Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 121 of 185
Found at i:37901894 original size:23 final size:23
Alignment explanation
Indices: 37901868--37901985 Score: 112
Period size: 23 Copynumber: 5.1 Consensus size: 23
37901858 ATAAGTGCCA
*
37901868 CACTGATATATAG-CTGAAGCTAC
1 CACTGATATGTAGTC-GAAGCTAC
* * * *
37901891 CACTGATACGTAGCCGTAGCTAT
1 CACTGATATGTAGTCGAAGCTAC
* *
37901914 CACTGAAATGTAGTCGAAGTTAC
1 CACTGATATGTAGTCGAAGCTAC
*
37901937 CACTGATATGTAGTCGTAGCTAC
1 CACTGATATGTAGTCGAAGCTAC
* * * *
37901960 CACTAAAATGTAGCCAAAGCTAC
1 CACTGATATGTAGTCGAAGCTAC
37901983 CAC
1 CAC
37901986 AGATCAATAA
Statistics
Matches: 76, Mismatches: 18, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
23 75 0.99
24 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.25
Consensus pattern (23 bp):
CACTGATATGTAGTCGAAGCTAC
Found at i:37901918 original size:46 final size:46
Alignment explanation
Indices: 37901868--37901985 Score: 130
Period size: 46 Copynumber: 2.6 Consensus size: 46
37901858 ATAAGTGCCA
* *
37901868 CACTGATATATAG-CTGAAGCTACCACTGATACGTAGCCGTAGCTAT
1 CACTGAAATATAGTC-GAAGCTACCACTGATACGTAGCCGTAGCTAC
* * * *
37901914 CACTGAAATGTAGTCGAAGTTACCACTGATATGTAGTCGTAGCTAC
1 CACTGAAATATAGTCGAAGCTACCACTGATACGTAGCCGTAGCTAC
* * * *
37901960 CACTAAAATGTAGCCAAAGCTACCAC
1 CACTGAAATATAGTCGAAGCTACCAC
37901986 AGATCAATAA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
46 60 0.98
47 1 0.02
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.25
Consensus pattern (46 bp):
CACTGAAATATAGTCGAAGCTACCACTGATACGTAGCCGTAGCTAC
Found at i:37908743 original size:51 final size:50
Alignment explanation
Indices: 37908685--37908871 Score: 225
Period size: 51 Copynumber: 3.7 Consensus size: 50
37908675 TCAGTTCACA
* **
37908685 TAGTAGCCTGCACATAGTACTACACATGTGACCATTACCA-TCTAATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATTC-GGTACACG
* * * * *
37908736 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAACTATTCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCATTCGGTACACG
* * *
37908787 TAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTTCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATACCA-TTCGGTACACG
37908837 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
37908872 CACTTTCACT
Statistics
Matches: 114, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
49 2 0.02
50 41 0.36
51 67 0.59
52 4 0.04
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATACCATTCGGTACACG
Found at i:37908860 original size:101 final size:101
Alignment explanation
Indices: 37908683--37908867 Score: 300
Period size: 101 Copynumber: 1.8 Consensus size: 101
37908673 GTTCAGTTCA
*
37908683 CATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCTAATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCA-TACCATCTAATACACGTAGTAGCCTGCA
37908748 CATAGTACTACACACGTGATCGAAACTATTCGGTACG
65 CATAGTACTACACACGTGATCGAAACTATTCGGTACG
* * **
37908785 CATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTTCGGTACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATCT-AATACACGTAGTAGCCTGCA
37908849 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
37908868 CCATCACTTT
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
100 6 0.08
101 37 0.48
102 34 0.44
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.24
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATCTAATACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAACTATTCGGTACG
Found at i:37910420 original size:32 final size:32
Alignment explanation
Indices: 37910384--37910444 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
37910374 AGAAAATTAA
37910384 AAAATTTCTAAAATTTTAACACGATTGAAGCT
1 AAAATTTCTAAAATTTTAACACGATTGAAGCT
37910416 AAAATTTCTAAAATTTTAACACGATTGAA
1 AAAATTTCTAAAATTTTAACACGATTGAA
37910445 AATTAAAGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.46, C:0.11, G:0.08, T:0.34
Consensus pattern (32 bp):
AAAATTTCTAAAATTTTAACACGATTGAAGCT
Found at i:37911013 original size:41 final size:41
Alignment explanation
Indices: 37910951--37911046 Score: 156
Period size: 41 Copynumber: 2.3 Consensus size: 41
37910941 ATTCGCGGCA
* * *
37910951 TTTATGGGAAAAACGTTGCTATTGCTTTACCTTTTGTGGCG
1 TTTATGGGAAAAACATCGCTATTGCTTTACCTTTTGTGACG
*
37910992 TTTATAGGAAAAACATCGCTATTGCTTTACCTTTTGTGACG
1 TTTATGGGAAAAACATCGCTATTGCTTTACCTTTTGTGACG
37911033 TTTATGGGAAAAAC
1 TTTATGGGAAAAAC
37911047 GCCACTAATG
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.39
Consensus pattern (41 bp):
TTTATGGGAAAAACATCGCTATTGCTTTACCTTTTGTGACG
Found at i:37911798 original size:84 final size:84
Alignment explanation
Indices: 37911667--37911837 Score: 342
Period size: 84 Copynumber: 2.0 Consensus size: 84
37911657 TATATGAAAA
37911667 ATTTGTTTTAAAGGATTTTTTTGTTCATTTTGATAGGAGGTGGAAGAAGCAGCAGCTACATATAC
1 ATTTGTTTTAAAGGATTTTTTTGTTCATTTTGATAGGAGGTGGAAGAAGCAGCAGCTACATATAC
37911732 TCCAGGTACTTTATATGAG
66 TCCAGGTACTTTATATGAG
37911751 ATTTGTTTTAAAGGATTTTTTTGTTCATTTTGATAGGAGGTGGAAGAAGCAGCAGCTACATATAC
1 ATTTGTTTTAAAGGATTTTTTTGTTCATTTTGATAGGAGGTGGAAGAAGCAGCAGCTACATATAC
37911816 TCCAGGTACTTTATATGAG
66 TCCAGGTACTTTATATGAG
37911835 ATT
1 ATT
37911838 AATTTAAATA
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 87 1.00
ACGTcount: A:0.29, C:0.11, G:0.22, T:0.39
Consensus pattern (84 bp):
ATTTGTTTTAAAGGATTTTTTTGTTCATTTTGATAGGAGGTGGAAGAAGCAGCAGCTACATATAC
TCCAGGTACTTTATATGAG
Found at i:37912607 original size:12 final size:13
Alignment explanation
Indices: 37912584--37912609 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37912574 CGGGGGTTTT
37912584 AAGATAAAAAAAA
1 AAGATAAAAAAAA
37912597 AAGATAAAAAAAA
1 AAGATAAAAAAAA
37912610 CTTAATAGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.08, T:0.08
Consensus pattern (13 bp):
AAGATAAAAAAAA
Found at i:37913702 original size:116 final size:116
Alignment explanation
Indices: 37913498--37913732 Score: 461
Period size: 116 Copynumber: 2.0 Consensus size: 116
37913488 CTAGTTTGCC
37913498 TTGGATTACTAGGAACCTATACAAAATAAAGTAAAATAGTAGATTGAATCACTAATCTACTCATT
1 TTGGATTACTAGGAACCTATACAAAATAAAGTAAAATAGTAGATTGAATCACTAATCTACTCATT
37913563 AAGATGCTTGCTAAAAGGAGGATAAATAAATACCATGGGCAACGATGATGG
66 AAGATGCTTGCTAAAAGGAGGATAAATAAATACCATGGGCAACGATGATGG
*
37913614 TTGGATTACTAGGAACCTATACAAAATGAAGTAAAATAGTAGATTGAATCACTAATCTACTCATT
1 TTGGATTACTAGGAACCTATACAAAATAAAGTAAAATAGTAGATTGAATCACTAATCTACTCATT
37913679 AAGATGCTTGCTAAAAGGAGGATAAATAAATACCATGGGCAACGATGATGG
66 AAGATGCTTGCTAAAAGGAGGATAAATAAATACCATGGGCAACGATGATGG
37913730 TTG
1 TTG
37913733 AAAGGCTGGT
Statistics
Matches: 118, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
116 118 1.00
ACGTcount: A:0.41, C:0.13, G:0.20, T:0.26
Consensus pattern (116 bp):
TTGGATTACTAGGAACCTATACAAAATAAAGTAAAATAGTAGATTGAATCACTAATCTACTCATT
AAGATGCTTGCTAAAAGGAGGATAAATAAATACCATGGGCAACGATGATGG
Found at i:37914895 original size:47 final size:47
Alignment explanation
Indices: 37914828--37914921 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
37914818 CCGATCACTC
37914828 TTTTTCATAAATTTCCCAACATATCTGAGCCAAAGAAGAACAAAATT
1 TTTTTCATAAATTTCCCAACATATCTGAGCCAAAGAAGAACAAAATT
*
37914875 TTTTTCATAAATTTCCCAACATATCTGAGCCAAAGAAGAATAAAATT
1 TTTTTCATAAATTTCCCAACATATCTGAGCCAAAGAAGAACAAAATT
37914922 ATAATTTTGA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.43, C:0.18, G:0.09, T:0.31
Consensus pattern (47 bp):
TTTTTCATAAATTTCCCAACATATCTGAGCCAAAGAAGAACAAAATT
Found at i:37916743 original size:7 final size:7
Alignment explanation
Indices: 37916733--37916761 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
37916723 TAAAAGACTG
37916733 CTTCAAA
1 CTTCAAA
37916740 CTTCAAA
1 CTTCAAA
37916747 CTTCAAA
1 CTTCAAA
37916754 CTTCAAA
1 CTTCAAA
37916761 C
1 C
37916762 AAACTACTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.41, C:0.31, G:0.00, T:0.28
Consensus pattern (7 bp):
CTTCAAA
Found at i:37916890 original size:14 final size:14
Alignment explanation
Indices: 37916845--37916893 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
37916835 TAGTTGTTCT
37916845 ATTTTATCTATTTTA
1 ATTTT-TCTATTTTA
* * *
37916860 TATTTTTGTAATATA
1 -ATTTTTCTATTTTA
37916875 ATTTTTCTATTTTA
1 ATTTTTCTATTTTA
37916889 ATTTT
1 ATTTT
37916894 ATTTTTTTAT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
14 16 0.59
15 6 0.22
16 5 0.19
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (14 bp):
ATTTTTCTATTTTA
Found at i:37918194 original size:5 final size:5
Alignment explanation
Indices: 37918184--37918229 Score: 92
Period size: 5 Copynumber: 9.2 Consensus size: 5
37918174 TGCATTTTAA
37918184 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT A
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT A
37918230 TTTATATTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 41 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
AATAT
Found at i:37922778 original size:24 final size:24
Alignment explanation
Indices: 37922751--37922806 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
37922741 AATTTAATAA
*
37922751 AATAAAAATTGTTTTTA-ATATTTT
1 AATAAAAATTATTTTTATAT-TTTT
*
37922775 AATAGTAAATTATTTTTATATTTTT
1 AATA-AAAATTATTTTTATATTTTT
37922800 AATAAAA
1 AATAAAA
37922807 TAGAAGTTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 6 0.22
25 19 0.70
26 2 0.07
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.52
Consensus pattern (24 bp):
AATAAAAATTATTTTTATATTTTT
Found at i:37922790 original size:25 final size:25
Alignment explanation
Indices: 37922756--37922803 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
37922746 AATAAAATAA
*
37922756 AAATTGTTTTTA-ATATTTTAATAGT
1 AAATTATTTTTATAT-TTTTAATAGT
37922781 AAATTATTTTTATATTTTTAATA
1 AAATTATTTTTATATTTTTAATA
37922804 AAATAGAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 19 0.90
26 2 0.10
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (25 bp):
AAATTATTTTTATATTTTTAATAGT
Found at i:37924849 original size:5 final size:5
Alignment explanation
Indices: 37924830--37924867 Score: 60
Period size: 5 Copynumber: 7.6 Consensus size: 5
37924820 TAAAATAAGG
37924830 AAATA CAAA-A AAATA AAATA AAATA AAATA AAATA AAA
1 AAATA -AAATA AAATA AAATA AAATA AAATA AAATA AAA
37924868 ATATATTCGA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
4 3 0.10
5 25 0.81
6 3 0.10
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.16
Consensus pattern (5 bp):
AAATA
Found at i:37925782 original size:13 final size:13
Alignment explanation
Indices: 37925764--37925806 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
37925754 TAGATTTTTC
37925764 CTAAATATTATCA
1 CTAAATATTATCA
*
37925777 CT-AA-ATGATC-
1 CTAAATATTATCA
37925787 CTAAATATTATCA
1 CTAAATATTATCA
37925800 CTAAATA
1 CTAAATA
37925807 ATTGTAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 2 0.08
11 7 0.28
12 7 0.28
13 9 0.36
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:37925832 original size:23 final size:23
