Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032253.1 Gossypioides kirkii chromosome KI_11
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: 55708359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 81 of 182
Found at i:25605648 original size:12 final size:12
Alignment explanation
Indices: 25605631--25605668 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
25605621 TGTCATCATG
25605631 ATGAATGCTATT
1 ATGAATGCTATT
*
25605643 ATGAATGTTATT
1 ATGAATGCTATT
25605655 ATGAATGCTATT
1 ATGAATGCTATT
25605667 AT
1 AT
25605669 TTATTTAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.34, C:0.05, G:0.16, T:0.45
Consensus pattern (12 bp):
ATGAATGCTATT
Found at i:25606378 original size:27 final size:28
Alignment explanation
Indices: 25606348--25606405 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
25606338 CGTGCACTGG
*
25606348 AATTTAGTTTTAGGTTAA-AC-TTAGATT
1 AATTTAG-TTTAGATTAATACTTTAGATT
25606375 AATTTAGTTTAGATTAATACTTTAGATT
1 AATTTAGTTTAGATTAATACTTTAGATT
25606403 AAT
1 AAT
25606406 ATATCTCACA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 9 0.32
27 9 0.32
28 10 0.36
ACGTcount: A:0.36, C:0.03, G:0.12, T:0.48
Consensus pattern (28 bp):
AATTTAGTTTAGATTAATACTTTAGATT
Found at i:25606400 original size:13 final size:13
Alignment explanation
Indices: 25606356--25606406 Score: 52
Period size: 13 Copynumber: 3.9 Consensus size: 13
25606346 GGAATTTAGT
*
25606356 TTTAGGTTAA-AC
1 TTTAGATTAATAC
*
25606368 -TTAGATTAATTTAG
1 TTTAGATTAA--TAC
25606382 TTTAGATTAATAC
1 TTTAGATTAATAC
25606395 TTTAGATTAATA
1 TTTAGATTAATA
25606407 TATCTCACAA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
11 8 0.25
13 14 0.44
14 1 0.03
15 9 0.28
ACGTcount: A:0.37, C:0.04, G:0.12, T:0.47
Consensus pattern (13 bp):
TTTAGATTAATAC
Found at i:25607299 original size:18 final size:18
Alignment explanation
Indices: 25607263--25607307 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
25607253 AAGCTTGGCT
* *
25607263 AACAGACTACTGTCATCA
1 AACAGACTCCCGTCATCA
*
25607281 AACAGACTCCCGTCGTCA
1 AACAGACTCCCGTCATCA
*
25607299 AATAGACTC
1 AACAGACTC
25607308 AATCGAGCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.36, C:0.31, G:0.13, T:0.20
Consensus pattern (18 bp):
AACAGACTCCCGTCATCA
Found at i:25612260 original size:23 final size:24
Alignment explanation
Indices: 25612234--25612284 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
25612224 CCAGAATCGG
*
25612234 ATAAGTGTGG-TCAAACCACCAAA
1 ATAAATGTGGTTCAAACCACCAAA
*
25612257 ATAAATGTGGTTTAAACCACC-AA
1 ATAAATGTGGTTCAAACCACCAAA
25612280 ATAAA
1 ATAAA
25612285 GCAGATCATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 16 0.64
24 9 0.36
ACGTcount: A:0.47, C:0.18, G:0.14, T:0.22
Consensus pattern (24 bp):
ATAAATGTGGTTCAAACCACCAAA
Found at i:25613414 original size:3 final size:3
Alignment explanation
Indices: 25613406--25613431 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
25613396 AATAGTATAC
25613406 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
25613432 ATTTTTATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:25616616 original size:28 final size:30
Alignment explanation
Indices: 25616571--25616628 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 30
25616561 GTTGAGTTTG
*
25616571 CCTATTTTCGTAAATA-TTATTT-TTTTAT
1 CCTATTTTCGCAAATATTTATTTATTTTAT
**
25616599 CCTATTTTCGCATTTATTTATTTATTTTAT
1 CCTATTTTCGCAAATATTTATTTATTTTAT
25616629 ATTATTTATG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 13 0.52
29 6 0.24
30 6 0.24
ACGTcount: A:0.22, C:0.12, G:0.03, T:0.62
Consensus pattern (30 bp):
CCTATTTTCGCAAATATTTATTTATTTTAT
Found at i:25618281 original size:21 final size:21
Alignment explanation
Indices: 25618257--25618303 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
25618247 TTAATAAATG
25618257 TAATTTTCATAATTTCA-TCAC
1 TAATTTT-ATAATTTCATTCAC
*
25618278 TAATCTTTATCATTTCATTCAC
1 TAAT-TTTATAATTTCATTCAC
25618300 -AATT
1 TAATT
25618304 AATCTTTACA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 1 0.04
21 15 0.65
22 7 0.30
ACGTcount: A:0.32, C:0.19, G:0.00, T:0.49
Consensus pattern (21 bp):
TAATTTTATAATTTCATTCAC
Found at i:25626687 original size:20 final size:20
Alignment explanation
Indices: 25626648--25626687 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
25626638 AGTCTTCAAG
* *
25626648 GTATCGATAGAACTGTAGTT
1 GTATCGATAGAACAGGAGTT
*
25626668 GTATCGATAGAAGAGGAGTT
1 GTATCGATAGAACAGGAGTT
25626688 CTACCGGTAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.30
Consensus pattern (20 bp):
GTATCGATAGAACAGGAGTT
Found at i:25626835 original size:239 final size:241
Alignment explanation
Indices: 25626416--25626948 Score: 1018
Period size: 239 Copynumber: 2.2 Consensus size: 241
25626406 CTTGTATAGG
25626416 TAGAACTGTAGTTGTATC-AGTAGAAGAGGAGTTCTACCGGTAGAAGTCTCAGGGTAGACGACTT
1 TAGAACTGTAGTTGTATCGA-TAGAAGAGGAGTTCTACCGGTAGAAGTCTCAGGGTAGACGACTT
25626480 TACAAAATATTACCGTTGGAGTCGTTCTATCGGTAGATACTTCATTGTATCGATAGAATTCTGAG
65 TACAAAATATTACCGTTGGAGTCGTTCTATCGGTAGATACTTCATTGTATCGATAGAATTCTGAG
25626545 GGTTTCATTTGGTATCGGTAGAACCCATCAAAGTATCGATAGAAGTGCAGGGGAGGATGAATTTT
130 GGTTTCATTTGGTATCGGTAGAACCCATCAAAGTATCGATAGAAGTGCAGGGGAGGATGAATTTT
25626610 AGCTACTAACTTGACTTGTTTCGATAGAAGTCTTCAAGG-T-ATCGA
195 AGCTACTAACTTGACTTGTTTCGATAGAAGTCTTCAAGGATCATCGA
25626655 TAGAACTGTAGTTGTATCGATAGAAGAGGAGTTCTACCGGTAGAAGTCTCAGGGTAGACGACTTT
1 TAGAACTGTAGTTGTATCGATAGAAGAGGAGTTCTACCGGTAGAAGTCTCAGGGTAGACGACTTT
25626720 ACAAAATATTACCGTTGGAGTCGTTCTATCGGTAGATACTTCATTGTATCGATAGAATTCTGAGG
66 ACAAAATATTACCGTTGGAGTCGTTCTATCGGTAGATACTTCATTGTATCGATAGAATTCTGAGG
25626785 GTTTCATTTGGTATCGGTAGAACCCATCAAAGTATCGATAGAAGTGCAGGGGAGGATGAATTTTA
131 GTTTCATTTGGTATCGGTAGAACCCATCAAAGTATCGATAGAAGTGCAGGGGAGGATGAATTTTA
25626850 GCTACTAACTTGACTTGTTTCGATAGAAGTCTTCAAGGTATCGATCGA
196 GCTACTAACTTGACTTGTTTCGATAGAAGTCTTCAAGG-ATC-ATCGA
25626898 TAGAACTGTAGTTGTATCGATAGAAGAGGAGTTCTACCGGTAGAAGTCTCA
1 TAGAACTGTAGTTGTATCGATAGAAGAGGAGTTCTACCGGTAGAAGTCTCA
25626949 TTGGAGTCTT
Statistics
Matches: 289, Mismatches: 0, Indels: 6
0.98 0.00 0.02
Matches are distributed among these distances:
239 231 0.80
240 1 0.00
241 1 0.00
243 56 0.19
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (241 bp):
TAGAACTGTAGTTGTATCGATAGAAGAGGAGTTCTACCGGTAGAAGTCTCAGGGTAGACGACTTT
ACAAAATATTACCGTTGGAGTCGTTCTATCGGTAGATACTTCATTGTATCGATAGAATTCTGAGG
GTTTCATTTGGTATCGGTAGAACCCATCAAAGTATCGATAGAAGTGCAGGGGAGGATGAATTTTA
GCTACTAACTTGACTTGTTTCGATAGAAGTCTTCAAGGATCATCGA
Found at i:25629800 original size:52 final size:52
Alignment explanation
Indices: 25629722--25629821 Score: 182
Period size: 52 Copynumber: 1.9 Consensus size: 52
25629712 CATAAAAACT
* *
25629722 AGCATTAAATGCAGTCTGCAGCTTAGTTGTTCCGGTAGAAGCATACTTAACC
1 AGCATTAAATGCAGTCTACAGCTTAGTTGTTACGGTAGAAGCATACTTAACC
25629774 AGCATTAAATGCAGTCTACAGCTTAGTTGTTACGGTAGAAGCATACTT
1 AGCATTAAATGCAGTCTACAGCTTAGTTGTTACGGTAGAAGCATACTT
25629822 GTATAGGTAG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (52 bp):
AGCATTAAATGCAGTCTACAGCTTAGTTGTTACGGTAGAAGCATACTTAACC
Found at i:25630086 original size:20 final size:20
Alignment explanation
Indices: 25630061--25630114 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
25630051 AGTCTTCAAG
25630061 GTATCGGTAGAA-TTGTAGTT
1 GTATCGGTAGAAGTTG-AGTT
*
25630081 GTATCGATAGAAGTTGAGTT
1 GTATCGGTAGAAGTTGAGTT
* *
25630101 CTACCGGTAGAAGT
1 GTATCGGTAGAAGT
25630115 CTCACTTCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 26 0.90
21 3 0.10
ACGTcount: A:0.28, C:0.09, G:0.30, T:0.33
Consensus pattern (20 bp):
GTATCGGTAGAAGTTGAGTT
Found at i:25633506 original size:29 final size:29
Alignment explanation
Indices: 25633473--25633670 Score: 114
Period size: 29 Copynumber: 6.8 Consensus size: 29
25633463 CAAAAATGCG
*
25633473 ATTTTTGGATGTTCGGGGGTAAAACGGTA
1 ATTTTTGGATGTTCGGGGGTAAAATGGTA
** *
25633502 A-TTTTGGACACTTCGAGGGTAAAATGGTA
1 ATTTTTGGA-TGTTCGGGGGTAAAATGGTA
* *** * * *
25633531 ATTTTTGAACACTCGAGGGAAAAATTGTA
1 ATTTTTGGATGTTCGGGGGTAAAATGGTA
* * **
25633560 A-TTTCGGATGTTTGGGGGTAAAATAATA
1 ATTTTTGGATGTTCGGGGGTAAAATGGTA
* ***
25633588 ATTTTTGGAAAGTTCAGGGCCAAAAAT-GTA
1 ATTTTTGG-ATGTTC-GGGGGTAAAATGGTA
** * *
25633618 ATTTTTGGACATTCGAGGATAAAATGGTA
1 ATTTTTGGATGTTCGGGGGTAAAATGGTA
* **
25633647 ATTTTTAGATGTTTAGGGGTAAAA
1 ATTTTTGGATGTTCGGGGGTAAAA
25633671 ACATAAATTT
Statistics
Matches: 123, Mismatches: 40, Indels: 12
0.70 0.23 0.07
Matches are distributed among these distances:
28 32 0.26
29 63 0.51
30 20 0.16
31 8 0.07
ACGTcount: A:0.33, C:0.07, G:0.26, T:0.34
Consensus pattern (29 bp):
ATTTTTGGATGTTCGGGGGTAAAATGGTA
Found at i:25633683 original size:88 final size:88
Alignment explanation
Indices: 25633522--25633689 Score: 225
Period size: 88 Copynumber: 1.9 Consensus size: 88
25633512 CTTCGAGGGT
* * *
25633522 AAAATGGTAATTTTTGAACACTCGAGGGAAAAATTGTAATTTCGGATGTTTGGGGGTAAAATAAT
1 AAAATGGTAATTTTTGAACACTCGAGGGAAAAATGGTAATTTCAGATGTTTAGGGGTAAAATAAT
*
25633587 AATTTTTGGAAAGTTCAGGGCCA
66 AAATTTTGGAAAGTTCAGGGCCA
* * *
25633610 AAAAT-GTAATTTTTGGACATTCGA-GGATAAAATGGTAATTTTTAGATGTTTAGGGGTAAAA-A
1 AAAATGGTAATTTTTGAACACTCGAGGGA-AAAATGGTAA-TTTCAGATGTTTAGGGGTAAAATA
25633672 CATAAATTTTGGAAAGTT
64 -ATAAATTTTGGAAAGTT
25633690 TTGGGGTTAA
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
86 3 0.04
87 27 0.39
88 40 0.57
ACGTcount: A:0.37, C:0.06, G:0.23, T:0.34
Consensus pattern (88 bp):
AAAATGGTAATTTTTGAACACTCGAGGGAAAAATGGTAATTTCAGATGTTTAGGGGTAAAATAAT
AAATTTTGGAAAGTTCAGGGCCA
Found at i:25633710 original size:30 final size:30
Alignment explanation
Indices: 25633676--25633775 Score: 73
Period size: 30 Copynumber: 3.4 Consensus size: 30
25633666 TAAAAACATA
25633676 AATTTTGGAAAGTTTTGGGGTTAAAAATGC
1 AATTTTGGAAAGTTTTGGGGTTAAAAATGC
*** *
25633706 AATTTTAGG-AAGTTCAAGGG-T-AAAATAGT
1 AATTTT-GGAAAGTTTTGGGGTTAAAAAT-GC
* ** *
25633735 AATTTTTGGAAA-ATTTGAAGTTAAAAATGG
1 AA-TTTTGGAAAGTTTTGGGGTTAAAAATGC
25633765 AATTTTGGAAA
1 AATTTTGGAAA
25633776 TTTGAGAGTA
Statistics
Matches: 53, Mismatches: 11, Indels: 13
0.69 0.14 0.17
Matches are distributed among these distances:
28 5 0.09
29 17 0.32
30 24 0.45
31 7 0.13
ACGTcount: A:0.40, C:0.02, G:0.23, T:0.35
Consensus pattern (30 bp):
AATTTTGGAAAGTTTTGGGGTTAAAAATGC
Found at i:25633713 original size:59 final size:59
Alignment explanation
Indices: 25633663--25633774 Score: 138
Period size: 59 Copynumber: 1.9 Consensus size: 59
25633653 AGATGTTTAG
* **
25633663 GGGTAAAA-ACATAAATTTTGGAAAGTTTTGGGGTTAAAAATGCAATTTTAGGAAGTTCAA
1 GGGTAAAATA-ATAAATTTTGGAAA-ATTTGAAGTTAAAAATGCAATTTTAGGAAGTTCAA
* * *
25633723 GGGTAAAATAGTAATTTTTGGAAAATTTGAAGTTAAAAATGGAATTTT-GGAA
1 GGGTAAAATAATAAATTTTGGAAAATTTGAAGTTAAAAATGCAATTTTAGGAA
25633775 ATTTGAGAGT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
58 4 0.09
59 20 0.44
60 20 0.44
61 1 0.02
ACGTcount: A:0.41, C:0.03, G:0.23, T:0.33
Consensus pattern (59 bp):
GGGTAAAATAATAAATTTTGGAAAATTTGAAGTTAAAAATGCAATTTTAGGAAGTTCAA
Found at i:25633737 original size:89 final size:88
Alignment explanation
Indices: 25633566--25633741 Score: 212
Period size: 89 Copynumber: 2.0 Consensus size: 88
25633556 TGTAATTTCG
* * * *
25633566 GATGTTTGGGGGTAAAATAATAATTTTTGGAAAGTTCAGGGCCAAAAATGTAATTTTTGGACATT
1 GATGTTTAGGGGTAAAATAATAAATTTTGGAAAGTTCAGGGCCAAAAATGCAATTTTAGGACATT
* *
25633631 CGAGGATAAAATGGTAATTTTTA
66 CAAGGATAAAATAGTAATTTTTA
** **
25633654 GATGTTTAGGGGTAAAA-ACATAAATTTTGGAAAGTTTTGGGGTTAAAAATGCAATTTTAGGA-A
