Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 126 of 205
Found at i:37846024 original size:14 final size:15
Alignment explanation
Indices: 37845994--37846025 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
37845984 TCTCCAAATT
37845994 TTTAAGTTTTCAAAA
1 TTTAAGTTTTCAAAA
37846009 TTTAAGTTTT-AAAA
1 TTTAAGTTTTCAAAA
37846023 TTT
1 TTT
37846026 TTATTACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (15 bp):
TTTAAGTTTTCAAAA
Found at i:37850257 original size:21 final size:21
Alignment explanation
Indices: 37850231--37850272 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
37850221 CCTTTTGTAG
37850231 ACCAAAAATAAGAAATCTCAA
1 ACCAAAAATAAGAAATCTCAA
37850252 ACCAAAAATAAGAAATCTCAA
1 ACCAAAAATAAGAAATCTCAA
37850273 CTTATTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.62, C:0.19, G:0.05, T:0.14
Consensus pattern (21 bp):
ACCAAAAATAAGAAATCTCAA
Found at i:37853360 original size:57 final size:58
Alignment explanation
Indices: 37853287--37853409 Score: 173
Period size: 57 Copynumber: 2.2 Consensus size: 58
37853277 AAAAATGATG
37853287 CAAGAAAAAACGAGTGAACAGGAAATA-TTCCATAAC-GAAAACAGTAAATATTCCCT-T
1 CAAGAAAAAACGAGTGAACAGGAAATATTTCC-TAACAG-AAACAGTAAATATTCCCTGT
* * *
37853344 CAAGAAAATACTAGTGAACAGGAAATATTTCCTGACAGAAACAGTAAATATTCCCTGT
1 CAAGAAAAAACGAGTGAACAGGAAATATTTCCTAACAGAAACAGTAAATATTCCCTGT
37853402 -AAGAAAAA
1 CAAGAAAAA
37853410 TGCATGAATA
Statistics
Matches: 59, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
57 53 0.90
58 6 0.10
ACGTcount: A:0.49, C:0.16, G:0.15, T:0.20
Consensus pattern (58 bp):
CAAGAAAAAACGAGTGAACAGGAAATATTTCCTAACAGAAACAGTAAATATTCCCTGT
Found at i:37853647 original size:18 final size:17
Alignment explanation
Indices: 37853621--37853669 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
37853611 ATCAAAACTC
37853621 GTTTATCCAAATTTTAAA
1 GTTT-TCCAAATTTTAAA
*
37853639 GTTTCTCCAAATTTTTAA
1 GTTT-TCCAAATTTTAAA
*
37853657 GTTTTCAAAATTT
1 GTTTTCCAAATTT
37853670 AAGTTTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
17 8 0.29
18 20 0.71
ACGTcount: A:0.33, C:0.12, G:0.06, T:0.49
Consensus pattern (17 bp):
GTTTTCCAAATTTTAAA
Found at i:37853682 original size:14 final size:15
Alignment explanation
Indices: 37853652--37853683 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
37853642 TCTCCAAATT
37853652 TTTAAGTTTTCAAAA
1 TTTAAGTTTTCAAAA
37853667 TTTAAGTTTT-AAAA
1 TTTAAGTTTTCAAAA
37853681 TTT
1 TTT
37853684 TTATTACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (15 bp):
TTTAAGTTTTCAAAA
Found at i:37855743 original size:21 final size:23
Alignment explanation
Indices: 37855700--37855742 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
37855690 CAATGAACAA
37855700 TGAAGATTCTCTATAATAAAAAG
1 TGAAGATTCTCTATAATAAAAAG
37855723 TGAAGATTCTCTATAA-AAAA
1 TGAAGATTCTCTATAATAAAA
37855743 GAGTTTGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.49, C:0.09, G:0.12, T:0.30
Consensus pattern (23 bp):
TGAAGATTCTCTATAATAAAAAG
Found at i:37855792 original size:16 final size:16
Alignment explanation
Indices: 37855768--37855801 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
37855758 GAATATATTC
37855768 TTTGTAAAAATG-ATAG
1 TTTG-AAAAATGAATAG
37855784 TTTGAAAAATGAATAG
1 TTTGAAAAATGAATAG
37855800 TT
1 TT
37855802 GTAATAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.44, C:0.00, G:0.18, T:0.38
Consensus pattern (16 bp):
TTTGAAAAATGAATAG
Found at i:37855793 original size:15 final size:17
Alignment explanation
Indices: 37855768--37855805 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
37855758 GAATATATTC
37855768 TTTGTAAAAATG-ATAG
1 TTTGTAAAAATGAATAG
37855784 TTTG-AAAAATGAATAG
1 TTTGTAAAAATGAATAG
37855800 -TTGTAA
1 TTTGTAA
37855806 TAATTTCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.45, C:0.00, G:0.18, T:0.37
Consensus pattern (17 bp):
TTTGTAAAAATGAATAG
Found at i:37862313 original size:36 final size:36
Alignment explanation
Indices: 37862266--37862337 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
37862256 AATGATCGAG
37862266 TGTTTGGCTGCTGAACAGGAGCTGGAAAATCAAGAA
1 TGTTTGGCTGCTGAACAGGAGCTGGAAAATCAAGAA
**
37862302 TGTTTGGCTGCTGGGCAGGAGCTGGAAAATCAAGAA
1 TGTTTGGCTGCTGAACAGGAGCTGGAAAATCAAGAA
37862338 GAAAGAATTC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.31, C:0.14, G:0.33, T:0.22
Consensus pattern (36 bp):
TGTTTGGCTGCTGAACAGGAGCTGGAAAATCAAGAA
Found at i:37870902 original size:3 final size:3
Alignment explanation
Indices: 37870896--37870936 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
37870886 CTGAATGTTG
37870896 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
37870937 CTTGTTATTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:37875029 original size:35 final size:35
Alignment explanation
Indices: 37874990--37875082 Score: 107
Period size: 35 Copynumber: 2.6 Consensus size: 35
37874980 TTAGACTAGT
* * *
37874990 TCTTATGAGCATTGGTGTGTTTTGGAGGGA-TTAGC
1 TCTTACGAGCATTGGTGTGTTTCGGAGGGACTGA-C
* *
37875025 TCTTACGAGCATTGGTATGTTTCGGATGGACTGAC
1 TCTTACGAGCATTGGTGTGTTTCGGAGGGACTGAC
*
37875060 TCTTACAAGCATTTGGTGTGTTT
1 TCTTACGAGCA-TTGGTGTGTTT
37875083 GGGTGGTTTG
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
35 37 0.76
36 12 0.24
ACGTcount: A:0.18, C:0.13, G:0.29, T:0.40
Consensus pattern (35 bp):
TCTTACGAGCATTGGTGTGTTTCGGAGGGACTGAC
Found at i:37875854 original size:19 final size:18
Alignment explanation
Indices: 37875808--37875855 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
37875798 GATAGAAATT
*
37875808 TTGTCATAAAATAATTAAT
1 TTGT-ATAAAATAATTAAA
*
37875827 TTTTATAAAATAATTAAA
1 TTGTATAAAATAATTAAA
37875845 TTGTATTAAAA
1 TTGTA-TAAAA
37875856 ATATGAACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 17 0.68
19 8 0.32
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (18 bp):
TTGTATAAAATAATTAAA
Found at i:37887838 original size:47 final size:47
Alignment explanation
Indices: 37887334--37891575 Score: 8070
Period size: 47 Copynumber: 89.6 Consensus size: 47
37887324 TATTTGAATA
*
37887334 AATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
37887383 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
37887432 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
37887481 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
37887530 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
37887579 AATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
37887628 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
37887677 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
37887726 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
37887775 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
37887824 AATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37887871 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37887918 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37887965 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37888012 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37888059 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37888106 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37888153 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37888200 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37888247 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37888294 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37888341 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37888388 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37888435 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37888482 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37888529 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37888576 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37888623 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37888670 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37888717 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37888764 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37888811 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37888858 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37888905 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
37888954 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37889001 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37889048 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37889095 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37889142 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37889189 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37889236 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37889283 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37889330 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
