGGTTATCCCTTGCAACTCCCCCACTCTTCGAAAGACTAG
*
71155429 GAACCCACGAACACCACACCAAACAAACGAGATGAGATTCGGCAATAGTAACAAAAGAGACCGAG
66 GAACCCACGAACACCACACCAAACAAAAGAGATGAGATTCGGCAATAGTAACAAAAGAGACCGAG
*
71155494 AGAAAAGAAAGACTTAATCAAAGTTGAAAGAAAAAAAAGAGACCGAGCGTTTACCGATTTGTAGA
131 AGAAAAGAAAGACTTAATCAAAGTTGAAAGAAAAAAAAGAGACCGAGCGTTTACCGATTTGCAGA
71155559 GAACGCTTGCACAACCGTGATTAACCAGAGGAGTTTTGAACTTGACCAATAAGTCAAGATAAGAA
196 GAACGCTTGCACAACCGTGATTAACCAGAGGAGTTTTGAACTTGACCAATAAGTCAAGATAAGAA
71155624 GAGAAGAAAGGAAGGATGCAATCGATTAGGGAGATATTCAGACGAGCCAAGGGAAAAAGAAGAAA
261 GAGAAGAAAGGAAGGATGCAATCGATTAGGGAGATATTCAGACGAGCCAAGGGAAAAAGAAGAAA
71155689 TTCGGTTAAGGAAAAAGCTAAAAGTCGAAAGAGTCAATGAGTAGAGGGAGAAGTGTATTCAGAAA
326 TTCGGTTAAGGAAAAAGCTAAAAGTCGAAAGAGTCAATGAGTAGAGGGAGAAGTGTATTCAGAAA
71155754 CTAGAAGTTCTAAGGAAAACGACAATAAAGGGAGTACAGAGAAAAGAACAAAATCGATATAGCCC
391 CTAGAAGTTCTAAGGAAAACGACAATAAAGGGAGTACAGAGAAAAGAACAAAATCGATATAGCCC
*
71155819 TAACAAGAAAATGCCTGAAAGAAAGGAAAATTGAAAAAGAAATAGTGAAGAAAGCTGACATATTC
456 TAACAAGAAAATGCCTGAAAGAAAGGAAAATCG-AAAAGAAATAGTGAAGAAAGCTGACATATTC
71155884 GGCCAAATGAGTACAGATGCTAGGGGAAAAGAAACAAAAGAGGTTGGTAATCAAAAGATGTTTAA
520 GGCCAAATGAGTACAGATGCTAGGGGAAAAGAAACAAAAGAGGTTGGTAATCAAAAGATGTTTAA
71155949 GAGACCAAAATGCGAAGACCCAAAATGACCCAAAATGACCAAAAACAAACACCAAAAATGGAGAG
585 GAGACCAAAATGCGAAGACCCAAAATGACCCAAAATGACCAAAAACAAACACCAAAAATGGAGAG
71156014 GTTGAAATTCACTCAGAAAGAGCACAAAAGAAATGACTACAATCTCTACTTTTTTCTAAAAAAAC
650 GTTGAAATTCACTCAGAAAGAGCACAAAAGAAATGACTACAATCTCTACTTTTTTCTAAAAAAAC
*
71156079 CATGCCAAATGTGAGAGTCCACAATCGACACACACACTATCACTCTCCTG
715 CATGCCAAATGTGAGAGTCCACAATCGACACACACACTATCACTCTCCTA
71156129 AAAGATGAGGAAAAGTTCGTACACTTGGTTATCCCTTGCAACTCCCCCACTCTTCGAAAGACTAG
1 AAAGATGAGGAAAAGTTCGTACACTTGGTTATCCCTTGCAACTCCCCCACTCTTCGAAAGACTAG
*
71156194 GAACCCACGAACACCACACCAAACAAAAGAGATGAGATTCGGCAATAGTAATAAAAGAGACCGAG
66 GAACCCACGAACACCACACCAAACAAAAGAGATGAGATTCGGCAATAGTAACAAAAGAGACCGAG
71156259 AGAAAAGAAAGACTTAATCAAAGTTGAAAGAAAAAAAAGAGACCGAGCGTTTACCGATTTGCAGA
131 AGAAAAGAAAGACTTAATCAAAGTTGAAAGAAAAAAAAGAGACCGAGCGTTTACCGATTTGCAGA
71156324 GAACGCTTGCACAACCGTGATTAACCAGAGGAGTTTTGAACTTGACCAATAAGTCAAGATAAGAA
196 GAACGCTTGCACAACCGTGATTAACCAGAGGAGTTTTGAACTTGACCAATAAGTCAAGATAAGAA
71156389 GAGAAGAAAGGAAGGATGCAATCGATTAGGGAGATATTCAGACGAGCCAAGGGAAAAAGAAGAAA
261 GAGAAGAAAGGAAGGATGCAATCGATTAGGGAGATATTCAGACGAGCCAAGGGAAAAAGAAGAAA
71156454 TTCGGTTAAGGAAAAAGCTAAAAGTCGAAAGAGTCAATGAGTAGAGGGAGAAGTGTATTCAGAAA
326 TTCGGTTAAGGAAAAAGCTAAAAGTCGAAAGAGTCAATGAGTAGAGGGAGAAGTGTATTCAGAAA
71156519 CTAGAAGTTCTAAGGAAAACGACAATAAAGGGAGTACAGAG-AAAGAACAAAATCGATATAGCCC
391 CTAGAAGTTCTAAGGAAAACGACAATAAAGGGAGTACAGAGAAAAGAACAAAATCGATATAGCCC
71156583 TAACAAGAAAATGCCTGAAAGAAAGGAAAATCG-AAAGAAATAGTGAAGAAAGCTGACATATTCG
456 TAACAAGAAAATGCCTGAAAGAAAGGAAAATCGAAAAGAAATAGTGAAGAAAGCTGACATATTCG
71156647 GCCAAATGAGTACAGATGCTAGGGGAAAAGAAACAAAAGAGGTTGGTAATCAAAAGATGTTTAAG
521 GCCAAATGAGTACAGATGCTAGGGGAAAAGAAACAAAAGAGGTTGGTAATCAAAAGATGTTTAAG
71156712 AGACCAAAATGCGAAGACCCAAAATGACCCAAAATGACCAAAAACAAACACCAAAAATGGAGAGG
586 AGACCAAAATGCGAAGACCCAAAATGACCCAAAATGACCAAAAACAAACACCAAAAATGGAGAGG
*
71156777 TTGAAATTCACTCAGAAAGAGCACAAAGGAAATGACTACAATCTCTACTTTTTTCTAAAAAAAAC
651 TTGAAATTCACTCAGAAAGAGCACAAAAGAAATGACTACAATCTCTACTTTTTTCT-AAAAAAAC
* *
71156842 CAAAAATTCCAAATGTGAGAGTCCATAATCGACACACACACTATCACTCTCCTA
715 C----ATGCCAAATGTGAGAGTCCACAATCGACACACACACTATCACTCTCCTA
71156896 AAAGATGAGGAAAAGTTCGTACACTTGGTTATCCCTTGCAACTCCCCCACTCTTCGAAAGACTAG
1 AAAGATGAGGAAAAGTTCGTACACTTGGTTATCCCTTGCAACTCCCCCACTCTTCGAAAGACTAG
71156961 GAACCCACGAACACCACACCAAACAAAAGAGATGAGATTCGGCAATAGTAACAAAAGAGACCGAG
66 GAACCCACGAACACCACACCAAACAAAAGAGATGAGATTCGGCAATAGTAACAAAAGAGACCGAG
71157026 AGAAAAGAAAGACTTAATCAAAGTTGAAAGAAAAAAAAGAGACCGAGCGTTTACCGATTTGCAGA
131 AGAAAAGAAAGACTTAATCAAAGTTGAAAGAAAAAAAAGAGACCGAGCGTTTACCGATTTGCAGA
71157091 GAACGCTTGCACAACCGTGATTAACCAGAGGAGTTTTGAACTTGACCAATAAGTCAAGATAAGAA
196 GAACGCTTGCACAACCGTGATTAACCAGAGGAGTTTTGAACTTGACCAATAAGTCAAGATAAGAA
71157156 GAGAAGAAAGGAAGGATGCAATCGATTAGGGAGATATTCAGACGAGCCAAGGGAAAAAGAAGAAA
261 GAGAAGAAAGGAAGGATGCAATCGATTAGGGAGATATTCAGACGAGCCAAGGGAAAAAGAAGAAA
*
71157221 TTCGGTTAAGGCAAAAGCTAAAAGTCGAAAGAGTCAATGAGTAGAGGGAGAAGTGTATT
326 TTCGGTTAAGGAAAAAGCTAAAAGTCGAAAGAGTCAATGAGTAGAGGGAGAAGTGTATT
71157280 ACTCCCCCTA
Statistics
Matches: 1136, Mismatches: 10, Indels: 8
0.98 0.01 0.01
Matches are distributed among these distances:
762 216 0.19
763 9 0.01
764 55 0.05
765 428 0.38
767 428 0.38
ACGTcount: A:0.44, C:0.17, G:0.22, T:0.17
Consensus pattern (764 bp):
AAAGATGAGGAAAAGTTCGTACACTTGGTTATCCCTTGCAACTCCCCCACTCTTCGAAAGACTAG
GAACCCACGAACACCACACCAAACAAAAGAGATGAGATTCGGCAATAGTAACAAAAGAGACCGAG
AGAAAAGAAAGACTTAATCAAAGTTGAAAGAAAAAAAAGAGACCGAGCGTTTACCGATTTGCAGA
GAACGCTTGCACAACCGTGATTAACCAGAGGAGTTTTGAACTTGACCAATAAGTCAAGATAAGAA
GAGAAGAAAGGAAGGATGCAATCGATTAGGGAGATATTCAGACGAGCCAAGGGAAAAAGAAGAAA
TTCGGTTAAGGAAAAAGCTAAAAGTCGAAAGAGTCAATGAGTAGAGGGAGAAGTGTATTCAGAAA
CTAGAAGTTCTAAGGAAAACGACAATAAAGGGAGTACAGAGAAAAGAACAAAATCGATATAGCCC
TAACAAGAAAATGCCTGAAAGAAAGGAAAATCGAAAAGAAATAGTGAAGAAAGCTGACATATTCG
GCCAAATGAGTACAGATGCTAGGGGAAAAGAAACAAAAGAGGTTGGTAATCAAAAGATGTTTAAG
AGACCAAAATGCGAAGACCCAAAATGACCCAAAATGACCAAAAACAAACACCAAAAATGGAGAGG
TTGAAATTCACTCAGAAAGAGCACAAAAGAAATGACTACAATCTCTACTTTTTTCTAAAAAAACC
ATGCCAAATGTGAGAGTCCACAATCGACACACACACTATCACTCTCCTA
Found at i:71164118 original size:50 final size:50
Alignment explanation
Indices: 71164064--71164170 Score: 207
Period size: 50 Copynumber: 2.2 Consensus size: 50
71164054 GATTTTTCAC
71164064 ATTCACATCACTGCTGCTATCAGCATCTATTTTTAAGGTAGACTTTACCT
1 ATTCACATCACTGCTGCTATCAGCATCTATTTTTAAGGTAGACTTTACCT
71164114 ATTCACATCACTGCTGCTATCAGCATCTATTTTTAAGGTAGACTTTACCT
1 ATTCACATCACTGCTGCTATCAGCATCTATTTTTAAGGTAGACTTTACCT
71164164 ATT-ACAT
1 ATTCACAT
71164171 AGTTTCCATT
Statistics
Matches: 57, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
49 4 0.07
50 53 0.93
ACGTcount: A:0.27, C:0.23, G:0.11, T:0.38
Consensus pattern (50 bp):
ATTCACATCACTGCTGCTATCAGCATCTATTTTTAAGGTAGACTTTACCT
Found at i:71176559 original size:146 final size:146
Alignment explanation
Indices: 71176295--71176585 Score: 555
Period size: 146 Copynumber: 2.0 Consensus size: 146
71176285 ACGGGGTGCC
*
71176295 CATTTCTATTGTGTCGGATAGAGATCCGAGATTCACCTCGCGATTTTGGAAGAAATTGCAAGAAG
1 CATTTCTATTGTGTCGGATAGAGATCCGAGATTCACCTCGCGATTTTGGAAGAAATTGCAAGAAA
71176360 CTTTGGGTACCAAGTTGCATTTAAGCACCGCTTTTCATCCCCAAACCGATGGTCAATCCGAGCGG
66 CTTTGGGTACCAAGTTGCATTTAAGCACCGCTTTTCATCCCCAAACCGATGGTCAATCCGAGCGG
71176425 ATAATTCAGATACTCA
131 ATAATTCAGATACTCA
71176441 CATTTCTATTGTGTCGGATAGAGATCCGAGATTCACCTCGCGATTTTGGAAGAAATTGCAAGAAA
1 CATTTCTATTGTGTCGGATAGAGATCCGAGATTCACCTCGCGATTTTGGAAGAAATTGCAAGAAA
* *
71176506 CTTTGGGTACCAAGTTGCATTTTAGCACCGCTTTTCATCCCCAAACCGATGGTCAATCTGAGCGG
66 CTTTGGGTACCAAGTTGCATTTAAGCACCGCTTTTCATCCCCAAACCGATGGTCAATCCGAGCGG
71176571 ATAATTCAGATACTC
131 ATAATTCAGATACTC
71176586 GAGGATATGT
Statistics
Matches: 142, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
146 142 1.00
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (146 bp):
CATTTCTATTGTGTCGGATAGAGATCCGAGATTCACCTCGCGATTTTGGAAGAAATTGCAAGAAA
CTTTGGGTACCAAGTTGCATTTAAGCACCGCTTTTCATCCCCAAACCGATGGTCAATCCGAGCGG
ATAATTCAGATACTCA
Found at i:71178234 original size:40 final size:40
Alignment explanation
Indices: 71178179--71179080 Score: 1718
Period size: 40 Copynumber: 22.6 Consensus size: 40
71178169 ATTCGGATTG
*
71178179 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
*
71178219 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
71178259 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
71178299 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
71178339 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
71178379 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
71178419 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
71178459 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
