Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 24 of 425
Found at i:6127573 original size:51 final size:51
Alignment explanation
Indices: 6127497--6127792 Score: 265
Period size: 51 Copynumber: 5.8 Consensus size: 51
6127487 CTTGTAACCG
* * * *
6127497 AAGCTCTCTGGTACCCATAGTAGCTTGCACTTAGTACTACACACGTGATCA
1 AAGCTATCTGGTACACATAGTAGCTTGCACTTAGTACTACACACGTGACCT
* * * * *
6127548 AAGCTATCGGGTACGCATAGTAGCTTGCACTTAGTACTAAACATGCGACCT
1 AAGCTATCTGGTACACATAGTAGCTTGCACTTAGTACTACACACGTGACCT
* * ** * *
6127599 AA-CCATCTGATACATGTAGTAGCTTGCACTTAGTACTACACACGTGATCG
1 AAGCTATCTGGTACACATAGTAGCTTGCACTTAGTACTACACACGTGACCT
** * * *
6127649 AAGCTATCAAGTACGCATAGTAGCCTGCACTTAGTACTACGCA-GTGACCT
1 AAGCTATCTGGTACACATAGTAGCTTGCACTTAGTACTACACACGTGACCT
* * * * *
6127699 AA-CAATCTGGTACACGTAGTAGCCTACACTTAGTACTACACACGCGACCT
1 AAGCTATCTGGTACACATAGTAGCTTGCACTTAGTACTACACACGTGACCT
* * * *** * *
6127749 AAAACCATTTTAAACACATAGTAGCCTGCACATAGTACTACACA
1 -AAGCTATCTGGTACACATAGTAGCTTGCACTTAGTACTACACA
6127793 TGTGTTCTCA
Statistics
Matches: 195, Mismatches: 46, Indels: 7
0.79 0.19 0.03
Matches are distributed among these distances:
49 33 0.17
50 52 0.27
51 78 0.40
52 32 0.16
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (51 bp):
AAGCTATCTGGTACACATAGTAGCTTGCACTTAGTACTACACACGTGACCT
Found at i:6127639 original size:101 final size:100
Alignment explanation
Indices: 6127514--6127742 Score: 341
Period size: 101 Copynumber: 2.3 Consensus size: 100
6127504 CTGGTACCCA
** *
6127514 TAGTAGCTTGCACTTAGTACTACACACGTGATCAAAGCTATCGGGTACGCATAGTAGCTTGCACT
1 TAGTAGCTTGCACTTAGTACTACACACGTGATCAAAGCTATCAAGTACGCATAGTAGCCTGCACT
* *
6127579 TAGTACTAAACATGCGACCTAACCATCTGATACATG
66 TAGTACTAAACA-GCGACCTAACAATCTGATACACG
*
6127615 TAGTAGCTTGCACTTAGTACTACACACGTGATCGAAGCTATCAAGTACGCATAGTAGCCTGCACT
1 TAGTAGCTTGCACTTAGTACTACACACGTGATCAAAGCTATCAAGTACGCATAGTAGCCTGCACT
** * *
6127680 TAGTACTACGCAGTGACCTAACAATCTGGTACACG
66 TAGTACTAAACAGCGACCTAACAATCTGATACACG
* *
6127715 TAGTAGCCTACACTTAGTACTACACACG
1 TAGTAGCTTGCACTTAGTACTACACACG
6127743 CGACCTAAAA
Statistics
Matches: 116, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
100 45 0.39
101 71 0.61
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.26
Consensus pattern (100 bp):
TAGTAGCTTGCACTTAGTACTACACACGTGATCAAAGCTATCAAGTACGCATAGTAGCCTGCACT
TAGTACTAAACAGCGACCTAACAATCTGATACACG
Found at i:6127771 original size:152 final size:152
Alignment explanation
Indices: 6127507--6127792 Score: 360
Period size: 152 Copynumber: 1.9 Consensus size: 152
6127497 AAGCTCTCTG
* * * *
6127507 GTACCCATAGTAGCTTGCACTTAGTACTACACACGTGATCAAAGCTATCGGGTACGCATAGTAGC
1 GTACCCATAGTAGCCTGCACTTAGTACTACACACGTGACCAAAGCAATCGGGTACACATAGTAGC
* * * * ** * *
6127572 TTGCACTTAGTACTAAACATGCGACCTAACCATCTGATACATGTAGTAGCTTGCACTTAGTACTA
66 CTACACTTAGTACTAAACACGCGACCTAACCATCTGAAACACATAGTAGCCTGCACATAGTACTA
6127637 CACACGTGATCGAAGCTATCAA
131 CACACGTGATCGAAGCTATCAA
* * * * *
6127659 GTACGCATAGTAGCCTGCACTTAGTACTACGCA-GTGACCTAA-CAATCTGGTACACGTAGTAGC
1 GTACCCATAGTAGCCTGCACTTAGTACTACACACGTGACCAAAGCAATCGGGTACACATAGTAGC
* * *
6127722 CTACACTTAGTACTACACACGCGACCTAAAACCATTTTAAACACATAGTAGCCTGCACATAGTAC
66 CTACACTTAGTACTAAACACGCGACCT--AACCATCTGAAACACATAGTAGCCTGCACATAGTAC
6127787 TACACA
129 TACACA
6127793 TGTGTTCTCA
Statistics
Matches: 112, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
150 40 0.36
151 7 0.06
152 65 0.58
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (152 bp):
GTACCCATAGTAGCCTGCACTTAGTACTACACACGTGACCAAAGCAATCGGGTACACATAGTAGC
CTACACTTAGTACTAAACACGCGACCTAACCATCTGAAACACATAGTAGCCTGCACATAGTACTA
CACACGTGATCGAAGCTATCAA
Found at i:6132700 original size:2 final size:2
Alignment explanation
Indices: 6132693--6132719 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6132683 AGCTGTGAAT
6132693 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
6132720 TATTCTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6137463 original size:17 final size:19
Alignment explanation
Indices: 6137421--6137464 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
6137411 ATGAAATTTT
*
6137421 AATTAATATTATGAGATAA
1 AATTATTATTATGAGATAA
*
6137440 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
6137458 AA-TATTA
1 AATTATTA
6137465 CTGCATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:6137577 original size:15 final size:15
Alignment explanation
Indices: 6137559--6137587 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
6137549 ATATTTATAA
6137559 AATTATTATTATTAT
1 AATTATTATTATTAT
6137574 AATTATTATTATTA
1 AATTATTATTATTA
6137588 GATAGGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTATTATTATTAT
Found at i:6139087 original size:32 final size:32
Alignment explanation
Indices: 6139051--6139115 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
6139041 TGTATGCATT
6139051 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
6139083 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
6139115 T
1 T
6139116 GGTAAGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:6140631 original size:25 final size:25
Alignment explanation
Indices: 6140602--6140651 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
6140592 TACAGTTTTA
6140602 CCCCTAGGAGATAAATT-ACCGAAAT
1 CCCCTAGG-GATAAATTGACCGAAAT
* *
6140627 CCCCTAGGGTTAAATTGACCTAAAT
1 CCCCTAGGGATAAATTGACCGAAAT
6140652 GCATGTTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (25 bp):
CCCCTAGGGATAAATTGACCGAAAT
Found at i:6143222 original size:20 final size:21
Alignment explanation
Indices: 6143179--6143224 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
6143169 GACTGTTTTT
6143179 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
*
6143199 -ATGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
6143218 TATGGGC
1 TATGGGC
6143225 AAGACCCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:6143328 original size:59 final size:59
Alignment explanation
Indices: 6143256--6143419 Score: 222
Period size: 60 Copynumber: 2.7 Consensus size: 59
6143246 ACTTTTAATA
* * *
6143256 GGGCTACGGCCCAGACTGATACTGATATGGGCTAGGCCCAGTTACTCTGATATTGTAAG
1 GGGCTATGGCCCAGATTGATACTGATATGGGCTAGGCCCAGTTACTCTGATACTGTAAG
* **
6143315 GGGCTATGACCCAGATTGATACTGATATGGGCTAGGCCCAAAATACTCTGATACTGTAAG
1 GGGCTATGGCCCAGATTGATACTGATATGGGCTAGGCCC-AGTTACTCTGATACTGTAAG
* *
6143375 GGGCTATGGCCCAGATTAATA-TCGACATGGGCTAAGGCCCAGTTA
1 GGGCTATGGCCCAGATTGATACT-GATATGGGCT-AGGCCCAGTTA
6143420 ACACTGATTT
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
59 37 0.41
60 48 0.53
61 6 0.07
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.24
Consensus pattern (59 bp):
GGGCTATGGCCCAGATTGATACTGATATGGGCTAGGCCCAGTTACTCTGATACTGTAAG
Found at i:6143346 original size:28 final size:27
Alignment explanation
Indices: 6143256--6143354 Score: 92
Period size: 28 Copynumber: 3.4 Consensus size: 27
6143246 ACTTTTAATA
*
6143256 GGGCTACGGCCCAGACTGATACTGATAT
1 GGGCTA-GGCCCAGATTGATACTGATAT
* *
6143284 GGGCTAGGCCCAGTTACTCTGATATTG-TAAG
1 GGGCTAGGCCCAG--A-T-TGATACTGAT-AT
*
6143315 GGGCTATGACCCAGATTGATACTGATAT
1 GGGCTA-GGCCCAGATTGATACTGATAT
6143343 GGGCTAGGCCCA
1 GGGCTAGGCCCA
6143355 AAATACTCTG
Statistics
Matches: 57, Mismatches: 7, Indels: 15
0.72 0.09 0.19
Matches are distributed among these distances:
27 12 0.21
28 20 0.35
29 3 0.05
30 2 0.04
31 14 0.25
32 6 0.11
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.24
Consensus pattern (27 bp):
GGGCTAGGCCCAGATTGATACTGATAT
Found at i:6146738 original size:38 final size:38
Alignment explanation
Indices: 6146607--6146755 Score: 183
Period size: 39 Copynumber: 3.9 Consensus size: 38
6146597 TAAAGTATGA
* * *
6146607 TTTTAATTAATAATAAAACAAAAT-GATATGAGGAAGTAG
1 TTTTAATTAACAATAAAACAAAATAG-CATG-GGGAGTAG
*
6146646 TTTTAATTAACAATAAAACAAAATAGTATGGGGAAGTAG
1 TTTTAATTAACAATAAAACAAAATAGCATGGGG-AGTAG
*
6146685 TTTTAATTAACAATAAAACAAAATAGCATGGGGAGTGG
1 TTTTAATTAACAATAAAACAAAATAGCATGGGGAGTAG
* * * *
6146723 TTTTGATTAATAATAAAATAAAGTAGCATGGGG
1 TTTTAATTAACAATAAAACAAAATAGCATGGGG
6146756 GGAGTGGAAT
Statistics
Matches: 100, Mismatches: 8, Indels: 5
0.88 0.07 0.04
Matches are distributed among these distances:
38 35 0.35
39 64 0.64
40 1 0.01
ACGTcount: A:0.47, C:0.05, G:0.19, T:0.30
Consensus pattern (38 bp):
TTTTAATTAACAATAAAACAAAATAGCATGGGGAGTAG
Found at i:6161090 original size:210 final size:209
Alignment explanation
Indices: 6160538--6161712 Score: 1501
Period size: 210 Copynumber: 5.7 Consensus size: 209
6160528 CTTCATCGGG
* * * * * **
6160538 GCAGATCTAAGATGACAGATCTTATCTCTCTGTATTGACGGGGAGCATATCGAAGATATAGTTGA
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTGGCAGGGAACAGATCGAAGATATAACTGA
*
6160603 TTTAGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAG
66 TTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAG
* *
6160668 AACAAATCGAAGTTTGGCATCTT-CACTTTGATGG-AGAGCAGACACATAGCAGATCTAACCTTC
131 AACAAATCGAAGTCTGGCAT-TTCCACTTTGATGGAAG-GCAGACACATAGCAGATCTTACCTTC
*
6160731 AGATGTTTATGCTGAA
194 AGATGTTTACGCTGAA
* * ** * * * *
6160747 GCGGATCCAAGATG---G-T-TTGGCATC-CT-TGTGTTTACAAGGAACAAATCGAAGACATAGC
1 GCAGATCCAAGATGACAGATCTT---ATCTCTCTGTATTGGCAGGGAACAGATCGAAGATATAAC
* * *
6160805 TGATTTGGCTTTCACGTGTTTACGTTGAAACAAATCTAAGATGATTTGTCGTCTCTGTATTGTTA
63 TGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCA
* *
6160870 GAGAACAAATCGAAGTCTGGCATTTCCATTTTGATGGAAGGCAAACACATAGCAGATCTTACCTT
128 GAGAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCTT
6160935 CAGATGTTTACGCTGAA
193 CAGATGTTTACGCTGAA
* *
6160952 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAACTT
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATT-GGCAGGGAACAGATCGAAGATATAACTG
* *
6161017 CTTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTTGTCTCTGTATTGTCAGA
65 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
* * *
6161082 GAACAAATCAAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATTTTACCCTCA
130 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCTTCA
6161147 GATGTTTACGCTGAA
195 GATGTTTACGCTGAA
*
6161162 GCAGATCCAAGATGGCAGATCTTATCTCTCTGTATTTGGCAGGGAACAGATCGAAGATATAACTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTA-TTGGCAGGGAACAGATCGAAGATATAACTG
* *
6161227 GTTTGGCTTTCACGTGTTTTCGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
65 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
* *
6161292 TAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCCTCA
130 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCTTCA
6161357 GATGTTTACGCTGAA
195 GATGTTTACGCTGAA
* * * * *
6161372 GCAGATCCAATATGACAGATCTTATCTCTATGTATTCGGCAGGGAATAGATCAAAGATATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATT-GGCAGGGAACAGATCGAAGATATAACTG
*
6161437 ATTTGGCTTTCACGTGTTTTCGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
65 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
* * * **
6161502 GAACGAATCAAAGTTTGGCATCTT-CACTTTGATGG-AGAGCAGACACATAGCAGATCTCGCCTT
130 GAACAAATCGAAGTCTGGCAT-TTCCACTTTGATGGAAG-GCAGACACATAGCAGATCTTACCTT
*
6161565 CAGATGTTTATGCTGAA
193 CAGATGTTTACGCTGAA
* * * * * * *
6161582 ACGGATCCAAGATG---G-T-TTGGCATC-CT-TATGATT-ACAAGGAGCAAATCG-A-ATCATA
1 GCAGATCCAAGATGACAGATCTT---ATCTCTCTGT-ATTGGCAGGGAACAGATCGAAGAT-ATA
** * * * * *
6161637 GTTGATTTGGCTTTCACGTGCTTACGTTAAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGT
61 ACTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGT
*
6161702 CAGGGAACAAA
126 CAGAGAACAAA
6161713 CCGATGAAGC
Statistics
Matches: 862, Mismatches: 82, Indels: 49
0.87 0.08 0.05
Matches are distributed among these distances:
203 2 0.00
204 75 0.09
205 181 0.21
206 8 0.01
207 12 0.01
208 6 0.01
209 22 0.03
210 552 0.64
211 4 0.00
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (209 bp):
GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTGGCAGGGAACAGATCGAAGATATAACTGA
TTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAG
AACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCTTCAG
ATGTTTACGCTGAA
Found at i:6161389 original size:420 final size:415
Alignment explanation
Indices: 6160538--6161712 Score: 1682
Period size: 420 Copynumber: 2.8 Consensus size: 415
6160528 CTTCATCGGG
* * * * *
6160538 GCAGATCTAAGATGACAGATCTTATCTCTCTGTATT-GACGGGGAGCATATCGAAGATAT-AGTT
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAACTT
*
6160601 GATTTAGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAG
66 -ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAG
*
6160666 AGAACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTAACCTTC
130 AGAACAAATCAAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTAACCTTC
** *
6160731 AGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGA
195 AGATGTTTATGCTGAAGCGGATCCAAGATGGTCAGGCATCCTTGTATTTACAAGGAACAAATCGA
* *
6160796 AGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAACAAATCTAAGATGATTTGTCGTCTCT
260 AGACATAACTGATTTGGCTTTCACGTGTTTACGATGAAACAAATCTAAGATGATTTGTCGTCTCT
* *
6160861 GTATTGTTAGAGAACAAATCGAAGTCTGGCATTTCCATTTTGATGGAAGGCAAACACATAGCAGA
