Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 120 of 333
Found at i:38711674 original size:55 final size:54
Alignment explanation
Indices: 38711574--38711699 Score: 130
Period size: 55 Copynumber: 2.3 Consensus size: 54
38711564 GGTAAATCTA
* ** * * *
38711574 CAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTCTTTTTGTAATTTTT
1 CAAATCAAGGGTATTTTTGTAATTCTGTAAACCAAGGGTCTTTTTGTAATTTTC
* * * *
38711628 GAAAGTCAAGGGTATTTTTGTAATTCTGTAAATCAGGGGTAC-TTTTGTCATTTTC
1 CAAA-TCAAGGGTATTTTTGTAATTCTGTAAACCAAGGGT-CTTTTTGTAATTTTC
38711683 CAAATCAAGGGT-TTTTT
1 CAAATCAAGGGTATTTTT
38711700 ATTAATTTTC
Statistics
Matches: 59, Mismatches: 11, Indels: 5
0.79 0.15 0.07
Matches are distributed among these distances:
53 5 0.08
54 11 0.19
55 42 0.71
56 1 0.02
ACGTcount: A:0.28, C:0.12, G:0.18, T:0.42
Consensus pattern (54 bp):
CAAATCAAGGGTATTTTTGTAATTCTGTAAACCAAGGGTCTTTTTGTAATTTTC
Found at i:38711726 original size:27 final size:27
Alignment explanation
Indices: 38711614--38711752 Score: 102
Period size: 27 Copynumber: 5.1 Consensus size: 27
38711604 ACCAATGGTC
* ** *
38711614 TTTTTGTAATTTTTGAAAGTCAAGGGTA
1 TTTTTATAATTTTCCAAA-TCAAGGGCA
* * ** * *
38711642 TTTTTGTAATTCTGTAAATCAGGGGTA
1 TTTTTATAATTTTCCAAATCAAGGGCA
* * * *
38711669 CTTTTGTCATTTTCCAAATCAAGGG-T
1 TTTTTATAATTTTCCAAATCAAGGGCA
38711695 TTTTTATTAATTTTCCAAATC-AGAGGCA
1 TTTTTA-TAATTTTCCAAATCAAG-GGCA
*
38711723 TTTTTATAATTTTACAAATCAAGGGCA
1 TTTTTATAATTTTCCAAATCAAGGGCA
38711750 TTT
1 TTT
38711753 CGGTAATTTT
Statistics
Matches: 91, Mismatches: 16, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
26 6 0.07
27 62 0.68
28 23 0.25
ACGTcount: A:0.29, C:0.11, G:0.16, T:0.45
Consensus pattern (27 bp):
TTTTTATAATTTTCCAAATCAAGGGCA
Found at i:38711759 original size:27 final size:27
Alignment explanation
Indices: 38711729--38712001 Score: 183
Period size: 27 Copynumber: 10.1 Consensus size: 27
38711719 GGCATTTTTA
* *
38711729 TAATTTTACAAATCAAGGGCATTTCGG
1 TAATTTTACAAGTCAAGGGTATTTCGG
* * *
38711756 TAATTTTACAAGTTAAGAGTATTTTGG
1 TAATTTTACAAGTCAAGGGTATTTCGG
* *
38711783 TAATTTTACAAGTCGAGGGTATTTCAG
1 TAATTTTACAAGTCAAGGGTATTTCGG
*
38711810 TAATTTTACAGGTCAAGGGTATTTCGG
1 TAATTTTACAAGTCAAGGGTATTTCGG
* * ** * *
38711837 TAATTTTATAGGTTGAGGGTATTTTGA
1 TAATTTTACAAGTCAAGGGTATTTCGG
* * * *
38711864 TAATTTTCCAAATCAGGGGTATATT-TG
1 TAATTTTACAAGTCAAGGGTAT-TTCGG
* * * *
38711891 TTATTTTACAAAT-AGAAGATATTTCGG
1 TAATTTTACAAGTCA-AGGGTATTTCGG
* * * * *
38711918 TAATTTTCCAAATCAGGGGTATTTTGC
1 TAATTTTACAAGTCAAGGGTATTTCGG
** * *
38711945 TAATTTTGTAAGCCAAGGGTATTT-AG
1 TAATTTTACAAGTCAAGGGTATTTCGG
** ** *
38711971 TAATTTTGTAAACCAAGGGTATTTCAG
1 TAATTTTACAAGTCAAGGGTATTTCGG
38711998 TAAT
1 TAAT
38712002 CCTAACCTAC
Statistics
Matches: 193, Mismatches: 48, Indels: 10
0.77 0.19 0.04
Matches are distributed among these distances:
26 26 0.13
27 164 0.85
28 3 0.02
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
TAATTTTACAAGTCAAGGGTATTTCGG
Found at i:38711762 original size:81 final size:79
Alignment explanation
Indices: 38711677--38711951 Score: 212
Period size: 81 Copynumber: 3.4 Consensus size: 79
38711667 TACTTTTGTC
* *
38711677 ATTTTCCAAATCAAGGGTTTTTTATTAATTTTCCAAATCAGAGGCATTTTTATAATTTTACAAAT
1 ATTTTACAAATCAAGGGTATTTTA-TAATTTTCCAAATCAGAGG-ATTTTTATAATTTTACAAAT
*
38711742 CAAGGGCATTTCGGTA
64 CAAGGGTATTTCGGTA
* * * * * * * * **
38711758 ATTTTACAAGTTAAGAGTATTTTGGTAATTTTACAAGTC-GAGGGTATTTCAGTAATTTTACAGG
1 ATTTTACAAATCAAGGGTATTTT-ATAATTTTCCAAATCAGAGGAT-TTTTA-TAATTTTACAAA
38711822 TCAAGGGTATTTCGGTA
63 TCAAGGGTATTTCGGTA
* ** ** * * * *
38711839 ATTTTATAGGTTGAGGGTATTTTGATAATTTTCCAAATCAGGGGTATATTTGTTATTTTACAAAT
1 ATTTTACAAATCAAGGGTATTTT-ATAATTTTCCAAATCAGAGG-ATTTTTATAATTTTACAAAT
* *
38711904 -AGAAGATATTTCGGTA
64 CA-AGGGTATTTCGGTA
* * *
38711920 ATTTTCCAAATCAGGGGTATTTTGCTAATTTT
1 ATTTTACAAATCAAGGGTATTTT-ATAATTTT
38711952 GTAAGCCAAG
Statistics
Matches: 150, Mismatches: 38, Indels: 12
0.75 0.19 0.06
Matches are distributed among these distances:
79 1 0.01
80 9 0.06
81 134 0.89
82 5 0.03
83 1 0.01
ACGTcount: A:0.30, C:0.10, G:0.18, T:0.42
Consensus pattern (79 bp):
ATTTTACAAATCAAGGGTATTTTATAATTTTCCAAATCAGAGGATTTTTATAATTTTACAAATCA
AGGGTATTTCGGTA
Found at i:38711832 original size:54 final size:54
Alignment explanation
Indices: 38711552--38711994 Score: 232
Period size: 54 Copynumber: 8.2 Consensus size: 54
38711542 TTTCACCTTA
* * * ** * ** *
38711552 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTTACAAAT
* * * * ** * **
38711606 CAATGGTCTTTTTGTAATTTTTGA-AAGTCAAGGGTATTTTTGTAATTCTGTAAAT
1 CAAGGGTATTTTGGTAA-TTTT-ACAAGTCGAGGGTATTTCAGTAATTTTACAAAT
* * * * * * * * *
38711661 CAGGGGTACTTTT-GTCATTTTCCAAATCAAGGGTTTTTTATTAATTTTCCAAAT
1 CAAGGGTA-TTTTGGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTTACAAAT
* ** * * * * *
38711715 C-AGAGGCATTTTTATAATTTTACAAATCAAGGGCATTTCGGTAATTTTACAAGT
1 CAAG-GGTATTTTGGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTTACAAAT
* * **
38711769 TAAGAGTATTTTGGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTTACAGGT
1 CAAGGGTATTTTGGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTTACAAAT
* * * * * *
38711823 CAAGGGTATTTCGGTAATTTTATAGGTTGAGGGTATTT-TGATAATTTTCCAAAT
1 CAAGGGTATTTTGGTAATTTTACAAGTCGAGGGTATTTCAG-TAATTTTACAAAT
* * * * * * * *
38711877 CAGGGGTATATTT-GTTATTTTACAAATAGAAGATATTTCGGTAATTTTCCAAAT
1 CAAGGGTAT-TTTGGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTTACAAAT
* * ** * * ** *
38711931 CAGGGGTATTTTGCTAATTTTGTAAGCCAAGGGTATTT-AGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTTACAAAT
38711984 CAAGGGTATTT
1 CAAGGGTATTT
38711995 CAGTAATCCT
Statistics
Matches: 298, Mismatches: 80, Indels: 23
0.74 0.20 0.06
Matches are distributed among these distances:
53 30 0.10
54 223 0.75
55 40 0.13
56 5 0.02
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (54 bp):
CAAGGGTATTTTGGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTTACAAAT
Found at i:38711978 original size:26 final size:26
Alignment explanation
Indices: 38711934--38712001 Score: 100
Period size: 26 Copynumber: 2.5 Consensus size: 26
38711924 TCCAAATCAG
* *
38711934 GGGTATTTTGCTAATTTTGTAAGCCAA
1 GGGTATTTAG-TAATTTTGTAAACCAA
38711961 GGGTATTTAGTAATTTTGTAAACCAA
1 GGGTATTTAGTAATTTTGTAAACCAA
38711987 GGGTATTTCAGTAAT
1 GGGTATTT-AGTAAT
38712002 CCTAACCTAC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
26 23 0.61
27 15 0.39
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (26 bp):
GGGTATTTAGTAATTTTGTAAACCAA
Found at i:38712021 original size:27 final size:26
Alignment explanation
Indices: 38711991--38712094 Score: 109
Period size: 27 Copynumber: 3.8 Consensus size: 26
38711981 AACCAAGGGT
38711991 ATTTCAGTAATCCTAACCTACAGGGGC
1 ATTTCAGTAAT-CTAACCTACAGGGGC
* * *
38712018 ATTTTAGTAAGTCTATCCTATAGGGGC
1 ATTTCAGTAA-TCTAACCTACAGGGGC
* *
38712045 ATTTCAGTAATTCTACCCTACAGGGGT
1 ATTTCAGTAA-TCTAACCTACAGGGGC
* *
38712072 ATTTCAGTATTACTAGCCTACAG
1 ATTTCAGTAAT-CTAACCTACAG
38712095 ATATGAGATT
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
26 1 0.02
27 63 0.97
28 1 0.02
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (26 bp):
ATTTCAGTAATCTAACCTACAGGGGC
Found at i:38714769 original size:22 final size:22
Alignment explanation
Indices: 38714736--38714797 Score: 56
Period size: 22 Copynumber: 2.8 Consensus size: 22
38714726 AATACGTTTG
38714736 GCACACAA-CCATAATCAGGTTA
1 GCACA-AAGCCATAATCAGGTTA
* * *
38714758 GCACAGAGCCAT-ATGTAGGTTG
1 GCACAAAGCCATAAT-CAGGTTA
*
38714780 GCGCAAAGCCATAATCAG
1 GCACAAAGCCATAATCAG
38714798 AATAATTGGC
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
21 3 0.10
22 26 0.84
23 2 0.06
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.18
Consensus pattern (22 bp):
GCACAAAGCCATAATCAGGTTA
Found at i:38715000 original size:41 final size:41
Alignment explanation
Indices: 38714938--38715060 Score: 183
Period size: 41 Copynumber: 3.0 Consensus size: 41
38714928 TTAAAAGGAC
* * *
38714938 CGGTGGATCCACGGTCATCAAGCAACCATACGATCCTTAAT
1 CGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAAT
* *
38714979 CGGTGGATCCACAGTTGTCAAGCAACCATGCGATCCTCAAT
1 CGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAAT
* *
38715020 CAGTGGATCCACGGTCGTCAAACAACCATGCGATCCTCAAT
1 CGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAAT
38715061 TTCTTCCTCT
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 73 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.21
Consensus pattern (41 bp):
CGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAAT
Found at i:38715327 original size:27 final size:27
Alignment explanation
Indices: 38715297--38715367 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
38715287 TTTCACCTTA
*
38715297 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAAATCTACAAAC
* * * *
38715324 CAAGGGTATTTCGGTAATTTTGCAAAC
1 CAAGGGTATTTTGGTAAATCTACAAAC
* *
38715351 CAATGGTATTTTTGTAA
1 CAAGGGTATTTTGGTAA
38715368 TTTTTGAAAG
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.35
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAAATCTACAAAC
Found at i:38715368 original size:27 final size:27
Alignment explanation
Indices: 38715319--38715687 Score: 190
Period size: 27 Copynumber: 13.6 Consensus size: 27
38715309 GGTAAATCTA
* **
38715319 CAAACCAAGGGTATTTCGGTAATTTTG
1 CAAATCAAGGGTATTTTTGTAATTTTG
* *
38715346 CAAACCAATGGTATTTTTGTAATTTTTG
1 CAAATCAAGGGTATTTTTGTAA-TTTTG
** *
38715374 -AAAGTCAAGGGTATTGCTGTAATTCTG
1 CAAA-TCAAGGGTATTTTTGTAATTTTG
* * * *
38715401 TAAATCAGGGGTATTTATGTAATTTTC
1 CAAATCAAGGGTATTTTTGTAATTTTG
* *
38715428 CAAATCAAGGGTA-TTTCGATAATTTTC
1 CAAATCAAGGGTATTTTTG-TAATTTTG
* * *
38715455 CAAATTAGGGGTATTTTTGTAATTTTA
1 CAAATCAAGGGTATTTTTGTAATTTTG
* *
38715482 CAAATCAAGGGTATTTTGGTAATTTTA
1 CAAATCAAGGGTATTTTTGTAATTTTG
** * * *** *
38715509 CAGGTCGAGAGTATTTCAATAATTTTA
1 CAAATCAAGGGTATTTTTGTAATTTTG
* * ** *
38715536 CAAGTCGAGGGTATTTCAGTAATTTTA
1 CAAATCAAGGGTATTTTTGTAATTTTG
** ** * *
38715563 CAGGTTGAGGGTATTTTGGTAATTTTA
1 CAAATCAAGGGTATTTTTGTAATTTTG
** * * *
38715590 CAGGTCGATGGTA-TTTCGATAATTTTTG
1 CAAATCAAGGGTATTTTTG-TAA-TTTTG
* * * *
38715618 -AAATCATGGGTATATTTGTTATTTTA
1 CAAATCAAGGGTATTTTTGTAATTTTG
* * *
38715644 TAAATCAAGGGTA-TTTCGATAATTTTC
1 CAAATCAAGGGTATTTTTG-TAATTTTG
*
38715671 CAAATCAGGGGTATTTT
1 CAAATCAAGGGTATTTT
38715688 GCTACTTTTG
Statistics
Matches: 273, Mismatches: 58, Indels: 21
0.78 0.16 0.06
Matches are distributed among these distances:
26 14 0.05
27 223 0.82
28 36 0.13
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (27 bp):
CAAATCAAGGGTATTTTTGTAATTTTG
Found at i:38715383 original size:55 final size:54
Alignment explanation
Indices: 38715317--38715687 Score: 307
Period size: 54 Copynumber: 6.9 Consensus size: 54
38715307 TTGGTAAATC
* * **
38715317 TACAAACCAAGGGTATTTCGGTAATTTTGCAAACCAATGGTATTTTTGTAATTT
1 TACAAATCAAGGGTATTTCGGTAATTTTGCAAATCAGGGGTATTTTTGTAATTT
** * * * * *
38715371 TTGAAAGTCAAGGGTATTGCTGTAATTCTGTAAATCAGGGGTATTTATGTAATTT
1 TACAAA-TCAAGGGTATTTCGGTAATTTTGCAAATCAGGGGTATTTTTGTAATTT
* * * *
38715426 TCCAAATCAAGGGTATTTCGATAATTTTCCAAATTAGGGGTATTTTTGTAATTT
1 TACAAATCAAGGGTATTTCGGTAATTTTGCAAATCAGGGGTATTTTTGTAATTT