71178499 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
71178539 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
71178579 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
71178619 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
71178659 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
71178699 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
71178739 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
71178779 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
71178819 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
71178859 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
71178899 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
71178939 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
71178979 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* *
71179019 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA-CT
* **
71179059 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
71179081 TACTTGGTTT
Statistics
Matches: 853, Mismatches: 8, Indels: 3
0.99 0.01 0.00
Matches are distributed among these distances:
39 16 0.02
40 837 0.98
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.22
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
Found at i:71180974 original size:19 final size:20
Alignment explanation
Indices: 71180937--71180974 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
71180927 GATCTCATGG
*
71180937 ATCTGGGCCGTACATAGGCC
1 ATCTGGGCCGGACATAGGCC
71180957 ATCTGGGCCGGA-ATAGGC
1 ATCTGGGCCGGACATAGGC
71180975 TAAATGGGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.21, C:0.26, G:0.34, T:0.18
Consensus pattern (20 bp):
ATCTGGGCCGGACATAGGCC
Found at i:71181115 original size:29 final size:28
Alignment explanation
Indices: 71181083--71181156 Score: 112
Period size: 28 Copynumber: 2.6 Consensus size: 28
71181073 TTCGGGTCAG
71181083 ATGGGCCATATGAATGTGATTTGGGCCTA
1 ATGGGCCATATGAATGTGA-TTGGGCCTA
*
71181112 ATGGGCCATATGAATGAGATTGGGCCTA
1 ATGGGCCATATGAATGTGATTGGGCCTA
* *
71181140 ATGGGCCAGATGCATGT
1 ATGGGCCATATGAATGT
71181157 ATGTAGACTT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 23 0.56
29 18 0.44
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.27
Consensus pattern (28 bp):
ATGGGCCATATGAATGTGATTGGGCCTA
Found at i:71181143 original size:28 final size:29
Alignment explanation
Indices: 71181083--71181147 Score: 114
Period size: 29 Copynumber: 2.3 Consensus size: 29
71181073 TTCGGGTCAG
*
71181083 ATGGGCCATATGAATGTGATTTGGGCCTA
1 ATGGGCCATATGAATGAGATTTGGGCCTA
71181112 ATGGGCCATATGAATGAGA-TTGGGCCTA
1 ATGGGCCATATGAATGAGATTTGGGCCTA
71181140 ATGGGCCA
1 ATGGGCCA
71181148 GATGCATGTA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
28 17 0.49
29 18 0.51
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.26
Consensus pattern (29 bp):
ATGGGCCATATGAATGAGATTTGGGCCTA
Found at i:71181471 original size:26 final size:27
Alignment explanation
Indices: 71181433--71181493 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
71181423 CAAGGTAAGT
*
71181433 AAAA-ACCCGTAATAAG-AAAATTACC
1 AAAATACCCCTAATAAGTAAAATTACC
** *
71181458 AAAATACCCCTAATTTGTGAAATTACC
1 AAAATACCCCTAATAAGTAAAATTACC
71181485 AAAATACCC
1 AAAATACCC
71181494 TCAACTTGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 4 0.13
26 9 0.30
27 17 0.57
ACGTcount: A:0.49, C:0.23, G:0.07, T:0.21
Consensus pattern (27 bp):
AAAATACCCCTAATAAGTAAAATTACC
Found at i:71181484 original size:27 final size:27
Alignment explanation
Indices: 71181450--71181578 Score: 104
Period size: 27 Copynumber: 4.8 Consensus size: 27
71181440 CGTAATAAGA
*
71181450 AAATTACCAAAATACCCCTAATTTGTG
1 AAATTACCAAAATACCCCTAACTTGTG
71181477 AAATTACCAAAATA-CCCTCAACTTGT-
1 AAATTACCAAAATACCCCT-AACTTGTG
* * * *
71181503 ACAATTATCGAAATA-CCCTCGACTTGTA
1 A-AATTACCAAAATACCCCT-AACTTGTG
* **
71181531 AAATTACCAAAATGCCCCTAA-GGGTG
1 AAATTACCAAAATACCCCTAACTTGTG
* *
71181557 AGAATGACTAAAATACCCCTAA
1 A-AATTACCAAAATACCCCTAA
71181579 GTGTTGAATG
Statistics
Matches: 83, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
26 8 0.10
27 70 0.84
28 5 0.06
ACGTcount: A:0.41, C:0.24, G:0.10, T:0.25
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAACTTGTG
Found at i:71188393 original size:55 final size:55
Alignment explanation
Indices: 71188260--71188402 Score: 164
Period size: 55 Copynumber: 2.6 Consensus size: 55
71188250 ATAAAGGTCT
* ** * *
71188260 ACGCCCGTGTTATTTTGGCAA-GTTCGGCCACGGTTGCTTGGCACGGGCGTGTTGC
1 ACGCCCATGTTATTTTGG-AAGGTTCGGCCACGGTTGCCAGGCACGGGCATGTCGC
* *
71188315 ACGCCCATGTTAATTT-GACAGGTTCGGCCACGGTTTCCAGGCACGGGCATGTCGC
1 ACGCCCATGTTATTTTGGA-AGGTTCGGCCACGGTTGCCAGGCACGGGCATGTCGC
* * *
71188370 ACGCCCATTTTGTTTTGGAAGGTTCGCCCACGG
1 ACGCCCATGTTATTTTGGAAGGTTCGGCCACGG
71188403 CCATGTCACA
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
53 1 0.01
54 2 0.03
55 69 0.93
56 2 0.03
ACGTcount: A:0.15, C:0.27, G:0.31, T:0.27
Consensus pattern (55 bp):
ACGCCCATGTTATTTTGGAAGGTTCGGCCACGGTTGCCAGGCACGGGCATGTCGC
Found at i:71196231 original size:31 final size:31
Alignment explanation
Indices: 71196196--71196256 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
71196186 TGGCCCCATT
71196196 CTTTCTAATCTTATCTACCAGAGGCTTAATA
1 CTTTCTAATCTTATCTACCAGAGGCTTAATA
71196227 CTTTCTAATCTTATCTACCAGAGGCTTAAT
1 CTTTCTAATCTTATCTACCAGAGGCTTAAT
71196257 TAACTGAATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.28, C:0.23, G:0.10, T:0.39
Consensus pattern (31 bp):
CTTTCTAATCTTATCTACCAGAGGCTTAATA
Found at i:71198153 original size:42 final size:42
Alignment explanation
Indices: 71198041--71198157 Score: 112
Period size: 42 Copynumber: 2.8 Consensus size: 42
71198031 TAGAAAACAT
* * * *
71198041 ATACAATGCCAATAT-CCAGACATGGTCTTACATGTAATCAA
1 ATACGATGCCAATATCCCAAACATGGTCTTACACGAAATCAA
* * * * *
71198082 ATATCGATGCCACTGTCTCAAACAGGGTCTTACACGAAA-CTAG
1 ATA-CGATGCCAATATCCCAAACATGGTCTTACACGAAATC-AA
*
71198125 ATACGATGCCAATATCCCAAATATGGTCTTACA
1 ATACGATGCCAATATCCCAAACATGGTCTTACA
71198158 TGTAAAACAG
Statistics
Matches: 59, Mismatches: 14, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
41 3 0.05
42 35 0.59
43 21 0.36
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.26
Consensus pattern (42 bp):
ATACGATGCCAATATCCCAAACATGGTCTTACACGAAATCAA
Found at i:71200081 original size:24 final size:24
Alignment explanation
Indices: 71200053--71200101 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
71200043 TAGTTCAATT
* *
71200053 TTCATAGATCAGCCCGTTCAGAGA
1 TTCATAGATCAACCCATTCAGAGA
*
71200077 TTCATAGATCAACCTATTCAGAGA
1 TTCATAGATCAACCCATTCAGAGA
71200101 T
1 T
71200102 GACAGTAACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (24 bp):
TTCATAGATCAACCCATTCAGAGA
Found at i:71202787 original size:43 final size:43
Alignment explanation
Indices: 71202726--71202811 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
71202716 TGTATTAAGC
* *
71202726 ATTGTAATTATTATGCTTTTAGTTCTTTGATATTGCATAAATT
1 ATTGTAATAATTATGCTTTTAGTGCTTTGATATTGCATAAATT
71202769 ATTGTAATAATTATGCTTTTAGTGCTTTGATATTGCATAAATT
1 ATTGTAATAATTATGCTTTTAGTGCTTTGATATTGCATAAATT
71202812 GTATATACGG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.29, C:0.07, G:0.13, T:0.51
Consensus pattern (43 bp):
ATTGTAATAATTATGCTTTTAGTGCTTTGATATTGCATAAATT
Found at i:71202942 original size:40 final size:40
Alignment explanation
Indices: 71202847--71202946 Score: 128
Period size: 40 Copynumber: 2.5 Consensus size: 40
71202837 CGATGACAAA
71202847 TCGGCTATTTGTGGCACTTAGTGTGCGATTCGACAAAGCT
1 TCGGCTATTTGTGGCACTTAGTGTGCGATTCGACAAAGCT
* * * ** *
71202887 TCAGATATTTGTGGCACTTAGTGTGCGATTTGTGATAGCT
1 TCGGCTATTTGTGGCACTTAGTGTGCGATTCGACAAAGCT
* *
71202927 TCGGCTATGTATGGCACTTA
1 TCGGCTATTTGTGGCACTTA
71202947 ACATGCGAGA
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.20, C:0.17, G:0.27, T:0.36
Consensus pattern (40 bp):
TCGGCTATTTGTGGCACTTAGTGTGCGATTCGACAAAGCT
Found at i:71204907 original size:14 final size:14
Alignment explanation