325 GTATTGTCAGAGAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAAACACATAGCAGA
*
6160926 TCTTACCTTCAGATGTTTACGCTGAA
390 TCTTACCCTCAGATGTTTACGCTGAA
6160952 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAACTT
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAACTT
* *
6161017 CTTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTTGTCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
* * * *
6161082 GAACAAATCAAAGTCTGGCAT-TTCCACTTTGATGGA-AGGCAGACACATAGCAGATTTTACCCT
131 GAACAAATCAAAGTTTGGCATCTT-CACTTTGATGGAGA-GCAGACACATAGCAGATCTAACCTT
* * * * *
6161145 CAGATGTTTACGCTGAAGCAGATCCAAGATGG-CAGATCTTATCTCTCTGTATTTGGCAGGGAAC
194 CAGATGTTTATGCTGAAGCGGATCCAAGATGGTCAG-GC--ATC-CT-TGTATTT-ACAAGGAAC
* * * * *
6161209 AGATCGAAGATATAACTGGTTTGGCTTTCACGTGTTTTCGATGAAGCAAATCTAAGATGATTTGT
253 AAATCGAAGACATAACTGATTTGGCTTTCACGTGTTTACGATGAAACAAATCTAAGATGATTTGT
* *
6161274 CGTCTCTGTATTGTCAGATAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACA
318 CGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAAACACA
6161339 TAGCAGATCTTACCCTCAGATGTTTACGCTGAA
383 TAGCAGATCTTACCCTCAGATGTTTACGCTGAA
* * ** * * *
6161372 GCAGATCCAATATGACAGATCTTATCTCTATGTATTCGGCAGGGAATAGATCAAAGATATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAACTT
*
6161437 ATTTGGCTTTCACGTGTTTTCGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
* **
6161502 GAACGAATCAAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCGCCTTCA
131 GAACAAATCAAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTAACCTTCA
* ** * *
6161567 GATGTTTATGCTGAAACGGATCCAAGATGGTTTGGCATCCTTATGA-TTACAAGGAGCAAATCGA
196 GATGTTTATGCTGAAGCGGATCCAAGATGGTCAGGCATCCTTGT-ATTTACAAGGAACAAATCGA
* ** * * * *
6161631 A-TCATAGTTGATTTGGCTTTCACGTGCTTACG-TTAAAGCAAATCTAAGATGATTTGGCATCTC
260 AGACATAACTGATTTGGCTTTCACGTGTTTACGATGAAA-CAAATCTAAGATGATTTGTCGTCTC
*
6161694 TGTATTGTCAGGGAACAAA
324 TGTATTGTCAGAGAACAAA
6161713 CCGATGAAGC
Statistics
Matches: 673, Mismatches: 73, Indels: 30
0.87 0.09 0.04
Matches are distributed among these distances:
413 3 0.00
414 103 0.15
415 179 0.27
416 7 0.01
417 6 0.01
418 5 0.01
419 6 0.01
420 360 0.53
421 4 0.01
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (415 bp):
GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAACTT
ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
GAACAAATCAAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTAACCTTCA
GATGTTTATGCTGAAGCGGATCCAAGATGGTCAGGCATCCTTGTATTTACAAGGAACAAATCGAA
GACATAACTGATTTGGCTTTCACGTGTTTACGATGAAACAAATCTAAGATGATTTGTCGTCTCTG
TATTGTCAGAGAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAAACACATAGCAGAT
CTTACCCTCAGATGTTTACGCTGAA
Found at i:6163105 original size:19 final size:19
Alignment explanation
Indices: 6163069--6163107 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
6163059 CTTTTTTTTT
* *
6163069 GTTTTTTTTTTTAAAAAAA
1 GTTTTTTTTATGAAAAAAA
6163088 GTTTTTTTTATGATAAAAAA
1 GTTTTTTTTATGA-AAAAAA
6163108 AATAAAGTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (19 bp):
GTTTTTTTTATGAAAAAAA
Found at i:6163212 original size:38 final size:38
Alignment explanation
Indices: 6163117--6163229 Score: 138
Period size: 38 Copynumber: 2.9 Consensus size: 38
6163107 AAATAAAGTA
* *
6163117 TGGTTTTAATTAATAATAAAACAAAAT-GATATGAGGAAG
1 TGGTTTTAATTAATAATAAAACAAAATAG-CATG-GGGAG
* * *
6163156 TAGTTTTAATTAACAATAAAATAAAATAGCATGGGGAG
1 TGGTTTTAATTAATAATAAAACAAAATAGCATGGGGAG
* *
6163194 TGGTTTTGATTAATAATAAAACAAAGTAGCATGGGG
1 TGGTTTTAATTAATAATAAAACAAAATAGCATGGGG
6163230 GGGAGTGGAA
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
38 35 0.56
39 27 0.43
40 1 0.02
ACGTcount: A:0.45, C:0.04, G:0.20, T:0.30
Consensus pattern (38 bp):
TGGTTTTAATTAATAATAAAACAAAATAGCATGGGGAG
Found at i:6164332 original size:17 final size:17
Alignment explanation
Indices: 6164296--6164339 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
6164286 ATTTCCTAGC
*
6164296 TTATTCGTTATTATTTT
1 TTATTCGTTATTATTAT
6164313 TTATTCGTT-TTATTCAT
1 TTATTCGTTATTATT-AT
*
6164330 TTATTTGTTA
1 TTATTCGTTA
6164340 CCTTGAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 5 0.22
17 18 0.78
ACGTcount: A:0.18, C:0.07, G:0.07, T:0.68
Consensus pattern (17 bp):
TTATTCGTTATTATTAT
Found at i:6166067 original size:13 final size:13
Alignment explanation
Indices: 6166028--6166080 Score: 72
Period size: 13 Copynumber: 4.1 Consensus size: 13
6166018 AGTTTGGTAA
6166028 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
6166041 TGC-TGTGAAAAAG
1 TGCTTTTG-AAAAG
*
6166054 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
6166067 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
6166080 T
1 T
6166081 TTGGTTTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
12 3 0.09
13 28 0.82
14 3 0.09
ACGTcount: A:0.30, C:0.08, G:0.26, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:6166357 original size:33 final size:35
Alignment explanation
Indices: 6166262--6166358 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 35
6166252 TTAATATTTT
*
6166262 AATATATAAAATATAAATTTTAAATATTT--TTAAGC
1 AATATAT-AAAT-TATATTTTAAATATTTAATTAAGC
* *
6166297 AATAAATATTAATTAT-TTATAAA-ATTTAATT-AG-
1 AAT--ATATAAATTATATTTTAAATATTTAATTAAGC
6166330 AATATATAAATTATATTTTAAATATTTAA
1 AATATATAAATTATATTTTAAATATTTAA
6166359 ATATAACTAT
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
31 10 0.20
32 6 0.12
33 13 0.25
34 8 0.16
35 7 0.14
36 3 0.06
37 4 0.08
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (35 bp):
AATATATAAATTATATTTTAAATATTTAATTAAGC
Found at i:6166373 original size:33 final size:30
Alignment explanation
Indices: 6166297--6166381 Score: 86
Period size: 33 Copynumber: 2.8 Consensus size: 30
6166287 ATTTTTAAGC
6166297 AATA-AATATT-AATTATTTATAAAATTTA
1 AATATAATATTAAATTATTTATAAAATTTA
* * *
6166325 ATTAGAATATATAAATTATATTTTAAATATTTA
1 AATATAATAT-TAAATTAT-TTATAAA-ATTTA
6166358 AATATAACTATTAAA-TATTTATAA
1 AATATAA-TATTAAATTATTTATAA
6166382 TTAGTATTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
28 3 0.07
29 5 0.11
30 1 0.02
31 11 0.24
32 9 0.20
33 14 0.30
34 3 0.07
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (30 bp):
AATATAATATTAAATTATTTATAAAATTTA
Found at i:6173839 original size:26 final size:24
Alignment explanation
Indices: 6173798--6173858 Score: 77
Period size: 26 Copynumber: 2.5 Consensus size: 24
6173788 CTTATTTCAT
* * *
6173798 TAAATAAAAAAATTTAAAAATATAA
1 TAAATAAATATATTTAAAAACAT-A
6173823 TAAATCAAATATATTTAAAAACATA
1 TAAAT-AAATATATTTAAAAACATA
6173848 TAAATAAATAT
1 TAAATAAATAT
6173859 TAAAATAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 11 0.34
26 15 0.47
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (24 bp):
TAAATAAATATATTTAAAAACATA
Found at i:6173878 original size:21 final size:20
Alignment explanation
Indices: 6173798--6173887 Score: 67
Period size: 21 Copynumber: 4.2 Consensus size: 20
6173788 CTTATTTCAT
6173798 TAAATAAAAAAAT-TTAAAAA
1 TAAATAAAAAAATATT-AAAA
6173818 TATAATAAATCAAATATATTTAAAA
1 TA-AATAAA--AAA-ATA-TTAAAA
*
6173843 -ACATATAAATAAATATTAAAA
1 TA-A-ATAAAAAAATATTAAAA
*
6173864 TAAATAAAAATAATACTAAAA
1 TAAATAAAAA-AATATTAAAA
6173885 TAA
1 TAA
6173888 TTCTTAAAAC
Statistics
Matches: 57, Mismatches: 4, Indels: 17
0.73 0.05 0.22
Matches are distributed among these distances:
20 8 0.14
21 25 0.44
22 4 0.07
23 5 0.09
24 4 0.07
25 9 0.16
26 2 0.04
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (20 bp):
TAAATAAAAAAATATTAAAA
Found at i:6177697 original size:60 final size:59
Alignment explanation
Indices: 6177621--6177756 Score: 170
Period size: 60 Copynumber: 2.3 Consensus size: 59
6177611 GTGTTAACTA
6177621 GGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCT-TAC-AGTAAC-AGAGTATACTG
1 GGCC-TAGCCCATATCAATATTAATCTGGGCCATAG-CCCTATACAAGT--CGAGA-TATACTG
* * *
6177682 GGCCTAGCCCATATCAGTATTAATCTGGGCCGTAGCCCTATACAAGTCGAGATATATTG
1 GGCCTAGCCCATATCAATATTAATCTGGGCCATAGCCCTATACAAGTCGAGATATACTG
*
6177741 GGCCTTGCCCATATCA
1 GGCCTAGCCCATATCA
6177757 GCACAGTTGG
Statistics
Matches: 68, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
59 26 0.38
60 35 0.51
61 7 0.10
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.26
Consensus pattern (59 bp):
GGCCTAGCCCATATCAATATTAATCTGGGCCATAGCCCTATACAAGTCGAGATATACTG
Found at i:6184538 original size:25 final size:27
Alignment explanation
Indices: 6184501--6184553 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
6184491 TCAAACATGC
6184501 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
6184527 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
6184553 A
1 A
6184554 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:6186073 original size:26 final size:25
Alignment explanation
Indices: 6186030--6186112 Score: 139
Period size: 26 Copynumber: 3.2 Consensus size: 25
6186020 CATGAAATTC
6186030 TTATCATGAACATTTACCTAACCCA
1 TTATCATGAACATTTACCTAACCCA
6186055 TTATCATGAAACATTTACCTAACCCA
1 TTATCATG-AACATTTACCTAACCCA
*
6186081 TTATCATGGAACATTTACCTAACCTA
1 TTATCAT-GAACATTTACCTAACCCA
6186107 TTATCA
1 TTATCA
6186113 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
25 8 0.15
26 46 0.84
27 1 0.02
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (25 bp):
TTATCATGAACATTTACCTAACCCA
Found at i:6191053 original size:26 final size:26
Alignment explanation
Indices: 6191017--6191100 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
6191007 CATGAAATTC
6191017 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
6191043 TTATCATGAAACATTTATCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
6191069 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
6191095 TTATCA
1 TTATCA
6191101 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:6192722 original size:24 final size:26
Alignment explanation
Indices: 6192669--6192731 Score: 85
Period size: 24 Copynumber: 2.5 Consensus size: 26
6192659 AAATAGTTTC
6192669 AAATAAATAATGAATGAAAAAAACTTA
1 AAATAAATAATGAAT-AAAAAAACTTA
*
6192696 AAATAAATAAT-AAT-AAACAACTTA
1 AAATAAATAATGAATAAAAAAACTTA
*
6192720 AAATGAATAATG
1 AAATAAATAATG
6192732 TACAGCCCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 19 0.58
26 3 0.09
27 11 0.33
ACGTcount: A:0.65, C:0.05, G:0.06, T:0.24
Consensus pattern (26 bp):
AAATAAATAATGAATAAAAAAACTTA
Found at i:6193887 original size:4 final size:4
Alignment explanation
Indices: 6193878--6193904 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
6193868 TATTAGTAAA
6193878 ATTT ATTT ATTT ATTT ATTT ATTT ATT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATT
6193905 ATTATTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
ATTT
Found at i:6193908 original size:3 final size:3
Alignment explanation
Indices: 6193900--6194227 Score: 226
Period size: 3 Copynumber: 107.3 Consensus size: 3
6193890 ATTTATTTAT
** * *
6193900 TTA TTA TTA TTA TTA ACA -TA TTC TTA TTA TTC TTA TTAA TGTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A T-TA TTA
* * *
6193946 -TA TTTA CTA TTTA TTA TTA TTA TTA TTA TTA CTA TTA CTT- TTA TTT
1 TTA -TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
* * * * *
6193992 TTA TTA CTA TTA TTA TTG TTA TTT TTA TTT TTA TT- TTA TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
6194039 GTA TTA CTA TT- TCTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
6194084 TTA TTA TTA TTA TTA TTA TTA TTA TTA TATA TTAA CTA AT- TTA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TT-A TTA TTA TTA TTA
** * **
6194130 TTA TTA TTA CCA CTA TTA TTA TTA TTTA TTTA CTTA CTGG TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA -TTA -TTA -TTA TTA TTA TTA
* *
6194178 TTCA -TA TTA TTA -GA TTAA TTT TGTA TTA TTA TT- TCTA TTA TTA TTA
1 TT-A TTA TTA TTA TTA TT-A TTA T-TA TTA TTA TTA T-TA TTA TTA TTA
6194224 TTA T
1 TTA T
6194228 ATTTCTATTT
Statistics
Matches: 257, Mismatches: 45, Indels: 46
0.74 0.13 0.13
Matches are distributed among these distances:
2 14 0.05
3 208 0.81
4 34 0.13
5 1 0.00
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:6195465 original size:3 final size:3
Alignment explanation
Indices: 6195459--6195563 Score: 56
Period size: 3 Copynumber: 36.0 Consensus size: 3
6195449 TAAAAAAAAC
* * * *
6195459 ATA ATA ATA ATA GTA A-A A-A ATA ATA GTA ACA ATA ATG ATA ATAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A
* ** * ** *
6195503 ATA TTA GCA GTA A-A A-A ATA ATA ATA GGA ATA ATA ATA ATA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
6195549 ATA AGA ATA TTA ATA
1 ATA ATA ATA ATA ATA
6195564 TTAGTGTCGA
Statistics
Matches: 76, Mismatches: 23, Indels: 6
0.72 0.22 0.06
Matches are distributed among these distances:
2 8 0.11
3 65 0.86
4 3 0.04
ACGTcount: A:0.61, C:0.02, G:0.09, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:6195492 original size:22 final size:23
Alignment explanation
Indices: 6195444--6195492 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
6195434 GAATATAAGT
*
6195444 AATAGTAAAAAAAACATAATAAT
1 AATAGTAAAAAAAACATAATAAC
* *