* * ** * ***
38715480 TACAAATCAAGGGTATTTTGGTAATTTTACAGGTC-GAGAGTATTTCAATAATTT
1 TACAAATCAAGGGTATTTCGGTAATTTTGCAAATCAG-GGGTATTTTTGTAATTT
* * * * ** * *
38715534 TACAAGTCGAGGGTATTTCAGTAATTTTACAGGT-TGAGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCGGTAATTTTGCAAATCAG-GGGTATTTTTGTAATTT
** * * * * * *
38715588 TACAGGTCGATGGTATTTCGATAATTTTTG-AAATCATGGGTATATTTGTTATTT
1 TACAAATCAAGGGTATTTCGGTAA-TTTTGCAAATCAGGGGTATTTTTGTAATTT
* * *
38715642 TATAAATCAAGGGTATTTCGATAATTTTCCAAATCAGGGGTATTTT
1 TACAAATCAAGGGTATTTCGGTAATTTTGCAAATCAGGGGTATTTT
38715688 GCTACTTTTG
Statistics
Matches: 251, Mismatches: 60, Indels: 12
0.78 0.19 0.04
Matches are distributed among these distances:
53 5 0.02
54 199 0.79
55 47 0.19
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (54 bp):
TACAAATCAAGGGTATTTCGGTAATTTTGCAAATCAGGGGTATTTTTGTAATTT
Found at i:38715504 original size:81 final size:81
Alignment explanation
Indices: 38715317--38715686 Score: 298
Period size: 81 Copynumber: 4.6 Consensus size: 81
38715307 TTGGTAAATC
* * * * * * *
38715317 TACAAACCAAGGGTATTTCGGTAATTTTGCAAACCAATGGTATTTTTG-TAATTTTTGAAAGTCA
1 TACAAATCAAGGGTATTTTGGTAATTTTACAAATCAAGGGTA-TTTCGATAATTTTTCAAA-TCA
* * *
38715381 AGGGTATTGCTGTAATTC
64 GGGGTATTTCTGTAATTT
** * * * *
38715399 TGTAAATCAGGGGTATTTAT-GTAATTTTCCAAATCAAGGGTATTTCGATAATTTTCCAAATTAG
1 TACAAATCAAGGGTATTT-TGGTAATTTTACAAATCAAGGGTATTTCGATAATTTTTCAAATCAG
*
38715463 GGGTATTTTTGTAATTT
65 GGGTATTTCTGTAATTT
** * * * * *
38715480 TACAAATCAAGGGTATTTTGGTAATTTTACAGGTCGAGAGTATTTCAATAATTTTACAAGTC-GA
1 TACAAATCAAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGATAATTTTTCAAATCAG-
*
38715544 GGGTATTTCAGTAATTT
65 GGGTATTTCTGTAATTT
** ** ** * * * *
38715561 TACAGGTTGAGGGTATTTTGGTAATTTTACAGGTCGATGGTATTTCGATAATTTTTGAAATCATG
1 TACAAATCAAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGATAATTTTTCAAATCAGG
*
38715626 GGTATATT-TGTTATTT
66 GGTAT-TTCTGTAATTT
* * * * *
38715642 TATAAATCAAGGGTATTTCGATAATTTTCCAAATCAGGGGTATTT
1 TACAAATCAAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTT
38715687 TGCTACTTTT
Statistics
Matches: 226, Mismatches: 56, Indels: 13
0.77 0.19 0.04
Matches are distributed among these distances:
80 2 0.01
81 179 0.79
82 45 0.20
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (81 bp):
TACAAATCAAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGATAATTTTTCAAATCAGG
GGTATTTCTGTAATTT
Found at i:38715711 original size:54 final size:54
Alignment explanation
Indices: 38715597--38715722 Score: 148
Period size: 54 Copynumber: 2.4 Consensus size: 54
38715587 TTACAGGTCG
** * * *
38715597 ATGGTATTTCGATAATTTTTGAAATCATGGGTATATTTGTTATTTTATAAATCA
1 ATGGTATTTCGATAATTTTCCAAATCAGGGGTATATTTGCTATTTTATAAACCA
* * *
38715651 AGGGTATTTCGATAATTTTCCAAATCAGGGGTAT-TTTGCTACTTTTGTAAGCCA
1 ATGGTATTTCGATAATTTTCCAAATCAGGGGTATATTTGCTA-TTTTATAAACCA
*
38715705 ATGGTA-TTCAATAATTTT
1 ATGGTATTTCGATAATTTT
38715723 GTAAACCAAG
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
53 17 0.28
54 44 0.72
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.44
Consensus pattern (54 bp):
ATGGTATTTCGATAATTTTCCAAATCAGGGGTATATTTGCTATTTTATAAACCA
Found at i:38715724 original size:26 final size:27
Alignment explanation
Indices: 38715638--38715747 Score: 87
Period size: 27 Copynumber: 4.1 Consensus size: 27
38715628 TATATTTGTT
* * *
38715638 ATTTTATAAATCAAGGGTATTTCGATA
1 ATTTTGTAAACCAAGGGTATTTCAATA
** * * ***
38715665 ATTTTCCAAATCAGGGGTATTTTGCTA
1 ATTTTGTAAACCAAGGGTATTTCAATA
* * *
38715692 CTTTTGTAAGCCAATGGTA-TTCAATA
1 ATTTTGTAAACCAAGGGTATTTCAATA
*
38715718 ATTTTGTAAACCAAGGGTATTTCAGTA
1 ATTTTGTAAACCAAGGGTATTTCAATA
38715745 ATT
1 ATT
38715748 CTACCCTACA
Statistics
Matches: 63, Mismatches: 19, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
26 20 0.32
27 43 0.68
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (27 bp):
ATTTTGTAAACCAAGGGTATTTCAATA
Found at i:38715766 original size:27 final size:27
Alignment explanation
Indices: 38715736--38715839 Score: 163
Period size: 27 Copynumber: 3.9 Consensus size: 27
38715726 AACCAAGGGT
38715736 ATTTCAGTAATTCTACCCTACAGGGGC
1 ATTTCAGTAATTCTACCCTACAGGGGC
* *
38715763 ATTTCAGTAATTCTATCTTACAGGGGC
1 ATTTCAGTAATTCTACCCTACAGGGGC
*
38715790 ATTTCAGTAATTCTACCCTACAGGGGT
1 ATTTCAGTAATTCTACCCTACAGGGGC
* *
38715817 ATTTCAGTAATACTAGCCTACAG
1 ATTTCAGTAATTCTACCCTACAG
38715840 ATATTAGATT
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 70 1.00
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (27 bp):
ATTTCAGTAATTCTACCCTACAGGGGC
Found at i:38718359 original size:40 final size:40
Alignment explanation
Indices: 38718311--38718495 Score: 255
Period size: 40 Copynumber: 4.6 Consensus size: 40
38718301 CTTGCACAAG
*
38718311 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
38718351 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
38718391 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
38718431 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
38718472 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
38718496 CATTCGAATA
Statistics
Matches: 125, Mismatches: 17, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 1 0.01
40 95 0.76
41 29 0.23
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:38731959 original size:47 final size:46
Alignment explanation
Indices: 38731868--38732262 Score: 613
Period size: 47 Copynumber: 8.5 Consensus size: 46
38731858 ACCCCAACCC
38731868 ATCACATATA-ACAC-TTCACATTCATCACATCGCCATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGCCATTAGGCCTT
38731912 ATCACATATATATACACTTTCACATTCATCACATCGCCATT-GGCCTT
1 ATCAC--ATATATACACTTTCACATTCATCACATCGCCATTAGGCCTT
*
38731959 ATCACATATATACAC-TTCACATTCATCACATCGCTATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGCCATTAGGCCTT
38732004 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATC-GCCATTAGGCCTT
38732051 ATCACATATATACACTTTCACA-TCATCACATCGGCCATTAGGCC-T
1 ATCACATATATACACTTTCACATTCATCACATC-GCCATTAGGCCTT
38732096 ATCACATATATATACACTTTCACATTCATCACATCGCCATTAGGCCTT
1 ATCAC--ATATATACACTTTCACATTCATCACATCGCCATTAGGCCTT
* *
38732144 ATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTT
1 ATCAC--ATATATACACTTTCACATTCATCACA-TCGCCATTAGGCCTT
38732193 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATC-GCCATTAGGCCTT
* *
38732240 ATCACATATATATACATTCACAT
1 ATCACATATATACACTTTCACAT
38732263 CACAATTATC
Statistics
Matches: 330, Mismatches: 8, Indels: 23
0.91 0.02 0.06
Matches are distributed among these distances:
44 27 0.08
45 37 0.11
46 45 0.14
47 136 0.41
48 67 0.20
49 18 0.05
ACGTcount: A:0.31, C:0.29, G:0.07, T:0.32
Consensus pattern (46 bp):
ATCACATATATACACTTTCACATTCATCACATCGCCATTAGGCCTT
Found at i:38731977 original size:92 final size:93
Alignment explanation
Indices: 38731868--38732262 Score: 617
Period size: 92 Copynumber: 4.2 Consensus size: 93
38731858 ACCCCAACCC
38731868 ATCACATATA-ACAC-TTCACATTCATCACATCGCCATTAGGCCTTATCACATATATATACACTT
1 ATCACATATATACACTTTCACATTCATCACATCGCCATTAGGCCTTATCAC--ATATATACACTT
38731931 TCACATTCATCACATC-GCCATT-GGCCTT
64 TCACATTCATCACATCGGCCATTAGGCCTT
*
38731959 ATCACATATATACAC-TTCACATTCATCACATCGCTATTAGGCCTTATCACATATATACACTTTC
1 ATCACATATATACACTTTCACATTCATCACATCGCCATTAGGCCTTATCACATATATACACTTTC
38732023 ACATTCATCACATCGGCCATTAGGCCTT
66 ACATTCATCACATCGGCCATTAGGCCTT
38732051 ATCACATATATACACTTTCACA-TCATCACATCGGCCATTAGGCC-TATCACATATATATACACT
1 ATCACATATATACACTTTCACATTCATCACATC-GCCATTAGGCCTTATCAC--ATATATACACT
38732114 TTCACATTCATCACATC-GCCATTAGGCCTT
63 TTCACATTCATCACATCGGCCATTAGGCCTT
* *
38732144 ATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACT
1 ATCAC--ATATATACACTTTCACATTCATCACA-TCGCCATTAGGCCTTATCACATATATACACT
38732209 TTCACATTCATCACATCGGCCATTAGGCCTT
63 TTCACATTCATCACATCGGCCATTAGGCCTT
* *
38732240 ATCACATATATATACATTCACAT
1 ATCACATATATACACTTTCACAT
38732263 CACAATTATC
Statistics
Matches: 285, Mismatches: 6, Indels: 23
0.91 0.02 0.07
Matches are distributed among these distances:
90 28 0.10
91 16 0.06
92 75 0.26
93 34 0.12
94 44 0.15
95 45 0.16
96 36 0.13
97 7 0.02
ACGTcount: A:0.31, C:0.29, G:0.07, T:0.32
Consensus pattern (93 bp):
ATCACATATATACACTTTCACATTCATCACATCGCCATTAGGCCTTATCACATATATACACTTTC
ACATTCATCACATCGGCCATTAGGCCTT
Found at i:38732239 original size:189 final size:183
Alignment explanation
Indices: 38731868--38732264 Score: 663
Period size: 189 Copynumber: 2.1 Consensus size: 183
38731858 ACCCCAACCC
38731868 ATCACATATA-ACACTTCACATTCATCACATCGCCATTAGGCCTTATCACATATATATACACTTT
1 ATCACATATATACACTTCACA-TCATCACATCGCCATTAGGCCTTATCACATATATATACACTTT
*
38731932 CACATTCATCACATCGCCATTGGCCTTATCACATATATACACTTCACATTCATCACATCGCTATT
65 CACATTCATCACATCGCCATTGGCCTTATCACATATATACACTTCACATTCATCACATCGCCATT
38731997 AGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
130 AGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
38732051 ATCACATATATACACTTTCACATCATCACATCGGCCATTAGGCC-TATCACATATATATACACTT
1 ATCACATATATACAC-TTCACATCATCACATC-GCCATTAGGCCTTATCACATATATATACACTT
*
38732115 TCACATTCATCACATCGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTG
64 TCACATTCATCACATCGCCATT-GGCCTTATCAC--ATATATACAC-TTCACATTCATCACA-TC
*
38732180 GCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
124 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
*
38732240 ATCACATATATATACATTCACATCA
1 ATCACATATATACAC-TTCACATCA
38732265 CAATTATCCA
Statistics
Matches: 201, Mismatches: 5, Indels: 10
0.93 0.02 0.05
Matches are distributed among these distances:
183 10 0.05
184 56 0.28
185 28 0.14
187 10 0.05
188 15 0.07
189 82 0.41
ACGTcount: A:0.31, C:0.29, G:0.07, T:0.32
Consensus pattern (183 bp):
ATCACATATATACACTTCACATCATCACATCGCCATTAGGCCTTATCACATATATATACACTTTC
ACATTCATCACATCGCCATTGGCCTTATCACATATATACACTTCACATTCATCACATCGCCATTA
GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
Found at i:38736596 original size:48 final size:48
Alignment explanation
Indices: 38736521--38736703 Score: 180
Period size: 48 Copynumber: 3.9 Consensus size: 48
38736511 CACATAGTAG
* *
38736521 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* * *
38736569 GATGCCAATGCCGTGTCTCAGACATGGTCTTACATGAGATCATGCATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCA--CATATC
* * ** * * *
38736619 GAAGCCAAT---A-G-CCTAGTTATGGTCTTACATGATG-TCTCATATT
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATG-GGATCACATATC
*
38736662 GATGCCAATGCCATGTCCCAGACATGGTCTTGCATGGGATCA
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCA
38736704 TGCATATCTC
Statistics
Matches: 105, Mismatches: 21, Indels: 18
0.73 0.15 0.12
Matches are distributed among these distances:
43 13 0.12
45 18 0.17
46 3 0.03
47 2 0.02
48 55 0.52
50 14 0.13
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.28
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
Found at i:38736703 original size:93 final size:93
Alignment explanation
Indices: 38736543--38736711 Score: 259
Period size: 93 Copynumber: 1.8 Consensus size: 93
38736533 ATATCCCAGA
* *
38736543 TATGGTCTTACATGGGATCACATATCGATGCCAATGCCGTGTCTCAGACATGGTCTTACATGAGA
1 TATGGTCTTACATGGGATCACATATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATGAGA
38736608 TCATGCATATCGAAGCCAATAGCCTAGT