Alignment explanation
Indices: 37925764--37925838 Score: 105
Period size: 23 Copynumber: 3.3 Consensus size: 23
37925754 TAGATTTTTC
* *
37925764 CTAAATATTATCACTAAATGATC
1 CTAAATATTATCACTAAATAATT
37925787 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
* *
37925810 GTAAATATTATCATTAAATAATT
1 CTAAATATTATCACTAAATAATT
*
37925833 CAAAAT
1 CTAAAT
37925839 TTAAAAATCA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.48, C:0.12, G:0.03, T:0.37
Consensus pattern (23 bp):
CTAAATATTATCACTAAATAATT
Found at i:37925860 original size:18 final size:18
Alignment explanation
Indices: 37925839--37925874 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
37925829 AATTCAAAAT
37925839 TTAAAAATCAAATTTAAA
1 TTAAAAATCAAATTTAAA
* *
37925857 TTAAAGATTAAATTTAAA
1 TTAAAAATCAAATTTAAA
37925875 CTAATTAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (18 bp):
TTAAAAATCAAATTTAAA
Found at i:37926436 original size:6 final size:6
Alignment explanation
Indices: 37926427--37926462 Score: 56
Period size: 6 Copynumber: 6.0 Consensus size: 6
37926417 ATCTATATAC
37926427 ATTTTT ATTTTT -TGTTTT ATTTTT ATTTTT ATTTTT
1 ATTTTT ATTTTT AT-TTTT ATTTTT ATTTTT ATTTTT
37926463 TTCAAACGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 1 0.04
6 26 0.93
7 1 0.04
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.83
Consensus pattern (6 bp):
ATTTTT
Found at i:37930910 original size:24 final size:24
Alignment explanation
Indices: 37930874--37930919 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
37930864 GGTGAAACAA
* * *
37930874 ATTATGCTTATAAATGCTAAATAT
1 ATTATACTAATAAATACTAAATAT
37930898 ATTATACTAATAAATACTAAAT
1 ATTATACTAATAAATACTAAAT
37930920 CTTCTAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.48, C:0.09, G:0.04, T:0.39
Consensus pattern (24 bp):
ATTATACTAATAAATACTAAATAT
Found at i:37931207 original size:32 final size:32
Alignment explanation
Indices: 37931171--37931233 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
37931161 AGAGATTTAG
*
37931171 TACAAATCCTTGAAGAAATTAAGATTGATTAA
1 TACAAACCCTTGAAGAAATTAAGATTGATTAA
* *
37931203 TACAAACCCTTGAATAAATTAGGATTGATTA
1 TACAAACCCTTGAAGAAATTAAGATTGATTA
37931234 GAAATTTAGC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.32
Consensus pattern (32 bp):
TACAAACCCTTGAAGAAATTAAGATTGATTAA
Found at i:37932946 original size:45 final size:45
Alignment explanation
Indices: 37932891--37933062 Score: 179
Period size: 45 Copynumber: 3.8 Consensus size: 45
37932881 TAAAGCTATC
* * * * *
37932891 ACCCACCAAACACAACCA-ATCATAGCCTCCAAACACAACCAATTT
1 ACCCTCCAAACACAACCATAT-ATAACCTTCGAACACAACCAATAT
* *
37932936 ACCCTCCAAACACAACCATATGTATCCTTCGAACACAACCAAATAT
1 ACCCTCCAAACACAACCATATATAACCTTCGAACACAACC-AATAT
*
37932982 ACCTTCCAAACACAACCATATATATAACCTTCGAACACAACCAAGTAT
1 ACCCTCCAAACACAACC--ATATATAACCTTCGAACACAACCAA-TAT
* * *
37933030 ACCTTCCAACCACAACCA-ATATACCCTTC-AACA
1 ACCCTCCAAACACAACCATATATAACCTTCGAACA
37933063 TATCCACTTA
Statistics
Matches: 111, Mismatches: 11, Indels: 11
0.83 0.08 0.08
Matches are distributed among these distances:
44 4 0.04
45 42 0.38
46 23 0.21
47 2 0.02
48 40 0.36
ACGTcount: A:0.42, C:0.37, G:0.03, T:0.18
Consensus pattern (45 bp):
ACCCTCCAAACACAACCATATATAACCTTCGAACACAACCAATAT
Found at i:37933025 original size:48 final size:46
Alignment explanation
Indices: 37932896--37933052 Score: 185
Period size: 48 Copynumber: 3.4 Consensus size: 46
37932886 CTATCACCCA
* * * * *
37932896 CCAAACACAACCAATCATA-GCCTCCAAACACAACC-AATTTACCCT
1 CCAAACACAACCAAT-ATATACCTTCGAACACAACCAAATATACCTT
*
37932941 CCAAACACAACC-ATATGTATCCTTCGAACACAACCAAATATACCTT
1 CCAAACACAACCAATATATA-CCTTCGAACACAACCAAATATACCTT
*
37932987 CCAAACACAACCATATATATAACCTTCGAACACAACCAAGTATACCTT
1 CCAAACACAACCA-ATATAT-ACCTTCGAACACAACCAAATATACCTT
*
37933035 CCAACCACAACCAATATA
1 CCAAACACAACCAATATA
37933053 CCCTTCAACA
Statistics
Matches: 97, Mismatches: 9, Indels: 10
0.84 0.08 0.09
Matches are distributed among these distances:
43 2 0.02
44 2 0.02
45 25 0.26
46 20 0.21
47 5 0.05
48 42 0.43
49 1 0.01
ACGTcount: A:0.43, C:0.35, G:0.03, T:0.18
Consensus pattern (46 bp):
CCAAACACAACCAATATATACCTTCGAACACAACCAAATATACCTT
Found at i:37933058 original size:23 final size:22
Alignment explanation
Indices: 37932896--37933054 Score: 153
Period size: 23 Copynumber: 6.9 Consensus size: 22
37932886 CTATCACCCA
37932896 CCAAACACAACCAATCATAGCC-T
1 CCAAACACAACCAAT-ATA-CCTT
* *
37932919 CCAAACACAACCAATTTACCCT
1 CCAAACACAACCAATATACCTT
*
37932941 CCAAACACAACCATATGTATCCTT
1 CCAAACACAACCA-ATATA-CCTT
*
37932965 -CGAACACAACCAAATATACCTT
1 CCAAACACAACC-AATATACCTT
37932987 CCAAACACAACCATATATATAACCTT
1 CCAAACACAACC--A-ATAT-ACCTT
*
37933013 -CGAACACAACCAAGTATACCTT
1 CCAAACACAACCAA-TATACCTT
*
37933035 CCAACCACAACCAATATACC
1 CCAAACACAACCAATATACC
37933055 CTTCAACATA
Statistics
Matches: 116, Mismatches: 10, Indels: 21
0.79 0.07 0.14
Matches are distributed among these distances:
21 2 0.02
22 32 0.28
23 58 0.50
24 5 0.04
25 14 0.12
26 5 0.04
ACGTcount: A:0.43, C:0.36, G:0.03, T:0.18
Consensus pattern (22 bp):
CCAAACACAACCAATATACCTT
Found at i:37941738 original size:8 final size:8
Alignment explanation
Indices: 37941725--37941777 Score: 61
Period size: 8 Copynumber: 6.1 Consensus size: 8
37941715 AATTTATTTT
37941725 AAAAATAA
1 AAAAATAA
37941733 AAAAATAAA
1 AAAAAT-AA
*
37941742 AAAAATATTTT
1 AAAAATA---A
37941753 AAAAATAA
1 AAAAATAA
37941761 AAAAATAA
1 AAAAATAA
37941769 AAAAATAA
1 AAAAATAA
37941777 A
1 A
37941778 TTTATTATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
8 24 0.62
9 8 0.21
11 7 0.18
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (8 bp):
AAAAATAA
Found at i:37941751 original size:28 final size:28
Alignment explanation
Indices: 37941719--37941773 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
37941709 ACCAAAAATT
37941719 TATTTTAAAAATAAAAAAATAAAAAAAA
1 TATTTTAAAAATAAAAAAATAAAAAAAA
37941747 TATTTTAAAAATAAAAAAATAAAAAAA
1 TATTTTAAAAATAAAAAAATAAAAAAA
37941774 TAAATTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (28 bp):
TATTTTAAAAATAAAAAAATAAAAAAAA
Found at i:37941781 original size:28 final size:28
Alignment explanation
Indices: 37941722--37941781 Score: 95
Period size: 28 Copynumber: 2.1 Consensus size: 28
37941712 AAAAATTTAT
*
37941722 TTTAAAAATAAAAAAATAAAAAAAATAT
1 TTTAAAAATAAAAAAATAAAAAAAATAA
37941750 TTTAAAAATAAAAAAAT-AAAAAAATAAA
1 TTTAAAAATAAAAAAATAAAAAAAAT-AA
37941778 TTTA
1 TTTA
37941782 TTATATATTC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 8 0.27
28 22 0.73
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (28 bp):
TTTAAAAATAAAAAAATAAAAAAAATAA
Found at i:37944974 original size:35 final size:36
Alignment explanation
Indices: 37944884--37944976 Score: 134
Period size: 36 Copynumber: 2.6 Consensus size: 36
37944874 CCAACAACAG
* *
37944884 GTATTATCCTAATATTGTATTTGCTATGTACAAGGT
1 GTATTATCCTAATATTGTATTTGCCATCTACAAGGT
* *
37944920 GTATTATCCTAATATTGTATTTGCCGTCTACAAGTT
1 GTATTATCCTAATATTGTATTTGCCATCTACAAGGT
*
37944956 GTATTGT-CTAATATTGTATTT
1 GTATTATCCTAATATTGTATTT
37944977 TTCTGCAGGT
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
35 14 0.27
36 38 0.73
ACGTcount: A:0.26, C:0.12, G:0.15, T:0.47
Consensus pattern (36 bp):
GTATTATCCTAATATTGTATTTGCCATCTACAAGGT
Found at i:37946378 original size:13 final size:13
Alignment explanation
Indices: 37946356--37946394 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
37946346 GGCTTGACTC
37946356 ATATTAAATATAT
1 ATATTAAATATAT
*
37946369 ATATTTAATATAT
1 ATATTAAATATAT
* *
37946382 ATAATATATATAT
1 ATATTAAATATAT
37946395 TTGATTAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
ATATTAAATATAT
Found at i:37946477 original size:103 final size:103
Alignment explanation
Indices: 37946298--37946485 Score: 340
Period size: 103 Copynumber: 1.8 Consensus size: 103
37946288 TATGGGCTTA
* * *
37946298 AAAAATTTTTCAAGCTTGGCATGAAAGAAAATTGTTAAGTTTGAGTTCGGCTTGACTCATATTAA
1 AAAAAGTTTTCAAGCTTGGCATGAAAGAAAATTGTTAAGTTCGAGTTCGGCCTGACTCATATTAA
37946363 ATATATATATTTAATATATATAATATATATATTTGATT
66 ATATATATATTTAATATATATAATATATATATTTGATT
*
37946401 AAAAAGTTTTCAAGCTTGGCATGAAAGAAAATTGTTAAGTTCGAGTTCGGCCTGATTCATATTAA
1 AAAAAGTTTTCAAGCTTGGCATGAAAGAAAATTGTTAAGTTCGAGTTCGGCCTGACTCATATTAA
37946466 ATATATATATTTAATATATA
66 ATATATATATTTAATATATA
37946486 ATTCGGGCTG
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 81 1.00
ACGTcount: A:0.39, C:0.08, G:0.14, T:0.39
Consensus pattern (103 bp):
AAAAAGTTTTCAAGCTTGGCATGAAAGAAAATTGTTAAGTTCGAGTTCGGCCTGACTCATATTAA
ATATATATATTTAATATATATAATATATATATTTGATT
Found at i:37948292 original size:20 final size:19
Alignment explanation
Indices: 37948253--37948293 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
37948243 ACCTAAAAAT
* *
37948253 AATATTAAAAATTATTTTA
1 AATATTAAAAAATATATTA
37948272 AATATTAAAAAATACTATTA
1 AATATTAAAAAATA-TATTA
37948292 AA
1 AA
37948294 AACCTATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (19 bp):
AATATTAAAAAATATATTA
Found at i:37950560 original size:20 final size:20
Alignment explanation
Indices: 37950535--37950575 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
37950525 GGTTGTTGAT
37950535 GATGCCTAGGCTTGTGTCAA
1 GATGCCTAGGCTTGTGTCAA
37950555 GATGCCTAGGCTTGTGTCAA
1 GATGCCTAGGCTTGTGTCAA
37950575 G
1 G
37950576 CTATGTTAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.20, C:0.20, G:0.32, T:0.29
Consensus pattern (20 bp):
GATGCCTAGGCTTGTGTCAA
Found at i:37962758 original size:20 final size:20
Alignment explanation
Indices: 37962733--37962832 Score: 68
Period size: 20 Copynumber: 5.0 Consensus size: 20
37962723 ATAAATGCGT
37962733 AACAGAGGCACTGAAGTGCA
1 AACAGAGGCACTGAAGTGCA
37962753 AACAGAGGCAC-GATTA-TGCA
1 AACAGAGGCACTGA--AGTGCA
* *
37962773 ACCAGAGGCACCT-TAGTTG-A
1 AACAGAGGCA-CTGAAG-TGCA
* *
37962793 ATA-A-AGACACTGAAGTGTA
1 A-ACAGAGGCACTGAAGTGCA
*
37962812 AACAGAGGCACCGAAGTGCA
1 AACAGAGGCACTGAAGTGCA
37962832 A
1 A
37962833 TCCCGTACAA
Statistics
Matches: 61, Mismatches: 8, Indels: 22
0.67 0.09 0.24
Matches are distributed among these distances:
18 5 0.08
19 12 0.20
20 40 0.66
21 4 0.07
ACGTcount: A:0.40, C:0.20, G:0.26, T:0.14
Consensus pattern (20 bp):
AACAGAGGCACTGAAGTGCA
Found at i:37965374 original size:18 final size:18
Alignment explanation
Indices: 37965351--37965400 Score: 82
Period size: 18 Copynumber: 2.8 Consensus size: 18
37965341 GTAGTGCTTA
37965351 AAAAATACTTTTGGCTCC
1 AAAAATACTTTTGGCTCC
37965369 AAAAATACTTTTGGCTCC
1 AAAAATACTTTTGGCTCC
**
37965387 AAAAGCACTTTTGG
1 AAAAATACTTTTGG
37965401 AAGAAAAACT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.32
Consensus pattern (18 bp):
AAAAATACTTTTGGCTCC
Found at i:37965743 original size:29 final size:30
Alignment explanation
Indices: 37965686--37965752 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
37965676 ATTGATAAAT
*
37965686 AATTAATATTTATTACTTAAAATATTTAA-