6195467 AATAGTAAAAAATA-ATAGTAAC
1 AATAGTAAAAAAAACATAATAAC
6195489 AATA
1 AATA
6195493 ATGATAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 10 0.43
23 13 0.57
ACGTcount: A:0.67, C:0.04, G:0.06, T:0.22
Consensus pattern (23 bp):
AATAGTAAAAAAAACATAATAAC
Found at i:6195538 original size:15 final size:15
Alignment explanation
Indices: 6195518--6195557 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
6195508 AGCAGTAAAA
6195518 AATAATAATAGGAAT
1 AATAATAATAGGAAT
*
6195533 AATAATAATAGTAAT
1 AATAATAATAGGAAT
*
6195548 AATAAGAATA
1 AATAATAATA
6195558 TTAATATTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (15 bp):
AATAATAATAGGAAT
Found at i:6197327 original size:55 final size:52
Alignment explanation
Indices: 6197226--6197426 Score: 208
Period size: 55 Copynumber: 3.8 Consensus size: 52
6197216 TTCAAGGATG
* * *
6197226 CCATGTAAGACCATGCCAAGGCATGACAATTGGTAAGGTTTCTAAGGCAAGTAAA
1 CCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-GTTTATAAGGCAAGT-AA
* * * *
6197281 TCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTAATATAAGGCAAAGGT-C
1 CCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT--TATAAGGC-AA-GTAA
* * * *
6197336 CCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATA
1 CCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTATAAGGCAAGTA-A
*
6197389 CCATGTAAGACCATG-CAAGACATGGCAATGGTAAGTTT
1 CCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTT
6197427 CAAAAGGATA
Statistics
Matches: 121, Mismatches: 19, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
51 1 0.01
52 21 0.17
53 25 0.21
54 7 0.06
55 63 0.52
56 2 0.02
57 2 0.02
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.23
Consensus pattern (52 bp):
CCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTATAAGGCAAGTAA
Found at i:6204939 original size:55 final size:53
Alignment explanation
Indices: 6204852--6205106 Score: 227
Period size: 55 Copynumber: 4.8 Consensus size: 53
6204842 ATTAGGGTTT
*
6204852 AAGGATACCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-AATTGGTAA-GTTTCTAAGGC
* * * * * *
6204907 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTT--TCTAAGGC
* * * *
6204962 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTC-TAAGGC
* *
6205015 AAGGATACCATGTAAGACCATGTCAAGACAT-GACAATGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGA-ATTGGTAAGTTTCTAAGGC
* * ** * *
6205064 AAGGATACCACGTAAGACGATAACAAGTCATGGAAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAG
6205107 GTACCCGCGT
Statistics
Matches: 166, Mismatches: 26, Indels: 22
0.78 0.12 0.10
Matches are distributed among these distances:
49 35 0.21
50 2 0.01
52 8 0.05
53 39 0.23
54 11 0.07
55 67 0.40
56 4 0.02
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTCTAAGGC
Found at i:6205058 original size:108 final size:110
Alignment explanation
Indices: 6204859--6205059 Score: 309
Period size: 108 Copynumber: 1.8 Consensus size: 110
6204849 TTTAAGGATA
*
6204859 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
* *
6204924 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGACAATGATAAGTTACTATAAGGCAAAGGTC
* * *
6204969 CCATGTAAGACCATGCCAAGGCATGG-CATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
6205031 ACCATGTCAAGACATGACAATGGTAAGTT
65 ACCATGTCAAGACATGACAATGATAAGTT
6205060 TCAAAAGGAT
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.57
109 7 0.08
110 26 0.31
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGACAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:6207047 original size:10 final size:11
Alignment explanation
Indices: 6207007--6207047 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
6206997 TATCCTTTAA
6207007 AATAAATAATG
1 AATAAATAATG
*
6207018 TATAAA-ACATG
1 AATAAATA-ATG
6207029 AATAAATAATG
1 AATAAATAATG
6207040 AA-AAATAA
1 AATAAATAA
6207048 AAAAGGATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
10 7 0.27
11 18 0.69
12 1 0.04
ACGTcount: A:0.66, C:0.02, G:0.07, T:0.24
Consensus pattern (11 bp):
AATAAATAATG
Found at i:6207832 original size:19 final size:20
Alignment explanation
Indices: 6207796--6207834 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
6207786 AACCAATTTG
6207796 AAAATAGAAGAACAAAAATA
1 AAAATAGAAGAACAAAAATA
6207816 AAAAT-GAA-AACAGAAAATA
1 AAAATAGAAGAACA-AAAATA
6207835 GGGAAGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
19 9 0.50
20 5 0.28
ACGTcount: A:0.74, C:0.05, G:0.10, T:0.10
Consensus pattern (20 bp):
AAAATAGAAGAACAAAAATA
Found at i:6208713 original size:92 final size:92
Alignment explanation
Indices: 6208580--6208984 Score: 356
Period size: 92 Copynumber: 4.4 Consensus size: 92
6208570 AGACTTGTTA
* * * ** * *
6208580 TTTGATCTGTTCTACTGGAACTTCAGAGAGATAAGATCTGTAATTTATGGTTTTAATCTGTTCCA
1 TTTGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTCACAGCTTCAATCTGTTCCA
6208645 CTACAACTTCAGGGAAATAAGGCTTGT
66 CTACAACTTCAGGGAAATAAGGCTTGT
* * *
6208672 TTTGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTCACAGCTTCCATCTATTCCA
1 TTTGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTCACAGCTTCAATCTGTTCCA
* *
6208737 CTACAACTTCAGGGAAATAAGATTCGTTAT
66 CTACAACTTCAGGGAAATAAG--GC-TTGT
* * * * * * * * * *
6208767 TTTTAGTCTGTTCCACTGTAACTTTAGGGAGATAAGA-C--T--TGC-GA-CTTCAACCTGCTCC
1 TTTGA-TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTCACAGCTTCAATCTGTTCC
* * * *
6208825 ACTGCAACTTCAGAGAGATAAGGTTTGT
65 ACTACAACTTCAGGGAAATAAGGCTTGT
* * * *
6208853 CTTGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTTTATTCATAGCTTCAATCTGTTCC
1 TTTGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTG-TAATTCACAGCTTCAATCTGTTCC
* *
6208918 ACTGCAACTTCAGGGAAATAAGACTTGCT
65 ACTACAACTTCAGGGAAATAAGGCTTG-T
* * * *
6208947 GTCTTCAGTTTGCTCCACTGCAACTTTAGAGAGATAAG
1 -T-TTGA-TCTGCTCTACTGCAACTTCAGAGAGATAAG
6208985 GTTAGTGGCT
Statistics
Matches: 244, Mismatches: 53, Indels: 27
0.75 0.16 0.08
Matches are distributed among these distances:
85 25 0.10
86 7 0.03
89 30 0.12
90 1 0.00
91 4 0.02
92 77 0.32
93 36 0.15
94 2 0.01
95 8 0.03
96 28 0.11
97 26 0.11
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.33
Consensus pattern (92 bp):
TTTGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTCACAGCTTCAATCTGTTCCA
CTACAACTTCAGGGAAATAAGGCTTGT
Found at i:6208968 original size:45 final size:44
Alignment explanation
Indices: 6208904--6209066 Score: 145
Period size: 45 Copynumber: 3.7 Consensus size: 44
6208894 TTATTCATAG
* *
6208904 CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGACTTGCTGT
1 CTTCAGTCTGCTCCACTGCAACTTCAGGGAAATAAGA-TTGCTGT
* * * * * *
6208949 CTTCAGTTTGCTCCACTGCAACTTTAGAGAGATAAGGTTAG-TGG
1 CTTCAGTCTGCTCCACTGCAACTTCAGGGAAATAAGATT-GCTGT
* *
6208993 CTTC-GATCTGCTTCACTGCAACTTCA-GGAAGATAAGATT-CGTCAT
1 CTTCAG-TCTGCTCCACTGCAACTTCAGGGAA-ATAAGATTGC-T-GT
*
6209038 CTTCAGTCTGCTCCACTACAACTTCAGGG
1 CTTCAGTCTGCTCCACTGCAACTTCAGGG
6209067 GAAGATAAAA
Statistics
Matches: 92, Mismatches: 18, Indels: 15
0.74 0.14 0.12
Matches are distributed among these distances:
43 3 0.03
44 33 0.36
45 53 0.58
46 3 0.03
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.31
Consensus pattern (44 bp):
CTTCAGTCTGCTCCACTGCAACTTCAGGGAAATAAGATTGCTGT
Found at i:6208975 original size:182 final size:180
Alignment explanation
Indices: 6208641--6209028 Score: 483
Period size: 182 Copynumber: 2.1 Consensus size: 180
6208631 TTTAATCTGT
* * * *
6208641 TCCACTACAACTTCAGGGAAATAAGGCTTGTTTTGACCTGCTCTACTGCAACTTCAGAGAGATAA
1 TCCACTGCAACTTCA-GGAGATAAGGCTTGTCTTGACCTACTCTACTGCAACTTCAGAGAGATAA
* * * *
6208706 GATCTGTAATTCACAGCTTCCATCTATTCCACTACAACTTCAGGGAAATAAGATTCGTTATTTTT
65 GATCTGTAATTCACAGCTTCAATCTATTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTC
* * *
6208771 AGTCTGTTCCACTGTAACTTTAGGGAGATAAGACTT-GCGACTTCAACCTGC
130 AGTCTGCTCCACTGCAACTTTAGAGAGATAAG-CTTAGCGACTTCAACCTGC
* *
6208822 TCCACTGCAACTTCAGAGAGATAAGGTTTGTCTTGATCTACTCTACTGCAACTTCAGAGAGATAA
1 TCCACTGCAACTTCAG-GAGATAAGGCTTGTCTTGACCTACTCTACTGCAACTTCAGAGAGATAA
* * * * *
6208887 GATCTGTTTATTCATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGACTT-GCTGTCT
65 GATCTG-TAATTCACAGCTTCAATCTATTCCACTACAACTTCAGGGAAATAAGA-TTCGCTATCT
* * * * * *
6208951 TCAGTTTGCTCCACTGCAACTTTAGAGAGATAAGGTTAGTGGCTTCGATCTGC
128 TCAGTCTGCTCCACTGCAACTTTAGAGAGATAAGCTTAGCGACTTCAACCTGC
*
6209004 TTCACTGCAACTTCAGGAAGATAAG
1 TCCACTGCAACTTCAGG-AGATAAG
6209029 ATTCGTCATC
Statistics
Matches: 177, Mismatches: 25, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
180 1 0.01
181 66 0.37
182 108 0.61
183 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (180 bp):
TCCACTGCAACTTCAGGAGATAAGGCTTGTCTTGACCTACTCTACTGCAACTTCAGAGAGATAAG
ATCTGTAATTCACAGCTTCAATCTATTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCA
GTCTGCTCCACTGCAACTTTAGAGAGATAAGCTTAGCGACTTCAACCTGC
Found at i:6213312 original size:137 final size:135
Alignment explanation
Indices: 6213105--6213389 Score: 525
Period size: 137 Copynumber: 2.1 Consensus size: 135
6213095 TATTGGGCCT
**
6213105 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCTTTTCAGATTACAATAAACTGGGCCTTA
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCTTTTCAGATTACAATAAACTGGGCCTTA
*
6213170 GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAAC
66 GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AAC
6213235 ATATGC
130 ATATGC
6213241 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAG-CCTTTTCAGATTACAATAAACTGGGCCTT
6213306 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
65 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
6213371 ATATGC
130 ATATGC
6213377 AAGCCCATTTGGG
1 AAGCCCATTTGGG
6213390 GAGACTACTC
Statistics
Matches: 145, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
136 55 0.38
137 90 0.62
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (135 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCTTTTCAGATTACAATAAACTGGGCCTTA
GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAACA
TATGC
Found at i:6213348 original size:64 final size:64
Alignment explanation
Indices: 6213143--6213348 Score: 150
Period size: 64 Copynumber: 3.1 Consensus size: 64
6213133 GCCAGAGCCT
6213143 TTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCA
1 TTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCA
* * * *** * ** *
6213207 TTTCAAAATAC-ATGCAACATCAGTAAACATATGCAAGCCC--ATTTGGGTAACAGTGGTACTGG
1 TTTCAGATTACAAT--AA-A-CTG-GGCCTTA-GC---CCCTTATTCAGATAACA---GTA-TGG
* * *
6213269 GCCAGA-GCCCT
53 CCCATAGGCCCA
6213280 TTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCA
1 TTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCA
6213344 TTTCA
1 TTTCA
6213349 AAATACATGC
Statistics
Matches: 99, Mismatches: 26, Indels: 34
0.62 0.16 0.21
Matches are distributed among these distances:
63 9 0.09
64 21 0.21
65 5 0.05
66 1 0.01
67 11 0.11
68 5 0.05
69 5 0.05
70 11 0.11
71 1 0.01
72 5 0.05
73 16 0.16
74 9 0.09
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (64 bp):
TTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCA
Found at i:6213673 original size:24 final size:26
Alignment explanation
Indices: 6213637--6213685 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
6213627 TCAAACATGC
6213637 ATTTAGGTCAATTTAAC-CCTAGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGT
* *
6213662 ATTTCGGT-AATTTATCTCCTAGGG
1 ATTTAGGTCAATTTAACTCCTAGGG
6213686 GTAAAACTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.39
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACTCCTAGGGT
Found at i:6215203 original size:25 final size:25
Alignment explanation
Indices: 6215169--6215301 Score: 214
Period size: 25 Copynumber: 5.2 Consensus size: 25
6215159 CATGAAATTC
6215169 TTATCATGAAACATTTACCTAACCA
1 TTATCATGAAACATTTACCTAACCA
6215194 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAA-CCA
*
6215220 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACC-A
6215246 TTATCATG-AACATTTACCTAACCA
1 TTATCATGAAACATTTACCTAACCA
*
6215270 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACC-A
6215296 TTATCA
1 TTATCA
6215302 ATTTGTATCA
Statistics
Matches: 103, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
24 9 0.09
25 54 0.52
26 40 0.39
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (25 bp):
TTATCATGAAACATTTACCTAACCA
Found at i:6219256 original size:137 final size:135
Alignment explanation
Indices: 6219049--6219333 Score: 525
Period size: 137 Copynumber: 2.1 Consensus size: 135
6219039 TATTGGGCCT
**
6219049 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCTTTTCAGATTACAATAAACTGGGCCTTA
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCTTTTCAGATTACAATAAACTGGGCCTTA
*
6219114 GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAAC
66 GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AAC
6219179 ATATGC
130 ATATGC
6219185 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAG-CCTTTTCAGATTACAATAAACTGGGCCTT
6219250 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
65 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
