Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold373
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: 3053563
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 18 of 20
Found at i:2606063 original size:42 final size:42
Alignment explanation
Indices: 2606017--2606135 Score: 116
Period size: 42 Copynumber: 2.8 Consensus size: 42
2606007 TTGGGGAAAT
* * *
2606017 CTTTTTGTCCTTTATTGACTTGTCGGTTCAATCTT-GATCAAC
1 CTTTTTATCCTTTGTTGACTTGTCGGTTCAATCTTAGAT-AAA
* * * *
2606059 CTTTTTATCTTTTGTTTACCTGTCGGCTT-AGTCTTAGATAAA
1 CTTTTTATCCTTTGTTGACTTGTCGG-TTCAATCTTAGATAAA
* *
2606101 TTCTTTTATCCTTTGTTGACTTGTCAGTTCAATCT
1 CT-TTTTATCCTTTGTTGACTTGTCGGTTCAATCT
2606136 CAGTCAACTT
Statistics
Matches: 60, Mismatches: 13, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
42 31 0.52
43 29 0.48
ACGTcount: A:0.17, C:0.19, G:0.13, T:0.50
Consensus pattern (42 bp):
CTTTTTATCCTTTGTTGACTTGTCGGTTCAATCTTAGATAAA
Found at i:2606175 original size:169 final size:169
Alignment explanation
Indices: 2605844--2606205 Score: 433
Period size: 169 Copynumber: 2.1 Consensus size: 169
2605834 GACATCGGGT
* * * *
2605844 AAATCCTTTTATCCTTTGTTGACTTGTTAGTTTAATCTCGGTCAACCTTTTTATCCTTTGTTTAC
1 AAATCTTTTTATCCTTTGTTGACTTGTCAGTTCAATCTCGATCAACCTTTTTATCCTTTGTTTAC
* *
2605909 CTGTTGACCTAGTCCCAAGTAAATCCTTTTATCCTTTGTCGACTTGTCAGTTTAACCCTAGTCAA
66 CTGTCGACCTAGTCCCAAGTAAATCCTTTTATCCTTTGTCGACTTGTCAGTTCAACCCTAGTCAA
* ** *
2605974 CTTTTGTGTCCTTTCTTTACCTACGGCTTAGTCTTGGGG
131 CTTTTGTGTCCTTTCTTTACATACAACTTAGTCCTGGGG
* * * * *
2606013 AAATCTTTTTGTCCTTTATTGACTTGTCGGTTCAATCTTGATCAACCTTTTTATCTTTTGTTTAC
1 AAATCTTTTTATCCTTTGTTGACTTGTCAGTTCAATCTCGATCAACCTTTTTATCCTTTGTTTAC
* * ** * * *
2606078 CTGTCGGCTTAGT-CTTAGATAAATTCTTTTATCCTTTGTTGACTTGTCAGTTCAA-TCTCAGTC
66 CTGTCGACCTAGTCCCAAG-TAAATCCTTTTATCCTTTGTCGACTTGTCAGTTCAACCCT-AGTC
* * *
2606141 AACTTTTGTGTCC-TTGTTTACATGTCAACTTAGTCCTGGGT
129 AACTTTTGTGTCCTTTCTTTACAT-ACAACTTAGTCCTGGGG
* *
2606182 AACTCTTTTTATCTTTTGTTGACT
1 AAATCTTTTTATCCTTTGTTGACT
2606206 AGACTGCTTG
Statistics
Matches: 161, Mismatches: 29, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
168 13 0.08
169 148 0.92
ACGTcount: A:0.18, C:0.21, G:0.14, T:0.47
Consensus pattern (169 bp):
AAATCTTTTTATCCTTTGTTGACTTGTCAGTTCAATCTCGATCAACCTTTTTATCCTTTGTTTAC
CTGTCGACCTAGTCCCAAGTAAATCCTTTTATCCTTTGTCGACTTGTCAGTTCAACCCTAGTCAA
CTTTTGTGTCCTTTCTTTACATACAACTTAGTCCTGGGG
Found at i:2606200 original size:84 final size:85
Alignment explanation
Indices: 2605840--2606205 Score: 341
Period size: 85 Copynumber: 4.3 Consensus size: 85
2605830 TTGCGACATC
* * * *
2605840 GGGTAAATCCTTTTATCCTTTGTTGACTTGTTAGTTTAATCTCGGTCAACCTTTTTATCCTTTGT
1 GGGTAAATCTTTTTATCCTTTGTTGACTTGTCAGTTCAATCTCAGTCAACCTTTTTATCCTTTGT
* * *
2605905 TTACCTGTTGACCTAGTCCC
66 TTACCTGTCGACTTAGTCCT
** * * * * *
2605925 AAGTAAATCCTTTTATCCTTTGTCGACTTGTCAGTTTAA-CCCTAGTCAA-CTTTTGTGTCCTTT
1 GGGTAAATCTTTTTATCCTTTGTTGACTTGTCAGTTCAATCTC-AGTCAACCTTTT-TATCCTTT
* * * *
2605988 CTTTACCT-ACGGCTTAGTCTT
64 GTTTACCTGTCGACTTAGTCCT
* * * * * *
2606009 GGGGAAATCTTTTTGTCCTTTATTGACTTGTCGGTTCAATCT-TGATCAACCTTTTTATCTTTTG
1 GGGTAAATCTTTTTATCCTTTGTTGACTTGTCAGTTCAATCTCAG-TCAACCTTTTTATCCTTTG
* *
2606073 TTTACCTGTCGGCTTAGTCTT
65 TTTACCTGTCGACTTAGTCCT
* * *
2606094 AGATAAAT-TCTTTTATCCTTTGTTGACTTGTCAGTTCAATCTCAGTCAA-CTTTTGTGTCC-TT
1 GGGTAAATCT-TTTTATCCTTTGTTGACTTGTCAGTTCAATCTCAGTCAACCTTTT-TATCCTTT
* *
2606156 GTTTACATGTCAACTTAGTCCT
64 GTTTACCTGTCGACTTAGTCCT
* *
2606178 GGGTAACTCTTTTTATCTTTTGTTGACT
1 GGGTAAATCTTTTTATCCTTTGTTGACT
2606206 AGACTGCTTG
Statistics
Matches: 225, Mismatches: 46, Indels: 21
0.77 0.16 0.07
Matches are distributed among these distances:
83 1 0.00
84 109 0.48
85 114 0.51
86 1 0.00
ACGTcount: A:0.18, C:0.21, G:0.15, T:0.46
Consensus pattern (85 bp):
GGGTAAATCTTTTTATCCTTTGTTGACTTGTCAGTTCAATCTCAGTCAACCTTTTTATCCTTTGT
TTACCTGTCGACTTAGTCCT
Found at i:2607418 original size:167 final size:164
Alignment explanation
Indices: 2607231--2607535 Score: 370
Period size: 167 Copynumber: 1.8 Consensus size: 164
2607221 GATTTGCACG
* *
2607231 GGTTTATAAATTTTAAAATTCAACAAAGATTATTATTTAACTTACA-A-TAAATCAGTTTCAAAA
1 GGTTTATAAATTTTAAAATTCAACAAAGATCATCATTTAA-TT-CATATTAAATCAGTTTCAAAA
* *** * *
2607294 AATTTCTTATTATTTCCTTTA-TTTTCCTTATTTTCCTTGAAATTTTTTCTATTTTC-AAAATA-
64 AA-TTATT-TTATTTCCAAGAGTTTTCATT-TTTTCCTTGAAA-TTTATCTATTTTCGAAAA-AC
2607356 TGAGGTTTTCTATTCTATAACTATTTTTTGGGGGATTTTCAT
124 TGA-GTTTTCTATTCTATAACTATTTTTTGGGGGATTTTCAT
* * *
2607398 GGTTTAT-AATTTTCAAAATTCATCAAATATCATCATTTAATTCATATTAAATCAGTTTTAAAAA
1 GGTTTATAAATTTT-AAAATTCAACAAAGATCATCATTTAATTCATATTAAATCAGTTTCAAAAA
*
2607462 ATTATTTTATTTTCAAGAGTTTTTCATTTTTTCCTTGAAATTTATCTATTTTCGAAAAACTGAGT
65 ATTATTTTATTTCCAAGAG-TTTTCATTTTTTCCTTGAAATTTATCTATTTTCGAAAAACTGAGT
2607527 TTTCTATTC
129 TTTCTATTC
2607536 CAATAAGGTT
Statistics
Matches: 119, Mismatches: 12, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
165 34 0.29
166 32 0.27
167 53 0.45
ACGTcount: A:0.32, C:0.11, G:0.07, T:0.49
Consensus pattern (164 bp):
GGTTTATAAATTTTAAAATTCAACAAAGATCATCATTTAATTCATATTAAATCAGTTTCAAAAAA
TTATTTTATTTCCAAGAGTTTTCATTTTTTCCTTGAAATTTATCTATTTTCGAAAAACTGAGTTT
TCTATTCTATAACTATTTTTTGGGGGATTTTCAT
Found at i:2608363 original size:28 final size:27
Alignment explanation
Indices: 2608312--2608364 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 27
2608302 AAAAATATAG
2608312 AGAAAAAAGAGAGAGAAAAAGAAAAGA
1 AGAAAAAAGAGAGAGAAAAAGAAAAGA
*
2608339 AGAAAAATAGATAGA-AAAATAGAAAA
1 AGAAAAA-AGAGAGAGAAAA-AGAAAA
2608365 ATCAAGCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 11 0.48
28 12 0.52
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.06
Consensus pattern (27 bp):
AGAAAAAAGAGAGAGAAAAAGAAAAGA
Found at i:2610049 original size:4 final size:4
Alignment explanation
Indices: 2610040--2610070 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
2610030 TACACAGAAG
*
2610040 GTAT GTAT GTAT GTAT GTAT GCAT GTAT GTA
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTA
2610071 ATACAAACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.26, C:0.03, G:0.26, T:0.45
Consensus pattern (4 bp):
GTAT
Found at i:2612106 original size:154 final size:153
Alignment explanation
Indices: 2611903--2612275 Score: 493
Period size: 154 Copynumber: 2.4 Consensus size: 153
2611893 TTAAACTTTG
* * * * * *
2611903 AAATTCTTTAAATATTCTCCTTAAA-TCACCATAAAATCAGTTCTAAAAAATTCAATTTGTTTTA
1 AAATTCATCAAATATTATCATTAAATTCA-CATTAAATCAGTT-TTAAAAATTCAATTTGTTTTA
2611967 TGAGTTTTAG-ATTTTTTTCTATTTCCAAAATACGA-AGTTTTCTACTTCGTAAATTTTTTT-GA
64 TGAGTTTTAGAATTTTTTT-TATTTCCAAAATA-GAGAGTTTTCTACTTCGTAAATTTTTTTAG-
*
2612029 TTGGATTTTTCTCAGTTCAAAATTTTTA
126 TTGGATTTTTCTCAATTCAAAATTTTTA
** * **
2612057 AAATTCATCAAATATTATTGTTTAATTCATGTTAAATCAGTTTTGAAAAATTCAATTTGTTTTAT
1 AAATTCATCAAATATTATCATTAAATTCACATTAAATCAGTTTT-AAAAATTCAATTTGTTTTAT
* *
2612122 GAGTTTTAGAATTTTTTTTATTTTCAAAATATAGAGTTTTCTACTTCGTAAATTTTTTTAGTTGG
65 GAGTTTTAGAATTTTTTTTATTTCCAAAATAGAGAGTTTTCTACTTCGTAAATTTTTTTAGTTGG
2612187 ATTTTTCTCAATTCAAAATTTTTA
130 ATTTTTCTCAATTCAAAATTTTTA
* * * *
2612211 AAATTCATCTAATATTGTCATTAAATTCACATTAAATTAGTTTTACAAAATTCAATTTATTTTAT
1 AAATTCATCAAATATTATCATTAAATTCACATTAAATCAGTTTTA-AAAATTCAATTTGTTTTAT
2612276 AATTTTCAAA
Statistics
Matches: 191, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
153 3 0.02
154 176 0.92
155 12 0.06
ACGTcount: A:0.33, C:0.10, G:0.08, T:0.49
Consensus pattern (153 bp):
AAATTCATCAAATATTATCATTAAATTCACATTAAATCAGTTTTAAAAATTCAATTTGTTTTATG
AGTTTTAGAATTTTTTTTATTTCCAAAATAGAGAGTTTTCTACTTCGTAAATTTTTTTAGTTGGA
TTTTTCTCAATTCAAAATTTTTA
Found at i:2612784 original size:26 final size:25
Alignment explanation
Indices: 2612747--2612817 Score: 78
Period size: 26 Copynumber: 2.9 Consensus size: 25
2612737 AGGTTTTTAG
2612747 AAAGTG-GAAGAAAAAAGCAAAAAAAA
1 AAAGTGAG-AGAAAAAAG-AAAAAAAA
* *
2612773 AAAGTGAGAGAAAAAA-AGAAAGAA
1 AAAGTGAGAGAAAAAAGAAAAAAAA
2612797 AAA--GAGAGAAAAAAGAAAAAA
1 AAAGTGAGAGAAAAAAGAAAAAA
2612818 CTAAGCCAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
22 11 0.28
23 4 0.10
24 9 0.23
26 14 0.36
27 1 0.03
ACGTcount: A:0.75, C:0.01, G:0.21, T:0.03
Consensus pattern (25 bp):
AAAGTGAGAGAAAAAAGAAAAAAAA
Found at i:2612786 original size:12 final size:12
Alignment explanation
Indices: 2612771--2612812 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
2612761 AAGCAAAAAA
*
2612771 AAAAAGTGAGAG
1 AAAAAGAGAGAG
* *
2612783 AAAAAAAGAAAG
1 AAAAAGAGAGAG
2612795 AAAAAGAGAGA-
1 AAAAAGAGAGAG
2612806 AAAAAGA
1 AAAAAGA
2612813 AAAAACTAAG
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
11 7 0.28
12 18 0.72
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.02
Consensus pattern (12 bp):
AAAAAGAGAGAG
Found at i:2613151 original size:20 final size:20
Alignment explanation
Indices: 2613123--2613197 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
2613113 TTTTACCCAG
2613123 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
2613143 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
2613163 ATGTATCGATATATTCTTCA
1 ATGTATCGATACATTTTTCA
*
2613183 ATGTATTGATACATT
1 ATGTATCGATACATT
2613198 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:2613183 original size:40 final size:39
Alignment explanation
Indices: 2613123--2613200 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
2613113 TTTTACCCAG
*
2613123 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTTCAATATATCGATACAT-TATGA
* * *
2613163 ATGTATCGATATATTCTTCAATGTATTGATACATTATG
1 ATGTATCGATACATTCTTCAATATATCGATACATTATG
2613201 TCTTTTTACT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.42
Consensus pattern (39 bp):
ATGTATCGATACATTCTTCAATATATCGATACATTATGA
Found at i:2617482 original size:20 final size:20
Alignment explanation
Indices: 2617443--2617484 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
2617433 GAAGGGCCAC
*
2617443 TTTTTTTTTATTGATGTTCA
1 TTTTTTTTTATTGATATTCA
* *
2617463 TTTTTTTTTCTTGCTATTCA
1 TTTTTTTTTATTGATATTCA
2617483 TT
1 TT
2617485 CCCATTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.12, C:0.10, G:0.07, T:0.71
Consensus pattern (20 bp):
TTTTTTTTTATTGATATTCA
Found at i:2628475 original size:28 final size:28
Alignment explanation
Indices: 2628373--2629565 Score: 1432
Period size: 28 Copynumber: 41.5 Consensus size: 28
2628363 TATTCATCCT
* *
2628373 TTTCAAAGCCCACAAGTCAGTAGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
* * * * *
2628402 TTTTAAAACCCACAAATCAGTGCCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
*
2628431 TTTCAAAGCCCATAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
2628459 TTTCAAAGCCCACAAGTCAGTGGCACTTC
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
*
2628488 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
* * *
2628517 TTTCAAAACCCACAAATCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
* * *
2628546 TTTCAAAGACCACAAGTCAGAGGCACCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
2628574 TTTCAAAGCCCATAATTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
2628603 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
2628631 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
* *
2628660 TTTCAAAGCCCACACGAGTCGGTGGCAACTCT
1 TTTCAAAGCCCACA--AGTCAGTGGC-AC-CC
*
2628692 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
2628721 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
2628749 ATTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
2628777 TTTCAAAGCCCACAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
2628805 TTTCAAAGCCCACAAATCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
*
2628834 TTTCAAAGCCCATAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
2628862 TTTCAAAGCCCACAAGTTAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
* * **
2628891 TTTCAAAGCCCATAAGTTAGTGGCTTCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
2628919 TTTCAAAGCCCACAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
2628947 TTTCAAAGCCCACGTAAGTCAGTGGCACCC
1 TTTCAAAGCCCAC--AAGTCAGTGGCACCC
* * * *
2628977 TTACAAAGCCCACAAGTTAATGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
* *
2629006 TTTCAAAGCCCACAAGTTAGCGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
2629034 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
2629062 TTTCAAAGCCCACAAGTTAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
* * * * *
2629091 TTTTAAAGCCCAAACGAGTCGGTGGTAACTCT
1 TTTCAAAGCCC--ACAAGTCAGTGG-CAC-CC
* * *
2629123 TTTCAAAGCTCACAAGTTAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
2629152 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
2629180 ATTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
2629208 TTTGAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
2629236 TTTCAAAGCCCATGCAAGTCAGTGGCACCC
1 TTTCAAAGCCCA--CAAGTCAGTGGCACCC
* ** *
2629266 TTTCAAAGCCCACAAATCAGTGAAACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
* *
2629295 TTTCAAATCCCAAAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
2629323 TTTCAAAGCCCACAAATTAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
* * ** *
2629352 TTTCAAAGCCCATAAGTTAGTGGCTTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
2629380 TTTCAAAGCCCACAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
2629408 TTTCAAAGCCCACGTAAGTCAGTGGCACCC
1 TTTCAAAGCCCAC--AAGTCAGTGGCACCC
* *
2629438 TTTCAAAGCCCACAAGTTAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
*
2629467 TTTCAAAGCCCCCAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
2629495 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
2629523 TTTCAAAGCCCACAAGTTAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
2629552 TTTCAAAGCCCACA
1 TTTCAAAGCCCACA
2629566 CGCGTTGGTG
Statistics
Matches: 1023, Mismatches: 118, Indels: 46
0.86 0.10 0.04
Matches are distributed among these distances:
28 481 0.47
29 392 0.38
30 99 0.10
31 18 0.02
32 33 0.03
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCC
Found at i:2628498 original size:57 final size:57
Alignment explanation
Indices: 2628371--2629595 Score: 1557
Period size: 57 Copynumber: 21.2 Consensus size: 57
2628361 AATATTCATC
* * * * * *
2628371 CTTTTCAAAGCCCACAAGTCAGTAGCACTCTTTTTAAAACCCACAAATCAGTGCCACT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
2628429 CTTTTCAAAGCCCATAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACT
* * *
2628486 -TCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAACCCACAAATCAGTGGCACT
1 CT-TTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACT
* * * * *
2628544 CTTTTCAAAGACCACAAGTCAGAGGCACCTTTTCAAAGCCCATAATTCAGTGGCACT
1 CTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACT
