Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 134 of 250
Found at i:43242251 original size:26 final size:26
Alignment explanation
Indices: 43242174--43242257 Score: 77
Period size: 26 Copynumber: 3.4 Consensus size: 26
43242164 AATGAAGTTA
*
43242174 GATT-AAATTAGAGCGATAGTTTTAT
1 GATTGAAATTAGAGGGATAGTTTTAT
* * ** *
43242199 GATTGAAATTTGA-GTA-AAATAT-T
1 GATTGAAATTAGAGGGATAGTTTTAT
*
43242222 GATTTAAATTAGAGGGATAGTTTTAT
1 GATTGAAATTAGAGGGATAGTTTTAT
43242248 GATTGAAATT
1 GATTGAAATT
43242258 TGAGTAAAAT
Statistics
Matches: 42, Mismatches: 13, Indels: 7
0.68 0.21 0.11
Matches are distributed among these distances:
23 12 0.29
24 5 0.12
25 8 0.19
26 17 0.40
ACGTcount: A:0.38, C:0.01, G:0.20, T:0.40
Consensus pattern (26 bp):
GATTGAAATTAGAGGGATAGTTTTAT
Found at i:43250629 original size:23 final size:24
Alignment explanation
Indices: 43250573--43250635 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 24
43250563 TCATTAACAT
*
43250573 TGTTCGTGAACATATTCAATTATA
1 TGTTCGTGAACATGTTCAATTATA
* * **
43250597 TGTTCATGAACTTGTTCGTTTA-A
1 TGTTCGTGAACATGTTCAATTATA
43250620 TGTTCGTGAACATGTT
1 TGTTCGTGAACATGTT
43250636 TGATTAAGTT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
23 15 0.47
24 17 0.53
ACGTcount: A:0.25, C:0.13, G:0.17, T:0.44
Consensus pattern (24 bp):
TGTTCGTGAACATGTTCAATTATA
Found at i:43250642 original size:23 final size:23
Alignment explanation
Indices: 43250573--43250642 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
43250563 TCATTAACAT
* *
43250573 TGTTCGTGAACATATTCAATTATA
1 TGTTCGTGAACATGTTCGATTA-A
* * *
43250597 TGTTCATGAACTTGTTCGTTTAA
1 TGTTCGTGAACATGTTCGATTAA
*
43250620 TGTTCGTGAACATGTTTGATTAA
1 TGTTCGTGAACATGTTCGATTAA
43250643 GTTAAATGAA
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
23 20 0.54
24 17 0.46
ACGTcount: A:0.27, C:0.11, G:0.17, T:0.44
Consensus pattern (23 bp):
TGTTCGTGAACATGTTCGATTAA
Found at i:43256874 original size:35 final size:34
Alignment explanation
Indices: 43256835--43256934 Score: 130
Period size: 35 Copynumber: 2.9 Consensus size: 34
43256825 ATTTAAAAAA
* *
43256835 TAAATTAAGGTTTAAATTTTTTTAAAAAATTAATT
1 TAAATTAGGGTTTAAGTTTTTTTAAAAAATTAA-T
*
43256870 TAAATTAGGGTTT-AGTGTTTTTAAGAAAATTAAT
1 TAAATTAGGGTTTAAGTTTTTTTAA-AAAATTAAT
* *
43256904 TAAATTAGGGTTTAGGTTTTTTTAAATAATT
1 TAAATTAGGGTTTAAGTTTTTTTAAAAAATT
43256935 TTGTGTTTAG
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
34 28 0.49
35 29 0.51
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (34 bp):
TAAATTAGGGTTTAAGTTTTTTTAAAAAATTAAT
Found at i:43256907 original size:34 final size:34
Alignment explanation
Indices: 43256835--43256934 Score: 121
Period size: 34 Copynumber: 2.9 Consensus size: 34
43256825 ATTTAAAAAA
* * *
43256835 TAAATTAAGGTTTAAATTTTTTTAAAAAATTAATT
1 TAAATTAGGGTTT-AGTGTTTTTAAAAAATTAATT
43256870 TAAATTAGGGTTTAGTGTTTTTAAGAAAATTAA-T
1 TAAATTAGGGTTTAGTGTTTTTAA-AAAATTAATT
* *
43256904 TAAATTAGGGTTTAGGTTTTTTTAAATAATT
1 TAAATTAGGGTTTA-GTGTTTTTAAAAAATT
43256935 TTGTGTTTAG
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
34 29 0.50
35 29 0.50
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (34 bp):
TAAATTAGGGTTTAGTGTTTTTAAAAAATTAATT
Found at i:43257240 original size:124 final size:124
Alignment explanation
Indices: 43257017--43257396 Score: 472
Period size: 124 Copynumber: 3.1 Consensus size: 124
43257007 AAAAAAAAAA
*
43257017 TTCTACAGTAGTT-TCTG-AAAAATAATTTTGAGAAGACGGTTCTGAAAAGATAATGT-AAAAAC
1 TTCTACAGTAGTTCT-TGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAAT-A-GTCAAAAAC
* * * * * * * *
43257079 GCTTCAAGTAGTATACACTGTGAACAAAAATACTGAAAAAAGCTCCCACATAGACGCTCTTT
63 GCTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCACACGTAGACACTCTTT
*
43257141 TTATACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTCAAAAACGCT
1 TTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTCAAAAACGCT
* *
43257206 TCAAGCAGGATGCACTGTCAACAAAATTAGTGAAAAAAGCTCATACGTAGACACTCTTT
66 TCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCACACGTAGACACTCTTT
* * * * * *
43257265 TTCTATAGTAGTTCCTGAAAAAGTAATTTTGAGAAAACAG-T-T---AATAT-GTCAAAAACGCT
1 TTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTCAAAAACGCT
* * *
43257324 TCAAGCAGGATGCATTGTCAACAAAATTACTGAAAAAAGCTCTCACGTTGACACTCTTT
66 TCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCACACGTAGACACTCTTT
*
43257383 TTCTACAATAGTTC
1 TTCTACAGTAGTTC
43257397 CTGCTTGGCC
Statistics
Matches: 227, Mismatches: 26, Indels: 12
0.86 0.10 0.05
Matches are distributed among these distances:
118 78 0.34
119 4 0.02
122 1 0.00
123 3 0.01
124 107 0.47
125 34 0.15
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.28
Consensus pattern (124 bp):
TTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTCAAAAACGCT
TCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCACACGTAGACACTCTTT
Found at i:43262370 original size:28 final size:28
Alignment explanation
Indices: 43262316--43262372 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
43262306 GCATAAGTTT
* * *
43262316 ATATATATTATGAATTTTTAAAGTTAAA
1 ATATATATTATGAATATTAAAAATTAAA
43262344 ATATATATTAT-AATATTAAAATATTAAA
1 ATATATATTATGAATATTAAAA-ATTAAA
43262372 A
1 A
43262373 GTTAAAAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 8 0.32
28 17 0.68
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.44
Consensus pattern (28 bp):
ATATATATTATGAATATTAAAAATTAAA
Found at i:43262443 original size:17 final size:17
Alignment explanation
Indices: 43262421--43262456 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
43262411 ACAATTAAAT
43262421 AAAAGAAAAAGAATAGA
1 AAAAGAAAAAGAATAGA
*
43262438 AAAAGAAAGAGAATAGA
1 AAAAGAAAAAGAATAGA
43262455 AA
1 AA
43262457 CGAAATAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.75, C:0.00, G:0.19, T:0.06
Consensus pattern (17 bp):
AAAAGAAAAAGAATAGA
Found at i:43262484 original size:11 final size:10
Alignment explanation
Indices: 43262422--43262494 Score: 56
Period size: 11 Copynumber: 6.6 Consensus size: 10
43262412 CAATTAAATA
43262422 AAAGAAAAAG
1 AAAGAAAAAG
43262432 AATAGAAAAAG
1 AA-AGAAAAAG
*
43262443 AAAGAGAATAG
1 AAAGA-AAAAG
*
43262454 AAACGAAATAG
1 AAA-GAAAAAG
*
43262465 AAGAAAAAAAGG
1 AA-AGAAAAA-G
43262477 AAAGAAAAGGAG
1 AAAGAAAA--AG
43262489 AAAGAA
1 AAAGAA
43262495 GGAGAATTAG
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
10 5 0.10
11 33 0.63
12 13 0.25
13 1 0.02
ACGTcount: A:0.71, C:0.01, G:0.23, T:0.04
Consensus pattern (10 bp):
AAAGAAAAAG
Found at i:43263453 original size:40 final size:41
Alignment explanation
Indices: 43263409--43263497 Score: 135
Period size: 41 Copynumber: 2.2 Consensus size: 41
43263399 GTACATTAGA
*
43263409 GGCGTTTTAGCAAAAATGCCGCT-AAAAGCAGAGCAATAGC
1 GGCGTTTTAGCAAAAATGCCGCTAAAAACCAGAGCAATAGC
* **
43263449 GGCGTTTTTGGTAAAATGCCGCTAAAAACCAGAGCAATAGC
1 GGCGTTTTAGCAAAAATGCCGCTAAAAACCAGAGCAATAGC
43263490 GGCGTTTT
1 GGCGTTTT
43263498 TCCAAAGCAA
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
40 20 0.45
41 24 0.55
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.22
Consensus pattern (41 bp):
GGCGTTTTAGCAAAAATGCCGCTAAAAACCAGAGCAATAGC
Found at i:43263494 original size:41 final size:40
Alignment explanation
Indices: 43263421--43263498 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 40
43263411 CGTTTTAGCA
*
43263421 AAAATGCCGCTAAAAGCAGAGCAATAGCGGCGTTTTTGGT
1 AAAATGCCGCTAAAACCAGAGCAATAGCGGCGTTTTTGGT
43263461 AAAATGCCGCTAAAAACCAGAGCAATAGCGGCGTTTTT
1 AAAATGCCGCT-AAAACCAGAGCAATAGCGGCGTTTTT
43263499 CCAAAGCAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
40 11 0.31
41 25 0.69
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (40 bp):
AAAATGCCGCTAAAACCAGAGCAATAGCGGCGTTTTTGGT
Found at i:43263682 original size:38 final size:37
Alignment explanation
Indices: 43263596--43263687 Score: 121
Period size: 37 Copynumber: 2.5 Consensus size: 37
43263586 TAACCCCTAA
* * * *
43263596 AACCCTAAACCCCCAAAAATCATAAACACTAATCTAT
1 AACCCTAAAACCCTAAAAACCATAAACACTAAACTAT
*
43263633 AACCCTTAAACCCTAAAAACCATAAACACTAAACTAT
1 AACCCTAAAACCCTAAAAACCATAAACACTAAACTAT
*
43263670 AACCCCTAAAACCTTAAA
1 AA-CCCTAAAACCCTAAA
43263688 CCCCAAAAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
37 34 0.72
38 13 0.28
ACGTcount: A:0.50, C:0.32, G:0.00, T:0.18
Consensus pattern (37 bp):
AACCCTAAAACCCTAAAAACCATAAACACTAAACTAT
Found at i:43263847 original size:15 final size:15
Alignment explanation
Indices: 43263818--43263861 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
43263808 GGATTTAATA
*
43263818 TTTAAGG-TCTATGG
1 TTTAAGGTTTTATGG
*
43263832 TTTAGGGTTTTATGG
1 TTTAAGGTTTTATGG
*
43263847 TTTAAGGTTTAATGG
1 TTTAAGGTTTTATGG
43263862 CCATGGGTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
14 6 0.24
15 19 0.76
ACGTcount: A:0.20, C:0.02, G:0.30, T:0.48
Consensus pattern (15 bp):
TTTAAGGTTTTATGG
Found at i:43264859 original size:3 final size:3
Alignment explanation
Indices: 43264851--43264891 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
43264841 CATTTTAGTA
*
43264851 AAT AAT AAT AAT AAT AAT ACT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
43264892 AAGAGAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:43270920 original size:3 final size:3
Alignment explanation
Indices: 43270912--43270936 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
43270902 AGCAACTGGA
43270912 GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT G
43270937 GAGCTCCAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:43273856 original size:19 final size:19
Alignment explanation
Indices: 43273834--43273872 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
43273824 TCTATATTTA
43273834 TATTTAATCTAATTTTGAT
1 TATTTAATCTAATTTTGAT
* * *
43273853 TATTTATTTTAGTTTTGAT
1 TATTTAATCTAATTTTGAT
43273872 T
1 T
43273873 CTATATTTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.26, C:0.03, G:0.08, T:0.64
Consensus pattern (19 bp):
TATTTAATCTAATTTTGAT
Found at i:43273887 original size:19 final size:18
Alignment explanation
Indices: 43273845--43273887 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
43273835 ATTTAATCTA
*
43273845 ATTTTGATTATTTATTTT
1 ATTTTGATTATATATTTT
*
43273863 AGTTTTGATTCTATATTTTT
1 A-TTTTGATTATATA-TTTT
43273883 ATTTT
1 ATTTT
43273888 TATTTTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 15 0.71