Indices: 71204874--71204908 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
71204864 ATATGGTTCA
*
71204874 ACAAAATAACAAAC
1 ACAAAACAACAAAC
71204888 -CAAAACAACAAAC
1 ACAAAACAACAAAC
71204901 ACAAAACA
1 ACAAAACA
71204909 CTTGAGGACC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.71, C:0.26, G:0.00, T:0.03
Consensus pattern (14 bp):
ACAAAACAACAAAC
Found at i:71209140 original size:26 final size:26
Alignment explanation
Indices: 71209105--71209169 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 26
71209095 TCAATCACAA
71209105 TTCTT-TTATTTCTA-TTCTGTACTTT
1 TTCTTATTATTTCTACTTCTG-ACTTT
* *
71209130 TTCTTATTATTTTTACTTTTGACTTT
1 TTCTTATTATTTCTACTTCTGACTTT
71209156 TTCTTAATT-TTTCT
1 TTCTT-ATTATTTCT
71209170 TTGTCGCACA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
25 5 0.15
26 22 0.65
27 7 0.21
ACGTcount: A:0.14, C:0.14, G:0.03, T:0.69
Consensus pattern (26 bp):
TTCTTATTATTTCTACTTCTGACTTT
Found at i:71221136 original size:40 final size:40
Alignment explanation
Indices: 71221081--71221157 Score: 136
Period size: 40 Copynumber: 1.9 Consensus size: 40
71221071 CTCCAGTGAA
*
71221081 GGTCATGGTGGTTTGAGGAGTTTATACTCCTCATTCCAAT
1 GGTCATGGTGGTTTGAGAAGTTTATACTCCTCATTCCAAT
*
71221121 GGTCATGGTGGTTTGAGAAGTTTATACTTCTCATTCC
1 GGTCATGGTGGTTTGAGAAGTTTATACTCCTCATTCC
71221158 TGCTATCAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.39
Consensus pattern (40 bp):
GGTCATGGTGGTTTGAGAAGTTTATACTCCTCATTCCAAT
Found at i:71228958 original size:29 final size:28
Alignment explanation
Indices: 71228916--71228970 Score: 92
Period size: 29 Copynumber: 1.9 Consensus size: 28
71228906 CAGTTATGCC
71228916 GATTTGGCCTTGGGCCATGCATATCAGCT
1 GATTTGGCCTTGGGCCATG-ATATCAGCT
*
71228945 GATTTGGCTTTGGGCCATGATATCAG
1 GATTTGGCCTTGGGCCATGATATCAG
71228971 TACTTTGAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 7 0.28
29 18 0.72
ACGTcount: A:0.18, C:0.20, G:0.29, T:0.33
Consensus pattern (28 bp):
GATTTGGCCTTGGGCCATGATATCAGCT
Found at i:71236256 original size:49 final size:48
Alignment explanation
Indices: 71236179--71236358 Score: 201
Period size: 49 Copynumber: 3.8 Consensus size: 48
71236169 GGGGTAAGGT
* *
71236179 GCTGTTGCCATGTCCCAGACATGGTCTTACATTGGCTATCATCTTCGA
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCTTCGA
* * * *
71236227 GGCTGATGCCATGTCCCAGACATAGTCTTACACTAGCTCTCA-CATGTCTA
1 -GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATC-T-TCGA
*
71236277 TGCTGATGCCATGTCCCAGACATGGTCTTACACTGAC-A-CATC-TCGTA
1 -GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCTTCG-A
*
71236324 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCT
71236359 TACGTCCCGA
Statistics
Matches: 112, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
44 12 0.11
45 14 0.12
46 8 0.07
47 1 0.01
48 3 0.03
49 38 0.34
50 36 0.32
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (48 bp):
GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCTTCGA
Found at i:71241012 original size:42 final size:42
Alignment explanation
Indices: 71240935--71241014 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 42
71240925 TGCAGAGGAC
* *
71240935 ACACGGCCAGAACACATGCCCATGTGGCAAGCCGTGTGTCAT
1 ACACGGCCAGAACACACGCCCATGTGGCAACCCGTGTGTCAT
* * *
71240977 ACACGGCCTAG-ACACACGCCCGTGTGTCTACCCGTGTG
1 ACACGGCC-AGAACACACGCCCATGTGGCAACCCGTGTG
71241015 GACAAAATAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
42 30 0.94
43 2 0.06
ACGTcount: A:0.23, C:0.34, G:0.26, T:0.17
Consensus pattern (42 bp):
ACACGGCCAGAACACACGCCCATGTGGCAACCCGTGTGTCAT
Found at i:71247895 original size:17 final size:17
Alignment explanation
Indices: 71247853--71247898 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
71247843 TATCATTTAC
71247853 CATTTATCGGGCATTAT
1 CATTTATCGGGCATTAT
* *
71247870 TATTAATCGGGCACTT-T
1 CATTTATCGGGCA-TTAT
71247887 CATTTATCGGGC
1 CATTTATCGGGC
71247899 TATAACGAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
17 22 0.92
18 2 0.08
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.39
Consensus pattern (17 bp):
CATTTATCGGGCATTAT
Found at i:71248797 original size:27 final size:27
Alignment explanation
Indices: 71248767--71248863 Score: 86
Period size: 27 Copynumber: 3.3 Consensus size: 27
71248757 TTAATGGTCT
71248767 AATTCCATATAAGGACCTTAAGTTTTG
1 AATTCCATATAAGGACCTTAAGTTTTG
** * * *
71248794 AATTCCATAGCTATTTGATCCTTCTAGCTACTAG
1 AATTCCATA--TA-AGGA-CCTT-AAG-T-TTTG
71248828 AATTCCATATAAGGACCTTAAGTTTTG
1 AATTCCATATAAGGACCTTAAGTTTTG
71248855 AATTCCATA
1 AATTCCATA
71248864 GCTATTTGAT
Statistics
Matches: 53, Mismatches: 10, Indels: 14
0.69 0.13 0.18
Matches are distributed among these distances:
27 20 0.38
28 1 0.02
29 4 0.08
30 6 0.11
31 6 0.11
32 4 0.08
33 1 0.02
34 11 0.21
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.37
Consensus pattern (27 bp):
AATTCCATATAAGGACCTTAAGTTTTG
Found at i:71248836 original size:34 final size:34
Alignment explanation
Indices: 71248793--71248891 Score: 104
Period size: 34 Copynumber: 3.1 Consensus size: 34
71248783 CTTAAGTTTT
71248793 GAATTCCATAGCTATTTGATCCTTCTAGCTACTA
1 GAATTCCATAGCTATTTGATCCTTCTAGCTACTA
** * * *
71248827 GAATTCCATA--TA-AGGA-CCTT-AAG-T-TTT
1 GAATTCCATAGCTATTTGATCCTTCTAGCTACTA
71248854 GAATTCCATAGCTATTTGATCCTTCTAGCTACTA
1 GAATTCCATAGCTATTTGATCCTTCTAGCTACTA
71248888 GAAT
1 GAAT
71248892 CTAACTTTTA
Statistics
Matches: 48, Mismatches: 10, Indels: 14
0.67 0.14 0.19
Matches are distributed among these distances:
27 11 0.23
28 1 0.02
29 4 0.08
30 6 0.12
31 6 0.12
32 4 0.08
33 1 0.02
34 15 0.31
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.37
Consensus pattern (34 bp):
GAATTCCATAGCTATTTGATCCTTCTAGCTACTA
Found at i:71248862 original size:61 final size:61
Alignment explanation
Indices: 71248767--71248891 Score: 250
Period size: 61 Copynumber: 2.0 Consensus size: 61
71248757 TTAATGGTCT
71248767 AATTCCATATAAGGACCTTAAGTTTTGAATTCCATAGCTATTTGATCCTTCTAGCTACTAG
1 AATTCCATATAAGGACCTTAAGTTTTGAATTCCATAGCTATTTGATCCTTCTAGCTACTAG
71248828 AATTCCATATAAGGACCTTAAGTTTTGAATTCCATAGCTATTTGATCCTTCTAGCTACTAG
1 AATTCCATATAAGGACCTTAAGTTTTGAATTCCATAGCTATTTGATCCTTCTAGCTACTAG
71248889 AAT
1 AAT
71248892 CTAACTTTTA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 64 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (61 bp):
AATTCCATATAAGGACCTTAAGTTTTGAATTCCATAGCTATTTGATCCTTCTAGCTACTAG
Found at i:71252737 original size:21 final size:21
Alignment explanation
Indices: 71252686--71252739 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
71252676 TTACAGGCTC
* *
71252686 GCACGCCCATGTGATCCGAGG
1 GCACGCCCGTGTGACCCGAGG
*
71252707 GACATGCCCGTGTGACCCTG-GG
1 G-CACGCCCGTGTGACCC-GAGG
71252729 GCACGCCCGTG
1 GCACGCCCGTG
71252740 CTGCAGGCCA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
21 10 0.37
22 16 0.59
23 1 0.04
ACGTcount: A:0.15, C:0.35, G:0.35, T:0.15
Consensus pattern (21 bp):
GCACGCCCGTGTGACCCGAGG
Found at i:71257503 original size:17 final size:17
Alignment explanation
Indices: 71257461--71257506 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
71257451 TATCATTTAC
71257461 CATTTATCGGGCATTAT
1 CATTTATCGGGCATTAT
* *
71257478 TATTGATCGGGCACTT-T
1 CATTTATCGGGCA-TTAT
71257495 CATTTATCGGGC
1 CATTTATCGGGC
71257507 TATAATGAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
17 22 0.92
18 2 0.08
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.39
Consensus pattern (17 bp):
CATTTATCGGGCATTAT
Found at i:71283906 original size:20 final size:20
Alignment explanation
Indices: 71283874--71283946 Score: 85
Period size: 20 Copynumber: 3.6 Consensus size: 20
71283864 TTGTACGGGA
*
71283874 TTGCACTTTGGTGCCTCTGT
1 TTGCACTTCGGTGCCTCTGT
*
71283894 TTGCATTTCGGTGCCTCTAG-
1 TTGCACTTCGGTGCCTCT-GT
* *
71283914 TTGCACTTCAGTGCCTCTAT
1 TTGCACTTCGGTGCCTCTGT
*
71283934 TTACACTTCGGTG
1 TTGCACTTCGGTG
71283947 TCTAATGCGT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
20 43 0.98
21 1 0.02
ACGTcount: A:0.11, C:0.26, G:0.22, T:0.41
Consensus pattern (20 bp):
TTGCACTTCGGTGCCTCTGT
Found at i:71284937 original size:20 final size:20
