Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 148 of 218
Found at i:45030526 original size:132 final size:132
Alignment explanation
Indices: 45030097--45030589 Score: 749
Period size: 132 Copynumber: 3.7 Consensus size: 132
45030087 AATGTCAATG
* * * * * *
45030097 AGATAAGATTCACTGCCTTCT-ATCTGCTCTACTACTACTTAGGGAGACAGGATCTACAGTCTTC
1 AGATAAGATTCACCGTCTT-TGATCTGCTCCACTACTGCTTAAGGAGACAGGATCTACAATCTTC
* * *
45030161 AACCTATTCCACTACTG-CCTAGGGAGATAGGGCTGGTGGCTTAAATCAGCTTCCTTACTACCTT
65 AACCTATTCCACTACTGTCC-AGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTT
45030225 GGGA
129 GGGA
* *
45030229 AGATAAGATTCACCGTCTTTGATCTGCTCCACTACTGTTTAAGGAGACAAGATCTACAATCTTCA
1 AGATAAGATTCACCGTCTTTGATCTGCTCCACTACTGCTTAAGGAGACAGGATCTACAATCTTCA
*
45030294 ACCTATTCCACTGCTGTCCAGGGAGATAGGACT-GTGGCTTAAATCTGCTTCCCTACTACCTTGG
66 ACCTATTCCACTACTGTCCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTGG
45030358 GA
131 GA
* *
45030360 AGATAAGATTCACCGTCTTTGATCTGCTCTACTACTGCTTAAGGAGACAGGATGTACAATCTTCA
1 AGATAAGATTCACCGTCTTTGATCTGCTCCACTACTGCTTAAGGAGACAGGATCTACAATCTTCA
* * * * *
45030425 ACCTAATCCACTGCTATCCAGGGAGATAGGACTGGCGGCTTAAATCTGCTTCCCTACTATCTTGG
66 ACCTATTCCACTACTGTCCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTGG
45030490 GA
131 GA
* *
45030492 AGATAAGATTTACCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCA
1 AGATAAGATTCACCGTCTTTGATCTGCTCCACTACTGCTTAAGGAGACAGGATCTACAATCTTCA
*
45030557 ACCTATTCCACTACTGTCCAAGGAGATAGGACT
66 ACCTATTCCACTACTGTCCAGGGAGATAGGACT
45030590 TACAATCTTC
Statistics
Matches: 330, Mismatches: 28, Indels: 6
0.91 0.08 0.02
Matches are distributed among these distances:
131 124 0.38
132 204 0.62
133 2 0.01
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (132 bp):
AGATAAGATTCACCGTCTTTGATCTGCTCCACTACTGCTTAAGGAGACAGGATCTACAATCTTCA
ACCTATTCCACTACTGTCCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTGG
GA
Found at i:45030564 original size:263 final size:263
Alignment explanation
Indices: 45030097--45030589 Score: 774
Period size: 263 Copynumber: 1.9 Consensus size: 263
45030087 AATGTCAATG
* * *
45030097 AGATAAGATTCACTGCCTTCTATCTGCTCTACTACTACTTAGGGAGACAGGATCTACAGTCTTCA
1 AGATAAGATTCACCGCCTTCTATCTGCTCTACTACTACTTAAGGAGACAGGATCTACAATCTTCA
* * * *
45030162 ACCTATTCCACTACTGCCTAGGGAGATAGGGCTGGTGGCTTAAATCAGCTTCCTTACTACCTTGG
66 ACCTAATCCACTACTGCCTAGGGAGATAGGACTGGCGGCTTAAATCAGCTTCCCTACTACCTTGG
*
45030227 GAAGATAAGATTCACCGTCTTTGATCTGCTCCACTACTGTTTAAGGAGACAAGATCTACAATCTT
131 GAAGATAAGATTCACCGTCTTTGATCTGCTCCACTACTGCTTAAGGAGACAAGATCTACAATCTT
* *
45030292 CAACCTATTCCACTGCTGTCCAGGGAGATAGGACTGTGGCTTAAATCTGCTTCCCTACTACCTTG
196 CAACCTATTCCACTACTGTCCAAGGAGATAGGACTGTGGCTTAAATCTGCTTCCCTACTACCTTG
45030357 GGA
261 GGA
* * *
45030360 AGATAAGATTCACCGTCTT-TGATCTGCTCTACTACTGCTTAAGGAGACAGGATGTACAATCTTC
1 AGATAAGATTCACCGCCTTCT-ATCTGCTCTACTACTACTTAAGGAGACAGGATCTACAATCTTC
* * * *
45030424 AACCTAATCCACTGCTATCC-AGGGAGATAGGACTGGCGGCTTAAATCTGCTTCCCTACTATCTT
65 AACCTAATCCACTACT-GCCTAGGGAGATAGGACTGGCGGCTTAAATCAGCTTCCCTACTACCTT
* * *
45030488 GGGAAGATAAGATTTACCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATC
129 GGGAAGATAAGATTCACCGTCTTTGATCTGCTCCACTACTGCTTAAGGAGACAAGATCTACAATC
45030553 TTCAACCTATTCCACTACTGTCCAAGGAGATAGGACT
194 TTCAACCTATTCCACTACTGTCCAAGGAGATAGGACT
45030590 TACAATCTTC
Statistics
Matches: 208, Mismatches: 20, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
262 1 0.00
263 205 0.99
264 2 0.01
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (263 bp):
AGATAAGATTCACCGCCTTCTATCTGCTCTACTACTACTTAAGGAGACAGGATCTACAATCTTCA
ACCTAATCCACTACTGCCTAGGGAGATAGGACTGGCGGCTTAAATCAGCTTCCCTACTACCTTGG
GAAGATAAGATTCACCGTCTTTGATCTGCTCCACTACTGCTTAAGGAGACAAGATCTACAATCTT
CAACCTATTCCACTACTGTCCAAGGAGATAGGACTGTGGCTTAAATCTGCTTCCCTACTACCTTG
GGA
Found at i:45030642 original size:44 final size:44
Alignment explanation
Indices: 45030519--45030644 Score: 155
Period size: 44 Copynumber: 2.9 Consensus size: 44
45030509 TTTGATCTGC
* * *
45030519 TCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTAT
1 TCCACTACTGCCTAGGGAGATAGGATTTACAATCTTCAACCTAT
* *
45030563 TCCACTACTGTCC-AAGGAGATAGGACTTACAATCTTCAACCTAT
1 TCCACTACTG-CCTAGGGAGATAGGATTTACAATCTTCAACCTAT
* * * *
45030607 TCGACTGCTGCCTAGGGAGATAGGATTTGCTATCTTCA
1 TCCACTACTGCCTAGGGAGATAGGATTTACAATCTTCA
45030645 CCGATCTGTT
Statistics
Matches: 69, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
43 2 0.03
44 66 0.96
45 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (44 bp):
TCCACTACTGCCTAGGGAGATAGGATTTACAATCTTCAACCTAT
Found at i:45031934 original size:43 final size:43
Alignment explanation
Indices: 45031881--45031964 Score: 150
Period size: 43 Copynumber: 2.0 Consensus size: 43
45031871 CATTTTTTCG
*
45031881 ACTCAAAGCGCCCTTTGCGGGTTTTCACCTTGATCTTTTTTTT
1 ACTCAAAGCGCCCTTTGCGGGTTTTCACCTTGATCTCTTTTTT
*
45031924 ACTCAAAGCGCCCTTTGCGGGTTTTCACCTTGGTCTCTTTT
1 ACTCAAAGCGCCCTTTGCGGGTTTTCACCTTGATCTCTTTT
45031965 CCTTTTTAGG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.13, C:0.27, G:0.18, T:0.42
Consensus pattern (43 bp):
ACTCAAAGCGCCCTTTGCGGGTTTTCACCTTGATCTCTTTTTT
Found at i:45044369 original size:26 final size:27
Alignment explanation
Indices: 45044307--45044387 Score: 74
Period size: 26 Copynumber: 3.0 Consensus size: 27
45044297 GAAGCACGTT
*
45044307 AGGACAATCTAATGTGGGAAGTCCGCA
1 AGGACAATCTAATGTGGGAAGTCCACA
* * *
45044334 AGAACCATCTATTGT-GGAAGTCCACA
1 AGGACAATCTAATGTGGGAAGTCCACA
* * *
45044360 AGGACTATCTGATATATGGGAAATCCAC
1 AGGACAATCT-A-ATGTGGGAAGTCCAC
45044388 CGGGGCTATC
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
26 18 0.43
27 13 0.31
28 2 0.05
29 9 0.21
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (27 bp):
AGGACAATCTAATGTGGGAAGTCCACA
Found at i:45064466 original size:12 final size:12
Alignment explanation
Indices: 45064449--45064474 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
45064439 CAAAACAGGC
45064449 TTTTAGCGGCGT
1 TTTTAGCGGCGT
45064461 TTTTAGCGGCGT
1 TTTTAGCGGCGT
45064473 TT
1 TT
45064475 GGATAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:45064508 original size:41 final size:38
Alignment explanation
Indices: 45064463--45064554 Score: 96
Period size: 40 Copynumber: 2.3 Consensus size: 38
45064453 AGCGGCGTTT
*
45064463 TTAGCGGCGTTTGGATAAAAAACGCCGCT-AAAGATAGATCA
1 TTAGCGGCGTTT--ATAAAAAACGCCGCTGAAA-ATA-AGCA
* **
45064504 TTAGCGGCGCTTTTTGGAAAACGCCGCTGAAAATAAGCA
1 TTAGCGGCG-TTTATAAAAAACGCCGCTGAAAATAAGCA
45064543 TTAGCGGCGTTT
1 TTAGCGGCGTTT
45064555 TTCAGAAAAG
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
38 3 0.07
39 12 0.27
40 15 0.33
41 12 0.27
42 3 0.07
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.25
Consensus pattern (38 bp):
TTAGCGGCGTTTATAAAAAACGCCGCTGAAAATAAGCA
Found at i:45064551 original size:39 final size:40
Alignment explanation
Indices: 45064481--45064570 Score: 114
Period size: 40 Copynumber: 2.2 Consensus size: 40
45064471 GTTTGGATAA
* *
45064481 AAAACGCCGCTAAAGATAGATCATTAGCGGCGCTTTTT-GG
1 AAAACGCCGCTAAAGATAGAGCATTAGCGGCG-TTTTTCAG
45064521 AAAACGCCGCTGAAA-ATA-AGCATTAGCGGCGTTTTTCAG
1 AAAACGCCGCT-AAAGATAGAGCATTAGCGGCGTTTTTCAG
45064560 AAAAGCGCCGC
1 AAAA-CGCCGC
45064571 AAAAAACCTA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
38 5 0.11
39 17 0.38
40 20 0.44
41 3 0.07
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.21
Consensus pattern (40 bp):
AAAACGCCGCTAAAGATAGAGCATTAGCGGCGTTTTTCAG
Found at i:45064887 original size:113 final size:114
Alignment explanation
Indices: 45064543--45064970 Score: 646
Period size: 114 Copynumber: 3.8 Consensus size: 114
45064533 AAAATAAGCA
* * * * *
45064543 TTAGCGGCGTTTTTCAGAAAAGCGCCGC-AAAAAACCTAAGCCCAACGACGTCGTTTTATGCGCT
1 TTAGCGGCGTTTTT-GGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
*
45064607 CTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTTAGGTCT
65 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTTAGGTCT
* * * *
45064657 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAACCCCAACGATGTCGTTTTTTGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* * * *
45064722 TCGAGGATTTAACGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGTTT
66 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTTAGGTCT
* * *
45064771 TTAGCGGCGTTTTTGGGAAAGCGCCGC-AAAAAACCTAAGCCTAACGACACCATTTTCTGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
*
45064835 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATACTTAGGTCT
66 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTTAGGTCT
*
45064884 TTAGCGGCTTTTTTTGGG-AAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
1 TTAGCGGC-GTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
45064948 TTCGGGGATTTAGCGGCGTTTTT
65 TTCGGGGATTTAGCGGCGTTTTT
45064971 GGGGAAGCGC
Statistics
Matches: 284, Mismatches: 27, Indels: 6
0.90 0.09 0.02
Matches are distributed among these distances:
113 102 0.36
114 182 0.64
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.28
Consensus pattern (114 bp):
TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTTAGGTCT
Found at i:45064983 original size:227 final size:228
Alignment explanation
Indices: 45064543--45064970 Score: 680
Period size: 227 Copynumber: 1.9 Consensus size: 228
45064533 AAAATAAGCA
** * *
45064543 TTAGCGGCGTTTTTCAGAAAAGCGCCGCAAAAAACCTAAGCCCAACGACGTCGTTTTATGCGCTC
1 TTAGCGGCGTTTTTCAGAAAAGCGCCGCAAAAAACCTAAGCCCAACGACACCATTTTATGAGCTC
*
45064608 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTTAGGTCTTTAGCGGCGTTTTTGG
66 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATACTTAGGTCTTTAGCGGCGTTTTTGG
* * *
45064673 GAAAGCGCCGCAAAAAAACCTAACCCCAACGATGTCGTTTTTTGAGCTTTCGAGGATTTAACGGC
131 GAAAGCGCCGCAAAAAAACCTAACCCCAACGACGCCGTTTTCTGAGCTTTCGAGGATTTAACGGC
45064738 GTTTTTAAGAAAGCGCCGCTAATGCTCAGGTTT
196 GTTTTTAAGAAAGCGCCGCTAATGCTCAGGTTT
* * * * *
45064771 TTAGCGGCGTTTTT-GGGAAAGCGCCGCAAAAAACCTAAGCCTAACGACACCATTTTCTGAGCTT
1 TTAGCGGCGTTTTTCAGAAAAGCGCCGCAAAAAACCTAAGCCCAACGACACCATTTTATGAGCTC
*
45064835 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATACTTAGGTCTTTAGCGGCTTTTTTTG
66 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATACTTAGGTCTTTAGCGGC-GTTTTTG
* * *
45064900 GG-AAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGG
130 GGAAAGCGCCGCAAAAAAACCTAACCCCAACGACGCCGTTTTCTGAGCTTTCGAGGATTTAACGG
45064964 CGTTTTT
195 CGTTTTT
45064971 GGGGAAGCGC
Statistics
Matches: 182, Mismatches: 17, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
227 160 0.88
228 22 0.12
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.28
Consensus pattern (228 bp):
TTAGCGGCGTTTTTCAGAAAAGCGCCGCAAAAAACCTAAGCCCAACGACACCATTTTATGAGCTC
TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATACTTAGGTCTTTAGCGGCGTTTTTGG
GAAAGCGCCGCAAAAAAACCTAACCCCAACGACGCCGTTTTCTGAGCTTTCGAGGATTTAACGGC
GTTTTTAAGAAAGCGCCGCTAATGCTCAGGTTT
Found at i:45065301 original size:22 final size:22