2628601 CTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
2628658 CTTTTCAAAGCCCACACGAGTCGGTGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGCACT
1 CTTTTCAAAGCCCACA--AGTCAGTGGC-AC-CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
2628719 CTTTTCAAAGCCCACAAGTCAGTGGCACCCATTCAAAGCCCACAAGTCAGTGGCA-T
1 CTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACT
* * *
2628775 CCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAATCAGTGGCACT
1 CTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
2628832 CTTTTCAAAGCCCATAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACT
1 CTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACT
* * ** *
2628889 CTTTTCAAAGCCCATAAGTTAGTGGCTTCCTTTCAAAGCCCACAAGTTAGTGGCAC-
1 CTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACT
* * * *
2628945 CCTTTCAAAGCCCACGTAAGTCAGTGGCACCCTTACAAAGCCCACAAGTTAATGGCACT
1 CTTTTCAAAGCCCAC--AAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
2629004 CTTTTCAAAGCCCACAAGTTAGCGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACT
* * * * * * *
2629060 CCTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTTAAAGCCCAAACGAGTCGGTGGTAACT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCC--ACAAGTCAGTGG-CACT
* * *
2629121 CTTTTCAAAGCTCACAAGTTAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACT
** * *
2629178 CCATTCAAAGCCCACAAGTCAGTGGCATCCTTTGAAAGCCCACAAGTCAGTGGCAC-
1 CTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACT
* * **
2629234 CCTTTCAAAGCCCATGCAAGTCAGTGGCACCCTTTCAAAGCCCACAAATCAGTGAAACT
1 CTTTTCAAAGCCCA--CAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACT
* * * *
2629293 CTTTTCAAATCCCAAAAGTCAGTGGCACCCTTTCAAAGCCCACAAATTAGTGGCACT
1 CTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACT
* * ** * *
2629350 CTTTTCAAAGCCCATAAGTTAGTGGCTTCTTTTCAAAGCCCACAAGTTAGTGGCAC-
1 CTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
2629406 CCTTTCAAAGCCCACGTAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACT
1 CTTTTCAAAGCCCAC--AAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACT
*
2629465 CTTTTCAAAGCCCCCAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACT
* * * * **
2629521 CCTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACACGCGTTGGTGGCAACT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACA--AGTCAGTGGC-ACT
2629582 CTTTTCAAAGCCCA
1 CTTTTCAAAGCCCA
2629596 AACAAATTAG
Statistics
Matches: 1033, Mismatches: 107, Indels: 51
0.87 0.09 0.04
Matches are distributed among these distances:
56 169 0.16
57 487 0.47
58 190 0.18
59 85 0.08
60 6 0.01
61 96 0.09
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (57 bp):
CTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACT
Found at i:2629596 original size:115 final size:114
Alignment explanation
Indices: 2628373--2629595 Score: 1569
Period size: 115 Copynumber: 10.6 Consensus size: 114
2628363 TATTCATCCT
* * * * * *
2628373 TTTCAAAGCCCACAAGTCAGTAGCACTCTTTTTAAAACCCACAAATCAGTGCCACTCTTTTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAA
* *
2628438 GCCCATAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTTC
65 GCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCC
* * *
2628488 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAACCCACAAATCAGTGGCACTCTTTTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAA
* * * * * *
2628553 GACCACAAGTCAGAGGCACCTTTTCAAAGCCCATAATTCAGTGGCACTCT
65 GCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCC
2628603 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAG
* * *
2628668 CCCACACGAGTCGGTGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCT
66 CCCACA--AGTCAGTGGC-AC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCC
* *
2628721 TTTCAAAGCCCACAAGTCAGTGGCACCCATTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAG
* * *
2628785 CCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAATCAGTGGCACTCT
66 CCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCC
* *
2628834 TTTCAAAGCCCATAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAG
* * ** *
2628899 CCCATAAGTTAGTGGCTTCCTTTCAAAGCCCACAAGTTAGTGGCAC-CC
66 CCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCC
* * *
2628947 TTTCAAAGCCCACGTAAGTCAGTGGCACCCTTACAAAGCCCACAAGTTAATGGCACTCTTTTCAA
1 TTTCAAAGCCCAC--AAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAA
* *
2629012 AGCCCACAAGTTAGCGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAC-CC
64 AGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCC
* * * * * *
2629062 TTTCAAAGCCCACAAGTTAGTGGCACTCTTTTTAAAGCCCAAACGAGTCGGTGGTAACTCTTTTC
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCC--ACAAGTCAGTGG-CACTCTTTTC
* * *
2629127 AAAGCTCACAAGTTAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC-CC
62 AAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCC
* * * *
2629180 ATTCAAAGCCCACAAGTCAGTGGCATCCTTTGAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAG
* ** *
2629244 CCCATGCAAGTCAGTGGCACCCTTTCAAAGCCCACAAATCAGTGAAACTCT
66 CCCA--CAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCC
* * * *
2629295 TTTCAAATCCCAAAAGTCAGTGGCACCCTTTCAAAGCCCACAAATTAGTGGCACTCTTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAG
* * ** * *
2629360 CCCATAAGTTAGTGGCTTCTTTTCAAAGCCCACAAGTTAGTGGCAC-CC
66 CCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCC
*
2629408 TTTCAAAGCCCACGTAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAA
1 TTTCAAAGCCCAC--AAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAA
*
2629473 AGCCCCCAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAC-CC
64 AGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCC
* * * **
2629523 TTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACACGCGTTGGTGGCAACTCTTTTC
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACA--AGTCAGTGGC-ACTCTTTTC
2629588 AAAGCCCA
62 AAAGCCCA
2629596 AACAAATTAG
Statistics
Matches: 982, Mismatches: 104, Indels: 42
0.87 0.09 0.04
Matches are distributed among these distances:
113 140 0.14
114 178 0.18
115 420 0.43
116 37 0.04
117 74 0.08
118 133 0.14
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (114 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAG
CCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCC
Found at i:2630131 original size:20 final size:20
Alignment explanation
Indices: 2630103--2630177 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
2630093 TTTTACCTAG
2630103 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
2630123 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
2630143 ATGTATCAATATATTCTTCA
1 ATGTATCGATACATTTTTCA
2630163 ATGTATCGATACATT
1 ATGTATCGATACATT
2630178 ATGTCATTTT
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:2630163 original size:40 final size:39
Alignment explanation
Indices: 2630103--2630180 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
2630093 TTTTACCTAG
* *
2630103 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCAATACATTCTTCAATATATCGATACAT-TATGA
* *
2630143 ATGTATCAATATATTCTTCAATGTATCGATACATTATG
1 ATGTATCAATACATTCTTCAATATATCGATACATTATG
2630181 TCATTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.41
Consensus pattern (39 bp):
ATGTATCAATACATTCTTCAATATATCGATACATTATGA
Found at i:2635644 original size:20 final size:20
Alignment explanation
Indices: 2635621--2635666 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
2635611 AAGGTGCTGG
2635621 ACATGCT-ATAAATGCATGAA
1 ACATGCTCA-AAATGCATGAA
2635641 ACATAGCTCAAAATGCATGAA
1 ACAT-GCTCAAAATGCATGAA
*
2635662 TCATG
1 ACATG
2635667 GACTGTTATC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 5 0.22
21 17 0.74
22 1 0.04
ACGTcount: A:0.43, C:0.17, G:0.15, T:0.24
Consensus pattern (20 bp):
ACATGCTCAAAATGCATGAA
Found at i:2636704 original size:52 final size:52
Alignment explanation
Indices: 2636506--2636686 Score: 310
Period size: 52 Copynumber: 3.5 Consensus size: 52
2636496 CGAAATATGA
*
2636506 AAATTTGCCTACATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
2636558 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCAATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* *
2636610 AAATTT-CAATGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGC-CTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
2636662 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
2636687 AAGATCAGTG
Statistics
Matches: 121, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
51 1 0.01
52 119 0.98
53 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:2636773 original size:19 final size:19
Alignment explanation
Indices: 2636749--2636813 Score: 79
Period size: 19 Copynumber: 3.7 Consensus size: 19
2636739 TAGCTTACAT
2636749 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
2636768 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
*
2636781 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
2636800 TGTATCGATACAAA
1 TGTATCGATACAAA
2636814 TCGTTGAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
13 11 0.28
14 1 0.03
16 2 0.05
18 1 0.03
19 24 0.62
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.32
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:2636785 original size:32 final size:32
Alignment explanation
Indices: 2636744--2636811 Score: 127
Period size: 32 Copynumber: 2.1 Consensus size: 32
2636734 GGTAGTAGCT
2636744 TACATTGTATCGATACAAAACTTATGTATCGA
1 TACATTGTATCGATACAAAACTTATGTATCGA
*
2636776 TACATTGTATCGATACAACACTTATGTATCGA
1 TACATTGTATCGATACAAAACTTATGTATCGA
2636808 TACA
1 TACA
2636812 AATCGTTGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.34
Consensus pattern (32 bp):
TACATTGTATCGATACAAAACTTATGTATCGA
Found at i:2636786 original size:13 final size:13
Alignment explanation
Indices: 2636768--2636792 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2636758 ACAAAACTTA
2636768 TGTATCGATACAT
1 TGTATCGATACAT
2636781 TGTATCGATACA
1 TGTATCGATACA
2636793 ACACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2637570 original size:52 final size:51
Alignment explanation
Indices: 2637498--2638153 Score: 518
Period size: 52 Copynumber: 13.6 Consensus size: 51
2637488 AAAAAAATGA
* * * ** *
2637498 CAATGTGCTGATTCATGGCCAGCGACATTTGTTTTAAAAATGATGAAGGCGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTT-AAAATGATGAAGGTGC
* * * *
2637550 CAATATGTTGATTCAAGGCCAGCGATACTAGACTT-AAA-GATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAATGATGAAGGTGC
* * * ** *
2637599 CAATGTGCTGATTCAAGGCTAGCGATATTGGACTTAAAGATGACAAAGGCGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAA-ATGATGAAGGTGC
* *
2637651 CAATATGCTGATTCAAGGCCAGCGATATTAGAC-T----T-A--AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAATGATGAAGGTGC
* * *
2637694 CAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAA-GATGAGGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAATGATGAAGGTGC
** **
2637744 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGTAA
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAA-ATGATGAAGGTGC
* * *
2637796 CAATATGCTGATTCAAGGCTAGCGATATTAGAC-T----T-A--AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAATGATGAAGGTGC
* * *
2637839 CAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAA-GATGAGGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAATGATGAAGGTGC
* *
2637889 CAATATGCTGATTCAAGGCCAGTGACATTGGACTTAAAGATTATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAA-ATGATGAAGGTGC
* *
2637941 CAATATGCTGATTCATGGCCAGCGACATTGG---T---CT--T--A--TGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAATGATGAAGGTGC
* * **
2637980 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAA-ATGATGAAGGTGC
* *
2638032 CAATATACTGATTCAAGGCCAGCGATATTGGAC-T----T-A--AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAATGATGAAGGTGC
** * * *
2638075 CAACGTGCTGATTCAAGGTC-GACGACATTGGTCTT-AAA-GA-CAAGGTGC
1 CAATATGCTGATTCAAGGCCAG-CGACATTGGACTTAAAATGATGAAGGTGC
* *
2638123 TAATATGCTGATTCAAGGCCAGCGATATTGG
1 CAATATGCTGATTCAAGGCCAGCGACATTGG
2638154 TTTTAAAGGT
Statistics
Matches: 489, Mismatches: 71, Indels: 92
0.75 0.11 0.14
Matches are distributed among these distances:
39 32 0.07
41 1 0.00
42 2 0.00
43 101 0.21
44 3 0.01
45 4 0.01
46 4 0.01
47 1 0.00
48 33 0.07
49 42 0.09
50 89 0.18
51 6 0.01
52 171 0.35
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (51 bp):
CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAATGATGAAGGTGC
Found at i:2637768 original size:145 final size:144
Alignment explanation
Indices: 2637543--2638070 Score: 740
Period size: 145 Copynumber: 3.7 Consensus size: 144
2637533 AAAAATGATG
* * * * * * * *
2637543 AAGGCGCCAATATGTTGATTCAAGGCCAGCGATACTAGACTTAAAGATGAAGGTGCCAATGTGCT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGATGAAGGTGCCAATATGCT
* * *
2637608 GATTCAAGGCTAGCGATATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAG
66 GATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGTGCCAATATGCTGATTCAAGGCCAG
2637673 CGATATTAGACTTA
131 CGATATTAGACTTA
*
2637687 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAAGATGAGGGTGCCAATATGC
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTT-AAAGATGAAGGTGCCAATATGC
** *
2637752 TGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGTAACAATATGCTGATTCAAGGCTA
65 TGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGTGCCAATATGCTGATTCAAGGCCA
2637817 GCGATATTAGACTTA
130 GCGATATTAGACTTA
*
2637832 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAAGATGAGGGTGCCAATATGC
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTT-AAAGATGAAGGTGCCAATATGC
* * ** *
2637897 TGATTCAAGGCCAGTGACATTGGACTTAAAGATTATGAAGGTGCCAATATGCTGATTCATGGCCA
65 TGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGTGCCAATATGCTGATTCAAGGCCA
* * *
2637962 GCGACATTGGTCTT-
130 GCGATATTAGACTTA
*
2637976 -A--TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGTGCCAATAT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGATG---AAGGTGCCAATAT
* *
2638038 ACTGATTCAAGGCCAGCGATATTGGACTTAAAG
63 GCTGATTCAAGGCCAGCGACATTGGACTTAAAG
2638071 GTGCCAACGT
Statistics
Matches: 349, Mismatches: 31, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
140 7 0.02
141 37 0.11
143 43 0.12
144 35 0.10
145 227 0.65
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (144 bp):
AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGATGAAGGTGCCAATATGCT
GATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGTGCCAATATGCTGATTCAAGGCCAG
CGATATTAGACTTA
Found at i:2637865 original size:95 final size:93
Alignment explanation
Indices: 2637643--2637927 Score: 271
Period size: 93 Copynumber: 3.0 Consensus size: 93
2637633 TAAAGATGAC
* * * ** *