37889377 AATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37889424 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37889471 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37889518 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37889565 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37889612 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37889659 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37889706 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37889753 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37889800 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37889847 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37889894 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37889941 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37889988 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37890035 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37890082 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37890129 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37890176 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37890223 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37890270 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37890317 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37890364 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37890411 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37890458 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37890505 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37890552 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37890599 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37890646 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37890693 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37890740 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37890787 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37890834 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37890881 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37890928 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37890975 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37891022 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37891069 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37891116 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
37891165 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
37891214 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
37891261 AATGTGAAAGAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTG-AA-AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37891310 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
37891359 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
37891408 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37891455 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
37891502 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
37891549 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
37891576 TCCCGAAGGG
Statistics
Matches: 4164, Mismatches: 21, Indels: 18
0.99 0.00 0.00
Matches are distributed among these distances:
47 3430 0.82
48 4 0.00
49 730 0.18
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:37891750 original size:37 final size:37
Alignment explanation
Indices: 37891694--37891772 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
37891684 CCGAGCTCTA
* * *
37891694 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
37891731 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
37891768 AAGAC
1 AAGAC
37891773 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:37901550 original size:14 final size:14
Alignment explanation
Indices: 37901533--37901599 Score: 75
Period size: 14 Copynumber: 4.9 Consensus size: 14
37901523 TTTGAAAAAT
37901533 AATTGAGGATTGAA
1 AATTGAGGATTGAA
*
37901547 AATTTGA-AATTGAA
1 AA-TTGAGGATTGAA
*
37901561 AATTGAAGATTG-A
1 AATTGAGGATTGAA
*
37901574 AACTGAGGATTGAA
1 AATTGAGGATTGAA
*
37901588 GATTGAGGATTG
1 AATTGAGGATTG
37901600 GGAATTTAGA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
13 15 0.34
14 25 0.57
15 4 0.09
ACGTcount: A:0.42, C:0.01, G:0.27, T:0.30
Consensus pattern (14 bp):
AATTGAGGATTGAA
Found at i:37901575 original size:20 final size:20
Alignment explanation
Indices: 37901550--37901593 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
37901540 GATTGAAAAT
*
37901550 TTGAAATTGAAAATTGAAGA
1 TTGAAACTGAAAATTGAAGA
**
37901570 TTGAAACTGAGGATTGAAGA
1 TTGAAACTGAAAATTGAAGA
37901590 TTGA
1 TTGA
37901594 GGATTGGGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.43, C:0.02, G:0.25, T:0.30
Consensus pattern (20 bp):
TTGAAACTGAAAATTGAAGA
Found at i:37901591 original size:7 final size:7
Alignment explanation
Indices: 37901534--37901599 Score: 55
Period size: 7 Copynumber: 9.6 Consensus size: 7
37901524 TTGAAAAATA
*
37901534 ATTGAGG
1 ATTGAAG
*
37901541 ATTGAAA
1 ATTGAAG
37901548 ATTTGAA-
1 A-TTGAAG
*
37901555 ATTGAAA
1 ATTGAAG
37901562 ATTGAAG
1 ATTGAAG
37901569 ATTGAA-
1 ATTGAAG
* *
37901575 ACTGAGG
1 ATTGAAG
37901582 ATTGAAG
1 ATTGAAG
*
37901589 ATTGAGG
1 ATTGAAG
37901596 ATTG
1 ATTG
37901600 GGAATTTAGA
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
6 9 0.19
7 34 0.71
8 5 0.10
ACGTcount: A:0.41, C:0.02, G:0.27, T:0.30
Consensus pattern (7 bp):
ATTGAAG
Found at i:37902820 original size:20 final size:20
Alignment explanation
Indices: 37902792--37902829 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
37902782 GTACACAGGC
37902792 GTGTAGACCACCACATGGGT
1 GTGTAGACCACCACATGGGT
* *
37902812 GTGTCGACCTCCACATGG
1 GTGTAGACCACCACATGG
37902830 CCTAGGCACT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.29, G:0.29, T:0.21
Consensus pattern (20 bp):
GTGTAGACCACCACATGGGT
Found at i:37913058 original size:31 final size:31
Alignment explanation
Indices: 37912919--37913059 Score: 119
Period size: 31 Copynumber: 4.6 Consensus size: 31
37912909 AGGTATCCAA
*
37912919 CACTGGTACATAGTACCTGATAAAATATAAA
1 CACTGGTACATAGTACCTGATAAAATATAAT
** * * *
37912950 CA-TCGACACATTGTTCTTGATACAAAT-T-AT
1 CACT-GGTACATAGTACCTGATA-AAATATAAT
* * * *
37912980 CACCT-GTACGTAGTACATGATATAATATAGT
1 CA-CTGGTACATAGTACCTGATAAAATATAAT
* *
37913011 CACCGGTACATAGTACCTGATAAAATACAAT
1 CACTGGTACATAGTACCTGATAAAATATAAT
37913042 CACTGGTACATAGTACCT
1 CACTGGTACATAGTACCT
37913060 AATACTTTAA
Statistics
Matches: 82, Mismatches: 21, Indels: 14
0.70 0.18 0.12
Matches are distributed among these distances:
29 3 0.04
30 17 0.21
31 57 0.70
32 5 0.06
ACGTcount: A:0.38, C:0.20, G:0.13, T:0.29
Consensus pattern (31 bp):
CACTGGTACATAGTACCTGATAAAATATAAT
Found at i:37914878 original size:498 final size:498
Alignment explanation
Indices: 37913941--37914927 Score: 1956
Period size: 498 Copynumber: 2.0 Consensus size: 498
37913931 AGGGTATGTT
37913941 ATATAGTCGACTATGTCTAGGGATTGCTCACATACATTGTAAAAAATAAAATAATTGAATGAAAT
1 ATATAGTCGACTATGTCTAGGGATTGCTCACATACATTGTAAAAAATAAAATAATTGAATGAAAT
37914006 AGTAAAATAACTCAGATTTATACTGTAGCCATTAAAGGCAGTTAAAGTTTCATCAAAGTAATTCC
66 AGTAAAATAACTCAGATTTATACTGTAGCCATTAAAGGCAGTTAAAGTTTCATCAAAGTAATTCC
37914071 AATCCTATGAGATTTAACTCATAAGTTGTTAAATAAAATTCAACTCAAACGTCATTTTCATCATT
131 AATCCTATGAGATTTAACTCATAAGTTGTTAAATAAAATTCAACTCAAACGTCATTTTCATCATT
37914136 GTAATTCACGAAGGAACATATTAGAAATAATGGAAGAACGTCGGGAAGATATCGTTCCCTTGTCC
196 GTAATTCACGAAGGAACATATTAGAAATAATGGAAGAACGTCGGGAAGATATCGTTCCCTTGTCC
*
37914201 AATCCATACTCCAGCTACGTAGTGTCTTGACGTGGCCGAGAGGGGTTGCCTGTGTCTTTCCTCTT
261 AATCCATACTCCAACTACGTAGTGTCTTGACGTGGCCGAGAGGGGTTGCCTGTGTCTTTCCTCTT
37914266 CCTGTCTCTATTCAGCCGCTACCTTTTAATTTTCCTAAGGATCTCTACTTGCAGTTCCATGTGCT
326 CCTGTCTCTATTCAGCCGCTACCTTTTAATTTTCCTAAGGATCTCTACTTGCAGTTCCATGTGCT
37914331 AGGGTTTTCTCCTTTGCTTTTTTTAAATCACTTTGTTTTTCTTTTTCAGGATAACTCCAGCAGCC
391 AGGGTTTTCTCCTTTGCTTTTTTTAAATCACTTTGTTTTTCTTTTTCAGGATAACTCCAGCAGCC
37914396 CCAATATTTATCTTCTCCTCTTTTCTAGGCAGATTTAAATCTC
456 CCAATATTTATCTTCTCCTCTTTTCTAGGCAGATTTAAATCTC
*
37914439 ATATAGTCGACTATGTCTAGGGATTGCTCATATACATTGTAAAAAATAAAATAATTGAATGAAAT
1 ATATAGTCGACTATGTCTAGGGATTGCTCACATACATTGTAAAAAATAAAATAATTGAATGAAAT
37914504 AGTAAAATAACTCAGATTTATACTGTAGCCATTAAAGGCAGTTAAAGTTTCATCAAAGTAATTCC
66 AGTAAAATAACTCAGATTTATACTGTAGCCATTAAAGGCAGTTAAAGTTTCATCAAAGTAATTCC
37914569 AATCCTATGAGATTTAACTCATAAGTTGTTAAATAAAATTCAACTCAAACGTCATTTTCATCATT
131 AATCCTATGAGATTTAACTCATAAGTTGTTAAATAAAATTCAACTCAAACGTCATTTTCATCATT
37914634 GTAATTCACGAAGGAACATATTAGAAATAATGGAAGAACGTCGGGAAGATATCGTTCCCTTGTCC
196 GTAATTCACGAAGGAACATATTAGAAATAATGGAAGAACGTCGGGAAGATATCGTTCCCTTGTCC
37914699 AATCCATACTCCAACTACGTAGTGTCTTGACGTGGCCGAGAGGGGTTGCCTGTGTCTTTCCTCTT
261 AATCCATACTCCAACTACGTAGTGTCTTGACGTGGCCGAGAGGGGTTGCCTGTGTCTTTCCTCTT
37914764 CCTGTCTCTATTCAGCCGCTACCTTTTAATTTTCCTAAGGATCTCTACTTGCAGTTCCATGTGCT
326 CCTGTCTCTATTCAGCCGCTACCTTTTAATTTTCCTAAGGATCTCTACTTGCAGTTCCATGTGCT
37914829 AGGGTTTTCTCCTTTGCTTTTTTTAAATCACTTTGTTTTTCTTTTTCAGGATAACTCCAGCAGCC
391 AGGGTTTTCTCCTTTGCTTTTTTTAAATCACTTTGTTTTTCTTTTTCAGGATAACTCCAGCAGCC
37914894 CCAATATTTATCTTCTCCTCTTTTCTAGGCAGAT
456 CCAATATTTATCTTCTCCTCTTTTCTAGGCAGAT
37914928 GTATCTGGTA
Statistics
Matches: 487, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
498 487 1.00
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.36
Consensus pattern (498 bp):
ATATAGTCGACTATGTCTAGGGATTGCTCACATACATTGTAAAAAATAAAATAATTGAATGAAAT
AGTAAAATAACTCAGATTTATACTGTAGCCATTAAAGGCAGTTAAAGTTTCATCAAAGTAATTCC
AATCCTATGAGATTTAACTCATAAGTTGTTAAATAAAATTCAACTCAAACGTCATTTTCATCATT
GTAATTCACGAAGGAACATATTAGAAATAATGGAAGAACGTCGGGAAGATATCGTTCCCTTGTCC
AATCCATACTCCAACTACGTAGTGTCTTGACGTGGCCGAGAGGGGTTGCCTGTGTCTTTCCTCTT
CCTGTCTCTATTCAGCCGCTACCTTTTAATTTTCCTAAGGATCTCTACTTGCAGTTCCATGTGCT
AGGGTTTTCTCCTTTGCTTTTTTTAAATCACTTTGTTTTTCTTTTTCAGGATAACTCCAGCAGCC
CCAATATTTATCTTCTCCTCTTTTCTAGGCAGATTTAAATCTC
Found at i:37917811 original size:25 final size:23
Alignment explanation
Indices: 37917768--37917813 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
37917758 CGAAAATAAC
37917768 TAAAAGAAAAAAAGAAATAAATT
1 TAAAAGAAAAAAAGAAATAAATT
*
37917791 TAAAAGTAAAGAAAATAAATAAA
1 TAAAAG-AAA-AAAAGAAATAAA
37917814 ATAAAATCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 3 0.15
25 11 0.55
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.17
Consensus pattern (23 bp):
TAAAAGAAAAAAAGAAATAAATT
Found at i:37930772 original size:10 final size:10
Alignment explanation
