Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 21 of 144
Found at i:6276603 original size:131 final size:131
Alignment explanation
Indices: 6276435--6276819 Score: 673
Period size: 131 Copynumber: 2.9 Consensus size: 131
6276425 GCAGAGAAGC
* *
6276435 AGATCGAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGACGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
6276500 CTCCCTGTATTTGGCAGTGGAATAGATTAAAGATTACAGATCTTATCTCCCTAAGCAGTGTGGAG
66 CTCCCTGTATTTGGCAGTGGAATAGATTAAAGATTACAGATCTTATCTCCCTAAGCAGTGTGGAG
6276565 T
131 T
*
6276566 AGATCAAAGACGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGACGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
6276631 CTCCCTGTATTTGGCAGTGGAATAGATTAAAGATTACAGATCTTATCTCCCTAAGCAGTGTGGAG
66 CTCCCTGTATTTGGCAGTGGAATAGATTAAAGATTACAGATCTTATCTCCCTAAGCAGTGTGGAG
6276696 T
131 T
*
6276697 AGATCAAAGACGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCTGATAACTCTAT
1 AGATCAAAGACGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
* * * ** *
6276762 CTCCCTGTATTCGACAGCGGAATAGATCGAAGATTACA-TTCTTATCTCCCTAAGCAGT
66 CTCCCTGTATTTGGCAGTGGAATAGATTAAAGATTACAGATCTTATCTCCCTAAGCAGT
6276820 AGCGGAGCAG
Statistics
Matches: 243, Mismatches: 11, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
130 19 0.08
131 224 0.92
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.28
Consensus pattern (131 bp):
AGATCAAAGACGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
CTCCCTGTATTTGGCAGTGGAATAGATTAAAGATTACAGATCTTATCTCCCTAAGCAGTGTGGAG
T
Found at i:6276737 original size:43 final size:44
Alignment explanation
Indices: 6276448--6276740 Score: 114
Period size: 43 Copynumber: 6.7 Consensus size: 44
6276438 TCGAAGATGG
* ** *
6276448 CAGATTTTACCTCCCTGA-CTACAGTGGAGTACATTGAAGCCGA
1 CAGATTTTACCTCCCTGAGCTACAGTGGAGTAGATCAAAGACGA
* * * * ** * * * **
6276491 TA-ACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTAAAGATTA
1 CAGATTTTACCTCCCTG-AGCT-ACAGTGGAGTAGATCAAAGACGA
* * * ** *
6276536 CAGATCTTATCTCCCTAAGC-AGTGTGGAGTAGATCAAAGACGG
1 CAGATTTTACCTCCCTGAGCTACAGTGGAGTAGATCAAAGACGA
* * ** *
6276579 CAGATTTTACCTCCCTGA-CCACAGTGGAGTACATTGAAGCCGA
1 CAGATTTTACCTCCCTGAGCTACAGTGGAGTAGATCAAAGACGA
* * * * ** * * * **
6276622 TA-ACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTAAAGATTA
1 CAGATTTTACCTCCCTG-AGCT-ACAGTGGAGTAGATCAAAGACGA
* * * ** *
6276667 CAGATCTTATCTCCCTAAGC-AGTGTGGAGTAGATCAAAGACGG
1 CAGATTTTACCTCCCTGAGCTACAGTGGAGTAGATCAAAGACGA
6276710 CAGATTTTACCTCCCTGA-CTACAGTGGAGTA
1 CAGATTTTACCTCCCTGAGCTACAGTGGAGTA
6276741 CATTGAAGCT
Statistics
Matches: 170, Mismatches: 70, Indels: 20
0.65 0.27 0.08
Matches are distributed among these distances:
42 24 0.14
43 89 0.52
44 1 0.01
45 36 0.21
46 20 0.12
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (44 bp):
CAGATTTTACCTCCCTGAGCTACAGTGGAGTAGATCAAAGACGA
Found at i:6276903 original size:40 final size:42
Alignment explanation
Indices: 6276801--6276913 Score: 142
Period size: 42 Copynumber: 2.7 Consensus size: 42
6276791 AAGATTACAT
* *
6276801 TCTTATCTCCCTAAGCAGTAGCGGAGCAGACGAAACCACAGA
1 TCTTATCTCCCTAAGAAGTAGTGGAGCAGACGAAACCACAGA
* * *
6276843 TCTTATCTCCCTAAGTAGTAGTGGAGCAGATC-ACATC-CAG-
1 TCTTATCTCCCTAAGAAGTAGTGGAGCAGA-CGAAACCACAGA
*
6276883 TCTTATCTCCCTAAAAAGTAGTGGAGCAGAC
1 TCTTATCTCCCTAAGAAGTAGTGGAGCAGAC
6276914 TAAAAACACA
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
39 1 0.02
40 28 0.44
41 3 0.05
42 31 0.48
43 1 0.02
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (42 bp):
TCTTATCTCCCTAAGAAGTAGTGGAGCAGACGAAACCACAGA
Found at i:6277426 original size:21 final size:21
Alignment explanation
Indices: 6277381--6277446 Score: 62
Period size: 21 Copynumber: 3.0 Consensus size: 21
6277371 GTTTTTGGTT
* *
6277381 TTTTGGAGAAGGATTGTTCTTTG
1 TTTTGGAGGAGG-TT-TTTTTTG
6277404 TTTTGGAGGAGGTTTTTTTTG
1 TTTTGGAGGAGGTTTTTTTTG
**
6277425 TTTT-TTGGAGGTGTTTTTTTG
1 TTTTGGAGGAGGT-TTTTTTTG
6277446 T
1 T
6277447 AAAAAAGGTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
20 6 0.16
21 19 0.50
22 2 0.05
23 11 0.29
ACGTcount: A:0.11, C:0.02, G:0.30, T:0.58
Consensus pattern (21 bp):
TTTTGGAGGAGGTTTTTTTTG
Found at i:6277430 original size:23 final size:23
Alignment explanation
Indices: 6277372--6277444 Score: 71
Period size: 23 Copynumber: 3.2 Consensus size: 23
6277362 TAGGGGTGGG
* *
6277372 TTTTTGGTTTTTTGGAGAAGGATT
1 TTTTTTGTTTTTTGGAGGAGG-TT
*
6277396 GTTCTTTG--TTTTGGAGGAGGTT
1 -TTTTTTGTTTTTTGGAGGAGGTT
*
6277418 TTTTTTGTTTTTTGGAGG-TGTT
1 TTTTTTGTTTTTTGGAGGAGGTT
6277440 TTTTT
1 TTTTT
6277445 GTAAAAAAGG
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
21 6 0.15
22 10 0.24
23 20 0.49
25 5 0.12
ACGTcount: A:0.10, C:0.01, G:0.29, T:0.60
Consensus pattern (23 bp):
TTTTTTGTTTTTTGGAGGAGGTT
Found at i:6277789 original size:3 final size:3
Alignment explanation
Indices: 6277775--6277860 Score: 60
Period size: 3 Copynumber: 29.3 Consensus size: 3
6277765 GAGCTTTGTT
* *
6277775 TTA TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
6277819 TT- TCTCA TGTA TATA TTA TT- TT- TTA -TA TTA TTA TTA -TA TTA T
1 TTA T-T-A T-TA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
6277861 ATATGCCCTC
Statistics
Matches: 68, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
2 12 0.18
3 48 0.71
4 6 0.09
5 2 0.03
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:6277817 original size:18 final size:18
Alignment explanation
Indices: 6277775--6277864 Score: 83
Period size: 18 Copynumber: 4.7 Consensus size: 18
6277765 GAGCTTTGTT
*
6277775 TTATTATTTTATTATTTTTA
1 TTATTA-TTTA-TATTATTA
*
6277795 CTATTATTTATATTATTA
1 TTATTATTTATATTATTA
*
6277813 TTATTATTTCTCATGTATATA
1 TTATTATTTAT-AT-TAT-TA
*
6277834 TTATTTTTTATATTATTA
1 TTATTATTTATATTATTA
6277852 TTA-TATTATATAT
1 TTATTATT-TATAT
6277865 GCCCTCTCCA
Statistics
Matches: 59, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
17 3 0.05
18 26 0.44
19 9 0.15
20 10 0.17
21 11 0.19
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (18 bp):
TTATTATTTATATTATTA
Found at i:6278355 original size:25 final size:23
Alignment explanation
Indices: 6278313--6278365 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 23
6278303 AACTTTATTT
*
6278313 TTATTATTAATTCTATTATTGCTA
1 TTATTATTAATTCCATTATT-CTA
6278337 CTTATTATT-ATTGCCATTATTCTA
1 -TTATTATTAATT-CCATTATTCTA
6278361 TTATT
1 TTATT
6278366 TCTTATATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 5 0.19
24 6 0.23
25 15 0.58
ACGTcount: A:0.26, C:0.11, G:0.04, T:0.58
Consensus pattern (23 bp):
TTATTATTAATTCCATTATTCTA
Found at i:6290942 original size:25 final size:22
Alignment explanation
Indices: 6290905--6290960 Score: 67
Period size: 24 Copynumber: 2.4 Consensus size: 22
6290895 ATTTTATAAT
* *
6290905 ATTATTTTGTTTTATTTTAAAAA
1 ATTAATTTCTTTTA-TTTAAAAA
6290928 ATATATATTTCTTTTATTTAAAAA
1 AT-TA-ATTTCTTTTATTTAAAAA
6290952 ATTAATTTC
1 ATTAATTTC
6290961 ATCAAATTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
22 5 0.17
23 4 0.14
24 12 0.41
25 8 0.28
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.57
Consensus pattern (22 bp):
ATTAATTTCTTTTATTTAAAAA
Found at i:6290952 original size:24 final size:23
Alignment explanation
Indices: 6290895--6290960 Score: 71
Period size: 23 Copynumber: 2.8 Consensus size: 23
6290885 TTTTCAAGAA
* * * *
6290895 ATTTTATAATATTATTTTGTTTT
1 ATTTTAAAAAATTAATTTCTTTT
6290918 ATTTTAAAAAATATATATTTCTTTT
1 ATTTTAAAAAAT-TA-ATTTCTTTT
6290943 A-TTTAAAAAATTAATTTC
1 ATTTTAAAAAATTAATTTC
6290961 ATCAAATTCA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
22 5 0.14
23 12 0.32
24 12 0.32
25 8 0.22
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.58
Consensus pattern (23 bp):
ATTTTAAAAAATTAATTTCTTTT
Found at i:6291000 original size:18 final size:20
Alignment explanation
Indices: 6290950--6290994 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 20
6290940 TTTATTTAAA
*
6290950 AAATTAATTTCATCAAATTCAC
1 AAATTAATTT-A-AAAATTCAC
6290972 AAATTAATTTAAAAATTCA-
1 AAATTAATTTAAAAATTCAC
6290991 AAAT
1 AAAT
6290995 ATTTTACATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 4 0.18
20 7 0.32
21 1 0.05
22 10 0.45
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (20 bp):
AAATTAATTTAAAAATTCAC
Found at i:6293334 original size:19 final size:19
Alignment explanation
Indices: 6293310--6293382 Score: 119
Period size: 19 Copynumber: 3.8 Consensus size: 19
6293300 AATTTTTGAG
6293310 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
6293329 GATATGCAATATTAGATAT
1 GATATGCAATCTTAGATAT
**
6293348 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
6293367 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
6293383 ATATATGATT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 48 1.00
ACGTcount: A:0.40, C:0.08, G:0.15, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:6294576 original size:19 final size:20
Alignment explanation
Indices: 6294537--6294576 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
6294527 TTCTAGGCCT
* *
6294537 TTGTAATATTTATTATTGCA
1 TTGTAATATTTAATATAGCA
6294557 TTGT-ATATTTAATATAGCA
1 TTGTAATATTTAATATAGCA
6294576 T
1 T
6294577 CACATCATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.53
Consensus pattern (20 bp):
TTGTAATATTTAATATAGCA
Found at i:6298333 original size:23 final size:23
Alignment explanation