2637643 AAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTT-----A--AAGGTGCCAATGTG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAAGATGAAGGTAACAATATG
* *
2637701 CTGATTCAAGGCCAGCGACATTGGGCTT
66 CTGATTCAAGGCCAGCGACATTAGACTT
2637729 AAAAGATGAGGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT-AAAGATGACAAAGG
1 ---A-A--A-GGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAAGATG---AAGG
* *
2637793 TAACAATATGCTGATTCAAGGCTAGCGATATTAGACTT
56 TAACAATATGCTGATTCAAGGCCAGCGACATTAGACTT
* * * **
2637831 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAAGATGAGGGTGCCAATATG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAAGATGAAGGTAACAATATG
* *
2637896 CTGATTCAAGGCCAGTGACATTGGACTT
66 CTGATTCAAGGCCAGCGACATTAGACTT
2637924 AAAG
1 AAAG
2637928 ATTATGAAGG
Statistics
Matches: 163, Mismatches: 19, Indels: 24
0.79 0.09 0.12
Matches are distributed among these distances:
89 1 0.01
90 1 0.01
92 1 0.01
93 76 0.47
95 38 0.23
96 8 0.05
97 1 0.01
98 1 0.01
99 1 0.01
102 35 0.21
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.23
Consensus pattern (93 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAAGATGAAGGTAACAATATG
CTGATTCAAGGCCAGCGACATTAGACTT
Found at i:2637942 original size:197 final size:189
Alignment explanation
Indices: 2637498--2638153 Score: 592
Period size: 197 Copynumber: 3.4 Consensus size: 189
2637488 AAAAAAATGA
* * ** * *
2637498 CAATGTGCTGATTCATGGCCAGCGACATTTGTTTTAAAAATGATGAAGGCGCCAATATGTTGATT
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTT-AAAATGATGAAGGTGCCAATATGCTGATT
* * * ** *
2637563 CAAGGCCAGCGATACTAGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCTAGCGATATT
65 CAAGGCCAGCGACATTGGACTTAAAGATGAAGGTAACAATATGCTGATTCAAGGCTAGCGATATT
* *
2637628 GGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGGTG
130 AGACTT----AT-A-AAAGGCGCCAATATGCTGATTCAAGGCCAGCGACATTAGACTTAAAGGTG
2637693 C
189 C
* *
2637694 CAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAA-GATGAGGGTGCCAATATGCTGATTC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAATGATGAAGGTGCCAATATGCTGATTC
2637758 AAGGCCAGCGACATTGGACTTAAAGATGACAAAGGTAACAATATGCTGATTCAAGGCTAGCGATA
66 AAGGCCAGCGACATTGGACTTAAAGATG---AAGGTAACAATATGCTGATTCAAGGCTAGCGATA
* * * *
2637823 TTAGAC-T-T-AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAAGATGAGG
128 TTAGACTTATAAAAGGCGCCAATATGCTGATTCAAGGCCAGCGACATTAGACTT---A-A--A-G
2637885 GTGC
186 GTGC
* * *
2637889 CAATATGCTGATTCAAGGCCAGTGACATTGGACTTAAAGATTATGAAGGTGCCAATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAA-ATGATGAAGGTGCCAATATGCTGATT
* * * * * *
2637954 CATGGCCAGCGACATTGGTCTT----AT----G--CCAATGTGCTGATTCAAGGCCAGCGACATT
65 CAAGGCCAGCGACATTGGACTTAAAGATGAAGGTAACAATATGCTGATTCAAGGCTAGCGATATT
* * * * * *
2638009 GGTCTTAAAGATGACAAAGGTGCCAATATACTGATTCAAGGCCAGCGATATTGGACTTAAAGGTG
130 AGACTT----AT-A-AAAGGCGCCAATATGCTGATTCAAGGCCAGCGACATTAGACTTAAAGGTG
2638074 C
189 C
* * * * *
2638075 CAACGTGCTGATTCAAGGTC-GACGACATTGGTCTT-AAA-GA-CAAGGTGCTAATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAG-CGACATTGGACTTAAAATGATGAAGGTGCCAATATGCTGATT
*
2638136 CAAGGCCAGCGATATTGG
65 CAAGGCCAGCGACATTGG
2638154 TTTTAAAGGT
Statistics
Matches: 392, Mismatches: 46, Indels: 58
0.79 0.09 0.12
Matches are distributed among these distances:
182 35 0.09
183 1 0.00
184 29 0.07
185 4 0.01
186 34 0.09
187 1 0.00
188 38 0.10
189 1 0.00
190 2 0.01
191 2 0.01
192 1 0.00
193 41 0.10
194 48 0.12
195 44 0.11
196 33 0.08
197 78 0.20
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (189 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAATGATGAAGGTGCCAATATGCTGATTC
AAGGCCAGCGACATTGGACTTAAAGATGAAGGTAACAATATGCTGATTCAAGGCTAGCGATATTA
GACTTATAAAAGGCGCCAATATGCTGATTCAAGGCCAGCGACATTAGACTTAAAGGTGC
Found at i:2637992 original size:39 final size:39
Alignment explanation
Indices: 2637938--2638015 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
2637928 ATTATGAAGG
*
2637938 TGCCAATATGCTGATTCATGGCCAGCGACATTGGTCTTA
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTA
*
2637977 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTA
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTA
2638016 AAGATGACAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.29
Consensus pattern (39 bp):
TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTA
Found at i:2638160 original size:91 final size:95
Alignment explanation
Indices: 2637502--2638167 Score: 537
Period size: 91 Copynumber: 7.0 Consensus size: 95
2637492 AAATGACAAT
* * * * ** * *
2637502 GTGCTGATTCATGGCCAGCGACATTTGTTTTAAAAATGATGAAGGCGCCAATATGTTGATTCAAG
1 GTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGTGCCAATATGCTGATTCAAG
* * * *
2637567 GCCAGCGATACTAGACTTAAAGATGAAGGTGCCAAT
66 GCCAGCGATATTGGTCTT----A--AAGGTGCCAAC
* * * *
2637603 GTGCTGATTCAAGGCTAGCGATATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAG
1 GTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGTGCCAATATGCTGATTCAAG
* * *
2637668 GCCAGCGATATTAGACTTAAAGGTGCCAAT
66 GCCAGCGATATTGGTCTTAAAGGTGCCAAC
* *
2637698 GTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAAGATG---AGGGTGCCAATATGCTGATTCAA
1 GTGCTGATTCAAGGCCAGCGACATTGGTCTT-AAAGATGACAAAGGTGCCAATATGCTGATTCAA
* * * *
2637760 GGCCAGCGACATTGGACTTAAAGATGACAAAGGTAACAAT
65 GGCCAGCGATATTGGTCTTAAAGGTG-C--------CAAC
* * * * * *
2637800 ATGCTGATTCAAGGCTAGCGATATTAGAC-T-----T---AAAGGTGCCAATGTGCTGATTCAAG
1 GTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGTGCCAATATGCTGATTCAAG
* * *
2637856 GCCAGCGACATTGGGCTTAAAAGATGAGGGTGCCAAT
66 GCCAGCGATATTGGTCTT---A-A--A-GGTGCCAAC
* * * * ** *
2637893 ATGCTGATTCAAGGCCAGTGACATTGGACTTAAAGATTATGAAGGTGCCAATATGCTGATTCATG
1 GTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGTGCCAATATGCTGATTCAAG
* *
2637958 GCCAGCGACATTGGTCTT--A--TGCCAAT
66 GCCAGCGATATTGGTCTTAAAGGTGCCAAC
*
2637984 GTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGTGCCAATATACTGATTCAAG
1 GTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGTGCCAATATGCTGATTCAAG
*
2638049 GCCAGCGATATTGGACTTAAAGGTGCCAAC
66 GCCAGCGATATTGGTCTTAAAGGTGCCAAC
* *
2638079 GTGCTGATTCAAGGTC-GACGACATTGGTCTT-AA-A-GAC-AAGGTGCTAATATGCTGATTCAA
1 GTGCTGATTCAAGGCCAG-CGACATTGGTCTTAAAGATGACAAAGGTGCCAATATGCTGATTCAA
*
2638139 GGCCAGCGATATTGGTTTTAAAGGTGCCA
65 GGCCAGCGATATTGGTCTTAAAGGTGCCA
2638168 CGGAGTTATG
Statistics
Matches: 481, Mismatches: 52, Indels: 74
0.79 0.09 0.12
Matches are distributed among these distances:
91 128 0.27
92 3 0.01
93 75 0.16
94 6 0.01
95 113 0.23
96 7 0.01
97 1 0.00
98 1 0.00
99 2 0.00
101 75 0.16
102 70 0.15
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (95 bp):
GTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGTGCCAATATGCTGATTCAAG
GCCAGCGATATTGGTCTTAAAGGTGCCAAC
Found at i:2638247 original size:33 final size:32
Alignment explanation
Indices: 2638158--2638247 Score: 110
Period size: 32 Copynumber: 2.8 Consensus size: 32
2638148 TATTGGTTTT
*
2638158 AAAGGTGCCACGGAGTTATGGACTTAAAAAGA
1 AAAGGTGCCACGGAGTTATGGGCTTAAAAAGA
* *
2638190 AAAGGTGCCACGGAGTTATAGGCTTAAAAGGAA
1 AAAGGTGCCACGGAGTTATGGGCTTAAAAAG-A
* *
2638223 AAAGAG-GCCACGGACTTGTGGGCTT
1 AAAG-GTGCCACGGAGTTATGGGCTT
2638248 TTGAAGGTTG
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
32 28 0.56
33 21 0.42
34 1 0.02
ACGTcount: A:0.36, C:0.14, G:0.31, T:0.19
Consensus pattern (32 bp):
AAAGGTGCCACGGAGTTATGGGCTTAAAAAGA
Found at i:2638297 original size:58 final size:59
Alignment explanation
Indices: 2638219--2638485 Score: 348
Period size: 58 Copynumber: 4.6 Consensus size: 59
2638209 AGGCTTAAAA
* * *
2638219 GGAAAAAGAG-GCCACGGACTTGTGGGCTTTTGAAGGTTGCCACTGATTTCTGGGCTTT-
1 GGAAAAAG-GTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTG
* *
2638277 GAAAAAAGGTGCCACTGACTTGTAGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTG
1 GGAAAAAGGTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTG
* * * *
2638336 GGAAAAGGGTGCCACTGATTTGTGGAC-TTTGAAGGTTGCCATTGACTTGTGGGCTTTG
1 GGAAAAAGGTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTG
* * * *
2638394 GGAGAAGGGTGCCACTGATTTGCGGGC-TTTGAAGGTTGCCACTGACTTGTGGGCTTT-
1 GGAAAAAGGTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTG
* *
2638451 -GACAAAGATGCCACTGACTTGTGGGCTTTTGAAGG
1 GGAAAAAGGTGCCACTGACTTGTGGGCTTTTGAAGG
2638486 GTGAGGAATA
Statistics
Matches: 186, Mismatches: 20, Indels: 7
0.87 0.09 0.03
Matches are distributed among these distances:
56 21 0.11
57 9 0.05
58 134 0.72
59 22 0.12
ACGTcount: A:0.20, C:0.16, G:0.33, T:0.30
Consensus pattern (59 bp):
GGAAAAAGGTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTG
Found at i:2638335 original size:27 final size:27
Alignment explanation
Indices: 2638229--2638485 Score: 237
Period size: 27 Copynumber: 8.9 Consensus size: 27
2638219 GGAAAAAGAG
*
2638229 GCCACGGACTTGTGGGCTTTTGAAGGTT
1 GCCACTGACTTGTGGGC-TTTGAAGGTT
* *
2638257 GCCACTGATTTCTGGGCTTTGAAAAAAGG-T
1 GCCACTGACTTGTGGGCTTTG----AAGGTT
*
2638287 GCCACTGACTTGTAGGCTTTTGAAGGTT
1 GCCACTGACTTGTGGGC-TTTGAAGGTT
*
2638315 GCCACTGACTTGTGGGCTTTGGGAAAAGGGT
1 GCCACTGACTTGTGGGCTTT--G--AAGGTT
* *
2638346 GCCACTGATTTGTGGACTTTGAAGGTT
1 GCCACTGACTTGTGGGCTTTGAAGGTT
* *
2638373 GCCATTGACTTGTGGGCTTTGGGAGAAGGGT
1 GCCACTGACTTGTGGGCTTT----GAAGGTT
* *
2638404 GCCACTGATTTGCGGGCTTTGAAGGTT
1 GCCACTGACTTGTGGGCTTTGAAGGTT
* *
2638431 GCCACTGACTTGTGGGCTTTGACAAAGAT
1 GCCACTGACTTGTGGGCTTTG--AAGGTT
2638460 GCCACTGACTTGTGGGCTTTTGAAGG
1 GCCACTGACTTGTGGGC-TTTGAAGG
2638486 GTGAGGAATA
Statistics
Matches: 188, Mismatches: 24, Indels: 34
0.76 0.10 0.14
Matches are distributed among these distances:
27 58 0.31
28 34 0.18
29 23 0.12
30 19 0.10
31 54 0.29
ACGTcount: A:0.19, C:0.17, G:0.33, T:0.31
Consensus pattern (27 bp):
GCCACTGACTTGTGGGCTTTGAAGGTT
Found at i:2639946 original size:11 final size:10
Alignment explanation
Indices: 2639924--2640008 Score: 93
Period size: 10 Copynumber: 8.4 Consensus size: 10
2639914 TTTGTTGTTA
2639924 TTGTTTTTTT
1 TTGTTTTTTT
*
2639934 TTCTTTGTTTT
1 TTGTTT-TTTT
2639945 TT-TTTGTTTT
1 TTGTTT-TTTT
2639955 TTGTTTTTTT
1 TTGTTTTTTT
*
2639965 TT-TGTTTTT
1 TTGTTTTTTT
2639974 TTGTTTTTTTT
1 TTG-TTTTTTT
2639985 TTGTTTTTTT
1 TTGTTTTTTT
* *
2639995 TGGTTTATTT
1 TTGTTTTTTT
2640005 TTGT
1 TTGT
2640009 GGAGGACGCC
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
9 8 0.12
10 39 0.60
11 18 0.28
ACGTcount: A:0.01, C:0.01, G:0.12, T:0.86
Consensus pattern (10 bp):
TTGTTTTTTT
Found at i:2639948 original size:18 final size:17
Alignment explanation
Indices: 2639912--2639993 Score: 92
Period size: 18 Copynumber: 4.5 Consensus size: 17
2639902 ATCCGGACCC
*
2639912 TTTTTGTTGTTATTGTTTT
1 TTTTTTTTGTT-TT-TTTT
2639931 TTTTTCTTTGTTTTTTTT
1 TTTTT-TTTGTTTTTTTT
*
2639949 TGTTTTTTGTTTTTTTTT
1 TTTTTTTTG-TTTTTTTT
2639967 TGTTTTTTTGTTTTTTTT
1 T-TTTTTTTGTTTTTTTT
2639985 TTGTTTTTT
1 TT-TTTTTT
2639994 TTGGTTTATT
Statistics
Matches: 56, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
17 5 0.09
18 32 0.57
19 14 0.25
20 5 0.09
ACGTcount: A:0.01, C:0.01, G:0.11, T:0.87
Consensus pattern (17 bp):
TTTTTTTTGTTTTTTTT
Found at i:2639949 original size:19 final size:19
Alignment explanation
Indices: 2639912--2640008 Score: 110
Period size: 19 Copynumber: 5.1 Consensus size: 19
2639902 ATCCGGACCC
2639912 TTTTTGTTGTTATTGTTTTTT-
1 TTTTT-TTGTT-TT-TTTTTTG
*
2639933 TTTCTTTG-TTTTTTTTTG
1 TTTTTTTGTTTTTTTTTTG
2639951 -TTTTTTGTTTTTTTTTTG
1 TTTTTTTGTTTTTTTTTTG
2639969 TTTTTTTGTTTTTTTTTTG
1 TTTTTTTGTTTTTTTTTTG
* *
2639988 TTTTTTTTGGTTTATTTTTG
1 -TTTTTTTGTTTTTTTTTTG
2640008 T
1 T
2640009 GGAGGACGCC
Statistics
Matches: 68, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
17 12 0.18
18 12 0.18
19 20 0.29
20 20 0.29
21 4 0.06
ACGTcount: A:0.02, C:0.01, G:0.12, T:0.85
Consensus pattern (19 bp):
TTTTTTTGTTTTTTTTTTG
Found at i:2639975 original size:30 final size:31
Alignment explanation
Indices: 2639912--2639995 Score: 111
Period size: 30 Copynumber: 2.7 Consensus size: 31
2639902 ATCCGGACCC
2639912 TTTTTGTTGTTATTGTTTTTTTTTCTTTGTTTT
1 TTTTTGTT-TT-TTGTTTTTTTTTCTTTGTTTT
2639945 TTTTTGTTTTTTGTTTTTTTTT-TGTT-TTTT
1 TTTTTGTTTTTTGTTTTTTTTTCT-TTGTTTT
2639975 TGTTTT-TTTTTTGTTTTTTTT
1 T-TTTTGTTTTTTGTTTTTTTT
2639996 GGTTTATTTT
Statistics
Matches: 49, Mismatches: 0, Indels: 7
0.88 0.00 0.12
Matches are distributed among these distances:
30 21 0.43
31 18 0.37
32 2 0.04
33 8 0.16
ACGTcount: A:0.01, C:0.01, G:0.11, T:0.87
Consensus pattern (31 bp):
TTTTTGTTTTTTGTTTTTTTTTCTTTGTTTT
Found at i:2639982 original size:37 final size:37
Alignment explanation
Indices: 2639913--2639993 Score: 112
Period size: 37 Copynumber: 2.2 Consensus size: 37
2639903 TCCGGACCCT
2639913 TTTTGTTGTTATTGTTTTTTTTTCTTTGTTTTTTTTTG
1 TTTT-TTGTTATTGTTTTTTTTTCTTTGTTTTTTTTTG
*
2639951 TTTTTTGTT-TT-TTTTTTGTTTTTTTGTTTTTTTTTTG
1 TTTTTTGTTATTGTTTTTT-TTTCTTTG-TTTTTTTTTG
2639988 TTTTTT
1 TTTTTT
2639994 TTGGTTTATT
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
35 6 0.15
36 9 0.22
37 21 0.52
38 4 0.10
ACGTcount: A:0.01, C:0.01, G:0.11, T:0.86
Consensus pattern (37 bp):
TTTTTTGTTATTGTTTTTTTTTCTTTGTTTTTTTTTG
Found at i:2639994 original size:20 final size:20
Alignment explanation
Indices: 2639912--2640008 Score: 105
Period size: 20 Copynumber: 5.0 Consensus size: 20
2639902 ATCCGGACCC
* *
2639912 TTTTTGTTGTTATTGTTTTT-
1 TTTTTTTTGTT-TTTTTTTTG
*
2639932 TTTTCTTTG-TTTTTTTTTG
1 TTTTTTTTGTTTTTTTTTTG
2639951 --TTTTTTGTTTTTTTTTTG
1 TTTTTTTTGTTTTTTTTTTG
2639969 -TTTTTTTGTTTTTTTTTTG
1 TTTTTTTTGTTTTTTTTTTG
* *
2639988 TTTTTTTTGGTTTATTTTTG
1 TTTTTTTTGTTTTTTTTTTG
2640008 T
1 T
2640009 GGAGGACGCC
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
17 6 0.09
18 17 0.25
19 19 0.28
20 25 0.37
ACGTcount: A:0.02, C:0.01, G:0.12, T:0.85
Consensus pattern (20 bp):
TTTTTTTTGTTTTTTTTTTG
Found at i:2640006 original size:1 final size:1
Alignment explanation
Indices: 2639927--2639995 Score: 75
Period size: 1 Copynumber: 69.0 Consensus size: 1
2639917 GTTGTTATTG
* * * * * * *
2639927 TTTTTTTTTCTTTGTTTTTTTTTGTTTTTTGTTTTTTTTTTGTTTTTTTGTTTTTTTTTTGTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
2639992 TTTT
1 TTTT
2639996 GGTTTATTTT
Statistics
Matches: 54, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 54 1.00
ACGTcount: A:0.00, C:0.01, G:0.09, T:0.90
Consensus pattern (1 bp):
T
Found at i:2652838 original size:20 final size:20
Alignment explanation
Indices: 2652815--2652860 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
2652805 AAGGTGCTGG
2652815 ACATGCT-ATAAATGCATGAA
1 ACATGCTCA-AAATGCATGAA
2652835 ACATAGCTCAAAATGCATGAA
1 ACAT-GCTCAAAATGCATGAA
*
2652856 TCATG
1 ACATG
2652861 GACTGTTATC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 5 0.22