1 AATTTATATTTATTACTTAAAATATTTAAC
37965715 AATTTATATTTCATATA-TTAAAATA-TTAAC
1 AATTTATATTT-AT-TACTTAAAATATTTAAC
*
37965745 AAGTTATA
1 AATTTATA
37965753 ATAATTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
29 14 0.42
30 17 0.52
31 2 0.06
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.46
Consensus pattern (30 bp):
AATTTATATTTATTACTTAAAATATTTAAC
Found at i:37965805 original size:19 final size:20
Alignment explanation
Indices: 37965773--37965810 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
37965763 TTATATTCTT
37965773 ACTAAATTATAATAATATTA
1 ACTAAATTATAATAATATTA
* *
37965793 ACTAATTTA-AATATTATT
1 ACTAAATTATAATAATATT
37965811 TAAATATATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (20 bp):
ACTAAATTATAATAATATTA
Found at i:37966950 original size:27 final size:26
Alignment explanation
Indices: 37966920--37966984 Score: 67
Period size: 27 Copynumber: 2.5 Consensus size: 26
37966910 TAATTTACCC
*
37966920 TTTAAAAATATTTTCGAAAAACATTTT
1 TTTAAAAATATTTTCGAAAAACA-CTT
* * * **
37966947 TTTACAACTTTTTTTTAAAAACACTT
1 TTTAAAAATATTTTCGAAAAACACTT
37966973 TTTAAAAATATT
1 TTTAAAAATATT
37966985 CCCAAACTAG
Statistics
Matches: 29, Mismatches: 9, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
26 11 0.38
27 18 0.62
ACGTcount: A:0.42, C:0.09, G:0.02, T:0.48
Consensus pattern (26 bp):
TTTAAAAATATTTTCGAAAAACACTT
Found at i:37970189 original size:7 final size:7
Alignment explanation
Indices: 37970179--37970209 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
37970169 CTTTTAACTT
37970179 TTATATA
1 TTATATA
37970186 TTATATA
1 TTATATA
37970193 TTATATA
1 TTATATA
37970200 TATATATA
1 T-TATATA
37970208 TT
1 TT
37970210 TTTATAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 16 0.70
8 7 0.30
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
TTATATA
Found at i:37970215 original size:16 final size:16
Alignment explanation
Indices: 37970177--37970215 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
37970167 CTCTTTTAAC
37970177 TTTTATATATTATATA
1 TTTTATATATTATATA
*
37970193 TTATATATA-TATATA
1 TTTTATATATTATATA
37970208 TTTT-TATA
1 TTTTATATA
37970216 AACATGTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 4 0.19
15 9 0.43
16 8 0.38
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTTTATATATTATATA
Found at i:37974375 original size:27 final size:27
Alignment explanation
Indices: 37974345--37974522 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
37974335 ATATTGAGTC
* * * *
37974345 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
37974372 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
37974399 CGCACACTTAGTGCTACATGGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
37974427 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
37974454 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
37974481 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
37974508 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
37974523 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.81
28 25 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:37974484 original size:82 final size:81
Alignment explanation
Indices: 37974366--37974521 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
37974356 TGCTATATAA
* * *
37974366 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATGGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
37974431 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
37974448 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
37974512 CACTTAGTGC
65 CACTTAGTGC
37974522 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:37978483 original size:89 final size:88
Alignment explanation
Indices: 37978374--37978915 Score: 649
Period size: 89 Copynumber: 6.1 Consensus size: 88
37978364 TATCAGTAGC
* * * * * **
37978374 GAAGTAGATCGAATATACAGATCTTATCTTTCCATACTGGTGGTGAAGTAGATCGGAA-AAAGTA
1 GAAGTAGATCAAAGATACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATC-GAAGAAAACA
37978438 GATCTTGTCTTCATGTACTGGCGT
65 GATCTTGTCTTCATGTACTGGCGT
* * *
37978462 GAAGTAGATCAAGGATGACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAACA
1 GAAGTAGATCAAAGAT-ACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACA
*
37978527 GATATTGTCTTCATGTACTGGCGT
65 GATCTTGTCTTCATGTACTGGCGT
**
37978551 GAAGTAGATCAAAGATACCAGATCTTGTCTTCCCATACTGGTGGCGAAGCGGATCGAAGAAAACA
1 GAAGTAGATCAAAGATA-CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACA
*
37978616 GATCTTGTCTTCATGTATTGGCGT
65 GATCTTGTCTTCATGTACTGGCGT
* ** *
37978640 GAAGCAGATCAAAGATAGTGGATCTTGTCTTCCCATACTGGTGGCGAAATAGATCGAAGAAAACA
1 GAAGTAGATCAAAGATA-CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACA
37978705 GATCTTGTCTTCATGTACTGGCGT
65 GATCTTGTCTTCATGTACTGGCGT
* * * * * * * *
37978729 GAAGTAGATCAAAGAAACATATTTTGTCTCCCCATACTGGTGGTGGAGTAGATCGAAGAAAATAA
1 GAAGTAGATCAAAGATACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAG
*
37978794 ATCTTATCTTCATGTACTGGCGT
66 ATCTTGTCTTCATGTACTGGCGT
* * * * * * *
37978817 GAAGTAGATCAAAGATAGCAGGTCCTGTCTTCCTATA-TCGGTAGCGAAGTGGATCGAA-TATAC
1 GAAGTAGATCAAAGATA-CAGATCTTGTCTTCCCATACT-GGTGGCGAAGTAGATCGAAGAAAAC
* *** *
37978880 AGATCTTATCTTCCCATACTGGTGGT
64 AGATCTTGTCTTCATGTACTGG-CGT
37978906 GAAGTAGATC
1 GAAGTAGATC
37978916 GGAAAAAGTA
Statistics
Matches: 392, Mismatches: 56, Indels: 11
0.85 0.12 0.02
Matches are distributed among these distances:
88 114 0.29
89 278 0.71
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (88 bp):
GAAGTAGATCAAAGATACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAG
ATCTTGTCTTCATGTACTGGCGT
Found at i:37978644 original size:133 final size:133
Alignment explanation
Indices: 37978462--37979231 Score: 504
Period size: 133 Copynumber: 5.8 Consensus size: 133
37978452 GTACTGGCGT
** * * * * *
37978462 GAAGTAGATC-AAGGATGACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAAC
1 GAAGTAGATCGAA-GAAAACAGATCTTGTCTTCACATACTGGTGGTGAAGTAGATCGAAGAAAAT
* * *
37978526 AGATATTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCATACTG
65 AAATCTTGTCTTCATGTACTGGCGTGAAATAGATCAAAGATA-CAGATCTTGTCTTCCCATACTG
37978591 GTGGC
129 GTGGC
** ** * * * * * * *
37978596 GAAGCGGATCGAAGAAAACAGATCTTGTCTTCATGTATTGG-CGTGAAGCAGATCAAAGATAGTG
1 GAAGTAGATCGAAGAAAACAGATCTTGTCTTCACATACTGGTGGTGAAGTAGATCGAAGAAAATA
* *** * * * * ***
37978660 GATCTTGTCTTCCCATACTGGTGGCGAAATAGATCGAAGAAAACAGATCTTGTCTTCATGTACTG
66 AATCTTGTCTTCATGTACTGG-CGTGAAATAGATCAAAG-ATACAGATCTTGTCTTCCCATACTG
* *
37978725 G-CGT
129 GTGGC
* * * * * *
37978729 GAAGTAGATCAAAG-AAACATATTTTGTCTCCCCATACTGGTGGTGGAGTAGATCGAAGAAAATA
1 GAAGTAGATCGAAGAAAACAGATCTTGTCTTCACATACTGGTGGTGAAGTAGATCGAAGAAAATA
* * * * *
37978793 AATCTTATCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGCAGGTCCTGTCTTCCTATA-TCG
66 AATCTTGTCTTCATGTACTGGCGTGAAATAGATCAAAGATA-CAGATCTTGTCTTCCCATACT-G
*
37978857 GTAGC
129 GTGGC
* * * * * *
37978862 GAAGTGGATCGAA-TATACAGATCTTATCTTCCCATACTGGTGGTGAAGTAGATCGGAA-AAAGT
1 GAAGTAGATCGAAGAAAACAGATCTTGTCTTCACATACTGGTGGTGAAGTAGATC-GAAGAAAAT
* * *
37978925 AAATCTTGTCTTCATGTACTGGCGTGAAATAGATCAAGGATGACAGATCTTGCCTCCCCATACTG
65 AAATCTTGTCTTCATGTACTGGCGTGAAATAGATCAAAGAT-ACAGATCTTGTCTTCCCATACTG
*
37978990 GTGGT
129 GTGGC
* * * ** * ** *
37978995 GGAGTAGATTGAAGAAAAACAAATCTTGTCTTCATGTACTGGT-GTGAAGTAGATCAAAGGTAAC
1 GAAGTAGATCGAAG-AAAACAGATCTTGTCTTCACATACTGGTGGTGAAGTAGATCGAAGAAAAT
* * * * * ***
37979059 ATATATTGTCTCCTCA--TACTGGTG-GCAAAGCAGATCAAAGGAAACAGATCTTGTCTTCATGT
65 AAATCTTGTCT--TCATGTACTGGCGTG-AAA-TAGATCAAA-GATACAGATCTTGTCTTCCCAT
* *
37979121 ACTGG-CGT
125 ACTGGTGGC
* ** * * * * * * * * *
37979129 GAAGTAGATCAAAGGTAATAGATCTTGCCTCCCCATATTGGTGGTGGAGCAGATTGAAGAAAAGC
1 GAAGTAGATCGAAGAAAACAGATCTTGTCTTCACATACTGGTGGTGAAGTAGATCGAAGAAAA-T
* *
37979194 AAATCTTGTCTTTATGTA-TCGGCGTGAAGTAGATCAAA
65 AAATCTTGTCTTCATGTACT-GGCGTGAAATAGATCAAA
37979232 TACAACAAAT
Statistics
Matches: 477, Mismatches: 134, Indels: 50
0.72 0.20 0.08
Matches are distributed among these distances:
131 3 0.01
132 49 0.10
133 216 0.45
134 135 0.28
135 68 0.14
136 6 0.01
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (133 bp):
GAAGTAGATCGAAGAAAACAGATCTTGTCTTCACATACTGGTGGTGAAGTAGATCGAAGAAAATA
AATCTTGTCTTCATGTACTGGCGTGAAATAGATCAAAGATACAGATCTTGTCTTCCCATACTGGT
GGC
Found at i:37978971 original size:89 final size:89
Alignment explanation
Indices: 37978878--37979262 Score: 388
Period size: 90 Copynumber: 4.3 Consensus size: 89
37978868 GATCGAATAT
** * * *
37978878 ACAGATCTTATCTTCCCATACTGGTGGTGAAGTAGATCGGAAAAAGTAAATCTTGTCTTCATGTA
1 ACAGATCTTGCCTCCCCATACTGGTGGTGAAGCAGATCGGAAAAAGCAAATCTTGTCTTCATGTA
* *
37978943 CTGGCGTGAAATAGATC-AAGGATG
66 CTGGCGTGAAGTAGATCAAAGG-TA
* * *
37978967 ACAGATCTTGCCTCCCCATACTGGTGGTGGAGTAGATTGAAGAAAAA-CAAATCTTGTCTTCATG
1 ACAGATCTTGCCTCCCCATACTGGTGGTGAAGCAGATCG--GAAAAAGCAAATCTTGTCTTCATG
*
37979031 TACTGGTGTGAAGTAGATCAAAGGTA
64 TACTGGCGTGAAGTAGATCAAAGGTA
* * * * ** * *
37979057 ACATATATTGTCTCCTCATACTGGTGGCAAAGCAGATC--AAAGGAAACAGATCTTGTCTTCATG
1 ACAGATCTTGCCTCCCCATACTGGTGGTGAAGCAGATCGGAAA--AAGCAAATCTTGTCTTCATG
37979120 TACTGGCGTGAAGTAGATCAAAGGTA
64 TACTGGCGTGAAGTAGATCAAAGGTA
* * * * * *
37979146 ATAGATCTTGCCTCCCCATATTGGTGGTGGAGCAGATTGAAGAAAAGCAAATCTTGTCTTTATGT
1 ACAGATCTTGCCTCCCCATACTGGTGGTGAAGCAGATCGGA-AAAAGCAAATCTTGTCTTCATGT
***
37979211 A-TCGGCGTGAAGTAGATCAAATACA
65 ACT-GGCGTGAAGTAGATCAAAGGTA
* *
37979236 ACAAATATT--CTCCCCATACTGGTGGTG
1 ACAGATCTTGCCTCCCCATACTGGTGGTG
37979263 GAATAGATTG
Statistics
Matches: 246, Mismatches: 40, Indels: 21
0.80 0.13 0.07
Matches are distributed among these distances:
86 3 0.01
88 19 0.08
89 104 0.42
90 107 0.43
91 11 0.04
92 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.28
Consensus pattern (89 bp):
ACAGATCTTGCCTCCCCATACTGGTGGTGAAGCAGATCGGAAAAAGCAAATCTTGTCTTCATGTA
CTGGCGTGAAGTAGATCAAAGGTA
Found at i:37978975 original size:44 final size:44
Alignment explanation
Indices: 37978437--37979155 Score: 374
Period size: 44 Copynumber: 16.2 Consensus size: 44
37978427 CGGAAAAAGT
*
37978437 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAGGATGAC
1 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAGGATAAC
* *** * * * *
37978481 AGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCGAA-GAAAAC
1 AGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATC-AAGGATAAC
* * *
37978526 AGATATTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACC
1 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAGGATAAC
*** * * ** *
37978570 AGATCTTGTCTTCCCATACTGGTGGCGAAGCGGATCGAA-GAAAAC
1 AGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATC-AAGGATAAC
* * * **
37978615 AGATCTTGTCTTCATGTATTGGCGTGAAGCAGATCAAAGATAGT
1 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAGGATAAC
* *** * * * *
37978659 GGATCTTGTCTTCCCATACTGGTGGCGAAATAGATCGAA-GAAAAC
1 AGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATC-AAGGATAAC
*