1 GATGTTTAGGGGTAAAATA-ATAAATTTTGGAAAG-TTCAGGGCCAAAAATGCAATTTTAGGACA
*
25633717 GTTCAAGGGTAAAATAGTAATTTTT
64 -TTCAAGGATAAAATAGTAATTTTT
25633742 GGAAAATTTG
Statistics
Matches: 74, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
87 1 0.01
88 31 0.42
89 42 0.57
ACGTcount: A:0.36, C:0.05, G:0.24, T:0.35
Consensus pattern (88 bp):
GATGTTTAGGGGTAAAATAATAAATTTTGGAAAGTTCAGGGCCAAAAATGCAATTTTAGGACATT
CAAGGATAAAATAGTAATTTTTA
Found at i:25633771 original size:29 final size:29
Alignment explanation
Indices: 25633738--25633833 Score: 83
Period size: 28 Copynumber: 3.3 Consensus size: 29
25633728 AAATAGTAAT
25633738 TTTTGGAAAATTTGAAGTTAAAAATGGAA
1 TTTTGGAAAATTTGAAGTTAAAAATGGAA
*
25633767 TTTTGG-AAATTTGAGAG-T-AAAACGGCAA
1 TTTTGGAAAATTTGA-AGTTAAAAATGG-AA
* * *
25633795 TTTT-CATAAAGTTTGAGGTCAAAAATGGAA
1 TTTTGGA-AAA-TTTGAAGTTAAAAATGGAA
25633825 TTTTTGGAA
1 -TTTTGGAA
25633834 GTTCGAGGGT
Statistics
Matches: 52, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
27 6 0.12
28 15 0.29
29 12 0.23
30 7 0.13
31 11 0.21
32 1 0.02
ACGTcount: A:0.40, C:0.04, G:0.22, T:0.34
Consensus pattern (29 bp):
TTTTGGAAAATTTGAAGTTAAAAATGGAA
Found at i:25633841 original size:29 final size:28
Alignment explanation
Indices: 25633587--25633893 Score: 101
Period size: 29 Copynumber: 10.4 Consensus size: 28
25633577 GTAAAATAAT
* * *
25633587 AATTTTTGGAAAGTTCAGGGCCAAAAATGT
1 AATTTTTGG-AAGTTGAGGG-TAAAAATGG
*
25633617 AATTTTTGGACA-TTCGAGGAT-AAAATGG
1 AATTTTTGGA-AGTT-GAGGGTAAAAATGG
* * * ***
25633645 TAATTTTTAGATGTTTAGGGGTAAAAACAT
1 -AATTTTTGGAAGTTGA-GGGTAAAAATGG
* *
25633675 AAATTTTGGAAAGTTTTG-GGGTTAAAAATGC
1 AATTTTTGG-AAG--TTGAGGG-TAAAAATGG
* * *
25633706 AATTTTAGGAAGTTCAAGGGT-AAAATAGT
1 AATTTTTGGAAGTT-GAGGGTAAAAAT-GG
* * *
25633735 AATTTTTGGAAAATTTGAAGTTAAAAATGG
1 AATTTTTGG--AAGTTGAGGGTAAAAATGG
* * *
25633765 AA-TTTTGGAAATTTGAGAGT-AAAACGG
1 AATTTTTGG-AAGTTGAGGGTAAAAATGG
*
25633792 CAATTTTCAT-AAAGTTTGA-GGTCAAAAATGG
1 -AATTTT--TGGAAG-TTGAGGGT-AAAAATGG
25633823 AATTTTTGGAAGTTCGAGGGT-AAAATGG
1 AATTTTTGGAAGTT-GAGGGTAAAAATGG
* * *
25633851 TAATTATTGAAAAGTTTAGGGTTAAAAATGG
1 -AATTTTTG-GAAGTTGAGGG-TAAAAATGG
*
25633882 AATTTTTAGAAG
1 AATTTTTGGAAG
25633894 CTTAATGGCA
Statistics
Matches: 204, Mismatches: 43, Indels: 61
0.66 0.14 0.20
Matches are distributed among these distances:
27 6 0.03
28 35 0.17
29 66 0.32
30 59 0.29
31 36 0.18
32 2 0.01
ACGTcount: A:0.38, C:0.04, G:0.23, T:0.34
Consensus pattern (28 bp):
AATTTTTGGAAGTTGAGGGTAAAAATGG
Found at i:25633865 original size:59 final size:58
Alignment explanation
Indices: 25633676--25633893 Score: 226
Period size: 59 Copynumber: 3.7 Consensus size: 58
25633666 TAAAAACATA
* * * * * *
25633676 AATTTTGGAAAGTTTTGGGGTTAAAAATGCAATTTTAGGAAGTTCAAGGGTAAAATAGT
1 AATTTTGAAAAG-TTTGAGGTTAAAAATGGAATTTTTGGAAGTTCGAGGGTAAAATGGT
* * * * * *
25633735 AATTTTTGGAAAA-TTTGAAGTTAAAAATGGAA-TTTTGGAAATTTGAGAGTAAAACGGC
1 AA-TTTT-GAAAAGTTTGAGGTTAAAAATGGAATTTTTGGAAGTTCGAGGGTAAAATGGT
* *
25633793 AATTTTCATAAAGTTTGAGGTCAAAAATGGAATTTTTGGAAGTTCGAGGGTAAAATGGT
1 AATTTTGA-AAAGTTTGAGGTTAAAAATGGAATTTTTGGAAGTTCGAGGGTAAAATGGT
*
25633852 AATTATTGAAAAGTTT-AGGGTTAAAAATGGAATTTTTAGAAG
1 AATT-TTGAAAAGTTTGA-GGTTAAAAATGGAATTTTTGGAAG
25633894 CTTAATGGCA
Statistics
Matches: 129, Mismatches: 23, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
56 1 0.01
57 7 0.05
58 38 0.29
59 72 0.56
60 7 0.05
61 4 0.03
ACGTcount: A:0.39, C:0.03, G:0.24, T:0.34
Consensus pattern (58 bp):
AATTTTGAAAAGTTTGAGGTTAAAAATGGAATTTTTGGAAGTTCGAGGGTAAAATGGT
Found at i:25633924 original size:117 final size:116
Alignment explanation
Indices: 25633676--25633968 Score: 274
Period size: 117 Copynumber: 2.5 Consensus size: 116
25633666 TAAAAACATA
* * * * *
25633676 AATTTTG-GAAAGTTTTGGGGTTAAAAATGCAATTTTAGGAAGTTCAAGGGTAAAATAGTAATTT
1 AATTTTGAG-AAG-TTTGAGGTCAAAAATGCAATTTTTGGAAGTTCAAGGGTAAAATGGTAATTA
* * * *
25633740 TTGGAAAATTTGAAGTTAAAAATGGAATTTTGGAAATTTGAGAGTAAAACGGC
64 TTGGAAAATTTGAAGTTAAAAATGGAATTTTAGAAACTTAAGAGCAAAACGGC
* * * *
25633793 AATTTTCATAAAGTTTGAGGTCAAAAATGGAATTTTTGGAAGTTCGAGGGTAAAATGGTAATTAT
1 AATTTTGA-GAAGTTTGAGGTCAAAAATGCAATTTTTGGAAGTTCAAGGGTAAAATGGTAATTAT
* * *
25633858 T-GAAAAGTTT-AGGGTTAAAAATGGAATTTTTAGAAGCTTAATG-GCATAAA-TGC
65 TGGAAAA-TTTGA-AGTTAAAAATGGAA-TTTTAGAAACTTAA-GAGCA-AAACGGC
* * *
25633911 AATTTTGAGAAGTTT-AGGGGCCAAAATGTAATTTTTGTGAAGTTCAAGGGTCAAAATG
1 AATTTTGAGAAGTTTGA-GGTCAAAAATGCAATTTTTG-GAAGTTCAAGGGT-AAAATG
25633969 TGATTTTTAG
Statistics
Matches: 144, Mismatches: 22, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
116 7 0.05
117 91 0.63
118 36 0.25
119 10 0.07
ACGTcount: A:0.38, C:0.05, G:0.24, T:0.33
Consensus pattern (116 bp):
AATTTTGAGAAGTTTGAGGTCAAAAATGCAATTTTTGGAAGTTCAAGGGTAAAATGGTAATTATT
GGAAAATTTGAAGTTAAAAATGGAATTTTAGAAACTTAAGAGCAAAACGGC
Found at i:25633937 original size:29 final size:29
Alignment explanation
Indices: 25633803--25633968 Score: 90
Period size: 29 Copynumber: 5.7 Consensus size: 29
25633793 AATTTTCATA
* *
25633803 AAGTTTGA-GGTCAAAAATGGAATTTTTG-G
1 AAGTTTAAGGGTC-AAAATGCAA-TTTTGAG
** * *
25633832 AAGTTCGAGGGT-AAAATGGTAATTATTGAA
1 AAGTTTAAGGGTCAAAAT-GCAATT-TTGAG
* * *
25633862 AAGTTT-AGGGTTAAAAATGGAATTTTTAG
1 AAGTTTAAGGG-TCAAAATGCAATTTTGAG
* *
25633891 AAGCTTAATGG-CATAAATGCAATTTTGAG
1 AAGTTTAAGGGTCA-AAATGCAATTTTGAG
* * * *
25633920 AAGTTTAGGGGCCAAAATGTAATTTTTGTG
1 AAGTTTAAGGGTCAAAATGCAA-TTTTGAG
*
25633950 AAGTTCAAGGGTCAAAATG
1 AAGTTTAAGGGTCAAAATG
25633969 TGATTTTTAG
Statistics
Matches: 107, Mismatches: 20, Indels: 19
0.73 0.14 0.13
Matches are distributed among these distances:
28 8 0.07
29 53 0.50
30 41 0.38
31 5 0.05
ACGTcount: A:0.37, C:0.05, G:0.25, T:0.33
Consensus pattern (29 bp):
AAGTTTAAGGGTCAAAATGCAATTTTGAG
Found at i:25633953 original size:30 final size:30
Alignment explanation
Indices: 25633816--25633986 Score: 97
Period size: 30 Copynumber: 5.8 Consensus size: 30
25633806 TTTGAGGTCA
* * *
25633816 AAAATGGAATTTTTG-GAAGTTCGAGGG-T
1 AAAATGTAATTTTTGAGAAGTTCAAGGGCC
* * * **
25633844 AAAATGGTAATTATTGAAAAGTT-TAGGGTTA
1 AAAAT-GTAATTTTTGAGAAGTTCAAGGG-CC
* *
25633875 AAAATGGAATTTTT-AGAAGCTT-AATGG-C
1 AAAATGTAATTTTTGAGAAG-TTCAAGGGCC
* * *
25633903 ATAAATGCAA-TTTTGAGAAGTTTAGGGGCC
1 A-AAATGTAATTTTTGAGAAGTTCAAGGGCC
* *
25633933 AAAATGTAATTTTTGTGAAGTTCAAGGGTC
1 AAAATGTAATTTTTGAGAAGTTCAAGGGCC
*
25633963 AAAATGTGATTTTT-AGATAGTTCA
1 AAAATGTAATTTTTGAGA-AGTTCA
25633987 GTGACAATCT
Statistics
Matches: 111, Mismatches: 21, Indels: 20
0.73 0.14 0.13
Matches are distributed among these distances:
28 12 0.11
29 40 0.36
30 54 0.49
31 5 0.05
ACGTcount: A:0.36, C:0.05, G:0.24, T:0.35
Consensus pattern (30 bp):
AAAATGTAATTTTTGAGAAGTTCAAGGGCC
Found at i:25636004 original size:6 final size:6
Alignment explanation
Indices: 25635995--25636068 Score: 75
Period size: 6 Copynumber: 12.7 Consensus size: 6
25635985 GTATTTAGGA
*
25635995 TAAATT TAAATT TGATAA-- TAAATT TAAATT TGAA-T TAAATT TAAATT
1 TAAATT TAAATT T-A-AATT TAAATT TAAATT TAAATT TAAATT TAAATT
* *
25636042 TAAACT TAAA-A TAAATT TAAATT TAAA
1 TAAATT TAAATT TAAATT TAAATT TAAA
25636069 AACAAATTCA
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
4 2 0.04
5 9 0.16
6 43 0.75
7 1 0.02
8 2 0.04
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.43
Consensus pattern (6 bp):
TAAATT
Found at i:25636007 original size:17 final size:17
Alignment explanation
Indices: 25635987--25636043 Score: 71
Period size: 17 Copynumber: 3.3 Consensus size: 17
25635977 ATTAATTTGT
*
25635987 ATTTAGGATAAATTTAA
1 ATTTAGAATAAATTTAA
*
25636004 ATTTGATAATAAATTTAA
1 ATTT-AGAATAAATTTAA
25636022 ATTT-GAATTAAATTTAA
1 ATTTAGAA-TAAATTTAA
25636039 ATTTA
1 ATTTA
25636044 AACTTAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
16 2 0.06
17 17 0.50
18 15 0.44
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.46
Consensus pattern (17 bp):
ATTTAGAATAAATTTAA
Found at i:25636043 original size:23 final size:22
Alignment explanation
Indices: 25635995--25636068 Score: 84
Period size: 23 Copynumber: 3.5 Consensus size: 22
25635985 GTATTTAGGA
25635995 TAAATTTAAATTTG-AT-AA--
1 TAAATTTAAATTTGAATAAATT
25636013 TAAATTTAAATTTGAATTAAATT
1 TAAATTTAAATTTGAA-TAAATT
**
25636036 TAAATTTAAACTTAAAATAAATT
1 TAAATTTAAA-TTTGAATAAATT
25636059 TAAATTTAAA
1 TAAATTTAAA
25636069 AACAAATTCA
Statistics
Matches: 48, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
18 14 0.29
19 1 0.02
20 1 0.02
21 2 0.04
23 26 0.54
24 4 0.08
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.43
Consensus pattern (22 bp):
TAAATTTAAATTTGAATAAATT
Found at i:25636056 original size:17 final size:17
Alignment explanation
Indices: 25636036--25636092 Score: 69
Period size: 17 Copynumber: 3.3 Consensus size: 17
25636026 GAATTAAATT
25636036 TAAATTTAAACTTAAAA
1 TAAATTTAAACTTAAAA
*
25636053 TAAATTTAAATTTAAAAA
1 TAAATTTAAACTT-AAAA
* * *
25636071 CAAATTCAAACTTAAGA
1 TAAATTTAAACTTAAAA
25636088 TAAAT
1 TAAAT
25636093 CCAAAACAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
17 19 0.58
18 14 0.42
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.33
Consensus pattern (17 bp):
TAAATTTAAACTTAAAA
Found at i:25636070 original size:18 final size:18
Alignment explanation
Indices: 25635994--25636076 Score: 78
Period size: 18 Copynumber: 4.4 Consensus size: 18
25635984 TGTATTTAGG
* *
25635994 ATAAATTTAAATTTGATA
1 ATAAATTTAAATTTAAAA
25636012 ATAAATTTAAATTTGAATTAA
1 ATAAATTTAAATTT-AA--AA
*
25636033 ATTTAAATTTAAACTT-AAA
1 A--TAAATTTAAATTTAAAA
25636052 ATAAATTTAAATTTAAAA
1 ATAAATTTAAATTTAAAA
*
25636070 ACAAATT
1 ATAAATT
25636077 CAAACTTAAG
Statistics
Matches: 54, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
17 12 0.22
18 23 0.43
19 4 0.07
21 3 0.06
23 12 0.22
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (18 bp):
ATAAATTTAAATTTAAAA
Found at i:25636085 original size:18 final size:18
Alignment explanation
Indices: 25636037--25636085 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
25636027 AATTAAATTT
*
25636037 AAATTTAAACTT-AAAAT
1 AAATTTAAACTTAAAAAC
*
25636054 AAATTTAAATTTAAAAAC
1 AAATTTAAACTTAAAAAC
*
25636072 AAATTCAAACTTAA
1 AAATTTAAACTTAA
25636086 GATAAATCCA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
17 11 0.41
18 16 0.59
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (18 bp):
AAATTTAAACTTAAAAAC
Found at i:25636751 original size:209 final size:208
Alignment explanation
Indices: 25636388--25637059 Score: 954
Period size: 209 Copynumber: 3.2 Consensus size: 208
25636378 TGGTTTGGTG
* * *
25636388 TCATTGATTTGGTCTACTTCTCAGTGTCTCATCAGGAAGATGACCGTATCACTTG-TTCTGATCC
1 TCATTGATTTGGTCTACTTCTCAGTATCTCATCAGAAAGATGACCGTATCACTTGTTTC-AATCC
* * * * *
25636452 ACTTCTCTGTGTCTTATCAGGAAGACGGATTTGGTTCACTTCTCTATATCTCATCAGGAAGGTAA
65 ACTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTC-ATATCTCATCAGGAAGCTAA
** * **
25636517 CCGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGTTTCGAAGATTCACTC
129 CCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTC
25636582 ACTTTGAGCCTGGCT
194 ACTTTGAGCCTGGCT
* * *
25636597 TCATTGATTTGGTCTACTTCTAAGTATCTCATCAGGAAGAT-AGCTGTATCACTTGTTTCAATCC
1 TCATTGATTTGGTCTACTTCTCAGTATCTCATCAGAAAGATGA-CCGTATCACTTGTTTCAATCC
*
25636661 ACTTCTCTGTATATCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAA
65 ACTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCA-TATCTCATCAGGAAGCTAA
* * *
25636726 CCATTTTATTGCTTCGACTTGCTTCTCATTATCTAATCAGGAAGCTGGGGTTCGAAGATTTGCTC
129 CCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTC
*
25636791 ACTTTGAGCTTGGCT
194 ACTTTGAGCCTGGCT
* * * * *
25636806 TCATTGATTTGGTCTTCTTCTCAGTATCTCATAAGAAAGATGACCGCATCACTTGTTTCAATTCG
1 TCATTGATTTGGTCTACTTCTCAGTATCTCATCAGAAAGATGACCGTATCACTTGTTTCAATCCA
25636871 CTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAATATCTCATCAGGAAGCTAAC
66 CTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTC-ATATCTCATCAGGAAGCTAAC
* * * *
25636936 CATTTTATTGCTTTGACCTACTTCTAAGTATCTCATCAAGAAGCTGGGGTTCGAAGATTTGCTCA
130 CATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCA
**
25637001 CTTTGAGCCTGATT
195 CTTTGAGCCTGGCT
* * *
25637015 TCATCGAGTTGGTATACTTCTCTA-TATCTCATCAGAAAGATGACC
1 TCATTGATTTGGTCTACTTCTC-AGTATCTCATCAGAAAGATGACC
25637060 AACTCATTGT
Statistics
Matches: 414, Mismatches: 43, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
208 2 0.00
209 406 0.98
210 6 0.01
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.36
Consensus pattern (208 bp):
TCATTGATTTGGTCTACTTCTCAGTATCTCATCAGAAAGATGACCGTATCACTTGTTTCAATCCA
CTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCATATCTCATCAGGAAGCTAACC
ATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCAC
TTTGAGCCTGGCT
Found at i:25649290 original size:58 final size:58
Alignment explanation
Indices: 25649187--25649356 Score: 191
Period size: 58 Copynumber: 2.9 Consensus size: 58
25649177 GATGCTCGGG
* * *
25649187 GGTAAAATGGTGATTTTTGGAAA-TTTGGGGTTAAAATGGAATTTTTGAAAGTTCAGA
1 GGTAAAATGGTAATTTTTGAAAAGTTTAGGGTTAAAATGGAATTTTTGAAAGTTCAGA
* * * *
25649244 GGTAAAATGGTAATTTTTGAAAAGTTCAGGGTTAAAATGGAATTTTTGGAAGTTTAGG
1 GGTAAAATGGTAATTTTTGAAAAGTTTAGGGTTAAAATGGAATTTTTGAAAGTTCAGA
* * ** **
25649302 GGCAAAAAT-GTAATTTTTGAGAAGTTTAGGGCCAAAATATAATTTTTGTAAAGTT
1 GG-TAAAATGGTAATTTTTGAAAAGTTTAGGGTTAAAATGGAATTTTTG-AAAGTT
25649357 TGGGGTTAAA
Statistics
Matches: 95, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
57 21 0.22
58 64 0.67
59 10 0.11
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.36
Consensus pattern (58 bp):
GGTAAAATGGTAATTTTTGAAAAGTTTAGGGTTAAAATGGAATTTTTGAAAGTTCAGA
Found at i:25649317 original size:87 final size:85
Alignment explanation
Indices: 25649189--25649377 Score: 211
Period size: 87 Copynumber: 2.2 Consensus size: 85
25649179 TGCTCGGGGG
** *
25649189 TAAAATGGTGATTTTTGGAAATTTGGGGTTAAAATGGAATTTTTGA-AAGTTCAGAGG-TAAAAT
1 TAAAAT-G-GATTTTTGGAAATTTGGGGCAAAAATGGAATTTTTGAGAAGTTCAG-GGCCAAAAT
*
25649252 GGTAATTTTTGAAAAGTTCAGGGT
63 -ATAATTTTTGAAAAGTTCAGGGT
* * *
25649276 TAAAATGGAATTTTTGGAAGTTTAGGGGCAAAAATGTAATTTTTGAGAAGTTTAGGGCCAAAATA
1 TAAAATGG-ATTTTTGGAAATTT-GGGGCAAAAATGGAATTTTTGAGAAGTTCAGGGCCAAAATA
* **
25649341 TAATTTTTGTAAAGTTTGGGGT
64 TAATTTTTGAAAAGTTCAGGGT
25649363 TAAAATGTGATTTTT
1 TAAAATG-GATTTTT
25649378 AGATAGGTTA
Statistics
Matches: 87, Mismatches: 10, Indels: 10
0.81 0.09 0.09
Matches are distributed among these distances:
85 1 0.01
86 14 0.16
87 59 0.68
88 13 0.15
ACGTcount: A:0.34, C:0.03, G:0.25, T:0.38
Consensus pattern (85 bp):
TAAAATGGATTTTTGGAAATTTGGGGCAAAAATGGAATTTTTGAGAAGTTCAGGGCCAAAATATA
ATTTTTGAAAAGTTCAGGGT
Found at i:25649328 original size:30 final size:30
Alignment explanation
Indices: 25649184--25649390 Score: 155
Period size: 29 Copynumber: 7.1 Consensus size: 30
25649174 TTGGATGCTC
* * *
25649184 GGGGGTAAAATGGTGATTTTTG-GAAATTT-
1 GGGGCTAAAAT-GTAATTTTTGAGAAGTTTA
* * *
25649213 GGGGTTAAAATGGAATTTTTGA-AAGTTCA
1 GGGGCTAAAATGTAATTTTTGAGAAGTTTA
* * *
25649242 GAGG-TAAAATGGTAATTTTTGAAAAGTTCA
1 GGGGCTAAAAT-GTAATTTTTGAGAAGTTTA
* *
25649272 -GGGTTAAAATGGAATTTTTG-GAAGTTTA
1 GGGGCTAAAATGTAATTTTTGAGAAGTTTA
*
25649300 GGGGCAAAAATGTAATTTTTGAGAAGTTTA
1 GGGGCTAAAATGTAATTTTTGAGAAGTTTA
* *
25649330 -GGGCCAAAATATAATTTTTGTA-AAGTTT-
1 GGGGCTAAAATGTAATTTTTG-AGAAGTTTA
* * *
25649358 GGGGTTAAAATGTGATTTTT-AGATAGGTTA
1 GGGGCTAAAATGTAATTTTTGAGA-AGTTTA
25649388 GGG
1 GGG
25649391 ATTTTTTAGA
Statistics
Matches: 145, Mismatches: 21, Indels: 23
0.77 0.11 0.12
Matches are distributed among these distances:
27 1 0.01
28 25 0.17
29 94 0.65
30 25 0.17
ACGTcount: A:0.33, C:0.02, G:0.28, T:0.36
Consensus pattern (30 bp):
GGGGCTAAAATGTAATTTTTGAGAAGTTTA
Found at i:25652888 original size:15 final size:15
Alignment explanation
Indices: 25652865--25652899 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
25652855 CTAAGGTTCA
25652865 ACCACTCAAAACACT
1 ACCACTCAAAACACT
* *
25652880 ACCAGTCAAAACATT
1 ACCACTCAAAACACT
25652895 ACCAC
1 ACCAC
25652900 CATGCTTTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.46, C:0.37, G:0.03, T:0.14
Consensus pattern (15 bp):
ACCACTCAAAACACT
Found at i:25660197 original size:59 final size:61
Alignment explanation
Indices: 25660127--25660243 Score: 166
Period size: 62 Copynumber: 1.9 Consensus size: 61
25660117 ATCACTTTAA
* * * **
25660127 TATTAAATTAATATAATATTTA-T-CAATATAAATATTAGATTAAATTTAATATTAAATCT
1 TATTAAATTAATAGAATATTTACTACAAAATAAATATTAAATTAAAAATAATATTAAATCT
25660186 TATTAAATTAATAGAATATTTATCTACAAAATAAATATTAAATTAAAAATAATATTAA
1 TATTAAATTAATAGAATATTTA-CTACAAAATAAATATTAAATTAAAAATAATATTAA
25660244 GATAATCACT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 21 0.42
61 1 0.02
62 28 0.56
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (61 bp):
TATTAAATTAATAGAATATTTACTACAAAATAAATATTAAATTAAAAATAATATTAAATCT
Found at i:25664897 original size:13 final size:13
Alignment explanation
Indices: 25664875--25664909 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
25664865 ATTACTGTCT
* *
25664875 TTTGCGCTAACTG
1 TTTGCCCTAACTA
25664888 TTTGCCCTAACTA
1 TTTGCCCTAACTA
25664901 TTTGCCCTA
1 TTTGCCCTA
25664910 TTGGGACATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.17, C:0.29, G:0.14, T:0.40
Consensus pattern (13 bp):
TTTGCCCTAACTA
Found at i:25668397 original size:21 final size:21
Alignment explanation
Indices: 25668367--25668427 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
25668357 TGGACATCCA
* *
25668367 TAAAGTAATATTTATAAAAGT
1 TAAAATAATATTAATAAAAGT
* **
25668388 TATAATAATATTAATAATGGT
1 TAAAATAATATTAATAAAAGT
*
25668409 TAAAATAATAATACATAAA
1 TAAAATAATATTA-ATAAA
25668428 CATCATCATC
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
21 27 0.87
22 4 0.13
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.36
Consensus pattern (21 bp):
TAAAATAATATTAATAAAAGT
Found at i:25669490 original size:10 final size:9
Alignment explanation
Indices: 25669470--25669536 Score: 55
Period size: 9 Copynumber: 7.3 Consensus size: 9
25669460 TTTAGAAAAA
25669470 TTTTAAA-T
1 TTTTAAATT
25669478 TTTTAAATTT
1 TTTTAAA-TT
*
25669488 TTTTATATT
1 TTTTAAATT
25669497 TTTTAGAATT
1 TTTTA-AATT
* *
25669507 TTATAATTT
1 TTTTAAATT
**
25669516 TTTTAAAAA
1 TTTTAAATT
*
25669525 TTATAAATT
1 TTTTAAATT
25669534 TTT
1 TTT
25669537 AATTTTGAAA
Statistics
Matches: 44, Mismatches: 12, Indels: 5
0.72 0.20 0.08
Matches are distributed among these distances:
8 7 0.16
9 23 0.52
10 14 0.32
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.64
Consensus pattern (9 bp):
TTTTAAATT
Found at i:25669497 original size:18 final size:18
Alignment explanation
Indices: 25669470--25669522 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 18
25669460 TTTAGAAAAA
*
25669470 TTTTAAATTTTTAAATTT
1 TTTTATATTTTTAAATTT
25669488 TTTTATATTTTTTAGAATTT
1 TTTTATA-TTTTTA-AATTT
* * *
25669508 TATAATTTTTTTAAA
1 TTTTATATTTTTAAA
25669523 AATTATAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 8 0.28
19 12 0.41
20 9 0.31
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (18 bp):
TTTTATATTTTTAAATTT
Found at i:25670042 original size:20 final size:20
Alignment explanation
Indices: 25669992--25670056 Score: 71
Period size: 20 Copynumber: 3.2 Consensus size: 20
25669982 TTTAATTTCA
* *
25669992 TAATTATCTTAATAGT-ATT
1 TAATTATCTTAATATTAAAT
*
25670011 TTATTAAT-TTAATATTAAAT
1 TAATT-ATCTTAATATTAAAT
25670031 TAATTATCTTAATATTAAATT
1 TAATTATCTTAATATTAAA-T
25670052 TAATT
1 TAATT
25670057 TAACGTTTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
19 13 0.34
20 19 0.50
21 6 0.16
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.54
Consensus pattern (20 bp):
TAATTATCTTAATATTAAAT
Found at i:25670111 original size:62 final size:58
Alignment explanation
Indices: 25670023--25670155 Score: 162
Period size: 62 Copynumber: 2.2 Consensus size: 58
25670013 ATTAATTTAA
* * *
25670023 TATTAAATTAAT-TATCTTAATATTAAATTTAATTTAACGTTTATCTTGTAGATAAATATT
1 TATTAATTTAATATATCTTAATATTAAATTTAATCTAACATTTAT-TT-T-GATAAATATT
* *
25670083 CTATTAATTTAATAATAT-TTAATATTAAATTTAATCTAATATTTATTTTGATAAGTATT
1 -TATTAATTTAAT-ATATCTTAATATTAAATTTAATCTAACATTTATTTTGATAAATATT
25670142 TATTAATTTAATAT
1 TATTAATTTAATAT
25670156 TAAAGTGATT
Statistics
Matches: 65, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
57 2 0.03
58 12 0.18
59 9 0.14
60 1 0.02
61 13 0.20
62 25 0.38
63 3 0.05
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.52
Consensus pattern (58 bp):
TATTAATTTAATATATCTTAATATTAAATTTAATCTAACATTTATTTTGATAAATATT
Found at i:25670186 original size:11 final size:11
Alignment explanation
Indices: 25670167--25670197 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
25670157 AAAGTGATTA
25670167 AGTTTAATCAT
1 AGTTTAATCAT
*
25670178 AGTTGAATCAT
1 AGTTTAATCAT
25670189 AGTTTAATC
1 AGTTTAATC
25670198 TAATACATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.42
Consensus pattern (11 bp):
AGTTTAATCAT
Found at i:25671310 original size:31 final size:30
Alignment explanation
Indices: 25671275--25671368 Score: 100
Period size: 29 Copynumber: 3.1 Consensus size: 30
25671265 ATTTGAGGTC
25671275 AAAATGTAATTTTGGGAAAAGTTTAGGGGTT
1 AAAATGTAATTTT-GGAAAAGTTTAGGGGTT
* **
25671306 AAAATGTAATTTTAGAAAAGTTT-GGGACT
1 AAAATGTAATTTTGGAAAAGTTTAGGGGTT
* * * * *
25671335 AAAATATGATTTTGGAAAGGTTTAGAGGTC
1 AAAATGTAATTTTGGAAAAGTTTAGGGGTT
25671365 AAAA
1 AAAA
25671369 CGAAATTCTA
Statistics
Matches: 51, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
29 23 0.45
30 15 0.29
31 13 0.25
ACGTcount: A:0.40, C:0.02, G:0.24, T:0.33
Consensus pattern (30 bp):
AAAATGTAATTTTGGAAAAGTTTAGGGGTT
Found at i:25671326 original size:30 final size:30
Alignment explanation
Indices: 25671275--25671392 Score: 96
Period size: 30 Copynumber: 3.9 Consensus size: 30
25671265 ATTTGAGGTC
*
25671275 AAAATGTAATTTTGGGAAAAGTTTAGGGGTT
1 AAAATGTAATTTT-AGAAAAGTTTAGGGGTT
**
25671306 AAAATGTAATTTTAGAAAAGTTT-GGGACT
1 AAAATGTAATTTTAGAAAAGTTTAGGGGTT
* * * * * *
25671335 AAAATATGATTTTGGAAAGGTTTAGAGGTC
1 AAAATGTAATTTTAGAAAAGTTTAGGGGTT
* * *
25671365 AAAACGAAATTCTA-AAAGAGTTTAGGGG
1 AAAATGTAATTTTAGAAA-AGTTTAGGGG
25671393 CTCTTTTATG
Statistics
Matches: 66, Mismatches: 19, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
29 26 0.39
30 27 0.41
31 13 0.20
ACGTcount: A:0.40, C:0.03, G:0.25, T:0.31
Consensus pattern (30 bp):
AAAATGTAATTTTAGAAAAGTTTAGGGGTT
Found at i:25672752 original size:23 final size:23
Alignment explanation
Indices: 25672726--25672784 Score: 100
Period size: 23 Copynumber: 2.6 Consensus size: 23
25672716 GTGTAGACTC
25672726 GGCAGTGGCGGTGGTGGCAAGTT
1 GGCAGTGGCGGTGGTGGCAAGTT
25672749 GGCAGTGGCGGTGGTGGCAAGTT
1 GGCAGTGGCGGTGGTGGCAAGTT
* *
25672772 GGCTGTGACGGTG
1 GGCAGTGGCGGTG
25672785 CTGACGTGGC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.12, C:0.14, G:0.53, T:0.22
Consensus pattern (23 bp):
GGCAGTGGCGGTGGTGGCAAGTT
Found at i:25675921 original size:30 final size:28
Alignment explanation
Indices: 25675885--25675954 Score: 86
Period size: 30 Copynumber: 2.4 Consensus size: 28