21 17 0.74
22 1 0.04
ACGTcount: A:0.43, C:0.17, G:0.15, T:0.24
Consensus pattern (20 bp):
ACATGCTCAAAATGCATGAA
Found at i:2653797 original size:13 final size:13
Alignment explanation
Indices: 2653779--2653803 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2653769 CAAAGATCAG
2653779 TGTATCGATACAA
1 TGTATCGATACAA
2653792 TGTATCGATACA
1 TGTATCGATACA
2653804 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2653882 original size:32 final size:32
Alignment explanation
Indices: 2653841--2653941 Score: 157
Period size: 32 Copynumber: 3.1 Consensus size: 32
2653831 GGCAGTAGCT
*
2653841 TACATTGTATCGATACAAAACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
**
2653873 TACATTGTATCGATAGGACACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
*
2653905 TACATTGTATTGATACAACACTTTATGTATCGA
1 TACATTGTATCGATACAACAC-TTATGTATCGA
2653938 TACA
1 TACA
2653942 AATCATTGAA
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
32 47 0.76
33 15 0.24
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.36
Consensus pattern (32 bp):
TACATTGTATCGATACAACACTTATGTATCGA
Found at i:2653883 original size:13 final size:13
Alignment explanation
Indices: 2653865--2653921 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
2653855 ACAAAACTTA
2653865 TGTATCGATACAT
1 TGTATCGATACAT
2653878 TGTATCGATAGGACACTT
1 TGTATCGAT---ACA--T
2653896 ATGTATCGATACAT
1 -TGTATCGATACAT
*
2653910 TGTATTGATACA
1 TGTATCGATACA
2653922 ACACTTTATG
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 20 0.54
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2654888 original size:21 final size:21
Alignment explanation
Indices: 2654862--2654911 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
2654852 TGGCCTTTTT
2654862 TAATAAAATAAAAATAATAAA
1 TAATAAAATAAAAATAATAAA
* * **
2654883 TAATAAATTAAACATTTTAAA
1 TAATAAAATAAAAATAATAAA
2654904 -AATAAAAT
1 TAATAAAAT
2654912 CTTTCATGTT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (21 bp):
TAATAAAATAAAAATAATAAA
Found at i:2655040 original size:3 final size:3
Alignment explanation
Indices: 2655032--2655068 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
2655022 TTCAAAAATA
2655032 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
2655069 ATAAATAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:2655072 original size:12 final size:11
Alignment explanation
Indices: 2655026--2655068 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 11
2655016 GCAATTTTCA
2655026 AAAATAAATAAT
1 AAAAT-AATAAT
2655038 AATAATAATAAT
1 AA-AATAATAAT
2655050 AATAATAATAAT
1 AA-AATAATAAT
2655062 AAAATAA
1 AAAATAA
2655069 ATAAATAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
11 5 0.17
12 22 0.73
13 3 0.10
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
AAAATAATAAT
Found at i:2658217 original size:112 final size:112
Alignment explanation
Indices: 2658013--2658345 Score: 409
Period size: 112 Copynumber: 3.0 Consensus size: 112
2658003 TTGAAATAAT
* *
2658013 ATCAAATTTGTCTAATTTTCAAAGAAATTCATATTTTATTCAACCTGGTCCATTCATGCCTAGGA
1 ATCAAATTTGTCTAATTTTCAAAGAAATTCATATTTTATACAACCTGATCCATTCATGCCTAGGA
* * * **
2658078 AAATAGGGCATGTATCTTATTAGTTTTGAAATTTTTGTGCCAACAAC
66 AAATAGGGCATGTATCTTATCAATTTTGAAAATTTTCAGCCAACAAC
* * *
2658125 ATCAAATTTATCTAATTTTCAAAGAAATTCATGTTTTATACAACTTGATCCATTCATGCCTAGGA
1 ATCAAATTTGTCTAATTTTCAAAGAAATTCATATTTTATACAACCTGATCCATTCATGCCTAGGA
* *
2658190 AAGTAGGGTATGTATCTTATCAATTTTGAAAATTTTCAGCCAACAAC
66 AAATAGGGCATGTATCTTATCAATTTTGAAAATTTTCAGCCAACAAC
* * * * * ** * *
2658237 ATCAAATTTGCCTAATTTTTAAAGAAATTTATATTTTATACGATCTGA-CCTATTTGTACTTAGG
1 ATCAAATTTGTCTAATTTTCAAAGAAATTCATATTTTATACAACCTGATCC-ATTCATGCCTAGG
* * * *
2658301 AAAATAGGGCATGCATCCTATCAATTCT-AAAATTTTTAAGCCAAC
65 AAAATAGGGCATGTATCTTATCAATTTTGAAAA-TTTTCAGCCAAC
2658346 TAAATTTTTT
Statistics
Matches: 189, Mismatches: 30, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
111 6 0.03
112 183 0.97
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.38
Consensus pattern (112 bp):
ATCAAATTTGTCTAATTTTCAAAGAAATTCATATTTTATACAACCTGATCCATTCATGCCTAGGA
AAATAGGGCATGTATCTTATCAATTTTGAAAATTTTCAGCCAACAAC
Found at i:2658744 original size:21 final size:21
Alignment explanation
Indices: 2658718--2658761 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
2658708 AGAATGGTTA
2658718 GACTTAACTCAATAGAGTTTT
1 GACTTAACTCAATAGAGTTTT
2658739 GACTTAACTCAATAGAGTTTT
1 GACTTAACTCAATAGAGTTTT
2658760 GA
1 GA
2658762 TTTATGCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (21 bp):
GACTTAACTCAATAGAGTTTT
Found at i:2658922 original size:82 final size:81
Alignment explanation
Indices: 2658836--2659001 Score: 215
Period size: 81 Copynumber: 2.0 Consensus size: 81
2658826 ATTTACACCA
* *
2658836 TTAGATCACATCAGCATTTGCATCATTTCATGTATAGTTGCCATTTTATTGATGCTTACATTGTT
1 TTAGATCACATCAGCACTTGCATCATTTCATGTACAGTTG-CATTTTATTGATGCTTACATTGTT
2658901 TCGCATACATCTGTACT
65 TCGCATACATCTGTACT
* ** * * * * * * *
2658918 TTAGATGATTTTAGTACTTGCATTATTTCATGTGCATTTGCTTTTTATTGATGCTTGCATTGTTT
1 TTAGATCACATCAGCACTTGCATCATTTCATGTACAGTTGCATTTTATTGATGCTTACATTGTTT
2658983 CGCATACATCTGTACT
66 CGCATACATCTGTACT
2658999 TTA
1 TTA
2659002 AATGATATTG
Statistics
Matches: 72, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
81 42 0.58
82 30 0.42
ACGTcount: A:0.22, C:0.17, G:0.14, T:0.46
Consensus pattern (81 bp):
TTAGATCACATCAGCACTTGCATCATTTCATGTACAGTTGCATTTTATTGATGCTTACATTGTTT
CGCATACATCTGTACT
Found at i:2658981 original size:81 final size:82
Alignment explanation
Indices: 2658853--2659052 Score: 276
Period size: 81 Copynumber: 2.5 Consensus size: 82
2658843 ACATCAGCAT
** * * *
2658853 TTGCATCATTTCATGTATAGTTGCCATTTTATTGATGCTTACATTGTTTCGCATACATCTGTACT
1 TTGCATCATTTCATGTGCATTTTCCTTTTTATTGATGCTTACATTGTTTCGCATACATCTGTACT
* *
2658918 TTAGATGATTTTAGTAC
66 TTAAATGATATTAGTAC
* * *
2658935 TTGCATTATTTCATGTGCA-TTTGCTTTTTATTGATGCTTGCATTGTTTCGCATACATCTGTACT
1 TTGCATCATTTCATGTGCATTTTCCTTTTTATTGATGCTTACATTGTTTCGCATACATCTGTACT
* *
2658999 TTAAATGATATTGGTAG
66 TTAAATGATATTAGTAC
*
2659016 TTGCATCATTTCATGTGCATTTTCCTCTTTATTGATG
1 TTGCATCATTTCATGTGCATTTTCCTTTTTATTGATG
2659053 GTTGTGGTTG
Statistics
Matches: 103, Mismatches: 14, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
81 72 0.70
82 31 0.30
ACGTcount: A:0.21, C:0.15, G:0.15, T:0.48
Consensus pattern (82 bp):
TTGCATCATTTCATGTGCATTTTCCTTTTTATTGATGCTTACATTGTTTCGCATACATCTGTACT
TTAAATGATATTAGTAC
Found at i:2659117 original size:23 final size:24
Alignment explanation
Indices: 2659078--2659133 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 24
2659068 TTTCATGCAC
*
2659078 ATTTGGATTTTAAATGACATTAGT
1 ATTTGCATTTTAAATGACATTAGT
* *
2659102 A-TTGCATTTTAGATGACATTATT
1 ATTTGCATTTTAAATGACATTAGT
2659125 ATTTGCATT
1 ATTTGCATT
2659134 ATCTCAAGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 20 0.71
24 8 0.29
ACGTcount: A:0.30, C:0.07, G:0.14, T:0.48
Consensus pattern (24 bp):
ATTTGCATTTTAAATGACATTAGT
Found at i:2659260 original size:88 final size:86
Alignment explanation
Indices: 2659103--2659348 Score: 303
Period size: 88 Copynumber: 2.8 Consensus size: 86
2659093 GACATTAGTA
* * * * *
2659103 TTGCATTTTAGATGACATTATTATTTGCATTATCTCAAGTACATTTGCCTCTTTATTGATCCTTC
1 TTGCATTTTAGATGGCATTAGTATTTGCATCATTTC-AGTACATTTGCCTCTTTATTGAT-CTTG
* *
2659168 CATTTTCATTGTTTCACGTACAT
64 CATTTTCATTGTTTAACGCACAT
2659191 TTGCATTTTAGATGGCATTAGTATTTGCATCATTTCGAGTACATTTGCCTCTTTATTGATCTTTG
1 TTGCATTTTAGATGGCATTAGTATTTGCATCATTTC-AGTACATTTGCCTCTTTATTGATC-TTG
*
2659256 CATTTTCATTGTTTAATGCACAT
64 CATTTTCATTGTTTAACGCACAT
* * ** * * *
2659279 CTGCATTTTAGATGGCATTGGTATTTATATCATTTCATATACATTTGCCACTTTATTAATGCTTG
1 TTGCATTTTAGATGGCATTAGTATTTGCATCATTTCA-GTACATTTGCCTCTTTATTGAT-CTTG
2659344 CATTT
64 CATTT
2659349 AAATCATTTC
Statistics
Matches: 139, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
87 2 0.01
88 136 0.98
89 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.13, T:0.48
Consensus pattern (86 bp):
TTGCATTTTAGATGGCATTAGTATTTGCATCATTTCAGTACATTTGCCTCTTTATTGATCTTGCA
TTTTCATTGTTTAACGCACAT
Found at i:2661219 original size:79 final size:78
Alignment explanation
Indices: 2661069--2661269 Score: 237
Period size: 79 Copynumber: 2.5 Consensus size: 78
2661059 ACAACGGGGC
* * * * *
2661069 TGGAGCATCCCCGATTATGAAAAATCGGTGTTCTAGAAATAAAAATCGAGGTTGGAGTATCCTCT
1 TGGAGTATCCCCGATTATG-AAAATCGATATT-TTGAAATAAAAATCGAGGTTGGAGTATCCCCT
2661134 CGAAAATAATAGGGT
64 CGAAAATAATAGGGT
2661149 TGGAGTATCCCCGATTATAGAAAATCGATATTTTGAAGA-AAAAATC-AGGATTGGAGTATCCCC
1 TGGAGTATCCCCGATTAT-GAAAATCGATATTTTGAA-ATAAAAATCGAGG-TTGGAGTATCCCC
2661212 AT-GAAAATAATAGGGT
63 -TCGAAAATAATAGGGT
* * *
2661228 TAGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAA
1 TGGAGTATCCCCGATTATGA-AAATCGATATTTT-GAAATAA
2661270 GACCGGGGTT
Statistics
Matches: 106, Mismatches: 8, Indels: 14
0.83 0.06 0.11
Matches are distributed among these distances:
78 5 0.05
79 66 0.62
80 34 0.32
81 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.27
Consensus pattern (78 bp):
TGGAGTATCCCCGATTATGAAAATCGATATTTTGAAATAAAAATCGAGGTTGGAGTATCCCCTCG
AAAATAATAGGGT
Found at i:2661286 original size:79 final size:78
Alignment explanation
Indices: 2661118--2661290 Score: 208
Period size: 79 Copynumber: 2.2 Consensus size: 78
2661108 TAAAAATCGA
* * *
2661118 GGTTGGAGTATCCTCTCGAAAATAATAGGGTTGGAGTATCCCCGATTATAGAAAATCGATATTTT
1 GGTTGGAGTATCCCCTCGAAAATAATAGGGTTAGAGTATCCCCGATTATAGAAAATCAATATTTT
*
2661183 GAAGAAAAAATCAG
66 -AAGAAAAAACCAG
* *
2661197 GATTGGAGTATCCCCAT-GAAAATAATAGGGTTAGAGTATCCCCGATTGT-GAGAAATCAATATT
1 GGTTGGAGTATCCCC-TCGAAAATAATAGGGTTAGAGTATCCCCGATTATAGA-AAATCAATATT
*
2661260 TT-AGAAATAAGACCGG
64 TTAAGAAA-AA-ACCAG
*
2661276 GGTTGAAGTATCCCC
1 GGTTGGAGTATCCCC
2661291 CCGATTGTGA
Statistics
Matches: 81, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
77 5 0.06
78 4 0.05
79 71 0.88
80 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.27
Consensus pattern (78 bp):
GGTTGGAGTATCCCCTCGAAAATAATAGGGTTAGAGTATCCCCGATTATAGAAAATCAATATTTT
AAGAAAAAACCAG
Found at i:2661339 original size:53 final size:53
Alignment explanation
Indices: 2661236--2661343 Score: 155
Period size: 53 Copynumber: 2.0 Consensus size: 53
2661226 GTTAGAGTAT
* *
2661236 CCCCGATTGTGAGAAATCAATATTTTAGAAATAAGACCGGGGTTGAAGTATCC
1 CCCCGATTGTGAGAAATCAATATTTTAGAAATAAGACCAGGATTGAAGTATCC
* * *
2661289 CCCCGATTGTGAGAAATCAATATTTTGGAAATAA-AGTCAGGATTGGAGTATCC
1 CCCCGATTGTGAGAAATCAATATTTTAGAAATAAGA-CCAGGATTGAAGTATCC
2661342 CC
1 CC
2661344 TCGGAAATAA
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
52 1 0.02
53 48 0.98
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (53 bp):
CCCCGATTGTGAGAAATCAATATTTTAGAAATAAGACCAGGATTGAAGTATCC
Found at i:2661469 original size:51 final size:52
Alignment explanation
Indices: 2661357--2661473 Score: 157
Period size: 51 Copynumber: 2.3 Consensus size: 52
2661347 GAAATAACAG
** *
2661357 GGTTGGAGTATCCTTGATTGTGAGAAATCAATATTTTAGAAATAAGGTCGGA
1 GGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGTCGGA
* * * *
2661409 -GTTGAAGTATCCCCGATTGTGAGAGATCAATATTTTGGAAATAAAG-CTGA
1 GGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGTCGGA
2661459 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
2661474 TTGAAAATAA
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
50 3 0.05
51 53 0.95
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (52 bp):
GGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGTCGGA
Found at i:2661490 original size:130 final size:130
Alignment explanation
Indices: 2661147--2661563 Score: 502
Period size: 130 Copynumber: 3.2 Consensus size: 130
2661137 AAATAATAGG
* * * *
2661147 GTTGGAGTATCCCCGATTAT-AGAAAATCGATATTTTGAAGAAA-AAA-TCAGGATTGGAGTATC
1 GTTGAAGTATCCCCGATTGTGAG-AGATCAATATTTTG--GAAATAAAGTCAGGATTGGAGTATC
* * * *
2661209 CCCATGAAAATAATAGGGTTAGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAGACC
63 CCCTTGAAAATAACAGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAGATC
*
2661274 GGG
128 GGA
*
2661277 GTTGAAGTATCCCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGTCAGGATTGGAGTATCC
1 GTTGAAGTAT--CCCCGATTGTGAGAGATCAATATTTTGGAAATAAAGTCAGGATTGGAGTATCC
* * ** *
2661342 CCTCGGAAATAACAGGGTTGGAGTATCCTTGATTGTGAGAAATCAATATTTTAGAAATAAGGTCG
64 CCTTGAAAATAACAGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAGATCG
2661407 GA
129 GA
*
2661409 GTTGAAGTATCCCCGATTGTGAGAGATCAATATTTTGGAAATAAAGCTGAGG-TTGGAGTATCCC
1 GTTGAAGTATCCCCGATTGTGAGAGATCAATATTTTGGAAATAAAG-TCAGGATTGGAGTATCCC
* * * *** * * * *
2661473 CTTGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAATCAG
65 CTTGAAAATAACAGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAGATCGG
2661538 A
130 A
*
2661539 GTTGGAGTATCCCCGATTGTG-GAGA
1 GTTGAAGTATCCCCGATTGTGAGAGA
2661564 ATTGGTGTTT
Statistics
Matches: 250, Mismatches: 31, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
129 4 0.02
130 131 0.52
131 7 0.03
132 106 0.42
133 2 0.01
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (130 bp):
GTTGAAGTATCCCCGATTGTGAGAGATCAATATTTTGGAAATAAAGTCAGGATTGGAGTATCCCC
TTGAAAATAACAGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAGATCGGA
Found at i:2661551 original size:51 final size:51
Alignment explanation
Indices: 2661488--2661584 Score: 158
Period size: 51 Copynumber: 1.9 Consensus size: 51
2661478 AAATAACGGG
*
2661488 GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAATCAGA
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAATCAGA
* * *
2661539 GTTGGAGTATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAA
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAA
2661585 CTGGGGTAGG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.33, C:0.09, G:0.26, T:0.32
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAATCAGA
Found at i:2661580 original size:130 final size:129
Alignment explanation
Indices: 2661147--2661610 Score: 479
Period size: 130 Copynumber: 3.6 Consensus size: 129
2661137 AAATAATAGG
* * * * *
2661147 GTTGGAGTATCCCCGATTATAGAAAATCGATATTTTGAAGAAA-AAA--TCAGGATTGGAGTATC
1 GTTGAAGTATCCCCGATTGT-GAGAATCAATATTTTG--GAAATAAAGCTGAGG-TTGGAGTATC
* * *
2661209 CCCAT-GAAAATAATAGGGTTAGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAGAC
62 CCC-TCGAAAATAACAGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAGAT
*
2661273 CGGG
126 CGGA
*
2661277 GTTGAAGTATCCCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAG-TCAGGATTGGAGTATC
1 GTTGAAGTAT--CCCCGATTGTGAG-AATCAATATTTTGGAAATAAAGCTGAGG-TTGGAGTATC
* ** *
2661341 CCCTCGGAAATAACAGGGTTGGAGTATCCTTGATTGTGAGAAATCAATATTTTAGAAATAAGGTC
62 CCCTCGAAAATAACAGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAGATC
2661406 GGA
127 GGA
2661409 GTTGAAGTATCCCCGATTGTGAGAGATCAATATTTTGGAAATAAAGCTGAGGTTGGAGTATCCCC
1 GTTGAAGTATCCCCGATTGTGAGA-ATCAATATTTTGGAAATAAAGCTGAGGTTGGAGTATCCCC
* * * * *** * * * *
2661474 TTGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAATCAGA
65 TCGAAAATAACAGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAGATCGGA
* *** * * * * * *
2661539 GTTGGAGTATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAACTGGGGTAGGAGTATCTCC
1 GTTGAAGTATCCCCGATTGT-GAGAATCAATATTTTGGAAATAAAGCTGAGGTTGGAGTATCCCC
2661604 TCGAAAA
65 TCGAAAA
2661611 AATCTAGATA
Statistics
Matches: 286, Mismatches: 39, Indels: 18
0.83 0.11 0.05
Matches are distributed among these distances:
129 1 0.00
130 166 0.58
131 14 0.05
132 105 0.37
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (129 bp):
GTTGAAGTATCCCCGATTGTGAGAATCAATATTTTGGAAATAAAGCTGAGGTTGGAGTATCCCCT
CGAAAATAACAGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAGATCGGA
Found at i:2661597 original size:51 final size:51
Alignment explanation
Indices: 2661484--2661600 Score: 155
Period size: 51 Copynumber: 2.3 Consensus size: 51
2661474 TTGAAAATAA
*
2661484 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAAT
* * * * *
2661535 CAGAGTTGGAGTATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAA-
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAAT
*
2661585 CTGGGGTAGGAGTATC
1 C-GGGGTTGGAGTATC
2661601 TCCTCGAAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
50 1 0.02
51 55 0.98
ACGTcount: A:0.30, C:0.10, G:0.30, T:0.30
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAAT
Found at i:2663942 original size:20 final size:19
Alignment explanation
Indices: 2663919--2663967 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 19
2663909 GATATATTGT
2663919 AAAATGTATCGATACAATG
1 AAAATGTATCGATACAATG
*
2663938 CAAAATTTATCGATACAATG
1 -AAAATGTATCGATACAATG
2663958 AACAATGTAT
1 AA-AATGTAT
2663968 TAATACAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 2 0.08
20 24 0.92
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.29
Consensus pattern (19 bp):
AAAATGTATCGATACAATG
Found at i:2664455 original size:23 final size:22
Alignment explanation
Indices: 2664407--2664454 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
2664397 AGTAAAACAG
*
2664407 AAAATAATGAACAAATTTACAT
1 AAAATAATGAACAAATATACAT
*
2664429 AAAATAAATGCACAAA-ATACAT
1 AAAAT-AATGAACAAATATACAT
2664451 AAAA
1 AAAA
2664455 AAGAGAGGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.65, C:0.10, G:0.04, T:0.21
Consensus pattern (22 bp):
AAAATAATGAACAAATATACAT
Found at i:2664937 original size:80 final size:81
Alignment explanation
Indices: 2664832--2665157 Score: 303
Period size: 80 Copynumber: 4.1 Consensus size: 81
2664822 CTAGAAATAA
*
2664832 AAAAAC-AGGATTAGAGTAT-CCCTTGAAAATGATGGGGTTGGAGTATCCCCTACGATGAAAATT
1 AAAAACGAGG-TTAGAGTATCCCCTTGAAAATGATGGGGTTGGAGTATCCCCTAAGATGAAAATT
*
2664895 TCAG-TTTTTTACAAAT
65 TCAGATTTTTTACAAGT
* * *
2664911 AAAAATGAGGTTAGAGTATCCCCTTGAAAAT-AGTGGGGGTTAGAGTATCTCCTAAGATGAAAAT
1 AAAAACGAGGTTAGAGTATCCCCTTGAAAATGA-T-GGGGTTGGAGTATCCCCTAAGATGAAAAT
* *
2664975 TTC-GATGTTTTAGAAGT
64 TTCAGATTTTTTACAAGT
* * * * * * *
2664992 AAAAACAAGGTTAGAGTATCCCCAT-AGAGATGGTGGGGTTGAAGTATCCCCAAAAATGAAAATT
1 AAAAACGAGGTTAGAGTATCCCCTTGA-AAATGATGGGGTTGGAGTATCCCCTAAGATGAAAATT
* * *
2665056 T-TGATATTTTAGAAGT
65 TCAGATTTTTTACAAGT
* * * * ** *
2665072 AAAAACGGGGCTGGAGTATCCCTTTGAAAATGACAGGGTTGGAGTAT-CCCTAGAGATGAAGAAA
1 AAAAACGAGGTTAGAGTATCCCCTTGAAAATGATGGGGTTGGAGTATCCCCTA-AGATGAA-AAT
2665136 TTCAG-TTTTTTAGC-AGT
64 TTCAGATTTTTTA-CAAGT
2665153 AAAAA
1 AAAAA
2665158 TGGGCTTGGA
Statistics
Matches: 199, Mismatches: 35, Indels: 24
0.77 0.14 0.09
Matches are distributed among these distances:
79 19 0.10
80 96 0.48
81 83 0.42
82 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.29
Consensus pattern (81 bp):
AAAAACGAGGTTAGAGTATCCCCTTGAAAATGATGGGGTTGGAGTATCCCCTAAGATGAAAATTT
CAGATTTTTTACAAGT
Found at i:2664957 original size:81 final size:80
Alignment explanation
Indices: 2664786--2665131 Score: 285
Period size: 80 Copynumber: 4.3 Consensus size: 80
2664776 GAGACGGTGA
* * * *
2664786 GGTTAGAGTAT-CCCTAGAGATGTAAAA-TTCGGTGTTCTAGAAATAAAAAAACAGGATTAGAGT
1 GGTTAGAGTATCCCCTA-AGATG-AAAATTTCGATGTTTTACAAATAAAAACA-AGG-TTAGAGT
2664849 AT-CCCTTGAAAATGATGG
62 ATCCCCTTGAAAATGATGG
* * * **
2664867 GGTTGGAGTATCCCCTACGATGAAAATTTC-AGTTTTTTACAAATAAAAATGAGGTTAGAGTATC
1 GGTTAGAGTATCCCCTAAGATGAAAATTTCGA-TGTTTTACAAATAAAAACAAGGTTAGAGTATC
2664931 CCCTTGAAAAT-AGTGGG
65 CCCTTGAAAATGA-T-GG
* * *
2664948 GGTTAGAGTATCTCCTAAGATGAAAATTTCGATGTTTTAGAAGTAAAAACAAGGTTAGAGTATCC
1 GGTTAGAGTATCCCCTAAGATGAAAATTTCGATGTTTTACAAATAAAAACAAGGTTAGAGTATCC
* * *
2665013 CCAT-AGAGATGGTGG
66 CCTTGA-AAATGATGG
* * * * * * ** * *
2665028 GGTT-GAAGTATCCCCAAAAATGAAAATTTTGATATTTTAGAAGTAAAAACGGGGCTGGAGTATC
1 GGTTAG-AGTATCCCCTAAGATGAAAATTTCGATGTTTTACAAATAAAAACAAGGTTAGAGTATC
* **
2665092 CCTTTGAAAATGACAG
65 CCCTTGAAAATGATGG
*
2665108 GGTTGGAGTAT-CCCTAGAGATGAA
1 GGTTAGAGTATCCCCTA-AGATGAA
2665132 GAAATTCAGT
Statistics
Matches: 216, Mismatches: 36, Indels: 27
0.77 0.13 0.10
Matches are distributed among these distances:
79 15 0.07
80 98 0.45
81 97 0.45
82 6 0.03
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.28
Consensus pattern (80 bp):
GGTTAGAGTATCCCCTAAGATGAAAATTTCGATGTTTTACAAATAAAAACAAGGTTAGAGTATCC
CCTTGAAAATGATGG
Found at i:2665156 original size:161 final size:161
Alignment explanation
Indices: 2664786--2665157 Score: 387
Period size: 161 Copynumber: 2.3 Consensus size: 161
2664776 GAGACGGTGA
* * *
2664786 GGTTAGAGTATCCCTAGAGATGTAAAATTCGGTGTTCTAGAAATAAAAAAACAGGATTAGAGTAT
1 GGTTAGAGTATCCCTAGAGATGAAAAATTC-GTGTTTTAGAAGTAAAAAAACAGGATTAGAGTAT
* * * ** *
2664851 CCCTTGAAAATGATGGGGTTGGAGTATCCCCTACGATGAAAATTTCAGTTTTTTACAAATAAAAA
65 CCCTAGAAAATGATGGGGTTGAAGTATCCCCAAAAATGAAAATTTCAGTATTTTACAAATAAAAA
* * ***
2664916 TGAGGTTAGAGTATCCCCTTGAAAATAGTGGG
130 CGAGGCTAGAGTATCCCCTTGAAAATAGACAG
* *
2664948 GGTTAGAGTATCTCCTA-AGATGAAAATTTCGATGTTTTAGAAGTAAAAACA-AGG-TTAGAGTA
1 GGTTAGAGTATC-CCTAGAGATGAAAAATTCG-TGTTTTAGAAGTAAAAAAACAGGATTAGAGTA
* * * * *
2665010 TCCCCATAG-AGATGGTGGGGTTGAAGTATCCCCAAAAATGAAAATTT-TGATATTTTAGAAGTA
64 T-CCC-TAGAAAATGATGGGGTTGAAGTATCCCCAAAAATGAAAATTTCAG-TATTTTACAAATA
* * *
2665073 AAAACGGGGCTGGAGTATCCCTTTGAAAAT-GACAG
126 AAAACGAGGCTAGAGTATCCCCTTGAAAATAGACAG
* * *
2665108 GGTTGGAGTATCCCTAGAGATGAAGAAATTCAGTTTTTTAGCAGTAAAAA
1 GGTTAGAGTATCCCTAGAGATGAA-AAATTC-GTGTTTTAGAAGTAAAAA
2665158 TGGGCTTGGA
Statistics
Matches: 174, Mismatches: 28, Indels: 17
0.79 0.13 0.08
Matches are distributed among these distances:
159 4 0.02
160 30 0.17
161 94 0.54
162 42 0.24
163 4 0.02
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.29
Consensus pattern (161 bp):
GGTTAGAGTATCCCTAGAGATGAAAAATTCGTGTTTTAGAAGTAAAAAAACAGGATTAGAGTATC
CCTAGAAAATGATGGGGTTGAAGTATCCCCAAAAATGAAAATTTCAGTATTTTACAAATAAAAAC
GAGGCTAGAGTATCCCCTTGAAAATAGACAG
Found at i:2665205 original size:51 final size:52
Alignment explanation
Indices: 2665110--2665225 Score: 144
Period size: 51 Copynumber: 2.2 Consensus size: 52
2665100 AATGACAGGG
* * *
2665110 TTGGAGTATCCCTAGAGATGAAGAAATTCAGTTTTTTAGCAGTAAAAATGGGC
1 TTGGAGTAT-CCTAGAGATGAAGAAATTCAATATTTTAGCAGTAAAAACGGGC
* * * *
2665163 TTGGAGTATCCTCGAGATGAA-AAATTCAATATTTTGGTAGTAAAAACGGGG
1 TTGGAGTATCCTAGAGATGAAGAAATTCAATATTTTAGCAGTAAAAACGGGC
*
2665214 TTAGAGTATCCT
1 TTGGAGTATCCT
2665226 TTTGGAAATA
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
51 35 0.64
52 11 0.20
53 9 0.16
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.31
Consensus pattern (52 bp):
TTGGAGTATCCTAGAGATGAAGAAATTCAATATTTTAGCAGTAAAAACGGGC
Found at i:2669108 original size:163 final size:163
Alignment explanation
Indices: 2668939--2669331 Score: 348
Period size: 163 Copynumber: 2.4 Consensus size: 163
2668929 TTATGGGAGT
* ** * *
2668939 TAAATAACAACATTATAT-GAGTTTAAAAATTTCAAACCAAGAGAAATCCCTTGGAAAAAATTTA
1 TAAATAACAACATTATATAAAGTTTAAAAA-TAAAAACCAAGAAAAATCCCTTCGAAAAAATTTA
* *
2669003 CGAAGAAGAAAACTCAGT-TTTTCGAAAAAAAAAGAATTTCAA-CAAAAAATCAAAAACTCATGA
65 CGAAGAAGAAAACACAGTATTTT--AAAAAAAAAGAATTTCAAGCAAAAAATAAAAAACTCATGA
* * *
2669066 AAATAAATTAATTTTTTTAAAA-TGAAGTACTATGAA
128 AAATAAATGAA-TTTTTGAAAACTGAAGTAATATGAA
** * * * * * *
2669102 TAAATAATGATATTTTATAAATTTTCAAAATAAAAATCAAGAAAAATCCCTTCGAAAAAATTTAT
1 TAAATAACAACATTATATAAAGTTTAAAAATAAAAACCAAGAAAAATCCCTTCGAAAAAATTTAC
* * * ** * * *
2669167 GGAGTAGAAAACACCGTATTTTAAAAAAAGGGAGTTTCAAGGAAAAAATAAAAAATTCATGAAAA
66 GAAGAAGAAAACACAGTATTTTAAAAAAAAAGAATTTCAAGCAAAAAATAAAAAACTCATGAAAA
* *
2669232 TGAATGAATTTTTGAAAACTGAATTAATATGAA
131 TAAATGAATTTTTGAAAACTGAAGTAATATGAA
** ** * * * *
2669265 TCAAATAATGATGTT-TGATAAATTTTAAAAATTGAAAACCGAGAAAAA-ACCTCTCGAAAAAAT
1 T-AAATAACAACATTAT-ATAAAGTTTAAAAA-TAAAAACCAAGAAAAATCCCT-TCGAAAAAAT
2669328 TTAC
62 TTAC
2669332 AGACTAGAAA
Statistics
Matches: 187, Mismatches: 35, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
162 24 0.13
163 97 0.52
164 40 0.21
165 26 0.14
ACGTcount: A:0.51, C:0.10, G:0.11, T:0.28
Consensus pattern (163 bp):
TAAATAACAACATTATATAAAGTTTAAAAATAAAAACCAAGAAAAATCCCTTCGAAAAAATTTAC
GAAGAAGAAAACACAGTATTTTAAAAAAAAAGAATTTCAAGCAAAAAATAAAAAACTCATGAAAA
TAAATGAATTTTTGAAAACTGAAGTAATATGAA
Found at i:2669388 original size:154 final size:154
Alignment explanation
Indices: 2669209--2669507 Score: 372
Period size: 154 Copynumber: 1.9 Consensus size: 154
2669199 AGTTTCAAGG
* * *
2669209 AAAAAATAAAAAATTCATGAAAATGAATGAATTTTTGAAAACTGAA-TTAATAT-GAATCAAATA
1 AAAAAATAAAAAACTCATGAAAATGAATGAATTTTTGAAAAAT-AAGTTAATATAAAAT-AAATA
* ** * * *
2669272 ATGATGTTTGATAAATTTTAAAA-ATTGAAAACCGAGAAAAAAC-CTCTCGAAAAAATTTACAGA
64 ATAACATTTGATAAATTTTAAAATA-TAAAAACCAAGAAAAAACAC-CTCGAAAAAAATTACAGA
2669335 CTAGAAAATACCGTATTTTGAACGAGGA
127 CTAGAAAATACCGTATTTTGAACGAGGA
* *
2669363 AAAAAATCAAAAACTCATGAAAATGAATGAATTTTTGAAAAATAAGTTAATATAAAATAAATGAT
1 AAAAAATAAAAAACTCATGAAAATGAATGAATTTTTGAAAAATAAGTTAATATAAAATAAATAAT
* * * * * **
2669428 AACATTTGATGAATTTTAAAATATAAAAATCAAGAAAAATCACGTCGAAAAAAATTACGGGGTAG
66 AACATTTGATAAATTTTAAAATATAAAAACCAAGAAAAAACACCTCGAAAAAAATTACAGACTAG
2669493 AAAATACCGTATTTT
131 AAAATACCGTATTTT
2669508 AGAAAAAAGG
Statistics
Matches: 123, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
153 2 0.02
154 116 0.94
155 5 0.04
ACGTcount: A:0.52, C:0.08, G:0.12, T:0.27
Consensus pattern (154 bp):
AAAAAATAAAAAACTCATGAAAATGAATGAATTTTTGAAAAATAAGTTAATATAAAATAAATAAT
AACATTTGATAAATTTTAAAATATAAAAACCAAGAAAAAACACCTCGAAAAAAATTACAGACTAG
AAAATACCGTATTTTGAACGAGGA
Found at i:2670790 original size:42 final size:42
Alignment explanation
Indices: 2670669--2670790 Score: 145
Period size: 43 Copynumber: 2.9 Consensus size: 42
2670659 CAGGGAAAAA
* *
2670669 AGATGAAGAAGTTTCCTGAGTCTGAGTCAACAGGCAGACGAT
1 AGATGAAGAAGTCTCCTGAGTCTGAGCCAACAGGCAGACGAT
* * ** *
2670711 AGATGAAAGAAATCTCCTGAGTCTAAGCTGACGGGCAGACGAT
1 AGATG-AAGAAGTCTCCTGAGTCTGAGCCAACAGGCAGACGAT
* * *
2670754 GGATGAAGAAGTCTCCTGGGCCTGAGCCAACAGGCAG
1 AGATGAAGAAGTCTCCTGAGTCTGAGCCAACAGGCAG
2670791 GTAATTGATA
Statistics
Matches: 64, Mismatches: 15, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
42 30 0.47
43 34 0.53
ACGTcount: A:0.32, C:0.20, G:0.30, T:0.18
Consensus pattern (42 bp):
AGATGAAGAAGTCTCCTGAGTCTGAGCCAACAGGCAGACGAT
Found at i:2671866 original size:78 final size:78
Alignment explanation
Indices: 2671747--2671965 Score: 255
Period size: 78 Copynumber: 2.8 Consensus size: 78
2671737 TGGGATATGG
* * *
2671747 CCCTTATGGCCATGTGATGCATCAATACCATTTAGTATTTAGGAAAGAAGGATATGATTGGGAAT
1 CCCTT-TGGCCATGTGATGCAACAATATCATCTAGTATTTAGGAAAGAAGGATATGATTGGGAAT
* *
2671812 GCATGGGAA--ACGT
65 GCATAGGAACTAC-C
* * *
2671825 CCCTCTTGGCCATGTGATGCAACAATATCATCTAGTGTTTAGGAATGAAGGATATGATTAGGAAT
1 CCCT-TTGGCCATGTGATGCAACAATATCATCTAGTATTTAGGAAAGAAGGATATGATTGGGAAT
**
2671890 GTGTAGGAACTACC
65 GCATAGGAACTACC
* * * *
2671904 CCCTTTGGCCTTGTGATGCACCAATATCATCTAGCATTTAGGAAAGAAGAGA-ATGACTGGGA
1 CCCTTTGGCCATGTGATGCAACAATATCATCTAGTATTTAGGAAAGAAG-GATATGATTGGGA
2671966 GTAAGTGGTC
Statistics
Matches: 120, Mismatches: 17, Indels: 8
0.83 0.12 0.06
Matches are distributed among these distances:
78 111 0.93
79 7 0.06
80 2 0.02
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (78 bp):
CCCTTTGGCCATGTGATGCAACAATATCATCTAGTATTTAGGAAAGAAGGATATGATTGGGAATG
CATAGGAACTACC
Found at i:2674212 original size:361 final size:361
Alignment explanation
Indices: 2673546--2674274 Score: 1413
Period size: 361 Copynumber: 2.0 Consensus size: 361
2673536 ATTCAATGCC
2673546 AATCTCCTCAAAGTTCTTTTGTCATTTTTCGAGGCACTTAATGGGTATAATCGATCTTTCAAGTA
1 AATCTCCTCAAAGTTCTTTTGTCATTTTTCGAGGCACTTAATGGGTATAATCGATCTTTCAAGTA
2673611 ATTCCTAATGTCATGATACCATGGGAGGCTGTTTGTCTCAATCTTGACATTATGGCAATAGGTAG
66 ATTCCTAATGTCATGATACCATGGGAGGCTGTTTGTCTCAATCTTGACATTATGGCAATAGGTAG
*
2673676 GGGACTCGTATGTGTTCATCTTAATAGGTGTCGTCTCTTGCTTTTTATTTATTTTAAACATTGAG
131 GGGACTCGTATGTGTTCATCTTAATAGGTGTCGTCTCTTGCCTTTTATTTATTTTAAACATTGAG
2673741 GCCAAGGTTGCTAGAGCATCTGCCATCTGATTATCATCTCAGGATAAGTGGACAAAGTCTACTTC
196 GCCAAGGTTGCTAGAGCATCTGCCATCTGATTATCATCTCAGGATAAGTGGACAAAGTCTACTTC
*
2673806 CTTAAATTCTTCTAACAACTCTAAAATCAACTTTTTATATTACTGAAGCCTTAGATCTCGCGTTT
261 CTTAAATTCTTCTAACAACTCTAAAATCAACTTTTTATATTACTGAAGCCTTAGATCTCGCATTT
2673871 CCCATTCTCCACGCAATTGATAGATTACCAAAGCTG
326 CCCATTCTCCACGCAATTGATAGATTACCAAAGCTG
*
2673907 AATCTCCTCAAAGTTCTTTTGTCATTTTTTGAGGCACTTAATGGGTATAATCGATCTTTCAAGTA
1 AATCTCCTCAAAGTTCTTTTGTCATTTTTCGAGGCACTTAATGGGTATAATCGATCTTTCAAGTA
2673972 ATTCCTAATGTCATGATACCATGGGAGGCTGTTTGTCTCAATCTTGACATTATGGCAATAGGTAG
66 ATTCCTAATGTCATGATACCATGGGAGGCTGTTTGTCTCAATCTTGACATTATGGCAATAGGTAG
2674037 GGGACTCGTATGTGTTCATCTTAATAGGTGTCGTCTCTTGCCTTTTATTTATTTTAAACATTGAG
131 GGGACTCGTATGTGTTCATCTTAATAGGTGTCGTCTCTTGCCTTTTATTTATTTTAAACATTGAG
*
2674102 GCCAAGGTTGCTAGAGCATCTGCCATCTGATTATCATCTTAGGATAAGTGGACAAAGTCTACTTC
196 GCCAAGGTTGCTAGAGCATCTGCCATCTGATTATCATCTCAGGATAAGTGGACAAAGTCTACTTC
*
2674167 CTTAAATTCTTCTAACAACTCTAAAATCAACTTTTTATGTTACTGAAGCCTTAGATCTCGCATTT
261 CTTAAATTCTTCTAACAACTCTAAAATCAACTTTTTATATTACTGAAGCCTTAGATCTCGCATTT
2674232 CCCATTCTCCACGCAATTGATAGATTACCAAAGCTG
326 CCCATTCTCCACGCAATTGATAGATTACCAAAGCTG
2674268 AATCTCC
1 AATCTCC
2674275 ATAGACTTTT
Statistics
Matches: 363, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
361 363 1.00
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (361 bp):
AATCTCCTCAAAGTTCTTTTGTCATTTTTCGAGGCACTTAATGGGTATAATCGATCTTTCAAGTA
ATTCCTAATGTCATGATACCATGGGAGGCTGTTTGTCTCAATCTTGACATTATGGCAATAGGTAG
GGGACTCGTATGTGTTCATCTTAATAGGTGTCGTCTCTTGCCTTTTATTTATTTTAAACATTGAG