Alignment explanation
Indices: 71284899--71284946 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
71284889 TAAATTCTAA
* **
71284899 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
71284919 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
71284939 AAA-ATAAA
1 AAAGATAAA
71284947 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:71289982 original size:27 final size:26
Alignment explanation
Indices: 71289956--71290360 Score: 515
Period size: 27 Copynumber: 15.0 Consensus size: 26
71289946 GGAAAGTTAT
*
71289956 CGAAATACCCCTGTAGGTTAGAATTA
1 CGAAATACCCCTGTAGGGTAGAATTA
*
71289982 TCGAAATACCCTTGTAGGGTAGAATTA
1 -CGAAATACCCCTGTAGGGTAGAATTA
*
71290009 CCGAAATACCCTTGTAGGGTAGAATTA
1 -CGAAATACCCCTGTAGGGTAGAATTA
*
71290036 CCGAAATACCCTTGTAGGGTAGAATTA
1 -CGAAATACCCCTGTAGGGTAGAATTA
* *
71290063 CTGAAATACCCTTATAGGGTAGAATTA
1 C-GAAATACCCCTGTAGGGTAGAATTA
*
71290090 TCGAAATACCCTTGTAGGGTAGAATTA
1 -CGAAATACCCCTGTAGGGTAGAATTA
71290117 CCGAAATACCCCTGTAGGGTAGAATTA
1 -CGAAATACCCCTGTAGGGTAGAATTA
71290144 TCGAAATACCCCTGTAGGGTAGAATTA
1 -CGAAATACCCCTGTAGGGTAGAATTA
*
71290171 CTGAAATACTCCTGTAGGGTAGAATTA
1 C-GAAATACCCCTGTAGGGTAGAATTA
* * *
71290198 CTAAAATACCCTTGTATGGTAGAATTA
1 C-GAAATACCCCTGTAGGGTAGAATTA
*
71290225 CCGAAATACCCTTGTAGGGTAGAATTA
1 -CGAAATACCCCTGTAGGGTAGAATTA
71290252 CCGAAATACCCCTGTAGGGTAGAATTA
1 -CGAAATACCCCTGTAGGGTAGAATTA
*
71290279 CTGAAATACCCCTGTAGGATAGAATTA
1 C-GAAATACCCCTGTAGGGTAGAATTA
*
71290306 CTAAAATACCCCTGTAGGGTAGAATTA
1 C-GAAATACCCCTGTAGGGTAGAATTA
* * *
71290333 CCAAGATACCCTTGT-GGTGTAAAATTA
1 CGAA-ATACCCCTGTAGG-GTAGAATTA
71290360 C
1 C
71290361 CATTTTGCCC
Statistics
Matches: 349, Mismatches: 22, Indels: 14
0.91 0.06 0.04
Matches are distributed among these distances:
26 7 0.02
27 340 0.97
28 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.27
Consensus pattern (26 bp):
CGAAATACCCCTGTAGGGTAGAATTA
Found at i:71290041 original size:81 final size:80
Alignment explanation
Indices: 71289956--71290361 Score: 575
Period size: 81 Copynumber: 5.0 Consensus size: 80
71289946 GGAAAGTTAT
*
71289956 CGAAATACCCCTGTAGGTTAGAATTATCGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCT
1 CGAAATACCCCTGTAGGGTAGAATTA-CGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCT
71290021 TGTAGGGTAGAATTAC
65 TGTAGGGTAGAATTAC
* * *
71290037 CGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCTTATAGGGTAGAATTATCGAAATACCCT
1 CGAAATACCCCTGTAGGGTAGAATTAC-GAAATACCCTTGTAGGGTAGAATTACCGAAATACCCT
71290102 TGTAGGGTAGAATTAC
65 TGTAGGGTAGAATTAC
* *
71290118 CGAAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTGTAGGGTAGAATTACTGAAATACTCC
1 CGAAATACCCCTGTAGGGTAGAATTA-CGAAATACCCTTGTAGGGTAGAATTACCGAAATAC-CC
71290183 -TGTAGGGTAGAATTAC
64 TTGTAGGGTAGAATTAC
** * * *
71290199 TAAAATACCCTTGTATGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCC
1 CGAAATACCCCTGTAGGGTAGAATTA-CGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCT
71290264 TGTAGGGTAGAATTAC
65 TGTAGGGTAGAATTAC
* * * *
71290280 TGAAATACCCCTGTAGGATAGAATTACTAAAATACCCCTGTAGGGTAGAATTACC-AAGATACCC
1 CGAAATACCCCTGTAGGGTAGAATTAC-GAAATACCCTTGTAGGGTAGAATTACCGAA-ATACCC
*
71290344 TTGT-GGTGTAAAATTAC
64 TTGTAGG-GTAGAATTAC
71290361 C
1 C
71290362 ATTTTGCCCC
Statistics
Matches: 293, Mismatches: 25, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
80 8 0.03
81 282 0.96
82 3 0.01
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.27
Consensus pattern (80 bp):
CGAAATACCCCTGTAGGGTAGAATTACGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCTT
GTAGGGTAGAATTAC
Found at i:71290618 original size:28 final size:28
Alignment explanation
Indices: 71290586--71290675 Score: 123
Period size: 28 Copynumber: 3.3 Consensus size: 28
71290576 GGAGGAAGCG
71290586 TTCTGGTGGCTATTCCACAAATATCTGT
1 TTCTGGTGGCTATTCCACAAATATCTGT
* *
71290614 TTCTGGTGGTTATGCCACAAATATCTG-
1 TTCTGGTGGCTATTCCACAAATATCTGT
71290641 TTCTGGTGGCT-TTGCCAC-AATATCTGT
1 TTCTGGTGGCTATT-CCACAAATATCTGT
*
71290668 ATCTGGTG
1 TTCTGGTG
71290676 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
26 9 0.16
27 21 0.38
28 25 0.45
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (28 bp):
TTCTGGTGGCTATTCCACAAATATCTGT
Found at i:71290656 original size:27 final size:26
Alignment explanation
Indices: 71290585--71290695 Score: 127
Period size: 27 Copynumber: 4.1 Consensus size: 26
71290575 TGGAGGAAGC
71290585 GTTCTGGTGGCTATT-CCACAAATATCT
1 GTTCTGGTGGCT-TTGCCAC-AATATCT
71290612 GTTTCTGGTGG-TTATGCCACAAATATCT
1 G-TTCTGGTGGCTT-TGCCAC-AATATCT
71290640 GTTCTGGTGGCTTTGCCACAATATCT
1 GTTCTGGTGGCTTTGCCACAATATCT
* * *
71290666 GTATCTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTTTGCCACAATATCT
71290693 GTT
1 GTT
71290696 GGCTGATCGA
Statistics
Matches: 76, Mismatches: 3, Indels: 11
0.84 0.03 0.12
Matches are distributed among these distances:
26 11 0.14
27 41 0.54
28 24 0.32
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.39
Consensus pattern (26 bp):
GTTCTGGTGGCTTTGCCACAATATCT
Found at i:71290687 original size:54 final size:54
Alignment explanation
Indices: 71290585--71290695 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
71290575 TGGAGGAAGC
* **
71290585 GTTCTGGTGGCTATTCCACAAATATCTGTTTCTGGTGGTTATGCCACAAATATCT
1 GTTCTGGTGGCTATTCCACAAATATCTGTATCTGGTGACTATGCCAC-AATATCT
* *
71290640 GTTCTGGTGGCT-TTGCCAC-AATATCTGTATCTGGTGACTCTGTCACAATATCT
1 GTTCTGGTGGCTATT-CCACAAATATCTGTATCTGGTGACTATGCCACAATATCT
71290693 GTT
1 GTT
71290696 GGCTGATCGA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
53 10 0.20
54 24 0.48
55 16 0.32
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.39
Consensus pattern (54 bp):
GTTCTGGTGGCTATTCCACAAATATCTGTATCTGGTGACTATGCCACAATATCT
Found at i:71291028 original size:27 final size:27
Alignment explanation
Indices: 71290998--71291054 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
71290988 ATTCTGTTAA
* *
71290998 GTGGCTTTGCCACATTATCTG-ATTCTG
1 GTGGCTCTGCCACAATATCTGTA-TCTG
71291025 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTATCTG
71291052 GTG
1 GTG
71291055 ACTTCGTCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 26 0.96
28 1 0.04
ACGTcount: A:0.16, C:0.23, G:0.25, T:0.37
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTATCTG
Found at i:71291244 original size:31 final size:31
Alignment explanation
Indices: 71291199--71291261 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
71291189 ATTTTGATTT
*
71291199 TAATTCTATTACCTGACACTGATTCTAATTC
1 TAATTCTATCACCTGACACTGATTCTAATTC
* ** *
71291230 TAATTCTGTCACCTGATTCTGATTCTGATTC
1 TAATTCTATCACCTGACACTGATTCTAATTC
71291261 T
1 T
71291262 CATTTTGATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.24, C:0.22, G:0.10, T:0.44
Consensus pattern (31 bp):
TAATTCTATCACCTGACACTGATTCTAATTC
Found at i:71291251 original size:6 final size:6
Alignment explanation
Indices: 71291242--71291282 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
71291232 ATTCTGTCAC
* * *
71291242 CTGATT CTGATT CTGATT CTCATT TTGATT CTAATT CTGAT
1 CTGATT CTGATT CTGATT CTGATT CTGATT CTGATT CTGAT
71291283 AATGTTTCTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.20, C:0.17, G:0.12, T:0.51
Consensus pattern (6 bp):
CTGATT
Found at i:71291291 original size:18 final size:17
Alignment explanation
Indices: 71291270--71291303 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
71291260 CTCATTTTGA
71291270 TTCTAATTCTGATAATGT
1 TTCTAATTCTG-TAATGT
*
71291288 TTCTTATTCTGTAATG
1 TTCTAATTCTGTAATG
71291304 GGCTAAGGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.24, C:0.12, G:0.12, T:0.53
Consensus pattern (17 bp):
TTCTAATTCTGTAATGT
Found at i:71296842 original size:10 final size:11
Alignment explanation
Indices: 71296809--71296842 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
71296799 TGCTATTTCC
71296809 TTAAAGTTTGT
1 TTAAAGTTTGT
71296820 TTAAAGTTTGT
1 TTAAAGTTTGT
71296831 TTAAAG-TTGT
1 TTAAAGTTTGT
71296841 TT
1 TT
71296843 TTTCTTTACA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 6 0.26
