Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 14 of 213
Found at i:3814585 original size:25 final size:25
Alignment explanation
Indices: 3814557--3814607 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
3814547 ATTTTTTTCA
*
3814557 AAATTTATCAATCATAGCATAACTT
1 AAATTTATCAACCATAGCATAACTT
*
3814582 AAATTTATCAACCATATCATAACTT
1 AAATTTATCAACCATAGCATAACTT
3814607 A
1 A
3814608 TATATAAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.45, C:0.18, G:0.02, T:0.35
Consensus pattern (25 bp):
AAATTTATCAACCATAGCATAACTT
Found at i:3814620 original size:228 final size:228
Alignment explanation
Indices: 3814223--3814731 Score: 973
Period size: 228 Copynumber: 2.2 Consensus size: 228
3814213 TTTATTAGTA
3814223 AACAATTTTTAAATTACATAACAATTTTTAAATTATATAACTTACATAACTTATAAATATTTATA
1 AACAATTTTTAAATTACATAACAATTTTTAAATTATATAACTTACATAACTTATAAATATTTATA
3814288 TACATTTTTAATATATATTTTTAAAATCTATATTTTTTTCAAAATTTATCAATCATAGCATAACT
66 TACATTTTTAATATATATTTTTAAAATCTATATTTTTTTCAAAATTTATCAATCATAGCATAACT
*
3814353 TAAATTTATCAACCATATCATAACTTATATATAAACTTACCTAAGACATGCATATCTTAAATAAC
131 TAAATTTATCAACCATATCATAACTTATATATAAACTTACATAAGACATGCATATCTTAAATAAC
* *
3814418 ATACAATACATAGACTTACATATAAACTTGCAT
196 ATACAATACATAAACTTACATATAAAATTGCAT
*
3814451 AACAATTTTTAAATTACATAACAATTTTTAGATTATATAACTTACATAACTTATAAATATTTATA
1 AACAATTTTTAAATTACATAACAATTTTTAAATTATATAACTTACATAACTTATAAATATTTATA
3814516 TACATTTTTAATATATATTTTTAAAATCTATATTTTTTTCAAAATTTATCAATCATAGCATAACT
66 TACATTTTTAATATATATTTTTAAAATCTATATTTTTTTCAAAATTTATCAATCATAGCATAACT
*
3814581 TAAATTTATCAACCATATCATAACTTATATATAAACTTACATAATACATGCATATCTTAAATAAC
131 TAAATTTATCAACCATATCATAACTTATATATAAACTTACATAAGACATGCATATCTTAAATAAC
3814646 ATACAATACATAAACTTACATATAAAATTGCAT
196 ATACAATACATAAACTTACATATAAAATTGCAT
3814679 AACAATTTTTAAATTACATAACAATTTTTAAATTATATAACTTACATAACTTA
1 AACAATTTTTAAATTACATAACAATTTTTAAATTATATAACTTACATAACTTA
3814732 CATACCTTAC
Statistics
Matches: 275, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
228 275 1.00
ACGTcount: A:0.45, C:0.13, G:0.02, T:0.41
Consensus pattern (228 bp):
AACAATTTTTAAATTACATAACAATTTTTAAATTATATAACTTACATAACTTATAAATATTTATA
TACATTTTTAATATATATTTTTAAAATCTATATTTTTTTCAAAATTTATCAATCATAGCATAACT
TAAATTTATCAACCATATCATAACTTATATATAAACTTACATAAGACATGCATATCTTAAATAAC
ATACAATACATAAACTTACATATAAAATTGCAT
Found at i:3814698 original size:19 final size:19
Alignment explanation
Indices: 3814670--3814719 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
3814660 CTTACATATA
*
3814670 AAATTGCATAACAATTTTT
1 AAATTACATAACAATTTTT
3814689 AAATTACATAACAATTTTT
1 AAATTACATAACAATTTTT
*
3814708 AAATTATATAAC
1 AAATTACATAAC
3814720 TTACATAACT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.48, C:0.10, G:0.02, T:0.40
Consensus pattern (19 bp):
AAATTACATAACAATTTTT
Found at i:3814729 original size:9 final size:9
Alignment explanation
Indices: 3814715--3814770 Score: 76
Period size: 9 Copynumber: 6.2 Consensus size: 9
3814705 TTTAAATTAT
3814715 ATAACTTAC
1 ATAACTTAC
3814724 ATAACTTAC
1 ATAACTTAC
*
3814733 ATACCTTAC
1 ATAACTTAC
* *
3814742 ATAAATTAA
1 ATAACTTAC
*
3814751 ATAATTTAC
1 ATAACTTAC
3814760 ATAACTTAC
1 ATAACTTAC
3814769 AT
1 AT
3814771 GTCCCGCCGG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 40 1.00
ACGTcount: A:0.46, C:0.18, G:0.00, T:0.36
Consensus pattern (9 bp):
ATAACTTAC
Found at i:3815671 original size:21 final size:20
Alignment explanation
Indices: 3815645--3815709 Score: 85
Period size: 21 Copynumber: 3.1 Consensus size: 20
3815635 CAACAACTTA
*
3815645 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGC-GCAGCGAGAG
*
3815666 AAGCAGAGGCTACAGCGAGAG
1 AAGCAGAGGC-GCAGCGAGAG
3815687 AAGCAGAGGTCGCAGCGAGAG
1 AAGCAGAGG-CGCAGCGAGAG
3815708 AA
1 AA
3815710 ACAGCGAGAG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
21 38 0.97
22 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.43, T:0.03
Consensus pattern (20 bp):
AAGCAGAGGCGCAGCGAGAG
Found at i:3815734 original size:12 final size:12
Alignment explanation
Indices: 3815678--3815737 Score: 63
Period size: 12 Copynumber: 5.2 Consensus size: 12
3815668 GCAGAGGCTA
3815678 CAGCGAGAGAAG
1 CAGCGAGAGAAG
**
3815690 CA--GAG-GTCG
1 CAGCGAGAGAAG
*
3815699 CAGCGAGAGAAA
1 CAGCGAGAGAAG
3815711 CAGCGAGAGAAG
1 CAGCGAGAGAAG
*
3815723 CAGCGATAGAAG
1 CAGCGAGAGAAG
3815735 CAG
1 CAG
3815738 AGGTTCAAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
9 4 0.11
10 3 0.08
11 3 0.08
12 28 0.74
ACGTcount: A:0.40, C:0.18, G:0.38, T:0.03
Consensus pattern (12 bp):
CAGCGAGAGAAG
Found at i:3816247 original size:42 final size:42
Alignment explanation
Indices: 3816182--3816326 Score: 152
Period size: 42 Copynumber: 3.5 Consensus size: 42
3816172 GAACACTACT
** * *
3816182 TTTAGCGGCGTTTTTGAAC-AAGCGCCACTATAGAACATTA-C
1 TTTAGCGGCG-TTTTGTTCTAAGCGCCACTAAAGAACATGATC
*
3816223 TTTTAGCGGCGTTTTGTTCTAAGCGCCGCTAAAGAACATGATC
1 -TTTAGCGGCGTTTTGTTCTAAGCGCCACTAAAGAACATGATC
* * **
3816266 TTTAGTGGCGTTTATTTTCTTTGCGCCACTAAAGAACATGATC
1 TTTAGCGGCGTTT-TGTTCTAAGCGCCACTAAAGAACATGATC
*
3816309 TTTAGTGGCGTTTT-TTCT
1 TTTAGCGGCGTTTTGTTCT
3816327 GTAAGCGTCG
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
41 10 0.11
42 41 0.46
43 39 0.43
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (42 bp):
TTTAGCGGCGTTTTGTTCTAAGCGCCACTAAAGAACATGATC
Found at i:3816303 original size:43 final size:42
Alignment explanation
Indices: 3816201--3816326 Score: 157
Period size: 43 Copynumber: 3.0 Consensus size: 42
3816191 GTTTTTGAAC
* * *
3816201 AAGCGCCACTATAGAACATTA-CTTTTAGCGGCGTTTTGTTCT
1 AAGCGCCACTAAAGAACATGATC-TTTAGTGGCGTTTTGTTCT
* *
3816243 AAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTTATTTTCT
1 AAGCGCCACTAAAGAACATGATCTTTAGTGGCGTTT-TGTTCT
**
3816286 TTGCGCCACTAAAGAACATGATCTTTAGTGGCGTTTT-TTCT
1 AAGCGCCACTAAAGAACATGATCTTTAGTGGCGTTTTGTTCT
3816327 GTAAGCGTCG
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
41 4 0.05
42 31 0.42
43 39 0.53
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.37
Consensus pattern (42 bp):
AAGCGCCACTAAAGAACATGATCTTTAGTGGCGTTTTGTTCT
Found at i:3827880 original size:17 final size:18
Alignment explanation
Indices: 3827858--3827892 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
3827848 TTTAATTTAA
3827858 AATTTAATAA-GAAAAAG
1 AATTTAATAATGAAAAAG
*
3827875 AATTTATTAATGAAAAAG
1 AATTTAATAATGAAAAAG
3827893 GAAATGACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.60, C:0.00, G:0.11, T:0.29
Consensus pattern (18 bp):
AATTTAATAATGAAAAAG
Found at i:3835309 original size:31 final size:30
Alignment explanation
Indices: 3835253--3835311 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
3835243 GTAAATTCTC
***
3835253 AAAATTTGAAGGGTTAAAGTGTAAATATGA
1 AAAATTTGAAGGACCAAAGTGTAAATATGA
3835283 AAAATTTGAAGGACCAAAGGTGTAAATAT
1 AAAATTTGAAGGACCAAA-GTGTAAATAT
3835312 TTTAAGGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.47, C:0.03, G:0.22, T:0.27
Consensus pattern (30 bp):
AAAATTTGAAGGACCAAAGTGTAAATATGA
Found at i:3838224 original size:49 final size:50
Alignment explanation
Indices: 3838135--3838231 Score: 142
Period size: 49 Copynumber: 2.0 Consensus size: 50
3838125 GAAGAAGGAA
* * * *
3838135 CCAAGGTTAAAACCCGCAAAGGGCGCTTTGATTTCTAAAAAA-AAAAAGG
1 CCAAGGTGAAAACCCGCAAAGGGCGCTTTGAGTCCAAAAAAATAAAAAGG
*
3838184 CCAAGGTGAAAACCCGCAAAGGGTGCTTTGAGTCCAAAAAAATAAAAA
1 CCAAGGTGAAAACCCGCAAAGGGCGCTTTGAGTCCAAAAAAATAAAAA
3838232 TCAAAAAAGA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
49 37 0.88
50 5 0.12
ACGTcount: A:0.44, C:0.19, G:0.21, T:0.16
Consensus pattern (50 bp):
CCAAGGTGAAAACCCGCAAAGGGCGCTTTGAGTCCAAAAAAATAAAAAGG
Found at i:3839693 original size:132 final size:132
Alignment explanation
Indices: 3839456--3839809 Score: 584
Period size: 132 Copynumber: 2.7 Consensus size: 132
3839446 AGAGTAGGTT
* * * *
3839456 GATGGCGGATTTTACCTCCCTGAGGTTACAGTAGAGTACATTGAAGCCAGTAATTCTATCTCCCT
1 GATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTATATTGAAGCCAGTGATTCTATCTCCCT
* * *
3839521 GGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAGGCAGTAGTGGAGTAGATCG
66 GGGCAGCAGTGGAATAAATTGAAGATTACAGATCTTATCTCCCTAGGCAGTAGTGGAATAGATCA
3839586 AA
131 AA
3839588 GATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTATATTGAAGCCAGTGATTCTATCTCCCT
1 GATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTATATTGAAGCCAGTGATTCTATCTCCCT
3839653 GGGCAGCAGTGGAATAAATTGAAGATTACAGATCTTATCTCCCTAGGCAGTAGTGGAATAGATCA
66 GGGCAGCAGTGGAATAAATTGAAGATTACAGATCTTATCTCCCTAGGCAGTAGTGGAATAGATCA
3839718 AA
131 AA
*
3839720 GATGGTAGATTTTACCTCCCTGAGGTTACAGTGGAGTATATTGAAGCCAG-GAATTCTATCTCCC
1 GATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTATATTGAAGCCAGTG-ATTCTATCTCCC
* * * *
3839784 TGGTCGGCAGTGGAATCAATCGAAGA
65 TGGGCAGCAGTGGAATAAATTGAAGA
3839810 AAGCAGATCT
Statistics
Matches: 209, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
131 1 0.00
132 208 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (132 bp):
GATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTATATTGAAGCCAGTGATTCTATCTCCCT
GGGCAGCAGTGGAATAAATTGAAGATTACAGATCTTATCTCCCTAGGCAGTAGTGGAATAGATCA
AA
Found at i:3839722 original size:44 final size:44
Alignment explanation
Indices: 3839512--3839715 Score: 198
Period size: 44 Copynumber: 4.6 Consensus size: 44
3839502 CCAGTAATTC
*
3839512 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCT
1 TATCTCCCTAGGCAGCAGTGGAATAGATTGAAGATTACAGATCT
* * * ** *
3839556 TATCTCCCTAGGCAGTAGTGGAGTAGATCGAAGATGGCAGATTT
1 TATCTCCCTAGGCAGCAGTGGAATAGATTGAAGATTACAGATCT
* * * * ** **
3839600 TACCTCCCTGAGGTTA-CAGTGGAGTATATTGAAG-CCAGTGAT-T
1 TATCTCCCT-AGG-CAGCAGTGGAATAGATTGAAGATTACAGATCT
* *
3839643 CTATCTCCCTGGGCAGCAGTGGAATAAATTGAAGATTACAGATCT
1 -TATCTCCCTAGGCAGCAGTGGAATAGATTGAAGATTACAGATCT
*
3839688 TATCTCCCTAGGCAGTAGTGGAATAGAT
1 TATCTCCCTAGGCAGCAGTGGAATAGAT
3839716 CAAAGATGGT
Statistics
Matches: 125, Mismatches: 29, Indels: 12
0.75 0.17 0.07
Matches are distributed among these distances:
42 1 0.01
43 19 0.15
44 85 0.68
45 19 0.15
46 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.28
Consensus pattern (44 bp):
TATCTCCCTAGGCAGCAGTGGAATAGATTGAAGATTACAGATCT
Found at i:3839739 original size:44 final size:44
Alignment explanation
Indices: 3839512--3839740 Score: 192
Period size: 44 Copynumber: 5.2 Consensus size: 44
3839502 CCAGTAATTC
* ** *
3839512 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCT
1 TATCTCCCTAGGCAGCAGTGGAATAGATTGAAGATGGCAGATTT
* * *
3839556 TATCTCCCTAGGCAGTAGTGGAGTAGATCGAAGATGGCAGATTT
1 TATCTCCCTAGGCAGCAGTGGAATAGATTGAAGATGGCAGATTT
* * * * *** * *
3839600 TACCTCCCTGAGGTTA-CAGTGGAGTATATTGAAGCCAG-TGATTC