6219315 ATATGC
130 ATATGC
6219321 AAGCCCATTTGGG
1 AAGCCCATTTGGG
6219334 GAGACTACTC
Statistics
Matches: 145, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
136 55 0.38
137 90 0.62
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (135 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCTTTTCAGATTACAATAAACTGGGCCTTA
GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAACA
TATGC
Found at i:6219292 original size:64 final size:64
Alignment explanation
Indices: 6219087--6219292 Score: 150
Period size: 64 Copynumber: 3.1 Consensus size: 64
6219077 GCCAGAGCCT
6219087 TTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCA
1 TTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCA
* * * *** * ** *
6219151 TTTCAAAATAC-ATGCAACATCAGTAAACATATGCAAGCCC--ATTTGGGTAACAGTGGTACTGG
1 TTTCAGATTACAAT--AA-A-CTG-GGCCTTA-GC---CCCTTATTCAGATAACA---GTA-TGG
* * *
6219213 GCCAGA-GCCCT
53 CCCATAGGCCCA
6219224 TTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCA
1 TTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCA
6219288 TTTCA
1 TTTCA
6219293 AAATACATGC
Statistics
Matches: 99, Mismatches: 26, Indels: 34
0.62 0.16 0.21
Matches are distributed among these distances:
63 9 0.09
64 21 0.21
65 5 0.05
66 1 0.01
67 11 0.11
68 5 0.05
69 5 0.05
70 11 0.11
71 1 0.01
72 5 0.05
73 16 0.16
74 9 0.09
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (64 bp):
TTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCA
Found at i:6219613 original size:24 final size:25
Alignment explanation
Indices: 6219577--6219624 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
6219567 TCAAACATGC
6219577 ATTTAGGTCAATTTAACCCTAGGGT
1 ATTTAGGTCAATTTAACCCTAGGGT
* * *
6219602 ATTTCGGT-AATTTATCTCTAGGG
1 ATTTAGGTCAATTTAACCCTAGGG
6219625 GTAAAACTGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.40
Consensus pattern (25 bp):
ATTTAGGTCAATTTAACCCTAGGGT
Found at i:6221141 original size:26 final size:26
Alignment explanation
Indices: 6221105--6221240 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
6221095 CATGAAATTC
6221105 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
6221131 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
6221157 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
6221183 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
6221209 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
6221235 TTATCA
1 TTATCA
6221241 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:6230488 original size:28 final size:29
Alignment explanation
Indices: 6230457--6230515 Score: 68
Period size: 30 Copynumber: 2.0 Consensus size: 29
6230447 TAAAACGTAG
*
6230457 AAAAT-TTAAAAATAGATA-ATATCTATAT
1 AAAATGTTAAAAATAGA-AGATATATATAT
*
6230485 AAAATGGTTTAAAATAGAAGATATATATAT
1 AAAAT-GTTAAAAATAGAAGATATATATAT
6230515 A
1 A
6230516 TATATATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
28 5 0.19
29 1 0.04
30 20 0.77
ACGTcount: A:0.56, C:0.02, G:0.08, T:0.34
Consensus pattern (29 bp):
AAAATGTTAAAAATAGAAGATATATATAT
Found at i:6230512 original size:2 final size:2
Alignment explanation
Indices: 6230505--6230543 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
6230495 AAAATAGAAG
6230505 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6230544 AATCAAAATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6232207 original size:30 final size:30
Alignment explanation
Indices: 6232134--6232207 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 30
6232124 AATAATAATG
* *
6232134 ATAATAGTAAT-AGAA-AATAAAAATAAAA
1 ATAATAGTAATAATAATAATAAAAACAAAA
* *
6232162 ATAATA-TAGTAATAATAATAAAAGCAAAA
1 ATAATAGTAATAATAATAATAAAAACAAAA
6232191 ATAATAGTAATAATAAT
1 ATAATAGTAATAATAAT
6232208 GGTAATAATA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
27 3 0.08
28 9 0.24
29 17 0.45
30 9 0.24
ACGTcount: A:0.66, C:0.01, G:0.07, T:0.26
Consensus pattern (30 bp):
ATAATAGTAATAATAATAATAAAAACAAAA
Found at i:6232237 original size:31 final size:31
Alignment explanation
Indices: 6232192--6232252 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
6232182 AAAGCAAAAA
* * **
6232192 TAATAGTAATAATAATGGTAATAATAAATAG
1 TAATAATAACAATAATGCAAATAATAAATAG
6232223 TAATAATAACAATAATGCAAATAATAAATA
1 TAATAATAACAATAATGCAAATAATAAATA
6232253 ATCTAAAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.59, C:0.03, G:0.08, T:0.30
Consensus pattern (31 bp):
TAATAATAACAATAATGCAAATAATAAATAG
Found at i:6232249 original size:3 final size:3
Alignment explanation
Indices: 6232123--6232238 Score: 74
Period size: 3 Copynumber: 38.3 Consensus size: 3
6232113 CAATTAGTAT
* * * * *
6232123 TAA TAA TAA TGA TAA TAG TAA TAGA AAA TAA AAA TAA AAA TAA T-A
1 TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA
* * * * **
6232168 TAG TAA TAA TAA TAA -AA GCAA AAA TAA TAG TAA TAA TAA TGG TAA
1 TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
6232213 TAA TAAA TAG TAA TAA TAA CAA TAA T
1 TAA T-AA TAA TAA TAA TAA TAA TAA T
6232239 GCAAATAATA
Statistics
Matches: 84, Mismatches: 24, Indels: 10
0.71 0.20 0.08
Matches are distributed among these distances:
2 4 0.05
3 73 0.87
4 7 0.08
ACGTcount: A:0.63, C:0.02, G:0.08, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:6232424 original size:3 final size:3
Alignment explanation
Indices: 6232418--6232599 Score: 81
Period size: 3 Copynumber: 61.0 Consensus size: 3
6232408 AAAGGAAAAT
* * *
6232418 ATA ATA ATA GTA GTA ATA AT- ATA ATA GTA ATA ATA A-A A-A AGGTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A--TA
* * * * * *
6232462 ATA ATA AT- ATA TTA GATA GTA AGAA ATA ATA ATA ATA ACA ACA GTA
1 ATA ATA ATA ATA ATA -ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
6232508 ATA A-A A-A ATG GTA ATA ATG ATA TTA GTA ATA ATA ATA ATA ACA AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
6232553 ATA TTA ATA ATA ATA TATA TTA ATA ATG ACA ATA ATA GAAA ATA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA
6232600 GAAATAAATA
Statistics
Matches: 133, Mismatches: 35, Indels: 22
0.70 0.18 0.12
Matches are distributed among these distances:
2 14 0.11
3 108 0.81
4 9 0.07
5 2 0.02
ACGTcount: A:0.59, C:0.02, G:0.08, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:6232435 original size:17 final size:17
Alignment explanation
Indices: 6232421--6232499 Score: 67
Period size: 17 Copynumber: 4.8 Consensus size: 17
6232411 GGAAAATATA
*
6232421 ATAATAGTAGTAATAAT
1 ATAATAGTAATAATAAT
6232438 ATAATAGTAATAATAA-
1 ATAATAGTAATAATAAT
6232454 A-AA-AGGTAATAATAAT
1 ATAATA-GTAATAATAAT
* * *
6232470 ATATTAGATAGTAAGAA-
1 ATAATAG-TAATAATAAT
*
6232487 ATAATAATAATAA
1 ATAATAGTAATAA
6232500 CAACAGTAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
14 1 0.02
15 12 0.24
16 7 0.14
17 22 0.44
18 8 0.16
ACGTcount: A:0.59, C:0.00, G:0.10, T:0.30
Consensus pattern (17 bp):
ATAATAGTAATAATAAT
Found at i:6232572 original size:16 final size:17
Alignment explanation
Indices: 6232540--6232586 Score: 69
Period size: 16 Copynumber: 2.8 Consensus size: 17
6232530 TTAGTAATAA
6232540 TAATAATAACAATATAT
1 TAATAATAACAATATAT
*
6232557 TAATAATAA-TATATAT
1 TAATAATAACAATATAT
*
6232573 TAATAATGACAATA
1 TAATAATAACAATA
6232587 ATAGAAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
16 14 0.54
17 12 0.46
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.36
Consensus pattern (17 bp):
TAATAATAACAATATAT
Found at i:6234788 original size:26 final size:25
Alignment explanation
Indices: 6234740--6234996 Score: 150
Period size: 26 Copynumber: 10.2 Consensus size: 25
6234730 TCGACAAATA
* *
6234740 ATATAAAAATTTTAAAATGAATAAC
1 ATATAAAAAATTTAAAATAAATAAC
* **
6234765 ATATAAAACAATTTAAATTAAATATT
1 ATATAAAA-AATTTAAAATAAATAAC
* * *
6234791 ATACGT-GAAAATTGAAAATAGAT-A-
1 ATA--TAAAAAATTTAAAATAAATAAC
* * *
6234815 ATATAAAATAGTTAAAAATAAATAAT
1 ATATAAAA-AATTTAAAATAAATAAC
* *
6234841 ATA-AAACAATATTTAAAATAGATAAT
1 ATATAAA-AA-ATTTAAAATAAATAAC
* * *
6234867 ATATAAAAAGTTTAAAATAAACAAT
1 ATATAAAAAATTTAAAATAAATAAC
* *
6234892 ATATGAAAAGATTTCAAAATAAATAAG
1 ATAT-AAAAAATTT-AAAATAAATAAC
*** *
6234919 ATA-AGTGAGTTTAAAATAAATAAC
1 ATATAAAAAATTTAAAATAAATAAC
*
6234943 ATATGAAAAGATTTAAAATAAATAA-
1 ATAT-AAAAAATTTAAAATAAATAAC
* *
6234968 A-ATAAATAAGTTTAATATAAATAAC
1 ATATAAA-AAATTTAAAATAAATAAC
6234993 ATAT
1 ATAT
6234997 GAAAGAAAAA
Statistics
Matches: 177, Mismatches: 38, Indels: 33
0.71 0.15 0.13
Matches are distributed among these distances:
22 1 0.01
23 5 0.03
24 44 0.25
25 36 0.20
26 72 0.41
27 18 0.10
28 1 0.01
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (25 bp):
ATATAAAAAATTTAAAATAAATAAC
Found at i:6234824 original size:14 final size:14
Alignment explanation
Indices: 6234805--6234869 Score: 61
Period size: 14 Copynumber: 5.1 Consensus size: 14
6234795 GTGAAAATTG
6234805 AAAATAGATAATAT
1 AAAATAGATAATAT
6234819 AAAATAG-T--TA-
1 AAAATAGATAATAT
*
6234829 AAAATAAATAATAT
1 AAAATAGATAATAT
* *
6234843 AAAACA-AT-ATTT
1 AAAATAGATAATAT
6234855 AAAATAGATAATAT
1 AAAATAGATAATAT
6234869 A
1 A
6234870 TAAAAAGTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
10 6 0.15
11 3 0.08
12 8 0.20
13 7 0.17
14 16 0.40
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.29
Consensus pattern (14 bp):
AAAATAGATAATAT
Found at i:6234884 original size:75 final size:74
Alignment explanation
Indices: 6234735--6235017 Score: 186
Period size: 76 Copynumber: 3.8 Consensus size: 74
6234725 TGGTTTCGAC
* * * * * *
6234735 AAATAATATAAAAATTTTAAAATGAATAACATATAAAACAATTTAAATTAAATATTATACGTGAA
1 AAATAATATAAAAAGTTAAAAATAAATAACATATAAAACAATTTAAAATAAATAATATAC-TAAA
6234800 AATTGAAAAT
65 AATTGAAAAT
* *
6234810 AGATAATATAAAATAGTTAAAAATAAAT-A-ATATAAAACAATATTTAAAATAGATAATATA-TA
1 AAATAATATAAAA-AGTTAAAAATAAATAACATATAAAAC-A-ATTTAAAATAAATAATATACTA
*
6234872 AAAAGTTTAAAAT
63 AAAA-TTGAAAAT
* * * *** * *
6234885 AAACAATATATGAAAAGATTTCAAAATAAAT-A-AGATAAGTGAGTTTAAAATAAATAACATA-T
1 AAATAATATA--AAAAG--TTAAAAATAAATAACATATAAAACAATTTAAAATAAATAATATACT
*
6234947 GAAAAGATTTAAAAT
62 -AAAA-ATTGAAAAT
* * * * * *
6234962 AAATAAAATAAATAAGTTTAATATAAATAACATATGAAAGAA--AAAAATAAATAATA
1 AAATAATATAAA-AAGTTAAAAATAAATAACATATAAAACAATTTAAAATAAATAATA
6235018 AACTTGCGAA
Statistics
Matches: 165, Mismatches: 30, Indels: 27
0.74 0.14 0.12
Matches are distributed among these distances:
74 36 0.22
75 32 0.19
76 55 0.33
77 24 0.15
78 18 0.11
ACGTcount: A:0.61, C:0.03, G:0.07, T:0.29
Consensus pattern (74 bp):
AAATAATATAAAAAGTTAAAAATAAATAACATATAAAACAATTTAAAATAAATAATATACTAAAA
ATTGAAAAT
Found at i:6234911 original size:102 final size:98
Alignment explanation
Indices: 6234735--6235000 Score: 247
Period size: 102 Copynumber: 2.7 Consensus size: 98
6234725 TGGTTTCGAC
* * *
6234735 AAATAATAT-AAAAAT-TTTAAAAT-GAATAACATATAAAACAATTTAAATTAAATATTATACGT
1 AAATAATATAAAAAATATTTAAAATAG-ATAA-ATATAAAA-AGTTTAAAATAAATAATATA--T
* * *
6234797 G-AAAATTGAAAATAGATAATATAAAAT-AGTTAAAAAT
61 GAAAAATTCAAAATAAATAAGAT-AAATGAGTTAAAAAT
*
6234834 AAATAATATAAAACAATATTTAAAATAGATAATATATAAAAAGTTTAAAATAAACAATATATGAA
1 AAATAATATAAAA-AATATTTAAAATAGATAA-ATATAAAAAGTTTAAAATAAATAATATATGAA
* *
6234899 AAGATTTCAAAATAAATAAGATAAGTGAGTTTAAAAT
64 AA-A-TTCAAAATAAATAAGATAAATGAGTTAAAAAT
* * * * * *
6234936 AAATAACATATGAAAAGATTTAAAATAAATAAA-ATAAATAAGTTTAATATAAATAACATATGAA
1 AAATAATATA-AAAAATATTTAAAATAGATAAATATAAA-AAGTTTAAAATAAATAATATATGAA
6235000 A
64 A
6235001 GAAAAAAATA
Statistics
Matches: 140, Mismatches: 17, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
99 11 0.08
100 11 0.08
101 47 0.34
102 68 0.49
103 3 0.02
ACGTcount: A:0.61, C:0.03, G:0.07, T:0.30
Consensus pattern (98 bp):
AAATAATATAAAAAATATTTAAAATAGATAAATATAAAAAGTTTAAAATAAATAATATATGAAAA
ATTCAAAATAAATAAGATAAATGAGTTAAAAAT
Found at i:6234992 original size:50 final size:50
Alignment explanation
Indices: 6234805--6235000 Score: 209
Period size: 50 Copynumber: 3.9 Consensus size: 50
6234795 GTGAAAATTG
* * * * * *
6234805 AAAATAGATAATATAAA-ATAGTTAAAAATAAATAATATA-AAACAATATTT
1 AAAATAAATAAAATAAATA-AGTTTAAAATAAATAACATATGAA-AAGATTT
* * *
6234855 AAAATAGATAATATATAAA-AAGTTTAAAATAAACAATATATGAAAAGATTT
1 AAAATAAATAA-A-ATAAATAAGTTTAAAATAAATAACATATGAAAAGATTT
* * *
6234906 CAAAATAAATAAGATAAGTGAGTTTAAAATAAATAACATATGAAAAGATTT
1 -AAAATAAATAAAATAAATAAGTTTAAAATAAATAACATATGAAAAGATTT
*
6234957 AAAATAAATAAAATAAATAAGTTTAATATAAATAACATATGAAA
1 AAAATAAATAAAATAAATAAGTTTAAAATAAATAACATATGAAA
6235001 GAAAAAAATA
Statistics
Matches: 126, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
50 55 0.44
51 53 0.42
52 18 0.14
ACGTcount: A:0.62, C:0.03, G:0.07, T:0.29
Consensus pattern (50 bp):
AAAATAAATAAAATAAATAAGTTTAAAATAAATAACATATGAAAAGATTT
Found at i:6235011 original size:24 final size:24
Alignment explanation
Indices: 6234853--6235015 Score: 103
Period size: 24 Copynumber: 6.5 Consensus size: 24
6234843 AAAACAATAT
* * * *
6234853 TTAAAATAGATAATATATAAAAAGT
1 TTAAAATAAATAACATAT-GAAAGA
* *
6234878 TTAAAATAAACAATATATGAAAAGA
1 TTAAAATAAATAACATATG-AAAGA
* * ** *