Indices: 6298307--6298359 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
6298297 ATAAGTGCAA
*
6298307 CACTGATATGTAGCCGAAGCTAC
1 CACTGATACGTAGCCGAAGCTAC
*
6298330 CACTGAAACGTAGCCGAAGCTAC
1 CACTGATACGTAGCCGAAGCTAC
6298353 CACTGAT
1 CACTGAT
6298360 CAATAACACT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.32, C:0.28, G:0.21, T:0.19
Consensus pattern (23 bp):
CACTGATACGTAGCCGAAGCTAC
Found at i:6298579 original size:18 final size:17
Alignment explanation
Indices: 6298553--6298591 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
6298543 ATTTTCCTTC
6298553 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
6298570 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
6298588 CACA
1 CACA
6298592 ATTTATACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:6305595 original size:9 final size:9
Alignment explanation
Indices: 6305581--6305605 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
6305571 ATAAAAGATA
6305581 TTATTATTG
1 TTATTATTG
6305590 TTATTATTG
1 TTATTATTG
6305599 TTATTAT
1 TTATTAT
6305606 ATTATAAATT
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:0.00, G:0.08, T:0.68
Consensus pattern (9 bp):
TTATTATTG
Found at i:6305621 original size:23 final size:23
Alignment explanation
Indices: 6305595--6305643 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
6305585 TATTGTTATT
*
6305595 ATTGTTATTATATTAT-AAATTAA
1 ATTGATATTATATTATGAAA-TAA
6305618 ATTGATATTATATTATGAAATAA
1 ATTGATATTATATTATGAAATAA
6305641 ATT
1 ATT
6305644 AAGAAAAGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 21 0.88
24 3 0.12
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (23 bp):
ATTGATATTATATTATGAAATAA
Found at i:6306120 original size:15 final size:16
Alignment explanation
Indices: 6306100--6306130 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
6306090 AAAAAAAGGA
6306100 AATAGAAA-GAAACAG
1 AATAGAAACGAAACAG
6306115 AATAGAAACGAAACAG
1 AATAGAAACGAAACAG
6306131 GGAAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.65, C:0.10, G:0.19, T:0.06
Consensus pattern (16 bp):
AATAGAAACGAAACAG
Found at i:6306147 original size:26 final size:27
Alignment explanation
Indices: 6306104--6306165 Score: 81
Period size: 26 Copynumber: 2.3 Consensus size: 27
6306094 AAAGGAAATA
* * *
6306104 GAAAGAAACAGAATAGAAACGAAACAGG
1 GAAA-AAAAAGAATAGAAAAGAAAAAGG
6306132 GAAAAAAAAGAA-AGAAAAGAAAAAGG
1 GAAAAAAAAGAATAGAAAAGAAAAAGG
6306158 GAAAAAAA
1 GAAAAAAA
6306166 GTAAGGAGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
26 20 0.65
27 7 0.23
28 4 0.13
ACGTcount: A:0.71, C:0.05, G:0.23, T:0.02
Consensus pattern (27 bp):
GAAAAAAAAGAATAGAAAAGAAAAAGG
Found at i:6306897 original size:18 final size:17
Alignment explanation
Indices: 6306870--6306923 Score: 72
Period size: 18 Copynumber: 3.1 Consensus size: 17
6306860 AGTGAATGAA
6306870 AAAGTGAATTTGATATTG
1 AAAGTGAATTTGA-ATTG
* *
6306888 AAAGTAAATTTTGAAATG
1 AAAGTGAA-TTTGAATTG
6306906 AAAGTGAATTTGAATTG
1 AAAGTGAATTTGAATTG
6306923 A
1 A
6306924 GAATTGGAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
17 9 0.29
18 17 0.55
19 5 0.16
ACGTcount: A:0.44, C:0.00, G:0.20, T:0.35
Consensus pattern (17 bp):
AAAGTGAATTTGAATTG
Found at i:6309628 original size:23 final size:23
Alignment explanation
Indices: 6309602--6309650 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
6309592 GTCTTTTCTT
*
6309602 AATTT-ATTTCATAATATAATATC
1 AATTTAATTT-ATAATATAATAAC
6309625 AATTTAATTTATAATATAATAAC
1 AATTTAATTTATAATATAATAAC
6309648 AAT
1 AAT
6309651 AATAACAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 20 0.83
24 4 0.17
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (23 bp):
AATTTAATTTATAATATAATAAC
Found at i:6309654 original size:9 final size:9
Alignment explanation
Indices: 6309640--6309664 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
6309630 AATTTATAAT
6309640 ATAATAACA
1 ATAATAACA
6309649 ATAATAACA
1 ATAATAACA
6309658 ATAATAA
1 ATAATAA
6309665 TATATTTTAT
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:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (9 bp):
ATAATAACA
Found at i:6325675 original size:14 final size:14
Alignment explanation
Indices: 6325652--6325681 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6325642 AACCTGATTG
*
6325652 AGAAGCGAAGAAGA
1 AGAAGAGAAGAAGA
6325666 AGAAGAGAAGAAGA
1 AGAAGAGAAGAAGA
6325680 AG
1 AG
6325682 GAGGAGGAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.60, C:0.03, G:0.37, T:0.00
Consensus pattern (14 bp):
AGAAGAGAAGAAGA
Found at i:6328263 original size:24 final size:23
Alignment explanation
Indices: 6328226--6328278 Score: 72
Period size: 24 Copynumber: 2.3 Consensus size: 23
6328216 ATTTTAATAA
*
6328226 TTTTAAAATTTTTTATTG-ATTT
1 TTTTAAAATGTTTTATTGAATTT
6328248 CTTTTCAAAATGTTTTATTGAATTT
1 -TTTT-AAAATGTTTTATTGAATTT
6328273 TTTTAA
1 TTTTAA
6328279 TTTTTGAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 6 0.22
24 17 0.63
25 4 0.15
ACGTcount: A:0.28, C:0.04, G:0.06, T:0.62
Consensus pattern (23 bp):
TTTTAAAATGTTTTATTGAATTT
Found at i:6329885 original size:18 final size:18
Alignment explanation
Indices: 6329858--6329950 Score: 159
Period size: 18 Copynumber: 5.2 Consensus size: 18
6329848 TACGACCGTT
6329858 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
6329876 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
6329894 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
6329912 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
6329930 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
6329948 TAC
1 TAC
6329951 AGTAGTTGGG
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 70 1.00
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:6329905 original size:36 final size:36
Alignment explanation
Indices: 6329858--6329950 Score: 177
Period size: 36 Copynumber: 2.6 Consensus size: 36
6329848 TACGACCGTT
6329858 TACGGTACTATTCACGTATACGGCACTATTCACGTA
1 TACGGTACTATTCACGTATACGGCACTATTCACGTA
6329894 TACGGTACTATTCACGTATACGGCACTATTCACGTA
1 TACGGTACTATTCACGTATACGGCACTATTCACGTA
*
6329930 TACGGTACTGTTCACGTATAC
1 TACGGTACTATTCACGTATAC
6329951 AGTAGTTGGG
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 56 1.00
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (36 bp):
TACGGTACTATTCACGTATACGGCACTATTCACGTA
Found at i:6340129 original size:152 final size:152
Alignment explanation
Indices: 6339853--6340157 Score: 601
Period size: 152 Copynumber: 2.0 Consensus size: 152
6339843 CAGTCCCAAG
6339853 AACAGAAAGGACCGCGTGCTCCGTGAATATGTACCCAGCAGACCTGGAGTTCGCAAAGAATGTCA
1 AACAGAAAGGACCGCGTGCTCCGTGAATATGTACCCAGCAGACCTGGAGTTCGCAAAGAATGTCA
6339918 GTACTAGAGGCAGTAGAGTCAAGAAAAAATAGTGGGGCTCGATCATGAGTTGTAATAACATCTAC
66 GTACTAGAGGCAGTAGAGTCAAGAAAAAATAGTGGGGCTCGATCATGAGTTGTAATAACATCTAC
6339983 AGCAACATGTATAAATATCCGA
131 AGCAACATGTATAAATATCCGA
6340005 AACAGAAAGGACCGCGTGCTCCGTGAATATGTACCCAGCAGACCTGGAGTTCGCAAAGAATGTCA
1 AACAGAAAGGACCGCGTGCTCCGTGAATATGTACCCAGCAGACCTGGAGTTCGCAAAGAATGTCA
*
6340070 GTACTAGAGGCAGTAGAGTCAAGAAAAAATAGTGGGGCTCGATCATGAGTTGTATTAACATCTAC
66 GTACTAGAGGCAGTAGAGTCAAGAAAAAATAGTGGGGCTCGATCATGAGTTGTAATAACATCTAC
6340135 AGCAACATGTATAAATATCCGA
131 AGCAACATGTATAAATATCCGA
6340157 A
1 A
6340158 CACTCTGATC
Statistics
Matches: 152, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
152 152 1.00
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.21
Consensus pattern (152 bp):
AACAGAAAGGACCGCGTGCTCCGTGAATATGTACCCAGCAGACCTGGAGTTCGCAAAGAATGTCA
GTACTAGAGGCAGTAGAGTCAAGAAAAAATAGTGGGGCTCGATCATGAGTTGTAATAACATCTAC
AGCAACATGTATAAATATCCGA
Found at i:6341891 original size:24 final size:23
Alignment explanation
Indices: 6341860--6341906 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
6341850 TATTCACACA
6341860 TATTCTTA-CTTAATTTCAAATGT
1 TATTCTTACCTTAATTT-AAATGT
*
6341883 TATTACTTACCTTACTTTAAATGT
1 TATT-CTTACCTTAATTTAAATGT
6341907 CCCATGGTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 4 0.19
24 10 0.48
25 7 0.33
ACGTcount: A:0.30, C:0.15, G:0.04, T:0.51
Consensus pattern (23 bp):
TATTCTTACCTTAATTTAAATGT
Found at i:6344499 original size:39 final size:40
Alignment explanation
Indices: 6344454--6344540 Score: 131
Period size: 39 Copynumber: 2.2 Consensus size: 40
6344444 AAAACTTATA
* *
6344454 TTTAATACAATAAAATATTTATTATATTTAT-TTGTGTTT
1 TTTAATACAACAAAATATTTATTATATTTATATAGTGTTT
*
6344493 TTTAATATAACAAAATATTTATTATATTTATGATAGTGTTT
1 TTTAATACAACAAAATATTTATTATATTTAT-ATAGTGTTT
6344534 TTTAATA
1 TTTAATA
6344541 TAAACACTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
39 29 0.67
41 14 0.33
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.54
Consensus pattern (40 bp):
TTTAATACAACAAAATATTTATTATATTTATATAGTGTTT
Found at i:6347392 original size:35 final size:36
Alignment explanation
Indices: 6347351--6347432 Score: 91
Period size: 35 Copynumber: 2.3 Consensus size: 36
6347341 TAAGAGTGAA
6347351 AAATAATTAATAAAAT-GTAGAAAAAATTAAGACA-AT
1 AAATAATTAATAAAATAGTA-AAAAAATTAA-ACAGAT
* *
6347387 -AATAATGT-ATAAAATATTAAAAAATTTAAACAGAT
1 AAATAAT-TAATAAAATAGTAAAAAAATTAAACAGAT
6347422 AAATAATTAAT
1 AAATAATTAAT
6347433 TATAAAAAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
34 3 0.08
35 25 0.64
36 11 0.28
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.29
Consensus pattern (36 bp):
AAATAATTAATAAAATAGTAAAAAAATTAAACAGAT
Found at i:6353483 original size:11 final size:11