1 TATCTCCCT-AGG-CAGCAGTGGAATAGATTGAAGATGGCAGATTT
* * ** *
3839644 TATCTCCCTGGGCAGCAGTGGAATAAATTGAAGATTACAGATCT
1 TATCTCCCTAGGCAGCAGTGGAATAGATTGAAGATGGCAGATTT
* ** *
3839688 TATCTCCCTAGGCAGTAGTGGAATAGATCAAAGATGGTAGATTT
1 TATCTCCCTAGGCAGCAGTGGAATAGATTGAAGATGGCAGATTT
*
3839732 TACCTCCCT
1 TATCTCCCT
3839741 GAGGTTACAG
Statistics
Matches: 142, Mismatches: 39, Indels: 8
0.75 0.21 0.04
Matches are distributed among these distances:
42 1 0.01
43 18 0.13
44 103 0.73
45 19 0.13
46 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.28
Consensus pattern (44 bp):
TATCTCCCTAGGCAGCAGTGGAATAGATTGAAGATGGCAGATTT
Found at i:3839865 original size:44 final size:44
Alignment explanation
Indices: 3839802--3839997 Score: 301
Period size: 44 Copynumber: 4.5 Consensus size: 44
3839792 AGTGGAATCA
3839802 ATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAG
1 ATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAG
* *
3839846 ATCGAAGAAAGCAGATCTTGTCTTCATGTATTAGCGTGGAGTAG
1 ATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAG
3839890 ATCGAAGAAAGCAGATCTTGTCTTC----ATTGGCGTGAAGTAG
1 ATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAG
* * *
3839930 AGCGAAGAAAGTAGATCTTGTCTTCATGTATTGGCATGAAGTAG
1 ATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAG
* *
3839974 ATCAAAGAGAGCAGATCTTGTCTT
1 ATCGAAGAAAGCAGATCTTGTCTT
3839998 TCCATACTGG
Statistics
Matches: 137, Mismatches: 11, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
40 36 0.26
44 101 0.74
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.29
Consensus pattern (44 bp):
ATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAG
Found at i:3839948 original size:84 final size:85
Alignment explanation
Indices: 3839802--3839997 Score: 295
Period size: 84 Copynumber: 2.3 Consensus size: 85
3839792 AGTGGAATCA
*
3839802 ATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAGCAGATCTTGT
1 ATCGAAGAAAGCAGATCTTGTCTTC---TATTGGCGTGAAGTAGAGCGAAGAAAGCAGATCTTGT
* *
3839867 CTTCATGTATTAGCGTGGAGTAG
63 CTTCATGTATTAGCATGAAGTAG
*
3839890 ATCGAAGAAAGCAGATCTTGTCTTC-ATTGGCGTGAAGTAGAGCGAAGAAAGTAGATCTTGTCTT
1 ATCGAAGAAAGCAGATCTTGTCTTCTATTGGCGTGAAGTAGAGCGAAGAAAGCAGATCTTGTCTT
*
3839954 CATGTATTGGCATGAAGTAG
66 CATGTATTAGCATGAAGTAG
* *
3839974 ATCAAAGAGAGCAGATCTTGTCTT
1 ATCGAAGAAAGCAGATCTTGTCTT
3839998 TCCATACTGG
Statistics
Matches: 101, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
84 76 0.75
88 25 0.25
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.29
Consensus pattern (85 bp):
ATCGAAGAAAGCAGATCTTGTCTTCTATTGGCGTGAAGTAGAGCGAAGAAAGCAGATCTTGTCTT
CATGTATTAGCATGAAGTAG
Found at i:3841522 original size:29 final size:29
Alignment explanation
Indices: 3841462--3841522 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 29
3841452 TGTTTTTAAA
* **
3841462 TTTACTTCGAATTTACCCCTTTTTTTCTT
1 TTTACTTCGAATTTAACCCTTTTTAACTT
*
3841491 TTTAGTTC-AATTTAACCCTTTTTAACTGT
1 TTTACTTCGAATTTAACCCTTTTTAACT-T
3841520 TTT
1 TTT
3841523 TTATTATTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 16 0.59
29 11 0.41
ACGTcount: A:0.18, C:0.20, G:0.05, T:0.57
Consensus pattern (29 bp):
TTTACTTCGAATTTAACCCTTTTTAACTT
Found at i:3841531 original size:3 final size:3
Alignment explanation
Indices: 3841523--3841555 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
3841513 TAACTGTTTT
3841523 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
3841556 AACATACATG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:3841744 original size:10 final size:9
Alignment explanation
Indices: 3841729--3841753 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
3841719 TATACATATA
3841729 TTTTTTTCT
1 TTTTTTTCT
3841738 TTTTTTTCT
1 TTTTTTTCT
3841747 TTTTTTT
1 TTTTTTT
3841754 AAAAACTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:3851230 original size:10 final size:10
Alignment explanation
Indices: 3851210--3851247 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
3851200 TAAATTTTAT
3851210 ATTTGTAAAAA
1 ATTT-TAAAAA
3851221 ATTTT-AAAA
1 ATTTTAAAAA
3851230 ATTTTAAAAA
1 ATTTTAAAAA
*
3851240 ATTCTAAA
1 ATTTTAAA
3851248 TAATATATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
9 9 0.36
10 12 0.48
11 4 0.16
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (10 bp):
ATTTTAAAAA
Found at i:3851239 original size:19 final size:20
Alignment explanation
Indices: 3851210--3851247 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
3851200 TAAATTTTAT
*
3851210 ATTTGTAAAAAATTTTAAAA
1 ATTTGTAAAAAATTCTAAAA
3851230 ATTT-TAAAAAATTCTAAA
1 ATTTGTAAAAAATTCTAAA
3851248 TAATATATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (20 bp):
ATTTGTAAAAAATTCTAAAA
Found at i:3851312 original size:22 final size:20
Alignment explanation
Indices: 3851273--3851316 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
3851263 ATTACTTTTT
*
3851273 TTTTAAAATTAAATAATAAA
1 TTTTAAAACTAAATAATAAA
3851293 TTTTAAAACCTAAATAAATAAA
1 TTTTAAAA-CTAAAT-AATAAA
3851315 TT
1 TT
3851317 AATCACTCGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 8 0.38
21 5 0.24
22 8 0.38
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (20 bp):
TTTTAAAACTAAATAATAAA
Found at i:3855199 original size:18 final size:18
Alignment explanation
Indices: 3855176--3855210 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3855166 CAATCATGCC
* *
3855176 TTTATATATATTTATTTA
1 TTTATAAATATCTATTTA
3855194 TTTATAAATATCTATTT
1 TTTATAAATATCTATTT
3855211 TTACATAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTATAAATATCTATTTA
Found at i:3858344 original size:28 final size:28
Alignment explanation
Indices: 3858285--3858345 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 28
3858275 AGGCCGGTTT
*
3858285 TTTTTTAAAATTTACCGAAATGGACCGG
1 TTTTTTAAAATTTACCGAAATGGACCGA
* * *
3858313 TTTTTTAATTATTTACCGGAATGGGCC-A
1 TTTTTTAA-AATTTACCGAAATGGACCGA
3858341 TTTTT
1 TTTTT
3858346 CGCGAAATCG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 13 0.46
29 15 0.54
ACGTcount: A:0.26, C:0.13, G:0.16, T:0.44
Consensus pattern (28 bp):
TTTTTTAAAATTTACCGAAATGGACCGA
Found at i:3868662 original size:20 final size:21
Alignment explanation
Indices: 3868635--3868686 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
3868625 GTTTTTTCAA
* *
3868635 TGTAAATTTTATTAATTTGAC
1 TGTAAATTTTATAAATTTAAC
*
3868656 T-TAAATTTAATAAATTTAAC
1 TGTAAATTTTATAAATTTAAC
*
3868676 TGTAAAATTTA
1 TGTAAATTTTA
3868687 CACATAATAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.48
Consensus pattern (21 bp):
TGTAAATTTTATAAATTTAAC
Found at i:3875053 original size:23 final size:24
Alignment explanation
Indices: 3875030--3875075 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
3875020 ATTAGACGAA
*
3875030 TAACTTAATTTTCGAAGTGAGAAT
1 TAACTTAATTTTCAAAGTGAGAAT
*
3875054 TATCTTAATTTTCAAAGTGAGA
1 TAACTTAATTTTCAAAGTGAGA
3875076 GTTGTATAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (24 bp):
TAACTTAATTTTCAAAGTGAGAAT
Found at i:3875844 original size:12 final size:11
Alignment explanation
Indices: 3875815--3875857 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
3875805 TTACACATGA
3875815 ATTAAAAAATT
1 ATTAAAAAATT
*
3875826 CA-TAAAAAGTT
1 -ATTAAAAAATT
3875837 ATTAAAAAATT
1 ATTAAAAAATT
*
3875848 ATTTAAAAAT
1 ATTAAAAAAT
3875858 ATAGAGAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
10 1 0.04
11 25 0.93
12 1 0.04
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (11 bp):
ATTAAAAAATT
Found at i:3876082 original size:14 final size:14
Alignment explanation
Indices: 3876040--3876087 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 14
3876030 ATTAAAAATC
3876040 AATAGAAGTT-TATAA
1 AATA-AAGTTATA-AA
3876055 AATAAAAGGTTATAAA
1 AAT-AAA-GTTATAAA
3876071 AATAAAGTTATAAA
1 AATAAAGTTATAAA
3876085 AAT
1 AAT
3876088 TATAGAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
14 11 0.37
15 8 0.27
16 9 0.30
17 2 0.07
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.29
Consensus pattern (14 bp):
AATAAAGTTATAAA
Found at i:3876671 original size:31 final size:31
Alignment explanation
Indices: 3876610--3876670 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
3876600 ATAGTATTTG
*
3876610 AATAAATTTAATATATTTTTCTAAAATTTTT
1 AATAAATTTAATATATGTTTCTAAAATTTTT
*
3876641 AATAACATTTAA-AT-TGTTTCTATAATTTTT
1 AATAA-ATTTAATATATGTTTCTAAAATTTTT
3876671 TTTTATAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 14 0.52
31 7 0.26
32 6 0.22
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.54
Consensus pattern (31 bp):
AATAAATTTAATATATGTTTCTAAAATTTTT
Found at i:3876771 original size:11 final size:10
Alignment explanation
Indices: 3876729--3876789 Score: 63
Period size: 10 Copynumber: 5.9 Consensus size: 10
3876719 AAATTTCTAT
3876729 ATTTTTAATA
1 ATTTTTAATA
*
3876739 GTTTTT-ATA
1 ATTTTTAATA
3876748 ATTATTT-ATA
1 ATT-TTTAATA
3876758 ATTTTCTAATA
1 ATTTT-TAATA
3876769 ATTTTTAATGA
1 ATTTTTAAT-A
3876780 ATTTTATAAT
1 ATTTT-TAAT
3876790 TCATGTTAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
9 7 0.16
10 19 0.43
11 14 0.32
12 4 0.09
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (10 bp):
ATTTTTAATA
Found at i:3876786 original size:30 final size:27
Alignment explanation
Indices: 3876720--3876790 Score: 72
Period size: 30 Copynumber: 2.4 Consensus size: 27
3876710 ACATTTAAAA
*
3876720 AATTTCTAT-ATTTTTAATAGTTTTTAT
1 AATTT-TATAATTTTTAATAATTTTTAT
3876747 AATTATTTATAATTTTCTAATAATTTTTAAT
1 AA-T-TTTATAATTTT-TAATAATTTTT-AT
3876778 GAATTTTATAATT
1 -AATTTTATAATT
3876791 CATGTTAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
27 2 0.05
28 4 0.11
29 7 0.19
30 19 0.51
31 3 0.08
32 2 0.05
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (27 bp):
AATTTTATAATTTTTAATAATTTTTAT
Found at i:3883877 original size:8 final size:9
Alignment explanation
Indices: 3883859--3883912 Score: 51
Period size: 9 Copynumber: 6.2 Consensus size: 9
3883849 CTTCTTCTTC
3883859 TTTTTATCT
1 TTTTTATCT
3883868 TTTTTA-CT
1 TTTTTATCT
3883876 TTTTTAT-T
1 TTTTTATCT
** *
3883884 ATTAATATTT
1 -TTTTTATCT
3883894 TTTTTATCT
1 TTTTTATCT
3883903 TTTTTA-CT
1 TTTTTATCT
3883911 TT
1 TT
3883913 GATGGTGAAG
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
8 13 0.35
9 23 0.62
10 1 0.03
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTTTATCT
Found at i:3886507 original size:7 final size:7
Alignment explanation
Indices: 3886495--3886528 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
3886485 AAGATATTAG
3886495 TAAATGT
1 TAAATGT
3886502 TAAATGT
1 TAAATGT
3886509 TAAATGT
1 TAAATGT
*
3886516 TCAATGT
1 TAAATGT
*
3886523 TCAATG
1 TAAATG
