Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold39
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: 4724573
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 178835 characters in sequence are not A, C, G, or T
File 26 of 27
Found at i:4405201 original size:23 final size:21
Alignment explanation
Indices: 4405152--4405201 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 21
4405142 TGTAAAAGGA
* *
4405152 AAAAAAACAACAAAAAAAA-T
1 AAAAAAACAAAAAAAAAAAGC
4405172 AAAAAAACAAAAACAAAAAAGC
1 AAAAAAACAAAAA-AAAAAAGC
4405194 AAACAAAA
1 AAA-AAAA
4405202 AATAATGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 12 0.48
21 6 0.24
22 3 0.12
23 4 0.16
ACGTcount: A:0.84, C:0.12, G:0.02, T:0.02
Consensus pattern (21 bp):
AAAAAAACAAAAAAAAAAAGC
Found at i:4405201 original size:26 final size:26
Alignment explanation
Indices: 4405154--4405203 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
4405144 TAAAAGGAAA
*
4405154 AAAAACAACAAAAAAAATAAAAAAAC
1 AAAAACAACAAAAAAAACAAAAAAAC
*
4405180 AAAAACAA-AAAAGCAAACAAAAAA
1 AAAAACAACAAAA-AAAACAAAAAA
4405204 TAATGAAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.84, C:0.12, G:0.02, T:0.02
Consensus pattern (26 bp):
AAAAACAACAAAAAAAACAAAAAAAC
Found at i:4405203 original size:14 final size:12
Alignment explanation
Indices: 4405151--4405203 Score: 54
Period size: 12 Copynumber: 4.5 Consensus size: 12
4405141 ATGTAAAAGG
*
4405151 AAAAAAAACAAC
1 AAAAAAAAAAAC
*
4405163 AAAAAAAATAA-
1 AAAAAAAAAAAC
*
4405174 AAAAACAAAAAC
1 AAAAAAAAAAAC
**
4405186 AAAAAAGCAAAC
1 AAAAAAAAAAAC
4405198 AAAAAA
1 AAAAAA
4405204 TAATGAAATG
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
11 9 0.26
12 25 0.74
ACGTcount: A:0.85, C:0.11, G:0.02, T:0.02
Consensus pattern (12 bp):
AAAAAAAAAAAC
Found at i:4407023 original size:20 final size:18
Alignment explanation
Indices: 4407000--4407053 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 18
4406990 CTTCCCATGT
4407000 AAAAGAAAAAAAACAACGAA
1 AAAAGAAAAAAAA-AAC-AA
*
4407020 AAAACAAAAACAAAAACAA
1 AAAAGAAAAA-AAAAACAA
4407039 AAAAGCAAAATAAAA
1 AAAAG-AAAA-AAAA
4407054 TTAATGAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
19 6 0.21
20 19 0.66
21 4 0.14
ACGTcount: A:0.81, C:0.11, G:0.06, T:0.02
Consensus pattern (18 bp):
AAAAGAAAAAAAAAACAA
Found at i:4407761 original size:927 final size:928
Alignment explanation
Indices: 4404925--4408629 Score: 5406
Period size: 923 Copynumber: 4.0 Consensus size: 928
4404915 ACCCATGAAA
** * *
4404925 ATTCCATCAGGGTGAACT-GATACTTAAGAAGATCTTACCGATTCACAAAGATGCACGAGGTAAA
1 ATTCCATCAGGGCAAACTAG-TACTTAAGAAGATCTTATCGATTCACAAAGATGAACGAGGTAAA
* * * *
4404989 TAGACCTCTAATTGGG-AAGGCC--A-----T-AAGCAAGCATTCTCTG-GAGAAGCCTTGATCC
65 TGGACCTCCAATTGGGAAAGGCCATATGTTGTCAAGCAAGCATTCTCCGAAAG-AGCCTTGATCC
* * * * * * * *
4405044 TAGTAGAGATGGATGGTGATGTCCTACCTAATCTAGTCAACTCAAATTTTGTCAAAAAATATTAT
129 TGGCAAAGATGGATAGTGATGTCCTACCTAATCTAGTCAACTCAGATTCTATCAAGAAATATTAT
* *
4405109 GAATGAAGGATGAAAACCTAGAATGGCATCCCATGTAAAAGGAAAAAAAACAACAAAAAAAATAA
194 GCATGAAGGATGAAAACCTAGAATGGCATCCCATGTAAAA-GAAAAAAAACAAC-AAAAAAA-AC
* * * *
4405174 AAAAACAAAAACAAAAAAGCAAACAAAAAATAATGAAATGAAAATGAAAAGGGGGTCCAGATAAA
256 AAAAACAAAAACAAAAAAGCAAA-AAAAATTAATGAAATGAAAATAAAAAAGGGGTCCAGACAAA
* * * ** *
4405239 AACCAAG-AAAGGCATCTGAGCAACCCAGCTAAGGTTGAAAACCTAGAAGAAAGACTTGAGAAGG
320 AACCGAGAAAAGGCATCTGAGCAACCCAGCTAAGGTTGAAAGCCCAGAAGAGTGACTTAAGAAGG
* * *
4405303 TTAATTTTGAGGGGGCATAAATTGAAGGCATCCGCCAAATGATGCAGAGCAATCTTAGGGGTCTT
385 TTAATTTTGAGGGGGCATAAATTGAAGGCATCCACCAAATGATGTAAAGCAATCTTAGGGGTCTT
*
4405368 TTGAGGATCAGCTTACATC-AGTCATATTCATTGTTCAAGAAAGATCTTGAAA-AACATTCATGT
450 TTGAGGATCAGCTTACACCGA-TCATATTCATTGTTCAAGAAAGATCTT-AAAGAACATTCATGT
* * * * *
4405431 CATGGTTGTTAGAGGCATCCTTTGCCTAAAAGTCA-CCTTTTTGGACACTCGATCACTTGTCGGT
513 CATGATTGTTAGAGGCATCC--CGCCTAAAAGTCACCCTTTTT-GCCACCCAATCACTTGTCGGT
* * * *
4405495 GAAATAGTATACCAAATTGTATCTTTCTATTGACATGAATAAATATGACCTTGTTTCTTTTAACC
575 CAAATAATATACCAAATTGTATCTCTCTGTTGACATGAATAAATATGACCTTGTTTCTTTTAACC
*
4405560 CTTGAACAACTCACATTACATTTGTCATGTAATTGATAATGTTTCATAATTAACTAAAATATGCA
640 CTTGAACAACTCACATTACATTTGTCATGTAATTGATAATGTTTGATAATTAACTAAAATATGCA
* * *
4405625 TCAAGG-CATCTTGATATTACATCGAAAGGAATGGAAATCATAGGGAACTCTACTTATGTCCTAG
705 T-TAGGACATCTTGATATTACATCAAAAGGAATGGAAATCGTAGGGAACTCTACTTATGTCCTAG
* * **
4405689 TTTTCAAGATCATGAACCTTTCTTGTCTAAGACACCCATTCGGCATGACCATATTCCAAACCATT
769 TTTTCAAGATCATGAACCTTTCTTATCCAAGACACCCATTCGGCATGACCATACACCAAACCATT
* * * *
4405754 TCTTGCTTTTACAAGCCATATCTCAAGAAAGGA-CATTTCAAGCTAACCAAAAATTGACCCATGC
834 TCTTGCTTTTACAAGCCACATCTCAAGAAA-GACCATTTCAAGCTAACCAAAAACTGACTCGTGC
* *
4405818 GTTCAATTGTAATCCTATCAAAATCAAGGCG
898 ATTCAATCGTAATCCTATCAAAATCAAGGCG
4405849 ATTCCATCAGGGCAAACTAGTACTTAAGAAGATCTTATCGATTCACAAAGATGAACGAGGTAAAT
1 ATTCCATCAGGGCAAACTAGTACTTAAGAAGATCTTATCGATTCACAAAGATGAACGAGGTAAAT
* *
4405914 GGACCTTCAATTGGGAAAGGCCATATGTTGTCAAGCAAGCATTCTCCGGAAGAGCCTTGATCCTG
66 GGACCTCCAATTGGGAAAGGCCATATGTTGTCAAGCAAGCATTCTCCGAAAGAGCCTTGATCCTG
*
4405979 GCAAAGATGGATAGTGATGTCCTACCTAATCTAGTCAACTCAGATTCTATTAAGAAATATTATGC
131 GCAAAGATGGATAGTGATGTCCTACCTAATCTAGTCAACTCAGATTCTATCAAGAAATATTATGC
* * **
4406044 ATGAAGGATGACAACCTAGAATGGCTTCCCATGTAAAAG-AAAAAAA-AAC---AACGA-AAAAA
196 ATGAAGGATGAAAACCTAGAATGGCATCCCATGTAAAAGAAAAAAAACAACAAAAAAAACAAAAA
* *
4406103 CAAAAACAAAAAAGCAAAATAAAATTAATGAAATGAAAATAAAAAAAGGGTCCAGACAAAAACAG
261 CAAAAACAAAAAAGCAAAA-AAAATTAATGAAATGAAAATAAAAAAGGGGTCCAGACAAAAACCG
** * * *
4406168 AGAAAAGGTGTCTGAGCAACCTAGGTAAGGTTGAAAGCCCAGAAGAGTGACTTAAGAAGGTTGAT
325 AGAAAAGGCATCTGAGCAACCCAGCTAAGGTTGAAAGCCCAGAAGAGTGACTTAAGAAGGTTAAT
*
4406233 TTTGAGGGGGCATAAATTGAAGGCATCCACCAAATGATGTAAAGCAATCTTAGGTGTCTTTTGAG
390 TTTGAGGGGGCATAAATTGAAGGCATCCACCAAATGATGTAAAGCAATCTTAGGGGTCTTTTGAG
* * * *
4406298 GATTAGCTTACACCGGTCATATTCATTGTTCGAGAAAGATCTTGAAGAACATTCATGTCATGATT
455 GATCAGCTTACACCGATCATATTCATTGTTCAAGAAAGATCTTAAAGAACATTCATGTCATGATT
* * *
4406363 GTTAGAGGCATCCTGCCTAAAAGTCACCCTTTTTGCCACCCGATCACTTGTCGGTCAAATAACAT
520 GTTAGAGGCATCCCGCCTAAAAGTCACCCTTTTTGCCACCCAATCACTTGTCGGTCAAATAATAT
* * * *
4406428 ACCAAATAGTATCTCTCTGTTGACATGAATAAATATGACCTTGTTTCTTTTAACCGTTGAAAAAT
585 ACCAAATTGTATCTCTCTGTTGACATGAATAAATATGACCTTGTTTCTTTTAACCCTTGAACAAC
* *
4406493 TCACATTACATTTGTCATGTAATTGATAATGTTTGATAATGAACTAAAATATGCATTAGGACTTC
650 TCACATTACATTTGTCATGTAATTGATAATGTTTGATAATTAACTAAAATATGCATTAGGACATC
*
4406558 TTGATATTACATCAAAAGGAATGGAAATCGTAGGGAACTCTACTTATGTCCTATTTTTCAAGATC
715 TTGATATTACATCAAAAGGAATGGAAATCGTAGGGAACTCTACTTATGTCCTAGTTTTCAAGATC
* * *
4406623 ATGAACCTTTCTTATCCAAGACACCCATTTGGCATGACCATACACCAAACCATTTCTTACATTTA
780 ATGAACCTTTCTTATCCAAGACACCCATTCGGCATGACCATACACCAAACCATTTCTTGCTTTTA
* *
4406688 CAAGCCACATCTCAAGAAAGACCATTTCAAGCTAACCAAAAACTGAC-CTGTGCATTTAATCATA
845 CAAGCCACATCTCAAGAAAGACCATTTCAAGCTAACCAAAAACTGACTC-GTGCATTCAATCGTA
*
4406752 ATCCTTTCAAAATCAAGGCG
909 ATCCTATCAAAATCAAGGCG
*
4406772 ATTCCATCAGGGCAAACTAGTACTTAAGAAGATCTTATCAATTCACAAAGATGAACGAGGTAAAT
1 ATTCCATCAGGGCAAACTAGTACTTAAGAAGATCTTATCGATTCACAAAGATGAACGAGGTAAAT
* *
4406837 GGACCTCCAATTGGGAAAGGCTATATGTTGTCAAGCAAGCATTCTCTGAAAGA-CCTTGATCCTG
66 GGACCTCCAATTGGGAAAGGCCATATGTTGTCAAGCAAGCATTCTCCGAAAGAGCCTTGATCCTG
*
4406901 GCAAAGATGGATAGTGATGTCCTACCTAATCTAGTCAACTCAGATTCTATTAAGAAATATTATGC
131 GCAAAGATGGATAGTGATGTCCTACCTAATCTAGTCAACTCAGATTCTATCAAGAAATATTATGC
* * *
4406966 ATGAAGGATGACAACCTAGAATGGCTTCCCATGTAAAAGAAAAAAAACAAC-GAAAAAACAAAAA
196 ATGAAGGATGAAAACCTAGAATGGCATCCCATGTAAAAGAAAAAAAACAACAAAAAAAACAAAAA
4407030 CAAAAACAAAAAAGCAAAATAAAATTAATGAAATGAAAATAAAAAAGGGGTCCAGACAAAAACCG
261 CAAAAACAAAAAAGCAAAA-AAAATTAATGAAATGAAAATAAAAAAGGGGTCCAGACAAAAACCG
** * * *
4407095 AGAAAAGGTGTCTGAGCAACCTAGGTAAGGTTGAAAGCCCAGAAGAGTGACTTAAGAAGGTTGAT
325 AGAAAAGGCATCTGAGCAACCCAGCTAAGGTTGAAAGCCCAGAAGAGTGACTTAAGAAGGTTAAT
*
4407160 TTTGAGGGGGCATAAATTGAAGGCATCCACCAAATGATGTAAAGCAATCTTAGGTGTCTTTTGAG
390 TTTGAGGGGGCATAAATTGAAGGCATCCACCAAATGATGTAAAGCAATCTTAGGGGTCTTTTGAG
* * *
4407225 GATTAGCTTACACCGATCATATTCATTGTTCGAGAAAGATCTTAAAGAACATTCATGTCATGGTT
455 GATCAGCTTACACCGATCATATTCATTGTTCAAGAAAGATCTTAAAGAACATTCATGTCATGATT
*
4407290 GTTAGAGGCATCCCGCCTAAAAGTCACCTTTTTTGCCACCCAATCACTTGTCGGTCAAATAATAT
520 GTTAGAGGCATCCCGCCTAAAAGTCACCCTTTTTGCCACCCAATCACTTGTCGGTCAAATAATAT
4407355 ACCAAATTGTATCTCTCTGTTGACATGAATAAATATG-CCTTGTTTCTTTTAACCCTTGAACAAC
585 ACCAAATTGTATCTCTCTGTTGACATGAATAAATATGACCTTGTTTCTTTTAACCCTTGAACAAC
4407419 TCACATTACATTTGTCATGTAATTGATAATGTTTGATAATTAACTAAAATATGCATTAGGACATC
650 TCACATTACATTTGTCATGTAATTGATAATGTTTGATAATTAACTAAAATATGCATTAGGACATC
*
4407484 TTGATATTACATCAAAAGGAATGGAAATCGTAGGGAACTCTACTTATGTCCTATTTTTCAAGATC
715 TTGATATTACATCAAAAGGAATGGAAATCGTAGGGAACTCTACTTATGTCCTAGTTTTCAAGATC
* * *
4407549 ATGAACCTTTCTTATCCAAGACACCCGTTTGGCATGACCATACACCAAACCATTTCTTGCGTTTA
780 ATGAACCTTTCTTATCCAAGACACCCATTCGGCATGACCATACACCAAACCATTTCTTGCTTTTA
* *
4407614 CAAGCCACATCTCAAGAAAGACCATTTCAAGCTACCCAAAAACTGACTCGTGCATTTAATCGTAA
845 CAAGCCACATCTCAAGAAAGACCATTTCAAGCTAACCAAAAACTGACTCGTGCATTCAATCGTAA
*
4407679 TCCTTTCAAAATCAAGGCG
910 TCCTATCAAAATCAAGGCG
*
4407698 ATTCCATCATGGCAAACTAGTACTTAAGAAGATCTTATCGATTCACAAAGATGAACTGAGGTAAA
1 ATTCCATCAGGGCAAACTAGTACTTAAGAAGATCTTATCGATTCACAAAGATGAAC-GAGGTAAA
* *
4407763 TGGACCTCCAATTGGGAAGGGCCATATGTTGTCAAGCAAGCATTCTCCGGAAGAGCCTTGATCCT
65 TGGACCTCCAATTGGGAAAGGCCATATGTTGTCAAGCAAGCATTCTCCGAAAGAGCCTTGATCCT
* *
4407828 GGCAAAGATGGATAGTGATGTCCTACCTAATCCT-GTCAACTCAGATTTTGTCAAGAAATATTAT
130 GGCAAAGATGGATAGTGATGTCCTACCTAAT-CTAGTCAACTCAGATTCTATCAAGAAATATTAT
4407892 GCATGAAGGATGAAAACCTAGAATGGCATCCCATGTAAAAGAAAAAAAACCAACAAAAAAAACAA
194 GCATGAAGGATGAAAACCTAGAATGGCATCCCATGTAAAAGAAAAAAAA-CAAC----AAAA-AA
* * * * * *
4407957 AACAAAAACAAAAACCAAAAAGCCAAAAAAAA-TGATCAAATGAAAATGAAAAAGGGGTTCAGAT
253 AACAAAAACAAAAACAAAAAAG-CAAAAAAAATTAATGAAATGAAAATAAAAAAGGGGTCCAGAC
* * * * *
4408021 GAAAACTC-AGAAAGGGCATCTAAGCAACCCAACTAAGGTTGAAAGCCCAAAAGAGTGACTTGAA
317 AAAAAC-CGAGAAAAGGCATCTGAGCAACCCAGCTAAGGTTGAAAGCCCAGAAGAGTGACTT-AA
* ** * *
4408085 -AAGGTTAATTTTGAGGGGGCATAAATTGAAGGCATTCGTCAAATGATG-CAGGCCAATCTTAGG
380 GAAGGTTAATTTTGAGGGGGCATAAATTGAAGGCATCCACCAAATGATGTAAAG-CAATCTTAGG
** * * * *
4408148 GGTCTTCCGAGGATCAGTTTACACCGGTCATATTCATTGTTCAAGAAAGATCTTGAAGAGCATTC
444 GGTCTTTTGAGGATCAGCTTACACCGATCATATTCATTGTTCAAGAAAGATCTTAAAGAACATTC
** **
4408213 ATGTCATGATTGTTAGAGGCATCCCGCCTAAAAGTCACCCTTTTTGCCATTCAATCACTTGTTAG
509 ATGTCATGATTGTTAGAGGCATCCCGCCTAAAAGTCACCCTTTTTGCCACCCAATCACTTGTCGG
* * *
4408278 TCAAATAGTATACCAAATTGTATCTTTCTGTTAACATGAATAAATATGACCTTGTTTCTTTTAAC
574 TCAAATAATATACCAAATTGTATCTCTCTGTTGACATGAATAAATATGACCTTGTTTCTTTTAAC
* * *
4408343 CCTTGAATAACTCACTTTACATTTGTCATGTAATTGATAATATTTGATAATTAACTAAAATATGC
639 CCTTGAACAACTCACATTACATTTGTCATGTAATTGATAATGTTTGATAATTAACTAAAATATGC
* * * *
4408408 ATCAGGACATCTTGATATTACATCGAATA-GAATGGAAATCTTAGGGAACCCTACTTATGTCCTA
704 ATTAGGACATCTTGATATTACATC-AAAAGGAATGGAAATCGTAGGGAACTCTACTTATGTCCTA
* * * * * *
4408472 GTCTTCAAGATCATGAACCTTTCTTATCCATGACACCCGTTCAGCATGACCATACGCCAAACCGT
768 GTTTTCAAGATCATGAACCTTTCTTATCCAAGACACCCATTCGGCATGACCATACACCAAACCAT
* * * * *
4408537 TTCTTGCTTTTACAAGGCACATCTCAAGAAAAACCATTTCAAGCTAACTAAAAACTGACTTGTGT
833 TTCTTGCTTTTACAAGCCACATCTCAAGAAAGACCATTTCAAGCTAACCAAAAACTGACTCGTGC
* *
4408602 GTTCAATTGTAATCCTATCAAAATCAAG