25675875 ATTAGTAAAA
*
25675885 ATAAAATTATATTTTGATCCTCTTAAAATT
1 ATAAAATTATA-TTTAATCCT-TTAAAATT
*
25675915 ATAAAATTTTGATTTAATCCTTTAAAATT
1 ATAAAATTAT-ATTTAATCCTTTAAAATT
*
25675944 ATAAAAATATA
1 ATAAAATTATA
25675955 AACTATTAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
28 1 0.03
29 16 0.46
30 17 0.49
31 1 0.03
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.44
Consensus pattern (28 bp):
ATAAAATTATATTTAATCCTTTAAAATT
Found at i:25677217 original size:28 final size:27
Alignment explanation
Indices: 25677154--25677206 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
25677144 TACGCAAGAA
** *
25677154 AAATTAAAAAAATATCATTAGTTAAGCT
1 AAATTAATGAAATATCATTAGTCAA-CT
25677182 AAATTAATGAAATATCATTAGTCAA
1 AAATTAATGAAATATCATTAGTCAA
25677207 TAATATCTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.53, C:0.08, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTAATGAAATATCATTAGTCAACT
Found at i:25681055 original size:22 final size:22
Alignment explanation
Indices: 25680998--25681055 Score: 55
Period size: 22 Copynumber: 2.5 Consensus size: 22
25680988 AGAGTGACTA
25680998 AAATATTTAATAAATTAAGTAACT
1 AAAT-TTTAA-AAATTAAGTAACT
* *
25681022 AAATTTAAAAAAATTAA-TAATT
1 AAATTT-TAAAAATTAAGTAACT
25681044 AAATTATTAAAA
1 AAATT-TTAAAA
25681056 TAAAATAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
22 13 0.45
23 10 0.34
24 6 0.21
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (22 bp):
AAATTTTAAAAATTAAGTAACT
Found at i:25688628 original size:20 final size:20
Alignment explanation
Indices: 25688603--25688649 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
25688593 GTAGGACATT
*
25688603 ATATGATATGATATTTTCTG
1 ATATGATATGATATTTTATG
*
25688623 ATATGATATGATGTTTTATG
1 ATATGATATGATATTTTATG
25688643 ATATGAT
1 ATATGAT
25688650 CCAATGCATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.32, C:0.02, G:0.17, T:0.49
Consensus pattern (20 bp):
ATATGATATGATATTTTATG
Found at i:25692234 original size:31 final size:30
Alignment explanation
Indices: 25692146--25692246 Score: 111
Period size: 28 Copynumber: 3.5 Consensus size: 30
25692136 TTTGATATAT
* *
25692146 ATTTCGTATTTAAATTTGATA-TTTTT-TA
1 ATTTGGTACTTAAATTTGATATTTTTTCTA
* *
25692174 ATTTGGTATTTAAATTTG-T-TTTTATCTA
1 ATTTGGTACTTAAATTTGATATTTTTTCTA
*
25692202 ATTTGGTACTTGAATTTGATATTTTTTCCTA
1 ATTTGGTACTTAAATTTGATATTTTTT-CTA
*
25692233 ATTTGGTACCTAAA
1 ATTTGGTACTTAAA
25692247 CTTTTTTTTG
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 5 0.08
28 35 0.57
29 1 0.02
30 5 0.08
31 15 0.25
ACGTcount: A:0.27, C:0.07, G:0.11, T:0.55
Consensus pattern (30 bp):
ATTTGGTACTTAAATTTGATATTTTTTCTA
Found at i:25692287 original size:61 final size:61
Alignment explanation
Indices: 25692201--25692315 Score: 185
Period size: 61 Copynumber: 1.9 Consensus size: 61
25692191 GTTTTTATCT
* * * * *
25692201 AATTTGGTACTTGAATTTGATATTTTTTCCTAATTTGGTACCTAAACTTTTTTTTGGAACA
1 AATTTGATACTTGAACTTGACATTTTTTCCCAATTTGATACCTAAACTTTTTTTTGGAACA
25692262 AATTTGATACTTGAACTTGACATTTTTTCCCAATTTGATACCTAAACTTTTTTT
1 AATTTGATACTTGAACTTGACATTTTTTCCCAATTTGATACCTAAACTTTTTTT
25692316 AGATTCAATT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
61 49 1.00
ACGTcount: A:0.27, C:0.14, G:0.10, T:0.49
Consensus pattern (61 bp):
AATTTGATACTTGAACTTGACATTTTTTCCCAATTTGATACCTAAACTTTTTTTTGGAACA
Found at i:25692673 original size:19 final size:19
Alignment explanation
Indices: 25692651--25692687 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
25692641 AATGGTATAT
25692651 GAATCAAAATTGATAATAA
1 GAATCAAAATTGATAATAA
25692670 GAATCAAAATTGATAATA
1 GAATCAAAATTGATAATA
25692688 TGAAAGTAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.57, C:0.05, G:0.11, T:0.27
Consensus pattern (19 bp):
GAATCAAAATTGATAATAA
Found at i:25697661 original size:49 final size:48
Alignment explanation
Indices: 25697572--25697712 Score: 140
Period size: 49 Copynumber: 2.9 Consensus size: 48
25697562 TAAATATAAA
* * * * * * *
25697572 ATATTTATATAAAATACGAGATCTCAAGTAAATAAA-TAAATAAATATTT
1 ATATTTATGTAAAACACCAGATCT-AA-AAAAAAAATTAAATAAAAATGT
*
25697621 ATGTTTATGTAAAACACCAGATCTAAAAAAAAAAATTAAATAAAAATGT
1 ATATTTATGTAAAACACCAGATCT-AAAAAAAAAATTAAATAAAAATGT
* * * *
25697670 ATATTTATTTAAAACATCAGATCTAAAAAATAATTTAAATAAA
1 ATATTTATGTAAAACACCAGATCTAAAAAAAAAATTAAATAAA
25697713 CAAGATCTGA
Statistics
Matches: 77, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
48 23 0.30
49 54 0.70
ACGTcount: A:0.55, C:0.07, G:0.06, T:0.32
Consensus pattern (48 bp):
ATATTTATGTAAAACACCAGATCTAAAAAAAAAATTAAATAAAAATGT
Found at i:25699182 original size:13 final size:13
Alignment explanation
Indices: 25699159--25699194 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
25699149 TCTTGTTTCT
25699159 AAAACTAAAATTA
1 AAAACTAAAATTA
* *
25699172 CAAAGTAAAATTA
1 AAAACTAAAATTA
25699185 AAAACTAAAA
1 AAAACTAAAA
25699195 AACGGTGTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.69, C:0.08, G:0.03, T:0.19
Consensus pattern (13 bp):
AAAACTAAAATTA
Found at i:25700284 original size:80 final size:80
Alignment explanation
Indices: 25700151--25700312 Score: 315
Period size: 80 Copynumber: 2.0 Consensus size: 80
25700141 AAACACGAAG
*
25700151 ACAGTTTTGCACATTGTATTGTTCCCTATTCTCCCCCTTTATGTCCCATTCCATCTCACCTCCTT
1 ACAGTTTTGCACATTGTATTGTTCACTATTCTCCCCCTTTATGTCCCATTCCATCTCACCTCCTT
25700216 ATTTCTCCTTCTCTC
66 ATTTCTCCTTCTCTC
25700231 ACAGTTTTGCACATTGTATTGTTCACTATTCTCCCCCTTTATGTCCCATTCCATCTCACCTCCTT
1 ACAGTTTTGCACATTGTATTGTTCACTATTCTCCCCCTTTATGTCCCATTCCATCTCACCTCCTT
25700296 ATTTCTCCTTCTCTC
66 ATTTCTCCTTCTCTC
25700311 AC
1 AC
25700313 CTTCCTTATT
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 81 1.00
ACGTcount: A:0.15, C:0.36, G:0.06, T:0.43
Consensus pattern (80 bp):
ACAGTTTTGCACATTGTATTGTTCACTATTCTCCCCCTTTATGTCCCATTCCATCTCACCTCCTT
ATTTCTCCTTCTCTC
Found at i:25700297 original size:25 final size:25
Alignment explanation
Indices: 25700284--25700330 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
25700274 TCCCATTCCA
25700284 TCTCACC-TCCTTATTTCTCC-TTC
1 TCTCACCTTCCTTATTTCTCCATTC
25700307 TCTCACCTTCCTTATTTCTCCATT
1 TCTCACCTTCCTTATTTCTCCATT
25700331 TTAGGAAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 7 0.32
24 13 0.59
25 2 0.09
ACGTcount: A:0.11, C:0.40, G:0.00, T:0.49
Consensus pattern (25 bp):
TCTCACCTTCCTTATTTCTCCATTC
Found at i:25700516 original size:28 final size:28
Alignment explanation
Indices: 25700478--25700538 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 28
25700468 AGATTCTCCC
*
25700478 TTTTCGTTTTT-ACTCATTTTCCTTTTCTTT
1 TTTTC-TTTTTCACT-ATTTT-CTTCTCTTT
25700508 TTTTCTTTTTCACTATTTTCTTCTCTTT
1 TTTTCTTTTTCACTATTTTCTTCTCTTT
25700536 TTT
1 TTT
25700539 AGCTAAACTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 11 0.38
29 10 0.34
30 8 0.28
ACGTcount: A:0.07, C:0.20, G:0.02, T:0.72
Consensus pattern (28 bp):
TTTTCTTTTTCACTATTTTCTTCTCTTT
Found at i:25702216 original size:82 final size:82
Alignment explanation
Indices: 25702024--25702468 Score: 467
Period size: 82 Copynumber: 5.5 Consensus size: 82
25702014 ATCAATTATA
* *** * * *
25702024 TTGAACGACAGGAATAAATTTTGAAACAAAATTATTTAATTAATTCTTGTTTGAAAACAAAATTA
1 TTGAACAACAGGAATAAATCCCGAAACAGAATTATTCAATTAATTCTTGTTTGAAAACAAAATCA
*
25702089 AAAT----T--ATTCCTG
66 AAATAGAATAAAAT-CTG
* * * *
25702101 TTGAACGACAGGAATAAATCCCGAAATATAATTATTCAATTAATTATTGTTTGAAAACAAAATCA
1 TTGAACAACAGGAATAAATCCCGAAACAGAATTATTCAATTAATTCTTGTTTGAAAACAAAATCA
*
25702166 AAATAGAATAAAACCTG
66 AAATAGAATAAAATCTG
* * *
25702183 TTGAACAACGGGAATAAATCCCGAAACAGAATTATTTAATTAATTCTTGTTTGGAAACAAAATCA
1 TTGAACAACAGGAATAAATCCCGAAACAGAATTATTCAATTAATTCTTGTTTGAAAACAAAATCA
* *
25702248 GAATAGAATAAAATCTA
66 AAATAGAATAAAATCTG
* ** * * * * *
25702265 TTGTATGATAGAAATAAATCCCGAAATAGAATTATTCAATTAATTCTTATTTGGAAACAAAATCA
1 TTGAACAACAGGAATAAATCCCGAAACAGAATTATTCAATTAATTCTTGTTTGAAAACAAAATCA
25702330 AAATAGAATAAAATCTG
66 AAATAGAATAAAATCTG
* *** * * * *
25702347 TTAAACAGTTGGAATAAATCTCAAAATAGAATTATTCAATTAATCCTTGTTTG-AAACAAAATCA
1 TTGAACAACAGGAATAAATCCCGAAACAGAATTATTCAATTAATTCTTGTTTGAAAACAAAATCA
* *
25702411 TAATAGAATAAAATATG
66 AAATAGAATAAAATCTG
*
25702428 TTGAACGAA-AGAAATAAATCCCGAAACA-AATTTATTCAATT
1 TTGAAC-AACAGGAATAAATCCCGAAACAGAA-TTATTCAATT
25702469 TTAATTTTTA
Statistics
Matches: 309, Mismatches: 51, Indels: 12
0.83 0.14 0.03
Matches are distributed among these distances:
77 61 0.20
80 2 0.01
81 56 0.18
82 189 0.61
83 1 0.00
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.31
Consensus pattern (82 bp):
TTGAACAACAGGAATAAATCCCGAAACAGAATTATTCAATTAATTCTTGTTTGAAAACAAAATCA
AAATAGAATAAAATCTG
Found at i:25705251 original size:25 final size:23
Alignment explanation
Indices: 25705236--25705280 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
25705226 GGTTTTTTAG
25705236 TATTTGTGCATACTAGATTTATT
1 TATTTGTGCATACTAGATTTATT
25705259 TATTTGTGCAT--TA-ATTTATT
1 TATTTGTGCATACTAGATTTATT
25705279 TA
1 TA
25705281 ATTATCTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 9 0.41
21 2 0.09
23 11 0.50
ACGTcount: A:0.27, C:0.07, G:0.11, T:0.56
Consensus pattern (23 bp):
TATTTGTGCATACTAGATTTATT
Found at i:25710377 original size:26 final size:26
Alignment explanation
Indices: 25710345--25710443 Score: 144
Period size: 26 Copynumber: 3.8 Consensus size: 26
25710335 GTATACTGGT
25710345 TAAACTCTGTTTGGGCTCGTAAGAGC
1 TAAACTCTGTTTGGGCTCGTAAGAGC
* * *
25710371 TCAACTCTATTTGGGCTTGTAAGAGC
1 TAAACTCTGTTTGGGCTCGTAAGAGC
*
25710397 TAAACTCTGTTTGGGCTCGTAGGAGC
1 TAAACTCTGTTTGGGCTCGTAAGAGC
* *
25710423 TAAACTTTGATTGGGCTCGTA
1 TAAACTCTGTTTGGGCTCGTA
25710444 GGAACTAATG
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 64 1.00
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.33
Consensus pattern (26 bp):
TAAACTCTGTTTGGGCTCGTAAGAGC
Found at i:25712961 original size:26 final size:28
Alignment explanation
Indices: 25712932--25712988 Score: 82
Period size: 26 Copynumber: 2.1 Consensus size: 28
25712922 CGTGCATTGG
* *
25712932 AATTTAGTTTAGCTTTA-AC-TTAGATT
1 AATTTAGTTTAGATTAATACTTTAGATT
25712958 AATTTAGTTTAGATTAATACTTTAGATT
1 AATTTAGTTTAGATTAATACTTTAGATT
25712986 AAT
1 AAT
25712989 ATCCTTCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 15 0.56
27 2 0.07
28 10 0.37
ACGTcount: A:0.35, C:0.05, G:0.11, T:0.49
Consensus pattern (28 bp):
AATTTAGTTTAGATTAATACTTTAGATT
Found at i:25712983 original size:13 final size:13
Alignment explanation
Indices: 25712951--25712989 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
25712941 TAGCTTTAAC
*
25712951 TTAGATTAATTTAGT
1 TTAGATTAA--TACT
25712966 TTAGATTAATACT
1 TTAGATTAATACT
25712979 TTAGATTAATA
1 TTAGATTAATA
25712990 TCCTTCATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 14 0.61
15 9 0.39
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.49
Consensus pattern (13 bp):
TTAGATTAATACT
Found at i:25719681 original size:23 final size:24
Alignment explanation
Indices: 25719645--25719705 Score: 81
Period size: 23 Copynumber: 2.5 Consensus size: 24
25719635 TCATAGCAAA
*
25719645 CATTTTCTTCTTCTTT-TCTTTTCT
1 CATTTTCTTTTTCTTTCT-TTTTCT
25719669 C-TTTTCTTTTTCTTTCTTTTTCT
1 CATTTTCTTTTTCTTTCTTTTTCT
25719692 CATTTTCCTTTTTC
1 CATTTT-CTTTTTC
25719706 AAGTGACTGA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
23 20 0.61
24 6 0.18
25 7 0.21
ACGTcount: A:0.03, C:0.25, G:0.00, T:0.72
Consensus pattern (24 bp):
CATTTTCTTTTTCTTTCTTTTTCT
Found at i:25719684 original size:10 final size:11