3886529 AATTACTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.38, C:0.06, G:0.15, T:0.41
Consensus pattern (7 bp):
TAAATGT
Found at i:3893677 original size:31 final size:30
Alignment explanation
Indices: 3893619--3893678 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
3893609 AATTATTTAA
3893619 TATAAATAAATAAAATTATTATTTAACATG
1 TATAAATAAATAAAATTATTATTTAACATG
* *
3893649 TATAATTAATATAATATTATT-TTATAACAT
1 TATAAATAA-ATAAAATTATTATT-TAACAT
3893679 AATATATTCG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 10 0.38
31 16 0.62
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (30 bp):
TATAAATAAATAAAATTATTATTTAACATG
Found at i:3894727 original size:19 final size:19
Alignment explanation
Indices: 3894699--3894735 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
3894689 AAGAAATTAT
3894699 AAATTATAAAT-AATATTG
1 AAATTATAAATAAATATTG
3894717 AAATATATAAATAAATATT
1 AAAT-TATAAATAAATATT
3894736 TAAAAACTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 7 0.41
20 6 0.35
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (19 bp):
AAATTATAAATAAATATTG
Found at i:3897909 original size:56 final size:55
Alignment explanation
Indices: 3897809--3897916 Score: 155
Period size: 56 Copynumber: 1.9 Consensus size: 55
3897799 TTTTTTAAGA
* *
3897809 TATATTTAAAATATAAAAAATTAAATACATGACACACATATCATCATCTTAATTT
1 TATATTTAAAATATAAAAAATTAAATAAATGACACACATATCATCACCTTAATTT
* *
3897864 TATATTTAAAATTTAAAAATATTAAATAAATGATACACA-AGTCATCACCTTAA
1 TATATTTAAAATATAAAAA-ATTAAATAAATGACACACATA-TCATCACCTTAA
3897917 CCTTGTCTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
55 19 0.40
56 28 0.60
ACGTcount: A:0.50, C:0.12, G:0.03, T:0.35
Consensus pattern (55 bp):
TATATTTAAAATATAAAAAATTAAATAAATGACACACATATCATCACCTTAATTT
Found at i:3898144 original size:17 final size:18
Alignment explanation
Indices: 3898112--3898145 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
3898102 TACAATTTAG
*
3898112 TACATATATATTATAAAT
1 TACATATATATAATAAAT
3898130 TACAT-TATATAATAAA
1 TACATATATATAATAAA
3898146 AATATAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (18 bp):
TACATATATATAATAAAT
Found at i:3906808 original size:21 final size:21
Alignment explanation
Indices: 3906782--3906826 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
3906772 CTTAACGGGA
*
3906782 TAGCTGATGTGGCTAGTTAAC
1 TAGCTGATGTGGCTAATTAAC
3906803 TAGCTGATGTGGCTAATTAAC
1 TAGCTGATGTGGCTAATTAAC
3906824 TAG
1 TAG
3906827 TCACGTTAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (21 bp):
TAGCTGATGTGGCTAATTAAC
Found at i:3908782 original size:15 final size:14
Alignment explanation
Indices: 3908750--3908782 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
3908740 AGGTTTTCAA
3908750 TTTTTTTTCTCTTC
1 TTTTTTTTCTCTTC
3908764 TTTTATTTTCT-TTC
1 TTTT-TTTTCTCTTC
3908778 TTTTT
1 TTTTT
3908783 CATTCATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 1 0.06
14 11 0.61
15 6 0.33
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTTTTTTCTCTTC
Found at i:3910202 original size:41 final size:41
Alignment explanation
Indices: 3910056--3910203 Score: 206
Period size: 41 Copynumber: 3.6 Consensus size: 41
3910046 CCGATTTTTG
* * *
3910056 GCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCATCAA
1 GCCTACTAGACATAAAGTCTGAATTGTTTCACCGGCATCAA
* * *
3910097 GCCTGCTAGACATAAAGTTTGAATTGTTTCACCGGCATAAA
1 GCCTACTAGACATAAAGTCTGAATTGTTTCACCGGCATCAA
* *
3910138 GTCTACTAGACATAAAGTCTGAATTGTTTCACCGGCATCCA
1 GCCTACTAGACATAAAGTCTGAATTGTTTCACCGGCATCAA
* *
3910179 GCCTACTAGGCATAGAGTCTGAATT
1 GCCTACTAGACATAAAGTCTGAATT
3910204 ATCTCACTGG
Statistics
Matches: 95, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 95 1.00
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (41 bp):
GCCTACTAGACATAAAGTCTGAATTGTTTCACCGGCATCAA
Found at i:3910229 original size:41 final size:41
Alignment explanation
Indices: 3910068--3910231 Score: 159
Period size: 41 Copynumber: 4.0 Consensus size: 41
3910058 CTGCTAGACT
* * * * *
3910068 TAAAGTCTGAAATGTTTCACCGGCATCAAGCCTGCTAGACA
1 TAAAGTCTGAATTATCTCACCGGCATCAAGCCTACTAGGCA
* * * * * *
3910109 TAAAGTTTGAATTGTTTCACCGGCATAAAGTCTACTAGACA
1 TAAAGTCTGAATTATCTCACCGGCATCAAGCCTACTAGGCA
* * *
3910150 TAAAGTCTGAATTGTTTCACCGGCATCCAGCCTACTAGGCA
1 TAAAGTCTGAATTATCTCACCGGCATCAAGCCTACTAGGCA
* * *
3910191 TAGAGTCTGAATTATCTCACTGGCAAT-AAGCCTTCTAGGCA
1 TAAAGTCTGAATTATCTCACCGGC-ATCAAGCCTACTAGGCA
3910232 CTGAGCTTGA
Statistics
Matches: 106, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
41 104 0.98
42 2 0.02
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (41 bp):
TAAAGTCTGAATTATCTCACCGGCATCAAGCCTACTAGGCA
Found at i:3913060 original size:66 final size:66
Alignment explanation
Indices: 3912940--3913073 Score: 191
Period size: 66 Copynumber: 2.0 Consensus size: 66
3912930 ATTCTGAAGC
* * *
3912940 TGTAGCTAGAGTTCATCATATTTTCTTGTTGCATCTGCTTCCTTCGCTGCTGCCTCTGCTTTAAG
1 TGTAGCTAGAGTTCATCATATTTTCTTGTAGCATCTACTTCCTTCGATGCTGCCTCTGCTTTAAG
3913005 T
66 T
* *
3913006 TGTAGCTAGAGTTCATCATATTTTCTT-TGAGCCTCTACTTCTCTT-GATGTTGCCTCTGCTTTA
1 TGTAGCTAGAGTTCATCATATTTTCTTGT-AGCATCTACTTC-CTTCGATGCTGCCTCTGCTTTA
3913069 AGT
64 AGT
3913072 TG
1 TG
3913074 AGCAACTTGC
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
65 1 0.02
66 57 0.93
67 3 0.05
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.45
Consensus pattern (66 bp):
TGTAGCTAGAGTTCATCATATTTTCTTGTAGCATCTACTTCCTTCGATGCTGCCTCTGCTTTAAG
T
Found at i:3914935 original size:20 final size:20
Alignment explanation
Indices: 3914912--3914951 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
3914902 CACACAGGCT
*
3914912 TGTGCCTCCTTCCACATGGG
1 TGTGCCTCCCTCCACATGGG
**
3914932 TGTGTGTCCCTCCACATGGG
1 TGTGCCTCCCTCCACATGGG
3914952 CGTGTTGACC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.10, C:0.33, G:0.28, T:0.30
Consensus pattern (20 bp):
TGTGCCTCCCTCCACATGGG
Found at i:3916438 original size:17 final size:17
Alignment explanation
Indices: 3916416--3916451 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
3916406 ATGAAATAAT
3916416 GCCATTGAAAATTTGCC
1 GCCATTGAAAATTTGCC
3916433 GCCATTGAAAATTTGCC
1 GCCATTGAAAATTTGCC
3916450 GC
1 GC
3916452 AATTAAATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (17 bp):
GCCATTGAAAATTTGCC
Found at i:3920019 original size:100 final size:100
Alignment explanation
Indices: 3919847--3920122 Score: 295
Period size: 100 Copynumber: 2.8 Consensus size: 100
3919837 TACCTTCCCT
* * * * * *
3919847 GGCAGTATAGTGGAGCAGATTAAAGCCACAACGGCGAATCTTGCTTCCCTGATATTGCAATTTAA
1 GGCAGTGTAGTGGAGCAGATTAAAGCTACGACGGTGAATCTTGCTTCCCTGACATTGCAATTAAA
* * * * *** *
3919912 AATATTGAAGTCGCAATGGTGAATCTTACTT-TCCT
66 AAGATTGAAGCCACAACGACAAATCTTACTTCT-CA
* * **
3919947 GGC-GATGTAGTGGAGCATATTGAAGCTACGACGGTGAATCTTGCTTCCCCAACATTGCAATTAA
1 GGCAG-TGTAGTGGAGCAGATTAAAGCTACGACGGTGAATCTTGCTTCCCTGACATTGCAATTAA
3920011 AAAGATTGAAGCCACAACGACAAATCTTACTTCTCA
65 AAAGATTGAAGCCACAACGACAAATCTTACTTCTCA
** ** * * *
3920047 GGCAGTGTAGTGGAATAGATTAAAGCTACGATAGTGAATCTTGTTTCCCTGACATTGCAGTTCAA
1 GGCAGTGTAGTGGAGCAGATTAAAGCTACGACGGTGAATCTTGCTTCCCTGACATTGCAATTAAA
3920112 AAGATTGAAGC
66 AAGATTGAAGC
3920123 TATACATTAC
Statistics
Matches: 144, Mismatches: 29, Indels: 6
0.80 0.16 0.03
Matches are distributed among these distances:
99 1 0.01
100 141 0.98
101 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.28
Consensus pattern (100 bp):
GGCAGTGTAGTGGAGCAGATTAAAGCTACGACGGTGAATCTTGCTTCCCTGACATTGCAATTAAA
AAGATTGAAGCCACAACGACAAATCTTACTTCTCA
Found at i:3920267 original size:44 final size:43
Alignment explanation
Indices: 3920219--3920809 Score: 302
Period size: 44 Copynumber: 13.8 Consensus size: 43
3920209 AAAGAACCCA
*
3920219 ATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TAAAACCACAG
* * *** *
3920263 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATC-CAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAAAACCACAG
*** *
3920305 -TCTTATCTCCCT-AA-TCAATAGTGGAGCGGACGA-AAGAAAC-CA-
1 ATCTTATCTCCCTGAAGT-TGCAGTGGAGC--A-GATAA-AACCACAG
* *
3920347 ATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TAAAACCACAG
* * *** * *
3920391 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGTATC-TAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAAAACCACAG
* ** * * * *
3920433 -TTTTATCTCCCT-AAGCAGTAGTGGAGTAGACGAAAGA-AAGCA-
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TAAA-ACCA-CAG
* * * * *
3920475 ATCCTATCTCCCTGAAGTTACAGTAGAGCGGATTAAAACCACAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TAAAACCACAG
* * * * *** *
3920519 ATCTTATATCTCTGAAGTTGCAGTAGAGTAGATCGCATC-CAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAAAACCACAG
* * **
3920561 -TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACAAAAGAAACCA-
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAAAA-CCA-CAG
* * * * *
3920604 ATCCTATCTCCTTGAAGTTACAGTAGAGCGGATTAAAACCACAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TAAAACCACAG
* * * ***
3920648 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACTTC-CAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAAAACCACAG
* *
3920690 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGA-AACCAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TAAA-ACCA-CAG
* * * *
3920734 -TCCTATCTCCCTAAAATTGCAGTGGAGCGGATTAAAACCACAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TAAAACCACAG
* * * *
3920777 ATCTTATCTCTCTAAAGTTGTAGTAGAGCAGAT
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
3920810 CGTATCAAGT
Statistics
Matches: 399, Mismatches: 116, Indels: 65
0.69 0.20 0.11
Matches are distributed among these distances:
39 1 0.00
40 22 0.06
41 79 0.20
42 16 0.04
43 54 0.14
44 222 0.56
45 5 0.01
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (43 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAAAACCACAG
Found at i:3920577 original size:41 final size:41
Alignment explanation
Indices: 3920136--3920830 Score: 249
Period size: 44 Copynumber: 16.3 Consensus size: 41
3920126 ACATTACAGA
* * * ***
3920136 TCTTATCTCTCTGAAGTTGGAATAGAGCAGATTGCATCCAG
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCAAATCCAG
** * * * * *
3920177 TCTTATCTCCCT-AAGCAGTAGTGGAGCGGACGA-AAGAACCCAA
1 TCTTATCTCCCTGAAGTTGCAGTAGAGC--A-GATCA-AATCCAG
* * * *
3920220 TCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAG
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-TCAAATC-CAG
* **
3920263 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAG
1 -TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCAAATCCAG
*** * * * *
3920305 TCTTATCTCCCT-AA-TCAATAGTGGAGCGGACGA-AAGAAACCAA
1 TCTTATCTCCCTGAAGT-TGCAGTAGAGC--A-GATCA-AATCCAG
* * * * *