898 ATTCAATCGTAATCCTATCAAAATCAAG
4408630 ACCATAAGCC
Statistics
Matches: 2554, Mismatches: 186, Indels: 71
0.91 0.07 0.03
Matches are distributed among these distances:
922 121 0.05
923 467 0.18
924 146 0.06
925 189 0.07
926 353 0.14
927 417 0.16
928 115 0.05
929 6 0.00
930 3 0.00
931 7 0.00
932 2 0.00
933 121 0.05
934 295 0.12
935 304 0.12
936 8 0.00
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (928 bp):
ATTCCATCAGGGCAAACTAGTACTTAAGAAGATCTTATCGATTCACAAAGATGAACGAGGTAAAT
GGACCTCCAATTGGGAAAGGCCATATGTTGTCAAGCAAGCATTCTCCGAAAGAGCCTTGATCCTG
GCAAAGATGGATAGTGATGTCCTACCTAATCTAGTCAACTCAGATTCTATCAAGAAATATTATGC
ATGAAGGATGAAAACCTAGAATGGCATCCCATGTAAAAGAAAAAAAACAACAAAAAAAACAAAAA
CAAAAACAAAAAAGCAAAAAAAATTAATGAAATGAAAATAAAAAAGGGGTCCAGACAAAAACCGA
GAAAAGGCATCTGAGCAACCCAGCTAAGGTTGAAAGCCCAGAAGAGTGACTTAAGAAGGTTAATT
TTGAGGGGGCATAAATTGAAGGCATCCACCAAATGATGTAAAGCAATCTTAGGGGTCTTTTGAGG
ATCAGCTTACACCGATCATATTCATTGTTCAAGAAAGATCTTAAAGAACATTCATGTCATGATTG
TTAGAGGCATCCCGCCTAAAAGTCACCCTTTTTGCCACCCAATCACTTGTCGGTCAAATAATATA
CCAAATTGTATCTCTCTGTTGACATGAATAAATATGACCTTGTTTCTTTTAACCCTTGAACAACT
CACATTACATTTGTCATGTAATTGATAATGTTTGATAATTAACTAAAATATGCATTAGGACATCT
TGATATTACATCAAAAGGAATGGAAATCGTAGGGAACTCTACTTATGTCCTAGTTTTCAAGATCA
TGAACCTTTCTTATCCAAGACACCCATTCGGCATGACCATACACCAAACCATTTCTTGCTTTTAC
AAGCCACATCTCAAGAAAGACCATTTCAAGCTAACCAAAAACTGACTCGTGCATTCAATCGTAAT
CCTATCAAAATCAAGGCG
Found at i:4407951 original size:13 final size:14
Alignment explanation
Indices: 4407928--4407977 Score: 50
Period size: 13 Copynumber: 3.7 Consensus size: 14
4407918 CATCCCATGT
*
4407928 AAAAGAAAAAAAAC
1 AAAACAAAAAAAAC
*
4407942 -CAACAAAAAAAAC
1 AAAACAAAAAAAAC
*
4407955 AAAACAAAAACAA-
1 AAAACAAAAAAAAC
*
4407968 AAACCAAAAA
1 AAAACAAAAA
4407978 GCCAAAAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
13 20 0.67
14 10 0.33
ACGTcount: A:0.82, C:0.16, G:0.02, T:0.00
Consensus pattern (14 bp):
AAAACAAAAAAAAC
Found at i:4408987 original size:14 final size:14
Alignment explanation
Indices: 4408967--4409006 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
4408957 TAGAGTTCAC
4408967 ATCATGCATTCAAT
1 ATCATGCATTCAAT
* *
4408981 GTCATGCATTCCAT
1 ATCATGCATTCAAT
*
4408995 ATCATGAATTCA
1 ATCATGCATTCA
4409007 CATTACCATC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.35
Consensus pattern (14 bp):
ATCATGCATTCAAT
Found at i:4409808 original size:34 final size:32
Alignment explanation
Indices: 4409671--4409930 Score: 206
Period size: 34 Copynumber: 8.0 Consensus size: 32
4409661 GGAGCAACTC
* * *
4409671 TTTTT-AAAGCCCACACGAGTTGGTGGTGACCT
1 TTTTTCAAAGCCCACACAAGTTGGTGG-CATCT
* * *
4409703 CTTCTT--AAGTCCACACAAGCTGGTGGCATC-
1 -TTTTTCAAAGCCCACACAAGTTGGTGGCATCT
* **
4409733 TTTTTCAAAGACCACACAAGTCAGTGGCATCCT
1 TTTTTCAAAGCCCACACAAGTTGGTGGCAT-CT
*
4409766 TTTTTCAAAGCCCAAACAAGTTGGTGGCATCTTT
1 TTTTTCAAAGCCCACACAAGTTGGTGGCATC--T
*
4409800 TTTTTCAAAGCCCACACAAGTTAGTGGCATCCTT
1 TTTTTCAAAGCCCACACAAGTTGGTGGCAT-C-T
* * * *
4409834 TTTTTCCAAGCCCACACAAGTTGTTGGCGTCC
1 TTTTTCAAAGCCCACACAAGTTGGTGGCATCT
* *
4409866 TTTTTCAAAAGCCCACACAAGTCGGTGGCAAC-
1 TTTTTC-AAAGCCCACACAAGTTGGTGGCATCT
** * * *
4409898 CCTCTCAAAAGCCTACACAAGTTAGTGGCATCT
1 TTTTTC-AAAGCCCACACAAGTTGGTGGCATCT
4409931 CCTTTTAAGC
Statistics
Matches: 184, Mismatches: 34, Indels: 18
0.78 0.14 0.08
Matches are distributed among these distances:
29 4 0.02
31 21 0.11
32 50 0.27
33 51 0.28
34 57 0.31
35 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (32 bp):
TTTTTCAAAGCCCACACAAGTTGGTGGCATCT
Found at i:4409826 original size:67 final size:65
Alignment explanation
Indices: 4409717--4409895 Score: 234
Period size: 67 Copynumber: 2.7 Consensus size: 65
4409707 TTAAGTCCAC
* *
4409717 ACAAGCTGGTGGCATCTTTTTCAAAGACCACACAAGTCAGTGGCATCC-TTTTTTCAAAGCCCAA
1 ACAAGTTGGTGGCATCTTTTTCAAAGCCCACACAAGTCAGTGGCATCCTTTTTTTCAAAGCCCAA
* *
4409781 ACAAGTTGGTGGCATCTTTTTTTTCAAAGCCCACACAAGTTAGTGGCATCCTTTTTTTCCAAGCC
1 ACAAGTTGGTGGCATC---TTTTTCAAAGCCCACACAAGTCAGTGGCATCCTTTTTTTCAAAGCC
*
4409846 CAC
63 CAA
* * *
4409849 ACAAGTTGTTGGCGTCCTTTTTCAAAAGCCCACACAAGTCGGTGGCA
1 ACAAGTTGGTGGCAT-CTTTTTC-AAAGCCCACACAAGTCAGTGGCA
4409896 ACCCTCTCAA
Statistics
Matches: 100, Mismatches: 9, Indels: 9
0.85 0.08 0.08
Matches are distributed among these distances:
64 15 0.15
66 6 0.06
67 51 0.51
68 27 0.27
69 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.29
Consensus pattern (65 bp):
ACAAGTTGGTGGCATCTTTTTCAAAGCCCACACAAGTCAGTGGCATCCTTTTTTTCAAAGCCCAA
Found at i:4410113 original size:104 final size:104
Alignment explanation
Indices: 4409953--4410287 Score: 420
Period size: 104 Copynumber: 3.2 Consensus size: 104
4409943 AATGTTGTCA
* * * * * *
4409953 GCCTTGAGTCAGCATATTGGCACCTTTATCATCTTTAAATCTAATATCGCTAGCCTTGAATCAGC
1 GCCTTGAATCAGCATATTGGCACCATTATCATGTTTAAGTCTAATGTCGCTGGCCTTGAATCAGC
* * * * *
4410018 ATATTGGCA-CCTCTATCATTTTTAAGCCCGATGCCGCTG
66 ACATTGGCATTCT-TCTCATTTTTAAGCCCAATGTCGCTG
* *
4410057 GCCTTGAATCAGCATATTGGCACCATTATCATGTTTAAGTCCAATGTCGTTGGCCTTGAATCAGC
1 GCCTTGAATCAGCATATTGGCACCATTATCATGTTTAAGTCTAATGTCGCTGGCCTTGAATCAGC
*
4410122 ACATTGGCATTCTTCTCATTTTTAAGCCCAATGTCGTTG
66 ACATTGGCATTCTTCTCATTTTTAAGCCCAATGTCGCTG
* * * * * * *
4410161 ACCTTGAATTAGCACATTGACACCCTTATCATGTTCAAGTCTAATGTCGCTGGCATTGAATCAGC
1 GCCTTGAATCAGCATATTGGCACCATTATCATGTTTAAGTCTAATGTCGCTGGCCTTGAATCAGC
* * * *
4410226 ACATTAGCATTCTTCTCATCTTTAAGTCCAATGTCGCTA
66 ACATTGGCATTCTTCTCATTTTTAAGCCCAATGTCGCTG
*
4410265 GCCTTGAATCAGCTTATTGGCAC
1 GCCTTGAATCAGCATATTGGCAC
4410288 TGTTCTCATC
Statistics
Matches: 197, Mismatches: 33, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
104 195 0.99
105 2 0.01
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (104 bp):
GCCTTGAATCAGCATATTGGCACCATTATCATGTTTAAGTCTAATGTCGCTGGCCTTGAATCAGC
ACATTGGCATTCTTCTCATTTTTAAGCCCAATGTCGCTG
Found at i:4410294 original size:52 final size:52
Alignment explanation
Indices: 4409952--4410297 Score: 322
Period size: 52 Copynumber: 6.7 Consensus size: 52
4409942 TAATGTTGTC
* * * *
4409952 AGCCTTGAGTCAGCATATTGGCAC-CTTTATCATCTTTAAATCTAATATCGCT
1 AGCCTTGAATCAGCATATTGGCACTC-TTATCATCTTTAAGTCCAATGTCGCT
* * * *
4410004 AGCCTTGAATCAGCATATTGGCAC-CTCTATCATTTTTAAGCCCGATGCCGCT
1 AGCCTTGAATCAGCATATTGGCACTCT-TATCATCTTTAAGTCCAATGTCGCT
* * *
4410056 GGCCTTGAATCAGCATATTGGCAC-CATTATCATGTTTAAGTCCAATGTCGTT
1 AGCCTTGAATCAGCATATTGGCACTC-TTATCATCTTTAAGTCCAATGTCGCT
* * * * * *
4410108 GGCCTTGAATCAGCACATTGGCATTCTTCTCATTTTTAAGCCCAATGTCG-T
1 AGCCTTGAATCAGCATATTGGCACTCTTATCATCTTTAAGTCCAATGTCGCT
* * * * * * * *
4410159 TGACCTTGAATTAGCACATTGACACCCTTATCATGTTCAAGTCTAATGTCGCT
1 AG-CCTTGAATCAGCATATTGGCACTCTTATCATCTTTAAGTCCAATGTCGCT
* * * * * *
4410212 GGCATTGAATCAGCACATTAGCATTCTTCTCATCTTTAAGTCCAATGTCGCT
1 AGCCTTGAATCAGCATATTGGCACTCTTATCATCTTTAAGTCCAATGTCGCT
* * *
4410264 AGCCTTGAATCAGCTTATTGGCACTGTTCTCATC
1 AGCCTTGAATCAGCATATTGGCACTCTTATCATC
4410298 CTTATCATCT
Statistics
Matches: 242, Mismatches: 47, Indels: 10
0.81 0.16 0.03
Matches are distributed among these distances:
51 3 0.01
52 235 0.97
53 4 0.02
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.34
Consensus pattern (52 bp):
AGCCTTGAATCAGCATATTGGCACTCTTATCATCTTTAAGTCCAATGTCGCT
Found at i:4417241 original size:329 final size:326
Alignment explanation
Indices: 4416721--4417384 Score: 734
Period size: 329 Copynumber: 2.0 Consensus size: 326
4416711 TTTTAATATC
* * * * *
4416721 AAAATTCTTTAAATATCATCATTTTATTACCATCAAATGAGTTTTGAAAATTTCTTTTATTTCAT
1 AAAATTCATTAAATATCATCATGTAATTACCATCAAATCAGTTTTGAAAATTCCTTTTATTTCAT
* * * * * * * *
4416786 GAGTATTGATTTTTTTTGGAATTTTTTTTGTTTCCAAAATACAGAGTTTTTTCTCCATAAATATT
66 GAGTATTCATTTTTTTTGGAAATTCTCTTATTTCCAAAATACAGACTTTTTACTCCATAAATAGT
* * * * *
4416851 TTTTGATAGGATTTTTCATTGGTTTATAAATTTAAAATTGATCAAATATTATTATTTAATTCACA
131 TTTCGATAGGATTTTTCATTCGTTTATAAATTTAAAATTCATCAAATATCATCATTTAATTCACA
* * ** * * * *
4416916 TTAAATTAGTTTTGAAAATTTCCTTTTATTTCAT-GGATTTTTCATTTTTTCCTTGAAATTTTTT
196 GTAAATCAGTTTCAAAAATTT-ATTTT-TTTCATAAG-TTTTTCA--TTTTCCTTGAAATTCTCT
* * * * * ** *
4416980 TGTTTTC-AAAATACGGAGTTTTCTATTTCGTAAAT-ATTTTCAGGAGGATTTTTCTTGGTTTAT
256 TGTTTCCGAAAA-ACGAACTTTTCTATTCCATAAATGATTTTC-GGAGGATTTTTCTCAGTTTAA
4417043 AATTTTT-
319 AATTTTTA
*
4417050 AAAATTCATTAAATATCATCATGTAATT-CACATTAAATCAGTTTTGAAAATTCCTTTTATTTCA
1 AAAATTCATTAAATATCATCATGTAATTAC-CATCAAATCAGTTTTGAAAATTCCTTTTATTTCA
* * * * **
4417114 TGGGTTTTTCATTTTTTTCTTGAAATTCTCTTATTTCCAAAATA-GGACTTTTCTACTCTGTAAA
65 TGAG-TATTCATTTTTTT-TGGAAATTCTCTTATTTCCAAAATACAGACTTTT-TACTCCATAAA
* *
4417178 T-GTTTTCG-TGGGATTTTTC-TTCGTTTATAATTTTTAAAATTCATCAAATATCATCATTTAAT
127 TAGTTTTCGATAGGATTTTTCATTCGTTTATAA-ATTTAAAATTCATCAAATATCATCATTTAAT
* *
4417240 TCATAGTAAATCAGTTTCAAAAATTTATTTTTTTCATAAGTTTTTCATTTTCTTTGAAATTCTCT
191 TCACAGTAAATCAGTTTCAAAAATTTATTTTTTTCATAAGTTTTTCATTTTCCTTGAAATTCTCT
* *
4417305 TGTTTCCGAAAAACTAACTTTTCTATTCCATAAATGTTTTTCGGAGGATTTTTCTCAGTTTAAAA
256 TGTTTCCGAAAAACGAACTTTTCTATTCCATAAATGATTTTCGGAGGATTTTTCTCAGTTTAAAA
4417370 TTTTTA
321 TTTTTA
4417376 AAAATTCAT
1 AAAATTCAT
4417385 CTAACATTGT
Statistics
Matches: 279, Mismatches: 47, Indels: 21
0.80 0.14 0.06
Matches are distributed among these distances:
325 64 0.23
326 18 0.06
327 13 0.05
328 16 0.06
329 117 0.42
330 22 0.08
331 29 0.10
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.50
Consensus pattern (326 bp):
AAAATTCATTAAATATCATCATGTAATTACCATCAAATCAGTTTTGAAAATTCCTTTTATTTCAT
GAGTATTCATTTTTTTTGGAAATTCTCTTATTTCCAAAATACAGACTTTTTACTCCATAAATAGT
TTTCGATAGGATTTTTCATTCGTTTATAAATTTAAAATTCATCAAATATCATCATTTAATTCACA
GTAAATCAGTTTCAAAAATTTATTTTTTTCATAAGTTTTTCATTTTCCTTGAAATTCTCTTGTTT
CCGAAAAACGAACTTTTCTATTCCATAAATGATTTTCGGAGGATTTTTCTCAGTTTAAAATTTTT
A
Found at i:4417242 original size:163 final size:163
Alignment explanation
Indices: 4416721--4417385 Score: 659
Period size: 163 Copynumber: 4.1 Consensus size: 163
4416711 TTTTAATATC
* * * * * *
4416721 AAAATTCTTTAAATATCATCATTTTATT-ACCATCAAATGAGTTTTGAAAATTTCTTTTATTTCA
1 AAAATTCATCAAATATCATCATTTAATTCA-CATTAAATCAGTTTTGAAAATTCCTTTTATTTCA
* * * * * * * * *
4416785 TGAG-TATTGATTTTTTTTGGAATTTTTTTTGTTTCCAAAATACAGAGTTTT-TTCTCCATAAAT
65 TGAGTTTTTCATTTTTTTTTGAAATTCTCTTGTTTCCAAAATACGGACTTTTCTACTCCATAAAT
* * * * *
4416848 ATTTTTTGATAGGATTTTTCATTGGTTTATAA-ATTT
130 -GTTTTCG-GAGGATTTTTC-TTCGTTTATAATTTTT
* * * *
4416884 AAAATTGATCAAATATTATTATTTAATTCACATTAAATTAGTTTTGAAAATTTCCTTTTATTTCA
1 AAAATTCATCAAATATCATCATTTAATTCACATTAAATCAGTTTTGAAAA-TTCCTTTTATTTCA
* * * * * * * *
4416949 TG-GATTTTTCATTTTTTCCTTGAAATTTTTTTGTTTTCAAAATACGGAGTTTTCTATTTCGTAA
65 TGAG-TTTTTCATTTTTT-TTTGAAATTCTCTTGTTTCCAAAATACGGACTTTTCTACTCCATAA
* *
4417013 ATATTTTCAGGAGGATTTTTCTTGGTTTATAATTTTT
128 ATGTTTTC-GGAGGATTTTTCTTCGTTTATAATTTTT
* *
4417050 AAAATTCATTAAATATCATCATGTAATTCACATTAAATCAGTTTTGAAAATTCCTTTTATTTCAT
1 AAAATTCATCAAATATCATCATTTAATTCACATTAAATCAGTTTTGAAAATTCCTTTTATTTCAT
* * **
4417115 GGGTTTTTCATTTTTTTCTTGAAATTCTCTTATTTCCAAAATA-GGACTTTTCTACTCTGTAAAT
66 GAGTTTTTCATTTTTTT-TTGAAATTCTCTTGTTTCCAAAATACGGACTTTTCTACTCCATAAAT
4417179 GTTTTCGTG-GGATTTTTCTTCGTTTATAATTTTT
130 GTTTTCG-GAGGATTTTTCTTCGTTTATAATTTTT
* * ** **
4417213 AAAATTCATCAAATATCATCATTTAATTCATAGTAAATCAGTTTCAAAAATTTATTTT-TTTCAT
1 AAAATTCATCAAATATCATCATTTAATTCACATTAAATCAGTTTTGAAAATTCCTTTTATTTCAT
* * ** *
4417277 AAGTTTTTCA-TTTTCTTTGAAATTCTCTTGTTTCCGAAAA-ACTAACTTTTCTATTCCATAAAT
66 GAGTTTTTCATTTTTTTTTGAAATTCTCTTGTTTCC-AAAATACGGACTTTTCTACTCCATAAAT