37978704 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGA-AAC
1 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAGGATAAC
* * * *** * * * *
37978747 ATATTTTGTCTCCCCATACTGGTGGTGGAGTAGATCGAA-GAAAAT
1 AGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATC-AAGGATAAC
* * * *
37978792 AAATCTTATCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGC
1 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAGGATAAC
* * * * * * * *
37978836 AGGTCCTGTCTTCCTATA-TCGGTAGCGAAGTGGATC--GAATATAC
1 AGATCTTGTCTTCATGTACT-GG-CGTGAAGTAGATCAAGGATA-AC
* *** * *
37978880 AGATCTTATCTTCCCATACTGGTGGTGAAGTAGATC--GGA-AAA
1 AGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAGGATAAC
* *
37978922 AGTAAATCTTGTCTTCATGTACTGGCGTGAAATAGATCAAGGATGAC
1 AG---ATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAGGATAAC
* * *** * * * * *
37978969 AGATCTTGCCTCCCCATACTGGTGGTGGAGTAGATTGAAGAAAAAC
1 AGATCTTGTCTTCATGTACTGG-CGTGAAGTAGA-TCAAGGATAAC
* *
37979015 AAATCTTGTCTTCATGTACTGGTGTGAAGTAGATCAAAGG-TAAC
1 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATC-AAGGATAAC
* * * *
37979059 ATATATTGTCTCCTCA--TACTGGTG-GCAAAGCAGATCAAAGGA-AAC
1 AGATCTTGTCT--TCATGTACTGGCGTG--AAGTAGATC-AAGGATAAC
*
37979104 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGG-TAAT
1 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATC-AAGGATAAC
37979148 AGATCTTG
1 AGATCTTG
37979156 CCTCCCCATA
Statistics
Matches: 501, Mismatches: 139, Indels: 70
0.71 0.20 0.10
Matches are distributed among these distances:
42 3 0.01
43 36 0.07
44 233 0.47
45 190 0.38
46 36 0.07
47 3 0.01
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (44 bp):
AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAGGATAAC
Found at i:37979003 original size:266 final size:266
Alignment explanation
Indices: 37978453--37978990 Score: 602
Period size: 266 Copynumber: 2.0 Consensus size: 266
37978443 TGTCTTCATG
* * * * * *
37978453 TACTGGCGTGAAGTAGATCAAGGATGACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCG
1 TACTGGCGTGAAGTAGATCAAAGA-AACATATTTTGTCTCCCCATACTGGTGGCGAAGCAGATCG
* * *
37978518 AAGAAAACAGATATTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTC
65 AAGAAAACAAATATTATCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCCTGTCTTC
* * ** *
37978583 CCATACTGGTGGCGAAGCGGATCGAAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGCAGA
130 CCATACTGGTAGCGAAGCGGATCGAAGAAAACAGATCTTATCTTCACATACTGGCGTGAAGCAGA
** * * *
37978648 TCAAAGATAGTGGATCTTGTCTTCCCATACTGGTGGCGAAATAGATCGAAGAAAACAGATCTTGT
195 TCAAAGATAGTAAATCTTGTCTTCACATACTGGTCGCGAAATAGATCGAAGAAAACAGATCTTGC
* **
37978713 CTTCATG
260 CTCCACA
* * *
37978720 TACTGGCGTGAAGTAGATCAAAGAAACATATTTTGTCTCCCCATACTGGTGGTGGAGTAGATCGA
1 TACTGGCGTGAAGTAGATCAAAGAAACATATTTTGTCTCCCCATACTGGTGGCGAAGCAGATCGA
* * * *
37978785 AGAAAATAAATCTTATCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGCAGGTCCTGTCTTCC
66 AGAAAACAAATATTATCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCCTGTCTTCC
* * * * * * *
37978850 TATA-TCGGTAGCGAAGTGGATCGAA-TATACAGATCTTATCTTCCCATACTGGTGGTGAAGTAG
131 CATACT-GGTAGCGAAGCGGATCGAAGAAAACAGATCTTATCTTCACATACTGG-CGTGAAGCAG
** * **
37978913 ATCGGAAA-A-AGTAAATCTTGTCTTCATGTACTGG-CGTGAAATAGATC-AAGGATGACAGATC
194 ATC--AAAGATAGTAAATCTTGTCTTCACATACTGGTCGCGAAATAGATCGAA-GAAAACAGATC
*
37978974 TTGCCTCCCCA
256 TTGCCTCCACA
37978985 TACTGG
1 TACTGG
37978991 TGGTGGAGTA
Statistics
Matches: 224, Mismatches: 42, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
264 2 0.01
265 53 0.24
266 142 0.63
267 24 0.11
268 3 0.01
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.27
Consensus pattern (266 bp):
TACTGGCGTGAAGTAGATCAAAGAAACATATTTTGTCTCCCCATACTGGTGGCGAAGCAGATCGA
AGAAAACAAATATTATCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCCTGTCTTCC
CATACTGGTAGCGAAGCGGATCGAAGAAAACAGATCTTATCTTCACATACTGGCGTGAAGCAGAT
CAAAGATAGTAAATCTTGTCTTCACATACTGGTCGCGAAATAGATCGAAGAAAACAGATCTTGCC
TCCACA
Found at i:37979048 original size:90 final size:90
Alignment explanation
Indices: 37978878--37979276 Score: 434
Period size: 89 Copynumber: 4.5 Consensus size: 90
37978868 GATCGAATAT
** * * * *
37978878 ACAGATCTTATCTTCCCATACTGGTGGTGAAGTAGATCG--GAAAAAGTAAATCTTGTCTTCATG
1 ACAGATCTTGCCTCCCCATACTGGTGGTGGAGTAGATTGAAGAAAAA-CAAATCTTGTCTTCATG
* *
37978941 TACTGGCGTGAAATAGATC-AAGGATG
65 TACTGGCGTGAAGTAGATCAAAGG-TA
37978967 ACAGATCTTGCCTCCCCATACTGGTGGTGGAGTAGATTGAAGAAAAACAAATCTTGTCTTCATGT
1 ACAGATCTTGCCTCCCCATACTGGTGGTGGAGTAGATTGAAGAAAAACAAATCTTGTCTTCATGT
*
37979032 ACTGGTGTGAAGTAGATCAAAGGTA
66 ACTGGCGTGAAGTAGATCAAAGGTA
* * * * *** * ** * *
37979057 ACATATATTGTCTCCTCATACTGGTGGCAAAGCAGATCAAAG-GAAACAGATCTTGTCTTCATGT
1 ACAGATCTTGCCTCCCCATACTGGTGGTGGAGTAGATTGAAGAAAAACAAATCTTGTCTTCATGT
37979121 ACTGGCGTGAAGTAGATCAAAGGTA
66 ACTGGCGTGAAGTAGATCAAAGGTA
* * * * *
37979146 ATAGATCTTGCCTCCCCATATTGGTGGTGGAGCAGATTGAAGAAAAGCAAATCTTGTCTTTATGT
1 ACAGATCTTGCCTCCCCATACTGGTGGTGGAGTAGATTGAAGAAAAACAAATCTTGTCTTCATGT
***
37979211 A-TCGGCGTGAAGTAGATCAAATACA
66 ACT-GGCGTGAAGTAGATCAAAGGTA
* * *
37979236 ACAAATATT--CTCCCCATACTGGTGGTGGAATAGATTGAAGA
1 ACAGATCTTGCCTCCCCATACTGGTGGTGGAGTAGATTGAAGA
37979277 TTACAGATCT
Statistics
Matches: 259, Mismatches: 46, Indels: 11
0.82 0.15 0.03
Matches are distributed among these distances:
88 29 0.11
89 110 0.42
90 110 0.42
91 10 0.04
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (90 bp):
ACAGATCTTGCCTCCCCATACTGGTGGTGGAGTAGATTGAAGAAAAACAAATCTTGTCTTCATGT
ACTGGCGTGAAGTAGATCAAAGGTA
Found at i:37980947 original size:14 final size:14
Alignment explanation
Indices: 37980928--37980966 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
37980918 TGTTATATTG
37980928 TATTTGTATATATA
1 TATTTGTATATATA
* * *
37980942 TATTTGCAAATATT
1 TATTTGTATATATA
37980956 TATTTGTATAT
1 TATTTGTATAT
37980967 GTTGTAAATT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (14 bp):
TATTTGTATATATA
Found at i:37982733 original size:20 final size:23
Alignment explanation
Indices: 37982708--37982758 Score: 72
Period size: 21 Copynumber: 2.3 Consensus size: 23
37982698 TATTTAATTA
*
37982708 ATTATT-TTAATGTTATT-ATC-
1 ATTATTATAAATGTTATTAATCT
37982728 ATTATTATAAATGTTATTAATCT
1 ATTATTATAAATGTTATTAATCT
37982751 ATTATTAT
1 ATTATTAT
37982759 TCATGCACAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 6 0.22
21 10 0.37
22 3 0.11
23 8 0.30
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (23 bp):
ATTATTATAAATGTTATTAATCT
Found at i:37982979 original size:21 final size:21
Alignment explanation
Indices: 37982955--37982994 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
37982945 AATATATATA
*
37982955 TATACATATATACCTATTTTT
1 TATACATATATACATATTTTT
* *
37982976 TATATATATGTACATATTT
1 TATACATATATACATATTT
37982995 ATATTTTTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TATACATATATACATATTTTT
Found at i:37984785 original size:11 final size:11
Alignment explanation
Indices: 37984771--37984795 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
37984761 AAAAACAATG
37984771 ATAAAAAAGTA
1 ATAAAAAAGTA
37984782 ATAAAAAAGTA
1 ATAAAAAAGTA
37984793 ATA
1 ATA
37984796 TCAGGAAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.20
Consensus pattern (11 bp):
ATAAAAAAGTA
Found at i:37985059 original size:29 final size:31
Alignment explanation
Indices: 37985022--37985105 Score: 81
Period size: 29 Copynumber: 2.9 Consensus size: 31
37985012 TAAGTTACGC
37985022 AAATT-AAAGGG-TAAAAATATAAAT-A-AGA
1 AAATTAAAAGGGCTAAAAAT-TAAATAACAGA
* *
37985050 AAATTAAAAGGGCTAGAAATTGAATAACAGA
1 AAATTAAAAGGGCTAAAAATTAAATAACAGA
* *
37985081 AAA-TAAAAGGGGT-GAAATTAAATAA
1 AAATTAAAAGGGCTAAAAATTAAATAA
37985106 GTAAAGGACT
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
28 5 0.10
29 21 0.44
30 16 0.33
31 6 0.12
ACGTcount: A:0.60, C:0.02, G:0.18, T:0.20
Consensus pattern (31 bp):
AAATTAAAAGGGCTAAAAATTAAATAACAGA
Found at i:37986297 original size:15 final size:16
Alignment explanation
Indices: 37986279--37986313 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
37986269 ATTTTTTAAA
*
37986279 TTTTGGGCTTTTA-GG
1 TTTTAGGCTTTTAGGG
37986294 TTTTAGGCTTTTAGGG
1 TTTTAGGCTTTTAGGG
37986310 TTTT
1 TTTT
37986314 TGTATTTGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.09, C:0.06, G:0.29, T:0.57
Consensus pattern (16 bp):
TTTTAGGCTTTTAGGG
Found at i:37986677 original size:47 final size:48
Alignment explanation
Indices: 37986626--37986733 Score: 139
Period size: 50 Copynumber: 2.2 Consensus size: 48
37986616 CTTGCTCCAT
*
37986626 TGCAACTTCGA-GAAGATAAGATTTG-TTGTAGTTTCAATCCAACCCAC
1 TGCAACTTCAATGAA-ATAAGATTTGTTTGTAGTTTCAATCCAACCCAC
* **
37986673 TGCAACTTCAATTAAATAAGATTTGTTATTGTAGTTTCAATCTGACCCAC
1 TGCAACTTCAATGAAATAAGATTTG-T-TTGTAGTTTCAATCCAACCCAC
37986723 TGCAACTTCAA
1 TGCAACTTCAA
37986734 GGGTATAGGA
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
47 20 0.38
48 2 0.04
50 31 0.58
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.33
Consensus pattern (48 bp):
TGCAACTTCAATGAAATAAGATTTGTTTGTAGTTTCAATCCAACCCAC
Found at i:37986767 original size:44 final size:43
Alignment explanation
Indices: 37986719--37987048 Score: 161
Period size: 44 Copynumber: 7.1 Consensus size: 43
37986709 TCAATCTGAC
* *
37986719 CCACTGCAACTTCAAGGGTATAGGATTTGTAGCTTAATCTTGCT
1 CCACTACAACTTC-AGGGTATAAGATTTGTAGCTTAATCTTGCT
*
37986763 CCACTACAACTTTAGAGAG-ATAAGATTTGTTATGATAACTTCAATC-TGAC-
1 CCACTACAACTTCAG-G-GTATAAGATTTG-TA-G----CTT-AATCTTG-CT
* * * *
37986813 CCATTACAACTTCAGGGATATAGGATTTGTAGCTTCATCTTACT
1 CCACTACAACTTCAGGG-TATAAGATTTGTAGCTTAATCTTGCT
*
37986857 CCACTACAACTTCAGGGAGATAAGATTTGTTATGGTAACTTCAATC-TGAC-
1 CCACTACAACTTCAGGG-TATAAGATTTG-TA--G---CTT-AATCTTG-CT
* * * * *
37986907 CCACTGCAACTTTAGGGGTATACGATTTGGAGCTTCATCTTGCT
1 CCACTACAACTTCA-GGGTATAAGATTTGTAGCTTAATCTTGCT
* * *
37986951 CCACTACAACTTTAGGGAGATAAGATTTGCTATGGTAACTTAAATC-TG-A
1 CCACTACAACTTCAGGG-TATAAGATTTG-TA--G---CTT-AATCTTGCT
* * *
37987000 CCACTACAACTTCAGAGGCATAGGATTTGTAGCTTCATCTTGCT
1 CCACTACAACTTCAG-GGTATAAGATTTGTAGCTTAATCTTGCT
37987044 CCACT
1 CCACT
37987049 GCAAATTTAG
Statistics
Matches: 220, Mismatches: 30, Indels: 72
0.68 0.09 0.22
Matches are distributed among these distances:
42 3 0.01
43 18 0.08
44 83 0.38
45 6 0.03
46 2 0.01
47 3 0.01
48 4 0.02
49 27 0.12
50 59 0.27
51 15 0.07
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (43 bp):
CCACTACAACTTCAGGGTATAAGATTTGTAGCTTAATCTTGCT
Found at i:37986840 original size:50 final size:49
Alignment explanation
Indices: 37986639--37987014 Score: 235
Period size: 50 Copynumber: 8.0 Consensus size: 49
37986629 AACTTCGAGA
** ** * ***
37986639 AGATAAGATTTG-T-TGTAGTTTCAATCCAACCCACTGCAACTTCAATT
1 AGATAAGATTTGTTATGTAACTTCAATCTGACCCACTACAACTTCAGGG
* ** *
37986686 AAATAAGATTTGTTATTGTAGTTTCAATCTGACCCACTGCAACTTCAAGGG
1 AGATAAGATTTGTTA-TGTAACTTCAATCTGACCCACTACAACTTC-AGGG
* * * *
37986737 -TATAGGATTTG-TA-G---CTT-AATCTTG-CTCCACTACAACTTTAGAG