Alignment explanation
Indices: 6353467--6353498 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
6353457 AAGTATGGGT
6353467 AGGTATGGGAA
1 AGGTATGGGAA
*
6353478 AGGTATGGGCA
1 AGGTATGGGAA
6353489 AGGTATGGGA
1 AGGTATGGGA
6353499 TATATTCTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.31, C:0.03, G:0.47, T:0.19
Consensus pattern (11 bp):
AGGTATGGGAA
Found at i:6354850 original size:133 final size:133
Alignment explanation
Indices: 6354612--6354877 Score: 523
Period size: 133 Copynumber: 2.0 Consensus size: 133
6354602 CGAAGGTGCC
6354612 AATCTTCGAACGTGACGAGCATGGTGGGAGGCGGGTTTGGAGCGTCGACTATTCTCATTCGGATC
1 AATCTTCGAACGTGACGAGCATGGTGGGAGGCGGGTTTGGAGCGTCGACTATTCTCATTCGGATC
*
6354677 CGTTCCTCGGGGCATCTGGCTCGGACGATGGCACCATGCAAATGTGGGACCCACGCTGCGGCGAA
66 CGTTCCTCGGGGCATCCGGCTCGGACGATGGCACCATGCAAATGTGGGACCCACGCTGCGGCGAA
6354742 GGA
131 GGA
6354745 AATCTTCGAACGTGACGAGCATGGTGGGAGGCGGGTTTGGAGCGTCGACTATTCTCATTCGGATC
1 AATCTTCGAACGTGACGAGCATGGTGGGAGGCGGGTTTGGAGCGTCGACTATTCTCATTCGGATC
6354810 CGTTCCTCGGGGCATCCGGCTCGGACGATGGCACCATGCAAATGTGGGACCCACGCTGCGGCGAA
66 CGTTCCTCGGGGCATCCGGCTCGGACGATGGCACCATGCAAATGTGGGACCCACGCTGCGGCGAA
6354875 GGA
131 GGA
6354878 GGGGGAAGTG
Statistics
Matches: 132, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
133 132 1.00
ACGTcount: A:0.20, C:0.25, G:0.35, T:0.21
Consensus pattern (133 bp):
AATCTTCGAACGTGACGAGCATGGTGGGAGGCGGGTTTGGAGCGTCGACTATTCTCATTCGGATC
CGTTCCTCGGGGCATCCGGCTCGGACGATGGCACCATGCAAATGTGGGACCCACGCTGCGGCGAA
GGA
Found at i:6358176 original size:11 final size:11
Alignment explanation
Indices: 6358149--6358191 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
6358139 TGACCTTTCC
6358149 AAGGTATGGG-
1 AAGGTATGGGA
*
6358159 TAGGTATGGGA
1 AAGGTATGGGA
*
6358170 AAGGTATGGGC
1 AAGGTATGGGA
6358181 AAGGTATGGGA
1 AAGGTATGGGA
6358192 TATATTCTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.30, C:0.02, G:0.47, T:0.21
Consensus pattern (11 bp):
AAGGTATGGGA
Found at i:6358188 original size:22 final size:21
Alignment explanation
Indices: 6358149--6358191 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
6358139 TGACCTTTCC
*
6358149 AAGGTATGGGTAGGTATGGGA
1 AAGGTATGGGAAGGTATGGGA
6358170 AAGGTATGGGCAAGGTATGGGA
1 AAGGTATGGG-AAGGTATGGGA
6358192 TATATTCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.30, C:0.02, G:0.47, T:0.21
Consensus pattern (21 bp):
AAGGTATGGGAAGGTATGGGA
Found at i:6362261 original size:18 final size:18
Alignment explanation
Indices: 6362238--6362294 Score: 96
Period size: 18 Copynumber: 3.2 Consensus size: 18
6362228 CCCAACTACT
*
6362238 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
6362256 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
6362274 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
6362292 GTA
1 GTA
6362295 AACGGTCGTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.26
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:6362855 original size:11 final size:11
Alignment explanation
Indices: 6362828--6362870 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
6362818 TGACCTTTCC
6362828 AAGGTATGGG-
1 AAGGTATGGGA
*
6362838 TAGGTATGGGA
1 AAGGTATGGGA
*
6362849 AAGGTATGGGC
1 AAGGTATGGGA
6362860 AAGGTATGGGA
1 AAGGTATGGGA
6362871 TATATTCTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.30, C:0.02, G:0.47, T:0.21
Consensus pattern (11 bp):
AAGGTATGGGA
Found at i:6362867 original size:22 final size:21
Alignment explanation
Indices: 6362828--6362870 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
6362818 TGACCTTTCC
*
6362828 AAGGTATGGGTAGGTATGGGA
1 AAGGTATGGGAAGGTATGGGA
6362849 AAGGTATGGGCAAGGTATGGGA
1 AAGGTATGGG-AAGGTATGGGA
6362871 TATATTCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.30, C:0.02, G:0.47, T:0.21
Consensus pattern (21 bp):
AAGGTATGGGAAGGTATGGGA
Found at i:6378853 original size:37 final size:37
Alignment explanation
Indices: 6378792--6378937 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
6378782 TACGTATGAT
* *
6378792 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
6378827 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
6378864 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
6378901 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
6378938 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 92 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:6378954 original size:46 final size:46
Alignment explanation
Indices: 6378901--6379169 Score: 340
Period size: 46 Copynumber: 5.6 Consensus size: 46
6378891 TAAGTGTAGC
* **
6378901 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
6378947 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
6378993 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
6379045 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
6379091 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
6379143 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
6379170 AGTACTCAAA
Statistics
Matches: 199, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
46 112 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:6379020 original size:52 final size:52
Alignment explanation
Indices: 6378944--6379163 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
6378934 TAGCTAAAGC
* *
6378944 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
6378997 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
6379049 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
6379095 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
6379147 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
6379164 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 86 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:6379066 original size:98 final size:98
Alignment explanation
Indices: 6378901--6379169 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
6378891 TAAGTGTAGC
* * *
6378901 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
6378966 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
6379000 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
6379065 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
6379098 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
6379163 GATCAGA
66 GATCAGA
6379170 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 151 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:6388273 original size:84 final size:84
Alignment explanation
Indices: 6388132--6388325 Score: 361
Period size: 84 Copynumber: 2.3 Consensus size: 84
6388122 GGAGAAAAAA
6388132 AATCGACGAAACCAATGAAAAGTGTTTTTGGTATTTTGACTCGTTTCGGATATGATTTTAGCTTC
1 AATCGACGAAACCAATGAAAAGTGTTTTTGGTATTTTGACTCGTTTCGGATATGATTTTAGCTTC
*
6388197 AAAAATAACACTGAATGGC
66 AAAAATAACACCGAATGGC
6388216 AATCGACGAAACCAATGAAAAGTGTTTTTGGTATTTTGACTCGTTTCGGATATGATTTTAGCTTC
1 AATCGACGAAACCAATGAAAAGTGTTTTTGGTATTTTGACTCGTTTCGGATATGATTTTAGCTTC
*
6388281 AAAAATAACACCGAATGGT
66 AAAAATAACACCGAATGGC
*
6388300 AATTGACGAAACCAATGAAAAGTGTT
1 AATCGACGAAACCAATGAAAAGTGTT
6388326 AAATGAAAAG
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
84 107 1.00
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (84 bp):
AATCGACGAAACCAATGAAAAGTGTTTTTGGTATTTTGACTCGTTTCGGATATGATTTTAGCTTC
AAAAATAACACCGAATGGC
Found at i:6388332 original size:14 final size:14
Alignment explanation
Indices: 6388313--6388339 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6388303 TGACGAAACC
6388313 AATGAAAAGTGTTA
1 AATGAAAAGTGTTA
6388327 AATGAAAAGTGTT
1 AATGAAAAGTGTT
6388340 TTTGGTATTT
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:0.48, C:0.00, G:0.22, T:0.30
Consensus pattern (14 bp):
AATGAAAAGTGTTA
Found at i:6390413 original size:16 final size:16
Alignment explanation
Indices: 6390392--6390427 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
6390382 TTTGGTTCGC
6390392 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
6390408 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
6390424 TGTA
1 TGTA
6390428 ATAGCAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:6390680 original size:16 final size:16
Alignment explanation
Indices: 6390643--6390684 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
6390633 TTAATCATAT
*
6390643 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
6390659 TT-AAATATATTATAA
1 TTAAAATATATTATAA
6390674 TTAAAATATAT
1 TTAAAATATAT
6390685 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:6390691 original size:14 final size:15
Alignment explanation
Indices: 6390652--6390693 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
6390642 TTTAAACATA
*
6390652 ATTATTATTAAATAT
1 ATTATAATTAAATAT
6390667 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
6390681 A-TATAATTTAATA
1 ATTATAATTAAATA
6390694 AAATTCTTAA
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:6390888 original size:26 final size:28
Alignment explanation
Indices: 6390859--6390919 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
6390849 CATGAATTTG
*
6390859 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
6390885 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
6390913 TAAAATT
1 TATAATT
6390920 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:6400227 original size:29 final size:29
Alignment explanation
Indices: 6400185--6400246 Score: 124