*
4417340 GTTTTTCGGAGGATTTTTC-TCAGTTTAAAATTTTT
130 G-TTTTCGGAGGATTTTTCTTC-GTTTATAATTTTT
4417375 AAAAATTCATC
1 -AAAATTCATC
4417386 TAACATTGTA
Statistics
Matches: 426, Mismatches: 59, Indels: 34
0.82 0.11 0.07
Matches are distributed among these distances:
160 19 0.04
161 29 0.07
162 41 0.10
163 126 0.30
164 39 0.09
165 71 0.17
166 92 0.22
167 9 0.02
ACGTcount: A:0.29, C:0.11, G:0.09, T:0.50
Consensus pattern (163 bp):
AAAATTCATCAAATATCATCATTTAATTCACATTAAATCAGTTTTGAAAATTCCTTTTATTTCAT
GAGTTTTTCATTTTTTTTTGAAATTCTCTTGTTTCCAAAATACGGACTTTTCTACTCCATAAATG
TTTTCGGAGGATTTTTCTTCGTTTATAATTTTT
Found at i:4419247 original size:142 final size:141
Alignment explanation
Indices: 4419009--4419375 Score: 463
Period size: 142 Copynumber: 2.6 Consensus size: 141
4418999 CCATTATTTG
* * * *
4419009 TATGGTTATCCGTAGGGGTATAGAAATCTTTGAGACTTTTCAGTATCTTTCTGGTT-TTCCATTA
1 TATGGTTTTCCGTAGGGGTATAGAAATCTTTAAAACTTTTC-GTATCTTTTTGGTTCTT-CATTA
* * *
4419073 AGGTATAAAATGAATTTTCTTAAAAATTAAAAATCACATAAAAAATATTATCTTAATTTTTCAAC
64 AGGTATGAAATGAATTTTCTTAAAAATTAAAAATCAAATAAAAAATATTATCATAATTTTTCAAC
*
4419138 ATTTCTAGTATTCT
129 ATTTCTA-TATTCC
* * * *
4419152 TATGGTTTTCCGTGGGGGAATAGAAATTTTTAAAACTTTTCGTATCTTTTTGATTCTTCATTAAG
1 TATGGTTTTCCGTAGGGGTATAGAAATCTTTAAAACTTTTCGTATCTTTTTGGTTCTTCATTAAG
* * * * *
4419217 GTATGAAATGAATTTT-TT-GAAATTAAAAAAATTAAATAAAAATTATTGTCATAATTTTTCAAG
66 GTATGAAATGAATTTTCTTAAAAATT--AAAAATCAAATAAAAAATATTATCATAATTTTTCAAC
4419280 ATTTCTATATTCC
129 ATTTCTATATTCC
* *
4419293 TATGGTTTTTCGTAGGGGTATAGAAATCTTCAAAACTTTTCGTATCTTTTTGGTTC-TCAATTAA
1 TATGGTTTTCCGTAGGGGTATAGAAATCTTTAAAACTTTTCGTATCTTTTTGGTTCTTC-ATTAA
*
4419357 GGTACGAAATGAGATTTTC
65 GGTATGAAATGA-ATTTTC
4419376 AAAATTTACA
Statistics
Matches: 194, Mismatches: 24, Indels: 12
0.84 0.10 0.05
Matches are distributed among these distances:
140 7 0.04
141 73 0.38
142 77 0.40
143 37 0.19
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.43
Consensus pattern (141 bp):
TATGGTTTTCCGTAGGGGTATAGAAATCTTTAAAACTTTTCGTATCTTTTTGGTTCTTCATTAAG
GTATGAAATGAATTTTCTTAAAAATTAAAAATCAAATAAAAAATATTATCATAATTTTTCAACAT
TTCTATATTCC
Found at i:4419381 original size:141 final size:138
Alignment explanation
Indices: 4419009--4419381 Score: 442
Period size: 141 Copynumber: 2.6 Consensus size: 138
4418999 CCATTATTTG
* * * * *
4419009 TATGGTTATCCGTAGGGGTATAGAAATCTTTGAGACTTTTCAGTATCTTTCTGGTTTTCCATTAA
1 TATGGTTTTCCGTAGGGGTATAGAAATCTTTAAAACTTTTC-GTATCTTTTTGGTTCT-CATTAA
* * *
4419074 GGTATAAAATGAATTTTCTTAAAAATTAAAAATCACATAAAAAATATTATCTTAATTTTTCAACA
64 GGTATGAAATGAATTTTC---AAAATTAAAAATCAAATAAAAAATATTATCATAATTTTTCAACA
*
4419139 TTTCTAGTATTCT
126 TTTCTAGTATTCC
* * * *
4419152 TATGGTTTTCCGTGGGGGAATAGAAATTTTTAAAACTTTTCGTATCTTTTTGATTCTTCATTAAG
1 TATGGTTTTCCGTAGGGGTATAGAAATCTTTAAAACTTTTCGTATCTTTTTGGTTC-TCATTAAG
** * * * *
4419217 GTATGAAATGAATTTTTTGAAATTAAAAAAATTAAATAAAAATTATTGTCATAATTTTTCAAGAT
65 GTATGAAATGAA-TTTTCAAAATT--AAAAATCAAATAAAAAATATTATCATAATTTTTCAACAT
4419282 TTCTA-TATTCC
127 TTCTAGTATTCC
* *
4419293 TATGGTTTTTCGTAGGGGTATAGAAATCTTCAAAACTTTTCGTATCTTTTTGGTTCTCAATTAAG
1 TATGGTTTTCCGTAGGGGTATAGAAATCTTTAAAACTTTTCGTATCTTTTTGGTTCTC-ATTAAG
*
4419358 GTACGAAATGAGATTTTCAAAATT
65 GTATGAAATGA-ATTTTCAAAATT
4419382 TACAACTTAT
Statistics
Matches: 196, Mismatches: 28, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
140 7 0.04
141 80 0.41
142 69 0.35
143 40 0.20
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (138 bp):
TATGGTTTTCCGTAGGGGTATAGAAATCTTTAAAACTTTTCGTATCTTTTTGGTTCTCATTAAGG
TATGAAATGAATTTTCAAAATTAAAAATCAAATAAAAAATATTATCATAATTTTTCAACATTTCT
AGTATTCC
Found at i:4419396 original size:2 final size:2
Alignment explanation
Indices: 4419389--4419413 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4419379 ATTTACAACT
4419389 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
4419414 TTCTTGTCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4420152 original size:148 final size:149
Alignment explanation
Indices: 4419978--4420268 Score: 345
Period size: 149 Copynumber: 2.0 Consensus size: 149
4419968 CCATCTATAA
* * ** *
4419978 TCCTTTTTAAGTCCTTTAGGGGTATCG-GGTACTTTTAAGTTGAAGGCAT-CCCTTAAAGGCATT
1 TCCTTTTTAAGTCCTTTAGGGGTATCGAGATACTTTCAAGTCAAAGGCATACCCATAAAGGCATT
* * * * * * *
4420041 TTCATAATTTTTTTTAAAAACAAGTCCTAATTTGTCATCGGGTCGCTTCTATG-TCGAGGGTACG
66 TTCATAA-TTTGTCTAAAAACAAATCCTAATTTGTCACCGAGTCGCTTCTATGCT-AAAGGTACG
4420105 TATTAGGCATAGGTTTGTTTT
129 TATTAGGCATAGGTTTGTTTT
* * * * **
4420126 TCCTTTTTAAGTTCTTTAGGGTTATCGAGATACTTTCATGTCAAAGGTATACCCATAGGGGCATT
1 TCCTTTTTAAGTCCTTTAGGGGTATCGAGATACTTTCAAGTCAAAGGCATACCCATAAAGGCATT
* * *
4420191 TTCATAATTTGTCTAGAACCAAATCCTAATTTGTCACCGAGTTGCTTCTATGCTAAAGGTACGTA
66 TTCATAATTTGTCTAAAAACAAATCCTAATTTGTCACCGAGTCGCTTCTATGCTAAAGGTACGTA
*
4420256 TTAGGCGTAGGTT
131 TTAGGCATAGGTT
4420269 CACATTTCTT
Statistics
Matches: 118, Mismatches: 22, Indels: 5
0.81 0.15 0.03
Matches are distributed among these distances:
148 25 0.21
149 74 0.63
150 19 0.16
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.39
Consensus pattern (149 bp):
TCCTTTTTAAGTCCTTTAGGGGTATCGAGATACTTTCAAGTCAAAGGCATACCCATAAAGGCATT
TTCATAATTTGTCTAAAAACAAATCCTAATTTGTCACCGAGTCGCTTCTATGCTAAAGGTACGTA
TTAGGCATAGGTTTGTTTT
Found at i:4423175 original size:24 final size:23
Alignment explanation
Indices: 4423131--4423175 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
4423121 TGTAAAATTT
* *
4423131 TAAAATTATAAATATTTAATATC
1 TAAAATTATAAACATTAAATATC
*
4423154 TAAAATTTTTAAACATTAAATA
1 TAAAA-TTATAAACATTAAATA
4423176 AATAAAATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 5 0.28
24 13 0.72
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.42
Consensus pattern (23 bp):
TAAAATTATAAACATTAAATATC
Found at i:4423746 original size:45 final size:45
Alignment explanation
Indices: 4423682--4423771 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 45
4423672 ATTCTTCTTT
4423682 TCTACATTAATCTGATTTGTATAAAATTTTCTTCTAATAAAGTCA
1 TCTACATTAATCTGATTTGTATAAAATTTTCTTCTAATAAAGTCA
* * *
4423727 TCTACGTTAATTTGATTTGTATAGAATTTTCTTCTAATAAAGTCA
1 TCTACATTAATCTGATTTGTATAAAATTTTCTTCTAATAAAGTCA
4423772 ATCATCGAAC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.33, C:0.12, G:0.09, T:0.46
Consensus pattern (45 bp):
TCTACATTAATCTGATTTGTATAAAATTTTCTTCTAATAAAGTCA
Found at i:4424760 original size:16 final size:17
Alignment explanation
Indices: 4424717--4424764 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 17
4424707 AATGTTATTA
*
4424717 TGAAAATTCATGAACTT
1 TGAATATTCATGAACTT
* *
4424734 CGAATACTCATGAA-TT
1 TGAATATTCATGAACTT
4424750 TGAATATTCATGAAC
1 TGAATATTCATGAAC
4424765 CGTGAATTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (17 bp):
TGAATATTCATGAACTT
Found at i:4428622 original size:2 final size:2
Alignment explanation
Indices: 4428615--4428644 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4428605 GTTGTGAATT
4428615 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4428645 AATTTTCTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4432888 original size:13 final size:13
Alignment explanation
Indices: 4432870--4432895 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4432860 CAATTTTTTG
4432870 TGTATCGATACAT
1 TGTATCGATACAT
4432883 TGTATCGATACAT
1 TGTATCGATACAT
4432896 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4432907 original size:19 final size:19
Alignment explanation
Indices: 4432883--4432964 Score: 122
Period size: 19 Copynumber: 4.6 Consensus size: 19
4432873 ATCGATACAT
4432883 TGTATCGATACATACTTTG
1 TGTATCGATACATACTTTG
4432902 TGTATCGATACATACTTTG
1 TGTATCGATACATACTTTG
4432921 TGTATCGATAC--A---T-
1 TGTATCGATACATACTTTG
4432934 TGTATCGATACATACTTTG
1 TGTATCGATACATACTTTG
4432953 TGTATCGATACA
1 TGTATCGATACA
4432965 AGTTTGGCTA
Statistics
Matches: 57, Mismatches: 0, Indels: 12
0.83 0.00 0.17
Matches are distributed among these distances:
13 11 0.19
14 1 0.02
15 1 0.02
17 1 0.02
18 1 0.02
19 42 0.74
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (19 bp):
TGTATCGATACATACTTTG
Found at i:4432907 original size:32 final size:33
Alignment explanation
Indices: 4432850--4432914 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 33
4432840 TACAAGCCAA
**
4432850 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
4432883 TGTATCGATAC-ATACTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
4432915 ACTTTGTGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 19 0.63
33 11 0.37
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.43
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:4432928 original size:51 final size:51
Alignment explanation
Indices: 4432850--4432964 Score: 203
Period size: 51 Copynumber: 2.2 Consensus size: 51
4432840 TACAAGCCAA
**
4432850 TGTATCGATACAATTTTTTGTGTATCGATACATTGTATCGATACATACTTTG
1 TGTATCGATAC-ATACTTTGTGTATCGATACATTGTATCGATACATACTTTG
4432902 TGTATCGATACATACTTTGTGTATCGATACATTGTATCGATACATACTTTG
1 TGTATCGATACATACTTTGTGTATCGATACATTGTATCGATACATACTTTG
4432953 TGTATCGATACA
1 TGTATCGATACA
4432965 AGTTTGGCTA
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
51 50 0.82
52 11 0.18
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.42
Consensus pattern (51 bp):
TGTATCGATACATACTTTGTGTATCGATACATTGTATCGATACATACTTTG
Found at i:4432938 original size:32 final size:32
Alignment explanation
Indices: 4432902--4432964 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
4432892 ACATACTTTG
4432902 TGTATCGATACATACTTTGTGTATCGATACAT
1 TGTATCGATACATACTTTGTGTATCGATACAT
4432934 TGTATCGATACATACTTTGTGTATCGATACA
1 TGTATCGATACATACTTTGTGTATCGATACA
4432965 AGTTTGGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.40
Consensus pattern (32 bp):
TGTATCGATACATACTTTGTGTATCGATACAT
Found at i:4432939 original size:13 final size:13
Alignment explanation
Indices: 4432921--4432946 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4432911 ACATACTTTG
4432921 TGTATCGATACAT
1 TGTATCGATACAT
4432934 TGTATCGATACAT
1 TGTATCGATACAT
4432947 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4435047 original size:21 final size:20
Alignment explanation
Indices: 4435018--4435060 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
4435008 GACTAGTGTG
* *
4435018 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCGCGACCT
*
4435039 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
4435059 GG
1 GG
4435061 TGGTGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.09, C:0.28, G:0.44, T:0.19
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:4435508 original size:13 final size:13
Alignment explanation
Indices: 4435492--4435529 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
4435482 ATAATCCCCC
4435492 TATATCGATACAG
1 TATATCGATACAG
*
4435505 TATATCGATACAT
1 TATATCGATACAG
*
4435518 TGTATCGATACA
1 TATATCGATACA
4435530 AAGAAAAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (13 bp):
TATATCGATACAG
Found at i:4439459 original size:22 final size:20
Alignment explanation
Indices: 4439410--4439461 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
4439400 ATCATGTAAG
4439410 TTTTTATTTTTCTTAGCTAAT
1 TTTTTA-TTTTCTTAGCTAAT
**
4439431 TCATTATTTTCATTAGCTAAAT
1 TTTTTATTTTC-TTAGCT-AAT
4439453 TTTTTATTT
1 TTTTTATTT
4439462 CAACTTGCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 5 0.20
21 10 0.40
22 10 0.40