1 AGATAAGATTTGTTATGTAACTTCAATC-TGAC-CCACTACAACTTCAGGG
*
37986780 AGATAAGATTTGTTATGATAACTTCAATCTGACCCATTACAACTTCAGGG
1 AGATAAGATTTGTTATG-TAACTTCAATCTGACCCACTACAACTTCAGGG
* * *
37986830 ATATAGGATTTG-TA-G---CTTC-ATCTTACTCCACTACAACTTCAGGG
1 AGATAAGATTTGTTATGTAACTTCAATCTGAC-CCACTACAACTTCAGGG
* *
37986874 AGATAAGATTTGTTATGGTAACTTCAATCTGACCCACTGCAACTTTAGGG
1 AGATAAGATTTGTTAT-GTAACTTCAATCTGACCCACTACAACTTCAGGG
* * *
37986924 -GTATACGATTTG----G-AGCTTC-ATCTTG-CTCCACTACAACTTTAGGG
1 AG-ATAAGATTTGTTATGTAACTTCAATC-TGAC-CCACTACAACTTCAGGG
* *
37986968 AGATAAGATTTGCTATGGTAACTTAAATCTGA-CCACTACAACTTCAG
1 AGATAAGATTTGTTAT-GTAACTTCAATCTGACCCACTACAACTTCAG
37987015 AGGCATAGGA
Statistics
Matches: 261, Mismatches: 33, Indels: 68
0.72 0.09 0.19
Matches are distributed among these distances:
43 18 0.07
44 86 0.33
45 6 0.02
46 1 0.00
47 13 0.05
48 2 0.01
49 20 0.08
50 100 0.38
51 15 0.06
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (49 bp):
AGATAAGATTTGTTATGTAACTTCAATCTGACCCACTACAACTTCAGGG
Found at i:37987241 original size:44 final size:44
Alignment explanation
Indices: 37987191--37987339 Score: 131
Period size: 44 Copynumber: 3.2 Consensus size: 44
37987181 ATGCGACCCG
37987191 CTGCAACTTCAAGGGTATAGGATTTGTAGCTTCATCTTACTCCA
1 CTGCAACTTCAAGGGTATAGGATTTGTAGCTTCATCTTACTCCA
* **
37987235 CTGCAACTTCAAGGAG-ATAAGATTCGCTATGGTAGCTTCAATCAAAC-CCA
1 CTGCAACTTCAAGG-GTATAGGA-T---T-T-GTAGCTTC-ATCTTACTCCA
* * * * *
37987285 CTGTAACTTTAGGGGTATAGGATTTATAACTTCATCTTACTCCA
1 CTGCAACTTCAAGGGTATAGGATTTGTAGCTTCATCTTACTCCA
*
37987329 CTGTAACTTCA
1 CTGCAACTTCA
37987340 GGGAGATAAG
Statistics
Matches: 83, Mismatches: 12, Indels: 20
0.72 0.10 0.17
Matches are distributed among these distances:
43 5 0.06
44 38 0.46
45 3 0.04
46 1 0.01
48 1 0.01
49 3 0.04
50 27 0.33
51 5 0.06
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (44 bp):
CTGCAACTTCAAGGGTATAGGATTTGTAGCTTCATCTTACTCCA
Found at i:37987353 original size:94 final size:94
Alignment explanation
Indices: 37986708--37987397 Score: 803
Period size: 94 Copynumber: 7.4 Consensus size: 94
37986698 TTATTGTAGT
* *
37986708 TTCAATCTGACCCACTGCAACTTCAAGGGTATAGGATTTGTAGCTTAATCTTGCTCCACTACAAC
1 TTCAATCTGACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTACAAC
* * * *
37986773 TTTAGAGAGATAAGATTTGTTATGATAAC
66 TTTAGGGAGATAAGATTCGCTATGGTAAC
* * * *
37986802 TTCAATCTGACCCATTACAACTTCAGGGATATAGGATTTGTAGCTTCATCTTACTCCACTACAAC
1 TTCAATCTGACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTACAAC
* * *
37986867 TTCAGGGAGATAAGATTTGTTATGGTAAC
66 TTTAGGGAGATAAGATTCGCTATGGTAAC
* * *
37986896 TTCAATCTGACCCACTGCAACTTTAGGGGTATACGATTTGGAGCTTCATCTTGCTCCACTACAAC
1 TTCAATCTGACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTACAAC
*
37986961 TTTAGGGAGATAAGATTTGCTATGGTAAC
66 TTTAGGGAGATAAGATTCGCTATGGTAAC
* * * * * *
37986990 TTAAATCTGA-CCACTACAACTTCAGAGGCATAGGATTTGTAGCTTCATCTTGCTCCACTGCAAA
1 TTCAATCTGACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTACAAC
*
37987054 TTTAGGGAGATAAGATTCAGC-ATAGTAAC
66 TTTAGGGAGATAAGATTC-GCTATGGTAAC
* * * * * * *
37987083 TTTATTCTGACCCATTACAGCTTTAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTATAAC
1 TTCAATCTGACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTACAAC
*
37987148 TTTAGGTA-ACTAAGATTCGCTATGGTAAC
66 TTTAGGGAGA-TAAGATTCGCTATGGTAAC
* * * *
37987177 TTCAATGC-GACCCGCTGCAACTTCAAGGGTATAGGATTTGTAGCTTCATCTTACTCCACTGCAA
1 TTCAAT-CTGACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTACAA
* * *
37987241 CTTCAAGGAGATAAGATTCGCTATGGTAGC
65 CTTTAGGGAGATAAGATTCGCTATGGTAAC
** * * * * * **
37987271 TTCAATCAAACCCACTGTAACTTTAGGGGTATAGGATTTATAACTTCATCTTACTCCACTGTAAC
1 TTCAATCTGACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTACAAC
* * * * **
37987336 TTCAGGGAGATAAGATTCACCATTGTAGT
66 TTTAGGGAGATAAGATTCGCTATGGTAAC
* * * *
37987365 TTCATTCTAACCTACTGCAACTTTAGGGGTATA
1 TTCAATCTGACCCACTGCAACTTCAGGGGTATA
37987398 AAAATTGTAG
Statistics
Matches: 516, Mismatches: 73, Indels: 14
0.86 0.12 0.02
Matches are distributed among these distances:
93 82 0.16
94 432 0.84
95 2 0.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (94 bp):
TTCAATCTGACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTACAAC
TTTAGGGAGATAAGATTCGCTATGGTAAC
Found at i:37987423 original size:94 final size:94
Alignment explanation
Indices: 37987231--37987446 Score: 218
Period size: 94 Copynumber: 2.3 Consensus size: 94
37987221 TTCATCTTAC
* * * *
37987231 TCCACTGCAACTTCAAGGAGATAAGATTCGCTATGGTAGCTTCAATCAAACCCACTGTAACTTTA
1 TCCACTGTAACTTCAAGGAGATAAGATTCACCATGGTAGCTTCAATCAAACCCACTGCAACTTTA
** * * * *
37987296 GGGGTATAGGATTTATAACTTCATCTTAC
66 GGGGTATAAAAATTATAACTTAATCTCAA
* * * * * *
37987325 TCCACTGTAACTTCAGGGAGATAAGATTCACCATTGTAGTTTCATTCTAACCTACTGCAACTTTA
1 TCCACTGTAACTTCAAGGAGATAAGATTCACCATGGTAGCTTCAATCAAACCCACTGCAACTTTA
* *
37987390 GGGGTATAAAAATTGTAGCTTTAATC-CAA
66 GGGGTATAAAAATTATAAC-TTAATCTCAA
* * * *
37987419 TCCACTATAACTTTAAGGATATAGGATT
1 TCCACTGTAACTTCAAGGAGATAAGATT
37987447 TGTAGTTTCA
Statistics
Matches: 98, Mismatches: 23, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
94 93 0.95
95 5 0.05
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.32
Consensus pattern (94 bp):
TCCACTGTAACTTCAAGGAGATAAGATTCACCATGGTAGCTTCAATCAAACCCACTGCAACTTTA
GGGGTATAAAAATTATAACTTAATCTCAA
Found at i:38006119 original size:12 final size:12
Alignment explanation
Indices: 38006102--38006128 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
38006092 ACGGAAGTAC
38006102 CTTTAGTTTAAG
1 CTTTAGTTTAAG
38006114 CTTTAGTTTAAG
1 CTTTAGTTTAAG
38006126 CTT
1 CTT
38006129 AGGCTGTTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.11, G:0.15, T:0.52
Consensus pattern (12 bp):
CTTTAGTTTAAG
Found at i:38015654 original size:50 final size:53
Alignment explanation
Indices: 38015547--38015680 Score: 150
Period size: 56 Copynumber: 2.5 Consensus size: 53
38015537 GGGAATAAGA
* * *
38015547 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTATTAGGGTTAGGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGC--TATCAGAG-TAGGAGAGG
* *
38015603 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGC-A-CCGAG-ATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCTATCAGAGTAGGAGAGG
*
38015653 TCTCC-CGTAAGACCATGTCGGGGACATG
1 TC-CCACGTAAGACCATGTCTGGGACATG
38015681 ACATGGACAA
Statistics
Matches: 71, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
50 31 0.44
51 2 0.03
52 2 0.03
53 1 0.01
56 35 0.49
ACGTcount: A:0.25, C:0.22, G:0.31, T:0.22
Consensus pattern (53 bp):
TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCTATCAGAGTAGGAGAGG
Found at i:38015699 original size:50 final size:50
Alignment explanation
Indices: 38015597--38015700 Score: 140
Period size: 50 Copynumber: 2.1 Consensus size: 50
38015587 TTAGGGTTAG
* * *
38015597 GAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
1 GAGAGGTCCCACGTAAGACCATGTCGGGGACATGACATTGGCAACGAGAT
*
38015647 GAGAGGTCTCC-CGTAAGACCATGTCGGGGACATGACA-TGGACAACGATAT
1 GAGAGGTC-CCACGTAAGACCATGTCGGGGACATGACATTGG-CAACGAGAT
38015697 GAGA
1 GAGA
38015701 AATCTCATGG
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
49 3 0.06
50 43 0.90
51 2 0.04
ACGTcount: A:0.29, C:0.22, G:0.32, T:0.17
Consensus pattern (50 bp):
GAGAGGTCCCACGTAAGACCATGTCGGGGACATGACATTGGCAACGAGAT
Found at i:38015715 original size:50 final size:50
Alignment explanation
Indices: 38015606--38015718 Score: 120
Period size: 50 Copynumber: 2.3 Consensus size: 50
38015596 GGAGAGGTCC
* * * * **
38015606 CACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCT
1 CACGGAAGACCATGTCGGGGACATGACATTGGCAACGAGATGAGAAATCT
* * *
38015656 CCCGTAAGACCATGTCGGGGACATGACA-TGGACAACGATATGAGAAATCT
1 CACGGAAGACCATGTCGGGGACATGACATTGG-CAACGAGATGAGAAATCT
*
38015706 CATGGAAGACCAT
1 CACGGAAGACCAT
38015719 ATTTGGGATA
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
49 3 0.06
50 49 0.94
ACGTcount: A:0.31, C:0.22, G:0.28, T:0.19
Consensus pattern (50 bp):
CACGGAAGACCATGTCGGGGACATGACATTGGCAACGAGATGAGAAATCT
Found at i:38016016 original size:20 final size:20
Alignment explanation
Indices: 38015991--38016039 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
38015981 TGAGTTATTT
*
38015991 AAGTAAGCAAGTAAGTGAAC
1 AAGTAAGCAAGTAAGTAAAC
*
38016011 AAGTAAG-AGAGTAAGTAAAG
1 AAGTAAGCA-AGTAAGTAAAC
38016031 AAG-AAGCAA
1 AAGTAAGCAA
38016040 AGGCCATGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.55, C:0.06, G:0.27, T:0.12
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAC
Found at i:38019431 original size:40 final size:40
Alignment explanation
Indices: 38019394--38019579 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
38019384 GCTACTCGTT
* *
38019394 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
* *
38019434 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCG
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
38019474 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
38019514 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
38019555 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
38019580 CATCATTCAA
Statistics
Matches: 129, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.02
40 113 0.88
41 13 0.10
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:38021541 original size:19 final size:19
Alignment explanation
Indices: 38021519--38021556 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
38021509 TCAATCATCC
38021519 CTCATCTCATCA-TCTCTCA
1 CTCAT-TCATCATTCTCTCA
38021538 CTCATTCATCATTCTCTCA
1 CTCATTCATCATTCTCTCA
38021557 ACTTTTTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.21, C:0.39, G:0.00, T:0.39
Consensus pattern (19 bp):
CTCATTCATCATTCTCTCA
Found at i:38025542 original size:16 final size:16
Alignment explanation
Indices: 38025521--38025555 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
38025511 AACCCCAACC
38025521 TCTATTCTTCTGAACT
1 TCTATTCTTCTGAACT
* *
38025537 TCTATTTTTTTGAACT
1 TCTATTCTTCTGAACT
38025553 TCT
1 TCT
38025556 TCAATTTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.17, C:0.20, G:0.06, T:0.57
Consensus pattern (16 bp):
TCTATTCTTCTGAACT
Found at i:38027295 original size:20 final size:20
Alignment explanation
Indices: 38027267--38027341 Score: 105
Period size: 20 Copynumber: 3.8 Consensus size: 20
38027257 AAGACTATGA
*
38027267 ACCACTCCATTTACTTACTT
1 ACCATTCCATTTACTTACTT
38027287 ACCATTCCATTTACTTACTT
1 ACCATTCCATTTACTTACTT
* * *
38027307 TCCATTTCATTAACTTACTT
1 ACCATTCCATTTACTTACTT
*
38027327 TCCATTCCATTTACT
1 ACCATTCCATTTACT
38027342 GAGCATAAGC
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.24, C:0.31, G:0.00, T:0.45
Consensus pattern (20 bp):
ACCATTCCATTTACTTACTT
Found at i:38027309 original size:15 final size:16
Alignment explanation
Indices: 38027281--38027313 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
38027271 CTCCATTTAC
38027281 TTACTTACCATTCCAT
1 TTACTTACCATTCCAT