66 TCATGCATATCGAAGCCAATAGCCTAGT
* * * * *
38736636 TATGGTCTTACATGATG-TCTCATATTGATGCCAATGCCATGTCCCAGACATGGTCTTGCATGGG
1 TATGGTCTTACATG-GGATCACATATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATGAG
38736700 ATCATGCATATC
65 ATCATGCATATC
38736712 TCTAACGTTA
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
93 67 0.99
94 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.30
Consensus pattern (93 bp):
TATGGTCTTACATGGGATCACATATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATGAGA
TCATGCATATCGAAGCCAATAGCCTAGT
Found at i:38738154 original size:9 final size:9
Alignment explanation
Indices: 38738140--38738169 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
38738130 ATCATGTGTG
38738140 AATGGTAAA
1 AATGGTAAA
38738149 AATGGTAAA
1 AATGGTAAA
*
38738158 AATGGTAGA
1 AATGGTAAA
38738167 AAT
1 AAT
38738170 ATGAAACACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.23, T:0.23
Consensus pattern (9 bp):
AATGGTAAA
Found at i:38744332 original size:48 final size:48
Alignment explanation
Indices: 38744246--38744487 Score: 257
Period size: 48 Copynumber: 5.1 Consensus size: 48
38744236 GAAATCACAT
*
38744246 TCACATATTAGGATGCCAATGCCAT-ATCCCAGATATGGTCTTACATGGGA
1 TCACATATT--GATGCCAATGCCATGA-CCCAGACATGGTCTTACATGGGA
* *
38744296 TCACATATCGATGCCAATGCCATGACTCAGACATGGTCTTACATGGGA
1 TCACATATTGATGCCAATGCCATGACCCAGACATGGTCTTACATGGGA
* * * *
38744344 TCATGCATATTGAAGCCAAT---A-G-CCTAG-CTATGGTCTTACACGATG-
1 TCA--CATATTGATGCCAATGCCATGACCCAGAC-ATGGTCTTACATG-GGA
* *
38744389 TCTCATATTGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 TCACATATTGATGCCAATGCCATGACCCAGACATGGTCTTACATGGGA
* * *
38744437 TCACATTTTGATGCCAATGCCATGTCCCAGGCATGGTCTTACATGGGA
1 TCACATATTGATGCCAATGCCATGACCCAGACATGGTCTTACATGGGA
38744485 TCA
1 TCA
38744488 TGCTTATCTC
Statistics
Matches: 163, Mismatches: 17, Indels: 26
0.79 0.08 0.13
Matches are distributed among these distances:
43 14 0.09
44 1 0.01
45 17 0.10
46 3 0.02
47 3 0.02
48 102 0.63
49 2 0.01
50 21 0.13
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (48 bp):
TCACATATTGATGCCAATGCCATGACCCAGACATGGTCTTACATGGGA
Found at i:38749023 original size:17 final size:17
Alignment explanation
Indices: 38749001--38749034 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
38748991 TCTGTTCTTA
38749001 AGGTTCAACCGAAATTT
1 AGGTTCAACCGAAATTT
*
38749018 AGGTTCAACCGGAATTT
1 AGGTTCAACCGAAATTT
38749035 TACACTTGCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (17 bp):
AGGTTCAACCGAAATTT
Found at i:38751100 original size:1 final size:1
Alignment explanation
Indices: 38751094--38751142 Score: 98
Period size: 1 Copynumber: 49.0 Consensus size: 1
38751084 TCCACCAAGC
38751094 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
38751143 ATTATTTCCA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 48 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:38752643 original size:19 final size:18
Alignment explanation
Indices: 38752606--38752649 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
38752596 ATACATACAG
38752606 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
38752623 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
38752642 TACTAATT
1 TAATAATT
38752650 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:38766620 original size:19 final size:18
Alignment explanation
Indices: 38766583--38766626 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
38766573 ATACATACAG
38766583 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
38766600 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
38766619 TACTAATT
1 TAATAATT
38766627 CAAAATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:38784801 original size:27 final size:27
Alignment explanation
Indices: 38784771--38784824 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
38784761 TCATACAACC
* *
38784771 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
38784798 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
38784825 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:38792008 original size:21 final size:22
Alignment explanation
Indices: 38791969--38792017 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
38791959 ATAATTTTCA
* *
38791969 TTTTTT-TTTCATGTTCAAGTT
1 TTTTTTATTTCATGTACAAGAT
38791990 TTTTTTATTTCAT-TACAAGAT
1 TTTTTTATTTCATGTACAAGAT
*
38792011 TTCTTTA
1 TTTTTTA
38792018 CTCCATTTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 18 0.75
22 6 0.25
ACGTcount: A:0.20, C:0.10, G:0.06, T:0.63
Consensus pattern (22 bp):
TTTTTTATTTCATGTACAAGAT
Found at i:38794006 original size:40 final size:40
Alignment explanation
Indices: 38793944--38794161 Score: 307
Period size: 40 Copynumber: 5.5 Consensus size: 40
38793934 AAGCCAAGTA
* * * *
38793944 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
38793983 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
38794023 CCTTCGGGACTTAGGCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
38794063 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * * *
38794103 CCTTCGGGACTTAACCC-GAAACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
38794143 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
38794162 TTATCATCCA
Statistics
Matches: 163, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
39 16 0.10
40 146 0.90
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:38803099 original size:49 final size:47
Alignment explanation
Indices: 38802923--38803417 Score: 702
Period size: 47 Copynumber: 10.6 Consensus size: 47
38802913 GCCCTTTGGA
* * * * * *
38802923 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38802970 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38803017 CTCATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38803064 CTTATCACATACATATACACTTTCACATTCATCACATCGGCAATTAGGC
1 CTTATCACAT--ATATACACTTTCACATTCATCACATCGGCCATTAGGC
38803113 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38803160 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTATG-
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38803208 CTTA-CA-ATATATACAC-TTCACA-TCATCA-ATC-G-CATTA-GC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38803247 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
38803296 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38803345 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38803392 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
38803418 CACAATTATC
Statistics
Matches: 410, Mismatches: 23, Indels: 30
0.89 0.05 0.06
Matches are distributed among these distances:
38 1 0.00
39 9 0.02
40 3 0.01
41 3 0.01
42 6 0.01
43 16 0.04
44 16 0.04
45 6 0.01
46 2 0.00
47 199 0.49
48 9 0.02
49 140 0.34
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:38803120 original size:96 final size:95
Alignment explanation
Indices: 38802923--38803417 Score: 715
Period size: 96 Copynumber: 5.3 Consensus size: 95
38802913 GCCCTTTGGA
* * * * * * * *
38802923 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACAT-ATATACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAATATACA
38802987 CTTTCACATTCATCACATCGGCCATTAGGC
66 CTTTCACATTCATCACATCGGCCATTAGGC
*
38803017 CTCATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATACATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA-ATATAC
*
38803082 ACTTTCACATTCATCACATCGGCAATTAGGC
65 ACTTTCACATTCATCACATCGGCCATTAGGC
38803113 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA-ATATAC
*
38803178 ACTTTCACATTCATCACATCGGCCATTATG-
65 ACTTTCACATTCATCACATCGGCCATTAGGC
38803208 CTTA-CA-ATATATACAC-TTCACA-TCATCA-ATC-G-CATTA-GCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA-ATATAC
*
38803265 ACTTTCACATTCATCACATTGGCCATTAGGC
65 ACTTTCACATTCATCACATCGGCCATTAGGC
* * *
38803296 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGACCTTATCACAT-ATATA
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAATATA
38803360 CACTTTCACATTCATCACATCGGCCATTAGGC
64 CACTTTCACATTCATCACATCGGCCATTAGGC
* *
38803392 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
38803418 CACAATTATC
Statistics
Matches: 366, Mismatches: 22, Indels: 26
0.88 0.05 0.06
Matches are distributed among these distances:
87 48 0.13
88 9 0.02
89 3 0.01
90 3 0.01
91 6 0.02
92 16 0.04
93 16 0.04
94 72 0.20
95 6 0.02
96 172 0.47
97 4 0.01
98 11 0.03
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.33
Consensus pattern (95 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAATATACA
CTTTCACATTCATCACATCGGCCATTAGGC
Found at i:38806898 original size:40 final size:40
Alignment explanation
Indices: 38806841--38807121 Score: 386
Period size: 40 Copynumber: 7.0 Consensus size: 40
38806831 CGAATACACG
* * * *
38806841 TCACTAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
* ** * *
38806881 ACA-TCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACT-AGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
* * * *
38806921 TCACTAGCACAAATGCTCTTCGGAACTTAGTCCGAATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
*
38806961 TCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
38807001 TCATTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
*
38807041 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
38807081 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT-CA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
38807120 TC
1 TC
38807122 GTCGAGACCT
Statistics
Matches: 213, Mismatches: 26, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
39 5 0.02
40 207 0.97
41 1 0.00
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:38809552 original size:49 final size:49
Alignment explanation
Indices: 38809378--38809883 Score: 820
Period size: 49 Copynumber: 10.6 Consensus size: 49
38809368 CCCTTCGGGA
* * * * *
38809378 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38809425 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38809472 CTCATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38809519 CTTATCACATATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38809568 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38809617 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38809664 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38809713 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38809762 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38809811 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38809858 CTTATCACATATATATACA--TTCACAT
1 CTTATCACATATATATACACTTTCACAT
38809884 CACAATTATC
Statistics
Matches: 432, Mismatches: 19, Indels: 16
0.93 0.04 0.03
Matches are distributed among these distances:
46 1 0.00
47 186 0.43
49 245 0.57
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:38809575 original size:96 final size:95
Alignment explanation
Indices: 38809378--38809883 Score: 795
Period size: 96 Copynumber: 5.3 Consensus size: 95
38809368 CCCTTCGGGA
* * * * * * * *
38809378 CTTATCAC-ATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACA
1 CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
38809442 CTTTCACATTCATCACATCGGCCATTAGGC
66 CTTTCACATTCATCACATCGGCCATTAGGC
*
38809472 CTCATCAC-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