Indices: 37930757--37930791 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
37930747 ATAGATACGG
37930757 ATTTATTTTT
1 ATTTATTTTT
*
37930767 ATTTATCTTT
1 ATTTATTTTT
37930777 ATTTCATTTTT
1 ATTT-ATTTTT
37930788 ATTT
1 ATTT
37930792 TTTAGTTCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.74
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:37933821 original size:29 final size:29
Alignment explanation
Indices: 37933778--37934008 Score: 175
Period size: 29 Copynumber: 8.0 Consensus size: 29
37933768 GCATGCTAAA
*
37933778 CGATGGTCATAACCATCCATTTTCATATT
1 CGATGGTCATAACCATCCCTTTTCATATT
*
37933807 CGATGGTCATCACCATCCCTTTTCATATT
1 CGATGGTCATAACCATCCCTTTTCATATT
** *
37933836 CGATGGTCGGAACCATCCATTTTCATTAATT
1 CGATGGTCATAACCATCCCTTTTCA-T-ATT
* * *
37933867 -GACGGTCGTCACCATCCCTTTTCATAGTT
1 CGATGGTCATAACCATCCCTTTTCATA-TT
** * * **
37933896 -GATGGTTGTCACCATCTCTTTTCATAGC
1 CGATGGTCATAACCATCCCTTTTCATATT
* * * *
37933924 CGCTAGTCGA-AACTATCCCTTTTCATAGT
1 CGATGGTC-ATAACCATCCCTTTTCATATT
* * *
37933953 CGACGGTCAAAACTATCCCTTTTCATATT
1 CGATGGTCATAACCATCCCTTTTCATATT
* * *
37933982 CAATGGTCGTCACCAT-CCTTTT-ATATT
1 CGATGGTCATAACCATCCCTTTTCATATT
37934009 GTTGATAATC
Statistics
Matches: 163, Mismatches: 33, Indels: 14
0.78 0.16 0.07
Matches are distributed among these distances:
27 5 0.03
28 8 0.05
29 126 0.77
30 21 0.13
31 3 0.02
ACGTcount: A:0.23, C:0.27, G:0.13, T:0.37
Consensus pattern (29 bp):
CGATGGTCATAACCATCCCTTTTCATATT
Found at i:37933947 original size:88 final size:86
Alignment explanation
Indices: 37933782--37934003 Score: 239
Period size: 88 Copynumber: 2.5 Consensus size: 86
37933772 GCTAAACGAT
* * * ** * *
37933782 GGTCATAACCATCCATTTTCATATTCGATGGTCATCACCATCCCTTTTCATATTCGATGGTCGGA
1 GGTCAAAACCATCCCTTTTCATATTCGATGGTCGTCACCAT-CCTTTTCATAGCCGATAGTCGAA
*
37933847 ACCATCCATTTTCATTAATTGAC
65 ACCATCCATTTTCA-TAATCGAC
*** * *
37933870 GGTCGTCACCATCCCTTTTCATAGTT-GATGGTTGTCACCATCTCTTTTCATAGCCGCTAGTCGA
1 GGTCAAAACCATCCCTTTTCATA-TTCGATGGTCGTCACCATC-CTTTTCATAGCCGATAGTCGA
* * *
37933934 AACTATCCCTTTTCATAGTCGAC
64 AACCATCCATTTTCATAATCGAC
* *
37933957 GGTCAAAACTATCCCTTTTCATATTCAATGGTCGTCACCATCCTTTT
1 GGTCAAAACCATCCCTTTTCATATTCGATGGTCGTCACCATCCTTTT
37934004 ATATTGTTGA
Statistics
Matches: 111, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
86 7 0.06
87 40 0.36
88 62 0.56
89 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.14, T:0.36
Consensus pattern (86 bp):
GGTCAAAACCATCCCTTTTCATATTCGATGGTCGTCACCATCCTTTTCATAGCCGATAGTCGAAA
CCATCCATTTTCATAATCGAC
Found at i:37942960 original size:18 final size:17
Alignment explanation
Indices: 37942933--37942968 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
37942923 TTTATTTTCC
37942933 TTGTTTTTATGATTGTT
1 TTGTTTTTATGATTGTT
*
37942950 TTGTGTTTTATTATTGTT
1 TTGT-TTTTATGATTGTT
37942968 T
1 T
37942969 ATTTTCATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.11, C:0.00, G:0.17, T:0.72
Consensus pattern (17 bp):
TTGTTTTTATGATTGTT
Found at i:37946958 original size:14 final size:15
Alignment explanation
Indices: 37946929--37946958 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
37946919 GTGAAAAAAA
37946929 TATTTTTCTTCTCCT
1 TATTTTTCTTCTCCT
37946944 TATTTTTCTTC-CCT
1 TATTTTTCTTCTCCT
37946958 T
1 T
37946959 GGTTGAATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.07, C:0.27, G:0.00, T:0.67
Consensus pattern (15 bp):
TATTTTTCTTCTCCT
Found at i:37948825 original size:2 final size:2
Alignment explanation
Indices: 37948813--37948844 Score: 55
Period size: 2 Copynumber: 15.5 Consensus size: 2
37948803 TTCATACATA
37948813 AT AT GAT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT A
37948845 AATTCGAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 27 0.93
3 2 0.07
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:37951067 original size:18 final size:18
Alignment explanation
Indices: 37951020--37951087 Score: 68
Period size: 18 Copynumber: 3.7 Consensus size: 18
37951010 TGTCACATTG
37951020 ATAAATAATTT-AAAATAT
1 ATAAA-AATTTAAAAATAT
37951038 AT-AAAATATTAAAAATAT
1 ATAAAAAT-TTAAAAATAT
37951056 ATAAAAATTTAATAAATAAT
1 ATAAAAATTTAA-AAAT-AT
* *
37951076 TTAAAAAATTAA
1 ATAAAAATTTAA
37951088 TATAGAGTAC
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
16 3 0.07
17 4 0.09
18 15 0.35
19 9 0.21
20 12 0.28
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
ATAAAAATTTAAAAATAT
Found at i:37951484 original size:3 final size:3
Alignment explanation
Indices: 37951471--37951516 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
37951461 TCGAGACCTA
37951471 TCT TC- TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
37951517 CTCAAAAGGT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:37951577 original size:34 final size:35
Alignment explanation
Indices: 37951533--37951601 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
37951523 AGGTAGTAAG
*
37951533 AAAATTTTCTCACAA-TTTAATACATGCATGGTTA
1 AAAATCTTCTCACAATTTTAATACATGCATGGTTA
*
37951567 AAAATCTTCTCACAATTTTAGTACATGCATGGTTA
1 AAAATCTTCTCACAATTTTAATACATGCATGGTTA
37951602 TCTAATTTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 14 0.44
35 18 0.56
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (35 bp):
AAAATCTTCTCACAATTTTAATACATGCATGGTTA
Found at i:37959950 original size:33 final size:33
Alignment explanation
Indices: 37959908--37959975 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
37959898 AAGGTTACTT
*
37959908 GGGGTTGGATCAAATGACGAAGACACTGGTATA
1 GGGGTTGGATCAAATGACGAAGACACTGATATA
* *
37959941 GGGGTTGGATCTAATGATGAAGACACTGATATA
1 GGGGTTGGATCAAATGACGAAGACACTGATATA
37959974 GG
1 GG
37959976 ACATGTATCA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.32, C:0.10, G:0.34, T:0.24
Consensus pattern (33 bp):
GGGGTTGGATCAAATGACGAAGACACTGATATA
Found at i:37964752 original size:3 final size:3
Alignment explanation
Indices: 37964744--37964785 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
37964734 TATTTTACTT
37964744 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
37964786 GGAAATGGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:37965101 original size:13 final size:13
Alignment explanation
Indices: 37965083--37965107 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37965073 TGAACTTAAA
37965083 GTGTAATTTTATC
1 GTGTAATTTTATC
37965096 GTGTAATTTTAT
1 GTGTAATTTTAT
37965108 AAAAATTTAA
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:0.24, C:0.04, G:0.16, T:0.56
Consensus pattern (13 bp):
GTGTAATTTTATC
Found at i:37966133 original size:17 final size:17
Alignment explanation
Indices: 37966111--37966174 Score: 67
Period size: 17 Copynumber: 3.6 Consensus size: 17
37966101 AATCTTAGAG
37966111 TTCTAATTGTATACAGC
1 TTCTAATTGTATACAGC
* *
37966128 TTCTAATTGTGT-CTTAGAG
1 TTCTAATTGTATAC--AG-C
37966147 TTCTAATTGTATACAGC
1 TTCTAATTGTATACAGC
*
37966164 TTTTAATTGTA
1 TTCTAATTGTA
37966175 GCCCTTGATT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
16 1 0.03
17 21 0.55
18 4 0.11
19 11 0.29
20 1 0.03
ACGTcount: A:0.27, C:0.12, G:0.14, T:0.47
Consensus pattern (17 bp):
TTCTAATTGTATACAGC
Found at i:37966150 original size:36 final size:36
Alignment explanation
Indices: 37966103--37966173 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
37966093 GATTATGTAA
37966103 TCTTAGAGTTCTAATTGTATACAGCTTCTAATTGTG
1 TCTTAGAGTTCTAATTGTATACAGCTTCTAATTGTG
*
37966139 TCTTAGAGTTCTAATTGTATACAGCTTTTAATTGT
1 TCTTAGAGTTCTAATTGTATACAGCTTCTAATTGT
37966174 AGCCCTTGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.25, C:0.13, G:0.15, T:0.46
Consensus pattern (36 bp):
TCTTAGAGTTCTAATTGTATACAGCTTCTAATTGTG
Found at i:37966152 original size:19 final size:19
Alignment explanation
Indices: 37966102--37966158 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
37966092 TGATTATGTA
37966102 ATCTTAGAGTTCTAATTGT
1 ATCTTAGAGTTCTAATTGT
*
37966121 ATAC--AG-CTTCTAATTGT
1 AT-CTTAGAGTTCTAATTGT
*
37966138 GTCTTAGAGTTCTAATTGT
1 ATCTTAGAGTTCTAATTGT
37966157 AT
1 AT
37966159 ACAGCTTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
16 1 0.03
17 11 0.37
18 4 0.13
19 13 0.43
20 1 0.03
ACGTcount: A:0.26, C:0.12, G:0.16, T:0.46
Consensus pattern (19 bp):
ATCTTAGAGTTCTAATTGT
Found at i:37966461 original size:48 final size:49
Alignment explanation
Indices: 37966367--37966463 Score: 144
Period size: 48 Copynumber: 2.0 Consensus size: 49
37966357 TGAGGGAATT
* *
37966367 CTGTTGAATCCTTTGTCATTGCTAGATTAAGCTGACTTAGGTGTTTTTA
1 CTGTTGAATCCGTTATCATTGCTAGATTAAGCTGACTTAGGTGTTTTTA
*
37966416 CTGTTGAATCCGTTATCATTG-T-GAGTTAGGCTGACTTAGGTGTTTTTA
1 CTGTTGAATCCGTTATCATTGCTAGA-TTAAGCTGACTTAGGTGTTTTTA
37966464 AGCAAAGAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
47 2 0.05
48 23 0.52
49 19 0.43
ACGTcount: A:0.20, C:0.13, G:0.23, T:0.44
Consensus pattern (49 bp):
CTGTTGAATCCGTTATCATTGCTAGATTAAGCTGACTTAGGTGTTTTTA
Found at i:37971262 original size:17 final size:17
Alignment explanation
Indices: 37971240--37971303 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 17
37971230 AATCTTAGAG
37971240 TTCTAATTGTATACAGC
1 TTCTAATTGTATACAGC
* *
37971257 TTCTAATTGTGT-CTTAGAG
1 TTCTAATTGTATAC--AG-C
*
37971276 TTCTAATTGTATACAAC
1 TTCTAATTGTATACAGC
*
37971293 TTTTAATTGTA
1 TTCTAATTGTA
37971304 GCCCTTGATT
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
16 1 0.03
17 21 0.57
18 3 0.08
19 11 0.30
20 1 0.03
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (17 bp):
TTCTAATTGTATACAGC
Found at i:37971279 original size:36 final size:36
Alignment explanation
Indices: 37971232--37971302 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
37971222 GATTATGTAA
*
