Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 172 of 208
Found at i:52416533 original size:27 final size:28
Alignment explanation
Indices: 52416503--52416561 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 28
52416493 TAAATATAGT
*
52416503 AATG-AAGAATTTATAGTATACGATTAA
1 AATGCAAGAATTTATAGTATACAATTAA
*
52416530 AATGCTAATAATTTATAGTATACAATTAA
1 AATGC-AAGAATTTATAGTATACAATTAA
52416559 AAT
1 AAT
52416562 ATTATAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 4 0.14
29 24 0.86
ACGTcount: A:0.49, C:0.05, G:0.10, T:0.36
Consensus pattern (28 bp):
AATGCAAGAATTTATAGTATACAATTAA
Found at i:52418809 original size:15 final size:15
Alignment explanation
Indices: 52418785--52418815 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
52418775 CAGGATGCTG
*
52418785 ACCAAGAGTTGAAGA
1 ACCAAAAGTTGAAGA
52418800 ACCAAAAGTTGAAGA
1 ACCAAAAGTTGAAGA
52418815 A
1 A
52418816 TTGAATAGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.13, G:0.23, T:0.13
Consensus pattern (15 bp):
ACCAAAAGTTGAAGA
Found at i:52421477 original size:12 final size:12
Alignment explanation
Indices: 52421442--52421482 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
52421432 ATTATAATTA
*
52421442 AAATTAAGTACT
1 AAATTAAATACT
52421454 AAA--AAA-ACT
1 AAATTAAATACT
52421463 AAATTAAATACT
1 AAATTAAATACT
52421475 AAATTAAA
1 AAATTAAA
52421483 AAAATAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
9 6 0.24
10 2 0.08
11 3 0.12
12 14 0.56
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.27
Consensus pattern (12 bp):
AAATTAAATACT
Found at i:52422898 original size:50 final size:49
Alignment explanation
Indices: 52422837--52423029 Score: 170
Period size: 50 Copynumber: 3.9 Consensus size: 49
52422827 CTGTGGCGCT
* * * *
52422837 AGGGAAATAAGATTCACTGTTGTAGCTTTAATCTGTTCCACTGCACCTCC
1 AGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCA-CTCC
* * ** * * *
52422887 AGGGAAGTAAGATTCGTTGTTGTTGCTTCAATCTATTTAACTACAATGTC
1 AGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACT-CC
* * * * * * * *
52422937 GGGGAAGCAAGATTCGCTATTATAGCTTAAATATGTTCCACTGCATCGCC
1 AGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCA-CTCC
* *
52422987 AGGGTAGTAAGATTCGTTGTTGTAGCTTCAATCTATTCCACTG
1 AGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTG
52423030 TAATGCCAAA
Statistics
Matches: 106, Mismatches: 35, Indels: 4
0.73 0.24 0.03
Matches are distributed among these distances:
49 1 0.01
50 105 0.99
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (49 bp):
AGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACTCC
Found at i:52423055 original size:100 final size:100
Alignment explanation
Indices: 52422845--52423041 Score: 241
Period size: 100 Copynumber: 2.0 Consensus size: 100
52422835 CTAGGGAAAT
* * * * * *
52422845 AAGATTCACTGTTGTAGCTTTAATCTGTTCCACTGCACCTCCAGGGAAGTAAGATTCGTTGTTGT
1 AAGATTCGCTATTATAGCTTAAATATGTTCCACTGCACCGCCAGGGAAGTAAGATTCGTTGTTGT
* * * ***
52422910 TGCTTCAATCTATTTAACTACAATGTCGGGGAAGC
66 AGCTTCAATCTATTCAACTACAATGCCAAAGAAGC
* *
52422945 AAGATTCGCTATTATAGCTTAAATATGTTCCACTGCATCGCCAGGGTAGTAAGATTCGTTGTTGT
1 AAGATTCGCTATTATAGCTTAAATATGTTCCACTGCACCGCCAGGGAAGTAAGATTCGTTGTTGT
* **
52423010 AGCTTCAATCTATTCCACTGTAATGCCAAAGA
66 AGCTTCAATCTATTCAACTACAATGCCAAAGA
52423042 GATAGGATTC
Statistics
Matches: 80, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
100 80 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.34
Consensus pattern (100 bp):
AAGATTCGCTATTATAGCTTAAATATGTTCCACTGCACCGCCAGGGAAGTAAGATTCGTTGTTGT
AGCTTCAATCTATTCAACTACAATGCCAAAGAAGC
Found at i:52423585 original size:177 final size:177
Alignment explanation
Indices: 52423227--52424351 Score: 974
Period size: 177 Copynumber: 6.4 Consensus size: 177
52423217 GACCGGTGTT
* * * * * **
52423227 TTCGATCTGCTTCGCCGCCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTACTCCATTGCTG
1 TTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTATCTTCAACCTACTCCACTGCAA
* * * * * * *
52423292 CTCAGGGAGATAAGGC-TGGTGTCTTCGATCTGCTTCGCTGCCAGTATAGGAAGACAAAATCTGC
66 CTCAGGGAGATAAGACTTGTTATCTTCGATCTGTTTCGCTGCCAGTACAAGAAGACAAGATCTGC
** * * *
52423356 TATCTTCAGTCTGCTCCGCTGCAACTCAGGGAGATAAGACTTGCTATC
131 TATCTTCAACCTACTCCACTGCAACTCAGGGAGATAAGGC-TGCTATC
* ** * **
52423404 TTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTATCCTCAGTCTGCTCTGCTGCAA
1 TTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTATCTTCAACCTACTCCACTGCAA
* *
52423469 CTCAGGGAGATAAGACTTGTTATCTTCAATCTGTTTCGCTGCCAGTACAAGAAGCCAAGATCTGC
66 CTCAGGGAGATAAGACTTGTTATCTTCGATCTGTTTCGCTGCCAGTACAAGAAGACAAGATCTGC
* * * *
52423534 TATTTTCAACCTACTCCACTGCTACTCAGGGAGATAAGGCTGATGTC
131 TATCTTCAACCTACTCCACTGCAACTCAGGGAGATAAGGCTGCTATC
* * * * * ** * *
52423581 TTCGATCTGCTTCACTGCCAGTACAAGAACATAAGATCTGCTATCTTCAGTCTGCTCCGCTGCAA
1 TTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTATCTTCAACCTACTCCACTGCAA
* * * * * *
52423646 CTTAGGGAGATAAGACGTGTTATCTTTGATCTACTTT-GCTGCCAGTATAGGAAGACAAGATCTG
66 CTCAGGGAGATAAGACTTGTTATCTTCGATCT-GTTTCGCTGCCAGTACAAGAAGACAAGATCTG
* ** * * * **
52423710 CTATCCTCAGTCTACTTCGCTGCAACTTAGGGAGATAATACTTGCTATC
130 CTATCTTCAACCTACTCCACTGCAACTCAGGGAGATAAGGC-TGCTATC
* * * * * **
52423759 TTCGATCTGCTTCGCTGCCAGTACAGGAAGACAAGATCTACTATTTTTAACCTACTTCACTGCTG
1 TTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTATCTTCAACCTACTCCACTGCAA
* * * * * * *
52423824 CTCATGGAGATAAGGC-TGATGTCTTCGATCTGTTTTGCTGCCAGTACAAGAAGATAATATCTGC
66 CTCAGGGAGATAAGACTTGTTATCTTCGATCTGTTTCGCTGCCAGTACAAGAAGACAAGATCTGC
** * ** * ** *
52423888 TATCTTCAGTCTGCTCTGCTGCAACTTAGGGAGATAAGATTTTCTATC
131 TATCTTCAACCTACTCCACTGCAACTCAGGGAGATAAG-GCTGCTATC
* * * * * * ** ** **
52423936 TTTGATCTACTTCGCTGGCAGTACAGAAAGACAAGACCTGCCATCCTCAGTCTGGTCCGTTGCAA
1 TTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTATCTTCAACCTACTCCACTGCAA
* * * * * *
52424001 CTCAGAGAGATAAGACTTGCTATCTTCGATCTACTTT-GCTACCAATATAAGAAGACAAGATCTG
66 CTCAGGGAGATAAGACTTGTTATCTTCGATCT-GTTTCGCTGCCAGTACAAGAAGACAAGATCTG
* * ** *
52424065 CTATTTTTAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTGGTATC
130 CTATCTTCAACCTACTCCACTGCAACTCAGGGAGATAAGGCTGCTATC
* * * * **
52424113 TTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTACTATTTTCAACCTACTCCACTGCTG
1 TTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTATCTTCAACCTACTCCACTGCAA
* * ** * *
52424178 CTCAAGAAGATAA-AGCTGGTGTT-T-TT-GATCTACTTCGCTACCAATAC-AGAAAGACAAGAT
66 CTCAGGGAGATAAGA-CT--TGTTATCTTCGATCTGTTTCGCTGCCAGTACAAG-AAGACAAGAT
* * * ** * *
52424238 CTGTTATTTTTAACCTACTCCACTGCTGCTTAGGGAGACAAGGCTAG-TATC
127 CTGCTATCTTCAACCTACTCCACTGCAACTCAGGGAGATAAGGCT-GCTATC
* * * * *
52424289 TTCAATCTACTTCGTTGCCAATATAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGC
1 TTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTATCTTCAACCTACTCCACTGC
52424352 TGCTCAAAGA
Statistics
Matches: 767, Mismatches: 168, Indels: 27
0.80 0.17 0.03
Matches are distributed among these distances:
175 4 0.01
176 133 0.17
177 414 0.54
178 210 0.27
179 6 0.01
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.30
Consensus pattern (177 bp):
TTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTATCTTCAACCTACTCCACTGCAA
CTCAGGGAGATAAGACTTGTTATCTTCGATCTGTTTCGCTGCCAGTACAAGAAGACAAGATCTGC
TATCTTCAACCTACTCCACTGCAACTCAGGGAGATAAGGCTGCTATC
Found at i:52423679 original size:266 final size:265
Alignment explanation
Indices: 52423231--52424357 Score: 1358
Period size: 266 Copynumber: 4.2 Consensus size: 265
52423221 GGTGTTTTCG
* * *
52423231 ATCTGCTTCGCCGCCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTACTCCATTGCTGCTCA
1 ATCTGCTTCGCTGCCAGTACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCA
* * * * *
52423296 GGGAGATAAGGCTGGTGTCTTCGATCTGCTTCGCTGCCAGTATAGGAAGACAAAATCTGCTATCT
66 GGGAGATAAGGCTGATGTCTTCGATCTGCTTCACTGCCAGTACAAGAAGACAAGATCTGCTATCT
* * *
52423361 TCAGTCTGCTCCGCTGCAACTCAGGGAGATAAGACTTGCTATCTTCGATCTACTTCGCTGCCAGT
131 TCAGTCTGCTCCGCTGCAACTCAGGGAGATAAGA-GTGTTATCTTTGATCTACTTCGCTGCCAGT
* * * *
52423426 ACAGGAAGACAAGATCTGCTATCCTCAGTCTGCTCTGCTGCAACTCAGGGAGATAAGACTTGTTA
195 ACAGAAAGACAAGATCTGCTATCCTCAGTCTACTCCGCTGCAACTCAGGGAGATAAGACTTGCTA
52423491 TCTTCA
260 TCTTCA
* * * *
52423497 ATCTGTTTCGCTGCCAGTACAAGAAGCCAAGATCTGCTATTTTCAACCTACTCCACTGCTACTCA
1 ATCTGCTTCGCTGCCAGTACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCA
* *
52423562 GGGAGATAAGGCTGATGTCTTCGATCTGCTTCACTGCCAGTACAAGAACATAAGATCTGCTATCT
66 GGGAGATAAGGCTGATGTCTTCGATCTGCTTCACTGCCAGTACAAGAAGACAAGATCTGCTATCT
* *
52423627 TCAGTCTGCTCCGCTGCAACTTAGGGAGATAAGACGTGTTATCTTTGATCTACTTTGCTGCCAGT
131 TCAGTCTGCTCCGCTGCAACTCAGGGAGATAAGA-GTGTTATCTTTGATCTACTTCGCTGCCAGT
* * * * *
52423692 ATAGGAAGACAAGATCTGCTATCCTCAGTCTACTTCGCTGCAACTTAGGGAGATAATACTTGCTA
195 ACAGAAAGACAAGATCTGCTATCCTCAGTCTACTCCGCTGCAACTCAGGGAGATAAGACTTGCTA
*
52423757 TCTTCG
260 TCTTCA
* * *
52423763 ATCTGCTTCGCTGCCAGTACAGGAAGACAAGATCTACTATTTTTAACCTACTTCACTGCTGCTCA
1 ATCTGCTTCGCTGCCAGTACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCA
* * ** * *
52423828 TGGAGATAAGGCTGATGTCTTCGATCTGTTTTGCTGCCAGTACAAGAAGATAATATCTGCTATCT
66 GGGAGATAAGGCTGATGTCTTCGATCTGCTTCACTGCCAGTACAAGAAGACAAGATCTGCTATCT
* * * * *
52423893 TCAGTCTGCTCTGCTGCAACTTAGGGAGATAAGATTTTCTATCTTTGATCTACTTCGCTGGCAGT
131 TCAGTCTGCTCCGCTGCAACTCAGGGAGATAAGAGTGT-TATCTTTGATCTACTTCGCTGCCAGT
* * ** * *
52423958 ACAGAAAGACAAGACCTGCCATCCTCAGTCTGGTCCGTTGCAACTCAGAGAGATAAGACTTGCTA
195 ACAGAAAGACAAGATCTGCTATCCTCAGTCTACTCCGCTGCAACTCAGGGAGATAAGACTTGCTA
*
52424023 TCTTCG
260 TCTTCA
* * * * * * *
52424029 ATCTACTTTGCTACCAATATAAGAAGACAAGATCTGCTATTTTTAACCTACTCCACTGCTGCTCA
1 ATCTGCTTCGCTGCCAGTACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCA
* * * * * * *
52424094 GGGAGATAAGGCTGGTATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTACTATTT
66 GGGAGATAAGGCTGATGTCTTCGATCTGCTTCACTGCCAGTACAAGAAGACAAGATCTGCTATCT
** * * ** * * * * * * *
52424159 TCAACCTACTCCACTGCTGCTCAAGAAGATAA-AGCTGGTGTTTTTGATCTACTTCGCTACCAAT
131 TCAGTCTGCTCCGCTGCAACTCAGGGAGATAAGAG-TGTTATCTTTGATCTACTTCGCTGCCAGT
* ** * ** * ** * * * *
52424223 ACAGAAAGACAAGATCTGTTATTTTTAACCTACTCCACTGCTGCTTAGGGAGACAAGGCTAG-TA
195 ACAGAAAGACAAGATCTGCTATCCTCAGTCTACTCCGCTGCAACTCAGGGAGATAAGACTTGCTA
52424287 TCTTCA
260 TCTTCA
* * * *
52424293 ATCTACTTCGTTGCCAATATAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCA
1 ATCTGCTTCGCTGCCAGTACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCA
52424358 AAGAGAAAAG
Statistics
Matches: 740, Mismatches: 119, Indels: 6
0.86 0.14 0.01
Matches are distributed among these distances:
264 67 0.09
265 67 0.09
266 606 0.82
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.30
Consensus pattern (265 bp):
ATCTGCTTCGCTGCCAGTACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCA
GGGAGATAAGGCTGATGTCTTCGATCTGCTTCACTGCCAGTACAAGAAGACAAGATCTGCTATCT