Alignment explanation
Indices: 25719647--25719691 Score: 65
Period size: 12 Copynumber: 4.1 Consensus size: 11
25719637 ATAGCAAACA
*
25719647 TTTTCTTCTTC
1 TTTTCTTTTTC
25719658 TTTTCTTTTCTC
1 TTTTCTTTT-TC
25719670 TTTTCTTTTTC
1 TTTTCTTTTTC
25719681 -TTTCTTTTTC
1 TTTTCTTTTTC
25719691 T
1 T
25719692 CATTTTCCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
10 10 0.32
11 10 0.32
12 11 0.35
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:25719698 original size:18 final size:18
Alignment explanation
Indices: 25719658--25719691 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
25719648 TTTCTTCTTC
25719658 TTTTCTTTTCTCTTTTCT
1 TTTTCTTTTCTCTTTTCT
25719676 TTTTC-TTTCT-TTTTCT
1 TTTTCTTTTCTCTTTTCT
25719692 CATTTTCCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 5 0.31
18 5 0.31
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTCTTTTCTCTTTTCT
Found at i:25719703 original size:30 final size:29
Alignment explanation
Indices: 25719647--25719703 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 29
25719637 ATAGCAAACA
25719647 TTTTCTTCTTCTTTTCTTTTCTCTTTTCT
1 TTTTCTTCTTCTTTTCTTTTCTCTTTTCT
25719676 TTTTCTTTCTT-TTTCTCATTTTC-CTTTT
1 TTTTC-TTCTTCTTT-TC-TTTTCTCTTTT
25719704 TCAAGTGACT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
29 8 0.32
30 12 0.48
31 5 0.20
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.75
Consensus pattern (29 bp):
TTTTCTTCTTCTTTTCTTTTCTCTTTTCT
Found at i:25728311 original size:16 final size:17
Alignment explanation
Indices: 25728284--25728324 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
25728274 GGTGGTAAGA
25728284 AATTTATTTATTT-TTCT
1 AATTTATTTATTTATT-T
25728301 AATTT-TTTATTTATTT
1 AATTTATTTATTTATTT
25728317 AATTTATT
1 AATTTATT
25728325 GACTTTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (17 bp):
AATTTATTTATTTATTT
Found at i:25732649 original size:21 final size:23
Alignment explanation
Indices: 25732609--25732651 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
25732599 TTTTCTCTCA
*
25732609 TTTTCTCTCTTGCCAAACACCAT
1 TTTTCTCTCTTGCAAAACACCAT
25732632 TTTTCT-TCTT-CAAAACACCA
1 TTTTCTCTCTTGCAAAACACCA
25732652 GGCCAATTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
22 4 0.21
23 6 0.32
ACGTcount: A:0.26, C:0.33, G:0.02, T:0.40
Consensus pattern (23 bp):
TTTTCTCTCTTGCAAAACACCAT
Found at i:25737432 original size:21 final size:21
Alignment explanation
Indices: 25737406--25737456 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
25737396 TGCTTAAATC
*
25737406 AAGAAAAAAACACACAAAAAAG
1 AAGAAAAAAA-AAACAAAAAAG
*
25737428 -AGAAAAAAAAAACAAAAAGG
1 AAGAAAAAAAAAACAAAAAAG
25737448 AAGAAAAAA
1 AAGAAAAAA
25737457 TAGAGAGATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 9 0.35
21 17 0.65
ACGTcount: A:0.80, C:0.08, G:0.12, T:0.00
Consensus pattern (21 bp):
AAGAAAAAAAAAACAAAAAAG
Found at i:25737920 original size:42 final size:42
Alignment explanation
Indices: 25737861--25738124 Score: 353
Period size: 42 Copynumber: 6.5 Consensus size: 42
25737851 AAGGAAAACA
* *
25737861 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTGCATTTACCT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * **
25737903 TTCATTACATTTAGAGG-CTAGGTGTGGAGGTTTATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* *
25737944 TTCATTACATTTAAAGGCCCAGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * *
25737986 TTCATTGCATTT--A-G---AGGTGTGAAGGTTCGTTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
*
25738022 TTCATTGCATTTAGAGGCCCAAGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* *
25738064 TTCATTGCATTTAAAGGTCCAGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
25738106 TTCATTGCATTTAGAGGCC
1 TTCATTGCATTTAGAGGCC
25738125 GCGTAGAGGT
Statistics
Matches: 193, Mismatches: 22, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
36 31 0.16
38 1 0.01
39 2 0.01
40 1 0.01
41 36 0.19
42 122 0.63
ACGTcount: A:0.21, C:0.16, G:0.24, T:0.38
Consensus pattern (42 bp):
TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
Found at i:25738048 original size:78 final size:81
Alignment explanation
Indices: 25737861--25738124 Score: 372
Period size: 78 Copynumber: 3.2 Consensus size: 81
25737851 AAGGAAAACA
* * *
25737861 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTGCATTTACCTTTCATTACATTTAGAGGCTAGGT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTCATTGCATTTA-AGGC-AGGT
*
25737926 GTGGAGGTTTATTTACTT
64 GTGGAGGTTCATTTACTT
* *
25737944 TTCATTACATTTAAAGGCCCAGGTGTGGAGGTCCATTTACTTTTCATTGCATTT-A-G-AGGTGT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTCATTGCATTTAAGGCAGGTGT
* *
25738006 GAAGGTTCGTTTACTT
66 GGAGGTTCATTTACTT
*
25738022 TTCATTGCATTTAGAGGCCCAAGTGTGGAGGTCCATTTACTTTTCATTGCATTTAAAGGTCCAGG
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTCATTGCATTT-AAGG--CAGG
*
25738087 TGTGGAGGTCCATTTACTT
63 TGTGGAGGTTCATTTACTT
25738106 TTCATTGCATTTAGAGGCC
1 TTCATTGCATTTAGAGGCC
25738125 GCGTAGAGGT
Statistics
Matches: 161, Mismatches: 14, Indels: 11
0.87 0.08 0.06
Matches are distributed among these distances:
78 70 0.43
80 2 0.01
81 2 0.01
83 49 0.30
84 38 0.24
ACGTcount: A:0.21, C:0.16, G:0.24, T:0.38
Consensus pattern (81 bp):
TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTCATTGCATTTAAGGCAGGTGT
GGAGGTTCATTTACTT
Found at i:25738079 original size:120 final size:119
Alignment explanation
Indices: 25737881--25738122 Score: 376
Period size: 120 Copynumber: 2.0 Consensus size: 119
25737871 TTAGAGGCCC
* * * **
25737881 AGGTGTGGAGGTGCATTTACCTTTCATTACATTTAGAGGCTAGGTGTGGAGGTTTATTTACTTTT
1 AGGTGTGAAGGTGCATTTACCTTTCATTACATTTAGAGGCCAAGTGTGGAGGTCCATTTACTTTT
25737946 CATTACATTTAAAGGCCCAGGTGTGGAGGTCCATTTACTTTTCATTGCATTTAG
66 CATTACATTTAAAGGCCCAGGTGTGGAGGTCCATTTACTTTTCATTGCATTTAG
* * * *
25738000 AGGTGTGAAGGTTCGTTTACTTTTCATTGCATTTAGAGGCCCAAGTGTGGAGGTCCATTTACTTT
1 AGGTGTGAAGGTGCATTTACCTTTCATTACATTTAGAGG-CCAAGTGTGGAGGTCCATTTACTTT
* *
25738065 TCATTGCATTTAAAGGTCCAGGTGTGGAGGTCCATTTACTTTTCATTGCATTTAG
65 TCATTACATTTAAAGGCCCAGGTGTGGAGGTCCATTTACTTTTCATTGCATTTAG
25738120 AGG
1 AGG
25738123 CCGCGTAGAG
Statistics
Matches: 111, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
119 34 0.31
120 77 0.69
ACGTcount: A:0.21, C:0.15, G:0.25, T:0.39
Consensus pattern (119 bp):
AGGTGTGAAGGTGCATTTACCTTTCATTACATTTAGAGGCCAAGTGTGGAGGTCCATTTACTTTT
CATTACATTTAAAGGCCCAGGTGTGGAGGTCCATTTACTTTTCATTGCATTTAG
Found at i:25738694 original size:25 final size:27
Alignment explanation
Indices: 25738646--25738695 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 27
25738636 TTGATCTTTA
* *
25738646 AGAAAAGTTTTGATTTTTTTAAAAAAG
1 AGAAAAGTTTAGATTTTTTAAAAAAAG
25738673 AGAAAA-TTTAGA-TTTTTAAAAAA
1 AGAAAAGTTTAGATTTTTTAAAAAA
25738696 TAAAAAACTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 10 0.48
26 5 0.24
27 6 0.29
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (27 bp):
AGAAAAGTTTAGATTTTTTAAAAAAAG
Found at i:25738821 original size:18 final size:19
Alignment explanation
Indices: 25738778--25738815 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
25738768 ATTATATAGA
25738778 AATAAAAGTTTTGATTTTT
1 AATAAAAGTTTTGATTTTT
*
25738797 AAGAAAAGTTTTGATTTTT
1 AATAAAAGTTTTGATTTTT
25738816 TTAAAAAAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (19 bp):
AATAAAAGTTTTGATTTTT
Found at i:25738889 original size:153 final size:152
Alignment explanation
Indices: 25738498--25738957 Score: 644
Period size: 149 Copynumber: 3.0 Consensus size: 152
25738488 TTGATCATGG
* * * *
25738498 GAAAATTTTTGATTTTTTAAAAAAAGAGAGAGTTTAGATTTTTAAAAAATAAAAATCTGTTTTTT
1 GAAAAGTTTTGATTTTTTTAAAAAAGAGAAAGTTTAGATTTTTAAAAAATAAAAATATGTTTTTT
* *
25738563 AGTCATTTTAAAGGAAAAGGTTT-AAATTTTAAAAACAATA-TTTT-G-ATTTTTTAACTATTTC
66 AGTCATTTTAAAGGAAAAAGTTTAAAATTTTAAAAACAA-AGTTTTGGTTTTTTTTAACTATTT-
*
25738624 A-AAATAAAAGCTTTGATCTTTAA
129 AGAAATAAAAGCTTTGATTTTTAA
* *
25738647 GAAAAGTTTTGATTTTTTTAAAAAAGAGAAAATTTAGATTTTTAAAAAATAAAAA-ACTATTTTT
1 GAAAAGTTTTGATTTTTTTAAAAAAGAGAAAGTTTAGATTTTTAAAAAATAAAAATA-TGTTTTT
* * * *
25738711 TAGTCATTTTAAAAGAAAAAGTTTAAAATTTTAAAAATAAAGTTTTGGTTTTTTTTAATTATATA
65 TAGTCATTTTAAAGGAAAAAGTTTAAAATTTTAAAAACAAAGTTTTGGTTTTTTTTAACTATTTA
*
25738776 GAAATAAAAGTTTTGATTTTTAA
130 GAAATAAAAGCTTTGATTTTTAA
*
25738799 GAAAAGTTTTGATTTTTTTAAAAAAGGAGAAAGTTCAGATTTTTAAAAAATAAAAATATGTTTTT
1 GAAAAGTTTTGATTTTTTTAAAAAA-GAGAAAGTTTAGATTTTTAAAAAATAAAAATATGTTTTT
* * * * *
25738864 TATTAATTTTAAAGGAAAAAATTTAAATTTTTAAAAACAAAGTTTTGATTTTTTTTTAACTATTT
65 TAGTCATTTTAAAGGAAAAAGTTTAAAATTTTAAAAACAAAGTTTTG-GTTTTTTTTAACTATTT
*
25738929 CGAAATAAAAGCTTTGATTTTTAA
129 AGAAATAAAAGCTTTGATTTTTAA
25738953 GAAAA
1 GAAAA
25738958 ATATTTTATT
Statistics
Matches: 274, Mismatches: 28, Indels: 13
0.87 0.09 0.04
Matches are distributed among these distances:
149 80 0.29
150 18 0.07
151 2 0.01
152 57 0.21
153 75 0.27
154 42 0.15
ACGTcount: A:0.44, C:0.03, G:0.10, T:0.43
Consensus pattern (152 bp):
GAAAAGTTTTGATTTTTTTAAAAAAGAGAAAGTTTAGATTTTTAAAAAATAAAAATATGTTTTTT
AGTCATTTTAAAGGAAAAAGTTTAAAATTTTAAAAACAAAGTTTTGGTTTTTTTTAACTATTTAG
AAATAAAAGCTTTGATTTTTAA
Found at i:25742747 original size:81 final size:82
Alignment explanation
Indices: 25742582--25743013 Score: 483
Period size: 82 Copynumber: 5.4 Consensus size: 82
25742572 GAACGGTAGA
* ** * * *
25742582 AATAAATCCTTAAACAGAATTATTTTATCAATTCTTGTTTGGAAACAAAAGCAAAAT-CAAT---
1 AATAAATCCTGAAACAGAATTATTCAATTAATTCTTGTTTGGAAACAAAATCAAAATAGAATAAA
* *
25742643 -TCTATTGAATGGC-AGG
66 ATATGTTGAATGGCGA-G
25742659 AATAAATCCTGAAACAGAATTAATT-AATTAATTCTTGTTT-GAAACAAAATCAAAATAGAATAA
1 AATAAATCCTGAAACAGAATT-ATTCAATTAATTCTTGTTTGGAAACAAAATCAAAATAGAATAA
25742722 AATATGTTGAATGGCGAG
65 AATATGTTGAATGGCGAG
*
25742740 AATAAAT-CTCGAAACAGAATTATTCAATTAATTCTTGTTTGGAAACAAAATCAGAATAGAATAA
1 AATAAATCCT-GAAACAGAATTATTCAATTAATTCTTGTTTGGAAACAAAATCAAAATAGAATAA
* * * *
25742804 AATTTGTTGTACGGTTG-G
65 AATATGTTGAATGG-CGAG
* * *
25742822 AATAAATCCCGAAACAGAATTATTCAATTAATCCTTGTTTGGAAACAAAATTAAAATAGAATAAA
1 AATAAATCCTGAAACAGAATTATTCAATTAATTCTTGTTTGGAAACAAAATCAAAATAGAATAAA
* * * *
25742887 ATCTGTTGAAAGACGGG
66 ATATGTTGAATGGCGAG
* * * * *
25742904 GATAAATCTTGGAACAGAATTATTCAATTAATCCTTGTTT-GAAACAAAATCAAAATAAAATAAA
1 AATAAATCCTGAAACAGAATTATTCAATTAATTCTTGTTTGGAAACAAAATCAAAATAGAATAAA
25742968 ATATGTTGAATGGC-AGG
66 ATATGTTGAATGGCGA-G
** *
25742985 AATAAATCCCAAAACAGATTTATTCAATT
1 AATAAATCCTGAAACAGAATTATTCAATT
25743014 TTAATTTTAT
Statistics
Matches: 304, Mismatches: 37, Indels: 24
0.83 0.10 0.07
Matches are distributed among these distances:
76 15 0.05
77 36 0.12
78 3 0.01
80 5 0.02
81 103 0.34
82 140 0.46
83 2 0.01
ACGTcount: A:0.45, C:0.11, G:0.14, T:0.30
Consensus pattern (82 bp):
AATAAATCCTGAAACAGAATTATTCAATTAATTCTTGTTTGGAAACAAAATCAAAATAGAATAAA
ATATGTTGAATGGCGAG
Found at i:25742827 original size:82 final size:81
Alignment explanation
Indices: 25742647--25743013 Score: 486
Period size: 82 Copynumber: 4.5 Consensus size: 81
25742637 ATCAATTCTA
* *
25742647 TTGAATGGCAGGAATAAATCCTGAAACAGAATTAATT-AATTAATTCTTGTTTGAAACAAAATCA
1 TTGAATGGCAGGAATAAATCCCGAAACAGAATT-ATTCAATTAATCCTTGTTTGAAACAAAATCA
25742711 AAATAGAATAAAATATG
65 AAATAGAATAAAATATG
* *
25742728 TTGAATGGC-GAGAATAAATCTCGAAACAGAATTATTCAATTAATTCTTGTTTGGAAACAAAATC
1 TTGAATGGCAG-GAATAAATCCCGAAACAGAATTATTCAATTAATCCTTGTTT-GAAACAAAATC
* *
25742792 AGAATAGAATAAAATTTG
64 AAAATAGAATAAAATATG
* * ** *
25742810 TTGTACGGTTGGAATAAATCCCGAAACAGAATTATTCAATTAATCCTTGTTTGGAAACAAAATTA