37971232 TCTTAGAGTTCTAATTGTATACAGCTTCTAATTGTG
1 TCTTAGAGTTCTAATTGTATACAACTTCTAATTGTG
*
37971268 TCTTAGAGTTCTAATTGTATACAACTTTTAATTGT
1 TCTTAGAGTTCTAATTGTATACAACTTCTAATTGT
37971303 AGCCCTTGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.27, C:0.13, G:0.14, T:0.46
Consensus pattern (36 bp):
TCTTAGAGTTCTAATTGTATACAACTTCTAATTGTG
Found at i:37971281 original size:19 final size:19
Alignment explanation
Indices: 37971231--37971287 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
37971221 TGATTATGTA
37971231 ATCTTAGAGTTCTAATTGT
1 ATCTTAGAGTTCTAATTGT
*
37971250 ATAC--AG-CTTCTAATTGT
1 AT-CTTAGAGTTCTAATTGT
*
37971267 GTCTTAGAGTTCTAATTGT
1 ATCTTAGAGTTCTAATTGT
37971286 AT
1 AT
37971288 ACAACTTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
16 1 0.03
17 11 0.37
18 4 0.13
19 13 0.43
20 1 0.03
ACGTcount: A:0.26, C:0.12, G:0.16, T:0.46
Consensus pattern (19 bp):
ATCTTAGAGTTCTAATTGT
Found at i:37986803 original size:8 final size:8
Alignment explanation
Indices: 37986790--37986818 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
37986780 TATATATACT
37986790 AAATAATA
1 AAATAATA
37986798 AAATAATA
1 AAATAATA
37986806 AAATAATA
1 AAATAATA
37986814 AAATA
1 AAATA
37986819 TCATTTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AAATAATA
Found at i:37987035 original size:48 final size:48
Alignment explanation
Indices: 37986964--37987059 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
37986954 TTCCATCCTT
37986964 GAGTCATTACTTAATTTGGTAAAATTACAATTTAGTCCCTCATAATTC
1 GAGTCATTACTTAATTTGGTAAAATTACAATTTAGTCCCTCATAATTC
37987012 GAGTCATTACTTAATTTGGTAAAATTACAATTTAGTCCCTCATAATTC
1 GAGTCATTACTTAATTTGGTAAAATTACAATTTAGTCCCTCATAATTC
37987060 TTCACCTATT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (48 bp):
GAGTCATTACTTAATTTGGTAAAATTACAATTTAGTCCCTCATAATTC
Found at i:37988874 original size:19 final size:20
Alignment explanation
Indices: 37988832--37988874 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
37988822 TCATGCTTTC
*
37988832 TATTCACATTTTCATATTCA
1 TATTCACATTTTCAAATTCA
37988852 -ATTCACATTTTCAAATT-A
1 TATTCACATTTTCAAATTCA
37988870 TATTC
1 TATTC
37988875 CACTTAGTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTCACATTTTCAAATTCA
Found at i:37989001 original size:44 final size:45
Alignment explanation
Indices: 37988947--37989040 Score: 136
Period size: 44 Copynumber: 2.1 Consensus size: 45
37988937 AATAATAACA
* *
37988947 GATACACGGTGGAATTATCACATAGCAACCACC-TTATAATCAAT
1 GATACACGGTGGAATCAGCACATAGCAACCACCTTTATAATCAAT
* * *
37988991 GATACTCGGTGGAATCAGCAGATAGCAACCACCTTTATAGTCAAT
1 GATACACGGTGGAATCAGCACATAGCAACCACCTTTATAATCAAT
37989036 GATAC
1 GATAC
37989041 CCGATTCACA
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 29 0.66
45 15 0.34
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.24
Consensus pattern (45 bp):
GATACACGGTGGAATCAGCACATAGCAACCACCTTTATAATCAAT
Found at i:37991800 original size:8 final size:8
Alignment explanation
Indices: 37991787--37991814 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
37991777 TATATATACT
37991787 AAATAATA
1 AAATAATA
37991795 AAATAATA
1 AAATAATA
37991803 AAATAATA
1 AAATAATA
37991811 AAAT
1 AAAT
37991815 CAAATTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (8 bp):
AAATAATA
Found at i:38005182 original size:27 final size:27
Alignment explanation
Indices: 38005152--38005211 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
38005142 TATTGCAAGT
* * *
38005152 GGGTTCGTCAGTGTGTTTGGCGAGCTA
1 GGGTTCGCCAGGGTGTTTGGCGAGCCA
* *
38005179 GGGTTTGCCAGGGTGTTTGGTGAGCCA
1 GGGTTCGCCAGGGTGTTTGGCGAGCCA
38005206 GGGTTC
1 GGGTTC
38005212 ACTAGGTAAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.10, C:0.15, G:0.43, T:0.32
Consensus pattern (27 bp):
GGGTTCGCCAGGGTGTTTGGCGAGCCA
Found at i:38022013 original size:50 final size:50
Alignment explanation
Indices: 38021959--38022135 Score: 212
Period size: 50 Copynumber: 3.5 Consensus size: 50
38021949 TTCTGCATTT
* *
38021959 AATAAAGTCATGCATTATGTAACTCTCATGTTAGTTAAGTATGCATCATA
1 AATAAAGACATGCATTATGTAACTCTCATGTTAGTTAAGTTTGCATCATA
* * *
38022009 AATAATGACCTGCATTATGTAACTATCATGTTAGTTAAGTTTGCATCATA
1 AATAAAGACATGCATTATGTAACTCTCATGTTAGTTAAGTTTGCATCATA
* * * *
38022059 AATAATGACAT-CTATTATGTAACTCCCATGTTAGTTAAAGTTTTCATCTTTA
1 AATAAAGACATGC-ATTATGTAACTCTCATGTTAGTT-AAGTTTGCATC-ATA
* * *
38022111 AATTAAGCCATGCATTAAGTAACTC
1 AATAAAGACATGCATTATGTAACTC
38022136 ATTTGTTCAT
Statistics
Matches: 109, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
49 1 0.01
50 76 0.70
51 10 0.09
52 21 0.19
53 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.37
Consensus pattern (50 bp):
AATAAAGACATGCATTATGTAACTCTCATGTTAGTTAAGTTTGCATCATA
Found at i:38022916 original size:25 final size:24
Alignment explanation
Indices: 38022888--38022939 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
38022878 AAAATTTTAA
38022888 AAAAATCAAAATATAAAAAAAAAAG
1 AAAAATCAAAATA-AAAAAAAAAAG
* ** *
38022913 AAAATTTGAAGTAAAAAAAAAAAG
1 AAAAATCAAAATAAAAAAAAAAAG
38022937 AAA
1 AAA
38022940 GCAAAATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.77, C:0.02, G:0.08, T:0.13
Consensus pattern (24 bp):
AAAAATCAAAATAAAAAAAAAAAG
Found at i:38022935 original size:29 final size:30
Alignment explanation
Indices: 38022902--38022962 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
38022892 ATCAAAATAT
38022902 AAAAAAAAAAG-AAAA-TTTGAAGTAAAAA
1 AAAAAAAAAAGCAAAATTTTGAAGTAAAAA
* *
38022930 AAAAAAGAAAGCAAAATTTTGAATTAAAAA
1 AAAAAAAAAAGCAAAATTTTGAAGTAAAAA
38022960 AAA
1 AAA
38022963 GAAGGATTCG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 10 0.34
29 4 0.14
30 15 0.52
ACGTcount: A:0.72, C:0.02, G:0.10, T:0.16
Consensus pattern (30 bp):
AAAAAAAAAAGCAAAATTTTGAAGTAAAAA
Found at i:38026156 original size:52 final size:50
Alignment explanation
Indices: 38026040--38026158 Score: 132
Period size: 50 Copynumber: 2.3 Consensus size: 50
38026030 TTAATAAAGT
**
38026040 CATGCATTATGTAACTCTTATGTTAGTTAAGTTTGCATCATAAATAATGA
1 CATGCATTATGTAACTCCCATGTTAGTTAAGTTTGCATCATAAATAATGA
* * * * *
38026090 AATCCATTATGTAACTCCCATTTTAGTTAACGTTTGCATCTTTAAATTAA-GC
1 CATGCATTATGTAACTCCCATGTTAGTTAA-GTTTGCATC-ATAAA-TAATGA
*
38026142 CATGCATTAAGTAACTC
1 CATGCATTATGTAACTC
38026159 ATCTGTTCAT
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
50 25 0.45
51 9 0.16
52 19 0.34
53 3 0.05
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.39
Consensus pattern (50 bp):
CATGCATTATGTAACTCCCATGTTAGTTAAGTTTGCATCATAAATAATGA
Found at i:38027854 original size:26 final size:26
Alignment explanation
Indices: 38027810--38027872 Score: 69
Period size: 26 Copynumber: 2.4 Consensus size: 26
38027800 CCTTACGGAG
38027810 TTTGCCAC-AAAGACATTCTTT-AATA
1 TTTGCCACAAAAGACATTCTTTCAA-A
*
38027835 TTATGCCACAAAAG-CTTTCTTTCAAA
1 TT-TGCCACAAAAGACATTCTTTCAAA
38027861 TTTCGCCACAAA
1 TTT-GCCACAAA
38027873 GCCTTACTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
25 3 0.09
26 24 0.73
27 6 0.18
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.33
Consensus pattern (26 bp):
TTTGCCACAAAAGACATTCTTTCAAA
Found at i:38032366 original size:12 final size:12
Alignment explanation
Indices: 38032351--38032384 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
38032341 ATTTAAACTA
*
38032351 AAATACATGAGT
1 AAATACATGAAT
38032363 AAATACAATGAAT
1 AAATAC-ATGAAT
38032376 AAATACATG
1 AAATACATG
38032385 TACAACATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.56, C:0.09, G:0.12, T:0.24
Consensus pattern (12 bp):
AAATACATGAAT
Found at i:38033426 original size:26 final size:26
Alignment explanation
Indices: 38033397--38033510 Score: 95
Period size: 26 Copynumber: 4.4 Consensus size: 26
38033387 AAGTAGTTTC
38033397 CCACAAAGGCATTCTTTCATATTACG
1 CCACAAAGGCATTCTTTCATATTACG
* * *
38033423 CCACAAAGACTTTCTTTCATATTATG
1 CCACAAAGGCATTCTTTCATATTACG
* * * * *
38033449 CCAC-AATGAATTTATTTCAAATTACA
1 CCACAAAGGCA-TTCTTTCATATTACG
* * **
38033475 CTACAAATGTTTTCTTTCATATTACG
1 CCACAAAGGCATTCTTTCATATTACG
*
38033501 CCATAAAGGC
1 CCACAAAGGC
38033511 TTTTGTTATC
Statistics
Matches: 65, Mismatches: 21, Indels: 4
0.72 0.23 0.04
Matches are distributed among these distances:
25 2 0.03
26 59 0.91
27 4 0.06
ACGTcount: A:0.33, C:0.23, G:0.09, T:0.35
Consensus pattern (26 bp):
CCACAAAGGCATTCTTTCATATTACG
Found at i:38039824 original size:31 final size:31
Alignment explanation
Indices: 38039786--38039849 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
38039776 AACATTGGTA
38039786 AAGTAATAGTTAATATATGTTTTATATTTCT
1 AAGTAATAGTTAATATATGTTTTATATTTCT
38039817 AAGTAATAGTTAATATATGTTTTATATTTCT
1 AAGTAATAGTTAATATATGTTTTATATTTCT
38039848 AA
1 AA
38039850 CTTTGTAAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.38, C:0.03, G:0.09, T:0.50
Consensus pattern (31 bp):
AAGTAATAGTTAATATATGTTTTATATTTCT
Found at i:38046700 original size:3 final size:3
Alignment explanation
Indices: 38046692--38046726 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
38046682 CTATCAAATG
38046692 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
38046727 GTCCTACAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:38048986 original size:19 final size:19
Alignment explanation
Indices: 38048930--38048986 Score: 62
Period size: 19 Copynumber: 3.0 Consensus size: 19
38048920 GCATATCACT
*
38048930 TATTCATTTCAT-TTTCTC
1 TATTCATTTCATATTTATC
* *
38048948 TTTTCATTTTCAAATTTATC
1 TATTCA-TTTCATATTTATC
*
38048968 TATTCATTTCATATCTATC
1 TATTCATTTCATATTTATC
38048987 GGTCCTTAGG
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
18 5 0.16
19 16 0.52
20 10 0.32
ACGTcount: A:0.23, C:0.19, G:0.00, T:0.58
Consensus pattern (19 bp):