1 CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATA
*
38809536 CACTTTCACATTCATCACATCAGCCATTAGGC
64 CACTTTCACATTCATCACATCGGCCATTAGGC
*
38809568 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
38809633 ACTTTCACATTCATCACATCGGCCATTAGGC
65 ACTTTCACATTCATCACATCGGCCATTAGGC
38809664 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
38809729 ACACTTTCACATTCATCACATCGGCCATTAGGC
63 ACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38809762 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
38809827 ACTTTCACATTCATCACATCGGCCATTAGGC
65 ACTTTCACATTCATCACATCGGCCATTAGGC
38809858 CTTATCACATATATATACA--TTCACAT
1 CTTATCACA-ATATATACACTTTCACAT
38809884 CACAATTATC
Statistics
Matches: 390, Mismatches: 16, Indels: 12
0.93 0.04 0.03
Matches are distributed among these distances:
94 53 0.14
96 197 0.51
98 140 0.36
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (95 bp):
CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
CTTTCACATTCATCACATCGGCCATTAGGC
Found at i:38809650 original size:145 final size:145
Alignment explanation
Indices: 38809378--38809883 Score: 830
Period size: 145 Copynumber: 3.5 Consensus size: 145
38809368 CCCTTCGGGA
* * * * * * *
38809378 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
*
38809439 ACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCA
66 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
38809504 CATCGGCCATTAGGC
131 CATCGGCCATTAGGC
*
38809519 CTTATCACATATATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
*
38809584 ACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCA
66 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
38809649 CATCGGCCATTAGGC
131 CATCGGCCATTAGGC
38809664 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
38809729 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCAT
66 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCAT
* *
38809794 CACATTGGCCATTCGGC
129 CACATCGGCCATTAGGC
38809811 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
38809874 ACA--TTCACAT
66 ACACTTTCACAT
38809884 CACAATTATC
Statistics
Matches: 345, Mismatches: 14, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
141 10 0.03
142 1 0.00
143 43 0.12
145 246 0.71
147 45 0.13
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (145 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
CATCGGCCATTAGGC
Found at i:38814212 original size:48 final size:48
Alignment explanation
Indices: 38814137--38814318 Score: 171
Period size: 48 Copynumber: 3.9 Consensus size: 48
38814127 CACATAGTAG
* *
38814137 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* * *
38814185 GATGCCAATGCCGTGTCTCAGACATGGTCTTACATGAGATCATGCATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCA--CATATC
* * ** * * *
38814235 GAAGCCAAT---A-G-CCTAGTTATGGTCTTACATGATG-TCTCATATT
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATG-GGATCACATATC
*
38814278 GATGCCAATGCCATGTCCCAGACATGGTCTTGCAT-GGATCA
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCA
38814319 TGCATATCTC
Statistics
Matches: 104, Mismatches: 21, Indels: 19
0.72 0.15 0.13
Matches are distributed among these distances:
43 13 0.12
45 18 0.17
46 4 0.04
47 3 0.03
48 52 0.50
50 14 0.13
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.29
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
Found at i:38821882 original size:48 final size:48
Alignment explanation
Indices: 38821796--38822037 Score: 257
Period size: 48 Copynumber: 5.1 Consensus size: 48
38821786 GAAATCACAT
*
38821796 TCACATATTAGGATGCCAATGCCAT-ATCCCAGATATGGTCTTACATGGGA
1 TCACATATT--GATGCCAATGCCATGA-CCCAGACATGGTCTTACATGGGA
* *
38821846 TCACATATCGATGCCAATGCCATGACTCAGACATGGTCTTACATGGGA
1 TCACATATTGATGCCAATGCCATGACCCAGACATGGTCTTACATGGGA
* * * *
38821894 TCATGCATATTGAAGCCAAT---A-G-CCTAG-CTATGGTCTTACACGATG-
1 TCA--CATATTGATGCCAATGCCATGACCCAGAC-ATGGTCTTACATG-GGA
* *
38821939 TCTCATATTGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 TCACATATTGATGCCAATGCCATGACCCAGACATGGTCTTACATGGGA
* * *
38821987 TCACATTTTGATGCCAATGCCATGTCCCAGGCATGGTCTTACATGGGA
1 TCACATATTGATGCCAATGCCATGACCCAGACATGGTCTTACATGGGA
38822035 TCA
1 TCA
38822038 TGCTTATCTC
Statistics
Matches: 163, Mismatches: 17, Indels: 26
0.79 0.08 0.13
Matches are distributed among these distances:
43 14 0.09
44 1 0.01
45 17 0.10
46 3 0.02
47 3 0.02
48 102 0.63
49 2 0.01
50 21 0.13
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (48 bp):
TCACATATTGATGCCAATGCCATGACCCAGACATGGTCTTACATGGGA
Found at i:38826574 original size:17 final size:17
Alignment explanation
Indices: 38826552--38826585 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
38826542 TCTGTTCTTA
38826552 AGGTTCAACCGAAATTT
1 AGGTTCAACCGAAATTT
*
38826569 AGGTTCAACCGGAATTT
1 AGGTTCAACCGAAATTT
38826586 TACACTTGCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (17 bp):
AGGTTCAACCGAAATTT
Found at i:38828690 original size:27 final size:26
Alignment explanation
Indices: 38828634--38828690 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
38828624 CAACCTTAAC
* * *
38828634 CCTAGGGGTATATCAGTAATTTTGCT
1 CCTAGGGGTAAATCAGTAATTTTCCA
**
38828660 CCTAGGGGTAAATTTGTAAATTTTCCA
1 CCTAGGGGTAAATCAGT-AATTTTCCA
38828687 CCTA
1 CCTA
38828691 TAAAGGTATT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 14 0.56
27 11 0.44
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTCCA
Found at i:38830673 original size:19 final size:18
Alignment explanation
Indices: 38830636--38830679 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
38830626 ATACATACAG
38830636 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
38830653 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
38830672 TACTAATT
1 TAATAATT
38830680 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:38835375 original size:24 final size:25
Alignment explanation
Indices: 38835343--38835406 Score: 103
Period size: 24 Copynumber: 2.6 Consensus size: 25
38835333 TATAACAATT
38835343 CTCACATGAGTTGTGAATGT-AATG
1 CTCACATGAGTTGTGAATGTAAATG
38835367 CTCACATGAGTTGTGAATGTAAATG
1 CTCACATGAGTTGTGAATGTAAATG
* *
38835392 CTCACACGAGCTGTG
1 CTCACATGAGTTGTG
38835407 GGTCAGGATG
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
24 20 0.54
25 17 0.46
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (25 bp):
CTCACATGAGTTGTGAATGTAAATG
Found at i:38843263 original size:17 final size:17
Alignment explanation
Indices: 38843241--38843277 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
38843231 ATGCACTAAC
**
38843241 ATGAAAATGTAATGACA
1 ATGAAAATCCAATGACA
38843258 ATGAAAATCCAATGACA
1 ATGAAAATCCAATGACA
38843275 ATG
1 ATG
38843278 TATACTTATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.51, C:0.11, G:0.16, T:0.22
Consensus pattern (17 bp):
ATGAAAATCCAATGACA
Found at i:38847065 original size:23 final size:22
Alignment explanation
Indices: 38847033--38847075 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
38847023 ATAATCCTTA
* *
38847033 CCAAATCATACTAAATCATAAG
1 CCAAATCATACAAAAACATAAG
38847055 CCAAAGTCATACAAAAACATA
1 CCAAA-TCATACAAAAACATA
38847076 TGTTTAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.53, C:0.23, G:0.05, T:0.19
Consensus pattern (22 bp):
CCAAATCATACAAAAACATAAG
Found at i:38847848 original size:42 final size:43
Alignment explanation
Indices: 38847741--38847910 Score: 113
Period size: 42 Copynumber: 4.0 Consensus size: 43
38847731 AACTCATACA
* * *
38847741 ATGCCAAC-GTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCC-ACTGTCCCAGACATGGTCTTACACGAAATCAAATATCG
* * * *
38847784 ATGCCACTAT-CCATATAGGGTCTTACACGAAATCAAATAT-G
1 ATGCCACTGTCCCAGACATGGTCTTACACGAAATCAAATATCG
*
38847825 ATGTCGA-TGTCCCAGACATGGTCTTACACGTAAATCTCAAAT-T-G
1 ATG-CCACTGTCCCAGACATGGTCTTACACG-AAA--TCAAATATCG
* * **
38847869 ATTCCAAC-ATCCCAGATGTGGTCTTACACGAAAT-AACATATC
1 ATGCC-ACTGTCCCAGACATGGTCTTACACGAAATCAA-ATATC
38847911 AGAATCCTAT
Statistics
Matches: 99, Mismatches: 17, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
40 2 0.02
41 9 0.09
42 45 0.45
43 13 0.13
44 24 0.24
45 6 0.06
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (43 bp):
ATGCCACTGTCCCAGACATGGTCTTACACGAAATCAAATATCG
Found at i:38853224 original size:22 final size:22
Alignment explanation
Indices: 38853199--38853242 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
38853189 TTGGAAGAGT
*
38853199 ATGAAATTGATAAGAGTTAGTA
1 ATGAAAATGATAAGAGTTAGTA
*
38853221 ATGAAAATGATACGAGTTAGTA
1 ATGAAAATGATAAGAGTTAGTA
38853243 CAGGTATGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.45, C:0.02, G:0.23, T:0.30
Consensus pattern (22 bp):
ATGAAAATGATAAGAGTTAGTA
Found at i:38858401 original size:33 final size:33
Alignment explanation
Indices: 38858363--38858430 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
38858353 TTTGGCCTTC
* *
38858363 ATTTGAACACTTTTATTAATGTTGGGCCTTTAT
1 ATTTGAACACTTTTATAAATGTTAGGCCTTTAT
*
38858396 ATTTGAACACTTTTATAAATGTTAGGCTTTTAT
1 ATTTGAACACTTTTATAAATGTTAGGCCTTTAT
38858429 AT
1 AT
38858431 GACCATTTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.28, C:0.10, G:0.13, T:0.49
Consensus pattern (33 bp):
ATTTGAACACTTTTATAAATGTTAGGCCTTTAT
Found at i:38859478 original size:55 final size:54
Alignment explanation
Indices: 38859391--38859645 Score: 206
Period size: 55 Copynumber: 4.8 Consensus size: 54
38859381 ATTAGGGTTT
* *
38859391 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGATTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAAGATTTCTAAGGA
* * * * *
38859446 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAG-TTACTATAAGGAA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGATT--TCTAAGG-A
* * * *
38859502 AAGG-TCCCATGTAAGACAATGCCAAGGCATGGCATTGGT--GAGTTCATAA-GA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGATTTC-TAAGGA
* * *
38859553 TAAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTATG-TTTC--A--A
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGATTTCTAAGGA
* * * * * *
38859603 AAGGATACCACGTAAGACTATGACAAGTCATGGAAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG
38859646 GTACCATTGT
Statistics
Matches: 163, Mismatches: 28, Indels: 24
0.76 0.13 0.11
Matches are distributed among these distances:
49 37 0.23
50 1 0.01
51 2 0.01
52 6 0.04
53 36 0.22
54 12 0.07
55 65 0.40
56 4 0.02
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGATTTCTAAGGA
Found at i:38859858 original size:16 final size:16
Alignment explanation
Indices: 38859837--38859867 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
38859827 ATAAATTTGA
38859837 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
38859853 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
38859868 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:38863730 original size:6 final size:6
Alignment explanation
Indices: 38863708--38863742 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
38863698 TAGGTTTCCA
38863708 AAAATGG AAAATG -AAATG AAAATG AAAATG AAAAT
1 AAAAT-G AAAATG AAAATG AAAATG AAAATG AAAAT
38863743 TTGTAATCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 5 0.19
6 17 0.63
7 5 0.19
ACGTcount: A:0.66, C:0.00, G:0.17, T:0.17
Consensus pattern (6 bp):
AAAATG