20 5 0.24
ACGTcount: A:0.21, C:0.02, G:0.07, T:0.70
Consensus pattern (18 bp):
ATTTTGATTATATATTTT
Found at i:43279903 original size:43 final size:43
Alignment explanation
Indices: 43279855--43279940 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 43
43279845 TTAATGTAGG
* * *
43279855 ATTAAAGATAACATTTTAGTAAAAATAATAAAGAAATTGACAC
1 ATTAAAAATAACATTTTAATAAAAATAATAAAGAAAATGACAC
* * *
43279898 ATTAAAAATAACTTTTTAATAAAAATAATGAATAAAATGACAC
1 ATTAAAAATAACATTTTAATAAAAATAATAAAGAAAATGACAC
43279941 TTTTATATGA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.29
Consensus pattern (43 bp):
ATTAAAAATAACATTTTAATAAAAATAATAAAGAAAATGACAC
Found at i:43280060 original size:12 final size:12
Alignment explanation
Indices: 43280039--43280068 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
43280029 TGCTGAAGTA
*
43280039 ACCAATTTCACT
1 ACCAACTTCACT
43280051 ACCAACTTCACT
1 ACCAACTTCACT
43280063 ACCAAC
1 ACCAAC
43280069 CATAATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.37, C:0.40, G:0.00, T:0.23
Consensus pattern (12 bp):
ACCAACTTCACT
Found at i:43281145 original size:18 final size:17
Alignment explanation
Indices: 43281117--43281160 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
43281107 ACGTGCCCAT
43281117 AAAATATAATAAAATATTA
1 AAAATATAAT--AATATTA
43281136 AAAATA-AATAATATTAA
1 AAAATATAATAATATT-A
43281153 AAAATATA
1 AAAATATA
43281161 CATGACATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 6 0.26
17 7 0.30
18 4 0.17
19 6 0.26
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
AAAATATAATAATATTA
Found at i:43288178 original size:17 final size:17
Alignment explanation
Indices: 43288143--43288181 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
43288133 AGGCAATAAA
* **
43288143 AGAAAAAGAAGAATCAG
1 AGAAAAAGAAAAAGAAG
43288160 AGAAAAAGAAAAAGAAG
1 AGAAAAAGAAAAAGAAG
43288177 AGAAA
1 AGAAA
43288182 TTTGAGAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.72, C:0.03, G:0.23, T:0.03
Consensus pattern (17 bp):
AGAAAAAGAAAAAGAAG
Found at i:43289987 original size:46 final size:45
Alignment explanation
Indices: 43289920--43290094 Score: 199
Period size: 46 Copynumber: 3.8 Consensus size: 45
43289910 TGTAACCCGC
43289920 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
* * *
43289966 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCTTCGCAT
* *** * * *
43290012 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
*
43290059 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
43290095 ATGCCCAAAT
Statistics
Matches: 106, Mismatches: 18, Indels: 10
0.79 0.13 0.07
Matches are distributed among these distances:
45 1 0.01
46 70 0.66
47 33 0.31
48 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTCGCAT
Found at i:43290040 original size:93 final size:93
Alignment explanation
Indices: 43289928--43290099 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
43289918 GCCCATAAGT
* * *
43289928 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
43289993 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
43290021 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
43290086 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
43290100 CAAATATCCT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:43290114 original size:46 final size:44
Alignment explanation
Indices: 43289925--43290114 Score: 118
Period size: 46 Copynumber: 4.1 Consensus size: 44
43289915 CCCGCCCATA
* ** ** **
43289925 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCC-T
* *
43289970 AAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---A-ATC-CT
* * * *
43290020 --CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTC-G-GATGCCCAAATCC-T
43290063 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AA-ATCCT
43290110 AGTGA
1 AGTGA
43290115 CATGTCACTT
Statistics
Matches: 112, Mismatches: 17, Indels: 30
0.70 0.11 0.19
Matches are distributed among these distances:
42 1 0.01
43 4 0.04
44 4 0.04
45 1 0.01
46 63 0.56
47 26 0.23
48 5 0.04
49 3 0.03
50 4 0.04
51 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCCT
Found at i:43299011 original size:27 final size:26
Alignment explanation
Indices: 43298969--43299044 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 26
43298959 GTCACCAGAT
43298969 ACAGATATTGTGGCAGAGCCACTAGA
1 ACAGATATTGTGGCAGAGCCACTAGA
*
43298995 ACAGATATATGTGGCAGAGCCATTAGA
1 ACAGATAT-TGTGGCAGAGCCACTAGA
* * *
43299022 TCAGATAATTGTAGCATAGCCAC
1 ACAGAT-ATTGTGGCAGAGCCAC
43299045 CAGGACGCTT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
26 8 0.19
27 33 0.77
28 2 0.05
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (26 bp):
ACAGATATTGTGGCAGAGCCACTAGA
Found at i:43299178 original size:27 final size:26
Alignment explanation
Indices: 43299152--43299225 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 26
43299142 AAATTAACCT
*
43299152 TAGGGGTATAACGGTAATTTTGCACC
1 TAGGGGTATAACAGTAATTTTGCACC
* *
43299178 TAGGGGTATAACAGTAATTTTCCATACA
1 TAGGGGTATAACAGTAATTTTGC--ACC
* *
43299206 TAGGGGTATTATAGTAATTT
1 TAGGGGTATAACAGTAATTT
43299226 AGCTGCTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
26 21 0.51
28 20 0.49
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.35
Consensus pattern (26 bp):
TAGGGGTATAACAGTAATTTTGCACC
Found at i:43300698 original size:26 final size:26
Alignment explanation
Indices: 43300667--43300773 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
43300657 TGAAATGCCC
43300667 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
43300693 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
43300719 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
43300745 ATCATGGAACATTTACCT-AACCATT
1 ATCATGGAACATTTACCTAAACCATT
43300770 ATCA
1 ATCA
43300774 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
25 10 0.13
26 66 0.87
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:43306047 original size:27 final size:27
Alignment explanation
Indices: 43305999--43306103 Score: 142
Period size: 27 Copynumber: 3.9 Consensus size: 27
43305989 GCGAGGCTAC
* * *
43305999 CAGATATTGTGACGGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
43306026 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
43306052 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
43306079 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
43306104 GACGCTTCCT
Statistics
Matches: 71, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
26 8 0.11
27 61 0.86
28 2 0.03
ACGTcount: A:0.33, C:0.22, G:0.26, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:43306236 original size:26 final size:27
Alignment explanation
Indices: 43306207--43306282 Score: 91
Period size: 26 Copynumber: 2.8 Consensus size: 27
43306197 CAAAATTAAC
*
43306207 CCTAGGGGTATAACAGTAATTTTGC-A
1 CCTAGGGGTATAACAGTAATTTTCCAA
*
43306233 CCTAGTGGTATAACAGTAATTTTCCATA
1 CCTAGGGGTATAACAGTAATTTTCCA-A
* * *
43306261 CATAGGGGTATTATAGTAATTT
1 CCTAGGGGTATAACAGTAATTT
43306283 AGCTACTTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 23 0.55
28 19 0.45
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.36
Consensus pattern (27 bp):
CCTAGGGGTATAACAGTAATTTTCCAA
Found at i:43307755 original size:26 final size:26
Alignment explanation
Indices: 43307724--43307831 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
43307714 TGAAATGCCC
*
43307724 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
43307750 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
43307776 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
43307802 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
43307828 ATCA
1 ATCA
43307832 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:43314091 original size:25 final size:22
Alignment explanation
Indices: 43314057--43314130 Score: 85
Period size: 23 Copynumber: 3.1 Consensus size: 22
43314047 TTCTGTCCTT
43314057 TACCTTAATATAAAGTTTAAAAGCA
1 TACCTT-A-ATAAAGTTTAAAA-CA
43314082 TACCTTAATAAAGTCTTAAAACA
1 TACCTTAATAAAGT-TTAAAACA
* *
43314105 TGCCCTAATAAAGTTTATAAACA
1 TACCTTAATAAAGTTTA-AAACA
43314128 TAC
1 TAC
43314131 ATTTAAAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
22 3 0.07
23 28 0.64
24 7 0.16
25 6 0.14
ACGTcount: A:0.46, C:0.16, G:0.07, T:0.31
Consensus pattern (22 bp):
TACCTTAATAAAGTTTAAAACA
Found at i:43319452 original size:3 final size:3
Alignment explanation
Indices: 43319444--43319499 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
43319434 ATACTTTACA
43319444 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
43319492 AAG AAG AA
1 AAG AAG AA
43319500 AGCATCGAAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:43320105 original size:30 final size:31
Alignment explanation
Indices: 43320036--43320106 Score: 92
Period size: 31 Copynumber: 2.3 Consensus size: 31
43320026 AAACTGTTAA
* *
43320036 TTAGTGACTGTTTTGTCATTTTTTTATAATG
1 TTAGTGACTGTTTTGTCATTTTCTTATAAAG
*
43320067 TTAGTGACTGTTTTGTTA-TTTCTTA-AAAG
1 TTAGTGACTGTTTTGTCATTTTCTTATAAAG
43320096 TTGAGTGACTG
1 TT-AGTGACTG
43320107 AAATGAAACC
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
29 5 0.14
30 14 0.39
31 17 0.47
ACGTcount: A:0.21, C:0.07, G:0.20, T:0.52
Consensus pattern (31 bp):
TTAGTGACTGTTTTGTCATTTTCTTATAAAG
Found at i:43322325 original size:76 final size:76
Alignment explanation
Indices: 43322179--43322339 Score: 216
Period size: 76 Copynumber: 2.1 Consensus size: 76
43322169 AGTTATATAT
* * *
43322179 ATGTGTGCAAGTGAAAGACCATAGCTAAGCTATGACAATGTGATAAAGTGTGCGATTATGGCAAA
1 ATGTGTGCAAGTGAAAGACCATAGCTAAGCTATGACAATGTGATAAAGTATGCGATCATGACAAA
*
43322244 GCCATGGTAAA
66 ACCATGGTAAA
* ** * *
43322255 ATGTGTGCAAGTGTAAGGTCATAGCTAGGCTATCG-CAATGTGATAAAGTATGTGATCATGACAA
1 ATGTGTGCAAGTGAAAGACCATAGCTAAGCTAT-GACAATGTGATAAAGTATGCGATCATGACAA
*
43322319 AACCATGGTAAG
65 AACCATGGTAAA
43322331 ATGTGTGCA
1 ATGTGTGCA
43322340 CGACCAAAGT
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
76 73 0.99
77 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.27, T:0.25
Consensus pattern (76 bp):
ATGTGTGCAAGTGAAAGACCATAGCTAAGCTATGACAATGTGATAAAGTATGCGATCATGACAAA
ACCATGGTAAA
Found at i:43323420 original size:15 final size:16
Alignment explanation
Indices: 43323400--43323429 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
43323390 ATATTGGACC