*
38027297 TTACTTA-CTTTCCAT
1 TTACTTACCATTCCAT
38027312 TT
1 TT
38027314 CATTAACTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.21, C:0.27, G:0.00, T:0.52
Consensus pattern (16 bp):
TTACTTACCATTCCAT
Found at i:38029635 original size:29 final size:28
Alignment explanation
Indices: 38029602--38029685 Score: 78
Period size: 29 Copynumber: 2.9 Consensus size: 28
38029592 TACAAAACTC
*
38029602 AACCCATCTTGTCAAAATTATTTCTTCAG
1 AACCCATCATGTCAAAATTATTT-TTCAG
**** *
38029631 AACCCATCCCCCCAAAACTATTTTTCAG
1 AACCCATCATGTCAAAATTATTTTTCAG
*
38029659 AACCCATCATGTACAAATTATATTTTT
1 AACCCATCATGT-CAAAAT-TATTTTT
38029686 GTAACCTTTA
Statistics
Matches: 42, Mismatches: 11, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
28 13 0.31
29 22 0.52
30 7 0.17
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (28 bp):
AACCCATCATGTCAAAATTATTTTTCAG
Found at i:38033642 original size:25 final size:25
Alignment explanation
Indices: 38033614--38033663 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
38033604 GACCATATGG
38033614 GGTAAACAAATTTAACCTAAAGAGA
1 GGTAAACAAATTTAACCTAAAGAGA
*
38033639 GGTAAACGAATTTAACCTAAAGAGA
1 GGTAAACAAATTTAACCTAAAGAGA
38033664 TATTTAGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.50, C:0.12, G:0.18, T:0.20
Consensus pattern (25 bp):
GGTAAACAAATTTAACCTAAAGAGA
Found at i:38038524 original size:11 final size:11
Alignment explanation
Indices: 38038508--38038554 Score: 67
Period size: 11 Copynumber: 4.3 Consensus size: 11
38038498 TCAATTATTT
38038508 TCTCAATTTCC
1 TCTCAATTTCC
*
38038519 TCTCAATTACC
1 TCTCAATTTCC
*
38038530 TCTCAATTTGC
1 TCTCAATTTCC
*
38038541 TCTCAAATTCC
1 TCTCAATTTCC
38038552 TCT
1 TCT
38038555 TAAATTTCTC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 31 1.00
ACGTcount: A:0.21, C:0.34, G:0.02, T:0.43
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:38038565 original size:22 final size:23
Alignment explanation
Indices: 38038512--38038570 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 23
38038502 TTATTTTCTC
*
38038512 AATTTCCTCTC-AATTACCTCTC
1 AATTTCCTCTCAAATTACCTCTA
*
38038534 AATTTGCTCTCAAATT-CCTCTTA
1 AATTTCCTCTCAAATTACCTC-TA
*
38038557 AATTT-CTCTTAAAT
1 AATTTCCTCTCAAAT
38038571 CCTATTTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 22 0.69
23 10 0.31
ACGTcount: A:0.27, C:0.27, G:0.02, T:0.44
Consensus pattern (23 bp):
AATTTCCTCTCAAATTACCTCTA
Found at i:38039731 original size:7 final size:7
Alignment explanation
Indices: 38039719--38039744 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
38039709 TAGTCGATTG
38039719 GTATTTA
1 GTATTTA
38039726 GTATTTA
1 GTATTTA
38039733 GTATTTA
1 GTATTTA
38039740 GTATT
1 GTATT
38039745 ATGTATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:38040701 original size:21 final size:21
Alignment explanation
Indices: 38040675--38040721 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
38040665 CAACTCCGAC
*
38040675 AACCAG-ATGCCCTACTGGAGG
1 AACCAGAAT-CCCTACCGGAGG
38040696 AACCAGAATCCCTACCGGAGG
1 AACCAGAATCCCTACCGGAGG
38040717 AACCA
1 AACCA
38040722 CAACCGTTGC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 22 0.92
22 2 0.08
ACGTcount: A:0.34, C:0.32, G:0.23, T:0.11
Consensus pattern (21 bp):
AACCAGAATCCCTACCGGAGG
Found at i:38041014 original size:28 final size:27
Alignment explanation
Indices: 38040982--38041064 Score: 122
Period size: 22 Copynumber: 3.2 Consensus size: 27
38040972 ACAAATCCTA
38040982 AACCCTTAACTTAAAAACCCTAAACCCT
1 AACCCTTAACTTAAAAACCCT-AACCCT
38041010 AACCCTTAACTTAAAAACCCT-A----
1 AACCCTTAACTTAAAAACCCTAACCCT
38041032 AACCCTTAACTTAAAAACCCTAACCCT
1 AACCCTTAACTTAAAAACCCTAACCCT
38041059 AACCCT
1 AACCCT
38041065 AACCCTTGAC
Statistics
Matches: 50, Mismatches: 0, Indels: 11
0.82 0.00 0.18
Matches are distributed among these distances:
22 21 0.42
23 1 0.02
26 1 0.02
27 6 0.12
28 21 0.42
ACGTcount: A:0.42, C:0.36, G:0.00, T:0.22
Consensus pattern (27 bp):
AACCCTTAACTTAAAAACCCTAACCCT
Found at i:38041049 original size:15 final size:15
Alignment explanation
Indices: 38040981--38041030 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
38040971 GACAAATCCT
38040981 AAACCCTTAACTTAA
1 AAACCCTTAACTTAA
* *
38040996 AAACCCTAAACCCT--
1 AAACCCTTAA-CTTAA
38041010 -AACCCTTAACTTAA
1 AAACCCTTAACTTAA
38041024 AAACCCT
1 AAACCCT
38041031 AAACCCTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 8
0.69 0.10 0.21
Matches are distributed among these distances:
12 2 0.07
13 8 0.30
15 15 0.56
16 2 0.07
ACGTcount: A:0.44, C:0.34, G:0.00, T:0.22
Consensus pattern (15 bp):
AAACCCTTAACTTAA
Found at i:38044426 original size:126 final size:125
Alignment explanation
Indices: 38044157--38044474 Score: 501
Period size: 126 Copynumber: 2.5 Consensus size: 125
38044147 CCCAAACATA
* * *
38044157 CTACTGTAGCAAAAGCGCGTCCACGTGGGCACGATTTCAAAAATTCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCACGATTTCACAAATTCTTCTCATAAAGCATCCTGC
*
38044222 TTGAAGCGTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCCAGGAC
66 TTGAAGCGTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCCAGAAC
* * * *
38044282 CTGCTGTAGCAAAAGCGCGTTCACGAGGGCACGGTTTCACAAATTCTTCTCATAAAGCATCATGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCACGATTTCACAAATTCTTCTCATAAAGCATCCTGC
*
38044347 TTGAAGCGTTTTTTATACTATTTGCTCAGAAATGTCAACTCGAAATTATTTTTTCCAGAAC
66 TTGAAGCG-TTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCCAGAAC
* * * * *
38044408 CTACTATAGCAAAAGCGCGTCCACGAGGGCGCGATTTGACATATTCTTCTCAAAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCACGATTTCACAAATTCTTCTCATAAAGCATCCTGC
38044473 TT
66 TT
38044475 TGATTTTATC
Statistics
Matches: 174, Mismatches: 18, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
125 66 0.38
126 108 0.62
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.31
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCACGATTTCACAAATTCTTCTCATAAAGCATCCTGC
TTGAAGCGTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCCAGAAC
Found at i:38044607 original size:21 final size:22
Alignment explanation
Indices: 38044567--38044609 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
38044557 CTCTAAAAAT
* *
38044567 CCTAAAAACTCTAAACCCTAAC
1 CCTAAAAACTCAAAAACCTAAC
38044589 CCTAAAAAC-CAAAAACCTAAC
1 CCTAAAAACTCAAAAACCTAAC
38044610 GTGGAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.51, C:0.35, G:0.00, T:0.14
Consensus pattern (22 bp):
CCTAAAAACTCAAAAACCTAAC
Found at i:38050056 original size:9 final size:10
Alignment explanation
Indices: 38050037--38050061 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
38050027 TTTAGTTCTT
38050037 AAAAAGAAAA
1 AAAAAGAAAA
38050047 AAAAAGAAAA
1 AAAAAGAAAA
38050057 AAAAA
1 AAAAA
38050062 AGACAGTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:38052596 original size:25 final size:25
Alignment explanation
Indices: 38052556--38052644 Score: 110
Period size: 25 Copynumber: 3.5 Consensus size: 25
38052546 GGAGCTACAT
*
38052556 GTTAT-TGGCTCGCATGAGCTTCCC
1 GTTATATGGCTCACATGAGCTTCCC
*
38052580 GTTACATGGCTCACATGAGCTTCCC
1 GTTATATGGCTCACATGAGCTTCCC
*
38052605 GTTATATGGCTCGAGA-GAGGGCTTCCC
1 GTTATATGGCTC-ACATGA--GCTTCCC
38052632 GTTATATGGCTCA
1 GTTATATGGCTCA
38052645 AGAGAGGGCT
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
24 4 0.07
25 31 0.54
26 3 0.05
27 19 0.33
ACGTcount: A:0.18, C:0.26, G:0.26, T:0.30
Consensus pattern (25 bp):
GTTATATGGCTCACATGAGCTTCCC
Found at i:38052633 original size:27 final size:26
Alignment explanation
Indices: 38052573--38052657 Score: 111
Period size: 27 Copynumber: 3.2 Consensus size: 26
38052563 GCTCGCATGA
* *
38052573 GCTTCCCGTTACATGGCTCACATGA--
1 GCTTCCCGTTATATGGCTCAGA-GAGG
38052598 GCTTCCCGTTATATGGCTCGAGAGAGG
1 GCTTCCCGTTATATGGCTC-AGAGAGG
38052625 GCTTCCCGTTATATGGCTCAAGAGAGG
1 GCTTCCCGTTATATGGCTC-AGAGAGG
38052652 GCTTCC
1 GCTTCC
38052658 TGATTATGTG
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
25 20 0.37
26 2 0.04
27 32 0.59
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (26 bp):
GCTTCCCGTTATATGGCTCAGAGAGG
Found at i:38052670 original size:27 final size:26
Alignment explanation
Indices: 38052598--38052670 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 26
38052588 GCTCACATGA
* *
38052598 GCTTCCCGTTATATGGCTCGAGAGAGG
1 GCTTCCCGTTATGT-GCTCAAGAGAGG
*
38052625 GCTTCCCGTTATATGGCTCAAGAGAGG
1 GCTTCCCGTTATGT-GCTCAAGAGAGG
*
38052652 GCTTCCTGATTATGTGCTC
1 GCTTCCCG-TTATGTGCTC
38052671 TAATGAGCAC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
27 37 0.88
28 5 0.12
ACGTcount: A:0.18, C:0.23, G:0.29, T:0.30
Consensus pattern (26 bp):
GCTTCCCGTTATGTGCTCAAGAGAGG
Found at i:38059754 original size:24 final size:24
Alignment explanation
Indices: 38059678--38059757 Score: 74
Period size: 24 Copynumber: 3.3 Consensus size: 24
38059668 TCTAAGCCTA
**
38059678 GAGCTTCCC-ATTAATGGCTCTTCG
1 GAGCTTCCCGATT-ATGGCTCTTAT
* **
38059702 GAGCTACCCG-TTATTGGCTCGCAT
1 GAGCTTCCCGATTA-TGGCTCTTAT
*
38059726 AAGCTTCCCGATTATGGCTCTTAT
1 GAGCTTCCCGATTATGGCTCTTAT
38059750 GAGCTTCC
1 GAGCTTCC
38059758 TGTTACATGG
Statistics
Matches: 43, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
23 1 0.02
24 39 0.91
25 3 0.07
ACGTcount: A:0.17, C:0.29, G:0.21, T:0.33
Consensus pattern (24 bp):
GAGCTTCCCGATTATGGCTCTTAT
Found at i:38064572 original size:34 final size:34
Alignment explanation
Indices: 38064528--38064792 Score: 108
Period size: 35 Copynumber: 7.4 Consensus size: 34
38064518 AGTTTATTTG
* *
38064528 ACTAGTGCTGGGCAC-ATATTCGTCGGTTTATCCG
1 ACTAGAGCTGGGCACAATATT-GTCGGTTTATCCA
* * *
38064562 ACTTGCGCTGGGCACAAATATTGTTGGTTTATCCA
1 ACTAGAGCTGGGCAC-AATATTGTCGGTTTATCCA
* *
38064597 ACTAGAGCTGGGCTCACCATTTATTTTGTTGGTTTATCCA
1 ACTAGAGCTGGG--CA-CA---ATATTGTCGGTTTATCCA
* ** * *
38064637 AATAGCA-CTGGGCACAAATAACGTTGCTTTATCCA
1 ACTAG-AGCTGGGCAC-AATATTGTCGGTTTATCCA
* *
38064672 ACTAGAGCTGCGCTCACTAATTATTCGTCGGTTTATCCG
1 ACTAGAGCTG-G-GCAC-AA-TATT-GTCGGTTTATCCA
** * * **
38064711 ACTAGCA-CTGGGCGTAACT-TCCGTCAGTTTATCTG
1 ACTAG-AGCTGGGCACAA-TAT-TGTCGGTTTATCCA
* * *
38064746 ACTAGTGTTGGGCACACAT-TTGTCGATTTATCCA
1 ACTAGAGCTGGGCACA-ATATTGTCGGTTTATCCA
*
38064780 ACTAGCGCTGGGC
1 ACTAGAGCTGGGC
38064793 GCAAACTCTT
Statistics
Matches: 174, Mismatches: 38, Indels: 38
0.70 0.15 0.15
Matches are distributed among these distances:
34 34 0.20
35 67 0.39
36 10 0.06
37 10 0.06
38 7 0.04
39 18 0.10
40 27 0.16
41 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.32
Consensus pattern (34 bp):
ACTAGAGCTGGGCACAATATTGTCGGTTTATCCA
Found at i:38064607 original size:35 final size:35
Alignment explanation
Indices: 38064528--38064681 Score: 125
Period size: 35 Copynumber: 4.3 Consensus size: 35
38064518 AGTTTATTTG
* * *
38064528 ACTAGTGCTGGGCAC--ATATTCGTCGGTTTATCCG
1 ACTAGAGCTGGGCACAAATATT-GTTGGTTTATCCA
* *
38064562 ACTTGCGCTGGGCACAAATATTGTTGGTTTATCCA
1 ACTAGAGCTGGGCACAAATATTGTTGGTTTATCCA
* *