ACGTcount: A:0.23, C:0.10, G:0.04, T:0.63
Consensus pattern (20 bp):
TTTTTATTTTCTTAGCTAAT
Found at i:4441692 original size:13 final size:13
Alignment explanation
Indices: 4441674--4441699 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4441664 AATTTTTTGG
4441674 TGTATCGATACAT
1 TGTATCGATACAT
4441687 TGTATCGATACAT
1 TGTATCGATACAT
4441700 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4442502 original size:65 final size:65
Alignment explanation
Indices: 4442433--4442556 Score: 151
Period size: 65 Copynumber: 1.9 Consensus size: 65
4442423 CCTGGTCACT
* * * * * *
4442433 CTTAGTT-GTTCATATGGTTTTATTCTGGCCAACCCCTTTTCAACTTAGGTTTTGCCCTAATCAA
1 CTTAGTTGGTTC-TATAGTTTCATCCTGACCAACCCCTTTTCAACTTAAGTTCTGCCCTAATCAA
4442497 C
65 C
* * *
4442498 CTTAGTTGGTTCTATAGTTTCGTCCTGACTAACTCCTTTTCAACTTAAGTTCTGCCCTA
1 CTTAGTTGGTTCTATAGTTTCATCCTGACCAACCCCTTTTCAACTTAAGTTCTGCCCTA
4442557 GTCACCAAAG
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
65 45 0.92
66 4 0.08
ACGTcount: A:0.19, C:0.25, G:0.14, T:0.42
Consensus pattern (65 bp):
CTTAGTTGGTTCTATAGTTTCATCCTGACCAACCCCTTTTCAACTTAAGTTCTGCCCTAATCAAC
Found at i:4445256 original size:33 final size:33
Alignment explanation
Indices: 4445214--4445292 Score: 124
Period size: 33 Copynumber: 2.4 Consensus size: 33
4445204 TTAAATCTTA
* *
4445214 TAAACCTTTTGAATCCCTTGTAAAACAAACCTT
1 TAAACCTTTTGAATCCATTGTAAAACAAACCTC
4445247 TGAAA-CTTTTGAATCCATTGTAAAACAAACCTC
1 T-AAACCTTTTGAATCCATTGTAAAACAAACCTC
4445280 TAAACCTTTTGAA
1 TAAACCTTTTGAA
4445293 CCTATCCTTG
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
32 3 0.07
33 36 0.86
34 3 0.07
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.33
Consensus pattern (33 bp):
TAAACCTTTTGAATCCATTGTAAAACAAACCTC
Found at i:4447423 original size:17 final size:17
Alignment explanation
Indices: 4447397--4447438 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
4447387 TCTTTCAACA
* *
4447397 ATGAACATTCATTAACTC
1 ATGAATATTCATAAAC-C
4447415 -TGAATATTCATAAACC
1 ATGAATATTCATAAACC
4447431 ATGAATAT
1 ATGAATAT
4447439 AATATATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 1 0.05
17 20 0.95
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (17 bp):
ATGAATATTCATAAACC
Found at i:4447706 original size:12 final size:12
Alignment explanation
Indices: 4447691--4447717 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
4447681 AAGACTTTTT
4447691 TTTTTCTTATTC
1 TTTTTCTTATTC
4447703 TTTTTCTTATTC
1 TTTTTCTTATTC
4447715 TTT
1 TTT
4447718 ATACTCTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTTCTTATTC
Found at i:4458563 original size:20 final size:20
Alignment explanation
Indices: 4458540--4458577 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4458530 CACATTGAAT
* *
4458540 CCAATGACTCTCTCTCTCTC
1 CCAATCACTCCCTCTCTCTC
4458560 CCAATCACTCCCTCTCTC
1 CCAATCACTCCCTCTCTC
4458578 CTCTTTGATT
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:0.16, C:0.50, G:0.03, T:0.32
Consensus pattern (20 bp):
CCAATCACTCCCTCTCTCTC
Found at i:4459050 original size:19 final size:18
Alignment explanation
Indices: 4459026--4459065 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
4459016 AATTAAATAG
4459026 TTATATTCTAACTATATAT
1 TTATATTCTAACTATAT-T
4459045 TTATATTCTAACTATATT
1 TTATATTCTAACTATATT
4459063 TTA
1 TTA
4459066 AACATAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.35, C:0.10, G:0.00, T:0.55
Consensus pattern (18 bp):
TTATATTCTAACTATATT
Found at i:4462812 original size:15 final size:15
Alignment explanation
Indices: 4462761--4462815 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 15
4462751 TTTATAATTA
4462761 AATTTAAATAAAAAT
1 AATTTAAATAAAAAT
*
4462776 ATTTTTATTAATAAATAAT
1 A-ATTTA--AATAAA-AAT
*
4462795 AATTTAAATAAAATT
1 AATTTAAATAAAAAT
4462810 AATTTA
1 AATTTA
4462816 TTTAAATTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
15 9 0.27
16 10 0.30
18 10 0.30
19 4 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTTAAATAAAAAT
Found at i:4463099 original size:19 final size:18
Alignment explanation
Indices: 4463075--4463118 Score: 56
Period size: 16 Copynumber: 2.5 Consensus size: 18
4463065 AAATTGTTTT
4463075 TTATTTTAAAATATTCAGA
1 TTATTTTAAAAT-TTCAGA
*
4463094 TTATTTT--AATTTTAGA
1 TTATTTTAAAATTTCAGA
4463110 TTATTTTAA
1 TTATTTTAA
4463119 GTTTAATCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
16 12 0.55
17 3 0.14
19 7 0.32
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (18 bp):
TTATTTTAAAATTTCAGA
Found at i:4463112 original size:16 final size:16
Alignment explanation
Indices: 4463091--4463187 Score: 72
Period size: 16 Copynumber: 6.1 Consensus size: 16
4463081 TAAAATATTC
4463091 AGATTATTTTAATTTT
1 AGATTATTTTAATTTT
*
4463107 AGATTATTTTAAGTTT
1 AGATTATTTTAATTTT
* **
4463123 A-ATCATTTCGATTTT
1 AGATTATTTTAATTTT
* * * *
4463138 GGGTTATTTTAAATTC
1 AGATTATTTTAATTTT
* *
4463154 ATATTACTTTAATTTT
1 AGATTATTTTAATTTT
*
4463170 -GAATTATTTCAATTTT
1 AG-ATTATTTTAATTTT
4463186 AG
1 AG
4463188 GTCAATTAAA
Statistics
Matches: 57, Mismatches: 21, Indels: 5
0.69 0.25 0.06
Matches are distributed among these distances:
15 10 0.18
16 46 0.81
17 1 0.02
ACGTcount: A:0.30, C:0.05, G:0.09, T:0.56
Consensus pattern (16 bp):
AGATTATTTTAATTTT
Found at i:4463145 original size:47 final size:48
Alignment explanation
Indices: 4463094--4463185 Score: 114
Period size: 47 Copynumber: 1.9 Consensus size: 48
4463084 AATATTCAGA
* * * *
4463094 TTATTTTAATTTTAGATTATTTTAAGTTT-AATCATTTCGATTTTGGG
1 TTATTTTAAATTCAGATTACTTTAAGTTTGAATCATTTCAATTTTGGG
* * *
4463141 TTATTTTAAATTCATATTACTTTAATTTTGAATTATTTCAATTTT
1 TTATTTTAAATTCAGATTACTTTAAGTTTGAATCATTTCAATTTT
4463186 AGGTCAATTA
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
47 24 0.65
48 13 0.35
ACGTcount: A:0.28, C:0.05, G:0.08, T:0.59
Consensus pattern (48 bp):
TTATTTTAAATTCAGATTACTTTAAGTTTGAATCATTTCAATTTTGGG
Found at i:4463929 original size:13 final size:12
Alignment explanation
Indices: 4463907--4463968 Score: 63
Period size: 13 Copynumber: 5.0 Consensus size: 12
4463897 TATAAATTTT
4463907 ATATTTAAAATA
1 ATATTTAAAATA
*
4463919 ATATTTAAAAATT
1 ATATTT-AAAATA
*
4463932 ATATTTCAAAGTA
1 ATATTT-AAAATA
*
4463945 ATA-TTGAAATA
1 ATATTTAAAATA
4463956 ATATTTTAAAATA
1 ATA-TTTAAAATA
4463969 CTTTATTATA
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
11 7 0.17
12 8 0.20
13 25 0.62
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (12 bp):
ATATTTAAAATA
Found at i:4465293 original size:19 final size:19
Alignment explanation
Indices: 4465248--4465321 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 19
4465238 ACTGCCAGTT
4465248 TCATGTATCGATACAATTG-
1 TCATGTATCGATACAA-TGA
4465267 TCCATGTATCGATACAATGA
1 T-CATGTATCGATACAATGA
*
4465287 TCATGTATCGATACAAAGCA
1 TCATGTATCGATACAATG-A
*
4465307 TAATGTATCGATACA
1 TCATGTATCGATACA
4465322 TCTGGGTGTA
Statistics
Matches: 50, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
19 19 0.38
20 31 0.62
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (19 bp):
TCATGTATCGATACAATGA
Found at i:4467839 original size:20 final size:20
Alignment explanation
Indices: 4467814--4467870 Score: 105
Period size: 20 Copynumber: 2.9 Consensus size: 20
4467804 GGTTTTCCAG
*
4467814 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTCTTCA
4467834 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
4467854 ATGTATCGATACATTCT
1 ATGTATCGATACATTCT
4467871 GAAAAATTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.30, C:0.18, G:0.11, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTCTTCA
Found at i:4474004 original size:13 final size:13
Alignment explanation
Indices: 4473964--4474016 Score: 64
Period size: 13 Copynumber: 4.5 Consensus size: 13
4473954 TCGTTAGAAG
4473964 CAATGTATCGATA
1 CAATGTATCGATA
4473977 CAA--T-TC-AT-
1 CAATGTATCGATA
4473985 C-ATGTATCGATA
1 CAATGTATCGATA
4473997 CAATGTATCGATA
1 CAATGTATCGATA
4474010 CAATGTA
1 CAATGTA
4474017 CCATGTATCG
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 3 0.09
10 4 0.12
11 3 0.09
12 1 0.03
13 21 0.62
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:4474006 original size:33 final size:33
Alignment explanation
Indices: 4473964--4474032 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
4473954 TCGTTAGAAG
*
4473964 CAATGTATCGATACAAT-TCATCATGTATCGATA
1 CAATGTATCGATACAATGT-ACCATGTATCGATA
4473997 CAATGTATCGATACAATGTACCATGTATCGATA
1 CAATGTATCGATACAATGTACCATGTATCGATA
4474030 CAA
1 CAA
4474033 ATAGTGGTAG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
33 33 0.97
34 1 0.03
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (33 bp):
CAATGTATCGATACAATGTACCATGTATCGATA
Found at i:4474105 original size:19 final size:18
Alignment explanation
Indices: 4474060--4474117 Score: 89
Period size: 19 Copynumber: 3.1 Consensus size: 18
4474050 ATTACCAGTT
4474060 TCATGTATCGATACAATTG
1 TCATGTATCGATACAA-TG
4474079 TCCATGTATCGATACAATG
1 T-CATGTATCGATACAATG
4474098 ATCATGTATCGATACAATG
1 -TCATGTATCGATACAATG
4474117 T
1 T
4474118 ATCGATACAA
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
18 1 0.03
19 20 0.54
20 16 0.43
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (18 bp):
TCATGTATCGATACAATG
Found at i:4474119 original size:13 final size:13
Alignment explanation
Indices: 4474101--4474127 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4474091 TACAATGATC
4474101 ATGTATCGATACA
1 ATGTATCGATACA
4474114 ATGTATCGATACA
1 ATGTATCGATACA
4474127 A
1 A
4474128 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4474123 original size:32 final size:33
Alignment explanation
Indices: 4474082--4474146 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
4474072 ACAATTGTCC
* *
4474082 ATGTATCGATACAATG-ATCATGTATCGATACA
1 ATGTATCGATACAAAGCATAATGTATCGATACA
*
4474114 ATGTATCGATACAAAGCATAATGTATCTATACA
1 ATGTATCGATACAAAGCATAATGTATCGATACA
4474147 TCTGGGTGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.31
Consensus pattern (33 bp):
ATGTATCGATACAAAGCATAATGTATCGATACA
Found at i:4476757 original size:166 final size:168
Alignment explanation
Indices: 4476234--4476950 Score: 768
Period size: 166 Copynumber: 4.4 Consensus size: 168
4476224 AATTACAGGG
* * *
4476234 TTTTCTTCTTCGTAAATTTTTTTCG-GGAGGATTTTTCTTGGTTTTTAATTTCTAAAATTCATCA
1 TTTTCTACTCCGTAAATTTTTTTCGAGG-GGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCA
* * * *
4476298 AATATTATTATTTAATTCATATTAAATCAGTTTT--CAA--AATTCATTTTCA-AAATTTTTAAA
65 AATATTATCATTTATTTCATATTAAATCAGTTTTAAAAATTAATTCATTTTCATAAGTTTTTAAA
* * * *
4476358 ATTTTTC-TTAAAATTCTCTTTTTTTTCGAAATACGTTG
130 TTTTTTCTTTAAAATTCTCTTTTTTTTAGAAATACGGTA
* *
4476396 TTTTCTACTTCGTAAATTTTTTTCGAGGGGATTTTT-TTGGTTTTTAATTTTTAAACTTCATCAA
1 TTTTCTACTCCGTAAATTTTTTTCGAGGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAA
* * *
4476460 AGA-T-T-A-TTATTTCATATTAAATCAATTTTCAAAAATTAATTCATTTTCATAAGTTTTTGAA
66 ATATTATCATTTATTTCATATTAAATCAGTTTT-AAAAATTAATTCATTTTCATAAGTTTTTAAA
* * * *
4476521 TTTTTTCCTTGAAATTCTCTTTTTTCT-GAAATACGTTA
130 TTTTTTCTTTAAAATTCTCTTTTTTTTAGAAATACGGTA
* * * *
4476559 TTTTCTATTTCGTAAA-TTTTTTCCAGGGGATTTTTCTTGGTTTTTAATTTTTAAATTTCATCAA
1 TTTTCTACTCCGTAAATTTTTTTCGAGGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAA
* * *
4476623 ATATTATCATTTATTTCATATTAAATCAGTTTTTAAAAATTCATTCATTTTCATTCA-TTTTT-T
66 ATATTATCATTTATTTCATATTAAATCAG-TTTTAAAAATTAATTCATTTTCA-TAAGTTTTTAA
* * *