43323400 TTGAGGTTA-ATATGG
1 TTGAGGTTAGATATGG
43323415 TTGAGGTTAGATATG
1 TTGAGGTTAGATATG
43323430 AATAGTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.27, C:0.00, G:0.33, T:0.40
Consensus pattern (16 bp):
TTGAGGTTAGATATGG
Found at i:43326778 original size:33 final size:34
Alignment explanation
Indices: 43326739--43326831 Score: 122
Period size: 33 Copynumber: 2.8 Consensus size: 34
43326729 TGAGGTGTAC
43326739 ATTCCTTTCCAAGTGGTACACACAAAGTATACCT
1 ATTCCTTTCCAAGTGGTACACACAAAGTATACCT
* *
43326773 -TTCCTTTTCATA-TGGTATACACAAAGTATACCT
1 ATTCCTTTCCA-AGTGGTACACACAAAGTATACCT
*
43326806 AAT-CTTTCCAAGT-GTACACACAAAGT
1 ATTCCTTTCCAAGTGGTACACACAAAGT
43326832 GTACATAACC
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
32 13 0.25
33 36 0.71
34 2 0.04
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (34 bp):
ATTCCTTTCCAAGTGGTACACACAAAGTATACCT
Found at i:43328475 original size:10 final size:10
Alignment explanation
Indices: 43328460--43328486 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
43328450 ATAATATGTT
43328460 GTTGGAATAA
1 GTTGGAATAA
43328470 GTTGGAATAA
1 GTTGGAATAA
43328480 GTTGGAA
1 GTTGGAA
43328487 AAAGATCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.33, T:0.30
Consensus pattern (10 bp):
GTTGGAATAA
Found at i:43330172 original size:22 final size:21
Alignment explanation
Indices: 43330142--43330187 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
43330132 TGAATTCATC
* *
43330142 TTTTATTCATTTTTTTGTTATT
1 TTTTATTCATATTTTTATT-TT
*
43330164 TTTTTTTCATATTTTTATTTT
1 TTTTATTCATATTTTTATTTT
43330185 TTT
1 TTT
43330188 CCTTTTTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.13, C:0.04, G:0.02, T:0.80
Consensus pattern (21 bp):
TTTTATTCATATTTTTATTTT
Found at i:43333745 original size:38 final size:38
Alignment explanation
Indices: 43333698--43333777 Score: 142
Period size: 38 Copynumber: 2.1 Consensus size: 38
43333688 TTTTTTCTAA
*
43333698 TTAAGTCCATCTATTTTTATTGTATTTCAAATAAATCT
1 TTAAGTCCATCTATTTTTATTGTATTTCAAATAAACCT
*
43333736 TTAATTCCATCTATTTTTATTGTATTTCAAATAAACCT
1 TTAAGTCCATCTATTTTTATTGTATTTCAAATAAACCT
43333774 TTAA
1 TTAA
43333778 CTAGCAATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.33, C:0.14, G:0.04, T:0.50
Consensus pattern (38 bp):
TTAAGTCCATCTATTTTTATTGTATTTCAAATAAACCT
Found at i:43339081 original size:14 final size:16
Alignment explanation
Indices: 43339062--43339093 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
43339052 CATAAAGTAC
43339062 AATAAA-CC-ACAATT
1 AATAAATCCAACAATT
43339076 AATAAATCCAACAATT
1 AATAAATCCAACAATT
43339092 AA
1 AA
43339094 GTACAACTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 2 0.12
16 8 0.50
ACGTcount: A:0.59, C:0.19, G:0.00, T:0.22
Consensus pattern (16 bp):
AATAAATCCAACAATT
Found at i:43339169 original size:21 final size:21
Alignment explanation
Indices: 43339145--43339191 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
43339135 ATGGATGGAG
*
43339145 AACAATTAATATAATAA-ATAA
1 AACAATGAATA-AATAATATAA
*
43339166 AACAATGAATAAATAATATAC
1 AACAATGAATAAATAATATAA
43339187 AACAA
1 AACAA
43339192 CAATAAACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.66, C:0.09, G:0.02, T:0.23
Consensus pattern (21 bp):
AACAATGAATAAATAATATAA
Found at i:43343732 original size:41 final size:41
Alignment explanation
Indices: 43343626--43343872 Score: 271
Period size: 41 Copynumber: 6.0 Consensus size: 41
43343616 TTGTAAAACA
* * * * * *
43343626 CAGATCAATAGCGGCGTTTTTGGTAAAACGCCACTAAAA-A
1 CAGAGCAATAGCGACGCTTTCGGTAAAACGCCGCTAAAAGT
* * *
43343666 CAGAGCAATAGCAACGCTTTTGGTAAAATGCCGCTAAAAGT
1 CAGAGCAATAGCGACGCTTTCGGTAAAACGCCGCTAAAAGT
* * * *
43343707 CGGAGTAATAGCGACGCTTCCGGTAAAATGCCGCTAAAAGT
1 CAGAGCAATAGCGACGCTTTCGGTAAAACGCCGCTAAAAGT
* * *
43343748 CAGACCAATAGCGGCGCTTTCGATAAAACGCCGCTAAAAGT
1 CAGAGCAATAGCGACGCTTTCGGTAAAACGCCGCTAAAAGT
* * * * *
43343789 CGGAGCAACAGCGGCGCTTTCGGTAAAACACAGCTAAAAGT
1 CAGAGCAATAGCGACGCTTTCGGTAAAACGCCGCTAAAAGT
* * *
43343830 CAGAGCATTAGCGACGCTTTTGATAAAACGCCGCTAAAAGT
1 CAGAGCAATAGCGACGCTTTCGGTAAAACGCCGCTAAAAGT
43343871 CA
1 CA
43343873 TATAACTCCT
Statistics
Matches: 173, Mismatches: 33, Indels: 1
0.84 0.16 0.00
Matches are distributed among these distances:
40 33 0.19
41 140 0.81
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.19
Consensus pattern (41 bp):
CAGAGCAATAGCGACGCTTTCGGTAAAACGCCGCTAAAAGT
Found at i:43343783 original size:82 final size:82
Alignment explanation
Indices: 43343647--43343871 Score: 299
Period size: 82 Copynumber: 2.8 Consensus size: 82
43343637 CGGCGTTTTT
* * * * *
43343647 GGTAAAACGCCACTAAAA-ACAGAGCAATAGCAACGCTTTTGGTAAAATGCCGCTAAAAGTCGGA
1 GGTAAAACGCCGCTAAAAGTCAGAGCAATAGCGACGCTTTTGATAAAACGCCGCTAAAAGTCGGA
* *
43343711 GTAATAGCGACGCTTCC
66 GCAACAGCGACGCTTCC
* * * *
43343728 GGTAAAATGCCGCTAAAAGTCAGACCAATAGCGGCGCTTTCGATAAAACGCCGCTAAAAGTCGGA
1 GGTAAAACGCCGCTAAAAGTCAGAGCAATAGCGACGCTTTTGATAAAACGCCGCTAAAAGTCGGA
* *
43343793 GCAACAGCGGCGCTTTC
66 GCAACAGCGACGCTTCC
* * *
43343810 GGTAAAACACAGCTAAAAGTCAGAGCATTAGCGACGCTTTTGATAAAACGCCGCTAAAAGTC
1 GGTAAAACGCCGCTAAAAGTCAGAGCAATAGCGACGCTTTTGATAAAACGCCGCTAAAAGTC
43343872 ATATAACTCC
Statistics
Matches: 123, Mismatches: 20, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
81 16 0.13
82 107 0.87
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (82 bp):
GGTAAAACGCCGCTAAAAGTCAGAGCAATAGCGACGCTTTTGATAAAACGCCGCTAAAAGTCGGA
GCAACAGCGACGCTTCC
Found at i:43344770 original size:8 final size:8
Alignment explanation
Indices: 43344759--43344827 Score: 90
Period size: 8 Copynumber: 9.0 Consensus size: 8
43344749 ACTCAAAAAA
43344759 TAAAAATT
1 TAAAAATT
43344767 TAAAAATT
1 TAAAAATT
43344775 TAAAAATT
1 TAAAAATT
43344783 TAAAAA-T
1 TAAAAATT
43344790 T-AAAATT
1 TAAAAATT
43344797 TAAAAA-T
1 TAAAAATT
*
43344804 AAAAAATT
1 TAAAAATT
* *
43344812 AAAAAACT
1 TAAAAATT
43344820 TAAAAATT
1 TAAAAATT
43344828 AATATTTTAG
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
6 4 0.07
7 10 0.19
8 40 0.74
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.32
Consensus pattern (8 bp):
TAAAAATT
Found at i:43344771 original size:14 final size:14
Alignment explanation
Indices: 43344754--43344816 Score: 90
Period size: 14 Copynumber: 4.4 Consensus size: 14
43344744 AATAAACTCA
43344754 AAAAATAAAAATTT
1 AAAAATAAAAATTT
43344768 AAAAATTTAAAAATTT
1 AAAAA--TAAAAATTT
*
43344784 AAAAATTAAAATTT
1 AAAAATAAAAATTT
*
43344798 AAAAATAAAAAATT
1 AAAAATAAAAATTT
43344812 AAAAA
1 AAAAA
43344817 ACTTAAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
14 30 0.68
16 14 0.32
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
AAAAATAAAAATTT
Found at i:43344795 original size:30 final size:29
Alignment explanation
Indices: 43344753--43344829 Score: 100
Period size: 30 Copynumber: 2.6 Consensus size: 29
43344743 AAATAAACTC
* *
43344753 AAAAAATAAAAATTTAAAAATTTAAAAATT
1 AAAAAATTAAAATTTAAAAA-TAAAAAATT
*
43344783 TAAAAATTAAAATTTAAAAATAAAAAATT
1 AAAAAATTAAAATTTAAAAATAAAAAATT
*
43344812 AAAAAACTTAAAAATTAA
1 AAAAAA-TTAAAATTTAA
43344830 TATTTTAGTC
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
29 13 0.32
30 28 0.68
ACGTcount: A:0.70, C:0.01, G:0.00, T:0.29
Consensus pattern (29 bp):
AAAAAATTAAAATTTAAAAATAAAAAATT
Found at i:43344823 original size:37 final size:38
Alignment explanation
Indices: 43344759--43344834 Score: 109
Period size: 37 Copynumber: 2.0 Consensus size: 38
43344749 ACTCAAAAAA
* * *
43344759 TAAAAATTTAAAAATTTAAAAATTTAAAAATTAAAATT
1 TAAAAATTAAAAAATTAAAAAACTTAAAAATTAAAATT
*
43344797 TAAAAA-TAAAAAATTAAAAAACTTAAAAATTAATATT
1 TAAAAATTAAAAAATTAAAAAACTTAAAAATTAAAATT
43344834 T
1 T
43344835 TAGTCTATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
37 28 0.82
38 6 0.18
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.34
Consensus pattern (38 bp):
TAAAAATTAAAAAATTAAAAAACTTAAAAATTAAAATT
Found at i:43344824 original size:7 final size:7
Alignment explanation
Indices: 43344753--43344829 Score: 82
Period size: 8 Copynumber: 10.3 Consensus size: 7
43344743 AAATAAACTC
*
43344753 AAAAAAT
1 AAAAATT
43344760 AAAAATTT
1 AAAAA-TT
43344768 AAAAATTT
1 AAAAA-TT
43344776 AAAAATTT
1 AAAAA-TT
43344784 AAAAATT
1 AAAAATT
*
43344791 AAAATTT
1 AAAAATT
*
43344798 AAAAATA
1 AAAAATT
43344805 AAAAATT
1 AAAAATT
43344812 AAAAAACTT
1 -AAAAA-TT
43344821 AAAAATT
1 AAAAATT
43344828 AA
1 AA
43344830 TATTTTAGTC
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
7 28 0.45
8 32 0.52
9 2 0.03
ACGTcount: A:0.70, C:0.01, G:0.00, T:0.29
Consensus pattern (7 bp):
AAAAATT
Found at i:43346086 original size:17 final size:17
Alignment explanation
Indices: 43346064--43346096 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
43346054 TGGAAGAAGA
*
43346064 AATGGGTTTTCTGAAAC
1 AATGGGTTTTCAGAAAC
43346081 AATGGGTTTTCAGAAA
1 AATGGGTTTTCAGAAA
43346097 GAAAAAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.09, G:0.24, T:0.33
Consensus pattern (17 bp):
AATGGGTTTTCAGAAAC
Found at i:43347551 original size:17 final size:18
Alignment explanation
Indices: 43347531--43347568 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
43347521 CATTGATATC
43347531 TTTA-TATTTAATTTAAT
1 TTTATTATTTAATTTAAT
* *
43347548 TTTATTATTTATTTTAGT
1 TTTATTATTTAATTTAAT
43347566 TTT
1 TTT
43347569 GGTTCTAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (18 bp):
TTTATTATTTAATTTAAT
Found at i:43347705 original size:27 final size:28
Alignment explanation
Indices: 43347670--43347723 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
43347660 TATTTTGATA
*
43347670 ATGAATTTTA-AATTTTTTATATTTTTC
1 ATGAATTTTATAATATTTTATATTTTTC
* *
43347697 ATGACTTTTATAATATTTTATTTTTTT
1 ATGAATTTTATAATATTTTATATTTTT
43347724 TAAAATTTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 9 0.39
28 14 0.61
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.65
Consensus pattern (28 bp):
ATGAATTTTATAATATTTTATATTTTTC
Found at i:43348089 original size:21 final size:21
Alignment explanation
Indices: 43348042--43348090 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
43348032 TGAATTCATC
* *
43348042 TTTTATTCATTTTGTTGTTAT
1 TTTTTTTCATTTTGTTATTAT
*
43348063 TTTTTTTCATTTTTTTATT-T
1 TTTTTTTCATTTTGTTATTAT
*
43348083 TTCTTTTC
1 TTTTTTTC
43348091 CTTAGTATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.10, C:0.08, G:0.04, T:0.78
