Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 46 of 163
Found at i:11491848 original size:12 final size:12
Alignment explanation
Indices: 11491816--11491906 Score: 83
Period size: 12 Copynumber: 6.9 Consensus size: 12
11491806 TTTCATTCAT
11491816 TTATTATTAATA
1 TTATTATTAATA
*
11491828 TTAAAATTATTATTA
1 TT---ATTATTAATA
* *
11491843 CTATTATTAATG
1 TTATTATTAATA
11491855 TTATTCATTACCATCA
1 TTATT-ATTA--AT-A
11491871 TTTATTATTAATA
1 -TTATTATTAATA
11491884 TTATTATTAATA
1 TTATTATTAATA
11491896 TTATTATTAAT
1 TTATTATTAAT
11491907 TTGAATAGTT
Statistics
Matches: 65, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
12 37 0.57
13 5 0.08
14 2 0.03
15 12 0.18
16 4 0.06
17 5 0.08
ACGTcount: A:0.38, C:0.05, G:0.01, T:0.55
Consensus pattern (12 bp):
TTATTATTAATA
Found at i:11491940 original size:22 final size:21
Alignment explanation
Indices: 11491889--11491941 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
11491879 TAATATTATT
* **
11491889 ATTAATATTATTATTAATTTG
1 ATTATTATTATTATTAATAAG
*
11491910 AATAGTTATTATTATTAATAAAG
1 ATTA-TTATTATTATTAAT-AAG
11491933 ATTATTATT
1 ATTATTATT
11491942 TCAAAGCAGT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 3 0.12
22 18 0.72
23 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (21 bp):
ATTATTATTATTATTAATAAG
Found at i:11491941 original size:3 final size:3
Alignment explanation
Indices: 11491816--11491926 Score: 62
Period size: 3 Copynumber: 36.0 Consensus size: 3
11491806 TTTCATTCAT
* ** * * *
11491816 TTA TTA TTA ATA TTA AAA TTA TTA TTA CTA TTA TTA ATG TTA TTCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A
** * * *
11491862 TTA CCA TCA TTTA TTA TTA ATA TTA TTA TTA ATA TTA TTA TTAA TT-
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA
* *
11491908 TGA ATA GTTA TTA TTA TTA
1 TTA TTA -TTA TTA TTA TTA
11491927 ATAAAGATTA
Statistics
Matches: 79, Mismatches: 24, Indels: 10
0.70 0.21 0.09
Matches are distributed among these distances:
2 1 0.01
3 68 0.86
4 10 0.13
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.55
Consensus pattern (3 bp):
TTA
Found at i:11492746 original size:35 final size:34
Alignment explanation
Indices: 11492707--11492796 Score: 110
Period size: 35 Copynumber: 2.6 Consensus size: 34
11492697 TGTTTATAAC
*
11492707 AAATTTAAATTTAAATATAAATCTAAACTTAAATT
1 AAATTTAAATTTAAA-ATAAATCTAAACTTAAAAT
* * *
11492742 AAATTTAAATTTTAAAACAAATTTAAATTTAAAAT
1 AAATTTAAA-TTTAAAATAAATCTAAACTTAAAAT
*
11492777 -AATTTAAATTCAAAATAAAT
1 AAATTTAAATTTAAAATAAAT
11492797 TTAATTTTAA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
33 10 0.21
34 8 0.17
35 24 0.50
36 6 0.12
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (34 bp):
AAATTTAAATTTAAAATAAATCTAAACTTAAAAT
Found at i:11492750 original size:17 final size:17
Alignment explanation
Indices: 11492707--11492809 Score: 127
Period size: 17 Copynumber: 6.0 Consensus size: 17
11492697 TGTTTATAAC
11492707 AAATTTAAATTTAAATAT
1 AAATTTAAATTTAAA-AT
* * *
11492725 AAATCTAAACTTAAATT
1 AAATTTAAATTTAAAAT
*
11492742 AAATTTAAATTTTAAAAC
1 AAATTTAAA-TTTAAAAT
11492760 AAATTTAAATTTAAAAT
1 AAATTTAAATTTAAAAT
*
11492777 -AATTTAAATTCAAAAT
1 AAATTTAAATTTAAAAT
*
11492793 AAATTTAATTTTAAAAT
1 AAATTTAAATTTAAAAT
11492810 GAGTTTTAAT
Statistics
Matches: 72, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
16 15 0.21
17 30 0.42
18 27 0.38
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATTTAAATTTAAAAT
Found at i:11492757 original size:7 final size:6
Alignment explanation
Indices: 11492707--11492807 Score: 77
Period size: 6 Copynumber: 17.5 Consensus size: 6
11492697 TGTTTATAAC
* * *
11492707 AAATTT AAATTT AAATAT AAATCT AAACTT AAA-TT AAATTT AAATTTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAA-TTT
** * * *
11492755 AAA-AC AAATTT AAATTT AAA-AT -AATTT AAATTC AAA-AT AAATTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
*
11492799 AATTTT AAA
1 AAATTT AAA
11492808 ATGAGTTTTA
Statistics
Matches: 73, Mismatches: 16, Indels: 12
0.72 0.16 0.12
Matches are distributed among these distances:
4 2 0.03
5 13 0.18
6 52 0.71
7 6 0.08
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (6 bp):
AAATTT
Found at i:11492767 original size:29 final size:29
Alignment explanation
Indices: 11492711--11492770 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
11492701 TATAACAAAT
*
11492711 TTAAATTTAAATATAAATCTAAACTTAAA
1 TTAAATTTAAATATAAAACTAAACTTAAA
* *
11492740 TTAAATTTAAATTTTAAAAC-AAATTTAAA
1 TTAAATTTAAA-TATAAAACTAAACTTAAA
11492769 TT
1 TT
11492771 TAAAATAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 21 0.78
30 6 0.22
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (29 bp):
TTAAATTTAAATATAAAACTAAACTTAAA
Found at i:11493639 original size:49 final size:49
Alignment explanation
Indices: 11493586--11493742 Score: 135
Period size: 49 Copynumber: 3.2 Consensus size: 49
11493576 GCTTAGATCT
11493586 TTCCCTTCATGTCTCTGAGGTACAAGGTTCATCGTTGCGACTTAAACCC
1 TTCCCTTCATGTCTCTGAGGTACAAGGTTCATCGTTGCGACTTAAACCC
* * * * * * ***
11493635 TTCCCTT--TGTC-CTTGTGGTAC-TGGATCCACCGTTGCGGCTTAGATAT
1 TTCCCTTCATGTCTC-TGAGGTACAAGG-TTCATCGTTGCGACTTAAACCC
* * *
11493682 TTCCCTTCATG-CTTCTAAGGTACAAGGTTCGTCATTGCGACTTAAACCC
1 TTCCCTTCATGTC-TCTGAGGTACAAGGTTCATCGTTGCGACTTAAACCC
*
11493731 TTCCCTCCATGT
1 TTCCCTTCATGT
11493743 TTCGTGGTTC
Statistics
Matches: 78, Mismatches: 22, Indels: 15
0.68 0.19 0.13
Matches are distributed among these distances:
46 3 0.04
47 33 0.42
48 1 0.01
49 38 0.49
50 3 0.04
ACGTcount: A:0.18, C:0.29, G:0.18, T:0.35
Consensus pattern (49 bp):
TTCCCTTCATGTCTCTGAGGTACAAGGTTCATCGTTGCGACTTAAACCC
Found at i:11493720 original size:96 final size:96
Alignment explanation
Indices: 11493555--11493736 Score: 276
Period size: 96 Copynumber: 1.9 Consensus size: 96
11493545 GTATCTTTGC
* * * *
11493555 GGTACTAGATCCACTATTGCAGCTTAGATCTTTCCCTTCATGTCTCTGAGGTACAAGGTTCATCG
1 GGTACTAGATCCACCATTGCAGCTTAGATATTTCCCTTCATGTCTCTAAGGTACAAGGTTCATCA
11493620 TTGCGACTTAAACCCTTCCCTTTGTCCTTGT
66 TTGCGACTTAAACCCTTCCCTTTGTCCTTGT
* * * *
11493651 GGTACTGGATCCACCGTTGCGGCTTAGATATTTCCCTTCATG-CTTCTAAGGTACAAGGTTCGTC
1 GGTACTAGATCCACCATTGCAGCTTAGATATTTCCCTTCATGTC-TCTAAGGTACAAGGTTCATC
11493715 ATTGCGACTTAAACCCTTCCCT
65 ATTGCGACTTAAACCCTTCCCT
11493737 CCATGTTTCG
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
95 1 0.01
96 76 0.99
ACGTcount: A:0.19, C:0.27, G:0.19, T:0.35
Consensus pattern (96 bp):
GGTACTAGATCCACCATTGCAGCTTAGATATTTCCCTTCATGTCTCTAAGGTACAAGGTTCATCA
TTGCGACTTAAACCCTTCCCTTTGTCCTTGT
Found at i:11494141 original size:29 final size:29
Alignment explanation
Indices: 11494108--11494167 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
11494098 TGGGCAGTGT
*
11494108 AGGAAAGAATGAGATTGTATTAGAGTTAA
1 AGGAAAGAATGAGATTGTATTAGAGTCAA
11494137 AGGAAAGAATGAGATTGTATTAGAGTCAA
1 AGGAAAGAATGAGATTGTATTAGAGTCAA
11494166 AG
1 AG
11494168 CTTGAAGAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.45, C:0.02, G:0.28, T:0.25
Consensus pattern (29 bp):
AGGAAAGAATGAGATTGTATTAGAGTCAA
Found at i:11498688 original size:30 final size:29
Alignment explanation
Indices: 11498646--11498879 Score: 208
Period size: 30 Copynumber: 8.0 Consensus size: 29
11498636 CATCCGAGGA
*
11498646 TAAAAATAG-AATTTTTGTAAGTTTTAGGG
1 TAAAAAT-GTAATTTTTGGAAGTTTTAGGG
* * **
11498675 TCAAAAATGGAATTTTTAGAAGTTTGGGGG
1 T-AAAAATGTAATTTTTGGAAGTTTTAGGG
*
11498705 TAAAAATGTAATTTTTGGAAGTTTTGGGG
1 TAAAAATGTAATTTTTGGAAGTTTTAGGG
* * * *
11498734 TAAAAAATGGAATTTTTAGAA-TTTCAGGA
1 T-AAAAATGTAATTTTTGGAAGTTTTAGGG
**
11498763 TAAAAATGTAATTTTTGGAAGTTCGAGGG
1 TAAAAATGTAATTTTTGGAAGTTTTAGGG
*
11498792 -AAAAATGTAATTTTTGGAAGTTTTGGGG
1 TAAAAATGTAATTTTTGGAAGTTTTAGGG
* *
11498820 TTAAAAATGTAATTTTAGAGAAG-TTTGGGG
1 -TAAAAATGTAATTTTTG-GAAGTTTTAGGG
* * *
11498850 ATCAAAATATGATTTTTGGATAG-TTTAGGG
1 -TAAAAATGTAATTTTTGGA-AGTTTTAGGG
11498880 ACCTTTATGG
Statistics
Matches: 170, Mismatches: 27, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
28 42 0.25
29 41 0.24
30 83 0.49
31 4 0.02
ACGTcount: A:0.35, C:0.02, G:0.25, T:0.38
Consensus pattern (29 bp):
TAAAAATGTAATTTTTGGAAGTTTTAGGG
Found at i:11498691 original size:59 final size:59
Alignment explanation
Indices: 11498590--11498845 Score: 236
Period size: 59 Copynumber: 4.4 Consensus size: 59
11498580 GTTCGGGGTT
* ** * * * *
11498590 AAAATATAATTTTTAAAAG-TTTCGGGTCAAAAATGGAGTTTTTGGACA-TCCGAGGATA
1 AAAATGTAATTTTTGGAAGTTTTAGGGTCAAAAATGGAATTTTTAGA-AGTTCGAGGATA
* * * *
11498648 AAAATAG-AATTTTTGTAAGTTTTAGGGTCAAAAATGGAATTTTTAGAAGTTTGGGGGTA
1 AAAAT-GTAATTTTTGGAAGTTTTAGGGTCAAAAATGGAATTTTTAGAAGTTCGAGGATA
* * *
11498707 AAAATGTAATTTTTGGAAGTTTTGGGGTAAAAAATGGAATTTTTAGAATTTC-AGGATA
1 AAAATGTAATTTTTGGAAGTTTTAGGGTCAAAAATGGAATTTTTAGAAGTTCGAGGATA
** * * * * *
11498765 AAAATGTAATTTTTGGAAGTTCGAGGG--AAAAATGTAATTTTTGGAAGTTTTGGGGTTA
1 AAAATGTAATTTTTGGAAGTTTTAGGGTCAAAAATGGAATTTTTAGAAG-TTCGAGGATA
*
11498823 AAAATGTAATTTTAGAGAAGTTT
1 AAAATGTAATTTTTG-GAAGTTT
11498846 GGGGATCAAA
Statistics
Matches: 163, Mismatches: 28, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
56 17 0.10
57 2 0.01
58 63 0.39
59 81 0.50
ACGTcount: A:0.37, C:0.03, G:0.23, T:0.37
Consensus pattern (59 bp):
AAAATGTAATTTTTGGAAGTTTTAGGGTCAAAAATGGAATTTTTAGAAGTTCGAGGATA
Found at i:11499979 original size:3 final size:3
Alignment explanation
Indices: 11499931--11499963 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
11499921 ATTACTACTG
11499931 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
11499964 AAACGTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:11500629 original size:11 final size:11
Alignment explanation
Indices: 11500613--11500669 Score: 53
Period size: 11 Copynumber: 5.1 Consensus size: 11
11500603 TTACAATAAT
11500613 ATTAAATTTAA
1 ATTAAATTTAA
*
11500624 ATTAAATTGAA
1 ATTAAATTTAA
11500635 ACTTAAA-TTAA
1 A-TTAAATTTAA
*
11500646 ATTTAATTTCAA
1 ATTAAATTT-AA
**
11500658 AGCAAATTTAA
1 ATTAAATTTAA
11500669 A
1 A
11500670 ATGGTTTGGG
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
10 4 0.11
11 20 0.54
12 13 0.35
ACGTcount: A:0.53, C:0.05, G:0.04, T:0.39
Consensus pattern (11 bp):
ATTAAATTTAA
Found at i:11508772 original size:59 final size:58
Alignment explanation
Indices: 11508694--11509127 Score: 315
Period size: 59 Copynumber: 7.3 Consensus size: 58
11508684 TGGATACCCA
* * * *
11508694 AGGGCAAAATAGTAATTTTGGGAAAGTTCATGGTCAAGAATGGAATTTTTAGACA-TTCG
1 AGGGTAAAAT-GTAATTTTTGGAAAATTCATGGTCAAAAATGGAATTTTTAGA-AGTTCG
* * *
11508753 AGGGTAAAATGGTAA-TTTTGGAAAAATCAGGGTCAAAAAATGGAATTTTTGGAAGTTCG
1 AGGGTAAAAT-GTAATTTTTGGAAAATTCATGGTC-AAAAATGGAATTTTTAGAAGTTCG
* * * * *
11508812 AGGGTAAAATGGTACTTTTTGGAAAAATCAAGGTCAAAAATGGAATTTTTGGAATTTCG
1 AGGGTAAAAT-GTAATTTTTGGAAAATTCATGGTCAAAAATGGAATTTTTAGAAGTTCG
* **** * * *
11508871 GGGGTAAAAATGTAACTTTCAAAAAAATT-GTAGTCAAAAATGGAATTTTT-GAAAGTTTG
1 AGGGT-AAAATGTAA-TTTTTGGAAAATTCATGGTCAAAAATGGAATTTTTAG-AAGTTCG
* * * ** ** *
11508930 GGGGTAAAAATGAAATTTTTAGAATGTTTGTGGTCAAAAATGGGATTTTTAGAAGTTCG
1 AGGGT-AAAATGTAATTTTTGGAAAATTCATGGTCAAAAATGGAATTTTTAGAAGTTCG
* * * * *
11508989 AGGGTAAAACGGTAATTTTTGGAAAAATT-AGGGT-TAAAATGG-ATTTTTTGAAAGTTTG
1 AGGGTAAAA-TGTAATTTTTGG-AAAATTCATGGTCAAAAATGGAATTTTTAG-AAGTTCG
* * * * * *
11509047 GGGGTAAAATGTAATTTTTGGAAAAATCAAGGTCAAAAATGTAATTTTTGGAAAGTTTTG
1 AGGGTAAAATGTAATTTTTGGAAAATTCATGGTCAAAAATGGAATTTTTAG-AAG-TTCG
* *
11509107 GGGGTCAAAATATAATTTTTG
1 AGGGT-AAAATGTAATTTTTG
11509128 AACAGTTTAG
Statistics
Matches: 308, Mismatches: 51, Indels: 30
0.79 0.13 0.08
Matches are distributed among these distances:
56 5 0.02
57 22 0.07
58 56 0.18
59 166 0.54
60 45 0.15
61 14 0.05
ACGTcount: A:0.37, C:0.05, G:0.25, T:0.33
Consensus pattern (58 bp):
AGGGTAAAATGTAATTTTTGGAAAATTCATGGTCAAAAATGGAATTTTTAGAAGTTCG
Found at i:11508863 original size:30 final size:31
Alignment explanation
Indices: 11508699--11508865 Score: 120
Period size: 30 Copynumber: 5.6 Consensus size: 31
11508689 ACCCAAGGGC
* * ** *
11508699 AAAATAGTAATTTTGGGAAAGTTCATGGTCA
1 AAAATGGTAATTTTTGGAAAAATCAGGGTCA
* * * *
11508730 AGAATGG-AATTTTTAG-ACATTCGAGGGT--
1 AAAATGGTAATTTTTGGAAAAATC-AGGGTCA
11508758 AAAATGGTAA-TTTTGGAAAAATCAGGGTCAA
1 AAAATGGTAATTTTTGGAAAAATCAGGGTC-A
**
11508789 AAAATGG-AATTTTTGG-AAGTTCGAGGGT--
1 AAAATGGTAATTTTTGGAAAAATC-AGGGTCA
* *
11508817 AAAATGGTACTTTTTGGAAAAATCAAGGTCA
1 AAAATGGTAATTTTTGGAAAAATCAGGGTCA
11508848 AAAATGG-AATTTTTGGAA
1 AAAATGGTAATTTTTGGAA
11508866 TTTCGGGGGT
Statistics
Matches: 106, Mismatches: 18, Indels: 25
0.71 0.12 0.17
Matches are distributed among these distances:
28 23 0.22
29 22 0.21
30 31 0.29
31 30 0.28
ACGTcount: A:0.39, C:0.06, G:0.25, T:0.31
Consensus pattern (31 bp):
AAAATGGTAATTTTTGGAAAAATCAGGGTCA
Found at i:11508880 original size:29 final size:28
Alignment explanation
Indices: 11508788--11509069 Score: 97
Period size: 29 Copynumber: 9.7 Consensus size: 28
11508778 ATCAGGGTCA
* *
11508788 AAAAATGGAATTTTTGGAAGTTCGAGGGT
1 AAAAATGGAATTTTTGGAA-TTTGGGGGT
* ** ***
11508817 -AAAATGGTACTTTTTGGAAAAATCAAGGT
1 AAAAATGG-AATTTTTGG-AATTTGGGGGT
11508846 CAAAAATGGAATTTTTGGAATTTCGGGGGT
1 -AAAAATGGAATTTTTGGAATTT-GGGGGT
* **** * **
11508876 AAAAATGTAACTTTCAAAAAAATT-GTAGT
1 AAAAATGGAA-TTT-TTGGAATTTGGGGGT
*
11508905 CAAAAATGGAATTTTTGAAAGTTTGGGGGT
1 -AAAAATGGAATTTTTGGAA-TTTGGGGGT
* * * *
11508935 AAAAATGAAATTTTTAGAATGTTTGTGGT
1 AAAAATGGAATTTTTGGAAT-TTGGGGGT
* * * *
11508964 CAAAAATGGGATTTTTAGAAGTTCGAGGGT
1 -AAAAATGGAATTTTTGGAA-TTTGGGGGT
* * *
11508994 -AAAACGGTAATTTTTGGAAAAATT-AGGGT
1 AAAAATGG-AATTTTTGG--AATTTGGGGGT
* * *
11509023 TAAAATGGATTTTTTGAAAGTTTGGGGGT
1 AAAAATGGAATTTTTGGAA-TTTGGGGGT
*
11509052 -AAAATGTAATTTTTGGAA
1 AAAAATGGAATTTTTGGAA
11509070 AAATCAAGGT
Statistics
Matches: 183, Mismatches: 51, Indels: 39
0.67 0.19 0.14
Matches are distributed among these distances:
27 2 0.01
28 34 0.19
29 77 0.42
30 56 0.31
31 14 0.08
ACGTcount: A:0.37, C:0.04, G:0.25, T:0.34
Consensus pattern (28 bp):
AAAAATGGAATTTTTGGAATTTGGGGGT
Found at i:11508896 original size:118 final size:115
Alignment explanation
Indices: 11508699--11509095 Score: 395
Period size: 118 Copynumber: 3.4 Consensus size: 115
11508689 ACCCAAGGGC
* ** * *
11508699 AAAATAGTAATTTTGGGAAAGTTCATGGTCAAGAATGGAATTTTTAGACA-TTCGAGGGT-AAAA
1 AAAAT-GTAATTTTTGGAAAAATCAAGGTCAAAAATGGAATTTTTAGA-ATTTCGAGGGTAAAAA
* * *
11508762 TGGTAATTTTGGAAAAATCAGGGTCAAAAAATGGAATTTTTGGAAGTTCGAGGGT
64 T-GTAATTTTGGAAAAAT-AGGGTC-AAAAATGGAATTTTTGAAAGTTTGGGGGT
* * *
11508817 AAAATGGTACTTTTTGGAAAAATCAAGGTCAAAAATGGAATTTTTGGAATTTCGGGGGTAAAAAT
1 AAAAT-GTAATTTTTGGAAAAATCAAGGTCAAAAATGGAATTTTTAGAATTTCGAGGGTAAAAAT
*** * *
11508882 GTAACTTTCAAAAAAATTGTAGTCAAAAATGGAATTTTTGAAAGTTTGGGGGT
65 GTAA-TTTTGGAAAAATAG-GGTCAAAAATGGAATTTTTGAAAGTTTGGGGGT
* * *** *** * * **
11508935 AAAAATGAAATTTTTAGAATGTTTGTGGTCAAAAATGGGATTTTTAGAAGTTCGAGGGTAAAACG
1 -AAAATGTAATTTTTGGAAAAATCAAGGTCAAAAATGGAATTTTTAGAATTTCGAGGGTAAAAAT
* *
11509000 GTAATTTTTGGAAAAATTAGGGT-TAAAATGGATTTTTTGAAAGTTTGGGGGT
65 GTAA-TTTTGGAAAAA-TAGGGTCAAAAATGGAATTTTTGAAAGTTTGGGGGT
*
11509052 AAAATGTAATTTTTGGAAAAATCAAGGTCAAAAATGTAATTTTT
1 AAAATGTAATTTTTGGAAAAATCAAGGTCAAAAATGGAATTTTT
11509096 GGAAAGTTTT
Statistics
Matches: 223, Mismatches: 50, Indels: 14
0.78 0.17 0.05
Matches are distributed among these distances:
116 34 0.15
117 28 0.13
118 137 0.61
119 24 0.11
ACGTcount: A:0.38, C:0.05, G:0.24, T:0.33
Consensus pattern (115 bp):
AAAATGTAATTTTTGGAAAAATCAAGGTCAAAAATGGAATTTTTAGAATTTCGAGGGTAAAAATG
TAATTTTGGAAAAATAGGGTCAAAAATGGAATTTTTGAAAGTTTGGGGGT
Found at i:11508969 original size:30 final size:30
Alignment explanation
Indices: 11508898--11508983 Score: 104
Period size: 30 Copynumber: 2.9 Consensus size: 30
11508888 TTCAAAAAAA
*
11508898 TTGTAGTCAAAAATGGAATTTTT-GAAAGT
1 TTGTGGTCAAAAATGGAATTTTTAGAAAGT
* * *
11508927 TTGGGGGT-AAAAATGAAATTTTTAGAATGT
1 TT-GTGGTCAAAAATGGAATTTTTAGAAAGT
*
11508957 TTGTGGTCAAAAATGGGATTTTTAGAA
1 TTGTGGTCAAAAATGGAATTTTTAGAA
11508984 GTTCGAGGGT
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
29 20 0.43
30 27 0.57
ACGTcount: A:0.36, C:0.02, G:0.24, T:0.37
Consensus pattern (30 bp):
TTGTGGTCAAAAATGGAATTTTTAGAAAGT
Found at i:11509034 original size:28 final size:29
Alignment explanation
Indices: 11509000--11509100 Score: 105
Period size: 28 Copynumber: 3.5 Consensus size: 29
11508990 GGGTAAAACG
11509000 GTAATTTTTGGAAAAATTAGGGTTAAAAT
1 GTAATTTTTGGAAAAATTAGGGTTAAAAT
* * ** * *
11509029 G-GATTTTTTGAAAGTTTGGGGGTAAAAT
1 GTAATTTTTGGAAAAATTAGGGTTAAAAT
* * *
11509057 GTAATTTTTGGAAAAATCAAGGTCAAAAAT
1 GTAATTTTTGGAAAAATTAGGGT-TAAAAT
11509087 GTAATTTTTGGAAA
1 GTAATTTTTGGAAA
11509101 GTTTTGGGGG
Statistics
Matches: 55, Mismatches: 15, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
28 22 0.40
29 14 0.25
30 19 0.35
ACGTcount: A:0.39, C:0.02, G:0.23, T:0.37
Consensus pattern (29 bp):
GTAATTTTTGGAAAAATTAGGGTTAAAAT
Found at i:11509070 original size:29 final size:30
Alignment explanation
Indices: 11508906--11509135 Score: 143
Period size: 29 Copynumber: 7.8 Consensus size: 30
11508896 AATTGTAGTC
*
11508906 AAAAATGGAATTTTT-GAAAGTTTGGGGGT
1 AAAAATGTAATTTTTGGAAAGTTTGGGGGT
* * * *
11508935 AAAAATGAAATTTTTAGAATGTTT-GTGGT
1 AAAAATGTAATTTTTGGAAAGTTTGGGGGT
** * * *
11508964 CAAAAATGGGATTTTTAG-AAGTTCGAGGGT
1 -AAAAATGTAATTTTTGGAAAGTTTGGGGGT
** ** *
11508994 AAAACGGTAATTTTTGGAAAAATT-AGGGT
1 AAAAATGTAATTTTTGGAAAGTTTGGGGGT
* * *
11509023 TAAAATG-GATTTTTTGAAAGTTTGGGGGT
1 AAAAATGTAATTTTTGGAAAGTTTGGGGGT
** ***
11509052 -AAAATGTAATTTTTGGAAA-AATCAAGGT
1 AAAAATGTAATTTTTGGAAAGTTTGGGGGT
11509080 CAAAAATGTAATTTTTGGAAAGTTTTGGGGGT
1 -AAAAATGTAATTTTTGGAAAG-TTTGGGGGT
* *
11509112 CAAAATATAATTTTT-GAACAGTTT
1 AAAAATGTAATTTTTGGAA-AGTTT
11509136 AGAGGCCTCT
Statistics
Matches: 151, Mismatches: 39, Indels: 21
0.72 0.18 0.10
Matches are distributed among these distances:
28 22 0.15
29 57 0.38
30 53 0.35
31 15 0.10
32 4 0.03
ACGTcount: A:0.37, C:0.03, G:0.24, T:0.36
Consensus pattern (30 bp):
AAAAATGTAATTTTTGGAAAGTTTGGGGGT
Found at i:11509123 original size:31 final size:30
Alignment explanation
Indices: 11508907--11509135 Score: 134
Period size: 30 Copynumber: 7.8 Consensus size: 30
11508897 ATTGTAGTCA
* *
11508907 AAAATGGAATTTTT-GAAAGTTTGGGGGTA
1 AAAATGTAATTTTTGGAAAGTTTGGGGGTC
* * * *
11508936 AAAATGAAATTTTTAGAATGTTT-GTGGTC
1 AAAATGTAATTTTTGGAAAGTTTGGGGGTC
** * * *
11508965 AAAAATGGGATTTTTAG-AAGTTCGAGGGT-
1 -AAAATGTAATTTTTGGAAAGTTTGGGGGTC
* ** * *
11508994 AAAACGGTAATTTTTGGAAAAATT-AGGGTT
1 AAAA-TGTAATTTTTGGAAAGTTTGGGGGTC
* *
11509024 AAAATG-GATTTTTTGAAAGTTTGGGGGT-
1 AAAATGTAATTTTTGGAAAGTTTGGGGGTC
** ***
11509052 AAAATGTAATTTTTGGAAA-AATCAAGGTC
1 AAAATGTAATTTTTGGAAAGTTTGGGGGTC
11509081 AAAAATGTAATTTTTGGAAAGTTTTGGGGGTC
1 -AAAATGTAATTTTTGGAAAG-TTTGGGGGTC
*
11509113 AAAATATAATTTTT-GAACAGTTT
1 AAAATGTAATTTTTGGAA-AGTTT
11509136 AGAGGCCTCT
Statistics
Matches: 151, Mismatches: 36, Indels: 25
0.71 0.17 0.12
Matches are distributed among these distances:
28 26 0.17
29 49 0.32
30 56 0.37
31 15 0.10
32 5 0.03
ACGTcount: A:0.36, C:0.03, G:0.24, T:0.36
Consensus pattern (30 bp):
AAAATGTAATTTTTGGAAAGTTTGGGGGTC
Found at i:11510337 original size:22 final size:21
Alignment explanation
Indices: 11510286--11510338 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
11510276 CAAGATTATT
* **
11510286 ATTAATATTATTATTAATTTG
1 ATTATTATTATTATTAATAAG
*
11510307 AATAGTTATTATTATTAATAAAG
1 ATTA-TTATTATTATTAAT-AAG
11510330 ATTATTATT
1 ATTATTATT
11510339 TCAAAGCAGT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 3 0.12
22 18 0.72
23 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (21 bp):
ATTATTATTATTATTAATAAG
Found at i:11511127 original size:12 final size:12
Alignment explanation
Indices: 11511112--11511170 Score: 50
Period size: 12 Copynumber: 5.1 Consensus size: 12
11511102 ATAATAAATT
11511112 TAAATTTAAAAA
1 TAAATTTAAAAA
* **
11511124 TAAATCTAAACT
1 TAAATTTAAAAA
*
11511136 TAAA-TT-AAAT
1 TAAATTTAAAAA
*
11511146 TAAATTTTAAAA
1 TAAATTTAAAAA
*
11511158 TAAATTTTAAAA
1 TAAATTTAAAAA
11511170 T
1 T
11511171 GAGTTTTAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
10 7 0.18
11 3 0.08
12 29 0.74
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (12 bp):
TAAATTTAAAAA
Found at i:11511179 original size:12 final size:12
Alignment explanation
Indices: 11511140--11511170 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
11511130 TAAACTTAAA
*
11511140 TTAAATTAAATT
1 TTAAAATAAATT
11511152 TTAAAATAAATT
1 TTAAAATAAATT
11511164 TTAAAAT
1 TTAAAAT
11511171 GAGTTTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
TTAAAATAAATT
Found at i:11515098 original size:34 final size:32
Alignment explanation
Indices: 11515053--11515160 Score: 103
Period size: 34 Copynumber: 3.2 Consensus size: 32
11515043 AGCATGTCTT
11515053 TTGCTAATGTATTGACTTGCTATAAGCATATTAA
1 TTGCT-ATGTATTGAC-TGCTATAAGCATATTAA
* *
11515087 TTG-TCACTGTATTGA-TCCATTATAAGCATATTAT
1 TTGCT-A-TGTATTGACTGC--TATAAGCATATTAA
11515121 TTGCTATCGTATTGAACTGCTATAAGCATATTAA
1 TTGCTAT-GTATTG-ACTGCTATAAGCATATTAA
*
11515155 GTGCTA
1 TTGCTA
11515161 CCATATTGAT
Statistics
Matches: 61, Mismatches: 6, Indels: 14
0.75 0.07 0.17
Matches are distributed among these distances:
32 2 0.03
33 3 0.05
34 52 0.85
35 2 0.03
36 2 0.03
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.41
Consensus pattern (32 bp):
TTGCTATGTATTGACTGCTATAAGCATATTAA
Found at i:11517067 original size:21 final size:23
Alignment explanation
Indices: 11517031--11517078 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 23
11517021 TGTTATTTTC
11517031 TAAATTAAAAAAATTA-AA-AAT
1 TAAATTAAAAAAATTATAAGAAT
**
11517052 TAAATTAAAATTATTATAAGAAT
1 TAAATTAAAAAAATTATAAGAAT
11517075 TAAA
1 TAAA
11517079 AAATAAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 14 0.61
22 2 0.09
23 7 0.30
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (23 bp):
TAAATTAAAAAAATTATAAGAAT
Found at i:11517964 original size:30 final size:29
Alignment explanation
Indices: 11517913--11518201 Score: 144
Period size: 29 Copynumber: 9.7 Consensus size: 29
11517903 AATTGAGAAT
* *
11517913 AAAATGGTGATTTTTGAAAGTTAGGGGGCA
1 AAAAT-GTAATTTTTAAAAGTTAGGGGGCA
* *
11517943 AAAATGTAATTTTTAAGAAGTTTGGGGGTAA
1 AAAATGTAATTTTTAA-AAGTTAGGGGG-CA
* * * * * *
11517974 AAAATTTGATTTTTAGAAG-CACGAGGGTA
1 AAAATGTAATTTTTAAAAGTTA-GGGGGCA
* * *
11518003 AAAATGTAATTTTTAAAAG-GACGAGGGAA
1 AAAATGTAATTTTTAAAAGTTA-GGGGGCA
* * ** *
11518032 AAAATTTGATTTTTTGAAGTTCGGGGGC-
1 AAAATGTAATTTTTAAAAGTTAGGGGGCA
*
11518060 AAAATGTAATTTTTGAAAAGTTTTGGGGGTC-
1 AAAATGTAATTTTT-AAAAG-TTAGGGGG-CA
*
11518091 AAAATGTAATTTTTGAAAAGTTTA-GGGGTA
1 AAAATGTAATTTTT-AAAAG-TTAGGGGGCA
* * ** *
11518121 AAAATGCAATTTTTAGAAGTTTA-AAGACA
1 AAAATGTAATTTTTAAAAG-TTAGGGGGCA
*
11518150 AAAATGTAATTTTTGGAAAAGTTTA-GGGTC-
1 AAAATGTAATTTTT--AAAAG-TTAGGGGGCA
*
11518180 AAAATATAATTTTTGAAAAGTT
1 AAAATGTAATTTTT-AAAAGTT
11518202 TAAGGGAAAA
Statistics
Matches: 206, Mismatches: 43, Indels: 22
0.76 0.16 0.08
Matches are distributed among these distances:
28 14 0.07
29 85 0.41
30 59 0.29
31 48 0.23
ACGTcount: A:0.39, C:0.03, G:0.24, T:0.34
Consensus pattern (29 bp):
AAAATGTAATTTTTAAAAGTTAGGGGGCA
Found at i:11518156 original size:59 final size:60
Alignment explanation
Indices: 11518091--11518235 Score: 172
Period size: 59 Copynumber: 2.5 Consensus size: 60
11518081 TTTGGGGGTC
* *
11518091 AAAATGTAATTTTT-GAAAAGTTTAGGGGTAAAAATGCAATTTTT-AGAAGTTTAAAGACA
1 AAAATGTAATTTTTGGAAAAGTTTA-GGGTAAAAATACAATTTTTGAAAAGTTTAAAGACA
* * **
11518150 AAAATGTAATTTTTGGAAAAGTTTAGGGTCAAAATATAATTTTTGAAAAGTTT-AAGGGA
1 AAAATGTAATTTTTGGAAAAGTTTAGGGTAAAAATACAATTTTTGAAAAGTTTAAAGACA
* * *
11518209 AAAACGTTATTTTTGGATAA-TTTAGGG
1 AAAATGTAATTTTTGGAAAAGTTTAGGG
11518236 ACCTTCTAGG
Statistics
Matches: 75, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
58 7 0.09
59 51 0.68
60 17 0.23
ACGTcount: A:0.41, C:0.03, G:0.20, T:0.36
Consensus pattern (60 bp):
AAAATGTAATTTTTGGAAAAGTTTAGGGTAAAAATACAATTTTTGAAAAGTTTAAAGACA
Found at i:11518201 original size:29 final size:29
Alignment explanation
Indices: 11518059--11518203 Score: 166
Period size: 30 Copynumber: 4.9 Consensus size: 29
11518049 AGTTCGGGGG
*
11518059 CAAAATGTAATTTTTGAAAAGTTTTGGGGGT
1 CAAAATGTAATTTTTGAAAAG-TTT-AGGGT
11518090 CAAAATGTAATTTTTGAAAAGTTTAGGGGT
1 CAAAATGTAATTTTTGAAAAGTTTA-GGGT
* * * ** *
11518120 AAAAATGCAATTTTT-AGAAGTTTAAAGA
1 CAAAATGTAATTTTTGAAAAGTTTAGGGT
11518148 CAAAAATGTAATTTTTGGAAAAGTTTAGGGT
1 C-AAAATGTAATTTTT-GAAAAGTTTAGGGT
*
11518179 CAAAATATAATTTTTGAAAAGTTTA
1 CAAAATGTAATTTTTGAAAAGTTTA
11518204 AGGGAAAAAC
Statistics
Matches: 96, Mismatches: 14, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
28 1 0.01
29 31 0.32
30 33 0.34
31 31 0.32
ACGTcount: A:0.41, C:0.03, G:0.19, T:0.37
Consensus pattern (29 bp):
CAAAATGTAATTTTTGAAAAGTTTAGGGT
Found at i:11518212 original size:29 final size:30
Alignment explanation
Indices: 11518060--11518223 Score: 172
Period size: 29 Copynumber: 5.5 Consensus size: 30
11518050 GTTCGGGGGC
** *
11518060 AAAATGTAATTTTTGAAAAGTTTTGGGGGTC
1 AAAATGTAATTTTTGAAAAG-TTTAAGGGTA
*
11518091 AAAATGTAATTTTTGAAAAGTTTAGGGGTA
1 AAAATGTAATTTTTGAAAAGTTTAAGGGTA
* * * **
11518121 AAAATGCAATTTTT-AGAAGTTTAAAGACA
1 AAAATGTAATTTTTGAAAAGTTTAAGGGTA
*
11518150 AAAATGTAATTTTTGGAAAAGTTT-AGGGTC
1 AAAATGTAATTTTT-GAAAAGTTTAAGGGTA
*
11518180 AAAATATAATTTTTGAAAAGTTTAAGGG-A
1 AAAATGTAATTTTTGAAAAGTTTAAGGGTA
* *
11518209 AAAACGTTATTTTTG
1 AAAATGTAATTTTTG
11518224 GATAATTTAG
Statistics
Matches: 111, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
29 44 0.40
30 40 0.36
31 27 0.24
ACGTcount: A:0.40, C:0.03, G:0.20, T:0.37
Consensus pattern (30 bp):
AAAATGTAATTTTTGAAAAGTTTAAGGGTA
Found at i:11519408 original size:19 final size:19
Alignment explanation
Indices: 11519362--11519410 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
11519352 AAGACATGTT
11519362 TAGAAATAATAAATAATAAA
1 TAGAAAT-ATAAATAATAAA
* *
11519382 TGGTAATAT-AATAAATAAA
1 TAGAAATATAAAT-AATAAA
11519401 TAGAAATATA
1 TAGAAATATA
11519411 TGCAGAGGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
18 3 0.13
19 15 0.65
20 5 0.22
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (19 bp):
TAGAAATATAAATAATAAA
Found at i:11520028 original size:11 final size:12
Alignment explanation
Indices: 11520002--11520044 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
11519992 TTTGAAACTC
11520002 AATTTAAAATTA
1 AATTTAAAATTA
*
11520014 AATTTAGAA-TA
1 AATTTAAAATTA
*
11520025 AATTTAAATTTA
1 AATTTAAAATTA
*
11520037 AAATTAAA
1 AATTTAAA
11520045 GATTGGGTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
11 9 0.35
12 17 0.65
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (12 bp):
AATTTAAAATTA
Found at i:11520744 original size:39 final size:38
Alignment explanation
Indices: 11520701--11521139 Score: 206
Period size: 39 Copynumber: 11.3 Consensus size: 38
11520691 TCCCATGATA
* *
11520701 GGGGTAAGAGATTGGCTGATTGTGATCTGCCCAGGCTTT
1 GGGGTAAGAGATTGGCTGACTGTGATCTGCCCAGGC-TC
* * *
11520740 GGGGTAAGAGATTGGCTG-GTAATGATCTGCCCTAAGCTC
1 GGGGTAAGAGATTGGCTGACT-GTGATCTGCCC-AGGCTC
* * * * *
11520779 AGGGTAAGAGATTGGATGGCTATAATCTGCCCCAGGCTC
1 GGGGTAAGAGATTGGCTGACTGTGATCTG-CCCAGGCTC
* * **
11520818 GGGGTAAGAGATGGGATGACTGCAATCTGCCCCAGGCTC
1 GGGGTAAGAGATTGGCTGACTGTGATCTG-CCCAGGCTC
* * * *
11520857 TGGGTAAAAGATTTGCTGA-TGATGATCTGCCTCAAGCTC
1 GGGGTAAGAGATTGGCTGACTG-TGATCTGCC-CAGGCTC
** * * ***
11520896 GGGGTAAGAGATCAGATGGCTACAATCTGCCCCAGGCTC
1 GGGGTAAGAGATTGGCTGACTGTGATCTG-CCCAGGCTC
* * * * * *
11520935 GGGGTAAAAGATTTGCT-AATGAGGATCTGCCCCAAGCCC
1 GGGGTAAGAGATTGGCTGACTG-TGATCTG-CCCAGGCTC
* * * ** *
11520974 GGGGTAAGAGATCGGATTACTGCAATCTGCCCAAGCTC
1 GGGGTAAGAGATTGGCTGACTGTGATCTGCCCAGGCTC
* * * * *
11521012 TGGATAAGAGATTTGTTGA-TGATGATTTGCCCTAGGCTC
1 GGGGTAAGAGATTGGCTGACTG-TGATCTGCCC-AGGCTC
* * ** * * * *
11521051 GGGGTAA-AAATCGAATGGCTGTAATTTGCCCCAAGCTC
1 GGGGTAAGAGATTGGCTGACTGTGATCTG-CCCAGGCTC
** * *
11521089 GGGGTAAGAGATTTTCT-AATGATGATTTGCCCCAGGCTC
1 GGGGTAAGAGATTGGCTGACTG-TGATCTG-CCCAGGCTC
*
11521128 AGGGTAAGAGAT
1 GGGGTAAGAGAT
11521140 CGAATCTTCA
Statistics
Matches: 303, Mismatches: 81, Indels: 32
0.73 0.19 0.08
Matches are distributed among these distances:
37 2 0.01
38 59 0.19
39 229 0.76
40 13 0.04
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (38 bp):
GGGGTAAGAGATTGGCTGACTGTGATCTGCCCAGGCTC
Found at i:11520790 original size:78 final size:75
Alignment explanation
Indices: 11520702--11521139 Score: 270
Period size: 78 Copynumber: 5.6 Consensus size: 75
11520692 CCCATGATAG
* * *
11520702 GGGTAAGAGATTGGCTGATTGTGATCTGCCCAGGCTTTGGGGTAAGAGATTGGCTGGTAATG-AT
1 GGGTAAGAGATTGGCTGA-TGTGATCTGCCCAGGC-TCGGGGTAAGAGATGGGAT-G-AATGAAT
*
11520766 CTGCCCTAAGCTCA
62 CTGCCCCAAGCTCA
* * * * *
11520780 GGGTAAGAGATTGGATGGCTATAATCTGCCCCAGGCTCGGGGTAAGAGATGGGATGACTGCAATC
1 GGGTAAGAGATTGGCT-GATGTGATCTG-CCCAGGCTCGGGGTAAGAGATGGGATGAATG-AATC
* *
11520845 TGCCCCAGGCTCT
63 TGCCCCAAGCTCA
* * * ** ** *
11520858 GGGTAAAAGATTTGCTGATGATGATCTGCCTCAAGCTCGGGGTAAGAGATCAGATGGCTACAATC
1 GGGTAAGAGATTGGCTGATG-TGATCTGCC-CAGGCTCGGGGTAAGAGATGGGATGAAT-GAATC
* *
11520923 TGCCCCAGGCTCG
63 TGCCCCAAGCTCA
* * * * * * * * *
11520936 GGGTAAAAGATTTGCTAATGAGGATCTGCCCCAAGCCCGGGGTAAGAGATCGGATTACTGCAATC
1 GGGTAAGAGATTGGCTGATG-TGATCTG-CCCAGGCTCGGGGTAAGAGATGGGATGAATG-AATC
*
11521001 TG-CCCAAGCTCT
63 TGCCCCAAGCTCA
* * * * * * * ** *
11521013 GGATAAGAGATTTGTTGATGATGATTTGCCCTAGGCTCGGGGTAA-AAATCGAATGGCTGTAATT
1 GGGTAAGAGATTGGCTGATG-TGATCTGCCC-AGGCTCGGGGTAAGAGATGGGATGAATG-AATC
*
11521077 TGCCCCAAGCTCG
63 TGCCCCAAGCTCA
** * * *
11521090 GGGTAAGAGATTTTCTAATGATGATTTGCCCCAGGCTCAGGGTAAGAGAT
1 GGGTAAGAGATTGGCTGATG-TGATCTG-CCCAGGCTCGGGGTAAGAGAT
11521140 CGAATCTTCA
Statistics
Matches: 294, Mismatches: 53, Indels: 26
0.79 0.14 0.07
Matches are distributed among these distances:
76 21 0.07
77 91 0.31
78 172 0.59
79 10 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (75 bp):
GGGTAAGAGATTGGCTGATGTGATCTGCCCAGGCTCGGGGTAAGAGATGGGATGAATGAATCTGC
CCCAAGCTCA
Found at i:11520894 original size:117 final size:117
Alignment explanation
Indices: 11520701--11520946 Score: 325
Period size: 117 Copynumber: 2.1 Consensus size: 117
11520691 TCCCATGATA
* * * ** * * *
11520701 GGGGTAAGAGATTGGCTGATTGTGATCTGCCCAGGCTTTGGGGTAAGAGATTGGCTGGTAATGAT
1 GGGGTAAGAGATGGGATGACTGCAATCTGCCCAGGCTCTGGGGTAAAAGATTGGCTGATAATGAT
** *
11520766 CTGCCCTAAGCTCAGGGTAAGAGATTGGATGGCTATAATCTGCCCCAGGCTC
66 CTGCCCTAAGCTCAGGGTAAGAGATCAGATGGCTACAATCTGCCCCAGGCTC
* *