TCAGTCTGCTCCGCTGCAACTCAGGGAGATAAGAGTGTTATCTTTGATCTACTTCGCTGCCAGTA
CAGAAAGACAAGATCTGCTATCCTCAGTCTACTCCGCTGCAACTCAGGGAGATAAGACTTGCTAT
CTTCA
Found at i:52424369 original size:88 final size:89
Alignment explanation
Indices: 52423227--52424371 Score: 997
Period size: 89 Copynumber: 12.9 Consensus size: 89
52423217 GACCGGTGTT
* * * * *
52423227 TTCGATCTGCTTCGCCGCCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTACTCCATTGCTG
1 TTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTA
* *
52423292 CTCAGGGAGATAAGGC-TGGTGTC
66 CTCAGGGAGATAAGGCTTGCTATC
* * * * ** * * *
52423315 TTCGATCTGCTTCGCTGCCAGTATAGGAAGACAAAATCTGCTATCTTCAGTCTGCTCCGCTGCAA
1 TTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTA
*
52423380 CTCAGGGAGATAAGACTTGCTATC
66 CTCAGGGAGATAAGGCTTGCTATC
** ** * ** *
52423404 TTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTATCCTCAGTCTGCTCTGCTGCAA
1 TTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTA
* *
52423469 CTCAGGGAGATAAGACTTGTTATC
66 CTCAGGGAGATAAGGCTTGCTATC
* ** * *
52423493 TTCAATCTGTTTCGCTGCCAGTACAAGAAGCCAAGATCTGCTATTTTCAACCTACTCCACTGCTA
1 TTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTA
* *
52423558 CTCAGGGAGATAAGGC-TGATGTC
66 CTCAGGGAGATAAGGCTTGCTATC
* * * * * * ** * * *
52423581 TTCGATCTGCTTCACTGCCAGTACAAGAACATAAGATCTGCTATCTTCAGTCTGCTCCGCTGCAA
1 TTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTA
* * * *
52423646 CTTAGGGAGATAAGACGTGTTATC
66 CTCAGGGAGATAAGGCTTGCTATC
* * * ** ** * * *
52423670 TTTGATCTACTTTGCTGCCAGTATAGGAAGACAAGATCTGCTATCCTCAGTCTACTTCGCTGCAA
1 TTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTA
* **
52423735 CTTAGGGAGATAATACTTGCTATC
66 CTCAGGGAGATAAGGCTTGCTATC
* * * * *
52423759 TTCGATCTGCTTCGCTGCCAGTACAGGAAGACAAGATCTACTATTTTTAACCTACTTCACTGCTG
1 TTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTA
* * *
52423824 CTCATGGAGATAAGGC-TGATGTC
66 CTCAGGGAGATAAGGCTTGCTATC
** * * * * * ** * ** *
52423847 TTCGATCTGTTTTGCTGCCAGTACAAGAAGATAATATCTGCTATCTTCAGTCTGCTCTGCTGCAA
1 TTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTA
* ** *
52423912 CTTAGGGAGATAAGATTTTCTATC
66 CTCAGGGAGATAAGGCTTGCTATC
* * * * * ** ** ** ** *
52423936 TTTGATCTACTTCGCTGGCAGTACAGAAAGACAAGACCTGCCATCCTCAGTCTGGTCCGTTGCAA
1 TTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTA
* *
52424001 CTCAGAGAGATAAGACTTGCTATC
66 CTCAGGGAGATAAGGCTTGCTATC
* * * * * * *
52424025 TTCGATCTACTTTGCTACCAATATAAGAAGACAAGATCTGCTATTTTTAACCTACTCCACTGCTG
1 TTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTA
*
52424090 CTCAGGGAGATAAGGC-TGGTATC
66 CTCAGGGAGATAAGGCTTGCTATC
* * * *
52424113 TTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTACTATTTTCAACCTACTCCACTGCTG
1 TTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTA
* * * * * *
52424178 CTCAAGAAGATAAAGC-TGGTGTT
66 CTCAGGGAGATAAGGCTTGCTATC
* * * * * * *
52424201 TTTGATCTACTTCGCTACCAATACAGAAAGACAAGATCTGTTATTTTTAACCTACTCCACTGCTG
1 TTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTA
* * *
52424266 CTTAGGGAGACAAGGCTAG-TATC
66 CTCAGGGAGATAAGGCTTGCTATC
* * * * *
52424289 TTCAATCTACTTCGTTGCCAATATAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTG
1 TTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTA
** *
52424354 CTCAAAGAGAAAAGGCTT
66 CTCAGGGAGATAAGGCTT
52424372 TATGGTTTCA
Statistics
Matches: 861, Mismatches: 192, Indels: 8
0.81 0.18 0.01
Matches are distributed among these distances:
88 429 0.50
89 432 0.50
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.30
Consensus pattern (89 bp):
TTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTA
CTCAGGGAGATAAGGCTTGCTATC
Found at i:52426534 original size:18 final size:19
Alignment explanation
Indices: 52426511--52426550 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
52426501 CGCCTTGGCC
*
52426511 TTTCATTTTTC-TTTTCTT
1 TTTCATTTTCCTTTTTCTT
52426529 TTTCATTTTCCTTTTTCTT
1 TTTCATTTTCCTTTTTCTT
52426548 TTT
1 TTT
52426551 TTATCATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTCATTTTCCTTTTTCTT
Found at i:52426543 original size:24 final size:23
Alignment explanation
Indices: 52426511--52426615 Score: 78
Period size: 20 Copynumber: 4.8 Consensus size: 23
52426501 CGCCTTGGCC
*
52426511 TTTCATTTTTCTTTTCTTTTTCAT
1 TTTCATTTTTCTTTT-TTTATCAT
*
52426535 TTTCCTTTTTCTTTTTTTATCAT
1 TTTCATTTTTCTTTTTTTATCAT
* * *
52426558 TTTTA-TTTT-TTTATTT-TGAT
1 TTTCATTTTTCTTTTTTTATCAT
* * *
52426578 TTTGA-TTTT-TTTATTT-TGAT
1 TTTCATTTTTCTTTTTTTATCAT
*
52426598 TTTGATTTTTCTTTTTTT
1 TTTCATTTTTCTTTTTTT
52426616 CTTTTCTATT
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
20 27 0.38
21 10 0.14
22 10 0.14
23 10 0.14
24 14 0.20
ACGTcount: A:0.10, C:0.09, G:0.04, T:0.77
Consensus pattern (23 bp):
TTTCATTTTTCTTTTTTTATCAT
Found at i:52426585 original size:26 final size:26
Alignment explanation
Indices: 52426557--52426620 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
52426547 TTTTTTATCA
*
52426557 TTTTTATT-TTTTTATTTTGATTTTGA
1 TTTTT-TTATTTTGATTTTGATTTTGA
**
52426583 TTTTTTTATTTTGATTTTGATTTTTC
1 TTTTTTTATTTTGATTTTGATTTTGA
*
52426609 TTTTTTTCTTTT
1 TTTTTTTATTTT
52426621 CTATTTTTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 2 0.06
26 31 0.94
ACGTcount: A:0.11, C:0.03, G:0.06, T:0.80
Consensus pattern (26 bp):
TTTTTTTATTTTGATTTTGATTTTGA
Found at i:52426620 original size:20 final size:20
Alignment explanation
Indices: 52426556--52426607 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
52426546 TTTTTTTATC
*
52426556 ATTTTTATTTTTTTATTTTG
1 ATTTTGATTTTTTTATTTTG
52426576 ATTTTGATTTTTTTATTTTG
1 ATTTTGATTTTTTTATTTTG
52426596 ATTTTGATTTTT
1 ATTTTGATTTTT
52426608 CTTTTTTTCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (20 bp):
ATTTTGATTTTTTTATTTTG
Found at i:52436720 original size:9 final size:9
Alignment explanation
Indices: 52436696--52436962 Score: 80
Period size: 10 Copynumber: 27.7 Consensus size: 9
52436686 TTATTAGATT
52436696 TTTTTATAAA
1 TTTTTAT-AA
52436706 TTTTTATAA
1 TTTTTATAA
*
52436715 TATTTAATAA
1 T-TTTTATAA
52436725 TCTTTTATAA
1 T-TTTTATAA
*
52436735 CTTTTATAA
1 TTTTTATAA
* *
52436744 GGTTATATCAA
1 -TTTTTAT-AA
*
52436755 TTTTAATATA
1 TTTTTATA-A
* *
52436765 TTTTTTTTA
1 TTTTTATAA
52436774 TTTTTATAA
1 TTTTTATAA
52436783 GTTTTTAATAA
1 -TTTTT-ATAA
*
52436794 -TTTTATATG
1 TTTTTATA-A
52436803 TTTTTATAAA
1 TTTTTAT-AA
* ** *
52436813 ATTCAAAATA
1 TTTTTATA-A
*
52436823 TGTTTTGTTAA
1 T-TTTT-ATAA
52436834 TTTGATTATAA
1 TTT--TTATAA
**
52436845 GTTTTTAATGTT
1 -TTTTT-AT-AA
52436857 TTCTTTATAA
1 TT-TTTATAA
52436867 TTTTTATAA
1 TTTTTATAA
*
52436876 GTTTATATCAA
1 -TTTTTAT-AA
*
52436887 -TTTTATTA
1 TTTTTATAA
52436895 TTTTT-TAAA
1 TTTTTAT-AA
*
52436904 TATTCT-TAA
1 T-TTTTATAA
52436913 TTTTTAATAA
1 TTTTT-ATAA
52436923 -TTTTATAA
1 TTTTTATAA
52436931 TTTTTAATAA
1 TTTTT-ATAA
*
52436941 -TTTTA-AT
1 TTTTTATAA
*
52436948 TTTTTATTA
1 TTTTTATAA
52436957 TTTTTA
1 TTTTTA
52436963 AGAGAAAATA
Statistics
Matches: 189, Mismatches: 39, Indels: 59
0.66 0.14 0.21
Matches are distributed among these distances:
7 1 0.01
8 18 0.10
9 64 0.34
10 75 0.40
11 22 0.12
12 9 0.05
ACGTcount: A:0.33, C:0.03, G:0.04, T:0.61
Consensus pattern (9 bp):
TTTTTATAA
Found at i:52436791 original size:30 final size:30
Alignment explanation
Indices: 52436755--52436879 Score: 87
Period size: 31 Copynumber: 4.1 Consensus size: 30
52436745 GTTATATCAA
*
52436755 TTTTAATATATTTTTTTTATTTTTATAAGT
1 TTTTAATATATTTTTTTAATTTTTATAAGT
* * *
52436785 TTTTAATA-A-TTTTATATGTTTTTATAA-A
1 TTTTAATATATTTTTTTA-ATTTTTATAAGT
* * *
52436813 ATTCAAAATATGTTTTGTTAATTTGATTATAAGT
1 TTTTAATATAT-TTTT-TTAATTT--TTATAAGT
*
52436847 TTTTAATGT-TTTCTTTATAATTTTTATAAGT
1 TTTTAATATATTT-TTT-TAATTTTTATAAGT
52436878 TT
1 TT
52436880 ATATCAATTT
Statistics
Matches: 71, Mismatches: 14, Indels: 19
0.68 0.13 0.18
Matches are distributed among these distances:
28 10 0.14
29 11 0.15
30 8 0.11
31 17 0.24
32 5 0.07
33 15 0.21
34 5 0.07
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.62
Consensus pattern (30 bp):
TTTTAATATATTTTTTTAATTTTTATAAGT
Found at i:52436796 original size:39 final size:38
Alignment explanation
Indices: 52436696--52436811 Score: 119
Period size: 39 Copynumber: 3.0 Consensus size: 38
52436686 TTATTAGATT
*
52436696 TTTTTATAAATTTTTATAATATTTAATA-ATCTTTTATAA
1 TTTTTATAAGTTTTTATAAT-TTTAATATAT-TTTTATAA
* * * * *
52436735 CTTTTATAAGGTTATATCAATTTTAATATATTTTTTTTA
1 TTTTTATAAGTTTTTAT-AATTTTAATATATTTTTATAA
*
52436774 TTTTTATAAGTTTTTAATAATTTT-ATATGTTTTTATAA
1 TTTTTATAAGTTTTT-ATAATTTTAATATATTTTTATAA
52436812 AATTCAAAAT
Statistics
Matches: 62, Mismatches: 12, Indels: 7
0.77 0.15 0.09
Matches are distributed among these distances:
38 11 0.18
39 44 0.71
40 7 0.11
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (38 bp):
TTTTTATAAGTTTTTATAATTTTAATATATTTTTATAA
Found at i:52436923 original size:10 final size:10
Alignment explanation
Indices: 52436910--52436963 Score: 57
Period size: 9 Copynumber: 6.0 Consensus size: 10
52436900 TAAATATTCT
52436910 TAATTTTTAA
1 TAATTTTTAA
52436920 TAA-TTTT-A
1 TAATTTTTAA
52436928 TAATTTTTAA
1 TAATTTTTAA
52436938 TAA-TTTTAA
1 TAATTTTTAA
52436947 T--TTTTT-A
1 TAATTTTTAA
*
52436954 TTATTTTTAA
1 TAATTTTTAA
52436964 GAGAAAATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
7 2 0.05
8 8 0.21
9 20 0.53
10 8 0.21
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
TAATTTTTAA
Found at i:52436952 original size:17 final size:17
Alignment explanation
Indices: 52436894--52436963 Score: 72
Period size: 17 Copynumber: 4.1 Consensus size: 17
52436884 CAATTTTATT
52436894 ATTTTTTAA-ATATTCTTA
1 ATTTTTTAATA-ATT-TTA
52436912 A-TTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
*
52436928 TAATTTTTAATAATTTTA
1 -ATTTTTTAATAATTTTA
* *
52436946 ATTTTTTATTATTTTTA
1 ATTTTTTAATAATTTTA
52436963 A
1 A
52436964 GAGAAAATAT
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
16 3 0.07
17 26 0.57
18 17 0.37
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.64
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:52438441 original size:2 final size:2
Alignment explanation
Indices: 52438434--52438462 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
52438424 GCCTGCAATA
52438434 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
52438463 ATTCAAGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:52440877 original size:55 final size:55
Alignment explanation
Indices: 52440813--52440920 Score: 137
Period size: 55 Copynumber: 2.0 Consensus size: 55
52440803 CAGTATAAAT
* *
52440813 TTTACAAAAAAAATTCTTTTTT-TTGTCAAAATCAGATATAAATATACGAAAAAAA
1 TTTAAAAAAAAAATT-TTTTTTCGTGTCAAAATCAGATATAAATATACGAAAAAAA
** * * *
52440868 TTTAAAAAAATTATTTTTTTTCGTGTTAGACTCAGATATAAATATACGAAAAA
1 TTTAAAAAAAAAATTTTTTTTCGTGTCAAAATCAGATATAAATATACGAAAAA