Found at i:38863910 original size:25 final size:25
Alignment explanation
Indices: 38863882--38863929 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
38863872 AACAAATTTC
38863882 TCAAAAATTTATCGGGGTAAAATCG
1 TCAAAAATTTATCGGGGTAAAATCG
** * *
38863907 TCAAAGTTTTATTGGTGTAAAAT
1 TCAAAAATTTATCGGGGTAAAAT
38863930 TTGGATGAGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.38, C:0.08, G:0.19, T:0.35
Consensus pattern (25 bp):
TCAAAAATTTATCGGGGTAAAATCG
Found at i:38878191 original size:27 final size:27
Alignment explanation
Indices: 38878161--38878233 Score: 105
Period size: 27 Copynumber: 2.7 Consensus size: 27
38878151 GGGGTATTTC
38878161 AGTCATTTTACCACATAAGGG-AGAAAT
1 AGTCATTTTACCACATAAGGGTA-AAAT
* *
38878188 AGTCATTTTACCTCATATGGGTAAAAT
1 AGTCATTTTACCACATAAGGGTAAAAT
38878215 AGTCATTTTACCACA-AAGG
1 AGTCATTTTACCACATAAGG
38878234 TGGTGTAAGT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
26 3 0.07
27 37 0.90
28 1 0.02
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.30
Consensus pattern (27 bp):
AGTCATTTTACCACATAAGGGTAAAAT
Found at i:38881991 original size:27 final size:27
Alignment explanation
Indices: 38881967--38882037 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
38881957 TAGGGGCATT
38881967 TCAATCATTTTACCACATAAAGGCAAAA
1 TCAATCATTTTACCACATAAAGGC-AAA
*
38881995 T-AATCATTTTACCTCATAAAGGCAAA
1 TCAATCATTTTACCACATAAAGGCAAA
* *
38882021 ACAGTCATTTTACCACA
1 TCAATCATTTTACCACA
38882038 ATGGAGGACT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.42, C:0.23, G:0.07, T:0.28
Consensus pattern (27 bp):
TCAATCATTTTACCACATAAAGGCAAA
Found at i:38887997 original size:69 final size:70
Alignment explanation
Indices: 38887865--38887997 Score: 214
Period size: 69 Copynumber: 1.9 Consensus size: 70
38887855 TAGTTTATTA
* * * * *
38887865 CTAATTAATTTGCTGCTGTAATGCTGTAAATTATTGGCTGTCCAAATTAGGACAAATTTATGGTA
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
38887930 CTTAG
66 CTTAG
38887935 CTAATTAATATGCTGCTGTAATACT-TAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
38887998 GTTATGTGCT
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
69 35 0.60
70 23 0.40
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (70 bp):
CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
CTTAG
Found at i:38889536 original size:47 final size:47
Alignment explanation
Indices: 38889470--38889873 Score: 648
Period size: 47 Copynumber: 8.6 Consensus size: 47
38889460 TATTTGAATA
*
38889470 AATGTGAAA-TGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
38889516 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
38889563 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
38889610 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
38889657 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
38889706 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
38889753 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * *** *
38889800 AATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGGAAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
38889847 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
38889874 TCCCGAAGGG
Statistics
Matches: 338, Mismatches: 17, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
46 9 0.03
47 284 0.84
49 45 0.13
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:38889804 original size:190 final size:190
Alignment explanation
Indices: 38889470--38889873 Score: 683
Period size: 190 Copynumber: 2.2 Consensus size: 190
38889460 TATTTGAATA
38889470 AATGTGAAA-TG--TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATA
* *
38889532 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
66 TATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAAT
* * *
38889597 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
131 GGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCAAACGTGATG
*
38889657 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATA
38889722 TATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAAT
66 TATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAAT
* * *
38889787 GGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGGAAACGTGATG
131 GGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCAAACGTGATG
*
38889847 GATGTGAAAGTGTATA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
38889874 TCCCGAAGGG
Statistics
Matches: 204, Mismatches: 10, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
187 9 0.04
188 12 0.06
189 1 0.00
190 182 0.89
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.29
Consensus pattern (190 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATA
TATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAAT
GGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCAAACGTGATG
Found at i:38892228 original size:20 final size:21
Alignment explanation
Indices: 38892192--38892231 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
38892182 GCATTTTGAT
38892192 AATTGGGATTAATGGGCCAAA
1 AATTGGGATTAATGGGCCAAA
*
38892213 AATTGGG-TTCATGGGCCAA
1 AATTGGGATTAATGGGCCAA
38892232 CGGGCCCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.33, C:0.12, G:0.30, T:0.25
Consensus pattern (21 bp):
AATTGGGATTAATGGGCCAAA
Found at i:38892533 original size:27 final size:27
Alignment explanation
Indices: 38892493--38892603 Score: 104
Period size: 27 Copynumber: 4.1 Consensus size: 27
38892483 AGGAAGCGTC
*
38892493 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
38892520 CTGGTGGCTCTGCCACATATT-TCT-ATT
1 CTGGTGGCTCTGCCACA-ATTATCTGA-T
* *
38892547 CTGGTGGC-CTACCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * * *
38892574 CTGGCGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
38892600 CTGG
1 CTGG
38892604 CAGCCATGCT
Statistics
Matches: 70, Mismatches: 8, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
25 3 0.04
26 15 0.21
27 43 0.61
28 9 0.13
ACGTcount: A:0.17, C:0.25, G:0.22, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:38895546 original size:44 final size:41
Alignment explanation
Indices: 38895449--38895547 Score: 112
Period size: 40 Copynumber: 2.4 Consensus size: 41
38895439 CAATGATATT
*
38895449 TGGCACTAAGTGTGCGATTCAAAATAGCTTCGGCTATCTAA
1 TGGCACTAAGTGTGCGATCCAAAATAGCTTCGGCTATCTAA
* * *
38895490 -GGCACTAAGTGTGCGATACCGAGATAGCTTCGGTTAAT-TGAAA
1 TGGCACTAAGTGTGCGAT-CCAAAATAGCTTCGGCT-ATCT--AA
38895533 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
38895548 AGAATCATTC
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
40 17 0.35
41 14 0.29
42 2 0.04
43 2 0.04
44 14 0.29
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.27
Consensus pattern (41 bp):
TGGCACTAAGTGTGCGATCCAAAATAGCTTCGGCTATCTAA
Found at i:38896599 original size:32 final size:32
Alignment explanation
Indices: 38896563--38896636 Score: 121
Period size: 32 Copynumber: 2.3 Consensus size: 32
38896553 TCTCAATTGG
* *
38896563 GCCTAGCCCATCTCAGAACCAATATCAGTTGA
1 GCCTAGCCCATATCAGAACAAATATCAGTTGA
*
38896595 GCCTAGCCCATATCAGAACAAATATCAGTTGG
1 GCCTAGCCCATATCAGAACAAATATCAGTTGA
38896627 GCCTAGCCCA
1 GCCTAGCCCA
38896637 GTTCAATATC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.31, C:0.31, G:0.18, T:0.20
Consensus pattern (32 bp):
GCCTAGCCCATATCAGAACAAATATCAGTTGA
Found at i:38900587 original size:17 final size:17
Alignment explanation
Indices: 38900565--38900598 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
38900555 CACGTTAAGA
*
38900565 GTATTTGCTGAATTATC
1 GTATTTGATGAATTATC
38900582 GTATTTGATGAATTATC
1 GTATTTGATGAATTATC
38900599 TTTGAATCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.09, G:0.18, T:0.47
Consensus pattern (17 bp):
GTATTTGATGAATTATC
Found at i:38901798 original size:16 final size:16
Alignment explanation
Indices: 38901774--38901804 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
38901764 ATTCTTCACT
38901774 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
38901790 TACTTACTTACTTAA
1 TACTCACTTACTTAA
38901805 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:38901810 original size:20 final size:20
Alignment explanation
Indices: 38901771--38901810 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
38901761 AAAATTCTTC
* *
38901771 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
38901791 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
38901811 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:38902177 original size:55 final size:53
Alignment explanation
Indices: 38902042--38902249 Score: 213
Period size: 55 Copynumber: 3.8 Consensus size: 53
38902032 ATCCTTTTGA
* * * *
38902042 AACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCGTTATG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
* * *
38902095 AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G
* ***
38902149 TAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-G
1 -AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
* * * *
38902202 AGACCTTACCAATTTCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 A-A-CTTACCAA-TGCCATGTCTTGACATGGTCTTACATGGGATCCTT
38902250 AAACCCTAAT
Statistics
Matches: 128, Mismatches: 20, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
52 3 0.02
53 44 0.34
54 8 0.06
55 71 0.55
56 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (53 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
Found at i:38911979 original size:19 final size:19
Alignment explanation
Indices: 38911957--38912014 Score: 71
Period size: 19 Copynumber: 3.0 Consensus size: 19
38911947 TTGCACTTCA
*
38911957 GTGCCTCTGTTTGACTTTG
1 GTGCCTCTGTTTCACTTTG
* *
38911976 GTGCCTCTGTTACACTTCG
1 GTGCCTCTGTTTCACTTTG
*
38911995 GTGTCTCTGGTTTCACTTTG
1 GTGCCTCT-GTTTCACTTTG
38912015 ACGCCTCTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 23 0.72
20 9 0.28
ACGTcount: A:0.07, C:0.24, G:0.24, T:0.45
Consensus pattern (19 bp):
GTGCCTCTGTTTCACTTTG
Found at i:38914727 original size:92 final size:92
Alignment explanation
Indices: 38914615--38914783 Score: 311
Period size: 92 Copynumber: 1.8 Consensus size: 92
38914605 CCCATAAGCG
* *
38914615 AACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
38914680 GAGTTCGGATGCCTAGTTACATCTCAC
66 GAGTTCGGATGCCTAGTTACATCTCAC
*
38914707 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
38914772 GAGTTCGGATGC
66 GAGTTCGGATGC
38914784 TCAATCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 74 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (92 bp):
AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:38914780 original size:46 final size:46
Alignment explanation
Indices: 38914606--38914780 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
38914596 TGTAACCCGC
* * * *
38914606 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
38914652 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
38914702 -C-TCA--CAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
38914744 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
38914781 TGCTCAATCA
Statistics
Matches: 109, Mismatches: 10, Indels: 20
0.78 0.07 0.14
Matches are distributed among these distances:
41 2 0.02
42 4 0.04
43 2 0.02
44 2 0.02
46 90 0.83
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:38920354 original size:24 final size:24