Alignment explanation
Indices: 45065259--45065324 Score: 57
Period size: 22 Copynumber: 3.1 Consensus size: 22
45065249 TATGGTTTAA
*
45065259 GGGTTA-GGATTTA-AGGTTTAG
1 GGGTTAGGGGTTTAGAGG-TTAG
45065280 GGGTTAGGGGTTTAGAGGTTAG
1 GGGTTAGGGGTTTAGAGGTTAG
*** *
45065302 ACATTAGGGGTTAAGA-GTTAG
1 GGGTTAGGGGTTTAGAGGTTAG
45065323 GG
1 GG
45065325 ATTTAAAGTT
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
21 11 0.31
22 22 0.61
23 3 0.08
ACGTcount: A:0.24, C:0.02, G:0.42, T:0.32
Consensus pattern (22 bp):
GGGTTAGGGGTTTAGAGGTTAG
Found at i:45065776 original size:44 final size:44
Alignment explanation
Indices: 45065741--45065832 Score: 139
Period size: 44 Copynumber: 2.1 Consensus size: 44
45065731 AATAAAATTT
* * *
45065741 TTTTAGCATAGCAAAATGGTGTCATTTTCTTCAAAATGAAATAA
1 TTTTAGCACAGCAAAACGGCGTCATTTTCTTCAAAATGAAATAA
* *
45065785 TTTTAGCACAGTAAAACGGCGTCATTTTGTTCAAAATGAAATAA
1 TTTTAGCACAGCAAAACGGCGTCATTTTCTTCAAAATGAAATAA
45065829 TTTT
1 TTTT
45065833 TTGCGGCGTT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (44 bp):
TTTTAGCACAGCAAAACGGCGTCATTTTCTTCAAAATGAAATAA
Found at i:45066009 original size:101 final size:101
Alignment explanation
Indices: 45065875--45066103 Score: 408
Period size: 101 Copynumber: 2.3 Consensus size: 101
45065865 ATAAGCAATA
* *
45065875 GCGGCGTTTTTA-AAAAAATGCCGC-AAAAATAAATCAATTTATAAAAAAAATTTAGCATAGTAA
1 GCGGCGTTTCTATGAAAAATGCCGCAAAAAATAAATCAATTTATAAAAAAAATTTAGCATAGTAA
45065938 AACGACGTCATTTTGTTCAAATTGAAATAATTTTTT
66 AACGACGTCATTTTGTTCAAATTGAAATAATTTTTT
* *
45065974 GTGGCGTTTCTATGAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAAATTTAGCATAGTAA
1 GCGGCGTTTCTATGAAAAATGCCGCAAAAAATAAATCAATTTATAAAAAAAATTTAGCATAGTAA
45066039 AACGACGTCATTTTGTTCAAATTGAAATAATTTTTT
66 AACGACGTCATTTTGTTCAAATTGAAATAATTTTTT
45066075 GCGGCGTTTCTATGAAAAATGCCGCAAAA
1 GCGGCGTTTCTATGAAAAATGCCGCAAAA
45066104 GATACGCAAT
Statistics
Matches: 122, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
99 10 0.08
100 10 0.08
101 102 0.84
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.31
Consensus pattern (101 bp):
GCGGCGTTTCTATGAAAAATGCCGCAAAAAATAAATCAATTTATAAAAAAAATTTAGCATAGTAA
AACGACGTCATTTTGTTCAAATTGAAATAATTTTTT
Found at i:45066158 original size:141 final size:141
Alignment explanation
Indices: 45065988--45066244 Score: 487
Period size: 141 Copynumber: 1.8 Consensus size: 141
45065978 CGTTTCTATG
*
45065988 AAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAAATTTAGCATAGTAAAACGACGTCATTTT
1 AAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAAATTTAGCATAGTAAAACGACATCATTTT
* *
45066053 GTTCAAATTGAAATAATTTTTTGCGGCGTTTCTATGAAAAATGCCGCAAAAGATACGCAATAGCG
66 GTTCAAATTGAAATAATTTTTTGCGACGTTTCTATGAAAAACGCCGCAAAAGATACGCAATAGCG
45066118 GCTTTTTTTTT
131 GCTTTTTTTTT
45066129 AAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAAATTTAGCATAGTAAAACGACATCATTTT
1 AAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAAATTTAGCATAGTAAAACGACATCATTTT
45066194 GTTCAAATTGAAATAATTTTTTGCGACGTTTCTATGAAAAACGCCGCAAAA
66 GTTCAAATTGAAATAATTTTTTGCGACGTTTCTATGAAAAACGCCGCAAAA
45066245 AATAAATCAA
Statistics
Matches: 113, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
141 113 1.00
ACGTcount: A:0.43, C:0.14, G:0.13, T:0.30
Consensus pattern (141 bp):
AAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAAATTTAGCATAGTAAAACGACATCATTTT
GTTCAAATTGAAATAATTTTTTGCGACGTTTCTATGAAAAACGCCGCAAAAGATACGCAATAGCG
GCTTTTTTTTT
Found at i:45066231 original size:242 final size:240
Alignment explanation
Indices: 45065786--45066384 Score: 951
Period size: 242 Copynumber: 2.5 Consensus size: 240
45065776 ATGAAATAAT
* * *
45065786 TTTAGCACAGTAAAACGGCGTCATTTTGTTCAAAATGAAATAATTTTTTGCGGCGTTTCTATGAA
1 TTTAGCATAGTAAAACGACGTCATTTTGTTCAAATTGAAATAATTTTTTGCGGCGTTTCTATGAA
* ** *
45065851 AAACGTCGCAAAAGATAAGCAATAGCGGCGTTTTTAAAAAAATGCCGC-AAAAATAAATCAATTT
66 AAACGCCGCAAAAGATAAGCAATAGCGGC-TTTTTTTAAAAACGCCGCAAAAAATAAATCAATTT
* * *
45065915 ATAAAAAAAATTTAGCATAGTAAAACGACGTCATTTTGTTCAAATTGAAATAATTTTTTGTGGCG
130 ATAAAAAAAATTTAGCATAGTAAAACGACATCATTTTGTTCAAATTGAAATAATTTTTTGCGACG
45065980 TTTCTATGAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAAA
195 TTTCTATGAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAAA
45066026 TTTAGCATAGTAAAACGACGTCATTTTGTTCAAATTGAAATAATTTTTTGCGGCGTTTCTATGAA
1 TTTAGCATAGTAAAACGACGTCATTTTGTTCAAATTGAAATAATTTTTTGCGGCGTTTCTATGAA
* *
45066091 AAATGCCGCAAAAGATACGCAATAGCGGCTTTTTTTTTAAAAACGCCGCAAAAAATAAATCAATT
66 AAACGCCGCAAAAGATAAGCAATAGCGGC--TTTTTTTAAAAACGCCGCAAAAAATAAATCAATT
45066156 TATAAAAAAAATTTAGCATAGTAAAACGACATCATTTTGTTCAAATTGAAATAATTTTTTGCGAC
129 TATAAAAAAAATTTAGCATAGTAAAACGACATCATTTTGTTCAAATTGAAATAATTTTTTGCGAC
45066221 GTTTCTATGAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAAA
194 GTTTCTATGAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAAA
* *
45066268 TTTAGCATAGTAAAACGACGTCATTTTGTTCAAATTG----AATTTTTTACGGCGTTTTTCAT-A
1 TTTAGCATAGTAAAACGACGTCATTTTGTTCAAATTGAAATAATTTTTTGCGGCGTTTCT-ATGA
* * *
45066328 AAAACGCCAC-AAAGAATAAGCAATAGCGGCATTTTTTAAAAACGCCGCAAAAGATAA
65 AAAACGCCGCAAAAG-ATAAGCAATAGCGGCTTTTTTTAAAAACGCCGCAAAAAATAA
45066385 GCACAAAAAA
Statistics
Matches: 335, Mismatches: 20, Indels: 12
0.91 0.05 0.03
Matches are distributed among these distances:
236 25 0.07
237 4 0.01
238 40 0.12
239 2 0.01
240 88 0.26
241 15 0.04
242 161 0.48
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.31
Consensus pattern (240 bp):
TTTAGCATAGTAAAACGACGTCATTTTGTTCAAATTGAAATAATTTTTTGCGGCGTTTCTATGAA
AAACGCCGCAAAAGATAAGCAATAGCGGCTTTTTTTAAAAACGCCGCAAAAAATAAATCAATTTA
TAAAAAAAATTTAGCATAGTAAAACGACATCATTTTGTTCAAATTGAAATAATTTTTTGCGACGT
TTCTATGAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAAA
Found at i:45070563 original size:44 final size:42
Alignment explanation
Indices: 45070515--45070680 Score: 124
Period size: 43 Copynumber: 3.9 Consensus size: 42
45070505 AAGAACGGTA
* * **
45070515 TTTTTAGCTGCGTTTGTGATAAAAAGTGTCGCTAAAGGTTATG
1 TTTTTAGCAGCGTTTGT-ATAAAAAGCGTCGCTAAAGGCCATG
*
45070558 CTTTTTAGCAGCGATTGT-TAGAAAAGCGTCGCTAAAGGCCATG
1 -TTTTTAGCAGCGTTTGTATA-AAAAGCGTCGCTAAAGGCCATG
* *
45070601 TTCTTTAGCGGCGTTTGT-TATAAAAGCGCCGCTAAAGAG-CATGG
1 TT-TTTAGCAGCGTTTGTATA-AAAAGCGTCGCTAAAG-GCCAT-G
** * * *
45070645 CCTTTAACGGCGTTTGTA-AGAGAAGCGTCGCTAAAG
1 TTTTTAGCAGCGTTTGTATA-AAAAGCGTCGCTAAAG
45070681 AACATGGCCT
Statistics
Matches: 102, Mismatches: 15, Indels: 11
0.80 0.12 0.09
Matches are distributed among these distances:
42 4 0.04
43 81 0.79
44 17 0.17
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.31
Consensus pattern (42 bp):
TTTTTAGCAGCGTTTGTATAAAAAGCGTCGCTAAAGGCCATG
Found at i:45070595 original size:43 final size:43
Alignment explanation
Indices: 45070536--45070680 Score: 132
Period size: 43 Copynumber: 3.4 Consensus size: 43
45070526 GTTTGTGATA
* **
45070536 AAAAGTGTCGCTAAAGGTTATGCTT-TTTAGCAGCGATTGTTAG
1 AAAAGCGTCGCTAAAGGCCATG-TTCTTTAGCAGCGATTGTTAG
* * *
45070579 AAAAGCGTCGCTAAAGGCCATGTTCTTTAGCGGCGTTTGTTAT
1 AAAAGCGTCGCTAAAGGCCATGTTCTTTAGCAGCGATTGTTAG
* ** * * * *
45070622 AAAAGCGCCGCTAAAGAG-CATGGCCTTTAACGGCGTTTGTAAG
1 AAAAGCGTCGCTAAAG-GCCATGTTCTTTAGCAGCGATTGTTAG
*
45070665 AGAAGCGTCGCTAAAG
1 AAAAGCGTCGCTAAAG
45070681 AACATGGCCT
Statistics
Matches: 86, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
42 2 0.02
43 83 0.97
44 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (43 bp):
AAAAGCGTCGCTAAAGGCCATGTTCTTTAGCAGCGATTGTTAG
Found at i:45070681 original size:43 final size:43
Alignment explanation
Indices: 45070561--45070714 Score: 184
Period size: 43 Copynumber: 3.6 Consensus size: 43
45070551 GGTTATGCTT
* * * **
45070561 TTTAGCAGCGATTGTTAGAAAAGCGTCGCTAAAG-GCCATGTTC
1 TTTAGCGGCGTTTGTAAGAAAAGCGTCGCTAAAGAG-CATGGCC
* * *
45070604 TTTAGCGGCGTTTGTTATAAAAGCGCCGCTAAAGAGCATGGCC
1 TTTAGCGGCGTTTGTAAGAAAAGCGTCGCTAAAGAGCATGGCC
* * *
45070647 TTTAACGGCGTTTGTAAGAGAAGCGTCGCTAAAGAACATGGCC
1 TTTAGCGGCGTTTGTAAGAAAAGCGTCGCTAAAGAGCATGGCC
*
45070690 TTTAGCGGCGTTTGTAAGAGAAGCG
1 TTTAGCGGCGTTTGTAAGAAAAGCG
45070715 CCGCAAATGT
Statistics
Matches: 97, Mismatches: 13, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
43 96 0.99
44 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTAAGAAAAGCGTCGCTAAAGAGCATGGCC
Found at i:45073082 original size:20 final size:20
Alignment explanation
Indices: 45073057--45073096 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
45073047 GCATGAAATG
45073057 AATGCCTAAAGAGACATTGA
1 AATGCCTAAAGAGACATTGA
45073077 AATGCCTAAAGAGACATTGA
1 AATGCCTAAAGAGACATTGA
45073097 TTTTGATTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.15, G:0.20, T:0.20
Consensus pattern (20 bp):
AATGCCTAAAGAGACATTGA
Found at i:45075334 original size:27 final size:27
Alignment explanation
Indices: 45075282--45075333 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
45075272 TTAGGAAGAA
*
45075282 AAATATATATATATGTACATATAAAAG
1 AAATATATATATATATACATATAAAAG
*
45075309 AAATATATATATATATAGAT-TAAAA
1 AAATATATATATATATACATATAAAA
45075334 ATAATTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 5 0.22
27 18 0.78
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.35
Consensus pattern (27 bp):
AAATATATATATATATACATATAAAAG
Found at i:45075532 original size:15 final size:15
Alignment explanation
Indices: 45075492--45075533 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
45075482 AATATATAAA
45075492 AATA-TAATAATATT
1 AATACTAATAATATT
*
45075506 AATATTAATAATATT
1 AATACTAATAATATT
45075521 AA-ACTAATTAATA
1 AATACTAA-TAATA
45075534 AAAAATATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 8 0.32
15 17 0.68
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (15 bp):
AATACTAATAATATT
Found at i:45075534 original size:18 final size:15
Alignment explanation
Indices: 45075492--45075522 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
45075482 AATATATAAA
45075492 AATA-TAATAATATT
1 AATATTAATAATATT
45075506 AATATTAATAATATT
1 AATATTAATAATATT
45075521 AA
1 AA
45075523 ACTAATTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AATATTAATAATATT
Found at i:45078090 original size:9 final size:9
Alignment explanation
Indices: 45078029--45078119 Score: 57
Period size: 9 Copynumber: 10.1 Consensus size: 9
45078019 AAAATTTATA
*
45078029 TATAATTCT
1 TATAATTTT
45078038 TA-AATTTT
1 TATAATTTT
*
45078046 TAGTAA-ATT
1 TA-TAATTTT
45078055 TA-AATTTTT
1 TATAA-TTTT
*
45078064 TATTAAAGTTT
1 TA-T-AATTTT
*
45078075 AATAATTTT
1 TATAATTTT
45078084 TATAATTTT
1 TATAATTTT
*
45078093 TATTGATTTT
1 TA-TAATTTT
45078103 TAT--TTTT
1 TATAATTTT
45078110 TATAATTTT
1 TATAATTTT
45078119 T
1 T
45078120 TTGTCACATG
Statistics
Matches: 64, Mismatches: 8, Indels: 20
0.70 0.09 0.22
Matches are distributed among these distances:
7 9 0.14
8 7 0.11
9 31 0.48
10 11 0.17
11 4 0.06
12 2 0.03
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.63
Consensus pattern (9 bp):
TATAATTTT