52440921 TATATATATT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
54 6 0.13
55 39 0.87
ACGTcount: A:0.47, C:0.08, G:0.07, T:0.37
Consensus pattern (55 bp):
TTTAAAAAAAAAATTTTTTTTCGTGTCAAAATCAGATATAAATATACGAAAAAAA
Found at i:52441091 original size:100 final size:102
Alignment explanation
Indices: 52440978--52441187 Score: 282
Period size: 111 Copynumber: 2.0 Consensus size: 102
52440968 GCACCTAAAT
52440978 TTTTTTTCGTATATTTATATCTAATTCTGACAC-GAAATTTTCTTTT-AAATTTGTACTGGGTGC
1 TTTTTTTCGTATATTTATATCTAATTCTGACACAGAAATTTT-TTTTAAAATTTGTACTGGGTGC
*
52441041 CGGCTATTGACAGGCCAGCACCCAAAAT-TTTTTTTAA
65 CGGCCATTGACAGGCCAGCACCCAAAATGTTTTTTTAA
*
52441078 TTTTTTTCGTATATTTATATCTGATTCTGACACGAAAAAAAAGAAATTTTTTTTAAAAAATTTGT
1 TTTTTTTCGTATATTTATATCTAATTCTGACAC--------AGAAATTTTTTTT--AAAATTTGT
52441143 ACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATGTTTTTTT
56 ACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATGTTTTTTT
52441188 CGTTTTTCTT
Statistics
Matches: 95, Mismatches: 2, Indels: 14
0.86 0.02 0.13
Matches are distributed among these distances:
100 32 0.34
108 4 0.04
109 8 0.08
111 44 0.46
112 7 0.07
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.40
Consensus pattern (102 bp):
TTTTTTTCGTATATTTATATCTAATTCTGACACAGAAATTTTTTTTAAAATTTGTACTGGGTGCC
GGCCATTGACAGGCCAGCACCCAAAATGTTTTTTTAA
Found at i:52444246 original size:15 final size:16
Alignment explanation
Indices: 52444226--52444263 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
52444216 ATAAATATGA
* *
52444226 TAAATTT-GTTCTTAT
1 TAAATTTCGTTATAAT
52444241 TAAATTTCGTTATAAT
1 TAAATTTCGTTATAAT
52444257 TAAATTT
1 TAAATTT
52444264 TATTATTATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.55
Consensus pattern (16 bp):
TAAATTTCGTTATAAT
Found at i:52444967 original size:114 final size:114
Alignment explanation
Indices: 52444778--52445107 Score: 439
Period size: 114 Copynumber: 2.9 Consensus size: 114
52444768 AAAATAAGAA
*** * * * * * *
52444778 TTAGCGGCGTTTTCCAGAAAGTGCCGC-AAAAAACCTAAGCCCAACGACGCCGTTTACCGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAAACTAAGCCCAACGGCGCCGTTTTCTGTGCTT
* * * *
52444842 TTGGAGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGTTCGGGGCT
66 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
* *
52444891 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAAACTAAGCACAACGGCGCCATTTTCTGTGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAAACTAAGCCCAACGGCGCCGTTTTCTGTGCTT
* * *
52444956 TCGGGGATTTAGTGGCATTTTTAAGAAAGTGCCGCTAATGCTCAGGGCT
66 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
* *
52445005 TTAGTGGCATTTTTGGGAAAGCGCCG-ATAAAAAAACTAAGCCCAACGGCGCCGTTTTCTGTGCT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCA-AAAAAAACTAAGCCCAACGGCGCCGTTTTCTGTGCT
* *
52445069 TTCGTGGATTTAGCGGTGTTTTTAAGAAAGCGCCGCTAA
65 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAA
52445108 NNNNNNNNNN
Statistics
Matches: 188, Mismatches: 27, Indels: 3
0.86 0.12 0.01
Matches are distributed among these distances:
113 24 0.13
114 164 0.87
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (114 bp):
TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAAACTAAGCCCAACGGCGCCGTTTTCTGTGCTT
TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
Found at i:52445272 original size:20 final size:20
Alignment explanation
Indices: 52445247--52445285 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
52445237 TATGATAAAC
52445247 GCCGCAATAAAT-AATCAATA
1 GCCGCAA-AAATAAATCAATA
52445267 GCCGCAAAAATAAATCAAT
1 GCCGCAAAAATAAATCAAT
52445286 TTATAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.51, C:0.21, G:0.10, T:0.18
Consensus pattern (20 bp):
GCCGCAAAAATAAATCAATA
Found at i:52445445 original size:121 final size:121
Alignment explanation
Indices: 52445272--52445507 Score: 438
Period size: 121 Copynumber: 2.0 Consensus size: 121
52445262 CAATAGCCGC
52445272 AAAAATAAATCAATTTATAAAAAACAAATTAAAAAATTTTGTGCATAGTAAAACGACGTCA-TTT
1 AAAAATAAATCAATTTATAAAAAACAAATTAAAAAATTTTGTGCATAGTAAAACGACGTCATTTT
* *
52445336 GCTTTAAAATAAAATAATTTTTTTGTGGCGTTTTTATTATAAATGCCGCAAACTGCA
66 G-TTTAAAATAAAATAAATTTTTTGTGGCGTTTTTATGATAAATGCCGCAAACTGCA
52445393 AAAAATAAATCAATTTATAAAAAACAAATTAAAAAATTTTGTGCATAGTAAAACGACGTCATTTT
1 AAAAATAAATCAATTTATAAAAAACAAATTAAAAAATTTTGTGCATAGTAAAACGACGTCATTTT
52445458 GTTTAAAATAAAATAAATTTTTTGTGGCGTTTTTATGATAAATGCCGCAA
66 GTTTAAAATAAAATAAATTTTTTGTGGCGTTTTTATGATAAATGCCGCAA
52445508 TAGATAATCA
Statistics
Matches: 112, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
121 108 0.96
122 4 0.04
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.35
Consensus pattern (121 bp):
AAAAATAAATCAATTTATAAAAAACAAATTAAAAAATTTTGTGCATAGTAAAACGACGTCATTTT
GTTTAAAATAAAATAAATTTTTTGTGGCGTTTTTATGATAAATGCCGCAAACTGCA
Found at i:52446082 original size:32 final size:32
Alignment explanation
Indices: 52446046--52446122 Score: 138
Period size: 32 Copynumber: 2.4 Consensus size: 32
52446036 AGCTTTAAAC
*
52446046 TTTATAATCTTTAGAAAGGCTAAAATCACAAT
1 TTTATCATCTTTAGAAAGGCTAAAATCACAAT
52446078 TTTATCATCTTTAGAAAGGCTAAAATCACAAT
1 TTTATCATCTTTAGAAAGGCTAAAATCACAAT
52446110 TTTATCAT-TTTAG
1 TTTATCATCTTTAG
52446123 GAGCTAGAGG
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
31 5 0.11
32 39 0.89
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.39
Consensus pattern (32 bp):
TTTATCATCTTTAGAAAGGCTAAAATCACAAT
Found at i:52447338 original size:8 final size:8
Alignment explanation
Indices: 52447325--52447354 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
52447315 TGACTTGTAT
52447325 ATATATAC
1 ATATATAC
52447333 ATATATAC
1 ATATATAC
*
52447341 ATATATAT
1 ATATATAC
52447349 ATATAT
1 ATATAT
52447355 GTTATATGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (8 bp):
ATATATAC
Found at i:52449329 original size:10 final size:10
Alignment explanation
Indices: 52449314--52449346 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
52449304 CCAAATCCTT
*
52449314 TTTTTATTCA
1 TTTTTATTTA
52449324 TTTTTATTTA
1 TTTTTATTTA
52449334 -TTTTATTTA
1 TTTTTATTTA
52449343 TTTT
1 TTTT
52449347 GTTTTTGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTTATTTA
Found at i:52449972 original size:3 final size:3
Alignment explanation
Indices: 52449964--52450020 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
52449954 ACAATTTTGA
52449964 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
52450012 TAT TAT TAT
1 TAT TAT TAT
52450021 CATCATCATC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:52450097 original size:25 final size:25
Alignment explanation
Indices: 52450062--52450115 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
52450052 TGATCCCAAG
*
52450062 TTTTATTATATATATACA-TATACAT
1 TTTTATAATATATATACACT-TACAT
*
52450087 TTTTATAATATATATATACTTACAT
1 TTTTATAATATATATACACTTACAT
52450112 TTTT
1 TTTT
52450116 TTTATTTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 25 0.96
26 1 0.04
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (25 bp):
TTTTATAATATATATACACTTACAT
Found at i:52450318 original size:30 final size:31
Alignment explanation
Indices: 52450267--52450356 Score: 89
Period size: 30 Copynumber: 2.9 Consensus size: 31
52450257 ATTTACATGA
*
52450267 ATATAA-ATACATATTTATATATATTTTTAAAT
1 ATATAATATACATA-CT-TATATATTTTTAAAT
* *
52450299 ATAT-ATGTACATACTTATAT-TGTTTT-ATT
1 ATATAATATACATACTTATATAT-TTTTAAAT
*
52450328 TTATAATATACATACTTATATATTTTTAA
1 ATATAATATACATACTTATATATTTTTAA
52450357 TGTAATACAT
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
29 6 0.12
30 28 0.58
31 4 0.08
32 10 0.21
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.52
Consensus pattern (31 bp):
ATATAATATACATACTTATATATTTTTAAAT
Found at i:52459387 original size:42 final size:43
Alignment explanation
Indices: 52459257--52459396 Score: 201
Period size: 43 Copynumber: 3.3 Consensus size: 43
52459247 TTTTCATGAC
* *
52459257 CTTTAGCGGTGTTTGTGGGAAAAGCGTCGCTAAAGGTCCGGCT
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCGGCT
* * *
52459300 CTTTAGCGGCGTTTGGGGGAAAAGCGCCGCTAAAGGTCAGTCT
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCGGCT
* * *
52459343 CTTTAGCGGCGTTTCTGGG-AAAGCGCCGTTAAAGTTCCGGCT
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCGGCT
52459385 CTTTAGCGGCGT
1 CTTTAGCGGCGT
52459397 ATGTTTCCAA
Statistics
Matches: 86, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
42 31 0.36
43 55 0.64
ACGTcount: A:0.18, C:0.21, G:0.34, T:0.27
Consensus pattern (43 bp):
CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCGGCT
Found at i:52459836 original size:28 final size:30
Alignment explanation
Indices: 52459771--52459843 Score: 96
Period size: 28 Copynumber: 2.4 Consensus size: 30
52459761 AACTACATAA
52459771 TTAGTCACCAAACTATTAAGTTCTTTCTGTT
1 TTAGTCACC-AACTATTAAGTTCTTTCTGTT
* *
52459802 TTGGTCACCAACTATTAA-TT-TTTTTGTT
1 TTAGTCACCAACTATTAAGTTCTTTCTGTT
52459830 TTAGTCACTCAACT
1 TTAGTCAC-CAACT
52459844 TTTCAAAATC
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 14 0.37
29 7 0.18
30 9 0.24
31 8 0.21
ACGTcount: A:0.25, C:0.19, G:0.10, T:0.47
Consensus pattern (30 bp):
TTAGTCACCAACTATTAAGTTCTTTCTGTT
Found at i:52463465 original size:43 final size:43
Alignment explanation
Indices: 52463417--52463502 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
52463407 TATGTTATTG
* *
52463417 ATATTGAAATGGAAAAGATGATAAATGAATATGAGATGAGAAA
1 ATATTGAAATGGAAAAGATGAGAAATGAATATGAAATGAGAAA
* * *
52463460 ATATTGAAATGGCAAATATGAGAAATGATTATGAAATGAGAAA
1 ATATTGAAATGGAAAAGATGAGAAATGAATATGAAATGAGAAA
52463503 TGAAATATGA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.52, C:0.01, G:0.22, T:0.24
Consensus pattern (43 bp):
ATATTGAAATGGAAAAGATGAGAAATGAATATGAAATGAGAAA
Found at i:52464881 original size:49 final size:49
Alignment explanation
Indices: 52464809--52464905 Score: 158
Period size: 49 Copynumber: 2.0 Consensus size: 49
52464799 TCAAGAAGGG
* * *
52464809 ATAAATAGTGATAAGAGTGTAGACAATGTAAGACTAAGTTTAGCAATGT
1 ATAAATAGTGATAAGAGTGTAGACAATGGAAGACCAAGTTTAGAAATGT
*
52464858 ATAAATAGTGATAAGTGTGTAGACAATGGAAGACCAAGTTTAGAAATG
1 ATAAATAGTGATAAGAGTGTAGACAATGGAAGACCAAGTTTAGAAATG
52464906 CATAGCATAA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.43, C:0.06, G:0.24, T:0.27
Consensus pattern (49 bp):
ATAAATAGTGATAAGAGTGTAGACAATGGAAGACCAAGTTTAGAAATGT
Found at i:52468493 original size:13 final size:13
Alignment explanation
Indices: 52468477--52468512 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
52468467 TGGGCGTAGG
52468477 ATTCTGTATATCT
1 ATTCTGTATATCT
52468490 ATTCTGTATATCT
1 ATTCTGTATATCT
*
52468503 GTATCTGTAT
1 AT-TCTGTAT
52468513 CTGCATCTGC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 14 0.67
14 7 0.33
ACGTcount: A:0.22, C:0.14, G:0.11, T:0.53
Consensus pattern (13 bp):
ATTCTGTATATCT