Period size: 29 Copynumber: 2.1 Consensus size: 29
6400175 CTTGTGTTTA
6400185 CATCATGCATAAGTAAAAATACTTGAGTG
1 CATCATGCATAAGTAAAAATACTTGAGTG
6400214 CATCATGCATAAGTAAAAATACTTGAGTG
1 CATCATGCATAAGTAAAAATACTTGAGTG
6400243 CATC
1 CATC
6400247 TTCGGTGTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.27
Consensus pattern (29 bp):
CATCATGCATAAGTAAAAATACTTGAGTG
Found at i:6410444 original size:20 final size:21
Alignment explanation
Indices: 6410396--6410445 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
6410386 ATGTATATAG
*
6410396 TATATATTTTAAATTTCTTTT
1 TATATATTTTAAATTTCTATT
**
6410417 TACCTATTTTAAATTT-TATT
1 TATATATTTTAAATTTCTATT
6410437 TATATATTT
1 TATATATTT
6410446 AAAAGGGATT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (21 bp):
TATATATTTTAAATTTCTATT
Found at i:6421132 original size:132 final size:132
Alignment explanation
Indices: 6420898--6421297 Score: 626
Period size: 132 Copynumber: 3.0 Consensus size: 132
6420888 ATTTCTTCTG
* * *
6420898 TCTATTCCACAGTTGCCCCGTG-AGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAG
1 TCTATTCCACTGTTGCCCAG-GAAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAG
* * *
6420962 GGAGGTAAAATCCACCATCTTTGATCTGCTCCATTACTGCTTAGGGAGATAAGATCTGTAATCTT
65 GGAGGTAAAATCCGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATCTT
6421027 CAA
130 CAA
**
6421030 TCTATTCCACTGTTGCCCAGGAAGATAGAATTACTGGCTTCAATGTACTCCACTACAACCACAGG
1 TCTATTCCACTGTTGCCCAGGAAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGG
*
6421095 GAGGTAAAATCCGCCATATTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTG-AGATCTT
66 GAGGTAAAATCCGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGTA-ATCTT
6421159 CAA
130 CAA
* * * *
6421162 TCTATTCCGCTGCTGCCTAGGGAAG-TAGAATTACTGGGTTCAATGTACTCCACTGTAACCACAG
1 TCTATTCCACTGTTGCCCA-GGAAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAG
*
6421226 GGAGGTAAAATCCGTCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATCTT
65 GGAGGTAAAATCCGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATCTT
6421291 CAA
130 CAA
6421294 TCTA
1 TCTA
6421298 CTTCGCCACC
Statistics
Matches: 247, Mismatches: 17, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
131 2 0.01
132 239 0.97
133 6 0.02
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (132 bp):
TCTATTCCACTGTTGCCCAGGAAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGG
GAGGTAAAATCCGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATCTTC
AA
Found at i:6421341 original size:44 final size:45
Alignment explanation
Indices: 6421293--6421563 Score: 136
Period size: 44 Copynumber: 6.0 Consensus size: 45
6421283 GTAATCTTCA
* *
6421293 ATCTACTTCGCCACCAATATGGGAAGATAAAAT-TTGTATCTTTG
1 ATCTACTTCGCCACCAATATGGGAAGACAAAATCTGGTATCTTTG
* * * *
6421337 ATCTACTTTGCCACCAGTATGGGAAGGCAAGATCTGGTATCTTTG
1 ATCTACTTCGCCACCAATATGGGAAGACAAAATCTGGTATCTTTG
* * * *** * * * *
6421382 ATCTACTTC-ACGCCAGTACATGAAGATAAGATCTGTTTTCTTCGATTG
1 ATCTACTTCGCCACCAATATGGGAAGACAAAATCTGGTATC-T---TTG
* * * * * *
6421430 ATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCT-GTTTCTCTG
1 ATCTACTTCGCCACCAATATGGGAAGACAAAATCTGGTATCTTTG
* * * *** * *
6421474 ATCTACTTC-ACGCCAGTACATGAAGACAAGATCTGCTTTATCCTTTG
1 ATCTACTTCGCCACCAATATGGGAAGACAAAATCTG--GTAT-CTTTG
* * * * *
6421521 ATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGCTATCTT
1 ATCTACTTCGCCACCAATATGGGAAGACAAAATCTGGTATCTT
6421564 CAACCTGCTC
Statistics
Matches: 172, Mismatches: 44, Indels: 21
0.73 0.19 0.09
Matches are distributed among these distances:
43 19 0.11
44 60 0.35
45 22 0.13
46 5 0.03
47 13 0.08
48 35 0.20
49 18 0.10
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.32
Consensus pattern (45 bp):
ATCTACTTCGCCACCAATATGGGAAGACAAAATCTGGTATCTTTG
Found at i:6421553 original size:91 final size:92
Alignment explanation
Indices: 6421332--6421562 Score: 356
Period size: 92 Copynumber: 2.5 Consensus size: 92
6421322 AAATTTGTAT
* * *
6421332 CTTTGATCTACTTTGCCACCAGTATGGGAAGGCAAGATCTGGTATCTTTGATCTACTTCACGCCA
1 CTTTGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCT-GTATCTCTGATCTACTTCACGCCA
* * *
6421397 GTACATGAAGATAAGATCTGTTTTCTTC
65 GTACATGAAGACAAGATCTGCTTTCATC
** *
6421425 GATTGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTTCTCTGATCTACTTCACGCCAG
1 CTTTGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTATCTCTGATCTACTTCACGCCAG
6421490 TACATGAAGACAAGATCTGCTTT-ATC
66 TACATGAAGACAAGATCTGCTTTCATC
6421516 CTTTGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGCTATCT
1 CTTTGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTG-TATCT
6421563 TCAACCTGCT
Statistics
Matches: 125, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
91 41 0.33
92 48 0.38
93 36 0.29
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.32
Consensus pattern (92 bp):
CTTTGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTATCTCTGATCTACTTCACGCCAG
TACATGAAGACAAGATCTGCTTTCATC
Found at i:6422883 original size:7 final size:7
Alignment explanation
Indices: 6422864--6422907 Score: 56
Period size: 7 Copynumber: 6.3 Consensus size: 7
6422854 TTAGCCTCTC
6422864 CATTTTT
1 CATTTTT
6422871 -ACTTTTT
1 CA-TTTTT
6422878 CATTTTT
1 CATTTTT
6422885 CA-TTTT
1 CATTTTT
6422891 CATCTTTT
1 CAT-TTTT
6422899 CATTTTT
1 CATTTTT
6422906 CA
1 CA
6422908 CATCACTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
6 7 0.21
7 18 0.55
8 8 0.24
ACGTcount: A:0.16, C:0.18, G:0.00, T:0.66
Consensus pattern (7 bp):
CATTTTT
Found at i:6422919 original size:21 final size:21
Alignment explanation
Indices: 6422873--6422919 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
6422863 CCATTTTTAC
**
6422873 TTTTTCATTTTTCATTTTCAT
1 TTTTTCATTTTTCATCATCAT
*
6422894 CTTTTCATTTTTCA-CATCACT
1 TTTTTCATTTTTCATCATCA-T
6422915 TTTTT
1 TTTTT
6422920 TTGGACTCAA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.15, C:0.19, G:0.00, T:0.66
Consensus pattern (21 bp):
TTTTTCATTTTTCATCATCAT
Found at i:6431129 original size:15 final size:15
Alignment explanation
Indices: 6431106--6431143 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
6431096 CTTTATATTT
* *
6431106 TTATCATTATCATTA
1 TTATTATTATCATCA
6431121 TTATTATTATCATCA
1 TTATTATTATCATCA
6431136 TTATTATT
1 TTATTATT
6431144 GTTAACGTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.32, C:0.11, G:0.00, T:0.58
Consensus pattern (15 bp):
TTATTATTATCATCA
Found at i:6436998 original size:22 final size:21
Alignment explanation
Indices: 6436968--6437012 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
6436958 ACACCAAAAC
*
6436968 AGGCTTTTAGCGGCGCTTTTTT
1 AGGCCTTTAGCGGCG-TTTTTT
6436990 AGGCCTTTAGCGGCGTTTTTT
1 AGGCCTTTAGCGGCGTTTTTT
6437011 AG
1 AG
6437013 CGCCGCTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.11, C:0.18, G:0.29, T:0.42
Consensus pattern (21 bp):
AGGCCTTTAGCGGCGTTTTTT
Found at i:6437254 original size:86 final size:86
Alignment explanation
Indices: 6437077--6437276 Score: 233
Period size: 86 Copynumber: 2.3 Consensus size: 86
6437067 AGGTCAAGGT
** ** * *
6437077 CTTTAGCGGCGCTTTTCTA-ACAAACGCCGCTATAGATCGGGATCTTTAACGGTGCTTTTCTCAC
1 CTTTAGCGGCGCTTTTC-ACACAAACGCCGCTATAGATCAAGAGATTTAACGGCGCTTTTCACAC
*
6437141 AAGCGCCACTATAGCTCAAGTC
65 AAACGCCACTATAGCTCAAGTC
* * * *
6437163 ATTTAGCGACGCTTTTCCCACAAACGCCGCTATAGCTCAAGAGATTTAACGGCGCTTTTCACACA
1 CTTTAGCGGCGCTTTTCACACAAACGCCGCTATAGATCAAGAGATTTAACGGCGCTTTTCACACA
* *
6437228 AACGCCGCTATAGCTCGA-TAC
66 AACGCCACTATAGCTCAAGT-C
* *
6437249 CTTTAGCGGCGCTTCTCACAAAAACGCC
1 CTTTAGCGGCGCTTTTCACACAAACGCC
6437277 ACTAAAAATA
Statistics
Matches: 94, Mismatches: 18, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
85 1 0.01
86 93 0.99
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (86 bp):
CTTTAGCGGCGCTTTTCACACAAACGCCGCTATAGATCAAGAGATTTAACGGCGCTTTTCACACA
AACGCCACTATAGCTCAAGTC
Found at i:6437268 original size:43 final size:43
Alignment explanation
Indices: 6437059--6437276 Score: 204
Period size: 43 Copynumber: 5.1 Consensus size: 43
6437049 AGCAAAAAAT
* * **
6437059 GCCGCTAAAGGTCAAGGTCTTTAGCGGCGCTTTTCTA-ACAAAC
1 GCCGCTATAGCTCAAGACCTTTAGCGGCGCTTTTC-ACACAAAC
* ** * * * * *
6437102 GCCGCTATAGATCGGGATCTTTAACGGTGCTTTTCTCACAAGC
1 GCCGCTATAGCTCAAGACCTTTAGCGGCGCTTTTCACACAAAC
* * * * *
6437145 GCCACTATAGCTCAAGTCATTTAGCGACGCTTTTCCCACAAAC
1 GCCGCTATAGCTCAAGACCTTTAGCGGCGCTTTTCACACAAAC
** *
6437188 GCCGCTATAGCTCAAGAGATTTAACGGCGCTTTTCACACAAAC
1 GCCGCTATAGCTCAAGACCTTTAGCGGCGCTTTTCACACAAAC
* * * *
6437231 GCCGCTATAGCTCGATACCTTTAGCGGCGCTTCTCACAAAAAC
1 GCCGCTATAGCTCAAGACCTTTAGCGGCGCTTTTCACACAAAC
6437274 GCC
1 GCC
6437277 ACTAAAAATA
Statistics
Matches: 140, Mismatches: 34, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
43 140 1.00
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (43 bp):
GCCGCTATAGCTCAAGACCTTTAGCGGCGCTTTTCACACAAAC
Found at i:6441277 original size:122 final size:123
Alignment explanation
Indices: 6441129--6441363 Score: 411
Period size: 122 Copynumber: 1.9 Consensus size: 123
6441119 CGTTTTTTAT
6441129 AAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTATTTTTTAAAATAAAAAT-TTTTTTGTA
1 AAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTATTTTTTAAAATAAAAATATTTTTTGTA
* *
6441193 GCGTTTTTCT-TTAAAACGCCGCTATTGCTTACCTTTTGCGGCGTTTTTTATAAAAATA
66 GCGTTTTT-TATAAAAACACCGCTATTGCTTACCTTTTGCGGCGTTTTTTATAAAAATA
* *