Found at i:45082200 original size:3 final size:3
Alignment explanation
Indices: 45082192--45082225 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
45082182 ATTATGGGTG
* *
45082192 TGA TGA TGA TGA TGA TGA TGA CGA CGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
45082226 AGCGATGATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.32, C:0.06, G:0.32, T:0.29
Consensus pattern (3 bp):
TGA
Found at i:45090607 original size:19 final size:20
Alignment explanation
Indices: 45090583--45090624 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
45090573 ATCTCAACCC
45090583 TTCTCATCTCT-TCACTTCA
1 TTCTCATCTCTCTCACTTCA
* *
45090602 TTCTCATTTCTCTCTCTTCA
1 TTCTCATCTCTCTCACTTCA
45090622 TTC
1 TTC
45090625 CCTTTCATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.12, C:0.36, G:0.00, T:0.52
Consensus pattern (20 bp):
TTCTCATCTCTCTCACTTCA
Found at i:45091582 original size:5 final size:5
Alignment explanation
Indices: 45091572--45091596 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
45091562 GCATTGGAAC
45091572 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
45091597 CTTAGTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:45096643 original size:53 final size:53
Alignment explanation
Indices: 45096541--45096645 Score: 158
Period size: 53 Copynumber: 2.0 Consensus size: 53
45096531 GACACTTCAC
* * *
45096541 CTTTATAAAGCATAAGTATTGACCTCACACGAAATATAAAACAGGAATATTAA
1 CTTTATAAAGCATAAGTACTGACCTCACACAAAATATAAAACAGAAATATTAA
*
45096594 CTTTATAAAGCATAATTACTGACCTCACACAAAATAT-AAACTAGAAATATTA
1 CTTTATAAAGCATAAGTACTGACCTCACACAAAATATAAAAC-AGAAATATTA
45096646 CACACATAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
52 4 0.09
53 43 0.91
ACGTcount: A:0.48, C:0.16, G:0.09, T:0.28
Consensus pattern (53 bp):
CTTTATAAAGCATAAGTACTGACCTCACACAAAATATAAAACAGAAATATTAA
Found at i:45101299 original size:19 final size:19
Alignment explanation
Indices: 45101277--45101339 Score: 56
Period size: 18 Copynumber: 3.2 Consensus size: 19
45101267 AAATTACAAA
45101277 AAAAATCAAAATTATTTTT
1 AAAAATCAAAATTATTTTT
* * *
45101296 AAAATTTAAAA-TATTTAT
1 AAAAATCAAAATTATTTTT
45101314 AAAAATCCCAAAATTTATATTTT
1 AAAAAT--CAAAA-TTAT-TTTT
45101337 AAA
1 AAA
45101340 TTTTTTTAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
18 11 0.33
19 9 0.27
20 4 0.12
22 3 0.09
23 6 0.18
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (19 bp):
AAAAATCAAAATTATTTTT
Found at i:45108241 original size:24 final size:24
Alignment explanation
Indices: 45108214--45108260 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
45108204 CTCAAATAAG
45108214 AAATTCAAGTTTA-AAGTTCGAATC
1 AAATTCAAGTTTACAA-TTCGAATC
* *
45108238 AAATTGAATTTTACAATTCGAAT
1 AAATTCAAGTTTACAATTCGAAT
45108261 AACTCAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 18 0.90
25 2 0.10
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.36
Consensus pattern (24 bp):
AAATTCAAGTTTACAATTCGAATC
Found at i:45113363 original size:17 final size:17
Alignment explanation
Indices: 45113341--45113373 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
45113331 TCTCAAATTT
*
45113341 TGATACCTATATCTTTC
1 TGATACCCATATCTTTC
45113358 TGATACCCATATCTTT
1 TGATACCCATATCTTT
45113374 GACTTTCTAT
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:0.24, C:0.24, G:0.06, T:0.45
Consensus pattern (17 bp):
TGATACCCATATCTTTC
Found at i:45119964 original size:23 final size:21
Alignment explanation
Indices: 45119892--45119978 Score: 68
Period size: 21 Copynumber: 4.1 Consensus size: 21
45119882 CCTGATTAGT
* * *
45119892 ATACGACACATAA-ATGCCTA
1 ATACGACACACAAGGTGCCTG
*
45119912 AAACGACACACAAGGTGCCTG
1 ATACGACACACAAGGTGCCTG
* *
45119933 ATACAACACACGAGGTGCCTG
1 ATACGACACACAAGGTGCCTG
* * *
45119954 AAATATGACACATAAAGTGCCTG
1 --ATACGACACACAAGGTGCCTG
45119977 AT
1 AT
45119979 CAGCAAGGCT
Statistics
Matches: 52, Mismatches: 12, Indels: 5
0.75 0.17 0.07
Matches are distributed among these distances:
20 11 0.21
21 25 0.48
23 16 0.31
ACGTcount: A:0.40, C:0.24, G:0.18, T:0.17
Consensus pattern (21 bp):
ATACGACACACAAGGTGCCTG
Found at i:45127850 original size:23 final size:23
Alignment explanation
Indices: 45127752--45127885 Score: 125
Period size: 23 Copynumber: 6.0 Consensus size: 23
45127742 ACCTGATTAG
*
45127752 TATAAGACACAT-AAGTGCCTGA
1 TATACGACACATAAAGTGCCTGA
** *
45127774 -A-ACGACACACGAGGTGCCT-A
1 TATACGACACATAAAGTGCCTGA
* ** *
45127794 -ATACAACACACGAGGTGCCTGA
1 TATACGACACATAAAGTGCCTGA
*
45127816 AATACGACACATAAAGTGCCTGA
1 TATACGACACATAAAGTGCCTGA
* *
45127839 TATACGAAACATAAAGTGCCTAA
1 TATACGACACATAAAGTGCCTGA
*
45127862 TATACGTCACATAAAGTGCCTGA
1 TATACGACACATAAAGTGCCTGA
45127885 T
1 T
45127886 CGGCAAGGCT
Statistics
Matches: 94, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
20 9 0.10
21 25 0.27
22 1 0.01
23 59 0.63
ACGTcount: A:0.40, C:0.22, G:0.19, T:0.19
Consensus pattern (23 bp):
TATACGACACATAAAGTGCCTGA
Found at i:45135795 original size:23 final size:23
Alignment explanation
Indices: 45135757--45135807 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
45135747 ACTCAAACGG
* *
45135757 TGTAATATCCCTAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
45135780 TGTAATACCCCGAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
*
45135803 AGTAA
1 TGTAA
45135808 GAAAATAGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (23 bp):
TGTAATACCCCGAAAATTACTAC
Found at i:45147802 original size:19 final size:20
Alignment explanation
Indices: 45147758--45147802 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
45147748 ATCATGTTCA
45147758 TATTTTTAACATATTTTAAT
1 TATTTTTAACATATTTTAAT
**
45147778 TA-TTTTATGATA-TTTAAT
1 TATTTTTAACATATTTTAAT
45147796 TATTTTT
1 TATTTTT
45147803 CGACAAGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 8 0.36
19 12 0.55
20 2 0.09
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (20 bp):
TATTTTTAACATATTTTAAT
Found at i:45148864 original size:7 final size:7
Alignment explanation
Indices: 45148852--45148876 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
45148842 GTGGAGACAA
45148852 TACTCTT
1 TACTCTT
45148859 TACTCTT
1 TACTCTT
45148866 TACTCTT
1 TACTCTT
45148873 TACT
1 TACT
45148877 TTATTACTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.28, G:0.00, T:0.56
Consensus pattern (7 bp):
TACTCTT
Found at i:45152793 original size:15 final size:16
Alignment explanation
Indices: 45152758--45152795 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
45152748 TAATTTTTAT
*
45152758 ATTGAATTTTGAATTG
1 ATTGAATTTTGAATTA
45152774 A-TGAATTTT-AATTA
1 ATTGAATTTTGAATTA
45152788 ATTGAATT
1 ATTGAATT
45152796 AGTGGTTAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 5 0.25
15 14 0.70
16 1 0.05
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (16 bp):
ATTGAATTTTGAATTA
Found at i:45160604 original size:37 final size:37
Alignment explanation
Indices: 45160553--45160634 Score: 121
Period size: 37 Copynumber: 2.2 Consensus size: 37
45160543 TGATCTGGCA
* *
45160553 TGTTATCGGTTGGATTAGCTCTTATGAGAGTTTGGTG
1 TGTTATCGGGTGGATTAGCTCTTATGAGAGATTGGTG
* *
45160590 TGTTATCGGGTGGATTAGCTCTTATGAGCGATTGTTG
1 TGTTATCGGGTGGATTAGCTCTTATGAGAGATTGGTG
45160627 TGTT-TCGG
1 TGTTATCGG
45160635 TTGGTTTACT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
36 4 0.10
37 37 0.90
ACGTcount: A:0.15, C:0.10, G:0.33, T:0.43
Consensus pattern (37 bp):
TGTTATCGGGTGGATTAGCTCTTATGAGAGATTGGTG
Found at i:45166142 original size:26 final size:25
Alignment explanation
Indices: 45166108--45166188 Score: 69
Period size: 26 Copynumber: 3.2 Consensus size: 25
45166098 AATATGTGAT
*
45166108 TTAATTTGGTCTTAGTTTAGAACAAA
1 TTAAATTGGTCTTAGTTTAG-ACAAA
* *
45166134 TTAAATTGGTCTTA-TTTCGGACACA
1 TTAAATTGGTCTTAGTTT-AGACAAA
45166159 TT-AATTGTGT-TTATTGTTTAGACAAA
1 TTAAATTG-GTCTTA--GTTTAGACAAA
45166185 TTAA
1 TTAA
45166189 TTGTGTCCAG
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
24 8 0.18
25 11 0.25
26 21 0.48
27 4 0.09
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.44
Consensus pattern (25 bp):
TTAAATTGGTCTTAGTTTAGACAAA
Found at i:45166322 original size:50 final size:51
Alignment explanation
Indices: 45166247--45166342 Score: 131
Period size: 51 Copynumber: 1.9 Consensus size: 51
45166237 TGTTTTGTAG
* * * *
45166247 GCTGGATGTGTATGTTGCTTCC-AAAAGGTTCAATGTACGGCAATTGAAAA
1 GCTGGATGTATATGCTGCTTCCAAAAAGGTTCAAAGTACGACAATTGAAAA
* *
45166297 GCTGGATGTATTTGCTGCTTTCAAAAAGGTTCAAAGTACGACAATT
1 GCTGGATGTATATGCTGCTTCCAAAAAGGTTCAAAGTACGACAATT
45166343 AAAGGCAGCA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
50 18 0.46
51 21 0.54
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (51 bp):
GCTGGATGTATATGCTGCTTCCAAAAAGGTTCAAAGTACGACAATTGAAAA
Found at i:45175062 original size:64 final size:64
Alignment explanation
Indices: 45174984--45175113 Score: 251
Period size: 64 Copynumber: 2.0 Consensus size: 64
45174974 GCAATATGCC
*
45174984 AAATTAGTGGACAGTCCACATCATTAACATTGCATATTGTTTTAAGATGAACAAGAATGGAACT
1 AAATTAGTGGACAGTCCACATCATTAACATTGCATACTGTTTTAAGATGAACAAGAATGGAACT
45175048 AAATTAGTGGACAGTCCACATCATTAACATTGCATACTGTTTTAAGATGAACAAGAATGGAACT
1 AAATTAGTGGACAGTCCACATCATTAACATTGCATACTGTTTTAAGATGAACAAGAATGGAACT
45175112 AA
1 AA
45175114 TGTGTCTACC
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (64 bp):
AAATTAGTGGACAGTCCACATCATTAACATTGCATACTGTTTTAAGATGAACAAGAATGGAACT
Found at i:45177665 original size:22 final size:22
Alignment explanation
Indices: 45177640--45177682 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
45177630 AAAGAAACTC
* * *
45177640 ACCGGCGGAAGAGGAACAAAGA
1 ACCGGAGGAAAAGAAACAAAGA
45177662 ACCGGAGGAAAAGAAACAAAG
1 ACCGGAGGAAAAGAAACAAAG
45177683 GCAAAGAACT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.51, C:0.16, G:0.33, T:0.00
Consensus pattern (22 bp):
ACCGGAGGAAAAGAAACAAAGA
Found at i:45178365 original size:27 final size:26
Alignment explanation
Indices: 45178334--45178407 Score: 121
Period size: 27 Copynumber: 2.8 Consensus size: 26
45178324 CCGGCCCGAA
*
45178334 TTTTATATTAAATATATATTTTTTTAT
1 TTTTA-ATCAAATATATATTTTTTTAT
45178361 TTTTAATCAAATATATATATTTTTTAT
1 TTTTAATCAAATATATAT-TTTTTTAT
45178388 TTTTAATCAAATATATATTT
1 TTTTAATCAAATATATATTT
45178408 ATATATATAT
Statistics
Matches: 45, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
26 14 0.31
27 31 0.69
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (26 bp):
TTTTAATCAAATATATATTTTTTTAT
Found at i:45178420 original size:27 final size:26
Alignment explanation
Indices: 45178334--45178437 Score: 97
Period size: 27 Copynumber: 4.0 Consensus size: 26
45178324 CCGGCCCGAA
* * *
45178334 TTTTATATTAAATATATATTTTTTTAT
1 TTTTA-ATCAAATATATATTTATATAT
* *
45178361 TTTTAATCAAATATATATATTTTTTAT
1 TTTTAATCAAATATATAT-TTATATAT
45178388 TTTTAATCAAATATATATTTATATAT
1 TTTTAATCAAATATATATTTATATAT
* *
45178414 ATATTAA--ATATATATATTTA-ATAT
1 -TTTTAATCAAATATATATTTATATAT
45178438 GGGTTGGGTT