Found at i:52469427 original size:16 final size:16
Alignment explanation
Indices: 52469406--52469440 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
52469396 AGCTAGAAGG
52469406 ATTAAATAGCTATGAA
1 ATTAAATAGCTATGAA
* *
52469422 ATTAAATAGTTATGGA
1 ATTAAATAGCTATGAA
52469438 ATT
1 ATT
52469441 CAAACTTTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.46, C:0.03, G:0.14, T:0.37
Consensus pattern (16 bp):
ATTAAATAGCTATGAA
Found at i:52472411 original size:18 final size:19
Alignment explanation
Indices: 52472378--52472413 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
52472368 GAACTGATGC
*
52472378 ATAAAATTTTATAATTTAG
1 ATAAAATTTTAAAATTTAG
52472397 ATAAAA-TTTAAAATTTA
1 ATAAAATTTTAAAATTTA
52472414 CGATGAGCGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (19 bp):
ATAAAATTTTAAAATTTAG
Found at i:52481642 original size:87 final size:86
Alignment explanation
Indices: 52481484--52481643 Score: 234
Period size: 87 Copynumber: 1.8 Consensus size: 86
52481474 TACATGCATA
* *
52481484 AGGTTGAGTTCTTACTCTTAATGAATTCATATCCTAGGGTTTGGGTGGTCCTATTGAGACAGACT
1 AGGTTGAGTTCTTACTCTTAATGAATTCATATCCTAGAGTTTGGGTAGTCCTATTGAGACAGACT
*
52481549 TTATGAATCCACTGACATGTG
66 TGATGAATCCACTGACATGTG
* *
52481570 AGGTTGAGTTTCTTACTTTTAATGAGTTCATATCCTAGAGTTTGGGTAGTCCTAATT-AGAC-GA
1 AGGTTGAG-TTCTTACTCTTAATGAATTCATATCCTAGAGTTTGGGTAGTCCT-ATTGAGACAG-
52481633 ACTTGATGAAT
63 ACTTGATGAAT
52481644 TTACCAAATT
Statistics
Matches: 66, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
86 9 0.14
87 54 0.82
88 3 0.05
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.38
Consensus pattern (86 bp):
AGGTTGAGTTCTTACTCTTAATGAATTCATATCCTAGAGTTTGGGTAGTCCTATTGAGACAGACT
TGATGAATCCACTGACATGTG
Found at i:52484090 original size:42 final size:42
Alignment explanation
Indices: 52484029--52484128 Score: 121
Period size: 42 Copynumber: 2.4 Consensus size: 42
52484019 CTTTCTATTT
* * *
52484029 AGCTCTCACGAGCTACTGTTTAACTCATAT-GAGTTTTCGTTC
1 AGCTCTTACGAGCTTCTGTTTAACCCATATAG-GTTTTCGTTC
** * *
52484071 AGCTCTTTTGAGCTTCTGTTTAACCCTTATAGGTTTTTGTTC
1 AGCTCTTACGAGCTTCTGTTTAACCCATATAGGTTTTCGTTC
52484113 AGCTCTTACGAGCTTC
1 AGCTCTTACGAGCTTC
52484129 CGTCCAACCC
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
42 47 0.98
43 1 0.02
ACGTcount: A:0.18, C:0.23, G:0.17, T:0.42
Consensus pattern (42 bp):
AGCTCTTACGAGCTTCTGTTTAACCCATATAGGTTTTCGTTC
Found at i:52484138 original size:42 final size:42
Alignment explanation
Indices: 52484061--52484158 Score: 115
Period size: 42 Copynumber: 2.3 Consensus size: 42
52484051 ACTCATATGA
* ** * **
52484061 GTTTTCGTTCAGCTCTTTTGAGCTTCTGTTTAACCCTTATAG
1 GTTTTTGTTCAGCTCTTACGAGCTTCCGTCCAACCCTTATAG
*
52484103 GTTTTTGTTCAGCTCTTACGAGCTTCCGTCCAACCCTTATGG
1 GTTTTTGTTCAGCTCTTACGAGCTTCCGTCCAACCCTTATAG
* *
52484145 GTTTCTGTTTAGCT
1 GTTTTTGTTCAGCT
52484159 TACATGTGCT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.13, C:0.23, G:0.18, T:0.45
Consensus pattern (42 bp):
GTTTTTGTTCAGCTCTTACGAGCTTCCGTCCAACCCTTATAG
Found at i:52488364 original size:23 final size:22
Alignment explanation
Indices: 52488338--52488392 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 22
52488328 TTCATAAAAT
52488338 TAATTAAATTGTAATTTTTACAA
1 TAATTAAATTGTAATTTTTA-AA
* *
52488361 TAATAAAAATGTAATTTTTAAA
1 TAATTAAATTGTAATTTTTAAA
52488383 -AGATTAAATT
1 TA-ATTAAATT
52488393 AAATTTTATC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 1 0.04
22 8 0.30
23 18 0.67
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (22 bp):
TAATTAAATTGTAATTTTTAAA
Found at i:52492973 original size:25 final size:25
Alignment explanation
Indices: 52492940--52492991 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
52492930 AAACTCAAAT
52492940 AACTAATCTTTAATAATTGTTTACA
1 AACTAATCTTTAATAATTGTTTACA
*
52492965 AACTCATCTTTAATAATTGTTTACA
1 AACTAATCTTTAATAATTGTTTACA
52492990 AA
1 AA
52492992 ATCAAATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.40, C:0.13, G:0.04, T:0.42
Consensus pattern (25 bp):
AACTAATCTTTAATAATTGTTTACA
Found at i:52493001 original size:25 final size:25
Alignment explanation
Indices: 52492948--52493001 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
52492938 ATAACTAATC
* **
52492948 TTTAATAATTGTTTACAAACTCATC
1 TTTAATAATTGTTTACAAAATCAAA
52492973 TTTAATAATTGTTTACAAAATCAAA
1 TTTAATAATTGTTTACAAAATCAAA
52492998 TTTA
1 TTTA
52493002 TTTTTGACTA
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:0.41, C:0.11, G:0.04, T:0.44
Consensus pattern (25 bp):
TTTAATAATTGTTTACAAAATCAAA
Found at i:52498304 original size:3 final size:3
Alignment explanation
Indices: 52498296--52498341 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
52498286 ACCAAATCTT
*
52498296 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATG ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
52498342 AAGGTAGATT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:52498460 original size:19 final size:19
Alignment explanation
Indices: 52498436--52498473 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
52498426 GATAGTTATC
52498436 ATATGGTATCCATTATTTG
1 ATATGGTATCCATTATTTG
*
52498455 ATATGGTATGCATTATTTG
1 ATATGGTATCCATTATTTG
52498474 TGGTATATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.08, G:0.18, T:0.47
Consensus pattern (19 bp):
ATATGGTATCCATTATTTG
Found at i:52498479 original size:16 final size:17
Alignment explanation
Indices: 52498438--52498479 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
52498428 TAGTTATCAT
52498438 ATGGTATCCATTATTTG
1 ATGGTATCCATTATTTG
*
52498455 ATATGGTATGCATTATTTG
1 --ATGGTATCCATTATTTG
52498474 -TGGTAT
1 ATGGTAT
52498480 ATAGCGAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 6 0.27
19 16 0.73
ACGTcount: A:0.24, C:0.07, G:0.21, T:0.48
Consensus pattern (17 bp):
ATGGTATCCATTATTTG
Found at i:52501331 original size:33 final size:32
Alignment explanation
Indices: 52501297--52501367 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 32
52501287 CCTATATAGT
*
52501297 ATTAGTACAGTGTGGGCCTTAACCCATTACAG
1 ATTAGTACAGTGTGGGCCTTAACCCAATACAG
*
52501329 --TA-T-CAGTGTGGGCCTTAGCCCAATACAG
1 ATTAGTACAGTGTGGGCCTTAACCCAATACAG
52501357 AAATTAGTACA
1 --ATTAGTACA
52501368 ATGCAGTGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
28 23 0.74
29 1 0.03
30 2 0.06
32 2 0.06
33 1 0.03
34 2 0.06
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (32 bp):
ATTAGTACAGTGTGGGCCTTAACCCAATACAG
Found at i:52501335 original size:28 final size:27
Alignment explanation
Indices: 52501300--52501356 Score: 87
Period size: 28 Copynumber: 2.1 Consensus size: 27
52501290 ATATAGTATT
*
52501300 AGTACAGTGTGGGCCTTAACCCATTAC
1 AGTACAGTGTGGGCCTTAACCCAATAC
*
52501327 AGTATCAGTGTGGGCCTTAGCCCAATAC
1 AGTA-CAGTGTGGGCCTTAACCCAATAC
52501355 AG
1 AG
52501357 AAATTAGTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 4 0.15
28 23 0.85
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.25
Consensus pattern (27 bp):
AGTACAGTGTGGGCCTTAACCCAATAC
Found at i:52501521 original size:26 final size:26
Alignment explanation
Indices: 52501465--52501522 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
52501455 GCCAACATAC
52501465 CAATATCGCAGAAAAGCTGCCAGTAA
1 CAATATCGCAGAAAAGCTGCCAGTAA
* * * *
52501491 TAATATCGCAGCAAAGCTGTCAGTGA
1 CAATATCGCAGAAAAGCTGCCAGTAA
52501517 CAATAT
1 CAATAT
52501523 ATGTGGCAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.21
Consensus pattern (26 bp):
CAATATCGCAGAAAAGCTGCCAGTAA
Found at i:52501921 original size:27 final size:27
Alignment explanation
Indices: 52501715--52501922 Score: 181
Period size: 27 Copynumber: 7.7 Consensus size: 27
52501705 TACCTTACGG
* *
52501715 GGGTATTTCGATCATTTTACCTTTTTG-
1 GGGTATTTCGATAATTTTACC-CTTTGA
* * *
52501742 GGTTATTTTGGGTAATTTTACCCTTTGA
1 GGGTA-TTTCGATAATTTTACCCTTTGA
* ** * *
52501770 GGGTATTTTGGGAATTTTAACCTTCGA
1 GGGTATTTCGATAATTTTACCCTTTGA
*
52501797 GGATATTTCTG-TAATTTTACCCTTTGA
1 GGGTATTTC-GATAATTTTACCCTTTGA
*
52501824 GGGTATTTC-AGTAATTTTACTCTTCT-A
1 GGGTATTTCGA-TAATTTTACCCTT-TGA
* * *
52501851 GGGTATTTCAATAATTTTAACCTTCGA
1 GGGTATTTCGATAATTTTACCCTTTGA
* *
52501878 GGGTATTTTGATGATTTTACCCTTTGA
1 GGGTATTTCGATAATTTTACCCTTTGA
*
52501905 GGGCATTTCGATAATTTT
1 GGGTATTTCGATAATTTT
52501923 CGGCTTAAGC
Statistics
Matches: 145, Mismatches: 28, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
27 125 0.86
28 20 0.14
ACGTcount: A:0.21, C:0.13, G:0.19, T:0.47
Consensus pattern (27 bp):
GGGTATTTCGATAATTTTACCCTTTGA
Found at i:52502255 original size:27 final size:26
Alignment explanation
Indices: 52502228--52502448 Score: 203
Period size: 27 Copynumber: 8.2 Consensus size: 26
52502218 TATAACAGTT
*
52502228 ATTTTAACCTTT-AGGGGTATTTCGGTT
1 ATTTT-ACCTTTGA-GGGTATTTCGGTA
*
52502255 ATTTTACCTTTG-GGGTTATTTTGGGTA
1 ATTTTACCTTTGAGGG-TA-TTTCGGTA
*
52502282 ATTTTACCCTTTGAGGGTATTTTGGTA
1 ATTTTA-CCTTTGAGGGTATTTCGGTA
* ** *
52502309 ATTTTAACCTTCGAGAATATTTCGATA
1 ATTTT-ACCTTTGAGGGTATTTCGGTA
* *
52502336 ATTTTACCCTTTGCGGGTATTTCAGTA
1 ATTTTA-CCTTTGAGGGTATTTCGGTA
* *
52502363 ATTTTACCTTTTGAGGATATTTCAGTA
1 ATTTTACC-TTTGAGGGTATTTCGGTA
* *
52502390 ATTTTACCCTTCGAAGGTATTTCGGTA
1 ATTTTA-CCTTTGAGGGTATTTCGGTA
* *
52502417 ATTTTACCCTTCGAGGGTATTTCGATA
1 ATTTTA-CCTTTGAGGGTATTTCGGTA
52502444 ATTTT
1 ATTTT
52502449 CTAGCCTAAG
Statistics
Matches: 163, Mismatches: 22, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
25 3 0.02
26 11 0.07
27 135 0.83
28 11 0.07
29 3 0.02
ACGTcount: A:0.22, C:0.14, G:0.19, T:0.46
Consensus pattern (26 bp):
ATTTTACCTTTGAGGGTATTTCGGTA
Found at i:52502364 original size:81 final size:79
Alignment explanation
Indices: 52502245--52502448 Score: 232
Period size: 81 Copynumber: 2.5 Consensus size: 79
52502235 CCTTTAGGGG
* * * **
52502245 TATTTCGGTTATTTTA-CCTTTGGGGTTATTTTGGGTAATTTTACCCTTTGAGGGTATTTTGGTA
1 TATTTCGGTAATTTTACCCTTTGGGG-TA-TTT-CGTAATTTTACCCTTTGAGGATATTTCAGTA
52502309 ATTTTAACCTTCG-AGAA
63 ATTTTAACCTTCGAAG-A
* *
52502326 TATTTCGATAATTTTACCCTTTGCGGGTATTTCAGTAATTTTACCTTTTGAGGATATTTCAGTAA
1 TATTTCGGTAATTTTACCCTTTG-GGGTATTTC-GTAATTTTACCCTTTGAGGATATTTCAGTAA
* *
52502391 TTTTACCCTTCGAAGG
64 TTTTAACCTTCGAAGA
*
52502407 TATTTCGGTAATTTTACCCTTCGAGGGTATTTCGATAATTTT
1 TATTTCGGTAATTTTACCCTTTG-GGGTATTTCG-TAATTTT
52502449 CTAGCCTAAG
Statistics
Matches: 106, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
80 1 0.01
81 92 0.87
82 10 0.09
83 3 0.03
ACGTcount: A:0.22, C:0.14, G:0.18, T:0.47
Consensus pattern (79 bp):
TATTTCGGTAATTTTACCCTTTGGGGTATTTCGTAATTTTACCCTTTGAGGATATTTCAGTAATT
TTAACCTTCGAAGA
Found at i:52509049 original size:33 final size:32
Alignment explanation
Indices: 52509006--52509095 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 32
52508996 AATCAGTCTA
*
52509006 GGCCTGAGCCCTATACAGTATCAGTACAGTGTG
1 GGCCTTAGCCC-ATACAGTATCAGTACAGTGTG