GCCAAGGTTGCTAGAGCATCTGCCATCTGATTATCATCTCAGGATAAGTGGACAAAGTCTACTTC
CTTAAATTCTTCTAACAACTCTAAAATCAACTTTTTATATTACTGAAGCCTTAGATCTCGCATTT
CCCATTCTCCACGCAATTGATAGATTACCAAAGCTG
Found at i:2684714 original size:125 final size:127
Alignment explanation
Indices: 2684490--2684720 Score: 342
Period size: 125 Copynumber: 1.8 Consensus size: 127
2684480 TGTCATTTCA
* *
2684490 TACCTTAATGGATACCTACAAAGAGACGACAATTTTTTGAAATCTTGTATACCCCTACGGATACC
1 TACCTTAATGGAAACCGACAAAGAGACGACAATTTTTTGAAATCTTGTATACCCCTACGGATACC
* *
2684555 TATAGGAATATAAAAGATTAAAAACAATTAATATTT-TTTATTTTGGAAAAAAATCATTTTG
66 CATAGGAATATAAAAGACTAAAAACAATTAATATTTGTTTATTTTGGAAAAAAATCATTTTG
* * *
2684616 TACCTTAATGGAAACCCGA-AAAGATACGA-AATTTTTTGAAATCTTTTATACCCCTGCGGATAC
1 TACCTTAATGGAAA-CCGACAAAGAGACGACAATTTTTTGAAATCTTGTATACCCCTACGGATAC
** *
2684679 CCATAGGAATATAAAAGACTAAAAATGATTCATATTTGTTTA
65 CCATAGGAATATAAAAGACTAAAAACAATTAATATTTGTTTA
2684721 AATTAACGGA
Statistics
Matches: 93, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
125 64 0.69
126 26 0.28
127 3 0.03
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.33
Consensus pattern (127 bp):
TACCTTAATGGAAACCGACAAAGAGACGACAATTTTTTGAAATCTTGTATACCCCTACGGATACC
CATAGGAATATAAAAGACTAAAAACAATTAATATTTGTTTATTTTGGAAAAAAATCATTTTG
Found at i:2684773 original size:153 final size:150
Alignment explanation
Indices: 2684587--2684868 Score: 417
Period size: 153 Copynumber: 1.9 Consensus size: 150
2684577 AACAATTAAT
* ** *
2684587 ATTTTTTATTTTGGAAAAAAATCATTTTGTACCTTAATGGAAACCCGAAAAGATACG-AAATTTT
1 ATTTTTTATTTTGGAAAAAAATCATTTCGTACCTTAATGGAAAAACG-AAAGATACGAAAAGTTT
* *
2684651 TTGA-AATCTTTTATACCCCTGCGGATACCCAT-AGGAATATAAAAGACTAAAAATGATTCATAT
65 TTCAGAATCTTTTATACCCC-GCGGATACCCATGA-GAATATAAAAGACTAAAAATGATTAATAT
2684714 TTGTTTAAATTAACGGAGAGTGA
128 TTGTTTAAATTAACGGAGAGTGA
*
2684737 ATTTATTTATTTTTGGAAAAAAAATCATTTCGTACCTTAATGGAAAAACGAAAGATATGAAAAGT
1 ATTT-TTTA-TTTTGG-AAAAAAATCATTTCGTACCTTAATGGAAAAACGAAAGATACGAAAAGT
*
2684802 TTTTCAGAATCTTTTATACCCCGCGGATACCCATGAGAATATAAAAGATTAAAAATGATTAATAT
63 TTTTCAGAATCTTTTATACCCCGCGGATACCCATGAGAATATAAAAGACTAAAAATGATTAATAT
2684867 TT
128 TT
2684869 TTGCCAAAAA
Statistics
Matches: 118, Mismatches: 8, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
150 4 0.03
151 4 0.03
152 14 0.12
153 80 0.68
154 16 0.14
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (150 bp):
ATTTTTTATTTTGGAAAAAAATCATTTCGTACCTTAATGGAAAAACGAAAGATACGAAAAGTTTT
TCAGAATCTTTTATACCCCGCGGATACCCATGAGAATATAAAAGACTAAAAATGATTAATATTTG
TTTAAATTAACGGAGAGTGA
Found at i:2685946 original size:201 final size:200
Alignment explanation
Indices: 2685587--2685991 Score: 641
Period size: 201 Copynumber: 2.0 Consensus size: 200
2685577 AGGTTAGGAA
* *
2685587 GAAGCTATACCTTCGCTAGTTTGGTTGGAGCAAAAACTAACTTGGTTTTTCACTATTTTTCTCTC
1 GAAGCTATACCTTCGCTAGTTTGGTTGGAGCAAAAACTAACTTGATGTTTCACTATTTTTCTCTC
* * * *
2685652 TTTTCTTTTTCTTTTTCTTCTCTCTTTGCTAGCTGATCATTAACCTTATTTTGCAACAGCTCTTC
66 ATTTCTTTTTCTTTTTCTTCTCTATTTGCTAGCTGACCATTAACCTTATTTCGCAACAGCTCTTC
* *
2685717 CTCTATTTATAGATGTAAGCTTAAGGATTGAATGAACCAAGAGTGGGGTGAATTGGTTCTTATCA
131 CTCTATTTATAGATCTAAGCTCAAGGATTGAATGAACCAAGAG-GGGGTGAATTGGTTCTTATCA
2685782 AAATTT
195 AAATTT
* * *
2685788 GAAGCTATACCTTGGCTAGTTTGGTTGGAGTAAAAACTAGCTTGATGTTTCACTATTTTTCTCTC
1 GAAGCTATACCTTCGCTAGTTTGGTTGGAGCAAAAACTAACTTGATGTTTCACTATTTTTCTCTC
*
2685853 ATTTCTTTCTT-TTTTTCTTCTCTATTTGCTAGCTGACCATTAACCTTATTTCGCAATAGCTCTT
66 ATTTCTTT-TTCTTTTTCTTCTCTATTTGCTAGCTGACCATTAACCTTATTTCGCAACAGCTCTT
* * * *
2685917 CCTCTATTTATAGATCTAAGCTCAAGGATTGAATGAACTAAGAGGTGGTGAATTGGTTGTTATCG
130 CCTCTATTTATAGATCTAAGCTCAAGGATTGAATGAACCAAGAGGGGGTGAATTGGTTCTTATCA
2685982 AAATTT
195 AAATTT
2685988 GAAG
1 GAAG
2685992 ATTTTGAAAG
Statistics
Matches: 187, Mismatches: 16, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
200 28 0.15
201 157 0.84
202 2 0.01
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.42
Consensus pattern (200 bp):
GAAGCTATACCTTCGCTAGTTTGGTTGGAGCAAAAACTAACTTGATGTTTCACTATTTTTCTCTC
ATTTCTTTTTCTTTTTCTTCTCTATTTGCTAGCTGACCATTAACCTTATTTCGCAACAGCTCTTC
CTCTATTTATAGATCTAAGCTCAAGGATTGAATGAACCAAGAGGGGGTGAATTGGTTCTTATCAA
AATTT
Found at i:2686944 original size:13 final size:13
Alignment explanation
Indices: 2686926--2686951 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2686916 CAATTTTTTG
2686926 TGTATCGATACAT
1 TGTATCGATACAT
2686939 TGTATCGATACAT
1 TGTATCGATACAT
2686952 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2687038 original size:20 final size:20
Alignment explanation
Indices: 2687013--2687085 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
2687003 TCTTTTTTTT
2687013 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
2687033 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
2687054 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
2687074 ATGTATCGATAC
1 ATGTATCGATAC
2687086 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:2687058 original size:21 final size:21
Alignment explanation
Indices: 2686990--2687067 Score: 77
Period size: 21 Copynumber: 3.7 Consensus size: 21
2686980 CTGCCAAGAA
* *
2686990 ATGTATTGATACATCTTTTTTTT
1 ATGTATCGATACATC--TTTTTC
****
2687013 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
2687033 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
2687054 ATGTATCGATACAT
1 ATGTATCGATACAT
2687068 TGCAACATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
20 15 0.34
21 16 0.36
23 13 0.30
ACGTcount: A:0.28, C:0.15, G:0.12, T:0.45
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:2687064 original size:41 final size:42
Alignment explanation
Indices: 2686990--2687085 Score: 158
Period size: 41 Copynumber: 2.3 Consensus size: 42
2686980 CTGCCAAGAA
* *
2686990 ATGTATTGATACATCTTTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATC-TTTTTTCATGTATCGATACATTGCAAC
2687033 ATGTATCGATACATC-TTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
2687074 ATGTATCGATAC
1 ATGTATCGATAC
2687086 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
41 37 0.73
43 14 0.27
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (42 bp):
ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
Found at i:2689546 original size:13 final size:13
Alignment explanation
Indices: 2689528--2689552 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2689518 ATAATCACCC
2689528 TGTATCGATACAG
1 TGTATCGATACAG
2689541 TGTATCGATACA
1 TGTATCGATACA
2689553 TTTTGGACAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:2691587 original size:15 final size:15
Alignment explanation
Indices: 2691567--2691597 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2691557 ATTTCGTTTG
*
2691567 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
2691582 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
2691597 G
1 G
2691598 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:2695677 original size:13 final size:13
Alignment explanation
Indices: 2695659--2695684 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2695649 CAATTTTTTG
2695659 TGTATCGATACAT
1 TGTATCGATACAT
2695672 TGTATCGATACAT
1 TGTATCGATACAT
2695685 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2695771 original size:20 final size:20
Alignment explanation
Indices: 2695746--2695818 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
2695736 TCTTTTTTTT
2695746 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
2695766 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
2695787 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
2695807 ATGTATCGATAC
1 ATGTATCGATAC
2695819 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:2695797 original size:41 final size:42
Alignment explanation
Indices: 2695723--2695818 Score: 167
Period size: 41 Copynumber: 2.3 Consensus size: 42
2695713 CTGCCAAGAA
*
2695723 ATGTATCGATACATCTTTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATC-TTTTTTCATGTATCGATACATTGCAAC
2695766 ATGTATCGATACATC-TTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
2695807 ATGTATCGATAC
1 ATGTATCGATAC
2695819 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
41 37 0.71
43 15 0.29
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (42 bp):
ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
Found at i:2696321 original size:35 final size:32
Alignment explanation
Indices: 2696282--2696348 Score: 91
Period size: 35 Copynumber: 2.0 Consensus size: 32
2696272 GTGTTTATGA
2696282 AAAGAATAAGC-ACAAAGGAATACAAATGAGCTTTT
1 AAAGAATAA-CAACAAA-GAATACAAA--AGCTTTT
2696317 AAAGAATAACAACAAAGAATACAAAAGCTTTT
1 AAAGAATAACAACAAAGAATACAAAAGCTTTT
2696349 TGGAGTGTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
32 7 0.23
34 10 0.32
35 14 0.45
ACGTcount: A:0.55, C:0.12, G:0.13, T:0.19
Consensus pattern (32 bp):
AAAGAATAACAACAAAGAATACAAAAGCTTTT
Found at i:2704205 original size:13 final size:13
Alignment explanation
Indices: 2704187--2704211 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2704177 CATCATGCTT
2704187 TGTATCGATACAA
1 TGTATCGATACAA
2704200 TGTATCGATACA
1 TGTATCGATACA
2704212 TGTTCATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2704242 original size:20 final size:20
Alignment explanation
Indices: 2704196--2704252 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 20
2704186 TTGTATCGAT
*
2704196 ACAA-TGTATCGATACATGT
1 ACAATTGTATCGATACATGG
* *
2704215 TC-ATTGTATCGATATATGG
1 ACAATTGTATCGATACATGG
*
2704234 ACAATTGTATTGATACATG
1 ACAATTGTATCGATACATG
2704253 AAACTAGCAG
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
18 1 0.03
19 15 0.50
20 14 0.47
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (20 bp):
ACAATTGTATCGATACATGG
Found at i:2710666 original size:20 final size:21
Alignment explanation
Indices: 2710629--2710669 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
2710619 TTACAAATTT
*
2710629 CTTCTTTTTTTACTTCAAAATA
1 CTTCATTTTTTAC-TCAAAATA
2710651 CTTCATTTTTTA-TCAAAAT
1 CTTCATTTTTTACTCAAAAT
2710670 CACCAACAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
22 11 0.61
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (21 bp):
CTTCATTTTTTACTCAAAATA
Found at i:2711700 original size:231 final size:231
Alignment explanation
Indices: 2711297--2711734 Score: 804
Period size: 231 Copynumber: 1.9 Consensus size: 231
2711287 AAGCCTAAAT
* * *
2711297 GTATCGGTTCGCGAGAACCTTGTCTGGGCCTTCCTTAGTAACGCTCGTCTTGAGCATAACAATAG
1 GTATCGGTTAGCGAGAACCTTGTCTGGGCCTTCCTTAGTAACGCTCATCTCGAGCATAACAATAG
2711362 CAACGAAGTTATTGCTATTCACTCCTACCTCATGGGTCAAGACTTGATCCTTACCCCCTCCATTC
66 CAACGAAGTTATTGCTATTCACTCCTACCTCATGGGTCAAGACTTGATCCTTACCCCCTCCATTC
* *
2711427 TAGCTGACACACTAAACATGCTATATGAGGGAGAGACCAAAGAGGGTACGGCTCCTCGTAACACT
131 TAGCCGACACACTAAACATGCCATATGAGGGAGAGACCAAAGAGGGTACGGCTCCTCGTAACACT
2711492 AGAGTTCCCCTAGTACTTGCCTTCCACCACATGATC
196 AGAGTTCCCCTAGTACTTGCCTTCCACCACATGATC
* *
2711528 GTATCGGTTAGCGAGAACCTTGTTTGGGCCTTCCTTAGTAACGCTCATCTCGAGCATAACGATAG
1 GTATCGGTTAGCGAGAACCTTGTCTGGGCCTTCCTTAGTAACGCTCATCTCGAGCATAACAATAG
*
2711593 CAACGAAGTTGTTGCTATTCACTCCTACCTCATGGGTCAAGACTTGATCCTTACCCCCTCCATTC
66 CAACGAAGTTATTGCTATTCACTCCTACCTCATGGGTCAAGACTTGATCCTTACCCCCTCCATTC
2711658 TAGCCGACACACTAAACATGCCATATGAGGGAGAGACCAAAGAGGGTACGGCTCCTCGTAACACT
131 TAGCCGACACACTAAACATGCCATATGAGGGAGAGACCAAAGAGGGTACGGCTCCTCGTAACACT
2711723 AGAGTTCCCCTA
196 AGAGTTCCCCTA
2711735 AATAAAGGTA
Statistics
Matches: 199, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
231 199 1.00
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (231 bp):
GTATCGGTTAGCGAGAACCTTGTCTGGGCCTTCCTTAGTAACGCTCATCTCGAGCATAACAATAG
CAACGAAGTTATTGCTATTCACTCCTACCTCATGGGTCAAGACTTGATCCTTACCCCCTCCATTC
TAGCCGACACACTAAACATGCCATATGAGGGAGAGACCAAAGAGGGTACGGCTCCTCGTAACACT
AGAGTTCCCCTAGTACTTGCCTTCCACCACATGATC
Found at i:2714527 original size:201 final size:200
Alignment explanation
Indices: 2714168--2714572 Score: 634
Period size: 201 Copynumber: 2.0 Consensus size: 200
2714158 AGGTTAGGAA
* *
2714168 GAAGCTATACCTTCGCTAGTTTGGTTGGAGCAAAAACTAACTTGGTTTTTCACTATTTTTCTCTC
1 GAAGCTATACCTTCGCTAGTTTGGTTGGAGCAAAAACTAACTTGATGTTTCACTATTTTTCTCTC
* * *
2714233 TTTTCTTTTTCTTTTTCTTCTCTCTTTGCTAGCTGATCATTAACCTTATTTTGCAACAGCTCTTC
66 ATTTCTTTTTCTTTTTCTTCTCTATTTGCTAGCTGACCATTAACCTTATTTTGCAACAGCTCTTC
* *
2714298 CTCTATTTATAGATGTAAGCTTAAGGATTGAATGAACCAAGAGTGGGGTGAATTGGTTCTTATCA
131 CTCTATTTATAGATCTAAGCTCAAGGATTGAATGAACCAAGAG-GGGGTGAATTGGTTCTTATCA
2714363 AAATTT
195 AAATTT
* * *
2714369 GAAGCTATACCTTGGCTAGTTTGGTTGGAGTAAAAACTAGCTTGATGTTTCACTATTTTTCTCTC
1 GAAGCTATACCTTCGCTAGTTTGGTTGGAGCAAAAACTAACTTGATGTTTCACTATTTTTCTCTC
*
2714434 ATTTCTTTCTT-TTTTTCTTCTCTATTTGCTAGCTGACCATTAACCTTATTTCT-CAATAGCTCT
66 ATTTCTTT-TTCTTTTTCTTCTCTATTTGCTAGCTGACCATTAACCTTATTT-TGCAACAGCTCT
* * *
2714497 TCCTCTATTTATAGATCTAAGCTCAAGGATTGAATGAACTAAGAGGTGGTGAATTGGTTGTTATC
129 TCCTCTATTTATAGATCTAAGCTCAAGGATTGAATGAACCAAGAGGGGGTGAATTGGTTCTTATC
*
2714562 GAAATTT
194 AAAATTT
2714569 GAAG
1 GAAG
2714573 ATTTTGAAAG
Statistics
Matches: 187, Mismatches: 15, Indels: 5
0.90 0.07 0.02
Matches are distributed among these distances:
200 28 0.15
201 156 0.83
202 3 0.02
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.42
Consensus pattern (200 bp):
GAAGCTATACCTTCGCTAGTTTGGTTGGAGCAAAAACTAACTTGATGTTTCACTATTTTTCTCTC
ATTTCTTTTTCTTTTTCTTCTCTATTTGCTAGCTGACCATTAACCTTATTTTGCAACAGCTCTTC
CTCTATTTATAGATCTAAGCTCAAGGATTGAATGAACCAAGAGGGGGTGAATTGGTTCTTATCAA
AATTT
Found at i:2714977 original size:35 final size:32
Alignment explanation
Indices: 2714927--2714993 Score: 91
Period size: 35 Copynumber: 2.0 Consensus size: 32
2714917 AGTGTTATGA
2714927 AAAGAATAAGCACAAAGGAATACAAATGAGCTTTT
1 AAAGAATAAGCACAAA-GAATACAAA--AGCTTTT
2714962 AAAGAATAA-CAACAAAGAATACAAAAGCTTTT
1 AAAGAATAAGC-ACAAAGAATACAAAAGCTTTT
2714994 TGGAGTGTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
32 7 0.23
34 10 0.32
35 14 0.45
ACGTcount: A:0.55, C:0.12, G:0.13, T:0.19
Consensus pattern (32 bp):
AAAGAATAAGCACAAAGAATACAAAAGCTTTT
Found at i:2722841 original size:13 final size:13
Alignment explanation
Indices: 2722823--2722847 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2722813 CATCATGCTT
2722823 TGTATCGATACAA
1 TGTATCGATACAA
2722836 TGTATCGATACA
1 TGTATCGATACA
2722848 TGTTCATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2722878 original size:20 final size:20
Alignment explanation
Indices: 2722832--2722888 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 20
2722822 TTGTATCGAT
*
2722832 ACAA-TGTATCGATACATGT
1 ACAATTGTATCGATACATGG
* *
2722851 TC-ATTGTATCGATATATGG
1 ACAATTGTATCGATACATGG
*
2722870 ACAATTGTATTGATACATG
1 ACAATTGTATCGATACATG