3920348 TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAG
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-TCAAATC-CAG
* ** *
3920391 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGTATCTAG
1 -TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCAAATCCAG
* * * * ** *
3920433 TTTTATCTCCCTAAGCAGTAGTGGAGTAGA-C-GA-AAGAAAGCAA
1 TCTTATCTCCCT--GAAGT--TGCAGTAGAGCAGATCA-AATCCAG
* * * * * *
3920476 TCCTATCTCCCTGAAGTTACAGTAGAGCGGATTAAAACCACAAA
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-TCAAATC-C-AG
* * * **
3920520 TCTTATATCTCTGAAGTTGCAGTAGAGTAGATCGCATCCAG
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCAAATCCAG
* * * *
3920561 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGA-CAAAAGAAACCAA
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATC---A-AATCCAG
* * * * * *
3920605 TCCTATCTCCTTGAAGTTACAGTAGAGCGGATTAAAACCACAG
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-TCAAATC-CAG
* **
3920648 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACTTCCAG
1 -TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCAAATCCAG
* *
3920690 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CGAAAGAAACCAG
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATC---A-AATCCAG
* * * * * * *
3920734 TCCTATCTCCCTAAAATTGCAGTGGAGCGGATTAAAACCACAG
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-TCAAATC-CAG
* * * ** *
3920777 ATCTTATCTCTCTAAAGTTGTAGTAGAGCAGATCGTATCAAG
1 -TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCAAATCCAG
3920819 TCTTATCTCCCT
1 TCTTATCTCCCT
3920831 AAGCAGTAGT
Statistics
Matches: 479, Mismatches: 128, Indels: 94
0.68 0.18 0.13
Matches are distributed among these distances:
39 8 0.02
40 22 0.05
41 109 0.23
42 28 0.06
43 87 0.18
44 216 0.45
45 9 0.02
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (41 bp):
TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCAAATCCAG
Found at i:3920930 original size:128 final size:128
Alignment explanation
Indices: 3920131--3920888 Score: 1120
Period size: 128 Copynumber: 5.9 Consensus size: 128
3920121 GCTATACATT
* * *
3920131 ACAGATCTTATCTCTCTGAAGTTGGAATAGAGCAGATTGCATCCAGTCTTATCTCCCTAAGCAGT
1 ACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAGCAGT
* * *
3920196 AGTGGAGCGGACGAAAGAACCCAATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACC
66 AGTGGAGCAGACGAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACC
* *
3920259 ACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAATCAAT
1 ACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAGCAGT
*
3920324 AGTGGAGCGGACGAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACC
66 AGTGGAGCAGACGAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACC
* * *
3920387 ACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGTATCTAGTTTTATCTCCCTAAGCAGT
1 ACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAGCAGT
* * * *
3920452 AGTGGAGTAGACGAAAGAAAGCAATCCTATCTCCCTGAAGTTACAGTAGAGCGGATTAAAACC
66 AGTGGAGCAGACGAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACC
* * * **
3920515 ACAAATCTTATATCTCTGAAGTTGCAGTAGAGTAGATCGCATCCAGTCTTATCTCCCTGAAGTTG
1 ACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCT-AAGCAG
* * * *
3920580 TAGTGGAGCAGACAAAAGAAACCAATCCTATCTCCTTGAAGTTACAGTAGAGCGGATTAAAACC
65 TAGTGGAGCAGACGAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACC
* * **
3920644 ACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACTTCCAGTCTTATCTCCCTGAAGTTG
1 ACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCT-AAGCAG
* * * *
3920709 CAGTGGAGCAGACGAAAGAAACCAGTCCTATCTCCCTAAAATTGCAGTGGAGCGGATTAAAACC
65 TAGTGGAGCAGACGAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACC
* * * *
3920773 ACAGATCTTATCTCTCTAAAGTTGTAGTAGAGCAGATCGTATCAAGTCTTATCTCCCTAAGCAGT
1 ACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAGCAGT
* * * * *
3920838 AGTGGAACAGACGAAAGAAATCAATTCTATCTCCCCGAAGTTGTAGTGGAG
66 AGTGGAGCAGACGAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAG
3920889 TCGATGACAA
Statistics
Matches: 570, Mismatches: 59, Indels: 2
0.90 0.09 0.00
Matches are distributed among these distances:
128 338 0.59
129 232 0.41
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (128 bp):
ACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAGCAGT
AGTGGAGCAGACGAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACC
Found at i:3922220 original size:19 final size:19
Alignment explanation
Indices: 3922198--3922247 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
3922188 ACTACTAGTT
3922198 TTATTTTATTTTA-CTATTA
1 TTATTTTATTTTAGC-ATTA
3922217 TTATTATTA-TTTAGCATTA
1 TTATT-TTATTTTAGCATTA
*
3922236 TTATTATATTTT
1 TTATTTTATTTT
3922248 TTATTAACCT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 2 0.07
19 21 0.78
20 4 0.15
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (19 bp):
TTATTTTATTTTAGCATTA
Found at i:3922223 original size:22 final size:23
Alignment explanation
Indices: 3922170--3922227 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 23
3922160 GTCCTTTGTT
3922170 TTATTATT-TTATTAGTTTACTA
1 TTATTATTATTATTAGTTTACTA
* *
3922192 CTAGTT-TTATT-TTATTTTACTA
1 TTA-TTATTATTATTAGTTTACTA
3922214 TTATTATTATTATT
1 TTATTATTATTATT
3922228 TAGCATTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
21 2 0.07
22 21 0.72
23 6 0.21
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.66
Consensus pattern (23 bp):
TTATTATTATTATTAGTTTACTA
Found at i:3923447 original size:109 final size:106
Alignment explanation
Indices: 3923253--3923450 Score: 297
Period size: 109 Copynumber: 1.8 Consensus size: 106
3923243 TAAATTTAAC
*
3923253 AGGATATTTGGCAATTTGGTTAAACGAGAAATCGAAACCCAGCACCTTAGGGCACGTTCCTCGAA
1 AGGATATTTAGCAATTTGGTTAAACGAGAAATCGAAACCCAGCACCTTAGGGCACGTTCCTCGAA
*
3923318 TTTCCAAACGCAAAACATTGCCTTATTTTGTAATTTTTGAA
66 CTTCCAAACGCAAAACATTGCCTTATTTTGTAATTTTTGAA
* * * * * *
3923359 AGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGACACCCAGCACTTTAGGGCATGTTTTCTC
1 AGGATATTTAGCAATTTGGTTAAACGAG--AAATCGAAACCCAGCACCTTAGGGCACG-TTCCTC
3923424 GAACTTCCAAACGCAAAACATTGCCTT
63 GAACTTCCAAACGCAAAACATTGCCTT
3923451 TATTATTTTT
Statistics
Matches: 81, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
106 25 0.31
108 25 0.31
109 31 0.38
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (106 bp):
AGGATATTTAGCAATTTGGTTAAACGAGAAATCGAAACCCAGCACCTTAGGGCACGTTCCTCGAA
CTTCCAAACGCAAAACATTGCCTTATTTTGTAATTTTTGAA
Found at i:3925239 original size:18 final size:18
Alignment explanation
Indices: 3925201--3925240 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
3925191 GAAAGATTAC
*
3925201 AAAAAATAAACAACAAAT
1 AAAAAATAAACAAAAAAT
3925219 AAAAAATAAA-AAAAAAGT
1 AAAAAATAAACAAAAAA-T
3925237 AAAA
1 AAAA
3925241 CAAATAAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.82, C:0.05, G:0.03, T:0.10
Consensus pattern (18 bp):
AAAAAATAAACAAAAAAT
Found at i:3928290 original size:58 final size:58
Alignment explanation
Indices: 3928221--3928335 Score: 212
Period size: 58 Copynumber: 2.0 Consensus size: 58
3928211 CCATGGAACA
*
3928221 TTTTAAAAGAAAAAAAACTAGATCAAGAACCTTACCTTCTTTGAGATTTGGAGGATGT
1 TTTTAAAAGAAAAAAAACTAGATCAAGAACCTTACCTTCTTTGAGATTTAGAGGATGT
*
3928279 TTTTAAAAGAAAAAAAACTAGATCAAGACCCTTACCTTCTTTGAGATTTAGAGGATG
1 TTTTAAAAGAAAAAAAACTAGATCAAGAACCTTACCTTCTTTGAGATTTAGAGGATG
3928336 AAAAAAAATG
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (58 bp):
TTTTAAAAGAAAAAAAACTAGATCAAGAACCTTACCTTCTTTGAGATTTAGAGGATGT
Found at i:3936746 original size:20 final size:20
Alignment explanation
Indices: 3936721--3936770 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
3936711 TGGCTTAAAA
3936721 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
3936741 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
3936758 GTGGTAGTGGATT
1 TTGGTAGTGGATT
3936771 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:3941388 original size:20 final size:20
Alignment explanation
Indices: 3941363--3941412 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
3941353 TGGCTTAAAA
3941363 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
3941383 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
3941400 GTGGTAGTGGATT
1 TTGGTAGTGGATT
3941413 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:3941846 original size:27 final size:27
Alignment explanation
Indices: 3941808--3941862 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
3941798 AACATATCTC
3941808 TATTGTTTGGTTATTTTTGGATTTTTT
1 TATTGTTTGGTTATTTTTGGATTTTTT
3941835 TATTGTTTGGTTATTTTTGGATTTTTT
1 TATTGTTTGGTTATTTTTGGATTTTTT
3941862 T
1 T
3941863 CATGCTTGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.11, C:0.00, G:0.18, T:0.71
Consensus pattern (27 bp):
TATTGTTTGGTTATTTTTGGATTTTTT
Found at i:3941881 original size:28 final size:27
Alignment explanation
Indices: 3941808--3941870 Score: 92
Period size: 27 Copynumber: 2.3 Consensus size: 27
3941798 AACATATCTC
*
3941808 TATTGTTTGGTTATTTTTGGATTTTTT
1 TATTGCTTGGTTATTTTTGGATTTTTT
*
3941835 TATTGTTTGGTTATTTTTGGATTTTTT
1 TATTGCTTGGTTATTTTTGGATTTTTT
3941862 TCA-TGCTTG
1 T-ATTGCTTG
3941871 TTTTATGTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 33 0.97
28 1 0.03
ACGTcount: A:0.11, C:0.03, G:0.19, T:0.67
Consensus pattern (27 bp):
TATTGCTTGGTTATTTTTGGATTTTTT
Found at i:3951383 original size:112 final size:110
Alignment explanation
Indices: 3951358--3951909 Score: 561
Period size: 119 Copynumber: 5.0 Consensus size: 110
3951348 AAATTTTTTT
*
3951358 TTTATTTTTTGGTGGTGG-CTAGGCAACGGCCGACACCACCTTTATGTAATTTTTTTTTACATTT
1 TTTATTTTTTGGTGGTGGCCT-GGCAATGGCCGACACCACCTTTATGTAATTTTTTTTTACATTT
** *
3951422 T-AACTGTCATTGGCCGGCACCAATATACGAAAAAATTCAAAAAAA
65 TGGGCTGTCATTGGCCGGCACCAGTATACGAAAAAATTCAAAAAAA
*** * * *
3951467 AAAATTTTTTGGTGGTGGACTGGCAATGGCCGGCACCACATTTATGTAAATTTTATTTTTTTTTA
1 TTTATTTTTTGGTGGTGGCCTGGCAATGGCCGACACCACCTTTATGT--A----ATTTTTTTTTA
* * ** *
3951532 CATTTTGGGCTGTCATTAGCCGGCACTAGTATAC-AAAATTTTTTTTAAAAAAAA
60 CATTTTGGGCTGTCATTGGCCGGCACCAGTATACGAAAA----AATTCAAAAAAA
3951586 TTTATTTTTTGGTGGTGGCCTGGCAATGGCCGACACCACCTTTATGTAATTTTTTTTTACATTTT
1 TTTATTTTTTGGTGGTGGCCTGGCAATGGCCGACACCACCTTTATGTAATTTTTTTTTACATTTT
* *
3951651 -GGCTGTCATTGGCCGGTACCAGTATATGAAAAAATTC---AAAA
66 GGGCTGTCATTGGCCGGCACCAGTATACGAAAAAATTCAAAAAAA
* ******
3951692 TTT-TTTTTTGGTGGTGGCCTAGCAATGGCCGACACCACCTTTATGTAA--AAAAAATACATTTT
1 TTTATTTTTTGGTGGTGGCCTGGCAATGGCCGACACCACCTTTATGTAATTTTTTTTTACATTTT
* * * **
3951754 GGGTTGTCATTGGCAGGCACTAGTATATAAAAAAATTC-AAAAAA
66 GGGCTGTCATTGGCCGGCACCAGTATACGAAAAAATTCAAAAAAA
* * * * * *
3951798 TTTTTTGTTTTGGTGGTGGTCTGGAAATGGCCTG-CACTACCTATATGTAATTTTTTTTATATAT