4476686 ATTTTTTCTTTGAAACTCTCATTTTTTT-GAAATACGGTA
129 ATTTTTTCTTTAAAATTCTCTTTTTTTTAGAAATACGGTA
* * *
4476725 TTTTCTACTCCGTAAATTGTTTT-GAAGGGATTTTTCTTGGTTTTTAATTTTTAAAATTAATCAA
1 TTTTCTACTCCGTAAATTTTTTTCGAGGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAA
* * * * * **
4476789 ATATCATCATTGGA-TTCAAATTAAATTAGTTTTAAAAATTAATTCATTTTCATGAG-TTTTGGA
66 ATATTATCATT-TATTTCATATTAAATCAGTTTTAAAAATTAATTCATTTTCATAAGTTTTTAAA
4476852 TTTTTT-TATTAAAATTCT-TTTTTTTTCAAGAAAT-CGAGT-
130 TTTTTTCT-TTAAAATTCTCTTTTTTTT--AGAAATACG-GTA
* ** *
4476891 TTTCCT-CTCCGTAAATTTTTTT-G-GGGGATTTTTCTTGGTTTAAAATTTTTAAAACTCATC
1 TTTTCTACTCCGTAAATTTTTTTCGAGGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATC
4476951 TAATGTTGTT
Statistics
Matches: 481, Mismatches: 50, Indels: 46
0.83 0.09 0.08
Matches are distributed among these distances:
157 21 0.04
158 1 0.00
159 1 0.00
160 3 0.01
161 28 0.06
162 62 0.13
163 71 0.15
164 64 0.13
165 54 0.11
166 116 0.24
167 54 0.11
168 6 0.01
ACGTcount: A:0.28, C:0.11, G:0.09, T:0.52
Consensus pattern (168 bp):
TTTTCTACTCCGTAAATTTTTTTCGAGGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAA
ATATTATCATTTATTTCATATTAAATCAGTTTTAAAAATTAATTCATTTTCATAAGTTTTTAAAT
TTTTTCTTTAAAATTCTCTTTTTTTTAGAAATACGGTA
Found at i:4477358 original size:11 final size:11
Alignment explanation
Indices: 4477340--4477381 Score: 66
Period size: 11 Copynumber: 3.7 Consensus size: 11
4477330 GCAAAGTAAG
4477340 AAGAAAAAGAGA
1 AAGAAAAA-AGA
4477352 AAGAAAAAAGA
1 AAGAAAAAAGA
*
4477363 AAAAAAAAAGA
1 AAGAAAAAAGA
4477374 AAGAAAAA
1 AAGAAAAA
4477382 TAGTGAAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
11 20 0.71
12 8 0.29
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (11 bp):
AAGAAAAAAGA
Found at i:4478874 original size:151 final size:150
Alignment explanation
Indices: 4478635--4478981 Score: 389
Period size: 151 Copynumber: 2.3 Consensus size: 150
4478625 ACGGGTGTCA
* * * *
4478635 AGTACTCTTACATCAAA-AGTATCCCTTAGGGGTATTTTTGTAATTTTTAGAACCAACTCCTAGA
1 AGTACT-TTACGTCAAAGA-TATCCCTTAGGGGTA--TTT-TCATATCTAGAACCAACTCCTAGA
**
4478699 TCGTCGTCAGGTCCACTTTTATGCCAAAGGTAGATATTTAGGATAAGTTCATCCCTTTTAACAAT
61 TCGTCACCAGGTCCACTTTTATGCCAAAGGTAGATATTTAGGATAAGTTCATCCCTTTTAACAAT
4478764 CCTCTTTAAAT-CTCTTAGGGGT-ATCG
126 -CTCTTTAAATCCT-TTA-GGGTAATCG
4478790 AGTACTTTACGTCAAAGATATCCCTTAGGGGTATTTTCATATCTAGAACCAACTCCTA-AGTCGT
1 AGTACTTTACGTCAAAGATATCCCTTAGGGGTATTTTCATATCTAGAACCAACTCCTAGA-TCGT
* ** * * * ** *
4478854 CACCGGGTCTGCTTTTATGCCGATGGTAGATATTTAGGATAGGTTCATCCCTTTTATGAATCTTT
65 CACCAGGTCCACTTTTATGCCAAAGGTAGATATTTAGGATAAGTTCATCCCTTTTAACAATCTCT
*
4478919 TTAAGTCCTTTAGGGTAATCG
130 TTAAATCCTTTAGGGTAATCG
* * *
4478940 AGTACTTTTATGTCGAAAG-TATCCCTTAGAGGCATTTTCATA
1 AGTAC-TTTACGTC-AAAGATATCCCTTAGGGGTATTTTCATA
4478982 ATTTTTTAGA
Statistics
Matches: 167, Mismatches: 19, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
149 4 0.02
150 21 0.13
151 104 0.62
152 7 0.04
154 24 0.14
155 7 0.04
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.37
Consensus pattern (150 bp):
AGTACTTTACGTCAAAGATATCCCTTAGGGGTATTTTCATATCTAGAACCAACTCCTAGATCGTC
ACCAGGTCCACTTTTATGCCAAAGGTAGATATTTAGGATAAGTTCATCCCTTTTAACAATCTCTT
TAAATCCTTTAGGGTAATCG
Found at i:4479074 original size:155 final size:155
Alignment explanation
Indices: 4478878--4479442 Score: 471
Period size: 155 Copynumber: 3.6 Consensus size: 155
4478868 TTATGCCGAT
* * *
4478878 GGTAGATATTTAGGATAGGTTCATCCCTTTTATGAAT-CTTTTTAAGTCCTTTAGGGTAATCGAG
1 GGTAGGTATTTAGGATAGGTTCATCCCATCTAT--ATCCTTTTTAAGTCCTTTAGGGT-ATCGAG
* * *
4478942 -TACTTTTATGTCGAAAGTATCCCTTAGAGGCATTTTCATAATTTTTTAGAATTGAGTCTTAGGT
63 ATACTTTTACGTCGAAAGTATCCCTTAGAGGCATTTTCATAATTTTTTAGAATAGAGTCTCAGGT
* *
4479006 TGTCACCGAGTCCACTTTAATG-CAGAA
128 TGTCACCGAGTCCATTTTTATGTCAGAA
* * * * * *
4479033 GGTGGGTGTTTAGGGATAGGTTCACCCCATCTATATCCTTTTTAAGT-CTTTAAGAT-TACCAGG
1 GGTAGGTATTTA-GGATAGGTTCATCCCATCTATATCCTTTTTAAGTCCTTTAGGGTAT-CGA-G
* * * ** * *
4479096 ATACTTTCACGTCGAAGGTATACCTATTAG-GGCATTTTTGTAATTTTTTAGAACCA-ACTCCTC
63 ATACTTTTACGTCGAAAGTAT-CC-CTTAGAGGCATTTTCATAATTTTTTAGAA-TAGAGT-CTC
* * *
4479159 A-GTCGTTACC-AGGTCCGTTTTTATGTC-GAA
124 AGGTTGTCACCGA-GTCCATTTTTATGTCAGAA
* * * *
4479189 GGCAAGCATTTAGGATAGGTTCATCCCATTTCTA-AT-CTTTTTAAGTCCTTTAGGGTATTGAG-
1 GGTAGGTATTTAGGATAGGTTCATCCCA--TCTATATCCTTTTTAAGTCCTTTAGGGTATCGAGA
* * * * * * *
4479251 TACTTTTATGTCGAAAATATCCCCTAGGGGTAGTTTCATAATTTTTTAGAATAGGGTCTCAGGTT
64 TACTTTTACGTCGAAAGTATCCCTTAGAGGCATTTTCATAATTTTTTAGAATAGAGTCTCAGGTT
* **
4479316 GTCACCGGGTTTATTTTTATGTCA-AA
129 GTCACCGAGTCCATTTTTATGTCAGAA
* * * *
4479342 GGTAGATATTTTGGATAGGTTCATCCCTTCTATAATCCTTTTTAAGTCCTTTAGGGGTATC-AGT
1 GGTAGGTATTTAGGATAGGTTCATCCCATCTAT-ATCCTTTTTAAGTCCTTTA-GGGTATCGAGA
*
4479406 TACTTTTACATCG-AAGTTAT-CCTTAAGAGGCATTTTC
64 TACTTTTACGTCGAAAG-TATCCCTT-AGAGGCATTTTC
4479443 GTTTTTTTTT
Statistics
Matches: 316, Mismatches: 67, Indels: 54
0.72 0.15 0.12
Matches are distributed among these distances:
151 4 0.01
152 9 0.03
153 69 0.22
154 49 0.16
155 92 0.29
156 80 0.25
157 13 0.04
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.39
Consensus pattern (155 bp):
GGTAGGTATTTAGGATAGGTTCATCCCATCTATATCCTTTTTAAGTCCTTTAGGGTATCGAGATA
CTTTTACGTCGAAAGTATCCCTTAGAGGCATTTTCATAATTTTTTAGAATAGAGTCTCAGGTTGT
CACCGAGTCCATTTTTATGTCAGAA
Found at i:4482663 original size:22 final size:22
Alignment explanation
Indices: 4482636--4482677 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
4482626 TAATTTTTGT
4482636 ATGGGAATTAAATTTTAGACGA
1 ATGGGAATTAAATTTTAGACGA
4482658 ATGGGAATTAAATTTTAGAC
1 ATGGGAATTAAATTTTAGAC
4482678 ATATGAGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.21, T:0.33
Consensus pattern (22 bp):
ATGGGAATTAAATTTTAGACGA
Found at i:4483102 original size:84 final size:84
Alignment explanation
Indices: 4482960--4483128 Score: 320
Period size: 84 Copynumber: 2.0 Consensus size: 84
4482950 TATCAATACA
*
4482960 CAGGTATTTGTATCGATACATAAAAGTTGACTTAAGCTACAAAGGTCAAAACCTTAGAATGTATC
1 CAGGTATTTGTATCGATACATAAAAGTTGACTTAAGCTACAAAGGTCAAAACCCTAGAATGTATC
4483025 GATACACACCCAGATGTAT
66 GATACACACCCAGATGTAT
4483044 CAGGTATTTGTATCGATACATAAAAGTTGACTTAAGCTACAAAGGTCAAAACCCTAGAATGTATC
1 CAGGTATTTGTATCGATACATAAAAGTTGACTTAAGCTACAAAGGTCAAAACCCTAGAATGTATC
*
4483109 GATACACACCTAGATGTAT
66 GATACACACCCAGATGTAT
4483128 C
1 C
4483129 GATACAATGT
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
84 83 1.00
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (84 bp):
CAGGTATTTGTATCGATACATAAAAGTTGACTTAAGCTACAAAGGTCAAAACCCTAGAATGTATC
GATACACACCCAGATGTAT
Found at i:4483127 original size:20 final size:21
Alignment explanation
Indices: 4483096--4483134 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
4483086 AGGTCAAAAC
4483096 CCTAGAATGTATCGATACACA
1 CCTAGAATGTATCGATACACA
4483117 CCTAG-ATGTATCGATACA
1 CCTAGAATGTATCGATACA
4483135 ATGTATCGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (21 bp):
CCTAGAATGTATCGATACACA
Found at i:4483245 original size:14 final size:14
Alignment explanation
Indices: 4483226--4483255 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
4483216 TAATTAATAC
4483226 ATCACTGTTCATGT
1 ATCACTGTTCATGT
4483240 ATCACTGTTCATGT
1 ATCACTGTTCATGT
4483254 AT
1 AT
4483256 TTCTATTCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.20, G:0.13, T:0.43
Consensus pattern (14 bp):
ATCACTGTTCATGT
Found at i:4483295 original size:13 final size:13
Alignment explanation
Indices: 4483277--4483301 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4483267 ACTATTCATA
4483277 TATCGATACAGTG
1 TATCGATACAGTG
4483290 TATCGATACAGT
1 TATCGATACAGT
4483302 ATGAATAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TATCGATACAGTG
Found at i:4483792 original size:36 final size:35
Alignment explanation
Indices: 4483729--4483796 Score: 100
Period size: 36 Copynumber: 1.9 Consensus size: 35
4483719 CTAAGTGATT
**
4483729 GAGAGGTTCTATCTTAGCCTTTAAAAAGGATAGAGA
1 GAGAGGTTCTATCTTAGCCCGTAAAAA-GATAGAGA
*
4483765 GAGAGGTTCTATCTTAGCCCGTGAAAAGATAG
1 GAGAGGTTCTATCTTAGCCCGTAAAAAGATAG
4483797 GAAGGTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 5 0.17
36 24 0.83
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.26
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCCGTAAAAAGATAGAGA
Found at i:4485151 original size:50 final size:51
Alignment explanation
Indices: 4485035--4485171 Score: 206
Period size: 50 Copynumber: 2.7 Consensus size: 51
4485025 ATTTGCTTGC
* *
4485035 ATGTATCGATAC-ATTGAAGAATGTATCGATATATTTGGGTCAAAAACCCAGA
1 ATGTATCGATACAATT-AA-AATGTATTGATACATTTGGGTCAAAAACCCAGA
* *
4485087 ATATATTGATACAATTAAAATGTATTGATACATTTGGGTC-AAAACCCAGA
1 ATGTATCGATACAATTAAAATGTATTGATACATTTGGGTCAAAAACCCAGA
4485137 ATGTATCGATACAATTAAAATGTATTGATACATTT
1 ATGTATCGATACAATTAAAATGTATTGATACATTT
4485172 TCATTCCAGA
Statistics
Matches: 78, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
50 43 0.55
51 20 0.26
52 12 0.15
53 3 0.04
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (51 bp):
ATGTATCGATACAATTAAAATGTATTGATACATTTGGGTCAAAAACCCAGA
Found at i:4485262 original size:20 final size:20
Alignment explanation
Indices: 4485239--4485280 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
4485229 TTATCAATAT
4485239 ATTCACTAATGTATCGATAC
1 ATTCACTAATGTATCGATAC
4485259 ATTCACTAATGTATCGATAC
1 ATTCACTAATGTATCGATAC
4485279 AT
1 AT
4485281 ATTGTAGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.36
Consensus pattern (20 bp):
ATTCACTAATGTATCGATAC
Found at i:4485997 original size:52 final size:53
Alignment explanation
Indices: 4485919--4486076 Score: 169
Period size: 52 Copynumber: 3.0 Consensus size: 53
4485909 AGATAATAAT
*
4485919 GATGAGAAAAGTGCTAATATGCTGATTCAAGGCAAACGACATTGGACTT-G-AA
1 GATGAGAAAA-TGCTAATGTGCTGATTCAAGGCAAACGACATTGGACTTAGAAA
* * * **
4485971 GATGAGAACAATGCCAATGTGCTGATTCAAGACTAGTGACATTGGACTTAGAAA
1 GATGAGAA-AATGCTAATGTGCTGATTCAAGGCAAACGACATTGGACTTAGAAA
* * * *
4486025 TATGACAAAGGTGCTAATGTGCTGATTCCAA-GCCAACGACATTGGACTTAGA
1 GATGAGAAA-ATGCTAATGTGCTGATT-CAAGGCAAACGACATTGGACTTAGA
4486077 GATAAAGGTT
Statistics
Matches: 87, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
52 40 0.46
53 4 0.05
54 40 0.46
55 3 0.03
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (53 bp):
GATGAGAAAATGCTAATGTGCTGATTCAAGGCAAACGACATTGGACTTAGAAA
Found at i:4486066 original size:54 final size:52
Alignment explanation
Indices: 4485919--4486076 Score: 167
Period size: 54 Copynumber: 3.0 Consensus size: 52
4485909 AGATAATAAT
*
4485919 GATGAGAAAAGTGCTAATATGCTGATTCAAGGCAAACGACATTGGACTT-G-AA
1 GATGAG-AAAGTGCTAATGTGCTGATTCAA-GCAAACGACATTGGACTTAGAAA
* * * **
4485971 GATGAGAACAATGCCAATGTGCTGATTCAAGACTAGTGACATTGGACTTAGAAA
1 GATGAGAA-AGTGCTAATGTGCTGATTCAAG-CAAACGACATTGGACTTAGAAA
* * *
4486025 TATGACAAAGGTGCTAATGTGCTGATTCCAAGCCAACGACATTGGACTTAGA
1 GATGAGAAA-GTGCTAATGTGCTGATT-CAAGCAAACGACATTGGACTTAGA
4486077 GATAAAGGTT
Statistics
Matches: 87, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
51 3 0.03
52 38 0.44
53 2 0.02
54 40 0.46
55 4 0.05
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (52 bp):
GATGAGAAAGTGCTAATGTGCTGATTCAAGCAAACGACATTGGACTTAGAAA
Found at i:4486327 original size:28 final size:28
Alignment explanation
Indices: 4486193--4486675 Score: 416
Period size: 28 Copynumber: 17.0 Consensus size: 28
4486183 TTTTAAGAGA
* * *
4486193 GTGCCACTAACTCGT-AGCTTCGAAAGG