Statistics
Matches: 70, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
24 4 0.06
25 12 0.17
26 18 0.26
27 36 0.51
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (26 bp):
TTTTAATCAAATATATATTTATATAT
Found at i:45178426 original size:13 final size:12
Alignment explanation
Indices: 45178398--45178437 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
45178388 TTTTAATCAA
*
45178398 ATATATATTTAT
1 ATATATATTAAT
45178410 ATATATATTAAAT
1 ATATATATT-AAT
45178423 ATATATATTTAAT
1 ATATATA-TTAAT
45178436 AT
1 AT
45178438 GGGTTGGGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
12 9 0.36
13 14 0.56
14 2 0.08
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
ATATATATTAAT
Found at i:45178715 original size:26 final size:26
Alignment explanation
Indices: 45178686--45178735 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
45178676 CTTAAACCAA
*
45178686 ACTTTTCAAAAGTACTTCTCAAAATC
1 ACTTTTCAAAAGCACTTCTCAAAATC
*
45178712 ACTTTTCCAAAGCACTTCTCAAAA
1 ACTTTTCAAAAGCACTTCTCAAAA
45178736 GCAATGCTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.38, C:0.26, G:0.04, T:0.32
Consensus pattern (26 bp):
ACTTTTCAAAAGCACTTCTCAAAATC
Found at i:45178737 original size:13 final size:13
Alignment explanation
Indices: 45178686--45178738 Score: 61
Period size: 13 Copynumber: 4.1 Consensus size: 13
45178676 CTTAAACCAA
* *
45178686 ACTTTTCAAAAGT
1 ACTTCTCAAAAGC
*
45178699 ACTTCTCAAAATC
1 ACTTCTCAAAAGC
* *
45178712 ACTTTTCCAAAGC
1 ACTTCTCAAAAGC
45178725 ACTTCTCAAAAGC
1 ACTTCTCAAAAGC
45178738 A
1 A
45178739 ATGCTAAACT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.38, C:0.26, G:0.06, T:0.30
Consensus pattern (13 bp):
ACTTCTCAAAAGC
Found at i:45188253 original size:37 final size:37
Alignment explanation
Indices: 45188211--45188285 Score: 125
Period size: 37 Copynumber: 2.0 Consensus size: 37
45188201 TGCACGCACT
45188211 TAACCTCTTC-AGTGATCTTCGCCTTATCTACCAGAAC
1 TAACCTCTTCGA-TGATCTTCGCCTTATCTACCAGAAC
*
45188248 TAACCTCTTCGATGGTCTTCGCCTTATCTACCAGAAC
1 TAACCTCTTCGATGATCTTCGCCTTATCTACCAGAAC
45188285 T
1 T
45188286 GTGAACTCTC
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
37 35 0.97
38 1 0.03
ACGTcount: A:0.23, C:0.32, G:0.12, T:0.33
Consensus pattern (37 bp):
TAACCTCTTCGATGATCTTCGCCTTATCTACCAGAAC
Found at i:45196244 original size:18 final size:18
Alignment explanation
Indices: 45196217--45196251 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
45196207 TATTGACTAG
* *
45196217 TAAAAGAAAAATGAAAAT
1 TAAAAAAAAAATCAAAAT
45196235 TAAAAAAAAAATCAAAA
1 TAAAAAAAAAATCAAAA
45196252 GTATATTAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.77, C:0.03, G:0.06, T:0.14
Consensus pattern (18 bp):
TAAAAAAAAAATCAAAAT
Found at i:45203074 original size:22 final size:22
Alignment explanation
Indices: 45203014--45203077 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
45203004 AGAACTTTGA
*
45203014 ATCTATATCTGATATGCTCTGC
1 ATCTATATCTGATATGCTCTAC
* * *
45203036 ATTTGTATTTGATATGCTCTAC
1 ATCTATATCTGATATGCTCTAC
45203058 ATCTATATCT-ATGATGCTCT
1 ATCTATATCTGAT-ATGCTCT
45203078 GTTTCTGTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
21 2 0.06
22 32 0.94
ACGTcount: A:0.23, C:0.19, G:0.12, T:0.45
Consensus pattern (22 bp):
ATCTATATCTGATATGCTCTAC
Found at i:45212696 original size:67 final size:71
Alignment explanation
Indices: 45212576--45212724 Score: 216
Period size: 67 Copynumber: 2.2 Consensus size: 71
45212566 CAAATAGCAA
* * *
45212576 AATCTTACATTCTAACCAAATGAAATAAATAAATAAAAAGGTAATGTAATATACTTAGTAATGTG
1 AATCTTACATTCCAACCAAATGAAATAAATAAATAAAAAGGTAATATAATATACCTAGTAATGTG
*
45212641 CTAAGT
66 CTAAAT
* *
45212647 AATCTTATATTCCAACCAAATG-AA-ACA-AAA-AAAAAGGTAATATAATATACCTAGTAATGTG
1 AATCTTACATTCCAACCAAATGAAATAAATAAATAAAAAGGTAATATAATATACCTAGTAATGTG
45212708 CTAAAT
66 CTAAAT
45212714 AATCTTACATT
1 AATCTTACATT
45212725 TTGACAATCA
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
67 44 0.62
68 3 0.04
69 2 0.03
70 2 0.03
71 20 0.28
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.30
Consensus pattern (71 bp):
AATCTTACATTCCAACCAAATGAAATAAATAAATAAAAAGGTAATATAATATACCTAGTAATGTG
CTAAAT
Found at i:45217620 original size:11 final size:13
Alignment explanation
Indices: 45217604--45217636 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
45217594 ATTTCACGAA
45217604 AAAATTTCG-T-G
1 AAAATTTCGTTCG
45217615 AAAATTTCGTTCG
1 AAAATTTCGTTCG
45217628 AAAATTTCG
1 AAAATTTCG
45217637 ACATTTGGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.45
12 1 0.05
13 10 0.50
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.36
Consensus pattern (13 bp):
AAAATTTCGTTCG
Found at i:45218809 original size:51 final size:50
Alignment explanation
Indices: 45218749--45219394 Score: 571
Period size: 51 Copynumber: 12.7 Consensus size: 50
45218739 GATGAACACG
* *
45218749 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACA
1 TGTGTAGTACTGTGTGAAGGCTACTATGTGTATCGATAAAT-TTGGTCACA
* * * * ** *
45218800 TGTGTAGTACTGAGTGAAGGCTACAATGTGTACCGAGATGCTTTGGTCACG
1 TGTGTAGTACTGTGTGAAGGCTACTATGTGTATCGATA-AATTTGGTCACA
* * * *
45218851 TGTGTAGTACTGGGTGAAGGCTACTAAGTGAATCGATAAATGATGGTCACA
1 TGTGTAGTACTGTGTGAAGGCTACTATGTGTATCGATAAAT-TTGGTCACA
** * * * * *
45218902 TGTGTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGTCACG
1 TGTGTAGTACTGTGTGAAGGCTACTATGTGTATCGATAA-ATTTGGTCACA
* * * * *
45218953 TGTGTAATACTGTGTGAAGGCTACTACGTGAATTGATAAATAATGGTCACA
1 TGTGTAGTACTGTGTGAAGGCTACTATGTGTATCGATAAAT-TTGGTCACA
** * * * *
45219004 TGTGTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGTCACA
1 TGTGTAGTACTGTGTGAAGGCTACTATGTGTATCGATAA-ATTTGGTCACA
* * * *
45219055 TGTGTAGTACTGTGTGAAGTCTACTACGTGAATCGATAAATGATGGTCACA
1 TGTGTAGTACTGTGTGAAGGCTACTATGTGTATCGATAAAT-TTGGTCACA
** * * * * *
45219106 TGTGTAGTACTAAGTGAAGGCTACGATGTGTACCGAGAAGCTTTGGTCACG
1 TGTGTAGTACTGTGTGAAGGCTACTATGTGTATCGATAA-ATTTGGTCACA
* * *
45219157 TGTGTAGTACTGTGTGAAGGCTACTATGTGAATCGATAAATGATGGCCACA
1 TGTGTAGTACTGTGTGAAGGCTACTATGTGTATCGATAAAT-TTGGTCACA
* *
45219208 TGTGTAGTACTGTGTGAAGGCTACTATGTGTACCGA-AAAGCTTTGGTCACG
1 TGTGTAGTACTGTGTGAAGGCTACTATGTGTATCGATAAA--TTTGGTCACA
* * * * * *
45219259 TGTGTAGTACTATGTGAAGGCTACTACGTG-AACTG-TAAAACTTGATCACG
1 TGTGTAGTACTGTGTGAAGGCTACTATGTGTATC-GAT-AAATTTGGTCACA
* * * * * * *
45219309 TGTGTAGTACTATGTGAAGGCTACTACGTG-AACCATAAAACTTGATCACG
1 TGTGTAGTACTGTGTGAAGGCTACTATGTGTATCGAT-AAATTTGGTCACA
* * *
45219359 TGTGTAGTAATATGTGAAGGCTATTATGTGTATCGA
1 TGTGTAGTACTGTGTGAAGGCTACTATGTGTATCGA
45219395 ATGATAAAAG
Statistics
Matches: 481, Mismatches: 99, Indels: 30
0.79 0.16 0.05
Matches are distributed among these distances:
50 92 0.19
51 381 0.79
52 8 0.02
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTGTGTGAAGGCTACTATGTGTATCGATAAATTTGGTCACA
Found at i:45218921 original size:102 final size:102
Alignment explanation
Indices: 45218745--45219381 Score: 931
Period size: 102 Copynumber: 6.3 Consensus size: 102
45218735 TATCGATGAA
* *
45218745 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
* *
45218810 TGAGTGAAGGCTACAATGTGTACCGAGATGCTTTGGT
66 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
* *
45218847 CACGTGTGTAGTACTGGGTGAAGGCTACTAAGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
45218912 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
66 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
* * *
45218949 CACGTGTGTAATACTGTGTGAAGGCTACTACGTGAATTGATAAATAATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
45219014 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
66 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
* *
45219051 CACATGTGTAGTACTGTGTGAAGTCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
*
45219116 TAAGTGAAGGCTACGATGTGTACCGAGAAGCTTTGGT
66 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
* *
45219153 CACGTGTGTAGTACTGTGTGAAGGCTACTATGTGAATCGATAAATGATGGCCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
** * *
45219218 TGTGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
66 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
* *** * *
45219255 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAA-CTG-TAAAACTTGATCACGTGTGTAGTA
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATC-GATAAATGATGGTCACATGTGTAGTA
* * * * * * *
45219318 CTATGTGAAGGCTACTACGTGAACC-ATAAAAC-TTGAT
65 CTAAGTGAAGGCTACAATGTGTACCGA-GAAGCTTTGGT
* *
45219355 CACGTGTGTAGTAATATGTGAAGGCTA
1 CACGTGTGTAGTACTGTGTGAAGGCTA
45219382 TTATGTGTAT
Statistics
Matches: 494, Mismatches: 39, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
100 31 0.06
101 45 0.09
102 418 0.85
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (102 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
Found at i:45226537 original size:16 final size:18
Alignment explanation
Indices: 45226506--45226538 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
45226496 TTGTTTTATT
45226506 TATTTTATCATTAATTAC
1 TATTTTATCATTAATTAC
45226524 TATTTTA-C-TTAATTA
1 TATTTTATCATTAATTA
45226539 TCCTTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 1 0.07
18 7 0.47
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (18 bp):
TATTTTATCATTAATTAC
Found at i:45227557 original size:219 final size:219
Alignment explanation
Indices: 45227178--45227616 Score: 763
Period size: 219 Copynumber: 2.0 Consensus size: 219
45227168 GAGGCAGCTC
*
45227178 ATTTGTTCCTTAGACATGTGGTGAAATATTGGAGAGTGTCACAGTCTATCATTAATGATTGAGGG
1 ATTTGTTCCTTAGACATGTGGTGAAATATTGGAGAGTGTCACAGTCTATCATTAATGATCGAGGG
*
45227243 GTGATTCACGAGCTGGTTCTGGACGGAGTTGTTCAAGTTAATGGGATCAGACTTGATCTTTTCCA
66 GTGATTCACGAGCTGGTTCTGGACGGAGTTGTTCAAGTTAATAGGATCAGACTTGATCTTTTCCA
*
45227308 CTAGTATACATCCACAAACCGATGGTCAAACATAGTAAGCGAATGCGTTGTCGGGAACGTATCTT
131 CTAGTATACATCCACAAACCGATGGTCAAACATAGCAAGCGAATGCGTTGTCGGGAACGTATCTT
*
45227373 CGGTACTATGTGAGTGCCGCACAA
196 CGGTACTATGTGAGTGCCACACAA
*
45227397 ATTTGTTCCTTAGACATGTGGTGAAATATTAGG-GAGTGTCACAGTCTATCATTAATGATCGATG
1 ATTTGTTCCTTAGACATGTGGTGAAATATT-GGAGAGTGTCACAGTCTATCATTAATGATCGAGG
* * *
45227461 GGTGATTCACGAGCTGGTTCTGGACGGAGTTGTTTAAGTTAATAGGCTCATACTTGATCTTTTCC
65 GGTGATTCACGAGCTGGTTCTGGACGGAGTTGTTCAAGTTAATAGGATCAGACTTGATCTTTTCC
* *
45227526 ACTAGTATACATCCACAAACCGATGGTCAAACATAGCAAGTGAATGCGTTGTCGGGGACGTATCT
130 ACTAGTATACATCCACAAACCGATGGTCAAACATAGCAAGCGAATGCGTTGTCGGGAACGTATCT
*
45227591 TCGGTACTATTTGAGTGCCACACAA
195 TCGGTACTATGTGAGTGCCACACAA
45227616 A
1 A
45227617 AGGACTGGCC
Statistics
Matches: 208, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
219 206 0.99
220 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.31
Consensus pattern (219 bp):
ATTTGTTCCTTAGACATGTGGTGAAATATTGGAGAGTGTCACAGTCTATCATTAATGATCGAGGG
GTGATTCACGAGCTGGTTCTGGACGGAGTTGTTCAAGTTAATAGGATCAGACTTGATCTTTTCCA
CTAGTATACATCCACAAACCGATGGTCAAACATAGCAAGCGAATGCGTTGTCGGGAACGTATCTT
CGGTACTATGTGAGTGCCACACAA
Found at i:45228544 original size:20 final size:19