TATTCATTTCATATTTATC
Found at i:38051717 original size:37 final size:38
Alignment explanation
Indices: 38051629--38051721 Score: 118
Period size: 37 Copynumber: 2.5 Consensus size: 38
38051619 CACCACTTCG
* * *
38051629 TCCACCCTACACACCACATTAGGGCTATAGTAGGCCCA
1 TCCACCCTACACACCACATTAGGACCATAGTAGGCACA
*
38051667 TCCACCCTGCACACCACA-TAGGACCAT-GATAGGCACA
1 TCCACCCTACACACCACATTAGGACCATAG-TAGGCACA
*
38051704 TCCGCCCTACACACCACA
1 TCCACCCTACACACCACA
38051722 AATGTGGAAC
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
36 1 0.02
37 30 0.62
38 17 0.35
ACGTcount: A:0.30, C:0.41, G:0.14, T:0.15
Consensus pattern (38 bp):
TCCACCCTACACACCACATTAGGACCATAGTAGGCACA
Found at i:38056175 original size:6 final size:6
Alignment explanation
Indices: 38056164--38056216 Score: 81
Period size: 6 Copynumber: 9.0 Consensus size: 6
38056154 ATAAATAAGA
* *
38056164 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAA AAACA- AAACAA
1 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT
38056211 AAACAT
1 AAACAT
38056217 CATCATCCCC
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
5 5 0.11
6 39 0.89
ACGTcount: A:0.72, C:0.17, G:0.00, T:0.11
Consensus pattern (6 bp):
AAACAT
Found at i:38063455 original size:40 final size:40
Alignment explanation
Indices: 38063372--38063557 Score: 243
Period size: 40 Copynumber: 4.7 Consensus size: 40
38063362 TTGAATGATG
* * * *
38063372 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
38063412 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
38063452 TCCGGGTTAAGGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
38063492 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
38063533 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
38063558 AACGAGTAGC
Statistics
Matches: 131, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
40 121 0.92
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:38063564 original size:80 final size:79
Alignment explanation
Indices: 38063425--38063590 Score: 219
Period size: 80 Copynumber: 2.1 Consensus size: 79
38063415 GGACTAAGAT
* **
38063425 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGGCCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGGCCCGAAGGCATTTGAACGAG-TAGCT
*
38063489 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAATC
* *
38063505 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCT
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGGCCCGAAGGCATTTGAACGAGTAGCT
* *
38063569 ATATCCGGTTAAATT
65 AAATCCGGTTAAATC
38063584 CCGAAGG
1 CCGAAGG
38063591 TACGTGATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
79 16 0.21
80 58 0.76
81 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGGCCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAATC
Found at i:38070305 original size:50 final size:50
Alignment explanation
Indices: 38070180--38070470 Score: 402
Period size: 50 Copynumber: 5.7 Consensus size: 50
38070170 ATTTGGGTAA
* * *
38070180 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-C--CGAG---ATG
* * *
38070236 AGAGGCCCCATGTAAGACCATGTTTGGGACATGCCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
*
38070286 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
*
38070336 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* * *
38070386 ACAGGTCCCATGTAAGACCACGTCTAGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
***
38070436 AGAGGTCCCCCATAAGACCATGTCTGGGACATGGC
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGC
38070471 ATGGGCACTT
Statistics
Matches: 213, Mismatches: 22, Indels: 6
0.88 0.09 0.02
Matches are distributed among these distances:
50 172 0.81
53 3 0.01
55 1 0.00
56 37 0.17
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:38070498 original size:150 final size:152
Alignment explanation
Indices: 38070185--38070502 Score: 424
Period size: 150 Copynumber: 2.1 Consensus size: 152
38070175 GGTAAAGAGA
* *
38070185 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGCCCCATGTA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCA-T-AG--TATGACAGGCCCCATGTA
* * * **
38070250 AGACCATGTTTGGGACATGCCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGA
62 AGACCACGTCTAGGACATGCCGTTGGCACCGAGATGAGAGGTCCCACATAAGACCATGTCTGGGA
* **
38070315 CATGGCATTGGCACCGAGATGAGAGG
127 CATGGCATGGGCACCGAGATGAGAAC
* *
38070341 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCA-AG-ATGACAGGTCCCATGTAAGAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCATAGTATGACAGGCCCCATGTAAGAC
* *
38070404 CACGTCTAGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCCATAAGACCATGTCTGGGACATG
66 CACGTCTAGGACATGCCGTTGGCACCGAGATGAGAGGTCCCACATAAGACCATGTCTGGGACATG
** *
38070469 GCATGGGCACTTATATGAGAAC
131 GCATGGGCACCGAGATGAGAAC
*
38070491 TCTCATGTAAGA
1 TCCCATGTAAGA
38070503 TCATAACTGA
Statistics
Matches: 144, Mismatches: 18, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
150 104 0.72
153 2 0.01
156 38 0.26
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.22
Consensus pattern (152 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCATAGTATGACAGGCCCCATGTAAGAC
CACGTCTAGGACATGCCGTTGGCACCGAGATGAGAGGTCCCACATAAGACCATGTCTGGGACATG
GCATGGGCACCGAGATGAGAAC
Found at i:38076604 original size:50 final size:50
Alignment explanation
Indices: 38076479--38076768 Score: 319
Period size: 50 Copynumber: 5.7 Consensus size: 50
38076469 ATTTGGGTAA
* * *
38076479 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-C--CGAG---ATG
* *
38076535 AGAGGTCCTATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
*
38076585 AGAGGTCCCACGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* * * *
38076635 AGAGGTCCCATGTAAAACCATGTCTAGGACATGGCGTCGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
*** * * * * *
38076685 AGAGGTCCCCCATAAGACCATGTTTGGGACATGGCATGGGCACCTATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** * * *
38076735 AGAACTCTCATGTAAGACCATATCTGGGATATGG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGG
38076769 AATTTGCAGT
Statistics
Matches: 202, Mismatches: 32, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
50 160 0.79
53 3 0.01
55 1 0.00
56 38 0.19
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:38081876 original size:21 final size:21
Alignment explanation
Indices: 38081799--38081877 Score: 61
Period size: 21 Copynumber: 3.8 Consensus size: 21
38081789 GCTCTCATGG
* *
38081799 GCTTCA-TTTAACTCATATGA
1 GCTTCAGTTTAACTCTTTTGA
* * * * *
38081819 GTTTCGGTTTAACCCTATTGG
1 GCTTCAGTTTAACTCTTTTGA
* * *
38081840 GTTTCCGTTCAACTCTTTTGA
1 GCTTCAGTTTAACTCTTTTGA
38081861 GCTTCAGTTTAACTCTT
1 GCTTCAGTTTAACTCTT
38081878 ATTGGGTTTT
Statistics
Matches: 43, Mismatches: 15, Indels: 1
0.73 0.25 0.02
Matches are distributed among these distances:
20 4 0.09
21 39 0.91
ACGTcount: A:0.19, C:0.22, G:0.15, T:0.44
Consensus pattern (21 bp):
GCTTCAGTTTAACTCTTTTGA
Found at i:38081907 original size:43 final size:42
Alignment explanation
Indices: 38081825--38081919 Score: 100
Period size: 43 Copynumber: 2.2 Consensus size: 42
38081815 ATGAGTTTCG
* * *
38081825 GTTTAACCCTATTGGGTTTCCGTTCAACTCTTTTGAGCTTCA
1 GTTTAACCCTATTGGGTTTCCGTTCAACTATTATAAGCTTCA
* * ** *
38081867 GTTTAACTCTTATTGGGTTTTCGTTCAGTTATTATAAGCTTCC
1 GTTTAAC-CCTATTGGGTTTCCGTTCAACTATTATAAGCTTCA
*
38081910 GTTCAACCCT
1 GTTTAACCCT
38081920 TACAGGTTTC
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
42 9 0.21
43 33 0.79
ACGTcount: A:0.18, C:0.22, G:0.16, T:0.44
Consensus pattern (42 bp):
GTTTAACCCTATTGGGTTTCCGTTCAACTATTATAAGCTTCA
Found at i:38085465 original size:15 final size:15
Alignment explanation
Indices: 38085445--38085480 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
38085435 AACATTTTGG
38085445 TTTGTACAGTAATGC
1 TTTGTACAGTAATGC
38085460 TTTGTACAGTAATGC
1 TTTGTACAGTAATGC
38085475 TTTGTA
1 TTTGTA
38085481 ACCCTAATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.25, C:0.11, G:0.19, T:0.44
Consensus pattern (15 bp):
TTTGTACAGTAATGC
Found at i:38087252 original size:17 final size:18
Alignment explanation
Indices: 38087230--38087270 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
38087220 CATTTCCTTA
*
38087230 TCATTTCCATATATCA-T
1 TCATTTACATATATCACT
*
38087247 TCATTTACATATTTCACT
1 TCATTTACATATATCACT
38087265 TCATTT
1 TCATTT
38087271 TTACATTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.27, C:0.22, G:0.00, T:0.51
Consensus pattern (18 bp):
TCATTTACATATATCACT
Found at i:38089303 original size:18 final size:18
Alignment explanation
Indices: 38089280--38089317 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
38089270 ATAGACGTTA
38089280 AATAAATATTAAAATACT
1 AATAAATATTAAAATACT
38089298 AATAAATATTAAAATACT
1 AATAAATATTAAAATACT
38089316 AA
1 AA
38089318 CTCACTTATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (18 bp):
AATAAATATTAAAATACT
Found at i:38115726 original size:27 final size:26
Alignment explanation
Indices: 38115695--38115758 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 26
38115685 TTACTCTCAA
38115695 TAAAATTTTGACGATTTCACCCCTTAG
1 TAAAATTTTGACGATTTCACCCC-TAG
* ** *
38115722 TAAAATTTTAACGATTTTGCCCCTGG
1 TAAAATTTTGACGATTTCACCCCTAG
38115748 TAAAATTTTGA
1 TAAAATTTTGA
38115759 GAAAACATGT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 12 0.38
27 20 0.62
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.39
Consensus pattern (26 bp):
TAAAATTTTGACGATTTCACCCCTAG
Found at i:38121124 original size:20 final size:21
Alignment explanation
Indices: 38121096--38121137 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
38121086 TCACTTAGTG
*
38121096 ACATTCAA-CATGAGTTCACA
1 ACATACAACCATGAGTTCACA
38121116 ACATACAACGCATGAGTTCACA