6234903 TTTCAAAATAAATAAGATAAGTGAGT
1 -TT-AAAATAAATAACATATGAAAGA
6234929 TTAAAATAAATAACATATGAAAAGA
1 TTAAAATAAATAACATATG-AAAGA
* * *
6234954 TTTAAAATAAATAAAATA-AATAAGT
1 -TTAAAATAAATAACATATGA-AAGA
*
6234979 TTAATATAAATAACATATGAAAGA
1 TTAAAATAAATAACATATGAAAGA
**
6235003 AAAAAATAAATAA
1 TTAAAATAAATAA
6235016 TAAACTTGCG
Statistics
Matches: 106, Mismatches: 25, Indels: 15
0.73 0.17 0.10
Matches are distributed among these distances:
24 44 0.42
25 28 0.26
26 20 0.19
27 14 0.13
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.28
Consensus pattern (24 bp):
TTAAAATAAATAACATATGAAAGA
Found at i:6237127 original size:2 final size:2
Alignment explanation
Indices: 6237102--6237155 Score: 67
Period size: 2 Copynumber: 28.0 Consensus size: 2
6237092 GACTACAAAA
* * *
6237102 AT AT AG AT AG AT AT AA AT -T AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6237143 AT AT A- AT AT AT AT
1 AT AT AT AT AT AT AT
6237156 GCTACAATAT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
1 2 0.05
2 42 0.95
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (2 bp):
AT
Found at i:6241462 original size:17 final size:18
Alignment explanation
Indices: 6241422--6241463 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
6241412 GAAGAGATAA
*
6241422 AATTTTAATTTATATATT
1 AATTATAATTTATATATT
*
6241440 AA-TATAATTTTTATA-T
1 AATTATAATTTATATATT
6241456 AATTATAA
1 AATTATAA
6241464 AAGCGATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 3 0.14
17 16 0.76
18 2 0.10
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
AATTATAATTTATATATT
Found at i:6246113 original size:2 final size:2
Alignment explanation
Indices: 6246106--6246135 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
6246096 ATATGTGTAA
*
6246106 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6246136 GTACATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:6246326 original size:38 final size:39
Alignment explanation
Indices: 6246200--6246326 Score: 118
Period size: 38 Copynumber: 3.3 Consensus size: 39
6246190 ATAATTTGTA
* * *
6246200 ATAATA-ATATATACACAATATGGTATTTAAAATATATAT
1 ATAATATATATATACACTA-ATGGTATTAAAAATATATAC
* * * *
6246239 AT-ATATATATGTATA-TAATAGTATTTAAGAATATATAC
1 ATAATATATATATACACTAATGGTA-TTAAAAATATATAC
* * *
6246277 ATAAGAAATATATA-ACTAATGGCATTAAAAATATATAC
1 ATAATATATATATACACTAATGGTATTAAAAATATATAC
6246315 ATAATATATATA
1 ATAATATATATA
6246327 AAATACCTAA
Statistics
Matches: 69, Mismatches: 15, Indels: 9
0.74 0.16 0.10
Matches are distributed among these distances:
37 5 0.07
38 41 0.59
39 23 0.33
ACGTcount: A:0.52, C:0.05, G:0.06, T:0.37
Consensus pattern (39 bp):
ATAATATATATATACACTAATGGTATTAAAAATATATAC
Found at i:6246837 original size:32 final size:31
Alignment explanation
Indices: 6246793--6246886 Score: 145
Period size: 32 Copynumber: 3.0 Consensus size: 31
6246783 TGGCTAGGTT
*
6246793 TTTTTATTTTTTTATTTT-GGTTAGGTTTTTC
1 TTTTTCTTTTTTT-TTTTGGGTTAGGTTTTTC
6246824 TTTTTCTTCTTTTTTTTTGGGTTAGGTTTTTC
1 TTTTTCTT-TTTTTTTTTGGGTTAGGTTTTTC
6246856 TTTTTCTTTTTTTTTTTTGGGTTAGGTTTTT
1 TTTTTC-TTTTTTTTTTTGGGTTAGGTTTTT
6246887 TTGGGGGGCT
Statistics
Matches: 59, Mismatches: 1, Indels: 5
0.91 0.02 0.08
Matches are distributed among these distances:
31 11 0.19
32 46 0.78
33 2 0.03
ACGTcount: A:0.05, C:0.05, G:0.15, T:0.74
Consensus pattern (31 bp):
TTTTTCTTTTTTTTTTTGGGTTAGGTTTTTC
Found at i:6247645 original size:88 final size:87
Alignment explanation
Indices: 6247541--6247706 Score: 228
Period size: 88 Copynumber: 1.9 Consensus size: 87
6247531 AACAGACATT
*
6247541 AAAAACAGAAATTGAAAATAGCTC-AGCACGTGAGC-CAAGGCTCAACTCACCTCTCGCAATATG
1 AAAAACAGAAATTGAAAATACCTCGA-CACGTGA-CTCAAGGCTCAACTCACCTCTCGCAATATG
6247604 AGTTGATTTTTTGAAACTTAACTTG
64 AGTTGA-TTTTTGAAACTTAACTTG
** * * * *
6247629 AAAAACAGATTTTGAAAATACCTCGATATGTGACTGAAGGTTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCGACACGTGACTCAAGGCTCAACTCACCTCTCGCAATATGAG
6247694 TTGATTTTTGAAA
66 TTGATTTTTGAAA
6247707 AACAGAAATT
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
87 10 0.14
88 58 0.84
89 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (87 bp):
AAAAACAGAAATTGAAAATACCTCGACACGTGACTCAAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTGAAACTTAACTTG
Found at i:6247745 original size:30 final size:30
Alignment explanation
Indices: 6247709--6247770 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
6247699 TTTTGAAAAA
6247709 CAGAAATT-AAAAGACTCAACTCAACTCTCG
1 CAGAAATTAAAAAG-CTCAACTCAACTCTCG
*
6247739 CAGAAATTAAAAAGCTCAACTCACCTCTCG
1 CAGAAATTAAAAAGCTCAACTCAACTCTCG
6247769 CA
1 CA
6247771 ATATGAGTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.42, C:0.29, G:0.10, T:0.19
Consensus pattern (30 bp):
CAGAAATTAAAAAGCTCAACTCAACTCTCG
Found at i:6247851 original size:77 final size:78
Alignment explanation
Indices: 6247752--6248441 Score: 337
Period size: 75 Copynumber: 8.7 Consensus size: 78
6247742 AAATTAAAAA
6247752 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAAAAAAATTG-AAAATAGCTCAG
1 GCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTTGAAAAAAAAAATTGAAAAATAGCTCAG
*
6247816 CACGTGAGC-CAAG
65 CACATGAGCTCAAG
* * *
6247829 GCTCAACTCACTTCTCGCAATATGAGTTGA--TTTTTG-AAAACAGAATCTGAAAAACAGATTTT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAAAAAAT-TG--AAA-A-A---T
** ** * * *
6247891 GAAAATACCTCGACATGTGACCCGAG
58 --AGCT-CAGC-ACATGAG-CTCAAG
* * * *
6247917 GCTCAACTCACATCTCGCAATGTGAGTTGATTTTTTTGAAAAACATAAATTGAAAAAATACCTCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAA-AAAAATTG-AAAAATAGCTCA
**** * *
6247982 GTGTGTGATCTGAA-
64 GCACATGAGCTCAAG
* *
6247996 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTG-AAAATAGCTCAG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA-AAAAAAATTGAAAAATAGCTCAG
*
6248060 CGCATGAGC-CAAG
65 CACATGAGCTCAAG
** * * **
6248073 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTGAAA-AAAAAAATTGAAAAA--TAGC
* * * * *
6248138 T-TGAAAATGCCTCGGCGTGTGACCTGAG
61 TCAGCACATG----AGC---T---C-AAG
* * * * * * * *
6248166 GCTTAACTCACCTCTCACAATACGAGTTGATTTTTTTGACAACAGAAATTG-AAATTACCTCAG-
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAAAAAATTGAAAAATAGCTCAGC
* ** *
6248229 -CGTGTCCT-GAG
66 ACATGAGCTCAAG
* *
6248240 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTG-AAAATACCTCA-
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAA-AAAAATTGAAAAATAGCTCAG
* * *
6248303 -ACGTG-TCTCGAG
65 CACATGAGCTCAAG
* *
6248315 GCTCAACTCACCTCTCGCAATATGAGTTGATTTCTTTGAAAAACAAAAATTG-AAAATATCTCAG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAA-AAAAATTGAAAAATAGCTCAG
* **
6248379 --CATG-TCTTGAG
65 CACATGAGCTCAAG
* ** * * *
6248390 GCCCAACTCATTTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAAAAAATTGAAA
6248442 TTACCTCAGC
Statistics
Matches: 488, Mismatches: 81, Indels: 92
0.74 0.12 0.14
Matches are distributed among these distances:
72 7 0.01
73 18 0.04
74 51 0.10
75 121 0.25
76 3 0.01
77 76 0.16
78 1 0.00
79 69 0.14
80 7 0.01
81 6 0.01
82 5 0.01
83 2 0.00
84 2 0.00
85 5 0.01
86 7 0.01
87 3 0.01
88 33 0.07
89 4 0.01
90 19 0.04
91 16 0.03
92 4 0.01
93 29 0.06
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (78 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAAAAAATTGAAAAATAGCTCAGC
ACATGAGCTCAAG
Found at i:6248005 original size:79 final size:77
Alignment explanation
Indices: 6247876--6248471 Score: 402
Period size: 75 Copynumber: 7.7 Consensus size: 77
6247866 AAACAGAATC
** * * * *
6247876 TGAAAAACAGATTTTGAAAATACCTC-GACATGTGACCCGAGGCTCAACTCACATCTCGCAATGT
1 TGAAAAACAGAAATTGAAAATACCTCAG-CGTGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
6247940 GAGTTGATTTTTT
65 GAGTTGATTTTTT
* * * *
6247953 TGAAAAACATAAATTGAAAAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATA
1 TGAAAAACAGAAATTG--AAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATA
6248018 TGAGTTGATTTTTT
64 TGAGTTGATTTTTT
* * ** *
6248032 TGAAAGACAGAAATTGAAAATAGCTCAGCGCATGAGCC-AAGGCTCAACTCACCTCTCGCAATAT
1 TGAAAAACAGAAATTGAAAATACCTCAGCGTGTGA-CCTGAGGCTCAACTCACCTCTCGCAATAT
6248096 GAGTTGATTTTTTTT
65 GAGTTGA--TTTTTT
** * * *** * * * * * * *
6248111 TGAAAGGCAGAAATTGAAAA-ACGGAAATTGAAAATGCCTCGGCGTGTGACCTGAGGCTTAACTC
1 TGAAAAACAGAAATTGAAAATAC-----CTCAGCGTG--T-GACCTGAG-GCTCA-AC-TCAC-C
* * ** *
6248175 ACCTCTCACAAT-A--CGAGTTGATTTT
54 -TCTCGCAATATGAGTTGA-TT--TTTT
* *
6248200 TTTG-ACAACAGAAATTGAAATTACCTCAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAATA
1 --TGAAAAACAGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATA
6248262 TGAGTTGATTTTTT
64 TGAGTTGATTTTTT
*
6248276 TGAAAAACAGAAATTGAAAATACCTCAACGTGT---CTCGAGGCTCAACTCACCTCTCGCAATAT
1 TGAAAAACAGAAATTGAAAATACCTCAGCGTGTGACCT-GAGGCTCAACTCACCTCTCGCAATAT
*
6248338 GAGTTGATTTCTT
65 GAGTTGATTTTTT
* * * * * **
6248351 TGAAAAACAAAAATTGAAAATATCTCAGCATGT--CTTGAGGCCCAACTCATTTCTCGCAATATG
1 TGAAAAACAGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATG
*
6248414 AGTTGA--ATTT
66 AGTTGATTTTTT
* *
6248424 TG-AAAACAGAAATTGAAATTACCTCAGCGTGT--CTTGAGGCTCAACTCA
1 TGAAAAACAGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCA
6248472 TTTTGAACAG
Statistics
Matches: 407, Mismatches: 81, Indels: 67
0.73 0.15 0.12
Matches are distributed among these distances:
72 41 0.10
73 4 0.01
74 4 0.01
75 124 0.30
76 12 0.03
77 61 0.15
78 7 0.02
79 94 0.23
80 4 0.01
81 4 0.01
83 2 0.00
84 1 0.00
85 2 0.00
86 6 0.01
87 5 0.01
88 3 0.01
89 7 0.02
90 15 0.04
91 11 0.03
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (77 bp):
TGAAAAACAGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTTTT
Found at i:6248144 original size:249 final size:243
Alignment explanation
Indices: 6247542--6248370 Score: 995
Period size: 249 Copynumber: 3.4 Consensus size: 243
6247532 ACAGACATTA
6247542 AAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGT
** * * *
6247607 TGATTTTTTGAAACTTAACTTGAAAAACAGATTTTGAAAATACCTCGATATGTGA-CTGAAGGTT
66 TGATTTTTTGAAACAGAAATTGAAAAACAGATTTTGAAAATACCTCGACATGTGACCTG-AGGCT
* *
6247671 CAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATT-AAAAGACTCAACTCAA
130 CAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAA-AAT-ACCTC-A
* * * *
6247733 CTCTCGCAGAAAT-TAAAAAGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTG
192 GTGT-G-TG--ATCT--GAAGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTTG
* * *
6247791 AAAAAAAAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAGT
1 AAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGT
*
6247856 TGA-TTTTTGAAAACAG-AATCTGAAAAACAGATTTTGAAAATACCTCGACATGTGACCCGAGGC
66 TGATTTTTTG-AAACAGAAAT-TGAAAAACAGATTTTGAAAATACCTCGACATGTGACCTGAGGC
* * *
6247919 TCAACTCACATCTCGCAATGTGAGTTGATTTTTTTGAAAAACATAAATTGAAAAAATACCTCAGT
129 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAAATACCTCAGT
6247984 GTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
194 GTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
* *
6248034 AAAGACAGAAATTGAAAATAGCTCAGCGCATGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
1 AAA-ACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
* ** * * *
6248099 TTGATTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTGAAAATGCCTCGGCGTGTGACCTG
65 TTGA---TTTTTTGAAA--CAGAAATTGAAAAACAGATTTTGAAAATACCTCGACATGTGACCTG
* * * * *
6248164 AGGCTTAACTCACCTCTCACAATACGAGTTGATTTTTTTG-ACAACAGAAATTG--AAATTACCT
125 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAAATACCT
* * *
6248226 CAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
190 CAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
* * *
6248278 AAAAACAGAAATTGAAAATACCTCA--ACGTG-TCTCGAGGCTCAACTCACCTCTCGCAATATGA
1 -AAAACAGAAATTGAAAATAGCTCAGCACGTGAGC-CAAGGCTCAACTCACCTCTCGCAATATGA
*
6248340 GTTGATTTCTTTGAAAAACAAAAATTGAAAA
64 GTTGATTT-TTTG--AAACAGAAATTGAAAA
6248371 TATCTCAGCA
Statistics
Matches: 513, Mismatches: 47, Indels: 49
0.84 0.08 0.08
Matches are distributed among these distances:
239 3 0.01
240 16 0.03
241 1 0.00
242 39 0.08
243 12 0.02
244 153 0.30
245 5 0.01
246 16 0.03
247 4 0.01
248 26 0.05
249 205 0.40
250 9 0.02
251 20 0.04
252 4 0.01
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.28
Consensus pattern (243 bp):
AAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTGAAACAGAAATTGAAAAACAGATTTTGAAAATACCTCGACATGTGACCTGAGGCTC
AACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAAATACCTCAGTGT
GTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
Found at i:6248261 original size:74 final size:75
Alignment explanation
Indices: 6248124--6248471 Score: 454
Period size: 75 Copynumber: 4.7 Consensus size: 75
6248114 AAGGCAGAAA
* * * * * *
6248124 TTGAAAAACGGAAATTGAAAATGCCTCGGCGTGTGACCTGAGGCTTAACTCACCTCTCACAATAC
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAATAT
6248189 GAGTTGATTTTT
64 GAGTTGATTTTT
* *
6248201 TTG-ACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
6248265 GTTGATTTTT
66 GTTGATTTTT
*
6248275 TTGAAAAACAGAAATTGAAAATACCTCAACGTGT-CTCGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCT-GAGGCTCAACTCACCTCTCGCAATATG