Alignment explanation
Indices: 38920327--38920374 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
38920317 TCCTAAAATC
38920327 TCTCCATAATCCACTCCTTGATTT
1 TCTCCATAATCCACTCCTTGATTT
* *
38920351 TCTCCCTAATCCTCTCCTTGATTT
1 TCTCCATAATCCACTCCTTGATTT
38920375 CCTTCACATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.17, C:0.35, G:0.04, T:0.44
Consensus pattern (24 bp):
TCTCCATAATCCACTCCTTGATTT
Found at i:38926368 original size:26 final size:26
Alignment explanation
Indices: 38926330--38926406 Score: 91
Period size: 26 Copynumber: 3.0 Consensus size: 26
38926320 GCCAACACAC
* *
38926330 CAATATCGTAGCAAAGCTGCTAGTAA
1 CAATATCGCAGCAAAGCTGCCAGTAA
* * *
38926356 TAATATCGCAGCAGAGCTGCCACTAA
1 CAATATCGCAGCAAAGCTGCCAGTAA
* *
38926382 CAGTAACGCAGCAAAGCTGCCAGTA
1 CAATATCGCAGCAAAGCTGCCAGTA
38926407 TCAGTATATG
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.36, C:0.25, G:0.21, T:0.18
Consensus pattern (26 bp):
CAATATCGCAGCAAAGCTGCCAGTAA
Found at i:38928757 original size:42 final size:43
Alignment explanation
Indices: 38928710--38928790 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 43
38928700 AAAACCATGT
*
38928710 CTGGGACA-TCGGCATC-ATATATGATTCCATGTAAGACCCTAC
1 CTGGGACAGT-GGCATCGATATATGATTACATGTAAGACCCTAC
*
38928752 CTGGGACAGTGGCATCGATATTTGATTACATGTAAGACC
1 CTGGGACAGTGGCATCGATATATGATTACATGTAAGACC
38928791 TCGTCTGGGA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
42 14 0.40
43 21 0.60
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.27
Consensus pattern (43 bp):
CTGGGACAGTGGCATCGATATATGATTACATGTAAGACCCTAC
Found at i:38928799 original size:43 final size:41
Alignment explanation
Indices: 38928708--38928809 Score: 111
Period size: 43 Copynumber: 2.4 Consensus size: 41
38928698 GTAAAACCAT
*
38928708 GTCTGGGACA-TCGGCATCATATATGATTCCATGTAAGACCC
1 GTCTGGGACAGT-GGCATCATATATGATTACATGTAAGACCC
*
38928749 -TACCTGGGACAGTGGCATCGATATTTGATTACATGTAAGACCTC
1 GT--CTGGGACAGTGGCATC-ATATATGATTACATGTAAGACC-C
38928793 GTCTGGGAC-GTTGGCAT
1 GTCTGGGACAG-TGGCAT
38928810 TGTATGAGCT
Statistics
Matches: 52, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
40 1 0.02
42 15 0.29
43 34 0.65
44 1 0.02
45 1 0.02
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (41 bp):
GTCTGGGACAGTGGCATCATATATGATTACATGTAAGACCC
Found at i:38933135 original size:27 final size:27
Alignment explanation
Indices: 38933119--38933172 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
38933109 AGCACCGACC
*
38933119 ATGGCTTATGCAATTAGAGCTCAAGAA
1 ATGGCTTATGCAATTAGAGCACAAGAA
* *
38933146 ATGGCTTATGCAATTAGATCTCAAGAA
1 ATGGCTTATGCAATTAGAGCACAAGAA
38933173 GACGCTTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (27 bp):
ATGGCTTATGCAATTAGAGCACAAGAA
Found at i:38934691 original size:20 final size:20
Alignment explanation
Indices: 38934645--38934693 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
38934635 CATATAACCC
38934645 TTGTTTTGCAAATTTTCATGT
1 TTGTTTTG-AAATTTTCATGT
*
38934666 TT-TTTTGAAGTTTTCTAT-T
1 TTGTTTTGAAATTTTC-ATGT
38934685 TTGTTTTGA
1 TTGTTTTGA
38934694 TTTATCCCTG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 10 0.40
20 13 0.52
21 2 0.08
ACGTcount: A:0.16, C:0.06, G:0.14, T:0.63
Consensus pattern (20 bp):
TTGTTTTGAAATTTTCATGT
Found at i:38942143 original size:13 final size:13
Alignment explanation
Indices: 38942125--38942149 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38942115 CTCGACAGGG
38942125 ACACGCCCGTGTC
1 ACACGCCCGTGTC
38942138 ACACGCCCGTGT
1 ACACGCCCGTGT
38942150 GCGATTACTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.44, G:0.24, T:0.16
Consensus pattern (13 bp):
ACACGCCCGTGTC
Found at i:38949590 original size:93 final size:93
Alignment explanation
Indices: 38949478--38949648 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
38949468 GCCCCTAAGT
*
38949478 GAACTCGGACTCAACTCAACGAGCTC-GAGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGA-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
38949542 ACGAGTTCGGATGCCTAGTTACATCTCAC
65 ACGAGTTCGGATGCCTAGTTACATCTCAC
* *
38949571 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
38949636 CGAGTTCGGATGC
66 CGAGTTCGGATGC
38949649 TCGACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
93 72 0.97
94 2 0.03
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:38949644 original size:46 final size:46
Alignment explanation
Indices: 38949475--38949645 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
38949465 CCCGCCCCTA
* *
38949475 AGTGAACTCGGACTCAACTCAACGAGCTC-GAGCGTTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCATCCAT
*
38949520 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-T
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGA-G-C-A-TTCGCATCCAT
*
38949568 CA-CGAACTCGGACTCAACTCAACGAGTTCGGA-CATTCGCATCCAT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCATCCAT
38949613 AGGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 A-GTGAACTCGGACTCAACTCAACGAGTTCGGA
38949646 TGCTCGACCA
Statistics
Matches: 108, Mismatches: 7, Indels: 20
0.80 0.05 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 3 0.03
45 1 0.01
46 57 0.53
47 31 0.29
48 3 0.03
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.21
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCATCCAT
Found at i:38950104 original size:30 final size:30
Alignment explanation
Indices: 38950070--38950129 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
38950060 ATTTAATACG
38950070 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** * *
38950100 AACTTTTGCATAATTGCACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
38950130 GGCTCGGGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:38955819 original size:56 final size:58
Alignment explanation
Indices: 38955731--38955851 Score: 151
Period size: 56 Copynumber: 2.1 Consensus size: 58
38955721 CGTATAACAT
* * * *
38955731 GATTACCAGTCTAGGCTAAATCCTTTATATAACGTATGCTCGA-AGAGT-TTA-ATTAG
1 GATTACCAGTCCAGGCTAAATCCCTAATATAACGTATACTCGAGAG-GTATTATATTAG
*
38955787 GGTTACCAGTCCAGGCTAAA-CCCTAATCATAACGTATACTCGAGAGGTATTATATTAG
1 GATTACCAGTCCAGGCTAAATCCCTAAT-ATAACGTATACTCGAGAGGTATTATATTAG
38955845 GATTACC
1 GATTACC
38955852 CATTTGAACT
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
55 5 0.09
56 34 0.62
57 5 0.09
58 11 0.20
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (58 bp):
GATTACCAGTCCAGGCTAAATCCCTAATATAACGTATACTCGAGAGGTATTATATTAG
Found at i:38962426 original size:34 final size:33
Alignment explanation
Indices: 38962371--38962435 Score: 78
Period size: 34 Copynumber: 1.9 Consensus size: 33
38962361 GCATATTTGT
* *
38962371 ACTGTACTGTTACTTAGATGGGCTCAGGCCCAC
1 ACTGTACTGATACTTAGATGGGCTAAGGCCCAC
*
38962404 ACTGATACTGATACTGTA-ATGGGTTAAGGCCC
1 ACTG-TACTGATACT-TAGATGGGCTAAGGCCC
38962436 TGATTGAAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 4 0.15
34 21 0.78
35 2 0.07
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.28
Consensus pattern (33 bp):
ACTGTACTGATACTTAGATGGGCTAAGGCCCAC
Found at i:38966141 original size:40 final size:40
Alignment explanation
Indices: 38966086--38966163 Score: 138
Period size: 40 Copynumber: 1.9 Consensus size: 40
38966076 TGGAAAAAAA
38966086 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
* *
38966126 TATAACCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTT
38966164 GTTACATCCG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.29
Consensus pattern (40 bp):
TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
Found at i:38970442 original size:18 final size:18
Alignment explanation
Indices: 38970395--38970445 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
38970385 GGCTATAGAG
38970395 GAAAAGAAGAAGAAGAGGA
1 GAAAAGAAGAAG-AGAGGA
* *
38970414 -AATAGATGAAGAGAGGA
1 GAAAAGAAGAAGAGAGGA
38970431 GAAAAGAAGAAGAGA
1 GAAAAGAAGAAGAGA
38970446 AAAGAAATCG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 6 0.22
18 21 0.78
ACGTcount: A:0.61, C:0.00, G:0.35, T:0.04
Consensus pattern (18 bp):
GAAAAGAAGAAGAGAGGA
Found at i:38970451 original size:18 final size:18
Alignment explanation
Indices: 38970395--38970452 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
38970385 GGCTATAGAG
*
38970395 GAAAAGAAGAAGA-AGAG
1 GAAAAGAAGAAGAGAGAA
* *
38970412 GAAATAGATGAAGAGAGGA
1 GAAA-AGAAGAAGAGAGAA
*
38970431 GAAAAGAAGAAGAGAAAA
1 GAAAAGAAGAAGAGAGAA
38970449 GAAA
1 GAAA
38970453 TCGTTACGCC
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
17 4 0.12
18 23 0.70
19 6 0.18
ACGTcount: A:0.64, C:0.00, G:0.33, T:0.03
Consensus pattern (18 bp):
GAAAAGAAGAAGAGAGAA
Found at i:38973846 original size:19 final size:19
Alignment explanation
Indices: 38973810--38973848 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
38973800 TTTTCATCAT
* *
38973810 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
38973829 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
38973848 A
1 A
38973849 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:38974343 original size:20 final size:21
Alignment explanation
Indices: 38974311--38974351 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
38974301 TGATAGAGTC
*
38974311 ACCAGATACAGATATTTTGTG
1 ACCAGATACAGATAATTTGTG
38974332 ACCAGA-ACAGATAATTTGTG
1 ACCAGATACAGATAATTTGTG
38974352 GCATAGCCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.29
Consensus pattern (21 bp):
ACCAGATACAGATAATTTGTG
Found at i:38974517 original size:28 final size:28
Alignment explanation
Indices: 38974470--38974534 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
38974460 AAATTAACCC
*
38974470 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
38974498 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
38974526 TAGGGGTAT
1 TAGGGGTAT
38974535 TCTAGTAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:38979392 original size:208 final size:208
Alignment explanation
Indices: 38979033--38979657 Score: 1133
Period size: 208 Copynumber: 3.0 Consensus size: 208
38979023 AGTATGTATG
* * * * * *
38979033 CCCTGTTTTCAGATGATCTGAGACACGGGCGTGTCTGAAGCCGCGTGAGGCAAACGGCCTATTCA
1 CCCTGTTTTCAGATGACCTGAGACAAGGGCATGTCTGGAGCCGTGTGAGGCATACGGCCTATTCA
* * *
38979098 CACGGGCGTGTGACCCTTGTATGTTTGAAATTTTTCTAAGTTTCCAAAATTATCATATGATATCG
66 CACAGGCGTGTGACCC-TGTATGTTTGAAATTTTTCTAAGTTTCAAAAATTATCGTATGATATCG
38979163 GTTTAGTCCCGAACCACTTCTAAAGCATGTTTAAGGCCTCATAAGCCCTTATAAGGGACAATGTG
130 GTTTAGTCCCGAACCACTTCTAAAGCATGTTTAAGGCCTCATAAGCCCTTATAAGGGACAATGTG
38979228 ATTGTGTTGAATGA
195 ATTGTGTTGAATGA
38979242 CCCTGTTTTCAGATGACCTGAGACAAGGGCATGTCTGGAGCCGTGTGAGGCATACGGCCTATTCA
1 CCCTGTTTTCAGATGACCTGAGACAAGGGCATGTCTGGAGCCGTGTGAGGCATACGGCCTATTCA
38979307 CACAGGCGTGTGACCCTGTATGTTTGAAATTTTTCTAAGTTTCAAAAATTATCGTATGATATCGG
66 CACAGGCGTGTGACCCTGTATGTTTGAAATTTTTCTAAGTTTCAAAAATTATCGTATGATATCGG
* *
38979372 TTTAGTCCCGAACCACTTCTAAAGCATGTTTAAGGCCTCACAAGCCCTTATAAAGGACAATGTGA
131 TTTAGTCCCGAACCACTTCTAAAGCATGTTTAAGGCCTCATAAGCCCTTATAAGGGACAATGTGA
38979437 TTGTGTTGAATGA
196 TTGTGTTGAATGA
38979450 CCCTGTTTTCAGATGACCTGAGACAAGGGCATGTCTGGAGCCGTGTGAGGCATACGGCCTATTCA
1 CCCTGTTTTCAGATGACCTGAGACAAGGGCATGTCTGGAGCCGTGTGAGGCATACGGCCTATTCA