Consensus pattern (21 bp):
TTTTTTTCATTTTGTTATTAT
Found at i:43352237 original size:4 final size:4
Alignment explanation
Indices: 43352228--43352256 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
43352218 TTTTTGAACT
43352228 TTAA TTAA TTAA TTAA TTAA TTAA -TAA TT
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TT
43352257 TAAAAAATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
3 3 0.12
4 21 0.88
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TTAA
Found at i:43366297 original size:18 final size:18
Alignment explanation
Indices: 43366274--43366316 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
43366264 AAATATTGCA
* *
43366274 TTTTTATTACGTATATAT
1 TTTTTATTACGGATACAT
* *
43366292 TTTTTAATGCGGATACAT
1 TTTTTATTACGGATACAT
43366310 TTTTTAT
1 TTTTTAT
43366317 ATATTACGTG
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.26, C:0.07, G:0.09, T:0.58
Consensus pattern (18 bp):
TTTTTATTACGGATACAT
Found at i:43366573 original size:12 final size:12
Alignment explanation
Indices: 43366556--43366608 Score: 52
Period size: 12 Copynumber: 4.4 Consensus size: 12
43366546 TATTATATTC
43366556 TTACTATTATCA
1 TTACTATTATCA
* *
43366568 TTACTATCATTA
1 TTACTATTATCA
* *
43366580 TTATTATTATTA
1 TTACTATTATCA
* *
43366592 TTATTATTATCT
1 TTACTATTATCA
43366604 TTACT
1 TTACT
43366609 TATTTTCTCA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.30, C:0.11, G:0.00, T:0.58
Consensus pattern (12 bp):
TTACTATTATCA
Found at i:43366584 original size:3 final size:3
Alignment explanation
Indices: 43366546--43366601 Score: 60
Period size: 3 Copynumber: 19.0 Consensus size: 3
43366536 TAATACTATA
* * * * *
43366546 TAT TA- TAT TCT TAC TAT TAT CAT TAC TAT CAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
43366593 TAT TAT TAT
1 TAT TAT TAT
43366602 CTTTACTTAT
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:43378790 original size:44 final size:44
Alignment explanation
Indices: 43378727--43378972 Score: 188
Period size: 44 Copynumber: 5.7 Consensus size: 44
43378717 AATTTACAGA
* *
43378727 TCTTAACCCCCTAAGCAGTAGGGAAACAGATCAGAGACGAAGGG
1 TCTTAAACCCCTAAGCAGTAGGGTAACAGATCAGAGACGAAGGG
* ** *
43378771 TCTTAAACCCCTAAGCAGTAGGGTAACAGACCA-A-ATTACA-GA
1 TCTTAAACCCCTAAGCAGTAGGGTAACAGATCAGAGACGA-AGGG
* ** *
43378813 TCTTAACCCCCTAATAAGTAGGGAAACAGATC-GAAGACGAAGGG
1 TCTTAAACCCCTAAGCAGTAGGGTAACAGATCAG-AGACGAAGGG
* * * ** *
43378857 TCTTAAACCCCTAAGTAGTAGGGTAACAAACCA-A-ATTACA-GA
1 TCTTAAACCCCTAAGCAGTAGGGTAACAGATCAGAGACGA-AGGG
* * * *
43378899 TCTT-ATCTCCCTAAGCAATAGTGG-AGCAGAT-TGAAGACGAAGGG
1 TCTTAAAC-CCCTAAGCAGTAG-GGTAACAGATCAG-AGACGAAGGG
43378943 TCTTAAACCCCTAAGCAGTAGGGTAACAGA
1 TCTTAAACCCCTAAGCAGTAGGGTAACAGA
43378973 CCAAATTGCA
Statistics
Matches: 151, Mismatches: 36, Indels: 30
0.70 0.17 0.14
Matches are distributed among these distances:
41 2 0.01
42 52 0.34
43 12 0.08
44 83 0.55
45 2 0.01
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.19
Consensus pattern (44 bp):
TCTTAAACCCCTAAGCAGTAGGGTAACAGATCAGAGACGAAGGG
Found at i:43378839 original size:86 final size:86
Alignment explanation
Indices: 43378693--43379187 Score: 477
Period size: 86 Copynumber: 5.7 Consensus size: 86
43378683 GCCTTATCTT
* * *
43378693 CCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGAT
1 CCTAAGCAGTAGGGTAACAGAC-CAAATTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGAT
43378758 CAGAGACGAAGGGTCTTAAACC
65 CAGAGACGAAGGGTCTTAAACC
**
43378780 CCTAAGCAGTAGGGTAACAGACCAAATTACAGATCTTAACCCCCTAATAAGTAGGGAAACAGATC
1 CCTAAGCAGTAGGGTAACAGACCAAATTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATC
43378845 -GAAGACGAAGGGTCTTAAACC
66 AG-AGACGAAGGGTCTTAAACC
* * * * * *
43378866 CCTAAGTAGTAGGGTAACAAACCAAATTACAGATCTTATCTCCCTAAGCAATAGTGG-AGCAGAT
1 CCTAAGCAGTAGGGTAACAGACCAAATTACAGATCTTAACCCCCTAAGCAGTAG-GGAAACAGAT
*
43378930 -TGAAGACGAAGGGTCTTAAACC
65 CAG-AGACGAAGGGTCTTAAACC
* * * * *
43378952 CCTAAGCAGTAGGGTAACAGACCAAATTGCAGATCTTATCTCCCTAAGCAGTAATGG-AGCAGAT
1 CCTAAGCAGTAGGGTAACAGACCAAATTACAGATCTTAACCCCCTAAGCAGT-AGGGAAACAGAT
** *
43379016 CGAAGATTGAC-AA--ACCTTAACCC
65 C--AGA--GACGAAGGGTCTTAAACC
* **** * *
43379039 CCTAAACAGTAGGGTAACAGGTTGAATTCACAGATCTTAACCCCCTAAGTAGTAGGGAAACATAT
1 CCTAAGCAGTAGGGTAACAGACCAAATT-ACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGAT
* ** * *
43379104 CAAAGGTGACA-AGTTTTAAACC
65 CAGAGACGA-AGGGTCTTAAACC
* * *
43379126 CCTAAACAGTAGGGTAACAGGCTGAAGATTGAC-GAATCTTAACCCCCTAAGCAGTAGGGAAA
1 CCTAAGCAGTAGGGTAACAGAC-CAA-ATT-ACAG-ATCTTAACCCCCTAAGCAGTAGGGAAA
43379188 TATAACAGAA
Statistics
Matches: 345, Mismatches: 46, Indels: 32
0.82 0.11 0.08
Matches are distributed among these distances:
84 1 0.00
85 2 0.01
86 192 0.56
87 84 0.24
88 29 0.08
89 34 0.10
90 3 0.01
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.20
Consensus pattern (86 bp):
CCTAAGCAGTAGGGTAACAGACCAAATTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATC
AGAGACGAAGGGTCTTAAACC
Found at i:43379114 original size:87 final size:89
Alignment explanation
Indices: 43378944--43379238 Score: 257
Period size: 89 Copynumber: 3.4 Consensus size: 89
43378934 GACGAAGGGT
* * * * *
43378944 CTTAAACCCCTAAGCAGTAGGGTAACAGAC-CAA-ATTGCA-G-ATCTTATCTCCCTAAGCAGTA
1 CTTAAACCCCTAAACAGTAGGGTAACAGGCTGAAGATT-CACGAATCTTAACCCCCTAAGCAGT-
* * * * *
43379005 ATGG-AGCAGATCGAAGATTGACAAAC
64 AGGGAAACATATCAAAG-GTGACAAAC
* * *
43379031 CTTAACCCCCTAAACAGTAGGGTAACAGGTTG-A-ATTCAC-AGATCTTAACCCCCTAAGTAGTA
1 CTTAAACCCCTAAACAGTAGGGTAACAGGCTGAAGATTCACGA-ATCTTAACCCCCTAAGCAGTA
**
43379093 GGGAAACATATCAAAGGTGACAAGT
65 GGGAAACATATCAAAGGTGACAAAC
* *
43379118 TTTAAACCCCTAAACAGTAGGGTAACAGGCTGAAGATTGACGAATCTTAACCCCCTAAGCAGTAG
1 CTTAAACCCCTAAACAGTAGGGTAACAGGCTGAAGATTCACGAATCTTAACCCCCTAAGCAGTAG
* * ** *
43379183 GGAAATATAACAGAA-GTGATGAGC
66 GGAAACATATCA-AAGGTGACAAAC
* * *
43379207 CTTAAACCCCTAAGCAATAGGGTCACAGGCTG
1 CTTAAACCCCTAAACAGTAGGGTAACAGGCTG
43379239 GAAATTACAA
Statistics
Matches: 170, Mismatches: 29, Indels: 16
0.79 0.13 0.07
Matches are distributed among these distances:
86 2 0.01
87 68 0.40
88 27 0.16
89 70 0.41
90 3 0.02
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.21
Consensus pattern (89 bp):
CTTAAACCCCTAAACAGTAGGGTAACAGGCTGAAGATTCACGAATCTTAACCCCCTAAGCAGTAG
GGAAACATATCAAAGGTGACAAAC
Found at i:43379351 original size:44 final size:45
Alignment explanation
Indices: 43379296--43379424 Score: 138
Period size: 45 Copynumber: 2.9 Consensus size: 45
43379286 GCCACAACAG
* * * *
43379296 ATCTCCTTGAAGTTTCAGTAGAGAAGA-TGGAAG-TCA-CAAGTCTT
1 ATCTCCCTGAAGTTGCAGCAGAGAAGACT-GAAGAT-AGCAAGTCTC
* *
43379340 ATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGATAGCAAGTCTC
1 ATCTCCCTGAAGTTGCAGCAGAGAAGACTGAAGATAGCAAGTCTC
* * *
43379385 ATCTCCCTGAAGTTACAGCGGAGCAGACTGAAGATAGCAA
1 ATCTCCCTGAAGTTGCAGCAGAGAAGACTGAAGATAGCAA
43379425 ATCTTATTTC
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
44 27 0.36
45 48 0.64
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.22
Consensus pattern (45 bp):
ATCTCCCTGAAGTTGCAGCAGAGAAGACTGAAGATAGCAAGTCTC
Found at i:43379389 original size:45 final size:45
Alignment explanation
Indices: 43379332--43379424 Score: 168
Period size: 45 Copynumber: 2.1 Consensus size: 45
43379322 ATGGAAGTCA
* *
43379332 CAAGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGATAG
1 CAAGTCTCATCTCCCTGAAGTTACAGCGGAGCAGACTGAAGATAG
43379377 CAAGTCTCATCTCCCTGAAGTTACAGCGGAGCAGACTGAAGATAG
1 CAAGTCTCATCTCCCTGAAGTTACAGCGGAGCAGACTGAAGATAG
43379422 CAA
1 CAA
43379425 ATCTTATTTC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.31, C:0.24, G:0.25, T:0.20
Consensus pattern (45 bp):
CAAGTCTCATCTCCCTGAAGTTACAGCGGAGCAGACTGAAGATAG
Found at i:43379453 original size:45 final size:45
Alignment explanation
Indices: 43379340--43379446 Score: 151
Period size: 45 Copynumber: 2.4 Consensus size: 45
43379330 CACAAGTCTT
* *
43379340 ATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGATAGCAAGTCTC
1 ATCTCCCTAAAGTTGCAGCGGAGCAGACTGAAGATAGCAAATCTC
* * *
43379385 ATCTCCCTGAAGTTACAGCGGAGCAGACTGAAGATAGCAAATCTT
1 ATCTCCCTAAAGTTGCAGCGGAGCAGACTGAAGATAGCAAATCTC
* *
43379430 ATTTCTCTAAAGTTGCA
1 ATCTCCCTAAAGTTGCA
43379447 AAGGAGCGGA
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 55 1.00
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.24
Consensus pattern (45 bp):
ATCTCCCTAAAGTTGCAGCGGAGCAGACTGAAGATAGCAAATCTC
Found at i:43383548 original size:27 final size:29
Alignment explanation
Indices: 43383512--43383570 Score: 95
Period size: 27 Copynumber: 2.1 Consensus size: 29
43383502 AATTTAAAAG
*
43383512 AAATATAAAAAATATTTTTAA-A-TTTAA
1 AAATATAAAAAATATTTTAAATATTTTAA
43383539 AAATATAAAAAATATTTTAAATATTTTAA
1 AAATATAAAAAATATTTTAAATATTTTAA
43383568 AAA
1 AAA
43383571 AATTAATTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 20 0.69
28 1 0.03
29 8 0.28
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (29 bp):
AAATATAAAAAATATTTTAAATATTTTAA
Found at i:43383801 original size:27 final size:27
Alignment explanation
Indices: 43383763--43383817 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
43383753 CAAAAGCTAG
43383763 TAATGGAGAAAAACATTGGTTTTTTTT
1 TAATGGAGAAAAACATTGGTTTTTTTT
43383790 TAATGGAGAAAAACATTGGTTTTTTTT
1 TAATGGAGAAAAACATTGGTTTTTTTT
43383817 T
1 T
43383818 TACTTCTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.33, C:0.04, G:0.18, T:0.45
Consensus pattern (27 bp):
TAATGGAGAAAAACATTGGTTTTTTTT
Found at i:43387166 original size:25 final size:25
Alignment explanation
Indices: 43387102--43387176 Score: 82
Period size: 24 Copynumber: 3.0 Consensus size: 25
43387092 ATTTGAAATG
*
43387102 TATATTTGAAATACTTTATAATATA
1 TATATTTGAAATATTTTATAATATA
* *
43387127 TAT-TTTTAAAAATTTTA-AATATA
1 TATATTTGAAATATTTTATAATATA
* *
43387150 TATATTTGAAATTATTTTTTAAAATA
1 TATATTTGAAA-TATTTTATAATATA
43387176 T
1 T
43387177 TAAATATATT
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
23 9 0.22
24 17 0.43
25 8 0.20
26 6 0.15
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (25 bp):
TATATTTGAAATATTTTATAATATA
Found at i:43387187 original size:21 final size:20
Alignment explanation
Indices: 43387158--43387197 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
43387148 TATATATTTG
43387158 AAATTATTTTTTAA-AATATT
1 AAATTA-TTTTTAATAATATT