*
6248339 AGTTGATTTCT
65 AGTTGATTTTT
* * * * * **
6248350 TTGAAAAACAAAAATTGAAAATATCTCAGCATGTCTTGAGGCCCAACTCATTTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
6248415 GTTGA--ATT
66 GTTGATTTTT
* *
6248423 TTG-AAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCA
6248472 TTTTGAACAG
Statistics
Matches: 241, Mismatches: 27, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
72 41 0.17
73 4 0.02
74 43 0.18
75 124 0.51
76 26 0.11
77 3 0.01
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (75 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTT
Found at i:6248504 original size:49 final size:49
Alignment explanation
Indices: 6248428--6248523 Score: 174
Period size: 49 Copynumber: 2.0 Consensus size: 49
6248418 GAATTTTGAA
* *
6248428 AACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTTG
1 AACAGAAATTGAAATTAACTCAACGTGTCTTGAGGCTCAACTCATTTTG
6248477 AACAGAAATTGAAATTAACTCAACGTGTCTTGAGGCTCAACTCATTT
1 AACAGAAATTGAAATTAACTCAACGTGTCTTGAGGCTCAACTCATTT
6248524 CTCGCAATAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (49 bp):
AACAGAAATTGAAATTAACTCAACGTGTCTTGAGGCTCAACTCATTTTG
Found at i:6248521 original size:121 final size:121
Alignment explanation
Indices: 6248356--6248595 Score: 408
Period size: 121 Copynumber: 2.0 Consensus size: 121
6248346 TTCTTTGAAA
* *
6248356 AACAAAAATTGAAAATATCTCAGCATGTCTTGAGGCCCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAAAAATTGAAAATAACTCAACATGTCTTGAGGCCCAACTCATTTCTCGCAATATGAGTTGAA
*
6248421 TTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTTG
66 TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
* * * *
6248477 AACAGAAATTGAAATTAACTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAAAAATTGAAAATAACTCAACATGTCTTGAGGCCCAACTCATTTCTCGCAATATGAGTTGAA
*
6248542 TTTTGAAAATAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
66 TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
6248596 CTCGCAATAT
Statistics
Matches: 111, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
121 111 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.31
Consensus pattern (121 bp):
AACAAAAATTGAAAATAACTCAACATGTCTTGAGGCCCAACTCATTTCTCGCAATATGAGTTGAA
TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
Found at i:6248586 original size:72 final size:72
Alignment explanation
Indices: 6248480--6248617 Score: 267
Period size: 72 Copynumber: 1.9 Consensus size: 72
6248470 CATTTTGAAC
6248480 AGAAATTGAAATTAACTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTT
1 AGAAATTGAAATTAACTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTT
6248545 TGAAAAT
66 TGAAAAT
*
6248552 AGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTT
1 AGAAATTGAAATTAACTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTT
6248617 T
66 T
6248618 TTTTTTGAAA
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
72 65 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Consensus pattern (72 bp):
AGAAATTGAAATTAACTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTT
TGAAAAT
Found at i:6248719 original size:202 final size:202
Alignment explanation
Indices: 6248281--6248875 Score: 922
Period size: 202 Copynumber: 3.0 Consensus size: 202
6248271 TTTTTTGAAA
* * **
6248281 AACAGAAATTGAAAATACCTCAACGTGTCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-
* * * * * * *
6248346 TTCTTTGAAAAACAAAAATTGAAAATATCTCAGCATGTCTTGAGGCCCAACTCATTTCTCGCAAT
65 AT-TTTG-AAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAAT
* * *
6248411 ATGAGTTGAA------TTTTGAAA-ACAGAAATTGAAATTACCTCAGC--GT-GTCTTGAGGCTC
128 ATGAGTTGAATTTTTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCATGTGGAC-CGAGGCTC
6248466 AACTCATTTTG
192 AACTCATTTTG
*
6248477 AACAGAAATTGAAATTAACTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
*
6248542 TTTTGAAAATAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
66 TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
6248607 AGTTGAATTTTTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCATGTGGACCGAGGCTCAACT
131 AGTTGAATTTTTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCATGTGGACCGAGGCTCAACT
6248672 CATTTTG
196 CATTTTG
*
6248679 AACAGAAATTGAAATTACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
6248744 TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
66 TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
*
6248809 AGTTGAATTTTTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACT
131 AGTTGAATTTTTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCATGTGGACCGAGGCTCAACT
6248874 CA
196 CA
6248876 CCTCTCGCAA
Statistics
Matches: 369, Mismatches: 20, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
193 60 0.16
194 4 0.01
195 1 0.00
196 59 0.16
199 8 0.02
200 22 0.06
202 213 0.58
203 2 0.01
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.31
Consensus pattern (202 bp):
AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
AGTTGAATTTTTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCATGTGGACCGAGGCTCAACT
CATTTTG
Found at i:6248724 original size:49 final size:50
Alignment explanation
Indices: 6248629--6248725 Score: 135
Period size: 49 Copynumber: 1.9 Consensus size: 50
6248619 TTTTTGAAAG
6248629 ACAGAAATTGAAAATACCTCAGCATGTGGACCGAGGCTCAACTCATTTTGA
1 ACAGAAATTGAAAATACCTCA-CATGTGGACCGAGGCTCAACTCATTTTGA
* * *
6248680 ACAGAAATTGAAATTACCTCA-ATGT-GTCTTGAGGCTCAACTCATTT
1 ACAGAAATTGAAAATACCTCACATGTGGAC-CGAGGCTCAACTCATTT
6248726 CTCGCAATAT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
48 2 0.05
49 20 0.48
51 20 0.48
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.28
Consensus pattern (50 bp):
ACAGAAATTGAAAATACCTCACATGTGGACCGAGGCTCAACTCATTTTGA
Found at i:6248766 original size:72 final size:72
Alignment explanation
Indices: 6248679--6248904 Score: 285
Period size: 72 Copynumber: 3.0 Consensus size: 72
6248669 ACTCATTTTG
6248679 AACAGAAATTGAAATTACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
6248744 TTTTGAA
66 TTTTGAA
*
6248751 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
6248816 TTTTTTTTTTGAA
66 ------TTTTGAA
* * * ** *
6248829 AGACAGAAATTGAAAATACCTCAGCATGTGAAC-CGAGGCTCAACTCACCTCTCGCAATATGAGC
1 A-ACAGAAATTGAAATTACCTCA--ATGTG-TCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
6248893 TG-ATTTTGAA
62 TGAATTTTGAA
6248903 AA
1 AA
6248905 AGTAGAAATT
Statistics
Matches: 136, Mismatches: 8, Indels: 19
0.83 0.05 0.12
Matches are distributed among these distances:
72 64 0.47
73 1 0.01
74 8 0.06
78 8 0.06
79 20 0.15
80 1 0.01
81 33 0.24
82 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.31
Consensus pattern (72 bp):
AACAGAAATTGAAATTACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
TTTTGAA
Found at i:6248968 original size:54 final size:54
Alignment explanation
Indices: 6248868--6248973 Score: 144
Period size: 54 Copynumber: 1.9 Consensus size: 54
6248858 GAACCGAGGC
*
6248868 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* *
6248922 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAATAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
6248974 CAGAAATTGA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
54 33 0.72
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:6249098 original size:72 final size:71
Alignment explanation
Indices: 6248964--6249129 Score: 244
Period size: 72 Copynumber: 2.3 Consensus size: 71
6248954 TGAATAACGT
* * * *
6248964 AAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
1 AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
6249029 GAGTTG
66 GAGTTG
*
6249035 AAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATA
1 AAATTAAAA-ACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATA
6249100 TGAGTTG
65 TGAGTTG
**
6249107 ATTTTGAAAAACAAAAATT-AAAA
1 AAATT-AAAAACAAAAATTGAAAA
6249130 GGCTTAACTC
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
71 12 0.14
72 70 0.81
73 4 0.05
ACGTcount: A:0.42, C:0.21, G:0.15, T:0.22
Consensus pattern (71 bp):
AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
GAGTTG
Found at i:6249224 original size:122 final size:124
Alignment explanation
Indices: 6249004--6249250 Score: 374
Period size: 122 Copynumber: 2.0 Consensus size: 124
6248994 GCGTGACCTG
* *
6249004 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGCG
*
6249069 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
66 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTAATTTTG-AAAACAAAAATTAAA
* * * *
6249129 AGGCTTAACTCACCTCTCGCAATATGAG-T-CAATTTAAA-ACATAAACTAAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGCG
* **
6249191 TGCCCCGAGGCTCAACTCACTTCTCTCAATATGAGTTAATTTTGAAAACAAAAATTAAA
66 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTAATTTTGAAAACAAAAATTAAA
6249250 A
1 A
6249251 ATACCTCAAC
Statistics
Matches: 112, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
121 16 0.14
122 61 0.54
123 7 0.06
124 1 0.01
125 27 0.24
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.25
Consensus pattern (124 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGCG
TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTAATTTTGAAAACAAAAATTAAA
Found at i:6249258 original size:71 final size:70
Alignment explanation
Indices: 6249129--6249304 Score: 212
Period size: 71 Copynumber: 2.5 Consensus size: 70
6249119 AAAAATTAAA
* * * * * *
6249129 AGGCTTAACTCACCTCTCGCAATATGAGTCAA-TTTAAAACATAAACTAAAAATACCTCAGCGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTAATTTTAAAACAAAAACTAAAAATACCTCAACCTG
6249193 CCCCG
66 CCCCG
* *
6249198 AGGCTCAACTCACTTCTCTCAATATGAGTTAATTTTGAAAACAAAAATTAAAAATACCTCAACCT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTAATTTT-AAAACAAAAACTAAAAATACCTCAACCT
* **
6249263 GTCTTG
65 GCCCCG
*
6249269 AGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTAATTTT
6249305 CCTTGAAAAG
Statistics
Matches: 91, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
69 28 0.31
70 4 0.04
71 59 0.65
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.29
Consensus pattern (70 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTAATTTTAAAACAAAAACTAAAAATACCTCAACCTG
CCCCG
Found at i:6256019 original size:4 final size:4
Alignment explanation
Indices: 6256010--6256050 Score: 55
Period size: 4 Copynumber: 10.2 Consensus size: 4
6256000 TGGAATATGC
* * *
6256010 AATG AATG AATG AATG CATA AATG AATG CATG AATG AATG A
1 AATG AATG AATG AATG AATG AATG AATG AATG AATG AATG A
6256051 CTTTAGTCAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.49, C:0.05, G:0.22, T:0.24
Consensus pattern (4 bp):
AATG
Found at i:6257754 original size:2 final size:2
Alignment explanation
Indices: 6257749--6257774 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6257739 AAAATACTAA
6257749 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
6257775 GCATAATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6265396 original size:2 final size:2
Alignment explanation
Indices: 6265391--6265447 Score: 57
Period size: 2 Copynumber: 30.0 Consensus size: 2
6265381 AACTAATGGC
* * *
6265391 AT AT AT AC AT A- AT AT AT AT AT A- AT AC AC AT A- AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
6265430 AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT
6265448 TAGAAATGAT
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
1 3 0.07
2 43 0.93
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (2 bp):
AT
Found at i:6265997 original size:11 final size:11
Alignment explanation
Indices: 6265968--6266015 Score: 53
Period size: 11 Copynumber: 4.2 Consensus size: 11
6265958 AAAAAAGGAA
6265968 GAGAGAGAAGAG
1 GAGAGAGAAG-G
6265980 AGAAGAGAGAAGG
1 -G-AGAGAGAAGG
6265993 GAGAGAGAAGG
1 GAGAGAGAAGG
*
6266004 GAG-GGGAAGG
1 GAGAGAGAAGG
6266014 GA
1 GA
6266016 AATCCGGTCG
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
10 8 0.24
11 13 0.39
12 1 0.03
13 2 0.06
14 9 0.27
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (11 bp):
GAGAGAGAAGG
Found at i:6266308 original size:14 final size:14
Alignment explanation
Indices: 6266273--6266312 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
6266263 TTTTTTTTGG
6266273 TTTTTTTTGCTGAAAA
1 TTTTTTTTG--GAAAA
*
6266289 TTTTTTTTGGAAAT
1 TTTTTTTTGGAAAA
6266303 TTTTTTTTGG
1 TTTTTTTTGG
6266313 TGCTGGAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 14 0.61
16 9 0.39
ACGTcount: A:0.17, C:0.03, G:0.15, T:0.65
Consensus pattern (14 bp):
TTTTTTTTGGAAAA
Found at i:6266310 original size:33 final size:31
Alignment explanation
Indices: 6266273--6266343 Score: 72
Period size: 33 Copynumber: 2.2 Consensus size: 31
6266263 TTTTTTTTGG
*
6266273 TTTTTTTTGCTGAAAATTTTTT-TTGGAAATTTT
1 TTTTTTTTGCTG-AAATTTTTTGCTGG--ATTTT
** *
6266306 TTTTTGGTGCTGGAATTTTTTGCTGGATTTT
1 TTTTTTTTGCTGAAATTTTTTGCTGGATTTT
6266337 TTTTTTT
1 TTTTTTT
6266344 CTTCCCCTCT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
31 10 0.32
32 8 0.26
33 13 0.42
ACGTcount: A:0.14, C:0.04, G:0.17, T:0.65