52509039 GGCCTTAGCCCAT----TA-CAGTAACAGTGTG
1 GGCCTTAGCCCATACAGTATCAGT-ACAGTGTG
*
52509067 GGCCTTAGCCCAATACAGAAATCAGTACA
1 GGCCTTAGCCC-ATACAG-TATCAGTACA
52509096 ATGCAGTGAT
Statistics
Matches: 47, Mismatches: 2, Indels: 15
0.73 0.03 0.23
Matches are distributed among these distances:
27 4 0.09
28 21 0.45
29 2 0.04
32 2 0.04
33 10 0.21
34 4 0.09
35 4 0.09
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.22
Consensus pattern (32 bp):
GGCCTTAGCCCATACAGTATCAGTACAGTGTG
Found at i:52509066 original size:28 final size:27
Alignment explanation
Indices: 52509027--52509084 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 27
52509017 TATACAGTAT
*
52509027 CAGTACAGTGTGGGCCTTAGCCCATTA
1 CAGTACAGTGTGGGCCTTAGCCCAATA
52509054 CAGTAACAGTGTGGGCCTTAGCCCAATA
1 CAGT-ACAGTGTGGGCCTTAGCCCAATA
52509082 CAG
1 CAG
52509085 AAATCAGTAC
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 4 0.14
28 25 0.86
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.22
Consensus pattern (27 bp):
CAGTACAGTGTGGGCCTTAGCCCAATA
Found at i:52509479 original size:27 final size:27
Alignment explanation
Indices: 52509438--52509641 Score: 202
Period size: 27 Copynumber: 7.6 Consensus size: 27
52509428 ACCTACAGAT
* * *
52509438 GTATTTCGGTCATTTTACCCTTTG-GG
1 GTATTTAGGTAATTTTACCCTTCGAGG
*
52509464 GTATTTAGGGTAATTTTACCCTTTGAGG
1 GTATTTA-GGTAATTTTACCCTTCGAGG
* * *
52509492 GTATTTCGGTAATTTTACCCTTCAAGA
1 GTATTTAGGTAATTTTACCCTTCGAGG
*
52509519 G-ATTTCGGTAATTTTACCCTTCGAGG
1 GTATTTAGGTAATTTTACCCTTCGAGG
*
52509545 GTATTTCA-TTAATTTTACCCTTCGAGG
1 GTATTT-AGGTAATTTTACCCTTCGAGG
* *
52509572 GTATTTCA-GTAATTTAACCCTTCGTGG
1 GTATTT-AGGTAATTTTACCCTTCGAGG
* *
52509599 GTATTTCA-ATAATTTTACCTTTCGAGG
1 GTATTT-AGGTAATTTTACCCTTCGAGG
* *
52509626 GTATTTCGATAATTTT
1 GTATTTAGGTAATTTT
52509642 CCTACCCAAG
Statistics
Matches: 155, Mismatches: 18, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
26 30 0.19
27 117 0.75
28 8 0.05
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.44
Consensus pattern (27 bp):
GTATTTAGGTAATTTTACCCTTCGAGG
Found at i:52509546 original size:53 final size:54
Alignment explanation
Indices: 52509449--52509641 Score: 246
Period size: 54 Copynumber: 3.6 Consensus size: 54
52509439 TATTTCGGTC
* * * **
52509449 ATTTTACCCTTTG-GGGTATTTAGGGTAATTTTACCCTTTGAGGGTATTTCGGTA
1 ATTTTACCCTTCGAGGGTATTT-CGGTAATTTTACCCTTCGAGGGTATTTCAATA
* * *
52509503 ATTTTACCCTTCAAGAG-ATTTCGGTAATTTTACCCTTCGAGGGTATTTCATTA
1 ATTTTACCCTTCGAGGGTATTTCGGTAATTTTACCCTTCGAGGGTATTTCAATA
* * *
52509556 ATTTTACCCTTCGAGGGTATTTCAGTAATTTAACCCTTCGTGGGTATTTCAATA
1 ATTTTACCCTTCGAGGGTATTTCGGTAATTTTACCCTTCGAGGGTATTTCAATA
* *
52509610 ATTTTACCTTTCGAGGGTATTTCGATAATTTT
1 ATTTTACCCTTCGAGGGTATTTCGGTAATTTT
52509642 CCTACCCAAG
Statistics
Matches: 120, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
53 43 0.36
54 75 0.62
55 2 0.02
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.44
Consensus pattern (54 bp):
ATTTTACCCTTCGAGGGTATTTCGGTAATTTTACCCTTCGAGGGTATTTCAATA
Found at i:52509558 original size:80 final size:80
Alignment explanation
Indices: 52509438--52509641 Score: 243
Period size: 80 Copynumber: 2.5 Consensus size: 80
52509428 ACCTACAGAT
* * * *
52509438 GTATTTCGGTCATTTTACCCTTTG-GGGTATTT-AGGGTAATTTTACCCTTTGAGGGTATTTCGG
1 GTATTTCGGTAATTTTACCCTTCGAGGGTATTTCA---TAATTTTACCCTTCGAGGGTATTTCAG
*
52509501 TAATTTTACCCTTCAAGA
63 TAATTTAACCCTTCAAGA
52509519 G-ATTTCGGTAATTTTACCCTTCGAGGGTATTTCATTAATTTTACCCTTCGAGGGTATTTCAGTA
1 GTATTTCGGTAATTTTACCCTTCGAGGGTATTTCA-TAATTTTACCCTTCGAGGGTATTTCAGTA
** *
52509583 ATTTAACCCTTCGTGG
65 ATTTAACCCTTCAAGA
** *
52509599 GTATTTCAATAATTTTACCTTTCGAGGGTATTTCGATAATTTT
1 GTATTTCGGTAATTTTACCCTTCGAGGGTATTTC-ATAATTTT
52509642 CCTACCCAAG
Statistics
Matches: 107, Mismatches: 12, Indels: 8
0.84 0.09 0.06
Matches are distributed among these distances:
80 60 0.56
81 45 0.42
82 2 0.02
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.44
Consensus pattern (80 bp):
GTATTTCGGTAATTTTACCCTTCGAGGGTATTTCATAATTTTACCCTTCGAGGGTATTTCAGTAA
TTTAACCCTTCAAGA
Found at i:52511423 original size:46 final size:46
Alignment explanation
Indices: 52511367--52511477 Score: 159
Period size: 46 Copynumber: 2.4 Consensus size: 46
52511357 TTACCCGTTT
*
52511367 GGGTTAAACCTACACGAATTGGATAATTGTGCCTGGTCACCCATTA
1 GGGTTGAACCTACACGAATTGGATAATTGTGCCTGGTCACCCATTA
* * * **
52511413 GGGTTGAACCTACACAAATTGGGTAATTGTGCTTGGTCACCTGTTA
1 GGGTTGAACCTACACGAATTGGATAATTGTGCCTGGTCACCCATTA
*
52511459 GGGTTGAACCTACATGAAT
1 GGGTTGAACCTACACGAAT
52511478 CGAATAATAG
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 57 1.00
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (46 bp):
GGGTTGAACCTACACGAATTGGATAATTGTGCCTGGTCACCCATTA
Found at i:52514712 original size:10 final size:11
Alignment explanation
Indices: 52514694--52514725 Score: 57
Period size: 10 Copynumber: 3.0 Consensus size: 11
52514684 TTTGCATAAG
52514694 ATATGAATTGA
1 ATATGAATTGA
52514705 AT-TGAATTGA
1 ATATGAATTGA
52514715 ATATGAATTGA
1 ATATGAATTGA
52514726 TGTTAAATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.44, C:0.00, G:0.19, T:0.38
Consensus pattern (11 bp):
ATATGAATTGA
Found at i:52515325 original size:24 final size:25
Alignment explanation
Indices: 52515298--52515377 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 25
52515288 TGGCTCTTAT
* *
52515298 GAGCTTCCCGTTA-ATGGCTCTCCG
1 GAGCTTCCCGTTACATGGCTCACAG
* ** *
52515322 GAGCTTCCTGTTACATAACTCACAT
1 GAGCTTCCCGTTACATGGCTCACAG
*
52515347 GAGCTTCCCGTTATATGGCTCGA-AG
1 GAGCTTCCCGTTACATGGCTC-ACAG
52515372 GAGCTT
1 GAGCTT
52515378 TATGTTTATG
Statistics
Matches: 43, Mismatches: 11, Indels: 3
0.75 0.19 0.05
Matches are distributed among these distances:
24 12 0.28
25 30 0.70
26 1 0.02
ACGTcount: A:0.20, C:0.28, G:0.23, T:0.30
Consensus pattern (25 bp):
GAGCTTCCCGTTACATGGCTCACAG
Found at i:52517297 original size:230 final size:230
Alignment explanation
Indices: 52516894--52517356 Score: 917
Period size: 230 Copynumber: 2.0 Consensus size: 230
52516884 TTGCTCAGGG
52516894 CTTAATTAGGGAGCTTTTTCTTAGTTTGAATTTCTATTCTTAGATTAGGGTTTGTTATTTAGGGG
1 CTTAATTAGGGAGCTTTTTCTTAGTTTGAATTTCTATTCTTAGATTAGGGTTTGTTATTTAGGGG
52516959 TTTTTCTATTTAAACTTTCTTACTTTCAATTTCAATTCTAGTTTTAGTTTATTTCTTCAATCATT
66 TTTTTCTATTTAAACTTTCTTACTTTCAATTTCAATTCTAGTTTTAGTTTATTTCTTCAATCATT
52517024 AGTGTTCCTTGCATTCGATCACCAATCGTTCAACATCTGTGATGAGATTTTATGTTTCTGCGCAC
131 AGTGTTCCTTGCATTCGATCACCAATCGTTCAACATCTGTGATGAGATTTTATGTTTCTGCGCAC
52517089 AATTAATATCTCTGGATCCAAATCTCTCTTCTACT
196 AATTAATATCTCTGGATCCAAATCTCTCTTCTACT
*
52517124 CTTAATTAGGGAGCTTTTTCTTAGTTTGAATTTCTATTCTTAGATTAGGGTTTGTTATTTAGGGT
1 CTTAATTAGGGAGCTTTTTCTTAGTTTGAATTTCTATTCTTAGATTAGGGTTTGTTATTTAGGGG
52517189 TTTTTCTATTTAAACTTTCTTACTTTCAATTTCAATTCTAGTTTTAGTTTATTTCTTCAATCATT
66 TTTTTCTATTTAAACTTTCTTACTTTCAATTTCAATTCTAGTTTTAGTTTATTTCTTCAATCATT
52517254 AGTGTTCCTTGCATTCGATCACCAATCGTTCAACATCTGTGATGAGATTTTATGTTTCTGCGCAC
131 AGTGTTCCTTGCATTCGATCACCAATCGTTCAACATCTGTGATGAGATTTTATGTTTCTGCGCAC
52517319 AATTAATATCTCTGGATCCAAATCTCTCTTCTACT
196 AATTAATATCTCTGGATCCAAATCTCTCTTCTACT
52517354 CTT
1 CTT
52517357 TTGAATGTTT
Statistics
Matches: 232, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
230 232 1.00
ACGTcount: A:0.22, C:0.17, G:0.13, T:0.47
Consensus pattern (230 bp):
CTTAATTAGGGAGCTTTTTCTTAGTTTGAATTTCTATTCTTAGATTAGGGTTTGTTATTTAGGGG
TTTTTCTATTTAAACTTTCTTACTTTCAATTTCAATTCTAGTTTTAGTTTATTTCTTCAATCATT
AGTGTTCCTTGCATTCGATCACCAATCGTTCAACATCTGTGATGAGATTTTATGTTTCTGCGCAC
AATTAATATCTCTGGATCCAAATCTCTCTTCTACT
Found at i:52543483 original size:13 final size:13
Alignment explanation
Indices: 52543465--52543492 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
52543455 ATAAAATTGG
52543465 AAAGATGATAAAT
1 AAAGATGATAAAT
52543478 AAAGATGATAAAT
1 AAAGATGATAAAT
52543491 AA
1 AA
52543493 TAAAATAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.14, T:0.21
Consensus pattern (13 bp):
AAAGATGATAAAT
Found at i:52545379 original size:33 final size:33
Alignment explanation
Indices: 52545328--52545638 Score: 184
Period size: 33 Copynumber: 8.7 Consensus size: 33
52545318 TTATCCGTTA
* *
52545328 TCGGTGGATTCAGCACTTAGCAACCACCAGTGAT
1 TCGG-GGAATCAGCACTTAGCAACCACCAATGAT
52545362 TCGGGGAATCAGCACTTAGCAACCCCTTTCACATTCAATGAT
1 TCGGGGAATCAGCACTTAGCAA---C---CAC---CAATGAT
* *
52545404 ACGGTGGAATCAGCACTTAGCAACCACCAATGAA
1 TCGG-GGAATCAGCACTTAGCAACCACCAATGAT
*
52545438 TCGGGGAATCAGCACTTAGCAACCCATTTCACATTTAAGAT
1 TCGGGGAATCAGCACTTAGCAA-CCA---C-CA---ATGAT
* * *
52545479 ACGGTGGGATCAGCACTTAGCAACCACCAATGAA
1 TCGG-GGAATCAGCACTTAGCAACCACCAATGAT
*
52545513 TCGGGGAATCAACACTTAGCAACC-CC-----T
1 TCGGGGAATCAGCACTTAGCAACCACCAATGAT
* * * *
52545540 TGGGGGAATCGGCACTTAGCAACCCCCTTCACATTTAAAAT
1 TCGGGGAATCAGCACTTAGCAA-CCAC--CA-A--T--GAT
* *
52545581 ACGGTGGAATCAGCACTTAGCAACCACCAATGAA
1 TCGG-GGAATCAGCACTTAGCAACCACCAATGAT
52545615 TCGGGGAATCAGCACTTAGCAACC
1 TCGGGGAATCAGCACTTAGCAACC
52545639 CCCTTTATAT
Statistics
Matches: 218, Mismatches: 25, Indels: 69
0.70 0.08 0.22
Matches are distributed among these distances:
27 19 0.09
28 2 0.01
29 1 0.00
31 1 0.00
32 2 0.01
33 73 0.33
34 26 0.12
36 2 0.01
37 6 0.03
38 4 0.02
39 5 0.02
40 1 0.00
41 15 0.07
42 43 0.20
43 18 0.08
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.21
Consensus pattern (33 bp):
TCGGGGAATCAGCACTTAGCAACCACCAATGAT
Found at i:52545455 original size:76 final size:75
Alignment explanation
Indices: 52545329--52545540 Score: 352
Period size: 76 Copynumber: 2.8 Consensus size: 75
52545319 TATCCGTTAT
* * *
52545329 CGGTGGATTCAGCACTTAGCAACCACCAGTGATTCGGGGAATCAGCACTTAGCAACCCCTTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCAC
52545394 ATTCAATGATA
66 ATTCAA-GATA
*
52545405 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCATTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCAC
*
52545470 ATTTAAGATA
66 ATTCAAGATA
* *
52545480 CGGTGGGATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAACACTTAGCAACCCCTT
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTT
52545541 GGGGGAATCG
Statistics
Matches: 128, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
75 62 0.48
76 66 0.52
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.21
Consensus pattern (75 bp):
CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCAC
ATTCAAGATA
Found at i:52545564 original size:102 final size:102
Alignment explanation
Indices: 52545440--52545640 Score: 348
Period size: 102 Copynumber: 2.0 Consensus size: 102
52545430 CCAATGAATC
* * *
52545440 GGGGAATCAGCACTTAGCAACCCATTTCACATTTAAGATACGGTGGGATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCACTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
52545505 CCAATGAATCGGGGAATCAACACTTAGCAACCCCTTG
66 CCAATGAATCGGGGAATCAACACTTAGCAACCCCTTG
* *