1 ACATACAAC-CATGAGTTCACA
38121138 CAACAATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
22 12 0.63
ACGTcount: A:0.40, C:0.26, G:0.12, T:0.21
Consensus pattern (21 bp):
ACATACAACCATGAGTTCACA
Found at i:38125371 original size:43 final size:42
Alignment explanation
Indices: 38125318--38125471 Score: 166
Period size: 43 Copynumber: 3.6 Consensus size: 42
38125308 CCCGAGGTGT
* *
38125318 GATTTCGTGTAAGACCATGTCTGGGACATTGGCATCTATATG
1 GATTACGTGTAAGACCATATCTGGGACATTGGCATCTATATG
* *
38125360 AGATTACGTGTAAGACCATGTTTGGGACATTGGCATCGTATAT-
1 -GATTACGTGTAAGACCATATCTGGGACATTGGCATC-TATATG
* * * * * * *
38125403 GATTTCATATAAAACCCTATCTGGGACAGTGGCATCGATATG
1 GATTACGTGTAAGACCATATCTGGGACATTGGCATCTATATG
*
38125445 TGATAACGTGTAAGACCATATCTGGGA
1 -GATTACGTGTAAGACCATATCTGGGA
38125472 TATGACATTG
Statistics
Matches: 91, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
41 4 0.04
42 28 0.31
43 54 0.59
44 5 0.05
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.31
Consensus pattern (42 bp):
GATTACGTGTAAGACCATATCTGGGACATTGGCATCTATATG
Found at i:38139682 original size:18 final size:18
Alignment explanation
Indices: 38139657--38139713 Score: 96
Period size: 18 Copynumber: 3.2 Consensus size: 18
38139647 GATGGGGTAA
38139657 CAGGCCTAGTGATTACTC
1 CAGGCCTAGTGATTACTC
*
38139675 CCGGCCTAGTGATTACTC
1 CAGGCCTAGTGATTACTC
*
38139693 CAGGCCAAGTGATTACTC
1 CAGGCCTAGTGATTACTC
38139711 CAG
1 CAG
38139714 ATGGGGTTCT
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:0.23, C:0.30, G:0.23, T:0.25
Consensus pattern (18 bp):
CAGGCCTAGTGATTACTC
Found at i:38144717 original size:19 final size:19
Alignment explanation
Indices: 38144693--38144730 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
38144683 TGATATAAGC
*
38144693 AAAATATATTAAAATAGGT
1 AAAATATAATAAAATAGGT
38144712 AAAATATAATAAAATAGGT
1 AAAATATAATAAAATAGGT
38144731 TTTTCCCCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.11, T:0.29
Consensus pattern (19 bp):
AAAATATAATAAAATAGGT
Found at i:38144983 original size:5 final size:6
Alignment explanation
Indices: 38144965--38144992 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
38144955 ATTCGGGGTT
38144965 AATAAA AATAAA AATAAA AATAAA AATA
1 AATAAA AATAAA AATAAA AATAAA AATA
38144993 TATTATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (6 bp):
AATAAA
Found at i:38147277 original size:20 final size:21
Alignment explanation
Indices: 38147252--38147293 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
38147242 TTCGTCTATT
38147252 TATTTATTTATTA-TT-TTAAA
1 TATTTATTT-TTAGTTCTTAAA
38147272 TATTTATTTTTAGTTCTTAAA
1 TATTTATTTTTAGTTCTTAAA
38147293 T
1 T
38147294 TTCTTCTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 3 0.15
20 11 0.55
21 6 0.30
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (21 bp):
TATTTATTTTTAGTTCTTAAA
Found at i:38150701 original size:20 final size:20
Alignment explanation
Indices: 38150676--38150775 Score: 114
Period size: 20 Copynumber: 5.0 Consensus size: 20
38150666 ATAGATGTGT
38150676 AACAGAGGCACCGAAGTGCA
1 AACAGAGGCACCGAAGTGCA
*
38150696 AACAGAGGCA-CGATTGTGCA
1 AACAGAGGCACCGA-AGTGCA
* *
38150716 ATCAGAGGCACCAAAGTGCA
1 AACAGAGGCACCGAAGTGCA
* *
38150736 AACAGAGACACCGAAGTG-T
1 AACAGAGGCACCGAAGTGCA
* *
38150755 GACAGAGGCACTGAAGTGCA
1 AACAGAGGCACCGAAGTGCA
38150775 A
1 A
38150776 TCCTGTACAA
Statistics
Matches: 64, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
19 18 0.28
20 44 0.69
21 2 0.03
ACGTcount: A:0.39, C:0.22, G:0.29, T:0.10
Consensus pattern (20 bp):
AACAGAGGCACCGAAGTGCA
Found at i:38151332 original size:29 final size:30
Alignment explanation
Indices: 38151276--38151342 Score: 75
Period size: 29 Copynumber: 2.2 Consensus size: 30
38151266 ATGTATATGG
*
38151276 CCCTTAAATTTTCATTAATTACATATTT-T
1 CCCTAAAATTTTCATTAATTACATATTTAT
**
38151305 CCCTAAAATTTTACATTTTTTACA-ATTTAGT
1 CCCTAAAATTTT-CATTAATTACATATTTA-T
38151336 CCCTAAA
1 CCCTAAA
38151343 TTTAAAATCT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 15 0.47
30 9 0.28
31 8 0.25
ACGTcount: A:0.33, C:0.19, G:0.01, T:0.46
Consensus pattern (30 bp):
CCCTAAAATTTTCATTAATTACATATTTAT
Found at i:38151344 original size:30 final size:28
Alignment explanation
Indices: 38151280--38151345 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 28
38151270 ATATGGCCCT
38151280 TAAATTTTCATTAATTACATATTTTCCC
1 TAAATTTTCATTAATTACATATTTTCCC
**
38151308 TAAAATTTTACATTTTTTACA-ATTTAGTCCC
1 T-AAATTTT-CATTAATTACATATTT--TCCC
38151339 TAAATTT
1 TAAATTT
38151346 AAAATCTCCA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
28 1 0.03
29 11 0.34
30 15 0.47
31 5 0.16
ACGTcount: A:0.33, C:0.15, G:0.02, T:0.50
Consensus pattern (28 bp):
TAAATTTTCATTAATTACATATTTTCCC
Found at i:38156737 original size:19 final size:19
Alignment explanation
Indices: 38156710--38156802 Score: 68
Period size: 19 Copynumber: 5.1 Consensus size: 19
38156700 ATATTCCAGC
*
38156710 AACTAAATTAACTAAGATG
1 AACTTAATTAACTAAGATG
*
38156729 AACTTAATTAACTAAGGTG
1 AACTTAATTAACTAAGATG
* * * * *
38156748 -A-GTAATTTATTCCAG--C
1 AACTTAATTAACT-AAGATG
*
38156764 AACTTAATTAAATAAGATG
1 AACTTAATTAACTAAGATG
*
38156783 AACTCAATTAACTAAGATG
1 AACTTAATTAACTAAGATG
38156802 A
1 A
38156803 GTAATTTATT
Statistics
Matches: 55, Mismatches: 14, Indels: 10
0.70 0.18 0.13
Matches are distributed among these distances:
17 10 0.18
18 10 0.18
19 35 0.64
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.30
Consensus pattern (19 bp):
AACTTAATTAACTAAGATG
Found at i:38156763 original size:54 final size:54
Alignment explanation
Indices: 38156701--38156825 Score: 214
Period size: 54 Copynumber: 2.3 Consensus size: 54
38156691 CAACAATAAA
* * *
38156701 TATTCCAGCAACTAAATTAACTAAGATGAACTTAATTAACTAAGGTGAGTAATT
1 TATTCCAGCAACTAAATTAAATAAGATGAACTCAATTAACTAAGATGAGTAATT
*
38156755 TATTCCAGCAACTTAATTAAATAAGATGAACTCAATTAACTAAGATGAGTAATT
1 TATTCCAGCAACTAAATTAAATAAGATGAACTCAATTAACTAAGATGAGTAATT
38156809 TATTCCAGCAACTAAAT
1 TATTCCAGCAACTAAAT
38156826 ACTTATTCAT
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 66 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.31
Consensus pattern (54 bp):
TATTCCAGCAACTAAATTAAATAAGATGAACTCAATTAACTAAGATGAGTAATT
Found at i:38167817 original size:16 final size:16
Alignment explanation
Indices: 38167796--38167826 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
38167786 TTCACTATCA
*
38167796 TGTCTTTTGTATTTTC
1 TGTCTTTTATATTTTC
38167812 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
38167827 GTATGCATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:38186851 original size:25 final size:25
Alignment explanation
Indices: 38186823--38186918 Score: 106
Period size: 25 Copynumber: 3.9 Consensus size: 25
38186813 TAGATCGTAT
* **
38186823 GAGCTTACTATTATTCAGCTTGGAG
1 GAGCTTACCATTATTCAGCTCAGAG
38186848 GAGCTTACCATTATTCAGCTCAGAG
1 GAGCTTACCATTATTCAGCTCAGAG
* * *
38186873 GAGCTTACCAATGTTCAGCTCGGAAG
1 GAGCTTACCATTATTCAGCTCAG-AG
*
38186899 G-GCTTACCATT-TTAAGCTCA
1 GAGCTTACCATTATTCAGCTCA
38186919 TATGAGCATA
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
24 7 0.11
25 51 0.84
26 3 0.05
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (25 bp):
GAGCTTACCATTATTCAGCTCAGAG
Found at i:38186879 original size:50 final size:49
Alignment explanation
Indices: 38186823--38186918 Score: 122
Period size: 50 Copynumber: 1.9 Consensus size: 49
38186813 TAGATCGTAT
* * * *
38186823 GAGCTTACTATTATTCAGCTTGG-AGGAGCTTACCATTATTCAGCTCAGAG
1 GAGCTTACCAATATTCAGCTCGGAAGG-GCTTACCATT-TTAAGCTCAGAG
*
38186873 GAGCTTACCAATGTTCAGCTCGGAAGGGCTTACCATTTTAAGCTCA
1 GAGCTTACCAATATTCAGCTCGGAAGGGCTTACCATTTTAAGCTCA
38186919 TATGAGCATA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
49 8 0.20
50 29 0.73
51 3 0.08
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (49 bp):
GAGCTTACCAATATTCAGCTCGGAAGGGCTTACCATTTTAAGCTCAGAG
Found at i:38190825 original size:29 final size:29
Alignment explanation
Indices: 38190783--38190899 Score: 234
Period size: 29 Copynumber: 4.0 Consensus size: 29
38190773 ATAAAACACC
38190783 TAGAATGGAAAATATTGGTCCTTTGGTTA
1 TAGAATGGAAAATATTGGTCCTTTGGTTA
38190812 TAGAATGGAAAATATTGGTCCTTTGGTTA
1 TAGAATGGAAAATATTGGTCCTTTGGTTA
38190841 TAGAATGGAAAATATTGGTCCTTTGGTTA
1 TAGAATGGAAAATATTGGTCCTTTGGTTA
38190870 TAGAATGGAAAATATTGGTCCTTTGGTTA
1 TAGAATGGAAAATATTGGTCCTTTGGTTA
38190899 T
1 T
38190900 CAAAATCGTC
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 88 1.00
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.38
Consensus pattern (29 bp):
TAGAATGGAAAATATTGGTCCTTTGGTTA
Found at i:38197642 original size:12 final size:11
Alignment explanation
Indices: 38197615--38197655 Score: 57
Period size: 12 Copynumber: 3.7 Consensus size: 11
38197605 AAAATAACTC
38197615 AAAATTAA-TA
1 AAAATTAATTA
38197625 AAAATTAATTA
1 AAAATTAATTA
38197636 TAAAATTAATTA
1 -AAAATTAATTA
*
38197648 AAATTTAA
1 AAAATTAA
38197656 CATGTTAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
10 8 0.29
11 9 0.32
12 11 0.39
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
AAAATTAATTA
Found at i:38202772 original size:43 final size:42
Alignment explanation
Indices: 38202677--38202802 Score: 132
Period size: 43 Copynumber: 3.0 Consensus size: 42
38202667 CGTACAATGC
* *
38202677 CAACGTCCCTGACGTGGTCTTACATGTAAACACATATCGATG
1 CAACGTCCCAGACGTGGTCTTACACGTAAACACATATCGATG
* * *
38202719 CCACTATCCCAGACAG-GGTTTTACACGTAAACACA-AGTCGATG
1 CAAC-GTCCCAGAC-GTGGTCTTACACGTAAACACATA-TCGATG
*
38202762 CAAACGTCCCAGACGTGGTCTTACACG-ATAACACATCTCGA
1 C-AACGTCCCAGACGTGGTCTTACACGTA-AACACATATCGA
38202803 AAATTCTATG
Statistics
Matches: 68, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