1 TTTATT-TTTTGGTGGTGGCCTGGCAATGGCC-GACACCACCTTTATGTAATTTTTTTT-TACAT
**
3951862 TTTGGGCTGTCATTGGCCGGCACCAGTATATAAAAAAATTCAAAAAAA
63 TTTGGGCTGTCATTGGCCGGCACCAGTATACGAAAAAATTCAAAAAAA
3951910 AAATTTTGTG
Statistics
Matches: 366, Mismatches: 54, Indels: 43
0.79 0.12 0.09
Matches are distributed among these distances:
103 8 0.02
104 32 0.09
105 44 0.12
106 14 0.04
107 2 0.01
108 36 0.10
109 41 0.11
110 2 0.01
111 43 0.12
112 29 0.08
113 21 0.06
115 21 0.06
116 22 0.06
117 1 0.00
119 50 0.14
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.37
Consensus pattern (110 bp):
TTTATTTTTTGGTGGTGGCCTGGCAATGGCCGACACCACCTTTATGTAATTTTTTTTTACATTTT
GGGCTGTCATTGGCCGGCACCAGTATACGAAAAAATTCAAAAAAA
Found at i:3951640 original size:228 final size:218
Alignment explanation
Indices: 3951093--3951954 Score: 844
Period size: 228 Copynumber: 4.0 Consensus size: 218
3951083 GTAAAAAAAA
* * * *
3951093 TTACATTTTGGCCTGTCATTGGCCGGCACCAGTATACGAAAAAATTT----TAAATTTTTTTTTT
1 TTACATTTTGGGCTGTCATTGGCCGGCACTAGTATAC-AAAAAATTTAAAAAAAATTTATTTTTT
* *
3951154 GGTGGTGGCCTGGCAATTGCC-AGCACCACCTTTATGTAATTTTTTTTTTACATTTTGGGCTGTA
65 GGTGGTGG-CTGGCAATGGCCGA-CACCACCTTTATGTAA-TTTTTTTTTACATTTT-GGCTGTC
* * * * *
3951218 ATTGGCC-ACACCAGTATACGAAAAAATT-------AAATTTTTTTGGTGGTAGCCTGGCAATGG
126 ATTGGCCGGCACCAGTATATGAAAAAATTCAAAAAAAAAATTTTTTGGTGGTGGACTGGCAATGG
*
3951275 CCGGCACCACCTTTATGT--AATTTTTT
191 CCGGCACCACATTTATGTAAAATTTTTT
* *****
3951301 TTACATTTTGGACTGTCATTGGCCGGCACTAGTATACGAAAAAATTTAAATTTTTTTTTTATTTT
1 TTACATTTTGGGCTGTCATTGGCCGGCACTAGTATAC-AAAAAATTTAAA--AAAAATTTATTTT
* **
3951366 TTGGTGGTGGCTAGGCAACGGCCGACACCACCTTTATGTAATTTTTTTTTACATTTTAACTGTCA
63 TTGGTGGTGGCT-GGCAATGGCCGACACCACCTTTATGTAATTTTTTTTTACATTTTGGCTGTCA
* *
3951431 TTGGCCGGCACCAATATACGAAAAAATTCAAAAAAAAAAATTTTTTGGTGGTGGACTGGCAATGG
127 TTGGCCGGCACCAGTATATGAAAAAATTC-AAAAAAAAAATTTTTTGGTGGTGGACTGGCAATGG
3951496 CCGGCACCACATTTATGTAAATTTTATTTTTTT
191 CCGGCACCACATTTATGTAAA----A-TTTTTT
* **
3951529 TTACATTTTGGGCTGTCATTAGCCGGCACTAGTATACAAAATTTTTTTTAAAAAAAATTTATTTT
1 TTACATTTTGGGCTGTCATTGGCCGGCACTAGTATACAAAA---AATTTAAAAAAAATTTATTTT
3951594 TTGGTGGTGGCCTGGCAATGGCCGACACCACCTTTATGTAATTTTTTTTTACATTTTGGCTGTCA
63 TTGGTGGTGG-CTGGCAATGGCCGACACCACCTTTATGTAATTTTTTTTTACATTTTGGCTGTCA
* *** * *
3951659 TTGGCCGGTACCAGTATATGAAAAAATTC---AAAATTTTTTTTTGGTGGTGGCCTAGCAATGGC
127 TTGGCCGGCACCAGTATATGAAAAAATTCAAAAAAAAAATTTTTTGGTGGTGGACTGGCAATGGC
* * ***
3951721 CGACACCACCTTTATGTAAAA---AAA
192 CGGCACCACATTTATGTAAAATTTTTT
* * * * * * *
3951745 ATACATTTTGGGTTGTCATTGGCAGGCACTAGTATATAAAAAAATT-CAAAAAATTTTTTGTTTT
1 TTACATTTTGGGCTGTCATTGGCCGGCACTAGTATACAAAAAATTTAAAAAAAATTTATT-TTTT
* * * *
3951809 GGTGGTGGTCTGGAAATGGCCTG-CACTACCTATATGTAATTTTTTTTATATATTTTGGGCTGTC
65 GGTGGTGG-CTGGCAATGGCC-GACACCACCTTTATGTAATTTTTTTT-TACATTTT-GGCTGTC
*
3951873 ATTGGCCGGCACCAGTATATAAAAAAATTCAAAAAAAAAA--TTTT-GTGGT-GACCTGGCAATG
126 ATTGGCCGGCACCAGTATATGAAAAAATTCAAAAAAAAAATTTTTTGGTGGTGGA-CTGGCAATG
* *
3951934 GCTGGCACCAAATTTAT-TAAA
190 GCCGGCACCACATTTATGTAAA
3951955 TATATATAAG
Statistics
Matches: 550, Mismatches: 68, Indels: 66
0.80 0.10 0.10
Matches are distributed among these distances:
208 45 0.08
212 22 0.04
213 84 0.15
214 55 0.10
215 62 0.11
216 40 0.07
218 4 0.01
220 1 0.00
221 43 0.08
223 1 0.00
224 46 0.08
227 5 0.01
228 134 0.24
229 2 0.00
230 6 0.01
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (218 bp):
TTACATTTTGGGCTGTCATTGGCCGGCACTAGTATACAAAAAATTTAAAAAAAATTTATTTTTTG
GTGGTGGCTGGCAATGGCCGACACCACCTTTATGTAATTTTTTTTTACATTTTGGCTGTCATTGG
CCGGCACCAGTATATGAAAAAATTCAAAAAAAAAATTTTTTGGTGGTGGACTGGCAATGGCCGGC
ACCACATTTATGTAAAATTTTTT
Found at i:3953291 original size:61 final size:61
Alignment explanation
Indices: 3953215--3953389 Score: 314
Period size: 61 Copynumber: 2.9 Consensus size: 61
3953205 GCGGATATGC
* *
3953215 AATGCTTAAAATTAAATGAAATAAATCAGCTTGGTAGAAAAAAAAGTGTGTCATAAAATTG
1 AATGCTTAAAATTAAATGAAATAAATTAGATTGGTAGAAAAAAAAGTGTGTCATAAAATTG
* *
3953276 AATGCTCAAAATTAAATGAAATAAATTAGATTGGTAGAAAAAAAAGTATGTCATAAAATTG
1 AATGCTTAAAATTAAATGAAATAAATTAGATTGGTAGAAAAAAAAGTGTGTCATAAAATTG
3953337 AATGCTTAAAATTAAATGAAATAAATTAGATTGGTAGAAAAAAAAGTGTGTCA
1 AATGCTTAAAATTAAATGAAATAAATTAGATTGGTAGAAAAAAAAGTGTGTCA
3953390 GATTGAATGA
Statistics
Matches: 108, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 108 1.00
ACGTcount: A:0.51, C:0.05, G:0.16, T:0.28
Consensus pattern (61 bp):
AATGCTTAAAATTAAATGAAATAAATTAGATTGGTAGAAAAAAAAGTGTGTCATAAAATTG
Found at i:3953414 original size:44 final size:45
Alignment explanation
Indices: 3953351--3953437 Score: 140
Period size: 44 Copynumber: 1.9 Consensus size: 45
3953341 CTTAAAATTA
* *
3953351 AATGAAATAAATTAGATTGGT-AGAAAAAAAAGTGTGTCAGATTG
1 AATGAAATAAATAAGATTGGTAAAAAAAAAAAGTGTGTCAGATTG
3953395 AATGAAATAAATAAGATTGGTAAAAAAAAAAAAGTGTGTCAGA
1 AATGAAATAAATAAGATTGGT-AAAAAAAAAAAGTGTGTCAGA
3953438 AGTATTAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
44 20 0.51
46 19 0.49
ACGTcount: A:0.53, C:0.02, G:0.21, T:0.24
Consensus pattern (45 bp):
AATGAAATAAATAAGATTGGTAAAAAAAAAAAGTGTGTCAGATTG
Found at i:3953605 original size:12 final size:12
Alignment explanation
Indices: 3953588--3953612 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3953578 GGTGTGCATT
3953588 CGGTTAACCGAC
1 CGGTTAACCGAC
3953600 CGGTTAACCGAC
1 CGGTTAACCGAC
3953612 C
1 C
3953613 CGAATTAGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:3953789 original size:9 final size:9
Alignment explanation
Indices: 3953775--3953867 Score: 132
Period size: 9 Copynumber: 10.3 Consensus size: 9
3953765 TGGTTAAAAA
3953775 TTAACCGAT
1 TTAACCGAT
*
3953784 TTAACCGAC
1 TTAACCGAT
3953793 TTAACCGAT
1 TTAACCGAT
*
3953802 TTAACTGAT
1 TTAACCGAT
*
3953811 TTAACCGAC
1 TTAACCGAT
*
3953820 TTAACCAAT
1 TTAACCGAT
3953829 TTAACCGAT
1 TTAACCGAT
*
3953838 TTAACCGAC
1 TTAACCGAT
*
3953847 TTAACCGAC
1 TTAACCGAT
3953856 TTAACCGAT
1 TTAACCGAT
3953865 TTA
1 TTA
3953868 GTTCAACTGA
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 74 1.00
ACGTcount: A:0.34, C:0.25, G:0.10, T:0.31
Consensus pattern (9 bp):
TTAACCGAT
Found at i:3953805 original size:27 final size:27
Alignment explanation
Indices: 3953775--3953867 Score: 159
Period size: 27 Copynumber: 3.4 Consensus size: 27
3953765 TGGTTAAAAA
3953775 TTAACCGATTTAACCGACTTAACCGAT
1 TTAACCGATTTAACCGACTTAACCGAT
* *
3953802 TTAACTGATTTAACCGACTTAACCAAT
1 TTAACCGATTTAACCGACTTAACCGAT
*
3953829 TTAACCGATTTAACCGACTTAACCGAC
1 TTAACCGATTTAACCGACTTAACCGAT
3953856 TTAACCGATTTA
1 TTAACCGATTTA
3953868 GTTCAACTGA
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 61 1.00
ACGTcount: A:0.34, C:0.25, G:0.10, T:0.31
Consensus pattern (27 bp):
TTAACCGATTTAACCGACTTAACCGAT
Found at i:3955030 original size:15 final size:14
Alignment explanation
Indices: 3955001--3955034 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
3954991 AGAAAGAAAA
3955001 AAGAAAAACTAAAG
1 AAGAAAAACTAAAG
*
3955015 AAGAAAGAACTGAAG
1 AAGAAA-AACTAAAG
3955030 AAGAA
1 AAGAA
3955035 CTGAAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.68, C:0.06, G:0.21, T:0.06
Consensus pattern (14 bp):
AAGAAAAACTAAAG
Found at i:3956852 original size:13 final size:13
Alignment explanation
Indices: 3956834--3956858 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3956824 CGCGACAATT
3956834 TTAATTTTTTCTG
1 TTAATTTTTTCTG
3956847 TTAATTTTTTCT
1 TTAATTTTTTCT
3956859 TTTTTTATAA
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:0.16, C:0.08, G:0.04, T:0.72
Consensus pattern (13 bp):
TTAATTTTTTCTG
Found at i:3956905 original size:31 final size:31
Alignment explanation
Indices: 3956832--3956905 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
3956822 ATCGCGACAA
* *
3956832 TTTTAATTTTTTCTGTTAATTTTTTCTTTTT
1 TTTTAATTTTTTCTGTTAAATATTTCTTTTT
* *
3956863 TTATAAATTTTTCTG-TAAATATTTCTTTTAT
1 TTTTAATTTTTTCTGTTAAATATTTCTTTT-T
*
3956894 TTTTACTTTTTT
1 TTTTAATTTTTT
3956906 TATTTTTAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
30 12 0.34
31 23 0.66
ACGTcount: A:0.19, C:0.07, G:0.03, T:0.72
Consensus pattern (31 bp):
TTTTAATTTTTTCTGTTAAATATTTCTTTTT
Found at i:3958259 original size:224 final size:220
Alignment explanation
Indices: 3957796--3958360 Score: 683
Period size: 224 Copynumber: 2.5 Consensus size: 220
3957786 TAAAGTTTAA
* * ** *
3957796 TGCCGGCCATTGTCAAGCCAGCACCCGAAAATTTTTTTTTTGAATTTTTTCGTATACTGGTGCCT
1 TGCCGGCCATTGTCAGGCCACCACCAAAAAATTTTTTTTTTGAATTTTTTCGTATACTGGTGCCG
* * * * *
3957861 GCCAATGATAGCCCAAAATGTAA-TTTTTTTTACATAAAGATGATGCAGGCCATTGCCAGGCCAC
66 GCCAATGACAGCCCAAAATGTAATTTTTTTTTACATAAAGGTGGTGCCGGCCATTGCCAAGCCAC
** ** * * *
3957925 CACCTAAAAAATTTTTTTTTTAAAATTTTTTTTCATATGTTAGTGCCGGCCAATGATAGCTAAAA
131 CACAAAAAAAACATTTTTTTTAAAATTTTTTGTCATATGTTAGTGCCGGCCAATGACAGCCAAAA
3957990 TGTAATTTTTTTTACATAAAGCTAG
196 TGTAATTTTTTTTACATAAAGCTAG
** *
3958015 TGCCGGCCATTG-CTAGGCCACCACCAAAAAATAACTTTTTTTGAATTTTTTCGTATACTGATGC
1 TGCCGGCCATTGTC-AGGCCACCACCAAAAAAT-TTTTTTTTTGAATTTTTTCGTATACTGGTGC
* * * *
3958079 CGGCCAATAACAGCCCAAAATGTAAATTTTTTTTTACATCAAGGTGGTGCCGGTCATTGTCAAGC
64 CGGCCAATGACAGCCCAAAATGT-AATTTTTTTTTACATAAAGGTGGTGCCGGCCATTGCCAAGC
* * ***
3958144 CACCACAAAAAAAAAGCATTTTTTTT-GAATTTTTTCGT-ATA-G-TGGTGCCTTTCAATGACAG
128 CACCAC-AAAAAAAA-CATTTTTTTTAAAATTTTTT-GTCATATGTTAGTGCCGGCCAATGACAG
* *
3958205 CCCAAAATGTAAAATTTTTTTTACATAAAGGTGG
190 -CCAAAATGT--AATTTTTTTTACATAAAGCTAG
*
3958239 TGCCGGCCATTGTCAGGCCACCACCAAAAATTTTTTTTTTTTGAATTTTTTCGTATACTGGTGCC
1 TGCCGGCCATTGTCAGGCCACCACCAAAAA-ATTTTTTTTTTGAATTTTTTCGTATACTGGTGCC
* * *
3958304 GACCAATGACAGCCCAAAATGTAATTTTTTTTTACATAAAAGTGGTGCCAGCCATTG
65 GGCCAATGACAGCCCAAAATGTAATTTTTTTTTACATAAAGGTGGTGCCGGCCATTG
3958361 ACAGACCAGC
Statistics
Matches: 293, Mismatches: 41, Indels: 20
0.83 0.12 0.06
Matches are distributed among these distances:
218 1 0.00
219 26 0.09
220 48 0.16
221 16 0.05
222 46 0.16
223 48 0.16
224 106 0.36
225 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.35
Consensus pattern (220 bp):
TGCCGGCCATTGTCAGGCCACCACCAAAAAATTTTTTTTTTGAATTTTTTCGTATACTGGTGCCG
GCCAATGACAGCCCAAAATGTAATTTTTTTTTACATAAAGGTGGTGCCGGCCATTGCCAAGCCAC
CACAAAAAAAACATTTTTTTTAAAATTTTTTGTCATATGTTAGTGCCGGCCAATGACAGCCAAAA
TGTAATTTTTTTTACATAAAGCTAG
Found at i:3958384 original size:111 final size:108
Alignment explanation
Indices: 3957796--3958387 Score: 636
Period size: 111 Copynumber: 5.4 Consensus size: 108
3957786 TAAAGTTTAA
* * **
3957796 TGCCGGCCATTGTCAAGCCAGCACCCGAAAA-TTTTTTTTTTGAATTTTTTCGTATACTGGTGCC
1 TGCCGGCCATTGTCAGGCCACCACCAAAAAATTTTTTTTTTTGAATTTTTTCGTATACTGGTGCC
* * *