6441251 AAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTATTTTTTAAAATAAAATTATTTTTTGTG
1 AAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTATTTTTTAAAATAAAAATATTTTTTGTA
6441316 GCGTTTTTTATAAAAACACCGCTATTGCTTACCTTTTGCGGCGTTTTT
66 GCGTTTTTTATAAAAACACCGCTATTGCTTACCTTTTGCGGCGTTTTT
6441364 AAATGTTTTA
Statistics
Matches: 107, Mismatches: 4, Indels: 3
0.94 0.04 0.03
Matches are distributed among these distances:
122 55 0.51
123 52 0.49
ACGTcount: A:0.31, C:0.14, G:0.13, T:0.42
Consensus pattern (123 bp):
AAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTATTTTTTAAAATAAAAATATTTTTTGTA
GCGTTTTTTATAAAAACACCGCTATTGCTTACCTTTTGCGGCGTTTTTTATAAAAATA
Found at i:6441369 original size:101 final size:100
Alignment explanation
Indices: 6441262--6441579 Score: 429
Period size: 114 Copynumber: 3.0 Consensus size: 100
6441252 AAAACGCCGC
* *
6441262 TAAATGTTTTGCTATATAAAATGACTATTTTTTAAAATAAAATTATTTTTTGTGGCGTTTTTTAT
1 TAAATGTTTTGCTATATAAAATGGCTATTTTTTAAAGTAAAATTATTTTTTGTGGCG-TTTTTAT
*
6441327 AAAAACACCGCTATTGCTTACCTTTTGCGGCGTTTT
65 AAAAACGCCGCTATTGCTTACCTTTTGCGGCGTTTT
*
6441363 TAAATGTTTTACTATATAAAATGGCTATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTATA
1 TAAATGTTTTGCTATATAAAATGGCTATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTAT-
6441428 AAAAACGCCGCTATTGCTTACCTTTTGCGGCGTTTTT
65 AAAAACGCCGCTATTGCTTACCTTTTGCGGCG-TTTT
6441465 AAAAAACGCCGCTAAATGTTTTGCTATATAAAATGGCTATTTTTTAAAGTAAAATTATTTTTTGT
1 ------------TAAATGTTTTGCTATATAAAATGGCTATTTTTTAAAGTAAAATTATTTTTTGT
* * *
6441530 GGCGCTTTTATAAGAAACGCCACAATTGCTTACCTTTTGCGGCGTTTT
54 GGCGTTTTTATAA-AAACGCCGCTATTGCTTACCTTTTGCGGCGTTTT
6441578 TA
1 TA
6441580 TAAGAAACGC
Statistics
Matches: 194, Mismatches: 8, Indels: 30
0.84 0.03 0.13
Matches are distributed among these distances:
100 7 0.04
101 87 0.45
102 4 0.02
113 6 0.03
114 90 0.46
ACGTcount: A:0.29, C:0.13, G:0.14, T:0.44
Consensus pattern (100 bp):
TAAATGTTTTGCTATATAAAATGGCTATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTATA
AAAACGCCGCTATTGCTTACCTTTTGCGGCGTTTT
Found at i:6441492 original size:114 final size:116
Alignment explanation
Indices: 6441363--6441666 Score: 485
Period size: 114 Copynumber: 2.7 Consensus size: 116
6441353 GCGGCGTTTT
*
6441363 TAAATGTTTTACTATATAAAATGGCTATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTATA
1 TAAATGTTTTGCTATATAAAATGGCTATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTATA
*
6441428 AAAAACGCCGCTATTGCTTACCTTTTGCGGCGTTTTTA-AA-AAACGCCGC
66 AAAAACGCCGCAATTGCTTACCTTTTGCGGCGTTTTTATAAGAAACGCCGC
*
6441477 TAAATGTTTTGCTATATAAAATGGCTATTTTTTAAAGTAAAATTATTTTTTGTGGCGCTTTTATA
1 TAAATGTTTTGCTATATAAAATGGCTATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTATA
* *
6441542 AGAAACGCCACAATTGCTTACCTTTTGCGGCGTTTTTATAAGAAACGCCGC
66 AAAAACGCCGCAATTGCTTACCTTTTGCGGCGTTTTTATAAGAAACGCCGC
* * *
6441593 TAAATATTTTGC--TATAAAATGGCTATTTTTTAAAGT-AAATT-TTTTTTGTGGCGTTTTTCTT
1 TAAATGTTTTGCTATATAAAATGGCTATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTATA
*
6441654 TAAAACGCCGCAA
66 AAAAACGCCGCAA
6441667 AAAATTATTT
Statistics
Matches: 176, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
112 27 0.15
113 5 0.03
114 122 0.69
115 2 0.01
116 20 0.11
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.42
Consensus pattern (116 bp):
TAAATGTTTTGCTATATAAAATGGCTATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTATA
AAAAACGCCGCAATTGCTTACCTTTTGCGGCGTTTTTATAAGAAACGCCGC
Found at i:6441508 original size:215 final size:217
Alignment explanation
Indices: 6441140--6441579 Score: 654
Period size: 215 Copynumber: 2.0 Consensus size: 217
6441130 AAAACGCCGC
* * **
6441140 TAAATGTTTTGCTATATAAAATGACTATTTTTTAAAATAAAAATTTTTTTGTAGCGTTTTTCTTT
1 TAAATGTTTTACTATATAAAATGACTATTTTTTAAAATAAAAATTTTTTTGTAGCGTTTTTATAA
6441205 AAAACGCCGCTATTGCTTACCTTTTGCGGCGTTTTTTATAAAAATAAAAAACGCCGCTAAATGTT
66 AAAACGCCGCTATTGCTTACCTTTTGCGGCG--TTTTAT----ATAAAAAACGCCGCTAAATGTT
*
6441270 TTGCTATATAAAATGACTATTTTTTAAAATAAAATTATTTTTTGTGGCGTTTTTTATAA-AAACA
125 TTGCTATATAAAATGACTATTTTTTAAAATAAAATTATTTTTTGTGGCG-CTTTTATAAGAAACA
* *
6441334 CCGCTATTGCTTACCTTTTGCGGCGTTTT
189 CCACAATTGCTTACCTTTTGCGGCGTTTT
* * * *
6441363 TAAATGTTTTACTATATAAAATGGCTATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTATA
1 TAAATGTTTTACTATATAAAATGACTATTTTTTAAAATAAAAAT-TTTTTTGTAGCGTTTTTATA
6441428 AAAAACGCCGCTATTGCTTACCTTTTGCGGCG-TTT-T-TAAAAAACGCCGCTAAATGTTTTGCT
65 AAAAACGCCGCTATTGCTTACCTTTTGCGGCGTTTTATATAAAAAACGCCGCTAAATGTTTTGCT
* * *
6441490 ATATAAAATGGCTATTTTTTAAAGTAAAATTATTTTTTGTGGCGCTTTTATAAGAAACGCCACAA
130 ATATAAAATGACTATTTTTTAAAATAAAATTATTTTTTGTGGCGCTTTTATAAGAAACACCACAA
6441555 TTGCTTACCTTTTGCGGCGTTTT
195 TTGCTTACCTTTTGCGGCGTTTT
6441578 TA
1 TA
6441580 TAAGAAACGC
Statistics
Matches: 201, Mismatches: 14, Indels: 12
0.89 0.06 0.05
Matches are distributed among these distances:
214 8 0.04
215 101 0.50
220 1 0.00
221 3 0.01
223 40 0.20
224 48 0.24
ACGTcount: A:0.30, C:0.13, G:0.14, T:0.43
Consensus pattern (217 bp):
TAAATGTTTTACTATATAAAATGACTATTTTTTAAAATAAAAATTTTTTTGTAGCGTTTTTATAA
AAAACGCCGCTATTGCTTACCTTTTGCGGCGTTTTATATAAAAAACGCCGCTAAATGTTTTGCTA
TATAAAATGACTATTTTTTAAAATAAAATTATTTTTTGTGGCGCTTTTATAAGAAACACCACAAT
TGCTTACCTTTTGCGGCGTTTT
Found at i:6442161 original size:16 final size:17
Alignment explanation
Indices: 6442131--6442162 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6442121 ATCTGTATCA
6442131 ATTTGTTACATTTTTTT
1 ATTTGTTACATTTTTTT
6442148 ATTTGTTA-ATTTTTT
1 ATTTGTTACATTTTTT
6442163 AAATCTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.19, C:0.03, G:0.06, T:0.72
Consensus pattern (17 bp):
ATTTGTTACATTTTTTT
Found at i:6442550 original size:21 final size:21
Alignment explanation
Indices: 6442526--6442577 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
6442516 GACCTCGAAT
* *
6442526 CTCTAAACCCTAAATCACTAA
1 CTCTAAACCCCAAACCACTAA
* *
6442547 CTCTTAACCCCAAACCACTAG
1 CTCTAAACCCCAAACCACTAA
6442568 CATCTAAACC
1 C-TCTAAACC
6442578 TTTTTTAATA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 18 0.72
22 7 0.28
ACGTcount: A:0.38, C:0.38, G:0.02, T:0.21
Consensus pattern (21 bp):
CTCTAAACCCCAAACCACTAA
Found at i:6442762 original size:21 final size:20
Alignment explanation
Indices: 6442738--6442793 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 20
6442728 TGGATCTATA
* *
6442738 AACCCTAAATCCTTAACTCTT
1 AACCCTAAA-CCTTAACCCAT
*
6442759 AACCTCTAACCCTTAACCCAT
1 AACC-CTAAACCTTAACCCAT
6442780 AACCCATAAACCTT
1 AACCC-TAAACCTT
6442794 CAATCACAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 1 0.03
21 24 0.83
22 4 0.14
ACGTcount: A:0.36, C:0.38, G:0.00, T:0.27
Consensus pattern (20 bp):
AACCCTAAACCTTAACCCAT
Found at i:6442832 original size:14 final size:15
Alignment explanation
Indices: 6442815--6442847 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
6442805 CTTAAATCAG
6442815 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
6442829 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
6442844 AATC
1 AATC
6442848 TATAAACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:6443375 original size:42 final size:41
Alignment explanation
Indices: 6443257--6443380 Score: 142
Period size: 41 Copynumber: 3.0 Consensus size: 41
6443247 GCTAAAGCCT
** * *
6443257 CGAGCATTAGCGGCGCTTCTTGGAAAACGCCACTAAAGATC
1 CGAGCATTAGCGGCGCTTCTTCTAAAAAGCCGCTAAAGATC
* * *
6443298 TGAGCATTAGTGGCGC-TCTTCTAAAAACGCCGCTAAATATC
1 CGAGCATTAGCGGCGCTTCTTCTAAAAA-GCCGCTAAAGATC
* *
6443339 CGAGCATTAGCGGCGCTTTTTCTACAAAAGACGCTAAAGATC
1 CGAGCATTAGCGGCGCTTCTTCTA-AAAAGCCGCTAAAGATC
6443381 TGAAAAGGTA
Statistics
Matches: 68, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
40 8 0.12
41 39 0.57
42 17 0.25
43 4 0.06
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (41 bp):
CGAGCATTAGCGGCGCTTCTTCTAAAAAGCCGCTAAAGATC
Found at i:6447683 original size:22 final size:22
Alignment explanation
Indices: 6447658--6447710 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
6447648 TAATATCAAT
* *
6447658 ATAATAACAAAGTGGTAGCAAA
1 ATAACAACAAAGTGGCAGCAAA
*
6447680 ATAACATCAAAGTGGCAGC-AA
1 ATAACAACAAAGTGGCAGCAAA
*
6447701 ACAACAACAA
1 ATAACAACAA
6447711 CAAAAATGGT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 10 0.38
22 16 0.62
ACGTcount: A:0.55, C:0.17, G:0.15, T:0.13
Consensus pattern (22 bp):
ATAACAACAAAGTGGCAGCAAA
Found at i:6459784 original size:50 final size:50
Alignment explanation
Indices: 6459660--6459908 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
6459650 GATAATAACA
* * ** * *
6459660 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
6459711 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
6459761 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
6459811 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
6459866 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
6459909 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:6459838 original size:100 final size:104
Alignment explanation
Indices: 6459659--6459908 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
6459649 TGATAATAAC
**
6459659 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
6459724 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
6459761 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
6459824 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