43387178 AAATATATTTTTAATAATAT
1 AAAT-TATTTTTAATAATAT
43387198 AAAACATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
AAATTATTTTTAATAATATT
Found at i:43387206 original size:19 final size:20
Alignment explanation
Indices: 43387165--43387206 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
43387155 TTGAAATTAT
*
43387165 TTTTTAAAATATTAAATATA
1 TTTTTAAAATATTAAATACA
43387185 TTTTTAATAATA-TAAA-ACA
1 TTTTTAA-AATATTAAATACA
43387204 TTT
1 TTT
43387207 AAATATTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 5 0.25
20 11 0.55
21 4 0.20
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (20 bp):
TTTTTAAAATATTAAATACA
Found at i:43387271 original size:129 final size:128
Alignment explanation
Indices: 43387138--43387406 Score: 312
Period size: 129 Copynumber: 2.1 Consensus size: 128
43387128 ATTTTTAAAA
* *
43387138 ATTTTAAATATATATA-TTTGAAATTATTTTTTA-AAATATTAAATATATTTTTAATAATATAAA
1 ATTTTAAATATAAATATTTTGAAATT-TGTTTTATAAATATTAAA-ATATTTTTAATAATATAAA
* *
43387201 ACAT-TTAAATATTTTAAAGATATGATCTTTCAAATTTATTATTAG-TTTATAGTATTTTAAATG
64 ACATATT--AT-TTTTAAAGATATGACCTTTCAAATTTATTATTAGTTTTATAATATTTTAAATG
43387264 TAT
126 TAT
* ** * * * ** *
43387267 ATTTTAAATTTTAAATATTTTTTAATTTGTTTTATAATTTTTTAAATATTTTTAATTTTTTAAAA
1 ATTTTAAA-TATAAATATTTTGAAATTTGTTTTATAAATATTAAAATATTTTTAATAATATAAAA
* * *
43387332 TATATTATTTTTAAAGATATGACCTTTCAAATTTATTATTTGTTTTATAATATTTTTAATGTAT
65 CATATTATTTTTAAAGATATGACCTTTCAAATTTATTATTAGTTTTATAATATTTTAAATGTAT
43387396 ATTTTAAATAT
1 ATTTTAAATAT
43387407 TTTTAAATTT
Statistics
Matches: 118, Mismatches: 17, Indels: 11
0.81 0.12 0.08
Matches are distributed among these distances:
128 34 0.29
129 37 0.31
130 31 0.26
131 16 0.14
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (128 bp):
ATTTTAAATATAAATATTTTGAAATTTGTTTTATAAATATTAAAATATTTTTAATAATATAAAAC
ATATTATTTTTAAAGATATGACCTTTCAAATTTATTATTAGTTTTATAATATTTTAAATGTAT
Found at i:43387343 original size:18 final size:18
Alignment explanation
Indices: 43387301--43387343 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
43387291 ATTTGTTTTA
*
43387301 TAATTTTTTAAATATTTT
1 TAATTTTTTAAATATTAT
43387319 TAATTTTTTAAA-ATATAT
1 TAATTTTTTAAATAT-TAT
43387337 T-ATTTTT
1 TAATTTTT
43387344 AAAGATATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TAATTTTTTAAATATTAT
Found at i:43387429 original size:12 final size:13
Alignment explanation
Indices: 43387412--43387461 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 13
43387402 AATATTTTTA
43387412 AATTTTAAATA-T
1 AATTTTAAATATT
43387424 AATTTTTATAAATTATT
1 AA--TTT-TAAA-TATT
43387441 AATTTTAAA-ATT
1 AATTTTAAATATT
43387453 AATTTTAAA
1 AATTTTAAA
43387462 AATATTCAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
12 14 0.42
14 7 0.21
15 7 0.21
16 2 0.06
17 3 0.09
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AATTTTAAATATT
Found at i:43387431 original size:30 final size:29
Alignment explanation
Indices: 43387397--43387467 Score: 74
Period size: 30 Copynumber: 2.4 Consensus size: 29
43387387 TTAATGTATA
*
43387397 TTTTAAATATTTTTAAATTTT-AAATATAAT
1 TTTTAAATATTATT-AATTTTAAAAT-TAAT
43387427 TTTTATAA-ATTATTAATTTTAAAATTAAT
1 TTTTA-AATATTATTAATTTTAAAATTAAT
*
43387456 TTTAAAAATATT
1 TTT-TAAATATT
43387468 CAAATGTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
29 15 0.43
30 18 0.51
31 2 0.06
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (29 bp):
TTTTAAATATTATTAATTTTAAAATTAAT
Found at i:43390761 original size:30 final size:28
Alignment explanation
Indices: 43390725--43390820 Score: 95
Period size: 30 Copynumber: 3.2 Consensus size: 28
43390715 TTTGGGTGAA
43390725 ATGAACTCGAACCGCCTATGTGCGGATGAT
1 ATGAACTCGAACCGCC-ATGT-CGGATGAT
43390755 ATGAACTCGAACCGTCCATGTCAGG-TGAT
1 ATGAACTCGAACCG-CCATGTC-GGATGAT
* * * *
43390784 GTGAACTTGAACTGCCAATGTCTGAGTGAT
1 ATGAACTCGAACCGCC-ATGTCGGA-TGAT
43390814 ATGAACT
1 ATGAACT
43390821 ACTCTGCGAC
Statistics
Matches: 56, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
28 3 0.05
29 21 0.38
30 30 0.54
31 2 0.04
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (28 bp):
ATGAACTCGAACCGCCATGTCGGATGAT
Found at i:43393066 original size:17 final size:16
Alignment explanation
Indices: 43393044--43393113 Score: 77
Period size: 17 Copynumber: 4.1 Consensus size: 16
43393034 CAATATTTTC
43393044 TTTTAACATATTTAAAA
1 TTTTAA-ATATTTAAAA
43393061 TTTTAATATATTTAAAA
1 TTTTAA-ATATTTAAAA
* *
43393078 TTTTAAAGTTTTTTTAAA
1 TTTTAAA--TATTTAAAA
43393096 TTTTAAATATATTAAAA
1 TTTTAAATAT-TTAAAA
43393113 T
1 T
43393114 ATCTTTTTTC
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
16 3 0.07
17 28 0.62
18 14 0.31
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (16 bp):
TTTTAAATATTTAAAA
Found at i:43393074 original size:9 final size:9
Alignment explanation
Indices: 43393045--43393115 Score: 51
Period size: 9 Copynumber: 8.1 Consensus size: 9
43393035 AATATTTTCT
*
43393045 TTTAACATA
1 TTTAAAATA
43393054 TTTAAAAT-
1 TTTAAAATA
*
43393062 TTTAATATA
1 TTTAAAATA
43393071 TTTAAAAT-
1 TTTAAAATA
* *
43393079 TTTAAAGTTT
1 TTTAAA-ATA
*
43393089 TTTTAAAT-
1 TTTAAAATA
43393097 TTT-AAATA
1 TTTAAAATA
43393105 TATTAAAATA
1 T-TTAAAATA
43393115 T
1 T
43393116 CTTTTTTCTC
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
7 4 0.08
8 17 0.34
9 18 0.36
10 11 0.22
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (9 bp):
TTTAAAATA
Found at i:43393276 original size:71 final size:71
Alignment explanation
Indices: 43393179--43393322 Score: 225
Period size: 71 Copynumber: 2.0 Consensus size: 71
43393169 ATATTTTTAA
* *
43393179 AAAATATATTGAATATATTAAAATTTTAAAATTAGTTATACTTAACATTTTTTAATATATTTAAA
1 AAAATATACTAAATATATTAAAATTTTAAAATTAGTTATACTTAACATTTTTTAATATATTTAAA
43393244 ATTTTT
66 ATTTTT
* * * *
43393250 AAAATATACTAAATATATTAACATTTTAAAATTGGTTGTACTTAATATTTTTTAATATATTTAAA
1 AAAATATACTAAATATATTAAAATTTTAAAATTAGTTATACTTAACATTTTTTAATATATTTAAA
*
43393315 TTTTTT
66 ATTTTT
43393321 AA
1 AA
43393323 GTTTTTAAAA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 66 1.00
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.49
Consensus pattern (71 bp):
AAAATATACTAAATATATTAAAATTTTAAAATTAGTTATACTTAACATTTTTTAATATATTTAAA
ATTTTT
Found at i:43393446 original size:17 final size:17
Alignment explanation
Indices: 43393421--43393459 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
43393411 AAAATATATA
* * *
43393421 TTAAGTATATTAAAGTT
1 TTAAATATACTAAACTT
43393438 TTAAATATACTAAACTT
1 TTAAATATACTAAACTT
43393455 TTAAA
1 TTAAA
43393460 ATTAATTATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (17 bp):
TTAAATATACTAAACTT
Found at i:43393494 original size:20 final size:21
Alignment explanation
Indices: 43393461--43393500 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
43393451 ACTTTTAAAA
*
43393461 TTAATTATACTTAACATTTTT
1 TTAATTATACTTAAAATTTTT
*
43393482 TTAA-TATATTTAAAATTTT
1 TTAATTATACTTAAAATTTT
43393501 AGAAAACTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (21 bp):
TTAATTATACTTAAAATTTTT
Found at i:43398104 original size:3 final size:3
Alignment explanation
Indices: 43398008--43398084 Score: 50
Period size: 3 Copynumber: 25.7 Consensus size: 3
43397998 GAATATAAGT
* * * * * * *
43398008 ATA ATA ATA ATA GTA ATA AT- ATA ATA ATG ACA ATA GTG ACA AAA AGTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA
*
43398056 ACA ATA ATA ATA ATA AT- ATCA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA AT
43398085 GATGATGATG
Statistics
Matches: 55, Mismatches: 15, Indels: 8
0.71 0.19 0.10
Matches are distributed among these distances:
2 4 0.07
3 47 0.85
4 4 0.07
ACGTcount: A:0.60, C:0.05, G:0.06, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:43399099 original size:18 final size:17
Alignment explanation
Indices: 43399072--43399118 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
43399062 AGAGAAAGAA
*
43399072 AAAAATAAAAGA-AAAT
1 AAAAATAAAAAACAAAT
43399088 ACAAAATAAAAAACTAAAT
1 A-AAAATAAAAAAC-AAAT
43399107 AAAAATAAAAAA
1 AAAAATAAAAAA
43399119 GAACCAAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
16 1 0.04
17 10 0.37
18 11 0.41
19 5 0.19
ACGTcount: A:0.81, C:0.04, G:0.02, T:0.13
Consensus pattern (17 bp):
AAAAATAAAAAACAAAT
Found at i:43399105 original size:25 final size:25
Alignment explanation
Indices: 43399070--43399118 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
43399060 GAAGAGAAAG
*
43399070 AAAAAAATAAA-AGAAAATACAAAAT
1 AAAAAAATAAATA-AAAATAAAAAAT
*
43399095 AAAAAACTAAATAAAAATAAAAAA
1 AAAAAAATAAATAAAAATAAAAAA
43399119 GAACCAAGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 20 0.95
26 1 0.05
ACGTcount: A:0.82, C:0.04, G:0.02, T:0.12
Consensus pattern (25 bp):
AAAAAAATAAATAAAAATAAAAAAT
Found at i:43399127 original size:7 final size:7
Alignment explanation
Indices: 43399117--43399150 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
43399107 AAAAATAAAA
43399117 AAGAACC
1 AAGAACC
43399124 AAGAACC
1 AAGAACC
43399131 AAGAACC
1 AAGAACC
43399138 AAGAACC
1 AAGAACC
43399145 AAGAAC
1 AAGAAC
43399151 ACCTTTTAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.59, C:0.26, G:0.15, T:0.00
Consensus pattern (7 bp):
AAGAACC
Found at i:43399999 original size:44 final size:44
Alignment explanation
Indices: 43399942--43400253 Score: 237
Period size: 44 Copynumber: 7.2 Consensus size: 44
43399932 TAAATTTAGC
43399942 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTTGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTTGAT
* * ** ** * *
43399986 CTGTTTCCCTACTGCTTAGGGCGTTAA-GATC-T-GTAAATTCAGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGT-CTTTGA-T
*
43400029 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTTGAT
* * * ** ** * *
43400073 CTGTTTCCCTACTGCTTAGGGAGCTAA-GATC-T-GTAAATTCAG
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGT-CTTTGAT
43400115 CTTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTTGAT
1 C-TGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTTGAT
* * * * ** ** * *
43400160 CTCTTTCCTTACTGCTTAGGGGGCTAA-GATC-T-GTAAATTCAGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGT-CTTTGA-T
* *
43400203 CTGTTACTCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTTGAT
43400247 CTGTTAC
1 CTGTTAC
43400254 ACCATTCTTT
Statistics
Matches: 195, Mismatches: 58, Indels: 30
0.69 0.20 0.11
Matches are distributed among these distances:
41 6 0.03
42 12 0.06
43 76 0.39
44 84 0.43
45 11 0.06
46 6 0.03
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (44 bp):
CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTTGAT
Found at i:43400014 original size:87 final size:86
Alignment explanation
Indices: 43399913--43400251 Score: 561
Period size: 87 Copynumber: 3.9 Consensus size: 86
43399903 TACCTTGCTA
* *
43399913 CTTAGAGGGTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCG
1 CTTAG-GGGCTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCG
*
43399978 TCTTTGATCTGTTTCCCTACTG
65 TCTTCGATCTGTTTCCCTACTG
*
43400000 CTTAGGGCGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCG
1 CTTAGGG-GCTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCG
43400065 TCTTCGATCTGTTTCCCTACTG
65 TCTTCGATCTGTTTCCCTACTG
*
43400087 CTTAGGGAGCTAAGATCTGTAAATTCAGCTTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCG
1 CTTAGGG-GCTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCG
* * *
43400152 TCTTTGATCTCTTTCCTTACTG
65 TCTTCGATCTGTTTCCCTACTG
*
43400174 CTTAGGGGGCTAAGATCTGTAAATTCAGCCTGTTACTCTACTGCTTAGGGGGTTAAGGCCCTTCG
1 CTTA-GGGGCTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCG
43400239 TCTTCGATCTGTT
65 TCTTCGATCTGTT
43400252 ACACCATTCT
Statistics
Matches: 238, Mismatches: 12, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
86 2 0.01
87 233 0.98
88 3 0.01
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (86 bp):
CTTAGGGGCTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGT
CTTCGATCTGTTTCCCTACTG
Found at i:43400047 original size:43 final size:43
Alignment explanation
Indices: 43399895--43400230 Score: 247
Period size: 43 Copynumber: 7.7 Consensus size: 43
43399885 ATTTGATTTC
* * * *
43399895 CAGCCTGTTACCTTGCTACTTAGAGGGTTAAGATCTGTAAATT
1 CAGCCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATT
* ** **
43399938 TAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGT-CTTT
1 CAGCCTGTTACCCTACTGCTTAGGGGGTTAA-GATC-T-GTAAATT
* * * *
43399983 GA-TCTGTTTCCCTACTGCTTAGGGCGTTAAGATCTGTAAATT
1 CAGCCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATT
** *
43400025 CAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGT--CTT
1 CAGCCTGTTACCCTACTGCTTAGGGGGTTAA-GATC-T-GTAAATT
* * * *
43400069 C-GATCTGTTTCCCTACTGCTTAGGGAGCTAAGATCTGTAAATT
1 CAG-CCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATT
* ** **
43400112 CAGCTTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGT-CTTT
1 CAGCCTGTTACCCTACTGCTTAGGGGGTTAA-GATC-T-GTAAATT
* * * *
43400157 GATCTCT-TT-CCTTACTGCTTAGGGGGCTAAGATCTGTAAATT
1 CAGC-CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATT
*
43400199 CAGCCTGTTACTCTACTGCTTAGGGGGTTAAG
1 CAGCCTGTTACCCTACTGCTTAGGGGGTTAAG
43400231 GCCCTTCGTC
Statistics
Matches: 220, Mismatches: 54, Indels: 38
0.71 0.17 0.12
Matches are distributed among these distances:
41 8 0.04
42 12 0.05
43 103 0.47
44 78 0.35
45 12 0.05
46 7 0.03
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (43 bp):
CAGCCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATT
Found at i:43408340 original size:19 final size:20
Alignment explanation
Indices: 43408312--43408353 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
43408302 GTCTTTTCGC
* *
43408312 GAAATTTAATGCACATG-AT
1 GAAATGTAATGCAAATGAAT
43408331 GAAATGTAATGCAAATGAAT
1 GAAATGTAATGCAAATGAAT
43408351 GAA
1 GAA
43408354 TACAAAAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.48, C:0.07, G:0.19, T:0.26
Consensus pattern (20 bp):
GAAATGTAATGCAAATGAAT
Found at i:43413099 original size:3 final size:3
Alignment explanation
Indices: 43413091--43413178 Score: 63
Period size: 3 Copynumber: 29.3 Consensus size: 3
43413081 AATATAAGTT
* * * * * * *
43413091 TAA TAA TAA TAG TAA TAA T-A TAA TAA TGA CAA TAG TGA CAA AAA GTAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA
* *
43413139 CAA TAA TAA AAA TAA TAA TAA TAA TAA T-A TCAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA T
43413179 GATGATGATG
Statistics
Matches: 64, Mismatches: 17, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
2 4 0.06
3 56 0.88
4 4 0.06
ACGTcount: A:0.61, C:0.05, G:0.06, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:43414196 original size:19 final size:17
Alignment explanation
Indices: 43414173--43414224 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 17
43414163 GAAGAGAAAG
43414173 AAAAAAATAAAAGAAAAT
1 AAAAAAA-AAAAGAAAAT
43414191 ACAAAAAAAAAA-ACTAAAT
1 A-AAAAAAAAAAGA--AAAT
43414210 AAAAATAAAAAAGAA
1 AAAAA-AAAAAAGAA
43414225 CCAAGAACAC
Statistics
Matches: 29, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
17 1 0.03
18 10 0.34
19 17 0.59
20 1 0.03
ACGTcount: A:0.83, C:0.04, G:0.04, T:0.10
Consensus pattern (17 bp):
AAAAAAAAAAAGAAAAT
Found at i:43414208 original size:25 final size:23
Alignment explanation
Indices: 43414173--43414221 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 23
43414163 GAAGAGAAAG
43414173 AAAAAAATAAA-AGAAAATACAAAA
1 AAAAAAATAAATA-AAAATA-AAAA
43414197 AAAAAAACTAAATAAAAATAAAAA
1 AAAAAAA-TAAATAAAAATAAAAA
43414221 A
1 A
43414222 GAACCAAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 12 0.52
25 10 0.43
26 1 0.04
ACGTcount: A:0.84, C:0.04, G:0.02, T:0.10
Consensus pattern (23 bp):
AAAAAAATAAATAAAAATAAAAA
Found at i:43415384 original size:26 final size:26
Alignment explanation
Indices: 43415348--43415428 Score: 144
Period size: 26 Copynumber: 3.1 Consensus size: 26
43415338 TACAAATTGC
* *
43415348 TAATAGGTTAGGTAAATGTTCCATGA
1 TAATGGGTTAGGTAAATGTTTCATGA
43415374 TAATGGGTTAGGTAAATGTTTCATGA
1 TAATGGGTTAGGTAAATGTTTCATGA
43415400 TAATGGGTTAGGTAAATGTTTCATGA
1 TAATGGGTTAGGTAAATGTTTCATGA
43415426 TAA
1 TAA
43415429 GAATTTCATG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TAATGGGTTAGGTAAATGTTTCATGA
Found at i:43418579 original size:32 final size:32
Alignment explanation
Indices: 43418512--43418571 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
43418502 AATGCTACAC
* * *
43418512 AAAACAAATTTCCTTATCTTTATTTAAAGAAA
1 AAAACAAATTTCCTCATCTTTATTAAAACAAA
43418544 AAAACAAATTTCCTCATC-TT-TTAAAACA
1 AAAACAAATTTCCTCATCTTTATTAAAACA
43418572 CCAAAAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 6 0.24
31 2 0.08
32 17 0.68
ACGTcount: A:0.47, C:0.17, G:0.02, T:0.35
Consensus pattern (32 bp):
AAAACAAATTTCCTCATCTTTATTAAAACAAA
Found at i:43421582 original size:53 final size:54
Alignment explanation
Indices: 43421505--43421620 Score: 130
Period size: 53 Copynumber: 2.2 Consensus size: 54
43421495 ACAATGGCTC
* * * **
43421505 ACACGATCTGTCACATGGCCTGACACACGA-CC-TGTGACCCATGTTAA-AGAGTT
1 ACACGGTCTGGCACACGGCCTGACACAC-ACCCGTGTGACCCA-ACTAAGAGAGTT
* *
43421558 ACACGGTCTGGCACACGGCTTGACACACACCCGTGTGACTCAACTAAGAGAGTT
1 ACACGGTCTGGCACACGGCCTGACACACACCCGTGTGACCCAACTAAGAGAGTT
43421612 ACACGGTCT
1 ACACGGTCT
43421621 AAACATACGC
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
52 1 0.02
53 29 0.55
54 23 0.43
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (54 bp):
ACACGGTCTGGCACACGGCCTGACACACACCCGTGTGACCCAACTAAGAGAGTT
Found at i:43427317 original size:73 final size:73
Alignment explanation
Indices: 43427237--43427374 Score: 231
Period size: 73 Copynumber: 1.9 Consensus size: 73
43427227 ATCTCCTATA
*
43427237 TATCGATACCAATTTGAGCTTAGAAGTTTTAGAAAAATTAAGCAAAAATCAAAAGTATCGATACC
1 TATCGATACCAATTTGAGCTTAGAAGTTTTAGAAAAATTAAGCAAAAATAAAAAGTATCGATACC
43427302 TTGCCTGG
66 TTGCCTGG
* * * *
43427310 TATCGATACCAATTTGAGTTTCGAAGTTTTAGGAAAATTGAGCAAAAATAAAAAGTATCGATACC
1 TATCGATACCAATTTGAGCTTAGAAGTTTTAGAAAAATTAAGCAAAAATAAAAAGTATCGATACC
43427375 GTTAATAAAG
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
73 60 1.00
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.29
Consensus pattern (73 bp):
TATCGATACCAATTTGAGCTTAGAAGTTTTAGAAAAATTAAGCAAAAATAAAAAGTATCGATACC
TTGCCTGG
Found at i:43435491 original size:444 final size:444
Alignment explanation
Indices: 43434662--43435548 Score: 1738
Period size: 444 Copynumber: 2.0 Consensus size: 444
43434652 AGGTTTTGGT
43434662 TATGAGTTTTTATGCCATTAGTATGATTGTCTTCAAAGGTGTTATAGGTTTGATTTGGCGTAAAG
1 TATGAGTTTTTATGCCATTAGTATGATTGTCTTCAAAGGTGTTATAGGTTTGATTTGGCGTAAAG
43434727 TGGCATGAGTTTGAATTGGTAATACTGGCATTGGATGCATGAAAATTTTACCAAATGGGACTTTT
66 TGGCATGAGTTTGAATTGGTAATACTGGCATTGGATGCATGAAAATTTTACCAAATGGGACTTTT
*
43434792 ACCAAAACAAGGGTGATGTCACGACCATCTGTACCCAATGTTGTGACATAGATCGACAGTGAGTG
131 ACCAAAACAAGGGTGATGTCACGACCATCTGTACCCAATATTGTGACATAGATCGACAGTGAGTG
43434857 GCGTTATAAAGTTGAGACTTTTAAAGTCGTAAAGTAACCCATTGACAGATGATGTCATGACAAGA
196 GCGTTATAAAGTTGAGACTTTTAAAGTCGTAAAGTAACCCATTGACAGATGATGTCATGACAAGA
43434922 AAACTCTAATGTGGTGACATCAACTTGCAAGTTTTGAAAGCTTTTCAATTAAGTTCTTATCCGAC
261 AAACTCTAATGTGGTGACATCAACTTGCAAGTTTTGAAAGCTTTTCAATTAAGTTCTTATCCGAC
*
43434987 CTCAGGTTAGTAAAAGAGCTTTCATAAGCTCATATAAGACTTGAAAATGATTTTATATTTTATTA
326 CTCAGGTTAGTAAAAGAGCTTTCATAAGCTCATATAAGACTCGAAAATGATTTTATATTTTATTA
43435052 ATGTGTTTTATACCTGAAAGCATGTTGACTTGATTAACATGTATTGAAAGTTGC
391 ATGTGTTTTATACCTGAAAGCATGTTGACTTGATTAACATGTATTGAAAGTTGC
43435106 TATGAGTTTTTATGCCATTAGTATGATTGTCTTCAAAGGTGTTATAGGTTTGATTTGGCGTAAAG
1 TATGAGTTTTTATGCCATTAGTATGATTGTCTTCAAAGGTGTTATAGGTTTGATTTGGCGTAAAG
*
43435171 TGGCATGAGTTTGAATTGGTAATACTGGCATTGGATGCATGAAAATTTTACTAAATGGGACTTTT
66 TGGCATGAGTTTGAATTGGTAATACTGGCATTGGATGCATGAAAATTTTACCAAATGGGACTTTT
*
43435236 ACCAAAACAAGGGTGATGTCACGACCATCTGTACCCAATATTGTGACATAGATCGATAGTGAGTG
131 ACCAAAACAAGGGTGATGTCACGACCATCTGTACCCAATATTGTGACATAGATCGACAGTGAGTG
43435301 GCGTTATAAAGTTGAGACTTTTAAAGTCGTAAAGTAACCCATTGACAGATGATGTCATGACAAGA
196 GCGTTATAAAGTTGAGACTTTTAAAGTCGTAAAGTAACCCATTGACAGATGATGTCATGACAAGA
43435366 AAACTCTAATGTGGTGACATCAACTTGCAAGTTTTGAAAGCTTTTCAATTAAGTTCTTATCCGAC
261 AAACTCTAATGTGGTGACATCAACTTGCAAGTTTTGAAAGCTTTTCAATTAAGTTCTTATCCGAC
43435431 CTCAGGTTAGTAAAAGAGCTTTCATAAGCTCATATAAGACTCGAAAATGATTTTATATTTTATTA
326 CTCAGGTTAGTAAAAGAGCTTTCATAAGCTCATATAAGACTCGAAAATGATTTTATATTTTATTA
43435496 ATGTGTTTTATACCTGAAAGCATGTTGACTTGATTAACATGTATTGAAAGTTG
391 ATGTGTTTTATACCTGAAAGCATGTTGACTTGATTAACATGTATTGAAAGTTG
43435549 TTGTTATTGC
Statistics
Matches: 439, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
444 439 1.00
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (444 bp):
TATGAGTTTTTATGCCATTAGTATGATTGTCTTCAAAGGTGTTATAGGTTTGATTTGGCGTAAAG