3957860 TGCCAATGATAGCCCAAAATGTAATTTTTTTTACATAAAGATGA
66 GGCCAATGACAGCCCAAAATGTAATTTTTTTTACATAAAG-TGG
* * ** * ** *
3957904 TGCAGGCCATTGCCAGGCCACCACCTAAAAAATTTTTTTTTTAAAATTTTTTTTCATATGTTAGT
1 TGCCGGCCATTGTCAGGCCACCACC-AAAAAATTTTTTTTTTTGAA--TTTTTTCGTATACTGGT
* * *
3957969 GCCGGCCAATGATAG-CTAAAATGTAATTTTTTTTACATAAAGCTAG
63 GCCGGCCAATGACAGCCCAAAATGTAATTTTTTTTACATAAAG-TGG
*** *
3958015 TGCCGGCCATTG-CTAGGCCACCACCAAAAAATAACTTTTTTTGAATTTTTTCGTATACTGATGC
1 TGCCGGCCATTGTC-AGGCCACCACCAAAAAATTTTTTTTTTTGAATTTTTTCGTATACTGGTGC
* *
3958079 CGGCCAATAACAGCCCAAAATGTAAATTTTTTTTTACATCAAGGTGG
65 CGGCCAATGACAGCCCAAAATGT-AA-TTTTTTTTACAT-AAAGTGG
* * * *** *
3958126 TGCCGGTCATTGTCAAGCCACCACAAAAAAAAAGCATTTTTTTTGAATTTTTTCGTATAGTGGTG
1 TGCCGGCCATTGTCAGGCCACCAC--CAAAAAATTTTTTTTTTTGAATTTTTTCGTATACTGGTG
***
3958191 CCTTTCAATGACAGCCCAAAATGTAAAATTTTTTTTACATAAAGGTGG
64 CCGGCCAATGACAGCCCAAAATGT--AATTTTTTTTACATAAA-GTGG
*
3958239 TGCCGGCCATTGTCAGGCCACCACCAAAAATTTTTTTTTTTTGAATTTTTTCGTATACTGGTGCC
1 TGCCGGCCATTGTCAGGCCACCACCAAAAAATTTTTTTTTTTGAATTTTTTCGTATACTGGTGCC
*
3958304 GACCAATGACAGCCCAAAATGTAATTTTTTTTTACATAAAAGTGG
66 GGCCAATGACAGCCCAAAATGTAA-TTTTTTTTACAT-AAAGTGG
* * * *
3958349 TGCCAGCCATTGACAGACCAGCATCC--AAAATTTTTTTTT
1 TGCCGGCCATTGTCAGGCCACCA-CCAAAAAATTTTTTTTT
3958388 CCTTTTTTTC
Statistics
Matches: 405, Mismatches: 62, Indels: 33
0.81 0.12 0.07
Matches are distributed among these distances:
108 46 0.11
109 26 0.06
110 64 0.16
111 142 0.35
112 33 0.08
113 91 0.22
114 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.35
Consensus pattern (108 bp):
TGCCGGCCATTGTCAGGCCACCACCAAAAAATTTTTTTTTTTGAATTTTTTCGTATACTGGTGCC
GGCCAATGACAGCCCAAAATGTAATTTTTTTTACATAAAGTGG
Found at i:3960212 original size:12 final size:12
Alignment explanation
Indices: 3960195--3960219 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3960185 TTATTAGACC
3960195 GATCAGCTAGGA
1 GATCAGCTAGGA
3960207 GATCAGCTAGGA
1 GATCAGCTAGGA
3960219 G
1 G
3960220 CAACCATCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.36, T:0.16
Consensus pattern (12 bp):
GATCAGCTAGGA
Found at i:3981362 original size:16 final size:16
Alignment explanation
Indices: 3981329--3981369 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 16
3981319 ACGAAGGTAA
3981329 TTCAAGAATTTTT-TTT
1 TTCAA-AATTTTTGTTT
3981345 TTCAAAATTTTGTGTTT
1 TTCAAAATTTT-TGTTT
3981362 TTCAAAAT
1 TTCAAAAT
3981370 AAAAATTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.26
16 6 0.26
17 11 0.48
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.56
Consensus pattern (16 bp):
TTCAAAATTTTTGTTT
Found at i:3981565 original size:19 final size:19
Alignment explanation
Indices: 3981515--3981566 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
3981505 ATGTTTATGT
*
3981515 ATTTTCACATATTATAATA
1 ATTTTAACATATTATAATA
*
3981534 ATATTTAAAATATTAT-ATAA
1 AT-TTTAACATATTATAAT-A
3981554 ATTTTAACATATT
1 ATTTTAACATATT
3981567 TAAATTTCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (19 bp):
ATTTTAACATATTATAATA
Found at i:3985329 original size:31 final size:31
Alignment explanation
Indices: 3985271--3985339 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 31
3985261 AAGTTACAAA
* *
3985271 ATAA-TCATTAGAGTATTTGAAAATTTTTAT
1 ATAAGTCATTAAAGTATTCGAAAATTTTTAT
* *
3985301 ATAAGTCATTAAATTATTCGAAAGTTTTTAT
1 ATAAGTCATTAAAGTATTCGAAAATTTTTAT
*
3985332 TTAAGTCA
1 ATAAGTCA
3985340 CTAGGTTGTT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
30 4 0.12
31 29 0.88
ACGTcount: A:0.39, C:0.06, G:0.10, T:0.45
Consensus pattern (31 bp):
ATAAGTCATTAAAGTATTCGAAAATTTTTAT
Found at i:3985615 original size:21 final size:21
Alignment explanation
Indices: 3985589--3985631 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
3985579 AGAGCTTTTG
3985589 ATTGGTGTAGGGAGTGCGAAC
1 ATTGGTGTAGGGAGTGCGAAC
3985610 ATTGGTGTAGGGAGTGCGAAC
1 ATTGGTGTAGGGAGTGCGAAC
3985631 A
1 A
3985632 GGGAAGACCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.09, G:0.42, T:0.23
Consensus pattern (21 bp):
ATTGGTGTAGGGAGTGCGAAC
Found at i:3988606 original size:29 final size:28
Alignment explanation
Indices: 3988573--3988633 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
3988563 TAAAAGCCAT
*
3988573 TTTTTTCAAAATTTACCGAAATGGGCCGA
1 TTTTTTCAAAATTTACCGAAATGGACC-A
* ** *
3988602 TTTTTTGATTATTTACCGGAATGGACCA
1 TTTTTTCAAAATTTACCGAAATGGACCA
3988630 TTTT
1 TTTT
3988634 CCGCGAAATC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 5 0.19
29 22 0.81
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.43
Consensus pattern (28 bp):
TTTTTTCAAAATTTACCGAAATGGACCA
Found at i:3996178 original size:5 final size:5
Alignment explanation
Indices: 3996136--3996192 Score: 55
Period size: 5 Copynumber: 10.8 Consensus size: 5
3996126 GAATATATTA
3996136 AAAAT -AAAT AAAGA- AATAAT AAAAT AACAAGT ACAAAT AAAAT AAAAT
1 AAAAT AAAAT AAA-AT AA-AAT AAAAT AA-AA-T A-AAAT AAAAT AAAAT
3996184 AAAAT AAAA
1 AAAAT AAAA
3996193 ATGACGATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 14
0.76 0.00 0.24
Matches are distributed among these distances:
4 4 0.09
5 28 0.62
6 8 0.18
7 4 0.09
8 1 0.02
ACGTcount: A:0.75, C:0.04, G:0.04, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:3997414 original size:37 final size:37
Alignment explanation
Indices: 3997350--3997430 Score: 135
Period size: 37 Copynumber: 2.2 Consensus size: 37
3997340 TCACTCCACG
3997350 TTTGTCTGCGATCATTCAGTAAATTTTAGATAAGTGA
1 TTTGTCTGCGATCATTCAGTAAATTTTAGATAAGTGA
* * *
3997387 TTTGTCTGCGATCGTTCGGTAAGTTTTAGATAAGTGA
1 TTTGTCTGCGATCATTCAGTAAATTTTAGATAAGTGA
3997424 TTTGTCT
1 TTTGTCT
3997431 CTGTTTGTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.23, C:0.11, G:0.22, T:0.43
Consensus pattern (37 bp):
TTTGTCTGCGATCATTCAGTAAATTTTAGATAAGTGA
Found at i:4000279 original size:5 final size:6
Alignment explanation
Indices: 4000262--4000286 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
4000252 TGTTAAATTA
4000262 TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT T
4000287 GGTTTCTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:4006813 original size:20 final size:21
Alignment explanation
Indices: 4006790--4006853 Score: 67
Period size: 23 Copynumber: 2.9 Consensus size: 21
4006780 TAATTTTTAT
4006790 TTTATTTATTATTATTT-TTC
1 TTTATTTATTATTATTTATTC
*
4006810 TTTACTTTATTTATTACTTTATTT
1 TTTA-TTTA-TTATTA-TTTATTC
4006834 TATTATTTATTACTTATTTA
1 T-TTATTTATTA-TTATTTA
4006854 GATATTAATC
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
20 4 0.11
21 4 0.11
22 6 0.16
23 10 0.27
24 10 0.27
25 3 0.08
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTATTTATTATTATTTATTC
Found at i:4006818 original size:25 final size:26
Alignment explanation
Indices: 4006785--4006834 Score: 75
Period size: 25 Copynumber: 1.9 Consensus size: 26
4006775 CAACCTAATT
*
4006785 TTTATTTTATTTATTA-TTATTTTTC
1 TTTACTTTATTTATTACTTATTTTTC
4006810 TTTACTTTATTTATTACTTTATTTT
1 TTTACTTTATTTATTAC-TTATTTT
4006835 ATTATTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 15 0.68
27 7 0.32
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.74
Consensus pattern (26 bp):
TTTACTTTATTTATTACTTATTTTTC
Found at i:4006828 original size:12 final size:12
Alignment explanation
Indices: 4006811--4006844 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
4006801 TTATTTTTCT
4006811 TTACTTTATTTA
1 TTACTTTATTTA
4006823 TTACTTTATTTTA
1 TTACTTTA-TTTA
4006836 TTA-TTTATT
1 TTACTTTATT
4006845 ACTTATTTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 2 0.10
12 12 0.57
13 7 0.33
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.71
Consensus pattern (12 bp):
TTACTTTATTTA
Found at i:4006835 original size:17 final size:15
Alignment explanation
Indices: 4006784--4006837 Score: 56
Period size: 16 Copynumber: 3.5 Consensus size: 15
4006774 GCAACCTAAT
*
4006784 TTTTA-TTTTATTTA
1 TTTTATTTTTCTTTA
4006798 TTATTATTTTTCTTTA
1 TT-TTATTTTTCTTTA
*
4006814 CTTTATTTATTACTTTA
1 TTTTATTT-TT-CTTTA
4006831 TTTTATT
1 TTTTATT
4006838 ATTTATTACT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
14 2 0.06
15 9 0.27
16 11 0.33
17 11 0.33
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTATTTTTCTTTA
Found at i:4010600 original size:14 final size:14
Alignment explanation
Indices: 4010559--4010589 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
4010549 TTAATTCTGA
4010559 ATGGATGATGGACT
1 ATGGATGATGGACT
4010573 ATGGATGATGGACT
1 ATGGATGATGGACT
4010587 ATG
1 ATG
4010590 TATGCATGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.29, C:0.06, G:0.35, T:0.29
Consensus pattern (14 bp):
ATGGATGATGGACT
Found at i:4011438 original size:17 final size:17
Alignment explanation
Indices: 4011416--4011477 Score: 57
Period size: 17 Copynumber: 3.9 Consensus size: 17
4011406 TAAAATTGTG
4011416 TTGAGAAAATTATTTAA
1 TTGAGAAAATTATTTAA
4011433 TTGAG-AAA--ATTTACA
1 TTGAGAAAATTATTTA-A
4011448 ---A-AAAATTATTTAA
1 TTGAGAAAATTATTTAA
4011461 TTGAGAAAATTAATTTA
1 TTGAGAAAATT-ATTTA
4011478 GTTAATTTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 17
0.68 0.00 0.32
Matches are distributed among these distances:
12 4 0.11
13 1 0.03
14 10 0.28
15 1 0.03
16 4 0.11
17 11 0.31
18 5 0.14
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.39
Consensus pattern (17 bp):
TTGAGAAAATTATTTAA
Found at i:4012849 original size:20 final size:20
Alignment explanation
Indices: 4012824--4012873 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
4012814 TGGCTTAAAA
4012824 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
4012844 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
4012861 GTGGTAGTGGATT
1 TTGGTAGTGGATT
4012874 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:4017488 original size:20 final size:20
Alignment explanation
Indices: 4017463--4017512 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
4017453 TGGCTTAAAA
4017463 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
4017483 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
4017500 GTGGTAGTGGATT
1 TTGGTAGTGGATT
4017513 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:4025577 original size:273 final size:273
Alignment explanation
Indices: 4025090--4025634 Score: 729
Period size: 273 Copynumber: 2.0 Consensus size: 273
4025080 CATCGACGTT
* *
4025090 GGAAAAATATACTCCAAACCATAACAATTTGATATGCTGACGTCTCCTAACTCTGGGAAGCACAA
1 GGAAAAATATACTCCAAACCATAACAAGTAGATATGCTGACGTCTCCTAACTCTGGGAAGCACAA
* * *
4025155 AGAATTATGAGAATTGATGGTTGGTGATATTTCTCCCTCGTCGCCTTCCAATTCTGTCACTATTT
66 AGAAGTATGAGAATTGATAGTTGGTGATATTTCTCCCTCGTCACCTTCCAATTCTGTCACTATTT
** * * * * ** *
4025220 GCTTCATTTCATCACAGTAGCTTATGTCAAGACGTTTCAATTGTACTAGACTTTGAGCAAGAGAA