Consensus pattern (31 bp):
TTTTTTTTGCTGAAATTTTTTGCTGGATTTT
Found at i:6266693 original size:35 final size:35
Alignment explanation
Indices: 6266653--6266758 Score: 194
Period size: 35 Copynumber: 3.0 Consensus size: 35
6266643 GGGGTGTGTG
*
6266653 ATGGTGCTGGCGGCAGACAGCATGGGAGAGTGGGA
1 ATGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
*
6266688 GTGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
1 ATGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
6266723 ATGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
1 ATGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
6266758 A
1 A
6266759 GAGGCAAGTG
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 68 1.00
ACGTcount: A:0.23, C:0.12, G:0.49, T:0.16
Consensus pattern (35 bp):
ATGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
Found at i:6267533 original size:46 final size:46
Alignment explanation
Indices: 6267474--6267562 Score: 124
Period size: 46 Copynumber: 1.9 Consensus size: 46
6267464 AGTGGGAAGA
** * *
6267474 TACAAATCCTATACCTTTGAGCTGCAGTAGGATGGATTGAAGATGG
1 TACAAATCCTATACCCCTGAGCTGCAGGAGGATGGATGGAAGATGG
* *
6267520 TACAAATCCTATACCCCTGAGTTGCAGGGGGATGGATGGAAGA
1 TACAAATCCTATACCCCTGAGCTGCAGGAGGATGGATGGAAGA
6267563 AACCACAAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (46 bp):
TACAAATCCTATACCCCTGAGCTGCAGGAGGATGGATGGAAGATGG
Found at i:6267571 original size:46 final size:46
Alignment explanation
Indices: 6267475--6267572 Score: 106
Period size: 46 Copynumber: 2.1 Consensus size: 46
6267465 GTGGGAAGAT
** * * ****
6267475 ACAAATCCTATACCTTTGAGCTGCAGTAGGATGGATTGAAGATGGT
1 ACAAATCCTATACCCCTGAGCTGCAGGAGGATGGATGGAAGAAACC
* *
6267521 ACAAATCCTATACCCCTGAGTTGCAGGGGGATGGATGGAAGAAACC
1 ACAAATCCTATACCCCTGAGCTGCAGGAGGATGGATGGAAGAAACC
6267567 ACAAAT
1 ACAAAT
6267573 TTTATCTCCC
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.22
Consensus pattern (46 bp):
ACAAATCCTATACCCCTGAGCTGCAGGAGGATGGATGGAAGAAACC
Found at i:6268681 original size:20 final size:20
Alignment explanation
Indices: 6268653--6268690 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6268643 GAAAGGTTTC
*
6268653 TTAGGTTTTGGGGGGTTTTT
1 TTAGGTTTTCGGGGGTTTTT
*
6268673 TTAGTTTTTCGGGGGTTT
1 TTAGGTTTTCGGGGGTTT
6268691 CGATATCGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.05, C:0.03, G:0.37, T:0.55
Consensus pattern (20 bp):
TTAGGTTTTCGGGGGTTTTT
Found at i:6270010 original size:2 final size:2
Alignment explanation
Indices: 6270003--6270031 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
6269993 TTTCATCTCA
6270003 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6270032 TCATTTCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:6275104 original size:28 final size:29
Alignment explanation
Indices: 6275050--6275112 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
6275040 AAATGCATCC
*
6275050 AAAAAGAAAAACAAAAGTAGAAAAATAGA
1 AAAAAGAAAAACAAAAGCAGAAAAATAGA
** *
6275079 AAAAAGAAAAGGAAAAGCA-AACAATAGA
1 AAAAAGAAAAACAAAAGCAGAAAAATAGA
*
6275107 ACAAAG
1 AAAAAG
6275113 GTCATAGTGA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 13 0.45
29 16 0.55
ACGTcount: A:0.73, C:0.06, G:0.16, T:0.05
Consensus pattern (29 bp):
AAAAAGAAAAACAAAAGCAGAAAAATAGA
Found at i:6277060 original size:64 final size:64
Alignment explanation
Indices: 6276805--6277056 Score: 346
Period size: 64 Copynumber: 3.9 Consensus size: 64
6276795 TCATTCATAA
*
6276805 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATGTGACA-ACAACAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATA-AACAT
* * * * *
6276869 TACATCTAATTAGGAGCACTTGGTTCATTTTGATCATAGCATCCTAATTATTTGACATAAACAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAACAT
* * * *
6276933 CACATCTAGTTAGGAGCATTTCATTCATTTCGATCATAGCATCCAAATTATTTGACATCAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAACAT
* * * *
6276997 CACATCTAGTTAGGAGTATTTGATTCATGTT-AATCATAGCATTCTAATTATTTGGCATAA
1 CACATCTAGTTAGGAGCATTTGATTCAT-TTCGATCATAGCATCCTAATTATTTGACATAA
6277057 GCATGATACA
Statistics
Matches: 164, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
64 161 0.98
65 3 0.02
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.36
Consensus pattern (64 bp):
CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAACAT
Found at i:6277507 original size:43 final size:43
Alignment explanation
Indices: 6277460--6277557 Score: 99
Period size: 43 Copynumber: 2.3 Consensus size: 43
6277450 ATTGGCAATG
**
6277460 GAGCAGATTTTACAACT-AGCCTTATCTCTCTGAGGTAGCAAGA
1 GAGCAGATTGAACAA-TGAGCCTTATCTCTCTGAGGTAGCAAGA
* * * * *
6277503 GAGCAGGTTGAAGAATGAGTCTTATCTTTCTGGGGTAGCAAGA
1 GAGCAGATTGAACAATGAGCCTTATCTCTCTGAGGTAGCAAGA
* *
6277546 AAGCAGACTGAA
1 GAGCAGATTGAA
6277558 AATTGAAGAT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
42 1 0.02
43 43 0.98
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.26
Consensus pattern (43 bp):
GAGCAGATTGAACAATGAGCCTTATCTCTCTGAGGTAGCAAGA
Found at i:6277639 original size:176 final size:175
Alignment explanation
Indices: 6277218--6277820 Score: 798
Period size: 176 Copynumber: 3.4 Consensus size: 175
6277208 GTGACAGGTT
* * **
6277218 TTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACAGTGAATCTTATCTCCATGTATCGGCAA
1 TTATCTCCCT-AAGTAGCAGTGGAGCAAATCGAAGATGGTGAATCTTATCTCCATGTATCGGCAA
* * * ** *
6277283 TGGAGTAGATTTTACCACT-GACCTTATCTCTCTGTGGTAACAAGAGAGCAGGTTGGCGATTGTA
65 TGGAGCAGATTTTACCACTAG-CCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATG-A
* * ** *
6277347 GTCTTTTCTTCCTGATGTAGCAAGGAAGCAGACTGAAGATTGAAGATC
128 GTCTTATCTTTCTGGGGTAGCAAGAAAGCAGACTGAAGATTGAAGATC
* * * *
6277395 -TATTTCCCTAAGTAGTAGTGGAGCAAATCGAAGATGGTGAATTTTATCTCCATGTATTGGCAAT
1 TTATCTCCCTAAGTAGCAGTGGAGCAAATCGAAGATGGTGAATCTTATCTCCATGTATCGGCAAT
*
6277459 GGAGCAGATTTTACAACTAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATGAGTC
66 GGAGCAGATTTTACCACTAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATGAGTC
*
6277524 TTATCTTTCTGGGGTAGCAAGAAAGCAGACTGAAAATTGAAGATC
131 TTATCTTTCTGGGGTAGCAAGAAAGCAGACTGAAGATTGAAGATC
* * * *
6277569 TTATCTCCCTGAAGTTGCAGTGGGGCAGATCGAAGATGGTGAATCTTATCTCCATATATCGGCAA
1 TTATCTCCCT-AAGTAGCAGTGGAGCAAATCGAAGATGGTGAATCTTATCTCCATGTATCGGCAA
* ** *
6277634 TGGAGCAGATCTTACCA-TCAGTTTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTAAAGAATGAG
65 TGGAGCAGATTTTACCACT-AGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATGAG
* * *
6277698 TTTTATCTTTCTAGGGTAGCAAGAAAGCAGACTGAGGATTGAAGATC
129 TCTTATCTTTCTGGGGTAGCAAGAAAGCAGACTGAAGATTGAAGATC
* * * ** *
6277745 TTATCTCCCTAAGCAGTAGTGGAGCAAATCGAGGATGACGAATCTTATCTCCATGTATTGGCAAT
1 TTATCTCCCTAAGTAGCAGTGGAGCAAATCGAAGATGGTGAATCTTATCTCCATGTATCGGCAAT
6277810 GGAGCAGATTT
66 GGAGCAGATTT
6277821 AAGTCACCAG
Statistics
Matches: 373, Mismatches: 49, Indels: 10
0.86 0.11 0.02
Matches are distributed among these distances:
174 43 0.12
175 164 0.44
176 166 0.45
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (175 bp):
TTATCTCCCTAAGTAGCAGTGGAGCAAATCGAAGATGGTGAATCTTATCTCCATGTATCGGCAAT
GGAGCAGATTTTACCACTAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATGAGTC
TTATCTTTCTGGGGTAGCAAGAAAGCAGACTGAAGATTGAAGATC
Found at i:6280453 original size:32 final size:32
Alignment explanation
Indices: 6280417--6280481 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
6280407 TGTATGCATT
6280417 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
6280449 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
6280481 T
1 T
6280482 GGTAAGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:6281992 original size:26 final size:26
Alignment explanation
Indices: 6281963--6282015 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
6281953 TTTACAATTT
*
6281963 TACCCTTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
6281989 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
6282015 T
1 T
6282016 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:6284224 original size:3 final size:3
Alignment explanation
Indices: 6284216--6284279 Score: 128
Period size: 3 Copynumber: 21.3 Consensus size: 3
6284206 TAATCATCTC
6284216 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
6284264 ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT A
6284280 ATTTTAAATT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:6284539 original size:3 final size:3
Alignment explanation
Indices: 6284531--6284643 Score: 140
Period size: 3 Copynumber: 38.0 Consensus size: 3
6284521 CCAAGTTTAG
6284531 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
6284579 ATT ATT ATT AGTT -TT ATT TTT ATT TTT ATT TTT ATT -TT ATT ATT
1 ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
6284623 AAT ATC ATC ATC ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT
6284644 GATATTATGA
Statistics
Matches: 97, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
2 4 0.04
3 91 0.94
4 2 0.02
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:6286535 original size:21 final size:21
Alignment explanation
Indices: 6286509--6286551 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
6286499 TTAATAAAAC
* *
6286509 ATTTTGGTTTACTAAAAAATG
1 ATTTTGGTCTACGAAAAAATG
*
6286530 ATTTTGGTCTACGAAAATATG
1 ATTTTGGTCTACGAAAAAATG
6286551 A
1 A
6286552 GAAAATAGGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.07, G:0.16, T:0.40
Consensus pattern (21 bp):
ATTTTGGTCTACGAAAAAATG
Found at i:6287478 original size:19 final size:19
Alignment explanation
Indices: 6287454--6287491 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
6287444 GAAATGAATA
*
6287454 ATTTCAGGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
6287473 ATTTCAAGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
6287492 GCAATCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.32
Consensus pattern (19 bp):
ATTTCAAGCAAATAGGTTG
Found at i:6288688 original size:8 final size:8
Alignment explanation
Indices: 6288660--6288698 Score: 51
Period size: 8 Copynumber: 4.6 Consensus size: 8
6288650 AGAGGTTAGG
*
6288660 TTTTTTTC
1 TTTTTTTA
6288668 TTTTTCTTCA
1 TTTTT-TT-A
6288678 TTTTTTTA
1 TTTTTTTA
6288686 TTTTTTTA
1 TTTTTTTA
6288694 TTTTT
1 TTTTT
6288699 ATTTTGGGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
8 19 0.68
9 4 0.14
10 5 0.18
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.85
Consensus pattern (8 bp):
TTTTTTTA
Found at i:6289056 original size:44 final size:44
Alignment explanation
Indices: 6288989--6290091 Score: 1559
Period size: 44 Copynumber: 25.4 Consensus size: 44
6288979 CCCCGTCTAA
*
6288989 TACAGAGATGCCAAATCCGTTATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * * *
6289033 TATAAAGACGCCAAATCTATTATCTTC-ATCTGCTCTCCGCCGC
1 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
6289076 TACAGAGATGCCAAATC---TATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * *
6289117 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTTCACCGC
1 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * *
6289161 TACAGAGACGCCAAAT-TGTTATCTTCGATCTGCTCTCCGCTGT
1 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * *
6289204 TACAAAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCACCGT
1 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* ** * * **
6289248 TATAGAGACACCAAATCTGTTACCTTCAATCTGCTCTCTACCGC
1 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
** * * *
6289292 TACAGAGATATCAAATCTGTTATCTTTGATTTGCTTTCCGCCGC
1 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
6289336 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
6289380 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * *
6289424 TATAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCGC
1 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
6289468 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
*
6289512 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCTGC
1 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
*
6289556 TACAGAGATGCCAAATC----ATCTTCGATCTGCTCTCCGCCAC
1 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
*
6289596 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCGC
1 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * *
6289640 TATAGGGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCAGC
1 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
6289684 TATAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
6289728 TACAGAGATGCCAAATCTGTTATCTTCGATCTGTTCTCTGCCGC
1 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
6289772 TACAGAGATGCCAAATC----ATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * *
6289812 TATAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCACCGT
1 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * *
6289856 TACAGAGACGCCAAATCTGTTATCTTCGACCTGCTCTTCGCCGC
1 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
6289900 TACAGAGACGCCAAATCTGTTATCTTCGACCTGCTCTCCGCCGC
1 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * *** *
6289944 TACAGAGACGTCAAATCTGTTATCTTCGATCTGCTCTCTATCAC