Alignment explanation
Indices: 45228491--45228547 Score: 64
Period size: 17 Copynumber: 3.1 Consensus size: 19
45228481 AGCTTGGCAC
* *
45228491 ATATGGAATGTAATCTTTG
1 ATATGAAATGTAATCTTAG
*
45228510 A-A-GAAATGCAATCTTAG
1 ATATGAAATGTAATCTTAG
45228527 ATATGAAATGTAAATCTTAG
1 ATATGAAATGT-AATCTTAG
45228547 A
1 A
45228548 AGATATGATT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
17 13 0.42
18 2 0.06
19 7 0.23
20 9 0.29
ACGTcount: A:0.42, C:0.07, G:0.18, T:0.33
Consensus pattern (19 bp):
ATATGAAATGTAATCTTAG
Found at i:45229599 original size:17 final size:17
Alignment explanation
Indices: 45229579--45229613 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
45229569 ATTTAATTAA
45229579 TTTTAAAATAAAATATG
1 TTTTAAAATAAAATATG
* *
45229596 TTTTTACATAAAATATG
1 TTTTAAAATAAAATATG
45229613 T
1 T
45229614 GGGTGTGACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.46
Consensus pattern (17 bp):
TTTTAAAATAAAATATG
Found at i:45230477 original size:14 final size:13
Alignment explanation
Indices: 45230453--45230483 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
45230443 CATTGTACAA
45230453 TATATATAAGAAT
1 TATATATAAGAAT
45230466 TATATGATAAGAAT
1 TATAT-ATAAGAAT
45230480 TATA
1 TATA
45230484 CGAATCCATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.39
Consensus pattern (13 bp):
TATATATAAGAAT
Found at i:45231703 original size:25 final size:27
Alignment explanation
Indices: 45231658--45231712 Score: 62
Period size: 25 Copynumber: 2.1 Consensus size: 27
45231648 GTTGCCAATC
* *
45231658 AATTATTATAAATGATTATTT-TT-TT
1 AATTAATATAAATGATAATTTATTCTT
45231683 AATTAATAT-AATGATGAATTTATTCTT
1 AATTAATATAAATGAT-AATTTATTCTT
45231710 AAT
1 AAT
45231713 ATTTACATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
24 6 0.24
25 12 0.48
26 2 0.08
27 5 0.20
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (27 bp):
AATTAATATAAATGATAATTTATTCTT
Found at i:45233029 original size:2 final size:2
Alignment explanation
Indices: 45233010--45233053 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
45233000 AGTGTGAGTT
* *
45233010 TG TG TT TG TG TT TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
45233052 TG
1 TG
45233054 AGAGAGAGAG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.00, G:0.45, T:0.55
Consensus pattern (2 bp):
TG
Found at i:45245032 original size:16 final size:16
Alignment explanation
Indices: 45245002--45245050 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
45244992 TATATGTATC
45245002 ATAAATATATAAAATTA
1 ATAAATAT-TAAAATTA
45245019 ATAAATATTAAAATCT-
1 ATAAATATTAAAAT-TA
*
45245035 ATAAAT-TTAAACTTA
1 ATAAATATTAAAATTA
45245050 A
1 A
45245051 ATGATAATAC
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
14 1 0.03
15 7 0.24
16 12 0.41
17 9 0.31
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (16 bp):
ATAAATATTAAAATTA
Found at i:45245952 original size:6 final size:7
Alignment explanation
Indices: 45245937--45245964 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
45245927 ATTAAATAGA
45245937 TTTTATT
1 TTTTATT
45245944 TTTTATT
1 TTTTATT
45245951 TTTTATT
1 TTTTATT
45245958 TTTTATT
1 TTTTATT
45245965 CTTCTCTAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTATT
Found at i:45247113 original size:15 final size:15
Alignment explanation
Indices: 45247089--45247135 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
45247079 TTTCAAATTT
45247089 TATT-TATATAT-CA
1 TATTGTATATATACA
45247102 TACTTGTATATATACA
1 TA-TTGTATATATACA
* *
45247118 TATTGTGTAAATACA
1 TATTGTATATATACA
45247133 TAT
1 TAT
45247136 ACATATATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 2 0.07
14 2 0.07
15 21 0.72
16 4 0.14
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (15 bp):
TATTGTATATATACA
Found at i:45250753 original size:25 final size:25
Alignment explanation
Indices: 45250725--45250778 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
45250715 AAATGTGGAC
*
45250725 AAAATAAAACAATAAAATTGTAGAT
1 AAAATAAAACAACAAAATTGTAGAT
* *
45250750 AAAATAAAACCACAAAATTGTGGAT
1 AAAATAAAACAACAAAATTGTAGAT
45250775 AAAA
1 AAAA
45250779 CCATGGTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.63, C:0.07, G:0.09, T:0.20
Consensus pattern (25 bp):
AAAATAAAACAACAAAATTGTAGAT
Found at i:45253412 original size:31 final size:31
Alignment explanation
Indices: 45253377--45253438 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
45253367 AACTTAACTC
45253377 ATGCATCAATAAATAATCCTAGTAACTAGAT
1 ATGCATCAATAAATAATCCTAGTAACTAGAT
45253408 ATGCATCAATAAATAATCCTAGTAACTAGAT
1 ATGCATCAATAAATAATCCTAGTAACTAGAT
45253439 TAATTAAGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.45, C:0.16, G:0.10, T:0.29
Consensus pattern (31 bp):
ATGCATCAATAAATAATCCTAGTAACTAGAT
Found at i:45253710 original size:50 final size:52
Alignment explanation
Indices: 45253585--45253715 Score: 151
Period size: 50 Copynumber: 2.6 Consensus size: 52
45253575 TGAACAAATG
* * *
45253585 AGTTACTTAATGCA-AGACTTAATTTAATGATGCAGACTTAAACTAACATGGG
1 AGTTACATAATGCATA-ACTTTATTTAATGATGCAGACTTAAACTAACATGGA
** * * *
45253637 AGTTACATAATGCATGTCATTATTT-ATGATGCATACTT-AACTAGCATGGA
1 AGTTACATAATGCATAACTTTATTTAATGATGCAGACTTAAACTAACATGGA
*
45253687 AGTTACATAATGCATAACTTTATTAAATG
1 AGTTACATAATGCATAACTTTATTTAATG
45253716 CAGAACACAC
Statistics
Matches: 65, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
50 31 0.48
51 15 0.23
52 19 0.29
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.34
Consensus pattern (52 bp):
AGTTACATAATGCATAACTTTATTTAATGATGCAGACTTAAACTAACATGGA
Found at i:45280991 original size:24 final size:24
Alignment explanation
Indices: 45280941--45280995 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
45280931 TTGATTTCAT
*
45280941 TACAGAAACCATATATCCTGTTACA
1 TACATAAACCATATATCC-GTTACA
*
45280966 TACATAAACCCATATATCC-TTCCA
1 TACATAAA-CCATATATCCGTTACA
45280990 TACATA
1 TACATA
45280996 CACGCAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 10 0.37
25 7 0.26
26 10 0.37
ACGTcount: A:0.40, C:0.27, G:0.04, T:0.29
Consensus pattern (24 bp):
TACATAAACCATATATCCGTTACA
Found at i:45286320 original size:16 final size:16
Alignment explanation
Indices: 45286301--45286334 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
45286291 ATTAATGGGG
45286301 AAGAAAAAGAAAAGAA
1 AAGAAAAAGAAAAGAA
* *
45286317 AAGAAAAATAAAGGAA
1 AAGAAAAAGAAAAGAA
45286333 AA
1 AA
45286335 AAATTGTTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (16 bp):
AAGAAAAAGAAAAGAA
Found at i:45293512 original size:35 final size:36
Alignment explanation
Indices: 45293465--45293537 Score: 130
Period size: 35 Copynumber: 2.1 Consensus size: 36
45293455 CCTAAAGTTT
45293465 TACATTTCTTAACCCCGTAATGCCATCATATTCATA
1 TACATTTCTTAACCCCGTAATGCCATCATATTCATA
*
45293501 TACA-TTCTTAACCCTGTAATGCCATCATATTCATA
1 TACATTTCTTAACCCCGTAATGCCATCATATTCATA
45293536 TA
1 TA
45293538 ATCCATCTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
35 32 0.89
36 4 0.11
ACGTcount: A:0.32, C:0.26, G:0.05, T:0.37
Consensus pattern (36 bp):
TACATTTCTTAACCCCGTAATGCCATCATATTCATA
Found at i:45295811 original size:33 final size:29
Alignment explanation
Indices: 45295726--45295830 Score: 104
Period size: 33 Copynumber: 3.4 Consensus size: 29
45295716 TGTTATTTCA
*
45295726 ATATAATATATATGGGTTTTGGTGTTATAT
1 ATATAATATATAT-GGTTTTGGTTTTATAT
* *
45295756 ATATAATATATAT-GTGTCGGTTTTATTAT
1 ATATAATATATATGGTTTTGGTTTTA-TAT
*
45295785 ATATAATATATATGCGTTTATAGGTTTTGTAT
1 ATATAATATATATG-GTTT-T-GGTTTTATAT
*
45295817 CATCTAATATATAT
1 -ATATAATATATAT
45295831 AAATGTATAT
Statistics
Matches: 62, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
28 9 0.15
29 16 0.26
30 13 0.21
31 3 0.05
32 3 0.05
33 18 0.29
ACGTcount: A:0.32, C:0.04, G:0.14, T:0.50
Consensus pattern (29 bp):
ATATAATATATATGGTTTTGGTTTTATAT
Found at i:45296200 original size:36 final size:36
Alignment explanation
Indices: 45296153--45296228 Score: 109
Period size: 36 Copynumber: 2.1 Consensus size: 36
45296143 GTTATATTGT
* *
45296153 GAACCATGTTAACTTGGTGAAT-TATATTATTATGGC
1 GAACCATGTTAACTTGGTG-ATGTATATTAATATGAC
*
45296189 GAACCATGTTAATTTGGTGATGTATATTAATATGAC
1 GAACCATGTTAACTTGGTGATGTATATTAATATGAC
45296225 GAAC
1 GAAC
45296229 TATATTAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
35 2 0.06
36 34 0.94
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.37
Consensus pattern (36 bp):
GAACCATGTTAACTTGGTGATGTATATTAATATGAC
Found at i:45296237 original size:36 final size:36
Alignment explanation
Indices: 45296153--45296240 Score: 106
Period size: 36 Copynumber: 2.4 Consensus size: 36
45296143 GTTATATTGT
* * * *
45296153 GAACCATGTTAACTTGGTGAATTATATTATTATGGC
1 GAACCATATTAATTTGGTGAATTATATTAATATGAC
*
45296189 GAACCATGTTAATTTGGTG-ATGTATATTAATATGAC
1 GAACCATATTAATTTGGTGAAT-TATATTAATATGAC
*
45296225 GAACTATATTAATTTG
1 GAACCATATTAATTTG
45296241 CCAAACTGTG
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
35 2 0.04
36 44 0.96
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (36 bp):
GAACCATATTAATTTGGTGAATTATATTAATATGAC
Found at i:45296871 original size:17 final size:17
Alignment explanation
Indices: 45296851--45296949 Score: 63
Period size: 17 Copynumber: 5.8 Consensus size: 17
45296841 TTATGATGGA
45296851 GCATGAACTGTTATTTT
1 GCATGAACTGTTATTTT
* * **
45296868 GCATGAATTATTATTCG
1 GCATGAACTGTTATTTT
* * *
45296885 GTATGAATTGGTATTTT
1 GCATGAACTGTTATTTT
** *
45296902 ATATGAACTATTATTTT
1 GCATGAACTGTTATTTT
* ** *
45296919 GCATGAGCTGTCCTTTG
1 GCATGAACTGTTATTTT
*
45296936 GCAAGAACTGTTAT
1 GCATGAACTGTTAT
45296950 ATGCCCATTT
Statistics
Matches: 58, Mismatches: 24, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
17 58 1.00
ACGTcount: A:0.26, C:0.11, G:0.19, T:0.43
Consensus pattern (17 bp):
GCATGAACTGTTATTTT
Found at i:45298603 original size:14 final size:14
Alignment explanation
Indices: 45298581--45298614 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
45298571 TTTAAAAAAA
* *
45298581 ATATGTATATGTGT
1 ATATATATATGTAT
45298595 ATATATATATGTAT
1 ATATATATATGTAT
45298609 ATATAT
1 ATATAT
45298615 GTATATAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (14 bp):
ATATATATATGTAT
Found at i:45298751 original size:20 final size:21
Alignment explanation
Indices: 45298728--45298778 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
45298718 AGAAGAATAT
*
45298728 GTATATATATAAATTATA-AA
1 GTATATATATAAAATATATAA
*
45298748 GTATATA-AAAAAATATATAA
1 GTATATATATAAAATATATAA
*
45298768 GTATGTATATA
1 GTATATATATA
45298779 TATAACAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
19 8 0.32
20 15 0.60
21 2 0.08
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.37
Consensus pattern (21 bp):
GTATATATATAAAATATATAA
Found at i:45298826 original size:3 final size:3
Alignment explanation
Indices: 45298812--45298901 Score: 76
Period size: 3 Copynumber: 28.7 Consensus size: 3
45298802 TAAATGGGTA
* *