11520818 GGGGTAAGAGATGGGATGACTGCAATCTGCCCCAGGCTCT-GGGTAAAAGATTTGCTGATGATGA
1 GGGGTAAGAGATGGGATGACTGCAATCTG-CCCAGGCTCTGGGGTAAAAGATTGGCTGATAATGA
*
11520882 TCTG-CCTCAAGCTCGGGGTAAGAGATCAGATGGCTACAATCTGCCCCAGGCTC
65 TCTGCCCT-AAGCTCAGGGTAAGAGATCAGATGGCTACAATCTGCCCCAGGCTC
*
11520935 GGGGTAAAAGAT
1 GGGGTAAGAGAT
11520947 TTGCTAATGA
Statistics
Matches: 112, Mismatches: 15, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
116 3 0.03
117 100 0.89
118 9 0.08
ACGTcount: A:0.24, C:0.19, G:0.33, T:0.24
Consensus pattern (117 bp):
GGGGTAAGAGATGGGATGACTGCAATCTGCCCAGGCTCTGGGGTAAAAGATTGGCTGATAATGAT
CTGCCCTAAGCTCAGGGTAAGAGATCAGATGGCTACAATCTGCCCCAGGCTC
Found at i:11520979 original size:117 final size:117
Alignment explanation
Indices: 11520740--11521140 Score: 305
Period size: 117 Copynumber: 3.4 Consensus size: 117
11520730 CCCAGGCTTT
* ** *
11520740 GGGGTAAGAGATTGGCTGGTAATGATCTGCCCTAAGCTCAGGGTAAGAGATTGGATGGCTATAAT
1 GGGGTAAGAGATTGGCTGATAATGATCTGCCCTAAGCTCAGGGTAAGAGATCAGATGGCTACAAT
* * * *
11520805 CTGCCCCAGGCTCGGGGTAAGAGATGGGATGACTGCAATCTGCCCCAGGCTC
66 CTGCCCCAGGCTCGGGGTAAAAGATGGGATGAATGCAATCTGCCCCAAGCCC
* * * * *
11520857 TGGGTAAAAGATTTGCTGATGATGATCTG-CCTCAAGCTCGGGGTAAGAGATCAGATGGCTACAA
1 GGGGTAAGAGATTGGCTGATAATGATCTGCCCT-AAGCTCAGGGTAAGAGATCAGATGGCTACAA
** *
11520921 TCTGCCCCAGGCTCGGGGTAAAAGATTTGCT-AATG-AGGATCTGCCCCAAGCCC
65 TCTGCCCCAGGCTCGGGGTAAAAGATGGGATGAATGCA--ATCTGCCCCAAGCCC
* * * * * ** * * *
11520974 GGGGTAAGAGATCGGAT--TACTGCAATCTGCCC-AAGCTCTGGATAAGAGATTTG-TTGATGAT
1 GGGGTAAGAGATTGGCTGATAATG--ATCTGCCCTAAGCTCAGGGTAAGAGATCAGATGGCT-AC
* * * * * ** * * *
11521035 GATTTGCCCTAGGCTCGGGGTAAAA-ATCGAATGGCTGTAATTTGCCCCAAGCTC
63 AATCTGCCCCAGGCTCGGGGTAAAAGATGGGATGAATGCAATCTGCCCCAAGCCC
** * * * * *
11521089 GGGGTAAGAGATTTTCTAATGATGATTTGCCCCAGGCTCAGGGTAAGAGATC
1 GGGGTAAGAGATTGGCTGATAATGATCTGCCCTAAGCTCAGGGTAAGAGATC
11521141 GAATCTTCAA
Statistics
Matches: 220, Mismatches: 52, Indels: 25
0.74 0.18 0.08
Matches are distributed among these distances:
115 43 0.20
116 63 0.29
117 112 0.51
118 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (117 bp):
GGGGTAAGAGATTGGCTGATAATGATCTGCCCTAAGCTCAGGGTAAGAGATCAGATGGCTACAAT
CTGCCCCAGGCTCGGGGTAAAAGATGGGATGAATGCAATCTGCCCCAAGCCC
Found at i:11521084 original size:77 final size:78
Alignment explanation
Indices: 11520803--11521157 Score: 387
Period size: 78 Copynumber: 4.6 Consensus size: 78
11520793 GATGGCTATA
* * * *
11520803 ATCTGCCCCAGGCTCGGGGTAAGAGATGGGATGACTGCAATCTGCCCCAGGCTCTGGGTAAAAGA
1 ATCTGCCCCAGGCTCGGGGTAAGAGATCGAATGACTGCAATCTGCCCCAAGCTCGGGGTAAAAGA
*
11520868 TTTGCTGATGATG
66 TTTGCTAATGATG
* * * * *
11520881 ATCTGCCTCAAGCTCGGGGTAAGAGATC-AGATGGCTACAATCTGCCCCAGGCTCGGGGTAAAAG
1 ATCTGCCCCAGGCTCGGGGTAAGAGATCGA-ATGACTGCAATCTGCCCCAAGCTCGGGGTAAAAG
*
11520945 ATTTGCTAATGAGG
65 ATTTGCTAATGATG
* * * * * * *
11520959 ATCTGCCCCAAGCCCGGGGTAAGAGATCGGATTACTGCAATCTG-CCCAAGCTCTGGATAAGAGA
1 ATCTGCCCCAGGCTCGGGGTAAGAGATCGAATGACTGCAATCTGCCCCAAGCTCGGGGTAAAAGA
* *
11521023 TTTGTTGATGATG
66 TTTGCTAATGATG
* * * * * * *
11521036 ATTTGCCCTAGGCTCGGGGTAA-AAATCGAATGGCTGTAATTTGCCCCAAGCTCGGGGTAAGAGA
1 ATCTGCCCCAGGCTCGGGGTAAGAGATCGAATGACTGCAATCTGCCCCAAGCTCGGGGTAAAAGA
*
11521100 TTTTCTAATGATG
66 TTTGCTAATGATG
* * *
11521113 ATTTGCCCCAGGCTCAGGGTAAGAGATCGAAT--CTTCAATCTGCCC
1 ATCTGCCCCAGGCTCGGGGTAAGAGATCGAATGACTGCAATCTGCCC
11521158 TTCTTGATTA
Statistics
Matches: 230, Mismatches: 43, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
76 25 0.11
77 92 0.40
78 113 0.49
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (78 bp):
ATCTGCCCCAGGCTCGGGGTAAGAGATCGAATGACTGCAATCTGCCCCAAGCTCGGGGTAAAAGA
TTTGCTAATGATG
Found at i:11533634 original size:59 final size:59
Alignment explanation
Indices: 11533528--11533752 Score: 213
Period size: 59 Copynumber: 3.8 Consensus size: 59
11533518 GGTAAAATGG
* *
11533528 TGATTTTTGGAAGTTCGAGGGAAAAAAATGTAATTTTTGAGAAGTTTGGGGGTAAAAATA
1 TGATTTTTGGAAGTTTGAGGG-TAAAAATGTAATTTTTGAGAAGTTTGGGGGTAAAAATA
* * * *
11533588 TGATTTTTGGAAGTTTAAGGGTAGAAATGTAATTTTTGAGAAGTTTGGGGGTCAAAATG
1 TGATTTTTGGAAGTTTGAGGGTAAAAATGTAATTTTTGAGAAGTTTGGGGGTAAAAATA
* * * * * ****
11533647 TAATTTTTGAAAAGTTTGAGGGTAAAAATGCAGTTTTT-AAAAGTTCAAAGGTAAAAATA
1 TGATTTTTG-GAAGTTTGAGGGTAAAAATGTAATTTTTGAGAAGTTTGGGGGTAAAAATA
* * * *
11533706 TAATTTTTGAAAAAGTTT-AGGGTTAAAATGTAGTTTTTG-GAAAGTTT
1 TGATTTTTG--GAAGTTTGAGGGTAAAAATGTAATTTTTGAG-AAGTTT
11533753 TAAGGGCAAA
Statistics
Matches: 138, Mismatches: 23, Indels: 8
0.82 0.14 0.05
Matches are distributed among these distances:
59 83 0.60
60 55 0.40
ACGTcount: A:0.36, C:0.02, G:0.25, T:0.37
Consensus pattern (59 bp):
TGATTTTTGGAAGTTTGAGGGTAAAAATGTAATTTTTGAGAAGTTTGGGGGTAAAAATA
Found at i:11533670 original size:89 final size:87
Alignment explanation
Indices: 11533552--11533783 Score: 250
Period size: 89 Copynumber: 2.6 Consensus size: 87
11533542 TCGAGGGAAA
* * * * * *
11533552 AAAATGTAATTTTTGAGAAGTTTGGGGGTAAAAATATGATTTTTGGAAGTTTAAGGGTAGAAATG
1 AAAATGTAATTTTTGAAAAGTTTGAGGGT-AAAA-ATGATTTTTGGAAGTTCAAAGGTAAAAATA
* *
11533617 TAATTTTTG-AGAAGTTTGGGGGTC
64 TAATTTTTGAAAAAGTTT-AGGGTC
**
11533641 AAAATGTAATTTTTGAAAAGTTTGAGGGTAAAAATGCAGTTTTTAAAAGTTCAAAGGTAAAAATA
1 AAAATGTAATTTTTGAAAAGTTTGAGGGTAAAAATG-A-TTTTTGGAAGTTCAAAGGTAAAAATA
*
11533706 TAATTTTTGAAAAAGTTTAGGGTT
64 TAATTTTTGAAAAAGTTTAGGGTC
* * * *
11533730 AAAATGTAGTTTTTGGAAAGTTTTAAGGGCAAAACATGATTTTTGGATAGTTCA
1 AAAATGTAATTTTTGAAAAG-TTTGAGGGTAAAA-ATGATTTTTGGA-AGTTCA
11533784 GGGACCTTTT
Statistics
Matches: 120, Mismatches: 17, Indels: 11
0.81 0.11 0.07
Matches are distributed among these distances:
87 3 0.03
88 5 0.04
89 84 0.70
90 25 0.21
91 3 0.03
ACGTcount: A:0.37, C:0.03, G:0.24, T:0.37
Consensus pattern (87 bp):
AAAATGTAATTTTTGAAAAGTTTGAGGGTAAAAATGATTTTTGGAAGTTCAAAGGTAAAAATATA
ATTTTTGAAAAAGTTTAGGGTC
Found at i:11533675 original size:30 final size:30
Alignment explanation
Indices: 11533513--11533752 Score: 211
Period size: 30 Copynumber: 8.1 Consensus size: 30
11533503 TTTTAGAAAA
* *
11533513 TTGAGGGT-AAAATGGTGATTTTTG-GAAGT
1 TTGAGGGTAAAAAT-GTAATTTTTGAAAAGT
* * *
11533542 TCGAGGGAAAAAAATGTAATTTTTGAGAAGT
1 TTGAGGG-TAAAAATGTAATTTTTGAAAAGT
* * * *
11533573 TTGGGGGTAAAAATATGATTTTTG-GAAGT
1 TTGAGGGTAAAAATGTAATTTTTGAAAAGT
* * *
11533602 TTAAGGGTAGAAATGTAATTTTTGAGAAGT
1 TTGAGGGTAAAAATGTAATTTTTGAAAAGT
* *
11533632 TTGGGGGTCAAAATGTAATTTTTGAAAAGT
1 TTGAGGGTAAAAATGTAATTTTTGAAAAGT
* *
11533662 TTGAGGGTAAAAATGCAGTTTTT-AAAAGT
1 TTGAGGGTAAAAATGTAATTTTTGAAAAGT
** * *
11533691 TCAAAGGTAAAAATATAATTTTTGAAAAAGT
1 TTGAGGGTAAAAATGTAATTTTTG-AAAAGT
* * *
11533722 TT-AGGGTTAAAATGTAGTTTTTGGAAAGT
1 TTGAGGGTAAAAATGTAATTTTTGAAAAGT
11533751 TT
1 TT
11533753 TAAGGGCAAA
Statistics
Matches: 171, Mismatches: 34, Indels: 12
0.79 0.16 0.06
Matches are distributed among these distances:
29 60 0.35
30 89 0.52
31 22 0.13
ACGTcount: A:0.36, C:0.02, G:0.26, T:0.36
Consensus pattern (30 bp):
TTGAGGGTAAAAATGTAATTTTTGAAAAGT
Found at i:11533772 original size:60 final size:59
Alignment explanation
Indices: 11533647--11533774 Score: 150
Period size: 60 Copynumber: 2.2 Consensus size: 59
11533637 GGTCAAAATG
* *
11533647 TAATTTTTGAAAAGTTTGAGGGTAAAAATGCAGTTTTTAAAAGTTCAAAGGTAAAAATA
1 TAATTTTTGAAAAGTTTGAGGGTAAAAATGCAGTTTTTAAAAGTTCAAAGGGAAAAACA
* * * ** *
11533706 TAATTTTTGAAAAAGTTT-AGGGTTAAAATGTAGTTTTTGGAAAGTTTTAAGGGCAAAACA
1 TAATTTTTG-AAAAGTTTGAGGGTAAAAATGCAGTTTTT-AAAAGTTCAAAGGGAAAAACA
*
11533766 TGATTTTTG
1 TAATTTTTG
11533775 GATAGTTCAG
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
59 27 0.47
60 31 0.53
ACGTcount: A:0.39, C:0.03, G:0.20, T:0.38
Consensus pattern (59 bp):
TAATTTTTGAAAAGTTTGAGGGTAAAAATGCAGTTTTTAAAAGTTCAAAGGGAAAAACA
Found at i:11535588 original size:17 final size:18
Alignment explanation
Indices: 11535568--11535623 Score: 71
Period size: 17 Copynumber: 3.2 Consensus size: 18
11535558 TAAACTCAAT
*
11535568 TTAAAATTAAATTTAGA-
1 TTAAAATTAAATTTAAAC
*
11535585 TTAAATTTAAATTTAAAC
1 TTAAAATTAAATTTAAAC
*
11535603 TTAAAA-TAAATTTAAAA
1 TTAAAATTAAATTTAAAC
11535620 TTAA
1 TTAA
11535624 TGACTGGGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
17 29 0.85
18 5 0.15
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (18 bp):
TTAAAATTAAATTTAAAC
Found at i:11535591 original size:23 final size:23
Alignment explanation
Indices: 11535565--11535623 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
11535555 TTTTAAACTC
* * *
11535565 AATTTAAAATTAAATTTAGATTA
1 AATTTAAAATTAAACTTAAAATA
*
11535588 AATTTAAATTTAAACTTAAAATA
1 AATTTAAAATTAAACTTAAAATA
11535611 AATTTAAAATTAA
1 AATTTAAAATTAA
11535624 TGACTGGGTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (23 bp):
AATTTAAAATTAAACTTAAAATA
Found at i:11535594 original size:6 final size:6
Alignment explanation
Indices: 11535565--11535623 Score: 59
Period size: 6 Copynumber: 10.2 Consensus size: 6
11535555 TTTTAAACTC
* * * *
11535565 AATTTA AAATTA AATTTA GA-TTA AATTTA AATTTA AACTTA AA-ATA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
*
11535611 AATTTA AAATTA A
1 AATTTA AATTTA A
11535624 TGACTGGGTT
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
5 8 0.19
6 35 0.81
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (6 bp):
AATTTA
Found at i:11535691 original size:28 final size:28
Alignment explanation
Indices: 11535651--11535708 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
11535641 ATTCACAGTT
11535651 TAGGCCCGATCAAAATTGGGCTTCAACA
1 TAGGCCCGATCAAAATTGGGCTTCAACA
11535679 TAGGCCCGATCAAAATTGGGCTTCAACA
1 TAGGCCCGATCAAAATTGGGCTTCAACA
11535707 TA
1 TA
11535709 CGTTGTGTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.22
Consensus pattern (28 bp):
TAGGCCCGATCAAAATTGGGCTTCAACA
Found at i:11539746 original size:34 final size:34
Alignment explanation
Indices: 11539693--11539821 Score: 129
Period size: 34 Copynumber: 3.8 Consensus size: 34
11539683 CATGTCTTTC
*
11539693 GCTAATGTATTGACT-TGTTATAAGCATATTAATT
1 GCTACTGTATTGA-TATGTTATAAGCATATTAATT
* * *
11539727 ACCACTGTATTGATATGTTATAAGCATATTATTT
1 GCTACTGTATTGATATGTTATAAGCATATTAATT
* * *
11539761 GCTA-TCGTATCGA-ACTGCTATAAGCATATTAACT
1 GCTACT-GTATTGATA-TGTTATAAGCATATTAATT
* *
11539795 GCTACTGTATTGATATGATATTAGCAT
1 GCTACTGTATTGATATGTTATAAGCAT
11539822 GTCATATTGC
Statistics
Matches: 77, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
33 3 0.04
34 72 0.94
35 2 0.03
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.40
Consensus pattern (34 bp):
GCTACTGTATTGATATGTTATAAGCATATTAATT
Found at i:11542458 original size:25 final size:26
Alignment explanation
Indices: 11542430--11542478 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
11542420 AATTTTGAGA
*
11542430 AATAATAGTATTTT-TTTATTTAACG
1 AATAATAATATTTTGTTTATTTAACG
*
11542455 AATAATAATTTTTTGTTTATTTAA
1 AATAATAATATTTTGTTTATTTAA
11542479 GATTTATCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.55
Consensus pattern (26 bp):
AATAATAATATTTTGTTTATTTAACG
Found at i:11545492 original size:30 final size:30
Alignment explanation
Indices: 11545458--11545570 Score: 129
Period size: 30 Copynumber: 3.8 Consensus size: 30
11545448 TTTTGAGGTA
*
11545458 AAAATATAATTTTGGCAAAGTTTAAGGGTC
1 AAAATATAATTTTGGAAAAGTTTAAGGGTC
* * *
11545488 AAAATGTAATTTTGAAAAAGTTTAGGGGTC
1 AAAATATAATTTTGGAAAAGTTTAAGGGTC
* * * **
11545518 AAAATGTAATTTTGGAAGAGTTCAAGAATC
1 AAAATATAATTTTGGAAAAGTTTAAGGGTC
11545548 AAAATGA-AATTTTGGAAAAGTTT
1 AAAAT-ATAATTTTGGAAAAGTTT
11545571 GGGGACCTCT
Statistics
Matches: 69, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
30 69 1.00
ACGTcount: A:0.42, C:0.04, G:0.20, T:0.33
Consensus pattern (30 bp):
AAAATATAATTTTGGAAAAGTTTAAGGGTC
Found at i:11545522 original size:60 final size:59
Alignment explanation
Indices: 11545449--11545574 Score: 155
Period size: 60 Copynumber: 2.1 Consensus size: 59
11545439 TTTTGAGAAT
* * * ** *
11545449 TTTGAGGTAAAAATATAATTTTGGCAA-AGTTTAAGGGTCAAAATGTAATTTTGAAAAAG
1 TTTGGGGTCAAAATATAATTTTGG-AAGAGTTCAAGAATCAAAATGAAATTTTGAAAAAG
* *
11545508 TTTAGGGGTCAAAATGTAATTTTGGAAGAGTTCAAGAATCAAAATGAAATTTTGGAAAAG
1 TTT-GGGGTCAAAATATAATTTTGGAAGAGTTCAAGAATCAAAATGAAATTTTGAAAAAG
11545568 TTTGGGG
1 TTTGGGG
11545575 ACCTCTTGGG
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
59 9 0.16
60 48 0.84
ACGTcount: A:0.40, C:0.04, G:0.24, T:0.33
Consensus pattern (59 bp):
TTTGGGGTCAAAATATAATTTTGGAAGAGTTCAAGAATCAAAATGAAATTTTGAAAAAG
Found at i:11546895 original size:22 final size:23
Alignment explanation
Indices: 11546852--11546898 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
11546842 AAAAACAAAG
* *
11546852 AACAGATTTTAAAACTAAAAAAT
1 AACAGATCTGAAAACTAAAAAAT
11546875 AACAGATCTGAAAA-TAAAAAAT
1 AACAGATCTGAAAACTAAAAAAT
11546897 AA
1 AA
11546899 TAAGGAACTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.64, C:0.09, G:0.06, T:0.21
Consensus pattern (23 bp):
AACAGATCTGAAAACTAAAAAAT
Found at i:11547551 original size:30 final size:29
Alignment explanation
Indices: 11547508--11547828 Score: 329
Period size: 30 Copynumber: 10.7 Consensus size: 29
11547498 TAGGTCCATG
* * *
11547508 AACTTTCTAAAAATTATATTTTAACCCTTA
1 AACTTT-TCAAAATTACATTTTAACCCCTA
* *
11547538 AACTTCTTCAAAATTATATTTTAACCCTTA
1 AACTT-TTCAAAATTACATTTTAACCCCTA
11547568 AACTTTTCCAAAATTACATTTTAA-CCCTA
1 AACTTTT-CAAAATTACATTTTAACCCCTA
*
11547597 AACTTTTCCAAAATTACCTTTTAACCCCTA
1 AACTTTT-CAAAATTACATTTTAACCCCTA
* *
11547627 AACTTTTCCAAAATTACCTTTTATCCCCTA
1 AACTTTT-CAAAATTACATTTTAACCCCTA
* *
11547657 AACTTCTCTAAAATTACCTTTTAACCCCTA
1 AACTTTTC-AAAATTACATTTTAACCCCTA
*
11547687 AACTTTTCCAAAATTACATTTTATCCCCTA
1 AACTTTT-CAAAATTACATTTTAACCCCTA
* * * * *
11547717 AGCTTCTCTAAAATTATATTTTAACCTCTG
1 AACTTTTC-AAAATTACATTTTAACCCCTA
* * * *
11547747 AACTTCTCTAAAATCATATTTTAACCCTTA
1 AACTTTTC-AAAATTACATTTTAACCCCTA
11547777 AACCTTTTCAAAATTACATTTTAACCCCCTA
1 AA-CTTTTCAAAATTACATTTTAA-CCCCTA
* *
11547808 AACTTCTCCAAAATCACATTT
1 AACTT-TTCAAAATTACATTT
11547829 CGACCCCGTA
Statistics
Matches: 255, Mismatches: 27, Indels: 17
0.85 0.09 0.06
Matches are distributed among these distances:
29 31 0.12
30 197 0.77
31 27 0.11
ACGTcount: A:0.35, C:0.25, G:0.01, T:0.39
Consensus pattern (29 bp):
AACTTTTCAAAATTACATTTTAACCCCTA
Found at i:11547682 original size:60 final size:60
Alignment explanation
Indices: 11547517--11547828 Score: 369
Period size: 60 Copynumber: 5.2 Consensus size: 60
11547507 GAACTTTCTA
* * * *
11547517 AAAATTATATTTTAACCCTTAAACTTCT-TCAAAATTATATTTTAACCCTTAAACTTTTCC
1 AAAATTACATTTTAACCCCTAAACTTCTCT-AAAATTACATTTTAACCCCTAAACTTTTCC
* * *
11547577 AAAATTACATTTTAA-CCCTAAACTTTTCCAAAATTACCTTTTAACCCCTAAACTTTTCC
1 AAAATTACATTTTAACCCCTAAACTTCTCTAAAATTACATTTTAACCCCTAAACTTTTCC
* * *
11547636 AAAATTACCTTTTATCCCCTAAACTTCTCTAAAATTACCTTTTAACCCCTAAACTTTTCC
1 AAAATTACATTTTAACCCCTAAACTTCTCTAAAATTACATTTTAACCCCTAAACTTTTCC
* * * * * * *
11547696 AAAATTACATTTTATCCCCTAAGCTTCTCTAAAATTATATTTTAACCTCTGAACTTCTCT
1 AAAATTACATTTTAACCCCTAAACTTCTCTAAAATTACATTTTAACCCCTAAACTTTTCC
* * * * *
11547756 AAAATCATATTTTAACCCTTAAACCTTTTC-AAAATTACATTTTAACCCCCTAAACTTCTCC
1 AAAATTACATTTTAACCCCTAAA-CTTCTCTAAAATTACATTTTAA-CCCCTAAACTTTTCC
*
11547817 AAAATCACATTT
1 AAAATTACATTT
11547829 CGACCCCGTA
Statistics
Matches: 218, Mismatches: 30, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
59 50 0.23
60 140 0.64
61 28 0.13