11 17 0.74
ACGTcount: A:0.26, C:0.00, G:0.18, T:0.56
Consensus pattern (11 bp):
TTAAAGTTTGT
Found at i:71298686 original size:48 final size:48
Alignment explanation
Indices: 71298581--71298712 Score: 192
Period size: 48 Copynumber: 2.7 Consensus size: 48
71298571 CGAATTATAA
* *
71298581 CTTGATTTGGCTTCGGGCCATGGTATAGGTGTATTTCGGAGATGAGTTAC
1 CTTGATTTGGCTTCGGGCCATGGTATA-G-GTACTTCGGAGATAAGTTAC
* *
71298631 CTTGATTTGGCTACGGGCCATGGTATAGGTACTTCGGGGATAAGTTAC
1 CTTGATTTGGCTTCGGGCCATGGTATAGGTACTTCGGAGATAAGTTAC
* *
71298679 CTTGATTTGGCTTCAGGCCATGGTCTAGGTACTT
1 CTTGATTTGGCTTCGGGCCATGGTATAGGTACTT
71298713 ATCGATTGTG
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
48 48 0.64
49 1 0.01
50 26 0.35
ACGTcount: A:0.18, C:0.17, G:0.30, T:0.35
Consensus pattern (48 bp):
CTTGATTTGGCTTCGGGCCATGGTATAGGTACTTCGGAGATAAGTTAC
Found at i:71300526 original size:40 final size:40
Alignment explanation
Indices: 71300456--71300551 Score: 106
Period size: 40 Copynumber: 2.4 Consensus size: 40
71300446 CTATCGGTCT
* **
71300456 CGCACACTAAGTGCCATATATAATCGAAGTTATTTC-AATA
1 CGCACACTAAGTGCCATATATAATCAAAGTTATCCCGAA-A
* * *
71300496 CGCACACTAAGTGCTATTTAT-AGCTAAAGTTATCCCGAAA
1 CGCACACTAAGTGCCATATATAATC-AAAGTTATCCCGAAA
71300536 CGCACACTAAGTGCCA
1 CGCACACTAAGTGCCA
71300552 AACATAGTCG
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
39 2 0.04
40 43 0.91
41 2 0.04
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (40 bp):
CGCACACTAAGTGCCATATATAATCAAAGTTATCCCGAAA
Found at i:71304778 original size:30 final size:30
Alignment explanation
Indices: 71304744--71304809 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 30
71304734 TTCGGAGTAT
* **
71304744 TTTACTAAAAAAGGCCCATTTTTAATTTTA
1 TTTACTAAAAAAGGCCCACTTAAAATTTTA
* * *
71304774 TTTAC-GAAAATGGGCCACTTAAAATTTTA
1 TTTACTAAAAAAGGCCCACTTAAAATTTTA
71304803 TTTACTA
1 TTTACTA
71304810 GAATGGGCCA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
29 23 0.82
30 5 0.18
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (30 bp):
TTTACTAAAAAAGGCCCACTTAAAATTTTA
Found at i:71305026 original size:24 final size:24
Alignment explanation
Indices: 71304998--71305054 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
71304988 TTTATAAGTG
*
71304998 TTAGGGTTTTATTTGTTTTAGGGT
1 TTAGGGTTTTATTTATTTTAGGGT
71305022 TTAGGGTTTTATTTATTTTAGGGT
1 TTAGGGTTTTATTTATTTTAGGGT
71305046 TTAGGGTTT
1 TTAGGGTTT
71305055 AAGAGAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.14, C:0.00, G:0.28, T:0.58
Consensus pattern (24 bp):
TTAGGGTTTTATTTATTTTAGGGT
Found at i:71305094 original size:28 final size:28
Alignment explanation
Indices: 71305060--71305158 Score: 141
Period size: 28 Copynumber: 3.6 Consensus size: 28
71305050 GGTTTAAGAG
* * * *
71305060 AAAATAAATCAAGATTTAGGGATTTTAA
1 AAAATAAATTAGGGTTTAGGAATTTTAA
71305088 AAAATAAATTAGGGTTTAGGAATTTTAA
1 AAAATAAATTAGGGTTTAGGAATTTTAA
71305116 AAAATAAATTAGGGTTTAGGAATTTT-A
1 AAAATAAATTAGGGTTTAGGAATTTTAA
71305143 AAAA-AAATTA-GGTTTA
1 AAAATAAATTAGGGTTTA
71305159 AGGTTTTAGG
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
25 6 0.09
26 6 0.09
27 5 0.07
28 50 0.75
ACGTcount: A:0.48, C:0.01, G:0.16, T:0.34
Consensus pattern (28 bp):
AAAATAAATTAGGGTTTAGGAATTTTAA
Found at i:71305478 original size:128 final size:126
Alignment explanation
Indices: 71305237--71306042 Score: 827
Period size: 126 Copynumber: 6.4 Consensus size: 126
71305227 TTTGTACAAA
* * * * * * * * * *
71305237 CAGCAAAAGTATTGGAAAAAAGCTCCCAACTGGACTCTATTTTTGTCCA-AAGTTTGTGAAAAAA
1 CAGCAAAAGTACT-GAAAAAAGCTCCCAGCTAGACGCTCTTTTTCTACAGTAGTTTCTAAAAAAA
* ** * * * * * *
71305301 TAATTTTGAGAAGACGGTTATGAAAAAATAGGTTCAAAAGCGGTTCAAGCAAGATGTACTGT
65 TAATTTTGAAAAGATAGTTATGAAAAAATAGGGTAAAAAACGCTTCAAGCAGGATGCACTGT
* * ** *
71305363 CAGCAAAAGTACTGAAAAAAGTTCCCAGCTGGATACTCTTTTTCTACAGTAGTTTTTTAAAAAAA
1 CAGCAAAAGTACTGAAAAAAGCTCCCAGCTAGACGCTCTTTTTCTACAGTAG-TTTCT-AAAAAA
* * * * * *
71305428 ATAATTTTGAGAAGATGGTTCTAAAAAAATAGGGTAAAAAACGCTTCAAGCAGGATGCATTAT
64 ATAATTTTGAAAAGATAGTTATGAAAAAATAGGGTAAAAAACGCTTCAAGCAGGATGCACTGT
* * * * * *
71305491 TAGCAAAAGTATTGAAGAAAGCTCCTAGCTAGACGCTCTTTTTCTATAGTAGTTTCTAGAAAAAT
1 CAGCAAAAGTACTGAAAAAAGCTCCCAGCTAGACGCTCTTTTTCTACAGTAGTTTCTAAAAAAAT
* * * * * *
71305556 AATTTTGAAAATACAGTTTTGAAAAAATAAGGTAAAAAATGCTT-AGAGCAGGATGCACTAT
66 AATTTTGAAAAGATAGTTATGAAAAAATAGGGTAAAAAACGCTTCA-AGCAGGATGCACTGT
* * * * * * *
71305617 CAACAAAAGTATTGAAGAAAGCTCCTAGCTAGATGCTCTTTTTCTATAGTAGTTTCTAGAAAAAT
1 CAGCAAAAGTACTGAAAAAAGCTCCCAGCTAGACGCTCTTTTTCTACAGTAGTTTCTAAAAAAAT
* * * *
71305682 AATATTGAAAATATAGTTTTGAAAAAATAGGGTAAAAAACGCTTCAAGCAGGATGTACTGT
66 AATTTTGAAAAGATAGTTATGAAAAAATAGGGTAAAAAACGCTTCAAGCAGGATGCACTGT
* * *
71305743 CAGCAAAAGTACTAAAAAAAGCTCCCAGCTAGACGCTCTTTTTCTACAATAGTTTCT-GAAAAA-
1 CAGCAAAAGTACTGAAAAAAGCTCCCAGCTAGACGCTCTTTTTCTACAGTAGTTTCTAAAAAAAT
* * * *
71305806 AA-TTTAAAAAGATAGTTATGAAATAAT---GTAAAAAACGCTTCAAGCAAGATGCATTGT
66 AATTTTGAAAAGATAGTTATGAAAAAATAGGGTAAAAAACGCTTCAAGCAGGATGCACTGT
** * * * * *
71305863 CAGCAAAAGTGTTGAAAAAAGCTTCTAGCTAGACACTCTTTTTCGACAATAGTTTCTAAAAAAAA
1 CAGCAAAAGTACTGAAAAAAGCTCCCAGCTAGACGCTCTTTTTCTACAGTAGTTTCT-AAAAAAA
* * * * *
71305928 TAATTTTGAGGAAGATGGTTCTAAAAAAATAGAGTAAAAAAACGCTTCAAGCAGGATGCACTGT
65 TAATTTTGA-AAAGATAGTTATGAAAAAATAGGGT-AAAAAACGCTTCAAGCAGGATGCACTGT
* *
71305992 CAACAAAAGTACTGAAAAAAGCTCCCAGCTAGACTCTCTTTTTCTACAGTA
1 CAGCAAAAGTACTGAAAAAAGCTCCCAGCTAGACGCTCTTTTTCTACAGTA
71306043 CATCCTGCTT
Statistics
Matches: 575, Mismatches: 91, Indels: 25
0.83 0.13 0.04
Matches are distributed among these distances:
120 77 0.13
122 5 0.01
123 22 0.04
124 6 0.01
125 50 0.09
126 235 0.41
127 9 0.02
128 102 0.18
129 69 0.12
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (126 bp):
CAGCAAAAGTACTGAAAAAAGCTCCCAGCTAGACGCTCTTTTTCTACAGTAGTTTCTAAAAAAAT
AATTTTGAAAAGATAGTTATGAAAAAATAGGGTAAAAAACGCTTCAAGCAGGATGCACTGT
Found at i:71312181 original size:20 final size:20
Alignment explanation
Indices: 71312137--71312175 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
71312127 AGGGACTAAA
* *
71312137 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
71312157 ATGAAAAATTCTAAAATTT
1 ATGAAAAATTCTAAAATTT
71312176 TTTGAATACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.03, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:71321053 original size:29 final size:29
Alignment explanation
Indices: 71321019--71321079 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
71321009 ACGATGATTC
*
71321019 TCTTTCCTTTTTTCTTCTTCTCCTCCTCT
1 TCTTTCCCTTTTTCTTCTTCTCCTCCTCT
71321048 TCTTTCCCTTTTTCTTCTTCTCCTCCTCT
1 TCTTTCCCTTTTTCTTCTTCTCCTCCTCT
71321077 TCT
1 TCT
71321080 CTAAAGTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (29 bp):
TCTTTCCCTTTTTCTTCTTCTCCTCCTCT
Found at i:71321774 original size:16 final size:16
Alignment explanation
Indices: 71321753--71321783 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
71321743 CTACAATGGT
*
71321753 TGAAATGCCGAAAAGC
1 TGAAATGCCAAAAAGC
71321769 TGAAATGCCAAAAAG
1 TGAAATGCCAAAAAG
71321784 TAGGTTGTCG
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:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (16 bp):
TGAAATGCCAAAAAGC
Found at i:71322528 original size:33 final size:32
Alignment explanation
Indices: 71322481--71322544 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 32
71322471 CTGATTGTAT
*
71322481 ACTGTACTGATACTGTA-TTGGGCTCAGGCCCC
1 ACTGTACTGATACTG-AGATGGGCTCAGGCCCC
*
71322513 ACTGATACTGTTACTGAGATGGGCTCAGGCCC
1 ACTG-TACTGATACTGAGATGGGCTCAGGCCC
71322545 AGACTGCTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 5 0.18
33 23 0.82
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (32 bp):
ACTGTACTGATACTGAGATGGGCTCAGGCCCC
Found at i:71323475 original size:42 final size:42
Alignment explanation
Indices: 71323333--71323475 Score: 97
Period size: 42 Copynumber: 3.4 Consensus size: 42
71323323 AATAAGATGC
* * * * ** *
71323333 CAACGCCATGTCCTATACGTGGTCTTACATGGGATCTCACAT
1 CAACGCCATATCCCAGACGTGGTCTTACACGAAATCTCATAT