1 GTGCCACTAACTTGTGGGCTTTGAAAGG
* * *
4486220 GTGCCACTGACTTGTAGGCTTTTAAAAAGG
1 GTGCCACTAACTTGTGGGC-TTT-GAAAGG
* * * * *
4486250 ATACCACCAACTTATGGGCTTTGAGAGG
1 GTGCCACTAACTTGTGGGCTTTGAAAGG
* * * * * * *
4486278 GTGCCATTGACTCGCGGACTTTAAAAAG
1 GTGCCACTAACTTGTGGGCTTTGAAAGG
*
4486306 GTGCTACTAACTTGTGGGCTTTTGAAAAGG
1 GTGCCACTAACTTGTGGGC-TTTG-AAAGG
* *
4486336 GTGCCACTAACTCGTGGGCTTTGAAAAG
1 GTGCCACTAACTTGTGGGCTTTGAAAGG
* *
4486364 GTGCCACTAACTTATGGGCTTTG-AGGG
1 GTGCCACTAACTTGTGGGCTTTGAAAGG
* * *
4486391 GTGCCACTGACTTGTAGGCTTTAAAAGG
1 GTGCCACTAACTTGTGGGCTTTGAAAGG
* * * *
4486419 ATGCCACTAACTTGTGTGTTTTGAAAAG
1 GTGCCACTAACTTGTGGGCTTTGAAAGG
* * * * *
4486447 ATGTCATTGACTTATGGGCTTTGAAAGG
1 GTGCCACTAACTTGTGGGCTTTGAAAGG
* *
4486475 GTGCCAC-AGAATTGTGGGCTTTGAAGGG
1 GTGCCACTA-ACTTGTGGGCTTTGAAAGG
4486503 GTGCCACTAACTTGTGGGCTTTGAGAA-G
1 GTGCCACTAACTTGTGGGCTTTGA-AAGG
* *
4486531 GTGTCACTAACTTCTGGGCTTTGAAAGG
1 GTGCCACTAACTTGTGGGCTTTGAAAGG
*
4486559 GTGCCACTGACTTGTGGGCTTTTGAAAAGG
1 GTGCCACTAACTTGTGGGC-TTTG-AAAGG
*
4486589 GTGCCACTGACTTGTGGGCTTTTGAAAAGG
1 GTGCCACTAACTTGTGGGC-TTTG-AAAGG
* **
4486619 GTGCCACTGACTCATGGGCTTTGAAAGG
1 GTGCCACTAACTTGTGGGCTTTGAAAGG
* * *
4486647 GTGTCACTAATTTGTGGGTTTTGAGAAGG
1 GTGCCACTAACTTGTGGGCTTTGA-AAGG
4486676 TTACTTTACT
Statistics
Matches: 362, Mismatches: 81, Indels: 24
0.78 0.17 0.05
Matches are distributed among these distances:
27 36 0.10
28 209 0.58
29 26 0.07
30 91 0.25
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (28 bp):
GTGCCACTAACTTGTGGGCTTTGAAAGG
Found at i:4486513 original size:84 final size:86
Alignment explanation
Indices: 4486209--4486675 Score: 496
Period size: 84 Copynumber: 5.5 Consensus size: 86
4486199 CTAACTCGTA
* * * * * * *
4486209 GCTTCGAAAGGGTGCCACTGACTTGTAGGCTTTTAAAAAGGATACCACCAACTTATGGGCTTTGA
1 GCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTGA
* * * * ***
4486274 GAGGGTGCCATTGACTCGCGG
66 AAAGGTGCCACTAACTTATGG
* * * * * *
4486295 ACTTTAAAAAGGTGCTACTAACTTGTGGGCTTTTGAAAAGGGTGCCACTAACTCGTGGGCTTTGA
1 GCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTGA
4486360 AAAGGTGCCACTAACTTATGG
66 AAAGGTGCCACTAACTTATGG
* * * * *
4486381 GCTTTG-AGGGGTGCCACTGACTTGTAGGC-TTT-AAAAGGATGCCACTAACTTGTGTGTTTTGA
1 GCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTGA
* * * *
4486443 AAAGATGTCATTGACTTATGG
66 AAAGGTGCCACTAACTTATGG
* * *
4486464 GCTTTGAAAGGGTGCCACAGAATTGTGGGC-TTTG-AAGGGGTGCCACTAACTTGTGGGCTTTGA
1 GCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTGA
* * *
4486527 GAAGGTGTCACTAACTTCTGG
66 AAAGGTGCCACTAACTTATGG
*
4486548 GCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTTG
1 GCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGC-TTTG
* *
4486613 AAAAGGGTGCCACTGACTCATGG
65 AAAA-GGTGCCACTAACTTATGG
* * * *
4486636 GCTTTGAAAGGGTGTCACTAATTTGTGGG-TTTTGAGAAGG
1 GCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTTGAAAAGG
4486676 TTACTTTACT
Statistics
Matches: 314, Mismatches: 61, Indels: 11
0.81 0.16 0.03
Matches are distributed among these distances:
83 49 0.16
84 94 0.30
85 22 0.07
86 92 0.29
87 17 0.05
88 40 0.13
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (86 bp):
GCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTGA
AAAGGTGCCACTAACTTATGG
Found at i:4488170 original size:14 final size:14
Alignment explanation
Indices: 4488153--4488197 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 14
4488143 CTTTTTTTCT
*
4488153 TTTTTTATTTTTGA
1 TTTTTGATTTTTGA
4488167 -TTTTGATTTTTTGA
1 TTTTTGA-TTTTTGA
4488181 -TTTTGATTTTT-A
1 TTTTTGATTTTTGA
4488193 TTTTT
1 TTTTT
4488198 TTTTTTTCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 1 0.04
13 14 0.50
14 13 0.46
ACGTcount: A:0.13, C:0.00, G:0.09, T:0.78
Consensus pattern (14 bp):
TTTTTGATTTTTGA
Found at i:4488176 original size:20 final size:20
Alignment explanation
Indices: 4488153--4488214 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
4488143 CTTTTTTTCT
4488153 TTTTTTATTTTTGATTTTGA
1 TTTTTTATTTTTGATTTTGA
*
4488173 TTTTTTGA-TTTTGATTTTTA
1 TTTTTT-ATTTTTGATTTTGA
* *
4488193 TTTTTTTTTTTTCA-TTTGA
1 TTTTTTATTTTTGATTTTGA
4488212 TTT
1 TTT
4488215 GATTTGATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
19 7 0.19
20 28 0.78
21 1 0.03
ACGTcount: A:0.13, C:0.02, G:0.08, T:0.77
Consensus pattern (20 bp):
TTTTTTATTTTTGATTTTGA
Found at i:4488198 original size:14 final size:13
Alignment explanation
Indices: 4488154--4488196 Score: 61
Period size: 14 Copynumber: 3.3 Consensus size: 13
4488144 TTTTTTTCTT
*
4488154 TTTTTATTTTTGA
1 TTTTGATTTTTGA
4488167 TTTTGATTTTTTGA
1 TTTTGA-TTTTTGA
4488181 TTTTGATTTTT-A
1 TTTTGATTTTTGA
4488193 TTTT
1 TTTT
4488197 TTTTTTTTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 5 0.18
13 10 0.36
14 13 0.46
ACGTcount: A:0.14, C:0.00, G:0.09, T:0.77
Consensus pattern (13 bp):
TTTTGATTTTTGA
Found at i:4497316 original size:15 final size:16
Alignment explanation
Indices: 4497296--4497329 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
4497286 AAACTAAAAG
4497296 AAAATAAT-AAATTGA
1 AAAATAATGAAATTGA
*
4497311 AAAATATTGAAATTGA
1 AAAATAATGAAATTGA
4497327 AAA
1 AAA
4497330 TCTAGAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.65, C:0.00, G:0.09, T:0.26
Consensus pattern (16 bp):
AAAATAATGAAATTGA
Found at i:4499168 original size:15 final size:15
Alignment explanation
Indices: 4499148--4499178 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4499138 TAAAAATGTC
*
4499148 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
4499163 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
4499178 C
1 C
4499179 CAAACGATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:4501267 original size:13 final size:13
Alignment explanation
Indices: 4501249--4501286 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
4501239 ACATTTTTCT
*
4501249 TTGTATTGATACA
1 TTGTATCGATACA
4501262 TTGTATCGATA-A
1 TTGTATCGATACA
*
4501274 ATGTATCGATACA
1 TTGTATCGATACA
4501287 GGGTGATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:4501450 original size:20 final size:20
Alignment explanation
Indices: 4501407--4501452 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
4501397 AAATATTTTG
4501407 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
4501428 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
4501448 CAAAA
1 CAAAA
4501453 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:4512137 original size:21 final size:20
Alignment explanation
Indices: 4512087--4512139 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
4512077 ATACATTTCG
*
4512087 TGTATCGATACATTCACTAA
1 TGTATCAATACATTCACTAA
*
4512107 TGTATCAATACATTCACTTAT
1 TGTATCAATACATTCAC-TAA
*
4512128 TGTATTAATACA
1 TGTATCAATACA
4512140 AATTGTAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 16 0.55
21 13 0.45
ACGTcount: A:0.36, C:0.17, G:0.08, T:0.40
Consensus pattern (20 bp):
TGTATCAATACATTCACTAA
Found at i:4513129 original size:23 final size:22
Alignment explanation
Indices: 4513103--4513153 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
4513093 AAAAAATAAT
*
4513103 AATAAAAAAAGAAAAGTGGAAAA
1 AATAAAAAAA-AAAAGTGAAAAA
* *
4513126 AATATAAAGAAAAAATTGAAAAA
1 AATA-AAAAAAAAAAGTGAAAAA
4513149 AATAA
1 AATAA
4513154 GAATTATATG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
22 1 0.04
23 18 0.75
24 5 0.21
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.14
Consensus pattern (22 bp):
AATAAAAAAAAAAAGTGAAAAA
Found at i:4515769 original size:171 final size:171
Alignment explanation
Indices: 4515476--4515817 Score: 621
Period size: 171 Copynumber: 2.0 Consensus size: 171
4515466 ACTGTTGACA
*
4515476 AATTCAACTGACTAAAAAGATGACTCCAGTACATCTTTGTTGGGCTTAATATATAGAGTATCAGG
1 AATTCAAATGACTAAAAAGATGACTCCAGTACATCTTTGTTGGGCTTAATATATAGAGTATCAGG
* * * *
4515541 TGAGGTACCAACAATGATATTTTTCTCCTTTCCAATGGCAAGCTTGTTTTTAATAATAGATTTTA
66 TGAGGTACCAACAATAATATTTTTCTCCTTTCCAATGACAAGCTTGCTTTAAATAATAGATTTTA
*
4515606 GCTTTTGAAGCAATGATGATGGCATCGCCCTAACAATTGTT
131 GCTTTTAAAGCAATGATGATGGCATCGCCCTAACAATTGTT
4515647 AATTCAAATGACTAAAAAGATGACTCCAGTACATCTTTGTTGGGCTTAATATATAGAGTATCAGG
1 AATTCAAATGACTAAAAAGATGACTCCAGTACATCTTTGTTGGGCTTAATATATAGAGTATCAGG
*
4515712 TGAGGTACCAATAATAATATTTTTCTCCTTTCCAATGACAAGCTTGCTTTAAATAATAGATTTTA
66 TGAGGTACCAACAATAATATTTTTCTCCTTTCCAATGACAAGCTTGCTTTAAATAATAGATTTTA
4515777 GCTTTTAAAGCAATGATGATGGCATCGCCCTAACAATTGTT
131 GCTTTTAAAGCAATGATGATGGCATCGCCCTAACAATTGTT
4515818 TTTTTTACAG
Statistics
Matches: 164, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
171 164 1.00
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (171 bp):
AATTCAAATGACTAAAAAGATGACTCCAGTACATCTTTGTTGGGCTTAATATATAGAGTATCAGG
TGAGGTACCAACAATAATATTTTTCTCCTTTCCAATGACAAGCTTGCTTTAAATAATAGATTTTA
GCTTTTAAAGCAATGATGATGGCATCGCCCTAACAATTGTT
Found at i:4519660 original size:61 final size:61
Alignment explanation
Indices: 4519560--4519682 Score: 237
Period size: 61 Copynumber: 2.0 Consensus size: 61
4519550 TTCTTAGCCC
4519560 AGAGTTACCTTGTCCTTTTCCCTTTGTAGCTCAAAATAGTAAACCTATTTTCATGAATCAA
1 AGAGTTACCTTGTCCTTTTCCCTTTGTAGCTCAAAATAGTAAACCTATTTTCATGAATCAA
*
4519621 AGAGTTACCTTGTCCTTTTCCCTTTGTAGCTCAAGATAGTAAACCTATTTTCATGAATCAA
1 AGAGTTACCTTGTCCTTTTCCCTTTGTAGCTCAAAATAGTAAACCTATTTTCATGAATCAA
4519682 A
1 A
4519683 TGCTACTTGT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.37
Consensus pattern (61 bp):
AGAGTTACCTTGTCCTTTTCCCTTTGTAGCTCAAAATAGTAAACCTATTTTCATGAATCAA
Found at i:4523564 original size:21 final size:21
Alignment explanation
Indices: 4523540--4523589 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
4523530 CAAAAAATCC
* *
4523540 AAAATAATCTCCTTCTAGGAG
1 AAAATAATCTCCTTCCAAGAG
*
4523561 AAAATTATCTCCTTCCAAGAG
1 AAAATAATCTCCTTCCAAGAG
4523582 AAAATAAT
1 AAAATAAT
4523590 TTTTGAAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.44, C:0.18, G:0.10, T:0.28
Consensus pattern (21 bp):
AAAATAATCTCCTTCCAAGAG
Found at i:4529865 original size:20 final size:20
Alignment explanation
Indices: 4529809--4529866 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
4529799 AAAGCTTTAA
4529809 TCTTTTTGCTTCTATTTTCTC
1 TCTTTTTGCTTCT-TTTTCTC
*
4529830 TC-TTTTCCTTCCTTTTTCTC
1 TCTTTTTGCTT-CTTTTTCTC
*
4529850 TCTTTTTGCTTGTTTTT
1 TCTTTTTGCTTCTTTTT
4529867 TTTTTTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
20 21 0.66
21 11 0.34
ACGTcount: A:0.02, C:0.24, G:0.05, T:0.69
Consensus pattern (20 bp):
TCTTTTTGCTTCTTTTTCTC
Found at i:4533923 original size:16 final size:18
Alignment explanation
Indices: 4533889--4533923 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
4533879 CATAAAACTT
4533889 TTTATATTATAATAAAAA
1 TTTATATTATAATAAAAA
4533907 TTTATATTA-AA-AAAAA
1 TTTATATTATAATAAAAA
4533923 T
1 T
4533924 CAGAAAACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 2 0.12
18 9 0.53
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TTTATATTATAATAAAAA
Found at i:4538421 original size:33 final size:33
Alignment explanation
Indices: 4538374--4538439 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
4538364 TACTTGAAAC
*
4538374 CAGTTTTCCCCTACTAATGAAAGTGGTTCCTGT
1 CAGTTTTCCACTACTAATGAAAGTGGTTCCTGT
*
4538407 CAGTTTTCCACTACTACTGAAAGTGGTTCCTGT
1 CAGTTTTCCACTACTAATGAAAGTGGTTCCTGT
4538440 TCTTCTGCCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.36
Consensus pattern (33 bp):
CAGTTTTCCACTACTAATGAAAGTGGTTCCTGT