6459866 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
6459909 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:6460024 original size:13 final size:13
Alignment explanation
Indices: 6460003--6460034 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
6459993 GCTTGGATCA
*
6460003 TCATCAAATAAAT
1 TCATAAAATAAAT
6460016 TCATAAAATAAAT
1 TCATAAAATAAAT
6460029 TCATAA
1 TCATAA
6460035 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:6460281 original size:30 final size:30
Alignment explanation
Indices: 6460246--6460303 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
6460236 CCTCGACTCT
*
6460246 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
6460276 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
6460304 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:6464184 original size:16 final size:16
Alignment explanation
Indices: 6464171--6464211 Score: 50
Period size: 14 Copynumber: 2.6 Consensus size: 16
6464161 TTATTATTTT
6464171 AATAAAAAATTATTGA
1 AATAAAAAATTATTGA
6464187 AAT-AAAAA-TATTGA
1 AATAAAAAATTATTGA
*
6464201 AGATAACAAAT
1 A-ATAAAAAAT
6464212 GTAAATAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
14 7 0.33
15 7 0.33
16 7 0.33
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.27
Consensus pattern (16 bp):
AATAAAAAATTATTGA
Found at i:6464195 original size:15 final size:16
Alignment explanation
Indices: 6464175--6464211 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
6464165 TATTTTAATA
6464175 AAAAATTATTGAA-AT
1 AAAAATTATTGAAGAT
6464190 AAAAA-TATTGAAGAT
1 AAAAATTATTGAAGAT
6464205 AACAAAT
1 AA-AAAT
6464212 GTAAATAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 7 0.37
15 9 0.47
16 3 0.16
ACGTcount: A:0.62, C:0.03, G:0.08, T:0.27
Consensus pattern (16 bp):
AAAAATTATTGAAGAT
Found at i:6465771 original size:30 final size:31
Alignment explanation
Indices: 6465731--6465790 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
6465721 TTATTTATTT
*
6465731 TCAATATTGTTAA-A-TTAATTTATTTTAATA
1 TCAAAATTGTTAATATTTAATTT-TTTTAATA
*
6465761 TCAAAATTGTTAATATTTGATTTTTTTAAT
1 TCAAAATTGTTAATATTTAATTTTTTTAAT
6465791 TTTTTCTCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 12 0.46
31 8 0.31
32 6 0.23
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.55
Consensus pattern (31 bp):
TCAAAATTGTTAATATTTAATTTTTTTAATA
Found at i:6471328 original size:30 final size:31
Alignment explanation
Indices: 6471294--6471352 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 31
6471284 AATTATATAA
6471294 AAATATAT-TTTTTATATTT-TCCATTATGTT
1 AAATATATATTTTTATATTTGT-CATTATGTT
6471324 AAATATATATTTTTATATTTGTCATTATG
1 AAATATATATTTTTATATTTGTCATTATG
6471353 AAAAAGTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
30 8 0.30
31 18 0.67
32 1 0.04
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (31 bp):
AAATATATATTTTTATATTTGTCATTATGTT
Found at i:6474041 original size:23 final size:23
Alignment explanation
Indices: 6474004--6474065 Score: 72
Period size: 23 Copynumber: 2.6 Consensus size: 23
6473994 TATTATTAAA
6474004 ATCAAATAATAATAAAACTATCAA-AT
1 ATCAAATAATAAT--AACTA--AACAT
6474030 ATCAAATAATAATAACTAAACAT
1 ATCAAATAATAATAACTAAACAT
*
6474053 CTCAAATAATAAT
1 ATCAAATAATAAT
6474066 GAAAATCACA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
22 2 0.06
23 14 0.41
24 5 0.15
26 13 0.38
ACGTcount: A:0.60, C:0.13, G:0.00, T:0.27
Consensus pattern (23 bp):
ATCAAATAATAATAACTAAACAT
Found at i:6474719 original size:11 final size:11
Alignment explanation
Indices: 6474675--6474733 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
6474665 TTGCTGCTAT
*
6474675 TTTTGCTGTTA
1 TTTTGCTATTA
* * *
6474686 TTTTTCCATTG
1 TTTTGCTATTA
* *
6474697 TTTTGTTGTTA
1 TTTTGCTATTA
6474708 TTTTGCTATTA
1 TTTTGCTATTA
*
6474719 TGTTGCTATTA
1 TTTTGCTATTA
6474730 TTTT
1 TTTT
6474734 ATTGTTTGAA
Statistics
Matches: 35, Mismatches: 13, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
11 35 1.00
ACGTcount: A:0.12, C:0.08, G:0.14, T:0.66
Consensus pattern (11 bp):
TTTTGCTATTA
Found at i:6475196 original size:24 final size:24
Alignment explanation
Indices: 6475163--6475212 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
6475153 TGTTAATGAT
6475163 CAGATCAATTTCAAAATTCACATA
1 CAGATCAATTTCAAAATTCACATA
* *
6475187 CAGATGAATTTCAAAATTTACATA
1 CAGATCAATTTCAAAATTCACATA
6475211 CA
1 CA
6475213 TGGAAAGTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.46, C:0.18, G:0.06, T:0.30
Consensus pattern (24 bp):
CAGATCAATTTCAAAATTCACATA
Found at i:6475533 original size:31 final size:31
Alignment explanation
Indices: 6475493--6475551 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
6475483 AAAAGATATG
6475493 ACCAAATTAATTAAT-TTCACATTAATATACT
1 ACCAAATTAATTAATATTCA-ATTAATATACT
*
6475524 ACCATATTAATTAATATTCAATTAATAT
1 ACCAAATTAATTAATATTCAATTAATAT
6475552 TGCTTTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 22 0.85
32 4 0.15
ACGTcount: A:0.46, C:0.14, G:0.00, T:0.41
Consensus pattern (31 bp):
ACCAAATTAATTAATATTCAATTAATATACT
Found at i:6476059 original size:12 final size:12
Alignment explanation
Indices: 6476042--6476071 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
6476032 CCAACTACAT
6476042 GCATTCTCTCTC
1 GCATTCTCTCTC
6476054 GCATTCTCTCTC
1 GCATTCTCTCTC
*
6476066 ACATTC
1 GCATTC
6476072 ACACAACTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.13, C:0.40, G:0.07, T:0.40
Consensus pattern (12 bp):
GCATTCTCTCTC
Found at i:6479103 original size:10 final size:10
Alignment explanation
Indices: 6479088--6479113 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
6479078 ATTTAAGGAC
6479088 GAATTTATTA
1 GAATTTATTA
6479098 GAATTTATTA
1 GAATTTATTA
6479108 GAATTT
1 GAATTT
6479114 GGTCTTCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (10 bp):
GAATTTATTA
Found at i:6479341 original size:19 final size:19
Alignment explanation
Indices: 6479317--6479356 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
6479307 ACAGAAACTC
* *
6479317 AATATTCTTATATTTTTAA
1 AATATTCTTAAATATTTAA
6479336 AATATTCTTAAATATTTAA
1 AATATTCTTAAATATTTAA
6479355 AA
1 AA
6479357 GGGCAGAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (19 bp):
AATATTCTTAAATATTTAA
Found at i:6481274 original size:8 final size:8
Alignment explanation
Indices: 6481263--6481315 Score: 54
Period size: 8 Copynumber: 6.6 Consensus size: 8
6481253 ACATTATTTT
6481263 AAAAAT-A
1 AAAAATAA
6481270 AAAAATAA
1 AAAAATAA
**
6481278 AAAATATTT
1 AAAA-ATAA
* *
6481287 TAAAATTA
1 AAAAATAA
6481295 AAAAATAA
1 AAAAATAA
6481303 AAAAATAA
1 AAAAATAA
6481311 AAAAA
1 AAAAA
6481316 ATATATATTT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
7 6 0.16
8 27 0.71
9 5 0.13
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (8 bp):
AAAAATAA
Found at i:6481275 original size:7 final size:7
Alignment explanation
Indices: 6481263--6481314 Score: 50
Period size: 7 Copynumber: 6.7 Consensus size: 7
6481253 ACATTATTTT
6481263 AAAAATA
1 AAAAATA
6481270 AAAAATA
1 AAAAATA
6481277 AAAAATA
1 AAAAATA
*
6481284 TTTTAAAATTA
1 ----AAAAATA
6481295 AAAAATAA
1 AAAAAT-A
6481303 AAAAATA
1 AAAAATA
6481310 AAAAA
1 AAAAA
6481315 AATATATATT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
7 25 0.66
8 7 0.18
11 6 0.16
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (7 bp):
AAAAATA
Found at i:6481291 original size:25 final size:25
Alignment explanation
Indices: 6481257--6481306 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
6481247 ATTAAAACAT
6481257 TATTTTAAAAATAAAAAATAAAAAA
1 TATTTTAAAAATAAAAAATAAAAAA
*
6481282 TATTTTAAAATTAAAAAATAAAAAA
1 TATTTTAAAAATAAAAAATAAAAAA
6481307 ATAAAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (25 bp):
TATTTTAAAAATAAAAAATAAAAAA
Found at i:6486233 original size:41 final size:41
Alignment explanation
Indices: 6486176--6486261 Score: 163
Period size: 41 Copynumber: 2.1 Consensus size: 41
6486166 ATATCTGGAA
*
6486176 GTTTAAACTTTAAATGAGTTATGAGAAATTCCTTTTCTTCT
1 GTTTAAACTTTAAATGAGTCATGAGAAATTCCTTTTCTTCT
6486217 GTTTAAACTTTAAATGAGTCATGAGAAATTCCTTTTCTTCT
1 GTTTAAACTTTAAATGAGTCATGAGAAATTCCTTTTCTTCT
6486258 GTTT
1 GTTT
6486262 TAGCAATAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.47
Consensus pattern (41 bp):
GTTTAAACTTTAAATGAGTCATGAGAAATTCCTTTTCTTCT
Found at i:6495968 original size:21 final size:21
Alignment explanation
Indices: 6495943--6495999 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
6495933 GATTTATGAG
* *
6495943 AAAATTTAAAATTTATTAAAC
1 AAAATTTAAAATTTAATAAAA
* **
6495964 CAAATTTATTATTTAATAAAA
1 AAAATTTAAAATTTAATAAAA
6495985 AAAATATTAAAATTT
1 AAAAT-TTAAAATTT
6496000 TCAACCAATA
Statistics
Matches: 27, Mismatches: 8, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
21 20 0.74
22 7 0.26
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (21 bp):
AAAATTTAAAATTTAATAAAA
Found at i:6500139 original size:28 final size:27
Alignment explanation
Indices: 6500086--6500139 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
6500076 TTTCAGTTAA
* *
6500086 TTCGGTTAATCAATTGAAATATTTTTG
1 TTCGGTTAATCAATTGAAAAAATTTTG
6500113 TTCGGTTAAT-ATATTTGAAAAAATTTT
1 TTCGGTTAATCA-A-TTGAAAAAATTTT
6500140 AATTTGATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 1 0.04
27 11 0.48
28 11 0.48
ACGTcount: A:0.33, C:0.06, G:0.13, T:0.48
Consensus pattern (27 bp):