1 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
6289988 TACAGAGATGCCAAATCTGCTATC-TCGATCTGCTCTCTGCCGC
1 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
** * *
6290031 TACAGAGACACCAAATCTGTTATCTTCAATCTGCTCTCTGCCGC
1 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
6290075 TACAAAGACGCCAAATC
1 TACAGAGATGCCAAATC
6290092 ATCTTGGATT
Statistics
Matches: 951, Mismatches: 94, Indels: 28
0.89 0.09 0.03
Matches are distributed among these distances:
40 82 0.09
41 32 0.03
43 104 0.11
44 733 0.77
ACGTcount: A:0.22, C:0.31, G:0.17, T:0.30
Consensus pattern (44 bp):
TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
Found at i:6289676 original size:216 final size:216
Alignment explanation
Indices: 6288989--6290091 Score: 1552
Period size: 216 Copynumber: 5.1 Consensus size: 216
6288979 CCCCGTCTAA
* * *
6288989 TACAGAGATGCCAAATCCGTTATCTTCGATCTGCTCTCCGCCGCTATAAAGACGCCAAATCTATT
1 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTATAGAGACGCCAAATCTGTT
6289054 ATCTTC-ATCTGCTCTCCGCCGCTACAGAGATGCCAAATC---TATCTTCGATCTGCTCTCCGCC
66 ATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCC
* * * *
6289115 GCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTTCACCGCTACAGAGACGCCAAAT-TG
131 GCTACAGAGATGCCAAATC----ATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTG
* *
6289179 TTATCTTCGATCTGCTCTCCGCTGT
192 TTATCTTCGATCTGCTCTCCGCCGC
* * * *
6289204 TACAAAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCACCGTTATAGAGACACCAAATCTGTT
1 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTATAGAGACGCCAAATCTGTT
* * ** ** * * *
6289269 ACCTTCAATCTGCTCTCTACCGCTACAGAGATATCAAATCTGTTATCTTTGATTTGCTTTCCGCC
66 ATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCC
6289334 GCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTG
131 GCTACAGAGATGCCAAATC----ATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTG
6289399 TTATCTTCGATCTGCTCTCCGCCGC
192 TTATCTTCGATCTGCTCTCCGCCGC
* * * * *
6289424 TATAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCGCTACAGAGATGCCAAATCTGTT
1 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTATAGAGACGCCAAATCTGTT
*
6289489 ATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCT
66 ATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCC
*
6289554 GCTACAGAGATGCCAAATCATCTTCGATCTGCTCTCCGCCACTACAGAGATGCCAAATCTGTTAT
131 GCTACAGAGATGCCAAATCATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTAT
*
6289619 CTTCGATCTGCTCTCTGCCGC
196 CTTCGATCTGCTCTCCGCCGC
* * *
6289640 TATAGGGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCAGCTATAGAGACGCCAAATCTGTT
1 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTATAGAGACGCCAAATCTGTT
* *
6289705 ATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGTTCTCTGCC
66 ATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCC
*
6289770 GCTACAGAGATGCCAAATCATCTTCGATCTGCTCTCCGCCGCTATAGAGATGCCAAATCTGTTAT
131 GCTACAGAGATGCCAAATCATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTAT
* *
6289835 CTTCGATCTGCTCTCCACCGT
196 CTTCGATCTGCTCTCCGCCGC
* * * *
6289856 TACAGAGACGCCAAATCTGTTATCTTCGACCTGCTCTTCGCCGCTACAGAGACGCCAAATCTGTT
1 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTATAGAGACGCCAAATCTGTT
* * * ***
6289921 ATCTTCGACCTGCTCTCCGCCGCTACAGAGACGTCAAATCTGTTATCTTCGATCTGCTCTCTATC
66 ATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCC
* * **
6289986 ACTACAGAGATGCCAAATC-TGCTATCTCGATCTGCTCTCTGCCGCTACAGAGACACCAAATCTG
131 GCTACAGAGATGCCAAATCAT-C--T-TCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTG
* *
6290050 TTATCTTCAATCTGCTCTCTGCCGC
192 TTATCTTCGATCTGCTCTCCGCCGC
* *
6290075 TACAAAGACGCCAAATC
1 TACAGAGATGCCAAATC
6290092 ATCTTGGATT
Statistics
Matches: 800, Mismatches: 79, Indels: 14
0.90 0.09 0.02
Matches are distributed among these distances:
215 64 0.08
216 432 0.54
218 1 0.00
219 148 0.19
220 155 0.19
ACGTcount: A:0.22, C:0.31, G:0.17, T:0.30
Consensus pattern (216 bp):
TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTATAGAGACGCCAAATCTGTT
ATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCC
GCTACAGAGATGCCAAATCATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTAT
CTTCGATCTGCTCTCCGCCGC
Found at i:6290196 original size:88 final size:88
Alignment explanation
Indices: 6290053--6290276 Score: 342
Period size: 88 Copynumber: 2.6 Consensus size: 88
6290043 AAATCTGTTA
* * * * * * * *
6290053 TCTTCAATCTGCTCTCTGCC-GCTACAAAGACGCCAAATCATCTTGGATTTGCTTCAATGTAAAC
1 TCTTCGATCTGCTCCCTGCCTGATACAGAGATGCCAAATCATCTTGGATCTACTTCAACGTAAAC
6290117 ACGTGAAAGCCAAATCAGCTATG
66 ACGTGAAAGCCAAATCAGCTATG
6290140 TCTTCGATCTGCTCCCTGCCTGATACAGAGATGCCAAATCATCTTGGATCTACTTCAACGTAAAC
1 TCTTCGATCTGCTCCCTGCCTGATACAGAGATGCCAAATCATCTTGGATCTACTTCAACGTAAAC
6290205 ACGTGAAAGCCAAATCAGCTATG
66 ACGTGAAAGCCAAATCAGCTATG
** *
6290228 TCTTCGATCTGCTCCCCACCTGATACAGAAATGCCAAATCATCTTGGAT
1 TCTTCGATCTGCTCCCTGCCTGATACAGAGATGCCAAATCATCTTGGAT
6290277 ATCTTCAGCT
Statistics
Matches: 125, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
87 18 0.14
88 107 0.86
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (88 bp):
TCTTCGATCTGCTCCCTGCCTGATACAGAGATGCCAAATCATCTTGGATCTACTTCAACGTAAAC
ACGTGAAAGCCAAATCAGCTATG
Found at i:6290267 original size:47 final size:46
Alignment explanation
Indices: 6290121--6290268 Score: 114
Period size: 47 Copynumber: 3.3 Consensus size: 46
6290111 GTAAACACGT
**
6290121 GAAAGCCAAATCAGCTATGTCTTCGATCTGCTCCCTGCCTGATACA
1 GAAAGCCAAATCAGCTATGTCTTCGATCTGCTCCCAACCTGATACA
* * * * * *
6290167 GAGATGCCAAAT---C-A--TCTTGGATCTACT-TCAACGT-AAACA
1 GA-AAGCCAAATCAGCTATGTCTTCGATCTGCTCCCAACCTGATACA
*
6290206 CGTGAAAGCCAAATCAGCTATGTCTTCGATCTGCTCCCCACCTGATACA
1 ---GAAAGCCAAATCAGCTATGTCTTCGATCTGCTCCCAACCTGATACA
6290255 GAAATGCCAAATCA
1 GAAA-GCCAAATCA
6290269 TCTTGGATAT
Statistics
Matches: 74, Mismatches: 15, Indels: 25
0.65 0.13 0.22
Matches are distributed among these distances:
39 4 0.05
40 3 0.04
41 19 0.26
42 2 0.03
43 1 0.01
44 2 0.03
45 1 0.01
46 6 0.08
47 28 0.38
48 4 0.05
49 4 0.05
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.24
Consensus pattern (46 bp):
GAAAGCCAAATCAGCTATGTCTTCGATCTGCTCCCAACCTGATACA
Found at i:6290502 original size:61 final size:64
Alignment explanation
Indices: 6290384--6290506 Score: 191
Period size: 61 Copynumber: 2.0 Consensus size: 64
6290374 TCATGTATCC
6290384 ATGCTTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTG
1 ATGCTTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTG
* *
6290448 ATGCTTTATGTCAAATAATTAGGATG-T-T-A-TGAAATGAATCAAATGTTCCTAACTAAATG
1 ATGC-TTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATG
6290507 AATGGTTACG
Statistics
Matches: 56, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
61 29 0.52
62 1 0.02
63 1 0.02
64 5 0.09
65 20 0.36
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.33
Consensus pattern (64 bp):
ATGCTTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTG
Found at i:6302408 original size:19 final size:19
Alignment explanation
Indices: 6302384--6302421 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
6302374 GAAATGAATA
*
6302384 ATTTCAGGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
6302403 ATTTCAAGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
6302422 GCAATCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.32
Consensus pattern (19 bp):
ATTTCAAGCAAATAGGTTG
Found at i:6303627 original size:9 final size:8
Alignment explanation
Indices: 6303597--6303641 Score: 56
Period size: 8 Copynumber: 5.5 Consensus size: 8
6303587 AGAGGTTAGG
*
6303597 TTTTTTTC
1 TTTTTTTA
6303605 TTTTTCTTCA
1 TTTTT-TT-A
6303615 TTTTTTTA
1 TTTTTTTA
6303623 TTTTTTTA
1 TTTTTTTA
6303631 -TTTTTTA
1 TTTTTTTA
6303638 TTTT
1 TTTT
6303642 GGGTTGTATT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
7 7 0.21
8 17 0.52
9 4 0.12
10 5 0.15
ACGTcount: A:0.09, C:0.07, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTTTTTA
Found at i:6303893 original size:25 final size:25
Alignment explanation
Indices: 6303865--6303919 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
6303855 TTGAAGCAAT
*
6303865 CAAGAAACTTATAGGAAGGATAAAG
1 CAAGAAACTTATAGAAAGGATAAAG
* *
6303890 CAAGAAACTTGTAGAAAGGATATAG
1 CAAGAAACTTATAGAAAGGATAAAG
6303915 CAAGA
1 CAAGA
6303920 GGGCTGGAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.51, C:0.09, G:0.24, T:0.16
Consensus pattern (25 bp):
CAAGAAACTTATAGAAAGGATAAAG
Found at i:6305199 original size:2 final size:2
Alignment explanation
Indices: 6305192--6305222 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
6305182 TTGGTATCAA
*
6305192 AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6305223 CATTTACACT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:6315063 original size:38 final size:38
Alignment explanation
Indices: 6315005--6315081 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
6314995 ATCATCAAGG
* *
6315005 TTGGATCCATTGAGGTGTTTAATTGGGTAGAAAACAAA
1 TTGGATCCATTAAGGCGTTTAATTGGGTAGAAAACAAA
6315043 TTGGATCCATTAAGGCGTTTAATTGGGTAGAAAACAAA
1 TTGGATCCATTAAGGCGTTTAATTGGGTAGAAAACAAA
6315081 T
1 T
6315082 GTTTGAGACC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.35, C:0.09, G:0.25, T:0.31
Consensus pattern (38 bp):
TTGGATCCATTAAGGCGTTTAATTGGGTAGAAAACAAA
Found at i:6320014 original size:192 final size:192
Alignment explanation
Indices: 6319663--6320195 Score: 753
Period size: 192 Copynumber: 2.8 Consensus size: 192
6319653 ATGTGAATAA
* * * * *
6319663 GCCTCCATATGTGTTGATATATTCCATTTCTTTTTGATAGGATTGAAGAGTTTGACAAACTTGAA
1 GCCTTCATATGTGTTGATATATTTCATTGCTTTTGGATAGAATTGAAGAGTTTGACAAACTTGAA
* * *
6319728 GACATTAGATATAAGCAACAATATGATCGTAAGCCTCTACCACTTTGAAGGTATATCTGAATTTG
66 GACATTAGATTTAAGCAACAATAGGATCGTAAGCCTCCACCACTTTGAAGGTATATCTGAATTTG
* * *
6319793 ATATTCTATATACATTTAATTATGTTTTAAGGCGTTAGACTTATAAAGGTATATTTATAAAG
131 ATATTCTATATACATTCAATTAAGTTTTAAGGCATTAGACTTATAAAGGTATATTTATAAAG
* *
6319855 GCCTTCATATGTGTTGATATATTTCATTGCTCTTGGATAGAATTGAAGAGTTTGACAAAGTTGAA
1 GCCTTCATATGTGTTGATATATTTCATTGCTTTTGGATAGAATTGAAGAGTTTGACAAACTTGAA
*
6319920 GACATTAGATTTAAGCTACAATAGGATCGTAAGCCTCCACCACTTTGAAGGTATATCTGAATTTG
66 GACATTAGATTTAAGCAACAATAGGATCGTAAGCCTCCACCACTTTGAAGGTATATCTGAATTTG
* *
6319985 ATATTTTATATGCATTCAATTAAGTTTTAAGGCATTAGACTTATAAAGGTATATTTATAAAG
131 ATATTCTATATACATTCAATTAAGTTTTAAGGCATTAGACTTATAAAGGTATATTTATAAAG
* * *
6320047 GCCTTCATATGTGTTGATATATTTCGTTGCTTTTGAATAGAGTTGAAGAGTTTGACAAACTTGAA
1 GCCTTCATATGTGTTGATATATTTCATTGCTTTTGGATAGAATTGAAGAGTTTGACAAACTTGAA
* * * * * ** * * * * *
6320112 AACGTTAGATTTAAGTCAA-AATAGAACCGAAAGCCTTGAGCACTTTCAAGATATATTTAAATTT
66 GACATTAGATTTAAG-CAACAATAGGATCGTAAGCCTCCACCACTTTGAAGGTATATCTGAATTT
* *
6320176 GATATTCTTTATACAATCAA
130 GATATTCTATATACATTCAA
6320196 CTAAACCCTC
Statistics
Matches: 302, Mismatches: 38, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
192 300 0.99
193 2 0.01
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (192 bp):
GCCTTCATATGTGTTGATATATTTCATTGCTTTTGGATAGAATTGAAGAGTTTGACAAACTTGAA
GACATTAGATTTAAGCAACAATAGGATCGTAAGCCTCCACCACTTTGAAGGTATATCTGAATTTG
ATATTCTATATACATTCAATTAAGTTTTAAGGCATTAGACTTATAAAGGTATATTTATAAAG
Found at i:6320815 original size:28 final size:28
Alignment explanation
Indices: 6320734--6320814 Score: 74
Period size: 28 Copynumber: 2.8 Consensus size: 28
6320724 TTTTTAAAAA
***
6320734 TTTAAGTATTTTTT-AATTTTATTCTAAGT
1 TTTAA-TATTTTTTAAATTTTAAAAT-AGT
* *
6320763 TTTAATATTTTTTTATTTTTAAAATAGT
1 TTTAATATTTTTTAAATTTTAAAATAGT
*
6320791 TTTTATATTTTTTGAAATTTTAAA
1 TTTAATATTTTTT-AAATTTTAAA
6320815 TTTAAAAATT
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
28 23 0.53
29 20 0.47
ACGTcount: A:0.31, C:0.01, G:0.05, T:0.63
Consensus pattern (28 bp):
TTTAATATTTTTTAAATTTTAAAATAGT
Found at i:6333014 original size:21 final size:21
Alignment explanation
Indices: 6332985--6333024 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
6332975 TTGTAATAGT
6332985 CACACGGGCGTGTTGCCCTTC
1 CACACGGGCGTGTTGCCCTTC
*
6333006 CACATGGGCGTGTTGCCCT
1 CACACGGGCGTGTTGCCCT
6333025 GTTTTAAAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.10, C:0.35, G:0.30, T:0.25
Consensus pattern (21 bp):
CACACGGGCGTGTTGCCCTTC
Found at i:6347116 original size:1 final size:1
Alignment explanation
Indices: 6347110--6347145 Score: 72
Period size: 1 Copynumber: 36.0 Consensus size: 1
6347100 TTTAAAACTT
6347110 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
6347146 GAAGAAGAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:6347467 original size:14 final size:14
Alignment explanation
Indices: 6347448--6347493 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
6347438 CCATTGTTGA
6347448 AAATTTTTAAATTT
1 AAATTTTTAAATTT
* **
6347462 AAATTTTGAAAAAT
1 AAATTTTTAAATTT
6347476 AAATTTTTAAATATT
1 AAATTTTTAAAT-TT
6347491 AAA
1 AAA
6347494 ATTCAAAATT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
14 21 0.84
15 4 0.16
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (14 bp):
AAATTTTTAAATTT
Done.