2722889 AAACTAGCAG
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
18 1 0.03
19 15 0.50
20 14 0.47
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (20 bp):
ACAATTGTATCGATACATGG
Found at i:2729304 original size:20 final size:21
Alignment explanation
Indices: 2729267--2729307 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
2729257 TTACAAATTT
*
2729267 CTTCTTTTTTTACTTCAAAATA
1 CTTCATTTTTTAC-TCAAAATA
2729289 CTTCATTTTTTA-TCAAAAT
1 CTTCATTTTTTACTCAAAAT
2729308 CACCAACAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
22 11 0.61
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (21 bp):
CTTCATTTTTTACTCAAAATA
Found at i:2730338 original size:231 final size:231
Alignment explanation
Indices: 2729935--2730372 Score: 804
Period size: 231 Copynumber: 1.9 Consensus size: 231
2729925 AAGCCTAAAT
* * *
2729935 GTATCGGTTCGCGAGAACCTTGTCTGGGCCTTCCTTAGTAACGCTCGTCTTGAGCATAACAATAG
1 GTATCGGTTAGCGAGAACCTTGTCTGGGCCTTCCTTAGTAACGCTCATCTCGAGCATAACAATAG
2730000 CAACGAAGTTATTGCTATTCACTCCTACCTCATGGGTCAAGACTTGATCCTTACCCCCTCCATTC
66 CAACGAAGTTATTGCTATTCACTCCTACCTCATGGGTCAAGACTTGATCCTTACCCCCTCCATTC
* *
2730065 TAGCTGACACACTAAACATGCTATATGAGGGAGAGACCAAAGAGGGTACGGCTCCTCGTAACACT
131 TAGCCGACACACTAAACATGCCATATGAGGGAGAGACCAAAGAGGGTACGGCTCCTCGTAACACT
2730130 AGAGTTCCCCTAGTACTTGCCTTCCACCACATGATC
196 AGAGTTCCCCTAGTACTTGCCTTCCACCACATGATC
* *
2730166 GTATCGGTTAGCGAGAACCTTGTTTGGGCCTTCCTTAGTAACGCTCATCTCGAGCATAACGATAG
1 GTATCGGTTAGCGAGAACCTTGTCTGGGCCTTCCTTAGTAACGCTCATCTCGAGCATAACAATAG
*
2730231 CAACGAAGTTGTTGCTATTCACTCCTACCTCATGGGTCAAGACTTGATCCTTACCCCCTCCATTC
66 CAACGAAGTTATTGCTATTCACTCCTACCTCATGGGTCAAGACTTGATCCTTACCCCCTCCATTC
2730296 TAGCCGACACACTAAACATGCCATATGAGGGAGAGACCAAAGAGGGTACGGCTCCTCGTAACACT
131 TAGCCGACACACTAAACATGCCATATGAGGGAGAGACCAAAGAGGGTACGGCTCCTCGTAACACT
2730361 AGAGTTCCCCTA
196 AGAGTTCCCCTA
2730373 AATAAAGGTA
Statistics
Matches: 199, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
231 199 1.00
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (231 bp):
GTATCGGTTAGCGAGAACCTTGTCTGGGCCTTCCTTAGTAACGCTCATCTCGAGCATAACAATAG
CAACGAAGTTATTGCTATTCACTCCTACCTCATGGGTCAAGACTTGATCCTTACCCCCTCCATTC
TAGCCGACACACTAAACATGCCATATGAGGGAGAGACCAAAGAGGGTACGGCTCCTCGTAACACT
AGAGTTCCCCTAGTACTTGCCTTCCACCACATGATC
Found at i:2733165 original size:201 final size:200
Alignment explanation
Indices: 2732806--2733210 Score: 634
Period size: 201 Copynumber: 2.0 Consensus size: 200
2732796 AGGTTAGGAA
* *
2732806 GAAGCTATACCTTCGCTAGTTTGGTTGGAGCAAAAACTAACTTGGTTTTTCACTATTTTTCTCTC
1 GAAGCTATACCTTCGCTAGTTTGGTTGGAGCAAAAACTAACTTGATGTTTCACTATTTTTCTCTC
* * *
2732871 TTTTCTTTTTCTTTTTCTTCTCTCTTTGCTAGCTGATCATTAACCTTATTTTGCAACAGCTCTTC
66 ATTTCTTTTTCTTTTTCTTCTCTATTTGCTAGCTGACCATTAACCTTATTTTGCAACAGCTCTTC
* *
2732936 CTCTATTTATAGATGTAAGCTTAAGGATTGAATGAACCAAGAGTGGGGTGAATTGGTTCTTATCA
131 CTCTATTTATAGATCTAAGCTCAAGGATTGAATGAACCAAGAG-GGGGTGAATTGGTTCTTATCA
2733001 AAATTT
195 AAATTT
* * *
2733007 GAAGCTATACCTTGGCTAGTTTGGTTGGAGTAAAAACTAGCTTGATGTTTCACTATTTTTCTCTC
1 GAAGCTATACCTTCGCTAGTTTGGTTGGAGCAAAAACTAACTTGATGTTTCACTATTTTTCTCTC
*
2733072 ATTTCTTTCTT-TTTTTCTTCTCTATTTGCTAGCTGACCATTAACCTTATTTCT-CAATAGCTCT
66 ATTTCTTT-TTCTTTTTCTTCTCTATTTGCTAGCTGACCATTAACCTTATTT-TGCAACAGCTCT
* * *
2733135 TCCTCTATTTATAGATCTAAGCTCAAGGATTGAATGAACTAAGAGGTGGTGAATTGGTTGTTATC
129 TCCTCTATTTATAGATCTAAGCTCAAGGATTGAATGAACCAAGAGGGGGTGAATTGGTTCTTATC
*
2733200 GAAATTT
194 AAAATTT
2733207 GAAG
1 GAAG
2733211 ATTTTGAAAG
Statistics
Matches: 187, Mismatches: 15, Indels: 5
0.90 0.07 0.02
Matches are distributed among these distances:
200 28 0.15
201 156 0.83
202 3 0.02
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.42
Consensus pattern (200 bp):
GAAGCTATACCTTCGCTAGTTTGGTTGGAGCAAAAACTAACTTGATGTTTCACTATTTTTCTCTC
ATTTCTTTTTCTTTTTCTTCTCTATTTGCTAGCTGACCATTAACCTTATTTTGCAACAGCTCTTC
CTCTATTTATAGATCTAAGCTCAAGGATTGAATGAACCAAGAGGGGGTGAATTGGTTCTTATCAA
AATTT
Found at i:2733605 original size:35 final size:32
Alignment explanation
Indices: 2733566--2733632 Score: 91
Period size: 35 Copynumber: 2.0 Consensus size: 32
2733556 GTGTTTATGA
2733566 AAAGAATAAGC-ACAAAGGAATACAAATGAGCTTTT
1 AAAGAATAA-CAACAAA-GAATACAAA--AGCTTTT
2733601 AAAGAATAACAACAAAGAATACAAAAGCTTTT
1 AAAGAATAACAACAAAGAATACAAAAGCTTTT
2733633 TGGAGTGTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
32 7 0.23
34 10 0.32
35 14 0.45
ACGTcount: A:0.55, C:0.12, G:0.13, T:0.19
Consensus pattern (32 bp):
AAAGAATAACAACAAAGAATACAAAAGCTTTT
Found at i:2741489 original size:13 final size:13
Alignment explanation
Indices: 2741471--2741495 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2741461 CATCATGCTT
2741471 TGTATCGATACAA
1 TGTATCGATACAA
2741484 TGTATCGATACA
1 TGTATCGATACA
2741496 TGTTCATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2741526 original size:20 final size:20
Alignment explanation
Indices: 2741480--2741536 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 20
2741470 TTGTATCGAT
*
2741480 ACAA-TGTATCGATACATGT
1 ACAATTGTATCGATACATGG
* *
2741499 TC-ATTGTATCGATATATGG
1 ACAATTGTATCGATACATGG
*
2741518 ACAATTGTATTGATACATG
1 ACAATTGTATCGATACATG
2741537 AAACTAGCAG
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
18 1 0.03
19 15 0.50
20 14 0.47
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (20 bp):
ACAATTGTATCGATACATGG
Found at i:2747951 original size:20 final size:21
Alignment explanation
Indices: 2747914--2747954 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
2747904 TTACAAATTT
*
2747914 CTTCTTTTTTTACTTCAAAATA
1 CTTCATTTTTTAC-TCAAAATA
2747936 CTTCATTTTTTA-TCAAAAT
1 CTTCATTTTTTACTCAAAAT
2747955 CACCAACAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
22 11 0.61
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (21 bp):
CTTCATTTTTTACTCAAAATA
Found at i:2748985 original size:231 final size:231
Alignment explanation
Indices: 2748582--2749019 Score: 804
Period size: 231 Copynumber: 1.9 Consensus size: 231
2748572 AAGCCTAAAT
* * *
2748582 GTATCGGTTCGCGAGAACCTTGTCTGGGCCTTCCTTAGTAACGCTCGTCTTGAGCATAACAATAG
1 GTATCGGTTAGCGAGAACCTTGTCTGGGCCTTCCTTAGTAACGCTCATCTCGAGCATAACAATAG
2748647 CAACGAAGTTATTGCTATTCACTCCTACCTCATGGGTCAAGACTTGATCCTTACCCCCTCCATTC
66 CAACGAAGTTATTGCTATTCACTCCTACCTCATGGGTCAAGACTTGATCCTTACCCCCTCCATTC
* *
2748712 TAGCTGACACACTAAACATGCTATATGAGGGAGAGACCAAAGAGGGTACGGCTCCTCGTAACACT
131 TAGCCGACACACTAAACATGCCATATGAGGGAGAGACCAAAGAGGGTACGGCTCCTCGTAACACT
2748777 AGAGTTCCCCTAGTACTTGCCTTCCACCACATGATC
196 AGAGTTCCCCTAGTACTTGCCTTCCACCACATGATC
* *
2748813 GTATCGGTTAGCGAGAACCTTGTTTGGGCCTTCCTTAGTAACGCTCATCTCGAGCATAACGATAG
1 GTATCGGTTAGCGAGAACCTTGTCTGGGCCTTCCTTAGTAACGCTCATCTCGAGCATAACAATAG
*
2748878 CAACGAAGTTGTTGCTATTCACTCCTACCTCATGGGTCAAGACTTGATCCTTACCCCCTCCATTC
66 CAACGAAGTTATTGCTATTCACTCCTACCTCATGGGTCAAGACTTGATCCTTACCCCCTCCATTC
2748943 TAGCCGACACACTAAACATGCCATATGAGGGAGAGACCAAAGAGGGTACGGCTCCTCGTAACACT
131 TAGCCGACACACTAAACATGCCATATGAGGGAGAGACCAAAGAGGGTACGGCTCCTCGTAACACT
2749008 AGAGTTCCCCTA
196 AGAGTTCCCCTA
2749020 AATAAAGGTA
Statistics
Matches: 199, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
231 199 1.00
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (231 bp):
GTATCGGTTAGCGAGAACCTTGTCTGGGCCTTCCTTAGTAACGCTCATCTCGAGCATAACAATAG
CAACGAAGTTATTGCTATTCACTCCTACCTCATGGGTCAAGACTTGATCCTTACCCCCTCCATTC
TAGCCGACACACTAAACATGCCATATGAGGGAGAGACCAAAGAGGGTACGGCTCCTCGTAACACT
AGAGTTCCCCTAGTACTTGCCTTCCACCACATGATC
Found at i:2752861 original size:13 final size:13
Alignment explanation
Indices: 2752843--2752868 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2752833 CTAGTAACCC
2752843 TTGTATCGATACA
1 TTGTATCGATACA
2752856 TTGTATCGATACA
1 TTGTATCGATACA
2752869 ATATTCTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2765459 original size:19 final size:20
Alignment explanation
Indices: 2765416--2765465 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
2765406 CACACCCAGA
*
2765416 TGTATCGATACATGTTGCTT
1 TGTATCGATACATGTTGCAT
2765436 TGTATCGATACATGTT-CAT
1 TGTATCGATACATGTTGCAT
2765455 TGTATCGATAC
1 TGTATCGATAC
2765466 GTGGACAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.42
Consensus pattern (20 bp):
TGTATCGATACATGTTGCAT
Found at i:2770296 original size:13 final size:13
Alignment explanation
Indices: 2770275--2770305 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
2770265 CGATACATGG
*
2770275 TACAATGTATCGA
1 TACATTGTATCGA
2770288 TACATTGTATCGA
1 TACATTGTATCGA
2770301 TACAT
1 TACAT
2770306 GAAGAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:2770301 original size:33 final size:32
Alignment explanation
Indices: 2770259--2770325 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 32
2770249 CTATCACTAT
2770259 TTGTATCGATACATG-GTACAATGTATCGATACA
1 TTGTATCGATACATGAG-A-AATGTATCGATACA
2770292 TTGTATCGATACATGAAGAAATGTATCGATACA
1 TTGTATCGATACATG-AGAAATGTATCGATACA
2770325 T
1 T
2770326 AGCTTGTAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (32 bp):
TTGTATCGATACATGAGAAATGTATCGATACA
Found at i:2774993 original size:13 final size:13
Alignment explanation
Indices: 2774975--2775011 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
2774965 AAGGATCTTA
2774975 GTATTGATACACT
1 GTATTGATACACT
2774988 GTATTGATACACT
1 GTATTGATACACT
*
2775001 GTATCGATACA
1 GTATTGATACA
2775012 AGGGCACTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (13 bp):
GTATTGATACACT
Found at i:2776988 original size:21 final size:21
Alignment explanation
Indices: 2776964--2777042 Score: 101
Period size: 21 Copynumber: 3.8 Consensus size: 21
2776954 GGGGGATGAC
*
2776964 ATTTTATAAAGGGGGAGAAAA
1 ATTTTATTAAGGGGGAGAAAA
2776985 ATTTTATTAA---GGAGAAAA
1 ATTTTATTAAGGGGGAGAAAA
*
2777003 ATTTTATTAAGGGAGAGAAAA
1 ATTTTATTAAGGGGGAGAAAA
2777024 ATTTTAAATTAAGGGGGAG
1 ATTTT--ATTAAGGGGGAG
2777043 TTATAATTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
18 18 0.36
21 21 0.42
23 11 0.22
ACGTcount: A:0.46, C:0.00, G:0.25, T:0.29
Consensus pattern (21 bp):
ATTTTATTAAGGGGGAGAAAA
Found at i:2777000 original size:18 final size:19
Alignment explanation
Indices: 2776976--2777029 Score: 83
Period size: 18 Copynumber: 2.8 Consensus size: 19
2776966 TTTATAAAGG
2776976 GGGAGAAAAATTTTATTAA
1 GGGAGAAAAATTTTATTAA
2776995 -GGAGAAAAATTTTATTAA
1 GGGAGAAAAATTTTATTAA
2777013 GGGAGAGAAAAATTTTA
1 -GG-GAGAAAAATTTTA
2777030 AATTAAGGGG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
18 18 0.56
20 1 0.03
21 13 0.41
ACGTcount: A:0.48, C:0.00, G:0.22, T:0.30
Consensus pattern (19 bp):
GGGAGAAAAATTTTATTAA
Found at i:2777652 original size:20 final size:22
Alignment explanation
Indices: 2777617--2777659 Score: 72
Period size: 20 Copynumber: 2.0 Consensus size: 22
2777607 ACAAAGGTCA
2777617 AAACCCTAGAAAGTATCGATAC
1 AAACCCTAGAAAGTATCGATAC
2777639 AAACCC-AG-AAGTATCGATAC
1 AAACCCTAGAAAGTATCGATAC
2777659 A
1 A
2777660 TATTACTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 13 0.62
21 2 0.10
22 6 0.29
ACGTcount: A:0.47, C:0.23, G:0.14, T:0.16
Consensus pattern (22 bp):
AAACCCTAGAAAGTATCGATAC
Found at i:2778765 original size:14 final size:13
Alignment explanation
Indices: 2778728--2778767 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 13
2778718 ACAACAAAAT
2778728 AAAAAA-AAAAGA
1 AAAAAAGAAAAGA
2778740 AAAAAAGAAAAGA
1 AAAAAAGAAAAGA
*
2778753 GAGAAAAGAAAAGA
1 -AAAAAAGAAAAGA
2778767 A
1 A
2778768 CCTACTTAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
12 6 0.24
13 7 0.28
14 12 0.48
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAAAGA
Found at i:2780538 original size:60 final size:60
Alignment explanation
Indices: 2780333--2780519 Score: 263
Period size: 60 Copynumber: 3.1 Consensus size: 60
2780323 GGTTTCACTT
* *
2780333 AAGTCATTGTTTAGGTTTCTAATTTTATCCA-AGCCATTTCATTGAGTCTTAGTTTC-ACC
1 AAGTCATTGTTTAGGTTTCTAGTTTTATCCAGA-CCATTTCATTAAGTCTTAGTTTCAACC
* * * * *
2780392 TAAGTCATTGTTTAGGTTTCTGGTTTTATCTAGGCCATTTCATTAAGTCTTGGTTTCATCC
1 -AAGTCATTGTTTAGGTTTCTAGTTTTATCCAGACCATTTCATTAAGTCTTAGTTTCAACC
2780453 AAGTCATTGTTTAGGTTTCTAGTTTTATCCAGACCATTTTC-TTAAGTCTTAGTTTCAACC
1 AAGTCATTGTTTAGGTTTCTAGTTTTATCCAGACCA-TTTCATTAAGTCTTAGTTTCAACC
2780513 AAGTCAT
1 AAGTCAT
2780520 CATTTCGGTT
Statistics
Matches: 112, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
60 106 0.95
61 6 0.05
ACGTcount: A:0.22, C:0.18, G:0.15, T:0.45
Consensus pattern (60 bp):
AAGTCATTGTTTAGGTTTCTAGTTTTATCCAGACCATTTCATTAAGTCTTAGTTTCAACC
Found at i:2780538 original size:120 final size:119
Alignment explanation
Indices: 2780333--2780566 Score: 296
Period size: 120 Copynumber: 2.0 Consensus size: 119
2780323 GGTTTCACTT
*
2780333 AAGTCATTGTTTAGGTTTCTAATTTTATCCAAGCCATTTCATTGAGTCTTAGTTTCACCTAAGTC
1 AAGTCATTGTTTAGGTTTCTAATTTTATCCAAGCCATTTCATTAAGTCTTAGTTTCACCTAAGTC
**
2780398 ATTGTTTAGGTTTCTGGTTTTATCTAGGCCATTTCATTAAGTCTTGGTTTCATCC
66 ATCATTTAGGTTTCTGGTTTTATC-AGGCCATTTCATTAAGTCTTGGTTTCATCC
*
2780453 AAGTCATTGTTTAGGTTTCTAGTTTTATCC-AGACCATTTTC-TTAAGTCTTAGTTTCAACC-AA
1 AAGTCATTGTTTAGGTTTCTAATTTTATCCAAG-CCA-TTTCATTAAGTCTTAGTTTC-ACCTAA
* * * * ** *
2780515 GTCATCATTTCGG-TTCTATGTTTTTTCGGGCCATTTTGTTAAGTTTTGGTTT
63 GTCATCATTTAGGTTTCT-GGTTTTATCAGGCCATTTCATTAAGTCTTGGTTT
2780567 TGCCTAATCC
Statistics
Matches: 99, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
119 27 0.27
120 65 0.66
121 7 0.07
ACGTcount: A:0.20, C:0.17, G:0.16, T:0.47
Consensus pattern (119 bp):
AAGTCATTGTTTAGGTTTCTAATTTTATCCAAGCCATTTCATTAAGTCTTAGTTTCACCTAAGTC
ATCATTTAGGTTTCTGGTTTTATCAGGCCATTTCATTAAGTCTTGGTTTCATCC
Found at i:2781862 original size:66 final size:65
Alignment explanation
Indices: 2781682--2781865 Score: 171
Period size: 66 Copynumber: 2.8 Consensus size: 65
2781672 AATGTTTTGC
* * *
2781682 CCTA-GTCAATTTCTTTCGACTTAGGTTTCACCCTAGTCACCCTTTGTTGAC-TTAACGATTTTA
1 CCTAGGTCAACTTCTTTCGACTTAGGTTTCACCTTAGTCACCCTTTGTTGACTTTAACGATTTCA
* * * * * * **
2781745 TCTCGGTCAATCTTATTTTGACTTAGGTTTCA-CTCTAATCA-CTTTTAGTTGACTTTATTTG-T
1 CCTAGGTCAA-CTTCTTTCGACTTAGGTTTCACCT-TAGTCACCCTTT-GTTGACTTTA-ACGAT
2781807 TTCA
62 TTCA
* *
2781811 CCTAGGTCAACTTCCTTTCGACTTAGATTTCACCTTGGTCACCCTTTGTTGACTT
1 CCTAGGTCAACTT-CTTTCGACTTAGGTTTCACCTTAGTCACCCTTTGTTGACTT
2781866 GTTGGTTTTA
Statistics
Matches: 93, Mismatches: 19, Indels: 15
0.73 0.15 0.12
Matches are distributed among these distances:
63 2 0.02
64 10 0.11
65 32 0.34
66 42 0.45
67 7 0.08
ACGTcount: A:0.19, C:0.24, G:0.13, T:0.44
Consensus pattern (65 bp):
CCTAGGTCAACTTCTTTCGACTTAGGTTTCACCTTAGTCACCCTTTGTTGACTTTAACGATTTCA
Found at i:2781876 original size:131 final size:129
Alignment explanation
Indices: 2781517--2781996 Score: 446
Period size: 131 Copynumber: 3.7 Consensus size: 129