TTCGGTTAATCAATTGAAAAAATTTTG
Found at i:6505586 original size:2 final size:2
Alignment explanation
Indices: 6505573--6505605 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
6505563 CCAATCATGA
*
6505573 AC AC AA AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
6505606 TATATCCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.55, C:0.45, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:6505944 original size:5 final size:5
Alignment explanation
Indices: 6505936--6505963 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
6505926 ACACAACATA
6505936 AGATG AGATG AGATG AGATG AGATG AGA
1 AGATG AGATG AGATG AGATG AGATG AGA
6505964 AGGAAAAGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.39, T:0.18
Consensus pattern (5 bp):
AGATG
Found at i:6507570 original size:167 final size:167
Alignment explanation
Indices: 6507377--6507711 Score: 670
Period size: 167 Copynumber: 2.0 Consensus size: 167
6507367 GTAATTTTTT
6507377 TGCATTTCGAAACTATTTTAAGAATTTTGAAATTTTTTTAACAGATCTAATAGAAGATGGAGAAT
1 TGCATTTCGAAACTATTTTAAGAATTTTGAAATTTTTTTAACAGATCTAATAGAAGATGGAGAAT
6507442 CAATTTTTTGTATGCGTTTATTTCGATGGAGAAATTTTGACAACCGTTGGATGTATATTTGAATG
66 CAATTTTTTGTATGCGTTTATTTCGATGGAGAAATTTTGACAACCGTTGGATGTATATTTGAATG
6507507 TCGCAAACAAGTAGCAATGAGATTTAATAGAAATATC
131 TCGCAAACAAGTAGCAATGAGATTTAATAGAAATATC
6507544 TGCATTTCGAAACTATTTTAAGAATTTTGAAATTTTTTTAACAGATCTAATAGAAGATGGAGAAT
1 TGCATTTCGAAACTATTTTAAGAATTTTGAAATTTTTTTAACAGATCTAATAGAAGATGGAGAAT
6507609 CAATTTTTTGTATGCGTTTATTTCGATGGAGAAATTTTGACAACCGTTGGATGTATATTTGAATG
66 CAATTTTTTGTATGCGTTTATTTCGATGGAGAAATTTTGACAACCGTTGGATGTATATTTGAATG
6507674 TCGCAAACAAGTAGCAATGAGATTTAATAGAAATATC
131 TCGCAAACAAGTAGCAATGAGATTTAATAGAAATATC
6507711 T
1 T
6507712 CGTTTGATGA
Statistics
Matches: 168, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
167 168 1.00
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.37
Consensus pattern (167 bp):
TGCATTTCGAAACTATTTTAAGAATTTTGAAATTTTTTTAACAGATCTAATAGAAGATGGAGAAT
CAATTTTTTGTATGCGTTTATTTCGATGGAGAAATTTTGACAACCGTTGGATGTATATTTGAATG
TCGCAAACAAGTAGCAATGAGATTTAATAGAAATATC
Found at i:6510460 original size:18 final size:18
Alignment explanation
Indices: 6510439--6510512 Score: 100
Period size: 18 Copynumber: 4.2 Consensus size: 18
6510429 AAGGCAACAT
6510439 AAATTAAATTGATAAATA
1 AAATTAAATTGATAAATA
6510457 AAATTAAATTGATAAATA
1 AAATTAAATTGATAAATA
**
6510475 AAATTAAAAGGCA-AAA-A
1 AAATTAAATTG-ATAAATA
6510492 AAA-TAAATTGATAAATA
1 AAATTAAATTGATAAATA
6510509 AAAT
1 AAAT
6510513 GCCAACAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
15 1 0.02
16 8 0.17
17 8 0.17
18 30 0.62
19 1 0.02
ACGTcount: A:0.65, C:0.01, G:0.07, T:0.27
Consensus pattern (18 bp):
AAATTAAATTGATAAATA
Found at i:6511367 original size:22 final size:20
Alignment explanation
Indices: 6511337--6511386 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
6511327 TTAATAAAAA
6511337 TAAAAAAAATTAATATTTTATT
1 TAAAAAAAA--AATATTTTATT
* *
6511359 TAAACAAAAAATATTTTAATA
1 TAAAAAAAAAATATTTT-ATT
6511380 TAAAAAA
1 TAAAAAA
6511387 TTGATTCGCG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 8 0.33
21 8 0.33
22 8 0.33
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (20 bp):
TAAAAAAAAAATATTTTATT
Found at i:6511467 original size:54 final size:53
Alignment explanation
Indices: 6511364--6511474 Score: 134
Period size: 54 Copynumber: 2.1 Consensus size: 53
6511354 TTATTTAAAC
* * *
6511364 AAAAAATATTTTAATATAAAAAATTGATTCGCGCCTGTTAGTTAGGCGCGATT
1 AAAAAATATTTTAATATAAAAAATTGATTCGCGCCTGTCAGATAAGCGCGATT
* * * *
6511417 AAAAAATATTTTTTAATAT-AAATATTTATTCGTGTCTGTCAGATAAGCGCGATT
1 AAAAAATA--TTTTAATATAAAAAATTGATTCGCGCCTGTCAGATAAGCGCGATT
6511471 AAAA
1 AAAA
6511475 TTTTTTTTAA
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
53 8 0.16
54 32 0.65
55 9 0.18
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (53 bp):
AAAAAATATTTTAATATAAAAAATTGATTCGCGCCTGTCAGATAAGCGCGATT
Found at i:6511724 original size:27 final size:27
Alignment explanation
Indices: 6511692--6511783 Score: 76
Period size: 27 Copynumber: 3.2 Consensus size: 27
6511682 AAATATTAAA
*
6511692 CTAAACACAACAATTTATAACTTAATC
1 CTAAACACAAAAATTTATAACTTAATC
* ** *
6511719 CTAAACTACGAATAAATTAATTTTAAAATAATT
1 CTAAAC-AC-AA-AAA-T--TTATAACTTAATC
*
6511752 ATAAACACAAAAATTTATAACTTAATC
1 CTAAACACAAAAATTTATAACTTAATC
6511779 CTAAA
1 CTAAA
6511784 TTACTAACAA
Statistics
Matches: 48, Mismatches: 11, Indels: 12
0.68 0.15 0.17
Matches are distributed among these distances:
27 19 0.40
28 2 0.04
29 3 0.06
30 5 0.10
31 3 0.06
32 2 0.04
33 14 0.29
ACGTcount: A:0.52, C:0.15, G:0.01, T:0.32
Consensus pattern (27 bp):
CTAAACACAAAAATTTATAACTTAATC
Found at i:6511758 original size:60 final size:60
Alignment explanation
Indices: 6511693--6511816 Score: 212
Period size: 60 Copynumber: 2.1 Consensus size: 60
6511683 AATATTAAAC
* *
6511693 TAAACACAACAATTTATAACTTAATCCTAAACTACGAATAAATTAATTTTAAAATAATTA
1 TAAACACAAAAATTTATAACTTAATCCTAAACTACGAACAAATTAATTTTAAAATAATTA
* *
6511753 TAAACACAAAAATTTATAACTTAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
1 TAAACACAAAAATTTATAACTTAATCCTAAACTACGAACAAATTAATTTTAAAATAATTA
6511813 TAAA
1 TAAA
6511817 AAGAAAAAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.53, C:0.12, G:0.01, T:0.34
Consensus pattern (60 bp):
TAAACACAAAAATTTATAACTTAATCCTAAACTACGAACAAATTAATTTTAAAATAATTA
Found at i:6512025 original size:24 final size:23
Alignment explanation
Indices: 6511985--6512029 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
6511975 CTTTTTTTTT
6511985 TCCTTTCTTATTCTTCTCTTCTTC
1 TCCTTTCTTATTCTTCT-TTCTTC
*
6512009 TCCTTTCTCTCTT-TTCTTTCT
1 TCCTTTCT-TATTCTTCTTTCT
6512030 CTCTACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 4 0.21
24 12 0.63
25 3 0.16
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.64
Consensus pattern (23 bp):
TCCTTTCTTATTCTTCTTTCTTC
Found at i:6512891 original size:29 final size:30
Alignment explanation
Indices: 6512858--6512920 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 30
6512848 AAATAAACCG
6512858 AATATA-AAC-TATATTTTTTTTATTTTTAA
1 AATATACAACATATA-TTTTTTTATTTTTAA
*
6512887 AATATACTACATATATTTTTTTATTTTTAA
1 AATATACAACATATATTTTTTTATTTTTAA
6512917 AATA
1 AATA
6512921 CACTAATAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
29 6 0.19
30 21 0.68
31 4 0.13
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.56
Consensus pattern (30 bp):
AATATACAACATATATTTTTTTATTTTTAA
Found at i:6512908 original size:30 final size:31
Alignment explanation
Indices: 6512867--6512925 Score: 102
Period size: 30 Copynumber: 1.9 Consensus size: 31
6512857 GAATATAAAC
*
6512867 TATATTTTTTTTATTTTTAAAATATACTACA
1 TATATTTTTTTTATTTTTAAAATACACTACA
6512898 TATA-TTTTTTTATTTTTAAAATACACTA
1 TATATTTTTTTTATTTTTAAAATACACTA
6512926 ATAGTAATTG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.58
Consensus pattern (31 bp):
TATATTTTTTTTATTTTTAAAATACACTACA
Found at i:6516463 original size:6 final size:6
Alignment explanation
Indices: 6516452--6516481 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
6516442 ATAAAATAAT
6516452 TTTATA TTTATA TTTATA TTTATA TATTAT
1 TTTATA TTTATA TTTATA TTTATA T-TTAT
6516482 TGTAATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.83
7 4 0.17
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TTTATA
Found at i:6534690 original size:12 final size:12
Alignment explanation
Indices: 6534669--6534702 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
6534659 TATATATTTT
*
6534669 AAAATCATATAA
1 AAAATAATATAA
6534681 AAAATAATATAA
1 AAAATAATATAA
*
6534693 AAATTAATAT
1 AAAATAATAT
6534703 GGGCGGGCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:6543932 original size:19 final size:19
Alignment explanation
Indices: 6543885--6543933 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
6543875 AAATCAAAAT
6543885 AAAAATACATA-AAATTTCA
1 AAAAATA-ATATAAATTTCA
6543904 AAAAAT-ATATAAATATT-A
1 AAAAATAATATAAAT-TTCA
6543922 AAAAATAATATA
1 AAAAATAATATA
6543934 TAAACAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
17 3 0.11
18 11 0.41
19 13 0.48
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (19 bp):
AAAAATAATATAAATTTCA
Found at i:6547542 original size:99 final size:99
Alignment explanation
Indices: 6547407--6547605 Score: 371
Period size: 99 Copynumber: 2.0 Consensus size: 99
6547397 ATATATTGGT
6547407 AGGGACACAAATACAATGACCAAGTTCCCAAAAATGTTCTGCAACTAAATTATAAATTACCAAGA
1 AGGGACACAAATACAATGACCAAGTTCCCAAAAATGTTCTGCAACTAAATTATAAATTACCAAGA
6547472 AAGTTAAATAACTGAGATCTGCATTTTTGGTGCC
66 AAGTTAAATAACTGAGATCTGCATTTTTGGTGCC
* * *
6547506 AGGGAGACAAATACAATGACCAAGTTCCCAACAATGTTCTGCAACTAATTTATAAATTACCAAGA
1 AGGGACACAAATACAATGACCAAGTTCCCAAAAATGTTCTGCAACTAAATTATAAATTACCAAGA
6547571 AAGTTAAATAACTGAGATCTGCATTTTTGGTGCC
66 AAGTTAAATAACTGAGATCTGCATTTTTGGTGCC
6547605 A
1 A
6547606 AAGCCCCGGA
Statistics
Matches: 97, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
99 97 1.00
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.27
Consensus pattern (99 bp):
AGGGACACAAATACAATGACCAAGTTCCCAAAAATGTTCTGCAACTAAATTATAAATTACCAAGA
AAGTTAAATAACTGAGATCTGCATTTTTGGTGCC
Found at i:6554809 original size:51 final size:51
Alignment explanation
Indices: 6554754--6554889 Score: 155
Period size: 51 Copynumber: 2.7 Consensus size: 51