*** * ** * *
71323375 CGTTGCCATATCCCAAATATGGTCTTATACGAAATCTCATTT
1 CAACGCCATATCCCAGACGTGGTCTTACACGAAATCTCATAT
** * * * *
71323417 TGATGTCATGTTCCAGACGTGGTCTTACACGAAATCTCATAT
1 CAACGCCATATCCCAGACGTGGTCTTACACGAAATCTCATAT
71323459 CAACGCCATATCCCAGA
1 CAACGCCATATCCCAGA
71323476 TATAGTCTTA
Statistics
Matches: 71, Mismatches: 30, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (42 bp):
CAACGCCATATCCCAGACGTGGTCTTACACGAAATCTCATAT
Found at i:71323484 original size:42 final size:42
Alignment explanation
Indices: 71323379--71323487 Score: 110
Period size: 42 Copynumber: 2.6 Consensus size: 42
71323369 TCACATCGTT
* * * ** *
71323379 GCCATATCCCAAATATGGTCTTATACGAAATCTCATTTTGAT
1 GCCATATCCCAGATATGGTCTTACACGAAATCTCATATCAAC
* * * **
71323421 GTCATGTTCCAGACGTGGTCTTACACGAAATCTCATATCAAC
1 GCCATATCCCAGATATGGTCTTACACGAAATCTCATATCAAC
*
71323463 GCCATATCCCAGATATAGTCTTACA
1 GCCATATCCCAGATATGGTCTTACA
71323488 TGATAACAAA
Statistics
Matches: 50, Mismatches: 17, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (42 bp):
GCCATATCCCAGATATGGTCTTACACGAAATCTCATATCAAC
Found at i:71336154 original size:16 final size:16
Alignment explanation
Indices: 71336133--71336164 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
71336123 CTGCAAAAAG
71336133 AAAACTAGTTAATTAT
1 AAAACTAGTTAATTAT
*
71336149 AAAACTAGTTAGTTAT
1 AAAACTAGTTAATTAT
71336165 TATATGAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (16 bp):
AAAACTAGTTAATTAT
Found at i:71337978 original size:16 final size:16
Alignment explanation
Indices: 71337957--71337988 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
71337947 GATGTAACGC
*
71337957 CCCAAAAATCTCGAAA
1 CCCAAAAATCCCGAAA
71337973 CCCAAAAATCCCGAAA
1 CCCAAAAATCCCGAAA
71337989 TCCTGAACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.34, G:0.06, T:0.09
Consensus pattern (16 bp):
CCCAAAAATCCCGAAA
Found at i:71339473 original size:29 final size:29
Alignment explanation
Indices: 71339435--71339534 Score: 130
Period size: 29 Copynumber: 3.5 Consensus size: 29
71339425 AATGTGGCTA
71339435 GGCCTAATGGGCCATATAAATGTGATTTG
1 GGCCTAATGGGCCATATAAATGTGATTTG
* *
71339464 GGCCTAATGGGCCATATACAGGTGATTTG
1 GGCCTAATGGGCCATATAAATGTGATTTG
* ** *
71339493 GGCCTAATGGGTCATAGGAATATGA-TTG
1 GGCCTAATGGGCCATATAAATGTGATTTG
*
71339521 GGCTTAATGGGCCA
1 GGCCTAATGGGCCA
71339535 AATACAGGTA
Statistics
Matches: 61, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
28 15 0.25
29 46 0.75
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (29 bp):
GGCCTAATGGGCCATATAAATGTGATTTG
Found at i:71339534 original size:57 final size:58
Alignment explanation
Indices: 71339435--71339543 Score: 157
Period size: 57 Copynumber: 1.9 Consensus size: 58
71339425 AATGTGGCTA
* * *
71339435 GGCCTAATGGGCCATATAAATGTGATTTGGGCCTAATGGGCCATATACAGGTGATTTG
1 GGCCTAATGGGCCATAGAAATATGATTTGGGCCTAATGGGCCAAATACAGGTGATTTG
* * *
71339493 GGCCTAATGGGTCATAGGAATATGA-TTGGGCTTAATGGGCCAAATACAGGT
1 GGCCTAATGGGCCATAGAAATATGATTTGGGCCTAATGGGCCAAATACAGGT
71339544 ATGTGAAATT
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
57 24 0.53
58 21 0.47
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.28
Consensus pattern (58 bp):
GGCCTAATGGGCCATAGAAATATGATTTGGGCCTAATGGGCCAAATACAGGTGATTTG
Found at i:71340429 original size:15 final size:15
Alignment explanation
Indices: 71340397--71340435 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
71340387 GGCTTCCTTC
*
71340397 TTATTATTATTTGGA
1 TTATTATTATTTGCA
*
71340412 TTATTATTATTTTCA
1 TTATTATTATTTGCA
*
71340427 TTATAATTA
1 TTATTATTA
71340436 CGAGAAGTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.62
Consensus pattern (15 bp):
TTATTATTATTTGCA
Found at i:71343995 original size:21 final size:21
Alignment explanation
Indices: 71343963--71344013 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
71343953 CATAAAATTT
71343963 ATTA-GAAATTTACAAAAAAA
1 ATTATGAAATTTACAAAAAAA
* * *
71343983 ATTATGAAGTTTATAAAAATA
1 ATTATGAAATTTACAAAAAAA
71344004 ATTAT-AAATT
1 ATTATGAAATT
71344014 ATTGAACCAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 8 0.31
21 18 0.69
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (21 bp):
ATTATGAAATTTACAAAAAAA
Found at i:71344167 original size:35 final size:35
Alignment explanation
Indices: 71344128--71344202 Score: 89
Period size: 35 Copynumber: 2.1 Consensus size: 35
71344118 TTAAAAATGC
* *
71344128 AAAAATTATTAAAAATAATT-AGAAGTTTATAAAATA
1 AAAAATTATTAAAAA-AATTGA-AAATTTATAAAAAA
* *
71344164 AAAAATTATTGAAAACATTGAAAATTTATAAAAAA
1 AAAAATTATTAAAAAAATTGAAAATTTATAAAAAA
71344199 AAAA
1 AAAA
71344203 TTGTTATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
35 19 0.56
36 15 0.44
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.29
Consensus pattern (35 bp):
AAAAATTATTAAAAAAATTGAAAATTTATAAAAAA
Found at i:71344168 original size:36 final size:34
Alignment explanation
Indices: 71344128--71344204 Score: 93
Period size: 36 Copynumber: 2.2 Consensus size: 34
71344118 TTAAAAATGC
*
71344128 AAAAATTATTAAAAATAATT-AGAAGTTTATAAAATA
1 AAAAATTATTAAAAA-AATTGA-AAATTTATAAAA-A
* *
71344164 AAAAATTATTGAAAACATTGAAAATTTATAAAAA
1 AAAAATTATTAAAAAAATTGAAAATTTATAAAAA
71344198 AAAAATT
1 AAAAATT
71344205 GTTATTTTGG
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
34 8 0.22
35 14 0.38
36 15 0.41
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.31
Consensus pattern (34 bp):
AAAAATTATTAAAAAAATTGAAAATTTATAAAAA
Found at i:71344400 original size:9 final size:9
Alignment explanation
Indices: 71344388--71344413 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
71344378 AAAATATATT
71344388 AATATTTTG
1 AATATTTTG
71344397 AATATTTTG
1 AATATTTTG
71344406 AATATTTT
1 AATATTTT
71344414 ATAATTAAAT
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:0.35, C:0.00, G:0.08, T:0.58
Consensus pattern (9 bp):
AATATTTTG
Found at i:71347657 original size:17 final size:17
Alignment explanation
Indices: 71347627--71347661 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
71347617 TAAGGATTAA
71347627 ATTATAAAAGTTTAATT
1 ATTATAAAAGTTTAATT
* *
71347644 ATTATTAAATTTTAATT
1 ATTATAAAAGTTTAATT
71347661 A
1 A
71347662 AGAAAAAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (17 bp):
ATTATAAAAGTTTAATT
Found at i:71347826 original size:14 final size:13
Alignment explanation
Indices: 71347799--71347829 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
71347789 AAATTAATGT
71347799 TTAATTAAATTAA
1 TTAATTAAATTAA
71347812 TTAATTAAGATTAA
1 TTAATTAA-ATTAA
71347826 TTAA
1 TTAA
71347830 GTTATAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (13 bp):
TTAATTAAATTAA
Found at i:71357723 original size:64 final size:65
Alignment explanation
Indices: 71357624--71357744 Score: 181
Period size: 64 Copynumber: 1.9 Consensus size: 65
71357614 TTTAACAAAA
* * * **
71357624 TTTTTTCTCTTATTTTTTTTCTTGTCAAACACCATTTTT-TTCTTCAAAACACATGGCCTGCCAT
1 TTTTTTCTCTCATTTTCTCTCTTACCAAACACCATTTTTCTTCTTCAAAACACATGGCCTGCCAT
*
71357688 TTTTTTCTCTCATTTTCTCTCTTACCAAACACCATTTTTCTTCTTCAAAACATATGG
1 TTTTTTCTCTCATTTTCTCTCTTACCAAACACCATTTTTCTTCTTCAAAACACATGG
71357745 TTAGCTCATT
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
64 34 0.68
65 16 0.32
ACGTcount: A:0.21, C:0.25, G:0.05, T:0.49
Consensus pattern (65 bp):
TTTTTTCTCTCATTTTCTCTCTTACCAAACACCATTTTTCTTCTTCAAAACACATGGCCTGCCAT
Found at i:71367277 original size:294 final size:294
Alignment explanation
Indices: 71366739--71367306 Score: 845
Period size: 294 Copynumber: 1.9 Consensus size: 294
71366729 TTTATTTAAG
* * ** *
71366739 TCCTCTAACAACCTTTTGGACTTTTGTAGCCGTTAGAAACAAATTAGAGTCGTTGCAACCATAAA
1 TCCTCTAACAACCTTGTGAACTTTTGTAGCCACTAGAAACAAATTAGAGTCATTGCAACCATAAA
* *
71366804 AACTAGCATTAAATGCAGTCTACAGCTTCGTTGTAATGGTAGAAGGAGTCTTGTATTGGTAGAAG
66 AACTAGCATCAAATGCAGTCTACAGCTTCGTTGTAATGATAGAAGGAGTCTTGTATTGGTAGAAG
* *
71366869 TCTTTCCAAAATATGACCATTAGGCTTGTTCTATCAATAGAAGTTCTCATGTATCGCTAGAACTT
131 TCTTTCCAAAATATGACCATCAGGCTTGTTCTATCAATAGAAGTTCTCATGTATCGCTAGAACTC
* * *