ACGTcount: A:0.35, C:0.25, G:0.01, T:0.39
Consensus pattern (60 bp):
AAAATTACATTTTAACCCCTAAACTTCTCTAAAATTACATTTTAACCCCTAAACTTTTCC
Found at i:11547730 original size:90 final size:90
Alignment explanation
Indices: 11547517--11547821 Score: 398
Period size: 90 Copynumber: 3.4 Consensus size: 90
11547507 GAACTTTCTA
* * * * * *
11547517 AAAATTATATTTTAACCCTTAAACTTCTTCAAAATTATATTTTAACCCTTAAACTTTTCCAAAAT
1 AAAATTACATTTTAACCCCTAAACTTCTCCAAAATTATATTTTAACCCCTAAACTTCTCTAAAAT
11547582 TACATTTTAA-CCCTAAACTTTTCC
66 TACATTTTAACCCCTAAACTTTTCC
* * ** *
11547606 AAAATTACCTTTTAACCCCTAAACTTTTCCAAAATTACCTTTTATCCCCTAAACTTCTCTAAAAT
1 AAAATTACATTTTAACCCCTAAACTTCTCCAAAATTATATTTTAACCCCTAAACTTCTCTAAAAT
*
11547671 TACCTTTTAACCCCTAAACTTTTCC
66 TACATTTTAACCCCTAAACTTTTCC
* * * * *
11547696 AAAATTACATTTTATCCCCTAAGCTTCTCTAAAATTATATTTTAACCTCTGAACTTCTCTAAAAT
1 AAAATTACATTTTAACCCCTAAACTTCTCCAAAATTATATTTTAACCCCTAAACTTCTCTAAAAT
* * *
11547761 CATATTTTAACCCTTAAACCTTTT-C
66 TACATTTTAACCCCTAAA-CTTTTCC
11547786 AAAATTACATTTTAACCCCCTAAACTTCTCCAAAAT
1 AAAATTACATTTTAA-CCCCTAAACTTCTCCAAAAT
11547822 CACATTTCGA
Statistics
Matches: 184, Mismatches: 29, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
89 63 0.34
90 98 0.53
91 23 0.12
ACGTcount: A:0.35, C:0.25, G:0.01, T:0.39
Consensus pattern (90 bp):
AAAATTACATTTTAACCCCTAAACTTCTCCAAAATTATATTTTAACCCCTAAACTTCTCTAAAAT
TACATTTTAACCCCTAAACTTTTCC
Found at i:11551661 original size:62 final size:62
Alignment explanation
Indices: 11551557--11551684 Score: 220
Period size: 62 Copynumber: 2.1 Consensus size: 62
11551547 TTTTAGCATG
* * *
11551557 ATAATTCTGACTAATTAAAACTTTAACAGTTATATCAGTAATCATTGAAAATCCATACCATT
1 ATAATTCTGACTAATTAAAACTTTAACAGTTACATCAATAATCATTGAAAATCCACACCATT
*
11551619 ATAATTCTGACTAATTAAAACTTTAACAGTTACATCAATAATCATTGAAAATCTACACCATT
1 ATAATTCTGACTAATTAAAACTTTAACAGTTACATCAATAATCATTGAAAATCCACACCATT
11551681 ATAA
1 ATAA
11551685 CACTCGTAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.44, C:0.16, G:0.05, T:0.34
Consensus pattern (62 bp):
ATAATTCTGACTAATTAAAACTTTAACAGTTACATCAATAATCATTGAAAATCCACACCATT
Found at i:11560171 original size:124 final size:120
Alignment explanation
Indices: 11559900--11560179 Score: 296
Period size: 124 Copynumber: 2.3 Consensus size: 120
11559890 AACTTCAAAC
*
11559900 GGTCATCTTCCTGATGAGATATAGAGAAGTAGACCAATTCAACGAAGTAAAGCTCAATAAAGTTA
1 GGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAATTCAACGAAGTAAAGCTCAATAAAGTTA
* * * * * ** *
11559965 GACCAAATTCGTCTTTCTGATGACATACAGAGAAGTGAATTAAATCAATGAAGCA
66 AACCAAATTCATCTTCCTGATGACATACAGAGAAATGAATCAAAGAAATAAAGCA
* * * **
11560020 -GTCATCTTCTTGATGAGATACAGAGAAGTAGACCAATTCAATGAAGTGAAGCTCAATGTGAGTT
1 GGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAATTCAACGAAGTAAAGCTCAAT-AAAGTT
** **
11560084 AAACTTCCAAACCTT-ATCTTCCTGATGTGATACAGAGAAATGGGTCAAAGAAATAAAG-A
65 AAA---CCAAA--TTCATCTTCCTGATGACATACAGAGAAATGAATCAAAGAAATAAAGCA
* * *
11560143 GGTCATCTTCCTGATAAGATACAAAGAAGAAGACCAA
1 GGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAA
11560180 ATCCGTCTTC
Statistics
Matches: 131, Mismatches: 22, Indels: 10
0.80 0.13 0.06
Matches are distributed among these distances:
119 53 0.40
120 6 0.05
123 6 0.05
124 64 0.49
125 2 0.02
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.25
Consensus pattern (120 bp):
GGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAATTCAACGAAGTAAAGCTCAATAAAGTTA
AACCAAATTCATCTTCCTGATGACATACAGAGAAATGAATCAAAGAAATAAAGCA
Found at i:11560243 original size:85 final size:85
Alignment explanation
Indices: 11560100--11560264 Score: 231
Period size: 85 Copynumber: 1.9 Consensus size: 85
11560090 CCAAACCTTA
* *
11560100 TCTTCCTGATGTGATACAGAGAAATGGGTCAAAGAAATAAAGAGGTCATCTTCCTGATAAGATAC
1 TCTTCCTGATGAGATACAGAGAAATGGATCAAAGAAATAAAGAGGTCATCTTCCTGATAAGATAC
11560165 AAAGAAGAAGACCAAATCCG
66 AAAGAAGAAGACCAAATCCG
* * * ** * * *
11560185 TCTTCTTGATGAGATACAGAGAAGTGGATTAAATCAATGAAGCGGTCATCTTCTTGATAAGATAC
1 TCTTCCTGATGAGATACAGAGAAATGGATCAAAGAAATAAAGAGGTCATCTTCCTGATAAGATAC
*
11560250 AAAGAAGTAGACCAA
66 AAAGAAGAAGACCAA
11560265 TTCAACGAAG
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
85 69 1.00
ACGTcount: A:0.40, C:0.15, G:0.21, T:0.24
Consensus pattern (85 bp):
TCTTCCTGATGAGATACAGAGAAATGGATCAAAGAAATAAAGAGGTCATCTTCCTGATAAGATAC
AAAGAAGAAGACCAAATCCG
Found at i:11560326 original size:161 final size:161
Alignment explanation
Indices: 11560150--11560485 Score: 519
Period size: 161 Copynumber: 2.1 Consensus size: 161
11560140 AGAGGTCATC
* * *
11560150 TTCCTGATAAGATACAAAGAAGAAGACCAAATCCGTCTTCTTGATGAGATACAGAGAAGTGGATT
1 TTCCTGATGAGATACAAAGAAGAAGACCAAATCCGTCTTCCTGATAAGATACAGAGAAGTGGATT
* *
11560215 AAATCAATGAAGCGGTCATCTTCTTGATAAGATACAAAGAAGTAGACCAATTCAACGAAGTGAAG
66 AAATCAATGAAGCGGTCATCTTCCTGATAAGATACAAAGAAGTAGACCAATTCAACGAAGTGAAC
* **
11560280 CTCAATGTGAGTGAAACTTCCAAACCTTATA
131 CTCAATATGAGTGAAACTTCCAAACCCCATA
* * *
11560311 TTTCTGATGAGATACAGAGAAGAAGACCAAATTCGTCTTCCTGATAAGATACAGAGAAGTGGATT
1 TTCCTGATGAGATACAAAGAAGAAGACCAAATCCGTCTTCCTGATAAGATACAGAGAAGTGGATT
* * **
11560376 AAATCAATGAAGCGGTCATCTTCCTGATGAGATATAAAGAAGTAGATTAATTCAACGAAGTGAAC
66 AAATCAATGAAGCGGTCATCTTCCTGATAAGATACAAAGAAGTAGACCAATTCAACGAAGTGAAC
* *
11560441 CTTAATATGAGTGAAACTTCCAAACCCCATC
131 CTCAATATGAGTGAAACTTCCAAACCCCATA
11560472 TTCCTGATGAGATA
1 TTCCTGATGAGATA
11560486 TAGAGAAATG
Statistics
Matches: 157, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
161 157 1.00
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.25
Consensus pattern (161 bp):
TTCCTGATGAGATACAAAGAAGAAGACCAAATCCGTCTTCCTGATAAGATACAGAGAAGTGGATT
AAATCAATGAAGCGGTCATCTTCCTGATAAGATACAAAGAAGTAGACCAATTCAACGAAGTGAAC
CTCAATATGAGTGAAACTTCCAAACCCCATA
Found at i:11560599 original size:209 final size:209
Alignment explanation
Indices: 11560314--11560758 Score: 705
Period size: 209 Copynumber: 2.1 Consensus size: 209
11560304 CCTTATATTT
11560314 CTGATGAGATACAGAGAAGAAGACCAAATTCGTCTTCCTGATAAGATACAGAGAAGTGGATTAAA
1 CTGATGAGATACAGAGAAGAAGACCAAATTCGTCTTCCTGATAAGATACAGAGAAGTGGATTAAA
* * * *
11560379 TCAATGAAGCGGTCATCTTCCTGATGAGATATAAAGAAGTAGATTAATTCAACGAAGTGAACCTT
66 TCAATGAAGCGGTCATCTTCCTGATGAGATACAAAGAAGTAGATCAATTCAACGAAGTGAAACTC
*
11560444 AATATGAGTGAAACTTCCAAACCCCATCTTCCTGATGAGATATAGAGAAATGGGTCAAAGCAAAA
131 AATATGAGTGAAACTTCCAAACCCCATCTTCCTGATGAGATACAGAGAAATGGGTCAAAGCAAAA
11560509 AAGAGGTCATCTTC
196 AAGAGGTCATCTTC
* * * *
11560523 CTGATAAGATACAGAGAAGAAGACCAAA-TCTGTCTTCTTGATGAGATATAGAGAAGTGGATTAA
1 CTGATGAGATACAGAGAAGAAGACCAAATTC-GTCTTCCTGATAAGATACAGAGAAGTGGATTAA
* * *
11560587 ATCAATGAAGCGGTCATCTTCCTGATGAGATGCAGAGAAGTAGATCGATTCAACGAAGTGAAACT
65 ATCAATGAAGCGGTCATCTTCCTGATGAGATACAAAGAAGTAGATCAATTCAACGAAGTGAAACT
* * * * *
11560652 CAATGTGAGTGAAACTTCTAAACCCCATCTTCTTGATGAGATACATAGAAATGGGTCAATGCAAA
130 CAATATGAGTGAAACTTCCAAACCCCATCTTCCTGATGAGATACAGAGAAATGGGTCAAAGCAAA
11560717 AAAGAGGTCATCTTC
195 AAAGAGGTCATCTTC
11560732 CTGATGAGATACAGAGAAGCAA-ACCAA
1 CTGATGAGATACAGAGAAG-AAGACCAA
11560759 GAGATGAAAC
Statistics
Matches: 216, Mismatches: 18, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
208 2 0.01
209 212 0.98
210 2 0.01
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (209 bp):
CTGATGAGATACAGAGAAGAAGACCAAATTCGTCTTCCTGATAAGATACAGAGAAGTGGATTAAA
TCAATGAAGCGGTCATCTTCCTGATGAGATACAAAGAAGTAGATCAATTCAACGAAGTGAAACTC
AATATGAGTGAAACTTCCAAACCCCATCTTCCTGATGAGATACAGAGAAATGGGTCAAAGCAAAA
AAGAGGTCATCTTC
Found at i:11560623 original size:85 final size:85
Alignment explanation
Indices: 11560470--11560626 Score: 224
Period size: 85 Copynumber: 1.8 Consensus size: 85
11560460 CCAAACCCCA
*
11560470 TCTTCCTGATGAGATATAGAGAAATGGGTCAAAGCAAAAAAGAGGTCATCTTCCTGATAAGATAC
1 TCTTCCTGATGAGATATAGAGAAATGGATCAAAGCAAAAAAGAGGTCATCTTCCTGATAAGATAC
11560535 AGAGAAGAAGACCAAATCTG
66 AGAGAAGAAGACCAAATCTG
* * * * ** * * *
11560555 TCTTCTTGATGAGATATAGAGAAGTGGATTAAATCAATGAAGCGGTCATCTTCCTGATGAGATGC
1 TCTTCCTGATGAGATATAGAGAAATGGATCAAAGCAAAAAAGAGGTCATCTTCCTGATAAGATAC
11560620 AGAGAAG
66 AGAGAAG
11560627 TAGATCGATT
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
85 62 1.00
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (85 bp):
TCTTCCTGATGAGATATAGAGAAATGGATCAAAGCAAAAAAGAGGTCATCTTCCTGATAAGATAC
AGAGAAGAAGACCAAATCTG
Found at i:11560645 original size:370 final size:370
Alignment explanation
Indices: 11559964--11560701 Score: 1138
Period size: 370 Copynumber: 2.0 Consensus size: 370
11559954 CAATAAAGTT
* *
11559964 AGACCAAATTCGTCTTTCTGATGACATACAGAGAAGTGAATTAAATCAATGAAGCAGTCATCTTC
1 AGACCAAATTCGTCTTCCTGATAACATACAGAGAAGTGAATTAAATCAATGAAGCAGTCATCTTC
* * * * * *
11560029 TTGATGAGATACAGAGAAGTAGACCAATTCAATGAAGTGAAGCTCAATGTGAGTTAAACTTCCAA
66 CTGATGAGATACAAAGAAGTAGACCAATTCAACGAAGTGAACCTCAATATGAGTGAAACTTCCAA
** *
11560094 ACCTTATCTTCCTGATGTGATACAGAGAAATGGGTCAAAGAAATAAAGAGGTCATCTTCCTGATA
131 ACCCCATCTTCCTGATGAGATACAGAGAAATGGGTCAAAGAAATAAAGAGGTCATCTTCCTGATA
11560159 AGATACAAAGAAGAAGACCAAATCCGTCTTCTTGATGAGATACAGAGAAGTGGATTAAATCAATG
196 AGATACAAAGAAGAAGACCAAATCCGTCTTCTTGATGAGATACAGAGAAGTGGATTAAATCAATG
* *
11560224 AAGCGGTCATCTTCTTGATAAGATACAAAGAAGTAGACCAATTCAACGAAGTGAAGCTCAATGTG
261 AAGCGGTCATCTTCCTGATAAGATACAAAGAAGTAGACCAATTCAACGAAGTGAAACTCAATGTG
** *
11560289 AGTGAAACTTCCAAACCTTATATT-TCTGATGAGATACAGAGAAGA
326 AGTGAAACTTCCAAACCCCATCTTCT-TGATGAGATACAGAGAAGA
* * *
11560334 AGACCAAATTCGTCTTCCTGATAAGATACAGAGAAGTGGATTAAATCAATGAAGCGGTCATCTTC
1 AGACCAAATTCGTCTTCCTGATAACATACAGAGAAGTGAATTAAATCAATGAAGCAGTCATCTTC
* ** *
11560399 CTGATGAGATATAAAGAAGTAGATTAATTCAACGAAGTGAACCTTAATATGAGTGAAACTTCCAA
66 CTGATGAGATACAAAGAAGTAGACCAATTCAACGAAGTGAACCTCAATATGAGTGAAACTTCCAA
*
11560464 ACCCCATCTTCCTGATGAGATATAGAGAAATGGGTCAAAGCAAA-AAAGAGGTCATCTTCCTGAT
131 ACCCCATCTTCCTGATGAGATACAGAGAAATGGGTCAAAG-AAATAAAGAGGTCATCTTCCTGAT
* * *
11560528 AAGATACAGAGAAGAAGACCAAATCTGTCTTCTTGATGAGATATAGAGAAGTGGATTAAATCAAT
195 AAGATACAAAGAAGAAGACCAAATCCGTCTTCTTGATGAGATACAGAGAAGTGGATTAAATCAAT
* * * * *
11560593 GAAGCGGTCATCTTCCTGATGAGATGCAGAGAAGTAGATCGATTCAACGAAGTGAAACTCAATGT
260 GAAGCGGTCATCTTCCTGATAAGATACAAAGAAGTAGACCAATTCAACGAAGTGAAACTCAATGT
* *
11560658 GAGTGAAACTTCTAAACCCCATCTTCTTGATGAGATACATAGAA
325 GAGTGAAACTTCCAAACCCCATCTTCTTGATGAGATACAGAGAA
11560702 ATGGGTCAAT
Statistics
Matches: 332, Mismatches: 34, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
370 328 0.99
371 4 0.01
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.25
Consensus pattern (370 bp):
AGACCAAATTCGTCTTCCTGATAACATACAGAGAAGTGAATTAAATCAATGAAGCAGTCATCTTC
CTGATGAGATACAAAGAAGTAGACCAATTCAACGAAGTGAACCTCAATATGAGTGAAACTTCCAA
ACCCCATCTTCCTGATGAGATACAGAGAAATGGGTCAAAGAAATAAAGAGGTCATCTTCCTGATA
AGATACAAAGAAGAAGACCAAATCCGTCTTCTTGATGAGATACAGAGAAGTGGATTAAATCAATG
AAGCGGTCATCTTCCTGATAAGATACAAAGAAGTAGACCAATTCAACGAAGTGAAACTCAATGTG
AGTGAAACTTCCAAACCCCATCTTCTTGATGAGATACAGAGAAGA
Found at i:11561179 original size:17 final size:17
Alignment explanation
Indices: 11561157--11561191 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
11561147 AATAGAATAA
11561157 ATTTTAAATTTAAATTT
1 ATTTTAAATTTAAATTT
*
11561174 ATTTTAAATTTAAGTTT
1 ATTTTAAATTTAAATTT
11561191 A
1 A
11561192 AAAATGTCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (17 bp):
ATTTTAAATTTAAATTT
Found at i:11562690 original size:30 final size:30
Alignment explanation
Indices: 11562654--11562986 Score: 313
Period size: 30 Copynumber: 11.1 Consensus size: 30
11562644 CCCAGTAGGT
* * * *
11562654 CCCTAAACTTTCCAAAAATCATATTTTGAC
1 CCCTAAACTTTCCTAAAATTACATTTTAAC
*
11562684 CCCTAAACTTCTCC-AAAATTACATTTT-AG
1 CCCTAAACTT-TCCTAAAATTACATTTTAAC
*
11562713 CCCTCAAACTTTTCTAAAATTACATTTTAAC
1 CCCT-AAACTTTCCTAAAATTACATTTTAAC
*
11562744 CCTTAAACTTTTCC-AAAATTACATTTTAAC
1 CCCTAAAC-TTTCCTAAAATTACATTTTAAC
*
11562774 CCTTAAACTTTTCC-AAAATTACATTTTAAC
1 CCCTAAAC-TTTCCTAAAATTACATTTTAAC
* * *
11562804 CCTTACAC-TTCTCTATAATTACATTTTAAC
1 CCCTAAACTTTC-CTAAAATTACATTTTAAC
* * **
11562834 CTCTAAATTTTTTTAAAATTACATTTTAAC
1 CCCTAAACTTTCCTAAAATTACATTTTAAC
* * *
11562864 ACTTAAACCTTTCC-AAAATTACATTTTGAC
1 CCCTAAA-CTTTCCTAAAATTACATTTTAAC
* *
11562894 CCCTAAACTTTTCTAAAATCACATTTTAAC
1 CCCTAAACTTTCCTAAAATTACATTTTAAC
* * * *
11562924 CCCTAAACCTTCCCAAAAATAACATTTTGA-
1 CCCTAAA-CTTTCCTAAAATTACATTTTAAC
*
11562954 CCCTAAAC-TTCTCTAAAATCACATTTTAAC
1 CCCTAAACTTTC-CTAAAATTACATTTTAAC
11562984 CCC
1 CCC
11562987 GTATTCTCTG
Statistics
Matches: 253, Mismatches: 37, Indels: 26
0.80 0.12 0.08
Matches are distributed among these distances:
28 5 0.02
29 28 0.11
30 187 0.74
31 33 0.13
ACGTcount: A:0.36, C:0.26, G:0.01, T:0.37
Consensus pattern (30 bp):
CCCTAAACTTTCCTAAAATTACATTTTAAC
Found at i:11562986 original size:90 final size:89
Alignment explanation
Indices: 11562654--11562986 Score: 375
Period size: 90 Copynumber: 3.7 Consensus size: 89
11562644 CCCAGTAGGT
* * * *
11562654 CCCTAAACTTTCCAAAAATCATATTTTGACCCCTAAACTTCTCCAAAATTACATTTT-AGCCCTC
1 CCCTAAACTTTCCAAAAATTACATTTT-AACCCTAAACTTCTCCAAAATTACATTTTAACCCCT-
11562718 AAACTTTTCTAAAATTACATTTTAAC
64 AAACTTTTCTAAAATTACATTTTAAC
* * *
11562744 CCTTAAACTTTTCC-AAAATTACATTTTAACCCTTAAACTTTTCCAAAATTACATTTTAACCCTT
1 CCCTAAAC-TTTCCAAAAATTACATTTTAACCC-TAAACTTCTCCAAAATTACATTTTAACCCCT
* * *
11562808 ACACTTCTCTATAATTACATTTTAAC
64 AAACTTTTCTAAAATTACATTTTAAC
* * *** * *
11562834 CTCTAAATTTTTTTAAAATTACATTTTAACACTTAAACCTT-TCCAAAATTACATTTTGACCCCT
1 CCCTAAACTTTCCAAAAATTACATTTTAAC-CCTAAA-CTTCTCCAAAATTACATTTTAACCCCT
*
11562898 AAACTTTTCTAAAATCACATTTTAAC
64 AAACTTTTCTAAAATTACATTTTAAC
* * * * *
11562924 CCCTAAACCTTCCCAAAAATAACATTTTGACCCTAAACTTCTCTAAAATCACATTTTAACCCC
1 CCCTAAA-CTTTCCAAAAATTACATTTTAACCCTAAACTTCTCCAAAATTACATTTTAACCCC
11562987 GTATTCTCTG
Statistics
Matches: 201, Mismatches: 34, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
89 10 0.05
90 162 0.81
91 29 0.14
ACGTcount: A:0.36, C:0.26, G:0.01, T:0.37
Consensus pattern (89 bp):
CCCTAAACTTTCCAAAAATTACATTTTAACCCTAAACTTCTCCAAAATTACATTTTAACCCCTAA
ACTTTTCTAAAATTACATTTTAAC
Found at i:11564168 original size:33 final size:33
Alignment explanation
Indices: 11564095--11564169 Score: 91
Period size: 33 Copynumber: 2.2 Consensus size: 33
11564085 AAGAAGTTTG
11564095 TTTATTTGATGATTTTCGAATCTTTTCCTTGTTA
1 TTTATTT-ATGATTTTCGAATCTTTTCCTTGTTA
*
11564129 GATTATTT-TGATTTTCGAATCTTTTCTTCTTGTT-
1 -TTTATTTATGATTTTCGAATCTTTTC--CTTGTTA
11564163 TTTATTT
1 TTTATTT
11564170 CATTTATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
33 24 0.67
35 12 0.33
ACGTcount: A:0.16, C:0.11, G:0.11, T:0.63
Consensus pattern (33 bp):
TTTATTTATGATTTTCGAATCTTTTCCTTGTTA
Found at i:11565501 original size:85 final size:85
Alignment explanation
Indices: 11565357--11565512 Score: 206
Period size: 85 Copynumber: 1.8 Consensus size: 85
11565347 TGCTTCATTT
* * * *
11565357 ATTTGGTATACTTCTTTGTATCTCATCAAGAAGATGACAATTTCATTGATTTAATCCACTTCTCT
1 ATTTGGTATACTTCTCTATACCTCATCAAGAAGATGACAATTTCATTGATTTAACCCACTTCTCT
11565422 GTATCTCATTAGGACGACGG
66 GTATCTCATTAGGACGACGG
* * * * * *
11565442 ATTTGGTCTACTTCTCTATACCTCATCAGGAAGATGAC-CTCTTTATTGCTTTGACCCACTTCTC
1 ATTTGGTATACTTCTCTATACCTCATCAAGAAGATGACAAT-TTCATTGATTTAACCCACTTCTC
11565506 TGTATCT
65 TGTATCT
11565513 TATCAGGAAG
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
84 1 0.02
85 59 0.98
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.40