TGGCATGAGTTTGAATTGGTAATACTGGCATTGGATGCATGAAAATTTTACCAAATGGGACTTTT
ACCAAAACAAGGGTGATGTCACGACCATCTGTACCCAATATTGTGACATAGATCGACAGTGAGTG
GCGTTATAAAGTTGAGACTTTTAAAGTCGTAAAGTAACCCATTGACAGATGATGTCATGACAAGA
AAACTCTAATGTGGTGACATCAACTTGCAAGTTTTGAAAGCTTTTCAATTAAGTTCTTATCCGAC
CTCAGGTTAGTAAAAGAGCTTTCATAAGCTCATATAAGACTCGAAAATGATTTTATATTTTATTA
ATGTGTTTTATACCTGAAAGCATGTTGACTTGATTAACATGTATTGAAAGTTGC
Found at i:43439788 original size:20 final size:19
Alignment explanation
Indices: 43439760--43439797 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
43439750 TTTTAAAGAC
*
43439760 TTTACTTTATTTTTATTTG
1 TTTACTTTATCTTTATTTG
43439779 TTTACTTTTATCTTTATTT
1 TTTAC-TTTATCTTTATTT
43439798 ACCTTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.16, C:0.08, G:0.03, T:0.74
Consensus pattern (19 bp):
TTTACTTTATCTTTATTTG
Found at i:43452748 original size:45 final size:45
Alignment explanation
Indices: 43452661--43452756 Score: 122
Period size: 45 Copynumber: 2.1 Consensus size: 45
43452651 TTCAATCATG
* * * *
43452661 GTCTTATTCTTCTGATTCATGATGCCATATCGCCTTTTAGCTATA
1 GTCTTATTCTTCTGAATCATGATGCCATAACACCTTTCAGCTATA
* *
43452706 GTCTTATTCTT-TAGAATCATGATGCCATAACATCTTTCAGCTATG
1 GTCTTATTCTTCT-GAATCATGATGCCATAACACCTTTCAGCTATA
43452751 GTCTTA
1 GTCTTA
43452757 CTCATTTCCG
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
44 1 0.02
45 43 0.98
ACGTcount: A:0.23, C:0.21, G:0.14, T:0.43
Consensus pattern (45 bp):
GTCTTATTCTTCTGAATCATGATGCCATAACACCTTTCAGCTATA
Found at i:43452818 original size:37 final size:37
Alignment explanation
Indices: 43452767--43452838 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
43452757 CTCATTTCCG
*
43452767 GTATAATGCCATAGTTTCTTTCAACTATAGTCTTACT
1 GTATAATGCCATAGTGTCTTTCAACTATAGTCTTACT
* * *
43452804 GTATACTGCTATAGTGTCTTTCAACTATGGTCTTA
1 GTATAATGCCATAGTGTCTTTCAACTATAGTCTTA
43452839 TTCGTTTCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.25, C:0.18, G:0.14, T:0.43
Consensus pattern (37 bp):
GTATAATGCCATAGTGTCTTTCAACTATAGTCTTACT
Found at i:43454132 original size:77 final size:77
Alignment explanation
Indices: 43454040--43454193 Score: 299
Period size: 77 Copynumber: 2.0 Consensus size: 77
43454030 TGTCTCAAGA
*
43454040 ACATAAAAATCATGAAAAATAATTGAGAAATGGACTTCAATGCAAAACAAAATCAAAACCGAAGC
1 ACATAAAAATCATGAAAAATAATTGAGAAATGGACTTAAATGCAAAACAAAATCAAAACCGAAGC
43454105 TCCCTCAAGCTT
66 TCCCTCAAGCTT
43454117 ACATAAAAATCATGAAAAATAATTGAGAAATGGACTTAAATGCAAAACAAAATCAAAACCGAAGC
1 ACATAAAAATCATGAAAAATAATTGAGAAATGGACTTAAATGCAAAACAAAATCAAAACCGAAGC
43454182 TCCCTCAAGCTT
66 TCCCTCAAGCTT
43454194 GTGAATGGTG
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 76 1.00
ACGTcount: A:0.50, C:0.19, G:0.12, T:0.19
Consensus pattern (77 bp):
ACATAAAAATCATGAAAAATAATTGAGAAATGGACTTAAATGCAAAACAAAATCAAAACCGAAGC
TCCCTCAAGCTT
Found at i:43475699 original size:13 final size:12
Alignment explanation
Indices: 43475681--43475719 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
43475671 TTAATTTTTC
43475681 TTATTATTATTT
1 TTATTATTATTT
43475693 ATTATTATTATTT
1 -TTATTATTATTT
**
43475706 TTATGGTTATTT
1 TTATTATTATTT
43475718 TT
1 TT
43475720 CTTTTGCATG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 12 0.50
13 12 0.50
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (12 bp):
TTATTATTATTT
Found at i:43479935 original size:60 final size:58
Alignment explanation
Indices: 43479834--43480008 Score: 185
Period size: 60 Copynumber: 2.9 Consensus size: 58
43479824 TTTCGGAAAC
* * *
43479834 CACACAGCCGTGTGACTGATTTGGGCAATTAAGGCTTCCACATGGGCGTGTGTTATGAGA
1 CACACAGCCGTGTAACTAATTTGGG-AATT-AGGGTTCCACATGGGCGTGTGTTATGAGA
* *
43479894 CACACAGCCGTGTAACTAATTTGGGAAATTAGGGTTCCCACATGGGCGTGTGCTT-CGGGA
1 CACACAGCCGTGTAACTAATTTGGG-AATTAGGGTT-CCACATGGGCGTGTG-TTATGAGA
* * *
43479954 CACAC-GACCGTGTAACTAATTTGGG-GTCTAGGGATACCACATGGACGTGTGTTAT
1 CACACAG-CCGTGTAACTAATTTGGGAAT-TAGGG-TTCCACATGGGCGTGTGTTAT
43480009 AGGATACATG
Statistics
Matches: 99, Mismatches: 10, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
58 3 0.03
59 25 0.25
60 69 0.70
61 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (58 bp):
CACACAGCCGTGTAACTAATTTGGGAATTAGGGTTCCACATGGGCGTGTGTTATGAGA
Found at i:43480533 original size:14 final size:14
Alignment explanation
Indices: 43480514--43480549 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
43480504 AGTTGGTGCT
*
43480514 TTTGCATTCATACA
1 TTTGCATACATACA
*
43480528 TTTGCATACATCCA
1 TTTGCATACATACA
43480542 TTTGCATA
1 TTTGCATA
43480550 AACTTTCTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.28, C:0.22, G:0.08, T:0.42
Consensus pattern (14 bp):
TTTGCATACATACA
Found at i:43487526 original size:22 final size:20
Alignment explanation
Indices: 43487473--43487528 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 20
43487463 TCCAATACCA
*
43487473 AATCATAGTCAAATCATTTCG
1 AATCAT-GTCGAATCATTTCG
*
43487494 AATTACTGTCGAATCATTTTCG
1 AATCA-TGTCGAATCA-TTTCG
43487516 AATCATGGTCGAA
1 AATCAT-GTCGAA
43487529 AGAGCCTGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 13 0.45
22 16 0.55
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (20 bp):
AATCATGTCGAATCATTTCG
Found at i:43490308 original size:36 final size:36
Alignment explanation
Indices: 43490268--43490347 Score: 151
Period size: 36 Copynumber: 2.2 Consensus size: 36
43490258 TTAGAATTGA
43490268 ATGTTAATATTTTAAATTGATTAATTGTTCTATGTG
1 ATGTTAATATTTTAAATTGATTAATTGTTCTATGTG
*
43490304 ATGTTAATATTTTAAATTGATTAATTGTTTTATGTG
1 ATGTTAATATTTTAAATTGATTAATTGTTCTATGTG
43490340 ATGTTAAT
1 ATGTTAAT
43490348 TGTTTTAATT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 43 1.00
ACGTcount: A:0.31, C:0.01, G:0.14, T:0.54
Consensus pattern (36 bp):
ATGTTAATATTTTAAATTGATTAATTGTTCTATGTG
Found at i:43490348 original size:19 final size:19
Alignment explanation
Indices: 43490288--43490354 Score: 70
Period size: 19 Copynumber: 3.6 Consensus size: 19
43490278 TTTAAATTGA
*
43490288 TTAATTGTTCTATGTGATG
1 TTAATTGTTTTATGTGATG
*
43490307 TTAATAT-TTTAAAT-TGA--
1 TTAAT-TGTTT-TATGTGATG
43490324 TTAATTGTTTTATGTGATG
1 TTAATTGTTTTATGTGATG
43490343 TTAATTGTTTTA
1 TTAATTGTTTTA
43490355 ATTTGTACTA
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
16 3 0.08
17 11 0.28
19 22 0.56
20 3 0.08
ACGTcount: A:0.27, C:0.01, G:0.15, T:0.57
Consensus pattern (19 bp):
TTAATTGTTTTATGTGATG
Found at i:43497110 original size:24 final size:24
Alignment explanation
Indices: 43497083--43497139 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
43497073 GAAACTAGTA
43497083 GAGCAAGA-TCAGAGGGAGCTGGTG
1 GAGCAAGAGTCAGAGGG-GCTGGTG
* * **
43497107 GAGCAGGAGTTATTGGGGCTGGTG
1 GAGCAAGAGTCAGAGGGGCTGGTG
43497131 GAGCAAGAG
1 GAGCAAGAG
43497140 CTGTTGGAGC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 22 0.81
25 5 0.19
ACGTcount: A:0.26, C:0.11, G:0.47, T:0.16
Consensus pattern (24 bp):
GAGCAAGAGTCAGAGGGGCTGGTG
Found at i:43497146 original size:24 final size:24
Alignment explanation
Indices: 43497100--43497146 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
43497090 ATCAGAGGGA
* *
43497100 GCTGGTGGAGCAGGAGTTATTGGG
1 GCTGGTGGAGCAAGAGCTATTGGG
*
43497124 GCTGGTGGAGCAAGAGCTGTTGG
1 GCTGGTGGAGCAAGAGCTATTGG
43497147 AGCTATTCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.17, C:0.11, G:0.49, T:0.23
Consensus pattern (24 bp):
GCTGGTGGAGCAAGAGCTATTGGG
Found at i:43497208 original size:24 final size:24
Alignment explanation
Indices: 43497168--43497214 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
43497158 CTGGTGGAGG
*
43497168 TGTATTCTACAAGTTAAACATGTC
1 TGTATTCTACAAATTAAACATGTC
43497192 TGTAGTTCT-CAAATTAAACATGT
1 TGTA-TTCTACAAATTAAACATGT
43497215 TTTGCATGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (24 bp):
TGTATTCTACAAATTAAACATGTC
Found at i:43502748 original size:20 final size:20
Alignment explanation
Indices: 43502679--43502755 Score: 66
Period size: 20 Copynumber: 3.9 Consensus size: 20
43502669 AAAGATGCGT
*
43502679 AACAGAGGCATCGAAGTGTA
1 AACAGAGGCATCGAAGTGCA
** * *
43502699 GGCAGAGGCA-CAAATGTTCA
1 AACAGAGGCATCGAA-GTGCA
* * *
43502719 ATCAGGGGCACCGAAGTGCA
1 AACAGAGGCATCGAAGTGCA
43502739 AACAGAGGCATCGAAGT
1 AACAGAGGCATCGAAGT
43502756 ACAATCCTGT
Statistics
Matches: 42, Mismatches: 13, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
19 3 0.07
20 36 0.86
21 3 0.07
ACGTcount: A:0.36, C:0.19, G:0.31, T:0.13
Consensus pattern (20 bp):
AACAGAGGCATCGAAGTGCA
Found at i:43505336 original size:34 final size:35
Alignment explanation
Indices: 43505292--43505359 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 35
43505282 CACACAGAAG
43505292 TTCACCCTTGAATCTTCCCTTCAGAAAACATCCAC
1 TTCACCCTTGAATCTTCCCTTCAGAAAACATCCAC
*
43505327 TTCA-CCTTGAATCTTCCCTTCAGAAAGCATCCA
1 TTCACCCTTGAATCTTCCCTTCAGAAAACATCCA
43505360 TCCAGACAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 28 0.88
35 4 0.12
ACGTcount: A:0.28, C:0.35, G:0.07, T:0.29
Consensus pattern (35 bp):
TTCACCCTTGAATCTTCCCTTCAGAAAACATCCAC
Found at i:43506857 original size:13 final size:13
Alignment explanation
Indices: 43506839--43506863 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43506829 ATAAACTGTA
43506839 ATATACATACATG
1 ATATACATACATG
43506852 ATATACATACAT
1 ATATACATACAT
43506864 ATTTTAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.16, G:0.04, T:0.32
Consensus pattern (13 bp):
ATATACATACATG
Found at i:43506904 original size:9 final size:9
Alignment explanation
Indices: 43506886--43507118 Score: 75
Period size: 9 Copynumber: 26.3 Consensus size: 9
43506876 GCTAAAGATG
43506886 ACAT-ACAT
1 ACATAACAT
43506894 ACATAACAT
1 ACATAACAT
*
43506903 ACATAATAT
1 ACATAACAT
43506912 ACAT-ACAT
1 ACATAACAT
*
43506920 AACAATAATAT
1 -AC-ATAACAT
43506931 AC---ACAT
1 ACATAACAT
43506937 A-ATAAACAT
1 ACAT-AACAT
43506946 ACAT-A-AT
1 ACATAACAT
* *
43506953 A-GTAATAT
1 ACATAACAT
43506961 ACATAACAT
1 ACATAACAT
* *
43506970 AAATAATAT
1 ACATAACAT
* *
43506979 ACAATAATAA
1 AC-ATAACAT
* *
43506989 ATAGTAATAT
1 ACA-TAACAT
*
43506999 AC--CACAT
1 ACATAACAT
43507006 AACA-AACAT
1 -ACATAACAT
43507015 ACATAAC--
1 ACATAACAT
*
43507022 A-ATAATAT
1 ACATAACAT
43507030 ACATAACAT
1 ACATAACAT
43507039 ACATAACAT
1 ACATAACAT
* * *
43507048 ACGTAATAA
1 ACATAACAT
*
43507057 ACAGTAATAT
1 ACA-TAACAT