45298812 AAT AAA AAT AAT AAT AAGGT AAGT AAT AAT AAT AA- ATAC AAT AAT AAT
1 AAT AAT AAT AAT AAT AA--T AA-T AAT AAT AAT AAT A-AT AAT AAT AAT
* *
45298860 GAT AAT AAT AAT AAT AAGT -TT AAT AAT AAT AAT AAAT AAT AA
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT -AAT AAT AA
45298902 CGGGACTAAA
Statistics
Matches: 73, Mismatches: 7, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
2 2 0.03
3 59 0.81
4 9 0.12
5 3 0.04
ACGTcount: A:0.63, C:0.01, G:0.06, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:45298839 original size:18 final size:17
Alignment explanation
Indices: 45298813--45298901 Score: 89
Period size: 18 Copynumber: 5.4 Consensus size: 17
45298803 AAATGGGTAA
*
45298813 ATAAAAATAATAATAAG
1 ATAATAATAATAATAAG
*
45298830 GTAAGTAATAATAATAA-
1 ATAA-TAATAATAATAAG
*
45298847 AT-ACAATAATAAT--G
1 ATAATAATAATAATAAG
45298861 ATAATAATAATAATAAG
1 ATAATAATAATAATAAG
*
45298878 TTTAATAATAATAATAA-
1 -ATAATAATAATAATAAG
45298895 ATAATAA
1 ATAATAA
45298902 CGGGACTAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 13
0.75 0.09 0.16
Matches are distributed among these distances:
14 2 0.03
15 19 0.32
16 7 0.12
17 5 0.08
18 26 0.44
ACGTcount: A:0.63, C:0.01, G:0.06, T:0.30
Consensus pattern (17 bp):
ATAATAATAATAATAAG
Found at i:45300236 original size:43 final size:43
Alignment explanation
Indices: 45300189--45300290 Score: 141
Period size: 43 Copynumber: 2.4 Consensus size: 43
45300179 TCCACTGCGT
* *
45300189 CTTGTCGCTTCGATCTACTCCACTGCACTTCAGAAAGATATGA
1 CTTGTAGCTTCAATCTACTCCACTGCACTTCAGAAAGATATGA
* * * * *
45300232 CTTGTAGCTTCAATCCACTCTACTGTACTTCAGAAAGGTTTGA
1 CTTGTAGCTTCAATCTACTCCACTGCACTTCAGAAAGATATGA
45300275 CTTGTAGCTTCAATCT
1 CTTGTAGCTTCAATCT
45300291 TCTTCGCAGC
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (43 bp):
CTTGTAGCTTCAATCTACTCCACTGCACTTCAGAAAGATATGA
Found at i:45300834 original size:44 final size:43
Alignment explanation
Indices: 45300674--45300878 Score: 179
Period size: 44 Copynumber: 4.7 Consensus size: 43
45300664 ACCCGCTCCA
* *
45300674 CTGCTCTACTGCAACTTCA-AGGAGGTAGGATTAGTA-ACTTCAAT
1 CTGCTCTACTGCAACTTCAGA-GAGATAAGATTAGTATA--TCAAT
* *
45300718 CTGCTCCACTGCAACTTCAGAGAGATAAGACTTAGTACGATCAAT
1 CTGCTCTACTGCAACTTCAGAGAGATAAGA-TTAGTA-TATCAAT
* * * * *
45300763 CTGCCCCACTGCAACTTCAG-GAGGATAAGATTTGCTATTTCAAC
1 CTGCTCTACTGCAACTTCAGAGA-GATAAGATTAG-TATATCAAT
* *
45300807 CTGCTCTACTGCAACTTCAGAGAGATAA-AGTTTG-ATAT-GAT
1 CTGCTCTACTGCAACTTCAGAGAGATAAGA-TTAGTATATCAAT
* *
45300848 CTGCTCTACTACAACTTCAGAGAGATGAGAT
1 CTGCTCTACTGCAACTTCAGAGAGATAAGAT
45300879 CTGTGGCTCT
Statistics
Matches: 137, Mismatches: 15, Indels: 21
0.79 0.09 0.12
Matches are distributed among these distances:
41 28 0.20
42 4 0.03
43 1 0.01
44 61 0.45
45 42 0.31
47 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (43 bp):
CTGCTCTACTGCAACTTCAGAGAGATAAGATTAGTATATCAAT
Found at i:45300954 original size:44 final size:44
Alignment explanation
Indices: 45300905--45301102 Score: 186
Period size: 44 Copynumber: 4.5 Consensus size: 44
45300895 AAACATTTGC
* * *
45300905 TATCTTCAGTCTGCTACACTGCAACCTCAGTGAGATAAGACTTG
1 TATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG
* * * **
45300949 TATCTTCAATATG-TCCCACTGCAACTTCAGGGGGATAAGGTTTG
1 TATCTTCAGTCTGCT-CCACTGCAACTTCAGGGAGATAAGACTTG
* * *
45300993 ACATCCTCAGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTTG
1 -TATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG
** * **
45301038 TATCTTCAACCTGCCCCACTGCAACTTCAAGGG-GATAAGGTTTG
1 TATCTTCAGTCTGCTCCACTGCAACTTC-AGGGAGATAAGACTTG
45301082 TTATCCTT-AGTCTGCTCCACT
1 -TAT-CTTCAGTCTGCTCCACT
45301103 ACTGCTTAGG
Statistics
Matches: 121, Mismatches: 27, Indels: 11
0.76 0.17 0.07
Matches are distributed among these distances:
43 1 0.01
44 65 0.54
45 51 0.42
46 4 0.03
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (44 bp):
TATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG
Found at i:45301061 original size:89 final size:89
Alignment explanation
Indices: 45300910--45301102 Score: 287
Period size: 89 Copynumber: 2.2 Consensus size: 89
45300900 TTTGCTATCT
* * * *
45300910 TCAGTCTGCTACACTGCAACCTCAGTGAGATAAGACTTGTATCTTCAATATGTCCCACTGCAACT
1 TCAGTCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGTATCTTCAACATGCCCCACTGCAACT
*
45300975 TCAGGGGGATAAGGTTTGACATCC
66 TCAAGGGGATAAGGTTTGACATCC
* * *
45300999 TCAGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGTATCTTCAACCTGCCCCACTGCAACT
1 TCAGTCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGTATCTTCAACATGCCCCACTGCAACT
**
45301064 TCAAGGGGATAAGGTTTGTTATCC
66 TCAAGGGGATAAGGTTTGACATCC
*
45301088 TTAGTCTGCTCCACT
1 TCAGTCTGCTCCACT
45301103 ACTGCTTAGG
Statistics
Matches: 93, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
89 93 1.00
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.30
Consensus pattern (89 bp):
TCAGTCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGTATCTTCAACATGCCCCACTGCAACT
TCAAGGGGATAAGGTTTGACATCC
Found at i:45301233 original size:90 final size:90
Alignment explanation
Indices: 45301114--45301583 Score: 665
Period size: 90 Copynumber: 5.2 Consensus size: 90
45301104 CTGCTTAGGG
* * * * *
45301114 AGACAGGATCTGCAATCTCCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATCTT-
1 AGACAAGACCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTC
* * *
45301178 TGACCTACTTCACTGCCAATACAGGA
66 AG-TCTACTTCGCTGCCAATACAGGA
*
45301204 AGACAAGATCTG-TCATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTT
1 AGACAAGACCTGCT-ATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTT
*
45301268 CAGTCTACTTCGCTACCAATACAGGA
65 CAGTCTACTTCGCTGCCAATACAGGA
* * *
45301294 AGACAAGACCTGCTATCTTCAATCTACTTCGCTGCCGATACAGGAAGACAATATCTGCTATCTTC
1 AGACAAGACCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTC
45301359 AGTCTACTTCGCTGCCAATACAGGA
66 AGTCTACTTCGCTGCCAATACAGGA
* * * * * * *
45301384 AGACAAAACATGCTATCTTTGATCTACTTTGCTGCCAATATAGGAAAACAAGATCTACTATCTTC
1 AGACAAGACCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTC
45301449 AGTCTACTTCGCTGCCAATACAGGA
66 AGTCTACTTCGCTGCCAATACAGGA
* ** * * * *
45301474 GGACAAGACCTGCTATCTTTTATCTACTTTGCTACCGATACAGGAAGACAAAATCTGCTATCTTC
1 AGACAAGACCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTC
45301539 AGTCTACTTCGCTGCCAATACAGGA
66 AGTCTACTTCGCTGCCAATACAGGA
45301564 AGACAAGACCTGCTATCTTC
1 AGACAAGACCTGCTATCTTC
45301584 ACTGATCTGT
Statistics
Matches: 342, Mismatches: 35, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
90 340 0.99
91 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.27
Consensus pattern (90 bp):
AGACAAGACCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTC
AGTCTACTTCGCTGCCAATACAGGA
Found at i:45301583 original size:45 final size:45
Alignment explanation
Indices: 45301114--45301584 Score: 596
Period size: 45 Copynumber: 10.5 Consensus size: 45
45301104 CTGCTTAGGG
* * *
45301114 AGACAGGATCTGCAATC-TCCGATCTACTTCGCTGCCAATACAGGA
1 AGACAAGATCTGCTATCTTCAG-TCTACTTCGCTGCCAATACAGGA
* * * *
45301159 AGACAAGATCTGTTATCTT-TGACCTACTTCACTGCCAATACAGGA
1 AGACAAGATCTGCTATCTTCAG-TCTACTTCGCTGCCAATACAGGA
45301204 AGACAAGATCTG-TCATCTTC-GATCTACTTCGCTGCCAATACAGGA
1 AGACAAGATCTGCT-ATCTTCAG-TCTACTTCGCTGCCAATACAGGA
*
45301249 AGACAAGATCTGCTATCTTCAGTCTACTTCGCTACCAATACAGGA
1 AGACAAGATCTGCTATCTTCAGTCTACTTCGCTGCCAATACAGGA
* * *
45301294 AGACAAGACCTGCTATCTTCAATCTACTTCGCTGCCGATACAGGA
1 AGACAAGATCTGCTATCTTCAGTCTACTTCGCTGCCAATACAGGA
*
45301339 AGACAATATCTGCTATCTTCAGTCTACTTCGCTGCCAATACAGGA
1 AGACAAGATCTGCTATCTTCAGTCTACTTCGCTGCCAATACAGGA
* * * *
45301384 AGACAA-AACATGCTATCTT-TGATCTACTTTGCTGCCAATATAGGA
1 AGACAAGATC-TGCTATCTTCAG-TCTACTTCGCTGCCAATACAGGA
* *
45301429 AAACAAGATCTACTATCTTCAGTCTACTTCGCTGCCAATACAGGA
1 AGACAAGATCTGCTATCTTCAGTCTACTTCGCTGCCAATACAGGA
* * * * * *
45301474 GGACAAGACCTGCTATCTTTTA-TCTACTTTGCTACCGATACAGGA
1 AGACAAGATCTGCTATC-TTCAGTCTACTTCGCTGCCAATACAGGA
*
45301519 AGACAAAATCTGCTATCTTCAGTCTACTTCGCTGCCAATACAGGA
1 AGACAAGATCTGCTATCTTCAGTCTACTTCGCTGCCAATACAGGA
*
45301564 AGACAAGACCTGCTATCTTCA
1 AGACAAGATCTGCTATCTTCA
45301585 CTGATCTGTT
Statistics
Matches: 371, Mismatches: 44, Indels: 22
0.85 0.10 0.05
Matches are distributed among these distances:
44 7 0.02
45 355 0.96
46 9 0.02
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.27
Consensus pattern (45 bp):
AGACAAGATCTGCTATCTTCAGTCTACTTCGCTGCCAATACAGGA
Found at i:45303560 original size:12 final size:12
Alignment explanation
Indices: 45303539--45303572 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
45303529 TATATATTTT
*
45303539 AAAATTATATAA
1 AAAATAATATAA
45303551 AAAATAATATAA
1 AAAATAATATAA
*
45303563 AAATTAATAT
1 AAAATAATAT
45303573 GGCGGGTCGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:45307890 original size:17 final size:19
Alignment explanation
Indices: 45307868--45307913 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 19
45307858 CTGTAAGATA
45307868 AATATTAAAATAA-A-TTT
1 AATATTAAAATAATATTTT
*
45307885 AATATTAAGATAATTATTTT
1 AATATTAAAATAA-TATTTT
45307905 AATATTAAA
1 AATATTAAA
45307914 TTAACAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 12 0.50
19 1 0.04
20 11 0.46
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (19 bp):
AATATTAAAATAATATTTT
Found at i:45307891 original size:52 final size:50
Alignment explanation
Indices: 45307781--45307892 Score: 118
Period size: 52 Copynumber: 2.2 Consensus size: 50
45307771 TAATCACTTC
* * * *
45307781 AATATTAAATTAATATAATACTTATCAAGATAAATATTAGATTAATATTA
1 AATATTAAATCAATAGAATACTTATCAAGATAAATATTAAAATAATATTA
* *
45307831 AATCTATTAAATCAATAGAATATTTATCTGTAAGATAAATATTAAAATAA-ATTT
1 AA--TATTAAATCAATAGAATACTTATC---AAGATAAATATTAAAATAATATTA
45307885 AATATTAA
1 AATATTAA
45307893 GATAATTATT
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
50 2 0.04
52 27 0.53
54 5 0.10
55 17 0.33
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.39
Consensus pattern (50 bp):
AATATTAAATCAATAGAATACTTATCAAGATAAATATTAAAATAATATTA
Found at i:45308377 original size:19 final size:18
Alignment explanation
Indices: 45308353--45308389 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
45308343 GAAAATATCA
45308353 TATTAATTTTAATTAATTT
1 TATTAA-TTTAATTAATTT
*
45308372 TATTAATTTAATTTATTT
1 TATTAATTTAATTAATTT
45308390 GATAAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TATTAATTTAATTAATTT
Found at i:45312731 original size:18 final size:17
Alignment explanation
Indices: 45312705--45312752 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
45312695 TAAAAATAAA
45312705 AACGTTTTGAAATTGAAT
1 AACGTTTTGAAA-TGAAT
*
45312723 AACGATTTGTAAATGAAT
1 AACGTTTTG-AAATGAAT
*
45312741 AATGTTTTGAAA
1 AACGTTTTGAAA
45312753 ACGAACGACA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 3 0.12
18 20 0.77
19 3 0.12
ACGTcount: A:0.42, C:0.04, G:0.17, T:0.38
Consensus pattern (17 bp):
AACGTTTTGAAATGAAT
Found at i:45313076 original size:29 final size:29