6554744 TGGAAACATG
*
6554754 ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATATGATATGGA
1 ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGGA
* * * ** * * ** *
6554805 ATCTTATAAGATATTATTTTATAAGATTACATATCTTATCTAAGATATGTA
1 ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGGA
* *
6554856 ATCTTAGAAGATATGATATTATATTCTTAGAGAT
1 ATCTTAAAAGATATGATATTATAATCTTAGAGAT
6554890 TTGATGGTAG
Statistics
Matches: 66, Mismatches: 19, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
51 66 1.00
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.41
Consensus pattern (51 bp):
ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGGA
Found at i:6573066 original size:20 final size:20
Alignment explanation
Indices: 6573041--6573080 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
6573031 CGTAAAATGA
*
6573041 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
6573061 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
6573081 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:6573070 original size:34 final size:35
Alignment explanation
Indices: 6573026--6573092 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
6573016 CAATAAAATA
*
6573026 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
6573060 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
6573093 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:6573096 original size:14 final size:15
Alignment explanation
Indices: 6573020--6573096 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
6573010 GATTGCCAAT
* *
6573020 AAAAT-ATTTTCCGT
1 AAAATGATTTTCTGG
6573034 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
6573048 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
6573068 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
6573083 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
6573097 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 24 0.48
15 12 0.24
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:6574693 original size:22 final size:22
Alignment explanation
Indices: 6574663--6574705 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
6574653 ACACCAAAAC
*
6574663 AGGCTTTTAGCGGCGTTTTTTT
1 AGGCCTTTAGCGGCGTTTTTTT
6574685 AGGCCTTTAGCGGCGTTTTTT
1 AGGCCTTTAGCGGCGTTTTTT
6574706 AGCGCCACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.09, C:0.16, G:0.28, T:0.47
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGTTTTTTT
Found at i:6574936 original size:43 final size:42
Alignment explanation
Indices: 6574777--6575023 Score: 214
Period size: 42 Copynumber: 5.8 Consensus size: 42
6574767 GCGTCGTTAA
* * *
6574777 CTTTAGCGGCGTTTTTCCCACAAACACCGCTAAAGACCATGAC
1 CTTTAGCGGCG-CTTTCCCACAAACGCCGCTAAAGACCAAGAC
* * * *
6574820 CTTTAGCGGCGCTTCCCCAAAAACGCCACTAAAGACCGAGAC
1 CTTTAGCGGCGCTTTCCCACAAACGCCGCTAAAGACCAAGAC
*
6574862 CTTTAGCGGCGC-TTCCTCACAAACGCCGCTAAAAACCAAGAC
1 CTTTAGCGGCGCTTTCC-CACAAACGCCGCTAAAGACCAAGAC
* * * *
6574904 CTTTAGCGGCACTTTTCCCACAAACGCCGCTAAAGA-TATTGAG
1 CTTTAGCGGCGC-TTTCCCACAAACGCCGCTAAAGACCA-AGAC
* * * *
6574947 CTTTAGCGACGCTTTTTCCCACAAATGTCGCTATAGA--ATAGAC
1 CTTTAGCGGCGC--TTTCCCACAAACGCCGCTAAAGACCA-AGAC
* ** *
6574990 CTTTAACGGCGCTTTTAACACAAACGCCACTAAA
1 CTTTAGCGGCGC-TTTCCCACAAACGCCGCTAAA
6575024 AATATATCTT
Statistics
Matches: 167, Mismatches: 32, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
41 3 0.02
42 85 0.51
43 54 0.32
44 25 0.15
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (42 bp):
CTTTAGCGGCGCTTTCCCACAAACGCCGCTAAAGACCAAGAC
Found at i:6575355 original size:43 final size:43
Alignment explanation
Indices: 6575289--6575379 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
6575279 ACATATGCAA
* * * *
6575289 GGTAATAAAATATACAATGCATTTTCTTAATCAAGTAAATCTT
1 GGTAATAAAAGATACAATACATTTACTTAATCAAGGAAATCTT
*
6575332 GGTAATAAAAGATATAATACATTTACTTAATCAAGGAAATCTT
1 GGTAATAAAAGATACAATACATTTACTTAATCAAGGAAATCTT
6575375 -GTAAT
1 GGTAAT
6575380 GAACTCAAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 5 0.12
43 38 0.88
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.35
Consensus pattern (43 bp):
GGTAATAAAAGATACAATACATTTACTTAATCAAGGAAATCTT
Found at i:6579831 original size:21 final size:20
Alignment explanation
Indices: 6579783--6579833 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
6579773 AACCCTAGAT
* *
6579783 CACTAACTCTTAACCTCTAA
1 CACTAACCCTTAACCCCTAA
*
6579803 CATTTAACCCTTAACCCCTAA
1 CA-CTAACCCTTAACCCCTAA
6579824 CTACTAACCC
1 C-ACTAACCC
6579834 CTAAATCTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 2 0.08
21 22 0.88
22 1 0.04
ACGTcount: A:0.33, C:0.39, G:0.00, T:0.27
Consensus pattern (20 bp):
CACTAACCCTTAACCCCTAA
Found at i:6580074 original size:14 final size:15
Alignment explanation
Indices: 6580055--6580087 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
6580045 CTTAAACCAG
6580055 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
6580069 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
6580084 AATC
1 AATC
6580088 TATAAATCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:6580172 original size:14 final size:14
Alignment explanation
Indices: 6580136--6580172 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
6580126 ATCATAAATT
6580136 AACCATATACCCTA
1 AACCATATACCCTA
*
6580150 AATCATATACCCTA
1 AACCATATACCCTA
*
6580164 AACCGTATA
1 AACCATATA
6580173 TATTAAACCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.43, C:0.30, G:0.03, T:0.24
Consensus pattern (14 bp):
AACCATATACCCTA
Found at i:6580613 original size:41 final size:41
Alignment explanation
Indices: 6580537--6580738 Score: 325
Period size: 41 Copynumber: 5.0 Consensus size: 41
6580527 TCAAAAGCGG
* *
6580537 GCATTAGCGGCGCTTTTTC-AAAACGCCGCTAAAGGCCCAA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
* * *
6580577 GCATTAGTGGCGCTTTTTAAAAAACGCCGCTAAAGGCCCGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
*
6580618 GCATTAGCGGCGCTTATTCAAAAACGCCGCTAAAGGCCCGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
* *
6580659 GCATTAGCGGCGCTTCTTCCAAAACGTCGCTAAAGGCCCGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
6580700 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCC
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCC
6580739 TAAAAACCAG
Statistics
Matches: 150, Mismatches: 11, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
40 17 0.11
41 133 0.89
ACGTcount: A:0.27, C:0.30, G:0.24, T:0.19
Consensus pattern (41 bp):
GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
Found at i:6580897 original size:40 final size:40
Alignment explanation
Indices: 6580830--6580907 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
6580820 ACATTTTCCA
*
6580830 AAAAGCGCCGCTAATGCTCGACCTTTAGCGGTGTTTTTAT
1 AAAAGCGCCGCTAATGCTCGACCTTTAGCGGCGTTTTTAT
* * ** *
6580870 AAAAGCGCCTCTAATGCTTGATTTTTAGTGGCGTTTTT
1 AAAAGCGCCGCTAATGCTCGACCTTTAGCGGCGTTTTT
6580908 TATCCAAATG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (40 bp):
AAAAGCGCCGCTAATGCTCGACCTTTAGCGGCGTTTTTAT
Found at i:6581047 original size:3 final size:3
Alignment explanation
Indices: 6581039--6581063 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
6581029 ATGGCAAATC
6581039 ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA A
6581064 GAAGGTGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:6581482 original size:74 final size:72
Alignment explanation
Indices: 6581355--6581516 Score: 175
Period size: 72 Copynumber: 2.2 Consensus size: 72
6581345 GTTACACCAT
* * * * ** * *
6581355 TTGCTCGTCCAAGCTAAGTATATTCATGTTAGGTTACCTGTCTGAGCTAAACCTTTATAACGAGA
1 TTGCTCGTCCAAGCTAAATATATTCATGTCAAGTTACATGTCCAAGCGAAACCTTTAAAACGAGA
6581420 CATCTGA
66 CATCTGA
*
6581427 TTGCTTGTCCAAGCTAAATATATATACATGTCAAGTTACATGTCCAAGCGAAACCTTTAAAAC--
1 TTGCTCGTCCAAGCTAAATATAT-T-CATGTCAAGTTACATGTCCAAGCGAAACCTTTAAAACGA
* *
6581490 GACATCAGG
64 GACATCTGA
* *
6581499 TTACTCGTCTAAGCTAAA
1 TTGCTCGTCCAAGCTAAA
6581517 CCTATTTCAC
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
72 43 0.58
73 1 0.01
74 30 0.41
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (72 bp):
TTGCTCGTCCAAGCTAAATATATTCATGTCAAGTTACATGTCCAAGCGAAACCTTTAAAACGAGA
CATCTGA
Found at i:6589248 original size:20 final size:20
Alignment explanation
Indices: 6589223--6589287 Score: 80
Period size: 20 Copynumber: 3.3 Consensus size: 20
6589213 GGGTGTGCAT
6589223 AATTCGAGTAAAACCGAAAA
1 AATTCGAGTAAAACCGAAAA
* * *
6589243 AATTCG-GT-TAACCGAGCAT
1 AATTCGAGTAAAACCGA-AAA
6589262 AATTCGAGTAAAACCGAAAA
1 AATTCGAGTAAAACCGAAAA
6589282 AATTCG
1 AATTCG
6589288 GTTAACCGAC
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
18 6 0.17
19 9 0.25
20 15 0.42
21 6 0.17
ACGTcount: A:0.46, C:0.17, G:0.17, T:0.20
Consensus pattern (20 bp):
AATTCGAGTAAAACCGAAAA
Found at i:6589267 original size:19 final size:18
Alignment explanation
Indices: 6589234--6589296 Score: 72
Period size: 18 Copynumber: 3.3 Consensus size: 18
6589224 ATTCGAGTAA
6589234 AACCGAAAAAATTCGGTT
1 AACCGAAAAAATTCGGTT
* * *
6589252 AACCGAGCATAATTCGAGTAA
1 AACCGA-AAAAATTCG-GT-T
6589273 AACCGAAAAAATTCGGTT
1 AACCGAAAAAATTCGGTT
6589291 AACCGA
1 AACCGA
6589297 CCGATTAATC
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
18 12 0.33
19 9 0.25
20 9 0.25
21 6 0.17
ACGTcount: A:0.44, C:0.19, G:0.17, T:0.19
Consensus pattern (18 bp):
AACCGAAAAAATTCGGTT
Done.