1 TTGAATGGCAGGAATAAATCCCGAAACAGAATTATTCAATTAATCCTTGTTT-GAAACAAAATCA
*
25742875 AAATAGAATAAAATCTG
65 AAATAGAATAAAATATG
* * * * ** *
25742892 TTGAAAGACGGGGATAAATCTTGGAACAGAATTATTCAATTAATCCTTGTTTGAAACAAAATCAA
1 TTGAATGGCAGGAATAAATCCCGAAACAGAATTATTCAATTAATCCTTGTTTGAAACAAAATCAA
*
25742957 AATAAAATAAAATATG
66 AATAGAATAAAATATG
* *
25742973 TTGAATGGCAGGAATAAATCCCAAAACAGATTTATTCAATT
1 TTGAATGGCAGGAATAAATCCCGAAACAGAATTATTCAATT
25743014 TTAATTTTAT
Statistics
Matches: 249, Mismatches: 33, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
80 4 0.02
81 102 0.41
82 142 0.57
83 1 0.00
ACGTcount: A:0.45, C:0.11, G:0.15, T:0.30
Consensus pattern (81 bp):
TTGAATGGCAGGAATAAATCCCGAAACAGAATTATTCAATTAATCCTTGTTTGAAACAAAATCAA
AATAGAATAAAATATG
Found at i:25742950 original size:163 final size:163
Alignment explanation
Indices: 25742593--25743013 Score: 514
Period size: 163 Copynumber: 2.6 Consensus size: 163
25742583 ATAAATCCTT
** * * * * * * *
25742593 AAACAGAATTATTTTATCAATTCTTGTTTGGAAACAAAAGCAAAAT-CAAT----TCTATTGAAT
1 AAACAGAATTATTCAATTAATCCTTGTTTGGAAACAAAATCAAAATAAAATAAAATATGTTGAAC
* *
25742653 GGCAGGAATAAATCCTGAAACAGAATTAATT-AATTAATTCTTGTTTGAAACAAAATCAAAATAG
66 GGCAGGAATAAATCCCGAAACAGAATT-ATTCAATTAATCCTTGTTTGAAACAAAATCAAAATAG
* *
25742717 AATAAAATATGTTGAATGGCGAGAATAAATCTCG
130 AATAAAATATGTTGAAAGACGAGAATAAATCTCG
* * * * *
25742751 AAACAGAATTATTCAATTAATTCTTGTTTGGAAACAAAATCAGAATAGAATAAAATTTGTTGTAC
1 AAACAGAATTATTCAATTAATCCTTGTTTGGAAACAAAATCAAAATAAAATAAAATATGTTGAAC
** *
25742816 GGTTGGAATAAATCCCGAAACAGAATTATTCAATTAATCCTTGTTTGGAAACAAAATTAAAATAG
66 GGCAGGAATAAATCCCGAAACAGAATTATTCAATTAATCCTTGTTT-GAAACAAAATCAAAATAG
* * * *
25742881 AATAAAATCTGTTGAAAGACGGGGATAAATCTTG
130 AATAAAATATGTTGAAAGACGAGAATAAATCTCG
* *
25742915 GAACAGAATTATTCAATTAATCCTTGTTT-GAAACAAAATCAAAATAAAATAAAATATGTTGAAT
1 AAACAGAATTATTCAATTAATCCTTGTTTGGAAACAAAATCAAAATAAAATAAAATATGTTGAAC
* *
25742979 GGCAGGAATAAATCCCAAAACAGATTTATTCAATT
66 GGCAGGAATAAATCCCGAAACAGAATTATTCAATT
25743014 TTAATTTTAT
Statistics
Matches: 224, Mismatches: 32, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
158 41 0.18
159 3 0.01
162 3 0.01
163 105 0.47
164 72 0.32
ACGTcount: A:0.45, C:0.11, G:0.14, T:0.30
Consensus pattern (163 bp):
AAACAGAATTATTCAATTAATCCTTGTTTGGAAACAAAATCAAAATAAAATAAAATATGTTGAAC
GGCAGGAATAAATCCCGAAACAGAATTATTCAATTAATCCTTGTTTGAAACAAAATCAAAATAGA
ATAAAATATGTTGAAAGACGAGAATAAATCTCG
Found at i:25743535 original size:50 final size:50
Alignment explanation
Indices: 25743463--25743605 Score: 164
Period size: 50 Copynumber: 2.9 Consensus size: 50
25743453 TAAATAAAAA
* *
25743463 ATATTTATATAAAATACAAGATCTGAACAAAACAATATAAATAAATACTT
1 ATATTTATATAAAAAACCAGATCTGAACAAAACAATATAAATAAATACTT
** * * *
25743513 ATATTTATGGAAAAAACCAGATCTAAACAAAACAAAATAAATAAATATTT
1 ATATTTATATAAAAAACCAGATCTGAACAAAACAATATAAATAAATACTT
* * * * *
25743563 ATATTTATTTAAAACATCAAATCTG-A-AAAACAATTTAAATAAA
1 ATATTTATATAAAAAACCAGATCTGAACAAAACAATATAAATAAA
25743606 CAAGATCTTA
Statistics
Matches: 78, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
48 15 0.19
49 1 0.01
50 62 0.79
ACGTcount: A:0.57, C:0.10, G:0.04, T:0.29
Consensus pattern (50 bp):
ATATTTATATAAAAAACCAGATCTGAACAAAACAATATAAATAAATACTT
Found at i:25744564 original size:12 final size:12
Alignment explanation
Indices: 25744549--25744646 Score: 65
Period size: 12 Copynumber: 8.2 Consensus size: 12
25744539 ATAACATCAA
25744549 AACAACAAAAAT
1 AACAACAAAAAT
25744561 AACAATC-AAAAT
1 AACAA-CAAAAAT
* *
25744573 AGCAATAAAAAT
1 AACAACAAAAAT
* * * *
25744585 AATAGC-AAGAC
1 AACAACAAAAAT
* *
25744596 AACAATAAAAAC
1 AACAACAAAAAT
*
25744608 AGCAACAAAAAT
1 AACAACAAAAAT
*
25744620 AACAACAAAAAC
1 AACAACAAAAAT
*
25744632 AACACCAAACAAT
1 AACAACAAA-AAT
25744645 AA
1 AA
25744647 AAATAGCAAC
Statistics
Matches: 63, Mismatches: 19, Indels: 7
0.71 0.21 0.08
Matches are distributed among these distances:
11 6 0.10
12 52 0.83
13 5 0.08
ACGTcount: A:0.68, C:0.18, G:0.04, T:0.09
Consensus pattern (12 bp):
AACAACAAAAAT
Found at i:25744582 original size:44 final size:43
Alignment explanation
Indices: 25744533--25744661 Score: 107
Period size: 44 Copynumber: 2.9 Consensus size: 43
25744523 GTAAAAACGC
* *
25744533 ATAAAAATAACATCAAAACAACAAAAATAACAATCAAAATAGCA
1 ATAAAAATAACA-CAAAACAACAAAAATAACAAACAAAATAACA
* *
25744577 ATAAAAATAATAGCAAGACAACAATAAA-AACAGCAACAAAAATAACA
1 ATAAAAATAACA-CAAAACAACAA-AAATAACA--AAC-AAAATAACA
* * * * * *
25744624 ACAAAAACAACACCAAACAATAAAAATAGCAACCAAAA
1 ATAAAAATAACACAAAACAACAAAAATAACAAACAAAA
25744662 CAGTAAAAAA
Statistics
Matches: 67, Mismatches: 13, Indels: 11
0.74 0.14 0.12
Matches are distributed among these distances:
43 4 0.06
44 27 0.40
45 6 0.09
46 13 0.19
47 17 0.25
ACGTcount: A:0.68, C:0.18, G:0.04, T:0.10
Consensus pattern (43 bp):
ATAAAAATAACACAAAACAACAAAAATAACAAACAAAATAACA
Found at i:25744648 original size:19 final size:20
Alignment explanation
Indices: 25744620--25744686 Score: 66
Period size: 19 Copynumber: 3.4 Consensus size: 20
25744610 CAACAAAAAT
* *
25744620 AACAACAAAAACAACACC-A
1 AACAATAAAAAAAACACCAA
* *
25744639 AACAATAAAAATAGCAACCAA
1 AACAATAAAAAAAAC-ACCAA
*
25744660 AACAGTAAAAAAAAC-CCAA
1 AACAATAAAAAAAACACCAA
25744679 AACAATAA
1 AACAATAA
25744687 TATAATTTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
19 23 0.59
20 3 0.08
21 13 0.33
ACGTcount: A:0.69, C:0.22, G:0.03, T:0.06
Consensus pattern (20 bp):
AACAATAAAAAAAACACCAA
Found at i:25744826 original size:16 final size:16
Alignment explanation
Indices: 25744805--25744836 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
25744795 ACCCATTTTC
25744805 GAGCCTATATTTTTGT
1 GAGCCTATATTTTTGT
25744821 GAGCCTATATTTTTGT
1 GAGCCTATATTTTTGT
25744837 TCAAATCCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.12, G:0.19, T:0.50
Consensus pattern (16 bp):
GAGCCTATATTTTTGT
Found at i:25764000 original size:69 final size:68
Alignment explanation
Indices: 25763896--25764374 Score: 536
Period size: 69 Copynumber: 7.0 Consensus size: 68
25763886 ACATCAATTT
* *
25763896 AACACTTCATATTTATAGCCTTTAATCAACTCAATTTACAGCATTTGAACACCTCCATTTATAGC
1 AACACTTCA-ATTTATAGCCTTTAATCAACTCAATTTACAGCATTT-AACACCTCCATTTACAAC
25763961 AACTA
64 AACTA
* *
25763966 AACACTTCAATTTATAGCCTTTAATCAACTCAATTTACAGCATTTATACACCTCAAGTTACAAC-
1 AACACTTCAATTTATAGCCTTTAATCAACTCAATTTACAGCATTTA-ACACCTCCATTTACAACA
25764030 ACTTA
65 AC-TA
* * * ** * * * *
25764035 AACTCTTCAATTTACAGCATTTAAAGACCTCCATTTACAGCATTTAAACACCTCAAATTACAACA
1 AACACTTCAATTTATAGCCTTTAATCAACTCAATTTACAGCATTT-AACACCTCCATTTACAACA
**
25764100 TTTA
65 ACTA
* * * * * * * *
25764104 AACACCTCAAATTAAAG-CTCCTAAAC-ACTTCAATTGACAACATTTAAACACCTCCATTCACAA
1 AACACTTCAATTTATAGCCT-TTAATCAAC-TCAATTTACAGCATTT-AACACCTCCATTTACAA
*
25764167 CAATTA
63 CAACTA
* * **
25764173 AACACTTCAAATTTATAGACTTTAATCAACTCAATTTACAGCATTTAAAACCTCCATTTACAGGA
1 AACACTTC-AATTTATAGCCTTTAATCAACTCAATTTACAGCATTTAACACCTCCATTTACAACA
25764238 ACTA
65 ACTA
* * *
25764242 AACACTTCAATTTATAGCCTTTAATCAGCTCAATTTACAGCATTTAA-A-CACCATTTACAGCAA
1 AACACTTCAATTTATAGCCTTTAATCAACTCAATTTACAGCATTTAACACCTCCATTTACAACAA
25764305 CTA
66 CTA
*
25764308 AACACTTCAATTTTATAACCTTTAATCAACTCAATTTACAGCATTTAAACACCTCCATTTACAAC
1 AACACTTCAA-TTTATAGCCTTTAATCAACTCAATTTACAGCATTT-AACACCTCCATTTACAAC
25764373 AA
64 AA
25764375 GGTTTAGCTA
Statistics
Matches: 347, Mismatches: 49, Indels: 26
0.82 0.12 0.06
Matches are distributed among these distances:
66 26 0.07
67 34 0.10
68 44 0.13
69 191 0.55
70 48 0.14
71 4 0.01
ACGTcount: A:0.39, C:0.25, G:0.04, T:0.32
Consensus pattern (68 bp):
AACACTTCAATTTATAGCCTTTAATCAACTCAATTTACAGCATTTAACACCTCCATTTACAACAA
CTA
Found at i:25764309 original size:20 final size:20
Alignment explanation
Indices: 25764274--25764312 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
25764264 AATCAGCTCA
**
25764274 ATTTACAGCATTTAAACACC
1 ATTTACAGCAACTAAACACC
25764294 ATTTACAGCAACTAAACAC
1 ATTTACAGCAACTAAACAC
25764313 TTCAATTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.26, G:0.05, T:0.26
Consensus pattern (20 bp):
ATTTACAGCAACTAAACACC
Found at i:25764367 original size:23 final size:23
Alignment explanation
Indices: 25763892--25764370 Score: 351
Period size: 23 Copynumber: 20.9 Consensus size: 23
25763882 ACTCACATCA
* *
25763892 ATTT-AACACTTCATATTTATAGC
1 ATTTAAACACCTCA-ATTTACAGC
* * *
25763915 CTTTAATCAACTCAATTTACAGC
1 ATTTAAACACCTCAATTTACAGC
* * *
25763938 ATTTGAACACCTCCATTTATAGC
1 ATTTAAACACCTCAATTTACAGC
** * *
25763961 AACTAAACACTTCAATTTATAGC
1 ATTTAAACACCTCAATTTACAGC
* * *
25763984 CTTTAATCAACTCAATTTACAGC
1 ATTTAAACACCTCAATTTACAGC
* * *
25764007 ATTTATACACCTCAAGTTACAAC
1 ATTTAAACACCTCAATTTACAGC
* * *
25764030 ACTTAAACTCTTCAATTTACAGC
1 ATTTAAACACCTCAATTTACAGC
* *
25764053 ATTTAAAGACCTCCATTTACAGC
1 ATTTAAACACCTCAATTTACAGC
* *
25764076 ATTTAAACACCTCAAATTACAAC
1 ATTTAAACACCTCAATTTACAGC
* *
25764099 ATTTAAACACCTCAAATTAAAGC
1 ATTTAAACACCTCAATTTACAGC
* * * *
25764122 -TCCTAAACACTTCAATTGACAAC
1 AT-TTAAACACCTCAATTTACAGC
* * *
25764145 ATTTAAACACCTCCATTCACAAC
1 ATTTAAACACCTCAATTTACAGC
* * *
25764168 AATTAAACACTTCAAATTTATAG-
1 ATTTAAACACCTC-AATTTACAGC
* *
25764191 ACTTTAATCAACTCAATTTACAGC
1 A-TTTAAACACCTCAATTTACAGC
* *
25764215 ATTTAAA-ACCTCCATTTACAGG
1 ATTTAAACACCTCAATTTACAGC
** * *
25764237 AACTAAACACTTCAATTTATAGC
1 ATTTAAACACCTCAATTTACAGC
* * *
25764260 CTTTAATCAGCTCAATTTACAGC
1 ATTTAAACACCTCAATTTACAGC
25764283 ATTTAAACA-C-C-ATTTACAGC
1 ATTTAAACACCTCAATTTACAGC
** * * *
25764303 AACTAAACACTTCAATTTTATAAC
1 ATTTAAACACCTCAA-TTTACAGC
* * *
25764327 CTTTAATCAACTCAATTTACAGC
1 ATTTAAACACCTCAATTTACAGC
*
25764350 ATTTAAACACCTCCATTTACA
1 ATTTAAACACCTCAATTTACA
25764371 ACAAGGTTTA
Statistics
Matches: 342, Mismatches: 103, Indels: 22
0.73 0.22 0.05
Matches are distributed among these distances:
20 16 0.05
21 1 0.00
22 20 0.06
23 269 0.79
24 36 0.11
ACGTcount: A:0.39, C:0.25, G:0.04, T:0.32
Consensus pattern (23 bp):
ATTTAAACACCTCAATTTACAGC
Found at i:25771150 original size:9 final size:10
Alignment explanation
Indices: 25771120--25771152 Score: 50
Period size: 11 Copynumber: 3.3 Consensus size: 10
25771110 TATATTAATG
25771120 TTTTTGTTCA
1 TTTTTGTTCA
25771130 TTTTGTGTTCA
1 TTTT-TGTTCA
25771141 TTTTTG-TCA
1 TTTTTGTTCA
25771150 TTT
1 TTT
25771153 CATTTTTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 6 0.27
10 6 0.27
11 10 0.45
ACGTcount: A:0.09, C:0.09, G:0.12, T:0.70
Consensus pattern (10 bp):
TTTTTGTTCA
Found at i:25782138 original size:15 final size:15
Alignment explanation
Indices: 25782118--25782259 Score: 151
Period size: 15 Copynumber: 9.5 Consensus size: 15
25782108 ATATATCACT
*
25782118 GAACTGTTTATATAC
1 GAACTGTTTATATGC
25782133 GAACTGTTTATATGC
1 GAACTGTTTATATGC
*
25782148 GAACTGTTTATATGT
1 GAACTGTTTATATGC
* *
25782163 GAACTGATTGTATGC
1 GAACTGTTTATATGC
*
25782178 GAATTGTTTATATGC
1 GAACTGTTTATATGC
* *
25782193 GAACTGATTGTATGC
1 GAACTGTTTATATGC
* * *
25782208 GAACT-ATTGTGTGC
1 GAACTGTTTATATGC
* *
25782222 GAACTGATTGTATGC
1 GAACTGTTTATATGC
* *
25782237 GAATTGTTTATACGC
1 GAACTGTTTATATGC
25782252 GAACTGTT
1 GAACTGTT
25782260 CATGTGCAAG
Statistics
Matches: 108, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
14 13 0.12
15 95 0.88
ACGTcount: A:0.27, C:0.12, G:0.23, T:0.39
Consensus pattern (15 bp):
GAACTGTTTATATGC
Found at i:25782152 original size:30 final size:30
Alignment explanation
Indices: 25782118--25782257 Score: 183
Period size: 30 Copynumber: 4.7 Consensus size: 30
25782108 ATATATCACT
* * *