71366934 TGAGGGTTTCATTTGGTATCAATAGAACCCATTAGAGTATCGATAGAAGTGCAGGAGAGGCTGAA
196 TAAGGGTTTCATTTGGTATCAATAGAACACATCAGAGTATCGATAGAAGTGCAGGAGAGGCTGAA
71366999 CTTTGGCTACTATTTTGACTTGTTTTGGTAGAAA
261 CTTTGGCTACTATTTTGACTTGTTTTGGTAGAAA
* *
71367033 TCCTCTAACAACCTTGTGAACTTTTGTAGCCACTAGAAACAAATTAGAGTTATTGCAGCCATAAA
1 TCCTCTAACAACCTTGTGAACTTTTGTAGCCACTAGAAACAAATTAGAGTCATTGCAACCATAAA
* *
71367098 AATTAGCATCAAATGCAGTCTGCAGCTTCGTTGT-ATCGATAGAA-GAGGTCTTGTATTGGTAGA
66 AACTAGCATCAAATGCAGTCTACAGCTTCGTTGTAAT-GATAGAAGGA-GTCTTGTATTGGTAGA
* * ** * * *
71367161 AGTCTTTCTAAAATATGACCGTCAGGCTTGTTCTATCTGTAGAAGTTCTCTTGTATTGGTAGAAC
129 AGTCTTTCCAAAATATGACCATCAGGCTTGTTCTATCAATAGAAGTTCTCATGTATCGCTAGAAC
* * * *
71367226 TCTAAGGGTTTCATTTGGTAT-AAGTAGAACATATCAGAGTATTGGTAGAAGTGCAGGGGAGGCT
194 TCTAAGGGTTTCATTTGGTATCAA-TAGAACACATCAGAGTATCGATAGAAGTGCAGGAGAGGCT
71367290 GAACTTTGGCTACTATT
258 GAACTTTGGCTACTATT
71367307 GTAATAGCCT
Statistics
Matches: 244, Mismatches: 27, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
293 6 0.02
294 238 0.98
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.33
Consensus pattern (294 bp):
TCCTCTAACAACCTTGTGAACTTTTGTAGCCACTAGAAACAAATTAGAGTCATTGCAACCATAAA
AACTAGCATCAAATGCAGTCTACAGCTTCGTTGTAATGATAGAAGGAGTCTTGTATTGGTAGAAG
TCTTTCCAAAATATGACCATCAGGCTTGTTCTATCAATAGAAGTTCTCATGTATCGCTAGAACTC
TAAGGGTTTCATTTGGTATCAATAGAACACATCAGAGTATCGATAGAAGTGCAGGAGAGGCTGAA
CTTTGGCTACTATTTTGACTTGTTTTGGTAGAAA
Found at i:71373671 original size:42 final size:42
Alignment explanation
Indices: 71373622--71373775 Score: 191
Period size: 42 Copynumber: 3.6 Consensus size: 42
71373612 TGAGATTATG
* * *
71373622 TGTAAGACCATATCTGAGATATGGCATCTATATGAGATTTCG
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTCA
* * * *
71373664 TATAAGACCATATTTGGGATATGGCATCGGTATGAGATTTCT
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTCA
* * * * *
71373706 TGTAAGACCATAGCTGGGCTATTAGCATCGATACGAGATTACA
1 TGTAAGACCATATCTGGGATA-TGGCATCGATATGAGATTTCA
71373749 TGTAAGACCATATCTGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
71373776 TGGTACAGTA
Statistics
Matches: 93, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
42 58 0.62
43 35 0.38
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTCA
Found at i:71373758 original size:85 final size:84
Alignment explanation
Indices: 71373622--71373780 Score: 210
Period size: 85 Copynumber: 1.9 Consensus size: 84
71373612 TGAGATTATG
* * * * * * *
71373622 TGTAAGACCATATCTGAGATATGGCATCTATATGAGATTTCGTATAAGACCATATTTGGGATATG
1 TGTAAGACCATAGCTGAGATATAGCATCGATACGAGATTACATATAAGACCATATCTGGGATATG
71373687 GCATCGGTATGAGATTTCT
66 GCATCGGTATGAGATTTCT
* * *
71373706 TGTAAGACCATAGCTGGGCTATTAGCATCGATACGAGATTACATGTAAGACCATATCTGGGATAT
1 TGTAAGACCATAGCTGAGATA-TAGCATCGATACGAGATTACATATAAGACCATATCTGGGATAT
*
71373771 GGCATTGGTA
65 GGCATCGGTA
71373781 CAGTACCGTG
Statistics
Matches: 63, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
84 18 0.29
85 45 0.71
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (84 bp):
TGTAAGACCATAGCTGAGATATAGCATCGATACGAGATTACATATAAGACCATATCTGGGATATG
GCATCGGTATGAGATTTCT
Found at i:71387960 original size:40 final size:40
Alignment explanation
Indices: 71387855--71388071 Score: 316
Period size: 40 Copynumber: 5.5 Consensus size: 40
71387845 CGGATGATAA
* *
71387855 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
71387895 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
71387934 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
71387974 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
71388014 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
71388054 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
71388072 TACTTGGTTT
Statistics
Matches: 166, Mismatches: 8, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
39 51 0.31
40 115 0.69
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:71388069 original size:119 final size:119
Alignment explanation
Indices: 71387851--71388071 Score: 331
Period size: 119 Copynumber: 1.9 Consensus size: 119
71387841 TATTCGGATG
* *
71387851 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCAT
* * *
71387916 TTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
66 TTGAGCAAGTTACTATATCCGGGCTAAATCCCGAAGGCATTTGTGCGAGTTACT
*
71387970 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAG-CCCGAAGGC
*
71388034 ATTTGAGCAAG-TAGCTATATCC-GGCTAAATTCCGAAGG
64 ATTTGAGCAAGTTA-CTATATCCGGGCTAAATCCCGAAGG
71388072 TACTTGGTTT
Statistics
Matches: 92, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
118 2 0.02
119 64 0.70
120 26 0.28
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (119 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCAT
TTGAGCAAGTTACTATATCCGGGCTAAATCCCGAAGGCATTTGTGCGAGTTACT
Found at i:71405928 original size:18 final size:18
Alignment explanation
Indices: 71405905--71405942 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
71405895 TATTTAGTAA
71405905 AATATTGAGAAGAATTGG
1 AATATTGAGAAGAATTGG
71405923 AATATTGAGAAGAATTGG
1 AATATTGAGAAGAATTGG
71405941 AA
1 AA
71405943 CCTTGAGTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.47, C:0.00, G:0.26, T:0.26
Consensus pattern (18 bp):
AATATTGAGAAGAATTGG
Found at i:71405948 original size:18 final size:18
Alignment explanation
Indices: 71405908--71405949 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
71405898 TTAGTAAAAT
*
71405908 ATTGAGAAGAATTGGAAT
1 ATTGAGAAGAATTGGAAC
71405926 ATTGAGAAGAATTGGAAC
1 ATTGAGAAGAATTGGAAC
*
71405944 CTTGAG
1 ATTGAG
71405950 TTCTTAGATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.40, C:0.05, G:0.29, T:0.26
Consensus pattern (18 bp):
ATTGAGAAGAATTGGAAC
Found at i:71408339 original size:44 final size:44
Alignment explanation
Indices: 71408272--71408386 Score: 151
Period size: 44 Copynumber: 2.6 Consensus size: 44
71408262 ATATACAAGC
* * **
71408272 TAGTGTAAGACCTG-CGTGAGACATGGCGTTAGCTTGTGGTGTGT
1 TAGTGTAAGACCTGTC-TGGGACATGGCGTCAGCTTGTGACGTGT
* *
71408316 TAGTATAAGACCTGTCTGGGACATTGCGTCAGCTTGTGACGTGT
1 TAGTGTAAGACCTGTCTGGGACATGGCGTCAGCTTGTGACGTGT
*
71408360 CAGTGTAAGACCTGTCTGGGACATGGC
1 TAGTGTAAGACCTGTCTGGGACATGGC
71408387 ATCGACACCG
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
44 60 0.98
45 1 0.02
ACGTcount: A:0.20, C:0.17, G:0.33, T:0.30
Consensus pattern (44 bp):
TAGTGTAAGACCTGTCTGGGACATGGCGTCAGCTTGTGACGTGT
Found at i:71408482 original size:49 final size:49
Alignment explanation
Indices: 71408360--71408487 Score: 161
Period size: 49 Copynumber: 2.6 Consensus size: 49
71408350 TGTGACGTGT
71408360 CAGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAGAGC
* * * * *
71408409 AAGTCTAAGACCTGTCTGGGACATGGCATCGAC-CTCGCTATATG-TAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CGATAGATGAGAGC
* *
71408457 CAGTGTAAGACCATGTTTGGAACATGGCATC
1 CAGTGTAAGACC-TGTCTGGGACATGGCATC
71408488 TGCATCTTAA
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
48 14 0.21
49 54 0.79
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAGAGC
Found at i:71408508 original size:32 final size:32
Alignment explanation
Indices: 71408467--71408537 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
71408457 CAGTGTAAGA
71408467 CCATGTTTGGAACATGGCATCTGCATCTTAAC
1 CCATGTTTGGAACATGGCATCTGCATCTTAAC
*
71408499 CCATGTTTGGAACATGGCATCTGTATCTTAAC
1 CCATGTTTGGAACATGGCATCTGCATCTTAAC
71408531 CCATGTT
1 CCATGTT
71408538 AGGGCTATTG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (32 bp):
CCATGTTTGGAACATGGCATCTGCATCTTAAC
Found at i:71408999 original size:21 final size:20
Alignment explanation
Indices: 71408973--71409012 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
71408963 GTTATAATGA
*
71408973 CCACACGGGTGTGTTGCCCTT
1 CCACACGGGCGTG-TGCCCTT
71408994 CCACACGGGCGTGTGCCCT
1 CCACACGGGCGTGTGCCCT
71409013 GTTTCAAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.10, C:0.38, G:0.30, T:0.23
Consensus pattern (20 bp):
CCACACGGGCGTGTGCCCTT
Found at i:71415263 original size:46 final size:45
Alignment explanation
Indices: 71415139--71415264 Score: 164