Alignment explanation
Indices: 45313039--45313095 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
45313029 GTATTTTAAC
*
45313039 TTAATAATGTCTATTTATAAGGTAAAAAG
1 TTAAAAATGTCTATTTATAAGGTAAAAAG
45313068 TTAAAAATGTCTATTTATAAGGTAAAAA
1 TTAAAAATGTCTATTTATAAGGTAAAAA
45313096 TAATATATTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.47, C:0.04, G:0.12, T:0.37
Consensus pattern (29 bp):
TTAAAAATGTCTATTTATAAGGTAAAAAG
Found at i:45314267 original size:14 final size:14
Alignment explanation
Indices: 45314248--45314297 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
45314238 ATTACAATAT
*
45314248 TTAATTTAGAATTA
1 TTAATTTAAAATTA
45314262 TTAATTTAAAATT-
1 TTAATTTAAAATTA
* *
45314275 TTAGAATTATAATTA
1 TTA-ATTTAAAATTA
45314290 -TAATTTAA
1 TTAATTTAA
45314298 TTATACATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
13 7 0.24
14 22 0.76
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (14 bp):
TTAATTTAAAATTA
Found at i:45314290 original size:6 final size:6
Alignment explanation
Indices: 45314279--45314328 Score: 52
Period size: 6 Copynumber: 8.7 Consensus size: 6
45314269 AAAATTTTAG
**
45314279 AATTAT AATTAT AATT-T AATTAT ACATT-T AAAAAT AATTAT AATT-T
1 AATTAT AATTAT AATTAT AATTAT A-ATTAT AATTAT AATTAT AATTAT
45314325 AATT
1 AATT
45314329 GAAGTTTTGA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
5 11 0.30
6 23 0.62
7 3 0.08
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (6 bp):
AATTAT
Found at i:45314300 original size:11 final size:12
Alignment explanation
Indices: 45314279--45314328 Score: 52
Period size: 11 Copynumber: 4.3 Consensus size: 12
45314269 AAAATTTTAG
45314279 AATTATAATTAT
1 AATTATAATTAT
45314291 AATT-TAATTAT
1 AATTATAATTAT
**
45314302 ACATT-TAAAAAT
1 A-ATTATAATTAT
45314314 AATTATAATT-T
1 AATTATAATTAT
45314325 AATT
1 AATT
45314329 GAAGTTTTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
11 16 0.50
12 16 0.50
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (12 bp):
AATTATAATTAT
Found at i:45315589 original size:3 final size:3
Alignment explanation
Indices: 45315581--45315611 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
45315571 TAATATTTCC
45315581 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
45315612 ATTTTTTACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:45318094 original size:34 final size:34
Alignment explanation
Indices: 45318051--45318166 Score: 196
Period size: 34 Copynumber: 3.4 Consensus size: 34
45318041 CAACGACATA
* *
45318051 AGAAGGCATACAACATGACAACCACATCCTAACG
1 AGAAGGCATACGACATGACAGCCACATCCTAACG
* *
45318085 AGAAGGCATACGACATGATAGCGACATCCTAACG
1 AGAAGGCATACGACATGACAGCCACATCCTAACG
45318119 AGAAGGCATACGACATGACAGCCACATCCTAACG
1 AGAAGGCATACGACATGACAGCCACATCCTAACG
45318153 AGAAGGCATACGAC
1 AGAAGGCATACGAC
45318167 GTCACAATGA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 76 1.00
ACGTcount: A:0.41, C:0.27, G:0.21, T:0.12
Consensus pattern (34 bp):
AGAAGGCATACGACATGACAGCCACATCCTAACG
Found at i:45319204 original size:24 final size:24
Alignment explanation
Indices: 45319172--45319218 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
45319162 TACATCTTTG
*
45319172 TAATATATATGTACATATATTTTA
1 TAATATATATATACATATATTTTA
*
45319196 TAATTTATATATACATATATTTT
1 TAATATATATATACATATATTTT
45319219 TGTATTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.53
Consensus pattern (24 bp):
TAATATATATATACATATATTTTA
Found at i:45319452 original size:24 final size:23
Alignment explanation
Indices: 45319416--45319460 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
45319406 ATACTTTATT
* *
45319416 ATTTTTATAATTTTGTTCATGTTC
1 ATTTTGATAA-TTTATTCATGTTC
*
45319440 ATTTTGATTATTTATTCATGT
1 ATTTTGATAATTTATTCATGT
45319461 CTTTATCATT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 10 0.56
24 8 0.44
ACGTcount: A:0.22, C:0.07, G:0.09, T:0.62
Consensus pattern (23 bp):
ATTTTGATAATTTATTCATGTTC
Found at i:45326545 original size:20 final size:20
Alignment explanation
Indices: 45326517--45326555 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
45326507 GAAGAGAGAG
45326517 AAAAGAAAATAATAAAACAT
1 AAAAGAAAATAATAAAACAT
* *
45326537 AAAATAAAATAATATAACA
1 AAAAGAAAATAATAAAACA
45326556 ACAACTCCCC
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:0.74, C:0.05, G:0.03, T:0.18
Consensus pattern (20 bp):
AAAAGAAAATAATAAAACAT
Found at i:45328091 original size:21 final size:20
Alignment explanation
Indices: 45327995--45328133 Score: 62
Period size: 19 Copynumber: 7.0 Consensus size: 20
45327985 TTATTTATAT
*
45327995 GTTATAAAAATATGA-AATAA
1 GTTATAAAAATAT-ATAAAAA
* *
45328015 -TTATAAAAATATTTTAGAAA
1 GTTATAAAAATA-TATAAAAA
*
45328035 -TTA-AATTAAATTTATTAAAAA
1 GTTATAA--AAATATA-TAAAAA
*
45328056 -TT-TAAAAAAACTATAAAAA
1 GTTATAAAAATA-TATAAAAA
**
45328075 GTTATATAAAATATAT-ATGA
1 GTTATA-AAAATATATAAAAA
*
45328095 -TTATAAAAATTATTTAAAAA
1 GTTATAAAAA-TATATAAAAA
*
45328115 GTTATAAACAT-TATAAAAA
1 GTTATAAAAATATATAAAAA
45328134 ATATAGAAAT
Statistics
Matches: 90, Mismatches: 16, Indels: 27
0.68 0.12 0.20
Matches are distributed among these distances:
18 4 0.04
19 38 0.42
20 17 0.19
21 26 0.29
22 5 0.06
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.36
Consensus pattern (20 bp):
GTTATAAAAATATATAAAAA
Found at i:45328106 original size:9 final size:9
Alignment explanation
Indices: 45327996--45328144 Score: 61
Period size: 9 Copynumber: 15.2 Consensus size: 9
45327986 TATTTATATG
45327996 TTATAAAAA
1 TTATAAAAA
45328005 -TATGAAATAA
1 TTAT-AAA-AA
45328015 TTATAAAAATA
1 TTAT-AAAA-A
* *
45328026 TTTTAGAAA
1 TTATAAAAA
45328035 TTA-AATTAAA
1 TTATAA--AAA
45328045 TTTATTAAAAA
1 -TTA-TAAAAA
*
45328056 TTTAAAAAAA
1 -TTATAAAAA
*
45328066 CTATAAAAA
1 TTATAAAAA
45328075 GTTATATAAAA
1 -TTATA-AAAA
**
45328086 -TATATATGA
1 TTATA-AAAA
45328095 TTATAAAAA
1 TTATAAAAA
45328104 TTATTTAAAAA
1 TTA--TAAAAA
*
45328115 GTTATAAACA
1 -TTATAAAAA
45328125 TTATAAAAA
1 TTATAAAAA
* *
45328134 ATATAGAAA
1 TTATAAAAA
45328143 TT
1 TT
45328145 TTTTATTATT
Statistics
Matches: 107, Mismatches: 18, Indels: 30
0.69 0.12 0.19
Matches are distributed among these distances:
8 4 0.04
9 41 0.38
10 27 0.25
11 30 0.28
12 3 0.03
13 2 0.02
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.36
Consensus pattern (9 bp):
TTATAAAAA
Found at i:45328134 original size:21 final size:21
Alignment explanation
Indices: 45328095--45328134 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
45328085 ATATATATGA
**
45328095 TTATAAAAATTATTTAAAAAG
1 TTATAAAAATTATAAAAAAAG
*
45328116 TTATAAACATTATAAAAAA
1 TTATAAAAATTATAAAAAA
45328135 TATAGAAATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (21 bp):
TTATAAAAATTATAAAAAAAG
Found at i:45328746 original size:29 final size:28
Alignment explanation
Indices: 45328707--45328774 Score: 86
Period size: 31 Copynumber: 2.4 Consensus size: 28
45328697 AAGTCCCATG
45328707 TGTAT-AATTGCACCA-AAACAAAGTTTA
1 TGTATAAATTGCA-CATAAACAAAGTTTA
45328734 TGTATCAAATTGCACATTGAAACAAAGTTTA
1 TGTAT-AAATTGCACA-T-AAACAAAGTTTA
45328765 TGTATAAATT
1 TGTATAAATT
45328775 TGATATTTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
27 5 0.14
28 2 0.06
29 7 0.19
30 5 0.14
31 17 0.47
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.34
Consensus pattern (28 bp):
TGTATAAATTGCACATAAACAAAGTTTA
Found at i:45328865 original size:21 final size:20
Alignment explanation
Indices: 45328819--45328858 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
45328809 AAAGTGTTAT
45328819 AAAAATTTAGAAAATTATAGG
1 AAAAATTTAGAAAATTATA-G
*
45328840 AAAAATTTATGTAAATTAT
1 AAAAATTTA-GAAAATTAT
45328859 TAAAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.35
Consensus pattern (20 bp):
AAAAATTTAGAAAATTATAG
Found at i:45328865 original size:22 final size:21
Alignment explanation
Indices: 45328819--45328867 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
45328809 AAAGTGTTAT
*
45328819 AAAAATTTAGAAAATTATAGG
1 AAAAATTTAGAAAATTATAGA
*
45328840 AAAAATTTATGTAAATTATTA-A
1 AAAAATTTA-GAAAATTA-TAGA
45328862 AAAAAT
1 AAAAAT
45328868 ATTTAATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 9 0.38
22 13 0.54
23 2 0.08
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.33
Consensus pattern (21 bp):
AAAAATTTAGAAAATTATAGA
Found at i:45329160 original size:29 final size:31
Alignment explanation
Indices: 45329096--45329160 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 31
45329086 TGGAAAATTA
* *
45329096 TAATTCATGGGCTCCATTGATTGCTAATTTT
1 TAATTAATGGGCTCAATTGATTGCTAATTTT
*
45329127 CAATTAATGGG-TCAATTGATTGC-AATTTT
1 TAATTAATGGGCTCAATTGATTGCTAATTTT
45329156 TAATT
1 TAATT
45329161 GGGGTTTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 10 0.33
30 11 0.37
31 9 0.30
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (31 bp):
TAATTAATGGGCTCAATTGATTGCTAATTTT
Found at i:45330084 original size:32 final size:32
Alignment explanation
Indices: 45330048--45330111 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
45330038 AATATTATTT
45330048 TATATTATTTAAT-AATTTTT-AAATTTTAAAAA
1 TATATT-TTT-ATGAATTTTTAAAATTTTAAAAA
*
45330080 TATATTTTTTTGAATTTTTAAAATTTTAAAAA
1 TATATTTTTATGAATTTTTAAAATTTTAAAAA
45330112 CTAATTAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
30 1 0.03
31 10 0.34
32 18 0.62
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (32 bp):
TATATTTTTATGAATTTTTAAAATTTTAAAAA
Found at i:45344780 original size:96 final size:96
Alignment explanation
Indices: 45344501--45344876 Score: 560
Period size: 96 Copynumber: 3.9 Consensus size: 96
45344491 AGGATTTAAG
* * *
45344501 TTAATTATAAATTTTAAAAAAATTAGATTAGAGTTTAGCGTTTATGGTTTTTAAGGGAAAAAAAA
1 TTAATTATAAATTTTAAAAAAATTAGATTAGGGTTTAGTGTTTAGGGTTTTTAA-GG---AAAAA
**
45344566 AGAAATAAATTAGGGTTTAGGGTTACTTGAGTAAA
62 TCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAA
* * *
45344601 TTAATTATAAA-TTTAAAAAAA-AAGATTAGGGTTTAAG-GTTTAGGGTTTTTAAGAAAAAAATT
1 TTAATTATAAATTTTAAAAAAATTAGATTAGGGTTT-AGTGTTTAGGGTTTTTAAG-GAAAAATC
45344663 AAATAAATTAGGGTTTAGGGTTACTTGAGTAAA
64 AAATAAATTAGGGTTTAGGGTTACTTGAGTAAA
*
45344696 TTAATTATAAATTTTAAAAAAATTAGACTAGGGTTTAGTGTTTAGGGTTTTTAAGGAAAAATCAA
1 TTAATTATAAATTTTAAAAAAATTAGATTAGGGTTTAGTGTTTAGGGTTTTTAAGGAAAAATCAA
*
45344761 ATAAATTAGGGTTTGGGGTTACTTGAGTAAA
66 ATAAATTAGGGTTTAGGGTTACTTGAGTAAA
* *
45344792 TTAATTATAAATTTTTAAAAAATTAGATTATGGTTTAGTGTTTAGGGTTTTTAAGGAAAAATCAA
1 TTAATTATAAATTTTAAAAAAATTAGATTAGGGTTTAGTGTTTAGGGTTTTTAAGGAAAAATCAA
*
45344857 ATAAATTAGGGTTTGGGGTT
66 ATAAATTAGGGTTTAGGGTT
45344877 TAAGGTTACT
Statistics
Matches: 257, Mismatches: 14, Indels: 14
0.90 0.05 0.05
Matches are distributed among these distances:
95 49 0.19
96 132 0.51
97 28 0.11
98 25 0.10
99 12 0.05
100 11 0.04
ACGTcount: A:0.41, C:0.02, G:0.20, T:0.38
Consensus pattern (96 bp):
TTAATTATAAATTTTAAAAAAATTAGATTAGGGTTTAGTGTTTAGGGTTTTTAAGGAAAAATCAA
ATAAATTAGGGTTTAGGGTTACTTGAGTAAA