25782118 GAACTGTTTATATACGAACTGTTTATATGC
1 GAACTGTTTATATGCGAACTGATTGTATGC
*
25782148 GAACTGTTTATATGTGAACTGATTGTATGC
1 GAACTGTTTATATGCGAACTGATTGTATGC
*
25782178 GAATTGTTTATATGCGAACTGATTGTATGC
1 GAACTGTTTATATGCGAACTGATTGTATGC
* * *
25782208 GAACT-ATTGTGTGCGAACTGATTGTATGC
1 GAACTGTTTATATGCGAACTGATTGTATGC
* *
25782237 GAATTGTTTATACGCGAACTG
1 GAACTGTTTATATGCGAACTG
25782258 TTCATGTGCA
Statistics
Matches: 94, Mismatches: 15, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
29 25 0.27
30 69 0.73
ACGTcount: A:0.27, C:0.12, G:0.23, T:0.38
Consensus pattern (30 bp):
GAACTGTTTATATGCGAACTGATTGTATGC
Found at i:25782247 original size:59 final size:60
Alignment explanation
Indices: 25782122--25782257 Score: 193
Period size: 59 Copynumber: 2.3 Consensus size: 60
25782112 ATCACTGAAC
* * * *
25782122 TGTTTATATACGAACTGTTTATATGCGAACTGTTTATATGTGAACTGATTGTATGCGAAT
1 TGTTTATATGCGAACTGATTATATGCGAACTGATTATATGCGAACTGATTGTATGCGAAT
* * *
25782182 TGTTTATATGCGAACTGATTGTATGCGAACT-ATTGTGTGCGAACTGATTGTATGCGAAT
1 TGTTTATATGCGAACTGATTATATGCGAACTGATTATATGCGAACTGATTGTATGCGAAT
*
25782241 TGTTTATACGCGAACTG
1 TGTTTATATGCGAACTG
25782258 TTCATGTGCA
Statistics
Matches: 68, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
59 40 0.59
60 28 0.41
ACGTcount: A:0.26, C:0.12, G:0.23, T:0.39
Consensus pattern (60 bp):
TGTTTATATGCGAACTGATTATATGCGAACTGATTATATGCGAACTGATTGTATGCGAAT
Found at i:25783969 original size:22 final size:23
Alignment explanation
Indices: 25783938--25783980 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
25783928 CTTATCCACT
25783938 TCTCATAATCCATTTATTCTTCA
1 TCTCATAATCCATTTATTCTTCA
* *
25783961 TCTCA-AATCTATTTTTTCTT
1 TCTCATAATCCATTTATTCTT
25783981 ATTTGTTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.53
Consensus pattern (23 bp):
TCTCATAATCCATTTATTCTTCA
Found at i:25788896 original size:12 final size:13
Alignment explanation
Indices: 25788870--25788902 Score: 59
Period size: 12 Copynumber: 2.6 Consensus size: 13
25788860 GATATGCATG
25788870 AAAACTAAAACTA
1 AAAACTAAAACTA
25788883 AAAACTAAAA-TA
1 AAAACTAAAACTA
25788895 AAAACTAA
1 AAAACTAA
25788903 CTCAATTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 10 0.50
13 10 0.50
ACGTcount: A:0.73, C:0.12, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAACTAAAACTA
Found at i:25798793 original size:21 final size:21
Alignment explanation
Indices: 25798767--25798823 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
25798757 TTGATGCTTA
25798767 AGTGTGAACATG-TTAATGTCT
1 AGTGTGAACATGTTTAA-GTCT
**
25798788 AGTGTGAATGTGTTTAAGTCT
1 AGTGTGAACATGTTTAAGTCT
25798809 AGTGTGAACA-GTTTA
1 AGTGTGAACATGTTTA
25798824 GATGTCGAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
20 5 0.16
21 22 0.71
22 4 0.13
ACGTcount: A:0.28, C:0.07, G:0.26, T:0.39
Consensus pattern (21 bp):
AGTGTGAACATGTTTAAGTCT
Found at i:25807543 original size:191 final size:191
Alignment explanation
Indices: 25807219--25807657 Score: 815
Period size: 191 Copynumber: 2.3 Consensus size: 191
25807209 GAAACCGACG
25807219 CGATGGTTGGGGTACCGCATATGTAGCGAGTCCTCAACAGCTCGTGTGAGCAGCATCGTGAGTCA
1 CGATGGTTGGGGTACCGCATATGTAGCGAGTCCTCAACAGCTCGTGTGAGCAGCATCGTGAGTCA
*
25807284 GAAAAGATATATGAATCCTAAATGGATTACAGGCCCTACGATGGCTGGGATTATGCTTAAATGCA
66 GAAAAGATATATGAATCCTAAATGGATTACAAGCCCTACGATGGCTGGGATTATGCTTAAATGCA
25807349 TTTTCTCGATAGCTTGTGTGAGCAGCATCGTTAGAAGACAATTTACAAATAGACACCGTAC
131 TTTTCTCGATAGCTTGTGTGAGCAGCATCGTTAGAAGACAATTTACAAATAGACACCGTAC
25807410 CGATGGTTGGGGTACCGCATATGTAGCGAGTCCTCAACAGCTCGTGTGAGCAGCATCGTGAGTCA
1 CGATGGTTGGGGTACCGCATATGTAGCGAGTCCTCAACAGCTCGTGTGAGCAGCATCGTGAGTCA
25807475 GAAAAGATATATGAATCCTAAATGGATTACAAGCCCTACGATGGCTGGGATTATGCTTAAATGCA
66 GAAAAGATATATGAATCCTAAATGGATTACAAGCCCTACGATGGCTGGGATTATGCTTAAATGCA
25807540 TTTTCTCGATAGCTTGTGTGAGCAGCATCGTTAGAAGACAATTTACAAATAGACACCGTAC
131 TTTTCTCGATAGCTTGTGTGAGCAGCATCGTTAGAAGACAATTTACAAATAGACACCGTAC
* * * * * *
25807601 CGATGGTTGAGGTACCGCATATGTTGCGAGTCCTCGACAGCTCATGTTAGCATCATC
1 CGATGGTTGGGGTACCGCATATGTAGCGAGTCCTCAACAGCTCGTGTGAGCAGCATC
25807658 TAGTACTGGT
Statistics
Matches: 241, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
191 241 1.00
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.26
Consensus pattern (191 bp):
CGATGGTTGGGGTACCGCATATGTAGCGAGTCCTCAACAGCTCGTGTGAGCAGCATCGTGAGTCA
GAAAAGATATATGAATCCTAAATGGATTACAAGCCCTACGATGGCTGGGATTATGCTTAAATGCA
TTTTCTCGATAGCTTGTGTGAGCAGCATCGTTAGAAGACAATTTACAAATAGACACCGTAC
Found at i:25811203 original size:85 final size:85
Alignment explanation
Indices: 25811064--25811232 Score: 266
Period size: 85 Copynumber: 2.0 Consensus size: 85
25811054 ATGACTCACA
* * * * *
25811064 TCCAAGTCAATTTTACTTTATAAGGTAATGGTTACATTTCAATTTTATCCCTCTATTCTTTTAAG
1 TCCAAGTCAATGTTACGTAATAAAGTAATGGTTACATTTCAATTTTATCCCTCTATCCTTTTAAG
25811129 ATTATATAACAATGGTCAAG
66 ATTATATAACAATGGTCAAG
* *
25811149 TCCAAGTCAATGTTACGTAATAAAGTAATGGTTACATTTTAATTTTATGCCTCTATCCTTTTAAG
1 TCCAAGTCAATGTTACGTAATAAAGTAATGGTTACATTTCAATTTTATCCCTCTATCCTTTTAAG
*
25811214 ATTATATAATAATGGTCAA
66 ATTATATAACAATGGTCAA
25811233 ATTTTAGTTT
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
85 76 1.00
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.41
Consensus pattern (85 bp):
TCCAAGTCAATGTTACGTAATAAAGTAATGGTTACATTTCAATTTTATCCCTCTATCCTTTTAAG
ATTATATAACAATGGTCAAG
Found at i:25811584 original size:29 final size:30
Alignment explanation
Indices: 25811534--25811618 Score: 68
Period size: 30 Copynumber: 2.8 Consensus size: 30
25811524 GACAACTAGA
* ** *
25811534 ATTAAAATTTTAAATTTGAAAAGCA-AAGAG
1 ATTAAATTTTTAAAAATGAAAAACATAA-AG
*
25811564 ATTAAATTTTTAAAAAT-AAAAATATAAAG
1 ATTAAATTTTTAAAAATGAAAAACATAAAG
*
25811593 ATTAAA-TTTCAAATATATGAAAAACA
1 ATTAAATTTTTAAA-A-ATGAAAAACA
25811619 CTAGAACTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
28 6 0.14
29 14 0.32
30 18 0.41
31 6 0.14
ACGTcount: A:0.58, C:0.04, G:0.07, T:0.32
Consensus pattern (30 bp):
ATTAAATTTTTAAAAATGAAAAACATAAAG
Found at i:25818231 original size:20 final size:20
Alignment explanation
Indices: 25818203--25818259 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
25818193 CCACGTCAGC
*
25818203 AAATGATTTTAAAATTATTA
1 AAATTATTTTAAAATTATTA
25818223 AAATTATTTTTAAGAA-TA-TA
1 AAATTA-TTTTAA-AATTATTA
25818243 AAATTA--TTAAAATTATT
1 AAATTATTTTAAAATTATT
25818260 TTTTTGAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
16 2 0.06
17 6 0.19
18 1 0.03
20 13 0.41
21 8 0.25
22 2 0.06
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.46
Consensus pattern (20 bp):
AAATTATTTTAAAATTATTA
Found at i:25818277 original size:31 final size:29
Alignment explanation
Indices: 25818213--25818284 Score: 99
Period size: 29 Copynumber: 2.4 Consensus size: 29
25818203 AAATGATTTT
*
25818213 AAAATTATTAAAATTATTTTTAAGAATAT
1 AAAATTATTAAAATTATTTTTAAGAATAC
**
25818242 AAAATTATTAAAATTATTTTTTTGAAATAAC
1 AAAATTATTAAAATTATTTTTAAG-AAT-AC
25818273 AAAATTATTAAA
1 AAAATTATTAAA
25818285 TAATTTTGAT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 22 0.58
30 3 0.08
31 13 0.34
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.43
Consensus pattern (29 bp):
AAAATTATTAAAATTATTTTTAAGAATAC
Found at i:25818291 original size:30 final size:30
Alignment explanation
Indices: 25818213--25818291 Score: 83
Period size: 31 Copynumber: 2.6 Consensus size: 30
25818203 AAATGATTTT
*
25818213 AAAATTATT-AA-AATTATTTTTAAGAATAT
1 AAAATTATTAAATAATT-TTTTTAAGAATAC
* *
25818242 AAAATTATTAAAATTATTTTTTTGA-AATAAC
1 AAAATTATT-AAATAATTTTTTTAAGAAT-AC
25818273 AAAATTATTAAATAATTTT
1 AAAATTATTAAATAATTTT
25818292 GATTTTTAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
29 9 0.21
30 12 0.29
31 18 0.43
32 3 0.07
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.46
Consensus pattern (30 bp):
AAAATTATTAAATAATTTTTTTAAGAATAC
Found at i:25818461 original size:21 final size:21
Alignment explanation
Indices: 25818422--25818462 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
25818412 CCCTTACAGG
*
25818422 TTGTGAATCATCACTCATGAT
1 TTGTGAATCATCACCCATGAT
*
25818443 TTGTGAATCATCTCCCATGA
1 TTGTGAATCATCACCCATGA
25818463 AAAAATTGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.37
Consensus pattern (21 bp):
TTGTGAATCATCACCCATGAT
Found at i:25824907 original size:15 final size:16
Alignment explanation
Indices: 25824887--25824920 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
25824877 TAATTTTTTA
25824887 AAATTATAAAAAT-AT
1 AAATTATAAAAATAAT
*
25824902 AAATTATTAAAATAAT
1 AAATTATAAAAATAAT
25824918 AAA
1 AAA
25824921 ATTACAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATTATAAAAATAAT
Found at i:25825088 original size:137 final size:137
Alignment explanation
Indices: 25824940--25825216 Score: 536
Period size: 137 Copynumber: 2.0 Consensus size: 137
25824930 TTACTATCGT
*
25824940 ACAAATATATAATTTAATTTCGACCCTTAAAAAAATTTCTAACTTCGTCCATGTGTAATAGTAAA
1 ACAAATATATAATTTAATTTCGACCCTTAAAAAAAATTCTAACTTCGTCCATGTGTAATAGTAAA
25825005 GAACTTATTTATAAACCCATTAAACTTGTAATGGTAAAGAAGTTGGTATGTTGGGTACATGATAT
66 GAACTTATTTATAAACCCATTAAACTTGTAATGGTAAAGAAGTTGGTATGTTGGGTACATGATAT
25825070 ATGAATG
131 ATGAATG
*
25825077 ACAAATATATAATTTAATTTCGACCCTTAAAAAAAATTCTAGCTTCGTCCATGTGTAATAGTAAA
1 ACAAATATATAATTTAATTTCGACCCTTAAAAAAAATTCTAACTTCGTCCATGTGTAATAGTAAA
25825142 GAACTTATTTATAAACCCATTAAACTTGTAATGGTAAAGAAGTTGGTATGTTGGGTACATGATAT
66 GAACTTATTTATAAACCCATTAAACTTGTAATGGTAAAGAAGTTGGTATGTTGGGTACATGATAT
25825207 ATGAATG
131 ATGAATG
25825214 ACA
1 ACA
25825217 TGACTTCATT
Statistics
Matches: 138, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 138 1.00
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (137 bp):
ACAAATATATAATTTAATTTCGACCCTTAAAAAAAATTCTAACTTCGTCCATGTGTAATAGTAAA
GAACTTATTTATAAACCCATTAAACTTGTAATGGTAAAGAAGTTGGTATGTTGGGTACATGATAT
ATGAATG
Found at i:25825796 original size:18 final size:18
Alignment explanation
Indices: 25825773--25825810 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
25825763 AACTTATGTA
25825773 CTTTGATATAATGAAAAC
1 CTTTGATATAATGAAAAC
25825791 CTTTGATATAATGAAAAC
1 CTTTGATATAATGAAAAC
25825809 CT
1 CT
25825811 ATGCTCTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.34
Consensus pattern (18 bp):
CTTTGATATAATGAAAAC
Found at i:25830202 original size:18 final size:18
Alignment explanation
Indices: 25830179--25830213 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
25830169 AAAATAAAAA
25830179 ATTAATAATAATGATAAC
1 ATTAATAATAATGATAAC
25830197 ATTAATAATAATGATAA
1 ATTAATAATAATGATAA
25830214 TAATGACACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.57, C:0.03, G:0.06, T:0.34
Consensus pattern (18 bp):
ATTAATAATAATGATAAC
Found at i:25833862 original size:150 final size:150
Alignment explanation
Indices: 25833577--25833865 Score: 375
Period size: 150 Copynumber: 1.9 Consensus size: 150
25833567 TGATACTCAA
* * * * *
25833577 GCTCTAGTATCGTGATACTCATGTCAATCTTGCAATGGGGAGTCTCGGGATGTCTCGGTATCATG
1 GCTCTAGTATCATGATACTCAGGTCAATCTTGCAATGGAGAATCTCGGGATGTCTCGGTATCACG
* * * * * * *
25833642 ATACCGATCTGTGGTATCACGATGTCATTGAAGTTGGTCACAATTCTCTTCGCTTCAGCATTGTC
66 ATACCCATCTGTGGTATCACGATATCACTGAAGTTGGCCACAATTCTCTTCACTTCAGCACTATC
25833707 TAGGGTATCGCGATACCTAG
131 TAGGGTATCGCGATACCTAG
*
25833727 GCTCTAGTATCATGATACTCAAGGT-AGTCTTGCAATGGAGAATCTCGGGATGTCTCGGTATCAC
1 GCTCTAGTATCATGATACTC-AGGTCAATCTTGCAATGGAGAATCTCGGGATGTCTCGGTATCAC
* ** * * *
25833791 GATACCCATCTTTGGTATTGCTATATCACTGAAGTTGGCCACAATTCTCTTTACTTTAGCACTAT
65 GATACCCATCTGTGGTATCACGATATCACTGAAGTTGGCCACAATTCTCTTCACTTCAGCACTAT