Found at i:4553949 original size:28 final size:28
Alignment explanation
Indices: 4553909--4553962 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
4553899 TGTAGTGTAT
*
4553909 TTAGCTTCCAACTTAACTGGGTTTTCAC
1 TTAGCCTCCAACTTAACTGGGTTTTCAC
4553937 TTAGCCTCCAACTTAACTGGGTTTTC
1 TTAGCCTCCAACTTAACTGGGTTTTC
4553963 TCTTCCAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.20, C:0.26, G:0.15, T:0.39
Consensus pattern (28 bp):
TTAGCCTCCAACTTAACTGGGTTTTCAC
Found at i:4555459 original size:3 final size:3
Alignment explanation
Indices: 4555446--4555486 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
4555436 AATAGCAGGC
* *
4555446 TGA TAA TGA TGA TGA TGA CGA TGA TGA TGA -GA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
4555487 ATACAGAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.37, C:0.02, G:0.32, T:0.29
Consensus pattern (3 bp):
TGA
Found at i:4556550 original size:13 final size:13
Alignment explanation
Indices: 4556532--4556570 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
4556522 TTAAAAAGAT
4556532 TTAAATTAAAATA
1 TTAAATTAAAATA
*
4556545 TTAAATTAAAAAA
1 TTAAATTAAAATA
*
4556558 TTAAATTTAAATA
1 TTAAATTAAAATA
4556571 AAAAATAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TTAAATTAAAATA
Found at i:4556568 original size:14 final size:13
Alignment explanation
Indices: 4556522--4556564 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
4556512 TTTTTTATAT
4556522 TTAAAAAGATTTAAA
1 TTAAAAA-A-TTAAA
*
4556537 TTAAAATATTAAA
1 TTAAAAAATTAAA
4556550 TTAAAAAATTAAA
1 TTAAAAAATTAAA
4556563 TT
1 TT
4556565 TAAATAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 19 0.73
14 1 0.04
15 6 0.23
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (13 bp):
TTAAAAAATTAAA
Found at i:4556572 original size:18 final size:19
Alignment explanation
Indices: 4556534--4556582 Score: 64
Period size: 18 Copynumber: 2.5 Consensus size: 19
4556524 AAAAAGATTT
4556534 AAATTAAAATATTAAATTAAA
1 AAATT-AAAT-TTAAATTAAA
4556555 AAATTAAATTTAAA-TAAA
1 AAATTAAATTTAAATTAAA
*
4556573 AAATAAAATT
1 AAATTAAATT
4556583 ATTTTAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 13 0.48
19 5 0.19
20 4 0.15
21 5 0.19
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
AAATTAAATTTAAATTAAA
Found at i:4556576 original size:26 final size:28
Alignment explanation
Indices: 4556522--4556580 Score: 70
Period size: 26 Copynumber: 2.2 Consensus size: 28
4556512 TTTTTTATAT
**
4556522 TTAAAAAGATTTAAATTAAAATATTAAA
1 TTAAAAAGATTTAAATTAAAATAAAAAA
*
4556550 TTAAAAA-A-TTAAATTTAAATAAAAAA
1 TTAAAAAGATTTAAATTAAAATAAAAAA
4556576 -TAAAA
1 TTAAAA
4556581 TTATTTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 5 0.18
26 15 0.54
27 1 0.04
28 7 0.25
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (28 bp):
TTAAAAAGATTTAAATTAAAATAAAAAA
Found at i:4556703 original size:20 final size:20
Alignment explanation
Indices: 4556664--4556741 Score: 88
Period size: 20 Copynumber: 4.0 Consensus size: 20
4556654 TATAATATAA
*
4556664 ATTTTT-AAAAAATCAA-TC
1 ATTTTTAAAAAAATTAATTC
*
4556682 ATTTTTAAAAAAATTTATTC
1 ATTTTTAAAAAAATTAATTC
* *
4556702 ATTTTAAATAAAAATTAATTA
1 ATTTTTAA-AAAAATTAATTC
*
4556723 ATTTTTATAAAAATTAATT
1 ATTTTTAAAAAAATTAATT
4556742 TTTTAAAATA
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
18 6 0.12
19 8 0.16
20 20 0.40
21 16 0.32
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (20 bp):
ATTTTTAAAAAAATTAATTC
Found at i:4556715 original size:40 final size:40
Alignment explanation
Indices: 4556671--4556754 Score: 100
Period size: 41 Copynumber: 2.1 Consensus size: 40
4556661 TAAATTTTTA
* *
4556671 AAAAATCAA-TCATTTTTAAAAAAATTTATTCATTTT-AAAT
1 AAAAATCAATTAATTTTTAAAAAAATTAATT--TTTTAAAAT
* *
4556711 AAAAATTAATTAATTTTTATAAAAATTAATTTTTTAAAAT
1 AAAAATCAATTAATTTTTAAAAAAATTAATTTTTTAAAAT
4556751 AAAA
1 AAAA
4556755 TTTTAAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
39 4 0.11
40 16 0.42
41 18 0.47
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.43
Consensus pattern (40 bp):
AAAAATCAATTAATTTTTAAAAAAATTAATTTTTTAAAAT
Found at i:4556748 original size:15 final size:16
Alignment explanation
Indices: 4556718--4556749 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
4556708 AATAAAAATT
4556718 AATTAATTTTTATAAA
1 AATTAATTTTTATAAA
4556734 AATTAATTTTT-TAAA
1 AATTAATTTTTATAAA
4556749 A
1 A
4556750 TAAAATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AATTAATTTTTATAAA
Found at i:4556752 original size:20 final size:20
Alignment explanation
Indices: 4556671--4556754 Score: 75
Period size: 20 Copynumber: 4.2 Consensus size: 20
4556661 TAAATTTTTA
* * *
4556671 AAAAATCAATCATTTTTAA-
1 AAAAATTAATTATTTTAAAT
*
4556690 AAAAATTTATTCATTTTAAAT
1 AAAAATTAATT-ATTTTAAAT
*
4556711 AAAAATTAATTAATTTT-TAT
1 AAAAATTAATT-ATTTTAAAT
4556731 AAAAATTAATT-TTTTAAAAT
1 AAAAATTAATTATTTT-AAAT
4556751 AAAA
1 AAAA
4556755 TTTTAAATAA
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
18 4 0.08
19 8 0.15
20 26 0.49
21 15 0.28
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.43
Consensus pattern (20 bp):
AAAAATTAATTATTTTAAAT
Found at i:4557159 original size:22 final size:23
Alignment explanation
Indices: 4557120--4557162 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
4557110 ATTTAATTAT
4557120 AATTATTAATAATTTTTTAAAAA
1 AATTATTAATAATTTTTTAAAAA
4557143 AATTA-TAAT-ATTATTTTAAA
1 AATTATTAATAATT-TTTTAAA
4557163 TAACCAAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 3 0.16
22 11 0.58
23 5 0.26
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
AATTATTAATAATTTTTTAAAAA
Found at i:4557344 original size:2 final size:2
Alignment explanation
Indices: 4557339--4557369 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4557329 AAAAATAGTG
4557339 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4557370 CATGACTTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4559495 original size:3 final size:3
Alignment explanation
Indices: 4559487--4559540 Score: 92
Period size: 3 Copynumber: 18.0 Consensus size: 3
4559477 GCATGTAAGC
4559487 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A
4559533 TT- TTA TTA
1 TTA TTA TTA
4559541 CAGAGCTTGA
Statistics
Matches: 49, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 2 0.04
3 44 0.90
4 3 0.06
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:4560760 original size:2 final size:2
Alignment explanation
Indices: 4560753--4560803 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
4560743 GTCAAAATTT
4560753 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4560795 TA TA TA TA T
1 TA TA TA TA T
4560804 GGTATTGGTA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4561748 original size:16 final size:16
Alignment explanation
Indices: 4561729--4561780 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
4561719 AGCTTATTCA
4561729 GGTTTAGACCTATTTG
1 GGTTTAGACCTATTTG
* * *
4561745 GGTTTAAACTTTTTTG
1 GGTTTAGACCTATTTG
* * *
4561761 AGTTTAGATCTATTCG
1 GGTTTAGACCTATTTG
4561777 GGTT
1 GGTT
4561781 CAAGCTTTTT
Statistics
Matches: 26, Mismatches: 10, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.19, C:0.10, G:0.23, T:0.48
Consensus pattern (16 bp):
GGTTTAGACCTATTTG
Found at i:4561774 original size:32 final size:32
Alignment explanation
Indices: 4561730--4561791 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
4561720 GCTTATTCAG
* *
4561730 GTTTAGACCTATTTGGGTTTAAACTTTTTTGA
1 GTTTAGACCTATTCGGGTTCAAACTTTTTTGA
* *
4561762 GTTTAGATCTATTCGGGTTCAAGCTTTTTT
1 GTTTAGACCTATTCGGGTTCAAACTTTTTT
4561792 AGATTTGGAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.19, C:0.11, G:0.19, T:0.50
Consensus pattern (32 bp):
GTTTAGACCTATTCGGGTTCAAACTTTTTTGA
Found at i:4561959 original size:28 final size:30
Alignment explanation
Indices: 4561928--4561986 Score: 70
Period size: 28 Copynumber: 2.0 Consensus size: 30
4561918 TATTTACACC
4561928 TAAAA-AATAAATTATTA-AATTATT-ATTT
1 TAAAATAA-AAATTATTATAATTATTCATTT
* *
4561956 TAAAATAAAATTTATTATAATTTTTCATTT
1 TAAAATAAAAATTATTATAATTATTCATTT
4561986 T
1 T
4561987 CAATATATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
28 13 0.50
29 8 0.31
30 5 0.19
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (30 bp):
TAAAATAAAAATTATTATAATTATTCATTT
Found at i:4562015 original size:20 final size:19
Alignment explanation
Indices: 4561990--4562045 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 19
4561980 TCATTTTCAA
4561990 TATATTTATTTATTAAAATC
1 TATATTTATTTA-TAAAATC
4562010 TATATTTATTTATAAAAT-
1 TATATTTATTTATAAAATC
*
4562028 TA-ATTTGTTATATAAAAT
1 TATATTTATT-TATAAAAT
4562046 TAATTTTTCA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
17 6 0.18
18 10 0.29
19 6 0.18
20 12 0.35
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (19 bp):
TATATTTATTTATAAAATC
Found at i:4562043 original size:18 final size:18
Alignment explanation
Indices: 4561993--4562051 Score: 68
Period size: 18 Copynumber: 3.2 Consensus size: 18
4561983 TTTTCAATAT
4561993 ATTTATT-TATTAAAATCTA
1 ATTTATTATA-TAAAAT-TA
4562012 TATTTATT-TATAAAATTA
1 -ATTTATTATATAAAATTA
*
4562030 ATTTGTTATATAAAATTA
1 ATTTATTATATAAAATTA
4562048 ATTT
1 ATTT
4562052 TTCAATAATT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
17 6 0.16
18 16 0.43
19 6 0.16
20 9 0.24
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (18 bp):
ATTTATTATATAAAATTA
Found at i:4562731 original size:23 final size:22
Alignment explanation
Indices: 4562705--4562768 Score: 56
Period size: 25 Copynumber: 2.6 Consensus size: 22
4562695 AACATATGAT
4562705 TTATTTTTTATTTTTGATATATA
1 TTATTTTTTATTTTT-ATATATA
*
4562728 TTATCTATTATGATTTTTATATATA
1 TTAT-T-TT-TTATTTTTATATATA
*
4562753 TTTTTTAATTTATTTT
1 TTATTT--TTTATTTT
4562769 ATTACTTGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
23 5 0.15
24 8 0.24
25 13 0.39
26 7 0.21
ACGTcount: A:0.27, C:0.02, G:0.03, T:0.69
Consensus pattern (22 bp):
TTATTTTTTATTTTTATATATA
Found at i:4562996 original size:22 final size:22
Alignment explanation
Indices: 4562971--4563014 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
4562961 TTAAGCTCAT
4562971 GATATAATTTACTTTTTGATAA
1 GATATAATTTACTTTTTGATAA
*
4562993 GATATAATTTATTTTTTGATAA
1 GATATAATTTACTTTTTGATAA
4563015 ATTATTGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.52
Consensus pattern (22 bp):
GATATAATTTACTTTTTGATAA
Found at i:4565367 original size:12 final size:12
Alignment explanation
Indices: 4565329--4565369 Score: 50
Period size: 10 Copynumber: 3.5 Consensus size: 12
4565319 ACTATTTAAA
4565329 TAAATATTAATAT
1 TAAATATTAAT-T
*
4565342 AAAATATT--TT
1 TAAATATTAATT
4565352 TAAATATTAATT
1 TAAATATTAATT
4565364 TAAATA
1 TAAATA
4565370 ATAAAACGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
10 8 0.33
11 1 0.04
12 8 0.33
13 7 0.29
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
TAAATATTAATT
Found at i:4566439 original size:15 final size:15
Alignment explanation
Indices: 4566403--4566445 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
4566393 TTAGATATTT
**
4566403 ATATTTTACTTAAAA
1 ATATTTTAAATAAAA
4566418 ATAATTTTAAATAAAA
1 AT-ATTTTAAATAAAA
4566434 ATATTTTAAATA
1 ATATTTTAAATA
4566446 TTTTTTATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
ATATTTTAAATAAAA
Found at i:4567110 original size:2 final size:2
Alignment explanation
Indices: 4567103--4567127 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4567093 ATTTTAGATT