Found at i:45345266 original size:126 final size:126
Alignment explanation
Indices: 45344916--45345577 Score: 1121
Period size: 126 Copynumber: 5.3 Consensus size: 126
45344906 TTTAAAAAAT
* * * * *
45344916 CTCCCACGTGGATGCTCTTTTACTACAGTAGTTCCTGAAAAAATAATTTTGAGAATACGTTTCTG
1 CTCCCACGTGGACGCTCTTTTGCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGATGTTTCTG
* ** * * ** *
45344981 AGCAAATAGTATCAAAAACATTTTAAGCAGGATGCATTGTCAGTGAAAA-TACTGAAAGAAA
66 AGCAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAATGTCA-ACAAAAGTACTGAAAGAAG
45345042 CTCCCACGTGGACGCTCTTTTGCTACAGTAGTTTCTG-AAAAATAATTTTGAGAAGATGTTTCTG
1 CTCCCACGTGGACGCTCTTTTGCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGATGTTTCTG
45345106 AGCAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAATGTCAACAAAAGTACTGAAAGAAG
66 AGCAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAATGTCAACAAAAGTACTGAAAGAAG
45345167 CTCCCACGTGGACGCTCTTTTGCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGATGTTTCTG
1 CTCCCACGTGGACGCTCTTTTGCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGATGTTTCTG
45345232 AGCAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAATGTCAACAAAAGTACTGAAAGAAG
66 AGCAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAATGTCAACAAAAGTACTGAAAGAAG
* *
45345293 CTCCCACGTGGACGCTCTTTTGCTACAGTAGTTTCTGAAAAAATATTTTTGAGAAGATTTTTCTG
1 CTCCCACGTGGACGCTCTTTTGCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGATGTTTCTG
*
45345358 AGCAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAATGTCAGCAAAAGTACTGAAAGAAG
66 AGCAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAATGTCAACAAAAGTACTGAAAGAAG
* *
45345419 CTCCCACGTGGACGCTCTTTTGCTACAGTAGTTTTTGAAAAAATAATTTTGAGAAGATTTTTCTG
1 CTCCCACGTGGACGCTCTTTTGCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGATGTTTCTG
* *
45345484 AGCAAATAGTGTCAAAAACACTTCAAGCAGGATGCAATGTCAGCAAAAGTACTGAAAGAAG
66 AGCAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAATGTCAACAAAAGTACTGAAAGAAG
45345545 CTCCCACGTGGACGCTCTTTTGCTACAGTAGTT
1 CTCCCACGTGGACGCTCTTTTGCTACAGTAGTT
45345578 CATATTTGGC
Statistics
Matches: 515, Mismatches: 19, Indels: 4
0.96 0.04 0.01
Matches are distributed among these distances:
124 4 0.01
125 110 0.21
126 401 0.78
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.28
Consensus pattern (126 bp):
CTCCCACGTGGACGCTCTTTTGCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGATGTTTCTG
AGCAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAATGTCAACAAAAGTACTGAAAGAAG
Found at i:45348869 original size:21 final size:21
Alignment explanation
Indices: 45348845--45348906 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
45348835 TTGTCCAGCT
*
45348845 TCCGGCAGGGGTTGTGGTTGC
1 TCCGGCAGGGGTTCTGGTTGC
* *
45348866 TCCGGC-GAGGATTCTGGTTCC
1 TCCGGCAG-GGGTTCTGGTTGC
* *
45348887 TCCGGTAGGGGATCTGGTTG
1 TCCGGCAGGGGTTCTGGTTG
45348907 TCAATGTTGT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.08, C:0.21, G:0.42, T:0.29
Consensus pattern (21 bp):
TCCGGCAGGGGTTCTGGTTGC
Found at i:45351547 original size:34 final size:35
Alignment explanation
Indices: 45351503--45351569 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
45351493 CAGTAAAATA
* *
45351503 TTTTCCGTAAAATG-ATTTCTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGAATTACTGGAAAATATTTTAC
*
45351537 TTTTCTGTAAAATGAATTACTGGAAAATATTTT
1 TTTTCCGTAAAATGAATTACTGGAAAATATTTT
45351570 CTAGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 13 0.45
35 16 0.55
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGAATTACTGGAAAATATTTTAC
Found at i:45351556 original size:20 final size:20
Alignment explanation
Indices: 45351518--45351557 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
45351508 CGTAAAATGA
**
45351518 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGAATTACT
*
45351538 TTTCTGTAAAATGAATTACT
1 TTTCTGGAAAATGAATTACT
45351558 GGAAAATATT
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:0.30, C:0.10, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAATGAATTACT
Found at i:45355230 original size:13 final size:12
Alignment explanation
Indices: 45355196--45355231 Score: 63
Period size: 12 Copynumber: 2.9 Consensus size: 12
45355186 GAAAAGAAAC
45355196 CCTAGCGCCGCA
1 CCTAGCGCCGCA
45355208 CCTAGCGCCGCA
1 CCTAGCGCCGCA
45355220 CCTAGGCGCCGC
1 CCTA-GCGCCGC
45355232 CCCTTTGACC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 16 0.70
13 7 0.30
ACGTcount: A:0.14, C:0.50, G:0.28, T:0.08
Consensus pattern (12 bp):
CCTAGCGCCGCA
Found at i:45356238 original size:3 final size:3
Alignment explanation
Indices: 45356230--45356272 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
45356220 TAATGTTACC
* *
45356230 ATT ATT ATT ATT ATT ATT ACT ATT ATT ATT ATC ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
45356273 CATTTAATCT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:45364314 original size:3 final size:3
Alignment explanation
Indices: 45364306--45364384 Score: 54
Period size: 3 Copynumber: 25.7 Consensus size: 3
45364296 TTAGCATTTT
* *
45364306 TTA TTA TTA TTTA GTTA TTA TTA TCA TTA TTA TCT- TTA CTA TTA TTA
1 TTA TTA TTA -TTA -TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
* * * *
45364353 TTA -TA TTTA TTA ATA CTA TTG TTA GTA TTA TT
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TT
45364385 GTTTTCTTAT
Statistics
Matches: 59, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
2 3 0.05
3 47 0.80
4 9 0.15
ACGTcount: A:0.30, C:0.05, G:0.04, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:45364761 original size:15 final size:14
Alignment explanation
Indices: 45364727--45364774 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 14
45364717 TTTCTTTGTT
45364727 TTTTTATTGTATTTA
1 TTTTTATT-TATTTA
45364742 CTTTTTATTTATTTCA
1 -TTTTTATTTATTT-A
*
45364758 TTTTCA-TTATTTA
1 TTTTTATTTATTTA
45364771 TTTT
1 TTTT
45364775 GAATGAATGA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
13 5 0.17
14 6 0.20
15 10 0.33
16 9 0.30
ACGTcount: A:0.19, C:0.06, G:0.02, T:0.73
Consensus pattern (14 bp):
TTTTTATTTATTTA
Found at i:45365742 original size:18 final size:19
Alignment explanation
Indices: 45365702--45365746 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
45365692 ATATAATTTT
45365702 TTAAAATATATATAATACA
1 TTAAAATATATATAATACA
*
45365721 TTAAAA-ATACTA-AATACG
1 TTAAAATATA-TATAATACA
45365739 TTAAAATA
1 TTAAAATA
45365747 AATGTTTCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 14 0.61
19 9 0.39
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.33
Consensus pattern (19 bp):
TTAAAATATATATAATACA
Found at i:45386918 original size:33 final size:33
Alignment explanation
Indices: 45386863--45386929 Score: 102
Period size: 33 Copynumber: 2.0 Consensus size: 33
45386853 TGAATAGGTT
45386863 GCTCCCCCTTAATAAAAGTCATTTTCAATTTAA
1 GCTCCCCCTTAATAAAAGTCATTTTCAATTTAA
45386896 GCTCCCCC-TATATGAAAA-TCATTTTCAATTTAA
1 GCTCCCCCTTA-AT-AAAAGTCATTTTCAATTTAA
45386929 G
1 G
45386930 GCATAAAGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
32 2 0.06
33 26 0.81
34 4 0.12
ACGTcount: A:0.33, C:0.24, G:0.07, T:0.36
Consensus pattern (33 bp):
GCTCCCCCTTAATAAAAGTCATTTTCAATTTAA
Found at i:45397864 original size:21 final size:21
Alignment explanation
Indices: 45397811--45397864 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 21
45397801 AGACCTAATA
* * *
45397811 GAAACCCTTAAGGGTTGAATG
1 GAAACCCATAAGAGTTGAACG
* * *
45397832 GAAGCTCGTAAGAGTTGAACG
1 GAAACCCATAAGAGTTGAACG
45397853 GAAACCCATAAG
1 GAAACCCATAAG
45397865 GGTTAAATAG
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.19
Consensus pattern (21 bp):
GAAACCCATAAGAGTTGAACG
Found at i:45397887 original size:42 final size:41
Alignment explanation
Indices: 45397811--45397910 Score: 110
Period size: 42 Copynumber: 2.4 Consensus size: 41
45397801 AGACCTAATA
* * * ** *
45397811 GAAACCCTTAAGGGTTGAATGGAAGCTCGTAAGAGTTGAAC
1 GAAACCCATAAGGGTTAAATAGAAGCTCAAAAGAGCTGAAC
45397852 GGAAACCCATAAGGGTTAAATAGAAGCTCAAAAGAGCTGAAC
1 -GAAACCCATAAGGGTTAAATAGAAGCTCAAAAGAGCTGAAC
* *
45397894 AAAATCCCATGAGGGTT
1 GAAA-CCCATAAGGGTT
45397911 GAACGGAAAC
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
41 3 0.06
42 46 0.94
ACGTcount: A:0.39, C:0.16, G:0.26, T:0.19
Consensus pattern (41 bp):
GAAACCCATAAGGGTTAAATAGAAGCTCAAAAGAGCTGAAC
Found at i:45400393 original size:20 final size:20
Alignment explanation
Indices: 45400365--45400413 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
45400355 TAGAGCAGGA
*
45400365 ATATCGATACCTTAGGAAAT
1 ATATCGATACCTTAAGAAAT
*
45400385 ATATTGATACCTTAAGAAA-
1 ATATCGATACCTTAAGAAAT
45400404 AGTATCGATA
1 A-TATCGATA
45400414 TTGGATCGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 1 0.04
20 24 0.96
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31
Consensus pattern (20 bp):
ATATCGATACCTTAAGAAAT
Found at i:45403706 original size:115 final size:114
Alignment explanation
Indices: 45403160--45403731 Score: 828
Period size: 114 Copynumber: 5.0 Consensus size: 114
45403150 AAAATAAGAA
** * * * *
45403160 TTAGCGGCGTTTTCCAGAAAGCGCCG--AAAAAACCTAAGCCCAACGACACCGTTTACCGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCTGTTTTCTGAGCTT
45403223 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
66 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
* * * **
45403272 TTAGTGGCGTTTCTGAGAAAGCGCCGCAAAAAAACCAAAGCCCAACGGTGCTGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCTGTTTTCTGAGCTT
* * *
45403337 TCGGGGATTTAGTGGCGTTTTTAAGAAAGCGTCGCTAATGTTCAGGGCT
66 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
* ** **
45403386 TTAGCGGCGTTTTTGAGAAAGCGCCACAAAAAAACCTAAGCCCAACGTTGCCATTTTCTGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCTGTTTTCTGAGCTT
* * *
45403451 TCGGAGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATG-TGCAGGGCG
66 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCT-CAGGGCT
* *
45403500 TTAGCGGCGTTTTTGAGGAAGCGCCGCAAAAAAACCTAAGCCCAACGGCG-TCGTTTTCTGAGCT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCT-GTTTTCTGAGCT
*
45403564 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGAT
65 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
* *
45403614 TTAGCGGTGTTTTTGAGAAAGCGCCTCAAAAAAAACCTAAGCCCAACGACGCTGTTTTCTGAGCT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGC-AAAAAAACCTAAGCCCAACGACGCTGTTTTCTGAGCT
* *
45403679 TTCGAGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGAT
65 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
45403729 TTA
1 TTA
45403732 AAATAATTTA
Statistics
Matches: 412, Mismatches: 41, Indels: 11
0.89 0.09 0.02
Matches are distributed among these distances:
112 22 0.05
113 1 0.00
114 301 0.73
115 87 0.21
116 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (114 bp):
TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCTGTTTTCTGAGCTT
TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
Done.