38979515 CACAGGCGTGTGACCCTGTATGTTTGAAATTTTTCTAAGTTTCAAAAATTATCGTATGATATCGG
66 CACAGGCGTGTGACCCTGTATGTTTGAAATTTTTCTAAGTTTCAAAAATTATCGTATGATATCGG
*
38979580 TTTAGTCCCGAACCACTTCTAAAGCATGTTTAAGGCCTCATAAGCCCTTATAAGGGACAATGTGG
131 TTTAGTCCCGAACCACTTCTAAAGCATGTTTAAGGCCTCATAAGCCCTTATAAGGGACAATGTGA
38979645 TTGTGTTGAATGA
196 TTGTGTTGAATGA
38979658 TTTATGAGAA
Statistics
Matches: 402, Mismatches: 14, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
208 328 0.82
209 74 0.18
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (208 bp):
CCCTGTTTTCAGATGACCTGAGACAAGGGCATGTCTGGAGCCGTGTGAGGCATACGGCCTATTCA
CACAGGCGTGTGACCCTGTATGTTTGAAATTTTTCTAAGTTTCAAAAATTATCGTATGATATCGG
TTTAGTCCCGAACCACTTCTAAAGCATGTTTAAGGCCTCATAAGCCCTTATAAGGGACAATGTGA
TTGTGTTGAATGA
Found at i:38982384 original size:20 final size:20
Alignment explanation
Indices: 38982346--38982403 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
38982336 TCATAATGCT
* *
38982346 AACAGGGGCATTGAAGTGCG
1 AACAGGGGCATCGAAGTGCA
* *
38982366 ACCAGGGGCATCGAGGTGCA
1 AACAGGGGCATCGAAGTGCA
*
38982386 AACAGGGACATCGAAGTG
1 AACAGGGGCATCGAAGTG
38982404 TGAATAGGGG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.31, C:0.19, G:0.38, T:0.12
Consensus pattern (20 bp):
AACAGGGGCATCGAAGTGCA
Found at i:38991480 original size:34 final size:34
Alignment explanation
Indices: 38991429--38991548 Score: 159
Period size: 34 Copynumber: 3.5 Consensus size: 34
38991419 TTACAGTGTT
* * *
38991429 ATTTTGTGTGCTAGATGGATTACCTCTTACGAGC
1 ATTTGGTGTGCTGGATGGATTAGCTCTTACGAGC
* * *
38991463 ATTTGGTGTGATGGATGGATTAGGTCTTATGAGC
1 ATTTGGTGTGCTGGATGGATTAGCTCTTACGAGC
* *
38991497 ATTTGGTGTGCTTGATGGATTAGCTCATACGAGC
1 ATTTGGTGTGCTGGATGGATTAGCTCTTACGAGC
*
38991531 ATCTGGTGTGCTGGATGG
1 ATTTGGTGTGCTGGATGG
38991549 TTAACCGTGT
Statistics
Matches: 73, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 73 1.00
ACGTcount: A:0.19, C:0.12, G:0.32, T:0.37
Consensus pattern (34 bp):
ATTTGGTGTGCTGGATGGATTAGCTCTTACGAGC
Found at i:38991726 original size:27 final size:26
Alignment explanation
Indices: 38991679--38991744 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 26
38991669 GTTTTGATTG
* *
38991679 ACAGGAATTCTGATAATAACCTTATTC
1 ACAGGAACTCTGATAAGAACCTTA-TC
38991706 ACAGGAACTCT-ATCAAGAACCTTATC
1 ACAGGAACTCTGAT-AAGAACCTTATC
*
38991732 GCTAGGAACTCTG
1 AC-AGGAACTCTG
38991745 TTCAGGACTG
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
26 5 0.15
27 28 0.85
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (26 bp):
ACAGGAACTCTGATAAGAACCTTATC
Found at i:38995534 original size:27 final size:26
Alignment explanation
Indices: 38995497--38995611 Score: 140
Period size: 27 Copynumber: 4.3 Consensus size: 26
38995487 AGCATGGCTG
* *
38995497 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
38995523 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
38995551 CCAGAACAAATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
38995578 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
38995605 CCAGAAC
1 CCAGAAC
38995612 GCTTCCTCCA
Statistics
Matches: 78, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
26 5 0.06
27 56 0.72
28 17 0.22
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:38995556 original size:54 final size:54
Alignment explanation
Indices: 38995497--38995611 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
38995487 AGCATGGCTG
* *
38995497 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAAATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
38995551 CCAGAACAAATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAAATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
38995605 CCAGAAC
1 CCAGAAC
38995612 GCTTCCTCCA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 36 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAAATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:39002970 original size:26 final size:26
Alignment explanation
Indices: 39002932--39003015 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
39002922 CATGAAATTC
* *
39002932 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
39002958 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
*
39002984 TTATCATTGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
39003010 TTATCA
1 TTATCA
39003016 ATTTGTACCA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.36
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:39005307 original size:40 final size:39
Alignment explanation
Indices: 39005242--39005327 Score: 127
Period size: 40 Copynumber: 2.2 Consensus size: 39
39005232 TATATATATA
*
39005242 TAGCCGAAGCTATCTCAAATTGCACACCAAGTGCCACTTT
1 TAGCCGAAGCTATCTCAAATCGCACACCAAGTGCCA-TTT
* * *
39005282 TAGCCGAAGCTATTTCGAATCGCACACTAAGTGCCATTT
1 TAGCCGAAGCTATCTCAAATCGCACACCAAGTGCCATTT
39005321 TAGCCGA
1 TAGCCGA
39005328 TAAGTCGTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 10 0.24
40 32 0.76
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (39 bp):
TAGCCGAAGCTATCTCAAATCGCACACCAAGTGCCATTT
Found at i:39009312 original size:43 final size:43
Alignment explanation
Indices: 39009264--39009374 Score: 152
Period size: 43 Copynumber: 2.6 Consensus size: 43
39009254 TCCTAGATAT
* * *
39009264 GGTCTTACATGTTATCACATATCGATGCCACTGTCCCACACAG
1 GGTCTTACATGTAATCACATATCGATGCCAATGTCCCAAACAG
* * *
39009307 GGTCTTACATGAAATCACA-ATACAATGCCAATGTCCCAAACAT
1 GGTCTTACATGTAATCACATAT-CGATGCCAATGTCCCAAACAG
39009350 GGTCTTACATGTAATCACATATCGA
1 GGTCTTACATGTAATCACATATCGA
39009375 GTCGAGTCAT
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
42 2 0.03
43 54 0.93
44 2 0.03
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.27
Consensus pattern (43 bp):
GGTCTTACATGTAATCACATATCGATGCCAATGTCCCAAACAG
Found at i:39009448 original size:50 final size:49
Alignment explanation
Indices: 39009331--39009551 Score: 199
Period size: 50 Copynumber: 4.6 Consensus size: 49
39009321 TCACAATACA
* * * *
39009331 ATGCCAATGTCCCAAACATGGTCTTACA-TGTAATCAC-ATATCG-AGTCG
1 ATGCC-ATGTCCCAGACATGGTCTTACACTG-ACTCTCTATATCGAAGCCG
* * *
39009379 A-GTCATGTCCCAGACATGGTCTTACACTGACTCTCTTATATCGAGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTCTC-TATATCGAAGCCG
* * * * *
39009428 ATGCCATATCCCAGACATGGTCTTACACTGGCTCTCCTCTTTCCG-TGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTCT-CTATAT-CGAAGCCG
* * *
39009478 ATGCCATGTCCTAGACATGGTCTTACATTGA--CAC-ATATC-AAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTCTCTATATCGAAGCCG
39009523 ATGCCATGTCCCAGACATGGTCTTACACT
1 ATGCCATGTCCCAGACATGGTCTTACACT
39009552 AGCTCACATG
Statistics
Matches: 141, Mismatches: 24, Indels: 19
0.77 0.13 0.10
Matches are distributed among these distances:
45 32 0.23
46 27 0.19
47 5 0.04
48 8 0.06
49 3 0.02
50 63 0.45
51 3 0.02
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (49 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGACTCTCTATATCGAAGCCG
Found at i:39012794 original size:46 final size:46
Alignment explanation
Indices: 39012744--39012917 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 46
39012734 GTTGAGCATT
39012744 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
* * *
39012790 CGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TC
* * *
39012837 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATCGATGCGAACGCC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
*
39012883 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
39012918 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
Found at i:39012903 original size:93 final size:93
Alignment explanation
Indices: 39012739--39012909 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
39012729 GGATGGTTGA
* * * *
39012739 GCATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATCGATGCGAACGCCCGAACTCGTTGAGT
39012804 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
39012832 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATCGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATCGATGCGAACGCCCGAACTCGTTGAGT
39012897 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
39012910 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATCGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:39016722 original size:27 final size:26
Alignment explanation
Indices: 39016691--39016868 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 26
39016681 TAAATTGTAC
39016691 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
39016718 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
39016744 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
39016772 GGCACTAAGTGTGCGAGTTCGACTATGT
1 AGCACTAAGTGTGCGA-TT-GACTATGT
* *
39016800 AGCACTAAGTGTGCGATTGGATTACGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* *
39016827 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
39016854 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
39016869 GGCTCAATAT
Statistics
Matches: 128, Mismatches: 17, Indels: 12
0.82 0.11 0.08
Matches are distributed among these distances:
26 1 0.01
27 102 0.80
28 25 0.20
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:39016832 original size:82 final size:81
Alignment explanation
Indices: 39016692--39016847 Score: 226
Period size: 82 Copynumber: 1.9 Consensus size: 81
39016682 AAATTGTACA
* *
39016692 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
39016757 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* *
39016773 GCACTAAGTGTGCGAGTTCGACTATGTAGCACTAAGTGTGCG-ATTGGATTACG-TAGCACTAAG
1 GCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAAT-GAATACGAT-GCACTAAG
*
39016836 TGTGCGAGTTGA
63 TGTGCGAATTGA
39016848 TTATATAGCA
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
81 18 0.27
82 49 0.73
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:39016859 original size:82 final size:81
Alignment explanation
Indices: 39016688--39016868 Score: 222
Period size: 82 Copynumber: 2.2 Consensus size: 81
39016678 GATTAAATTG
* *
39016688 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
39016753 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * *
39016769 TGCGGCACTAAGTGTGCGAGTTCGACTATGTAGCACTAAGTGTGCG-ATTGGATTACG-TAGCAC
1 TACAGCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAAT-GAATACGAT-GCAC
* **
39016832 TAAGTGTGCGAGTTGATTA
63 TAAGTGTGCGAATTGACCA
* *
39016851 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
39016869 GGCTCAATAT
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
81 20 0.24
82 64 0.76
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:39016879 original size:27 final size:27
Alignment explanation
Indices: 39016773--39016879 Score: 74
Period size: 27 Copynumber: 3.9 Consensus size: 27
39016763 TGACCATGCG
* * *
39016773 GCACTAAGTGTGCGAGTTCGACTATGTA
1 GCACTAAGTGTGCGAGCTC-AATATATA
* **
39016801 GCACTAAGTGTGCGA-TTGGAT-TACGTA
1 GCACTAAGTGTGCGAGCTCAATATA--TA
* * *
39016828 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
39016855 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
39016880 CATTCGTGAA
Statistics
Matches: 64, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
25 1 0.02
26 1 0.02
27 41 0.64
28 19 0.30
29 2 0.03
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:39038734 original size:14 final size:14