131 GCTTCAACTCAGCACAATAGATTATCTCAAGACGTTTCAAGAGTACGAGACTTTGAGCAAGAGAA
* **
4025285 AGTGAAAAGAGTGATTTCAAACGTGGGAACTTTTTTATAGTCAAAACAACTAAGCTTTCAAGTCT
196 AGTGAAAAGAGTGATTTCAAACGTGGGAACTGTAGTATAGTCAAAACAACTAAGCTTTCAAGTCT
4025350 TACATGTTGGGTC
261 TACATGTTGGGTC
* * ** * *
4025363 GGAAAAATATACTCCAAACCATCACAAGTAGATATG-TAGA-GTTTTGTTAACTTTGGGAAGGAC
1 GGAAAAATATACTCCAAACCATAACAAGTAGATATGCT-GACG-TCTCCTAACTCTGGGAAGCAC
* * *
4025426 AAAGAAGTATGAGAATTGATAGTAT-GTGATATTTCTCCCTTGTCACCTTCTAATTCTGTCACTG
64 AAAGAAGTATGAGAATTGATAGT-TGGTGATATTTCTCCCTCGTCACCTTCCAATTCTGTCACTA
* **
4025490 TTTGCTTCAACTCAGGACAATAGATTATCTCAAG-TTTTTCCAAGAGTACGAGACTTTGAGCAAG
128 TTTGCTTCAACTCAGCACAATAGATTATCTCAAGACGTTT-CAAGAGTACGAGACTTTGAGCAAG
* * **
4025554 AGAAAGTGAAAAGAGTGATTTCAAACGTGGGCAGTGTAGTATAGTCAATTCAACTAAGCTTTCAA
192 AGAAAGTGAAAAGAGTGATTTCAAACGTGGGAACTGTAGTATAGTCAAAACAACTAAGCTTTCAA
4025619 GTCTTACATGTTGGGT
257 GTCTTACATGTTGGGT
4025635 TGGCAATTCC
Statistics
Matches: 235, Mismatches: 33, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
272 5 0.02
273 229 0.97
274 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (273 bp):
GGAAAAATATACTCCAAACCATAACAAGTAGATATGCTGACGTCTCCTAACTCTGGGAAGCACAA
AGAAGTATGAGAATTGATAGTTGGTGATATTTCTCCCTCGTCACCTTCCAATTCTGTCACTATTT
GCTTCAACTCAGCACAATAGATTATCTCAAGACGTTTCAAGAGTACGAGACTTTGAGCAAGAGAA
AGTGAAAAGAGTGATTTCAAACGTGGGAACTGTAGTATAGTCAAAACAACTAAGCTTTCAAGTCT
TACATGTTGGGTC
Found at i:4027672 original size:17 final size:17
Alignment explanation
Indices: 4027650--4027697 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
4027640 AATCAAAAAT
4027650 TATTTTTAATAAGATAA
1 TATTTTTAATAAGATAA
4027667 TATTTTGTAATAA-ATAA
1 TATTTT-TAATAAGATAA
*
4027684 TATATTATAATAAG
1 TAT-TTTTAATAAG
4027698 CATTTTACTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 19 0.70
18 8 0.30
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (17 bp):
TATTTTTAATAAGATAA
Found at i:4028699 original size:14 final size:14
Alignment explanation
Indices: 4028680--4028706 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4028670 TATTTTTAAT
4028680 ATTTTTATAAAAAC
1 ATTTTTATAAAAAC
4028694 ATTTTTATAAAAA
1 ATTTTTATAAAAA
4028707 TAATCTTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (14 bp):
ATTTTTATAAAAAC
Found at i:4032535 original size:30 final size:31
Alignment explanation
Indices: 4032501--4032559 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
4032491 TTAAATTGCT
*
4032501 TTTATTTATTTT-AATTACTATGATTAATTA
1 TTTATTTATTTTAAATTACTATAATTAATTA
*
4032531 TTTATTTATTTTAAATTACTTTAATTAAT
1 TTTATTTATTTTAAATTACTATAATTAAT
4032560 GATATGGGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 12 0.46
31 14 0.54
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (31 bp):
TTTATTTATTTTAAATTACTATAATTAATTA
Found at i:4033020 original size:15 final size:16
Alignment explanation
Indices: 4033000--4033029 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4032990 ACATTATGTG
4033000 ACAAAAA-TAAATAAA
1 ACAAAAAGTAAATAAA
4033015 ACAAAAAGTAAATAA
1 ACAAAAAGTAAATAA
4033030 CTAAACCTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.77, C:0.07, G:0.03, T:0.13
Consensus pattern (16 bp):
ACAAAAAGTAAATAAA
Found at i:4034145 original size:21 final size:21
Alignment explanation
Indices: 4034096--4034146 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
4034086 TCATGTGATG
4034096 TCTGAAAATTATTCAGAGATA
1 TCTGAAAATTATTCAGAGATA
*
4034117 TCTAAAAATTATCTCA-AGAT-
1 TCTGAAAATTAT-TCAGAGATA
4034137 TCCTGAAAAT
1 T-CTGAAAAT
4034147 ATTTTATGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 1 0.04
21 22 0.85
22 3 0.12
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (21 bp):
TCTGAAAATTATTCAGAGATA
Found at i:4034381 original size:20 final size:20
Alignment explanation
Indices: 4034358--4034397 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
4034348 AAAATTATGA
4034358 GATTTATTATAAGAAACTTT
1 GATTTATTATAAGAAACTTT
4034378 GATTTATTATAAGAAACTTT
1 GATTTATTATAAGAAACTTT
4034398 ATAACGTGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.45
Consensus pattern (20 bp):
GATTTATTATAAGAAACTTT
Found at i:4044576 original size:84 final size:84
Alignment explanation
Indices: 4044435--4044605 Score: 315
Period size: 84 Copynumber: 2.0 Consensus size: 84
4044425 GCCAAGGTGA
* *
4044435 TTGGCACAACATATTCCAGTTTTGCACAGTCTTCGATGGAAAGAGTATTCAATTTGGGCAAGCGG
1 TTGGCACAACATATTCCAGTTTTGCACAGCCTTCGATGGAAAGAGTATTCAATTTGGGCAAGCAG
4044500 AGAGGAAGGGAAGAAGGCT
66 AGAGGAAGGGAAGAAGGCT
*
4044519 TTGGCACAACATATTCCAGTTTTGCACAGCCTTCGATGGAAAGAGTTTTCAATTTGGGCAAGCAG
1 TTGGCACAACATATTCCAGTTTTGCACAGCCTTCGATGGAAAGAGTATTCAATTTGGGCAAGCAG
4044584 AGAGGAAGGGAAGAAGGCT
66 AGAGGAAGGGAAGAAGGCT
4044603 TTG
1 TTG
4044606 ATTCTATTTC
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
84 84 1.00
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (84 bp):
TTGGCACAACATATTCCAGTTTTGCACAGCCTTCGATGGAAAGAGTATTCAATTTGGGCAAGCAG
AGAGGAAGGGAAGAAGGCT
Found at i:4048458 original size:17 final size:17
Alignment explanation
Indices: 4048425--4048471 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
4048415 ATCAAAAATC
*
4048425 ATTTTTAATAAGGTAAT
1 ATTTTTAATAAGATAAT
4048442 ATTTTGTAATAA-ATAAT
1 ATTTT-TAATAAGATAAT
*
4048459 ATATTATAATAAG
1 AT-TTTTAATAAG
4048472 CATTTTTCTG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
17 17 0.68
18 8 0.32
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.45
Consensus pattern (17 bp):
ATTTTTAATAAGATAAT
Found at i:4049385 original size:14 final size:16
Alignment explanation
Indices: 4049368--4049407 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
4049358 TTAATAATTT
4049368 AATATTTT-TAT-AAA
1 AATATTTTCTATAAAA
4049382 AATATTTTCTATAAAA
1 AATATTTTCTATAAAA
4049398 AATATTTTCT
1 AATATTTTCT
4049408 TAATATTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 8 0.33
15 3 0.12
16 13 0.54
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (16 bp):
AATATTTTCTATAAAA
Found at i:4049457 original size:14 final size:14
Alignment explanation
Indices: 4049440--4049466 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4049430 ATGGTTTAAT
4049440 ATTTTTATAAAAAC
1 ATTTTTATAAAAAC
4049454 ATTTTTATAAAAA
1 ATTTTTATAAAAA
4049467 TAATCTTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (14 bp):
ATTTTTATAAAAAC
Found at i:4051436 original size:59 final size:60
Alignment explanation
Indices: 4051324--4051437 Score: 133
Period size: 59 Copynumber: 1.9 Consensus size: 60
4051314 ACTTTTCAAG
* * * *
4051324 TTTTCTTAATTTGATACCTAGGCATTTTTTGGGTTCAATTTAGTACGTGAACTTGCACTT
1 TTTTCTTAATTTGATACCTAAGCATTTTTTAGGTTCAATTTAGCACCTGAACTTGCACTT
* ** *
4051384 TTTTC-TAATTTGGTACCTAAGTTTTTTTTAGGTTCAATTTGGCACCCT-AACTTG
1 TTTTCTTAATTTGATACCTAAGCATTTTTTAGGTTCAATTTAGCA-CCTGAACTTG
4051438 TTAAATGATA
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
59 38 0.84
60 7 0.16
ACGTcount: A:0.21, C:0.16, G:0.16, T:0.47
Consensus pattern (60 bp):
TTTTCTTAATTTGATACCTAAGCATTTTTTAGGTTCAATTTAGCACCTGAACTTGCACTT
Found at i:4053943 original size:10 final size:9
Alignment explanation
Indices: 4053923--4053948 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
4053913 AATAAGTTAT
4053923 AAAAAATAA
1 AAAAAATAA
4053932 AAAAAATAA
1 AAAAAATAA
4053941 AAAAAATA
1 AAAAAATA
4053949 TGTATGTACG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAAAATAA
Found at i:4064341 original size:29 final size:29
Alignment explanation
Indices: 4064308--4064369 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
4064298 ATAGCATGGA
* ** *
4064308 CACACTCCCATGTGTTTGTCCATGTGGCT
1 CACACGCCCATGTCCTTGCCCATGTGGCT
*
4064337 CACACGCCCATGTCCTTGCCCGTGTGGCT
1 CACACGCCCATGTCCTTGCCCATGTGGCT
4064366 CACA
1 CACA
4064370 TGGCCTAGGC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.15, C:0.37, G:0.21, T:0.27
Consensus pattern (29 bp):
CACACGCCCATGTCCTTGCCCATGTGGCT
Found at i:4066351 original size:27 final size:27
Alignment explanation
Indices: 4066313--4066378 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
4066303 AACTAATATG
4066313 AAATGACTGTTACAACCCT-ACATGGTA
1 AAATGACTGTTA-AACCCTCACATGGTA
** *
4066340 AAATGACTGTTATGCCCTCACGTGGTA
1 AAATGACTGTTAAACCCTCACATGGTA
*
4066367 AAATCACTGTTA
1 AAATGACTGTTA
4066379 TGCCCCTAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 4 0.12
27 30 0.88
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (27 bp):
AAATGACTGTTAAACCCTCACATGGTA
Found at i:4066395 original size:27 final size:27
Alignment explanation
Indices: 4066338--4066397 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
4066328 CCCTACATGG
* * *
4066338 TAAAATGACTGTTATGCCCTCACGTGG
1 TAAAATCACTGTTATGCCCTCAAGTGA
*
4066365 TAAAATCACTGTTATGCCC-CTAAGTTA
1 TAAAATCACTGTTATGCCCTC-AAGTGA
4066392 TAAAAT
1 TAAAAT
4066398 GATTGTATGC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.04
27 27 0.96
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.32
Consensus pattern (27 bp):
TAAAATCACTGTTATGCCCTCAAGTGA
Found at i:4069439 original size:9 final size:9
Alignment explanation
Indices: 4069425--4069449 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
4069415 GGGTCTAGCA
4069425 CTTTAATTT
1 CTTTAATTT
4069434 CTTTAATTT
1 CTTTAATTT
4069443 CTTTAAT
1 CTTTAAT
4069450 CCTTACTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (9 bp):
CTTTAATTT
Found at i:4071634 original size:16 final size:16
Alignment explanation
Indices: 4071613--4071682 Score: 86
Period size: 16 Copynumber: 4.4 Consensus size: 16
4071603 TTTGGTTCGC
* *
4071613 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
* *
4071629 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
4071645 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
* *
4071661 CGTAATAGAATAGAGG
1 TGTAATGGAATAGAGG
4071677 TGTAAT
1 TGTAAT
4071683 AGCAAATCAA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.33, C:0.01, G:0.34, T:0.31
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:4071717 original size:45 final size:41
Alignment explanation
Indices: 4071662--4071770 Score: 114
Period size: 45 Copynumber: 2.6 Consensus size: 41
4071652 GAATAGAGGC
*
4071662 GTAATAGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAAT
1 GTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGG-T---T
* * ***
4071707 GTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTT
1 GTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT
4071747 G-AATGGAATAGAGGTGTAATAGCA
1 GTAATGGAATAGAGGTGTAATAGCA
4071771 TAATGGAAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
39 20 0.36
40 2 0.04
43 1 0.02
44 11 0.20
45 21 0.38
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (41 bp):
GTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT
Found at i:4071938 original size:18 final size:17
Alignment explanation
Indices: 4071917--4071951 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
4071907 TTATTATTAA
*
4071917 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
4071935 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
4071952 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:4072090 original size:157 final size:156
Alignment explanation
Indices: 4071804--4072119 Score: 578
Period size: 157 Copynumber: 2.0 Consensus size: 156
4071794 TAGAATACCC
* *
4071804 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAATATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* *
4071869 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
4071934 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAAT-AAATTCTTAATAA
*
4071961 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
4072026 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
4072091 TATATAATTTAATAAATTCTTAATAA
131 TATATAATTTAATAAATTCTTAATAA
4072117 TTA
1 TTA
4072120 ATATTCTTAT
Statistics
Matches: 154, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
156 16 0.10
157 138 0.90
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (156 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAATTCTTAATAA
Found at i:4072091 original size:16 final size:16
Alignment explanation
Indices: 4072054--4072095 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
4072044 TTAATCATAT
*
4072054 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
4072070 TT-AAATATATTATAA
1 TTAAAATATATTATAA
4072085 TTAAAATATAT
1 TTAAAATATAT
4072096 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:4072102 original size:14 final size:15
Alignment explanation
Indices: 4072063--4072104 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
4072053 TTTAAACATA
*
4072063 ATTATTATTAAATAT
1 ATTATAATTAAATAT
4072078 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
4072092 A-TATAATTTAATA
1 ATTATAATTAAATA
4072105 AATTCTTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:4072183 original size:66 final size:64
Alignment explanation
Indices: 4072112--4072430 Score: 245
Period size: 66 Copynumber: 5.2 Consensus size: 64
4072102 ATAAATTCTT
4072112 AATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAA-TT
1 AATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT-TAAAATA-AAATTT
4072176 A
64 A
* ** * * *
4072177 ACATAATTATTATT-AAATAT--A-TTA-T--AAT--TAAAATAT-ATAATT-TAATAAAATTCT
1 A-ATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTTAAAATAAAATT-T
*
4072231 T
64 A
4072232 AATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAA-TT
1 AATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT-TAAAATA-AAATTT
4072296 A
64 A
* ** * * *
4072297 ACATAATTATTATT-AAATAT--A-TTA-T--AAT--TAAAATAT-ATAATT-TAATAAAATTCT
1 A-ATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTTAAAATAAAATT-T
*
4072351 T
64 A
*
4072352 AATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTG
1 AATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT-TAAAATAAAATTT-
4072417 A
64 A
4072418 AATAATTAATATT
1 AATAATTAATATT
4072431 AAATATATTT
Statistics
Matches: 193, Mismatches: 29, Indels: 63
0.68 0.10 0.22
Matches are distributed among these distances:
53 6 0.03
54 32 0.17
55 14 0.07
56 8 0.04
57 16 0.08
58 6 0.03
59 8 0.04
61 8 0.04
62 6 0.03
63 16 0.08
64 8 0.04
65 14 0.07
66 48 0.25
67 3 0.02
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.42
Consensus pattern (64 bp):
AATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTTAAAATAAAATTTA
Found at i:4072221 original size:14 final size:15
Alignment explanation
Indices: 4072172--4072223 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
4072162 GTAAAATATA
4072172 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
4072187 TATTAAATATATTAT
1 AATTAAATATATTAT
4072202 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
4072215 AATTTAATA
1 AATTAAATA
4072224 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:4072341 original size:14 final size:15
Alignment explanation
Indices: 4072292--4072343 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
4072282 GTAAAATATA
4072292 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
4072307 TATTAAATATATTAT
1 AATTAAATATATTAT
4072322 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
4072335 AATTTAATA
1 AATTAAATA
4072344 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:4072479 original size:120 final size:120
Alignment explanation
Indices: 4072057--4072468 Score: 740
Period size: 120 Copynumber: 3.4 Consensus size: 120
4072047 ATCATATTTA
4072057 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAAT-AAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
4072121 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
4072176 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
4072241 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
4072296 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
4072361 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AAATTT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAA-TT
* * *
4072416 GAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 -AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
4072469 TAAAATAATT
Statistics
Matches: 285, Mismatches: 5, Indels: 5
0.97 0.02 0.02
Matches are distributed among these distances:
119 50 0.18
120 233 0.82
121 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:4075951 original size:24 final size:23
Alignment explanation
Indices: 4075910--4075960 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
4075900 ACAGAGAAAT
4075910 AATT-AATTATTTAAATATT-TA
1 AATTAAATTATTTAAATATTATA
*
4075931 ATATTAAATTATTTTATATATTATA
1 A-ATTAAATTA-TTTAAATATTATA
4075956 AATTA
1 AATTA
4075961 TGTGACACCC
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 1 0.04
22 3 0.12
23 5 0.20
24 13 0.52
25 3 0.12
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
AATTAAATTATTTAAATATTATA
Found at i:4082953 original size:17 final size:17
Alignment explanation
Indices: 4082931--4082964 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
4082921 AAACAGTTTT
4082931 GAAATAAACAATATAAA
1 GAAATAAACAATATAAA
4082948 GAAATAAACAATATAAA
1 GAAATAAACAATATAAA
4082965 CAATTTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.71, C:0.06, G:0.06, T:0.18
Consensus pattern (17 bp):
GAAATAAACAATATAAA
Found at i:4082963 original size:9 final size:9
Alignment explanation
Indices: 4082934--4082973 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
4082924 CAGTTTTGAA
4082934 ATAAACAAT
1 ATAAACAAT
*
4082943 ATAAAGAA-
1 ATAAACAAT
4082951 ATAAACAAT
1 ATAAACAAT
4082960 ATAAACAAT
1 ATAAACAAT
*
4082969 TTAAA
1 ATAAA
4082974 TTACATAGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
8 7 0.26
9 20 0.74
ACGTcount: A:0.68, C:0.07, G:0.03, T:0.23
Consensus pattern (9 bp):
ATAAACAAT
Found at i:4093451 original size:18 final size:18
Alignment explanation
Indices: 4093424--4093516 Score: 132
Period size: 18 Copynumber: 5.2 Consensus size: 18
4093414 TACGACCGTT
4093424 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
* *
4093442 TACGGCACTATTCACATA
1 TACGGTACTATTCACGTA
*
4093460 TACAGTACTATTCACGTA
1 TACGGTACTATTCACGTA
**
4093478 TACGACACTATTCACGTA
1 TACGGTACTATTCACGTA
*
4093496 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
4093514 TAC
1 TAC
4093517 AGTAGTTGGG
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 64 1.00
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:4099946 original size:273 final size:273
Alignment explanation
Indices: 4099459--4100003 Score: 713
Period size: 273 Copynumber: 2.0 Consensus size: 273
4099449 CATCGACGTT
*
4099459 GGAAAAATATACTCCAAACCATAACAATTAGATATGCTGACATCTCCTAACTCTGGGAAGCACAA
1 GGAAAAATATACTCCAAACCATAACAAGTAGATATGCTGACATCTCCTAACTCTGGGAAGCACAA
* * * * *
4099524 AGAATTATGAGAATTGATGGTTGGTGATATTTCTCCCTCGTCGCCTTCCAATTCTGTCACTATTT
66 AGAAGTATGAGAATTGATAGTCGATGATATTTCTCCCTCGTCACCTTCCAATTCTGTCACTATTT
* * * * **
4099589 GCTTCATTTCATCACAGTAACTTATGTCAAGACGTTTCAATTGTACTAGACTTTGAGCAAGAGAA
131 GCTTCAATTCAGCACAATAACTTATCTCAAGACGTTTCAAGAGTACTAGACTTTGAGCAAGAGAA
* **
4099654 AGTGAAAAGAGTGATTTCAAACGTGGGCACTTTTTTATAGTCAAAACAACTAAACTTTCAAGTCT
196 AGTGAAAAGAGTGATTTCAAACGTGGGCACTGTAGTATAGTCAAAACAACTAAACTTTCAAGTCT
4099719 TACATGTTGGGTC
261 TACATGTTGGGTC
* * * ** * *
4099732 GGAAAAATATACTCCCAACCATCACAAGTAGATATG-TAGAGC-TTTGTTAACTTTGGGAAGGAC
1 GGAAAAATATACTCCAAACCATAACAAGTAGATATGCT-GA-CATCTCCTAACTCTGGGAAGCAC
* *
4099795 AAAGAAGTATGAGAATTGCTAGTCGATGATATTTCTCCCTCGTCACCTTCTAATTCTGTCACTAT
64 AAAGAAGTATGAGAATTGATAGTCGATGATATTTCTCCCTCGTCACCTTCCAATTCTGTCACTAT
* * **
4099860 TTGCTTCAATTCAGGACAATGGA-TTATCTCAAG-TTTTTCCAAGAGTA-TGAGACTTTGAGCAA
129 TTGCTTCAATTCAGCACAAT-AACTTATCTCAAGACGTTT-CAAGAGTACT-AGACTTTGAGCAA
* * ** *
4099922 GAGAAAGTGAAAAGAGTGATTTCAAACGTGGGCAGTGTAGTATGGTCAATTCAACTAAGCTTTCA
191 GAGAAAGTGAAAAGAGTGATTTCAAACGTGGGCACTGTAGTATAGTCAAAACAACTAAACTTTCA
4099987 AGTCTTACATGTTGGGT
256 AGTCTTACATGTTGGGT
4100004 TGGCAATTCC
Statistics
Matches: 234, Mismatches: 33, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
272 5 0.02
273 227 0.97
274 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (273 bp):
GGAAAAATATACTCCAAACCATAACAAGTAGATATGCTGACATCTCCTAACTCTGGGAAGCACAA
AGAAGTATGAGAATTGATAGTCGATGATATTTCTCCCTCGTCACCTTCCAATTCTGTCACTATTT
GCTTCAATTCAGCACAATAACTTATCTCAAGACGTTTCAAGAGTACTAGACTTTGAGCAAGAGAA
AGTGAAAAGAGTGATTTCAAACGTGGGCACTGTAGTATAGTCAAAACAACTAAACTTTCAAGTCT
TACATGTTGGGTC
Found at i:4101929 original size:31 final size:32
Alignment explanation
Indices: 4101890--4101962 Score: 105
Period size: 32 Copynumber: 2.3 Consensus size: 32
4101880 AAAAGATTAA
*
4101890 GTACCAAATTAAGA-AAAAATGTTAAG-TCTAG
1 GTACCAAATTAAGAGAAAAATGTCAAGTTC-AG
*
4101921 GTGCCAAATTAAGAGAAAAATGTCAAGTTCAG
1 GTACCAAATTAAGAGAAAAATGTCAAGTTCAG
4101953 GTACCAAATT
1 GTACCAAATT
4101963 TGACAAAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
31 13 0.35
32 22 0.59
33 2 0.05
ACGTcount: A:0.45, C:0.12, G:0.18, T:0.25
Consensus pattern (32 bp):
GTACCAAATTAAGAGAAAAATGTCAAGTTCAG
Found at i:4102775 original size:17 final size:17
Alignment explanation
Indices: 4102753--4102789 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
4102743 AATCAAAAAT
4102753 TATTTT-TAATAAGATAA
1 TATTTTGTAATAA-ATAA
4102770 TATTTTGTAATAAATAA
1 TATTTTGTAATAAATAA
4102787 TAT
1 TAT
4102790 ATTATAGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (17 bp):
TATTTTGTAATAAATAA
Done.