38064597 ACTAGAGCTGGGCTCACCATTTATTTTGTTGGTTTATCCA
1 ACTAGAGCTGGG--CA-CA--AATATTGTTGGTTTATCCA
* ** *
38064637 AATAGCA-CTGGGCACAAATAACGTTGCTTTATCCA
1 ACTAG-AGCTGGGCACAAATATTGTTGGTTTATCCA
38064672 ACTAGAGCTG
1 ACTAGAGCTG
38064682 CGCTCACTAA
Statistics
Matches: 96, Mismatches: 15, Indels: 17
0.75 0.12 0.13
Matches are distributed among these distances:
34 14 0.15
35 42 0.44
36 5 0.05
37 4 0.04
38 4 0.04
40 26 0.27
41 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.32
Consensus pattern (35 bp):
ACTAGAGCTGGGCACAAATATTGTTGGTTTATCCA
Found at i:38064652 original size:75 final size:74
Alignment explanation
Indices: 38064544--38064723 Score: 225
Period size: 75 Copynumber: 2.4 Consensus size: 74
38064534 GCTGGGCACA
* * * * ** * *
38064544 TATTCGTCGGTTTATCCGACTTGCGCTGGGCACAAATATTGTTGGTTTATCCAACTAGAGCTGGG
1 TATTCGTCGGTTTATCCAAATAGCACTGGGCACAAATAACGTTGCTTTATCCAACTAGAGCTGCG
*
38064609 CTCACCATT
66 CTCACCAAT
* *
38064618 TATTTTGTTGGTTTATCCAAATAGCACTGGGCACAAATAACGTTGCTTTATCCAACTAGAGCTGC
1 TA-TTCGTCGGTTTATCCAAATAGCACTGGGCACAAATAACGTTGCTTTATCCAACTAGAGCTGC
*
38064683 GCTCACTAAT
65 GCTCACCAAT
* *
38064693 TATTCGTCGGTTTATCCGACTAGCACTGGGC
1 TATTCGTCGGTTTATCCAAATAGCACTGGGC
38064724 GTAACTTCCG
Statistics
Matches: 89, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
74 27 0.30
75 62 0.70
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (74 bp):
TATTCGTCGGTTTATCCAAATAGCACTGGGCACAAATAACGTTGCTTTATCCAACTAGAGCTGCG
CTCACCAAT
Found at i:38069199 original size:27 final size:27
Alignment explanation
Indices: 38069154--38069238 Score: 98
Period size: 27 Copynumber: 3.1 Consensus size: 27
38069144 GAGACTATCC
* * *
38069154 TTCATAGTTTGCCATAAAGGCTTTTCT
1 TTCATAATTCGCCAAAAAGGCTTTTCT
* * *
38069181 TTCATGATTCGCTAAAAAGCCTTTTCT
1 TTCATAATTCGCCAAAAAGGCTTTTCT
*
38069208 TTCATAATTCGCCACAAAGGCTTTTCCT
1 TTCATAATTCGCCAAAAAGGCTTTT-CT
38069236 TTC
1 TTC
38069239 TTGACATGCT
Statistics
Matches: 47, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
27 42 0.89
28 5 0.11
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.41
Consensus pattern (27 bp):
TTCATAATTCGCCAAAAAGGCTTTTCT
Found at i:38074040 original size:11 final size:11
Alignment explanation
Indices: 38074024--38074048 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
38074014 ACCCGCCTAC
38074024 AATAGTAGATA
1 AATAGTAGATA
38074035 AATAGTAGATA
1 AATAGTAGATA
38074046 AAT
1 AAT
38074049 GCAGTTTGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.16, T:0.28
Consensus pattern (11 bp):
AATAGTAGATA
Found at i:38074712 original size:27 final size:27
Alignment explanation
Indices: 38074689--38074917 Score: 243
Period size: 27 Copynumber: 8.5 Consensus size: 27
38074679 AGGGGTATAA
* *
38074689 CAGTCATTTTACCTTATGATGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
* *
38074716 C-GATCATTTTACCCTATGAAGGCATTT
1 CAG-TCATTTTACCCTATGAGGGTATTT
*
38074743 C-GATCATTTTACCTTATG-GTGGTATTT
1 CAG-TCATTTTACCCTATGAG-GGTATTT
38074770 CAGTCATTTTACCCTAT-AGGGGTATTT
1 CAGTCATTTTACCCTATGA-GGGTATTT
*
38074797 CAGTCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
* *
38074824 CGGTCATTTTACCCTATGAGAGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
* * *
38074851 CGGTCATTTTACCCTTTGAGGGTTTTT
1 CAGTCATTTTACCCTATGAGGGTATTT
* *
38074878 C-GTTTATTTTACCCTATGGGGGTATTT
1 CAG-TCATTTTACCCTATGAGGGTATTT
* *
38074905 CGGTTATTTTACC
1 CAGTCATTTTACC
38074918 TATTTTAGGG
Statistics
Matches: 176, Mismatches: 18, Indels: 16
0.84 0.09 0.08
Matches are distributed among these distances:
26 2 0.01
27 171 0.97
28 3 0.02
ACGTcount: A:0.19, C:0.18, G:0.19, T:0.44
Consensus pattern (27 bp):
CAGTCATTTTACCCTATGAGGGTATTT
Found at i:38074804 original size:81 final size:81
Alignment explanation
Indices: 38074689--38074918 Score: 286
Period size: 81 Copynumber: 2.8 Consensus size: 81
38074679 AGGGGTATAA
* * ** * *
38074689 CAGTCATTTTACCTTATGATGGTATTTCGATCATTTTACCCTATGAAGGCATTTCGATCATTTTA
1 CAGTCATTTTACCCTATGAGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCGGTCATTTTA
*
38074754 CCTTATG-GTGGTATTT
66 CCTTATGAG-AGTATTT
38074770 CAGTCATTTTACCCTAT-AGGGGTATTTC-AGTCATTTTACCCTATGGGGGTATTTCGGTCATTT
1 CAGTCATTTTACCCTATGA-GGGTATTTCGA-TCATTTTACCCTATGGGGGTATTTCGGTCATTT
*
38074833 TACCCTATGAGAGTATTT
64 TACCTTATGAGAGTATTT
* * * * * *
38074851 CGGTCATTTTACCCTTTGAGGGTTTTTCGTTTATTTTACCCTATGGGGGTATTTCGGTTATTTTA
1 CAGTCATTTTACCCTATGAGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCGGTCATTTTA
38074916 CCT
66 CCT
38074919 ATTTTAGGGT
Statistics
Matches: 129, Mismatches: 15, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
80 2 0.02
81 125 0.97
82 2 0.02
ACGTcount: A:0.19, C:0.18, G:0.19, T:0.44
Consensus pattern (81 bp):
CAGTCATTTTACCCTATGAGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCGGTCATTTTA
CCTTATGAGAGTATTT
Found at i:38084966 original size:25 final size:26
Alignment explanation
Indices: 38084920--38084988 Score: 79
Period size: 27 Copynumber: 2.7 Consensus size: 26
38084910 TCCTGTATAT
* * *
38084920 GTATGCTCACACGAGTTGTG-AATCG
1 GTATGCTCACACGAGCTATGAAATAG
38084945 GTATGCTCACACGAGCTATGAAAATAG
1 GTATGCTCACACGAGCTATG-AAATAG
38084972 GCT-TGCTCACACGAGCT
1 G-TATGCTCACACGAGCT
38084989 GTGGGTCGGA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
25 18 0.47
27 19 0.50
28 1 0.03
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.25
Consensus pattern (26 bp):
GTATGCTCACACGAGCTATGAAATAG
Found at i:38085228 original size:26 final size:26
Alignment explanation
Indices: 38085190--38085239 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
38085180 ATATACAATT
*
38085190 GGTATGTACGTATAGCAATTTACATC
1 GGTATGTACGTATAACAATTTACATC
*
38085216 GGTATGTATGTATAACAATTTACA
1 GGTATGTACGTATAACAATTTACA
38085240 GTACAAGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (26 bp):
GGTATGTACGTATAACAATTTACATC
Found at i:38092837 original size:43 final size:43
Alignment explanation
Indices: 38092788--38092904 Score: 171
Period size: 43 Copynumber: 2.7 Consensus size: 43
38092778 GAATCATATA
* *
38092788 CGATGCCAATGTCCTAGACATGGTCTTACACATTTTCTCACTT
1 CGATGCCAATGTCCCAGACATGGTCTTACACATTTTCTAACTT
* **
38092831 CGATGCCAACGTCCCAGACATGGTCTTACATGTTTTCTAACTT
1 CGATGCCAATGTCCCAGACATGGTCTTACACATTTTCTAACTT
* *
38092874 CGATGCCGATGTCCCAAACATGGTCTTACAC
1 CGATGCCAATGTCCCAGACATGGTCTTACAC
38092905 GAAATCACAC
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 65 1.00
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (43 bp):
CGATGCCAATGTCCCAGACATGGTCTTACACATTTTCTAACTT
Found at i:38093081 original size:31 final size:31
Alignment explanation
Indices: 38093059--38093172 Score: 167
Period size: 31 Copynumber: 3.7 Consensus size: 31
38093049 TCAATATATG
38093059 AATCAAATTCGGCAATGTATATCTC-TATACA
1 AATCAAATTCGGCAATGTATATC-CATATACA
*
38093090 AATCAAATTCGGCAATGAATATCCATATACA
1 AATCAAATTCGGCAATGTATATCCATATACA
* * *
38093121 AATCAAATTCAGCAATGTATAACCATATATA
1 AATCAAATTCGGCAATGTATATCCATATACA
*
38093152 AATCAAATTTGGCAATGTATA
1 AATCAAATTCGGCAATGTATA
38093173 AAACATATTC
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
30 1 0.01
31 74 0.99
ACGTcount: A:0.44, C:0.17, G:0.10, T:0.30
Consensus pattern (31 bp):
AATCAAATTCGGCAATGTATATCCATATACA
Found at i:38093118 original size:62 final size:62
Alignment explanation
Indices: 38093027--38093168 Score: 180
Period size: 62 Copynumber: 2.3 Consensus size: 62
38093017 ATCTAATGCT
** ** * *
38093027 CAAATC-AATTTGGCAACAAATATCAATATATGAATCAAATTCGGCAATGTATATCTC-TATA
1 CAAATCAAATTTGGCAATGAATATCAATATACAAATCAAATTCAGCAATGTATAAC-CATATA
* *
38093088 CAAATCAAATTCGGCAATGAATATCCATATACAAATCAAATTCAGCAATGTATAACCATATA
1 CAAATCAAATTTGGCAATGAATATCAATATACAAATCAAATTCAGCAATGTATAACCATATA
*
38093150 TAAATCAAATTTGGCAATG
1 CAAATCAAATTTGGCAATG
38093169 TATAAAACAT
Statistics
Matches: 69, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
61 7 0.10
62 62 0.90
ACGTcount: A:0.44, C:0.17, G:0.10, T:0.29
Consensus pattern (62 bp):
CAAATCAAATTTGGCAATGAATATCAATATACAAATCAAATTCAGCAATGTATAACCATATA
Found at i:38096181 original size:31 final size:31
Alignment explanation
Indices: 38096146--38096252 Score: 99
Period size: 31 Copynumber: 3.5 Consensus size: 31
38096136 GTGTAAAGGC
* *
38096146 TATGAAAATGAAAACGTGAATGATTATAGGG
1 TATGAAAATGAAAATGTGAATGATTACAGGG
* * **
38096177 TATG-ATATGTAAATGTGAATGAAGACAGGG
1 TATGAAAATGAAAATGTGAATGATTACAGGG
* * * *
38096207 TATGAATATGAAAATATGAATTATTACAGAG
1 TATGAAAATGAAAATGTGAATGATTACAGGG
* *
38096238 TATGATAATGCAAAT
1 TATGAAAATGAAAAT
38096253 ATGAGTATTT
Statistics
Matches: 60, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
30 24 0.40
31 36 0.60
ACGTcount: A:0.45, C:0.04, G:0.22, T:0.29
Consensus pattern (31 bp):
TATGAAAATGAAAATGTGAATGATTACAGGG
Found at i:38096195 original size:30 final size:30
Alignment explanation
Indices: 38096153--38096244 Score: 103
Period size: 30 Copynumber: 3.0 Consensus size: 30
38096143 GGCTATGAAA
* *
38096153 ATGAAAACGTGAATGATTATAGGGTATGAT
1 ATGAAAATGTGAATGATTACAGGGTATGAT
* **
38096183 ATGTAAATGTGAATGAAGACAGGGTATGAAT
1 ATGAAAATGTGAATGATTACAGGGTATG-AT
* * *
38096214 ATGAAAATATGAATTATTACAGAGTATGAT
1 ATGAAAATGTGAATGATTACAGGGTATGAT
38096244 A
1 A
38096245 ATGCAAATAT
Statistics
Matches: 50, Mismatches: 11, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
30 26 0.52
31 24 0.48
ACGTcount: A:0.43, C:0.03, G:0.24, T:0.29
Consensus pattern (30 bp):
ATGAAAATGTGAATGATTACAGGGTATGAT
Found at i:38098702 original size:15 final size:15
Alignment explanation
Indices: 38098682--38098714 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
38098672 GATTTCTTGT
38098682 TTTTCATTTATTTAC
1 TTTTCATTTATTTAC
*
38098697 TTTTCATTTATTTCC
1 TTTTCATTTATTTAC
38098712 TTT
1 TTT
38098715 CTTATTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTCATTTATTTAC
Found at i:38101019 original size:25 final size:25
Alignment explanation
Indices: 38100991--38101042 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
38100981 TGACCCATAG
38100991 CTCGTATGAGCATTTACAGGTACAA
1 CTCGTATGAGCATTTACAGGTACAA
* * * *
38101016 CTCGTGTGAGCCTTTACTGTTACAA
1 CTCGTATGAGCATTTACAGGTACAA
38101041 CT
1 CT
38101043 TGTGCGAGCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (25 bp):
CTCGTATGAGCATTTACAGGTACAA
Found at i:38102239 original size:20 final size:20
Alignment explanation
Indices: 38102198--38102250 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
38102188 ATAATTTTGT
** *
38102198 TTAGTATCGATATTTTCTAA
1 TTAGTATCGATACATTCAAA
*
38102218 TTTGTATCGATACATTCAAA
1 TTAGTATCGATACATTCAAA
*
38102238 TTAATATCGATAC
1 TTAGTATCGATAC
38102251 TTTGAATTGG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.34, C:0.13, G:0.09, T:0.43
Consensus pattern (20 bp):
TTAGTATCGATACATTCAAA
Found at i:38103903 original size:14 final size:13
Alignment explanation
Indices: 38103879--38103925 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
38103869 ATCAGCATAG
38103879 TTTAAGTTAATTAA