42 6 0.09
43 59 0.87
44 3 0.04
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (42 bp):
CAACGTCCCAGACGTGGTCTTACACGTAAACACATATCGATG
Found at i:38203955 original size:14 final size:15
Alignment explanation
Indices: 38203936--38203964 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
38203926 TCACAAAACT
38203936 TTCACACAT-ATAAA
1 TTCACACATAATAAA
38203950 TTCACACATAATAAA
1 TTCACACATAATAAA
38203965 CATAGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:38215017 original size:16 final size:16
Alignment explanation
Indices: 38214993--38215025 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
38214983 AAAGTTGATA
*
38214993 ATAATTAATATATATT
1 ATAAATAATATATATT
38215009 ATAAATAATATATATT
1 ATAAATAATATATATT
38215025 A
1 A
38215026 ATTATTATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
ATAAATAATATATATT
Found at i:38215144 original size:29 final size:29
Alignment explanation
Indices: 38215089--38215145 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
38215079 CATTTTTAAA
* * *
38215089 AATATTTACAAAAAGAGATAGCTAATTTC
1 AATATTTACAAAAAGAGAAACCAAATTTC
38215118 AATATTTACAAAAAGA-ACAACCAAATTT
1 AATATTTACAAAAAGAGA-AACCAAATTT
38215146 TGCAAATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 1 0.04
29 23 0.96
ACGTcount: A:0.53, C:0.12, G:0.07, T:0.28
Consensus pattern (29 bp):
AATATTTACAAAAAGAGAAACCAAATTTC
Found at i:38216641 original size:17 final size:17
Alignment explanation
Indices: 38216605--38216651 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
38216595 CATTGTCCCC
* *
38216605 AATGCACTAAC-ATTAA
1 AATGCAATAACAATAAA
*
38216621 AATGCAATCACAATAAA
1 AATGCAATAACAATAAA
38216638 AATGCAATAACAAT
1 AATGCAATAACAAT
38216652 GTGCACTAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
16 9 0.35
17 17 0.65
ACGTcount: A:0.55, C:0.17, G:0.06, T:0.21
Consensus pattern (17 bp):
AATGCAATAACAATAAA
Found at i:38218453 original size:21 final size:21
Alignment explanation
Indices: 38218423--38218480 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
38218413 GTTCTAAACA
38218423 AAAACCCATAAGGGTTGAACG
1 AAAACCCATAAGGGTTGAACG
* * * * *
38218444 GAAGCTCATAAGAGCTGAACG
1 AAAACCCATAAGGGTTGAACG
38218465 AAAACCCATAAGGGTT
1 AAAACCCATAAGGGTT
38218481 AAAGTAAAGC
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.41, C:0.19, G:0.24, T:0.16
Consensus pattern (21 bp):
AAAACCCATAAGGGTTGAACG
Found at i:38218469 original size:42 final size:42
Alignment explanation
Indices: 38218423--38218550 Score: 136
Period size: 42 Copynumber: 3.0 Consensus size: 42
38218413 GTTCTAAACA
* *
38218423 AAAACCCATAAGGGTTGAACGGAAGCTCATAAGAGCTGAAC-G
1 AAAACCCATAAGGGTT-AACGAAAGCTCATAAGAGCTAAACTG
* *
38218465 AAAACCCATAAGGGTTAAAGTAAAGCTCAAAAGAGCTAAACTG
1 AAAACCCATAAGGGTTAACG-AAAGCTCATAAGAGCTAAACTG
* * * *
38218508 -AAACCCATTAGGGTTAAACGAAAACTCATATGAG-TTAACTG
1 AAAACCCATAAGGGTT-AACGAAAGCTCATAAGAGCTAAACTG
38218549 AA
1 AA
38218551 GCTTATGAGA
Statistics
Matches: 72, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
41 9 0.12
42 59 0.82
43 4 0.06
ACGTcount: A:0.45, C:0.17, G:0.20, T:0.18
Consensus pattern (42 bp):
AAAACCCATAAGGGTTAACGAAAGCTCATAAGAGCTAAACTG
Found at i:38226529 original size:23 final size:23
Alignment explanation
Indices: 38226499--38226545 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
38226489 TCTAATTTTG
38226499 GTGTAGATGCATCTGACTTTATT
1 GTGTAGATGCATCTGACTTTATT
38226522 GTGTAGATGCATCTGACTTTATT
1 GTGTAGATGCATCTGACTTTATT
38226545 G
1 G
38226546 GAATTCAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.21, C:0.13, G:0.23, T:0.43
Consensus pattern (23 bp):
GTGTAGATGCATCTGACTTTATT
Found at i:38229367 original size:20 final size:20
Alignment explanation
Indices: 38229338--38229523 Score: 96
Period size: 20 Copynumber: 9.3 Consensus size: 20
38229328 AGGATTGCAT
*
38229338 TTCGATGCCTCTGTTTTCAC
1 TTCGATGCCTCTGATTTCAC
* * *
38229358 TTCGACGCCTCTGATTGCAT
1 TTCGATGCCTCTGATTTCAC
* *
38229378 TTCAATGCCTCTGATTTCAT
1 TTCGATGCCTCTGATTTCAC
*
38229398 TTCGGTGCCTCTG-TTTACAC
1 TTCGATGCCTCTGATTT-CAC
* * * *
38229418 TTTGGTGCCTCTAATTGT-GC
1 TTCGATGCCTCTGATT-TCAC
* * **
38229438 TTCGGTGCCTCTGATTACGG
1 TTCGATGCCTCTGATTTCAC
* *
38229458 TTC-AGTGCCTCTAATTAT-GC
1 TTCGA-TGCCTCTGATT-TCAC
*
38229478 TTCGGTGCCTCTG-TTTGCAC
1 TTCGATGCCTCTGATTT-CAC
* *
38229498 TTCGGTGGCTCT-ATTTTCAC
1 TTCGATGCCTCTGA-TTTCAC
38229518 TTCGAT
1 TTCGAT
38229524 ACTCTCTGGT
Statistics
Matches: 129, Mismatches: 26, Indels: 22
0.73 0.15 0.12
Matches are distributed among these distances:
18 1 0.01
19 5 0.04
20 117 0.91
21 5 0.04
22 1 0.01
ACGTcount: A:0.12, C:0.26, G:0.20, T:0.41
Consensus pattern (20 bp):
TTCGATGCCTCTGATTTCAC
Found at i:38229521 original size:40 final size:41
Alignment explanation
Indices: 38229330--38229521 Score: 142
Period size: 40 Copynumber: 4.8 Consensus size: 41
38229320 GCTTGTATAG
* * * **
38229330 GATTGCATTTCGATGCCTCT-GTTTTCACTTCGACGCCTCT
1 GATTGCACTTCGGTGCCTCTAATTTTCACTTCGGTGCCTCT
* ** * *
38229370 GATTGCATTTCAATGCCTCTGA-TTTCATTTCGGTGCCTCT
1 GATTGCACTTCGGTGCCTCTAATTTTCACTTCGGTGCCTCT
* * * * *
38229410 GTTTACACTTTGGTGCCTCTAATTGT-GCTTCGGTGCCTCT
1 GATTGCACTTCGGTGCCTCTAATTTTCACTTCGGTGCCTCT
* ** * * *
38229450 GATTACGGTTCAGTGCCTCTAATTAT-GCTTCGGTGCCTCT
1 GATTGCACTTCGGTGCCTCTAATTTTCACTTCGGTGCCTCT
* *
38229490 GTTTGCACTTCGGTGGCTCT-ATTTTCACTTCG
1 GATTGCACTTCGGTGCCTCTAATTTTCACTTCG
38229522 ATACTCTCTG
Statistics
Matches: 120, Mismatches: 29, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
39 4 0.03
40 114 0.95
41 2 0.02
ACGTcount: A:0.12, C:0.26, G:0.20, T:0.41
Consensus pattern (41 bp):
GATTGCACTTCGGTGCCTCTAATTTTCACTTCGGTGCCTCT
Found at i:38238446 original size:18 final size:19
Alignment explanation
Indices: 38238384--38238444 Score: 88
Period size: 19 Copynumber: 3.2 Consensus size: 19
38238374 AAAAATTACA
*
38238384 AAAAAATTAAAATAATTTT
1 AAAAATTTAAAATAATTTT
*
38238403 AAAAATTCAAAATAATTTT
1 AAAAATTTAAAATAATTTT
38238422 AAAAATTTAAAAT-ATTTAT
1 AAAAATTTAAAATAATTT-T
38238441 AAAA
1 AAAA
38238445 TTCCAAATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
18 4 0.11
19 34 0.89
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAAATTTAAAATAATTTT
Found at i:38238452 original size:18 final size:18
Alignment explanation
Indices: 38238386--38238458 Score: 64
Period size: 19 Copynumber: 4.1 Consensus size: 18
38238376 AAATTACAAA
38238386 AAAATT-AAAATAATTT-T
1 AAAATTCAAAAT-ATTTAT
38238403 AAAAATTCAAAATAATTT-T
1 -AAAATTCAAAAT-ATTTAT
*
38238422 AAAAATTTAAAATATTTAT
1 -AAAATTCAAAATATTTAT
*
38238441 AAAATTCCAAAT-TTTAT
1 AAAATTCAAAATATTTAT
38238458 A
1 A
38238459 TTTTTTCAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.12
18 20 0.40
19 24 0.48
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (18 bp):
AAAATTCAAAATATTTAT
Found at i:38238456 original size:17 final size:17
Alignment explanation
Indices: 38238397--38238458 Score: 56
Period size: 18 Copynumber: 3.5 Consensus size: 17
38238387 AAATTAAAAT
38238397 AATTTTA-AAAATTCAA
1 AATTTTATAAAATTCAA
*
38238413 AATAATTT-TAAAAATTTAA
1 AAT--TTTAT-AAAATTCAA
*
38238432 AATATTTATAAAATTCCA
1 AAT-TTTATAAAATTCAA
38238450 AATTTTATA
1 AATTTTATA
38238459 TTTTTTCAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
16 3 0.08
17 6 0.16
18 17 0.45
19 12 0.32
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (17 bp):
AATTTTATAAAATTCAA
Found at i:38238488 original size:18 final size:18
Alignment explanation
Indices: 38238454--38238490 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
38238444 ATTCCAAATT
38238454 TTATATTTTTTCAAAAAA
1 TTATATTTTTTCAAAAAA
*
38238472 TTATGATTTTTTTAAAAAA
1 TTAT-ATTTTTTCAAAAAA
38238491 ATTCTAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (18 bp):
TTATATTTTTTCAAAAAA
Found at i:38239040 original size:44 final size:44
Alignment explanation
Indices: 38238955--38239040 Score: 113
Period size: 44 Copynumber: 1.9 Consensus size: 44
38238945 ATAAGTAGAA
*
38238955 ATTAAATTTTAATATTTTAAATATGTAATAATTATCACAACTCTG
1 ATTAAATTATAATATTTTAAATA-GTAATAATTATCACAACTCTG
*
38239000 ATTAAATTATAATTATTTTTAAATA-T-ATAATTATCTCAACT
1 ATTAAATTATAA-TA-TTTTAAATAGTAATAATTATCACAACT
38239041 TCTATTTTAC
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
44 14 0.38
45 12 0.32
46 2 0.05
47 9 0.24
ACGTcount: A:0.43, C:0.08, G:0.02, T:0.47
Consensus pattern (44 bp):
ATTAAATTATAATATTTTAAATAGTAATAATTATCACAACTCTG
Found at i:38242697 original size:14 final size:15
Alignment explanation
Indices: 38242678--38242707 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
38242668 TAAAGAAAAG
38242678 AAATAAATAAA-GAA
1 AAATAAATAAACGAA
38242692 AAATAAATAAACGAA
1 AAATAAATAAACGAA
38242707 A
1 A
38242708 TAAATTGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.77, C:0.03, G:0.07, T:0.13
Consensus pattern (15 bp):
AAATAAATAAACGAA
Found at i:38242712 original size:17 final size:16
Alignment explanation
Indices: 38242657--38242712 Score: 62
Period size: 17 Copynumber: 3.5 Consensus size: 16
38242647 AAGGGAATAC
*
38242657 AAATAAATAACTAAAG
1 AAATAAATAAATAAAG
*
38242673 AAAAGAAATAAATAAAG
1 -AAATAAATAAATAAAG
38242690 -AA-AAATAAATAAACG
1 AAATAAATAAATAAA-G
38242705 AAATAAAT
1 AAATAAAT
38242713 TGATAAACCA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
14 11 0.32
15 3 0.09
16 2 0.06
17 18 0.53
ACGTcount: A:0.73, C:0.04, G:0.07, T:0.16
Consensus pattern (16 bp):
AAATAAATAAATAAAG
Found at i:38244439 original size:25 final size:25
Alignment explanation
Indices: 38244382--38244432 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
38244372 TATAATTTCA
38244382 ACGATTGGTTTGAAATCATAAGTGG
1 ACGATTGGTTTGAAATCATAAGTGG