Consensus pattern (85 bp):
ATTTGGTATACTTCTCTATACCTCATCAAGAAGATGACAATTTCATTGATTTAACCCACTTCTCT
GTATCTCATTAGGACGACGG
Found at i:11565634 original size:208 final size:208
Alignment explanation
Indices: 11565235--11566101 Score: 1004
Period size: 208 Copynumber: 4.2 Consensus size: 208
11565225 GCTTCATCTC
* * * * *
11565235 TTGGTCCACTTCTCTATATCTCATCAAGAAGATGACCGCTTTATTACTTCGACCCACTTCTCTAT
1 TTGGTCTACTTCTCTATATCTCATCAAGAAGATGACCACTTTATTGCTTTGACCCACTTCTCTGT
* * * * * * *
11565300 ATCTCATCAGGAAGATAGGGGTTTGAAGTTTCACTCGCATTAAGTTTTGCTTCATTTATTTGGTA
66 ATCTCATCAGGAAGAT-GAGGTTTGAAGTCTCACTCACATTAAGCTTCGCTTCATTGATTTGGTC
* * * **
11565365 TACTTCTTTGTATCTCATCAAGAAGATGACAATTTCATTGATTT-AATCCACTTCTCTGTATCTC
130 TACTTCTCTGTATCTCATCAGGAAGATGACCACCTCATTG-TTTCAATCCACTTCTCTGTATCTC
* *
11565429 ATTAGGACGACGGAT
194 ATCAGGAAGACGGAT
* * *
11565444 TTGGTCTACTTCTCTATACCTCATCAGGAAGATGACCTCTTTATTGCTTTGACCCACTTCTCTGT
1 TTGGTCTACTTCTCTATATCTCATCAAGAAGATGACCACTTTATTGCTTTGACCCACTTCTCTGT
* * * * *
11565509 ATCTTATCAGGAAGAT-AGGGTTTGGAAGTTTTACT-ACATTGAGCTTCGCTTCATTGAATTGGT
66 ATCTCATCAGGAAGATGA-GGTTT-GAAGTCTCACTCACATTAAGCTTCGCTTCATTGATTTGGT
* * * *
11565572 CTACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGTTTTAATCCACTTTTCTGTATCTC
129 CTACTTCTCTGTATCTCATCAGGAAGATGACCACCTCATTGTTTCAATCCACTTCTCTGTATCTC
**
11565637 ATCAGGAAGATAGAT
194 ATCAGGAAGACGGAT
* ** * * * * *
11565652 TTGGT-TCACTTCTTTGCATCTCGTCAGGAAGATGACCACTTTAGTGCTTTAACCCACTTCTTTG
1 TTGGTCT-ACTTCTCTATATCTCATCAAGAAGATGACCACTTTATTGCTTTGACCCACTTCTCTG
* * * ** *
11565716 TATCTCATTAAGAAGATGAGGTTTGAAGTCTCATTCGTATTAAGCTTCGCCTCATTGATTTGGTC
65 TATCTCATCAGGAAGATGAGGTTTGAAGTCTCACTCACATTAAGCTTCGCTTCATTGATTTGGTC
* * * *
11565781 TACTTCTCTGTATCTCATGAGGAGGATGATCACCTCATTGTTTCATTCCACTTCTCTGTATCTCA
130 TACTTCTCTGTATCTCATCAGGAAGATGACCACCTCATTGTTTCAATCCACTTCTCTGTATCTCA
* *
11565846 TCCGAAAGACGGAT
195 TCAGGAAGACGGAT
* **
11565860 TTGGTCTACTTCTCTGTATCTCATCAAGAAGATGACCACTTTATTGCTTTGAATCACTTCTCTGT
1 TTGGTCTACTTCTCTATATCTCATCAAGAAGATGACCACTTTATTGCTTTGACCCACTTCTCTGT
* * * * * *
11565925 ATCTCATCAGGAAGATGAGGTTTGAAGTCTTATTCATATTGAGTTTCGCTTCATTGATTTGGTTT
66 ATCTCATCAGGAAGATGAGGTTTGAAGTCTCACTCACATTAAGCTTCGCTTCATTGATTTGGTCT
* * * * *
11565990 ACTTCTCTATATCTCATCAGGAAGATGATCGCCTCATTGTTTCAATCCACTTTTCTGTATCTTAT
131 ACTTCTCTGTATCTCATCAGGAAGATGACCACCTCATTGTTTCAATCCACTTCTCTGTATCTCAT
*
11566055 CAGGAAGATGGAT
196 CAGGAAGACGGAT
* * * * *
11566068 TTGATCCATTTTTCTGTATCTCATCAAGAAGATG
1 TTGGTCTACTTCTCTATATCTCATCAAGAAGATG
11566102 GATTTGGTCC
Statistics
Matches: 561, Mismatches: 90, Indels: 15
0.84 0.14 0.02
Matches are distributed among these distances:
207 12 0.02
208 464 0.83
209 85 0.15
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.39
Consensus pattern (208 bp):
TTGGTCTACTTCTCTATATCTCATCAAGAAGATGACCACTTTATTGCTTTGACCCACTTCTCTGT
ATCTCATCAGGAAGATGAGGTTTGAAGTCTCACTCACATTAAGCTTCGCTTCATTGATTTGGTCT
ACTTCTCTGTATCTCATCAGGAAGATGACCACCTCATTGTTTCAATCCACTTCTCTGTATCTCAT
CAGGAAGACGGAT
Found at i:11565710 original size:85 final size:85
Alignment explanation
Indices: 11565574--11565732 Score: 212
Period size: 85 Copynumber: 1.9 Consensus size: 85
11565564 GAATTGGTCT
* * * * *
11565574 ACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGTTTTAATCCACTT-TTCTGTATCTCA
1 ACTTCTCTGCATCTCATCAGGAAGATGACCACTTCAGTGCTTTAACCCACTTCTT-TGTATCTCA
*
11565638 TCAGGAAGATAGATTTGGTTC
65 TCAAGAAGATAGATTTGGTTC
* * *
11565659 ACTTCTTTGCATCTCGTCAGGAAGATGACCACTTTAGTGCTTTAACCCACTTCTTTGTATCTCAT
1 ACTTCTCTGCATCTCATCAGGAAGATGACCACTTCAGTGCTTTAACCCACTTCTTTGTATCTCAT
*
11565724 TAAGAAGAT
66 CAAGAAGAT
11565733 GAGGTTTGAA
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
85 61 0.97
86 2 0.03
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (85 bp):
ACTTCTCTGCATCTCATCAGGAAGATGACCACTTCAGTGCTTTAACCCACTTCTTTGTATCTCAT
CAAGAAGATAGATTTGGTTC
Found at i:11565918 original size:85 final size:85
Alignment explanation
Indices: 11565772--11565932 Score: 234
Period size: 85 Copynumber: 1.9 Consensus size: 85
11565762 TCGCCTCATT
* * * * *
11565772 GATTTGGTCTACTTCTCTGTATCTCATGAGGAGGATGATCACCTCATTGTTTCATTCCACTTCTC
1 GATTTGGTCTACTTCTCTGTATCTCATCAAGAAGATGACCACCTCATTGTTTCAATCCACTTCTC
11565837 TGTATCTCATCCGAAAGACG
66 TGTATCTCATCCGAAAGACG
* * *
11565857 GATTTGGTCTACTTCTCTGTATCTCATCAAGAAGATGACCACTTTATTGCTTTGAAT-CACTTCT
1 GATTTGGTCTACTTCTCTGTATCTCATCAAGAAGATGACCACCTCATTG-TTTCAATCCACTTCT
11565921 CTGTATCTCATC
65 CTGTATCTCATC
11565933 AGGAAGATGA
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
85 62 0.93
86 5 0.07
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.39
Consensus pattern (85 bp):
GATTTGGTCTACTTCTCTGTATCTCATCAAGAAGATGACCACCTCATTGTTTCAATCCACTTCTC
TGTATCTCATCCGAAAGACG
Found at i:11566101 original size:416 final size:417
Alignment explanation
Indices: 11565239--11566101 Score: 1135
Period size: 416 Copynumber: 2.1 Consensus size: 417
11565229 CATCTCTTGG
* * * * *
11565239 TCCACTTCTCTATATCTCATCAAGAAGATGACCGCTTTATTACTTCGACCCACTTCTCTATATCT
1 TCCACTTCTTTGTATCTCATCAAGAAGATGACCACTTTAGTACTTCAACCCACTTCTCTATATCT
* * * * * * *
11565304 CATCAGGAAGATAGGGGTTTGAAGTTTCACTCGCATTAAGTTTTGCTTCATTTATTTGGTATACT
66 CATCAAGAAGATAGAGGTTTGAAGTCTCACTCGCATTAAGCTTCGCCTCATTGATTTGGTATACT
* ** *
11565369 TCTTTGTATCTCATCAAGAAGATGACAATTTCATTGATTTAATCCACTTCTCTGTATCTCATTAG
131 TCTCTGTATCTCATCAAGAAGATGACAACCTCATTGATTTAATCCACTTCTCTGTATCTCATCAG
* * * * *
11565434 GACGACGGATTTGGTCTACTTCTCTATACCTCATCAGGAAGATGACCTCTTTATTGCTTTGACCC
196 AAAGACGGATTTGGTCTACTTCTCTATACCTCATCAAGAAGATGACCACTTTATTGCTTTGAACC
* *
11565499 ACTTCTCTGTATCTTATCAGGAAGATAGGGTTTGGAAGTTTTACTACATTGAGCTTCGCTTCATT
261 ACTTCTCTGTATCTCATCAGGAAGATAGGGTTTGGAAGTCTTACTACATTGAGCTTCGCTTCATT
* * *
11565564 GAATTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGTTTTAATCCACTTTTC
326 GAATTGGTCTACTTCTCTATATCTCATCAGGAAGATGACCGCCTCATTGTTTCAATCCACTTTTC
*
11565629 TGTATCTCATCAGGAAGATAGATTTGG
391 TGTATCTCATCAGGAAGATAGATTTGA
* * * * * * * *
11565656 TTCACTTCTTTGCATCTCGTCAGGAAGATGACCACTTTAGTGCTTTAACCCACTTCTTTGTATCT
1 TCCACTTCTTTGTATCTCATCAAGAAGATGACCACTTTAGTACTTCAACCCACTTCTCTATATCT
* * * *
11565721 CATTAAGAAGAT-GAGGTTTGAAGTCTCATTCGTATTAAGCTTCGCCTCATTGATTTGGTCTACT
66 CATCAAGAAGATAGAGGTTTGAAGTCTCACTCGCATTAAGCTTCGCCTCATTGATTTGGTATACT
* * * *
11565785 TCTCTGTATCTCATGAGGAGGATGATC-ACCTCATTG-TTTCATTCCACTTCTCTGTATCTCATC
131 TCTCTGTATCTCATCAAGAAGATGA-CAACCTCATTGATTT-AATCCACTTCTCTGTATCTCATC
* * *
11565848 CGAAAGACGGATTTGGTCTACTTCTCTGTATCTCATCAAGAAGATGACCACTTTATTGCTTTGAA
194 AGAAAGACGGATTTGGTCTACTTCTCTATACCTCATCAAGAAGATGACCACTTTATTGCTTTGAA
* * * *
11565913 TCACTTCTCTGTATCTCATCAGGAAGAT-GAGGTTT-GAAGTCTTATTCATATTGAGTTTCGCTT
259 CCACTTCTCTGTATCTCATCAGGAAGATAG-GGTTTGGAAGTCTTACT-ACATTGAGCTTCGCTT
* * *
11565976 CATTGATTTGGTTTACTTCTCTATATCTCATCAGGAAGATGATCGCCTCATTGTTTCAATCCACT
322 CATTGAATTGGTCTACTTCTCTATATCTCATCAGGAAGATGACCGCCTCATTGTTTCAATCCACT
* *
11566041 TTTCTGTATCTTATCAGGAAGATGGATTTGA
387 TTTCTGTATCTCATCAGGAAGATAGATTTGA
*
11566072 TCCA-TTTTTCTGTATCTCATCAAGAAGATG
1 TCCACTTCTT-TGTATCTCATCAAGAAGATG
11566102 GATTTGGTCC
Statistics
Matches: 381, Mismatches: 60, Indels: 11
0.84 0.13 0.02
Matches are distributed among these distances:
415 17 0.04
416 301 0.79
417 63 0.17
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.39
Consensus pattern (417 bp):
TCCACTTCTTTGTATCTCATCAAGAAGATGACCACTTTAGTACTTCAACCCACTTCTCTATATCT
CATCAAGAAGATAGAGGTTTGAAGTCTCACTCGCATTAAGCTTCGCCTCATTGATTTGGTATACT
TCTCTGTATCTCATCAAGAAGATGACAACCTCATTGATTTAATCCACTTCTCTGTATCTCATCAG
AAAGACGGATTTGGTCTACTTCTCTATACCTCATCAAGAAGATGACCACTTTATTGCTTTGAACC
ACTTCTCTGTATCTCATCAGGAAGATAGGGTTTGGAAGTCTTACTACATTGAGCTTCGCTTCATT
GAATTGGTCTACTTCTCTATATCTCATCAGGAAGATGACCGCCTCATTGTTTCAATCCACTTTTC
TGTATCTCATCAGGAAGATAGATTTGA
Found at i:11566118 original size:245 final size:245
Alignment explanation
Indices: 11565827--11566346 Score: 745
Period size: 245 Copynumber: 2.1 Consensus size: 245
11565817 ATTGTTTCAT
* * *
11565827 TCCACTTCTCTGTATCTCATC-CGAAAGACGGATTTGGTCTACTTCTCTGTATCTCATCAAGAAG
1 TCCACTTCTCTGTATCTCATCAAG-AAGATGGATTTGGTCCACTTCTCTGTATCTCATCAAGAAG
* * * *
11565891 ATGACCACTTTATTGCTTTGAATCACTTCTCTGTATCTCATCAGGAAGATGAGGTTTGAAGTCTT
65 ATGACCACTTTATTGCTTTGAACCACTTCTCTGTATCTCATCAGGAAGATGAGGTTTAAAGCCTC
* * *
11565956 ATTCATATTGAGTTTCGCTTCATTGATTTGGTTTACTTCTCTATATCTCATCAGGAAGATGATCG
130 ATTCATATTGAGCTTCGCTTAATTGATTTGGTCTACTTCTCTATATCTCATCAGGAAGATGATCG
* *
11566021 CCTCATTGTTTCAATCCACTTTTCTGTATCTTATCAGGAAGATGGATTTGA
195 CCTCATTGTTTCAATCCACTTCTCTGTATCTCATCAGGAAGATGGATTTGA
* * * * *
11566072 TCCATTTTTCTGTATCTCATCAAGAAGATGGATTTGGTCCACTTCTCTGTATCTCATTAGGGAGA
1 TCCACTTCTCTGTATCTCATCAAGAAGATGGATTTGGTCCACTTCTCTGTATCTCATCAAGAAGA
* * * * *
11566137 TGATCGCTTTATTGCTTTGACCCACTTCTTTGTATCTCATCAGGAAGATGGGGTTTAAAGCCTCA
66 TGACCACTTTATTGCTTTGAACCACTTCTCTGTATCTCATCAGGAAGATGAGGTTTAAAGCCTCA
* * * * *
11566202 TTCGTATTGAGCTTCGCTTAATTGATTTGGTCTACTTCTTTGTATCTCATTAGGAAGATGATTGC
131 TTCATATTGAGCTTCGCTTAATTGATTTGGTCTACTTCTCTATATCTCATCAGGAAGATGATCGC
* * * *
11566267 CTTATTGTTTCAATCGACTTCTCTGTATCTCATTAGGAAGATGGATTTGG
196 CTCATTGTTTCAATCCACTTCTCTGTATCTCATCAGGAAGATGGATTTGA
11566317 TCCACTTCTCTGTATCTCATCAAGAAGATG
1 TCCACTTCTCTGTATCTCATCAAGAAGATG
11566347 ATCGCTTTAT
Statistics
Matches: 241, Mismatches: 33, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
245 240 1.00
246 1 0.00
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.39
Consensus pattern (245 bp):
TCCACTTCTCTGTATCTCATCAAGAAGATGGATTTGGTCCACTTCTCTGTATCTCATCAAGAAGA
TGACCACTTTATTGCTTTGAACCACTTCTCTGTATCTCATCAGGAAGATGAGGTTTAAAGCCTCA
TTCATATTGAGCTTCGCTTAATTGATTTGGTCTACTTCTCTATATCTCATCAGGAAGATGATCGC
CTCATTGTTTCAATCCACTTCTCTGTATCTCATCAGGAAGATGGATTTGA
Found at i:11566138 original size:37 final size:37
Alignment explanation
Indices: 11566034--11566138 Score: 147
Period size: 37 Copynumber: 2.8 Consensus size: 37
11566024 CATTGTTTCA
*
11566034 ATCCACTTTTCTGTATCTTATCAGGAAGATGGATTTG
1 ATCCACTTTTCTGTATCTCATCAGGAAGATGGATTTG
* *
11566071 ATCCATTTTTCTGTATCTCATCAAGAAGATGGATTTG
1 ATCCACTTTTCTGTATCTCATCAGGAAGATGGATTTG
* * * *
11566108 GTCCACTTCTCTGTATCTCATTAGGGAGATG
1 ATCCACTTTTCTGTATCTCATCAGGAAGATG
11566139 ATCGCTTTAT
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.24, C:0.18, G:0.19, T:0.39
Consensus pattern (37 bp):
ATCCACTTTTCTGTATCTCATCAGGAAGATGGATTTG
Found at i:11566230 original size:453 final size:453
Alignment explanation
Indices: 11565618--11566554 Score: 1266
Period size: 453 Copynumber: 2.1 Consensus size: 453
11565608 CATTGTTTTA
* * * * * *
11565618 ATCCACTTTTCTGTATCTCATCAGGAAGATAGATTTGGTTCACTTCTTTGCATCTCGTCAGGAAG
1 ATCCATTTTTCTGTATCTCATCAAGAAGATGGATTTGGTCCACTTCTCTGCATCTCATCAGGAAG
* * *
11565683 ATGACCACTTTAGTGCTTTAACCCACTTCTTTGTATCTCATTAAGAAGATGAGGTTTGAAGTCTC
66 ATGACCACTTTAGTGCTTTAACCCACTTCTTTGTATCTCATCAAGAAGATGAGGTTTAAAGCCTC
* *
11565748 ATTCGTATTAAGCTTCGCCTCATTGATTTGGTCTACTTCTCTGTATCTCATGAGGAGGATGATCA
131 ATTCGTATTAAGCTTCGCCTAATTGATTTGGTCTACTTCTCTGTATCTCATGAGGAAGATGATCA
* * *
11565813 CCTCATTGTTTCATTCCACTTCTCTGTATCTCATCCGAAAGACGGATTTGGTCTACTTCTCTGTA
196 CCTCATTGTTTCAATCCACTTCTCTGTATCTCATCAGAAAGACGGATTTGGTCCACTTCTCTGTA
* *
11565878 TCTCATCAAGAAGATGACCACTTTATTGCTTTGAATCACTTCTCTGTATCTCATCAGGAAGATGA
261 TCTCATCAAGAAGATGACCACTTTATTGCTTTGAACCACTTCTCTGTATCTCATCAAGAAGATGA
* * *
11565943 GGTTTGAAGT-CTTATTCATATTGAGTTTCGCTTCATTGATTTGGTTTACTTCTCTATATCTCAT
326 GGTTTGAAGTAC-CATTCATATTGAGCTTCGCTTCATTGATTTGGTCTACTTCTCTATATCTCAT
* * * * * * *
11566007 CAGGAAGATGATCGCCTCATTGTTTCAATCCACTT-TTCTGTATCTTATCAGGAAGATGGATTTG
390 AAGGAAGATGACCACCTCATTGCTTCAATCCACTTCTT-TATATCTTATCAAGAAGACGGATTTG
* * *
11566071 ATCCATTTTTCTGTATCTCATCAAGAAGATGGATTTGGTCCACTTCTCTGTATCTCATTAGGGAG
1 ATCCATTTTTCTGTATCTCATCAAGAAGATGGATTTGGTCCACTTCTCTGCATCTCATCAGGAAG
* * * * * *
11566136 ATGATCGCTTTATTGCTTTGACCCACTTCTTTGTATCTCATCAGGAAGATGGGGTTTAAAGCCTC
66 ATGACCACTTTAGTGCTTTAACCCACTTCTTTGTATCTCATCAAGAAGATGAGGTTTAAAGCCTC
* * * * **
11566201 ATTCGTATTGAGCTTCGCTTAATTGATTTGGTCTACTTCTTTGTATCTCATTAGGAAGATGATTG
131 ATTCGTATTAAGCTTCGCCTAATTGATTTGGTCTACTTCTCTGTATCTCATGAGGAAGATGATCA
* * * * *
11566266 CCTTATTGTTTCAATCGACTTCTCTGTATCTCATTAGGAAGATGGATTTGGTCCACTTCTCTGTA
196 CCTCATTGTTTCAATCCACTTCTCTGTATCTCATCAGAAAGACGGATTTGGTCCACTTCTCTGTA
* * * * *
11566331 TCTCATCAAGAAGATGATCGCTTTATTGCTTTGACCCACTTCTCTGTATCTCATTAAGAAGATGG
261 TCTCATCAAGAAGATGACCACTTTATTGCTTTGAACCACTTCTCTGTATCTCATCAAGAAGATGA
** * *
11566396 GGTTTGAAGTACCATTTGTATTGAGCTTCGCTTCATTGATTTGGTCTACTTCTCTGTATCTTATA
326 GGTTTGAAGTACCATTCATATTGAGCTTCGCTTCATTGATTTGGTCTACTTCTCTATATCTCATA
* * *
11566461 AGGAAGATGACCACTTCATTGCTTCAATCCACTTCTTTATATCTTATTAAGAAGACGGGTTTG
391 AGGAAGATGACCACCTCATTGCTTCAATCCACTTCTTTATATCTTATCAAGAAGACGGATTTG
* * * ** *
11566524 GTTCATTTCTCTACATCTCGTCAAGAAGATG
1 ATCCATTTTTCTGTATCTCATCAAGAAGATG
11566555 ACCACTTATT
Statistics
Matches: 418, Mismatches: 64, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
453 415 0.99
454 3 0.01
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.39
Consensus pattern (453 bp):
ATCCATTTTTCTGTATCTCATCAAGAAGATGGATTTGGTCCACTTCTCTGCATCTCATCAGGAAG
ATGACCACTTTAGTGCTTTAACCCACTTCTTTGTATCTCATCAAGAAGATGAGGTTTAAAGCCTC
ATTCGTATTAAGCTTCGCCTAATTGATTTGGTCTACTTCTCTGTATCTCATGAGGAAGATGATCA
CCTCATTGTTTCAATCCACTTCTCTGTATCTCATCAGAAAGACGGATTTGGTCCACTTCTCTGTA
TCTCATCAAGAAGATGACCACTTTATTGCTTTGAACCACTTCTCTGTATCTCATCAAGAAGATGA
GGTTTGAAGTACCATTCATATTGAGCTTCGCTTCATTGATTTGGTCTACTTCTCTATATCTCATA
AGGAAGATGACCACCTCATTGCTTCAATCCACTTCTTTATATCTTATCAAGAAGACGGATTTG
Found at i:11566263 original size:123 final size:122
Alignment explanation
Indices: 11565857--11566310 Score: 452
Period size: 123 Copynumber: 3.7 Consensus size: 122
11565847 CCGAAAGACG
* * * * *
11565857 GATTTGGTCTACTTCTCTGTATCTCATCAAGAAGATGACCACTTTATTGCTTTGAAT-CACTTCT
1 GATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGATCGCCTTATTG-TTTCAATCCACTTCT
* * * * *
11565921 CTGTATCTCATCAGGAAGATGAGGTTTGAAGTCTTATTCATATTGAGTTTCGCTTCATT
65 CTGTATCTCATCAGGAAGATGGGGTTT-AAGCCTTATTCGTATTGAGCTTCGCTTAATT
* * * *
11565980 GATTTGGTTTACTTCTCTATATCTCATCAGGAAGATGATCGCCTCATTGTTTCAATCCACTTTTC
1 GATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGATCGCCTTATTGTTTCAATCCACTTCTC
* * * * * * **** *
11566045 TGTATCTTATCAGGAAGAT-GGATTTGATCCATTTTTCTGTATCT---CATCAAGAAGATG
66 TGTATCTCATCAGGAAGATGGGGTTTAAGCC-TTATTC-GTAT-TGAGCTTCGCTTA-ATT
* * * * * *
11566102 GATTTGGTCCACTTCTCTGTATCTCATTAGGGAGATGATCGCTTTATTGCTTT-GACCCACTTCT
1 GATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGATCGCCTTATTG-TTTCAATCCACTTCT
* *
11566166 TTGTATCTCATCAGGAAGATGGGGTTTAAAGCCTCATTCGTATTGAGCTTCGCTTAATT
65 CTGTATCTCATCAGGAAGATGGGGTTT-AAGCCTTATTCGTATTGAGCTTCGCTTAATT
* * * *
11566225 GATTTGGTCTACTTCTTTGTATCTCATTAGGAAGATGATTGCCTTATTGTTTCAATCGACTTCTC
1 GATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGATCGCCTTATTGTTTCAATCCACTTCTC
*
11566290 TGTATCTCATTAGGAAGATGG
66 TGTATCTCATCAGGAAGATGG
11566311 ATTTGGTCCA
Statistics
Matches: 261, Mismatches: 58, Indels: 24
0.76 0.17 0.07
Matches are distributed among these distances:
121 5 0.02
122 92 0.35
123 156 0.60
124 8 0.03
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.40
Consensus pattern (122 bp):
GATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGATCGCCTTATTGTTTCAATCCACTTCTC
TGTATCTCATCAGGAAGATGGGGTTTAAGCCTTATTCGTATTGAGCTTCGCTTAATT
Found at i:11566372 original size:85 final size:85
Alignment explanation
Indices: 11566225--11566395 Score: 236
Period size: 85 Copynumber: 2.0 Consensus size: 85
11566215 TCGCTTAATT
* * * * * * *
11566225 GATTTGGTCTACTTCTTTGTATCTCATTAGGAAGATGATTGCCTTATTGTTTCAATCGACTTCTC
1 GATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGATCGCCTTATTGTTTCAACCCACTTCTC
*
11566290 TGTATCTCATTAGGAAGATG
66 TGTATCTCATTAAGAAGATG
* *
11566310 GATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGATCGCTTTATTGCTTT-GACCCACTTCT
1 GATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGATCGCCTTATTG-TTTCAACCCACTTCT
11566374 CTGTATCTCATTAAGAAGATG
65 CTGTATCTCATTAAGAAGATG
11566395 G
1 G
11566396 GGTTTGAAGT
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
85 72 0.96
86 3 0.04
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.40
Consensus pattern (85 bp):
GATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGATCGCCTTATTGTTTCAACCCACTTCTC
TGTATCTCATTAAGAAGATG
Found at i:11566438 original size:208 final size:207
Alignment explanation
Indices: 11566071--11566779 Score: 787
Period size: 208 Copynumber: 3.4 Consensus size: 207
11566061 GATGGATTTG
* * * * * * *
11566071 ATCCATTTTTCTGTATCTCATCAAGAAGATGGATTTGGTCCACTTCTCTGTATCTCATTAGGGAG
1 ATCCACTTCTCTGTATCTCATCAAGAAGACGGATTTGGTCCACTTCTCTGCATCTCATCAAGAAG
* * * *
11566136 ATGATCGCTTTATTGCTTTGACCCACTTCTTTGTATCTCATCAGGAAGATGGGGTTTAAAG-CCT
66 ATGACCACTTTATTGCTTTGACCCACTTCTTTGTATCTCATCAGGAAGATGGGGTTTGAAGTAC-
* *
11566200 CATTCGTATTGAGCTTCGCTTAATTGATTTGGTCTACTTCTTTGTATCTCATTAGGAAGATGATT
130 CATTCGTATTGAGCTTCGCTTCATTGATTTGGTCTACTTCTCTGTATCTCATTAGGAAGATGA-T
11566265 GCCTTATTGTTTCA
194 GCCTTATTGTTTCA
* * * * *
11566279 ATCGACTTCTCTGTATCTCATTAGGAAGATGGATTTGGTCCACTTCTCTGTATCTCATCAAGAAG
1 ATCCACTTCTCTGTATCTCATCAAGAAGACGGATTTGGTCCACTTCTCTGCATCTCATCAAGAAG
* * * * *
11566344 ATGATCGCTTTATTGCTTTGACCCACTTCTCTGTATCTCATTAAGAAGATGGGGTTTGAAGTACC
66 ATGACCACTTTATTGCTTTGACCCACTTCTTTGTATCTCATCAGGAAGATGGGGTTTGAAGTACC
* * * *
11566409 ATTTGTATTGAGCTTCGCTTCATTGATTTGGTCTACTTCTCTGTATCTTATAAGGAAGATGA-CC
131 ATTCGTATTGAGCTTCGCTTCATTGATTTGGTCTACTTCTCTGTATCTCATTAGGAAGATGATGC
*
11566473 ACTTCATTGCTTCA
196 -CTT-ATTGTTTCA
* * * * * * * * *
11566487 ATCCACTTCTTTATATCTTATTAAGAAGACGGGTTTGGTTCATTTCTCTACATCTCGTCAAGAAG
1 ATCCACTTCTCTGTATCTCATCAAGAAGACGGATTTGGTCCACTTCTCTGCATCTCATCAAGAAG
* ** * * * * * * **
11566552 ATGACCAC-TTATTGGTTCAACCCACTTTTTTATATCCCACCAGGAAAATGGGGTTTGAATTTTC
66 ATGACCACTTTATTGCTTTGACCCACTTCTTTGTATCTCATCAGGAAGATGGGGTTTGAAGTACC
* * * * * * *
11566616 ACTCATATTGAGCTACGGTTCAATAATTTGGTCTACTTCTCTATATCTCATTAGGAAGATGATCG
131 ATTCGTATTGAGCTTCGCTTCATTGATTTGGTCTACTTCTCTGTATCTCATTAGGAAGATGAT-G
*
11566681 CCTCATTGATTT-A
195 CCTTATTG-TTTCA
* * * *
11566694 ATCCACTTCTCTGTATCTCATCAAGAAGACAGATTTGGTTCAGTTCTCTGCATCTCGTCAAGAAG
1 ATCCACTTCTCTGTATCTCATCAAGAAGACGGATTTGGTCCACTTCTCTGCATCTCATCAAGAAG
*
11566759 ATGACCACTTTATTACTTTGA
66 ATGACCACTTTATTGCTTTGA
11566780 AAGACTGTAA
Statistics
Matches: 421, Mismatches: 73, Indels: 14
0.83 0.14 0.03
Matches are distributed among these distances:
206 1 0.00
207 167 0.40
208 251 0.60
209 2 0.00
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (207 bp):
ATCCACTTCTCTGTATCTCATCAAGAAGACGGATTTGGTCCACTTCTCTGCATCTCATCAAGAAG
ATGACCACTTTATTGCTTTGACCCACTTCTTTGTATCTCATCAGGAAGATGGGGTTTGAAGTACC
ATTCGTATTGAGCTTCGCTTCATTGATTTGGTCTACTTCTCTGTATCTCATTAGGAAGATGATGC
CTTATTGTTTCA
Found at i:11566846 original size:39 final size:39
Alignment explanation
Indices: 11566792--11566988 Score: 184
Period size: 39 Copynumber: 5.1 Consensus size: 39
11566782 GACTGTAATA
*
11566792 TGCCTCATGATCGGGGTAAGAGATTGGATGGTTACAATC
1 TGCCTCATAATCGGGGTAAGAGATTGGATGGTTACAATC
* * * * * *
11566831 TGCCTCATAATCGGGGTAAAAGATCGGGTGGCTATAATT
1 TGCCTCATAATCGGGGTAAGAGATTGGATGGTTACAATC
* * * * *
11566870 TACCTCACAATCGGGGTAAGAGATTAGATGGCTATAATC
1 TGCCTCATAATCGGGGTAAGAGATTGGATGGTTACAATC
* *
11566909 TG-CTCTATAATC-GGGTAAGAGATTGGATGGTTAAAATT
1 TGCCTC-ATAATCGGGGTAAGAGATTGGATGGTTACAATC
* * * * *
11566947 TACCCCATGATCGGGGTAACAGATTTGATGGCTT-CAATC
1 TGCCTCATAATCGGGGTAAGAGATTGGATGG-TTACAATC
11566986 TGC
1 TGC
11566989 TCCATGATCG
Statistics
Matches: 126, Mismatches: 28, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
38 31 0.25
39 93 0.74
40 2 0.02
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (39 bp):
TGCCTCATAATCGGGGTAAGAGATTGGATGGTTACAATC
Found at i:11566971 original size:77 final size:77
Alignment explanation
Indices: 11566797--11567001 Score: 234
Period size: 77 Copynumber: 2.6 Consensus size: 77
11566787 TAATATGCCT
* * * *
11566797 CATGATCGGGGTAAGAGATTGGATGGTTACAATCTGC-CTCATAATCGGGGTAAAAGATCGGGTG
1 CATGATCGGGGTAAGAGATTAGATGGCTATAATCTGCTCT-ATAATC-GGGTAAAAGATCGGATG
* *
11566861 GCTATAATTTACCT
64 GCTAAAATTTACCC
** * * *
11566875 CACAATCGGGGTAAGAGATTAGATGGCTATAATCTGCTCTATAATCGGGTAAGAGATTGGATGGT
1 CATGATCGGGGTAAGAGATTAGATGGCTATAATCTGCTCTATAATCGGGTAAAAGATCGGATGGC
11566940 TAAAATTTACCC
66 TAAAATTTACCC
* * * *
11566952 CATGATCGGGGTAACAGATTTGATGGCT-TCAATCTGCTCCATGATCGGGT
1 CATGATCGGGGTAAGAGATTAGATGGCTAT-AATCTGCTCTATAATCGGGT
11567002 GGCTGCAATC
Statistics
Matches: 108, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
76 1 0.01
77 67 0.62
78 38 0.35
79 2 0.02
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (77 bp):
CATGATCGGGGTAAGAGATTAGATGGCTATAATCTGCTCTATAATCGGGTAAAAGATCGGATGGC
TAAAATTTACCC
Found at i:11567011 original size:26 final size:26
Alignment explanation
Indices: 11566975--11567026 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
11566965 ACAGATTTGA
* *
11566975 TGGCTTCAATCTGCTCCATGATCGGG
1 TGGCTGCAATCTGCCCCATGATCGGG
11567001 TGGCTGCAATCTGCCCCATGATCGGG
1 TGGCTGCAATCTGCCCCATGATCGGG
11567027 GTAAGAGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.15, C:0.29, G:0.29, T:0.27
Consensus pattern (26 bp):
TGGCTGCAATCTGCCCCATGATCGGG
Found at i:11567349 original size:49 final size:49
Alignment explanation
Indices: 11567296--11567513 Score: 192
Period size: 49 Copynumber: 4.4 Consensus size: 49
11567286 CAGGTTCACT
* * *
11567296 GTTGCGGCCTCAACCTTTCCCTTCAAATCTTCATGGTACCAGGTTTGCC
1 GTTGTGGCCTCAACCTTTCCCATCATATCTTCATGGTACCAGGTTTGCC
* * *
11567345 GTTGCGGCCTCAACCTTTCCCATCACAT-TTCATGGTACC-GGATT-CAC
1 GTTGTGGCCTCAACCTTTCCCATCATATCTTCATGGTACCAGGTTTGC-C
* * ** * * **
11567392 TGTTGTGGCCTCAATCC-TTCCCATCATGTTTTCTAAAGTATCGGGTTTTTC
1 -GTTGTGGCCTCAA-CCTTTCCCATCATATCTTC-ATGGTACCAGGTTTGCC
* * *
11567443 GTTATGGCCTCAACCTTTCCCTTCATGTCTTCATGGTACCAGGTTTGCC
1 GTTGTGGCCTCAACCTTTCCCATCATATCTTCATGGTACCAGGTTTGCC
* * *
11567492 ATTGTAGCCTCAATCTTTCCCA
1 GTTGTGGCCTCAACCTTTCCCA
11567514 ACTCATCTTC
Statistics
Matches: 136, Mismatches: 25, Indels: 16
0.77 0.14 0.09
Matches are distributed among these distances:
46 1 0.01
47 5 0.04
48 33 0.24
49 61 0.45
50 31 0.23
51 5 0.04
ACGTcount: A:0.17, C:0.30, G:0.17, T:0.36
Consensus pattern (49 bp):
GTTGTGGCCTCAACCTTTCCCATCATATCTTCATGGTACCAGGTTTGCC
Found at i:11567402 original size:48 final size:50
Alignment explanation
Indices: 11567281--11567417 Score: 169
Period size: 49 Copynumber: 2.8 Consensus size: 50
11567271 ATGTTCCTAA
* *
11567281 GGTATCAGG-TTCACTGTTGCGGCCTCAACCTTTCCCTTCAAATCTTCAT
1 GGTACCAGGATTCACTGTTGCGGCCTCAACCTTTCCCATCAAATCTTCAT
* *
11567330 GGTACCAGGTTTGC-C-GTTGCGGCCTCAACCTTTCCCATCACAT-TTCAT
1 GGTACCAGGATT-CACTGTTGCGGCCTCAACCTTTCCCATCAAATCTTCAT
*
11567378 GGTACC-GGATTCACTGTTGTGGCCTCAATCC-TTCCCATCA
1 GGTACCAGGATTCACTGTTGCGGCCTCAA-CCTTTCCCATCA
11567418 TGTTTTCTAA
Statistics
Matches: 78, Mismatches: 5, Indels: 11
0.83 0.05 0.12
Matches are distributed among these distances:
46 1 0.01
47 5 0.06
48 32 0.41
49 36 0.46
50 3 0.04
51 1 0.01
ACGTcount: A:0.18, C:0.32, G:0.18, T:0.32
Consensus pattern (50 bp):
GGTACCAGGATTCACTGTTGCGGCCTCAACCTTTCCCATCAAATCTTCAT
Found at i:11567525 original size:99 final size:97
Alignment explanation
Indices: 11567350--11567533 Score: 212
Period size: 99 Copynumber: 1.9 Consensus size: 97
11567340 TTGCCGTTGC
* *
11567350 GGCCTCAACCTTTCCCATCACATTTCATGGTACCGGATTCACTGTTGTGGCCTCAATCCTTCCCA
1 GGCCTCAACCTTTCCCATCACATTTCATGGTACCGGATTCACTATTGTAGCCTCAATCCTTCCCA
*
11567415 TCATGTTTTCTAAAGTATCGGGTTTTTCGTTAT
66 TCA-GTCTTCTAAAGTATCGGGTTTTTCGTTAT
* ** * *
11567448 GGCCTCAACCTTTCCCTTCATGTCTTCATGGTACCAGGTTTGC-C-ATTGTAGCCTCAATCTTTC
1 GGCCTCAACCTTTCCCATCACAT-TTCATGGTACC-GGATT-CACTATTGTAGCCTCAATCCTTC
*
11567511 CCAACTCA-TCTTCTAAGGTATCG
63 CC-A-TCAGTCTTCTAAAGTATCG
11567534 AGTTCGTTGT
Statistics
Matches: 72, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
98 20 0.28
99 42 0.58
100 6 0.08
101 4 0.06
ACGTcount: A:0.18, C:0.29, G:0.16, T:0.36
Consensus pattern (97 bp):
GGCCTCAACCTTTCCCATCACATTTCATGGTACCGGATTCACTATTGTAGCCTCAATCCTTCCCA
TCAGTCTTCTAAAGTATCGGGTTTTTCGTTAT
Found at i:11567792 original size:17 final size:17
Alignment explanation
Indices: 11567770--11567803 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
11567760 TAGTCAACAT
11567770 CCATTGTCGTTTGTCTA
1 CCATTGTCGTTTGTCTA
11567787 CCATTGTCGTTTGTCTA
1 CCATTGTCGTTTGTCTA
11567804 AGTCCTATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.12, C:0.24, G:0.18, T:0.47
Consensus pattern (17 bp):
CCATTGTCGTTTGTCTA
Found at i:11568554 original size:13 final size:14
Alignment explanation
Indices: 11568536--11568567 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
11568526 TAGTTCTCTC
11568536 CTTTTTCTT-TTTT
1 CTTTTTCTTCTTTT
11568549 CTTTTTCTTCTTTT
1 CTTTTTCTTCTTTT
11568563 -TTTTT
1 CTTTTT
11568568 AATTTTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 14 0.78
14 4 0.22
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (14 bp):
CTTTTTCTTCTTTT
Found at i:11568573 original size:9 final size:9
Alignment explanation
Indices: 11568561--11568585 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
11568551 TTTTCTTCTT
11568561 TTTTTTTAA
1 TTTTTTTAA
11568570 TTTTTTTAA
1 TTTTTTTAA
11568579 TTTTTTT
1 TTTTTTT
11568586 GTTTGGGTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (9 bp):
TTTTTTTAA
Found at i:11569546 original size:15 final size:14
Alignment explanation
Indices: 11569526--11569555 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
11569516 TCAACCCATC
11569526 TTTTATTCTTCTTTT
1 TTTTATT-TTCTTTT
11569541 TTTTATTTTCTTTT
1 TTTTATTTTCTTTT
11569555 T
1 T
11569556 GATAACATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTATTTTCTTTT
Found at i:11573077 original size:30 final size:29
Alignment explanation
Indices: 11573004--11573090 Score: 102
Period size: 30 Copynumber: 2.9 Consensus size: 29
11572994 TTTCAAGGCA
**
11573004 AAAATGTAATTTTGGAAAAGTTTGGGGGTC
1 AAAATGTAATTTTGGAAAAGTTT-AAGGTC
* * *
11573034 AAGATGCAATTTTGGAAAAGTTTAAGGTT
1 AAAATGTAATTTTGGAAAAGTTTAAGGTC
*
11573063 AAAATGTAATTTTTGGAAAATTTTAAGG
1 AAAATGTAA-TTTTGGAAAAGTTTAAGG
11573091 ACCTCCTGGG
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
29 10 0.21
30 38 0.79
ACGTcount: A:0.38, C:0.02, G:0.24, T:0.36
Consensus pattern (29 bp):
AAAATGTAATTTTGGAAAAGTTTAAGGTC
Found at i:11573726 original size:33 final size:33
Alignment explanation
Indices: 11573653--11573727 Score: 82
Period size: 33 Copynumber: 2.2 Consensus size: 33
11573643 AAGAAGTTTG
*
11573653 TTTATTTGATGATTTTCGAATATTTTCCTTGTTA
1 TTTATTT-ATGATTTTCAAATATTTTCCTTGTTA
*
11573687 GATTATTT-TGATTTTCAAATATTTTCTTCTTGTT-
1 -TTTATTTATGATTTTCAAATATTTTC--CTTGTTA
11573721 TTTATTT
1 TTTATTT
11573728 CATTTATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
33 23 0.66
35 12 0.34
ACGTcount: A:0.20, C:0.08, G:0.09, T:0.63
Consensus pattern (33 bp):
TTTATTTATGATTTTCAAATATTTTCCTTGTTA
Found at i:11575107 original size:26 final size:26
Alignment explanation
Indices: 11575073--11575134 Score: 97
Period size: 26 Copynumber: 2.3 Consensus size: 26
11575063 GTGTCTTTGT
11575073 AAAGTGATTTTTGATGAAATTACGATA
1 AAAG-GATTTTTGATGAAATTACGATA
* *
11575100 AAAGGATTTTTGATGAAATTAGGATT
1 AAAGGATTTTTGATGAAATTACGATA
11575126 AAAGGATTT
1 AAAGGATTT
11575135 AAATGTTGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
26 29 0.88
27 4 0.12
ACGTcount: A:0.40, C:0.02, G:0.21, T:0.37
Consensus pattern (26 bp):
AAAGGATTTTTGATGAAATTACGATA
Found at i:11575687 original size:52 final size:52
Alignment explanation
Indices: 11575608--11575798 Score: 278
Period size: 52 Copynumber: 3.7 Consensus size: 52
11575598 TAAATGAAAA
11575608 AGGTTCGATGACTACGTGTCATCGTGAGTATATAAATCCTTTACGGATTATG
1 AGGTTCGATGACTACGTGTCATCGTGAGTATATAAATCCTTTACGGATTATG
* * * *
11575660 AGGTTCGATGACTACGTGTCATTGTGAGCATATAAATCCTTTATGGATAATG
1 AGGTTCGATGACTACGTGTCATCGTGAGTATATAAATCCTTTACGGATTATG
* * * *
11575712 AGG-TCTGATGACTACATGTCATCGTAAGTATATAAATCTTTTACGGATTGTG
1 AGGTTC-GATGACTACGTGTCATCGTGAGTATATAAATCCTTTACGGATTATG
*
11575764 AGGTTCGATGACTATGTGTCATCGTGAGTAT-TAAA
1 AGGTTCGATGACTACGTGTCATCGTGAGTATATAAA
11575799 AGAAATGAAT
Statistics
Matches: 122, Mismatches: 15, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
51 6 0.05
52 114 0.93
53 2 0.02
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (52 bp):
AGGTTCGATGACTACGTGTCATCGTGAGTATATAAATCCTTTACGGATTATG
Found at i:11581327 original size:29 final size:27
Alignment explanation
Indices: 11581279--11581341 Score: 67
Period size: 29 Copynumber: 2.3 Consensus size: 27
11581269 TGTAAACAAA
*
11581279 CAAAAAATTGGAAAAAAAAGGAAAAATCT
1 CAAAAAATT-GAAAAAAAAGAAAAAAT-T
11581308 CAAAAAATT-AATAAATAAAGAAAAAATT
1 CAAAAAATTGAA-AAA-AAAGAAAAAATT
11581336 -AAAAAA
1 CAAAAAA
11581342 CTTTTCCGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
27 8 0.26
28 4 0.13
29 19 0.61
ACGTcount: A:0.71, C:0.05, G:0.08, T:0.16
Consensus pattern (27 bp):
CAAAAAATTGAAAAAAAAGAAAAAATT
Found at i:11581731 original size:17 final size:18
Alignment explanation
Indices: 11581700--11581733 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
11581690 AATTTAACTT
11581700 TAATTAAATTATTTAAAA
1 TAATTAAATTATTTAAAA
*
11581718 TAATT-AATTTTTTAAA
1 TAATTAAATTATTTAAA
11581734 TTATAAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATTAAATTATTTAAAA
Found at i:11584105 original size:26 final size:26
Alignment explanation
Indices: 11584076--11584127 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
11584066 AACCTTGTCC
11584076 AACAATTCTGTTAAGTACTTGATCTA
1 AACAATTCTGTTAAGTACTTGATCTA
11584102 AACAATTCTGTTAAGTACTTGATCTA
1 AACAATTCTGTTAAGTACTTGATCTA
11584128 GTAAACGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (26 bp):
AACAATTCTGTTAAGTACTTGATCTA
Found at i:11590079 original size:30 final size:30
Alignment explanation
Indices: 11590036--11590289 Score: 201
Period size: 30 Copynumber: 8.7 Consensus size: 30
11590026 CTAAACTGTC
**
11590036 CAAAAATTGTATTTTGACCCTCGAACTTCT
1 CAAAAATTACATTTTGACCCTCGAACTTCT
* * * *
11590066 CCAAAATTATATTTTAACCCTCGAACTTTT
1 CAAAAATTACATTTTGACCCTCGAACTTCT
* * *
11590096 TAAAAATTACATTTTTATCCTCGAACTT-T
1 CAAAAATTACATTTTGACCCTCGAACTTCT
*
11590125 CGAAAATTACATTCTT-A-CCTCGAAACTTC-
1 CAAAAATTACATT-TTGACCCTCG-AACTTCT
*
11590154 CAAAAATTACATTTTCACCCGT-GAACTT-T
1 CAAAAATTACATTTTGACCC-TCGAACTTCT
* *
11590183 TAAAAATTACATTTTTGACCC-CAAAACTTCT
1 CAAAAATTACA-TTTTGACCCTC-GAACTTCT
*
11590214 C-AAAATTACATTTTTA-CCTCCGAACTTC-