4567103 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
4567128 CTTTTTTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4567420 original size:20 final size:19
Alignment explanation
Indices: 4567333--4567423 Score: 71
Period size: 20 Copynumber: 4.7 Consensus size: 19
4567323 AAATATAACA
4567333 CAAAAATAAAATAAATATAAT
1 CAAAAAT-AAATAAATAT-AT
* * *
4567354 TAAAACTTAATAAA-ATA-
1 CAAAAATAAATAAATATAT
*
4567371 -AAAAATAATGTAAATATAT
1 CAAAAATAA-ATAAATATAT
**
4567390 CATTAATAAATAAATATAT
1 CAAAAATAAATAAATATAT
4567409 CAAAATATAAATAAA
1 CAAAA-ATAAATAAA
4567424 ATAAATTATT
Statistics
Matches: 54, Mismatches: 11, Indels: 11
0.71 0.14 0.14
Matches are distributed among these distances:
16 6 0.11
17 4 0.07
18 4 0.07
19 14 0.26
20 21 0.39
21 5 0.09
ACGTcount: A:0.66, C:0.04, G:0.01, T:0.29
Consensus pattern (19 bp):
CAAAAATAAATAAATATAT
Found at i:4568892 original size:33 final size:32
Alignment explanation
Indices: 4568836--4568897 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
4568826 ATTCAGTGTG
4568836 TATCGATATCAAGAACATGTATCGATACAATA
1 TATCGATATCAAGAACATGTATCGATACAATA
*
4568868 TATCGATA-CAAAGCAATATGTATCGATACA
1 TATCGATATC-AAG-AACATGTATCGATACA
4568898 TCTGGGTGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 1 0.04
32 11 0.41
33 15 0.56
ACGTcount: A:0.44, C:0.16, G:0.13, T:0.27
Consensus pattern (32 bp):
TATCGATATCAAGAACATGTATCGATACAATA
Found at i:4573930 original size:152 final size:154
Alignment explanation
Indices: 4573750--4574150 Score: 436
Period size: 157 Copynumber: 2.6 Consensus size: 154
4573740 AATTTTAATA
* * * *
4573750 TTTTAGAGATAAAAACGGGGTTGGAGTATCTCCTCGAAAATAATGGGGTTAGAGTATCCCCGATG
1 TTTTAGAAAT-AAAACGGGGTTGCAGTATCCCCTCGAAAATAACGGGGTTAGAGTATCCCCGATG
** *
4573815 GTGAAAAATTGGTGTTTTGGAAAT-AA-GGGTTGGAGTATCCCCTCGAAAATAACAGGATTAGAG
65 GTGAAAAATCAGTGTTTTAGAAATAAACGGGTTGGAGTATCCCCTCGAAAATAACAGGATTAGAG
* *
4573878 T-TCCCCAATTGTGTAAAATTAG-TG
130 TATCCCCAATGGTG-AAAAATAGATG
* * *
4573902 TTTTAGAAATAAAACTGGGGTTTCAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCCCGATG
1 TTTTAGAAATAAAAC-GGGGTTGCAGTATCCCCTCGAAAATAACGGGGTTAGAGTATCCCCGATG
* * * * * *
4573967 GTGAAAAATCAGTGTTTTAGAAATAAAACTGGGGTTGGAGTATCCTCTTGGAAATAACGGGGTTG
65 GTGAAAAATCAGTGTTTTAGAAAT-AAAC--GGGTTGGAGTATCCCCTCGAAAATAACAGGATTA
* *
4574032 GAGTATCCCCGATGGTGAAAAATCGATG
127 GAGTATCCCCAATGGTGAAAAATAGATG
* * * * * ** *
4574060 TTTTAGAAATAAAACCGAGATTGGATTAACCTTTCGAAAATAAC-GGGTT-GAAGTATCTCCGAT
1 TTTTAGAAATAAAA-CGGGGTTGCAGTATCCCCTCGAAAATAACGGGGTTAG-AGTATCCCCGAT
4574123 GGTGAAAAATCAGTGTTTTAGAAATAAA
64 GGTGAAAAATCAGTGTTTTAGAAATAAA
4574151 AACATAAATA
Statistics
Matches: 209, Mismatches: 30, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
151 5 0.02
152 73 0.35
154 2 0.01
156 4 0.02
157 79 0.38
158 45 0.22
159 1 0.00
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (154 bp):
TTTTAGAAATAAAACGGGGTTGCAGTATCCCCTCGAAAATAACGGGGTTAGAGTATCCCCGATGG
TGAAAAATCAGTGTTTTAGAAATAAACGGGTTGGAGTATCCCCTCGAAAATAACAGGATTAGAGT
ATCCCCAATGGTGAAAAATAGATG
Found at i:4573990 original size:79 final size:78
Alignment explanation
Indices: 4573750--4574151 Score: 451
Period size: 79 Copynumber: 5.2 Consensus size: 78
4573740 AATTTTAATA
* * * * *
4573750 TTTTAGAGATAAAAACGGGGTTGGAGTATCTCCTCGAAAATAATGGGGTTAGAGTATCCCCGATG
1 TTTTAGAAAT-AAAACGGGGTTGGAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCCCGATG
**
4573815 GTGAAAAATTGGTG
65 GTGAAAAATCAGTG
* * * * * * *
4573829 TTTTGGAAAT--AA--GGGTTGGAGTATCCCCTCGAAAATAACAGGATTAGAGT-TCCCCAATTG
1 TTTTAGAAATAAAACGGGGTTGGAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCCCGATGG
* *
4573889 TGTAAAATTAGTG
66 TGAAAAATCAGTG
**
4573902 TTTTAGAAATAAAACTGGGGTTTCAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCCCGATG
1 TTTTAGAAATAAAAC-GGGGTTGGAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCCCGATG
4573967 GTGAAAAATCAGTG
65 GTGAAAAATCAGTG
* *
4573981 TTTTAGAAATAAAACTGGGGTTGGAGTATCCTCTTGGAAATAACGGGGTTGGAGTATCCCCGATG
1 TTTTAGAAATAAAAC-GGGGTTGGAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCCCGATG
4574046 GTGAAAAATC-GATG
65 GTGAAAAATCAG-TG
* * * * * * *
4574060 TTTTAGAAATAAAACCGAGATTGGATTA-ACCTTTCGAAAATAAC-GGGTTGAAGTATCTCCGAT
1 TTTTAGAAATAAAA-CGGGGTTGGAGTATCCCCTT-GAAAATAACGGGGTTGGAGTATCCCCGAT
4574123 GGTGAAAAATCAGTG
64 GGTGAAAAATCAGTG
4574138 TTTTAGAAATAAAA
1 TTTTAGAAATAAAA
4574152 ACATAAATAT
Statistics
Matches: 279, Mismatches: 34, Indels: 21
0.84 0.10 0.06
Matches are distributed among these distances:
73 28 0.10
74 34 0.12
75 2 0.01
76 2 0.01
78 80 0.29
79 132 0.47
80 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.29
Consensus pattern (78 bp):
TTTTAGAAATAAAACGGGGTTGGAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCCCGATGG
TGAAAAATCAGTG
Found at i:4578588 original size:24 final size:24
Alignment explanation
Indices: 4578556--4578609 Score: 83
Period size: 24 Copynumber: 2.2 Consensus size: 24
4578546 TACACATCTT
4578556 TCATTAATTCTAAAATTTA-AAACA
1 TCATTAATTCT-AAATTTATAAACA
*
4578580 TCATTAATTCTATATTTATAAACA
1 TCATTAATTCTAAATTTATAAACA
4578604 TCATTA
1 TCATTA
4578610 TATAACTGTC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
23 6 0.21
24 22 0.79
ACGTcount: A:0.44, C:0.13, G:0.00, T:0.43
Consensus pattern (24 bp):
TCATTAATTCTAAATTTATAAACA
Found at i:4582436 original size:19 final size:17
Alignment explanation
Indices: 4582411--4582453 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 17
4582401 AAAGGAAAGG
4582411 AGAAAAGGGAAAAAGGAA
1 AGAAAAGGGAAAAA-GAA
*
4582429 AGATAAAGGGAAAGAGAA
1 AGA-AAAGGGAAAAAGAA
4582447 AGAAAAG
1 AGAAAAG
4582454 AAATAAAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 4 0.17
18 9 0.39
19 10 0.43
ACGTcount: A:0.65, C:0.00, G:0.33, T:0.02
Consensus pattern (17 bp):
AGAAAAGGGAAAAAGAA
Found at i:4586361 original size:20 final size:20
Alignment explanation
Indices: 4586336--4586387 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
4586326 TAGTAACCCA
4586336 TGTATCGATACAAAGAACAT
1 TGTATCGATACAAAGAACAT
4586356 TGTATCGATACAAAGAACAT
1 TGTATCGATACAAAGAACAT
*
4586376 TATATCGATACA
1 TGTATCGATACA
4586388 TTTGAGTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.27
Consensus pattern (20 bp):
TGTATCGATACAAAGAACAT
Found at i:4590895 original size:9 final size:9
Alignment explanation
Indices: 4590881--4590914 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
4590871 CGAGTCAACT
4590881 TCATCATTA
1 TCATCATTA
*
4590890 TCATCATCA
1 TCATCATTA
4590899 TCATCATTA
1 TCATCATTA
*
4590908 TCTTCAT
1 TCATCAT
4590915 CATCTTTGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.29, C:0.26, G:0.00, T:0.44
Consensus pattern (9 bp):
TCATCATTA
Found at i:4590902 original size:18 final size:18
Alignment explanation
Indices: 4590881--4590918 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
4590871 CGAGTCAACT
4590881 TCATCATTATCATCATCA
1 TCATCATTATCATCATCA
*
4590899 TCATCATTATCTTCATCA
1 TCATCATTATCATCATCA
4590917 TC
1 TC
4590919 TTTGATGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.42
Consensus pattern (18 bp):
TCATCATTATCATCATCA
Found at i:4593404 original size:15 final size:15
Alignment explanation
Indices: 4593365--4593404 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
4593355 AGCATTACTA
4593365 TTGAGAAAAGGTTGGG
1 TTGA-AAAAGGTTGGG
*
4593381 TTAGAAAAAGTTTGGG
1 TT-GAAAAAGGTTGGG
4593397 TTGAAAAA
1 TTGAAAAA
4593405 AGCATGGTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 6 0.27
16 14 0.64
17 2 0.09
ACGTcount: A:0.40, C:0.00, G:0.33, T:0.28
Consensus pattern (15 bp):
TTGAAAAAGGTTGGG
Found at i:4593516 original size:16 final size:17
Alignment explanation
Indices: 4593497--4593528 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4593487 AAAAAAATAT
4593497 ATTTAAA-ATAATAAAA
1 ATTTAAATATAATAAAA
4593513 ATTTAAATATAATAAA
1 ATTTAAATATAATAAA
4593529 GTTATTTCAT
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:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
ATTTAAATATAATAAAA
Found at i:4598043 original size:39 final size:40
Alignment explanation
Indices: 4597999--4598090 Score: 96
Period size: 39 Copynumber: 2.3 Consensus size: 40
4597989 CAAAGCAACT
** * *
4597999 TCCATAATGCATTGAAGTTGTCAATTGTTAAATTCTA-AA
1 TCCATAATGCATTGAAACTATCAATTGTCAAATTCTATAA
** * * *
4598038 TCCATAACACATTGAAACTATGAATTGTCAAATTTTATCA
1 TCCATAATGCATTGAAACTATCAATTGTCAAATTCTATAA
4598078 TCCATAATGCATT
1 TCCATAATGCATT
4598091 TAATATGTCA
Statistics
Matches: 41, Mismatches: 11, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
39 29 0.71
40 12 0.29
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (40 bp):
TCCATAATGCATTGAAACTATCAATTGTCAAATTCTATAA
Found at i:4601278 original size:18 final size:18
Alignment explanation
Indices: 4601250--4601294 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
4601240 CTTTCATGTG
* *
4601250 AGGGCTATCATCTATATA
1 AGGGTTATCATCCATATA
*
4601268 AGGTTTATCATCCATATA
1 AGGGTTATCATCCATATA
4601286 AGGGTTATC
1 AGGGTTATC
4601295 CTCAATCTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.36
Consensus pattern (18 bp):
AGGGTTATCATCCATATA
Found at i:4605434 original size:51 final size:51
Alignment explanation
Indices: 4605375--4605483 Score: 146
Period size: 51 Copynumber: 2.1 Consensus size: 51
4605365 AACGGGGTTA
* ** * *
4605375 GAGTATCCCTGATTGTGTGAAATTGGTGTTTTGGAAATAAAATCAAAGTTG
1 GAGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAATAAAATCAAAGTTG
***
4605426 GAGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAATAAAATCGGGGTTG
1 GAGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAATAAAATCAAAGTTG
4605477 GAGTATC
1 GAGTATC
4605484 TCTTCAGAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.33
Consensus pattern (51 bp):
GAGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAATAAAATCAAAGTTG
Found at i:4605500 original size:28 final size:28
Alignment explanation
Indices: 4605469--4605545 Score: 86
Period size: 28 Copynumber: 2.8 Consensus size: 28
4605459 GAAATAAAAT
*
4605469 CGGGGTTGGAGTATCTCTTC-A-GAAATAA
1 CGGGGTTGGAGTATC-C-CCGATGAAATAA
* *
4605497 CGGGATTAGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
4605525 CGGGGTTGGAGTACCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
4605546 TATGAAAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
26 1 0.02
27 2 0.05
28 38 0.93
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:4605618 original size:109 final size:107
Alignment explanation
Indices: 4605422--4605623 Score: 253
Period size: 109 Copynumber: 1.9 Consensus size: 107
4605412 TAAAATCAAA
* * * ** * * * *
4605422 GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAATAAAATCGGGGTTGGAGTATCTCT
1 GTTGGAGTACCCCCGATTATGAAAAAATAATATTTTAGAAATAAAACCGGAGTTGGAGTATCCCC
4605487 TCAGAAATAACGGGATTAGAGTATCCCCGATGAAATAACGGG
66 TCAGAAATAACGGGATTAGAGTATCCCCGATGAAATAACGGG
* *
4605529 GTTGGAGTACCCCCGATTATGAAAAAAATAATATTTTTAGATATAAAGCCGGAGTTGGAGTATCC
1 GTTGGAGTACCCCCGATTATG-AAAAAATAATA-TTTTAGAAATAAAACCGGAGTTGGAGTATCC
* *
4605594 CCTC-GAAAATAACGGGGTTGGAGTATCCCC
64 CCTCAG-AAATAACGGGATTAGAGTATCCCC
4605624 AATTGTGAAA
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
107 19 0.24
108 9 0.11
109 51 0.65
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (107 bp):
GTTGGAGTACCCCCGATTATGAAAAAATAATATTTTAGAAATAAAACCGGAGTTGGAGTATCCCC
TCAGAAATAACGGGATTAGAGTATCCCCGATGAAATAACGGG
Done.