52545542 GGGGAATCGGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCACTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
*
52545607 CCAATGAATCGGGGAATCAGCACTTAGCAACCCC
66 CCAATGAATCGGGGAATCAACACTTAGCAACCCC
52545641 CTTTATATTC
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
102 93 1.00
ACGTcount: A:0.32, C:0.28, G:0.20, T:0.19
Consensus pattern (102 bp):
GGGGAATCAGCACTTAGCAACCCACTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
CCAATGAATCGGGGAATCAACACTTAGCAACCCCTTG
Found at i:52547299 original size:26 final size:26
Alignment explanation
Indices: 52547242--52547314 Score: 76
Period size: 26 Copynumber: 2.8 Consensus size: 26
52547232 CACGTTATTT
* * *
52547242 GGCTCTTTCTAAGCTTCCTAATTAAA
1 GGCTCTTTGTGAGCTTCCTGATTAAA
*
52547268 GGCTCTTTGTGAGCTTCCTGATTAAT
1 GGCTCTTTGTGAGCTTCCTGATTAAA
* * *
52547294 GTCTCTTCG-GAGTTTCCTGAT
1 GGCTCTTTGTGAGCTTCCTGAT
52547315 ATGGCTCGCT
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
25 11 0.28
26 29 0.73
ACGTcount: A:0.18, C:0.22, G:0.19, T:0.41
Consensus pattern (26 bp):
GGCTCTTTGTGAGCTTCCTGATTAAA
Found at i:52547357 original size:25 final size:25
Alignment explanation
Indices: 52547278--52547379 Score: 79
Period size: 25 Copynumber: 4.2 Consensus size: 25
52547268 GGCTCTTTGT
52547278 GAGCTTCCTGAT-TAATGTCTCTTCG
1 GAGCTTCCTGATAT-ATGTCTCTTCG
* * *
52547303 GAGTTTCCTGATAT-GGCTCGCTT--
1 GAGCTTCCTGATATATG-TCTCTTCG
* *
52547326 GAACTTCCTGATATATGTCTATTCG
1 GAGCTTCCTGATATATGTCTCTTCG
* * *
52547351 GAGCTTCCCGTTA-ATGGCTCTTCG
1 GAGCTTCCTGATATATGTCTCTTCG
52547375 GAGCT
1 GAGCT
52547380 ACCCATCATT
Statistics
Matches: 59, Mismatches: 13, Indels: 11
0.71 0.16 0.13
Matches are distributed among these distances:
23 16 0.27
24 16 0.27
25 26 0.44
26 1 0.02
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.37
Consensus pattern (25 bp):
GAGCTTCCTGATATATGTCTCTTCG
Found at i:52547392 original size:24 final size:24
Alignment explanation
Indices: 52547347--52547394 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
52547337 TATATGTCTA
* * *
52547347 TTCGGAGCTTCCCGTTAATGGCTC
1 TTCGGAGCTACCCATCAATGGCTC
*
52547371 TTCGGAGCTACCCATCATTGGCTC
1 TTCGGAGCTACCCATCAATGGCTC
52547395 GCATGAGCTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.15, C:0.31, G:0.23, T:0.31
Consensus pattern (24 bp):
TTCGGAGCTACCCATCAATGGCTC
Found at i:52549168 original size:26 final size:26
Alignment explanation
Indices: 52549150--52549209 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
52549140 CCCGTTATTT
52549150 GGCTCTTCGTGAGCTTCCCGATTAAA
1 GGCTCTTCGTGAGCTTCCCGATTAAA
* * *
52549176 GGCTCTTTGTGAGCTTCCTGATTAAT
1 GGCTCTTCGTGAGCTTCCCGATTAAA
52549202 GGCTCTTC
1 GGCTCTTC
52549210 AGAGTTTTCC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.15, C:0.25, G:0.23, T:0.37
Consensus pattern (26 bp):
GGCTCTTCGTGAGCTTCCCGATTAAA
Found at i:52551397 original size:14 final size:14
Alignment explanation
Indices: 52551380--52551408 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
52551370 TATACATCAA
52551380 AACATACCATCACT
1 AACATACCATCACT
52551394 AACATACCATCACT
1 AACATACCATCACT
52551408 A
1 A
52551409 GCCATTCCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.34, G:0.00, T:0.21
Consensus pattern (14 bp):
AACATACCATCACT
Found at i:52552575 original size:27 final size:27
Alignment explanation
Indices: 52552535--52553164 Score: 695
Period size: 27 Copynumber: 23.3 Consensus size: 27
52552525 AATCGGCCTC
* *
52552535 TAAAATGA-CTGAAATACCCTCGATGGA
1 TAAAATGATC-GAAATACCCTCGAAGGG
* * *
52552562 TAAAATTATCGAAATACCCTTGATGGG
1 TAAAATGATCGAAATACCCTCGAAGGG
* *
52552589 TAAAATGATCGAAATACCATCAAAGGG
1 TAAAATGATCGAAATACCCTCGAAGGG
52552616 TAAAATGA-CTGAAATACCCTCGAAGGG
1 TAAAATGATC-GAAATACCCTCGAAGGG
*
52552643 TAAAATGATCGAAATACCCTTGAAGGG
1 TAAAATGATCGAAATACCCTCGAAGGG
*
52552670 TAAAATGATCGAAATACCC-CTGTAGGG
1 TAAAATGATCGAAATACCCTC-GAAGGG
* *
52552697 TAAAATGATCGAAAGACCCTCGAAGGA
1 TAAAATGATCGAAATACCCTCGAAGGG
52552724 TAAAATGA-CGAAAATACCCTCGAAGGG
1 TAAAATGATCG-AAATACCCTCGAAGGG
* * *
52552751 TAAAATGACCGAAATACCCCCAAAGGG
1 TAAAATGATCGAAATACCCTCGAAGGG
*
52552778 TAAAATGATCGAAATACCCTTGAAGGG
1 TAAAATGATCGAAATACCCTCGAAGGG
* * * **
52552805 TAAAATGAACGAAATACTCTCAAAATG
1 TAAAATGATCGAAATACCCTCGAAGGG
52552832 TAAAATGATCGAAATACCCTCGAAGGG
1 TAAAATGATCGAAATACCCTCGAAGGG
*
52552859 TAAAAT-AACTGAAATACTCCT-GAAGGG
1 TAAAATGATC-GAAATAC-CCTCGAAGGG
52552886 TAAAATGA-CTGAAATACCCTCGAAGGG
1 TAAAATGATC-GAAATACCCTCGAAGGG
52552913 TAAAATGATCGAAATACCCTCGAAGGG
1 TAAAATGATCGAAATACCCTCGAAGGG
* *
52552940 TAAAATGACCGAAATACCCCCGAAGGG
1 TAAAATGATCGAAATACCCTCGAAGGG
52552967 TAAAATGATCGAAATACTCC-CGAAGGG
1 TAAAATGATCGAAATAC-CCTCGAAGGG
*
52552994 TAAAATGACCGAAATACCCTCGATA-GG
1 TAAAATGATCGAAATACCCTCGA-AGGG
* * * *
52553021 TAAACTGAACGAAATACCCTTTGATGGG
1 TAAAATGATCGAAATACCC-TCGAAGGG
* * * *
52553049 TAAATTTATTGAAATACCCTCGATGGG
1 TAAAATGATCGAAATACCCTCGAAGGG
* ** * *
52553076 TAAAATTATTAAAATACCCCCGAAAGG
1 TAAAATGATCGAAATACCCTCGAAGGG
*
52553103 TAAAATGA-CTGAAATACCCTCGATGGG
1 TAAAATGATC-GAAATACCCTCGAAGGG
* * * * * *
52553130 TAAAATTATTGAAATATCCTTGTATGG
1 TAAAATGATCGAAATACCCTCGAAGGG
52553157 TAAAATGA
1 TAAAATGA
52553165 CCGTTATACC
Statistics
Matches: 516, Mismatches: 68, Indels: 38
0.83 0.11 0.06
Matches are distributed among these distances:
26 10 0.02
27 473 0.92
28 33 0.06
ACGTcount: A:0.42, C:0.17, G:0.20, T:0.21
Consensus pattern (27 bp):
TAAAATGATCGAAATACCCTCGAAGGG
Found at i:52553395 original size:26 final size:26
Alignment explanation
Indices: 52553364--52553460 Score: 106
Period size: 26 Copynumber: 3.7 Consensus size: 26
52553354 CAAATATTGT
*
52553364 TACTGGCAGCTTTGTTGCGTTACTGA
1 TACTGGCAGCTTTGCTGCGTTACTGA
* * * * *
52553390 TACTGGCAACTCTGTTGCATTACTGT
1 TACTGGCAGCTTTGCTGCGTTACTGA
* *
52553416 TATTGGCAGCTTTGCTGTGTTACT-A
1 TACTGGCAGCTTTGCTGCGTTACTGA
52553441 TTACTGGCAGCTTTGCTGCG
1 -TACTGGCAGCTTTGCTGCG
52553461 ATATTGGTGT
Statistics
Matches: 57, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
26 57 1.00
ACGTcount: A:0.15, C:0.21, G:0.25, T:0.39
Consensus pattern (26 bp):
TACTGGCAGCTTTGCTGCGTTACTGA
Found at i:52553605 original size:30 final size:30
Alignment explanation
Indices: 52553571--52553683 Score: 172
Period size: 30 Copynumber: 3.8 Consensus size: 30
52553561 ATTTGCACTA
52553571 TTACTGTATTGGGCTAAGGCCCACACTCTG
1 TTACTGTATTGGGCTAAGGCCCACACTCTG
52553601 TTACTGTATTGGGCTAAGGCCCACACTCTG
1 TTACTGTATTGGGCTAAGGCCCACACTCTG
* **
52553631 TTACTGTATTGGGCTATGGCCCACACAGTG
1 TTACTGTATTGGGCTAAGGCCCACACTCTG
* * *
52553661 CTACTGTATAGGGCTCAGGCCCA
1 TTACTGTATTGGGCTAAGGCCCA
52553684 GACTGATTCT
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 76 1.00
ACGTcount: A:0.20, C:0.27, G:0.25, T:0.28
Consensus pattern (30 bp):
TTACTGTATTGGGCTAAGGCCCACACTCTG
Found at i:52554823 original size:25 final size:25
Alignment explanation
Indices: 52554795--52554842 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
52554785 CAAGCGAACC
52554795 ATATCAAGA-AGCTCACAAAGAGCCT
1 ATATCAAGACA-CTCACAAAGAGCCT
* *
52554820 ATATCAGGACACTCATAAAGAGC
1 ATATCAAGACACTCACAAAGAGC
52554843 TGTGGTATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 19 0.95
26 1 0.05
ACGTcount: A:0.44, C:0.23, G:0.17, T:0.17
Consensus pattern (25 bp):
ATATCAAGACACTCACAAAGAGCCT
Found at i:52561831 original size:25 final size:24
Alignment explanation
Indices: 52561798--52561849 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
52561788 TGTTCAAGCT
52561798 AGCCATATCAAGA-AGCTCACAAAG
1 AGCCATATCAAGACA-CTCACAAAG
* *
52561822 AGCCTATATCAGGACACTCATAAAG
1 AGCC-ATATCAAGACACTCACAAAG
52561847 AGC
1 AGC
52561850 TGTAGTATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 4 0.17
25 19 0.79
26 1 0.04
ACGTcount: A:0.42, C:0.25, G:0.17, T:0.15
Consensus pattern (24 bp):
AGCCATATCAAGACACTCACAAAG
Found at i:52575865 original size:28 final size:28
Alignment explanation
Indices: 52575809--52575870 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
52575799 CCTGCAAAGA
* ***
52575809 CATCTCGCACTTCACCATTTCGTGGTGT
1 CATCTCGCACTTCACCACTTCGCAATGT
52575837 CATCTCGCACTTCACCACTTCGCAATGT
1 CATCTCGCACTTCACCACTTCGCAATGT
52575865 CATCTC
1 CATCTC
52575871 ACAGCTCACC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.18, C:0.37, G:0.13, T:0.32
Consensus pattern (28 bp):
CATCTCGCACTTCACCACTTCGCAATGT
Found at i:52575945 original size:27 final size:27
Alignment explanation
Indices: 52575907--52575986 Score: 115
Period size: 27 Copynumber: 3.0 Consensus size: 27
52575897 TTGCAGTTCA
52575907 TCTCACAGCTTGCCACTTGTGGAGACT
1 TCTCACAGCTTGCCACTTGTGGAGACT
*
52575934 TCTCACAGCTTGCCACTTGTGAAGACT
1 TCTCACAGCTTGCCACTTGTGGAGACT
* * * *
52575961 TCTCGCAGCTCGTCACTTGTAGAGAC
1 TCTCACAGCTTGCCACTTGTGGAGAC
52575987 ATCTTGCAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.20, C:0.30, G:0.21, T:0.29
Consensus pattern (27 bp):
TCTCACAGCTTGCCACTTGTGGAGACT
Found at i:52586290 original size:39 final size:42
Alignment explanation
Indices: 52586235--52586350 Score: 120
Period size: 41 Copynumber: 2.9 Consensus size: 42
52586225 ATCAACATTT
*
52586235 AATTAATTTTTAAAAATTTTAAAAATTCA-AAAA-A-ATAAAA
1 AATT-ATTTTTAAAAATTTTAAAAATTCATAAAATATAAAAAA
52586275 AATTATTTTTAAAAA--TTAAAAA-TCATTAAAATTATAAAAAA
1 AATTATTTTTAAAAATTTTAAAAATTCA-TAAAA-TATAAAAAA
* * *
52586316 AAATATTTTT-AAAATTTTAAAAATTAATTAAATAT
1 AATTATTTTTAAAAATTTTAAAAATTCATAAAATAT
52586351 TAACATCTCA
Statistics
Matches: 64, Mismatches: 4, Indels: 15
0.77 0.05 0.18
Matches are distributed among these distances:
36 3 0.05
37 7 0.11
38 4 0.06
39 11 0.17
40 9 0.14
41 17 0.27
42 11 0.17
43 2 0.03
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (42 bp):
AATTATTTTTAAAAATTTTAAAAATTCATAAAATATAAAAAA
Found at i:52592931 original size:24 final size:25
Alignment explanation
Indices: 52592903--52592959 Score: 80
Period size: 24 Copynumber: 2.3 Consensus size: 25
52592893 ATTTCCCTTT
* *
52592903 ACCTTTCACCTTTCATCTT-TTTTA
1 ACCTTTCACCTTTCATCTTCCTTAA
*
52592927 ACCTTTAACCTTTCATCTTCCTTAA
1 ACCTTTCACCTTTCATCTTCCTTAA
52592952 ACCTTTCA
1 ACCTTTCA
52592960 TCTCCTTGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 18 0.64
25 10 0.36
ACGTcount: A:0.21, C:0.32, G:0.00, T:0.47
Consensus pattern (25 bp):
ACCTTTCACCTTTCATCTTCCTTAA
Found at i:52592972 original size:18 final size:18
Alignment explanation
Indices: 52592928--52592972 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
52592918 TCTTTTTTAA
52592928 CCTTTAACCTTTCATCTT
1 CCTTTAACCTTTCATCTT
*
52592946 CCTTAAACCTTTCATC-T
1 CCTTTAACCTTTCATCTT
52592963 CCTTGTAACC
1 CCTT-TAACC
52592973 CCTTTTTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 5 0.21
18 19 0.79
ACGTcount: A:0.20, C:0.36, G:0.02, T:0.42
Consensus pattern (18 bp):
CCTTTAACCTTTCATCTT
Found at i:52602692 original size:22 final size:21