Alignment explanation
Indices: 39038715--39038741 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
39038705 CACAATTGGT
39038715 AAAATTTTCATATC
1 AAAATTTTCATATC
39038729 AAAATTTTCATAT
1 AAAATTTTCATAT
39038742 AACCTTCCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (14 bp):
AAAATTTTCATATC
Found at i:39046872 original size:26 final size:26
Alignment explanation
Indices: 39046843--39046900 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
39046833 TGGTACAAAT
39046843 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
39046869 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
39046895 TGATAA
1 TGATAA
39046901 GGATTTCATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:39050685 original size:50 final size:50
Alignment explanation
Indices: 39050605--39050746 Score: 171
Period size: 50 Copynumber: 2.9 Consensus size: 50
39050595 CCCTGAGTAA
* *
39050605 TGAGATCCCATATAAGACCATGTCTAGGACATGGCATTGGCATCAATATG
1 TGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATATG
* ***
39050655 TGAGATCCCATGTAAGAGCATGTCTGGGACATGGCATTGGCATTGGTATG
1 TGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATATG
* * * * *
39050705 T--GATCCTATGTAAGACCATATCTGGGATATGACCTTGGCATC
1 TGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
39050747 TTATTATGTG
Statistics
Matches: 79, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
48 34 0.43
50 45 0.57
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.28
Consensus pattern (50 bp):
TGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATATG
Found at i:39053656 original size:9 final size:9
Alignment explanation
Indices: 39053642--39053727 Score: 109
Period size: 9 Copynumber: 9.6 Consensus size: 9
39053632 TTTATACAAA
*
39053642 TAATTCAGT
1 TAATTCGGT
39053651 TAATTCGGT
1 TAATTCGGT
*
39053660 TAATTTGGT
1 TAATTCGGT
* *
39053669 TAATTTGGG
1 TAATTCGGT
39053678 TAATTCGGT
1 TAATTCGGT
*
39053687 TAATTCGGG
1 TAATTCGGT
39053696 TAATTCGGT
1 TAATTCGGT
* *
39053705 TAATTTGAT
1 TAATTCGGT
39053714 TAATTCGGT
1 TAATTCGGT
39053723 TAATT
1 TAATT
39053728 TTATACTTAT
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 66 1.00
ACGTcount: A:0.26, C:0.07, G:0.21, T:0.47
Consensus pattern (9 bp):
TAATTCGGT
Found at i:39053683 original size:36 final size:36
Alignment explanation
Indices: 39053642--39053727 Score: 127
Period size: 36 Copynumber: 2.4 Consensus size: 36
39053632 TTTATACAAA
* * * *
39053642 TAATTCAGTTAATTCGGTTAATTTGGTTAATTTGGG
1 TAATTCGGTTAATTCGGGTAATTCGGTTAATTTGAG
*
39053678 TAATTCGGTTAATTCGGGTAATTCGGTTAATTTGAT
1 TAATTCGGTTAATTCGGGTAATTCGGTTAATTTGAG
39053714 TAATTCGGTTAATT
1 TAATTCGGTTAATT
39053728 TTATACTTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 45 1.00
ACGTcount: A:0.26, C:0.07, G:0.21, T:0.47
Consensus pattern (36 bp):
TAATTCGGTTAATTCGGGTAATTCGGTTAATTTGAG
Found at i:39054769 original size:46 final size:45
Alignment explanation
Indices: 39054712--39054878 Score: 156
Period size: 46 Copynumber: 3.6 Consensus size: 45
39054702 TAACTGATGA
*
39054712 ATGTCCTAGACATGTCTTACACTAGCTTACGTCTCGAGGCCGATAC
1 ATGTCCCAGACATGTCTTACACTAGCTT-CGTCTCGAGGCCGATAC
* * * * *
39054758 ATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATGCCAATGCC
1 ATGTCCCAGACATGTCTTACACTAGC-TTCGTCTCGAGGCCGAT-AC
* * * * * * *
39054805 ATGTTCCAAACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATGC
1 ATGTCCCAGACAT-GTCTTACACTAGCT-TCGT-CTCGAGGCCGATAC
39054852 ATGTCCCAGACATGTCTTACACTAGCT
1 ATGTCCCAGACATGTCTTACACTAGCT
39054879 CACACAAGTG
Statistics
Matches: 96, Mismatches: 20, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
46 50 0.52
47 25 0.26
48 20 0.21
49 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (45 bp):
ATGTCCCAGACATGTCTTACACTAGCTTCGTCTCGAGGCCGATAC
Found at i:39059162 original size:20 final size:20
Alignment explanation
Indices: 39059133--39059178 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
39059123 AGCACATGTA
* *
39059133 TTCATAAAATTTCAAAATTT
1 TTCATTAAATTTCAAAACTT
* *
39059153 TTCATTAAATTTTACAACTT
1 TTCATTAAATTTCAAAACTT
39059173 TTCATT
1 TTCATT
39059179 TTAGTCCCTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (20 bp):
TTCATTAAATTTCAAAACTT
Found at i:39069056 original size:23 final size:22
Alignment explanation
Indices: 39069004--39069056 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
39068994 TCCACGTCTT
*
39069004 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
39069026 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
39069049 TTTCTTTT
1 TTTCTTTT
39069057 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:39090390 original size:49 final size:49
Alignment explanation
Indices: 39090287--39090468 Score: 163
Period size: 49 Copynumber: 3.7 Consensus size: 49
39090277 TGTTGTGTGT
* *
39090287 CAGTGTAAGACCTGTCTGGGACATGGCATCGACATTGATAGATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATAGATGAAAGC
* * * * *
39090336 CAGTGTAAGACTTGTTTGGGACATGGCATCAGTC-TCGATATATGAAAGT
1 CAGTGTAAGACCTGTCTGGGACATGGCATC-GACATCGATAGATGAAAGC
* * * * ** **
39090385 TAGTGTAAAACCTGTCTAGGACATGGCATCGACTTTAAT-G-TGCTAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATAGATGAAAGC
* * *
39090432 CAGTGTAAGACCATGTCTAGGACATGGCGTCAACATC
1 CAGTGTAAGACC-TGTCTGGGACATGGCATCGACATC
39090469 TTATCCCATG
Statistics
Matches: 105, Mismatches: 25, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
47 14 0.13
48 22 0.21
49 67 0.64
50 2 0.02
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATAGATGAAAGC
Found at i:39090404 original size:142 final size:136
Alignment explanation
Indices: 39090151--39090410 Score: 324
Period size: 142 Copynumber: 1.9 Consensus size: 136
39090141 TATGTGCGCT
*
39090151 AGTGTAAGACATTATGAGACATGCATCGACATTGAGACGAGAGCTAATGTAAGACATGTATGGGA
1 AGTGTAAGACATTATGAGACATGCATCGACATTGAGACGAGAGCCAATGTAAGACATGTATGGGA
* * *
39090216 CATGCATCAGCCTCAGGATATACAAGCTAGTGTAAGACTTGTCTAGGACATGGTGTCAGTTTGTT
66 CATGCATCAGCCTCA-GATATAAAAGCTAGTGTAAAACCTGTCTAGGACATGGTGTCAGTTTGTT
39090281 GTGTGTC
130 GTGTGTC
* * * * * * *
39090288 AGTGTAAGACCTGTCTGGGACATGGCATCGACATTGATAGATGAGAGCCAGTGTAAGACTTGTTT
1 AGTGTAAGACAT-TATGAGACAT-GCATCGACATTG--AGACGAGAGCCAATGTAAGACATGTAT
* *
39090353 GGGACATGGCATCAGTCTC-GATATATGAAAGTTAGTGTAAAACCTGTCTAGGACATGG
62 GGGACAT-GCATCAGCCTCAGATATA--AAAGCTAGTGTAAAACCTGTCTAGGACATGG
39090411 CATCGACTTT
Statistics
Matches: 103, Mismatches: 13, Indels: 9
0.82 0.10 0.07
Matches are distributed among these distances:
137 11 0.11
138 8 0.08
139 12 0.12
140 6 0.06
141 29 0.28
142 37 0.36
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (136 bp):
AGTGTAAGACATTATGAGACATGCATCGACATTGAGACGAGAGCCAATGTAAGACATGTATGGGA
CATGCATCAGCCTCAGATATAAAAGCTAGTGTAAAACCTGTCTAGGACATGGTGTCAGTTTGTTG
TGTGTC
Found at i:39094631 original size:42 final size:42
Alignment explanation
Indices: 39094585--39094673 Score: 99
Period size: 42 Copynumber: 2.1 Consensus size: 42
39094575 TATCTGACAT
* * *
39094585 ATGGCCTCGGTATG-TGATTGCGTATAAGACCATGTCGGGGAC
1 ATGGCCTCGATATGAT-ATTGCATATAAGACCATATCGGGGAC
* * * *
39094627 ATGGCGTCGATATGATATTTCATGTAAGACCATATCGGGGAT
1 ATGGCCTCGATATGATATTGCATATAAGACCATATCGGGGAC
39094669 ATGGC
1 ATGGC
39094674 GTTGAAACAA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
42 38 0.97
43 1 0.03
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (42 bp):
ATGGCCTCGATATGATATTGCATATAAGACCATATCGGGGAC
Found at i:39107978 original size:49 final size:49
Alignment explanation
Indices: 39107914--39108041 Score: 161
Period size: 49 Copynumber: 2.6 Consensus size: 49
39107904 GTTGTGTGTT
*
39107914 AGTGTAAGACCTGTCTGAGACATGGCATCGACACT-GATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGAGACATGGCATCGAC-CTCGATAGATGAAAGCC
* * * * *
39107963 AGTGTAAGACTTGTCTGGGACATGGCATCAACCTCGATATATGAAAGTC
1 AGTGTAAGACCTGTCTGAGACATGGCATCGACCTCGATAGATGAAAGCC
*
39108012 AGTGTAAGACCTGTCT-AGGACATAGCATCG
1 AGTGTAAGACCTGTCTGA-GACATGGCATCG
39108042 GCTTTAATGT
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
48 2 0.03
49 65 0.97
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGAGACATGGCATCGACCTCGATAGATGAAAGCC
Found at i:39120925 original size:43 final size:41
Alignment explanation
Indices: 39120839--39120943 Score: 111
Period size: 43 Copynumber: 2.5 Consensus size: 41
39120829 GTTTACGTGC
* * ** *
39120839 AAGACTATAGCTGGGATATGGCATCGATATGAGATTTCGTGT
1 AAGACCATAGCT-GGATATGGCATCGATATAAGATCCCATGT
*
39120881 AAGACCATAGCTGGACTATTGGCATCGATTTAAGATCCCATGT
1 AAGACCATAGCTGGA-TA-TGGCATCGATATAAGATCCCATGT
*
39120924 AAGACCATATCTGGGATATG
1 AAGACCATAGCT-GGATATG
39120944 ACATTGGTAT
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
41 3 0.06
42 15 0.28
43 32 0.60
44 3 0.06
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (41 bp):
AAGACCATAGCTGGATATGGCATCGATATAAGATCCCATGT
Found at i:39134272 original size:18 final size:17
Alignment explanation
Indices: 39134249--39134282 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
39134239 TTGAAAATCA
39134249 GGCCAAATTGTCAAAGTG
1 GGCCAAATTGT-AAAGTG
*
39134267 GGCCAAGTTGTAAAGT
1 GGCCAAATTGTAAAGT
39134283 TTTATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.24
Consensus pattern (17 bp):
GGCCAAATTGTAAAGTG
Found at i:39138064 original size:18 final size:17
Alignment explanation
Indices: 39138041--39138074 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
39138031 TTGAAAATCA
39138041 GGCCAAATTGTCAAAGTG
1 GGCCAAATTGT-AAAGTG
*
39138059 GGCCAAGTTGTAAAGT
1 GGCCAAATTGTAAAGT
39138075 TTTATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.24
Consensus pattern (17 bp):
GGCCAAATTGTAAAGTG
Found at i:39139135 original size:30 final size:30
Alignment explanation
Indices: 39139101--39139161 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
39139091 TCCTTAACTC
39139101 AAACTTTTACAAAATTAAAATTTTGCCCCT
1 AAACTTTTACAAAATTAAAATTTTGCCCCT
* * * * *
39139131 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTACAAAATTAAAATTTTGCCCCT
39139161 A
1 A
39139162 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.39
Consensus pattern (30 bp):
AAACTTTTACAAAATTAAAATTTTGCCCCT
Found at i:39140036 original size:5 final size:5
Alignment explanation
Indices: 39140010--39140097 Score: 58
Period size: 5 Copynumber: 16.8 Consensus size: 5
39140000 AATCCTCCTT
*
39140010 TTTTA -TTTA TTCTTA TTTTTA TTTTA -TTTA TTTTA TTTTAA TTTTTC
1 TTTTA TTTTA TT-TTA -TTTTA TTTTA TTTTA TTTTA TTTT-A -TTTTA
*
39140057 TTTTGA TTTTTA TTTTCA TTTCAA TTTTA --TTA TTTTA TTTT
1 TTTT-A -TTTTA TTTT-A TTT-TA TTTTA TTTTA TTTTA TTTT
39140098 GAAAGACATA
Statistics
Matches: 67, Mismatches: 4, Indels: 24
0.71 0.04 0.25
Matches are distributed among these distances:
3 3 0.04
4 8 0.12
5 30 0.45
6 16 0.24
7 10 0.15
ACGTcount: A:0.19, C:0.05, G:0.01, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:39140036 original size:21 final size:20
Alignment explanation
Indices: 39140010--39140054 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
39140000 AATCCTCCTT
*
39140010 TTTTATTTATTCTTATTTTTA
1 TTTTATTTATT-TTATTTTAA
39140031 TTTTATTTATTTTATTTTAA
1 TTTTATTTATTTTATTTTAA
39140051 TTTT
1 TTTT
39140055 TCTTTTGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTTATTTATTTTATTTTAA
Done.