38244407 ACGATTGGTTTGAAATCATAAGTGG
1 ACGATTGGTTTGAAATCATAAGTGG
38244432 A
1 A
38244433 TGTTTGGGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.33, C:0.08, G:0.27, T:0.31
Consensus pattern (25 bp):
ACGATTGGTTTGAAATCATAAGTGG
Found at i:38250087 original size:40 final size:40
Alignment explanation
Indices: 38250043--38250306 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
38250033 GCTCCTCGTT
* *
38250043 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
38250083 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
38250123 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
38250163 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
38250203 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
38250242 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAAC-TCGCA
38250283 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
38250307 CATCATTCAA
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
38 2 0.01
39 49 0.24
40 146 0.71
41 9 0.04
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:38259868 original size:40 final size:40
Alignment explanation
Indices: 38259824--38260085 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
38259814 GCTCCTCGTT
* *
38259824 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
38259864 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
38259904 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
38259943 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
38259982 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
38260021 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
38260062 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
38260086 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:38270991 original size:12 final size:11
Alignment explanation
Indices: 38270964--38271001 Score: 53
Period size: 10 Copynumber: 3.5 Consensus size: 11
38270954 GAAAATAGTC
38270964 AAAATTAATA-
1 AAAATTAATAT
38270974 AAAATTAACTAT
1 AAAATTAA-TAT
38270986 AAAATTAAT-T
1 AAAATTAATAT
38270996 AAAATT
1 AAAATT
38271002 CATCATGTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 15 0.58
11 3 0.12
12 8 0.31
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (11 bp):
AAAATTAATAT
Found at i:38276640 original size:8 final size:8
Alignment explanation
Indices: 38276627--38276651 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
38276617 ATAAGGAGTG
38276627 AAGTGGTT
1 AAGTGGTT
38276635 AAGTGGTT
1 AAGTGGTT
38276643 AAGTGGTT
1 AAGTGGTT
38276651 A
1 A
38276652 GGAGTTGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.36, T:0.36
Consensus pattern (8 bp):
AAGTGGTT
Found at i:38277949 original size:17 final size:17
Alignment explanation
Indices: 38277929--38277973 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
38277919 AGAGAAGTGG
*
38277929 CATTGTAAGAACGTTTA
1 CATTGCAAGAACGTTTA
*
38277946 CATTGCCAGAACGTTTA
1 CATTGCAAGAACGTTTA
*
38277963 CATTGCCAGAA
1 CATTGCAAGAA
38277974 AGACAACTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (17 bp):
CATTGCAAGAACGTTTA
Found at i:38288716 original size:79 final size:82
Alignment explanation
Indices: 38288605--38288789 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
38288595 GCTACTCGTT
* *
38288605 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
38288668 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
38288685 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
38288748 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
38288765 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
38288790 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:38288789 original size:40 final size:40
Alignment explanation
Indices: 38288586--38288789 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
38288576 CGGAATTTAA
** *
38288586 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
38288626 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
38288666 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
38288705 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
38288745 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
38288785 CCGGA
1 CCGGA
38288790 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:38298465 original size:45 final size:45
Alignment explanation
Indices: 38298333--38298509 Score: 198
Period size: 45 Copynumber: 4.0 Consensus size: 45
38298323 ACAGGTACAT
* * * *
38298333 GGTGG-ATCAGCACATAGC-ACCACCCTTATAGTCAATGATACTC
1 GGTGGAATCAGCACACAGCAACCACCTTTATAATCAATGATACCC
** * * *
38298376 GGTGGAATCAAAACATAGCAACCACCTTCATAATCAGT-AGTACCC
1 GGTGGAATCAGCACACAGCAACCACCTTTATAATCAATGA-TACCC
38298421 GGTGGAATCAGCACACAGCAACCACCTTTATAATCAATGATACCC
1 GGTGGAATCAGCACACAGCAACCACCTTTATAATCAATGATACCC
* * * * *
38298466 GATGGAGTCAGCACACAACAACCACATTTATAATCAATGGTACC
1 GGTGGAATCAGCACACAGCAACCACCTTTATAATCAATGATACC
38298510 GGGTAACGTA
Statistics
Matches: 113, Mismatches: 17, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
43 5 0.04
44 12 0.11
45 95 0.84
46 1 0.01
ACGTcount: A:0.36, C:0.27, G:0.16, T:0.21
Consensus pattern (45 bp):
GGTGGAATCAGCACACAGCAACCACCTTTATAATCAATGATACCC
Found at i:38304269 original size:17 final size:17
Alignment explanation
Indices: 38304247--38304279 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
38304237 GATCTCCGAG
38304247 GAGCTTCTAACCTGATT
1 GAGCTTCTAACCTGATT
38304264 GAGCTTCTAACCTGAT
1 GAGCTTCTAACCTGAT
38304280 CAAGCTTTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.33
Consensus pattern (17 bp):
GAGCTTCTAACCTGATT
Found at i:38304285 original size:17 final size:17
Alignment explanation
Indices: 38304248--38304286 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
38304238 ATCTCCGAGG
**
38304248 AGCTTCTAACCTGATTG
1 AGCTTCTAACCTGATCA
38304265 AGCTTCTAACCTGATCA
1 AGCTTCTAACCTGATCA
38304282 AGCTT
1 AGCTT
38304287 TCGATAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (17 bp):
AGCTTCTAACCTGATCA
Found at i:38306763 original size:79 final size:82
Alignment explanation
Indices: 38306652--38306836 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
38306642 GCTACTCGTT
* *
38306652 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
38306715 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
38306732 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
38306795 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
38306812 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
38306837 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:38306836 original size:40 final size:40
Alignment explanation
Indices: 38306633--38306836 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
38306623 CGGAATTTAA
** *
38306633 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
38306673 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
38306713 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
38306752 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
38306792 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
38306832 CCGGA
1 CCGGA
38306837 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:38313230 original size:27 final size:27
Alignment explanation
Indices: 38313176--38313230 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
38313166 GCATTATTTC
* *
38313176 TTCAGAGTTCACCATATGTACTATTCT
1 TTCAGAGTTCACCATATGTACCACTCT
** *
38313203 TTCAGAGTTTGCCATATTTACCACTCT
1 TTCAGAGTTCACCATATGTACCACTCT
38313230 T
1 T
38313231 CTCTTTCAGG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.24, C:0.24, G:0.11, T:0.42
Consensus pattern (27 bp):
TTCAGAGTTCACCATATGTACCACTCT
Found at i:38313349 original size:27 final size:27
Alignment explanation
Indices: 38313300--38313426 Score: 148
Period size: 27 Copynumber: 4.7 Consensus size: 27
38313290 CTAGAATGCA
* *
38313300 CCACAAAGGAGTTCC-TTTCCATAGATCG
1 CCACAAAGG-CTTCCATTT-CATAGATTG
*
38313328 CCACAAAGCCTTCCATTTCATAGATTG
1 CCACAAAGGCTTCCATTTCATAGATTG
* *
38313355 CCACGAAGGCTTCCATTTCATAGAATG
1 CCACAAAGGCTTCCATTTCATAGATTG
* * * *
38313382 TCACAAAGGCTTCCAATTCACAAATTG
1 CCACAAAGGCTTCCATTTCATAGATTG
38313409 CCACAAAGGCTTCCATTT
1 CCACAAAGGCTTCCATTT
38313427 TTTTGGTGTG
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
27 73 0.87
28 11 0.13
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (27 bp):
CCACAAAGGCTTCCATTTCATAGATTG
Found at i:38315942 original size:10 final size:10
Alignment explanation
Indices: 38315919--38315948 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
38315909 CATATTGAAC
38315919 ATATTTTCACA
1 ATATTTT-ACA
38315930 ATATTTTACA
1 ATATTTTACA
38315940 ATATTTTAC
1 ATATTTTAC
38315949 CAAGGGTAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 12 0.63
11 7 0.37
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (10 bp):
ATATTTTACA
Found at i:38322594 original size:6 final size:6
Alignment explanation
Indices: 38322583--38322627 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
38322573 AGGTTTTTAA
* * *
38322583 AAATGG AAATGG AAATGG AAACGA AAATGA AAATGG AAATGG AAA
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAA
38322628 CTTGCAATCC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.58, C:0.02, G:0.27, T:0.13
Consensus pattern (6 bp):
AAATGG
Found at i:38322616 original size:24 final size:24
Alignment explanation
Indices: 38322582--38322628 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
38322572 TAGGTTTTTA
*
38322582 AAAATGGAAATGGAAATGGAAACG
1 AAAATGAAAATGGAAATGGAAACG
38322606 AAAATGAAAATGGAAATGGAAAC
1 AAAATGAAAATGGAAATGGAAAC
38322629 TTGCAATCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.57, C:0.04, G:0.26, T:0.13
Consensus pattern (24 bp):
AAAATGAAAATGGAAATGGAAACG
Done.