43507067 ATCACGTAACAT
1 A-CA--TAACAT
43507079 ACAT-ACAT
1 ACATAACAT
*
43507087 AACAATAATAT
1 -AC-ATAACAT
*
43507098 ACATAAAAT
1 ACATAACAT
*
43507107 ATATAACAT
1 ACATAACAT
43507116 ACA
1 ACA
43507119 GTAATAAACA
Statistics
Matches: 169, Mismatches: 30, Indels: 51
0.68 0.12 0.20
Matches are distributed among these distances:
6 9 0.05
7 8 0.05
8 21 0.12
9 85 0.50
10 29 0.17
11 10 0.06
12 7 0.04
ACGTcount: A:0.57, C:0.16, G:0.02, T:0.25
Consensus pattern (9 bp):
ACATAACAT
Found at i:43506904 original size:13 final size:13
Alignment explanation
Indices: 43506886--43507048 Score: 68
Period size: 13 Copynumber: 12.0 Consensus size: 13
43506876 GCTAAAGATG
43506886 ACATACATACATA
1 ACATACATACATA
43506899 ACATACATA-ATA
1 ACATACATACATA
43506911 TACATACATAACAATA
1 -ACATACAT-AC-ATA
*
43506927 ATATAC--ACATA
1 ACATACATACATA
* *
43506938 ATAAACATACATA
1 ACATACATACATA
* *
43506951 ATAGTAATATACATA
1 ACA-T-ACATACATA
*
43506966 ACATAAATA-ATA
1 ACATACATACATA
*
43506978 TACAATA-ATAAATA
1 -AC-ATACATACATA
* *
43506992 GTA-ATATACCACATA
1 --ACATACA-TACATA
*
43507007 ACAAACATACATA
1 ACATACATACATA
*
43507020 ACAATAATATACATA
1 AC-AT-ACATACATA
43507035 ACATACATAACATA
1 ACATACAT-ACATA
43507049 CGTAATAAAC
Statistics
Matches: 118, Mismatches: 14, Indels: 35
0.71 0.08 0.21
Matches are distributed among these distances:
11 8 0.07
12 8 0.07
13 48 0.41
14 20 0.17
15 31 0.26
16 3 0.03
ACGTcount: A:0.58, C:0.16, G:0.01, T:0.25
Consensus pattern (13 bp):
ACATACATACATA
Found at i:43506971 original size:20 final size:20
Alignment explanation
Indices: 43506936--43507000 Score: 75
Period size: 19 Copynumber: 3.4 Consensus size: 20
43506926 AATATACACA
*
43506936 TAATAAACAT-ACATAATAG
1 TAATATACATAACATAATAG
43506955 TAATATACATAACATAA-A-
1 TAATATACATAACATAATAG
*
43506973 TAATATACAATAATA-AATAG
1 TAATATAC-ATAACATAATAG
43506993 TAATATAC
1 TAATATAC
43507001 CACATAACAA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
18 10 0.25
19 16 0.40
20 14 0.35
ACGTcount: A:0.58, C:0.09, G:0.03, T:0.29
Consensus pattern (20 bp):
TAATATACATAACATAATAG
Found at i:43507024 original size:41 final size:38
Alignment explanation
Indices: 43506950--43507134 Score: 113
Period size: 38 Copynumber: 5.0 Consensus size: 38
43506940 AAACATACAT
43506950 AATAGTAATATACATAACATAAATAATATACAATAATA
1 AATAGTAATATACATAACATAAATAATATACAATAATA
* *
43506988 AATAGTAATATAC--CACATAACA-AACATAC-AT-A-A
1 AATAGTAATATACATAACATAA-ATAATATACAATAATA
* * * *
43507021 CA-A-TAATATACATAACATACATAACATAC-GTAATA
1 AATAGTAATATACATAACATAAATAATATACAATAATA
* *
43507056 AACAGTAATATATCACGTAACATACATACATA-ACAATAATA
1 AATAGTAATATA-CA--TAACATAAATA-ATATACAATAATA
* * * * * *
43507097 TACA-TAAAATATATAACATACAGTAATAAACAATAATA
1 AATAGTAATATACATAACATA-AATAATATACAATAATA
43507135 TACCAAATTA
Statistics
Matches: 118, Mismatches: 14, Indels: 30
0.73 0.09 0.19
Matches are distributed among these distances:
31 8 0.07
32 2 0.02
33 15 0.13
34 2 0.02
35 4 0.03
36 13 0.11
37 18 0.15
38 26 0.22
39 1 0.01
40 19 0.16
41 10 0.08
ACGTcount: A:0.57, C:0.14, G:0.03, T:0.25
Consensus pattern (38 bp):
AATAGTAATATACATAACATAAATAATATACAATAATA
Found at i:43507028 original size:69 final size:68
Alignment explanation
Indices: 43506892--43507190 Score: 354
Period size: 69 Copynumber: 4.4 Consensus size: 68
43506882 GATGACATAC
* * * * *
43506892 ATACATAACATACATAATATACATACAT-AACAATAATATA-CACATAATAAACATACATAATAG
1 ATACATAACATAAATAATATACATA-ATAAACAGTAATATACCACATAACAAACATACATAACAA
43506955 TAAT
65 TAAT
*
43506959 ATACATAACATAAATAATATACAATAATAAATAGTAATATACCACATAACAAACATACATAACAA
1 ATACATAACATAAATAATATAC-ATAATAAACAGTAATATACCACATAACAAACATACATAACAA
43507024 TAAT
65 TAAT
* * * * * *
43507028 ATACATAACATACATAACATACGTAATAAACAGTAATATATCACGTAACATACATACATAACAAT
1 ATACATAACATAAATAATATACATAATAAACAGTAATATACCACATAACAAACATACATAACAAT
43507093 AAT
66 AAT
* * * * * * *
43507096 ATACATAAAATATATAACATACAGTAATAAACAATAATATACCAAATTACATACATACATAACAA
1 ATACATAACATAAATAATATACA-TAATAAACAGTAATATACCACATAACAAACATACATAACAA
*
43507161 TCAT
65 TAAT
*
43507165 ATACATAA-AT-AATAATATACTTAATA
1 ATACATAACATAAATAATATACATAATA
43507191 GTAATATACC
Statistics
Matches: 203, Mismatches: 25, Indels: 9
0.86 0.11 0.04
Matches are distributed among these distances:
66 5 0.02
67 31 0.15
68 76 0.37
69 91 0.45
ACGTcount: A:0.57, C:0.15, G:0.02, T:0.26
Consensus pattern (68 bp):
ATACATAACATAAATAATATACATAATAAACAGTAATATACCACATAACAAACATACATAACAAT
AAT
Found at i:43507031 original size:31 final size:31
Alignment explanation
Indices: 43506993--43507099 Score: 99
Period size: 31 Copynumber: 3.3 Consensus size: 31
43506983 TAATAAATAG
43506993 TAATATACCACATAACAAACATACATAACAA
1 TAATATACCACATAACAAACATACATAACAA
* *
43507024 TAATATACATAACAT-ACATAACATACGTAATAAACAG
1 TAATATAC--CACATAACA-AACATAC---AT-AACAA
* * *
43507061 TAATATATCACGTAACATACATACATAACAA
1 TAATATACCACATAACAAACATACATAACAA
43507092 TAATATAC
1 TAATATAC
43507100 ATAAAATATA
Statistics
Matches: 60, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
31 19 0.32
32 5 0.08
33 11 0.18
35 9 0.15
36 5 0.08
37 11 0.18
ACGTcount: A:0.54, C:0.19, G:0.03, T:0.24
Consensus pattern (31 bp):
TAATATACCACATAACAAACATACATAACAA
Found at i:43507115 original size:14 final size:15
Alignment explanation
Indices: 43506914--43507199 Score: 83
Period size: 15 Copynumber: 19.3 Consensus size: 15
43506904 CATAATATAC
43506914 ATACATAACAATAAT
1 ATACATAACAATAAT
* * *
43506929 ATACA-CATAATAAAC
1 ATACATAACAAT-AAT
* *
43506944 ATACATAATAGTAAT
1 ATACATAACAATAAT
43506959 ATACATAAC-ATAA-
1 ATACATAACAATAAT
43506972 ATA-ATATACAATAAT
1 ATACATA-ACAATAAT
**
43506987 A-A-ATAGTAAT-AT
1 ATACATAACAATAAT
* *
43506999 ACCACATAAC-A-AAC
1 A-TACATAACAATAAT
43507013 ATACATAACAATAAT
1 ATACATAACAATAAT
*
43507028 ATACATAACATACATAAC
1 ATACATAAC--A-ATAAT
*
43507046 ATACGTAATAAACAGTAAT
1 ATAC---AT-AACAATAAT
*
43507065 ATATCACGTAAC-AT-AC
1 ATA-CA--TAACAATAAT
43507081 ATACATAACAATAAT
1 ATACATAACAATAAT
43507096 ATACATAA-AAT-AT
1 ATACATAACAATAAT
*
43507109 ATAACAT-ACAGT-A-
1 AT-ACATAACAATAAT
43507122 AT--A-AACAATAAT
1 ATACATAACAATAAT
* *
43507134 ATACCA-AATTACAT-AC
1 ATA-CATAA-CA-ATAAT
*
43507150 ATACATAACAATCAT
1 ATACATAACAATAAT
*
43507165 ATACATAAATAATAAT
1 ATACAT-AACAATAAT
* * *
43507181 ATACTTAATAGTAAT
1 ATACATAACAATAAT
43507196 ATAC
1 ATAC
43507200 CTTTTCTTAA
Statistics
Matches: 204, Mismatches: 31, Indels: 72
0.66 0.10 0.23
Matches are distributed among these distances:
10 5 0.02
11 1 0.00
12 8 0.04
13 26 0.13
14 34 0.17
15 73 0.36
16 27 0.13
17 5 0.02
18 11 0.05
19 7 0.03
20 2 0.01
21 2 0.01
22 3 0.01
ACGTcount: A:0.56, C:0.15, G:0.02, T:0.27
Consensus pattern (15 bp):
ATACATAACAATAAT
Found at i:43507118 original size:137 final size:136
Alignment explanation
Indices: 43506892--43507190 Score: 388
Period size: 137 Copynumber: 2.2 Consensus size: 136
43506882 GATGACATAC
* * *
43506892 ATACATAACATACATAATATACATACAT-AACAATAATATACACATAATAAACATACATAATAGT
1 ATACATAACATACATAATATACATA-ATAAACAATAATATACACATAACAAACATACATAACAAT
* * * * *
43506956 AATATACATAACATAAATAATATACAATAATAAATAGTAATATACCACATAACAAACATACATAA
65 AATATACATAAAATAAATAACATACAATAATAAACAATAATATACCAAATAACAAACATACATAA
43507021 CAATAAT
130 CAATAAT
* * * * *
43507028 ATACATAACATACATAACATACGTAATAAACAGTAATATATCACGTAACATACATACATAACAAT
1 ATACATAACATACATAATATACATAATAAACAATAATATA-CACATAACAAACATACATAACAAT
* * * *
43507093 AATATACATAAAATATATAACATACAGTAATAAACAATAATATACCAAATTACATACATACATAA
65 AATATACATAAAATAAATAACATACAATAATAAACAATAATATACCAAATAACAAACATACATAA
*
43507158 CAATCAT
130 CAATAAT
*
43507165 ATACATAA-ATA-ATAATATACTTAATA
1 ATACATAACATACATAATATACATAATA
43507191 GTAATATACC
Statistics
Matches: 141, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
135 15 0.11
136 37 0.26
137 89 0.63
ACGTcount: A:0.57, C:0.15, G:0.02, T:0.26
Consensus pattern (136 bp):
ATACATAACATACATAATATACATAATAAACAATAATATACACATAACAAACATACATAACAATA
ATATACATAAAATAAATAACATACAATAATAAACAATAATATACCAAATAACAAACATACATAAC
AATAAT
Found at i:43507330 original size:13 final size:13
Alignment explanation
Indices: 43507232--43507390 Score: 73
Period size: 13 Copynumber: 12.4 Consensus size: 13
43507222 TAATATTCAC
*
43507232 AACATACATACAT
1 AACAGACATACAT
*
43507245 AATAGACATA-AT
1 AACAGACATACAT
43507257 -AC--ACATACAT
1 AACAGACATACAT
* *
43507267 AACACAGATACAT
1 AACAGACATACAT
43507280 ATCCACA-ACATACA-
1 A---ACAGACATACAT
* *
43507294 GACATAACATACAT
1 AACA-GACATACAT
*
43507308 AATAGACATACAT
1 AACAGACATACAT
*
43507321 AACAGGCATACAT
1 AACAGACATACAT
* * **
43507334 ATTCATAACATATGT
1 A-ACA-GACATACAT
43507349 AACAGACATACAT
1 AACAGACATACAT
* *
43507362 AGCAAACATA-AT
1 AACAGACATACAT
*
43507374 AACA-ACATGCAT
1 AACAGACATACAT
43507386 AACAG
1 AACAG
43507391 TAATACACAT
Statistics
Matches: 108, Mismatches: 24, Indels: 28
0.68 0.15 0.17
Matches are distributed among these distances:
9 5 0.05
10 2 0.02
11 10 0.09
12 13 0.12
13 57 0.53
14 6 0.06
15 12 0.11
16 3 0.03
ACGTcount: A:0.52, C:0.21, G:0.07, T:0.20
Consensus pattern (13 bp):
AACAGACATACAT
Found at i:43507332 original size:54 final size:54
Alignment explanation
Indices: 43507224--43507345 Score: 165
Period size: 54 Copynumber: 2.3 Consensus size: 54
43507214 ACATGCACTA
* *
43507224 ATATTCACAACATACATACATAATAGACATAATACACATACATAACACAGATAC
1 ATATTCACAACATACAGACATAACAGACATAATACACATACATAACACAGATAC
* * * *
43507278 ATATCCACAACATACAGACATAACATACATAATAGACATACATAACA-GGCATAC
1 ATATTCACAACATACAGACATAACAGACATAATACACATACATAACACAG-ATAC
*
43507332 ATATTCATAACATA
1 ATATTCACAACATA
43507346 TGTAACAGAC
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
53 1 0.02
54 58 0.98
ACGTcount: A:0.51, C:0.22, G:0.05, T:0.22
Consensus pattern (54 bp):
ATATTCACAACATACAGACATAACAGACATAATACACATACATAACACAGATAC
Found at i:43507554 original size:30 final size:30
Alignment explanation
Indices: 43507491--43507555 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
43507481 CAGCAAAAAT
* *
43507491 AAAAATTAGAAGTCAGATATAAAACGAATA
1 AAAAATTAGAAGTCAAATATAAAACGAACA
* *
43507521 AAAAATTTA-AAGTCAAATATAATATGAACA
1 AAAAA-TTAGAAGTCAAATATAAAACGAACA
43507551 AAAAA
1 AAAAA
43507556 AAGTTTGTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 27 0.90
31 3 0.10
ACGTcount: A:0.63, C:0.06, G:0.09, T:0.22
Consensus pattern (30 bp):
AAAAATTAGAAGTCAAATATAAAACGAACA
Done.