1 CAAAAATTACATTTTGACCCT-CGAACTTCT
* *
11590242 CAAAAATTCCATTTTTGA-CC-CAAACTTCT
1 CAAAAATTACA-TTTTGACCCTCGAACTTCT
*
11590271 -AAAAATTCCATTTTGACCC
1 CAAAAATTACATTTTGACCC
11590290 GAAATTTTTT
Statistics
Matches: 186, Mismatches: 21, Indels: 36
0.77 0.09 0.15
Matches are distributed among these distances:
27 6 0.03
28 29 0.16
29 65 0.35
30 84 0.45
31 2 0.01
ACGTcount: A:0.34, C:0.24, G:0.05, T:0.36
Consensus pattern (30 bp):
CAAAAATTACATTTTGACCCTCGAACTTCT
Found at i:11590151 original size:29 final size:29
Alignment explanation
Indices: 11590036--11590317 Score: 179
Period size: 29 Copynumber: 9.7 Consensus size: 29
11590026 CTAAACTGTC
** *
11590036 CAAAAATTGTATTTTGACCCTCG-AACTTCT
1 CAAAAATTACATTTTTA-CCTCGAAACTT-T
* * *
11590066 CCAAAATTATATTTTAACCCTCG-AACTTTT
1 CAAAAATTACATTTTTA-CCTCGAAAC-TTT
*
11590096 TAAAAATTACATTTTTATCCTCG-AACTTT
1 CAAAAATTACATTTTTA-CCTCGAAACTTT
* * *
11590125 CGAAAATTACATTCTTACCTCGAAACTTC
1 CAAAAATTACATTTTTACCTCGAAACTTT
* *
11590154 CAAAAATTACATTTTCACC-CGTGAACTTT
1 CAAAAATTACATTTTTACCTCG-AAACTTT
* * *
11590183 TAAAAATTACATTTTTGACCCCAAAACTTCT
1 CAAAAATTACATTTTT-ACCTCGAAACTT-T
*
11590214 C-AAAATTACATTTTTACCTCCG-AACTTC
1 CAAAAATTACATTTTTACCT-CGAAACTTT
*
11590242 CAAAAATTCCATTTTTGACC-C-AAAC-TT
1 CAAAAATTACATTTTT-ACCTCGAAACTTT
* * *
11590269 CTAAAAATTCCATTTTGACC-CGAAATTTTT
1 C-AAAAATTACATTTTTACCTCGAAA-CTTT
** *
11590299 TGAAAATTACATTTCTACC
1 CAAAAATTACATTTTTACC
11590318 CCCGAATATC
Statistics
Matches: 204, Mismatches: 34, Indels: 29
0.76 0.13 0.11
Matches are distributed among these distances:
27 6 0.03
28 29 0.14
29 92 0.45
30 73 0.36
31 4 0.02
ACGTcount: A:0.34, C:0.23, G:0.05, T:0.37
Consensus pattern (29 bp):
CAAAAATTACATTTTTACCTCGAAACTTT
Found at i:11590160 original size:88 final size:87
Alignment explanation
Indices: 11590054--11590289 Score: 252
Period size: 88 Copynumber: 2.7 Consensus size: 87
11590044 GTATTTTGAC
* * *
11590054 CCTCGAACTTCTCCAAAATTATATTTTAACCC-TCGAACTTTTTAAAAATTACATTTTT-ATCCT
1 CCTCGAACTTC-CAAAAATTACATTTTAACCCGT-GAAC-TTTTAAAAATTACATTTTTGA-CCC
*
11590117 C-GAACTT-TCGAAAATTACATTCTTA
62 CAAAACTTCTC-AAAATTACATTCTTA
*
11590142 CCTCGAAACTTCCAAAAATTACATTTTCACCCGTGAACTTTTAAAAATTACATTTTTGACCCCAA
1 CCTCG-AACTTCCAAAAATTACATTTTAACCCGTGAACTTTTAAAAATTACATTTTTGACCCCAA
*
11590207 AACTTCTCAAAATTACATTTTTA
65 AACTTCTCAAAATTACATTCTTA
* * * * *
11590230 CCTCCGAACTTCCAAAAATTCCATTTTTGACCC--AAACTTCTAAAAATTCCA-TTTTGACCC
1 CCT-CGAACTTCCAAAAATTACA-TTTTAACCCGTGAACTTTTAAAAATTACATTTTTGACCC
11590290 GAAATTTTTT
Statistics
Matches: 130, Mismatches: 11, Indels: 16
0.83 0.07 0.10
Matches are distributed among these distances:
86 9 0.07
87 37 0.28
88 65 0.50
89 19 0.15
ACGTcount: A:0.34, C:0.25, G:0.05, T:0.36
Consensus pattern (87 bp):
CCTCGAACTTCCAAAAATTACATTTTAACCCGTGAACTTTTAAAAATTACATTTTTGACCCCAAA
ACTTCTCAAAATTACATTCTTA
Found at i:11590226 original size:59 final size:57
Alignment explanation
Indices: 11590098--11590289 Score: 201
Period size: 59 Copynumber: 3.3 Consensus size: 57
11590088 GAACTTTTTA
* * * *
11590098 AAAATTACATTTTTATCCTCGAACTTTCGAAAATTACATTCTT-ACCTCGAAACTTC-C
1 AAAATTACATTTTTACCCT-GAACTTTCAAAAATTACATTTTTGACC-CCAAACTTCTC
* *
11590155 AAAAATTACATTTTCACCCGTGAACTTTTAAAAATTACATTTTTGACCCCAAAACTTCTC
1 -AAAATTACATTTTTACCC-TGAACTTTCAAAAATTACATTTTTGACCCC-AAACTTCTC
* * * *
11590215 AAAATTACATTTTTACCTCCGAACTTCCAAAAATTCCATTTTTGA-CCCAAACTTCTA
1 AAAATTACATTTTTACC-CTGAACTTTCAAAAATTACATTTTTGACCCCAAACTTCTC
* *
11590272 AAAATTCCATTTTGACCC
1 AAAATTACATTTTTACCC
11590290 GAAATTTTTT
Statistics
Matches: 115, Mismatches: 14, Indels: 12
0.82 0.10 0.09
Matches are distributed among these distances:
56 1 0.01
57 23 0.20
58 40 0.35
59 49 0.43
60 2 0.02
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.35
Consensus pattern (57 bp):
AAAATTACATTTTTACCCTGAACTTTCAAAAATTACATTTTTGACCCCAAACTTCTC
Found at i:11593078 original size:36 final size:35
Alignment explanation
Indices: 11592976--11593380 Score: 398
Period size: 36 Copynumber: 11.0 Consensus size: 35
11592966 CCGCCCTTTA
* *
11592976 AAAAAGGTTGGGTTAGATCTTATCTAAGGCAACCTTTT
1 AAAAAGGTTGGGATAGA-CTTGTCTAAGGCAACC--TT
* **
11593014 AAAAAAGGTTGAGATAGACCCGTCTAAGGCAACCTT
1 -AAAAAGGTTGGGATAGACTTGTCTAAGGCAACCTT
*
11593050 AAAAAGGTTGGGATAGACATTGTTTAAGGCAACCTTT
1 AAAAAGGTTGGGATAGAC-TTGTCTAAGGCAACC-TT
* * *
11593087 AAAACAGGTTAGGATAGACATGTCTAAAGCAACCTT
1 AAAA-AGGTTGGGATAGACTTGTCTAAGGCAACCTT
* *
11593123 GAAAAGGTTGGGATAGATCTTGTCTAAGACAACCTTTT
1 AAAAAGGTTGGGATAGA-CTTGTCTAAGGCAACC--TT
* * *
11593161 AAAAAAGGTTGGGATAAACATGTCTAAAGCAACCTT
1 -AAAAAGGTTGGGATAGACTTGTCTAAGGCAACCTT
* *
11593197 GAAAAGGTTGGGATAAATCTTGTCTAAGGCAACCTT
1 AAAAAGGTTGGGATAGA-CTTGTCTAAGGCAACCTT
* *
11593233 GAAAAGGTTGGGATAAATCTTGTCTAAGGCAACCTTTT
1 AAAAAGGTTGGGATAGA-CTTGTCTAAGGCAACC--TT
*
11593271 AAAAAAGGTTGGGATAGAGTCT-TCTAAGGCAACCTT
1 -AAAAAGGTTGGGATAGACT-TGTCTAAGGCAACCTT
* * *
11593307 AAAAAGGATGAGATATACCTTGTCTAAGGCAACCTTTT
1 AAAAAGGTTGGGATAGA-CTTGTCTAAGGCAACC--TT
* *
11593345 AAAAAGGTTGGGATAGACCTGGTCTAAGGTAACCTT
1 AAAAAGGTTGGGATAGA-CTTGTCTAAGGCAACCTT
11593381 TAAGGTTTGA
Statistics
Matches: 312, Mismatches: 38, Indels: 35
0.81 0.10 0.09
Matches are distributed among these distances:
35 60 0.19
36 101 0.32
37 18 0.06
38 87 0.28
39 46 0.15
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (35 bp):
AAAAAGGTTGGGATAGACTTGTCTAAGGCAACCTT
Found at i:11593078 original size:74 final size:73
Alignment explanation
Indices: 11592976--11593383 Score: 436
Period size: 74 Copynumber: 5.5 Consensus size: 73
11592966 CCGCCCTTTA
* * * **
11592976 AAAAAGGTTGGGTTAGATCTTATCTAAGGCAACCTTTTAAAAAAGGTTGAGATAGACCCGTCTAA
1 AAAAAGGTTGGGATAGATCTTGTCTAAGGCAACC-TTTAAAAAAGGTTGAGATAAACATGTCTAA
11593041 GGCAACCTT
65 GGCAACCTT
* * *
11593050 AAAAAGGTTGGGATAGA-CATTGTTTAAGGCAACCTTTAAAACAGGTT-AGGATAGACATGTCTA
1 AAAAAGGTTGGGATAGATC-TTGTCTAAGGCAACCTTTAAAAAAGGTTGA-GATAAACATGTCTA
*
11593113 AAGCAACCTT
64 AGGCAACCTT
* * *
11593123 GAAAAGGTTGGGATAGATCTTGTCTAAGACAACCTTTTAAAAAAGGTTGGGATAAACATGTCTAA
1 AAAAAGGTTGGGATAGATCTTGTCTAAGGCAACC-TTTAAAAAAGGTTGAGATAAACATGTCTAA
*
11593188 AGCAACCTT
65 GGCAACCTT
* * * * *
11593197 GAAAAGGTTGGGATAAATCTTGTCTAAGGCAACC-TT-GAAAAGGTTGGGATAAATCTTGTCTAA
1 AAAAAGGTTGGGATAGATCTTGTCTAAGGCAACCTTTAAAAAAGGTTGAGATAAA-CATGTCTAA
11593260 GGCAACCTTTT
65 GGCAACC--TT
* * *
11593271 AAAAAAGGTTGGGATAGAGTC-T-TCTAAGGCAACC-TT-AAAAAGGATGAGATATACCTTGTCT
1 -AAAAAGGTTGGGATAGA-TCTTGTCTAAGGCAACCTTTAAAAAAGGTTGAGATA-AACATGTCT
11593332 AAGGCAACCTTTT
63 AAGGCAACC--TT
* * *
11593345 AAAAAGGTTGGGATAGACCTGGTCTAAGGTAACCTTTAA
1 AAAAAGGTTGGGATAGATCTTGTCTAAGGCAACCTTTAA
11593384 GGTTTGAATA
Statistics
Matches: 292, Mismatches: 27, Indels: 28
0.84 0.08 0.08
Matches are distributed among these distances:
71 16 0.05
72 18 0.06
73 80 0.27
74 156 0.53
75 19 0.07
76 3 0.01
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (73 bp):
AAAAAGGTTGGGATAGATCTTGTCTAAGGCAACCTTTAAAAAAGGTTGAGATAAACATGTCTAAG
GCAACCTT
Found at i:11593241 original size:110 final size:111
Alignment explanation
Indices: 11592976--11593381 Score: 452
Period size: 110 Copynumber: 3.7 Consensus size: 111
11592966 CCGCCCTTTA
* * * **
11592976 AAAAAGGTTGGGTTAGATCTTATCTAAGGCAACCTTTTAAAAAAGGTTGAGATAGA-CCCGTCTA
1 AAAAAGGTTGGGATAGATCTTGTCTAAGGCAACC-TTT-AAAAAGGTTGGGATAGATCTTGTCTA
* *
11593040 AGGCAACC--TT-AAAAAGGTTGGGATAGACATTGTTTAAGGCAACCTTT
64 AGGCAACCTTTTAAAAAAGGTTGGGATAAACA-TGTCTAAGGCAACC-TT
* * * *
11593087 AAAACAGGTTAGGATAGA-CATGTCTAAAGCAACC-TTGAAAAGGTTGGGATAGATCTTGTCTAA
1 AAAA-AGGTTGGGATAGATCTTGTCTAAGGCAACCTTTAAAAAGGTTGGGATAGATCTTGTCTAA
* *
11593150 GACAACCTTTTAAAAAAGGTTGGGATAAACATGTCTAAAGCAACCTT
65 GGCAACCTTTTAAAAAAGGTTGGGATAAACATGTCTAAGGCAACCTT
* * * *
11593197 GAAAAGGTTGGGATAAATCTTGTCTAAGGCAACC-TTGAAAAGGTTGGGATAAATCTTGTCTAAG
1 AAAAAGGTTGGGATAGATCTTGTCTAAGGCAACCTTTAAAAAGGTTGGGATAGATCTTGTCTAAG
*
11593261 GCAACCTTTTAAAAAAGGTTGGGATAGAGTC-T-TCTAAGGCAACCTT
66 GCAACCTTTTAAAAAAGGTTGGGATA-A-ACATGTCTAAGGCAACCTT
* * * * * *
11593307 AAAAAGGATGAGATATACCTTGTCTAAGGCAACCTTTTAAAAAGGTTGGGATAGACCTGGTCTAA
1 AAAAAGGTTGGGATAGATCTTGTCTAAGGCAACC-TTTAAAAAGGTTGGGATAGATCTTGTCTAA
*
11593372 GGTAACCTTT
65 GGCAACCTTT
11593382 AAGGTTTGAA
Statistics
Matches: 253, Mismatches: 32, Indels: 19
0.83 0.11 0.06
Matches are distributed among these distances:
108 15 0.06
109 26 0.10
110 115 0.45
111 33 0.13
112 64 0.25
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (111 bp):
AAAAAGGTTGGGATAGATCTTGTCTAAGGCAACCTTTAAAAAGGTTGGGATAGATCTTGTCTAAG
GCAACCTTTTAAAAAAGGTTGGGATAAACATGTCTAAGGCAACCTT
Found at i:11594272 original size:262 final size:264
Alignment explanation
Indices: 11593788--11594539 Score: 882
Period size: 262 Copynumber: 2.8 Consensus size: 264
11593778 AATTAATTTT
* * * * * * *
11593788 CCAACTCTTATACAAAGAGTTGTCCAAAGTGTTTGTCGGCAAGTCTATCCTAACACTTTGGAAAG
1 CCAACCCTTATAAAAAGAGTTGGCCAAAGCGTATGTCGGCAAGTCTATCCCAACACTTAGGAAAG
* * * * * *
11593853 TGTCGTCATAATGTTGGACAAAGCAAACTCTTATTTAAGTGTTGCCTTAGGCATACATATTCCAA
66 TGTCGGCATAGTGTCGGACAAAGCAAACTCTTATTTAAGAGTTGCCTTAGGCATGCATATCCCAA
* * * * *
11593918 CTCTTATACAAAGAGTTGGCCAAAGGGTATGCCGAAAAGTCTTTCCCAACACTAAGGAAAGTGTC
131 CCCTTATACAAAGAGTTGGCCAAAGCGTATGCCGATAAGTCTATCCCAACACTTAGGAAAGTGTC
* *
11593983 AACCCAAAAGTATCGGCATAATGTTGGACAAAGCAGACTCTTATATAAGCGTTGCCTT-AG-GCA
196 GACCCAAAAGTGTCGGCATAATGTTGGACAAAGCAGACTCTTATATAAGCGTTGCCTTAAGAGCA
11594046 TATC
261 TATC
* * *
11594050 CCAACCCTTATAAAAAGAGTTGGCCAAAGCATATGTCTGCAACTCTATCCCAACACTTAGGAAAG
1 CCAACCCTTATAAAAAGAGTTGGCCAAAGCGTATGTCGGCAAGTCTATCCCAACACTTAGGAAAG
* * * *
11594115 TGTTGGCATAGTGTCGGA-ATAAGCTAACTTTTATTTAAGCGTTGCCTTAGGCATGCATATCCCA
66 TGTCGGCATAGTGTCGGACA-AAGCAAACTCTTATTTAAGAGTTGCCTTAGGCATGCATATCCCA
*
11594179 ACCCTTATACAAAGAGTTGGCCAAAGCGTATGCCGATAAGTCTATCCCAATACTTAGGAAAGTGT
130 ACCCTTATACAAAGAGTTGGCCAAAGCGTATGCCGATAAGTCTATCCCAACACTTAGGAAAGTGT
* * * * * *
11594244 CGGCCCAAAAGTGTCGTCATAGTGTTGGACAAAGCTGACTCTTATTTAAGCGTTTCCTTAAGCAT
195 CGACCCAAAAGTGTCGGCATAATGTTGGACAAAGCAGACTCTTATATAAGCGTTGCCTTAAG-A-
11594309 GCATATC
258 GCATATC
* * *
11594316 CCAACCCTTATACAAAAGAGTTGGCAAAAACGTATGCCGGCAAGTCTATCCCAACACTTAGGAAA
1 CCAACCCTTATA-AAAAGAGTTGGCCAAAGCGTATGTCGGCAAGTCTATCCCAACACTTAGGAAA
* * *
11594381 GTGTCGCCGCAAAAGTGTCGACATAGTGTTAGACAAAGCCAACTCTTATTTAAGAGTTGTCTTAG
65 GTGTCG--GC-ATAGTGT---C-----G---GACAAAGCAAACTCTTATTTAAGAGTTGCCTTAG
* * * * * *
11594446 GCATGCATATCCTAACCCTTATACAAAAAGTTGACCAAAGCGTATGTCGGTAAGTCAATCCCAAC
116 GCATGCATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCGTATGCCGATAAGTCTATCCCAAC
*
11594511 ACTTA-GAACAGTGTCGCCCCAAAAGTGTC
181 ACTTAGGAA-AGTGTCGACCCAAAAGTGTC
11594540 ATCTTACGAC
Statistics
Matches: 415, Mismatches: 53, Indels: 25
0.84 0.11 0.05
Matches are distributed among these distances:
261 1 0.00
262 218 0.53
263 2 0.00
266 19 0.05
267 51 0.12
269 2 0.00
270 6 0.01
273 1 0.00
278 1 0.00
280 3 0.01
281 110 0.27
282 1 0.00
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.26
Consensus pattern (264 bp):
CCAACCCTTATAAAAAGAGTTGGCCAAAGCGTATGTCGGCAAGTCTATCCCAACACTTAGGAAAG
TGTCGGCATAGTGTCGGACAAAGCAAACTCTTATTTAAGAGTTGCCTTAGGCATGCATATCCCAA
CCCTTATACAAAGAGTTGGCCAAAGCGTATGCCGATAAGTCTATCCCAACACTTAGGAAAGTGTC
GACCCAAAAGTGTCGGCATAATGTTGGACAAAGCAGACTCTTATATAAGCGTTGCCTTAAGAGCA
TATC
Found at i:11594398 original size:141 final size:140
Alignment explanation
Indices: 11594111--11594539 Score: 589
Period size: 141 Copynumber: 3.1 Consensus size: 140
11594101 AACACTTAGG
* * * * *
11594111 AAAGTGTTGGCATAGTGTCGGA-ATAAGCTAACTTTTATTTAAGCGTTGCCTTAGGCATGCATAT
1 AAAGTGTCGACATAGTGTTGGACA-AAGCTAACTCTTATTTAAGCGTTTCCTTAGGCATGCATAT
* *
11594175 CCCAACCCTTATAC-AAAGAGTTGGCCAAAGCGTATGCCGATAAGTCTATCCCAATACTTAGGAA
65 CCCAACCCTTATACAAAAGAGTTGGCCAAAGCGTATGCCGGTAAGTCTATCCCAACACTTAGGAA
11594239 AGTGTCGGCCCA
130 AGTGTC-GCCCA
* * *
11594251 AAAGTGTCGTCATAGTGTTGGACAAAGCTGACTCTTATTTAAGCGTTTCCTTAAGCATGCATATC
1 AAAGTGTCGACATAGTGTTGGACAAAGCTAACTCTTATTTAAGCGTTTCCTTAGGCATGCATATC
* * *
11594316 CCAACCCTTATACAAAAGAGTTGGCAAAAACGTATGCCGGCAAGTCTATCCCAACACTTAGGAAA
66 CCAACCCTTATACAAAAGAGTTGGCCAAAGCGTATGCCGGTAAGTCTATCCCAACACTTAGGAAA
11594381 GTGTCGCCGCA
131 GTGTCGCC-CA
* * *
11594392 AAAGTGTCGACATAGTGTTAGACAAAGCCAACTCTTATTTAAGAGTTGT-CTTAGGCATGCATAT
1 AAAGTGTCGACATAGTGTTGGACAAAGCTAACTCTTATTTAAGCGTT-TCCTTAGGCATGCATAT
* * * *
11594456 CCTAACCCTTATACAAAA-AGTTGACCAAAGCGTATGTCGGTAAGTCAATCCCAACACTTA-GAA
65 CCCAACCCTTATACAAAAGAGTTGGCCAAAGCGTATGCCGGTAAGTCTATCCCAACACTTAGGAA
11594519 CAGTGTCGCCCCA
130 -AGTGTCG-CCCA
11594532 AAAGTGTC
1 AAAGTGTC
11594540 ATCTTACGAC
Statistics
Matches: 258, Mismatches: 25, Indels: 12
0.87 0.08 0.04
Matches are distributed among these distances:
139 3 0.01
140 125 0.48
141 129 0.50
142 1 0.00
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (140 bp):
AAAGTGTCGACATAGTGTTGGACAAAGCTAACTCTTATTTAAGCGTTTCCTTAGGCATGCATATC
CCAACCCTTATACAAAAGAGTTGGCCAAAGCGTATGCCGGTAAGTCTATCCCAACACTTAGGAAA
GTGTCGCCCA
Found at i:11594639 original size:45 final size:45
Alignment explanation
Indices: 11594567--11595045 Score: 654
Period size: 45 Copynumber: 10.8 Consensus size: 45
11594557 TTATAGTGAT
* *
11594567 CATATCATACATATCGTATATCATAATCAATCAAATAATATTTAC
1 CATATCATGCATATCGTATAGCATAATCAATCAAATAATATTTAC
* ** *
11594612 CATATCATGCATATCATATAGTGTAATCAATCAAATAATATTTAT
1 CATATCATGCATATCGTATAGCATAATCAATCAAATAATATTTAC
* *
11594657 CATATCATACATATCGTATAGCATAATCAATCAAATAATTTTTAC
1 CATATCATGCATATCGTATAGCATAATCAATCAAATAATATTTAC
* * *
11594702 CATATCATACATATCATATAACATAATCAATCAAATAATATTTAC
1 CATATCATGCATATCGTATAGCATAATCAATCAAATAATATTTAC
*
11594747 CATGTCATGCATATCAG-ATAGCATAATCAATCAAATAATATTTAC
1 CATATCATGCATATC-GTATAGCATAATCAATCAAATAATATTTAC
**
11594792 CATGCCATGCATATCGTATAGCATAATCAATCAAATAATATTTAC
1 CATATCATGCATATCGTATAGCATAATCAATCAAATAATATTTAC
* *
11594837 CATATCATACATATCATATAGCATAATCAATCAAATAATATTTAC
1 CATATCATGCATATCGTATAGCATAATCAATCAAATAATATTTAC
* *
11594882 CATATCATGCATATCGTATTA-CATAATCAGTCAAACAATATTTAC
1 CATATCATGCATATCGTA-TAGCATAATCAATCAAATAATATTTAC
** *
11594927 C--A-GGT-C-T-T-GCATA-CATAATCAATCAAATAATATTTAC
1 CATATCATGCATATCGTATAGCATAATCAATCAAATAATATTTAC
*
11594964 CATATCATACATATCGTATAGCATAATCAATCAAATAATATTTAC
1 CATATCATGCATATCGTATAGCATAATCAATCAAATAATATTTAC
* *
11595009 CATGTCATGCATATCGTATAGTATAATCAATCAAATA
1 CATATCATGCATATCGTATAGCATAATCAATCAAATA
11595046 CTAACCAACT
Statistics
Matches: 384, Mismatches: 39, Indels: 22
0.86 0.09 0.05
Matches are distributed among these distances:
37 25 0.07
38 2 0.01
39 2 0.01
40 2 0.01
41 2 0.01
42 2 0.01
43 2 0.01
44 5 0.01
45 340 0.89
46 2 0.01
ACGTcount: A:0.43, C:0.18, G:0.06, T:0.34
Consensus pattern (45 bp):
CATATCATGCATATCGTATAGCATAATCAATCAAATAATATTTAC
Found at i:11594960 original size:82 final size:82
Alignment explanation
Indices: 11594858--11595021 Score: 267
Period size: 82 Copynumber: 2.0 Consensus size: 82
11594848 TATCATATAG
* *
11594858 CATAATCAATCAAATAATATTTACCATATCATGCATATCGTATTA-CATAATCAGTCAAACAATA
1 CATAATCAATCAAATAATATTTACCATATCATACATATCGTA-TAGCATAATCAATCAAACAATA
*
11594922 TTTACCAGGTCTTGCATA
65 TTTACCAGGTCATGCATA
*
11594940 CATAATCAATCAAATAATATTTACCATATCATACATATCGTATAGCATAATCAATCAAATAATAT
1 CATAATCAATCAAATAATATTTACCATATCATACATATCGTATAGCATAATCAATCAAACAATAT
*
11595005 TTACCATGTCATGCATA