25833856 -TAAGGGTATC
130 CT-AGGGTATC
25833866 ACAACCTCCA
Statistics
Matches: 118, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
149 1 0.01
150 114 0.97
151 3 0.03
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.33
Consensus pattern (150 bp):
GCTCTAGTATCATGATACTCAGGTCAATCTTGCAATGGAGAATCTCGGGATGTCTCGGTATCACG
ATACCCATCTGTGGTATCACGATATCACTGAAGTTGGCCACAATTCTCTTCACTTCAGCACTATC
TAGGGTATCGCGATACCTAG
Found at i:25834066 original size:17 final size:17
Alignment explanation
Indices: 25834044--25834105 Score: 81
Period size: 17 Copynumber: 3.6 Consensus size: 17
25834034 CATTTTTTAA
25834044 AAATTTATTTTAAGATT
1 AAATTTATTTTAAGATT
*
25834061 AAATTTGTTTTAA-ATTT
1 AAATTTATTTTAAGA-TT
* *
25834078 AAATTTAATTTAAGTTT
1 AAATTTATTTTAAGATT
25834095 AAATTTATTTT
1 AAATTTATTTT
25834106 TAAATTTAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
16 1 0.03
17 37 0.97
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (17 bp):
AAATTTATTTTAAGATT
Found at i:25834078 original size:6 final size:6
Alignment explanation
Indices: 25834069--25834133 Score: 62
Period size: 6 Copynumber: 11.2 Consensus size: 6
25834059 TTAAATTTGT
* **
25834069 TTTAAA TTTAAA TTT-AA TTTAAG TTTAAA TTTATT TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * *
25834116 ATT-AC TCTAAA TTTAAA T
1 TTTAAA TTTAAA TTTAAA T
25834134 AAATAAAAGT
Statistics
Matches: 45, Mismatches: 12, Indels: 4
0.74 0.20 0.07
Matches are distributed among these distances:
5 7 0.16
6 38 0.84
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (6 bp):
TTTAAA
Found at i:25834084 original size:34 final size:35
Alignment explanation
Indices: 25834044--25834115 Score: 110
Period size: 34 Copynumber: 2.1 Consensus size: 35
25834034 CATTTTTTAA
*
25834044 AAATTTATTTTAAGATTAAATTT-GTTTTAAATTT
1 AAATTTAATTTAAGATTAAATTTAGTTTTAAATTT
* *
25834078 AAATTTAATTTAAGTTTAAATTTATTTTTAAATTT
1 AAATTTAATTTAAGATTAAATTTAGTTTTAAATTT
25834113 AAA
1 AAA
25834116 ATTACTCTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
34 21 0.62
35 13 0.38
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (35 bp):
AAATTTAATTTAAGATTAAATTTAGTTTTAAATTT
Found at i:25834114 original size:35 final size:34
Alignment explanation
Indices: 25834044--25834133 Score: 108
Period size: 35 Copynumber: 2.6 Consensus size: 34
25834034 CATTTTTTAA
* *
25834044 AAATTTATTTTAAGATTAAATTTGTTTTAAATTT
1 AAATTTAATTTAAGTTTAAATTTGTTTTAAATTT
*
25834078 AAATTTAATTTAAGTTTAAATTTATTTTTAAATTT
1 AAATTTAATTTAAGTTTAAATTT-GTTTTAAATTT
* * * *
25834113 AAAATTACTCTAAATTTAAAT
1 AAATTTAATTTAAGTTTAAAT
25834134 AAATAAAAGT
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
34 21 0.44
35 27 0.56
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.52
Consensus pattern (34 bp):
AAATTTAATTTAAGTTTAAATTTGTTTTAAATTT
Found at i:25834183 original size:14 final size:13
Alignment explanation
Indices: 25834134--25834179 Score: 65
Period size: 14 Copynumber: 3.4 Consensus size: 13
25834124 AAATTTAAAT
25834134 AAATAAAAGTCCA
1 AAATAAAAGTCCA
*
25834147 AATTAAAAGGTCCA
1 AAATAAAA-GTCCA
25834161 AAATACAAAGTCCA
1 AAATA-AAAGTCCA
25834175 AAATA
1 AAATA
25834180 CAAACCCAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 7 0.24
14 19 0.66
15 3 0.10
ACGTcount: A:0.59, C:0.15, G:0.09, T:0.17
Consensus pattern (13 bp):
AAATAAAAGTCCA
Found at i:25834886 original size:3 final size:3
Alignment explanation
Indices: 25834878--25834930 Score: 63
Period size: 3 Copynumber: 17.3 Consensus size: 3
25834868 ATAATGACTT
* *
25834878 TAA TAA TAA CAA TAA TAA TAA TAA -ATA TAA TAA TAA TTAA TAT TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA -TAA TAA TAA
25834924 TAA TAA T
1 TAA TAA T
25834931 GAAAATAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
2 1 0.02
3 38 0.88
4 4 0.09
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:25836052 original size:29 final size:29
Alignment explanation
Indices: 25836017--25836297 Score: 194
Period size: 30 Copynumber: 9.6 Consensus size: 29
25836007 CGAGTTTTTT
*
25836017 AAAAATTACATTTTGACCCTGAACTTCT-C
1 AAAAATTACATTTT-ACCCTAAACTTCTCC
25836046 AAAAATTACATTTTACCCTAAA-TT-TCC
1 AAAAATTACATTTTACCCTAAACTTCTCC
*
25836073 AAAAATT-CTATTTTTCACCCCAAACTT-TCC
1 AAAAATTAC-A-TTTT-ACCCTAAACTTCTCC
* *
25836103 AAAAATTACAATTTTACCCTTGAA--TATCC
1 AAAAATTAC-ATTTTACCC-TAAACTTCTCC
* * *
25836132 AAAAATTCCATTTTTGACCTTGAACTT-TCC
1 AAAAATTACA-TTTT-ACCCTAAACTTCTCC
*
25836162 AAAAATTACCA-TTTACCCCT-AA-TTTTCC
1 AAAAATTA-CATTTTA-CCCTAAACTTCTCC
* *
25836190 AAAAATTCCATTTTGACCCCAAACTT-TCC
1 AAAAATTACATTTT-ACCCTAAACTTCTCC
* *
25836219 AAAAATTACATTTTTACCCTCAATCTTC-AC
1 AAAAATTACA-TTTTACCCT-AAACTTCTCC
* *
25836249 AAAAATTACATTTTTAACCCCAAAATT-TCC
1 AAAAATTACA-TTTT-ACCCTAAACTTCTCC
25836279 AAAAATTACCATTTTACCC
1 AAAAATTA-CATTTTACCC
25836298 CCGAATATCC
Statistics
Matches: 208, Mismatches: 19, Indels: 50
0.75 0.07 0.18
Matches are distributed among these distances:
26 2 0.01
27 15 0.07
28 32 0.15
29 73 0.35
30 75 0.36
31 11 0.05
ACGTcount: A:0.37, C:0.26, G:0.02, T:0.35
Consensus pattern (29 bp):
AAAAATTACATTTTACCCTAAACTTCTCC
Found at i:25836104 original size:30 final size:30
Alignment explanation
Indices: 25836017--25836414 Score: 311
Period size: 29 Copynumber: 13.7 Consensus size: 30
25836007 CGAGTTTTTT
* **
25836017 AAAAATTA-CATTTTGACCCTGAAC-TTCTC
1 AAAAATTACCATTTTTACCCCAAACTTTC-C
*
25836046 AAAAATTA-CA-TTTTACCCTAAA-TTTCC
1 AAAAATTACCATTTTTACCCCAAACTTTCC
*
25836073 AAAAATT-CTATTTTTCACCCCAAACTTTCC
1 AAAAATTACCATTTTT-ACCCCAAACTTTCC
* ** *
25836103 AAAAATTA-CAATTTTACCCTTGAA-TATCC
1 AAAAATTACCATTTTTACCC-CAAACTTTCC
***
25836132 AAAAATT-CCATTTTTGACCTTGAACTTTCC
1 AAAAATTACCATTTTT-ACCCCAAACTTTCC
* *
25836162 AAAAATTACCA--TTTACCCCTAATTTTCC
1 AAAAATTACCATTTTTACCCCAAACTTTCC
*
25836190 AAAAATT-CCATTTTGACCCCAAACTTTCC
1 AAAAATTACCATTTTTACCCCAAACTTTCC
*
25836219 AAAAATTA-CATTTTTACCCTCAATC-TTCAC
1 AAAAATTACCATTTTTACCC-CAAACTTTC-C
*
25836249 AAAAATTA-CATTTTTAACCCCAAAATTTCC
1 AAAAATTACCATTTTT-ACCCCAAACTTTCC
* *
25836279 AAAAATTACCA-TTTTACCCCCGAA-TATCC
1 AAAAATTACCATTTTTA-CCCCAAACTTTCC
25836308 AAAAATT-CCATTTTTGACCCCAAACTTTCC
1 AAAAATTACCATTTTT-ACCCCAAACTTTCC
* ** * *
25836338 AAAAATCACCATTTTGCCCCCAAA-TGTCT
1 AAAAATTACCATTTTTACCCCAAACTTTCC
* *
25836367 AAAAATTACCA-TTTTACCCCCGAAC-CTCC
1 AAAAATTACCATTTTTA-CCCCAAACTTTCC
25836396 -AAAATTACCA-TTTTACCCC
1 AAAAATTACCATTTTTACCCC
25836415 CGAGCATCCA
Statistics
Matches: 305, Mismatches: 38, Indels: 54
0.77 0.10 0.14
Matches are distributed among these distances:
27 16 0.05
28 55 0.18
29 122 0.40
30 93 0.30
31 19 0.06
ACGTcount: A:0.36, C:0.28, G:0.03, T:0.33
Consensus pattern (30 bp):
AAAAATTACCATTTTTACCCCAAACTTTCC
Found at i:25836145 original size:59 final size:59
Alignment explanation
Indices: 25836017--25836436 Score: 407
Period size: 59 Copynumber: 7.2 Consensus size: 59
25836007 CGAGTTTTTT
* ** * *
25836017 AAAAATTACA-TTTTGACCCTGAAC-TTCTCAAAAATTA-CATTTTA-CCCTAAATTTCC
1 AAAAATTCCATTTTTGACCCCAAACTTTC-CAAAAATTACCATTTTACCCCTGAATATCC
* * * *
25836073 AAAAATTCTATTTTTCACCCCAAACTTTCCAAAAATTACAATTTTACCCTTGAATATCC
1 AAAAATTCCATTTTTGACCCCAAACTTTCCAAAAATTACCATTTTACCCCTGAATATCC
*** *
25836132 AAAAATTCCATTTTTGACCTTGAACTTTCCAAAAATTACCA-TTTACCCCT-AATTTTCC
1 AAAAATTCCATTTTTGACCCCAAACTTTCCAAAAATTACCATTTTACCCCTGAA-TATCC
* *
25836190 AAAAATTCCA-TTTTGACCCCAAACTTTCCAAAAATTA-CATTTTTA-CCCTCAATCTTCAC
1 AAAAATTCCATTTTTGACCCCAAACTTTCCAAAAATTACCA-TTTTACCCCTGAAT-ATC-C
* * * *
25836249 AAAAATTACATTTTTAACCCCAAAATTTCCAAAAATTACCATTTTACCCCCGAATATCC
1 AAAAATTCCATTTTTGACCCCAAACTTTCCAAAAATTACCATTTTACCCCTGAATATCC
* * ** * *
25836308 AAAAATTCCATTTTTGACCCCAAACTTTCCAAAAATCACCATTTTGCCCCCAAATGTCT
1 AAAAATTCCATTTTTGACCCCAAACTTTCCAAAAATTACCATTTTACCCCTGAATATCC
* * * **
25836367 AAAAATTACCA-TTTT-ACCCCCGAAC-CTCC-AAAATTACCATTTTACCCCCGAGCATCC
1 AAAAATT-CCATTTTTGA-CCCCAAACTTTCCAAAAATTACCATTTTACCCCTGAATATCC
*
25836424 AAAAATTGCATTT
1 AAAAATTCCATTT
25836437 AATCCCGTTT
Statistics
Matches: 304, Mismatches: 44, Indels: 31
0.80 0.12 0.08
Matches are distributed among these distances:
56 12 0.04
57 81 0.27
58 44 0.14
59 124 0.41
60 35 0.12
61 8 0.03
ACGTcount: A:0.36, C:0.28, G:0.03, T:0.33
Consensus pattern (59 bp):
AAAAATTCCATTTTTGACCCCAAACTTTCCAAAAATTACCATTTTACCCCTGAATATCC
Found at i:25839021 original size:53 final size:52
Alignment explanation
Indices: 25838982--25839084 Score: 145
Period size: 53 Copynumber: 1.9 Consensus size: 52
25838972 TCTGTCTACA
*
25838982 TTATATTTTAAATATTTAAAAAAAACATTTATTTTATTTTAATATTAATATTTAT
1 TTATATTTTAAATA-TT-AAAAAAACATTTATTTTATTTTAATATTAATA-TCAT
* *
25839037 TTATATTTTAAATATTAAAAAAATATTTATTTTATTTT-ATTTTAATAT
1 TTATATTTTAAATATTAAAAAAACATTTATTTTATTTTAATATTAATAT
25839085 TAATATTTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
51 1 0.02
52 8 0.17
53 21 0.46
54 2 0.04
55 14 0.30
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (52 bp):
TTATATTTTAAATATTAAAAAAACATTTATTTTATTTTAATATTAATATCAT
Found at i:25839043 original size:55 final size:57
Alignment explanation
Indices: 25838982--25839098 Score: 186
Period size: 58 Copynumber: 2.1 Consensus size: 57
25838972 TCTGTCTACA
25838982 TTATATTTTAAATATTTAAAAAAA-A-CA-TTTATTTTATTTTAATATTAATATTTAT
1 TTATATTTTAAATA-TTAAAAAAATATCATTTTATTTTATTTTAATATTAATATTTAT
*
25839037 TTATATTTTAAATATTAAAAAAATATTTATTTTATTTTATTTTAATATTAATATTTAT
1 TTATATTTTAAATATTAAAAAAATA-TCATTTTATTTTATTTTAATATTAATATTTAT
25839095 TTAT
1 TTAT
25839099 TTATTGAAAA
Statistics
Matches: 57, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
54 9 0.16
55 15 0.26
57 1 0.02
58 32 0.56
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (57 bp):
TTATATTTTAAATATTAAAAAAATATCATTTTATTTTATTTTAATATTAATATTTAT
Found at i:25839097 original size:22 final size:22
Alignment explanation
Indices: 25839058--25839100 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
25839048 ATATTAAAAA
*
25839058 AATATTTATTTTATTTTATTTT
1 AATATTAATTTTATTTTATTTT
25839080 AATATTAATATTTA-TTTATTT
1 AATATTAAT-TTTATTTTATTT
25839101 ATTGAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (22 bp):
AATATTAATTTTATTTTATTTT
Found at i:25839318 original size:18 final size:17
Alignment explanation
Indices: 25839297--25839339 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
25839287 TTAATTCATA
25839297 TTTTAAATAAACTTAATT
1 TTTTAAATAAA-TTAATT
** *
25839315 TTTTATCTAAATTTATT
1 TTTTAAATAAATTAATT
25839332 TTTTAAAT
1 TTTTAAAT
25839340 TTAATATTTT
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTTAAATAAATTAATT
Found at i:25846391 original size:19 final size:19
Alignment explanation
Indices: 25846367--25846405 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
25846357 ATTGAGAATA
25846367 TTCAAA-TCGTGAATCAAGT
1 TTCAAACTCGT-AATCAAGT
*
25846386 TTCAAACTCGTAATCGAGT
1 TTCAAACTCGTAATCAAGT
25846405 T
1 T
25846406 CACGTCAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.33
Consensus pattern (19 bp):
TTCAAACTCGTAATCAAGT
Found at i:25847518 original size:19 final size:20
Alignment explanation
Indices: 25847496--25847537 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 20
25847486 TGAGAGAAGA
25847496 AAAAAAGAAA-TCAAAAAAG
1 AAAAAAGAAAGTCAAAAAAG
* *
25847515 -AAAAAGAAAGTGAGAAAAG
1 AAAAAAGAAAGTCAAAAAAG
25847534 AAAA
1 AAAA
25847538 TTGAAATTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
18 9 0.47
19 7 0.37
20 3 0.16
ACGTcount: A:0.76, C:0.02, G:0.17, T:0.05
Consensus pattern (20 bp):
AAAAAAGAAAGTCAAAAAAG
Done.