Alignment explanation
Indices: 52602652--52602693 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
52602642 CAATTATCAT
*
52602652 TCAACCAAAAACTCACCTAAA
1 TCAACCAAAAACTAACCTAAA
52602673 TCAACCAAAAACTAAGCCTAA
1 TCAACCAAAAACTAA-CCTAA
52602694 GCTATATTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.52, C:0.31, G:0.02, T:0.14
Consensus pattern (21 bp):
TCAACCAAAAACTAACCTAAA
Found at i:52603921 original size:28 final size:28
Alignment explanation
Indices: 52603885--52604165 Score: 103
Period size: 29 Copynumber: 10.0 Consensus size: 28
52603875 GTCTGCCTAT
*
52603885 GGCATTCCTTTAACAGAGATGGCCACAAA
1 GGCA-TCCTTTAACAGAGATAGCCACAAA
* * *
52603914 GGCATCCTTTTGACTGAGATAGCCATAAA
1 GGCATCC-TTTAACAGAGATAGCCACAAA
* * * *
52603943 GACATCCTTTTGACAGAGGTTGCC-CTAAAA
1 GGCATCC-TTTAACAGAGATAGCCAC--AAA
* * * *
52603973 TG-ATTCATTTAACTGAGAAAGCCACAAA
1 GGCA-TCCTTTAACAGAGATAGCCACAAA
** * * *
52604001 GATATTCGTTTAAAAAAGATAGCCACAAA
1 GGCA-TCCTTTAACAGAGATAGCCACAAA
* * * * *
52604030 TGCAGCCTTTTAACAAAGATGGCTACAAA
1 GGCATCC-TTTAACAGAGATAGCCACAAA
* * * *
52604059 GGCTTTCTTATAACAGAGATCGACACAAA
1 GGCATCCTT-TAACAGAGATAGCCACAAA
** * * *
52604088 GGTTTCCATT--CAGAGATAACTACAAA
1 GGCATCCTTTAACAGAGATAGCCACAAA
*
52604114 GGCTTCCATTT---AGAGATAGCCACAAA
1 GGCATCC-TTTAACAGAGATAGCCACAAA
* *
52604140 GGCTTCCTTT--TAGAGATAGCCACAAA
1 GGCATCCTTTAACAGAGATAGCCACAAA
52604166 AGTGTCTATT
Statistics
Matches: 191, Mismatches: 51, Indels: 23
0.72 0.19 0.09
Matches are distributed among these distances:
25 3 0.02
26 53 0.28
27 2 0.01
28 10 0.05
29 117 0.61
30 6 0.03
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.25
Consensus pattern (28 bp):
GGCATCCTTTAACAGAGATAGCCACAAA
Found at i:52604112 original size:26 final size:26
Alignment explanation
Indices: 52604082--52604196 Score: 115
Period size: 26 Copynumber: 4.4 Consensus size: 26
52604072 CAGAGATCGA
*
52604082 CACAAAGGTTTCCATTCAGAGATAAC
1 CACAAAGGCTTCCATTCAGAGATAAC
* * *
52604108 TACAAAGGCTTCCATTTAGAGATAGC
1 CACAAAGGCTTCCATTCAGAGATAAC
* * *
52604134 CACAAAGGCTTCCTTTTAGAGATAGC
1 CACAAAGGCTTCCATTCAGAGATAAC
* *
52604160 CACAAAAG-TGTCTATTCAGAGATAAC
1 CACAAAGGCT-TCCATTCAGAGATAAC
* *
52604186 CATAAAAGCTT
1 CACAAAGGCTT
52604197 ACTTATACGA
Statistics
Matches: 75, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
25 1 0.01
26 73 0.97
27 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (26 bp):
CACAAAGGCTTCCATTCAGAGATAAC
Found at i:52606778 original size:25 final size:25
Alignment explanation
Indices: 52606750--52606808 Score: 118
Period size: 25 Copynumber: 2.4 Consensus size: 25
52606740 TGAGCGTCCC
52606750 GATATAGGCCCTTTATGGGTTTCCT
1 GATATAGGCCCTTTATGGGTTTCCT
52606775 GATATAGGCCCTTTATGGGTTTCCT
1 GATATAGGCCCTTTATGGGTTTCCT
52606800 GATATAGGC
1 GATATAGGC
52606809 TCGCTTGAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.37
Consensus pattern (25 bp):
GATATAGGCCCTTTATGGGTTTCCT
Found at i:52612890 original size:22 final size:22
Alignment explanation
Indices: 52612849--52612891 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
52612839 TATCCAAACA
*
52612849 ATAATAACAAAATAGTAGCAAT
1 ATAATAACAAAATAGCAGCAAT
52612871 ATAATAACAAAAT-GACAGCAA
1 ATAATAACAAAATAG-CAGCAA
52612892 AACAATGGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.60, C:0.12, G:0.09, T:0.19
Consensus pattern (22 bp):
ATAATAACAAAATAGCAGCAAT
Found at i:52614542 original size:14 final size:14
Alignment explanation
Indices: 52614507--52614545 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
52614497 CTCCAAACTG
*
52614507 AGGACTTAACACTA
1 AGGACTTAACTCTA
52614521 AGGACTTAACTCTA
1 AGGACTTAACTCTA
52614535 A-GAGCTTAACT
1 AGGA-CTTAACT
52614546 TTAAAGATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 2 0.09
14 21 0.91
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (14 bp):
AGGACTTAACTCTA
Found at i:52615003 original size:16 final size:17
Alignment explanation
Indices: 52614982--52615019 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
52614972 GTTTCTTATG
* *
52614982 ATATAAATTACATAAT-
1 ATATAAAATAAATAATA
52614998 ATATAAAATAAATAATA
1 ATATAAAATAAATAATA
52615015 ATATA
1 ATATA
52615020 CTAAAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (17 bp):
ATATAAAATAAATAATA
Found at i:52615027 original size:21 final size:21
Alignment explanation
Indices: 52614984--52615025 Score: 61
Period size: 19 Copynumber: 2.0 Consensus size: 21
52614974 TTCTTATGAT
52614984 ATAAATTACATAATATATAAA
1 ATAAATTACATAATATATAAA
52615005 ATAAA-TA-ATAATATACTAAA
1 ATAAATTACATAATATA-TAAA
52615025 A
1 A
52615026 ATTTGAAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 8 0.40
20 7 0.35
21 5 0.25
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAAATTACATAATATATAAA
Found at i:52622162 original size:18 final size:18
Alignment explanation
Indices: 52622139--52622175 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
52622129 ATAAAAATTA
52622139 TAAAAATTGGGTAAAAAAT
1 TAAAAATT-GGTAAAAAAT
*
52622158 TAAAAATTGTTAAAAAAT
1 TAAAAATTGGTAAAAAAT
52622176 ATGTTTCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.59, C:0.00, G:0.11, T:0.30
Consensus pattern (18 bp):
TAAAAATTGGTAAAAAAT
Found at i:52622163 original size:9 final size:9
Alignment explanation
Indices: 52622117--52622146 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
52622107 TAAAAATTAG
52622117 TTATAAGAAA
1 TTATAA-AAA
52622127 TTATAAAAA
1 TTATAAAAA
52622136 TTATAAAAA
1 TTATAAAAA
52622145 TT
1 TT
52622147 GGGTAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 14 0.70
10 6 0.30
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (9 bp):
TTATAAAAA
Found at i:52623433 original size:33 final size:33
Alignment explanation
Indices: 52623396--52623567 Score: 99
Period size: 33 Copynumber: 5.2 Consensus size: 33
52623386 TTTACCAAAG
*
52623396 TATGTTATGTATATTACTGTTATGTATGTCTAT
1 TATGTTATGTATATTACTGTTATGTATGTATAT
* *
52623429 TATGTTTAATGTATGTCTA-TAATGTATGTTATGTATAT
1 TATG-TT-ATGTATAT-TACT-GT-TATG-TATGTATAT
* * *
52623467 TATTGTTATGTATGA-GACTATTATGT-GGTATAT
1 TA-TGTTATGTAT-ATTACTGTTATGTATGTATAT
* * * *
52623500 TACTTTTATG-CT-TCA-TG-TATGTATAT-TAT
1 TA-TGTTATGTATATTACTGTTATGTATGTATAT
*
52623529 GTATGTTATGTATATTACTGTTATGTATGTATGT
1 -TATGTTATGTATATTACTGTTATGTATGTATAT
52623563 TATGT
1 TATGT
52623568 GATATATTTG
Statistics
Matches: 104, Mismatches: 18, Indels: 34
0.67 0.12 0.22
Matches are distributed among these distances:
29 14 0.13
30 5 0.05
31 3 0.03
32 3 0.03
33 31 0.30
34 5 0.05
35 12 0.12
36 6 0.06
37 11 0.11
38 12 0.12
39 2 0.02
ACGTcount: A:0.26, C:0.05, G:0.17, T:0.53
Consensus pattern (33 bp):
TATGTTATGTATATTACTGTTATGTATGTATAT
Found at i:52623531 original size:9 final size:9
Alignment explanation
Indices: 52623517--52623572 Score: 60
Period size: 9 Copynumber: 6.0 Consensus size: 9
52623507 ATGCTTCATG
52623517 TATGTATAT
1 TATGTATAT
*
52623526 TATGTATGT
1 TATGTATAT
52623535 TATGTATAT
1 TATGTATAT
52623544 TACTGT-TAT
1 TA-TGTATAT
*
52623553 GTATGTATGT
1 -TATGTATAT
52623563 TATGTGATAT
1 TATGT-ATAT
52623573 ATTTGTAACA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
9 29 0.74
10 10 0.26
ACGTcount: A:0.27, C:0.02, G:0.18, T:0.54
Consensus pattern (9 bp):
TATGTATAT
Found at i:52624177 original size:19 final size:20
Alignment explanation
Indices: 52624153--52624194 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
52624143 CATTATTTAA
*
52624153 TTTATGAGA-TTTTTTAAGT
1 TTTATGAGAGTTTTGTAAGT
*
52624172 TTTATGATAGTTTTGTAAGT
1 TTTATGAGAGTTTTGTAAGT
52624192 TTT
1 TTT
52624195 GTAGTTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.24, C:0.00, G:0.17, T:0.60
Consensus pattern (20 bp):
TTTATGAGAGTTTTGTAAGT
Found at i:52626340 original size:29 final size:29
Alignment explanation
Indices: 52626306--52626365 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
52626296 GTTTATGTAA
*
52626306 GTATATTATGTATGTTATGTTTAATGCAT
1 GTATATTATGTATGTTATATTTAATGCAT
*
52626335 GTATATTATGTATGTTATATTTAATGTAT
1 GTATATTATGTATGTTATATTTAATGCAT
52626364 GT
1 GT
52626366 TATGTTTAGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.02, G:0.17, T:0.53
Consensus pattern (29 bp):
GTATATTATGTATGTTATATTTAATGCAT
Found at i:52626363 original size:16 final size:16
Alignment explanation
Indices: 52626313--52626373 Score: 74
Period size: 16 Copynumber: 4.0 Consensus size: 16
52626303 TAAGTATATT
*
52626313 ATGTATGTTATGTTTA
1 ATGTATGTTATATTTA
*
52626329 ATGCATG-TATA-TT-
1 ATGTATGTTATATTTA
52626342 ATGTATGTTATATTTA
1 ATGTATGTTATATTTA
*
52626358 ATGTATGTTATGTTTA
1 ATGTATGTTATATTTA
52626374 GCACTGTTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
13 6 0.16
14 6 0.16
15 5 0.13
16 21 0.55
ACGTcount: A:0.28, C:0.02, G:0.16, T:0.54
Consensus pattern (16 bp):
ATGTATGTTATATTTA
Found at i:52632243 original size:24 final size:24
Alignment explanation
Indices: 52632198--52632244 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
52632188 ATTGGAATAG
** *
52632198 CTCCAATAGCTCCTTTTTCACCAA
1 CTCCAATAGCTCCTACTCCACCAA
*
52632222 CTCCAGTAGCTCCTACTCCACCA
1 CTCCAATAGCTCCTACTCCACCA
52632245 GCCCCAACAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.23, C:0.43, G:0.06, T:0.28
Consensus pattern (24 bp):
CTCCAATAGCTCCTACTCCACCAA
Found at i:52636476 original size:21 final size:21
Alignment explanation
Indices: 52636452--52636511 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 21
52636442 TCATTAAGCT
*
52636452 CTTATGAGCTTCCGTTCAACC
1 CTTATGAGCTTCCGTTCAACA
* * * * *
52636473 CTTATGGGTTTCTGTTTAGCA
1 CTTATGAGCTTCCGTTCAACA
*
52636494 CTTATGTGCTTCCGTTCA
1 CTTATGAGCTTCCGTTCA
52636512 GCCTTCGGGC
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.15, C:0.25, G:0.18, T:0.42
Consensus pattern (21 bp):
CTTATGAGCTTCCGTTCAACA
Found at i:52636498 original size:42 final size:42
Alignment explanation
Indices: 52636373--52636511 Score: 136
Period size: 42 Copynumber: 3.3 Consensus size: 42
52636363 TAGTTCTCAC
* * * * * * *
52636373 GAGCTTCTGTTAAACTCATATGAGTTTCTGTTCAGCTCTTTT
1 GAGCTTCCGTTCAACCCTTATGGGTTTCTGTTAAGCTCTTAT
* * * *
52636415 GAGCTTCTGTTTAACCCTTATAGGTTT-TCATTAAGCTCTTAT
1 GAGCTTCCGTTCAACCCTTATGGGTTTCT-GTTAAGCTCTTAT
* *
52636457 GAGCTTCCGTTCAACCCTTATGGGTTTCTGTTTAGCACTTAT
1 GAGCTTCCGTTCAACCCTTATGGGTTTCTGTTAAGCTCTTAT
*
52636499 GTGCTTCCGTTCA
1 GAGCTTCCGTTCA
52636512 GCCTTCGGGC
Statistics
Matches: 80, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
41 1 0.01
42 78 0.98
43 1 0.01
ACGTcount: A:0.18, C:0.22, G:0.17, T:0.43
Consensus pattern (42 bp):
GAGCTTCCGTTCAACCCTTATGGGTTTCTGTTAAGCTCTTAT
Found at i:52644108 original size:42 final size:42
Alignment explanation
Indices: 52644062--52644194 Score: 158
Period size: 42 Copynumber: 3.2 Consensus size: 42
52644052 TAGCTCGCAC
* * * * *
52644062 GAGCTTCTGTTAAACTCATATGAGTTTTTGTTCAGCTCTTTT