Period size: 46 Copynumber: 2.8 Consensus size: 45
71415129 TGATATGTGT
** *
71415139 GCTAGTGTAAGACATGTCTGGGACATGCATCAACCATAGCATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATC-GGCATAGCACGAGA
* *
71415185 GTTAGTGTAAGACATGTCTAGGACATGCATCGGCATTAAG-ACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCA-T-AGCACGAGA
*
71415231 GCTAGTGTAAGACATGTCTGGGACATGTATCGGC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGC
71415265 CTCGCGATAT
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
45 2 0.03
46 66 0.94
47 2 0.03
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATAGCACGAGA
Found at i:71415381 original size:49 final size:49
Alignment explanation
Indices: 71415325--71415450 Score: 173
Period size: 49 Copynumber: 2.6 Consensus size: 49
71415315 TGTGGTGTGT
* *
71415325 CAGTGTAAGACCTGTCTGGGGCATGGCATCGACAC-CAATAGATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCAATAGATGAAAGC
** *
71415374 CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGCTATATGAAAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAGATGAAAGC
*
71415423 CAGCGTAAGACCATGTCTGGGACATGGC
1 CAGTGTAAGACC-TGTCTGGGACATGGC
71415451 GTCGGCATCT
Statistics
Matches: 69, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
48 1 0.01
49 53 0.77
50 15 0.22
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAGATGAAAGC
Found at i:71416657 original size:21 final size:21
Alignment explanation
Indices: 71416631--71416673 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
71416621 GTTATAATGA
71416631 CCACACGGGCGTGTTGCCCTT
1 CCACACGGGCGTGTTGCCCTT
71416652 CCACACGGGCGTGTTGCCCTT
1 CCACACGGGCGTGTTGCCCTT
71416673 C
1 C
71416674 TATATAGGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.09, C:0.40, G:0.28, T:0.23
Consensus pattern (21 bp):
CCACACGGGCGTGTTGCCCTT
Found at i:71419813 original size:444 final size:444
Alignment explanation
Indices: 71418984--71419871 Score: 1776
Period size: 444 Copynumber: 2.0 Consensus size: 444
71418974 GTGCAGAGGG
71418984 AGTAAAAAGCTATCGTCATTGGTGTGCTCAGGCAATGTGAACCCTCAGGAATAGAGAAATCATAC
1 AGTAAAAAGCTATCGTCATTGGTGTGCTCAGGCAATGTGAACCCTCAGGAATAGAGAAATCATAC
71419049 ACAAAATTCAGAATTCTAATTCCACAAGTGGTTAGGGCATAATATATTTCTTCCTCTTTTGTGGT
66 ACAAAATTCAGAATTCTAATTCCACAAGTGGTTAGGGCATAATATATTTCTTCCTCTTTTGTGGT
71419114 ACAGACATAGCTTTTGCCTTCCACCACATTTCGTTTCTCCTGTTGTCGCGAGGAGTTATCTAAAT
131 ACAGACATAGCTTTTGCCTTCCACCACATTTCGTTTCTCCTGTTGTCGCGAGGAGTTATCTAAAT
71419179 TACCCGACCACTACCCCTGGTTCTAGCCATACTCTATCAATAAAAAATAAAAAGAAAAATTAAGA
196 TACCCGACCACTACCCCTGGTTCTAGCCATACTCTATCAATAAAAAATAAAAAGAAAAATTAAGA
71419244 TTATCAGAAAGATTACCTCTGCTTATCGTCTGAAATTCTTCTTCGAAAATTTTGAATTCAAGCGG
261 TTATCAGAAAGATTACCTCTGCTTATCGTCTGAAATTCTTCTTCGAAAATTTTGAATTCAAGCGG
71419309 TGTGATTGCTAGGGCATTGGTACCCCCTTCTTAAAAAAGGCTTTCTTCACTTTAGACTATTTGAA
326 TGTGATTGCTAGGGCATTGGTACCCCCTTCTTAAAAAAGGCTTTCTTCACTTTAGACTATTTGAA
71419374 TGCCCAACGATGAAGAACTATACGCATGTGGACAACAGTATTTTCTCTTATACA
391 TGCCCAACGATGAAGAACTATACGCATGTGGACAACAGTATTTTCTCTTATACA
71419428 AGTAAAAAGCTATCGTCATTGGTGTGCTCAGGCAATGTGAACCCTCAGGAATAGAGAAATCATAC
1 AGTAAAAAGCTATCGTCATTGGTGTGCTCAGGCAATGTGAACCCTCAGGAATAGAGAAATCATAC
71419493 ACAAAATTCAGAATTCTAATTCCACAAGTGGTTAGGGCATAATATATTTCTTCCTCTTTTGTGGT
66 ACAAAATTCAGAATTCTAATTCCACAAGTGGTTAGGGCATAATATATTTCTTCCTCTTTTGTGGT
71419558 ACAGACATAGCTTTTGCCTTCCACCACATTTCGTTTCTCCTGTTGTCGCGAGGAGTTATCTAAAT
131 ACAGACATAGCTTTTGCCTTCCACCACATTTCGTTTCTCCTGTTGTCGCGAGGAGTTATCTAAAT
71419623 TACCCGACCACTACCCCTGGTTCTAGCCATACTCTATCAATAAAAAATAAAAAGAAAAATTAAGA
196 TACCCGACCACTACCCCTGGTTCTAGCCATACTCTATCAATAAAAAATAAAAAGAAAAATTAAGA
71419688 TTATCAGAAAGATTACCTCTGCTTATCGTCTGAAATTCTTCTTCGAAAATTTTGAATTCAAGCGG
261 TTATCAGAAAGATTACCTCTGCTTATCGTCTGAAATTCTTCTTCGAAAATTTTGAATTCAAGCGG
71419753 TGTGATTGCTAGGGCATTGGTACCCCCTTCTTAAAAAAGGCTTTCTTCACTTTAGACTATTTGAA
326 TGTGATTGCTAGGGCATTGGTACCCCCTTCTTAAAAAAGGCTTTCTTCACTTTAGACTATTTGAA
71419818 TGCCCAACGATGAAGAACTATACGCATGTGGACAACAGTATTTTCTCTTATACA
391 TGCCCAACGATGAAGAACTATACGCATGTGGACAACAGTATTTTCTCTTATACA
71419872 TGTGATTAAA
Statistics
Matches: 444, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
444 444 1.00
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (444 bp):
AGTAAAAAGCTATCGTCATTGGTGTGCTCAGGCAATGTGAACCCTCAGGAATAGAGAAATCATAC
ACAAAATTCAGAATTCTAATTCCACAAGTGGTTAGGGCATAATATATTTCTTCCTCTTTTGTGGT
ACAGACATAGCTTTTGCCTTCCACCACATTTCGTTTCTCCTGTTGTCGCGAGGAGTTATCTAAAT
TACCCGACCACTACCCCTGGTTCTAGCCATACTCTATCAATAAAAAATAAAAAGAAAAATTAAGA
TTATCAGAAAGATTACCTCTGCTTATCGTCTGAAATTCTTCTTCGAAAATTTTGAATTCAAGCGG
TGTGATTGCTAGGGCATTGGTACCCCCTTCTTAAAAAAGGCTTTCTTCACTTTAGACTATTTGAA
TGCCCAACGATGAAGAACTATACGCATGTGGACAACAGTATTTTCTCTTATACA
Found at i:71422894 original size:24 final size:24
Alignment explanation
Indices: 71422843--71422904 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 24
71422833 AAATTTTATG
* *
71422843 AAAAATAAAAACT-CTTTAAAATTC
1 AAAAATAAAAA-TACTTTAAAAATA
*
71422867 AAAAATAAAAATATTTTAAAAATA
1 AAAAATAAAAATACTTTAAAAATA
*
71422891 AAAAAGAATAAATA
1 AAAAATAA-AAATA
71422905 AAAAATTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 1 0.03
24 26 0.81
25 5 0.16
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.26
Consensus pattern (24 bp):
AAAAATAAAAATACTTTAAAAATA
Found at i:71423152 original size:10 final size:9
Alignment explanation
Indices: 71423127--71423151 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
71423117 CAAGTCAATC
71423127 AATTTTTAA
1 AATTTTTAA
71423136 AATTTTTAA
1 AATTTTTAA
71423145 AATTTTT
1 AATTTTT
71423152 TGCCCCTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
AATTTTTAA
Found at i:71423305 original size:19 final size:19
Alignment explanation
Indices: 71423282--71423324 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 19
71423272 AAAATATGAA
71423282 AAAAAAACTCTTTAAAAT-TC
1 AAAAAAA-T-TTTAAAATATC
71423302 AAAAAAATTTTAAAATATC
1 AAAAAAATTTTAAAATATC
71423321 AAAA
1 AAAA
71423325 TATGAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.36
19 7 0.32
20 7 0.32
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.28
Consensus pattern (19 bp):
AAAAAAATTTTAAAATATC
Found at i:71423550 original size:30 final size:30
Alignment explanation
Indices: 71423512--71423589 Score: 104
Period size: 30 Copynumber: 2.6 Consensus size: 30
71423502 AAAAATATTT
*
71423512 TTTATTTTTTAT-TTTTTTATTTTAATGAG
1 TTTATTTTTTATAATTTTTATTTTAATGAG
* *
71423541 TTTATTTTTTATAATTTTTATTTTAATAAA
1 TTTATTTTTTATAATTTTTATTTTAATGAG
*
71423571 TTATAATTTTTATAATTTT
1 TT-TATTTTTTATAATTTT
71423590 ATGTTTTTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
29 12 0.28
30 16 0.37
31 15 0.35
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (30 bp):
TTTATTTTTTATAATTTTTATTTTAATGAG
Found at i:71423560 original size:16 final size:16
Alignment explanation
Indices: 71423510--71423601 Score: 66
Period size: 15 Copynumber: 5.9 Consensus size: 16
71423500 AAAAAAATAT
*
71423510 TTTTTATTTTTTAT-T
1 TTTTTATTTTTTATAA
* *
71423525 TTTTTA-TTTTAATGA
1 TTTTTATTTTTTATAA
*
71423540 -GTTTATTTTTTATAA
1 TTTTTATTTTTTATAA
*
71423555 TTTTTA-TTTTAATAA
1 TTTTTATTTTTTATAA
* * *
71423570 ATTATAATTTTTATAA
1 TTTTTATTTTTTATAA
*
71423586 TTTTATGTTTTTTATA
1 TTTT-TATTTTTTATA
71423602 TAAAAAAATT
Statistics
Matches: 58, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
14 10 0.17
15 25 0.43
16 14 0.24
17 9 0.16
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (16 bp):
TTTTTATTTTTTATAA
Found at i:71424092 original size:28 final size:28
Alignment explanation
Indices: 71424030--71424092 Score: 67
Period size: 27 Copynumber: 2.2 Consensus size: 28
71424020 TATGTATATT
71424030 AAATAATAAAATATAAATTAAAATTATA
1 AAATAATAAAATATAAATTAAAATTATA
* * *
71424058 TATTAAT-AAATAGT-ATTTAAAATTACTA
1 AAATAATAAAATA-TAAATTAAAATTA-TA
71424086 AAATAAT
1 AAATAAT
71424093 TGTATTACAT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
27 15 0.54
28 13 0.46
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (28 bp):
AAATAATAAAATATAAATTAAAATTATA
Done.