1 TTTAA-TTAATTAA
*
38103893 TTTAATATAATTAG
1 TTTAAT-TAATTAA
*
38103907 TTTAATTAA-TAC
1 TTTAATTAATTAA
38103919 TTTAATT
1 TTTAATT
38103926 TTGATTCACA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 9 0.30
13 4 0.13
14 17 0.57
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.53
Consensus pattern (13 bp):
TTTAATTAATTAA
Found at i:38108744 original size:3 final size:3
Alignment explanation
Indices: 38108736--38108761 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
38108726 CGTAATTACT
38108736 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
38108762 TAAAAATCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:38109320 original size:6 final size:6
Alignment explanation
Indices: 38109309--38109341 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
38109299 CATTTCTGAT
38109309 CATTGC CATTGC CATTGC CATTGC CATTGC CAT
1 CATTGC CATTGC CATTGC CATTGC CATTGC CAT
38109342 GGCTACAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.18, C:0.33, G:0.15, T:0.33
Consensus pattern (6 bp):
CATTGC
Found at i:38110982 original size:23 final size:23
Alignment explanation
Indices: 38110956--38111002 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
38110946 TAATGGACAC
* *
38110956 TATGGAACCT-CATCCATTGTCAT
1 TATGCAACCTCCA-CCATTCTCAT
38110979 TATGCAACCTCCACCATTCTCAT
1 TATGCAACCTCCACCATTCTCAT
38111002 T
1 T
38111003 GATAACTATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 19 0.90
24 2 0.10
ACGTcount: A:0.26, C:0.32, G:0.09, T:0.34
Consensus pattern (23 bp):
TATGCAACCTCCACCATTCTCAT
Found at i:38112727 original size:7 final size:7
Alignment explanation
Indices: 38112715--38112739 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
38112705 CATAGGTTGT
38112715 TTTTAAA
1 TTTTAAA
38112722 TTTTAAA
1 TTTTAAA
38112729 TTTTAAA
1 TTTTAAA
38112736 TTTT
1 TTTT
38112740 CTATGATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (7 bp):
TTTTAAA
Found at i:38120975 original size:17 final size:18
Alignment explanation
Indices: 38120955--38120993 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
38120945 TTTAGAAAGG
*
38120955 TATTTGATTTAATA-ATT
1 TATTTGATTTAAGAGATT
*
38120972 TATTTTATTTAAGAGATT
1 TATTTGATTTAAGAGATT
38120990 TATT
1 TATT
38120994 AAGTTCAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (18 bp):
TATTTGATTTAAGAGATT
Found at i:38122194 original size:40 final size:40
Alignment explanation
Indices: 38122120--38122317 Score: 209
Period size: 40 Copynumber: 5.0 Consensus size: 40
38122110 TAAATTATTA
* * *
38122120 CACTTACGTGCCCCTGTTTCTACTTCAGTACCCCTGATTG
1 CACTTACGTGCCCCTGTTTGTACTTCGGTACCCCTAATTG
* * * * * *
38122160 CATTTACGTGCCCCTATTTGTTCTTTGGTGCCCCTAATGG
1 CACTTACGTGCCCCTGTTTGTACTTCGGTACCCCTAATTG
* * *
38122200 CACTTACATGCCCCTGTTTGTACTTTGGTACCCCTTATTG
1 CACTTACGTGCCCCTGTTTGTACTTCGGTACCCCTAATTG
* *
38122240 TACTTACGTGCCCCTGTTTGTACTTCGGTACCCCTAAATG
1 CACTTACGTGCCCCTGTTTGTACTTCGGTACCCCTAATTG
* * * * *
38122280 CACAT-CTGTGCCCCTATTTGCACTTCGGTGCCTCTAAT
1 CACTTAC-GTGCCCCTGTTTGTACTTCGGTACCCCTAAT
38122318 CCCACATTGG
Statistics
Matches: 129, Mismatches: 28, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
39 1 0.01
40 128 0.99
ACGTcount: A:0.15, C:0.31, G:0.17, T:0.37
Consensus pattern (40 bp):
CACTTACGTGCCCCTGTTTGTACTTCGGTACCCCTAATTG
Found at i:38122224 original size:20 final size:20
Alignment explanation
Indices: 38122121--38122264 Score: 103
Period size: 20 Copynumber: 7.2 Consensus size: 20
38122111 AAATTATTAC
*
38122121 ACTTACGTGCCCCTGTTTCT
1 ACTTACGTGCCCCTGTTTGT
* * *
38122141 ACTT-CAGTACCCCTGATTGC
1 ACTTAC-GTGCCCCTGTTTGT
* *
38122161 ATTTACGTGCCCCTATTTGT
1 ACTTACGTGCCCCTGTTTGT
* ** ** * *
38122181 TCTTTGGTGCCCCTAATGGC
1 ACTTACGTGCCCCTGTTTGT
*
38122201 ACTTACATGCCCCTGTTTGT
1 ACTTACGTGCCCCTGTTTGT
** *
38122221 ACTTTGGTACCCCT-TATTGT
1 ACTTACGTGCCCCTGT-TTGT
38122241 ACTTACGTGCCCCTGTTTGT
1 ACTTACGTGCCCCTGTTTGT
38122261 ACTT
1 ACTT
38122265 CGGTACCCCT
Statistics
Matches: 89, Mismatches: 31, Indels: 8
0.70 0.24 0.06
Matches are distributed among these distances:
19 2 0.02
20 85 0.96
21 2 0.02
ACGTcount: A:0.14, C:0.30, G:0.17, T:0.40
Consensus pattern (20 bp):
ACTTACGTGCCCCTGTTTGT
Found at i:38122310 original size:20 final size:20
Alignment explanation
Indices: 38122167--38122362 Score: 87
Period size: 20 Copynumber: 9.8 Consensus size: 20
38122157 TTGCATTTAC
** *
38122167 GTGCCCCTATTTGTTCTTTG
1 GTGCCCCTATTTGCACTTCG
* *
38122187 GTGCCCCTAATGGCACTTAC-
1 GTGCCCCTATTTGCACTT-CG
* * * *
38122207 ATGCCCCTGTTTGTACTTTG
1 GTGCCCCTATTTGCACTTCG
* *
38122227 GTACCCCT-TATTGTACTTAC-
1 GTGCCCCTAT-TTGCACTT-CG
* *
38122247 GTGCCCCTGTTTGTACTTCG
1 GTGCCCCTATTTGCACTTCG
* ** * *
38122267 GTACCCCTAAATGCACATCT
1 GTGCCCCTATTTGCACTTCG
38122287 GTGCCCCTATTTGCACTTCG
1 GTGCCCCTATTTGCACTTCG
* * **
38122307 GTGCCTCTAATCCCACATT-G
1 GTGCCCCTATTTGCAC-TTCG
* *
38122327 GTGCTCCT-TATTGCACTTTG
1 GTGCCCCTAT-TTGCACTTCG
38122347 GTGCCCCTATTATGCA
1 GTGCCCCTATT-TGCA
38122363 TCTATGATGC
Statistics
Matches: 128, Mismatches: 37, Indels: 21
0.69 0.20 0.11
Matches are distributed among these distances:
19 4 0.03
20 116 0.91
21 8 0.06
ACGTcount: A:0.15, C:0.31, G:0.18, T:0.37
Consensus pattern (20 bp):
GTGCCCCTATTTGCACTTCG
Found at i:38122324 original size:40 final size:39
Alignment explanation
Indices: 38122247--38122355 Score: 105
Period size: 40 Copynumber: 2.7 Consensus size: 39
38122237 TTGTACTTAC
* * *
38122247 GTGCCCCTGTTTGTACTTCGGTACCCCTAAATGCACATCT-
1 GTGCCCCT-TTTGCACTTCGGTGCCCCTAAATCCACAT-TG
*
38122287 GTGCCCCTATTTGCACTTCGGTGCCTCT-AATCCCACATTG
1 GTGCCCCT-TTTGCACTTCGGTGCCCCTAAAT-CCACATTG
* *
38122327 GTGCTCCTTATTGCACTTTGGTGCCCCTA
1 GTGCCCCTT-TTGCACTTCGGTGCCCCTA
38122356 TTATGCATCT
Statistics
Matches: 57, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
39 5 0.09
40 52 0.91
ACGTcount: A:0.15, C:0.33, G:0.18, T:0.34
Consensus pattern (39 bp):
GTGCCCCTTTTGCACTTCGGTGCCCCTAAATCCACATTG
Found at i:38130287 original size:10 final size:10
Alignment explanation
Indices: 38130256--38130300 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
38130246 TTTTATTTTT
38130256 AAAATCATTAA
1 AAAATCATT-A
*
38130267 AAAACCA-TA
1 AAAATCATTA
38130276 AAAATCATTA
1 AAAATCATTA
*
38130286 AAAATTATTA
1 AAAATCATTA
38130296 AAAAT
1 AAAAT
38130301 AATATAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
9 7 0.23
10 17 0.57
11 6 0.20
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.27
Consensus pattern (10 bp):
AAAATCATTA
Found at i:38130297 original size:20 final size:19
Alignment explanation
Indices: 38130256--38130318 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 19
38130246 TTTTATTTTT
**
38130256 AAAATCATTAAAAAACCATA
1 AAAATCATT-AAAAATTATA
38130276 AAAATCATTAAAAATTATTA
1 AAAATCATTAAAAATTA-TA
*
38130296 AAAAT-AATATAAAATTATA
1 AAAATCATTA-AAAATTATA
38130315 AAAA
1 AAAA
38130319 AAATACTTCT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
19 15 0.39
20 23 0.61
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (19 bp):
AAAATCATTAAAAATTATA
Found at i:38130574 original size:10 final size:10
Alignment explanation
Indices: 38130561--38130619 Score: 61
Period size: 10 Copynumber: 6.2 Consensus size: 10
38130551 AGAAAAGTGA
38130561 AAAAAATTAT
1 AAAAAATTAT
*
38130571 AAAAAATTAC
1 AAAAAATTAT
38130581 AAAAAA-TAT
1 AAAAAATTAT
*
38130590 TAAAAATTAT
1 AAAAAATTAT
* *
38130600 ATAAAAGTA-
1 AAAAAATTAT
38130609 AAAAAA-TAT
1 AAAAAATTAT
38130618 AA
1 AA
38130620 TTTTTTATTA
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
8 2 0.05
9 14 0.35
10 24 0.60
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:38130594 original size:29 final size:28
Alignment explanation
Indices: 38130524--38130617 Score: 86
Period size: 28 Copynumber: 3.4 Consensus size: 28
38130514 CTAAAATACC
*
38130524 AAAAAAA-ATTAAATATTATAAAAATA-T
1 AAAAAAATATTAAAAATTATAAAAA-AGT
* * * *
38130551 AGAAAAGTGA-AAAAAATTATAAAAAATT
1 AAAAAAAT-ATTAAAAATTATAAAAAAGT
*
38130579 ACAAAAAATATTAAAAATTATATAAAAGT
1 A-AAAAAATATTAAAAATTATAAAAAAGT
38130608 AAAAAAATAT
1 AAAAAAATAT
38130618 AATTTTTTAT
Statistics
Matches: 53, Mismatches: 9, Indels: 9
0.75 0.13 0.13
Matches are distributed among these distances:
27 6 0.11
28 25 0.47
29 22 0.42
ACGTcount: A:0.69, C:0.01, G:0.04, T:0.26
Consensus pattern (28 bp):
AAAAAAATATTAAAAATTATAAAAAAGT
Found at i:38130597 original size:19 final size:18
Alignment explanation
Indices: 38130524--38130598 Score: 64
Period size: 19 Copynumber: 4.1 Consensus size: 18
38130514 CTAAAATACC
*
38130524 AAAAAAA-ATTAAATATT
1 AAAAAAATATTAAAAATT
* *
38130541 ATAAAAATA-TAGAAAAGTG
1 AAAAAAATATTA-AAAA-TT
*
38130560 AAAAAAATTATAAAAAATT
1 AAAAAAA-TATTAAAAATT
38130579 ACAAAAAATATTAAAAATT
1 A-AAAAAATATTAAAAATT
38130598 A
1 A
38130599 TATAAAAGTA
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
17 8 0.18
18 4 0.09
19 20 0.44
20 12 0.27
21 1 0.02
ACGTcount: A:0.69, C:0.01, G:0.04, T:0.25
Consensus pattern (18 bp):
AAAAAAATATTAAAAATT
Found at i:38130964 original size:17 final size:18
Alignment explanation
Indices: 38130944--38130980 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
38130934 TTAAAAATTC
*
38130944 ATAATTTTTA-CATTTTT
1 ATAATTTATATCATTTTT
38130961 ATAATTTATATCATTTTT
1 ATAATTTATATCATTTTT
38130979 AT
1 AT
38130981 TTTTAATGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.62
Consensus pattern (18 bp):
ATAATTTATATCATTTTT
Found at i:38131036 original size:19 final size:17
Alignment explanation
Indices: 38131009--38131058 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
38130999 GTTTTAGCAA
*
38131009 ATTTA-AATTATTTTTAT
1 ATTTATAATTATTTTT-C
38131026 AGTTTATAATT-TTTTTC
1 A-TTTATAATTATTTTTC
*
38131043 ATTTATAATAATTTTT
1 ATTTATAATTATTTTT
38131059 TTATAAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
16 8 0.29
17 7 0.25
18 9 0.32
19 4 0.14
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (17 bp):
ATTTATAATTATTTTTC
Found at i:38131108 original size:19 final size:19
Alignment explanation
Indices: 38131010--38131170 Score: 73
Period size: 19 Copynumber: 8.3 Consensus size: 19
38131000 TTTTAGCAAA
*
38131010 TTTAA-ATTATTTTTATAGT
1 TTTAATATT-TTTTTATAAT
*
38131029 TTATAAT-TTTTTTCAT--T
1 TT-TAATATTTTTTTATAAT
*
38131046 TATAATAATTTTTTTATAAAT
1 TTTAAT-ATTTTTTTAT-AAT
** *
38131067 TTCT-ATATATTTTTT-GCAC
1 TT-TAATAT-TTTTTTATAAT
38131086 TTTAATATTTTTTTATAAT
1 TTTAATATTTTTTTATAAT
* *
38131105 TTTAAAATTTCTTTATAAT
1 TTTAATATTTTTTTATAAT
* *** *
38131124 TTTTATATAAACTTTATGAT
1 TTTAATAT-TTTTTTATAAT
*
38131144 TTTGTATAATTTTTTTATAAT
1 TTT-AAT-ATTTTTTTATAAT
38131165 TTTAAT
1 TTTAAT
38131171 TATAAAATAC
Statistics
Matches: 106, Mismatches: 22, Indels: 27
0.68 0.14 0.17
Matches are distributed among these distances:
16 4 0.04
17 2 0.02
18 15 0.14
19 39 0.37
20 20 0.19
21 23 0.22
22 3 0.03
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (19 bp):
TTTAATATTTTTTTATAAT
Done.