2781507 CGTTGACTTT
* * * * * * *
2781517 CCCTAGTCACTTTTTGTTCACTTCATTGGTTTCGCCCTAGTCAACTTCTTTTCGACTTA-AGTTT
1 CCCTAATCACTTTTAGTTGACTTTATTTGTTTC-ACCTAGTCAA-TTCCTTTCGACTTAGA-TTT
* * *** * * * * * *
2781581 CGCCTTAGTCATTTTTTGTTGACATGTCAGTTTTATC-CTAGTCAACCCCATTTTGACTTAAGTT
63 CACCCTAGTCACCCTTTGTTGACTTGTCGGTTTTATCTC-GGTCAATCCTATTTTGACTTAGGTT
2781645 TCA
127 TCA
* * * * * *
2781648 CCCTACTCACTTTTAATTAACTTTAATGTT-TTGC-CCTAGTCAATTTCTTTCGACTTAGGTTTC
1 CCCTAATCACTTTTAGTTGACTTT-AT-TTGTTTCACCTAGTCAATTCCTTTCGACTTAGATTTC
** * *
2781711 ACCCTAGTCACCCTTTGTTGACTTAACGATTTTATCTCGGTCAATCTTATTTTGACTTAGGTTTC
64 ACCCTAGTCACCCTTTGTTGACTTGTCGGTTTTATCTCGGTCAATCCTATTTTGACTTAGGTTTC
2781776 A
129 A
*
2781777 CTCTAATCACTTTTAGTTGACTTTATTTGTTTCACCTAGGTCAACTTCCTTTCGACTTAGATTTC
1 CCCTAATCACTTTTAGTTGACTTTATTTGTTTCACCTA-GTCAA-TTCCTTTCGACTTAGATTTC
* * * * * *
2781842 ACCTTGGTCACCCTTTGTTGACTTGTTGGTTTTATCTTGGTCAATCCTATTTTAACTTAGGTTTT
64 ACCCTAGTCACCCTTTGTTGACTTGTCGGTTTTATCTCGGTCAATCCTATTTTGACTTAGGTTTC
2781907 A
129 A
* * * ** ** * *
2781908 CCCTAGTCAGTTTTAGTTGACTTTATTAGTTTCACCCTAGTCAATTTTTTTTTACTTAGGTTTCG
1 CCCTAATCACTTTTAGTTGACTTTATTTGTTTCA-CCTAGTCAATTCCTTTCGACTTAGATTTCA
*
2781973 CCCTGGTCACCCTTTGTTGACTTG
65 CCCTAGTCACCCTTTGTTGACTTG
2781997 CTAATTTTGT
Statistics
Matches: 287, Mismatches: 53, Indels: 19
0.80 0.15 0.05
Matches are distributed among these distances:
127 2 0.01
128 5 0.02
129 89 0.31
130 53 0.18
131 128 0.45
132 9 0.03
133 1 0.00
ACGTcount: A:0.19, C:0.23, G:0.13, T:0.45
Consensus pattern (129 bp):
CCCTAATCACTTTTAGTTGACTTTATTTGTTTCACCTAGTCAATTCCTTTCGACTTAGATTTCAC
CCTAGTCACCCTTTGTTGACTTGTCGGTTTTATCTCGGTCAATCCTATTTTGACTTAGGTTTCA
Found at i:2781927 original size:65 final size:65
Alignment explanation
Indices: 2781699--2781995 Score: 228
Period size: 65 Copynumber: 4.6 Consensus size: 65
2781689 AATTTCTTTC
** * * *
2781699 GACTTAGGTTTCACCCTAGTCACCCTTTGTTGACTTAACGATTTTATCTCGGTCAATCTTATTTT
1 GACTTAGGTTTCACCCTAGTCACCCTTTGTTGACTTATTGGTTTTATCTAGGTCAATCCTATTTT
* * * * * *
2781764 GACTTAGGTTTCACTCTAATCA-CTTTTAGTTGACTTTATTTGTTTCACCTAGGTCAACTTCC--
1 GACTTAGGTTTCACCCTAGTCACCCTTT-GTTGAC-TTATTGGTTTTATCTAGGTCAA--TCCTA
*
2781826 TTTC
62 TTTT
* * * * *
2781830 GACTTAGATTTCACCTTGGTCACCCTTTGTTGACTTGTTGGTTTTATCTTGGTCAATCCTATTTT
1 GACTTAGGTTTCACCCTAGTCACCCTTTGTTGACTTATTGGTTTTATCTAGGTCAATCCTATTTT
* * ** * * * * *
2781895 AACTTAGGTTTTACCCTAGTCA-GTTTTAGTTGACTTTATTAGTTTCACCCTA-GTCAAT-TTTT
1 GACTTAGGTTTCACCCTAGTCACCCTTT-GTTGAC-TTATTGGTTTTA-TCTAGGTCAATCCTAT
2781957 TTT
63 TTT
* * *
2781960 TACTTAGGTTTCGCCCTGGTCACCCTTTGTTGACTT
1 GACTTAGGTTTCACCCTAGTCACCCTTTGTTGACTT
2781996 GCTAATTTTG
Statistics
Matches: 177, Mismatches: 44, Indels: 23
0.73 0.18 0.09
Matches are distributed among these distances:
63 3 0.02
64 9 0.05
65 98 0.55
66 59 0.33
67 6 0.03
68 2 0.01
ACGTcount: A:0.18, C:0.22, G:0.14, T:0.46
Consensus pattern (65 bp):
GACTTAGGTTTCACCCTAGTCACCCTTTGTTGACTTATTGGTTTTATCTAGGTCAATCCTATTTT
Found at i:2782187 original size:66 final size:65
Alignment explanation
Indices: 2782057--2782204 Score: 170
Period size: 66 Copynumber: 2.3 Consensus size: 65
2782047 CCCTAGTCAA
* * * * ** ** *
2782057 ACTTAGGTTTCAGCTTAGTCATTTTAGTTGACTTTATTGGTTTTGTCGCGGTCAACTTCTTTTTT
1 ACTTAGGTTTCACCCTACTCATTTTAGTTCACTTTATTGGTTTTACCGCAATCAACTTCCTTTTT
** *
2782122 ACTTAGGTTTCACCCTACTCAATTTTAGTTCACTTTATTGGTTTTACCTTAATCAATTTCCTTTT
1 ACTTAGGTTTCACCCTACTC-ATTTTAGTTCACTTTATTGGTTTTACCGCAATCAACTTCCTTTT
2782187 T
65 T
*
2782188 ACATAGGTTTCACCCTA
1 ACTTAGGTTTCACCCTA
2782205 GTCACCTATT
Statistics
Matches: 69, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
65 17 0.25
66 52 0.75
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.48
Consensus pattern (65 bp):
ACTTAGGTTTCACCCTACTCATTTTAGTTCACTTTATTGGTTTTACCGCAATCAACTTCCTTTTT
Found at i:2782494 original size:131 final size:129
Alignment explanation
Indices: 2782097--2782506 Score: 370
Period size: 131 Copynumber: 3.1 Consensus size: 129
2782087 ACTTTATTGG
* *
2782097 TTTTGTC-GCGGTCAACTTCTT-TTTT-ACTTAGGTTTCACCCTACTCAATTTTAGTTCACTTTA
1 TTTTGTCTGC-GTCAAC--CTTATTTTGACTTAGGTTTCA-CCTAATCACTTTTAGTTCACTTTA
* * * * * **
2782159 TTGGTTTTACCTTAATCAATTTCCTTTTTACATAGGTTTCACCCTAGTCA-CCTATTGTTGACTT
62 TTGGTTTT-CCCTAGTCAACTTCTTTTTTACTTAGGTTTTGCCCTAGTCACCCT-TTGTTGACTT
2782223 GTCGA
125 GTCGA
* * * **
2782228 TTTTATCCT-CTTCATCCTTATTTTGACTTAGGTTTCACCATTGTCACTTTTAGTTCA-TTTCAT
1 TTTTGT-CTGCGTCAACCTTATTTTGACTTAGGTTTCACC-TAATCACTTTTAGTTCACTTT-AT
* * * * * *
2782291 TAGTTTCATCAC-GGTCAACTTCTTTTTTACTTAGGTTTTGCCCTCGTCACGCTTTGTTGACTTC
63 TGGTTT--TCCCTAGTCAACTTCTTTTTTACTTAGGTTTTGCCCTAGTCACCCTTTGTTGACTTG
*
2782355 TCAA
126 TCGA
* *
2782359 TTTTGTCTGCGTCAACCTTATTTTGACTTAGGTTTCACTCTAATCACTTTTAGTTTACTATATTG
1 TTTTGTCTGCGTCAACCTTATTTTGACTTAGGTTTCAC-CTAATCACTTTTAGTTCACTTTATTG
** * *
2782424 GTTTTGCCCTAGTCAACTTCTTTTTTACTTAATTTTTGCCCTTGTCACCCTTTGTTGA-TTAGTT
65 GTTTT-CCCTAGTCAACTTCTTTTTTACTTAGGTTTTGCCCTAGTCACCCTTTGTTGACTT-GTC
*
2782488 GG
128 GA
2782490 TTTTGTCTTG-GTCAACC
1 TTTTGTC-TGCGTCAACC
2782507 GCTTAAACTC
Statistics
Matches: 225, Mismatches: 38, Indels: 32
0.76 0.13 0.11
Matches are distributed among these distances:
129 4 0.02
130 15 0.07
131 195 0.87
132 10 0.04
133 1 0.00
ACGTcount: A:0.17, C:0.22, G:0.13, T:0.48
Consensus pattern (129 bp):
TTTTGTCTGCGTCAACCTTATTTTGACTTAGGTTTCACCTAATCACTTTTAGTTCACTTTATTGG
TTTTCCCTAGTCAACTTCTTTTTTACTTAGGTTTTGCCCTAGTCACCCTTTGTTGACTTGTCGA
Found at i:2782707 original size:171 final size:171
Alignment explanation
Indices: 2782369--2782783 Score: 486
Period size: 171 Copynumber: 2.4 Consensus size: 171
2782359 TTTTGTCTGC
* * *
2782369 GTCAACCT-TATTTTGACTTAGGTTTCACTCTAATCACTTTTAGTTTACTATATTGGTTTTGCCC
1 GTCAACCTCTATTTTGACTTAGGTTTCACCCTAGTCACTTTTAGTTAACT-TATTGGTTTTGCCC
* ** * ***
2782433 TAGTCAACTTCTTTTTTACTTAATTTTTGCCCTTGTCACCCTTTGTTGATTAGTTGGTTTTGTCT
65 TGGTCAACTTCTTTTCGACTTAAGTTTTGCCCTTGTCACCCTTTGTTGATTAGTCAATTTTG-CT
* *
2782498 TGGTCAACCGCTTAAACTCGTTAACTTTATTAGTTTCACCTT-
129 TGGTCAACCGCTTAAACTCATTAACCTTATTAGTTTCACCTTG
2782540 GTCAACCTCT-TTTTGACTTAGGTTTCACCCTAGTCACTTTTAGTTAAACTTATTGGTTTTGCCC
1 GTCAACCTCTATTTTGACTTAGGTTTCACCCTAGTCACTTTTAGTT-AACTTATTGGTTTTGCCC
** *
2782604 TGGTCAACTTCTTTTCGACTTCGGTTTTG-CCTTAGTCATCCTTTGTTGACTTA-TCAATTTTG-
65 TGGTCAACTTCTTTTCGACTTAAGTTTTGCCCTT-GTCACCCTTTGTTGA-TTAGTCAATTTTGC
* * * *
2782666 TTGCGATTAACC-CTTTAGACTCATTGACCTTATTGGTTTCACCTTG
128 TTG-G-TCAACCGC-TTAAACTCATTAACCTTATTAGTTTCACCTTG
* * * *
2782712 GCCAACC-CTATTTCGACTTAGGTTTCACCCTAGTCACTTTTAGTTGACTTTATTGGTTATGCCC
1 GTCAACCTCTATTTTGACTTAGGTTTCACCCTAGTCACTTTTAGTTAAC-TTATTGGTTTTGCCC
2782776 TGGTCAAC
65 TGGTCAAC
2782784 CTATTTTCCA
Statistics
Matches: 211, Mismatches: 23, Indels: 19
0.83 0.09 0.08
Matches are distributed among these distances:
169 3 0.01
170 6 0.03
171 133 0.63
172 69 0.33
ACGTcount: A:0.18, C:0.22, G:0.14, T:0.45
Consensus pattern (171 bp):
GTCAACCTCTATTTTGACTTAGGTTTCACCCTAGTCACTTTTAGTTAACTTATTGGTTTTGCCCT
GGTCAACTTCTTTTCGACTTAAGTTTTGCCCTTGTCACCCTTTGTTGATTAGTCAATTTTGCTTG
GTCAACCGCTTAAACTCATTAACCTTATTAGTTTCACCTTG
Found at i:2783064 original size:131 final size:130
Alignment explanation
Indices: 2782721--2783377 Score: 418
Period size: 131 Copynumber: 5.0 Consensus size: 130
2782711 GGCCAACCCT
* * * * *
2782721 ATTTCGACTTAGGTTTCACCCTAGTCACTTTTAGTTGACTTTATTGGTTATGCCCTGGTCAACCT
1 ATTTTGACTTAGGTTTCACTCTAGTCACTTTTAGTTGACTTTATTGGTT-TTCCCTTGTCAACTT
* * * ** ** *** *
2782786 ATTTTCCAACTTAGGTTTCGCCCTAATCA-TTTTTAGTTGACTTTATTGGTTTT-GCCTTTAAGT
65 CTTTT-CGACTTAGGTTTCACCCTGGTCACCCTTT-GTTGAC-TTATCAATTTTATCC-TT--GT
* **
2782849 TAGTCTC
124 CAACCTC
* * * * * *
2782856 -TTTTGGACTTAGGTTTCACCCTAGTTACTTTTAGTTGACTTTATTAGTCTTGCGTTAG-CTAAC
1 ATTTT-GACTTAGGTTTCACTCTAGTCACTTTTAGTTGACTTTATTGGTTTTCCCTT-GTC-AAC
* * * * * * *
2782919 TTTTTTTTTG-CTTAGGCTTT-ACCCCGGTCAGCCTTAGTTAACTTATCAATTTTGT-CTTGCTC
63 -TTCTTTTCGACTTAGG-TTTCACCCTGGTCACCCTTTGTTGACTTATCAATTTTATCCTTG-TC
2782981 AACCTC
125 AACCTC
*
2782987 ATTTTGACTTAGGTTTCACTGTAGTCACTTTTAGTTGACTTTATTGGTTTTACCCTTGTCAACTT
1 ATTTTGACTTAGGTTTCACTCTAGTCACTTTTAGTTGACTTTATTGGTTTT-CCCTTGTCAACTT
* * * * * * *
2783052 CTTTTCGACTTAGGTTTCACCTTGGTTACCCTTTGTTGACTTGTTAGTTTTATCCTAGTTAACCT
65 CTTTTCGACTTAGGTTTCACCCTGGTCACCCTTTGTTGACTTATCAATTTTATCCTTGTCAACCT
2783117 C
130 C
* * * * * * *
2783118 ATTTTAACTTAGATTTTAAC-CTAGTCCCTTTTAGCT-AGCTTTATTGTTTTTGCCCTGGTCAAC
1 ATTTTGACTTAG-GTTTCACTCTAGTCACTTTTAGTTGA-CTTTATTGGTTTT-CCCTTGTCAAC
* * * * ** *
2783181 TTCTTTTCGACTTGGGTTTCACACTAGTGACCCTTTGTTGACTTATCGCTTTAATCCTTGTCAAC
63 TTCTTTTCGACTTAGGTTTCACCCTGGTCACCCTTTGTTGACTTATCAATTTTATCCTTGTCAAC
*
2783246 CCC
128 CTC
* * * ** **
2783249 ATTTTGACTTAGGTTTCAC-CTTTGTCACTTTTAGGTCACTTTATTGG-TTTCATTTTGGTTTAC
1 ATTTTGACTTAGGTTTCACTC-TAGTCACTTTTAGTTGACTTTATTGGTTTTC-CCTT-GTCAAC
* * * * * *** *
2783312 TTCATTTCGACTTAGGTTTCGCCTTTGACACCCTTTGTTGACTTATTGGTTTTATCCTGGTCAAC
63 TTCTTTTCGACTTAGGTTTCACCCTGGTCACCCTTTGTTGACTTATCAATTTTATCCTTGTCAAC
2783377 C
128 C
2783378 CCTTAAACTT
Statistics
Matches: 408, Mismatches: 94, Indels: 44
0.75 0.17 0.08
Matches are distributed among these distances:
129 1 0.00
130 22 0.05
131 278 0.68
132 19 0.05
133 9 0.02
134 24 0.06
135 50 0.12
136 5 0.01
ACGTcount: A:0.17, C:0.21, G:0.15, T:0.46
Consensus pattern (130 bp):
ATTTTGACTTAGGTTTCACTCTAGTCACTTTTAGTTGACTTTATTGGTTTTCCCTTGTCAACTTC
TTTTCGACTTAGGTTTCACCCTGGTCACCCTTTGTTGACTTATCAATTTTATCCTTGTCAACCTC
Found at i:2783068 original size:66 final size:66
Alignment explanation
Indices: 2782689--2783298 Score: 327
Period size: 66 Copynumber: 9.2 Consensus size: 66
2782679 TTTAGACTCA
* * *
2782689 TTGACCTTATTGGTTTCA-CCTTGGCCAACC-CTATTTCGACTTAGGTTTCACCCTAGTCACTTT
1 TTGACTTTATTGGTTTTACCCTT-GTCAACCTCT-TTTCGACTTAGGTTTCACCCTAGTCACTTT
2782752 TAG
64 TAG
* * * * * * * *
2782755 TTGACTTTATTGGTTATGCCCTGGTCAACCTATTTTCCAACTTAGGTTTCGCCCTAATCATTTTT
1 TTGACTTTATTGGTTTTACCCTTGTCAACCTCTTTT-CGACTTAGGTTTCACCCTAGTCACTTTT
2782820 AG
65 AG
* * * ** * *
2782822 TTGACTTTATTGGTTTTGCCTTTAAGTTAGTCTCTTTTGGACTTAGGTTTCACCCTAGTTACTTT
1 TTGACTTTATTGGTTTTACCCTT--GTCAACCTCTTTTCGACTTAGGTTTCACCCTAGTCACTTT
2782887 TAG
64 TAG
* * * * * * * **
2782890 TTGACTTTATTAGTCTT-GCGTTAG-CTAACTTTTTTTTTG-CTTAGGCTTT-ACCCCGGTCAGC
1 TTGACTTTATTGGTTTTACCCTT-GTC-AAC-CTCTTTTCGACTTAGG-TTTCACCCTAGTCA-C
*
2782951 -CTTAG
61 TTTTAG
* *** ** **
2782956 TTAAC-TTATCAATTTT-GTCTTGCTCAACCTCATTTT-GACTTAGGTTTCACTGTAGTCACTTT
1 TTGACTTTATTGGTTTTACCCTTG-TCAACCTC-TTTTCGACTTAGGTTTCACCCTAGTCACTTT
2783018 TAG
64 TAG
* * * * *
2783021 TTGACTTTATTGGTTTTACCCTTGTCAACTTCTTTTCGACTTAGGTTTCACCTTGGTTACCCTTT
1 TTGACTTTATTGGTTTTACCCTTGTCAACCTCTTTTCGACTTAGGTTTCACCCTAGTCA-CTTTT
2783086 -G
65 AG
* * * * * * * * * *
2783087 TTGAC-TTGTTAGTTTTATCCTAGTTAACCTCATTTT-AACTTAGATTTTAACCTAGTCCCTTTT
1 TTGACTTTATTGGTTTTACCCTTGTCAACCTC-TTTTCGACTTAGGTTTCACCCTAGTCACTTTT
2783150 AG
65 AG
* * * * * * * * *
2783152 CT-AGCTTTATTGTTTTTGCCCTGGTCAACTTCTTTTCGACTTGGGTTTCACACTAGTGACCCTT
1 TTGA-CTTTATTGGTTTTACCCTTGTCAACCTCTTTTCGACTTAGGTTTCACCCTAGTCA-CTTT
2783216 T-G
64 TAG
* * * * * * *
2783218 TTGAC-TTATCGCTTTAATCCTTGTCAACCCCATTTT-GACTTAGGTTTCACCTTTGTCACTTTT
1 TTGACTTTATTGGTTTTACCCTTGTCAACCTC-TTTTCGACTTAGGTTTCACCCTAGTCACTTTT
2783281 AG
65 AG
* *
2783283 GTCACTTTATTGGTTT
1 TTGACTTTATTGGTTT
2783299 CATTTTGGTT
Statistics
Matches: 400, Mismatches: 115, Indels: 58
0.70 0.20 0.10
Matches are distributed among these distances:
64 16 0.04
65 122 0.31
66 138 0.34
67 76 0.19
68 39 0.10
69 9 0.02
ACGTcount: A:0.18, C:0.22, G:0.15, T:0.46
Consensus pattern (66 bp):
TTGACTTTATTGGTTTTACCCTTGTCAACCTCTTTTCGACTTAGGTTTCACCCTAGTCACTTTTA
G
Found at i:2783612 original size:173 final size:169
Alignment explanation
Indices: 2783236--2783675 Score: 434
Period size: 172 Copynumber: 2.6 Consensus size: 169
2783226 TCGCTTTAAT
* *
2783236 CCTTGTCAACCCCATTTTGACTTAGGTTTCACCTTTGTCACTTTTAGG-TCACTTTATTGGTTTC
1 CCTTGTCAACCCCA-TTTGACTTAGGTTTCACCTTAGTCACTTTT-GGTTGACTTTATTGGTTT-
* * * *
2783300 ATTTTGGTTTACTTCATTTCGACTTAGGTTTCGCCTTTGACACCCTTTGTTGACTTATTGGTTTT
63 ATTTTGGTTAACTTCATTTCGACTTAGGTTTCGCCTTGGACACCCTTTGTTGACTTATCGATTTT
* * *
2783365 ATCCTGGTCAACCCCTTAAACTTGTTAACTTTATTAGTATCA
128 ATCATAGTCAACCCCTTAAACTCGTTAACTTTATTAGTATCA
* * * *
2783407 CCCTGTCAACCTCTTTTCGACTTAGGTTTCACCTTAGTCACTTTTGGTTGACCTTATTGGTTT-T
1 CCTTGTCAACCCCATTT-GACTTAGGTTTCACCTTAGTCACTTTTGGTTGACTTTATTGGTTTAT
** ** * * ** *
2783471 TGCCTTGGTTAACTTTTTTTTTACTTAGGTTTTGCCTTGGTCACTTTTTGTTGACTTCTCGATTT
65 T---TTGGTTAACTTCATTTCGACTTAGGTTTCGCCTTGGACACCCTTTGTTGACTTATCGATTT
* * * * **
2783536 TGTCATAGTTAACCCCCTTAAACTCGTTGACTTTATTAGTTTTG
127 TATCATAGTCAA-CCCCTTAAACTCGTTAACTTTATTAGTATCA
* * * **
2783580 CCTTGTCAAACCCCATTTGACTTCGGTTTCACCTTAGTCACATTTAGTTGACTTTATTAACTTTA
1 CCTTGTC-AACCCCATTTGACTTAGGTTTCACCTTAGTCACTTTTGGTTGACTTTATT-GGTTTA
* * * * *
2783645 TCTTGGTCAACCTCTTTTTGACTTAGGTTTC
64 TTTTGGTTAACTTCATTTCGACTTAGGTTTC
2783676 ACCCTAGTCA
Statistics
Matches: 217, Mismatches: 43, Indels: 17
0.78 0.16 0.06
Matches are distributed among these distances:
169 2 0.01
170 5 0.02
171 50 0.23
172 80 0.37
173 68 0.31
174 11 0.05
175 1 0.00
ACGTcount: A:0.17, C:0.22, G:0.14, T:0.46
Consensus pattern (169 bp):
CCTTGTCAACCCCATTTGACTTAGGTTTCACCTTAGTCACTTTTGGTTGACTTTATTGGTTTATT
TTGGTTAACTTCATTTCGACTTAGGTTTCGCCTTGGACACCCTTTGTTGACTTATCGATTTTATC
ATAGTCAACCCCTTAAACTCGTTAACTTTATTAGTATCA
Found at i:2783668 original size:66 final size:65
Alignment explanation
Indices: 2783561--2783833 Score: 246
Period size: 65 Copynumber: 4.2 Consensus size: 65
2783551 CCTTAAACTC
* * * * * * *
2783561 GTTGACTTTATTAGTTTTGCCTT-GTCAAACCCCATTTGACTTCGGTTTCACCTTAGTCACATTT
1 GTTGACTTTATTAATTTTGTCTTGGTC-AACCTCTTTTGACTTAGGTTTCACCCTAGTCACTTTT
2783625 A
65 A
* *
2783626 GTTGACTTTATTAACTTTATCTTGGTCAACCTCTTTTTGACTTAGGTTTCACCCTAGTCACTTTT
1 GTTGACTTTATTAATTTTGTCTTGGTCAACCTC-TTTTGACTTAGGTTTCACCCTAGTCACTTTT
2783691 A
65 A
* * * * ** * *
2783692 GTTAACTTTATTAGTTTTGCCTTGATCAAGTTCTTTTGACTTAGATTTCACCCTGGTCACCTTTT
1 GTTGACTTTATTAATTTTGTCTTGGTCAACCTCTTTTGACTTAGGTTTCACCCTAGTCA-CTTTT
2783757 -
65 A
* ** *** * * * *
2783757 GTTGAC-TTGTCGATTTTGTCCCAGTTAACCCCATTTTGACTTAGGTTTCACCTTATTCACTTTT
1 GTTGACTTTATTAATTTTGTCTTGGTCAACCTC-TTTTGACTTAGGTTTCACCCTAGTCACTTTT
2783821 A
65 A
2783822 GTTGACTTTATT
1 GTTGACTTTATT
2783834 GGTTTCGCCT
Statistics
Matches: 163, Mismatches: 39, Indels: 11
0.77 0.18 0.05
Matches are distributed among these distances:
64 18 0.11
65 81 0.50
66 64 0.39
ACGTcount: A:0.19, C:0.21, G:0.14, T:0.46
Consensus pattern (65 bp):
GTTGACTTTATTAATTTTGTCTTGGTCAACCTCTTTTGACTTAGGTTTCACCCTAGTCACTTTTA
Done.