1 GAGCTTCTGTTAAACCCTTATGGGTTTTTGTTAAGCTCTTAT
* **
52644104 GAGCTTCTGTTTAACCCTTATGGGTTTTCATTAAGCTCTTAT
1 GAGCTTCTGTTAAACCCTTATGGGTTTTTGTTAAGCTCTTAT
* * *
52644146 GAGCTTCTATTAAACCCTTATGGGTTTTTGTTTAGCACTTAT
1 GAGCTTCTGTTAAACCCTTATGGGTTTTTGTTAAGCTCTTAT
*
52644188 GTGCTTC
1 GAGCTTC
52644195 CGTTCAGCCT
Statistics
Matches: 76, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 76 1.00
ACGTcount: A:0.19, C:0.18, G:0.17, T:0.46
Consensus pattern (42 bp):
GAGCTTCTGTTAAACCCTTATGGGTTTTTGTTAAGCTCTTAT
Found at i:52644114 original size:21 final size:21
Alignment explanation
Indices: 52644062--52644114 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
52644052 TAGCTCGCAC
52644062 GAGCTTCTGTTAAACTCATAT
1 GAGCTTCTGTTAAACTCATAT
* * * * * *
52644083 GAGTTTTTGTTCAGCTCTTTT
1 GAGCTTCTGTTAAACTCATAT
52644104 GAGCTTCTGTT
1 GAGCTTCTGTT
52644115 TAACCCTTAT
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.17, C:0.17, G:0.19, T:0.47
Consensus pattern (21 bp):
GAGCTTCTGTTAAACTCATAT
Found at i:52644144 original size:21 final size:22
Alignment explanation
Indices: 52644116--52644173 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
52644106 GCTTCTGTTT
52644116 AACCCTTATGGGTTTTC-ATTA
1 AACCCTTATGGGTTTTCTATTA
* * * *
52644137 AGCTCTTATGAG-CTTCTATTA
1 AACCCTTATGGGTTTTCTATTA
52644158 AACCCTTATGGGTTTT
1 AACCCTTATGGGTTTT
52644174 TGTTTAGCAC
Statistics
Matches: 27, Mismatches: 8, Indels: 3
0.71 0.21 0.08
Matches are distributed among these distances:
20 3 0.11
21 22 0.81
22 2 0.07
ACGTcount: A:0.22, C:0.19, G:0.16, T:0.43
Consensus pattern (22 bp):
AACCCTTATGGGTTTTCTATTA
Found at i:52646935 original size:31 final size:31
Alignment explanation
Indices: 52646874--52646950 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 31
52646864 AAAAATATTT
* *
52646874 TTTAAATGACTAAAATAAGAACTACCTAAAA
1 TTTAAATAACTAAAATAAGAAATACCTAAAA
*
52646905 TTTAAATAACTAAAATAA-AAATACATTAAAA
1 TTTAAATAACTAAAATAAGAAATAC-CTAAAA
* *
52646936 GTTAAATTAC-AAAAT
1 TTTAAATAACTAAAAT
52646951 TACAAAGATT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
30 10 0.25
31 30 0.75
ACGTcount: A:0.58, C:0.09, G:0.04, T:0.29
Consensus pattern (31 bp):
TTTAAATAACTAAAATAAGAAATACCTAAAA
Found at i:52657791 original size:2 final size:2
Alignment explanation
Indices: 52657786--52657811 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
52657776 AAGGTAAACT
52657786 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
52657812 AAGACCATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:52660462 original size:15 final size:16
Alignment explanation
Indices: 52660405--52660469 Score: 68
Period size: 14 Copynumber: 4.3 Consensus size: 16
52660395 AAAGCTCATT
*
52660405 TCTCATCATCC-ATCA
1 TCTCATCATCCTCTCA
52660420 TC-CATCATCC-CTCA
1 TCTCATCATCCTCTCA
*
52660434 TCTCATTATCCCTCTCA
1 TCTCATCAT-CCTCTCA
52660451 TCTC-TCATCCTCTC-
1 TCTCATCATCCTCTCA
52660465 TCTCA
1 TCTCA
52660470 ACTCTCTTAG
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
14 17 0.40
15 13 0.30
16 5 0.12
17 8 0.19
ACGTcount: A:0.18, C:0.45, G:0.00, T:0.37
Consensus pattern (16 bp):
TCTCATCATCCTCTCA
Found at i:52667094 original size:20 final size:20
Alignment explanation
Indices: 52667069--52667106 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
52667059 ATTTTTCTAG
52667069 TTTAAATTATTT-TGTTAAAT
1 TTTAAATT-TTTATGTTAAAT
52667089 TTTAAATTTTTATGTTAA
1 TTTAAATTTTTATGTTAA
52667107 TAAAGGGGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (20 bp):
TTTAAATTTTTATGTTAAAT
Found at i:52668825 original size:23 final size:22
Alignment explanation
Indices: 52668799--52668846 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
52668789 ATTTATTTAA
*
52668799 TTATTT-TTTAGGTATTTAGGAAT
1 TTATTTATTTA-GTAATTAGG-AT
52668822 TTATTTATTTAGTAATTAGGAT
1 TTATTTATTTAGTAATTAGGAT
52668844 TTA
1 TTA
52668847 ATCTTTGCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 5 0.22
23 14 0.61
24 4 0.17
ACGTcount: A:0.29, C:0.00, G:0.15, T:0.56
Consensus pattern (22 bp):
TTATTTATTTAGTAATTAGGAT
Found at i:52670996 original size:7 final size:7
Alignment explanation
Indices: 52670986--52671022 Score: 56
Period size: 7 Copynumber: 5.1 Consensus size: 7
52670976 GTTCATTTCT
52670986 CATCATC
1 CATCATC
52670993 CATCATC
1 CATCATC
52671000 CATCATC
1 CATCATC
*
52671007 CCTCATC
1 CATCATC
52671014 TCATCATC
1 -CATCATC
52671022 C
1 C
52671023 CTCTCATCTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
7 21 0.78
8 6 0.22
ACGTcount: A:0.24, C:0.46, G:0.00, T:0.30
Consensus pattern (7 bp):
CATCATC
Found at i:52671031 original size:17 final size:15
Alignment explanation
Indices: 52670983--52671047 Score: 73
Period size: 14 Copynumber: 4.3 Consensus size: 15
52670973 AGAGTTCATT
*
52670983 TCTCATCATCCATCA
1 TCTCATCATCCCTCA
52670998 TC-CATCATCCCTCA
1 TCTCATCATCCCTCA
52671012 TCTCATCATCCCTCTCA
1 TCTCATCAT-CC-CTCA
52671029 TCTC-TCATCCTCTC-
1 TCTCATCATCC-CTCA
52671043 TCTCA
1 TCTCA
52671048 ACTCTCTTAG
Statistics
Matches: 45, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
14 17 0.38
15 14 0.31
16 6 0.13
17 8 0.18
ACGTcount: A:0.18, C:0.46, G:0.00, T:0.35
Consensus pattern (15 bp):
TCTCATCATCCCTCA
Found at i:52671034 original size:19 final size:19
Alignment explanation
Indices: 52671012--52671053 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
52671002 TCATCCCTCA
*
52671012 TCTCATCATCCCTCTCATC
1 TCTCATCATCCCTCTCAAC
* *
52671031 TCTCATCCTCTCTCTCAAC
1 TCTCATCATCCCTCTCAAC
52671050 TCTC
1 TCTC
52671054 TTAGCTCTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.14, C:0.48, G:0.00, T:0.38
Consensus pattern (19 bp):
TCTCATCATCCCTCTCAAC
Found at i:52689417 original size:16 final size:16
Alignment explanation
Indices: 52689396--52689429 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
52689386 CTTCAACCTC
*
52689396 TCATTTCCTTCTCATT
1 TCATTTCCTCCTCATT
52689412 TCATTTCCTCCTCATT
1 TCATTTCCTCCTCATT
52689428 TC
1 TC
52689430 CTCTCCGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.35, G:0.00, T:0.53
Consensus pattern (16 bp):
TCATTTCCTCCTCATT
Found at i:52690321 original size:11 final size:11
Alignment explanation
Indices: 52690305--52690337 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
52690295 TTTTTTCTCA
52690305 TATATTGTACT
1 TATATTGTACT
*
52690316 TATATTGTACA
1 TATATTGTACT
52690327 TATATTGTACT
1 TATATTGTACT
52690338 AATTCCTGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.30, C:0.09, G:0.09, T:0.52
Consensus pattern (11 bp):
TATATTGTACT
Found at i:52691497 original size:32 final size:33
Alignment explanation
Indices: 52691461--52691548 Score: 92
Period size: 33 Copynumber: 2.7 Consensus size: 33
52691451 AACTTTTTCG
* *
52691461 GAAAATATTTT-CAGGAAATC-TGCCAAACAGCA
1 GAAAATATTTTACAGCAAATCAT-CCAAACACCA
*
52691493 GAAAATATTTTACA-CAGATTCATCCAAACACCA
1 GAAAATATTTTACAGCA-AATCATCCAAACACCA
* *
52691526 GAAAATATTTTCCAGTAAATCAT
1 GAAAATATTTTACAGCAAATCAT
52691549 TTTACAGAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
32 12 0.26
33 32 0.70
34 2 0.04
ACGTcount: A:0.44, C:0.19, G:0.10, T:0.26
Consensus pattern (33 bp):
GAAAATATTTTACAGCAAATCATCCAAACACCA
Found at i:52691545 original size:14 final size:15
Alignment explanation
Indices: 52691523--52691599 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
52691513 CATCCAAACA
52691523 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
52691537 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
52691552 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
52691572 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
52691586 ACGGAAAA-CATTTT
1 CCAGAAAATCATTTT
52691600 ACTGGCAAAC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 22 0.44
15 14 0.28
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:52691564 original size:20 final size:20
Alignment explanation
Indices: 52691539--52691578 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
52691529 AATATTTTCC
*
52691539 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
52691559 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
52691579 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:52691584 original size:34 final size:35
Alignment explanation
Indices: 52691527--52691593 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
52691517 CAAACACCAG
*
52691527 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
52691562 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
52691594 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:52691600 original size:14 final size:14
Alignment explanation
Indices: 52691562--52691601 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
52691552 ACAGAAAAGT
*
52691562 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
52691576 AAATCATTTTACGG
1 AAAACATTTTACAG
52691590 AAAACATTTTAC
1 AAAACATTTTAC
52691602 TGGCAAACAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:52692784 original size:2 final size:2
Alignment explanation
Indices: 52692777--52692815 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
52692767 TCCTTTGACA
52692777 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
52692816 AACAATACAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:52696919 original size:19 final size:19
Alignment explanation
Indices: 52696891--52696931 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
52696881 TGATTTATTC
52696891 TAAGAGTTATCTACCTAAA
1 TAAGAGTTATCTACCTAAA
*
52696910 TAAGATTTATCTACCTAAA
1 TAAGAGTTATCTACCTAAA
52696929 TAA
1 TAA
52696932 CTTTAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.44, C:0.15, G:0.07, T:0.34
Consensus pattern (19 bp):
TAAGAGTTATCTACCTAAA
Found at i:52697582 original size:49 final size:49
Alignment explanation
Indices: 52697510--52697605 Score: 192
Period size: 49 Copynumber: 2.0 Consensus size: 49
52697500 CCAGGTGAAC
52697510 TCTTCAAGTATCTCAGAATCTGAAACACTGCTTCTTCATGTTCCTCCAT
1 TCTTCAAGTATCTCAGAATCTGAAACACTGCTTCTTCATGTTCCTCCAT
52697559 TCTTCAAGTATCTCAGAATCTGAAACACTGCTTCTTCATGTTCCTCC
1 TCTTCAAGTATCTCAGAATCTGAAACACTGCTTCTTCATGTTCCTCC
52697606 TTTGGGGAGT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.24, C:0.29, G:0.10, T:0.36
Consensus pattern (49 bp):
TCTTCAAGTATCTCAGAATCTGAAACACTGCTTCTTCATGTTCCTCCAT
Found at i:52701209 original size:42 final size:42
Alignment explanation
Indices: 52701150--52701236 Score: 165
Period size: 42 Copynumber: 2.1 Consensus size: 42
52701140 AATCATAATT
52701150 TAATTCAATCATAAATTCCAAACATCATTTAAAAACATATTC
1 TAATTCAATCATAAATTCCAAACATCATTTAAAAACATATTC
*
52701192 TAATTCAATCATCAATTCCAAACATCATTTAAAAACATATTC
1 TAATTCAATCATAAATTCCAAACATCATTTAAAAACATATTC
52701234 TAA
1 TAA
52701237 CTATATATCA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (42 bp):
TAATTCAATCATAAATTCCAAACATCATTTAAAAACATATTC
Done.