66 TTACCAGGTCATGCATA
11595022 TCGTATAGTA
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
81 2 0.03
82 74 0.97
ACGTcount: A:0.42, C:0.19, G:0.06, T:0.33
Consensus pattern (82 bp):
CATAATCAATCAAATAATATTTACCATATCATACATATCGTATAGCATAATCAATCAAACAATAT
TTACCAGGTCATGCATA
Found at i:11595067 original size:45 final size:45
Alignment explanation
Indices: 11594940--11595112 Score: 175
Period size: 45 Copynumber: 3.8 Consensus size: 45
11594930 GTCTTGCATA
* * * * *
11594940 CATAATCAATCAAATAATATTTACCATATCATACATATCGTATAG
1 CATAATCAATCAAATAATAATCAACTTATCATTCATATCGTATAG
* * * * * *
11594985 CATAATCAATCAAATAATATTTACCATGTCATGCATATCGTATAG
1 CATAATCAATCAAATAATAATCAACTTATCATTCATATCGTATAG
* * * *
11595030 TATAATCAATCAAATACTAACCAACTTATCATTCATATCATATAG
1 CATAATCAATCAAATAATAATCAACTTATCATTCATATCGTATAG
** * *
11595075 CATGCTCAACCAAATAATAATCATCTTATCATTCATAT
1 CATAATCAATCAAATAATAATCAACTTATCATTCATAT
11595113 TTTATGGCAT
Statistics
Matches: 109, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 109 1.00
ACGTcount: A:0.42, C:0.20, G:0.05, T:0.34
Consensus pattern (45 bp):
CATAATCAATCAAATAATAATCAACTTATCATTCATATCGTATAG
Found at i:11596384 original size:52 final size:51
Alignment explanation
Indices: 11596315--11596603 Score: 303
Period size: 52 Copynumber: 5.6 Consensus size: 51
11596305 GTAAATGAAA
* *
11596315 AAGGTCTGATGACTACGTGTCATCGTGAGTATATGAATCTGTTATGAATTAT
1 AAGGTCCGATGACTACGTGTCATCGTGAGTATATGAATCT-TTACGAATTAT
* * * ** *
11596367 AAGGTCCGATGACTACGTGACATTGTGAGTATATGAATCCCTTACGGGTTAC
1 AAGGTCCGATGACTACGTGTCATCGTGAGTATATGAAT-CTTTACGAATTAT
* * * *
11596419 GAGGTCTGATGACTACGTGTCATCGTGAGTATATGAATCTCTTATGGATTAT
1 AAGGTCCGATGACTACGTGTCATCGTGAGTATATGAATCT-TTACGAATTAT
* * *
11596471 GAGGTCGGATGACTACGTGCCATCGTGAGTATATGAATCCTTTAC-AGATTAT
1 AAGGTCCGATGACTACGTGTCATCGTGAGTATATGAAT-CTTTACGA-ATTAT
* * * * * *
11596523 GAGATCCGATGACTAAGTGTCATCGTGAGTATGTGATTCTTTAACAAATTA-
1 AAGGTCCGATGACTACGTGTCATCGTGAGTATATGAATCTTT-ACGAATTAT
**
11596574 AAGGTCCGATGACTTTGTGTCATCGTGAGT
1 AAGGTCCGATGACTACGTGTCATCGTGAGT
11596604 GTTAAATATG
Statistics
Matches: 201, Mismatches: 30, Indels: 13
0.82 0.12 0.05
Matches are distributed among these distances:
51 31 0.15
52 166 0.83
53 4 0.02
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (51 bp):
AAGGTCCGATGACTACGTGTCATCGTGAGTATATGAATCTTTACGAATTAT
Found at i:11596499 original size:104 final size:104
Alignment explanation
Indices: 11596316--11596603 Score: 373
Period size: 104 Copynumber: 2.8 Consensus size: 104
11596306 TAAATGAAAA
*
11596316 AGGTCTGATGACTACGTGTCATCGTGAGTATATGAATCTGTTATGAATTATAAGGTCCGATGACT
1 AGGTCTGATGACTACGTGTCATCGTGAGTATATGAATCTCTTATGAATTATAAGGTCCGATGACT
* * *
11596381 ACGTGACATTGTGAGTATATGAATCCCTTACGGGTTACG
66 ACGTGACATCGTGAGTATATGAATCCCTTACAGATTACG
* * *
11596420 AGGTCTGATGACTACGTGTCATCGTGAGTATATGAATCTCTTATGGATTATGAGGTCGGATGACT
1 AGGTCTGATGACTACGTGTCATCGTGAGTATATGAATCTCTTATGAATTATAAGGTCCGATGACT
* * *
11596485 ACGTGCCATCGTGAGTATATGAATCCTTTACAGATTATG
66 ACGTGACATCGTGAGTATATGAATCCCTTACAGATTACG
* * * * * **
11596524 AGATCCGATGACTAAGTGTCATCGTGAGTATGTGATTCT-TTAACAAATTA-AAGGTCCGATGAC
1 AGGTCTGATGACTACGTGTCATCGTGAGTATATGAATCTCTT-ATGAATTATAAGGTCCGATGAC
** *
11596587 TTTGTGTCATCGTGAGT
65 TACGTGACATCGTGAGT
11596604 GTTAAATATG
Statistics
Matches: 160, Mismatches: 23, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
103 27 0.17
104 133 0.83
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (104 bp):
AGGTCTGATGACTACGTGTCATCGTGAGTATATGAATCTCTTATGAATTATAAGGTCCGATGACT
ACGTGACATCGTGAGTATATGAATCCCTTACAGATTACG
Found at i:11601504 original size:52 final size:52
Alignment explanation
Indices: 11601414--11601641 Score: 251
Period size: 52 Copynumber: 4.4 Consensus size: 52
11601404 AGGTTTGATA
* * *
11601414 ACTACGTGTCATCGTGAGTATATGAATCTGTTATGGATTATGAGGTCCGACG
1 ACTACGTGTCATCGTGAGTATATGAATCTCTTACGGATTATGAGGTCCGATG
* * * *
11601466 ACTACGTGTCATTGTAAGTATATAAATCCCTTACGGATTATGAGGTCCGATG
1 ACTACGTGTCATCGTGAGTATATGAATCTCTTACGGATTATGAGGTCCGATG
* * * * *
11601518 ACTACATGACATCATGAGTATATGAATCTTTTACGAATTATGAGGTCCGATG
1 ACTACGTGTCATCGTGAGTATATGAATCTCTTACGGATTATGAGGTCCGATG
* * * * * * *
11601570 ATTAAGTGTCATCGTGAGTATATGATTCTTTTACGAATTA-AAGGTCCGGTG
1 ACTACGTGTCATCGTGAGTATATGAATCTCTTACGGATTATGAGGTCCGATG
** *
11601621 ACTTTGTGTCATTGTGAGTAT
1 ACTACGTGTCATCGTGAGTAT
11601642 TAAATATGCA
Statistics
Matches: 148, Mismatches: 28, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
51 26 0.18
52 122 0.82
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (52 bp):
ACTACGTGTCATCGTGAGTATATGAATCTCTTACGGATTATGAGGTCCGATG
Found at i:11602323 original size:21 final size:21
Alignment explanation
Indices: 11602297--11602345 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
11602287 GAGTTTTTAC
11602297 TATCGGTAAAAGTAAT-ACTTG
1 TATCGGTAAAAG-AATCACTTG
* *
11602318 TTTCGGTAGAAGAATCACTTG
1 TATCGGTAAAAGAATCACTTG
11602339 TATCGGT
1 TATCGGT
11602346 GCACCTGTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 3 0.12
21 21 0.88
ACGTcount: A:0.31, C:0.12, G:0.22, T:0.35
Consensus pattern (21 bp):
TATCGGTAAAAGAATCACTTG
Found at i:11608313 original size:52 final size:52
Alignment explanation
Indices: 11608232--11608475 Score: 235
Period size: 52 Copynumber: 4.7 Consensus size: 52
11608222 GTAAATGAAA
* * * *
11608232 AAGGTCTGATGACTACATGTCATCGTGAGTATATAAATCCGTTATGGATTAT
1 AAGGTCCGATGACTACGTGTCATCGTGAGTATATAAATCCTTTACGGATTAT
* * * * *
11608284 GAGGTCCGATGACTACGTGTCATCATGAGTATATGAATCCCTTATGGATTAT
1 AAGGTCCGATGACTACGTGTCATCGTGAGTATATAAATCCTTTACGGATTAT
* * * * *
11608336 TAGGTCCAATGACTATGTGTCATCGTGAGTATATGAATCTTTTACGGA-TATT
1 AAGGTCCGATGACTACGTGTCATCGTGAGTATATAAATCCTTTACGGATTA-T
** * * * *
11608388 AAGGTCCGATGACTGGGTGTCATCGTGAGTATGT-GATTCTTTAACGAATTA-
1 AAGGTCCGATGACTACGTGTCATCGTGAGTATATAAATCCTTT-ACGGATTAT
** *
11608439 AAGGTCCGATGACTTTGTGTCATCATGAGTAT-TAAAT
1 AAGGTCCGATGACTACGTGTCATCGTGAGTATATAAAT
11608476 ATGCAATACA
Statistics
Matches: 162, Mismatches: 26, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
50 1 0.01
51 38 0.23
52 121 0.75
53 2 0.01
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (52 bp):
AAGGTCCGATGACTACGTGTCATCGTGAGTATATAAATCCTTTACGGATTAT
Found at i:11610008 original size:28 final size:29
Alignment explanation
Indices: 11609952--11610080 Score: 127
Period size: 28 Copynumber: 4.5 Consensus size: 29
11609942 TGTAAAATCT
* * * * *
11609952 GCAAAACTGTACAATTTGGAAAACTAGTG
1 GCAAAACTATAAAATCTGAAAAACCAGTG
*
11609981 GCAAAACTAT-AAATATGAAAAACCAGTG
1 GCAAAACTATAAAATCTGAAAAACCAGTG
* * *
11610009 GAAAAACCATAAAATCTGAAAAA-TAGTG
1 GCAAAACTATAAAATCTGAAAAACCAGTG
* *
11610037 GAAAAACTATAAAATCTAAAAAACCAGTG
1 GCAAAACTATAAAATCTGAAAAACCAGTG
* *
11610066 GCAAAATTGTAAAAT
1 GCAAAACTATAAAAT
11610081 AGTGGTAGTT
Statistics
Matches: 83, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
28 47 0.57
29 36 0.43
ACGTcount: A:0.53, C:0.12, G:0.15, T:0.20
Consensus pattern (29 bp):
GCAAAACTATAAAATCTGAAAAACCAGTG
Found at i:11610557 original size:3 final size:3
Alignment explanation
Indices: 11610549--11610589 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
11610539 AAGATGTGGA
* *
11610549 AAT AAT AAT AAT AAT AAT AAT TAT AAA AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
11610590 ATATAATGTG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:11610595 original size:9 final size:10
Alignment explanation
Indices: 11610548--11610596 Score: 50
Period size: 9 Copynumber: 5.0 Consensus size: 10
11610538 TAAGATGTGG
11610548 AAATAATAAT
1 AAATAATAAT
11610558 -AATAATAAT
1 AAATAATAAT
*
11610567 AATTATAAAAAT
1 AA--ATAATAAT
11610579 -AATAATAAT
1 AAATAATAAT
11610588 AAAT-ATAAT
1 AAATAATAAT
11610597 GTGCTTAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
9 21 0.64
10 4 0.12
11 1 0.03
12 7 0.21
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (10 bp):
AAATAATAAT
Found at i:11616952 original size:30 final size:30
Alignment explanation
Indices: 11616911--11617071 Score: 81
Period size: 30 Copynumber: 5.4 Consensus size: 30
11616901 TTTTTTGACT
*
11616911 TCGGGGGTAAAATGGTAATTTTTGGTGAAA
1 TCGGGGTTAAAATGGTAATTTTTGGTGAAA
**
11616941 TCGGGGTTAAAAAAAG-AA-TTTT-G-GAAA
1 TCGGGGTT-AAAATGGTAATTTTTGGTGAAA
* * *
11616968 GGTTGGGGGTAAAAATGGTGATTTTTGGTGAAA
1 ---TCGGGGTTAAAATGGTAATTTTTGGTGAAA
*
11617001 -CTAGGGTTAAAAATGG-AA-TTTT-G-GAAA
1 TC-GGGGTT-AAAATGGTAATTTTTGGTGAAA
* *
11617028 GTTTGGGGGTAAAATGGTAATTTTTGGT-AAA
1 --TCGGGGTTAAAATGGTAATTTTTGGTGAAA
*
11617059 ACTGGGGTTAAAA
1 TC-GGGGTTAAAA
11617072 ATGGAGTTTT
Statistics
Matches: 95, Mismatches: 18, Indels: 36
0.64 0.12 0.24
Matches are distributed among these distances:
27 8 0.08
28 9 0.09
29 19 0.20
30 34 0.36
31 20 0.21
32 1 0.01
33 4 0.04
ACGTcount: A:0.34, C:0.02, G:0.32, T:0.32
Consensus pattern (30 bp):
TCGGGGTTAAAATGGTAATTTTTGGTGAAA
Found at i:11617040 original size:29 final size:29
Alignment explanation
Indices: 11616956--11617323 Score: 249
Period size: 29 Copynumber: 12.5 Consensus size: 29
11616946 GTTAAAAAAA
*
11616956 GAATTTTGGAAAGGTTGGGGGTAAAAATGG
1 GAATTTTGGAAAGTTTGGGGGTAAAAAT-G
* * * *
11616986 TGATTTTTGGTGAAA--CTAGGGTTAAAAATG
1 -GAATTTT-G-GAAAGTTTGGGGGTAAAAATG
11617016 GAATTTTGGAAAGTTTGGGGGT-AAAATG
1 GAATTTTGGAAAGTTTGGGGGTAAAAATG
** *
11617044 GTAATTTTTGGTAAA-ACTGGGGTTAAAAATG
1 G-AA-TTTTGG-AAAGTTTGGGGGTAAAAATG
* * * *
11617075 GAGTTTTGGAAGGTTTAGAGGT-AAAATG
1 GAATTTTGGAAAGTTTGGGGGTAAAAATG
* *
11617103 GTAATTTTGG-AAGTTTCGGGGTCAAAATG
1 G-AATTTTGGAAAGTTTGGGGGTAAAAATG
*
11617132 GAATTTTGGGAAGTTTGGGGGT-AAAATG
1 GAATTTTGGAAAGTTTGGGGGTAAAAATG
* *
11617160 GTAATTTTTGG-AAGCTTT-GAGGTCAAAATTG
1 G-AA-TTTTGGAAAG-TTTGGGGGT-AAAAATG
* *
11617191 GAATTTTGGGAAGTTTAGGGGT-AAAATG
1 GAATTTTGGAAAGTTTGGGGGTAAAAATG
** *
11617219 GTAATTTTTGG-AAGCTTCAGGGTTAAAAATG
1 G-AA-TTTTGGAAAG-TTTGGGGGTAAAAATG
*
11617250 GAATTTTGGGAAGTTTGGGGGT-AAAATG
1 GAATTTTGGAAAGTTTGGGGGTAAAAATG
* *
11617278 GTAATTTTTGG-AAGCTTCGGGGTCAAAAATG
1 G-AA-TTTTGGAAAGTTTGGGGGT-AAAAATG
*
11617309 GAATTTTGCAAAGTT
1 GAATTTTGGAAAGTT
11617324 CAGGGACTAA
Statistics
Matches: 272, Mismatches: 36, Indels: 59
0.74 0.10 0.16
Matches are distributed among these distances:
27 4 0.01
28 54 0.20
29 100 0.37
30 62 0.23
31 47 0.17
32 1 0.00
33 4 0.01
ACGTcount: A:0.31, C:0.03, G:0.32, T:0.34
Consensus pattern (29 bp):
GAATTTTGGAAAGTTTGGGGGTAAAAATG
Found at i:11617214 original size:175 final size:178
Alignment explanation
Indices: 11616916--11617321 Score: 499
Period size: 175 Copynumber: 2.3 Consensus size: 178
11616906 TGACTTCGGG
* * **
11616916 GGTAAAATGGTAATTTTTGGTGAA--ATCGGGGTTAAAAAAAGAATTTTGGAAAGGTTGGGGGTA
1 GGTAAAATGGTAATTTTT-G-GAAGCTTCGGGGTCAAAAATGGAATTTTGGAAAGGTTGGGGGTA
* * *
11616979 AAAATGGTGATTTTTGGTGAAACTAGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAATG
64 AAAATGGTAATTTTTGGTGAAACTAGGGTCAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATG
* *
11617044 GTAATTTTTGGTAAAAC-T-GGGGTTAAAAATGGAGTTTT-GGAAGGTTTAGA
129 GTAATTTTTGG--AAACTTCAGGGTTAAAAATGGAATTTTGGGAA-GTTTAGA
* * *
11617094 GGTAAAATGGTAA-TTTTGGAAGTTTCGGGGTC-AAAATGGAATTTTGGGAAGTTTGGGGGT-AA
1 GGTAAAATGGTAATTTTTGGAAGCTTCGGGGTCAAAAATGGAATTTTGGAAAGGTTGGGGGTAAA
* * * *
11617156 AATGGTAATTTTT-G-GAAGCTTTGAGGTCAAAATTGGAATTTTGGGAAGTTTAGGGGTAAAATG
66 AATGGTAATTTTTGGTGAAAC-TAG-GGTCAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATG
* * *
11617219 GTAATTTTTGGAAGCTTCAGGGTTAAAAATGGAATTTTGGGAAGTTTGGG
129 GTAATTTTTGGAAACTTCAGGGTTAAAAATGGAATTTTGGGAAGTTTAGA
*
11617269 GGTAAAATGGTAATTTTTGGAAGCTTCGGGGTCAAAAATGGAATTTTGCAAAG
1 GGTAAAATGGTAATTTTTGGAAGCTTCGGGGTCAAAAATGGAATTTTGGAAAG
11617322 TTCAGGGACT
Statistics
Matches: 198, Mismatches: 21, Indels: 19
0.83 0.09 0.08
Matches are distributed among these distances:
173 7 0.04
174 4 0.02
175 99 0.50
176 47 0.24
177 28 0.14
178 13 0.07
ACGTcount: A:0.32, C:0.03, G:0.32, T:0.33
Consensus pattern (178 bp):
GGTAAAATGGTAATTTTTGGAAGCTTCGGGGTCAAAAATGGAATTTTGGAAAGGTTGGGGGTAAA
AATGGTAATTTTTGGTGAAACTAGGGTCAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGT
AATTTTTGGAAACTTCAGGGTTAAAAATGGAATTTTGGGAAGTTTAGA
Found at i:11617323 original size:59 final size:59
Alignment explanation
Indices: 11616913--11617323 Score: 478
Period size: 59 Copynumber: 7.0 Consensus size: 59
11616903 TTTTGACTTC
* ** *
11616913 GGGGGTAAAATGGTAATTTTTGGTGAA--ATCGGGGTTAAAAAAAGAATTTTGGAAAGGTT
1 GGGGGTAAAATGGTAATTTTT-G-GAAGCTTCGGGGTTAAAAATGGAATTTTGGAAAGTTT
* * *
11616972 GGGGGTAAAAATGGTGATTTTTGGTGAAAC-T-AGGGTTAAAAATGGAATTTTGGAAAGTTT
1 GGGGGT-AAAATGGTAATTTTT-G-GAAGCTTCGGGGTTAAAAATGGAATTTTGGAAAGTTT
* * *
11617032 GGGGGTAAAATGGTAATTTTTGGTAAAAC-T-GGGGTTAAAAATGGAGTTTTGGAAGGTTT
1 GGGGGTAAAATGGTAATTTTTGG--AAGCTTCGGGGTTAAAAATGGAATTTTGGAAAGTTT
* * * * *
11617091 AGAGGTAAAATGGTAA-TTTTGGAAGTTTCGGGG-TCAAAATGGAATTTTGGGAAGTTT
1 GGGGGTAAAATGGTAATTTTTGGAAGCTTCGGGGTTAAAAATGGAATTTTGGAAAGTTT
* * * * *
11617148 GGGGGTAAAATGGTAATTTTTGGAAGCTTTGAGGTCAAAATTGGAATTTTGGGAAGTTT
1 GGGGGTAAAATGGTAATTTTTGGAAGCTTCGGGGTTAAAAATGGAATTTTGGAAAGTTT
* * *
11617207 AGGGGTAAAATGGTAATTTTTGGAAGCTTCAGGGTTAAAAATGGAATTTTGGGAAGTTT
1 GGGGGTAAAATGGTAATTTTTGGAAGCTTCGGGGTTAAAAATGGAATTTTGGAAAGTTT
* *
11617266 GGGGGTAAAATGGTAATTTTTGGAAGCTTCGGGGTCAAAAATGGAATTTTGCAAAGTT
1 GGGGGTAAAATGGTAATTTTTGGAAGCTTCGGGGTTAAAAATGGAATTTTGGAAAGTT
11617324 CAGGGACTAA
Statistics
Matches: 307, Mismatches: 36, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
56 2 0.01
57 36 0.12
58 25 0.08
59 192 0.63
60 51 0.17
61 1 0.00
ACGTcount: A:0.32, C:0.03, G:0.32, T:0.33
Consensus pattern (59 bp):
GGGGGTAAAATGGTAATTTTTGGAAGCTTCGGGGTTAAAAATGGAATTTTGGAAAGTTT
Found at i:11618081 original size:22 final size:21
Alignment explanation
Indices: 11618040--11618086 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
11618030 CTTTACTCCA
11618040 TTTTTAAAAAAACTTCTTTGAT
1 TTTTTAAAAAAACTTCTTTG-T
*
11618062 TTTTTAAAAAACCCTT-TTTGT
1 TTTTTAAAAAA-ACTTCTTTGT
11618083 TTTT
1 TTTT
11618087 CATTCAAACC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 5 0.22
22 15 0.65
23 3 0.13
ACGTcount: A:0.30, C:0.11, G:0.04, T:0.55
Consensus pattern (21 bp):
TTTTTAAAAAAACTTCTTTGT
Found at i:11618376 original size:21 final size:19
Alignment explanation
Indices: 11618342--11618401 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 19
11618332 TTATAATCAT
11618342 TATTATAAAACATTTATTAA
1 TATTAT-AAACATTTATTAA
*
11618362 TATTATTAAAGCATTTATTAT
1 TATTA-TAAA-CATTTATTAA
*
11618383 TATTACTAAACATTAATTA
1 TATTA-TAAACATTTATTA
11618402 CTATCATCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 16 0.46
21 19 0.54
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.47
Consensus pattern (19 bp):
TATTATAAACATTTATTAA
Found at i:11618385 original size:18 final size:18
Alignment explanation
Indices: 11618340--11618401 Score: 54
Period size: 20 Copynumber: 3.2 Consensus size: 18
11618330 AATTATAATC
11618340 ATTATTA-TAAAACATTT
1 ATTATTATTAAAACATTT
*
11618357 ATTAATATTATTAAAGCATTT
1 A-T--TATTATTAAAACATTT
*
11618378 ATTATTATTACTAAACATTA
1 ATTATTATTA--AAACATTT
11618398 ATTA
1 ATTA
11618402 CTATCATCAA
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
17 1 0.03
18 9 0.25
20 16 0.44
21 10 0.28
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (18 bp):
ATTATTATTAAAACATTT
Done.